Query psy8996
Match_columns 95
No_of_seqs 178 out of 1019
Neff 7.5
Searched_HMMs 46136
Date Sat Aug 17 00:59:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8996.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8996hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1159|consensus 99.9 1.3E-27 2.8E-32 181.5 7.7 88 6-93 1-89 (574)
2 PRK08105 flavodoxin; Provision 99.9 6.6E-25 1.4E-29 146.0 8.8 84 6-92 2-86 (149)
3 PRK09004 FMN-binding protein M 99.9 1.3E-24 2.7E-29 144.2 8.9 81 7-92 3-84 (146)
4 PRK10953 cysJ sulfite reductas 99.9 3.1E-24 6.7E-29 168.1 8.4 85 6-92 62-147 (600)
5 PRK05723 flavodoxin; Provision 99.9 1.1E-23 2.4E-28 140.6 8.3 82 7-92 2-86 (151)
6 TIGR01931 cysJ sulfite reducta 99.9 1.3E-23 2.9E-28 164.4 8.2 86 5-92 58-144 (597)
7 PF00258 Flavodoxin_1: Flavodo 99.8 5.1E-20 1.1E-24 120.0 5.4 83 10-92 1-89 (143)
8 PRK07308 flavodoxin; Validated 99.8 1.7E-18 3.6E-23 114.0 8.7 76 7-82 3-79 (146)
9 PRK12359 flavodoxin FldB; Prov 99.8 3E-18 6.4E-23 116.7 8.4 77 7-84 2-78 (172)
10 PRK06703 flavodoxin; Provision 99.7 6.1E-18 1.3E-22 111.8 8.1 76 7-82 3-79 (151)
11 COG0369 CysJ Sulfite reductase 99.7 2.5E-17 5.5E-22 128.9 7.3 86 5-92 47-133 (587)
12 TIGR01753 flav_short flavodoxi 99.7 9.1E-17 2E-21 103.8 8.6 74 8-81 1-76 (140)
13 PRK09271 flavodoxin; Provision 99.7 6.8E-17 1.5E-21 108.2 8.0 74 7-80 2-80 (160)
14 TIGR01752 flav_long flavodoxin 99.7 1.8E-16 4E-21 106.7 8.0 74 8-82 2-75 (167)
15 COG0716 FldA Flavodoxins [Ener 99.6 8.2E-16 1.8E-20 102.0 8.3 79 6-84 2-81 (151)
16 PRK06756 flavodoxin; Provision 99.6 9.7E-16 2.1E-20 100.9 8.2 75 7-81 3-79 (148)
17 TIGR01754 flav_RNR ribonucleot 99.6 5.1E-16 1.1E-20 101.7 6.7 74 7-80 2-79 (140)
18 PRK09267 flavodoxin FldA; Vali 99.6 1.8E-15 3.8E-20 101.6 7.7 74 7-81 3-76 (169)
19 PRK05568 flavodoxin; Provision 99.5 2.9E-14 6.3E-19 92.9 7.7 75 6-80 2-78 (142)
20 PRK05569 flavodoxin; Provision 99.5 4.3E-14 9.3E-19 92.1 7.9 75 7-81 3-79 (141)
21 TIGR00333 nrdI ribonucleoside- 99.5 1.8E-13 3.8E-18 89.1 6.3 63 10-80 1-63 (125)
22 KOG1158|consensus 99.4 1.6E-13 3.5E-18 108.4 6.2 80 4-84 45-125 (645)
23 PRK11921 metallo-beta-lactamas 99.4 1.4E-12 3E-17 97.9 7.1 80 4-84 246-332 (394)
24 PRK05452 anaerobic nitric oxid 99.3 2.9E-12 6.2E-17 98.7 7.3 79 4-83 250-335 (479)
25 PRK11104 hemG protoporphyrinog 99.3 1.4E-11 3E-16 83.9 7.0 71 7-78 2-72 (177)
26 PRK02551 flavoprotein NrdI; Pr 99.2 1.7E-11 3.6E-16 82.3 5.0 67 6-72 2-75 (154)
27 KOG1160|consensus 99.2 9.8E-11 2.1E-15 89.4 7.7 80 9-92 50-134 (601)
28 PRK06242 flavodoxin; Provision 99.1 9.2E-11 2E-15 76.8 5.3 68 7-79 2-70 (150)
29 TIGR01755 flav_wrbA NAD(P)H:qu 99.1 3.7E-10 8E-15 78.0 6.6 74 7-81 2-97 (197)
30 PRK03767 NAD(P)H:quinone oxido 99.1 5E-10 1.1E-14 77.2 6.6 74 7-81 3-98 (200)
31 PRK03600 nrdI ribonucleotide r 99.0 7.5E-10 1.6E-14 72.7 6.5 65 8-80 3-71 (134)
32 PF12724 Flavodoxin_5: Flavodo 99.0 1.9E-09 4E-14 70.8 6.4 68 10-79 2-70 (143)
33 PF12641 Flavodoxin_3: Flavodo 98.9 3.8E-09 8.3E-14 71.2 6.5 67 10-81 2-68 (160)
34 PRK07116 flavodoxin; Provision 98.7 4.7E-08 1E-12 65.3 5.9 71 6-78 3-102 (160)
35 PF07972 Flavodoxin_NdrI: NrdI 98.5 8.1E-07 1.8E-11 57.6 6.6 63 10-77 1-67 (122)
36 COG4635 HemG Flavodoxin [Energ 98.4 5.7E-07 1.2E-11 60.8 4.4 70 7-77 2-72 (175)
37 COG0426 FpaA Uncharacterized f 98.4 2.2E-06 4.8E-11 64.9 7.7 79 5-84 246-329 (388)
38 PF03358 FMN_red: NADPH-depend 98.2 3E-06 6.6E-11 55.3 4.2 72 7-79 2-97 (152)
39 PF12682 Flavodoxin_4: Flavodo 97.9 1.2E-05 2.6E-10 53.9 3.9 68 8-77 2-98 (156)
40 COG1780 NrdI Protein involved 97.8 3.9E-05 8.4E-10 50.7 4.9 62 8-76 3-68 (141)
41 PRK06934 flavodoxin; Provision 97.2 0.0014 3.1E-08 46.4 6.0 64 13-78 67-155 (221)
42 TIGR03567 FMN_reduc_SsuE FMN r 97.1 0.0033 7.2E-08 42.2 6.8 71 8-79 2-92 (171)
43 PRK10569 NAD(P)H-dependent FMN 97.0 0.0033 7.2E-08 43.3 6.3 72 7-79 2-93 (191)
44 TIGR03566 FMN_reduc_MsuE FMN r 96.9 0.0044 9.5E-08 41.6 6.0 72 7-79 1-95 (174)
45 COG0655 WrbA Multimeric flavod 96.8 0.0047 1E-07 42.7 5.9 69 8-77 3-100 (207)
46 PRK00170 azoreductase; Reviewe 96.5 0.016 3.4E-07 39.3 6.6 74 6-80 2-114 (201)
47 PRK01355 azoreductase; Reviewe 96.3 0.023 4.9E-07 39.1 6.7 74 6-80 2-105 (199)
48 PRK09739 hypothetical protein; 95.9 0.026 5.7E-07 38.6 5.4 74 6-80 4-107 (199)
49 TIGR02690 resist_ArsH arsenica 94.6 0.14 3.1E-06 36.1 6.0 73 7-80 28-118 (219)
50 PF02525 Flavodoxin_2: Flavodo 93.7 0.18 3.8E-06 34.3 4.8 75 6-81 1-107 (199)
51 PRK13556 azoreductase; Provisi 92.9 0.92 2E-05 31.2 7.5 75 6-81 2-118 (208)
52 KOG3135|consensus 92.8 0.26 5.5E-06 34.1 4.4 70 7-77 3-94 (203)
53 cd05566 PTS_IIB_galactitol PTS 90.6 1.3 2.8E-05 26.2 5.5 50 6-56 1-53 (89)
54 COG0431 Predicted flavoprotein 89.9 1.4 3.1E-05 29.9 5.8 74 7-81 2-96 (184)
55 PF09651 Cas_APE2256: CRISPR-a 88.5 0.87 1.9E-05 29.7 3.8 36 8-43 24-60 (136)
56 PF06283 ThuA: Trehalose utili 87.3 0.72 1.6E-05 31.8 3.0 71 7-80 1-80 (217)
57 cd05568 PTS_IIB_bgl_like PTS_I 86.8 0.58 1.3E-05 27.2 2.0 47 7-53 2-48 (85)
58 TIGR00829 FRU PTS system, fruc 85.8 2.2 4.8E-05 25.7 4.3 48 13-60 5-61 (85)
59 cd03142 GATase1_ThuA Type 1 gl 85.5 3 6.4E-05 29.4 5.4 60 17-80 23-87 (215)
60 cd05014 SIS_Kpsf KpsF-like pro 83.5 4.5 9.7E-05 25.1 5.2 55 5-61 46-100 (128)
61 cd05569 PTS_IIB_fructose PTS_I 83.4 3.8 8.2E-05 25.0 4.7 48 14-61 9-63 (96)
62 PRK10427 putative PTS system f 82.7 4 8.8E-05 26.0 4.7 51 9-59 6-65 (114)
63 cd05567 PTS_IIB_mannitol PTS_I 81.4 6.4 0.00014 23.3 5.0 33 7-39 2-35 (87)
64 cd00133 PTS_IIB PTS_IIB: subun 80.1 5.4 0.00012 22.3 4.3 27 9-35 3-30 (84)
65 cd05013 SIS_RpiR RpiR-like pro 79.5 8.4 0.00018 23.6 5.4 72 6-82 13-87 (139)
66 PRK13555 azoreductase; Provisi 79.2 12 0.00025 26.1 6.4 74 7-81 3-118 (208)
67 cd05005 SIS_PHI Hexulose-6-pho 79.1 9.2 0.0002 25.4 5.8 69 5-81 32-101 (179)
68 PRK10310 PTS system galactitol 78.0 5.8 0.00013 24.1 4.1 37 6-42 3-40 (94)
69 PF01380 SIS: SIS domain SIS d 77.8 4.7 0.0001 24.8 3.8 46 3-50 50-95 (131)
70 cd05710 SIS_1 A subgroup of th 76.9 7.2 0.00016 24.3 4.5 53 4-58 45-98 (120)
71 PRK10474 putative PTS system f 76.9 4.9 0.00011 24.2 3.5 39 22-60 2-47 (88)
72 PF02302 PTS_IIB: PTS system, 76.6 6.1 0.00013 23.1 3.9 49 9-57 3-53 (90)
73 cd05563 PTS_IIB_ascorbate PTS_ 76.4 9.6 0.00021 22.2 4.7 28 8-35 2-30 (86)
74 PF01866 Diphthamide_syn: Puta 76.4 8.3 0.00018 28.3 5.3 48 6-53 210-259 (307)
75 cd05008 SIS_GlmS_GlmD_1 SIS (S 75.6 8.9 0.00019 23.6 4.7 52 5-58 45-97 (126)
76 TIGR00441 gmhA phosphoheptose 75.2 10 0.00022 24.8 5.1 56 5-62 78-133 (154)
77 PF02863 Arg_repressor_C: Argi 74.0 11 0.00024 21.6 4.4 53 11-80 17-69 (70)
78 cd05009 SIS_GlmS_GlmD_2 SIS (S 73.7 6.7 0.00014 24.8 3.8 69 9-82 16-89 (153)
79 PRK04930 glutathione-regulated 73.5 21 0.00046 24.5 6.4 73 6-80 6-89 (184)
80 TIGR02128 G6PI_arch bifunction 72.6 16 0.00034 27.0 6.0 55 9-65 24-79 (308)
81 TIGR00322 diphth2_R diphthamid 71.0 9.1 0.0002 28.7 4.4 48 6-53 233-282 (332)
82 cd05006 SIS_GmhA Phosphoheptos 70.4 13 0.00028 24.7 4.7 55 4-60 99-153 (177)
83 TIGR00393 kpsF KpsF/GutQ famil 70.0 15 0.00033 25.7 5.3 57 4-62 45-101 (268)
84 TIGR03127 RuMP_HxlB 6-phospho 69.8 14 0.00031 24.4 4.8 55 5-61 71-125 (179)
85 TIGR03682 arCOG04112 arCOG0411 69.8 9.6 0.00021 28.2 4.3 48 6-53 213-262 (308)
86 cd05005 SIS_PHI Hexulose-6-pho 69.0 16 0.00034 24.3 4.9 55 5-61 74-128 (179)
87 cd05013 SIS_RpiR RpiR-like pro 68.7 18 0.00038 22.1 4.8 56 4-61 58-113 (139)
88 PRK13936 phosphoheptose isomer 67.5 18 0.0004 24.7 5.1 54 5-60 110-167 (197)
89 PRK09212 pyruvate dehydrogenas 65.5 14 0.0003 27.4 4.4 53 10-65 207-266 (327)
90 PF08357 SEFIR: SEFIR domain; 65.1 20 0.00044 22.9 4.7 55 6-60 1-67 (150)
91 KOG3157|consensus 65.0 31 0.00067 24.8 5.8 72 8-95 95-171 (244)
92 PRK13937 phosphoheptose isomer 65.0 21 0.00046 24.1 5.0 53 5-59 105-158 (188)
93 PTZ00182 3-methyl-2-oxobutanat 64.6 12 0.00027 28.2 4.0 47 10-59 239-292 (355)
94 PRK00414 gmhA phosphoheptose i 63.8 20 0.00044 24.4 4.7 54 5-60 110-164 (192)
95 CHL00144 odpB pyruvate dehydro 62.4 15 0.00033 27.3 4.1 49 10-61 207-262 (327)
96 PRK10886 DnaA initiator-associ 62.1 25 0.00055 24.3 5.0 55 5-61 108-166 (196)
97 PRK13938 phosphoheptose isomer 61.8 27 0.00059 24.1 5.1 53 5-59 112-165 (196)
98 TIGR00140 hupD hydrogenase exp 60.7 19 0.00041 22.8 3.9 49 22-71 3-54 (134)
99 cd05014 SIS_Kpsf KpsF-like pro 60.3 32 0.00069 21.1 4.9 66 10-81 4-73 (128)
100 PF07287 DUF1446: Protein of u 60.1 18 0.00038 27.6 4.2 39 3-41 67-106 (362)
101 TIGR02619 putative CRISPR-asso 59.9 18 0.00039 24.1 3.7 27 8-34 36-63 (149)
102 PF01750 HycI: Hydrogenase mat 59.5 13 0.00028 23.5 3.0 49 21-70 2-53 (130)
103 COG1485 Predicted ATPase [Gene 59.5 8.1 0.00018 29.5 2.2 28 35-62 130-170 (367)
104 cd04795 SIS SIS domain. SIS (S 59.0 25 0.00053 19.9 3.9 32 4-35 45-76 (87)
105 PLN02683 pyruvate dehydrogenas 58.3 20 0.00044 27.0 4.2 47 11-60 235-288 (356)
106 COG0279 GmhA Phosphoheptose is 58.0 31 0.00066 23.8 4.6 52 9-62 111-164 (176)
107 PRK11337 DNA-binding transcrip 57.0 63 0.0014 23.0 6.5 57 4-62 185-241 (292)
108 PF02780 Transketolase_C: Tran 56.7 10 0.00022 23.7 2.1 33 10-45 15-47 (124)
109 COG1736 DPH2 Diphthamide synth 55.8 33 0.00072 26.1 5.0 49 5-53 237-287 (347)
110 PRK08674 bifunctional phosphog 55.3 57 0.0012 24.1 6.1 54 9-64 37-90 (337)
111 TIGR00853 pts-lac PTS system, 55.0 23 0.00049 21.5 3.4 51 6-57 4-56 (95)
112 PRK10466 hybD hydrogenase 2 ma 54.9 30 0.00066 22.9 4.3 56 17-72 17-75 (164)
113 PRK11557 putative DNA-binding 54.6 64 0.0014 22.8 6.1 54 6-61 175-228 (278)
114 PRK11382 frlB fructoselysine-6 54.5 33 0.00072 25.4 4.8 53 5-59 91-144 (340)
115 PRK09590 celB cellobiose phosp 54.2 24 0.00051 22.0 3.4 33 7-40 3-36 (104)
116 PRK07119 2-ketoisovalerate fer 54.1 30 0.00065 26.0 4.6 51 9-62 251-308 (352)
117 cd01133 F1-ATPase_beta F1 ATP 53.7 38 0.00083 24.8 4.9 22 6-28 70-91 (274)
118 PRK11543 gutQ D-arabinose 5-ph 53.6 32 0.0007 24.8 4.6 53 5-59 88-141 (321)
119 COG1445 FrwB Phosphotransferas 53.5 42 0.0009 21.8 4.5 44 18-61 16-66 (122)
120 PRK01372 ddl D-alanine--D-alan 53.4 45 0.00098 23.7 5.3 59 5-63 4-69 (304)
121 PRK11404 putative PTS system 52.6 40 0.00086 26.6 5.1 54 7-60 5-67 (482)
122 smart00460 TGc Transglutaminas 52.1 20 0.00042 19.5 2.6 29 13-41 3-32 (68)
123 PRK13143 hisH imidazole glycer 51.9 44 0.00095 22.7 4.8 35 16-57 10-44 (200)
124 COG0296 GlgB 1,4-alpha-glucan 51.5 59 0.0013 26.7 6.0 69 13-82 153-227 (628)
125 COG2222 AgaS Predicted phospho 51.4 27 0.00059 26.3 3.9 43 1-43 244-287 (340)
126 cd05565 PTS_IIB_lactose PTS_II 50.8 27 0.0006 21.6 3.3 41 16-56 10-52 (99)
127 COG0794 GutQ Predicted sugar p 50.7 64 0.0014 22.7 5.5 62 4-67 84-145 (202)
128 PRK11538 ribosome-associated p 50.4 60 0.0013 20.2 5.5 40 19-62 3-44 (105)
129 COG1737 RpiR Transcriptional r 50.4 35 0.00075 24.6 4.3 53 5-59 129-185 (281)
130 PRK11892 pyruvate dehydrogenas 50.2 40 0.00087 26.5 4.8 50 10-62 346-402 (464)
131 PRK00871 glutathione-regulated 50.1 74 0.0016 21.6 5.6 72 8-80 2-83 (176)
132 cd05009 SIS_GlmS_GlmD_2 SIS (S 49.6 63 0.0014 20.2 5.8 39 2-40 57-96 (153)
133 TIGR00072 hydrog_prot hydrogen 49.3 44 0.00095 21.5 4.3 52 19-71 16-70 (145)
134 PRK15482 transcriptional regul 49.1 32 0.00069 24.6 3.9 32 6-39 135-167 (285)
135 PF09383 NIL: NIL domain; Int 48.9 25 0.00054 20.0 2.8 34 5-38 42-75 (76)
136 cd00466 DHQase_II Dehydroquina 48.7 39 0.00084 22.5 3.9 76 3-85 12-94 (140)
137 PRK10892 D-arabinose 5-phospha 48.3 60 0.0013 23.6 5.3 52 5-58 93-145 (326)
138 PRK05395 3-dehydroquinate dehy 48.3 41 0.00089 22.5 4.0 76 3-85 14-96 (146)
139 PRK15482 transcriptional regul 48.2 77 0.0017 22.6 5.8 55 5-61 181-235 (285)
140 TIGR00272 DPH2 diphthamide bio 48.1 44 0.00095 26.5 4.8 47 6-52 282-330 (496)
141 PF10432 bact-PGI_C: Bacterial 47.6 22 0.00048 23.5 2.7 37 6-44 17-55 (155)
142 TIGR00412 redox_disulf_2 small 47.5 52 0.0011 18.7 4.3 34 10-43 4-38 (76)
143 cd05017 SIS_PGI_PMI_1 The memb 47.4 66 0.0014 19.8 5.5 47 16-64 7-55 (119)
144 cd05637 SIS_PGI_PMI_2 The memb 47.3 40 0.00087 21.7 3.8 19 7-27 13-31 (132)
145 TIGR01088 aroQ 3-dehydroquinat 47.3 41 0.00089 22.4 3.9 76 3-85 12-94 (141)
146 cd06062 H2MP_MemB-H2up Endopep 45.6 58 0.0012 21.0 4.4 56 17-73 15-73 (146)
147 cd06578 HemD Uroporphyrinogen- 45.3 31 0.00067 23.1 3.2 65 6-80 121-194 (239)
148 cd00518 H2MP Hydrogenase speci 44.5 47 0.001 21.2 3.8 54 18-73 15-71 (139)
149 PRK01231 ppnK inorganic polyph 44.4 93 0.002 22.8 5.8 35 6-40 5-40 (295)
150 PRK10712 PTS system fructose-s 44.4 71 0.0015 25.8 5.5 56 6-61 104-168 (563)
151 PF12076 Wax2_C: WAX2 C-termin 44.2 12 0.00026 25.5 1.0 45 16-60 4-53 (164)
152 PF13579 Glyco_trans_4_4: Glyc 44.1 64 0.0014 19.5 4.3 62 17-78 1-67 (160)
153 PF03969 AFG1_ATPase: AFG1-lik 44.1 20 0.00044 27.1 2.3 27 36-62 128-167 (362)
154 PF00117 GATase: Glutamine ami 43.2 53 0.0011 21.7 4.1 61 18-82 9-72 (192)
155 KOG0415|consensus 42.9 16 0.00034 28.3 1.5 44 17-60 203-246 (479)
156 PRK11557 putative DNA-binding 42.5 49 0.0011 23.4 4.0 68 6-81 128-201 (278)
157 PF04392 ABC_sub_bind: ABC tra 42.3 48 0.0011 23.7 4.0 38 6-43 132-170 (294)
158 COG3414 SgaB Phosphotransferas 41.6 82 0.0018 19.2 5.1 54 8-64 4-60 (93)
159 COG2984 ABC-type uncharacteriz 41.1 55 0.0012 24.7 4.1 37 6-42 160-197 (322)
160 PF13728 TraF: F plasmid trans 39.9 95 0.0021 21.6 5.0 36 9-44 125-161 (215)
161 cd05564 PTS_IIB_chitobiose_lic 39.9 64 0.0014 19.4 3.7 32 10-42 4-36 (96)
162 cd01452 VWA_26S_proteasome_sub 39.8 74 0.0016 21.9 4.4 37 7-43 109-146 (187)
163 cd02067 B12-binding B12 bindin 39.4 89 0.0019 19.0 5.5 69 10-81 2-77 (119)
164 PTZ00394 glucosamine-fructose- 39.2 1E+02 0.0022 25.3 5.7 52 5-58 400-452 (670)
165 COG0757 AroQ 3-dehydroquinate 39.2 63 0.0014 21.6 3.8 84 3-93 13-105 (146)
166 cd06348 PBP1_ABC_ligand_bindin 39.0 1.4E+02 0.0031 21.3 7.2 73 6-85 137-219 (344)
167 PTZ00295 glucosamine-fructose- 38.6 93 0.002 25.2 5.4 50 6-57 369-419 (640)
168 COG0022 AcoB Pyruvate/2-oxoglu 38.6 53 0.0011 24.8 3.7 48 10-60 206-260 (324)
169 PF11663 Toxin_YhaV: Toxin wit 38.1 26 0.00056 23.3 1.8 12 64-75 124-135 (140)
170 COG0514 RecQ Superfamily II DN 38.1 1.7E+02 0.0036 24.0 6.7 72 6-80 230-320 (590)
171 PRK13015 3-dehydroquinate dehy 37.8 74 0.0016 21.3 4.0 76 3-85 14-96 (146)
172 TIGR03305 alt_F1F0_F1_bet alte 37.8 86 0.0019 24.7 4.9 23 6-28 139-161 (449)
173 PRK06827 phosphoribosylpyropho 37.4 1.9E+02 0.0041 22.2 6.9 27 1-30 1-28 (382)
174 TIGR00640 acid_CoA_mut_C methy 37.4 82 0.0018 20.3 4.1 73 7-83 2-82 (132)
175 PF13439 Glyco_transf_4: Glyco 37.3 1E+02 0.0022 19.0 6.8 33 11-43 6-39 (177)
176 COG1737 RpiR Transcriptional r 37.0 1.1E+02 0.0024 22.0 5.2 53 4-58 175-228 (281)
177 PF13271 DUF4062: Domain of un 37.0 17 0.00037 21.3 0.8 23 56-80 2-24 (83)
178 PRK00331 glucosamine--fructose 36.9 1.1E+02 0.0024 24.4 5.5 52 5-58 335-387 (604)
179 COG4408 Uncharacterized protei 36.6 38 0.00081 26.1 2.7 70 10-80 172-266 (431)
180 cd08520 PBP2_NikA_DppA_OppA_li 36.6 1.1E+02 0.0025 23.1 5.4 26 18-43 341-367 (468)
181 TIGR02294 nickel_nikA nickel A 36.5 1.7E+02 0.0038 22.3 6.4 26 18-43 354-380 (500)
182 TIGR03043 PS_II_psbZ photosyst 36.3 22 0.00048 20.1 1.1 14 7-20 19-32 (58)
183 COG2406 Protein distantly rela 36.2 22 0.00047 24.2 1.2 13 64-76 77-89 (172)
184 PRK02947 hypothetical protein; 36.2 1.4E+02 0.0031 21.0 5.6 57 5-63 105-173 (246)
185 cd08507 PBP2_SgrR_like The C-t 36.1 1.3E+02 0.0029 22.7 5.7 33 10-43 302-335 (448)
186 PF12108 SF3a60_bindingd: Spli 35.9 21 0.00046 17.2 0.9 14 68-81 6-19 (28)
187 cd05007 SIS_Etherase N-acetylm 35.7 89 0.0019 22.3 4.4 32 5-36 117-148 (257)
188 cd03785 GT1_MurG MurG is an N- 35.4 91 0.002 22.2 4.5 33 10-42 3-36 (350)
189 PF15096 G6B: G6B family 35.1 23 0.00051 24.9 1.3 23 5-27 41-68 (224)
190 cd08490 PBP2_NikA_DppA_OppA_li 35.0 1.4E+02 0.003 22.5 5.6 26 17-42 332-358 (470)
191 PHA03366 FGAM-synthase; Provis 34.7 1.4E+02 0.003 26.8 6.1 48 31-79 1051-1099(1304)
192 cd08496 PBP2_NikA_DppA_OppA_li 34.6 1.3E+02 0.0029 22.6 5.4 27 17-43 325-352 (454)
193 COG2185 Sbm Methylmalonyl-CoA 33.9 88 0.0019 20.8 3.8 65 15-83 22-92 (143)
194 PF14258 DUF4350: Domain of un 33.8 88 0.0019 17.3 5.2 46 32-80 17-62 (70)
195 PF13554 DUF4128: Bacteriophag 33.7 54 0.0012 20.9 2.8 21 13-33 71-91 (127)
196 PHA02102 hypothetical protein 33.5 61 0.0013 18.8 2.6 31 31-68 27-57 (72)
197 KOG1301|consensus 33.3 1.4E+02 0.003 24.4 5.4 69 7-78 200-271 (621)
198 TIGR01135 glmS glucosamine--fr 32.8 77 0.0017 25.3 4.1 53 5-59 337-390 (607)
199 PRK13170 hisH imidazole glycer 32.8 1.4E+02 0.0029 20.3 4.8 46 16-72 10-55 (196)
200 PRK02576 psbZ photosystem II r 32.8 27 0.00058 20.0 1.1 12 7-18 22-33 (62)
201 PRK05441 murQ N-acetylmuramic 32.7 1.1E+02 0.0025 22.3 4.7 33 4-36 129-161 (299)
202 TIGR00393 kpsF KpsF/GutQ famil 32.6 1.2E+02 0.0027 21.0 4.7 66 10-81 4-73 (268)
203 PRK06490 glutamine amidotransf 32.5 1.8E+02 0.0039 20.5 7.2 57 7-66 9-67 (239)
204 PRK08366 vorA 2-ketoisovalerat 32.5 96 0.0021 23.8 4.4 52 8-62 263-321 (390)
205 PRK09765 PTS system 2-O-a-mann 32.4 86 0.0019 25.6 4.3 54 8-61 166-228 (631)
206 cd00954 NAL N-Acetylneuraminic 32.1 1.2E+02 0.0027 21.7 4.7 36 4-39 67-102 (288)
207 PRK08659 2-oxoglutarate ferred 31.7 1.3E+02 0.0027 22.9 4.9 50 9-61 278-334 (376)
208 COG3915 Uncharacterized protei 31.3 53 0.0011 22.0 2.4 37 21-57 68-108 (155)
209 PRK00441 argR arginine repress 31.3 1.5E+02 0.0033 19.5 4.7 28 47-80 119-146 (149)
210 TIGR02739 TraF type-F conjugat 31.2 1.6E+02 0.0034 21.4 5.1 38 7-44 153-191 (256)
211 PF12637 TSCPD: TSCPD domain; 31.1 41 0.0009 20.4 1.8 24 13-36 34-57 (95)
212 cd08497 PBP2_NikA_DppA_OppA_li 30.7 1.3E+02 0.0028 23.1 4.9 34 10-43 350-384 (491)
213 PF01841 Transglut_core: Trans 30.5 55 0.0012 19.4 2.4 28 14-41 49-77 (113)
214 PF00701 DHDPS: Dihydrodipicol 30.1 81 0.0018 22.5 3.5 37 3-39 66-102 (289)
215 cd06553 ASCH_Ef3133_like ASC-1 29.5 1.1E+02 0.0025 19.7 3.8 29 16-44 6-35 (127)
216 PRK10264 hydrogenase 1 maturat 29.5 1.5E+02 0.0032 20.5 4.6 58 15-73 18-78 (195)
217 PRK08674 bifunctional phosphog 29.2 1E+02 0.0023 22.6 4.0 31 5-35 77-107 (337)
218 KOG4530|consensus 29.1 2E+02 0.0042 20.0 5.0 29 51-80 86-114 (199)
219 PRK06895 putative anthranilate 29.0 1.8E+02 0.0039 19.4 5.6 45 31-79 23-67 (190)
220 TIGR02815 agaS_fam putative su 29.0 93 0.002 23.4 3.8 26 7-32 93-118 (372)
221 PRK00048 dihydrodipicolinate r 28.9 1.3E+02 0.0028 21.3 4.4 44 4-47 105-151 (257)
222 PF01904 DUF72: Protein of unk 28.9 60 0.0013 22.7 2.6 24 54-78 207-230 (230)
223 PRK03341 arginine repressor; P 28.8 1.9E+02 0.004 19.6 4.9 29 47-81 136-164 (168)
224 PF14000 Packaging_FI: DNA pac 28.8 52 0.0011 21.4 2.1 16 14-29 21-36 (125)
225 TIGR01529 argR_whole arginine 28.8 1.1E+02 0.0024 20.1 3.7 28 47-80 117-144 (146)
226 cd08489 PBP2_NikA The substrat 28.6 1.8E+02 0.0038 22.1 5.3 26 18-43 346-372 (488)
227 PLN02981 glucosamine:fructose- 28.5 1.2E+02 0.0025 25.0 4.5 35 7-43 411-445 (680)
228 PRK13609 diacylglycerol glucos 28.3 1.3E+02 0.0029 21.9 4.5 37 5-41 4-42 (380)
229 PRK09622 porA pyruvate flavodo 28.2 2.3E+02 0.005 21.7 5.8 69 8-79 271-346 (407)
230 COG0329 DapA Dihydrodipicolina 28.2 1.3E+02 0.0027 22.1 4.3 38 2-39 68-105 (299)
231 cd01748 GATase1_IGP_Synthase T 28.2 1E+02 0.0022 20.7 3.6 36 15-57 7-42 (198)
232 PF06253 MTTB: Trimethylamine 28.0 23 0.00051 28.0 0.4 15 2-16 289-303 (505)
233 cd03820 GT1_amsD_like This fam 27.8 1.5E+02 0.0033 20.0 4.5 29 16-44 12-41 (348)
234 COG3797 Uncharacterized protei 27.8 1.3E+02 0.0029 20.8 4.0 39 4-44 40-82 (178)
235 PF14025 DUF4241: Protein of u 27.7 1.1E+02 0.0023 21.0 3.6 19 51-69 152-170 (185)
236 COG0680 HyaD Ni,Fe-hydrogenase 27.5 1.7E+02 0.0037 19.6 4.5 52 17-68 18-72 (160)
237 COG2454 Uncharacterized conser 27.5 1.4E+02 0.003 21.2 4.1 39 7-45 130-169 (211)
238 PRK03170 dihydrodipicolinate s 27.4 1.7E+02 0.0037 20.9 4.8 37 3-39 66-102 (292)
239 cd00578 L-fuc_L-ara-isomerases 27.3 1.2E+02 0.0027 23.2 4.3 57 7-65 2-77 (452)
240 cd02071 MM_CoA_mut_B12_BD meth 27.2 1.6E+02 0.0035 18.2 5.4 70 10-82 2-78 (122)
241 PRK09426 methylmalonyl-CoA mut 27.1 1.7E+02 0.0038 24.4 5.2 75 6-83 581-662 (714)
242 PF08532 Glyco_hydro_42M: Beta 27.0 1.6E+02 0.0035 20.0 4.4 27 29-59 39-65 (207)
243 PRK05928 hemD uroporphyrinogen 26.8 2E+02 0.0044 19.3 4.9 53 16-79 10-72 (249)
244 PRK13181 hisH imidazole glycer 26.8 1.2E+02 0.0026 20.4 3.7 35 16-57 9-43 (199)
245 cd06066 H2MP_NAD-link-bidir En 26.3 1.8E+02 0.0039 18.5 4.8 46 17-64 14-62 (139)
246 PRK04539 ppnK inorganic polyph 26.3 1.4E+02 0.0031 21.9 4.3 39 1-39 1-40 (296)
247 PRK10426 alpha-glucosidase; Pr 26.3 2.4E+02 0.0051 23.1 5.8 69 11-81 213-281 (635)
248 PRK13703 conjugal pilus assemb 26.2 2E+02 0.0043 20.8 4.9 37 7-43 146-183 (248)
249 PF12525 DUF3726: Protein of u 26.2 86 0.0019 18.7 2.6 21 15-35 21-41 (80)
250 cd01742 GATase1_GMP_Synthase T 26.0 1.9E+02 0.0042 18.8 5.2 41 16-59 8-49 (181)
251 PRK07452 DNA polymerase III su 25.9 1.7E+02 0.0037 21.1 4.6 36 9-44 4-43 (326)
252 PRK02155 ppnK NAD(+)/NADH kina 25.9 2.7E+02 0.0058 20.4 6.1 39 1-39 1-40 (291)
253 PRK13608 diacylglycerol glucos 25.6 1.5E+02 0.0033 22.1 4.4 31 1-31 1-31 (391)
254 PLN02234 1-deoxy-D-xylulose-5- 25.6 1.6E+02 0.0034 24.4 4.7 34 10-46 550-583 (641)
255 cd06070 H2MP_like-2 Putative [ 25.5 1.7E+02 0.0038 18.6 4.2 46 18-69 15-63 (140)
256 PF07845 DUF1636: Protein of u 25.4 88 0.0019 19.9 2.7 26 56-81 1-31 (116)
257 PRK03363 fixB putative electro 25.4 1.4E+02 0.003 22.3 4.0 33 10-42 83-115 (313)
258 COG3603 Uncharacterized conser 25.2 43 0.00093 21.8 1.2 18 49-67 87-104 (128)
259 cd08513 PBP2_thermophilic_Hb8_ 25.1 2.2E+02 0.0048 21.5 5.2 32 12-43 343-375 (482)
260 cd00952 CHBPH_aldolase Trans-o 25.0 1.3E+02 0.0028 22.1 3.8 38 2-39 72-109 (309)
261 cd06067 H2MP_MemB-H2evol Endop 25.0 1.7E+02 0.0036 18.6 4.0 52 18-72 15-71 (136)
262 CHL00082 psbZ photosystem II p 25.0 45 0.00098 19.1 1.1 14 7-20 22-35 (62)
263 PRK05788 cobalamin biosynthesi 25.0 28 0.00061 25.9 0.4 54 7-62 5-62 (315)
264 cd00408 DHDPS-like Dihydrodipi 24.9 1.7E+02 0.0036 20.7 4.3 36 4-39 63-98 (281)
265 cd00126 PAH Pancreatic Hormone 24.8 49 0.0011 16.9 1.1 18 63-80 9-26 (36)
266 PRK13527 glutamine amidotransf 24.6 1.7E+02 0.0037 19.7 4.2 41 17-59 10-51 (200)
267 KOG3045|consensus 24.5 1.3E+02 0.0027 22.6 3.6 45 35-85 213-257 (325)
268 PRK10892 D-arabinose 5-phospha 24.4 2.2E+02 0.0048 20.6 5.0 67 9-81 50-120 (326)
269 TIGR02691 arsC_pI258_fam arsen 24.4 1.2E+02 0.0026 19.2 3.2 35 29-63 47-81 (129)
270 smart00309 PAH Pancreatic horm 24.4 50 0.0011 16.8 1.1 18 63-80 9-26 (36)
271 TIGR00090 iojap_ybeB iojap-lik 24.2 1.8E+02 0.0039 17.7 5.1 28 31-62 12-39 (99)
272 TIGR00130 frhD coenzyme F420-r 23.9 2.1E+02 0.0046 18.5 4.5 55 17-72 19-80 (153)
273 PTZ00150 phosphoglucomutase-2- 23.9 1.1E+02 0.0024 24.5 3.5 54 9-62 91-151 (584)
274 TIGR00204 dxs 1-deoxy-D-xylulo 23.8 2.1E+02 0.0046 23.2 5.1 51 12-65 503-560 (617)
275 TIGR02369 trimeth_pyl trimethy 23.6 44 0.00095 26.6 1.2 14 2-15 277-290 (489)
276 COG2412 Uncharacterized conser 23.4 72 0.0016 20.0 1.9 22 9-30 40-61 (101)
277 COG5118 BDP1 Transcription ini 23.4 79 0.0017 24.7 2.5 26 55-80 352-382 (507)
278 PF14824 Sirohm_synth_M: Siroh 23.0 76 0.0016 15.5 1.6 18 12-29 8-25 (30)
279 PRK12597 F0F1 ATP synthase sub 22.9 3.2E+02 0.0069 21.6 5.8 24 6-29 144-167 (461)
280 cd03795 GT1_like_4 This family 22.9 1.3E+02 0.0028 21.0 3.4 34 11-44 8-42 (357)
281 TIGR03439 methyl_EasF probable 22.9 99 0.0021 23.1 2.9 34 52-86 157-191 (319)
282 PRK07666 fabG 3-ketoacyl-(acyl 22.7 2.3E+02 0.0049 18.9 4.5 27 1-27 2-28 (239)
283 PF11772 EpuA: DNA-directed RN 22.7 46 0.001 17.9 0.8 22 58-79 19-45 (47)
284 PF06414 Zeta_toxin: Zeta toxi 22.5 83 0.0018 21.1 2.3 36 6-41 92-127 (199)
285 PRK12571 1-deoxy-D-xylulose-5- 22.5 1.1E+02 0.0025 24.9 3.4 33 11-46 511-543 (641)
286 PRK07168 bifunctional uroporph 22.5 87 0.0019 24.7 2.6 33 49-89 298-330 (474)
287 PRK01175 phosphoribosylformylg 22.4 3.1E+02 0.0066 19.8 6.5 51 7-60 5-57 (261)
288 PRK12315 1-deoxy-D-xylulose-5- 22.3 1.2E+02 0.0026 24.4 3.5 34 10-46 466-500 (581)
289 PF14051 Requiem_N: N-terminal 22.3 34 0.00074 20.3 0.3 14 11-24 30-43 (74)
290 TIGR00683 nanA N-acetylneurami 22.2 2E+02 0.0043 20.8 4.3 36 4-39 67-102 (290)
291 cd03825 GT1_wcfI_like This fam 22.2 1.6E+02 0.0035 20.5 3.9 28 17-44 13-41 (365)
292 PRK09548 PTS system ascorbate- 22.1 1.3E+02 0.0028 24.7 3.6 29 10-38 511-540 (602)
293 CHL00160 rpl9 ribosomal protei 21.9 2.1E+02 0.0046 19.0 4.1 18 9-28 93-110 (153)
294 cd08492 PBP2_NikA_DppA_OppA_li 21.9 1.8E+02 0.004 21.9 4.3 26 17-42 355-381 (484)
295 cd01128 rho_factor Transcripti 21.9 1.2E+02 0.0027 21.6 3.2 57 7-64 18-79 (249)
296 PRK12570 N-acetylmuramic acid- 21.8 2.3E+02 0.0049 20.8 4.6 32 5-36 126-157 (296)
297 TIGR00274 N-acetylmuramic acid 21.6 2.3E+02 0.005 20.7 4.6 36 4-39 124-159 (291)
298 PF09981 DUF2218: Uncharacteri 21.5 96 0.0021 18.6 2.2 24 15-38 6-29 (89)
299 PF09314 DUF1972: Domain of un 21.4 2.8E+02 0.0061 19.0 5.2 33 15-47 15-48 (185)
300 TIGR02128 G6PI_arch bifunction 21.4 1.8E+02 0.0039 21.4 4.0 32 5-36 65-96 (308)
301 PRK11302 DNA-binding transcrip 21.3 3E+02 0.0065 19.3 6.4 51 5-58 174-225 (284)
302 PRK02645 ppnK inorganic polyph 21.3 3.4E+02 0.0074 19.9 5.7 35 6-40 4-39 (305)
303 cd04955 GT1_like_6 This family 21.2 1.8E+02 0.004 20.3 3.9 32 14-45 12-44 (363)
304 smart00115 CASc Caspase, inter 21.0 2.3E+02 0.0051 19.8 4.4 61 1-64 3-85 (241)
305 PF00496 SBP_bac_5: Bacterial 21.0 1.2E+02 0.0025 21.9 2.9 35 8-42 296-331 (374)
306 PRK14569 D-alanyl-alanine synt 21.0 3.3E+02 0.007 19.6 6.3 39 5-43 3-45 (296)
307 PRK05876 short chain dehydroge 20.8 2.4E+02 0.0052 19.7 4.5 27 1-27 1-27 (275)
308 cd04962 GT1_like_5 This family 20.8 1.5E+02 0.0033 21.0 3.5 33 10-42 5-38 (371)
309 PRK14101 bifunctional glucokin 20.8 1.6E+02 0.0034 23.9 3.8 57 3-61 465-525 (638)
310 PRK05066 arginine repressor; P 20.6 2.7E+02 0.0059 18.5 5.0 51 14-80 100-150 (156)
311 KOG1123|consensus 20.5 4.3E+02 0.0093 21.9 6.1 74 6-85 563-639 (776)
312 PRK08250 glutamine amidotransf 20.5 3.1E+02 0.0067 19.2 6.8 33 31-63 23-57 (235)
313 PF05902 4_1_CTD: 4.1 protein 20.5 1.6E+02 0.0035 18.9 3.1 29 4-32 69-97 (114)
314 cd05015 SIS_PGI_1 Phosphogluco 20.4 2.6E+02 0.0056 18.2 4.5 30 52-81 73-103 (158)
315 cd06063 H2MP_Cyano-H2up This g 20.4 2.5E+02 0.0054 18.0 4.7 55 17-73 15-72 (146)
316 KOG0734|consensus 20.4 1.5E+02 0.0032 24.6 3.5 41 5-45 360-406 (752)
317 TIGR01855 IMP_synth_hisH imida 20.3 1.8E+02 0.0039 19.6 3.6 35 16-57 8-42 (196)
318 PF14511 RE_EcoO109I: Type II 20.3 2.3E+02 0.0051 19.9 4.2 59 13-80 113-180 (200)
319 TIGR03710 OAFO_sf 2-oxoacid:ac 20.3 1.8E+02 0.0039 23.3 4.0 62 8-80 467-535 (562)
320 COG3672 Predicted transglutami 20.3 2.3E+02 0.005 19.8 4.1 55 14-71 105-161 (191)
321 PF01522 Polysacc_deac_1: Poly 20.2 1.7E+02 0.0036 17.4 3.2 40 6-45 30-69 (123)
322 COG4301 Uncharacterized conser 20.2 1.3E+02 0.0028 22.5 2.9 35 52-87 154-188 (321)
323 TIGR03127 RuMP_HxlB 6-phospho 20.2 2.6E+02 0.0057 18.2 6.1 66 9-82 33-99 (179)
324 PF02783 MCR_beta_N: Methyl-co 20.2 93 0.002 21.5 2.1 38 14-57 72-109 (182)
325 PRK12321 cobN cobaltochelatase 20.0 3.1E+02 0.0068 24.2 5.6 33 6-38 199-234 (1100)
326 PF06144 DNA_pol3_delta: DNA p 20.0 2.5E+02 0.0054 17.9 4.7 71 10-80 2-87 (172)
327 PF01935 DUF87: Domain of unkn 20.0 2.2E+02 0.0047 19.3 4.0 43 3-45 21-65 (229)
No 1
>KOG1159|consensus
Probab=99.94 E-value=1.3e-27 Score=181.55 Aligned_cols=88 Identities=22% Similarity=0.255 Sum_probs=83.8
Q ss_pred ccccEEEeCCCchHHHHHHHHH-HHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESE-VHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIG 84 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~-~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~ 84 (95)
++++|+||||||||+++|++|. ++.++|+++.|++|++||+.+|.+.+++||||||+|+|++|+|++.||++|..+++|
T Consensus 1 ~~i~ILYGSqTGtA~dvAe~l~Re~~r~~~~~~V~s~Deyd~~~ll~~~~vvFVcSTTGqGe~P~Nmk~~WrfL~rknLp 80 (574)
T KOG1159|consen 1 MKILILYGSQTGTAQDVAESLGREAHRRGLQCLVMSMDEYDVEKLLDERLVVFVCSTTGQGEEPDNMKKFWRFLLRKNLP 80 (574)
T ss_pred CceEEEeecCcccHHHHHHHHHHHHHhccCCceEeeccccCHhHhccCceEEEEEecCCCCCCCccHHHHHHHHhhccch
Confidence 3678999999999999999995 578899999999999999999999999999999999999999999999999999999
Q ss_pred CccccCCCc
Q psy8996 85 EDANNSIST 93 (95)
Q Consensus 85 ~~~l~~l~~ 93 (95)
+++|+||+.
T Consensus 81 s~~L~~~~~ 89 (574)
T KOG1159|consen 81 STILQHMQF 89 (574)
T ss_pred HHHHhhhhh
Confidence 999999975
No 2
>PRK08105 flavodoxin; Provisional
Probab=99.92 E-value=6.6e-25 Score=146.00 Aligned_cols=84 Identities=21% Similarity=0.166 Sum_probs=71.0
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIG 84 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~ 84 (95)
+++.|||||||||||.+|++|++ +.+.|+.+.+.++++++...+.+++.+||+|||||+|+||+|+.+||++|++. .
T Consensus 2 ~~i~I~YgS~tGnte~~A~~l~~~l~~~g~~~~~~~~~~~~~~~~~~~~~vi~~~sT~G~Ge~p~~~~~f~~~l~~~-~- 79 (149)
T PRK08105 2 AKVGIFVGTVYGNALLVAEEAEAILTAQGHEVTLFEDPELSDWQPYQDELVLVVTSTTGQGDLPDSIVPLFQALKDT-A- 79 (149)
T ss_pred CeEEEEEEcCchHHHHHHHHHHHHHHhCCCceEEechhhCCchhcccCCeEEEEECCCCCCCCChhHHHHHHHHHhc-C-
Confidence 36789999999999999999987 55689999999998876555566799999999999999999999999999864 2
Q ss_pred CccccCCC
Q psy8996 85 EDANNSIS 92 (95)
Q Consensus 85 ~~~l~~l~ 92 (95)
..|++++
T Consensus 80 -~~l~~~~ 86 (149)
T PRK08105 80 -GYQPNLR 86 (149)
T ss_pred -cccCCCE
Confidence 2466654
No 3
>PRK09004 FMN-binding protein MioC; Provisional
Probab=99.92 E-value=1.3e-24 Score=144.22 Aligned_cols=81 Identities=23% Similarity=0.257 Sum_probs=70.1
Q ss_pred cccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIGE 85 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~~ 85 (95)
++.|+|||+|||||.+|++|++ +.++|++++++++.+ ++++.+++.+||+|||||+|+||+|+++||++|++..
T Consensus 3 ~i~I~ygS~tGnae~~A~~l~~~~~~~g~~~~~~~~~~--~~~l~~~~~li~~~sT~G~Ge~p~~~~~f~~~L~~~~--- 77 (146)
T PRK09004 3 DITLISGSTLGGAEYVADHLAEKLEEAGFSTETLHGPL--LDDLSASGLWLIVTSTHGAGDLPDNLQPFFEELQEQK--- 77 (146)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHcCCceEEeccCC--HHHhccCCeEEEEECCCCCCCCChhHHHHHHHHHhcC---
Confidence 5789999999999999999987 556899999887765 7789999999999999999999999999999998742
Q ss_pred ccccCCC
Q psy8996 86 DANNSIS 92 (95)
Q Consensus 86 ~~l~~l~ 92 (95)
..|++++
T Consensus 78 ~~l~g~~ 84 (146)
T PRK09004 78 PDLSQVR 84 (146)
T ss_pred CCCCCCE
Confidence 2366654
No 4
>PRK10953 cysJ sulfite reductase subunit alpha; Provisional
Probab=99.91 E-value=3.1e-24 Score=168.12 Aligned_cols=85 Identities=21% Similarity=0.319 Sum_probs=77.2
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIG 84 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~ 84 (95)
+++.|+|||||||||.+|++|++ +.++|+.+++.+|+++++.+|.+++.+||||||||+||||+|+.+||++|.+.+.|
T Consensus 62 ~~v~IlygSqTGnae~lA~~la~~l~~~g~~~~v~~~~d~~~~~L~~~~~vl~v~ST~G~Ge~Pdna~~F~~~L~~~~~~ 141 (600)
T PRK10953 62 PGITLISASQTGNARRVAEQLRDDLLAAKLNVNLVNAGDYKFKQIAQEKLLIVVTSTQGEGEPPEEAVALHKFLFSKKAP 141 (600)
T ss_pred CeEEEEEEcCchHHHHHHHHHHHHHHhCCCCcEEechHhCCHhHhccCCeEEEEECCCCCCCCChhHHHHHHHHhhCcCc
Confidence 56889999999999999999986 55799999999999999999999999999999999999999999999999876555
Q ss_pred CccccCCC
Q psy8996 85 EDANNSIS 92 (95)
Q Consensus 85 ~~~l~~l~ 92 (95)
.|++++
T Consensus 142 --~L~~~~ 147 (600)
T PRK10953 142 --KLENTA 147 (600)
T ss_pred --CCCCCE
Confidence 377765
No 5
>PRK05723 flavodoxin; Provisional
Probab=99.90 E-value=1.1e-23 Score=140.55 Aligned_cols=82 Identities=17% Similarity=0.141 Sum_probs=65.3
Q ss_pred cccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCCCCccccccc--CeEEEEeccCCCCCCCCcHHHHHHHHhhCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHE--ALILVVASTFGNGDPPENGQEFAQNLHALRI 83 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~--~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~ 83 (95)
++.|||||||||||.+|++|++. .++|+++++..+ .++.++..+ +.+||++||||+||||+|+.+||++|++. .
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~~~~~--~~~~~~~~~~~~~li~~~sT~G~Ge~Pd~~~~f~~~L~~~-~ 78 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAWHNPR--ASLQDLQAFAPEALLAVTSTTGMGELPDNLMPLYSAIRDQ-L 78 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCceeecCc--CCHhHHHhCCCCeEEEEECCCCCCCCchhHHHHHHHHHhc-C
Confidence 57899999999999999999874 468888776543 345555544 89999999999999999999999999864 2
Q ss_pred CCccccCCC
Q psy8996 84 GEDANNSIS 92 (95)
Q Consensus 84 ~~~~l~~l~ 92 (95)
+. .|++++
T Consensus 79 ~~-~l~~~~ 86 (151)
T PRK05723 79 PA-AWRGLP 86 (151)
T ss_pred cc-CCCCCE
Confidence 32 466664
No 6
>TIGR01931 cysJ sulfite reductase [NADPH] flavoprotein, alpha-component. This model describes an NADPH-dependent sulfite reductase flavoprotein subunit. Most members of this family are found in Cys biosynthesis gene clusters. The closest homologs below the trusted cutoff are designated as subunits nitrate reductase.
Probab=99.89 E-value=1.3e-23 Score=164.37 Aligned_cols=86 Identities=26% Similarity=0.397 Sum_probs=77.6
Q ss_pred cccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCC
Q psy8996 5 EKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRI 83 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~ 83 (95)
.+++.|+|||||||||.+|++|++ +.++|+.+++.+|+++++++|.+++.+||||||||+||||+|+.+||++|.+.+.
T Consensus 58 ~~~i~IlygSqTGnae~~A~~l~~~l~~~g~~~~v~~~~d~~~~~l~~~~~li~v~ST~GeGe~Pdna~~F~~~L~~~~~ 137 (597)
T TIGR01931 58 EKRVTILYGSQTGNARRLAKRLAEKLEAAGFSVRLSSADDYKFKQLKKERLLLLVISTQGEGEPPEEAISFHKFLHSKKA 137 (597)
T ss_pred CCeEEEEEECCchHHHHHHHHHHHHHHhCCCccEEechHHCCHhhcccCceEEEEeCCCCCCcCCHHHHHHHHHHHhCCC
Confidence 467899999999999999999986 5578999999999999999999999999999999999999999999999987655
Q ss_pred CCccccCCC
Q psy8996 84 GEDANNSIS 92 (95)
Q Consensus 84 ~~~~l~~l~ 92 (95)
| .|++++
T Consensus 138 ~--~L~~~~ 144 (597)
T TIGR01931 138 P--KLENLR 144 (597)
T ss_pred c--ccCCCe
Confidence 4 366665
No 7
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=99.80 E-value=5.1e-20 Score=120.01 Aligned_cols=83 Identities=18% Similarity=0.289 Sum_probs=68.4
Q ss_pred EEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCC--cccccccCeEEEEeccCCCCCCCCcHH-HHHHHHhhCC--C
Q psy8996 10 AFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYD--MSSIEHEALILVVASTFGNGDPPENGQ-EFAQNLHALR--I 83 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~--~~~l~~~~~vi~v~ST~G~Ge~Pdn~~-~F~~~L~~~~--~ 83 (95)
|+|+|+|||||.+|++|++.+ ++|++++++++++++ +.++..++.+||++||||+|+||+++. .|++++.... .
T Consensus 1 I~Y~S~tG~te~~A~~ia~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~i~~~sT~~~g~~p~~~~~~~~~~~~~~~~~~ 80 (143)
T PF00258_consen 1 IVYGSMTGNTEKMAEAIAEGLRERGVEVRVVDLDDFDDSPSDLSEYDLLIFGVSTYGEGEPPDNAKEFFEELLELKGKEL 80 (143)
T ss_dssp EEEETSSSHHHHHHHHHHHHHHHTTSEEEEEEGGGSCHHHHHHCTTSEEEEEEEEETTTEESGGGHHHHHHHHHHHHHGG
T ss_pred CEEECCchhHHHHHHHHHHHHHHcCCceeeechhhhhhhhhhhhhhceeeEeecccCCCcchhhhhhhhhhccccccccc
Confidence 799999999999999998754 599999999999999 458999999999999999999999998 6666665431 2
Q ss_pred CCccccCCC
Q psy8996 84 GEDANNSIS 92 (95)
Q Consensus 84 ~~~~l~~l~ 92 (95)
+...|++++
T Consensus 81 ~~~~l~~~~ 89 (143)
T PF00258_consen 81 SKPDLKGKK 89 (143)
T ss_dssp GGSHCTTCE
T ss_pred cccccccce
Confidence 233455544
No 8
>PRK07308 flavodoxin; Validated
Probab=99.77 E-value=1.7e-18 Score=114.00 Aligned_cols=76 Identities=17% Similarity=0.205 Sum_probs=69.2
Q ss_pred cccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
++.|+|+|+||||+.+|+.|++. ...|+.+++.++++.++.++.+++.+||+++|||+|++|+++.+|+++|...+
T Consensus 3 ~~~IvY~S~tGnTe~iA~~ia~~l~~~g~~~~~~~~~~~~~~~l~~~d~vi~g~~t~g~G~~p~~~~~fl~~l~~~~ 79 (146)
T PRK07308 3 LAKIVYASMTGNTEEIADIVADKLRELGHDVDVDECTTVDASDFEDADIAIVATYTYGDGELPDEIVDFYEDLADLD 79 (146)
T ss_pred eEEEEEECCCchHHHHHHHHHHHHHhCCCceEEEecccCCHhHhccCCEEEEEeCccCCCCCCHHHHHHHHHHhcCC
Confidence 46799999999999999999874 46889999999999888889999999999999999999999999999997754
No 9
>PRK12359 flavodoxin FldB; Provisional
Probab=99.76 E-value=3e-18 Score=116.68 Aligned_cols=77 Identities=12% Similarity=0.124 Sum_probs=67.7
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIG 84 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~ 84 (95)
++.|||+|.|||||.+|++|++.+.. -.++++++.+++++++.+++.+||++||||.|++|+++.+||+.|.+.++.
T Consensus 2 ki~I~Y~S~TGNTe~vAe~I~~~lg~-~~v~v~~i~~~~~~~l~~yD~iIlG~pTw~~Gel~~d~~~~~~~l~~~dl~ 78 (172)
T PRK12359 2 KIGLFYGSSTCYTEMAAEKIRDIIGE-ELVDLHNLKDDPPKLMEQYDVLILGIPTWDFGEIQEDWEAVWDQLDDLNLE 78 (172)
T ss_pred eEEEEEECCCCHHHHHHHHHHHHhCC-CeEEEEEcccCChhHHccCCEEEEEecccCCCcCcHHHHHHHHHHhhCCCC
Confidence 46899999999999999999886532 237899999999999999999999999999999999999999998765543
No 10
>PRK06703 flavodoxin; Provisional
Probab=99.75 E-value=6.1e-18 Score=111.75 Aligned_cols=76 Identities=18% Similarity=0.219 Sum_probs=69.2
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
++.|+|+|+||||+.+|+.|++.+ ..|+.+++.++++.++.++.+++.++|++||||+|++|+++..|+++|....
T Consensus 3 kv~IiY~S~tGnT~~iA~~ia~~l~~~g~~v~~~~~~~~~~~~l~~~d~viigspt~~~g~~p~~~~~f~~~l~~~~ 79 (151)
T PRK06703 3 KILIAYASMSGNTEDIADLIKVSLDAFDHEVVLQEMDGMDAEELLAYDGIILGSYTWGDGDLPYEAEDFHEDLENID 79 (151)
T ss_pred eEEEEEECCCchHHHHHHHHHHHHHhcCCceEEEehhhCCHHHHhcCCcEEEEECCCCCCcCcHHHHHHHHHHhcCC
Confidence 578999999999999999998744 6889999999999888889999999999999999999999999999997543
No 11
>COG0369 CysJ Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]
Probab=99.71 E-value=2.5e-17 Score=128.95 Aligned_cols=86 Identities=26% Similarity=0.337 Sum_probs=76.1
Q ss_pred cccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCC
Q psy8996 5 EKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRI 83 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~ 83 (95)
.+.+.|+||||||||+++|+.+++ +...|+++.+.++++|++.++.....++||+||+|+||+|+|+..||++|.....
T Consensus 47 ~~~~~il~~sqtG~a~~~A~~~a~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~i~st~geGe~p~na~~f~~~l~~~~a 126 (587)
T COG0369 47 NKPITVLYGSQTGNAEGLAEELAKELEAAGLQVLVASLDDYKPKDIAEERLLLFVVSTQGEGEPPDNAVAFHEFLKGKKA 126 (587)
T ss_pred CCceEEEEccCCccHHHHHHHHHHHHHhcCCceeecchhhcChhhHHhhhceEEEEccccCCCCCCchHHHHHHhccccc
Confidence 566789999999999999999986 6678899999999999999998778999999999999999999999999987644
Q ss_pred CCccccCCC
Q psy8996 84 GEDANNSIS 92 (95)
Q Consensus 84 ~~~~l~~l~ 92 (95)
+ .|++|+
T Consensus 127 ~--~L~~l~ 133 (587)
T COG0369 127 P--KLDGLR 133 (587)
T ss_pred c--cccccc
Confidence 3 566654
No 12
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=99.70 E-value=9.1e-17 Score=103.79 Aligned_cols=74 Identities=14% Similarity=0.149 Sum_probs=67.4
Q ss_pred ccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCC-CcHHHHHHHHhhC
Q psy8996 8 EPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPP-ENGQEFAQNLHAL 81 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~P-dn~~~F~~~L~~~ 81 (95)
+-|+|+|.||||+.+|+.|++.+ ..|+++++.++++.++.++..++.+||+++||+.|++| ++++.|+++|...
T Consensus 1 v~Iiy~S~tGnT~~~A~~i~~~~~~~g~~v~~~~~~~~~~~~l~~~d~iilgspty~~g~~p~~~~~~f~~~l~~~ 76 (140)
T TIGR01753 1 ILIVYASMTGNTEEMANIIAEGLKEAGAEVDLLEVADADAEDLLSYDAVLLGCSTWGDEDLEQDDFEPFFEELEDI 76 (140)
T ss_pred CEEEEECCCcHHHHHHHHHHHHHHhcCCeEEEEEcccCCHHHHhcCCEEEEEcCCCCCCCCCcchHHHHHHHhhhC
Confidence 45899999999999999998754 57899999999999888999999999999999999999 9999999998764
No 13
>PRK09271 flavodoxin; Provisional
Probab=99.70 E-value=6.8e-17 Score=108.18 Aligned_cols=74 Identities=18% Similarity=0.084 Sum_probs=64.3
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCc----ccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDM----SSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~----~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
++.|+|+|+|||||.+|+.|++.+ ..|+.+++.++++.+. .++.+++.+||+++|||+|.+|+++..|+++|..
T Consensus 2 kv~IvY~S~tGnTe~~A~~ia~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~d~vilgt~T~~~G~~p~~~~~f~~~l~~ 80 (160)
T PRK09271 2 RILLAYASLSGNTREVAREIEERCEEAGHEVDWVETDVQTLAEYPLDPEDYDLYLLGTWTDNAGRTPPEMKRFIAELAE 80 (160)
T ss_pred eEEEEEEcCCchHHHHHHHHHHHHHhCCCeeEEEecccccccccccCcccCCEEEEECcccCCCcCCHHHHHHHHHHHH
Confidence 578999999999999999998754 5788888888876553 3456789999999999999999999999999976
No 14
>TIGR01752 flav_long flavodoxin, long chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in E. coli.
Probab=99.68 E-value=1.8e-16 Score=106.73 Aligned_cols=74 Identities=12% Similarity=0.214 Sum_probs=65.5
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
+.|+|+|.||||+.+|+.|++.+.. ..+++.++.+.++.++.+++.+||++||||.|++|+++..|++.|...+
T Consensus 2 i~IiY~S~tGnTe~vA~~Ia~~l~~-~~~~i~~~~~~~~~~l~~~d~ii~gspty~~g~~p~~~~~fl~~l~~~~ 75 (167)
T TIGR01752 2 IGIFYGTDTGNTEGIAEKIQKELGE-DDVDVFNIAKASKEDLNAYDKLILGTPTWGVGELQEDWEDFLPTLEELD 75 (167)
T ss_pred EEEEEECCCChHHHHHHHHHHHhCC-CceEEEEcccCCHhHHhhCCEEEEEecCCCCCcCcHHHHHHHHHhhcCC
Confidence 6799999999999999999886643 4588999999888889999999999999999999999999999886533
No 15
>COG0716 FldA Flavodoxins [Energy production and conversion]
Probab=99.65 E-value=8.2e-16 Score=102.00 Aligned_cols=79 Identities=13% Similarity=0.161 Sum_probs=65.2
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIG 84 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~ 84 (95)
+++.|+|+|.|||||.+|+.|++.+ ..++.+.+..........+..++.++++++|||.|+.|+++.+|+..+...+.+
T Consensus 2 ~ki~Ivy~S~tGnTe~vA~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~~g~~t~~~ge~~~~~~~f~~~~~~~~~~ 81 (151)
T COG0716 2 MKILIVYGSRTGNTEKVAEIIAEELGADGFEVDIDIRPGIKDDLLESYDELLLGTPTWGAGELPDDWYDFIEELEPIDFK 81 (151)
T ss_pred CeEEEEEEcCCCcHHHHHHHHHHHhccCCceEEEeecCCcchhhhccCCEEEEEeCCCCCCcCCccHHHHHHHhcccCcC
Confidence 4679999999999999999999866 467887666666554444468999999999999999999999999999764333
No 16
>PRK06756 flavodoxin; Provisional
Probab=99.64 E-value=9.7e-16 Score=100.92 Aligned_cols=75 Identities=17% Similarity=0.204 Sum_probs=65.7
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCC-cccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYD-MSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~-~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
++.|+|+|.||||+.+|+.|++.+ ..|..+++.++.+.+ ..++.+++.++|+++|||.|.+|+++..|++.|...
T Consensus 3 kv~IiY~S~tGnTe~vA~~ia~~l~~~g~~v~~~~~~~~~~~~~~~~~d~vi~gspt~~~g~~p~~~~~fl~~l~~~ 79 (148)
T PRK06756 3 KLVMIFASMSGNTEEMADHIAGVIRETENEIEVIDIMDSPEASILEQYDGIILGAYTWGDGDLPDDFLDFYDAMDSI 79 (148)
T ss_pred eEEEEEECCCchHHHHHHHHHHHHhhcCCeEEEeehhccCCHHHHhcCCeEEEEeCCCCCCCCcHHHHHHHHHHhcC
Confidence 678999999999999999998744 578889998887653 567889999999999999999999999999988654
No 17
>TIGR01754 flav_RNR ribonucleotide reductase-associated flavodoxin, putative. This model represents a family of proteins found immediately downstream of ribonucleotide reductase genes in Xyella fastidiosa and some Gram-positive bacteria. It appears to be a highly divergent flavodoxin of the short chain type, more like the flavodoxins of the sulfate-reducing genus Desulfovibrio than like the NifF flavodoxins associated with nitrogen fixation.
Probab=99.64 E-value=5.1e-16 Score=101.69 Aligned_cols=74 Identities=14% Similarity=0.119 Sum_probs=61.6
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hCCCceE-EeeCCCCC--cccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-ANNYTTE-VLRMDEYD--MSSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~-v~~l~~~~--~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
++.|+|+|+||||+.+|+.|++.+ ..|+.++ +.++.+++ +.++.+++.+||++||||.|++|+++..|+++|..
T Consensus 2 ~i~IiY~S~tGnTe~iA~~ia~~l~~~g~~v~~~~~~~~~~~~~~~~~~~d~iilgs~t~~~g~~p~~~~~fl~~l~~ 79 (140)
T TIGR01754 2 RILLAYLSLSGNTEEVAFMIQDYLQKDGHEVDILHRIGTLADAPLDPENYDLVFLGTWTWERGRTPDEMKDFIAELGY 79 (140)
T ss_pred eEEEEEECCCChHHHHHHHHHHHHhhCCeeEEecccccccccCcCChhhCCEEEEEcCeeCCCcCCHHHHHHHHHhcc
Confidence 568999999999999999998755 5787776 55666432 34667889999999999999999999999999854
No 18
>PRK09267 flavodoxin FldA; Validated
Probab=99.62 E-value=1.8e-15 Score=101.60 Aligned_cols=74 Identities=14% Similarity=0.212 Sum_probs=65.3
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
++.|+|+|.||||+.+|++|++.+.. ..+++.++.+.++.++.+++.+||++|||+.|.+|+++..|++.+...
T Consensus 3 ki~IiY~S~tGnT~~vA~~Ia~~l~~-~~~~~~~~~~~~~~~l~~~d~vi~g~pt~~~G~~~~~~~~fl~~~~~~ 76 (169)
T PRK09267 3 KIGIFFGSDTGNTEDIAKMIQKKLGK-DVADVVDIAKASKEDFEAYDLLILGIPTWGYGELQCDWDDFLPELEEI 76 (169)
T ss_pred eEEEEEECCCChHHHHHHHHHHHhCC-CceEEEEhhhCCHhhHhhCCEEEEEecCcCCCCCCHHHHHHHHHHhcC
Confidence 57899999999999999999986643 367899999887788999999999999999999999999999887543
No 19
>PRK05568 flavodoxin; Provisional
Probab=99.54 E-value=2.9e-14 Score=92.89 Aligned_cols=75 Identities=9% Similarity=0.123 Sum_probs=66.6
Q ss_pred ccccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCC-CcHHHHHHHHhh
Q psy8996 6 KREPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPP-ENGQEFAQNLHA 80 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~P-dn~~~F~~~L~~ 80 (95)
+++.|+|.|.||||+.+|+.|++. ...|..+++.++.+.+..++.+++.+||+++||+.|.+| ..+..|++.+..
T Consensus 2 ~~~~IvY~S~~GnT~~~a~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~d~iilgsp~y~~~~~~~~~~~~f~~~~~~ 78 (142)
T PRK05568 2 KKINIIYWSGTGNTEAMANLIAEGAKENGAEVKLLNVSEASVDDVKGADVVALGSPAMGDEVLEEGEMEPFVESISS 78 (142)
T ss_pred CeEEEEEECCCchHHHHHHHHHHHHHHCCCeEEEEECCCCCHHHHHhCCEEEEECCccCcccccchhHHHHHHHhhh
Confidence 368899999999999999999874 457899999999998888899999999999999999874 789999988753
No 20
>PRK05569 flavodoxin; Provisional
Probab=99.53 E-value=4.3e-14 Score=92.09 Aligned_cols=75 Identities=5% Similarity=0.002 Sum_probs=66.5
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCC-CcHHHHHHHHhhC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPP-ENGQEFAQNLHAL 81 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~P-dn~~~F~~~L~~~ 81 (95)
++-|+|+|.||||+.+|+.|++.+ ..|..+++.++.+.+..++.+++.++|+++||+.|.+| ..+..|++.|...
T Consensus 3 ki~iiY~S~tGnT~~iA~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~d~iilgsPty~~~~~~~~~~~~~~~~l~~~ 79 (141)
T PRK05569 3 KVSIIYWSCGGNVEVLANTIADGAKEAGAEVTIKHVADAKVEDVLEADAVAFGSPSMDNNNIEQEEMAPFLDQFKLT 79 (141)
T ss_pred eEEEEEECCCCHHHHHHHHHHHHHHhCCCeEEEEECCcCCHHHHhhCCEEEEECCCcCCCcCChHHHHHHHHHhhcc
Confidence 678999999999999999998744 57888999999998888899999999999999998764 7999999998654
No 21
>TIGR00333 nrdI ribonucleoside-diphosphate reductase 2, operon protein nrdI. Ribonucleotide reductases (RNRs) are enzymes that provide the precursors of DNA synthesis. The three characterized classes of RNRs differ by their metal cofactor and their stable organic radical. The exact function of nrdI within the ribonucleotide reductases has not yet been fully characterised.
Probab=99.46 E-value=1.8e-13 Score=89.07 Aligned_cols=63 Identities=17% Similarity=0.290 Sum_probs=50.7
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
|+|+|.|||++++++++ |+++..+.+++.++.++ .++.+|+ |+|||+|+.|+...+|++.+..
T Consensus 1 IvY~S~TGNte~fv~~l------g~~~~~i~~~~~d~~~~-~~~~vli-TyT~G~G~vP~~~~~Fle~~~n 63 (125)
T TIGR00333 1 IYFSSKTGNVQRFVEKL------GFQHIRIPVDETDDIHV-DQEFVLI-TYTGGFGAVPKQTISFLNKKHN 63 (125)
T ss_pred CEEEcccccHHHHHHHc------CCCcEEeecCCcchhhc-CCCEEEE-ecCCCCCcCCHHHHHHHHhhhh
Confidence 68999999999996544 55566677776665566 6777766 9999999999999999988865
No 22
>KOG1158|consensus
Probab=99.44 E-value=1.6e-13 Score=108.39 Aligned_cols=80 Identities=28% Similarity=0.576 Sum_probs=70.9
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccc-cccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSI-EHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l-~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
-++++-|+||||||+|+.+|.++.+.+ +.|+.+.+.+.+++.-.+ ...++++++.+|||+|+||||+..|++||...+
T Consensus 45 ~~~~~~v~~~s~tgtae~~a~~l~~~~-~~~~~~~~~~~d~~~~~l~~~~~l~~~~~at~g~gd~~dn~~~f~~~l~~~~ 123 (645)
T KOG1158|consen 45 KRVKATVLYGSQTGTAEDFAKRLSEIF-ARFELKVLKVADYDLYALEDHEKLLVVVLATYGEGDPPDNAEAFYQSLTELK 123 (645)
T ss_pred cceeEEEEeccCCCCHHHHHHHHHHHh-hhccccceeecchhhcccccccceeeeeeehhcCCCCCccHHHHHHHHhhcc
Confidence 356778999999999999999999877 888889888888887777 677899999999999999999999999998765
Q ss_pred CC
Q psy8996 83 IG 84 (95)
Q Consensus 83 ~~ 84 (95)
.+
T Consensus 124 ~~ 125 (645)
T KOG1158|consen 124 VL 125 (645)
T ss_pred Cc
Confidence 43
No 23
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=99.37 E-value=1.4e-12 Score=97.93 Aligned_cols=80 Identities=14% Similarity=0.101 Sum_probs=68.1
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHH---hCCCceEEeeCCCCCcccc----cccCeEEEEeccCCCCCCCCcHHHHHH
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHY---ANNYTTEVLRMDEYDMSSI----EHEALILVVASTFGNGDPPENGQEFAQ 76 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~---~~g~~~~v~~l~~~~~~~l----~~~~~vi~v~ST~G~Ge~Pdn~~~F~~ 76 (95)
.++++.|+|+|.||||+.+|+.|++.+ ..|.++++.++.+.++.++ .+++.+||+++||+.|.+|+ +..|++
T Consensus 246 ~~~kv~IvY~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~~d~ii~GspT~~~~~~~~-~~~~l~ 324 (394)
T PRK11921 246 QENQVTILYDTMWNSTRRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFKSKAILVGSSTINRGILSS-TAAILE 324 (394)
T ss_pred CcCcEEEEEECCchHHHHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHhCCEEEEECCCcCccccHH-HHHHHH
Confidence 578999999999999999999998744 4678899999999887665 46899999999999998864 999999
Q ss_pred HHhhCCCC
Q psy8996 77 NLHALRIG 84 (95)
Q Consensus 77 ~L~~~~~~ 84 (95)
+|...+..
T Consensus 325 ~l~~~~~~ 332 (394)
T PRK11921 325 EIKGLGFK 332 (394)
T ss_pred HhhccCcC
Confidence 98776543
No 24
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=99.34 E-value=2.9e-12 Score=98.69 Aligned_cols=79 Identities=16% Similarity=0.137 Sum_probs=67.6
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHH-hC--CCceEEeeCCCCCccccc----ccCeEEEEeccCCCCCCCCcHHHHHH
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHY-AN--NYTTEVLRMDEYDMSSIE----HEALILVVASTFGNGDPPENGQEFAQ 76 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~-~~--g~~~~v~~l~~~~~~~l~----~~~~vi~v~ST~G~Ge~Pdn~~~F~~ 76 (95)
.++++.|+|+|.|||||.+|+.|++.+ +. |.++++.++++.+++++. +++.+||+|+||++|.+| .+..|++
T Consensus 250 ~~~kv~IvY~S~~GnTe~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~~ad~vilGspT~~~~~~p-~~~~fl~ 328 (479)
T PRK05452 250 QEDRITIFYDTMSNNTRMMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVFRSKGVLVGSSTMNNVMMP-KIAGLLE 328 (479)
T ss_pred CcCcEEEEEECCccHHHHHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHhhCCEEEEECCccCCcchH-HHHHHHH
Confidence 578899999999999999999998854 44 578899999998887764 589999999999998888 6999999
Q ss_pred HHhhCCC
Q psy8996 77 NLHALRI 83 (95)
Q Consensus 77 ~L~~~~~ 83 (95)
.|...++
T Consensus 329 ~l~~~~l 335 (479)
T PRK05452 329 EITGLRF 335 (479)
T ss_pred HhhccCc
Confidence 9876643
No 25
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=99.28 E-value=1.4e-11 Score=83.93 Aligned_cols=71 Identities=8% Similarity=0.057 Sum_probs=61.9
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHH
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNL 78 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L 78 (95)
++.|+|+|.||||+.+|+.|++.+..|+.+++.++.+.+..++.+++.+||++++| .|.++..+..|.+..
T Consensus 2 kilIvY~S~~G~T~~iA~~Ia~~l~~g~~v~~~~~~~~~~~~l~~yD~vIlGspi~-~G~~~~~~~~fl~~~ 72 (177)
T PRK11104 2 KTLILYSSRDGQTRKIASYIASELKEGIQCDVVNLHRIEEPDLSDYDRVVIGASIR-YGHFHSALYKFVKKH 72 (177)
T ss_pred cEEEEEECCCChHHHHHHHHHHHhCCCCeEEEEEhhhcCccCHHHCCEEEEECccc-cCCcCHHHHHHHHHH
Confidence 45799999999999999999886644888999999988777889999999999998 688899999998554
No 26
>PRK02551 flavoprotein NrdI; Provisional
Probab=99.22 E-value=1.7e-11 Score=82.30 Aligned_cols=67 Identities=10% Similarity=0.150 Sum_probs=48.8
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHh-C-CCceEEeeCCCCCccc---ccccCeEEEEeccC-CCCCCCCcHH
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYA-N-NYTTEVLRMDEYDMSS---IEHEALILVVASTF-GNGDPPENGQ 72 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~-~-g~~~~v~~l~~~~~~~---l~~~~~vi~v~ST~-G~Ge~Pdn~~ 72 (95)
+++.|+|.|.|||+++++++|.. +.+ + +..+..+++.++..++ +.....+|+|++|| |.|.+|+++.
T Consensus 2 ~~~~I~Y~S~TGNt~rFv~kL~~~~~~~~~~~~~~~i~~~~~i~~~~~~~~~~~p~vli~pTY~~gG~~~~~~~ 75 (154)
T PRK02551 2 KTITLVYISLSGNTRSFVKRLSDYLATQHKDIEVNPINIKDLIHETTDFFPETEPFVAFLPTYLEGGNGIDNGD 75 (154)
T ss_pred CceEEEEEeCChhHHHHHHHHhcHHhhccccccceecccccccCccccccccCCCEEEEEeeecCCCCCcccCc
Confidence 45789999999999999999974 333 2 4445556655553322 56678899999999 8897776543
No 27
>KOG1160|consensus
Probab=99.17 E-value=9.8e-11 Score=89.42 Aligned_cols=80 Identities=19% Similarity=0.181 Sum_probs=66.6
Q ss_pred cEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC----CC
Q psy8996 9 PAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL----RI 83 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~----~~ 83 (95)
-|||+|+||||+.+|+++.+.+ .....+++++++ |++.+++ +..++|+++||-+|+|| +..|..||.+. +.
T Consensus 50 ~vfy~s~~GtA~~~A~~~~e~~~sld~~~~llnl~-y~~~d~p-en~~~~lv~~~~~~~~~--~d~~~~~L~Esa~DFRv 125 (601)
T KOG1160|consen 50 KVFYSSLTGTAKKAAKSVHEKLKSLDELPKLLNLD-YSDFDVP-ENALYFLVLPSYDIDPP--LDYFLQWLEESANDFRV 125 (601)
T ss_pred eEEEEeccchHHHHHHHHHHHHHhcccchhhcCCC-CCccCCC-cceEEEEEecccCCCCc--HHHHHHHHHhhhhcccc
Confidence 6999999999999999998755 456668899998 8888888 88999999999999999 88999999753 24
Q ss_pred CCccccCCC
Q psy8996 84 GEDANNSIS 92 (95)
Q Consensus 84 ~~~~l~~l~ 92 (95)
++..|+++.
T Consensus 126 ~~~~L~~~~ 134 (601)
T KOG1160|consen 126 GSFPLRGLV 134 (601)
T ss_pred CCccccCce
Confidence 444566654
No 28
>PRK06242 flavodoxin; Provisional
Probab=99.14 E-value=9.2e-11 Score=76.85 Aligned_cols=68 Identities=10% Similarity=0.046 Sum_probs=57.7
Q ss_pred cccEEEeCC-CchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 7 REPAFSISE-VHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 7 ~~~~~ygS~-tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
++-|+|.|. ||||+.+|+.|++.+ .+++.++.+.+..++.+++.+||+++|| .|.+|..++.|.+.+.
T Consensus 2 k~~IiY~S~~tGnT~~~A~~ia~~l----~~~~~~i~~~~~~~~~~~d~ii~g~pvy-~~~~~~~~~~fl~~~~ 70 (150)
T PRK06242 2 KALIVYASVHHGNTEKIAKAIAEVL----DAEVIDPGDVNPEDLSEYDLIGFGSGIY-FGKFHKSLLKLIEKLP 70 (150)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHhc----CcEEecHHHCCcccHhHCCEEEEeCchh-cCCcCHHHHHHHHhhh
Confidence 467999999 899999999998855 3577788777677888999999999999 4888999999988774
No 29
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=99.08 E-value=3.7e-10 Score=77.96 Aligned_cols=74 Identities=12% Similarity=0.007 Sum_probs=61.5
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hC-CCceEEeeCCCCC--------------------cccccccCeEEEEeccCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-AN-NYTTEVLRMDEYD--------------------MSSIEHEALILVVASTFGN 64 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~-g~~~~v~~l~~~~--------------------~~~l~~~~~vi~v~ST~G~ 64 (95)
++-|+|+|.+||++.+|+.+++.+ .. |.++++.++.+.. .+++..++.+||.++|| .
T Consensus 2 kilIiY~S~~G~T~~lA~~ia~g~~~~~g~ev~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~GSPty-~ 80 (197)
T TIGR01755 2 KVLVLYYSMYGHIETMARAVAEGAREVDGAEVVVKRVPETVPEEVAEKSHGKTDQTAPVATPQELADYDAIIFGTPTR-F 80 (197)
T ss_pred eEEEEEeCCCCHHHHHHHHHHHHHHhcCCCEEEEEeccccCcHHHHHhccCCcccCCccCCHHHHHHCCEEEEEeccc-c
Confidence 468999999999999999998744 44 8889988886532 25567889999999999 6
Q ss_pred CCCCCcHHHHHHHHhhC
Q psy8996 65 GDPPENGQEFAQNLHAL 81 (95)
Q Consensus 65 Ge~Pdn~~~F~~~L~~~ 81 (95)
|.+|..++.|++++...
T Consensus 81 g~~~~~lk~fld~~~~~ 97 (197)
T TIGR01755 81 GNMASQMRNFLDQTGGL 97 (197)
T ss_pred cCccHHHHHHHHhcccc
Confidence 88999999999998643
No 30
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=99.06 E-value=5e-10 Score=77.23 Aligned_cols=74 Identities=11% Similarity=0.021 Sum_probs=62.9
Q ss_pred cccEEEeCCCchHHHHHHHHHHH-Hh-CCCceEEeeCCCCC--------------------cccccccCeEEEEeccCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVH-YA-NNYTTEVLRMDEYD--------------------MSSIEHEALILVVASTFGN 64 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~-~~-~g~~~~v~~l~~~~--------------------~~~l~~~~~vi~v~ST~G~ 64 (95)
++-|+|+|.+|||+.+|+.+++. .+ .|.++++.++.+.. .++|..++.+||+++|| .
T Consensus 3 kilIvy~S~~G~T~~lA~~ia~g~~~~~G~ev~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~gsPty-~ 81 (200)
T PRK03767 3 KVLVLYYSMYGHIETMAEAVAEGAREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAPVATPDELADYDAIIFGTPTR-F 81 (200)
T ss_pred eEEEEEcCCCCHHHHHHHHHHHHHhhcCCcEEEEEeccccCCHHHHHhcCCCcccCCCccCHHHHHhCCEEEEEeccc-C
Confidence 68899999999999999999874 45 78899999885422 45677899999999999 8
Q ss_pred CCCCCcHHHHHHHHhhC
Q psy8996 65 GDPPENGQEFAQNLHAL 81 (95)
Q Consensus 65 Ge~Pdn~~~F~~~L~~~ 81 (95)
|.+|..++.|++++...
T Consensus 82 g~~~~~lk~fld~~~~~ 98 (200)
T PRK03767 82 GNMAGQMRNFLDQTGGL 98 (200)
T ss_pred CCchHHHHHHHHHhccc
Confidence 99999999999998643
No 31
>PRK03600 nrdI ribonucleotide reductase stimulatory protein; Reviewed
Probab=99.04 E-value=7.5e-10 Score=72.75 Aligned_cols=65 Identities=14% Similarity=0.300 Sum_probs=50.8
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCC----CCCCCcHHHHHHHHhh
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGN----GDPPENGQEFAQNLHA 80 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~----Ge~Pdn~~~F~~~L~~ 80 (95)
.-|+|.|.|||++++|++|... ...+++.+. +.+...+.+++|++|||+ |++|+...+|++.+..
T Consensus 3 ~~I~Y~S~TGNt~~f~~kl~~~------~~~i~i~~~--~~~~~~~~~~lv~PTy~~g~~~G~vP~~v~~Fl~~~~n 71 (134)
T PRK03600 3 MLVYFSSKTGNTHRFVQKLGLP------ATRIPINER--ERLEVDEPYILITPTYGGGGTAGAVPKQVIRFLNDEHN 71 (134)
T ss_pred EEEEEECCChhHHHHHHHhCCc------ceEEecCCC--ccccCCCCEEEEEeccCCCCcCCcccHHHHHHHhcccc
Confidence 4589999999999999988432 245566542 345667889999999999 6999999999877543
No 32
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=98.97 E-value=1.9e-09 Score=70.81 Aligned_cols=68 Identities=10% Similarity=0.173 Sum_probs=53.7
Q ss_pred EEEeCCCchHHHHHHHHHHHHh-CCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 10 AFSISEVHYANNYTTESEVHYA-NNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~-~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
|+|.|.||||+.+|+.|++.+. .+..+++.++++ +..++.+++.+||++++|+ |.+|..+++|.+.+.
T Consensus 2 IvY~S~~G~Tk~~A~~ia~~l~~~~~~v~~~~~~~-~~~~~~~yD~vi~gspiy~-g~~~~~~~~fi~~~~ 70 (143)
T PF12724_consen 2 IVYFSKTGNTKKIAEWIAEKLGEEGELVDLEKVEE-DEPDLSDYDAVIFGSPIYA-GRIPGEMREFIKKNK 70 (143)
T ss_pred EEEECCCchHHHHHHHHHHHHhhhccEEEHHhhhh-cccccccCCEEEEEEEEEC-CcCCHHHHHHHHHHH
Confidence 7999999999999999998654 444444444321 3457889999999999995 889999999998754
No 33
>PF12641 Flavodoxin_3: Flavodoxin domain
Probab=98.92 E-value=3.8e-09 Score=71.22 Aligned_cols=67 Identities=15% Similarity=0.175 Sum_probs=56.6
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
|+|.|.||||+.+|+.|++.+.. ..+.++.+.+.. +.++++++++..++ .|.++..+++|.+.|..+
T Consensus 2 IvYsS~TGNTkkvA~aI~~~l~~---~~~~~~~~~~~~-~~~yD~i~lG~w~d-~G~~d~~~~~fl~~l~~K 68 (160)
T PF12641_consen 2 IVYSSRTGNTKKVAEAIAEALGA---KDIVSVEEPPED-LEDYDLIFLGFWID-KGTPDKDMKEFLKKLKGK 68 (160)
T ss_pred EEEECCCChHHHHHHHHHHHCCC---ceeEeccccccC-CCCCCEEEEEcCcc-CCCCCHHHHHHHHHccCC
Confidence 79999999999999999886543 577888876533 88999999999999 589999999999888653
No 34
>PRK07116 flavodoxin; Provisional
Probab=98.69 E-value=4.7e-08 Score=65.25 Aligned_cols=71 Identities=10% Similarity=0.065 Sum_probs=51.3
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCC-----------------------------cccccccCeEE
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYD-----------------------------MSSIEHEALIL 56 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~-----------------------------~~~l~~~~~vi 56 (95)
.++-|+|.|.||||+.+|+.|++.+.... .++.+...|+ ..++.+++.++
T Consensus 3 ~k~lIvY~S~tGnT~~iA~~Ia~~l~~d~-~~i~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~~D~Ii 81 (160)
T PRK07116 3 NKTLVAYFSATGTTKKVAEKLAEVTGADL-FEIKPEQPYTAADLDWNDKKSRSSVEMADKSSRPAIAKKIENIAEYDVIF 81 (160)
T ss_pred CcEEEEEECCCCcHHHHHHHHHHHhcCCe-EEEeeCCCCCcchhhhhHhhhhHHHHhhcccchHHHHHHHhhHHhCCEEE
Confidence 45789999999999999999998664221 2333222111 22567789999
Q ss_pred EEeccCCCCCCCCcHHHHHHHH
Q psy8996 57 VVASTFGNGDPPENGQEFAQNL 78 (95)
Q Consensus 57 ~v~ST~G~Ge~Pdn~~~F~~~L 78 (95)
|++++|+ |.+|...+.|.+.+
T Consensus 82 ig~Pv~~-~~~p~~v~~fl~~~ 102 (160)
T PRK07116 82 LGFPIWW-YVAPRIINTFLESY 102 (160)
T ss_pred EECChhc-cccHHHHHHHHHhc
Confidence 9999995 88888888887654
No 35
>PF07972 Flavodoxin_NdrI: NrdI Flavodoxin like ; InterPro: IPR004465 Ribonucleotide reductases (RNRs) are enzymes that provide the precursors of DNA synthesis. The three characterised classes of RNRs differ by their metal cofactor and their stable organic radical. Class Ib RNR is encoded in four different genes: nrdH, nrdI, nrdE and nrdF []. The exact function of NrdI within the ribonucleotide reductases has not yet been fully characterised.; PDB: 1RLJ_A 3N39_C 3N3B_D 3N3A_C 2XOE_A 2XOD_A 2X2P_A 2X2O_A.
Probab=98.46 E-value=8.1e-07 Score=57.61 Aligned_cols=63 Identities=14% Similarity=0.275 Sum_probs=38.8
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCC----CCCcHHHHHHH
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGD----PPENGQEFAQN 77 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge----~Pdn~~~F~~~ 77 (95)
|+|.|-|||+++++++|..-. +..-+.+...+ .++.-.+..|++|.|||.|+ .|+...+|.+.
T Consensus 1 I~Y~S~tGNt~rFv~kL~~~~----~~~~i~~~~~~-~~~~~~ep~vLitpTy~~G~~~~~vp~~v~~FL~~ 67 (122)
T PF07972_consen 1 IYYSSLTGNTRRFVEKLGLYA----PAIRIPIREIS-PDLEVDEPFVLITPTYGFGENDGGVPKQVIRFLEN 67 (122)
T ss_dssp EEE--SSSHHHHHHHHH-S------SEEEE-SSCTT-STS--SS-EEEEEE-BTTTBSSTSS-HHHHHHHHS
T ss_pred CEEECCCcCHHHHHHHHcccc----hhccccccccc-ccccCCCCEEEEecccCCCCCCCCCCHHHHHHHHH
Confidence 689999999999999885411 22222333322 23445677899999999999 99999999873
No 36
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=98.37 E-value=5.7e-07 Score=60.85 Aligned_cols=70 Identities=10% Similarity=0.078 Sum_probs=59.5
Q ss_pred cccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHH
Q psy8996 7 REPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQN 77 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~ 77 (95)
|+-|+|+|.+|+|..+|+.|+. +...|++|++.++.....-+|.+++.+|+..|-+ .|-.-.....|...
T Consensus 2 k~LIlYstr~GqT~kIA~~iA~~L~e~g~qvdi~dl~~~~~~~l~~ydavVIgAsI~-~~h~~~~~~~Fv~k 72 (175)
T COG4635 2 KTLILYSTRDGQTRKIAEYIASHLRESGIQVDIQDLHAVEEPALEDYDAVVIGASIR-YGHFHEAVQSFVKK 72 (175)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHhhhcCCeeeeeehhhhhccChhhCceEEEecchh-hhhhHHHHHHHHHH
Confidence 4579999999999999999986 5569999999999986545788999999999998 78777777777654
No 37
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=98.35 E-value=2.2e-06 Score=64.87 Aligned_cols=79 Identities=15% Similarity=0.061 Sum_probs=63.2
Q ss_pred cccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCccc----ccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 5 EKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSS----IEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~----l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
+++|.++|.|..|+++.+|+.|++ +.+.|.+|.++.+.+.++.+ +.+.+.+++.++|++.+ ++.....+.-.+.
T Consensus 246 ~~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI~~~i~~a~~~vvGsPT~~~~-~~p~i~~~l~~v~ 324 (388)
T COG0426 246 KGKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPSEIVEEILDAKGLVVGSPTINGG-AHPPIQTALGYVL 324 (388)
T ss_pred cceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHHHHHHHHhhcceEEEecCcccCC-CCchHHHHHHHHH
Confidence 346999999999999999999987 66799999999999877654 46889999999999755 5555666666666
Q ss_pred hCCCC
Q psy8996 80 ALRIG 84 (95)
Q Consensus 80 ~~~~~ 84 (95)
....+
T Consensus 325 ~~~~~ 329 (388)
T COG0426 325 ALAPK 329 (388)
T ss_pred hccCc
Confidence 54433
No 38
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=98.16 E-value=3e-06 Score=55.34 Aligned_cols=72 Identities=13% Similarity=0.207 Sum_probs=59.5
Q ss_pred cccEEEeCCC--chHHHHHHHHHHHH-hCCCceEEeeCCCCC---------------------cccccccCeEEEEeccC
Q psy8996 7 REPAFSISEV--HYANNYTTESEVHY-ANNYTTEVLRMDEYD---------------------MSSIEHEALILVVASTF 62 (95)
Q Consensus 7 ~~~~~ygS~t--G~ae~~A~~l~~~~-~~g~~~~v~~l~~~~---------------------~~~l~~~~~vi~v~ST~ 62 (95)
++-+++||.. ||++.+|+.+.+.+ +.|.+++++++.+++ .+.+...|.+||++.+|
T Consensus 2 kilii~gS~r~~~~t~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~iI~~sP~y 81 (152)
T PF03358_consen 2 KILIINGSPRKNSNTRKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEADGIIFASPVY 81 (152)
T ss_dssp EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSSEEEEEEEEB
T ss_pred EEEEEECcCCCCCHHHHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCCeEEEeecEE
Confidence 4678999975 99999999998754 579999999999861 12345789999999999
Q ss_pred CCCCCCCcHHHHHHHHh
Q psy8996 63 GNGDPPENGQEFAQNLH 79 (95)
Q Consensus 63 G~Ge~Pdn~~~F~~~L~ 79 (95)
.|.+|.-.+.|++++.
T Consensus 82 -~~~~s~~lK~~lD~~~ 97 (152)
T PF03358_consen 82 -NGSVSGQLKNFLDRLS 97 (152)
T ss_dssp -TTBE-HHHHHHHHTHH
T ss_pred -cCcCChhhhHHHHHhc
Confidence 7889999999999997
No 39
>PF12682 Flavodoxin_4: Flavodoxin; PDB: 3EDO_B 3KLB_A.
Probab=97.94 E-value=1.2e-05 Score=53.85 Aligned_cols=68 Identities=12% Similarity=0.173 Sum_probs=43.5
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc-----------------------------ccccccCeEEEE
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM-----------------------------SSIEHEALILVV 58 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~-----------------------------~~l~~~~~vi~v 58 (95)
+-|+|=|.||||+.+|+.|++.+...+ .++.+...|.. .++.++|.|+++
T Consensus 2 ~LVvYyS~tGnT~~vA~~Ia~~~gadi-~eI~~~~~Y~~~~~~y~~~~~~~~~e~~~~~~~P~i~~~~~d~~~YD~I~lG 80 (156)
T PF12682_consen 2 TLVVYYSRTGNTKKVAEKIAEKTGADI-FEIEPVKPYPSDDLDYRKCISRAKREIKDNNERPEIKPQIPDLSDYDTIFLG 80 (156)
T ss_dssp EEEEE--SSSHHHHHHHHHHHCCT-EE-EE-BBSTTSSTGGCSCCHCCCHHHHHHTTTT----BC---S-GGG-SEEEEE
T ss_pred EEEEEECCCchHHHHHHHHHHHHCCCE-EEEEeCCCCCcchhhHHHHHHHHHHHHhcccccccccccccCcccCCEEEEe
Confidence 468999999999999999987442110 12222221111 156789999999
Q ss_pred eccCCCCCCCCcHHHHHHH
Q psy8996 59 ASTFGNGDPPENGQEFAQN 77 (95)
Q Consensus 59 ~ST~G~Ge~Pdn~~~F~~~ 77 (95)
+..| .|.+|.....|.+.
T Consensus 81 ~PvW-~~~~~~pv~tFL~~ 98 (156)
T PF12682_consen 81 TPVW-WGTPPPPVRTFLEQ 98 (156)
T ss_dssp EEEE-TTEE-CHHHHHHHC
T ss_pred chHH-cCCCCHHHHHHHHh
Confidence 9999 79999999888654
No 40
>COG1780 NrdI Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]
Probab=97.84 E-value=3.9e-05 Score=50.67 Aligned_cols=62 Identities=15% Similarity=0.233 Sum_probs=43.2
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCC----CCCCcHHHHHH
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNG----DPPENGQEFAQ 76 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~G----e~Pdn~~~F~~ 76 (95)
.-++|-|-|||+.++.++|.- ..+.+.+.... +.+.-.+..|+|+.|||.| +.|..-.+|..
T Consensus 3 ~~v~f~S~SgNt~RFv~kL~~---~~~~I~~~~~~----~~~~v~epyvlitpTyg~G~~~~~Vp~~vi~FLn 68 (141)
T COG1780 3 LLVYFSSLSGNTHRFVEKLGL---PAVRIPLNREE----DPIEVDEPYVLITPTYGGGGTVGAVPKQVIRFLN 68 (141)
T ss_pred eEEEEEecCccHHHHHHHhCC---Cceeccccccc----CCccCCCCeEEEeccccCCCccCccCHHHHHHhc
Confidence 347899999999999999861 11122222111 1244456788999999999 99999888863
No 41
>PRK06934 flavodoxin; Provisional
Probab=97.17 E-value=0.0014 Score=46.37 Aligned_cols=64 Identities=6% Similarity=-0.027 Sum_probs=44.5
Q ss_pred eCCCchHHHHHHHHHHHHhCCCceEEeeCCCC-------------------Cc------ccccccCeEEEEeccCCCCCC
Q psy8996 13 ISEVHYANNYTTESEVHYANNYTTEVLRMDEY-------------------DM------SSIEHEALILVVASTFGNGDP 67 (95)
Q Consensus 13 gS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~-------------------~~------~~l~~~~~vi~v~ST~G~Ge~ 67 (95)
|+.||||+.+|+.|++.+...+ .++...+.| .| .++.+++.|+++...| -|.+
T Consensus 67 ~~~~GnTk~vAe~Ia~~~gaDl-~eI~~~~~Y~~~yd~~~~~a~~E~~~~~~P~L~~~~~dl~~YD~I~IG~PIW-wg~~ 144 (221)
T PRK06934 67 GEVLGSTQYVAQIIQEETGGDL-FRIETVKPYPRQHDPLLKYAEQEVKEGGRPEMREKIQNLADYDQIFIGYPIW-WYKM 144 (221)
T ss_pred CCCCCHHHHHHHHHHHHHCCCE-EEEEEccccCCCCchhhhHHHHhhhcCCCHHHHHHHHhHHhCCEEEEEcchh-hccc
Confidence 3445999999999998764321 122232222 12 3567899999999999 6889
Q ss_pred CCcHHHHHHHH
Q psy8996 68 PENGQEFAQNL 78 (95)
Q Consensus 68 Pdn~~~F~~~L 78 (95)
|.-.+.|.+..
T Consensus 145 P~~V~tFLe~~ 155 (221)
T PRK06934 145 PMVMYSFFEQH 155 (221)
T ss_pred cHHHHHHHHhc
Confidence 99888886544
No 42
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=97.06 E-value=0.0033 Score=42.20 Aligned_cols=71 Identities=7% Similarity=0.041 Sum_probs=55.5
Q ss_pred ccEEEeC--CCchHHHHHHHHHHHH-hCCCceEEeeCCCCCccc-----------------ccccCeEEEEeccCCCCCC
Q psy8996 8 EPAFSIS--EVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSS-----------------IEHEALILVVASTFGNGDP 67 (95)
Q Consensus 8 ~~~~ygS--~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~-----------------l~~~~~vi~v~ST~G~Ge~ 67 (95)
+-++.|| ..+++..+++.+.+.+ ..|.+++++++.+++..+ +...|.+||++..| .|.+
T Consensus 2 il~I~gS~r~~S~t~~l~~~~~~~l~~~~~~~~~idl~~l~~~~~~~~~~~~~~~~~l~~~i~~AD~iI~~sP~Y-~~si 80 (171)
T TIGR03567 2 VLTLSGSPSTPSRSSALLRHVREALQEQGVEVDHLSVRDLPAEDLLFARFDSPAIKAATAQVAQADGVVVATPVY-KASY 80 (171)
T ss_pred EEEEECCCCCCChHHHHHHHHHHHHHHCCCeEEEEEecCCChHHhhhcCCCCHHHHHHHHHHHHCCEEEEECCcc-cCCC
Confidence 4577888 4788999999997644 468888888887654322 22568999999999 7889
Q ss_pred CCcHHHHHHHHh
Q psy8996 68 PENGQEFAQNLH 79 (95)
Q Consensus 68 Pdn~~~F~~~L~ 79 (95)
|...+.|.+|+.
T Consensus 81 p~~LK~~iD~~~ 92 (171)
T TIGR03567 81 SGVLKALLDLLP 92 (171)
T ss_pred CHHHHHHHHhCC
Confidence 999999999984
No 43
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=96.98 E-value=0.0033 Score=43.29 Aligned_cols=72 Identities=6% Similarity=0.007 Sum_probs=57.6
Q ss_pred cccEEEeCC--CchHHHHHHHHHH-HHhCCCceEEeeCCCCCccc-----------------ccccCeEEEEeccCCCCC
Q psy8996 7 REPAFSISE--VHYANNYTTESEV-HYANNYTTEVLRMDEYDMSS-----------------IEHEALILVVASTFGNGD 66 (95)
Q Consensus 7 ~~~~~ygS~--tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~-----------------l~~~~~vi~v~ST~G~Ge 66 (95)
++-+++||- .+++..+++.+.+ +.+.|.+++++++.++++.+ +...|.+||++..| .|.
T Consensus 2 kIl~I~GSpr~~S~t~~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y-~~s 80 (191)
T PRK10569 2 RVITLAGSPRFPSRSSALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADGLIVATPVY-KAS 80 (191)
T ss_pred EEEEEEcCCCCCChHHHHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCEEEEECCcc-CCC
Confidence 467888985 5888999999876 44588899988888765432 23568999999999 899
Q ss_pred CCCcHHHHHHHHh
Q psy8996 67 PPENGQEFAQNLH 79 (95)
Q Consensus 67 ~Pdn~~~F~~~L~ 79 (95)
.|.-.+.|++|+.
T Consensus 81 ~pg~LKn~iD~l~ 93 (191)
T PRK10569 81 FSGALKTLLDLLP 93 (191)
T ss_pred CCHHHHHHHHhCC
Confidence 9999999999983
No 44
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=96.86 E-value=0.0044 Score=41.64 Aligned_cols=72 Identities=10% Similarity=0.051 Sum_probs=55.6
Q ss_pred cccEEEeCC--CchHHHHHHHHHHHH--hCCCceEEeeCCCCCc-------------------ccccccCeEEEEeccCC
Q psy8996 7 REPAFSISE--VHYANNYTTESEVHY--ANNYTTEVLRMDEYDM-------------------SSIEHEALILVVASTFG 63 (95)
Q Consensus 7 ~~~~~ygS~--tG~ae~~A~~l~~~~--~~g~~~~v~~l~~~~~-------------------~~l~~~~~vi~v~ST~G 63 (95)
++-++.||. .+++..+|+.+.+.+ ..|++++++++.++++ +.+...|.+||++..|
T Consensus 1 kIl~i~GS~r~~s~t~~l~~~~~~~l~~~~g~ev~~idL~~~~~~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y- 79 (174)
T TIGR03566 1 KVVGVSGSLTRPSRTLALVEALVAELAARLGISPRTIDLADLAPSLGGALWRSQLPPDAERILQAIESADLLVVGSPVY- 79 (174)
T ss_pred CEEEEECCCCCCChHHHHHHHHHHHHHHhcCCeEEEEEhhhcChhhccccccCCCCHHHHHHHHHHHHCCEEEEECCcC-
Confidence 356888986 589999999987643 3588888888766521 1234668999999999
Q ss_pred CCCCCCcHHHHHHHHh
Q psy8996 64 NGDPPENGQEFAQNLH 79 (95)
Q Consensus 64 ~Ge~Pdn~~~F~~~L~ 79 (95)
.|.+|...+.|++++.
T Consensus 80 ~~s~~~~LKn~lD~~~ 95 (174)
T TIGR03566 80 RGSYTGLFKHLFDLVD 95 (174)
T ss_pred cCcCcHHHHHHHHhcC
Confidence 7889999999999874
No 45
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=96.78 E-value=0.0047 Score=42.66 Aligned_cols=69 Identities=10% Similarity=0.097 Sum_probs=53.9
Q ss_pred ccEEEeCC--CchHHHHHHHHHH-HHhCCCceEEeeCCCCCc----------------------cc----ccccCeEEEE
Q psy8996 8 EPAFSISE--VHYANNYTTESEV-HYANNYTTEVLRMDEYDM----------------------SS----IEHEALILVV 58 (95)
Q Consensus 8 ~~~~ygS~--tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~----------------------~~----l~~~~~vi~v 58 (95)
+..+.||- .||++.+++.+.+ +...|..++++.+.+.+. ++ +...|.+||.
T Consensus 3 i~~I~gs~r~~G~t~~l~~~~~~g~~~~G~E~~~i~v~~~~i~~c~~c~~c~~~~~c~~~dD~~~~i~~~l~~aD~iI~g 82 (207)
T COG0655 3 ILGINGSPRSNGNTAKLAEAVLEGAEEAGAEVEIIRLPEKNIKPCTGCFACWKKKPCVIKDDDMNEIYEKLLEADGIIFG 82 (207)
T ss_pred eeEEEecCCCCCcHHHHHHHHHHHHHHcCCEEEEEEecCCCcccchHHHhhhccCCCCCCcccHHHHHHHHHHCCEEEEe
Confidence 34455542 7999999999987 445799999888886521 11 4457999999
Q ss_pred eccCCCCCCCCcHHHHHHH
Q psy8996 59 ASTFGNGDPPENGQEFAQN 77 (95)
Q Consensus 59 ~ST~G~Ge~Pdn~~~F~~~ 77 (95)
+.|| .|.++..++.|++.
T Consensus 83 sPvy-~g~vsa~~K~fiDR 100 (207)
T COG0655 83 SPVY-FGNVSAQMKAFIDR 100 (207)
T ss_pred CCee-cCCchHHHHHHHhh
Confidence 9999 79999999999998
No 46
>PRK00170 azoreductase; Reviewed
Probab=96.46 E-value=0.016 Score=39.34 Aligned_cols=74 Identities=8% Similarity=-0.006 Sum_probs=57.0
Q ss_pred ccccEEEeCC--C-chHHHHHHHHHH-HHhC--CCceEEeeCCCCCc---------------------------------
Q psy8996 6 KREPAFSISE--V-HYANNYTTESEV-HYAN--NYTTEVLRMDEYDM--------------------------------- 46 (95)
Q Consensus 6 ~~~~~~ygS~--t-G~ae~~A~~l~~-~~~~--g~~~~v~~l~~~~~--------------------------------- 46 (95)
+++-+++||- . |++..+|+.+.+ +.+. +.++++.++.+.+.
T Consensus 2 mkil~i~gSpr~~~s~s~~l~~~~~~~l~~~~~~~~v~~~dL~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~ 81 (201)
T PRK00170 2 SKVLVIKSSILGDYSQSMQLGDAFIEAYKEAHPDDEVTVRDLAAEPIPVLDGEVVGALGKSAETLTPRQQEAVALSDELL 81 (201)
T ss_pred CeEEEEecCCCCCCcHHHHHHHHHHHHHHHhCCCCeEEEEECCCCCCCCCCHHHHHhhcCCcccCCHHHHHHHHHHHHHH
Confidence 3678899984 4 889999999876 4445 78888898875432
Q ss_pred ccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 47 SSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 47 ~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
+.+...+.+||++.-| .+.+|.-.+.|++++..
T Consensus 82 ~~i~~AD~iV~~sP~y-~~~~pa~LK~~iDrv~~ 114 (201)
T PRK00170 82 EEFLAADKIVIAAPMY-NFSIPTQLKAYIDLIAR 114 (201)
T ss_pred HHHHHCCEEEEeeccc-ccCCcHHHHHHHHhhee
Confidence 1144568999999999 78899999999999854
No 47
>PRK01355 azoreductase; Reviewed
Probab=96.28 E-value=0.023 Score=39.07 Aligned_cols=74 Identities=9% Similarity=0.108 Sum_probs=56.6
Q ss_pred ccccEEEeCC----CchHHHHHHHHHH-HHh--CCCceEEeeCCCCCcc-----------------------cccccCeE
Q psy8996 6 KREPAFSISE----VHYANNYTTESEV-HYA--NNYTTEVLRMDEYDMS-----------------------SIEHEALI 55 (95)
Q Consensus 6 ~~~~~~ygS~----tG~ae~~A~~l~~-~~~--~g~~~~v~~l~~~~~~-----------------------~l~~~~~v 55 (95)
+++-++.||- .|++..+|+.+.+ +.+ .+..++++++.+.+.. .+...|.+
T Consensus 2 ~kIliI~gSpr~~~~s~s~~l~~~~~~~~~~~~~~~~v~~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~i 81 (199)
T PRK01355 2 SKVLVIKGSMVAKEKSFSSALTDKFVEEYKKVNPNDEIIILDLNETKVGSVTLTSENFKTFFKEEVSDKYINQLKSVDKV 81 (199)
T ss_pred CeEEEEECCCCCCCCcHHHHHHHHHHHHHHHhCCCCeEEEEeCCCCCCCcccCCHHHHHhhcCchhHHHHHHHHHhCCEE
Confidence 4678899987 4889999999876 444 3577888888764431 13356899
Q ss_pred EEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 56 LVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 56 i~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
||++..| .+.+|.-.+.|++++..
T Consensus 82 V~~sP~y-~~~ipa~LK~~iDrv~~ 105 (199)
T PRK01355 82 VISCPMT-NFNVPATLKNYLDHIAV 105 (199)
T ss_pred EEEcCcc-ccCChHHHHHHHHHHHh
Confidence 9999999 78899999999999864
No 48
>PRK09739 hypothetical protein; Provisional
Probab=95.88 E-value=0.026 Score=38.61 Aligned_cols=74 Identities=8% Similarity=-0.020 Sum_probs=56.5
Q ss_pred ccccEEEeCC--CchHHHHHHHHHH-HHhCCCceEEeeCCCCCc---------------------------ccccccCeE
Q psy8996 6 KREPAFSISE--VHYANNYTTESEV-HYANNYTTEVLRMDEYDM---------------------------SSIEHEALI 55 (95)
Q Consensus 6 ~~~~~~ygS~--tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~---------------------------~~l~~~~~v 55 (95)
+++-+++||- .+++..+++.+.+ +.+.|.+++++++.+.+. +.|...+.+
T Consensus 4 mkiliI~~sp~~~s~s~~l~~~~~~~~~~~g~~v~~~dL~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~i 83 (199)
T PRK09739 4 MRIYLVWAHPRHDSLTAKVAEAIHQRAQERGHQVEELDLYRSGFDPVLTPEDEPDWKNPDKRYSPEVHQLYSELLEHDAL 83 (199)
T ss_pred ceEEEEEcCCCCCCcHHHHHHHHHHHHHHCCCEEEEEEhhhhCCCCCCCHHHhhhhcccCCCCCHHHHHHHHHHHhCCEE
Confidence 4678888874 5788999999976 445788888888765321 124567899
Q ss_pred EEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 56 LVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 56 i~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
||++.-| .+.+|.-.+.|++.+..
T Consensus 84 V~~~P~y-~~~~Pa~LK~~iD~v~~ 107 (199)
T PRK09739 84 VFVFPLW-WYSFPAMLKGYIDRVWN 107 (199)
T ss_pred EEECchh-hhcchHHHHHHHHHHcc
Confidence 9999999 67899999999988753
No 49
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=94.61 E-value=0.14 Score=36.14 Aligned_cols=73 Identities=10% Similarity=-0.007 Sum_probs=53.6
Q ss_pred cccEEEeCC--CchHHHHHHHHHHHHh-CCCceEEeeCCCCCcc---------------cccccCeEEEEeccCCCCCCC
Q psy8996 7 REPAFSISE--VHYANNYTTESEVHYA-NNYTTEVLRMDEYDMS---------------SIEHEALILVVASTFGNGDPP 68 (95)
Q Consensus 7 ~~~~~ygS~--tG~ae~~A~~l~~~~~-~g~~~~v~~l~~~~~~---------------~l~~~~~vi~v~ST~G~Ge~P 68 (95)
++.++.||. .=++..+|+.+.+.+. .|+.++++++.+++.- .+...+.+||+|.-| +|..|
T Consensus 28 kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~~~p~v~~l~~~v~~ADgvii~TPEY-n~sip 106 (219)
T TIGR02690 28 RILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHADHPKVRELRQLSEWSEGQVWCSPER-HGAIT 106 (219)
T ss_pred EEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcccCHHHHHHHHHHHhCCEEEEeCCcc-ccCcC
Confidence 567788874 3345667888876554 6888888888765421 122567899999999 78899
Q ss_pred CcHHHHHHHHhh
Q psy8996 69 ENGQEFAQNLHA 80 (95)
Q Consensus 69 dn~~~F~~~L~~ 80 (95)
.-.+...+|+..
T Consensus 107 g~LKNaiDwls~ 118 (219)
T TIGR02690 107 GSQKDQIDWIPL 118 (219)
T ss_pred HHHHHHHHhccc
Confidence 999999999975
No 50
>PF02525 Flavodoxin_2: Flavodoxin-like fold; InterPro: IPR003680 This family consists of a domain with a flavodoxin-like fold. The family includes bacterial and eukaryotic NAD(P)H dehydrogenase (quinone) 1.6.99.2 from EC. These enzymes catalyse the NAD(P)H-dependent two-electron reductions of quinones and protect cells against damage by free radicals and reactive oxygen species []. This enzyme uses a FAD cofactor. The equation for this reaction is NAD(P)H + acceptor = NAD(P)(+) + reduced acceptor. This enzyme is also involved in the bioactivation of prodrugs used in chemotherapy []. The family also includes acyl carrier protein phosphodiesterase 3.1.4.14 from EC. This enzyme converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine residue from ACP []. This family is related to FMN_red IPR005025 from INTERPRO and Flavodoxin_1 IPR008254 from INTERPRO.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050662 coenzyme binding; PDB: 1T5B_B 1DXQ_B 2B3D_A 2Z9D_B 2Z9C_A 2Z98_A 2D5I_A 2Z9B_A 1TIK_A 1V4B_A ....
Probab=93.68 E-value=0.18 Score=34.27 Aligned_cols=75 Identities=8% Similarity=0.025 Sum_probs=54.9
Q ss_pred ccccEEEeCCCc---hHHHHHHHHHH-HHhCC-CceEEeeCCCC----------------------C-----cccccccC
Q psy8996 6 KREPAFSISEVH---YANNYTTESEV-HYANN-YTTEVLRMDEY----------------------D-----MSSIEHEA 53 (95)
Q Consensus 6 ~~~~~~ygS~tG---~ae~~A~~l~~-~~~~g-~~~~v~~l~~~----------------------~-----~~~l~~~~ 53 (95)
+++-+++||-.+ ++..+++.+.+ +.+.+ ..+++.++.+. + .+.|...+
T Consensus 1 mkiLvI~asp~~~~S~s~~l~~~~~~~~~~~~~~~v~~~dL~~~~~p~l~~~~~~~~~~~~~~~~~d~~~~~~~~l~~AD 80 (199)
T PF02525_consen 1 MKILVINASPRPEGSFSRALADAFLEGLQEAGPHEVEIRDLYEEFLPVLDSECFAAFRTYEQGPAIDVQSEQIEELLWAD 80 (199)
T ss_dssp EEEEEEE--SSTTTSHHHHHHHHHHHHHHHHTTSEEEEEETTTTT--SSSHHHHHHHHHHHHTHHHHHHHHHHHHHHHSS
T ss_pred CEEEEEEcCCCCccCHHHHHHHHHHHHHHHcCCCEEEEEECcccccccchHHHHHhhhhhhhhhhhhHHHHHHHHHHHcC
Confidence 356789998765 68889988865 55567 77999999874 0 13455678
Q ss_pred eEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 54 LILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 54 ~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
.+||++..| .+-+|.-.+.|++.+...
T Consensus 81 ~iV~~~Pl~-~~~~Pa~lK~~iD~v~~~ 107 (199)
T PF02525_consen 81 HIVFAFPLY-WFSMPAQLKGWIDRVFTP 107 (199)
T ss_dssp EEEEEEEEB-TTBC-HHHHHHHHHHSHT
T ss_pred cceEeccce-ecccChhHHHHHHHhCcC
Confidence 999999999 677999999999988543
No 51
>PRK13556 azoreductase; Provisional
Probab=92.89 E-value=0.92 Score=31.19 Aligned_cols=75 Identities=8% Similarity=-0.013 Sum_probs=54.2
Q ss_pred ccccEEEeCC----CchHHHHHHHHHH-HHh--CCCceEEeeCCCCCc--------------------------------
Q psy8996 6 KREPAFSISE----VHYANNYTTESEV-HYA--NNYTTEVLRMDEYDM-------------------------------- 46 (95)
Q Consensus 6 ~~~~~~ygS~----tG~ae~~A~~l~~-~~~--~g~~~~v~~l~~~~~-------------------------------- 46 (95)
+++-++.||- .+++..+++.+.+ +.+ .|..+++.++.+.+.
T Consensus 2 ~kiL~I~~spr~~~~S~s~~l~~~~~~~~~~~~~~~~V~~~DL~~~~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (208)
T PRK13556 2 SKVLFVKANNRPAEQAVSVKLYEAFLASYKEAHPNDTVVELDLYKEELPYVGVDMINGTFKAGKGFELTEEEAKAVAVAD 81 (208)
T ss_pred CeEEEEeCCCCCCCCcHHHHHHHHHHHHHHHhCCCCeEEEEeCCCCCCCCCCHHHHHhhccccccccCCHHHHHHHHHHH
Confidence 4667888884 4788889888765 333 267888888763211
Q ss_pred ---ccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 47 ---SSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 47 ---~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
+.+...|.+||++.-| ++.+|.-.+.+++++...
T Consensus 82 ~~~~~l~~AD~iVi~~P~y-n~~~Pa~LK~~iD~v~~~ 118 (208)
T PRK13556 82 KYLNQFLEADKVVFAFPLW-NFTIPAVLHTYIDYLNRA 118 (208)
T ss_pred HHHHHHHHCCEEEEecccc-ccCCcHHHHHHHHHHhcC
Confidence 1123457899999999 788999999999999764
No 52
>KOG3135|consensus
Probab=92.80 E-value=0.26 Score=34.07 Aligned_cols=70 Identities=9% Similarity=-0.000 Sum_probs=51.3
Q ss_pred cccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCC---------------------CCCcccccccCeEEEEeccCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMD---------------------EYDMSSIEHEALILVVASTFGN 64 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~---------------------~~~~~~l~~~~~vi~v~ST~G~ 64 (95)
++-|++-|..|.-..+|+...+ .-..+-.+++.... ...++.|..+|..+|...|- -
T Consensus 3 kv~iv~ys~yghv~~lAe~~kkGie~a~geA~i~qVpEtl~~evl~km~a~pkp~d~piit~~~L~e~D~flFG~PTR-f 81 (203)
T KOG3135|consen 3 KVAIVIYSTYGHVAKLAEAEKKGIESAGGEATIYQVPETLSEEVLEKMKAPPKPSDYPIITPETLTEYDGFLFGFPTR-F 81 (203)
T ss_pred eEEEEEEEcccHHHHHHHHHHhhhhccCCeeEEEEcccccCHHHHHHhcCCCCCccCCccCHHHHhhccceeeccccc-c
Confidence 5678888999999999988865 32333244444332 22345577889999999998 7
Q ss_pred CCCCCcHHHHHHH
Q psy8996 65 GDPPENGQEFAQN 77 (95)
Q Consensus 65 Ge~Pdn~~~F~~~ 77 (95)
|.+|..++.||+.
T Consensus 82 G~~~AQ~kaF~D~ 94 (203)
T KOG3135|consen 82 GNMPAQWKAFWDS 94 (203)
T ss_pred cCcHHHHHHHHhc
Confidence 9999999999985
No 53
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. 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 galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=90.58 E-value=1.3 Score=26.19 Aligned_cols=50 Identities=14% Similarity=0.119 Sum_probs=33.1
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHH-hCCCceEEe--eCCCCCcccccccCeEE
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHY-ANNYTTEVL--RMDEYDMSSIEHEALIL 56 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~--~l~~~~~~~l~~~~~vi 56 (95)
+++-++.++-.|+++.++.+|++.+ ..++.+.+. ++.+++. .+.++|+++
T Consensus 1 ~~ilivC~~G~~tS~~l~~~i~~~~~~~~i~~~v~~~~~~~~~~-~~~~~Dlii 53 (89)
T cd05566 1 KKILVACGTGVATSTVVASKVKELLKENGIDVKVEQCKIAEVPS-LLDDADLIV 53 (89)
T ss_pred CEEEEECCCCccHHHHHHHHHHHHHHHCCCceEEEEecHHHhhc-ccCCCcEEE
Confidence 3566788899999999999998866 477765553 4444332 334566433
No 54
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=89.87 E-value=1.4 Score=29.87 Aligned_cols=74 Identities=15% Similarity=0.095 Sum_probs=47.8
Q ss_pred cccEEEeCC--CchHHHHHHHHHHHHhCCCceEEeeCC------CCCcc-------------cccccCeEEEEeccCCCC
Q psy8996 7 REPAFSISE--VHYANNYTTESEVHYANNYTTEVLRMD------EYDMS-------------SIEHEALILVVASTFGNG 65 (95)
Q Consensus 7 ~~~~~ygS~--tG~ae~~A~~l~~~~~~g~~~~v~~l~------~~~~~-------------~l~~~~~vi~v~ST~G~G 65 (95)
++.+++||. .-.+..+|+.+++.+.....+.+...+ +.+.+ .+...+.+||+|..| +|
T Consensus 2 kil~i~GS~r~~S~~~~la~~~~~~l~~~~~~~~~~~~~~lP~~~~d~~~~~~p~~v~~~~~~i~~aD~li~~tPeY-n~ 80 (184)
T COG0431 2 KILIISGSLRRGSFNRALAEAAAKLLPAGGEVEVEFDDLDLPLYNEDLEADGLPPAVQALREAIAAADGLIIATPEY-NG 80 (184)
T ss_pred eEEEEeccCcccchHHHHHHHHHHhhcccCceEEEecccccCCCCcchhhccCCHHHHHHHHHHHhCCEEEEECCcc-CC
Confidence 578899974 345566777777655433222222211 11111 133668999999999 78
Q ss_pred CCCCcHHHHHHHHhhC
Q psy8996 66 DPPENGQEFAQNLHAL 81 (95)
Q Consensus 66 e~Pdn~~~F~~~L~~~ 81 (95)
-.|--.+..++||...
T Consensus 81 s~pg~lKnaiD~l~~~ 96 (184)
T COG0431 81 SYPGALKNAIDWLSRE 96 (184)
T ss_pred CCCHHHHHHHHhCCHh
Confidence 8999999999998654
No 55
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=88.49 E-value=0.87 Score=29.73 Aligned_cols=36 Identities=11% Similarity=0.027 Sum_probs=27.4
Q ss_pred ccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCC
Q psy8996 8 EPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDE 43 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~ 43 (95)
.-+||.|.|...+..|+.|++. .++|..+++....+
T Consensus 24 ~~~Ll~SDT~~G~~~a~il~~~l~~~g~~v~~~~i~~ 60 (136)
T PF09651_consen 24 EVVLLHSDTPDGRLCAEILKEYLEEKGINVEVVEIEG 60 (136)
T ss_dssp EEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEE---
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEEeee
Confidence 5789999999999999999884 45788888776444
No 56
>PF06283 ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A.
Probab=87.27 E-value=0.72 Score=31.80 Aligned_cols=71 Identities=10% Similarity=0.081 Sum_probs=40.0
Q ss_pred cccEEEeCCCc-hH---HHHHHHHHHHHh--CCCceEEee-CCCCCcccccccCeEEEEeccCCCCC-C-CCcHHHHHHH
Q psy8996 7 REPAFSISEVH-YA---NNYTTESEVHYA--NNYTTEVLR-MDEYDMSSIEHEALILVVASTFGNGD-P-PENGQEFAQN 77 (95)
Q Consensus 7 ~~~~~ygS~tG-~a---e~~A~~l~~~~~--~g~~~~v~~-l~~~~~~~l~~~~~vi~v~ST~G~Ge-~-Pdn~~~F~~~ 77 (95)
||-+|+|...| .- ....+.|+++++ .++.+++.+ .+.++.+.|.++|++|+.... |+ + ++..+.|.++
T Consensus 1 kvLi~~g~~~~~~h~~~~~~~~~l~~ll~~~~~~~v~~~~~~~~~~~~~L~~~Dvvv~~~~~---~~~l~~~~~~al~~~ 77 (217)
T PF06283_consen 1 KVLIFSGGWSGYRHDSIPAAKKALAQLLEESEGFEVTVTEDPDDLTPENLKGYDVVVFYNTG---GDELTDEQRAALRDY 77 (217)
T ss_dssp EEEEEES-SHHHCSHHHHHHHHHHHHHHHHTTCEEEEECCSGGCTSHHCHCT-SEEEEE-SS---CCGS-HHHHHHHHHH
T ss_pred CEEEEeCCcCCccCccHHHHHHHHHHHhccCCCEEEEEEeCcccCChhHhcCCCEEEEECCC---CCcCCHHHHHHHHHH
Confidence 45567776333 22 244455566554 677777654 455667789999987776555 43 3 3345566666
Q ss_pred Hhh
Q psy8996 78 LHA 80 (95)
Q Consensus 78 L~~ 80 (95)
+++
T Consensus 78 v~~ 80 (217)
T PF06283_consen 78 VEN 80 (217)
T ss_dssp HHT
T ss_pred HHc
Confidence 653
No 57
>cd05568 PTS_IIB_bgl_like PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved in sugar utilization. The domain architecture of the IIB-containing protein includes a region N-terminal to the IIB domain which is homologous to the BglG transcription antiterminator with an RNA-binding domain followed by two homologous domains, PRD1 and PRD2 (PTS Regulation Domains). C-terminal to the IIB domain is a domain similar to the PTS IIA domain. In this system, the BglG-like region and the IIB and IIA-like domains are all expressed together as a single multidomain protein. 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 this sensory system with similarity to the bacterial
Probab=86.77 E-value=0.58 Score=27.15 Aligned_cols=47 Identities=6% Similarity=0.098 Sum_probs=29.2
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEA 53 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~ 53 (95)
++-++-++-.|+++.++.+|.+.+..-..+...+..+++..+..++|
T Consensus 2 kilivC~~G~~~s~~l~~~l~~~~~~~~~v~~~~~~~~~~~~~~~~D 48 (85)
T cd05568 2 KALVVCPSGIGTSRLLKSKLKKLFPEIEIIDVISLRELEEVDLDDYD 48 (85)
T ss_pred eEEEECCCCHHHHHHHHHHHHHHCCCceEEEEEeHHHHhhCcccCCC
Confidence 45667788899999999999887753222344444443322334555
No 58
>TIGR00829 FRU PTS system, fructose-specific, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several PTS components of unknown specificities. The fructose components of this family phosphorylate fructose on the 1-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIB domain of the fructose PTS transporters.
Probab=85.76 E-value=2.2 Score=25.66 Aligned_cols=48 Identities=8% Similarity=0.014 Sum_probs=30.4
Q ss_pred eCCCc--hHHHHHHHHHH-HHhCCCceEEe------eCCCCCcccccccCeEEEEec
Q psy8996 13 ISEVH--YANNYTTESEV-HYANNYTTEVL------RMDEYDMSSIEHEALILVVAS 60 (95)
Q Consensus 13 gS~tG--~ae~~A~~l~~-~~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~S 60 (95)
++.+| +|-..|+.|++ +.++|+.+++- ..+.++.+++...+.+|++..
T Consensus 5 acp~G~Aht~lAae~L~~aA~~~G~~i~VE~qg~~g~~~~lt~~~i~~Ad~viia~d 61 (85)
T TIGR00829 5 ACPTGIAHTFMAAEALEKAAKKRGWEVKVETQGSVGAQNALTAEDIAAADGVILAAD 61 (85)
T ss_pred cCCCcHHHHHHHHHHHHHHHHHCCCeEEEEecCCcCccCCCCHHHHHhCCEEEEecc
Confidence 34444 44556788876 55688876633 233455577888888888743
No 59
>cd03142 GATase1_ThuA Type 1 glutamine amidotransferase (GATase1)-like domain found in Sinorhizobium meliloti Rm1021 ThuA (SmThuA). Type 1 glutamine amidotransferase (GATase1)-like domain found in Sinorhizobium meliloti Rm1021 ThuA (SmThuA). This group includes proteins similar to SmThuA which plays a role in a major pathway for trehalose catabolism. SmThuA is induced by trehalose but not by related structurally similar disaccharides like sucrose or maltose. Proteins in this group lack the catalytic triad of typical GATase1 domains: a His replaces the reactive Cys found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. S. meliloti Rm1021 thuA mutants are impaired in competitive colonization of Medicago sativa roots but are more competitive than the wild-type Rml021 in infecting alfalfa roots and forming nitrogen-fixing nodules.
Probab=85.52 E-value=3 Score=29.43 Aligned_cols=60 Identities=5% Similarity=0.097 Sum_probs=37.2
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCC----CCcccccccCeEEEEeccCCCCCCCC-cHHHHHHHHhh
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDE----YDMSSIEHEALILVVASTFGNGDPPE-NGQEFAQNLHA 80 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~----~~~~~l~~~~~vi~v~ST~G~Ge~Pd-n~~~F~~~L~~ 80 (95)
|=...+|..|+ +.||.|++..+++ ++++.|.++++||+.+.+ +.++.++ .-+.|.+++++
T Consensus 23 ~~~~~~~~~L~---~~gf~V~~~~~~d~~~~~~~~~L~~~D~lV~~~~~-~~~~l~~eq~~~l~~~V~~ 87 (215)
T cd03142 23 GMHGTIAAALA---EYGFDVQTATLDEPEHGLTEEVLAETDVLLWWGHI-AHDEVKDEIVERVHRRVLD 87 (215)
T ss_pred hHHHHHHHHHH---hcCcEEEEEeccCccccCCHhHHhcCCEEEEeCCC-CcCcCCHHHHHHHHHHHHc
Confidence 33444444443 3789998777776 345568899988875433 4567766 45556666554
No 60
>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=83.54 E-value=4.5 Score=25.07 Aligned_cols=55 Identities=5% Similarity=-0.001 Sum_probs=36.0
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEecc
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST 61 (95)
.++-.++.-|.+|+++.+.+.++.+.++|. +++.+.+..-..|.+.--+++.+++
T Consensus 46 ~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~--~vi~iT~~~~s~la~~ad~~l~~~~ 100 (128)
T cd05014 46 TPGDVVIAISNSGETDELLNLLPHLKRRGA--PIIAITGNPNSTLAKLSDVVLDLPV 100 (128)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--eEEEEeCCCCCchhhhCCEEEECCC
Confidence 445567778999999999998888887874 4454444433445444434444443
No 61
>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=83.43 E-value=3.8 Score=25.01 Aligned_cols=48 Identities=10% Similarity=0.073 Sum_probs=30.9
Q ss_pred CCCchHHHHHHHHHHH-HhCCCceEEe------eCCCCCcccccccCeEEEEecc
Q psy8996 14 SEVHYANNYTTESEVH-YANNYTTEVL------RMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 14 S~tG~ae~~A~~l~~~-~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~ST 61 (95)
|-.-++-..|+.|+++ .++|+++.+. ..+.++.+++...+.+|++..+
T Consensus 9 ~G~a~s~laa~~L~~aa~~~g~~~~ve~~~~~g~~~~l~~~~i~~Ad~vi~~~~~ 63 (96)
T cd05569 9 TGIAHTYMAAEALEKAAKKLGWEIKVETQGSLGIENELTAEDIAEADAVILAADV 63 (96)
T ss_pred CchhHHHHHHHHHHHHHHHCCCeEEEEEecCcCccCcCCHHHHhhCCEEEEecCC
Confidence 4444666778889874 4689887643 1334444667778888876544
No 62
>PRK10427 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=82.67 E-value=4 Score=25.95 Aligned_cols=51 Identities=10% Similarity=0.102 Sum_probs=32.7
Q ss_pred cEEEeCCCchHH--HHHHHHHH-HHhCCCceEEe------eCCCCCcccccccCeEEEEe
Q psy8996 9 PAFSISEVHYAN--NYTTESEV-HYANNYTTEVL------RMDEYDMSSIEHEALILVVA 59 (95)
Q Consensus 9 ~~~ygS~tG~ae--~~A~~l~~-~~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~ 59 (95)
-++-++.+|-|. ..|+.|++ +.++|+.+.+- ..+.++.+++...+.+|++.
T Consensus 6 vaVtacp~GiAht~lAAeaL~kAA~~~G~~i~VE~qg~~g~~~~lt~~~i~~Ad~VIia~ 65 (114)
T PRK10427 6 VAVTACVSGVAHTYMAAERLEKLCQLEKWGVKIETQGALGTENRLTDEDIRRADVVLLIT 65 (114)
T ss_pred EEEeeCCCcHHHHHHHHHHHHHHHHHCCCeEEEEecCCcCcCCCCCHHHHHhCCEEEEEe
Confidence 344556666554 45688876 55688876632 33445567788888888874
No 63
>cd05567 PTS_IIB_mannitol PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). 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 mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a s
Probab=81.37 E-value=6.4 Score=23.29 Aligned_cols=33 Identities=3% Similarity=-0.188 Sum_probs=25.1
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHh-CCCceEEe
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYA-NNYTTEVL 39 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~-~g~~~~v~ 39 (95)
++-++.||--|++..++.+|++.++ .+....+.
T Consensus 2 kilvvCg~G~gtS~ml~~ki~~~~~~~~~~~~v~ 35 (87)
T cd05567 2 KIVFACDAGMGSSAMGASVLRKKLKKAGLEIPVT 35 (87)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHCCCceEEE
Confidence 5667789999999999999988664 56654443
No 64
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. 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 chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=80.14 E-value=5.4 Score=22.31 Aligned_cols=27 Identities=7% Similarity=-0.125 Sum_probs=19.5
Q ss_pred cEEEeCCCchHHHHHHHHHHHH-hCCCc
Q psy8996 9 PAFSISEVHYANNYTTESEVHY-ANNYT 35 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~-~~g~~ 35 (95)
-++.++-.|++..++.+|.+.+ ..++.
T Consensus 3 l~vc~~G~~~s~~l~~~l~~~~~~~~~~ 30 (84)
T cd00133 3 LVVCGSGIGSSSMLAEKLEKAAKELGIE 30 (84)
T ss_pred EEECCCcHhHHHHHHHHHHHHHHHCCCe
Confidence 3445566689999999998865 46664
No 65
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=79.49 E-value=8.4 Score=23.63 Aligned_cols=72 Identities=10% Similarity=-0.097 Sum_probs=40.5
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCccc--ccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSS--IEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~--l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
.+.-++||+ |+++.+|..++. +...|..+...+-.+.-... ....+-++|+.|..|.- ....+..+.+++..
T Consensus 13 ~~~i~i~g~--g~s~~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS~~g~~---~~~~~~~~~a~~~g 87 (139)
T cd05013 13 ARRIYIFGV--GSSGLVAEYLAYKLLRLGKPVVLLSDPHLQLMSAANLTPGDVVIAISFSGET---KETVEAAEIAKERG 87 (139)
T ss_pred CCEEEEEEc--CchHHHHHHHHHHHHHcCCceEEecCHHHHHHHHHcCCCCCEEEEEeCCCCC---HHHHHHHHHHHHcC
Confidence 344566665 568889998876 44567666554222211111 12345677788887652 34555556665543
No 66
>PRK13555 azoreductase; Provisional
Probab=79.20 E-value=12 Score=26.06 Aligned_cols=74 Identities=8% Similarity=0.001 Sum_probs=50.2
Q ss_pred cccEEEeCC----CchHHHHHHHHHH-HHhCC--CceEEeeCCCCCcc--------------------------------
Q psy8996 7 REPAFSISE----VHYANNYTTESEV-HYANN--YTTEVLRMDEYDMS-------------------------------- 47 (95)
Q Consensus 7 ~~~~~ygS~----tG~ae~~A~~l~~-~~~~g--~~~~v~~l~~~~~~-------------------------------- 47 (95)
++-++++|= .-.+..+|+.+.+ +.+.+ ..+++.++.+.++.
T Consensus 3 kiL~I~asp~~~~~S~s~~la~~f~~~~~~~~p~~~V~~~DL~~~~~p~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 82 (208)
T PRK13555 3 KVLFVKANDRPAEQAVSSKMYETFVSTYKEANPNTEITELDLFALDLPYYGNIAISGGYKRSQGMELTAEEEKAVATVDQ 82 (208)
T ss_pred eEEEEeCCCCCCCCcHHHHHHHHHHHHHHHhCCCCeEEEEECCCCCCCcCCHHHHHhhccCCCcccCCHHHHHHHHHHHH
Confidence 566788873 2456677777654 44443 67777776653211
Q ss_pred ---cccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 48 ---SIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 48 ---~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
.+...|.+||++.-| ++.+|.-.+.+++++...
T Consensus 83 ~~~~~~~AD~lvi~~P~~-n~~~Pa~LK~~iD~v~~~ 118 (208)
T PRK13555 83 YLNQFLEADKVVFAFPLW-NFTVPAPLITYISYLSQA 118 (208)
T ss_pred HHHHHHHcCEEEEEcCcc-cccchHHHHHHHHHHhcC
Confidence 123458999999999 677999999999988753
No 67
>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=79.09 E-value=9.2 Score=25.41 Aligned_cols=69 Identities=10% Similarity=0.003 Sum_probs=38.5
Q ss_pred cccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 5 EKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
+.+.-.+||. |.+..+|+.+.. +...|..+.+.. +.....+.+.+.+ |+.|-.|. - .+.....+.+++.
T Consensus 32 ~a~~I~i~G~--G~S~~~A~~~~~~l~~~g~~~~~~~--~~~~~~~~~~D~v-I~iS~sG~--t-~~~i~~~~~ak~~ 101 (179)
T cd05005 32 NAKRIFVYGA--GRSGLVAKAFAMRLMHLGLNVYVVG--ETTTPAIGPGDLL-IAISGSGE--T-SSVVNAAEKAKKA 101 (179)
T ss_pred hCCeEEEEec--ChhHHHHHHHHHHHHhCCCeEEEeC--CCCCCCCCCCCEE-EEEcCCCC--c-HHHHHHHHHHHHC
Confidence 3455566774 777889998875 555677666543 3323344455554 55555544 2 3334455555554
No 68
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=77.96 E-value=5.8 Score=24.11 Aligned_cols=37 Identities=11% Similarity=0.047 Sum_probs=28.7
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMD 42 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~ 42 (95)
+++-+.=||-.||+..+|.++++.+ ++|+++++...+
T Consensus 3 ~kILvvCgsG~~TS~m~~~ki~~~l~~~gi~~~v~~~~ 40 (94)
T PRK10310 3 RKIIVACGGAVATSTMAAEEIKELCQSHNIPVELIQCR 40 (94)
T ss_pred CeEEEECCCchhHHHHHHHHHHHHHHHCCCeEEEEEec
Confidence 4566677899999999999998865 589887766533
No 69
>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=77.77 E-value=4.7 Score=24.81 Aligned_cols=46 Identities=7% Similarity=-0.018 Sum_probs=32.9
Q ss_pred cccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccccc
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIE 50 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~ 50 (95)
.+.++-.++.-|.+|++..+-+.++.+.++|..+ +.+.+.....+.
T Consensus 50 ~~~~~d~vi~is~sg~~~~~~~~~~~ak~~g~~v--i~iT~~~~~~l~ 95 (131)
T PF01380_consen 50 NLDPDDLVIIISYSGETRELIELLRFAKERGAPV--ILITSNSESPLA 95 (131)
T ss_dssp GCSTTEEEEEEESSSTTHHHHHHHHHHHHTTSEE--EEEESSTTSHHH
T ss_pred cccccceeEeeeccccchhhhhhhHHHHhcCCeE--EEEeCCCCCchh
Confidence 4567778888999999999999998887888655 444433333443
No 70
>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=76.91 E-value=7.2 Score=24.34 Aligned_cols=53 Identities=8% Similarity=0.140 Sum_probs=34.9
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEE
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVV 58 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v 58 (95)
..++--++.-|++|+++.+-+.++.+.++|. .++.+.+.....|.+ .+.++.+
T Consensus 45 ~~~~dl~I~iS~SG~t~~~~~~~~~a~~~g~--~vi~iT~~~~s~la~~ad~~l~~ 98 (120)
T cd05710 45 LTEKSVVILASHSGNTKETVAAAKFAKEKGA--TVIGLTDDEDSPLAKLADYVIVY 98 (120)
T ss_pred CCCCcEEEEEeCCCCChHHHHHHHHHHHcCC--eEEEEECCCCCcHHHhCCEEEEc
Confidence 3455567888999999999988888888875 444444433344543 4555544
No 71
>PRK10474 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=76.85 E-value=4.9 Score=24.23 Aligned_cols=39 Identities=10% Similarity=0.174 Sum_probs=26.2
Q ss_pred HHHHHHH-HHhCCCceEEe------eCCCCCcccccccCeEEEEec
Q psy8996 22 YTTESEV-HYANNYTTEVL------RMDEYDMSSIEHEALILVVAS 60 (95)
Q Consensus 22 ~A~~l~~-~~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~S 60 (95)
.|+.|++ +.++|+.+++- ..+.++.+++...+.+|++..
T Consensus 2 AAeaL~~aA~~~G~~i~VEtqg~~g~~~~lt~~~i~~Ad~VIia~d 47 (88)
T PRK10474 2 AAEALESAAKAKGWEVKVETQGSIGLENELTAEDVASADMVILTKD 47 (88)
T ss_pred HHHHHHHHHHHCCCeEEEEecCCcCcCCCCCHHHHHhCCEEEEEec
Confidence 4778876 55688877633 333456677888888888743
No 72
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=76.59 E-value=6.1 Score=23.07 Aligned_cols=49 Identities=14% Similarity=0.065 Sum_probs=30.6
Q ss_pred cEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcccc-cccCeEEE
Q psy8996 9 PAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSI-EHEALILV 57 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l-~~~~~vi~ 57 (95)
-+.=|+-.||+..+|.+|.+.+ ++|+++.+........... .++|++|.
T Consensus 3 lvvC~~Gi~TS~~~~~~i~~~~~~~gi~~~~~~~~~~~~~~~~~~~D~il~ 53 (90)
T PF02302_consen 3 LVVCGSGIGTSLMVANKIKKALKELGIEVEVSAGSILEVEEIADDADLILL 53 (90)
T ss_dssp EEEESSSSHHHHHHHHHHHHHHHHTTECEEEEEEETTTHHHHHTT-SEEEE
T ss_pred EEECCChHHHHHHHHHHHHHHHHhccCceEEEEecccccccccCCCcEEEE
Confidence 3455777889999999998754 6898777665542223333 33565443
No 73
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. 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 ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=76.44 E-value=9.6 Score=22.18 Aligned_cols=28 Identities=11% Similarity=-0.178 Sum_probs=22.2
Q ss_pred ccEEEeCCCchHHHHHHHHHHHH-hCCCc
Q psy8996 8 EPAFSISEVHYANNYTTESEVHY-ANNYT 35 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~-~~g~~ 35 (95)
+-++-++-.|++..++.+|++.+ ..++.
T Consensus 2 ilvvC~~G~~tS~ll~~kl~~~f~~~~i~ 30 (86)
T cd05563 2 ILAVCGSGLGSSLMLKMNVEKVLKELGIE 30 (86)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHCCCc
Confidence 45677888999999999998866 46654
No 74
>PF01866 Diphthamide_syn: Putative diphthamide synthesis protein; InterPro: IPR002728 Members of this family include Q16439 from SWISSPROT, a candidate tumour suppressor gene [], and DPH2 from yeast P32461 from SWISSPROT [], which confers resistance to diphtheria toxin and has been found to be involved in diphthamide synthesis. Diphtheria toxin inhibits eukaryotic protein synthesis by ADP-ribosylating diphthamide, a posttranslationally modified histidine residue present in EF2. The exact function of the members of this family is unknown.; GO: 0017183 peptidyl-diphthamide biosynthetic process from peptidyl-histidine, 0005737 cytoplasm; PDB: 3LZD_B 3LZC_A.
Probab=76.38 E-value=8.3 Score=28.31 Aligned_cols=48 Identities=6% Similarity=-0.119 Sum_probs=33.2
Q ss_pred ccccEEEeCCCchH-HHHHHHHHH-HHhCCCceEEeeCCCCCcccccccC
Q psy8996 6 KREPAFSISEVHYA-NNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEA 53 (95)
Q Consensus 6 ~~~~~~ygS~tG~a-e~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~ 53 (95)
+.++|+.||-+|.. ..++++|.+ +.++|..+-++.+++.+++.|.+..
T Consensus 210 ~~~GIiv~tl~~q~~~~~~~~l~~~l~~~gkk~y~~~~~~i~~~kL~nf~ 259 (307)
T PF01866_consen 210 KTFGIIVGTLGGQGYLELIKRLKKLLKKAGKKSYTLSVGEINPAKLANFP 259 (307)
T ss_dssp -EEEEEEE-STTT--HHHHHHHHHHHHHTT-EEEEEEESS--GGGGTTS-
T ss_pred CEEEEEEecCCCCCCHHHHHHHHHHHHHcCCEEEEEEECCCCHHHHhcCc
Confidence 67899999977643 456788887 4569999999999999998887654
No 75
>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=75.64 E-value=8.9 Score=23.60 Aligned_cols=52 Identities=8% Similarity=0.100 Sum_probs=33.6
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEE
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVV 58 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v 58 (95)
.++-.++.-|.+|+++.+-+.++.+.++|. +++.+.+..-..|.+ .+.++.+
T Consensus 45 ~~~d~~I~iS~sG~t~e~~~~~~~a~~~g~--~vi~iT~~~~s~la~~ad~~l~~ 97 (126)
T cd05008 45 DEDTLVIAISQSGETADTLAALRLAKEKGA--KTVAITNVVGSTLAREADYVLYL 97 (126)
T ss_pred CCCcEEEEEeCCcCCHHHHHHHHHHHHcCC--eEEEEECCCCChHHHhCCEEEEe
Confidence 455568888999999998887777777774 455444443334443 3444433
No 76
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=75.23 E-value=10 Score=24.78 Aligned_cols=56 Identities=16% Similarity=0.130 Sum_probs=36.2
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccC
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTF 62 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~ 62 (95)
.++--++.-|.+|.++.+-+.++.+.++|. +++.+....-..|.+.--+++.+++.
T Consensus 78 ~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~--~ii~iT~~~~s~l~~~ad~~l~~~~~ 133 (154)
T TIGR00441 78 QKGDVLLGISTSGNSKNVLKAIEAAKDKGM--KTITLAGKDGGKMAGLADIELRVPHF 133 (154)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHCCC--EEEEEeCCCCCchhhhCCEEEEeCCC
Confidence 455567778999999999888777777874 45555554444555443344444443
No 77
>PF02863 Arg_repressor_C: Arginine repressor, C-terminal domain; InterPro: IPR020899 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1B4B_B 1B4A_A 3V4G_A 1F9N_F 2P5M_A 1XXA_E 1XXC_C 1XXB_F 3LAJ_D 3BUE_D ....
Probab=73.96 E-value=11 Score=21.65 Aligned_cols=53 Identities=15% Similarity=0.200 Sum_probs=36.7
Q ss_pred EEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 11 FSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 11 ~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
+-=+.-|+|..+|..|.+....+ + ...+.+.+.++++|.+- +.++.+.++|++
T Consensus 17 vikt~pG~A~~va~~iD~~~~~~----I-------~GtIAgdDTilvi~~~~------~~a~~l~~~l~~ 69 (70)
T PF02863_consen 17 VIKTLPGNAQAVAAAIDQLNLPE----I-------FGTIAGDDTILVICRSE------EDAEELEEKLKE 69 (70)
T ss_dssp EEEESTTCHHHHHHHHHHHCGTT----E-------EEEEEESSEEEEEESTT------SHHHHHHHHHHT
T ss_pred EEEeCCCcHHHHHHHHHhcCCcc----c-------EEEEeCCCEEEEEeCCH------HHHHHHHHHHHh
Confidence 33478899999999987653211 1 23456677788887765 678888888764
No 78
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 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=73.65 E-value=6.7 Score=24.84 Aligned_cols=69 Identities=7% Similarity=-0.006 Sum_probs=38.0
Q ss_pred cEEEe--CCCchHHHHHHHHHHHHhCCCceEEeeCCCCC---cccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 9 PAFSI--SEVHYANNYTTESEVHYANNYTTEVLRMDEYD---MSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 9 ~~~yg--S~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~---~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
-.|+| +..|.|+.+|.++.+.. +..+...+..++- ...+.+.+.+ |+.|..| +--+......+++++..
T Consensus 16 i~~~G~G~s~~~a~e~~~kl~e~~--~i~~~~~~~~e~~hg~~~~~~~~~~v-i~is~~g--~t~~~~~~~~~~~~~~~ 89 (153)
T cd05009 16 FYVLGRGPNYGTALEGALKLKETS--YIHAEAYSAGEFKHGPIALVDEGTPV-IFLAPED--RLEEKLESLIKEVKARG 89 (153)
T ss_pred EEEEcCCCCHHHHHHHHHHHHHHH--hhcceeccHHHhccChhhhccCCCcE-EEEecCC--hhHHHHHHHHHHHHHcC
Confidence 44554 57888888888887653 2345555555442 2334444444 4455443 32344666777776543
No 79
>PRK04930 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional
Probab=73.49 E-value=21 Score=24.46 Aligned_cols=73 Identities=5% Similarity=-0.055 Sum_probs=50.3
Q ss_pred ccccEEEeCCCchHHHHHHHH-HHHHhCCCceEEeeCCCCCcc----------cccccCeEEEEeccCCCCCCCCcHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTES-EVHYANNYTTEVLRMDEYDMS----------SIEHEALILVVASTFGNGDPPENGQEF 74 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l-~~~~~~g~~~~v~~l~~~~~~----------~l~~~~~vi~v~ST~G~Ge~Pdn~~~F 74 (95)
+++-+++++-..... .+.+. .+..+...++.+.++...-++ .|...|.+||....| ...+|.-.+.+
T Consensus 6 ~kiLiI~aHP~~~~S-~~n~~l~~~~~~~~~v~~~DL~~~~p~~~~d~~~eq~~l~~aD~iV~~fPl~-w~~~Pa~LK~w 83 (184)
T PRK04930 6 PKVLLLYAHPESQDS-VANRVLLKPAQQLEHVTVHDLYAHYPDFFIDIPHEQALLREHDVIVFQHPLY-TYSCPALLKEW 83 (184)
T ss_pred CEEEEEECCCCcccC-HHHHHHHHHHHcCCceEEEECcccCCCCCCCHHHHHHHHHhCCEEEEEcCcc-ccCCcHHHHHH
Confidence 678899998776532 23443 444454567888888764221 356789999999999 55678888888
Q ss_pred HHHHhh
Q psy8996 75 AQNLHA 80 (95)
Q Consensus 75 ~~~L~~ 80 (95)
.+....
T Consensus 84 iD~V~~ 89 (184)
T PRK04930 84 LDRVLS 89 (184)
T ss_pred HHHHHh
Confidence 877764
No 80
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase. This bifunctional isomerase is a member of the larger PGI superfamily and only distantly related to other glucose-6-phosphate isomerases. The family is limited to the archaea.
Probab=72.64 E-value=16 Score=26.98 Aligned_cols=55 Identities=11% Similarity=0.099 Sum_probs=30.4
Q ss_pred cEEEeCCCchHHHHHHHHHHHHh-CCCceEEeeCCCCCcccccccCeEEEEeccCCCC
Q psy8996 9 PAFSISEVHYANNYTTESEVHYA-NNYTTEVLRMDEYDMSSIEHEALILVVASTFGNG 65 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~~-~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~G 65 (95)
-++||+ |.+...|+.++..+. .+..+.+....++........+-++++.|..|+-
T Consensus 24 I~i~G~--G~S~~~a~~l~~~l~~~~~~~~v~~~~d~~l~~~~~~~dlvI~iS~SG~t 79 (308)
T TIGR02128 24 IVICGM--GGSGIAGRIISILLLEKSFQGPVFVVKDYRLPRFVDGKTLLIAVSYSGNT 79 (308)
T ss_pred EEEEEe--cHHHHHHHHHHHHHHHhCCCccEEEEcCccccccCCCCeEEEEEcCCCCC
Confidence 456665 788888888877554 3322233333444322223445567777777643
No 81
>TIGR00322 diphth2_R diphthamide biosynthesis protein 2-related domain. Because archaeal species are known to have the diphthamide modification to the conserved His of archaeal and eukaryotic EF-2, it may be that the lone homolog of YKL191W in M. jannaschii, A. fulgidus, and M. thermoautotrophicum is orthologous. However, each of these is considerably shorter than YKL191W and seems more closely related to the uncharacterized protein YIL103W than to YKL191W.
Probab=71.02 E-value=9.1 Score=28.65 Aligned_cols=48 Identities=6% Similarity=-0.093 Sum_probs=38.3
Q ss_pred ccccEEEeCCCch-HHHHHHHHHHH-HhCCCceEEeeCCCCCcccccccC
Q psy8996 6 KREPAFSISEVHY-ANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHEA 53 (95)
Q Consensus 6 ~~~~~~ygS~tG~-ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~~ 53 (95)
+.+||+-||-+|. ...++++|.++ .++|..+.++.+++.++..|....
T Consensus 233 ~~vGIlvgTl~~q~~~~~~~~l~~ll~~~gkk~y~i~~~~in~~kL~nf~ 282 (332)
T TIGR00322 233 KKFGVVLSSKGGQGRLRLAKNLKKNLEEAGKTVLIILLSNVSPAKLLMFD 282 (332)
T ss_pred CEEEEEEecCccCCCHHHHHHHHHHHHHcCCcEEEEEeCCCCHHHHhCCC
Confidence 5689999998774 45688899875 468999999999999988776543
No 82
>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=70.45 E-value=13 Score=24.68 Aligned_cols=55 Identities=13% Similarity=0.034 Sum_probs=36.3
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEec
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAS 60 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~S 60 (95)
+.++=-++.-|.+|+++.+-+.+..+.++|. +++.+.......|.+.--+++.++
T Consensus 99 ~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga--~vI~IT~~~~s~La~~aD~~l~~~ 153 (177)
T cd05006 99 GQPGDVLIGISTSGNSPNVLKALEAAKERGM--KTIALTGRDGGKLLELADIEIHVP 153 (177)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--EEEEEeCCCCCchhhhCCEEEEeC
Confidence 4556567788999999999888888888884 555555544445554433444444
No 83
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=70.05 E-value=15 Score=25.66 Aligned_cols=57 Identities=12% Similarity=-0.038 Sum_probs=38.0
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccC
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTF 62 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~ 62 (95)
++++-.++--|.+|+++.+-+.+..+.++|. .++.+.+.....|.+..-+.|.+++.
T Consensus 45 ~~~~d~~i~iS~sG~t~~~~~~~~~a~~~g~--~ii~iT~~~~s~l~~~~d~~l~~~~~ 101 (268)
T TIGR00393 45 VEPNDVVLMISYSGESLELLNLIPHLKRLSH--KIIAFTGSPNSSLARAADYVLDIKVE 101 (268)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHcCC--cEEEEECCCCCcccccCCEEEEcCCC
Confidence 4566677888999999999988888888884 45555554445565443334444443
No 84
>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=69.76 E-value=14 Score=24.42 Aligned_cols=55 Identities=15% Similarity=0.059 Sum_probs=34.7
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEecc
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST 61 (95)
.++=.++.-|.+|.++.+-+.+..+.++|. +++.+.+..-..+.+.--++|.+++
T Consensus 71 ~~~Dv~I~iS~sG~t~~~i~~~~~ak~~g~--~ii~IT~~~~s~la~~ad~~l~~~~ 125 (179)
T TIGR03127 71 KKGDLLIAISGSGETESLVTVAKKAKEIGA--TVAAITTNPESTLGKLADVVVEIPA 125 (179)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHCCC--eEEEEECCCCCchHHhCCEEEEeCC
Confidence 345467788999999999888887878885 4444444333445443333444443
No 85
>TIGR03682 arCOG04112 arCOG04112 universal archaeal diphthamide biosynthesis domain protein. This family of proteins has been observed universally in archaeal genomes and contains a match to the TIGR00322 model for the diphthamide biosynthesis protein 2-related domain.
Probab=69.75 E-value=9.6 Score=28.19 Aligned_cols=48 Identities=6% Similarity=-0.024 Sum_probs=38.8
Q ss_pred ccccEEEeCCCch-HHHHHHHHHHH-HhCCCceEEeeCCCCCcccccccC
Q psy8996 6 KREPAFSISEVHY-ANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHEA 53 (95)
Q Consensus 6 ~~~~~~ygS~tG~-ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~~ 53 (95)
+.+||+.||-+|. ...++++|.++ .++|.++.++.+++.+++.|...+
T Consensus 213 ~~vGIlvgTl~~q~~~~~~~~l~~ll~~~gkk~y~i~~~~in~~kL~nf~ 262 (308)
T TIGR03682 213 KKFGILVSTKKGQRRPELAEELKKLLEELGKEALLILLDNISPDQLRNLD 262 (308)
T ss_pred CeEEEEEEccCcCCCHHHHHHHHHHHHHcCCeEEEEEeCCCCHHHHhcCC
Confidence 5689999998774 45678889874 468999999999999998887654
No 86
>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=69.00 E-value=16 Score=24.27 Aligned_cols=55 Identities=15% Similarity=0.087 Sum_probs=34.7
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEecc
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST 61 (95)
.++=.++.-|.+|++..+-+.+..+.++|. +++.+.+.....+.+..-++|.+++
T Consensus 74 ~~~D~vI~iS~sG~t~~~i~~~~~ak~~g~--~iI~IT~~~~s~la~~ad~~l~~~~ 128 (179)
T cd05005 74 GPGDLLIAISGSGETSSVVNAAEKAKKAGA--KVVLITSNPDSPLAKLADVVVVIPA 128 (179)
T ss_pred CCCCEEEEEcCCCCcHHHHHHHHHHHHCCC--eEEEEECCCCCchHHhCCEEEEeCC
Confidence 445567888999999999887777777885 4455544444445443333333333
No 87
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=68.66 E-value=18 Score=22.12 Aligned_cols=56 Identities=13% Similarity=0.087 Sum_probs=34.5
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEecc
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST 61 (95)
+.++-.++.-|.+|.++.+.+.+..+.++|..+-++..+. -..+.+..-.+|.+.+
T Consensus 58 ~~~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~iv~iT~~~--~~~l~~~~d~~i~~~~ 113 (139)
T cd05013 58 LTPGDVVIAISFSGETKETVEAAEIAKERGAKVIAITDSA--NSPLAKLADIVLLVSS 113 (139)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEcCCC--CChhHHhcCEEEEcCC
Confidence 4566788899999999988777766777776544443332 2334443334444443
No 88
>PRK13936 phosphoheptose isomerase; Provisional
Probab=67.48 E-value=18 Score=24.69 Aligned_cols=54 Identities=13% Similarity=0.146 Sum_probs=36.0
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc----cCeEEEEec
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH----EALILVVAS 60 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~----~~~vi~v~S 60 (95)
.++=.++.-|.+|++..+-+.+..+.++|. +++.+...+-..|.+ .+.+|.+.+
T Consensus 110 ~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~--~iI~IT~~~~s~l~~l~~~ad~~l~v~~ 167 (197)
T PRK13936 110 QPGDVLLAISTSGNSANVIQAIQAAHEREM--HVVALTGRDGGKMASLLLPEDVEIRVPA 167 (197)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHCCC--eEEEEECCCCChhhhhhccCCEEEEeCC
Confidence 456567888999999998777777777774 455555544344443 566666555
No 89
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=65.48 E-value=14 Score=27.44 Aligned_cols=53 Identities=13% Similarity=0.095 Sum_probs=36.6
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccc-------ccccCeEEEEeccCCCC
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSS-------IEHEALILVVASTFGNG 65 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~-------l~~~~~vi~v~ST~G~G 65 (95)
+-|||..+.+...|+.|++ .|++++++++..+.|-+ +.+.+.+|++=..+-.|
T Consensus 207 va~G~~~~~a~eAa~~L~~---~Gi~v~vi~~~~l~Pld~~~i~~~~~~~~~vv~vEe~~~~g 266 (327)
T PRK09212 207 VTFSIQVKLALEAAELLEK---EGISVEVIDLRTLRPLDTETIIESVKKTNRLVVVEEGWPFA 266 (327)
T ss_pred EEccHHHHHHHHHHHHHHh---cCCcEEEEEEecCCCCCHHHHHHHHHhCCeEEEEcCCCCCC
Confidence 4578888888888887753 58889988888765432 23556777776666333
No 90
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=65.10 E-value=20 Score=22.91 Aligned_cols=55 Identities=11% Similarity=0.089 Sum_probs=31.1
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHH-hC-CCceEEe--eCCCC---Cc-----ccccccCeEEEEec
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHY-AN-NYTTEVL--RMDEY---DM-----SSIEHEALILVVAS 60 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~-~~-g~~~~v~--~l~~~---~~-----~~l~~~~~vi~v~S 60 (95)
|+|=|.|...+-.=......|++.+ .. |++|.+- +..+. ++ ..+...+.||+|||
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S 67 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCS 67 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEec
Confidence 3556777765544445556676644 45 8776422 22111 11 12457789999999
No 91
>KOG3157|consensus
Probab=65.04 E-value=31 Score=24.78 Aligned_cols=72 Identities=18% Similarity=0.184 Sum_probs=50.8
Q ss_pred ccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCCCCcccccccCeEEEEeccCCC----CCCCCcHHHHHHHHhhCC
Q psy8996 8 EPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHEALILVVASTFGN----GDPPENGQEFAQNLHALR 82 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~----Ge~Pdn~~~F~~~L~~~~ 82 (95)
+|-||-=+|=.++..|+.+.+. .++|-+-. =.+++=+-|-|+ |=.|..+-.+++.+++.
T Consensus 95 vpnL~~vetVDseK~A~~ld~a~~k~g~~~P---------------L~V~VQvNTSGEd~K~Giepse~~~l~~~i~~~- 158 (244)
T KOG3157|consen 95 VPNLYSVETVDSEKKARKLDSAWSKLGPDNP---------------LKVLVQVNTSGEDSKSGIEPSEAPELAEHIKSE- 158 (244)
T ss_pred CCceEEEEecchHHHHHHHHHHHHhcCCCCC---------------eEEEEEeecCCccccCCCChhhhHHHHHHHHHh-
Confidence 7889999999999999999654 34553200 012333444444 66788999999998874
Q ss_pred CCCccccCCCcCC
Q psy8996 83 IGEDANNSISTIG 95 (95)
Q Consensus 83 ~~~~~l~~l~~~~ 95 (95)
.+.--|.||-|||
T Consensus 159 c~nL~f~GlMTIG 171 (244)
T KOG3157|consen 159 CKNLKFSGLMTIG 171 (244)
T ss_pred CCcceeeeeEEec
Confidence 6666799998887
No 92
>PRK13937 phosphoheptose isomerase; Provisional
Probab=64.95 E-value=21 Score=24.11 Aligned_cols=53 Identities=13% Similarity=0.104 Sum_probs=35.0
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEEe
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVVA 59 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v~ 59 (95)
.++--++.-|.+|+++.+-+.+..+.++|. .++.+.......|.+ .+.+|.+.
T Consensus 105 ~~~Dl~i~iS~sG~t~~~~~~~~~ak~~g~--~~I~iT~~~~s~L~~~ad~~l~~~ 158 (188)
T PRK13937 105 RPGDVLIGISTSGNSPNVLAALEKARELGM--KTIGLTGRDGGKMKELCDHLLIVP 158 (188)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHCCC--eEEEEeCCCCChhHHhCCEEEEeC
Confidence 455567788999999999888877888884 455555444444543 34444443
No 93
>PTZ00182 3-methyl-2-oxobutanate dehydrogenase; Provisional
Probab=64.63 E-value=12 Score=28.15 Aligned_cols=47 Identities=17% Similarity=0.121 Sum_probs=32.2
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccc-------ccccCeEEEEe
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSS-------IEHEALILVVA 59 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~-------l~~~~~vi~v~ 59 (95)
+-|||..+.+...|+.|++ .|+++.++++..+.|-+ +.+.+.+|++=
T Consensus 239 ia~Gs~~~~aleAa~~L~~---~Gi~v~vI~~~~l~Pld~e~i~~~~~~~~~IvvvE 292 (355)
T PTZ00182 239 VGYGSQVHVALKAAEELAK---EGISCEVIDLRSLRPWDRETIVKSVKKTGRCVIVH 292 (355)
T ss_pred EEeCHHHHHHHHHHHHHHh---CCCcEEEEEEeeCCCCCHHHHHHHHhcCCEEEEEE
Confidence 4478888888888877743 58889888888765432 23555666653
No 94
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=63.84 E-value=20 Score=24.41 Aligned_cols=54 Identities=15% Similarity=0.161 Sum_probs=36.3
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEEec
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVVAS 60 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v~S 60 (95)
.++-.++.-|.+|+++.+-+.+..+.++|. +++.+.......|.+ .+.+|.+.+
T Consensus 110 ~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~--~iI~iT~~~~s~l~~~ad~~l~~~~ 164 (192)
T PRK00414 110 REGDVLLGISTSGNSGNIIKAIEAARAKGM--KVITLTGKDGGKMAGLADIEIRVPH 164 (192)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--eEEEEeCCCCChhHHhCCEEEEeCC
Confidence 455567888999999999888887878875 444444444445544 455555554
No 95
>CHL00144 odpB pyruvate dehydrogenase E1 component beta subunit; Validated
Probab=62.42 E-value=15 Score=27.30 Aligned_cols=49 Identities=10% Similarity=0.080 Sum_probs=31.8
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccc-------ccccCeEEEEecc
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSS-------IEHEALILVVAST 61 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~-------l~~~~~vi~v~ST 61 (95)
+-||+.+-.|...|+.|+ ++|++++|+++..+.|-+ +.+.+.+|++=--
T Consensus 207 ia~G~~v~~al~Aa~~L~---~~Gi~~~VId~~~ikPlD~~~i~~~~~~t~~vv~vEE~ 262 (327)
T CHL00144 207 LTYSRMRHHVLQAVKVLV---EKGYDPEIIDLISLKPLDLGTISKSVKKTHKVLIVEEC 262 (327)
T ss_pred EEccHHHHHHHHHHHHHH---hcCCCEEEEecCcCCCCCHHHHHHHHHhhCcEEEEECC
Confidence 345677777777776664 369999999998875533 2345566665433
No 96
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=62.08 E-value=25 Score=24.27 Aligned_cols=55 Identities=11% Similarity=0.205 Sum_probs=36.9
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc----cCeEEEEecc
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH----EALILVVAST 61 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~----~~~vi~v~ST 61 (95)
.++=.++.-|.+|+++.+-+.+..+.++|. .++.+..++-..|.+ .+.+|.+-+.
T Consensus 108 ~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~--~vI~IT~~~~s~l~~l~~~~D~~i~ip~~ 166 (196)
T PRK10886 108 HAGDVLLAISTRGNSRDIVKAVEAAVTRDM--TIVALTGYDGGELAGLLGPQDVEIRIPSH 166 (196)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--EEEEEeCCCCChhhhccccCCEEEEcCCC
Confidence 445567778999999999887777777775 455555544445544 4777776653
No 97
>PRK13938 phosphoheptose isomerase; Provisional
Probab=61.75 E-value=27 Score=24.06 Aligned_cols=53 Identities=11% Similarity=0.121 Sum_probs=34.5
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEEe
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVVA 59 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v~ 59 (95)
.++=-++.-|.+|+++.+-+.+..+.++|. .++.+.......|.+ .+.+|.+.
T Consensus 112 ~~~DllI~iS~SG~t~~vi~a~~~Ak~~G~--~vI~iT~~~~s~La~~aD~~l~v~ 165 (196)
T PRK13938 112 RPGDTLFAISTSGNSMSVLRAAKTARELGV--TVVAMTGESGGQLAEFADFLINVP 165 (196)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHCCC--EEEEEeCCCCChhhhhCCEEEEeC
Confidence 445467788999999999888888888885 444444444444544 34444433
No 98
>TIGR00140 hupD hydrogenase expression/formation protein. C at 64 and 67 are believed to be metal binding. Postulated to be involved in processing or hydrogenase. Superfamily suggests that it is a peptidase/protease.
Probab=60.73 E-value=19 Score=22.80 Aligned_cols=49 Identities=14% Similarity=0.115 Sum_probs=30.4
Q ss_pred HHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcH
Q psy8996 22 YTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENG 71 (95)
Q Consensus 22 ~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~ 71 (95)
+|++|++.....-.+++++...... ..+.+++.+|||-+... |.+|-+.
T Consensus 3 v~~~L~~~~~~~~~v~vid~gt~~~~l~~~l~~~d~viiVDA~~~-g~~PG~v 54 (134)
T TIGR00140 3 LVEALQQRYAFPDNVTLLDGGTQGLYLLPLIESADRLIILDAVDY-GLEPGTL 54 (134)
T ss_pred HHHHHHHhCCCCCCeEEEecCccHHHHHHHHhcCCeEEEEecccC-CCCCceE
Confidence 5677765433222477777765432 34568899999998775 4455543
No 99
>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=60.31 E-value=32 Score=21.09 Aligned_cols=66 Identities=11% Similarity=0.080 Sum_probs=34.4
Q ss_pred EEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCC---CcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 10 AFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEY---DMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~---~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
.+|| .|.+..+|+.++. +...|..+....-.+. ....+.+.++ +++.|-.|. .| +.....+.+++.
T Consensus 4 ~i~G--~G~S~~~a~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~d~-vi~iS~sG~--t~-~~~~~~~~a~~~ 73 (128)
T cd05014 4 VVTG--VGKSGHIARKIAATLSSTGTPAFFLHPTEALHGDLGMVTPGDV-VIAISNSGE--TD-ELLNLLPHLKRR 73 (128)
T ss_pred EEEe--CcHhHHHHHHHHHHhhcCCCceEEcccchhhccccCcCCCCCE-EEEEeCCCC--CH-HHHHHHHHHHHC
Confidence 4555 4688889998876 4456766655532221 1223334444 445555543 33 334444555554
No 100
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=60.14 E-value=18 Score=27.62 Aligned_cols=39 Identities=8% Similarity=-0.106 Sum_probs=31.6
Q ss_pred cccccccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeC
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEVH-YANNYTTEVLRM 41 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l 41 (95)
..++++|++-++-..|-..+|+.++++ .++|++.++.-+
T Consensus 67 ~~~~gIkvI~NaGg~np~~~a~~v~eia~e~Gl~lkvA~V 106 (362)
T PF07287_consen 67 AAEKGIKVITNAGGLNPAGCADIVREIARELGLSLKVAVV 106 (362)
T ss_pred HHhCCCCEEEeCCCCCHHHHHHHHHHHHHhcCCCeeEEEE
Confidence 468999999999999999999999884 457877665544
No 101
>TIGR02619 putative CRISPR-associated protein, APE2256 family. This model represents a conserved domain of about 150 amino acids found in at least five archaeal species and three bacterial species, exclusively in species with CRISPR (Clustered Regularly Interspaced Short Palidromic Repeats). In six of eight species, the member of this family is in the vicinity of a CRISPR/Cas locus.
Probab=59.88 E-value=18 Score=24.13 Aligned_cols=27 Identities=4% Similarity=-0.119 Sum_probs=21.7
Q ss_pred ccEEEeCCCchHHHHHHHHHHHH-hCCC
Q psy8996 8 EPAFSISEVHYANNYTTESEVHY-ANNY 34 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~-~~g~ 34 (95)
.-+||.|.|+..+..|+.|.+.+ +.+.
T Consensus 36 ~~~Ll~SDT~~G~~~a~ilk~yl~~~~~ 63 (149)
T TIGR02619 36 KAILYHSDTAQGRFCASILKRFLERELR 63 (149)
T ss_pred EEEEEEcCCHHHHHHHHHHHHHHHHhcc
Confidence 45799999999999999998744 4443
No 102
>PF01750 HycI: Hydrogenase maturation protease; InterPro: IPR000671 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. Metalloproteases are the most diverse of the four main types of protease, with more than 30 families identified to date []. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as abXHEbbHbc, where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesized as a precursor devoid of the metalloenzyme active site. This precursor undergoes a complex post-translational maturation process that requires a number of accessory proteins [, , ]. At one step of this process, after nickel incorporation, each hydrogenase isoenzyme is processed by proteolytic cleavage at the C-terminal end by the corresponding hydrogenase maturation endopeptidase []. For example, Escherichia coli HycI is involved in processing of pre-HycE (the large subunit of hydrogenase 3) [, ]; HybD is involved in processing of pre-HybC (the large subunit of hydrogenase 2) []; and HyaD is assumed to be involved in processing of the large subunit of hydrogenase 1. This group represents metallopeptidases of the MEROPS peptidase family A31 (HybD endopeptidase family, clan AE). The cleavage site is after a His or an Arg, liberating a short peptide [, ]. This cleavage occurs only in the presence of nickel, and the endopeptidase probably uses the metal in the large subunit of [NiFe]-hydrogenases as a recognition motif []. There is no direct evidence for the active site or substrate-binding site, but there are predictions based on an available structure []. Nomenclature note: the following names are used in different organisms for members of this group: HycI, HybD, HyaD, HoxM, HoxW, HupD, HynC, HupM, VhoD, VhtD []. Gene/protein names are sometimes used interchangeably to designate various "hydrogenase cluster" proteins unrelated to each other in various organisms. For example, the following names are used for members of this group, but also for unrelated proteins: HupD is used in Azotobacter chroococcum and Anabaena species to designate an unrelated hydrogenase maturation factor; HydD is used to designate hydrogenase structural genes in Thermococcus litoralis, Pyrococcus abyssi, and other species.; GO: 0008047 enzyme activator activity, 0008233 peptidase activity; PDB: 1CFZ_E 2E85_B 2I8L_A 2KML_A.
Probab=59.55 E-value=13 Score=23.49 Aligned_cols=49 Identities=16% Similarity=0.251 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCc
Q psy8996 21 NYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPEN 70 (95)
Q Consensus 21 ~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn 70 (95)
+++++|++.....-++++++...... ..|.+++.+|+|=+..+ |..|-.
T Consensus 2 ~v~~~L~~~~~~~~~v~vid~gt~g~~ll~~l~~~d~vIiVDAv~~-~~~pG~ 53 (130)
T PF01750_consen 2 HVAERLKERYSPPDNVEVIDGGTDGLDLLDLLEGYDRVIIVDAVDG-GGEPGT 53 (130)
T ss_dssp HHHHHHHHCEE--TTEEEEEETTTCGGGHHHHSS-SEEEEEEE--S-SS-TT-
T ss_pred HHHHHHHhhCCCCCCEEEEECCCCHHHHHHHHhCCCEEEEEEcCCC-CCCCcE
Confidence 35677766332222588888776433 34568999999999998 666654
No 103
>COG1485 Predicted ATPase [General function prediction only]
Probab=59.46 E-value=8.1 Score=29.55 Aligned_cols=28 Identities=32% Similarity=0.559 Sum_probs=22.0
Q ss_pred ceEEeeCCCCCccccc-------------ccCeEEEEeccC
Q psy8996 35 TTEVLRMDEYDMSSIE-------------HEALILVVASTF 62 (95)
Q Consensus 35 ~~~v~~l~~~~~~~l~-------------~~~~vi~v~ST~ 62 (95)
+++|.+.|++.+.|+. ...++|+.||.+
T Consensus 130 ~~~vLCfDEF~VtDI~DAMiL~rL~~~Lf~~GV~lvaTSN~ 170 (367)
T COG1485 130 ETRVLCFDEFEVTDIADAMILGRLLEALFARGVVLVATSNT 170 (367)
T ss_pred cCCEEEeeeeeecChHHHHHHHHHHHHHHHCCcEEEEeCCC
Confidence 3688899998877643 567899999998
No 104
>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=58.98 E-value=25 Score=19.87 Aligned_cols=32 Identities=9% Similarity=0.063 Sum_probs=25.1
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCc
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYT 35 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~ 35 (95)
.+++-.++.-|.+|+++.+.+.++.+.++|..
T Consensus 45 ~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ 76 (87)
T cd04795 45 LRKGDVVIALSYSGRTEELLAALEIAKELGIP 76 (87)
T ss_pred CCCCCEEEEEECCCCCHHHHHHHHHHHHcCCe
Confidence 35666788899999999998877777777754
No 105
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=58.27 E-value=20 Score=27.01 Aligned_cols=47 Identities=13% Similarity=0.105 Sum_probs=30.2
Q ss_pred EEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccc-------ccccCeEEEEec
Q psy8996 11 FSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSS-------IEHEALILVVAS 60 (95)
Q Consensus 11 ~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~-------l~~~~~vi~v~S 60 (95)
-||+....|...|+.|+ ++|++++|+++..+.|-+ +.+.+.+|++--
T Consensus 235 a~G~~v~~Al~Aa~~L~---~~GI~v~VId~~~ikPlD~~~l~~~~~~t~~vvtvEE 288 (356)
T PLN02683 235 AFSKMVGYALKAAEILA---KEGISAEVINLRSIRPLDRDTINASVRKTNRLVTVEE 288 (356)
T ss_pred EccHHHHHHHHHHHHHH---hcCCCEEEEECCCCCccCHHHHHHHHhhcCeEEEEeC
Confidence 35666666666666653 369999999998765433 234556666543
No 106
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=57.98 E-value=31 Score=23.82 Aligned_cols=52 Identities=15% Similarity=0.041 Sum_probs=34.1
Q ss_pred cEEEe-CCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEEeccC
Q psy8996 9 PAFSI-SEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVVASTF 62 (95)
Q Consensus 9 ~~~yg-S~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v~ST~ 62 (95)
-++.| |.+||++.+-+.+..+..+|. .++.|..-+-..+.. .|+.|.|-|++
T Consensus 111 DvLigISTSGNS~nVl~Ai~~Ak~~gm--~vI~ltG~~GG~~~~~~D~~i~VPs~~ 164 (176)
T COG0279 111 DVLIGISTSGNSKNVLKAIEAAKEKGM--TVIALTGKDGGKLAGLLDVEIRVPSTD 164 (176)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHcCC--EEEEEecCCCcccccccceEEecCCCc
Confidence 35555 999999999999988887775 455555444344432 25666666654
No 107
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=57.01 E-value=63 Score=23.04 Aligned_cols=57 Identities=11% Similarity=0.131 Sum_probs=35.2
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccC
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTF 62 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~ 62 (95)
..++=.++.-|.+|++..+-+.+..+.++|. +++.+.+..-..+.+..-++|.+++.
T Consensus 185 ~~~~Dl~I~iS~sG~t~~~~~~~~~ak~~g~--~ii~IT~~~~s~la~~ad~~l~~~~~ 241 (292)
T PRK11337 185 LQEGDVVLVVSHSGRTSDVIEAVELAKKNGA--KIICITNSYHSPIAKLADYVICSTAQ 241 (292)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--eEEEEeCCCCChhHHhCCEEEEcCCC
Confidence 3455567889999999998776666777885 44444444334454433334444443
No 108
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=56.73 E-value=10 Score=23.67 Aligned_cols=33 Identities=18% Similarity=0.025 Sum_probs=23.0
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCC
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYD 45 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~ 45 (95)
+-|||....+...|+.|++ .|++++++++.-+.
T Consensus 15 ia~G~~~~~al~A~~~L~~---~Gi~~~vi~~~~i~ 47 (124)
T PF02780_consen 15 IAYGSMVEEALEAAEELEE---EGIKAGVIDLRTIK 47 (124)
T ss_dssp EEETTHHHHHHHHHHHHHH---TTCEEEEEEEEEEE
T ss_pred EeehHHHHHHHHHHHHHHH---cCCceeEEeeEEEe
Confidence 4578888887777776654 38888877766543
No 109
>COG1736 DPH2 Diphthamide synthase subunit DPH2 [Translation, ribosomal structure and biogenesis]
Probab=55.83 E-value=33 Score=26.06 Aligned_cols=49 Identities=8% Similarity=-0.084 Sum_probs=39.3
Q ss_pred cccccEEEeCCCch-HHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccC
Q psy8996 5 EKREPAFSISEVHY-ANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEA 53 (95)
Q Consensus 5 ~~~~~~~ygS~tG~-ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~ 53 (95)
.++.+++-+|-.|. ...+|+.|.+ +..+|.++-++-+++..++.|...+
T Consensus 237 a~~~giiv~tk~gQ~r~~~~~~l~k~~~~~g~~~~li~~~~i~p~~L~~f~ 287 (347)
T COG1736 237 AKSFGIIVSTKGGQRRLEVARELVKLLKEAGKEVYLIVVDEISPDKLANFD 287 (347)
T ss_pred CCeEEEEEecccccCcHHHHHHHHHHHHHcCCceEEEEecCCCHHHHhccc
Confidence 35778899987774 5678888877 5568989999999999999887773
No 110
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=55.30 E-value=57 Score=24.06 Aligned_cols=54 Identities=13% Similarity=0.083 Sum_probs=25.9
Q ss_pred cEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCC
Q psy8996 9 PAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGN 64 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~ 64 (95)
-+++|. |.+...|+.+...+.......+....++......+.+-++|++|..|+
T Consensus 37 I~i~G~--GgS~~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~dlvI~iS~SG~ 90 (337)
T PRK08674 37 IVISGM--GGSGIGGDLLRILLFDELKVPVFVNRDYTLPAFVDEKTLVIAVSYSGN 90 (337)
T ss_pred EEEEEC--cHHHHHHHHHHHHHHhcCCCcEEEeCccchhhcCCCCcEEEEEcCCCC
Confidence 345554 666677777766442222233333333332222244455666665543
No 111
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=54.97 E-value=23 Score=21.54 Aligned_cols=51 Identities=2% Similarity=-0.024 Sum_probs=30.6
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcc-cccccCeEEE
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMS-SIEHEALILV 57 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~-~l~~~~~vi~ 57 (95)
+++-++=|+-.+++ .+++++.+ +.++|+++++....-.+.. ...++|++++
T Consensus 4 ~~ILl~C~~G~sSS-~l~~k~~~~~~~~gi~~~v~a~~~~~~~~~~~~~Dvill 56 (95)
T TIGR00853 4 TNILLLCAAGMSTS-LLVNKMNKAAEEYGVPVKIAAGSYGAAGEKLDDADVVLL 56 (95)
T ss_pred cEEEEECCCchhHH-HHHHHHHHHHHHCCCcEEEEEecHHHHHhhcCCCCEEEE
Confidence 56666667766655 58899987 4568988766654432221 2345564443
No 112
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=54.86 E-value=30 Score=22.93 Aligned_cols=56 Identities=11% Similarity=0.125 Sum_probs=34.7
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcHH
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENGQ 72 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~~ 72 (95)
|=.-.+|++|++.....-.+++++...... ..+..++.+|||-+....+++|-...
T Consensus 17 GvG~~va~~L~~~~~~~~~v~vid~gt~~~~ll~~l~~~d~vIiVDA~~~g~~~PG~v~ 75 (164)
T PRK10466 17 AIGVRIVEALEQRYILPDYVEILDGGTAGMELLGDMANRDHLIIADAIVSKKNAPGTIM 75 (164)
T ss_pred cHHHHHHHHHHHhcCCCCCeEEEeccccHHHHHHHHhCCCEEEEEEecCCCCCCCCEEE
Confidence 445567787765332223477777665432 34568899999998875445476543
No 113
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=54.58 E-value=64 Score=22.80 Aligned_cols=54 Identities=9% Similarity=0.078 Sum_probs=33.4
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEecc
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST 61 (95)
++=.++.-|.+|.++.+-+.+..+.++|.. ++.+.+..-..+.+..-++|.+++
T Consensus 175 ~~Dv~I~iS~sg~~~~~~~~~~~ak~~ga~--iI~IT~~~~s~la~~ad~~l~~~~ 228 (278)
T PRK11557 175 PDDLLLAISYSGERRELNLAADEALRVGAK--VLAITGFTPNALQQRASHCLYTIA 228 (278)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHHHcCCC--EEEEcCCCCCchHHhCCEEEEeCC
Confidence 344566779999999998888777778854 444444333444443334444444
No 114
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=54.48 E-value=33 Score=25.39 Aligned_cols=53 Identities=11% Similarity=0.053 Sum_probs=34.6
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEEe
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVVA 59 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v~ 59 (95)
.++-.++.-|++|.+.++-+.+..+.++|. .++.+....-..|.+ .+.+|.+.
T Consensus 91 ~~~~lvI~iS~SGeT~e~i~al~~ak~~Ga--~~I~IT~~~~S~L~~~ad~~l~~~ 144 (340)
T PRK11382 91 DDRCAVIGVSDYGKTEEVIKALELGRACGA--LTAAFTKRADSPITSAAEFSIDYQ 144 (340)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHcCC--eEEEEECCCCChHHHhCCEEEEeC
Confidence 455567888999999999888888877774 455554433334433 34444443
No 115
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=54.24 E-value=24 Score=22.02 Aligned_cols=33 Identities=6% Similarity=-0.035 Sum_probs=21.8
Q ss_pred cccEEEeCCCchHHHHHHHHHHH-HhCCCceEEee
Q psy8996 7 REPAFSISEVHYANNYTTESEVH-YANNYTTEVLR 40 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~ 40 (95)
++-++=|+-.+|+ .+|+++.+. ..+|+++++..
T Consensus 3 kILlvCg~G~STS-lla~k~k~~~~e~gi~~~i~a 36 (104)
T PRK09590 3 KALIICAAGMSSS-MMAKKTTEYLKEQGKDIEVDA 36 (104)
T ss_pred EEEEECCCchHHH-HHHHHHHHHHHHCCCceEEEE
Confidence 4445556655555 889999774 46898876643
No 116
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=54.10 E-value=30 Score=25.98 Aligned_cols=51 Identities=8% Similarity=-0.068 Sum_probs=33.7
Q ss_pred cEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcc---c----ccccCeEEEEeccC
Q psy8996 9 PAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMS---S----IEHEALILVVASTF 62 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~---~----l~~~~~vi~v~ST~ 62 (95)
-|-+||.++.++..++.|++ .|.++.++.+..+.|- . +.+.+.++++=-+.
T Consensus 251 iva~Gs~~~~a~eA~~~L~~---~Gi~v~vi~~~~l~Pfp~~~i~~~l~~~k~VivvE~n~ 308 (352)
T PRK07119 251 LVAYGTSARIAKSAVDMARE---EGIKVGLFRPITLWPFPEKALEELADKGKGFLSVEMSM 308 (352)
T ss_pred EEEcCccHHHHHHHHHHHHH---cCCeEEEEeeceecCCCHHHHHHHHhCCCEEEEEeCCc
Confidence 45678999999998887753 4777888877654432 1 24556666665543
No 117
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=53.72 E-value=38 Score=24.80 Aligned_cols=22 Identities=14% Similarity=-0.103 Sum_probs=16.2
Q ss_pred ccccEEEeCCCchHHHHHHHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTESEV 28 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~ 28 (95)
.|.+||-++.+|.+. +|..+..
T Consensus 70 Qr~~If~~~G~GKTt-La~~i~~ 91 (274)
T cd01133 70 GKIGLFGGAGVGKTV-LIMELIN 91 (274)
T ss_pred CEEEEecCCCCChhH-HHHHHHH
Confidence 367899999999988 4555543
No 118
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=53.62 E-value=32 Score=24.82 Aligned_cols=53 Identities=17% Similarity=0.075 Sum_probs=35.6
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccccccc-CeEEEEe
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHE-ALILVVA 59 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~-~~vi~v~ 59 (95)
.++=.++.-|.+|+++.+-+.+..+.++|. .++.+....-..|.+. +.++.+.
T Consensus 88 ~~~d~~i~iS~sG~t~~~~~~~~~ak~~g~--~vI~iT~~~~s~la~~ad~~l~~~ 141 (321)
T PRK11543 88 ESRDVMLFISYSGGAKELDLIIPRLEDKSI--ALLAMTGKPTSPLGLAAKAVLDIS 141 (321)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHcCC--eEEEEECCCCChhHHhCCEEEEcC
Confidence 455567888999999999888888888884 5555555444455543 4444433
No 119
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=53.54 E-value=42 Score=21.83 Aligned_cols=44 Identities=9% Similarity=0.027 Sum_probs=31.0
Q ss_pred hHHHHHHHHHH-HHhCCCceEEeeC------CCCCcccccccCeEEEEecc
Q psy8996 18 YANNYTTESEV-HYANNYTTEVLRM------DEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 18 ~ae~~A~~l~~-~~~~g~~~~v~~l------~~~~~~~l~~~~~vi~v~ST 61 (95)
.|-..|+.|.+ +.+.|+.++|-.= +.++.+++...+.+|+.+=.
T Consensus 16 HTyMAAeaLe~~A~~~g~~IKVETqGs~G~eN~LT~edI~~Ad~VI~AaD~ 66 (122)
T COG1445 16 HTYMAAEALEKAAKKLGVEIKVETQGAVGIENRLTAEDIAAADVVILAADI 66 (122)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEcCCcccccCcCCHHHHHhCCEEEEEecc
Confidence 46778899976 5678988877632 23556777888888886643
No 120
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=53.41 E-value=45 Score=23.73 Aligned_cols=59 Identities=7% Similarity=-0.058 Sum_probs=33.0
Q ss_pred cccccEEEeCCCc---hHHHHHHHHHHHH-hCCCceEEeeCCCCCccccc--ccCeEEEEe-ccCC
Q psy8996 5 EKREPAFSISEVH---YANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIE--HEALILVVA-STFG 63 (95)
Q Consensus 5 ~~~~~~~ygS~tG---~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~--~~~~vi~v~-ST~G 63 (95)
.+++.+++|+.+= .+-.-+..+.+++ +.|+++.+++.++.....+. +.+.++..+ ++||
T Consensus 4 ~~~v~~~~g~~~~~~~~~~~s~~~i~~al~~~g~~v~~i~~~~~~~~~~~~~~~D~v~~~~~g~~~ 69 (304)
T PRK01372 4 FGKVAVLMGGTSAEREVSLNSGAAVLAALREAGYDAHPIDPGEDIAAQLKELGFDRVFNALHGRGG 69 (304)
T ss_pred CcEEEEEeCCCCCCceEeHHhHHHHHHHHHHCCCEEEEEecCcchHHHhccCCCCEEEEecCCCCC
Confidence 4578888875432 2222446666544 58999988877754433332 345554443 3444
No 121
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=52.60 E-value=40 Score=26.64 Aligned_cols=54 Identities=13% Similarity=0.068 Sum_probs=35.9
Q ss_pred cccEEEeCCCchHHH--HHHHHHH-HHhCCCceEEe------eCCCCCcccccccCeEEEEec
Q psy8996 7 REPAFSISEVHYANN--YTTESEV-HYANNYTTEVL------RMDEYDMSSIEHEALILVVAS 60 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~--~A~~l~~-~~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~S 60 (95)
++-.+-++.+|.|.. .|+.|++ +.++|+++++. ..+.++.+++...+.+|+++.
T Consensus 5 kivaVtacp~GiAht~mAaeaL~~aA~~~G~~i~VEtqg~~g~~~~lt~~~i~~Ad~VIia~d 67 (482)
T PRK11404 5 RIVAITNCPAGIAHTYMVAEALEQKARSLGHTIKVETQGSSGVENRLSSEEIAAADYVILATG 67 (482)
T ss_pred eEEEEecCCCcHHHHHHHHHHHHHHHHHCCCeEEEEecCCccCCCCCCHHHHHhCCEEEEeec
Confidence 445566777776655 4688876 55688877633 234456677888888888754
No 122
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=52.14 E-value=20 Score=19.48 Aligned_cols=29 Identities=3% Similarity=-0.050 Sum_probs=22.4
Q ss_pred eCCCchHHHHHHHHHHHH-hCCCceEEeeC
Q psy8996 13 ISEVHYANNYTTESEVHY-ANNYTTEVLRM 41 (95)
Q Consensus 13 gS~tG~ae~~A~~l~~~~-~~g~~~~v~~l 41 (95)
.+-.|++..+|..+..++ ..|+.+++..-
T Consensus 3 ~~~~G~C~~~a~l~~~llr~~GIpar~v~g 32 (68)
T smart00460 3 KTKYGTCGEFAALFVALLRSLGIPARVVSG 32 (68)
T ss_pred cccceeeHHHHHHHHHHHHHCCCCeEEEee
Confidence 455799999999888755 58999887643
No 123
>PRK13143 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=51.87 E-value=44 Score=22.73 Aligned_cols=35 Identities=14% Similarity=0.053 Sum_probs=24.2
Q ss_pred CchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEE
Q psy8996 16 VHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILV 57 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~ 57 (95)
+||...+++.|++ +|..+.+.+ ++.++.+++.+|+
T Consensus 10 ~~~~~~~~~~l~~---~G~~~~~~~----~~~~~~~~d~iii 44 (200)
T PRK13143 10 VGNLRSVSKALER---AGAEVVITS----DPEEILDADGIVL 44 (200)
T ss_pred CccHHHHHHHHHH---CCCeEEEEC----CHHHHccCCEEEE
Confidence 6788888776655 477777764 2456777887776
No 124
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=51.49 E-value=59 Score=26.74 Aligned_cols=69 Identities=16% Similarity=-0.060 Sum_probs=47.1
Q ss_pred eCCCc-----hHHHHHHHHHHHHhCCCc-eEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 13 ISEVH-----YANNYTTESEVHYANNYT-TEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 13 gS~tG-----~ae~~A~~l~~~~~~g~~-~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
||=+. +-|...++|-.+...|+. ++++++.++..+-==.++.+.+...|-.-| .|+..+.|.+...+..
T Consensus 153 Gs~~~~~~~~~~e~a~~llpYl~elG~T~IELMPv~e~p~~~sWGYq~~g~yAp~sryG-tPedfk~fVD~aH~~G 227 (628)
T COG0296 153 GSFTPDRFLGYFELAIELLPYLKELGITHIELMPVAEHPGDRSWGYQGTGYYAPTSRYG-TPEDFKALVDAAHQAG 227 (628)
T ss_pred eeccCCCCcCHHHHHHHHhHHHHHhCCCEEEEcccccCCCCCCCCCCcceeccccccCC-CHHHHHHHHHHHHHcC
Confidence 66644 555544455667788985 689999988644322677766666555555 5899999999987653
No 125
>COG2222 AgaS Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]
Probab=51.40 E-value=27 Score=26.30 Aligned_cols=43 Identities=12% Similarity=0.100 Sum_probs=33.6
Q ss_pred CccccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 1 MEIVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 1 ~~~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
|++|+++.|++.=-..+.+..+-+++.+ +.++|-++.+++-.+
T Consensus 244 ~elv~~~~pvi~~~~~d~tr~~~~r~~~~~~~~ga~v~vi~a~~ 287 (340)
T COG2222 244 KELVEEGTPVLLFVSEDETRELDERALKFLKNYGAKVLVIDAKD 287 (340)
T ss_pred HHHcCCCceEEEEecCCcchhHHHHHHHHHHhcCCeEEEEcCcc
Confidence 6899999998875558888888888865 556787777777555
No 126
>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=50.81 E-value=27 Score=21.56 Aligned_cols=41 Identities=7% Similarity=-0.110 Sum_probs=25.5
Q ss_pred CchHHHHHHHHHH-HHhCCCceEEeeCCCCCc-ccccccCeEE
Q psy8996 16 VHYANNYTTESEV-HYANNYTTEVLRMDEYDM-SSIEHEALIL 56 (95)
Q Consensus 16 tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~-~~l~~~~~vi 56 (95)
.=+|..+|+++.+ +.++|+++++.....-+. +.+.+.|+++
T Consensus 10 GaSSs~la~km~~~a~~~gi~~~i~a~~~~e~~~~~~~~Dvil 52 (99)
T cd05565 10 GGTSGLLANALNKGAKERGVPLEAAAGAYGSHYDMIPDYDLVI 52 (99)
T ss_pred CCCHHHHHHHHHHHHHHCCCcEEEEEeeHHHHHHhccCCCEEE
Confidence 3678889999987 456898877664443222 2345566433
No 127
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=50.74 E-value=64 Score=22.67 Aligned_cols=62 Identities=11% Similarity=0.094 Sum_probs=38.4
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCC
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDP 67 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~ 67 (95)
++++=-++--|.+|.|+.+...+..+.+.| +.++.+....-..|.+..=+++..+-.-+.+|
T Consensus 84 i~~~DvviaiS~SGeT~el~~~~~~aK~~g--~~liaiT~~~~SsLak~aDvvl~ip~~~e~~p 145 (202)
T COG0794 84 ITPGDVVIAISGSGETKELLNLAPKAKRLG--AKLIAITSNPDSSLAKAADVVLVIPVKTEACP 145 (202)
T ss_pred CCCCCEEEEEeCCCcHHHHHHHHHHHHHcC--CcEEEEeCCCCChHHHhcCeEEEccCccccCc
Confidence 344445666799999999998887777776 45555555444456554334444444435544
No 128
>PRK11538 ribosome-associated protein; Provisional
Probab=50.43 E-value=60 Score=20.23 Aligned_cols=40 Identities=8% Similarity=-0.027 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHH--hCCCceEEeeCCCCCcccccccCeEEEEeccC
Q psy8996 19 ANNYTTESEVHY--ANNYTTEVLRMDEYDMSSIEHEALILVVASTF 62 (95)
Q Consensus 19 ae~~A~~l~~~~--~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~ 62 (95)
++.+++.+.+++ +++-++.++++.+.. . -.+.+|+++.+-
T Consensus 3 ~~~~~~~i~~~l~dkKa~DI~vlDv~~~~--~--~~Dy~VIatg~S 44 (105)
T PRK11538 3 GKALQDFVIDKIDDLKGQDIIALDVQGKS--S--ITDCMIICTGTS 44 (105)
T ss_pred HHHHHHHHHHHHHHcCCCCeEEEECCCCC--c--ccCEEEEEEeCC
Confidence 356677776644 378889999888743 2 246666666443
No 129
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=50.36 E-value=35 Score=24.61 Aligned_cols=53 Identities=6% Similarity=0.029 Sum_probs=33.5
Q ss_pred cccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCC---cccccccCeEEEEe
Q psy8996 5 EKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYD---MSSIEHEALILVVA 59 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~---~~~l~~~~~vi~v~ 59 (95)
+.+.-+||| -|.+-.+|..+.. +.+.|..+.+.+=...- ...+.+.+++|+++
T Consensus 129 ~A~rI~~~G--~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~~~~~~~~~~Dv~i~iS 185 (281)
T COG1737 129 KARRIYFFG--LGSSGLVASDLAYKLMRIGLNVVALSDTHGQLMQLALLTPGDVVIAIS 185 (281)
T ss_pred cCCeEEEEE--echhHHHHHHHHHHHHHcCCceeEecchHHHHHHHHhCCCCCEEEEEe
Confidence 345567778 9999999999975 66788776655433221 22345556555544
No 130
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=50.25 E-value=40 Score=26.47 Aligned_cols=50 Identities=12% Similarity=0.131 Sum_probs=33.3
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccc-------ccccCeEEEEeccC
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSS-------IEHEALILVVASTF 62 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~-------l~~~~~vi~v~ST~ 62 (95)
+-||+....|...|+.|++ .|++++|+++..+.|-+ +.+.+.+|++---|
T Consensus 346 va~G~~v~~Al~Aa~~L~~---~GI~~~VIdl~tlkPlD~~~i~~sv~kt~~vvtvEE~~ 402 (464)
T PRK11892 346 VSFSIGMTYALKAAEELAK---EGIDAEVIDLRTIRPMDTETIVESVKKTNRLVTVEEGW 402 (464)
T ss_pred EEccHHHHHHHHHHHHHHh---cCCCEEEEECCCCCcCCHHHHHHHHHhcCeEEEEeCCC
Confidence 3457777777777776643 69999999998876533 23556666665444
No 131
>PRK00871 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional
Probab=50.07 E-value=74 Score=21.60 Aligned_cols=72 Identities=6% Similarity=-0.111 Sum_probs=45.0
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcc----------cccccCeEEEEeccCCCCCCCCcHHHHHHH
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMS----------SIEHEALILVVASTFGNGDPPENGQEFAQN 77 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~----------~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~ 77 (95)
+-|++|.--.....+-+.|.+....-..+++.+|.+..++ .|...|.+||...-| ...+|.-.+.+.+.
T Consensus 2 iLvi~aHP~~~~S~~n~al~~~~~~~~~v~v~dL~~~~p~~~~dv~~eq~~l~~aD~iV~~fP~~-w~~~Pa~lK~wiD~ 80 (176)
T PRK00871 2 ILIIYAHPYPHHSHANKRMLEQARTLEGVEIRSLYQLYPDFNIDIAAEQEALSRADLIVWQHPMQ-WYSIPPLLKLWIDK 80 (176)
T ss_pred EEEEEcCCCCccChHHHHHHHHHHhcCCeEEEEChhhcCCcchhHHHHHHHHHhCCEEEEEcChh-hccccHHHHHHHHH
Confidence 3466766554433344445432221135788887653221 256789999999999 56688888888777
Q ss_pred Hhh
Q psy8996 78 LHA 80 (95)
Q Consensus 78 L~~ 80 (95)
...
T Consensus 81 V~~ 83 (176)
T PRK00871 81 VLS 83 (176)
T ss_pred Hhh
Confidence 654
No 132
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 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=49.63 E-value=63 Score=20.21 Aligned_cols=39 Identities=10% Similarity=0.085 Sum_probs=24.9
Q ss_pred ccccccccEEEeCCCchHHHHHHHH-HHHHhCCCceEEee
Q psy8996 2 EIVEKREPAFSISEVHYANNYTTES-EVHYANNYTTEVLR 40 (95)
Q Consensus 2 ~~~~~~~~~~ygS~tG~ae~~A~~l-~~~~~~g~~~~v~~ 40 (95)
+.++++-+++.-|..|.+.....++ ..+.+.|..+-++.
T Consensus 57 ~~~~~~~~vi~is~~g~t~~~~~~~~~~~~~~~~~vi~it 96 (153)
T cd05009 57 ALVDEGTPVIFLAPEDRLEEKLESLIKEVKARGAKVIVIT 96 (153)
T ss_pred hhccCCCcEEEEecCChhHHHHHHHHHHHHHcCCEEEEEe
Confidence 3467788999999888766544444 44555665444443
No 133
>TIGR00072 hydrog_prot hydrogenase maturation protease. HycI and HoxM are well-characterized as responsible for C-terminal protease activity on their respective hydrogenase large chains. A large number of homologous proteins appear responsible for the maturation of various forms of hydrogenase.
Probab=49.26 E-value=44 Score=21.54 Aligned_cols=52 Identities=21% Similarity=0.220 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcH
Q psy8996 19 ANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENG 71 (95)
Q Consensus 19 ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~ 71 (95)
--.+|++|++.....-.+++++.....+ ..+.+++.+|||-+... |..|-..
T Consensus 16 G~~v~~~L~~~~~~~~~v~~id~g~~~~~l~~~l~~~d~viiVDA~~~-g~~pG~v 70 (145)
T TIGR00072 16 GPRVAERLEERYEFPPGVEVLDGGTLGLELLDAIEGADRVIVVDAVDS-GAEPGTV 70 (145)
T ss_pred HHHHHHHHHHhcCCCCCeEEEECCCCHHHHHHHHhCCCEEEEEEccCC-CcCCceE
Confidence 3467777765432123467777665432 34568899999988875 4455543
No 134
>PRK15482 transcriptional regulator MurR; Provisional
Probab=49.14 E-value=32 Score=24.56 Aligned_cols=32 Identities=3% Similarity=-0.219 Sum_probs=21.9
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEe
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVL 39 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~ 39 (95)
.+.-.+||. |.+..+|+.+.. +.+.|..+.+.
T Consensus 135 A~~I~i~G~--G~S~~~A~~l~~~l~~~g~~~~~~ 167 (285)
T PRK15482 135 APFIQITGL--GGSALVGRDLSFKLMKIGYRVACE 167 (285)
T ss_pred CCeeEEEEe--ChhHHHHHHHHHHHHhCCCeeEEe
Confidence 344566665 678889999975 55678776654
No 135
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=48.93 E-value=25 Score=20.03 Aligned_cols=34 Identities=6% Similarity=-0.119 Sum_probs=25.7
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEE
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEV 38 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v 38 (95)
.+..|.++-.-.|..+.+.+.++.+..++..+++
T Consensus 42 ~~~~G~l~l~l~g~~~~~~~a~~~L~~~~v~vEv 75 (76)
T PF09383_consen 42 GTPFGILILELPGDDEEIEKAIAYLREQGVEVEV 75 (76)
T ss_dssp TEEEEEEEEEEES-HHHHHHHHHHHHHTTEEEEE
T ss_pred CeeEEEEEEEEECCHHHHHHHHHHHHHCCCeEEE
Confidence 3456777778889999998888888888877665
No 136
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=48.68 E-value=39 Score=22.46 Aligned_cols=76 Identities=14% Similarity=0.151 Sum_probs=43.8
Q ss_pred cccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC-CC-cccc----cccCeEEEEeccCCCCCCCCcHHHHH
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE-YD-MSSI----EHEALILVVASTFGNGDPPENGQEFA 75 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~-~~-~~~l----~~~~~vi~v~ST~G~Ge~Pdn~~~F~ 75 (95)
..-+|.|-+||++| =+++-+.+.+ +...|+.+++..-+. -+ ++.+ .+.+.+|+=- |-..-......
T Consensus 12 ~LG~Rep~iYG~~t--l~~i~~~l~~~a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINp-----ga~THtSvAi~ 84 (140)
T cd00466 12 LLGKREPEIYGTTT--LADIEALLRELAAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINP-----GAYTHTSIALR 84 (140)
T ss_pred ccCCCCCCcCCcCC--HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcc-----hHHHHHHHHHH
Confidence 45688999999998 6666677765 445788777765442 00 1111 2345555521 22233455566
Q ss_pred HHHhhCCCCC
Q psy8996 76 QNLHALRIGE 85 (95)
Q Consensus 76 ~~L~~~~~~~ 85 (95)
+.|...+.|-
T Consensus 85 DAl~~~~~P~ 94 (140)
T cd00466 85 DALAAVSIPV 94 (140)
T ss_pred HHHHcCCCCE
Confidence 6676665553
No 137
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=48.32 E-value=60 Score=23.56 Aligned_cols=52 Identities=13% Similarity=0.082 Sum_probs=34.5
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccccccc-CeEEEE
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHE-ALILVV 58 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~-~~vi~v 58 (95)
.++-.++.-|++|.++.+-+.+..+..+|. .++.+.......|.+. +..+.+
T Consensus 93 ~~~d~~I~iS~sG~t~~~~~~~~~ak~~g~--~vi~iT~~~~s~la~~ad~~l~~ 145 (326)
T PRK10892 93 TPQDVVIAISNSGESSEILALIPVLKRLHV--PLICITGRPESSMARAADIHLCV 145 (326)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--cEEEEECCCCCcccccCCEEEEe
Confidence 345467778999999999988888887874 4555555444555543 444444
No 138
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=48.29 E-value=41 Score=22.51 Aligned_cols=76 Identities=16% Similarity=0.164 Sum_probs=44.6
Q ss_pred cccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC-CC-cccc----cccCeEEEEeccCCCCCCCCcHHHHH
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE-YD-MSSI----EHEALILVVASTFGNGDPPENGQEFA 75 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~-~~-~~~l----~~~~~vi~v~ST~G~Ge~Pdn~~~F~ 75 (95)
..-+|.|-+||++| =+++-+.+.+ +...|+.+++..-+. -+ ++.+ .+.+.+|+=- |-..-......
T Consensus 14 ~LG~Rep~iYG~~t--l~~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINp-----ga~THtSiAl~ 86 (146)
T PRK05395 14 LLGTREPEIYGSTT--LADIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARDGADGIIINP-----GAYTHTSVALR 86 (146)
T ss_pred ccCCCCCCcCCCCC--HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECc-----hHHHHHHHHHH
Confidence 45688999999998 6677777765 456788777765442 00 1111 2345555521 22334455666
Q ss_pred HHHhhCCCCC
Q psy8996 76 QNLHALRIGE 85 (95)
Q Consensus 76 ~~L~~~~~~~ 85 (95)
+.|.....|-
T Consensus 87 DAl~~~~~P~ 96 (146)
T PRK05395 87 DALAAVSIPV 96 (146)
T ss_pred HHHHcCCCCE
Confidence 7777666554
No 139
>PRK15482 transcriptional regulator MurR; Provisional
Probab=48.23 E-value=77 Score=22.59 Aligned_cols=55 Identities=13% Similarity=0.087 Sum_probs=36.3
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEecc
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST 61 (95)
.++=.++.-|.+|.+..+-+.+..+.++| ++++.+.+.....|.+.--++|.+++
T Consensus 181 ~~~Dv~i~iS~sg~t~~~~~~~~~a~~~g--~~iI~IT~~~~s~la~~ad~~l~~~~ 235 (285)
T PRK15482 181 KKGDVQIAISYSGSKKEIVLCAEAARKQG--ATVIAITSLADSPLRRLAHFTLDTVS 235 (285)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCC--CEEEEEeCCCCCchHHhCCEEEEcCC
Confidence 45556778899999999988777777788 45555555544555544334444454
No 140
>TIGR00272 DPH2 diphthamide biosynthesis protein 2. This protein has been shown in Saccharomyces cerevisiae to be one of several required for the modification of a particular histidine residue of translation elongation factor 2 to diphthamide. This modified site can then become the target for ADP-ribosylation by diphtheria toxin.
Probab=48.11 E-value=44 Score=26.55 Aligned_cols=47 Identities=2% Similarity=-0.187 Sum_probs=37.8
Q ss_pred ccccEEEeCCCc-hHHHHHHHHHHH-HhCCCceEEeeCCCCCccccccc
Q psy8996 6 KREPAFSISEVH-YANNYTTESEVH-YANNYTTEVLRMDEYDMSSIEHE 52 (95)
Q Consensus 6 ~~~~~~ygS~tG-~ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~l~~~ 52 (95)
+.+||+-||-+| +...++++|.++ .++|..+-++.++..++..|...
T Consensus 282 ~~~GIlVgTL~~q~~~~ii~~l~~li~~~GkK~yl~~vgkinpaKLaNF 330 (496)
T TIGR00272 282 GCIGIVVGTLGVRNTRETINELRKMIKTAGKKHYLFVVGKPNPAKLANF 330 (496)
T ss_pred CEEEEEEecCccCCCHHHHHHHHHHHHHcCCcEEEEEeCCCCHHHHhCC
Confidence 457999999876 456788899874 46899999999999998887654
No 141
>PF10432 bact-PGI_C: Bacterial phospho-glucose isomerase C-terminal region; InterPro: IPR019490 Phosphoglucose isomerase (PGI) catalyses the interconversion of phosphoglucose and phosphofructose, and is a component of many sugar metabolic pathways. In some archaea and bacteria PGI activity occurs via a bifunctional enzyme that also exhibits phosphomannose isomerase (PMI) activity. Though not closely related to eukaryotic PGIs, the bifunctional enzyme is similar enough that the sequence includes the cluster of threonines and serines that forms the sugar phosphate-binding site in conventional PGI. This entry represents the C-terminal half of the bifunctional PGI/PMI enzyme, which contains many of the active catalytic site residues. The enzyme is thought to use the same catalytic mechanisms for both glucose ring-opening and isomerisation for the interconversion of glucose 6-phosphate to fructose 6-phosphate [].; GO: 0004347 glucose-6-phosphate isomerase activity, 0004476 mannose-6-phosphate isomerase activity; PDB: 1TZB_A 1X9H_A 1TZC_B 1X9I_A 1WIW_A.
Probab=47.59 E-value=22 Score=23.51 Aligned_cols=37 Identities=14% Similarity=0.041 Sum_probs=21.0
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHH-h-CCCceEEeeCCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHY-A-NNYTTEVLRMDEY 44 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~-~-~g~~~~v~~l~~~ 44 (95)
.++|++||+ +-+..+|.+....+ + .+..+....+.+.
T Consensus 17 ~~~Pvi~~~--~~~~~vA~R~k~qlnEnAK~~A~~~~lPE~ 55 (155)
T PF10432_consen 17 GRIPVIYGS--PLYAAVARRWKQQLNENAKYPAFAAVLPEA 55 (155)
T ss_dssp TSEEEEEEC--GCGCHHHHHHHHHHHHTT----EEEEETCH
T ss_pred CCCcEEEEC--ccchHHHHHHHHHHHHHhCCccchhcchhh
Confidence 378999999 66666777765422 2 4455555555543
No 142
>TIGR00412 redox_disulf_2 small redox-active disulfide protein 2. This small protein is found in three archaeal species so far (Methanococcus jannaschii, Archeoglobus fulgidus, and Methanobacterium thermoautotrophicum) as well as in Anabaena PCC7120. It is homologous to thioredoxins, glutaredoxins, and protein disulfide isomerases, and shares with them a redox-active disulfide. The redox active disulfide region CXXC motif resembles neither thioredoxin nor glutaredoxin. A closely related protein found in the same three Archaea, described by redox_disulf_1, has a glutaredoxin-like CP[YH]C sequence; it has been characterized in functional assays as redox-active but unlikely to be a thioredoxin or glutaredoxin.
Probab=47.45 E-value=52 Score=18.66 Aligned_cols=34 Identities=3% Similarity=-0.069 Sum_probs=28.1
Q ss_pred EEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCC
Q psy8996 10 AFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDE 43 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~ 43 (95)
-||++-=++++.++..+.++. +.+..+++..+++
T Consensus 4 ~~~a~~C~~C~~~~~~~~~~~~e~~~~~~~~~v~~ 38 (76)
T TIGR00412 4 QIYGTGCANCQMTEKNVKKAVEELGIDAEFEKVTD 38 (76)
T ss_pred EEECCCCcCHHHHHHHHHHHHHHcCCCeEEEEeCC
Confidence 489999999999999998855 4777788888874
No 143
>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=47.35 E-value=66 Score=19.77 Aligned_cols=47 Identities=11% Similarity=0.045 Sum_probs=25.2
Q ss_pred CchHHHHHHHHHHHHhC--CCceEEeeCCCCCcccccccCeEEEEeccCCC
Q psy8996 16 VHYANNYTTESEVHYAN--NYTTEVLRMDEYDMSSIEHEALILVVASTFGN 64 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~--g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~ 64 (95)
.|++...|+.+...+.+ +..+....-... +..+.+.+ ++++.|-.|+
T Consensus 7 ~G~S~~~a~~~~~~l~~~~~~~~~~~~~~~~-~~~~~~~d-l~I~iS~SG~ 55 (119)
T cd05017 7 MGGSGIGGDLLESLLLDEAKIPVYVVKDYTL-PAFVDRKT-LVIAVSYSGN 55 (119)
T ss_pred cCHHHHHHHHHHHHHHhccCCCEEEecCccC-cCCCCCCC-EEEEEECCCC
Confidence 46777888877765543 666554432222 22333444 4555565544
No 144
>cd05637 SIS_PGI_PMI_2 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 second SIS domain.
Probab=47.35 E-value=40 Score=21.66 Aligned_cols=19 Identities=16% Similarity=-0.022 Sum_probs=13.1
Q ss_pred cccEEEeCCCchHHHHHHHHH
Q psy8996 7 REPAFSISEVHYANNYTTESE 27 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~ 27 (95)
++|++|||. -+..+|.+.+
T Consensus 13 ~~Pvi~g~~--~~~~~A~R~k 31 (132)
T cd05637 13 RIPIIYGST--LYEPAAYRFK 31 (132)
T ss_pred CCCEEEecc--chHHHHHHHH
Confidence 679999995 4445555554
No 145
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=47.26 E-value=41 Score=22.37 Aligned_cols=76 Identities=16% Similarity=0.156 Sum_probs=44.2
Q ss_pred cccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC-CC-cccc----cccCeEEEEeccCCCCCCCCcHHHHH
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE-YD-MSSI----EHEALILVVASTFGNGDPPENGQEFA 75 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~-~~-~~~l----~~~~~vi~v~ST~G~Ge~Pdn~~~F~ 75 (95)
..-+|.|-+||++| =+++-+.+.+ +...|+.+++..-+. -. ++.+ .+.+.+|+=- |-..-.....-
T Consensus 12 lLG~REp~iYG~~t--l~di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINp-----ga~THtSiAl~ 84 (141)
T TIGR01088 12 MLGLREPGVYGSQT--LEEIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINP-----GALTHTSVALR 84 (141)
T ss_pred ccCCCCCCcCCCCC--HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcC-----hHHhhhHHHHH
Confidence 45688999999998 6677777765 455787777665442 00 1111 2234555521 22334455666
Q ss_pred HHHhhCCCCC
Q psy8996 76 QNLHALRIGE 85 (95)
Q Consensus 76 ~~L~~~~~~~ 85 (95)
+.|.....|-
T Consensus 85 DAl~~~~~P~ 94 (141)
T TIGR01088 85 DALAAVSLPV 94 (141)
T ss_pred HHHHcCCCCE
Confidence 7777666554
No 146
>cd06062 H2MP_MemB-H2up Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD from E. coli is well studied in this group. Maturation of [NiFe] hydrogenases include proteolytic processing of large subunit, assembly with other subunits, and formation of the nickel metallocenter. Hydrogenase maturation endopeptidase (HybD) cleaves a short C-terminal peptide after a His or an Arg residue in the large subunit (pre-HybC) of hydrogenase 2 (hyb operon) in E. coli. This cleavage is nickel dependent. A variety of endopeptidases belong to this group that are similar in function and sequence homology. They include such proteins as HynC, HoxM, and HupD.
Probab=45.57 E-value=58 Score=21.04 Aligned_cols=56 Identities=16% Similarity=0.217 Sum_probs=34.1
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcHHH
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENGQE 73 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~~~ 73 (95)
|=.-.+|++|++.....-.+++++...... +.+.+++.+|||-+... |..|-+...
T Consensus 15 G~G~~va~~L~~~~~~~~~v~vi~~~~~~~~l~~~l~~~d~viiVDA~~~-g~~pG~i~~ 73 (146)
T cd06062 15 GIGVHAVERLEENYSFPENVELIDGGTLGLELLPYIEEADRLIIVDAVDA-GGPPGTVYR 73 (146)
T ss_pred cHHHHHHHHHHHhcCCCCCeEEEECCCCHHHHHHHHhcCCEEEEEEcccC-CCCCCeEEE
Confidence 334567777765422223467777665332 34568899999999765 556665433
No 147
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=45.29 E-value=31 Score=23.15 Aligned_cols=65 Identities=12% Similarity=0.128 Sum_probs=30.9
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe---eCCCCC-----cccccccCe-EEEEeccCCCCCCCCcHHHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVL---RMDEYD-----MSSIEHEAL-ILVVASTFGNGDPPENGQEFAQ 76 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~---~l~~~~-----~~~l~~~~~-vi~v~ST~G~Ge~Pdn~~~F~~ 76 (95)
++.+++|..--+....+++.|.+ +|+.+... .....+ ...+..... +|+++| |..++.|++
T Consensus 121 ~~~~il~~~g~~~~~~l~~~L~~---~g~~v~~~~~Y~~~~~~~~~~~~~~l~~~~~~~iiftS-------~~~v~~f~~ 190 (239)
T cd06578 121 KGKRILRPRGGRAREDLAEALRE---RGAEVDEVEVYRTVPPDLDAELLELLEEGAIDAVLFTS-------PSTVRNLLE 190 (239)
T ss_pred CCCEEEEEcCcchhHHHHHHHHH---CCCEEEEEEEEEEECCCCcHHHHHHHHcCCCcEEEEeC-------HHHHHHHHH
Confidence 34566666655555555554433 35443322 111111 111222222 566666 345788888
Q ss_pred HHhh
Q psy8996 77 NLHA 80 (95)
Q Consensus 77 ~L~~ 80 (95)
++.+
T Consensus 191 ~~~~ 194 (239)
T cd06578 191 LLGK 194 (239)
T ss_pred HHhh
Confidence 7764
No 148
>cd00518 H2MP Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE, the large subunit of hydrogenase 3. This cleavage is nickel dependent. This CD also includes such hydrogenase-processing proteins as HydD, HupW, and HoxW, as well as, proteins of the F420-reducing hydrogenase of methanogens (e.g., FrcD). Also included, is the Pyrococcus furiosus FrxA protein, a bifunctional endopeptidase/ sulfhydrogenase found in NADP-reducing hyperthermophiles.The Pyrococcus FrxA is not related to those found in Helicobacter pylori.
Probab=44.46 E-value=47 Score=21.15 Aligned_cols=54 Identities=15% Similarity=0.230 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcHHH
Q psy8996 18 YANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENGQE 73 (95)
Q Consensus 18 ~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~~~ 73 (95)
=.-.+|++|++... .-.+++++...... ..+.+++.+|||-+... |.+|-....
T Consensus 15 vG~~v~~~L~~~~~-~~~v~~id~gt~~~~l~~~l~~~d~viiVDA~~~-~~~pG~i~~ 71 (139)
T cd00518 15 FGPAVAERLEERYL-PPGVEVIDGGTLGLELLDLLEGADRVIIVDAVDS-GGEPGTVRR 71 (139)
T ss_pred HHHHHHHHHHhcCC-CCCeEEEECCCCHHHHHHHHhcCCeEEEEECccC-CCCCCeEEE
Confidence 34456777765321 23477777766432 34567899999999886 667765443
No 149
>PRK01231 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=44.41 E-value=93 Score=22.84 Aligned_cols=35 Identities=0% Similarity=-0.221 Sum_probs=28.0
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEee
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLR 40 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~ 40 (95)
+++++++=.....+..+++++.+ +.++++.+.+..
T Consensus 5 ~~v~iv~~~~k~~a~e~~~~i~~~L~~~giev~v~~ 40 (295)
T PRK01231 5 RNIGLIGRLGSSSVVETLRRLKDFLLDRGLEVILDE 40 (295)
T ss_pred CEEEEEecCCCHHHHHHHHHHHHHHHHCCCEEEEec
Confidence 35889998899999999999987 556888776643
No 150
>PRK10712 PTS system fructose-specific transporter subunits IIBC; Provisional
Probab=44.41 E-value=71 Score=25.84 Aligned_cols=56 Identities=16% Similarity=0.131 Sum_probs=36.5
Q ss_pred ccccEEEeCCCchHHH--HHHHHHH-HHhCCCceEEe------eCCCCCcccccccCeEEEEecc
Q psy8996 6 KREPAFSISEVHYANN--YTTESEV-HYANNYTTEVL------RMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~--~A~~l~~-~~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~ST 61 (95)
+++-.+-+..||-+.. .|+.|++ +.++|+++++. ..+.++.+++...+.+|++...
T Consensus 104 ~kivaVtacptGiAht~mAAeaL~~aA~~~G~~i~VEtqg~~g~~n~lt~~~i~~Ad~VIia~d~ 168 (563)
T PRK10712 104 KRVVAVTACPTGVAHTFMAAEAIETEAKKRGWWVKVETRGSVGAGNAITPEEVAAADLVIVAADI 168 (563)
T ss_pred ccEEEEecCCCchhHHHHHHHHHHHHHHHCCCeEEEEecCCcccCCCCCHHHHHhCCEEEEecCC
Confidence 3455556677776654 5688876 55788877633 2334556778888888887544
No 151
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=44.24 E-value=12 Score=25.48 Aligned_cols=45 Identities=9% Similarity=0.120 Sum_probs=29.6
Q ss_pred CchHHHHHHHHHH-HHhCCCceEEeeCCCCCc--ccccc--cCeEEEEec
Q psy8996 16 VHYANNYTTESEV-HYANNYTTEVLRMDEYDM--SSIEH--EALILVVAS 60 (95)
Q Consensus 16 tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~--~~l~~--~~~vi~v~S 60 (95)
+|++..+|..|+- +.++|+.|.+.+-++|+. .+++. .++++++++
T Consensus 4 ~G~~sKvaraiA~~LC~rgv~V~m~~~~~y~~lk~~~~~~~~~~Lv~~~~ 53 (164)
T PF12076_consen 4 TGNTSKVARAIALALCRRGVQVVMLSKERYESLKSEAPEECQSNLVQSTS 53 (164)
T ss_pred cccccHHHHHHHHHHHhcCCEEEEecHHHHHHHHHHcCHHhhccEEeecC
Confidence 7899999999986 668998887775555542 12332 345555544
No 152
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=44.13 E-value=64 Score=19.51 Aligned_cols=62 Identities=11% Similarity=-0.054 Sum_probs=28.6
Q ss_pred chHHHHHHHHHH-HHhCCCceEEeeCCCCCccc-ccccCeEEEEeccCCCCCC---CCcHHHHHHHH
Q psy8996 17 HYANNYTTESEV-HYANNYTTEVLRMDEYDMSS-IEHEALILVVASTFGNGDP---PENGQEFAQNL 78 (95)
Q Consensus 17 G~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~-l~~~~~vi~v~ST~G~Ge~---Pdn~~~F~~~L 78 (95)
|-++.....|++ +.++|+++.++.....+... ......-+.-....+.+.+ +.....|.+++
T Consensus 1 GG~~~~~~~l~~~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 67 (160)
T PF13579_consen 1 GGIERYVRELARALAARGHEVTVVTPQPDPEDDEEEEDGVRVHRLPLPRRPWPLRLLRFLRRLRRLL 67 (160)
T ss_dssp SHHHHHHHHHHHHHHHTT-EEEEEEE---GGG-SEEETTEEEEEE--S-SSSGGGHCCHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHHHCCCEEEEEecCCCCcccccccCCceEEeccCCccchhhhhHHHHHHHHHHH
Confidence 345666667765 55789999999876544322 2233333333333333322 23344444454
No 153
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=44.13 E-value=20 Score=27.09 Aligned_cols=27 Identities=26% Similarity=0.532 Sum_probs=20.9
Q ss_pred eEEeeCCCCCccccc-------------ccCeEEEEeccC
Q psy8996 36 TEVLRMDEYDMSSIE-------------HEALILVVASTF 62 (95)
Q Consensus 36 ~~v~~l~~~~~~~l~-------------~~~~vi~v~ST~ 62 (95)
+++.++|++.+.++. +..++|+.||.+
T Consensus 128 ~~lLcfDEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~ 167 (362)
T PF03969_consen 128 SRLLCFDEFQVTDIADAMILKRLFEALFKRGVVLVATSNR 167 (362)
T ss_pred CCEEEEeeeeccchhHHHHHHHHHHHHHHCCCEEEecCCC
Confidence 578888888766532 567899999998
No 154
>PF00117 GATase: Glutamine amidotransferase class-I; InterPro: IPR017926 Glutamine amidotransferase (GATase) enzymes catalyse the removal of the ammonia group from glutamine and then transfer this group to a substrate to form a new carbon-nitrogen group []. The GATase domain exists either as a separate polypeptidic subunit or as part of a larger polypeptide fused in different ways to a synthase domain. Two classes of GATase domains have been identified [, ]: class-I (also known as trpG-type or triad) and class-II (also known as purF-type or Ntn). Class-I (or type 1) GATase domains have been found in the following enzymes: The second component of anthranilate synthase (AS) []. AS catalyzes the biosynthesis of anthranilate from chorismate and glutamine. AS is generally a dimeric enzyme: the first component can synthesize anthranilate using ammonia rather than glutamine, whereas component II provides the GATase activity []. In some bacteria and in fungi the GATase component of AS is part of a multifunctional protein that also catalyzes other steps of the biosynthesis of tryptophan. The second component of 4-amino-4-deoxychorismate (ADC) synthase, a dimeric prokaryotic enzyme that functions in the pathway that catalyzes the biosynthesis of para-aminobenzoate (PABA) from chorismate and glutamine. The second component (gene pabA) provides the GATase activity []. CTP synthase. CTP synthase catalyzes the final reaction in the biosynthesis of pyrimidine, the ATP-dependent formation of CTP from UTP and glutamine. CTP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the C-terminal section []. GMP synthase (glutamine-hydrolyzing). GMP synthase catalyzes the ATP-dependent formation of GMP from xanthosine 5'-phosphate and glutamine. GMP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the N-terminal section [, ]. Glutamine-dependent carbamoyl-phosphate synthase (GD-CPSase); an enzyme involved in both arginine and pyrimidine biosynthesis and which catalyzes the ATP-dependent formation of carbamoyl phosphate from glutamine and carbon dioxide. In bacteria GD-CPSase is composed of two subunits: the large chain (gene carB) provides the CPSase activity, while the small chain (gene carA) provides the GATase activity. In yeast the enzyme involved in arginine biosynthesis is also composed of two subunits: CPA1 (GATase), and CPA2 (CPSase). In most eukaryotes, the first three steps of pyrimidine biosynthesis are catalyzed by a large multifunctional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals). The GATase domain is located at the N-terminal extremity of this polyprotein []. Phosphoribosylformylglycinamidine synthase, an enzyme that catalyzes the fourth step in the de novo biosynthesis of purines. In some species of bacteria and rchaea, FGAM synthase II is composed of two subunits: a small chain (gene purQ) which provides the GATase activity and a large chain (gene purL) which provides the aminator activity. In eukaryotes and Gram-negative bacteria a single polypeptide (large type of purL) contains a FGAM synthethase domain and the GATase as the C-terminal domain []. Imidazole glycerol phosphate synthase subunit hisH, an enzyme that catalyzes the fifth step in the biosynthesis of histidine. A triad of conserved Cys-His-Glu forms the active site, wherein the catalytic cysteine is essential for the amidotransferase activity [, ]. Different structures show that the active site Cys of type 1 GATase is located at the tip of a nucleophile elbow.; PDB: 1I7S_D 1I7Q_D 3UOW_B 1GPM_C 1O1Y_A 2VXO_A 2VPI_B 1OX5_B 1OX6_B 1OX4_B ....
Probab=43.18 E-value=53 Score=21.71 Aligned_cols=61 Identities=13% Similarity=0.109 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHHHhCCCceEEeeCCCCCcc---cccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 18 YANNYTTESEVHYANNYTTEVLRMDEYDMS---SIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 18 ~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~---~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
++..+.+.++ +.|.++++...+.-... ++.+++.+|+.-+.....+ ......+.+++.+.+
T Consensus 9 ~~~~l~~~l~---~~~~~~~v~~~~~~~~~~~~~~~~~d~iii~Gg~~~~~d-~~~~~~~i~~~~~~~ 72 (192)
T PF00117_consen 9 FTHSLVRALR---ELGIDVEVVRVDSDFEEPLEDLDDYDGIIISGGPGSPYD-IEGLIELIREARERK 72 (192)
T ss_dssp THHHHHHHHH---HTTEEEEEEETTGGHHHHHHHTTTSSEEEEECESSSTTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHH---HCCCeEEEEECCCchhhhhhhhcCCCEEEECCcCCcccc-ccccccccccccccc
Confidence 4444444333 45788899988762222 3567777777655554444 344555555555533
No 155
>KOG0415|consensus
Probab=42.88 E-value=16 Score=28.31 Aligned_cols=44 Identities=9% Similarity=0.016 Sum_probs=22.8
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEec
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVAS 60 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~S 60 (95)
=+|+.+++.+++..++.-.+-+--+.++.-.+...-..|+|||-
T Consensus 203 ~saeel~e~~~e~ea~~~A~iLEmvGDlpdAd~~PPeNVLFVCK 246 (479)
T KOG0415|consen 203 LSAEELEEVLAEKEAKAQAVILEMVGDLPDADVKPPENVLFVCK 246 (479)
T ss_pred cCHHHHHHHHHHHHHHhhHhHHHHhcCCcccccCCCcceEEEEe
Confidence 36788888776522221112222233443344455667888883
No 156
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=42.54 E-value=49 Score=23.39 Aligned_cols=68 Identities=9% Similarity=-0.000 Sum_probs=36.6
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCC-----cccccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYD-----MSSIEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~-----~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
.+.-.+||. |.+..+|+.+.. +.+.|..+.. ..+.. ...+.+.+++|+ .|-.| +.+ +.....+.++
T Consensus 128 a~~I~i~G~--G~s~~~A~~~~~~l~~~g~~~~~--~~d~~~~~~~~~~~~~~Dv~I~-iS~sg--~~~-~~~~~~~~ak 199 (278)
T PRK11557 128 ARRIILTGI--GASGLVAQNFAWKLMKIGINAVA--ERDMHALLATVQALSPDDLLLA-ISYSG--ERR-ELNLAADEAL 199 (278)
T ss_pred CCeEEEEec--ChhHHHHHHHHHHHhhCCCeEEE--cCChHHHHHHHHhCCCCCEEEE-EcCCC--CCH-HHHHHHHHHH
Confidence 344566674 778889999975 5567766544 33321 123556665554 45444 333 2333444444
Q ss_pred hC
Q psy8996 80 AL 81 (95)
Q Consensus 80 ~~ 81 (95)
+.
T Consensus 200 ~~ 201 (278)
T PRK11557 200 RV 201 (278)
T ss_pred Hc
Confidence 43
No 157
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=42.32 E-value=48 Score=23.66 Aligned_cols=38 Identities=5% Similarity=-0.156 Sum_probs=26.5
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
|+++++|.+.+-++....+.+.+ +.+.|+++....+.+
T Consensus 132 k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v~~ 170 (294)
T PF04392_consen 132 KRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPVPS 170 (294)
T ss_dssp -EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEESS
T ss_pred CEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEecCc
Confidence 67889999888888888888876 446788766555554
No 158
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=41.61 E-value=82 Score=19.24 Aligned_cols=54 Identities=17% Similarity=-0.010 Sum_probs=33.9
Q ss_pred ccEEEeCCCchHHHHHHHHHHHH-hCCCc--eEEeeCCCCCcccccccCeEEEEeccCCC
Q psy8996 8 EPAFSISEVHYANNYTTESEVHY-ANNYT--TEVLRMDEYDMSSIEHEALILVVASTFGN 64 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~-~~g~~--~~v~~l~~~~~~~l~~~~~vi~v~ST~G~ 64 (95)
+-+.=|+--|++-.++.++++.+ .+|++ +.....+++. .....+ =||++|+.=.
T Consensus 4 IL~aCG~GvgSS~~ik~kve~~l~~~gi~~~~~~~~v~~~~-~~~~~a--Diiv~s~~l~ 60 (93)
T COG3414 4 ILAACGNGVGSSTMIKMKVEEVLKELGIDVDVEQCAVDEIK-ALTDGA--DIIVTSTKLA 60 (93)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHcCCCceeeeEEecccc-cCCCcc--cEEEEehHhh
Confidence 34445788899999999998855 58884 4455555542 222333 4566776533
No 159
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=41.08 E-value=55 Score=24.69 Aligned_cols=37 Identities=5% Similarity=-0.129 Sum_probs=30.0
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMD 42 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~ 42 (95)
|+++++|.|---|+..+.+.|.+ +.+.|+.+.-....
T Consensus 160 k~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~v~ 197 (322)
T COG2984 160 KSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEAAVT 197 (322)
T ss_pred eeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEEecC
Confidence 67899999999999999999965 66789876555443
No 160
>PF13728 TraF: F plasmid transfer operon protein
Probab=39.95 E-value=95 Score=21.64 Aligned_cols=36 Identities=11% Similarity=0.084 Sum_probs=28.6
Q ss_pred cEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCCC
Q psy8996 9 PAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDEY 44 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~~ 44 (95)
-.||-|.-+-|+.+|-.|... .++|+.+..+++|.-
T Consensus 125 ~~F~~~~C~~C~~~~pil~~~~~~yg~~v~~vs~DG~ 161 (215)
T PF13728_consen 125 FFFYRSDCPYCQQQAPILQQFADKYGFSVIPVSLDGR 161 (215)
T ss_pred EEEEcCCCchhHHHHHHHHHHHHHhCCEEEEEecCCC
Confidence 345678888899999888874 468999999999864
No 161
>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=39.90 E-value=64 Score=19.42 Aligned_cols=32 Identities=3% Similarity=-0.043 Sum_probs=20.9
Q ss_pred EEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCC
Q psy8996 10 AFSISEVHYANNYTTESEVH-YANNYTTEVLRMD 42 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~ 42 (95)
++=|+-.+++ .+|+++.+. .++|+++++...+
T Consensus 4 ~~Cg~G~sTS-~~~~ki~~~~~~~~~~~~v~~~~ 36 (96)
T cd05564 4 LVCSAGMSTS-ILVKKMKKAAEKRGIDAEIEAVP 36 (96)
T ss_pred EEcCCCchHH-HHHHHHHHHHHHCCCceEEEEec
Confidence 4445656666 678999874 4688876655444
No 162
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=39.85 E-value=74 Score=21.88 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=17.5
Q ss_pred cccEEEeCCCch-HHHHHHHHHHHHhCCCceEEeeCCC
Q psy8996 7 REPAFSISEVHY-ANNYTTESEVHYANNYTTEVLRMDE 43 (95)
Q Consensus 7 ~~~~~ygS~tG~-ae~~A~~l~~~~~~g~~~~v~~l~~ 43 (95)
|+-+|+||-.-. -+.+-+.+.++.+.+..+.++.+.+
T Consensus 109 rivi~v~S~~~~d~~~i~~~~~~lkk~~I~v~vI~~G~ 146 (187)
T cd01452 109 RIVAFVGSPIEEDEKDLVKLAKRLKKNNVSVDIINFGE 146 (187)
T ss_pred eEEEEEecCCcCCHHHHHHHHHHHHHcCCeEEEEEeCC
Confidence 556666665322 2333222233444566565555544
No 163
>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=39.42 E-value=89 Score=19.03 Aligned_cols=69 Identities=7% Similarity=-0.030 Sum_probs=41.5
Q ss_pred EEEeCCCchHHHHHHHH-HHHH-hCCCceEEeeCCCCCcccc----cccC-eEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 10 AFSISEVHYANNYTTES-EVHY-ANNYTTEVLRMDEYDMSSI----EHEA-LILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l-~~~~-~~g~~~~v~~l~~~~~~~l----~~~~-~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
++.++--|..-.+.-.+ +..+ ..|+++.... .+.+++++ ...+ -+|.+|+|. +.....+..+.+.+++.
T Consensus 2 vl~~~~~~e~H~lG~~~~~~~l~~~G~~V~~lg-~~~~~~~l~~~~~~~~pdvV~iS~~~--~~~~~~~~~~i~~l~~~ 77 (119)
T cd02067 2 VVIATVGGDGHDIGKNIVARALRDAGFEVIDLG-VDVPPEEIVEAAKEEDADAIGLSGLL--TTHMTLMKEVIEELKEA 77 (119)
T ss_pred EEEEeeCCchhhHHHHHHHHHHHHCCCEEEECC-CCCCHHHHHHHHHHcCCCEEEEeccc--cccHHHHHHHHHHHHHc
Confidence 46667777777777776 5555 4898764333 22444443 2233 355555553 34457778888888775
No 164
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=39.19 E-value=1e+02 Score=25.32 Aligned_cols=52 Identities=10% Similarity=0.073 Sum_probs=33.7
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEE
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVV 58 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v 58 (95)
.++-.++.-||+|+|...-+.+..+.++|. .++.+....-..|.+ .+.+|.+
T Consensus 400 ~~~dlvI~ISqSGeT~dtl~Al~~Ak~~Ga--~tIaITn~~~S~La~~AD~~l~~ 452 (670)
T PTZ00394 400 QRDDVCFFVSQSGETADTLMALQLCKEAGA--MCVGITNVVGSSISRLTHYAIHL 452 (670)
T ss_pred CCCCEEEEEECCcCcHHHHHHHHHHHHCCC--cEEEEECCCCCHHHHhcCeEEEe
Confidence 456678889999999999888888777774 444444433333432 3444443
No 165
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=39.18 E-value=63 Score=21.60 Aligned_cols=84 Identities=15% Similarity=0.160 Sum_probs=50.5
Q ss_pred cccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC-CCc-ccc----cccCeEEEEeccCCCCCCCCcHHHHH
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE-YDM-SSI----EHEALILVVASTFGNGDPPENGQEFA 75 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~-~~~-~~l----~~~~~vi~v~ST~G~Ge~Pdn~~~F~ 75 (95)
..-+|.|-+||+.| =+++.+.+++ +.+.|+.+.+..-+. .+. +-+ .+...+|+ - -|...-......
T Consensus 13 ~LG~REp~iYG~~T--l~di~~~~~~~a~~~g~~v~~~QSN~Eg~Lid~Ihea~~~~~~IvI-N----pga~THTSvAlr 85 (146)
T COG0757 13 LLGKREPGIYGSTT--LEDIEADLEEEAAKLGVEVEFRQSNHEGELIDWIHEARGKAGDIVI-N----PGAYTHTSVALR 85 (146)
T ss_pred ccCCCCCCccCccc--HHHHHHHHHHHHHHcCceEEEEecCchHHHHHHHHHhhccCCeEEE-c----CccchhhHHHHH
Confidence 34588999999986 4566677754 556788777665442 111 111 12121333 1 245566778888
Q ss_pred HHHhhCCCCCcc--ccCCCc
Q psy8996 76 QNLHALRIGEDA--NNSIST 93 (95)
Q Consensus 76 ~~L~~~~~~~~~--l~~l~~ 93 (95)
+.|...+.|--. |+++++
T Consensus 86 DAi~av~iP~vEVHlSNiha 105 (146)
T COG0757 86 DAIAAVSIPVVEVHLSNIHA 105 (146)
T ss_pred HHHHhcCCCEEEEEecCchh
Confidence 888888877543 555543
No 166
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=38.99 E-value=1.4e+02 Score=21.26 Aligned_cols=73 Identities=15% Similarity=0.248 Sum_probs=41.0
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHH-hCCCceE---EeeCCCCCcc----ccc--ccCeEEEEeccCCCCCCCCcHHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHY-ANNYTTE---VLRMDEYDMS----SIE--HEALILVVASTFGNGDPPENGQEFA 75 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~---v~~l~~~~~~----~l~--~~~~vi~v~ST~G~Ge~Pdn~~~F~ 75 (95)
|++.++|.+...-.+.+++.+.+.+ +.|+.+. .+...+-|.. .+. +.+.+++.+ + +..+..|+
T Consensus 137 ~~v~~l~~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~v~~i~~~~~d~vi~~~--~-----~~~~~~~~ 209 (344)
T cd06348 137 KRVAVFYAQDDAFSVSETEIFQKALRDQGLNLVTVQTFQTGDTDFQAQITAVLNSKPDLIVISA--L-----AADGGNLV 209 (344)
T ss_pred eEEEEEEeCCchHHHHHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcCCCEEEECC--c-----chhHHHHH
Confidence 5677888876666788888887754 4787643 2223222211 222 234444322 2 24556788
Q ss_pred HHHhhCCCCC
Q psy8996 76 QNLHALRIGE 85 (95)
Q Consensus 76 ~~L~~~~~~~ 85 (95)
+.+.+.....
T Consensus 210 ~~~~~~g~~~ 219 (344)
T cd06348 210 RQLRELGYNG 219 (344)
T ss_pred HHHHHcCCCC
Confidence 8887765443
No 167
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=38.64 E-value=93 Score=25.18 Aligned_cols=50 Identities=10% Similarity=-0.081 Sum_probs=32.9
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEE
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILV 57 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~ 57 (95)
++-.++.-||+|.+.++-+.++.+.++|. .++.+....-..|.+ .+.+|.
T Consensus 369 ~~~lvI~ISqSGeT~d~i~al~~ak~~Ga--~~IaITn~~~S~La~~ad~~l~ 419 (640)
T PTZ00295 369 EDAGVIFISQSGETLDVVRALNLADELNL--PKISVVNTVGSLIARSTDCGVY 419 (640)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCC--CEEEEECCCCChhHHhcCEEEE
Confidence 45567888999999999988888877774 444444433344433 344443
No 168
>COG0022 AcoB Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]
Probab=38.60 E-value=53 Score=24.81 Aligned_cols=48 Identities=17% Similarity=0.138 Sum_probs=32.3
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccc-------cccCeEEEEec
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSI-------EHEALILVVAS 60 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l-------~~~~~vi~v~S 60 (95)
+-||.+--.+...|+.+++ .|++++++|+-.+.|-|+ .+...+|+|--
T Consensus 206 vtyg~mv~~al~AAe~l~~---~Gis~EVIDLRTl~PlD~etIi~SvkKTgR~viV~E 260 (324)
T COG0022 206 VTYGAMVHTALEAAEELEK---EGISAEVIDLRTLSPLDKETIIASVKKTGRLVIVHE 260 (324)
T ss_pred EEechHHHHHHHHHHHHhh---cCCCeEEEeccccCccCHHHHHHHHHhhCcEEEEEe
Confidence 3456666666666665543 499999999998776543 35667777753
No 169
>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF. The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].
Probab=38.13 E-value=26 Score=23.31 Aligned_cols=12 Identities=25% Similarity=0.747 Sum_probs=6.4
Q ss_pred CCCCCCcHHHHH
Q psy8996 64 NGDPPENGQEFA 75 (95)
Q Consensus 64 ~Ge~Pdn~~~F~ 75 (95)
.|.|||+|..+.
T Consensus 124 ~G~pPddW~~Ll 135 (140)
T PF11663_consen 124 RGNPPDDWDALL 135 (140)
T ss_pred CCCCCccHHHHH
Confidence 455555555543
No 170
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=38.13 E-value=1.7e+02 Score=24.01 Aligned_cols=72 Identities=11% Similarity=0.177 Sum_probs=47.6
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe--eCCCCCc----cc-ccccCeEEEEeccCCCC------------C
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVL--RMDEYDM----SS-IEHEALILVVASTFGNG------------D 66 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~--~l~~~~~----~~-l~~~~~vi~v~ST~G~G------------e 66 (95)
.+-+|+|.+.-=.+|.+|+.|... |+.+... .|++-.- +. +.+.-.+++.|+-+|.| +
T Consensus 230 ~~~GIIYc~sRk~~E~ia~~L~~~---g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~ 306 (590)
T COG0514 230 SKSGIIYCLTRKKVEELAEWLRKN---GISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYD 306 (590)
T ss_pred CCCeEEEEeeHHhHHHHHHHHHHC---CCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEec
Confidence 345799999888999999888653 4444322 2222111 11 23445677777888888 6
Q ss_pred CCCcHHHHHHHHhh
Q psy8996 67 PPENGQEFAQNLHA 80 (95)
Q Consensus 67 ~Pdn~~~F~~~L~~ 80 (95)
+|.+.+.+|.+.-+
T Consensus 307 lP~s~EsYyQE~GR 320 (590)
T COG0514 307 LPGSIESYYQETGR 320 (590)
T ss_pred CCCCHHHHHHHHhh
Confidence 78999999988754
No 171
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=37.82 E-value=74 Score=21.28 Aligned_cols=76 Identities=18% Similarity=0.164 Sum_probs=43.1
Q ss_pred cccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC-CC-cccc----cccCeEEEEeccCCCCCCCCcHHHHH
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE-YD-MSSI----EHEALILVVASTFGNGDPPENGQEFA 75 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~-~~-~~~l----~~~~~vi~v~ST~G~Ge~Pdn~~~F~ 75 (95)
..-+|.|-+||++| =+++-+.+.+ +...|+.+++..-+. =+ ++.+ .+.+.+|+=- |-..-..-...
T Consensus 14 ~LG~REp~iYG~~t--l~~i~~~~~~~a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINp-----ga~THtSiAl~ 86 (146)
T PRK13015 14 LLGTREPAIYGHET--LADVEALCRAAAEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINP-----GAYTHTSVAIR 86 (146)
T ss_pred ccCCCCCCcCCCCC--HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcc-----hHHhhhHHHHH
Confidence 45678999999998 5667677765 445787777665442 00 1111 2334555521 22233445566
Q ss_pred HHHhhCCCCC
Q psy8996 76 QNLHALRIGE 85 (95)
Q Consensus 76 ~~L~~~~~~~ 85 (95)
+.|.....|-
T Consensus 87 DAl~~~~~P~ 96 (146)
T PRK13015 87 DALAALELPV 96 (146)
T ss_pred HHHHcCCCCE
Confidence 6776666554
No 172
>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.
Probab=37.79 E-value=86 Score=24.67 Aligned_cols=23 Identities=13% Similarity=-0.083 Sum_probs=18.8
Q ss_pred ccccEEEeCCCchHHHHHHHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTESEV 28 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~ 28 (95)
.|++||-++.+|.+.-+.+.+..
T Consensus 139 Qr~~Ifg~~G~GKt~l~~~~~~~ 161 (449)
T TIGR03305 139 GKAGLFGGAGVGKTVLLTEMIHN 161 (449)
T ss_pred CEEEeecCCCCChhHHHHHHHHH
Confidence 36789999999999988776654
No 173
>PRK06827 phosphoribosylpyrophosphate synthetase; Provisional
Probab=37.41 E-value=1.9e+02 Score=22.23 Aligned_cols=27 Identities=11% Similarity=0.224 Sum_probs=14.6
Q ss_pred Cccccccc-cEEEeCCCchHHHHHHHHHHHH
Q psy8996 1 MEIVEKRE-PAFSISEVHYANNYTTESEVHY 30 (95)
Q Consensus 1 ~~~~~~~~-~~~ygS~tG~ae~~A~~l~~~~ 30 (95)
|+..+.+- .+|.|+.. +.+|+++++.+
T Consensus 1 ~~~~~~~~~~i~~~~~~---~~la~~ia~~l 28 (382)
T PRK06827 1 METLPVGSLGIIALPSC---RELADKVDEHL 28 (382)
T ss_pred CCCCCCCceEEEECCCC---HHHHHHHHHHH
Confidence 67777764 44444322 45566665533
No 174
>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=82 Score=20.25 Aligned_cols=73 Identities=11% Similarity=-0.008 Sum_probs=45.6
Q ss_pred cccEEEeCCCchHHHHHHHHH-HHH-hCCCceEEeeCCC-CCcccc----cccC-eEEEEeccCCCCCCCCcHHHHHHHH
Q psy8996 7 REPAFSISEVHYANNYTTESE-VHY-ANNYTTEVLRMDE-YDMSSI----EHEA-LILVVASTFGNGDPPENGQEFAQNL 78 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~-~~~-~~g~~~~v~~l~~-~~~~~l----~~~~-~vi~v~ST~G~Ge~Pdn~~~F~~~L 78 (95)
+.-++-|+..|..-++...+. ..+ ..||+| .++.- .+++++ .+++ -+|.+||+. +.-.+.++...+.|
T Consensus 2 ~~~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeV--i~lg~~~s~e~~v~aa~e~~adii~iSsl~--~~~~~~~~~~~~~L 77 (132)
T TIGR00640 2 RPRILVAKMGQDGHDRGAKVIATAYADLGFDV--DVGPLFQTPEEIARQAVEADVHVVGVSSLA--GGHLTLVPALRKEL 77 (132)
T ss_pred CCEEEEEeeCCCccHHHHHHHHHHHHhCCcEE--EECCCCCCHHHHHHHHHHcCCCEEEEcCch--hhhHHHHHHHHHHH
Confidence 334677788888888888874 455 488864 44443 234433 2333 466666665 55667788888888
Q ss_pred hhCCC
Q psy8996 79 HALRI 83 (95)
Q Consensus 79 ~~~~~ 83 (95)
++...
T Consensus 78 ~~~g~ 82 (132)
T TIGR00640 78 DKLGR 82 (132)
T ss_pred HhcCC
Confidence 77543
No 175
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=37.25 E-value=1e+02 Score=18.97 Aligned_cols=33 Identities=6% Similarity=-0.072 Sum_probs=24.6
Q ss_pred EEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 11 FSISEVHYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 11 ~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
.|....|-+|.++..|.+ +.++|+++.+.....
T Consensus 6 ~~~~~~GG~e~~~~~l~~~l~~~G~~v~v~~~~~ 39 (177)
T PF13439_consen 6 IFLPNIGGAERVVLNLARALAKRGHEVTVVSPGV 39 (177)
T ss_dssp C-TTSSSHHHHHHHHHHHHHHHTT-EEEEEESS-
T ss_pred ecCCCCChHHHHHHHHHHHHHHCCCEEEEEEcCC
Confidence 456778999999999976 556999999997665
No 176
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=37.03 E-value=1.1e+02 Score=21.95 Aligned_cols=53 Identities=15% Similarity=0.281 Sum_probs=36.7
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEE
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVV 58 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v 58 (95)
..++-.++--|.+|.+..+.+.+..+.++| ++++.+.+.....|.+ .+++|.+
T Consensus 175 ~~~~Dv~i~iS~sG~t~e~i~~a~~ak~~g--a~vIaiT~~~~spla~~Ad~~L~~ 228 (281)
T COG1737 175 LTPGDVVIAISFSGYTREIVEAAELAKERG--AKVIAITDSADSPLAKLADIVLLV 228 (281)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCC--CcEEEEcCCCCCchhhhhceEEec
Confidence 345556777899999999998888888888 5666666654455544 3444443
No 177
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=37.01 E-value=17 Score=21.31 Aligned_cols=23 Identities=17% Similarity=0.377 Sum_probs=14.2
Q ss_pred EEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 56 LVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 56 i~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
|||+||+.+ +.+.=....+.+..
T Consensus 2 VFiSSt~~D--l~~eR~~l~~~i~~ 24 (83)
T PF13271_consen 2 VFISSTFRD--LKEERDALIEAIRR 24 (83)
T ss_pred EEEecChhh--HHHHHHHHHHHHHH
Confidence 799999953 44444455555543
No 178
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=36.88 E-value=1.1e+02 Score=24.40 Aligned_cols=52 Identities=12% Similarity=0.057 Sum_probs=33.0
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEE
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVV 58 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v 58 (95)
.++--++.-|++|++..+-+.+..+.++|.. ++.+.......|.+ .+.+|.+
T Consensus 335 ~~~dlvI~iS~SG~T~e~i~a~~~ak~~ga~--~IaIT~~~~S~La~~aD~~l~~ 387 (604)
T PRK00331 335 SPKTLVIAISQSGETADTLAALRLAKELGAK--TLAICNVPGSTIARESDAVLYT 387 (604)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHCCCC--EEEEECCCCChhHHhcCcEEEe
Confidence 4455678889999999998888887777754 34444333333432 3444443
No 179
>COG4408 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.62 E-value=38 Score=26.15 Aligned_cols=70 Identities=7% Similarity=0.035 Sum_probs=41.5
Q ss_pred EEEeCCCchHHHHHHHHHHHH-hCCCceEEeeC-------------------CCCCccc-ccccCeEEEEeccCCCCCCC
Q psy8996 10 AFSISEVHYANNYTTESEVHY-ANNYTTEVLRM-------------------DEYDMSS-IEHEALILVVASTFGNGDPP 68 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l-------------------~~~~~~~-l~~~~~vi~v~ST~G~Ge~P 68 (95)
|+-||+-||+.. |+++.+.+ ++|+++.+++- +|+.... +...+.=.++==+|-+|-..
T Consensus 172 iYlgs~~~ns~~-~e~l~~v~aq~~I~v~~~esp~~AEtrnit~YVHpPlflndfsL~aif~~~~~p~yvYKlyPEGPIt 250 (431)
T COG4408 172 IYLGSQHGNSGS-AEMLTAVLAQHGIDVEPCESPLAAETRNITLYVHPPLFLNDFSLQAIFYPEQRPQYVYKLYPEGPIT 250 (431)
T ss_pred eeeccCCCCChH-HHHHHHHHHhcCCceEEcCChhhhhhcccceeecCcchhhhhHHHHHhCCcCCCceeEecCCCCCCC
Confidence 677999999887 57787744 57877655432 1222111 12344445566677778664
Q ss_pred C----cHHHHHHHHhh
Q psy8996 69 E----NGQEFAQNLHA 80 (95)
Q Consensus 69 d----n~~~F~~~L~~ 80 (95)
. +++..|+.+++
T Consensus 251 ~~lIr~mr~lwke~m~ 266 (431)
T COG4408 251 PALIRDMRGLWKEYMR 266 (431)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3 46667776654
No 180
>cd08520 PBP2_NikA_DppA_OppA_like_21 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=36.58 E-value=1.1e+02 Score=23.07 Aligned_cols=26 Identities=4% Similarity=-0.132 Sum_probs=19.7
Q ss_pred hHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 18 YANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 18 ~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
+.+.+|+.|++ +.+.|+++++..++.
T Consensus 341 ~~~~~a~~i~~~l~~iGi~v~i~~~~~ 367 (468)
T cd08520 341 DEVRVAELIKEQLERVGIKVNVKSLES 367 (468)
T ss_pred hHHHHHHHHHHHHHHcCceEEEEecCh
Confidence 56788998976 556799988887653
No 181
>TIGR02294 nickel_nikA nickel ABC transporter, periplasmic nickel-binding protein. Members of this family are periplasmic nickel-binding proteins of nickel ABC transporters. Nickel is bound specifically, albeit weakly, through water molecules positioned in the binding site. The amino acids whose side chains line the binding site include Tyr-44, Met-49, Trp-122, Arg-159, Trp-420, and Tyr-424 (numbering based on the precursor sequence of E. coli NikA) with the Arg contributing a hydrogen bond indirectly through a water molecule. Sequences that exactly (or mostly) have the same binding site residues score above the trusted (or noise) cutoffs to this model. Most appear to be lipoproteins.
Probab=36.49 E-value=1.7e+02 Score=22.34 Aligned_cols=26 Identities=4% Similarity=0.000 Sum_probs=19.2
Q ss_pred hHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 18 YANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 18 ~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
..+.+|+.|++ +.+.|+.+++..++.
T Consensus 354 ~~~~~a~~l~~~l~~~GI~v~i~~~~~ 380 (500)
T TIGR02294 354 LQKSLAEYLQAEWRKIGIKLSLIGEEE 380 (500)
T ss_pred hhHHHHHHHHHHHHHcCCeEEEeecCh
Confidence 34678888876 445799988887765
No 182
>TIGR03043 PS_II_psbZ photosystem II core protein PsbZ. PsbZ is a core protein of photosystem II in thylakoid-containing Cyanobacteria and plant chloroplasts. The original Chlamydomonas gene symbol, ycf9, is a synonym. PsbZ controls the interaction of the reaction center core with the light-harvesting antenna.
Probab=36.33 E-value=22 Score=20.11 Aligned_cols=14 Identities=14% Similarity=0.052 Sum_probs=10.8
Q ss_pred cccEEEeCCCchHH
Q psy8996 7 REPAFSISEVHYAN 20 (95)
Q Consensus 7 ~~~~~ygS~tG~ae 20 (95)
++|+.|+|..|-.+
T Consensus 19 gVPV~~Asp~~W~~ 32 (58)
T TIGR03043 19 GVPVALASPGGWSR 32 (58)
T ss_pred hceeEEeCCCcchh
Confidence 57899998887654
No 183
>COG2406 Protein distantly related to bacterial ferritins [General function prediction only]
Probab=36.20 E-value=22 Score=24.16 Aligned_cols=13 Identities=23% Similarity=0.537 Sum_probs=11.8
Q ss_pred CCCCCCcHHHHHH
Q psy8996 64 NGDPPENGQEFAQ 76 (95)
Q Consensus 64 ~Ge~Pdn~~~F~~ 76 (95)
+|+||.++++||+
T Consensus 77 g~~~Prd~~~l~d 89 (172)
T COG2406 77 GGDLPRDMKKLHD 89 (172)
T ss_pred CCCCchhHHHHHh
Confidence 5999999999986
No 184
>PRK02947 hypothetical protein; Provisional
Probab=36.19 E-value=1.4e+02 Score=21.03 Aligned_cols=57 Identities=7% Similarity=0.006 Sum_probs=37.4
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc-----------cccc-ccCeEEEEeccCC
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM-----------SSIE-HEALILVVASTFG 63 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~-----------~~l~-~~~~vi~v~ST~G 63 (95)
.++=.++.-|.+|+++.+-+.+..+.++|. .++.+....- ..|. -.+++|..++..|
T Consensus 105 ~~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~--~vI~iT~~~~s~~~~~~h~~gs~l~~~ad~~l~~~~~~~ 173 (246)
T PRK02947 105 RPGDVLIVVSNSGRNPVPIEMALEAKERGA--KVIAVTSLAYSASVASRHSSGKRLAEVADVVLDNGAPKG 173 (246)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--EEEEEcCCcccccccccCCCcCchhHhCCEEEEcCCCCC
Confidence 445467778999999999888877878884 4555544321 2343 3567776666554
No 185
>cd08507 PBP2_SgrR_like The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold. A novel family of SgrR transcriptional regulator contains a two-domain structure with an N terminal DNA-binding domain of the winged helix family and a C-terminal solute-binding domain. The C-terminal domain shows strong homology with the ABC-type oligopeptide-binding protein family, a member of the type 2 periplasmic-binding fold protein (PBP2) superfamily that also includes the C-terminal substrate-binding domain of LysR-type transcriptional regulators. SgrR (SugaR transport-related Regulator) is negatively autoregulated and activates transcription of divergent operon SgrS, which encodes a small RNA required for recovery from glucose-phosphate stress. Hence, the small RNA SgrS and SgrR, the transcription factor that controls sgrS expression, are both required for recovery f
Probab=36.08 E-value=1.3e+02 Score=22.67 Aligned_cols=33 Identities=3% Similarity=-0.127 Sum_probs=23.0
Q ss_pred EEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 10 AFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
+.|-+... .+.+|+.|++ +.+.|+++++..++.
T Consensus 302 l~~~~~~~-~~~~a~~l~~~l~~~Gi~v~l~~~~~ 335 (448)
T cd08507 302 LATYNQHP-HREDAKWIQQRLAKHGIRLEIHILSY 335 (448)
T ss_pred EEEcCCCc-hHHHHHHHHHHHHHcCcEEEEEeecc
Confidence 44434444 6789999976 456899988877664
No 186
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=35.91 E-value=21 Score=17.17 Aligned_cols=14 Identities=21% Similarity=0.311 Sum_probs=10.3
Q ss_pred CCcHHHHHHHHhhC
Q psy8996 68 PENGQEFAQNLHAL 81 (95)
Q Consensus 68 Pdn~~~F~~~L~~~ 81 (95)
|+.+.+||+.|++.
T Consensus 6 ~d~f~eFY~rlk~I 19 (28)
T PF12108_consen 6 GDPFSEFYERLKEI 19 (28)
T ss_dssp --HHHHHHHHHHHH
T ss_pred CChHHHHHHHHHHH
Confidence 68899999999864
No 187
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=35.74 E-value=89 Score=22.33 Aligned_cols=32 Identities=13% Similarity=0.009 Sum_probs=26.2
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCce
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTT 36 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~ 36 (95)
.++-.++.-|.+|++..+-+.+..+.++|..+
T Consensus 117 ~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~ 148 (257)
T cd05007 117 TERDVVIGIAASGRTPYVLGALRYARARGALT 148 (257)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeE
Confidence 45557788899999999999888888888554
No 188
>cd03785 GT1_MurG MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide (NAM). The resulting disaccharide is then transported across the cell membrane, where it is polymerized into NAG-NAM cell-wall repeat structure. MurG belongs to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains, each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.
Probab=35.40 E-value=91 Score=22.18 Aligned_cols=33 Identities=3% Similarity=-0.266 Sum_probs=25.6
Q ss_pred EEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCC
Q psy8996 10 AFSISEVHYANNYTTESEVH-YANNYTTEVLRMD 42 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~ 42 (95)
++.+..+|..+..+..|++. .++|+++.+....
T Consensus 3 ~~~~~~~gG~~~~~~~la~~l~~~G~ev~v~~~~ 36 (350)
T cd03785 3 LIAGGGTGGHIFPALALAEELRERGAEVLFLGTK 36 (350)
T ss_pred EEEecCchhhhhHHHHHHHHHHhCCCEEEEEECC
Confidence 45677888999899888764 4589999888654
No 189
>PF15096 G6B: G6B family
Probab=35.14 E-value=23 Score=24.89 Aligned_cols=23 Identities=13% Similarity=0.145 Sum_probs=18.5
Q ss_pred cccccEEEeCCCch-----HHHHHHHHH
Q psy8996 5 EKREPAFSISEVHY-----ANNYTTESE 27 (95)
Q Consensus 5 ~~~~~~~ygS~tG~-----ae~~A~~l~ 27 (95)
+-|+||||+|.+|| ++-||-+|+
T Consensus 41 kGRRPilWASssgtpTv~p~~pFaGRLR 68 (224)
T PF15096_consen 41 KGRRPILWASSSGTPTVPPLQPFAGRLR 68 (224)
T ss_pred cCCcceEEecCCCCCCCCcccccchhhh
Confidence 45789999999998 677886664
No 190
>cd08490 PBP2_NikA_DppA_OppA_like_3 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=35.04 E-value=1.4e+02 Score=22.46 Aligned_cols=26 Identities=4% Similarity=-0.096 Sum_probs=19.2
Q ss_pred chHHHHHHHHHH-HHhCCCceEEeeCC
Q psy8996 17 HYANNYTTESEV-HYANNYTTEVLRMD 42 (95)
Q Consensus 17 G~ae~~A~~l~~-~~~~g~~~~v~~l~ 42 (95)
...+.+|+.|++ +.+.|+.+++..++
T Consensus 332 ~~~~~~a~~i~~~l~~~Gi~v~~~~~~ 358 (470)
T cd08490 332 PELPPIAEAIQAQLKKIGIDVEIRVVE 358 (470)
T ss_pred CchHHHHHHHHHHHHHcCceEEEEEee
Confidence 456788888876 44589998887665
No 191
>PHA03366 FGAM-synthase; Provisional
Probab=34.69 E-value=1.4e+02 Score=26.76 Aligned_cols=48 Identities=13% Similarity=0.198 Sum_probs=35.0
Q ss_pred hCCCceEEeeCCCCCccc-ccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 31 ANNYTTEVLRMDEYDMSS-IEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 31 ~~g~~~~v~~l~~~~~~~-l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
+.||++..+.|.+..... |.+++ .|+++--++.||.++.++.|...+.
T Consensus 1051 ~aGf~~~~v~~~dL~~~~~l~~f~-glv~~GGFS~gD~l~~~~~~a~~il 1099 (1304)
T PHA03366 1051 NAGFDPYPVSIEELKDGTFLDEFS-GLVIGGSSGAEDSYTGARAAVAALL 1099 (1304)
T ss_pred HcCCceEEEEeecCCCCCccccce-EEEEcCCCCCcccccHHHHHHHHhh
Confidence 579998888888754333 66666 5555777888999999988766554
No 192
>cd08496 PBP2_NikA_DppA_OppA_like_9 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA can bind peptides of a wide range of lengths (2-35 amino-acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most
Probab=34.62 E-value=1.3e+02 Score=22.61 Aligned_cols=27 Identities=4% Similarity=-0.034 Sum_probs=20.7
Q ss_pred chHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 17 HYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 17 G~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
...+.+|+.|++ +.+.|+++++..++.
T Consensus 325 ~~~~~~a~~i~~~l~~iGi~v~~~~~~~ 352 (454)
T cd08496 325 QNADTLAEIVQQQLAKVGIKVTIKPLTG 352 (454)
T ss_pred CchhHHHHHHHHHHHHcCceEEEEEech
Confidence 567888888876 445799998887764
No 193
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=33.88 E-value=88 Score=20.82 Aligned_cols=65 Identities=11% Similarity=0.001 Sum_probs=37.7
Q ss_pred CCchHHHHHHHHHHHHh-CCCceEEeeCCCCCccc-----ccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCC
Q psy8996 15 EVHYANNYTTESEVHYA-NNYTTEVLRMDEYDMSS-----IEHEALILVVASTFGNGDPPENGQEFAQNLHALRI 83 (95)
Q Consensus 15 ~tG~ae~~A~~l~~~~~-~g~~~~v~~l~~~~~~~-----l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~ 83 (95)
+-|..-. |+-++++++ .||+|....+-.- +++ ++..--+|.+||++|... +-+....+.|++...
T Consensus 22 lDgHd~g-akvia~~l~d~GfeVi~~g~~~t-p~e~v~aA~~~dv~vIgvSsl~g~h~--~l~~~lve~lre~G~ 92 (143)
T COG2185 22 LDGHDRG-AKVIARALADAGFEVINLGLFQT-PEEAVRAAVEEDVDVIGVSSLDGGHL--TLVPGLVEALREAGV 92 (143)
T ss_pred ccccccc-hHHHHHHHHhCCceEEecCCcCC-HHHHHHHHHhcCCCEEEEEeccchHH--HHHHHHHHHHHHhCC
Confidence 3444333 355566554 7887665555443 333 234456888889887654 556666677766543
No 194
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=33.82 E-value=88 Score=17.30 Aligned_cols=46 Identities=17% Similarity=0.157 Sum_probs=24.6
Q ss_pred CCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 32 NNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 32 ~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
+|.+++...-. .+.+...+..+++.+....-.-|..++.+.+|+.+
T Consensus 17 ~g~~v~~~~~~---~~~l~~~~~tll~i~~~~~~~~~~~~~~l~~~v~~ 62 (70)
T PF14258_consen 17 QGVKVERWRKP---YEALEADDGTLLVIGPDLRLSEPEEAEALLEWVEA 62 (70)
T ss_pred CCCeeEEeccc---HHHhCCCCCEEEEEeCCCCCCchHHHHHHHHHHHc
Confidence 57666544322 33455444444444444332226778888888864
No 195
>PF13554 DUF4128: Bacteriophage related domain of unknown function; PDB: 2L25_A.
Probab=33.66 E-value=54 Score=20.93 Aligned_cols=21 Identities=14% Similarity=0.142 Sum_probs=13.8
Q ss_pred eCCCchHHHHHHHHHHHHhCC
Q psy8996 13 ISEVHYANNYTTESEVHYANN 33 (95)
Q Consensus 13 gS~tG~ae~~A~~l~~~~~~g 33 (95)
|+-++-+..+|++|++++..|
T Consensus 71 G~G~~~~~~iAd~l~~~F~~g 91 (127)
T PF13554_consen 71 GQGTAAAEEIADELAAHFEAG 91 (127)
T ss_dssp SSS--THHHHHHHHHHH--TT
T ss_pred CCCchHHHHHHHHHHHHhhcc
Confidence 677777889999999887654
No 196
>PHA02102 hypothetical protein
Probab=33.53 E-value=61 Score=18.80 Aligned_cols=31 Identities=19% Similarity=0.356 Sum_probs=19.2
Q ss_pred hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCC
Q psy8996 31 ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPP 68 (95)
Q Consensus 31 ~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~P 68 (95)
.+.|.+++.+-++.+.++.. -+|-||+|.-.
T Consensus 27 e~~yGvein~~nev~f~DWL-------sSSCYGEg~ea 57 (72)
T PHA02102 27 EQDYGVEINDDNEVRFEDWL-------SSSCYGEGGEA 57 (72)
T ss_pred hhccceeeCCCCcEeHHHhh-------cccccccccce
Confidence 35566776666666555543 36778887643
No 197
>KOG1301|consensus
Probab=33.26 E-value=1.4e+02 Score=24.43 Aligned_cols=69 Identities=13% Similarity=0.100 Sum_probs=38.3
Q ss_pred cccEEEeCCCchHHHHHHHHHH-HHhCCCce--EEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHH
Q psy8996 7 REPAFSISEVHYANNYTTESEV-HYANNYTT--EVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNL 78 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~--~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L 78 (95)
-|||+-.+..|-||.+|++|.. +..+..+. .++.++.-... + +..++|++--+. |=-+|-.-.|-|+.|
T Consensus 200 ~VPiIRcp~g~aAEmvA~kL~qKLRd~l~d~k~~lft~~~~~~~-~-~RPvLvl~DRn~-Dlat~l~HtWtYqaL 271 (621)
T KOG1301|consen 200 EVPIIRCPKGGAAEMVARKLDQKLRDNLRDTKNNLFTMDGGGAG-F-QRPVLVLLDRNI-DLATPLHHTWTYQAL 271 (621)
T ss_pred cceeEECCCCCHHHHHHHHHHHHHHHHhHhhcccceeccCcccC-C-CCceEEEEeccc-ccccccccceehHHH
Confidence 3799999999999999999964 55454432 34444432111 1 223344433333 333444444444444
No 198
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=32.82 E-value=77 Score=25.30 Aligned_cols=53 Identities=11% Similarity=0.031 Sum_probs=34.0
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccc-cCeEEEEe
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEH-EALILVVA 59 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~-~~~vi~v~ 59 (95)
.++-.++.-|++|++..+-+.+..+.++|. .++.+....-..|.+ .+.+|.+.
T Consensus 337 ~~~dlvI~iS~SG~T~e~v~a~~~ak~~ga--~~IaIT~~~~S~La~~ad~~l~~~ 390 (607)
T TIGR01135 337 DKDTLVIAISQSGETADTLAALRLAKELGA--KTLGICNVPGSTLVRESDHTLYTR 390 (607)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHcCC--cEEEEECCCCChHHhhcCceEEec
Confidence 455567788999999999988888877874 344444433334433 34555443
No 199
>PRK13170 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=32.81 E-value=1.4e+02 Score=20.29 Aligned_cols=46 Identities=17% Similarity=0.112 Sum_probs=28.4
Q ss_pred CchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHH
Q psy8996 16 VHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQ 72 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~ 72 (95)
.||...+++.|++ .|.++.+.. +++++.+.+.+|+ =|-|.+-+.+.
T Consensus 10 ~gn~~s~~~~l~~---~g~~~~~v~----~~~~~~~~d~iIl----PG~G~~~~~~~ 55 (196)
T PRK13170 10 CANLSSVKFAIER---LGYEPVVSR----DPDVILAADKLFL----PGVGTAQAAMD 55 (196)
T ss_pred CchHHHHHHHHHH---CCCeEEEEC----CHHHhCCCCEEEE----CCCCchHHHHH
Confidence 4788888886665 366666663 2456666676554 56666655443
No 200
>PRK02576 psbZ photosystem II reaction center protein Z; Provisional
Probab=32.79 E-value=27 Score=20.03 Aligned_cols=12 Identities=17% Similarity=0.149 Sum_probs=9.9
Q ss_pred cccEEEeCCCch
Q psy8996 7 REPAFSISEVHY 18 (95)
Q Consensus 7 ~~~~~ygS~tG~ 18 (95)
++|+.|+|..|=
T Consensus 22 gVPV~~Asp~gW 33 (62)
T PRK02576 22 GVPVAYASPQNW 33 (62)
T ss_pred eeeeEEECCCcc
Confidence 579999998884
No 201
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=32.69 E-value=1.1e+02 Score=22.34 Aligned_cols=33 Identities=9% Similarity=-0.003 Sum_probs=25.8
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCce
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTT 36 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~ 36 (95)
+.++=.++.-|.+|++..+-+.+..+.++|..+
T Consensus 129 l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~t 161 (299)
T PRK05441 129 LTAKDVVVGIAASGRTPYVIGALEYARERGALT 161 (299)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeE
Confidence 345556777899999999998888888888543
No 202
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=32.64 E-value=1.2e+02 Score=21.02 Aligned_cols=66 Identities=12% Similarity=0.066 Sum_probs=34.7
Q ss_pred EEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCC---CcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 10 AFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEY---DMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~---~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
.+||+ |++.-+|+.+.. +.+.|..+...+-.+. ....+.+.+ ++++.|-.|+- .+.....+.+++.
T Consensus 4 ~i~G~--G~S~~~a~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~d-~~i~iS~sG~t---~~~~~~~~~a~~~ 73 (268)
T TIGR00393 4 VIVGI--GKSGLIGKKIVATFASTGTPSFFLHPTEAMHGDLGMVEPND-VVLMISYSGES---LELLNLIPHLKRL 73 (268)
T ss_pred EEEec--ChHHHHHHHHHHHHHhcCCceEEeCHhHHhhcccCCCCCCC-EEEEEeCCCCC---HHHHHHHHHHHHc
Confidence 45554 578888988875 4456777654432221 112344444 45555555532 3344444555544
No 203
>PRK06490 glutamine amidotransferase; Provisional
Probab=32.54 E-value=1.8e+02 Score=20.50 Aligned_cols=57 Identities=11% Similarity=0.064 Sum_probs=31.2
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCC--CCCcccccccCeEEEEeccCCCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMD--EYDMSSIEHEALILVVASTFGNGD 66 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~--~~~~~~l~~~~~vi~v~ST~G~Ge 66 (95)
++-++==+..++...+++.|. ..|+.+++.... +..++++.+++.+|+.-|..+--+
T Consensus 9 ~vlvi~h~~~~~~g~l~~~l~---~~g~~~~v~~~~~~~~~p~~l~~~dgvii~Ggp~~~~d 67 (239)
T PRK06490 9 PVLIVLHQERSTPGRVGQLLQ---ERGYPLDIRRPRLGDPLPDTLEDHAGAVIFGGPMSAND 67 (239)
T ss_pred eEEEEecCCCCCChHHHHHHH---HCCCceEEEeccCCCCCCCcccccCEEEEECCCCCCCC
Confidence 333333344444555555444 356777766532 333556777887777666654444
No 204
>PRK08366 vorA 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=32.50 E-value=96 Score=23.78 Aligned_cols=52 Identities=12% Similarity=-0.042 Sum_probs=33.6
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc---cc----ccccCeEEEEeccC
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM---SS----IEHEALILVVASTF 62 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~----l~~~~~vi~v~ST~ 62 (95)
+-|-|||..|+++...+.|++ .|.++.++.+..+.| +. +.+.+.++++=-++
T Consensus 263 ~iV~~Gs~~~~~~eav~~lr~---~G~kvg~l~i~~~~PfP~~~i~~~l~~~k~ViVvE~n~ 321 (390)
T PRK08366 263 VFMGMGSLMGTVKEAVDLLRK---EGYKVGYAKVRWFRPFPKEELYEIAESVKGIAVLDRNF 321 (390)
T ss_pred EEEEeCccHHHHHHHHHHHHh---cCCceeeEEEeeecCCCHHHHHHHHhcCCEEEEEeCCC
Confidence 456789999999999888853 355555554443322 22 35667788877774
No 205
>PRK09765 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional
Probab=32.38 E-value=86 Score=25.56 Aligned_cols=54 Identities=7% Similarity=-0.068 Sum_probs=34.1
Q ss_pred ccEEEeCCCchHHH--HHHHHHH-HHhCCCceEEe------eCCCCCcccccccCeEEEEecc
Q psy8996 8 EPAFSISEVHYANN--YTTESEV-HYANNYTTEVL------RMDEYDMSSIEHEALILVVAST 61 (95)
Q Consensus 8 ~~~~ygS~tG~ae~--~A~~l~~-~~~~g~~~~v~------~l~~~~~~~l~~~~~vi~v~ST 61 (95)
+-++-++.+|.|.. .|+.|++ +.++|+++++. ..+.++.+++...+.+|++..+
T Consensus 166 i~avtacp~G~aht~mAae~L~~aA~~~g~~i~vE~~g~~g~~~~lt~~~i~~Ad~Viia~d~ 228 (631)
T PRK09765 166 IVCVTACPAGIAHTYMAAEYLEKAGRKLGVNVYVEKQGANGIEGRLTADQLNSATACIFAAEV 228 (631)
T ss_pred EEEEEeCCCcchHHHHHHHHHHHHHHHCCCeEEEEecCCcCCCCCCCHHHHHhCCEEEEeecC
Confidence 34445566665554 5688876 55688876633 2334556777888888887543
No 206
>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=32.11 E-value=1.2e+02 Score=21.72 Aligned_cols=36 Identities=3% Similarity=-0.116 Sum_probs=26.4
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
+..++|++.|....+++...+..+.+.+.|.+.-+.
T Consensus 67 ~~~~~~viagv~~~~~~~ai~~a~~a~~~Gad~v~~ 102 (288)
T cd00954 67 AKGKVTLIAHVGSLNLKESQELAKHAEELGYDAISA 102 (288)
T ss_pred hCCCCeEEeccCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence 456789999998888888766666677778765443
No 207
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=31.71 E-value=1.3e+02 Score=22.90 Aligned_cols=50 Identities=12% Similarity=-0.007 Sum_probs=32.0
Q ss_pred cEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc---cc----ccccCeEEEEecc
Q psy8996 9 PAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM---SS----IEHEALILVVAST 61 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~----l~~~~~vi~v~ST 61 (95)
-|-+||.++.+...++.|+ +.|.++.++.+..+.| +. +.+.+.++++=-.
T Consensus 278 iv~~Gs~~~~a~eAv~~Lr---~~G~~v~~l~~~~l~Pfp~~~i~~~~~~~k~VivvEe~ 334 (376)
T PRK08659 278 VVAYGSVARSARRAVKEAR---EEGIKVGLFRLITVWPFPEEAIRELAKKVKAIVVPEMN 334 (376)
T ss_pred EEEeCccHHHHHHHHHHHH---hcCCceEEEEeCeecCCCHHHHHHHHhcCCEEEEEeCC
Confidence 4557899999988887774 3577787777776432 22 2355556655443
No 208
>COG3915 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.26 E-value=53 Score=22.01 Aligned_cols=37 Identities=22% Similarity=0.188 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhCCCceEEeeCCCCCc----ccccccCeEEE
Q psy8996 21 NYTTESEVHYANNYTTEVLRMDEYDM----SSIEHEALILV 57 (95)
Q Consensus 21 ~~A~~l~~~~~~g~~~~v~~l~~~~~----~~l~~~~~vi~ 57 (95)
.++..|+-+-.++-+++++.++||.. .|++++..++-
T Consensus 68 sls~Ll~~l~ak~tslt~iALNdY~a~Ip~sDi~kynpIlA 108 (155)
T COG3915 68 SLSALLAWLGAKQTSLTVIALNDYWAEIPYSDIEKYNPILA 108 (155)
T ss_pred eHHHHHHHhhccCcceEEEEecceeccCcHHHhhhcccEEE
Confidence 34444444445677899999998853 45666665543
No 209
>PRK00441 argR arginine repressor; Provisional
Probab=31.26 E-value=1.5e+02 Score=19.51 Aligned_cols=28 Identities=21% Similarity=0.383 Sum_probs=19.4
Q ss_pred ccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 47 SSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 47 ~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
..+.+.|.++++|.+- +.+..+.++|..
T Consensus 119 GTiAGdDTilvi~~~~------~~a~~l~~~l~~ 146 (149)
T PRK00441 119 GTIAGDNTIFVLVRSE------EKAQEIVEKIKK 146 (149)
T ss_pred EEEecCCEEEEEECCH------HHHHHHHHHHHH
Confidence 3456778888887764 667777777754
No 210
>TIGR02739 TraF type-F conjugative transfer system pilin assembly protein TraF. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold and has been shown to be localized to the periplasm. Unlike the related protein TrbB (TIGR02738), TraF does not contain a conserved pair of cysteines and has been shown not to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. Even more closely related than TrbB is a clade of genes (TIGR02740) which do contain the CXXC motif, but it is unclear whether these genes are involved in type-F conjugation systems per se.
Probab=31.23 E-value=1.6e+02 Score=21.39 Aligned_cols=38 Identities=5% Similarity=-0.067 Sum_probs=30.6
Q ss_pred cccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDEY 44 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~~ 44 (95)
+.-.||.|.-+-|+.+|-.|... .++|+.+..+++|.-
T Consensus 153 gL~fFy~~~C~~C~~~apil~~fa~~ygi~v~~VS~DG~ 191 (256)
T TIGR02739 153 GLFFFYRGKSPISQKMAPVIQAFAKEYGISVIPISVDGT 191 (256)
T ss_pred eEEEEECCCCchhHHHHHHHHHHHHHhCCeEEEEecCCC
Confidence 34567889999999999999874 468999999988864
No 211
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=31.10 E-value=41 Score=20.43 Aligned_cols=24 Identities=0% Similarity=-0.211 Sum_probs=17.9
Q ss_pred eCCCchHHHHHHHHHHHHhCCCce
Q psy8996 13 ISEVHYANNYTTESEVHYANNYTT 36 (95)
Q Consensus 13 gS~tG~ae~~A~~l~~~~~~g~~~ 36 (95)
|+..|+++.+++.+.-++++|.++
T Consensus 34 Gg~~~~~~ai~rliS~~Lr~G~~~ 57 (95)
T PF12637_consen 34 GGCSGNLEAIARLISLALRSGVPP 57 (95)
T ss_pred CCchHHHHHHHHHHHHHHHcCCCH
Confidence 444778888888877778888764
No 212
>cd08497 PBP2_NikA_DppA_OppA_like_14 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=30.66 E-value=1.3e+02 Score=23.08 Aligned_cols=34 Identities=3% Similarity=-0.219 Sum_probs=23.9
Q ss_pred EEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 10 AFSISEVHYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
+-+.+..++.+.+|+.+++ +.+.|+.+++..++.
T Consensus 350 l~~~~~~~~~~~~a~~i~~~l~~iGi~v~i~~~~~ 384 (491)
T cd08497 350 FEILLDSPTFERVLLPYVRNLKKLGIDASLRLVDS 384 (491)
T ss_pred EEEEeCCCcHHHHHHHHHHHHHhcCceEEEeeccH
Confidence 3333445578889999876 456899998887763
No 213
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=30.51 E-value=55 Score=19.35 Aligned_cols=28 Identities=14% Similarity=0.016 Sum_probs=19.7
Q ss_pred CCCchHHHHHHHHHHHH-hCCCceEEeeC
Q psy8996 14 SEVHYANNYTTESEVHY-ANNYTTEVLRM 41 (95)
Q Consensus 14 S~tG~ae~~A~~l~~~~-~~g~~~~v~~l 41 (95)
+..|++..+|..+..++ ..|++++++..
T Consensus 49 ~~~G~C~~~a~l~~allr~~Gipar~v~g 77 (113)
T PF01841_consen 49 SGRGDCEDYASLFVALLRALGIPARVVSG 77 (113)
T ss_dssp CEEESHHHHHHHHHHHHHHHT--EEEEEE
T ss_pred cCCCccHHHHHHHHHHHhhCCCceEEEEE
Confidence 45599999999888755 48998877643
No 214
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=30.10 E-value=81 Score=22.54 Aligned_cols=37 Identities=5% Similarity=-0.020 Sum_probs=25.0
Q ss_pred cccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
.+..|+|++.|....+++...+..+.+.+.|.+.-++
T Consensus 66 ~~~~~~~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v 102 (289)
T PF00701_consen 66 AAAGRVPVIAGVGANSTEEAIELARHAQDAGADAVLV 102 (289)
T ss_dssp HHTTSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEE
T ss_pred HccCceEEEecCcchhHHHHHHHHHHHhhcCceEEEE
Confidence 4567888888877767777777666666777764433
No 215
>cd06553 ASCH_Ef3133_like ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=29.47 E-value=1.1e+02 Score=19.70 Aligned_cols=29 Identities=7% Similarity=-0.016 Sum_probs=18.6
Q ss_pred CchHHHHHHHHHHHHhCCCc-eEEeeCCCC
Q psy8996 16 VHYANNYTTESEVHYANNYT-TEVLRMDEY 44 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~-~~v~~l~~~ 44 (95)
=|.+..+|++|..+...|.. +++.....|
T Consensus 6 FGd~~~~ad~l~~LVl~G~KtAT~s~~~~y 35 (127)
T cd06553 6 FGDSPELADELAALVLAGKKTATCSALALY 35 (127)
T ss_pred cCCCHHHHHHHHHHHHcCCcEEEEechhhc
Confidence 36668889999887766654 344433333
No 216
>PRK10264 hydrogenase 1 maturation protease; Provisional
Probab=29.46 E-value=1.5e+02 Score=20.45 Aligned_cols=58 Identities=12% Similarity=0.129 Sum_probs=35.7
Q ss_pred CCchHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcHHH
Q psy8996 15 EVHYANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENGQE 73 (95)
Q Consensus 15 ~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~~~ 73 (95)
.=|=.-.+|++|++.....-.+++++...... ..+.+.+.+|||-+... |..|-+...
T Consensus 18 DDGvG~~va~~L~~~~~~~~~V~vid~Gt~g~~ll~~i~~~d~vIiVDAv~~-g~~PGtv~~ 78 (195)
T PRK10264 18 DEGFGVRVAERLYAHYHWPEYVEIVDGGTQGLNLLGYVESASHLLILDAIDY-GLEPGTLRT 78 (195)
T ss_pred cCcHHHHHHHHHHhhcCCCCCeEEEECCCCHHHHHHHHcCCCEEEEEECCcc-CCCCCeEEE
Confidence 34555677787765322222477887776432 33568899999998775 555655433
No 217
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=29.24 E-value=1e+02 Score=22.64 Aligned_cols=31 Identities=6% Similarity=0.050 Sum_probs=24.9
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCc
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYT 35 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~ 35 (95)
.++-.++.-|.+|+++..-+.++.+.++|..
T Consensus 77 ~~~dlvI~iS~SG~T~e~~~a~~~a~~~ga~ 107 (337)
T PRK08674 77 DEKTLVIAVSYSGNTEETLSAVEQALKRGAK 107 (337)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHHHCCCe
Confidence 4555678889999999998888888778754
No 218
>KOG4530|consensus
Probab=29.12 E-value=2e+02 Score=19.98 Aligned_cols=29 Identities=17% Similarity=0.159 Sum_probs=20.3
Q ss_pred ccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 51 HEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 51 ~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
..|.++|++.-|.-| .|..-+.-.+||..
T Consensus 86 ~aD~ivFvtPqYN~g-ypA~LKNAlD~lyh 114 (199)
T KOG4530|consen 86 EADSIVFVTPQYNFG-YPAPLKNALDWLYH 114 (199)
T ss_pred hcceEEEecccccCC-CchHHHHHHHHhhh
Confidence 457899999999544 56666666666653
No 219
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=29.00 E-value=1.8e+02 Score=19.42 Aligned_cols=45 Identities=18% Similarity=0.307 Sum_probs=26.8
Q ss_pred hCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 31 ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 31 ~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
+.|..+++...++.+++++...+.+|+.- |-|. |+...+..++++
T Consensus 23 ~~g~~~~v~~~~~~~~~~l~~~d~iIi~g---Gp~~-~~~~~~~~~~i~ 67 (190)
T PRK06895 23 KLGVPMQVVNVEDLDLDEVENFSHILISP---GPDV-PRAYPQLFAMLE 67 (190)
T ss_pred HcCCcEEEEECCccChhHhccCCEEEECC---CCCC-hHHhhHHHHHHH
Confidence 35888888887765666777777655432 3342 444444455554
No 220
>TIGR02815 agaS_fam putative sugar isomerase, AgaS family. Some members of this protein family are found in regions associated with N-acetyl-galactosamine and galactosamine untilization and are suggested to be isomerases.
Probab=28.95 E-value=93 Score=23.42 Aligned_cols=26 Identities=8% Similarity=-0.075 Sum_probs=21.0
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYAN 32 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~ 32 (95)
+.-++.-||+|+|.+.-+.+..+.++
T Consensus 93 ~~lvi~iSqSGeT~etv~a~~~ak~~ 118 (372)
T TIGR02815 93 PTLLVSFARSGNSPESVAAVELADQL 118 (372)
T ss_pred CeEEEEEeCCcCcHHHHHHHHHHHHh
Confidence 34577889999999998888777665
No 221
>PRK00048 dihydrodipicolinate reductase; Provisional
Probab=28.92 E-value=1.3e+02 Score=21.32 Aligned_cols=44 Identities=11% Similarity=0.120 Sum_probs=28.2
Q ss_pred ccccccEEEeCCCchHHHHHHHHHH-HHh-C-CCceEEeeCCCCCcc
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEV-HYA-N-NYTTEVLRMDEYDMS 47 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~-~~~-~-g~~~~v~~l~~~~~~ 47 (95)
+.+++|++|..+....-.+..++.+ +.+ . .+++++.++..-...
T Consensus 105 aa~~~~v~~s~n~s~g~~~~~~l~~~aa~~l~~~d~ei~E~HH~~K~ 151 (257)
T PRK00048 105 AAKKIPVVIAPNFSIGVNLLMKLAEKAAKYLGDYDIEIIEAHHRHKV 151 (257)
T ss_pred HhcCCCEEEECcchHHHHHHHHHHHHHHHhcCCCCEEEEEccCCCCC
Confidence 3477788888888887777777643 322 2 267777777764333
No 222
>PF01904 DUF72: Protein of unknown function DUF72; InterPro: IPR002763 The function of this family is unknown. Aquifex aeolicus has two copies of this protein. A probable aspartyl-tRNA synthetase from Escherichia coli [] belongs to this group.; PDB: 1VPY_A 1ZTV_A 1VPQ_A.
Probab=28.88 E-value=60 Score=22.70 Aligned_cols=24 Identities=21% Similarity=0.274 Sum_probs=15.7
Q ss_pred eEEEEeccCCCCCCCCcHHHHHHHH
Q psy8996 54 LILVVASTFGNGDPPENGQEFAQNL 78 (95)
Q Consensus 54 ~vi~v~ST~G~Ge~Pdn~~~F~~~L 78 (95)
+.|++ -+..+|..|.||..|.+.|
T Consensus 207 v~v~f-nN~~~g~a~~nA~~l~~~L 230 (230)
T PF01904_consen 207 VYVFF-NNDYEGYAPENALRLKELL 230 (230)
T ss_dssp EEEEE--SBCCCHHHHHHHHHHHHC
T ss_pred EEEEE-eCCccchHHHHHHHHHHhC
Confidence 33443 3444789999999987643
No 223
>PRK03341 arginine repressor; Provisional
Probab=28.83 E-value=1.9e+02 Score=19.64 Aligned_cols=29 Identities=31% Similarity=0.416 Sum_probs=21.0
Q ss_pred ccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 47 SSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 47 ~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
..+.+.|.++++|.+- +.+..+.+.|.+.
T Consensus 136 GTIAGDDTIlvi~~~~------~~a~~l~~~i~~~ 164 (168)
T PRK03341 136 GTIAGDDTVLVIARDP------MTGAELAARLLRL 164 (168)
T ss_pred EEeecCCEEEEEeCCH------HHHHHHHHHHHhh
Confidence 3456778778777654 6788888888765
No 224
>PF14000 Packaging_FI: DNA packaging protein FI
Probab=28.80 E-value=52 Score=21.43 Aligned_cols=16 Identities=6% Similarity=-0.126 Sum_probs=13.9
Q ss_pred CCCchHHHHHHHHHHH
Q psy8996 14 SEVHYANNYTTESEVH 29 (95)
Q Consensus 14 S~tG~ae~~A~~l~~~ 29 (95)
..+|++..+|.+++++
T Consensus 21 d~SGSaAeiaqRVAEw 36 (125)
T PF14000_consen 21 DMSGSAAEIAQRVAEW 36 (125)
T ss_pred CccccHHHHHHHHHHH
Confidence 5789999999999764
No 225
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=28.76 E-value=1.1e+02 Score=20.06 Aligned_cols=28 Identities=21% Similarity=0.305 Sum_probs=18.8
Q ss_pred ccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 47 SSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 47 ~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
..+.+.+.++++|.+- +.++.+.+.|.+
T Consensus 117 GtiAGdDTilii~~~~------~~a~~~~~~l~~ 144 (146)
T TIGR01529 117 GTIAGDDTILVICRDP------ETAELLMERLLE 144 (146)
T ss_pred EEEecCCEEEEEECCH------HHHHHHHHHHHH
Confidence 3456777777777664 567777777653
No 226
>cd08489 PBP2_NikA The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding domain of nickel transport system, which functions in the import of nickel and in the control of chemotactic response away from nickel. The ATP-binding cassette (ABC) type nickel transport system is comprised of five subunits NikABCDE: the two pore-forming integral inner membrane proteins NikB and NikC; the two inner membrane-associated proteins with ATPase activity NikD and NikE; and the periplasmic nickel binding NikA, the initial nickel receptor. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides,
Probab=28.60 E-value=1.8e+02 Score=22.13 Aligned_cols=26 Identities=4% Similarity=-0.017 Sum_probs=19.5
Q ss_pred hHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 18 YANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 18 ~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
..+.+|+.+++ +.+.|+++++..++.
T Consensus 346 ~~~~~a~~i~~~l~~~Gi~v~~~~~~~ 372 (488)
T cd08489 346 LQKSIAEYLQSELKKIGIDLNIIGEEE 372 (488)
T ss_pred hHHHHHHHHHHHHHHcCcEEEEeeccH
Confidence 45788888876 446899998887654
No 227
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=28.53 E-value=1.2e+02 Score=24.99 Aligned_cols=35 Identities=11% Similarity=0.062 Sum_probs=25.9
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDE 43 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~ 43 (95)
+-.++.-||+|++.+.-+.++.+.++|.. ++.+..
T Consensus 411 ~~lvI~ISqSGeT~eti~Al~~Ak~~Ga~--~IaITn 445 (680)
T PLN02981 411 EDTAVFVSQSGETADTLRALEYAKENGAL--CVGITN 445 (680)
T ss_pred CCeEEEEeCCcCCHHHHHHHHHHHHCCCc--EEEEEC
Confidence 44677789999999998888887777743 344433
No 228
>PRK13609 diacylglycerol glucosyltransferase; Provisional
Probab=28.32 E-value=1.3e+02 Score=21.87 Aligned_cols=37 Identities=5% Similarity=-0.035 Sum_probs=24.0
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHH-hCCCc-eEEeeC
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHY-ANNYT-TEVLRM 41 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~-~~v~~l 41 (95)
.+|+-++++|-.|---..|+.|++.+ ++|.. +.+.+.
T Consensus 4 ~~rili~t~~~G~GH~~~a~al~~~l~~~g~~~~~~~d~ 42 (380)
T PRK13609 4 NPKVLILTAHYGNGHVQVAKTLEQTFRQKGIKDVIVCDL 42 (380)
T ss_pred CCeEEEEEcCCCchHHHHHHHHHHHHHhcCCCcEEEEEh
Confidence 45788888887645666678887754 57765 344343
No 229
>PRK09622 porA pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed
Probab=28.24 E-value=2.3e+02 Score=21.74 Aligned_cols=69 Identities=7% Similarity=-0.063 Sum_probs=40.1
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc---cc----ccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM---SS----IEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~----l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
+-|-|||..+.++..++.|++ .|.++.++.+..+.| +. +.+.+.++++=-++-.|-.-.-..++...|.
T Consensus 271 ~iV~~Gs~~~~a~ea~~~L~~---~G~kvgvi~~r~~~Pfp~~~l~~~l~~~k~VvVvE~~~~~Gg~G~l~~ev~~al~ 346 (407)
T PRK09622 271 AIVALGTTYESAIVAAKEMRK---EGIKAGVATIRVLRPFPYERLGQALKNLKALAILDRSSPAGAMGALFNEVTSAVY 346 (407)
T ss_pred EEEEEChhHHHHHHHHHHHHh---CCCCeEEEEeeEhhhCCHHHHHHHHhcCCEEEEEeCCCCCCCccHHHHHHHHHHh
Confidence 456678888888887777643 477777776665432 21 2355666666555544433234445555554
No 230
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=28.23 E-value=1.3e+02 Score=22.10 Aligned_cols=38 Identities=11% Similarity=-0.034 Sum_probs=25.9
Q ss_pred ccccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 2 EIVEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 2 ~~~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
+.+..|+|++-|.-+-+++...+..+.+.+.|.+.-+.
T Consensus 68 ~~~~grvpviaG~g~~~t~eai~lak~a~~~Gad~il~ 105 (299)
T COG0329 68 EAVGGRVPVIAGVGSNSTAEAIELAKHAEKLGADGILV 105 (299)
T ss_pred HHHCCCCcEEEecCCCcHHHHHHHHHHHHhcCCCEEEE
Confidence 45678899998887777777555445566677665444
No 231
>cd01748 GATase1_IGP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS). Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS). IGPS incorporates ammonia derived from glutamine into N1-[(5'-phosphoribulosyl)-formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to form 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR) and imidazole glycerol phosphate (IGP). The glutamine amidotransferase domain generates the ammonia nucleophile which is channeled from the glutaminase active site to the PRFAR active site. IGPS belong to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=28.20 E-value=1e+02 Score=20.69 Aligned_cols=36 Identities=6% Similarity=-0.067 Sum_probs=23.8
Q ss_pred CCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEE
Q psy8996 15 EVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILV 57 (95)
Q Consensus 15 ~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~ 57 (95)
..||...++++|++ .|.++.+... .+++.+++.+|+
T Consensus 7 g~~~~~~~~~~l~~---~g~~v~v~~~----~~~l~~~d~iii 42 (198)
T cd01748 7 GMGNLRSVANALER---LGAEVIITSD----PEEILSADKLIL 42 (198)
T ss_pred CCChHHHHHHHHHH---CCCeEEEEcC----hHHhccCCEEEE
Confidence 35778888777765 4777777763 235667776666
No 232
>PF06253 MTTB: Trimethylamine methyltransferase (MTTB); InterPro: IPR010426 This family consists of several trimethylamine methyltransferase (MTTB) proteins from numerous Rhizobium and Methanosarcina species.; GO: 0008168 methyltransferase activity, 0015948 methanogenesis; PDB: 2QNE_A.
Probab=27.98 E-value=23 Score=28.05 Aligned_cols=15 Identities=20% Similarity=0.133 Sum_probs=9.7
Q ss_pred ccccccccEEEeCCC
Q psy8996 2 EIVEKREPAFSISEV 16 (95)
Q Consensus 2 ~~~~~~~~~~ygS~t 16 (95)
|+|+++.|++||+.+
T Consensus 289 QLv~PG~Pvvyg~~~ 303 (505)
T PF06253_consen 289 QLVNPGAPVVYGSFS 303 (505)
T ss_dssp HHHSTT--EEEEE--
T ss_pred HhcCCCCCEEECCCC
Confidence 689999999998543
No 233
>cd03820 GT1_amsD_like This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be responsible for the formation of galactose alpha-1,6 linkages in amylovoran.
Probab=27.84 E-value=1.5e+02 Score=20.02 Aligned_cols=29 Identities=7% Similarity=0.030 Sum_probs=22.0
Q ss_pred CchHHHHHHHHHHHH-hCCCceEEeeCCCC
Q psy8996 16 VHYANNYTTESEVHY-ANNYTTEVLRMDEY 44 (95)
Q Consensus 16 tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~ 44 (95)
.|-++..+..+.+.+ +.|+++.+......
T Consensus 12 ~gG~~~~~~~l~~~L~~~g~~v~v~~~~~~ 41 (348)
T cd03820 12 AGGAERVLSNLANALAEKGHEVTIISLDKG 41 (348)
T ss_pred CCChHHHHHHHHHHHHhCCCeEEEEecCCC
Confidence 477788888887654 58999998877654
No 234
>COG3797 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.79 E-value=1.3e+02 Score=20.76 Aligned_cols=39 Identities=10% Similarity=0.144 Sum_probs=26.8
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHH--hCCCceEE--eeCCCC
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHY--ANNYTTEV--LRMDEY 44 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~--~~g~~~~v--~~l~~~ 44 (95)
+.++ .++|-|.-| ...+.++|+..+ +.|+++++ .+.+++
T Consensus 40 iaSG-Nlvf~s~~~-~~el~~klE~afe~~fg~~~dilVrs~~~~ 82 (178)
T COG3797 40 IASG-NLVFESEAG-AAELEAKLEAAFEKRFGRHVDILVRSAEDW 82 (178)
T ss_pred hhcC-CEEEEcCCC-hHHHHHHHHHHHHHHcCCCccEEEeeHHHH
Confidence 4455 788888888 888899998765 35776554 444443
No 235
>PF14025 DUF4241: Protein of unknown function (DUF4241)
Probab=27.73 E-value=1.1e+02 Score=21.01 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=15.0
Q ss_pred ccCeEEEEeccCCCCCCCC
Q psy8996 51 HEALILVVASTFGNGDPPE 69 (95)
Q Consensus 51 ~~~~vi~v~ST~G~Ge~Pd 69 (95)
....+++..|-||+|--|-
T Consensus 152 t~~~i~~f~SG~GDG~Yp~ 170 (185)
T PF14025_consen 152 TGANIPMFSSGWGDGFYPV 170 (185)
T ss_pred CCCcEEEEeccCCCCcceE
Confidence 3457888899999998773
No 236
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=27.53 E-value=1.7e+02 Score=19.56 Aligned_cols=52 Identities=10% Similarity=0.098 Sum_probs=31.9
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCC
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPP 68 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~P 68 (95)
|=--.+|++|.+.....-++.+++.....+ ..+.+++.+|||-..-..++|.
T Consensus 18 G~Gv~vae~L~~~~~~~~~v~vid~Gt~~~~l~~~l~~~d~vIIVDav~~g~epG 72 (160)
T COG0680 18 GFGVRVAEKLKKRYKPPENVEVIDGGTAGPNLLGLLAGYDPVIIVDAVLFGLEPG 72 (160)
T ss_pred cccHHHHHHHHHhcCCCCCeEEEEcCCCcHHHHHHhcCCCcEEEEEeeecCCCCc
Confidence 344567888876543222577887776543 2456778788876666545553
No 237
>COG2454 Uncharacterized conserved protein [Function unknown]
Probab=27.50 E-value=1.4e+02 Score=21.23 Aligned_cols=39 Identities=10% Similarity=-0.045 Sum_probs=27.4
Q ss_pred cccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEYD 45 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~ 45 (95)
.+-++|+.+.-++-.+|.++++.+ ..+.+..+......|
T Consensus 130 ~vi~L~d~~vs~SGel~~~i~~~mK~~~I~g~~~lvk~~D 169 (211)
T COG2454 130 SVIFLFDAPVSKSGELAGRIEEKMKSLGIPGEASLVKNAD 169 (211)
T ss_pred eEEEEeCCCCCccHHHHHHHHHHHHhcCCCceeEeccCcC
Confidence 345667777777778899998744 578776666666554
No 238
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=27.43 E-value=1.7e+02 Score=20.91 Aligned_cols=37 Identities=8% Similarity=0.041 Sum_probs=25.7
Q ss_pred cccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
.+..|+|++-|....+++...+..+.+.+.|.+.-+.
T Consensus 66 ~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~ 102 (292)
T PRK03170 66 AVNGRVPVIAGTGSNSTAEAIELTKFAEKAGADGALV 102 (292)
T ss_pred HhCCCCcEEeecCCchHHHHHHHHHHHHHcCCCEEEE
Confidence 3456789888887777777666666666778765444
No 239
>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=27.31 E-value=1.2e+02 Score=23.21 Aligned_cols=57 Identities=18% Similarity=0.120 Sum_probs=31.5
Q ss_pred cccEEEeCCC-------chHHHHHHHHHHHHh-CCCceEEeeCCCCC--ccc-------cc--ccCeEEEEeccCCCC
Q psy8996 7 REPAFSISEV-------HYANNYTTESEVHYA-NNYTTEVLRMDEYD--MSS-------IE--HEALILVVASTFGNG 65 (95)
Q Consensus 7 ~~~~~ygS~t-------G~ae~~A~~l~~~~~-~g~~~~v~~l~~~~--~~~-------l~--~~~~vi~v~ST~G~G 65 (95)
+++++-+|+. ..++..++++.+.++ .++ ++...+..+ .++ +. +-+.+|+...|||.+
T Consensus 2 ~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~vv~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~ 77 (452)
T cd00578 2 KIGFVTGSQHLYGEELLEQVEEYAREVADLLNELPV--EVVDKPEVTGTPDEARKAAEEFNEANCDGLIVWMHTFGPA 77 (452)
T ss_pred EEEEEEecccccChhHHHHHHHHHHHHHHHHhcCCc--eEEecCcccCCHHHHHHHHHHHhhcCCcEEEEcccccccH
Confidence 4566666665 245566666655444 344 444444332 222 22 346788888999754
No 240
>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=27.18 E-value=1.6e+02 Score=18.24 Aligned_cols=70 Identities=9% Similarity=-0.011 Sum_probs=41.4
Q ss_pred EEEeCCCchHHHHHHHHH-HHH-hCCCceEEeeCCCCCcccc-----cccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 10 AFSISEVHYANNYTTESE-VHY-ANNYTTEVLRMDEYDMSSI-----EHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~-~~~-~~g~~~~v~~l~~~~~~~l-----~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
++.++--|.--.+...+. ..+ .+||++.....+ .+++++ ....-+|++|++- +.....++.+.+.|++..
T Consensus 2 vv~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~-vp~e~~~~~a~~~~~d~V~iS~~~--~~~~~~~~~~~~~L~~~~ 78 (122)
T cd02071 2 ILVAKPGLDGHDRGAKVIARALRDAGFEVIYTGLR-QTPEEIVEAAIQEDVDVIGLSSLS--GGHMTLFPEVIELLRELG 78 (122)
T ss_pred EEEEecCCChhHHHHHHHHHHHHHCCCEEEECCCC-CCHHHHHHHHHHcCCCEEEEcccc--hhhHHHHHHHHHHHHhcC
Confidence 345566666667777764 444 488865444332 334443 1233466667764 456667888888887753
No 241
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=27.07 E-value=1.7e+02 Score=24.36 Aligned_cols=75 Identities=9% Similarity=0.032 Sum_probs=45.8
Q ss_pred ccccEEEeCCCchHHHHHHHHH-HHHh-CCCceEEeeCCCCCcccc-----cccCeEEEEeccCCCCCCCCcHHHHHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTESE-VHYA-NNYTTEVLRMDEYDMSSI-----EHEALILVVASTFGNGDPPENGQEFAQNL 78 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~-~~~~-~g~~~~v~~l~~~~~~~l-----~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L 78 (95)
++.-||-++..+..-..-..+. ..++ .||+|. ..-..-+++++ ...--+|++||+. +..++.+..+.+.|
T Consensus 581 ~rpkV~LatlG~d~H~~ra~fv~~~l~~~GfeV~-~~~~~~s~e~~v~aa~~~~a~ivvlcs~d--~~~~e~~~~l~~~L 657 (714)
T PRK09426 581 RRPRILVAKMGQDGHDRGAKVIATAFADLGFDVD-IGPLFQTPEEAARQAVENDVHVVGVSSLA--AGHKTLVPALIEAL 657 (714)
T ss_pred CCceEEEEecCCcchhHhHHHHHHHHHhCCeeEe-cCCCCCCHHHHHHHHHHcCCCEEEEeccc--hhhHHHHHHHHHHH
Confidence 4445777888887655555564 4554 888873 22112234433 2233467777776 44567788999999
Q ss_pred hhCCC
Q psy8996 79 HALRI 83 (95)
Q Consensus 79 ~~~~~ 83 (95)
+....
T Consensus 658 k~~G~ 662 (714)
T PRK09426 658 KKLGR 662 (714)
T ss_pred HhcCC
Confidence 87653
No 242
>PF08532 Glyco_hydro_42M: Beta-galactosidase trimerisation domain; InterPro: IPR013738 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is non catalytic domain B of beta-galactosidase enzymes belong to the glycosyl hydrolase 42 family. This domain is related to glutamine amidotransferase enzymes, but the catalytic residues are replaced by non functional amino acids. This domain is involved in trimerisation. ; GO: 0004565 beta-galactosidase activity, 0005975 carbohydrate metabolic process; PDB: 1KWK_A 1KWG_A.
Probab=27.00 E-value=1.6e+02 Score=20.01 Aligned_cols=27 Identities=11% Similarity=0.181 Sum_probs=14.6
Q ss_pred HHhCCCceEEeeCCCCCcccccccCeEEEEe
Q psy8996 29 HYANNYTTEVLRMDEYDMSSIEHEALILVVA 59 (95)
Q Consensus 29 ~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ 59 (95)
+.++|+++++++.++ +|.+++++|+-.
T Consensus 39 l~~~gi~vDvv~~~~----dL~~Ykllv~P~ 65 (207)
T PF08532_consen 39 LRELGIPVDVVSPDD----DLSGYKLLVLPS 65 (207)
T ss_dssp HHTTT--EEEE-TTS------TT-SEEEES-
T ss_pred HHHcCCceEEecCcC----CcccCcEEEEee
Confidence 346899999999875 577788666533
No 243
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=26.84 E-value=2e+02 Score=19.34 Aligned_cols=53 Identities=8% Similarity=-0.010 Sum_probs=26.8
Q ss_pred CchHHHHHHHHHHHHhCCCceEEeeCCCCCc----------ccccccCeEEEEeccCCCCCCCCcHHHHHHHHh
Q psy8996 16 VHYANNYTTESEVHYANNYTTEVLRMDEYDM----------SSIEHEALILVVASTFGNGDPPENGQEFAQNLH 79 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~----------~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~ 79 (95)
...++.+++.|. ++|+++...++=++.+ ..+..++.+||. | |...+.|++.+.
T Consensus 10 ~~~~~~l~~~l~---~~G~~v~~~p~~~~~~~~~~~~~~~~~~~~~~d~iift-S-------~~av~~~~~~~~ 72 (249)
T PRK05928 10 SPKAEELVELLR---ELGFVALHFPLIEIEPGRQLPQLAAQLAALGADWVIFT-S-------KNAVEFLLSALK 72 (249)
T ss_pred HHHHHHHHHHHH---HcCCCEEEeccEEEecCCCcChHHHHhhCCCCCEEEEE-C-------HHHHHHHHHHHH
Confidence 334444444443 4577665443332211 234456666654 4 344677777776
No 244
>PRK13181 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=26.76 E-value=1.2e+02 Score=20.45 Aligned_cols=35 Identities=9% Similarity=0.019 Sum_probs=23.5
Q ss_pred CchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEE
Q psy8996 16 VHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILV 57 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~ 57 (95)
+||-..++++|++ .|+.+.+. . +++++.+.+.+|+
T Consensus 9 ~gn~~~~~~~l~~---~g~~v~~~--~--~~~~l~~~d~lil 43 (199)
T PRK13181 9 AGNLRSVANALKR---LGVEAVVS--S--DPEEIAGADKVIL 43 (199)
T ss_pred CChHHHHHHHHHH---CCCcEEEE--c--ChHHhccCCEEEE
Confidence 5788888876654 47777665 2 3566777787664
No 245
>cd06066 H2MP_NAD-link-bidir Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit assembly. These bidirectional hydrogenases are heteropentamers encoded by the hox (hydrogen oxidation) genes, in which complex HoxEFU shows the diaphorase activity, and HoxYH constitutes the NiFe-hydrogenase.
Probab=26.34 E-value=1.8e+02 Score=18.53 Aligned_cols=46 Identities=11% Similarity=0.156 Sum_probs=29.0
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCC
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGN 64 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~ 64 (95)
|=.-.+|++|++.. .-.+.+++....-+ ..+.+++.+|||-+....
T Consensus 14 GvG~~v~~~L~~~~--~~~v~~id~g~~g~~l~~~l~~~d~vIivDA~~~~ 62 (139)
T cd06066 14 GLGPAVAERIEEWL--LPGVEVLAVHQLTPELAEDLAGADRVIFIDASLGG 62 (139)
T ss_pred chhHHHHHHHHhhC--CCCeEEEEcCCCCHHHHHHhcCCCEEEEEEccCCC
Confidence 33446777776543 23466777665433 346788999999887753
No 246
>PRK04539 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=26.34 E-value=1.4e+02 Score=21.93 Aligned_cols=39 Identities=5% Similarity=-0.118 Sum_probs=31.3
Q ss_pred CccccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEe
Q psy8996 1 MEIVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVL 39 (95)
Q Consensus 1 ~~~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~ 39 (95)
|+..-+++.+++=...-.+..++++|.+ +.++|+.+.+.
T Consensus 1 ~~~~~~~i~ii~~~~~~~~~~~~~~l~~~L~~~g~~v~~~ 40 (296)
T PRK04539 1 MNSPFHNIGIVTRPNTPDIQDTAHTLITFLKQHGFTVYLD 40 (296)
T ss_pred CCCCCCEEEEEecCCCHHHHHHHHHHHHHHHHCCCEEEEe
Confidence 5666678899988888889999999987 55789877664
No 247
>PRK10426 alpha-glucosidase; Provisional
Probab=26.32 E-value=2.4e+02 Score=23.13 Aligned_cols=69 Identities=4% Similarity=-0.079 Sum_probs=36.9
Q ss_pred EEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 11 FSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 11 ~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
.+|-+ ++++.+-+.+++..++++.++++-++++.-..-.....-++..-||..-..|+ .+.+.+.|++.
T Consensus 213 ~~g~~-~~~~~v~~v~~~~r~~~IP~d~i~lddw~~~~~~~~g~~~~~~~~~d~~~FPd-p~~mi~~L~~~ 281 (635)
T PRK10426 213 TLGIQ-GGTEVVQKKLDTMRNAGVKVNGIWAQDWSGIRMTSFGKRLMWNWKWDSERYPQ-LDSRIKQLNEE 281 (635)
T ss_pred ccccc-CCHHHHHHHHHHHHHcCCCeeEEEEecccccccccccccccccceEChhhCCC-HHHHHHHHHHC
Confidence 34545 34566666666777899999988776542111111111122223554444564 56677777654
No 248
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=26.18 E-value=2e+02 Score=20.77 Aligned_cols=37 Identities=5% Similarity=-0.104 Sum_probs=30.4
Q ss_pred cccEEEeCCCchHHHHHHHHHHH-HhCCCceEEeeCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVH-YANNYTTEVLRMDE 43 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~-~~~g~~~~v~~l~~ 43 (95)
++-.||.|.-+-|..+|-.|... .++|+.+..+++|.
T Consensus 146 GL~fFy~s~Cp~C~~~aPil~~fa~~yg~~v~~VS~DG 183 (248)
T PRK13703 146 GLMFFYRGQDPIDGQLAQVINDFRDTYGLSVIPVSVDG 183 (248)
T ss_pred eEEEEECCCCchhHHHHHHHHHHHHHhCCeEEEEecCC
Confidence 34567889999999999999874 46899998888875
No 249
>PF12525 DUF3726: Protein of unknown function (DUF3726) ; InterPro: IPR022201 This domain family is found in bacteria and eukaryotes, and is approximately 80 amino acids in length. There is a single completely conserved residue E that may be functionally important.
Probab=26.17 E-value=86 Score=18.70 Aligned_cols=21 Identities=5% Similarity=-0.198 Sum_probs=17.1
Q ss_pred CCchHHHHHHHHHHHHhCCCc
Q psy8996 15 EVHYANNYTTESEVHYANNYT 35 (95)
Q Consensus 15 ~tG~ae~~A~~l~~~~~~g~~ 35 (95)
.-|.||.+|+.++.+..+|++
T Consensus 21 ~~G~Ae~aa~~v~wL~~~Gl~ 41 (80)
T PF12525_consen 21 SWGEAEEAANMVAWLEMHGLD 41 (80)
T ss_pred CcchHHHHHHHHHHHHHcCCc
Confidence 458999999998888777765
No 250
>cd01742 GATase1_GMP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. Glutamine amidotransferase (GATase) activity catalyse the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. GMP synthetase catalyses the amination of the nucleotide precursor xanthosine 5'-monophospahte to form GMP. GMP synthetase belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=26.03 E-value=1.9e+02 Score=18.80 Aligned_cols=41 Identities=10% Similarity=0.122 Sum_probs=22.8
Q ss_pred CchHHHHHHHHHHHHhCCCceEEeeCCC-CCcccccccCeEEEEe
Q psy8996 16 VHYANNYTTESEVHYANNYTTEVLRMDE-YDMSSIEHEALILVVA 59 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~~~v~~l~~-~~~~~l~~~~~vi~v~ 59 (95)
.+++..+++.|++ .|..+.+...+. .+..++.+.+.+|+--
T Consensus 8 ~~~~~~~~~~l~~---~G~~~~~~~~~~~~~~~~~~~~dgvIl~G 49 (181)
T cd01742 8 SQYTHLIARRVRE---LGVYSEILPNTTPLEEIKLKNPKGIILSG 49 (181)
T ss_pred CchHHHHHHHHHh---cCceEEEecCCCChhhhcccCCCEEEECC
Confidence 3455555555544 477777777653 1112456677666644
No 251
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=25.87 E-value=1.7e+02 Score=21.11 Aligned_cols=36 Identities=8% Similarity=-0.058 Sum_probs=21.8
Q ss_pred cEEEeCCCchHHHHHHHHHHHH-h---CCCceEEeeCCCC
Q psy8996 9 PAFSISEVHYANNYTTESEVHY-A---NNYTTEVLRMDEY 44 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~-~---~g~~~~v~~l~~~ 44 (95)
-+|||.+..--+.++++|.+.+ . ..|+...++..+.
T Consensus 4 yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~ 43 (326)
T PRK07452 4 YLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA 43 (326)
T ss_pred EEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccc
Confidence 4678888887777777775432 1 2344555554444
No 252
>PRK02155 ppnK NAD(+)/NADH kinase family protein; Provisional
Probab=25.87 E-value=2.7e+02 Score=20.36 Aligned_cols=39 Identities=5% Similarity=-0.148 Sum_probs=27.8
Q ss_pred CccccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEe
Q psy8996 1 MEIVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVL 39 (95)
Q Consensus 1 ~~~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~ 39 (95)
|...-+++.+++=...-.+..++++|.+ +.++|+.+.+.
T Consensus 1 ~~~~~~~v~iv~~~~~~~~~e~~~~i~~~L~~~g~~v~v~ 40 (291)
T PRK02155 1 MKSQFKTVALIGRYQTPGIAEPLESLAAFLAKRGFEVVFE 40 (291)
T ss_pred CCCcCCEEEEEecCCCHHHHHHHHHHHHHHHHCCCEEEEe
Confidence 4455567888877777778888888877 44688775553
No 253
>PRK13608 diacylglycerol glucosyltransferase; Provisional
Probab=25.62 E-value=1.5e+02 Score=22.05 Aligned_cols=31 Identities=13% Similarity=-0.150 Sum_probs=22.8
Q ss_pred CccccccccEEEeCCCchHHHHHHHHHHHHh
Q psy8996 1 MEIVEKREPAFSISEVHYANNYTTESEVHYA 31 (95)
Q Consensus 1 ~~~~~~~~~~~ygS~tG~ae~~A~~l~~~~~ 31 (95)
|-.+.+|+-|+++|-.|-=...|+.|++.+.
T Consensus 1 ~~~~~~~vlil~~~~G~GH~~aA~al~~~~~ 31 (391)
T PRK13608 1 MVTQNKKILIITGSFGNGHMQVTQSIVNQLN 31 (391)
T ss_pred CCCCCceEEEEECCCCchHHHHHHHHHHHHH
Confidence 4456788999998876555777888987553
No 254
>PLN02234 1-deoxy-D-xylulose-5-phosphate synthase
Probab=25.60 E-value=1.6e+02 Score=24.36 Aligned_cols=34 Identities=9% Similarity=-0.199 Sum_probs=25.3
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM 46 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~ 46 (95)
+-||+....|...|+.|++ .|++++|+++..+.|
T Consensus 550 va~G~~v~~Al~AA~~L~~---~GI~v~VId~rsikP 583 (641)
T PLN02234 550 LGYGSAVQRCLEAASMLSE---RGLKITVADARFCKP 583 (641)
T ss_pred EEecHHHHHHHHHHHHHHh---cCCCEEEEecCCcCC
Confidence 4467888888888877743 589999999886544
No 255
>cd06070 H2MP_like-2 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE (the large subunit of hydrogenases 3). This cleavage is nickel dependent.
Probab=25.54 E-value=1.7e+02 Score=18.62 Aligned_cols=46 Identities=9% Similarity=0.106 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHhCCCceEEeeCCCCC---cccccccCeEEEEeccCCCCCCCC
Q psy8996 18 YANNYTTESEVHYANNYTTEVLRMDEYD---MSSIEHEALILVVASTFGNGDPPE 69 (95)
Q Consensus 18 ~ae~~A~~l~~~~~~g~~~~v~~l~~~~---~~~l~~~~~vi~v~ST~G~Ge~Pd 69 (95)
=.-.+|++|++ . .+++++....- ...+.+++.+|||-+... |.+|.
T Consensus 15 ~G~~v~~~L~~---~--~v~vi~~g~~~~~ll~~i~~~d~viiVDA~~~-~~~pG 63 (140)
T cd06070 15 FGSCLAEALEQ---C--GAPVFDGGLDGFGLLSHLENYDIVIFIDVAVI-DEDVG 63 (140)
T ss_pred HHHHHHHHHhh---C--CCEEEECCCcHHHHHHHHcCCCEEEEEEeecC-CCCCe
Confidence 34456777755 2 46677665422 234568889999988875 45554
No 256
>PF07845 DUF1636: Protein of unknown function (DUF1636); InterPro: IPR012863 The sequences featured in this family are derived from a number of hypothetical prokaryotic proteins. The region in question is approximately 130 amino acids long.
Probab=25.39 E-value=88 Score=19.94 Aligned_cols=26 Identities=31% Similarity=0.446 Sum_probs=20.3
Q ss_pred EEEeccCCCC-----CCCCcHHHHHHHHhhC
Q psy8996 56 LVVASTFGNG-----DPPENGQEFAQNLHAL 81 (95)
Q Consensus 56 i~v~ST~G~G-----e~Pdn~~~F~~~L~~~ 81 (95)
||||+|.-.+ +-|..+..+++.|+..
T Consensus 1 l~VC~tCr~~~~~~~~~~~~G~~L~~aL~~~ 31 (116)
T PF07845_consen 1 LFVCTTCRRSGEDPEDGPRPGAALLDALRAA 31 (116)
T ss_pred CEEeCCCCCCCCCCCCCCChHHHHHHHHHHH
Confidence 5788887554 5677899999999865
No 257
>PRK03363 fixB putative electron transfer flavoprotein FixB; Provisional
Probab=25.35 E-value=1.4e+02 Score=22.34 Aligned_cols=33 Identities=0% Similarity=-0.003 Sum_probs=24.6
Q ss_pred EEEeCCCchHHHHHHHHHHHHhCCCceEEeeCC
Q psy8996 10 AFSISEVHYANNYTTESEVHYANNYTTEVLRMD 42 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~ 42 (95)
++....|-...++|-+++..+..|+-+++.+++
T Consensus 83 ~vl~~~T~~Gr~laprlAa~l~~gl~~D~~~l~ 115 (313)
T PRK03363 83 LVLLPNTRRGKLLAAKLGYRLKAAVSNDASTVS 115 (313)
T ss_pred EEEEcCCccHHHHHHHHHHHhCCCcccceEEEE
Confidence 444444557779999999888888877777774
No 258
>COG3603 Uncharacterized conserved protein [Function unknown]
Probab=25.22 E-value=43 Score=21.84 Aligned_cols=18 Identities=17% Similarity=0.385 Sum_probs=14.0
Q ss_pred ccccCeEEEEeccCCCCCC
Q psy8996 49 IEHEALILVVASTFGNGDP 67 (95)
Q Consensus 49 l~~~~~vi~v~ST~G~Ge~ 67 (95)
|.+..+=||+.||| ++|-
T Consensus 87 Lsd~gigIFavSty-dtDh 104 (128)
T COG3603 87 LSDNGIGIFAVSTY-DTDH 104 (128)
T ss_pred HhhCCccEEEEEec-cCce
Confidence 55777889999999 5653
No 259
>cd08513 PBP2_thermophilic_Hb8_like The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold. This family includes the substrate-binding domain of an ABC-type oligopeptide-binding protein Hb8 from Thermus thermophilius and its closest homologs from other bacteria. The structural topology of this substrate-binding domain is similar to those of DppA from Escherichia coli and OppA from Salmonella typhimurium, and thus belongs to the type 2 periplasmic binding fold protein (PBP2) superfamily. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. The type 2 periplasmic binding proteins are soluble ligand-binding components of ABC or tripartite ATP-independent transporter
Probab=25.06 E-value=2.2e+02 Score=21.51 Aligned_cols=32 Identities=6% Similarity=-0.088 Sum_probs=22.4
Q ss_pred EeCCCchHHHHHHHHHH-HHhCCCceEEeeCCC
Q psy8996 12 SISEVHYANNYTTESEV-HYANNYTTEVLRMDE 43 (95)
Q Consensus 12 ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~ 43 (95)
+.+.....+.+|+.|++ +.+.|+++++..++.
T Consensus 343 ~~~~~~~~~~~a~~i~~~l~~iGi~v~~~~~~~ 375 (482)
T cd08513 343 TTSGNAVRERVAELIQQQLAKIGIDVEIENVPA 375 (482)
T ss_pred eCCCChHHHHHHHHHHHHHHHcCCEEEEeeCCH
Confidence 33433566788998876 445799998887754
No 260
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=25.00 E-value=1.3e+02 Score=22.05 Aligned_cols=38 Identities=16% Similarity=0.142 Sum_probs=26.4
Q ss_pred ccccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 2 EIVEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 2 ~~~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
+.+..|+|++.|.-+-+++...+..+.+.+.|.+.-++
T Consensus 72 ~~~~grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv 109 (309)
T cd00952 72 ETVAGRVPVFVGATTLNTRDTIARTRALLDLGADGTML 109 (309)
T ss_pred HHhCCCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEE
Confidence 34567889999988777777666666666777764433
No 261
>cd06067 H2MP_MemB-H2evol Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation of the [NiFe] metallocenter. HycI protease is a monomer and lacks characteristic signature motifs of serine, zinc, cysteine, or acid proteases and thus its cleavage reaction is not inhibited by conventional inhibitors of serine and metalloproteases. Such hydrogenases as those from Methanosarcina barkeri (EchCE) and Rhodospirillum rubrum (CooLH) also belong to this group of membrane-bound hydrogen evolving hydrogenase. Sequence comparison of the large subunits from related hydrogenase indicates that in contrast to EchE (358 amino acids) and CooH (361 amino acids), the large subunit HycE (569 amino acids) contains an extra carboxy-terminal stretch of 32 amino acids that is cleaved during the maturation process. In
Probab=24.99 E-value=1.7e+02 Score=18.61 Aligned_cols=52 Identities=17% Similarity=0.031 Sum_probs=30.9
Q ss_pred hHHHHHHHHHHHHhCCCceEEeeCCCCCc---cccc--ccCeEEEEeccCCCCCCCCcHH
Q psy8996 18 YANNYTTESEVHYANNYTTEVLRMDEYDM---SSIE--HEALILVVASTFGNGDPPENGQ 72 (95)
Q Consensus 18 ~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~--~~~~vi~v~ST~G~Ge~Pdn~~ 72 (95)
=.-.+|++|++.. .-.+++++...... ..+. +++.+|||-+... |.+|-...
T Consensus 15 vG~~v~~~L~~~~--~~~v~vid~gt~~~~~~~~l~~~~~d~vIiVDAv~~-g~~PG~v~ 71 (136)
T cd06067 15 AGPLLAEKLEDLP--NPNWLVIDGGTVPENFTGKIREEKPDLIVIVDAADM-GLEPGEIR 71 (136)
T ss_pred HHHHHHHHHHhcC--CCCEEEEECCCCHHHHHHHHHhcCCCEEEEEECCcc-CcCCCEEE
Confidence 3446777776532 22467777665321 2232 5789999988875 56665443
No 262
>CHL00082 psbZ photosystem II protein Z
Probab=24.98 E-value=45 Score=19.10 Aligned_cols=14 Identities=14% Similarity=0.116 Sum_probs=10.5
Q ss_pred cccEEEeCCCchHH
Q psy8996 7 REPAFSISEVHYAN 20 (95)
Q Consensus 7 ~~~~~ygS~tG~ae 20 (95)
++|+.|+|..|-.+
T Consensus 22 gVPV~~Asp~~W~~ 35 (62)
T CHL00082 22 GVPVVFASPDGWSS 35 (62)
T ss_pred eeeeEEECCCcchh
Confidence 57888988877653
No 263
>PRK05788 cobalamin biosynthesis protein CbiG; Validated
Probab=24.97 E-value=28 Score=25.88 Aligned_cols=54 Identities=11% Similarity=0.134 Sum_probs=29.3
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHh-CCCceEEe---eCCCCCcccccccCeEEEEeccC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYA-NNYTTEVL---RMDEYDMSSIEHEALILVVASTF 62 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~-~g~~~~v~---~l~~~~~~~l~~~~~vi~v~ST~ 62 (95)
++-++.-|. +...+|++|++.+. ..|..+.. ++.+.-.+.+.+++.+|||.++=
T Consensus 5 ~iaii~~t~--~G~~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~f~~~d~iIfI~A~G 62 (315)
T PRK05788 5 KIAIICATE--RGRDLAERLKAKLKADCYTSEKLEYEGFADAFEEAFGCYDALIFIMATG 62 (315)
T ss_pred eEEEEEECc--cHHHHHHHHHHhcccceecchhhccCCHHHHHHHHHhcCCeEEEEEChH
Confidence 445555544 44788999987553 22222111 11111123456889999998873
No 264
>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=24.88 E-value=1.7e+02 Score=20.72 Aligned_cols=36 Identities=8% Similarity=-0.010 Sum_probs=24.0
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
+..++|++.|.-+.+++...+..+.+.+.|.+.-++
T Consensus 63 ~~~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v 98 (281)
T cd00408 63 VAGRVPVIAGVGANSTREAIELARHAEEAGADGVLV 98 (281)
T ss_pred hCCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEE
Confidence 445788888887777776655555566677664444
No 265
>cd00126 PAH Pancreatic Hormone domain, a regulator of pancreatic and gastrointestinal functions; neuropeptide Y (NPY)b, peptide YY (PYY), and pancreatic polypetide (PP) are closely related; propeptide is enzymatically cleaved to yield the mature active peptide with amidated C-terminal ends; receptor binding and activation functions may reside in the N- and C-termini respectively; occurs in neurons, intestinal endocrine cells, and pancreas; exist as monomers and dimers
Probab=24.81 E-value=49 Score=16.88 Aligned_cols=18 Identities=22% Similarity=0.518 Sum_probs=14.4
Q ss_pred CCCCCCCcHHHHHHHHhh
Q psy8996 63 GNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 63 G~Ge~Pdn~~~F~~~L~~ 80 (95)
|+..+|+....++..|+.
T Consensus 9 g~~a~~eel~~Y~~~L~~ 26 (36)
T cd00126 9 GDDASPEELRQYLAALRE 26 (36)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 677888888888888764
No 266
>PRK13527 glutamine amidotransferase subunit PdxT; Provisional
Probab=24.57 E-value=1.7e+02 Score=19.74 Aligned_cols=41 Identities=5% Similarity=0.017 Sum_probs=26.6
Q ss_pred chHHHHHHHHHHHH-hCCCceEEeeCCCCCcccccccCeEEEEe
Q psy8996 17 HYANNYTTESEVHY-ANNYTTEVLRMDEYDMSSIEHEALILVVA 59 (95)
Q Consensus 17 G~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ 59 (95)
|+-...+..+.+++ ..|+++++....+ ++++.+++.+|+.-
T Consensus 10 ~~~~e~~~~~~~~l~~~g~~~~~~~~~~--~~~l~~~d~iii~G 51 (200)
T PRK13527 10 GDVEEHIDALKRALDELGIDGEVVEVRR--PGDLPDCDALIIPG 51 (200)
T ss_pred CccHHHHHHHHHHHHhcCCCeEEEEeCC--hHHhccCCEEEECC
Confidence 45555566666543 4788888777764 56677788766643
No 267
>KOG3045|consensus
Probab=24.55 E-value=1.3e+02 Score=22.63 Aligned_cols=45 Identities=13% Similarity=0.149 Sum_probs=29.5
Q ss_pred ceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCCC
Q psy8996 35 TTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIGE 85 (95)
Q Consensus 35 ~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~~ 85 (95)
+|.+++|.+...++ ..-+++||+.|=.| .|+.+|.....+.-.+.
T Consensus 213 ~V~~cDm~~vPl~d-~svDvaV~CLSLMg-----tn~~df~kEa~RiLk~g 257 (325)
T KOG3045|consen 213 RVIACDMRNVPLED-ESVDVAVFCLSLMG-----TNLADFIKEANRILKPG 257 (325)
T ss_pred ceeeccccCCcCcc-CcccEEEeeHhhhc-----ccHHHHHHHHHHHhccC
Confidence 35555666544333 35678999999887 68888888776654443
No 268
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=24.43 E-value=2.2e+02 Score=20.58 Aligned_cols=67 Identities=7% Similarity=0.052 Sum_probs=36.1
Q ss_pred cEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCC---CCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhC
Q psy8996 9 PAFSISEVHYANNYTTESEV-HYANNYTTEVLRMD---EYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~---~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~ 81 (95)
-.||| .|++..+|+.++. +...|..+.+..-. ......+.+.+ ++|+.|..|+- .+..+..+.+++.
T Consensus 50 I~i~G--~G~S~~~a~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~d-~~I~iS~sG~t---~~~~~~~~~ak~~ 120 (326)
T PRK10892 50 VVVMG--MGKSGHIGRKMAATFASTGTPSFFVHPGEAAHGDLGMVTPQD-VVIAISNSGES---SEILALIPVLKRL 120 (326)
T ss_pred EEEEe--CcHhHHHHHHHHHHHhcCCceeEEeChHHhhccccccCCCCC-EEEEEeCCCCC---HHHHHHHHHHHHC
Confidence 45555 4688888888875 44578776654211 11223344445 55666666542 3344444555544
No 269
>TIGR02691 arsC_pI258_fam arsenate reductase (thioredoxin). This family describes the well-studied thioredoxin-dependent arsenate reductase of Staphylococcus aureaus plasmid pI258 and other mechanistically similar arsenate reductases. The mechanism involves an intramolecular disulfide bond cascade, and aligned members of this family have four absolutely conserved Cys residues. This group of arsenate reductases belongs to the low-molecular weight protein-tyrosine phosphatase family (pfam01451), as does a group of glutathione/glutaredoxin type arsenate reductases (TIGR02689). At least two other, non-homologous groups of arsenate reductases involved in arsenical resistance are also known. This enzyme reduces arsenate to arsenite, which may be more toxic but which is more easily exported.
Probab=24.37 E-value=1.2e+02 Score=19.22 Aligned_cols=35 Identities=9% Similarity=0.078 Sum_probs=21.0
Q ss_pred HHhCCCceEEeeCCCCCcccccccCeEEEEeccCC
Q psy8996 29 HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFG 63 (95)
Q Consensus 29 ~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G 63 (95)
+.++|++..-+.-..++..++...+++|.+|+...
T Consensus 47 l~e~Gid~~~~~~~~l~~~~~~~~D~vitm~~~~~ 81 (129)
T TIGR02691 47 MKEVGIDISNQTSDLIDLDILNKADLVVTLCGDAR 81 (129)
T ss_pred HHHcCCCcCCcccccCChhhcccCCEEEEeCchhc
Confidence 33577765333333444456677889988886553
No 270
>smart00309 PAH Pancreatic hormones / neuropeptide F / peptide YY family. Pancreatic hormone is a regulator of pancreatic and gastrointestinal functions.
Probab=24.37 E-value=50 Score=16.84 Aligned_cols=18 Identities=22% Similarity=0.542 Sum_probs=14.4
Q ss_pred CCCCCCCcHHHHHHHHhh
Q psy8996 63 GNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 63 G~Ge~Pdn~~~F~~~L~~ 80 (95)
|+..+|+....++..|+.
T Consensus 9 g~~a~~e~l~~Y~~~L~~ 26 (36)
T smart00309 9 GDDASPEDLRQYLAALRE 26 (36)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 677888888888888764
No 271
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=24.16 E-value=1.8e+02 Score=17.72 Aligned_cols=28 Identities=14% Similarity=0.095 Sum_probs=18.1
Q ss_pred hCCCceEEeeCCCCCcccccccCeEEEEeccC
Q psy8996 31 ANNYTTEVLRMDEYDMSSIEHEALILVVASTF 62 (95)
Q Consensus 31 ~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~ 62 (95)
+++.++.++++.+.. . -.+.+|++|.+.
T Consensus 12 kka~dI~vldv~~~~--~--~~dy~VI~Tg~S 39 (99)
T TIGR00090 12 KKAEDIVVLDVRGKS--S--IADYFVIASGTS 39 (99)
T ss_pred cCCCCEEEEECCCCC--c--ccCEEEEEEeCC
Confidence 367789999998743 2 245666666443
No 272
>TIGR00130 frhD coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit). FrhD is not part of the active FRH heterotrimer, but is probably a protease required for maturation. Alternative name: 8-hydroxy-5-deazaflavin (F420) reducing hydrogenase (FRH) subunit delta.
Probab=23.92 E-value=2.1e+02 Score=18.54 Aligned_cols=55 Identities=9% Similarity=-0.064 Sum_probs=31.6
Q ss_pred chHHHHHHHHHHH-HhCCCceEEeeCCCCCccc------ccccCeEEEEeccCCCCCCCCcHH
Q psy8996 17 HYANNYTTESEVH-YANNYTTEVLRMDEYDMSS------IEHEALILVVASTFGNGDPPENGQ 72 (95)
Q Consensus 17 G~ae~~A~~l~~~-~~~g~~~~v~~l~~~~~~~------l~~~~~vi~v~ST~G~Ge~Pdn~~ 72 (95)
|=.-.+|++|++. ....-++++++.....++. +.+++.+|||-+..- |.+|-+..
T Consensus 19 GvG~~v~~~L~~~~~~~~~~v~vid~gt~~~~~l~~~~~~~~~d~vIivDA~~~-~~~PG~v~ 80 (153)
T TIGR00130 19 GFGPAVIEYLKENGVEKPDNVCLIDAGTGAPHFVFTLIPQSKWKKIIVVDIADF-GAEPGTLR 80 (153)
T ss_pred cHhHHHHHHHHHhCCCCCCCeEEEECCCcHHHHHHHHhhhcCCCEEEEEEccCC-CcCCCEEE
Confidence 4455677888642 1222236777655432221 367889999998764 45665543
No 273
>PTZ00150 phosphoglucomutase-2-like protein; Provisional
Probab=23.86 E-value=1.1e+02 Score=24.51 Aligned_cols=54 Identities=2% Similarity=-0.062 Sum_probs=33.1
Q ss_pred cEEEeCCC-chHHHHHHHHHH-HHhCCCceEEee-CCCCCcccc----cccCeEEEEeccC
Q psy8996 9 PAFSISEV-HYANNYTTESEV-HYANNYTTEVLR-MDEYDMSSI----EHEALILVVASTF 62 (95)
Q Consensus 9 ~~~ygS~t-G~ae~~A~~l~~-~~~~g~~~~v~~-l~~~~~~~l----~~~~~vi~v~ST~ 62 (95)
+|+-|..+ -+++.+|+.++. +...|++|.... +--.+.-.+ .+...=|.||++|
T Consensus 91 ~VvVg~D~R~~S~~fa~~~a~~L~a~Gi~V~~~g~~~pTP~lsfav~~~~a~gGImITASH 151 (584)
T PTZ00150 91 GVVIGYDGRYHSRRFAEITASVFLSKGFKVYLFGQTVPTPFVPYAVRKLKCLAGVMVTASH 151 (584)
T ss_pred cEEEEeCCCCCcHHHHHHHHHHHHHCCCEEEEeCCCCCcHHHHHHHHHhCCCeEEEEeccC
Confidence 57777766 778999999987 556887665553 221111111 1344567788887
No 274
>TIGR00204 dxs 1-deoxy-D-xylulose-5-phosphate synthase. DXP synthase is a thiamine diphosphate-dependent enzyme related to transketolase and the pyruvate dehydrogenase E1-beta subunit. By an acyloin condensation of pyruvate with glyceraldehyde 3-phosphate, it produces 1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine diphosphate (TPP), pyridoxal phosphate, and the isoprenoid building block isopentenyl diphosphate (IPP).
Probab=23.83 E-value=2.1e+02 Score=23.23 Aligned_cols=51 Identities=10% Similarity=-0.078 Sum_probs=32.1
Q ss_pred EeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccc-------ccccCeEEEEeccCCCC
Q psy8996 12 SISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSS-------IEHEALILVVASTFGNG 65 (95)
Q Consensus 12 ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~-------l~~~~~vi~v~ST~G~G 65 (95)
||+....|...|+.|++ .|++++|+++..+.|-+ +.+...+|++---+-.|
T Consensus 503 ~G~~v~~al~Aa~~L~~---~gi~~~VId~~~lkPlD~e~i~~~~~k~~~vvtvEE~~~~G 560 (617)
T TIGR00204 503 FGTLVPEALEVAESLNE---KGIEATVVDARFVKPLDEELILEIAASHEKLVTVEENAIMG 560 (617)
T ss_pred cCHHHHHHHHHHHHHHh---cCCCEEEEecCcCCcCCHHHHHHHHhhcCeEEEEECCCCcc
Confidence 56677677777766643 58999999988765433 23455666665444333
No 275
>TIGR02369 trimeth_pyl trimethylamine:corrinoid methyltransferase. This model represents a distinct subfamily of pfam06253. All members here are trimethylamine:corrinoid methyltransferases that contain a critical pyrrolysine residue incorporated during translation via a special tRNA for a TAG (amber) codon. Known members so far are from the genus Methanosarcina. It is one of a suite of three non-homologous enzymes with a critical UAG-encoded pyrrolysine residue in these species (along with dimethylamine methyltransferase and monomethylamine methyltransferase). It demethylates trimethylamine, leaving dimethylamine, and methylates the prosthetic group of its small cognate corrinoid protein, MttC. The methyl group is then transferred by methylcorrinoid:coenzyme M methyltransferase to coenzyme M. Note that the pyrrolysine residue is variously translated as K or X, or as a stop codon that truncates the sequence.
Probab=23.61 E-value=44 Score=26.57 Aligned_cols=14 Identities=7% Similarity=0.005 Sum_probs=11.9
Q ss_pred ccccccccEEEeCC
Q psy8996 2 EIVEKREPAFSISE 15 (95)
Q Consensus 2 ~~~~~~~~~~ygS~ 15 (95)
|+++++.|++||+-
T Consensus 277 Qli~PGaPviyG~~ 290 (489)
T TIGR02369 277 QLTVPGAKVWYGSS 290 (489)
T ss_pred HhcCCCCcEEeCCC
Confidence 68999999999843
No 276
>COG2412 Uncharacterized conserved protein [Function unknown]
Probab=23.42 E-value=72 Score=20.04 Aligned_cols=22 Identities=14% Similarity=-0.004 Sum_probs=18.6
Q ss_pred cEEEeCCCchHHHHHHHHHHHH
Q psy8996 9 PAFSISEVHYANNYTTESEVHY 30 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~~~ 30 (95)
+-|||...++.+++...|+++.
T Consensus 40 esFYgge~v~~d~~~~~l~~At 61 (101)
T COG2412 40 ESFYGGELVEEDEAIKALEEAT 61 (101)
T ss_pred ccccCCcccCHHHHHHHHHHhH
Confidence 4599999999999999997643
No 277
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=23.40 E-value=79 Score=24.75 Aligned_cols=26 Identities=27% Similarity=0.354 Sum_probs=20.6
Q ss_pred EEEEeccCCCCCCCCcH-----HHHHHHHhh
Q psy8996 55 ILVVASTFGNGDPPENG-----QEFAQNLHA 80 (95)
Q Consensus 55 vi~v~ST~G~Ge~Pdn~-----~~F~~~L~~ 80 (95)
-++-+||||.|.-|+.| ..||+.|..
T Consensus 352 r~vts~t~g~~~~~~~Ws~~e~ekFYKALs~ 382 (507)
T COG5118 352 RIVTSSTFGKKKGALRWSKKEIEKFYKALSI 382 (507)
T ss_pred heeecccccCCCCCCcccHHHHHHHHHHHHH
Confidence 45667999999998865 589998864
No 278
>PF14824 Sirohm_synth_M: Sirohaem biosynthesis protein central; PDB: 1KYQ_B.
Probab=23.02 E-value=76 Score=15.50 Aligned_cols=18 Identities=11% Similarity=-0.055 Sum_probs=13.8
Q ss_pred EeCCCchHHHHHHHHHHH
Q psy8996 12 SISEVHYANNYTTESEVH 29 (95)
Q Consensus 12 ygS~tG~ae~~A~~l~~~ 29 (95)
--|..|.+=.+|.+|++.
T Consensus 8 ~ISTnG~sP~la~~iR~~ 25 (30)
T PF14824_consen 8 AISTNGKSPRLARLIRKE 25 (30)
T ss_dssp EEEESSS-HHHHHHHHHH
T ss_pred EEECCCCChHHHHHHHHH
Confidence 348889999999999763
No 279
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=22.94 E-value=3.2e+02 Score=21.62 Aligned_cols=24 Identities=8% Similarity=-0.227 Sum_probs=18.2
Q ss_pred ccccEEEeCCCchHHHHHHHHHHH
Q psy8996 6 KREPAFSISEVHYANNYTTESEVH 29 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~ 29 (95)
.|++||-++.+|.|--+.+.+...
T Consensus 144 QR~gIfa~~G~GKt~Ll~~~~~~~ 167 (461)
T PRK12597 144 GKTGLFGGAGVGKTVLMMELIFNI 167 (461)
T ss_pred CEEEeecCCCCChhHHHHHHHHHH
Confidence 367899999999987776555443
No 280
>cd03795 GT1_like_4 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP-linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=22.88 E-value=1.3e+02 Score=21.04 Aligned_cols=34 Identities=12% Similarity=-0.012 Sum_probs=25.0
Q ss_pred EEeCCCchHHHHHHHHHHHH-hCCCceEEeeCCCC
Q psy8996 11 FSISEVHYANNYTTESEVHY-ANNYTTEVLRMDEY 44 (95)
Q Consensus 11 ~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~ 44 (95)
+|....|-++.++..|.+.+ ++|+++.+......
T Consensus 8 ~~~p~~gG~~~~~~~l~~~L~~~g~~v~v~~~~~~ 42 (357)
T cd03795 8 FYPPDRGGIEQVIRDLAEGLAARGIEVAVLCASPE 42 (357)
T ss_pred CCCCCCCcHHHHHHHHHHHHHhCCCceEEEecCCC
Confidence 45555777888888887654 57999999987653
No 281
>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family. This model represents an uncharacterized domain of about 300 amino acids with homology to S-adenosylmethionine-dependent methyltransferases. Proteins with this domain are exclusively fungal. A few, such as EasF from Neotyphodium lolii, are associated with the biosynthesis of ergot alkaloids, a class of fungal secondary metabolites. EasF may, in fact, be the AdoMet:dimethylallyltryptophan N-methyltransferase, the enzyme that follows tryptophan dimethylallyltransferase (DMATS) in ergot alkaloid biosynthesis. Several other members of this family, including mug158 (meiotically up-regulated gene 158 protein) from Schizosaccharomyces pombe, contain an additional uncharacterized domain DUF323 (pfam03781).
Probab=22.87 E-value=99 Score=23.06 Aligned_cols=34 Identities=24% Similarity=0.236 Sum_probs=25.6
Q ss_pred cCeEEEEeccCCCCCCCCcHHHHHHHHhh-CCCCCc
Q psy8996 52 EALILVVASTFGNGDPPENGQEFAQNLHA-LRIGED 86 (95)
Q Consensus 52 ~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~-~~~~~~ 86 (95)
.++++|.-||-|+ -.|+.+..|++.+.+ .-.|++
T Consensus 157 ~r~~~flGSsiGN-f~~~ea~~fL~~~~~~~l~~~d 191 (319)
T TIGR03439 157 PTTILWLGSSIGN-FSRPEAAAFLAGFLATALSPSD 191 (319)
T ss_pred ccEEEEeCccccC-CCHHHHHHHHHHHHHhhCCCCC
Confidence 4688888899998 457889999998876 333444
No 282
>PRK07666 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=22.72 E-value=2.3e+02 Score=18.94 Aligned_cols=27 Identities=0% Similarity=-0.049 Sum_probs=17.5
Q ss_pred CccccccccEEEeCCCchHHHHHHHHH
Q psy8996 1 MEIVEKREPAFSISEVHYANNYTTESE 27 (95)
Q Consensus 1 ~~~~~~~~~~~ygS~tG~ae~~A~~l~ 27 (95)
|+..+.+.-++-|...|-...+|++|.
T Consensus 2 ~~~~~~~~vlVtG~sg~iG~~l~~~L~ 28 (239)
T PRK07666 2 AQSLQGKNALITGAGRGIGRAVAIALA 28 (239)
T ss_pred CccCCCCEEEEEcCCchHHHHHHHHHH
Confidence 444555556777777777777777663
No 283
>PF11772 EpuA: DNA-directed RNA polymerase subunit beta; InterPro: IPR024596 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This entry represents the short 60-residue long bacterial family that is the beta subunit of the DNA-directed RNA polymerase, likely to be 2.7.7.6 from EC It is membrane-bound and is referred to by the name EpuA.
Probab=22.67 E-value=46 Score=17.92 Aligned_cols=22 Identities=23% Similarity=0.466 Sum_probs=12.7
Q ss_pred EeccCCCCCC-----CCcHHHHHHHHh
Q psy8996 58 VASTFGNGDP-----PENGQEFAQNLH 79 (95)
Q Consensus 58 v~ST~G~Ge~-----Pdn~~~F~~~L~ 79 (95)
.-|--|+|+| |+.|+.+++.+.
T Consensus 19 GY~viG~G~p~~vf~~~tW~hi~d~~~ 45 (47)
T PF11772_consen 19 GYGVIGDGNPFDVFSPDTWQHIIDFFT 45 (47)
T ss_pred eeeeeCCCCHHHhCCHHHHHHHHHHHc
Confidence 3344577755 566666665543
No 284
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=22.53 E-value=83 Score=21.12 Aligned_cols=36 Identities=11% Similarity=0.054 Sum_probs=11.7
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeC
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVLRM 41 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l 41 (95)
+|..+++=+.-.+.+.+.+.+..+.+.||.+.+.-+
T Consensus 92 ~~~nii~E~tl~~~~~~~~~~~~~k~~GY~v~l~~v 127 (199)
T PF06414_consen 92 NRYNIIFEGTLSNPSKLRKLIREAKAAGYKVELYYV 127 (199)
T ss_dssp CT--EEEE--TTSSHHHHHHHHHHHCTT-EEEEEEE
T ss_pred cCCCEEEecCCCChhHHHHHHHHHHcCCceEEEEEE
Confidence 333444433333333333322333334444444433
No 285
>PRK12571 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=22.52 E-value=1.1e+02 Score=24.89 Aligned_cols=33 Identities=12% Similarity=-0.080 Sum_probs=23.0
Q ss_pred EEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc
Q psy8996 11 FSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM 46 (95)
Q Consensus 11 ~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~ 46 (95)
-||+....|...|+.|+ +.|++++|+++..+.|
T Consensus 511 a~G~~v~~aleAa~~L~---~~Gi~v~VId~~~lkP 543 (641)
T PRK12571 511 SVGAHLHECLDAADLLE---AEGISVTVADPRFVKP 543 (641)
T ss_pred EecHHHHHHHHHHHHHH---hcCCCEEEEEcCcCCC
Confidence 35677777777666663 3589999999976444
No 286
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=22.52 E-value=87 Score=24.66 Aligned_cols=33 Identities=15% Similarity=-0.008 Sum_probs=21.1
Q ss_pred ccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCCCcccc
Q psy8996 49 IEHEALILVVASTFGNGDPPENGQEFAQNLHALRIGEDANN 89 (95)
Q Consensus 49 l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~~~~l~ 89 (95)
+.+++ +|+.+|-.| -+-|+++|.+....-..|.
T Consensus 298 l~~yd-wlvFTS~ng-------V~~Ff~~l~~~~~D~R~l~ 330 (474)
T PRK07168 298 IFNVN-RLVFCSAES-------VEILMQSCSKYKKDIRSLQ 330 (474)
T ss_pred hccCC-EEEEcCHHH-------HHHHHHHHHHcCCChHHhC
Confidence 55666 455566543 6789999987665544453
No 287
>PRK01175 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=22.36 E-value=3.1e+02 Score=19.79 Aligned_cols=51 Identities=6% Similarity=0.141 Sum_probs=27.9
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCC--cccccccCeEEEEec
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYD--MSSIEHEALILVVAS 60 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~--~~~l~~~~~vi~v~S 60 (95)
++.|+-.--+..-.++++. +.+.|+.+.++.+.+.. ...+.+++.+||.-.
T Consensus 5 kvaVl~~pG~n~d~e~~~A---l~~aG~~v~~v~~~~~~~~~~~l~~~DgLvipGG 57 (261)
T PRK01175 5 RVAVLRMEGTNCEDETVKA---FRRLGVEPEYVHINDLAAERKSVSDYDCLVIPGG 57 (261)
T ss_pred EEEEEeCCCCCCHHHHHHH---HHHCCCcEEEEeeccccccccchhhCCEEEECCC
Confidence 4555554333333333322 22468888887765421 234677888777665
No 288
>PRK12315 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=22.26 E-value=1.2e+02 Score=24.37 Aligned_cols=34 Identities=0% Similarity=-0.173 Sum_probs=24.6
Q ss_pred EEEeCCCchHHHHHHHHHHHHhC-CCceEEeeCCCCCc
Q psy8996 10 AFSISEVHYANNYTTESEVHYAN-NYTTEVLRMDEYDM 46 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~~~-g~~~~v~~l~~~~~ 46 (95)
+-||+....|...|+.|++ . |++++|+++..+.|
T Consensus 466 ia~G~~v~~Al~Aa~~L~~---~~gi~~~Vid~~~ikP 500 (581)
T PRK12315 466 LALGDFYELGEKVAKKLKE---ELGIDATLINPKFITG 500 (581)
T ss_pred EEEchHHHHHHHHHHHHhh---hcCCCEEEEecCcCCC
Confidence 4467777777777776643 4 88999999887654
No 289
>PF14051 Requiem_N: N-terminal domain of DPF2/REQ.
Probab=22.26 E-value=34 Score=20.29 Aligned_cols=14 Identities=29% Similarity=0.116 Sum_probs=11.8
Q ss_pred EEeCCCchHHHHHH
Q psy8996 11 FSISEVHYANNYTT 24 (95)
Q Consensus 11 ~ygS~tG~ae~~A~ 24 (95)
|+-||||.|+.=+.
T Consensus 30 flD~QTgVAQ~~~~ 43 (74)
T PF14051_consen 30 FLDSQTGVAQNHCY 43 (74)
T ss_pred ccccccchhhhHHH
Confidence 67899999999663
No 290
>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=22.24 E-value=2e+02 Score=20.80 Aligned_cols=36 Identities=3% Similarity=-0.121 Sum_probs=23.8
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
+..|+|++.|.-..+++...+..+.+.+.|.+.-+.
T Consensus 67 ~~~~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v 102 (290)
T TIGR00683 67 AKDQIALIAQVGSVNLKEAVELGKYATELGYDCLSA 102 (290)
T ss_pred hCCCCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEE
Confidence 456789998877667776665555566667664433
No 291
>cd03825 GT1_wcfI_like This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis.
Probab=22.17 E-value=1.6e+02 Score=20.55 Aligned_cols=28 Identities=11% Similarity=-0.071 Sum_probs=21.0
Q ss_pred chHHHHHHHHHH-HHhCCCceEEeeCCCC
Q psy8996 17 HYANNYTTESEV-HYANNYTTEVLRMDEY 44 (95)
Q Consensus 17 G~ae~~A~~l~~-~~~~g~~~~v~~l~~~ 44 (95)
|.++..+..+++ +.++|+++.+...+..
T Consensus 13 gG~~~~~~~l~~~l~~~G~~v~v~~~~~~ 41 (365)
T cd03825 13 GGAARAAYRLHRALQAAGVDSTMLVQEKK 41 (365)
T ss_pred CcHHHHHHHHHHHHHhcCCceeEEEeecc
Confidence 667777777865 5578999988887654
No 292
>PRK09548 PTS system ascorbate-specific transporter subunits IICB; Provisional
Probab=22.09 E-value=1.3e+02 Score=24.71 Aligned_cols=29 Identities=3% Similarity=-0.188 Sum_probs=22.8
Q ss_pred EEEeCCCchHHHHHHHHHHHH-hCCCceEE
Q psy8996 10 AFSISEVHYANNYTTESEVHY-ANNYTTEV 38 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v 38 (95)
+.=||--||+-.++.++++.+ ++|+++++
T Consensus 511 vaCGsGiGTStmva~kIkk~Lke~GI~veV 540 (602)
T PRK09548 511 AVCGQGQGSSMMMKMKIKKYLDKRGIPIIM 540 (602)
T ss_pred EECCCCchHHHHHHHHHHHHHHHcCCCeEE
Confidence 344899999999999998855 68987543
No 293
>CHL00160 rpl9 ribosomal protein L9; Provisional
Probab=21.91 E-value=2.1e+02 Score=19.03 Aligned_cols=18 Identities=6% Similarity=-0.184 Sum_probs=12.7
Q ss_pred cEEEeCCCchHHHHHHHHHH
Q psy8996 9 PAFSISEVHYANNYTTESEV 28 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~ 28 (95)
+-+|||.| +.++|+.|.+
T Consensus 93 gklfGSVt--~~dIa~~l~~ 110 (153)
T CHL00160 93 NQIFGSVT--EKEISQIIKN 110 (153)
T ss_pred CeEEcccC--HHHHHHHHHH
Confidence 57899986 5667766643
No 294
>cd08492 PBP2_NikA_DppA_OppA_like_15 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=21.91 E-value=1.8e+02 Score=21.93 Aligned_cols=26 Identities=4% Similarity=-0.077 Sum_probs=19.8
Q ss_pred chHHHHHHHHHH-HHhCCCceEEeeCC
Q psy8996 17 HYANNYTTESEV-HYANNYTTEVLRMD 42 (95)
Q Consensus 17 G~ae~~A~~l~~-~~~~g~~~~v~~l~ 42 (95)
...+.+|+.+++ +.+.|+++++..++
T Consensus 355 ~~~~~~a~~i~~~l~~iGi~v~i~~~~ 381 (484)
T cd08492 355 PQSQSVLQLIQAQLKEVGIDLQLKVLD 381 (484)
T ss_pred chHHHHHHHHHHHHHhhCeEEEEEEec
Confidence 357888998876 44689998887665
No 295
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=21.90 E-value=1.2e+02 Score=21.58 Aligned_cols=57 Identities=19% Similarity=0.170 Sum_probs=34.5
Q ss_pred cccEEEeCCCchHHHHHHHHHHHHh-CCCceE--EeeCCC--CCcccccccCeEEEEeccCCC
Q psy8996 7 REPAFSISEVHYANNYTTESEVHYA-NNYTTE--VLRMDE--YDMSSIEHEALILVVASTFGN 64 (95)
Q Consensus 7 ~~~~~ygS~tG~ae~~A~~l~~~~~-~g~~~~--v~~l~~--~~~~~l~~~~~vi~v~ST~G~ 64 (95)
+..|+=.+.+|.|- +++.+..... ..+++. +.-..+ .++.++.+.-.-++++++.++
T Consensus 18 r~~I~G~~G~GKTT-Llr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~ 79 (249)
T cd01128 18 RGLIVAPPKAGKTT-LLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDE 79 (249)
T ss_pred EEEEECCCCCCHHH-HHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCC
Confidence 44555568999985 5677765332 334443 222444 566666555566788888875
No 296
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=21.83 E-value=2.3e+02 Score=20.79 Aligned_cols=32 Identities=13% Similarity=-0.051 Sum_probs=25.4
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCce
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTT 36 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~ 36 (95)
.++=.++.-|.+|++..+-+.+..+.++|..+
T Consensus 126 ~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~ 157 (296)
T PRK12570 126 TADDVVVGIAASGRTPYVIGALEYAKQIGATT 157 (296)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeE
Confidence 35556788899999999998888888888543
No 297
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=21.63 E-value=2.3e+02 Score=20.72 Aligned_cols=36 Identities=8% Similarity=-0.030 Sum_probs=27.7
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhCCCceEEe
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYANNYTTEVL 39 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~ 39 (95)
+.++=.++.-|.+|++..+-+.+..+.++|..+-.+
T Consensus 124 l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaI 159 (291)
T TIGR00274 124 LTKNDVVVGIAASGRTPYVIAGLQYARSLGALTISI 159 (291)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEE
Confidence 445667888899999999999888888888554333
No 298
>PF09981 DUF2218: Uncharacterized protein conserved in bacteria (DUF2218); InterPro: IPR014543 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2JPI_A.
Probab=21.47 E-value=96 Score=18.63 Aligned_cols=24 Identities=21% Similarity=0.336 Sum_probs=18.0
Q ss_pred CCchHHHHHHHHHHHHhCCCceEE
Q psy8996 15 EVHYANNYTTESEVHYANNYTTEV 38 (95)
Q Consensus 15 ~tG~ae~~A~~l~~~~~~g~~~~v 38 (95)
.|-++.++.++|++-+.+.+.++-
T Consensus 6 ~T~~~~ryl~qLc~Hf~hk~~v~~ 29 (89)
T PF09981_consen 6 ATPNASRYLKQLCKHFAHKFEVEW 29 (89)
T ss_dssp --SSHHHHHHHHHHHTTTSSEEEE
T ss_pred ECCCHHHHHHHHHHHhcCCCceEE
Confidence 367889999999998888777653
No 299
>PF09314 DUF1972: Domain of unknown function (DUF1972); InterPro: IPR015393 This domain is functionally uncharacterised and found in bacterial glycosyltransferases and rhamnosyltransferases.
Probab=21.39 E-value=2.8e+02 Score=19.01 Aligned_cols=33 Identities=9% Similarity=-0.002 Sum_probs=24.4
Q ss_pred CCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcc
Q psy8996 15 EVHYANNYTTESEV-HYANNYTTEVLRMDEYDMS 47 (95)
Q Consensus 15 ~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~ 47 (95)
..|-=|-+||.|.. +.++|+++.|.+..+....
T Consensus 15 ~YGGfET~ve~L~~~l~~~g~~v~Vyc~~~~~~~ 48 (185)
T PF09314_consen 15 RYGGFETFVEELAPRLVSKGIDVTVYCRSDYYPY 48 (185)
T ss_pred ccCcHHHHHHHHHHHHhcCCceEEEEEccCCCCC
Confidence 34667888999976 4467999999988765433
No 300
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase. This bifunctional isomerase is a member of the larger PGI superfamily and only distantly related to other glucose-6-phosphate isomerases. The family is limited to the archaea.
Probab=21.37 E-value=1.8e+02 Score=21.44 Aligned_cols=32 Identities=6% Similarity=-0.010 Sum_probs=24.2
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCce
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTT 36 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~ 36 (95)
.++--++.-|.+|+++..-..+..+.++|..+
T Consensus 65 ~~~dlvI~iS~SG~t~e~~~a~~~A~~~g~~i 96 (308)
T TIGR02128 65 DGKTLLIAVSYSGNTEETLSAVEEAKKKGAKV 96 (308)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHcCCEE
Confidence 44445777899999999988777777777543
No 301
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=21.35 E-value=3e+02 Score=19.28 Aligned_cols=51 Identities=16% Similarity=0.156 Sum_probs=32.8
Q ss_pred cccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCccccccc-CeEEEE
Q psy8996 5 EKREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHE-ALILVV 58 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~-~~vi~v 58 (95)
.++-.++.-|.+|.++.+-+.+..+.++|..+-++. . ....+.+. +.++.+
T Consensus 174 ~~~D~vI~iS~sG~t~~~~~~~~~ak~~g~~vI~IT--~-~~s~l~~~ad~~l~~ 225 (284)
T PRK11302 174 SDGDVVVLISHTGRTKSLVELAQLARENGATVIAIT--S-AGSPLAREATLALTL 225 (284)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEC--C-CCChhHHhCCEEEec
Confidence 455567888999999998877777777886544444 3 22345443 444444
No 302
>PRK02645 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=21.30 E-value=3.4e+02 Score=19.91 Aligned_cols=35 Identities=9% Similarity=-0.156 Sum_probs=25.7
Q ss_pred ccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEee
Q psy8996 6 KREPAFSISEVHYANNYTTESEV-HYANNYTTEVLR 40 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~ 40 (95)
+++.++|=...+.+..+++++.+ +.++|+.+.+..
T Consensus 4 kkv~lI~n~~~~~~~~~~~~i~~~L~~~g~~v~v~~ 39 (305)
T PRK02645 4 KQVIIAYKAGSSQAKEAAERCAKQLEARGCKVLMGP 39 (305)
T ss_pred CEEEEEEeCCCHHHHHHHHHHHHHHHHCCCEEEEec
Confidence 56788887777788888888876 446888766543
No 303
>cd04955 GT1_like_6 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=21.24 E-value=1.8e+02 Score=20.33 Aligned_cols=32 Identities=13% Similarity=0.043 Sum_probs=25.3
Q ss_pred CCCchHHHHHHHHHH-HHhCCCceEEeeCCCCC
Q psy8996 14 SEVHYANNYTTESEV-HYANNYTTEVLRMDEYD 45 (95)
Q Consensus 14 S~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~ 45 (95)
...|-++.++..|++ +.++|+++.++......
T Consensus 12 ~~~gG~~~~~~~la~~L~~~g~~v~v~~~~~~~ 44 (363)
T cd04955 12 AKYGGFETFVEELAPRLVARGHEVTVYCRSPYP 44 (363)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCEEEEEccCCC
Confidence 467888999999976 55699999999876543
No 304
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=20.97 E-value=2.3e+02 Score=19.83 Aligned_cols=61 Identities=8% Similarity=0.053 Sum_probs=34.8
Q ss_pred CccccccccEEEe--------CCCchHHHHHHHHHHHH-hCCCceEEeeCCCCCcc-------------cccccCeEEEE
Q psy8996 1 MEIVEKREPAFSI--------SEVHYANNYTTESEVHY-ANNYTTEVLRMDEYDMS-------------SIEHEALILVV 58 (95)
Q Consensus 1 ~~~~~~~~~~~yg--------S~tG~ae~~A~~l~~~~-~~g~~~~v~~l~~~~~~-------------~l~~~~~vi~v 58 (95)
|.-..+|+.++.+ .-.|+..+ |+.|++.+ +.||.|.+. .+.+.. +...++.++++
T Consensus 3 m~~~p~g~alII~n~~f~~~~~r~g~~~D-~~~l~~~f~~lgF~V~~~--~dlt~~em~~~l~~~~~~~~~~~~d~~v~~ 79 (241)
T smart00115 3 MNSKPRGLALIINNENFHSLPRRNGTDVD-AENLTELFQSLGYEVHVK--NNLTAEEMLEELKEFAERPEHSDSDSFVCV 79 (241)
T ss_pred CCCCCCcEEEEEECccCCCCcCCCCcHHH-HHHHHHHHHHCCCEEEEe--cCCCHHHHHHHHHHHHhccccCCCCEEEEE
Confidence 3444555555554 12244444 67887755 479987654 222211 12346778888
Q ss_pred eccCCC
Q psy8996 59 ASTFGN 64 (95)
Q Consensus 59 ~ST~G~ 64 (95)
..+||.
T Consensus 80 ~~sHG~ 85 (241)
T smart00115 80 LLSHGE 85 (241)
T ss_pred EcCCCC
Confidence 889985
No 305
>PF00496 SBP_bac_5: Bacterial extracellular solute-binding proteins, family 5 Middle; InterPro: IPR000914 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into Gram-positive bacteria which are surrounded by a single membrane and therefore have no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families of clusters, which generally correlate with the nature of the solute bound. Family 5 currently includes periplasmic oligopeptide-binding proteins (oppA) of Gram-negative bacteria and homologous lipoproteins in Gram-positive bacteria (oppA, amiA or appA); periplasmic dipeptide-binding proteins of Escherichia coli (dppA) and Bacillus subtilis (dppE); periplasmic murein peptide-binding protein of E. coli (mppA); periplasmic peptide-binding proteins sapA of E. coli, Salmonella typhimurium and Haemophilus influenzae; periplasmic nickel-binding protein (nikA) of E. coli; haem-binding lipoprotein (hbpA or dppA) from H. influenzae; lipoprotein xP55 from Streptomyces lividans; and hypothetical proteins from H. influenzae (HI0213) and Rhizobium sp. (strain NGR234) symbiotic plasmid (y4tO and y4wM).; GO: 0005215 transporter activity, 0006810 transport; PDB: 1B51_A 1B0H_A 1QKA_A 1B9J_A 1B6H_A 1OLA_A 1B3L_C 1JEV_A 1B5H_A 1JET_A ....
Probab=20.96 E-value=1.2e+02 Score=21.91 Aligned_cols=35 Identities=9% Similarity=-0.088 Sum_probs=26.7
Q ss_pred ccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCC
Q psy8996 8 EPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMD 42 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~ 42 (95)
.-+++.+..-....+|+.|.+ +.+.|+.+++..++
T Consensus 296 ~~~~~~~~~~~~~~~a~~l~~~l~~~Gi~v~i~~~~ 331 (374)
T PF00496_consen 296 LIILYTSDDPIWKAIAEALQEQLKKIGIKVEIKPVD 331 (374)
T ss_dssp EEEEEETTSHHHHHHHHHHHHHHHHTTEEEEEEEES
T ss_pred ccccccccccchHHHHHHHHHHHhhcceeEEEEEeC
Confidence 345666777777789999977 55689999888884
No 306
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=20.95 E-value=3.3e+02 Score=19.55 Aligned_cols=39 Identities=3% Similarity=-0.075 Sum_probs=24.8
Q ss_pred cccccEEEeCCCc---hHHHHHHHHHHHH-hCCCceEEeeCCC
Q psy8996 5 EKREPAFSISEVH---YANNYTTESEVHY-ANNYTTEVLRMDE 43 (95)
Q Consensus 5 ~~~~~~~ygS~tG---~ae~~A~~l~~~~-~~g~~~~v~~l~~ 43 (95)
++++.|++|..+. -+..=|+.+.+++ +.|+++..++.+.
T Consensus 3 ~~~i~vl~gg~s~e~~vsl~s~~~v~~aL~~~g~~~~~~~~~~ 45 (296)
T PRK14569 3 NEKIVVLYGGDSPEREVSLKSGKAVLDSLISQGYDAVGVDASG 45 (296)
T ss_pred CcEEEEEeCCCCCchHhHHHHHHHHHHHHHHcCCEEEEEcCCc
Confidence 5689999984333 3334455555533 5788887777653
No 307
>PRK05876 short chain dehydrogenase; Provisional
Probab=20.84 E-value=2.4e+02 Score=19.71 Aligned_cols=27 Identities=15% Similarity=-0.021 Sum_probs=20.2
Q ss_pred CccccccccEEEeCCCchHHHHHHHHH
Q psy8996 1 MEIVEKREPAFSISEVHYANNYTTESE 27 (95)
Q Consensus 1 ~~~~~~~~~~~ygS~tG~ae~~A~~l~ 27 (95)
|+..+.+.-++-|..+|=...+|++|+
T Consensus 1 ~~~~~~k~vlVTGas~gIG~ala~~La 27 (275)
T PRK05876 1 MDGFPGRGAVITGGASGIGLATGTEFA 27 (275)
T ss_pred CCCcCCCEEEEeCCCchHHHHHHHHHH
Confidence 666677777787888888888877764
No 308
>cd04962 GT1_like_5 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=20.82 E-value=1.5e+02 Score=20.99 Aligned_cols=33 Identities=6% Similarity=-0.111 Sum_probs=24.1
Q ss_pred EEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCC
Q psy8996 10 AFSISEVHYANNYTTESEV-HYANNYTTEVLRMD 42 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~ 42 (95)
++.-...|-++..+..+++ +.++|++|.++...
T Consensus 5 ~~~~p~~gG~~~~~~~la~~L~~~G~~v~v~~~~ 38 (371)
T cd04962 5 IVCYPTYGGSGVVATELGKALARRGHEVHFITSS 38 (371)
T ss_pred EEEEeCCCCccchHHHHHHHHHhcCCceEEEecC
Confidence 3333456777888899987 45689999988764
No 309
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=20.77 E-value=1.6e+02 Score=23.86 Aligned_cols=57 Identities=11% Similarity=0.053 Sum_probs=0.0
Q ss_pred cccccccEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcc---cccccCeEEEEecc
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMS---SIEHEALILVVAST 61 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~---~l~~~~~vi~v~ST 61 (95)
+.+.+.-.+||. |.+..+|+.+.. +.+.|..+....-...... .+.+.+++|+++-+
T Consensus 465 L~~a~rI~i~G~--G~S~~~A~~~~~~l~~lg~~~~~~~d~~~~~~~~~~l~~~DvvI~iS~s 525 (638)
T PRK14101 465 LNNARRIEFYGL--GNSNIVAQDAHYKFFRFGIPTIAYGDLYMQAASAALLGKGDVIVAVSKS 525 (638)
T ss_pred HhcCCEEEEEEc--cHHHHHHHHHHHHHhcCCceEEEcCCHHHHHHHHhcCCCCCEEEEEeCC
No 310
>PRK05066 arginine repressor; Provisional
Probab=20.58 E-value=2.7e+02 Score=18.53 Aligned_cols=51 Identities=8% Similarity=0.052 Sum_probs=29.3
Q ss_pred CCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 14 SEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 14 S~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
|.-|+|..+|..|.+. ++...+ ...+.+.+.+++++.+- ++++.+.++|.+
T Consensus 100 T~pG~A~~va~~iD~~---~~~~~I-------lGTIAGdDTilVi~~~~------~~a~~l~~~l~~ 150 (156)
T PRK05066 100 TSPGAAQLIARLLDSL---GKAEGI-------LGTIAGDDTIFITPASG------FTIKELLEAILE 150 (156)
T ss_pred cCCChHHHHHHHHHcC---CCCCCe-------EEEEecCCEEEEEECCH------HHHHHHHHHHHH
Confidence 5556666666555332 111111 23456777777777654 677788877764
No 311
>KOG1123|consensus
Probab=20.54 E-value=4.3e+02 Score=21.95 Aligned_cols=74 Identities=9% Similarity=0.152 Sum_probs=38.4
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeC---CCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVLRM---DEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l---~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
-+.|.+||.. +..|++ +|-+.++..-.+..+-+ .|.. -+|+....+|=|+|-+ |.--..|+.+=+-|+.+.
T Consensus 563 l~KpfIYG~T-sq~ERm--~ILqnFq~n~~vNTIFlSKVgDtS-iDLPEAnvLIQISSH~--GSRRQEAQRLGRILRAKk 636 (776)
T KOG1123|consen 563 LGKPFIYGPT-SQNERM--KILQNFQTNPKVNTIFLSKVGDTS-IDLPEANVLIQISSHG--GSRRQEAQRLGRILRAKK 636 (776)
T ss_pred cCCceEECCC-chhHHH--HHHHhcccCCccceEEEeeccCcc-ccCCcccEEEEEcccc--cchHHHHHHHHHHHHHhh
Confidence 3569999963 444543 23233333322332222 2322 2466555555555544 455667888877777654
Q ss_pred CCC
Q psy8996 83 IGE 85 (95)
Q Consensus 83 ~~~ 85 (95)
...
T Consensus 637 ~~d 639 (776)
T KOG1123|consen 637 RND 639 (776)
T ss_pred cCc
Confidence 433
No 312
>PRK08250 glutamine amidotransferase; Provisional
Probab=20.53 E-value=3.1e+02 Score=19.17 Aligned_cols=33 Identities=12% Similarity=0.156 Sum_probs=20.4
Q ss_pred hCCCceEEeeCCCCC--cccccccCeEEEEeccCC
Q psy8996 31 ANNYTTEVLRMDEYD--MSSIEHEALILVVASTFG 63 (95)
Q Consensus 31 ~~g~~~~v~~l~~~~--~~~l~~~~~vi~v~ST~G 63 (95)
.+|+.+++.....-+ +.++.+++.+|+.-|..+
T Consensus 23 ~~g~~~~~~~~~~g~~~p~~~~~~d~vii~GGp~~ 57 (235)
T PRK08250 23 NRGYDISYSRVYAGEALPENADGFDLLIVMGGPQS 57 (235)
T ss_pred HCCCeEEEEEccCCCCCCCCccccCEEEECCCCCC
Confidence 367777776544322 224556788888777665
No 313
>PF05902 4_1_CTD: 4.1 protein C-terminal domain (CTD); InterPro: IPR008379 There is a unique sequence domain at the C terminus of all known 4.1 proteins, known as the C-terminal domain (CTD). Mammalian CTDs are associated with a growing number of protein-protein interactions, although such activities have yet to be associated with invertebrate CTDs. Mammalian CTDs are generally defined by sequence alignment as encoded by exons 18-21. Comparison of known vertebrate 4.1 proteins with invertebrate 4.1 proteins indicates that mammalian 4.1 exon 19 represents a vertebrate adaptation that extends the sequence of the CTD with a Ser/Thr-rich sequence. The CTD was first described as a 22/24 kDa domain by chymotryptic digestion of erythrocyte 4.1 (4.1R). CTD is thought to represent an independent folding structure which has gained function since the divergence of vertebrates from invertebrates [].; GO: 0003779 actin binding, 0005198 structural molecule activity, 0005856 cytoskeleton
Probab=20.53 E-value=1.6e+02 Score=18.87 Aligned_cols=29 Identities=10% Similarity=0.058 Sum_probs=21.6
Q ss_pred ccccccEEEeCCCchHHHHHHHHHHHHhC
Q psy8996 4 VEKREPAFSISEVHYANNYTTESEVHYAN 32 (95)
Q Consensus 4 ~~~~~~~~ygS~tG~ae~~A~~l~~~~~~ 32 (95)
+|||+-|---+.--.=+.+|+.|.++..+
T Consensus 69 IEKRIvITGD~DIDhDqaLa~aI~eAk~q 97 (114)
T PF05902_consen 69 IEKRIVITGDADIDHDQALAQAIKEAKEQ 97 (114)
T ss_pred EEEEEEEecCCCcchHHHHHHHHHHHHHh
Confidence 67886666566666778999999887653
No 314
>cd05015 SIS_PGI_1 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of glucose 6-phosphate to fructose 6-phosphate. As an extracellular protein, PGI also has functions equivalent to neuroleukin (NLK), autocrine motility factor (AMF), and maturation factor (MF). Evidence suggests that PGI, NLK, AMF, and MF are closely related or identical. NLK is a neurotrophic growth factor that promotes regeneration and survival of neurons. The dimeric form of NLK has isomerase function, whereas its monomeric form carries out neurotrophic activity. AMF is a cytokine that stimulates cell migration and metastasis. MF mediates the differentiation of human myeloid leukemic HL-60 cells to terminal monocytic cells.
Probab=20.44 E-value=2.6e+02 Score=18.18 Aligned_cols=30 Identities=20% Similarity=0.196 Sum_probs=17.8
Q ss_pred cCeEEEEeccCCC-CCCCCcHHHHHHHHhhC
Q psy8996 52 EALILVVASTFGN-GDPPENGQEFAQNLHAL 81 (95)
Q Consensus 52 ~~~vi~v~ST~G~-Ge~Pdn~~~F~~~L~~~ 81 (95)
.+-+++++|-.|. =|+=.+++.+.+||++.
T Consensus 73 ~~tlvi~iSkSG~T~Et~~~~~~a~~~l~~~ 103 (158)
T cd05015 73 ETTLFIVISKSGTTLETLANARLAREWLEEA 103 (158)
T ss_pred ccEEEEEEECCcCCHHHHHHHHHHHHHHHHh
Confidence 4555555665543 44455677777787654
No 315
>cd06063 H2MP_Cyano-H2up This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found exclusively in the N2-fixing strains and are encoded by hup (hydrogen uptake) genes. These uptake hydrogenases are heterodimers with a large (hupL) and small subunit (hupS) and catalyze the consumption of the H2 produced during N2 fixation. Sequence similarity shows that the putative metal-binding resides are well conserved in this group of hydrogen maturation proteases. This group also includes such proteins as the hydrogenase III from Aquifex aeolicus.
Probab=20.43 E-value=2.5e+02 Score=18.02 Aligned_cols=55 Identities=7% Similarity=0.022 Sum_probs=33.5
Q ss_pred chHHHHHHHHHHHHhCCCceEEeeCCCCCc---ccccccCeEEEEeccCCCCCCCCcHHH
Q psy8996 17 HYANNYTTESEVHYANNYTTEVLRMDEYDM---SSIEHEALILVVASTFGNGDPPENGQE 73 (95)
Q Consensus 17 G~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~l~~~~~vi~v~ST~G~Ge~Pdn~~~ 73 (95)
|=.-.+|++|++.. ..-.+++.+.....+ ..+.+++.+|||-+... |.+|-....
T Consensus 15 G~G~~v~~~L~~~~-~~~~v~~id~gt~~~~l~~~l~~~d~vIiVDA~~~-g~~PG~v~~ 72 (146)
T cd06063 15 GVGPILIRRLQAYL-LPPHVRLVDCGTAGMEVMFRARGAKQLIIIDASST-GSEPGAVFE 72 (146)
T ss_pred cHHHHHHHHHhhcC-CCCCeEEEECCCCHHHHHHHhcCCCEEEEEEeCCC-CCCCCeEEE
Confidence 33446677775421 122367777665433 34668899999998875 667765543
No 316
>KOG0734|consensus
Probab=20.40 E-value=1.5e+02 Score=24.64 Aligned_cols=41 Identities=20% Similarity=0.295 Sum_probs=26.5
Q ss_pred cccccEEEeCCCchHHHH----HHHHHHHHh--CCCceEEeeCCCCC
Q psy8996 5 EKREPAFSISEVHYANNY----TTESEVHYA--NNYTTEVLRMDEYD 45 (95)
Q Consensus 5 ~~~~~~~ygS~tG~ae~~----A~~l~~~~~--~g~~~~v~~l~~~~ 45 (95)
|-+||.||.|-+---|.+ |++++++++ +...+-++-+|++|
T Consensus 360 EA~VPFF~~sGSEFdEm~VGvGArRVRdLF~aAk~~APcIIFIDEiD 406 (752)
T KOG0734|consen 360 EAGVPFFYASGSEFDEMFVGVGARRVRDLFAAAKARAPCIIFIDEID 406 (752)
T ss_pred ccCCCeEeccccchhhhhhcccHHHHHHHHHHHHhcCCeEEEEechh
Confidence 678999998876665655 677777653 22334455566654
No 317
>TIGR01855 IMP_synth_hisH imidazole glycerol phosphate synthase, glutamine amidotransferase subunit. This model represents the glutamine amidotransferase subunit (or domain, in eukaryotic systems) of imidazole glycerol phosphate synthase. This subunit catalyzes step 5 of histidine biosynthesis from PRPP. The other subunit, the cyclase, catalyzes step 6.
Probab=20.34 E-value=1.8e+02 Score=19.60 Aligned_cols=35 Identities=9% Similarity=0.006 Sum_probs=23.3
Q ss_pred CchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEE
Q psy8996 16 VHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILV 57 (95)
Q Consensus 16 tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~ 57 (95)
.||.-.++++|++ .|.++++..- .+++.+.+.+|+
T Consensus 8 ~gn~~~l~~~l~~---~g~~v~v~~~----~~~l~~~d~lii 42 (196)
T TIGR01855 8 VGNLGSVKRALKR---VGAEPVVVKD----SKEAELADKLIL 42 (196)
T ss_pred CcHHHHHHHHHHH---CCCcEEEEcC----HHHhccCCEEEE
Confidence 5788888877764 4777777762 245566776555
No 318
>PF14511 RE_EcoO109I: Type II restriction endonuclease EcoO109I; PDB: 1WTD_A 1WTE_A.
Probab=20.31 E-value=2.3e+02 Score=19.88 Aligned_cols=59 Identities=10% Similarity=0.123 Sum_probs=31.5
Q ss_pred eCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcH---------HHHHHHHhh
Q psy8996 13 ISEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENG---------QEFAQNLHA 80 (95)
Q Consensus 13 gS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~---------~~F~~~L~~ 80 (95)
|-+|||+..++.........--..+. . ........++--+||.=.-|+.. ++||+|+..
T Consensus 113 GpNt~N~~qi~~~~~~Fk~~~~~~r~--------~-~~~~~~~~v~G~~YG~~~~~~~~~r~y~~~~Gq~FW~~IsG 180 (200)
T PF14511_consen 113 GPNTINSDQIKKMKDHFKEAKNLLRT--------N-KSGQNIDAVNGCCYGKDNNLDKGYRDYPKLCGQEFWEFISG 180 (200)
T ss_dssp STTS--HHHHHHHHHHHHHHHHH--------------GGG-SEEEEEESSS-TTTTCCHHHTEEEEETHHHHHHHTT
T ss_pred CCCcCCHHHHHHHHHHHHHHHHhhcc--------c-ccccccceeeEEEecCCCCccccchhHHHHhhHHHHHHhhC
Confidence 78999999998666442210000010 0 11223344466678877777755 899999974
No 319
>TIGR03710 OAFO_sf 2-oxoacid:acceptor oxidoreductase, alpha subunit. The genes for this enzyme in Prevotella intermedia 17, Persephonella marina EX-H1 and Picrophilus torridus DSM 9790 are in close proximity to a variety of TCA cycle genes. Persephonella marina and P. torridus are believed to encode complete TCA cycles, and none of these contains the lipoate-based 2-oxoglutarate dehydrogenase (E1/E2/E3) system. That system is presumed to be replaced by this one. In fact, the lipoate system is absent in most organisms possessing a member of this family, providing additional circumstantial evidence that many of these enzymes are capable of acting as 2-oxoglutarate dehydrogenases and supporting flux through TCA cycles in either the forward or reverse directions.
Probab=20.31 E-value=1.8e+02 Score=23.31 Aligned_cols=62 Identities=15% Similarity=0.050 Sum_probs=38.8
Q ss_pred ccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCCc---cc----ccccCeEEEEeccCCCCCCCCcHHHHHHHHhh
Q psy8996 8 EPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYDM---SS----IEHEALILVVASTFGNGDPPENGQEFAQNLHA 80 (95)
Q Consensus 8 ~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~---~~----l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~ 80 (95)
+-|-|||..|+++..++.|++ .|.++.++.+..+.| +. +.+.+.++++=-++. | .+...++.
T Consensus 467 ~iv~~Gs~~~~~~eav~~lr~---~G~kvg~l~~~~~~PfP~~~i~~~l~~~k~v~VvE~n~~-G-------ql~~~v~~ 535 (562)
T TIGR03710 467 LVIGWGSTYGAIREAVERLRA---EGIKVALLHLRLLYPFPKDELAELLEGAKKVIVVEQNAT-G-------QLAKLLRA 535 (562)
T ss_pred EEEEeCCCHHHHHHHHHHHHh---cCCeEEEEEeCeecCCCHHHHHHHHhcCCEEEEEccChh-h-------hHHHHHHH
Confidence 457789999999998887753 466666665554332 22 345676777666542 3 45565554
No 320
>COG3672 Predicted transglutaminase-like cysteine proteinase [General function prediction only]
Probab=20.27 E-value=2.3e+02 Score=19.83 Aligned_cols=55 Identities=15% Similarity=0.140 Sum_probs=32.8
Q ss_pred CCCchHHHHHHHHH-HHHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCC-CCcH
Q psy8996 14 SEVHYANNYTTESE-VHYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDP-PENG 71 (95)
Q Consensus 14 S~tG~ae~~A~~l~-~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~-Pdn~ 71 (95)
+-.|.+|++|-.=+ ++.+.|++..-.-|.= +....++...|+.++|- .||. -||.
T Consensus 105 ~~~GDCEDyal~KRr~L~~~G~s~~~Llitv--vr~~~gegHaVLtVrTd-~GD~VLDNl 161 (191)
T COG3672 105 TGAGDCEDYALEKRRRLMEAGVSSSALLITV--VRKPDGEGHAVLTVRTD-RGDFVLDNL 161 (191)
T ss_pred CCcccHHHHHHHHHHHHHHcCCChhhEEEEE--EEcCCCceeEEEEEEcC-CCCEEeecC
Confidence 67899999985444 4677898743222211 23344566677766666 5664 4443
No 321
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=20.25 E-value=1.7e+02 Score=17.41 Aligned_cols=40 Identities=10% Similarity=-0.056 Sum_probs=23.1
Q ss_pred ccccEEEeCCCchHHHHHHHHHHHHhCCCceEEeeCCCCC
Q psy8996 6 KREPAFSISEVHYANNYTTESEVHYANNYTTEVLRMDEYD 45 (95)
Q Consensus 6 ~~~~~~ygS~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~ 45 (95)
.++|.-+.-.++.++..-+.++++.+.|+.+-.+.....+
T Consensus 30 ~~i~at~fv~~~~~~~~~~~l~~l~~~G~ei~~H~~~H~~ 69 (123)
T PF01522_consen 30 YGIPATFFVIGSWVERYPDQLRELAAAGHEIGNHGWSHPN 69 (123)
T ss_dssp TT--EEEEE-HHHHHHHHHHHHHHHHTT-EEEEE-SSSSC
T ss_pred cccceeeeecccccccccccchhHHHHHHHHHhcCCcccc
Confidence 3556656555556666666777777788877777766543
No 322
>COG4301 Uncharacterized conserved protein [Function unknown]
Probab=20.23 E-value=1.3e+02 Score=22.46 Aligned_cols=35 Identities=26% Similarity=0.300 Sum_probs=29.2
Q ss_pred cCeEEEEeccCCCCCCCCcHHHHHHHHhhCCCCCcc
Q psy8996 52 EALILVVASTFGNGDPPENGQEFAQNLHALRIGEDA 87 (95)
Q Consensus 52 ~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~~~~~~ 87 (95)
.++++|+-||-|+= -|+.+..|...|.....|++.
T Consensus 154 ~Rl~~flGStlGN~-tp~e~~~Fl~~l~~a~~pGd~ 188 (321)
T COG4301 154 RRLFVFLGSTLGNL-TPGECAVFLTQLRGALRPGDY 188 (321)
T ss_pred eEEEEEecccccCC-ChHHHHHHHHHHHhcCCCcce
Confidence 45888999999864 488899999999998888875
No 323
>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=20.20 E-value=2.6e+02 Score=18.19 Aligned_cols=66 Identities=12% Similarity=0.098 Sum_probs=35.8
Q ss_pred cEEEeCCCchHHHHHHHHHH-HHhCCCceEEeeCCCCCcccccccCeEEEEeccCCCCCCCCcHHHHHHHHhhCC
Q psy8996 9 PAFSISEVHYANNYTTESEV-HYANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82 (95)
Q Consensus 9 ~~~ygS~tG~ae~~A~~l~~-~~~~g~~~~v~~l~~~~~~~l~~~~~vi~v~ST~G~Ge~Pdn~~~F~~~L~~~~ 82 (95)
-.+|| .|.+..+|+.+.. +...|..+... .+.....+.+.+++|+++ -. |+. .+..+..+.+++..
T Consensus 33 I~i~G--~G~S~~~A~~~~~~l~~~g~~~~~~--~~~~~~~~~~~Dv~I~iS-~s--G~t-~~~i~~~~~ak~~g 99 (179)
T TIGR03127 33 IFVAG--AGRSGLVGKAFAMRLMHLGFNVYVV--GETTTPSIKKGDLLIAIS-GS--GET-ESLVTVAKKAKEIG 99 (179)
T ss_pred EEEEe--cCHHHHHHHHHHHHHHhCCCeEEEe--CCcccCCCCCCCEEEEEe-CC--CCc-HHHHHHHHHHHHCC
Confidence 34444 4567788888865 55667665544 333233455566655554 33 333 33445555565543
No 324
>PF02783 MCR_beta_N: Methyl-coenzyme M reductase beta subunit, N-terminal domain; InterPro: IPR022680 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. This entry represents the N-terminal domain from the beta subunit of methyl-conenzyme M reductase (MCR). The N-terminal domain has an alpha/beta ferredoxin-like fold. This entry is found in assocation with PF02241 from PFAM. ; GO: 0050524 coenzyme-B sulfoethylthiotransferase activity; PDB: 3SQG_B 1MRO_E 1HBM_B 3M30_B 3M32_B 1HBU_B 3M2U_E 3M2V_E 3M1V_B 1HBO_B ....
Probab=20.19 E-value=93 Score=21.51 Aligned_cols=38 Identities=18% Similarity=0.135 Sum_probs=21.6
Q ss_pred CCCchHHHHHHHHHHHHhCCCceEEeeCCCCCcccccccCeEEE
Q psy8996 14 SEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEALILV 57 (95)
Q Consensus 14 S~tG~ae~~A~~l~~~~~~g~~~~v~~l~~~~~~~l~~~~~vi~ 57 (95)
...+|++.+|+++.+..+ +.+=++..+..+...+.+++
T Consensus 72 ~iv~na~aIa~kik~~vq------V~e~DDT~v~~i~gGK~llV 109 (182)
T PF02783_consen 72 DIVANADAIAEKIKKMVQ------VEEGDDTNVKLINGGKQLLV 109 (182)
T ss_dssp -TGGGHHHHHHHHHHHH-------SSTTSS-EEEEEGGGTEEEE
T ss_pred ccccCHHHHHHHHHHHhe------ecCCCCcEEEEecCceEEEE
Confidence 346899999999998653 22333333444444444444
No 325
>PRK12321 cobN cobaltochelatase subunit CobN; Reviewed
Probab=20.04 E-value=3.1e+02 Score=24.25 Aligned_cols=33 Identities=6% Similarity=-0.143 Sum_probs=22.8
Q ss_pred ccccEEE-eC--CCchHHHHHHHHHHHHhCCCceEE
Q psy8996 6 KREPAFS-IS--EVHYANNYTTESEVHYANNYTTEV 38 (95)
Q Consensus 6 ~~~~~~y-gS--~tG~ae~~A~~l~~~~~~g~~~~v 38 (95)
+.++|+| .| +.|++..+...++++.++|+.+-.
T Consensus 199 p~vgilfyr~~~~~~~~~~idali~~Le~~G~~~ip 234 (1100)
T PRK12321 199 PLALVLFYRSYLLAADTAPVDALAAALRARGFAAVG 234 (1100)
T ss_pred CeEEEEEehhhhccCCcHHHHHHHHHHHHCCCEEEE
Confidence 4455554 55 589999987666777778987653
No 326
>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2.7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.
Probab=20.03 E-value=2.5e+02 Score=17.85 Aligned_cols=71 Identities=8% Similarity=0.156 Sum_probs=36.9
Q ss_pred EEEeCCCchHHHHHHHHHHH-HhCCC---ceEEeeCCCCCcccc---------cccCeEEEEecc-C-CCCCCCCcHHHH
Q psy8996 10 AFSISEVHYANNYTTESEVH-YANNY---TTEVLRMDEYDMSSI---------EHEALILVVAST-F-GNGDPPENGQEF 74 (95)
Q Consensus 10 ~~ygS~tG~ae~~A~~l~~~-~~~g~---~~~v~~l~~~~~~~l---------~~~~~vi~v~ST-~-G~Ge~Pdn~~~F 74 (95)
++||++.+--+...++|.+. ...++ ++...+.++.+..++ -....+|++--. + .+....+....|
T Consensus 2 ll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~s~slF~~~klvii~~~~~l~~~~~~~~~~~l 81 (172)
T PF06144_consen 2 LLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSEDDIDELLEELQSPSLFGDKKLVIIKNAPFLKDKLKKKEIKAL 81 (172)
T ss_dssp EEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS-HHH-HTTTSTTTTSSSSEEEEEEE-----TT-S-TTHHHHH
T ss_pred EEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEccccCcHHHHHHHHhcCCccCCCeEEEEecCccccccccHHHHHHH
Confidence 68999999999999999764 54442 334444444333211 122334444433 2 344455667777
Q ss_pred HHHHhh
Q psy8996 75 AQNLHA 80 (95)
Q Consensus 75 ~~~L~~ 80 (95)
.+.+..
T Consensus 82 ~~~l~~ 87 (172)
T PF06144_consen 82 IEYLSN 87 (172)
T ss_dssp HHHTTT
T ss_pred HHHHhC
Confidence 776654
No 327
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=20.01 E-value=2.2e+02 Score=19.27 Aligned_cols=43 Identities=12% Similarity=0.127 Sum_probs=32.3
Q ss_pred cccccccEEEeCCCchHHHHHHHHHHHH-hCCCceEEeeCC-CCC
Q psy8996 3 IVEKREPAFSISEVHYANNYTTESEVHY-ANNYTTEVLRMD-EYD 45 (95)
Q Consensus 3 ~~~~~~~~~ygS~tG~ae~~A~~l~~~~-~~g~~~~v~~l~-~~~ 45 (95)
.+.+...||=.|-+|-+--++..++++. +.+..+-++|.+ +|.
T Consensus 21 l~~~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~ii~D~~GEY~ 65 (229)
T PF01935_consen 21 LFNRHIAIFGTTGSGKSNTVKVLLEELLKKKGAKVIIFDPHGEYA 65 (229)
T ss_pred hccceEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEcCCCcch
Confidence 3466666666788999999888888877 778888888776 343
Done!