Query 047037
Match_columns 85
No_of_seqs 113 out of 654
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:02:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047037.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047037hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13975 gag-asp_proteas: gag- 99.8 3.2E-18 7E-23 101.4 8.2 65 20-84 3-68 (72)
2 cd05484 retropepsin_like_LTR_2 99.6 1.6E-15 3.5E-20 92.5 8.3 59 26-84 1-59 (91)
3 PF08284 RVP_2: Retroviral asp 99.6 1.2E-15 2.5E-20 100.2 7.6 65 20-85 16-81 (135)
4 cd05479 RP_DDI RP_DDI; retrope 99.6 4.1E-15 8.8E-20 95.8 8.4 63 22-84 13-75 (124)
5 TIGR02281 clan_AA_DTGA clan AA 99.5 4E-13 8.7E-18 86.6 9.8 61 21-81 7-68 (121)
6 COG3577 Predicted aspartyl pro 99.4 3.7E-12 8E-17 89.0 8.6 65 11-79 95-160 (215)
7 PF13650 Asp_protease_2: Aspar 99.3 1.2E-11 2.6E-16 73.5 8.2 56 28-83 1-57 (90)
8 cd05483 retropepsin_like_bacte 99.3 1.7E-11 3.8E-16 73.5 8.5 60 24-83 1-60 (96)
9 cd06095 RP_RTVL_H_like Retrope 99.0 1.6E-09 3.6E-14 65.6 6.2 47 28-77 1-47 (86)
10 TIGR03698 clan_AA_DTGF clan AA 98.9 1.2E-08 2.7E-13 64.4 6.7 44 34-79 14-58 (107)
11 cd05481 retropepsin_like_LTR_1 98.8 4.5E-08 9.8E-13 60.5 6.7 55 30-84 3-61 (93)
12 PF00077 RVP: Retroviral aspar 98.7 2.7E-08 5.8E-13 60.9 4.9 54 27-83 7-60 (100)
13 cd00303 retropepsin_like Retro 98.6 3.1E-07 6.6E-12 51.5 6.8 54 29-82 2-56 (92)
14 PF09668 Asp_protease: Asparty 98.6 1.4E-07 3E-12 61.5 5.6 40 22-61 21-60 (124)
15 PF12384 Peptidase_A2B: Ty3 tr 98.5 6.7E-07 1.5E-11 61.0 8.0 54 22-75 31-84 (177)
16 cd05480 NRIP_C NRIP_C; putativ 98.2 2.1E-06 4.6E-11 54.3 4.5 33 29-61 2-34 (103)
17 cd06094 RP_Saci_like RP_Saci_l 98.0 8.9E-06 1.9E-10 50.3 4.4 45 36-84 9-53 (89)
18 PF05585 DUF1758: Putative pep 98.0 7.7E-06 1.7E-10 54.4 4.4 39 35-73 11-49 (164)
19 KOG0012 DNA damage inducible p 97.4 0.00017 3.6E-09 54.4 3.8 42 21-62 231-272 (380)
20 COG5550 Predicted aspartyl pro 97.2 0.002 4.4E-08 42.1 6.4 55 24-80 11-69 (125)
21 PF02160 Peptidase_A3: Caulifl 97.1 0.0015 3.3E-08 45.8 5.5 57 27-85 8-68 (201)
22 cd05482 HIV_retropepsin_like R 96.3 0.006 1.3E-07 37.4 3.3 27 29-55 2-28 (87)
23 PF12382 Peptidase_A2E: Retrot 91.1 0.2 4.4E-06 32.1 2.3 30 36-65 47-76 (137)
24 PF00026 Asp: Eukaryotic aspar 90.4 0.65 1.4E-05 32.7 4.6 27 26-52 2-30 (317)
25 cd05470 pepsin_retropepsin_lik 89.5 0.52 1.1E-05 28.4 3.1 26 31-56 4-31 (109)
26 cd05474 SAP_like SAPs, pepsin- 89.5 1.8 3.8E-05 30.5 6.2 26 26-51 3-30 (295)
27 cd06096 Plasmepsin_5 Plasmepsi 86.6 1.2 2.7E-05 32.2 4.1 41 36-79 231-271 (326)
28 cd05476 pepsin_A_like_plant Ch 86.6 1.7 3.6E-05 30.5 4.7 18 38-55 178-195 (265)
29 cd06097 Aspergillopepsin_like 86.4 0.98 2.1E-05 31.8 3.4 27 27-53 2-30 (278)
30 cd06096 Plasmepsin_5 Plasmepsi 86.0 1.7 3.7E-05 31.5 4.5 30 24-53 2-33 (326)
31 cd05475 nucellin_like Nucellin 85.7 1.5 3.2E-05 31.0 4.0 27 25-51 2-30 (273)
32 cd05476 pepsin_A_like_plant Ch 85.2 2.7 5.9E-05 29.4 5.2 27 26-52 2-30 (265)
33 cd05487 renin_like Renin stimu 85.0 2 4.3E-05 31.1 4.5 30 23-52 6-37 (326)
34 cd06098 phytepsin Phytepsin, a 84.6 2.3 5E-05 30.6 4.7 31 23-53 8-40 (317)
35 COG0282 ackA Acetate kinase [E 84.4 0.51 1.1E-05 36.3 1.2 37 44-80 179-215 (396)
36 cd05478 pepsin_A Pepsin A, asp 83.2 2.7 5.8E-05 30.2 4.5 31 23-53 8-40 (317)
37 cd06097 Aspergillopepsin_like 82.4 0.99 2.1E-05 31.8 2.0 23 36-58 198-220 (278)
38 PTZ00147 plasmepsin-1; Provisi 82.0 2.9 6.2E-05 32.4 4.5 31 24-54 138-170 (453)
39 cd06396 PB1_NBR1 The PB1 domai 81.9 5.9 0.00013 24.0 5.0 47 26-77 1-49 (81)
40 cd05490 Cathepsin_D2 Cathepsin 81.8 3 6.6E-05 30.0 4.3 29 24-52 5-35 (325)
41 PTZ00013 plasmepsin 4 (PM4); P 81.6 3.1 6.7E-05 32.2 4.5 32 24-55 137-170 (450)
42 cd05472 cnd41_like Chloroplast 81.4 1.9 4.1E-05 30.6 3.1 21 38-58 173-193 (299)
43 cd05477 gastricsin Gastricsins 80.8 3.5 7.6E-05 29.6 4.4 29 25-53 3-33 (318)
44 cd05477 gastricsin Gastricsins 80.6 2.6 5.6E-05 30.3 3.6 28 31-58 189-223 (318)
45 cd05473 beta_secretase_like Be 80.6 2.7 5.8E-05 30.9 3.8 28 26-53 4-33 (364)
46 cd06098 phytepsin Phytepsin, a 79.4 3.1 6.8E-05 30.0 3.7 30 30-59 197-233 (317)
47 cd05486 Cathespin_E Cathepsin 79.3 2 4.3E-05 30.9 2.7 28 31-58 187-220 (316)
48 cd05485 Cathepsin_D_like Cathe 78.9 2.8 6E-05 30.5 3.4 21 38-58 212-232 (329)
49 cd05485 Cathepsin_D_like Cathe 78.9 4.5 9.7E-05 29.4 4.4 31 23-53 9-41 (329)
50 cd05478 pepsin_A Pepsin A, asp 78.8 3.2 7E-05 29.8 3.7 29 30-58 194-228 (317)
51 cd05486 Cathespin_E Cathepsin 78.8 2.8 6.2E-05 30.1 3.4 26 28-53 3-30 (316)
52 cd05488 Proteinase_A_fungi Fun 78.4 4 8.7E-05 29.4 4.1 30 24-53 9-40 (320)
53 cd05472 cnd41_like Chloroplast 78.2 2.6 5.6E-05 30.0 3.0 26 26-51 2-29 (299)
54 cd05473 beta_secretase_like Be 74.5 4.1 8.8E-05 30.0 3.2 20 38-57 213-232 (364)
55 PF14543 TAXi_N: Xylanase inhi 74.0 6.5 0.00014 25.9 3.9 25 27-51 2-28 (164)
56 cd05471 pepsin_like Pepsin-lik 73.5 5.1 0.00011 27.5 3.4 22 35-56 12-33 (283)
57 cd05471 pepsin_like Pepsin-lik 72.9 3.7 8.1E-05 28.2 2.6 27 33-59 199-225 (283)
58 cd05490 Cathepsin_D2 Cathepsin 70.3 3.4 7.3E-05 29.7 2.0 22 37-58 207-228 (325)
59 cd05488 Proteinase_A_fungi Fun 70.2 3.4 7.3E-05 29.8 2.0 22 37-58 206-227 (320)
60 PLN03146 aspartyl protease fam 69.8 8.2 0.00018 29.5 4.0 30 23-52 82-113 (431)
61 PTZ00165 aspartyl protease; Pr 69.5 9.4 0.0002 29.8 4.4 34 23-56 118-153 (482)
62 cd05474 SAP_like SAPs, pepsin- 66.8 5 0.00011 28.1 2.2 24 35-58 177-200 (295)
63 cd05487 renin_like Renin stimu 62.3 6.2 0.00013 28.5 2.0 21 38-58 209-229 (326)
64 PF13793 Pribosyltran_N: N-ter 60.8 8.8 0.00019 24.3 2.3 36 40-77 2-37 (116)
65 PF00026 Asp: Eukaryotic aspar 58.8 11 0.00023 26.5 2.7 23 36-58 199-221 (317)
66 PTZ00147 plasmepsin-1; Provisi 58.2 19 0.00041 28.0 4.1 23 36-58 332-354 (453)
67 PF14541 TAXi_C: Xylanase inhi 57.1 9.6 0.00021 24.8 2.1 19 37-55 30-48 (161)
68 COG2861 Uncharacterized protei 56.6 9.9 0.00021 27.7 2.2 29 37-65 151-179 (250)
69 PF01568 Molydop_binding: Moly 55.6 14 0.00029 22.2 2.5 28 47-76 31-58 (110)
70 PTZ00013 plasmepsin 4 (PM4); P 54.6 9.5 0.0002 29.6 2.0 22 37-58 332-353 (450)
71 COG2336 MazE Growth regulator 54.1 33 0.00073 20.9 3.9 31 47-79 13-43 (82)
72 cd05489 xylanase_inhibitor_I_l 53.0 19 0.00041 26.8 3.3 20 38-57 231-250 (362)
73 cd02778 MopB_CT_Thiosulfate-R- 52.6 37 0.0008 20.7 4.2 32 45-78 29-60 (123)
74 PF07629 DUF1590: Protein of u 52.6 12 0.00026 18.5 1.5 21 1-21 1-21 (32)
75 PTZ00165 aspartyl protease; Pr 52.5 21 0.00045 27.9 3.6 22 37-58 328-349 (482)
76 PF08922 DUF1905: Domain of un 52.1 48 0.001 19.5 4.5 46 24-71 31-79 (80)
77 PF07894 DUF1669: Protein of u 51.6 24 0.00052 26.1 3.6 47 32-80 172-218 (284)
78 COG2093 DNA-directed RNA polym 50.9 20 0.00044 20.8 2.5 28 37-70 36-63 (64)
79 PF03419 Peptidase_U4: Sporula 50.4 20 0.00044 25.8 3.1 25 22-46 154-180 (293)
80 cd02790 MopB_CT_Formate-Dh_H F 50.4 24 0.00052 21.2 3.0 30 46-77 35-64 (116)
81 cd02788 MopB_CT_NDH-1_NuoG2-N7 50.0 28 0.00062 20.7 3.3 29 47-77 30-58 (96)
82 PLN03146 aspartyl protease fam 49.9 14 0.0003 28.3 2.2 18 38-55 309-326 (431)
83 cd02792 MopB_CT_Formate-Dh-Na- 49.2 30 0.00064 21.1 3.3 30 46-77 35-64 (122)
84 cd02779 MopB_CT_Arsenite-Ox Th 48.8 57 0.0012 19.9 4.6 30 45-76 32-61 (115)
85 cd01813 UBP_N UBP ubiquitin pr 48.5 29 0.00063 20.0 3.0 39 26-64 1-39 (74)
86 cd02787 MopB_CT_ydeP The MopB_ 48.2 30 0.00066 21.0 3.2 31 46-78 31-61 (112)
87 cd02785 MopB_CT_4 The MopB_CT_ 48.1 33 0.00072 21.2 3.5 29 47-77 33-61 (124)
88 PRK12440 acetate kinase; Revie 48.1 11 0.00024 29.1 1.4 38 44-81 180-217 (397)
89 KOG1339 Aspartyl protease [Pos 46.4 18 0.00039 27.1 2.3 32 24-55 45-78 (398)
90 cd02794 MopB_CT_DmsA-EC The Mo 46.3 37 0.0008 20.9 3.4 29 47-77 31-59 (121)
91 KOG3048 Molecular chaperone Pr 45.9 17 0.00037 24.5 1.9 28 22-51 69-96 (153)
92 cd02781 MopB_CT_Acetylene-hydr 45.8 35 0.00076 21.1 3.3 30 46-77 33-62 (130)
93 cd02775 MopB_CT Molybdopterin- 45.3 38 0.00082 19.6 3.3 30 46-77 23-52 (101)
94 cd06407 PB1_NLP A PB1 domain i 45.0 66 0.0014 19.1 5.1 47 26-74 1-47 (82)
95 cd02789 MopB_CT_FmdC-FwdD The 44.8 41 0.0009 20.5 3.5 31 44-76 29-59 (106)
96 TIGR02854 spore_II_GA sigma-E 44.6 45 0.00097 24.3 4.1 25 22-46 155-181 (288)
97 cd00508 MopB_CT_Fdh-Nap-like T 43.8 38 0.00082 20.4 3.2 30 46-77 35-64 (120)
98 cd02786 MopB_CT_3 The MopB_CT_ 42.9 40 0.00086 20.4 3.2 30 46-77 31-60 (116)
99 PF12812 PDZ_1: PDZ-like domai 42.3 63 0.0014 19.0 3.8 35 38-75 6-40 (78)
100 PF00455 DeoRC: DeoR C termina 41.9 7.7 0.00017 25.6 -0.2 42 38-79 22-74 (161)
101 PF03539 Spuma_A9PTase: Spumav 41.9 33 0.00072 23.4 2.8 42 32-77 1-42 (163)
102 KOG3101 Esterase D [General fu 41.8 12 0.00025 27.4 0.6 25 31-55 210-234 (283)
103 cd02791 MopB_CT_Nitrate-R-NapA 41.4 42 0.00091 20.4 3.1 30 46-77 35-64 (122)
104 cd02784 MopB_CT_PHLH The MopB_ 40.6 89 0.0019 20.3 4.7 33 46-81 38-70 (137)
105 KOG3838 Mannose lectin ERGIC-5 40.5 1E+02 0.0023 24.3 5.6 71 5-76 147-240 (497)
106 PF09379 FERM_N: FERM N-termin 40.2 41 0.00089 18.9 2.8 45 31-75 3-48 (80)
107 TIGR00016 ackA acetate kinase. 40.1 15 0.00034 28.3 1.2 37 44-80 185-221 (404)
108 cd02780 MopB_CT_Tetrathionate_ 40.1 53 0.0011 20.9 3.5 30 46-77 30-59 (143)
109 PRK05654 acetyl-CoA carboxylas 39.8 86 0.0019 23.1 5.0 54 22-75 108-166 (292)
110 cd02777 MopB_CT_DMSOR-like The 38.4 48 0.001 20.5 3.1 30 46-77 34-63 (127)
111 PRK12379 propionate/acetate ki 37.9 13 0.00029 28.6 0.5 37 44-80 176-212 (396)
112 TIGR00515 accD acetyl-CoA carb 37.6 1E+02 0.0022 22.7 5.0 54 22-75 107-165 (285)
113 PF02645 DegV: Uncharacterised 37.4 36 0.00078 24.3 2.6 32 37-74 2-33 (280)
114 cd02782 MopB_CT_1 The MopB_CT_ 37.3 59 0.0013 20.1 3.4 31 45-77 32-62 (129)
115 cd04459 Rho_CSD Rho_CSD: Rho p 36.9 36 0.00079 19.8 2.2 21 43-63 24-44 (68)
116 cd01812 BAG1_N Ubiquitin-like 36.6 60 0.0013 17.7 3.0 37 27-63 2-38 (71)
117 PF04083 Abhydro_lipase: Parti 35.9 50 0.0011 18.7 2.6 26 52-80 2-27 (63)
118 PF13188 PAS_8: PAS domain; PD 35.7 57 0.0012 17.2 2.8 24 37-61 13-36 (64)
119 PF05618 Zn_protease: Putative 35.3 39 0.00085 22.1 2.4 22 35-56 15-36 (138)
120 PF04748 Polysacc_deac_2: Dive 35.0 24 0.00053 24.6 1.4 27 38-64 120-146 (213)
121 PRK04923 ribose-phosphate pyro 34.8 40 0.00086 25.0 2.6 38 39-78 7-44 (319)
122 PRK12397 propionate kinase; Re 34.7 15 0.00032 28.5 0.3 37 44-80 180-216 (404)
123 cd02793 MopB_CT_DMSOR-BSOR-TMA 34.6 58 0.0013 20.3 3.0 31 45-77 32-62 (129)
124 KOG1339 Aspartyl protease [Pos 34.6 34 0.00073 25.6 2.2 21 37-57 269-289 (398)
125 CHL00174 accD acetyl-CoA carbo 34.6 1.1E+02 0.0024 22.7 4.9 54 22-75 120-178 (296)
126 PRK00934 ribose-phosphate pyro 34.3 30 0.00064 25.1 1.8 33 43-77 4-36 (285)
127 PRK08351 DNA-directed RNA poly 33.7 51 0.0011 18.9 2.4 28 37-70 33-60 (61)
128 cd00248 Mth938-like Mth938-lik 33.4 43 0.00094 20.8 2.3 28 36-63 53-83 (109)
129 PF00240 ubiquitin: Ubiquitin 32.4 45 0.00098 18.2 2.0 32 32-63 3-34 (69)
130 PF00564 PB1: PB1 domain; Int 30.6 1.1E+02 0.0023 17.3 5.5 51 25-78 1-54 (84)
131 PRK00180 acetate kinase A/prop 30.5 28 0.0006 26.9 1.2 37 44-80 181-217 (402)
132 cd02783 MopB_CT_2 The MopB_CT_ 30.2 83 0.0018 20.5 3.3 30 46-77 32-61 (156)
133 PF07285 DUF1444: Protein of u 30.0 78 0.0017 22.8 3.4 39 25-63 105-143 (265)
134 COG3865 Uncharacterized protei 29.7 1.4E+02 0.0031 20.2 4.3 25 24-49 49-73 (151)
135 PRK10681 DNA-binding transcrip 29.1 15 0.00032 26.0 -0.4 40 38-77 95-145 (252)
136 PRK02812 ribose-phosphate pyro 29.1 57 0.0012 24.3 2.6 37 40-78 23-59 (330)
137 cd02511 Beta4Glucosyltransfera 29.1 56 0.0012 22.1 2.4 24 37-62 28-51 (229)
138 PRK07199 phosphoribosylpyropho 28.9 49 0.0011 24.3 2.2 37 40-78 4-40 (301)
139 cd05992 PB1 The PB1 domain is 28.6 1.1E+02 0.0025 17.0 4.4 36 27-62 2-38 (81)
140 COG0777 AccD Acetyl-CoA carbox 28.4 1.1E+02 0.0024 22.8 4.0 54 23-76 110-168 (294)
141 cd01398 RPI_A RPI_A: Ribose 5- 27.9 18 0.00038 25.2 -0.2 22 37-58 17-38 (213)
142 PRK12608 transcription termina 27.8 58 0.0013 25.0 2.5 26 37-62 279-319 (380)
143 cd05560 Xcc1710_like Xcc1710_l 27.4 66 0.0014 20.0 2.3 23 36-58 53-75 (109)
144 smart00295 B41 Band 4.1 homolo 27.0 1E+02 0.0022 20.1 3.3 43 30-72 9-51 (207)
145 PRK00702 ribose-5-phosphate is 26.9 23 0.0005 25.0 0.2 21 38-58 23-43 (220)
146 COG3188 FimD P pilus assembly 26.6 2.1E+02 0.0045 24.3 5.6 55 10-64 46-107 (835)
147 cd02776 MopB_CT_Nitrate-R-NarG 26.4 1.1E+02 0.0023 19.8 3.3 32 45-78 30-61 (141)
148 PF00871 Acetate_kinase: Aceto 26.2 26 0.00055 26.8 0.3 36 45-80 179-214 (388)
149 KOG0679 Actin-related protein 26.1 36 0.00078 26.6 1.1 19 31-49 149-167 (426)
150 PRK02458 ribose-phosphate pyro 25.9 71 0.0015 23.7 2.6 38 39-78 10-47 (323)
151 COG0462 PrsA Phosphoribosylpyr 25.3 57 0.0012 24.5 2.0 36 42-79 8-43 (314)
152 COG0231 Efp Translation elonga 25.3 1.2E+02 0.0026 19.6 3.4 51 29-79 64-124 (131)
153 PRK01259 ribose-phosphate pyro 24.8 61 0.0013 23.8 2.1 36 41-78 3-38 (309)
154 PF00567 TUDOR: Tudor domain; 24.6 39 0.00084 19.8 0.9 41 33-74 79-121 (121)
155 PF11976 Rad60-SLD: Ubiquitin- 24.5 1.3E+02 0.0029 16.4 4.9 49 27-79 4-52 (72)
156 KOG3238 Chloride ion current i 24.4 57 0.0012 23.2 1.8 28 8-35 59-89 (216)
157 PRK11347 antitoxin ChpS; Provi 24.0 1.7E+02 0.0036 17.5 3.6 31 47-79 13-43 (83)
158 PRK13846 putative glycerol-3-p 23.8 81 0.0017 23.7 2.6 40 16-57 120-159 (316)
159 TIGR01699 XAPA xanthosine phos 23.6 2.1E+02 0.0045 20.5 4.6 38 10-49 21-63 (248)
160 PF06820 Phage_fiber_C: Putati 23.5 51 0.0011 19.0 1.2 28 48-78 31-58 (64)
161 COG1107 Archaea-specific RecJ- 23.2 53 0.0011 27.1 1.6 29 34-62 417-446 (715)
162 PRK00553 ribose-phosphate pyro 23.1 84 0.0018 23.4 2.6 36 41-78 12-47 (332)
163 PTZ00145 phosphoribosylpyropho 23.0 83 0.0018 24.7 2.6 38 39-78 120-157 (439)
164 PRK09798 antitoxin MazE; Provi 23.0 1.8E+02 0.0038 17.3 3.6 30 48-79 15-44 (82)
165 COG1237 Metal-dependent hydrol 22.9 1.4E+02 0.003 21.9 3.5 34 29-64 24-58 (259)
166 KOG0318 WD40 repeat stress pro 22.5 1.6E+02 0.0036 24.0 4.1 39 37-75 130-168 (603)
167 PRK10434 srlR DNA-bindng trans 22.4 20 0.00044 25.4 -0.8 23 38-60 94-116 (256)
168 PRK10906 DNA-binding transcrip 22.3 22 0.00049 25.2 -0.6 25 38-62 94-118 (252)
169 PF11925 DUF3443: Protein of u 22.0 1.2E+02 0.0026 23.4 3.2 27 27-53 245-272 (370)
170 cd01742 GATase1_GMP_Synthase T 21.8 47 0.001 21.7 0.9 26 39-64 2-27 (181)
171 TIGR01251 ribP_PPkin ribose-ph 21.7 74 0.0016 23.2 2.0 33 43-77 5-37 (308)
172 PF04430 DUF498: Protein of un 21.7 92 0.002 19.1 2.2 24 35-58 53-76 (110)
173 PF13856 Gifsy-2: ATP-binding 21.4 1.3E+02 0.0029 17.9 2.8 24 26-49 20-43 (95)
174 PF01150 GDA1_CD39: GDA1/CD39 21.4 60 0.0013 24.6 1.5 14 35-48 7-20 (434)
175 PF07076 DUF1344: Protein of u 21.3 1.8E+02 0.0039 16.7 3.3 45 7-51 14-58 (61)
176 PRK02269 ribose-phosphate pyro 21.2 97 0.0021 22.9 2.6 37 40-78 7-43 (320)
177 TIGR02707 butyr_kinase butyrat 21.0 78 0.0017 23.7 2.1 35 44-78 153-187 (351)
178 PF07532 Big_4: Bacterial Ig-l 21.0 98 0.0021 16.7 2.0 14 21-34 45-58 (59)
179 PRK06393 rpoE DNA-directed RNA 20.9 1.7E+02 0.0037 16.9 3.0 29 37-71 35-63 (64)
180 PRK07058 acetate kinase; Provi 20.8 59 0.0013 25.2 1.4 36 44-80 181-216 (396)
181 COG4067 Uncharacterized protei 20.7 72 0.0016 21.8 1.6 24 36-59 39-62 (162)
182 cd06404 PB1_aPKC PB1 domain is 20.6 2.2E+02 0.0047 17.3 3.8 47 26-74 1-47 (83)
183 PRK13668 hypothetical protein; 20.3 1.5E+02 0.0032 21.8 3.3 38 26-63 106-143 (267)
184 smart00666 PB1 PB1 domain. Pho 20.2 1.8E+02 0.0039 16.3 5.4 37 26-62 2-38 (81)
185 TIGR03778 VPDSG_CTERM VPDSG-CT 20.0 32 0.00069 16.5 -0.1 15 42-56 3-17 (26)
No 1
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=99.77 E-value=3.2e-18 Score=101.41 Aligned_cols=65 Identities=28% Similarity=0.356 Sum_probs=61.0
Q ss_pred cCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCC-cEEEEeCCCCEEEEeeEe
Q 047037 20 DQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANN-RLEIMVAFGEKLMSSGKC 84 (85)
Q Consensus 20 ~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~-~~~V~~anG~~~~~~g~c 84 (85)
...++.|++.+.|+|+.+.+|||||||||||+.++|+|||++..+.. +.+|++|||....+.|..
T Consensus 3 ~~~~g~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~ 68 (72)
T PF13975_consen 3 TPDPGLMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVA 68 (72)
T ss_pred cccCCEEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEE
Confidence 45689999999999999999999999999999999999999999975 999999999999998875
No 2
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=99.64 E-value=1.6e-15 Score=92.52 Aligned_cols=59 Identities=20% Similarity=0.305 Sum_probs=55.0
Q ss_pred EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeEe
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKC 84 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~c 84 (85)
+++++.|||+++.+||||||+++||+++++++++++.......++++|||+.+.+.|+|
T Consensus 1 ~~~~~~Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G~~ 59 (91)
T cd05484 1 KTVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQI 59 (91)
T ss_pred CEEEEEECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeEEE
Confidence 36889999999999999999999999999999999985568899999999999999986
No 3
>PF08284 RVP_2: Retroviral aspartyl protease; InterPro: IPR013242 This region defines single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases.
Probab=99.63 E-value=1.2e-15 Score=100.20 Aligned_cols=65 Identities=22% Similarity=0.341 Sum_probs=57.6
Q ss_pred cCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCC-CcEEEEeCCCCEEEEeeEeC
Q 047037 20 DQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN-NRLEIMVAFGEKLMSSGKCT 85 (85)
Q Consensus 20 ~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~-~~~~V~~anG~~~~~~g~c~ 85 (85)
...+..|.....|+++++.+|||||||||||++++|+++++++++. .++.|.. +|..+.|.+.|+
T Consensus 16 ~~~~~vi~g~~~I~~~~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~-~g~~~~~~~~~~ 81 (135)
T PF08284_consen 16 EESPDVITGTFLINSIPASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSA-PGGSINCEGVCP 81 (135)
T ss_pred cCCCCeEEEEEEeccEEEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEec-ccccccccceee
Confidence 3578999999999999999999999999999999999999999995 7777775 566788888774
No 4
>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein. The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.
Probab=99.61 E-value=4.1e-15 Score=95.84 Aligned_cols=63 Identities=17% Similarity=0.208 Sum_probs=55.0
Q ss_pred cCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeEe
Q 047037 22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKC 84 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~c 84 (85)
...+|++.++|||+++.+|||||||||||++++|+|+|++.....++.++++++....+.++|
T Consensus 13 ~~~~~~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~~ 75 (124)
T cd05479 13 KVPMLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQGIAKGVGTQKILGRI 75 (124)
T ss_pred eeeEEEEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCccccCcceEEEEecCCCcEEEeEE
Confidence 357899999999999999999999999999999999999987667788777775556777776
No 5
>TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family. This family consists of predicted aspartic proteases, typically from 180 to 230 amino acids in length, in MEROPS clan AA. This model describes the well-conserved 121-residue C-terminal region. The poorly conserved, variable length N-terminal region usually contains a predicted transmembrane helix. Sequences in the seed alignment and those scoring above the trusted cutoff are Proteobacterial; homologs scroing between trusted and noise are found in Pyrobaculum aerophilum str. IM2 (archaeal), Pirellula sp. (Planctomycetes), and Nostoc sp. PCC 7120 (Cyanobacteria).
Probab=99.49 E-value=4e-13 Score=86.55 Aligned_cols=61 Identities=26% Similarity=0.368 Sum_probs=54.8
Q ss_pred CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccC-CCcEEEEeCCCCEEEEe
Q 047037 21 QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNA-NNRLEIMVAFGEKLMSS 81 (85)
Q Consensus 21 ~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~-~~~~~V~~anG~~~~~~ 81 (85)
...++|++.++|||+++.||||||||+++|++++|+++|++... ..+..+.+|||......
T Consensus 7 ~~~g~~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~~~~~~~~ta~G~~~~~~ 68 (121)
T TIGR02281 7 DGDGHFYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRLGYTVTVSTANGQIKAAR 68 (121)
T ss_pred cCCCeEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccCCceEEEEeCCCcEEEEE
Confidence 46799999999999999999999999999999999999998866 47899999999876543
No 6
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=99.37 E-value=3.7e-12 Score=89.01 Aligned_cols=65 Identities=26% Similarity=0.390 Sum_probs=58.3
Q ss_pred eeEEEeccccCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCC-CcEEEEeCCCCEEE
Q 047037 11 KISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN-NRLEIMVAFGEKLM 79 (85)
Q Consensus 11 ~iSl~A~~g~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~-~~~~V~~anG~~~~ 79 (85)
++++++ +..+||.+.|.|||+.|.+|||||||-..++++.|+|+|+.+... .++.|.+|||+...
T Consensus 95 ~v~Lak----~~~GHF~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~v~TANG~~~A 160 (215)
T COG3577 95 EVSLAK----SRDGHFEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTITVSTANGRARA 160 (215)
T ss_pred EEEEEe----cCCCcEEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceEEEccCCcccc
Confidence 455544 457999999999999999999999999999999999999999985 99999999998654
No 7
>PF13650 Asp_protease_2: Aspartyl protease
Probab=99.34 E-value=1.2e-11 Score=73.55 Aligned_cols=56 Identities=25% Similarity=0.439 Sum_probs=48.9
Q ss_pred EEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCC-CcEEEEeCCCCEEEEeeE
Q 047037 28 IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN-NRLEIMVAFGEKLMSSGK 83 (85)
Q Consensus 28 ~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~-~~~~V~~anG~~~~~~g~ 83 (85)
+.+.|||+++.+||||||++++|++++|++++++..+. .+..+..+||+.....+.
T Consensus 1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~~~~ 57 (90)
T PF13650_consen 1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKSVPISVSGAGGSVTVYRGR 57 (90)
T ss_pred CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCceeEEEEeCCCCEEEEEEE
Confidence 46889999999999999999999999999999998876 378999999996554443
No 8
>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family. This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=99.32 E-value=1.7e-11 Score=73.49 Aligned_cols=60 Identities=22% Similarity=0.383 Sum_probs=53.0
Q ss_pred CeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeE
Q 047037 24 ETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGK 83 (85)
Q Consensus 24 ~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~ 83 (85)
+++.+.+.||++++.+||||||++++|+.++|+++++......+.+++.++|........
T Consensus 1 ~~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~ 60 (96)
T cd05483 1 GHFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLGGKVTVQTANGRVRAARVR 60 (96)
T ss_pred CcEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCCCcEEEEecCCCccceEEE
Confidence 478999999999999999999999999999999999855556889999999988776553
No 9
>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements. This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where
Probab=98.99 E-value=1.6e-09 Score=65.58 Aligned_cols=47 Identities=19% Similarity=0.422 Sum_probs=41.6
Q ss_pred EEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 28 IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 28 ~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
+...|||+++.+||||||+++.|++++|+++ .....+..++.++|..
T Consensus 1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~---~~~~~~~~v~gagG~~ 47 (86)
T cd06095 1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQ---ELSTTSVLIRGVSGQS 47 (86)
T ss_pred CEEEECCEEEEEEEECCCCeEEECHHHhhhc---cCCCCcEEEEeCCCcc
Confidence 3578999999999999999999999999998 2334899999999985
No 10
>TIGR03698 clan_AA_DTGF clan AA aspartic protease, AF_0612 family. Members of this protein family are clan AA aspartic proteases, related to family TIGR02281. These proteins resemble retropepsins, pepsin-like proteases of retroviruses such as HIV. Members of this family are found in archaea and bacteria.
Probab=98.86 E-value=1.2e-08 Score=64.40 Aligned_cols=44 Identities=16% Similarity=0.292 Sum_probs=38.6
Q ss_pred CEEEEEEEeCCCCcee-eCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 34 GKSVVILIDSGSTHNS-INAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 34 g~~v~~LiDSGat~~F-i~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
..++.+|||||||+.+ |++++|+++|++.. ...++++|||....
T Consensus 14 ~~~v~~LVDTGat~~~~l~~~~a~~lgl~~~--~~~~~~tA~G~~~~ 58 (107)
T TIGR03698 14 FMEVRALVDTGFSGFLLVPPDIVNKLGLPEL--DQRRVYLADGREVL 58 (107)
T ss_pred ceEEEEEEECCCCeEEecCHHHHHHcCCCcc--cCcEEEecCCcEEE
Confidence 4589999999999998 99999999999875 57799999997544
No 11
>cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identifi
Probab=98.75 E-value=4.5e-08 Score=60.48 Aligned_cols=55 Identities=18% Similarity=0.213 Sum_probs=48.3
Q ss_pred EEECC-EEEEEEEeCCCCceeeCHHHHHhcC---CcccCCCcEEEEeCCCCEEEEeeEe
Q 047037 30 GSIKG-KSVVILIDSGSTHNSINAEVAQRVN---LSPNANNRLEIMVAFGEKLMSSGKC 84 (85)
Q Consensus 30 g~i~g-~~v~~LiDSGat~~Fi~~~~a~~l~---l~~~~~~~~~V~~anG~~~~~~g~c 84 (85)
-.|+| +++.+++||||+.|.|+.++.++++ .+.-...+++++.+||..+...|.+
T Consensus 3 ~~i~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~~~G~~ 61 (93)
T cd05481 3 MKINGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIPVEGGV 61 (93)
T ss_pred eEeCCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEeeeeEEE
Confidence 35788 9999999999999999999999998 4555567899999999999999854
No 12
>PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A2 (retropepsin family, clan AA), subfamily A2A. The family includes the single domain aspartic proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). Retroviral aspartyl protease is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins.; PDB: 3D3T_B 3SQF_A 1NSO_A 2HB3_A 2HS2_A 2HS1_B 3K4V_A 3GGV_C 1HTG_B 2FDE_A ....
Probab=98.72 E-value=2.7e-08 Score=60.90 Aligned_cols=54 Identities=20% Similarity=0.273 Sum_probs=46.4
Q ss_pred EEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeE
Q 047037 27 RIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGK 83 (85)
Q Consensus 27 ~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~ 83 (85)
++...++|+++.+||||||+.++|+++.+.....+ ......+..++|.. ...+.
T Consensus 7 ~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~--~~~~~~v~~~~g~~-~~~~~ 60 (100)
T PF00077_consen 7 YITVKINGKKIKALLDTGADVSIISEKDWKKLGPP--PKTSITVRGAGGSS-SILGS 60 (100)
T ss_dssp EEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSE--EEEEEEEEETTEEE-EEEEE
T ss_pred eEEEeECCEEEEEEEecCCCcceeccccccccccc--ccCCceeccCCCcc-eeeeE
Confidence 56789999999999999999999999999888765 45788999999987 66554
No 13
>cd00303 retropepsin_like Retropepsins; pepsin-like aspartate proteases. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements, as well as eukaryotic dna-damage-inducible proteins (DDIs), and bacterial aspartate peptidases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples
Probab=98.61 E-value=3.1e-07 Score=51.51 Aligned_cols=54 Identities=30% Similarity=0.439 Sum_probs=44.8
Q ss_pred EEEECCEEEEEEEeCCCCceeeCHHHHHhcCC-cccCCCcEEEEeCCCCEEEEee
Q 047037 29 QGSIKGKSVVILIDSGSTHNSINAEVAQRVNL-SPNANNRLEIMVAFGEKLMSSG 82 (85)
Q Consensus 29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l-~~~~~~~~~V~~anG~~~~~~g 82 (85)
...++|+++.+|+|+||++++++..+++++++ +.....+..+..++|......+
T Consensus 2 ~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (92)
T cd00303 2 KGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLG 56 (92)
T ss_pred EEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCc
Confidence 46788999999999999999999999999988 4444688888998887655443
No 14
>PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This family of eukaryotic aspartyl proteases have a fold similar to retroviral proteases which implies they function proteolytically during regulated protein turnover []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 3S8I_A 2I1A_B.
Probab=98.59 E-value=1.4e-07 Score=61.53 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=32.4
Q ss_pred cCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCc
Q 047037 22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLS 61 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~ 61 (85)
....+++...|||+++.++|||||-+|.|+.++|+|+||.
T Consensus 21 ~v~mLyI~~~ing~~vkA~VDtGAQ~tims~~~a~r~gL~ 60 (124)
T PF09668_consen 21 QVSMLYINCKINGVPVKAFVDTGAQSTIMSKSCAERCGLM 60 (124)
T ss_dssp -----EEEEEETTEEEEEEEETT-SS-EEEHHHHHHTTGG
T ss_pred CcceEEEEEEECCEEEEEEEeCCCCccccCHHHHHHcCCh
Confidence 4578999999999999999999999999999999999986
No 15
>PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Ty3 is a gypsy-type, retrovirus-like, element found in the budding yeast. The Ty3 aspartyl protease is required for processing of the viral polyprotein into its mature species [].
Probab=98.54 E-value=6.7e-07 Score=61.02 Aligned_cols=54 Identities=22% Similarity=0.326 Sum_probs=49.9
Q ss_pred cCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037 22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG 75 (85)
-.++..+.-.++|.++.+|+||||-.+||+..++++|+|+.-..+|++++.+-+
T Consensus 31 vg~T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs 84 (177)
T PF12384_consen 31 VGKTAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVS 84 (177)
T ss_pred cCcEEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeecc
Confidence 358999999999999999999999999999999999999999999999887653
No 16
>cd05480 NRIP_C NRIP_C; putative nuclear receptor interacting protein. Proteins in this family have been described as probable nuclear receptor interacting proteins. The C-terminal domain of this family is homologous to the retroviral aspartyl protease domain. The domain is structurally related to one lobe of the pepsin molecule. The conserved active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=98.24 E-value=2.1e-06 Score=54.26 Aligned_cols=33 Identities=30% Similarity=0.439 Sum_probs=31.2
Q ss_pred EEEECCEEEEEEEeCCCCceeeCHHHHHhcCCc
Q 047037 29 QGSIKGKSVVILIDSGSTHNSINAEVAQRVNLS 61 (85)
Q Consensus 29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~ 61 (85)
...+||+++.++|||||-+|.||+..|+|+||.
T Consensus 2 nCk~nG~~vkAfVDsGaQ~timS~~caercgL~ 34 (103)
T cd05480 2 SCQCAGKELRALVDTGCQYNLISAACLDRLGLK 34 (103)
T ss_pred ceeECCEEEEEEEecCCchhhcCHHHHHHcChH
Confidence 457999999999999999999999999999987
No 17
>cd06094 RP_Saci_like RP_Saci_like, retropepsin family. Retropepsin on retrotransposons with long terminal repeats (LTR) including Saci-1, -2 and -3 of Schistosoma mansoni. Retropepsins are related to fungal and mammalian pepsins. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified
Probab=98.05 E-value=8.9e-06 Score=50.35 Aligned_cols=45 Identities=18% Similarity=0.304 Sum_probs=38.1
Q ss_pred EEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeEe
Q 047037 36 SVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKC 84 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~c 84 (85)
.+.+||||||.++.|+....++. ....++.++.|||..+..-|..
T Consensus 9 ~~~fLVDTGA~vSviP~~~~~~~----~~~~~~~l~AANgt~I~tyG~~ 53 (89)
T cd06094 9 GLRFLVDTGAAVSVLPASSTKKS----LKPSPLTLQAANGTPIATYGTR 53 (89)
T ss_pred CcEEEEeCCCceEeecccccccc----ccCCceEEEeCCCCeEeeeeeE
Confidence 47899999999999999988864 3346889999999999987753
No 18
>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []. However, it seems likely that these proteins act as aspartic peptidases.
Probab=98.04 E-value=7.7e-06 Score=54.44 Aligned_cols=39 Identities=28% Similarity=0.329 Sum_probs=32.7
Q ss_pred EEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeC
Q 047037 35 KSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVA 73 (85)
Q Consensus 35 ~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~a 73 (85)
+.+.+|+||||..+||.+++|++|+|+......+.+.+.
T Consensus 11 ~~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~~~~~~~~ 49 (164)
T PF05585_consen 11 VEARALLDSGSQRSFITESLANKLNLPGTGEKILVIGTF 49 (164)
T ss_pred EEEEEEEecCCchhHHhHHHHHHhCCCCCCceEEEEecc
Confidence 468889999999999999999999999887665555544
No 19
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=97.43 E-value=0.00017 Score=54.36 Aligned_cols=42 Identities=26% Similarity=0.411 Sum_probs=38.0
Q ss_pred CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcc
Q 047037 21 QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSP 62 (85)
Q Consensus 21 ~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~ 62 (85)
..-..+++...|||++|.++|||||-.+-||...|+|+||.-
T Consensus 231 ~~v~ML~iN~~ing~~VKAfVDsGaq~timS~~Caer~gL~r 272 (380)
T KOG0012|consen 231 TQVTMLYINCEINGVPVKAFVDSGAQTTIMSAACAERCGLNR 272 (380)
T ss_pred ccceEEEEEEEECCEEEEEEEcccchhhhhhHHHHHHhChHH
Confidence 345678999999999999999999999999999999999753
No 20
>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.002 Score=42.10 Aligned_cols=55 Identities=22% Similarity=0.211 Sum_probs=39.5
Q ss_pred CeEEEEEEE---CCEEEEEEEeCCCC-ceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 24 ETMRIQGSI---KGKSVVILIDSGST-HNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 24 ~~~~~~g~i---~g~~v~~LiDSGat-~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
.++.++... +.+....|||||+| ...|++++|++++++.. ...++..|+|..+..
T Consensus 11 ~~v~~~f~~~~~Gd~~~~~LiDTGFtg~lvlp~~vaek~~~~~~--~~~~~~~a~~~~v~t 69 (125)
T COG5550 11 VTVPVTFRLPGQGDFVYDELIDTGFTGYLVLPPQVAEKLGLPLF--STIRIVLADGGVVKT 69 (125)
T ss_pred eeEEEEEEecCCCcEEeeeEEecCCceeEEeCHHHHHhcCCCcc--CChhhhhhcCCEEEE
Confidence 445555554 33445559999999 88999999999998887 445566667666554
No 21
>PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of sequences contain an aspartic peptidase signature that belongs to MEROPS peptidase family A3, subfamily A3A (cauliflower mosaic virus-type endopeptidase, clan AA). Cauliflower mosaic virus belongs to the Retro-transcribing viruses, which have a double-stranded DNA genome. The genome includes an open reading frame (ORF V) that shows similarities to the pol gene of retroviruses. This ORF codes for a polyprotein that includes a reverse transcriptase, which, on the basis of a DTG triplet near the N terminus, was suggested to include an aspartic protease. The presence of an aspartic protease has been confirmed by mutational studies, implicating Asp-45 in catalysis. The protease releases itself from the polyprotein and is involved in reactions required to process the ORF IV polyprotein, which includes the viral coat protein []. The viral aspartic peptidase signature has also been found associated with a polyprotein encoded by integrated pararetrovirus-like sequences in the genome of Nicotiana tabacum (Common tobacco) []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis
Probab=97.09 E-value=0.0015 Score=45.77 Aligned_cols=57 Identities=14% Similarity=0.162 Sum_probs=39.4
Q ss_pred EEEEEECC---EEEEEEEeCCCCceeeCHHHHHhcCCcccC-CCcEEEEeCCCCEEEEeeEeC
Q 047037 27 RIQGSIKG---KSVVILIDSGSTHNSINAEVAQRVNLSPNA-NNRLEIMVAFGEKLMSSGKCT 85 (85)
Q Consensus 27 ~~~g~i~g---~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~-~~~~~V~~anG~~~~~~g~c~ 85 (85)
+++-.+.| ..+..+||||||.+.++....-.-- .+. ..++.|+.|||....-.-+|+
T Consensus 8 ~~~i~~~gy~~~~~~~~vDTGAt~C~~~~~iiP~e~--we~~~~~i~v~~an~~~~~i~~~~~ 68 (201)
T PF02160_consen 8 KVKISFPGYKKFNYHCYVDTGATICCASKKIIPEEY--WEKSKKPIKVKGANGSIIQINKKAK 68 (201)
T ss_pred EEEEEEcCceeEEEEEEEeCCCceEEecCCcCCHHH--HHhCCCcEEEEEecCCceEEEEEec
Confidence 33444444 4577899999999998887662221 122 378999999999877766663
No 22
>cd05482 HIV_retropepsin_like Retropepsins, pepsin-like aspartate proteases. This is a subfamily of retropepsins. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This gro
Probab=96.26 E-value=0.006 Score=37.41 Aligned_cols=27 Identities=26% Similarity=0.197 Sum_probs=23.5
Q ss_pred EEEECCEEEEEEEeCCCCceeeCHHHH
Q 047037 29 QGSIKGKSVVILIDSGSTHNSINAEVA 55 (85)
Q Consensus 29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a 55 (85)
+-.|+|+.+.+|+||||-++.|++..-
T Consensus 2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~ 28 (87)
T cd05482 2 TLYINGKLFEGLLDTGADVSIIAENDW 28 (87)
T ss_pred EEEECCEEEEEEEccCCCCeEEccccc
Confidence 457899999999999999999997543
No 23
>PF12382 Peptidase_A2E: Retrotransposon peptidase; InterPro: IPR024648 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. This entry represents a small family of fungal retroviral aspartyl peptidases.
Probab=91.10 E-value=0.2 Score=32.14 Aligned_cols=30 Identities=30% Similarity=0.376 Sum_probs=27.0
Q ss_pred EEEEEEeCCCCceeeCHHHHHhcCCcccCC
Q 047037 36 SVVILIDSGSTHNSINAEVAQRVNLSPNAN 65 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~ 65 (85)
.+.-|||+||-.|.|.++.++...||..+.
T Consensus 47 sipclidtgaq~niiteetvrahklptrpw 76 (137)
T PF12382_consen 47 SIPCLIDTGAQVNIITEETVRAHKLPTRPW 76 (137)
T ss_pred cceeEEccCceeeeeehhhhhhccCCCCcc
Confidence 367799999999999999999999998874
No 24
>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077.; InterPro: IPR001461 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....
Probab=90.37 E-value=0.65 Score=32.67 Aligned_cols=27 Identities=26% Similarity=0.394 Sum_probs=23.6
Q ss_pred EEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037 26 MRIQGSIK--GKSVVILIDSGSTHNSINA 52 (85)
Q Consensus 26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~~ 52 (85)
|.+...|+ ++++.++|||||+..|+..
T Consensus 2 Y~~~v~iGtp~q~~~~~iDTGS~~~wv~~ 30 (317)
T PF00026_consen 2 YYINVTIGTPPQTFRVLIDTGSSDTWVPS 30 (317)
T ss_dssp EEEEEEETTTTEEEEEEEETTBSSEEEEB
T ss_pred eEEEEEECCCCeEEEEEEecccceeeece
Confidence 56677887 8999999999999999984
No 25
>cd05470 pepsin_retropepsin_like Cellular and retroviral pepsin-like aspartate proteases. This family includes both cellular and retroviral pepsin-like aspartate proteases. The cellular pepsin and pepsin-like enzymes are twice as long as their retroviral counterparts. The cellular pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, rennin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (rennin, cathepsin D and E, pepsin) or commercially (chymosin) important. The eukaryotic pepsin-like proteases contain two domains possessing similar topological features. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except in the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The eukaryotic pepsin-like proteases have two active site
Probab=89.50 E-value=0.52 Score=28.43 Aligned_cols=26 Identities=23% Similarity=0.336 Sum_probs=21.0
Q ss_pred EECC--EEEEEEEeCCCCceeeCHHHHH
Q 047037 31 SIKG--KSVVILIDSGSTHNSINAEVAQ 56 (85)
Q Consensus 31 ~i~g--~~v~~LiDSGat~~Fi~~~~a~ 56 (85)
.|+. +++.+++||||+..++...-..
T Consensus 4 ~vGtP~q~~~~~~DTGSs~~Wv~~~~c~ 31 (109)
T cd05470 4 GIGTPPQTFNVLLDTGSSNLWVPSVDCQ 31 (109)
T ss_pred EeCCCCceEEEEEeCCCCCEEEeCCCCC
Confidence 4554 8899999999999999876543
No 26
>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins. SAPs (Secreted aspartic proteinases) are secreted from a group of pathogenic fungi, predominantly Candida species. They are secreted from the pathogen to degrade host proteins. SAP is one of the most significant extracellular hydrolytic enzymes produced by C. albicans. SAP proteins, encoded by a family of 10 SAP genes. All 10 SAP genes of C. albicans encode preproenzymes, approximately 60 amino acid longer than the mature enzyme, which are processed when transported via the secretory pathway. The mature enzymes contain sequence motifs typical for all aspartyl proteinases, including the two conserved aspartate residues other active site and conserved cysteine residues implicated in the maintenance of the three-dimensional structure. Most Sap proteins contain putative N-glycosylation sites, but it remains to be determined which Sap proteins are glycosylated. This family of aspartate proteases
Probab=89.45 E-value=1.8 Score=30.46 Aligned_cols=26 Identities=23% Similarity=0.346 Sum_probs=22.7
Q ss_pred EEEEEEECC--EEEEEEEeCCCCceeeC
Q 047037 26 MRIQGSIKG--KSVVILIDSGSTHNSIN 51 (85)
Q Consensus 26 ~~~~g~i~g--~~v~~LiDSGat~~Fi~ 51 (85)
|.+...|+. +++.+++||||+..+|.
T Consensus 3 Y~~~i~iGtp~q~~~v~~DTgS~~~wv~ 30 (295)
T cd05474 3 YSAELSVGTPPQKVTVLLDTGSSDLWVP 30 (295)
T ss_pred EEEEEEECCCCcEEEEEEeCCCCcceee
Confidence 556677777 89999999999999999
No 27
>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite. The family contains a group of aspartic proteinases homologous to plasmepsin 5. Plasmepsins are a class of at least 10 enzymes produced by the plasmodium parasite. Through their haemoglobin-degrading activity, they are an important cause of symptoms in malaria sufferers. This family of enzymes is a potential target for anti-malarial drugs. Plasmepsins are aspartic acid proteases, which means their active site contains two aspartic acid residues. These two aspartic acid residue act respectively as proton donor and proton acceptor, catalyzing the hydrolysis of peptide bond in proteins. Aspartic proteinases are composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalytic Asp residues are contained in an Asp-Thr-Gly-Ser/thr motif in both N- and C-terminal l
Probab=86.64 E-value=1.2 Score=32.18 Aligned_cols=41 Identities=22% Similarity=0.280 Sum_probs=31.2
Q ss_pred EEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 36 SVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
...++||||.|..+++.++.+++.-.+ +.+.+...+|..+.
T Consensus 231 ~~~aivDSGTs~~~lp~~~~~~l~~~~---P~i~~~f~~g~~~~ 271 (326)
T cd06096 231 GLGMLVDSGSTLSHFPEDLYNKINNFF---PTITIIFENNLKID 271 (326)
T ss_pred CCCEEEeCCCCcccCCHHHHHHHHhhc---CcEEEEEcCCcEEE
Confidence 455899999999999999998874333 66777777665554
No 28
>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants. This family contains pepsin like aspartic proteases from plants including Chloroplast Nucleoids DNA-binding Protease and Nucellin. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco and Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The enzymes specifically cleave bonds in peptides which
Probab=86.60 E-value=1.7 Score=30.47 Aligned_cols=18 Identities=28% Similarity=0.300 Sum_probs=16.2
Q ss_pred EEEEeCCCCceeeCHHHH
Q 047037 38 VILIDSGSTHNSINAEVA 55 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a 55 (85)
.++||||+|..++++.+.
T Consensus 178 ~ai~DTGTs~~~lp~~~~ 195 (265)
T cd05476 178 GTIIDSGTTLTYLPDPAY 195 (265)
T ss_pred cEEEeCCCcceEcCcccc
Confidence 389999999999998887
No 29
>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin. The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-
Probab=86.36 E-value=0.98 Score=31.84 Aligned_cols=27 Identities=15% Similarity=0.146 Sum_probs=21.9
Q ss_pred EEEEEECC--EEEEEEEeCCCCceeeCHH
Q 047037 27 RIQGSIKG--KSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 27 ~~~g~i~g--~~v~~LiDSGat~~Fi~~~ 53 (85)
.+.-.|+. +++.+++||||+..|+...
T Consensus 2 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~ 30 (278)
T cd06097 2 LTPVKIGTPPQTLNLDLDTGSSDLWVFSS 30 (278)
T ss_pred eeeEEECCCCcEEEEEEeCCCCceeEeeC
Confidence 34556666 8999999999999999765
No 30
>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite. The family contains a group of aspartic proteinases homologous to plasmepsin 5. Plasmepsins are a class of at least 10 enzymes produced by the plasmodium parasite. Through their haemoglobin-degrading activity, they are an important cause of symptoms in malaria sufferers. This family of enzymes is a potential target for anti-malarial drugs. Plasmepsins are aspartic acid proteases, which means their active site contains two aspartic acid residues. These two aspartic acid residue act respectively as proton donor and proton acceptor, catalyzing the hydrolysis of peptide bond in proteins. Aspartic proteinases are composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalytic Asp residues are contained in an Asp-Thr-Gly-Ser/thr motif in both N- and C-terminal l
Probab=85.98 E-value=1.7 Score=31.46 Aligned_cols=30 Identities=20% Similarity=0.195 Sum_probs=24.4
Q ss_pred CeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
+-|.+.-.|+ .+++.+++||||+..+++-.
T Consensus 2 ~~Y~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~ 33 (326)
T cd06096 2 AYYFIDIFIGNPPQKQSLILDTGSSSLSFPCS 33 (326)
T ss_pred ceEEEEEEecCCCeEEEEEEeCCCCceEEecC
Confidence 3466677777 68999999999999999764
No 31
>cd05475 nucellin_like Nucellins, plant aspartic proteases specifically expressed in nucellar cells during degradation. Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. This degradation is a characteristic of programmed cell death. Nucellins are plant aspartic proteases specifically expressed in nucellar cells during degradation. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region, and two other regions nearly identical to two regions of plant aspartic proteases. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. Although the three-dimensional structures of the two lobes are very similar, the amino acid sequences are more d
Probab=85.69 E-value=1.5 Score=31.02 Aligned_cols=27 Identities=22% Similarity=0.201 Sum_probs=22.4
Q ss_pred eEEEEEEEC--CEEEEEEEeCCCCceeeC
Q 047037 25 TMRIQGSIK--GKSVVILIDSGSTHNSIN 51 (85)
Q Consensus 25 ~~~~~g~i~--g~~v~~LiDSGat~~Fi~ 51 (85)
.|.+.-.|+ .+.+.+++||||++.+|.
T Consensus 2 ~Y~~~i~iGtP~q~~~v~~DTGS~~~Wv~ 30 (273)
T cd05475 2 YYYVTINIGNPPKPYFLDIDTGSDLTWLQ 30 (273)
T ss_pred ceEEEEEcCCCCeeEEEEEccCCCceEEe
Confidence 356666776 788999999999999995
No 32
>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants. This family contains pepsin like aspartic proteases from plants including Chloroplast Nucleoids DNA-binding Protease and Nucellin. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco and Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The enzymes specifically cleave bonds in peptides which
Probab=85.17 E-value=2.7 Score=29.39 Aligned_cols=27 Identities=19% Similarity=0.253 Sum_probs=21.3
Q ss_pred EEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037 26 MRIQGSIK--GKSVVILIDSGSTHNSINA 52 (85)
Q Consensus 26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~~ 52 (85)
|.+.-.|+ .+++.+++||||++.++..
T Consensus 2 Y~~~i~iGtP~q~~~v~~DTGSs~~wv~~ 30 (265)
T cd05476 2 YLVTLSIGTPPQPFSLIVDTGSDLTWTQC 30 (265)
T ss_pred eEEEEecCCCCcceEEEecCCCCCEEEcC
Confidence 34455566 6789999999999999974
No 33
>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure. Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r
Probab=85.01 E-value=2 Score=31.06 Aligned_cols=30 Identities=13% Similarity=0.117 Sum_probs=25.3
Q ss_pred CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037 23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA 52 (85)
Q Consensus 23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~ 52 (85)
...+.+.-.|+ .+.+.+++||||+..+|..
T Consensus 6 ~~~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~ 37 (326)
T cd05487 6 DTQYYGEIGIGTPPQTFKVVFDTGSSNLWVPS 37 (326)
T ss_pred CCeEEEEEEECCCCcEEEEEEeCCccceEEcc
Confidence 35667777787 7999999999999999975
No 34
>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins. Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro
Probab=84.58 E-value=2.3 Score=30.65 Aligned_cols=31 Identities=13% Similarity=0.115 Sum_probs=26.0
Q ss_pred CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
...|.+.-.|+ .+++.+++||||+..++...
T Consensus 8 ~~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~ 40 (317)
T cd06098 8 DAQYFGEIGIGTPPQKFTVIFDTGSSNLWVPSS 40 (317)
T ss_pred CCEEEEEEEECCCCeEEEEEECCCccceEEecC
Confidence 35677788887 78999999999999999764
No 35
>COG0282 ackA Acetate kinase [Energy production and conversion]
Probab=84.38 E-value=0.51 Score=36.25 Aligned_cols=37 Identities=14% Similarity=0.246 Sum_probs=34.1
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
|-||.|++.+.|+.||-|++..+-+...++||.+++.
T Consensus 179 GtSh~YVs~~aa~~L~k~~~~l~~I~~HLGNGASicA 215 (396)
T COG0282 179 GTSHKYVSQRAAEILGKPLEDLNLITCHLGNGASICA 215 (396)
T ss_pred ccchHHHHHHHHHHhCCCccccCEEEEEecCchhhhh
Confidence 7799999999999999999999999999999987754
No 36
>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals. Pepsin, a well-known aspartic protease, is produced by the human gastric mucosa in seven different zymogen isoforms, subdivided into two types: pepsinogen A and pepsinogen C. The prosequence of the zymogens are self cleaved under acidic pH. The mature enzymes are called pepsin A and pepsin C, correspondingly. The well researched porcine pepsin is also in this pepsin A family. Pepsins play an integral role in the digestion process of vertebrates. Pepsins are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. More recently evolved enzymes have similar three-dimensional structures, however their amino acid sequences are more divergent except for the conserved catalytic site motif. Pepsins specifically cleave bonds in peptides which
Probab=83.18 E-value=2.7 Score=30.23 Aligned_cols=31 Identities=16% Similarity=0.090 Sum_probs=25.8
Q ss_pred CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
...|.+.-.|+ .+++.++|||||+..++...
T Consensus 8 ~~~Y~~~i~vGtp~q~~~v~~DTGS~~~wv~~~ 40 (317)
T cd05478 8 DMEYYGTISIGTPPQDFTVIFDTGSSNLWVPSV 40 (317)
T ss_pred CCEEEEEEEeCCCCcEEEEEEeCCCccEEEecC
Confidence 45677777887 68899999999999999754
No 37
>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin. The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-
Probab=82.44 E-value=0.99 Score=31.82 Aligned_cols=23 Identities=13% Similarity=0.226 Sum_probs=19.5
Q ss_pred EEEEEEeCCCCceeeCHHHHHhc
Q 047037 36 SVVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l 58 (85)
...++||||++..+++..+++++
T Consensus 198 ~~~~iiDSGTs~~~lP~~~~~~l 220 (278)
T cd06097 198 GFSAIADTGTTLILLPDAIVEAY 220 (278)
T ss_pred CceEEeecCCchhcCCHHHHHHH
Confidence 45689999999999998877665
No 38
>PTZ00147 plasmepsin-1; Provisional
Probab=81.98 E-value=2.9 Score=32.40 Aligned_cols=31 Identities=13% Similarity=0.154 Sum_probs=26.5
Q ss_pred CeEEEEEEEC--CEEEEEEEeCCCCceeeCHHH
Q 047037 24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAEV 54 (85)
Q Consensus 24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~~ 54 (85)
..+.....|+ .+++.+++||||+..++...-
T Consensus 138 ~~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~ 170 (453)
T PTZ00147 138 VMSYGEAKLGDNGQKFNFIFDTGSANLWVPSIK 170 (453)
T ss_pred CEEEEEEEECCCCeEEEEEEeCCCCcEEEeecC
Confidence 5677788888 899999999999999997543
No 39
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=81.94 E-value=5.9 Score=24.01 Aligned_cols=47 Identities=21% Similarity=0.294 Sum_probs=37.5
Q ss_pred EEEEEEECCEEEEEEEeCCC--CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 26 MRIQGSIKGKSVVILIDSGS--THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGa--t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
++++...+|..+.+.++..+ +..=+...++++++++ ++.++-.|-+-
T Consensus 1 V~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~-----~f~lKYlDde~ 49 (81)
T cd06396 1 VNLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN-----DIQIKYVDEEN 49 (81)
T ss_pred CEEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC-----cceeEEEcCCC
Confidence 36889999999999999955 6666788999999988 66666666443
No 40
>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank
Probab=81.78 E-value=3 Score=29.99 Aligned_cols=29 Identities=14% Similarity=0.187 Sum_probs=24.0
Q ss_pred CeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037 24 ETMRIQGSIK--GKSVVILIDSGSTHNSINA 52 (85)
Q Consensus 24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~ 52 (85)
..|.+.-.|+ .+++.+++||||+..++..
T Consensus 5 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~ 35 (325)
T cd05490 5 AQYYGEIGIGTPPQTFTVVFDTGSSNLWVPS 35 (325)
T ss_pred CEEEEEEEECCCCcEEEEEEeCCCccEEEEc
Confidence 4567777777 4889999999999999964
No 41
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=81.60 E-value=3.1 Score=32.23 Aligned_cols=32 Identities=13% Similarity=0.260 Sum_probs=26.0
Q ss_pred CeEEEEEEEC--CEEEEEEEeCCCCceeeCHHHH
Q 047037 24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAEVA 55 (85)
Q Consensus 24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~~a 55 (85)
..+.....|+ ++++.+++||||+..++...-.
T Consensus 137 ~~Yy~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C 170 (450)
T PTZ00013 137 IMFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKC 170 (450)
T ss_pred CEEEEEEEECCCCeEEEEEEeCCCCceEEecccC
Confidence 4566677887 8999999999999999976543
No 42
>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami
Probab=81.41 E-value=1.9 Score=30.65 Aligned_cols=21 Identities=19% Similarity=0.335 Sum_probs=17.7
Q ss_pred EEEEeCCCCceeeCHHHHHhc
Q 047037 38 VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l 58 (85)
.++||||+|..++++.+.+++
T Consensus 173 ~~ivDSGTt~~~lp~~~~~~l 193 (299)
T cd05472 173 GVIIDSGTVITRLPPSAYAAL 193 (299)
T ss_pred CeEEeCCCcceecCHHHHHHH
Confidence 479999999999998777654
No 43
>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa. Gastricsin is also called pepsinogen C. Gastricsins are produced in gastric mucosa of mammals. It is synthesized by the chief cells in the stomach as an inactive zymogen. It is self-converted to a mature enzyme under acidic conditions. Human gastricsin is distributed throughout all parts of the stomach. Gastricsin is synthesized as an inactive progastricsin that has an approximately 40 residue prosequence. It is self-converting to a mature enzyme being triggered by a drop in pH from neutrality to acidic conditions. Like other aspartic proteases, gastricsin are characterized by two catalytic aspartic residues at the active site, and display optimal activity at acidic pH. Mature enzyme has a pseudo-2-fold symmetry that passes through the active site between the catalytic aspartate residues. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic aspartate residue, with an exten
Probab=80.81 E-value=3.5 Score=29.57 Aligned_cols=29 Identities=21% Similarity=0.242 Sum_probs=23.2
Q ss_pred eEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 25 TMRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 25 ~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
.|...-.|+ .+++.++|||||+..++...
T Consensus 3 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~ 33 (318)
T cd05477 3 SYYGEISIGTPPQNFLVLFDTGSSNLWVPSV 33 (318)
T ss_pred EEEEEEEECCCCcEEEEEEeCCCccEEEccC
Confidence 355566666 48999999999999999853
No 44
>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa. Gastricsin is also called pepsinogen C. Gastricsins are produced in gastric mucosa of mammals. It is synthesized by the chief cells in the stomach as an inactive zymogen. It is self-converted to a mature enzyme under acidic conditions. Human gastricsin is distributed throughout all parts of the stomach. Gastricsin is synthesized as an inactive progastricsin that has an approximately 40 residue prosequence. It is self-converting to a mature enzyme being triggered by a drop in pH from neutrality to acidic conditions. Like other aspartic proteases, gastricsin are characterized by two catalytic aspartic residues at the active site, and display optimal activity at acidic pH. Mature enzyme has a pseudo-2-fold symmetry that passes through the active site between the catalytic aspartate residues. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic aspartate residue, with an exten
Probab=80.61 E-value=2.6 Score=30.26 Aligned_cols=28 Identities=18% Similarity=0.412 Sum_probs=22.2
Q ss_pred EECCEEE-------EEEEeCCCCceeeCHHHHHhc
Q 047037 31 SIKGKSV-------VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 31 ~i~g~~v-------~~LiDSGat~~Fi~~~~a~~l 58 (85)
.++++.+ .++||||.|..++++.+.+++
T Consensus 189 ~v~g~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l 223 (318)
T cd05477 189 QINGQATGWCSQGCQAIVDTGTSLLTAPQQVMSTL 223 (318)
T ss_pred EECCEEecccCCCceeeECCCCccEECCHHHHHHH
Confidence 5666543 589999999999999888764
No 45
>cd05473 beta_secretase_like Beta-secretase, aspartic-acid protease important in the pathogenesis of Alzheimer's disease. Beta-secretase also called BACE (beta-site of APP cleaving enzyme) or memapsin-2. Beta-secretase is an aspartic-acid protease important in the pathogenesis of Alzheimer's disease, and in the formation of myelin sheaths in peripheral nerve cells. It cleaves amyloid precursor protein (APP) to reveal the N-terminus of the beta-amyloid peptides. The beta-amyloid peptides are the major components of the amyloid plaques formed in the brain of patients with Alzheimer's disease (AD). Since BACE mediates one of the cleavages responsible for generation of AD, it is regarded as a potential target for pharmacological intervention in AD. Beta-secretase is a member of pepsin family of aspartic proteases. Same as other aspartic proteases, beta-secretase is a bilobal enzyme, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two
Probab=80.59 E-value=2.7 Score=30.90 Aligned_cols=28 Identities=29% Similarity=0.389 Sum_probs=22.7
Q ss_pred EEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 26 MRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
|.+.-.|+ .+++.+++||||+..++...
T Consensus 4 Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~ 33 (364)
T cd05473 4 YYIEMLIGTPPQKLNILVDTGSSNFAVAAA 33 (364)
T ss_pred eEEEEEecCCCceEEEEEecCCcceEEEcC
Confidence 55666676 58999999999999999753
No 46
>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins. Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro
Probab=79.37 E-value=3.1 Score=29.97 Aligned_cols=30 Identities=27% Similarity=0.337 Sum_probs=24.2
Q ss_pred EEECCEEE-------EEEEeCCCCceeeCHHHHHhcC
Q 047037 30 GSIKGKSV-------VILIDSGSTHNSINAEVAQRVN 59 (85)
Q Consensus 30 g~i~g~~v-------~~LiDSGat~~Fi~~~~a~~l~ 59 (85)
..|+++.+ .++||||.|..++++++++++.
T Consensus 197 i~v~g~~~~~~~~~~~aivDTGTs~~~lP~~~~~~i~ 233 (317)
T cd06098 197 VLIGGKSTGFCAGGCAAIADSGTSLLAGPTTIVTQIN 233 (317)
T ss_pred EEECCEEeeecCCCcEEEEecCCcceeCCHHHHHhhh
Confidence 35666653 5899999999999999998764
No 47
>cd05486 Cathespin_E Cathepsin E, non-lysosomal aspartic protease. Cathepsin E is an intracellular, non-lysosomal aspartic protease expressed in a variety of cells and tissues. The protease has proposed physiological roles in antigen presentation by the MHC class II system, in the biogenesis of the vasoconstrictor peptide endothelin, and in neurodegeneration associated with brain ischemia and aging. Cathepsin E is the only A1 aspartic protease that exists as a homodimer with a disulfide bridge linking the two monomers. Like many other aspartic proteases, it is synthesized as a zymogen which is catalytically inactive towards its natural substrates at neutral pH and which auto-activates in an acidic environment. The overall structure follows the general fold of aspartic proteases of the A1 family, it is composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalyt
Probab=79.30 E-value=2 Score=30.86 Aligned_cols=28 Identities=11% Similarity=0.278 Sum_probs=21.7
Q ss_pred EECCEEE------EEEEeCCCCceeeCHHHHHhc
Q 047037 31 SIKGKSV------VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 31 ~i~g~~v------~~LiDSGat~~Fi~~~~a~~l 58 (85)
.++|+.+ .++||||++..+++.+..+++
T Consensus 187 ~v~g~~~~~~~~~~aiiDTGTs~~~lP~~~~~~l 220 (316)
T cd05486 187 QVGGTVIFCSDGCQAIVDTGTSLITGPSGDIKQL 220 (316)
T ss_pred EEecceEecCCCCEEEECCCcchhhcCHHHHHHH
Confidence 4555543 589999999999999877654
No 48
>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an
Probab=78.92 E-value=2.8 Score=30.45 Aligned_cols=21 Identities=10% Similarity=0.205 Sum_probs=18.5
Q ss_pred EEEEeCCCCceeeCHHHHHhc
Q 047037 38 VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l 58 (85)
.++||||++..+++.++.+.+
T Consensus 212 ~~iiDSGtt~~~lP~~~~~~l 232 (329)
T cd05485 212 QAIADTGTSLIAGPVDEIEKL 232 (329)
T ss_pred EEEEccCCcceeCCHHHHHHH
Confidence 699999999999999877754
No 49
>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an
Probab=78.87 E-value=4.5 Score=29.37 Aligned_cols=31 Identities=16% Similarity=0.112 Sum_probs=26.6
Q ss_pred CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
...|.+.-.|+ .+++.+++||||+..|+...
T Consensus 9 ~~~Y~~~i~vGtP~q~~~v~~DTGSs~~Wv~~~ 41 (329)
T cd05485 9 DAQYYGVITIGTPPQSFKVVFDTGSSNLWVPSK 41 (329)
T ss_pred CCeEEEEEEECCCCcEEEEEEcCCCccEEEecC
Confidence 36778888888 58999999999999999864
No 50
>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals. Pepsin, a well-known aspartic protease, is produced by the human gastric mucosa in seven different zymogen isoforms, subdivided into two types: pepsinogen A and pepsinogen C. The prosequence of the zymogens are self cleaved under acidic pH. The mature enzymes are called pepsin A and pepsin C, correspondingly. The well researched porcine pepsin is also in this pepsin A family. Pepsins play an integral role in the digestion process of vertebrates. Pepsins are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. More recently evolved enzymes have similar three-dimensional structures, however their amino acid sequences are more divergent except for the conserved catalytic site motif. Pepsins specifically cleave bonds in peptides which
Probab=78.82 E-value=3.2 Score=29.81 Aligned_cols=29 Identities=17% Similarity=0.259 Sum_probs=23.6
Q ss_pred EEECCEEE------EEEEeCCCCceeeCHHHHHhc
Q 047037 30 GSIKGKSV------VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 30 g~i~g~~v------~~LiDSGat~~Fi~~~~a~~l 58 (85)
..++|+.+ .++||||++..+++....+++
T Consensus 194 v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l 228 (317)
T cd05478 194 VTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANI 228 (317)
T ss_pred EEECCEEEccCCCCEEEECCCchhhhCCHHHHHHH
Confidence 46777765 589999999999999887653
No 51
>cd05486 Cathespin_E Cathepsin E, non-lysosomal aspartic protease. Cathepsin E is an intracellular, non-lysosomal aspartic protease expressed in a variety of cells and tissues. The protease has proposed physiological roles in antigen presentation by the MHC class II system, in the biogenesis of the vasoconstrictor peptide endothelin, and in neurodegeneration associated with brain ischemia and aging. Cathepsin E is the only A1 aspartic protease that exists as a homodimer with a disulfide bridge linking the two monomers. Like many other aspartic proteases, it is synthesized as a zymogen which is catalytically inactive towards its natural substrates at neutral pH and which auto-activates in an acidic environment. The overall structure follows the general fold of aspartic proteases of the A1 family, it is composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalyt
Probab=78.78 E-value=2.8 Score=30.07 Aligned_cols=26 Identities=23% Similarity=0.240 Sum_probs=20.2
Q ss_pred EEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 28 IQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 28 ~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
+.-.|+ .+++.+++||||+..++...
T Consensus 3 ~~i~iGtP~Q~~~v~~DTGSs~~Wv~s~ 30 (316)
T cd05486 3 GQISIGTPPQNFTVIFDTGSSNLWVPSI 30 (316)
T ss_pred EEEEECCCCcEEEEEEcCCCccEEEecC
Confidence 334454 67899999999999999753
No 52
>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily. Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro
Probab=78.41 E-value=4 Score=29.39 Aligned_cols=30 Identities=10% Similarity=0.174 Sum_probs=25.4
Q ss_pred CeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037 24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAE 53 (85)
Q Consensus 24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~ 53 (85)
..|.+.-.|+ .+++.+++||||+..+|...
T Consensus 9 ~~Y~~~i~iGtp~q~~~v~~DTGSs~~wv~~~ 40 (320)
T cd05488 9 AQYFTDITLGTPPQKFKVILDTGSSNLWVPSV 40 (320)
T ss_pred CEEEEEEEECCCCcEEEEEEecCCcceEEEcC
Confidence 5577788887 48999999999999999764
No 53
>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami
Probab=78.21 E-value=2.6 Score=29.96 Aligned_cols=26 Identities=12% Similarity=0.322 Sum_probs=20.6
Q ss_pred EEEEEEEC--CEEEEEEEeCCCCceeeC
Q 047037 26 MRIQGSIK--GKSVVILIDSGSTHNSIN 51 (85)
Q Consensus 26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~ 51 (85)
|.+.-.|+ .+++.+++||||+..++.
T Consensus 2 Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~ 29 (299)
T cd05472 2 YVVTVGLGTPARDQTVIVDTGSDLTWVQ 29 (299)
T ss_pred eEEEEecCCCCcceEEEecCCCCccccc
Confidence 34455565 578999999999999994
No 54
>cd05473 beta_secretase_like Beta-secretase, aspartic-acid protease important in the pathogenesis of Alzheimer's disease. Beta-secretase also called BACE (beta-site of APP cleaving enzyme) or memapsin-2. Beta-secretase is an aspartic-acid protease important in the pathogenesis of Alzheimer's disease, and in the formation of myelin sheaths in peripheral nerve cells. It cleaves amyloid precursor protein (APP) to reveal the N-terminus of the beta-amyloid peptides. The beta-amyloid peptides are the major components of the amyloid plaques formed in the brain of patients with Alzheimer's disease (AD). Since BACE mediates one of the cleavages responsible for generation of AD, it is regarded as a potential target for pharmacological intervention in AD. Beta-secretase is a member of pepsin family of aspartic proteases. Same as other aspartic proteases, beta-secretase is a bilobal enzyme, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two
Probab=74.54 E-value=4.1 Score=29.96 Aligned_cols=20 Identities=25% Similarity=0.390 Sum_probs=17.4
Q ss_pred EEEEeCCCCceeeCHHHHHh
Q 047037 38 VILIDSGSTHNSINAEVAQR 57 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~ 57 (85)
.++||||+|..+++....+.
T Consensus 213 ~~ivDSGTs~~~lp~~~~~~ 232 (364)
T cd05473 213 KAIVDSGTTNLRLPVKVFNA 232 (364)
T ss_pred cEEEeCCCcceeCCHHHHHH
Confidence 48999999999999887764
No 55
>PF14543 TAXi_N: Xylanase inhibitor N-terminal; PDB: 3HD8_A 3VLB_A 3VLA_A 3AUP_D 1T6G_A 1T6E_X 2B42_A.
Probab=73.98 E-value=6.5 Score=25.91 Aligned_cols=25 Identities=20% Similarity=0.335 Sum_probs=17.8
Q ss_pred EEEEEECC--EEEEEEEeCCCCceeeC
Q 047037 27 RIQGSIKG--KSVVILIDSGSTHNSIN 51 (85)
Q Consensus 27 ~~~g~i~g--~~v~~LiDSGat~~Fi~ 51 (85)
.+...|+. +++.++||+|+...++.
T Consensus 2 ~~~~~iGtP~~~~~lvvDtgs~l~W~~ 28 (164)
T PF14543_consen 2 YVSVSIGTPPQPFSLVVDTGSDLTWVQ 28 (164)
T ss_dssp EEEEECTCTTEEEEEEEETT-SSEEEE
T ss_pred EEEEEeCCCCceEEEEEECCCCceEEc
Confidence 34444544 68999999999999973
No 56
>cd05471 pepsin_like Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH. Pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, renin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (renin, cathepsin D and E, pepsin) or commercially (chymosin) important. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residu
Probab=73.47 E-value=5.1 Score=27.50 Aligned_cols=22 Identities=14% Similarity=0.270 Sum_probs=18.7
Q ss_pred EEEEEEEeCCCCceeeCHHHHH
Q 047037 35 KSVVILIDSGSTHNSINAEVAQ 56 (85)
Q Consensus 35 ~~v~~LiDSGat~~Fi~~~~a~ 56 (85)
+++.+++||||+..++......
T Consensus 12 q~~~l~~DTGS~~~wv~~~~c~ 33 (283)
T cd05471 12 QKFSVIFDTGSSLLWVPSSNCT 33 (283)
T ss_pred cEEEEEEeCCCCCEEEecCCCC
Confidence 5899999999999999776544
No 57
>cd05471 pepsin_like Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH. Pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, renin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (renin, cathepsin D and E, pepsin) or commercially (chymosin) important. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residu
Probab=72.90 E-value=3.7 Score=28.19 Aligned_cols=27 Identities=15% Similarity=0.163 Sum_probs=22.5
Q ss_pred CCEEEEEEEeCCCCceeeCHHHHHhcC
Q 047037 33 KGKSVVILIDSGSTHNSINAEVAQRVN 59 (85)
Q Consensus 33 ~g~~v~~LiDSGat~~Fi~~~~a~~l~ 59 (85)
......++||||++..+++..+.+.+-
T Consensus 199 ~~~~~~~iiDsGt~~~~lp~~~~~~l~ 225 (283)
T cd05471 199 SSGGGGAIVDSGTSLIYLPSSVYDAIL 225 (283)
T ss_pred cCCCcEEEEecCCCCEeCCHHHHHHHH
Confidence 335688999999999999998887763
No 58
>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank
Probab=70.26 E-value=3.4 Score=29.75 Aligned_cols=22 Identities=14% Similarity=0.229 Sum_probs=19.3
Q ss_pred EEEEEeCCCCceeeCHHHHHhc
Q 047037 37 VVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l 58 (85)
..++||||+|..+++...++.+
T Consensus 207 ~~aiiDSGTt~~~~p~~~~~~l 228 (325)
T cd05490 207 CEAIVDTGTSLITGPVEEVRAL 228 (325)
T ss_pred CEEEECCCCccccCCHHHHHHH
Confidence 4689999999999999888765
No 59
>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily. Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro
Probab=70.22 E-value=3.4 Score=29.78 Aligned_cols=22 Identities=18% Similarity=0.344 Sum_probs=19.1
Q ss_pred EEEEEeCCCCceeeCHHHHHhc
Q 047037 37 VVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l 58 (85)
..++||||+|..++++++++.+
T Consensus 206 ~~~ivDSGtt~~~lp~~~~~~l 227 (320)
T cd05488 206 TGAAIDTGTSLIALPSDLAEML 227 (320)
T ss_pred CeEEEcCCcccccCCHHHHHHH
Confidence 3579999999999999998764
No 60
>PLN03146 aspartyl protease family protein; Provisional
Probab=69.80 E-value=8.2 Score=29.46 Aligned_cols=30 Identities=17% Similarity=0.079 Sum_probs=25.4
Q ss_pred CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037 23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA 52 (85)
Q Consensus 23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~ 52 (85)
.+.|.+...|+ .+++.+++||||...|+.-
T Consensus 82 ~~~Y~v~i~iGTPpq~~~vi~DTGS~l~Wv~C 113 (431)
T PLN03146 82 GGEYLMNISIGTPPVPILAIADTGSDLIWTQC 113 (431)
T ss_pred CccEEEEEEcCCCCceEEEEECCCCCcceEcC
Confidence 45788888888 5789999999999999953
No 61
>PTZ00165 aspartyl protease; Provisional
Probab=69.48 E-value=9.4 Score=29.83 Aligned_cols=34 Identities=21% Similarity=0.191 Sum_probs=28.1
Q ss_pred CCeEEEEEEECC--EEEEEEEeCCCCceeeCHHHHH
Q 047037 23 LETMRIQGSIKG--KSVVILIDSGSTHNSINAEVAQ 56 (85)
Q Consensus 23 ~~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~~~a~ 56 (85)
...|...-.|+. +++.+++||||+..++...-..
T Consensus 118 d~~Y~~~I~IGTPpQ~f~Vv~DTGSS~lWVps~~C~ 153 (482)
T PTZ00165 118 NSQYFGEIQVGTPPKSFVVVFDTGSSNLWIPSKECK 153 (482)
T ss_pred CCeEEEEEEeCCCCceEEEEEeCCCCCEEEEchhcC
Confidence 356788888886 9999999999999999875443
No 62
>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins. SAPs (Secreted aspartic proteinases) are secreted from a group of pathogenic fungi, predominantly Candida species. They are secreted from the pathogen to degrade host proteins. SAP is one of the most significant extracellular hydrolytic enzymes produced by C. albicans. SAP proteins, encoded by a family of 10 SAP genes. All 10 SAP genes of C. albicans encode preproenzymes, approximately 60 amino acid longer than the mature enzyme, which are processed when transported via the secretory pathway. The mature enzymes contain sequence motifs typical for all aspartyl proteinases, including the two conserved aspartate residues other active site and conserved cysteine residues implicated in the maintenance of the three-dimensional structure. Most Sap proteins contain putative N-glycosylation sites, but it remains to be determined which Sap proteins are glycosylated. This family of aspartate proteases
Probab=66.78 E-value=5 Score=28.12 Aligned_cols=24 Identities=25% Similarity=0.509 Sum_probs=20.4
Q ss_pred EEEEEEEeCCCCceeeCHHHHHhc
Q 047037 35 KSVVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 35 ~~v~~LiDSGat~~Fi~~~~a~~l 58 (85)
....++||||++..+++..+.+++
T Consensus 177 ~~~~~iiDSGt~~~~lP~~~~~~l 200 (295)
T cd05474 177 KNLPALLDSGTTLTYLPSDIVDAI 200 (295)
T ss_pred CCccEEECCCCccEeCCHHHHHHH
Confidence 345789999999999999988765
No 63
>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure. Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r
Probab=62.27 E-value=6.2 Score=28.51 Aligned_cols=21 Identities=14% Similarity=0.273 Sum_probs=17.9
Q ss_pred EEEEeCCCCceeeCHHHHHhc
Q 047037 38 VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l 58 (85)
.++||||.+..+++.+..+++
T Consensus 209 ~aiiDSGts~~~lP~~~~~~l 229 (326)
T cd05487 209 TAVVDTGASFISGPTSSISKL 229 (326)
T ss_pred EEEECCCccchhCcHHHHHHH
Confidence 589999999999999866554
No 64
>PF13793 Pribosyltran_N: N-terminal domain of ribose phosphate pyrophosphokinase; PDB: 2JI4_A 1DKU_B 1IBS_B 1DKR_B 3MBI_C 3LRT_B 3LPN_B 3NAG_B 2H07_B 2H06_B ....
Probab=60.78 E-value=8.8 Score=24.33 Aligned_cols=36 Identities=19% Similarity=0.232 Sum_probs=25.6
Q ss_pred EEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 40 LIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 40 LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
.|=+|+++..+..++|++||+++.. .-.-+-+||+.
T Consensus 2 ~I~~g~~~~~La~~ia~~L~~~~~~--~~~~~F~dGE~ 37 (116)
T PF13793_consen 2 VIFSGSSSQDLAERIAEALGIPLGK--VETKRFPDGET 37 (116)
T ss_dssp EEEESSSGHHHHHHHHHHTTS-EE---EEEEE-TTS-E
T ss_pred EEEECCCCHHHHHHHHHHhCCceee--eEEEEcCCCCE
Confidence 4568999999999999999998874 44445666654
No 65
>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077.; InterPro: IPR001461 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....
Probab=58.84 E-value=11 Score=26.46 Aligned_cols=23 Identities=9% Similarity=0.245 Sum_probs=19.9
Q ss_pred EEEEEEeCCCCceeeCHHHHHhc
Q 047037 36 SVVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l 58 (85)
...++||||++..+++..+...+
T Consensus 199 ~~~~~~Dtgt~~i~lp~~~~~~i 221 (317)
T PF00026_consen 199 GQQAILDTGTSYIYLPRSIFDAI 221 (317)
T ss_dssp EEEEEEETTBSSEEEEHHHHHHH
T ss_pred ceeeecccccccccccchhhHHH
Confidence 46799999999999999887754
No 66
>PTZ00147 plasmepsin-1; Provisional
Probab=58.17 E-value=19 Score=27.96 Aligned_cols=23 Identities=17% Similarity=0.421 Sum_probs=19.5
Q ss_pred EEEEEEeCCCCceeeCHHHHHhc
Q 047037 36 SVVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l 58 (85)
...++||||.|..+++...++++
T Consensus 332 ~~~aIiDSGTsli~lP~~~~~ai 354 (453)
T PTZ00147 332 KANVIVDSGTSVITVPTEFLNKF 354 (453)
T ss_pred ceeEEECCCCchhcCCHHHHHHH
Confidence 35689999999999999988653
No 67
>PF14541 TAXi_C: Xylanase inhibitor C-terminal; PDB: 3AUP_D 3HD8_A 1T6G_A 1T6E_X 2B42_A 3VLB_A 3VLA_A.
Probab=57.11 E-value=9.6 Score=24.81 Aligned_cols=19 Identities=32% Similarity=0.289 Sum_probs=14.3
Q ss_pred EEEEEeCCCCceeeCHHHH
Q 047037 37 VVILIDSGSTHNSINAEVA 55 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a 55 (85)
--+.||||.+.+++.+.+=
T Consensus 30 g~~iiDSGT~~T~L~~~~y 48 (161)
T PF14541_consen 30 GGTIIDSGTTYTYLPPPVY 48 (161)
T ss_dssp CSEEE-SSSSSEEEEHHHH
T ss_pred CCEEEECCCCccCCcHHHH
Confidence 3467999999999987653
No 68
>COG2861 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.65 E-value=9.9 Score=27.66 Aligned_cols=29 Identities=21% Similarity=0.401 Sum_probs=25.5
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcccCC
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSPNAN 65 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~~~~ 65 (85)
=++.||||.+-+-+..++|++.++|....
T Consensus 151 ~l~flDs~T~a~S~a~~iAk~~gVp~~~r 179 (250)
T COG2861 151 GLYFLDSGTIANSLAGKIAKEIGVPVIKR 179 (250)
T ss_pred CeEEEcccccccchhhhhHhhcCCceeee
Confidence 46789999999999999999999988753
No 69
>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=55.60 E-value=14 Score=22.20 Aligned_cols=28 Identities=18% Similarity=0.285 Sum_probs=22.0
Q ss_pred ceeeCHHHHHhcCCcccCCCcEEEEeCCCC
Q 047037 47 HNSINAEVAQRVNLSPNANNRLEIMVAFGE 76 (85)
Q Consensus 47 ~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~ 76 (85)
..+|+++.|+++||.-- ..++|....|.
T Consensus 31 ~v~inp~dA~~~Gi~~G--d~V~v~s~~G~ 58 (110)
T PF01568_consen 31 FVEINPEDAAKLGIKDG--DWVRVSSPRGS 58 (110)
T ss_dssp EEEEEHHHHHHCT--TT--CEEEEEETTEE
T ss_pred EEEEcHHHHHHhcCcCC--CEEEEEeccce
Confidence 45899999999996554 88999988884
No 70
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=54.55 E-value=9.5 Score=29.59 Aligned_cols=22 Identities=23% Similarity=0.428 Sum_probs=18.4
Q ss_pred EEEEEeCCCCceeeCHHHHHhc
Q 047037 37 VVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l 58 (85)
..++||||.|..++++..++++
T Consensus 332 ~~aIlDSGTSli~lP~~~~~~i 353 (450)
T PTZ00013 332 ANVIVDSGTTTITAPSEFLNKF 353 (450)
T ss_pred cceEECCCCccccCCHHHHHHH
Confidence 4589999999999998877654
No 71
>COG2336 MazE Growth regulator [Signal transduction mechanisms]
Probab=54.09 E-value=33 Score=20.86 Aligned_cols=31 Identities=19% Similarity=0.348 Sum_probs=24.7
Q ss_pred ceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 47 HNSINAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 47 ~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
..-|+..+++.+++... ..+.|.+.|++.+-
T Consensus 13 avrIP~~l~kql~l~~g--~~v~v~v~n~~~i~ 43 (82)
T COG2336 13 AVRIPAALLKQLNLTIG--DEVEVEVGNDQSIL 43 (82)
T ss_pred eeeccHHHHHHhCCCcC--ceEEEEEcCCcEEE
Confidence 34589999999997666 89999999885543
No 72
>cd05489 xylanase_inhibitor_I_like TAXI-I inhibits degradation of xylan in the cell wall. Xylanase inhibitor-I (TAXI-I) is a member of potent TAXI-type inhibitors of fungal and bacterial family 11 xylanases. Plants developed a diverse battery of defense mechanisms in response to continual challenges by a broad spectrum of pathogenic microorganisms. Their defense arsenal includes inhibitors of cell wall-degrading enzymes, which hinder a possible invasion and colonization by antagonists. Xylanases of fungal and bacterial pathogens are the key enzymes in the degradation of xylan in the cell wall. Plants secrete proteins that inhibit these degradation glycosidases, including xylanase. Surprisingly, TAXI-I displays structural homology with the pepsin-like family of aspartic proteases but is proteolytically nonfunctional, because one or more residues of the essential catalytic triad are absent. The structure of the TAXI-inhibitor, Aspergillus niger xylanase I complex, illustrates the ability
Probab=52.95 E-value=19 Score=26.83 Aligned_cols=20 Identities=0% Similarity=0.074 Sum_probs=16.6
Q ss_pred EEEEeCCCCceeeCHHHHHh
Q 047037 38 VILIDSGSTHNSINAEVAQR 57 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~ 57 (85)
-++||||.+..+++..+.+.
T Consensus 231 g~iiDSGTs~t~lp~~~y~~ 250 (362)
T cd05489 231 GVKLSTVVPYTVLRSDIYRA 250 (362)
T ss_pred cEEEecCCceEEECHHHHHH
Confidence 38999999999988876554
No 73
>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=52.59 E-value=37 Score=20.72 Aligned_cols=32 Identities=28% Similarity=0.361 Sum_probs=25.0
Q ss_pred CCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 45 STHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 45 at~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
....+|+++.|+++|+.-- ..++|....|+..
T Consensus 29 ~~~v~i~p~dA~~~gi~~G--d~V~v~s~~G~i~ 60 (123)
T cd02778 29 ENTLWINPETAARLGIKDG--DRVEVSSARGKVT 60 (123)
T ss_pred CCeEEECHHHHHHcCCCCC--CEEEEEeCCCcEE
Confidence 3567999999999997544 7888888888643
No 74
>PF07629 DUF1590: Protein of unknown function (DUF1590); InterPro: IPR011481 These hypothetical proteins in Rhodopirellula baltica have a conserved C-terminal region.
Probab=52.56 E-value=12 Score=18.52 Aligned_cols=21 Identities=24% Similarity=0.354 Sum_probs=14.2
Q ss_pred CCcccccCCceeEEEeccccC
Q 047037 1 MDDVCENATPKISLHDVARDQ 21 (85)
Q Consensus 1 ~~~~~e~~~~~iSl~A~~g~~ 21 (85)
|+.-++--.|+|||+|..-++
T Consensus 1 m~~ga~~pppeislna~fptp 21 (32)
T PF07629_consen 1 MENGADCPPPEISLNARFPTP 21 (32)
T ss_pred CCCCCCCCCCcceeccccCCC
Confidence 444445456899999986543
No 75
>PTZ00165 aspartyl protease; Provisional
Probab=52.52 E-value=21 Score=27.95 Aligned_cols=22 Identities=23% Similarity=0.209 Sum_probs=18.5
Q ss_pred EEEEEeCCCCceeeCHHHHHhc
Q 047037 37 VVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l 58 (85)
..++||||.+...++..+.+.+
T Consensus 328 ~~aIiDTGTSli~lP~~~~~~i 349 (482)
T PTZ00165 328 CKAAIDTGSSLITGPSSVINPL 349 (482)
T ss_pred eEEEEcCCCccEeCCHHHHHHH
Confidence 4589999999999999886544
No 76
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=52.08 E-value=48 Score=19.51 Aligned_cols=46 Identities=17% Similarity=0.320 Sum_probs=25.5
Q ss_pred CeEEEEEEECCEEEEEEEeC-CCCceee--CHHHHHhcCCcccCCCcEEEE
Q 047037 24 ETMRIQGSIKGKSVVILIDS-GSTHNSI--NAEVAQRVNLSPNANNRLEIM 71 (85)
Q Consensus 24 ~~~~~~g~i~g~~v~~LiDS-Gat~~Fi--~~~~a~~l~l~~~~~~~~~V~ 71 (85)
+.+++.++|+|.+..-=+=. |.-..+| +..+=+.++ ......+.|.
T Consensus 31 g~v~V~~tI~g~~~~~sl~p~g~G~~~Lpv~~~vRk~~g--~~~Gd~V~v~ 79 (80)
T PF08922_consen 31 GRVPVRGTIDGHPWRTSLFPMGNGGYILPVKAAVRKAIG--KEAGDTVEVT 79 (80)
T ss_dssp S-EEEEEEETTEEEEEEEEESSTT-EEEEE-HHHHHHHT----TTSEEEEE
T ss_pred CceEEEEEECCEEEEEEEEECCCCCEEEEEcHHHHHHcC--CCCCCEEEEE
Confidence 89999999999986543333 5444444 444445555 4444555554
No 77
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=51.61 E-value=24 Score=26.11 Aligned_cols=47 Identities=17% Similarity=0.289 Sum_probs=41.2
Q ss_pred ECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 32 IKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 32 i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
-.+.+|.+|+|=-.-..|+ +.++++++.....+.++|++..|..-.|
T Consensus 172 kR~VpVYiLLD~~~~~~Fl--~Mc~~~~v~~~~~~nmrVRsv~G~~y~~ 218 (284)
T PF07894_consen 172 KRGVPVYILLDEQNLPHFL--EMCEKLGVNLQHLKNMRVRSVTGCTYYS 218 (284)
T ss_pred hcCCcEEEEechhcChHHH--HHHHHCCCChhhcCCeEEEEecCCeeec
Confidence 4577999999999999998 5899999999999999999999987655
No 78
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=50.85 E-value=20 Score=20.82 Aligned_cols=28 Identities=25% Similarity=0.528 Sum_probs=20.5
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEE
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSPNANNRLEI 70 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V 70 (85)
++++||+- ..+.|+|+|++.--...++|
T Consensus 36 ~~iIidpe------~SeIAkrlgi~~Pg~yAl~V 63 (64)
T COG2093 36 LLIIIDPE------KSEIAKRLGIKIPGKYALRV 63 (64)
T ss_pred EEEEEcCc------HHHHHHHhCCCCCceEEEEe
Confidence 56777776 45899999988765566655
No 79
>PF03419 Peptidase_U4: Sporulation factor SpoIIGA This family belongs to family U4 of the peptidase classification.; InterPro: IPR005081 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-). Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 asexual sporulation
Probab=50.41 E-value=20 Score=25.84 Aligned_cols=25 Identities=24% Similarity=0.276 Sum_probs=19.7
Q ss_pred cCCeEEEEEEECCEE--EEEEEeCCCC
Q 047037 22 VLETMRIQGSIKGKS--VVILIDSGST 46 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~--v~~LiDSGat 46 (85)
....+.++-.++|++ +..|+|||..
T Consensus 154 ~~~~~~v~i~~~~~~~~~~allDTGN~ 180 (293)
T PF03419_consen 154 KDYLYPVTIEIGGKKIELKALLDTGNQ 180 (293)
T ss_pred CcEEEEEEEEECCEEEEEEEEEECCCc
Confidence 346688888888887 7889999954
No 80
>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=50.38 E-value=24 Score=21.25 Aligned_cols=30 Identities=20% Similarity=0.293 Sum_probs=23.7
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++|+. ....+.|..+.|+.
T Consensus 35 ~~v~in~~dA~~lgi~--~Gd~V~v~~~~G~~ 64 (116)
T cd02790 35 EYVEINPEDAKRLGIE--DGEKVRVSSRRGSV 64 (116)
T ss_pred cEEEECHHHHHHcCCC--CCCEEEEEcCCEEE
Confidence 4579999999999964 44788888888753
No 81
>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=50.04 E-value=28 Score=20.74 Aligned_cols=29 Identities=17% Similarity=0.226 Sum_probs=23.1
Q ss_pred ceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 47 HNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 47 ~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
..+|+++.|+++|+.-- ..++|....|+.
T Consensus 30 ~v~inp~dA~~lGi~~G--d~V~v~s~~G~i 58 (96)
T cd02788 30 YARLSPADAARLGLADG--DLVEFSLGDGTL 58 (96)
T ss_pred EEEECHHHHHHcCCCCC--CEEEEEECCeEE
Confidence 46899999999997544 788888888764
No 82
>PLN03146 aspartyl protease family protein; Provisional
Probab=49.88 E-value=14 Score=28.25 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=15.6
Q ss_pred EEEEeCCCCceeeCHHHH
Q 047037 38 VILIDSGSTHNSINAEVA 55 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a 55 (85)
-++||||.|.+++.+..-
T Consensus 309 ~~iiDSGTt~t~Lp~~~y 326 (431)
T PLN03146 309 NIIIDSGTTLTLLPSDFY 326 (431)
T ss_pred cEEEeCCccceecCHHHH
Confidence 479999999999999853
No 83
>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=49.22 E-value=30 Score=21.07 Aligned_cols=30 Identities=13% Similarity=0.144 Sum_probs=23.3
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|++..|+++||.- ...++|....|+.
T Consensus 35 ~~v~i~p~dA~~lgi~~--Gd~V~v~s~~G~~ 64 (122)
T cd02792 35 MFVEISPELAAERGIKN--GDMVWVSSPRGKI 64 (122)
T ss_pred cEEEECHHHHHHcCCCC--CCEEEEEcCCceE
Confidence 34789999999999654 4788888887753
No 84
>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=48.85 E-value=57 Score=19.90 Aligned_cols=30 Identities=23% Similarity=0.329 Sum_probs=23.7
Q ss_pred CCceeeCHHHHHhcCCcccCCCcEEEEeCCCC
Q 047037 45 STHNSINAEVAQRVNLSPNANNRLEIMVAFGE 76 (85)
Q Consensus 45 at~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~ 76 (85)
....+|+++.|+++|+.-- ..+.|....|+
T Consensus 32 ~~~v~in~~dA~~lgi~~G--d~V~v~s~~G~ 61 (115)
T cd02779 32 LPYIEVNPEDAKREGLKNG--DLVEVYNDYGS 61 (115)
T ss_pred CCEEEECHHHHHHcCCCCC--CEEEEEeCCEE
Confidence 3457999999999996554 78888888874
No 85
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=48.55 E-value=29 Score=20.00 Aligned_cols=39 Identities=10% Similarity=0.063 Sum_probs=34.5
Q ss_pred EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccC
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNA 64 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~ 64 (85)
|++....+|+...+=|+..+|..-+-+.+.++.|+|.+.
T Consensus 1 ~~i~vk~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~ 39 (74)
T cd01813 1 VPVIVKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPER 39 (74)
T ss_pred CEEEEEECCEEEEEEECCCCCHHHHHHHHHHHHCCCHHH
Confidence 467788899999999999999999999999999988774
No 86
>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=48.20 E-value=30 Score=20.97 Aligned_cols=31 Identities=23% Similarity=0.402 Sum_probs=24.8
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
...+|+++.|+++|+.-- ..++|....|...
T Consensus 31 ~~v~i~p~dA~~lgI~dG--d~V~v~s~~G~i~ 61 (112)
T cd02787 31 DVVFMNPDDIARLGLKAG--DRVDLESAFGDGQ 61 (112)
T ss_pred cEEEECHHHHHHhCCCCC--CEEEEEecCCCCe
Confidence 347999999999996654 7888888888643
No 87
>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=48.15 E-value=33 Score=21.17 Aligned_cols=29 Identities=17% Similarity=0.139 Sum_probs=23.1
Q ss_pred ceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 47 HNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 47 ~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
..+|+++.|+++|+.- ...++|....|+.
T Consensus 33 ~v~i~p~dA~~~gi~~--Gd~V~v~s~~G~i 61 (124)
T cd02785 33 RVKINPIDAAARGIAH--GDLVEVYNDRGSV 61 (124)
T ss_pred eEEECHHHHHHcCCCC--CCEEEEEeCCCEE
Confidence 4699999999999754 4788888888754
No 88
>PRK12440 acetate kinase; Reviewed
Probab=48.15 E-value=11 Score=29.10 Aligned_cols=38 Identities=16% Similarity=0.286 Sum_probs=33.8
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEe
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSS 81 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~ 81 (85)
|-+|-|+.+++++.+|-+....+-+...++||-++...
T Consensus 180 GlS~~~v~~~~a~~lg~~~~~~~~Iv~HLG~G~Si~Ai 217 (397)
T PRK12440 180 GTSHYFVSREAAKMLNKPIEESSFISVHLGNGASVCAI 217 (397)
T ss_pred HHhHHHHHHHHHHHhCCChHHcCEEEEEeCCCcEeeee
Confidence 67899999999999998888889999999999888653
No 89
>KOG1339 consensus Aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=46.39 E-value=18 Score=27.12 Aligned_cols=32 Identities=19% Similarity=0.132 Sum_probs=23.7
Q ss_pred CeEEEEEEECC--EEEEEEEeCCCCceeeCHHHH
Q 047037 24 ETMRIQGSIKG--KSVVILIDSGSTHNSINAEVA 55 (85)
Q Consensus 24 ~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~~~a 55 (85)
+.|.+.-.|+- +.+.+++||||...+|+-.-.
T Consensus 45 ~~Y~~~i~IGTPpq~f~v~~DTGS~~lWV~c~~c 78 (398)
T KOG1339|consen 45 GEYYGNISIGTPPQSFTVVLDTGSDLLWVPCAPC 78 (398)
T ss_pred cccEEEEecCCCCeeeEEEEeCCCCceeeccccc
Confidence 45555555553 569999999999999988444
No 90
>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=46.27 E-value=37 Score=20.88 Aligned_cols=29 Identities=17% Similarity=0.127 Sum_probs=23.1
Q ss_pred ceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 47 HNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 47 ~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
..+|+++.|+++|+.-- ..++|....|+.
T Consensus 31 ~v~i~p~~A~~~gi~~G--d~V~v~s~~g~i 59 (121)
T cd02794 31 EVWINPLDAAARGIKDG--DRVLVFNDRGKV 59 (121)
T ss_pred CEEECHHHHHHcCCCCC--CEEEEEcCCceE
Confidence 36999999999996654 778888888754
No 91
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=45.87 E-value=17 Score=24.55 Aligned_cols=28 Identities=18% Similarity=0.399 Sum_probs=22.8
Q ss_pred cCCeEEEEEEECCEEEEEEEeCCCCceeeC
Q 047037 22 VLETMRIQGSIKGKSVVILIDSGSTHNSIN 51 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~ 51 (85)
-...++++|+++. .=.+|||-| |..||-
T Consensus 69 LTsSlYVPGkl~d-~~k~lVDIG-TGYyVE 96 (153)
T KOG3048|consen 69 LTSSLYVPGKLSD-NSKFLVDIG-TGYYVE 96 (153)
T ss_pred cccceeccceecc-ccceeEecc-CceEEe
Confidence 3467999999998 778999999 667764
No 92
>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=45.82 E-value=35 Score=21.09 Aligned_cols=30 Identities=17% Similarity=0.261 Sum_probs=23.3
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++||.-- ..++|....|+.
T Consensus 33 ~~v~inp~dA~~~gi~~G--d~V~v~s~~G~~ 62 (130)
T cd02781 33 PVAEINPETAAKLGIADG--DWVWVETPRGRA 62 (130)
T ss_pred CEEEECHHHHHHcCCCCC--CEEEEECCCCEE
Confidence 347999999999997543 777888877754
No 93
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=45.30 E-value=38 Score=19.65 Aligned_cols=30 Identities=17% Similarity=0.168 Sum_probs=22.6
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++|+.-- ..+.|....|..
T Consensus 23 ~~v~~~~~da~~lgl~~G--d~v~v~~~~g~~ 52 (101)
T cd02775 23 PVVEINPEDAAALGIKDG--DLVRVESRRGSV 52 (101)
T ss_pred CEEEECHHHHHHcCCCCC--CEEEEEcCCcEE
Confidence 356999999999997654 677777766653
No 94
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=44.99 E-value=66 Score=19.12 Aligned_cols=47 Identities=11% Similarity=0.224 Sum_probs=38.2
Q ss_pred EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCC
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAF 74 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~an 74 (85)
|+++...|+-.+.+-+.+..+..=+-.++++++++.-. .++.++--+
T Consensus 1 ~~vK~~~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~--~~f~LkY~D 47 (82)
T cd06407 1 VRVKATYGEEKIRFRLPPSWGFTELKQEIAKRFKLDDM--SAFDLKYLD 47 (82)
T ss_pred CEEEEEeCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC--CeeEEEEEC
Confidence 57888999999999999999999999999999997532 456555544
No 95
>cd02789 MopB_CT_FmdC-FwdD The MopB_FmdC-FwdD CD includes the C-terminus of subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC) and subunit D of tungsten formylmethanofuran dehydrogenase (FwdD), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea and some eubacteria. Members of this CD belong to the molybdopterin_binding superfamily of proteins. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=44.76 E-value=41 Score=20.51 Aligned_cols=31 Identities=19% Similarity=0.327 Sum_probs=24.4
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCC
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGE 76 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~ 76 (85)
+....+|+++.|+++|+.-- ..+.|....|+
T Consensus 29 ~~~~v~i~p~dA~~lgi~~G--d~V~v~~~~G~ 59 (106)
T cd02789 29 ACAYCEINPEDYKLLGKPEG--DKVKVTSEFGE 59 (106)
T ss_pred CCcEEEECHHHHHHcCCCCC--CEEEEEcCCEE
Confidence 45578999999999996655 67777777774
No 96
>TIGR02854 spore_II_GA sigma-E processing peptidase SpoIIGA. Members of this protein family are the stage II sporulation protein SpoIIGA. This protein acts as an activating protease for Sigma-E, one of several specialized sigma factors of the sporulation process in Bacillus subtilis and related endospore-forming bacteria.
Probab=44.61 E-value=45 Score=24.27 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=20.6
Q ss_pred cCCeEEEEEEECCEE--EEEEEeCCCC
Q 047037 22 VLETMRIQGSIKGKS--VVILIDSGST 46 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~--v~~LiDSGat 46 (85)
....+.+.-.++|+. +..|+|||..
T Consensus 155 ~~~~~~v~i~~~g~~~~~~alvDTGN~ 181 (288)
T TIGR02854 155 DKQIYELEICLDGKKVTIKGFLDTGNQ 181 (288)
T ss_pred hceEEEEEEEECCEEEEEEEEEecCCc
Confidence 457788888899987 6889999964
No 97
>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=43.84 E-value=38 Score=20.37 Aligned_cols=30 Identities=17% Similarity=0.225 Sum_probs=23.0
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++||.- ...+.|....|+.
T Consensus 35 ~~v~inp~dA~~lgi~~--Gd~V~v~~~~G~~ 64 (120)
T cd00508 35 PFVEIHPEDAARLGIKD--GDLVRVSSRRGSV 64 (120)
T ss_pred CEEEECHHHHHHcCCCC--CCEEEEEeCCEEE
Confidence 35799999999999654 3777887777753
No 98
>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=42.86 E-value=40 Score=20.39 Aligned_cols=30 Identities=10% Similarity=0.057 Sum_probs=23.4
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++||.-- ..++|....|+.
T Consensus 31 ~~v~i~p~dA~~lgi~~G--d~V~v~s~~G~~ 60 (116)
T cd02786 31 PTLLIHPADAAARGIADG--DLVVVFNDRGSV 60 (116)
T ss_pred CEEEECHHHHHHcCCCCC--CEEEEEcCCeEE
Confidence 357999999999997654 677777777754
No 99
>PF12812 PDZ_1: PDZ-like domain
Probab=42.30 E-value=63 Score=19.01 Aligned_cols=35 Identities=11% Similarity=0.185 Sum_probs=26.8
Q ss_pred EEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037 38 VILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG 75 (85)
+++--.||+..=|+.+.|+.+++++. -+-+..++|
T Consensus 6 r~v~~~Ga~f~~Ls~q~aR~~~~~~~---gv~v~~~~g 40 (78)
T PF12812_consen 6 RFVEVCGAVFHDLSYQQARQYGIPVG---GVYVAVSGG 40 (78)
T ss_pred EEEEEcCeecccCCHHHHHHhCCCCC---EEEEEecCC
Confidence 56777899999999999999998776 444444444
No 100
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 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 Escherichia coli 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 oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=41.93 E-value=7.7 Score=25.64 Aligned_cols=42 Identities=26% Similarity=0.368 Sum_probs=30.7
Q ss_pred EEEEeCCCCceeeCHHHHHhcCCcccC-----------CCcEEEEeCCCCEEE
Q 047037 38 VILIDSGSTHNSINAEVAQRVNLSPNA-----------NNRLEIMVAFGEKLM 79 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l~l~~~~-----------~~~~~V~~anG~~~~ 79 (85)
.+.+|+|+|...+-+.+..+.++.+.+ .+..+|.+.+|+.-.
T Consensus 22 ~Ifld~GtT~~~la~~L~~~~~ltVvTnsl~ia~~l~~~~~~~vi~~GG~~~~ 74 (161)
T PF00455_consen 22 TIFLDSGTTTLELAKYLPDKKNLTVVTNSLPIANELSENPNIEVILLGGEVNP 74 (161)
T ss_pred EEEEECchHHHHHHHHhhcCCceEEEECCHHHHHHHHhcCceEEEEeCCEEEc
Confidence 467899999999999999986665543 235677777775443
No 101
>PF03539 Spuma_A9PTase: Spumavirus aspartic protease (A9); InterPro: IPR001641 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A9 (spumapepsin family, clan AA). Foamy viruses are single-stranded enveloped retroviruses that have been noted to infect monkeys, cats and humans. In the human virus, the aspartic protease is encoded by the retroviral gag gene [], and in monkeys by the pol gene []. At present, the virus has not been proven to cause any particular disease. However, studies have shown Human foamy virus causes neurological disorders in infected mice []. It is not clear whether the Foamy virus/spumavirus proteases share a common evolutionary origin with other aspartic proteases. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 2JYS_A.
Probab=41.91 E-value=33 Score=23.35 Aligned_cols=42 Identities=26% Similarity=0.268 Sum_probs=25.0
Q ss_pred ECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 32 IKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 32 i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
|.|..+..--||||+.+.|++.+-..- .+.....+++-.|+.
T Consensus 1 ikg~~l~~~wDsga~ITCiP~~fl~~E----~Pi~~~~i~Tihg~~ 42 (163)
T PF03539_consen 1 IKGTKLKGHWDSGAQITCIPESFLEEE----QPIGKTLIKTIHGEK 42 (163)
T ss_dssp ETTEEEEEEE-TT-SSEEEEGGGTTT-------SEEEEEE-SS-EE
T ss_pred CCCceeeEEecCCCeEEEccHHHhCcc----ccccceEEEEecCce
Confidence 578889999999999999998875431 122344555555543
No 102
>KOG3101 consensus Esterase D [General function prediction only]
Probab=41.80 E-value=12 Score=27.37 Aligned_cols=25 Identities=28% Similarity=0.452 Sum_probs=20.3
Q ss_pred EECCEEEEEEEeCCCCceeeCHHHH
Q 047037 31 SIKGKSVVILIDSGSTHNSINAEVA 55 (85)
Q Consensus 31 ~i~g~~v~~LiDSGat~~Fi~~~~a 55 (85)
.+++....+|||-|+..+|+..+|-
T Consensus 210 ~y~~~~~~ilIdqG~~D~Fl~~qLl 234 (283)
T KOG3101|consen 210 NYRGVGDDILIDQGAADNFLAEQLL 234 (283)
T ss_pred hcCCCCccEEEecCccchhhhhhcC
Confidence 4566777899999999999986554
No 103
>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=41.37 E-value=42 Score=20.37 Aligned_cols=30 Identities=23% Similarity=0.264 Sum_probs=23.1
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++|+.-- ..+.|....|+.
T Consensus 35 ~~v~in~~dA~~lgi~~G--d~V~v~~~~G~~ 64 (122)
T cd02791 35 PYVEIHPEDAARLGLKEG--DLVRVTSRRGEV 64 (122)
T ss_pred CEEEECHHHHHHcCCCCC--CEEEEEcCCEEE
Confidence 347999999999997443 777777777754
No 104
>cd02784 MopB_CT_PHLH The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=40.59 E-value=89 Score=20.25 Aligned_cols=33 Identities=9% Similarity=0.061 Sum_probs=25.0
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEe
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSS 81 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~ 81 (85)
...+|+++.|+++||.- ...++|....|. +...
T Consensus 38 ~~v~InP~dA~~lGI~d--GD~V~V~s~~G~-i~~~ 70 (137)
T cd02784 38 NAALVSPRTAEALGLLQ--GDVVRIRRGGRT-IELP 70 (137)
T ss_pred ceEEECHHHHHHcCCCC--CCEEEEEeCCeE-EEEE
Confidence 34699999999999754 478888888884 4433
No 105
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.54 E-value=1e+02 Score=24.30 Aligned_cols=71 Identities=23% Similarity=0.244 Sum_probs=48.5
Q ss_pred cccCCceeEEEecccc----------------------CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhc-CCc
Q 047037 5 CENATPKISLHDVARD----------------------QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRV-NLS 61 (85)
Q Consensus 5 ~e~~~~~iSl~A~~g~----------------------~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l-~l~ 61 (85)
-.-..|.||+-+--|+ ..|-.+|.+-..-+..+.++||.|-|-+ =+.++.-|. ++-
T Consensus 147 ~qknnP~Is~~lndGt~~ydh~~DGasQ~LssCqrDFRNkPyPvRarItY~~nvLtv~innGmtp~-d~yE~C~rve~~~ 225 (497)
T KOG3838|consen 147 GQKNNPAISVLLNDGTIPYDHPGDGASQGLSSCQRDFRNKPYPVRARITYYGNVLTVMINNGMTPS-DDYEFCVRVENLL 225 (497)
T ss_pred CCcCCccEEEEecCCcccccCCCccHHHHHHHhhHHhccCCCCceEEEEEeccEEEEEEcCCCCCC-CCcceeEecccee
Confidence 3345799998766665 2234567777778999999999999988 677776655 333
Q ss_pred ccCCCcEEEEeCCCC
Q 047037 62 PNANNRLEIMVAFGE 76 (85)
Q Consensus 62 ~~~~~~~~V~~anG~ 76 (85)
+.+.--+-|..|-|.
T Consensus 226 lp~nGyFGvSAATGg 240 (497)
T KOG3838|consen 226 LPPNGYFGVSAATGG 240 (497)
T ss_pred ccCCCeeeeeecccc
Confidence 333455667666654
No 106
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=40.18 E-value=41 Score=18.95 Aligned_cols=45 Identities=16% Similarity=0.241 Sum_probs=34.8
Q ss_pred EECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEE-EeCCC
Q 047037 31 SIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEI-MVAFG 75 (85)
Q Consensus 31 ~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V-~~anG 75 (85)
..+|....+-||..+|.--+=..++++++|.-..-..+.+ ...+|
T Consensus 3 llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~ 48 (80)
T PF09379_consen 3 LLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDG 48 (80)
T ss_dssp ESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTS
T ss_pred CcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCC
Confidence 3577889999999999999999999999987544455565 33344
No 107
>TIGR00016 ackA acetate kinase. Acetate kinase is involved in the activation of acetate to acetyl CoA and in the secretion of acetate. It catalyzes the reaction ATP + acetate = ADP + acetyl phosphate. Some members of this family have been shown to act on propionate as well as acetate. An example of a propionate/acetate kinase is TdcD of E. coli, an enzyme of an anaerobic pathway of threonine catabolism. It is not known how many members of this family act on additional substrates besides acetate.
Probab=40.13 E-value=15 Score=28.35 Aligned_cols=37 Identities=16% Similarity=0.257 Sum_probs=32.9
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
|-+|-|+..++|+.+|-+....+-+...++||-++..
T Consensus 185 GlS~~~va~~~a~~lg~~~~~~~~Iv~HLG~G~Si~A 221 (404)
T TIGR00016 185 GTSHKYVTQRAAKILNKPLDDLNLIVCHLGNGASVCA 221 (404)
T ss_pred HHHHHHHHHHHHHHhCCChhHcCEEEEEeCCCceeee
Confidence 5689999999999999888888999999999988765
No 108
>cd02780 MopB_CT_Tetrathionate_Arsenate-R This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins.
Probab=40.12 E-value=53 Score=20.88 Aligned_cols=30 Identities=20% Similarity=0.304 Sum_probs=24.0
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++|+.-- ..+.|...+|+.
T Consensus 30 ~~v~inp~dA~~lgI~~G--d~V~v~s~~G~i 59 (143)
T cd02780 30 NPVWINPEDAAKLGIKTG--DRVRVVTPGGSV 59 (143)
T ss_pred CEEEECHHHHHHcCCCCC--CEEEEEeCCceE
Confidence 457999999999997544 788888888854
No 109
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=39.82 E-value=86 Score=23.10 Aligned_cols=54 Identities=22% Similarity=0.301 Sum_probs=39.6
Q ss_pred cCCeEEEEEEECCEEEEEEEe-----CCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037 22 VLETMRIQGSIKGKSVVILID-----SGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiD-----SGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG 75 (85)
..+.+...|+|+|+++.+... .||-.....+++++-..+-....-|+..-++.|
T Consensus 108 ~d~vVtG~g~I~G~~V~v~a~D~~f~gGS~g~~~~eKi~r~~e~A~~~~lPlV~l~dsg 166 (292)
T PRK05654 108 KDAVVTGKGTIEGMPVVLAVMDFSFMGGSMGSVVGEKIVRAVERAIEEKCPLVIFSASG 166 (292)
T ss_pred CCcEEEEEEEECCEEEEEEEEecccccCCccHHHHHHHHHHHHHHHHcCCCEEEEEcCC
Confidence 467888899999999998887 788888888887776666555555554444433
No 110
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=38.38 E-value=48 Score=20.55 Aligned_cols=30 Identities=13% Similarity=0.049 Sum_probs=23.0
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++|+.-- ..++|....|..
T Consensus 34 ~~v~i~p~dA~~lgi~~G--d~V~v~s~~g~i 63 (127)
T cd02777 34 EPVWINPLDAAARGIKDG--DIVRVFNDRGAV 63 (127)
T ss_pred CeEEECHHHHHHcCCCCC--CEEEEEcCCeEE
Confidence 347999999999997644 677777777743
No 111
>PRK12379 propionate/acetate kinase; Provisional
Probab=37.86 E-value=13 Score=28.64 Aligned_cols=37 Identities=14% Similarity=0.297 Sum_probs=32.3
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
|-+|-|+.+++|+.+|-+....+-+...++||-++..
T Consensus 176 GlS~~~va~~~a~~lg~~~~~~~lIv~HLG~G~Si~A 212 (396)
T PRK12379 176 GTSHRYVSQRAHSLLNLDEDDSGLVVAHLGNGASICA 212 (396)
T ss_pred HHHHHHHHHHHHHHhCCChhHCCEEEEEeCCCcchhe
Confidence 5688999999999999888888999999999987754
No 112
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=37.57 E-value=1e+02 Score=22.70 Aligned_cols=54 Identities=19% Similarity=0.258 Sum_probs=40.5
Q ss_pred cCCeEEEEEEECCEEEEEEEe-----CCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037 22 VLETMRIQGSIKGKSVVILID-----SGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiD-----SGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG 75 (85)
..+.+...|+|+|+++.+... -||-.....+++++-..+-....-|+..-++.|
T Consensus 107 ~d~vVtG~g~I~G~~V~v~a~D~~f~gGSmg~~~geKi~r~~e~A~~~~lPlV~l~dSg 165 (285)
T TIGR00515 107 KDAVVTGKGTLYGMPIVVAVFDFAFMGGSMGSVVGEKFVRAIEKALEDNCPLIIFSASG 165 (285)
T ss_pred CCcEEEEEEEECCEEEEEEEEeccccCCCccHHHHHHHHHHHHHHHHcCCCEEEEEcCC
Confidence 458889999999999999888 588888888887776666666555655555443
No 113
>PF02645 DegV: Uncharacterised protein, DegV family COG1307; InterPro: IPR003797 This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each other than to most homologs from other species. This suggests both recent paralogy and diversity of function.; PDB: 2DT8_A 3LUP_A 3NYI_B 3PL5_A 1PZX_B 1MGP_A 1VPV_B 3FYS_A 3EGL_C 3JR7_A ....
Probab=37.40 E-value=36 Score=24.29 Aligned_cols=32 Identities=25% Similarity=0.353 Sum_probs=22.6
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCC
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAF 74 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~an 74 (85)
+-+++||++. |++++++++++.+. |+.|...+
T Consensus 2 i~IitDS~~d---l~~~~~~~~~i~vv---Pl~i~~~~ 33 (280)
T PF02645_consen 2 IAIITDSTSD---LPPELAEEYGIYVV---PLNIIIDG 33 (280)
T ss_dssp EEEEEEGGG------HHHHHHTTEEEE-----EEEETT
T ss_pred EEEEECCCCC---CCHHHHHhCCeEEE---eEEEecCC
Confidence 5688999976 68999999998888 77777654
No 114
>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=37.33 E-value=59 Score=20.10 Aligned_cols=31 Identities=16% Similarity=0.254 Sum_probs=23.8
Q ss_pred CCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 45 STHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 45 at~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
....+|+++.|+++||.- ...++|....|+.
T Consensus 32 ~~~v~i~p~dA~~~gi~~--Gd~V~v~s~~g~~ 62 (129)
T cd02782 32 RCTLRIHPDDAAALGLAD--GDKVRVTSAAGSV 62 (129)
T ss_pred CceEEECHHHHHHcCCCC--CCEEEEEcCCCeE
Confidence 345799999999999754 3777888777754
No 115
>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=36.95 E-value=36 Score=19.76 Aligned_cols=21 Identities=19% Similarity=0.314 Sum_probs=18.3
Q ss_pred CCCCceeeCHHHHHhcCCccc
Q 047037 43 SGSTHNSINAEVAQRVNLSPN 63 (85)
Q Consensus 43 SGat~~Fi~~~~a~~l~l~~~ 63 (85)
.|....|++..+.+|++|..-
T Consensus 24 ~~~~DvyVs~~~Irr~~LR~G 44 (68)
T cd04459 24 PGPDDIYVSPSQIRRFNLRTG 44 (68)
T ss_pred CCCCCEEECHHHHHHhCCCCC
Confidence 588899999999999997654
No 116
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=36.56 E-value=60 Score=17.74 Aligned_cols=37 Identities=22% Similarity=0.292 Sum_probs=30.8
Q ss_pred EEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCccc
Q 047037 27 RIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN 63 (85)
Q Consensus 27 ~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~ 63 (85)
++..+-+|+...+=++..+|..-+-.+++++.|++.+
T Consensus 2 ~i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~ 38 (71)
T cd01812 2 RVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPR 38 (71)
T ss_pred EEEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChH
Confidence 4556667888888899999999999999999998775
No 117
>PF04083 Abhydro_lipase: Partial alpha/beta-hydrolase lipase region; InterPro: IPR006693 The alpha/beta hydrolase fold is common to several hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is similar: an alpha/beta sheet, not barrel, of eight beta-sheets connected by alpha-helices []. This entry represents the N-terminal part of an alpha/beta hydrolase domain found in a number of lipases.; GO: 0006629 lipid metabolic process; PDB: 1K8Q_B 1HLG_B.
Probab=35.85 E-value=50 Score=18.68 Aligned_cols=26 Identities=15% Similarity=0.119 Sum_probs=17.7
Q ss_pred HHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 52 AEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 52 ~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
.+++++.|.+.+ ...|.+.||-.+.-
T Consensus 2 ~~~i~~~GY~~E---~h~V~T~DGYiL~l 27 (63)
T PF04083_consen 2 PELIEKHGYPCE---EHEVTTEDGYILTL 27 (63)
T ss_dssp HHHHHHTT---E---EEEEE-TTSEEEEE
T ss_pred HHHHHHcCCCcE---EEEEEeCCCcEEEE
Confidence 467889998888 78999999977754
No 118
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=35.66 E-value=57 Score=17.24 Aligned_cols=24 Identities=21% Similarity=0.328 Sum_probs=18.8
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCc
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLS 61 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~ 61 (85)
-++++| |....++++.+.+-+|.+
T Consensus 13 ~i~i~d-~~~i~~~N~~~~~l~g~~ 36 (64)
T PF13188_consen 13 GILIID-GGRIIYVNPAFEELFGYS 36 (64)
T ss_dssp EEEEEE-TSBEEEE-HHHHHHHCS-
T ss_pred ceEEEE-CCChHHhhHHHHHHhCCC
Confidence 356689 778999999999999976
No 119
>PF05618 Zn_protease: Putative ATP-dependant zinc protease; InterPro: IPR008503 This family consists of several hypothetical proteins from different archaeal and bacterial species.; PDB: 2PMA_B.
Probab=35.33 E-value=39 Score=22.11 Aligned_cols=22 Identities=23% Similarity=0.350 Sum_probs=14.3
Q ss_pred EEEEEEEeCCCCceeeCHHHHH
Q 047037 35 KSVVILIDSGSTHNSINAEVAQ 56 (85)
Q Consensus 35 ~~v~~LiDSGat~~Fi~~~~a~ 56 (85)
..+.+=|||||..+-|+..-.+
T Consensus 15 ~~~~aKiDTGA~tSSLhA~~I~ 36 (138)
T PF05618_consen 15 LTIKAKIDTGAKTSSLHATDIE 36 (138)
T ss_dssp EEEEEEE-TT-SSEEEE-EEEE
T ss_pred CEEEEEEcCCCcccceeecceE
Confidence 3466677999999999876555
No 120
>PF04748 Polysacc_deac_2: Divergent polysaccharide deacetylase; InterPro: IPR006837 This is a family of uncharacterised proteins that includes YibQ.; PDB: 2QV5_A 2NLY_A.
Probab=35.02 E-value=24 Score=24.59 Aligned_cols=27 Identities=22% Similarity=0.439 Sum_probs=17.8
Q ss_pred EEEEeCCCCceeeCHHHHHhcCCcccC
Q 047037 38 VILIDSGSTHNSINAEVAQRVNLSPNA 64 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l~l~~~~ 64 (85)
++.|||..+-.-+-.+.|+++|+|.-.
T Consensus 120 l~FvDS~T~~~s~a~~~A~~~gvp~~~ 146 (213)
T PF04748_consen 120 LFFVDSRTTPRSVAPQVAKELGVPAAR 146 (213)
T ss_dssp -EEEE-S--TT-SHHHHHHHCT--EEE
T ss_pred CEEEeCCCCcccHHHHHHHHcCCCEEe
Confidence 578899999999999999999998654
No 121
>PRK04923 ribose-phosphate pyrophosphokinase; Provisional
Probab=34.80 E-value=40 Score=25.03 Aligned_cols=38 Identities=16% Similarity=0.278 Sum_probs=29.7
Q ss_pred EEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 39 ILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 39 ~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
++|=+|+++-.+.+++|++||+++. ..-.-+-+||+..
T Consensus 7 ~~i~~g~~~~~La~~ia~~lg~~l~--~~~~~~FpdGE~~ 44 (319)
T PRK04923 7 LLVFSGNANKPLAQSICKELGVRMG--KALVTRFSDGEVQ 44 (319)
T ss_pred eEEEECCCCHHHHHHHHHHhCCcee--eeEEEECCCCCEE
Confidence 3556889999999999999998877 5556667788753
No 122
>PRK12397 propionate kinase; Reviewed
Probab=34.72 E-value=15 Score=28.48 Aligned_cols=37 Identities=14% Similarity=0.298 Sum_probs=32.5
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
|-+|-|+.+++|+.+|-+....+-+...++||-++..
T Consensus 180 GlS~~yva~~~a~~lg~~~~~~~lIv~HLG~GaSi~A 216 (404)
T PRK12397 180 GTSHKYVSGVLAEKLGVPLSALRVICCHLGNGSSICA 216 (404)
T ss_pred HHHHHHHHHHHHHHhCCChhHCCEEEEEeCCCcchhe
Confidence 6689999999999999888888999999999987754
No 123
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=34.64 E-value=58 Score=20.35 Aligned_cols=31 Identities=13% Similarity=0.101 Sum_probs=23.9
Q ss_pred CCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 45 STHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 45 at~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
-...+|+++.|+++|+.-- ..++|....|+.
T Consensus 32 ~~~v~i~p~dA~~~gi~~G--d~V~v~s~~G~~ 62 (129)
T cd02793 32 REPIRINPADAAARGIADG--DIVRVFNDRGAC 62 (129)
T ss_pred CCEEEECHHHHHHcCCCCC--CEEEEEcCCEEE
Confidence 3457999999999996654 677787777754
No 124
>KOG1339 consensus Aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=34.60 E-value=34 Score=25.64 Aligned_cols=21 Identities=19% Similarity=0.213 Sum_probs=17.2
Q ss_pred EEEEEeCCCCceeeCHHHHHh
Q 047037 37 VVILIDSGSTHNSINAEVAQR 57 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~ 57 (85)
.-+++|||.+..+++.+..+.
T Consensus 269 ~~~iiDSGTs~t~lp~~~y~~ 289 (398)
T KOG1339|consen 269 GGAIIDSGTSLTYLPTSAYNA 289 (398)
T ss_pred CCEEEECCcceeeccHHHHHH
Confidence 457999999999999887443
No 125
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=34.59 E-value=1.1e+02 Score=22.71 Aligned_cols=54 Identities=19% Similarity=0.246 Sum_probs=40.7
Q ss_pred cCCeEEEEEEECCEEEEEEEe-----CCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037 22 VLETMRIQGSIKGKSVVILID-----SGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75 (85)
Q Consensus 22 ~~~~~~~~g~i~g~~v~~LiD-----SGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG 75 (85)
..+.+...|+|+|+++.+..+ -||-....-+++++-..+-++..-|+..-++.|
T Consensus 120 ~dgVVtG~G~I~Gr~v~v~a~Dftf~gGSmG~v~geKi~ra~e~A~~~rlPlV~l~~SG 178 (296)
T CHL00174 120 TDAVQTGIGQLNGIPVALGVMDFQFMGGSMGSVVGEKITRLIEYATNESLPLIIVCASG 178 (296)
T ss_pred CccEEEEEEEECCEEEEEEEECCcccccCcCHHHHHHHHHHHHHHHHcCCCEEEEECCC
Confidence 457888899999999888776 588888888888877776666665665555543
No 126
>PRK00934 ribose-phosphate pyrophosphokinase; Provisional
Probab=34.27 E-value=30 Score=25.08 Aligned_cols=33 Identities=24% Similarity=0.151 Sum_probs=25.9
Q ss_pred CCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 43 SGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 43 SGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
+|+++-.+..++|++||+++. ..-.-+-+||+.
T Consensus 4 ~~~~~~~la~~ia~~l~~~~~--~~~~~~FpdGE~ 36 (285)
T PRK00934 4 GGSASQLLASEVARLLNTELA--LVETKRFPDGEL 36 (285)
T ss_pred eCCCCHHHHHHHHHHHCCceE--eeEEEECCCCCE
Confidence 488888999999999998877 455556677764
No 127
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=33.73 E-value=51 Score=18.88 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=19.8
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEE
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSPNANNRLEI 70 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V 70 (85)
+++++|.= ...+|+++|+...-...++|
T Consensus 33 ~viI~dPe------~S~IAk~l~i~~pG~YAlkV 60 (61)
T PRK08351 33 LVIIIDVE------NSRIAKKLGAKVPGKYAIRV 60 (61)
T ss_pred EEEEeCCc------HhHHHHHhCCCCCCeEEEEe
Confidence 56677776 34899999986665566655
No 128
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=33.42 E-value=43 Score=20.78 Aligned_cols=28 Identities=11% Similarity=0.238 Sum_probs=21.9
Q ss_pred EEEEEEeCCCCceeeCHHHHHh---cCCccc
Q 047037 36 SVVILIDSGSTHNSINAEVAQR---VNLSPN 63 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~---l~l~~~ 63 (85)
+=.++|-||.++-|+++++.+. .|+.++
T Consensus 53 peiliiGTG~~~~~~~~~~~~~l~~~gI~vE 83 (109)
T cd00248 53 PDILLIGTGAEIAFLPRALRAALRAAGIGVE 83 (109)
T ss_pred CCEEEEcCCCCCCcCCHHHHHHHHHcCCeEE
Confidence 4578999999999999999854 455544
No 129
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=32.42 E-value=45 Score=18.20 Aligned_cols=32 Identities=19% Similarity=0.502 Sum_probs=29.2
Q ss_pred ECCEEEEEEEeCCCCceeeCHHHHHhcCCccc
Q 047037 32 IKGKSVVILIDSGSTHNSINAEVAQRVNLSPN 63 (85)
Q Consensus 32 i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~ 63 (85)
++|+.+.+=|+.-.|..-+-..++++.++|..
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~ 34 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPE 34 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGG
T ss_pred CCCcEEEEEECCCCCHHHhhhhcccccccccc
Confidence 57889999999999999999999999998776
No 130
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=30.57 E-value=1.1e+02 Score=17.28 Aligned_cols=51 Identities=14% Similarity=0.294 Sum_probs=39.0
Q ss_pred eEEEEEEECCEEEE-EEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEe--CCCCEE
Q 047037 25 TMRIQGSIKGKSVV-ILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMV--AFGEKL 78 (85)
Q Consensus 25 ~~~~~g~i~g~~v~-~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~--anG~~~ 78 (85)
|++++...++.... +-+..+.+..-+-..++++++++ ...+.++- .+|..+
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~---~~~~~l~Y~D~dgD~V 54 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL---DEDFQLKYKDEDGDLV 54 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS---TSSEEEEEEETTSSEE
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC---CccEEEEeeCCCCCEE
Confidence 57888899998888 88889999999999999999987 23444443 345444
No 131
>PRK00180 acetate kinase A/propionate kinase 2; Reviewed
Probab=30.49 E-value=28 Score=26.89 Aligned_cols=37 Identities=14% Similarity=0.248 Sum_probs=31.5
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
|-+|-||..++++.+|-+....+-+...++||.++..
T Consensus 181 gLS~~~va~~~a~~lg~~~~~~~lIvaHLG~GaSi~A 217 (402)
T PRK00180 181 GTSHRYVSQRAAELLGKPLEELNLITCHLGNGASIAA 217 (402)
T ss_pred HHHHHHHHHHHHHHhCCChhHcCEEEEEeCCCceeee
Confidence 5578899999999999888877889999999988764
No 132
>cd02783 MopB_CT_2 The MopB_CT_2 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=30.17 E-value=83 Score=20.52 Aligned_cols=30 Identities=7% Similarity=0.094 Sum_probs=23.7
Q ss_pred CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 46 THNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 46 t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
...+|+++.|+++||.-- ..+.|....|..
T Consensus 32 ~~v~inp~dA~~~GI~dG--d~V~v~s~~G~~ 61 (156)
T cd02783 32 NYLYMHPKTAKELGIKDG--DWVWVESVNGRV 61 (156)
T ss_pred CEEEECHHHHHHcCCCCC--CEEEEEcCCeeE
Confidence 346899999999996554 788888888754
No 133
>PF07285 DUF1444: Protein of unknown function (DUF1444); InterPro: IPR010838 This family contains several hypothetical bacterial proteins of unknown function that are approximately 250 residues long.
Probab=29.97 E-value=78 Score=22.79 Aligned_cols=39 Identities=10% Similarity=0.168 Sum_probs=32.9
Q ss_pred eEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCccc
Q 047037 25 TMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN 63 (85)
Q Consensus 25 ~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~ 63 (85)
.+...-......+...+|.|-+.-||+.+.-+++|+..+
T Consensus 105 ~~v~~~~~~dl~I~ya~D~~~s~r~i~~~~L~~~g~t~e 143 (265)
T PF07285_consen 105 PLVYRPHTADLRIYYALDLGESYRFIDEKMLEEWGLTEE 143 (265)
T ss_pred CcccccCCCCeEEEEEEECCCeeEecCHHHHhHcCCCHH
Confidence 455555667788999999999999999999999998865
No 134
>COG3865 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.69 E-value=1.4e+02 Score=20.15 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=21.3
Q ss_pred CeEEEEEEECCEEEEEEEeCCCCcee
Q 047037 24 ETMRIQGSIKGKSVVILIDSGSTHNS 49 (85)
Q Consensus 24 ~~~~~~g~i~g~~v~~LiDSGat~~F 49 (85)
..+.+..+++|+++..| |+|..++|
T Consensus 49 ~Vl~a~F~l~g~~f~~l-d~g~~~~f 73 (151)
T COG3865 49 KVLVAEFTLNGQSFMAL-DGGPNTSF 73 (151)
T ss_pred cEEEEEEEECCeEEEEE-cCCCCcCC
Confidence 56888999999998876 99988766
No 135
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=29.14 E-value=15 Score=25.99 Aligned_cols=40 Identities=15% Similarity=0.251 Sum_probs=25.7
Q ss_pred EEEEeCCCCceeeCHHHHHhcCCcccC-----------CCcEEEEeCCCCE
Q 047037 38 VILIDSGSTHNSINAEVAQRVNLSPNA-----------NNRLEIMVAFGEK 77 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l~l~~~~-----------~~~~~V~~anG~~ 77 (85)
.+.+|+|+|..++.+.+....++.+.+ .+.+.|.+.+|..
T Consensus 95 tIflD~GtT~~~la~~L~~~~~ltvvTnsl~i~~~l~~~~~~~villGG~~ 145 (252)
T PRK10681 95 TLFFDCGTTTPWIIEAIDNELPFTAVCYSLNTFLALQEKPHCRAILCGGEF 145 (252)
T ss_pred EEEEECCccHHHHHHhcCCCCCeEEEECCHHHHHHHhhCCCCEEEEECcEE
Confidence 467899999988888776543333332 2345666666654
No 136
>PRK02812 ribose-phosphate pyrophosphokinase; Provisional
Probab=29.08 E-value=57 Score=24.34 Aligned_cols=37 Identities=24% Similarity=0.264 Sum_probs=28.4
Q ss_pred EEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 40 LIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 40 LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
+|=+|+++..+..++|++||+++.. .-.-+-+||+..
T Consensus 23 ~i~~g~~~~~la~~ia~~lg~~l~~--~~~~~FpDGE~~ 59 (330)
T PRK02812 23 RLFSGSSNPALAQEVARYLGMDLGP--MIRKRFADGELY 59 (330)
T ss_pred EEEECCCCHHHHHHHHHHhCCCcee--eEEEECCCCCEE
Confidence 3446999999999999999988763 445567788643
No 137
>cd02511 Beta4Glucosyltransferase UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide. UDP-glucose: lipooligosaccharide (LOS) beta-1-4-glucosyltransferase catalyzes the addition of the first residue, glucose, of the lacto-N-neotetrase structure to HepI of the LOS inner core. LOS is the major constituent of the outer leaflet of the outer membrane of gram-positive bacteria. It consists of a short oligosaccharide chain of variable composition (alpha chain) attached to a branched inner core which is lined in turn to lipid A. Beta 1,4 glucosyltransferase is required to attach the alpha chain to the inner core.
Probab=29.07 E-value=56 Score=22.05 Aligned_cols=24 Identities=33% Similarity=0.515 Sum_probs=16.5
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcc
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSP 62 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~ 62 (85)
-+++||+|||.. ..+++++.+..+
T Consensus 28 eiivvD~gStD~--t~~i~~~~~~~v 51 (229)
T cd02511 28 EIIVVDSGSTDR--TVEIAKEYGAKV 51 (229)
T ss_pred EEEEEeCCCCcc--HHHHHHHcCCEE
Confidence 367899999976 356676665443
No 138
>PRK07199 phosphoribosylpyrophosphate synthetase; Provisional
Probab=28.94 E-value=49 Score=24.28 Aligned_cols=37 Identities=11% Similarity=0.026 Sum_probs=28.5
Q ss_pred EEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 40 LIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 40 LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
+|=+|+.+..+..++|++||+++. ..-.-+-+||+..
T Consensus 4 ~i~~~~~~~~la~~ia~~lg~~~~--~~~~~~F~dGE~~ 40 (301)
T PRK07199 4 LLLALPGNEAAAGRLAAALGVEVG--RIELHRFPDGESY 40 (301)
T ss_pred EEEECCCCHHHHHHHHHHhCCcee--eeEEEECCCCCEE
Confidence 455788889999999999998876 4555566777654
No 139
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=28.62 E-value=1.1e+02 Score=17.02 Aligned_cols=36 Identities=11% Similarity=0.290 Sum_probs=29.9
Q ss_pred EEEEEECCEEEEEEEe-CCCCceeeCHHHHHhcCCcc
Q 047037 27 RIQGSIKGKSVVILID-SGSTHNSINAEVAQRVNLSP 62 (85)
Q Consensus 27 ~~~g~i~g~~v~~LiD-SGat~~Fi~~~~a~~l~l~~ 62 (85)
+++...+|....+.+. .+.|..=+-..++++++++.
T Consensus 2 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~ 38 (81)
T cd05992 2 RVKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLDA 38 (81)
T ss_pred cEEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCCCC
Confidence 4566677777788888 99999999999999999875
No 140
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=28.38 E-value=1.1e+02 Score=22.78 Aligned_cols=54 Identities=20% Similarity=0.306 Sum_probs=42.3
Q ss_pred CCeEEEEEEECCEEEE-EEEeC----CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCC
Q 047037 23 LETMRIQGSIKGKSVV-ILIDS----GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGE 76 (85)
Q Consensus 23 ~~~~~~~g~i~g~~v~-~LiDS----Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~ 76 (85)
...+...|.|+|.++. +..|. ||-.+.+.+++++.+..-++..-|+.+-.|.|.
T Consensus 110 davvtg~g~i~G~pvv~av~df~FmgGSmGsVvGeki~ra~E~A~e~k~P~v~f~aSGG 168 (294)
T COG0777 110 DAVVTGEGTINGLPVVLAVMDFAFMGGSMGSVVGEKITRAIERAIEDKLPLVLFSASGG 168 (294)
T ss_pred cceEEEeeEECCeEEEEEEEeccccccchhHHHHHHHHHHHHHHHHhCCCEEEEecCcc
Confidence 4678889999999954 55564 788888889999888878888777777777663
No 141
>cd01398 RPI_A RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the conversion of phosphosugars into glycolysis intermediates, which are precursors for the synthesis of amino acids, vitamins, nucleotides, and cell wall components. In plants, RPI is part of the Calvin cycle as ribulose 5-phosphate is the carbon dioxide receptor in the first dark reaction of photosynthesis. There are two unrelated types of RPIs (A and B), which catalyze the same reaction, at least one type of RPI is present in an organism. RPI_A is more widely distributed than RPI_B in bacteria, eukaryotes, and archaea.
Probab=27.92 E-value=18 Score=25.18 Aligned_cols=22 Identities=32% Similarity=0.401 Sum_probs=18.3
Q ss_pred EEEEEeCCCCceeeCHHHHHhc
Q 047037 37 VVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l 58 (85)
..+.+|||+|..++-+.++++.
T Consensus 17 ~~I~ldsGST~~~l~~~L~~~~ 38 (213)
T cd01398 17 MVIGLGTGSTVAYFIEALGERV 38 (213)
T ss_pred CEEEECchHHHHHHHHHHHHhh
Confidence 3577899999999999998764
No 142
>PRK12608 transcription termination factor Rho; Provisional
Probab=27.81 E-value=58 Score=25.04 Aligned_cols=26 Identities=23% Similarity=0.413 Sum_probs=20.0
Q ss_pred EEEEEeCCCC---------------ceeeCHHHHHhcCCcc
Q 047037 37 VVILIDSGST---------------HNSINAEVAQRVNLSP 62 (85)
Q Consensus 37 v~~LiDSGat---------------~~Fi~~~~a~~l~l~~ 62 (85)
..+|||||+- |..+|+++|++--.|-
T Consensus 279 ~TvLvetg~~mdd~I~ee~kg~~dg~ivLsR~lA~~~~fPA 319 (380)
T PRK12608 279 ATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKRVFPA 319 (380)
T ss_pred EEEEEecCCCCCcchHHHhcccCCCeEEECHHHHhCCCCCc
Confidence 4579998876 6899999998765543
No 143
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=27.43 E-value=66 Score=20.00 Aligned_cols=23 Identities=17% Similarity=0.258 Sum_probs=19.3
Q ss_pred EEEEEEeCCCCceeeCHHHHHhc
Q 047037 36 SVVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l 58 (85)
+=.++|=||.++.|+++++.+.+
T Consensus 53 peiliiGTG~~~~~~~~~~~~~l 75 (109)
T cd05560 53 PEVILLGTGERQRFPPPALLAPL 75 (109)
T ss_pred CCEEEEecCCCCCcCCHHHHHHH
Confidence 34789999999999999987654
No 144
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=26.96 E-value=1e+02 Score=20.13 Aligned_cols=43 Identities=14% Similarity=0.215 Sum_probs=32.7
Q ss_pred EEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEe
Q 047037 30 GSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMV 72 (85)
Q Consensus 30 g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~ 72 (85)
...+|....+-||+-.|.--|-..+|+++|++......+....
T Consensus 9 ~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~ 51 (207)
T smart00295 9 YLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFED 51 (207)
T ss_pred EecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEc
Confidence 3456778899999999999999999999999554334444433
No 145
>PRK00702 ribose-5-phosphate isomerase A; Provisional
Probab=26.86 E-value=23 Score=24.95 Aligned_cols=21 Identities=24% Similarity=0.390 Sum_probs=17.5
Q ss_pred EEEEeCCCCceeeCHHHHHhc
Q 047037 38 VILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l 58 (85)
.+.+|||+|..++-+.++++.
T Consensus 23 ~IgLgsGST~~~l~~~L~~~~ 43 (220)
T PRK00702 23 IVGLGTGSTAAYFIDALGERV 43 (220)
T ss_pred EEEECCcHHHHHHHHHHHhhh
Confidence 468899999999888888754
No 146
>COG3188 FimD P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.55 E-value=2.1e+02 Score=24.28 Aligned_cols=55 Identities=20% Similarity=0.361 Sum_probs=39.6
Q ss_pred ceeEEEeccccCcCCeEEEEEEECCEEEE---EEE----eCCCCceeeCHHHHHhcCCcccC
Q 047037 10 PKISLHDVARDQVLETMRIQGSIKGKSVV---ILI----DSGSTHNSINAEVAQRVNLSPNA 64 (85)
Q Consensus 10 ~~iSl~A~~g~~~~~~~~~~g~i~g~~v~---~Li----DSGat~~Fi~~~~a~~l~l~~~~ 64 (85)
+.+|...-.+...|+.+++...||++.+- +.+ +.++..-++++++-+++|++.+.
T Consensus 46 ~dls~f~~~~~~~pG~Y~vdv~vN~~~~~~~~~~f~~~~~~~~~~~Cls~~~L~~~Gv~~~~ 107 (835)
T COG3188 46 PDLSRFESGNYVLPGTYRVDVYVNGQKVGSQDVIFKAAKGEGSLVPCLTPELLKQLGLKTDA 107 (835)
T ss_pred cChhhhccCCCCCCceEEEEEEECCEEccceeEEEEccCCccCccEECCHHHHHHcCCCccc
Confidence 44444333334568999999999998742 233 24589999999999999988444
No 147
>cd02776 MopB_CT_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. This CD (MopB_CT_Nitrate-R-NarG-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=26.36 E-value=1.1e+02 Score=19.79 Aligned_cols=32 Identities=16% Similarity=0.196 Sum_probs=23.9
Q ss_pred CCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 45 STHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 45 at~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
....+|+++.|+++|+.-- ..++|....|+..
T Consensus 30 ~~~v~inp~dA~~lgI~dG--d~V~v~~~~G~v~ 61 (141)
T cd02776 30 GPVVWMNPKDAAELGIKDN--DWVEVFNDNGVVV 61 (141)
T ss_pred CCEEEECHHHHHHcCCCCC--CEEEEEeCCeEEE
Confidence 3457899999999996654 6777777777543
No 148
>PF00871 Acetate_kinase: Acetokinase family; InterPro: IPR000890 Acetate kinase, which is predominantly found in micro-organisms, facilitates the production of acetyl-CoA by phosphorylating acetate in the presence of ATP and a divalent cation [, ]. The enzyme is important in the process of glycolysis, enzyme levels being increased in the presence of excess glucose. The growth of a bacterial mutant lacking acetate kinase has been shown to be inhibited by glucose, suggesting that the enzyme is involved in excretion of excess carbohydrate []. A related enzyme, butyrate kinase, facilitates the formation of butyryl-CoA by phosphorylating butyrate in the presence of ATP to form butyryl phosphate [].; GO: 0016301 kinase activity, 0016774 phosphotransferase activity, carboxyl group as acceptor, 0008152 metabolic process, 0016310 phosphorylation, 0005622 intracellular; PDB: 3P4I_B 3R9P_B 2IIR_J 1SAZ_A 1X9J_D 4DQ8_B 1TUU_A 1TUY_B 1G99_A 1X3N_A ....
Probab=26.21 E-value=26 Score=26.78 Aligned_cols=36 Identities=8% Similarity=0.038 Sum_probs=30.1
Q ss_pred CCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 45 STHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 45 at~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
-+|-||.+++|+.+|-+....+-+...++||.++..
T Consensus 179 LS~~~va~~~a~~lgk~~~~~~lIvaHLG~G~Sv~A 214 (388)
T PF00871_consen 179 LSYRYVARRAAELLGKDYEDLNLIVAHLGSGASVCA 214 (388)
T ss_dssp HHHHHHHHHHHHHTTSCGGG-EEEEEEESSSEEEEE
T ss_pred HhHHHHHHHHHHHcCCcccccCEEEEEeCCCcEEEE
Confidence 467788999999999999888899999999987765
No 149
>KOG0679 consensus Actin-related protein - Arp4p/Act3p [Cytoskeleton]
Probab=26.11 E-value=36 Score=26.57 Aligned_cols=19 Identities=37% Similarity=0.672 Sum_probs=15.2
Q ss_pred EECCEEEEEEEeCCCCcee
Q 047037 31 SIKGKSVVILIDSGSTHNS 49 (85)
Q Consensus 31 ~i~g~~v~~LiDSGat~~F 49 (85)
.-+|+.--++||+||+|+-
T Consensus 149 FA~GrstalVvDiGa~~~s 167 (426)
T KOG0679|consen 149 FANGRSTALVVDIGATHTS 167 (426)
T ss_pred HhcCCCceEEEEecCCCce
Confidence 3467788889999999863
No 150
>PRK02458 ribose-phosphate pyrophosphokinase; Provisional
Probab=25.90 E-value=71 Score=23.73 Aligned_cols=38 Identities=18% Similarity=0.116 Sum_probs=29.2
Q ss_pred EEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 39 ILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 39 ~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
++|=+|+++-.+..++|++||+++. ..-.-+-+||+..
T Consensus 10 ~~i~~~~~~~~la~~ia~~lg~~l~--~~~~~~FpdGE~~ 47 (323)
T PRK02458 10 IKLFSLNSNLEIAEKIAQAAGVPLG--KLSSRQFSDGEIM 47 (323)
T ss_pred eEEEECCCCHHHHHHHHHHhCCcee--eeEEEECCCCCEE
Confidence 4556788889999999999998876 4555566788753
No 151
>COG0462 PrsA Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]
Probab=25.35 E-value=57 Score=24.50 Aligned_cols=36 Identities=19% Similarity=0.218 Sum_probs=28.4
Q ss_pred eCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 42 DSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 42 DSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
=+|+++-=+.+++|++|++++. +.-.-+-+||+..-
T Consensus 8 f~g~s~~~La~~ia~~l~~~l~--~~~~~rF~DGE~~V 43 (314)
T COG0462 8 FSGSSNPELAEKIAKRLGIPLG--KVEVKRFPDGEIYV 43 (314)
T ss_pred EECCCCHHHHHHHHHHhCCCcc--cceeEEcCCCcEEE
Confidence 3678899999999999998888 45566678887643
No 152
>COG0231 Efp Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Probab=25.27 E-value=1.2e+02 Score=19.63 Aligned_cols=51 Identities=16% Similarity=0.216 Sum_probs=37.8
Q ss_pred EEEECCEEEEEEEeCCCCceeeCHHHHHhcCCccc----------CCCcEEEEeCCCCEEE
Q 047037 29 QGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN----------ANNRLEIMVAFGEKLM 79 (85)
Q Consensus 29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~----------~~~~~~V~~anG~~~~ 79 (85)
...|..+...+|-..|....|+|.+.=+.+-++.. ....+.|...||+.+.
T Consensus 64 ~a~ie~~~~q~lY~dg~~~~FMD~etyeq~~v~~~~~~d~~~~l~eg~~v~v~~~~g~~i~ 124 (131)
T COG0231 64 VAIVERKTAQYLYIDGDFYVFMDLETYEQYELPKDQIGDAAKFLKEGMEVEVLLYNGEPIA 124 (131)
T ss_pred EeEEeeeeEEEEEcCCCeEEEccCCCceEEEecchhhhhHHHhcCCCCEEEEEEECCEEEE
Confidence 56788899999999999999999665544444433 2344788888887765
No 153
>PRK01259 ribose-phosphate pyrophosphokinase; Provisional
Probab=24.76 E-value=61 Score=23.82 Aligned_cols=36 Identities=11% Similarity=0.123 Sum_probs=27.8
Q ss_pred EeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 41 IDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 41 iDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
|=+|+++..+..++|++||+++. ..-.-+-+||+..
T Consensus 3 i~~~~~~~~la~~ia~~lg~~~~--~~~~~~FpdGE~~ 38 (309)
T PRK01259 3 LFAGNANPELAEKIAKYLGIPLG--KASVGRFSDGEIS 38 (309)
T ss_pred EEECCCCHHHHHHHHHHhCCcee--eeEEEECCCCCEE
Confidence 34688999999999999998876 4555667788753
No 154
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=24.57 E-value=39 Score=19.81 Aligned_cols=41 Identities=20% Similarity=0.201 Sum_probs=23.3
Q ss_pred CCEEEEEEEeCCCCceeeCHHHHHhcCCcccC--CCcEEEEeCC
Q 047037 33 KGKSVVILIDSGSTHNSINAEVAQRVNLSPNA--NNRLEIMVAF 74 (85)
Q Consensus 33 ~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~--~~~~~V~~an 74 (85)
++.-.+.+||.|.+.. ++..-.+++...... ...+++.++|
T Consensus 79 ~~~~~V~~iD~G~~~~-v~~~~l~~l~~~~~~~P~~a~~~~L~g 121 (121)
T PF00567_consen 79 ENQYKVFLIDYGNTEK-VSASDLRPLPPEFASLPPQAIKCKLAG 121 (121)
T ss_dssp TTEEEEEETTTTEEEE-EEGGGEEE--HHHCSSSSSCEEEEET-
T ss_pred cceeEEEEEecCceEE-EcHHHhhhhCHHHhhCChhhEEEEEcC
Confidence 6666889999999988 555444444322222 2445555543
No 155
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=24.45 E-value=1.3e+02 Score=16.42 Aligned_cols=49 Identities=12% Similarity=0.384 Sum_probs=35.3
Q ss_pred EEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 27 RIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 27 ~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
.+++. +|+.+.+-|..-.+..-|=..++++.+++.. ..++... +|+.+.
T Consensus 4 ~v~~~-~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~--~~~~l~f-dG~~L~ 52 (72)
T PF11976_consen 4 KVRSQ-DGKEIKFKVKPTTTVSKLIEKYCEKKGIPPE--ESIRLIF-DGKRLD 52 (72)
T ss_dssp EEEET-TSEEEEEEEETTSCCHHHHHHHHHHHTTTT---TTEEEEE-TTEEE-
T ss_pred EEEeC-CCCEEEEEECCCCcHHHHHHHHHHhhCCCcc--ceEEEEE-CCEEcC
Confidence 34443 6778999999999999999999999998884 3455544 554443
No 156
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=24.38 E-value=57 Score=23.19 Aligned_cols=28 Identities=32% Similarity=0.390 Sum_probs=19.0
Q ss_pred CCceeEEEeccccCc---CCeEEEEEEECCE
Q 047037 8 ATPKISLHDVARDQV---LETMRIQGSIKGK 35 (85)
Q Consensus 8 ~~~~iSl~A~~g~~~---~~~~~~~g~i~g~ 35 (85)
+-|+|||||++..+. +.+++++...++.
T Consensus 59 ey~~IsLHaiSrdps~c~~~~ly~~Ve~~~~ 89 (216)
T KOG3238|consen 59 EYPTISLHAISRDPSDCLSEHLYVMVEWKFE 89 (216)
T ss_pred ecceeEEEeeeCChhhcchhhheeeeeeccc
Confidence 469999999988653 3556665555443
No 157
>PRK11347 antitoxin ChpS; Provisional
Probab=24.01 E-value=1.7e+02 Score=17.49 Aligned_cols=31 Identities=23% Similarity=0.313 Sum_probs=23.9
Q ss_pred ceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 47 HNSINAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 47 ~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
..-|+..+++++++..- ..+.+.+.+|..+-
T Consensus 13 ~vriPk~il~~l~l~~G--~~v~i~v~~~~iii 43 (83)
T PRK11347 13 GMVIPNIVMKELNLQPG--QSVEAQVSNNQLIL 43 (83)
T ss_pred eEEeCHHHHHHcCCCCC--CEEEEEEECCEEEE
Confidence 34579999999997766 67888888886553
No 158
>PRK13846 putative glycerol-3-phosphate acyltransferase PlsX; Provisional
Probab=23.80 E-value=81 Score=23.69 Aligned_cols=40 Identities=10% Similarity=0.086 Sum_probs=30.2
Q ss_pred eccccCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHh
Q 047037 16 DVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQR 57 (85)
Q Consensus 16 A~~g~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~ 57 (85)
-+.|..+|.-+.+.-+.+|. .+|+|.||....=++.|++.
T Consensus 120 ri~Gi~RPala~~lPt~~g~--~~lLD~GAN~d~~pe~L~qF 159 (316)
T PRK13846 120 MFPAVPRPALLVSVPTMRGF--AVILDVGANVSVNPEEMVGF 159 (316)
T ss_pred cCCCCCcceeeeeccCCCCC--EEEEECCccCCCCHHHHHHH
Confidence 34566777777777777777 69999999998877777653
No 159
>TIGR01699 XAPA xanthosine phosphorylase. (TIGR01698, TIGR01700).
Probab=23.63 E-value=2.1e+02 Score=20.50 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=26.7
Q ss_pred ceeEEEeccccCc---CCeE--EEEEEECCEEEEEEEeCCCCcee
Q 047037 10 PKISLHDVARDQV---LETM--RIQGSIKGKSVVILIDSGSTHNS 49 (85)
Q Consensus 10 ~~iSl~A~~g~~~---~~~~--~~~g~i~g~~v~~LiDSGat~~F 49 (85)
..|++..+.+.+. ++|- .+.|+++|++|.++ +|-.|.+
T Consensus 21 ~~i~y~~ip~~p~~~v~gh~g~l~~G~l~g~~Vv~~--~Gr~h~y 63 (248)
T TIGR01699 21 VAISYEKLPGFPVSTVHGHAGELVLGHLQGVPVVCM--KGRGHFY 63 (248)
T ss_pred EEEECCCCCCCCCCcccCCcceEEEEEECCEEEEEE--eCCCccc
Confidence 4666666666543 2332 55799999999996 8999954
No 160
>PF06820 Phage_fiber_C: Putative prophage tail fibre C-terminus; InterPro: IPR009640 This entry represents the C terminus of phage 933W tail fibre protein. This domain is found together with conserved RLGP motif. The characteristics of the protein distribution suggest prophage matches.
Probab=23.49 E-value=51 Score=18.97 Aligned_cols=28 Identities=18% Similarity=0.102 Sum_probs=22.2
Q ss_pred eeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 48 NSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 48 ~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
.|++++.+.+..+-.. +++|.-++|-..
T Consensus 31 tfL~pkd~~~vq~~f~---~LQv~fgDGpWq 58 (64)
T PF06820_consen 31 TFLDPKDATRVQGVFR---HLQVRFGDGPWQ 58 (64)
T ss_pred EEecccCchhheeeee---eeEEEeccCChh
Confidence 4889999998876554 899999998653
No 161
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=23.21 E-value=53 Score=27.15 Aligned_cols=29 Identities=24% Similarity=0.399 Sum_probs=19.3
Q ss_pred CEEEEEEEeCCCCceeeCH-HHHHhcCCcc
Q 047037 34 GKSVVILIDSGSTHNSINA-EVAQRVNLSP 62 (85)
Q Consensus 34 g~~v~~LiDSGat~~Fi~~-~~a~~l~l~~ 62 (85)
..|+++|||.|||--=++. +.++-.|+++
T Consensus 417 KlPL~VlvDnGsTeEDipA~~~~k~Ygi~i 446 (715)
T COG1107 417 KLPLLVLVDNGSTEEDIPAIKQLKAYGIDI 446 (715)
T ss_pred ccceEEEEcCCCcccccHHHHHHHhcCCCE
Confidence 4589999999999765543 3444445443
No 162
>PRK00553 ribose-phosphate pyrophosphokinase; Provisional
Probab=23.10 E-value=84 Score=23.44 Aligned_cols=36 Identities=19% Similarity=0.226 Sum_probs=28.1
Q ss_pred EeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 41 IDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 41 iDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
|=+|+++-.+..++|++||+++. ..-.-+-+||+.-
T Consensus 12 i~~~~~~~~La~~ia~~lg~~l~--~~~~~~FpdGE~~ 47 (332)
T PRK00553 12 IFSLSKAKKLVDSICRKLSMKPG--EIVIQKFADGETY 47 (332)
T ss_pred EEECCCCHHHHHHHHHHhCCcee--eeEEEECCCCCEE
Confidence 44788889999999999998776 4556677888753
No 163
>PTZ00145 phosphoribosylpyrophosphate synthetase; Provisional
Probab=23.02 E-value=83 Score=24.69 Aligned_cols=38 Identities=18% Similarity=0.121 Sum_probs=29.0
Q ss_pred EEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 39 ILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 39 ~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
++|=+|+++-.+..++|+.||+++. ..-.-+-+||+..
T Consensus 120 m~I~sgs~~~~LA~~IA~~Lg~~l~--~~~~~rFpDGE~~ 157 (439)
T PTZ00145 120 AILFSGSSNPLLSKNIADHLGTILG--RVHLKRFADGEVS 157 (439)
T ss_pred eEEEECCCCHHHHHHHHHHhCCCce--eeEEEECCCCCEE
Confidence 3344899999999999999998776 4555566777753
No 164
>PRK09798 antitoxin MazE; Provisional
Probab=23.02 E-value=1.8e+02 Score=17.31 Aligned_cols=30 Identities=23% Similarity=0.349 Sum_probs=23.3
Q ss_pred eeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037 48 NSINAEVAQRVNLSPNANNRLEIMVAFGEKLM 79 (85)
Q Consensus 48 ~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~ 79 (85)
.=|+..+++.+||... ..+.+.+-+|+.+-
T Consensus 15 vRIPk~~l~~l~l~~g--~~vei~v~~~~iiI 44 (82)
T PRK09798 15 VRIPATLMQALNLNID--DEVKIDLVDGKLII 44 (82)
T ss_pred EEcCHHHHHHcCCCCC--CEEEEEEECCEEEE
Confidence 3579999999997765 67788887877653
No 165
>COG1237 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]
Probab=22.86 E-value=1.4e+02 Score=21.95 Aligned_cols=34 Identities=15% Similarity=0.297 Sum_probs=22.4
Q ss_pred EEEECCEEEEEEEeCC-CCceeeCHHHHHhcCCcccC
Q 047037 29 QGSIKGKSVVILIDSG-STHNSINAEVAQRVNLSPNA 64 (85)
Q Consensus 29 ~g~i~g~~v~~LiDSG-at~~Fi~~~~a~~l~l~~~~ 64 (85)
...|....-.+|+||| .+..|+.. |+.||+.+..
T Consensus 24 S~LVE~~~~riLFDtG~~~~~ll~N--a~~lgvd~~d 58 (259)
T COG1237 24 SALVEDEGTRILFDTGTDSDVLLHN--ARLLGVDLRD 58 (259)
T ss_pred EEEEEcCCeEEEEeCCCCcHHHHHH--HHHcCCCccc
Confidence 3445555578999999 66666643 5677765543
No 166
>KOG0318 consensus WD40 repeat stress protein/actin interacting protein [Cytoskeleton]
Probab=22.46 E-value=1.6e+02 Score=23.98 Aligned_cols=39 Identities=18% Similarity=0.208 Sum_probs=32.3
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG 75 (85)
..||-|||.+.==|+-+--+-+.+.+.+.+|+++.++.-
T Consensus 130 ~~F~~DSG~SvGei~GhSr~ins~~~KpsRPfRi~T~sd 168 (603)
T KOG0318|consen 130 HVFLWDSGNSVGEITGHSRRINSVDFKPSRPFRIATGSD 168 (603)
T ss_pred EEEEecCCCccceeeccceeEeeeeccCCCceEEEeccC
Confidence 678999999988887776666778888899999988753
No 167
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=22.36 E-value=20 Score=25.43 Aligned_cols=23 Identities=26% Similarity=0.353 Sum_probs=17.1
Q ss_pred EEEEeCCCCceeeCHHHHHhcCC
Q 047037 38 VILIDSGSTHNSINAEVAQRVNL 60 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l~l 60 (85)
.+.+|+|+|...+.+.+....++
T Consensus 94 tIfld~GtT~~~la~~L~~~~~l 116 (256)
T PRK10434 94 SIILDAGSTVLQMVPLLSRFNNI 116 (256)
T ss_pred EEEEcCcHHHHHHHHHhccCCCe
Confidence 46789999998887777654333
No 168
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=22.30 E-value=22 Score=25.20 Aligned_cols=25 Identities=24% Similarity=0.416 Sum_probs=18.1
Q ss_pred EEEEeCCCCceeeCHHHHHhcCCcc
Q 047037 38 VILIDSGSTHNSINAEVAQRVNLSP 62 (85)
Q Consensus 38 ~~LiDSGat~~Fi~~~~a~~l~l~~ 62 (85)
.+.+|+|+|...+.+.+..+-++.+
T Consensus 94 tIflD~GtT~~~la~~L~~~~~ltV 118 (252)
T PRK10906 94 TLFIDIGTTPEAVAHALLNHSNLRI 118 (252)
T ss_pred EEEEcCcHHHHHHHHHhcCCCCcEE
Confidence 4678999999888888765434443
No 169
>PF11925 DUF3443: Protein of unknown function (DUF3443); InterPro: IPR021847 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 400 to 434 amino acids in length. This protein has two conserved sequence motifs: NPV and DNNG.
Probab=22.02 E-value=1.2e+02 Score=23.42 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=23.3
Q ss_pred EEEEEECCEEEEE-EEeCCCCceeeCHH
Q 047037 27 RIQGSIKGKSVVI-LIDSGSTHNSINAE 53 (85)
Q Consensus 27 ~~~g~i~g~~v~~-LiDSGat~~Fi~~~ 53 (85)
.+....+|+.+.. .||||+...|.+..
T Consensus 245 ~~tt~~~G~t~~~sf~DSGSNg~fF~d~ 272 (370)
T PF11925_consen 245 DFTTTFNGQTYSASFFDSGSNGYFFPDS 272 (370)
T ss_pred eEEEEecCceeeeeeEecCCceeeccCC
Confidence 3777889999888 99999999999854
No 170
>cd01742 GATase1_GMP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. Glutamine amidotransferase (GATase) activity catalyse the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. GMP synthetase catalyses the amination of the nucleotide precursor xanthosine 5'-monophospahte to form GMP. GMP synthetase belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=21.84 E-value=47 Score=21.70 Aligned_cols=26 Identities=15% Similarity=0.291 Sum_probs=20.4
Q ss_pred EEEeCCCCceeeCHHHHHhcCCcccC
Q 047037 39 ILIDSGSTHNSINAEVAQRVNLSPNA 64 (85)
Q Consensus 39 ~LiDSGat~~Fi~~~~a~~l~l~~~~ 64 (85)
.+||.|++.++.=.+..+++|..+..
T Consensus 2 ~~iD~g~~~~~~~~~~l~~~G~~~~~ 27 (181)
T cd01742 2 LILDFGSQYTHLIARRVRELGVYSEI 27 (181)
T ss_pred EEEECCCchHHHHHHHHHhcCceEEE
Confidence 58999999888778888888875543
No 171
>TIGR01251 ribP_PPkin ribose-phosphate pyrophosphokinase. In some systems, close homologs lacking enzymatic activity exist and perform regulatory functions. The model is designated subfamily rather than equivalog for this reason.
Probab=21.71 E-value=74 Score=23.25 Aligned_cols=33 Identities=24% Similarity=0.240 Sum_probs=26.4
Q ss_pred CCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037 43 SGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK 77 (85)
Q Consensus 43 SGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~ 77 (85)
+|+++..+..++|+.||+++.+ .-.-+-+||+.
T Consensus 5 ~~~~~~~la~~ia~~lg~~~~~--~~~~~FpdGE~ 37 (308)
T TIGR01251 5 SGSSNQELAQKVAKNLGLPLGD--VEVKRFPDGEL 37 (308)
T ss_pred ECCCCHHHHHHHHHHhCCeeee--eEEEECCCCCE
Confidence 6899999999999999988873 45556677764
No 172
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=21.66 E-value=92 Score=19.13 Aligned_cols=24 Identities=21% Similarity=0.375 Sum_probs=19.1
Q ss_pred EEEEEEEeCCCCceeeCHHHHHhc
Q 047037 35 KSVVILIDSGSTHNSINAEVAQRV 58 (85)
Q Consensus 35 ~~v~~LiDSGat~~Fi~~~~a~~l 58 (85)
.+=.++|=||.++-|+++++.+.+
T Consensus 53 ~pe~liiGtG~~~~~~~~~~~~~l 76 (110)
T PF04430_consen 53 KPEVLIIGTGKRQLFLPPELREYL 76 (110)
T ss_dssp S-SEEEEEETTS-SECTHHHHHHH
T ss_pred CCcEEEEccCCccccCCHHHHHHH
Confidence 455788999999999999998866
No 173
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=21.39 E-value=1.3e+02 Score=17.90 Aligned_cols=24 Identities=17% Similarity=0.237 Sum_probs=16.1
Q ss_pred EEEEEEECCEEEEEEEeCCCCcee
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNS 49 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~F 49 (85)
|--...|||+++.+.+|..--.-.
T Consensus 20 fg~~~~InG~~~~~v~d~~~~~~~ 43 (95)
T PF13856_consen 20 FGEEHTINGKPYRAVFDEPELEER 43 (95)
T ss_dssp H-EEEEETTEEEEEEEGGGT----
T ss_pred hCCeEEECCEEEEEEECCchhhhc
Confidence 445678999999999998744443
No 174
>PF01150 GDA1_CD39: GDA1/CD39 (nucleoside phosphatase) family; InterPro: IPR000407 A number of nucleoside diphosphate and triphosphate hydrolases as well as some yet uncharacterised proteins have been found to belong to the same family [, ]. The uncharacterised proteins all seem to be membrane-bound. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0016787 hydrolase activity; PDB: 3AAP_A 3AAR_A 3AAQ_A 3AGR_A 4A5B_B 4A57_D 4A59_A 4A5A_B 3CJA_A 3CJ1_A ....
Probab=21.38 E-value=60 Score=24.56 Aligned_cols=14 Identities=29% Similarity=0.546 Sum_probs=11.4
Q ss_pred EEEEEEEeCCCCce
Q 047037 35 KSVVILIDSGSTHN 48 (85)
Q Consensus 35 ~~v~~LiDSGat~~ 48 (85)
....++||.|||++
T Consensus 7 ~~y~vviDAGSsgs 20 (434)
T PF01150_consen 7 RKYGVVIDAGSSGS 20 (434)
T ss_dssp EEEEEEEEEESSEE
T ss_pred ccEEEEEEcCCCCc
Confidence 35678999999986
No 175
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=21.33 E-value=1.8e+02 Score=16.69 Aligned_cols=45 Identities=24% Similarity=0.287 Sum_probs=28.6
Q ss_pred cCCceeEEEeccccCcCCeEEEEEEECCEEEEEEEeCCCCceeeC
Q 047037 7 NATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSIN 51 (85)
Q Consensus 7 ~~~~~iSl~A~~g~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~ 51 (85)
.....|+|..=....-|..+.+.|.--|.+|.+..|-..-.++|.
T Consensus 14 ~~~~titLdDGksy~lp~ef~~~~L~~G~kV~V~yd~~~gk~vit 58 (61)
T PF07076_consen 14 PETMTITLDDGKSYKLPEEFDFDGLKPGMKVVVFYDEVDGKRVIT 58 (61)
T ss_pred CCceEEEecCCCEEECCCcccccccCCCCEEEEEEEccCCcEEee
Confidence 344566665544445566777777777778887777766555543
No 176
>PRK02269 ribose-phosphate pyrophosphokinase; Provisional
Probab=21.21 E-value=97 Score=22.92 Aligned_cols=37 Identities=16% Similarity=0.114 Sum_probs=27.8
Q ss_pred EEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 40 LIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 40 LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
.|=+|+++..+.+++|++||+++. ..-.-+-+||+..
T Consensus 7 ~i~~~~~~~~la~~ia~~lg~~l~--~~~~~~FpdGE~~ 43 (320)
T PRK02269 7 KLFALSSNKELAEKVAQEIGIELG--KSSVRQFSDGEIQ 43 (320)
T ss_pred EEEECCCCHHHHHHHHHHhCCcee--eeEEEECCCCCEE
Confidence 344688899999999999998776 4455566777643
No 177
>TIGR02707 butyr_kinase butyrate kinase. This model represents an enzyme family in which members are designated either butryate kinase or branched-chain carboxylic acid kinase. The EC designation 2.7.2.7 describes an enzyme with relatively broad specificity; gene products whose context suggests a role in metabolism of aliphatic amino acids are likely to act as branched-chain carboxylic acid kinase. The gene typically found adjacent, ptb (phosphate butyryltransferase), likewise encodes an enzyme that may have a broad specificity that includes a role in aliphatic amino acid cabolism.
Probab=21.00 E-value=78 Score=23.74 Aligned_cols=35 Identities=9% Similarity=0.103 Sum_probs=29.7
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL 78 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~ 78 (85)
|-+|-|+..++++.+|.+.....-+.+.+++|-..
T Consensus 153 gls~~~v~~~~~~~~g~~~~~~~~I~~hLGtGig~ 187 (351)
T TIGR02707 153 ALNQKAVARRIAKELGKRYEEMNLIVAHMGGGISV 187 (351)
T ss_pred hhhHHHHHHHHHHHcCCCcccCCEEEEEeCCCcee
Confidence 77899999999999998877778888888888654
No 178
>PF07532 Big_4: Bacterial Ig-like domain (group 4); InterPro: IPR011081 This entry represents bacterial domains with an Ig-like fold. These domains are found in a variety of bacterial surface proteins.
Probab=20.99 E-value=98 Score=16.73 Aligned_cols=14 Identities=21% Similarity=0.480 Sum_probs=12.0
Q ss_pred CcCCeEEEEEEECC
Q 047037 21 QVLETMRIQGSIKG 34 (85)
Q Consensus 21 ~~~~~~~~~g~i~g 34 (85)
..+++|.+.|.+.|
T Consensus 45 ~~~G~y~v~G~v~G 58 (59)
T PF07532_consen 45 NKPGTYTVTGTVEG 58 (59)
T ss_pred cCCEEEEEEEEEec
Confidence 56899999999976
No 179
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=20.87 E-value=1.7e+02 Score=16.88 Aligned_cols=29 Identities=10% Similarity=0.331 Sum_probs=19.7
Q ss_pred EEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEE
Q 047037 37 VVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIM 71 (85)
Q Consensus 37 v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~ 71 (85)
+++++|.- +..+|+.+++...-.+.++|+
T Consensus 35 ~v~i~dPe------~S~vAk~~~i~~pG~YAlkVr 63 (64)
T PRK06393 35 FLIITEPE------GSAIAKRAGITEPGMYAIKVR 63 (64)
T ss_pred EEEEECCc------hhHHHHHhCCCCCCeEEEEee
Confidence 45666765 568999999884334666654
No 180
>PRK07058 acetate kinase; Provisional
Probab=20.83 E-value=59 Score=25.19 Aligned_cols=36 Identities=14% Similarity=0.189 Sum_probs=29.0
Q ss_pred CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037 44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS 80 (85)
Q Consensus 44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~ 80 (85)
|-+|-|+..++|+.+ -+....+-+...++||-++..
T Consensus 181 GlS~~~va~~~a~~l-~~~~~~~~Iv~HLG~G~Si~A 216 (396)
T PRK07058 181 GLSYKFVAGELRRRA-PELARGKVVAAHLGSGASLCA 216 (396)
T ss_pred HHHHHHHHHHHHHhc-CCcccCCEEEEEeCCCceeee
Confidence 457889999999998 455556888999999988765
No 181
>COG4067 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]
Probab=20.66 E-value=72 Score=21.79 Aligned_cols=24 Identities=25% Similarity=0.390 Sum_probs=18.8
Q ss_pred EEEEEEeCCCCceeeCHHHHHhcC
Q 047037 36 SVVILIDSGSTHNSINAEVAQRVN 59 (85)
Q Consensus 36 ~v~~LiDSGat~~Fi~~~~a~~l~ 59 (85)
.+.+=|||||..+-++..-.+++.
T Consensus 39 ~~kAkiDTGA~TSsL~A~dI~~fk 62 (162)
T COG4067 39 QLKAKIDTGAVTSSLSASDIERFK 62 (162)
T ss_pred eeeeeecccceeeeEEeecceeee
Confidence 366778999999999987766554
No 182
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=20.58 E-value=2.2e+02 Score=17.34 Aligned_cols=47 Identities=13% Similarity=0.237 Sum_probs=38.1
Q ss_pred EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCC
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAF 74 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~an 74 (85)
++++...+|.-+..-+|-..|.-.+.+++.+-.++... .+++++--|
T Consensus 1 i~~K~~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~--q~ft~kw~D 47 (83)
T cd06404 1 VRVKAAYNGDIMITSIDPSISLEELCNEVRDMCRFHND--QPFTLKWID 47 (83)
T ss_pred CeEEEEecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCC--CcEEEEEEC
Confidence 36788889999999999999988899999888876554 677776655
No 183
>PRK13668 hypothetical protein; Provisional
Probab=20.25 E-value=1.5e+02 Score=21.80 Aligned_cols=38 Identities=13% Similarity=0.246 Sum_probs=31.6
Q ss_pred EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCccc
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN 63 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~ 63 (85)
+...-......+...+|.|-+.-||+++..+++|+..+
T Consensus 106 lv~~~htae~~I~YalDlg~syr~I~e~~L~~~git~e 143 (267)
T PRK13668 106 LIYDEHTAETRIYYALDLGKTYRLIDERMLEKLGLTEE 143 (267)
T ss_pred ccccccccceEEEEEEcCCcceEEeCHHHHHHcCCCHH
Confidence 44455566778899999999999999999999998754
No 184
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=20.22 E-value=1.8e+02 Score=16.30 Aligned_cols=37 Identities=14% Similarity=0.275 Sum_probs=31.6
Q ss_pred EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcc
Q 047037 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSP 62 (85)
Q Consensus 26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~ 62 (85)
++++...++....+.++.+.|..=+-.++.++++++.
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~ 38 (81)
T smart00666 2 VDVKLRYGGETRRLSVPRDISFEDLRSKVAKRFGLDN 38 (81)
T ss_pred ccEEEEECCEEEEEEECCCCCHHHHHHHHHHHhCCCC
Confidence 4566677889999999999999999999999999764
No 185
>TIGR03778 VPDSG_CTERM VPDSG-CTERM exosortase interaction domain. Through in silico analysis, we previously described the PEP-CTERM/exosortase system (PubMed:16930487). This model describes a PEP-CTERM-like variant C-terminal protein sorting signal, as found at the C-terminus of twenty otherwise unrelated proteins in Verrucomicrobiae bacterium DG1235. The variant motif, VPDSG, seems an intermediate between the VPEP motif (TIGR02595) of typical exosortase systems and the classical LPXTG of sortase in Gram-positive bacteria.
Probab=20.02 E-value=32 Score=16.52 Aligned_cols=15 Identities=33% Similarity=0.328 Sum_probs=10.2
Q ss_pred eCCCCceeeCHHHHH
Q 047037 42 DSGSTHNSINAEVAQ 56 (85)
Q Consensus 42 DSGat~~Fi~~~~a~ 56 (85)
|||+|...+.-.++-
T Consensus 3 DsGST~~Ll~~~l~~ 17 (26)
T TIGR03778 3 DSGSTLALLGLGLLG 17 (26)
T ss_pred CchhHHHHHHHHHHH
Confidence 899887766555443
Done!