Query 029371
Match_columns 194
No_of_seqs 94 out of 104
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 11:51:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029371.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029371hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09778 Guanylate_cyc_2: Guan 100.0 2.3E-79 4.9E-84 516.7 17.1 186 1-188 19-212 (212)
2 KOG4621 Uncharacterized conser 100.0 9.4E-63 2E-67 388.2 12.5 158 34-191 1-167 (167)
3 cd02549 Peptidase_C39A A sub-f 99.4 2.1E-12 4.5E-17 99.3 10.0 130 18-180 5-135 (141)
4 PF13529 Peptidase_C39_2: Pept 99.1 4.9E-10 1.1E-14 84.7 8.0 77 71-158 67-144 (144)
5 PF14399 Transpep_BrtH: NlpC/p 99.1 1.3E-09 2.8E-14 94.9 11.2 93 76-179 57-154 (317)
6 PF11814 DUF3335: Peptidase_C3 99.1 4.1E-09 8.8E-14 89.4 13.7 129 27-182 56-198 (207)
7 COG4990 Uncharacterized protei 98.8 5.4E-08 1.2E-12 81.1 9.7 137 14-181 38-189 (195)
8 cd02418 Peptidase_C39B A sub-f 98.4 3.9E-06 8.4E-11 63.9 10.7 120 26-190 13-134 (136)
9 cd02259 Peptidase_C39_like Pep 98.2 1.2E-05 2.6E-10 59.8 9.3 109 25-176 7-115 (122)
10 PF03412 Peptidase_C39: Peptid 98.1 9.3E-06 2E-10 61.8 6.4 112 30-190 18-129 (131)
11 cd02423 Peptidase_C39G A sub-f 97.9 0.00015 3.2E-09 54.6 9.4 104 30-176 17-123 (129)
12 cd02424 Peptidase_C39E A sub-f 97.8 0.00021 4.5E-09 54.8 9.5 104 29-175 16-122 (129)
13 cd02420 Peptidase_C39D A sub-f 97.7 0.00038 8.3E-09 52.4 9.3 101 30-176 17-119 (125)
14 PF12385 Peptidase_C70: Papain 97.6 0.00027 5.8E-09 58.1 7.9 121 23-174 34-160 (166)
15 cd02419 Peptidase_C39C A sub-f 97.5 0.00097 2.1E-08 50.2 9.2 102 29-176 16-119 (127)
16 cd02425 Peptidase_C39F A sub-f 97.5 0.0011 2.4E-08 49.6 9.4 106 25-176 12-120 (126)
17 cd02417 Peptidase_C39_likeA A 97.5 0.00052 1.1E-08 51.2 7.6 104 28-176 10-115 (121)
18 cd02421 Peptidase_C39_likeD A 97.4 0.0011 2.3E-08 49.8 8.0 114 26-188 8-123 (124)
19 TIGR03796 NHPM_micro_ABC1 NHPM 96.8 0.0034 7.3E-08 61.0 7.4 108 30-188 18-127 (710)
20 TIGR01193 bacteriocin_ABC ABC- 96.5 0.012 2.5E-07 57.4 8.5 107 30-175 12-121 (708)
21 TIGR01846 type_I_sec_HlyB type 96.2 0.015 3.2E-07 56.6 7.4 100 30-175 5-106 (694)
22 TIGR03375 type_I_sec_LssB type 96.1 0.027 5.9E-07 54.7 8.4 105 28-175 3-109 (694)
23 PF05543 Peptidase_C47: Stapho 95.8 0.04 8.7E-07 45.9 7.3 77 72-164 69-150 (175)
24 TIGR03797 NHPM_micro_ABC2 NHPM 95.7 0.045 9.7E-07 53.1 8.2 102 26-174 4-105 (686)
25 PF05023 Phytochelatin: Phytoc 95.6 0.15 3.2E-06 43.6 10.3 89 71-175 99-195 (212)
26 cd02619 Peptidase_C1 C1 Peptid 95.2 0.084 1.8E-06 42.8 7.0 81 91-172 124-215 (223)
27 cd02248 Peptidase_C1A Peptidas 94.4 0.16 3.5E-06 41.3 7.0 61 92-157 117-181 (210)
28 PF00112 Peptidase_C1: Papain 94.3 0.056 1.2E-06 43.8 3.9 64 91-157 122-188 (219)
29 COG2274 SunT ABC-type bacterio 94.2 0.32 7E-06 48.3 9.7 108 25-176 13-120 (709)
30 cd02620 Peptidase_C1A_Cathepsi 89.3 1.2 2.6E-05 37.8 6.4 60 91-156 143-206 (236)
31 cd02698 Peptidase_C1A_Cathepsi 89.0 1.6 3.5E-05 37.1 6.9 88 91-183 137-232 (239)
32 cd00307 RuBisCO_small_like Rib 87.9 1.9 4.1E-05 31.9 5.7 59 92-150 5-73 (84)
33 cd02621 Peptidase_C1A_Cathepsi 87.6 2.5 5.4E-05 35.8 7.2 65 91-156 132-210 (243)
34 COG4451 RbcS Ribulose bisphosp 86.6 1.8 4E-05 34.2 5.3 66 92-160 25-109 (127)
35 cd03527 RuBisCO_small Ribulose 85.7 3.9 8.5E-05 31.1 6.6 55 94-151 20-89 (99)
36 PF00101 RuBisCO_small: Ribulo 78.4 2.5 5.4E-05 32.1 3.1 62 93-157 18-98 (99)
37 PTZ00203 cathepsin L protease; 75.7 9.7 0.00021 34.7 6.7 60 91-156 247-308 (348)
38 COG4870 Cysteine protease [Pos 74.4 7 0.00015 36.3 5.4 22 129-150 257-278 (372)
39 PRK07283 hypothetical protein; 72.8 12 0.00025 27.9 5.5 45 68-114 46-90 (98)
40 PTZ00200 cysteine proteinase; 71.4 12 0.00026 35.4 6.4 57 95-157 351-411 (448)
41 PTZ00021 falcipain-2; Provisio 71.0 15 0.00032 35.3 7.0 53 91-148 380-432 (489)
42 PF13973 DUF4222: Domain of un 70.2 10 0.00023 25.5 4.2 37 134-173 11-47 (53)
43 COG3271 Predicted double-glyci 67.5 12 0.00025 32.0 4.9 79 73-180 81-159 (201)
44 cd02549 Peptidase_C39A A sub-f 66.8 5.4 0.00012 30.0 2.6 45 1-46 14-66 (141)
45 cd01986 Alpha_ANH_like Adenine 62.7 24 0.00052 25.6 5.4 66 30-100 14-79 (103)
46 cd06411 PB1_p51 The PB1 domain 61.3 11 0.00023 27.7 3.1 28 150-177 37-65 (78)
47 cd02418 Peptidase_C39B A sub-f 60.5 11 0.00025 28.0 3.3 45 1-46 19-65 (136)
48 PF03412 Peptidase_C39: Peptid 60.4 3.5 7.6E-05 30.8 0.5 45 1-46 20-66 (131)
49 PRK07714 hypothetical protein; 60.1 32 0.00068 25.5 5.6 47 68-115 46-92 (100)
50 PTZ00106 60S ribosomal protein 59.8 34 0.00074 26.1 5.9 48 68-115 53-101 (108)
51 TIGR03590 PseG pseudaminic aci 58.7 49 0.0011 28.6 7.4 21 28-48 21-41 (279)
52 COG2117 Predicted subunit of t 56.6 8.2 0.00018 32.5 2.1 27 31-57 17-43 (198)
53 PRK01018 50S ribosomal protein 55.9 48 0.001 24.7 6.0 48 68-115 44-92 (99)
54 TIGR00379 cobB cobyrinic acid 55.3 43 0.00093 31.3 6.9 87 22-115 12-122 (449)
55 COG2873 MET17 O-acetylhomoseri 53.7 46 0.001 31.4 6.6 17 30-46 118-134 (426)
56 PRK01077 cobyrinic acid a,c-di 51.7 47 0.001 31.0 6.5 86 22-114 16-125 (451)
57 PF07910 Peptidase_C78: Peptid 49.3 48 0.001 28.4 5.7 91 25-162 88-184 (218)
58 cd02424 Peptidase_C39E A sub-f 48.6 21 0.00046 26.8 3.1 45 1-46 19-66 (129)
59 cd06406 PB1_P67 A PB1 domain i 44.3 26 0.00056 25.8 2.8 26 151-177 42-67 (80)
60 cd02417 Peptidase_C39_likeA A 43.5 31 0.00068 25.1 3.3 45 1-46 14-60 (121)
61 COG1419 FlhF Flagellar GTP-bin 42.2 36 0.00078 32.1 4.1 54 63-117 238-294 (407)
62 cd02423 Peptidase_C39G A sub-f 42.2 30 0.00066 25.4 3.1 45 1-46 19-66 (129)
63 PRK05583 ribosomal protein L7A 42.0 76 0.0017 23.9 5.3 47 68-115 45-91 (104)
64 cd02259 Peptidase_C39_like Pep 41.6 32 0.00068 24.9 3.0 45 1-46 14-60 (122)
65 PF04007 DUF354: Protein of un 41.5 1.4E+02 0.003 27.2 7.7 74 30-113 40-113 (335)
66 KOG2145 Cytoplasmic tryptophan 41.5 8.5 0.00018 35.2 -0.1 49 136-185 148-204 (397)
67 cd02425 Peptidase_C39F A sub-f 40.8 33 0.00072 25.0 3.1 45 1-46 19-65 (126)
68 cd02420 Peptidase_C39D A sub-f 40.5 30 0.00065 25.4 2.8 45 1-46 19-65 (125)
69 cd01019 ZnuA Zinc binding prot 40.0 1.5E+02 0.0032 25.8 7.5 60 29-101 188-248 (286)
70 cd00585 Peptidase_C1B Peptidas 39.7 1.3E+02 0.0027 28.6 7.4 66 88-156 290-382 (437)
71 PF03796 DnaB_C: DnaB-like hel 38.8 1E+02 0.0022 26.0 6.2 88 22-115 31-141 (259)
72 TIGR01123 ilvE_II branched-cha 38.0 66 0.0014 28.3 5.0 40 72-113 222-261 (313)
73 PF15636 Tox-GHH: GHH signatur 37.3 34 0.00074 24.9 2.5 16 88-103 35-50 (79)
74 PF02677 DUF208: Uncharacteriz 37.3 1.5E+02 0.0033 24.7 6.7 66 20-99 7-72 (176)
75 PF01297 TroA: Periplasmic sol 36.6 1.8E+02 0.0038 24.5 7.3 68 30-111 160-229 (256)
76 PRK13896 cobyrinic acid a,c-di 36.6 1.4E+02 0.0031 28.1 7.2 86 22-115 14-117 (433)
77 PTZ00462 Serine-repeat antigen 36.4 55 0.0012 34.3 4.7 52 93-147 681-732 (1004)
78 COG1797 CobB Cobyrinic acid a, 36.2 85 0.0019 30.0 5.6 91 22-119 13-127 (451)
79 cd02419 Peptidase_C39C A sub-f 35.4 46 0.001 24.4 3.1 45 1-46 19-65 (127)
80 PLN02673 quinolinate synthetas 34.5 1.1E+02 0.0023 31.0 6.2 139 43-192 228-389 (724)
81 TIGR03699 mena_SCO4550 menaqui 34.0 2.5E+02 0.0055 24.8 8.1 82 13-99 128-216 (340)
82 TIGR02742 TrbC_Ftype type-F co 34.0 2.4E+02 0.0051 22.3 8.2 39 64-102 7-52 (130)
83 PF01640 Peptidase_C10: Peptid 33.7 1.2E+02 0.0026 24.9 5.6 13 137-149 163-175 (192)
84 TIGR03797 NHPM_micro_ABC2 NHPM 33.7 38 0.00083 33.0 3.0 42 1-46 10-51 (686)
85 PF12687 DUF3801: Protein of u 33.4 82 0.0018 26.6 4.7 51 29-84 46-96 (204)
86 PF00634 BRCA2: BRCA2 repeat; 33.3 22 0.00048 22.1 0.9 22 162-183 14-35 (35)
87 CHL00130 rbcS ribulose-1,5-bis 33.2 72 0.0016 25.8 4.0 66 95-161 23-107 (138)
88 COG4753 Response regulator con 33.0 1E+02 0.0022 29.6 5.7 80 64-148 6-88 (475)
89 TIGR00936 ahcY adenosylhomocys 32.8 2E+02 0.0044 26.9 7.5 71 25-115 43-117 (406)
90 PLN02782 Branched-chain amino 32.3 48 0.001 30.9 3.3 27 72-98 315-341 (403)
91 PRK05476 S-adenosyl-L-homocyst 31.7 2.1E+02 0.0047 26.9 7.5 72 25-115 59-134 (425)
92 cd03013 PRX5_like Peroxiredoxi 30.2 96 0.0021 24.4 4.4 46 135-191 27-75 (155)
93 PF14172 DUF4309: Domain of un 29.3 2.6E+02 0.0057 22.0 6.7 87 71-177 2-91 (134)
94 PLN02883 Branched-chain amino 29.2 60 0.0013 30.1 3.4 27 72-98 297-323 (384)
95 PRK09314 bifunctional 3,4-dihy 29.1 1.7E+02 0.0037 26.9 6.2 109 68-192 171-287 (339)
96 KOG1542 Cysteine proteinase Ca 29.1 99 0.0022 28.8 4.7 58 89-149 271-329 (372)
97 PTZ00240 60S ribosomal protein 28.9 58 0.0013 29.7 3.2 75 3-79 145-226 (323)
98 TIGR01096 3A0103s03R lysine-ar 28.8 1.2E+02 0.0026 24.6 4.9 60 45-104 25-84 (250)
99 cd01017 AdcA Metal binding pro 28.6 2.6E+02 0.0055 24.1 7.1 59 29-101 180-240 (282)
100 cd00984 DnaB_C DnaB helicase C 28.6 1.6E+02 0.0034 24.2 5.6 90 22-115 25-134 (242)
101 PRK08883 ribulose-phosphate 3- 28.5 1.3E+02 0.0028 25.6 5.1 57 49-110 136-195 (220)
102 PRK07544 branched-chain amino 28.4 65 0.0014 28.0 3.3 26 72-97 220-245 (292)
103 PRK13356 aminotransferase; Pro 28.2 62 0.0013 28.0 3.2 26 72-97 216-241 (286)
104 cd03031 GRX_GRX_like Glutaredo 28.0 1.9E+02 0.0042 23.1 5.8 64 41-117 2-73 (147)
105 COG5354 Uncharacterized protei 27.9 57 0.0012 31.8 3.0 26 136-161 326-351 (561)
106 PF03279 Lip_A_acyltrans: Bact 27.9 1.5E+02 0.0033 25.4 5.5 44 70-114 158-202 (295)
107 cd01558 D-AAT_like D-Alanine a 27.7 71 0.0015 27.2 3.4 26 72-97 205-230 (270)
108 smart00645 Pept_C1 Papain fami 27.7 62 0.0014 26.0 2.9 13 136-148 119-131 (174)
109 PLN02259 branched-chain-amino- 27.5 66 0.0014 29.8 3.4 27 72-98 301-327 (388)
110 TIGR03461 pabC_Proteo aminodeo 27.5 70 0.0015 27.1 3.3 26 72-97 201-226 (261)
111 PF05973 Gp49: Phage derived p 27.4 91 0.002 22.2 3.5 28 137-178 63-90 (91)
112 PRK12400 D-amino acid aminotra 27.4 70 0.0015 27.8 3.4 26 72-97 213-238 (290)
113 smart00062 PBPb Bacterial peri 27.1 1.9E+02 0.004 21.5 5.3 30 81-111 37-66 (219)
114 PF04019 DUF359: Protein of un 27.0 3.1E+02 0.0066 21.4 6.7 57 98-181 5-61 (121)
115 PF04312 DUF460: Protein of un 26.9 77 0.0017 25.6 3.2 28 87-115 60-88 (138)
116 PTZ00049 cathepsin C-like prot 26.5 2.1E+02 0.0045 29.0 6.7 22 91-113 556-577 (693)
117 TIGR03870 ABC_MoxJ methanol ox 26.5 1.1E+02 0.0024 25.5 4.3 58 46-107 2-62 (246)
118 PRK06092 4-amino-4-deoxychoris 26.0 77 0.0017 27.0 3.3 30 68-97 199-228 (268)
119 PF01063 Aminotran_4: Aminotra 25.7 83 0.0018 25.7 3.4 26 72-97 169-194 (231)
120 cd01018 ZntC Metal binding pro 25.7 3.2E+02 0.0068 23.4 7.1 65 29-111 179-247 (266)
121 cd01559 ADCL_like ADCL_like: 4 25.4 81 0.0018 26.6 3.3 27 72-98 187-213 (249)
122 cd03762 proteasome_beta_type_6 24.8 84 0.0018 25.3 3.2 22 139-160 97-119 (188)
123 TIGR01122 ilvE_I branched-chai 24.7 84 0.0018 27.3 3.4 26 72-97 215-240 (298)
124 cd00449 PLPDE_IV PyridoxaL 5'- 24.6 88 0.0019 26.2 3.4 26 72-97 191-216 (256)
125 PRK09266 hypothetical protein; 24.5 93 0.002 26.6 3.5 27 72-98 195-221 (266)
126 PTZ00246 proteasome subunit al 24.5 85 0.0018 26.8 3.3 24 138-161 132-156 (253)
127 PHA02671 hypothetical protein; 24.3 1.7E+02 0.0036 24.7 4.8 70 73-148 20-105 (179)
128 PLN03117 Branched-chain-amino- 24.2 82 0.0018 28.6 3.3 26 72-97 264-289 (355)
129 TIGR01121 D_amino_aminoT D-ami 24.2 84 0.0018 27.0 3.2 26 72-97 206-231 (276)
130 KOG0628 Aromatic-L-amino-acid/ 24.2 20 0.00043 34.5 -0.7 33 1-33 238-275 (511)
131 PF03129 HGTP_anticodon: Antic 24.1 1.4E+02 0.0031 20.8 3.9 48 26-95 17-64 (94)
132 cd03764 proteasome_beta_archea 24.0 1E+02 0.0022 24.8 3.5 23 138-160 97-119 (188)
133 TIGR03499 FlhF flagellar biosy 24.0 3.4E+02 0.0074 23.6 7.1 74 22-113 206-281 (282)
134 cd03752 proteasome_alpha_type_ 23.7 92 0.002 25.8 3.3 24 138-161 130-154 (213)
135 KOG1543 Cysteine proteinase Ca 23.5 3.2E+02 0.007 24.6 6.9 64 89-156 225-291 (325)
136 cd01121 Sms Sms (bacterial rad 23.4 2.2E+02 0.0047 26.2 5.9 70 22-113 94-167 (372)
137 PF00770 Peptidase_C5: Adenovi 23.3 2.1E+02 0.0045 24.2 5.2 53 99-172 14-73 (183)
138 PRK11823 DNA repair protein Ra 23.3 2.6E+02 0.0055 26.3 6.5 70 22-113 92-165 (446)
139 COG1066 Sms Predicted ATP-depe 23.3 2.4E+02 0.0052 27.1 6.2 80 12-114 78-178 (456)
140 cd01557 BCAT_beta_family BCAT_ 23.1 95 0.0021 26.8 3.4 26 72-97 206-231 (279)
141 PRK06680 D-amino acid aminotra 23.1 90 0.0019 27.1 3.2 26 72-97 212-237 (286)
142 cd03015 PRX_Typ2cys Peroxiredo 23.0 91 0.002 24.6 3.0 48 133-191 25-73 (173)
143 PRK09545 znuA high-affinity zi 22.9 4.2E+02 0.0091 23.4 7.5 44 28-85 211-255 (311)
144 cd03749 proteasome_alpha_type_ 22.7 95 0.0021 25.7 3.2 39 139-177 126-173 (211)
145 TIGR03634 arc_protsome_B prote 22.3 1.1E+02 0.0025 24.4 3.5 22 138-159 98-119 (185)
146 PTZ00488 Proteasome subunit be 22.3 1.1E+02 0.0023 26.5 3.4 25 137-161 133-159 (247)
147 PHA02983 hypothetical protein; 22.2 2.9E+02 0.0063 23.3 5.9 72 72-148 20-106 (180)
148 COG2241 CobL Precorrin-6B meth 22.1 2.1E+02 0.0046 24.4 5.2 85 25-113 54-150 (210)
149 PF01171 ATP_bind_3: PP-loop f 22.0 4.1E+02 0.0089 21.1 7.0 68 26-99 46-113 (182)
150 cd03750 proteasome_alpha_type_ 22.0 1.1E+02 0.0025 25.5 3.6 25 137-161 126-150 (227)
151 PTZ00135 60S acidic ribosomal 22.0 86 0.0019 28.3 2.9 74 3-78 138-218 (310)
152 PF02222 ATP-grasp: ATP-grasp 21.9 3.6E+02 0.0077 22.0 6.4 28 79-107 2-32 (172)
153 cd03759 proteasome_beta_type_3 21.9 1.1E+02 0.0024 24.9 3.4 23 138-160 100-123 (195)
154 PTZ00364 dipeptidyl-peptidase 21.7 2.1E+02 0.0046 28.0 5.7 22 91-113 342-363 (548)
155 PF13623 SurA_N_2: SurA N-term 21.6 96 0.0021 24.8 2.9 29 74-107 95-123 (145)
156 cd03014 PRX_Atyp2cys Peroxired 21.4 1.6E+02 0.0035 22.0 4.1 45 134-190 23-67 (143)
157 cd03761 proteasome_beta_type_5 21.3 1.1E+02 0.0024 24.8 3.2 22 139-160 98-119 (188)
158 cd07984 LPLAT_LABLAT-like Lyso 21.2 3.1E+02 0.0067 21.4 5.8 44 70-114 57-101 (192)
159 KOG2315 Predicted translation 21.1 73 0.0016 31.2 2.4 25 135-159 321-345 (566)
160 PRK07650 4-amino-4-deoxychoris 20.9 1.1E+02 0.0024 26.3 3.4 26 72-97 207-232 (283)
161 PRK00784 cobyric acid synthase 20.9 2.4E+02 0.0053 26.6 5.9 25 22-46 15-39 (488)
162 cd00544 CobU Adenosylcobinamid 20.7 2E+02 0.0042 23.3 4.6 72 21-113 10-82 (169)
163 TIGR03677 rpl7ae 50S ribosomal 20.7 3.1E+02 0.0067 20.9 5.5 45 70-115 57-102 (117)
164 TIGR01098 3A0109s03R phosphate 20.7 2.8E+02 0.0061 22.6 5.6 60 45-112 33-93 (254)
165 KOG0556 Aspartyl-tRNA syntheta 20.6 55 0.0012 31.4 1.4 62 32-100 421-489 (533)
166 cd01174 ribokinase Ribokinase 20.4 5.1E+02 0.011 21.5 10.8 25 28-53 40-64 (292)
167 PRK12479 branched-chain amino 20.3 1.2E+02 0.0025 26.6 3.4 26 72-97 215-240 (299)
168 KOG1387 Glycosyltransferase [C 20.3 1.5E+02 0.0033 28.1 4.2 36 65-100 317-355 (465)
169 cd03760 proteasome_beta_type_4 20.1 1.2E+02 0.0026 24.7 3.2 22 139-160 103-125 (197)
170 PRK07849 4-amino-4-deoxychoris 20.1 1.2E+02 0.0025 26.6 3.3 26 72-97 222-247 (292)
171 cd01906 proteasome_protease_Hs 20.0 1.4E+02 0.0029 23.5 3.5 25 137-161 98-123 (182)
No 1
>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate.
Probab=100.00 E-value=2.3e-79 Score=516.68 Aligned_cols=186 Identities=51% Similarity=0.812 Sum_probs=179.4
Q ss_pred CeeeccCCCCCChhHHHhhhc----CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHH
Q 029371 1 MVLRTIGINNCNIQGLAEQCC----TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQ 76 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~----~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~ 76 (194)
|||+++|+++++ ++|.++|. |+|||||||||||++|||+|+|||+|+|+||+|++++||+++|++|++||++||+
T Consensus 19 MvL~~~~~~~~~-~~~~~~c~~~~~t~SiWTIDLayLL~~f~v~~~f~T~TlGvnp~y~~~~FY~~~~~~D~~RV~~lF~ 97 (212)
T PF09778_consen 19 MVLRYLGRNNFL-ANFEEICQEEGFTTSIWTIDLAYLLRRFGVRHSFYTVTLGVNPNYSVESFYKKNFDEDENRVNRLFQ 97 (212)
T ss_pred HHHHHcCccchH-HHHHHHHHHccCCcceehhHHHHHHHHcCCCeeEecCccccCcCccccchHHHhhhhHHHHHHHHHH
Confidence 999999999777 99999998 9999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccc----cccCccCCCCCCcceEEEEEEeeCCCceE
Q 029371 77 KARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDV----IVPGFYGSDSGYTGHYILICGYDANSDEF 152 (194)
Q Consensus 77 ~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~----~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~ 152 (194)
+|++.||.|++|++|++||++||++|+ |||||||+++|+|++++.. +.+++++++++|+||||||||||+++++|
T Consensus 98 ~A~~~gi~V~~rsvs~~ei~~hl~~g~-~aIvLVd~~~L~C~~Ck~~~~~~~~~~~~~~~~~Y~GHYVVlcGyd~~~~~~ 176 (212)
T PF09778_consen 98 KAKAAGINVEKRSVSIQEIIEHLSSGG-PAIVLVDASLLHCDLCKSNCFDPIGSKCFGRSPDYQGHYVVLCGYDAATKEF 176 (212)
T ss_pred HHHHcCCceEEeeccHHHHHHHHhCCC-cEEEEEccccccChhhcccccccccccccCCCCCccEEEEEEEeecCCCCeE
Confidence 999999999999999999999999996 9999999999999876443 44689999999999999999999999999
Q ss_pred EEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEEE
Q 029371 153 EIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLIS 188 (194)
Q Consensus 153 ~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I~ 188 (194)
+|||||+++++|++|+++||+||+||||||||||||
T Consensus 177 ~yrdPa~~~~~c~~s~~~ld~AR~s~GTDeDii~Iy 212 (212)
T PF09778_consen 177 EYRDPASSDRVCRVSPEALDEARKSFGTDEDIIFIY 212 (212)
T ss_pred EEeCCccccceeecCHHHHHHHHhccCCCcceEEeC
Confidence 999999999999999999999999999999999997
No 2
>KOG4621 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=9.4e-63 Score=388.24 Aligned_cols=158 Identities=51% Similarity=0.837 Sum_probs=150.8
Q ss_pred HhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCC
Q 029371 34 LQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQY 113 (194)
Q Consensus 34 L~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~ 113 (194)
|++|+|+|+|||+|+|+||+|+.|+|||++||+|+.||++||++|+++||.||+++||+.+|+.+|++|+++||||||+.
T Consensus 1 lhhF~V~~rfcT~T~GadkgYk~eeFYkehfd~detRVd~LFakA~ac~iiie~csVSi~dIqahLaqGnhiAIaLVdq~ 80 (167)
T KOG4621|consen 1 LHHFCVEFRFCTITFGADKGYKIEEFYKEHFDEDETRVDLLFAKAHACGIIIECCSVSIHDIQAHLAQGNHIAIALVDQD 80 (167)
T ss_pred CceeeEEEEEEEEEecCCCCcchHHHHHHhCChHHHHHHHHHHHhhhcceEEEEeeeeHHHHHHHHhcCCeEEEEEecCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Cccccccccc----cc-c---CccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCC-ceeeeChHHHHHHHhhCCCCccE
Q 029371 114 KLSHSWMEDV----IV-P---GFYGSDSGYTGHYILICGYDANSDEFEIRDPASCR-KREKVTLKCLEEARKSFGTDEDL 184 (194)
Q Consensus 114 ~L~~~~~~~~----~~-~---~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~-~~~~~s~~~~e~AR~s~GTDeDi 184 (194)
+|+|+|+++. |. | -|||+.|.|+||||||||||+++++|+|||||+++ -+|++|.++||+||+||||||||
T Consensus 81 ~Lhcdlceeplk~ccfspnghhcfcrtp~YqGHfiVi~GYd~a~~c~~~ndPA~adpg~c~~Sik~fEeARkSfGTDEDi 160 (167)
T KOG4621|consen 81 KLHCDLCEEPLKSCCFSPNGHHCFCRTPCYQGHFIVICGYDAARDCFEINDPASADPGHCRISIKCFEEARKSFGTDEDI 160 (167)
T ss_pred ceehHHHHhHHHHhccCCCCccccccCCcccccEEEEeccccccCeEEEcCcccCCCcceeehhhHHHHHHhccCCCcce
Confidence 9999997544 32 3 58999999999999999999999999999999999 59999999999999999999999
Q ss_pred EEEEcCC
Q 029371 185 LLISLEK 191 (194)
Q Consensus 185 l~I~~~~ 191 (194)
|||++++
T Consensus 161 Lfi~Ldn 167 (167)
T KOG4621|consen 161 LFINLDN 167 (167)
T ss_pred EEEecCC
Confidence 9999874
No 3
>cd02549 Peptidase_C39A A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=99.40 E-value=2.1e-12 Score=99.29 Aligned_cols=130 Identities=22% Similarity=0.260 Sum_probs=87.0
Q ss_pred hhhcCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHH-HHHcCCceEeccccHHHHH
Q 029371 18 EQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQK-ARSAGIKIECGSISGVEIS 96 (194)
Q Consensus 18 ~~c~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~-A~~~gi~v~~rsvs~~eI~ 96 (194)
.-|..+| |+++|+.+|.+..--... . ......|..+. .+.....+-.. |++.|......+.+.. |.
T Consensus 5 ~~C~~~s-----lamvl~~~g~~~~~~~l~--~--~~~~~~~~~~~---~g~~~~~l~~~~a~~~G~~~~~~~~~~~-~~ 71 (141)
T cd02549 5 NGCGPTS-----LAMVLSYLGVKVTKPQLA--A--EGNTYDFAKDG---YGTYPKPIVSAAARKYGLVVRPLTGLLA-LL 71 (141)
T ss_pred CccHHHH-----HHHHHHhcCCCCCHHHHH--h--hccccccCCCC---CCcCHHHHHHHHHhhCCCcEEECCCHHH-HH
Confidence 3466565 899999999875422211 0 01112222111 12223555556 8889987655444444 77
Q ss_pred HHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 97 LMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 97 ~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
+++.+|. |+|+.++... .....||||||.||| ..+.+++.||+.. ....++.+.|+++|.
T Consensus 72 ~~l~~~~-Pvi~~~~~~~-----------------~~~~~gH~vVv~g~~-~~~~~~i~DP~~~-~~~~~~~~~f~~~w~ 131 (141)
T cd02549 72 RQLAAGH-PVIVSVNLGV-----------------SITPSGHAMVVIGYD-RKGNVYVNDPGGG-RRLVVSFDEFEKAWK 131 (141)
T ss_pred HHHHCCC-eEEEEEecCc-----------------ccCCCCeEEEEEEEc-CCCCEEEECCCCC-cCEEEeHHHHHHHHH
Confidence 8888995 9999998621 134789999999999 3445999999875 456799999999999
Q ss_pred hCCC
Q 029371 177 SFGT 180 (194)
Q Consensus 177 s~GT 180 (194)
+.|.
T Consensus 132 ~~~~ 135 (141)
T cd02549 132 RMGG 135 (141)
T ss_pred HcCC
Confidence 9994
No 4
>PF13529 Peptidase_C39_2: Peptidase_C39 like family; PDB: 3ERV_A.
Probab=99.08 E-value=4.9e-10 Score=84.68 Aligned_cols=77 Identities=27% Similarity=0.329 Sum_probs=50.0
Q ss_pred HHHHHHHHHHcCC-ceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCC
Q 029371 71 VDMLFQKARSAGI-KIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS 149 (194)
Q Consensus 71 V~~lF~~A~~~gi-~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~ 149 (194)
...+-+.+++.|. .......++++|++.|.+|+ |+|+.++....... .. .....+.||||||+|||...
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~G~-Pvi~~~~~~~~~~~---~~------~~~~~~~~H~vvi~Gy~~~~ 136 (144)
T PF13529_consen 67 PDDLARYLEKYGYKATDTSDASFDDIKQEIDAGR-PVIVSVNSGWRPPN---GD------GYDGTYGGHYVVIIGYDEDG 136 (144)
T ss_dssp HHHHHHHHHHH-TTEEE-TTS-HHHHHHHHHTT---EEEEEETTSS--T---TE------EEEE-TTEEEEEEEEE-SSE
T ss_pred cHHHHHHHHHcCcceeeccCCcHHHHHHHHHCCC-cEEEEEEcccccCC---CC------CcCCCcCCEEEEEEEEeCCC
Confidence 3566667777887 44567889999999999995 99999986533220 00 00134899999999999977
Q ss_pred ceEEEeCCC
Q 029371 150 DEFEIRDPA 158 (194)
Q Consensus 150 ~~~~~~DPa 158 (194)
.|++.||+
T Consensus 137 -~~~v~DP~ 144 (144)
T PF13529_consen 137 -YVYVNDPW 144 (144)
T ss_dssp --EEEE-TT
T ss_pred -EEEEeCCC
Confidence 89999995
No 5
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=99.07 E-value=1.3e-09 Score=94.86 Aligned_cols=93 Identities=29% Similarity=0.338 Sum_probs=72.6
Q ss_pred HHHHHcCCceEe-ccccHH----HHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCc
Q 029371 76 QKARSAGIKIEC-GSISGV----EISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD 150 (194)
Q Consensus 76 ~~A~~~gi~v~~-rsvs~~----eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~ 150 (194)
..++.+|+.++. .+-+.+ .|.+.|.+|+ |||+.||...|.-... .....+.+|+||+.|||.+.+
T Consensus 57 ~~~~~lG~~~~~~~~~~~~~~~~~l~~~l~~g~-pv~~~~D~~~lpy~~~---------~~~~~~~~H~i~v~G~d~~~~ 126 (317)
T PF14399_consen 57 NLLERLGIKYEWREFSSPDEAWEELKEALDAGR-PVIVWVDMYYLPYRPN---------YYKKHHADHYIVVYGYDEEED 126 (317)
T ss_pred HHHHHCCceEEEEecCCHHHHHHHHHHHHhCCC-ceEEEeccccCCCCcc---------ccccccCCcEEEEEEEeCCCC
Confidence 445668998774 444555 5677788895 9999999999954210 113457899999999999999
Q ss_pred eEEEeCCCCCCceeeeChHHHHHHHhhCC
Q 029371 151 EFEIRDPASCRKREKVTLKCLEEARKSFG 179 (194)
Q Consensus 151 ~~~~~DPa~~~~~~~~s~~~~e~AR~s~G 179 (194)
.+++.|| .....-.+|.++|.+||.+-+
T Consensus 127 ~~~v~D~-~~~~~~~~~~~~l~~A~~~~~ 154 (317)
T PF14399_consen 127 VFYVSDP-PSYEPGRLPYEDLAKARFSEG 154 (317)
T ss_pred EEEEEcC-CCCcceeecHHHHHHHHhccC
Confidence 9999999 455677899999999999877
No 6
>PF11814 DUF3335: Peptidase_C39 like family; InterPro: IPR021770 This family of proteins are functionally uncharacterised. This family is only found in bacteria. This presumed domain is typically between 226 to 230 amino acids in length.
Probab=99.07 E-value=4.1e-09 Score=89.38 Aligned_cols=129 Identities=18% Similarity=0.317 Sum_probs=102.0
Q ss_pred HHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHH-----HHHHHHHcCCceEeccccHHHHHHHHHc
Q 029371 27 TVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDM-----LFQKARSAGIKIECGSISGVEISLMILS 101 (194)
Q Consensus 27 TIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~-----lF~~A~~~gi~v~~rsvs~~eI~~~L~~ 101 (194)
-..||.+..+.|++++.+..+-| |- |....=+++++.|.+ .-++|.+.||+++.+.+|.++|.+.|.+
T Consensus 56 P~GLAlAA~rrG~~vev~~~~~~--pl-----fld~vr~~~kk~v~~~v~~~f~~~a~~~gv~~~~~~~~~~~l~~~l~~ 128 (207)
T PF11814_consen 56 PFGLALAAARRGFKVEVWVSTDG--PL-----FLDSVRSEEKKEVMELVHEDFREEAEQAGVPVHYRPLSLADLRAALAA 128 (207)
T ss_pred hHHHHHHHHHcCCceEEEECCCC--Cc-----eeccCCCHHHHHHHHHHHHHHHHHHHHCCCceecCCCCHHHHHHHHHC
Confidence 37899999999999999998776 32 333333334444433 3368999999999999999999999999
Q ss_pred CCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCC---------ceeeeChHHHH
Q 029371 102 GNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCR---------KREKVTLKCLE 172 (194)
Q Consensus 102 G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~---------~~~~~s~~~~e 172 (194)
|. .+|||+++..+... =.+|+||++|+|... ||++||-... ...-|+.+.||
T Consensus 129 G~-~~lvLIS~y~~~g~----------------k~PHWV~v~g~d~~~--vyihDP~~d~~~~~~~~d~~~lPi~~~~f~ 189 (207)
T PF11814_consen 129 GA-IVLVLISTYRMDGK----------------KVPHWVVVTGVDDDF--VYIHDPDVDAERGESWVDCQHLPIPRADFD 189 (207)
T ss_pred CC-EEEEEEeecccCCC----------------CCCeEEEEEEecCCE--EEEeCCCCCcccCCCchhhccCCccHHHHH
Confidence 95 99999999987652 579999999999865 9999998873 25778889998
Q ss_pred HHHhhCCCCc
Q 029371 173 EARKSFGTDE 182 (194)
Q Consensus 173 ~AR~s~GTDe 182 (194)
+.- +||.+.
T Consensus 190 ~m~-~~G~~~ 198 (207)
T PF11814_consen 190 RMA-RFGKSK 198 (207)
T ss_pred HHH-hhcccc
Confidence 763 577653
No 7
>COG4990 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.77 E-value=5.4e-08 Score=81.12 Aligned_cols=137 Identities=24% Similarity=0.287 Sum_probs=101.9
Q ss_pred hHHHhhhcCCceeHHHHHHHHhhcCccee-----eeecccCCCCCCCcchhhcccccchh-------h--HHHHHHHHHH
Q 029371 14 QGLAEQCCTTSIWTVDLAYLLQKFNVGFS-----YFTITLGANPNYSVETFYKEQLPTDL-------V--RVDMLFQKAR 79 (194)
Q Consensus 14 ~~l~~~c~~~S~WTIDLaylL~~~gv~~~-----f~T~tlG~np~y~~~~fY~~~~~~D~-------~--RV~~lF~~A~ 79 (194)
..+-+.|..+| ||++|+..|=.+. --..|-+.||+ .+|-.+.|+.+. . +=..+.+.|+
T Consensus 38 i~ly~GCEvvs-----lam~L~y~Gk~vtk~~la~~~~t~p~npn---~Gy~GnP~~~~vg~~~n~g~tI~p~al~~fak 109 (195)
T COG4990 38 IGLYQGCEVVS-----LAMMLQYLGKTVTKNILARNWPTHPINPN---SGYVGNPWDAFVGFPYNYGLTIWPTALVSFAK 109 (195)
T ss_pred cccccchHHHH-----HHHHHHHcCCCCcHHHHhhccCCCCCCCC---cCccCCCchhhccCccCCCceechHHHHHHHH
Confidence 56778899888 9999999987665 12233345555 222233333211 1 1256888899
Q ss_pred HcCCce-EeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCC
Q 029371 80 SAGIKI-ECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPA 158 (194)
Q Consensus 80 ~~gi~v-~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa 158 (194)
+..+.+ .....|+.+|...|.+|+ |+.+.+=. ++. |+=|-|+|.|||+.. |+|+||-
T Consensus 110 kY~~~a~d~tGksl~~ik~ql~kg~-PV~iw~T~--~~~-----------------~s~H~v~itgyDk~n--~yynDpy 167 (195)
T COG4990 110 KYNGNAVDLTGKSLSDIKGQLLKGR-PVVIWVTN--FHS-----------------YSIHSVLITGYDKYN--IYYNDPY 167 (195)
T ss_pred HhCCccccCcCCcHHHHHHHHhcCC-cEEEEEec--ccc-----------------cceeeeEeecccccc--eEecccc
Confidence 888764 466789999999999997 77766655 433 999999999999999 9999998
Q ss_pred CCCceeeeChHHHHHHHhhCCCC
Q 029371 159 SCRKREKVTLKCLEEARKSFGTD 181 (194)
Q Consensus 159 ~~~~~~~~s~~~~e~AR~s~GTD 181 (194)
- .+..+++-+-||.+|.+.|..
T Consensus 168 G-~kn~~~~~~~~e~g~n~~g~q 189 (195)
T COG4990 168 G-YKNRKISHTYLEDGWNAQGNQ 189 (195)
T ss_pred c-cchhhhhHHHHHHHHhhhcce
Confidence 4 578889999999999999984
No 8
>cd02418 Peptidase_C39B A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=98.42 E-value=3.9e-06 Score=63.90 Aligned_cols=120 Identities=17% Similarity=0.124 Sum_probs=80.0
Q ss_pred eHHHHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC
Q 029371 26 WTVDLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN 103 (194)
Q Consensus 26 WTIDLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~ 103 (194)
+---|+++++++|++++--.. .++.++ ++.-...+=+.|+..|+......++.++ ..+....
T Consensus 13 gl~~l~~~~~~~g~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~Gl~~~~~~~~~~~-~~l~~~~- 76 (136)
T cd02418 13 GAACLAMIAKYYGKNYSLAKLRELAGTDR--------------EGTSLLGLVKAAEKLGFETRAVKADMDL-FELKDIP- 76 (136)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHcCCCC--------------CCcCHHHHHHHHHHCCCeeEEEEcccch-hhHhcCC-
Confidence 344588999999987653222 111111 1223356667788999987666666653 1222235
Q ss_pred cEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCcc
Q 029371 104 YIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDED 183 (194)
Q Consensus 104 ~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeD 183 (194)
.|+|+.++.. .-.|||+||.|+|.+ .+.+.||+ .....++.+.|++.|. | .
T Consensus 77 ~P~I~~~~~~--------------------~~~~~~~Vl~~~~~~--~~~i~dp~--~~~~~~~~~ef~~~w~--g---~ 127 (136)
T cd02418 77 LPFIAHVIKE--------------------WKLNHYVVVYKIKKK--KILIADPA--VGITKISKEEFEKEWT--G---V 127 (136)
T ss_pred CCEEEEEccC--------------------CCCCeEEEEEEEcCC--EEEEECCC--CCCEEeeHHHHHhhCe--E---E
Confidence 6999988743 156999999999944 58899993 3455799999999995 3 5
Q ss_pred EEEEEcC
Q 029371 184 LLLISLE 190 (194)
Q Consensus 184 il~I~~~ 190 (194)
+|++...
T Consensus 128 ~l~~~~~ 134 (136)
T cd02418 128 ALFLEPT 134 (136)
T ss_pred EEEEecC
Confidence 7777754
No 9
>cd02259 Peptidase_C39_like Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in all sub-families.
Probab=98.23 E-value=1.2e-05 Score=59.84 Aligned_cols=109 Identities=17% Similarity=0.162 Sum_probs=74.4
Q ss_pred eeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCc
Q 029371 25 IWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNY 104 (194)
Q Consensus 25 ~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~ 104 (194)
-|---|+++++++|++++--... +.+. .+.++.....+=+.|+..|........+.++| .+-+.
T Consensus 7 ~gl~~l~~i~~~~g~~~~~~~l~---------~~~~---~~~~~~~~~~l~~~a~~~gl~~~~~~~~~~~l----~~~~~ 70 (122)
T cd02259 7 CGLACLQMLLRYFGIPVRRDVLL---------NAQQ---RRQQGLSLADLVSLANKLGLTAQGVKLPLAAL----SRLQL 70 (122)
T ss_pred hHHHHHHHHHHHcCCCCCHHHHH---------HHHh---hccCCCCHHHHHHHHHHcCCeeeEEEcCHHHh----ccCCC
Confidence 45556899999999876421110 0000 11223444566777899999887777777554 33336
Q ss_pred EEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 105 IAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 105 ~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
|+|+. . -.|||+||.|++ .+.+.+.||+ ......++.+.|++.|.
T Consensus 71 P~i~~-------~-----------------~~~~~~Vl~~~~--~~~~~i~dp~-~~~~~~~~~~~l~~~w~ 115 (122)
T cd02259 71 PALLL-------W-----------------KQGHFVILYGAD--KGQVLIADPL-EEGPVTLSESELEERWT 115 (122)
T ss_pred CEEEE-------c-----------------CCCcEEEEEEEc--CCEEEEECCc-ccCCEEeCHHHHHhhCC
Confidence 99876 1 468999999999 4569999998 44455799999999995
No 10
>PF03412 Peptidase_C39: Peptidase C39 family This is family C39 in the peptidase classification. ; InterPro: IPR005074 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences defined by this cysteine peptidase domain belong to the MEROPS peptidase family C39 (clan CA). It is found in a wide range of ABC transporters, which are maturation proteases for peptide bacteriocins, the proteolytic domain residing in the N-terminal region of the protein []. A number of the proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Lantibiotic and non-lantibiotic bacteriocins are synthesised as precursor peptides containing N-terminal extensions (leader peptides) which are cleaved off during maturation. Most non-lantibiotics and also some lantibiotics have leader peptides of the so-called double-glycine type. These leader peptides share consensus sequences and also a common processing site with two conserved glycine residues in positions -1 and -2. The double- glycine-type leader peptides are unrelated to the N-terminal signal sequences which direct proteins across the cytoplasmic membrane via the sec pathway. Their processing sites are also different from typical signal peptidase cleavage sites, suggesting that a different processing enzyme is involved. ; GO: 0005524 ATP binding, 0008233 peptidase activity, 0006508 proteolysis, 0016021 integral to membrane; PDB: 3K8U_A 3B79_A.
Probab=98.09 E-value=9.3e-06 Score=61.77 Aligned_cols=112 Identities=22% Similarity=0.268 Sum_probs=70.5
Q ss_pred HHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEE
Q 029371 30 LAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIAL 109 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvL 109 (194)
|+++++++|++.+.-..--.... +.++.=...|-+.|++.|+......++.+++ .+...|+|+.
T Consensus 18 l~~l~~~~g~~~s~~~l~~~~~~------------~~~g~s~~~L~~~~~~~gl~~~~~~~~~~~l----~~~~~P~I~~ 81 (131)
T PF03412_consen 18 LAMLLKYYGIPVSEEELRRQLGT------------SEEGTSLADLKRAARKYGLKAKAVKLNFEKL----KRLPLPAIAH 81 (131)
T ss_dssp HHHHHHHTT----HHHHHCCTT-------------BTTB--CCCHHHHHHHTTEEEEEEE--GGGC----TCGGSSEEEE
T ss_pred HHHHHHHhCCCchHHHHHHHhcC------------CccCCCHHHHHHHHHhcccceeeeecchhhh----hhccccEEEE
Confidence 88999999998764432111110 0111112456788999999877666777665 4444688876
Q ss_pred EcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEEEc
Q 029371 110 VDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISL 189 (194)
Q Consensus 110 vd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I~~ 189 (194)
+ -.||||||-|. +.+.+.+.||+ .....++.+.|++.|. -.+|++..
T Consensus 82 ~------------------------~~~h~vVi~~~--~~~~~~i~dP~--~g~~~~~~~~f~~~w~-----G~~l~~~~ 128 (131)
T PF03412_consen 82 L------------------------KDGHFVVIYKI--DDGRVLIYDPK--KGKIKLSKEEFEEIWT-----GEVLLIKP 128 (131)
T ss_dssp E------------------------CCCEEEEEEEE--CCCEEEECCTT--TCEEEEEHHHHHHHEE-----EEEEEEEE
T ss_pred e------------------------cCcceEEEEeE--cCcEEEEEeCC--CCeEEEeHHHHHhhCC-----CEEEEEEe
Confidence 6 25899999999 44569999993 3456799999999995 34666554
Q ss_pred C
Q 029371 190 E 190 (194)
Q Consensus 190 ~ 190 (194)
+
T Consensus 129 ~ 129 (131)
T PF03412_consen 129 S 129 (131)
T ss_dssp -
T ss_pred C
Confidence 3
No 11
>cd02423 Peptidase_C39G A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=97.87 E-value=0.00015 Score=54.63 Aligned_cols=104 Identities=20% Similarity=0.223 Sum_probs=73.3
Q ss_pred HHHHHhhcC-cceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEE
Q 029371 30 LAYLLQKFN-VGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIA 106 (194)
Q Consensus 30 LaylL~~~g-v~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~ 106 (194)
|++++++|| ++++--.. .++.++ ++.....+-+.|++.|+......++.++|.. -..|+
T Consensus 17 l~~~~~~~g~~~~~~~~l~~~~~~~~--------------~~~s~~~l~~~a~~~Gl~~~~~~~~~~~L~~----~~lP~ 78 (129)
T cd02423 17 LATLLRYYGGINITEQEVLKLMLIRS--------------EGFSMLDLKRYAEALGLKANGYRLNLDKLNA----LQIPV 78 (129)
T ss_pred HHHHHHhcCCCCCCHHHHHHHhCccc--------------CCcCHHHHHHHHHHCCCcceEEEcCHHHHhh----CCCCE
Confidence 789999999 87653322 222221 1333466778889999987777777766543 34689
Q ss_pred EEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 107 IALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 107 IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
|+.++.+ =.|||+||-|+|. +++.+.||+.. + ..+|.+.|++-|.
T Consensus 79 i~~~~~~---------------------~~~~~vvl~~~~~--~~~~i~dp~~~-~-~~~s~~el~~~w~ 123 (129)
T cd02423 79 IVLVNNG---------------------GYGHFVVIKGIDG--DRVLVGDPALG-N-ISMSREEFERIWT 123 (129)
T ss_pred EEEEecC---------------------CCceEEEEEEEeC--CEEEEECCCCC-C-cccCHHHHHHHhc
Confidence 8776311 2579999999994 45999999875 3 4799999999994
No 12
>cd02424 Peptidase_C39E A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family, which contains Colicin V perocessing peptidase.
Probab=97.81 E-value=0.00021 Score=54.79 Aligned_cols=104 Identities=19% Similarity=0.242 Sum_probs=68.9
Q ss_pred HHHHHHhh-cCccee--eeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371 29 DLAYLLQK-FNVGFS--YFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI 105 (194)
Q Consensus 29 DLaylL~~-~gv~~~--f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~ 105 (194)
-|++++++ +|.+++ .....+|.+++ +.-...+=+.|++.|+....-.++.+++.+. .++.|
T Consensus 16 ~l~~i~~~~~g~~~~~~~l~~~~~~~~~--------------g~s~~~l~~~a~~~Gl~~k~~~~~~~~l~~~--~~p~P 79 (129)
T cd02424 16 VIQMLYNHYYKKKYDLNELKIKANLKKN--------------GLSIYDLENLAKKFGLETESYQGSFLEFLEL--KNKFI 79 (129)
T ss_pred HHHHHHHHhcCCCccHHHHHHHhCCCCC--------------CccHHHHHHHHHHcCCceeEEEcCHHHHhhc--cCCEE
Confidence 38999999 887653 33333333222 3334677788889998766556677665442 33456
Q ss_pred EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371 106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR 175 (194)
Q Consensus 106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR 175 (194)
+|+. +. =..||||+-+.+.+. +.+.||+.. +. .+|.+.|++.|
T Consensus 80 ~i~~-~~----------------------~~~hfvVl~~~~~~~--v~I~DP~~g-~~-~~s~~~f~~~w 122 (129)
T cd02424 80 ILLK-SN----------------------GLNHFVIVKKIKKNK--FIVLDPKKG-KY-KITYKEFEKIF 122 (129)
T ss_pred EEEe-cC----------------------CCCeEEEEEEEECCE--EEEECCCCC-CE-EeCHHHHHHHh
Confidence 6643 11 115999999987654 999999433 33 69999999999
No 13
>cd02420 Peptidase_C39D A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=97.70 E-value=0.00038 Score=52.39 Aligned_cols=101 Identities=21% Similarity=0.297 Sum_probs=71.2
Q ss_pred HHHHHhhcCccee--eeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371 30 LAYLLQKFNVGFS--YFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAI 107 (194)
Q Consensus 30 LaylL~~~gv~~~--f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I 107 (194)
|+++++++|++.+ .....++.++ ++.....+-+.|++.|........+.++|. +-..|+|
T Consensus 17 l~~i~~~~g~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~Gl~~~~~~~~~~~L~----~~~lP~I 78 (125)
T cd02420 17 LAIILAYYGRYVPLSELRIACGVSR--------------DGSNASNLLKAAREYGLTAKGYKKDLEALR----EVSLPAI 78 (125)
T ss_pred HHHHHHHcCCCCCHHHHHHHcCCCC--------------CCCCHHHHHHHHHHcCcccceEecCHHHHh----cCCCCEE
Confidence 7899999998654 3333333221 122335677788999998777777777654 3346888
Q ss_pred EEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 108 ALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 108 vLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
++. -.|||+||.|++.+ .+.+.||+.. ...+|.+.|++.|.
T Consensus 79 ~~~------------------------~~g~~~Vl~~~~~~--~~~i~dp~~~--~~~~s~~el~~~~~ 119 (125)
T cd02420 79 VFW------------------------NFNHFLVVEGFDKR--KVFLNDPATG--RRTVSLEEFDQSFT 119 (125)
T ss_pred EEe------------------------CCCEEEEEEEEeCC--EEEEECCCcC--ceeecHHHHHhhCC
Confidence 653 24899999999944 5999999863 34699999999994
No 14
>PF12385 Peptidase_C70: Papain-like cysteine protease AvrRpt2; InterPro: IPR022118 This is a family of cysteine proteases, found in actinobacteria, protobacteria and firmicutes. Papain-like cysteine proteases play a crucial role in plant-pathogen/pest interactions. On entering the host they act on non-self substrates, thereby manipulating the host to evade proteolysis []. AvrRpt2 from Pseudomonas syringae pv tomato DC3000 triggers resistance to P. syringae-2-dependent defence responses, including hypersensitive cell death, by cleaving the Arabidopsis RIN4 protein which is monitored by the cognate resistance protein RPS2 [].
Probab=97.63 E-value=0.00027 Score=58.09 Aligned_cols=121 Identities=14% Similarity=0.218 Sum_probs=84.9
Q ss_pred CceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcc--cccc---hhhHHHHHHHHHHHcCCceEe-ccccHHHHH
Q 029371 23 TSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKE--QLPT---DLVRVDMLFQKARSAGIKIEC-GSISGVEIS 96 (194)
Q Consensus 23 ~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~--~~~~---D~~RV~~lF~~A~~~gi~v~~-rsvs~~eI~ 96 (194)
.+-|.--.+|++.-++-.. +.+|.+ -||- -++. +...+.++-..+.-.++++.. ++.+.+++.
T Consensus 34 mgCWaA~~~Mv~~w~~~~p-------rlg~~e----Lyra~~Glp~~lq~g~d~~~~~~~~gl~~v~~P~~~~~t~e~~~ 102 (166)
T PF12385_consen 34 MGCWAACACMVGGWRDQGP-------RLGPPE----LYRADEGLPSQLQDGLDPEDFIRNEGLKEVPEPANASYTAEGLA 102 (166)
T ss_pred ccHHHHHHHHHHHHhcCCC-------CCCcHH----HHHHhcCCchhhcccccHHHHHHhcCccccCCCcccccCHHHHH
Confidence 4679888888888776544 233331 1332 0221 223344444555555555554 789999999
Q ss_pred HHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHH
Q 029371 97 LMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEA 174 (194)
Q Consensus 97 ~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~A 174 (194)
.+|.+. +|+.|=+++. ...+.||-+||.|-|.+.+.|.|+||... +.-+++++.|+.|
T Consensus 103 ~LL~~y-GPLwv~~~~P------------------~~~~~~H~~ViTGI~~dg~~i~~~DP~~g-P~~~m~l~~fn~~ 160 (166)
T PF12385_consen 103 NLLREY-GPLWVAWEAP------------------GDSWVAHASVITGIDGDGDSIHVHDPEQG-PNLRMSLDMFNQA 160 (166)
T ss_pred HHHHHc-CCeEEEecCC------------------CCcceeeEEEEEeecCCCCeEEecCcccC-CCceecHHHHhhh
Confidence 999886 4777776666 24588999999999999999999999997 5556999999986
No 15
>cd02419 Peptidase_C39C A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=97.52 E-value=0.00097 Score=50.21 Aligned_cols=102 Identities=14% Similarity=0.099 Sum_probs=71.9
Q ss_pred HHHHHHhhcCcceeee--ecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEE
Q 029371 29 DLAYLLQKFNVGFSYF--TITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIA 106 (194)
Q Consensus 29 DLaylL~~~gv~~~f~--T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~ 106 (194)
-|+++++++|++++-- ...++.+ .++.....+=+.|++.|.......++.+++.. -..|+
T Consensus 16 ~l~~~~~~~g~~~~~~~l~~~~~~~--------------~~~~~~~~l~~~a~~~Gl~~~~~~~~~~~l~~----~~lP~ 77 (127)
T cd02419 16 CLAMIASYHGHHVDLASLRQRFPVS--------------LKGATLADLIDIAQQLGLSTRALRLDLEELGQ----LKLPC 77 (127)
T ss_pred HHHHHHHHcCCCCCHHHHHHHcCCC--------------CCCcCHHHHHHHHHHCCCceeEEEccHHHHhh----CCCCE
Confidence 3788999999876522 2222222 22444567778888999988777777766544 23688
Q ss_pred EEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 107 IALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 107 IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
|+.. -.|||+||.|.+ .+.+.+.||+.. ...++.+.|++.|.
T Consensus 78 i~~~------------------------~~g~~~Vl~~~~--~~~~~i~dp~~~--~~~~~~~el~~~~~ 119 (127)
T cd02419 78 ILHW------------------------DMNHFVVLKKVS--RRRIVIHDPALG--KRKLSLEEASRHFT 119 (127)
T ss_pred EEEE------------------------CCCEEEEEEEEc--CCEEEEECCccC--CEEEcHHHHHhhCC
Confidence 8652 238999999985 446999999764 44699999999994
No 16
>cd02425 Peptidase_C39F A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=97.51 E-value=0.0011 Score=49.62 Aligned_cols=106 Identities=19% Similarity=0.157 Sum_probs=72.5
Q ss_pred eeHHHHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccH-HHHHHHHHc
Q 029371 25 IWTVDLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISG-VEISLMILS 101 (194)
Q Consensus 25 ~WTIDLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~-~eI~~~L~~ 101 (194)
.|---|+++++++|++++--.. .++.++ ++.-...+=+.|++.|+......++. +.|. +
T Consensus 12 ~~l~~l~~~~~~~~~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~gl~~~~~~~~~~~~l~----~ 73 (126)
T cd02425 12 CGLACYAMILNYFGYKVSLNELREKYELGR--------------DGLSLSYLKQLLEEYGFKCKVYKISFKKNLY----P 73 (126)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHhccCCC--------------CCcCHHHHHHHHHHCCCcceEEEEchHHHHh----h
Confidence 4556789999999987664432 222222 12223556677888999877667777 4443 3
Q ss_pred CCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 102 GNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 102 G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
-..|+|++. -.|||+||.+++.+ .+.+.||... + ..++.+.|++-|.
T Consensus 74 ~~lP~I~~~------------------------~~~~~~Vl~~~~~~--~~~i~dp~~~-~-~~~~~~~l~~~~~ 120 (126)
T cd02425 74 LKLPVIIFW------------------------NNNHFVVLEKIKKN--KVTIVDPAIG-R-IKISIDEFLENFS 120 (126)
T ss_pred CCCCEEEEE------------------------cCCcEEEEEEEECC--EEEEEcCCCC-C-EEECHHHHHhhCC
Confidence 346888642 13899999999755 4888999885 3 3699999999883
No 17
>cd02417 Peptidase_C39_likeA A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this
Probab=97.51 E-value=0.00052 Score=51.25 Aligned_cols=104 Identities=17% Similarity=0.196 Sum_probs=71.6
Q ss_pred HHHHHHHhhcCcceee--eecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371 28 VDLAYLLQKFNVGFSY--FTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI 105 (194)
Q Consensus 28 IDLaylL~~~gv~~~f--~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~ 105 (194)
--|+++++++|++++- ....++.. .++.....+=+.|++.|.......++.++| .+-..|
T Consensus 10 ~~l~~i~~~~g~~~~~~~l~~~~~~~--------------~~~~~~~~l~~~a~~~Gl~~~~~~~~~~~l----~~~~lP 71 (121)
T cd02417 10 LALVLLARYHGIAADPEQLRHEFGLA--------------GEPFNSTELLLAAKSLGLKAKAVRQPVERL----ARLPLP 71 (121)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHhcCC--------------CCCCCHHHHHHHHHHcCCeeEEEecCHHHh----ccCCCC
Confidence 3488999999987652 22222221 112334566677999999887777777654 333468
Q ss_pred EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
+|++. -.|||+||.+.|. +.+.+.||+.. ....++.+.|++.|.
T Consensus 72 ~I~~~------------------------~~g~~~Vl~~~~~--~~~~i~dp~~~-~~~~~~~~el~~~~~ 115 (121)
T cd02417 72 ALAWD------------------------DDGGHFILAKLDG--QKYLIQDPISQ-RPEVLSREEFEARWS 115 (121)
T ss_pred EEEEc------------------------cCCCEEEEEEEcC--CCEEEECCCcC-CCeecCHHHHHhhcC
Confidence 88551 2479999999884 45999999875 444799999999994
No 18
>cd02421 Peptidase_C39_likeD A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this sub-family.
Probab=97.39 E-value=0.0011 Score=49.85 Aligned_cols=114 Identities=20% Similarity=0.174 Sum_probs=78.1
Q ss_pred eHHHHHHHHhhcCcceee--eecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC
Q 029371 26 WTVDLAYLLQKFNVGFSY--FTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN 103 (194)
Q Consensus 26 WTIDLaylL~~~gv~~~f--~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~ 103 (194)
|---|+++++++|++++- ....+|.+. ++.....+=+.|+..|.......++.+.|. +-.
T Consensus 8 ~l~~l~~i~~~~g~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~Gl~~~~~~~~~~~l~----~~~ 69 (124)
T cd02421 8 LLDCLVLLARQFGKPASRDSLVAGLPLDD--------------GRLSPALFPRAAARAGLSARVVRRPLDAIP----TLL 69 (124)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHhcCCCCC--------------CCcCHHHHHHHHHHCCCcceeeeCCHHHCC----ccc
Confidence 334589999999997663 333333321 133346778888999998777777776543 334
Q ss_pred cEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCcc
Q 029371 104 YIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDED 183 (194)
Q Consensus 104 ~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeD 183 (194)
.|+|+.. -.|||+||.+.|. +++.+.||+.+.....++.+.|++.|. ..
T Consensus 70 lP~i~~~------------------------~~g~~~Vl~~~~~--~~~~i~dp~~~~~~~~~~~~el~~~~~-----g~ 118 (124)
T cd02421 70 LPAILLL------------------------KNGRACVLLGVDD--GHARILDPESGGGEVEISLEELEEEYS-----GY 118 (124)
T ss_pred CCEEEEE------------------------cCCCEEEEEEecC--CeEEEEccCCCCCcEEEcHHHHHhhCC-----eE
Confidence 6888531 3589999999986 559999998434444699999999993 34
Q ss_pred EEEEE
Q 029371 184 LLLIS 188 (194)
Q Consensus 184 il~I~ 188 (194)
+|++.
T Consensus 119 ~ll~~ 123 (124)
T cd02421 119 AIFVK 123 (124)
T ss_pred EEEEe
Confidence 66653
No 19
>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein. This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.
Probab=96.83 E-value=0.0034 Score=61.01 Aligned_cols=108 Identities=19% Similarity=0.253 Sum_probs=75.1
Q ss_pred HHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371 30 LAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAI 107 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I 107 (194)
||+++++||.+++--+- -.|++ .|+.-...+-+.|++.|...+.-..+.+++.. =+.|+|
T Consensus 18 l~mi~~~~g~~~~~~~lr~~~~~~--------------~~g~s~~~l~~~~~~~g~~~~~~~~~~~~l~~----~~lP~i 79 (710)
T TIGR03796 18 LAMILAYYGRYVPLEELREECGVS--------------RDGSKASNLLKAARSYGLEAKGFRKELDALAE----LPLPYI 79 (710)
T ss_pred HHHHHHHcCCCCCHHHHHHHcCCC--------------CCCCCHHHHHHHHHHCCCEeEEEecCHHHhcc----CCCCEE
Confidence 78999999987663332 22222 23445578889999999987655556665533 235888
Q ss_pred EEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEE
Q 029371 108 ALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLI 187 (194)
Q Consensus 108 vLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I 187 (194)
+..+ .+|||||-+.+.+ .+++.||+... ..++.+.|++.|. | .++++
T Consensus 80 ~~~~------------------------~~h~vvl~~~~~~--~~~i~dP~~g~--~~~~~~e~~~~~~--g---~~l~~ 126 (710)
T TIGR03796 80 VFWN------------------------FNHFVVVEGFRGG--RVYLNDPALGP--RTVSLEEFDESFT--G---VVLTF 126 (710)
T ss_pred EEEc------------------------CCcEEEEEEEeCC--EEEEECCCCCC--EEccHHHHHhhCC--C---eEEEE
Confidence 6542 3799999998665 59999999853 3589999999873 2 35555
Q ss_pred E
Q 029371 188 S 188 (194)
Q Consensus 188 ~ 188 (194)
.
T Consensus 127 ~ 127 (710)
T TIGR03796 127 E 127 (710)
T ss_pred E
Confidence 4
No 20
>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter. This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.
Probab=96.49 E-value=0.012 Score=57.36 Aligned_cols=107 Identities=18% Similarity=0.129 Sum_probs=72.7
Q ss_pred HHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEE
Q 029371 30 LAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIAL 109 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvL 109 (194)
|++++++||.+++..+-.-+.. .+.++.-+..+-+.|++.|.....-..+.+++. +.+-+.|+|+.
T Consensus 12 l~~i~~~~g~~~~~~~lr~~~~------------~~~~g~s~~~l~~~~~~~g~~~~~~~~~~~~l~--~~~~~~P~I~~ 77 (708)
T TIGR01193 12 LSMILKKYGTEYSLAKLRQLAK------------TDLEGTTVLGLVKAAEYLNFEAKAIQADMSLFE--DKNLPLPFIAH 77 (708)
T ss_pred HHHHHHHcCCCCCHHHHHHHhC------------CCCCCCCHHHHHHHHHHCCCEEEEEecCHHHhc--cccCCCCEEEE
Confidence 7899999998877554321111 112355668899999999998766556665432 22334689974
Q ss_pred -EcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCC--CCCCceeeeChHHHHHHH
Q 029371 110 -VDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDP--ASCRKREKVTLKCLEEAR 175 (194)
Q Consensus 110 -vd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DP--a~~~~~~~~s~~~~e~AR 175 (194)
.+.+ =..|||||-+++.+ .+++.|| +.. ...++.+.|++.|
T Consensus 78 ~~~~~---------------------~~~H~vVl~~~~~~--~~~i~dP~~~~g--~~~~~~~ef~~~~ 121 (708)
T TIGR01193 78 VIKNG---------------------KLPHYYVVYGVTKN--HLIIADPDPTVG--ITKISKEDFYEEW 121 (708)
T ss_pred EccCC---------------------CCCcEEEEEEEeCC--EEEEEcCCcccC--CEEecHHHHHhhC
Confidence 2111 23599999999854 5999999 554 3369999999988
No 21
>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.
Probab=96.20 E-value=0.015 Score=56.57 Aligned_cols=100 Identities=20% Similarity=0.187 Sum_probs=70.0
Q ss_pred HHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371 30 LAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAI 107 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I 107 (194)
|++++++||.+++...- .+|++ .|+.....+-..|++.|.....-..+.+++.. =+.|+|
T Consensus 5 l~~i~~~~g~~~~~~~lr~~~~~~--------------~~g~~~~~l~~~~~~~G~~~~~~~~~~~~l~~----~~lP~i 66 (694)
T TIGR01846 5 LSLLAQVHNIAVTPSQLRHMLGHA--------------GASLDDLEILLAAKQLGLKAKAVKVSIGRLNK----LPLPAL 66 (694)
T ss_pred HHHHHHHcCCCCCHHHHHHhcCCC--------------CCCCCHHHHHHHHHHCCCEEEEEeCCHHHccC----CCCCEE
Confidence 78899999887765443 22222 22455577888899999987655556655433 235777
Q ss_pred EEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371 108 ALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR 175 (194)
Q Consensus 108 vLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR 175 (194)
+.. .+|||||.+.+.+ .+++.||+.. ....++.+.|++.|
T Consensus 67 ~~~-------------------------~~~~vvl~~~~~~--~~~i~Dp~~g-~~~~i~~~e~~~~~ 106 (694)
T TIGR01846 67 IDG-------------------------EGGWFVLGKLTAN--GVTIYDPPGD-APEVLSREVLEALW 106 (694)
T ss_pred EEE-------------------------CCcEEEEEEEcCC--EEEEEcCCCC-CceeeCHHHHHhhC
Confidence 421 3589999998865 5999999987 44569999999988
No 22
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=96.05 E-value=0.027 Score=54.67 Aligned_cols=105 Identities=20% Similarity=0.177 Sum_probs=71.6
Q ss_pred HHHHHHHhhcCcceeeee--cccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371 28 VDLAYLLQKFNVGFSYFT--ITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI 105 (194)
Q Consensus 28 IDLaylL~~~gv~~~f~T--~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~ 105 (194)
-=||+++++||.+++-.. ...|+ +.++.-..++-+.|++.|+.......+.+++ .+-+.|
T Consensus 3 aclami~~~~g~~~~l~~lr~~~~~--------------~~~g~sl~~l~~~~~~~g~~~~~~~~~~~~l----~~~~~P 64 (694)
T TIGR03375 3 DCLLLLARHYGRPVSREALVAGLPL--------------EDGRLTPELLPRAARRAGLSARLVKRSLDDI----SPLLLP 64 (694)
T ss_pred HHHHHHHHHcCCCCCHHHHHhhCCC--------------CCCCCCHHHHHHHHHHCCCEEEEecCCHhhc----CcCCCC
Confidence 347888888888765332 11111 2335556888999999999876555666544 343468
Q ss_pred EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371 106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR 175 (194)
Q Consensus 106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR 175 (194)
+|+..+ .+|||||.+.+.+. .+++.||+.......++.+.|++-|
T Consensus 65 ~i~~~~------------------------~~h~vvl~~~~~~~-~~~i~DP~~g~~~~~~~~~e~~~~~ 109 (694)
T TIGR03375 65 AILLLK------------------------DGRACVLLGIDEDG-KARVLLPETGDGEQELSLDALEALY 109 (694)
T ss_pred EEEEEc------------------------CCcEEEEEEEcCCC-cEEEEccCCCCCceEecHHHHHhhc
Confidence 885432 36999999987753 3999999997222368999999987
No 23
>PF05543 Peptidase_C47: Staphopain peptidase C47; InterPro: IPR008750 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the peptidase family C47 (staphopain family, clan CA). The type example are the staphopains, which are one of four major families of proteinases secreted by the Gram-positive Staphylococcus aureus. These staphylococcal cysteine proteases are secreted as preproenzymes that are proteolytically cleaved to generate the mature enzyme [, , ].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1X9Y_D 1Y4H_B 1PXV_B 1CV8_A.
Probab=95.82 E-value=0.04 Score=45.94 Aligned_cols=77 Identities=17% Similarity=0.195 Sum_probs=49.9
Q ss_pred HHHHHHHHHcCC--ceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCC
Q 029371 72 DMLFQKARSAGI--KIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS 149 (194)
Q Consensus 72 ~~lF~~A~~~gi--~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~ 149 (194)
++..+-++..|. ..+.+..|.+|+++.+.+++ +++++.+..-. .+-...||=+||+||-...
T Consensus 69 ~~~i~y~ks~g~~~~~~n~~~s~~eV~~~~~~nk-~i~i~~~~v~~---------------~~~~~~gHAlavvGya~~~ 132 (175)
T PF05543_consen 69 NQMIKYAKSQGRNPQYNNRMPSFDEVKKLIDNNK-GIAILADRVEQ---------------TNGPHAGHALAVVGYAKPN 132 (175)
T ss_dssp HHHHHHHHHTTEEEEEECS---HHHHHHHHHTT--EEEEEEEETTS---------------CTTB--EEEEEEEEEEEET
T ss_pred HHHHHHHHHcCcchhHhcCCCCHHHHHHHHHcCC-CeEEEeccccc---------------CCCCccceeEEEEeeeecC
Confidence 456666777775 57789999999999999997 77777764422 1233799999999998744
Q ss_pred c---eEEEeCCCCCCcee
Q 029371 150 D---EFEIRDPASCRKRE 164 (194)
Q Consensus 150 ~---~~~~~DPa~~~~~~ 164 (194)
. .++|=||=..+-.+
T Consensus 133 ~g~~~y~~WNPW~~~~~~ 150 (175)
T PF05543_consen 133 NGQKTYYFWNPWWNDVMI 150 (175)
T ss_dssp TSEEEEEEE-TT-SS-EE
T ss_pred CCCeEEEEeCCccCCcEE
Confidence 4 68888997765544
No 24
>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein. Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif
Probab=95.69 E-value=0.045 Score=53.12 Aligned_cols=102 Identities=16% Similarity=0.094 Sum_probs=71.3
Q ss_pred eHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371 26 WTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI 105 (194)
Q Consensus 26 WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~ 105 (194)
|---||++++++|.+++--+---+ + ++ -...+-+.|++.|.....-..+.+++.. -+.|
T Consensus 4 ~~~~l~~i~~~~~~~~~~~~lr~~----------~------~g-~~~~l~~~~~~~g~~~~~~~~~~~~l~~----~~lP 62 (686)
T TIGR03797 4 LLVACAAVGRAMGIEIRPPARSEN----------L------SR-SPEPLEAIARASRLRIRRVRLEGGWWRQ----DSGP 62 (686)
T ss_pred HHHHHHHHHHHhCCCCChHHHHHH----------c------CC-CHHHHHHHHHHCCCceEEEecCHHHHhh----CCCC
Confidence 445688999999988775553111 1 23 3678889999999987655555555433 2468
Q ss_pred EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHH
Q 029371 106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEA 174 (194)
Q Consensus 106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~A 174 (194)
+|+..| -.+|||||.+.+. +++++.||+... ...++.+.|++.
T Consensus 63 ~i~~~~-----------------------~~~h~vvl~~~~~--~~~~i~dP~~g~-~~~~~~~e~~~~ 105 (686)
T TIGR03797 63 LLAYTA-----------------------EDGRPVALLPVSR--GGYEIFDPATGT-RRRVDAAMAATL 105 (686)
T ss_pred EEEEEc-----------------------CCCCEEEEEEEcC--CEEEEECCCCCC-CcccCHHHHHhc
Confidence 885432 1489999999854 569999999865 436899999766
No 25
>PF05023 Phytochelatin: Phytochelatin synthase; InterPro: IPR007719 This entry represents plant phytochelatin synthases (also known as glutathione gamma-glutamylcysteinyltransferase; 2.3.2.15 from EC), which is involved in the synthesis of phytochelatins (PC) and homophytochelatins (hPC), the heavy-metal-binding peptides of plants. This enzyme is required for detoxification of heavy metals such as cadmium and arsenate. The N-terminal region of phytochelatin synthase contains the active site, as well as four highly conserved cysteine residues that appear to play an important role in heavy-metal-induced phytochelatin catalysis. The C-terminal region is rich in cysteines, and may act as a metal sensor, whereby the Cys residues bind cadmium ions to bring them into closer proximity and transferring them to the activation site in the N-terminal catalytic domain []. The C-terminal region displays homology to the functional domains of metallothionein and metallochaperone.; GO: 0016756 glutathione gamma-glutamylcysteinyltransferase activity, 0046872 metal ion binding, 0010038 response to metal ion, 0046938 phytochelatin biosynthetic process; PDB: 2BTW_A 2BU3_B.
Probab=95.63 E-value=0.15 Score=43.61 Aligned_cols=89 Identities=28% Similarity=0.250 Sum_probs=61.1
Q ss_pred HHHHHHHHHHcCCceE---eccccHHHHHHHHH----cCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEE
Q 029371 71 VDMLFQKARSAGIKIE---CGSISGVEISLMIL----SGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILIC 143 (194)
Q Consensus 71 V~~lF~~A~~~gi~v~---~rsvs~~eI~~~L~----~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLc 143 (194)
..++...|+..|+.++ .+..|.++..+++. +.+..+||-.|..-|.-. =.|||=-|-
T Consensus 99 L~e~~~la~~~g~~~~~~~~~~~s~~~FR~~l~~~~~~~~~~livnf~R~~lgq~----------------G~GHfSPig 162 (212)
T PF05023_consen 99 LDEFACLAKCNGLRVEVYRADDSSLDEFRQHLKEALSDPNDFLIVNFDRKALGQT----------------GGGHFSPIG 162 (212)
T ss_dssp HHHHHHHHHTTT-EEEEEEGGGS-HHHHHHHHHHHCTSTTEEEEEEEEGGGGTSS----------------SSEEEEEEE
T ss_pred HHHHHHHHHhcCCceEEEeCCcCCHHHHHHHHHHHhCCCCCEEEEECcccccCCC----------------CCCcccccc
Confidence 4778899999998655 36789999888874 233577777777766431 269999999
Q ss_pred EeeCCCceEEEeCCC-CCCceeeeChHHHHHHH
Q 029371 144 GYDANSDEFEIRDPA-SCRKREKVTLKCLEEAR 175 (194)
Q Consensus 144 GYd~~~~~~~~~DPa-~~~~~~~~s~~~~e~AR 175 (194)
|||++++.|.+.|++ +.-.-.-++.+.|=+|=
T Consensus 163 aY~~~tD~vLilDVar~kYpp~WV~~~~L~~AM 195 (212)
T PF05023_consen 163 AYDAETDRVLILDVARFKYPPYWVPLERLYEAM 195 (212)
T ss_dssp EEETTTTEEEE--S-TTT---EEEEHHHHHHHH
T ss_pred eecccCCeEEEEecccccCCCEEeEHHHHHHHH
Confidence 999999999999999 45455558877776653
No 26
>cd02619 Peptidase_C1 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some exceptions like cathepsins B, C, H and X, which are exopeptidases. Papain-like CPs have different functions in various organisms. Plant CPs are used to mobilize storage proteins in seeds while mammalian CPs are primarily lysosomal enzymes responsible for protein degradation in the lysosome. Papain-like CPs are synthesized as inactive proenzymes with N-terminal propeptide regions, which are removed upon activation. Bleomycin hydrolase (BH) is a CP that detoxifies bleomycin by hydrolysis of an amide group. It acts as a carboxypeptidase on its C-terminus to convert itself into an aminopeptidase and peptide ligase. BH is found in all tissues in mammals as well as in many other eukaryotes. It forms a hexameric ring barrel str
Probab=95.16 E-value=0.084 Score=42.80 Aligned_cols=81 Identities=20% Similarity=0.260 Sum_probs=48.0
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCCCcccccccccc---ccCccCCCCCCcceEEEEEEeeCCC----ceEEEeCCCCCC--
Q 029371 91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVI---VPGFYGSDSGYTGHYILICGYDANS----DEFEIRDPASCR-- 161 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~---~~~~~~~~~~Y~GHYVVLcGYd~~~----~~~~~~DPa~~~-- 161 (194)
+.++|+++|.++ +|+++-++..--.-....... ............||-|+|+|||... +-+.++|-=-..
T Consensus 124 ~~~~ik~aL~~~-gPv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Hav~ivGy~~~~~~~~~~~i~~NSwG~~wg 202 (223)
T cd02619 124 NIEDIKEALAKG-GPVVAGFDVYSGFDRLKEGIIYEEIVYLLYEDGDLGGHAVVIVGYDDNYVEGKGAFIVKNSWGTDWG 202 (223)
T ss_pred hHHHHHHHHHHC-CCEEEEEEcccchhcccCccccccccccccCCCccCCeEEEEEeecCCCCCCCCEEEEEeCCCCccc
Confidence 368899999987 378877775421111111111 0111122345689999999999864 678888854432
Q ss_pred --ceeeeChHHHH
Q 029371 162 --KREKVTLKCLE 172 (194)
Q Consensus 162 --~~~~~s~~~~e 172 (194)
-..+++.+.+.
T Consensus 203 ~~Gy~~i~~~~~~ 215 (223)
T cd02619 203 DNGYGRISYEDVY 215 (223)
T ss_pred cCCEEEEehhhhh
Confidence 25556665554
No 27
>cd02248 Peptidase_C1A Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain is an endopeptidase with specific substrate preferences, primarily for bulky hydrophobic or aromatic residues at the S2 subsite, a hydrophobic pocket in papain that accommodates the P2 sidechain of the substrate (the second residue away from the scissile bond). Most members of the papain subfamily are endopeptidases. Some exceptions to this rule can be explained by specific details of the catalytic domains like the occluding loop in cathepsin B which confers an additional carboxydipeptidyl activity and the mini-chain of cathepsin H resulting in an N-terminal exopeptidase activity. Papain-like CPs have different functions in various organisms. Plant CPs are used to mobilize storage proteins in seeds. Parasitic CPs act extracellularly to help invade tissues and cells, to h
Probab=94.44 E-value=0.16 Score=41.33 Aligned_cols=61 Identities=10% Similarity=0.111 Sum_probs=37.7
Q ss_pred HHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCC--CceEEEeCC
Q 029371 92 GVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN--SDEFEIRDP 157 (194)
Q Consensus 92 ~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~--~~~~~~~DP 157 (194)
.++|+++|.++ +|+++-++..- ... ...+..... .+....+|-|+|+||+.+ .+-++++|-
T Consensus 117 ~~~ik~~l~~~-gPV~~~~~~~~~f~~y--~~Giy~~~~--~~~~~~~Hav~iVGy~~~~~~~ywiv~NS 181 (210)
T cd02248 117 EEALKAALANY-GPVSVAIDASSSFQFY--KGGIYSGPC--CSNTNLNHAVLLVGYGTENGVDYWIVKNS 181 (210)
T ss_pred HHHHHHHHhhc-CCEEEEEecCcccccC--CCCceeCCC--CCCCcCCEEEEEEEEeecCCceEEEEEcC
Confidence 68899999886 48888777652 111 111111111 113467899999999987 345677764
No 28
>PF00112 Peptidase_C1: Papain family cysteine protease This is family C1 in the peptidase classification. ; InterPro: IPR000668 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of proteins belong to the peptidase family C1, sub-family C1A (papain family, clan CA). It includes proteins classed as non-peptidase homologs. These are have either been shown experimentally to lack peptidase activity or lack one or more of the active site residues. The papain family has a wide variety of activities, including broad-range (papain) and narrow-range endo-peptidases, aminopeptidases, dipeptidyl peptidases and enzymes with both exo- and endo-peptidase activity []. Members of the papain family are widespread, found in baculovirus [], eubacteria, yeast, and practically all protozoa, plants and mammals []. The proteins are typically lysosomal or secreted, and proteolytic cleavage of the propeptide is required for enzyme activation, although bleomycin hydrolase is cytosolic in fungi and mammals []. Papain-like cysteine proteinases are essentially synthesised as inactive proenzymes (zymogens) with N-terminal propeptide regions. The activation process of these enzymes includes the removal of propeptide regions. The propeptide regions serve a variety of functions in vivo and in vitro. The pro-region is required for the proper folding of the newly synthesised enzyme, the inactivation of the peptidase domain and stabilisation of the enzyme against denaturing at neutral to alkaline pH conditions. Amino acid residues within the pro-region mediate their membrane association, and play a role in the transport of the proenzyme to lysosomes. Among the most notable features of propeptides is their ability to inhibit the activity of their cognate enzymes and that certain propeptides exhibit high selectivity for inhibition of the peptidases from which they originate []. The catalytic residues of papain are Cys-25 and His-159, other important residues being Gln-19, which helps form the 'oxyanion hole', and Asn-175, which orientates the imidazole ring of His-159. ; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 3MOR_B 3HHI_B 1S4V_A 3F75_A 1MEG_A 1PCI_C 1PPO_A 3HD3_B 1F29_A 1EWL_A ....
Probab=94.28 E-value=0.056 Score=43.82 Aligned_cols=64 Identities=17% Similarity=0.272 Sum_probs=39.9
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCCCc-cccccccccccCccCCCCCCcceEEEEEEeeCC--CceEEEeCC
Q 029371 91 SGVEISLMILSGNYIAIALVDQYKL-SHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN--SDEFEIRDP 157 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~~L-~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~--~~~~~~~DP 157 (194)
..++|+++|.++ +|+++-++..-- .-.+.+.+.... .......+|-|+|+|||.+ .+-++++|-
T Consensus 122 ~~~~ik~~L~~~-gpV~~~~~~~~~~f~~~~~gi~~~~--~~~~~~~~Hav~iVGy~~~~~~~~wiv~NS 188 (219)
T PF00112_consen 122 DIEDIKKALMKY-GPVVASIDVSSEDFQNYKSGIYDPP--DCSNESGGHAVLIVGYDDENGKGYWIVKNS 188 (219)
T ss_dssp CHHHHHHHHHHH-SSEEEEEEEESHHHHTEESSEECST--SSSSSSEEEEEEEEEEEEETTEEEEEEE-S
T ss_pred chhHHHHHHhhC-ceeeeeeeccccccccccceeeecc--ccccccccccccccccccccceeeEeeehh
Confidence 589999999985 377777766531 111111111111 1123678999999999999 556777774
No 29
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=94.20 E-value=0.32 Score=48.31 Aligned_cols=108 Identities=18% Similarity=0.151 Sum_probs=71.2
Q ss_pred eeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCc
Q 029371 25 IWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNY 104 (194)
Q Consensus 25 ~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~ 104 (194)
-|.--|+++.+++|.+.+---.-..++ ++.++.....+=+.|++.|...+.-..+.++ +.+-+.
T Consensus 13 cgla~l~mia~~~g~~~~~~~lr~~~~------------~~~~g~sl~~l~~~a~~lGl~~~~~~~~~~~----l~~~~l 76 (709)
T COG2274 13 CGLACLAMIANYHGKKISLNELRELVG------------LSRNGLSLLELKQAAEKLGLSARAVKLSLEE----LKQLPL 76 (709)
T ss_pred hHHHHHHHHHHHhCCCCCHHHHHHHcC------------CCCCCCChHHHHHHHHHcCCccccccCCHHH----hcccCC
Confidence 456668888888877654211100111 1111334467778999999966544445333 334335
Q ss_pred EEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371 105 IAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK 176 (194)
Q Consensus 105 ~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~ 176 (194)
|+|++.+ .+||+|+.|++.+ .+++.|| ....-+++.+.|++.|.
T Consensus 77 P~ii~~~------------------------~~h~vVl~~~~~~--~~~v~dp--~~g~~~l~~~e~~~~~t 120 (709)
T COG2274 77 PAIIHWN------------------------GNHFVVLYKIDKN--KVVVLDP--AKGIRRLSLEEFEKLWT 120 (709)
T ss_pred CEEEEEc------------------------CCcEEEEEEecCC--eEEEEeC--CCCcEEcCHHHHHHhhh
Confidence 8885543 3499999999999 5899999 55677799999999996
No 30
>cd02620 Peptidase_C1A_CathepsinB Cathepsin B group; composed of cathepsin B and similar proteins, including tubulointerstitial nephritis antigen (TIN-Ag). Cathepsin B is a lysosomal papain-like cysteine peptidase which is expressed in all tissues and functions primarily as an exopeptidase through its carboxydipeptidyl activity. Together with other cathepsins, it is involved in the degradation of proteins, proenzyme activation, Ag processing, metabolism and apoptosis. Cathepsin B has been implicated in a number of human diseases such as cancer, rheumatoid arthritis, osteoporosis and Alzheimer's disease. The unique carboxydipeptidyl activity of cathepsin B is attributed to the presence of an occluding loop in its active site which favors the binding of the C-termini of substrate proteins. Some members of this group do not possess the occluding loop. TIN-Ag is an extracellular matrix basement protein which was originally identified as a target Ag involved in anti-tubular basement membrane
Probab=89.34 E-value=1.2 Score=37.80 Aligned_cols=60 Identities=17% Similarity=0.161 Sum_probs=35.1
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCC--CccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371 91 SGVEISLMILSGNYIAIALVDQY--KLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD 156 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~--~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D 156 (194)
+.++|+.+|.+. +|+++.+++. +..- ...+.... + .....+|-|+|+||+.+.+. +++||
T Consensus 143 ~~~~ik~~l~~~-GPv~v~i~~~~~f~~Y--~~Giy~~~--~-~~~~~~HaV~iVGyg~~~g~~YWivrN 206 (236)
T cd02620 143 DETDIMKEIMTN-GPVQAAFTVYEDFLYY--KSGVYQHT--S-GKQLGGHAVKIIGWGVENGVPYWLAAN 206 (236)
T ss_pred HHHHHHHHHHHC-CCeEEEEEechhhhhc--CCcEEeec--C-CCCcCCeEEEEEEEeccCCeeEEEEEe
Confidence 467899999875 3888888773 2211 11221111 1 12245799999999876432 44555
No 31
>cd02698 Peptidase_C1A_CathepsinX Cathepsin X; the only papain-like lysosomal cysteine peptidase exhibiting carboxymonopeptidase activity. It can also act as a carboxydipeptidase, like cathepsin B, but has been shown to preferentially cleave substrates through a monopeptidyl carboxypeptidase pathway. The propeptide region of cathepsin X, the shortest among papain-like peptidases, is covalently attached to the active site cysteine in the inactive form of the enzyme. Little is known about the biological function of cathepsin X. Some studies point to a role in early tumorigenesis. A more recent study indicates that cathepsin X expression is restricted to immune cells suggesting a role in phagocytosis and the regulation of the immune response.
Probab=88.96 E-value=1.6 Score=37.07 Aligned_cols=88 Identities=13% Similarity=0.129 Sum_probs=50.1
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCCC-ccccccccccccCccCCCCCCcceEEEEEEeeCCC---ceEEEeCCCCCC----c
Q 029371 91 SGVEISLMILSGNYIAIALVDQYK-LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS---DEFEIRDPASCR----K 162 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~~-L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~---~~~~~~DPa~~~----~ 162 (194)
+.++|+.+|.+. +|++|-+++.. +. .....+..... + ..+.+|-|+|+||+.+. +=.+++|-=-.. -
T Consensus 137 ~~~~i~~~l~~~-GPV~v~i~~~~~f~-~Y~~GIy~~~~-~--~~~~~HaV~IVGyG~~~~g~~YWiikNSWG~~WGe~G 211 (239)
T cd02698 137 GRDKMMAEIYAR-GPISCGIMATEALE-NYTGGVYKEYV-Q--DPLINHIISVAGWGVDENGVEYWIVRNSWGEPWGERG 211 (239)
T ss_pred CHHHHHHHHHHc-CCEEEEEEeccccc-ccCCeEEccCC-C--CCcCCeEEEEEEEEecCCCCEEEEEEcCCCcccCcCc
Confidence 467788888765 38888888752 11 11111221111 1 23568999999998654 335566643221 2
Q ss_pred eeeeChHHHHHHHhhCCCCcc
Q 029371 163 REKVTLKCLEEARKSFGTDED 183 (194)
Q Consensus 163 ~~~~s~~~~e~AR~s~GTDeD 183 (194)
..+|+...|.+|+-..|=..+
T Consensus 212 y~~i~rg~~~~~~~~~~i~~~ 232 (239)
T cd02698 212 WFRIVTSSYKGARYNLAIEED 232 (239)
T ss_pred eEEEEccCCcccccccccccc
Confidence 566766666666655554333
No 32
>cd00307 RuBisCO_small_like Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits. This superfamily also contains specific proteins from cyanobacteria. CcmM plays a role in a CO2 concentrating mechanism, which cyanobacteria need to to overcome t
Probab=87.88 E-value=1.9 Score=31.89 Aligned_cols=59 Identities=14% Similarity=0.213 Sum_probs=37.3
Q ss_pred HHHHHHHHHcCCcEEEEEEcCCCccccccccccc----------cCccCCCCCCcceEEEEEEeeCCCc
Q 029371 92 GVEISLMILSGNYIAIALVDQYKLSHSWMEDVIV----------PGFYGSDSGYTGHYILICGYDANSD 150 (194)
Q Consensus 92 ~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~----------~~~~~~~~~Y~GHYVVLcGYd~~~~ 150 (194)
.++|...|++|-.|.|=..|.+--...|.-+.+. +..-.--..|.||||=|+|||...+
T Consensus 5 ~~QI~yll~qG~~~~iE~~d~~rywt~w~lp~f~~~~~~~~~Vl~el~~c~~~~p~~YVRlig~D~~~q 73 (84)
T cd00307 5 VEQVRQLLAQGYKIGLEHADARRFRTSSWQSCGPIEGRSEAQVLAALEACLAEHPGEYVRLIGIDPKAK 73 (84)
T ss_pred HHHHHHHHHCCCEeEEEECCCCccHhhhcCCCCCCCCCCHHHHHHHHHHHHHHCCCCeEEEEEEeCCcc
Confidence 3678888999977888788876443333212111 0000001459999999999999876
No 33
>cd02621 Peptidase_C1A_CathepsinC Cathepsin C; also known as Dipeptidyl Peptidase I (DPPI), an atypical papain-like cysteine peptidase with chloride dependency and dipeptidyl aminopeptidase activity, resulting from its tetrameric structure which limits substrate access. Each subunit of the tetramer is composed of three peptides: the heavy and light chains, which together adopts the papain fold and forms the catalytic domain; and the residual propeptide region, which forms a beta barrel and points towards the substrate's N-terminus. The subunit composition is the result of the unique characteristic of procathepsin C maturation involving the cleavage of the catalytic domain and the non-autocatalytic excision of an activation peptide within its propeptide region. By removing N-terminal dipeptide extensions, cathepsin C activates granule serine peptidases (granzymes) involved in cell-mediated apoptosis, inflammation and tissue remodelling. Loss-of-function mutations in cathepsin C are assoc
Probab=87.61 E-value=2.5 Score=35.84 Aligned_cols=65 Identities=15% Similarity=0.212 Sum_probs=35.6
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccC-----ccCCC-----CCCcceEEEEEEeeCCC----ceEEEeC
Q 029371 91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPG-----FYGSD-----SGYTGHYILICGYDANS----DEFEIRD 156 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~-----~~~~~-----~~Y~GHYVVLcGYd~~~----~~~~~~D 156 (194)
+.++|+.+|.+. +|++|-++..--.-.+...+.... |-... ....+|-|+|+||+.+. +=.+++|
T Consensus 132 ~~~~ik~~i~~~-GPv~v~~~~~~~F~~Y~~GIy~~~~~~~~C~~~~~~~~~~~~~~HaV~iVGyg~~~~~g~~YWiirN 210 (243)
T cd02621 132 NEDEMKWEIYRN-GPIVVAFEVYSDFDFYKEGVYHHTDNDEVSDGDNDNFNPFELTNHAVLLVGWGEDEIKGEKYWIVKN 210 (243)
T ss_pred CHHHHHHHHHHc-CCEEEEEEecccccccCCeEECcCCcccccccccccccCcccCCeEEEEEEeeccCCCCCcEEEEEc
Confidence 567899888875 388888877511001111111111 10100 12457999999998764 2345555
No 34
>COG4451 RbcS Ribulose bisphosphate carboxylase small subunit [Energy production and conversion]
Probab=86.57 E-value=1.8 Score=34.23 Aligned_cols=66 Identities=20% Similarity=0.428 Sum_probs=43.5
Q ss_pred HHHHHHHHHcCCcEEEEEEcCCCc-cccc---ccccccc-----------CccCCCCCCcceEEEEEEeeCCCc----eE
Q 029371 92 GVEISLMILSGNYIAIALVDQYKL-SHSW---MEDVIVP-----------GFYGSDSGYTGHYILICGYDANSD----EF 152 (194)
Q Consensus 92 ~~eI~~~L~~G~~~~IvLvd~~~L-~~~~---~~~~~~~-----------~~~~~~~~Y~GHYVVLcGYd~~~~----~~ 152 (194)
.++++.+|.+|-.|.+=.+|++-- ..+| ..+.+-. .|. .+|.||||=|+|+|...+ +|
T Consensus 25 ~~QVrylL~QGykigvE~~d~rrprtgsWt~wg~p~f~~~~~~evlaele~Cr---~dhp~eYIRliGfDp~gkrrv~sf 101 (127)
T COG4451 25 AEQVRYLLSQGYKIGVEYVDDRRPRTGSWTMWGTPMFGAKTAGEVLAELEACR---ADHPGEYIRLIGFDPKGKRRVVSF 101 (127)
T ss_pred HHHHHHHHhCCcccceeecccCCcccceeeecCCccccccchHHHHHHHHHHH---HhCCCCeEEEEEecCCCceEEEEE
Confidence 345566677886677777887743 2344 2222211 121 469999999999999987 68
Q ss_pred EEeCCCCC
Q 029371 153 EIRDPASC 160 (194)
Q Consensus 153 ~~~DPa~~ 160 (194)
+++-|.-.
T Consensus 102 IVhRPng~ 109 (127)
T COG4451 102 IVHRPNGN 109 (127)
T ss_pred EEECCCCC
Confidence 88888743
No 35
>cd03527 RuBisCO_small Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.
Probab=85.73 E-value=3.9 Score=31.13 Aligned_cols=55 Identities=16% Similarity=0.396 Sum_probs=34.3
Q ss_pred HHHHHHHcCCcEEEEEEcCCCc-ccccc---ccccc--------c---CccCCCCCCcceEEEEEEeeCCCce
Q 029371 94 EISLMILSGNYIAIALVDQYKL-SHSWM---EDVIV--------P---GFYGSDSGYTGHYILICGYDANSDE 151 (194)
Q Consensus 94 eI~~~L~~G~~~~IvLvd~~~L-~~~~~---~~~~~--------~---~~~~~~~~Y~GHYVVLcGYd~~~~~ 151 (194)
+|...|++|-.|.|=..|.+-- ..+|. -+.+. . .| ...|.||||=|+|||...+.
T Consensus 20 QI~yll~qG~~~~lE~ad~~~~~~~yW~mwklP~f~~~d~~~Vl~ei~~C---~~~~p~~YVRliG~D~~~q~ 89 (99)
T cd03527 20 QIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEAC---RKAYPDHYVRVVGFDNYKQS 89 (99)
T ss_pred HHHHHHhCCCEEEEEcccCCCCCCCEEeeccCCCCCCCCHHHHHHHHHHH---HHHCCCCeEEEEEEeCCccE
Confidence 4566678887777777776643 22332 11110 0 11 14599999999999999773
No 36
>PF00101 RuBisCO_small: Ribulose bisphosphate carboxylase, small chain; InterPro: IPR000894 RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP) [], thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown []. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome [], which results in RuBisCO being more abundant during the day when it is required. The RuBisCo small subunit consists of a central four-stranded beta-sheet, with two helices packed against it [].; PDB: 1BWV_W 1IWA_P 3AXM_X 1WDD_S 3AXK_T 1IR2_K 1RBL_N 1UZH_J 1RSC_P 1UW9_C ....
Probab=78.37 E-value=2.5 Score=32.12 Aligned_cols=62 Identities=19% Similarity=0.476 Sum_probs=37.2
Q ss_pred HHHHHHHHcCCcEEEEEEcCCCc-ccccc--c-cccc--------c---CccCCCCCCcceEEEEEEeeCCCc----eEE
Q 029371 93 VEISLMILSGNYIAIALVDQYKL-SHSWM--E-DVIV--------P---GFYGSDSGYTGHYILICGYDANSD----EFE 153 (194)
Q Consensus 93 ~eI~~~L~~G~~~~IvLvd~~~L-~~~~~--~-~~~~--------~---~~~~~~~~Y~GHYVVLcGYd~~~~----~~~ 153 (194)
++|...|++|-.|.|=..|.+-- ..+|. + +.+. + .|. ..|.||||=|+|||...+ +|+
T Consensus 18 ~Qv~~ll~qG~~i~iE~ad~r~~r~~~W~mW~~p~~~~~~~~~Vl~el~~c~---~~~p~~yVRlig~D~~~q~r~~~~i 94 (99)
T PF00101_consen 18 KQVRYLLSQGWIIGIEHADPRRFRTSYWQMWKLPMFGCTDPAQVLAELEACL---AEHPGEYVRLIGFDNKRQRRVLEFI 94 (99)
T ss_dssp HHHHHHHHTT-EEEEEEESCGGSTSSS-EEESSEBTTBSSHHHHHHHHHHHH---HHSTTSEEEEEEEETTTTEEEEEEE
T ss_pred HHHHhhhhcCceeeEEecCCCCCCCCEeecCCCCCcCCCCHHHHHHHHHHHH---HhCCCceEEEEEEcCcccEEEEEEE
Confidence 45666778897667777777643 22332 1 1110 0 111 359999999999999987 455
Q ss_pred EeCC
Q 029371 154 IRDP 157 (194)
Q Consensus 154 ~~DP 157 (194)
++=|
T Consensus 95 VqRP 98 (99)
T PF00101_consen 95 VQRP 98 (99)
T ss_dssp EEGG
T ss_pred EECC
Confidence 5444
No 37
>PTZ00203 cathepsin L protease; Provisional
Probab=75.67 E-value=9.7 Score=34.73 Aligned_cols=60 Identities=15% Similarity=0.208 Sum_probs=35.7
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371 91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRD 156 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D 156 (194)
..++|+..|.++ +|+.|.+|+.-+.- +...+. ..| . ....+|-|+|+||+.+.+ =.+++|
T Consensus 247 ~e~~~~~~l~~~-GPv~v~i~a~~f~~-Y~~GIy-~~c-~--~~~~nHaVliVGYG~~~g~~YWiikN 308 (348)
T PTZ00203 247 SERVMAAWLAKN-GPISIAVDASSFMS-YHSGVL-TSC-I--GEQLNHGVLLVGYNMTGEVPYWVIKN 308 (348)
T ss_pred CHHHHHHHHHhC-CCEEEEEEhhhhcC-ccCcee-ecc-C--CCCCCeEEEEEEEecCCCceEEEEEc
Confidence 467788888875 38888888752211 112222 122 1 224689999999987543 244554
No 38
>COG4870 Cysteine protease [Posttranslational modification, protein turnover, chaperones]
Probab=74.41 E-value=7 Score=36.27 Aligned_cols=22 Identities=41% Similarity=0.656 Sum_probs=17.4
Q ss_pred cCCCCCCcceEEEEEEeeCCCc
Q 029371 129 YGSDSGYTGHYILICGYDANSD 150 (194)
Q Consensus 129 ~~~~~~Y~GHYVVLcGYd~~~~ 150 (194)
...+.+--||-|+++|||..-+
T Consensus 257 ~~~s~~~~gHAv~iVGyDDs~~ 278 (372)
T COG4870 257 YVDSGENWGHAVLIVGYDDSFD 278 (372)
T ss_pred CCCccccccceEEEEecccccc
Confidence 3334478999999999998865
No 39
>PRK07283 hypothetical protein; Provisional
Probab=72.80 E-value=12 Score=27.94 Aligned_cols=45 Identities=13% Similarity=0.007 Sum_probs=35.5
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCC
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYK 114 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~ 114 (194)
++-...+-+.+...+||+.... |.+||-..+-++ ..+|+++|.++
T Consensus 46 ~~~~kk~~~~~~~~~Vp~~~~~-t~~eLG~a~Gk~-~~vvai~d~g~ 90 (98)
T PRK07283 46 PNLTKKVTDKSNYYQVEVSTVF-STLELSAAVGKP-RKVLAVTDAGF 90 (98)
T ss_pred HHHHHHHHHHHHHcCCCEEEeC-CHHHHHHHhCCC-ceEEEEeChhH
Confidence 4455666678888999986544 999999999886 58899999874
No 40
>PTZ00200 cysteine proteinase; Provisional
Probab=71.39 E-value=12 Score=35.43 Aligned_cols=57 Identities=12% Similarity=0.219 Sum_probs=28.8
Q ss_pred HHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEe--eCCCc--eEEEeCC
Q 029371 95 ISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGY--DANSD--EFEIRDP 157 (194)
Q Consensus 95 I~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGY--d~~~~--~~~~~DP 157 (194)
+.+.+..| |++|-+++..-.-.+...+....| . . ..+|.|+|+|| |.+++ =.+++|-
T Consensus 351 l~~~l~~G--PV~v~i~~~~~f~~Yk~GIy~~~C-~-~--~~nHaV~lVGyG~d~~~g~~YWIIkNS 411 (448)
T PTZ00200 351 LNKSLVIS--PTVVYIAVSRELLKYKSGVYNGEC-G-K--SLNHAVLLVGEGYDEKTKKRYWIIKNS 411 (448)
T ss_pred HHHHHhcC--CEEEEeecccccccCCCCcccccc-C-C--CCcEEEEEEEecccCCCCCceEEEEcC
Confidence 44444444 788888874111111122222221 1 1 36899999995 44433 3556653
No 41
>PTZ00021 falcipain-2; Provisional
Probab=71.00 E-value=15 Score=35.33 Aligned_cols=53 Identities=8% Similarity=-0.049 Sum_probs=31.2
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCC
Q 029371 91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN 148 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~ 148 (194)
.-+++++.|... +|+.|-+++.--.-.+...+.... |. ....|.|+|+||+.+
T Consensus 380 ~~~~lk~al~~~-GPVsv~i~a~~~f~~YkgGIy~~~--C~--~~~nHAVlIVGYG~e 432 (489)
T PTZ00021 380 PEDKFKEAIRFL-GPISVSIAVSDDFAFYKGGIFDGE--CG--EEPNHAVILVGYGME 432 (489)
T ss_pred cHHHHHHHHHhc-CCeEEEEEeecccccCCCCcCCCC--CC--CccceEEEEEEecCc
Confidence 346788888764 388888887511111122222221 21 236899999999864
No 42
>PF13973 DUF4222: Domain of unknown function (DUF4222)
Probab=70.23 E-value=10 Score=25.50 Aligned_cols=37 Identities=14% Similarity=0.044 Sum_probs=29.8
Q ss_pred CCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHH
Q 029371 134 GYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEE 173 (194)
Q Consensus 134 ~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~ 173 (194)
+-.|.-|.++|++.. . +.|+=|+++ ..|.++...|.+
T Consensus 11 D~~G~~V~I~~~~~~-r-V~y~R~GY~-~~c~~p~~~F~~ 47 (53)
T PF13973_consen 11 DKRGYPVTIISVDFN-R-VTYRRDGYE-HPCVMPVYRFRR 47 (53)
T ss_pred CCCCCEEEEEEEECC-E-EEEEECCCC-ccccCCHHHhhh
Confidence 467899999999999 4 555559995 789999998875
No 43
>COG3271 Predicted double-glycine peptidase [General function prediction only]
Probab=67.52 E-value=12 Score=32.04 Aligned_cols=79 Identities=11% Similarity=0.049 Sum_probs=53.0
Q ss_pred HHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceE
Q 029371 73 MLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEF 152 (194)
Q Consensus 73 ~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~ 152 (194)
..-..+++.|-+-+-...+.+++.+ .. .|+||+..-+ =.-||+|+.|-|.+. +
T Consensus 81 g~~~~~~~~g~~a~~~~~~~~~l~q---~~-~p~iV~~~~~---------------------~~~hf~v~~~v~~~~--v 133 (201)
T COG3271 81 GMARAIKSLGNRAQGYENEFESLAQ---LK-IPVIVTLKYP---------------------ANNHFDVVIGVDGDN--V 133 (201)
T ss_pred HHHHHhhCCCCcccccccchhhhhh---cc-CCeeEEeecC---------------------CCceeEEEEeccCCe--e
Confidence 3445566666654444444444333 22 3788744333 235999999999998 8
Q ss_pred EEeCCCCCCceeeeChHHHHHHHhhCCC
Q 029371 153 EIRDPASCRKREKVTLKCLEEARKSFGT 180 (194)
Q Consensus 153 ~~~DPa~~~~~~~~s~~~~e~AR~s~GT 180 (194)
+.-||+.. ..+.+...|+.+|.-.+.
T Consensus 134 ~l~Dp~~g--~i~~~~~~f~~~w~~~~~ 159 (201)
T COG3271 134 TLADPALG--NIRGKRAQFLSIWDGHVL 159 (201)
T ss_pred EEcChhhC--CccchhHHHHHHhhhcce
Confidence 99999985 567899999999975544
No 44
>cd02549 Peptidase_C39A A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=66.76 E-value=5.4 Score=29.99 Aligned_cols=45 Identities=18% Similarity=0.202 Sum_probs=33.7
Q ss_pred CeeeccCCCCCChhHHH------hhhc-CCceeHHHHHHH-HhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLA------EQCC-TTSIWTVDLAYL-LQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~------~~c~-~~S~WTIDLayl-L~~~gv~~~f~T~ 46 (194)
|+|+++|++ .+.+++. +... ..++|--+|+.. ++++|++..+.+.
T Consensus 14 mvl~~~g~~-~~~~~l~~~~~~~~~~~~~~g~~~~~l~~~~a~~~G~~~~~~~~ 66 (141)
T cd02549 14 MVLSYLGVK-VTKPQLAAEGNTYDFAKDGYGTYPKPIVSAAARKYGLVVRPLTG 66 (141)
T ss_pred HHHHhcCCC-CCHHHHHhhccccccCCCCCCcCHHHHHHHHHhhCCCcEEECCC
Confidence 789999997 5656665 2222 356888999999 9999999887653
No 45
>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group..
Probab=62.75 E-value=24 Score=25.64 Aligned_cols=66 Identities=20% Similarity=0.174 Sum_probs=43.5
Q ss_pred HHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHH
Q 029371 30 LAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMIL 100 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~ 100 (194)
|+++|++++.++..++...|..|..... ++.. ++.|-..+++.|++.|........+.++..+...
T Consensus 14 ll~~l~~~~~~~~~~~~~~~~~~~~~~~---~~~~--~~~r~~~~~~~a~~~g~~~i~~g~~~~D~~~~~~ 79 (103)
T cd01986 14 AAALLKKLGYQVIAVTVDHGISPRLEDA---KEIA--KEAREEAAKRIAKEKGAETIATGTRRDDVANRAL 79 (103)
T ss_pred HHHHHHHhCCCEEEEEEcCCCcccHHHH---HHHH--HHHHHHHHHHHHHHcCCCEEEEcCCcchHHHHHH
Confidence 5677777777777788555554411111 1111 1278888999999999987778888888777653
No 46
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 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 mo
Probab=61.31 E-value=11 Score=27.68 Aligned_cols=28 Identities=14% Similarity=0.244 Sum_probs=23.4
Q ss_pred ceEEEeCCCCCCceeeeC-hHHHHHHHhh
Q 029371 150 DEFEIRDPASCRKREKVT-LKCLEEARKS 177 (194)
Q Consensus 150 ~~~~~~DPa~~~~~~~~s-~~~~e~AR~s 177 (194)
..+-|++|++.....-++ .++|++||..
T Consensus 37 ~~LSY~~~~~~~~~v~l~~e~~me~aW~~ 65 (78)
T cd06411 37 GQLSYRAPGEDGHWVPISGEESLQRAWQD 65 (78)
T ss_pred cEEEecCCCCCccEeecCcchHHHHHHHh
Confidence 468899999985666688 9999999974
No 47
>cd02418 Peptidase_C39B A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=60.51 E-value=11 Score=27.98 Aligned_cols=45 Identities=16% Similarity=0.137 Sum_probs=34.8
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+.+.+.+. ..++-.-+|..+++++|++......
T Consensus 19 ~~~~~~g~~-~~~~~l~~~~~~~~~~~~~~~l~~~a~~~Gl~~~~~~~ 65 (136)
T cd02418 19 MIAKYYGKN-YSLAKLRELAGTDREGTSLLGLVKAAEKLGFETRAVKA 65 (136)
T ss_pred HHHHHhCCC-CCHHHHHHHcCCCCCCcCHHHHHHHHHHCCCeeEEEEc
Confidence 678899988 67788877774 2345556899999999999887764
No 48
>PF03412 Peptidase_C39: Peptidase C39 family This is family C39 in the peptidase classification. ; InterPro: IPR005074 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences defined by this cysteine peptidase domain belong to the MEROPS peptidase family C39 (clan CA). It is found in a wide range of ABC transporters, which are maturation proteases for peptide bacteriocins, the proteolytic domain residing in the N-terminal region of the protein []. A number of the proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Lantibiotic and non-lantibiotic bacteriocins are synthesised as precursor peptides containing N-terminal extensions (leader peptides) which are cleaved off during maturation. Most non-lantibiotics and also some lantibiotics have leader peptides of the so-called double-glycine type. These leader peptides share consensus sequences and also a common processing site with two conserved glycine residues in positions -1 and -2. The double- glycine-type leader peptides are unrelated to the N-terminal signal sequences which direct proteins across the cytoplasmic membrane via the sec pathway. Their processing sites are also different from typical signal peptidase cleavage sites, suggesting that a different processing enzyme is involved. ; GO: 0005524 ATP binding, 0008233 peptidase activity, 0006508 proteolysis, 0016021 integral to membrane; PDB: 3K8U_A 3B79_A.
Probab=60.35 E-value=3.5 Score=30.83 Aligned_cols=45 Identities=20% Similarity=0.229 Sum_probs=31.0
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+++.+.+. ..++--.+|.-+++++|++..-+..
T Consensus 20 ~l~~~~g~~-~s~~~l~~~~~~~~~g~s~~~L~~~~~~~gl~~~~~~~ 66 (131)
T PF03412_consen 20 MLLKYYGIP-VSEEELRRQLGTSEEGTSLADLKRAARKYGLKAKAVKL 66 (131)
T ss_dssp HHHHHTT-----HHHHHCCTT-BTTB--CCCHHHHHHHTTEEEEEEE-
T ss_pred HHHHHhCCC-chHHHHHHHhcCCccCCCHHHHHHHHHhcccceeeeec
Confidence 788899987 78888888884 3334446899999999999887764
No 49
>PRK07714 hypothetical protein; Provisional
Probab=60.08 E-value=32 Score=25.55 Aligned_cols=47 Identities=9% Similarity=0.063 Sum_probs=36.2
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCc
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKL 115 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L 115 (194)
++....+-+.|...++|+.. ..|.+||-..+-.....+|++.|.++-
T Consensus 46 ~~~~~ki~~~~~~~~vp~~~-~~sk~eLG~a~Gk~~~~~vai~d~g~a 92 (100)
T PRK07714 46 VNTTKKITDKCTYYNVPMRK-VENRQQLGHAIGKDERVVVAVLDEGFA 92 (100)
T ss_pred HHHHHHHHHHHHhcCCCEEE-eCCHHHHHHHhCCCcceEEEEeCchhH
Confidence 45556777778999999864 479999999887655568999998753
No 50
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=59.84 E-value=34 Score=26.12 Aligned_cols=48 Identities=6% Similarity=-0.078 Sum_probs=36.7
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE-EEEEEcCCCc
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI-AIALVDQYKL 115 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~-~IvLvd~~~L 115 (194)
++-..++-..|+..+||+..-.-|.+||-..+-..... ++++.|.++-
T Consensus 53 ~~~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~r~svvaI~D~G~a 101 (108)
T PTZ00106 53 PIRRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHFRVSVMSITDAGDS 101 (108)
T ss_pred HHHHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCccCeEEEEEeCcchH
Confidence 45557777889999999976667999999988654324 6889998853
No 51
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=58.65 E-value=49 Score=28.61 Aligned_cols=21 Identities=19% Similarity=0.202 Sum_probs=18.1
Q ss_pred HHHHHHHhhcCcceeeeeccc
Q 029371 28 VDLAYLLQKFNVGFSYFTITL 48 (194)
Q Consensus 28 IDLaylL~~~gv~~~f~T~tl 48 (194)
.-||..|+..|.++.|.+...
T Consensus 21 l~LA~~l~~~g~~v~f~~~~~ 41 (279)
T TIGR03590 21 LTLARALHAQGAEVAFACKPL 41 (279)
T ss_pred HHHHHHHHHCCCEEEEEeCCC
Confidence 569999999999999999743
No 52
>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=56.59 E-value=8.2 Score=32.48 Aligned_cols=27 Identities=19% Similarity=0.363 Sum_probs=24.4
Q ss_pred HHHHhhcCcceeeeecccCCCCCCCcc
Q 029371 31 AYLLQKFNVGFSYFTITLGANPNYSVE 57 (194)
Q Consensus 31 aylL~~~gv~~~f~T~tlG~np~y~~~ 57 (194)
|.+|++||..+..-|+++|+-|+++.-
T Consensus 17 A~iL~klgyev~LVTvnFGv~d~~k~A 43 (198)
T COG2117 17 ALILDKLGYEVELVTVNFGVLDSWKYA 43 (198)
T ss_pred HHHHHHhCCCcEEEEEEeccccchhhH
Confidence 578999999999999999999997654
No 53
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=55.90 E-value=48 Score=24.68 Aligned_cols=48 Identities=21% Similarity=0.027 Sum_probs=37.8
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC-cEEEEEEcCCCc
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN-YIAIALVDQYKL 115 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~-~~~IvLvd~~~L 115 (194)
++....+-+.|+..+||+..-.-|.+||-..+-... .-+|+++|.++.
T Consensus 44 ~~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~vaI~D~G~a 92 (99)
T PRK01018 44 KDIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSALAIVDPGES 92 (99)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEEEEEecCCHH
Confidence 556688889999999998665569999999887653 358899998854
No 54
>TIGR00379 cobB cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.
Probab=55.31 E-value=43 Score=31.35 Aligned_cols=87 Identities=13% Similarity=0.206 Sum_probs=56.8
Q ss_pred CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhccc----------ccchhhHHHHHHHHHH-HcCCceEecc-
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQ----------LPTDLVRVDMLFQKAR-SAGIKIECGS- 89 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~----------~~~D~~RV~~lF~~A~-~~gi~v~~rs- 89 (194)
++++=|..|+.+|++.|+++.+|-. | |.|..-.|.... +-.+..+|.+.|+++. ...+.|.+..
T Consensus 12 GKT~vt~~L~~~L~~~G~~V~~fK~--g--~d~~D~~~~~~~~g~~~~~ld~~~~~~~~i~~~~~~~~~~~D~viVEGag 87 (449)
T TIGR00379 12 GKTTISTGIMKALSRRKLRVQPFKV--G--PDYIDPMFHTQATGRPSRNLDSFFMSEAQIQECFHRHSKGTDYSIIEGVR 87 (449)
T ss_pred cHHHHHHHHHHHHHHCCCceeEEcc--C--CCCCCHHHHHHHhCCchhhCCcccCCHHHHHHHHHHhcccCCEEEEecCC
Confidence 4455688999999999999999975 4 444443443322 2235788999998765 3455554444
Q ss_pred ------------ccHHHHHHHHHcCCcEEEEEEcCCCc
Q 029371 90 ------------ISGVEISLMILSGNYIAIALVDQYKL 115 (194)
Q Consensus 90 ------------vs~~eI~~~L~~G~~~~IvLvd~~~L 115 (194)
-|.-+|.+.+ | .|+|+.+|..-+
T Consensus 88 Gl~~g~~p~~~~~s~adlAk~l--~-~pVILV~~~~~~ 122 (449)
T TIGR00379 88 GLYDGISAITDYGSTASVAKAL--D-APIVLVMNCQRL 122 (449)
T ss_pred ccccCCCCCCCCccHHHHHHHh--C-CCEEEEECCchH
Confidence 2344555544 5 589999988743
No 55
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=53.72 E-value=46 Score=31.39 Aligned_cols=17 Identities=6% Similarity=0.296 Sum_probs=14.3
Q ss_pred HHHHHhhcCcceeeeec
Q 029371 30 LAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~ 46 (194)
+.+.|++||+.++|.-.
T Consensus 118 f~~tl~~~Gi~v~fvd~ 134 (426)
T COG2873 118 FSHTLKRLGIEVRFVDP 134 (426)
T ss_pred HHHHHHhcCcEEEEeCC
Confidence 56889999999999764
No 56
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=51.69 E-value=47 Score=31.01 Aligned_cols=86 Identities=22% Similarity=0.285 Sum_probs=57.0
Q ss_pred CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhccc----------ccchhhHHHHHHHHHH-HcCCceEecc-
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQ----------LPTDLVRVDMLFQKAR-SAGIKIECGS- 89 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~----------~~~D~~RV~~lF~~A~-~~gi~v~~rs- 89 (194)
++++=|.-||..|++.|.++..+-. | |.+..-.|.... +..+...|.+.|+... +..+.|.+..
T Consensus 16 GKT~it~~L~~~L~~~G~~V~~fK~--G--pd~~d~~~~~~~~g~~~~~ld~~~~~~~~v~~~~~~~~~~~D~vlVEGag 91 (451)
T PRK01077 16 GKTTVTLGLMRALRRRGLRVQPFKV--G--PDYIDPAYHTAATGRPSRNLDSWMMGEELVRALFARAAQGADIAVIEGVM 91 (451)
T ss_pred cHHHHHHHHHHHHHhCCCCcceeec--C--CCcccHHHHHHHhCCCcccCCceeCCHHHHHHHHHHhcccCCEEEEECCC
Confidence 4566789999999999999888865 4 555554444422 3345678999998764 3455444333
Q ss_pred ------------ccHHHHHHHHHcCCcEEEEEEcCCC
Q 029371 90 ------------ISGVEISLMILSGNYIAIALVDQYK 114 (194)
Q Consensus 90 ------------vs~~eI~~~L~~G~~~~IvLvd~~~ 114 (194)
.|..+|.+.+ + .|+|+.+|...
T Consensus 92 Gl~~g~~~~~~~~s~adiA~~l--~-~pviLV~~~~~ 125 (451)
T PRK01077 92 GLFDGAGSDPDEGSTADIAKLL--G-APVVLVVDASG 125 (451)
T ss_pred ccccCCccCCCCCCHHHHHHHh--C-CCEEEEECCch
Confidence 3455666655 5 58888888764
No 57
>PF07910 Peptidase_C78: Peptidase family C78; InterPro: IPR012462 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This entry contains UfSP1 and UfSP2, which are cysteine peptidases required for the processing and activation of Ubiquitin fold modifier 1 (Ufm1, IPR005375 from INTERPRO) and for its release from conjugated cellular proteins. UfSP1 and UfSP2 are 217 aa and 461 aa respectively [, ]. The peptidases belong to MEROPS peptidase family C78, clan CA. The UfSP2 family have an N-terminal extension with one or more zinc finger domains of the C2H2 type (IPR007087 from INTERPRO), which have been shown to be involved in protein:protein interaction. UfSP2 is present in most, if not all, multi-cellular organisms including plants, nematodes, flies, and mammals, whereas UfSP1 is not present in plants and nematodes []. ; PDB: 3OQC_B 2Z84_A.
Probab=49.29 E-value=48 Score=28.38 Aligned_cols=91 Identities=19% Similarity=0.195 Sum_probs=44.3
Q ss_pred ee--HHHHHHHHhhcCcceeeeecc-cCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHc
Q 029371 25 IW--TVDLAYLLQKFNVGFSYFTIT-LGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILS 101 (194)
Q Consensus 25 ~W--TIDLaylL~~~gv~~~f~T~t-lG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~ 101 (194)
-| |.+++++|..+||+++..... -|. +. +..+.--.+|.+=|+.....+- .. ..+
T Consensus 88 kWIGt~E~~~~l~~~gi~~~i~~f~~~~~-~~--------~~~~~l~~~v~~yF~~~~~~~~---~~----------~~t 145 (218)
T PF07910_consen 88 KWIGTTEASALLRSLGIPCKIVDFPKSGS-EI--------RAHPRLLDWVWNYFESGCGSPS---QS----------RQT 145 (218)
T ss_dssp ----HHHHHHHHHHC-SEEEEEEES-SGC-CC-----------CCGHHHHHHHHCCT-----------------------
T ss_pred cEEcHHHHHHHHhhCCceEEEEEEECCCc-cc--------ccHHHHHHHHHHHhhcCCCccc---cc----------ccc
Confidence 46 799999999999987765542 111 11 1112224555555654322110 00 234
Q ss_pred CCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCC---CceEEEeCCCCCCc
Q 029371 102 GNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN---SDEFEIRDPASCRK 162 (194)
Q Consensus 102 G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~---~~~~~~~DPa~~~~ 162 (194)
.+.|++ | .-.||=..|+|++.. .-.+++-||.+...
T Consensus 146 ~~~Piy-------l------------------qh~ghS~TIvGie~~~~g~~~LLVlDP~~~~~ 184 (218)
T PF07910_consen 146 NKPPIY-------L------------------QHDGHSRTIVGIERNKDGEVNLLVLDPHYTGS 184 (218)
T ss_dssp ----EE-------E------------------EETTEEEEEEEEEE-TT--EEEEEE-TT--S-
T ss_pred CCCCeE-------e------------------CccccceEEEEEEECCCCCEEEEEECCCCCCH
Confidence 443443 1 147999999999994 33689999999865
No 58
>cd02424 Peptidase_C39E A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family, which contains Colicin V perocessing peptidase.
Probab=48.57 E-value=21 Score=26.79 Aligned_cols=45 Identities=16% Similarity=0.193 Sum_probs=35.1
Q ss_pred Ceeec-cCCCCCChhHHHhhhcC--CceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRT-IGINNCNIQGLAEQCCT--TSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~-~g~~~~~~~~l~~~c~~--~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|++++ +|+. .+.+++...+.. .++---||..+++++|++.+-+..
T Consensus 19 ~i~~~~~g~~-~~~~~l~~~~~~~~~g~s~~~l~~~a~~~Gl~~k~~~~ 66 (129)
T cd02424 19 MLYNHYYKKK-YDLNELKIKANLKKNGLSIYDLENLAKKFGLETESYQG 66 (129)
T ss_pred HHHHHhcCCC-ccHHHHHHHhCCCCCCccHHHHHHHHHHcCCceeEEEc
Confidence 67888 8887 678888877652 345557899999999999888774
No 59
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role 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, animals, and plants. The p67 proteins contain
Probab=44.29 E-value=26 Score=25.75 Aligned_cols=26 Identities=12% Similarity=0.110 Sum_probs=22.2
Q ss_pred eEEEeCCCCCCceeeeChHHHHHHHhh
Q 029371 151 EFEIRDPASCRKREKVTLKCLEEARKS 177 (194)
Q Consensus 151 ~~~~~DPa~~~~~~~~s~~~~e~AR~s 177 (194)
.+.|+|+++.+.+. ++-++||.||..
T Consensus 42 ~LsYkde~s~~~v~-l~d~dle~aws~ 67 (80)
T cd06406 42 TLSYKSEASGEDVI-LSDTNMEDVWSQ 67 (80)
T ss_pred EEEeccCCCCCccC-cChHHHHHHHHh
Confidence 47899999988766 499999999975
No 60
>cd02417 Peptidase_C39_likeA A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this
Probab=43.49 E-value=31 Score=25.10 Aligned_cols=45 Identities=11% Similarity=0.130 Sum_probs=35.0
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+.+.+.+. ..+.-.-+|..+++++|++......
T Consensus 14 ~i~~~~g~~-~~~~~l~~~~~~~~~~~~~~~l~~~a~~~Gl~~~~~~~ 60 (121)
T cd02417 14 LLARYHGIA-ADPEQLRHEFGLAGEPFNSTELLLAAKSLGLKAKAVRQ 60 (121)
T ss_pred HHHHHcCCC-CCHHHHHHHhcCCCCCCCHHHHHHHHHHcCCeeEEEec
Confidence 577889988 77788887764 2344557799999999999988875
No 61
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=42.24 E-value=36 Score=32.09 Aligned_cols=54 Identities=24% Similarity=0.166 Sum_probs=41.1
Q ss_pred cccchhhHH---HHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccc
Q 029371 63 QLPTDLVRV---DMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSH 117 (194)
Q Consensus 63 ~~~~D~~RV---~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~ 117 (194)
...+|..|+ .||..-|+-+|+|+ +-..+.+|+.+.+..=+..=++|||+.-.+.
T Consensus 238 iITtDtYRIGA~EQLk~Ya~im~vp~-~vv~~~~el~~ai~~l~~~d~ILVDTaGrs~ 294 (407)
T COG1419 238 IITTDTYRIGAVEQLKTYADIMGVPL-EVVYSPKELAEAIEALRDCDVILVDTAGRSQ 294 (407)
T ss_pred EEEeccchhhHHHHHHHHHHHhCCce-EEecCHHHHHHHHHHhhcCCEEEEeCCCCCc
Confidence 355677787 88999999999998 5677888888777542223589999987755
No 62
>cd02423 Peptidase_C39G A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=42.16 E-value=30 Score=25.35 Aligned_cols=45 Identities=18% Similarity=0.230 Sum_probs=33.8
Q ss_pred CeeeccC-CCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIG-INNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g-~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++| ++ .+.+++.+.+. +.++---+|.-+++++|++....+.
T Consensus 19 ~~~~~~g~~~-~~~~~l~~~~~~~~~~~s~~~l~~~a~~~Gl~~~~~~~ 66 (129)
T cd02423 19 TLLRYYGGIN-ITEQEVLKLMLIRSEGFSMLDLKRYAEALGLKANGYRL 66 (129)
T ss_pred HHHHhcCCCC-CCHHHHHHHhCcccCCcCHHHHHHHHHHCCCcceEEEc
Confidence 5778888 77 77788877664 2344446799999999999988774
No 63
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=41.97 E-value=76 Score=23.93 Aligned_cols=47 Identities=13% Similarity=-0.012 Sum_probs=35.9
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCc
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKL 115 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L 115 (194)
++-...+-+.|+..++|+... .|.+||-..+-+....+|++.|.++-
T Consensus 45 ~~~kkki~~~~~~~~vp~~~~-~t~~eLg~a~Gk~~~~~iai~d~g~a 91 (104)
T PRK05583 45 ENSKNKFKNYCNKYNIPYIEG-YSKEELGNAIGRDEIKILGVKDKNMA 91 (104)
T ss_pred HhHHHHHHHHHHHcCCCEEEe-cCHHHHHHHhCCCCeEEEEEeChHHH
Confidence 344466677788899997555 78999999997766678888888743
No 64
>cd02259 Peptidase_C39_like Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in all sub-families.
Probab=41.59 E-value=32 Score=24.86 Aligned_cols=45 Identities=22% Similarity=0.225 Sum_probs=32.7
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+.+.+... ..+.-.-+|..+.+++|++......
T Consensus 14 ~i~~~~g~~-~~~~~l~~~~~~~~~~~~~~~l~~~a~~~gl~~~~~~~ 60 (122)
T cd02259 14 MLLRYFGIP-VRRDVLLNAQQRRQQGLSLADLVSLANKLGLTAQGVKL 60 (122)
T ss_pred HHHHHcCCC-CCHHHHHHHHhhccCCCCHHHHHHHHHHcCCeeeEEEc
Confidence 678889988 66666655543 2334446899999999999988764
No 65
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=41.50 E-value=1.4e+02 Score=27.17 Aligned_cols=74 Identities=14% Similarity=0.113 Sum_probs=52.5
Q ss_pred HHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEE
Q 029371 30 LAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIAL 109 (194)
Q Consensus 30 LaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvL 109 (194)
+.-||+.+|+++.-.-. |. .+-+.+.+. -..|..+|++.+++.++.+--..-|.+.-...-.-|. |.|++
T Consensus 40 ~~~LL~~yg~~y~~iG~-------~g-~~~~~Kl~~-~~~R~~~l~~~~~~~~pDv~is~~s~~a~~va~~lgi-P~I~f 109 (335)
T PF04007_consen 40 TEELLDLYGIDYIVIGK-------HG-DSLYGKLLE-SIERQYKLLKLIKKFKPDVAISFGSPEAARVAFGLGI-PSIVF 109 (335)
T ss_pred HHHHHHHcCCCeEEEcC-------CC-CCHHHHHHH-HHHHHHHHHHHHHhhCCCEEEecCcHHHHHHHHHhCC-CeEEE
Confidence 56788999998765442 22 344444443 5679999999999999887666667766644445675 99999
Q ss_pred EcCC
Q 029371 110 VDQY 113 (194)
Q Consensus 110 vd~~ 113 (194)
.|..
T Consensus 110 ~D~e 113 (335)
T PF04007_consen 110 NDTE 113 (335)
T ss_pred ecCc
Confidence 9986
No 66
>KOG2145 consensus Cytoplasmic tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=41.50 E-value=8.5 Score=35.22 Aligned_cols=49 Identities=29% Similarity=0.502 Sum_probs=34.1
Q ss_pred cceEEEEEEeeCCCceEEEeC------CCCCCceeeeCh-HHHHHHHhhCC-CCccEE
Q 029371 136 TGHYILICGYDANSDEFEIRD------PASCRKREKVTL-KCLEEARKSFG-TDEDLL 185 (194)
Q Consensus 136 ~GHYVVLcGYd~~~~~~~~~D------Pa~~~~~~~~s~-~~~e~AR~s~G-TDeDil 185 (194)
+--=||-||+|.. +.|++.| |++-+...+++- -++.+|+.-|| ||+|+|
T Consensus 148 NaKDIia~GFDp~-kTfIFsn~~y~g~~~fy~nivki~k~vt~nqa~~iFGF~~sd~i 204 (397)
T KOG2145|consen 148 NAKDIIAVGFDPK-KTFIFSNLDYMGGPAFYENIVKISKCVTLNQAKAIFGFTDSDCI 204 (397)
T ss_pred cccceEEeccCCc-ceEEEechhhccCcHHHHHHHHHhheechhhheeeeccCCcccc
Confidence 3455899999998 4577777 555444444332 36889999999 778876
No 67
>cd02425 Peptidase_C39F A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=40.79 E-value=33 Score=25.04 Aligned_cols=45 Identities=20% Similarity=0.338 Sum_probs=34.3
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+.+.+.+. ..+.-..+|..+++++|++......
T Consensus 19 ~~~~~~~~~-~~~~~l~~~~~~~~~~~~~~~l~~~a~~~gl~~~~~~~ 65 (126)
T cd02425 19 MILNYFGYK-VSLNELREKYELGRDGLSLSYLKQLLEEYGFKCKVYKI 65 (126)
T ss_pred HHHHHhCCC-CCHHHHHHhccCCCCCcCHHHHHHHHHHCCCcceEEEE
Confidence 567888888 77777777664 2345557899999999999988764
No 68
>cd02420 Peptidase_C39D A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=40.51 E-value=30 Score=25.45 Aligned_cols=45 Identities=11% Similarity=0.159 Sum_probs=33.9
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+++..... ..+.-.-||..+++++|++.+....
T Consensus 19 ~i~~~~g~~-~~~~~l~~~~~~~~~~~~~~~l~~~a~~~Gl~~~~~~~ 65 (125)
T cd02420 19 IILAYYGRY-VPLSELRIACGVSRDGSNASNLLKAAREYGLTAKGYKK 65 (125)
T ss_pred HHHHHcCCC-CCHHHHHHHcCCCCCCCCHHHHHHHHHHcCcccceEec
Confidence 467888888 77777777654 2345556899999999999888764
No 69
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=39.98 E-value=1.5e+02 Score=25.82 Aligned_cols=60 Identities=8% Similarity=0.146 Sum_probs=39.2
Q ss_pred HHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceE-eccccHHHHHHHHHc
Q 029371 29 DLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIE-CGSISGVEISLMILS 101 (194)
Q Consensus 29 DLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~-~rsvs~~eI~~~L~~ 101 (194)
.+.|++++||++.... +|.+|.-... -.++.++-+.+++.++.+. .-+..-..+.+.|++
T Consensus 188 af~Yl~~~~gl~~~~~---~~~~~~~eps----------~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~ 248 (286)
T cd01019 188 AYGYFEKRYGLTQAGV---FTIDPEIDPG----------AKRLAKIRKEIKEKGATCVFAEPQFHPKIAETLAE 248 (286)
T ss_pred cHHHHHHHcCCceeee---ecCCCCCCCC----------HHHHHHHHHHHHHcCCcEEEecCCCChHHHHHHHH
Confidence 3679999999986542 2333332222 7788999999999999643 334444556666654
No 70
>cd00585 Peptidase_C1B Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is a cysteine peptidase that detoxifies bleomycin by hydrolysis of an amide group. It acts as a carboxypeptidase on its C-terminus to convert itself into an aminopeptidase and peptide ligase. BH is found in all tissues in mammals as well as in many other eukaryotes. Bleomycin, a glycopeptide derived from the fungus Streptomyces verticullus, is an effective anticancer drug due to its ability to induce DNA strand breaks. Human BH is the major cause of tumor cell resistance to bleomycin chemotherapy, and is also genetically linked to Alzheimer's disease. In addition to its peptidase activity, the yeast BH (Gal6) binds DNA and acts as a repressor in the Gal4 regulatory system. BH forms a hexameric ring barrel structure w
Probab=39.67 E-value=1.3e+02 Score=28.61 Aligned_cols=66 Identities=12% Similarity=0.154 Sum_probs=39.1
Q ss_pred ccccHHHHH----HHHHcCCcEEEEEEcCCCccccccccccccCc-------------------cCCCCCCcceEEEEEE
Q 029371 88 GSISGVEIS----LMILSGNYIAIALVDQYKLSHSWMEDVIVPGF-------------------YGSDSGYTGHYILICG 144 (194)
Q Consensus 88 rsvs~~eI~----~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~-------------------~~~~~~Y~GHYVVLcG 144 (194)
--++++++. +.|.+|. ||-+-.|.+... +..+.+..... .+.+. -.-|-++|+|
T Consensus 290 ~Nvp~d~l~~~~~~~L~~g~-pV~~g~Dv~~~~-~~k~GI~d~~~~~~~~~f~~~~~~~KaeRl~~~es-~~tHAM~ivG 366 (437)
T cd00585 290 LNVPMDVLKKAAIAQLKDGE-PVWFGCDVGKFS-DRKSGILDTDLFDYELLFGIDFGLNKAERLDYGES-LMTHAMVLTG 366 (437)
T ss_pred EecCHHHHHHHHHHHHhcCC-CEEEEEEcChhh-ccCCccccCcccchhhhcCccccCCHHHHHhhcCC-cCCeEEEEEE
Confidence 345788877 5567884 999888987542 22222211110 01111 3459999999
Q ss_pred eeCCC-c---eEEEeC
Q 029371 145 YDANS-D---EFEIRD 156 (194)
Q Consensus 145 Yd~~~-~---~~~~~D 156 (194)
|+.+. + .+.++|
T Consensus 367 v~~D~~g~p~yw~VkN 382 (437)
T cd00585 367 VDLDEDGKPVKWKVEN 382 (437)
T ss_pred EEecCCCCcceEEEEc
Confidence 99864 3 466666
No 71
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=38.84 E-value=1e+02 Score=26.00 Aligned_cols=88 Identities=18% Similarity=0.245 Sum_probs=56.6
Q ss_pred CCceeHHHHHHHHhhc-CcceeeeecccCCCCCCCcchhhc----------------ccc-cchhhHHHHHHHHHHHcCC
Q 029371 22 TTSIWTVDLAYLLQKF-NVGFSYFTITLGANPNYSVETFYK----------------EQL-PTDLVRVDMLFQKARSAGI 83 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~-gv~~~f~T~tlG~np~y~~~~fY~----------------~~~-~~D~~RV~~lF~~A~~~gi 83 (194)
++|+|.+-+|+-+..- |.++.|+|- .-+.+..+. ..+ +++-.|+.+...+..+.++
T Consensus 31 GKT~~~l~ia~~~a~~~~~~vly~Sl------Em~~~~l~~R~la~~s~v~~~~i~~g~l~~~e~~~~~~~~~~l~~~~l 104 (259)
T PF03796_consen 31 GKTAFALQIALNAALNGGYPVLYFSL------EMSEEELAARLLARLSGVPYNKIRSGDLSDEEFERLQAAAEKLSDLPL 104 (259)
T ss_dssp SHHHHHHHHHHHHHHTTSSEEEEEES------SS-HHHHHHHHHHHHHTSTHHHHHCCGCHHHHHHHHHHHHHHHHTSEE
T ss_pred CchHHHHHHHHHHHHhcCCeEEEEcC------CCCHHHHHHHHHHHhhcchhhhhhccccCHHHHHHHHHHHHHHhhCcE
Confidence 6889999999755554 799999995 222222322 112 3445677777777777777
Q ss_pred ceEe-ccccHHHHHHHHH----cCCcEEEEEEcCCCc
Q 029371 84 KIEC-GSISGVEISLMIL----SGNYIAIALVDQYKL 115 (194)
Q Consensus 84 ~v~~-rsvs~~eI~~~L~----~G~~~~IvLvd~~~L 115 (194)
-+.. .+.++++|...+. +++.+-+|+||.-.|
T Consensus 105 ~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~l 141 (259)
T PF03796_consen 105 YIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQL 141 (259)
T ss_dssp EEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGG
T ss_pred EEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHH
Confidence 6654 4779999887763 313477889997766
No 72
>TIGR01123 ilvE_II branched-chain amino acid aminotransferase, group II. Among the class IV aminotransferases are two phylogenetically separable groups of branched-chain amino acid aminotransferase (IlvE). The last common ancestor of the two lineages appears also to have given rise to a family of D-amino acid aminotransferases (DAAT). This model represents the IlvE family less similar to the DAAT family.
Probab=38.00 E-value=66 Score=28.30 Aligned_cols=40 Identities=23% Similarity=0.292 Sum_probs=31.7
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCC
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQY 113 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~ 113 (194)
..+.+.|++.|++|+.+.++.+|+.+....+.. +-++|+.
T Consensus 222 ~~vi~l~~~~Gi~v~e~~i~~~~l~~A~~~~de--vfltnS~ 261 (313)
T TIGR01123 222 DSLLQLAKDLGMEVEERRIDIDELKAFVEAGEE--VFACGTA 261 (313)
T ss_pred HHHHHHHHHcCCeEEEEecCHHHHHHHHhcCCE--EEEccCc
Confidence 678889999999999999999999987655532 5555554
No 73
>PF15636 Tox-GHH: GHH signature containing HNH/Endo VII superfamily nuclease toxin
Probab=37.28 E-value=34 Score=24.86 Aligned_cols=16 Identities=13% Similarity=0.173 Sum_probs=10.9
Q ss_pred ccccHHHHHHHHHcCC
Q 029371 88 GSISGVEISLMILSGN 103 (194)
Q Consensus 88 rsvs~~eI~~~L~~G~ 103 (194)
+.=|-.|..++|.+|.
T Consensus 35 r~Wt~~Ek~ell~~G~ 50 (79)
T PF15636_consen 35 RNWTEEEKQELLSTGK 50 (79)
T ss_pred CccCHHHHHHHHHcCC
Confidence 3456777777777775
No 74
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=37.27 E-value=1.5e+02 Score=24.72 Aligned_cols=66 Identities=23% Similarity=0.255 Sum_probs=46.2
Q ss_pred hcCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHH
Q 029371 20 CCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMI 99 (194)
Q Consensus 20 c~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L 99 (194)
|.+-|++. |-+|... |+++.-|= -|||.-+..=| ..|.+.+=+-|+..||++....-..++-...+
T Consensus 7 CaPCs~~~--~~~L~~~-g~~vt~~f----yNPNIhP~~Ey-------~~R~~~~~~~~~~~~i~~i~~~Y~~~~w~~~v 72 (176)
T PF02677_consen 7 CAPCSTYP--LERLREE-GFDVTGYF----YNPNIHPYEEY-------ERRLEELKRFAEKLGIPLIEGDYDPEEWLRAV 72 (176)
T ss_pred CccccHHH--HHHHHHC-CCCeEEEE----eCCCCCcHHHH-------HHHHHHHHHHHHHcCCCEEecCCCHHHHHHHH
Confidence 45777777 5555555 66544322 35888777544 89999999999999999877776666655544
No 75
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=36.61 E-value=1.8e+02 Score=24.48 Aligned_cols=68 Identities=10% Similarity=0.201 Sum_probs=39.7
Q ss_pred HHHHHhhcCcceeeee-cccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCce-EeccccHHHHHHHHHcCCcEEE
Q 029371 30 LAYLLQKFNVGFSYFT-ITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKI-ECGSISGVEISLMILSGNYIAI 107 (194)
Q Consensus 30 LaylL~~~gv~~~f~T-~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v-~~rsvs~~eI~~~L~~G~~~~I 107 (194)
+.|+++.||++....- ..-|..|. ..++.++-+..++.|+.+ ..-+..-..+.+.|++..+.-|
T Consensus 160 ~~Y~~~~~gl~~~~~~~~~~~~~ps--------------~~~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~v 225 (256)
T PF01297_consen 160 FQYFAKRYGLKVIGVIEISPGEEPS--------------PKDLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKV 225 (256)
T ss_dssp THHHHHHTT-EEEEEESSSSSSSS---------------HHHHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EE
T ss_pred HHHHHHhcCCceeeeeccccccCCC--------------HHHHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcE
Confidence 5699999999865444 33344444 788899999999999953 2334444456666654322334
Q ss_pred EEEc
Q 029371 108 ALVD 111 (194)
Q Consensus 108 vLvd 111 (194)
+-+|
T Consensus 226 v~ld 229 (256)
T PF01297_consen 226 VYLD 229 (256)
T ss_dssp EESS
T ss_pred EEeC
Confidence 3333
No 76
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=36.57 E-value=1.4e+02 Score=28.14 Aligned_cols=86 Identities=10% Similarity=0.065 Sum_probs=56.9
Q ss_pred CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhccc----------ccchhhHHHHHHHHHHHcCCceEec---
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQ----------LPTDLVRVDMLFQKARSAGIKIECG--- 88 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~----------~~~D~~RV~~lF~~A~~~gi~v~~r--- 88 (194)
++.+=|..|+.+|++.|.++..+-. | |.|..-.|.+.. +-..+.+|.+.|...+ ..+.|.+.
T Consensus 14 GKT~vt~gl~~~l~~~g~~v~~~K~--G--pd~iD~~~~~~~~g~~~~nld~~~~~~~~i~~~~~~~~-~d~~vIEG~gG 88 (433)
T PRK13896 14 GKTVATLATIRALEDAGYAVQPAKA--G--PDFIDPSHHEAVAGRPSRTLDPWLSGEDGMRRNYYRGE-GDICVVEGVMG 88 (433)
T ss_pred CHHHHHHHHHHHHHHCCCeeEEEee--C--CCCCCHHHHHHHhCCCcccCChhhCCHHHHHHHHHhhc-CCEEEEECCCc
Confidence 4446678899999999999887764 6 556555666533 2223466888887554 44443333
Q ss_pred -----cccHHHHHHHHHcCCcEEEEEEcCCCc
Q 029371 89 -----SISGVEISLMILSGNYIAIALVDQYKL 115 (194)
Q Consensus 89 -----svs~~eI~~~L~~G~~~~IvLvd~~~L 115 (194)
..|.-++...+ | .|+|+.||+...
T Consensus 89 l~dg~~~s~adla~~l--~-~PviLVv~~~~g 117 (433)
T PRK13896 89 LYDGDVSSTAMVAEAL--D-LPVVLVVDAKAG 117 (433)
T ss_pred cccCCCCCHHHHHHHH--C-CCEEEEEcCccc
Confidence 24667776655 5 589999998755
No 77
>PTZ00462 Serine-repeat antigen protein; Provisional
Probab=36.38 E-value=55 Score=34.26 Aligned_cols=52 Identities=21% Similarity=0.199 Sum_probs=29.4
Q ss_pred HHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeC
Q 029371 93 VEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDA 147 (194)
Q Consensus 93 ~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~ 147 (194)
++|+..|.+. +|++|.||+.-..-+..+.+.....++ . ....|-|+|+||-.
T Consensus 681 ~~IK~eI~~k-GPVaV~IdAsdf~~Y~~sGIyv~~~Cg-s-~~~nHAVlIVGYGt 732 (1004)
T PTZ00462 681 KIIKDEIMNK-GSVIAYIKAENVLGYEFNGKKVQNLCG-D-DTADHAVNIVGYGN 732 (1004)
T ss_pred HHHHHHHHhc-CCEEEEEEeehHHhhhcCCccccCCCC-C-CcCCceEEEEEecc
Confidence 5678888774 489999998421111011221221121 1 23469999999975
No 78
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=36.20 E-value=85 Score=30.02 Aligned_cols=91 Identities=21% Similarity=0.268 Sum_probs=62.4
Q ss_pred CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhc----------ccccchhhHHHHHHHHHHHcC-CceEec--
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYK----------EQLPTDLVRVDMLFQKARSAG-IKIECG-- 88 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~----------~~~~~D~~RV~~lF~~A~~~g-i~v~~r-- 88 (194)
++-|=|+.|.-+|++-|.++.=|- +=|+|=.-+|=. +.|-..+..|+++|.++.+-. |.|.+.
T Consensus 13 GKTTvT~glm~aL~~rg~~VqpfK----vGPDYIDP~~H~~atG~~srNLD~~mm~~~~v~~~f~~~~~~adi~vIEGVM 88 (451)
T COG1797 13 GKTTVTLGLMRALRRRGLKVQPFK----VGPDYIDPGYHTAATGRPSRNLDSWMMGEEGVRALFARAAADADIAVIEGVM 88 (451)
T ss_pred cHHHHHHHHHHHHHhcCCcccccc----cCCCccCchhhhHhhCCccCCCchhhcCHHHHHHHHHHhcCCCCEEEEeecc
Confidence 344678899999999998887555 235554444433 235567899999999888764 443332
Q ss_pred -----------cccHHHHHHHHHcCCcEEEEEEcCCCccccc
Q 029371 89 -----------SISGVEISLMILSGNYIAIALVDQYKLSHSW 119 (194)
Q Consensus 89 -----------svs~~eI~~~L~~G~~~~IvLvd~~~L~~~~ 119 (194)
.-|..+|...| | .|||..||..-++.+.
T Consensus 89 GLfDG~~~~~~~gSTA~lAk~l--~-~PVvLVid~~~~s~S~ 127 (451)
T COG1797 89 GLFDGRGSATDTGSTADLAKLL--G-APVVLVVDASGLSRSV 127 (451)
T ss_pred ccccCCCCCcCCCCHHHHHHHh--C-CCEEEEEeCcchhHHH
Confidence 34556666654 6 6999999999887754
No 79
>cd02419 Peptidase_C39C A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.
Probab=35.42 E-value=46 Score=24.41 Aligned_cols=45 Identities=13% Similarity=0.184 Sum_probs=34.3
Q ss_pred CeeeccCCCCCChhHHHhhhc--CCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCC--TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~--~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|++ .+.+.+.+... ..+.-.-+|.-+++++|++.+....
T Consensus 19 ~~~~~~g~~-~~~~~l~~~~~~~~~~~~~~~l~~~a~~~Gl~~~~~~~ 65 (127)
T cd02419 19 MIASYHGHH-VDLASLRQRFPVSLKGATLADLIDIAQQLGLSTRALRL 65 (127)
T ss_pred HHHHHcCCC-CCHHHHHHHcCCCCCCcCHHHHHHHHHHCCCceeEEEc
Confidence 567888888 67777776653 3455567899999999999988874
No 80
>PLN02673 quinolinate synthetase A
Probab=34.55 E-value=1.1e+02 Score=31.04 Aligned_cols=139 Identities=13% Similarity=0.157 Sum_probs=82.3
Q ss_pred eeecccCCCCCCCcchhhccc----ccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHH--cCCcEEEEEEcCCCcc
Q 029371 43 YFTITLGANPNYSVETFYKEQ----LPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMIL--SGNYIAIALVDQYKLS 116 (194)
Q Consensus 43 f~T~tlG~np~y~~~~fY~~~----~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~--~G~~~~IvLvd~~~L~ 116 (194)
|-+-.+++|- ..+++-|-+. +.-|+..|.++-+.-++.++.|..-.=--.|||+... +.+.|-|..=|+-.|.
T Consensus 228 fp~~~~~~~~-~~~~~~~~~~~a~~l~p~~~~v~eI~~lkkek~avILAH~Yq~pEVQ~iADa~~~~~p~~~vGDSL~LA 306 (724)
T PLN02673 228 FPSLVLTADG-IEAKGSFAQAQARYLFPEESKVEELVNVLKEKKIGVVAHFYMDPEVQGVLTAAQKHWPHISISDSLIMA 306 (724)
T ss_pred CceeEecccc-cccccchHHhhhhhcCCCHHHHHHHHHHHHhcCcEEEEecCCCHHHHHHhhhhhcccCCCeeccHHHHH
Confidence 5555556654 5555555433 7888999999998888888877666666677877765 3445666555665554
Q ss_pred ccccccccccCccCCCCCCcceEEEEEEeeCCCceE-EEeCCC-CCCc-e---------e----eeChHHHHHHHhhCC-
Q 029371 117 HSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEF-EIRDPA-SCRK-R---------E----KVTLKCLEEARKSFG- 179 (194)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~-~~~DPa-~~~~-~---------~----~~s~~~~e~AR~s~G- 179 (194)
-...+ + .+-.--+||.||.+==.... -|-||. +.++ + | .++.+.+++.|....
T Consensus 307 ~~A~~---~-------~~~~a~~IVFcGV~FMAEtA~kIL~p~~~~~k~V~llPd~~AGCsMAdma~~~~~~~~~~~~~~ 376 (724)
T PLN02673 307 DSAVK---M-------AKAGCQFITVLGVDFMSENVRAILDQAGFGEVGVYRMSNERIGCSLADAASTPAYMNYLEAASA 376 (724)
T ss_pred HHHHH---h-------ccCCCCEEEEeceeeHHhhHHHhcCCCccCCceEEeCCCCCCCCChhhcCCHHHHHHHHHHHhh
Confidence 32100 0 01234689999987433333 344553 1111 1 3 346788888888822
Q ss_pred CCccEEEEEcCCC
Q 029371 180 TDEDLLLISLEKT 192 (194)
Q Consensus 180 TDeDil~I~~~~~ 192 (194)
..+-+.++|.+.+
T Consensus 377 ~p~~~vV~YINTS 389 (724)
T PLN02673 377 SPPSLHVVYINTS 389 (724)
T ss_pred CCCCceEEEecCc
Confidence 2345666676654
No 81
>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family. members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.
Probab=34.03 E-value=2.5e+02 Score=24.81 Aligned_cols=82 Identities=7% Similarity=-0.052 Sum_probs=46.6
Q ss_pred hhHHHhhhcCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccc--hhhHHHHHHHHHHHcCCceEec--
Q 029371 13 IQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPT--DLVRVDMLFQKARSAGIKIECG-- 88 (194)
Q Consensus 13 ~~~l~~~c~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~--D~~RV~~lF~~A~~~gi~v~~r-- 88 (194)
..++..+|.+.+..+-+.+-.|+..|++.-. |..+.-..+...+...+. ...+.-+..+.|++.|+++...
T Consensus 128 ~~ei~~~~~~~g~~~~e~l~~Lk~aG~~~~~-----~~g~E~~~~~~~~~~~~~~~s~~~~l~~i~~a~~~Gi~v~~~~i 202 (340)
T TIGR03699 128 PVEIVYIAKKEGLSLREVLERLKEAGLDSIP-----GGGAEILSDRVRKIISPKKISSEEWLEVMETAHKLGLPTTATMM 202 (340)
T ss_pred HHHHHHHhccCCCCHHHHHHHHHHcCCCcCC-----CCcccccCHHHHHhhCCCCCCHHHHHHHHHHHHHcCCCccceeE
Confidence 4455556666666678889999999997321 111111112223332221 2333467788999999975322
Q ss_pred ---cccHHHHHHHH
Q 029371 89 ---SISGVEISLMI 99 (194)
Q Consensus 89 ---svs~~eI~~~L 99 (194)
.-|.+++.+++
T Consensus 203 iGlgEt~ed~~~~l 216 (340)
T TIGR03699 203 FGHVETLEDRIEHL 216 (340)
T ss_pred eeCCCCHHHHHHHH
Confidence 33666766664
No 82
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=34.01 E-value=2.4e+02 Score=22.30 Aligned_cols=39 Identities=15% Similarity=0.260 Sum_probs=28.5
Q ss_pred ccchhhHHHHHHHHHHHcCCceEeccc-------cHHHHHHHHHcC
Q 029371 64 LPTDLVRVDMLFQKARSAGIKIECGSI-------SGVEISLMILSG 102 (194)
Q Consensus 64 ~~~D~~RV~~lF~~A~~~gi~v~~rsv-------s~~eI~~~L~~G 102 (194)
|+..+.-..+++.+|.+.|+++.-|.+ +...|++++.++
T Consensus 7 ~SMP~~~Lk~l~~~a~~~g~~~VlRG~~~~~~~~T~~~i~~L~~~~ 52 (130)
T TIGR02742 7 FSMPEPLLKQLLDQAEALGAPLVIRGLLDNGFKATATRIQSLIKDG 52 (130)
T ss_pred cCCCHHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHhcC
Confidence 444566689999999999998777766 455566666555
No 83
>PF01640 Peptidase_C10: Peptidase C10 family classification.; InterPro: IPR000200 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C10 (streptopain family, clan CA). Streptopain is a cysteine protease found in Streptococcus pyogenes that shows some structural and functional similarity to papain (family C1) [, ]. The order of the catalytic cysteine/histidine dyad is the same and the surrounding sequences are similar. The two proteins also show similar specificities, both preferring a hydrophobic residue at the P2 site [, ]. Streptopain shows a high degree of sequence similarity to the S. pyogenes exotoxin B, and strong similarity to the prtT gene product of Porphyromonas gingivalis (Bacteroides gingivalis), both of which have been included in the family [].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 4D8I_A 4D8E_A 4D8B_A 3BBA_B 3BB7_A 2JTC_A 1PVJ_A 1DKI_D 2UZJ_A.
Probab=33.75 E-value=1.2e+02 Score=24.95 Aligned_cols=13 Identities=46% Similarity=0.871 Sum_probs=11.3
Q ss_pred ceEEEEEEeeCCC
Q 029371 137 GHYILICGYDANS 149 (194)
Q Consensus 137 GHYVVLcGYd~~~ 149 (194)
||--|+-||+...
T Consensus 163 GHawViDGy~~~~ 175 (192)
T PF01640_consen 163 GHAWVIDGYDSDG 175 (192)
T ss_dssp EEEEEEEEEESSS
T ss_pred CeEEEEcCccCCC
Confidence 9999999997654
No 84
>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein. Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif
Probab=33.70 E-value=38 Score=32.97 Aligned_cols=42 Identities=17% Similarity=0.163 Sum_probs=36.1
Q ss_pred CeeeccCCCCCChhHHHhhhcCCceeHHHHHHHHhhcCcceeeeec
Q 029371 1 MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 1 MvL~~~g~~~~~~~~l~~~c~~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
|+++++|.+ .+.+++.+.|.+ | .-+|..+++++|++.+-+..
T Consensus 10 ~i~~~~~~~-~~~~~lr~~~~g-~--~~~l~~~~~~~g~~~~~~~~ 51 (686)
T TIGR03797 10 AVGRAMGIE-IRPPARSENLSR-S--PEPLEAIARASRLRIRRVRL 51 (686)
T ss_pred HHHHHhCCC-CChHHHHHHcCC-C--HHHHHHHHHHCCCceEEEec
Confidence 789999998 888999998844 4 78999999999999988874
No 85
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=33.44 E-value=82 Score=26.60 Aligned_cols=51 Identities=14% Similarity=0.152 Sum_probs=39.9
Q ss_pred HHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCc
Q 029371 29 DLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIK 84 (194)
Q Consensus 29 DLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~ 84 (194)
+++-.++++||.+.+.-+.-+.+|.|... --..|..+|+..|++....-+.
T Consensus 46 ~F~k~AkKyGV~yav~kdk~~~~~~~~V~-----FkA~Da~~i~~af~~~~~~~~~ 96 (204)
T PF12687_consen 46 EFKKEAKKYGVDYAVKKDKSTGPGKYDVF-----FKAKDADVINRAFKEFSAKKLK 96 (204)
T ss_pred HHHHHHHHcCCceEEeeccCCCCCcEEEE-----EEcCcHHHHHHHHHHHHHHhhh
Confidence 46788999999999999877777765543 2467899999999987766553
No 86
>PF00634 BRCA2: BRCA2 repeat; InterPro: IPR002093 The breast cancer type 2 susceptibility protein has a number of 39 amino acid repeats [] that are critical for binding to RAD51 (a key protein in DNA recombinational repair) and resistance to methyl methanesulphonate treatment [, , ]. BRCA2 is a breast tumour suppressor with a potential function in the cellular response to DNA damage. At the cellular level, expression is regulated in a cell-cycle dependent manner and peak expression of BRCA2 mRNA is found in S phase, suggesting BRCA2 may participate in regulating cell proliferation. There are eight repeats in BRCA2 designated as BRC1 to BRC8. BRC1, BRC2, BRC3, BRC4, BRC7, and BRC8 are highly conserved and bind to Rad51, whereas BRC5 and BRC6 are less well conserved and do not bind to Rad51 []. It has been suggested that BRCA2 plays a role in positioning Rad51 at the site of DNA repair or in removing Rad51 from DNA once repair has been completed. ; GO: 0005515 protein binding, 0006302 double-strand break repair; PDB: 1N0W_B.
Probab=33.34 E-value=22 Score=22.06 Aligned_cols=22 Identities=32% Similarity=0.463 Sum_probs=11.2
Q ss_pred ceeeeChHHHHHHHhhCCCCcc
Q 029371 162 KREKVTLKCLEEARKSFGTDED 183 (194)
Q Consensus 162 ~~~~~s~~~~e~AR~s~GTDeD 183 (194)
+.+.||.++|.+||+-|.-.||
T Consensus 14 k~v~VS~~sl~Kak~lf~d~e~ 35 (35)
T PF00634_consen 14 KKVSVSEESLQKAKKLFSDIEE 35 (35)
T ss_dssp -B----HHHHHHTTTTT-----
T ss_pred CEEEEcHHHHHHHHHHhcccCC
Confidence 5666999999999998876654
No 87
>CHL00130 rbcS ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
Probab=33.18 E-value=72 Score=25.78 Aligned_cols=66 Identities=18% Similarity=0.207 Sum_probs=39.3
Q ss_pred HHHHHHcCCcEEEEEEcCCCccc-cc---cccccc--------cC-ccCCCCCCcceEEEEEEeeCCCc------eEEEe
Q 029371 95 ISLMILSGNYIAIALVDQYKLSH-SW---MEDVIV--------PG-FYGSDSGYTGHYILICGYDANSD------EFEIR 155 (194)
Q Consensus 95 I~~~L~~G~~~~IvLvd~~~L~~-~~---~~~~~~--------~~-~~~~~~~Y~GHYVVLcGYd~~~~------~~~~~ 155 (194)
|.-.|.+|=.|.|=..|.+.-.. .| .-+.+. .- -.| ...|-+|||=|+|||...+ .|+.+
T Consensus 23 I~Y~i~~GW~p~iEft~~~~~~~~YW~MWkLPMFg~tD~~~Vl~Ei~~C-rkayP~~yIRl~gFDn~rq~Q~~~~sFiV~ 101 (138)
T CHL00130 23 IQYAISKGWALNVEWTDDPHPRNSYWELWGLPLFDVKDPAAVMFEINEC-RKQKPNGYIKVNAFDASRGVESCVLSFIVN 101 (138)
T ss_pred HHHHHhcCCeEEEEecCCCCcCccEEeeeCCccCCCCCHHHHHHHHHHH-HHHCCCcEEEEEEeeCCCcEEEeEEEEEEe
Confidence 34446788778887777764322 22 111111 00 001 1348899999999999877 36777
Q ss_pred CCCCCC
Q 029371 156 DPASCR 161 (194)
Q Consensus 156 DPa~~~ 161 (194)
-|+.+.
T Consensus 102 rP~~ep 107 (138)
T CHL00130 102 RPANEP 107 (138)
T ss_pred CCCCCC
Confidence 776654
No 88
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=33.01 E-value=1e+02 Score=29.65 Aligned_cols=80 Identities=15% Similarity=0.144 Sum_probs=54.2
Q ss_pred ccchhhHH---HHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEE
Q 029371 64 LPTDLVRV---DMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYI 140 (194)
Q Consensus 64 ~~~D~~RV---~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYV 140 (194)
+-+||..| -..+-...+.|+.|...+-+..|=.+.+..-+ |=||++|=++=.- +..-+... -....-+.|+|
T Consensus 6 IVDDE~lIr~GLk~lI~w~~~g~eiVgtA~NG~eAleli~e~~-pDiviTDI~MP~m---dGLdLI~~-ike~~p~~~~I 80 (475)
T COG4753 6 IVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQETQ-PDIVITDINMPGM---DGLDLIKA-IKEQSPDTEFI 80 (475)
T ss_pred EecChHHHHHHHHHhCChhhcCCeEEEecccHHHHHHHHHhcC-CCEEEEecCCCCC---cHHHHHHH-HHHhCCCceEE
Confidence 44667666 34556678899999999999999999888875 8899999773211 00000000 11234789999
Q ss_pred EEEEeeCC
Q 029371 141 LICGYDAN 148 (194)
Q Consensus 141 VLcGYd~~ 148 (194)
||-||+.-
T Consensus 81 ILSGy~eF 88 (475)
T COG4753 81 ILSGYDEF 88 (475)
T ss_pred EEeccchh
Confidence 99999853
No 89
>TIGR00936 ahcY adenosylhomocysteinase. This enzyme hydrolyzes adenosylhomocysteine as part of a cycle for the regeneration of the methyl donor S-adenosylmethionine. Species that lack this enzyme are likely to have adenosylhomocysteine nucleosidase (EC 3.2.2.9), an enzyme which also acts as 5'-methyladenosine nucleosidase (see TIGR01704).
Probab=32.76 E-value=2e+02 Score=26.92 Aligned_cols=71 Identities=21% Similarity=0.116 Sum_probs=51.0
Q ss_pred eeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceE-eccccHHHHHHHHH---
Q 029371 25 IWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIE-CGSISGVEISLMIL--- 100 (194)
Q Consensus 25 ~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~-~rsvs~~eI~~~L~--- 100 (194)
.=|.=|+..|+..|.++..++ .|| +|.+ +..-+.-.+.||+|. .+.-|.+|-..+|.
T Consensus 43 ~~Ta~l~~~L~~~GA~v~~~~----~np-~stq--------------d~vaaaL~~~gi~v~a~~~~~~~ey~~~~~~~l 103 (406)
T TIGR00936 43 VETAVLIETLVAGGAEVAWTS----CNP-LSTQ--------------DDVAAALAKAGIPVFAWRGETNEEYYWAIEQVL 103 (406)
T ss_pred HHHHHHHHHHHHcCCEEEEEc----cCC-cccc--------------HHHHHHHHhCCceEEEecCCCHHHHHHHHHHHh
Confidence 457778999999999998887 788 4777 344444457899876 67778888766653
Q ss_pred cCCcEEEEEEcCCCc
Q 029371 101 SGNYIAIALVDQYKL 115 (194)
Q Consensus 101 ~G~~~~IvLvd~~~L 115 (194)
.. .|-|++=|.+.|
T Consensus 104 ~~-~p~~iiDdGgdl 117 (406)
T TIGR00936 104 DH-EPNIIIDDGADL 117 (406)
T ss_pred cC-CCCEEEecccHH
Confidence 34 377777777655
No 90
>PLN02782 Branched-chain amino acid aminotransferase
Probab=32.34 E-value=48 Score=30.87 Aligned_cols=27 Identities=22% Similarity=0.287 Sum_probs=24.4
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISLM 98 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~ 98 (194)
..+.+.|++.|+.|++|.++++|+.+.
T Consensus 315 ~svlela~~~Gi~V~Er~i~~~eL~~A 341 (403)
T PLN02782 315 KSIIDVARSQGFQVEERNVTVDELLEA 341 (403)
T ss_pred HHHHHHHHHcCCeEEEEECCHHHHhhC
Confidence 678889999999999999999999774
No 91
>PRK05476 S-adenosyl-L-homocysteine hydrolase; Provisional
Probab=31.69 E-value=2.1e+02 Score=26.93 Aligned_cols=72 Identities=24% Similarity=0.179 Sum_probs=50.8
Q ss_pred eeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceE-eccccHHHHHHHHHc--
Q 029371 25 IWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIE-CGSISGVEISLMILS-- 101 (194)
Q Consensus 25 ~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~-~rsvs~~eI~~~L~~-- 101 (194)
.=|.-|+..|+..|.++..++ .|| +|.+ ...-+.-.+.||+|. .+..+.+|-..++.+
T Consensus 59 ~~Ta~l~~~L~~~GA~v~~~~----~np-~Stq--------------d~vaaaL~~~gi~v~a~~~~~~~ey~~~~~~~l 119 (425)
T PRK05476 59 IQTAVLIETLKALGAEVRWAS----CNP-FSTQ--------------DDVAAALAAAGIPVFAWKGETLEEYWECIERAL 119 (425)
T ss_pred ccHHHHHHHHHHcCCEEEEEe----CCC-cccC--------------HHHHHHHHHCCceEEecCCCCHHHHHHHHHHHh
Confidence 457889999999999999887 788 4777 445555566799865 466677775555432
Q ss_pred -CCcEEEEEEcCCCc
Q 029371 102 -GNYIAIALVDQYKL 115 (194)
Q Consensus 102 -G~~~~IvLvd~~~L 115 (194)
+..|-|++=|.+.|
T Consensus 120 ~~~~p~iiiDdGgdl 134 (425)
T PRK05476 120 DGHGPNMILDDGGDL 134 (425)
T ss_pred cCCCCCEEEecccHH
Confidence 33477777777766
No 92
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=30.18 E-value=96 Score=24.43 Aligned_cols=46 Identities=17% Similarity=0.356 Sum_probs=34.3
Q ss_pred CcceEEEEEEeeCCCceEEEeCCCCCCceeeeC-hHHHHHHHhhCCCCc-c-EEEEEcCC
Q 029371 135 YTGHYILICGYDANSDEFEIRDPASCRKREKVT-LKCLEEARKSFGTDE-D-LLLISLEK 191 (194)
Q Consensus 135 Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s-~~~~e~AR~s~GTDe-D-il~I~~~~ 191 (194)
+.|.++||..| |+.....|... ...|.+.+..|-... + ++.|+.+.
T Consensus 27 ~~gk~vvl~fy-----------P~~~tp~Ct~e~~~~~~~~~~~f~~~g~~~V~~iS~D~ 75 (155)
T cd03013 27 FKGKKVVIFGV-----------PGAFTPTCSAQHLPGYVENADELKAKGVDEVICVSVND 75 (155)
T ss_pred hCCCcEEEEEe-----------CCCCCCCCchhHHHHHHHhHHHHHHCCCCEEEEEECCC
Confidence 57778888877 66668899998 889998888874222 3 77777654
No 93
>PF14172 DUF4309: Domain of unknown function (DUF4309)
Probab=29.28 E-value=2.6e+02 Score=22.01 Aligned_cols=87 Identities=17% Similarity=0.252 Sum_probs=49.7
Q ss_pred HHHHHHHHHHcCCc---eEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeC
Q 029371 71 VDMLFQKARSAGIK---IECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDA 147 (194)
Q Consensus 71 V~~lF~~A~~~gi~---v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~ 147 (194)
++++++.|++-.++ .-..+-+++++.+.. |+..--. -.+..++.-..|++ --+..|||.
T Consensus 2 l~~i~~~A~~Gkv~~~~f~ig~s~~~dV~k~w--Gkpd~~~---------------~~~~~~~~Y~~y~~-~~~~fg~nk 63 (134)
T PF14172_consen 2 LNNIYKLAKQGKVPNSDFAIGTSTIDDVEKKW--GKPDKTD---------------YVAGGKGTYATYMK-KGVVFGYNK 63 (134)
T ss_pred HHHHHHHHHCCcccCCCccCCcchHHHHHHhc--CCCCCcc---------------ccccccccceecCC-CeEEEEECC
Confidence 46777777776654 222333466666654 4310110 11122233456999 455678999
Q ss_pred CCceEEEeCCCCCCceeeeChHHHHHHHhh
Q 029371 148 NSDEFEIRDPASCRKREKVTLKCLEEARKS 177 (194)
Q Consensus 148 ~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s 177 (194)
..+-+.+|-=. .+...++++.+++++.+
T Consensus 64 ~~~i~eIrs~d--~~l~~itl~~vk~~LG~ 91 (134)
T PF14172_consen 64 GDQIFEIRSFD--PNLKSITLSDVKKVLGK 91 (134)
T ss_pred CCeEEEEEEcC--ccccccCHHHHHHHhCC
Confidence 99877766322 23337898888888644
No 94
>PLN02883 Branched-chain amino acid aminotransferase
Probab=29.22 E-value=60 Score=30.09 Aligned_cols=27 Identities=19% Similarity=0.186 Sum_probs=24.2
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISLM 98 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~ 98 (194)
..+.+.|++.|++|++|.++++|+.+.
T Consensus 297 ~svl~la~~~G~~V~Er~i~~~eL~~A 323 (384)
T PLN02883 297 KSIIEIALDLGYKVEERRVPVEELKEA 323 (384)
T ss_pred HHHHHHHHHCCCeEEEEECCHHHHHhC
Confidence 677788999999999999999999764
No 95
>PRK09314 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=29.14 E-value=1.7e+02 Score=26.94 Aligned_cols=109 Identities=16% Similarity=0.079 Sum_probs=59.1
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeC
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDA 147 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~ 147 (194)
.-|..++.+-|++.|+++ +|++||+++-.+.. .-|--+....|...+- .+....|- +.+-.-|..++.| |.
T Consensus 171 ma~~~~l~~fA~~h~l~~----isi~dli~yr~~~e-~~v~~~~~~~lpt~~g--~f~~~~y~-~~~~~eHlALv~G-~~ 241 (339)
T PRK09314 171 MARRDDLEDFAKKHNLKM----IYVSDLVEYRLKNE-SLIKEEEKEESEFAGF--KAEKYTFL-DHLQNEHIAFKFG-EI 241 (339)
T ss_pred cccHHHHHHHHHHcCCcE----EEHHHHHHHHHhcc-cceEEEEEEecCCCCc--cEEEEEEE-cCCCCEEEEEEeC-CC
Confidence 457789999999999987 78999998765543 3344444444543211 11111121 1234678877776 22
Q ss_pred CCceEEEeCCCCCCce------eeeC--hHHHHHHHhhCCCCccEEEEEcCCC
Q 029371 148 NSDEFEIRDPASCRKR------EKVT--LKCLEEARKSFGTDEDLLLISLEKT 192 (194)
Q Consensus 148 ~~~~~~~~DPa~~~~~------~~~s--~~~~e~AR~s~GTDeDil~I~~~~~ 192 (194)
.. +|-..-.+ |-.+ ..+|++|=+...... -++||+...
T Consensus 242 ~~------~vlVRVHSec~tgd~l~~~~~~qL~~Al~~I~~eG-GvlvYLrqe 287 (339)
T PRK09314 242 KL------TPNVKFHKIGSDFELLTSDKFSELLKAIEYLKKNG-GVLIFLNTE 287 (339)
T ss_pred CC------CccEEEeccCChHHhhCCCcHHHHHHHHHHHHHcC-CEEEEEcCC
Confidence 11 11110011 1111 256787776665433 777887643
No 96
>KOG1542 consensus Cysteine proteinase Cathepsin F [Posttranslational modification, protein turnover, chaperones]
Probab=29.11 E-value=99 Score=28.80 Aligned_cols=58 Identities=16% Similarity=0.181 Sum_probs=35.8
Q ss_pred cccHHHHHHHHHcCCcEEEEEEcCCCcccccccccccc-CccCCCCCCcceEEEEEEeeCCC
Q 029371 89 SISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVP-GFYGSDSGYTGHYILICGYDANS 149 (194)
Q Consensus 89 svs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~-~~~~~~~~Y~GHYVVLcGYd~~~ 149 (194)
+..-++|++.|.+. +|+-|-+|+..+.-+. ..+.-| ...|... -.-|=|+|+||....
T Consensus 271 ~~nE~~ia~wLv~~-GPi~vgiNa~~mQ~Yr-gGV~~P~~~~Cs~~-~~~HaVLlvGyG~~g 329 (372)
T KOG1542|consen 271 SNNEDQIAAWLVTF-GPLSVGINAKPMQFYR-GGVSCPSKYICSPK-LLNHAVLLVGYGSSG 329 (372)
T ss_pred CCCHHHHHHHHHhc-CCeEEEEchHHHHHhc-ccccCCCcccCCcc-ccCceEEEEeecCCC
Confidence 44677899999875 3777777877553211 112112 1223222 277999999999886
No 97
>PTZ00240 60S ribosomal protein P0; Provisional
Probab=28.90 E-value=58 Score=29.69 Aligned_cols=75 Identities=16% Similarity=0.204 Sum_probs=48.7
Q ss_pred eeccCCCCC------ChhHHHhhhcCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhc-ccccchhhHHHHHH
Q 029371 3 LRTIGINNC------NIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYK-EQLPTDLVRVDMLF 75 (194)
Q Consensus 3 L~~~g~~~~------~~~~l~~~c~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~-~~~~~D~~RV~~lF 75 (194)
||.|||+-. .+..=..+|...-.=|-..|-||++||++.-.|-..+ ---|.....|. +.|+.|+..+...|
T Consensus 145 fq~LGIpTkI~kGkIeI~~d~~v~k~Ge~V~~~~A~LL~~L~IkP~~~gl~l--~~vyd~g~i~~~~vL~i~~e~~~~~~ 222 (323)
T PTZ00240 145 FQALNIATKIAKGMVEIVTEKKVLSVGDKVDNSTATLLQKLNISPFYYQVEV--LSVWDRGVLFTREDLSMTEDVVEKML 222 (323)
T ss_pred HHHcCCCeEecCcEEEEecCeEEecCCCCcCHHHHHHHHHcCCCeEEEEEEE--EEEEeCCeecCHHHcCCCHHHHHHHH
Confidence 567777621 1222235666666677789999999999987665433 24454444554 56888888887777
Q ss_pred HHHH
Q 029371 76 QKAR 79 (194)
Q Consensus 76 ~~A~ 79 (194)
++|-
T Consensus 223 ~~a~ 226 (323)
T PTZ00240 223 MEGL 226 (323)
T ss_pred HHHH
Confidence 6554
No 98
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=28.83 E-value=1.2e+02 Score=24.55 Aligned_cols=60 Identities=8% Similarity=-0.040 Sum_probs=36.6
Q ss_pred ecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCc
Q 029371 45 TITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNY 104 (194)
Q Consensus 45 T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~ 104 (194)
|.++|+++++.+-.|..+.=...+-=+.-+=.-|+++|+.++-...+..+....+.+|+.
T Consensus 25 ~l~v~~~~~~~P~~~~~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~~~~~~~~~l~~G~~ 84 (250)
T TIGR01096 25 SVRIGTETGYPPFESKDANGKLVGFDVDLAKALCKRMKAKCKFVEQNFDGLIPSLKAKKV 84 (250)
T ss_pred eEEEEECCCCCCceEECCCCCEEeehHHHHHHHHHHhCCeEEEEeCCHHHHHHHHhCCCc
Confidence 455666666665555432211112222223344467788888888899999999999973
No 99
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=28.62 E-value=2.6e+02 Score=24.11 Aligned_cols=59 Identities=14% Similarity=0.245 Sum_probs=37.3
Q ss_pred HHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceE--eccccHHHHHHHHHc
Q 029371 29 DLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIE--CGSISGVEISLMILS 101 (194)
Q Consensus 29 DLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~--~rsvs~~eI~~~L~~ 101 (194)
.+.|+.+.||++.... ++..|.-... ..++.++=+.+++.|+.+. ....+- ...+.|++
T Consensus 180 af~Y~~~~~gl~~~~~---~~~~~~~eps----------~~~l~~l~~~ik~~~v~~if~e~~~~~-~~~~~la~ 240 (282)
T cd01017 180 AFGYLARRYGLKQIAI---VGVSPEVEPS----------PKQLAELVEFVKKSDVKYIFFEENASS-KIAETLAK 240 (282)
T ss_pred cHHHHHHHCCCeEEec---ccCCCCCCCC----------HHHHHHHHHHHHHcCCCEEEEeCCCCh-HHHHHHHH
Confidence 4669999999997642 2333332222 7788999999999999633 333333 34444543
No 100
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=28.62 E-value=1.6e+02 Score=24.17 Aligned_cols=90 Identities=14% Similarity=0.223 Sum_probs=48.7
Q ss_pred CCceeHHHHHHHHhhc-Ccceeeeec--------------ccCCCCCCCcchhhccccc-chhhHHHHHHHHHHHcCCce
Q 029371 22 TTSIWTVDLAYLLQKF-NVGFSYFTI--------------TLGANPNYSVETFYKEQLP-TDLVRVDMLFQKARSAGIKI 85 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~-gv~~~f~T~--------------tlG~np~y~~~~fY~~~~~-~D~~RV~~lF~~A~~~gi~v 85 (194)
++|+|...+++-+..- |-++.|+|- -.|++.. ......+. ++..++.+...+-....+-+
T Consensus 25 GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~~~~~r~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 100 (242)
T cd00984 25 GKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQRLLASESGISLS----KLRTGSLSDEDWERLAEAIGELKELPIYI 100 (242)
T ss_pred CHHHHHHHHHHHHHHhCCCceEEEeCCCCHHHHHHHHHHHhcCCCHH----HHhcCCCCHHHHHHHHHHHHHHhcCCEEE
Confidence 6778888877655444 999999993 2233221 11111122 23333444334433334433
Q ss_pred E-eccccHHHHHHHHHc---CCcEEEEEEcCCCc
Q 029371 86 E-CGSISGVEISLMILS---GNYIAIALVDQYKL 115 (194)
Q Consensus 86 ~-~rsvs~~eI~~~L~~---G~~~~IvLvd~~~L 115 (194)
. ....++++|.+.+.. ...+-+|.+|.--+
T Consensus 101 ~~~~~~~~~~l~~~i~~~~~~~~~~~vvID~l~~ 134 (242)
T cd00984 101 DDSSSLTVSDIRSRARRLKKEHGLGLIVIDYLQL 134 (242)
T ss_pred eCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCchh
Confidence 3 455788888766532 11377888997543
No 101
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=28.46 E-value=1.3e+02 Score=25.56 Aligned_cols=57 Identities=16% Similarity=0.259 Sum_probs=38.7
Q ss_pred CCCCCCCcchhhcccccchhhHHHHHHHHHHHcC--Cce-EeccccHHHHHHHHHcCCcEEEEEE
Q 029371 49 GANPNYSVETFYKEQLPTDLVRVDMLFQKARSAG--IKI-ECGSISGVEISLMILSGNYIAIALV 110 (194)
Q Consensus 49 G~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~g--i~v-~~rsvs~~eI~~~L~~G~~~~IvLv 110 (194)
++||.+..|.|-...++ ++.++-+...+.| ++| ....++.+.|.+....|- =++|..
T Consensus 136 tV~PGfgGq~fi~~~le----kI~~l~~~~~~~~~~~~I~vdGGI~~eni~~l~~aGA-d~vVvG 195 (220)
T PRK08883 136 SVNPGFGGQSFIPHTLD----KLRAVRKMIDESGRDIRLEIDGGVKVDNIREIAEAGA-DMFVAG 195 (220)
T ss_pred EecCCCCCceecHhHHH----HHHHHHHHHHhcCCCeeEEEECCCCHHHHHHHHHcCC-CEEEEe
Confidence 48999999987755544 5555555444444 444 478899999999988884 444443
No 102
>PRK07544 branched-chain amino acid aminotransferase; Validated
Probab=28.38 E-value=65 Score=27.98 Aligned_cols=26 Identities=19% Similarity=0.233 Sum_probs=23.9
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+++.++.+|+.+
T Consensus 220 ~~vl~~a~~~g~~v~e~~i~~~eL~~ 245 (292)
T PRK07544 220 QTVIELAKRRGIEVVERHIMPEELAG 245 (292)
T ss_pred HHHHHHHHHcCCeEEEEecCHHHHhh
Confidence 67788999999999999999999977
No 103
>PRK13356 aminotransferase; Provisional
Probab=28.22 E-value=62 Score=28.02 Aligned_cols=26 Identities=8% Similarity=0.114 Sum_probs=23.4
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+.+.++.+|+.+
T Consensus 216 ~~vi~~a~~~gi~v~e~~i~~~eL~~ 241 (286)
T PRK13356 216 QRVIALLREDGVTVVETTLTYEDFLE 241 (286)
T ss_pred HHHHHHHHHcCCeEEEEecCHHHHHh
Confidence 66778899999999999999999876
No 104
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=27.95 E-value=1.9e+02 Score=23.10 Aligned_cols=64 Identities=16% Similarity=0.136 Sum_probs=40.2
Q ss_pred eeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHH-----HHHHHHHc---CCcEEEEEEcC
Q 029371 41 FSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGV-----EISLMILS---GNYIAIALVDQ 112 (194)
Q Consensus 41 ~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~-----eI~~~L~~---G~~~~IvLvd~ 112 (194)
+..||++++.--...+ +-.||.++++. .||+++.+-++++ ||++.+.. ...+.-++||.
T Consensus 2 VvlYttsl~giR~t~~----------~C~~ak~iL~~---~~V~~~e~DVs~~~~~~~EL~~~~g~~~~~~tvPqVFI~G 68 (147)
T cd03031 2 VVLYTTSLRGVRKTFE----------DCNNVRAILES---FRVKFDERDVSMDSGFREELRELLGAELKAVSLPRVFVDG 68 (147)
T ss_pred EEEEEcCCcCCCCcCh----------hHHHHHHHHHH---CCCcEEEEECCCCHHHHHHHHHHhCCCCCCCCCCEEEECC
Confidence 4566766654433222 37899999864 5799888888653 45554432 12455678888
Q ss_pred CCccc
Q 029371 113 YKLSH 117 (194)
Q Consensus 113 ~~L~~ 117 (194)
.++..
T Consensus 69 ~~IGG 73 (147)
T cd03031 69 RYLGG 73 (147)
T ss_pred EEEec
Confidence 77644
No 105
>COG5354 Uncharacterized protein, contains Trp-Asp (WD) repeat [General function prediction only]
Probab=27.95 E-value=57 Score=31.80 Aligned_cols=26 Identities=38% Similarity=0.593 Sum_probs=24.4
Q ss_pred cceEEEEEEeeCCCceEEEeCCCCCC
Q 029371 136 TGHYILICGYDANSDEFEIRDPASCR 161 (194)
Q Consensus 136 ~GHYVVLcGYd~~~~~~~~~DPa~~~ 161 (194)
.+|||++-|+|...+.+.+-||+..-
T Consensus 326 ~~r~il~agF~nl~gni~i~~~~~rf 351 (561)
T COG5354 326 HERYILFAGFDNLQGNIEIFDPAGRF 351 (561)
T ss_pred cccEEEEecCCccccceEEeccCCce
Confidence 89999999999999999999999853
No 106
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=27.91 E-value=1.5e+02 Score=25.43 Aligned_cols=44 Identities=27% Similarity=0.208 Sum_probs=32.0
Q ss_pred HHHHHHHHHH-HcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCC
Q 029371 70 RVDMLFQKAR-SAGIKIECGSISGVEISLMILSGNYIAIALVDQYK 114 (194)
Q Consensus 70 RV~~lF~~A~-~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~ 114 (194)
.++.++.+.+ +.|+.+..+.-.+-++.++|.+|+ .+.++.|...
T Consensus 158 ~~~~~~~~~R~~~g~~~i~~~~~~~~~~~~Lk~g~-~v~~l~Dq~~ 202 (295)
T PF03279_consen 158 YIDRLLNKLRERFGIELIPKGEGIRELIRALKEGG-IVGLLGDQDP 202 (295)
T ss_pred hHHHHHHHHHHhcCCeEecchhhHHHHHHHhccCC-EEEEEECCCC
Confidence 3456665554 556666555555889999999996 9999999863
No 107
>cd01558 D-AAT_like D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-glutamate in addition to other D-amino acids. The enzyme like other members of this superfamily requires PLP as a cofactor. Members of this subgroup are found in all three forms of life.
Probab=27.71 E-value=71 Score=27.17 Aligned_cols=26 Identities=23% Similarity=0.243 Sum_probs=23.5
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+++.|++.|+.|+++.++.+||.+
T Consensus 205 ~~vl~~a~~~g~~v~e~~i~~~eL~~ 230 (270)
T cd01558 205 ATVIELAKELGIPVEERPFSLEELYT 230 (270)
T ss_pred HHHHHHHHHcCCeEEEEeCCHHHHhh
Confidence 67788899999999999999999866
No 108
>smart00645 Pept_C1 Papain family cysteine protease.
Probab=27.70 E-value=62 Score=25.99 Aligned_cols=13 Identities=38% Similarity=0.761 Sum_probs=11.4
Q ss_pred cceEEEEEEeeCC
Q 029371 136 TGHYILICGYDAN 148 (194)
Q Consensus 136 ~GHYVVLcGYd~~ 148 (194)
..|.|+|+||+.+
T Consensus 119 ~~Hav~ivGyg~~ 131 (174)
T smart00645 119 LDHAVLIVGYGTE 131 (174)
T ss_pred ccEEEEEEEEeec
Confidence 5899999999865
No 109
>PLN02259 branched-chain-amino-acid aminotransferase 2
Probab=27.49 E-value=66 Score=29.81 Aligned_cols=27 Identities=11% Similarity=0.095 Sum_probs=24.4
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISLM 98 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~ 98 (194)
..+.+.|++.|++|++|.++++|+.+.
T Consensus 301 ~sIl~la~~~G~~V~Er~i~~~eL~~A 327 (388)
T PLN02259 301 KSVMEIASDQGYQVVEKAVHVDEVMDA 327 (388)
T ss_pred HHHHHHHHHCCCeEEEEECCHHHHHhC
Confidence 677889999999999999999999774
No 110
>TIGR03461 pabC_Proteo aminodeoxychorismate lyase. Members of this protein family are aminodeoxychorismate lyase (ADC lyase), EC 4.1.3.38, the PabC protein of PABA biosynthesis. PABA (para-aminobenzoate) is a precursor of folate, needed for de novo purine biosynthesis. This enzyme is a pyridoxal-phosphate-binding protein in the class IV aminotransferase family (pfam01063).
Probab=27.46 E-value=70 Score=27.09 Aligned_cols=26 Identities=15% Similarity=0.040 Sum_probs=22.9
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+++.++.+||..
T Consensus 201 ~~il~~~~~~g~~v~E~~i~~~eL~~ 226 (261)
T TIGR03461 201 QHVLALLPALGYEIEEVKAGLEELLS 226 (261)
T ss_pred HHHHHHHHHcCCeEEEEecCHHHHhh
Confidence 55678899999999999999999866
No 111
>PF05973 Gp49: Phage derived protein Gp49-like (DUF891); InterPro: IPR009241 This entry consists of several hypothetical viral and bacterial proteins some are annotated as addiction module killer proteins.
Probab=27.43 E-value=91 Score=22.16 Aligned_cols=28 Identities=25% Similarity=0.443 Sum_probs=22.0
Q ss_pred ceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhC
Q 029371 137 GHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSF 178 (194)
Q Consensus 137 GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~ 178 (194)
+.+|||+|+.+.++ .++...++.|++.+
T Consensus 63 ~~ivll~~f~Kkt~--------------k~p~~ei~~A~~r~ 90 (91)
T PF05973_consen 63 DIIVLLHGFIKKTQ--------------KTPKKEIEKARRRL 90 (91)
T ss_pred cEEEEEEEEEeCCC--------------CCCHHHHHHHHHHc
Confidence 35999999999983 47788888888653
No 112
>PRK12400 D-amino acid aminotransferase; Reviewed
Probab=27.35 E-value=70 Score=27.78 Aligned_cols=26 Identities=12% Similarity=0.124 Sum_probs=23.0
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|+.|+++.++.+|+.+
T Consensus 213 ~~llela~~~gi~v~E~~i~~~eL~~ 238 (290)
T PRK12400 213 QYVLSLAKTLRIPVQEELFSVRDVYQ 238 (290)
T ss_pred HHHHHHHHHcCCcEEEEeCCHHHHHh
Confidence 56778899999999999999999865
No 113
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=27.11 E-value=1.9e+02 Score=21.52 Aligned_cols=30 Identities=23% Similarity=0.304 Sum_probs=23.3
Q ss_pred cCCceEeccccHHHHHHHHHcCCcEEEEEEc
Q 029371 81 AGIKIECGSISGVEISLMILSGNYIAIALVD 111 (194)
Q Consensus 81 ~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd 111 (194)
.|+.++-...+..++...+.+|+ .=+++..
T Consensus 37 ~g~~~~~~~~~~~~~~~~l~~g~-~D~~~~~ 66 (219)
T smart00062 37 LGLKVEFVEVSFDNLLTALKSGK-IDVVAAG 66 (219)
T ss_pred hCCeEEEEeccHHHHHHHHHCCc-ccEEecc
Confidence 57888877779999999999996 5555544
No 114
>PF04019 DUF359: Protein of unknown function (DUF359); InterPro: IPR007164 This is family of archaebacterial proteins, which are about 170 amino acids in length. They have no known function. The most conserved portion of the protein contains the sequence GEEDL that may be important for its function.
Probab=27.01 E-value=3.1e+02 Score=21.41 Aligned_cols=57 Identities=16% Similarity=0.235 Sum_probs=38.4
Q ss_pred HHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhh
Q 029371 98 MILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKS 177 (194)
Q Consensus 98 ~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s 177 (194)
++..|..|-|++||..=-...+. ...+ .....+.++||+.. +|.+.++.-+++
T Consensus 5 ll~~g~~P~laIvD~kTkR~~~~--------------~~~~--------~~~~~i~v~NPpG~-----It~el~~ai~~a 57 (121)
T PF04019_consen 5 LLEAGIIPDLAIVDGKTKREPVV--------------EEVR--------KFYRVIEVKNPPGT-----ITEELIEAIKKA 57 (121)
T ss_pred HHhCCCCCCEEEEeCcccccCCc--------------cccc--------CCceEEEEECCCCc-----ccHHHHHHHHHH
Confidence 46678889999999873322100 1111 34466899999986 899999987777
Q ss_pred CCCC
Q 029371 178 FGTD 181 (194)
Q Consensus 178 ~GTD 181 (194)
+..+
T Consensus 58 ~~~~ 61 (121)
T PF04019_consen 58 LESG 61 (121)
T ss_pred HhCC
Confidence 7443
No 115
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=26.92 E-value=77 Score=25.60 Aligned_cols=28 Identities=21% Similarity=0.146 Sum_probs=24.2
Q ss_pred eccccHHHHHHHHHc-CCcEEEEEEcCCCc
Q 029371 87 CGSISGVEISLMILS-GNYIAIALVDQYKL 115 (194)
Q Consensus 87 ~rsvs~~eI~~~L~~-G~~~~IvLvd~~~L 115 (194)
.|..+..||.+.|.+ |+ |+||=.|-.-.
T Consensus 60 ~R~~~~~evi~~I~~~G~-PviVAtDV~p~ 88 (138)
T PF04312_consen 60 SRNMSRSEVIEWISEYGK-PVIVATDVSPP 88 (138)
T ss_pred ecCCCHHHHHHHHHHcCC-EEEEEecCCCC
Confidence 688999999999986 86 99999998744
No 116
>PTZ00049 cathepsin C-like protein; Provisional
Probab=26.50 E-value=2.1e+02 Score=28.96 Aligned_cols=22 Identities=9% Similarity=-0.115 Sum_probs=16.1
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCC
Q 029371 91 SGVEISLMILSGNYIAIALVDQY 113 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~ 113 (194)
..++|...|.+. +|+.|-+|+.
T Consensus 556 ~E~~Im~eI~~~-GPVsVsIda~ 577 (693)
T PTZ00049 556 GEKIMMNEIYRN-GPIVASFEAS 577 (693)
T ss_pred CHHHHHHHHHhc-CCEEEEEEec
Confidence 467788888764 3788888875
No 117
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=26.50 E-value=1.1e+02 Score=25.45 Aligned_cols=58 Identities=9% Similarity=-0.109 Sum_probs=41.0
Q ss_pred cccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHH---HHHHcCCcEEE
Q 029371 46 ITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEIS---LMILSGNYIAI 107 (194)
Q Consensus 46 ~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~---~~L~~G~~~~I 107 (194)
.++|++++|-+-+|... .+-=|.-.=+-|+++|+.++-...+...+. ..|.+|++=+|
T Consensus 2 l~vg~~~~~pPf~~~~~----~Gfdvdl~~~ia~~lg~~~~~~~~~~~~~~~~~~~L~~g~~Dii 62 (246)
T TIGR03870 2 LRVCAATKEAPYSTKDG----SGFENKIAAALAAAMGRKVVFVWLAKPAIYLVRDGLDKKLCDVV 62 (246)
T ss_pred eEEEeCCCCCCCccCCC----CcchHHHHHHHHHHhCCCeEEEEeccchhhHHHHHHhcCCccEE
Confidence 45788888888888632 344455566778889998877777766655 68889975343
No 118
>PRK06092 4-amino-4-deoxychorismate lyase; Reviewed
Probab=26.02 E-value=77 Score=27.01 Aligned_cols=30 Identities=13% Similarity=0.005 Sum_probs=25.3
Q ss_pred hhHHHHHHHHHHHcCCceEeccccHHHHHH
Q 029371 68 LVRVDMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 68 ~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
+---..+.+.|++.|++|+++.++.+|+..
T Consensus 199 GitR~~vl~~~~~~g~~v~e~~i~~~dL~~ 228 (268)
T PRK06092 199 GVMRQFILELLAQSGYPVVEVDASLEELLQ 228 (268)
T ss_pred cHHHHHHHHHHHHcCCeEEEEECCHHHHhh
Confidence 333477888999999999999999999866
No 119
>PF01063 Aminotran_4: Aminotransferase class IV; InterPro: IPR001544 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. One of these, called class-IV, currently consists of proteins of about 270 to 415 amino-acid residues that share a few regions of sequence similarity. Surprisingly, the best conserved region does not include the lysine residue to which the pyridoxal-phosphate group is known to be attached, in ilvE, but is located some 40 residues at the C terminus side of the pyridoxal-phosphate-lysine. The D-amino acid transferases (D-AAT), which are among the members of this entry, are required by bacteria to catalyse the synthesis of D-glutamic acid and D-alanine, which are essential constituents of bacterial cell wall and are the building block for other D-amino acids. Despite the difference in the structure of the substrates, D-AATs and L-ATTs have strong similarity [, ]. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1EKV_A 2HGX_A 1EKP_A 1KTA_B 1KT8_B 2A1H_B 2HDK_A 2HGW_B 1EKF_B 2HG8_A ....
Probab=25.73 E-value=83 Score=25.68 Aligned_cols=26 Identities=23% Similarity=0.371 Sum_probs=22.5
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.++++|++|+.+.++.+||.+
T Consensus 169 ~~ll~~~~~~g~~v~e~~i~~~~L~~ 194 (231)
T PF01063_consen 169 QLLLELAKELGIPVEERPITLDDLQQ 194 (231)
T ss_dssp HHHHHHHHHTTSEEEEE-BBHHHHHT
T ss_pred HHHHHHHHhCCCCcEEEEeCHHHhhh
Confidence 56679999999999999999999986
No 120
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=25.72 E-value=3.2e+02 Score=23.36 Aligned_cols=65 Identities=15% Similarity=0.257 Sum_probs=40.3
Q ss_pred HHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceE--eccccHHHHHHHHHc--CCc
Q 029371 29 DLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIE--CGSISGVEISLMILS--GNY 104 (194)
Q Consensus 29 DLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~--~rsvs~~eI~~~L~~--G~~ 104 (194)
...|+.++||++..-.. +-|..|. ..++.++=+.+++.|+.+. ....+- ...+.|++ | .
T Consensus 179 af~Y~~~~ygl~~~~~~-~~~~eps--------------~~~l~~l~~~ik~~~v~~if~e~~~~~-~~~~~la~~~g-~ 241 (266)
T cd01018 179 AWGYFARDYGLTQIPIE-EEGKEPS--------------PADLKRLIDLAKEKGVRVVFVQPQFST-KSAEAIAREIG-A 241 (266)
T ss_pred hhHHHHHHcCCEEEecC-CCCCCCC--------------HHHHHHHHHHHHHcCCCEEEEcCCCCc-HHHHHHHHHcC-C
Confidence 67899999999976321 1233333 6788999999999998632 333333 34445543 5 3
Q ss_pred EEEEEEc
Q 029371 105 IAIALVD 111 (194)
Q Consensus 105 ~~IvLvd 111 (194)
++ +-+|
T Consensus 242 ~v-~~ld 247 (266)
T cd01018 242 KV-VTID 247 (266)
T ss_pred eE-EEeC
Confidence 44 4444
No 121
>cd01559 ADCL_like ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most members of this subgroup are likely to function as dimers. The enzyme from E.Coli, the structure of which is available, is a homodimer that is folded into a small and a larger domain. The coenzyme pyridoxal 5; -phosphate resides at the interface of the two domains that is linked by a flexible loop. Members of this subgroup are found in Eukaryotes and bacteria.
Probab=25.36 E-value=81 Score=26.55 Aligned_cols=27 Identities=7% Similarity=0.121 Sum_probs=24.0
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISLM 98 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~ 98 (194)
..+.+.|++.|++|+.+.++.+|+.+.
T Consensus 187 ~~~l~~~~~~g~~v~e~~i~~~el~~a 213 (249)
T cd01559 187 QRVIELAAAKGYAVDERPLRLEDLLAA 213 (249)
T ss_pred HHHHHHHHHcCceEEEEecCHHHHhhC
Confidence 677788999999999999999998763
No 122
>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=24.83 E-value=84 Score=25.26 Aligned_cols=22 Identities=14% Similarity=0.235 Sum_probs=16.9
Q ss_pred EEEEEEeeCCC-ceEEEeCCCCC
Q 029371 139 YILICGYDANS-DEFEIRDPASC 160 (194)
Q Consensus 139 YVVLcGYd~~~-~~~~~~DPa~~ 160 (194)
-++|+|+|... .++|.-||.-+
T Consensus 97 ~~ii~G~d~~~gp~ly~~d~~G~ 119 (188)
T cd03762 97 GIIVAGWDEQNGGQVYSIPLGGM 119 (188)
T ss_pred eEEEEEEcCCCCcEEEEECCCCC
Confidence 46899999744 48999999543
No 123
>TIGR01122 ilvE_I branched-chain amino acid aminotransferase, group I. Among the class IV aminotransferases are two phylogenetically separable groups of branched-chain amino acid aminotransferase (IlvE). The last common ancestor of the two lineages appears also to have given rise to a family of D-amino acid aminotransferases (DAAT). This model represents the IlvE family more strongly similar to the DAAT family.
Probab=24.74 E-value=84 Score=27.32 Aligned_cols=26 Identities=27% Similarity=0.319 Sum_probs=23.2
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+++.++.+|+.+
T Consensus 215 ~~il~la~~~g~~v~e~~i~~~eL~~ 240 (298)
T TIGR01122 215 DTVITLAKELGIEVVEQPISREELYT 240 (298)
T ss_pred HHHHHHHHHcCCcEEEEeCCHHHHhh
Confidence 66778899999999999999999866
No 124
>cd00449 PLPDE_IV PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate lyases (ADCL). BCAT catalyzes the reversible transamination reaction between the L-branched-chain amino and alpha-keto acids. DAAT catalyzes the synthesis of D-glutamic acid and D-alanine, and ADCL converts 4-amino-4-deoxychorismate to p-aminobenzoate and pyruvate. Except for a few enzymes, i. e., Escherichia coli and Salmonella BCATs, which are homohexamers arranged as a double trimer, the class IV PLPDEs are homodimers. Homodimer formation is required for catalytic activity.
Probab=24.58 E-value=88 Score=26.15 Aligned_cols=26 Identities=35% Similarity=0.372 Sum_probs=23.7
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+.+.++.+||..
T Consensus 191 ~~vl~~~~~~g~~v~e~~i~~~dL~~ 216 (256)
T cd00449 191 DSVIELAKELGIKVEERPISLDELYA 216 (256)
T ss_pred HHHHHHHHHcCCeEEEEecCHHHHhh
Confidence 67778999999999999999999976
No 125
>PRK09266 hypothetical protein; Provisional
Probab=24.47 E-value=93 Score=26.58 Aligned_cols=27 Identities=11% Similarity=0.188 Sum_probs=23.4
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISLM 98 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~ 98 (194)
..+.+.|++.|++|+.+.++.+||...
T Consensus 195 ~~ll~~~~~~g~~v~e~~i~~~eL~~a 221 (266)
T PRK09266 195 ALLQRGLERLGIPQRTRPVTLADLGRF 221 (266)
T ss_pred HHHHHHHHHcCCeeEEEECCHHHHHHh
Confidence 566788999999999999999998653
No 126
>PTZ00246 proteasome subunit alpha; Provisional
Probab=24.45 E-value=85 Score=26.78 Aligned_cols=24 Identities=29% Similarity=0.444 Sum_probs=18.5
Q ss_pred eEEEEEEeeCC-CceEEEeCCCCCC
Q 029371 138 HYILICGYDAN-SDEFEIRDPASCR 161 (194)
Q Consensus 138 HYVVLcGYd~~-~~~~~~~DPa~~~ 161 (194)
=.++|.|||.. ..++|+-||.-+-
T Consensus 132 v~~li~G~D~~~gp~Ly~~D~~Gs~ 156 (253)
T PTZ00246 132 VSFLFAGYDENLGYQLYHTDPSGNY 156 (253)
T ss_pred EEEEEEEEeCCCCcEEEEECCCCCE
Confidence 45788999974 4489999998753
No 127
>PHA02671 hypothetical protein; Provisional
Probab=24.26 E-value=1.7e+02 Score=24.69 Aligned_cols=70 Identities=23% Similarity=0.268 Sum_probs=45.3
Q ss_pred HHHHHHHHcCCceE-------------eccccHHHHHHHHHcCCcEEEEEEcCCCcccccccccccc--CccCCCCCCcc
Q 029371 73 MLFQKARSAGIKIE-------------CGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVP--GFYGSDSGYTG 137 (194)
Q Consensus 73 ~lF~~A~~~gi~v~-------------~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~--~~~~~~~~Y~G 137 (194)
+++.-++++||.+. -.++++++|-..+.+= | +-+|..+++|+..+....| +.+. -..++
T Consensus 20 ~l~~v~~DLGIt~i~~~iGpy~~~tl~~~~v~~~~i~~~l~dC-Y---ia~nG~il~CS~~~rL~~Pv~~I~a--ay~s~ 93 (179)
T PHA02671 20 RLREIARDLGICTISRAFGDMLYGEISFTSLPLTQVNMLMSDC-Y---FAVNGNLLPCTEDFRLRLPATEISA--AYLTG 93 (179)
T ss_pred hhHhHHHHcCeEEEhhhccccEEEEEEeeeccHHHHhhhhhce-E---EEECCEEEecCccccccccHHHhhh--heecC
Confidence 34457889998754 2578999998844333 4 4479999999865444444 2221 23556
Q ss_pred e-EEEEEEeeCC
Q 029371 138 H-YILICGYDAN 148 (194)
Q Consensus 138 H-YVVLcGYd~~ 148 (194)
- =++||||+.+
T Consensus 94 n~~~ilCd~~~~ 105 (179)
T PHA02671 94 TGKTILCGKDFN 105 (179)
T ss_pred CceEEEEcCCcc
Confidence 4 6788877764
No 128
>PLN03117 Branched-chain-amino-acid aminotransferase; Provisional
Probab=24.19 E-value=82 Score=28.61 Aligned_cols=26 Identities=23% Similarity=0.216 Sum_probs=23.7
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|+++|++|+.+.++.+|+..
T Consensus 264 ~~vl~la~~~Gi~v~Er~i~~~eL~~ 289 (355)
T PLN03117 264 KSISELARDIGYQVEERDVSVDELLE 289 (355)
T ss_pred HHHHHHHHHCCCEEEEEEccHHHHhh
Confidence 77788899999999999999999865
No 129
>TIGR01121 D_amino_aminoT D-amino acid aminotransferase. Specificity is broad for various D-amino acids, and differs among members of the family; the family is designated equivalog, but with this caveat attached.
Probab=24.17 E-value=84 Score=27.04 Aligned_cols=26 Identities=15% Similarity=0.192 Sum_probs=23.2
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+++.++.+||.+
T Consensus 206 ~~vl~~a~~~g~~v~e~~i~~~el~~ 231 (276)
T TIGR01121 206 MVILACAEENGIPVKEEPFTKEELLN 231 (276)
T ss_pred HHHHHHHHHCCCeEEEEeCCHHHHhc
Confidence 56778899999999999999999966
No 130
>KOG0628 consensus Aromatic-L-amino-acid/L-histidine decarboxylase [Amino acid transport and metabolism]
Probab=24.16 E-value=20 Score=34.52 Aligned_cols=33 Identities=33% Similarity=0.761 Sum_probs=25.3
Q ss_pred CeeeccCCCC-C---ChhHHHhhhcCCceeH-HHHHHH
Q 029371 1 MVLRTIGINN-C---NIQGLAEQCCTTSIWT-VDLAYL 33 (194)
Q Consensus 1 MvL~~~g~~~-~---~~~~l~~~c~~~S~WT-IDLayl 33 (194)
||...+|-.+ | ++.+|-.+|....+|- ||-||+
T Consensus 238 ~v~at~GTT~~ca~D~l~elg~Vc~~~glWLHVDAAYA 275 (511)
T KOG0628|consen 238 FVCATLGTTSSCAFDELEELGPVCREEGLWLHVDAAYA 275 (511)
T ss_pred EEEEeecCccccccccHHHhcchhhhcCEEEEeehhhc
Confidence 3555677653 3 4788888999999995 999998
No 131
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=24.07 E-value=1.4e+02 Score=20.78 Aligned_cols=48 Identities=19% Similarity=0.127 Sum_probs=32.9
Q ss_pred eHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHH
Q 029371 26 WTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEI 95 (194)
Q Consensus 26 WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI 95 (194)
++..|+-.|++.|+++.+... ..++...|+.|...|+|+ .-.+.-+|+
T Consensus 17 ~a~~l~~~L~~~gi~v~~d~~---------------------~~~~~k~~~~a~~~g~p~-~iiiG~~e~ 64 (94)
T PF03129_consen 17 YAQELANKLRKAGIRVELDDS---------------------DKSLGKQIKYADKLGIPF-IIIIGEKEL 64 (94)
T ss_dssp HHHHHHHHHHHTTSEEEEESS---------------------SSTHHHHHHHHHHTTESE-EEEEEHHHH
T ss_pred HHHHHHHHHHHCCCEEEEECC---------------------CCchhHHHHHHhhcCCeE-EEEECchhH
Confidence 456788888888876666542 445678889999999876 234444544
No 132
>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme for non-lysosomal protein degradation in both the cytosol and the nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are both members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=24.05 E-value=1e+02 Score=24.80 Aligned_cols=23 Identities=26% Similarity=0.338 Sum_probs=18.5
Q ss_pred eEEEEEEeeCCCceEEEeCCCCC
Q 029371 138 HYILICGYDANSDEFEIRDPASC 160 (194)
Q Consensus 138 HYVVLcGYd~~~~~~~~~DPa~~ 160 (194)
=.+||.|||.....++.-||.-+
T Consensus 97 ~~~lvaG~d~~~~~ly~~D~~G~ 119 (188)
T cd03764 97 VQLLIGGVDEEGPHLYSLDPLGS 119 (188)
T ss_pred EEEEEEEEeCCCCEEEEECCCCC
Confidence 36889999986568999999844
No 133
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=23.96 E-value=3.4e+02 Score=23.57 Aligned_cols=74 Identities=14% Similarity=0.066 Sum_probs=44.6
Q ss_pred CCceeHHHHHHHHhhc-C-cceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHH
Q 029371 22 TTSIWTVDLAYLLQKF-N-VGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMI 99 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~-g-v~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L 99 (194)
+++|...-||..+..- | .++.+.| .||. . ..-+.++-..++..|+++.. .-+-.++.+.+
T Consensus 206 GKTTt~~kLa~~~~~~~g~~~V~li~----~D~~-r------------~~a~eql~~~~~~~~~p~~~-~~~~~~l~~~l 267 (282)
T TIGR03499 206 GKTTTLAKLAARFVLEHGNKKVALIT----TDTY-R------------IGAVEQLKTYAKILGVPVKV-ARDPKELRKAL 267 (282)
T ss_pred CHHHHHHHHHHHHHHHcCCCeEEEEE----CCcc-c------------hhHHHHHHHHHHHhCCceec-cCCHHHHHHHH
Confidence 4545556677666543 4 7888888 3431 1 11246777778888988743 33556666666
Q ss_pred HcCCcEEEEEEcCC
Q 029371 100 LSGNYIAIALVDQY 113 (194)
Q Consensus 100 ~~G~~~~IvLvd~~ 113 (194)
..-...-++|+|+.
T Consensus 268 ~~~~~~d~vliDt~ 281 (282)
T TIGR03499 268 DRLRDKDLILIDTA 281 (282)
T ss_pred HHccCCCEEEEeCC
Confidence 54112458888874
No 134
>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=23.72 E-value=92 Score=25.77 Aligned_cols=24 Identities=21% Similarity=0.308 Sum_probs=18.6
Q ss_pred eEEEEEEeeCC-CceEEEeCCCCCC
Q 029371 138 HYILICGYDAN-SDEFEIRDPASCR 161 (194)
Q Consensus 138 HYVVLcGYd~~-~~~~~~~DPa~~~ 161 (194)
=-++|.|||.. ..++|.-||.-+-
T Consensus 130 v~~li~G~D~~~g~~ly~~d~~G~~ 154 (213)
T cd03752 130 VSFLYAGWDKHYGFQLYQSDPSGNY 154 (213)
T ss_pred eEEEEEEEeCCCCCEEEEECCCCCe
Confidence 35789999975 4589999997653
No 135
>KOG1543 consensus Cysteine proteinase Cathepsin L [Posttranslational modification, protein turnover, chaperones]
Probab=23.51 E-value=3.2e+02 Score=24.56 Aligned_cols=64 Identities=19% Similarity=0.304 Sum_probs=37.4
Q ss_pred cccHHHHHHHHHcCCcEEEEEEcCCCcccc-ccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371 89 SISGVEISLMILSGNYIAIALVDQYKLSHS-WMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD 156 (194)
Q Consensus 89 svs~~eI~~~L~~G~~~~IvLvd~~~L~~~-~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D 156 (194)
..+.++|++.+... +|+.|-++++- .=. +...+....+ +... --+|=|+|+||-...+. .+++|
T Consensus 225 ~~~e~~i~~~v~~~-GPv~v~~~a~~-~F~~Y~~GVy~~~~-~~~~-~~~Hav~iVGyG~~~~~~YWivkN 291 (325)
T KOG1543|consen 225 PANEEAIAEAVAKN-GPVSVAIDAYE-DFSLYKGGVYAEEK-GDDK-EGDHAVLIVGYGTGDGVDYWIVKN 291 (325)
T ss_pred CcCHHHHHHHHHhc-CCeEEEEeehh-hhhhccCceEeCCC-CCCC-CCCceEEEEEEcCCCCceeEEEEc
Confidence 33478899998874 48899888873 110 0111111111 1111 58999999999984333 45555
No 136
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=23.43 E-value=2.2e+02 Score=26.20 Aligned_cols=70 Identities=19% Similarity=0.122 Sum_probs=45.6
Q ss_pred CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceE----eccccHHHHHH
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIE----CGSISGVEISL 97 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~----~rsvs~~eI~~ 97 (194)
++|+...-+|..+.+-|-++.|.+-. + ...++-..|++.|+..+ ....++++|.+
T Consensus 94 GKStLllq~a~~~a~~g~~VlYvs~E---------E------------s~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~ 152 (372)
T cd01121 94 GKSTLLLQVAARLAKRGGKVLYVSGE---------E------------SPEQIKLRADRLGISTENLYLLAETNLEDILA 152 (372)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEECC---------c------------CHHHHHHHHHHcCCCcccEEEEccCcHHHHHH
Confidence 56677777887777777788888731 1 11233334556665321 23457889999
Q ss_pred HHHcCCcEEEEEEcCC
Q 029371 98 MILSGNYIAIALVDQY 113 (194)
Q Consensus 98 ~L~~G~~~~IvLvd~~ 113 (194)
.+.+.+ |-++.+|.-
T Consensus 153 ~i~~~~-~~lVVIDSI 167 (372)
T cd01121 153 SIEELK-PDLVIIDSI 167 (372)
T ss_pred HHHhcC-CcEEEEcch
Confidence 887765 888999984
No 137
>PF00770 Peptidase_C5: Adenovirus endoprotease; InterPro: IPR000855 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine aminopeptidases belong to the peptidase family C5 (adenain family, clan CE). Several adenovirus proteins are synthesised as precursors, requiring processing by a protease before the virion is assembled [, ]. Until recently, the adenovirus endopeptidase was classified as a serine protease, having been reported to be inhibited by serine protease inhibitors [, ]. However, it has since been shown to be inhibited by cysteine protease inhibitors, and the catalytic residues are believed to be His-54 and Cys-104 [, ].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1NLN_A 1AVP_A.
Probab=23.33 E-value=2.1e+02 Score=24.18 Aligned_cols=53 Identities=23% Similarity=0.277 Sum_probs=27.8
Q ss_pred HHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcc--eEEEEEEeeCCCceEEEeCCCCC-Cc----eeeeChHHH
Q 029371 99 ILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTG--HYILICGYDANSDEFEIRDPASC-RK----REKVTLKCL 171 (194)
Q Consensus 99 L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~G--HYVVLcGYd~~~~~~~~~DPa~~-~~----~~~~s~~~~ 171 (194)
|...+ ++-++||++- .-+| |+|- -++|+.++.+|+=||--. ++ .-..+++.|
T Consensus 14 l~~~k-~acAIVNT~~-------------------retGGvHWlA-~Aw~P~s~t~YmFDPfGfsd~~L~qiY~FeYe~l 72 (183)
T PF00770_consen 14 LSKHK-PACAIVNTGG-------------------RETGGVHWLA-FAWDPRSRTFYMFDPFGFSDQKLKQIYQFEYEGL 72 (183)
T ss_dssp --TTS--EEEEEESS--------------------TTT--S-EEE-EEEETTTTEEEEE-TT---HHHHHHHH----HHH
T ss_pred cCCCC-cceEEEecCC-------------------cccCceeEEE-EEecCCcceEEEeCCCCCCHHHHHHHHhhhHHHH
Confidence 45555 7777888771 1233 7765 589999999999999543 32 233455555
Q ss_pred H
Q 029371 172 E 172 (194)
Q Consensus 172 e 172 (194)
-
T Consensus 73 l 73 (183)
T PF00770_consen 73 L 73 (183)
T ss_dssp H
T ss_pred H
Confidence 4
No 138
>PRK11823 DNA repair protein RadA; Provisional
Probab=23.32 E-value=2.6e+02 Score=26.28 Aligned_cols=70 Identities=13% Similarity=0.030 Sum_probs=45.2
Q ss_pred CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCce----EeccccHHHHHH
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKI----ECGSISGVEISL 97 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v----~~rsvs~~eI~~ 97 (194)
++|+-..-+|..+.+-|-++.|.+- |....++...|++.|... .....++++|.+
T Consensus 92 GKTtL~lq~a~~~a~~g~~vlYvs~---------------------Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~ 150 (446)
T PRK11823 92 GKSTLLLQVAARLAAAGGKVLYVSG---------------------EESASQIKLRAERLGLPSDNLYLLAETNLEAILA 150 (446)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEEc---------------------cccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHH
Confidence 4555566666666666788888884 112234555566666521 233457889999
Q ss_pred HHHcCCcEEEEEEcCC
Q 029371 98 MILSGNYIAIALVDQY 113 (194)
Q Consensus 98 ~L~~G~~~~IvLvd~~ 113 (194)
.+.+.+ |-++.+|.-
T Consensus 151 ~i~~~~-~~lVVIDSI 165 (446)
T PRK11823 151 TIEEEK-PDLVVIDSI 165 (446)
T ss_pred HHHhhC-CCEEEEech
Confidence 887775 888999985
No 139
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=23.32 E-value=2.4e+02 Score=27.09 Aligned_cols=80 Identities=14% Similarity=0.088 Sum_probs=62.6
Q ss_pred ChhHHHhhhc-----------------CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHH
Q 029371 12 NIQGLAEQCC-----------------TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDML 74 (194)
Q Consensus 12 ~~~~l~~~c~-----------------~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~l 74 (194)
.+.||+++.. ++||--.-+|--|.+.+ ++.|-|- |+-+.|.
T Consensus 78 g~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsG---------------------EES~~Qi 135 (456)
T COG1066 78 GIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSG---------------------EESLQQI 135 (456)
T ss_pred ChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeC---------------------CcCHHHH
Confidence 4788888873 46766666777777777 8999884 5666788
Q ss_pred HHHHHHcCCc----eEeccccHHHHHHHHHcCCcEEEEEEcCCC
Q 029371 75 FQKARSAGIK----IECGSISGVEISLMILSGNYIAIALVDQYK 114 (194)
Q Consensus 75 F~~A~~~gi~----v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~ 114 (194)
--.|.++|++ ......++++|.+.+.+-+ |-++.+|+-.
T Consensus 136 klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~-p~lvVIDSIQ 178 (456)
T COG1066 136 KLRADRLGLPTNNLYLLAETNLEDIIAELEQEK-PDLVVIDSIQ 178 (456)
T ss_pred HHHHHHhCCCccceEEehhcCHHHHHHHHHhcC-CCEEEEeccc
Confidence 8889999974 2356779999999999986 9999999864
No 140
>cd01557 BCAT_beta_family BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-ketoisovalerate. The enzyme requires pyridoxal 5'-phosphate (PLP) as a cofactor to catalyze the reaction. It has been found that mammals have two foms of the enzyme - mitochondrial and cytosolic forms while bacteria contain only one form of the enzyme. The mitochondrial form plays a significant role in skeletal muscle glutamine and alanine synthesis and in interorgan nitrogen metabolism.Members of this subgroup are widely distributed in all three forms of life.
Probab=23.11 E-value=95 Score=26.84 Aligned_cols=26 Identities=35% Similarity=0.441 Sum_probs=23.4
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+++.++.+||.+
T Consensus 206 ~~v~~~~~~~Gi~v~e~~i~~~~l~~ 231 (279)
T cd01557 206 DSILELARDLGIKVEERPITRDELYE 231 (279)
T ss_pred HHHHHHHHHcCCeEEEEeCCHHHHhh
Confidence 66778899999999999999999876
No 141
>PRK06680 D-amino acid aminotransferase; Reviewed
Probab=23.07 E-value=90 Score=27.07 Aligned_cols=26 Identities=19% Similarity=0.229 Sum_probs=22.7
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+.+.++.+||.+
T Consensus 212 ~~il~~a~~~g~~v~e~~i~~~el~~ 237 (286)
T PRK06680 212 HTLIDLAKELGLEVEERPFTLQEAYA 237 (286)
T ss_pred HHHHHHHHHcCCeEEEEcCCHHHHhc
Confidence 56667889999999999999999865
No 142
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=22.97 E-value=91 Score=24.64 Aligned_cols=48 Identities=15% Similarity=0.304 Sum_probs=33.0
Q ss_pred CCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCC-CccEEEEEcCC
Q 029371 133 SGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT-DEDLLLISLEK 191 (194)
Q Consensus 133 ~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GT-DeDil~I~~~~ 191 (194)
.+|.|+++||.-|-..- ...|......|.+.+..|+. +=+++.|+.+.
T Consensus 25 ~~~~Gk~vvl~F~~~~~-----------c~~C~~~l~~l~~~~~~~~~~~v~vv~Is~d~ 73 (173)
T cd03015 25 SDYKGKWVVLFFYPLDF-----------TFVCPTEIIAFSDRYEEFKKLNAEVLGVSTDS 73 (173)
T ss_pred HHhCCCEEEEEEECCCC-----------CCcCHHHHHHHHHHHHHHHHCCCEEEEEecCC
Confidence 44889999998774442 45777778888888888754 23566666543
No 143
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=22.90 E-value=4.2e+02 Score=23.44 Aligned_cols=44 Identities=11% Similarity=0.137 Sum_probs=31.8
Q ss_pred HHHHHHHhhcCcceee-eecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCce
Q 029371 28 VDLAYLLQKFNVGFSY-FTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKI 85 (194)
Q Consensus 28 IDLaylL~~~gv~~~f-~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v 85 (194)
=.+.|+.++||++... ....-|..|. ..++.++=+.+++.+|.+
T Consensus 211 ~af~Yf~~~ygl~~~~~~~~~~~~eps--------------~~~l~~l~~~ik~~~v~~ 255 (311)
T PRK09545 211 DAYGYFEKHYGLTPLGHFTVNPEIQPG--------------AQRLHEIRTQLVEQKATC 255 (311)
T ss_pred chHHHHHHhCCCceeeeeccCCCCCCC--------------HHHHHHHHHHHHHcCCCE
Confidence 3578999999998653 2222333344 788899999999999863
No 144
>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=22.67 E-value=95 Score=25.73 Aligned_cols=39 Identities=21% Similarity=0.244 Sum_probs=26.6
Q ss_pred EEEEEEeeCCCceEEEeCCCCCCc---eeee------ChHHHHHHHhh
Q 029371 139 YILICGYDANSDEFEIRDPASCRK---REKV------TLKCLEEARKS 177 (194)
Q Consensus 139 YVVLcGYd~~~~~~~~~DPa~~~~---~~~~------s~~~~e~AR~s 177 (194)
-++|.|||...-.+|.-||.-+-. .|++ -..-||+.|+.
T Consensus 126 ~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~~~~ 173 (211)
T cd03749 126 GLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEE 173 (211)
T ss_pred EEEEEEEcCCCCeEEEECCCcCEeeeeEEEECCCcHHHHHHHHHhhcc
Confidence 578999997767899999987542 2333 23445666663
No 145
>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit. This protein family describes the archaeal proteasome beta subunit, homologous to both the alpha subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated.
Probab=22.30 E-value=1.1e+02 Score=24.37 Aligned_cols=22 Identities=27% Similarity=0.392 Sum_probs=18.4
Q ss_pred eEEEEEEeeCCCceEEEeCCCC
Q 029371 138 HYILICGYDANSDEFEIRDPAS 159 (194)
Q Consensus 138 HYVVLcGYd~~~~~~~~~DPa~ 159 (194)
=.++|.|||.....++.-||.=
T Consensus 98 v~~ivaG~d~~g~~Ly~~d~~G 119 (185)
T TIGR03634 98 VQLLVGGVDEEGPHLYSLDPAG 119 (185)
T ss_pred EEEEEEEEeCCCCEEEEECCCC
Confidence 3478999998777899999984
No 146
>PTZ00488 Proteasome subunit beta type-5; Provisional
Probab=22.28 E-value=1.1e+02 Score=26.49 Aligned_cols=25 Identities=28% Similarity=0.517 Sum_probs=20.1
Q ss_pred ceE--EEEEEeeCCCceEEEeCCCCCC
Q 029371 137 GHY--ILICGYDANSDEFEIRDPASCR 161 (194)
Q Consensus 137 GHY--VVLcGYd~~~~~~~~~DPa~~~ 161 (194)
|-+ ++|.|||...-.+++.||.-+-
T Consensus 133 ~~~v~~iiaG~D~~gp~Ly~vDp~Gs~ 159 (247)
T PTZ00488 133 GLSMGTMICGWDKKGPGLFYVDNDGTR 159 (247)
T ss_pred CeeEEEEEEEEeCCCCEEEEEcCCcce
Confidence 666 5999999766789999998653
No 147
>PHA02983 hypothetical protein; Provisional
Probab=22.22 E-value=2.9e+02 Score=23.30 Aligned_cols=72 Identities=17% Similarity=0.102 Sum_probs=43.7
Q ss_pred HHHHHHHHHcCCceE------------eccccHHHHHHHHHcCCcEEEEEEcCCCcccccccccccc--CccCCCCCCcc
Q 029371 72 DMLFQKARSAGIKIE------------CGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVP--GFYGSDSGYTG 137 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~------------~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~--~~~~~~~~Y~G 137 (194)
+++..-++.+||.+. -.++++++|.+.-.+. + =+-+|+.+++|+..+....| +.+. -..++
T Consensus 20 ~~l~~v~~DLGI~~i~~iGpy~i~~l~i~pi~~~~i~~~~l~d-C--Yia~nG~i~~CS~~~rL~~Pv~~I~~--ay~s~ 94 (180)
T PHA02983 20 KEISTVCSDLGINIIDFIGPYIIASLNIVPIPVNDIKQSDLQK-C--YISYNGKIVHCSKDNRLRFPIYKVYR--AYRSK 94 (180)
T ss_pred hHHHHHHHHcCcEEeehccccEEEEEEeEECCHHHhchhhhcC-e--EEEECCEEEecCccccccccHHHhhh--heecC
Confidence 345668889998643 3467888887754455 3 34579999999865444444 2221 22444
Q ss_pred eEEEEE-EeeCC
Q 029371 138 HYILIC-GYDAN 148 (194)
Q Consensus 138 HYVVLc-GYd~~ 148 (194)
-=++|| ||+..
T Consensus 95 n~~ilC~d~~~~ 106 (180)
T PHA02983 95 NSIIICFDKCPK 106 (180)
T ss_pred CeEEEEecCCCe
Confidence 345555 77663
No 148
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=22.15 E-value=2.1e+02 Score=24.44 Aligned_cols=85 Identities=11% Similarity=0.058 Sum_probs=57.6
Q ss_pred eeHHHHHHHHhhc-CcceeeeecccCCCCCCCcchhhcc-cccchhhHH----HHHHHHHHHcCCceEecc------ccH
Q 029371 25 IWTVDLAYLLQKF-NVGFSYFTITLGANPNYSVETFYKE-QLPTDLVRV----DMLFQKARSAGIKIECGS------ISG 92 (194)
Q Consensus 25 ~WTIDLaylL~~~-gv~~~f~T~tlG~np~y~~~~fY~~-~~~~D~~RV----~~lF~~A~~~gi~v~~rs------vs~ 92 (194)
.|.-+|.-+++.. |-++..... .||.|+.-.++.. .+..++-+| -.+=-.|.++|.+++... -+.
T Consensus 54 ~~~~~l~~i~~~~~g~~v~VLas---GDP~f~G~g~~l~~~~~~~~v~iIPgiSS~q~a~ARlg~~~~~~~~islHgr~~ 130 (210)
T COG2241 54 FDAESLEEILAERKGRDVVVLAS---GDPLFSGVGRLLRRKFSCEEVEIIPGISSVQLAAARLGWPLQDTEVISLHGRPV 130 (210)
T ss_pred cchHHHHHHHHHhCCCCeEEEec---CCcchhhhHHHHHHhcCccceEEecChhHHHHHHHHhCCChHHeEEEEecCCCH
Confidence 3444777777776 888887776 8999999988864 466556555 334445677888755332 356
Q ss_pred HHHHHHHHcCCcEEEEEEcCC
Q 029371 93 VEISLMILSGNYIAIALVDQY 113 (194)
Q Consensus 93 ~eI~~~L~~G~~~~IvLvd~~ 113 (194)
+.|+.++.+|. .+++|.+..
T Consensus 131 ~~l~~~~~~~~-~~vil~~~~ 150 (210)
T COG2241 131 ELLRPLLENGR-RLVILTPDD 150 (210)
T ss_pred HHHHHHHhCCc-eEEEeCCCC
Confidence 77888887775 666666655
No 149
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=21.98 E-value=4.1e+02 Score=21.10 Aligned_cols=68 Identities=9% Similarity=0.012 Sum_probs=40.4
Q ss_pred eHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHH
Q 029371 26 WTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMI 99 (194)
Q Consensus 26 WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L 99 (194)
|.--+..+++.+|+++.+.......++.-..+..-| ..|-..+.+.|++.|.....-.=..++..+-+
T Consensus 46 ~~~~v~~~~~~~~i~~~~~~~~~~~~~~~~~e~~aR------~~Ry~~l~~~a~~~g~~~i~~GHh~dD~~ET~ 113 (182)
T PF01171_consen 46 EAEFVEEICEQLGIPLYIVRIDEDRKKGSNIEECAR------ELRYQFLREIAKEEGCNKIALGHHLDDQAETF 113 (182)
T ss_dssp HHHHHHHHHHHTT-EEEEEE--CHCCTTSTCHHHHH------HHHHHHHHHHHHTTT-CEEE---BHHHHHHHH
T ss_pred hHHHHHHHHHhcCCceEEEEeeeeecccCCHHHHHH------HHHHHHHHHhhhcccccceeecCcCCccHHHH
Confidence 334466788888999888887664444433332221 35667788999999998777777888876653
No 150
>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=21.96 E-value=1.1e+02 Score=25.49 Aligned_cols=25 Identities=28% Similarity=0.458 Sum_probs=20.3
Q ss_pred ceEEEEEEeeCCCceEEEeCCCCCC
Q 029371 137 GHYILICGYDANSDEFEIRDPASCR 161 (194)
Q Consensus 137 GHYVVLcGYd~~~~~~~~~DPa~~~ 161 (194)
|--++|.|||.....+|.-||.-.-
T Consensus 126 ~v~~li~G~D~~g~~Ly~~d~~G~~ 150 (227)
T cd03750 126 GVSLLIAGWDEGGPYLYQVDPSGSY 150 (227)
T ss_pred heEEEEEEEeCCCCEEEEECCCCCE
Confidence 4568999999776789999998654
No 151
>PTZ00135 60S acidic ribosomal protein P0; Provisional
Probab=21.96 E-value=86 Score=28.27 Aligned_cols=74 Identities=19% Similarity=0.189 Sum_probs=45.6
Q ss_pred eeccCCCCC------ChhHHHhhhcCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhc-ccccchhhHHHHHH
Q 029371 3 LRTIGINNC------NIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYK-EQLPTDLVRVDMLF 75 (194)
Q Consensus 3 L~~~g~~~~------~~~~l~~~c~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~-~~~~~D~~RV~~lF 75 (194)
||.|||+-. .+..=..+|...-.=+-..|-||++||++.-.|-.. +---|.....|. +.++.++.=+...|
T Consensus 138 fq~LgipTkI~kG~I~I~~d~~v~k~Ge~v~~~~A~LL~~L~I~p~~~~l~--~~~~yd~g~~~~~~vL~i~~e~~~~~~ 215 (310)
T PTZ00135 138 FQALGIATKIVKGQIEITNEVHLIKEGQKVGASQAVLLQKLNIKPFSYGLE--VLSIYDNGSIYDAKVLDITDEDIVAKF 215 (310)
T ss_pred HHHcCCceEecCCeEEEecCeEEecCCCCcCHHHHHHHHHcCCCeEEEEEE--EEEEEECCeEeCHHHcCCCHHHHHHHH
Confidence 567777621 122223456656666778999999999988666543 335565555665 44666666555555
Q ss_pred HHH
Q 029371 76 QKA 78 (194)
Q Consensus 76 ~~A 78 (194)
++|
T Consensus 216 ~~~ 218 (310)
T PTZ00135 216 QEG 218 (310)
T ss_pred HHH
Confidence 544
No 152
>PF02222 ATP-grasp: ATP-grasp domain; InterPro: IPR003135 The ATP-grasp domain has an unusual nucleotide-binding fold, also referred to as palmate, and is found in a superfamily of enzymes including D-alanine-D-alanine ligase, glutathione synthetase, biotin carboxylase, and carbamoyl phosphate synthetase, the ribosomal protein S6 modification enzyme (RimK), urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis. This family does not contain all known ATP-grasp domain members. All the enzymes of this family possess ATP-dependent carboxylate-amine ligase activity, and their catalytic mechanisms are likely to include acylphosphate intermediates.; PDB: 3K5H_C 3K5I_C 3AX6_A 3Q2O_B 3QFF_B 3R5H_A 3ORQ_B 3ORR_B 4E4T_B 2Z04_A ....
Probab=21.87 E-value=3.6e+02 Score=21.99 Aligned_cols=28 Identities=21% Similarity=0.159 Sum_probs=18.1
Q ss_pred HHcCCceE--eccccHHHHHHHHHc-CCcEEE
Q 029371 79 RSAGIKIE--CGSISGVEISLMILS-GNYIAI 107 (194)
Q Consensus 79 ~~~gi~v~--~rsvs~~eI~~~L~~-G~~~~I 107 (194)
+++|+++- ..-.|.+|+.+.+.+ | +|+|
T Consensus 2 ~~~gip~~~~~~i~~~~~l~~a~~~iG-~P~v 32 (172)
T PF02222_consen 2 DELGIPTAPYATIDSLEDLEEAAESIG-FPAV 32 (172)
T ss_dssp HHTT--B-EEEEESSHHHHHHHHHHHT-SSEE
T ss_pred cccCCCCCCeEEECCHHHHHHHHHHcC-CCEE
Confidence 35676532 345688899998887 7 6887
No 153
>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=21.86 E-value=1.1e+02 Score=24.91 Aligned_cols=23 Identities=17% Similarity=0.247 Sum_probs=18.6
Q ss_pred eEEEEEEeeCCC-ceEEEeCCCCC
Q 029371 138 HYILICGYDANS-DEFEIRDPASC 160 (194)
Q Consensus 138 HYVVLcGYd~~~-~~~~~~DPa~~ 160 (194)
.-+||.|||.+. ..++.-||.-+
T Consensus 100 v~~ii~G~D~~~~p~Ly~~D~~G~ 123 (195)
T cd03759 100 VEPVVAGLDPDGKPFICTMDLIGC 123 (195)
T ss_pred EEEEEEEEcCCCCEEEEEEcCCCc
Confidence 468999999754 58999999765
No 154
>PTZ00364 dipeptidyl-peptidase I precursor; Provisional
Probab=21.74 E-value=2.1e+02 Score=28.01 Aligned_cols=22 Identities=23% Similarity=-0.123 Sum_probs=15.9
Q ss_pred cHHHHHHHHHcCCcEEEEEEcCC
Q 029371 91 SGVEISLMILSGNYIAIALVDQY 113 (194)
Q Consensus 91 s~~eI~~~L~~G~~~~IvLvd~~ 113 (194)
+.++|+..|.+. +|+.|-+|+.
T Consensus 342 ~e~~I~~eI~~~-GPVsVaIda~ 363 (548)
T PTZ00364 342 DPDEIIWEIYRH-GPVPASVYAN 363 (548)
T ss_pred cHHHHHHHHHHc-CCeEEEEEec
Confidence 567788888764 3788888875
No 155
>PF13623 SurA_N_2: SurA N-terminal domain
Probab=21.62 E-value=96 Score=24.81 Aligned_cols=29 Identities=28% Similarity=0.320 Sum_probs=23.0
Q ss_pred HHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371 74 LFQKARSAGIKIECGSISGVEISLMILSGNYIAI 107 (194)
Q Consensus 74 lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I 107 (194)
+-++++++|+ +||-+|+.+.|..|..|.+
T Consensus 95 l~~e~eklGi-----~Vs~~El~d~l~~g~~p~~ 123 (145)
T PF13623_consen 95 LEQEFEKLGI-----TVSDDELQDMLNQGTNPML 123 (145)
T ss_pred HHHHHHHhCC-----ccCHHHHHHHHhcCCCchh
Confidence 3478999999 7789999999977765543
No 156
>cd03014 PRX_Atyp2cys Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a bacterial periplasmic peroxidase which differs from other PRXs in that it shows substrate specificity toward alkyl hydroperoxides over hydrogen peroxide. As with all other PRXs, the peroxidatic cysteine (N-terminal) of Tpx is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Tpx is able to resolve this intermediate by forming an intramolecular disulfide bond with a conserved C-terminal cysteine (the resolving cysteine), which can then be reduced by thioredoxin. This differs from the typical 2-cys PRX which resolves the oxidized cysteine by forming an intermolecular disulfide bond with the resolving cysteine from the other subunit of the homodimer. Atypical 2-cys PRX homodimers have a loop-based
Probab=21.41 E-value=1.6e+02 Score=21.99 Aligned_cols=45 Identities=13% Similarity=0.193 Sum_probs=32.7
Q ss_pred CCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEEEcC
Q 029371 134 GYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLE 190 (194)
Q Consensus 134 ~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I~~~ 190 (194)
+|.|..+||.-|-... ...|+.....|++.+..+. +=.+|-|+.+
T Consensus 23 ~~~gk~vvl~f~~~~~-----------c~~C~~e~~~l~~~~~~~~-~~~vi~Is~d 67 (143)
T cd03014 23 DFAGKVKVISVFPSID-----------TPVCATQTKRFNKEAAKLD-NTVVLTISAD 67 (143)
T ss_pred HhCCCeEEEEEEcCCC-----------CCcCHHHHHHHHHHHHhcC-CCEEEEEECC
Confidence 4788889988775442 3678888889999888873 4466666654
No 157
>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=21.32 E-value=1.1e+02 Score=24.75 Aligned_cols=22 Identities=23% Similarity=0.447 Sum_probs=18.0
Q ss_pred EEEEEEeeCCCceEEEeCCCCC
Q 029371 139 YILICGYDANSDEFEIRDPASC 160 (194)
Q Consensus 139 YVVLcGYd~~~~~~~~~DPa~~ 160 (194)
.++|.|||...-.+++-||.=+
T Consensus 98 ~~li~G~D~~g~~L~~~dp~G~ 119 (188)
T cd03761 98 GTMICGWDKTGPGLYYVDSDGT 119 (188)
T ss_pred EEEEEEEeCCCCEEEEEcCCce
Confidence 5889999976668888899755
No 158
>cd07984 LPLAT_LABLAT-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lipid A biosynthesis lauroyl/myristoyl (LABLAT, HtrB) acyltransferases and similar proteins.
Probab=21.24 E-value=3.1e+02 Score=21.39 Aligned_cols=44 Identities=23% Similarity=0.172 Sum_probs=30.5
Q ss_pred HHHHHHHHHH-HcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCC
Q 029371 70 RVDMLFQKAR-SAGIKIECGSISGVEISLMILSGNYIAIALVDQYK 114 (194)
Q Consensus 70 RV~~lF~~A~-~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~ 114 (194)
.++.++.+++ ..|.....++-.+.++.+.|.+|. .+.++.|...
T Consensus 57 ~~~~~~~~~r~~~g~~~i~~~~~~~~~~~~l~~g~-~v~i~pD~~~ 101 (192)
T cd07984 57 LLDRLITRGRERFGARLIPRGGGLRELIRALKKGE-IVGILPDQDP 101 (192)
T ss_pred HHHHHHHHHHHhcCCeeEcCCchHHHHHHHHhCCC-EEEEEeCCCC
Confidence 3455666553 456544455578889999999996 7788888763
No 159
>KOG2315 consensus Predicted translation initiation factor related to eIF-3a [Translation, ribosomal structure and biogenesis]
Probab=21.13 E-value=73 Score=31.22 Aligned_cols=25 Identities=24% Similarity=0.501 Sum_probs=20.7
Q ss_pred CcceEEEEEEeeCCCceEEEeCCCC
Q 029371 135 YTGHYILICGYDANSDEFEIRDPAS 159 (194)
Q Consensus 135 Y~GHYVVLcGYd~~~~~~~~~DPa~ 159 (194)
=.||||||+||+--.+.+.+=|=..
T Consensus 321 p~g~ii~lAGFGNL~G~mEvwDv~n 345 (566)
T KOG2315|consen 321 PHGNIILLAGFGNLPGDMEVWDVPN 345 (566)
T ss_pred CCCCEEEEeecCCCCCceEEEeccc
Confidence 4799999999999888888777554
No 160
>PRK07650 4-amino-4-deoxychorismate lyase; Provisional
Probab=20.91 E-value=1.1e+02 Score=26.34 Aligned_cols=26 Identities=15% Similarity=0.245 Sum_probs=23.2
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+.+.++.+|+..
T Consensus 207 ~~li~~~~~~g~~v~e~~i~~~dL~~ 232 (283)
T PRK07650 207 AFVIKVLEELGIEVKEGFYTKEELLS 232 (283)
T ss_pred HHHHHHHHHcCCeEEEEecCHHHHhh
Confidence 66778899999999999999999865
No 161
>PRK00784 cobyric acid synthase; Provisional
Probab=20.89 E-value=2.4e+02 Score=26.60 Aligned_cols=25 Identities=16% Similarity=0.157 Sum_probs=18.5
Q ss_pred CCceeHHHHHHHHhhcCcceeeeec
Q 029371 22 TTSIWTVDLAYLLQKFNVGFSYFTI 46 (194)
Q Consensus 22 ~~S~WTIDLaylL~~~gv~~~f~T~ 46 (194)
++++=|.-|+..|++.|.++.++=.
T Consensus 15 GKT~vt~~L~~~l~~~G~~v~~~Kp 39 (488)
T PRK00784 15 GKSTLVAGLCRILARRGYRVAPFKA 39 (488)
T ss_pred cHHHHHHHHHHHHHHCCCeEecccc
Confidence 4455678889999998887776643
No 162
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=20.73 E-value=2e+02 Score=23.29 Aligned_cols=72 Identities=14% Similarity=0.104 Sum_probs=40.7
Q ss_pred cCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccch-hhHHHHHHHHHHHcCCceEeccccHHHHHHHH
Q 029371 21 CTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTD-LVRVDMLFQKARSAGIKIECGSISGVEISLMI 99 (194)
Q Consensus 21 ~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D-~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L 99 (194)
+++|+|.-.+++- .|-++.|....-. ++.| ..||.. .++.+..+....+... +|.+.+
T Consensus 10 sGKS~~a~~~~~~---~~~~~~y~at~~~--------------~d~em~~rI~~-H~~~R~~~w~t~E~~~---~l~~~l 68 (169)
T cd00544 10 SGKSRFAERLAAE---LGGPVTYIATAEA--------------FDDEMAERIAR-HRKRRPAHWRTIETPR---DLVSAL 68 (169)
T ss_pred CCHHHHHHHHHHh---cCCCeEEEEccCc--------------CCHHHHHHHHH-HHHhCCCCceEeecHH---HHHHHH
Confidence 5788888666543 6667777765322 2333 455554 6777755555544444 444444
Q ss_pred HcCCcEEEEEEcCC
Q 029371 100 LSGNYIAIALVDQY 113 (194)
Q Consensus 100 ~~G~~~~IvLvd~~ 113 (194)
.+.+.+-+||+|.-
T Consensus 69 ~~~~~~~~VLIDcl 82 (169)
T cd00544 69 KELDPGDVVLIDCL 82 (169)
T ss_pred HhcCCCCEEEEEcH
Confidence 43212447888874
No 163
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=20.70 E-value=3.1e+02 Score=20.92 Aligned_cols=45 Identities=18% Similarity=0.017 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHcCCceEeccccHHHHHHHHHcC-CcEEEEEEcCCCc
Q 029371 70 RVDMLFQKARSAGIKIECGSISGVEISLMILSG-NYIAIALVDQYKL 115 (194)
Q Consensus 70 RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G-~~~~IvLvd~~~L 115 (194)
.+..+-+.|+..+||+. ..-|.+||-..+... +..++++.|.++.
T Consensus 57 ~~~~i~~lc~~~~Ip~~-~~~sk~eLG~a~Gk~~~~svvaI~d~g~a 102 (117)
T TIGR03677 57 IVAHLPALCEEKGIPYV-YVKKKEDLGAAAGLEVGAASAAIVDEGKA 102 (117)
T ss_pred HHHHHHHHHHHcCCCEE-EeCCHHHHHHHhCCCCCeEEEEEEchhhh
Confidence 35777889999999974 456999999998763 4688999998754
No 164
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=20.69 E-value=2.8e+02 Score=22.59 Aligned_cols=60 Identities=13% Similarity=0.219 Sum_probs=38.3
Q ss_pred ecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEec-cccHHHHHHHHHcCCcEEEEEEcC
Q 029371 45 TITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECG-SISGVEISLMILSGNYIAIALVDQ 112 (194)
Q Consensus 45 T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~r-svs~~eI~~~L~~G~~~~IvLvd~ 112 (194)
+.++|+.|.+.+..++.. + .+ +.+.|. ++.|+.++.. ..+..++.+.+.+|+ .=|++.+.
T Consensus 33 ~l~vg~~~~~~~~~~~~~-~-~~---l~~~l~--~~~g~~v~~~~~~~~~~~~~~l~~g~-~Di~~~~~ 93 (254)
T TIGR01098 33 ELNFGILPGENASNLTRR-W-EP---LADYLE--KKLGIKVQLFVATDYSAVIEAMRFGR-VDIAWFGP 93 (254)
T ss_pred ceEEEECCCCCHHHHHHH-H-HH---HHHHHH--HHhCCcEEEEeCCCHHHHHHHHHcCC-ccEEEECc
Confidence 567788888877665521 1 11 233333 4568888765 468899999999998 44445443
No 165
>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.63 E-value=55 Score=31.38 Aligned_cols=62 Identities=29% Similarity=0.590 Sum_probs=42.3
Q ss_pred HHHhhcCccee-eeecccCCCCCCCcc-hhhc--ccccchhhHH---HHHHHHHHHcCCceEeccccHHHHHHHHH
Q 029371 32 YLLQKFNVGFS-YFTITLGANPNYSVE-TFYK--EQLPTDLVRV---DMLFQKARSAGIKIECGSISGVEISLMIL 100 (194)
Q Consensus 32 ylL~~~gv~~~-f~T~tlG~np~y~~~-~fY~--~~~~~D~~RV---~~lF~~A~~~gi~v~~rsvs~~eI~~~L~ 100 (194)
|+|.+|...++ |||-+--.||.|+.. .|+. +.+=.-.+|| ..|-+.|+++||.. ..|+..|.
T Consensus 421 yildkyP~avRPFYTmpd~~~p~ySnSyD~fmRGeEIlSGAQRIhdpe~L~era~~hGid~-------~~i~~Yid 489 (533)
T KOG0556|consen 421 YILDKYPLAVRPFYTMPDPENPRYSNSYDFFMRGEEILSGAQRIHDPELLVERAKEHGIDP-------SKISTYID 489 (533)
T ss_pred EEEccCccccccccccCCCCCCCcccchhheechhhhhccccccCCHHHHHHHHHHcCCCH-------HHHHHHHH
Confidence 67888888776 999988889988865 1221 1122345677 67889999999854 44555554
No 166
>cd01174 ribokinase Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides and histidine, and for entry into the pentose phosphate pathway. Ribokinase is dimeric in solution.
Probab=20.37 E-value=5.1e+02 Score=21.54 Aligned_cols=25 Identities=8% Similarity=0.151 Sum_probs=20.5
Q ss_pred HHHHHHHhhcCcceeeeecccCCCCC
Q 029371 28 VDLAYLLQKFNVGFSYFTITLGANPN 53 (194)
Q Consensus 28 IDLaylL~~~gv~~~f~T~tlG~np~ 53 (194)
.-.|..|+++|+++.|.|. +|-|+.
T Consensus 40 ~NvA~~l~~lG~~~~~~~~-vG~D~~ 64 (292)
T cd01174 40 ANQAVAAARLGARVAMIGA-VGDDAF 64 (292)
T ss_pred HHHHHHHHHcCCceEEEEE-EcCCcc
Confidence 4578899999999999994 886665
No 167
>PRK12479 branched-chain amino acid aminotransferase; Provisional
Probab=20.32 E-value=1.2e+02 Score=26.59 Aligned_cols=26 Identities=8% Similarity=0.138 Sum_probs=23.5
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+.+.++.+|+.+
T Consensus 215 ~~il~~~~~~g~~v~e~~i~~~~L~~ 240 (299)
T PRK12479 215 NSVIELCERLSIPCEERPFTRHDVYV 240 (299)
T ss_pred HHHHHHHHHcCCeEEEEeCCHHHHHh
Confidence 67788899999999999999999865
No 168
>KOG1387 consensus Glycosyltransferase [Cell wall/membrane/envelope biogenesis]
Probab=20.30 E-value=1.5e+02 Score=28.05 Aligned_cols=36 Identities=17% Similarity=0.102 Sum_probs=29.1
Q ss_pred cchhhHHHHHHHHHHHcCCc--eE-eccccHHHHHHHHH
Q 029371 65 PTDLVRVDMLFQKARSAGIK--IE-CGSISGVEISLMIL 100 (194)
Q Consensus 65 ~~D~~RV~~lF~~A~~~gi~--v~-~rsvs~~eI~~~L~ 100 (194)
.+|++||++|=..|.+++|+ |+ ..-+..++|.+.|.
T Consensus 317 eeD~ervk~Lkd~a~~L~i~~~v~F~~N~Py~~lv~lL~ 355 (465)
T KOG1387|consen 317 EEDEERVKSLKDLAEELKIPKHVQFEKNVPYEKLVELLG 355 (465)
T ss_pred hhhHHHHHHHHHHHHhcCCccceEEEecCCHHHHHHHhc
Confidence 36999999999999999985 33 56678888888764
No 169
>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=20.14 E-value=1.2e+02 Score=24.71 Aligned_cols=22 Identities=14% Similarity=0.143 Sum_probs=18.0
Q ss_pred EEEEEEeeC-CCceEEEeCCCCC
Q 029371 139 YILICGYDA-NSDEFEIRDPASC 160 (194)
Q Consensus 139 YVVLcGYd~-~~~~~~~~DPa~~ 160 (194)
.++|.|||. ....+|.-||.-+
T Consensus 103 ~~iiaG~D~~~gp~Ly~~D~~G~ 125 (197)
T cd03760 103 TLVVGGVDNEGEPFLGYVDLLGT 125 (197)
T ss_pred EEEEEEEcCCCCEEEEEEcCCcc
Confidence 688999997 4568999999864
No 170
>PRK07849 4-amino-4-deoxychorismate lyase; Provisional
Probab=20.07 E-value=1.2e+02 Score=26.60 Aligned_cols=26 Identities=23% Similarity=0.346 Sum_probs=23.2
Q ss_pred HHHHHHHHHcCCceEeccccHHHHHH
Q 029371 72 DMLFQKARSAGIKIECGSISGVEISL 97 (194)
Q Consensus 72 ~~lF~~A~~~gi~v~~rsvs~~eI~~ 97 (194)
..+.+.|++.|++|+++.++.+|+.+
T Consensus 222 ~~vie~~~~~g~~v~er~i~~~eL~~ 247 (292)
T PRK07849 222 AALFEVAREKGWDCEYRALRPADLFA 247 (292)
T ss_pred HHHHHHHHHcCCceEEEECCHHHHhh
Confidence 66778899999999999999999876
No 171
>cd01906 proteasome_protease_HslV proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins, the breakdown of regulatory proteins, and the processing of proteins such as the preparation of peptides for immune presentation. Two main proteasomal types are distinguished by their different tertiary structures: the eukaryotic/archeal 20S proteasome and the prokaryotic proteasome-like heat shock protein encoded by heat shock locus V, hslV. The proteasome core particle is a highly conserved cylindrical structure made up of non-identical subunits that have their active sites on the inner walls of a large central cavity. The proteasome subunits of bacteria, archaea, and eukaryotes all share a conserved Ntn (N terminal nucleophile) hydrolase fold and a catalytic mechanism involving an N-terminal nucleo
Probab=20.03 E-value=1.4e+02 Score=23.46 Aligned_cols=25 Identities=24% Similarity=0.437 Sum_probs=19.6
Q ss_pred ceEEEEEEeeC-CCceEEEeCCCCCC
Q 029371 137 GHYILICGYDA-NSDEFEIRDPASCR 161 (194)
Q Consensus 137 GHYVVLcGYd~-~~~~~~~~DPa~~~ 161 (194)
|=.++|.|||. ....++..||.-+-
T Consensus 98 ~~~~lv~G~d~~~~~~Ly~id~~G~~ 123 (182)
T cd01906 98 GVSLLVAGVDEEGGPQLYSVDPSGSY 123 (182)
T ss_pred heEEEEEEEeCCCCcEEEEECCCCCE
Confidence 44589999998 56689999997653
Done!