Query 038528
Match_columns 91
No_of_seqs 102 out of 207
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 12:00:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038528.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038528hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00212 glutelin; Provisional 99.9 6.1E-26 1.3E-30 183.9 8.0 82 6-90 144-244 (493)
2 smart00835 Cupin_1 Cupin. This 99.3 1E-11 2.2E-16 85.3 8.2 74 8-90 73-146 (146)
3 PF00190 Cupin_1: Cupin; Inte 99.2 2E-11 4.3E-16 83.7 6.6 58 13-90 87-144 (144)
4 TIGR03404 bicupin_oxalic bicup 98.4 6.3E-07 1.4E-11 70.7 6.7 72 7-90 286-357 (367)
5 PLN00212 glutelin; Provisional 98.1 8.6E-06 1.9E-10 66.9 6.4 79 2-90 383-463 (493)
6 TIGR03404 bicupin_oxalic bicup 98.0 2.4E-05 5.3E-10 61.8 7.0 70 11-90 111-180 (367)
7 COG0662 {ManC} Mannose-6-phosp 97.8 5E-05 1.1E-09 51.4 5.4 41 9-52 74-114 (127)
8 PF07883 Cupin_2: Cupin domain 97.7 0.00014 3.1E-09 42.9 5.1 36 9-47 36-71 (71)
9 COG1917 Uncharacterized conser 97.3 0.00056 1.2E-08 45.7 4.6 38 9-49 81-118 (131)
10 PRK04190 glucose-6-phosphate i 97.1 0.0017 3.7E-08 47.5 6.0 40 9-51 119-158 (191)
11 TIGR03214 ura-cupin putative a 97.1 0.0016 3.5E-08 49.1 5.9 41 8-51 216-256 (260)
12 PRK13290 ectC L-ectoine syntha 96.6 0.0066 1.4E-07 41.5 5.4 37 9-50 74-110 (125)
13 COG2140 Thermophilic glucose-6 96.5 0.0066 1.4E-07 45.4 5.4 43 7-52 123-165 (209)
14 PRK09943 DNA-binding transcrip 96.2 0.014 3.1E-07 41.2 5.4 38 9-49 145-182 (185)
15 PRK11171 hypothetical protein; 95.9 0.022 4.8E-07 43.0 5.8 43 8-53 221-263 (266)
16 PRK15460 cpsB mannose-1-phosph 95.9 0.019 4.1E-07 47.1 5.7 39 9-50 423-461 (478)
17 TIGR01479 GMP_PMI mannose-1-ph 95.8 0.025 5.5E-07 45.7 5.7 39 9-50 414-452 (468)
18 COG3837 Uncharacterized conser 95.6 0.022 4.8E-07 41.1 4.4 41 9-52 81-123 (161)
19 PF12852 Cupin_6: Cupin 95.5 0.03 6.6E-07 39.2 4.8 34 3-36 47-81 (186)
20 PF02373 JmjC: JmjC domain, hy 95.5 0.015 3.3E-07 37.1 2.9 25 12-36 83-107 (114)
21 PF06560 GPI: Glucose-6-phosph 95.5 0.045 9.8E-07 40.0 5.6 40 10-52 110-149 (182)
22 PF01050 MannoseP_isomer: Mann 95.0 0.07 1.5E-06 37.6 5.2 37 9-48 101-137 (151)
23 PF03079 ARD: ARD/ARD' family; 94.9 0.11 2.4E-06 37.0 6.2 34 12-48 117-150 (157)
24 PRK11171 hypothetical protein; 94.5 0.12 2.5E-06 39.1 5.8 37 9-48 100-136 (266)
25 TIGR03214 ura-cupin putative a 94.0 0.16 3.4E-06 38.3 5.5 36 9-47 97-132 (260)
26 PF02311 AraC_binding: AraC-li 93.5 0.32 6.9E-06 30.6 5.6 39 8-49 39-77 (136)
27 COG1791 Uncharacterized conser 93.1 0.36 7.9E-06 35.4 5.8 40 8-50 116-155 (181)
28 PF05899 Cupin_3: Protein of u 93.0 0.087 1.9E-06 32.5 2.3 27 5-31 39-65 (74)
29 PF02041 Auxin_BP: Auxin bindi 91.3 0.64 1.4E-05 33.7 5.3 41 6-48 87-127 (167)
30 PF11699 CENP-C_C: Mif2/CENP-C 91.2 0.71 1.5E-05 29.8 5.0 30 8-37 49-78 (85)
31 TIGR03037 anthran_nbaC 3-hydro 90.8 0.54 1.2E-05 33.8 4.5 31 5-35 65-95 (159)
32 PF13621 Cupin_8: Cupin-like d 90.6 0.4 8.6E-06 33.9 3.7 24 10-33 209-232 (251)
33 PRK13264 3-hydroxyanthranilate 90.5 0.53 1.1E-05 34.4 4.3 30 4-33 70-99 (177)
34 PF06052 3-HAO: 3-hydroxyanthr 90.0 0.21 4.6E-06 35.7 1.9 35 2-36 67-101 (151)
35 PRK15457 ethanolamine utilizat 89.2 0.95 2.1E-05 34.5 4.9 38 8-51 191-229 (233)
36 COG3450 Predicted enzyme of th 88.9 0.49 1.1E-05 32.4 3.0 25 4-28 76-100 (116)
37 TIGR02272 gentisate_1_2 gentis 88.8 0.76 1.7E-05 36.4 4.4 38 9-49 119-156 (335)
38 PF08007 Cupin_4: Cupin superf 88.4 0.61 1.3E-05 35.9 3.6 30 10-43 176-205 (319)
39 TIGR00218 manA mannose-6-phosp 85.7 0.47 1E-05 36.2 1.6 20 10-29 151-170 (302)
40 PF06249 EutQ: Ethanolamine ut 84.5 3.3 7.1E-05 29.5 5.3 39 8-51 111-149 (152)
41 PRK10296 DNA-binding transcrip 81.8 3.3 7.3E-05 30.3 4.7 28 8-35 59-86 (278)
42 PRK10572 DNA-binding transcrip 81.1 4.1 8.9E-05 30.0 5.0 29 8-36 65-93 (290)
43 COG4101 Predicted mannose-6-ph 80.5 1.6 3.5E-05 30.7 2.4 31 13-46 91-121 (142)
44 COG4297 Uncharacterized protei 80.3 1.4 3E-05 31.7 2.1 25 9-33 84-108 (163)
45 COG1482 ManA Phosphomannose is 79.0 1.5 3.3E-05 34.5 2.2 22 9-30 157-178 (312)
46 TIGR02451 anti_sig_ChrR anti-s 77.6 2.7 5.9E-05 30.9 3.0 36 12-50 163-198 (215)
47 PRK13501 transcriptional activ 77.5 4.2 9.2E-05 30.0 4.1 27 8-34 54-80 (290)
48 PRK15131 mannose-6-phosphate i 76.0 2.2 4.8E-05 34.2 2.3 23 9-31 236-258 (389)
49 PF06339 Ectoine_synth: Ectoin 74.7 7.2 0.00016 27.2 4.3 46 6-52 63-112 (126)
50 COG2850 Uncharacterized conser 74.4 1.2 2.6E-05 36.1 0.4 23 13-35 182-204 (383)
51 KOG2107 Uncharacterized conser 74.3 2.3 5.1E-05 31.2 1.9 23 13-35 119-141 (179)
52 PRK13503 transcriptional activ 72.9 3.4 7.4E-05 29.9 2.5 26 8-33 51-76 (278)
53 PRK13502 transcriptional activ 72.5 7.4 0.00016 28.4 4.2 26 8-33 54-79 (282)
54 PF05118 Asp_Arg_Hydrox: Aspar 72.5 10 0.00022 26.5 4.7 28 10-37 124-151 (163)
55 PRK13500 transcriptional activ 72.5 7.9 0.00017 29.3 4.5 27 8-34 84-110 (312)
56 TIGR02297 HpaA 4-hydroxyphenyl 71.5 7 0.00015 28.5 3.9 28 9-36 61-88 (287)
57 PF11142 DUF2917: Protein of u 63.4 13 0.00027 22.5 3.3 30 3-32 28-58 (63)
58 PRK15450 signal transduction p 61.7 3.1 6.8E-05 27.1 0.4 35 10-50 36-70 (85)
59 TIGR02272 gentisate_1_2 gentis 61.4 18 0.00038 28.8 4.6 24 10-33 288-311 (335)
60 PF13734 Inhibitor_I69: Spi pr 57.5 12 0.00026 24.6 2.6 21 22-45 37-57 (96)
61 PF12973 Cupin_7: ChrR Cupin-l 57.4 8.4 0.00018 24.0 1.8 22 12-33 60-81 (91)
62 PF04209 HgmA: homogentisate 1 55.0 17 0.00036 29.9 3.6 31 12-47 166-196 (424)
63 PF09347 DUF1989: Domain of un 54.0 20 0.00044 25.5 3.5 32 4-35 4-40 (166)
64 PF14955 MRP-S24: Mitochondria 53.8 24 0.00051 25.0 3.7 35 41-86 84-118 (136)
65 PRK10371 DNA-binding transcrip 53.8 22 0.00048 26.8 3.9 28 8-35 62-89 (302)
66 cd00433 Peptidase_M17 Cytosol 51.4 19 0.00041 29.7 3.3 35 8-44 296-330 (468)
67 PRK00913 multifunctional amino 49.4 22 0.00047 29.6 3.4 33 10-44 312-344 (483)
68 PF11183 PmrD: Polymyxin resis 48.8 22 0.00048 23.1 2.7 33 11-46 37-69 (82)
69 PHA02984 hypothetical protein; 47.5 60 0.0013 25.6 5.4 45 5-53 110-154 (286)
70 PF02787 CPSase_L_D3: Carbamoy 47.4 9.3 0.0002 25.9 0.9 20 71-90 71-90 (123)
71 TIGR03424 urea_degr_1 urea car 47.2 31 0.00068 25.4 3.7 33 4-36 8-45 (198)
72 PRK05341 homogentisate 1,2-dio 47.1 18 0.00039 29.9 2.6 20 12-31 174-193 (438)
73 TIGR01015 hmgA homogentisate 1 46.3 19 0.00041 29.7 2.6 22 13-34 169-190 (429)
74 PLN02658 homogentisate 1,2-dio 45.1 20 0.00044 29.6 2.6 21 12-32 167-187 (435)
75 PRK05015 aminopeptidase B; Pro 43.0 31 0.00066 28.5 3.3 34 9-44 248-281 (424)
76 PF00122 E1-E2_ATPase: E1-E2 A 42.3 11 0.00025 26.6 0.7 18 10-27 48-65 (230)
77 TIGR02988 YaaA_near_RecF S4 do 42.0 16 0.00034 21.1 1.2 15 9-23 45-59 (59)
78 PHA00144 major head protein 41.4 28 0.0006 28.8 2.8 14 73-86 255-268 (438)
79 KOG3706 Uncharacterized conser 38.8 19 0.00042 30.7 1.6 21 13-33 384-404 (629)
80 PLN02288 mannose-6-phosphate i 38.3 23 0.0005 28.7 1.9 20 10-29 251-270 (394)
81 PRK11507 ribosome-associated p 37.2 21 0.00045 22.4 1.2 18 7-24 46-63 (70)
82 PRK09685 DNA-binding transcrip 36.7 66 0.0014 23.6 4.1 28 8-35 87-114 (302)
83 cd00060 FHA Forkhead associate 36.2 41 0.0009 20.1 2.5 23 10-32 79-101 (102)
84 COG2501 S4-like RNA binding pr 35.5 24 0.00053 22.3 1.3 19 7-25 46-64 (73)
85 PF15517 TBPIP_N: TBP-interact 35.3 29 0.00064 23.2 1.7 16 18-33 64-79 (99)
86 TIGR03028 EpsE polysaccharide 34.1 49 0.0011 24.3 3.0 20 11-30 148-167 (239)
87 PF07506 RepB: RepB plasmid pa 33.9 27 0.00058 24.8 1.5 19 71-89 20-38 (185)
88 PF09700 Cas_Cmr3: CRISPR-asso 33.9 29 0.00062 26.6 1.8 17 20-36 307-323 (351)
89 PF07103 DUF1365: Protein of u 33.4 63 0.0014 24.4 3.5 33 24-61 105-138 (254)
90 TIGR01888 cas_cmr3 CRISPR-asso 32.8 25 0.00055 27.2 1.3 22 15-36 288-309 (337)
91 PF13275 S4_2: S4 domain; PDB: 32.7 41 0.00088 20.6 2.0 17 7-23 42-58 (65)
92 COG3508 HmgA Homogentisate 1,2 32.5 38 0.00082 27.9 2.3 24 11-34 165-188 (427)
93 PF07497 Rho_RNA_bind: Rho ter 32.5 22 0.00048 22.6 0.8 18 4-21 33-50 (78)
94 TIGR02408 ectoine_ThpD ectoine 32.3 1E+02 0.0022 23.1 4.5 40 10-50 211-250 (277)
95 PF15572 Imm26: Immunity prote 32.2 1.4E+02 0.0031 19.8 4.6 33 10-52 7-39 (96)
96 PF09023 Staphostatin_B: Staph 32.1 24 0.00052 23.9 0.9 17 2-18 30-46 (107)
97 PF15428 Imm14: Immunity prote 31.8 32 0.00069 22.6 1.5 15 15-29 1-15 (129)
98 cd04459 Rho_CSD Rho_CSD: Rho p 31.2 20 0.00043 22.2 0.4 14 9-22 36-49 (68)
99 TIGR03425 urea_degr_2 urea car 31.2 76 0.0017 24.0 3.6 33 4-36 7-44 (233)
100 TIGR03876 cas_csaX CRISPR-asso 30.9 21 0.00045 27.6 0.5 16 61-76 202-217 (281)
101 cd02790 MopB_CT_Formate-Dh_H F 30.8 12 0.00027 23.6 -0.6 20 3-22 38-57 (116)
102 COG3273 Uncharacterized conser 30.1 32 0.00069 25.8 1.4 19 18-37 148-166 (204)
103 PF01568 Molydop_binding: Moly 30.0 8.9 0.00019 24.1 -1.4 20 3-22 33-52 (110)
104 cd02788 MopB_CT_NDH-1_NuoG2-N7 30.0 13 0.00027 23.5 -0.6 20 3-22 32-51 (96)
105 PF00856 SET: SET domain; Int 29.3 24 0.00052 22.3 0.6 18 11-28 7-24 (162)
106 PRK06933 type III secretion sy 29.2 1E+02 0.0023 24.2 4.2 15 11-25 173-187 (308)
107 cd02786 MopB_CT_3 The MopB_CT_ 29.1 14 0.00029 23.6 -0.6 19 3-21 34-52 (116)
108 KOG1356 Putative transcription 29.0 20 0.00043 32.1 0.2 19 16-34 805-823 (889)
109 PF00498 FHA: FHA domain; Int 28.9 26 0.00057 20.1 0.7 12 11-22 56-67 (68)
110 PF08281 Sigma70_r4_2: Sigma-7 28.7 21 0.00046 19.8 0.2 23 68-90 22-44 (54)
111 cd02782 MopB_CT_1 The MopB_CT_ 28.2 15 0.00032 24.0 -0.6 20 3-22 36-55 (129)
112 PRK09919 anti-adapter protein 28.0 83 0.0018 21.5 3.1 35 15-50 33-67 (114)
113 PF06413 Neugrin: Neugrin; In 27.8 28 0.0006 26.2 0.8 18 73-90 30-47 (225)
114 PF09926 DUF2158: Uncharacteri 27.6 43 0.00092 19.7 1.4 16 14-29 1-16 (53)
115 cd02792 MopB_CT_Formate-Dh-Na- 27.5 15 0.00032 23.5 -0.6 20 3-22 38-57 (122)
116 COG4766 EutQ Ethanolamine util 27.3 40 0.00086 24.7 1.5 19 15-33 141-159 (176)
117 cd02791 MopB_CT_Nitrate-R-NapA 27.0 16 0.00034 23.4 -0.6 18 3-20 38-55 (122)
118 cd03699 lepA_II lepA_II: This 26.9 40 0.00087 20.7 1.3 17 9-25 55-71 (86)
119 PF01052 SpoA: Surface present 26.8 43 0.00092 20.1 1.4 15 11-25 26-40 (77)
120 TIGR00218 manA mannose-6-phosp 26.7 79 0.0017 24.1 3.1 23 10-32 271-293 (302)
121 PF14977 FAM194: FAM194 protei 26.6 2.1E+02 0.0044 21.4 5.2 26 10-35 7-34 (208)
122 PF05986 ADAM_spacer1: ADAM-TS 26.3 42 0.00092 22.1 1.4 14 18-31 18-31 (114)
123 KOG0024 Sorbitol dehydrogenase 26.1 39 0.00083 27.4 1.3 28 3-30 72-99 (354)
124 PRK15131 mannose-6-phosphate i 25.8 72 0.0016 25.6 2.8 24 9-32 356-379 (389)
125 cd04761 HTH_MerR-SF Helix-Turn 25.7 33 0.00072 18.3 0.7 18 73-90 1-18 (49)
126 PF11213 DUF3006: Protein of u 25.5 68 0.0015 19.5 2.1 20 13-33 33-52 (71)
127 PF06056 Terminase_5: Putative 25.4 42 0.00091 19.9 1.1 22 69-90 10-31 (58)
128 PF01476 LysM: LysM domain; I 25.4 46 0.001 17.4 1.2 13 11-23 32-44 (44)
129 KOG1392 Acetyl-CoA acetyltrans 25.3 40 0.00086 27.4 1.3 18 71-88 213-230 (465)
130 cd02781 MopB_CT_Acetylene-hydr 25.2 18 0.00039 23.5 -0.6 19 3-21 36-54 (130)
131 KOG4116 Ubiquinol cytochrome c 25.2 58 0.0013 21.5 1.8 19 18-36 54-73 (90)
132 TIGR02950 SigM_subfam RNA poly 24.4 40 0.00088 22.0 1.0 23 68-90 117-139 (154)
133 TIGR02937 sigma70-ECF RNA poly 24.4 42 0.00091 21.0 1.1 23 68-90 122-144 (158)
134 KOG3995 3-hydroxyanthranilate 24.3 55 0.0012 25.2 1.8 27 3-29 68-94 (279)
135 TIGR03436 acidobact_VWFA VWFA- 24.2 1.2E+02 0.0026 22.4 3.6 48 5-52 18-65 (296)
136 PF04970 LRAT: Lecithin retino 24.1 31 0.00068 22.6 0.4 28 9-36 2-30 (125)
137 cd02794 MopB_CT_DmsA-EC The Mo 23.8 20 0.00043 23.2 -0.6 20 3-22 33-52 (121)
138 KOG0141 Isovaleryl-CoA dehydro 23.8 1.3E+02 0.0028 24.7 3.8 37 15-54 181-217 (421)
139 PF14623 Vint: Hint-domain 23.7 36 0.00078 24.6 0.7 18 9-26 18-35 (162)
140 PF12708 Pectate_lyase_3: Pect 23.7 69 0.0015 21.9 2.1 17 15-33 31-47 (225)
141 PF08220 HTH_DeoR: DeoR-like h 23.7 40 0.00087 19.5 0.8 17 74-90 16-32 (57)
142 cd06171 Sigma70_r4 Sigma70, re 23.7 53 0.0012 16.8 1.3 21 69-89 23-43 (55)
143 PF08605 Rad9_Rad53_bind: Fung 23.6 1.1E+02 0.0024 21.2 3.1 34 4-49 50-83 (131)
144 KOG3416 Predicted nucleic acid 23.6 37 0.0008 23.9 0.7 20 13-32 61-80 (134)
145 cd00508 MopB_CT_Fdh-Nap-like T 23.6 20 0.00042 22.7 -0.6 19 3-21 38-56 (120)
146 cd02785 MopB_CT_4 The MopB_CT_ 23.5 20 0.00043 23.3 -0.6 20 3-22 35-54 (124)
147 cd02787 MopB_CT_ydeP The MopB_ 23.1 19 0.00042 23.0 -0.7 20 3-22 34-53 (112)
148 PTZ00412 leucyl aminopeptidase 22.9 62 0.0013 27.8 2.0 32 11-44 358-389 (569)
149 PF13693 HTH_35: Winged helix- 22.9 46 0.001 21.2 1.0 15 75-89 44-58 (78)
150 KOG2757 Mannose-6-phosphate is 22.4 1.2E+02 0.0026 25.1 3.4 22 7-28 369-390 (411)
151 PRK09570 rpoH DNA-directed RNA 22.3 52 0.0011 21.1 1.1 12 11-22 49-60 (79)
152 TIGR02276 beta_rpt_yvtn 40-res 22.2 1.2E+02 0.0027 15.2 3.4 14 23-36 1-14 (42)
153 TIGR02196 GlrX_YruB Glutaredox 22.2 79 0.0017 17.4 1.9 16 68-83 59-74 (74)
154 TIGR01570 A_thal_3588 uncharac 22.2 1.1E+02 0.0024 22.2 2.9 29 17-45 120-158 (161)
155 PLN03115 ferredoxin--NADP(+) r 22.1 1E+02 0.0022 24.5 3.0 31 12-45 190-222 (367)
156 PF13550 Phage-tail_3: Putativ 22.1 48 0.001 21.9 1.0 14 12-25 138-151 (164)
157 PF07653 SH3_2: Variant SH3 do 22.0 58 0.0013 18.2 1.2 14 10-23 14-27 (55)
158 PF14890 Intein_splicing: Inte 21.9 53 0.0011 24.9 1.3 19 5-23 74-92 (323)
159 KOG2597 Predicted aminopeptida 21.8 1.1E+02 0.0025 25.9 3.3 31 12-44 335-365 (513)
160 COG2411 Uncharacterized conser 21.7 1.2E+02 0.0026 22.5 3.1 26 8-34 22-47 (188)
161 PF01191 RNA_pol_Rpb5_C: RNA p 21.7 55 0.0012 20.6 1.2 11 12-22 47-57 (74)
162 TIGR02480 fliN flagellar motor 21.7 55 0.0012 20.0 1.1 13 11-23 26-38 (77)
163 COG3423 Nlp Predicted transcri 21.6 59 0.0013 21.1 1.3 15 75-89 50-64 (82)
164 TIGR03805 beta_helix_1 paralle 21.6 54 0.0012 25.3 1.4 17 12-28 6-22 (314)
165 cd02778 MopB_CT_Thiosulfate-R- 21.5 23 0.0005 22.7 -0.6 20 3-22 33-52 (123)
166 PF10377 ATG11: Autophagy-rela 21.3 57 0.0012 22.3 1.3 17 15-31 108-124 (129)
167 cd02779 MopB_CT_Arsenite-Ox Th 21.0 24 0.00052 22.7 -0.6 20 3-22 36-55 (115)
168 PF09340 NuA4: Histone acetylt 20.9 34 0.00074 21.6 0.1 17 59-75 32-48 (80)
169 cd00118 LysM Lysin domain, fou 20.8 62 0.0013 15.6 1.1 13 11-23 34-46 (46)
170 PF10948 DUF2635: Protein of u 20.7 49 0.0011 19.1 0.7 14 11-24 32-45 (47)
171 PF13384 HTH_23: Homeodomain-l 20.7 61 0.0013 17.5 1.1 21 70-90 15-35 (50)
172 PF13759 2OG-FeII_Oxy_5: Putat 20.2 2.3E+02 0.0051 17.6 4.4 28 9-36 65-92 (101)
173 COG0147 TrpE Anthranilate/para 20.2 25 0.00054 28.9 -0.8 60 11-78 204-263 (462)
No 1
>PLN00212 glutelin; Provisional
Probab=99.93 E-value=6.1e-26 Score=183.90 Aligned_cols=82 Identities=13% Similarity=0.246 Sum_probs=73.5
Q ss_pred CCCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCC---C--CCCceeecCCCc--------------c
Q 038528 6 EDDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTED---D--SYFEPVIGAYTS--------------I 66 (91)
Q Consensus 6 ~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~---~--~~~~~flag~~~--------------~ 66 (91)
+++||+++||+||||+||||++||+||+||+ +|++++++|++|. + .+++|||||+++ +
T Consensus 144 d~hqkv~~lr~GDViaiPaG~~hw~yN~Gd~---~~v~v~~~d~~n~~Nqld~~~r~F~LaG~~~~~~~~~~~~~~~~~~ 220 (493)
T PLN00212 144 DEHQKIHQFRQGDVVALPAGVAHWFYNDGDA---PVVALYVYDINNNANQLEPRQREFLLAGNNNRQQQVYGRSIEQHSG 220 (493)
T ss_pred cccccceEeccCCEEEECCCCeEEEEeCCCC---cEEEEEEEeccccccccCCCcceeeccCCCcccccccccccccccc
Confidence 4588999999999999999999999999986 8999999999984 3 447889999864 3
Q ss_pred CceecccCHHHHHHHhCCCccccc
Q 038528 67 SDLILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 67 ~ni~~GF~~~iL~~Af~v~~~~i~ 90 (91)
+|||+|||+++|++||||+.++++
T Consensus 221 ~nifsGF~~e~La~Afnv~~e~~~ 244 (493)
T PLN00212 221 QNIFSGFSTELLSEALGINAQVAK 244 (493)
T ss_pred CchhhcCCHHHHHHHHCCCHHHHH
Confidence 689999999999999999999886
No 2
>smart00835 Cupin_1 Cupin. This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.
Probab=99.32 E-value=1e-11 Score=85.29 Aligned_cols=74 Identities=18% Similarity=0.319 Sum_probs=60.6
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCCCCceeecCCCccCceecccCHHHHHHHhCCCcc
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVLQSAFKRAVL 87 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL~~Af~v~~~ 87 (91)
++.++.+++||++.||+|+.||+.|.++. ++++++ +...+. .+.+|++|. .++|+||++++|+++||++.+
T Consensus 73 ~~~~~~l~~GD~~~ip~g~~H~~~n~~~~---~~~~l~-~~~~~~--~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~ 143 (146)
T smart00835 73 KVYDARLREGDVFVVPQGHPHFQVNSGDE---NLEFVA-FNTNDP--NRRFFLAGR---NSVLRGLPPEVLAAAFGVSAE 143 (146)
T ss_pred eEEEEEecCCCEEEECCCCEEEEEcCCCC---CEEEEE-EecCCC--CceeEeecc---cchhhcCCHHHHHHHhCcChH
Confidence 45588999999999999999999999865 899885 433332 255677774 489999999999999999998
Q ss_pred ccc
Q 038528 88 LLG 90 (91)
Q Consensus 88 ~i~ 90 (91)
+++
T Consensus 144 ~~~ 146 (146)
T smart00835 144 EVR 146 (146)
T ss_pred HcC
Confidence 764
No 3
>PF00190 Cupin_1: Cupin; InterPro: IPR006045 This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant. ; GO: 0045735 nutrient reservoir activity; PDB: 2E9Q_A 2EVX_A 1OD5_A 1UCX_A 1UD1_C 1FXZ_C 3KGL_C 3KSC_D 1UIJ_F 1IPK_B ....
Probab=99.25 E-value=2e-11 Score=83.66 Aligned_cols=58 Identities=19% Similarity=0.318 Sum_probs=45.0
Q ss_pred eeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCCCCceeecCCCccCceecccCHHHHHHHhCCCccccc
Q 038528 13 DIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL~~Af~v~~~~i~ 90 (91)
++++|||+.||+|++||++|.+++ +...+.++++.+.. +. +++++|+++|+++.++.+
T Consensus 87 ~l~~Gdv~~vP~G~~h~~~n~~~~---~~~~~~~f~~~~~~--------------~~---l~~~v~~~~F~~~~~~~~ 144 (144)
T PF00190_consen 87 RLKAGDVFVVPAGHPHWIINDGDD---EALVLIIFDTNNPP--------------NQ---LPPEVLAKAFFLSGEEVQ 144 (144)
T ss_dssp EEETTEEEEE-TT-EEEEEECSSS---SEEEEEEEEESSTT--------------GE---SSHHHHHHHEESSHHHHB
T ss_pred eeecccceeeccceeEEEEcCCCC---CCEEEEEEECCCCc--------------cc---CCcHHHHHhcCCCcCcCC
Confidence 499999999999999999999865 45666666666552 11 999999999999988754
No 4
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=98.43 E-value=6.3e-07 Score=70.75 Aligned_cols=72 Identities=15% Similarity=0.227 Sum_probs=58.4
Q ss_pred CCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCCCCceeecCCCccCceecccCHHHHHHHhCCCc
Q 038528 7 DDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVLQSAFKRAV 86 (91)
Q Consensus 7 ~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL~~Af~v~~ 86 (91)
++.+++.|+.||++.+|+|..||+.|.|++ +|+++++++.....+. .-.+.++....++|++.|+++.
T Consensus 286 g~~~~~~l~~GD~~~iP~g~~H~i~N~G~e---~l~fL~if~s~~~~~i---------~l~~~l~~~p~~vl~~~~~~~~ 353 (367)
T TIGR03404 286 GNARTFDYQAGDVGYVPRNMGHYVENTGDE---TLVFLEVFKADRFADV---------SLNQWLALTPPQLVAAHLNLDD 353 (367)
T ss_pred CcEEEEEECCCCEEEECCCCeEEEEECCCC---CEEEEEEECCCCCcee---------EHHHHHhhCCHHHHHHHhCcCH
Confidence 345788999999999999999999999976 8999999977433111 1146778899999999999998
Q ss_pred cccc
Q 038528 87 LLLG 90 (91)
Q Consensus 87 ~~i~ 90 (91)
+.++
T Consensus 354 ~~~~ 357 (367)
T TIGR03404 354 EVID 357 (367)
T ss_pred HHHH
Confidence 7764
No 5
>PLN00212 glutelin; Provisional
Probab=98.08 E-value=8.6e-06 Score=66.92 Aligned_cols=79 Identities=9% Similarity=0.123 Sum_probs=60.7
Q ss_pred ccccCCCceee--eeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCCCCceeecCCCccCceecccCHHHHH
Q 038528 2 SWADEDDIRTL--DIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVLQ 79 (91)
Q Consensus 2 ~~v~~~~~~~~--~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL~ 79 (91)
.+|.+...+.+ .|++|||+.||+|.++-..-. ++ .+.++++-.+.+. ...++||- .|+|++...++|+
T Consensus 383 qvV~~~g~~vf~~~L~~GdvfVVPqg~~v~~~A~-~e---gfe~v~F~tna~~---~~s~laG~---~Sv~~alp~eVla 452 (493)
T PLN00212 383 QVVSNNGKTVFNGVLRPGQLLIIPQHYAVLKKAE-RE---GCQYIAFKTNANA---MVSHIAGK---NSIFRALPVDVIA 452 (493)
T ss_pred EEEcCCCCEEEEEEEcCCCEEEECCCCeEEEeec-CC---ceEEEEeecCCCc---cccccccH---HHHHHhCCHHHHH
Confidence 45655545555 899999999999998876544 22 6888887766543 34467774 5899999999999
Q ss_pred HHhCCCccccc
Q 038528 80 SAFKRAVLLLG 90 (91)
Q Consensus 80 ~Af~v~~~~i~ 90 (91)
.||+++.++++
T Consensus 453 ~Af~is~eea~ 463 (493)
T PLN00212 453 NAYRISREEAR 463 (493)
T ss_pred HHcCCCHHHHH
Confidence 99999998775
No 6
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=97.99 E-value=2.4e-05 Score=61.82 Aligned_cols=70 Identities=16% Similarity=0.204 Sum_probs=51.8
Q ss_pred eeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCCCCceeecCCCccCceecccCHHHHHHHhCCCccccc
Q 038528 11 TLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL~~Af~v~~~~i~ 90 (91)
...|++||++.+|+|.+|++.|.++ ..+++.++++..--.+..+.+ .+.|....+++|+.+|+++.++++
T Consensus 111 ~~~L~~GD~~~fP~g~~H~~~n~~~----~~~~l~vf~~~~f~~~~~~~~------~~~l~~~p~~Vla~~f~l~~~~~~ 180 (367)
T TIGR03404 111 IDDVGAGDLWYFPPGIPHSLQGLDE----GCEFLLVFDDGNFSEDGTFLV------TDWLAHTPKDVLAKNFGVPESAFD 180 (367)
T ss_pred EeEECCCCEEEECCCCeEEEEECCC----CeEEEEEeCCcccCCcceeeH------HHHHHhCCHHHHHHHhCCCHHHHH
Confidence 3579999999999999999999953 467777777754211111111 235566999999999999998765
No 7
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=97.82 E-value=5e-05 Score=51.35 Aligned_cols=41 Identities=12% Similarity=0.154 Sum_probs=37.6
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTED 52 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~ 52 (91)
-++..|+.||.+.||+|+.|++.|.|.. +|.++.+..+...
T Consensus 74 ~~~~~v~~gd~~~iP~g~~H~~~N~G~~---~L~liei~~p~~~ 114 (127)
T COG0662 74 GEEVEVKAGDSVYIPAGTPHRVRNTGKI---PLVLIEVQSPPYL 114 (127)
T ss_pred CEEEEecCCCEEEECCCCcEEEEcCCCc---ceEEEEEecCCcC
Confidence 5788999999999999999999999985 9999999988876
No 8
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=97.66 E-value=0.00014 Score=42.95 Aligned_cols=36 Identities=14% Similarity=0.386 Sum_probs=32.0
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEe
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIF 47 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~ 47 (91)
.+...+++||.+.+|+|+.+.+.|.+++ +++++.++
T Consensus 36 ~~~~~l~~Gd~~~i~~~~~H~~~n~~~~---~~~~l~V~ 71 (71)
T PF07883_consen 36 GERVELKPGDAIYIPPGVPHQVRNPGDE---PARFLVVY 71 (71)
T ss_dssp TEEEEEETTEEEEEETTSEEEEEEESSS---EEEEEEEE
T ss_pred cEEeEccCCEEEEECCCCeEEEEECCCC---CEEEEEEC
Confidence 4589999999999999999999999886 78888764
No 9
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=97.26 E-value=0.00056 Score=45.71 Aligned_cols=38 Identities=18% Similarity=0.370 Sum_probs=31.7
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeec
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSN 49 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~ 49 (91)
.+.+.+++||++.+|+|+.||+.|.++. ....+++...
T Consensus 81 g~~~~l~~Gd~i~ip~g~~H~~~a~~~~---~~~~l~v~~~ 118 (131)
T COG1917 81 GEKKELKAGDVIIIPPGVVHGLKAVEDE---PMVLLLVFPL 118 (131)
T ss_pred CCceEecCCCEEEECCCCeeeeccCCCC---ceeEEEEeee
Confidence 6788999999999999999999999876 4555666554
No 10
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=97.09 E-value=0.0017 Score=47.51 Aligned_cols=40 Identities=15% Similarity=0.183 Sum_probs=35.2
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTE 51 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n 51 (91)
.+...++.||++.||+|++|.+.|.++. +|+.+++....-
T Consensus 119 ~~~~~v~pGd~v~IPpg~~H~~iN~G~e---pl~fl~v~p~~~ 158 (191)
T PRK04190 119 ARWIEMEPGTVVYVPPYWAHRSVNTGDE---PLVFLACYPADA 158 (191)
T ss_pred EEEEEECCCCEEEECCCCcEEeEECCCC---CEEEEEEEcCCc
Confidence 4678999999999999999999999975 899999876553
No 11
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=97.07 E-value=0.0016 Score=49.10 Aligned_cols=41 Identities=10% Similarity=-0.029 Sum_probs=34.3
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTE 51 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n 51 (91)
+.+.+.++.||++.||||+++|++|.|++ +|+.+--=|.+-
T Consensus 216 ~g~~~~V~~GD~i~i~~~~~h~~~~~G~~---~~~~l~ykd~nr 256 (260)
T TIGR03214 216 DNNWVPVEAGDYIWMGAYCPQACYAGGRG---EFRYLLYKDMNR 256 (260)
T ss_pred CCEEEEecCCCEEEECCCCCEEEEecCCC---cEEEEEEccccC
Confidence 46789999999999999999999999985 788765555443
No 12
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=96.59 E-value=0.0066 Score=41.47 Aligned_cols=37 Identities=22% Similarity=0.473 Sum_probs=32.8
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
.+.+.|++||.+.+|+|..|.+.|. . ++++++++.+.
T Consensus 74 g~~~~L~aGD~i~~~~~~~H~~~N~--e---~~~~l~v~tP~ 110 (125)
T PRK13290 74 GEVHPIRPGTMYALDKHDRHYLRAG--E---DMRLVCVFNPP 110 (125)
T ss_pred CEEEEeCCCeEEEECCCCcEEEEcC--C---CEEEEEEECCC
Confidence 5679999999999999999999997 2 79999988754
No 13
>COG2140 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]
Probab=96.52 E-value=0.0066 Score=45.38 Aligned_cols=43 Identities=21% Similarity=0.431 Sum_probs=37.7
Q ss_pred CCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCC
Q 038528 7 DDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTED 52 (91)
Q Consensus 7 ~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~ 52 (91)
++-++..++.||++-||.|-.||+.|+|+. +|++..++.....
T Consensus 123 G~~~v~~~~~Gd~iyVPp~~gH~t~N~Gd~---pLvf~~v~~~~~~ 165 (209)
T COG2140 123 GEARVIAVRAGDVIYVPPGYGHYTINTGDE---PLVFLNVYPADAG 165 (209)
T ss_pred CcEEEEEecCCcEEEeCCCcceEeecCCCC---CEEEEEEEeCCCC
Confidence 456788999999999999999999999997 9999999866543
No 14
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=96.18 E-value=0.014 Score=41.20 Aligned_cols=38 Identities=13% Similarity=0.183 Sum_probs=32.7
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeec
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSN 49 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~ 49 (91)
-+.+.|+.||.+.+|++++|.+.|.++. +.+++.+..+
T Consensus 145 ~~~~~l~~Gd~~~~~~~~~H~~~n~~~~---~~~~l~~~~p 182 (185)
T PRK09943 145 GQDYHLVAGQSYAINTGIPHSFSNTSAG---ICRIISAHTP 182 (185)
T ss_pred CEEEEecCCCEEEEcCCCCeeeeCCCCC---CeEEEEEeCC
Confidence 3678999999999999999999998875 7888877654
No 15
>PRK11171 hypothetical protein; Provisional
Probab=95.95 E-value=0.022 Score=43.00 Aligned_cols=43 Identities=7% Similarity=-0.020 Sum_probs=35.8
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDD 53 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~ 53 (91)
+-+.+.|+.||.+.+|+++++|+.|.++. +++.+..-|.+-+|
T Consensus 221 ~~~~~~l~~GD~i~~~~~~~h~~~N~g~~---~~~yl~~k~~nr~~ 263 (266)
T PRK11171 221 NNDWVEVEAGDFIWMRAYCPQACYAGGPG---PFRYLLYKDVNRHP 263 (266)
T ss_pred CCEEEEeCCCCEEEECCCCCEEEECCCCC---cEEEEEEcccccCc
Confidence 45788999999999999999999999885 78877666655443
No 16
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=95.93 E-value=0.019 Score=47.10 Aligned_cols=39 Identities=10% Similarity=0.072 Sum_probs=34.9
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
-+.+.|.+||.+.+|+|++|.+.|.++. +|+++.+....
T Consensus 423 g~~~~L~~GDSi~ip~g~~H~~~N~g~~---~l~iI~V~~g~ 461 (478)
T PRK15460 423 GDIKLLGENESIYIPLGATHCLENPGKI---PLDLIEVRSGS 461 (478)
T ss_pred CEEEEecCCCEEEECCCCcEEEEcCCCC---CEEEEEEEcCC
Confidence 4689999999999999999999999986 89999997554
No 17
>TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal.
Probab=95.76 E-value=0.025 Score=45.73 Aligned_cols=39 Identities=15% Similarity=0.168 Sum_probs=34.3
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
-+.+.|++||.+.+|+|+.|.+.|.++. +++++.+..+.
T Consensus 414 g~~~~l~~GDsi~ip~~~~H~~~N~g~~---~~~~i~v~~~~ 452 (468)
T TIGR01479 414 DETLLLTENESTYIPLGVIHRLENPGKI---PLELIEVQSGS 452 (468)
T ss_pred CEEEEecCCCEEEECCCCcEEEEcCCCC---CEEEEEEEcCC
Confidence 4678999999999999999999999986 89999987533
No 18
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=95.64 E-value=0.022 Score=41.11 Aligned_cols=41 Identities=17% Similarity=0.197 Sum_probs=34.0
Q ss_pred ceeeeeccCcEEEeCCC--CeEEEeeCCCCCcccEEEEEEeecCCC
Q 038528 9 IRTLDIRRGDVYRLQPG--SVFYIESNLEQEREKLRIYAIFSNTED 52 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG--~~~y~~N~~~~e~~~L~i~~l~d~~n~ 52 (91)
-..+.||.||++..||| ++|-++|+++. .|+..++=+..+.
T Consensus 81 ~~e~~lrpGD~~gFpAG~~~aHhliN~s~~---~~~yL~vG~r~~~ 123 (161)
T COG3837 81 GGETRLRPGDSAGFPAGVGNAHHLINRSDV---ILRYLEVGTREPD 123 (161)
T ss_pred CeeEEecCCceeeccCCCcceeEEeecCCc---eEEEEEecccccc
Confidence 45789999999999999 99999999875 7887777655543
No 19
>PF12852 Cupin_6: Cupin
Probab=95.55 E-value=0.03 Score=39.19 Aligned_cols=34 Identities=18% Similarity=0.418 Sum_probs=28.3
Q ss_pred ccc-CCCceeeeeccCcEEEeCCCCeEEEeeCCCC
Q 038528 3 WAD-EDDIRTLDIRRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 3 ~v~-~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~ 36 (91)
|+. ++.+....|+.||++.+|.|+.|++....+.
T Consensus 47 ~l~~~~~~~~~~L~~GDivllp~g~~H~l~~~~~~ 81 (186)
T PF12852_consen 47 WLRVPGGGEPIRLEAGDIVLLPRGTAHVLSSDPDS 81 (186)
T ss_pred EEEEcCCCCeEEecCCCEEEEcCCCCeEeCCCCCC
Confidence 555 4447889999999999999999999877654
No 20
>PF02373 JmjC: JmjC domain, hydroxylase; InterPro: IPR013129 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with jmjN (see IPR003349 from INTERPRO) and belongs to the Cupin superfamily [].; PDB: 2YU2_A 2YU1_A 3AVR_A 3AVS_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=95.49 E-value=0.015 Score=37.09 Aligned_cols=25 Identities=12% Similarity=0.204 Sum_probs=19.1
Q ss_pred eeeccCcEEEeCCCCeEEEeeCCCC
Q 038528 12 LDIRRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N~~~~ 36 (91)
..-++||.+.+|+|+.|+.+|.|++
T Consensus 83 ~~Q~~Ge~V~i~pg~~H~v~n~g~~ 107 (114)
T PF02373_consen 83 FVQKPGEFVFIPPGAYHQVFNLGDN 107 (114)
T ss_dssp EEEETT-EEEE-TT-EEEEEESSSE
T ss_pred ceECCCCEEEECCCceEEEEeCCce
Confidence 3448899999999999999999875
No 21
>PF06560 GPI: Glucose-6-phosphate isomerase (GPI); InterPro: IPR010551 This entry consists of several bacterial and archaeal glucose-6-phosphate isomerase (GPI) proteins (5.3.1.9 from EC), which are involved in glycolysis and in gluconeogenesis and catalyse the conversion of D-glucose 6-phosphate to D-fructose 6-phosphate. The deduced amino acid sequence of the first archaeal PGI isolated from Pyrococcus furiosus revealed that it is not related to its eukaryotic and many of its bacterial counterparts. In contrast, this archaeal PGI shares similarity with the cupin superfamily that consists of a variety of proteins that are generally involved in sugar metabolism in both prokaryotes and eukaryotes [].; GO: 0004347 glucose-6-phosphate isomerase activity, 0006094 gluconeogenesis, 0006096 glycolysis, 0005737 cytoplasm; PDB: 1J3Q_B 1J3R_B 1J3P_A 2GC0_A 1X8E_A 1X82_A 1QY4_B 2GC2_B 1QXJ_A 1QXR_B ....
Probab=95.47 E-value=0.045 Score=39.97 Aligned_cols=40 Identities=18% Similarity=0.238 Sum_probs=28.7
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTED 52 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~ 52 (91)
...+.++||++.||+|.+|-++|++++ +|+..++....-.
T Consensus 110 ~~v~~~~G~~v~IPp~yaH~tIN~g~~---~L~~~~~~~~~~g 149 (182)
T PF06560_consen 110 IAVEAKPGDVVYIPPGYAHRTINTGDE---PLVFAAWVPRDAG 149 (182)
T ss_dssp EEEEE-TTEEEEE-TT-EEEEEE-SSS----EEEEEEEETT--
T ss_pred EEEEeCCCCEEEECCCceEEEEECCCC---cEEEEEEEecCCC
Confidence 456789999999999999999999975 8999998865543
No 22
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=94.98 E-value=0.07 Score=37.64 Aligned_cols=37 Identities=19% Similarity=0.282 Sum_probs=32.7
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEee
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFS 48 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d 48 (91)
-+.+.+.+||.+.||+|+.|=+.|.++. +|.++-+-.
T Consensus 101 ~~~~~~~~g~sv~Ip~g~~H~i~n~g~~---~L~~IEVq~ 137 (151)
T PF01050_consen 101 DEEFTLKEGDSVYIPRGAKHRIENPGKT---PLEIIEVQT 137 (151)
T ss_pred CEEEEEcCCCEEEECCCCEEEEECCCCc---CcEEEEEec
Confidence 4678899999999999999999999875 899987764
No 23
>PF03079 ARD: ARD/ARD' family; InterPro: IPR004313 The two acireductone dioxygenase enzymes (ARD and ARD', previously known as E-2 and E-2') from Klebsiella pneumoniae share the same amino acid sequence Q9ZFE7 from SWISSPROT, but bind different metal ions: ARD binds Ni2+, ARD' binds Fe2+ []. ARD and ARD' can be experimentally interconverted by removal of the bound metal ion and reconstitution with the appropriate metal ion. The two enzymes share the same substrate, 1,2-dihydroxy-3-keto-5-(methylthio)pentene, but yield different products. ARD' yields the alpha-keto precursor of methionine (and formate), thus forming part of the ubiquitous methionine salvage pathway that converts 5'-methylthioadenosine (MTA) to methionine. This pathway is responsible for the tight control of the concentration of MTA, which is a powerful inhibitor of polyamine biosynthesis and transmethylation reactions []. ARD yields methylthiopropanoate, carbon monoxide and formate, and thus prevents the conversion of MTA to methionine. The role of the ARD catalysed reaction is unclear: methylthiopropanoate is cytotoxic, and carbon monoxide can activate guanylyl cyclase, leading to increased intracellular cGMP levels [, ]. This family also contains other proteins, whose functions are not well characterised.; GO: 0010309 acireductone dioxygenase [iron(II)-requiring] activity, 0055114 oxidation-reduction process; PDB: 1VR3_A 1ZRR_A 2HJI_A.
Probab=94.95 E-value=0.11 Score=36.97 Aligned_cols=34 Identities=12% Similarity=0.255 Sum_probs=24.9
Q ss_pred eeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEee
Q 038528 12 LDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFS 48 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d 48 (91)
-.++.||.|.||||+.||..-..++ .+.++=++.
T Consensus 117 i~~e~GDli~vP~g~~HrF~~~~~~---~i~aiRlF~ 150 (157)
T PF03079_consen 117 ILCEKGDLIVVPAGTYHRFTLGESP---YIKAIRLFK 150 (157)
T ss_dssp EEEETTCEEEE-TT--EEEEESTTS---SEEEEEEES
T ss_pred EEEcCCCEEecCCCCceeEEcCCCC---cEEEEEeec
Confidence 6789999999999999999977554 677766664
No 24
>PRK11171 hypothetical protein; Provisional
Probab=94.55 E-value=0.12 Score=39.09 Aligned_cols=37 Identities=22% Similarity=0.212 Sum_probs=31.9
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEee
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFS 48 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d 48 (91)
.+.+.|++||.+.+|+|+.|.+.|.++. +.+++.+..
T Consensus 100 g~~~~L~~GDsi~~p~~~~H~~~N~g~~---~a~~l~v~~ 136 (266)
T PRK11171 100 GKTHALSEGGYAYLPPGSDWTLRNAGAE---DARFHWIRK 136 (266)
T ss_pred CEEEEECCCCEEEECCCCCEEEEECCCC---CEEEEEEEc
Confidence 4689999999999999999999999876 677777653
No 25
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=94.02 E-value=0.16 Score=38.34 Aligned_cols=36 Identities=22% Similarity=0.347 Sum_probs=29.5
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEe
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIF 47 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~ 47 (91)
.+.+.|++||-+.+|+|+.+.+.|.++. +.+++.+-
T Consensus 97 g~~~~L~~Gd~~y~pa~~~H~~~N~~~~---~a~~l~v~ 132 (260)
T TIGR03214 97 GETHELREGGYAYLPPGSKWTLANAQAE---DARFFLYK 132 (260)
T ss_pred CEEEEECCCCEEEECCCCCEEEEECCCC---CEEEEEEE
Confidence 4678999999999999999999999875 55555433
No 26
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=93.51 E-value=0.32 Score=30.60 Aligned_cols=39 Identities=18% Similarity=0.379 Sum_probs=26.4
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeec
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSN 49 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~ 49 (91)
+.+.+.+++||++.+|+|..+-+.-..+. ++..+.+.-.
T Consensus 39 ~~~~~~l~~g~~~li~p~~~H~~~~~~~~---~~~~~~i~~~ 77 (136)
T PF02311_consen 39 DGQEYPLKPGDLFLIPPGQPHSYYPDSNE---PWEYYWIYFS 77 (136)
T ss_dssp TTEEEEE-TT-EEEE-TTS-EEEEE-TTS---EEEEEEEEE-
T ss_pred CCEEEEEECCEEEEecCCccEEEecCCCC---CEEEEEEEEC
Confidence 46789999999999999999999988754 5666665543
No 27
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=93.05 E-value=0.36 Score=35.43 Aligned_cols=40 Identities=13% Similarity=0.394 Sum_probs=30.9
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
+.-.-.+..||.|.||+|+-||+--.-+. ..+.+-++...
T Consensus 116 ~~~~i~c~~gDLI~vP~gi~HwFtlt~~~---~f~AvRlF~~~ 155 (181)
T COG1791 116 KVYQIRCEKGDLISVPPGIYHWFTLTESP---NFKAVRLFTEP 155 (181)
T ss_pred cEEEEEEccCCEEecCCCceEEEEccCCC---cEEEEEEeeCC
Confidence 44455568899999999999999998655 67777777544
No 28
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=93.01 E-value=0.087 Score=32.53 Aligned_cols=27 Identities=26% Similarity=0.346 Sum_probs=20.5
Q ss_pred cCCCceeeeeccCcEEEeCCCCeEEEe
Q 038528 5 DEDDIRTLDIRRGDVYRLQPGSVFYIE 31 (91)
Q Consensus 5 ~~~~~~~~~lr~GDv~~ipaG~~~y~~ 31 (91)
..++-..+.++.||++.+|+|+..-+.
T Consensus 39 t~~~G~~~~~~aGD~~~~p~G~~~~w~ 65 (74)
T PF05899_consen 39 TDEDGETVTFKAGDAFFLPKGWTGTWE 65 (74)
T ss_dssp EETTTEEEEEETTEEEEE-TTEEEEEE
T ss_pred EECCCCEEEEcCCcEEEECCCCEEEEE
Confidence 344667799999999999999976443
No 29
>PF02041 Auxin_BP: Auxin binding protein; InterPro: IPR000526 Auxin binding protein is located in the lumen of the endoplasmic reticulum (ER). The primary structure contains an N-terminal hydrophobic leader sequence of 30-40 amino acids, which could represent a signal for translocation of the protein to the ER [, ]. The mature protein comprises around 165 residues, and contains a number of potential N-glycosylation sites. In vitro transport studies have demonstrated co-translational glycosylation []. Retention within the lumen of the ER correlates with an additional signal located at the C terminus, represented by the sequence Lys-Asp-Glu-Leu, known to be responsible for preventing secretion of proteins from the lumen of the ER in eukaryotic cells [, ].; GO: 0004872 receptor activity, 0005788 endoplasmic reticulum lumen; PDB: 1LR5_D 1LRH_D.
Probab=91.26 E-value=0.64 Score=33.67 Aligned_cols=41 Identities=15% Similarity=0.235 Sum_probs=25.9
Q ss_pred CCCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEee
Q 038528 6 EDDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFS 48 (91)
Q Consensus 6 ~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d 48 (91)
+++-+++.+-.++.+.||.+.+|=+.|+++.| +|+++.++.
T Consensus 87 pG~pqef~~~pnSTf~IPvn~~HQv~NT~e~e--DlqvlViiS 127 (167)
T PF02041_consen 87 PGKPQEFPIFPNSTFHIPVNDAHQVWNTNEHE--DLQVLVIIS 127 (167)
T ss_dssp --S-EEEEE-TTEEEEE-TT--EEEE---SSS---EEEEEEEE
T ss_pred CCCceEEEecCCCeEEeCCCCcceeecCCCCc--ceEEEEEec
Confidence 45678889999999999999999999998664 898887764
No 30
>PF11699 CENP-C_C: Mif2/CENP-C like; PDB: 2VPV_B.
Probab=91.21 E-value=0.71 Score=29.76 Aligned_cols=30 Identities=13% Similarity=0.350 Sum_probs=22.1
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQE 37 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e 37 (91)
+..++.+.+||.+-||+|-.+-+-|.++++
T Consensus 49 ~~~~f~v~~G~~F~VP~gN~Y~i~N~~~~~ 78 (85)
T PF11699_consen 49 HETSFVVTKGGSFQVPRGNYYSIKNIGNEE 78 (85)
T ss_dssp TTEEEEEETT-EEEE-TT-EEEEEE-SSS-
T ss_pred cCcEEEEeCCCEEEECCCCEEEEEECCCCc
Confidence 346788999999999999999999998763
No 31
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=90.78 E-value=0.54 Score=33.78 Aligned_cols=31 Identities=23% Similarity=0.363 Sum_probs=24.8
Q ss_pred cCCCceeeeeccCcEEEeCCCCeEEEeeCCC
Q 038528 5 DEDDIRTLDIRRGDVYRLQPGSVFYIESNLE 35 (91)
Q Consensus 5 ~~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~ 35 (91)
.+++.+...|++||++.||+|+.|=-.-..+
T Consensus 65 d~g~~~~v~L~eGd~flvP~gvpHsP~r~~~ 95 (159)
T TIGR03037 65 EEGKREDVPIREGDIFLLPPHVPHSPQRPAG 95 (159)
T ss_pred cCCcEEEEEECCCCEEEeCCCCCcccccCCC
Confidence 3344578999999999999999997776544
No 32
>PF13621 Cupin_8: Cupin-like domain; PDB: 3AL6_C 3AL5_C 2XUM_A 2Y0I_A 1MZE_A 3KCY_A 1MZF_A 1YCI_A 2ILM_A 1H2L_A ....
Probab=90.58 E-value=0.4 Score=33.94 Aligned_cols=24 Identities=25% Similarity=0.341 Sum_probs=19.1
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
....|+.||++-||+|--|++.|.
T Consensus 209 ~~~~l~pGD~LfiP~gWwH~V~~~ 232 (251)
T PF13621_consen 209 YEVVLEPGDVLFIPPGWWHQVENL 232 (251)
T ss_dssp EEEEEETT-EEEE-TT-EEEEEES
T ss_pred eEEEECCCeEEEECCCCeEEEEEc
Confidence 456789999999999999999999
No 33
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=90.53 E-value=0.53 Score=34.41 Aligned_cols=30 Identities=20% Similarity=0.413 Sum_probs=24.3
Q ss_pred ccCCCceeeeeccCcEEEeCCCCeEEEeeC
Q 038528 4 ADEDDIRTLDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
+++++.+...|++||++.||+|+.|=..-.
T Consensus 70 ~d~g~~~~v~L~eGd~fllP~gvpHsP~r~ 99 (177)
T PRK13264 70 QEDGKRRDVPIREGEMFLLPPHVPHSPQRE 99 (177)
T ss_pred EcCCceeeEEECCCCEEEeCCCCCcCCccC
Confidence 344444788999999999999999988765
No 34
>PF06052 3-HAO: 3-hydroxyanthranilic acid dioxygenase; InterPro: IPR010329 Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase (1.13.11.6 from EC). It is part of the kynurenine pathway for the degradation of tryptophan and the biosynthesis of nicotinic acid [].The prokaryotic homologue is involved in the 2-nitrobenzoate degradation pathway []. The enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.; GO: 0000334 3-hydroxyanthranilate 3,4-dioxygenase activity, 0005506 iron ion binding, 0008152 metabolic process, 0055114 oxidation-reduction process; PDB: 1ZVF_A 1YFX_A 1YFW_A 1YFY_A 1YFU_A 2QNK_A 3FE5_A.
Probab=90.01 E-value=0.21 Score=35.74 Aligned_cols=35 Identities=11% Similarity=0.302 Sum_probs=23.6
Q ss_pred ccccCCCceeeeeccCcEEEeCCCCeEEEeeCCCC
Q 038528 2 SWADEDDIRTLDIRRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 2 ~~v~~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~ 36 (91)
..+++++.|...+++||++-+|++++|-=.=..++
T Consensus 67 kv~e~g~~kdi~I~EGe~fLLP~~vpHsP~R~~~t 101 (151)
T PF06052_consen 67 KVVEDGKFKDIPIREGEMFLLPANVPHSPQRPADT 101 (151)
T ss_dssp EEEETTEEEEEEE-TTEEEEE-TT--EEEEE-TT-
T ss_pred EEEeCCceEEEEeCCCcEEecCCCCCCCCcCCCCc
Confidence 35667788899999999999999999976666543
No 35
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=89.18 E-value=0.95 Score=34.45 Aligned_cols=38 Identities=18% Similarity=0.220 Sum_probs=27.2
Q ss_pred CceeeeeccCcEEEeCCCCe-EEEeeCCCCCcccEEEEEEeecCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSV-FYIESNLEQEREKLRIYAIFSNTE 51 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~-~y~~N~~~~e~~~L~i~~l~d~~n 51 (91)
+.+.+.++.||++.||+|+. +| .+.+ ..+...+.-+.|
T Consensus 191 dG~t~~l~pGDvlfIPkGs~~hf-~tp~-----~aRflyV~~Pa~ 229 (233)
T PRK15457 191 EGETMIAKAGDVMFIPKGSSIEF-GTPS-----SVRFLYVAWPAN 229 (233)
T ss_pred CCEEEEeCCCcEEEECCCCeEEe-cCCC-----CeeEEEEEecCc
Confidence 36789999999999999999 88 3332 345555554444
No 36
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=88.88 E-value=0.49 Score=32.37 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=21.7
Q ss_pred ccCCCceeeeeccCcEEEeCCCCeE
Q 038528 4 ADEDDIRTLDIRRGDVYRLQPGSVF 28 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~ipaG~~~ 28 (91)
+.+|+.+...+|.||++.+|||+.-
T Consensus 76 ~T~d~Ge~v~~~aGD~~~~~~G~~g 100 (116)
T COG3450 76 VTPDGGEPVEVRAGDSFVFPAGFKG 100 (116)
T ss_pred EECCCCeEEEEcCCCEEEECCCCeE
Confidence 4567789999999999999999864
No 37
>TIGR02272 gentisate_1_2 gentisate 1,2-dioxygenase. This family consists of gentisate 1,2-dioxygenases. This ring-opening enzyme acts in salicylate degradation that goes via gentisate rather than via catechol. It converts gentisate to maleylpyruvate. Some putative gentisate 1,2-dioxygenases are excluded by a relatively high trusted cutoff score because they are too closely related to known examples of 1-hydroxy-2-naphthoate dioxygenase. Therefore some homologs may be bona fide gentisate 1,2-dioxygenases even if they score below the given cutoffs.
Probab=88.79 E-value=0.76 Score=36.41 Aligned_cols=38 Identities=5% Similarity=-0.123 Sum_probs=31.4
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeec
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSN 49 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~ 49 (91)
-+....++||++.+|+++-|--.|.+|. +++.+..+|.
T Consensus 119 g~~~~~~~gD~~~tP~w~wH~H~n~~d~---~~~wld~lD~ 156 (335)
T TIGR02272 119 GERTTMHPGDFIITPSWTWHDHGNPGDE---PMIWLDGLDI 156 (335)
T ss_pred CEEEeeeCCCEEEeCCCeeEecccCCCC---cEEEEecCCH
Confidence 3578899999999999999999999875 7777666653
No 38
>PF08007 Cupin_4: Cupin superfamily protein; InterPro: IPR022777 This signature represents primarily the cupin fold found in JmjC transcription factors. The fold is also found in lysine-specific demethylase NO66.; PDB: 2XDV_A 1VRB_B 4DIQ_B.
Probab=88.45 E-value=0.61 Score=35.94 Aligned_cols=30 Identities=20% Similarity=0.207 Sum_probs=21.4
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEE
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRI 43 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i 43 (91)
...-|+.||++.||+|++|+....+. -+.+
T Consensus 176 ~~~~L~pGD~LYlPrG~~H~~~~~~~----S~hl 205 (319)
T PF08007_consen 176 EEVVLEPGDVLYLPRGWWHQAVTTDP----SLHL 205 (319)
T ss_dssp EEEEE-TT-EEEE-TT-EEEEEESS-----EEEE
T ss_pred EEEEECCCCEEEECCCccCCCCCCCC----ceEE
Confidence 46779999999999999999999973 4665
No 39
>TIGR00218 manA mannose-6-phosphate isomerase, class I. The names phosphomannose isomerase and mannose-6-phosphate isomerase are synonomous. This family contains two rather deeply branched groups. One group contains an experimentally determined phosphomannose isomerase of Streptococcus mutans as well as three uncharacterized paralogous proteins of Bacillus subtilis, all at more than 50 % identity to each other, plus a more distant homolog from Archaeoglobus fulgidus. The other group contains members from E. coli, budding yeast, Borrelia burgdorferi, etc.
Probab=85.72 E-value=0.47 Score=36.23 Aligned_cols=20 Identities=15% Similarity=0.479 Sum_probs=17.9
Q ss_pred eeeeeccCcEEEeCCCCeEE
Q 038528 10 RTLDIRRGDVYRLQPGSVFY 29 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y 29 (91)
....+++||++.||||++|=
T Consensus 151 n~v~v~~Gd~i~ipaGt~HA 170 (302)
T TIGR00218 151 NRIKLKPGDFFYVPSGTPHA 170 (302)
T ss_pred cccccCCCCEEEeCCCCccc
Confidence 45778999999999999995
No 40
>PF06249 EutQ: Ethanolamine utilisation protein EutQ; InterPro: IPR010424 The eut operon of Salmonella typhimurium encodes proteins involved in the cobalamin-dependent degradation of ethanolamine. The role of EutQ in this process is unclear [].; PDB: 2PYT_B 3LWC_A.
Probab=84.53 E-value=3.3 Score=29.53 Aligned_cols=39 Identities=21% Similarity=0.319 Sum_probs=26.2
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTE 51 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n 51 (91)
+-+.+.-+.|||+.||.|+..=.--. + ..+++.+..|.|
T Consensus 111 ~G~~~~A~~GDvi~iPkGs~I~fst~-~----~a~~~Yv~yPa~ 149 (152)
T PF06249_consen 111 DGQTVTAKPGDVIFIPKGSTITFSTP-D----YARFFYVTYPAN 149 (152)
T ss_dssp TTEEEEEETT-EEEE-TT-EEEEEEE-E----EEEEEEEEESTT
T ss_pred CCEEEEEcCCcEEEECCCCEEEEecC-C----CEEEEEEECCCc
Confidence 35778889999999999998766433 2 567777776665
No 41
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=81.82 E-value=3.3 Score=30.26 Aligned_cols=28 Identities=18% Similarity=0.154 Sum_probs=23.1
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLE 35 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~ 35 (91)
+.+.+.+.+||++.||+|..|..+...+
T Consensus 59 ~~~~~~l~~g~l~~i~p~~~H~~~~~~~ 86 (278)
T PRK10296 59 NGKRVLLERGDFVFIPLGSHHQSFYEFG 86 (278)
T ss_pred CCEEEEECCCcEEEeCCCCccceeeeCC
Confidence 3678899999999999999997765533
No 42
>PRK10572 DNA-binding transcriptional regulator AraC; Provisional
Probab=81.13 E-value=4.1 Score=29.96 Aligned_cols=29 Identities=21% Similarity=0.354 Sum_probs=24.3
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~ 36 (91)
+.+.+.++.||++.+|+|+++.+....+.
T Consensus 65 ~~~~~~~~~g~~i~i~p~~~h~~~~~~~~ 93 (290)
T PRK10572 65 GGRAFVCRPGDLLLFPPGEIHHYGRHPDS 93 (290)
T ss_pred CCeeEecCCCCEEEECCCCceeeccCCCC
Confidence 45689999999999999999987776554
No 43
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=80.52 E-value=1.6 Score=30.71 Aligned_cols=31 Identities=16% Similarity=0.274 Sum_probs=25.1
Q ss_pred eeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEE
Q 038528 13 DIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAI 46 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l 46 (91)
..+.||.+.||+|+++-=+|.-+. ++..+..
T Consensus 91 ~~~pGDf~YiPpgVPHqp~N~S~e---p~s~vIa 121 (142)
T COG4101 91 EVGPGDFFYIPPGVPHQPANLSTE---PLSAVIA 121 (142)
T ss_pred EecCCCeEEcCCCCCCcccccCCC---CeEEEEE
Confidence 348899999999999999999754 7765543
No 44
>COG4297 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]
Probab=80.27 E-value=1.4 Score=31.69 Aligned_cols=25 Identities=20% Similarity=0.251 Sum_probs=19.1
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
-....+.+||++.||||+-|--...
T Consensus 84 G~el~v~~GDvlliPAGvGH~rl~s 108 (163)
T COG4297 84 GQELEVGEGDVLLIPAGVGHCRLHS 108 (163)
T ss_pred CceeeecCCCEEEEecCcccccccC
Confidence 3456789999999999998754433
No 45
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=78.99 E-value=1.5 Score=34.52 Aligned_cols=22 Identities=14% Similarity=0.433 Sum_probs=19.1
Q ss_pred ceeeeeccCcEEEeCCCCeEEE
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYI 30 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~ 30 (91)
.+...|+.||.|.+|||++|=+
T Consensus 157 Ln~v~lkpGe~~fl~Agt~HA~ 178 (312)
T COG1482 157 LNRVKLKPGEAFFLPAGTPHAY 178 (312)
T ss_pred hcEEecCCCCEEEecCCCceee
Confidence 4677899999999999999854
No 46
>TIGR02451 anti_sig_ChrR anti-sigma factor, putative, ChrR family. The member of this family from Rhodobacter sphaeroides has been shown both to form a complex with sigma(E) and to negatively regulate tetrapyrrole biosynthesis. This protein likely contains (at least) two distinct functional domains; several smaller homologs (excluded by the model) show homology only to the C-terminal, including a motif PxHxHxGxE.
Probab=77.57 E-value=2.7 Score=30.86 Aligned_cols=36 Identities=8% Similarity=-0.099 Sum_probs=30.2
Q ss_pred eeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 12 LDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
..+.+||++++|+|+.|-..+..+. +.+.++++|-.
T Consensus 163 g~y~~Gd~i~~p~~~~H~p~a~~~~---~Cicl~v~dap 198 (215)
T TIGR02451 163 GVYGVGDFEEADGSVQHQPRTVSGG---DCLCLAVLDAP 198 (215)
T ss_pred CccCCCeEEECCCCCCcCcccCCCC---CeEEEEEecCC
Confidence 4679999999999999999999754 68888877644
No 47
>PRK13501 transcriptional activator RhaR; Provisional
Probab=77.46 E-value=4.2 Score=30.03 Aligned_cols=27 Identities=26% Similarity=0.276 Sum_probs=23.5
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNL 34 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~ 34 (91)
+.+.+.+.+||++.||+|..|.+...+
T Consensus 54 ~~~~~~l~~g~~~~I~p~~~H~~~~~~ 80 (290)
T PRK13501 54 NDHPYRITCGDVFYIQAADHHSYESVH 80 (290)
T ss_pred CCeeeeecCCeEEEEcCCCcccccccC
Confidence 457899999999999999999987653
No 48
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=76.01 E-value=2.2 Score=34.20 Aligned_cols=23 Identities=9% Similarity=0.124 Sum_probs=19.5
Q ss_pred ceeeeeccCcEEEeCCCCeEEEe
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIE 31 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~ 31 (91)
.....|++||++.||||++|=..
T Consensus 236 LN~v~l~pGeaifipAg~~HAyl 258 (389)
T PRK15131 236 LNVVKLNPGEAMFLFAETPHAYL 258 (389)
T ss_pred eeEEEeCCCCEEEeCCCCCeEEc
Confidence 35678999999999999999654
No 49
>PF06339 Ectoine_synth: Ectoine synthase; InterPro: IPR010462 This family consists of several bacterial ectoine synthase proteins. The ectABC genes encode the diaminobutyric acid acetyltransferase (EctA), the diaminobutyric acid aminotransferase (EctB), and the ectoine synthase (EctC). Together these proteins constitute the ectoine biosynthetic pathway [].; GO: 0016836 hydro-lyase activity, 0006596 polyamine biosynthetic process
Probab=74.67 E-value=7.2 Score=27.18 Aligned_cols=46 Identities=20% Similarity=0.480 Sum_probs=29.7
Q ss_pred CCCceeeeeccCcEEEeCCCCeEEEeeCCCCC----cccEEEEEEeecCCC
Q 038528 6 EDDIRTLDIRRGDVYRLQPGSVFYIESNLEQE----REKLRIYAIFSNTED 52 (91)
Q Consensus 6 ~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e----~~~L~i~~l~d~~n~ 52 (91)
+++-++..+..|.++.|-+|+. |+.|..|.- .++|+++|+++|.=.
T Consensus 63 ~G~Gev~~~~~G~~~~i~pGt~-YaLd~hD~H~lra~~dm~~vCVFnPplt 112 (126)
T PF06339_consen 63 EGEGEVEDLDTGEVHPIKPGTM-YALDKHDRHYLRAKTDMRLVCVFNPPLT 112 (126)
T ss_pred eceEEEEEccCCcEEEcCCCeE-EecCCCccEEEEecCCEEEEEEcCCCCc
Confidence 4455666677777777777754 555554321 237999999987643
No 50
>COG2850 Uncharacterized conserved protein [Function unknown]
Probab=74.39 E-value=1.2 Score=36.13 Aligned_cols=23 Identities=22% Similarity=0.381 Sum_probs=19.6
Q ss_pred eeccCcEEEeCCCCeEEEeeCCC
Q 038528 13 DIRRGDVYRLQPGSVFYIESNLE 35 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~~~ 35 (91)
-++.||++.||+|.+||=+--+|
T Consensus 182 vlepGDiLYiPp~~~H~gvae~d 204 (383)
T COG2850 182 VLEPGDILYIPPGFPHYGVAEDD 204 (383)
T ss_pred hcCCCceeecCCCCCcCCccccc
Confidence 46899999999999999877644
No 51
>KOG2107 consensus Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=74.31 E-value=2.3 Score=31.16 Aligned_cols=23 Identities=17% Similarity=0.274 Sum_probs=17.9
Q ss_pred eeccCcEEEeCCCCeEEEeeCCC
Q 038528 13 DIRRGDVYRLQPGSVFYIESNLE 35 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~~~ 35 (91)
-+++||.|.||||+-|=..=+.+
T Consensus 119 ~vekGDlivlPaGiyHRFTtt~~ 141 (179)
T KOG2107|consen 119 FVEKGDLIVLPAGIYHRFTTTPS 141 (179)
T ss_pred EEecCCEEEecCcceeeeecCch
Confidence 35999999999999886655543
No 52
>PRK13503 transcriptional activator RhaS; Provisional
Probab=72.89 E-value=3.4 Score=29.95 Aligned_cols=26 Identities=12% Similarity=0.130 Sum_probs=22.3
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
+.+.+.++.||++.||+|..+.....
T Consensus 51 ~~~~~~l~~g~~~~i~~~~~h~~~~~ 76 (278)
T PRK13503 51 NGQPYTLSGGTVCFVRDHDRHLYEHT 76 (278)
T ss_pred cCCcccccCCcEEEECCCccchhhhc
Confidence 45688999999999999999977665
No 53
>PRK13502 transcriptional activator RhaR; Provisional
Probab=72.54 E-value=7.4 Score=28.43 Aligned_cols=26 Identities=23% Similarity=0.369 Sum_probs=22.4
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
+.+++.+++||++.||+|.+|.+...
T Consensus 54 ~~~~~~l~~g~l~li~~~~~H~~~~~ 79 (282)
T PRK13502 54 NERPYRITRGDLFYIRAEDKHSYTSV 79 (282)
T ss_pred CCEEEeecCCcEEEECCCCccccccc
Confidence 46789999999999999999987654
No 54
>PF05118 Asp_Arg_Hydrox: Aspartyl/Asparaginyl beta-hydroxylase; InterPro: IPR007803 The alpha-ketoglutarate-dependent dioxygenase aspartyl (asparaginyl) beta-hydroxylase (1.14.11.16 from EC) specifically hydroxylates one aspartic or asparagine residue in certain epidermal growth factor-like domains of a number of proteins. Its action may be due to histidine-675, which, when mutated to an alanine residue, causes the loss of enzymatic activity in the protein []. An invertebrate alpha-ketoglutarate-dependent aspartyl/asparaginyl beta-hydroxylase, which posttranslationally hydroxylates specific aspartyl or asparaginyl residues within epidermal growth factor-like modules [], activity was found to be similar to that of the purified mammalian aspartyl/asparaginyl beta-hydroxylase with respect to cofactor requirements, stereochemistry and substrate sequence specificity []. This enzyme requires Fe2+ as a cofactor. Some vitamin K-dependent coagulation factors, as well as synthetic peptides based on the structure of the first epidermal growth factor domain of human coagulation factor IX or X, can act as acceptors.; GO: 0018193 peptidyl-amino acid modification, 0030176 integral to endoplasmic reticulum membrane; PDB: 3RCQ_A 1E5S_A 1E5R_B.
Probab=72.52 E-value=10 Score=26.52 Aligned_cols=28 Identities=14% Similarity=0.206 Sum_probs=21.3
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQE 37 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e 37 (91)
+.+..++|.++.+-....|+..|.++..
T Consensus 124 ~~~~w~~G~~~~fD~s~~H~~~N~~~~~ 151 (163)
T PF05118_consen 124 ETRHWREGECWVFDDSFEHEVWNNGDED 151 (163)
T ss_dssp EEEB--CTEEEEE-TTS-EEEEESSSS-
T ss_pred eEEEeccCcEEEEeCCEEEEEEeCCCCC
Confidence 5788899999999999999999998863
No 55
>PRK13500 transcriptional activator RhaR; Provisional
Probab=72.46 E-value=7.9 Score=29.26 Aligned_cols=27 Identities=22% Similarity=0.314 Sum_probs=23.1
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNL 34 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~ 34 (91)
+.+.+.+++||++.||+|..|......
T Consensus 84 ~~~~~~l~~Gdl~~I~~~~~H~~~~~~ 110 (312)
T PRK13500 84 NDRPYRITRGDLFYIHADDKHSYASVN 110 (312)
T ss_pred CCEEEeecCCeEEEECCCCeecccccC
Confidence 357899999999999999999877653
No 56
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=71.52 E-value=7 Score=28.50 Aligned_cols=28 Identities=7% Similarity=0.006 Sum_probs=23.7
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~ 36 (91)
.+.+.++.||++.+|+|.+|-+....+.
T Consensus 61 ~~~~~l~~g~~~ii~~~~~H~~~~~~~~ 88 (287)
T TIGR02297 61 EHEYSEYAPCFFLTPPSVPHGFVTDLDA 88 (287)
T ss_pred CEEEEecCCeEEEeCCCCccccccCCCc
Confidence 4688999999999999999998766544
No 57
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=63.40 E-value=13 Score=22.45 Aligned_cols=30 Identities=23% Similarity=0.491 Sum_probs=21.0
Q ss_pred cccCC-CceeeeeccCcEEEeCCCCeEEEee
Q 038528 3 WADED-DIRTLDIRRGDVYRLQPGSVFYIES 32 (91)
Q Consensus 3 ~v~~~-~~~~~~lr~GDv~~ipaG~~~y~~N 32 (91)
|+..+ +..-+=|+.||.+.+|+|.-.|+-=
T Consensus 28 WlT~~g~~~D~~L~~G~~l~l~~g~~vvl~a 58 (63)
T PF11142_consen 28 WLTREGDPDDYWLQAGDSLRLRRGGRVVLSA 58 (63)
T ss_pred EEECCCCCCCEEECCCCEEEeCCCCEEEEEe
Confidence 55433 4456667888888888888877753
No 58
>PRK15450 signal transduction protein PmrD; Provisional
Probab=61.66 E-value=3.1 Score=27.12 Aligned_cols=35 Identities=20% Similarity=0.377 Sum_probs=25.6
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
....+++||.+ -|=--+.|++|+ + +.+.+++++.+
T Consensus 36 s~~~l~~gDlL-sPL~dA~YciNr--~---~~~t~Kii~As 70 (85)
T PRK15450 36 SDFALKVGDLL-SPLQNALYCINR--E---KLQTLKILSAS 70 (85)
T ss_pred hccccCccccc-ccchhhhhhhcC--C---CCceEEEEecc
Confidence 37789999987 577788999999 4 45555555544
No 59
>TIGR02272 gentisate_1_2 gentisate 1,2-dioxygenase. This family consists of gentisate 1,2-dioxygenases. This ring-opening enzyme acts in salicylate degradation that goes via gentisate rather than via catechol. It converts gentisate to maleylpyruvate. Some putative gentisate 1,2-dioxygenases are excluded by a relatively high trusted cutoff score because they are too closely related to known examples of 1-hydroxy-2-naphthoate dioxygenase. Therefore some homologs may be bona fide gentisate 1,2-dioxygenases even if they score below the given cutoffs.
Probab=61.37 E-value=18 Score=28.77 Aligned_cols=24 Identities=13% Similarity=0.169 Sum_probs=19.9
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
+.++.++||++++|+-..+-..|.
T Consensus 288 ~~~~W~~gD~f~vPsW~~~~h~a~ 311 (335)
T TIGR02272 288 AVFRFSPKDVFVVPSWHPVRFEAS 311 (335)
T ss_pred EEEEecCCCEEEECCCCcEecccC
Confidence 468899999999999988666664
No 60
>PF13734 Inhibitor_I69: Spi protease inhibitor; PDB: 1PVJ_A 1DKI_D 2UZJ_A 2JTC_A 4D8E_A 4D8I_A 4D8B_A.
Probab=57.50 E-value=12 Score=24.64 Aligned_cols=21 Identities=14% Similarity=0.327 Sum_probs=14.4
Q ss_pred eCCCCeEEEeeCCCCCcccEEEEE
Q 038528 22 LQPGSVFYIESNLEQEREKLRIYA 45 (91)
Q Consensus 22 ipaG~~~y~~N~~~~e~~~L~i~~ 45 (91)
.|..+++|++|. +++ -.+||+
T Consensus 37 ~~~~~~~YI~N~-~~~--GFVIVS 57 (96)
T PF13734_consen 37 TPSDTPYYIFND-NNK--GFVIVS 57 (96)
T ss_dssp TT-SSSEEEEEE-TTS---EEEEE
T ss_pred CCCCCcEEEEEc-CCC--EEEEEE
Confidence 788889999999 442 566655
No 61
>PF12973 Cupin_7: ChrR Cupin-like domain; PDB: 3O14_B 2Z2S_F 2Q1Z_B 3EBR_A.
Probab=57.42 E-value=8.4 Score=24.02 Aligned_cols=22 Identities=36% Similarity=0.392 Sum_probs=17.8
Q ss_pred eeeccCcEEEeCCCCeEEEeeC
Q 038528 12 LDIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N~ 33 (91)
..+.+||.++.|+|+.+=..-.
T Consensus 60 ~~~~~G~~~~~p~g~~h~~~s~ 81 (91)
T PF12973_consen 60 GRYGAGDWLRLPPGSSHTPRSD 81 (91)
T ss_dssp CEEETTEEEEE-TTEEEEEEES
T ss_pred ccCCCCeEEEeCCCCccccCcC
Confidence 3569999999999999988853
No 62
>PF04209 HgmA: homogentisate 1,2-dioxygenase; InterPro: IPR005708 Alkaptonuria (AKU), a rare hereditary disorder, was the first disease to be interpreted as an inborn error of metabolism. The deficiency causes homogentisic aciduria, ochronosis, and arthritis. AKU patients are deficient for homogentisate 1,2 dioxygenase (1.13.11.5 from EC), the enzyme that mediates the conversion of homogentisate to maleylacetoacetate; a step in the catabolism of both tyrosine and phenylalanine. Homogentisate + O(2) = 4-maleylacetoacetate. ; GO: 0004411 homogentisate 1,2-dioxygenase activity, 0006559 L-phenylalanine catabolic process, 0006570 tyrosine metabolic process, 0055114 oxidation-reduction process; PDB: 1EY2_A 1EYB_A.
Probab=55.02 E-value=17 Score=29.94 Aligned_cols=31 Identities=35% Similarity=0.436 Sum_probs=18.9
Q ss_pred eeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEe
Q 038528 12 LDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIF 47 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~ 47 (91)
-.++.||++.||.|+++-+.=.+ +.|.+.+=
T Consensus 166 L~v~pGd~~VIPRG~~~rv~l~~-----p~rgyi~E 196 (424)
T PF04209_consen 166 LDVRPGDYVVIPRGTRFRVELPG-----PARGYIIE 196 (424)
T ss_dssp EEE-TTEEEEE-TT--EEEE-SS-----SEEEEEEE
T ss_pred EEEcCCeEEEECCeeEEEEEeCC-----CceEEEEE
Confidence 46899999999999988876652 45555544
No 63
>PF09347 DUF1989: Domain of unknown function (DUF1989); InterPro: IPR018959 This entry represents proteins that are functionally uncharacterised. ; PDB: 3ORU_A 3SIY_C 3DI4_A.
Probab=54.04 E-value=20 Score=25.53 Aligned_cols=32 Identities=13% Similarity=0.161 Sum_probs=21.6
Q ss_pred ccCCCceeeeeccCcEEEe-----CCCCeEEEeeCCC
Q 038528 4 ADEDDIRTLDIRRGDVYRL-----QPGSVFYIESNLE 35 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~i-----paG~~~y~~N~~~ 35 (91)
|....-.+..|++|++++| .+.+-+|+||.+|
T Consensus 4 Ip~g~~~a~~v~rG~~lri~d~~G~q~~d~~~~~a~d 40 (166)
T PF09347_consen 4 IPAGSGWAFRVKRGQVLRITDPEGNQVVDLLAYNADD 40 (166)
T ss_dssp E-CT-EEEEEE-TT-EEEEEESSSS--EEEEEEETTE
T ss_pred eCCCCceEEEECCCCEEEEEeCCCCceeEEEEEecCC
Confidence 4556778999999999998 4567789999976
No 64
>PF14955 MRP-S24: Mitochondrial ribosome subunit S24
Probab=53.79 E-value=24 Score=24.96 Aligned_cols=35 Identities=20% Similarity=0.286 Sum_probs=23.7
Q ss_pred EEEEEEeecCCCCCCCceeecCCCccCceecccCHHHHHHHhCCCc
Q 038528 41 LRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVLQSAFKRAV 86 (91)
Q Consensus 41 L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL~~Af~v~~ 86 (91)
++|..++ .+.++.++.| +|-||++++|+.-++.+.
T Consensus 84 I~Ia~~~--~~~l~~~k~Y---------FL~GYtEelLS~~lkcpV 118 (136)
T PF14955_consen 84 IRIAGIV--LRRLQPRKIY---------FLIGYTEELLSHWLKCPV 118 (136)
T ss_pred EEEeEee--eccCCceeEE---------EehhhhHHHHHHHHCCCe
Confidence 3444443 3334566664 678999999999998764
No 65
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=53.75 E-value=22 Score=26.83 Aligned_cols=28 Identities=7% Similarity=0.106 Sum_probs=23.3
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLE 35 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~ 35 (91)
+.+++.+.+||++.|++|.+|-+...++
T Consensus 62 ~g~~~~l~~Gd~ili~s~~~H~~~~~~~ 89 (302)
T PRK10371 62 NNEKVQINQGHITLFWACTPHQLTDPGN 89 (302)
T ss_pred CCEEEEEcCCcEEEEecCCcccccccCC
Confidence 4578889999999999999997766544
No 66
>cd00433 Peptidase_M17 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and play a key role in protein degradation and in the metabolism of biologically active peptides. They do not contain HEXXH motif (which is used as one of the signature patterns to group the peptidase families) in the metal-binding site. The two associated zinc ions and the active site are entirely enclosed within the C-terminal catalytic domain in leucine aminopeptidase. The enzyme is a hexamer, with the catalytic domains clustered around the three-fold axis, and the two trimers related to one another by a two-fold rotation. The N-terminal domain is structurally similar to the ADP-ribose binding Macro domain. This family includes proteins from bacteria, archaea, animals and plants.
Probab=51.43 E-value=19 Score=29.72 Aligned_cols=35 Identities=23% Similarity=0.211 Sum_probs=29.1
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEE
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIY 44 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~ 44 (91)
--...-.|+|||+.--.|.+.=+.|+|-+. ||++.
T Consensus 296 ~is~~A~rPgDVi~s~~GkTVEI~NTDAEG--RLVLa 330 (468)
T cd00433 296 MISGNAYRPGDVITSRSGKTVEILNTDAEG--RLVLA 330 (468)
T ss_pred CCCCCCCCCCCEeEeCCCcEEEEecCCccc--ceeeh
Confidence 344556799999999999999999998765 88874
No 67
>PRK00913 multifunctional aminopeptidase A; Provisional
Probab=49.39 E-value=22 Score=29.63 Aligned_cols=33 Identities=18% Similarity=0.196 Sum_probs=28.0
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEE
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIY 44 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~ 44 (91)
-..-+|+|||+..-.|.+.=+.|+|-+. +|++.
T Consensus 312 ~~~A~rPgDVi~~~~GkTVEV~NTDAEG--RLvLA 344 (483)
T PRK00913 312 SGNAYRPGDVLTSMSGKTIEVLNTDAEG--RLVLA 344 (483)
T ss_pred CCCCCCCCCEEEECCCcEEEeecCCccc--ceeeh
Confidence 3456799999999999999999998664 88875
No 68
>PF11183 PmrD: Polymyxin resistance protein PmrD; InterPro: IPR020146 The Salmonella PmrA/PmrB two-component system is required for resistance to the cationic peptide antibiotic olymyxin B, resistance to Fe(3+)-mediated killing, growth in soil, virulence in mice, and infection of chicken macrophages. PmrA-activated genes encode periplasmic and integral membrane proteins as well as cytoplasmic products mediating the modification of the lipopolysaccharide, suggesting a role for the PmrA/PmrB system in remodeling of the Gram-negative envelope. The PmrA/PmrB two-component system of Salmonella enterica is activated by Fe(3+), which is sensed by the PmrB protein, and by low Mg(2+), which is sensed by the PhoQ protein. The low Mg(2+) activation requires pmrD, a PhoPPhoQ-activated gene that activates the response regulator PmrA at a posttranscriptional level. However, under conditions that activate the PmrA protein independently of pmrD, such as exposure to Fe3, lower levels of pmrD transcription occur. It has been demonstrated that PmrA binds to the pmrD promoter, suppressing transcription. Negative regulation of the PhoP/PhoQ-activated pmrD gene by the PmrA/ PmrB system closes a regulatory circuit designed to maintain proper cellular levels of activated PmrA protein, and constitutes a singular example of a multicomponent feedback loop []. ; PDB: 2RQX_A 2JSO_A.
Probab=48.78 E-value=22 Score=23.07 Aligned_cols=33 Identities=12% Similarity=0.284 Sum_probs=19.9
Q ss_pred eeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEE
Q 038528 11 TLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAI 46 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l 46 (91)
.+.|++||.+- |=--+.|++|++.. +.|.|+.-
T Consensus 37 ~~~l~~GD~Lt-Pl~dA~YciNr~~~--~tvKii~A 69 (82)
T PF11183_consen 37 DFRLQEGDKLT-PLQDALYCINRNKA--QTVKIISA 69 (82)
T ss_dssp SS---TT-EEE-ESSSSEEEECTECC--CEEEEEEE
T ss_pred CcccCCCCCcc-ccccceEEeecCCC--ceEEEEec
Confidence 57889999985 33345799999544 57777654
No 69
>PHA02984 hypothetical protein; Provisional
Probab=47.51 E-value=60 Score=25.55 Aligned_cols=45 Identities=13% Similarity=0.236 Sum_probs=36.9
Q ss_pred cCCCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCC
Q 038528 5 DEDDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDD 53 (91)
Q Consensus 5 ~~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~ 53 (91)
..+.+-+.++.+|+.+.+--++-|=++-.+- .|+++.+.-+++-|
T Consensus 110 ~~~~~is~~I~kGeaf~md~~t~h~i~T~~k----nl~L~Vi~y~v~~p 154 (286)
T PHA02984 110 NKGSKITNTIKKGEAFTLNLKTKYVTTTKDK----NLHLAVITYTSNCP 154 (286)
T ss_pred cCCceeeeEEecCceEEEEccceEEEEeCCC----ceEEEEEEEEecce
Confidence 4567779999999999999999999998854 58877777777653
No 70
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=47.43 E-value=9.3 Score=25.94 Aligned_cols=20 Identities=15% Similarity=0.253 Sum_probs=15.0
Q ss_pred cccCHHHHHHHhCCCccccc
Q 038528 71 LGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 71 ~GF~~~iL~~Af~v~~~~i~ 90 (91)
.|||...||...|++++.|+
T Consensus 71 ~GFsD~~IA~l~~~~e~~vr 90 (123)
T PF02787_consen 71 LGFSDRQIARLWGVSEEEVR 90 (123)
T ss_dssp TT--HHHHHHHHTS-HHHHH
T ss_pred cCCCHHHHHhccCCCHHHHH
Confidence 59999999999999988775
No 71
>TIGR03424 urea_degr_1 urea carboxylase-associated protein 1. A number of bacteria degrade urea as a nitrogen source by the urea carboxylase/allophanate hydrolase pathway, which uses biotin and consumes ATP, rather than my means of the nickel-dependent enzyme urease. This model represents one of a pair of homologous, tandem uncharacterized genes found together with the urea carboxylase and allophanate hydrolase genes.
Probab=47.16 E-value=31 Score=25.36 Aligned_cols=33 Identities=6% Similarity=0.105 Sum_probs=26.1
Q ss_pred ccCCCceeeeeccCcEEEe-----CCCCeEEEeeCCCC
Q 038528 4 ADEDDIRTLDIRRGDVYRL-----QPGSVFYIESNLEQ 36 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~i-----paG~~~y~~N~~~~ 36 (91)
|....-.++.|++|++++| .+.+-+|++|.+|.
T Consensus 8 Ip~g~~~a~~v~~Gq~lri~d~~G~q~~d~~~~na~d~ 45 (198)
T TIGR03424 8 VPAGEPWSAVVKAGQTLRIVDLEGNQAVDTLFYNAHDT 45 (198)
T ss_pred ECCCCceEEEECCCCEEEEEeCCCCeEEEEEEecCCCC
Confidence 4455678999999999998 45667899998763
No 72
>PRK05341 homogentisate 1,2-dioxygenase; Provisional
Probab=47.09 E-value=18 Score=29.93 Aligned_cols=20 Identities=30% Similarity=0.617 Sum_probs=17.6
Q ss_pred eeeccCcEEEeCCCCeEEEe
Q 038528 12 LDIRRGDVYRLQPGSVFYIE 31 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~ 31 (91)
-.++.||++.||.|+.|-+.
T Consensus 174 L~v~pgei~VIPRG~~frv~ 193 (438)
T PRK05341 174 LDVEPGEIAVIPRGVKFRVE 193 (438)
T ss_pred eEecCCCEEEEcCccEEEEe
Confidence 46799999999999998776
No 73
>TIGR01015 hmgA homogentisate 1,2-dioxygenase. Missing in human disease alkaptonuria.
Probab=46.34 E-value=19 Score=29.74 Aligned_cols=22 Identities=9% Similarity=0.138 Sum_probs=18.5
Q ss_pred eeccCcEEEeCCCCeEEEeeCC
Q 038528 13 DIRRGDVYRLQPGSVFYIESNL 34 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~~ 34 (91)
.++.||++.||.|+.|-+.=.+
T Consensus 169 ~v~pgei~VIPRG~~frv~l~g 190 (429)
T TIGR01015 169 LVEPNEICVIPRGVRFRVTVLE 190 (429)
T ss_pred EecCCCEEEecCccEEEEeeCC
Confidence 6899999999999998776543
No 74
>PLN02658 homogentisate 1,2-dioxygenase
Probab=45.06 E-value=20 Score=29.61 Aligned_cols=21 Identities=19% Similarity=0.449 Sum_probs=17.6
Q ss_pred eeeccCcEEEeCCCCeEEEee
Q 038528 12 LDIRRGDVYRLQPGSVFYIES 32 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N 32 (91)
-.++.||++.||.|+.|-+.=
T Consensus 167 L~v~pgei~VIPRG~~frv~l 187 (435)
T PLN02658 167 LQVSPGEIVVIPRGFRFAVDL 187 (435)
T ss_pred eEecCCCEEEecCccEEEEec
Confidence 467999999999999977663
No 75
>PRK05015 aminopeptidase B; Provisional
Probab=42.96 E-value=31 Score=28.48 Aligned_cols=34 Identities=15% Similarity=0.235 Sum_probs=28.6
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEE
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIY 44 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~ 44 (91)
-...-+|.||||.-..|.+.=+.|+|-+. +|++.
T Consensus 248 isg~A~kpgDVIt~~nGkTVEI~NTDAEG--RLVLA 281 (424)
T PRK05015 248 ISGNAFKLGDIITYRNGKTVEVMNTDAEG--RLVLA 281 (424)
T ss_pred CCCCCCCCCCEEEecCCcEEeeeccCccc--eeeeh
Confidence 33456799999999999999999998764 88875
No 76
>PF00122 E1-E2_ATPase: E1-E2 ATPase p-type cation-transporting ATPase superfamily signature H+-transporting ATPase (proton pump) signature sodium/potassium-transporting ATPase signature; InterPro: IPR008250 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the actuator (A) domain, and some transmembrane helices found in P-type ATPases []. It contains the TGES-loop which is essential for the metal ion binding which results in tight association between the A and P (phosphorylation) domains []. It does not contain the phosphorylation site. It is thought that the large movement of the actuator domain, which is transmitted to the transmembrane helices, is essential to the long distance coupling between formation/decomposition of the acyl phosphate in the cytoplasmic P-domain and the changes in the ion-binding sites buried deep in the membranous region []. This domain has a modulatory effect on the phosphoenzyme processing steps through its nucleotide binding [],[]. P-type (or E1-E2-type) ATPases that form an aspartyl phosphate intermediate in the course of ATP hydrolysis, can be divided into 4 major groups []: (1) Ca2+-transporting ATPases; (2) Na+/K+- and gastric H+/K+-transporting ATPases; (3) plasma membrane H+-transporting ATPases (proton pumps) of plants, fungi and lower eukaryotes; and (4) all bacterial P-type ATPases, except the g2+-ATPase of Salmonella typhimurium, which is more similar to the eukaryotic sequences. However, great variety of sequence analysis methods results in diversity of classification. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0000166 nucleotide binding, 0046872 metal ion binding; PDB: 2XZB_A 1MHS_B 3TLM_A 3A3Y_A 2ZXE_A 3NAL_A 3NAM_A 3NAN_A 2YJ6_B 2IYE_A ....
Probab=42.28 E-value=11 Score=26.58 Aligned_cols=18 Identities=22% Similarity=0.527 Sum_probs=13.9
Q ss_pred eeeeeccCcEEEeCCCCe
Q 038528 10 RTLDIRRGDVYRLQPGSV 27 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~ 27 (91)
...+|+.||++.|.+|-.
T Consensus 48 ~~~~L~~GDiI~l~~g~~ 65 (230)
T PF00122_consen 48 PSSELVPGDIIILKAGDI 65 (230)
T ss_dssp EGGGT-TTSEEEEETTEB
T ss_pred hHhhccceeeeecccccc
Confidence 456789999999988864
No 77
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=41.98 E-value=16 Score=21.13 Aligned_cols=15 Identities=27% Similarity=0.372 Sum_probs=12.3
Q ss_pred ceeeeeccCcEEEeC
Q 038528 9 IRTLDIRRGDVYRLQ 23 (91)
Q Consensus 9 ~~~~~lr~GDv~~ip 23 (91)
+.++.|+.||++.||
T Consensus 45 ~~~~~l~~Gd~v~i~ 59 (59)
T TIGR02988 45 RRGKKLYPGDVIEIP 59 (59)
T ss_pred CCCCCCCCCCEEEeC
Confidence 447889999999875
No 78
>PHA00144 major head protein
Probab=41.37 E-value=28 Score=28.80 Aligned_cols=14 Identities=36% Similarity=0.453 Sum_probs=11.3
Q ss_pred cCHHHHHHHhCCCc
Q 038528 73 FDRKVLQSAFKRAV 86 (91)
Q Consensus 73 F~~~iL~~Af~v~~ 86 (91)
||-+.|++|||.+.
T Consensus 255 lDVd~LA~AFNmd~ 268 (438)
T PHA00144 255 LDVDVLAKAFNMDK 268 (438)
T ss_pred ecHHHHHHHhCcch
Confidence 67778999998875
No 79
>KOG3706 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.82 E-value=19 Score=30.71 Aligned_cols=21 Identities=14% Similarity=0.374 Sum_probs=17.1
Q ss_pred eeccCcEEEeCCCCeEEEeeC
Q 038528 13 DIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~ 33 (91)
=|+.||++.+|.|++|=..-.
T Consensus 384 vle~GDllYfPRG~IHQA~t~ 404 (629)
T KOG3706|consen 384 VLEPGDLLYFPRGTIHQADTP 404 (629)
T ss_pred hcCCCcEEEecCcceeecccc
Confidence 468999999999999865443
No 80
>PLN02288 mannose-6-phosphate isomerase
Probab=38.27 E-value=23 Score=28.67 Aligned_cols=20 Identities=10% Similarity=0.174 Sum_probs=17.4
Q ss_pred eeeeeccCcEEEeCCCCeEE
Q 038528 10 RTLDIRRGDVYRLQPGSVFY 29 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y 29 (91)
....|++|+.|.+|||++|=
T Consensus 251 N~v~L~PGeaifl~ag~~HA 270 (394)
T PLN02288 251 NYVKLNPGEALYLGANEPHA 270 (394)
T ss_pred ceEecCCCCEEEecCCCCce
Confidence 35689999999999999984
No 81
>PRK11507 ribosome-associated protein; Provisional
Probab=37.19 E-value=21 Score=22.41 Aligned_cols=18 Identities=11% Similarity=0.180 Sum_probs=15.1
Q ss_pred CCceeeeeccCcEEEeCC
Q 038528 7 DDIRTLDIRRGDVYRLQP 24 (91)
Q Consensus 7 ~~~~~~~lr~GDv~~ipa 24 (91)
+.++-..|+.||++-++-
T Consensus 46 e~rRgkKl~~GD~V~~~g 63 (70)
T PRK11507 46 ETRKRCKIVAGQTVSFAG 63 (70)
T ss_pred ecccCCCCCCCCEEEECC
Confidence 467889999999998864
No 82
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=36.73 E-value=66 Score=23.56 Aligned_cols=28 Identities=18% Similarity=0.182 Sum_probs=22.4
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNLE 35 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~~ 35 (91)
+.+...++.||++.+|++.++-+.-.++
T Consensus 87 ~g~~~~l~~G~~~l~~~~~p~~~~~~~~ 114 (302)
T PRK09685 87 DDRQVQLAAGDITLIDASRPCSIYPQGL 114 (302)
T ss_pred CCeEEEEcCCCEEEEECCCCcEeecCCC
Confidence 3467889999999999999987765543
No 83
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=36.18 E-value=41 Score=20.12 Aligned_cols=23 Identities=30% Similarity=0.442 Sum_probs=15.2
Q ss_pred eeeeeccCcEEEeCCCCeEEEee
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIES 32 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N 32 (91)
+...|..||++.+..|...+.++
T Consensus 79 ~~~~l~~gd~i~ig~~~~~~~~~ 101 (102)
T cd00060 79 EPVRLRDGDVIRLGNTSISFRFE 101 (102)
T ss_pred CcEECCCCCEEEECCeEEEEEEe
Confidence 35667778888887755555543
No 84
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=35.48 E-value=24 Score=22.34 Aligned_cols=19 Identities=26% Similarity=0.413 Sum_probs=15.8
Q ss_pred CCceeeeeccCcEEEeCCC
Q 038528 7 DDIRTLDIRRGDVYRLQPG 25 (91)
Q Consensus 7 ~~~~~~~lr~GDv~~ipaG 25 (91)
+.+|-..||.||++-+|-.
T Consensus 46 EtRRgkKlr~gd~V~i~~~ 64 (73)
T COG2501 46 ETRRGKKLRDGDVVEIPGQ 64 (73)
T ss_pred eeccCCEeecCCEEEECCE
Confidence 4678889999999999853
No 85
>PF15517 TBPIP_N: TBP-interacting protein N-terminus; PDB: 2CZR_A.
Probab=35.26 E-value=29 Score=23.16 Aligned_cols=16 Identities=25% Similarity=0.530 Sum_probs=12.4
Q ss_pred cEEEeCCCCeEEEeeC
Q 038528 18 DVYRLQPGSVFYIESN 33 (91)
Q Consensus 18 Dv~~ipaG~~~y~~N~ 33 (91)
|+++||---+||+-|-
T Consensus 64 ~iivvP~kgtFYi~NG 79 (99)
T PF15517_consen 64 DIIVVPGKGTFYINNG 79 (99)
T ss_dssp EEEEES-TT-EEEETT
T ss_pred EEEEECCCCeEEEeCc
Confidence 8999999999999774
No 86
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=34.07 E-value=49 Score=24.33 Aligned_cols=20 Identities=30% Similarity=0.627 Sum_probs=15.9
Q ss_pred eeeeccCcEEEeCCCCeEEE
Q 038528 11 TLDIRRGDVYRLQPGSVFYI 30 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~y~ 30 (91)
-..|+.||+|.+|..-.+|+
T Consensus 148 ni~L~~GD~I~V~~~~~v~v 167 (239)
T TIGR03028 148 NILVAGGDIIYVDRAPVFYI 167 (239)
T ss_pred CcEEcCCCEEEEcCCccEEE
Confidence 46789999999998766555
No 87
>PF07506 RepB: RepB plasmid partitioning protein; InterPro: IPR011111 This family includes proteins with sequence similarity to the RepB partitioning protein of the large Ti (tumour-inducing) plasmids of Agrobacterium tumefaciens [, ].
Probab=33.89 E-value=27 Score=24.77 Aligned_cols=19 Identities=26% Similarity=0.359 Sum_probs=17.1
Q ss_pred cccCHHHHHHHhCCCcccc
Q 038528 71 LGFDRKVLQSAFKRAVLLL 89 (91)
Q Consensus 71 ~GF~~~iL~~Af~v~~~~i 89 (91)
+||+.+.+++|++++...+
T Consensus 20 ~G~~~~~I~~aL~id~~~l 38 (185)
T PF07506_consen 20 RGFSREEIAAALGIDKSYL 38 (185)
T ss_pred cCCCHHHHHHHHCCCHHHH
Confidence 6999999999999998765
No 88
>PF09700 Cas_Cmr3: CRISPR-associated protein (Cas_Cmr3); InterPro: IPR019117 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a highly divergent family of Cas proteins, found in at least ten different archaeal and bacterial species, including TM1793 from Thermotoga maritima.
Probab=33.86 E-value=29 Score=26.55 Aligned_cols=17 Identities=24% Similarity=0.522 Sum_probs=14.6
Q ss_pred EEeCCCCeEEEeeCCCC
Q 038528 20 YRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 20 ~~ipaG~~~y~~N~~~~ 36 (91)
.++||||++|+-...+.
T Consensus 307 ~avpaGSVy~~~~~~~~ 323 (351)
T PF09700_consen 307 RAVPAGSVYFFEAEEGE 323 (351)
T ss_pred cccCCceEEEEEcCCcc
Confidence 68999999999888655
No 89
>PF07103 DUF1365: Protein of unknown function (DUF1365); InterPro: IPR010775 This family consists of several bacterial and plant proteins of around 250 residues in length. The function of this family is unknown.
Probab=33.42 E-value=63 Score=24.40 Aligned_cols=33 Identities=15% Similarity=0.084 Sum_probs=23.1
Q ss_pred CCCeEEEeeCCCCCcccEEEEEEeecCCCC-CCCceeec
Q 038528 24 PGSVFYIESNLEQEREKLRIYAIFSNTEDD-SYFEPVIG 61 (91)
Q Consensus 24 aG~~~y~~N~~~~e~~~L~i~~l~d~~n~~-~~~~~fla 61 (91)
+=+.+|||..++ +|+ +.|+.++|.| +++..|+-
T Consensus 105 PvSfyyc~d~~~----~l~-~vvaEV~NTPfgErH~Yvl 138 (254)
T PF07103_consen 105 PVSFYYCYDADG----QLR-AVVAEVNNTPFGERHCYVL 138 (254)
T ss_pred CeEEEEEEcCCC----CEE-EEEEEEeCCCCCcEEEEEe
Confidence 336788998754 455 5677888885 78887654
No 90
>TIGR01888 cas_cmr3 CRISPR-associated protein, Cmr3 family. CRISPR is a term for Clustered Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR associated) proteins. This highly divergent family is found in at least ten different archaeal and bacterial species as part of the CRISPR RAMP modulue but is not a member of the RAMP superfamily itself. A typical example is TM1793 from Thermotoga maritima.
Probab=32.80 E-value=25 Score=27.23 Aligned_cols=22 Identities=23% Similarity=0.533 Sum_probs=16.2
Q ss_pred ccCcEEEeCCCCeEEEeeCCCC
Q 038528 15 RRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 15 r~GDv~~ipaG~~~y~~N~~~~ 36 (91)
.+--.=++||||++|+-...++
T Consensus 288 pkp~~~avpaGSVy~~~~~~~~ 309 (337)
T TIGR01888 288 PKPTLRAVPPGSVYFFKAKEEG 309 (337)
T ss_pred CCCCccccCCCcEEEEEeccCC
Confidence 3344568999999999876443
No 91
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=32.73 E-value=41 Score=20.64 Aligned_cols=17 Identities=29% Similarity=0.522 Sum_probs=8.7
Q ss_pred CCceeeeeccCcEEEeC
Q 038528 7 DDIRTLDIRRGDVYRLQ 23 (91)
Q Consensus 7 ~~~~~~~lr~GDv~~ip 23 (91)
+.++...|+.||++.++
T Consensus 42 e~rrg~Kl~~GD~V~~~ 58 (65)
T PF13275_consen 42 ETRRGKKLRPGDVVEID 58 (65)
T ss_dssp ---SS----SSEEEEET
T ss_pred ccccCCcCCCCCEEEEC
Confidence 46788999999999883
No 92
>COG3508 HmgA Homogentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=32.53 E-value=38 Score=27.87 Aligned_cols=24 Identities=21% Similarity=0.472 Sum_probs=19.6
Q ss_pred eeeeccCcEEEeCCCCeEEEeeCC
Q 038528 11 TLDIRRGDVYRLQPGSVFYIESNL 34 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~y~~N~~ 34 (91)
...+++||+..||.|+.|=+-=-+
T Consensus 165 ~l~v~pgeiavIPRG~~frve~~~ 188 (427)
T COG3508 165 VLEVEPGEIAVIPRGTTFRVELKD 188 (427)
T ss_pred eEEecCCcEEEeeCCceEEEEecC
Confidence 457899999999999998776553
No 93
>PF07497 Rho_RNA_bind: Rho termination factor, RNA-binding domain; InterPro: IPR011113 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers [].; GO: 0003723 RNA binding, 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=32.52 E-value=22 Score=22.62 Aligned_cols=18 Identities=28% Similarity=0.589 Sum_probs=11.2
Q ss_pred ccCCCceeeeeccCcEEE
Q 038528 4 ADEDDIRTLDIRRGDVYR 21 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~ 21 (91)
|.+.--+.++||+||++.
T Consensus 33 Vs~~qIrrf~LR~GD~V~ 50 (78)
T PF07497_consen 33 VSPSQIRRFGLRTGDLVE 50 (78)
T ss_dssp E-CCCCCCTT--TTEEEE
T ss_pred ECHHHHHHcCCCCCCEEE
Confidence 444445788999999985
No 94
>TIGR02408 ectoine_ThpD ectoine hydroxylase. Both ectoine and hydroxyectoine are compatible solvents that serve as protectants against osmotic and thermal stresses. A number of genomes synthesize ectoine. This enzyme allows conversion of ectoine to hydroxyectoine, which may be more effective for some purposes, and is found in a subset of ectoine-producing organisms.
Probab=32.30 E-value=1e+02 Score=23.10 Aligned_cols=40 Identities=13% Similarity=0.227 Sum_probs=24.6
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
+...++.|||+..-.=+.|.---|-.+. .+..++..+..+
T Consensus 211 v~~~~~aGDvl~f~~~~~H~S~~N~s~~-~R~~l~l~y~~~ 250 (277)
T TIGR02408 211 STFTGKAGSAVWFDCNTMHGSGSNITPW-PRSNVFMVFNSV 250 (277)
T ss_pred eeeccCCceEEEEccccccCCCCCCCCC-cceeEEEEEecC
Confidence 3456788888888888888776443332 355555545433
No 95
>PF15572 Imm26: Immunity protein 26
Probab=32.18 E-value=1.4e+02 Score=19.81 Aligned_cols=33 Identities=15% Similarity=0.349 Sum_probs=22.1
Q ss_pred eeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCC
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTED 52 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~ 52 (91)
+...|++|+|+++|+= |= . + +.+=.++++..+.
T Consensus 7 ~~~~l~rG~i~R~~~~---yp--y--e---~~VDFmV~e~~~~ 39 (96)
T PF15572_consen 7 KEKYLWRGTIFRCPGV---YP--Y--E---EVVDFMVFEDPDF 39 (96)
T ss_pred CCccEecceEEEeccc---CC--C--c---ccEEEEEEeccCC
Confidence 3457999999999987 21 1 2 4555666666654
No 96
>PF09023 Staphostatin_B: Staphostatin B; InterPro: IPR015113 Staphostatin B inhibits the cysteine protease Staphopain B, produced by Staphylococcus aureus, by blocking the active site of the enzyme. The domain adopts an eight-stranded mixed beta-barrel structure, with a deviation from the up-down topology of canonical beta-barrels in the amino-terminal part of the molecule []. ; PDB: 1QWX_B 1NYC_B 1Y4H_D 1PXV_D.
Probab=32.10 E-value=24 Score=23.86 Aligned_cols=17 Identities=29% Similarity=0.712 Sum_probs=14.6
Q ss_pred ccccCCCceeeeeccCc
Q 038528 2 SWADEDDIRTLDIRRGD 18 (91)
Q Consensus 2 ~~v~~~~~~~~~lr~GD 18 (91)
.|++++.|++-++|.||
T Consensus 30 nWin~~~qkSi~Ir~g~ 46 (107)
T PF09023_consen 30 NWINHQLQKSICIRHGD 46 (107)
T ss_dssp EEEETTTTEEEEEEEE-
T ss_pred ccCCcchhccEEEEecC
Confidence 59999999999999876
No 97
>PF15428 Imm14: Immunity protein 14
Probab=31.81 E-value=32 Score=22.63 Aligned_cols=15 Identities=20% Similarity=0.472 Sum_probs=10.7
Q ss_pred ccCcEEEeCCCCeEE
Q 038528 15 RRGDVYRLQPGSVFY 29 (91)
Q Consensus 15 r~GDv~~ipaG~~~y 29 (91)
++|||+++|-.--.|
T Consensus 1 K~GDIF~ipL~~~~y 15 (129)
T PF15428_consen 1 KPGDIFCIPLDDGKY 15 (129)
T ss_pred CCceEEEEEcCCCCE
Confidence 579999999544444
No 98
>cd04459 Rho_CSD Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA are released from DNA template by an mRNA stem loop structure, which resembles the transcription termination mechanism used by eukaryotic pol III. The second mechanism is mediated by Rho factor. Rho factor terminates transcription by using energy from ATP hydrolysis to forcibly dissociate the transcripts from RNA polymerase. Rho protein contains an N-terminal S1-like domain, which binds single-stranded RNA. Rho has a C-terminal ATPase domain which hydrolyzes ATP to provide energy to strip RNA polymerase and mRNA from the DNA template. Rho functions as a homohexamer.
Probab=31.21 E-value=20 Score=22.16 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=11.2
Q ss_pred ceeeeeccCcEEEe
Q 038528 9 IRTLDIRRGDVYRL 22 (91)
Q Consensus 9 ~~~~~lr~GDv~~i 22 (91)
-+.++||+||+|.=
T Consensus 36 Irr~~LR~GD~V~G 49 (68)
T cd04459 36 IRRFNLRTGDTVVG 49 (68)
T ss_pred HHHhCCCCCCEEEE
Confidence 36789999999954
No 99
>TIGR03425 urea_degr_2 urea carboxylase-associated protein 2. A number of bacteria degrade urea as a nitrogen source by the urea carboxylase/allophanate hydrolase pathway, which uses biotin and consumes ATP, rather than my means of the nickel-dependent enzyme urease. This model represents one of a pair of homologous, tandem uncharacterized genes found together with the urea carboxylase and allophanate hydrolase genes.
Probab=31.17 E-value=76 Score=24.00 Aligned_cols=33 Identities=15% Similarity=0.151 Sum_probs=25.2
Q ss_pred ccCCCceeeeeccCcEEEe-----CCCCeEEEeeCCCC
Q 038528 4 ADEDDIRTLDIRRGDVYRL-----QPGSVFYIESNLEQ 36 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~i-----paG~~~y~~N~~~~ 36 (91)
|....-.+..|++|++++| .+.+-+|++|.+|.
T Consensus 7 Ip~g~~~s~~v~rGq~lri~d~~G~q~~d~~~~na~d~ 44 (233)
T TIGR03425 7 VPGGGYWSKVLRRGTRLRLTDLEGGANVSLLLYNADAP 44 (233)
T ss_pred ECCCCcEEEEECCCCEEEEEeCCCCeEeeeEEecCCCc
Confidence 3455678999999999998 34566799998763
No 100
>TIGR03876 cas_csaX CRISPR-associated protein, CsaX family. This family comprises a minor CRISPR-associated protein family. It occurs only in the context of the (strictly archaeal) Apern subtype of CRISPR/Cas system, and is further restricted to the Sulfolobales, including Metallosphaera sedula DSM 5348 and multiple species of the genus Sulfolobus.
Probab=30.93 E-value=21 Score=27.56 Aligned_cols=16 Identities=13% Similarity=0.221 Sum_probs=13.8
Q ss_pred cCCCccCceecccCHH
Q 038528 61 GAYTSISDLILGFDRK 76 (91)
Q Consensus 61 ag~~~~~ni~~GF~~~ 76 (91)
|||++|..|..|||.+
T Consensus 202 AgGQnPTti~GGFsid 217 (281)
T TIGR03876 202 AGGQNPTTIVGGFSID 217 (281)
T ss_pred cCCCCCceEecceeee
Confidence 5778999999999964
No 101
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=30.84 E-value=12 Score=23.62 Aligned_cols=20 Identities=25% Similarity=0.450 Sum_probs=14.9
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
|+++++-+...|+.||.+.|
T Consensus 38 ~in~~dA~~lgi~~Gd~V~v 57 (116)
T cd02790 38 EINPEDAKRLGIEDGEKVRV 57 (116)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56677777888888887744
No 102
>COG3273 Uncharacterized conserved protein [Function unknown]
Probab=30.10 E-value=32 Score=25.80 Aligned_cols=19 Identities=21% Similarity=0.249 Sum_probs=15.9
Q ss_pred cEEEeCCCCeEEEeeCCCCC
Q 038528 18 DVYRLQPGSVFYIESNLEQE 37 (91)
Q Consensus 18 Dv~~ipaG~~~y~~N~~~~e 37 (91)
+||+|..|- -|+||++.+.
T Consensus 148 rVIAIRRG~-~wi~~Pd~~~ 166 (204)
T COG3273 148 RVIAIRRGE-RWIYGPDEDT 166 (204)
T ss_pred EEEEEecCC-ccccCCCccc
Confidence 688888888 8999998764
No 103
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=30.02 E-value=8.9 Score=24.11 Aligned_cols=20 Identities=30% Similarity=0.456 Sum_probs=13.3
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
+|++++-+...|+.||.+.|
T Consensus 33 ~inp~dA~~~Gi~~Gd~V~v 52 (110)
T PF01568_consen 33 EINPEDAAKLGIKDGDWVRV 52 (110)
T ss_dssp EEEHHHHHHCT--TTCEEEE
T ss_pred EEcHHHHHHhcCcCCCEEEE
Confidence 56677777888888888744
No 104
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=30.01 E-value=13 Score=23.49 Aligned_cols=20 Identities=20% Similarity=0.341 Sum_probs=15.0
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
|+++++-+...|+.||.+.|
T Consensus 32 ~inp~dA~~lGi~~Gd~V~v 51 (96)
T cd02788 32 RLSPADAARLGLADGDLVEF 51 (96)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56777777888889997743
No 105
>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco. The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....
Probab=29.34 E-value=24 Score=22.27 Aligned_cols=18 Identities=28% Similarity=0.504 Sum_probs=11.6
Q ss_pred eeeeccCcEEEeCCCCeE
Q 038528 11 TLDIRRGDVYRLQPGSVF 28 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~ 28 (91)
++++++|++|.+|...+.
T Consensus 7 t~dI~~Ge~I~~p~~~~~ 24 (162)
T PF00856_consen 7 TRDIKAGEVILIPRPAIL 24 (162)
T ss_dssp SS-B-TTEEEEEESEEEE
T ss_pred CccCCCCCEEEEECcceE
Confidence 467888998878776653
No 106
>PRK06933 type III secretion system protein; Validated
Probab=29.17 E-value=1e+02 Score=24.16 Aligned_cols=15 Identities=27% Similarity=0.279 Sum_probs=12.1
Q ss_pred eeeeccCcEEEeCCC
Q 038528 11 TLDIRRGDVYRLQPG 25 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG 25 (91)
-+.++.|||+.+|++
T Consensus 173 L~~L~~GDvLli~~~ 187 (308)
T PRK06933 173 FDSLELGDVLLAPEG 187 (308)
T ss_pred HhccCCCCEEEeccc
Confidence 457899999999854
No 107
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=29.10 E-value=14 Score=23.60 Aligned_cols=19 Identities=21% Similarity=0.230 Sum_probs=14.3
Q ss_pred cccCCCceeeeeccCcEEE
Q 038528 3 WADEDDIRTLDIRRGDVYR 21 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~ 21 (91)
||++++-+...|+.||.+.
T Consensus 34 ~i~p~dA~~lgi~~Gd~V~ 52 (116)
T cd02786 34 LIHPADAAARGIADGDLVV 52 (116)
T ss_pred EECHHHHHHcCCCCCCEEE
Confidence 5667777778888888774
No 108
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=29.03 E-value=20 Score=32.11 Aligned_cols=19 Identities=16% Similarity=0.198 Sum_probs=16.7
Q ss_pred cCcEEEeCCCCeEEEeeCC
Q 038528 16 RGDVYRLQPGSVFYIESNL 34 (91)
Q Consensus 16 ~GDv~~ipaG~~~y~~N~~ 34 (91)
-||++.||||.+|=+.|--
T Consensus 805 LGdAVfIPAGaPHQVrNLk 823 (889)
T KOG1356|consen 805 LGDAVFIPAGAPHQVRNLK 823 (889)
T ss_pred ccceEEecCCCcHHhhhhh
Confidence 4999999999999888863
No 109
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=28.90 E-value=26 Score=20.07 Aligned_cols=12 Identities=25% Similarity=0.744 Sum_probs=7.1
Q ss_pred eeeeccCcEEEe
Q 038528 11 TLDIRRGDVYRL 22 (91)
Q Consensus 11 ~~~lr~GDv~~i 22 (91)
...|+.||++.+
T Consensus 56 ~~~L~~gd~i~~ 67 (68)
T PF00498_consen 56 PVPLKDGDIIRF 67 (68)
T ss_dssp EEEE-TTEEEEE
T ss_pred EEECCCCCEEEc
Confidence 466777777654
No 110
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=28.73 E-value=21 Score=19.77 Aligned_cols=23 Identities=4% Similarity=0.013 Sum_probs=15.9
Q ss_pred ceecccCHHHHHHHhCCCccccc
Q 038528 68 DLILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 68 ni~~GF~~~iL~~Af~v~~~~i~ 90 (91)
-++.|++..-+++.+|++...++
T Consensus 22 ~~~~g~s~~eIa~~l~~s~~~v~ 44 (54)
T PF08281_consen 22 RYFQGMSYAEIAEILGISESTVK 44 (54)
T ss_dssp HHTS---HHHHHHHCTS-HHHHH
T ss_pred HHHHCcCHHHHHHHHCcCHHHHH
Confidence 46789999999999999987764
No 111
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=28.22 E-value=15 Score=24.02 Aligned_cols=20 Identities=30% Similarity=0.453 Sum_probs=15.8
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
|+++++-+...|+.||.+.|
T Consensus 36 ~i~p~dA~~~gi~~Gd~V~v 55 (129)
T cd02782 36 RIHPDDAAALGLADGDKVRV 55 (129)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 66777778888899998854
No 112
>PRK09919 anti-adapter protein IraM; Provisional
Probab=28.02 E-value=83 Score=21.55 Aligned_cols=35 Identities=23% Similarity=0.291 Sum_probs=21.2
Q ss_pred ccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecC
Q 038528 15 RRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNT 50 (91)
Q Consensus 15 r~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~ 50 (91)
=+||++ +|+|.++.+.|.|---+.+++=+.|+++.
T Consensus 33 Y~~d~~-L~pG~~i~~~~~gvliNdk~~pItIYnvt 67 (114)
T PRK09919 33 YQADIF-LPPGSIITPVKSGVLLNDKPYPITIYNIT 67 (114)
T ss_pred EeeeEE-eCCCCEEEEcCCeEEECCcEeEEEEEEec
Confidence 357765 78888888777652111256666666544
No 113
>PF06413 Neugrin: Neugrin; InterPro: IPR010487 This family contains mouse and human neugrin proteins. Neugrin and m-neugrin are mainly expressed in neurons in the nervous system, and are thought to play an important role in the process of neuronal differentiation []. Homologues of neugrin are found in fungi suggesting they have a alternative role or more than one function.
Probab=27.85 E-value=28 Score=26.18 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=16.2
Q ss_pred cCHHHHHHHhCCCccccc
Q 038528 73 FDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 73 F~~~iL~~Af~v~~~~i~ 90 (91)
|+.+.||+.|+|++|.|+
T Consensus 30 ~t~~~Lae~F~vspe~ir 47 (225)
T PF06413_consen 30 WTVERLAESFKVSPEAIR 47 (225)
T ss_pred cCHHHHHhhCCCCHHHHH
Confidence 678899999999999886
No 114
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=27.59 E-value=43 Score=19.74 Aligned_cols=16 Identities=31% Similarity=0.503 Sum_probs=12.1
Q ss_pred eccCcEEEeCCCCeEE
Q 038528 14 IRRGDVYRLQPGSVFY 29 (91)
Q Consensus 14 lr~GDv~~ipaG~~~y 29 (91)
++.|||+.+-.|-+--
T Consensus 1 f~~GDvV~LKSGGp~M 16 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRM 16 (53)
T ss_pred CCCCCEEEEccCCCCe
Confidence 4689999998885433
No 115
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=27.51 E-value=15 Score=23.49 Aligned_cols=20 Identities=15% Similarity=0.152 Sum_probs=15.2
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
|+++++-+...|+.||.+.|
T Consensus 38 ~i~p~dA~~lgi~~Gd~V~v 57 (122)
T cd02792 38 EISPELAAERGIKNGDMVWV 57 (122)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56777777888899998743
No 116
>COG4766 EutQ Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=27.26 E-value=40 Score=24.66 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=14.9
Q ss_pred ccCcEEEeCCCCeEEEeeC
Q 038528 15 RRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 15 r~GDv~~ipaG~~~y~~N~ 33 (91)
..||||.||.|+-.=+--.
T Consensus 141 ~aGDvifiPKgssIefst~ 159 (176)
T COG4766 141 GAGDVIFIPKGSSIEFSTT 159 (176)
T ss_pred CCCcEEEecCCCeEEEecc
Confidence 6799999999986655444
No 117
>cd02791 MopB_CT_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs
Probab=26.96 E-value=16 Score=23.42 Aligned_cols=18 Identities=22% Similarity=0.420 Sum_probs=13.3
Q ss_pred cccCCCceeeeeccCcEE
Q 038528 3 WADEDDIRTLDIRRGDVY 20 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~ 20 (91)
|+++++-+...++.||.+
T Consensus 38 ~in~~dA~~lgi~~Gd~V 55 (122)
T cd02791 38 EIHPEDAARLGLKEGDLV 55 (122)
T ss_pred EECHHHHHHcCCCCCCEE
Confidence 566666777788888876
No 118
>cd03699 lepA_II lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu and IF2 have all been demonstrated to interact at overlapping sites on the ribosome. Chemical protection studies demonstrate that they all include the universally conserved alpha-sarcin loop as part of their binding site. These data indicate that LepA may bind to this location on the ribosome as well. LepA has never been observed in archaea, and eukaryl LepA is organellar. LepA is therefore a true bacterial GTPase, found only in the bacterial lineage.
Probab=26.90 E-value=40 Score=20.68 Aligned_cols=17 Identities=24% Similarity=0.288 Sum_probs=9.9
Q ss_pred ceeeeeccCcEEEeCCC
Q 038528 9 IRTLDIRRGDVYRLQPG 25 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG 25 (91)
..+..+..||+.++..|
T Consensus 55 ~~~~~~~aGdI~~v~~g 71 (86)
T cd03699 55 TPTDELSAGQVGYIIAG 71 (86)
T ss_pred cCCceECCCCEEEEEcc
Confidence 34455566777666544
No 119
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=26.83 E-value=43 Score=20.07 Aligned_cols=15 Identities=33% Similarity=0.538 Sum_probs=9.2
Q ss_pred eeeeccCcEEEeCCC
Q 038528 11 TLDIRRGDVYRLQPG 25 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG 25 (91)
..+|+.|||+.++.-
T Consensus 26 l~~L~~Gdvi~l~~~ 40 (77)
T PF01052_consen 26 LLNLKVGDVIPLDKP 40 (77)
T ss_dssp HHC--TT-EEEECCE
T ss_pred HhcCCCCCEEEeCCC
Confidence 356889999988865
No 120
>TIGR00218 manA mannose-6-phosphate isomerase, class I. The names phosphomannose isomerase and mannose-6-phosphate isomerase are synonomous. This family contains two rather deeply branched groups. One group contains an experimentally determined phosphomannose isomerase of Streptococcus mutans as well as three uncharacterized paralogous proteins of Bacillus subtilis, all at more than 50 % identity to each other, plus a more distant homolog from Archaeoglobus fulgidus. The other group contains members from E. coli, budding yeast, Borrelia burgdorferi, etc.
Probab=26.75 E-value=79 Score=24.05 Aligned_cols=23 Identities=13% Similarity=0.309 Sum_probs=19.3
Q ss_pred eeeeeccCcEEEeCCCCeEEEee
Q 038528 10 RTLDIRRGDVYRLQPGSVFYIES 32 (91)
Q Consensus 10 ~~~~lr~GDv~~ipaG~~~y~~N 32 (91)
....|++|+++.|||++--+.+.
T Consensus 271 ~~~~l~~G~~~~ipa~~~~~~i~ 293 (302)
T TIGR00218 271 KTLPLKKGESFFIPAHLGPFTIE 293 (302)
T ss_pred EEEEEecccEEEEccCCccEEEE
Confidence 45779999999999999777764
No 121
>PF14977 FAM194: FAM194 protein
Probab=26.64 E-value=2.1e+02 Score=21.36 Aligned_cols=26 Identities=12% Similarity=0.097 Sum_probs=13.5
Q ss_pred eeeeeccCcEE--EeCCCCeEEEeeCCC
Q 038528 10 RTLDIRRGDVY--RLQPGSVFYIESNLE 35 (91)
Q Consensus 10 ~~~~lr~GDv~--~ipaG~~~y~~N~~~ 35 (91)
+....+.|-++ ..|-||.++.|-.|+
T Consensus 7 ~~~~Y~~g~~f~~~f~DGsg~i~YPSGn 34 (208)
T PF14977_consen 7 KEKYYKNGRKFHYMFPDGSGQIFYPSGN 34 (208)
T ss_pred hheeCCCCcEEEEEcCCCCEEEEeCCCC
Confidence 33344444443 456666666666654
No 122
>PF05986 ADAM_spacer1: ADAM-TS Spacer 1; InterPro: IPR010294 This domain represents the Spacer-1 domain from the ADAM-TS family of metalloproteinases []. A cellular disintegrin and metalloproteinase (ADAM) is a family of genes with structural homology to the snake venom metalloproteinases and disintegrins []. There is variation amongst members of the family, however, all have a similar domain organisation comprising a preproregion, a reprolysin-type catalytic domain, a disintegrin-like domain, a thrombospondin type-1 (TS) module, a cysteine-rich domain, a spacer domain without cysteine residues, and a COOH-terminal TS module [, ]. They are involved in embryogenesis and have been implicated in some cancers and inflammatory diseases [].; GO: 0004222 metalloendopeptidase activity, 0031012 extracellular matrix
Probab=26.29 E-value=42 Score=22.07 Aligned_cols=14 Identities=14% Similarity=0.057 Sum_probs=11.3
Q ss_pred cEEEeCCCCeEEEe
Q 038528 18 DVYRLQPGSVFYIE 31 (91)
Q Consensus 18 Dv~~ipaG~~~y~~ 31 (91)
+|+.||+|+..=-+
T Consensus 18 ~v~~IP~GA~nI~I 31 (114)
T PF05986_consen 18 KVVTIPAGARNIRI 31 (114)
T ss_pred EEEECCCCceEEEE
Confidence 69999999986544
No 123
>KOG0024 consensus Sorbitol dehydrogenase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=26.10 E-value=39 Score=27.36 Aligned_cols=28 Identities=18% Similarity=0.195 Sum_probs=23.4
Q ss_pred cccCCCceeeeeccCcEEEeCCCCeEEE
Q 038528 3 WADEDDIRTLDIRRGDVYRLQPGSVFYI 30 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~ipaG~~~y~ 30 (91)
.|.+=..++.+|+.||-++|-+|.+-+.
T Consensus 72 iV~evG~~Vk~LkVGDrVaiEpg~~c~~ 99 (354)
T KOG0024|consen 72 IVEEVGDEVKHLKVGDRVAIEPGLPCRD 99 (354)
T ss_pred chhhhcccccccccCCeEEecCCCcccc
Confidence 3455567899999999999999999876
No 124
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=25.82 E-value=72 Score=25.64 Aligned_cols=24 Identities=13% Similarity=0.108 Sum_probs=19.7
Q ss_pred ceeeeeccCcEEEeCCCCeEEEee
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIES 32 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N 32 (91)
..+..|++|+++.|||+...+.+.
T Consensus 356 ~~~~~l~~G~~~fipa~~~~~~~~ 379 (389)
T PRK15131 356 EQQLTLKPGESAFIAANESPVTVS 379 (389)
T ss_pred CeEEEECCCCEEEEeCCCccEEEe
Confidence 345789999999999998877773
No 125
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=25.74 E-value=33 Score=18.26 Aligned_cols=18 Identities=11% Similarity=-0.071 Sum_probs=13.7
Q ss_pred cCHHHHHHHhCCCccccc
Q 038528 73 FDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 73 F~~~iL~~Af~v~~~~i~ 90 (91)
|+..-+++.++|++.+++
T Consensus 1 ~~~~e~a~~~gv~~~tlr 18 (49)
T cd04761 1 YTIGELAKLTGVSPSTLR 18 (49)
T ss_pred CcHHHHHHHHCcCHHHHH
Confidence 455667888999888775
No 126
>PF11213 DUF3006: Protein of unknown function (DUF3006); InterPro: IPR021377 This family of proteins has no known function.
Probab=25.48 E-value=68 Score=19.45 Aligned_cols=20 Identities=15% Similarity=0.099 Sum_probs=13.7
Q ss_pred eeccCcEEEeCCCCeEEEeeC
Q 038528 13 DIRRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N~ 33 (91)
..++|||+.+ .+...|.++.
T Consensus 33 ~~keGDvl~i-~~~~~~~~d~ 52 (71)
T PF11213_consen 33 GAKEGDVLEI-GEDGSIEIDP 52 (71)
T ss_pred CCCcccEEEE-CCCceEEECH
Confidence 5688999988 4555555554
No 127
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=25.44 E-value=42 Score=19.86 Aligned_cols=22 Identities=9% Similarity=0.081 Sum_probs=19.1
Q ss_pred eecccCHHHHHHHhCCCccccc
Q 038528 69 LILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 69 i~~GF~~~iL~~Af~v~~~~i~ 90 (91)
+++|++..-+|+-+|++..+|.
T Consensus 10 Y~~G~~~~eIA~~Lg~~~~TV~ 31 (58)
T PF06056_consen 10 YLQGWSIKEIAEELGVPRSTVY 31 (58)
T ss_pred HHcCCCHHHHHHHHCCChHHHH
Confidence 6789999999999999987663
No 128
>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []. This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.
Probab=25.39 E-value=46 Score=17.39 Aligned_cols=13 Identities=8% Similarity=0.240 Sum_probs=10.4
Q ss_pred eeeeccCcEEEeC
Q 038528 11 TLDIRRGDVYRLQ 23 (91)
Q Consensus 11 ~~~lr~GDv~~ip 23 (91)
..+|..|+.+.||
T Consensus 32 ~~~l~~G~~l~iP 44 (44)
T PF01476_consen 32 SDNLQPGQKLCIP 44 (44)
T ss_dssp GGCGGTTEEEEEC
T ss_pred cccCCCCCEEEeC
Confidence 3348999999998
No 129
>KOG1392 consensus Acetyl-CoA acetyltransferase [Lipid transport and metabolism]
Probab=25.33 E-value=40 Score=27.41 Aligned_cols=18 Identities=22% Similarity=0.277 Sum_probs=15.3
Q ss_pred cccCHHHHHHHhCCCccc
Q 038528 71 LGFDRKVLQSAFKRAVLL 88 (91)
Q Consensus 71 ~GF~~~iL~~Af~v~~~~ 88 (91)
-|-|.+-|++||||++.+
T Consensus 213 mghsadrlaaafnvsr~e 230 (465)
T KOG1392|consen 213 MGHSADRLAAAFNVSRRE 230 (465)
T ss_pred ccccHHHHHHHhccchhh
Confidence 478899999999998754
No 130
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=25.20 E-value=18 Score=23.50 Aligned_cols=19 Identities=21% Similarity=0.199 Sum_probs=14.5
Q ss_pred cccCCCceeeeeccCcEEE
Q 038528 3 WADEDDIRTLDIRRGDVYR 21 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~ 21 (91)
||++++-+...|+.||.+.
T Consensus 36 ~inp~dA~~~gi~~Gd~V~ 54 (130)
T cd02781 36 EINPETAAKLGIADGDWVW 54 (130)
T ss_pred EECHHHHHHcCCCCCCEEE
Confidence 5677777778888888774
No 131
>KOG4116 consensus Ubiquinol cytochrome c reductase, subunit QCR8 [Energy production and conversion]
Probab=25.19 E-value=58 Score=21.47 Aligned_cols=19 Identities=16% Similarity=-0.123 Sum_probs=12.4
Q ss_pred cEEEeCCCCeEE-EeeCCCC
Q 038528 18 DVYRLQPGSVFY-IESNLEQ 36 (91)
Q Consensus 18 Dv~~ipaG~~~y-~~N~~~~ 36 (91)
=-++||+|.++| ||-.+++
T Consensus 54 ~y~~iP~~Iv~yliy~wg~e 73 (90)
T KOG4116|consen 54 LYVVIPQFIVAYLIYDWGKE 73 (90)
T ss_pred EEEEeccceEEEEEEecchh
Confidence 357899999555 4544544
No 132
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=24.44 E-value=40 Score=21.98 Aligned_cols=23 Identities=9% Similarity=0.067 Sum_probs=20.1
Q ss_pred ceecccCHHHHHHHhCCCccccc
Q 038528 68 DLILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 68 ni~~GF~~~iL~~Af~v~~~~i~ 90 (91)
.++.|++-+-+|+.+|+++..++
T Consensus 117 ~~~~g~s~~eIA~~lgis~~tv~ 139 (154)
T TIGR02950 117 REFKEFSYKEIAELLNLSLAKVK 139 (154)
T ss_pred hhhccCcHHHHHHHHCCCHHHHH
Confidence 46799999999999999987764
No 133
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=24.44 E-value=42 Score=20.96 Aligned_cols=23 Identities=13% Similarity=0.122 Sum_probs=19.8
Q ss_pred ceecccCHHHHHHHhCCCccccc
Q 038528 68 DLILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 68 ni~~GF~~~iL~~Af~v~~~~i~ 90 (91)
.++.|.+.+-+|+.+|+++..|+
T Consensus 122 ~~~~g~s~~eIA~~l~~s~~~v~ 144 (158)
T TIGR02937 122 RYLEGLSYKEIAEILGISVGTVK 144 (158)
T ss_pred HHhcCCCHHHHHHHHCCCHHHHH
Confidence 45789999999999999988764
No 134
>KOG3995 consensus 3-hydroxyanthranilate oxygenase HAAO [Amino acid transport and metabolism]
Probab=24.29 E-value=55 Score=25.25 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=19.5
Q ss_pred cccCCCceeeeeccCcEEEeCCCCeEE
Q 038528 3 WADEDDIRTLDIRRGDVYRLQPGSVFY 29 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~ipaG~~~y 29 (91)
.|++.+-+---+++||.+-+||-+.|-
T Consensus 68 Vie~g~~rDivI~qGe~flLParVpHS 94 (279)
T KOG3995|consen 68 VLEQGKHRDVVIRQGEIFLLPARVPHS 94 (279)
T ss_pred eeccCcceeeEEecCcEEEeccCCCCC
Confidence 345555555556999999999988764
No 135
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=24.18 E-value=1.2e+02 Score=22.40 Aligned_cols=48 Identities=15% Similarity=0.147 Sum_probs=36.7
Q ss_pred cCCCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCC
Q 038528 5 DEDDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTED 52 (91)
Q Consensus 5 ~~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~ 52 (91)
+..++-+..|++-|.-..--|....+..-..+++.++.++-++|.+++
T Consensus 18 d~~g~~v~~L~~~df~v~e~g~~q~i~~f~~~~~~p~~vvlvlD~SgS 65 (296)
T TIGR03436 18 DKKGRPVTGLTKDDFTVLEDGKPQTIASFRRETDLPLTVGLVIDTSGS 65 (296)
T ss_pred CCCCCCCCCCChHHeEEEECCeEEEEEEEecCCCCCceEEEEEECCCC
Confidence 344556678888888888888888887765443458999999999986
No 136
>PF04970 LRAT: Lecithin retinol acyltransferase; InterPro: IPR007053 This entry represents a conserved sequence region found in proteins from viruses, bacteria and eukaryotes. It contains a well-conserved NCEHF motif, though its function in these proteins is unknown.; PDB: 2KYT_A 4DOT_A 4FA0_A.
Probab=24.08 E-value=31 Score=22.61 Aligned_cols=28 Identities=11% Similarity=0.031 Sum_probs=14.1
Q ss_pred ceeeeeccCcEEEeCCC-CeEEEeeCCCC
Q 038528 9 IRTLDIRRGDVYRLQPG-SVFYIESNLEQ 36 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG-~~~y~~N~~~~ 36 (91)
|...+++.||+|.++.+ ..||-+=-|+.
T Consensus 2 ~~~~~~~~GD~I~~~r~~y~H~gIYvG~~ 30 (125)
T PF04970_consen 2 KDKKRLKPGDHIEVPRGLYEHWGIYVGDG 30 (125)
T ss_dssp ----S--TT-EEEEEETTEEEEEEEEETT
T ss_pred CcccCCCCCCEEEEecCCccEEEEEecCC
Confidence 45678999999998766 34555545554
No 137
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.83 E-value=20 Score=23.21 Aligned_cols=20 Identities=25% Similarity=0.453 Sum_probs=15.4
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
||++++-+...|+.||.+.|
T Consensus 33 ~i~p~~A~~~gi~~Gd~V~v 52 (121)
T cd02794 33 WINPLDAAARGIKDGDRVLV 52 (121)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56777778888889998853
No 138
>KOG0141 consensus Isovaleryl-CoA dehydrogenase [Amino acid transport and metabolism; Lipid transport and metabolism]
Probab=23.75 E-value=1.3e+02 Score=24.68 Aligned_cols=37 Identities=27% Similarity=0.515 Sum_probs=29.1
Q ss_pred ccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCC
Q 038528 15 RRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDS 54 (91)
Q Consensus 15 r~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~ 54 (91)
+.||-+ |--|+-|||.|-.+.. -|++++..|++-.++
T Consensus 181 k~g~~y-iLNGsK~witNG~~ad--vliVyAkTd~~a~~~ 217 (421)
T KOG0141|consen 181 KKGDDY-ILNGSKFWITNGPDAD--VLIVYAKTDHSAVPP 217 (421)
T ss_pred ecCCcE-EecCcEEEEecCCCCc--EEEEEEecCCCCCCC
Confidence 557765 5579999999998875 888999988886543
No 139
>PF14623 Vint: Hint-domain
Probab=23.75 E-value=36 Score=24.57 Aligned_cols=18 Identities=33% Similarity=0.488 Sum_probs=15.5
Q ss_pred ceeeeeccCcEEEeCCCC
Q 038528 9 IRTLDIRRGDVYRLQPGS 26 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~ 26 (91)
.++.+||+||.+.-|.|.
T Consensus 18 v~i~~lR~G~~V~tp~G~ 35 (162)
T PF14623_consen 18 VRIDDLRAGDKVWTPRGP 35 (162)
T ss_pred EEHHHccCCCEEECCCCC
Confidence 578899999999999874
No 140
>PF12708 Pectate_lyase_3: Pectate lyase superfamily protein; PDB: 3EQN_A 3EQO_A 2PYG_A 2PYH_A 3SUC_A 3GQ7_A 3GQ9_A 3GQA_A 3GQ8_A 2VBE_A ....
Probab=23.69 E-value=69 Score=21.91 Aligned_cols=17 Identities=35% Similarity=0.557 Sum_probs=12.7
Q ss_pred ccCcEEEeCCCCeEEEeeC
Q 038528 15 RRGDVYRLQPGSVFYIESN 33 (91)
Q Consensus 15 r~GDv~~ipaG~~~y~~N~ 33 (91)
..|.++.+|+|+ |.+..
T Consensus 31 ~~g~~v~~P~G~--Y~i~~ 47 (225)
T PF12708_consen 31 AGGGVVYFPPGT--YRISG 47 (225)
T ss_dssp TTSEEEEE-SEE--EEESS
T ss_pred CCCeEEEEcCcE--EEEeC
Confidence 578899999996 66666
No 141
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=23.67 E-value=40 Score=19.45 Aligned_cols=17 Identities=18% Similarity=0.202 Sum_probs=14.3
Q ss_pred CHHHHHHHhCCCccccc
Q 038528 74 DRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 74 ~~~iL~~Af~v~~~~i~ 90 (91)
+.+-|++.|+|++.+|+
T Consensus 16 s~~ela~~~~VS~~TiR 32 (57)
T PF08220_consen 16 SVKELAEEFGVSEMTIR 32 (57)
T ss_pred EHHHHHHHHCcCHHHHH
Confidence 56778999999998876
No 142
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=23.66 E-value=53 Score=16.84 Aligned_cols=21 Identities=5% Similarity=-0.009 Sum_probs=17.4
Q ss_pred eecccCHHHHHHHhCCCcccc
Q 038528 69 LILGFDRKVLQSAFKRAVLLL 89 (91)
Q Consensus 69 i~~GF~~~iL~~Af~v~~~~i 89 (91)
++.|.+..-+++.+|++...+
T Consensus 23 ~~~~~~~~~ia~~~~~s~~~i 43 (55)
T cd06171 23 FGEGLSYEEIAEILGISRSTV 43 (55)
T ss_pred HhcCCCHHHHHHHHCcCHHHH
Confidence 458899999999999988765
No 143
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=23.61 E-value=1.1e+02 Score=21.17 Aligned_cols=34 Identities=18% Similarity=0.384 Sum_probs=22.7
Q ss_pred ccCCCceeeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeec
Q 038528 4 ADEDDIRTLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSN 49 (91)
Q Consensus 4 v~~~~~~~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~ 49 (91)
|..++-+..+||.||.+.+-. +. -+-+|++|-+.
T Consensus 50 i~~~dv~~LDlRIGD~Vkv~~-------~k-----~~yiV~Gl~~~ 83 (131)
T PF08605_consen 50 IKNEDVKYLDLRIGDTVKVDG-------PK-----VTYIVVGLECK 83 (131)
T ss_pred eCcccEeeeeeecCCEEEECC-------CC-----ccEEEEEeeec
Confidence 344566788899999998876 11 14566666655
No 144
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=23.56 E-value=37 Score=23.92 Aligned_cols=20 Identities=30% Similarity=0.431 Sum_probs=16.7
Q ss_pred eeccCcEEEeCCCCeEEEee
Q 038528 13 DIRRGDVYRLQPGSVFYIES 32 (91)
Q Consensus 13 ~lr~GDv~~ipaG~~~y~~N 32 (91)
-++.|||+++--|-+.+..+
T Consensus 61 ~~~PGDIirLt~Gy~Si~qg 80 (134)
T KOG3416|consen 61 LIQPGDIIRLTGGYASIFQG 80 (134)
T ss_pred ccCCccEEEecccchhhhcC
Confidence 36899999999998877765
No 145
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.56 E-value=20 Score=22.68 Aligned_cols=19 Identities=32% Similarity=0.489 Sum_probs=12.4
Q ss_pred cccCCCceeeeeccCcEEE
Q 038528 3 WADEDDIRTLDIRRGDVYR 21 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~ 21 (91)
||++++-+...|+.||.+.
T Consensus 38 ~inp~dA~~lgi~~Gd~V~ 56 (120)
T cd00508 38 EIHPEDAARLGIKDGDLVR 56 (120)
T ss_pred EECHHHHHHcCCCCCCEEE
Confidence 4556666667777777664
No 146
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.50 E-value=20 Score=23.31 Aligned_cols=20 Identities=20% Similarity=0.229 Sum_probs=14.7
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
||++++-+...|+.||.+.|
T Consensus 35 ~i~p~dA~~~gi~~Gd~V~v 54 (124)
T cd02785 35 KINPIDAAARGIAHGDLVEV 54 (124)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56777777788888887743
No 147
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.14 E-value=19 Score=22.96 Aligned_cols=20 Identities=35% Similarity=0.635 Sum_probs=12.7
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
++++++-+...|+.||.+.|
T Consensus 34 ~i~p~dA~~lgI~dGd~V~v 53 (112)
T cd02787 34 FMNPDDIARLGLKAGDRVDL 53 (112)
T ss_pred EECHHHHHHhCCCCCCEEEE
Confidence 45566666677777776643
No 148
>PTZ00412 leucyl aminopeptidase; Provisional
Probab=22.89 E-value=62 Score=27.78 Aligned_cols=32 Identities=6% Similarity=0.049 Sum_probs=27.0
Q ss_pred eeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEE
Q 038528 11 TLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIY 44 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~ 44 (91)
..-.|.|||+.--.|.+.=+.|+|-+. +|++.
T Consensus 358 g~A~rPGDVits~nGkTVEV~NTDAEG--RLVLA 389 (569)
T PTZ00412 358 PESYHPSSIITSRKGLTVEVLNTDAEG--RLVLA 389 (569)
T ss_pred CCCCCCCCEeEecCCCEEeecccCchh--hhhhH
Confidence 345789999999999999999998664 77765
No 149
>PF13693 HTH_35: Winged helix-turn-helix DNA-binding; PDB: 1NEQ_A 1NER_A.
Probab=22.89 E-value=46 Score=21.15 Aligned_cols=15 Identities=7% Similarity=0.142 Sum_probs=12.2
Q ss_pred HHHHHHHhCCCcccc
Q 038528 75 RKVLQSAFKRAVLLL 89 (91)
Q Consensus 75 ~~iL~~Af~v~~~~i 89 (91)
++++|+|+||++++|
T Consensus 44 E~~IA~aLgv~P~eI 58 (78)
T PF13693_consen 44 ERIIADALGVPPEEI 58 (78)
T ss_dssp HHHHHHHTTS-HHHH
T ss_pred HHHHHHHHCcCHHHh
Confidence 789999999998875
No 150
>KOG2757 consensus Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=22.39 E-value=1.2e+02 Score=25.05 Aligned_cols=22 Identities=23% Similarity=0.327 Sum_probs=16.6
Q ss_pred CCceeeeeccCcEEEeCCCCeE
Q 038528 7 DDIRTLDIRRGDVYRLQPGSVF 28 (91)
Q Consensus 7 ~~~~~~~lr~GDv~~ipaG~~~ 28 (91)
+.....-+.+|||+.|||-...
T Consensus 369 ~t~~~~~v~rG~V~fI~a~~~i 390 (411)
T KOG2757|consen 369 DTDSKILVNRGDVLFIPANHPI 390 (411)
T ss_pred CCCCceeeccCcEEEEcCCCCc
Confidence 3356677889999999987665
No 151
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=22.31 E-value=52 Score=21.06 Aligned_cols=12 Identities=25% Similarity=0.667 Sum_probs=10.1
Q ss_pred eeeeccCcEEEe
Q 038528 11 TLDIRRGDVYRL 22 (91)
Q Consensus 11 ~~~lr~GDv~~i 22 (91)
-+.+++|||++|
T Consensus 49 ~~g~k~GdVvkI 60 (79)
T PRK09570 49 AIGAKPGDVIKI 60 (79)
T ss_pred hcCCCCCCEEEE
Confidence 457899999998
No 152
>TIGR02276 beta_rpt_yvtn 40-residue YVTN family beta-propeller repeat. This repeat of about 40 amino acids is found in up to 14 copies per protein. Archaea Methanosarcina mazei and Methanosarcina acetivorans each have over 10 genes that encode tandem copies of this repeat, which is also found in other species. PSIPRED predicts with high confidence that each 40-residue repeats contains four beta strands. This model overlaps somewhat with the NHL repeat (Pfam pfam01436) and also shows sequence similarity to the WD domain, G-beta repeat (Pfam pfam00400).
Probab=22.22 E-value=1.2e+02 Score=15.19 Aligned_cols=14 Identities=14% Similarity=0.396 Sum_probs=11.0
Q ss_pred CCCCeEEEeeCCCC
Q 038528 23 QPGSVFYIESNLEQ 36 (91)
Q Consensus 23 paG~~~y~~N~~~~ 36 (91)
|.|-..|+.|.+.+
T Consensus 1 pd~~~lyv~~~~~~ 14 (42)
T TIGR02276 1 PDGTKLYVTNSGSN 14 (42)
T ss_pred CCCCEEEEEeCCCC
Confidence 56778899998766
No 153
>TIGR02196 GlrX_YruB Glutaredoxin-like protein, YruB-family. This glutaredoxin-like protein family contains the conserved CxxC motif and includes the Clostridium pasteurianum protein YruB which has been cloned from a rubredoxin operon. Somewhat related to NrdH, it is unknown whether this protein actually interacts with glutathione/glutathione reducatase, or, like NrdH, some other reductant system.
Probab=22.20 E-value=79 Score=17.35 Aligned_cols=16 Identities=31% Similarity=0.690 Sum_probs=13.5
Q ss_pred ceecccCHHHHHHHhC
Q 038528 68 DLILGFDRKVLQSAFK 83 (91)
Q Consensus 68 ni~~GF~~~iL~~Af~ 83 (91)
.++.||+++.|.+.+|
T Consensus 59 ~~~~g~~~~~i~~~i~ 74 (74)
T TIGR02196 59 KIIVGFDPEKLDQLLE 74 (74)
T ss_pred EEEeeCCHHHHHHHhC
Confidence 4699999999998875
No 154
>TIGR01570 A_thal_3588 uncharacterized plant-specific domain TIGR01570. This model represents a region of about 170 amino acids found at the C-terminus of a family of plant proteins. These proteins typically have additional highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterized protein. At least 12 distinct members are found in Arabidopsis thaliana.
Probab=22.16 E-value=1.1e+02 Score=22.19 Aligned_cols=29 Identities=14% Similarity=0.292 Sum_probs=21.8
Q ss_pred CcEEEeCCCC----------eEEEeeCCCCCcccEEEEE
Q 038528 17 GDVYRLQPGS----------VFYIESNLEQEREKLRIYA 45 (91)
Q Consensus 17 GDv~~ipaG~----------~~y~~N~~~~e~~~L~i~~ 45 (91)
|+++.+.|-. +||++|++.+.++.|-|.=
T Consensus 120 gel~YMRA~FERVVGS~DSEsfyminPdg~~gpELSIF~ 158 (161)
T TIGR01570 120 DELMYMRASFERVVGSKDSESFYMINPEGNIGQELSIFF 158 (161)
T ss_pred ceEEEEeeeeeEeccccCceeEEeECCCCCCCceEEEEE
Confidence 7777777743 7999998777777887753
No 155
>PLN03115 ferredoxin--NADP(+) reductase; Provisional
Probab=22.11 E-value=1e+02 Score=24.54 Aligned_cols=31 Identities=13% Similarity=0.314 Sum_probs=19.7
Q ss_pred eeeccCcEEEe--CCCCeEEEeeCCCCCcccEEEEE
Q 038528 12 LDIRRGDVYRL--QPGSVFYIESNLEQEREKLRIYA 45 (91)
Q Consensus 12 ~~lr~GDv~~i--paG~~~y~~N~~~~e~~~L~i~~ 45 (91)
.+++.||.+.| |.|..+.+-+.. + .++.+|+
T Consensus 190 ~~Lk~Gd~V~v~GP~G~~fllp~~~-~--~~iImIA 222 (367)
T PLN03115 190 CDLKPGAEVKITGPVGKEMLMPKDP-N--ATIIMLA 222 (367)
T ss_pred hhCCCcCEEEEEeecCCceeCCcCC-C--CCEEEEe
Confidence 45789999876 889765442222 2 3677664
No 156
>PF13550 Phage-tail_3: Putative phage tail protein
Probab=22.09 E-value=48 Score=21.93 Aligned_cols=14 Identities=36% Similarity=0.548 Sum_probs=11.0
Q ss_pred eeeccCcEEEeCCC
Q 038528 12 LDIRRGDVYRLQPG 25 (91)
Q Consensus 12 ~~lr~GDv~~ipaG 25 (91)
..|+.||+|.|+--
T Consensus 138 ~~l~pGDvi~l~~~ 151 (164)
T PF13550_consen 138 LALEPGDVIALSDD 151 (164)
T ss_pred ccCCCCCEEEEEeC
Confidence 45789999998754
No 157
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=21.97 E-value=58 Score=18.24 Aligned_cols=14 Identities=29% Similarity=0.598 Sum_probs=9.0
Q ss_pred eeeeeccCcEEEeC
Q 038528 10 RTLDIRRGDVYRLQ 23 (91)
Q Consensus 10 ~~~~lr~GDv~~ip 23 (91)
....|++||++.|-
T Consensus 14 ~~Ls~~~Gd~i~v~ 27 (55)
T PF07653_consen 14 DELSFKKGDVIEVL 27 (55)
T ss_dssp TB-EB-TTEEEEEE
T ss_pred CceEEecCCEEEEE
Confidence 44778999988774
No 158
>PF14890 Intein_splicing: Intein splicing domain; PDB: 1MI8_A 2CW7_A 2CW8_A.
Probab=21.93 E-value=53 Score=24.88 Aligned_cols=19 Identities=16% Similarity=0.218 Sum_probs=12.3
Q ss_pred cCCCceeeeeccCcEEEeC
Q 038528 5 DEDDIRTLDIRRGDVYRLQ 23 (91)
Q Consensus 5 ~~~~~~~~~lr~GDv~~ip 23 (91)
.++.+....|+.||.|++|
T Consensus 74 ~~~wk~~~~Lk~GD~I~v~ 92 (323)
T PF14890_consen 74 PDGWKRLEELKPGDRIAVP 92 (323)
T ss_dssp CCCCCECCC--TT-EEEEE
T ss_pred ccCCEEhHHhhcccccccc
Confidence 3445667779999999999
No 159
>KOG2597 consensus Predicted aminopeptidase of the M17 family [General function prediction only]
Probab=21.83 E-value=1.1e+02 Score=25.90 Aligned_cols=31 Identities=23% Similarity=0.312 Sum_probs=25.6
Q ss_pred eeeccCcEEEeCCCCeEEEeeCCCCCcccEEEE
Q 038528 12 LDIRRGDVYRLQPGSVFYIESNLEQEREKLRIY 44 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~ 44 (91)
.-.|.|||+....|-+.=|.|+|-+. +|++.
T Consensus 335 ~A~kpgDVit~~nGKtveI~NTDAEG--RLiLA 365 (513)
T KOG2597|consen 335 NATKPGDVITLRNGKTVEINNTDAEG--RLVLA 365 (513)
T ss_pred cCCCCCcEEEecCCcEEEecccCccc--eEEec
Confidence 44689999999999999999997654 66654
No 160
>COG2411 Uncharacterized conserved protein [Function unknown]
Probab=21.72 E-value=1.2e+02 Score=22.52 Aligned_cols=26 Identities=38% Similarity=0.493 Sum_probs=23.7
Q ss_pred CceeeeeccCcEEEeCCCCeEEEeeCC
Q 038528 8 DIRTLDIRRGDVYRLQPGSVFYIESNL 34 (91)
Q Consensus 8 ~~~~~~lr~GDv~~ipaG~~~y~~N~~ 34 (91)
.+|.-.+|.| ++..|+|...|++..|
T Consensus 22 GkKr~TIR~G-~~~~k~g~eVyIh~~g 47 (188)
T COG2411 22 GKKRTTIRLG-KIVLKPGSEVYIHSGG 47 (188)
T ss_pred CceeEEEecC-cccCCCCCEEEEEECC
Confidence 5678889999 9999999999999996
No 161
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=21.71 E-value=55 Score=20.61 Aligned_cols=11 Identities=36% Similarity=0.733 Sum_probs=7.6
Q ss_pred eeeccCcEEEe
Q 038528 12 LDIRRGDVYRL 22 (91)
Q Consensus 12 ~~lr~GDv~~i 22 (91)
+.+++|||++|
T Consensus 47 ~g~k~GdVvkI 57 (74)
T PF01191_consen 47 LGAKPGDVVKI 57 (74)
T ss_dssp TT--TTSEEEE
T ss_pred cCCCCCCEEEE
Confidence 46799999988
No 162
>TIGR02480 fliN flagellar motor switch protein FliN. Proteins that consist largely of the domain described by this model can be designated flagellar motor switch protein FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside the scope of this family, are associated with type III secretion and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.
Probab=21.66 E-value=55 Score=20.05 Aligned_cols=13 Identities=31% Similarity=0.526 Sum_probs=10.1
Q ss_pred eeeeccCcEEEeC
Q 038528 11 TLDIRRGDVYRLQ 23 (91)
Q Consensus 11 ~~~lr~GDv~~ip 23 (91)
..+++.|||+.+.
T Consensus 26 ll~L~~Gdvi~L~ 38 (77)
T TIGR02480 26 LLKLGEGSVIELD 38 (77)
T ss_pred HhcCCCCCEEEcC
Confidence 3567889999875
No 163
>COG3423 Nlp Predicted transcriptional regulator [Transcription]
Probab=21.60 E-value=59 Score=21.07 Aligned_cols=15 Identities=7% Similarity=0.142 Sum_probs=11.1
Q ss_pred HHHHHHHhCCCcccc
Q 038528 75 RKVLQSAFKRAVLLL 89 (91)
Q Consensus 75 ~~iL~~Af~v~~~~i 89 (91)
..+++.|++|++++|
T Consensus 50 EriIA~algv~P~eI 64 (82)
T COG3423 50 ERIIADALGVPPEEI 64 (82)
T ss_pred HHHHHHHhCCCHHHh
Confidence 467778888887765
No 164
>TIGR03805 beta_helix_1 parallel beta-helix repeat-containing protein. Members of this protein family contain a tandem pair of beta-helix repeats (see TIGR03804). Each repeat is expected to consist of three beta strands that form a single turn as they form a right-handed helix of stacked beta-structure. Member proteinsa occur regularly in two-gene pairs along with another uncharacterized protein family; both protein families exhibit either lipoprotein or regular signal peptides, suggesting transit through the plasma membrane, and the two may be fused. The function of the pair is unknown.
Probab=21.56 E-value=54 Score=25.29 Aligned_cols=17 Identities=24% Similarity=0.341 Sum_probs=14.3
Q ss_pred eeeccCcEEEeCCCCeE
Q 038528 12 LDIRRGDVYRLQPGSVF 28 (91)
Q Consensus 12 ~~lr~GDv~~ipaG~~~ 28 (91)
...+.||++.||+|+-.
T Consensus 6 ~~A~~GDtI~l~~G~Y~ 22 (314)
T TIGR03805 6 IAAQPGDTIVLPEGVFQ 22 (314)
T ss_pred hhCCCCCEEEECCCEEE
Confidence 34588999999999876
No 165
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.47 E-value=23 Score=22.69 Aligned_cols=20 Identities=25% Similarity=0.619 Sum_probs=15.1
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
++++++-+...|+.||.+.|
T Consensus 33 ~i~p~dA~~~gi~~Gd~V~v 52 (123)
T cd02778 33 WINPETAARLGIKDGDRVEV 52 (123)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56777777888888988743
No 166
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=21.29 E-value=57 Score=22.26 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=13.9
Q ss_pred ccCcEEEeCCCCeEEEe
Q 038528 15 RRGDVYRLQPGSVFYIE 31 (91)
Q Consensus 15 r~GDv~~ipaG~~~y~~ 31 (91)
+..-=+.+|.|+.+|.+
T Consensus 108 ~~~Npy~Lp~Gt~~y~V 124 (129)
T PF10377_consen 108 KDSNPYNLPVGTKFYRV 124 (129)
T ss_pred CCCCCCcCCCCCEEEEE
Confidence 45566899999999986
No 167
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=21.01 E-value=24 Score=22.73 Aligned_cols=20 Identities=15% Similarity=0.400 Sum_probs=15.2
Q ss_pred cccCCCceeeeeccCcEEEe
Q 038528 3 WADEDDIRTLDIRRGDVYRL 22 (91)
Q Consensus 3 ~v~~~~~~~~~lr~GDv~~i 22 (91)
++++++-+...|+.||.+.|
T Consensus 36 ~in~~dA~~lgi~~Gd~V~v 55 (115)
T cd02779 36 EVNPEDAKREGLKNGDLVEV 55 (115)
T ss_pred EECHHHHHHcCCCCCCEEEE
Confidence 56777778888889998743
No 168
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=20.87 E-value=34 Score=21.60 Aligned_cols=17 Identities=24% Similarity=0.481 Sum_probs=12.9
Q ss_pred eecCCCccCceecccCH
Q 038528 59 VIGAYTSISDLILGFDR 75 (91)
Q Consensus 59 flag~~~~~ni~~GF~~ 75 (91)
||-.....+||+.|||-
T Consensus 32 YL~~~~~~GNiikGfd~ 48 (80)
T PF09340_consen 32 YLEDTSPYGNIIKGFDG 48 (80)
T ss_pred HHHccCcCCCCeeChhh
Confidence 66655667899999974
No 169
>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
Probab=20.82 E-value=62 Score=15.59 Aligned_cols=13 Identities=8% Similarity=0.302 Sum_probs=9.7
Q ss_pred eeeeccCcEEEeC
Q 038528 11 TLDIRRGDVYRLQ 23 (91)
Q Consensus 11 ~~~lr~GDv~~ip 23 (91)
...++.|+.+.||
T Consensus 34 ~~~~~~g~~l~ip 46 (46)
T cd00118 34 PDNLQVGQKLKIP 46 (46)
T ss_pred ccccCCCCEEecC
Confidence 4567888888876
No 170
>PF10948 DUF2635: Protein of unknown function (DUF2635); InterPro: IPR024400 This family consists of uncharacterised proteins found in bacteria and bacteriophages. It includes protein Gp38 from Enterobacteria phage Mu.
Probab=20.69 E-value=49 Score=19.12 Aligned_cols=14 Identities=29% Similarity=0.513 Sum_probs=10.5
Q ss_pred eeeeccCcEEEeCC
Q 038528 11 TLDIRRGDVYRLQP 24 (91)
Q Consensus 11 ~~~lr~GDv~~ipa 24 (91)
.++|+.|||+.+.+
T Consensus 32 ~RRl~dGDV~~v~~ 45 (47)
T PF10948_consen 32 LRRLADGDVVEVTP 45 (47)
T ss_pred HHhhhcCCEEEecC
Confidence 35788899997754
No 171
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=20.69 E-value=61 Score=17.50 Aligned_cols=21 Identities=5% Similarity=-0.023 Sum_probs=14.7
Q ss_pred ecccCHHHHHHHhCCCccccc
Q 038528 70 ILGFDRKVLQSAFKRAVLLLG 90 (91)
Q Consensus 70 ~~GF~~~iL~~Af~v~~~~i~ 90 (91)
..|.+..-+++.||+++.++.
T Consensus 15 ~~G~s~~~ia~~lgvs~~Tv~ 35 (50)
T PF13384_consen 15 REGWSIREIAKRLGVSRSTVY 35 (50)
T ss_dssp HHT--HHHHHHHHTS-HHHHH
T ss_pred HCCCCHHHHHHHHCcCHHHHH
Confidence 348999999999999987763
No 172
>PF13759 2OG-FeII_Oxy_5: Putative 2OG-Fe(II) oxygenase; PDB: 3BVC_B 2RG4_A.
Probab=20.20 E-value=2.3e+02 Score=17.60 Aligned_cols=28 Identities=11% Similarity=0.046 Sum_probs=17.5
Q ss_pred ceeeeeccCcEEEeCCCCeEEEeeCCCC
Q 038528 9 IRTLDIRRGDVYRLQPGSVFYIESNLEQ 36 (91)
Q Consensus 9 ~~~~~lr~GDv~~ipaG~~~y~~N~~~~ 36 (91)
......++||++..|+=..|++.=+..+
T Consensus 65 ~~~~~p~~G~lvlFPs~l~H~v~p~~~~ 92 (101)
T PF13759_consen 65 YYIVEPEEGDLVLFPSWLWHGVPPNNSD 92 (101)
T ss_dssp EEEE---TTEEEEEETTSEEEE----SS
T ss_pred eEEeCCCCCEEEEeCCCCEEeccCcCCC
Confidence 3456779999999999999998766443
No 173
>COG0147 TrpE Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=20.16 E-value=25 Score=28.91 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=34.3
Q ss_pred eeeeccCcEEEeCCCCeEEEeeCCCCCcccEEEEEEeecCCCCCCCceeecCCCccCceecccCHHHH
Q 038528 11 TLDIRRGDVYRLQPGSVFYIESNLEQEREKLRIYAIFSNTEDDSYFEPVIGAYTSISDLILGFDRKVL 78 (91)
Q Consensus 11 ~~~lr~GDv~~ipaG~~~y~~N~~~~e~~~L~i~~l~d~~n~~~~~~~flag~~~~~ni~~GF~~~iL 78 (91)
...+++||++-+=-.-.+.+-.+++ ++.++--+...|. -+|.+|+.-+ .-.+-|+|+|.+
T Consensus 204 ~e~I~~Gd~fQvvlS~~~~~~~~~~----p~~~y~~Lr~~NP-spY~~~~~~~---~~~lvg~SPE~~ 263 (462)
T COG0147 204 KEYIRAGDIYQVVLSRRFEAPCDGD----PLALYRRLRQRNP-SPYMFFLRLG---DFTLVGASPELF 263 (462)
T ss_pred HHHHHcCCeEEEEeeEEEEEecCCC----HHHHHHHHHhcCC-CcceeEEEcC---CeEEEEechhhh
Confidence 3467899999776655555555543 4555544444443 5677766533 123555666554
Done!