Query psy10038
Match_columns 51
No_of_seqs 112 out of 1152
Neff 7.8
Searched_HMMs 46136
Date Fri Aug 16 16:16:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10038.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10038hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12400 D-amino acid aminotra 99.6 7.4E-15 1.6E-19 88.6 5.3 47 2-49 196-242 (290)
2 PRK13356 aminotransferase; Pro 99.5 1.7E-14 3.7E-19 86.8 5.4 47 2-49 199-245 (286)
3 PRK07650 4-amino-4-deoxychoris 99.5 1.9E-14 4.2E-19 86.4 5.2 47 2-49 190-236 (283)
4 TIGR01123 ilvE_II branched-cha 99.5 3.3E-14 7.2E-19 86.5 6.2 47 2-49 205-251 (313)
5 PLN02883 Branched-chain amino 99.5 2E-14 4.4E-19 90.2 5.4 47 2-49 280-326 (384)
6 cd00449 PLPDE_IV PyridoxaL 5'- 99.5 2.3E-14 5E-19 84.3 5.3 47 2-49 174-220 (256)
7 PRK06092 4-amino-4-deoxychoris 99.5 2.3E-14 4.9E-19 85.4 5.1 47 2-49 186-232 (268)
8 PLN02782 Branched-chain amino 99.5 2.3E-14 5E-19 90.3 5.2 47 2-49 298-344 (403)
9 PRK12479 branched-chain amino 99.5 2.8E-14 6.1E-19 86.4 5.5 47 2-49 198-244 (299)
10 PLN03117 Branched-chain-amino- 99.5 2.7E-14 5.9E-19 88.6 5.4 47 2-49 247-293 (355)
11 PLN02259 branched-chain-amino- 99.5 2.6E-14 5.5E-19 89.8 5.3 47 2-49 284-330 (388)
12 TIGR03461 pabC_Proteo aminodeo 99.5 2.5E-14 5.4E-19 84.9 5.0 47 2-49 184-230 (261)
13 TIGR01121 D_amino_aminoT D-ami 99.5 3.1E-14 6.6E-19 85.4 5.4 47 2-49 189-235 (276)
14 PRK08320 branched-chain amino 99.5 3.2E-14 6.9E-19 85.5 5.3 47 2-49 197-243 (288)
15 cd01558 D-AAT_like D-Alanine a 99.5 3.2E-14 6.9E-19 84.7 5.2 47 2-49 188-234 (270)
16 TIGR01122 ilvE_I branched-chai 99.5 3.3E-14 7.2E-19 85.9 5.0 47 2-49 198-244 (298)
17 PF01063 Aminotran_4: Aminotra 99.5 3.7E-14 7.9E-19 82.2 4.9 47 2-49 152-198 (231)
18 PRK06680 D-amino acid aminotra 99.5 5.5E-14 1.2E-18 84.7 5.4 47 2-49 195-241 (286)
19 PRK07849 4-amino-4-deoxychoris 99.5 5.4E-14 1.2E-18 85.1 5.1 47 2-49 205-251 (292)
20 cd01559 ADCL_like ADCL_like: 4 99.5 5.4E-14 1.2E-18 83.1 5.0 46 2-48 170-215 (249)
21 PRK06606 branched-chain amino 99.5 6.1E-14 1.3E-18 85.1 5.0 47 2-49 206-252 (306)
22 cd01557 BCAT_beta_family BCAT_ 99.5 8.4E-14 1.8E-18 83.7 5.1 47 2-49 189-235 (279)
23 COG0115 IlvE Branched-chain am 99.5 1.2E-13 2.6E-18 83.3 5.1 46 2-48 197-242 (284)
24 PRK13357 branched-chain amino 99.4 2E-13 4.4E-18 84.6 4.9 47 2-49 245-297 (356)
25 KOG0975|consensus 99.4 2.1E-13 4.5E-18 85.4 4.7 46 2-48 273-319 (379)
26 PRK07544 branched-chain amino 99.4 2.8E-13 6E-18 81.7 5.0 46 2-49 204-249 (292)
27 PRK09266 hypothetical protein; 99.3 2.5E-12 5.4E-17 76.7 5.5 45 2-49 180-224 (266)
28 PLN02845 Branched-chain-amino- 99.3 8.1E-12 1.8E-16 77.1 5.1 46 2-48 232-281 (336)
29 PRK07546 hypothetical protein; 99.2 4.6E-11 1E-15 69.4 4.3 41 2-48 152-193 (209)
30 PRK07101 hypothetical protein; 98.9 1.4E-09 3.1E-14 62.7 3.9 39 2-48 139-177 (187)
31 PF01081 Aldolase: KDPG and KH 89.9 0.73 1.6E-05 27.1 3.7 31 19-50 91-121 (196)
32 PRK06015 keto-hydroxyglutarate 88.6 0.66 1.4E-05 27.4 2.9 31 19-50 87-117 (201)
33 PRK07114 keto-hydroxyglutarate 87.1 0.91 2E-05 27.2 2.9 30 20-50 103-132 (222)
34 TIGR01182 eda Entner-Doudoroff 86.2 1.2 2.6E-05 26.4 3.0 30 20-50 92-121 (204)
35 PRK06552 keto-hydroxyglutarate 85.4 1.3 2.8E-05 26.3 3.0 30 20-50 100-129 (213)
36 COG0800 Eda 2-keto-3-deoxy-6-p 85.3 1 2.2E-05 27.1 2.4 30 20-50 97-126 (211)
37 cd03030 GRX_SH3BGR Glutaredoxi 82.7 2.3 4.9E-05 22.1 2.9 38 1-41 2-41 (92)
38 PRK15007 putative ABC transpor 81.8 3.4 7.4E-05 23.6 3.7 41 10-51 40-80 (243)
39 PRK11260 cystine transporter s 77.8 6.9 0.00015 22.9 4.2 40 10-50 60-99 (266)
40 PRK05718 keto-hydroxyglutarate 73.6 5.5 0.00012 23.7 3.0 30 20-50 99-128 (212)
41 PF00497 SBP_bac_3: Bacterial 73.5 5.2 0.00011 22.0 2.8 40 10-50 18-57 (225)
42 TIGR01096 3A0103s03R lysine-ar 72.7 12 0.00026 21.4 4.2 41 10-51 43-83 (250)
43 PRK09495 glnH glutamine ABC tr 72.6 8 0.00017 22.3 3.5 41 9-50 42-82 (247)
44 PRK06683 hypothetical protein; 72.2 11 0.00023 19.2 3.5 30 16-47 40-69 (82)
45 PF03683 UPF0175: Uncharacteri 72.2 2.4 5.1E-05 21.2 1.1 29 13-45 43-71 (76)
46 PF14542 Acetyltransf_CG: GCN5 70.8 11 0.00025 18.7 3.5 29 6-35 32-60 (78)
47 PRK13602 putative ribosomal pr 69.4 13 0.00028 18.8 3.5 30 16-47 40-69 (82)
48 cd05565 PTS_IIB_lactose PTS_II 67.7 15 0.00033 19.3 3.6 32 13-45 12-43 (99)
49 PF04908 SH3BGR: SH3-binding, 67.4 13 0.00028 19.6 3.3 40 2-44 4-45 (99)
50 PRK15010 ABC transporter lysin 66.1 14 0.00031 21.5 3.7 41 10-51 45-85 (260)
51 PRK13601 putative L7Ae-like ri 64.4 18 0.00038 18.5 3.5 30 16-47 37-66 (82)
52 PRK01018 50S ribosomal protein 62.7 20 0.00044 18.7 3.5 33 14-47 43-75 (99)
53 PRK15437 histidine ABC transpo 62.0 19 0.00041 21.0 3.7 41 10-51 45-85 (259)
54 cd05569 PTS_IIB_fructose PTS_I 61.4 17 0.00037 18.7 3.1 36 11-47 10-55 (96)
55 COG2257 Uncharacterized homolo 61.0 7.4 0.00016 20.6 1.6 32 14-46 30-61 (92)
56 PTZ00106 60S ribosomal protein 60.7 23 0.00049 18.9 3.5 33 14-47 52-84 (108)
57 PF09778 Guanylate_cyc_2: Guan 60.2 20 0.00044 21.6 3.6 28 19-47 93-120 (212)
58 PF11814 DUF3335: Peptidase_C3 60.1 14 0.00031 22.2 2.9 28 23-51 103-130 (207)
59 PF00356 LacI: Bacterial regul 58.3 8.3 0.00018 17.6 1.4 21 11-32 24-44 (46)
60 cd00134 PBPb Bacterial peripla 58.0 27 0.00059 18.5 3.7 41 9-50 17-57 (218)
61 COG0034 PurF Glutamine phospho 57.8 14 0.00029 24.9 2.7 21 9-29 355-375 (470)
62 TIGR00829 FRU PTS system, fruc 56.5 24 0.00052 17.9 3.1 35 12-47 10-54 (85)
63 TIGR00853 pts-lac PTS system, 55.8 28 0.00061 18.0 4.0 31 14-45 16-46 (95)
64 PF15608 PELOTA_1: PELOTA RNA 55.3 16 0.00034 19.6 2.3 19 18-37 69-87 (100)
65 PRK09140 2-dehydro-3-deoxy-6-p 54.6 25 0.00054 20.6 3.3 32 18-50 93-124 (206)
66 PRK09959 hybrid sensory histid 54.4 33 0.00072 24.5 4.3 41 10-51 76-117 (1197)
67 PRK10859 membrane-bound lytic 52.7 50 0.0011 21.6 4.7 41 10-51 60-101 (482)
68 COG1654 BirA Biotin operon rep 52.6 14 0.0003 18.8 1.8 21 15-36 30-53 (79)
69 cd03045 GST_N_Delta_Epsilon GS 52.1 25 0.00054 16.3 3.8 33 1-40 1-33 (74)
70 COG1954 GlpP Glycerol-3-phosph 49.2 32 0.00068 20.4 3.1 38 12-50 127-166 (181)
71 PRK00278 trpC indole-3-glycero 49.0 54 0.0012 19.8 4.2 37 13-50 144-180 (260)
72 TIGR03870 ABC_MoxJ methanol ox 48.3 48 0.001 19.3 3.8 38 6-44 11-48 (246)
73 PRK05562 precorrin-2 dehydroge 47.4 30 0.00065 20.8 2.9 35 2-46 52-86 (223)
74 PF12995 DUF3879: Domain of un 47.3 11 0.00023 22.3 0.9 17 7-23 164-180 (186)
75 PRK09590 celB cellobiose phosp 46.8 44 0.00096 17.6 3.8 31 14-45 14-44 (104)
76 TIGR00789 flhB_rel flhB C-term 46.7 26 0.00056 17.9 2.2 29 15-44 26-54 (82)
77 PHA02119 hypothetical protein 45.7 14 0.0003 18.9 1.1 32 3-35 41-72 (87)
78 PRK00509 argininosuccinate syn 45.5 8.5 0.00019 25.1 0.4 29 2-35 139-168 (399)
79 PRK10474 putative PTS system f 45.1 31 0.00068 17.5 2.4 28 19-47 4-40 (88)
80 cd02423 Peptidase_C39G A sub-f 45.1 39 0.00085 17.3 2.9 31 14-45 43-73 (129)
81 cd01999 Argininosuccinate_Synt 44.7 7.9 0.00017 25.0 0.2 36 2-41 136-174 (385)
82 cd02419 Peptidase_C39C A sub-f 44.2 44 0.00095 17.1 3.0 31 14-45 42-72 (127)
83 PF14520 HHH_5: Helix-hairpin- 42.3 39 0.00084 15.7 2.6 28 13-48 10-37 (60)
84 PF04361 DUF494: Protein of un 41.0 34 0.00074 19.4 2.4 31 9-44 92-122 (155)
85 PF07377 DUF1493: Protein of u 40.9 16 0.00035 19.3 1.0 16 36-51 92-107 (111)
86 cd03059 GST_N_SspA GST_N famil 40.6 41 0.00088 15.4 3.7 33 1-40 1-33 (73)
87 PF02677 DUF208: Uncharacteriz 40.2 50 0.0011 19.3 3.0 28 18-46 44-71 (176)
88 cd02425 Peptidase_C39F A sub-f 40.0 51 0.0011 16.8 2.8 31 14-45 42-73 (126)
89 PF00218 IGPS: Indole-3-glycer 39.6 90 0.002 19.1 4.4 38 12-50 141-178 (254)
90 cd02420 Peptidase_C39D A sub-f 39.4 44 0.00095 17.1 2.5 31 14-45 42-72 (125)
91 smart00062 PBPb Bacterial peri 39.4 60 0.0013 17.0 4.6 40 10-50 19-58 (219)
92 PRK10427 putative PTS system f 39.3 58 0.0013 17.5 3.0 35 12-47 15-59 (114)
93 cd02417 Peptidase_C39_likeA A 39.3 52 0.0011 16.7 2.8 31 14-45 37-67 (121)
94 KOG3218|consensus 38.8 27 0.00058 21.1 1.7 27 17-44 15-43 (208)
95 cd02259 Peptidase_C39_like Pep 38.6 56 0.0012 16.4 2.8 30 15-45 38-67 (122)
96 COG1445 FrwB Phosphotransferas 38.0 56 0.0012 18.2 2.8 28 19-47 22-58 (122)
97 TIGR03871 ABC_peri_MoxJ_2 quin 37.6 78 0.0017 17.8 4.9 34 5-39 10-43 (232)
98 PRK03430 hypothetical protein; 37.2 35 0.00077 19.6 2.0 29 10-43 95-123 (157)
99 PF01890 CbiG_C: Cobalamin syn 36.9 70 0.0015 17.2 3.1 25 20-47 49-73 (121)
100 cd02424 Peptidase_C39E A sub-f 36.4 67 0.0015 16.7 3.2 32 14-46 43-74 (129)
101 KOG0142|consensus 36.0 42 0.0009 20.5 2.2 29 13-44 102-130 (225)
102 cd05564 PTS_IIB_chitobiose_lic 35.5 67 0.0014 16.4 4.0 33 11-44 9-41 (96)
103 PRK10310 PTS system galactitol 34.9 68 0.0015 16.4 3.9 31 14-45 15-46 (94)
104 PF13060 DUF3921: Protein of u 34.9 30 0.00066 16.4 1.3 33 16-49 8-40 (58)
105 cd02421 Peptidase_C39_likeD A 34.1 44 0.00096 17.1 2.0 31 14-45 37-67 (124)
106 PF11547 E3_UbLigase_EDD: E3 u 33.9 18 0.00039 17.1 0.4 22 11-33 18-39 (53)
107 PRK13820 argininosuccinate syn 32.5 17 0.00037 23.6 0.3 21 14-35 145-165 (394)
108 COG2410 Predicted nuclease (RN 32.3 72 0.0016 18.8 2.8 32 9-41 78-111 (178)
109 cd08489 PBP2_NikA The substrat 31.5 1.3E+02 0.0028 19.3 4.1 33 17-50 350-382 (488)
110 cd00452 KDPG_aldolase KDPG and 31.3 64 0.0014 18.3 2.5 31 19-50 87-117 (190)
111 PF08222 HTH_CodY: CodY helix- 31.2 33 0.00071 16.8 1.1 15 14-28 14-28 (61)
112 PRK10222 PTS system L-ascorbat 31.1 73 0.0016 16.1 2.5 28 16-44 2-29 (85)
113 PF07037 DUF1323: Putative tra 31.1 35 0.00077 19.0 1.3 21 13-34 9-29 (122)
114 PF00462 Glutaredoxin: Glutare 31.0 60 0.0013 14.6 2.5 22 20-42 14-35 (60)
115 PF13744 HTH_37: Helix-turn-he 30.9 75 0.0016 15.6 2.8 24 11-35 54-77 (80)
116 KOG0572|consensus 30.7 54 0.0012 22.0 2.3 21 9-29 363-383 (474)
117 cd03051 GST_N_GTT2_like GST_N 30.3 64 0.0014 14.6 3.7 33 1-40 1-33 (74)
118 KOG2708|consensus 30.1 25 0.00054 22.1 0.7 17 3-20 32-48 (336)
119 PRK07283 hypothetical protein; 29.9 89 0.0019 16.1 3.5 29 17-47 48-76 (98)
120 cd02418 Peptidase_C39B A sub-f 29.9 80 0.0017 16.2 2.6 30 14-44 42-73 (136)
121 PF04414 tRNA_deacylase: D-ami 29.4 63 0.0014 19.4 2.3 24 10-34 189-212 (213)
122 PRK05583 ribosomal protein L7A 29.0 97 0.0021 16.3 3.6 29 17-47 47-75 (104)
123 PHA02757 hypothetical protein; 28.9 53 0.0012 16.5 1.6 29 6-35 23-51 (75)
124 TIGR02995 ectoine_ehuB ectoine 28.8 1.3E+02 0.0028 17.7 3.9 40 10-50 51-91 (275)
125 cd03042 GST_N_Zeta GST_N famil 28.8 70 0.0015 14.6 2.9 33 1-40 1-33 (73)
126 PRK11404 putative PTS system 28.6 71 0.0015 21.4 2.6 35 12-47 16-60 (482)
127 PRK11041 DNA-binding transcrip 28.4 45 0.00097 19.6 1.6 19 13-32 4-22 (309)
128 PF10281 Ish1: Putative stress 28.3 61 0.0013 13.8 1.7 27 19-46 7-33 (38)
129 smart00354 HTH_LACI helix_turn 28.0 57 0.0012 15.6 1.7 19 14-33 28-46 (70)
130 cd08516 PBP2_NikA_DppA_OppA_li 28.0 1.6E+02 0.0035 18.5 4.2 33 17-50 334-366 (457)
131 cd03031 GRX_GRX_like Glutaredo 28.0 73 0.0016 17.9 2.3 22 19-41 20-41 (147)
132 cd03041 GST_N_2GST_N GST_N fam 27.9 80 0.0017 15.0 3.9 33 1-40 2-34 (77)
133 PRK13957 indole-3-glycerol-pho 27.9 1.5E+02 0.0033 18.2 4.3 37 13-50 135-171 (247)
134 PRK09427 bifunctional indole-3 27.7 1.7E+02 0.0036 19.6 4.2 38 12-50 142-179 (454)
135 PF11491 DUF3213: Protein of u 27.5 18 0.00039 19.0 -0.2 29 17-45 48-76 (88)
136 cd03036 ArsC_like Arsenate Red 26.9 53 0.0011 17.2 1.5 20 19-39 13-32 (111)
137 PF09370 TIM-br_sig_trns: TIM- 26.9 1.5E+02 0.0033 18.6 3.7 40 10-50 118-170 (268)
138 PRK03995 hypothetical protein; 26.9 88 0.0019 19.4 2.7 24 10-34 242-265 (267)
139 PF03793 PASTA: PASTA domain; 26.6 75 0.0016 14.5 1.9 24 13-37 6-29 (63)
140 PF04083 Abhydro_lipase: Parti 26.4 41 0.00088 16.2 1.0 17 23-40 3-19 (63)
141 PF00708 Acylphosphatase: Acyl 26.4 40 0.00086 16.9 1.0 21 11-32 12-33 (91)
142 COG1167 ARO8 Transcriptional r 26.3 1.7E+02 0.0036 19.2 4.0 36 3-39 231-269 (459)
143 TIGR01244 conserved hypothetic 26.0 34 0.00074 18.5 0.7 20 14-34 110-129 (135)
144 PF05023 Phytochelatin: Phytoc 25.9 1E+02 0.0023 18.4 2.8 22 15-37 96-117 (212)
145 PRK10727 DNA-binding transcrip 25.9 53 0.0012 19.8 1.6 20 12-32 27-46 (343)
146 PF01418 HTH_6: Helix-turn-hel 25.7 46 0.001 16.2 1.1 18 14-32 44-61 (77)
147 cd03040 GST_N_mPGES2 GST_N fam 25.6 87 0.0019 14.6 3.4 33 1-40 2-34 (77)
148 cd00014 CH Calponin homology d 25.5 99 0.0021 15.3 2.6 22 20-44 66-87 (107)
149 cd08490 PBP2_NikA_DppA_OppA_li 25.5 1.8E+02 0.0039 18.4 3.9 32 16-48 336-367 (470)
150 PRK04280 arginine repressor; P 25.5 32 0.00069 19.4 0.5 22 18-40 21-42 (148)
151 PRK07714 hypothetical protein; 25.4 1.1E+02 0.0024 15.7 3.6 29 17-47 48-76 (100)
152 PF07796 DUF1638: Protein of u 25.3 1.3E+02 0.0029 16.7 3.7 28 18-46 135-162 (166)
153 KOG3254|consensus 25.3 42 0.00092 20.1 1.1 27 2-28 155-181 (211)
154 PF03960 ArsC: ArsC family; I 25.3 1E+02 0.0022 15.9 2.5 21 18-39 9-29 (110)
155 PRK14561 hypothetical protein; 25.2 75 0.0016 18.3 2.1 22 13-36 131-152 (194)
156 cd08498 PBP2_NikA_DppA_OppA_li 25.2 1.9E+02 0.0042 18.5 4.1 31 17-48 347-377 (481)
157 PF03395 Pox_P4A: Poxvirus P4A 25.2 77 0.0017 23.1 2.4 31 17-48 821-851 (888)
158 PF13192 Thioredoxin_3: Thiore 25.1 94 0.002 14.9 2.8 33 2-38 4-36 (76)
159 PF11432 DUF3197: Protein of u 24.7 85 0.0019 17.2 2.1 25 20-45 64-88 (113)
160 PRK07455 keto-hydroxyglutarate 24.7 50 0.0011 19.0 1.3 31 19-50 95-125 (187)
161 PF07862 Nif11: Nitrogen fixat 24.3 20 0.00043 16.1 -0.4 18 17-35 28-45 (49)
162 PRK07027 cobalamin biosynthesi 24.2 1.1E+02 0.0024 16.5 2.5 24 20-46 51-74 (126)
163 PF14500 MMS19_N: Dos2-interac 24.1 62 0.0013 19.7 1.7 22 4-27 176-197 (262)
164 PRK10347 cell filamentation pr 24.0 1.1E+02 0.0024 18.1 2.7 35 14-49 141-176 (200)
165 PRK10339 DNA-binding transcrip 23.9 63 0.0014 19.3 1.7 19 13-32 30-48 (327)
166 cd04871 ACT_PSP_2 ACT domains 23.8 1.1E+02 0.0024 15.2 2.5 21 15-36 63-83 (84)
167 PF07750 GcrA: GcrA cell cycle 23.6 28 0.0006 19.9 0.1 24 13-37 28-51 (162)
168 cd03053 GST_N_Phi GST_N family 23.4 96 0.0021 14.3 3.5 33 1-40 2-34 (76)
169 COG0633 Fdx Ferredoxin [Energy 23.4 72 0.0016 16.6 1.6 28 5-33 8-36 (102)
170 PF02737 3HCDH_N: 3-hydroxyacy 23.4 1.5E+02 0.0033 16.7 4.4 33 15-48 8-40 (180)
171 cd08499 PBP2_Ylib_like The sub 22.9 2.1E+02 0.0046 18.2 4.1 30 18-48 335-364 (474)
172 PF10100 DUF2338: Uncharacteri 22.9 54 0.0012 21.9 1.3 28 20-48 275-302 (429)
173 PRK01130 N-acetylmannosamine-6 22.9 1.6E+02 0.0034 17.0 3.2 34 16-50 105-139 (221)
174 PF13489 Methyltransf_23: Meth 22.6 71 0.0015 16.7 1.6 22 14-36 140-161 (161)
175 PF12728 HTH_17: Helix-turn-he 22.5 89 0.0019 13.6 3.4 38 12-50 9-50 (51)
176 PRK11303 DNA-binding transcrip 22.4 72 0.0016 19.0 1.7 20 12-32 29-48 (328)
177 PTZ00105 60S ribosomal protein 22.3 80 0.0017 17.7 1.7 34 13-50 100-133 (140)
178 PF04800 ETC_C1_NDUFA4: ETC co 22.2 1.1E+02 0.0024 16.3 2.2 25 13-38 53-77 (101)
179 PF09697 Porph_ging: Protein o 22.1 60 0.0013 16.1 1.1 15 2-16 46-67 (70)
180 COG1724 Predicted RNA binding 21.9 1.2E+02 0.0026 15.1 2.2 23 12-35 3-25 (66)
181 PF10180 DUF2373: Uncharacteri 21.7 95 0.0021 15.1 1.8 16 12-27 48-63 (65)
182 cd08511 PBP2_NikA_DppA_OppA_li 21.4 2.3E+02 0.005 18.0 4.2 31 19-50 336-366 (467)
183 COG1476 Predicted transcriptio 21.3 49 0.0011 16.5 0.7 12 13-24 23-34 (68)
184 PF09862 DUF2089: Protein of u 21.1 1.5E+02 0.0033 16.1 2.6 34 16-50 65-101 (113)
185 KOG0409|consensus 20.9 2.2E+02 0.0048 18.5 3.6 35 15-50 44-78 (327)
186 PF03514 GRAS: GRAS domain fam 20.8 1.1E+02 0.0024 19.6 2.3 25 16-41 160-184 (374)
187 PF00496 SBP_bac_5: Bacterial 20.7 2.1E+02 0.0046 17.3 4.1 33 17-50 310-343 (374)
188 TIGR02318 phosphono_phnM phosp 20.7 2.3E+02 0.005 18.0 3.7 32 18-50 211-243 (376)
189 TIGR02194 GlrX_NrdH Glutaredox 20.6 1.2E+02 0.0025 14.2 2.8 23 19-42 13-35 (72)
190 TIGR01481 ccpA catabolite cont 20.6 76 0.0016 18.9 1.5 20 12-32 27-46 (329)
191 COG1393 ArsC Arsenate reductas 20.6 1.6E+02 0.0034 15.8 3.2 28 17-45 13-45 (117)
192 TIGR02417 fruct_sucro_rep D-fr 20.6 80 0.0017 18.8 1.6 20 12-32 28-47 (327)
193 cd03027 GRX_DEP Glutaredoxin ( 20.6 1.1E+02 0.0025 14.2 2.7 22 19-41 15-36 (73)
194 COG0134 TrpC Indole-3-glycerol 20.5 2.3E+02 0.005 17.6 3.9 32 18-50 145-176 (254)
195 PRK14741 spoVM stage V sporula 20.4 64 0.0014 13.0 0.8 20 1-21 1-20 (26)
196 cd02977 ArsC_family Arsenate R 20.4 1.4E+02 0.003 15.1 2.5 20 19-39 13-32 (105)
197 TIGR03798 ocin_TIGR03798 bacte 20.4 26 0.00055 16.7 -0.4 19 18-37 27-45 (64)
198 cd08492 PBP2_NikA_DppA_OppA_li 20.4 2.4E+02 0.0053 17.9 3.9 30 19-49 362-391 (484)
199 PLN00078 photosystem I reactio 20.3 84 0.0018 17.2 1.5 15 14-28 32-46 (122)
200 PRK10423 transcriptional repre 20.2 82 0.0018 18.7 1.6 20 12-32 24-43 (327)
201 cd08507 PBP2_SgrR_like The C-t 20.1 1.7E+02 0.0036 18.7 3.1 33 16-49 312-344 (448)
202 TIGR03414 ABC_choline_bnd chol 20.1 2.2E+02 0.0049 17.4 4.0 28 23-51 29-56 (290)
No 1
>PRK12400 D-amino acid aminotransferase; Reviewed
Probab=99.56 E-value=7.4e-15 Score=88.59 Aligned_cols=47 Identities=28% Similarity=0.365 Sum_probs=44.9
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+|||++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 196 ~l~TPpl~~g~L~GItR~~llela~~~-gi~v~E~~i~~~eL~~Adev 242 (290)
T PRK12400 196 TLYTHPANHLILNGIIRQYVLSLAKTL-RIPVQEELFSVRDVYQADEC 242 (290)
T ss_pred EEEeCCCCCCcCcCHHHHHHHHHHHHc-CCcEEEEeCCHHHHHhCCee
Confidence 589999999999999999999999999 89999999999999999973
No 2
>PRK13356 aminotransferase; Provisional
Probab=99.53 E-value=1.7e-14 Score=86.78 Aligned_cols=47 Identities=28% Similarity=0.421 Sum_probs=44.8
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.|++++++. |++|+|++++++||.+|||.
T Consensus 199 ~l~TP~~~~~~L~GItR~~vi~~a~~~-gi~v~e~~i~~~eL~~adev 245 (286)
T PRK13356 199 VVFTPVPNGTFLNGITRQRVIALLRED-GVTVVETTLTYEDFLEADEV 245 (286)
T ss_pred EEEcCCCCCCcccCHHHHHHHHHHHHc-CCeEEEEecCHHHHHhcCce
Confidence 589999999999999999999999999 89999999999999999974
No 3
>PRK07650 4-amino-4-deoxychorismate lyase; Provisional
Probab=99.53 E-value=1.9e-14 Score=86.39 Aligned_cols=47 Identities=26% Similarity=0.350 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 190 ~l~TP~l~~g~L~GitR~~li~~~~~~-g~~v~e~~i~~~dL~~adei 236 (283)
T PRK07650 190 IVYTPSLETGILNGITRAFVIKVLEEL-GIEVKEGFYTKEELLSADEV 236 (283)
T ss_pred EEEcCCCcCCCcccHHHHHHHHHHHHc-CCeEEEEecCHHHHhhCCEe
Confidence 589999999999999999999999999 89999999999999999873
No 4
>TIGR01123 ilvE_II branched-chain amino acid aminotransferase, group II. Among the class IV aminotransferases are two phylogenetically separable groups of branched-chain amino acid aminotransferase (IlvE). The last common ancestor of the two lineages appears also to have given rise to a family of D-amino acid aminotransferases (DAAT). This model represents the IlvE family less similar to the DAAT family.
Probab=99.52 E-value=3.3e-14 Score=86.47 Aligned_cols=47 Identities=40% Similarity=0.723 Sum_probs=44.0
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+|||++.++|+||||+.+++++++. |++|+|++++++||.+|+++
T Consensus 205 ~l~Tp~l~~~~L~GItR~~vi~l~~~~-Gi~v~e~~i~~~~l~~A~~~ 251 (313)
T TIGR01123 205 ELVTPPLSGSILPGITRDSLLQLAKDL-GMEVEERRIDIDELKAFVEA 251 (313)
T ss_pred EEEeCCCCCCCCcchHHHHHHHHHHHc-CCeEEEEecCHHHHHHHHhc
Confidence 589999999999999999999999999 89999999999999999443
No 5
>PLN02883 Branched-chain amino acid aminotransferase
Probab=99.52 E-value=2e-14 Score=90.19 Aligned_cols=47 Identities=36% Similarity=0.627 Sum_probs=44.9
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||++|+++|+++ |++|+|++|+++||.+|||.
T Consensus 280 ~l~TP~l~~~iLpGITR~svl~la~~~-G~~V~Er~i~~~eL~~AdEv 326 (384)
T PLN02883 280 IIVTPATSGTILGGITRKSIIEIALDL-GYKVEERRVPVEELKEAEEV 326 (384)
T ss_pred EEEeCCCcCCcCcCHHHHHHHHHHHHC-CCeEEEEECCHHHHHhCCEe
Confidence 589999999999999999999999999 89999999999999999874
No 6
>cd00449 PLPDE_IV PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate lyases (ADCL). BCAT catalyzes the reversible transamination reaction between the L-branched-chain amino and alpha-keto acids. DAAT catalyzes the synthesis of D-glutamic acid and D-alanine, and ADCL converts 4-amino-4-deoxychorismate to p-aminobenzoate and pyruvate. Except for a few enzymes, i. e., Escherichia coli and Salmonella BCATs, which are homohexamers arranged as a double trimer, the class IV PLPDEs are homodimers. Homodimer formation is required for catalytic activity.
Probab=99.52 E-value=2.3e-14 Score=84.34 Aligned_cols=47 Identities=45% Similarity=0.728 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.|+|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 174 ~l~TP~~~~g~L~GitR~~vl~~~~~~-g~~v~e~~i~~~dL~~adev 220 (256)
T cd00449 174 ELVTPPLDGGILPGITRDSVIELAKEL-GIKVEERPISLDELYAADEV 220 (256)
T ss_pred EEEeCCCCCCcCcchhHHHHHHHHHHc-CCeEEEEecCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999873
No 7
>PRK06092 4-amino-4-deoxychorismate lyase; Reviewed
Probab=99.52 E-value=2.3e-14 Score=85.39 Aligned_cols=47 Identities=32% Similarity=0.417 Sum_probs=44.5
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 186 ~~~TP~~~~~~L~GitR~~vl~~~~~~-g~~v~e~~i~~~dL~~adev 232 (268)
T PRK06092 186 VVYTPDLDQCGVAGVMRQFILELLAQS-GYPVVEVDASLEELLQADEV 232 (268)
T ss_pred EEECCCccccCcccHHHHHHHHHHHHc-CCeEEEEECCHHHHhhCCEE
Confidence 589999998999999999999999999 89999999999999999873
No 8
>PLN02782 Branched-chain amino acid aminotransferase
Probab=99.52 E-value=2.3e-14 Score=90.34 Aligned_cols=47 Identities=34% Similarity=0.675 Sum_probs=44.9
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||++|+++|+++ |++|+|+.|+++||.+|||.
T Consensus 298 ~l~TP~l~~~iLpGITR~svlela~~~-Gi~V~Er~i~~~eL~~AdEv 344 (403)
T PLN02782 298 VISTPAIKGTILPGITRKSIIDVARSQ-GFQVEERNVTVDELLEADEV 344 (403)
T ss_pred EEEcCCCcCCcCcCHHHHHHHHHHHHc-CCeEEEEECCHHHHhhCCEE
Confidence 689999999999999999999999999 89999999999999999974
No 9
>PRK12479 branched-chain amino acid aminotransferase; Provisional
Probab=99.52 E-value=2.8e-14 Score=86.41 Aligned_cols=47 Identities=30% Similarity=0.341 Sum_probs=44.9
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.+++++|.+|||.
T Consensus 198 ~l~TP~l~~giL~GItR~~il~~~~~~-g~~v~e~~i~~~~L~~adev 244 (299)
T PRK12479 198 KVLTPPSYLGALEGITRNSVIELCERL-SIPCEERPFTRHDVYVADEV 244 (299)
T ss_pred EEEeCCCcCCCCcCHHHHHHHHHHHHc-CCeEEEEeCCHHHHHhCCee
Confidence 589999999999999999999999999 89999999999999999974
No 10
>PLN03117 Branched-chain-amino-acid aminotransferase; Provisional
Probab=99.51 E-value=2.7e-14 Score=88.60 Aligned_cols=47 Identities=36% Similarity=0.631 Sum_probs=44.8
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||++++++|+||||+.++++|++. |++|+|+.++++||.+|||.
T Consensus 247 ~l~TP~l~~~iL~GItR~~vl~la~~~-Gi~v~Er~i~~~eL~~AdEv 293 (355)
T PLN03117 247 IVSTPPTSGTILPGVTRKSISELARDI-GYQVEERDVSVDELLEAEEV 293 (355)
T ss_pred EEEeCCCcCCCCCCHHHHHHHHHHHHC-CCEEEEEEccHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999974
No 11
>PLN02259 branched-chain-amino-acid aminotransferase 2
Probab=99.51 E-value=2.6e-14 Score=89.80 Aligned_cols=47 Identities=30% Similarity=0.593 Sum_probs=44.9
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||++|+++|++. |++|+|+.++++||.+|||.
T Consensus 284 ~l~TP~l~~~iL~GITR~sIl~la~~~-G~~V~Er~i~~~eL~~AdEv 330 (388)
T PLN02259 284 TISTPATNGTILEGITRKSVMEIASDQ-GYQVVEKAVHVDEVMDADEV 330 (388)
T ss_pred EEEcCCCcCCcCcCHHHHHHHHHHHHC-CCeEEEEECCHHHHHhCCEE
Confidence 589999999999999999999999999 89999999999999999974
No 12
>TIGR03461 pabC_Proteo aminodeoxychorismate lyase. Members of this protein family are aminodeoxychorismate lyase (ADC lyase), EC 4.1.3.38, the PabC protein of PABA biosynthesis. PABA (para-aminobenzoate) is a precursor of folate, needed for de novo purine biosynthesis. This enzyme is a pyridoxal-phosphate-binding protein in the class IV aminotransferase family (pfam01063).
Probab=99.51 E-value=2.5e-14 Score=84.88 Aligned_cols=47 Identities=21% Similarity=0.379 Sum_probs=44.5
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 184 ~l~TP~~~~~~L~GItR~~il~~~~~~-g~~v~E~~i~~~eL~~ade~ 230 (261)
T TIGR03461 184 QVFTPDLSYCGVAGVMRQHVLALLPAL-GYEIEEVKAGLEELLSADEV 230 (261)
T ss_pred EEECCCccccCcccHHHHHHHHHHHHc-CCeEEEEecCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999873
No 13
>TIGR01121 D_amino_aminoT D-amino acid aminotransferase. Specificity is broad for various D-amino acids, and differs among members of the family; the family is designated equivalog, but with this caveat attached.
Probab=99.51 E-value=3.1e-14 Score=85.36 Aligned_cols=47 Identities=30% Similarity=0.388 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+|||++.++|+||||+.++++++++ |++|+|++++++||.+|||.
T Consensus 189 ~~~TP~~~~~~L~GitR~~vl~~a~~~-g~~v~e~~i~~~el~~ade~ 235 (276)
T TIGR01121 189 VLYTHPANNLILNGITRMVILACAEEN-GIPVKEEPFTKEELLNADEV 235 (276)
T ss_pred EEEeCCCcCCCCcCHHHHHHHHHHHHC-CCeEEEEeCCHHHHhcCCEE
Confidence 589999999999999999999999999 89999999999999999873
No 14
>PRK08320 branched-chain amino acid aminotransferase; Reviewed
Probab=99.51 E-value=3.2e-14 Score=85.51 Aligned_cols=47 Identities=28% Similarity=0.412 Sum_probs=44.8
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 197 ~l~TP~~~~~~L~GitR~~ll~~~~~~-g~~v~e~~l~~~dL~~ade~ 243 (288)
T PRK08320 197 KLITPPTYAGALEGITRNAVIEIAKEL-GIPVREELFTLHDLYTADEV 243 (288)
T ss_pred EEECCCCcCCCCcCHHHHHHHHHHHHc-CCeEEEEECCHHHHHhCCEE
Confidence 589999999999999999999999999 89999999999999999873
No 15
>cd01558 D-AAT_like D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-glutamate in addition to other D-amino acids. The enzyme like other members of this superfamily requires PLP as a cofactor. Members of this subgroup are found in all three forms of life.
Probab=99.51 E-value=3.2e-14 Score=84.66 Aligned_cols=47 Identities=34% Similarity=0.611 Sum_probs=44.6
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 188 ~l~TP~~~~~~L~GitR~~vl~~a~~~-g~~v~e~~i~~~eL~~ade~ 234 (270)
T cd01558 188 VLVTPPLDNGILPGITRATVIELAKEL-GIPVEERPFSLEELYTADEV 234 (270)
T ss_pred EEECCCCcCCCCCChHHHHHHHHHHHc-CCeEEEEeCCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999873
No 16
>TIGR01122 ilvE_I branched-chain amino acid aminotransferase, group I. Among the class IV aminotransferases are two phylogenetically separable groups of branched-chain amino acid aminotransferase (IlvE). The last common ancestor of the two lineages appears also to have given rise to a family of D-amino acid aminotransferases (DAAT). This model represents the IlvE family more strongly similar to the DAAT family.
Probab=99.50 E-value=3.3e-14 Score=85.85 Aligned_cols=47 Identities=28% Similarity=0.515 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.|+++|++. |++|+|+.++++||.+|||.
T Consensus 198 ~l~TP~~~~~~L~GItR~~il~la~~~-g~~v~e~~i~~~eL~~adev 244 (298)
T TIGR01122 198 VLFTPPVTSSILPGITRDTVITLAKEL-GIEVVEQPISREELYTADEA 244 (298)
T ss_pred EEECCCCCCCcCcchHHHHHHHHHHHc-CCcEEEEeCCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999873
No 17
>PF01063 Aminotran_4: Aminotransferase class IV; InterPro: IPR001544 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. One of these, called class-IV, currently consists of proteins of about 270 to 415 amino-acid residues that share a few regions of sequence similarity. Surprisingly, the best conserved region does not include the lysine residue to which the pyridoxal-phosphate group is known to be attached, in ilvE, but is located some 40 residues at the C terminus side of the pyridoxal-phosphate-lysine. The D-amino acid transferases (D-AAT), which are among the members of this entry, are required by bacteria to catalyse the synthesis of D-glutamic acid and D-alanine, which are essential constituents of bacterial cell wall and are the building block for other D-amino acids. Despite the difference in the structure of the substrates, D-AATs and L-ATTs have strong similarity [, ]. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1EKV_A 2HGX_A 1EKP_A 1KTA_B 1KT8_B 2A1H_B 2HDK_A 2HGW_B 1EKF_B 2HG8_A ....
Probab=99.50 E-value=3.7e-14 Score=82.18 Aligned_cols=47 Identities=45% Similarity=0.633 Sum_probs=41.6
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.|+|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 152 ~~~TP~~~~giL~Gitr~~ll~~~~~~-g~~v~e~~i~~~~L~~ade~ 198 (231)
T PF01063_consen 152 TLYTPPLDSGILPGITRQLLLELAKEL-GIPVEERPITLDDLQQADEV 198 (231)
T ss_dssp EEEEESGSSSSB--HHHHHHHHHHHHT-TSEEEEE-BBHHHHHTHSEE
T ss_pred EEEcCChhhhhccHHHHHHHHHHHHhC-CCCcEEEEeCHHHhhhhhhe
Confidence 589999999999999999999999998 89999999999999999873
No 18
>PRK06680 D-amino acid aminotransferase; Reviewed
Probab=99.49 E-value=5.5e-14 Score=84.68 Aligned_cols=47 Identities=30% Similarity=0.577 Sum_probs=44.8
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+|||++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 195 ~l~TP~~~~~iL~Gitr~~il~~a~~~-g~~v~e~~i~~~el~~ade~ 241 (286)
T PRK06680 195 KLVTRPADNFILPGITRHTLIDLAKEL-GLEVEERPFTLQEAYAAREA 241 (286)
T ss_pred EEEeCCCCCCCCcCHHHHHHHHHHHHc-CCeEEEEcCCHHHHhcCcEE
Confidence 589999999999999999999999999 89999999999999999974
No 19
>PRK07849 4-amino-4-deoxychorismate lyase; Provisional
Probab=99.49 E-value=5.4e-14 Score=85.12 Aligned_cols=47 Identities=21% Similarity=0.334 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 205 ~l~TP~~~~giL~GItR~~vie~~~~~-g~~v~er~i~~~eL~~Adev 251 (292)
T PRK07849 205 RLLTPPPWYGILPGTTQAALFEVAREK-GWDCEYRALRPADLFAADGV 251 (292)
T ss_pred EEECCCCcCCCCccHHHHHHHHHHHHc-CCceEEEECCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999974
No 20
>cd01559 ADCL_like ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most members of this subgroup are likely to function as dimers. The enzyme from E.Coli, the structure of which is available, is a homodimer that is folded into a small and a larger domain. The coenzyme pyridoxal 5; -phosphate resides at the interface of the two domains that is linked by a flexible loop. Members of this subgroup are found in Eukaryotes and bacteria.
Probab=99.49 E-value=5.4e-14 Score=83.07 Aligned_cols=46 Identities=37% Similarity=0.603 Sum_probs=44.2
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
+|+||+++.++|+||||+.+++++++. |++|+|+.++++||.+|||
T Consensus 170 ~~~TP~~~~g~L~Gitr~~~l~~~~~~-g~~v~e~~i~~~el~~ade 215 (249)
T cd01559 170 ELVTPSLDRGGLAGITRQRVIELAAAK-GYAVDERPLRLEDLLAADE 215 (249)
T ss_pred EEECCCcccCccccHHHHHHHHHHHHc-CceEEEEecCHHHHhhCCE
Confidence 589999999999999999999999999 8999999999999999986
No 21
>PRK06606 branched-chain amino acid aminotransferase; Validated
Probab=99.48 E-value=6.1e-14 Score=85.10 Aligned_cols=47 Identities=32% Similarity=0.476 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|++++++||.+|||.
T Consensus 206 ~l~TP~~~~giL~GitR~~vl~~~~~~-g~~v~e~~i~~~eL~~Adev 252 (306)
T PRK06606 206 VLYTPPLTSSILEGITRDTVITLAKDL-GIEVIERRITRDELYIADEV 252 (306)
T ss_pred EEECCCCcCCcCCCHHHHHHHHHHHHc-CCcEEEEeCCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999973
No 22
>cd01557 BCAT_beta_family BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-ketoisovalerate. The enzyme requires pyridoxal 5'-phosphate (PLP) as a cofactor to catalyze the reaction. It has been found that mammals have two foms of the enzyme - mitochondrial and cytosolic forms while bacteria contain only one form of the enzyme. The mitochondrial form plays a significant role in skeletal muscle glutamine and alanine synthesis and in interorgan nitrogen metabolism.Members of this subgroup are widely distributed in all three forms of life.
Probab=99.47 E-value=8.4e-14 Score=83.73 Aligned_cols=47 Identities=53% Similarity=0.748 Sum_probs=44.7
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++.++|+||||+.+++++++. |++|+|++++++||.+|||.
T Consensus 189 ~l~TP~~~~~~L~Gitr~~v~~~~~~~-Gi~v~e~~i~~~~l~~ade~ 235 (279)
T cd01557 189 ELITPPLDGSILPGITRDSILELARDL-GIKVEERPITRDELYEADEV 235 (279)
T ss_pred EEEcCCCcCCCCCchHHHHHHHHHHHc-CCeEEEEeCCHHHHhhCCEE
Confidence 589999999999999999999999999 89999999999999999973
No 23
>COG0115 IlvE Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=99.46 E-value=1.2e-13 Score=83.25 Aligned_cols=46 Identities=48% Similarity=0.716 Sum_probs=44.3
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
+|+||+++.++|+||||+.++++|++. |+++.|++|+.+++.+|||
T Consensus 197 ~~~TP~~~~~iL~GitR~~li~la~~~-G~~v~E~~i~~~~l~~ade 242 (284)
T COG0115 197 VLVTPPLSGGILPGITRDSLLELAKEL-GLTVEERPITLEDLKQADE 242 (284)
T ss_pred EEECCCCCCCccccHHHHHHHHHHHHc-CceEEEeecCHHHHhhCCE
Confidence 489999999999999999999999998 8999999999999999997
No 24
>PRK13357 branched-chain amino acid aminotransferase; Provisional
Probab=99.43 E-value=2e-13 Score=84.62 Aligned_cols=47 Identities=36% Similarity=0.628 Sum_probs=44.1
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHH------Hhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPD------IVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~------l~~ade~ 49 (51)
+|+|||++.++|+||||+.|+++|++. |++|+|+.++++| |.+|||.
T Consensus 245 ~l~TPpl~~giL~GItR~~vlela~~~-Gi~v~e~~i~~~el~~~~~L~~Adev 297 (356)
T PRK13357 245 GTVTPPLSGSILPGITRDSLLQLAEDL-GLTVEERPVSIDEWQADAASGEFTEA 297 (356)
T ss_pred EEEECCCCCCCCcchHHHHHHHHHHHC-CCeEEEEecCHHHhhhhhccCcceEE
Confidence 589999999999999999999999999 8999999999999 8888873
No 25
>KOG0975|consensus
Probab=99.43 E-value=2.1e-13 Score=85.43 Aligned_cols=46 Identities=48% Similarity=0.833 Sum_probs=44.2
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCC-CeEEEEecCHHHHhchhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWND-YKVTERKITMPDIVQLSR 48 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g-~~v~e~~i~~~~l~~ade 48 (51)
++.|||++..||+||||++++++|+++ | ++|+|+.++++|+.+|+|
T Consensus 273 elvTPp~dg~ILpGvTR~sileLa~~~-g~~~V~Er~vtv~e~~~A~E 319 (379)
T KOG0975|consen 273 ELVTPPLDGTILPGVTRKSILELARDL-GEFKVEERDVTVDELKTADE 319 (379)
T ss_pred eEecCCCCCcccCCccHHHHHHHHHHh-CceEEEEEEEeHHHhhhhHh
Confidence 489999998999999999999999999 7 999999999999999997
No 26
>PRK07544 branched-chain amino acid aminotransferase; Validated
Probab=99.42 E-value=2.8e-13 Score=81.74 Aligned_cols=46 Identities=35% Similarity=0.502 Sum_probs=42.9
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+++ ++|+||||+.|++++++. |++|+|++++++||.+|||.
T Consensus 204 ~l~TP~~~-~~L~GItR~~vl~~a~~~-g~~v~e~~i~~~eL~~adev 249 (292)
T PRK07544 204 VIHTPTPD-CFLDGITRQTVIELAKRR-GIEVVERHIMPEELAGFSEC 249 (292)
T ss_pred EEECCCCc-ccccchhHHHHHHHHHHc-CCeEEEEecCHHHHhhcCce
Confidence 58999986 599999999999999999 89999999999999999973
No 27
>PRK09266 hypothetical protein; Provisional
Probab=99.34 E-value=2.5e-12 Score=76.74 Aligned_cols=45 Identities=18% Similarity=0.281 Sum_probs=42.0
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|+||+. ++|+||||+.+++++++. |++|+|+.++++||.+|||.
T Consensus 180 ~l~TP~~--~~L~GItR~~ll~~~~~~-g~~v~e~~i~~~eL~~adev 224 (266)
T PRK09266 180 AVVWPQA--PALPGVTMALLQRGLERL-GIPQRTRPVTLADLGRFAGA 224 (266)
T ss_pred EEECCCC--CccchHHHHHHHHHHHHc-CCeeEEEECCHHHHHHhhHh
Confidence 5899985 699999999999999999 89999999999999999984
No 28
>PLN02845 Branched-chain-amino-acid aminotransferase-like protein
Probab=99.27 E-value=8.1e-12 Score=77.12 Aligned_cols=46 Identities=30% Similarity=0.474 Sum_probs=41.4
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCC--C--CeEEEEecCHHHHhchhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWN--D--YKVTERKITMPDIVQLSR 48 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~--g--~~v~e~~i~~~~l~~ade 48 (51)
+|+||+++. +|+||||+.+++++++.. | ++|+|+.++++||.+|||
T Consensus 232 ~l~TP~l~~-iL~GItR~~vlela~~~~~~G~~i~V~E~~i~~~eL~~AdE 281 (336)
T PLN02845 232 ELVLPPFDK-ILSGCTARRVLELAPRLVSPGDLRGVKQRKISVEEAKAADE 281 (336)
T ss_pred EEEeCCCCC-cCccHHHHHHHHHHHhhhccCCceEEEEEecCHHHHhcCCE
Confidence 589999985 999999999999998631 6 899999999999999997
No 29
>PRK07546 hypothetical protein; Provisional
Probab=99.16 E-value=4.6e-11 Score=69.41 Aligned_cols=41 Identities=29% Similarity=0.496 Sum_probs=37.4
Q ss_pred EEE-ecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 2 EMI-TPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 2 ~~~-TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
+|| ||+++.++|+||||+.+++ ..+++|+.++++||.+|||
T Consensus 152 ~~~~TP~~~~g~L~Gi~R~~ll~------~~~v~e~~i~~~~L~~ade 193 (209)
T PRK07546 152 GMLTTPPLSCGLLPGVLRAELLD------AGRAREAVLTVDDLKSARA 193 (209)
T ss_pred EEEECCCCcCCCCccHHHHHHHh------hCCeEEEEcCHHHHhhCCE
Confidence 478 9999999999999999997 3579999999999999986
No 30
>PRK07101 hypothetical protein; Provisional
Probab=98.93 E-value=1.4e-09 Score=62.68 Aligned_cols=39 Identities=31% Similarity=0.541 Sum_probs=34.8
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
.|+||| .++|+||||+.+++ . | +|.|+.++++||.+||+
T Consensus 139 ~~~TP~--~~~L~Gi~R~~ll~----~-~-~v~e~~i~~~~L~~ad~ 177 (187)
T PRK07101 139 QWFTPK--KPLLKGTQRARLLD----E-G-KIKEKDITVEDLLQYEE 177 (187)
T ss_pred EEEcCC--CCCccHHHHHHHHc----c-C-CEEEEecCHHHHhcCCE
Confidence 589999 37999999999996 3 4 79999999999999987
No 31
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=89.88 E-value=0.73 Score=27.13 Aligned_cols=31 Identities=13% Similarity=0.200 Sum_probs=28.0
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
..+++.+++. |+++.-...|+.|+.+|-+.|
T Consensus 91 ~~v~~~~~~~-~i~~iPG~~TptEi~~A~~~G 121 (196)
T PF01081_consen 91 PEVIEYAREY-GIPYIPGVMTPTEIMQALEAG 121 (196)
T ss_dssp HHHHHHHHHH-TSEEEEEESSHHHHHHHHHTT
T ss_pred HHHHHHHHHc-CCcccCCcCCHHHHHHHHHCC
Confidence 4788899998 899999999999999998877
No 32
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=88.58 E-value=0.66 Score=27.45 Aligned_cols=31 Identities=16% Similarity=0.216 Sum_probs=28.0
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
..+++.+++. |+.+.-...|+.|+..|-+.|
T Consensus 87 ~~vi~~a~~~-~i~~iPG~~TptEi~~A~~~G 117 (201)
T PRK06015 87 QELLAAANDS-DVPLLPGAATPSEVMALREEG 117 (201)
T ss_pred HHHHHHHHHc-CCCEeCCCCCHHHHHHHHHCC
Confidence 3778889998 899999999999999998887
No 33
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=87.07 E-value=0.91 Score=27.22 Aligned_cols=30 Identities=7% Similarity=0.000 Sum_probs=27.4
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+++.+.+. |+++.-...|+.|+.+|-+.|
T Consensus 103 ~v~~~~~~~-~i~~iPG~~TpsEi~~A~~~G 132 (222)
T PRK07114 103 DIAKVCNRR-KVPYSPGCGSLSEIGYAEELG 132 (222)
T ss_pred HHHHHHHHc-CCCEeCCCCCHHHHHHHHHCC
Confidence 678888888 899999999999999998877
No 34
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=86.20 E-value=1.2 Score=26.41 Aligned_cols=30 Identities=7% Similarity=0.016 Sum_probs=27.5
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+++.+++. |+++.-...|+.|+.+|-+.|
T Consensus 92 ~v~~~~~~~-~i~~iPG~~TptEi~~A~~~G 121 (204)
T TIGR01182 92 ELAKHAQDH-GIPIIPGVATPSEIMLALELG 121 (204)
T ss_pred HHHHHHHHc-CCcEECCCCCHHHHHHHHHCC
Confidence 778889998 899999999999999998887
No 35
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=85.40 E-value=1.3 Score=26.26 Aligned_cols=30 Identities=10% Similarity=0.134 Sum_probs=26.8
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+++.+++. |+++.-...++.|+.+|.+.|
T Consensus 100 ~v~~~~~~~-~i~~iPG~~T~~E~~~A~~~G 129 (213)
T PRK06552 100 ETAKICNLY-QIPYLPGCMTVTEIVTALEAG 129 (213)
T ss_pred HHHHHHHHc-CCCEECCcCCHHHHHHHHHcC
Confidence 677888888 899999999999999998876
No 36
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=85.27 E-value=1 Score=27.07 Aligned_cols=30 Identities=7% Similarity=0.053 Sum_probs=27.0
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+++.|... |+++.-...++.|+..|-|.|
T Consensus 97 ev~~~a~~~-~ip~~PG~~TptEi~~Ale~G 126 (211)
T COG0800 97 EVAKAANRY-GIPYIPGVATPTEIMAALELG 126 (211)
T ss_pred HHHHHHHhC-CCcccCCCCCHHHHHHHHHcC
Confidence 677888888 899999999999999999887
No 37
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=82.69 E-value=2.3 Score=22.12 Aligned_cols=38 Identities=16% Similarity=0.255 Sum_probs=24.3
Q ss_pred CEEEecCCCCCCcccHHH--HHHHHHhhhCCCCeEEEEecCHH
Q psy10038 1 MEMITPTLDGLILPGITR--MSILELSHQWNDYKVTERKITMP 41 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR--~~ll~~~~~~~g~~v~e~~i~~~ 41 (51)
+++|+.+++. ..-|-. +.+..++... +++++|..|+.+
T Consensus 2 i~vY~ts~~g--~~~~k~~~~~v~~lL~~k-~I~f~eiDI~~d 41 (92)
T cd03030 2 IKVYIASSSG--STEIKKRQQEVLGFLEAK-KIEFEEVDISMN 41 (92)
T ss_pred EEEEEecccc--cHHHHHHHHHHHHHHHHC-CCceEEEecCCC
Confidence 3566665532 222222 2566788888 899999999753
No 38
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=81.80 E-value=3.4 Score=23.64 Aligned_cols=41 Identities=12% Similarity=0.074 Sum_probs=34.1
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhCC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREKR 51 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~~ 51 (51)
.+.+.|+.-+.+-.+++.. |++++....+..++.++-++|+
T Consensus 40 ~g~~~G~~~dl~~~i~~~l-g~~~~~~~~~~~~~~~~l~~g~ 80 (243)
T PRK15007 40 NNQIVGFDVDLAQALCKEI-DATCTFSNQAFDSLIPSLKFRR 80 (243)
T ss_pred CCCEEeeeHHHHHHHHHHh-CCcEEEEeCCHHHHhHHHhCCC
Confidence 4678899999999999999 8999998888888877666653
No 39
>PRK11260 cystine transporter subunit; Provisional
Probab=77.79 E-value=6.9 Score=22.94 Aligned_cols=40 Identities=13% Similarity=0.044 Sum_probs=33.7
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+-+.|+.-+.+-.++++. |++++....+..++.++=++|
T Consensus 60 ~g~~~G~~~dl~~~i~~~l-g~~~e~~~~~~~~~~~~l~~G 99 (266)
T PRK11260 60 DGKLTGFEVEFAEALAKHL-GVKASLKPTKWDGMLASLDSK 99 (266)
T ss_pred CCCEEEehHHHHHHHHHHH-CCeEEEEeCCHHHHHHHHhcC
Confidence 4568999999999999999 899999988888887766655
No 40
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=73.57 E-value=5.5 Score=23.65 Aligned_cols=30 Identities=7% Similarity=-0.019 Sum_probs=26.1
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+++.+.+. ++++.-...++.|+.+|.+.|
T Consensus 99 ~vi~~a~~~-~i~~iPG~~TptEi~~a~~~G 128 (212)
T PRK05718 99 PLLKAAQEG-PIPLIPGVSTPSELMLGMELG 128 (212)
T ss_pred HHHHHHHHc-CCCEeCCCCCHHHHHHHHHCC
Confidence 677788888 899999999999999988876
No 41
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 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 (ABC transporters; see IPR003439 from INTERPRO) 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 the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore 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 or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=73.51 E-value=5.2 Score=21.95 Aligned_cols=40 Identities=8% Similarity=0.073 Sum_probs=33.0
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+-+.|+.-+.+-.++++. |++++....+...+..+=++|
T Consensus 18 ~~~~~G~~~dl~~~i~~~~-g~~~~~~~~~~~~~~~~l~~g 57 (225)
T PF00497_consen 18 DGEPSGIDVDLLRAIAKRL-GIKIEFVPMPWSRLLEMLENG 57 (225)
T ss_dssp TSEEESHHHHHHHHHHHHH-TCEEEEEEEEGGGHHHHHHTT
T ss_pred CCCEEEEhHHHHHHHHhhc-ccccceeeccccccccccccc
Confidence 5668999999999999999 899999888777776655554
No 42
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=72.72 E-value=12 Score=21.36 Aligned_cols=41 Identities=12% Similarity=0.047 Sum_probs=34.2
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhCC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREKR 51 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~~ 51 (51)
.+-+.|+.-+.+-.++++. |++++..+.+.+++..+=++|+
T Consensus 43 ~g~~~G~~~dl~~~i~~~l-g~~~~~~~~~~~~~~~~l~~G~ 83 (250)
T TIGR01096 43 NGKLVGFDVDLAKALCKRM-KAKCKFVEQNFDGLIPSLKAKK 83 (250)
T ss_pred CCCEEeehHHHHHHHHHHh-CCeEEEEeCCHHHHHHHHhCCC
Confidence 3567899999999999999 8999999999988887766653
No 43
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=72.64 E-value=8 Score=22.33 Aligned_cols=41 Identities=12% Similarity=0.138 Sum_probs=34.0
Q ss_pred CCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 9 DGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 9 ~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
+.+-+.|+.-+.+-.+++.. |++++....+...+..+=++|
T Consensus 42 ~~g~~~G~~vdl~~~ia~~l-g~~~~~~~~~~~~~~~~l~~G 82 (247)
T PRK09495 42 QGDKYVGFDIDLWAAIAKEL-KLDYTLKPMDFSGIIPALQTK 82 (247)
T ss_pred CCCceEEEeHHHHHHHHHHh-CCceEEEeCCHHHHHHHHhCC
Confidence 34558899999999999999 899999888888887776665
No 44
>PRK06683 hypothetical protein; Provisional
Probab=72.19 E-value=11 Score=19.20 Aligned_cols=30 Identities=10% Similarity=0.161 Sum_probs=25.1
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
-+++.+.++++.. ++++.... +..+|-.|-
T Consensus 40 ~~~~~i~~~~~~~-~Vpv~~~~-t~~eLG~A~ 69 (82)
T PRK06683 40 RLTHVIIRTALQH-NIPITKVE-SVRKLGKVA 69 (82)
T ss_pred HHHHHHHHHHHhc-CCCEEEEC-CHHHHHHHh
Confidence 3788899999998 89998887 989987653
No 45
>PF03683 UPF0175: Uncharacterised protein family (UPF0175); InterPro: IPR005368 This entry contains small proteins of unknown function.
Probab=72.17 E-value=2.4 Score=21.21 Aligned_cols=29 Identities=21% Similarity=0.401 Sum_probs=23.4
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
+.|++|...++++.+. |+++ .++.+|+.+
T Consensus 43 lag~s~~eF~~~L~~~-gI~~---~~~~eel~~ 71 (76)
T PF03683_consen 43 LAGMSRWEFLELLKER-GIPI---NYDEEELEE 71 (76)
T ss_pred HhCCCHHHHHHHHHHC-CCCC---CCCHHHHHH
Confidence 5689999999999999 7883 388888754
No 46
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=70.78 E-value=11 Score=18.66 Aligned_cols=29 Identities=21% Similarity=0.224 Sum_probs=23.0
Q ss_pred cCCCCCCcccHHHHHHHHHhhhCCCCeEEE
Q psy10038 6 PTLDGLILPGITRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 6 P~l~~~~L~GitR~~ll~~~~~~~g~~v~e 35 (51)
|.+..-++.+..-+.+++.+++. |+.|.-
T Consensus 32 ~~~rGqGia~~L~~~~l~~a~~~-~~kv~p 60 (78)
T PF14542_consen 32 PELRGQGIAKKLVEAALDYAREN-GLKVVP 60 (78)
T ss_dssp CSSSTTTHHHHHHHHHHHHHHHT-T-EEEE
T ss_pred ccccCCcHHHHHHHHHHHHHHHC-CCEEEE
Confidence 55555589999999999999999 788764
No 47
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=69.35 E-value=13 Score=18.80 Aligned_cols=30 Identities=10% Similarity=0.087 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
-+++.+..+++.. ++++.... +..||-.|-
T Consensus 40 ~~~~~i~~~c~~~-~Vp~~~~~-s~~eLG~a~ 69 (82)
T PRK13602 40 RLTEKVEALANEK-GVPVSKVD-SMKKLGKAC 69 (82)
T ss_pred HHHHHHHHHHHHc-CCCEEEEC-CHHHHHHHH
Confidence 4888999999998 89998877 888887653
No 48
>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=67.67 E-value=15 Score=19.32 Aligned_cols=32 Identities=3% Similarity=-0.045 Sum_probs=26.6
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
=.++..+.+.+.+++. |++++....+..++..
T Consensus 12 SSs~la~km~~~a~~~-gi~~~i~a~~~~e~~~ 43 (99)
T cd05565 12 TSGLLANALNKGAKER-GVPLEAAAGAYGSHYD 43 (99)
T ss_pred CHHHHHHHHHHHHHHC-CCcEEEEEeeHHHHHH
Confidence 3467778888999999 8999999999888764
No 49
>PF04908 SH3BGR: SH3-binding, glutamic acid-rich protein; InterPro: IPR006993 This family of proteins, which contains SH3BGRL3, is functionally uncharacterised. SH3BGRL3 is a highly conserved small protein, which is widely expressed and shows a significant similarity to glutaredoxin 1 (GRX1) of Escherichia coli which is predicted to belong to the thioredoxin superfamily. However, SH3BGRL3 lacks both conserved cysteine residues, which characterise the enzymatic active site of GRX. This structural feature raises the possibility that SH3BGRL3 and its homologues could function as endogenous modulators of GRX activity []. ; PDB: 1SJ6_A 1U6T_A 1WRY_A 1T1V_B 1J0F_A 2CT6_A.
Probab=67.39 E-value=13 Score=19.65 Aligned_cols=40 Identities=15% Similarity=0.229 Sum_probs=22.6
Q ss_pred EEEecCCCCCCcccHHH--HHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 2 EMITPTLDGLILPGITR--MSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR--~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
++|+...+.+ .-|-. +.+..++... ++++++..|+.++..
T Consensus 4 ~vy~ss~sg~--~~ikk~q~~v~~iL~a~-kI~fe~vDIa~~e~~ 45 (99)
T PF04908_consen 4 KVYISSISGS--REIKKRQQRVLMILEAK-KIPFEEVDIAMDEEA 45 (99)
T ss_dssp EEEE-SS-SS--HHHHHHHHHHHHHHHHT-T--EEEEETTT-HHH
T ss_pred EEEEecccCC--HHHHHHHHHHHHHHHHc-CCCcEEEeCcCCHHH
Confidence 4666554331 22222 3677889988 899999999986654
No 50
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=66.14 E-value=14 Score=21.50 Aligned_cols=41 Identities=12% Similarity=-0.007 Sum_probs=33.4
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhCC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREKR 51 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~~ 51 (51)
+|-+.|+.-+.+.++++.. |++++....+.+++..+-++|+
T Consensus 45 ~g~~~G~~vdl~~~ia~~l-g~~~~~~~~~~~~~~~~l~~g~ 85 (260)
T PRK15010 45 KGDFVGFDIDLGNEMCKRM-QVKCTWVASDFDALIPSLKAKK 85 (260)
T ss_pred CCCEEeeeHHHHHHHHHHh-CCceEEEeCCHHHHHHHHHCCC
Confidence 3568899999999999999 8999988888877776666553
No 51
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=64.43 E-value=18 Score=18.47 Aligned_cols=30 Identities=20% Similarity=0.122 Sum_probs=24.5
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
=+++.+.++++.. ++++ ....+..+|-.|-
T Consensus 37 ~~~k~i~~~c~~~-~Vpv-~~~~t~~eLG~A~ 66 (82)
T PRK13601 37 HVTKKIKELCEEK-SIKI-VYIDTMKELGVMC 66 (82)
T ss_pred HHHHHHHHHHHhC-CCCE-EEeCCHHHHHHHH
Confidence 5788899999998 8999 5777888887653
No 52
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=62.68 E-value=20 Score=18.68 Aligned_cols=33 Identities=15% Similarity=0.023 Sum_probs=27.2
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
+--+++.+..+|... ++++..-..+.++|-.|-
T Consensus 43 ~~~~~~~i~~~c~~~-~Ip~~~~~~tk~eLG~a~ 75 (99)
T PRK01018 43 PKDIKEDIEYYAKLS-GIPVYEYEGSSVELGTLC 75 (99)
T ss_pred CHHHHHHHHHHHHHc-CCCEEEECCCHHHHHHHh
Confidence 457888999999998 899977777888887764
No 53
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=61.99 E-value=19 Score=20.98 Aligned_cols=41 Identities=15% Similarity=0.068 Sum_probs=34.2
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhCC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREKR 51 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~~ 51 (51)
++-+.|+.-+.+-++++++ |++++-...+.+.+..+-++|+
T Consensus 45 ~g~~~G~~vdi~~~ia~~l-g~~i~~~~~pw~~~~~~l~~g~ 85 (259)
T PRK15437 45 QGELVGFDIDLAKELCKRI-NTQCTFVENPLDALIPSLKAKK 85 (259)
T ss_pred CCCEEeeeHHHHHHHHHHc-CCceEEEeCCHHHHHHHHHCCC
Confidence 4567899999999999999 8999999999888877766663
No 54
>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=61.42 E-value=17 Score=18.72 Aligned_cols=36 Identities=14% Similarity=0.231 Sum_probs=22.4
Q ss_pred CCcccHHHH-HHHHHhhhCCCCeEE---------EEecCHHHHhchh
Q psy10038 11 LILPGITRM-SILELSHQWNDYKVT---------ERKITMPDIVQLS 47 (51)
Q Consensus 11 ~~L~GitR~-~ll~~~~~~~g~~v~---------e~~i~~~~l~~ad 47 (51)
|+-.+.+-. .+.+.+++. |+++. +..++.+++..||
T Consensus 10 G~a~s~laa~~L~~aa~~~-g~~~~ve~~~~~g~~~~l~~~~i~~Ad 55 (96)
T cd05569 10 GIAHTYMAAEALEKAAKKL-GWEIKVETQGSLGIENELTAEDIAEAD 55 (96)
T ss_pred chhHHHHHHHHHHHHHHHC-CCeEEEEEecCcCccCcCCHHHHhhCC
Confidence 344444444 455678888 89887 4456667776665
No 55
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=61.04 E-value=7.4 Score=20.61 Aligned_cols=32 Identities=16% Similarity=0.252 Sum_probs=26.3
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
.|=.-+.|++.|++. |+++.+.+.-.+.|.+-
T Consensus 30 ~G~iAe~II~~Ake~-~Vpi~edp~Lv~~L~~l 61 (92)
T COG2257 30 KGEIAEKIIEKAKEH-GVPIQEDPLLVELLLKL 61 (92)
T ss_pred chHHHHHHHHHHHHc-CCCcccCHHHHHHHHhc
Confidence 366778999999999 89999988877777653
No 56
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=60.70 E-value=23 Score=18.93 Aligned_cols=33 Identities=18% Similarity=0.018 Sum_probs=27.5
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
+.-+++.+..+|... ++++.....+-+||-.|-
T Consensus 52 ~~~~kkki~~~~~~~-~Vpv~~~~~t~~eLG~A~ 84 (108)
T PTZ00106 52 PPIRRSEIEYYAMLS-KTGVHHYAGNNNDLGTAC 84 (108)
T ss_pred CHHHHHHHHHHHhhc-CCCEEEeCCCHHHHHHHh
Confidence 567889999999998 899988778889987664
No 57
>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate.
Probab=60.17 E-value=20 Score=21.55 Aligned_cols=28 Identities=11% Similarity=0.285 Sum_probs=23.1
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
+.+++.|++. |+.|+.+.++.++|..-=
T Consensus 93 ~~lF~~A~~~-gi~V~~rsvs~~ei~~hl 120 (212)
T PF09778_consen 93 NRLFQKAKAA-GINVEKRSVSIQEIIEHL 120 (212)
T ss_pred HHHHHHHHHc-CCceEEeeccHHHHHHHH
Confidence 4566778888 899999999999997543
No 58
>PF11814 DUF3335: Peptidase_C39 like family; InterPro: IPR021770 This family of proteins are functionally uncharacterised. This family is only found in bacteria. This presumed domain is typically between 226 to 230 amino acids in length.
Probab=60.10 E-value=14 Score=22.17 Aligned_cols=28 Identities=18% Similarity=0.138 Sum_probs=23.1
Q ss_pred HHhhhCCCCeEEEEecCHHHHhchhhhCC
Q psy10038 23 ELSHQWNDYKVTERKITMPDIVQLSREKR 51 (51)
Q Consensus 23 ~~~~~~~g~~v~e~~i~~~~l~~ade~~~ 51 (51)
+-+++. |+++..++++.++|.++=.+|.
T Consensus 103 ~~a~~~-gv~~~~~~~~~~~l~~~l~~G~ 130 (207)
T PF11814_consen 103 EEAEQA-GVPVHYRPLSLADLRAALAAGA 130 (207)
T ss_pred HHHHHC-CCceecCCCCHHHHHHHHHCCC
Confidence 445566 8999999999999998877763
No 59
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=58.33 E-value=8.3 Score=17.55 Aligned_cols=21 Identities=29% Similarity=0.359 Sum_probs=16.5
Q ss_pred CCcccHHHHHHHHHhhhCCCCe
Q psy10038 11 LILPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 11 ~~L~GitR~~ll~~~~~~~g~~ 32 (51)
..+.-=||+.|++.+++. |+.
T Consensus 24 ~~vs~~tr~rI~~~a~~l-gY~ 44 (46)
T PF00356_consen 24 PRVSEETRERILEAAEEL-GYR 44 (46)
T ss_dssp SSSTHHHHHHHHHHHHHH-TB-
T ss_pred CCCCHHHHHHHHHHHHHH-CCC
Confidence 456677999999999998 664
No 60
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=58.00 E-value=27 Score=18.50 Aligned_cols=41 Identities=10% Similarity=0.060 Sum_probs=32.4
Q ss_pred CCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 9 DGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 9 ~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
..+-..|+..+.+-.+.++. |++++-...+..++.++=++|
T Consensus 17 ~~g~~~G~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~l~~g 57 (218)
T cd00134 17 ANGELTGFDVDLAKAIAKEL-GVKVKFVEVDWDGLITALKSG 57 (218)
T ss_pred CCCCEEeeeHHHHHHHHHHh-CCeEEEEeCCHHHHHHHHhcC
Confidence 34567799999998999998 799999988877776665555
No 61
>COG0034 PurF Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]
Probab=57.77 E-value=14 Score=24.86 Aligned_cols=21 Identities=24% Similarity=0.340 Sum_probs=19.6
Q ss_pred CCCCcccHHHHHHHHHhhhCC
Q psy10038 9 DGLILPGITRMSILELSHQWN 29 (51)
Q Consensus 9 ~~~~L~GitR~~ll~~~~~~~ 29 (51)
+++++.|+|.+.|++++++.|
T Consensus 355 DDSIVRGTTsr~IV~mlReAG 375 (470)
T COG0034 355 DDSIVRGTTSRRIVQMLREAG 375 (470)
T ss_pred ccccccCccHHHHHHHHHHhC
Confidence 789999999999999999983
No 62
>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=56.50 E-value=24 Score=17.95 Aligned_cols=35 Identities=14% Similarity=0.239 Sum_probs=22.2
Q ss_pred CcccHHHH-HHHHHhhhCCCCeEE---------EEecCHHHHhchh
Q psy10038 12 ILPGITRM-SILELSHQWNDYKVT---------ERKITMPDIVQLS 47 (51)
Q Consensus 12 ~L~GitR~-~ll~~~~~~~g~~v~---------e~~i~~~~l~~ad 47 (51)
+-...|-. .+-+.+++. |+++. +..++.+++..||
T Consensus 10 ~Aht~lAae~L~~aA~~~-G~~i~VE~qg~~g~~~~lt~~~i~~Ad 54 (85)
T TIGR00829 10 IAHTFMAAEALEKAAKKR-GWEVKVETQGSVGAQNALTAEDIAAAD 54 (85)
T ss_pred HHHHHHHHHHHHHHHHHC-CCeEEEEecCCcCccCCCCHHHHHhCC
Confidence 33444444 334566777 89887 5567778887776
No 63
>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=55.80 E-value=28 Score=17.96 Aligned_cols=31 Identities=3% Similarity=-0.047 Sum_probs=25.2
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.+++-+.+.+.+++. |++++....+..++.+
T Consensus 16 SS~l~~k~~~~~~~~-gi~~~v~a~~~~~~~~ 46 (95)
T TIGR00853 16 TSLLVNKMNKAAEEY-GVPVKIAAGSYGAAGE 46 (95)
T ss_pred HHHHHHHHHHHHHHC-CCcEEEEEecHHHHHh
Confidence 455667778899998 8999999999988754
No 64
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=55.33 E-value=16 Score=19.61 Aligned_cols=19 Identities=16% Similarity=0.038 Sum_probs=16.0
Q ss_pred HHHHHHHhhhCCCCeEEEEe
Q psy10038 18 RMSILELSHQWNDYKVTERK 37 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~ 37 (51)
-++|+.+|++. |++|++.+
T Consensus 69 ~~Hl~~LA~ek-gVpVe~~~ 87 (100)
T PF15608_consen 69 LAHLLLLAEEK-GVPVEVYP 87 (100)
T ss_pred HHHHHHHHHHc-CCcEEEeC
Confidence 46889999999 89999865
No 65
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=54.62 E-value=25 Score=20.64 Aligned_cols=32 Identities=9% Similarity=-0.007 Sum_probs=25.5
Q ss_pred HHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 18 RMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
-..+.+.+... |..+.-...++.|+.+|.+.|
T Consensus 93 ~~~v~~~~~~~-~~~~~~G~~t~~E~~~A~~~G 124 (206)
T PRK09140 93 DPEVIRRAVAL-GMVVMPGVATPTEAFAALRAG 124 (206)
T ss_pred CHHHHHHHHHC-CCcEEcccCCHHHHHHHHHcC
Confidence 34666777777 789888899999999888766
No 66
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=54.44 E-value=33 Score=24.50 Aligned_cols=41 Identities=17% Similarity=0.119 Sum_probs=35.8
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEec-CHHHHhchhhhCC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKI-TMPDIVQLSREKR 51 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i-~~~~l~~ade~~~ 51 (51)
+|-+.|+.-+.+-.+++.. |++++..+. +.+++..+=++|+
T Consensus 76 ~g~~~G~~~D~l~~ia~~l-G~~~e~v~~~~~~~~l~~l~~g~ 117 (1197)
T PRK09959 76 QQRVRGINADYLNLLKRAL-NIKLTLREYADHQKAMDALEEGE 117 (1197)
T ss_pred CCccceecHHHHHHHHHhc-CCceEEEeCCCHHHHHHHHHcCC
Confidence 5788999999999999999 899999987 8888888877764
No 67
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=52.68 E-value=50 Score=21.56 Aligned_cols=41 Identities=5% Similarity=0.003 Sum_probs=33.0
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEE-ecCHHHHhchhhhCC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTER-KITMPDIVQLSREKR 51 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~-~i~~~~l~~ade~~~ 51 (51)
.+...|+.-+.+.++++.. |++++.. ..+.+++..+-++|+
T Consensus 60 ~~~~~G~~~DLl~~ia~~L-Gv~~e~v~~~~~~~ll~aL~~G~ 101 (482)
T PRK10859 60 NDGPTGFEYELAKRFADYL-GVKLEIKVRDNISQLFDALDKGK 101 (482)
T ss_pred CCCcccHHHHHHHHHHHHh-CCcEEEEecCCHHHHHHHHhCCC
Confidence 3456999999999999999 8999987 446788887766664
No 68
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=52.57 E-value=14 Score=18.85 Aligned_cols=21 Identities=14% Similarity=0.262 Sum_probs=15.3
Q ss_pred cHHHHHHH---HHhhhCCCCeEEEE
Q psy10038 15 GITRMSIL---ELSHQWNDYKVTER 36 (51)
Q Consensus 15 GitR~~ll---~~~~~~~g~~v~e~ 36 (51)
|++|..|. +.+++. |++|...
T Consensus 30 giSRtaVwK~Iq~Lr~~-G~~I~s~ 53 (79)
T COG1654 30 GISRTAVWKHIQQLREE-GVDIESV 53 (79)
T ss_pred CccHHHHHHHHHHHHHh-CCceEec
Confidence 78888776 557777 7888753
No 69
>cd03045 GST_N_Delta_Epsilon GST_N family, Class Delta and Epsilon subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. The class Delta and Epsilon subfamily is made up primarily of insect GSTs, which play major roles in insecticide resistance by facilitating reductive dehydrochlorination of insecticides or conjugating them with GSH to produce water-soluble metabolites that are easily excreted. They are also implicated in protection against cellular damage by oxidative stress.
Probab=52.13 E-value=25 Score=16.31 Aligned_cols=33 Identities=3% Similarity=0.078 Sum_probs=21.0
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
|++|+.+.+.. ...+.-+++.. |++++...+.+
T Consensus 1 ~~Ly~~~~~~~------~~~v~~~l~~~-gi~~e~~~i~~ 33 (74)
T cd03045 1 IDLYYLPGSPP------CRAVLLTAKAL-GLELNLKEVNL 33 (74)
T ss_pred CEEEeCCCCCc------HHHHHHHHHHc-CCCCEEEEecC
Confidence 56777765543 22455566666 78888877754
No 70
>COG1954 GlpP Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]
Probab=49.17 E-value=32 Score=20.37 Aligned_cols=38 Identities=16% Similarity=0.307 Sum_probs=27.6
Q ss_pred CcccHHHHHHHHHhhhCCCCeEEEEec--CHHHHhchhhhC
Q psy10038 12 ILPGITRMSILELSHQWNDYKVTERKI--TMPDIVQLSREK 50 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~v~e~~i--~~~~l~~ade~~ 50 (51)
+|||||-+.+-++.++. +++|...-+ +.+|+.+|=.+|
T Consensus 127 vLPGv~Pkvi~~i~~~t-~~piIAGGLi~t~Eev~~Al~aG 166 (181)
T COG1954 127 VLPGVMPKVIKEITEKT-HIPIIAGGLIETEEEVREALKAG 166 (181)
T ss_pred EcCcccHHHHHHHHHhc-CCCEEeccccccHHHHHHHHHhC
Confidence 79999999988888887 788766443 455666665555
No 71
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=49.00 E-value=54 Score=19.84 Aligned_cols=37 Identities=11% Similarity=0.082 Sum_probs=30.5
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
|+.-+.+.+++.+++. |..+....-+.+|+..|.+.|
T Consensus 144 l~~~~l~~li~~a~~l-Gl~~lvevh~~~E~~~A~~~g 180 (260)
T PRK00278 144 LDDEQLKELLDYAHSL-GLDVLVEVHDEEELERALKLG 180 (260)
T ss_pred CCHHHHHHHHHHHHHc-CCeEEEEeCCHHHHHHHHHcC
Confidence 4445777888999999 899999999999998887665
No 72
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=48.34 E-value=48 Score=19.29 Aligned_cols=38 Identities=16% Similarity=0.031 Sum_probs=29.2
Q ss_pred cCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 6 PTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 6 P~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
||.+.---.|..-+.+-++++++ |++++..++..+.+.
T Consensus 11 pPf~~~~~~Gfdvdl~~~ia~~l-g~~~~~~~~~~~~~~ 48 (246)
T TIGR03870 11 APYSTKDGSGFENKIAAALAAAM-GRKVVFVWLAKPAIY 48 (246)
T ss_pred CCCccCCCCcchHHHHHHHHHHh-CCCeEEEEeccchhh
Confidence 66655212799999999999999 899999988866543
No 73
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=47.44 E-value=30 Score=20.80 Aligned_cols=35 Identities=11% Similarity=0.131 Sum_probs=23.3
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
++++|.++. .+.+++..- .+.+..+.+...+|..+
T Consensus 52 tVVap~i~~---------el~~l~~~~-~i~~~~r~~~~~dl~g~ 86 (223)
T PRK05562 52 YILSKKFSK---------EFLDLKKYG-NLKLIKGNYDKEFIKDK 86 (223)
T ss_pred EEEcCCCCH---------HHHHHHhCC-CEEEEeCCCChHHhCCC
Confidence 567777643 334455543 68888888888888654
No 74
>PF12995 DUF3879: Domain of unknown function, E. rectale Gene description (DUF3879); InterPro: IPR024540 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=47.30 E-value=11 Score=22.27 Aligned_cols=17 Identities=35% Similarity=0.356 Sum_probs=14.1
Q ss_pred CCCCCCcccHHHHHHHH
Q psy10038 7 TLDGLILPGITRMSILE 23 (51)
Q Consensus 7 ~l~~~~L~GitR~~ll~ 23 (51)
|+..++|+.+||+++-.
T Consensus 164 p~~~~iLD~vtres~e~ 180 (186)
T PF12995_consen 164 PFDPGILDEVTRESVEA 180 (186)
T ss_pred CCCchhHHHHHHHHHHh
Confidence 56789999999998753
No 75
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=46.81 E-value=44 Score=17.65 Aligned_cols=31 Identities=10% Similarity=0.030 Sum_probs=24.3
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
-+++.+.+-+.+++. |++++....+..++.+
T Consensus 14 TSlla~k~k~~~~e~-gi~~~i~a~~~~e~~~ 44 (104)
T PRK09590 14 SSMMAKKTTEYLKEQ-GKDIEVDAITATEGEK 44 (104)
T ss_pred HHHHHHHHHHHHHHC-CCceEEEEecHHHHHH
Confidence 345566677888888 8999999999988754
No 76
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=46.68 E-value=26 Score=17.90 Aligned_cols=29 Identities=14% Similarity=0.218 Sum_probs=23.4
Q ss_pred cHHHHHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 15 GITRMSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 15 GitR~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
|-.-+.|++.+++. |+++.+-+--...|.
T Consensus 26 g~~A~~I~~~A~e~-~VPi~~~~~LAr~L~ 54 (82)
T TIGR00789 26 GEVAERIIEIAKKH-GIPIVEDPDLVDVLL 54 (82)
T ss_pred CHHHHHHHHHHHHc-CCCEEeCHHHHHHHH
Confidence 67788999999999 899988766555555
No 77
>PHA02119 hypothetical protein
Probab=45.72 E-value=14 Score=18.86 Aligned_cols=32 Identities=16% Similarity=0.269 Sum_probs=25.0
Q ss_pred EEecCCCCCCcccHHHHHHHHHhhhCCCCeEEE
Q psy10038 3 MITPTLDGLILPGITRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 3 ~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e 35 (51)
.+|-..+..-.|||+-+-+.+.++.+ |+++..
T Consensus 41 ~f~isf~~~kfp~i~~~divdylr~l-gy~~~~ 72 (87)
T PHA02119 41 SFKISFDVAKFPAIMPKDIVDYLRSL-GYDAKS 72 (87)
T ss_pred eeEEEeccccCCccccHHHHHHHHHc-cchhcc
Confidence 44555566678999999999999999 787654
No 78
>PRK00509 argininosuccinate synthase; Provisional
Probab=45.51 E-value=8.5 Score=25.06 Aligned_cols=29 Identities=10% Similarity=0.259 Sum_probs=21.6
Q ss_pred EEEecCCCCCCcccH-HHHHHHHHhhhCCCCeEEE
Q psy10038 2 EMITPTLDGLILPGI-TRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 2 ~~~TP~l~~~~L~Gi-tR~~ll~~~~~~~g~~v~e 35 (51)
.+++|-.+ .|+ +|+.++++|++. |+++..
T Consensus 139 ~VisPlre----~~~~tK~eir~~A~~~-Gipv~~ 168 (399)
T PRK00509 139 KVIAPWRE----WDLKSREELIAYAEEH-GIPIPV 168 (399)
T ss_pred eeecchhh----cCCCCHHHHHHHHHHc-CCCCCC
Confidence 35555433 256 999999999999 899853
No 79
>PRK10474 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=45.14 E-value=31 Score=17.54 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=19.2
Q ss_pred HHHHHHhhhCCCCeEE---------EEecCHHHHhchh
Q psy10038 19 MSILELSHQWNDYKVT---------ERKITMPDIVQLS 47 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~---------e~~i~~~~l~~ad 47 (51)
+.+-+.+++. |+.+. +..++.+++..||
T Consensus 4 eaL~~aA~~~-G~~i~VEtqg~~g~~~~lt~~~i~~Ad 40 (88)
T PRK10474 4 EALESAAKAK-GWEVKVETQGSIGLENELTAEDVASAD 40 (88)
T ss_pred HHHHHHHHHC-CCeEEEEecCCcCcCCCCCHHHHHhCC
Confidence 4556677787 78877 3456677777765
No 80
>cd02423 Peptidase_C39G A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=45.14 E-value=39 Score=17.29 Aligned_cols=31 Identities=6% Similarity=0.240 Sum_probs=25.4
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.|.+...+.+.+++. |+......++.++|.+
T Consensus 43 ~~~s~~~l~~~a~~~-Gl~~~~~~~~~~~L~~ 73 (129)
T cd02423 43 EGFSMLDLKRYAEAL-GLKANGYRLNLDKLNA 73 (129)
T ss_pred CCcCHHHHHHHHHHC-CCcceEEEcCHHHHhh
Confidence 356778888999998 8999999888888764
No 81
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=44.75 E-value=7.9 Score=25.01 Aligned_cols=36 Identities=17% Similarity=0.220 Sum_probs=25.3
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEE---EecCHH
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTE---RKITMP 41 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e---~~i~~~ 41 (51)
.+++|-.+. .|.+|+.+++++++. |+++.. ++++.+
T Consensus 136 ~ViaPlre~---~~~sr~ev~~~A~~~-Gip~~~~~~~pyS~d 174 (385)
T cd01999 136 KIIAPWRDW---EFLSREEEIEYAEEH-GIPVPVTKKKPYSID 174 (385)
T ss_pred EEEcchhhh---hcCCHHHHHHHHHHc-CCCCcccCCCCCccC
Confidence 456665432 466999999999999 898864 345544
No 82
>cd02419 Peptidase_C39C A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=44.21 E-value=44 Score=17.13 Aligned_cols=31 Identities=13% Similarity=0.337 Sum_probs=25.3
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.|..-..+.+.+++. |+......++.+++.+
T Consensus 42 ~~~~~~~l~~~a~~~-Gl~~~~~~~~~~~l~~ 72 (127)
T cd02419 42 KGATLADLIDIAQQL-GLSTRALRLDLEELGQ 72 (127)
T ss_pred CCcCHHHHHHHHHHC-CCceeEEEccHHHHhh
Confidence 467777888999998 8999998888887754
No 83
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=42.25 E-value=39 Score=15.65 Aligned_cols=28 Identities=25% Similarity=0.375 Sum_probs=19.2
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
++||.......+... |+. ++++|..++.
T Consensus 10 I~Gig~~~a~~L~~~--G~~------t~~~l~~a~~ 37 (60)
T PF14520_consen 10 IPGIGPKRAEKLYEA--GIK------TLEDLANADP 37 (60)
T ss_dssp STTCHHHHHHHHHHT--TCS------SHHHHHTSHH
T ss_pred CCCCCHHHHHHHHhc--CCC------cHHHHHcCCH
Confidence 688888877666664 454 6777777654
No 84
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=41.03 E-value=34 Score=19.44 Aligned_cols=31 Identities=13% Similarity=0.219 Sum_probs=22.1
Q ss_pred CCCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 9 DGLILPGITRMSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 9 ~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
..|+|+..+|+.|++-+... ....++++++.
T Consensus 92 q~gvL~~~~RE~VIdr~mal-----~~~~i~Ld~lK 122 (155)
T PF04361_consen 92 QAGVLDPEQREMVIDRAMAL-----DSDEISLDDLK 122 (155)
T ss_pred HcCCCCHHHHHHHHHHHHhC-----CCCCCCHHHHH
Confidence 35789999999999877654 23556666653
No 85
>PF07377 DUF1493: Protein of unknown function (DUF1493); InterPro: IPR010862 This family consists of several bacterial proteins of around 115 residues in length. Members of this family are largely found in Salmonella and Yersinia species and several have been described as being putative cytoplasmic proteins. The function of this family is unknown.
Probab=40.93 E-value=16 Score=19.31 Aligned_cols=16 Identities=13% Similarity=0.362 Sum_probs=14.7
Q ss_pred EecCHHHHhchhhhCC
Q psy10038 36 RKITMPDIVQLSREKR 51 (51)
Q Consensus 36 ~~i~~~~l~~ade~~~ 51 (51)
+++|+.+|..|-++|+
T Consensus 92 ~PLTv~ML~esakaGr 107 (111)
T PF07377_consen 92 KPLTVGMLIESAKAGR 107 (111)
T ss_pred CCCcHHHHHHHHHcCC
Confidence 6999999999999986
No 86
>cd03059 GST_N_SspA GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival during nutrient starvation. SspA adopts the GST fold with an N-terminal TRX-fold domain and a C-terminal alpha helical domain, but it does not bind glutathione (GSH) and lacks GST activity. SspA is highly conserved among gram-negative bacteria. Related proteins found in Neisseria (called RegF), Francisella and Vibrio regulate the expression of virulence factors necessary for pathogenesis.
Probab=40.60 E-value=41 Score=15.45 Aligned_cols=33 Identities=9% Similarity=-0.059 Sum_probs=20.9
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
|++|+-+.+. -.+.+.-+++.. |+++++..+..
T Consensus 1 ~~ly~~~~~~------~~~~v~~~l~~~-gi~~~~~~v~~ 33 (73)
T cd03059 1 MTLYSGPDDV------YSHRVRIVLAEK-GVSVEIIDVDP 33 (73)
T ss_pred CEEEECCCCh------hHHHHHHHHHHc-CCccEEEEcCC
Confidence 5677654332 234555567777 89998887764
No 87
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=40.25 E-value=50 Score=19.33 Aligned_cols=28 Identities=4% Similarity=0.049 Sum_probs=23.2
Q ss_pred HHHHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 18 RMSILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
++.+.++++.. ++++.+.+..+++..++
T Consensus 44 ~~~~~~~~~~~-~i~~i~~~Y~~~~w~~~ 71 (176)
T PF02677_consen 44 LEELKRFAEKL-GIPLIEGDYDPEEWLRA 71 (176)
T ss_pred HHHHHHHHHHc-CCCEEecCCCHHHHHHH
Confidence 45777889998 89999999999888654
No 88
>cd02425 Peptidase_C39F A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=39.96 E-value=51 Score=16.76 Aligned_cols=31 Identities=16% Similarity=0.360 Sum_probs=24.4
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCH-HHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITM-PDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~-~~l~~ 45 (51)
.|.+-..+.+.+++. |+......++. +.+.+
T Consensus 42 ~~~~~~~l~~~a~~~-gl~~~~~~~~~~~~l~~ 73 (126)
T cd02425 42 DGLSLSYLKQLLEEY-GFKCKVYKISFKKNLYP 73 (126)
T ss_pred CCcCHHHHHHHHHHC-CCcceEEEEchHHHHhh
Confidence 366777888889988 89998888888 66654
No 89
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=39.63 E-value=90 Score=19.14 Aligned_cols=38 Identities=16% Similarity=0.138 Sum_probs=30.0
Q ss_pred CcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 12 ILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
+|.--.-..+++.++++ |+++-.+.-+.+|+..|-+.|
T Consensus 141 ~L~~~~l~~l~~~a~~l-Gle~lVEVh~~~El~~al~~~ 178 (254)
T PF00218_consen 141 ILSDDQLEELLELAHSL-GLEALVEVHNEEELERALEAG 178 (254)
T ss_dssp GSGHHHHHHHHHHHHHT-T-EEEEEESSHHHHHHHHHTT
T ss_pred hCCHHHHHHHHHHHHHc-CCCeEEEECCHHHHHHHHHcC
Confidence 34444557888999999 899999999999999887655
No 90
>cd02420 Peptidase_C39D A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=39.45 E-value=44 Score=17.13 Aligned_cols=31 Identities=10% Similarity=0.230 Sum_probs=24.4
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.|.+-..+.+.+++. |+......++.++|.+
T Consensus 42 ~~~~~~~l~~~a~~~-Gl~~~~~~~~~~~L~~ 72 (125)
T cd02420 42 DGSNASNLLKAAREY-GLTAKGYKKDLEALRE 72 (125)
T ss_pred CCCCHHHHHHHHHHc-CcccceEecCHHHHhc
Confidence 355667788899998 8999888888887754
No 91
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=39.39 E-value=60 Score=17.04 Aligned_cols=40 Identities=10% Similarity=0.110 Sum_probs=31.0
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+...|+.-+.+-.+.++. |++++....+..++.++=.+|
T Consensus 19 ~g~~~G~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~l~~g 58 (219)
T smart00062 19 DGELTGFDVDLAKAIAKEL-GLKVEFVEVSFDNLLTALKSG 58 (219)
T ss_pred CCCcccchHHHHHHHHHHh-CCeEEEEeccHHHHHHHHHCC
Confidence 4457788888888888888 899999888777776665554
No 92
>PRK10427 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=39.33 E-value=58 Score=17.51 Aligned_cols=35 Identities=17% Similarity=0.196 Sum_probs=21.5
Q ss_pred CcccHHHH-HHHHHhhhCCCCeEE---------EEecCHHHHhchh
Q psy10038 12 ILPGITRM-SILELSHQWNDYKVT---------ERKITMPDIVQLS 47 (51)
Q Consensus 12 ~L~GitR~-~ll~~~~~~~g~~v~---------e~~i~~~~l~~ad 47 (51)
+-...+-. .+-+.+++. |+.+. +..++.+++..||
T Consensus 15 iAht~lAAeaL~kAA~~~-G~~i~VE~qg~~g~~~~lt~~~i~~Ad 59 (114)
T PRK10427 15 VAHTYMAAERLEKLCQLE-KWGVKIETQGALGTENRLTDEDIRRAD 59 (114)
T ss_pred HHHHHHHHHHHHHHHHHC-CCeEEEEecCCcCcCCCCCHHHHHhCC
Confidence 33344433 444567777 88887 4456677777765
No 93
>cd02417 Peptidase_C39_likeA A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this
Probab=39.26 E-value=52 Score=16.69 Aligned_cols=31 Identities=6% Similarity=0.114 Sum_probs=24.5
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.|.+-..+.+.++.. |+......++.++|.+
T Consensus 37 ~~~~~~~l~~~a~~~-Gl~~~~~~~~~~~l~~ 67 (121)
T cd02417 37 EPFNSTELLLAAKSL-GLKAKAVRQPVERLAR 67 (121)
T ss_pred CCCCHHHHHHHHHHc-CCeeEEEecCHHHhcc
Confidence 355667788888988 8999999888887754
No 94
>KOG3218|consensus
Probab=38.82 E-value=27 Score=21.07 Aligned_cols=27 Identities=22% Similarity=0.434 Sum_probs=20.2
Q ss_pred HHHHHHHHhhhCCCCeEE--EEecCHHHHh
Q psy10038 17 TRMSILELSHQWNDYKVT--ERKITMPDIV 44 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~--e~~i~~~~l~ 44 (51)
.|+.+++.+++. |+.|. +-..++++..
T Consensus 15 ar~T~~qMlrDR-GY~vt~~el~ltLe~F~ 43 (208)
T KOG3218|consen 15 ARKTAMQMLRDR-GYTVTQEELDLTLEEFK 43 (208)
T ss_pred HHHHHHHHHHhc-CccccHHHhhhhHHHHH
Confidence 478899999999 89998 4455555543
No 95
>cd02259 Peptidase_C39_like Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in all sub-families.
Probab=38.59 E-value=56 Score=16.42 Aligned_cols=30 Identities=10% Similarity=0.336 Sum_probs=23.6
Q ss_pred cHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 15 GITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 15 GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
|.+-..+.++++.. |+.+.....+.+++.+
T Consensus 38 ~~~~~~l~~~a~~~-gl~~~~~~~~~~~l~~ 67 (122)
T cd02259 38 GLSLADLVSLANKL-GLTAQGVKLPLAALSR 67 (122)
T ss_pred CCCHHHHHHHHHHc-CCeeeEEEcCHHHhcc
Confidence 45566788888988 8999998888877754
No 96
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=38.01 E-value=56 Score=18.16 Aligned_cols=28 Identities=14% Similarity=0.283 Sum_probs=21.1
Q ss_pred HHHHHHhhhCCCCeEE---------EEecCHHHHhchh
Q psy10038 19 MSILELSHQWNDYKVT---------ERKITMPDIVQLS 47 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~---------e~~i~~~~l~~ad 47 (51)
+.|-..++++ |+.|. +-.++.+|+.+||
T Consensus 22 eaLe~~A~~~-g~~IKVETqGs~G~eN~LT~edI~~Ad 58 (122)
T COG1445 22 EALEKAAKKL-GVEIKVETQGAVGIENRLTAEDIAAAD 58 (122)
T ss_pred HHHHHHHHHc-CCeEEEEcCCcccccCcCCHHHHHhCC
Confidence 4566678888 88874 4578899998886
No 97
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=37.61 E-value=78 Score=17.81 Aligned_cols=34 Identities=6% Similarity=-0.072 Sum_probs=26.1
Q ss_pred ecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecC
Q psy10038 5 TPTLDGLILPGITRMSILELSHQWNDYKVTERKIT 39 (51)
Q Consensus 5 TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~ 39 (51)
.||.+.+-..|+.-+.+-+++++. |++++-...+
T Consensus 10 ~~P~~~~~~~G~~~el~~~i~~~~-g~~i~~~~~~ 43 (232)
T TIGR03871 10 NLPFSNEKGEGFENKIAQLLADDL-GLPLEYTWFP 43 (232)
T ss_pred CCCccCCCCCchHHHHHHHHHHHc-CCceEEEecC
Confidence 367776656899999888899998 8998776443
No 98
>PRK03430 hypothetical protein; Validated
Probab=37.21 E-value=35 Score=19.59 Aligned_cols=29 Identities=14% Similarity=0.132 Sum_probs=19.7
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEEEEecCHHHH
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVTERKITMPDI 43 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l 43 (51)
.++|+..+|+.|++-+-.. ....+++++|
T Consensus 95 ~gvL~~~~RE~VIdR~MaL-----~~~~i~Ld~l 123 (157)
T PRK03430 95 IQVLNLETREMVIDRVMAL-----DTAEFDLEDL 123 (157)
T ss_pred cCCCCHHHHHHHHHHHHcC-----CCCCCCHhHh
Confidence 5789999999999876554 2334555544
No 99
>PF01890 CbiG_C: Cobalamin synthesis G C-terminus; InterPro: IPR002750 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CbiG proteins are specific for anaerobic cobalamin biosynthesis. CbiG, which shows homology with CobE of the aerobic pathway, participates in the conversion of cobalt-precorrin 5 into cobalt-precorrin 6 []. CbiG is responsible for the opening of the delta-lactone ring and extrusion of the C2-unit []. The aerobic pathway uses molecular oxygen to trigger the events at C-20 leading to contraction and expulsion of the C2-unit as acetic acid from a metal-free intermediate, whereas the anaerobic route involves the internal delivery of oxygen from a carboxylic acid terminus to C-20 followed by extrusion of the C2-unit as acetaldehyde, using cobalt complexes as substrates []. This entry represents the core domain of CibG.; GO: 0009236 cobalamin biosynthetic process; PDB: 3BY5_A 2W6K_A 2W6L_A 3EEQ_B.
Probab=36.87 E-value=70 Score=17.18 Aligned_cols=25 Identities=12% Similarity=0.279 Sum_probs=17.1
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
-++++++++ |+++. .++.++|...+
T Consensus 49 ~l~~~A~~l-~~~~~--~~~~eeL~~~~ 73 (121)
T PF01890_consen 49 GLLELAEEL-GIPLR--FFSAEELNAVE 73 (121)
T ss_dssp HHHHHHHHC-TSEEE--EE-HHHHHCHH
T ss_pred HHHHHHHHh-CCCeE--EECHHHHhcCC
Confidence 577888887 66655 48888887644
No 100
>cd02424 Peptidase_C39E A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family, which contains Colicin V perocessing peptidase.
Probab=36.41 E-value=67 Score=16.74 Aligned_cols=32 Identities=9% Similarity=0.295 Sum_probs=26.0
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
.|++...+.+.+++. |+......++.++|.+.
T Consensus 43 ~g~s~~~l~~~a~~~-Gl~~k~~~~~~~~l~~~ 74 (129)
T cd02424 43 NGLSIYDLENLAKKF-GLETESYQGSFLEFLEL 74 (129)
T ss_pred CCccHHHHHHHHHHc-CCceeEEEcCHHHHhhc
Confidence 478888999999998 89988888888777543
No 101
>KOG0142|consensus
Probab=35.95 E-value=42 Score=20.46 Aligned_cols=29 Identities=14% Similarity=0.213 Sum_probs=22.6
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
.-||-|....++-.++ |++.++ ++++++.
T Consensus 102 ~lGVr~AAqRkL~~EL-GIp~e~--v~pee~~ 130 (225)
T KOG0142|consen 102 ALGVRRAAQRKLKAEL-GIPLEE--VPPEEFN 130 (225)
T ss_pred hHHHHHHHHHHHHHhh-CCCccc--cCHHHcc
Confidence 3499999999998898 888877 5576663
No 102
>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=35.47 E-value=67 Score=16.42 Aligned_cols=33 Identities=3% Similarity=0.004 Sum_probs=26.2
Q ss_pred CCcccHHHHHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 11 LILPGITRMSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 11 ~~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
|+=.+++-+.+.+.+++. |++++....+..++.
T Consensus 9 G~sTS~~~~ki~~~~~~~-~~~~~v~~~~~~~~~ 41 (96)
T cd05564 9 GMSTSILVKKMKKAAEKR-GIDAEIEAVPESELE 41 (96)
T ss_pred CchHHHHHHHHHHHHHHC-CCceEEEEecHHHHH
Confidence 344466777888999998 899999999988875
No 103
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=34.91 E-value=68 Score=16.38 Aligned_cols=31 Identities=16% Similarity=0.129 Sum_probs=24.3
Q ss_pred ccHH-HHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGIT-RMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~Git-R~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
-+.+ ...+-+.+++. |++++....++.++..
T Consensus 15 TS~m~~~ki~~~l~~~-gi~~~v~~~~~~e~~~ 46 (94)
T PRK10310 15 TSTMAAEEIKELCQSH-NIPVELIQCRVNEIET 46 (94)
T ss_pred HHHHHHHHHHHHHHHC-CCeEEEEEecHHHHhh
Confidence 4555 67788899998 8999888888887753
No 104
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=34.86 E-value=30 Score=16.41 Aligned_cols=33 Identities=9% Similarity=0.149 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
...+.+-....+. |-.+.-.-+-.+++++|+|+
T Consensus 8 miqkaih~tydel-gkei~~~g~~~d~i~kaqee 40 (58)
T PF13060_consen 8 MIQKAIHRTYDEL-GKEIDLQGVIADEIQKAQEE 40 (58)
T ss_pred HHHHHHHHhHHHH-hHHhhhcchHHHHHHHHHHH
Confidence 3344555555566 66677777778888888764
No 105
>cd02421 Peptidase_C39_likeD A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this sub-family.
Probab=34.06 E-value=44 Score=17.08 Aligned_cols=31 Identities=3% Similarity=-0.054 Sum_probs=24.6
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.+.+...+.+.++.. |+.+....++...|.+
T Consensus 37 ~~~~~~~l~~~a~~~-Gl~~~~~~~~~~~l~~ 67 (124)
T cd02421 37 GRLSPALFPRAAARA-GLSARVVRRPLDAIPT 67 (124)
T ss_pred CCcCHHHHHHHHHHC-CCcceeeeCCHHHCCc
Confidence 357778888999988 8999888888776643
No 106
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=33.90 E-value=18 Score=17.11 Aligned_cols=22 Identities=23% Similarity=0.362 Sum_probs=15.4
Q ss_pred CCcccHHHHHHHHHhhhCCCCeE
Q psy10038 11 LILPGITRMSILELSHQWNDYKV 33 (51)
Q Consensus 11 ~~L~GitR~~ll~~~~~~~g~~v 33 (51)
.+|.|-+|+.|+.-++.- ++.|
T Consensus 18 ~VLqgksR~vIirELqrT-nLdV 39 (53)
T PF11547_consen 18 VVLQGKSRNVIIRELQRT-NLDV 39 (53)
T ss_dssp HHSTTS-HHHHHHHHHHT-TT-H
T ss_pred HHHcCCcHHHHHHHHHHh-cccH
Confidence 368899999999877765 5654
No 107
>PRK13820 argininosuccinate synthase; Provisional
Probab=32.49 E-value=17 Score=23.63 Aligned_cols=21 Identities=19% Similarity=0.110 Sum_probs=17.8
Q ss_pred ccHHHHHHHHHhhhCCCCeEEE
Q psy10038 14 PGITRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e 35 (51)
-+++|+.++++|++. |+++..
T Consensus 145 ~~ltK~ei~~ya~~~-gip~~~ 165 (394)
T PRK13820 145 LNLTREWEIEYAKEK-GIPVPV 165 (394)
T ss_pred cCCCHHHHHHHHHHc-CCCCCc
Confidence 355999999999999 898864
No 108
>COG2410 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=32.34 E-value=72 Score=18.84 Aligned_cols=32 Identities=19% Similarity=0.023 Sum_probs=22.8
Q ss_pred CCCCcccHHHH--HHHHHhhhCCCCeEEEEecCHH
Q psy10038 9 DGLILPGITRM--SILELSHQWNDYKVTERKITMP 41 (51)
Q Consensus 9 ~~~~L~GitR~--~ll~~~~~~~g~~v~e~~i~~~ 41 (51)
+..+..+.+|. +|.+.+... |++|.|.+-+-.
T Consensus 78 ~~pgMr~Ls~Rg~~i~r~l~~~-gv~ViEthP~aa 111 (178)
T COG2410 78 TFPGMRELSRRGMSIARLLESE-GVPVIETHPRAA 111 (178)
T ss_pred CchhHHHHHHHHHHHHHHHHhc-CCeEEEecchHH
Confidence 44456667766 566888888 899999765554
No 109
>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=31.45 E-value=1.3e+02 Score=19.26 Aligned_cols=33 Identities=0% Similarity=-0.160 Sum_probs=24.2
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
+-+.+.+.+++. |++|+...++..++.+....|
T Consensus 350 ~a~~i~~~l~~~-Gi~v~~~~~~~~~~~~~~~~~ 382 (488)
T cd08489 350 IAEYLQSELKKI-GIDLNIIGEEEQAYYDRQKDG 382 (488)
T ss_pred HHHHHHHHHHHc-CcEEEEeeccHHHHHhHhhCC
Confidence 334556778888 899999999988887654443
No 110
>cd00452 KDPG_aldolase KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.
Probab=31.31 E-value=64 Score=18.33 Aligned_cols=31 Identities=10% Similarity=0.030 Sum_probs=24.1
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
..+.+.++.. +..+.-..-+++|+.+|.+.|
T Consensus 87 ~~~~~~~~~~-~~~~i~gv~t~~e~~~A~~~G 117 (190)
T cd00452 87 PEVVKAANRA-GIPLLPGVATPTEIMQALELG 117 (190)
T ss_pred HHHHHHHHHc-CCcEECCcCCHHHHHHHHHCC
Confidence 3567777777 788777777999998888776
No 111
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=31.23 E-value=33 Score=16.81 Aligned_cols=15 Identities=33% Similarity=0.410 Sum_probs=9.1
Q ss_pred ccHHHHHHHHHhhhC
Q psy10038 14 PGITRMSILELSHQW 28 (51)
Q Consensus 14 ~GitR~~ll~~~~~~ 28 (51)
-||||..+...++++
T Consensus 14 ~GiTRSvIVNALRKl 28 (61)
T PF08222_consen 14 VGITRSVIVNALRKL 28 (61)
T ss_dssp HT--HHHHHHHHHHH
T ss_pred hCccHHHHHHHHHHH
Confidence 389998888766543
No 112
>PRK10222 PTS system L-ascorbate-specific transporter subunit IIB; Provisional
Probab=31.10 E-value=73 Score=16.08 Aligned_cols=28 Identities=14% Similarity=0.134 Sum_probs=20.2
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
+++..+-++++++ |+++......+.++.
T Consensus 2 mlkmkIk~~L~e~-Gi~~~ve~~diss~~ 29 (85)
T PRK10222 2 IMKMKVDQFLTQS-NIDHTVNSCAVGEYK 29 (85)
T ss_pred ccHHHHHHHHHHc-CCCeEEEEeehhhcc
Confidence 3466778889998 898777666665553
No 113
>PF07037 DUF1323: Putative transcription regulator (DUF1323); InterPro: IPR010749 This family consists of several hypothetical Enterobacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=31.09 E-value=35 Score=18.96 Aligned_cols=21 Identities=24% Similarity=0.343 Sum_probs=17.7
Q ss_pred cccHHHHHHHHHhhhCCCCeEE
Q psy10038 13 LPGITRMSILELSHQWNDYKVT 34 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~ 34 (51)
+-|+.|+.|-.+.++. ||.-+
T Consensus 9 ~tG~srQTINrWvRke-gW~T~ 29 (122)
T PF07037_consen 9 LTGYSRQTINRWVRKE-GWKTE 29 (122)
T ss_pred HhCccHHHHHHHHHhc-Cceec
Confidence 4699999999999998 77754
No 114
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=30.98 E-value=60 Score=14.56 Aligned_cols=22 Identities=9% Similarity=0.034 Sum_probs=17.2
Q ss_pred HHHHHhhhCCCCeEEEEecCHHH
Q psy10038 20 SILELSHQWNDYKVTERKITMPD 42 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~ 42 (51)
.+.+++++. |+++++..+..++
T Consensus 14 ~~~~~L~~~-~i~y~~~dv~~~~ 35 (60)
T PF00462_consen 14 KAKEFLDEK-GIPYEEVDVDEDE 35 (60)
T ss_dssp HHHHHHHHT-TBEEEEEEGGGSH
T ss_pred HHHHHHHHc-CCeeeEcccccch
Confidence 455677888 8999999988863
No 115
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=30.91 E-value=75 Score=15.60 Aligned_cols=24 Identities=8% Similarity=-0.018 Sum_probs=16.4
Q ss_pred CCcccHHHHHHHHHhhhCCCCeEEE
Q psy10038 11 LILPGITRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 11 ~~L~GitR~~ll~~~~~~~g~~v~e 35 (51)
+-..+++-+.++.++... |.+++.
T Consensus 54 g~~~~~sl~~L~~~l~aL-G~~v~i 77 (80)
T PF13744_consen 54 GKIDDFSLDTLLRYLEAL-GGRVEI 77 (80)
T ss_dssp T-GCC--HHHHHHHHHHT-TEEEEE
T ss_pred CcccCCCHHHHHHHHHHc-CCeEEE
Confidence 446678888899999888 777764
No 116
>KOG0572|consensus
Probab=30.69 E-value=54 Score=21.98 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=19.4
Q ss_pred CCCCcccHHHHHHHHHhhhCC
Q psy10038 9 DGLILPGITRMSILELSHQWN 29 (51)
Q Consensus 9 ~~~~L~GitR~~ll~~~~~~~ 29 (51)
+++|+.|.|...|++++++.|
T Consensus 363 DDSIVRGtTs~~IVkmlreaG 383 (474)
T KOG0572|consen 363 DDSIVRGTTSSPIVKMLREAG 383 (474)
T ss_pred ecceeccCchHHHHHHHHHcC
Confidence 788999999999999999983
No 117
>cd03051 GST_N_GTT2_like GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. GTT2, a homodimer, exhibits GST activity with standard substrates. Strains with deleted GTT2 genes are viable but exhibit increased sensitivity to heat shock.
Probab=30.27 E-value=64 Score=14.61 Aligned_cols=33 Identities=6% Similarity=-0.005 Sum_probs=18.8
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
|++|+-+.+.. -..+.-++... |++++...+..
T Consensus 1 ~~Ly~~~~s~~------~~~~~~~L~~~-~l~~~~~~v~~ 33 (74)
T cd03051 1 MKLYDSPTAPN------PRRVRIFLAEK-GIDVPLVTVDL 33 (74)
T ss_pred CEEEeCCCCcc------hHHHHHHHHHc-CCCceEEEeec
Confidence 46777654432 22344456666 78877766654
No 118
>KOG2708|consensus
Probab=30.12 E-value=25 Score=22.14 Aligned_cols=17 Identities=35% Similarity=0.329 Sum_probs=12.4
Q ss_pred EEecCCCCCCcccHHHHH
Q psy10038 3 MITPTLDGLILPGITRMS 20 (51)
Q Consensus 3 ~~TP~l~~~~L~GitR~~ 20 (51)
.+||| ..|.||+=|-++
T Consensus 32 YitPP-G~GFlP~~TA~H 48 (336)
T KOG2708|consen 32 YITPP-GEGFLPRDTARH 48 (336)
T ss_pred ccCCC-CCCCCcchhHHH
Confidence 45777 788999887554
No 119
>PRK07283 hypothetical protein; Provisional
Probab=29.92 E-value=89 Score=16.14 Aligned_cols=29 Identities=7% Similarity=0.127 Sum_probs=21.6
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
+++.+.+.+... ++++... .+.++|-.|-
T Consensus 48 ~~kk~~~~~~~~-~Vp~~~~-~t~~eLG~a~ 76 (98)
T PRK07283 48 LTKKVTDKSNYY-QVEVSTV-FSTLELSAAV 76 (98)
T ss_pred HHHHHHHHHHHc-CCCEEEe-CCHHHHHHHh
Confidence 577777888887 7998655 4888887653
No 120
>cd02418 Peptidase_C39B A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=29.90 E-value=80 Score=16.24 Aligned_cols=30 Identities=10% Similarity=0.323 Sum_probs=23.5
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEEecCHH--HHh
Q psy10038 14 PGITRMSILELSHQWNDYKVTERKITMP--DIV 44 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~~i~~~--~l~ 44 (51)
.|.....+.+.++.. |+......++.+ +|.
T Consensus 42 ~~~~~~~l~~~a~~~-Gl~~~~~~~~~~~~~l~ 73 (136)
T cd02418 42 EGTSLLGLVKAAEKL-GFETRAVKADMDLFELK 73 (136)
T ss_pred CCcCHHHHHHHHHHC-CCeeEEEEcccchhhHh
Confidence 467777888899998 899988888776 553
No 121
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=29.44 E-value=63 Score=19.40 Aligned_cols=24 Identities=25% Similarity=0.106 Sum_probs=18.6
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEE
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVT 34 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~ 34 (51)
.-.++|=.|+.+.++++++ |++|.
T Consensus 189 ~K~l~~~~r~~i~~~l~~~-gi~v~ 212 (213)
T PF04414_consen 189 WKSLKSEDRRRIEELLEEL-GIEVI 212 (213)
T ss_dssp TTTS-HHHHHHHHHHHHHH-T-EEE
T ss_pred cCCCCHHHHHHHHHHHHHc-CCeee
Confidence 3468889999999999999 78875
No 122
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=28.97 E-value=97 Score=16.31 Aligned_cols=29 Identities=3% Similarity=0.110 Sum_probs=22.2
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
+++.+.+.++.. ++++... .+-++|-.|-
T Consensus 47 ~kkki~~~~~~~-~vp~~~~-~t~~eLg~a~ 75 (104)
T PRK05583 47 SKNKFKNYCNKY-NIPYIEG-YSKEELGNAI 75 (104)
T ss_pred HHHHHHHHHHHc-CCCEEEe-cCHHHHHHHh
Confidence 577888888887 7888766 7888887653
No 123
>PHA02757 hypothetical protein; Provisional
Probab=28.87 E-value=53 Score=16.47 Aligned_cols=29 Identities=17% Similarity=0.058 Sum_probs=20.7
Q ss_pred cCCCCCCcccHHHHHHHHHhhhCCCCeEEE
Q psy10038 6 PTLDGLILPGITRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 6 P~l~~~~L~GitR~~ll~~~~~~~g~~v~e 35 (51)
||.+..+--||+...+.+++... -.-+.|
T Consensus 23 gpfDFni~C~v~Qe~~~eildkd-K~CiiE 51 (75)
T PHA02757 23 GPFDFNIACGVDQEKANEILDKD-KACIIE 51 (75)
T ss_pred CCccEEEEcCccHHHHHHHhccc-ceEEEE
Confidence 45667788899999998888765 344444
No 124
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=28.84 E-value=1.3e+02 Score=17.70 Aligned_cols=40 Identities=5% Similarity=-0.055 Sum_probs=30.7
Q ss_pred CCCcccHHHHHHHHHhhhCCCCe-EEEEecCHHHHhchhhhC
Q psy10038 10 GLILPGITRMSILELSHQWNDYK-VTERKITMPDIVQLSREK 50 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~-v~e~~i~~~~l~~ade~~ 50 (51)
++-+.|..-+.+-++++.. |+. +.....+.+++..+-+.|
T Consensus 51 ~g~~~G~~~dl~~~i~~~l-g~~~~~~~~~~w~~~~~~l~~G 91 (275)
T TIGR02995 51 DGKVSGAAPDVARAIFKRL-GIADVNASITEYGALIPGLQAG 91 (275)
T ss_pred CCceecchHHHHHHHHHHh-CCCceeeccCCHHHHHHHHHCC
Confidence 3557799999999999998 886 677777877776665555
No 125
>cd03042 GST_N_Zeta GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. Class Zeta GSTs, also known as maleylacetoacetate (MAA) isomerases, catalyze the isomerization of MAA to fumarylacetoacetate, the penultimate step in tyrosine/phenylalanine catabolism, using GSH as a cofactor. They show little GSH-conjugating activity towards traditional GST substrates but display modest GSH peroxidase activity. They are also implicated in the detoxification of the carcinogen dichloroacetic acid by catalyzing its dechlorination to glyoxylic acid.
Probab=28.75 E-value=70 Score=14.56 Aligned_cols=33 Identities=3% Similarity=-0.129 Sum_probs=18.9
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
|++|+.+.+.++. .+.-++... |++++...+..
T Consensus 1 ~~L~~~~~~~~~~------~~~~~l~~~-gi~~~~~~~~~ 33 (73)
T cd03042 1 MILYSYFRSSASY------RVRIALNLK-GLDYEYVPVNL 33 (73)
T ss_pred CEEecCCCCcchH------HHHHHHHHc-CCCCeEEEecC
Confidence 4566554443321 334455666 78888877754
No 126
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=28.58 E-value=71 Score=21.39 Aligned_cols=35 Identities=9% Similarity=0.141 Sum_probs=22.6
Q ss_pred CcccHHHH-HHHHHhhhCCCCeEE---------EEecCHHHHhchh
Q psy10038 12 ILPGITRM-SILELSHQWNDYKVT---------ERKITMPDIVQLS 47 (51)
Q Consensus 12 ~L~GitR~-~ll~~~~~~~g~~v~---------e~~i~~~~l~~ad 47 (51)
+-+..+-. .+-+.+++. |+++. +..++.+|+.+||
T Consensus 16 iAht~mAaeaL~~aA~~~-G~~i~VEtqg~~g~~~~lt~~~i~~Ad 60 (482)
T PRK11404 16 IAHTYMVAEALEQKARSL-GHTIKVETQGSSGVENRLSSEEIAAAD 60 (482)
T ss_pred HHHHHHHHHHHHHHHHHC-CCeEEEEecCCccCCCCCCHHHHHhCC
Confidence 33444433 444567777 89887 4567778888776
No 127
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=28.40 E-value=45 Score=19.57 Aligned_cols=19 Identities=16% Similarity=0.202 Sum_probs=14.6
Q ss_pred cccHHHHHHHHHhhhCCCCe
Q psy10038 13 LPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~ 32 (51)
+.==||+.|++.++++ |+.
T Consensus 4 Vs~~Tr~rV~~~a~el-gY~ 22 (309)
T PRK11041 4 VSQATRQRVEQAVLEV-GYS 22 (309)
T ss_pred CCHHHHHHHHHHHHHH-CCC
Confidence 3345899999999998 664
No 128
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=28.28 E-value=61 Score=13.76 Aligned_cols=27 Identities=11% Similarity=0.137 Sum_probs=16.1
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
..+.+.+.+. |+++....-+.++|.+.
T Consensus 7 ~~L~~wL~~~-gi~~~~~~~~rd~Ll~~ 33 (38)
T PF10281_consen 7 SDLKSWLKSH-GIPVPKSAKTRDELLKL 33 (38)
T ss_pred HHHHHHHHHc-CCCCCCCCCCHHHHHHH
Confidence 3455666666 66666665566666543
No 129
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=28.03 E-value=57 Score=15.56 Aligned_cols=19 Identities=21% Similarity=0.214 Sum_probs=14.9
Q ss_pred ccHHHHHHHHHhhhCCCCeE
Q psy10038 14 PGITRMSILELSHQWNDYKV 33 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v 33 (51)
.=-+|+.|.+.+++. |+..
T Consensus 28 ~~~t~~~i~~~~~~~-gy~~ 46 (70)
T smart00354 28 SEETREKVLAAMEEL-GYIP 46 (70)
T ss_pred CHHHHHHHHHHHHHh-CCCC
Confidence 345899999999999 7753
No 130
>cd08516 PBP2_NikA_DppA_OppA_like_11 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=28.03 E-value=1.6e+02 Score=18.51 Aligned_cols=33 Identities=9% Similarity=-0.063 Sum_probs=23.5
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
+-+.+.+.+++. |++|+.+.+...++.+....|
T Consensus 334 ~a~~i~~~l~~~-Gi~v~~~~~~~~~~~~~~~~~ 366 (457)
T cd08516 334 TAQVIQAQLAAI-GINVEIELVEWATWLDDVNKG 366 (457)
T ss_pred HHHHHHHHHHHc-CceEEEEEecHHHHHHHHhCC
Confidence 334566778888 899999988888876544333
No 131
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=27.96 E-value=73 Score=17.87 Aligned_cols=22 Identities=18% Similarity=0.356 Sum_probs=17.8
Q ss_pred HHHHHHhhhCCCCeEEEEecCHH
Q psy10038 19 MSILELSHQWNDYKVTERKITMP 41 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~ 41 (51)
+.+.+++++. ++++.|+.++.+
T Consensus 20 ~~ak~iL~~~-~V~~~e~DVs~~ 41 (147)
T cd03031 20 NNVRAILESF-RVKFDERDVSMD 41 (147)
T ss_pred HHHHHHHHHC-CCcEEEEECCCC
Confidence 4567888888 899999999653
No 132
>cd03041 GST_N_2GST_N GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins, and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains.
Probab=27.94 E-value=80 Score=14.98 Aligned_cols=33 Identities=9% Similarity=-0.015 Sum_probs=20.9
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
+++|+-+.+.. -..+..++.+. |++++...+..
T Consensus 2 ~~Ly~~~~sp~------~~kv~~~L~~~-gi~y~~~~v~~ 34 (77)
T cd03041 2 LELYEFEGSPF------CRLVREVLTEL-ELDVILYPCPK 34 (77)
T ss_pred ceEecCCCCch------HHHHHHHHHHc-CCcEEEEECCC
Confidence 35676554431 23555667777 89998887754
No 133
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=27.88 E-value=1.5e+02 Score=18.18 Aligned_cols=37 Identities=14% Similarity=-0.073 Sum_probs=29.5
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
|..-.-..+++.+.+. |+++-.+.-+.+|+..|-..|
T Consensus 135 L~~~~l~~l~~~a~~l-Gle~LVEVh~~~El~~a~~~g 171 (247)
T PRK13957 135 LTPSQIKSFLKHASSL-GMDVLVEVHTEDEAKLALDCG 171 (247)
T ss_pred CCHHHHHHHHHHHHHc-CCceEEEECCHHHHHHHHhCC
Confidence 4333566788999999 899999999999998877655
No 134
>PRK09427 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional
Probab=27.74 E-value=1.7e+02 Score=19.55 Aligned_cols=38 Identities=8% Similarity=0.054 Sum_probs=30.6
Q ss_pred CcccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 12 ILPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
+|..-.-..+++.++++ |+++-.+.=+.+|+..|-+.|
T Consensus 142 ~L~~~~l~~l~~~a~~l-Gl~~lvEvh~~~El~~al~~~ 179 (454)
T PRK09427 142 VLDDEQYRQLAAVAHSL-NMGVLTEVSNEEELERAIALG 179 (454)
T ss_pred hCCHHHHHHHHHHHHHc-CCcEEEEECCHHHHHHHHhCC
Confidence 34444567788999999 899999999999999887655
No 135
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=27.48 E-value=18 Score=18.96 Aligned_cols=29 Identities=14% Similarity=0.485 Sum_probs=10.2
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.++.+++.+++...--++++.+++++|-.
T Consensus 48 ~~e~lL~~le~~kpEVi~ek~lTveELIE 76 (88)
T PF11491_consen 48 SKEELLEMLEEFKPEVIEEKELTVEELIE 76 (88)
T ss_dssp SHHHH---HHHTTT-SS-------SS---
T ss_pred CHHHHHHHHHhcChhheeeccccHHHHHH
Confidence 47788888887733336778888888754
No 136
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=26.91 E-value=53 Score=17.15 Aligned_cols=20 Identities=10% Similarity=-0.027 Sum_probs=14.7
Q ss_pred HHHHHHhhhCCCCeEEEEecC
Q psy10038 19 MSILELSHQWNDYKVTERKIT 39 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~ 39 (51)
....+++++. |+++++..+.
T Consensus 13 ~ka~~~L~~~-~i~~~~idi~ 32 (111)
T cd03036 13 RKAKKWLDEH-GVDYTAIDIV 32 (111)
T ss_pred HHHHHHHHHc-CCceEEeccc
Confidence 3456888888 8988887654
No 137
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=26.91 E-value=1.5e+02 Score=18.61 Aligned_cols=40 Identities=10% Similarity=0.078 Sum_probs=25.4
Q ss_pred CCCcccHHHHH-------------HHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 10 GLILPGITRMS-------------ILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 10 ~~~L~GitR~~-------------ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
-+.+.|..|+. +++.|+++ |+--.--.++.++..+..++|
T Consensus 118 vgliDG~fR~~LEe~Gmgy~~EVemi~~A~~~-gl~T~~yvf~~e~A~~M~~AG 170 (268)
T PF09370_consen 118 VGLIDGQFRQNLEETGMGYDREVEMIRKAHEK-GLFTTAYVFNEEQARAMAEAG 170 (268)
T ss_dssp GGG--HHHHHHHHHTT--HHHHHHHHHHHHHT-T-EE--EE-SHHHHHHHHHHT
T ss_pred ceeeccHHHHHHHhcCCCHHHHHHHHHHHHHC-CCeeeeeecCHHHHHHHHHcC
Confidence 35778888887 45677787 676666777888888777776
No 138
>PRK03995 hypothetical protein; Provisional
Probab=26.90 E-value=88 Score=19.42 Aligned_cols=24 Identities=17% Similarity=0.091 Sum_probs=20.3
Q ss_pred CCCcccHHHHHHHHHhhhCCCCeEE
Q psy10038 10 GLILPGITRMSILELSHQWNDYKVT 34 (51)
Q Consensus 10 ~~~L~GitR~~ll~~~~~~~g~~v~ 34 (51)
.-.++|=.|+.+.++++++ |++|.
T Consensus 242 ~K~~k~~~r~~i~~~le~~-gi~v~ 265 (267)
T PRK03995 242 WKGVKSEDRERIIEFLEEL-GIEVE 265 (267)
T ss_pred cCCCCHHHHHHHHHHHHHC-CCeEE
Confidence 4467888999999999999 88875
No 139
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=26.63 E-value=75 Score=14.46 Aligned_cols=24 Identities=17% Similarity=0.075 Sum_probs=17.5
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEe
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERK 37 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~ 37 (51)
+-|.+.+.+.+.+++. |+.+....
T Consensus 6 ~~g~~~~~a~~~l~~~-g~~~~~~~ 29 (63)
T PF03793_consen 6 LVGMTYDEAKSILEAA-GLTVNVVE 29 (63)
T ss_dssp TTTSBHHHHHHHHHHT-T-EEEEEE
T ss_pred cCCCcHHHHHHHHHHC-CCEEEEEE
Confidence 4577888889999998 88765544
No 140
>PF04083 Abhydro_lipase: Partial alpha/beta-hydrolase lipase region; InterPro: IPR006693 The alpha/beta hydrolase fold is common to several hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is similar: an alpha/beta sheet, not barrel, of eight beta-sheets connected by alpha-helices []. This entry represents the N-terminal part of an alpha/beta hydrolase domain found in a number of lipases.; GO: 0006629 lipid metabolic process; PDB: 1K8Q_B 1HLG_B.
Probab=26.40 E-value=41 Score=16.21 Aligned_cols=17 Identities=29% Similarity=0.481 Sum_probs=9.5
Q ss_pred HHhhhCCCCeEEEEecCH
Q psy10038 23 ELSHQWNDYKVTERKITM 40 (51)
Q Consensus 23 ~~~~~~~g~~v~e~~i~~ 40 (51)
++++.. |+++++..+.-
T Consensus 3 ~~i~~~-GY~~E~h~V~T 19 (63)
T PF04083_consen 3 ELIEKH-GYPCEEHEVTT 19 (63)
T ss_dssp HHHHHT-T---EEEEEE-
T ss_pred HHHHHc-CCCcEEEEEEe
Confidence 567777 89998877653
No 141
>PF00708 Acylphosphatase: Acylphosphatase; InterPro: IPR001792 Acylphosphatase (3.6.1.7 from EC) is an enzyme of approximately 98 amino acid residues that specifically catalyses the hydrolysis of the carboxyl-phosphate bond of acylphosphates [], its substrates including 1,3-diphosphoglycerate and carbamyl phosphate []. The enzyme has a mainly beta-sheet structure with 2 short alpha-helical segments. It is distributed in a tissue-specific manner in a wide variety of species, although its physiological role is as yet unknown []: it may, however, play a part in the regulation of the glycolytic pathway and pyrimidine biosynthesis []. There are two known isozymes. One seems to be specific to muscular tissues, the other, called 'organ-common type', is found in many different tissues. While bacterial and archebacterial hypothetical proteins that are highly similar to that enzyme and that probably possess the same activity. These proteins include: Escherichia coli putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yccX). Bacillus subtilis putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yflL). Archaeoglobus fulgidus putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (O29440 from SWISSPROT). An acylphosphatase-like domain is also found in some prokaryotic hydrogenase maturation HypF carbamoyltransferases [, ].; PDB: 1APS_A 1GXT_A 1GXU_A 2HLT_A 2FHM_A 2HLU_A 3BR8_A 1ULR_A 3TRG_A 2BJD_A ....
Probab=26.38 E-value=40 Score=16.94 Aligned_cols=21 Identities=10% Similarity=0.140 Sum_probs=14.8
Q ss_pred CCcccH-HHHHHHHHhhhCCCCe
Q psy10038 11 LILPGI-TRMSILELSHQWNDYK 32 (51)
Q Consensus 11 ~~L~Gi-tR~~ll~~~~~~~g~~ 32 (51)
|.+.|| .|..+.+.|.++ |+.
T Consensus 12 G~VQGVgFR~~v~~~A~~~-gl~ 33 (91)
T PF00708_consen 12 GRVQGVGFRPFVKRIARKL-GLT 33 (91)
T ss_dssp EETSSSSHHHHHHHHHHHT-T-E
T ss_pred EEECcCChhHHHHHHHHHh-CCc
Confidence 456677 788888888888 544
No 142
>COG1167 ARO8 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]
Probab=26.34 E-value=1.7e+02 Score=19.17 Aligned_cols=36 Identities=22% Similarity=0.403 Sum_probs=25.7
Q ss_pred EEecCCCC---CCcccHHHHHHHHHhhhCCCCeEEEEecC
Q psy10038 3 MITPTLDG---LILPGITRMSILELSHQWNDYKVTERKIT 39 (51)
Q Consensus 3 ~~TP~l~~---~~L~GitR~~ll~~~~~~~g~~v~e~~i~ 39 (51)
+.||...+ ..++=--|+.|+++|++. ++.|.|-.+.
T Consensus 231 y~~P~~qNPtG~tms~~rR~~Ll~lA~~~-~~~IIEDD~y 269 (459)
T COG1167 231 YVTPTFQNPTGVTMSLERRKALLALAEKY-DVLIIEDDYY 269 (459)
T ss_pred EECCCCCCCCCCccCHHHHHHHHHHHHHc-CCeEEeeCcc
Confidence 45565533 355666788999999998 8999886543
No 143
>TIGR01244 conserved hypothetical protein TIGR01244. No member of this family is characterized. The member from Xylella fastidiosa is a longer protein with an N-terminal region described by this model, followed by a metallo-beta-lactamase family domain and an additional C-terminal region. Members scoring above the trusted cutoff are limited to the proteobacteria.
Probab=26.02 E-value=34 Score=18.52 Aligned_cols=20 Identities=15% Similarity=0.330 Sum_probs=15.3
Q ss_pred ccHHHHHHHHHhhhCCCCeEE
Q psy10038 14 PGITRMSILELSHQWNDYKVT 34 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~ 34 (51)
.|+.++.+++.+++. |+.++
T Consensus 110 ~g~~~~~i~~~~~~~-G~~~~ 129 (135)
T TIGR01244 110 EGVPVEEIVRRAQAA-GYDLS 129 (135)
T ss_pred cCCCHHHHHHHHHHc-CCCcc
Confidence 467788888888887 77765
No 144
>PF05023 Phytochelatin: Phytochelatin synthase; InterPro: IPR007719 This entry represents plant phytochelatin synthases (also known as glutathione gamma-glutamylcysteinyltransferase; 2.3.2.15 from EC), which is involved in the synthesis of phytochelatins (PC) and homophytochelatins (hPC), the heavy-metal-binding peptides of plants. This enzyme is required for detoxification of heavy metals such as cadmium and arsenate. The N-terminal region of phytochelatin synthase contains the active site, as well as four highly conserved cysteine residues that appear to play an important role in heavy-metal-induced phytochelatin catalysis. The C-terminal region is rich in cysteines, and may act as a metal sensor, whereby the Cys residues bind cadmium ions to bring them into closer proximity and transferring them to the activation site in the N-terminal catalytic domain []. The C-terminal region displays homology to the functional domains of metallothionein and metallochaperone.; GO: 0016756 glutathione gamma-glutamylcysteinyltransferase activity, 0046872 metal ion binding, 0010038 response to metal ion, 0046938 phytochelatin biosynthetic process; PDB: 2BTW_A 2BU3_B.
Probab=25.94 E-value=1e+02 Score=18.40 Aligned_cols=22 Identities=23% Similarity=0.149 Sum_probs=15.3
Q ss_pred cHHHHHHHHHhhhCCCCeEEEEe
Q psy10038 15 GITRMSILELSHQWNDYKVTERK 37 (51)
Q Consensus 15 GitR~~ll~~~~~~~g~~v~e~~ 37 (51)
|+|.+.+-.+++.. |..++...
T Consensus 96 GiTL~e~~~la~~~-g~~~~~~~ 117 (212)
T PF05023_consen 96 GITLDEFACLAKCN-GLRVEVYR 117 (212)
T ss_dssp ---HHHHHHHHHTT-T-EEEEEE
T ss_pred CCCHHHHHHHHHhc-CCceEEEe
Confidence 99999999999998 88877753
No 145
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=25.87 E-value=53 Score=19.78 Aligned_cols=20 Identities=10% Similarity=0.222 Sum_probs=16.5
Q ss_pred CcccHHHHHHHHHhhhCCCCe
Q psy10038 12 ILPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~ 32 (51)
.+.-=||+.|++.++++ |+.
T Consensus 27 ~Vs~~tr~rV~~~a~el-gY~ 46 (343)
T PRK10727 27 KASEASRLAVHSAMESL-SYH 46 (343)
T ss_pred CCCHHHHHHHHHHHHHH-CCC
Confidence 46667999999999999 674
No 146
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=25.69 E-value=46 Score=16.24 Aligned_cols=18 Identities=11% Similarity=0.477 Sum_probs=13.0
Q ss_pred ccHHHHHHHHHhhhCCCCe
Q psy10038 14 PGITRMSILELSHQWNDYK 32 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~ 32 (51)
.||....|.++++++ |+.
T Consensus 44 ~~vS~sti~Rf~kkL-G~~ 61 (77)
T PF01418_consen 44 AGVSPSTIVRFCKKL-GFS 61 (77)
T ss_dssp CTS-HHHHHHHHHHC-TTT
T ss_pred cCCCHHHHHHHHHHh-CCC
Confidence 467778888888888 664
No 147
>cd03040 GST_N_mPGES2 GST_N family; microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated, and a C-terminal soluble domain with a GST-like structure.
Probab=25.56 E-value=87 Score=14.60 Aligned_cols=33 Identities=0% Similarity=-0.159 Sum_probs=21.2
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
+++|+.+.+ .....+..++... |+++++..+.+
T Consensus 2 i~Ly~~~~~------p~c~kv~~~L~~~-gi~y~~~~~~~ 34 (77)
T cd03040 2 ITLYQYKTC------PFCCKVRAFLDYH-GIPYEVVEVNP 34 (77)
T ss_pred EEEEEcCCC------HHHHHHHHHHHHC-CCceEEEECCc
Confidence 356665433 3345566677777 89988877765
No 148
>cd00014 CH Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like spectrin, alpha-actinin, dystrophin, utrophin, and fimbrin, proteins essential for regulation of cell shape (cortexillins), and signaling proteins (Vav).
Probab=25.51 E-value=99 Score=15.26 Aligned_cols=22 Identities=18% Similarity=0.298 Sum_probs=16.4
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHh
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIV 44 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~ 44 (51)
.+++.+++. |++.. .+.++||.
T Consensus 66 ~~l~~~~~~-gi~~~--~~~~~Dl~ 87 (107)
T cd00014 66 LALNFAEKL-GVPVV--NFDAEDLV 87 (107)
T ss_pred HHHHHHHHc-CCcee--ccCHHHHh
Confidence 456777777 77765 68888887
No 149
>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=25.49 E-value=1.8e+02 Score=18.39 Aligned_cols=32 Identities=13% Similarity=-0.048 Sum_probs=23.8
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
.+-+.+.+.+++. |++|+.+.+...++.+...
T Consensus 336 ~~a~~i~~~l~~~-Gi~v~~~~~~~~~~~~~~~ 367 (470)
T cd08490 336 PIAEAIQAQLKKI-GIDVEIRVVEYDAIEEDLL 367 (470)
T ss_pred HHHHHHHHHHHHc-CceEEEEEeehhhhhhHhh
Confidence 4445666788888 8999999988887765433
No 150
>PRK04280 arginine repressor; Provisional
Probab=25.46 E-value=32 Score=19.37 Aligned_cols=22 Identities=9% Similarity=0.240 Sum_probs=15.7
Q ss_pred HHHHHHHhhhCCCCeEEEEecCH
Q psy10038 18 RMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
.+-+.+.+++. |+.+.+-.++.
T Consensus 21 QeeL~~~L~~~-Gi~vTQATiSR 42 (148)
T PRK04280 21 QDELVDRLREE-GFNVTQATVSR 42 (148)
T ss_pred HHHHHHHHHHc-CCCeehHHHHH
Confidence 44667778887 78887766665
No 151
>PRK07714 hypothetical protein; Provisional
Probab=25.36 E-value=1.1e+02 Score=15.74 Aligned_cols=29 Identities=7% Similarity=0.030 Sum_probs=22.6
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchh
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLS 47 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ad 47 (51)
+++.+..+|... ++++.. ..+-++|-.|-
T Consensus 48 ~~~ki~~~~~~~-~vp~~~-~~sk~eLG~a~ 76 (100)
T PRK07714 48 TTKKITDKCTYY-NVPMRK-VENRQQLGHAI 76 (100)
T ss_pred HHHHHHHHHHhc-CCCEEE-eCCHHHHHHHh
Confidence 677888888888 799876 47888887653
No 152
>PF07796 DUF1638: Protein of unknown function (DUF1638); InterPro: IPR012437 This entry contains sequences covering an approximately 270 amino acid stretch of a group of hypothetical proteins and are confined to Bacteria and Archaea.
Probab=25.33 E-value=1.3e+02 Score=16.73 Aligned_cols=28 Identities=11% Similarity=0.077 Sum_probs=24.1
Q ss_pred HHHHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 18 RMSILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
.+.+.++++.. ++++++.+.+.+-|.+.
T Consensus 135 ~~~~~~~a~~~-~l~~~~~~g~l~~l~~l 162 (166)
T PF07796_consen 135 EEKVREFAEFL-GLPIEEIPGDLDLLEKL 162 (166)
T ss_pred HHHHHHHHHHh-CCCEEEEeCCHHHHHHH
Confidence 67888999999 89999999999877653
No 153
>KOG3254|consensus
Probab=25.32 E-value=42 Score=20.15 Aligned_cols=27 Identities=22% Similarity=0.460 Sum_probs=22.2
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhC
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQW 28 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~ 28 (51)
++.+|.-+.-++.|+-++.+.++|...
T Consensus 155 ~Vk~p~ptsl~~~G~dKq~V~qFAAkv 181 (211)
T KOG3254|consen 155 QVKNPTPTSLVLRGIDKQKVTQFAAKV 181 (211)
T ss_pred EEecCCCCEEEEecccHHHHHHHHHHH
Confidence 567777777799999999999988754
No 154
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=25.26 E-value=1e+02 Score=15.86 Aligned_cols=21 Identities=5% Similarity=-0.167 Sum_probs=13.9
Q ss_pred HHHHHHHhhhCCCCeEEEEecC
Q psy10038 18 RMSILELSHQWNDYKVTERKIT 39 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~ 39 (51)
-+..++++++. |++++...+.
T Consensus 9 ~rka~~~L~~~-gi~~~~~d~~ 29 (110)
T PF03960_consen 9 CRKALKWLEEN-GIEYEFIDYK 29 (110)
T ss_dssp HHHHHHHHHHT-T--EEEEETT
T ss_pred HHHHHHHHHHc-CCCeEeehhh
Confidence 34567888988 8999887664
No 155
>PRK14561 hypothetical protein; Provisional
Probab=25.24 E-value=75 Score=18.31 Aligned_cols=22 Identities=27% Similarity=0.448 Sum_probs=16.4
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEE
Q psy10038 13 LPGITRMSILELSHQWNDYKVTER 36 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~ 36 (51)
|.|++++.|.++++++ +.|++.
T Consensus 131 L~~~~K~eI~~la~~l--~~~~~~ 152 (194)
T PRK14561 131 LLGFGRKTIDRLVERL--FEIEEG 152 (194)
T ss_pred CCCCCHHHHHHHHHhh--EEEEec
Confidence 3488899999999887 566553
No 156
>cd08498 PBP2_NikA_DppA_OppA_like_2 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 si
Probab=25.23 E-value=1.9e+02 Score=18.46 Aligned_cols=31 Identities=6% Similarity=0.007 Sum_probs=23.6
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
+-+.|.+.+++. |++|....+..+++.+.-.
T Consensus 347 ~a~~i~~~l~~~-Gi~v~i~~~~~~~~~~~~~ 377 (481)
T cd08498 347 IAQAVAGMLARI-GIKVNLETMPKSVYFPRAT 377 (481)
T ss_pred HHHHHHHHHHHh-CceEEEEEecHHHHHHHhh
Confidence 345666788888 8999999999888875433
No 157
>PF03395 Pox_P4A: Poxvirus P4A protein; InterPro: IPR005058 P4A is one of the most abundant structural proteins in the Vaccinia virion.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=25.21 E-value=77 Score=23.12 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=25.0
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 17 TRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
+-+.++...++. |-.|....|+++||+++=+
T Consensus 821 tLKall~iikRs-gr~Idd~eI~~del~Ksy~ 851 (888)
T PF03395_consen 821 TLKALLYIIKRS-GRNIDDTEIGPDELRKSYE 851 (888)
T ss_pred HHHHHHHHHHHc-CCCccCceeCHHHHHHHHH
Confidence 345677778887 8999999999999987643
No 158
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=25.14 E-value=94 Score=14.86 Aligned_cols=33 Identities=12% Similarity=0.031 Sum_probs=21.0
Q ss_pred EEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEec
Q psy10038 2 EMITPTLDGLILPGITRMSILELSHQWNDYKVTERKI 38 (51)
Q Consensus 2 ~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i 38 (51)
++++|. |.---.+.+.+-+++... |++++...+
T Consensus 4 ~v~~~~---C~~C~~~~~~~~~~~~~~-~i~~ei~~~ 36 (76)
T PF13192_consen 4 KVFSPG---CPYCPELVQLLKEAAEEL-GIEVEIIDI 36 (76)
T ss_dssp EEECSS---CTTHHHHHHHHHHHHHHT-TEEEEEEET
T ss_pred EEeCCC---CCCcHHHHHHHHHHHHhc-CCeEEEEEc
Confidence 345554 223347777888888888 777766554
No 159
>PF11432 DUF3197: Protein of unknown function (DUF3197); InterPro: IPR024443 This domain, whose function is unknown, is found in bacterial proteins.; PDB: 1WN9_A 1WNA_A.
Probab=24.72 E-value=85 Score=17.19 Aligned_cols=25 Identities=4% Similarity=0.132 Sum_probs=18.9
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhc
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQ 45 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ 45 (51)
.+..++.+. |+.+.|..+++.+...
T Consensus 64 ELv~wl~~~-G~~f~EaVl~p~e~~~ 88 (113)
T PF11432_consen 64 ELVRWLQER-GARFYEAVLSPSEFAA 88 (113)
T ss_dssp HHHHHHHHT-T-EEEEEEE-GGGHHH
T ss_pred HHHHHHHHc-CCchhheecCHHHHHH
Confidence 456788898 8999999999988754
No 160
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=24.67 E-value=50 Score=18.97 Aligned_cols=31 Identities=16% Similarity=0.163 Sum_probs=23.0
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
..+++.++.. ++...-...++.++.+|.+.|
T Consensus 95 ~~~~~~~~~~-~~~~i~G~~t~~e~~~A~~~G 125 (187)
T PRK07455 95 PELIEAAVAQ-DIPIIPGALTPTEIVTAWQAG 125 (187)
T ss_pred HHHHHHHHHc-CCCEEcCcCCHHHHHHHHHCC
Confidence 4566677766 677666788899988887766
No 161
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=24.28 E-value=20 Score=16.06 Aligned_cols=18 Identities=22% Similarity=0.392 Sum_probs=12.7
Q ss_pred HHHHHHHHhhhCCCCeEEE
Q psy10038 17 TRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e 35 (51)
+.+.++.++++. |+.+.+
T Consensus 28 ~~~e~~~lA~~~-Gy~ft~ 45 (49)
T PF07862_consen 28 NPEEVVALAREA-GYDFTE 45 (49)
T ss_pred CHHHHHHHHHHc-CCCCCH
Confidence 345677888888 787653
No 162
>PRK07027 cobalamin biosynthesis protein CbiG; Provisional
Probab=24.21 E-value=1.1e+02 Score=16.52 Aligned_cols=24 Identities=8% Similarity=0.279 Sum_probs=17.7
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhch
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQL 46 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~a 46 (51)
.++++++++ |+++.. ++.++|.+.
T Consensus 51 ~L~~~A~~l-g~pl~~--~~~~eL~~~ 74 (126)
T PRK07027 51 GLLALCARH-GWPLRA--FSAAQLAAS 74 (126)
T ss_pred HHHHHHHHh-CCCeEE--eCHHHHHhc
Confidence 577888888 677665 788888753
No 163
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=24.10 E-value=62 Score=19.75 Aligned_cols=22 Identities=23% Similarity=0.282 Sum_probs=15.6
Q ss_pred EecCCCCCCcccHHHHHHHHHhhh
Q psy10038 4 ITPTLDGLILPGITRMSILELSHQ 27 (51)
Q Consensus 4 ~TP~l~~~~L~GitR~~ll~~~~~ 27 (51)
++||.++. .||||+-+...+++
T Consensus 176 F~pp~~dp--~~IT~edLk~~L~~ 197 (262)
T PF14500_consen 176 FRPPPNDP--YGITREDLKRALRN 197 (262)
T ss_pred eeCCCCCC--CCCCHHHHHHHHHH
Confidence 57776553 49999988876654
No 164
>PRK10347 cell filamentation protein Fic; Provisional
Probab=24.02 E-value=1.1e+02 Score=18.10 Aligned_cols=35 Identities=14% Similarity=0.232 Sum_probs=25.5
Q ss_pred ccHHHHHHH-HHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 14 PGITRMSIL-ELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 14 ~GitR~~ll-~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+|=|....+ .++... |+++.-..++.++..+|-.+
T Consensus 141 NGRt~r~f~~~la~~a-G~~idw~~~~~~~~~~A~~~ 176 (200)
T PRK10347 141 SGLAQRIFFEQLAIHA-GYQLSWQGIEKEAWNQANQS 176 (200)
T ss_pred CHHHHHHHHHHHHHHc-CCCCCcccCCHHHHHHHHHH
Confidence 555555555 467777 89999999999888777554
No 165
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=23.91 E-value=63 Score=19.33 Aligned_cols=19 Identities=32% Similarity=0.558 Sum_probs=16.0
Q ss_pred cccHHHHHHHHHhhhCCCCe
Q psy10038 13 LPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~ 32 (51)
+.==||+.|++.++++ |+.
T Consensus 30 vs~~tr~rV~~~a~~l-gY~ 48 (327)
T PRK10339 30 VKEETKHRILEIAEKL-EYK 48 (327)
T ss_pred cCHHHHHHHHHHHHHh-CCC
Confidence 5667999999999998 674
No 166
>cd04871 ACT_PSP_2 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_2 CD includes the second of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains
Probab=23.81 E-value=1.1e+02 Score=15.21 Aligned_cols=21 Identities=19% Similarity=0.341 Sum_probs=16.4
Q ss_pred cHHHHHHHHHhhhCCCCeEEEE
Q psy10038 15 GITRMSILELSHQWNDYKVTER 36 (51)
Q Consensus 15 GitR~~ll~~~~~~~g~~v~e~ 36 (51)
.-+|+.+.+++.+. |++|..+
T Consensus 63 ~~lr~~L~~la~el-gvDIavQ 83 (84)
T cd04871 63 EALRAALLELASEL-NVDIAFQ 83 (84)
T ss_pred HHHHHHHHHHhccc-CceEEEe
Confidence 46788888999998 7887654
No 167
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=23.60 E-value=28 Score=19.88 Aligned_cols=24 Identities=21% Similarity=0.403 Sum_probs=18.0
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEe
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERK 37 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~ 37 (51)
|.||+|+.|+-.++.+ |+......
T Consensus 28 lg~vsRnAViGk~hRl-gL~~~~~~ 51 (162)
T PF07750_consen 28 LGGVSRNAVIGKAHRL-GLSGRARP 51 (162)
T ss_pred hCCcchhhhhhhhhcc-cccccccc
Confidence 3369999999999888 77654443
No 168
>cd03053 GST_N_Phi GST_N family, Class Phi subfamily; composed of plant-specific class Phi GSTs and related fungal and bacterial proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. The class Phi GST subfamily has experience extensive gene duplication. The Arabidopsis and Oryza genomes contain 13 and 16 Phi GSTs, respectively. They are primarily responsible for herbicide detoxification together with class Tau GSTs, showing class specificity in substrate preference. Phi enzymes are highly reactive toward chloroacetanilide and thiocarbamate herbicides. Some Phi GSTs have other functions including t
Probab=23.37 E-value=96 Score=14.32 Aligned_cols=33 Identities=3% Similarity=0.011 Sum_probs=19.7
Q ss_pred CEEEecCCCCCCcccHHHHHHHHHhhhCCCCeEEEEecCH
Q psy10038 1 MEMITPTLDGLILPGITRMSILELSHQWNDYKVTERKITM 40 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~ll~~~~~~~g~~v~e~~i~~ 40 (51)
|++|+.+.+.. ...+.-++... |++++...+..
T Consensus 2 ~~Ly~~~~s~~------s~~v~~~l~~~-~i~~~~~~~~~ 34 (76)
T cd03053 2 LKLYGAAMSTC------VRRVLLCLEEK-GVDYELVPVDL 34 (76)
T ss_pred eEEEeCCCChh------HHHHHHHHHHc-CCCcEEEEeCc
Confidence 46777665442 23344456666 78888776654
No 169
>COG0633 Fdx Ferredoxin [Energy production and conversion]
Probab=23.36 E-value=72 Score=16.58 Aligned_cols=28 Identities=14% Similarity=0.183 Sum_probs=19.3
Q ss_pred ecCCCCCCcccHH-HHHHHHHhhhCCCCeE
Q psy10038 5 TPTLDGLILPGIT-RMSILELSHQWNDYKV 33 (51)
Q Consensus 5 TP~l~~~~L~Git-R~~ll~~~~~~~g~~v 33 (51)
++.........+. ..+|++.+.+. |+++
T Consensus 8 ~~~~~~~~~~~~~~g~tiLe~a~~~-gi~i 36 (102)
T COG0633 8 TIDGEGDVTEAVNEGETLLEAAERN-GIPI 36 (102)
T ss_pred eccCCcceEEeccCCcHHHHHHHHC-CCcc
Confidence 3333345566666 58999999998 7874
No 170
>PF02737 3HCDH_N: 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; InterPro: IPR006176 3-hydroxyacyl-CoA dehydrogenase (1.1.1.35 from EC) (HCDH) [] is an enzyme involved in fatty acid metabolism, it catalyzes the reduction of 3-hydroxyacyl-CoA to 3-oxoacyl-CoA. Most eukaryotic cells have 2 fatty-acid beta-oxidation systems, one located in mitochondria and the other in peroxisomes. In peroxisomes 3-hydroxyacyl-CoA dehydrogenase forms, with enoyl-CoA hydratase (ECH) and 3,2-trans-enoyl-CoA isomerase (ECI) a multifunctional enzyme where the N-terminal domain bears the hydratase/isomerase activities and the C-terminal domain the dehydrogenase activity. There are two mitochondrial enzymes: one which is monofunctional and the other which is, like its peroxisomal counterpart, multifunctional. In Escherichia coli (gene fadB) and Pseudomonas fragi (gene faoA) HCDH is part of a multifunctional enzyme which also contains an ECH/ECI domain as well as a 3-hydroxybutyryl-CoA epimerase domain []. There are two major regions of similarity in the sequences of proteins of the HCDH family, the first one located in the N-terminal, corresponds to the NAD-binding site, the second one is located in the centre of the sequence. This represents the C-terminal domain which is also found in lambda crystallin. Some proteins include two copies of this domain.; GO: 0003857 3-hydroxyacyl-CoA dehydrogenase activity, 0016491 oxidoreductase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 3K6J_A 1ZCJ_A 2X58_A 1ZEJ_A 3HDH_B 2WTB_A 1WDL_B 2D3T_B 1WDK_A 1WDM_B ....
Probab=23.36 E-value=1.5e+02 Score=16.72 Aligned_cols=33 Identities=18% Similarity=0.150 Sum_probs=25.3
Q ss_pred cHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 15 GITRMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 15 GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
|+|=..+-.++... |++|.-...+.+.+..+.+
T Consensus 8 G~mG~~iA~~~a~~-G~~V~l~d~~~~~l~~~~~ 40 (180)
T PF02737_consen 8 GTMGRGIAALFARA-GYEVTLYDRSPEALERARK 40 (180)
T ss_dssp SHHHHHHHHHHHHT-TSEEEEE-SSHHHHHHHHH
T ss_pred CHHHHHHHHHHHhC-CCcEEEEECChHHHHhhhh
Confidence 67777777777777 8999999999998877654
No 171
>cd08499 PBP2_Ylib_like The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding component of an uncharacterized ATP-binding cassette (ABC)-type peptide transport system YliB. Although the ligand specificity of Ylib protein is not known, it shares significant sequence similarity to the ABC-type dipeptide and oligopeptide binding proteins. 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 similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling
Probab=22.90 E-value=2.1e+02 Score=18.17 Aligned_cols=30 Identities=10% Similarity=-0.060 Sum_probs=22.4
Q ss_pred HHHHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 18 RMSILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
-+.+.+.+++. |+++....+...++.+...
T Consensus 335 a~~i~~~l~~~-GI~v~i~~~~~~~~~~~~~ 364 (474)
T cd08499 335 AEFIQQQLAQI-GIDVEIEVMEWGAYLEETG 364 (474)
T ss_pred HHHHHHHHHHc-CceEEEEeccHHHHHHHhc
Confidence 34566778888 8999999998888765443
No 172
>PF10100 DUF2338: Uncharacterized protein conserved in bacteria (DUF2338); InterPro: IPR016935 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.89 E-value=54 Score=21.90 Aligned_cols=28 Identities=18% Similarity=0.364 Sum_probs=21.8
Q ss_pred HHHHHhhhCCCCeEEEEecCHHHHhchhh
Q psy10038 20 SILELSHQWNDYKVTERKITMPDIVQLSR 48 (51)
Q Consensus 20 ~ll~~~~~~~g~~v~e~~i~~~~l~~ade 48 (51)
++++++-+. +++|.++.++.+|+..+.+
T Consensus 275 NLLkFm~dd-NYPV~~eslsr~~Ie~F~~ 302 (429)
T PF10100_consen 275 NLLKFMNDD-NYPVRPESLSRDDIESFEE 302 (429)
T ss_pred hHHHHhccC-CCCCChhhCCHHHHhhhhc
Confidence 345666665 6999999999999987764
No 173
>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional
Probab=22.87 E-value=1.6e+02 Score=16.99 Aligned_cols=34 Identities=6% Similarity=-0.083 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhh-CCCCeEEEEecCHHHHhchhhhC
Q psy10038 16 ITRMSILELSHQ-WNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 16 itR~~ll~~~~~-~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
.+...+++.+++ . ++++.....+.+++..+.+.|
T Consensus 105 ~~~~~~i~~~~~~~-~i~vi~~v~t~ee~~~a~~~G 139 (221)
T PRK01130 105 ETLAELVKRIKEYP-GQLLMADCSTLEEGLAAQKLG 139 (221)
T ss_pred CCHHHHHHHHHhCC-CCeEEEeCCCHHHHHHHHHcC
Confidence 344566677776 6 677777777777777666654
No 174
>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C ....
Probab=22.62 E-value=71 Score=16.70 Aligned_cols=22 Identities=14% Similarity=0.149 Sum_probs=16.6
Q ss_pred ccHHHHHHHHHhhhCCCCeEEEE
Q psy10038 14 PGITRMSILELSHQWNDYKVTER 36 (51)
Q Consensus 14 ~GitR~~ll~~~~~~~g~~v~e~ 36 (51)
.-.+++.+.+++++. |+++.++
T Consensus 140 ~~~~~~~~~~ll~~~-G~~iv~~ 161 (161)
T PF13489_consen 140 HFFSPDELRQLLEQA-GFEIVEE 161 (161)
T ss_dssp EEBBHHHHHHHHHHT-TEEEEE-
T ss_pred ccCCHHHHHHHHHHC-CCEEEEC
Confidence 445678888999998 8888763
No 175
>PF12728 HTH_17: Helix-turn-helix domain
Probab=22.49 E-value=89 Score=13.63 Aligned_cols=38 Identities=18% Similarity=0.175 Sum_probs=25.6
Q ss_pred CcccHHHHHHHHHhhhCCCCeEE-E---EecCHHHHhchhhhC
Q psy10038 12 ILPGITRMSILELSHQWNDYKVT-E---RKITMPDIVQLSREK 50 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~v~-e---~~i~~~~l~~ade~~ 50 (51)
-+-||++..+.+++++- .++.. . ..+..+||.+.-++.
T Consensus 9 ~~l~is~~tv~~~~~~g-~i~~~~~g~~~~~~~~~l~~~~~~~ 50 (51)
T PF12728_consen 9 ELLGISRSTVYRWIRQG-KIPPFKIGRKWRIPKSDLDRWLERR 50 (51)
T ss_pred HHHCcCHHHHHHHHHcC-CCCeEEeCCEEEEeHHHHHHHHHhC
Confidence 35688999999998875 66432 2 457777777655443
No 176
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=22.39 E-value=72 Score=18.96 Aligned_cols=20 Identities=10% Similarity=0.255 Sum_probs=16.8
Q ss_pred CcccHHHHHHHHHhhhCCCCe
Q psy10038 12 ILPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~ 32 (51)
.+.-=||+.|++.++++ |+.
T Consensus 29 ~Vs~~tr~rV~~~a~el-gY~ 48 (328)
T PRK11303 29 RVSDKTVEKVMAVVREH-NYH 48 (328)
T ss_pred CcCHHHHHHHHHHHHHh-CCC
Confidence 37778999999999998 664
No 177
>PTZ00105 60S ribosomal protein L12; Provisional
Probab=22.27 E-value=80 Score=17.74 Aligned_cols=34 Identities=15% Similarity=0.176 Sum_probs=20.0
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
|.++++ .|+-.|+++ |++|+-+ ++.|+...-.+|
T Consensus 100 l~~a~k-~V~GTarSm-Gi~V~gk--~pkev~~~i~~G 133 (140)
T PTZ00105 100 FKGTVK-EVLGTCVSI-GCTVDGE--SPRDIQEKINNG 133 (140)
T ss_pred HHHHHH-HHHhhheee-eEEEECC--CHHHHHHHHhCC
Confidence 444444 344556666 6666653 677777665555
No 178
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=22.17 E-value=1.1e+02 Score=16.28 Aligned_cols=25 Identities=4% Similarity=-0.009 Sum_probs=17.4
Q ss_pred cccHHHHHHHHHhhhCCCCeEEEEec
Q psy10038 13 LPGITRMSILELSHQWNDYKVTERKI 38 (51)
Q Consensus 13 L~GitR~~ll~~~~~~~g~~v~e~~i 38 (51)
|.-=+++..+.+|++. |++++...-
T Consensus 53 l~F~skE~Ai~yaer~-G~~Y~V~~p 77 (101)
T PF04800_consen 53 LKFDSKEDAIAYAERN-GWDYEVEEP 77 (101)
T ss_dssp EEESSHHHHHHHHHHC-T-EEEEE-S
T ss_pred eeeCCHHHHHHHHHHc-CCeEEEeCC
Confidence 3344688999999999 898776543
No 179
>PF09697 Porph_ging: Protein of unknown function (Porph_ging); InterPro: IPR019115 This family of proteins of unknown function is found in species belonging to the bacteroidetes.
Probab=22.10 E-value=60 Score=16.12 Aligned_cols=15 Identities=33% Similarity=0.412 Sum_probs=8.4
Q ss_pred EEEecCC-------CCCCcccH
Q psy10038 2 EMITPTL-------DGLILPGI 16 (51)
Q Consensus 2 ~~~TP~l-------~~~~L~Gi 16 (51)
.||||.+ ..++|||.
T Consensus 46 AWyT~eIPv~~GP~~f~GLPGL 67 (70)
T PF09697_consen 46 AWYTPEIPVSFGPWKFGGLPGL 67 (70)
T ss_pred EEECCCCCCcCCChhhCCCCeE
Confidence 3677754 33466663
No 180
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=21.95 E-value=1.2e+02 Score=15.07 Aligned_cols=23 Identities=9% Similarity=0.273 Sum_probs=17.9
Q ss_pred CcccHHHHHHHHHhhhCCCCeEEE
Q psy10038 12 ILPGITRMSILELSHQWNDYKVTE 35 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~v~e 35 (51)
-|+.+.-..++.+++.. ||...-
T Consensus 3 ~lp~~~~ke~ik~Le~~-Gf~~vr 25 (66)
T COG1724 3 KLPRMKAKEVIKALEKD-GFQLVR 25 (66)
T ss_pred cCCcCCHHHHHHHHHhC-CcEEEE
Confidence 36777788899999998 787654
No 181
>PF10180 DUF2373: Uncharacterised conserved protein (DUF2373); InterPro: IPR019327 This is a conserved family of proteins found from fungi to humans. The function is not known.
Probab=21.68 E-value=95 Score=15.13 Aligned_cols=16 Identities=25% Similarity=0.187 Sum_probs=11.1
Q ss_pred CcccHHHHHHHHHhhh
Q psy10038 12 ILPGITRMSILELSHQ 27 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~ 27 (51)
+|.|-.|+.+++.|++
T Consensus 48 glkG~aR~rl~~~a~~ 63 (65)
T PF10180_consen 48 GLKGGARERLREEAKE 63 (65)
T ss_pred hCcchHHHHHHHHHHh
Confidence 5677777777776654
No 182
>cd08511 PBP2_NikA_DppA_OppA_like_5 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This family 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 mos
Probab=21.36 E-value=2.3e+02 Score=17.96 Aligned_cols=31 Identities=10% Similarity=0.153 Sum_probs=22.6
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
+.+.+.+++. |++++...++.+++.+.-.+|
T Consensus 336 ~~i~~~l~~~-Gi~v~i~~~~~~~~~~~~~~~ 366 (467)
T cd08511 336 QVIQAMAAEA-GFTVKLRPTEFATLLDRALAG 366 (467)
T ss_pred HHHHHHHHhc-CcEeEEEEccHHHHHHHHhCC
Confidence 4556677888 899999999888876544333
No 183
>COG1476 Predicted transcriptional regulators [Transcription]
Probab=21.34 E-value=49 Score=16.49 Aligned_cols=12 Identities=33% Similarity=0.783 Sum_probs=8.5
Q ss_pred cccHHHHHHHHH
Q psy10038 13 LPGITRMSILEL 24 (51)
Q Consensus 13 L~GitR~~ll~~ 24 (51)
.-||+|+.+..+
T Consensus 23 ~vgVsRQTi~~i 34 (68)
T COG1476 23 LVGVSRQTIIAI 34 (68)
T ss_pred HcCcCHHHHHHH
Confidence 358899888643
No 184
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=21.11 E-value=1.5e+02 Score=16.14 Aligned_cols=34 Identities=12% Similarity=0.156 Sum_probs=20.4
Q ss_pred HHHHHHHHHhhhCCCC---eEEEEecCHHHHhchhhhC
Q psy10038 16 ITRMSILELSHQWNDY---KVTERKITMPDIVQLSREK 50 (51)
Q Consensus 16 itR~~ll~~~~~~~g~---~v~e~~i~~~~l~~ade~~ 50 (51)
+.|..+=+++++. |+ +-.+......++.+.=++|
T Consensus 65 TvR~rLd~ii~~l-g~~~~~~~~~~~~~~~IL~~L~~G 101 (113)
T PF09862_consen 65 TVRNRLDKIIEKL-GYEEDEEEEEEDERKEILDKLEKG 101 (113)
T ss_pred HHHHHHHHHHHHh-CCCCCcccccchhHHHHHHHHHcC
Confidence 4566666777777 66 4445555566666555554
No 185
>KOG0409|consensus
Probab=20.93 E-value=2.2e+02 Score=18.47 Aligned_cols=35 Identities=17% Similarity=0.095 Sum_probs=27.5
Q ss_pred cHHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 15 GITRMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 15 GitR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
|+|=..+...+-+. |++|..-.++.+-...+.+.|
T Consensus 44 G~MG~~M~~nLik~-G~kVtV~dr~~~k~~~f~~~G 78 (327)
T KOG0409|consen 44 GNMGSAMVSNLIKA-GYKVTVYDRTKDKCKEFQEAG 78 (327)
T ss_pred ccchHHHHHHHHHc-CCEEEEEeCcHHHHHHHHHhc
Confidence 56666666555566 899999999999998888876
No 186
>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.
Probab=20.77 E-value=1.1e+02 Score=19.58 Aligned_cols=25 Identities=8% Similarity=0.056 Sum_probs=19.8
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHH
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMP 41 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~ 41 (51)
-+.+.+-+.|+.. |++++...+..+
T Consensus 160 ~~g~rL~~fA~~l-gv~fef~~v~~~ 184 (374)
T PF03514_consen 160 ETGRRLAEFARSL-GVPFEFHPVVVE 184 (374)
T ss_pred HHHHHHHHHHHHc-CccEEEEecccC
Confidence 4667888999999 899999987333
No 187
>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=20.67 E-value=2.1e+02 Score=17.27 Aligned_cols=33 Identities=12% Similarity=0.061 Sum_probs=23.0
Q ss_pred HHHHHHHHhhhCCCCeEEEEecCH-HHHhchhhhC
Q psy10038 17 TRMSILELSHQWNDYKVTERKITM-PDIVQLSREK 50 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~~i~~-~~l~~ade~~ 50 (51)
+-+.+.+.+++. |++|..+.+.. ....+...+|
T Consensus 310 ~a~~l~~~l~~~-Gi~v~i~~~~~~~~~~~~~~~~ 343 (374)
T PF00496_consen 310 IAEALQEQLKKI-GIKVEIKPVDFNDTYDKRLRAG 343 (374)
T ss_dssp HHHHHHHHHHHT-TEEEEEEEESHHHHHHHHHHCT
T ss_pred HHHHHHHHHhhc-ceeEEEEEeChHHHHHHHhhCC
Confidence 444566777888 89999999988 5555444443
No 188
>TIGR02318 phosphono_phnM phosphonate metabolism protein PhnM. This family consists of proteins from in the PhnM family. PhnM is a a protein associated with phosphonate utilization in a number of bacterial species. In Pseudomonas stutzeri WM88, a protein that is part of a system for the oxidation of phosphites (another form of reduced phosphorous compound) scores between trusted and noise cutoffs.
Probab=20.66 E-value=2.3e+02 Score=17.99 Aligned_cols=32 Identities=13% Similarity=0.088 Sum_probs=17.4
Q ss_pred HHHHHHHhhhCCCCeEEEEe-cCHHHHhchhhhC
Q psy10038 18 RMSILELSHQWNDYKVTERK-ITMPDIVQLSREK 50 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~-i~~~~l~~ade~~ 50 (51)
.+.+++++++. |+++.-.. -+.+++..|.+.|
T Consensus 211 i~~~v~~A~~~-G~~v~sH~~~~~e~i~~a~~~G 243 (376)
T TIGR02318 211 RSEIAALARAR-GIPLASHDDDTPEHVAEAHDLG 243 (376)
T ss_pred HHHHHHHHHHC-CCeEEEecCCCHHHHHHHHHCC
Confidence 34555666666 56665544 3555555555443
No 189
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=20.61 E-value=1.2e+02 Score=14.21 Aligned_cols=23 Identities=9% Similarity=-0.058 Sum_probs=16.8
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHH
Q psy10038 19 MSILELSHQWNDYKVTERKITMPD 42 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~ 42 (51)
..+.+++.+. |+++++..+.-+.
T Consensus 13 ~~ak~~L~~~-~i~~~~~di~~~~ 35 (72)
T TIGR02194 13 KMTKKALEEH-GIAFEEINIDEQP 35 (72)
T ss_pred HHHHHHHHHC-CCceEEEECCCCH
Confidence 3455677778 8999998887543
No 190
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=20.60 E-value=76 Score=18.86 Aligned_cols=20 Identities=30% Similarity=0.488 Sum_probs=16.3
Q ss_pred CcccHHHHHHHHHhhhCCCCe
Q psy10038 12 ILPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~ 32 (51)
.+.=-||+.|++.++++ |+.
T Consensus 27 ~vs~~tr~rV~~~a~~l-gY~ 46 (329)
T TIGR01481 27 NVKPATRKKVLEVIKRL-DYR 46 (329)
T ss_pred CCCHHHHHHHHHHHHHH-CCC
Confidence 45667999999999999 674
No 191
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=20.59 E-value=1.6e+02 Score=15.82 Aligned_cols=28 Identities=11% Similarity=-0.027 Sum_probs=19.2
Q ss_pred HHHHHHHHhhhCCCCeEEEE-----ecCHHHHhc
Q psy10038 17 TRMSILELSHQWNDYKVTER-----KITMPDIVQ 45 (51)
Q Consensus 17 tR~~ll~~~~~~~g~~v~e~-----~i~~~~l~~ 45 (51)
|-+..++++++. |+++.+. +++.++|.+
T Consensus 13 t~rka~~~L~~~-gi~~~~~~y~~~~~s~~eL~~ 45 (117)
T COG1393 13 TCRKALAWLEEH-GIEYTFIDYLKTPPSREELKK 45 (117)
T ss_pred HHHHHHHHHHHc-CCCcEEEEeecCCCCHHHHHH
Confidence 344567889988 7776654 667777754
No 192
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=20.57 E-value=80 Score=18.79 Aligned_cols=20 Identities=10% Similarity=0.187 Sum_probs=16.9
Q ss_pred CcccHHHHHHHHHhhhCCCCe
Q psy10038 12 ILPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~ 32 (51)
.+.-=||+.|++.++++ |+.
T Consensus 28 ~vs~~tr~rV~~~a~~l-gY~ 47 (327)
T TIGR02417 28 RISQETVERVMAVVREQ-GYQ 47 (327)
T ss_pred ccCHHHHHHHHHHHHHh-CCC
Confidence 37778999999999998 674
No 193
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=20.55 E-value=1.1e+02 Score=14.18 Aligned_cols=22 Identities=9% Similarity=0.009 Sum_probs=17.1
Q ss_pred HHHHHHhhhCCCCeEEEEecCHH
Q psy10038 19 MSILELSHQWNDYKVTERKITMP 41 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~ 41 (51)
+.+.+++.+. |+++++..+..+
T Consensus 15 ~ka~~~L~~~-gi~~~~~di~~~ 36 (73)
T cd03027 15 TAVRLFLREK-GLPYVEINIDIF 36 (73)
T ss_pred HHHHHHHHHC-CCceEEEECCCC
Confidence 4566788888 899999888753
No 194
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=20.48 E-value=2.3e+02 Score=17.60 Aligned_cols=32 Identities=6% Similarity=0.061 Sum_probs=26.5
Q ss_pred HHHHHHHhhhCCCCeEEEEecCHHHHhchhhhC
Q psy10038 18 RMSILELSHQWNDYKVTERKITMPDIVQLSREK 50 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~~ 50 (51)
-+.+.+.++++ |+++-.+.=+.+|+..|-+.|
T Consensus 145 l~el~~~A~~L-Gm~~LVEVh~~eEl~rAl~~g 176 (254)
T COG0134 145 LEELVDRAHEL-GMEVLVEVHNEEELERALKLG 176 (254)
T ss_pred HHHHHHHHHHc-CCeeEEEECCHHHHHHHHhCC
Confidence 35677889999 899999999999998887654
No 195
>PRK14741 spoVM stage V sporulation protein M; Provisional
Probab=20.41 E-value=64 Score=13.05 Aligned_cols=20 Identities=35% Similarity=0.468 Sum_probs=12.3
Q ss_pred CEEEecCCCCCCcccHHHHHH
Q psy10038 1 MEMITPTLDGLILPGITRMSI 21 (51)
Q Consensus 1 ~~~~TP~l~~~~L~GitR~~l 21 (51)
|++||=.+.. -|-|+.|..+
T Consensus 1 mkfytiklpk-flgg~vra~l 20 (26)
T PRK14741 1 MKFYTIKLPK-FLGGIVRAML 20 (26)
T ss_pred CceEEEeccH-HHHHHHHHHH
Confidence 5677765533 5777777554
No 196
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=20.41 E-value=1.4e+02 Score=15.10 Aligned_cols=20 Identities=5% Similarity=-0.135 Sum_probs=14.8
Q ss_pred HHHHHHhhhCCCCeEEEEecC
Q psy10038 19 MSILELSHQWNDYKVTERKIT 39 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~ 39 (51)
+...+++++. |+++++..+.
T Consensus 13 ~ka~~~L~~~-~i~~~~idi~ 32 (105)
T cd02977 13 RKALAWLEEH-GIEYEFIDYL 32 (105)
T ss_pred HHHHHHHHHc-CCCcEEEeec
Confidence 3456888888 8888877664
No 197
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=20.39 E-value=26 Score=16.72 Aligned_cols=19 Identities=5% Similarity=0.155 Sum_probs=14.2
Q ss_pred HHHHHHHhhhCCCCeEEEEe
Q psy10038 18 RMSILELSHQWNDYKVTERK 37 (51)
Q Consensus 18 R~~ll~~~~~~~g~~v~e~~ 37 (51)
.+.++.++++. |+.+.+..
T Consensus 27 ~e~~~~lA~~~-Gf~ft~~e 45 (64)
T TIGR03798 27 PEDRVAIAKEA-GFEFTGED 45 (64)
T ss_pred HHHHHHHHHHc-CCCCCHHH
Confidence 46788999999 88865543
No 198
>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=20.37 E-value=2.4e+02 Score=17.89 Aligned_cols=30 Identities=3% Similarity=-0.047 Sum_probs=22.0
Q ss_pred HHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 19 MSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 19 ~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
+.+.+.+++. |++|+...+...++.+....
T Consensus 362 ~~i~~~l~~i-Gi~v~i~~~~~~~~~~~~~~ 391 (484)
T cd08492 362 QLIQAQLKEV-GIDLQLKVLDAGTLTARRAS 391 (484)
T ss_pred HHHHHHHHhh-CeEEEEEEechHHHHHhhhc
Confidence 4556778888 89999998888777654433
No 199
>PLN00078 photosystem I reaction center subunit N (PsaN); Provisional
Probab=20.26 E-value=84 Score=17.23 Aligned_cols=15 Identities=27% Similarity=0.386 Sum_probs=12.4
Q ss_pred ccHHHHHHHHHhhhC
Q psy10038 14 PGITRMSILELSHQW 28 (51)
Q Consensus 14 ~GitR~~ll~~~~~~ 28 (51)
+||.|..++.++..-
T Consensus 32 ng~srr~llt~l~st 46 (122)
T PLN00078 32 NGISRRCLLTFLTST 46 (122)
T ss_pred cchhHHHHHHHHHhh
Confidence 699999999887653
No 200
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=20.17 E-value=82 Score=18.67 Aligned_cols=20 Identities=5% Similarity=0.147 Sum_probs=16.6
Q ss_pred CcccHHHHHHHHHhhhCCCCe
Q psy10038 12 ILPGITRMSILELSHQWNDYK 32 (51)
Q Consensus 12 ~L~GitR~~ll~~~~~~~g~~ 32 (51)
.+.-=||+.|++.++++ |+.
T Consensus 24 ~vs~~tr~rV~~~a~~l-gY~ 43 (327)
T PRK10423 24 FVSEAITAKVEAAIKEL-NYA 43 (327)
T ss_pred CCCHHHHHHHHHHHHHH-CCC
Confidence 46677999999999999 774
No 201
>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=20.14 E-value=1.7e+02 Score=18.68 Aligned_cols=33 Identities=3% Similarity=0.024 Sum_probs=24.1
Q ss_pred HHHHHHHHHhhhCCCCeEEEEecCHHHHhchhhh
Q psy10038 16 ITRMSILELSHQWNDYKVTERKITMPDIVQLSRE 49 (51)
Q Consensus 16 itR~~ll~~~~~~~g~~v~e~~i~~~~l~~ade~ 49 (51)
-+-+.+.+.+++. |++|+.+.+..+.+.+.-..
T Consensus 312 ~~a~~l~~~l~~~-Gi~v~l~~~~~~~~~~~~~~ 344 (448)
T cd08507 312 EDAKWIQQRLAKH-GIRLEIHILSYEELLEGDAD 344 (448)
T ss_pred HHHHHHHHHHHHc-CcEEEEEeecccchhhhhhh
Confidence 4445566778888 89999999988887765433
No 202
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=20.13 E-value=2.2e+02 Score=17.37 Aligned_cols=28 Identities=11% Similarity=0.102 Sum_probs=20.5
Q ss_pred HHhhhCCCCeEEEEecCHHHHhchhhhCC
Q psy10038 23 ELSHQWNDYKVTERKITMPDIVQLSREKR 51 (51)
Q Consensus 23 ~~~~~~~g~~v~e~~i~~~~l~~ade~~~ 51 (51)
+++++. |++|+....+..-+++|=++|+
T Consensus 29 ~iLE~~-Gy~Ve~~~~~~~~~~~al~~Gd 56 (290)
T TIGR03414 29 VLLEGL-GYQPKVTLLSVPVTYAGLKDGD 56 (290)
T ss_pred HHHHHc-CCcceeEEccHHHHHHHHHcCC
Confidence 455667 8999888777777777766664
Done!