Query 018198
Match_columns 359
No_of_seqs 401 out of 3543
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 06:58:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018198.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018198hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10898 serine endoprotease; 100.0 4.5E-36 9.8E-41 285.0 26.0 208 150-359 42-255 (353)
2 TIGR02038 protease_degS peripl 100.0 7.7E-36 1.7E-40 283.6 26.7 209 149-359 41-254 (351)
3 PRK10139 serine endoprotease; 100.0 1.7E-35 3.7E-40 289.2 26.8 205 154-359 41-266 (455)
4 PRK10942 serine endoprotease; 100.0 1.6E-33 3.6E-38 276.5 26.3 205 154-359 39-287 (473)
5 TIGR02037 degP_htrA_DO peripla 100.0 3.6E-33 7.8E-38 273.0 25.9 204 155-359 3-233 (428)
6 COG0626 MetC Cystathionine bet 100.0 2.9E-30 6.2E-35 244.6 0.3 114 1-129 189-304 (396)
7 COG0265 DegQ Trypsin-like seri 99.9 1.1E-25 2.4E-30 214.7 22.1 206 153-359 33-248 (347)
8 COG2873 MET17 O-acetylhomoseri 99.9 6.4E-28 1.4E-32 220.1 1.5 114 1-128 187-332 (426)
9 KOG0053 Cystathionine beta-lya 99.9 1.1E-27 2.4E-32 224.3 1.7 117 1-132 202-319 (409)
10 PF01053 Cys_Met_Meta_PP: Cys/ 99.9 2.1E-26 4.6E-31 220.6 -1.3 112 1-127 181-294 (386)
11 PRK08114 cystathionine beta-ly 99.9 1.8E-25 3.9E-30 214.6 0.4 110 1-126 189-299 (395)
12 PRK05967 cystathionine beta-ly 99.9 2.8E-25 6.1E-30 213.5 0.4 111 1-127 189-300 (395)
13 PRK09028 cystathionine beta-ly 99.9 6.3E-25 1.4E-29 211.4 0.6 111 1-127 186-297 (394)
14 PRK08861 cystathionine gamma-s 99.9 3.2E-23 6.9E-28 199.7 0.7 112 1-127 178-290 (388)
15 PRK06702 O-acetylhomoserine am 99.8 1.7E-22 3.7E-27 196.3 1.6 112 1-126 187-329 (432)
16 PRK05613 O-acetylhomoserine am 99.8 1.4E-20 3E-25 183.8 2.4 113 1-127 195-342 (437)
17 TIGR01324 cysta_beta_ly_B cyst 99.8 9.3E-21 2E-25 182.3 -0.0 110 1-126 175-285 (377)
18 PRK06434 cystathionine gamma-l 99.8 2.2E-20 4.7E-25 179.5 1.0 102 1-117 186-287 (384)
19 PRK07812 O-acetylhomoserine am 99.8 6.7E-20 1.4E-24 179.0 3.4 114 1-128 195-338 (436)
20 PRK07269 cystathionine gamma-s 99.8 3.6E-20 7.7E-25 177.5 0.5 102 1-117 176-277 (364)
21 KOG1320 Serine protease [Postt 99.8 6.2E-18 1.3E-22 162.0 14.2 205 148-352 123-351 (473)
22 PRK05939 hypothetical protein; 99.8 3.2E-19 6.9E-24 172.8 4.1 112 1-126 171-303 (397)
23 PRK08045 cystathionine gamma-s 99.8 1.2E-19 2.6E-24 175.2 0.7 112 1-127 177-289 (386)
24 PRK08248 O-acetylhomoserine am 99.7 1.7E-19 3.7E-24 176.3 1.1 114 1-128 189-334 (431)
25 PRK06084 O-acetylhomoserine am 99.7 1E-18 2.3E-23 170.5 3.7 114 1-128 183-329 (425)
26 PF13365 Trypsin_2: Trypsin-li 99.7 3.2E-17 6.9E-22 131.7 10.2 109 188-323 1-120 (120)
27 PRK07050 cystathionine beta-ly 99.7 6.8E-19 1.5E-23 170.5 0.2 102 1-117 190-291 (394)
28 PRK07810 O-succinylhomoserine 99.7 7.8E-19 1.7E-23 170.5 -0.1 111 1-126 195-306 (403)
29 PRK13562 acetolactate synthase 99.7 3.7E-17 8E-22 119.9 7.6 74 44-117 2-77 (84)
30 PRK08574 cystathionine gamma-s 99.7 1.6E-18 3.4E-23 167.4 0.1 111 1-126 177-288 (385)
31 PRK08134 O-acetylhomoserine am 99.7 2.1E-18 4.6E-23 168.5 0.9 113 1-127 189-333 (433)
32 PLN02509 cystathionine beta-ly 99.7 1.7E-18 3.7E-23 169.8 0.1 112 1-127 257-369 (464)
33 TIGR02080 O_succ_thio_ly O-suc 99.7 2.3E-18 4.9E-23 166.2 0.9 111 2-127 177-288 (382)
34 PRK05994 O-acetylhomoserine am 99.7 9.2E-18 2E-22 164.2 4.2 113 1-127 188-332 (427)
35 PRK06176 cystathionine gamma-s 99.7 3.2E-18 6.9E-23 165.1 0.2 111 1-126 174-285 (380)
36 PRK06737 acetolactate synthase 99.7 2.2E-16 4.7E-21 114.8 7.8 74 44-117 2-76 (76)
37 COG0440 IlvH Acetolactate synt 99.7 3.4E-16 7.4E-21 128.8 9.7 92 42-133 2-95 (163)
38 PRK07582 cystathionine gamma-l 99.7 9.1E-18 2E-22 161.3 0.2 111 2-127 173-284 (366)
39 PRK07671 cystathionine beta-ly 99.7 1.1E-17 2.4E-22 161.3 0.4 111 2-127 175-286 (377)
40 TIGR01329 cysta_beta_ly_E cyst 99.7 1.9E-17 4E-22 159.7 0.8 112 1-127 171-283 (378)
41 PRK08776 cystathionine gamma-s 99.6 3.3E-17 7.1E-22 159.2 0.7 111 2-127 186-297 (405)
42 PRK08178 acetolactate synthase 99.6 7.4E-16 1.6E-20 116.0 7.6 75 43-118 7-82 (96)
43 PRK07504 O-succinylhomoserine 99.6 6.3E-17 1.4E-21 157.1 0.1 110 2-126 191-301 (398)
44 PRK07049 methionine gamma-lyas 99.6 1.4E-16 2.9E-21 155.9 0.5 109 2-126 221-332 (427)
45 TIGR01325 O_suc_HS_sulf O-succ 99.6 1.3E-16 2.9E-21 154.1 0.4 109 2-126 180-289 (380)
46 PRK08064 cystathionine beta-ly 99.6 1.5E-16 3.2E-21 154.1 0.4 110 2-126 179-289 (390)
47 PRK11895 ilvH acetolactate syn 99.6 9.6E-15 2.1E-19 122.3 10.1 90 44-133 2-93 (161)
48 cd00614 CGS_like CGS_like: Cys 99.6 2.2E-16 4.8E-21 152.0 -0.3 111 1-126 165-276 (369)
49 PRK08133 O-succinylhomoserine 99.6 2.9E-16 6.4E-21 152.1 0.3 111 1-127 186-297 (390)
50 PRK08249 cystathionine gamma-s 99.6 3E-16 6.6E-21 152.2 0.2 110 2-127 190-300 (398)
51 TIGR01326 OAH_OAS_sulfhy OAH/O 99.6 3.1E-16 6.8E-21 153.2 0.3 112 2-127 183-325 (418)
52 PRK06767 methionine gamma-lyas 99.6 3.7E-16 8.1E-21 151.2 0.6 102 1-117 186-287 (386)
53 PRK07811 cystathionine gamma-s 99.6 4.9E-16 1.1E-20 150.4 0.8 112 1-127 186-298 (388)
54 PF00089 Trypsin: Trypsin; In 99.6 2E-13 4.3E-18 120.9 17.2 176 162-348 11-220 (220)
55 TIGR00119 acolac_sm acetolacta 99.5 2.7E-14 5.8E-19 119.2 10.0 89 45-133 2-92 (157)
56 PRK07503 methionine gamma-lyas 99.5 1.3E-15 2.9E-20 148.0 1.2 109 2-126 191-302 (403)
57 PRK06234 methionine gamma-lyas 99.5 1.3E-15 2.8E-20 148.1 0.6 110 1-126 191-303 (400)
58 TIGR01328 met_gam_lyase methio 99.5 1.7E-15 3.7E-20 146.7 0.3 111 2-127 185-297 (391)
59 PRK11152 ilvM acetolactate syn 99.5 4.4E-14 9.6E-19 102.9 7.5 73 43-116 2-75 (76)
60 KOG1421 Predicted signaling-as 99.5 2.8E-13 6E-18 132.0 13.6 203 153-359 52-266 (955)
61 CHL00100 ilvH acetohydroxyacid 99.5 1.2E-13 2.6E-18 117.1 9.5 90 44-133 2-93 (174)
62 PRK08247 cystathionine gamma-s 99.5 4.8E-15 1E-19 142.5 0.9 102 1-117 176-277 (366)
63 PRK05968 hypothetical protein; 99.5 5.9E-15 1.3E-19 142.9 0.8 102 1-117 187-288 (389)
64 cd00190 Tryp_SPc Trypsin-like 99.5 3.8E-12 8.2E-17 113.5 18.4 179 161-350 10-231 (232)
65 PRK06460 hypothetical protein; 99.4 2.4E-14 5.1E-19 138.1 0.1 109 2-126 171-280 (376)
66 KOG2663 Acetolactate synthase, 99.4 7.2E-14 1.6E-18 121.1 2.8 91 42-132 75-167 (309)
67 smart00020 Tryp_SPc Trypsin-li 99.4 3.6E-11 7.8E-16 107.3 16.8 157 161-328 11-208 (229)
68 PF13710 ACT_5: ACT domain; PD 99.3 4.1E-12 8.9E-17 89.9 6.1 62 53-114 1-63 (63)
69 PLN02242 methionine gamma-lyas 99.3 7.2E-13 1.6E-17 129.3 1.0 107 2-126 203-314 (418)
70 TIGR00474 selA seryl-tRNA(sec) 99.1 4E-12 8.6E-17 124.7 -1.1 90 2-108 268-371 (454)
71 COG3591 V8-like Glu-specific e 99.0 7.4E-09 1.6E-13 92.4 13.2 158 187-353 65-251 (251)
72 PRK04311 selenocysteine syntha 98.8 4.5E-10 9.7E-15 110.6 -0.7 91 2-109 273-377 (464)
73 KOG1320 Serine protease [Postt 98.6 6.4E-08 1.4E-12 93.6 7.2 193 158-355 55-257 (473)
74 PF00863 Peptidase_C4: Peptida 98.6 3.2E-06 7E-11 75.0 16.8 164 160-342 14-185 (235)
75 KOG3627 Trypsin [Amino acid tr 98.6 6.1E-06 1.3E-10 75.2 18.6 164 187-352 39-254 (256)
76 KOG1421 Predicted signaling-as 98.2 2.5E-05 5.4E-10 77.5 13.4 169 186-357 550-732 (955)
77 PF05579 Peptidase_S32: Equine 97.9 6.4E-05 1.4E-09 66.9 9.4 115 187-328 113-229 (297)
78 PF03761 DUF316: Domain of unk 97.8 0.0013 2.9E-08 60.8 16.0 111 231-347 159-274 (282)
79 COG5640 Secreted trypsin-like 97.7 0.00045 9.8E-09 64.1 12.0 50 303-352 224-278 (413)
80 PF05580 Peptidase_S55: SpoIVB 97.4 0.0044 9.6E-08 54.0 12.7 159 184-345 18-216 (218)
81 PF00548 Peptidase_C3: 3C cyst 97.2 0.005 1.1E-07 52.7 11.4 134 186-327 25-170 (172)
82 PF10459 Peptidase_S46: Peptid 96.9 0.0054 1.2E-07 63.4 10.0 21 187-207 48-68 (698)
83 PF10459 Peptidase_S46: Peptid 96.7 0.0034 7.3E-08 64.8 6.2 57 297-353 623-688 (698)
84 PF01842 ACT: ACT domain; Int 96.5 0.014 3E-07 40.8 7.1 65 46-110 2-66 (66)
85 PF08192 Peptidase_S64: Peptid 96.4 0.028 6E-07 56.6 10.9 116 232-352 542-689 (695)
86 PF00949 Peptidase_S7: Peptida 96.2 0.0088 1.9E-07 48.5 5.0 31 298-328 88-118 (132)
87 TIGR02860 spore_IV_B stage IV 96.2 0.071 1.5E-06 51.5 11.8 43 302-346 355-397 (402)
88 cd04878 ACT_AHAS N-terminal AC 96.2 0.035 7.6E-07 39.2 7.6 70 46-115 2-72 (72)
89 PF13291 ACT_4: ACT domain; PD 95.7 0.076 1.6E-06 39.0 7.9 70 46-115 8-79 (80)
90 PF02122 Peptidase_S39: Peptid 95.7 0.062 1.4E-06 47.0 8.2 135 198-344 43-184 (203)
91 cd04879 ACT_3PGDH-like ACT_3PG 95.4 0.044 9.4E-07 38.5 5.6 68 48-117 3-71 (71)
92 cd04874 ACT_Af1403 N-terminal 94.8 0.18 3.9E-06 35.5 7.3 68 47-115 3-70 (72)
93 COG3978 Acetolactate synthase 94.5 0.13 2.8E-06 37.3 5.6 73 44-117 3-76 (86)
94 cd04903 ACT_LSD C-terminal ACT 94.5 0.14 2.9E-06 36.0 5.9 68 47-116 2-70 (71)
95 PF09342 DUF1986: Domain of un 94.2 0.51 1.1E-05 42.1 9.7 97 163-271 16-131 (267)
96 PRK06349 homoserine dehydrogen 94.2 0.13 2.8E-06 50.6 6.9 71 44-114 348-419 (426)
97 PF00944 Peptidase_S3: Alphavi 94.1 0.13 2.7E-06 41.4 5.3 29 301-329 100-128 (158)
98 cd04881 ACT_HSDH-Hom ACT_HSDH_ 93.9 0.26 5.5E-06 35.3 6.5 69 47-115 3-73 (79)
99 cd04888 ACT_PheB-BS C-terminal 93.8 0.47 1E-05 34.1 7.7 70 47-116 3-74 (76)
100 cd04902 ACT_3PGDH-xct C-termin 93.4 0.2 4.4E-06 35.6 5.2 67 49-117 4-71 (73)
101 cd04876 ACT_RelA-SpoT ACT dom 93.2 0.51 1.1E-05 32.2 6.9 66 50-115 4-70 (71)
102 PF02395 Peptidase_S6: Immunog 92.7 1 2.3E-05 47.3 10.9 162 187-351 66-266 (769)
103 PF05416 Peptidase_C37: Southa 92.7 1 2.2E-05 43.3 9.7 136 186-333 379-532 (535)
104 cd04887 ACT_MalLac-Enz ACT_Mal 92.5 0.74 1.6E-05 32.9 7.0 67 47-113 2-69 (74)
105 PRK08577 hypothetical protein; 92.4 0.73 1.6E-05 37.7 7.7 73 45-117 57-132 (136)
106 cd04901 ACT_3PGDH C-terminal A 92.2 0.2 4.4E-06 35.2 3.6 66 49-117 4-69 (69)
107 PRK13034 serine hydroxymethylt 91.2 0.11 2.3E-06 51.1 1.7 37 3-43 213-249 (416)
108 PF03510 Peptidase_C24: 2C end 91.1 0.83 1.8E-05 35.4 6.1 101 190-315 3-105 (105)
109 PF02907 Peptidase_S29: Hepati 91.0 0.42 9E-06 38.5 4.5 128 189-344 15-146 (148)
110 PRK04435 hypothetical protein; 90.0 1.8 3.8E-05 36.0 7.7 72 46-117 71-144 (147)
111 PF13740 ACT_6: ACT domain; PD 88.9 1.9 4.1E-05 31.2 6.3 63 46-109 4-66 (76)
112 cd04869 ACT_GcvR_2 ACT domains 88.5 1.6 3.4E-05 31.8 5.8 63 48-110 3-71 (81)
113 PRK00194 hypothetical protein; 88.5 1.1 2.4E-05 33.5 5.1 70 45-115 4-75 (90)
114 PLN03227 serine palmitoyltrans 88.3 0.17 3.7E-06 49.2 0.6 59 7-70 196-254 (392)
115 PF00947 Pico_P2A: Picornaviru 86.8 1.4 3E-05 35.3 4.7 33 295-328 78-110 (127)
116 cd04883 ACT_AcuB C-terminal AC 86.5 3.6 7.8E-05 28.9 6.6 61 46-108 3-64 (72)
117 cd04908 ACT_Bt0572_1 N-termina 86.4 4 8.7E-05 28.4 6.7 57 46-107 3-59 (66)
118 cd04884 ACT_CBS C-terminal ACT 86.3 4.1 8.8E-05 28.9 6.8 64 47-111 2-69 (72)
119 COG4492 PheB ACT domain-contai 86.2 3.5 7.5E-05 33.2 6.7 73 45-117 73-147 (150)
120 COG1921 SelA Selenocysteine sy 85.4 0.16 3.5E-06 48.7 -1.4 36 4-42 205-240 (395)
121 cd04872 ACT_1ZPV ACT domain pr 85.1 2.1 4.4E-05 32.0 4.8 67 46-113 3-71 (88)
122 cd04877 ACT_TyrR N-terminal AC 83.9 6.1 0.00013 28.2 6.8 68 47-117 3-70 (74)
123 cd04905 ACT_CM-PDT C-terminal 83.5 7.3 0.00016 28.3 7.2 64 47-110 4-71 (80)
124 cd04870 ACT_PSP_1 CT domains f 82.4 3.7 8.1E-05 29.5 5.1 62 48-110 3-65 (75)
125 cd04886 ACT_ThrD-II-like C-ter 81.8 6.7 0.00015 27.1 6.3 60 49-108 3-67 (73)
126 cd04875 ACT_F4HF-DF N-terminal 81.7 5 0.00011 28.7 5.6 64 47-110 2-68 (74)
127 cd04909 ACT_PDH-BS C-terminal 81.6 6.9 0.00015 27.3 6.2 62 46-108 3-65 (69)
128 cd04880 ACT_AAAH-PDT-like ACT 81.4 11 0.00023 26.9 7.3 62 49-110 4-69 (75)
129 cd04893 ACT_GcvR_1 ACT domains 81.0 5.2 0.00011 29.0 5.5 64 46-110 3-66 (77)
130 cd04889 ACT_PDH-BS-like C-term 80.1 4.8 0.0001 26.9 4.8 45 49-93 3-47 (56)
131 cd06452 SepCysS Sep-tRNA:Cys-t 80.0 0.76 1.6E-05 43.9 0.9 35 6-42 185-219 (361)
132 cd02116 ACT ACT domains are co 79.3 8 0.00017 24.4 5.7 55 50-105 4-59 (60)
133 cd00609 AAT_like Aspartate ami 77.5 0.5 1.1E-05 44.3 -1.1 66 6-73 188-253 (350)
134 cd04928 ACT_TyrKc Uncharacteri 77.0 18 0.00039 25.7 7.0 62 46-107 3-65 (68)
135 TIGR03576 pyridox_MJ0158 pyrid 76.8 0.74 1.6E-05 44.0 -0.2 59 9-72 191-249 (346)
136 PF03841 SelA: L-seryl-tRNA se 76.3 0.46 9.9E-06 45.2 -1.7 38 3-43 194-231 (367)
137 PF01732 DUF31: Putative pepti 74.7 2.4 5.1E-05 41.0 2.7 23 303-325 351-373 (374)
138 cd04873 ACT_UUR-ACR-like ACT d 74.2 22 0.00048 24.4 7.1 47 47-94 3-49 (70)
139 PRK11790 D-3-phosphoglycerate 74.1 5.7 0.00012 38.9 5.2 69 45-116 339-407 (409)
140 PF12381 Peptidase_C3G: Tungro 73.5 3.6 7.8E-05 36.1 3.2 56 296-353 169-230 (231)
141 PRK11092 bifunctional (p)ppGpp 71.9 13 0.00028 39.0 7.4 71 46-116 628-699 (702)
142 TIGR01437 selA_rel uncharacter 67.2 3.2 6.9E-05 39.9 1.7 33 7-42 194-226 (363)
143 cd04885 ACT_ThrD-I Tandem C-te 65.6 28 0.00061 24.3 6.0 59 49-108 3-62 (68)
144 TIGR00691 spoT_relA (p)ppGpp s 64.8 23 0.00049 37.2 7.5 70 46-115 612-682 (683)
145 TIGR03531 selenium_SpcS O-phos 64.4 2.7 5.8E-05 41.6 0.6 36 7-44 257-293 (444)
146 cd04925 ACT_ACR_2 ACT domain-c 63.9 44 0.00095 23.8 6.9 60 47-107 3-70 (74)
147 cd04882 ACT_Bt0572_2 C-termina 63.5 26 0.00056 23.7 5.4 56 48-107 3-59 (65)
148 cd04900 ACT_UUR-like_1 ACT dom 61.1 56 0.0012 23.1 7.0 45 47-91 4-48 (73)
149 cd04926 ACT_ACR_4 C-terminal 56.8 67 0.0015 22.6 6.9 45 47-92 4-48 (72)
150 PRK13581 D-3-phosphoglycerate 56.7 23 0.0005 35.9 5.8 71 46-117 454-524 (526)
151 cd04904 ACT_AAAH ACT domain of 56.6 69 0.0015 22.8 7.4 61 50-110 6-68 (74)
152 PRK10872 relA (p)ppGpp synthet 55.3 42 0.00091 35.5 7.4 71 46-116 668-740 (743)
153 COG0112 GlyA Glycine/serine hy 54.1 6.4 0.00014 37.9 1.2 40 1-44 209-248 (413)
154 cd01720 Sm_D2 The eukaryotic S 53.9 29 0.00064 25.9 4.5 37 205-241 10-46 (87)
155 cd00600 Sm_like The eukaryotic 51.9 49 0.0011 22.5 5.2 33 210-242 7-39 (63)
156 cd04899 ACT_ACR-UUR-like_2 C-t 51.4 77 0.0017 21.7 6.9 45 47-92 3-47 (70)
157 PF00571 CBS: CBS domain CBS d 51.0 17 0.00036 24.0 2.6 20 307-326 29-48 (57)
158 COG0317 SpoT Guanosine polypho 50.3 61 0.0013 34.0 7.6 71 46-116 629-700 (701)
159 cd01735 LSm12_N LSm12 belongs 49.9 77 0.0017 22.0 5.7 34 209-242 6-39 (61)
160 cd04927 ACT_ACR-like_2 Second 49.1 96 0.0021 22.2 7.2 61 47-107 3-69 (76)
161 cd01731 archaeal_Sm1 The archa 47.5 54 0.0012 23.0 4.9 33 210-242 11-43 (68)
162 cd04906 ACT_ThrD-I_1 First of 46.4 1E+02 0.0022 22.6 6.5 61 46-108 3-65 (85)
163 cd06454 KBL_like KBL_like; thi 45.5 5.2 0.00011 37.6 -0.9 58 9-72 189-248 (349)
164 cd06502 TA_like Low-specificit 45.3 4.3 9.4E-05 38.0 -1.4 59 9-72 183-243 (338)
165 cd00616 AHBA_syn 3-amino-5-hyd 45.3 4.5 9.8E-05 38.1 -1.3 82 12-111 156-254 (352)
166 cd01722 Sm_F The eukaryotic Sm 45.2 54 0.0012 23.1 4.6 32 210-241 12-43 (68)
167 cd06168 LSm9 The eukaryotic Sm 44.6 66 0.0014 23.3 5.0 32 210-241 11-42 (75)
168 cd01726 LSm6 The eukaryotic Sm 44.3 62 0.0014 22.6 4.8 32 210-241 11-42 (67)
169 PRK00737 small nuclear ribonuc 44.0 68 0.0015 22.9 5.0 33 210-242 15-47 (72)
170 cd01730 LSm3 The eukaryotic Sm 43.9 49 0.0011 24.3 4.4 31 210-240 12-42 (82)
171 PRK11589 gcvR glycine cleavage 43.6 65 0.0014 27.9 5.7 66 45-110 96-167 (190)
172 cd01717 Sm_B The eukaryotic Sm 43.6 62 0.0013 23.5 4.8 32 210-241 11-42 (79)
173 TIGR01327 PGDH D-3-phosphoglyc 43.5 49 0.0011 33.6 5.7 70 46-117 453-523 (525)
174 cd01729 LSm7 The eukaryotic Sm 43.2 67 0.0015 23.6 5.0 32 210-241 13-44 (81)
175 PRK14451 acylphosphatase; Prov 42.7 41 0.00088 25.2 3.8 34 84-117 40-73 (89)
176 cd04931 ACT_PAH ACT domain of 42.1 1.5E+02 0.0032 22.3 6.8 65 46-110 16-83 (90)
177 PRK15385 magnesium transport p 42.0 1.4E+02 0.003 26.7 7.6 61 57-117 157-221 (225)
178 cd04930 ACT_TH ACT domain of t 41.6 1.6E+02 0.0034 23.2 7.2 65 46-110 43-109 (115)
179 PF02743 Cache_1: Cache domain 41.4 37 0.00079 24.4 3.4 31 310-351 18-48 (81)
180 PLN02721 threonine aldolase 40.8 6.7 0.00014 37.0 -0.9 28 10-40 196-223 (353)
181 PRK06382 threonine dehydratase 40.6 93 0.002 30.4 7.0 63 46-108 332-399 (406)
182 PRK09331 Sep-tRNA:Cys-tRNA syn 40.4 15 0.00033 35.4 1.5 34 7-42 205-238 (387)
183 PRK14425 acylphosphatase; Prov 40.4 54 0.0012 24.8 4.2 34 84-117 43-76 (94)
184 TIGR00719 sda_beta L-serine de 40.1 64 0.0014 28.3 5.3 49 45-93 149-198 (208)
185 PRK07179 hypothetical protein; 39.9 9.6 0.00021 37.0 0.0 26 11-40 240-265 (407)
186 TIGR00655 PurU formyltetrahydr 39.8 1E+02 0.0022 28.5 6.7 62 46-107 2-66 (280)
187 cd01719 Sm_G The eukaryotic Sm 39.7 87 0.0019 22.4 5.0 32 210-241 11-42 (72)
188 cd01728 LSm1 The eukaryotic Sm 39.6 85 0.0018 22.6 4.9 32 210-241 13-44 (74)
189 PRK06027 purU formyltetrahydro 39.3 99 0.0021 28.7 6.6 70 45-114 7-79 (286)
190 cd01732 LSm5 The eukaryotic Sm 39.1 74 0.0016 23.1 4.6 31 210-240 14-44 (76)
191 PRK02047 hypothetical protein; 38.9 1.5E+02 0.0033 22.2 6.4 69 46-114 18-90 (91)
192 PRK14442 acylphosphatase; Prov 38.2 55 0.0012 24.6 3.9 33 85-117 42-74 (91)
193 PRK13011 formyltetrahydrofolat 37.9 1.2E+02 0.0025 28.2 6.9 67 45-111 8-76 (286)
194 PRK14423 acylphosphatase; Prov 37.8 60 0.0013 24.4 4.1 33 85-117 43-75 (92)
195 cd00615 Orn_deC_like Ornithine 37.6 16 0.00035 33.7 1.2 20 8-27 206-225 (294)
196 PRK15431 ferrous iron transpor 37.3 21 0.00044 26.2 1.4 24 336-359 25-48 (78)
197 smart00651 Sm snRNP Sm protein 37.3 99 0.0021 21.3 5.0 33 210-242 9-41 (67)
198 PRK14421 acylphosphatase; Prov 37.1 66 0.0014 24.7 4.2 34 84-117 41-74 (99)
199 PF02700 PurS: Phosphoribosylf 36.7 1.7E+02 0.0037 21.4 7.5 62 47-114 3-74 (80)
200 PRK14446 acylphosphatase; Prov 36.6 60 0.0013 24.3 3.9 34 84-117 39-72 (88)
201 PRK14440 acylphosphatase; Prov 36.4 57 0.0012 24.5 3.7 32 86-117 42-73 (90)
202 PRK14444 acylphosphatase; Prov 36.1 65 0.0014 24.2 4.1 33 85-117 42-74 (92)
203 PRK14445 acylphosphatase; Prov 35.8 64 0.0014 24.2 4.0 33 85-117 42-74 (91)
204 PRK14430 acylphosphatase; Prov 35.7 66 0.0014 24.2 4.0 33 85-117 42-74 (92)
205 COG0298 HypC Hydrogenase matur 35.6 82 0.0018 23.1 4.2 47 222-270 5-52 (82)
206 PRK14435 acylphosphatase; Prov 35.5 59 0.0013 24.4 3.7 33 85-117 40-72 (90)
207 cd01727 LSm8 The eukaryotic Sm 35.5 1E+02 0.0022 22.1 4.8 32 210-241 10-41 (74)
208 PF14827 Cache_3: Sensory doma 35.4 33 0.00072 26.8 2.5 19 310-328 93-111 (116)
209 TIGR01127 ilvA_1Cterm threonin 34.9 1.4E+02 0.003 28.8 7.1 63 46-108 307-374 (380)
210 PRK14450 acylphosphatase; Prov 34.6 72 0.0016 23.9 4.1 32 86-117 42-73 (91)
211 PTZ00094 serine hydroxymethylt 34.6 34 0.00074 33.9 3.0 29 7-39 231-259 (452)
212 PRK14429 acylphosphatase; Prov 34.2 78 0.0017 23.7 4.2 33 85-117 40-72 (90)
213 PRK14436 acylphosphatase; Prov 34.0 75 0.0016 23.9 4.1 33 85-117 42-74 (91)
214 PF01423 LSM: LSM domain ; In 33.8 1.2E+02 0.0027 20.8 5.0 34 209-242 8-41 (67)
215 PRK14447 acylphosphatase; Prov 33.6 77 0.0017 24.0 4.1 32 86-117 44-75 (95)
216 PRK14428 acylphosphatase; Prov 33.6 79 0.0017 24.1 4.2 34 84-117 45-78 (97)
217 PF00403 HMA: Heavy-metal-asso 32.6 81 0.0018 21.2 3.8 49 55-108 10-59 (62)
218 PF05578 Peptidase_S31: Pestiv 32.4 1.6E+02 0.0034 24.5 5.9 68 258-328 109-183 (211)
219 PRK13580 serine hydroxymethylt 32.4 24 0.00052 35.4 1.4 56 7-67 272-327 (493)
220 PRK14449 acylphosphatase; Prov 32.3 85 0.0018 23.5 4.1 32 86-117 42-73 (90)
221 PRK04366 glycine dehydrogenase 32.3 25 0.00055 35.2 1.6 35 6-40 255-292 (481)
222 cd00378 SHMT Serine-glycine hy 32.1 32 0.00069 33.2 2.3 32 7-42 210-241 (402)
223 cd01721 Sm_D3 The eukaryotic S 32.1 1.3E+02 0.0029 21.2 5.0 32 210-241 11-42 (70)
224 PRK14433 acylphosphatase; Prov 31.8 75 0.0016 23.7 3.7 32 86-117 40-71 (87)
225 PLN02483 serine palmitoyltrans 31.8 15 0.00031 37.0 -0.2 56 11-72 300-357 (489)
226 COG4747 ACT domain-containing 31.4 59 0.0013 25.8 3.1 44 45-88 4-48 (142)
227 PF04455 Saccharop_dh_N: LOR/S 30.9 1.5E+02 0.0033 22.9 5.3 43 69-111 31-74 (103)
228 PRK14437 acylphosphatase; Prov 30.9 80 0.0017 24.7 3.9 34 84-117 60-93 (109)
229 PRK00011 glyA serine hydroxyme 30.7 32 0.00069 33.4 2.0 32 7-42 214-245 (416)
230 cd04614 CBS_pair_1 The CBS dom 30.6 59 0.0013 24.0 3.1 49 306-354 22-70 (96)
231 COG1958 LSM1 Small nuclear rib 30.6 1.2E+02 0.0025 22.0 4.5 33 210-242 18-50 (79)
232 TIGR03403 nifS_epsilon cystein 30.6 44 0.00096 31.9 3.0 22 7-28 187-208 (382)
233 PRK14012 cysteine desulfurase; 30.6 54 0.0012 31.7 3.6 29 9-39 193-221 (404)
234 PRK10534 L-threonine aldolase; 30.4 9 0.00019 35.9 -1.9 80 12-108 187-266 (333)
235 COG0156 BioF 7-keto-8-aminopel 30.3 45 0.00098 32.4 2.9 99 13-117 233-352 (388)
236 PRK07334 threonine dehydratase 30.2 1.8E+02 0.0039 28.3 7.2 63 46-108 328-395 (403)
237 PRK11589 gcvR glycine cleavage 30.1 1.1E+02 0.0024 26.5 5.0 64 45-109 9-72 (190)
238 cd04618 CBS_pair_5 The CBS dom 30.0 76 0.0016 23.6 3.6 50 306-355 22-72 (98)
239 PRK14420 acylphosphatase; Prov 29.9 84 0.0018 23.5 3.8 34 84-117 39-72 (91)
240 cd04912 ACT_AKiii-LysC-EC-like 29.9 2E+02 0.0044 20.3 5.8 51 52-107 12-67 (75)
241 PRK14441 acylphosphatase; Prov 29.6 96 0.0021 23.4 4.1 35 83-117 41-75 (93)
242 TIGR02539 SepCysS Sep-tRNA:Cys 29.1 40 0.00087 32.2 2.4 33 7-41 193-225 (370)
243 PRK14448 acylphosphatase; Prov 29.0 97 0.0021 23.2 4.0 33 85-117 40-72 (90)
244 PRK08198 threonine dehydratase 28.9 2.1E+02 0.0045 27.8 7.4 63 46-108 329-396 (404)
245 PRK14427 acylphosphatase; Prov 27.7 1.1E+02 0.0023 23.2 4.0 33 85-117 44-76 (94)
246 COG1254 AcyP Acylphosphatases 27.7 1.2E+02 0.0026 22.9 4.2 33 85-117 42-74 (92)
247 PRK00907 hypothetical protein; 27.6 1.8E+02 0.0039 22.0 5.1 69 46-114 19-91 (92)
248 PRK14422 acylphosphatase; Prov 27.5 1E+02 0.0022 23.2 3.9 33 85-117 44-76 (93)
249 PRK13010 purU formyltetrahydro 26.9 1.5E+02 0.0032 27.6 5.6 34 45-78 10-43 (289)
250 PRK14438 acylphosphatase; Prov 26.9 1.1E+02 0.0024 22.9 4.0 34 84-117 40-73 (91)
251 cd04929 ACT_TPH ACT domain of 26.7 2.4E+02 0.0052 20.1 6.8 58 51-108 7-66 (74)
252 PF08753 NikR_C: NikR C termin 26.7 1E+02 0.0022 22.4 3.6 34 83-116 41-74 (78)
253 PF03927 NapD: NapD protein; 26.1 1.4E+02 0.003 21.7 4.3 32 85-116 39-71 (79)
254 PRK14426 acylphosphatase; Prov 26.0 1.2E+02 0.0026 22.8 4.0 32 86-117 43-75 (92)
255 TIGR02326 transamin_PhnW 2-ami 26.0 41 0.00088 31.9 1.8 31 10-42 179-209 (363)
256 COG3062 NapD Uncharacterized p 25.9 2E+02 0.0042 21.8 4.9 49 62-116 25-74 (94)
257 TIGR03588 PseC UDP-4-keto-6-de 25.6 50 0.0011 31.6 2.4 28 14-44 175-204 (380)
258 PRK05764 aspartate aminotransf 25.3 16 0.00035 35.1 -1.1 58 11-71 227-284 (393)
259 PF01276 OKR_DC_1: Orn/Lys/Arg 25.3 39 0.00085 33.2 1.5 26 4-29 215-247 (417)
260 cd04627 CBS_pair_14 The CBS do 25.1 51 0.0011 25.3 2.0 21 307-327 98-118 (123)
261 PF06838 Met_gamma_lyase: Meth 25.1 54 0.0012 31.6 2.3 127 6-132 206-358 (403)
262 PF09012 FeoC: FeoC like trans 24.8 27 0.0006 24.5 0.3 23 337-359 24-46 (69)
263 PF14438 SM-ATX: Ataxin 2 SM d 24.4 2.1E+02 0.0045 20.5 4.9 29 210-238 13-44 (77)
264 cd06453 SufS_like Cysteine des 24.3 54 0.0012 31.1 2.3 30 10-42 189-218 (373)
265 PF01732 DUF31: Putative pepti 24.1 87 0.0019 30.1 3.7 23 185-207 35-67 (374)
266 TIGR01822 2am3keto_CoA 2-amino 23.8 32 0.00069 33.0 0.6 27 11-40 229-255 (393)
267 PRK05783 hypothetical protein; 23.8 3.1E+02 0.0067 20.4 6.7 54 46-105 4-63 (84)
268 PRK09977 putative Mg(2+) trans 23.7 2.3E+02 0.0049 25.1 5.9 57 58-115 156-213 (215)
269 PF08669 GCV_T_C: Glycine clea 23.7 1.6E+02 0.0035 21.8 4.4 22 307-328 33-54 (95)
270 PRK02948 cysteine desulfurase; 23.5 63 0.0014 30.8 2.6 29 9-40 187-215 (381)
271 PLN02409 serine--glyoxylate am 23.5 47 0.001 32.2 1.7 30 9-41 188-218 (401)
272 KOG2884 26S proteasome regulat 23.4 57 0.0012 28.8 2.0 72 46-117 61-144 (259)
273 PRK14452 acylphosphatase; Prov 23.2 1.3E+02 0.0027 23.5 3.7 33 85-117 58-90 (107)
274 cd04910 ACT_AK-Ectoine_1 ACT d 23.2 2.3E+02 0.005 20.2 4.8 48 57-109 17-64 (71)
275 PLN02651 cysteine desulfurase 23.1 49 0.0011 31.5 1.7 23 6-28 184-206 (364)
276 PF10049 DUF2283: Protein of u 22.9 57 0.0012 21.5 1.5 12 315-326 36-47 (50)
277 cd04935 ACT_AKiii-DAPDC_1 ACT 22.4 3E+02 0.0064 19.6 5.6 55 52-111 12-71 (75)
278 TIGR01821 5aminolev_synth 5-am 22.2 25 0.00054 34.0 -0.5 55 12-72 237-293 (402)
279 cd04603 CBS_pair_KefB_assoc Th 22.0 71 0.0015 24.0 2.2 21 307-327 86-106 (111)
280 PF09902 DUF2129: Uncharacteri 21.9 1.3E+02 0.0029 21.5 3.3 24 93-116 37-60 (71)
281 cd04620 CBS_pair_7 The CBS dom 21.7 70 0.0015 24.0 2.1 21 307-327 90-110 (115)
282 PF02601 Exonuc_VII_L: Exonucl 21.6 1.1E+02 0.0024 28.6 3.8 35 187-221 281-315 (319)
283 PF01037 AsnC_trans_reg: AsnC 21.3 1.7E+02 0.0037 20.1 4.0 23 96-118 10-32 (74)
284 cd01723 LSm4 The eukaryotic Sm 21.3 3.2E+02 0.0069 19.6 5.8 33 209-241 11-43 (76)
285 COG1828 PurS Phosphoribosylfor 21.2 3.5E+02 0.0076 20.0 7.3 65 46-116 3-77 (83)
286 COG2150 Predicted regulator of 21.1 1.8E+02 0.0039 24.5 4.3 63 51-115 102-165 (167)
287 PF01212 Beta_elim_lyase: Beta 21.1 8.7 0.00019 35.7 -3.8 83 10-111 183-273 (290)
288 PLN02855 Bifunctional selenocy 20.8 71 0.0015 31.1 2.4 30 9-41 222-251 (424)
289 cd06451 AGAT_like Alanine-glyo 20.4 67 0.0015 30.2 2.1 33 7-41 171-203 (356)
290 cd04871 ACT_PSP_2 ACT domains 20.4 81 0.0018 23.2 2.1 57 54-110 10-74 (84)
291 TIGR01979 sufS cysteine desulf 20.1 86 0.0019 30.1 2.8 29 9-40 208-236 (403)
292 PRK13392 5-aminolevulinate syn 20.1 25 0.00054 34.2 -1.0 54 12-71 238-293 (410)
293 PRK14424 acylphosphatase; Prov 20.0 1.6E+02 0.0036 22.2 3.7 32 86-117 46-77 (94)
No 1
>PRK10898 serine endoprotease; Provisional
Probab=100.00 E-value=4.5e-36 Score=285.00 Aligned_cols=208 Identities=35% Similarity=0.471 Sum_probs=176.8
Q ss_pred hhhhhHHHhhhcCCCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCCCCeEEEEecCCcEEEEEEEEE
Q 018198 150 MDELETIRIFEENISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYAQVVGH 229 (359)
Q Consensus 150 ~~~~~~~~~~~~~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~~ 229 (359)
....++.++++++.||||.|................+.||||+|+++||||||+|||.+...+.|++.||+.+++++++.
T Consensus 42 ~~~~~~~~~~~~~~psvV~v~~~~~~~~~~~~~~~~~~GSGfvi~~~G~IlTn~HVv~~a~~i~V~~~dg~~~~a~vv~~ 121 (353)
T PRK10898 42 ETPASYNQAVRRAAPAVVNVYNRSLNSTSHNQLEIRTLGSGVIMDQRGYILTNKHVINDADQIIVALQDGRVFEALLVGS 121 (353)
T ss_pred cccchHHHHHHHhCCcEEEEEeEeccccCcccccccceeeEEEEeCCeEEEecccEeCCCCEEEEEeCCCCEEEEEEEEE
Confidence 33346889999999999999986543221111233578999999999999999999999999999999999999999999
Q ss_pred cCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccCC-cccccEEEEcccCCCCC
Q 018198 230 DQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPG-RLIQGVIQIDASVNLGN 308 (359)
Q Consensus 230 d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~-~~~~~~i~~~~~~~~G~ 308 (359)
|+.+||||||++.. .+++++++++..+++|++|+++|||++...+++.|+|+...+.... ....+++++|+.+++|+
T Consensus 122 d~~~DlAvl~v~~~--~l~~~~l~~~~~~~~G~~V~aiG~P~g~~~~~t~Giis~~~r~~~~~~~~~~~iqtda~i~~Gn 199 (353)
T PRK10898 122 DSLTDLAVLKINAT--NLPVIPINPKRVPHIGDVVLAIGNPYNLGQTITQGIISATGRIGLSPTGRQNFLQTDASINHGN 199 (353)
T ss_pred cCCCCEEEEEEcCC--CCCeeeccCcCcCCCCCEEEEEeCCCCcCCCcceeEEEeccccccCCccccceEEeccccCCCC
Confidence 99999999999875 3788999888889999999999999998889999999988765331 22346899999999999
Q ss_pred ccceeecCCCeEEEEEeeecCC-----CcceeEEEEehHHHHHHHHHHHhcCcccC
Q 018198 309 SGGPLLDSSGSLIGVNTFITSG-----AFSGIGFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 309 SGgPl~~~~G~viGi~~~~~~~-----~~~~~~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
|||||+|.+|+||||+++.... ...+++|+||++.+++++++|+++|++.|
T Consensus 200 SGGPl~n~~G~vvGI~~~~~~~~~~~~~~~g~~faIP~~~~~~~~~~l~~~G~~~~ 255 (353)
T PRK10898 200 SGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPTQLATKIMDKLIRDGRVIR 255 (353)
T ss_pred CcceEECCCCeEEEEEEEEecccCCCCcccceEEEEchHHHHHHHHHHhhcCcccc
Confidence 9999999999999999987532 12579999999999999999999999764
No 2
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=100.00 E-value=7.7e-36 Score=283.62 Aligned_cols=209 Identities=35% Similarity=0.515 Sum_probs=179.2
Q ss_pred chhhhhHHHhhhcCCCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCCCCeEEEEecCCcEEEEEEEE
Q 018198 149 QMDELETIRIFEENISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYAQVVG 228 (359)
Q Consensus 149 ~~~~~~~~~~~~~~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~ 228 (359)
...+.++.++++++.||||.|.......+........+.||||+|+++||||||+|||.++..+.|++.||+.+++++++
T Consensus 41 ~~~~~~~~~~~~~~~psVV~I~~~~~~~~~~~~~~~~~~GSG~vi~~~G~IlTn~HVV~~~~~i~V~~~dg~~~~a~vv~ 120 (351)
T TIGR02038 41 NTVEISFNKAVRRAAPAVVNIYNRSISQNSLNQLSIQGLGSGVIMSKEGYILTNYHVIKKADQIVVALQDGRKFEAELVG 120 (351)
T ss_pred cccchhHHHHHHhcCCcEEEEEeEeccccccccccccceEEEEEEeCCeEEEecccEeCCCCEEEEEECCCCEEEEEEEE
Confidence 34455788999999999999998654433222223467899999999999999999999999999999999999999999
Q ss_pred EcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccCC-cccccEEEEcccCCCC
Q 018198 229 HDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPG-RLIQGVIQIDASVNLG 307 (359)
Q Consensus 229 ~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~-~~~~~~i~~~~~~~~G 307 (359)
.|+.+||||||++... +++++++++..+++|++|+++|||++...+++.|+|+...+.... ....+++++|+.+++|
T Consensus 121 ~d~~~DlAvlkv~~~~--~~~~~l~~s~~~~~G~~V~aiG~P~~~~~s~t~GiIs~~~r~~~~~~~~~~~iqtda~i~~G 198 (351)
T TIGR02038 121 SDPLTDLAVLKIEGDN--LPTIPVNLDRPPHVGDVVLAIGNPYNLGQTITQGIISATGRNGLSSVGRQNFIQTDAAINAG 198 (351)
T ss_pred ecCCCCEEEEEecCCC--CceEeccCcCccCCCCEEEEEeCCCCCCCcEEEEEEEeccCcccCCCCcceEEEECCccCCC
Confidence 9999999999999754 788899888889999999999999998899999999998775432 2235789999999999
Q ss_pred CccceeecCCCeEEEEEeeecC----CCcceeEEEEehHHHHHHHHHHHhcCcccC
Q 018198 308 NSGGPLLDSSGSLIGVNTFITS----GAFSGIGFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 308 ~SGgPl~~~~G~viGi~~~~~~----~~~~~~~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
+|||||+|.+|+||||+++... ....+++|+||++.+++++++++++|++.|
T Consensus 199 nSGGpl~n~~G~vIGI~~~~~~~~~~~~~~g~~faIP~~~~~~vl~~l~~~g~~~r 254 (351)
T TIGR02038 199 NSGGALINTNGELVGINTASFQKGGDEGGEGINFAIPIKLAHKIMGKIIRDGRVIR 254 (351)
T ss_pred CCcceEECCCCeEEEEEeeeecccCCCCccceEEEecHHHHHHHHHHHhhcCcccc
Confidence 9999999999999999987652 223679999999999999999999998754
No 3
>PRK10139 serine endoprotease; Provisional
Probab=100.00 E-value=1.7e-35 Score=289.21 Aligned_cols=205 Identities=37% Similarity=0.579 Sum_probs=177.4
Q ss_pred hHHHhhhcCCCeeEEEEeeeeecC----------Cccc-------ccccceEEEEEEeC-CCEEEecccccCCCCeEEEE
Q 018198 154 ETIRIFEENISSVVWIGNLGIRED----------QSET-------EFLRGSGAGFLWDQ-DGHIVTNYHVICGASTVKVS 215 (359)
Q Consensus 154 ~~~~~~~~~~~svV~I~~~~~~~~----------~~~~-------~~~~~~GsGfii~~-~g~vlT~~Hvv~~~~~~~v~ 215 (359)
++.++++++.||||.|.+...... +++. ....+.||||+|++ +||||||+|||.+...+.|+
T Consensus 41 ~~~~~~~~~~pavV~i~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~GSG~ii~~~~g~IlTn~HVv~~a~~i~V~ 120 (455)
T PRK10139 41 SLAPMLEKVLPAVVSVRVEGTASQGQKIPEEFKKFFGDDLPDQPAQPFEGLGSGVIIDAAKGYVLTNNHVINQAQKISIQ 120 (455)
T ss_pred cHHHHHHHhCCcEEEEEEEEeecccccCchhHHHhccccCCccccccccceEEEEEEECCCCEEEeChHHhCCCCEEEEE
Confidence 588999999999999998653211 1110 12247899999985 79999999999999999999
Q ss_pred ecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccC-Cccc
Q 018198 216 FSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIP-GRLI 294 (359)
Q Consensus 216 ~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~-~~~~ 294 (359)
+.||+.++|++++.|+.+||||||++.+. .+++++|+++..+++|++|+++|||++...+++.|+|+...+... ...+
T Consensus 121 ~~dg~~~~a~vvg~D~~~DlAvlkv~~~~-~l~~~~lg~s~~~~~G~~V~aiG~P~g~~~tvt~GivS~~~r~~~~~~~~ 199 (455)
T PRK10139 121 LNDGREFDAKLIGSDDQSDIALLQIQNPS-KLTQIAIADSDKLRVGDFAVAVGNPFGLGQTATSGIISALGRSGLNLEGL 199 (455)
T ss_pred ECCCCEEEEEEEEEcCCCCEEEEEecCCC-CCceeEecCccccCCCCEEEEEecCCCCCCceEEEEEccccccccCCCCc
Confidence 99999999999999999999999998533 588999999999999999999999999999999999999887532 2234
Q ss_pred ccEEEEcccCCCCCccceeecCCCeEEEEEeeecC--CCcceeEEEEehHHHHHHHHHHHhcCcccC
Q 018198 295 QGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFITS--GAFSGIGFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 295 ~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~~--~~~~~~~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
.+++++|+.+++|+|||||||.+|+||||+++... +...+++|+||++.+++++++|+++|+++|
T Consensus 200 ~~~iqtda~in~GnSGGpl~n~~G~vIGi~~~~~~~~~~~~gigfaIP~~~~~~v~~~l~~~g~v~r 266 (455)
T PRK10139 200 ENFIQTDASINRGNSGGALLNLNGELIGINTAILAPGGGSVGIGFAIPSNMARTLAQQLIDFGEIKR 266 (455)
T ss_pred ceEEEECCccCCCCCcceEECCCCeEEEEEEEEEcCCCCccceEEEEEhHHHHHHHHHHhhcCcccc
Confidence 57899999999999999999999999999998763 345789999999999999999999999875
No 4
>PRK10942 serine endoprotease; Provisional
Probab=100.00 E-value=1.6e-33 Score=276.55 Aligned_cols=205 Identities=37% Similarity=0.560 Sum_probs=176.2
Q ss_pred hHHHhhhcCCCeeEEEEeeeeecC-----------Cccc-----------------------------ccccceEEEEEE
Q 018198 154 ETIRIFEENISSVVWIGNLGIRED-----------QSET-----------------------------EFLRGSGAGFLW 193 (359)
Q Consensus 154 ~~~~~~~~~~~svV~I~~~~~~~~-----------~~~~-----------------------------~~~~~~GsGfii 193 (359)
++.++++++.||||.|.+...... +|.. ....+.||||+|
T Consensus 39 ~~~~~~~~~~pavv~i~~~~~~~~~~~~~~~~~~~ff~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GSG~ii 118 (473)
T PRK10942 39 SLAPMLEKVMPSVVSINVEGSTTVNTPRMPRQFQQFFGDNSPFCQEGSPFQSSPFCQGGQGGNGGGQQQKFMALGSGVII 118 (473)
T ss_pred cHHHHHHHhCCceEEEEEEEeccccCCCCChhHHHhhcccccccccccccccccccccccccccccccccccceEEEEEE
Confidence 589999999999999998653211 0110 012468999999
Q ss_pred eC-CCEEEecccccCCCCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCC
Q 018198 194 DQ-DGHIVTNYHVICGASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLG 272 (359)
Q Consensus 194 ~~-~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~ 272 (359)
++ +||||||+||+.+.+++.|++.|++.+++++++.|+.+||||||++... .++++.|+++..+++|++|+++|+|++
T Consensus 119 ~~~~G~IlTn~HVv~~a~~i~V~~~dg~~~~a~vv~~D~~~DlAvlki~~~~-~l~~~~lg~s~~l~~G~~V~aiG~P~g 197 (473)
T PRK10942 119 DADKGYVVTNNHVVDNATKIKVQLSDGRKFDAKVVGKDPRSDIALIQLQNPK-NLTAIKMADSDALRVGDYTVAIGNPYG 197 (473)
T ss_pred ECCCCEEEeChhhcCCCCEEEEEECCCCEEEEEEEEecCCCCEEEEEecCCC-CCceeEecCccccCCCCEEEEEcCCCC
Confidence 96 5999999999999999999999999999999999999999999997533 588999999899999999999999999
Q ss_pred CCCceeEeEEeeeecccC-CcccccEEEEcccCCCCCccceeecCCCeEEEEEeeecC--CCcceeEEEEehHHHHHHHH
Q 018198 273 WSFTCTTGVISALDREIP-GRLIQGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFITS--GAFSGIGFALPIDTVRGIVD 349 (359)
Q Consensus 273 ~~~~~~~G~vs~~~~~~~-~~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~~--~~~~~~~~aip~~~i~~~l~ 349 (359)
...+++.|+|+...+... ...+.+++++|+.+++|+|||||+|.+|+||||+++... ++..+++|+||++.++++++
T Consensus 198 ~~~tvt~GiVs~~~r~~~~~~~~~~~iqtda~i~~GnSGGpL~n~~GeviGI~t~~~~~~g~~~g~gfaIP~~~~~~v~~ 277 (473)
T PRK10942 198 LGETVTSGIVSALGRSGLNVENYENFIQTDAAINRGNSGGALVNLNGELIGINTAILAPDGGNIGIGFAIPSNMVKNLTS 277 (473)
T ss_pred CCcceeEEEEEEeecccCCcccccceEEeccccCCCCCcCccCCCCCeEEEEEEEEEcCCCCcccEEEEEEHHHHHHHHH
Confidence 989999999999887532 223457899999999999999999999999999998763 34467999999999999999
Q ss_pred HHHhcCcccC
Q 018198 350 QLVKFSRYCN 359 (359)
Q Consensus 350 ~l~~~g~v~~ 359 (359)
+|+++|+++|
T Consensus 278 ~l~~~g~v~r 287 (473)
T PRK10942 278 QMVEYGQVKR 287 (473)
T ss_pred HHHhcccccc
Confidence 9999999875
No 5
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=100.00 E-value=3.6e-33 Score=273.02 Aligned_cols=204 Identities=40% Similarity=0.584 Sum_probs=176.4
Q ss_pred HHHhhhcCCCeeEEEEeeeeecC-------------Ccc-----------cccccceEEEEEEeCCCEEEecccccCCCC
Q 018198 155 TIRIFEENISSVVWIGNLGIRED-------------QSE-----------TEFLRGSGAGFLWDQDGHIVTNYHVICGAS 210 (359)
Q Consensus 155 ~~~~~~~~~~svV~I~~~~~~~~-------------~~~-----------~~~~~~~GsGfii~~~g~vlT~~Hvv~~~~ 210 (359)
+.++++++.||||.|.+...... ++. .....+.||||+|+++||||||+||+.++.
T Consensus 3 ~~~~~~~~~p~vv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GSGfii~~~G~IlTn~Hvv~~~~ 82 (428)
T TIGR02037 3 FAPLVEKVAPAVVNISVEGTVKRRNRPPALPPFFRQFFGDDMPNFPRQQRERKVRGLGSGVIISADGYILTNNHVVDGAD 82 (428)
T ss_pred HHHHHHHhCCceEEEEEEEEecccCCCcccchhHHHhhcccccCcccccccccccceeeEEEECCCCEEEEcHHHcCCCC
Confidence 67899999999999998653211 111 012357899999999999999999999999
Q ss_pred eEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeeccc-
Q 018198 211 TVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREI- 289 (359)
Q Consensus 211 ~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~- 289 (359)
++.|++.|++.++++++..|+.+||||||++.. ..++++.|+++..+++|++|+++|||++...+++.|+|+...+..
T Consensus 83 ~i~V~~~~~~~~~a~vv~~d~~~DlAllkv~~~-~~~~~~~l~~~~~~~~G~~v~aiG~p~g~~~~~t~G~vs~~~~~~~ 161 (428)
T TIGR02037 83 EITVTLSDGREFKAKLVGKDPRTDIAVLKIDAK-KNLPVIKLGDSDKLRVGDWVLAIGNPFGLGQTVTSGIVSALGRSGL 161 (428)
T ss_pred eEEEEeCCCCEEEEEEEEecCCCCEEEEEecCC-CCceEEEccCCCCCCCCCEEEEEECCCcCCCcEEEEEEEecccCcc
Confidence 999999999999999999999999999999875 358999999888999999999999999999999999999987763
Q ss_pred CCcccccEEEEcccCCCCCccceeecCCCeEEEEEeeecC--CCcceeEEEEehHHHHHHHHHHHhcCcccC
Q 018198 290 PGRLIQGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFITS--GAFSGIGFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 290 ~~~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~~--~~~~~~~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
....+..++++|+.+.+|+|||||||.+|+||||+++... +...+++|+||++.+++++++|+++|++.|
T Consensus 162 ~~~~~~~~i~tda~i~~GnSGGpl~n~~G~viGI~~~~~~~~g~~~g~~faiP~~~~~~~~~~l~~~g~~~~ 233 (428)
T TIGR02037 162 GIGDYENFIQTDAAINPGNSGGPLVNLRGEVIGINTAIYSPSGGNVGIGFAIPSNMAKNVVDQLIEGGKVQR 233 (428)
T ss_pred CCCCccceEEECCCCCCCCCCCceECCCCeEEEEEeEEEcCCCCccceEEEEEhHHHHHHHHHHHhcCcCcC
Confidence 2233456899999999999999999999999999988763 345689999999999999999999998864
No 6
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=99.95 E-value=2.9e-30 Score=244.64 Aligned_cols=114 Identities=27% Similarity=0.346 Sum_probs=101.5
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeec-CCCCccchhhhhhhhccceeeeeEeec
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVG-DESGILSRIDGVFTRRNCNIESLGVIG 79 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~-~~G~~lsp~~a~l~~RG~~tl~lr~~~ 79 (359)
+||++|+||++|||||+||+|||++||||+|+|+|+++++.+++ .+....+ ++|++++|+||||++||++||.+||
T Consensus 189 atP~~q~PL~~GaDIVvhSaTKyl~GHsDvl~G~v~~~~~~~~~-~~~~~~~~~~G~~l~p~dA~l~lRGlkTL~~Rm-- 265 (396)
T COG0626 189 ATPVLQRPLELGADIVVHSATKYLGGHSDVLGGVVLTPNEELYE-LLFFAQRANTGAVLSPFDAWLLLRGLRTLALRM-- 265 (396)
T ss_pred ccccccChhhcCCCEEEEeccccccCCcceeeeEEecChHHHHH-HHHHHHHhhcCCCCCHHHHHHHHhccchHHHHH--
Confidence 68999999999999999999999999999999988888887766 3323344 6999999999999999999999999
Q ss_pred ccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcccc
Q 018198 80 LNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPFFL 129 (359)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~li 129 (359)
++| ++|+++|++||++++.|.+|+|. .++++..|++.-
T Consensus 266 ---~~~---------~~nA~~IA~~L~~~p~V~~V~yPgl~shp~he~~~r 304 (396)
T COG0626 266 ---ERH---------NENALKIAEFLADHPKVKKVYYPGLPSHPGHELAKR 304 (396)
T ss_pred ---HHH---------HHHHHHHHHHHhcCCCeEEEECCCCCCCCcHHHHHH
Confidence 999 99999999999999999999997 467777776543
No 7
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=1.1e-25 Score=214.71 Aligned_cols=206 Identities=38% Similarity=0.576 Sum_probs=177.8
Q ss_pred hhHHHhhhcCCCeeEEEEeeeeecC--Cccc----ccccceEEEEEEeCCCEEEecccccCCCCeEEEEecCCcEEEEEE
Q 018198 153 LETIRIFEENISSVVWIGNLGIRED--QSET----EFLRGSGAGFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYAQV 226 (359)
Q Consensus 153 ~~~~~~~~~~~~svV~I~~~~~~~~--~~~~----~~~~~~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v 226 (359)
..+..+++++.|+||.|........ ++.. ....+.||||+++++|||+|+.|++.++.++.+.+.||+.+++++
T Consensus 33 ~~~~~~~~~~~~~vV~~~~~~~~~~~~~~~~~~~~~~~~~~gSg~i~~~~g~ivTn~hVi~~a~~i~v~l~dg~~~~a~~ 112 (347)
T COG0265 33 LSFATAVEKVAPAVVSIATGLTAKLRSFFPSDPPLRSAEGLGSGFIISSDGYIVTNNHVIAGAEEITVTLADGREVPAKL 112 (347)
T ss_pred cCHHHHHHhcCCcEEEEEeeeeecchhcccCCcccccccccccEEEEcCCeEEEecceecCCcceEEEEeCCCCEEEEEE
Confidence 5778899999999999998754321 0000 001479999999989999999999999999999999999999999
Q ss_pred EEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecc-cCC-cccccEEEEcccC
Q 018198 227 VGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDRE-IPG-RLIQGVIQIDASV 304 (359)
Q Consensus 227 ~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~-~~~-~~~~~~i~~~~~~ 304 (359)
++.|+..|+|++|++.... ++.+.++++..++.|+++.++|+|++...+++.|+++...+. ... ..+.++||+|+.+
T Consensus 113 vg~d~~~dlavlki~~~~~-~~~~~~~~s~~l~vg~~v~aiGnp~g~~~tvt~Givs~~~r~~v~~~~~~~~~IqtdAai 191 (347)
T COG0265 113 VGKDPISDLAVLKIDGAGG-LPVIALGDSDKLRVGDVVVAIGNPFGLGQTVTSGIVSALGRTGVGSAGGYVNFIQTDAAI 191 (347)
T ss_pred EecCCccCEEEEEeccCCC-CceeeccCCCCcccCCEEEEecCCCCcccceeccEEeccccccccCcccccchhhccccc
Confidence 9999999999999998654 788899999999999999999999999999999999999886 221 2256789999999
Q ss_pred CCCCccceeecCCCeEEEEEeeecCCC--cceeEEEEehHHHHHHHHHHHhcCcccC
Q 018198 305 NLGNSGGPLLDSSGSLIGVNTFITSGA--FSGIGFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 305 ~~G~SGgPl~~~~G~viGi~~~~~~~~--~~~~~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
++|+||||++|.+|++|||++...... ..+++|+||.+.++.++++++++|++.|
T Consensus 192 n~gnsGgpl~n~~g~~iGint~~~~~~~~~~gigfaiP~~~~~~v~~~l~~~G~v~~ 248 (347)
T COG0265 192 NPGNSGGPLVNIDGEVVGINTAIIAPSGGSSGIGFAIPVNLVAPVLDELISKGKVVR 248 (347)
T ss_pred CCCCCCCceEcCCCcEEEEEEEEecCCCCcceeEEEecHHHHHHHHHHHHHcCCccc
Confidence 999999999999999999999998432 3579999999999999999999887764
No 8
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=99.94 E-value=6.4e-28 Score=220.13 Aligned_cols=114 Identities=23% Similarity=0.236 Sum_probs=101.2
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee-------------------------------eEEEE
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR-------------------------------HTISV 49 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~-------------------------------~~l~~ 49 (359)
+||+++||+++|||||+||+||||+||+..|||+|++...+.|. +.+..
T Consensus 187 atpyl~rP~~hGADIVvHS~TK~igGhGt~iGG~iVD~G~FDw~~~~rfP~~~~p~p~YhGl~~~~~~g~~af~~~~r~~ 266 (426)
T COG2873 187 ATPYLCRPIEHGADIVVHSATKYIGGHGTAIGGVIVDGGKFDWTANGRFPEFTTPDPSYHGLVYTETFGNAAFIIKARVQ 266 (426)
T ss_pred CcceecchhhcCCCEEEEeecccccCCccccceEEEeCCccccccCCCCcccCCCCccccceehhhhcccHHHHHHHHHH
Confidence 58999999999999999999999999999999999987655443 11234
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCccc
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPFF 128 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~l 128 (359)
..+++|.+||||++|+++.|++||+||| ++| ++|+++|++||++||+|.+|+|. .++++..+++-
T Consensus 267 ~lRDlGa~lsPfnAfl~lqGlETL~LRm-----erH---------~~NA~~vA~~L~~HpkV~~V~YpgL~~~~~h~la~ 332 (426)
T COG2873 267 LLRDLGATLSPFNAFLLLQGLETLSLRM-----ERH---------CENALKVAEFLENHPKVAWVNYPGLASHPYHALAK 332 (426)
T ss_pred HHHhcccccCcHHHHHHHhchhhhHHHH-----HHH---------HHhHHHHHHHHhcCCCeeeeecCCCCCCcchhHHH
Confidence 6789999999999999999999999999 999 99999999999999999999998 46777777753
No 9
>KOG0053 consensus Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=99.93 E-value=1.1e-27 Score=224.34 Aligned_cols=117 Identities=26% Similarity=0.276 Sum_probs=107.3
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++|+||.||||||+||+||||+||||+|+|+++.+.+++++ .++.+++.+|++++|++||+..||++|++|||
T Consensus 202 ~~p~~~~pL~lGADIV~hSaTKyi~Ghsdvi~G~iv~n~~~~~~-~l~~~~~~lg~~~~p~~~~ll~Rglktl~lRi--- 277 (409)
T KOG0053|consen 202 GSPYNQDPLPLGADIVVHSATKYIGGHSDVIGGSVVLNSEELAS-RLKFLQEDLGWCEDPFDLFLLSRGLKTLHLRI--- 277 (409)
T ss_pred CcccccChhhcCCCEEEEeeeeeecCCcceeeeEEecCcHHHHH-HHHHHHHHhcCCCCHHHHHHHhcCcchhhhhH---
Confidence 58999999999999999999999999999999999999777776 67788899999999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcccccCC
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPFFLPCS 132 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~li~~~ 132 (359)
++| .+++.++|+||+++++|.+|+|. .++++..++..-...
T Consensus 278 --~~~---------~ena~~~A~~Le~~~~v~kv~YPgL~Shp~h~~~~~~~~ 319 (409)
T KOG0053|consen 278 --NKH---------SENALKIALLLEAHPKVKKVYYPGLPSHPNHELAKRQKK 319 (409)
T ss_pred --HHH---------HHHHHHHHHHhhhCCceeEEEcCCCCCCccHHHHHhhhc
Confidence 999 99999999999999999999998 467888888764333
No 10
>PF01053 Cys_Met_Meta_PP: Cys/Met metabolism PLP-dependent enzyme; InterPro: IPR000277 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. A number of pyridoxal-dependent enzymes involved in the metabolism of cysteine, homocysteine and methionine have been shown [, ] to be evolutionary related. These enzymes are proteins of about 400 amino-acid residues. The pyridoxal-P group is attached to a lysine residue located in the central section of these enzymes.; GO: 0030170 pyridoxal phosphate binding, 0006520 cellular amino acid metabolic process; PDB: 1PFF_A 2NMP_A 3ELP_B 3COG_C 1CS1_A 1E5E_B 3RI6_A 1E5F_A 2FQ6_B 1CL2_B ....
Probab=99.91 E-value=2.1e-26 Score=220.63 Aligned_cols=112 Identities=28% Similarity=0.362 Sum_probs=94.4
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecc-ccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeec
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNS-ERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIG 79 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~-~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~ 79 (359)
+||++|+||++|||||+||+|||++||||+|+|++++++ +.+.. .++...+.+|++++|++||++.||++||.+||
T Consensus 181 atp~~~~pL~~GaDivv~S~TKyl~Ghsdv~~G~vv~~~~~~~~~-~l~~~~~~~G~~~~p~da~ll~rgl~Tl~~R~-- 257 (386)
T PF01053_consen 181 ATPYNQNPLELGADIVVHSATKYLSGHSDVMGGAVVVNGSSELYD-RLREFRRLLGATLSPFDAWLLLRGLRTLPLRM-- 257 (386)
T ss_dssp THTTTC-GGGGT-SEEEEETTTTTTTSSSE-EEEEEESSHHHHHH-HHHHHHHHHT-B--HHHHHHHHHHHTTHHHHH--
T ss_pred cceeeeccCcCCceEEEeeccccccCCcceeeEEEEECchhhhhh-hhcchhhhcCccchHHHHHHHhcCCCcHHHHH--
Confidence 589999999999999999999999999999999999887 45543 45677889999999999999999999999999
Q ss_pred ccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 80 LNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ ++++++|++||+++|.|.+|+|. .++++..++.
T Consensus 258 ---~~~---------~~nA~~lA~~L~~hp~V~~V~yPgl~s~p~~~~~ 294 (386)
T PF01053_consen 258 ---ERQ---------NENAEALAEFLEEHPKVKRVYYPGLPSHPQHELA 294 (386)
T ss_dssp ---HHH---------HHHHHHHHHHHHTSTTEEEEEETTSTTSTTHHHH
T ss_pred ---HHH---------HHHHHHHHHHHHhCCCCCeEEEcccccccceeee
Confidence 999 99999999999999999999997 3556655554
No 11
>PRK08114 cystathionine beta-lyase; Provisional
Probab=99.90 E-value=1.8e-25 Score=214.63 Aligned_cols=110 Identities=16% Similarity=0.205 Sum_probs=97.2
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++|+|++||||+++||+|||++||||+++|+++.+++. ++ .+......+|++++|++|||++||++||.+||
T Consensus 189 a~p~~~~pl~~GaDivv~S~tKyl~Ghsdv~~G~v~~~~~~-~~-~l~~~~~~~G~~~~p~~a~l~~rgl~TL~lR~--- 263 (395)
T PRK08114 189 AAGVLFKALDFGIDISIQAGTKYLVGHSDAMIGTAVANARC-WE-QLRENSYLMGQMVDADTAYMTSRGLRTLGVRL--- 263 (395)
T ss_pred ccccccCHHHcCCcEEEEcCcccccCCCcceeEEEEcCHHH-HH-HHHHHHHhccCCCCHHHHHHHHcCCCcHHHHH---
Confidence 47999999999999999999999999999999988776553 33 34456778999999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
++| ++++.+|++||++||.|.+|+|. .++++..++
T Consensus 264 --~~~---------~~na~~va~~L~~hp~V~~V~yPgl~~~p~~~~ 299 (395)
T PRK08114 264 --RQH---------EESSLKVAEWLAEHPEVARVNHPALPGCKGHEF 299 (395)
T ss_pred --HHH---------HHHHHHHHHHHHcCCCEeEEECCCCCCCccHHH
Confidence 999 99999999999999999999996 356666654
No 12
>PRK05967 cystathionine beta-lyase; Provisional
Probab=99.90 E-value=2.8e-25 Score=213.53 Aligned_cols=111 Identities=20% Similarity=0.283 Sum_probs=98.0
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++|+|++||||||+||+|||++||||+++|+++.+++ +++ .+....+++|++++|++||+++||++||.+||
T Consensus 189 a~p~~~~pl~~GaDivv~S~tKy~~Gh~d~~~G~v~~~~~-~~~-~l~~~~~~~G~~~~p~da~l~~rgl~Tl~lR~--- 263 (395)
T PRK05967 189 ATPLYFRPLDFGVDISIHAATKYPSGHSDILLGTVSANEK-CWP-QLLEAHGTLGLCAGPDDTYQILRGLRTMGIRL--- 263 (395)
T ss_pred cCceecChhHcCCCEEEEecccccCCCCCeeEEEEEcCHH-HHH-HHHHHHHHcCCCCCHHHHHHHHcCcccHHHHH---
Confidence 4799999999999999999999999999999998877654 333 34456778999999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
++| ++++.+|++||+++|.|.+|+|. ..+++..+++
T Consensus 264 --~~~---------~~na~~lA~~L~~hp~v~~V~yPgl~s~p~~~~~ 300 (395)
T PRK05967 264 --EHH---------RKSALEIARWLEGRPDVARVLHPALPSFPGHEIW 300 (395)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCCcEEECCCCCCCccHHHH
Confidence 999 99999999999999999999997 3566666654
No 13
>PRK09028 cystathionine beta-lyase; Provisional
Probab=99.89 E-value=6.3e-25 Score=211.39 Aligned_cols=111 Identities=23% Similarity=0.235 Sum_probs=97.4
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|+.|+|+++|||+++||+|||++||||+|+|+++.+++ +++ .+......+|++++|++|||+.||++||++||
T Consensus 186 a~p~~~~Pl~~GaDivv~S~tK~l~Gh~d~~~G~~~~~~~-~~~-~l~~~~~~~G~~~~p~~a~l~~rgl~TL~lR~--- 260 (394)
T PRK09028 186 ASPINSRPFEMGVDISIQAATKYIVGHSDVMLGTATANEK-HWD-QLREHSYLMGQCTSPDDVYLAMRGLRTLGVRL--- 260 (394)
T ss_pred cccccCCccccCceEEEEeCCeEecCCCCEEEEEEECCHH-HHH-HHHHHHHhcCCCCCHHHHHHHHcccCcHHHHH---
Confidence 4789999999999999999999999999999998765544 333 34456678899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
++| ++++.+|++||+++|.|.+|+|. .++++..+++
T Consensus 261 --~~~---------~~na~~la~~L~~~p~v~~V~yPgl~s~p~~~~~ 297 (394)
T PRK09028 261 --AQH---------EKNALKVANWLATRPEVDHVRHPAFETCPGHEFF 297 (394)
T ss_pred --HHH---------HHHHHHHHHHHhcCCCccEEECCCCCCCccHHHH
Confidence 999 99999999999999999999997 3567776654
No 14
>PRK08861 cystathionine gamma-synthase; Provisional
Probab=99.86 E-value=3.2e-23 Score=199.65 Aligned_cols=112 Identities=22% Similarity=0.285 Sum_probs=99.8
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|||+++||+|||++||+|+++|+++++++++++ .+..+...+|.+++|++||+++||++||.+||
T Consensus 178 ~~~~~~~pl~~GaDivv~S~tK~l~G~~d~~gG~i~~~~~~~~~-~~~~~~~~~G~~~~p~~a~l~~rgl~Tl~lR~--- 253 (388)
T PRK08861 178 LTPVLQKPLELGADFVIHSTTKYINGHSDVIGGVLITKTKEHAE-ELAWWGNCIGATGTPFDSYMTLRGIRTLGARM--- 253 (388)
T ss_pred cccccCCCcccCCCEEEeecceeccCCCcceeEEEEecHHHHHH-HHHHHHhccCCCCChHHHHHHHhcCCCHHHHH---
Confidence 36889999999999999999999999999999999887766654 45567778899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
++| ++++.+|++||+++|.|.+|+|. .++++..+++
T Consensus 254 --~~~---------~~~a~~~a~~L~~~p~v~~V~yP~l~~~p~~~~~ 290 (388)
T PRK08861 254 --RVH---------EESAQQILAYLQTQSLVGTIYHPSLPEHPGHEIA 290 (388)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCeeEEECCCCCCCchHHHH
Confidence 999 99999999999999999999997 4566666553
No 15
>PRK06702 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.85 E-value=1.7e-22 Score=196.30 Aligned_cols=112 Identities=17% Similarity=0.207 Sum_probs=93.5
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee------------------------------eEEEEe
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR------------------------------HTISVF 50 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~------------------------------~~l~~~ 50 (359)
+||++++|+++|||||+||+|||++||+|+++|++++...+-|. +.....
T Consensus 187 ~tP~~~~pl~~GADIvv~S~TKy~~Ghsd~l~G~v~~~~~~~w~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 266 (432)
T PRK06702 187 ATPYLCQAFEHGANIIVHSTTKYIDGHASSLGGIVIDGGNFDWTNGKYPELVEPDPSYHGVSYVQNFGAAAYIVKARVQL 266 (432)
T ss_pred CchhhCChhhcCCCEEEEccccccCCCcceeceEEEeCCCcccccccccccccccccccccchhhccchhhHHHHHHHHH
Confidence 58999999999999999999999999999999999854432110 001134
Q ss_pred ecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCc
Q 018198 51 VGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEP 126 (359)
Q Consensus 51 ~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el 126 (359)
.++.|.+++|++||+++||++||.+|| +++ .+|+++|++||++++.|.+|+|.. .+++..++
T Consensus 267 ~~~~g~~~sp~~a~l~~rgL~Tl~lR~-----~r~---------~~Na~~la~~L~~~p~V~~V~yPgl~~~p~~~l 329 (432)
T PRK06702 267 LRDYGNCMSPFNAYISNIGLETLHLRM-----ERH---------SENALAVAKWLADHERIEWVNYPGLDSNENYSL 329 (432)
T ss_pred HHHccCCCCHHHHHHHHhccCcHHHHH-----HHH---------HHHHHHHHHHHHhCCCcceEECCCCCCCccHHH
Confidence 567899999999999999999999999 999 999999999999999999998863 45555544
No 16
>PRK05613 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.80 E-value=1.4e-20 Score=183.84 Aligned_cols=113 Identities=20% Similarity=0.224 Sum_probs=94.2
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceee----------------------------------E
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRH----------------------------------T 46 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~----------------------------------~ 46 (359)
++|..++|+++|||++++|+|||++||+|++||+++++.+..|+. .
T Consensus 195 a~g~~~~p~~~GaDivv~S~~K~l~G~gd~~gG~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 274 (437)
T PRK05613 195 ATAALVRPLELGADVVVASLTKFYTGNGSGLGGVLIDGGKFDWTVERDGKPVFPYFVTPDPAYHGLKYADLGAPAFGLKA 274 (437)
T ss_pred ccccccChHHhCCCEEEeeccceecCCCcceeEEEEecCcccccccccccccCCCCCCCccccccccccccchHHHHHHH
Confidence 368889999999999999999999999999999998654321100 0
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCC
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLE 125 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~e 125 (359)
+....+++|++++|++|||++||++||.+|| +++ ++++++|++||+++|.|.+|+|. ..+++..+
T Consensus 275 ~~~~~~~~G~~~~p~~a~l~~rgl~TL~lR~-----~~~---------~~nA~~lA~~L~~hp~V~~V~yPgl~~~p~~~ 340 (437)
T PRK05613 275 RAGLLRDTGATLSPFNAWVTAQGLDTLSLRL-----ERH---------NENAIKVAEFLNNHEKVAKVNFAGLKDSPWYA 340 (437)
T ss_pred HHHHHHhcCCCCCHHHHHHHHcccCcHHHHH-----HHH---------HHHHHHHHHHHHcCCCcceEECCCCCCCccHH
Confidence 1134567899999999999999999999999 999 99999999999999999999996 34556555
Q ss_pred cc
Q 018198 126 PF 127 (359)
Q Consensus 126 l~ 127 (359)
+.
T Consensus 341 ~~ 342 (437)
T PRK05613 341 TK 342 (437)
T ss_pred HH
Confidence 43
No 17
>TIGR01324 cysta_beta_ly_B cystathionine beta-lyase, bacterial. This model represents cystathionine beta-lyase (alternate name: beta-cystathionase), one of several pyridoxal-dependent enzymes of cysteine, methionine, and homocysteine metabolism. This enzyme is involved in the biosynthesis of Met from Cys.
Probab=99.79 E-value=9.3e-21 Score=182.26 Aligned_cols=110 Identities=18% Similarity=0.237 Sum_probs=97.4
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|+++||+|||++||+|+++|+++++++.+. .+.....++|.+++|++||+.+||++|+.+||
T Consensus 175 a~g~~~~pl~~gaDivv~S~tK~l~G~~d~~gG~v~~~~~~~~--~l~~~~~~~G~~l~p~~a~~~~rgl~tl~~R~--- 249 (377)
T TIGR01324 175 AAGLLFKPLEHGVDISIQAGTKYLVGHSDIMIGTVVANARTWD--QLREHSYLMGQMVDADDAYTTLRGLRTLGVRL--- 249 (377)
T ss_pred ccccccCccccCceEEEecCceeccCCCCceEEEEEeCHHHHH--HHHHHHHHhCCCCCHHHHHHHHhhhhhHHHHH---
Confidence 4688999999999999999999999999999999988776543 23345678899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ ++++.++++||++++.|.+|+|. .++++..++
T Consensus 250 --~~~---------~~~a~~la~~L~~~p~v~~v~yp~l~~~p~~~~ 285 (377)
T TIGR01324 250 --KQH---------QESSLAIAKWLSEQPEVARVLHPALPSCPGHEF 285 (377)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCcCEEECCCCCCCccHHH
Confidence 999 99999999999999999999997 356666665
No 18
>PRK06434 cystathionine gamma-lyase; Validated
Probab=99.78 E-value=2.2e-20 Score=179.53 Aligned_cols=102 Identities=22% Similarity=0.300 Sum_probs=93.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|+.++|+++|+|+++||+|||++||+|++||+|+++++++++ .++.+++++|..++|++||+.+||++||.+||
T Consensus 186 ~s~~~~~pl~~gaDivv~S~tK~i~G~~d~~gG~vv~~~~~~~~-~~~~~~~~~G~~~~~~~A~l~~~gL~tL~~R~--- 261 (384)
T PRK06434 186 ASPYNQNPLDLGADVVIHSATKYISGHSDVVMGVAGTNNKSIFN-NLVERRKTLGSNPDPIQAYLALRGLKTLGLRM--- 261 (384)
T ss_pred CCcccCCchhcCCCEEEeecccccCCCCCceEEEEecCcHHHHH-HHHHHHHhcCCCCCHHHHHHHHhCCCcHHHHH---
Confidence 47999999999999999999999999999999999987776654 34445568899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+++ ++++++++++|+.+|.|.+|+|.
T Consensus 262 --~r~---------~~~a~~~a~~L~~~p~v~~V~yP 287 (384)
T PRK06434 262 --EKH---------NKNGMELARFLRDSKKISNVYYP 287 (384)
T ss_pred --HHH---------HHHHHHHHHHHHcCCCccEEECC
Confidence 999 99999999999999999999995
No 19
>PRK07812 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.78 E-value=6.7e-20 Score=178.98 Aligned_cols=114 Identities=25% Similarity=0.292 Sum_probs=95.3
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee-----------------------------eEEEEee
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR-----------------------------HTISVFV 51 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~-----------------------------~~l~~~~ 51 (359)
++|++++|+++|||+++||+|||++||||+++|+++.+...-++ +.+....
T Consensus 195 a~~~~~~pl~~GaDivv~S~tK~lgg~G~~i~G~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 274 (436)
T PRK07812 195 ATPYLIRPLEHGADIVVHSATKYLGGHGTAIAGVIVDGGTFDWTQGRFPGFTTPDPSYHGVVFAELGPPAYALKARVQLL 274 (436)
T ss_pred cccccCCchhcCCCEEEEecccccCCCCCeEEEEEEcCCccccccccccccccCCcccccchhhhcchhHHHHHHHHHHH
Confidence 46899999999999999999999999999999999865431100 0011346
Q ss_pred cCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCccc
Q 018198 52 GDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPFF 128 (359)
Q Consensus 52 ~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~l 128 (359)
+++|++++|++||+++||++||.+|| +++ ++++++|+++|+++|.|.+|+|. ..+++..++..
T Consensus 275 ~~~G~~l~p~~a~l~~rgl~tL~~R~-----~~~---------~~nA~~la~~L~~~p~v~~V~yPgl~s~p~~~~~~ 338 (436)
T PRK07812 275 RDLGSAISPFNAFLIAQGLETLSLRI-----ERH---------VANAQRVAEFLEARDEVASVNYAGLPSSPWYERAK 338 (436)
T ss_pred HhcCCCCCHHHHHHHhcCcCcHHHHH-----HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHHH
Confidence 68899999999999999999999999 999 99999999999999999999886 35666666543
No 20
>PRK07269 cystathionine gamma-synthase; Reviewed
Probab=99.77 E-value=3.6e-20 Score=177.50 Aligned_cols=102 Identities=31% Similarity=0.443 Sum_probs=92.7
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|||+++||+|||++||+|+++|+|+++++++++ .+...+...|.+++|++||+.+||++||.+||
T Consensus 176 ~~~~~~~pl~~gaDivv~S~tK~l~g~~d~~gG~v~~~~~~l~~-~~~~~~~~~G~~~s~~~a~l~~~~L~tL~~r~--- 251 (364)
T PRK07269 176 YSPIYQRPIELGADIVLHSATKYLSGHNDVLAGVVVTNDLELYE-KLFYNLNTTGAVLSPFDSYLLMRGLKTLSLRM--- 251 (364)
T ss_pred cccccCCchhhCCcEEEecCceeccCCCcccceEEEeCcHHHHH-HHHHHHHHhCCCCCHHHHHHHHcCCCcHHHHH---
Confidence 47899999999999999999999999999999999988776655 33445557799999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+++ +++++++++||++++.|.+|.|.
T Consensus 252 --~~~---------~~na~~~a~~L~~~p~v~~v~yp 277 (364)
T PRK07269 252 --ERS---------TANAQEVVAFLKKSPAVKEVLYT 277 (364)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCccEEeCC
Confidence 999 99999999999999999999985
No 21
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=6.2e-18 Score=161.97 Aligned_cols=205 Identities=36% Similarity=0.451 Sum_probs=167.0
Q ss_pred CchhhhhHHHhhhcCCCeeEEEEeeeeecC--Ccc-cccccceEEEEEEeCCCEEEecccccCCCC-----------eEE
Q 018198 148 LQMDELETIRIFEENISSVVWIGNLGIRED--QSE-TEFLRGSGAGFLWDQDGHIVTNYHVICGAS-----------TVK 213 (359)
Q Consensus 148 ~~~~~~~~~~~~~~~~~svV~I~~~~~~~~--~~~-~~~~~~~GsGfii~~~g~vlT~~Hvv~~~~-----------~~~ 213 (359)
.+.....+.++.++-..|+|.|+...-... ++. .+.+...||||+++.+|.++||+||+.... .+.
T Consensus 123 ~~k~~~~v~~~~~~cd~Avv~Ie~~~f~~~~~~~e~~~ip~l~~S~~Vv~gd~i~VTnghV~~~~~~~y~~~~~~l~~vq 202 (473)
T KOG1320|consen 123 PRKYKAFVAAVFEECDLAVVYIESEEFWKGMNPFELGDIPSLNGSGFVVGGDGIIVTNGHVVRVEPRIYAHSSTVLLRVQ 202 (473)
T ss_pred chhhhhhHHHhhhcccceEEEEeeccccCCCcccccCCCcccCccEEEEcCCcEEEEeeEEEEEEeccccCCCcceeeEE
Confidence 344456778899999999999997432211 122 256788999999999999999999985322 366
Q ss_pred EEecCC--cEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccCC
Q 018198 214 VSFSDQ--STFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPG 291 (359)
Q Consensus 214 v~~~~g--~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~ 291 (359)
+...+| ++.++.+...|+..|+|+++++.+....++++++.+..+..|+++..+|.|++...+.+.|.++...|....
T Consensus 203 i~aa~~~~~s~ep~i~g~d~~~gvA~l~ik~~~~i~~~i~~~~~~~~~~G~~~~a~~~~f~~~nt~t~g~vs~~~R~~~~ 282 (473)
T KOG1320|consen 203 IDAAIGPGNSGEPVIVGVDKVAGVAFLKIKTPENILYVIPLGVSSHFRTGVEVSAIGNGFGLLNTLTQGMVSGQLRKSFK 282 (473)
T ss_pred EEEeecCCccCCCeEEccccccceEEEEEecCCcccceeecceeeeecccceeeccccCceeeeeeeecccccccccccc
Confidence 777665 889999999999999999999765544788888888999999999999999999999999999988876551
Q ss_pred ------cccccEEEEcccCCCCCccceeecCCCeEEEEEeeecC--CCcceeEEEEehHHHHHHHHHHH
Q 018198 292 ------RLIQGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFITS--GAFSGIGFALPIDTVRGIVDQLV 352 (359)
Q Consensus 292 ------~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~~--~~~~~~~~aip~~~i~~~l~~l~ 352 (359)
....+.+++|+.+.+|+||+|++|.+|++||+++.... +-..+++|++|.+.+...+.+..
T Consensus 283 lg~~~g~~i~~~~qtd~ai~~~nsg~~ll~~DG~~IgVn~~~~~ri~~~~~iSf~~p~d~vl~~v~r~~ 351 (473)
T KOG1320|consen 283 LGLETGVLISKINQTDAAINPGNSGGPLLNLDGEVIGVNTRKVTRIGFSHGISFKIPIDTVLVIVLRLG 351 (473)
T ss_pred cCcccceeeeeecccchhhhcccCCCcEEEecCcEeeeeeeeeEEeeccccceeccCchHhhhhhhhhh
Confidence 34557899999999999999999999999999888762 22357899999999998888774
No 22
>PRK05939 hypothetical protein; Provisional
Probab=99.76 E-value=3.2e-19 Score=172.79 Aligned_cols=112 Identities=21% Similarity=0.201 Sum_probs=91.2
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccc-c------ee-------------eEEEEeecCCCCccch
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSER-V------QR-------------HTISVFVGDESGILSR 60 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~-~------~~-------------~~l~~~~~~~G~~lsp 60 (359)
++|+.++|+++|+|+++||+|||++||+|+++|+++.+... + .. +......+++|++++|
T Consensus 171 a~~~~~~~~~~gaDivv~S~sK~~~g~g~~igg~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~p 250 (397)
T PRK05939 171 TSPWLFRPKDVGASLVINSLSKYIAGHGNALGGAVTDTGLFDWSAYPNIFPAYRKGDPQQWGLTQIRKKGLRDMGATLSS 250 (397)
T ss_pred ccccccCccccCCEEEEecCeecccCCCCeEEEEEecCcccccccccchhhhhhccchhhHHHHHHHHHHHHhcCCCCCH
Confidence 36888999999999999999999999999999998754321 0 00 0001123478999999
Q ss_pred hhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 61 IDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 61 ~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
++|||+.||++||.+|| ++| .+++++|++||+++|.|.+|+|. .++++..++
T Consensus 251 ~~a~l~~rgl~tl~~R~-----~~~---------~~na~~la~~L~~~p~V~~V~yP~l~~~p~~~~ 303 (397)
T PRK05939 251 EAAHRIAIGAETLALRV-----DRS---------CSNALALAQFLEAHPKVARVYYPGLASHPQHAR 303 (397)
T ss_pred HHHHHHHcCcCcHHHHH-----HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCchHHH
Confidence 99999999999999999 999 99999999999999999999996 245555444
No 23
>PRK08045 cystathionine gamma-synthase; Provisional
Probab=99.75 E-value=1.2e-19 Score=175.19 Aligned_cols=112 Identities=25% Similarity=0.306 Sum_probs=98.5
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|+.++|+++|||+++||+|||++||+|+++|.++++++.+.+ .+....++.|.+++|+++|+++||++||.+||
T Consensus 177 ~~~~~~~pl~~gaDivv~S~tK~l~G~~d~~~G~vi~~~~~~~~-~l~~~~~~~g~~~~p~~~~l~~rgl~tl~~R~--- 252 (386)
T PRK08045 177 LSPALQNPLALGADLVLHSCTKYLNGHSDVVAGVVIAKDPDVVT-ELAWWANNIGVTGGAFDSYLLLRGLRTLVPRM--- 252 (386)
T ss_pred CccccCCchhhCCCEEEeecceeccCCCCceeEEEEeCcHHHHH-HHHHHHHhcCCCCCHHHHHHHHhhhccHHHHH---
Confidence 36788999999999999999999999999999999886665544 34556788899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ ++++++|++||++++.|.+|+|. ..+++..+++
T Consensus 253 --~~~---------~~na~~la~~L~~~p~v~~V~yp~l~~~p~~~~~ 289 (386)
T PRK08045 253 --ELA---------QRNAQAIVKYLQTQPLVKKLYHPSLPENQGHEIA 289 (386)
T ss_pred --HHH---------HHHHHHHHHHHHcCCCEeEEECCCCCCCcCHHHH
Confidence 999 99999999999999999999997 3566666653
No 24
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.75 E-value=1.7e-19 Score=176.27 Aligned_cols=114 Identities=28% Similarity=0.293 Sum_probs=95.5
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee-------------------------------eEEEE
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR-------------------------------HTISV 49 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~-------------------------------~~l~~ 49 (359)
++|+.++|+++|+|+++||+|||++||||.+||+++.+.+..+. ..+..
T Consensus 189 a~~~~~~pl~~gaDivv~S~tK~lgg~g~~~Gg~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 268 (431)
T PRK08248 189 ASPYLLRPIEHGADIVVHSATKFIGGHGTSIGGVIVDSGKFDWKGSGKFPGLTEPDPSYHGLVYTDAVGEAAYITKARVQ 268 (431)
T ss_pred CccccCChhHcCCCEEEEcCccccCCCCCceEEEEEeCCccccccccccccccCCccccccchhhhhhchhhHHHHHHHH
Confidence 36889999999999999999999999999999998875543210 00112
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCccc
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPFF 128 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~l 128 (359)
...++|++|+|++||+++||++||.+|| +++ ++++++|+++|++++.|.+|+|. ..+++..+++.
T Consensus 269 ~~~~~G~~l~p~~a~l~~rgl~tl~~R~-----~~~---------~~nA~~la~~L~~~p~v~~V~yPgl~s~p~~~~~~ 334 (431)
T PRK08248 269 LLRDLGAALSPFNSFLLLQGLETLHLRM-----ERH---------SENALAVAKFLEEHEAVEWVSYPGLPSHPSYELAK 334 (431)
T ss_pred HHHhcCCCCCHHHHHHHhcCcCcHHHHH-----HHH---------HHHHHHHHHHHHhCCCcceEECCCCCCCccHHHHH
Confidence 4567899999999999999999999999 999 99999999999999999999986 35666666543
No 25
>PRK06084 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.73 E-value=1e-18 Score=170.54 Aligned_cols=114 Identities=23% Similarity=0.286 Sum_probs=93.9
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccc-ceee--E---E--------------------------E
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSER-VQRH--T---I--------------------------S 48 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~-~~~~--~---l--------------------------~ 48 (359)
++|++++|+++|+|+++||+|||++||+|++||+++.+... +... . + .
T Consensus 183 a~~~~~~p~~~gaDivv~S~tK~l~G~g~~~gG~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 262 (425)
T PRK06084 183 ATPVLCRPFEHGADIVVHSLTKYIGGHGTSIGGIVVDSGKFPWAEHKERFALLNTPDPSYHGVTYTEAFGPAAFIGRCRV 262 (425)
T ss_pred cccccCChhhcCCCEEEECchhcccccccceeEEEEeCCccchhhccccccccccCCcccccchhhhhcchHHHHHHHHH
Confidence 46889999999999999999999999999999999875431 1100 0 0 0
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
.....+|+.|+|++||+++||++||.+|| +++ ++++++++++|++++.|.+|+|. ..+++..++.
T Consensus 263 ~~~~~~g~~l~~~~a~l~lrgl~tl~~R~-----~~~---------~~na~~la~~L~~~p~v~~V~yP~l~~~p~~~~~ 328 (425)
T PRK06084 263 VPLRNMGAALSPFNAFLILQGLETLALRM-----ERH---------TENALKVARYLQQHPQVAWVKYAGLPDHPEHELA 328 (425)
T ss_pred HHHHhcCCCCCHHHHHHHHcCcCcHHHHH-----HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCcccHHHH
Confidence 11346899999999999999999999999 999 99999999999999999999986 3566666654
Q ss_pred c
Q 018198 128 F 128 (359)
Q Consensus 128 l 128 (359)
.
T Consensus 329 ~ 329 (425)
T PRK06084 329 R 329 (425)
T ss_pred H
Confidence 3
No 26
>PF13365 Trypsin_2: Trypsin-like peptidase domain; PDB: 1Y8T_A 2Z9I_A 3QO6_A 1L1J_A 1QY6_A 2O8L_A 3OTP_E 2ZLE_I 1KY9_A 3CS0_A ....
Probab=99.72 E-value=3.2e-17 Score=131.71 Aligned_cols=109 Identities=36% Similarity=0.508 Sum_probs=74.8
Q ss_pred EEEEEEeCCCEEEecccccC--------CCCeEEEEecCCcEEE--EEEEEEcCC-CCEEEEEEcCCCCCccceEecCCC
Q 018198 188 GAGFLWDQDGHIVTNYHVIC--------GASTVKVSFSDQSTFY--AQVVGHDQV-NDLAVLHIDAPNHELRPIHVSVSA 256 (359)
Q Consensus 188 GsGfii~~~g~vlT~~Hvv~--------~~~~~~v~~~~g~~~~--~~v~~~d~~-~DlAll~v~~~~~~~~~~~l~~~~ 256 (359)
||||+|+++|+||||+||+. ....+.+...++.... ++++..++. .|+|||+++
T Consensus 1 GTGf~i~~~g~ilT~~Hvv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~All~v~--------------- 65 (120)
T PF13365_consen 1 GTGFLIGPDGYILTAAHVVEDWNDGKQPDNSSVEVVFPDGRRVPPVAEVVYFDPDDYDLALLKVD--------------- 65 (120)
T ss_dssp EEEEEEETTTEEEEEHHHHTCCTT--G-TCSEEEEEETTSCEEETEEEEEEEETT-TTEEEEEES---------------
T ss_pred CEEEEEcCCceEEEchhheecccccccCCCCEEEEEecCCCEEeeeEEEEEECCccccEEEEEEe---------------
Confidence 89999999899999999998 4567888888888888 999999999 999999999
Q ss_pred CCCCCCEEEEEecCCCCCCceeEeEEeeeecccCCcccccEEEEcccCCCCCccceeecCCCeEEEE
Q 018198 257 DLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPGRLIQGVIQIDASVNLGNSGGPLLDSSGSLIGV 323 (359)
Q Consensus 257 ~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi 323 (359)
.....+.. ......................+ +++.+.+|+|||||||.+|+||||
T Consensus 66 ------~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~G~SGgpv~~~~G~vvGi 120 (120)
T PF13365_consen 66 ------PWTGVGGG-----VRVPGSTSGVSPTSTNDNRMLYI-TDADTRPGSSGGPVFDSDGRVVGI 120 (120)
T ss_dssp ------CEEEEEEE-----EEEEEEEEEEEEEEEEETEEEEE-ESSS-STTTTTSEEEETTSEEEEE
T ss_pred ------cccceeee-----eEeeeeccccccccCcccceeEe-eecccCCCcEeHhEECCCCEEEeC
Confidence 00000000 00000000000000000001114 799999999999999999999997
No 27
>PRK07050 cystathionine beta-lyase; Provisional
Probab=99.72 E-value=6.8e-19 Score=170.47 Aligned_cols=102 Identities=16% Similarity=0.165 Sum_probs=93.3
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|+++||+|||++||+|+++|+++++++.+++ .++.+.+.+|+.++|+++|+++||++|+.+||
T Consensus 190 a~~~~~~~l~~GaDi~v~S~tK~~~g~~~~~gG~v~~~~~~~~~-~~~~~~~~~G~~~~~~~a~l~lr~l~tl~~Rl--- 265 (394)
T PRK07050 190 SAGLAFKPFEHGVDISVQALTKYQSGGSDVLMGATITADAELHA-KLKLARMRLGIGVSADDCSLVLRGLPSLQVRL--- 265 (394)
T ss_pred ccccccCHHHcCCeEEEEECCceecCCCCeeEEEEEECCHHHHH-HHHHHHHhcCCCCCHHHHHHHHcCCCcHHHHH---
Confidence 46889999999999999999999999999999999988777655 44556677899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+++ ++++.+|++||++++.|.+|+|.
T Consensus 266 --~~~---------~~~a~~la~~L~~~p~v~~v~~p 291 (394)
T PRK07050 266 --AAH---------DRSALEVAEWLKARPEIATVLHP 291 (394)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCccEEECC
Confidence 999 99999999999999999999985
No 28
>PRK07810 O-succinylhomoserine sulfhydrylase; Provisional
Probab=99.71 E-value=7.8e-19 Score=170.50 Aligned_cols=111 Identities=18% Similarity=0.223 Sum_probs=97.4
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|+++||+|||++||||++||+|+++++.+.+ .+..+.+++|..++|++||+.+||++|+.+||
T Consensus 195 a~~~~~~~~~~gaDivv~S~tK~l~g~g~~~gG~v~~~~~~~~~-~l~~~~~~~g~~~s~~~a~l~l~~L~tl~~R~--- 270 (403)
T PRK07810 195 ATPLLQRGLPLGADVVVYSGTKHIDGQGRVLGGAILGDREYIDG-PVQKLMRHTGPALSAFNAWVLLKGLETLALRV--- 270 (403)
T ss_pred CccccCChhhcCCcEEEccCCceecCCcCceeEEEEeChHHHHH-HHHHHHHHhCCCCCHHHHHHHHhccCcHHHHH---
Confidence 46889999999999999999999999999999999988765543 34445678899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .++++++++||++++.|.+|+|. ..+++..++
T Consensus 271 --~~~---------~~~a~~~a~~L~~~p~v~~V~yP~l~~~p~~~~ 306 (403)
T PRK07810 271 --RHS---------NASALRIAEFLEGHPAVRWVRYPFLPSHPQYDL 306 (403)
T ss_pred --HHH---------HHHHHHHHHHHhcCCCccEEECCCCCCCccHHH
Confidence 999 99999999999999999999996 345565554
No 29
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=99.70 E-value=3.7e-17 Score=119.94 Aligned_cols=74 Identities=27% Similarity=0.378 Sum_probs=70.1
Q ss_pred eeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEE-CChhHHHHHHHHHhhhhceeeeeec
Q 018198 44 RHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 44 ~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+|+++.+++|..|+|+++.+.|.+||||+.||.+++++ ++.+||||+++ +|++.++||.|||+|+++|.+|..+
T Consensus 2 k~~isvlVeN~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~~~d~~~ieqI~kQL~KlidVikV~~~ 77 (84)
T PRK13562 2 TRILKLQVADQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVDIQDDTSLHILIKKLKQQINVLTVECY 77 (84)
T ss_pred cEEEEEEEECCCCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEeCCCHHHHHHHHHHHhCCccEEEEEEe
Confidence 57899999999999999999999999999999999877 88999999998 9999999999999999999999943
No 30
>PRK08574 cystathionine gamma-synthase; Provisional
Probab=99.70 E-value=1.6e-18 Score=167.43 Aligned_cols=111 Identities=22% Similarity=0.269 Sum_probs=96.0
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|+.++|+++|+|++++|+|||++||+|++||+++++++.+.+ .+..+.+.+|..++|++||+.+||++++.+||
T Consensus 177 a~~~~~~~l~~GaDivv~S~sK~l~g~~d~~gG~vi~~~~~~~~-~~~~~~~~~g~~~~p~~a~l~l~~l~tL~~R~--- 252 (385)
T PRK08574 177 ATPLLYRPLRHGADFVVHSLTKYIAGHNDVVGGVAVAWSGEFLE-ELWEWRRRLGTIMQPFEAYLVLRGLKTLEVRF--- 252 (385)
T ss_pred CccccCChhhhCCcEEEeeCceeecCCCCceeEEEEECcHHHHH-HHHHHHHhcCCCCCHHHHHHHHcccCcHHHHH---
Confidence 46888999999999999999999999999999987776666654 34445666899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .++++++++||++++.|.+|+|. ..+++.+++
T Consensus 253 --~~~---------~~na~~la~~L~~~p~v~~V~yP~l~~~~~~~~ 288 (385)
T PRK08574 253 --ERQ---------CRNAMAIAEFLSEHPKVAEVYYPGLPSDPYHGV 288 (385)
T ss_pred --HHH---------HHHHHHHHHHHHcCCCcCEEECCCCCCCchHHH
Confidence 999 99999999999999999999996 345555444
No 31
>PRK08134 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.70 E-value=2.1e-18 Score=168.54 Aligned_cols=113 Identities=22% Similarity=0.230 Sum_probs=92.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceee-------------------------------EEEE
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRH-------------------------------TISV 49 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~-------------------------------~l~~ 49 (359)
++|++++|+++|||+++||+|||++||+|++||+++......+.. .+..
T Consensus 189 a~~~~~~pl~~GaD~vv~S~tK~l~g~g~~~gG~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 268 (433)
T PRK08134 189 TTPYLLRPFEHGADLVYHSATKFLGGHGTAIGGVLVDGGRFDWEASGKFPELTEPYAGFHGMVFAEESTVAAFLLRARRE 268 (433)
T ss_pred cccccCCchhcCCCEEEeccccccCCCCCceEEEEEecCccccccccccccccCCcccccccchhhccchhHHHHHHHHH
Confidence 478999999999999999999999999999999988543211100 0001
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
..+++|++++|++||+++||++||.+|| +++ .+++.+++++|++++.|.+|.|. ..+++..++.
T Consensus 269 ~~~~~G~~ls~~~A~l~~~gL~tl~~R~-----~~~---------~~nA~~la~~L~~~p~V~~V~yP~l~~~p~~~~~ 333 (433)
T PRK08134 269 GLRDFGACLSPMNAWQLLQGIETLPLRM-----ERH---------VANTRKVVAFLASHPAVARVAHPELESHPDHALA 333 (433)
T ss_pred HHHhcCCCCCHHHHHHHhcCCCcHHHHH-----HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHH
Confidence 2357899999999999999999999999 999 99999999999999999999886 3455655543
No 32
>PLN02509 cystathionine beta-lyase
Probab=99.70 E-value=1.7e-18 Score=169.79 Aligned_cols=112 Identities=34% Similarity=0.454 Sum_probs=97.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|+++||+|||++||+|+++|+++++++.+.+ .+..+.+..|+.++|++||+.+||++||.+||
T Consensus 257 a~~~~~~pl~~gaDivv~S~tK~l~G~gdv~gG~v~~~~~~l~~-~~~~~~~~~g~~l~p~~A~l~lr~L~tL~~R~--- 332 (464)
T PLN02509 257 MSPVLSRPLELGADIVMHSATKFIAGHSDVMAGVLAVKGEKLAK-EVYFLQNSEGSGLAPFDCWLCLRGIKTMALRI--- 332 (464)
T ss_pred cccccCChhhcCCcEEEecCcccccCCCccceeEEEeccHHHHH-HHHHHHHhcCCCcCHHHHHHHHhhhhhHHHHH---
Confidence 46888999999999999999999999999999999987766544 33345555688899999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .++++.++++|+++|.|.+|+|. .++++..+++
T Consensus 333 --~r~---------~~nA~~la~~L~~~p~V~~V~yPgL~~~p~~~l~ 369 (464)
T PLN02509 333 --EKQ---------QENARKIAMYLSSHPRVKKVYYAGLPDHPGHHLH 369 (464)
T ss_pred --HHH---------HHHHHHHHHHHhcCCCccEEECCCCCCCccHHHH
Confidence 999 99999999999999999999997 4566666654
No 33
>TIGR02080 O_succ_thio_ly O-succinylhomoserine (thiol)-lyase. This family consists of O-succinylhomoserine (thiol)-lyase, one of three different enzymes designated cystathionine gamma-synthase and involved in methionine biosynthesis. In all three cases, sulfur is added by transsulfuration from Cys to yield cystathionine rather than by a sulfhydrylation step that uses H2S directly and bypasses cystathionine.
Probab=99.70 E-value=2.3e-18 Score=166.18 Aligned_cols=111 Identities=24% Similarity=0.315 Sum_probs=98.2
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+|++++|+|||++||+|+++|.++++++.+.+ .+..+...+|.+++|+++|+++||++||.+||
T Consensus 177 ~~~~~~pl~~gaDivv~S~sK~l~G~~~~~~G~i~~~~~~~~~-~l~~~~~~~g~~~sp~~a~l~lr~l~tl~~R~---- 251 (382)
T TIGR02080 177 SPALQNPLALGADLVLHSCTKYLNGHSDVIAGAVIAKDPQVAE-ELAWWANNLGVTGGAFDSYLTLRGLRTLVARM---- 251 (382)
T ss_pred ccccCCchhhCCCEEEeecceeccCCCCceeEEEEeCCHHHHH-HHHHHHHccCCCCCHHHHHHHHcccchHHHHH----
Confidence 5778899999999999999999999999999998887766654 44556677899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .+++.++++||++++.|.+|+|. ..+++..+++
T Consensus 252 -~~~---------~~na~~~a~~L~~~p~v~~V~yP~l~~~~~~~~~ 288 (382)
T TIGR02080 252 -RLQ---------QRNAQAIVEYLQTQPLVKKIYYPGLPDHPGHEIA 288 (382)
T ss_pred -HHH---------HHHHHHHHHHHHhCCCeeEEECCCCCCCccHHHH
Confidence 999 99999999999999999999997 3566666654
No 34
>PRK05994 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=99.69 E-value=9.2e-18 Score=164.19 Aligned_cols=113 Identities=21% Similarity=0.228 Sum_probs=92.7
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccc-ceee------------------------------EEEE
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSER-VQRH------------------------------TISV 49 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~-~~~~------------------------------~l~~ 49 (359)
++|+.++|+++|+|+++||+|||++||+|++||+++..... |... ....
T Consensus 188 a~~~~~~pl~~gaDivv~S~tK~lgg~~~~~gG~v~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 267 (427)
T PRK05994 188 ASPYLIRPIEHGADIVVHSLTKFLGGHGNSMGGIIVDGGTFDWSKSGKYPMLSEPRPEYHGLVLHETFGNFAFAIAARVL 267 (427)
T ss_pred cccccCCccccCCcEEEEcCccccCCCCCcEEEEEEeCCccccccccccccccCCcchhhhhhHHHHhhhhhhHHHHHHH
Confidence 46889999999999999999999999999999998853321 1100 0011
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCcc
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEPF 127 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el~ 127 (359)
..+++|..|+|++||+.+||++||.+|| +++ ++++++++++|+++|.|.+|+|.. .+++..++.
T Consensus 268 ~~~~~G~~~~~~~A~l~~~~l~tL~~r~-----~~~---------~~~a~~la~~L~~~p~v~~v~yP~l~~~~~~~~~ 332 (427)
T PRK05994 268 GLRDLGPAISPFNAFLILTGIETLPLRM-----QRH---------SDNALAVAEWLKGHPKVSWVNYAGLPDDPYHALA 332 (427)
T ss_pred HHHhcCCCCCHHHHHHHHcCcccHHHHH-----HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHH
Confidence 2457899999999999999999999999 999 999999999999999999998863 455555553
No 35
>PRK06176 cystathionine gamma-synthase/cystathionine beta-lyase; Validated
Probab=99.69 E-value=3.2e-18 Score=165.06 Aligned_cols=111 Identities=28% Similarity=0.382 Sum_probs=96.7
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|++++|+|||++||+|+++|+++++++.+.+ .+..+++..|..++|+++|+..||++|+.+||
T Consensus 174 a~~~~~~p~~~gaDivv~S~tK~l~g~~d~~gG~vv~~~~~~~~-~~~~~~~~~G~~~~~~~~~l~~~gl~tl~~R~--- 249 (380)
T PRK06176 174 ATPYYQNPLLLGADIVVHSGTKYLGGHSDVVAGLVTTNNEALAQ-EIAFFQNAIGGVLGPQDSWLLQRGIKTLGLRM--- 249 (380)
T ss_pred cccccCCccccCCCEEEecCceeccCCccceeeEEEecHHHHHH-HHHHHHHHhcCCCCHHHHHHHHhccCcHHHHH---
Confidence 36788999999999999999999999999999999987766654 44556677799999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEP 126 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el 126 (359)
+++ ++++.++++||++++.|.+|+|.. .+++..++
T Consensus 250 --~~~---------~~~a~~la~~L~~~p~v~~v~~p~l~~~~~~~~ 285 (380)
T PRK06176 250 --EAH---------QKNALCVAEFLEKHPKVEKVYYPGLPTHPNHEL 285 (380)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCeeEEECCCCCCCccHHH
Confidence 999 899999999999999999999862 45555554
No 36
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=99.67 E-value=2.2e-16 Score=114.79 Aligned_cols=74 Identities=32% Similarity=0.512 Sum_probs=69.8
Q ss_pred eeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 44 RHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 44 ~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+|++..+++|.+|+|+++.+.|.+||||+.||.+++++ ++.+||||++.++++.++||.+||+|++||.+|.++
T Consensus 2 ~~tisi~v~n~pGVL~Ri~~lf~rRgfNI~Sl~vg~te~~~~sriti~~~~~~~~i~qi~kQL~KLidV~~V~~~ 76 (76)
T PRK06737 2 SHTFSLVIHNDPSVLLRISGIFARRGYYISSLNLNERDTSGVSEMKLTAVCTENEATLLVSQLKKLINVLQVNKL 76 (76)
T ss_pred eEEEEEEEecCCCHHHHHHHHHhccCcceEEEEecccCCCCeeEEEEEEECCHHHHHHHHHHHhCCcCEEEEEeC
Confidence 47899999999999999999999999999999998877 788999999999999999999999999999999863
No 37
>COG0440 IlvH Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]
Probab=99.67 E-value=3.4e-16 Score=128.82 Aligned_cols=92 Identities=38% Similarity=0.539 Sum_probs=86.6
Q ss_pred ceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-C
Q 018198 42 VQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-S 119 (359)
Q Consensus 42 ~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~ 119 (359)
.++|.++.++.|..|+|++..++|.+||||+.||.+++++ ++.+||||++.+|+..++||.|||+|++||.+|.++. .
T Consensus 2 ~m~rilsvlv~ne~GvLsRv~glfsrRG~NIeSltv~~tE~~~~SRiTivv~g~~~~~EQi~kQL~kLidV~kV~d~~~~ 81 (163)
T COG0440 2 PMRRILSLLVENEPGVLSRVTGLFSRRGYNIESLTVGPTETPGLSRITIVVSGDEQVLEQIIKQLNKLIDVLKVLDLTSE 81 (163)
T ss_pred CceEEEEEEEECCCCeeehhhHHHHhcCcccceEEEEecCCCCceEEEEEEcCCcchHHHHHHHHHhhccceeEEEcCCc
Confidence 3567999999999999999999999999999999999877 7789999999999999999999999999999999995 6
Q ss_pred CCCCCCcccccCCC
Q 018198 120 SSSSLEPFFLPCSG 133 (359)
Q Consensus 120 ~~~~~el~li~~~~ 133 (359)
.+..||++|+|+.+
T Consensus 82 ~~veRel~LiKv~~ 95 (163)
T COG0440 82 PHVERELALIKVSA 95 (163)
T ss_pred chhheeeEEEEEec
Confidence 89999999999985
No 38
>PRK07582 cystathionine gamma-lyase; Validated
Probab=99.66 E-value=9.1e-18 Score=161.29 Aligned_cols=111 Identities=21% Similarity=0.215 Sum_probs=97.0
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+|++++|+|||++||+|+++|.++++++++.+ .+..++...|+.++|+++|+.+||++|+.+||
T Consensus 173 ~~~~~~p~~~g~Divv~S~sK~l~G~~g~~~G~v~~~~~~l~~-~l~~~~~~~g~~~~~~~a~l~~r~l~tl~~R~---- 247 (366)
T PRK07582 173 TPLGQRPLELGADLVVASDTKALTGHSDLLLGYVAGRDPELMA-AVERWRLLAGAIPGPFEAWLAHRSLGTLGLRF---- 247 (366)
T ss_pred CccccCchhcCCcEEEecccccccCCCCeeEEEEEcCcHHHHH-HHHHHHHHhCCCCCHHHHHHHHhccccHHHHH----
Confidence 5778899999999999999999999999999998886655544 44556678899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCcc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEPF 127 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el~ 127 (359)
+++ +++++++++||++++.|.+|+|.. .+++..+++
T Consensus 248 -~~~---------~~na~~la~~L~~~p~v~~v~yp~l~~~p~~~~~ 284 (366)
T PRK07582 248 -ARQ---------CANALAVAELLAGHPAVRGVRYPGLPGDPAHEVA 284 (366)
T ss_pred -HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHH
Confidence 999 999999999999999999999973 566655543
No 39
>PRK07671 cystathionine beta-lyase; Provisional
Probab=99.66 E-value=1.1e-17 Score=161.25 Aligned_cols=111 Identities=26% Similarity=0.355 Sum_probs=96.9
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|++++|+++|+|++++|+|||++||+|+++|.++++++.+.+ .+..++...|++++|++||+++||++|+.+||
T Consensus 175 ~~~~~~p~~~g~Divv~S~sK~l~G~~~~~~G~~v~~~~~l~~-~~~~~~~~~g~~~~~~~a~l~~~~l~tl~~R~---- 249 (377)
T PRK07671 175 TPYWQSPISLGADIVLHSATKYLGGHSDVVAGLVVVNSPELAE-DLHFVQNSTGGILGPQDSWLLLRGLKTLGIRM---- 249 (377)
T ss_pred ccccCChhhhCCeEEEecCcccccCCccceeEEEEeCcHHHHH-HHHHHHHhhcCCCCHHHHHHHHcCcChHHHHH----
Confidence 5788999999999999999999999999999998887766654 44556677799999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCcc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEPF 127 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el~ 127 (359)
+++ +++++.|++||++++.|.+|+|.. .+++..+++
T Consensus 250 -~~~---------~~na~~la~~L~~~~~v~~v~~p~l~~~~~~~~~ 286 (377)
T PRK07671 250 -EEH---------ETNSRAIAEFLNNHPAVNKVYYPGLPSHPNHELA 286 (377)
T ss_pred -HHH---------HHHHHHHHHHHHcCCCeeEEECCCCCCCccHHHH
Confidence 999 999999999999999999998863 455555543
No 40
>TIGR01329 cysta_beta_ly_E cystathionine beta-lyase, eukaryotic. This model represents cystathionine beta-lyase (alternate name: beta-cystathionase), one of several pyridoxal-dependent enzymes of cysteine, methionine, and homocysteine metabolism. This enzyme is involved in the biosynthesis of Met from Cys.
Probab=99.65 E-value=1.9e-17 Score=159.75 Aligned_cols=112 Identities=29% Similarity=0.413 Sum_probs=97.4
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|+.++|+++|+|++++|+|||++||+|+++|+++++++.+.+ .+..+++..|..++|++||+++||++|+.+|+
T Consensus 171 ~~~~~~~~l~~g~Di~v~S~tK~l~G~~~~~~G~v~~~~~~~~~-~~~~~~~~~G~~~~~~~a~l~~~~l~tl~~R~--- 246 (378)
T TIGR01329 171 MSPLLCNPLELGADIVYHSATKFLAGHSDVMAGVLAVKGEEIAK-KVYFLQNSTGSGLAPFDCWLLLRGIKTLAIRI--- 246 (378)
T ss_pred cccccCChhhcCCcEEEEecceeccCCccceeEEEEeCcHHHHH-HHHHHHHhcCCcCCHHHHHHHHccCCCHHHHH---
Confidence 36888999999999999999999999999999999887766644 34455566899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .+++++|++||++++.|.+|.|. .++++..++.
T Consensus 247 --e~~---------~~na~~la~~L~~~~~v~~v~~p~l~~~p~~~l~ 283 (378)
T TIGR01329 247 --EKQ---------QENARAIAMFLSTHPRVKKVRYAGLPSHPGFHLH 283 (378)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHH
Confidence 999 99999999999999999999886 3566666553
No 41
>PRK08776 cystathionine gamma-synthase; Provisional
Probab=99.64 E-value=3.3e-17 Score=159.17 Aligned_cols=111 Identities=23% Similarity=0.302 Sum_probs=96.8
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|..++|+++|||++++|+|||++||+|+++|.++++++++.+ .+.......|..++|+++|+.+||++++.+||
T Consensus 186 ~~~~~~pl~~gaDivv~S~tK~l~g~~~~~~G~vv~~~~~l~~-~l~~~~~~~g~~~s~~~a~l~~~gl~tl~~r~---- 260 (405)
T PRK08776 186 SPALQKPLEFGADLVLHSTTKYINGHSDVVGGAVVARDAELHQ-QLVWWANALGLTGSPFDAFLTLRGLRTLDARL---- 260 (405)
T ss_pred ccccCCcccccCCEEEecCceeecCCCCceEEEEEeCCHHHHH-HHHHHHHhcCCCCCHHHHHHHHhhhCcHHHHH----
Confidence 5778899999999999999999999999999999887766654 34445566788999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .++++++++||++++.|.+|.|. ..+++..++.
T Consensus 261 -~~~---------~~na~~la~~L~~~p~v~~V~yP~l~~~~~~~~~ 297 (405)
T PRK08776 261 -RVH---------QENADAIAALLDGHAAVNQVYYPGLASHPGHALA 297 (405)
T ss_pred -HHH---------HHHHHHHHHHHHcCCCeeEEECCCCCCCcCHHHH
Confidence 999 99999999999999999999997 3566666553
No 42
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=99.63 E-value=7.4e-16 Score=115.99 Aligned_cols=75 Identities=29% Similarity=0.531 Sum_probs=69.9
Q ss_pred eeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc
Q 018198 43 QRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ 118 (359)
Q Consensus 43 ~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~ 118 (359)
.+++++.+++|.+|+|+++.+.|.+||||+.||.+++++ ++.+||||++. +++.++||.|||+|++||.+|.++.
T Consensus 7 ~~~tisvlv~N~pGVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~-~~~~i~Qi~kQL~KLidVikV~~l~ 82 (96)
T PRK08178 7 DNVILELTVRNHPGVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVN-DDQRLEQMISQIEKLEDVLKVRRNQ 82 (96)
T ss_pred CCEEEEEEEECCcCHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEc-CchHHHHHHHHHhCCcCEEEEEECC
Confidence 347899999999999999999999999999999998877 77899999998 5789999999999999999999985
No 43
>PRK07504 O-succinylhomoserine sulfhydrylase; Reviewed
Probab=99.61 E-value=6.3e-17 Score=157.07 Aligned_cols=110 Identities=16% Similarity=0.228 Sum_probs=96.2
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|++++|+++|+|++++|+|||++||||.+||+++++++.+.+ .+..+.++.|..++|++||+.+||++|+.+|+
T Consensus 191 ~~~~~~~~~~gaDivv~S~sK~l~g~g~~~GG~vv~~~~~i~~-~~~~~~~~~g~~~s~~~A~~~l~~L~tl~~R~---- 265 (398)
T PRK07504 191 TPLFQKPLELGAHIVVYSATKHIDGQGRCLGGVVLSDKAWIEE-HLQDYFRHTGPSLSPFNAWTLLKGLETLPVRV---- 265 (398)
T ss_pred ccccCCchhhCCCEEEeeccccccCCccceEEEEEeCcHHHHH-HHHHHHHHhCCCCCHHHHHHHHhccchHHHHH----
Confidence 5788999999999999999999999999999999887765543 34445677899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .++++++++||++++.|.+|+|. ..+++..++
T Consensus 266 -~~~---------~~na~~la~~L~~~p~v~~v~yp~l~~~~~~~~ 301 (398)
T PRK07504 266 -RQQ---------TESAAAIADFLAGHPKVARVIYPGRADHPQADI 301 (398)
T ss_pred -HHH---------HHHHHHHHHHHHcCCCccEEECCCCCCCccHHH
Confidence 999 99999999999999999999997 345555544
No 44
>PRK07049 methionine gamma-lyase; Validated
Probab=99.60 E-value=1.4e-16 Score=155.89 Aligned_cols=109 Identities=23% Similarity=0.276 Sum_probs=94.4
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+||++||+|||++||+|+++|.++++.+ +.+ .+.......|++++|+++|+++||++++.+||
T Consensus 221 ~~~~~~pl~~g~divv~S~SK~~gG~~glr~G~vv~~~~-l~~-~l~~~~~~~g~~ls~~~a~l~~r~L~tl~~R~---- 294 (427)
T PRK07049 221 GPVFQKPLEHGADLSVYSLTKYVGGHSDLVAGAVLGRKA-LIR-QVRALRSAIGTQLDPHSCWMLGRSLETLVLRM---- 294 (427)
T ss_pred ccccCCccccCCCEEEEcCceeecCCCCcEEEEEECCHH-HHH-HHHHHHHhcCCCCCHHHHHHHHcCCChHHHHH----
Confidence 678899999999999999999999999999999987654 333 34456677899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-c--CCCCCCCc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-Q--SSSSSLEP 126 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~--~~~~~~el 126 (359)
+++ .+++++|+++|++++.|.+|+|. . ++++..++
T Consensus 295 -~~~---------~~~a~~la~~L~~~p~V~~v~yp~~l~~~~~~~~~ 332 (427)
T PRK07049 295 -ERA---------NRNARAVAEFLRDHPKVEKLHYLPFLDPDSAYGAV 332 (427)
T ss_pred -HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCCCccHHH
Confidence 899 99999999999999999999996 2 45554444
No 45
>TIGR01325 O_suc_HS_sulf O-succinylhomoserine sulfhydrylase. This model describes O-succinylhomoserine sulfhydrylase, one of several related pyridoxal phosphate-dependent enzymes of cysteine and methionine metabolism. This enzyme is part of an alternative pathway of homocysteine biosynthesis, a step in methionine biosynthesis.
Probab=99.60 E-value=1.3e-16 Score=154.05 Aligned_cols=109 Identities=23% Similarity=0.268 Sum_probs=95.1
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+|++++|+|||++||+|.+||+++++++.+. .+....+..|..++|+++|+++||++|+.+|+
T Consensus 180 ~~~~~~pl~~g~Divv~S~sK~l~g~g~~~gG~vv~~~~~~~--~l~~~~~~~g~~~~p~~a~~~l~~l~tl~~r~---- 253 (380)
T TIGR01325 180 TPVLQQPLKLGADVVVYSATKHIDGQGRVMGGVIAGSEELMA--EVAVYLRHTGPAMSPFNAWVLLKGLETLSLRM---- 253 (380)
T ss_pred ccccCCchhhCCCEEEeeccceecCCCCeEEEEEEeCHHHHH--HHHHHHHhhCCCCCHHHHHHHHhccCcHHHHH----
Confidence 578899999999999999999999999999999998776442 23445567899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .+++++++++|++++.|.+|+|. .++++..++
T Consensus 254 -~~~---------~~~a~~la~~L~~~p~v~~V~yp~l~s~~~~~~ 289 (380)
T TIGR01325 254 -QKQ---------FDSALAIAEWLQAQPQVQAVYYPGLPDHPQHEL 289 (380)
T ss_pred -HHH---------HHHHHHHHHHHHcCCCccEEECCCCCCCccHHH
Confidence 999 99999999999999999999996 345655554
No 46
>PRK08064 cystathionine beta-lyase; Provisional
Probab=99.59 E-value=1.5e-16 Score=154.14 Aligned_cols=110 Identities=24% Similarity=0.367 Sum_probs=95.1
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+|++++|+|||++||+|+++|.++.+++.+.+ .+..++...|.+++|+++|+..||++|+++||
T Consensus 179 ~~~~~~~~~~g~Divv~S~tK~~~G~~~~laG~~v~~~~~~~~-~l~~~~~~~g~~~~~~~a~l~~~gl~tl~~R~---- 253 (390)
T PRK08064 179 TPLLQKPLDLGADVVLHSATKFLAGHSDVLAGLAVVKDEELAQ-KLYFLQNSFGAVLGVQDCWLVLRGLKTLHVRL---- 253 (390)
T ss_pred cccccCchhhCCcEEEeecceeccCCccceeEEEEeCCHHHHH-HHHHHHHhcCCCCCHHHHHHHHcccCcHHHHH----
Confidence 5777899999999999999999999999999998877655544 44556667899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEP 126 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el 126 (359)
+++ .+++++|++||++++.|.+|+|.. ++++..++
T Consensus 254 -~~~---------~~~a~~la~~L~~~~~v~~v~yp~l~~~p~~~~ 289 (390)
T PRK08064 254 -EHS---------SETANKIALYLQEHPKVQNVYYPGLQTHLGFDI 289 (390)
T ss_pred -HHH---------HHHHHHHHHHHhcCCCcceEECCCCCCCccHHH
Confidence 999 999999999999999999999963 44444443
No 47
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=99.58 E-value=9.6e-15 Score=122.29 Aligned_cols=90 Identities=39% Similarity=0.566 Sum_probs=84.7
Q ss_pred eeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCC
Q 018198 44 RHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSS 121 (359)
Q Consensus 44 ~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~ 121 (359)
+|++..+++|.+|+|+++...|.+||||+.|+.+++.+ ++.+|||+++++|++.++||.+||+|+++|.+|.++. .+.
T Consensus 2 ~~~IsV~veN~pGvL~rI~~lf~rrg~NI~Sl~v~~te~~~~sriti~V~~~~~~i~qi~kQl~KLidV~~V~~~~~~~~ 81 (161)
T PRK11895 2 RHTLSVLVENEPGVLSRVAGLFSRRGYNIESLTVGPTEDPGLSRMTIVTSGDEQVIEQITKQLNKLIDVLKVVDLTEEAH 81 (161)
T ss_pred eEEEEEEEcCCCcHHHHHHHHHHhCCCcEEEEEeeecCCCCEEEEEEEEECCHHHHHHHHHHHhccccEEEEEecCCcch
Confidence 46889999999999999999999999999999998876 7889999999999999999999999999999999984 689
Q ss_pred CCCCcccccCCC
Q 018198 122 SSLEPFFLPCSG 133 (359)
Q Consensus 122 ~~~el~li~~~~ 133 (359)
.+||++|+|+..
T Consensus 82 v~rEl~LiKv~~ 93 (161)
T PRK11895 82 VERELALVKVRA 93 (161)
T ss_pred hheEEEEEEEEC
Confidence 999999999984
No 48
>cd00614 CGS_like CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of antimicrobials and herbicides. This subgroup also includes cystathionine gamma-lyases (CGL), O-acetylhomoserine sulfhydrylases and O-acetylhomoserine thiol lyases. CGL's are very similar to CGS's. Members of this group are widely distributed among all three forms of life.
Probab=99.58 E-value=2.2e-16 Score=152.01 Aligned_cols=111 Identities=31% Similarity=0.372 Sum_probs=94.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|++++|+|||++||+|+++|+++++++.+.+ .+....+.+|+.++|+++|+.+|+++++..|+
T Consensus 165 ~~~~~~~~~~~g~Divv~S~tK~l~g~~~~~gG~v~~~~~~l~~-~l~~~~~~~g~~~~p~~a~~~l~~l~tl~~r~--- 240 (369)
T cd00614 165 ATPYLQRPLELGADIVVHSATKYIGGHSDVIAGVVVGSGEALIQ-RLRFLRLALGTILSPFDAWLLLRGLKTLPLRM--- 240 (369)
T ss_pred cchhcCChhhhCCcEEEeccceeccCCCCceEEEEEeCcHHHHH-HHHHHHHhhCCCCCHHHHHHHHcCCCCHHHHH---
Confidence 36788899999999999999999999999999999987744443 34445567899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEP 126 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el 126 (359)
+++ .+++++++++|++++.|.+|+|.. .+++..++
T Consensus 241 --~~~---------~~na~~la~~L~~~~~v~~V~~p~l~~~~~~~~ 276 (369)
T cd00614 241 --ERH---------SENALKVAEFLEKHPKVERVYYPGLPSHPQHEL 276 (369)
T ss_pred --HHH---------HHHHHHHHHHHHcCCCccEEECCCCCCCchHHH
Confidence 999 999999999999999999999852 34444443
No 49
>PRK08133 O-succinylhomoserine sulfhydrylase; Validated
Probab=99.57 E-value=2.9e-16 Score=152.05 Aligned_cols=111 Identities=20% Similarity=0.270 Sum_probs=96.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|++++|+|||++||+|.+||+++++++.+. .+....+..|..++|+++|+++||++|+.+||
T Consensus 186 ~~~~~~~pl~~g~Divv~S~sK~~~g~g~~~GG~vv~~~~~~~--~~~~~~~~~g~~~~~~~a~~~l~gl~tl~~R~--- 260 (390)
T PRK08133 186 CTPALQQPLKLGADVVIHSATKYLDGQGRVLGGAVVGSKELME--EVFGFLRTAGPTLSPFNAWVFLKGLETLSLRM--- 260 (390)
T ss_pred cccccCCchhhCCcEEEeecceeecCCcceEeEEEEcCHHHHH--HHHHHHHHhCCCCCHHHHHHHHcccchHHHHH---
Confidence 3678899999999999999999999999999999998776543 23456677899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .+++.++++||++++.|.+|+|. ..+++..+++
T Consensus 261 --~~~---------~~~a~~la~~L~~~p~v~~v~yp~l~~~p~~~~~ 297 (390)
T PRK08133 261 --EAH---------SANALALAEWLEAHPGVERVFYPGLPSHPQHELA 297 (390)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCeeEEECCCCCCCccHHHH
Confidence 999 99999999999999999999986 3456666554
No 50
>PRK08249 cystathionine gamma-synthase; Provisional
Probab=99.57 E-value=3e-16 Score=152.17 Aligned_cols=110 Identities=21% Similarity=0.295 Sum_probs=95.3
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+|++++|+|||++||+|.++|.++++.+ +.+ .+..+....|..++|+++|+.+||++++.+|+
T Consensus 190 ~~~~~~~l~~~~Divv~S~sK~l~g~~~~~gG~vv~~~~-l~~-~l~~~~~~~g~~~s~~~a~l~l~~l~tL~~R~---- 263 (398)
T PRK08249 190 TPINQNPLALGADLVIHSATKFLSGHADALGGVVCGSKE-LME-QVYHYREINGATMDPMSAYLILRGMKTLKLRV---- 263 (398)
T ss_pred ccccCCchhhCCCEEeccCceecCCCCCceEEEEECCHH-HHH-HHHHHHHhcCCCCCHHHHHHHHhCcchHHHHH----
Confidence 578889999999999999999999999999999887544 433 34445567899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .+++++++++|++++.|.+|+|. ..+++..+++
T Consensus 264 -~~~---------~~na~~la~~L~~~p~v~~V~yP~l~~~~~~~~~ 300 (398)
T PRK08249 264 -RQQ---------QESAMALAKYLQTHPKVEAVYYPGLETHPNHEIA 300 (398)
T ss_pred -HHH---------HHHHHHHHHHHHcCCCeeEEECCCCCCCccHHHH
Confidence 999 99999999999999999999997 3566666654
No 51
>TIGR01326 OAH_OAS_sulfhy OAH/OAS sulfhydrylase. This model describes a distinct clade of the Cys/Met metabolism pyridoxal phosphate-dependent enzyme superfamily. Members include examples of OAH/OAS sulfhydrylase, an enzyme with activity both as O-acetylhomoserine (OAH) sulfhydrylase (EC 2.5.1.49) and O-acetylserine (OAS) sulphydrylase (EC 2.5.1.47). An alternate name for OAH sulfhydrylase is homocysteine synthase. This model is designated subfamily because it may or may not have both activities.
Probab=99.57 E-value=3.1e-16 Score=153.21 Aligned_cols=112 Identities=22% Similarity=0.250 Sum_probs=92.3
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee------------------------------eEEEEee
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR------------------------------HTISVFV 51 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~------------------------------~~l~~~~ 51 (359)
+|++++|+++|+|++++|+|||++||+|.+||+++......+. +.....+
T Consensus 183 ~~~~~~~l~~g~Divv~S~sK~l~g~G~~lGg~v~~~~~~~~~~~~~~~~~~~~~~q~a~~~~~~~~~~~~~~~~~~~~~ 262 (418)
T TIGR01326 183 TPYLCRPIDHGADIVVHSATKYIGGHGTAIGGVIVDGGKFDWANGRFPLFTTPDPSYHGLVFTETFGNPAFIVKARVQLL 262 (418)
T ss_pred hhhcCCchhcCCeEEEECccccccCCccceEEEEEecccccccccccccccCCCCccccchhhhhhchhhHHHHHHHHHH
Confidence 5678899999999999999999999999999998865321100 0001245
Q ss_pred cCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 52 GDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 52 ~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+.+|+.++|++||++.||++|+.+|| +++ .+++++++++|++++.|.+|+|. ..+++..++.
T Consensus 263 ~~~G~~~~p~~a~~~~~~l~tl~~R~-----~~~---------~~~a~~la~~L~~~~~V~~V~yP~l~~~~~~~~~ 325 (418)
T TIGR01326 263 RDLGAALSPFNAFLLLQGLETLSLRM-----ERH---------VENALKVAEFLEAHPKVAWVNYPGLASHPHHALA 325 (418)
T ss_pred HhcCCCCCHHHHHHHHCCcccHHHHH-----HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHH
Confidence 67899999999999999999999999 998 89999999999999999999996 3456666654
No 52
>PRK06767 methionine gamma-lyase; Provisional
Probab=99.57 E-value=3.7e-16 Score=151.22 Aligned_cols=102 Identities=28% Similarity=0.376 Sum_probs=91.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|++++|+|||++||+|.++|.++++++.+.+ .+.......|+.++|+++|+.+||++++.+|+
T Consensus 186 a~~~~~~pl~~g~Div~~S~sK~l~g~g~~~gG~v~~~~~~i~~-~~~~~~~~~g~~~~~~~a~l~~~~L~tl~~r~--- 261 (386)
T PRK06767 186 CSPYLQRPLELGCDAVVHSATKYIGGHGDVVAGVTICKTRALAE-KIRPMRKDIGGIMAPFDAWLLLRGLKTLAVRM--- 261 (386)
T ss_pred cccccCCchhcCCcEEEecCcceecCCCCceeEEEEeChHHHHH-HHHHHHHHhCCCCCHHHHHHHHcCCCcHHHHH---
Confidence 36888999999999999999999999999999999988776643 33345667899999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+++ .+++++++++|++++.|.+|+|.
T Consensus 262 --~~~---------~~~a~~la~~L~~~p~v~~v~~p 287 (386)
T PRK06767 262 --DRH---------CDNAEKIVSFLKNHDAVEGVWYP 287 (386)
T ss_pred --HHH---------HHHHHHHHHHHHcCCCccEEECC
Confidence 899 99999999999999999999984
No 53
>PRK07811 cystathionine gamma-synthase; Provisional
Probab=99.56 E-value=4.9e-16 Score=150.40 Aligned_cols=112 Identities=25% Similarity=0.367 Sum_probs=96.1
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|+.++|+++|+|++++|+|||++||+|+++|.++++++.+.+ .+..+....|..++|+++|+.+|+++++..|+
T Consensus 186 a~~~~~~p~~~gaDivv~S~sK~l~g~~~~~gG~vv~~~~~l~~-~~~~~~~~~g~~~s~~~a~l~~~~L~tl~~R~--- 261 (388)
T PRK07811 186 ASPYLQQPLALGADVVVHSTTKYIGGHSDVVGGALVTNDEELDE-AFAFLQNGAGAVPGPFDAYLTLRGLKTLAVRM--- 261 (388)
T ss_pred CccccCCchhhCCcEEEecCceeecCCCCcEEEEEEECCHHHHH-HHHHHHHhcCCCCCHHHHHHHHhccCcHHHHH---
Confidence 35778899999999999999999999999999998887766644 33445556799999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .++++.+++||++++.|.+|+|. ..+++..++.
T Consensus 262 --~~~---------~~na~~la~~L~~~p~v~~V~yP~l~~~~~~~~~ 298 (388)
T PRK07811 262 --DRH---------SENAEAVAEFLAGHPEVSTVLYPGLPSHPGHEVA 298 (388)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCeeEEECCCCCCCchHHHH
Confidence 888 99999999999999999999996 3456666553
No 54
>PF00089 Trypsin: Trypsin; InterPro: IPR001254 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine proteases belong to the MEROPS peptidase family S1 (chymotrypsin family, clan PA(S))and to peptidase family S6 (Hap serine peptidases). The chymotrypsin family is almost totally confined to animals, although trypsin-like enzymes are found in actinomycetes of the genera Streptomyces and Saccharopolyspora, and in the fungus Fusarium oxysporum []. The enzymes are inherently secreted, being synthesised with a signal peptide that targets them to the secretory pathway. Animal enzymes are either secreted directly, packaged into vesicles for regulated secretion, or are retained in leukocyte granules []. The Hap family, 'Haemophilus adhesion and penetration', are proteins that play a role in the interaction with human epithelial cells. The serine protease activity is localized at the N-terminal domain, whereas the binding domain is in the C-terminal region. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1SPJ_A 1A5I_A 2ZGH_A 2ZKS_A 2ZGJ_A 2ZGC_A 2ODP_A 2I6Q_A 2I6S_A 2ODQ_A ....
Probab=99.56 E-value=2e-13 Score=120.92 Aligned_cols=176 Identities=23% Similarity=0.291 Sum_probs=118.9
Q ss_pred CCCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCCCCeEEEEec-------CC--cEEEEEEEEEc--
Q 018198 162 NISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICGASTVKVSFS-------DQ--STFYAQVVGHD-- 230 (359)
Q Consensus 162 ~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~-------~g--~~~~~~v~~~d-- 230 (359)
-.|.+|.|..... ...|+|++|+++ +|||++||+.+..++.+.+. ++ ..+..+-+..+
T Consensus 11 ~~p~~v~i~~~~~----------~~~C~G~li~~~-~vLTaahC~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~h~~ 79 (220)
T PF00089_consen 11 EFPWVVSIRYSNG----------RFFCTGTLISPR-WVLTAAHCVDGASDIKVRLGTYSIRNSDGSEQTIKVSKIIIHPK 79 (220)
T ss_dssp SSTTEEEEEETTT----------EEEEEEEEEETT-EEEEEGGGHTSGGSEEEEESESBTTSTTTTSEEEEEEEEEEETT
T ss_pred CCCeEEEEeeCCC----------CeeEeEEecccc-cccccccccccccccccccccccccccccccccccccccccccc
Confidence 4477888776431 237999999987 99999999999656666543 22 23444433332
Q ss_pred -----CCCCEEEEEEcCC---CCCccceEecCC-CCCCCCCEEEEEecCCCCCC----ceeEeEEeeeecccC-----Cc
Q 018198 231 -----QVNDLAVLHIDAP---NHELRPIHVSVS-ADLRVGKKIYAIGHPLGWSF----TCTTGVISALDREIP-----GR 292 (359)
Q Consensus 231 -----~~~DlAll~v~~~---~~~~~~~~l~~~-~~~~~G~~v~~iG~p~~~~~----~~~~G~vs~~~~~~~-----~~ 292 (359)
..+|+|||+++.+ ...+.++.+... ..+..|+.+.++||+..... .+....+........ ..
T Consensus 80 ~~~~~~~~DiAll~L~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~ 159 (220)
T PF00089_consen 80 YDPSTYDNDIALLKLDRPITFGDNIQPICLPSAGSDPNVGTSCIVVGWGRTSDNGYSSNLQSVTVPVVSRKTCRSSYNDN 159 (220)
T ss_dssp SBTTTTTTSEEEEEESSSSEHBSSBEESBBTSTTHTTTTTSEEEEEESSBSSTTSBTSBEEEEEEEEEEHHHHHHHTTTT
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 2579999999987 235667777652 34578999999999975332 344444444333211 11
Q ss_pred ccccEEEEcc----cCCCCCccceeecCCCeEEEEEeeecCCCcc-eeEEEEehHHHHHHH
Q 018198 293 LIQGVIQIDA----SVNLGNSGGPLLDSSGSLIGVNTFITSGAFS-GIGFALPIDTVRGIV 348 (359)
Q Consensus 293 ~~~~~i~~~~----~~~~G~SGgPl~~~~G~viGi~~~~~~~~~~-~~~~aip~~~i~~~l 348 (359)
.....++... ..+.|+|||||++.++.|+||++........ ...++.++..+++|+
T Consensus 160 ~~~~~~c~~~~~~~~~~~g~sG~pl~~~~~~lvGI~s~~~~c~~~~~~~v~~~v~~~~~WI 220 (220)
T PF00089_consen 160 LTPNMICAGSSGSGDACQGDSGGPLICNNNYLVGIVSFGENCGSPNYPGVYTRVSSYLDWI 220 (220)
T ss_dssp STTTEEEEETTSSSBGGTTTTTSEEEETTEEEEEEEEEESSSSBTTSEEEEEEGGGGHHHH
T ss_pred cccccccccccccccccccccccccccceeeecceeeecCCCCCCCcCEEEEEHHHhhccC
Confidence 2345677776 7889999999998766799999998532222 358889998887764
No 55
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=99.55 E-value=2.7e-14 Score=119.24 Aligned_cols=89 Identities=46% Similarity=0.627 Sum_probs=83.9
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCC
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSS 122 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~ 122 (359)
|++..+++|..|+|+++.+.|..||||+.|+.+++++ ++.+|||++++++++.++||.|||+|+++|.+|.++. .+..
T Consensus 2 ~~isI~ven~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~d~~~i~qi~kQl~Kli~V~~V~~~~~~~~v 81 (157)
T TIGR00119 2 HILSVLVENEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVGDDKVLEQITKQLNKLVDVIKVSDLTESAIV 81 (157)
T ss_pred EEEEEEEcCCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEECCHHHHHHHHHHHhcCccEEEEEecCCCcce
Confidence 5788899999999999999999999999999998876 7889999999999999999999999999999999994 6899
Q ss_pred CCCcccccCCC
Q 018198 123 SLEPFFLPCSG 133 (359)
Q Consensus 123 ~~el~li~~~~ 133 (359)
.||++|+|+..
T Consensus 82 ~rEl~LiKv~~ 92 (157)
T TIGR00119 82 ERELCLVKVSA 92 (157)
T ss_pred eeEEEEEEEEC
Confidence 99999999984
No 56
>PRK07503 methionine gamma-lyase; Provisional
Probab=99.54 E-value=1.3e-15 Score=148.05 Aligned_cols=109 Identities=26% Similarity=0.320 Sum_probs=91.6
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEE--EeecCCCCccchhhhhhhhccceeeeeEeec
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTIS--VFVGDESGILSRIDGVFTRRNCNIESLGVIG 79 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~--~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~ 79 (359)
+|+.++|+++|+|++++|+|||++||+|+++|+++.+.+ +.+ .++ ......|..++|++||+.+||++++.+|+
T Consensus 191 ~~~~~~~l~~g~Di~v~S~tK~l~g~gd~~gG~v~~~~~-l~~-~l~~~~~~~~~g~~~s~~~a~l~l~~L~tl~~r~-- 266 (403)
T PRK07503 191 TPYLQRPLELGADLVVHSATKYLGGHGDITAGLVVGGKA-LAD-RIRLEGLKDMTGAVMSPFDAFLLMRGLKTLALRM-- 266 (403)
T ss_pred ccccCCchhhCCCEEEccccccccCCCceeEEEEEcCHH-HHH-HHHhhhHHhCcCCCCCHHHHHHHHcCcchHHHHH--
Confidence 577899999999999999999999999999999886554 433 222 23456799999999999999999999999
Q ss_pred ccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 80 LNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .++++++++||++++.|.+|+|. ..+++..++
T Consensus 267 ---~~~---------~~na~~~a~~L~~~p~v~~V~~P~l~~~~~~~~ 302 (403)
T PRK07503 267 ---DRH---------CASAQAVAEWLARHPAVELVHYPGLPSFAQHAL 302 (403)
T ss_pred ---HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHH
Confidence 999 99999999999999999999885 234444443
No 57
>PRK06234 methionine gamma-lyase; Provisional
Probab=99.53 E-value=1.3e-15 Score=148.07 Aligned_cols=110 Identities=23% Similarity=0.338 Sum_probs=93.0
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEE--eecCCCCccchhhhhhhhccceeeeeEee
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISV--FVGDESGILSRIDGVFTRRNCNIESLGVI 78 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~--~~~~~G~~lsp~~a~l~~RG~~tl~lr~~ 78 (359)
++|++++|+++|+|++++|+|||++||+|.++|.++++++.+ + .++. .....|..++|+++|+.+||++|+.+||
T Consensus 191 ~~~~~~~~l~~g~Divv~S~sK~l~g~g~~~gG~v~~~~~~~-~-~l~~~~~~~~~g~~l~p~~a~l~~~~l~tl~~r~- 267 (400)
T PRK06234 191 CTPYIQRPLQLGADVVVHSATKYLNGHGDVIAGFVVGKEEFI-N-QVKLFGIKDMTGSVIGPFEAFLIIRGMKTLQIRM- 267 (400)
T ss_pred CchhcCCchhhCCcEEEeeccccccCCCCceeEEEEecHHHH-H-HHHHHHHHHhcCCCCCHHHHHHHHhccCcHHHHH-
Confidence 357788999999999999999999999999999999887543 2 2221 2345799999999999999999999999
Q ss_pred cccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 79 GLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .+++++++++|++++.|.+|+|. ..+++..++
T Consensus 268 ----~~~---------~~na~~~a~~L~~~~~V~~V~~p~l~~~~~~~~ 303 (400)
T PRK06234 268 ----EKH---------CKNAMKVAKFLESHPAVEKVYYPGLESFEYYEL 303 (400)
T ss_pred ----HHH---------HHHHHHHHHHHHcCCCeeEEECCCCCCCCcHHH
Confidence 888 89999999999999999999996 345555544
No 58
>TIGR01328 met_gam_lyase methionine gamma-lyase. This model describes a methionine gamma-lyase subset of a family of PLP-dependent trans-sulfuration enzymes. The member from the parasite Trichomonas vaginalis is described as catalyzing alpha gamma- and alpha-beta eliminations and gamma-replacement reactions on methionine, cysteine, and some derivatives. Likewise, the enzyme from Pseudomonas degrades cysteine as well as methionine.
Probab=99.52 E-value=1.7e-15 Score=146.73 Aligned_cols=111 Identities=23% Similarity=0.307 Sum_probs=92.7
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEee-cCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFV-GDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~-~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
+|+.++|+++|+|++++|+|||++||+|.++|+++++.+.+.+ ...... ...|+.++|++||+.+||++++..|+
T Consensus 185 ~~~~~~~~~~g~Divv~S~sK~lgg~g~~~gG~v~~~~~li~~-l~~~~~~~~~g~~l~~~~a~l~l~~L~tl~~r~--- 260 (391)
T TIGR01328 185 TPMLTNPVALGVDVVVHSATKYIGGHGDVVAGLICGKAELLQQ-IRMVGIKDMTGSVISPFDAWLILRGLKTLNIRM--- 260 (391)
T ss_pred hhccCCchhcCCCEEEccccccccCCCCceEEEEEcCHHHHHH-HHHHHHHhCCCCCCCcHHHHHHHhCcCcHHHHH---
Confidence 5778999999999999999999999999999998876654422 111112 23478999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCcc
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEPF 127 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el~ 127 (359)
+++ .++++++++||++++.|.+|.|. ..+++..+++
T Consensus 261 --~~~---------~~na~~la~~L~~~p~v~~v~yp~l~~~~~~~~~ 297 (391)
T TIGR01328 261 --KRH---------SENAMKVAEYLKSHPAVEKVYYPGFEDHPGHDIA 297 (391)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCccEEECCCCCCCccHHHH
Confidence 888 99999999999999999999996 3566666654
No 59
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=99.51 E-value=4.4e-14 Score=102.95 Aligned_cols=73 Identities=21% Similarity=0.305 Sum_probs=67.5
Q ss_pred eeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeee
Q 018198 43 QRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 43 ~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
++|.+..+++|.+|+|+++.+.|.+||||+.+|.+++++ ++.+|||+++. +++.++||.+||+|++||.+|..
T Consensus 2 m~~~lsi~v~n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v~-~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 2 MQHQLTIKARFRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTVA-SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred ceEEEEEEEECCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEEC-CCchHHHHHHHHhcCcCeEEEEE
Confidence 457899999999999999999999999999999998765 77899999995 89999999999999999999874
No 60
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=99.50 E-value=2.8e-13 Score=132.03 Aligned_cols=203 Identities=24% Similarity=0.308 Sum_probs=159.0
Q ss_pred hhHHHhhhcCCCeeEEEEeeeeecCCcccccccceEEEEEEeCC-CEEEecccccCC-CCeEEEEecCCcEEEEEEEEEc
Q 018198 153 LETIRIFEENISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQD-GHIVTNYHVICG-ASTVKVSFSDQSTFYAQVVGHD 230 (359)
Q Consensus 153 ~~~~~~~~~~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~-g~vlT~~Hvv~~-~~~~~v~~~~g~~~~~~v~~~d 230 (359)
...+..+..+-+|||.|....... ++......+.||||++++. |++|||+|++.. .-...+.|.+-...+.-.++.|
T Consensus 52 e~w~~~ia~VvksvVsI~~S~v~~-fdtesag~~~atgfvvd~~~gyiLtnrhvv~pgP~va~avf~n~ee~ei~pvyrD 130 (955)
T KOG1421|consen 52 EDWRNTIANVVKSVVSIRFSAVRA-FDTESAGESEATGFVVDKKLGYILTNRHVVAPGPFVASAVFDNHEEIEIYPVYRD 130 (955)
T ss_pred hhhhhhhhhhcccEEEEEehheee-cccccccccceeEEEEecccceEEEeccccCCCCceeEEEecccccCCcccccCC
Confidence 377888999999999999876532 1212345678999999975 899999999964 4466788877777777778899
Q ss_pred CCCCEEEEEEcCCCC---CccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccCCc-------ccccEEEE
Q 018198 231 QVNDLAVLHIDAPNH---ELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPGR-------LIQGVIQI 300 (359)
Q Consensus 231 ~~~DlAll~v~~~~~---~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~~-------~~~~~i~~ 300 (359)
+-+|+.+++.++... .+..+++. .+-.++|.+++++|+..+...++..|.++++++....+ -...++|.
T Consensus 131 pVhdfGf~r~dps~ir~s~vt~i~la-p~~akvgseirvvgNDagEklsIlagflSrldr~apdyg~~~yndfnTfy~Qa 209 (955)
T KOG1421|consen 131 PVHDFGFFRYDPSTIRFSIVTEICLA-PELAKVGSEIRVVGNDAGEKLSILAGFLSRLDRNAPDYGEDTYNDFNTFYIQA 209 (955)
T ss_pred chhhcceeecChhhcceeeeeccccC-ccccccCCceEEecCCccceEEeehhhhhhccCCCccccccccccccceeeee
Confidence 999999999987543 33444453 34557999999999988888889999999998876522 12245777
Q ss_pred cccCCCCCccceeecCCCeEEEEEeeecCCCcceeEEEEehHHHHHHHHHHHhcCcccC
Q 018198 301 DASVNLGNSGGPLLDSSGSLIGVNTFITSGAFSGIGFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 301 ~~~~~~G~SGgPl~~~~G~viGi~~~~~~~~~~~~~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
.+....|.||+|++|.+|..|.++..+... .+-.|++|++.+.+.|.-+..+..|+|
T Consensus 210 asstsggssgspVv~i~gyAVAl~agg~~s--sas~ffLpLdrV~RaL~clq~n~PItR 266 (955)
T KOG1421|consen 210 ASSTSGGSSGSPVVDIPGYAVALNAGGSIS--SASDFFLPLDRVVRALRCLQNNTPITR 266 (955)
T ss_pred hhcCCCCCCCCceecccceEEeeecCCccc--ccccceeeccchhhhhhhhhcCCCccc
Confidence 788889999999999999999998887632 345899999999999988877776665
No 61
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=99.49 E-value=1.2e-13 Score=117.08 Aligned_cols=90 Identities=47% Similarity=0.624 Sum_probs=83.7
Q ss_pred eeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCC
Q 018198 44 RHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSS 121 (359)
Q Consensus 44 ~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~ 121 (359)
+|.+..+.+|.+|+|+++.++|.+||||+.+|.+++.+ ++.+||||++.++++.++||.+||+|+.+|.+|.++ ..+.
T Consensus 2 ~~~isvlv~n~PGVL~RIt~lFsrRg~NIesLsv~~t~~~~~sr~TIvv~~~~~~ieqL~kQL~KLidVl~V~~~~~~~~ 81 (174)
T CHL00100 2 KHTLSVLVEDESGVLTRIAGLFARRGFNIESLAVGPAEQKGISRITMVVPGDDRTIEQLTKQLYKLVNILKVQDITNIPC 81 (174)
T ss_pred eEEEEEEEeCcCCHHHHHHHHHHhCCCCeeEEEeeEcCCCCccEEEEEEECCHHHHHHHHHHHHHHhHhhEEEecCCccc
Confidence 57889999999999999999999999999999997655 777899999999988899999999999999999999 5799
Q ss_pred CCCCcccccCCC
Q 018198 122 SSLEPFFLPCSG 133 (359)
Q Consensus 122 ~~~el~li~~~~ 133 (359)
.+||++|+|+..
T Consensus 82 v~rEl~LiKv~~ 93 (174)
T CHL00100 82 VERELMLIKINV 93 (174)
T ss_pred eeeEEEEEEEec
Confidence 999999999984
No 62
>PRK08247 cystathionine gamma-synthase; Reviewed
Probab=99.49 E-value=4.8e-15 Score=142.51 Aligned_cols=102 Identities=25% Similarity=0.407 Sum_probs=90.6
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|++++|+|||++||+|+++|.++++++.+.+ .+...+...|.+++|+++|+..||++|+..|+
T Consensus 176 ~~~~~~~p~~~g~di~i~S~sK~~~g~~d~~~G~iv~~~~~l~~-~~~~~~~~~g~~~s~~~a~l~~~~l~tl~~r~--- 251 (366)
T PRK08247 176 YTPVLQRPLEEGADIVIHSATKYLGGHNDVLAGLVVAKGQELCE-RLAYYQNAAGAVLSPFDSWLLIRGMKTLALRM--- 251 (366)
T ss_pred ccccccCchhcCCcEEEeecceeccCCCceeeeEEecChHHHHH-HHHHHHHhcCCCCChHHHHHHHhccCcHHHHH---
Confidence 36889999999999999999999999999999999887555543 34455667789999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+++ .++++.++++|++++.+.+|.+.
T Consensus 252 --~~~---------~~~a~~l~~~L~~~p~v~~v~~P 277 (366)
T PRK08247 252 --RQH---------EENAKAIAAFLNEQPGVTDVLYP 277 (366)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCeeEEecC
Confidence 888 99999999999999999999875
No 63
>PRK05968 hypothetical protein; Provisional
Probab=99.48 E-value=5.9e-15 Score=142.91 Aligned_cols=102 Identities=25% Similarity=0.332 Sum_probs=87.2
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL 80 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~ 80 (359)
++|++++|+++|+|++++|+|||++||+|+++|.++.+.+.+.+ .........|+.++|+++|+.+|+++++.+|+
T Consensus 187 a~~~~~~p~~~g~Divv~S~tK~l~g~~~~~gG~i~~~~~~~~~-l~~~~~~~~g~~~~~~~A~~~l~~L~tl~~r~--- 262 (389)
T PRK05968 187 ASPVFQRPITLGVDLVIHSASKYLGGHSDTVAGVVAGSKEHIAR-INAEAYPYLGAKLSPFEAWLLLRGLRTLPLRM--- 262 (389)
T ss_pred cchhccCchhcCCcEEEeeccccccCCCCeEEEEEEECHHHHHH-HHHHHHHhCCCCCChHHHHHHHcccCcHHHHH---
Confidence 36778899999999999999999999999999988876654322 11111235789999999999999999999999
Q ss_pred cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 81 NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+++ .+++++++++|++++.|.+|.|.
T Consensus 263 --~~~---------~~~a~~la~~L~~~p~v~~v~~p 288 (389)
T PRK05968 263 --KAH---------EASALEIARRLKAHPVVERVCHP 288 (389)
T ss_pred --HHH---------HHHHHHHHHHHHhCCCccEEECC
Confidence 999 99999999999999999999985
No 64
>cd00190 Tryp_SPc Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad residues.
Probab=99.47 E-value=3.8e-12 Score=113.52 Aligned_cols=179 Identities=18% Similarity=0.218 Sum_probs=111.2
Q ss_pred cCCCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCCC--CeEEEEecC---------CcEEEEEEEEE
Q 018198 161 ENISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICGA--STVKVSFSD---------QSTFYAQVVGH 229 (359)
Q Consensus 161 ~~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~~--~~~~v~~~~---------g~~~~~~v~~~ 229 (359)
...|.+|.|.... ....|+|++|+++ +|||+|||+.+. ..+.+.+.. ...+..+-+..
T Consensus 10 ~~~Pw~v~i~~~~----------~~~~C~GtlIs~~-~VLTaAhC~~~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~ 78 (232)
T cd00190 10 GSFPWQVSLQYTG----------GRHFCGGSLISPR-WVLTAAHCVYSSAPSNYTVRLGSHDLSSNEGGGQVIKVKKVIV 78 (232)
T ss_pred CCCCCEEEEEccC----------CcEEEEEEEeeCC-EEEECHHhcCCCCCccEEEEeCcccccCCCCceEEEEEEEEEE
Confidence 3457888886542 1247999999987 999999999875 456666532 11233333333
Q ss_pred c-------CCCCEEEEEEcCCCC---CccceEecCCC-CCCCCCEEEEEecCCCCCC-----ceeEeEEeeeecccCC--
Q 018198 230 D-------QVNDLAVLHIDAPNH---ELRPIHVSVSA-DLRVGKKIYAIGHPLGWSF-----TCTTGVISALDREIPG-- 291 (359)
Q Consensus 230 d-------~~~DlAll~v~~~~~---~~~~~~l~~~~-~~~~G~~v~~iG~p~~~~~-----~~~~G~vs~~~~~~~~-- 291 (359)
+ ..+|||||+++.+.. .+.++.|.... .+..++.+.+.||+..... .+....+..+....+.
T Consensus 79 hp~y~~~~~~~DiAll~L~~~~~~~~~v~picl~~~~~~~~~~~~~~~~G~g~~~~~~~~~~~~~~~~~~~~~~~~C~~~ 158 (232)
T cd00190 79 HPNYNPSTYDNDIALLKLKRPVTLSDNVRPICLPSSGYNLPAGTTCTVSGWGRTSEGGPLPDVLQEVNVPIVSNAECKRA 158 (232)
T ss_pred CCCCCCCCCcCCEEEEEECCcccCCCcccceECCCccccCCCCCEEEEEeCCcCCCCCCCCceeeEEEeeeECHHHhhhh
Confidence 3 357999999986533 36778886543 6778999999999764322 2233333322221110
Q ss_pred -----cccccEEEE-----cccCCCCCccceeecCC---CeEEEEEeeecCCCc-ceeEEEEehHHHHHHHHH
Q 018198 292 -----RLIQGVIQI-----DASVNLGNSGGPLLDSS---GSLIGVNTFITSGAF-SGIGFALPIDTVRGIVDQ 350 (359)
Q Consensus 292 -----~~~~~~i~~-----~~~~~~G~SGgPl~~~~---G~viGi~~~~~~~~~-~~~~~aip~~~i~~~l~~ 350 (359)
......++. +...|+|+|||||+... +.++||.+++..-.. .....+..+...++|+++
T Consensus 159 ~~~~~~~~~~~~C~~~~~~~~~~c~gdsGgpl~~~~~~~~~lvGI~s~g~~c~~~~~~~~~t~v~~~~~WI~~ 231 (232)
T cd00190 159 YSYGGTITDNMLCAGGLEGGKDACQGDSGGPLVCNDNGRGVLVGIVSWGSGCARPNYPGVYTRVSSYLDWIQK 231 (232)
T ss_pred ccCcccCCCceEeeCCCCCCCccccCCCCCcEEEEeCCEEEEEEEEehhhccCCCCCCCEEEEcHHhhHHhhc
Confidence 111233443 33478899999999764 789999999763111 223445666777776654
No 65
>PRK06460 hypothetical protein; Provisional
Probab=99.42 E-value=2.4e-14 Score=138.12 Aligned_cols=109 Identities=30% Similarity=0.353 Sum_probs=92.7
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN 81 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~ 81 (359)
+|+.++|+++|+|++++|+|||++||+|+++|.++++.+ +.+ .+.......|..++|+++|+++||++++..|+
T Consensus 171 ~~~~~~~l~~~~divv~S~sK~l~G~~~~~~G~~~~~~~-l~~-~l~~~~~~~g~~~~~~~a~~~l~~~~~l~~r~---- 244 (376)
T PRK06460 171 TPINQKPLELGADIVVHSASKFLAGHNDVIAGLAAGYGK-LLN-VIDQMRRTLGTSLDPHAAYLTLRGIKTLKIRM---- 244 (376)
T ss_pred ccccCChhhcCCCEEEeecceeccCCCCceEEEEecCHH-HHH-HHHHHHHhcCCCCCHHHHHHHHhchhhHHHHH----
Confidence 467788999999999999999999999999999887655 333 34456667899999999999999999999999
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ .+++++++++|++++.|.+|+|. .++++..++
T Consensus 245 -~~~---------~~n~~~l~~~L~~~p~v~~v~yp~l~~~p~~~~ 280 (376)
T PRK06460 245 -DVI---------NRNAEQIAEFLEGHPKVVKVYYPGLKSHVDYEI 280 (376)
T ss_pred -HHH---------HHHHHHHHHHHHcCCCccEEECCCCCCCccHHH
Confidence 888 99999999999999999999996 245555444
No 66
>KOG2663 consensus Acetolactate synthase, small subunit [Amino acid transport and metabolism]
Probab=99.41 E-value=7.2e-14 Score=121.14 Aligned_cols=91 Identities=37% Similarity=0.486 Sum_probs=85.3
Q ss_pred ceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeecc-C
Q 018198 42 VQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-S 119 (359)
Q Consensus 42 ~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~ 119 (359)
..+|++..++.|..|++|++.+.|++|||||+||-++..+ +..+||||++.|.+..++|..+||+|+++|.+|.++. +
T Consensus 75 ~krHvinclVqnEpGvlsRisGvlAaRGfNIdSLvVc~tevk~LsrmTIVl~Gtd~VveQa~rQiedlVnV~aVlDyt~e 154 (309)
T KOG2663|consen 75 VKRHVINCLVQNEPGVLSRISGVLAARGFNIDSLVVCLTEVKALSRMTIVLQGTDGVVEQARRQIEDLVNVYAVLDYTNE 154 (309)
T ss_pred ccceeEEEEecCCchHHHHHHHHHHhccCCchheeeechhhhhhhhceEEEeccHHHHHHHHHHHHHhhhhheeeecCCC
Confidence 3457999999999999999999999999999999998777 7779999999999999999999999999999999995 7
Q ss_pred CCCCCCcccccCC
Q 018198 120 SSSSLEPFFLPCS 132 (359)
Q Consensus 120 ~~~~~el~li~~~ 132 (359)
+...|||+|+|+.
T Consensus 155 ~~VeRELmlakvs 167 (309)
T KOG2663|consen 155 PIVERELMLAKVS 167 (309)
T ss_pred hHHHHHHHHHHHH
Confidence 9999999999986
No 67
>smart00020 Tryp_SPc Trypsin-like serine protease. Many of these are synthesised as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. A few, however, are active as single chain molecules, and others are inactive due to substitutions of the catalytic triad residues.
Probab=99.36 E-value=3.6e-11 Score=107.33 Aligned_cols=157 Identities=20% Similarity=0.277 Sum_probs=99.3
Q ss_pred cCCCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCCCC--eEEEEecCC--------cEEEEEEEEEc
Q 018198 161 ENISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICGAS--TVKVSFSDQ--------STFYAQVVGHD 230 (359)
Q Consensus 161 ~~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~~~--~~~v~~~~g--------~~~~~~v~~~d 230 (359)
...|.+|.|.... ....|+|++|+++ +|||++||+.+.. .+.|.+... ....+.-+..+
T Consensus 11 ~~~Pw~~~i~~~~----------~~~~C~GtlIs~~-~VLTaahC~~~~~~~~~~v~~g~~~~~~~~~~~~~~v~~~~~~ 79 (229)
T smart00020 11 GSFPWQVSLQYRG----------GRHFCGGSLISPR-WVLTAAHCVYGSDPSNIRVRLGSHDLSSGEEGQVIKVSKVIIH 79 (229)
T ss_pred CCCCcEEEEEEcC----------CCcEEEEEEecCC-EEEECHHHcCCCCCcceEEEeCcccCCCCCCceEEeeEEEEEC
Confidence 3467778776432 1347999999987 9999999998753 677777432 22333333322
Q ss_pred -------CCCCEEEEEEcCCC---CCccceEecCC-CCCCCCCEEEEEecCCCCC------CceeEeEEeeeecccCC--
Q 018198 231 -------QVNDLAVLHIDAPN---HELRPIHVSVS-ADLRVGKKIYAIGHPLGWS------FTCTTGVISALDREIPG-- 291 (359)
Q Consensus 231 -------~~~DlAll~v~~~~---~~~~~~~l~~~-~~~~~G~~v~~iG~p~~~~------~~~~~G~vs~~~~~~~~-- 291 (359)
..+|||||+++.+. ..+.++.|... ..+..++.+.+.||+.... .......+.........
T Consensus 80 p~~~~~~~~~DiAll~L~~~i~~~~~~~pi~l~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~~~~C~~~ 159 (229)
T smart00020 80 PNYNPSTYDNDIALLKLKSPVTLSDNVRPICLPSSNYNVPAGTTCTVSGWGRTSEGAGSLPDTLQEVNVPIVSNATCRRA 159 (229)
T ss_pred CCCCCCCCcCCEEEEEECcccCCCCceeeccCCCcccccCCCCEEEEEeCCCCCCCCCcCCCEeeEEEEEEeCHHHhhhh
Confidence 46799999998752 24667777543 3567789999999986542 12222333322221110
Q ss_pred -----cccccEEEE-----cccCCCCCccceeecCCC--eEEEEEeeec
Q 018198 292 -----RLIQGVIQI-----DASVNLGNSGGPLLDSSG--SLIGVNTFIT 328 (359)
Q Consensus 292 -----~~~~~~i~~-----~~~~~~G~SGgPl~~~~G--~viGi~~~~~ 328 (359)
......++. ....|+|+||||++...+ .++||.+++.
T Consensus 160 ~~~~~~~~~~~~C~~~~~~~~~~c~gdsG~pl~~~~~~~~l~Gi~s~g~ 208 (229)
T smart00020 160 YSGGGAITDNMLCAGGLEGGKDACQGDSGGPLVCNDGRWVLVGIVSWGS 208 (229)
T ss_pred hccccccCCCcEeecCCCCCCcccCCCCCCeeEEECCCEEEEEEEEECC
Confidence 011123333 345788999999996543 8999999976
No 68
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=99.31 E-value=4.1e-12 Score=89.89 Aligned_cols=62 Identities=52% Similarity=0.764 Sum_probs=55.4
Q ss_pred CCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeee
Q 018198 53 DESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKV 114 (359)
Q Consensus 53 ~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v 114 (359)
|..|+|+++.+.|.+||||+.+|.+++.+ ++.+|||+++.++++.++||.+||+|++||.+|
T Consensus 1 n~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~~~~~i~~l~~Ql~KlidV~~V 63 (63)
T PF13710_consen 1 NQPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVSGDDREIEQLVKQLEKLIDVVKV 63 (63)
T ss_dssp SSTTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEES-CCHHHHHHHHHHCSTTEEEE
T ss_pred CCcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEeeCchhHHHHHHHHhccCCeEeC
Confidence 46899999999999999999999998766 778999999999999999999999999999886
No 69
>PLN02242 methionine gamma-lyase
Probab=99.28 E-value=7.2e-13 Score=129.32 Aligned_cols=107 Identities=23% Similarity=0.251 Sum_probs=88.2
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEe----ecCCCCccchhhhhhhhccceeeeeEe
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVF----VGDESGILSRIDGVFTRRNCNIESLGV 77 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~----~~~~G~~lsp~~a~l~~RG~~tl~lr~ 77 (359)
+++.++|+++|+||+++|+|||++||+|.++|.++++.+.+.+ +..+ ....|..++|++||+..||++|+.+||
T Consensus 203 ~~~~~~~~~~g~divv~S~SK~l~g~g~~~gG~iv~~~~li~~--l~~~~~~~~~~~g~~~~~~~A~l~~~~l~tl~~r~ 280 (418)
T PLN02242 203 APMVLSPARLGADVVVHSISKFISGGADIIAGAVCGPAELVNS--MMDLHHGALMLLGPTMNPKVAFELSERLPHLSLRM 280 (418)
T ss_pred CccCCCHHHcCCcEEEEeCccccCCCCCceEEEEEcCHHHHHH--HHHHhhhhhhccCCCCCHHHHHHHHcCCCcHHHHH
Confidence 3677899999999999999999999999999999877654322 2222 245799999999999999999999999
Q ss_pred ecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec-cCCCCCCCc
Q 018198 78 IGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK-QSSSSSLEP 126 (359)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~-~~~~~~~el 126 (359)
+++ ++++++++++|++++ .+|.|. ..+++..++
T Consensus 281 -----~~~---------~~~a~~la~~L~~~~--~~V~yP~l~~~p~~~~ 314 (418)
T PLN02242 281 -----KEH---------CRRAMEYAKRMKELG--LKVIYPGLEDHPQHAL 314 (418)
T ss_pred -----HHH---------HHHHHHHHHHHHhCC--CEEECCCCCCCccHHH
Confidence 888 999999999999995 488875 355666554
No 70
>TIGR00474 selA seryl-tRNA(sec) selenium transferase. In bacteria, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes SelA. This model excludes homologs that appear to differ in function from Frankia alni, Helicobacter pylori, Methanococcus jannaschii and other archaea, and so on.
Probab=99.15 E-value=4e-12 Score=124.72 Aligned_cols=90 Identities=13% Similarity=0.141 Sum_probs=76.9
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeeccccce-------eeEEE-------EeecCCCCccchhhhhhhh
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQ-------RHTIS-------VFVGDESGILSRIDGVFTR 67 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~-------~~~l~-------~~~~~~G~~lsp~~a~l~~ 67 (359)
+|++++|+++|||++++|++||++|| .+|.++++++.+. .+.++ .+...+|..++|+++|+.+
T Consensus 268 ~p~~~~~~~~GaDiv~fSg~K~LgGp---~~G~i~g~~~~i~~l~~~~l~r~lr~~k~~la~l~~~l~~~~~~~~a~~~~ 344 (454)
T TIGR00474 268 EPTVQEVIAAGVDLVTFSGDKLLGGP---QAGIIVGKKELIERLKKNPLTRALRVDKLTLAALEATLRLYLDPEKALEKI 344 (454)
T ss_pred CcccccHhHcCCCEEEecCccccCCC---eEEEEEECHHHHHhhhhchhHHHHhhChHHHHHHHHHHHHHhCchhhhhhc
Confidence 46778999999999999999999999 5888888765441 11233 4567889999999999999
Q ss_pred ccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhh
Q 018198 68 RNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKL 108 (359)
Q Consensus 68 RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~ 108 (359)
||++||++|+ +.+ +++++++++||++.
T Consensus 345 ~~l~~l~~~~-----~~~---------~~~A~~la~~L~~~ 371 (454)
T TIGR00474 345 PTLRMLTQSP-----EEL---------RARAERLAKRLKAA 371 (454)
T ss_pred hHHHHhccCH-----HHH---------HHHHHHHHHHHHhh
Confidence 9999999999 999 99999999999985
No 71
>COG3591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]
Probab=99.00 E-value=7.4e-09 Score=92.41 Aligned_cols=158 Identities=18% Similarity=0.180 Sum_probs=97.3
Q ss_pred eEEEEEEeCCCEEEecccccCCCC----eEEEEe----cCCc-EE--EEEEEE-EcC---CCCEEEEEEcCCCC------
Q 018198 187 SGAGFLWDQDGHIVTNYHVICGAS----TVKVSF----SDQS-TF--YAQVVG-HDQ---VNDLAVLHIDAPNH------ 245 (359)
Q Consensus 187 ~GsGfii~~~g~vlT~~Hvv~~~~----~~~v~~----~~g~-~~--~~~v~~-~d~---~~DlAll~v~~~~~------ 245 (359)
.+++|+|+++ .+||++||+.... ++.+.. .++. .+ ...... ... ..|.+...+.+...
T Consensus 65 ~~~~~lI~pn-tvLTa~Hc~~s~~~G~~~~~~~p~g~~~~~~~~~~~~~~~~~~~~g~~~~~d~~~~~v~~~~~~~g~~~ 143 (251)
T COG3591 65 CTAATLIGPN-TVLTAGHCIYSPDYGEDDIAAAPPGVNSDGGPFYGITKIEIRVYPGELYKEDGASYDVGEAALESGINI 143 (251)
T ss_pred eeeEEEEcCc-eEEEeeeEEecCCCChhhhhhcCCcccCCCCCCCceeeEEEEecCCceeccCCceeeccHHHhccCCCc
Confidence 5677999987 9999999995433 122211 1111 11 111111 112 45666666643221
Q ss_pred --CccceEecCCCCCCCCCEEEEEecCCCCCCc----eeEeEEeeeecccCCcccccEEEEcccCCCCCccceeecCCCe
Q 018198 246 --ELRPIHVSVSADLRVGKKIYAIGHPLGWSFT----CTTGVISALDREIPGRLIQGVIQIDASVNLGNSGGPLLDSSGS 319 (359)
Q Consensus 246 --~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~----~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~SGgPl~~~~G~ 319 (359)
......+......+.++.+.++|||.+.... ...+.|..... ..+..++.+++|+||+|+++.+.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~d~i~v~GYP~dk~~~~~~~e~t~~v~~~~~--------~~l~y~~dT~pG~SGSpv~~~~~~ 215 (251)
T COG3591 144 GDVVNYLKRNTASEAKANDRITVIGYPGDKPNIGTMWESTGKVNSIKG--------NKLFYDADTLPGSSGSPVLISKDE 215 (251)
T ss_pred cccccccccccccccccCceeEEEeccCCCCcceeEeeecceeEEEec--------ceEEEEecccCCCCCCceEecCce
Confidence 1222233344567889999999999875522 23455544422 357889999999999999999889
Q ss_pred EEEEEeeecCCC-cceeEE-EEehHHHHHHHHHHHh
Q 018198 320 LIGVNTFITSGA-FSGIGF-ALPIDTVRGIVDQLVK 353 (359)
Q Consensus 320 viGi~~~~~~~~-~~~~~~-aip~~~i~~~l~~l~~ 353 (359)
+||++..+.... ....++ ..-...++++++++++
T Consensus 216 vigv~~~g~~~~~~~~~n~~vr~t~~~~~~I~~~~~ 251 (251)
T COG3591 216 VIGVHYNGPGANGGSLANNAVRLTPEILNFIQQNIK 251 (251)
T ss_pred EEEEEecCCCcccccccCcceEecHHHHHHHHHhhC
Confidence 999999987321 123343 3445688888888764
No 72
>PRK04311 selenocysteine synthase; Provisional
Probab=98.83 E-value=4.5e-10 Score=110.64 Aligned_cols=91 Identities=15% Similarity=0.110 Sum_probs=71.6
Q ss_pred CCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee---eEEEEe-----------ecCCCCccchhhhhhhh
Q 018198 2 SPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR---HTISVF-----------VGDESGILSRIDGVFTR 67 (359)
Q Consensus 2 ~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~---~~l~~~-----------~~~~G~~lsp~~a~l~~ 67 (359)
.|.+++|+++|||++++|++||++|| .+|.++++++.+.+ +.+... ...++..++|+++|..+
T Consensus 273 ~p~~~~~l~~GaDiv~fSg~K~LgGp---~~G~i~g~~~li~~l~~~~~~r~lr~dk~~l~~l~~~l~~~~~~~~~~~~i 349 (464)
T PRK04311 273 EPTVQELLAAGVDLVTFSGDKLLGGP---QAGIIVGKKELIARLKKHPLKRALRVDKLTLAALEATLRLYLDPEKLAEEI 349 (464)
T ss_pred CCchhhHHhcCCcEEEecCcccccCC---ceEEEEEcHHHHHHHhhchhHHHHhcchHHHHHHHHHHHHHhChhhhhhhC
Confidence 46778999999999999999999999 58888887655421 111111 22346667777778788
Q ss_pred ccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhh
Q 018198 68 RNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLV 109 (359)
Q Consensus 68 RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~ 109 (359)
|++++|.+|+ +.+ +++++++++||+++.
T Consensus 350 ~~l~~l~~~~-----~~~---------~~~A~~la~~L~~~~ 377 (464)
T PRK04311 350 PTLRLLTRSP-----EEL---------RARAERLAAALKAAL 377 (464)
T ss_pred cHHHHhcCCH-----HHH---------HHHHHHHHHHHHhcc
Confidence 8999999999 999 999999999999976
No 73
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.63 E-value=6.4e-08 Score=93.57 Aligned_cols=193 Identities=19% Similarity=0.238 Sum_probs=133.9
Q ss_pred hhhcCCCeeEEEEeeeeecCCccc----ccccceEEEEEEeCCCEEEecccccC---CCCeEEEEe-cCCcEEEEEEEEE
Q 018198 158 IFEENISSVVWIGNLGIREDQSET----EFLRGSGAGFLWDQDGHIVTNYHVIC---GASTVKVSF-SDQSTFYAQVVGH 229 (359)
Q Consensus 158 ~~~~~~~svV~I~~~~~~~~~~~~----~~~~~~GsGfii~~~g~vlT~~Hvv~---~~~~~~v~~-~~g~~~~~~v~~~ 229 (359)
..+....|++.+........+... ......|+||.+... .++|++|++. +.....+.- ..-+.+.+++...
T Consensus 55 ~~~~~~~s~~~v~~~~~~~~~~~pw~~~~q~~~~~s~f~i~~~-~lltn~~~v~~~~~~~~v~v~~~gs~~k~~~~v~~~ 133 (473)
T KOG1320|consen 55 VVDLALQSVVKVFSVSTEPSSVLPWQRTRQFSSGGSGFAIYGK-KLLTNAHVVAPNNDHKFVTVKKHGSPRKYKAFVAAV 133 (473)
T ss_pred CccccccceeEEEeecccccccCcceeeehhcccccchhhccc-ceeecCccccccccccccccccCCCchhhhhhHHHh
Confidence 344556677777776554332211 234567999999865 8999999998 444555542 2234577888888
Q ss_pred cCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccC--CcccccEEEEcccCCCC
Q 018198 230 DQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIP--GRLIQGVIQIDASVNLG 307 (359)
Q Consensus 230 d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~--~~~~~~~i~~~~~~~~G 307 (359)
-.+.|+|++.++..+.+....++...+-+...+.++++| +....++.|.|+......+ +......+++++...+|
T Consensus 134 ~~~cd~Avv~Ie~~~f~~~~~~~e~~~ip~l~~S~~Vv~---gd~i~VTnghV~~~~~~~y~~~~~~l~~vqi~aa~~~~ 210 (473)
T KOG1320|consen 134 FEECDLAVVYIESEEFWKGMNPFELGDIPSLNGSGFVVG---GDGIIVTNGHVVRVEPRIYAHSSTVLLRVQIDAAIGPG 210 (473)
T ss_pred hhcccceEEEEeeccccCCCcccccCCCcccCccEEEEc---CCcEEEEeeEEEEEEeccccCCCcceeeEEEEEeecCC
Confidence 889999999998744322222333334455678899998 6677899999998876543 22334568999999999
Q ss_pred CccceeecCCCeEEEEEeeecCCCcceeEEEEehHHHHHHHHHHHhcC
Q 018198 308 NSGGPLLDSSGSLIGVNTFITSGAFSGIGFALPIDTVRGIVDQLVKFS 355 (359)
Q Consensus 308 ~SGgPl~~~~G~viGi~~~~~~~~~~~~~~aip~~~i~~~l~~l~~~g 355 (359)
+||+|.+.-.+++.|++....+.. ..+.+.+|.-.+.++..-....+
T Consensus 211 ~s~ep~i~g~d~~~gvA~l~ik~~-~~i~~~i~~~~~~~~~~G~~~~a 257 (473)
T KOG1320|consen 211 NSGEPVIVGVDKVAGVAFLKIKTP-ENILYVIPLGVSSHFRTGVEVSA 257 (473)
T ss_pred ccCCCeEEccccccceEEEEEecC-Ccccceeecceeeeecccceeec
Confidence 999999976689999999987332 25678888877777665544443
No 74
>PF00863 Peptidase_C4: Peptidase family C4 This family belongs to family C4 of the peptidase classification.; InterPro: IPR001730 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 []. Nuclear inclusion A (NIA) proteases from potyviruses are cysteine peptidases belong to the MEROPS peptidase family C4 (NIa protease family, clan PA(C)) [, ]. Potyviruses include plant viruses in which the single-stranded RNA encodes a polyprotein with NIA protease activity, where proteolytic cleavage is specific for Gln+Gly sites. The NIA protease acts on the polyprotein, releasing itself by Gln+Gly cleavage at both the N- and C-termini. It further processes the polyprotein by cleavage at five similar sites in the C-terminal half of the sequence. In addition to its C-terminal protease activity, the NIA protease contains an N-terminal domain that has been implicated in the transcription process []. This peptidase is present in the nuclear inclusion protein of potyviruses.; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 3MMG_B 1Q31_B 1LVB_A 1LVM_A.
Probab=98.61 E-value=3.2e-06 Score=75.01 Aligned_cols=164 Identities=15% Similarity=0.178 Sum_probs=86.1
Q ss_pred hcCCCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCC-CCeEEEEecCCcEEEEE-----EEEEcCCC
Q 018198 160 EENISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICG-ASTVKVSFSDQSTFYAQ-----VVGHDQVN 233 (359)
Q Consensus 160 ~~~~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~-~~~~~v~~~~g~~~~~~-----v~~~d~~~ 233 (359)
..+...|++|...+.. ....--|+..+ + ||+|++|.++. ...+.|+..-|.- ... -+..-+..
T Consensus 14 n~Ia~~ic~l~n~s~~--------~~~~l~gigyG-~-~iItn~HLf~~nng~L~i~s~hG~f-~v~nt~~lkv~~i~~~ 82 (235)
T PF00863_consen 14 NPIASNICRLTNESDG--------GTRSLYGIGYG-S-YIITNAHLFKRNNGELTIKSQHGEF-TVPNTTQLKVHPIEGR 82 (235)
T ss_dssp HHHHTTEEEEEEEETT--------EEEEEEEEEET-T-EEEEEGGGGSSTTCEEEEEETTEEE-EECEGGGSEEEE-TCS
T ss_pred chhhheEEEEEEEeCC--------CeEEEEEEeEC-C-EEEEChhhhccCCCeEEEEeCceEE-EcCCccccceEEeCCc
Confidence 3455677888754321 11234466665 3 99999999954 4567777765522 211 23345789
Q ss_pred CEEEEEEcCCCCCccceEe-cCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccCCcccccEEEEcccCCCCCccce
Q 018198 234 DLAVLHIDAPNHELRPIHV-SVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPGRLIQGVIQIDASVNLGNSGGP 312 (359)
Q Consensus 234 DlAll~v~~~~~~~~~~~l-~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~SGgP 312 (359)
||.++|+... +||.+- ..-..+..++.|+++|.-+...... -.||....... .....+..+-..+..|+-|.|
T Consensus 83 DiviirmPkD---fpPf~~kl~FR~P~~~e~v~mVg~~fq~k~~~--s~vSesS~i~p-~~~~~fWkHwIsTk~G~CG~P 156 (235)
T PF00863_consen 83 DIVIIRMPKD---FPPFPQKLKFRAPKEGERVCMVGSNFQEKSIS--STVSESSWIYP-EENSHFWKHWISTKDGDCGLP 156 (235)
T ss_dssp SEEEEE--TT---S----S---B----TT-EEEEEEEECSSCCCE--EEEEEEEEEEE-ETTTTEEEE-C---TT-TT-E
T ss_pred cEEEEeCCcc---cCCcchhhhccCCCCCCEEEEEEEEEEcCCee--EEECCceEEee-cCCCCeeEEEecCCCCccCCc
Confidence 9999999873 455442 1235678999999999754322211 12232221111 112356677777888999999
Q ss_pred eecC-CCeEEEEEeeecCCCcceeEEEEehH
Q 018198 313 LLDS-SGSLIGVNTFITSGAFSGIGFALPID 342 (359)
Q Consensus 313 l~~~-~G~viGi~~~~~~~~~~~~~~aip~~ 342 (359)
|++. ||++|||++..... ...+|+.|+.
T Consensus 157 lVs~~Dg~IVGiHsl~~~~--~~~N~F~~f~ 185 (235)
T PF00863_consen 157 LVSTKDGKIVGIHSLTSNT--SSRNYFTPFP 185 (235)
T ss_dssp EEETTT--EEEEEEEEETT--TSSEEEEE--
T ss_pred EEEcCCCcEEEEEcCccCC--CCeEEEEcCC
Confidence 9987 99999999988644 3456777655
No 75
>KOG3627 consensus Trypsin [Amino acid transport and metabolism]
Probab=98.58 E-value=6.1e-06 Score=75.16 Aligned_cols=164 Identities=20% Similarity=0.244 Sum_probs=95.4
Q ss_pred eEEEEEEeCCCEEEecccccCCCC--eEEEEecC---------C---cEEEE-EEEEEc-------CC-CCEEEEEEcCC
Q 018198 187 SGAGFLWDQDGHIVTNYHVICGAS--TVKVSFSD---------Q---STFYA-QVVGHD-------QV-NDLAVLHIDAP 243 (359)
Q Consensus 187 ~GsGfii~~~g~vlT~~Hvv~~~~--~~~v~~~~---------g---~~~~~-~v~~~d-------~~-~DlAll~v~~~ 243 (359)
.+.|.+|+++ ||||++||+.+.. ...|.+.. + ..... +++ .+ .. +|||||+++.+
T Consensus 39 ~Cggsli~~~-~vltaaHC~~~~~~~~~~V~~G~~~~~~~~~~~~~~~~~~v~~~i-~H~~y~~~~~~~nDiall~l~~~ 116 (256)
T KOG3627|consen 39 LCGGSLISPR-WVLTAAHCVKGASASLYTVRLGEHDINLSVSEGEEQLVGDVEKII-VHPNYNPRTLENNDIALLRLSEP 116 (256)
T ss_pred eeeeEEeeCC-EEEEChhhCCCCCCcceEEEECccccccccccCchhhhceeeEEE-ECCCCCCCCCCCCCEEEEEECCC
Confidence 5777788766 9999999998865 66666531 1 11111 222 22 13 79999999874
Q ss_pred C---CCccceEecCCCC---CCCCCEEEEEecCCCC------CCceeEeEEeeeecccC----C---cccccEEEEcc--
Q 018198 244 N---HELRPIHVSVSAD---LRVGKKIYAIGHPLGW------SFTCTTGVISALDREIP----G---RLIQGVIQIDA-- 302 (359)
Q Consensus 244 ~---~~~~~~~l~~~~~---~~~G~~v~~iG~p~~~------~~~~~~G~vs~~~~~~~----~---~~~~~~i~~~~-- 302 (359)
. ..+.++.|..... ...+..+++.||+... ...+....+..+..... . ......++...
T Consensus 117 v~~~~~i~piclp~~~~~~~~~~~~~~~v~GWG~~~~~~~~~~~~L~~~~v~i~~~~~C~~~~~~~~~~~~~~~Ca~~~~ 196 (256)
T KOG3627|consen 117 VTFSSHIQPICLPSSADPYFPPGGTTCLVSGWGRTESGGGPLPDTLQEVDVPIISNSECRRAYGGLGTITDTMLCAGGPE 196 (256)
T ss_pred cccCCcccccCCCCCcccCCCCCCCEEEEEeCCCcCCCCCCCCceeEEEEEeEcChhHhcccccCccccCCCEEeeCccC
Confidence 3 2466667743332 3445888899997532 12223233333322212 1 01123466542
Q ss_pred ---cCCCCCccceeecCC---CeEEEEEeeecCCCcc--eeEEEEehHHHHHHHHHHH
Q 018198 303 ---SVNLGNSGGPLLDSS---GSLIGVNTFITSGAFS--GIGFALPIDTVRGIVDQLV 352 (359)
Q Consensus 303 ---~~~~G~SGgPl~~~~---G~viGi~~~~~~~~~~--~~~~aip~~~i~~~l~~l~ 352 (359)
..|.|+|||||+-.+ ..++||.+++...... .-+....+.....++++.+
T Consensus 197 ~~~~~C~GDSGGPLv~~~~~~~~~~GivS~G~~~C~~~~~P~vyt~V~~y~~WI~~~~ 254 (256)
T KOG3627|consen 197 GGKDACQGDSGGPLVCEDNGRWVLVGIVSWGSGGCGQPNYPGVYTRVSSYLDWIKENI 254 (256)
T ss_pred CCCccccCCCCCeEEEeeCCcEEEEEEEEecCCCCCCCCCCeEEeEhHHhHHHHHHHh
Confidence 368899999999654 6999999998632111 1123555666666666543
No 76
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=98.20 E-value=2.5e-05 Score=77.48 Aligned_cols=169 Identities=14% Similarity=0.160 Sum_probs=118.9
Q ss_pred ceEEEEEEeCC-CEEEecccccC-CCCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCE
Q 018198 186 GSGAGFLWDQD-GHIVTNYHVIC-GASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKK 263 (359)
Q Consensus 186 ~~GsGfii~~~-g~vlT~~Hvv~-~~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~ 263 (359)
-.|||.|++.+ |++++.+.++. +..+..+.+.|...++|.+.+.++..++|.+|.++.. ...++|. ...+..|++
T Consensus 550 ~kgt~~i~d~~~g~~vvsr~~vp~d~~d~~vt~~dS~~i~a~~~fL~~t~n~a~~kydp~~--~~~~kl~-~~~v~~gD~ 626 (955)
T KOG1421|consen 550 YKGTALIMDTSKGLGVVSRSVVPSDAKDQRVTEADSDGIPANVSFLHPTENVASFKYDPAL--EVQLKLT-DTTVLRGDE 626 (955)
T ss_pred hcCceEEEEccCCceeEecccCCchhhceEEeecccccccceeeEecCccceeEeccChhH--hhhhccc-eeeEecCCc
Confidence 46999999854 89999999995 6778999999999999999999999999999999854 2445563 456788999
Q ss_pred EEEEecCCCCCCceeEeEEeee-----eccc-C--CcccccEEEEcccCCCCCccceeecCCCeEEEEEeeecC----CC
Q 018198 264 IYAIGHPLGWSFTCTTGVISAL-----DREI-P--GRLIQGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFITS----GA 331 (359)
Q Consensus 264 v~~iG~p~~~~~~~~~G~vs~~-----~~~~-~--~~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~~----~~ 331 (359)
+...|+-...........|..+ .+.. . .....+.|.+++...-++--|-+.|.+|+|+|++-.... +.
T Consensus 627 ~~f~g~~~~~r~ltaktsv~dvs~~~~ps~~~pr~r~~n~e~Is~~~nlsT~c~sg~ltdddg~vvalwl~~~ge~~~~k 706 (955)
T KOG1421|consen 627 CTFEGFTEDLRALTAKTSVTDVSVVIIPSSVMPRFRATNLEVISFMDNLSTSCLSGRLTDDDGEVVALWLSVVGEDVGGK 706 (955)
T ss_pred eeEecccccchhhcccceeeeeEEEEecCCCCcceeecceEEEEEeccccccccceEEECCCCeEEEEEeeeeccccCCc
Confidence 9999987553322222222211 1111 1 112234555655544455556788899999999877652 22
Q ss_pred cceeEEEEehHHHHHHHHHHHhcCcc
Q 018198 332 FSGIGFALPIDTVRGIVDQLVKFSRY 357 (359)
Q Consensus 332 ~~~~~~aip~~~i~~~l~~l~~~g~v 357 (359)
.-..-|++.+..+++.|+.|+.-+..
T Consensus 707 d~~y~~gl~~~~~l~vl~rlk~g~~~ 732 (955)
T KOG1421|consen 707 DYTYKYGLSMSYILPVLERLKLGPSA 732 (955)
T ss_pred eeEEEeccchHHHHHHHHHHhcCCCC
Confidence 23456789999999999998765543
No 77
>PF05579 Peptidase_S32: Equine arteritis virus serine endopeptidase S32; InterPro: IPR008760 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S32 (clan PA(S)). The type example is equine arteritis virus serine endopeptidase (equine arteritis virus), which is involved in processing of nidovirus polyproteins [].; GO: 0004252 serine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 3FAN_A 3FAO_A 1MBM_A.
Probab=97.93 E-value=6.4e-05 Score=66.90 Aligned_cols=115 Identities=24% Similarity=0.330 Sum_probs=62.9
Q ss_pred eEEEEEEeCCC--EEEecccccCCCCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEE
Q 018198 187 SGAGFLWDQDG--HIVTNYHVICGASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKI 264 (359)
Q Consensus 187 ~GsGfii~~~g--~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v 264 (359)
.|||-+...+| .|+|+.||+. .....+...+ ... ...++..-|+|.-.++.-...+|.+++... ..|.--
T Consensus 113 ~Gsggvft~~~~~vvvTAtHVlg-~~~a~v~~~g-~~~---~~tF~~~GDfA~~~~~~~~G~~P~~k~a~~---~~GrAy 184 (297)
T PF05579_consen 113 VGSGGVFTIGGNTVVVTATHVLG-GNTARVSGVG-TRR---MLTFKKNGDFAEADITNWPGAAPKYKFAQN---YTGRAY 184 (297)
T ss_dssp EEEEEEEECTTEEEEEEEHHHCB-TTEEEEEETT-EEE---EEEEEEETTEEEEEETTS-S---B--B-TT----SEEEE
T ss_pred ccccceEEECCeEEEEEEEEEcC-CCeEEEEecc-eEE---EEEEeccCcEEEEECCCCCCCCCceeecCC---cccceE
Confidence 55655555444 6999999998 4455555432 222 234456789999999554445777777521 233333
Q ss_pred EEEecCCCCCCceeEeEEeeeecccCCcccccEEEEcccCCCCCccceeecCCCeEEEEEeeec
Q 018198 265 YAIGHPLGWSFTCTTGVISALDREIPGRLIQGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFIT 328 (359)
Q Consensus 265 ~~iG~p~~~~~~~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~ 328 (359)
+.. ...+..|.|... ..+ +-+.+||||+|++..+|.+||||+...
T Consensus 185 W~t------~tGvE~G~ig~~----------~~~---~fT~~GDSGSPVVt~dg~liGVHTGSn 229 (297)
T PF05579_consen 185 WLT------STGVEPGFIGGG----------GAV---CFTGPGDSGSPVVTEDGDLIGVHTGSN 229 (297)
T ss_dssp EEE------TTEEEEEEEETT----------EEE---ESS-GGCTT-EEEETTC-EEEEEEEEE
T ss_pred EEc------ccCcccceecCc----------eEE---EEcCCCCCCCccCcCCCCEEEEEecCC
Confidence 222 122344444321 112 234579999999999999999999875
No 78
>PF03761 DUF316: Domain of unknown function (DUF316) ; InterPro: IPR005514 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=97.77 E-value=0.0013 Score=60.81 Aligned_cols=111 Identities=14% Similarity=0.188 Sum_probs=68.9
Q ss_pred CCCCEEEEEEcCC-CCCccceEecCCC-CCCCCCEEEEEecCCCCCCceeEeEEeeeecccCCcccccEEEEcccCCCCC
Q 018198 231 QVNDLAVLHIDAP-NHELRPIHVSVSA-DLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPGRLIQGVIQIDASVNLGN 308 (359)
Q Consensus 231 ~~~DlAll~v~~~-~~~~~~~~l~~~~-~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~ 308 (359)
..++++|++++.. .....++.|+++. ....++.+.+.|+.. ...+....+....... ....+..+...+.|+
T Consensus 159 ~~~~~mIlEl~~~~~~~~~~~Cl~~~~~~~~~~~~~~~yg~~~--~~~~~~~~~~i~~~~~----~~~~~~~~~~~~~~d 232 (282)
T PF03761_consen 159 RPYSPMILELEEDFSKNVSPPCLADSSTNWEKGDEVDVYGFNS--TGKLKHRKLKITNCTK----CAYSICTKQYSCKGD 232 (282)
T ss_pred cccceEEEEEcccccccCCCEEeCCCccccccCceEEEeecCC--CCeEEEEEEEEEEeec----cceeEecccccCCCC
Confidence 4669999999886 2357788887543 467889999999822 2223333222222211 122355556678899
Q ss_pred ccceeecC-CC--eEEEEEeeecCCCcceeEEEEehHHHHHH
Q 018198 309 SGGPLLDS-SG--SLIGVNTFITSGAFSGIGFALPIDTVRGI 347 (359)
Q Consensus 309 SGgPl~~~-~G--~viGi~~~~~~~~~~~~~~aip~~~i~~~ 347 (359)
+|||++.. +| .||||.+...........+++.+..+++-
T Consensus 233 ~Gg~lv~~~~gr~tlIGv~~~~~~~~~~~~~~f~~v~~~~~~ 274 (282)
T PF03761_consen 233 RGGPLVKNINGRWTLIGVGASGNYECNKNNSYFFNVSWYQDE 274 (282)
T ss_pred ccCeEEEEECCCEEEEEEEccCCCcccccccEEEEHHHhhhh
Confidence 99999843 44 69999877653332235677777766543
No 79
>COG5640 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=0.00045 Score=64.14 Aligned_cols=50 Identities=20% Similarity=0.361 Sum_probs=33.0
Q ss_pred cCCCCCccceeecC--CC-eEEEEEeeecCCCcce--eEEEEehHHHHHHHHHHH
Q 018198 303 SVNLGNSGGPLLDS--SG-SLIGVNTFITSGAFSG--IGFALPIDTVRGIVDQLV 352 (359)
Q Consensus 303 ~~~~G~SGgPl~~~--~G-~viGi~~~~~~~~~~~--~~~aip~~~i~~~l~~l~ 352 (359)
..|.|+||||+|-. +| .-+||++|+..++... -+..--++....|++...
T Consensus 224 daCqGDSGGPi~~~g~~G~vQ~GVvSwG~~~Cg~t~~~gVyT~vsny~~WI~a~~ 278 (413)
T COG5640 224 DACQGDSGGPIFHKGEEGRVQRGVVSWGDGGCGGTLIPGVYTNVSNYQDWIAAMT 278 (413)
T ss_pred ccccCCCCCceEEeCCCccEEEeEEEecCCCCCCCCcceeEEehhHHHHHHHHHh
Confidence 56889999999953 35 5799999997432111 123333677777777643
No 80
>PF05580 Peptidase_S55: SpoIVB peptidase S55; InterPro: IPR008763 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S55 (SpoIVB peptidase family, clan PA(S)). The protein SpoIVB plays a key role in signalling in the final sigma-K checkpoint of Bacillus subtilis [, ].
Probab=97.39 E-value=0.0044 Score=53.99 Aligned_cols=159 Identities=17% Similarity=0.204 Sum_probs=85.6
Q ss_pred ccceEEEEEEeCC-CEEEecccccCCCCe-EEEEecCCcEEEEEEEEEcCC----------------C---------CEE
Q 018198 184 LRGSGAGFLWDQD-GHIVTNYHVICGAST-VKVSFSDQSTFYAQVVGHDQV----------------N---------DLA 236 (359)
Q Consensus 184 ~~~~GsGfii~~~-g~vlT~~Hvv~~~~~-~~v~~~~g~~~~~~v~~~d~~----------------~---------DlA 236 (359)
..+.||=.+++++ +..--=.|.+.+.+. ..+.+.+|+.+++++....+. . +..
T Consensus 18 ~aGiGTlTf~dp~~~~fgALGH~I~D~dt~~~~~i~~G~I~~a~I~~I~kg~~G~PGe~~G~~~~~~~~~G~I~~Nt~~G 97 (218)
T PF05580_consen 18 TAGIGTLTFYDPETGTFGALGHGISDVDTGQLIPIKNGEIYEASITSIKKGKKGQPGEKIGVFDNESNILGTIEKNTQFG 97 (218)
T ss_pred CcCeEEEEEEECCCCcEEecCCeEEcCCCCceeEecCCEEEEEEEEEEecCCCcCCceEEEEECCCCceEEEEEeccccc
Confidence 4578999999874 455555888876553 456667788777766554321 1 122
Q ss_pred EE-EEcCC----CCCccceEecCCCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccCCccc--------ccEEEEccc
Q 018198 237 VL-HIDAP----NHELRPIHVSVSADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIPGRLI--------QGVIQIDAS 303 (359)
Q Consensus 237 ll-~v~~~----~~~~~~~~l~~~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~~~~--------~~~i~~~~~ 303 (359)
|. +++.. ....++++++...++++|..-...-. .+....--.-.|..+.++.....- ..++.....
T Consensus 98 I~G~~~~~~~~~~~~~~~~pva~~~evk~G~A~i~Tv~-~G~~ie~f~ieI~~v~~~~~~~~k~~vi~vtd~~Ll~~TGG 176 (218)
T PF05580_consen 98 IYGTLDQDDISNPSYNEPIPVAPKQEVKPGPAYILTVI-DGTKIEEFDIEIEKVLPQSSPSGKGMVIKVTDPRLLEKTGG 176 (218)
T ss_pred eeEEeccccccccccCceeEEEEHHHceEccEEEEEEE-cCCeEEEeEEEEEEEccCCCCCCCcEEEEECCcchhhhhCC
Confidence 22 11111 01234555555566666753321111 111111111122222222211100 112223345
Q ss_pred CCCCCccceeecCCCeEEEEEeeecCCCcceeEEEEehHHHH
Q 018198 304 VNLGNSGGPLLDSSGSLIGVNTFITSGAFSGIGFALPIDTVR 345 (359)
Q Consensus 304 ~~~G~SGgPl~~~~G~viGi~~~~~~~~~~~~~~aip~~~i~ 345 (359)
+..||||+|++ .+|++||-++.... .....+|.+|+..+.
T Consensus 177 IvqGMSGSPI~-qdGKLiGAVthvf~-~dp~~Gygi~ie~ML 216 (218)
T PF05580_consen 177 IVQGMSGSPII-QDGKLIGAVTHVFV-NDPTKGYGIFIEWML 216 (218)
T ss_pred EEecccCCCEE-ECCEEEEEEEEEEe-cCCCceeeecHHHHh
Confidence 66899999999 79999999888873 335678999977654
No 81
>PF00548 Peptidase_C3: 3C cysteine protease (picornain 3C); InterPro: IPR000199 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 signature defines cysteine peptidases belong to MEROPS peptidase family C3 (picornain, clan PA(C)), subfamilies C3A and C3B. The protein fold of this peptidase domain for members of this family resembles that of the serine peptidase, chymotrypsin [], the type example for clan PA. Picornaviral proteins are expressed as a single polyprotein which is cleaved by the viral C3 cysteine protease. The poliovirus polyprotein is selectively cleaved between the Gln-|-Gly bond. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly. ; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 3SJO_E 2H6M_A 1QA7_C 1HAV_B 2HAL_A 2H9H_A 3QZQ_B 3QZR_A 3R0F_B 3SJ9_A ....
Probab=97.24 E-value=0.005 Score=52.67 Aligned_cols=134 Identities=16% Similarity=0.197 Sum_probs=76.0
Q ss_pred ceEEEEEEeCCCEEEecccccCCCCeEEEEecCCcEEEE--EEEEEcC---CCCEEEEEEcCCCCCccceE--ecCCCCC
Q 018198 186 GSGAGFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYA--QVVGHDQ---VNDLAVLHIDAPNHELRPIH--VSVSADL 258 (359)
Q Consensus 186 ~~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~--~v~~~d~---~~DlAll~v~~~~~~~~~~~--l~~~~~~ 258 (359)
..++++.|.++ ++|-..| -.....+.+ +|..++. .+...+. ..||++++++...+ ++-+. +.+. ..
T Consensus 25 ~t~l~~gi~~~-~~lvp~H-~~~~~~i~i---~g~~~~~~d~~~lv~~~~~~~Dl~~v~l~~~~k-frDIrk~~~~~-~~ 97 (172)
T PF00548_consen 25 FTMLALGIYDR-YFLVPTH-EEPEDTIYI---DGVEYKVDDSVVLVDRDGVDTDLTLVKLPRNPK-FRDIRKFFPES-IP 97 (172)
T ss_dssp EEEEEEEEEBT-EEEEEGG-GGGCSEEEE---TTEEEEEEEEEEEEETTSSEEEEEEEEEESSS--B--GGGGSBSS-GG
T ss_pred EEEecceEeee-EEEEECc-CCCcEEEEE---CCEEEEeeeeEEEecCCCcceeEEEEEccCCcc-cCchhhhhccc-cc
Confidence 46888899866 9999999 222233333 3444433 2222343 45999999977442 22221 1111 11
Q ss_pred CCCCEEEEEecCCCCCC-ceeEeEEeeeecc-cCCcccccEEEEcccCCCCCccceeecC---CCeEEEEEeee
Q 018198 259 RVGKKIYAIGHPLGWSF-TCTTGVISALDRE-IPGRLIQGVIQIDASVNLGNSGGPLLDS---SGSLIGVNTFI 327 (359)
Q Consensus 259 ~~G~~v~~iG~p~~~~~-~~~~G~vs~~~~~-~~~~~~~~~i~~~~~~~~G~SGgPl~~~---~G~viGi~~~~ 327 (359)
...+...++=. ..... .+..+.++..... ..+......+..++++.+|+-||||+.. .++++||+.++
T Consensus 98 ~~~~~~l~v~~-~~~~~~~~~v~~v~~~~~i~~~g~~~~~~~~Y~~~t~~G~CG~~l~~~~~~~~~i~GiHvaG 170 (172)
T PF00548_consen 98 EYPECVLLVNS-TKFPRMIVEVGFVTNFGFINLSGTTTPRSLKYKAPTKPGMCGSPLVSRIGGQGKIIGIHVAG 170 (172)
T ss_dssp TEEEEEEEEES-SSSTCEEEEEEEEEEEEEEEETTEEEEEEEEEESEEETTGTTEEEEESCGGTTEEEEEEEEE
T ss_pred cCCCcEEEEEC-CCCccEEEEEEEEeecCccccCCCEeeEEEEEccCCCCCccCCeEEEeeccCccEEEEEecc
Confidence 23334444433 22232 2333444433321 1234455678889999999999999953 57999999986
No 82
>PF10459 Peptidase_S46: Peptidase S46; InterPro: IPR019500 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents S46 peptidases, where dipeptidyl-peptidase 7 (DPP-7) is the best-characterised member of this family. It is a serine peptidase that is located on the cell surface and is predicted to have two N-terminal transmembrane domains.
Probab=96.91 E-value=0.0054 Score=63.39 Aligned_cols=21 Identities=29% Similarity=0.357 Sum_probs=19.6
Q ss_pred eEEEEEEeCCCEEEecccccC
Q 018198 187 SGAGFLWDQDGHIVTNYHVIC 207 (359)
Q Consensus 187 ~GsGfii~~~g~vlT~~Hvv~ 207 (359)
-|||.||+++|.|+||.||..
T Consensus 48 GCSgsfVS~~GLvlTNHHC~~ 68 (698)
T PF10459_consen 48 GCSGSFVSPDGLVLTNHHCGY 68 (698)
T ss_pred ceeEEEEcCCceEEecchhhh
Confidence 599999999999999999973
No 83
>PF10459 Peptidase_S46: Peptidase S46; InterPro: IPR019500 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents S46 peptidases, where dipeptidyl-peptidase 7 (DPP-7) is the best-characterised member of this family. It is a serine peptidase that is located on the cell surface and is predicted to have two N-terminal transmembrane domains.
Probab=96.65 E-value=0.0034 Score=64.84 Aligned_cols=57 Identities=23% Similarity=0.254 Sum_probs=44.6
Q ss_pred EEEEcccCCCCCccceeecCCCeEEEEEeeec----C-----CCcceeEEEEehHHHHHHHHHHHh
Q 018198 297 VIQIDASVNLGNSGGPLLDSSGSLIGVNTFIT----S-----GAFSGIGFALPIDTVRGIVDQLVK 353 (359)
Q Consensus 297 ~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~----~-----~~~~~~~~aip~~~i~~~l~~l~~ 353 (359)
.+.++..+..|+||+|++|.+|+|||+++-+- . +.....+..|-+..|..+++++-.
T Consensus 623 ~FlstnDitGGNSGSPvlN~~GeLVGl~FDgn~Esl~~D~~fdp~~~R~I~VDiRyvL~~ldkv~g 688 (698)
T PF10459_consen 623 NFLSTNDITGGNSGSPVLNAKGELVGLAFDGNWESLSGDIAFDPELNRTIHVDIRYVLWALDKVYG 688 (698)
T ss_pred EEEeccCcCCCCCCCccCCCCceEEEEeecCchhhcccccccccccceeEEEEHHHHHHHHHHHhC
Confidence 46677888999999999999999999988664 1 112346778889999999887643
No 84
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=96.53 E-value=0.014 Score=40.85 Aligned_cols=65 Identities=20% Similarity=0.412 Sum_probs=55.2
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhc
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVN 110 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~ 110 (359)
.+...+.|..|.+..+...|..+|+|+.++.......+...+.++...+.....++.+.|+++++
T Consensus 2 ~v~v~~~drpG~l~~v~~~la~~~inI~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 66 (66)
T PF01842_consen 2 RVRVIVPDRPGILADVTEILADHGINIDSISQSSDKDGVGIVFIVIVVDEEDLEKLLEELEALPG 66 (66)
T ss_dssp EEEEEEETSTTHHHHHHHHHHHTTEEEEEEEEEEESSTTEEEEEEEEEEGHGHHHHHHHHHHHTT
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCHHHeEEEecCCCceEEEEEEECCCCCHHHHHHHHHcccC
Confidence 46678899999999999999999999999999554443556777777889999999999999864
No 85
>PF08192 Peptidase_S64: Peptidase family S64; InterPro: IPR012985 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This family of fungal proteins is involved in the processing of membrane bound transcription factor Stp1 [] and belongs to MEROPS petidase family S64 (clan PA). The processing causes the signalling domain of Stp1 to be passed to the nucleus where several permease genes are induced. The permeases are important for uptake of amino acids, and processing of tp1 only occurs in an amino acid-rich environment. This family is predicted to be distantly related to the trypsin family (MEROPS peptidase family S1) and to have a typical trypsin-like catalytic triad [].
Probab=96.44 E-value=0.028 Score=56.63 Aligned_cols=116 Identities=17% Similarity=0.340 Sum_probs=72.4
Q ss_pred CCCEEEEEEcCCCC-------------CccceEecC------CCCCCCCCEEEEEecCCCCCCceeEeEEeeeecccC--
Q 018198 232 VNDLAVLHIDAPNH-------------ELRPIHVSV------SADLRVGKKIYAIGHPLGWSFTCTTGVISALDREIP-- 290 (359)
Q Consensus 232 ~~DlAll~v~~~~~-------------~~~~~~l~~------~~~~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~-- 290 (359)
-.|+||++++..-. .-|.+.+.+ ...+.+|.+|+=+|.-.+ .+.|++.++.-...
T Consensus 542 LsD~AIIkV~~~~~~~N~LGddi~f~~~dP~l~f~NlyV~~~~~~~~~G~~VfK~GrTTg----yT~G~lNg~klvyw~d 617 (695)
T PF08192_consen 542 LSDWAIIKVNKERKCQNYLGDDIQFNEPDPTLMFQNLYVREVVSNLVPGMEVFKVGRTTG----YTTGILNGIKLVYWAD 617 (695)
T ss_pred ccceEEEEeCCCceecCCCCccccccCCCccccccccchhhhhhccCCCCeEEEecccCC----ccceEecceEEEEecC
Confidence 35999999975321 112222221 124567999999987555 45566655542222
Q ss_pred Ccc-cccEEEEc----ccCCCCCccceeecCCC------eEEEEEeeecCCCcceeEEEEehHHHHHHHHHHH
Q 018198 291 GRL-IQGVIQID----ASVNLGNSGGPLLDSSG------SLIGVNTFITSGAFSGIGFALPIDTVRGIVDQLV 352 (359)
Q Consensus 291 ~~~-~~~~i~~~----~~~~~G~SGgPl~~~~G------~viGi~~~~~~~~~~~~~~aip~~~i~~~l~~l~ 352 (359)
+.. ..+++... .-...||||+=|++.-+ .|+||.++.. +...+++++.|+..|.+-|++..
T Consensus 618 G~i~s~efvV~s~~~~~Fa~~GDSGS~VLtk~~d~~~gLgvvGMlhsyd-ge~kqfglftPi~~il~rl~~vT 689 (695)
T PF08192_consen 618 GKIQSSEFVVSSDNNPAFASGGDSGSWVLTKLEDNNKGLGVVGMLHSYD-GEQKQFGLFTPINEILDRLEEVT 689 (695)
T ss_pred CCeEEEEEEEecCCCccccCCCCcccEEEecccccccCceeeEEeeecC-CccceeeccCcHHHHHHHHHHhh
Confidence 111 12233333 23457999999998633 4999998864 44467899999999998888764
No 86
>PF00949 Peptidase_S7: Peptidase S7, Flavivirus NS3 serine protease ; InterPro: IPR001850 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This signature identifies serine peptidases belong to MEROPS peptidase family S7 (flavivirin family, clan PA(S)). The protein fold of the peptidase domain for members of this family resembles that of chymotrypsin, the type example for clan PA. Flaviviruses produce a polyprotein from the ssRNA genome. The N terminus of the NS3 protein (approx. 180 aa) is required for the processing of the polyprotein. NS3 also has conserved homology with NTP-binding proteins and DEAD family of RNA helicase [, , ].; GO: 0003723 RNA binding, 0003724 RNA helicase activity, 0005524 ATP binding; PDB: 2IJO_B 3E90_D 2GGV_B 2FP7_B 2WV9_A 3U1I_B 3U1J_B 2WZQ_A 2WHX_A 3L6P_A ....
Probab=96.22 E-value=0.0088 Score=48.47 Aligned_cols=31 Identities=26% Similarity=0.472 Sum_probs=22.7
Q ss_pred EEEcccCCCCCccceeecCCCeEEEEEeeec
Q 018198 298 IQIDASVNLGNSGGPLLDSSGSLIGVNTFIT 328 (359)
Q Consensus 298 i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~ 328 (359)
...+....+|.||+|+||.+|+++|+.....
T Consensus 88 ~~~~~d~~~GsSGSpi~n~~g~ivGlYg~g~ 118 (132)
T PF00949_consen 88 GAIDLDFPKGSSGSPIFNQNGEIVGLYGNGV 118 (132)
T ss_dssp EEE---S-TTGTT-EEEETTSCEEEEEEEEE
T ss_pred EeeecccCCCCCCCceEcCCCcEEEEEccce
Confidence 3445557789999999999999999988876
No 87
>TIGR02860 spore_IV_B stage IV sporulation protein B. SpoIVB, the stage IV sporulation protein B of endospore-forming bacteria such as Bacillus subtilis, is a serine proteinase, expressed in the spore (rather than mother cell) compartment, that participates in a proteolytic activation cascade for Sigma-K. It appears to be universal among endospore-forming bacteria and occurs nowhere else.
Probab=96.18 E-value=0.071 Score=51.45 Aligned_cols=43 Identities=23% Similarity=0.446 Sum_probs=32.7
Q ss_pred ccCCCCCccceeecCCCeEEEEEeeecCCCcceeEEEEehHHHHH
Q 018198 302 ASVNLGNSGGPLLDSSGSLIGVNTFITSGAFSGIGFALPIDTVRG 346 (359)
Q Consensus 302 ~~~~~G~SGgPl~~~~G~viGi~~~~~~~~~~~~~~aip~~~i~~ 346 (359)
..+..||||+|++ .+|++||=++-..-.. +..+|+|-+.++.+
T Consensus 355 gGivqGMSGSPi~-q~gkliGAvtHVfvnd-pt~GYGi~ie~Ml~ 397 (402)
T TIGR02860 355 GGIVQGMSGSPII-QNGKVIGAVTHVFVND-PTSGYGVYIEWMLK 397 (402)
T ss_pred CCEEecccCCCEE-ECCEEEEEEEEEEecC-CCcceeehHHHHHH
Confidence 3566799999999 7999999877666322 55689997776654
No 88
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=96.15 E-value=0.035 Score=39.18 Aligned_cols=70 Identities=53% Similarity=0.726 Sum_probs=55.8
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecc-cCCceEEEEEEECChhHHHHHHHHHhhhhceeeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL-NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~-~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
.+.....+..|.+..+..+|...++++.++..... ..+..++.+.+........++.++|+++++|.+|.
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~v~~v~ 72 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVVEGDDDVIEQIVKQLNKLVDVLKVS 72 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEEECCHHHHHHHHHHHhCCccEEEeC
Confidence 45667788899999999999999999999998433 23445677777643388999999999999998773
No 89
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=95.74 E-value=0.076 Score=38.97 Aligned_cols=70 Identities=23% Similarity=0.374 Sum_probs=57.1
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEE-CChhHHHHHHHHHhhhhceeeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
.+.....+..|.|+.+...+..-|.|+.++.+.... .+..++.+.++ .+-+...+|++.|+++++|.+|.
T Consensus 8 ~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 8 RLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 677788899999999999999999999999995543 45566666666 67889999999999999999886
No 90
>PF02122 Peptidase_S39: Peptidase S39; InterPro: IPR000382 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. ORF2 of Potato leafroll virus (PLrV) encodes a polyprotein which is translated following a -1 frameshift. The polyprotein has a putative linear arrangement of membrane achor-VPg-peptidase-polmerase domains. The serine peptidase domain which is found in this group of sequences belongs to MEROPS peptidase family S39 (clan PA(S)). It is likely that the peptidase domain is involved in the cleavage of the polyprotein []. The nucleotide sequence for the RNA of PLrV has been determined [, ]. The sequence contains six large open reading frames (ORFs). The 5' coding region encodes two polypeptides of 28K and 70K, which overlap in different reading frames; it is suggested that the third ORF in the 5' block is translated by frameshift readthrough near the end of the 70K protein, yielding a 118K polypeptide []. Segments of the predicted amino acid sequences of these ORFs resemble those of known viral RNA polymerases, ATP-binding proteins and viral genome-linked proteins. The nucleotide sequence of the genomic RNA of Beet western yellows virus (BWYV) has been determined []. The sequence contains six long ORFs. A cluster of three of these ORFs, including the coat protein cistron, display extensive amino acid sequence similarity to corresponding ORFs of a second luteovirus: Barley yellow dwarf virus [].; GO: 0004252 serine-type endopeptidase activity, 0022415 viral reproductive process, 0016021 integral to membrane; PDB: 1ZYO_A.
Probab=95.66 E-value=0.062 Score=47.02 Aligned_cols=135 Identities=18% Similarity=0.245 Sum_probs=48.4
Q ss_pred EEEecccccCCCCeEEEEecCCcEEEE---EEEEEcCCCCEEEEEEcCCCC---CccceEecCCCCCCCCCEEEEEecCC
Q 018198 198 HIVTNYHVICGASTVKVSFSDQSTFYA---QVVGHDQVNDLAVLHIDAPNH---ELRPIHVSVSADLRVGKKIYAIGHPL 271 (359)
Q Consensus 198 ~vlT~~Hvv~~~~~~~v~~~~g~~~~~---~v~~~d~~~DlAll~v~~~~~---~~~~~~l~~~~~~~~G~~v~~iG~p~ 271 (359)
.++|+.||..+..... .+.+|+.++- +.+..+...|++|++..+.-. ..+.+.+.....+..| ...
T Consensus 43 ~L~ta~Hv~~~~~~~~-~~k~g~kipl~~f~~~~~~~~~D~~il~~P~n~~s~Lg~k~~~~~~~~~~~~g----~~~--- 114 (203)
T PF02122_consen 43 ALLTARHVWSRPSKVT-SLKTGEKIPLAEFTDLLESRIADFVILRGPPNWESKLGVKAAQLSQNSQLAKG----PVS--- 114 (203)
T ss_dssp EEEE-HHHHTSSS----EEETTEEEE--S-EEEEE-TTT-EEEEE--HHHHHHHT-----B----SEEEE----ESS---
T ss_pred ceecccccCCCcccee-EcCCCCcccchhChhhhCCCccCEEEEecCcCHHHHhCcccccccchhhhCCC----Cee---
Confidence 7999999998855543 4455555442 345567889999999984211 2333333211111000 000
Q ss_pred CCCCceeEeEEeeeecccCCcccccEEEEcccCCCCCccceeecCCCeEEEEEeeec-CCCcceeEEEEehHHH
Q 018198 272 GWSFTCTTGVISALDREIPGRLIQGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFIT-SGAFSGIGFALPIDTV 344 (359)
Q Consensus 272 ~~~~~~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~-~~~~~~~~~aip~~~i 344 (359)
.+....+.-......+.+. .......-+...+|.||.|+|+.+ +++|++.... .....+.++..|+.-+
T Consensus 115 --~y~~~~~~~~~~sa~i~g~-~~~~~~vls~T~~G~SGtp~y~g~-~vvGvH~G~~~~~~~~n~n~~spip~~ 184 (203)
T PF02122_consen 115 --FYGFSSGEWPCSSAKIPGT-EGKFASVLSNTSPGWSGTPYYSGK-NVVGVHTGSPSGSNRENNNRMSPIPPI 184 (203)
T ss_dssp --TTSEEEEEEEEEE-S-----STTEEEE-----TT-TT-EEE-SS--EEEEEEEE------------------
T ss_pred --eeeecCCCceeccCccccc-cCcCCceEcCCCCCCCCCCeEECC-CceEeecCccccccccccccccccccc
Confidence 1111111111111111111 123556667788999999999877 8999999853 1222445555555433
No 91
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=95.45 E-value=0.044 Score=38.51 Aligned_cols=68 Identities=16% Similarity=0.262 Sum_probs=55.7
Q ss_pred EEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 48 SVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 48 ~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.....+..|.++.+...|..+|+++.++.....+ .+...+++.+.. . ...++.+.|++.+.|.+|.++
T Consensus 3 ~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v~~-~-~~~~l~~~l~~~~~V~~v~~~ 71 (71)
T cd04879 3 LIVHKDVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDVDS-P-VPEEVLEELKALPGIIRVRLI 71 (71)
T ss_pred EEEecCCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEcCC-C-CCHHHHHHHHcCCCeEEEEEC
Confidence 4566788999999999999999999999995544 456677777744 3 578999999999999998863
No 92
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.83 E-value=0.18 Score=35.51 Aligned_cols=68 Identities=24% Similarity=0.368 Sum_probs=55.3
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeee
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
+.....+..|.++....+|...++++.++.......+..++++.+.+. .....+.+.|++..+|..+.
T Consensus 3 l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~-~~~~~~~~~L~~~~~v~~v~ 70 (72)
T cd04874 3 LSIIAEDKPGVLRDLTGVIAEHGGNITYTQQFIEREGKARIYMELEGV-GDIEELVEELRSLPIVREVE 70 (72)
T ss_pred EEEEeCCCCChHHHHHHHHHhCCCCEEEEEEeccCCCeEEEEEEEecc-ccHHHHHHHHhCCCCeEEEE
Confidence 445677889999999999999999999998843334556788777765 68889999999999998775
No 93
>COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown]
Probab=94.53 E-value=0.13 Score=37.27 Aligned_cols=73 Identities=19% Similarity=0.247 Sum_probs=56.8
Q ss_pred eeEEEEeecCCCCccchhhhhhhhccceeeeeEeecc-cCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 44 RHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL-NKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 44 ~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~-~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.+....+..+..|-+.=..--.|||..-.+.|+.. +.+...+-+++.+ ++..+-+..||+|+.||..|.-.
T Consensus 3 qyqldl~ar~~pe~leRVLrvtrhRGF~vcamnmt~~~da~~~nie~tV~s-~R~~~lL~~QLeKl~Dv~~V~i~ 76 (86)
T COG3978 3 QYQLDLSARFNPETLERVLRVTRHRGFRVCAMNMTAAVDAGNANIELTVDS-DRSVDLLTSQLEKLYDVAHVEIT 76 (86)
T ss_pred eEEEeeeccCChHHHHHHHHHhhhcCeEEEEeecccccccccceEEEEEcC-CCChHHHHHHHHHHccceeEEEe
Confidence 4556666677778888888888899999999999543 3444456777766 56889999999999999999864
No 94
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.46 E-value=0.14 Score=36.01 Aligned_cols=68 Identities=22% Similarity=0.340 Sum_probs=54.1
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeee
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
+.....+..|.+..+..+|...|.++.++.....+ .+...+.+.+... ...++.+.|++++.|.+|.+
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i~v~~~--~~~~~i~~l~~~~~v~~v~~ 70 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVIEVDQP--IDEEVIEEIKKIPNIHQVIL 70 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEEEeCCC--CCHHHHHHHHcCCCceEEEE
Confidence 34567788999999999999999999999884422 3455666666554 78899999999999999876
No 95
>PF09342 DUF1986: Domain of unknown function (DUF1986); InterPro: IPR015420 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found in serine endopeptidases belonging to MEROPS peptidase family S1A (clan PA). It is found in unusual mosaic proteins, which are encoded by the Drosophila nudel gene (see P98159 from SWISSPROT). Nudel is involved in defining embryonic dorsoventral polarity. Three proteases; ndl, gd and snk process easter to create active easter. Active easter defines cell identities along the dorsal-ventral continuum by activating the spz ligand for the Tl receptor in the ventral region of the embryo. Nudel, pipe and windbeutel together trigger the protease cascade within the extraembryonic perivitelline compartment which induces dorsoventral polarity of the Drosophila embryo [].
Probab=94.16 E-value=0.51 Score=42.11 Aligned_cols=97 Identities=20% Similarity=0.257 Sum_probs=66.0
Q ss_pred CCeeEEEEeeeeecCCcccccccceEEEEEEeCCCEEEecccccCCC----CeEEEEecCCcEEEE------EEEEEc--
Q 018198 163 ISSVVWIGNLGIREDQSETEFLRGSGAGFLWDQDGHIVTNYHVICGA----STVKVSFSDQSTFYA------QVVGHD-- 230 (359)
Q Consensus 163 ~~svV~I~~~~~~~~~~~~~~~~~~GsGfii~~~g~vlT~~Hvv~~~----~~~~v~~~~g~~~~~------~v~~~d-- 230 (359)
-|....|...+ +-.|||++|+++ |+|++-.|+.+. ..+.+.++.++++.- ++..+|
T Consensus 16 WPWlA~IYvdG-----------~~~CsgvLlD~~-WlLvsssCl~~I~L~~~YvsallG~~Kt~~~v~Gp~EQI~rVD~~ 83 (267)
T PF09342_consen 16 WPWLADIYVDG-----------RYWCSGVLLDPH-WLLVSSSCLRGISLSHHYVSALLGGGKTYLSVDGPHEQISRVDCF 83 (267)
T ss_pred CcceeeEEEcC-----------eEEEEEEEeccc-eEEEeccccCCcccccceEEEEecCcceecccCCChheEEEeeee
Confidence 46666676532 347999999987 999999999773 346777777765431 333333
Q ss_pred ---CCCCEEEEEEcCCCC---CccceEecC-CCCCCCCCEEEEEecCC
Q 018198 231 ---QVNDLAVLHIDAPNH---ELRPIHVSV-SADLRVGKKIYAIGHPL 271 (359)
Q Consensus 231 ---~~~DlAll~v~~~~~---~~~~~~l~~-~~~~~~G~~v~~iG~p~ 271 (359)
++.+++||.++.+.. .+.|..+.+ .......+.++++|.-.
T Consensus 84 ~~V~~S~v~LLHL~~~~~fTr~VlP~flp~~~~~~~~~~~CVAVg~d~ 131 (267)
T PF09342_consen 84 KDVPESNVLLLHLEQPANFTRYVLPTFLPETSNENESDDECVAVGHDD 131 (267)
T ss_pred eeccccceeeeeecCcccceeeecccccccccCCCCCCCceEEEEccc
Confidence 688999999987654 455666644 23344455788888643
No 96
>PRK06349 homoserine dehydrogenase; Provisional
Probab=94.16 E-value=0.13 Score=50.63 Aligned_cols=71 Identities=23% Similarity=0.411 Sum_probs=60.4
Q ss_pred eeEEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhceeee
Q 018198 44 RHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKV 114 (359)
Q Consensus 44 ~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v 114 (359)
++.++..+++..|+|+.+..+|..+|+++.++.....+.+..++++++. .++..++++.++|+|+.+|...
T Consensus 348 ~yylRl~v~d~pGvLa~I~~~f~~~~vsI~si~q~~~~~~~~~ivivT~~~~e~~l~~~i~~L~~l~~V~~~ 419 (426)
T PRK06349 348 KYYLRLLVADKPGVLAKIAAIFAENGISIESILQKGAGGEGAEIVIVTHETSEAALRAALAAIEALDVVLGI 419 (426)
T ss_pred eEEEEEEecCCcchHHHHHHHHhhcCccEEEEEeccCCCCceeEEEEEEeCCHHHHHHHHHHHhcCcccccc
Confidence 3567788899999999999999999999999988544345678888888 8899999999999999988553
No 97
>PF00944 Peptidase_S3: Alphavirus core protein ; InterPro: IPR000930 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. Togavirin, also known as Sindbis virus core endopeptidase, is a serine protease resident at the N terminus of the p130 polyprotein of togaviruses []. The endopeptidase signature identifies the peptidase as belonging to the MEROPS peptidase family S3 (togavirin family, clan PA(S)). The polyprotein also includes structural proteins for the nucleocapsid core and for the glycoprotein spikes []. Togavirin is only active while part of the polyprotein, cleavage at a Trp-Ser bond resulting in total lack of activity []. Mutagenesis studies have identified the location of the His-Asp-Ser catalytic triad, and X-ray studies have revealed the protein fold to be similar to that of chymotrypsin [, ].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 2YEW_D 1EP5_A 3J0C_F 1EP6_C 1WYK_D 1DYL_A 1VCQ_B 1VCP_B 1LD4_D 1KXA_A ....
Probab=94.08 E-value=0.13 Score=41.37 Aligned_cols=29 Identities=24% Similarity=0.400 Sum_probs=24.5
Q ss_pred cccCCCCCccceeecCCCeEEEEEeeecC
Q 018198 301 DASVNLGNSGGPLLDSSGSLIGVNTFITS 329 (359)
Q Consensus 301 ~~~~~~G~SGgPl~~~~G~viGi~~~~~~ 329 (359)
.....+|+||-|++|..|+||||+-.+.+
T Consensus 100 ~g~g~~GDSGRpi~DNsGrVVaIVLGG~n 128 (158)
T PF00944_consen 100 TGVGKPGDSGRPIFDNSGRVVAIVLGGAN 128 (158)
T ss_dssp TTS-STTSTTEEEESTTSBEEEEEEEEEE
T ss_pred cCCCCCCCCCCccCcCCCCEEEEEecCCC
Confidence 44567899999999999999999988763
No 98
>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains. The ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) encoded by the hom gene of Bacillus subtilis and other related sequences. HSDH reduces aspartate semi-aldehyde to the amino acid homoserine, one that is required for the biosynthesis of Met, Thr, and Ile from Asp. Neither the enzyme nor the aspartate pathway is found in the animal kingdom. This mostly bacterial HSDH group has a C-terminal ACT domain and is believed to be involved in enzyme regulation. A C-terminal deletion in the Corynebacterium glutamicum HSDH abolished allosteric inhibition by L-threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=93.91 E-value=0.26 Score=35.33 Aligned_cols=69 Identities=22% Similarity=0.371 Sum_probs=54.6
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccC-CceEEEEEEE-CChhHHHHHHHHHhhhhceeeee
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNK-DRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~-~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
+.....+..|.++.+..++...|.++.+++...... +..++.+++. .+.+...++.++|+++++|..+.
T Consensus 3 l~i~~~d~~g~l~~i~~~l~~~~i~I~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~i~~L~~~~~V~~~~ 73 (79)
T cd04881 3 LRLTVKDKPGVLAKITGILAEHGISIESVIQKEADGGETAPVVIVTHETSEAALNAALAEIEALDAVQGVP 73 (79)
T ss_pred EEEEeCCCCcHHHHHHHHHHHcCCCeEEEEEcccCCCCceeEEEEEccCCHHHHHHHHHHHHcCccccCCc
Confidence 455677888999999999999999999998844332 5556666554 67888999999999999886654
No 99
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=93.78 E-value=0.47 Score=34.06 Aligned_cols=70 Identities=17% Similarity=0.278 Sum_probs=53.2
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE--CChhHHHHHHHHHhhhhceeeeee
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF--GTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~--~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
+.....+..|.++.+...+...|.+++.+.......+..++.++++ ..+....+|++.|++++.|..|.-
T Consensus 3 l~i~~~d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 3 LSLLLEHRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEecCCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 4456677789999999999999999999977322223445555555 333489999999999999999874
No 100
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=93.41 E-value=0.2 Score=35.60 Aligned_cols=67 Identities=19% Similarity=0.272 Sum_probs=53.2
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
....+..|.++.+...|..+|+|+.++.+.... .+...+.+.++. .....+.+.|++...|.++.++
T Consensus 4 v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~~--~~~~~~~~~l~~~~~v~~v~~~ 71 (73)
T cd04902 4 VRNTDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVDE--PVPDEVLEELRALPGILSAKVV 71 (73)
T ss_pred EEeCCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeCC--CCCHHHHHHHHcCCCccEEEEE
Confidence 356788999999999999999999999885442 345556666665 3456899999999999998875
No 101
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=93.18 E-value=0.51 Score=32.18 Aligned_cols=66 Identities=20% Similarity=0.270 Sum_probs=52.6
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhceeeee
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
...+..|.++.+..+|...++++..++......+...+.+++. .+......+.+.|++++.|..+.
T Consensus 4 ~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~v~~v~ 70 (71)
T cd04876 4 EAIDRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTLEVRDLEHLARIMRKLRQIPGVIDVR 70 (71)
T ss_pred EEeccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEEEECCHHHHHHHHHHHhCCCCcEEEE
Confidence 4567788999999999999999999998443334556667666 56778999999999999987764
No 102
>PF02395 Peptidase_S6: Immunoglobulin A1 protease Serine protease Prosite pattern; InterPro: IPR000710 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S6 (clan PA(S)). The type sample being the IgA1-specific serine endopeptidase from Neisseria gonorrhoeae []. These cleave prolyl bonds in the hinge regions of immunoglobulin A heavy chains. Similar specificity is shown by the unrelated family of M26 metalloendopeptidases.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 3SZE_A 3H09_B 3SYJ_A 1WXR_A 3AK5_B.
Probab=92.67 E-value=1 Score=47.35 Aligned_cols=162 Identities=19% Similarity=0.180 Sum_probs=74.8
Q ss_pred eEEEEEEeCCCEEEecccccCCCCeEEEEecCCcEEEEEEEEE--cCCCCEEEEEEcCCCCCccceEecCCCC-------
Q 018198 187 SGAGFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYAQVVGH--DQVNDLAVLHIDAPNHELRPIHVSVSAD------- 257 (359)
Q Consensus 187 ~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~~--d~~~DlAll~v~~~~~~~~~~~l~~~~~------- 257 (359)
.|...+|++. ||+|.+|...+...+..--.+...| +++.. .+..|+.+-|+..-..+..|+.+.....
T Consensus 66 ~G~aTLigpq-YiVSV~HN~~gy~~v~FG~~g~~~Y--~iV~RNn~~~~Df~~pRLnK~VTEvaP~~~t~~~~~~~~y~d 142 (769)
T PF02395_consen 66 KGVATLIGPQ-YIVSVKHNGKGYNSVSFGNEGQNTY--KIVDRNNYPSGDFHMPRLNKFVTEVAPAEMTTAGSDSNTYND 142 (769)
T ss_dssp TSS-EEEETT-EEEBETTG-TSCCEECESCSSTCEE--EEEEEEBETTSTEBEEEESS---SS----BBSSTTSTTGGGH
T ss_pred CceEEEecCC-eEEEEEccCCCcCceeecccCCceE--EEEEccCCCCcccceeecCceEEEEecccccccccccccccc
Confidence 3778899987 9999999986655444333334455 44443 3446999999986544444444432200
Q ss_pred CCCCCEEEEEecC-------CC--------CCCceeEeEEeeeecccCCcc-----cccEEEEc----ccCCCCCcccee
Q 018198 258 LRVGKKIYAIGHP-------LG--------WSFTCTTGVISALDREIPGRL-----IQGVIQID----ASVNLGNSGGPL 313 (359)
Q Consensus 258 ~~~G~~v~~iG~p-------~~--------~~~~~~~G~vs~~~~~~~~~~-----~~~~i~~~----~~~~~G~SGgPl 313 (359)
...=...+-+|.. .+ ...-.+.|.+........+.. .......+ ....+||||+||
T Consensus 143 ~~rY~~f~R~GsG~Q~i~~~~g~~~~~~~~ay~yltgGt~~~~~~~~n~~~~~~~~~~~~~~~~~pL~n~~~~GDSGSPl 222 (769)
T PF02395_consen 143 KERYPAFVRVGSGTQYIKDRNGNGTTILGGAYNYLTGGTVYNLPGYGNGSMILSGDLKKFNSYNGPLPNYGSPGDSGSPL 222 (769)
T ss_dssp TTTC-EEEEEESSSEEEEECCEEEEEEEEETTSCEEEEEESSEEEEECTCEEEEESTTTCCCCCSSSBEB--TT-TT-EE
T ss_pred chhchheeecCCceEEEEcCCCCeeEEEEeccceecCCccccccccccceEEEecccccccccCCccccccccCcCCCce
Confidence 0000112223211 11 001122233322111000000 00001111 234579999999
Q ss_pred e--cC---CCeEEEEEeeecCC-CcceeEEEEehHHHHHHHHHH
Q 018198 314 L--DS---SGSLIGVNTFITSG-AFSGIGFALPIDTVRGIVDQL 351 (359)
Q Consensus 314 ~--~~---~G~viGi~~~~~~~-~~~~~~~aip~~~i~~~l~~l 351 (359)
| |. +..++|+.+..... +.......+|.+.+.++.++.
T Consensus 223 F~YD~~~kKWvl~Gv~~~~~~~~g~~~~~~~~~~~f~~~~~~~d 266 (769)
T PF02395_consen 223 FAYDKEKKKWVLVGVLSGGNGYNGKGNWWNVIPPDFINQIKQND 266 (769)
T ss_dssp EEEETTTTEEEEEEEEEEECCCCHSEEEEEEECHHHHHHHHHHC
T ss_pred EEEEccCCeEEEEEEEccccccCCccceeEEecHHHHHHHHhhh
Confidence 8 32 34699998887632 223455678888887776653
No 103
>PF05416 Peptidase_C37: Southampton virus-type processing peptidase; InterPro: IPR001665 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 MEROPS peptidase family C37, (clan PA(C)). The type example is calicivirin from Southampton virus, an endopeptidase that cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase. Southampton virus is a positive-stranded ssRNA virus belonging to the Caliciviruses, which are viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity []. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses []. ORF2 encodes a structural, capsid protein. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely the Norwalk-like viruses or small round structured viruses (SRSVs), and those classed as non-SRSVs.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 2FYQ_A 2FYR_A 1WQS_D 4ASH_A 2IPH_B.
Probab=92.67 E-value=1 Score=43.28 Aligned_cols=136 Identities=20% Similarity=0.290 Sum_probs=71.2
Q ss_pred ceEEEEEEeCCCEEEecccccCCC-CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCC-CccceEecCCCCCCCCCE
Q 018198 186 GSGAGFLWDQDGHIVTNYHVICGA-STVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNH-ELRPIHVSVSADLRVGKK 263 (359)
Q Consensus 186 ~~GsGfii~~~g~vlT~~Hvv~~~-~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~-~~~~~~l~~~~~~~~G~~ 263 (359)
++|-||.++++ .++|+-||+... .++. | .+..-+.++..-+++-+++..+.. +++-+-|. +-.+.|.-
T Consensus 379 GsGWGfWVS~~-lfITttHViP~g~~E~F-----G--v~i~~i~vh~sGeF~~~rFpk~iRPDvtgmiLE--eGapEGtV 448 (535)
T PF05416_consen 379 GSGWGFWVSPT-LFITTTHVIPPGAKEAF-----G--VPISQIQVHKSGEFCRFRFPKPIRPDVTGMILE--EGAPEGTV 448 (535)
T ss_dssp TTEEEEESSSS-EEEEEGGGS-STTSEET-----T--EECGGEEEEEETTEEEEEESS-SSTTS---EE---SS--TT-E
T ss_pred CCceeeeecce-EEEEeeeecCCcchhhh-----C--CChhHeEEeeccceEEEecCCCCCCCccceeec--cCCCCceE
Confidence 57999999997 999999999543 2221 1 011113345567888888876543 35555563 23345655
Q ss_pred EEE-EecCCCC--CCceeEeEEeeeecccCCcc---cccEEEE-------cccCCCCCccceeecCCC---eEEEEEeee
Q 018198 264 IYA-IGHPLGW--SFTCTTGVISALDREIPGRL---IQGVIQI-------DASVNLGNSGGPLLDSSG---SLIGVNTFI 327 (359)
Q Consensus 264 v~~-iG~p~~~--~~~~~~G~vs~~~~~~~~~~---~~~~i~~-------~~~~~~G~SGgPl~~~~G---~viGi~~~~ 327 (359)
+.+ |=.|.|. +..+..|......- .+.. ...++.+ |-.+.||+-|.|-+-..| -|+|++.+.
T Consensus 449 ~siLiKR~sGEllpLAvRMgt~AsmkI--qgr~v~GQ~GMLLTGaNAK~mDLGT~PGDCGcPYvyKrgNd~VV~GVH~AA 526 (535)
T PF05416_consen 449 CSILIKRPSGELLPLAVRMGTHASMKI--QGRTVHGQMGMLLTGANAKGMDLGTIPGDCGCPYVYKRGNDWVVIGVHAAA 526 (535)
T ss_dssp EEEEEE-TTSBEEEEEEEEEEEEEEEE--TTEEEEEEEEEETTSTT-SSTTTS--TTGTT-EEEEEETTEEEEEEEEEEE
T ss_pred EEEEEEcCCccchhhhhhhccceeEEE--cceeecceeeeeeecCCccccccCCCCCCCCCceeeecCCcEEEEEEEehh
Confidence 443 4455543 33445554444321 1110 0112221 445679999999995544 699999998
Q ss_pred cCCCcc
Q 018198 328 TSGAFS 333 (359)
Q Consensus 328 ~~~~~~ 333 (359)
..+++.
T Consensus 527 tr~GNT 532 (535)
T PF05416_consen 527 TRSGNT 532 (535)
T ss_dssp -SSSSE
T ss_pred ccCCCe
Confidence 866653
No 104
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=92.50 E-value=0.74 Score=32.87 Aligned_cols=67 Identities=13% Similarity=0.280 Sum_probs=53.9
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhceee
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNVLK 113 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~ 113 (359)
+.....+..|.|+.+...+...|.|+.++.+.....+...+.++++ .+.+.+.++.+.|+++++|.-
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~~~~~l~~i~~~L~~i~gV~~ 69 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAPSEEHAETIVAAVRALPEVKV 69 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcCCHHHHHHHHHHHhcCCCeEE
Confidence 3456678899999999999999999999988433345556777777 578899999999999998753
No 105
>PRK08577 hypothetical protein; Provisional
Probab=92.43 E-value=0.73 Score=37.67 Aligned_cols=73 Identities=25% Similarity=0.403 Sum_probs=58.6
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEE--CChhHHHHHHHHHhhhhceeeeeec
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVF--GTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~--~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
..+.....+..|.++.+..+|...+++++++...... .+..++.++++ ..+....++.++|+++++|..|.+.
T Consensus 57 ~~I~V~~~Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~vev~~~~~~l~~l~~~L~~l~~V~~V~~~ 132 (136)
T PRK08577 57 VEIELVVEDRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIVDLSKSDIDLEELEEELKKLEEVKEVEIR 132 (136)
T ss_pred EEEEEEEcCCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEEEeCCchhhHHHHHHHHHcCCCEEEEEEE
Confidence 3577888999999999999999999999999884333 34455666555 3336789999999999999999875
No 106
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=92.16 E-value=0.2 Score=35.24 Aligned_cols=66 Identities=12% Similarity=0.220 Sum_probs=51.4
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
...++..|.++.+...+...|.|+.++.... +.+...+.+.++.. ...++.++|+++++|.+|.++
T Consensus 4 ~~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~-~~~~a~~~~~~~~~--~l~~li~~l~~~~~V~~v~~~ 69 (69)
T cd04901 4 HIHKNVPGVLGQINTILAEHNINIAAQYLQT-RGEIGYVVIDIDSE--VSEELLEALRAIPGTIRVRLL 69 (69)
T ss_pred EEecCCCcHHHHHHHHHHHcCCCHHHHhccC-CCCEEEEEEEcCCC--CCHHHHHHHHcCCCeEEEEEC
Confidence 4667889999999999999999998887622 22444455555544 778999999999999998764
No 107
>PRK13034 serine hydroxymethyltransferase; Reviewed
Probab=91.19 E-value=0.11 Score=51.08 Aligned_cols=37 Identities=19% Similarity=0.169 Sum_probs=28.8
Q ss_pred CccccccccCCcEEEeeecccccCCcceeeeeeeeccccce
Q 018198 3 PVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQ 43 (359)
Q Consensus 3 p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~ 43 (359)
+..+.|++ ++|++++|++|+++||. ||.++++++.+.
T Consensus 213 g~~~~~~~-~~Di~~~s~~K~l~g~~---GG~v~~~~~~~~ 249 (416)
T PRK13034 213 GEHPNPFP-HAHVVTTTTHKTLRGPR---GGMILTNDEEIA 249 (416)
T ss_pred CCCCCCCC-CceEEEEeCcccCCCCC---CeEEEECcHHHH
Confidence 44566775 59999999999998876 777777766553
No 108
>PF03510 Peptidase_C24: 2C endopeptidase (C24) cysteine protease family; InterPro: IPR000317 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 []. The two signatures that defines this group of calivirus polyproteins identify a cysteine peptidase signature that belongs to MEROPS peptidase family C24 (clan PA(C)). Caliciviruses are positive-stranded ssRNA viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF2 encodes a structural protein []; while ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely those classified as small round structured viruses (SRSVs) and those classed as non-SRSVs. Calicivirus proteases from the non-SRSV group, which are members of the PA protease clan, constitute family C24 of the cysteine proteases (proteases from SRSVs belong to the C37 family). As mentioned above, the protease activity resides within a polyprotein. The enzyme cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=91.15 E-value=0.83 Score=35.39 Aligned_cols=101 Identities=21% Similarity=0.349 Sum_probs=53.6
Q ss_pred EEEEeCCCEEEecccccCCCCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEec
Q 018198 190 GFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIGH 269 (359)
Q Consensus 190 Gfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG~ 269 (359)
++-|. +|.++|+.|+.+..+.+. |..+ +++ ...-|+|+++.+... .+..++++ |.+++ +
T Consensus 3 avHIG-nG~~vt~tHva~~~~~v~-----g~~f--~~~--~~~ge~~~v~~~~~~--~p~~~ig~------g~Pv~---~ 61 (105)
T PF03510_consen 3 AVHIG-NGRYVTVTHVAKSSDSVD-----GQPF--KIV--KTDGELCWVQSPLVH--LPAAQIGT------GKPVY---D 61 (105)
T ss_pred eEEeC-CCEEEEEEEEeccCceEc-----CcCc--EEE--EeccCEEEEECCCCC--CCeeEecc------CCCEE---e
Confidence 45565 689999999988765432 2111 222 245699999998754 56666653 44555 2
Q ss_pred CCCCCCc--eeEeEEeeeecccCCcccccEEEEcccCCCCCccceeec
Q 018198 270 PLGWSFT--CTTGVISALDREIPGRLIQGVIQIDASVNLGNSGGPLLD 315 (359)
Q Consensus 270 p~~~~~~--~~~G~vs~~~~~~~~~~~~~~i~~~~~~~~G~SGgPl~~ 315 (359)
+.+.... ...+..........+ -.......+.+||-|-|.||
T Consensus 62 ~~~~~~~t~~~~~~~~t~~~~v~G----~~~~~~~~T~~GDCGlPY~d 105 (105)
T PF03510_consen 62 TWGLHPVTTWSEGTYNTPTGTVNG----WHVKITNPTKKGDCGLPYFD 105 (105)
T ss_pred cCCCccEEEeccceEEcCCcEEEE----EEEeCCCCccCCccCCcccC
Confidence 2222211 111111111100001 11223337788999999886
No 109
>PF02907 Peptidase_S29: Hepatitis C virus NS3 protease; InterPro: IPR004109 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This signature identifies the Hepatitis C virus NS3 protein as a serine protease which belongs to MEROPS peptidase family S29 (hepacivirin family, clan PA(S)), which has a trypsin-like fold. The non-structural (NS) protein NS3 is one of the NS proteins involved in replication of the HCV genome. The NS2 proteinase (IPR002518 from INTERPRO), a zinc-dependent enzyme, performs a single proteolytic cut to release the N terminus of NS3. The action of NS3 proteinase (NS3P), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. The C-terminal two-thirds of the NS3 protein contain a helicase. The functional relationship between the proteinase and helicase domains is unknown. NS3 has a structural zinc-binding site and requires cofactor NS4. It has been suggested that the NS3 serine protease of hepatitus C is involved in cell transformation and that the ability to transform requires an active enzyme [].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis, 0019087 transformation of host cell by virus; PDB: 2QV1_B 3LOX_C 2OBQ_C 2OC1_C 2OC0_A 3LON_A 3KNX_A 2O8M_A 2OBO_A 2OC8_A ....
Probab=91.05 E-value=0.42 Score=38.51 Aligned_cols=128 Identities=21% Similarity=0.280 Sum_probs=61.2
Q ss_pred EEEEEeCCCEEEecccccCCCCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEEEe
Q 018198 189 AGFLWDQDGHIVTNYHVICGASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYAIG 268 (359)
Q Consensus 189 sGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~iG 268 (359)
-|+.|+ |..-|.+|--.... +--.-| +..-.+.+.+.|+..-........+.+-.-+ -+.+|++=
T Consensus 15 mgt~vn--GV~wT~~HGagsrt---lAgp~G---pv~q~~~s~~~Dlv~~p~P~Ga~SL~pCtCg-------~~dlylVt 79 (148)
T PF02907_consen 15 MGTCVN--GVMWTVYHGAGSRT---LAGPKG---PVNQMYTSVDDDLVGWPAPPGARSLTPCTCG-------SSDLYLVT 79 (148)
T ss_dssp EEEEET--TEEEEEHHHHTTSE---EEBTTS---EB-ESEEETTTTEEEEE-STTB--BBB-SSS-------SSEEEEE-
T ss_pred ehhEEc--cEEEEEEecCCccc---ccCCCC---cceEeEEcCCCCCcccccccccccCCccccC-------CccEEEEe
Confidence 466775 67888888643310 100111 1233456778898887776644333332222 13566663
Q ss_pred cCCCCCCceeEeEEeeeecccCCcccccEEEE--cccCCCCCccceeecCCCeEEEEEeeec--CCCcceeEEEEehHHH
Q 018198 269 HPLGWSFTCTTGVISALDREIPGRLIQGVIQI--DASVNLGNSGGPLLDSSGSLIGVNTFIT--SGAFSGIGFALPIDTV 344 (359)
Q Consensus 269 ~p~~~~~~~~~G~vs~~~~~~~~~~~~~~i~~--~~~~~~G~SGgPl~~~~G~viGi~~~~~--~~~~~~~~~aip~~~i 344 (359)
.- ..+-. ..+..... . .+.. -.....|.||||++-.+|.+|||..+.. .+--..+.| +|...+
T Consensus 80 r~----~~v~p-----~rr~gd~~--~-~L~sp~pis~lkGSSGgPiLC~~GH~vG~f~aa~~trgvak~i~f-~P~e~l 146 (148)
T PF02907_consen 80 RD----ADVIP-----VRRRGDSR--A-SLLSPRPISDLKGSSGGPILCPSGHAVGMFRAAVCTRGVAKAIDF-IPVETL 146 (148)
T ss_dssp TT----S-EEE-----EEEESTTE--E-EEEEEEEHHHHTT-TT-EEEETTSEEEEEEEEEEEETTEEEEEEE-EEHHHH
T ss_pred cc----CcEee-----eEEcCCCc--e-EecCCceeEEEecCCCCcccCCCCCEEEEEEEEEEcCCceeeEEE-Eeeeec
Confidence 31 11111 11111100 0 0111 1123469999999988999999988776 222233444 487654
No 110
>PRK04435 hypothetical protein; Provisional
Probab=90.02 E-value=1.8 Score=35.98 Aligned_cols=72 Identities=25% Similarity=0.318 Sum_probs=56.8
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEEC--ChhHHHHHHHHHhhhhceeeeeec
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFG--TDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~--~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.+.....+..|.|+.+...+...|.|++.+...-...+...++++++. ....+.+|...|++++.|.+|.-+
T Consensus 71 tL~i~l~Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVevs~~~~~L~~Li~~L~~i~gV~~V~i~ 144 (147)
T PRK04435 71 TLSLLLEDRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDTSSMEGDIDELLEKLRNLDGVEKVELI 144 (147)
T ss_pred EEEEEEecCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEeCChHHHHHHHHHHHHcCCCcEEEEEE
Confidence 566778888999999999999999999999763222344556666663 345899999999999999998754
No 111
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=88.86 E-value=1.9 Score=31.24 Aligned_cols=63 Identities=29% Similarity=0.439 Sum_probs=49.0
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLV 109 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~ 109 (359)
.+...-.+..|.++.+...+...|.|++.+|+.-. .+.-.+++.+..+++..+++.+.|+++-
T Consensus 4 vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~-~~~f~~~~~v~~~~~~~~~l~~~L~~l~ 66 (76)
T PF13740_consen 4 VITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVL-GGRFTLIMLVSIPEDSLERLESALEELA 66 (76)
T ss_dssp EEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEE-TTEEEEEEEEEESHHHHHHHHHHHHHHH
T ss_pred EEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEE-cCeEEEEEEEEeCcccHHHHHHHHHHHH
Confidence 46677789999999999999999999999999433 3444577778777889999999998863
No 112
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=88.48 E-value=1.6 Score=31.77 Aligned_cols=63 Identities=21% Similarity=0.286 Sum_probs=45.2
Q ss_pred EEeecCCCCccchhhhhhhhccceeeeeEeeccc-----CCceEEEEEEECCh-hHHHHHHHHHhhhhc
Q 018198 48 SVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-----KDRALFTMVVFGTD-RELQQVVKQLQKLVN 110 (359)
Q Consensus 48 ~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-----~~~~~~~~~~~~~~-~~~~~i~~~L~k~~~ 110 (359)
.....+..|.++.+..+|..+|+|++.++....+ .+.-.|++.+.... ....++.+.|+++.+
T Consensus 3 ~v~g~D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~~~~~l~~~l~~l~~ 71 (81)
T cd04869 3 EVVGNDRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPAGTDLDALREELEELCD 71 (81)
T ss_pred EEEeCCCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCCCHHHHHHHHHHHHH
Confidence 4567788999999999999999999999994332 13334555555433 357788887777653
No 113
>PRK00194 hypothetical protein; Validated
Probab=88.46 E-value=1.1 Score=33.49 Aligned_cols=70 Identities=21% Similarity=0.305 Sum_probs=50.3
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECC--hhHHHHHHHHHhhhhceeeee
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGT--DRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~--~~~~~~i~~~L~k~~~v~~v~ 115 (359)
+.+.....+.+|.++.+..+|..+|+|++.++.. ...+.-.+.+++... ....+.+.+.|+++.+...+.
T Consensus 4 ~~ltv~g~DrpGiva~vt~~la~~g~nI~~~~~~-~~~~~~~~~~~v~~~~~~~~~~~l~~~l~~l~~~~~~~ 75 (90)
T PRK00194 4 AIITVIGKDKVGIIAGVSTVLAELNVNILDISQT-IMDGYFTMIMLVDISESKKDFAELKEELEELGKELGVK 75 (90)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCEEehhhH-hhCCeeEEEEEEEecCCCCCHHHHHHHHHHHHHHcCCE
Confidence 4677888999999999999999999999999983 233333344454443 234677778787777655444
No 114
>PLN03227 serine palmitoyltransferase-like protein; Provisional
Probab=88.29 E-value=0.17 Score=49.17 Aligned_cols=59 Identities=15% Similarity=-0.013 Sum_probs=38.1
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNC 70 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~ 70 (359)
+|. .|+||+++|+||+++ .++|+++++.+.............+++.++|+.++-.+-.+
T Consensus 196 ~p~-~~~Div~~slsk~~g----~~gg~v~~~~~~~~~~~~~~~~~~~~~~~~p~~~~aa~~al 254 (392)
T PLN03227 196 KPM-VHAEIVTFSLENAFG----SVGGMTVGSEEVVDHQRLSGSGYCFSASAPPFLAKADATAT 254 (392)
T ss_pred CCC-CCceEEEeechhhhh----ccCcEEecCHHHHHHHHHhCcCccccCCCCHHHHHHHHHHH
Confidence 453 499999999999986 56676666654331111122334578888898777666444
No 115
>PF00947 Pico_P2A: Picornavirus core protein 2A; InterPro: IPR000081 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 domain defines cysteine peptidases belong to MEROPS peptidase family C3 (picornain, clan PA(C)), subfamilies 3CA and 3CB. The protein fold of this peptidase domain for members of this family resembles that of the serine peptidase, chymotrypsin [], the type example for clan PA. Picornaviral proteins are expressed as a single polyprotein which is cleaved by the viral 3C cysteine protease []. The poliovirus polyprotein is selectively cleaved between the Gln-|-Gly bond. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0016032 viral reproduction; PDB: 2HRV_B 1Z8R_A.
Probab=86.78 E-value=1.4 Score=35.26 Aligned_cols=33 Identities=21% Similarity=0.280 Sum_probs=25.0
Q ss_pred ccEEEEcccCCCCCccceeecCCCeEEEEEeeec
Q 018198 295 QGVIQIDASVNLGNSGGPLLDSSGSLIGVNTFIT 328 (359)
Q Consensus 295 ~~~i~~~~~~~~G~SGgPl~~~~G~viGi~~~~~ 328 (359)
.+++....+..||+.||+|+ .+--||||++++.
T Consensus 78 ~~~l~g~Gp~~PGdCGg~L~-C~HGViGi~Tagg 110 (127)
T PF00947_consen 78 YNLLIGEGPAEPGDCGGILR-CKHGVIGIVTAGG 110 (127)
T ss_dssp ECEEEEE-SSSTT-TCSEEE-ETTCEEEEEEEEE
T ss_pred cCceeecccCCCCCCCceeE-eCCCeEEEEEeCC
Confidence 35555667899999999999 5556999999974
No 116
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=86.54 E-value=3.6 Score=28.95 Aligned_cols=61 Identities=26% Similarity=0.392 Sum_probs=46.0
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~ 108 (359)
++...+.+..|.+..+...|...|+|+.++...... .+...+.+.++.++ .+++.+.|++.
T Consensus 3 ~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~--~~~~~~~L~~~ 64 (72)
T cd04883 3 QIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMN--PRPIIEDLRRA 64 (72)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCC--HHHHHHHHHHC
Confidence 355678899999999999999999999999875443 34556777777644 34777777664
No 117
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=86.41 E-value=4 Score=28.43 Aligned_cols=57 Identities=18% Similarity=0.420 Sum_probs=39.9
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQK 107 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k 107 (359)
++...+.+.+|.|+.+...|..+|+|+.++-+...++ ...+-+.+ .+ .+++.+-|++
T Consensus 3 ri~v~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~-~~~~rl~~-~~---~~~~~~~L~~ 59 (66)
T cd04908 3 QLSVFLENKPGRLAAVTEILSEAGINIRALSIADTSE-FGILRLIV-SD---PDKAKEALKE 59 (66)
T ss_pred EEEEEEcCCCChHHHHHHHHHHCCCCEEEEEEEecCC-CCEEEEEE-CC---HHHHHHHHHH
Confidence 5677899999999999999999999999998744333 23233333 22 3455555554
No 118
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=86.29 E-value=4.1 Score=28.92 Aligned_cols=64 Identities=13% Similarity=0.191 Sum_probs=45.3
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecc--cCCc--eEEEEEEECChhHHHHHHHHHhhhhce
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL--NKDR--ALFTMVVFGTDRELQQVVKQLQKLVNV 111 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~--~~~~--~~~~~~~~~~~~~~~~i~~~L~k~~~v 111 (359)
+...+.+.+|.|..+...+...|.|+.++..... +... ..+.+..+..+ ..++|.+.|++..++
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~g~nI~~i~~~~~~~~~~~~~~~v~v~~e~~~-~~~~i~~~L~~~~~~ 69 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREFNARIISILTAFEDAPDGMRRVFIRVTPMDRS-KENELIEELKAKFTV 69 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHCCCeEEEEEeccccCCCCccEEEEEEEEecch-HHHHHHHHHhCcccE
Confidence 4567889999999999999999999999987543 2222 33444443333 477888888765433
No 119
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=86.24 E-value=3.5 Score=33.21 Aligned_cols=73 Identities=25% Similarity=0.339 Sum_probs=59.2
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE--CChhHHHHHHHHHhhhhceeeeeec
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF--GTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~--~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.++....++.-|.||..=.-.+.+++|+|++.=.-.-.++..+|+.+. +-+..++.|+..|+|+..|.+|.-.
T Consensus 73 ~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi~~ssm~~~V~~ii~kl~k~e~V~kVeiv 147 (150)
T COG4492 73 ITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSIDTSSMEKDVDKIIEKLRKVEGVEKVEIV 147 (150)
T ss_pred EEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEEEchhhhhhHHHHHHHHhcccceeEEEEe
Confidence 477889999999999999999999999999876322234556777766 4478899999999999999998754
No 120
>COG1921 SelA Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]
Probab=85.38 E-value=0.16 Score=48.68 Aligned_cols=36 Identities=25% Similarity=0.271 Sum_probs=30.4
Q ss_pred ccccccccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 4 VVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 4 ~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
-++.-++.|||+|+.|.-|+++|-. +|.++++++.+
T Consensus 205 ~l~~~la~GaDLV~~SgdKllgGPq---aGii~GkKelI 240 (395)
T COG1921 205 DLREALALGADLVSFSGDKLLGGPQ---AGIIVGKKELI 240 (395)
T ss_pred chhHHHhcCCCEEEEecchhcCCCc---cceEechHHHH
Confidence 3456689999999999999999987 88888887654
No 121
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=85.05 E-value=2.1 Score=31.96 Aligned_cols=67 Identities=19% Similarity=0.263 Sum_probs=49.5
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECCh--hHHHHHHHHHhhhhceee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTD--RELQQVVKQLQKLVNVLK 113 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~--~~~~~i~~~L~k~~~v~~ 113 (359)
.+.....+..|.++.+..+|..+|.|++.++.. ...+.-.|.+++.... ....++.+.|+++.+-..
T Consensus 3 vl~i~g~D~pGiva~vt~~la~~g~nI~~~~~~-~~~~~f~~~~~v~~~~~~~~~~~L~~~l~~l~~~~~ 71 (88)
T cd04872 3 VITVVGKDRVGIVAGVSTKLAELNVNILDISQT-IMDGYFTMIMIVDISESNLDFAELQEELEELGKELG 71 (88)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCEEechhH-hhCCccEEEEEEEeCCCCCCHHHHHHHHHHHHHHcC
Confidence 566788899999999999999999999999983 3333334555555433 457888888888775433
No 122
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=83.85 E-value=6.1 Score=28.24 Aligned_cols=68 Identities=15% Similarity=0.282 Sum_probs=53.0
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+.....+..|.++-+...+...|.++.++.... + +.-++++.+. +.+...++.++|++.+.|..|...
T Consensus 3 l~I~~~dr~Gll~dI~~~i~~~~~nI~~~~~~~-~-~~i~l~i~v~-~~~~L~~li~~L~~i~gV~~V~R~ 70 (74)
T cd04877 3 LEITCEDRLGITQEVLDLLVEHNIDLRGIEIDP-K-GRIYLNFPTI-EFEKLQTLMPEIRRIDGVEDVKTV 70 (74)
T ss_pred EEEEEEccchHHHHHHHHHHHCCCceEEEEEec-C-CeEEEEeEec-CHHHHHHHHHHHhCCCCceEEEEe
Confidence 456677888999999999999999999999832 2 2234555544 566789999999999999988764
No 123
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=83.48 E-value=7.3 Score=28.29 Aligned_cols=64 Identities=19% Similarity=0.311 Sum_probs=45.8
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEE--EEEECC--hhHHHHHHHHHhhhhc
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFT--MVVFGT--DRELQQVVKQLQKLVN 110 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~--~~~~~~--~~~~~~i~~~L~k~~~ 110 (359)
+.....+..|.|+..-..|...|+|+.++-..+...+...++ +.++++ .+...++.+.|++...
T Consensus 4 l~~~~~d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~~~~~~~~~~~~l~~l~~~~~ 71 (80)
T cd04905 4 IVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFEGHIEDPNVAEALEELKRLTE 71 (80)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEECCCCCHHHHHHHHHHHHhCC
Confidence 334556789999999999999999999997755543333344 444454 6778888888887533
No 124
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=82.36 E-value=3.7 Score=29.49 Aligned_cols=62 Identities=19% Similarity=0.245 Sum_probs=45.4
Q ss_pred EEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChh-HHHHHHHHHhhhhc
Q 018198 48 SVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDR-ELQQVVKQLQKLVN 110 (359)
Q Consensus 48 ~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~-~~~~i~~~L~k~~~ 110 (359)
...-.+.+|.+..+..+|..+|.|++.++..-. .+.-.+.+.+...+. ...++.+.|+++-+
T Consensus 3 tv~G~DrpGiv~~vt~~la~~~~nI~dl~~~~~-~~~f~~~~~v~~p~~~~~~~l~~~l~~l~~ 65 (75)
T cd04870 3 TVTGPDRPGLTSALTEVLAAHGVRILDVGQAVI-HGRLSLGILVQIPDSADSEALLKDLLFKAH 65 (75)
T ss_pred EEEcCCCCCHHHHHHHHHHHCCCCEEecccEEE-cCeeEEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 455678899999999999999999999987222 233445556665443 67888888887654
No 125
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=81.78 E-value=6.7 Score=27.10 Aligned_cols=60 Identities=13% Similarity=0.180 Sum_probs=44.7
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeeccc----CCceEEEEEEECC-hhHHHHHHHHHhhh
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLN----KDRALFTMVVFGT-DRELQQVVKQLQKL 108 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~----~~~~~~~~~~~~~-~~~~~~i~~~L~k~ 108 (359)
....+..|.|..+...+...|.++.++...... .+...+.+.++.. .+..+++.+.|++.
T Consensus 3 v~~~d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~~~~l~~l~~~l~~~ 67 (73)
T cd04886 3 VELPDRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLETRGAEHIEEIIAALREA 67 (73)
T ss_pred EEeCCCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEEeCCHHHHHHHHHHHHHc
Confidence 345688999999999999999999999885432 2344566666544 47778888888774
No 126
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=81.70 E-value=5 Score=28.66 Aligned_cols=64 Identities=11% Similarity=0.156 Sum_probs=45.4
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeec-ccCCceEEEEEEECCh--hHHHHHHHHHhhhhc
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIG-LNKDRALFTMVVFGTD--RELQQVVKQLQKLVN 110 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~-~~~~~~~~~~~~~~~~--~~~~~i~~~L~k~~~ 110 (359)
+.....+..|.++.+..+|..+|+|++.++..- .....-.|.+.+..+. ....++.+.|+++.+
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~l~~~l~~l~~ 68 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVEFELEGFDLSREALEAAFAPVAA 68 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 345667889999999999999999999999942 1222333444444443 367888888877653
No 127
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=81.62 E-value=6.9 Score=27.29 Aligned_cols=62 Identities=11% Similarity=0.302 Sum_probs=45.2
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCC-ceEEEEEEECChhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKD-RALFTMVVFGTDRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~-~~~~~~~~~~~~~~~~~i~~~L~k~ 108 (359)
.+.....+.+|.|..+..+|...|+++.++.+.....+ ...+.+++... ...+++.+.|++.
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v~~~-~~~~~~~~~L~~~ 65 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGISIKNIEILEIREGIGGILRISFKTQ-EDRERAKEILKEA 65 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEECCH-HHHHHHHHHHHHc
Confidence 45667889999999999999999999999987443222 33455666533 3677888877763
No 128
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=81.35 E-value=11 Score=26.90 Aligned_cols=62 Identities=18% Similarity=0.297 Sum_probs=46.4
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeecccCCce--EEEEEEEC--ChhHHHHHHHHHhhhhc
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRA--LFTMVVFG--TDRELQQVVKQLQKLVN 110 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~--~~~~~~~~--~~~~~~~i~~~L~k~~~ 110 (359)
....+..|.|+..-..|..+|+|+.+|--.+...+.. .+-|.+++ ++...+++.+.|++...
T Consensus 4 ~~l~d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~~~~~~~~~~~~l~~l~~~~~ 69 (75)
T cd04880 4 FSLKNKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFEGHIDDPDVKEALEELKRVTE 69 (75)
T ss_pred EEeCCcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEECCCCCHHHHHHHHHHHHhCC
Confidence 3446789999999999999999999995544333232 45666667 57888899999988544
No 129
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=80.98 E-value=5.2 Score=28.99 Aligned_cols=64 Identities=23% Similarity=0.291 Sum_probs=45.0
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhc
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVN 110 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~ 110 (359)
.+.....+..|.++....++..+|.|++.++..- ..+.--|.+.+..+....+++.+.|+++.+
T Consensus 3 iltv~g~Dr~GiVa~vs~~la~~g~nI~d~~q~~-~~~~F~m~~~~~~~~~~~~~l~~~l~~~~~ 66 (77)
T cd04893 3 VISALGTDRPGILNELTRAVSESGCNILDSRMAI-LGTEFALTMLVEGSWDAIAKLEAALPGLAR 66 (77)
T ss_pred EEEEEeCCCChHHHHHHHHHHHcCCCEEEceeeE-EcCEEEEEEEEEeccccHHHHHHHHHHHHH
Confidence 4567788999999999999999999999999944 223223333444334456777776666553
No 130
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=80.09 E-value=4.8 Score=26.86 Aligned_cols=45 Identities=16% Similarity=0.403 Sum_probs=34.6
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEEC
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFG 93 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~ 93 (359)
....+..|.+++....|...|+|+.++++...+.+...+.+.++.
T Consensus 3 v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v~~ 47 (56)
T cd04889 3 VFVENKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIFSD 47 (56)
T ss_pred EEeCCCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEECC
Confidence 456788999999999999999999999985544344445555544
No 131
>cd06452 SepCysS Sep-tRNA:Cys-tRNA synthase. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Cys-tRNA(Cys) is produced by O-phosphoseryl-tRNA synthetase which ligates O-phosphoserine (Sep) to tRNA(Cys), and Sep-tRNA:Cys-tRNA synthase (SepCysS) converts Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea. SepCysS forms a dimer, each monomer is composed of a large and small domain; the larger, a typical pyridoxal 5'-phosphate (PLP)-dependent-like enzyme fold. In the active site of each monomer, PLP is covalently bound to a conserved Lys residue near the dimer interface.
Probab=80.04 E-value=0.76 Score=43.92 Aligned_cols=35 Identities=23% Similarity=0.235 Sum_probs=26.2
Q ss_pred ccccccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 6 LRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 6 ~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
+.+.++|+|+++.|++|++++.. -+|.++++.+.+
T Consensus 185 ~~~~~~~~d~~~~s~~K~l~~~~--~~G~l~~~~~~~ 219 (361)
T cd06452 185 VSGKELGADFIVGSGHKSMAASA--PIGVLATTEEWA 219 (361)
T ss_pred CCHHHcCCCEEEecCCccccCCC--CeEEEEECHHHH
Confidence 45668899999999999998665 356676665433
No 132
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=79.29 E-value=8 Score=24.37 Aligned_cols=55 Identities=24% Similarity=0.313 Sum_probs=39.9
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHH
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQL 105 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L 105 (359)
...+..|.+..+...|..+++++..+...... ....++++.+.... ..+.+.+.|
T Consensus 4 ~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l 59 (60)
T cd02116 4 SGPDRPGLLAKVLSVLAEAGINITSIEQRTSGDGGEADIFIVVDGDG-DLEKLLEAL 59 (60)
T ss_pred EecCCCchHHHHHHHHHHCCCcEEEEEeEEcCCCCeEEEEEEEechH-HHHHHHHHh
Confidence 44567889999999999999999999984433 33456777777654 555565554
No 133
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=77.51 E-value=0.5 Score=44.28 Aligned_cols=66 Identities=11% Similarity=-0.013 Sum_probs=42.5
Q ss_pred ccccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceee
Q 018198 6 LRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIE 73 (359)
Q Consensus 6 ~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl 73 (359)
+.+-+.++|+++.|++|+++ ++...+|.++++++.+.+ .++..........+....+.....++..
T Consensus 188 ~~~~~~~~~~~~~s~~K~~~-~~g~~~G~i~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 253 (350)
T cd00609 188 ALLDAYERVIVLRSFSKTFG-LPGLRIGYLIAPPEELLE-RLKKLLPYTTSGPSTLSQAAAAAALDDG 253 (350)
T ss_pred cCcCccCcEEEEeecccccC-CcccceEEEecCHHHHHH-HHHHHHHhcccCCChHHHHHHHHHHhCc
Confidence 44567889999999999997 445667888887744433 2333444444556666666555555543
No 134
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=77.01 E-value=18 Score=25.74 Aligned_cols=62 Identities=24% Similarity=0.258 Sum_probs=42.4
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQK 107 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k 107 (359)
.+..+..+..+..+.+.+.|.+.|+++++-|+-....+...=++.+. .+.+....+-+.|++
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~d~~~~~~~~~~~~~~~ 65 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVTGWKRGETAALGHALQK 65 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEecCCccchHHHHHHHHH
Confidence 45677889999999999999999999999999444455554444444 333333444444443
No 135
>TIGR03576 pyridox_MJ0158 pyridoxal phosphate enzyme, MJ0158 family. Members of this archaeal protein family are pyridoxal phosphate enzymes of unknown function. Sequence similarity to SelA, a bacterial enzyme of selenocysteine biosynthesis, has led to some members being misannotated as functionally equivalent, but selenocysteine is made on tRNA in Archaea by a two-step process that does not involve a SelA homolog.
Probab=76.78 E-value=0.74 Score=44.00 Aligned_cols=59 Identities=19% Similarity=0.048 Sum_probs=41.1
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhcccee
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNI 72 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~t 72 (359)
+++|+|+++.|++|++.|+ .+|.++++.+... .+....+..+.+++|...+.....++.
T Consensus 191 ~~~~~divv~s~SKalaG~---r~G~v~~~~~li~--~l~~~~~~~~~s~~~~~~~aa~~aL~~ 249 (346)
T TIGR03576 191 LDLGADLVVTSTDKLMDGP---RGGLLAGRKELVD--KIKSVGEQFGLEAQAPLLAAVVRALEE 249 (346)
T ss_pred HHcCCcEEEeccchhcccc---ceEEEEeCHHHHH--HHHHhhcCcccCccHHHHHHHHHHHhh
Confidence 4668999999999999886 4788887765432 233344444545677788888877754
No 136
>PF03841 SelA: L-seryl-tRNA selenium transferase; InterPro: IPR018319 In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This family describes SelA. A close homologue of SelA is found in Helicobacter pylori, but all other required elements are missing and the protein is shorter at the N terminus than SelA from other species. The trusted cut-off is set above the score generated for Helicobacter pylori putative SelA.; PDB: 2AEV_A 2AEU_A.
Probab=76.35 E-value=0.46 Score=45.24 Aligned_cols=38 Identities=29% Similarity=0.322 Sum_probs=26.4
Q ss_pred CccccccccCCcEEEeeecccccCCcceeeeeeeeccccce
Q 018198 3 PVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQ 43 (359)
Q Consensus 3 p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~ 43 (359)
|-++.-++.|||+|+.|.-|.++|-- +|.++++.+.+.
T Consensus 194 p~v~~~~~~GaDlV~fSGdKlLGGPQ---aGiI~Gkk~lI~ 231 (367)
T PF03841_consen 194 PTVQEYLAAGADLVTFSGDKLLGGPQ---AGIIVGKKELIE 231 (367)
T ss_dssp -----CCCCT-SEEEEETTSSSSS-S----EEEEEEHHHHH
T ss_pred cHHHHHhhcCCCEEEEECCCcCCCCC---eEEEEeCHHHHH
Confidence 45667789999999999999999964 688988887653
No 137
>PF01732 DUF31: Putative peptidase (DUF31); InterPro: IPR022382 This domain has no known function. It is found in various hypothetical proteins and putative lipoproteins from mycoplasmas.
Probab=74.69 E-value=2.4 Score=40.99 Aligned_cols=23 Identities=26% Similarity=0.505 Sum_probs=20.5
Q ss_pred cCCCCCccceeecCCCeEEEEEe
Q 018198 303 SVNLGNSGGPLLDSSGSLIGVNT 325 (359)
Q Consensus 303 ~~~~G~SGgPl~~~~G~viGi~~ 325 (359)
.+..|.||+.|+|.+|++|||..
T Consensus 351 ~l~gGaSGS~V~n~~~~lvGIy~ 373 (374)
T PF01732_consen 351 SLGGGASGSMVINQNNELVGIYF 373 (374)
T ss_pred CCCCCCCcCeEECCCCCEEEEeC
Confidence 45689999999999999999975
No 138
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=74.16 E-value=22 Score=24.39 Aligned_cols=47 Identities=26% Similarity=0.383 Sum_probs=35.7
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECC
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGT 94 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~ 94 (359)
+.....+..|.++.+...|...|+++.++++.... +....++.+...
T Consensus 3 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~-~~~~~~~~v~~~ 49 (70)
T cd04873 3 VEVYAPDRPGLLADITRVLADLGLNIHDARISTTG-ERALDVFYVTDS 49 (70)
T ss_pred EEEEeCCCCCHHHHHHHHHHHCCCeEEEEEEeecC-CEEEEEEEEECC
Confidence 45677889999999999999999999999994333 344555555543
No 139
>PRK11790 D-3-phosphoglycerate dehydrogenase; Provisional
Probab=74.05 E-value=5.7 Score=38.90 Aligned_cols=69 Identities=13% Similarity=0.257 Sum_probs=54.3
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeee
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
+++....++..|+++.+...|...|+|+-.+|+ ....+...|+|.+++ ..-+.+.++|+++++|.+|..
T Consensus 339 ~rlii~h~d~pG~ia~it~~l~~~~iNI~~m~~-~~~~~~A~~iie~D~--~~~~~~~~~i~~i~~v~~v~~ 407 (409)
T PRK11790 339 HRLLHIHENRPGVLAAINQIFAEQGINIAAQYL-QTDGEIGYVVIDVDA--DYAEEALDALKAIPGTIRARL 407 (409)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHhcCCCHHHhee-ccCCCEEEEEEEeCC--CCcHHHHHHHHcCCCeEEEEE
Confidence 467778899999999999999999999999988 222244455555554 445688999999999998875
No 140
>PF12381 Peptidase_C3G: Tungro spherical virus-type peptidase; InterPro: IPR024387 This entry represents a rice tungro spherical waikavirus-type peptidase that belongs to MEROPS peptidase family C3G. It is a picornain 3C-type protease, and is responsible for the self-cleavage of the positive single-stranded polyproteins of a number of plant viral genomes. The location of the protease activity of the polyprotein is at the C-terminal end, adjacent and N-terminal to the putative RNA polymerase [, ].
Probab=73.52 E-value=3.6 Score=36.08 Aligned_cols=56 Identities=16% Similarity=0.359 Sum_probs=41.2
Q ss_pred cEEEEcccCCCCCccceeecC----CCeEEEEEeeecCCCcceeEEEEehH--HHHHHHHHHHh
Q 018198 296 GVIQIDASVNLGNSGGPLLDS----SGSLIGVNTFITSGAFSGIGFALPID--TVRGIVDQLVK 353 (359)
Q Consensus 296 ~~i~~~~~~~~G~SGgPl~~~----~G~viGi~~~~~~~~~~~~~~aip~~--~i~~~l~~l~~ 353 (359)
.-++..++...|+-|||++-. .-+++||+.++.. +...+||-++. .+++.++.|.+
T Consensus 169 ~gleY~~~t~~GdCGs~i~~~~t~~~RKIvGiHVAG~~--~~~~gYAe~itQEDL~~A~~~l~~ 230 (231)
T PF12381_consen 169 QGLEYQMPTMNGDCGSPIVRNNTQMVRKIVGIHVAGSA--NHAMGYAESITQEDLMRAINKLEK 230 (231)
T ss_pred eeeeEECCCcCCCccceeeEcchhhhhhhheeeecccc--cccceehhhhhHHHHHHHHHhhcC
Confidence 345677888899999999832 3589999999853 24577877764 67777777654
No 141
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=71.87 E-value=13 Score=39.05 Aligned_cols=71 Identities=17% Similarity=0.236 Sum_probs=59.1
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhceeeeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
.+.....+..|.|+.+...+..-+.|+.++.+.....+...+.++++ .+-+.+.+|..+|+++++|.+|..
T Consensus 628 ~i~I~~~dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~ieV~~~~~L~~i~~~Lr~i~~V~~V~R 699 (702)
T PRK11092 628 EIKVEMFNHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRLTARDRVHLANIMRKIRVMPDVIKVTR 699 (702)
T ss_pred EEEEEEeCCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEEEECCHHHHHHHHHHHhCCCCcceEEE
Confidence 56777889999999999999999999999998332234456666666 667899999999999999999875
No 142
>TIGR01437 selA_rel uncharacterized pyridoxal phosphate-dependent enzyme. This model describes a protein related to a number of pyridoxal phosphate-dependent enzymes, and in particular to selenocysteine synthase (SelA), which converts Ser to selenocysteine on its tRNA. While resembling SelA, this protein is found only in species that have a better candidate SelA or else lack the other genes (selB, selC, and selD) required for selenocysteine incorporation.
Probab=67.24 E-value=3.2 Score=39.86 Aligned_cols=33 Identities=18% Similarity=0.228 Sum_probs=25.9
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
.+.++|+|+++.|++|++.|.. +|.++.+++.+
T Consensus 194 ~~~~~g~D~~~~S~~K~l~gp~---~G~l~~~~~~i 226 (363)
T TIGR01437 194 KYYRLGADLVIYSGAKAIEGPT---SGLVLGKKKYI 226 (363)
T ss_pred HHHHcCCCEEEEeCCcccCCCc---eEEEEEcHHHH
Confidence 3567899999999999998884 67777665443
No 143
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=65.57 E-value=28 Score=24.27 Aligned_cols=59 Identities=17% Similarity=0.193 Sum_probs=44.0
Q ss_pred EeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEEC-ChhHHHHHHHHHhhh
Q 018198 49 VFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFG-TDRELQQVVKQLQKL 108 (359)
Q Consensus 49 ~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~-~~~~~~~i~~~L~k~ 108 (359)
...-+.+|.+..+...+.. |.|+..++......+..++.+.++. +.+..++|.+.|++.
T Consensus 3 v~ipdkPG~l~~~~~~i~~-~~nI~~~~~~~~~~~~~~v~v~ie~~~~~~~~~i~~~L~~~ 62 (68)
T cd04885 3 VTFPERPGALKKFLELLGP-PRNITEFHYRNQGGDEARVLVGIQVPDREDLAELKERLEAL 62 (68)
T ss_pred EECCCCCCHHHHHHHHhCC-CCcEEEEEEEcCCCCceEEEEEEEeCCHHHHHHHHHHHHHc
Confidence 3455678999999998888 9999999985444445567777773 457888888888763
No 144
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=64.80 E-value=23 Score=37.21 Aligned_cols=70 Identities=20% Similarity=0.328 Sum_probs=58.6
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhceeeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
.+.....+..|.|+.+...+..-+.|+.++++.....+...|.++++ .+-+.+..|..+|++.++|.+|.
T Consensus 612 ~I~I~~~dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~ieV~~~~~L~~ii~~L~~i~~V~~v~ 682 (683)
T TIGR00691 612 DINIEAVDRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITVEIKNYKHLLKIMLKIKTKNDVIVVK 682 (683)
T ss_pred EEEEEEecCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEEEECCHHHHHHHHHHHhCCCCceEEe
Confidence 56677889999999999999999999999999433235556777776 67889999999999999998875
No 145
>TIGR03531 selenium_SpcS O-phosphoseryl-tRNA(Sec) selenium transferase. In the archaea and eukaryotes, the conversion of the mischarged serine to selenocysteine (Sec) on its tRNA is accomplished in two steps. This enzyme, O-phosphoseryl-tRNA(Sec) selenium transferase, acts second, after a phosphophorylation step catalyzed by a homolog of the bacterial SelA protein.
Probab=64.42 E-value=2.7 Score=41.60 Aligned_cols=36 Identities=17% Similarity=0.149 Sum_probs=26.8
Q ss_pred cccccC-CcEEEeeecccccCCcceeeeeeeecccccee
Q 018198 7 RPLEFG-AGIVMHSASKFIARHSDVMACGIAVNSERVQR 44 (359)
Q Consensus 7 ~p~~~g-~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~ 44 (359)
+.++.| +|+++.|++|++.-..+ ||++.++++.+.+
T Consensus 257 ~g~~~Grad~vv~s~hK~l~~pg~--Gg~I~~~d~el~~ 293 (444)
T TIGR03531 257 KAIKVGRVDAVVSSTDKNFMVPVG--GAIIYSFDENFIQ 293 (444)
T ss_pred ccccccCCCeEEEeCccCCCCCCC--EEEEEECCHHHHH
Confidence 345676 89999999999987665 7777776666543
No 146
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=63.90 E-value=44 Score=23.79 Aligned_cols=60 Identities=20% Similarity=0.289 Sum_probs=43.0
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEEC--------ChhHHHHHHHHHhh
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFG--------TDRELQQVVKQLQK 107 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~--------~~~~~~~i~~~L~k 107 (359)
+..+..+..|.++.+.+.|...|+|+++.|+. +..+...-++.+.. +++..++|.+.|.+
T Consensus 3 ~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~-t~~~~~~d~f~V~d~~~~~~~~~~~~~~~i~~~L~~ 70 (74)
T cd04925 3 IELTGTDRPGLLSEVFAVLADLHCNVVEARAW-THNGRLACVIYVRDEETGAPIDDPIRLASIEDRLDN 70 (74)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCcEEEEEEE-EECCEEEEEEEEEcCcCCCCCCCHHHHHHHHHHHHH
Confidence 45667789999999999999999999999995 33444444444431 23455667666665
No 147
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=63.45 E-value=26 Score=23.68 Aligned_cols=56 Identities=23% Similarity=0.281 Sum_probs=40.2
Q ss_pred EEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhh
Q 018198 48 SVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQK 107 (359)
Q Consensus 48 ~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k 107 (359)
.....+.+|.|..+...|...|+|+.++...... .+..++.+.++. .+.+.+-|++
T Consensus 3 ~v~~~d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~----~~~~~~~L~~ 59 (65)
T cd04882 3 AVEVPDKPGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTED----IEKAIEVLQE 59 (65)
T ss_pred EEEeCCCCcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeCC----HHHHHHHHHH
Confidence 4567789999999999999999999999874433 244556666654 4455555554
No 148
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=61.12 E-value=56 Score=23.06 Aligned_cols=45 Identities=27% Similarity=0.424 Sum_probs=34.0
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEE
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVV 91 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~ 91 (359)
+.....+..|.++.+.+.|...|+++.+.++.-...+...=++.+
T Consensus 4 i~v~~~Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v 48 (73)
T cd04900 4 VFIYTPDRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVV 48 (73)
T ss_pred EEEEecCCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEE
Confidence 456778899999999999999999999999943333444333443
No 149
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=56.79 E-value=67 Score=22.64 Aligned_cols=45 Identities=20% Similarity=0.273 Sum_probs=35.0
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF 92 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~ 92 (359)
+.....+..|.+..+.+.|...|+|+.+.++... .+....++.+.
T Consensus 4 i~V~~~D~~Gll~~i~~~l~~~~lnI~sa~i~t~-~~~~~d~f~v~ 48 (72)
T cd04926 4 LELRTEDRVGLLSDVTRVFRENGLTVTRAEISTQ-GDMAVNVFYVT 48 (72)
T ss_pred EEEEECCccCHHHHHHHHHHHCCcEEEEEEEecC-CCeEEEEEEEE
Confidence 4567789999999999999999999999999533 34444555554
No 150
>PRK13581 D-3-phosphoglycerate dehydrogenase; Provisional
Probab=56.70 E-value=23 Score=35.92 Aligned_cols=71 Identities=15% Similarity=0.227 Sum_probs=53.8
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.+-...++..|++..+...|...++|+-.++++..+++. .-..+++-|..--+.+.++|++++++.++.++
T Consensus 454 ~li~~~~D~pG~I~~v~~~L~~~~iNIa~m~~~r~~~g~-~al~~i~~D~~v~~~~l~~i~~~~~i~~~~~i 524 (526)
T PRK13581 454 MLIIRNRDRPGVIGKVGTLLGEAGINIAGMQLGRREAGG-EALMVLSVDDPVPEEVLEELRALPGILSAKAV 524 (526)
T ss_pred EEEEEeCCcCChhHHHHHHHhhcCCCchhcEeccCCCCC-eEEEEEECCCCCCHHHHHHHhcCCCcceEEEE
Confidence 454566889999999999999999999999995444222 22334445555668899999999999998875
No 151
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=56.61 E-value=69 Score=22.76 Aligned_cols=61 Identities=18% Similarity=0.238 Sum_probs=45.4
Q ss_pred eecCCCCccchhhhhhhhccceeeeeEeecccCCc--eEEEEEEECChhHHHHHHHHHhhhhc
Q 018198 50 FVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDR--ALFTMVVFGTDRELQQVVKQLQKLVN 110 (359)
Q Consensus 50 ~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~--~~~~~~~~~~~~~~~~i~~~L~k~~~ 110 (359)
...+..|.|...=..|..+|+|..+|--.+...+. -.+-+-++++++..+++.+.|++...
T Consensus 6 ~l~~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~~~~ 68 (74)
T cd04904 6 SLKEEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRRVVA 68 (74)
T ss_pred EeCCCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEEcChHHHHHHHHHHHHhcC
Confidence 33567899999999999999999999775544222 34556667777788888888877543
No 152
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=55.31 E-value=42 Score=35.52 Aligned_cols=71 Identities=18% Similarity=0.274 Sum_probs=58.7
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEE-CChhHHHHHHHHHhhhhceeeeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
.+.....+..|.|+-+...+..-+.|+.++.+.... .+...+.++++ .+-+.+.+|...|+++++|..|..
T Consensus 668 ~I~I~~~Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~ieV~~~~~L~~l~~~L~~i~~V~~v~R 740 (743)
T PRK10872 668 VVRVTANDRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTIEIYNLQVLGRVLGKLNQVPDVIDARR 740 (743)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEEEECCHHHHHHHHHHHhcCCCcCeEEe
Confidence 456677788999999999999999999999984322 34556777776 678899999999999999998875
No 153
>COG0112 GlyA Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]
Probab=54.06 E-value=6.4 Score=37.85 Aligned_cols=40 Identities=23% Similarity=0.229 Sum_probs=33.4
Q ss_pred CCCccccccccCCcEEEeeecccccCCcceeeeeeeecccccee
Q 018198 1 MSPVVLRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQR 44 (359)
Q Consensus 1 ~~p~~~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~ 44 (359)
+...+++|+.+ ||||.-|+.|=+-|- -||.|.++++++.+
T Consensus 209 A~G~~p~P~~~-AdvVTtTTHKTlrGP---rGG~Il~~~eel~k 248 (413)
T COG0112 209 AGGVHPNPLPH-ADVVTTTTHKTLRGP---RGGIILTNDEELAK 248 (413)
T ss_pred hcccCCCCCCc-cceEeCCcccCCCCC---CceEEEeccHHHHH
Confidence 45788999999 999999999998886 57788888866654
No 154
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=53.87 E-value=29 Score=25.94 Aligned_cols=37 Identities=8% Similarity=0.243 Sum_probs=31.3
Q ss_pred ccCCCCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 205 VICGASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 205 vv~~~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
++.....+.|.+.+++.+.+++.++|...++.|=...
T Consensus 10 ~~~~~~~V~V~lr~~r~~~G~L~~fD~hmNlvL~d~~ 46 (87)
T cd01720 10 AVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVK 46 (87)
T ss_pred HHcCCCEEEEEEcCCCEEEEEEEEecCccEEEEcceE
Confidence 3445678999999999999999999999999886654
No 155
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=51.90 E-value=49 Score=22.46 Aligned_cols=33 Identities=21% Similarity=0.355 Sum_probs=28.9
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
..+.|.+.||+.+.+.+..+|...++.|-....
T Consensus 7 ~~V~V~l~~g~~~~G~L~~~D~~~Ni~L~~~~~ 39 (63)
T cd00600 7 KTVRVELKDGRVLEGVLVAFDKYMNLVLDDVEE 39 (63)
T ss_pred CEEEEEECCCcEEEEEEEEECCCCCEEECCEEE
Confidence 478899999999999999999999998877654
No 156
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=51.38 E-value=77 Score=21.71 Aligned_cols=45 Identities=22% Similarity=0.242 Sum_probs=34.5
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF 92 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~ 92 (359)
+.....+..|.++.+...|...++++.++++. ...+....++.+.
T Consensus 3 l~v~~~d~~gll~~i~~~l~~~~~~I~~~~~~-~~~~~~~~~f~i~ 47 (70)
T cd04899 3 LELTALDRPGLLADVTRVLAELGLNIHSAKIA-TLGERAEDVFYVT 47 (70)
T ss_pred EEEEEcCCccHHHHHHHHHHHCCCeEEEEEEE-ecCCEEEEEEEEE
Confidence 45677889999999999999999999999994 3333444555554
No 157
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=50.99 E-value=17 Score=23.96 Aligned_cols=20 Identities=35% Similarity=0.604 Sum_probs=17.3
Q ss_pred CCccceeecCCCeEEEEEee
Q 018198 307 GNSGGPLLDSSGSLIGVNTF 326 (359)
Q Consensus 307 G~SGgPl~~~~G~viGi~~~ 326 (359)
+.+.-|++|.+|+++|+.+.
T Consensus 29 ~~~~~~V~d~~~~~~G~is~ 48 (57)
T PF00571_consen 29 GISRLPVVDEDGKLVGIISR 48 (57)
T ss_dssp TSSEEEEESTTSBEEEEEEH
T ss_pred CCcEEEEEecCCEEEEEEEH
Confidence 56788999999999999775
No 158
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=50.32 E-value=61 Score=33.99 Aligned_cols=71 Identities=20% Similarity=0.284 Sum_probs=59.0
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhceeeeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
.+.....+.-|.|+-+...+..-+.|++++.+....++...|.++++ .+-....+|..+|+++++|..|..
T Consensus 629 ~i~v~~~~r~glL~~i~~~i~~~~~ni~~v~~~~~~~~~~~~~~~i~v~n~~~L~~i~~~l~~~~~V~~v~R 700 (701)
T COG0317 629 DIEIRAYDRSGLLRDVSQVLANEKINVLGVNTRSDKDQFATMQFTIEVKNLNHLGRVLARLKQLPDVISVRR 700 (701)
T ss_pred EEEEEEccccchHHHHHHHHHhCCCceEEeeccccCCceEEEEEEEEECcHHHHHHHHHHHhcCCCeEEEEe
Confidence 56677889999999999999999999999999444455555666665 567899999999999999998865
No 159
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.
Probab=49.86 E-value=77 Score=22.00 Aligned_cols=34 Identities=18% Similarity=0.217 Sum_probs=29.2
Q ss_pred CCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 209 ASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 209 ~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
...+.++...|..++++++.+|....+.+|+.+.
T Consensus 6 Gs~V~~kTc~g~~ieGEV~afD~~tk~lIlk~~s 39 (61)
T cd01735 6 GSQVSCRTCFEQRLQGEVVAFDYPSKMLILKCPS 39 (61)
T ss_pred ccEEEEEecCCceEEEEEEEecCCCcEEEEECcc
Confidence 3467788888999999999999999999998654
No 160
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=49.09 E-value=96 Score=22.19 Aligned_cols=61 Identities=18% Similarity=0.298 Sum_probs=41.0
Q ss_pred EEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEEC-C-----hhHHHHHHHHHhh
Q 018198 47 ISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFG-T-----DRELQQVVKQLQK 107 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~-~-----~~~~~~i~~~L~k 107 (359)
+..+..+..|.++.+.+.|...|+++.+-|+.-...+...=++.+.. + ++..++|.+.|.+
T Consensus 3 ~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~d~~~~~~~~~~~~~l~~~L~~ 69 (76)
T cd04927 3 LKLFCSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFITDARELLHTKKRREETYDYLRA 69 (76)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEeCCCCCCCCHHHHHHHHHHHHH
Confidence 45677899999999999999999999999994334444433333332 1 2344445555544
No 161
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=47.52 E-value=54 Score=23.01 Aligned_cols=33 Identities=15% Similarity=0.160 Sum_probs=29.6
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
..+.|.+.+|+.+.+++..+|...++.|-....
T Consensus 11 ~~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e 43 (68)
T cd01731 11 KPVLVKLKGGKEVRGRLKSYDQHMNLVLEDAEE 43 (68)
T ss_pred CEEEEEECCCCEEEEEEEEECCcceEEEeeEEE
Confidence 578999999999999999999999999987754
No 162
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=46.42 E-value=1e+02 Score=22.56 Aligned_cols=61 Identities=15% Similarity=0.188 Sum_probs=44.9
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECC--hhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGT--DRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~--~~~~~~i~~~L~k~ 108 (359)
.+.....+.+|.|..+-..+. +-|+..+.......+..++.++++.. .+..+++.+.|++.
T Consensus 3 vl~v~ipD~PG~L~~ll~~l~--~anI~~~~y~~~~~~~~~v~i~ie~~~~~~~~~~i~~~L~~~ 65 (85)
T cd04906 3 LLAVTIPERPGSFKKFCELIG--PRNITEFNYRYADEKDAHIFVGVSVANGAEELAELLEDLKSA 65 (85)
T ss_pred EEEEecCCCCcHHHHHHHHhC--CCceeEEEEEccCCCeeEEEEEEEeCCcHHHHHHHHHHHHHC
Confidence 456677788999999999777 77888888754334555677766643 47888888888773
No 163
>cd06454 KBL_like KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-oxononanoate synthase (AONS), and 2-amino-3-ketobutyrate CoA ligase (KBL). SPT is responsible for the condensation of L-serine with palmitoyl-CoA to produce 3-ketodihydrospingosine, the reaction of the first step in sphingolipid biosynthesis. ALAS is involved in heme biosynthesis; it catalyzes the synthesis of 5-aminolevulinic acid from glycine and succinyl-coenzyme A. AONS catalyses the decarboxylative condensation of l-alanine and pimeloyl-CoA in the first committed step of biotin biosynthesis. KBL catalyzes the second reaction step of the metabolic degradation pathway for threonine converting 2-amino-3-ketobutyrate, to glycine and acetyl-CoA. The members of this CD are widely found in all three forms of life.
Probab=45.46 E-value=5.2 Score=37.61 Aligned_cols=58 Identities=16% Similarity=0.024 Sum_probs=33.9
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEee--cCCCCccchhhhhhhhcccee
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFV--GDESGILSRIDGVFTRRNCNI 72 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~--~~~G~~lsp~~a~l~~RG~~t 72 (359)
..+|+|+++.|++|.+++- +|.++.+++.+.+ +.... ...++.+++...+.+...++.
T Consensus 189 ~~~~~~i~~~s~sK~~~~~----gG~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~a~~~~l~~ 248 (349)
T cd06454 189 LTDDVDIIMGTLGKAFGAV----GGYIAGSKELIDY--LRSYARGFIFSTSLPPAVAAAALAALEV 248 (349)
T ss_pred ccccCcEEEeechhhhccc----CCEEECCHHHHHH--HHHhchhhhccCCCCHHHHHHHHHHHHH
Confidence 4579999999999999872 3666655443221 11111 123456677666555555543
No 164
>cd06502 TA_like Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a secondary glycine biosynthetic pathway.
Probab=45.34 E-value=4.3 Score=38.00 Aligned_cols=59 Identities=12% Similarity=-0.096 Sum_probs=32.7
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCC--ccchhhhhhhhcccee
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESG--ILSRIDGVFTRRNCNI 72 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~--~lsp~~a~l~~RG~~t 72 (359)
+..++|+++.|++|+++.-+ ++.++.+.+ +.+ .+.......|+ .+++..++.....++.
T Consensus 183 ~~~~~d~~~~s~sK~~~~~~---g~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~L~~ 243 (338)
T cd06502 183 YKSGVDSVSFCLSKGGGAPV---GAVVVGNRD-FIA-RARRRRKQAGGGMRQSGFLAAAGLAALEN 243 (338)
T ss_pred HHhcCCEEEEeccccCCCcc---ceEEECCHH-HHH-HHHHHHHHhCCChhhHHHHHHHHHHHhcC
Confidence 34689999999999998653 333334433 322 22222222233 2455666666666543
No 165
>cd00616 AHBA_syn 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary metabolites. Some well studied proteins in this CD are AHBA_synthase, protein product of pleiotropic regulatory gene degT, Arnb aminotransferase and pilin glycosylation protein. The prototype of this family, the AHBA_synthase, is a dimeric PLP dependent enzyme. AHBA_syn is the terminal enzyme of 3-amino-5-hydroxybenzoic acid (AHBA) formation which is involved in the biosynthesis of ansamycin antibiotics, including rifamycin B. Some members of this CD are involved in 4-amino-6-deoxy-monosaccharide D-perosamine synthesis. Perosamine is an important element in the glycosylation of several cell products, such as antibiotics and lipopolysaccharides of gram-positive and gram-negative bacteria. The pilin glycosylation protein
Probab=45.25 E-value=4.5 Score=38.12 Aligned_cols=82 Identities=12% Similarity=0.035 Sum_probs=43.9
Q ss_pred CCcEEEeeec--ccccCCcceeeeeeeeccccceeeEEEEee---------------cCCCCccchhhhhhhhccceeee
Q 018198 12 GAGIVMHSAS--KFIARHSDVMACGIAVNSERVQRHTISVFV---------------GDESGILSRIDGVFTRRNCNIES 74 (359)
Q Consensus 12 g~d~~~~s~t--K~~~gh~d~~~g~~~~~~~~~~~~~l~~~~---------------~~~G~~lsp~~a~l~~RG~~tl~ 74 (359)
..|+.+.|++ |++++ +. ||.++++++.+.+ .+..+. ......++++.+.+.+..++.+.
T Consensus 156 ~~d~~~~S~~~~K~~~~-~~--gg~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aa~~~~~l~~~~ 231 (352)
T cd00616 156 FGDAGAFSFHPTKNLTT-GE--GGAVVTNDEELAE-RARLLRNHGRDRDRFKYEHEILGYNYRLSEIQAAIGLAQLEKLD 231 (352)
T ss_pred CcceeEEcCCCCCCCcc-cC--ceEEEECCHHHHH-HHHHHHHcCCCCCCCccccceeeeccCcCHHHHHHHHHHHHhhH
Confidence 3699999965 99943 32 6777776544322 111000 01123456666666665544332
Q ss_pred eEeecccCCceEEEEEEECChhHHHHHHHHHhhhhce
Q 018198 75 LGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLVNV 111 (359)
Q Consensus 75 lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v 111 (359)
-.. ++. .++.+++.+.|++++.+
T Consensus 232 ~~~-----~~~---------~~~~~~~~~~L~~~~g~ 254 (352)
T cd00616 232 EII-----ARR---------REIAERYKELLADLPGI 254 (352)
T ss_pred HHH-----HHH---------HHHHHHHHHHhcCCCCc
Confidence 222 333 55666777777665544
No 166
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=45.15 E-value=54 Score=23.06 Aligned_cols=32 Identities=16% Similarity=0.189 Sum_probs=28.3
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
..+.|.+.+|+.+.+++.++|...++.|=.+.
T Consensus 12 ~~V~V~Lk~g~~~~G~L~~~D~~mNi~L~~~~ 43 (68)
T cd01722 12 KPVIVKLKWGMEYKGTLVSVDSYMNLQLANTE 43 (68)
T ss_pred CEEEEEECCCcEEEEEEEEECCCEEEEEeeEE
Confidence 47889999999999999999999998886664
No 167
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=44.56 E-value=66 Score=23.29 Aligned_cols=32 Identities=13% Similarity=0.222 Sum_probs=28.1
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
..+.|.+.||+.+.+.+..+|...+|.|=...
T Consensus 11 ~~v~V~l~dgR~~~G~l~~~D~~~NivL~~~~ 42 (75)
T cd06168 11 RTMRIHMTDGRTLVGVFLCTDRDCNIILGSAQ 42 (75)
T ss_pred CeEEEEEcCCeEEEEEEEEEcCCCcEEecCcE
Confidence 47899999999999999999999999876554
No 168
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=44.28 E-value=62 Score=22.64 Aligned_cols=32 Identities=13% Similarity=0.174 Sum_probs=28.4
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
..+.|.+.+|+.+.+++..+|+..++.|-...
T Consensus 11 ~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~~~~ 42 (67)
T cd01726 11 RPVVVKLNSGVDYRGILACLDGYMNIALEQTE 42 (67)
T ss_pred CeEEEEECCCCEEEEEEEEEccceeeEEeeEE
Confidence 47889999999999999999999999887664
No 169
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=43.98 E-value=68 Score=22.85 Aligned_cols=33 Identities=21% Similarity=0.260 Sum_probs=29.2
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
..+.|.+.+|+.+.+++.++|+..++.|-....
T Consensus 15 k~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e 47 (72)
T PRK00737 15 SPVLVRLKGGREFRGELQGYDIHMNLVLDNAEE 47 (72)
T ss_pred CEEEEEECCCCEEEEEEEEEcccceeEEeeEEE
Confidence 468899999999999999999999998887753
No 170
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=43.95 E-value=49 Score=24.30 Aligned_cols=31 Identities=13% Similarity=0.164 Sum_probs=27.5
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEE
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHI 240 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v 240 (359)
+.+.|.+.+|+.+.+++.++|...+|.|=..
T Consensus 12 k~V~V~l~~gr~~~G~L~~fD~~mNlvL~d~ 42 (82)
T cd01730 12 ERVYVKLRGDRELRGRLHAYDQHLNMILGDV 42 (82)
T ss_pred CEEEEEECCCCEEEEEEEEEccceEEeccce
Confidence 5789999999999999999999999887554
No 171
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=43.57 E-value=65 Score=27.91 Aligned_cols=66 Identities=14% Similarity=0.226 Sum_probs=43.7
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-----CCceEEEEEEEC-ChhHHHHHHHHHhhhhc
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-----KDRALFTMVVFG-TDRELQQVVKQLQKLVN 110 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-----~~~~~~~~~~~~-~~~~~~~i~~~L~k~~~ 110 (359)
+.+...-.+.+|.+..+..+|..||+|+..|+-.-.. ...-.+.+++.- ......++.+.|+++-+
T Consensus 96 ~~v~v~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP~~~~~~~L~~~l~~l~~ 167 (190)
T PRK11589 96 VWVQVEVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSPASQDAANIEQAFKALCT 167 (190)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3566778899999999999999999999999983211 112244555542 22235556555555443
No 172
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=43.56 E-value=62 Score=23.52 Aligned_cols=32 Identities=19% Similarity=0.360 Sum_probs=28.2
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
..+.|.+.||+.+.+.+.++|...+|.|=...
T Consensus 11 ~~V~V~l~dgR~~~G~L~~~D~~~NlVL~~~~ 42 (79)
T cd01717 11 YRLRVTLQDGRQFVGQFLAFDKHMNLVLSDCE 42 (79)
T ss_pred CEEEEEECCCcEEEEEEEEEcCccCEEcCCEE
Confidence 47889999999999999999999999876654
No 173
>TIGR01327 PGDH D-3-phosphoglycerate dehydrogenase. This model represents a long form of D-3-phosphoglycerate dehydrogenase, the serA gene of one pathway of serine biosynthesis. Shorter forms, scoring between trusted and noise cutoff, include SerA from E. coli.
Probab=43.45 E-value=49 Score=33.56 Aligned_cols=70 Identities=16% Similarity=0.311 Sum_probs=52.5
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCC-ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKD-RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~-~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.+-....+..|+++.+...|...++|+-.++++..+++ ..-|.+.+ |..--+.+.++|++++++.++.++
T Consensus 453 ~li~~~~D~pG~I~~v~~~L~~~~iNIa~m~~~R~~~g~~al~~i~~--D~~v~~~~l~~i~~~~~i~~v~~i 523 (525)
T TIGR01327 453 MLIILHLDKPGVIGKVGTLLGTAGINIASMQLGRKEKGGEALMLLSL--DQPVPDEVLEEIKAIPDILSVFVV 523 (525)
T ss_pred EEEEEecCcCCcchHHHhHHhhcCCChHHcEeecCCCCCeEEEEEEc--CCCCCHHHHHHHhcCCCccEEEEE
Confidence 44455678899999999999999999999999554433 23344444 445557888999999999988875
No 174
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=43.21 E-value=67 Score=23.56 Aligned_cols=32 Identities=19% Similarity=0.252 Sum_probs=27.9
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
+++.|.+.+|+.+.+++..+|...+|.|=...
T Consensus 13 k~V~V~l~~gr~~~G~L~~~D~~mNlvL~~~~ 44 (81)
T cd01729 13 KKIRVKFQGGREVTGILKGYDQLLNLVLDDTV 44 (81)
T ss_pred CeEEEEECCCcEEEEEEEEEcCcccEEecCEE
Confidence 57889999999999999999999998886553
No 175
>PRK14451 acylphosphatase; Provisional
Probab=42.69 E-value=41 Score=25.21 Aligned_cols=34 Identities=18% Similarity=0.141 Sum_probs=29.1
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.+++++++++++.++|++-|.-.+|...
T Consensus 40 dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v 73 (89)
T PRK14451 40 DGRVEVFACGKEDKLEEFYTWLQKGPLNARVDVC 73 (89)
T ss_pred CCCEEEEEEECHHHHHHHHHHHhhCCCceEEEEE
Confidence 3468999999999999999999998877777765
No 176
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=42.07 E-value=1.5e+02 Score=22.26 Aligned_cols=65 Identities=14% Similarity=0.258 Sum_probs=45.0
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCc--eEEEEEEECC-hhHHHHHHHHHhhhhc
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDR--ALFTMVVFGT-DRELQQVVKQLQKLVN 110 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~--~~~~~~~~~~-~~~~~~i~~~L~k~~~ 110 (359)
.+.....+..|.|...=..|..+|+|..+|--.+..... -.+-|-++++ +..+.++.+.|++...
T Consensus 16 slif~l~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDieg~~~~~~~~~l~~L~~~~~ 83 (90)
T cd04931 16 SLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLDKKSAPALDPIIKSLRNDIG 83 (90)
T ss_pred EEEEEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcCCCHHHHHHHHHHHHHhC
Confidence 344455677999999999999999999999885543222 2344555664 6677777777776443
No 177
>PRK15385 magnesium transport protein MgtC; Provisional
Probab=42.01 E-value=1.4e+02 Score=26.72 Aligned_cols=61 Identities=7% Similarity=0.137 Sum_probs=45.4
Q ss_pred ccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEEC---ChhHHHHHHHHHhhhhceeeeeec
Q 018198 57 ILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFG---TDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 57 ~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~---~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
+.......+...+|+..++++...+ ++...|++.+.. ++...++++.+|...|.|.++...
T Consensus 157 vr~~L~~~l~~~~~~~~~l~~~~~~~~~~~ei~a~l~~~~~~~~~le~iv~~L~~~pgV~~v~W~ 221 (225)
T PRK15385 157 VRQWLLNIVKEAAICLQGLGSVPAQEQGYKEIRAELVGHADYRKTRELIISRIGDNDNITAIHWS 221 (225)
T ss_pred HHHHHHHHHHhCCCceEEeEeeecCCCCeEEEEEEEEecCCchhhHHHHHHHHhCCCCeEEEEEE
Confidence 3455656667779999999994432 444556555553 489999999999999999998863
No 178
>cd04930 ACT_TH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines (dopamine, noradrenaline and adrenaline), functioning as hormones and neurotransmitters. The enzyme is not regulated by its amino acid substrate, but instead by phosphorylation at several serine residues located N-terminal of the ACT domain, and by feedback inhibition by catecholamines at the active site. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=41.63 E-value=1.6e+02 Score=23.24 Aligned_cols=65 Identities=20% Similarity=0.172 Sum_probs=47.3
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecccCC--ceEEEEEEECChhHHHHHHHHHhhhhc
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKD--RALFTMVVFGTDRELQQVVKQLQKLVN 110 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~--~~~~~~~~~~~~~~~~~i~~~L~k~~~ 110 (359)
.+.....+..|.|..+=..|..+|+|..+|--.+.... .-.+-|-++++.+.+.++.+.|++...
T Consensus 43 Slifsl~~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdieg~~~~~~~aL~~L~~~~~ 109 (115)
T cd04930 43 TLLFSLKEGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCEVHRSDLLQLISSLRQVAE 109 (115)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEEeCHHHHHHHHHHHHHhcC
Confidence 34445577789999999999999999999977554322 234556667777778888888877554
No 179
>PF02743 Cache_1: Cache domain; InterPro: IPR004010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions [].; GO: 0016020 membrane; PDB: 3C8C_A 3LIB_D 3LIA_A 3LI8_A 3LI9_A.
Probab=41.40 E-value=37 Score=24.38 Aligned_cols=31 Identities=26% Similarity=0.610 Sum_probs=23.4
Q ss_pred cceeecCCCeEEEEEeeecCCCcceeEEEEehHHHHHHHHHH
Q 018198 310 GGPLLDSSGSLIGVNTFITSGAFSGIGFALPIDTVRGIVDQL 351 (359)
Q Consensus 310 GgPl~~~~G~viGi~~~~~~~~~~~~~~aip~~~i~~~l~~l 351 (359)
.-|+++.+|+++|+... .+.++.+.+.++++
T Consensus 18 s~pi~~~~g~~~Gvv~~-----------di~l~~l~~~i~~~ 48 (81)
T PF02743_consen 18 SVPIYDDDGKIIGVVGI-----------DISLDQLSEIISNI 48 (81)
T ss_dssp EEEEEETTTEEEEEEEE-----------EEEHHHHHHHHTTS
T ss_pred EEEEECCCCCEEEEEEE-----------EeccceeeeEEEee
Confidence 34888889999999765 46677777777664
No 180
>PLN02721 threonine aldolase
Probab=40.84 E-value=6.7 Score=36.98 Aligned_cols=28 Identities=18% Similarity=-0.026 Sum_probs=19.7
Q ss_pred ccCCcEEEeeecccccCCcceeeeeeeeccc
Q 018198 10 EFGAGIVMHSASKFIARHSDVMACGIAVNSE 40 (359)
Q Consensus 10 ~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~ 40 (359)
..++|.++.|++|+++|. +||.++.+.+
T Consensus 196 ~~~~d~~~~s~sK~l~~~---~G~~~~~~~~ 223 (353)
T PLN02721 196 VKAADSVSVCLSKGLGAP---VGSVIVGSKS 223 (353)
T ss_pred hhhCCEEEEecccccCCc---eeeEEecCHH
Confidence 348999999999999874 4443444443
No 181
>PRK06382 threonine dehydratase; Provisional
Probab=40.59 E-value=93 Score=30.36 Aligned_cols=63 Identities=21% Similarity=0.212 Sum_probs=49.4
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEee----cccCCceEEEEEEECC-hhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVI----GLNKDRALFTMVVFGT-DRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~----~~~~~~~~~~~~~~~~-~~~~~~i~~~L~k~ 108 (359)
.+...+.+.+|.|..+...+...|.|+.++.+. +...+...+++.++.. .+..++|.+.|++.
T Consensus 332 rl~v~v~D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~vet~~~~~~~~v~~~L~~~ 399 (406)
T PRK06382 332 RIECNIPDRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTVNVRGQDHLDRILNALREM 399 (406)
T ss_pred EEEEEcCCCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEEEeCCHHHHHHHHHHHHHC
Confidence 556678899999999999999999999998874 3334455688888754 45667999999874
No 182
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=40.43 E-value=15 Score=35.37 Aligned_cols=34 Identities=21% Similarity=0.233 Sum_probs=24.4
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
...++|+|+++.|+.|++++..- +|.+..+.+.+
T Consensus 205 ~~~~~g~D~~~~s~~K~l~~~~~--~G~l~~~~~~i 238 (387)
T PRK09331 205 DGKKLGADFIVGSGHKSMAASAP--SGVLATTEEYA 238 (387)
T ss_pred CHHHcCCCEEEeeCcccccCCCC--EEEEEECHHHH
Confidence 34468999999999999986542 45666665443
No 183
>PRK14425 acylphosphatase; Provisional
Probab=40.41 E-value=54 Score=24.83 Aligned_cols=34 Identities=15% Similarity=0.213 Sum_probs=29.3
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.++|+++.+++..++|++-|.-.+|..+
T Consensus 43 dGsVei~~qG~~~~le~f~~~l~~gp~~a~V~~i 76 (94)
T PRK14425 43 DGSVTALIAGPDSAISAMIERFRRGPPGASVSGV 76 (94)
T ss_pred CCeEEEEEEeCHHHHHHHHHHHhhCCCceEEEEE
Confidence 3468999999999999999999998877777765
No 184
>TIGR00719 sda_beta L-serine dehydratase, iron-sulfur-dependent, beta subunit. This family of enzymes is not homologous to the pyridoxal phosphate-dependent threonine deaminases and eukaryotic serine deaminases.
Probab=40.08 E-value=64 Score=28.33 Aligned_cols=49 Identities=20% Similarity=0.228 Sum_probs=39.0
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEEC
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFG 93 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~ 93 (359)
+.+-...++.+|++.++-..|...|+||-.++++..+ .+..-|.+.++.
T Consensus 149 ~~L~~~~~D~PG~Ig~vg~~Lg~~~iNIa~m~v~r~~~g~~Ai~vl~vD~ 198 (208)
T TIGR00719 149 PAILLEHNDKFGTIAGVANLLAGFEINIEHLETAKKDIGNIALLTIEIDK 198 (208)
T ss_pred cEEEEEeCCCCChHHHHHHHHHhCCccEEEEEEEecCCCCEEEEEEEeCC
Confidence 3555666889999999999999999999999996655 344557777765
No 185
>PRK07179 hypothetical protein; Provisional
Probab=39.95 E-value=9.6 Score=37.01 Aligned_cols=26 Identities=23% Similarity=0.087 Sum_probs=20.5
Q ss_pred cCCcEEEeeecccccCCcceeeeeeeeccc
Q 018198 11 FGAGIVMHSASKFIARHSDVMACGIAVNSE 40 (359)
Q Consensus 11 ~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~ 40 (359)
.++|+++.|++|.++|. +|.++++.+
T Consensus 240 ~~vdi~~~S~sK~~g~~----~G~l~~~~~ 265 (407)
T PRK07179 240 SRVHFITASLAKAFAGR----AGIITCPRE 265 (407)
T ss_pred CCCCEEEeechHhhhcc----CeEEEeCHH
Confidence 36799999999999875 677776654
No 186
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=39.84 E-value=1e+02 Score=28.53 Aligned_cols=62 Identities=15% Similarity=0.140 Sum_probs=41.9
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECCh--hHHHHHHHHHhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTD--RELQQVVKQLQK 107 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~--~~~~~i~~~L~k 107 (359)
++.....+..|.++.+..+|..+|.|++.++..-.+ .+.--|.+.++.++ ...+++.+.|+.
T Consensus 2 ~itv~g~D~~GIVA~Vt~~La~~g~NI~d~sq~~~~~~~~F~mr~~v~~~~~~~~~~~l~~~l~~ 66 (280)
T TIGR00655 2 ILLVSCPDQKGLVAAISTFIAKHGANIISNDQHTDPETGRFFMRVEFQLEGFRLEESSLLAAFKS 66 (280)
T ss_pred EEEEECCCCCChHHHHHHHHHHCCCCEEeeeEEEcCCCCeEEEEEEEEeCCCCCCHHHHHHHHHH
Confidence 456778899999999999999999999999984322 23322444444322 345566655555
No 187
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=39.67 E-value=87 Score=22.37 Aligned_cols=32 Identities=9% Similarity=0.147 Sum_probs=27.9
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
+++.|.+.+|+.+.+++.++|...+|.|=...
T Consensus 11 k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~ 42 (72)
T cd01719 11 KKLSLKLNGNRKVSGILRGFDPFMNLVLDDAV 42 (72)
T ss_pred CeEEEEECCCeEEEEEEEEEcccccEEeccEE
Confidence 57889999999999999999999998886553
No 188
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=39.65 E-value=85 Score=22.63 Aligned_cols=32 Identities=19% Similarity=0.202 Sum_probs=28.0
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
+.+.|.+.+|+.+.+.+.++|+..++.|=...
T Consensus 13 k~v~V~l~~gr~~~G~L~~fD~~~NlvL~d~~ 44 (74)
T cd01728 13 KKVVVLLRDGRKLIGILRSFDQFANLVLQDTV 44 (74)
T ss_pred CEEEEEEcCCeEEEEEEEEECCcccEEecceE
Confidence 57889999999999999999999998886553
No 189
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=39.32 E-value=99 Score=28.66 Aligned_cols=70 Identities=13% Similarity=0.175 Sum_probs=48.5
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeecc-cCCceEEEEEEEC--ChhHHHHHHHHHhhhhceeee
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL-NKDRALFTMVVFG--TDRELQQVVKQLQKLVNVLKV 114 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~-~~~~~~~~~~~~~--~~~~~~~i~~~L~k~~~v~~v 114 (359)
..+...-.+..|.+..+..+|..+|.|++.+++.-. ..+.-.|.+.+.. ......++.+.|+++.+=..+
T Consensus 7 ~vitv~G~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~~~~~~~~~~L~~~L~~l~~~l~l 79 (286)
T PRK06027 7 YVLTLSCPDRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGDGLIFNLETLRADFAALAEEFEM 79 (286)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeCCCCCCHHHHHHHHHHHHHHhCC
Confidence 367788899999999999999999999999999441 1222234444443 234567777777776644333
No 190
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=39.08 E-value=74 Score=23.06 Aligned_cols=31 Identities=13% Similarity=0.358 Sum_probs=27.7
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEE
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHI 240 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v 240 (359)
..+.|.+.+|+.+.+++.++|...++.|=..
T Consensus 14 ~~V~V~l~~gr~~~G~L~g~D~~mNlvL~da 44 (76)
T cd01732 14 SRIWIVMKSDKEFVGTLLGFDDYVNMVLEDV 44 (76)
T ss_pred CEEEEEECCCeEEEEEEEEeccceEEEEccE
Confidence 5788999999999999999999999887655
No 191
>PRK02047 hypothetical protein; Provisional
Probab=38.94 E-value=1.5e+02 Score=22.23 Aligned_cols=69 Identities=16% Similarity=0.124 Sum_probs=44.1
Q ss_pred EEEEeecCCCCccchhhhhhhhc--cceeeeeEeeccc-CCceEEEEEEE-CChhHHHHHHHHHhhhhceeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRR--NCNIESLGVIGLN-KDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKV 114 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~R--G~~tl~lr~~~~~-~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v 114 (359)
.++....+.......+...+..+ ++.-.+++..++. .+..-+|+.+. .+.+..+.|.+.|.+++.|..|
T Consensus 18 ~~KvIG~~~~~~~~~v~~iv~~~~~~~~~~~i~~k~Ss~GkY~Svtv~v~v~s~eq~~~iY~~L~~~~~Vk~v 90 (91)
T PRK02047 18 PIKVMGKAHPEFADTIFKVVSVHDPEFDLEKIEERPSSGGNYTGLTITVRATSREQLDNIYRALTGHPMVKVV 90 (91)
T ss_pred eEEEEEeCcHhHHHHHHHHHHHhCCCCccCceEEccCCCCeEEEEEEEEEECCHHHHHHHHHHHhhCCCEEEe
Confidence 45555555555555556655555 3334556663333 33455777776 5688999999999999999654
No 192
>PRK14442 acylphosphatase; Provisional
Probab=38.22 E-value=55 Score=24.59 Aligned_cols=33 Identities=15% Similarity=0.087 Sum_probs=28.5
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++++++.++++.++|++-|.-.+|...
T Consensus 42 G~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v 74 (91)
T PRK14442 42 GRVEVVWEGEEDRAKALERWLGRGPRHAEVSAV 74 (91)
T ss_pred CCEEEEEEcCHHHHHHHHHHHhhCCCCeEEEEE
Confidence 368999999999999999999988887777665
No 193
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=37.93 E-value=1.2e+02 Score=28.20 Aligned_cols=67 Identities=10% Similarity=0.234 Sum_probs=47.0
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEE-CChhHHHHHHHHHhhhhce
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVF-GTDRELQQVVKQLQKLVNV 111 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v 111 (359)
..+.....+..|.+..+..+|.-+|+|++.++..... ...-.|.+.+. .......++.+.|+++-+=
T Consensus 8 ~vitv~G~DrpGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~~p~~~~~~~L~~~L~~l~~~ 76 (286)
T PRK13011 8 FVLTLSCPSAAGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFHSEEGLDEDALRAGFAPIAAR 76 (286)
T ss_pred EEEEEEeCCCCCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEecCCCCCHHHHHHHHHHHHHH
Confidence 4677888999999999999999999999999994222 22223444443 2223467777777776543
No 194
>PRK14423 acylphosphatase; Provisional
Probab=37.76 E-value=60 Score=24.42 Aligned_cols=33 Identities=12% Similarity=0.041 Sum_probs=28.4
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++|+++.+++..++|++-|.-.+|.+.
T Consensus 43 G~Vei~~~G~~~~i~~f~~~l~~gp~~a~V~~v 75 (92)
T PRK14423 43 GRVEAVFEGPRDAVEAMVEWCHEGSPAAVVEDV 75 (92)
T ss_pred CeEEEEEEECHHHHHHHHHHHHhCCCceEEEEE
Confidence 468899999999999999999988877777765
No 195
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=37.60 E-value=16 Score=33.70 Aligned_cols=20 Identities=30% Similarity=0.306 Sum_probs=17.1
Q ss_pred ccccCCcEEEeeecccccCC
Q 018198 8 PLEFGAGIVMHSASKFIARH 27 (359)
Q Consensus 8 p~~~g~d~~~~s~tK~~~gh 27 (359)
..++|+|++++|++|++.|.
T Consensus 206 ~~~~~~div~~S~hK~l~g~ 225 (294)
T cd00615 206 AAMAGADIVVQSTHKTLPAL 225 (294)
T ss_pred hhhcCCcEEEEchhcccchH
Confidence 45679999999999998774
No 196
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=37.35 E-value=21 Score=26.15 Aligned_cols=24 Identities=13% Similarity=0.286 Sum_probs=21.8
Q ss_pred EEEEehHHHHHHHHHHHhcCcccC
Q 018198 336 GFALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 336 ~~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
.|..|.+.+...|++|.+.|+|++
T Consensus 25 ~~~~p~~~VeaMLe~l~~kGkver 48 (78)
T PRK15431 25 TLNTPQPMINAMLQQLESMGKAVR 48 (78)
T ss_pred HHCcCHHHHHHHHHHHHHCCCeEe
Confidence 567899999999999999999975
No 197
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=37.32 E-value=99 Score=21.25 Aligned_cols=33 Identities=18% Similarity=0.355 Sum_probs=28.5
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
..+.|.+.||+.+.+.+..+|...++-|=....
T Consensus 9 ~~V~V~l~~g~~~~G~L~~~D~~~NlvL~~~~e 41 (67)
T smart00651 9 KRVLVELKNGREYRGTLKGFDQFMNLVLEDVEE 41 (67)
T ss_pred cEEEEEECCCcEEEEEEEEECccccEEEccEEE
Confidence 468899999999999999999999988876643
No 198
>PRK14421 acylphosphatase; Provisional
Probab=37.10 E-value=66 Score=24.69 Aligned_cols=34 Identities=6% Similarity=0.139 Sum_probs=29.0
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
..++.|.++|+++.++++.++|++-|.-.+|...
T Consensus 41 dG~Vei~~~G~~~~i~~f~~~l~~gP~~a~V~~v 74 (99)
T PRK14421 41 DGSVEALFAGPADAVAEMIARCRRGPSAARVDAV 74 (99)
T ss_pred CCEEEEEEeCCHHHHHHHHHHHHhCCCCcEEEEE
Confidence 3478999999999999999999988877777765
No 199
>PF02700 PurS: Phosphoribosylformylglycinamidine (FGAM) synthase; InterPro: IPR003850 Phosphoribosylformylglycinamidine(FGAM) synthetase, 6.3.5.3 from EC, catalyses the fourth step in the de novo purine biosynthetic pathway []. 5-phosphoribosylformylglycinamide (FGAR) + glutamine + ATP = FGAM + glutamate + ADP + Pi In eukaryotes and many bacterial systems (including Escherichia coli and Salmonella typhimurium), the FGAM synthetase is encoded by the large form of PurL (lgPurL), which contains an N-terminal ATPase domain and a C-terminal glutamine-binding domain. In archaeal and other bacterial systems, however, FGAM synthetase is encoded by separate genes, making it a multisubunit (rather than multidomain) enzyme. The protein is composed of the small form of PurL (smPurL), which is homologus to the ATPase domain of lgPurL, PurQ which is homologous to the glutamine-binding domain of of lgPurL, and PurS, whose function is not known. This entry represents the PurS subunit of the multisubunit FGAM synthetase. Recent studies showed that disruption of the purS gene in Bacillus subtilis resulted in a purine auxotrophic phenotype, due to defective FGAM synthetase activity. Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known. For additional information please see [, ].; GO: 0016879 ligase activity, forming carbon-nitrogen bonds; PDB: 2ZW2_B 3D54_B 1VQ3_B 1GTD_A 2YX5_A 2CUW_A 1TWJ_B 1T4A_B 2DGB_B.
Probab=36.68 E-value=1.7e+02 Score=21.43 Aligned_cols=62 Identities=11% Similarity=0.226 Sum_probs=35.8
Q ss_pred EEEeecCCCCccchhh----hhhhhccce-eeeeEeecccCCceEEEEEEECC-----hhHHHHHHHHHhhhhceeee
Q 018198 47 ISVFVGDESGILSRID----GVFTRRNCN-IESLGVIGLNKDRALFTMVVFGT-----DRELQQVVKQLQKLVNVLKV 114 (359)
Q Consensus 47 l~~~~~~~G~~lsp~~----a~l~~RG~~-tl~lr~~~~~~~~~~~~~~~~~~-----~~~~~~i~~~L~k~~~v~~v 114 (359)
....+....|++.|.- .-+...||+ +-.+|+ .. .+.+.++++ .+.++++++.|-..|-+...
T Consensus 3 ~~V~V~~K~gvlDPqG~ai~~al~~lG~~~v~~Vr~-----GK-~~~l~~~~~~~e~a~~~v~~i~~~LLaNpvie~y 74 (80)
T PF02700_consen 3 VRVEVTLKPGVLDPQGEAIKRALHRLGYDGVKDVRV-----GK-YIELELEADDEEEAEEQVEEICEKLLANPVIEDY 74 (80)
T ss_dssp EEEEEEE-TTS--HHHHHHHHHHHHTT-TTEEEEEE-----EE-EEEEEEE-SSHHHHHHHHHHHHHHTTS-TTTEEE
T ss_pred EEEEEEECCCCcCcHHHHHHHHHHHcCCcccCcEEE-----EE-EEEEEEeCCCHHHHHHHHHHHHHHhcCCCceEEE
Confidence 3456667788888853 335677888 788888 33 477777766 45666666666555554443
No 200
>PRK14446 acylphosphatase; Provisional
Probab=36.60 E-value=60 Score=24.31 Aligned_cols=34 Identities=15% Similarity=0.086 Sum_probs=29.1
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.++++++.++++.++|++-|.-.+|...
T Consensus 39 dGsVei~~qG~~~~l~~f~~~l~~gP~~a~V~~v 72 (88)
T PRK14446 39 DGSVEVVAAGSAAALEALEAWLWQGPPAATVAAV 72 (88)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHhhCCCceEEEEE
Confidence 3468899999999999999999998877777765
No 201
>PRK14440 acylphosphatase; Provisional
Probab=36.37 E-value=57 Score=24.48 Aligned_cols=32 Identities=13% Similarity=0.207 Sum_probs=27.7
Q ss_pred EEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.|.+.++++.+++..++|++-|.-.+|..+
T Consensus 42 ~Vei~~~G~~~~v~~f~~~l~~gp~~a~V~~i 73 (90)
T PRK14440 42 SVEVVAEGYEEALSKLLERIKQGPPAAEVEKV 73 (90)
T ss_pred CEEEEEEcCHHHHHHHHHHHhhCCCCcEEEEE
Confidence 68899999999999999999998876666664
No 202
>PRK14444 acylphosphatase; Provisional
Probab=36.11 E-value=65 Score=24.25 Aligned_cols=33 Identities=12% Similarity=0.053 Sum_probs=28.2
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++|+++.+++..++|++.|.-.+|..+
T Consensus 42 G~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~i 74 (92)
T PRK14444 42 GRVEAVFEGSRPAVQKMISWCYSGPSHARVERV 74 (92)
T ss_pred CcEEEEEEcCHHHHHHHHHHHHhCCCCcEEEEE
Confidence 358899999999999999999988876667665
No 203
>PRK14445 acylphosphatase; Provisional
Probab=35.76 E-value=64 Score=24.21 Aligned_cols=33 Identities=12% Similarity=0.177 Sum_probs=28.1
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++|+++.+++..++|++-|.-.+|..+
T Consensus 42 G~Vei~~qG~~~~l~~f~~~l~~gP~~a~V~~i 74 (91)
T PRK14445 42 GTVEIEAQGSSGMIDELIKQAERGPSRSSVTSI 74 (91)
T ss_pred CeEEEEEEECHHHHHHHHHHHHhCCCCcEEEEE
Confidence 358899999999999999999988876666665
No 204
>PRK14430 acylphosphatase; Provisional
Probab=35.73 E-value=66 Score=24.24 Aligned_cols=33 Identities=15% Similarity=0.156 Sum_probs=28.2
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++|+++.++++..+|++-|...+|...
T Consensus 42 GsVei~~qG~~~~i~~f~~~l~~gp~~a~V~~v 74 (92)
T PRK14430 42 GTVEVMASGTVRQLEALRAWMEAGPPAAQVTKV 74 (92)
T ss_pred CcEEEEEEcCHHHHHHHHHHHHhCCCceEEEEE
Confidence 368899999999999999999888776677665
No 205
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=35.55 E-value=82 Score=23.12 Aligned_cols=47 Identities=21% Similarity=0.469 Sum_probs=31.4
Q ss_pred EEEEEEEEcCCCCEEEEEEcCCCCCccceEecCCCCCCCCCEEEE-EecC
Q 018198 222 FYAQVVGHDQVNDLAVLHIDAPNHELRPIHVSVSADLRVGKKIYA-IGHP 270 (359)
Q Consensus 222 ~~~~v~~~d~~~DlAll~v~~~~~~~~~~~l~~~~~~~~G~~v~~-iG~p 270 (359)
++++++..+...++|++.+-.-.+.+. +.|- ..+++.|+.|.+ +||.
T Consensus 5 iPgqI~~I~~~~~~A~Vd~gGvkreV~-l~Lv-~~~v~~GdyVLVHvGfA 52 (82)
T COG0298 5 IPGQIVEIDDNNHLAIVDVGGVKREVN-LDLV-GEEVKVGDYVLVHVGFA 52 (82)
T ss_pred cccEEEEEeCCCceEEEEeccEeEEEE-eeee-cCccccCCEEEEEeeEE
Confidence 467888888888899999875332222 2221 237789999886 6663
No 206
>PRK14435 acylphosphatase; Provisional
Probab=35.51 E-value=59 Score=24.39 Aligned_cols=33 Identities=12% Similarity=0.129 Sum_probs=28.4
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++++++.+++..++|++-|.-.+|..+
T Consensus 40 G~Vei~~~G~~~~i~~f~~~l~~gp~~a~V~~v 72 (90)
T PRK14435 40 GSVFIHAEGDENALRRFLNEVAKGPPAAVVTNV 72 (90)
T ss_pred CCEEEEEEECHHHHHHHHHHHhhCCCCcEEEEE
Confidence 468899999999999999999988877777765
No 207
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=35.46 E-value=1e+02 Score=22.06 Aligned_cols=32 Identities=25% Similarity=0.264 Sum_probs=28.0
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
+++.|++.+|+.+.+++.++|...++.|=...
T Consensus 10 ~~V~V~l~dgr~~~G~L~~~D~~~NlvL~~~~ 41 (74)
T cd01727 10 KTVSVITVDGRVIVGTLKGFDQATNLILDDSH 41 (74)
T ss_pred CEEEEEECCCcEEEEEEEEEccccCEEccceE
Confidence 47889999999999999999999988887653
No 208
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=35.39 E-value=33 Score=26.80 Aligned_cols=19 Identities=37% Similarity=0.518 Sum_probs=13.9
Q ss_pred cceeecCCCeEEEEEeeec
Q 018198 310 GGPLLDSSGSLIGVNTFIT 328 (359)
Q Consensus 310 GgPl~~~~G~viGi~~~~~ 328 (359)
-.|++|.+|++||+++.+.
T Consensus 93 ~~PV~d~~g~viG~V~VG~ 111 (116)
T PF14827_consen 93 FAPVYDSDGKVIGVVSVGV 111 (116)
T ss_dssp EEEEE-TTS-EEEEEEEEE
T ss_pred EEeeECCCCcEEEEEEEEE
Confidence 3589999999999988764
No 209
>TIGR01127 ilvA_1Cterm threonine dehydratase, medium form. A form of threonine dehydratase with two copies of the C-terminal domain Pfam:PF00585 is described by TIGR01124. This model describes a phylogenetically distinct form with a single copy of pfam00585. This form branches with the catabolic threonine dehydratase of E. coli; many members are designated as catabolic for this reason. However, the catabolic form lacks any pfam00585 domain. Many members of this model are found in species with other Ile biosynthetic enzymes.
Probab=34.91 E-value=1.4e+02 Score=28.79 Aligned_cols=63 Identities=16% Similarity=0.205 Sum_probs=49.7
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEee---cc-cCCceEEEEEEEC-ChhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVI---GL-NKDRALFTMVVFG-TDRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~---~~-~~~~~~~~~~~~~-~~~~~~~i~~~L~k~ 108 (359)
++.....+.+|.|+.+...+...|.|++++... .. ..+...+++.++. +.+..++|.+.|++.
T Consensus 307 ~l~v~l~D~pG~L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~vet~~~~~~~~i~~~L~~~ 374 (380)
T TIGR01127 307 RIETVLPDRPGALYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITLETRGKEHLDEILKILRDM 374 (380)
T ss_pred EEEEEeCCCCCHHHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEEEeCCHHHHHHHHHHHHHc
Confidence 677788899999999999999999999999764 22 1334567888775 467778999998774
No 210
>PRK14450 acylphosphatase; Provisional
Probab=34.63 E-value=72 Score=23.91 Aligned_cols=32 Identities=16% Similarity=0.091 Sum_probs=27.3
Q ss_pred EEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.|.++|+++.++++.++|++-|...+|...
T Consensus 42 ~Vei~~~G~~~~v~~f~~~l~~gp~~a~V~~v 73 (91)
T PRK14450 42 EVEVVAEGDKDSLLEFLDLLRSGPPRAEVKEV 73 (91)
T ss_pred EEEEEEEeCHHHHHHHHHHHhhCCCCcEEEEE
Confidence 48889999999999999999988776666664
No 211
>PTZ00094 serine hydroxymethyltransferase; Provisional
Probab=34.57 E-value=34 Score=33.86 Aligned_cols=29 Identities=17% Similarity=0.127 Sum_probs=21.7
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeecc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNS 39 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~ 39 (359)
.|+. |+|+++-|+.|++.|.. ||.+..++
T Consensus 231 ~~~~-~~D~l~~S~hK~l~GP~---Gg~l~~~~ 259 (452)
T PTZ00094 231 SPFP-YADVVTTTTHKSLRGPR---SGLIFYRK 259 (452)
T ss_pred CCCC-CCcEEEcCCccCCCCCC---ceEEEEec
Confidence 4655 89999999999997765 35555554
No 212
>PRK14429 acylphosphatase; Provisional
Probab=34.21 E-value=78 Score=23.66 Aligned_cols=33 Identities=12% Similarity=0.135 Sum_probs=28.1
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++++++.+++..++|++-|.-.+|..+
T Consensus 40 G~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~i 72 (90)
T PRK14429 40 GSVEILAQGSDPAVDNLIAWCEVGVPCTEVLRV 72 (90)
T ss_pred CeEEEEEEeCHHHHHHHHHHHhhCCCceEEEEE
Confidence 468899999999999999999987877677665
No 213
>PRK14436 acylphosphatase; Provisional
Probab=34.04 E-value=75 Score=23.87 Aligned_cols=33 Identities=9% Similarity=0.145 Sum_probs=28.0
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++++++.+++..++|++-|.-.+|...
T Consensus 42 G~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v 74 (91)
T PRK14436 42 GSVEAVLEGDEERVEALIGWAHQGPPLARVTRV 74 (91)
T ss_pred CcEEEEEEcCHHHHHHHHHHHhhCCCceEEEEE
Confidence 368899999999999999999988876666664
No 214
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=33.79 E-value=1.2e+02 Score=20.79 Aligned_cols=34 Identities=21% Similarity=0.391 Sum_probs=30.1
Q ss_pred CCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 209 ASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 209 ~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
...+.|.+.+|+.+.+.+..+|...++.|-....
T Consensus 8 g~~V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~ 41 (67)
T PF01423_consen 8 GKRVRVELKNGRTYRGTLVSFDQFMNLVLSDVTE 41 (67)
T ss_dssp TSEEEEEETTSEEEEEEEEEEETTEEEEEEEEEE
T ss_pred CcEEEEEEeCCEEEEEEEEEeechheEEeeeEEE
Confidence 3578999999999999999999999999888764
No 215
>PRK14447 acylphosphatase; Provisional
Probab=33.65 E-value=77 Score=24.02 Aligned_cols=32 Identities=13% Similarity=0.041 Sum_probs=27.7
Q ss_pred EEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.|.++|+++.++++.++|++-|.-.+|..+
T Consensus 44 ~Vei~~qG~~~~l~~f~~~l~~gp~~a~V~~v 75 (95)
T PRK14447 44 TVEAVLEGPRDAVLKVIEWARVGPPGARVEDV 75 (95)
T ss_pred EEEEEEEeCHHHHHHHHHHHhhCCCCeEEEEE
Confidence 58899999999999999999988776666665
No 216
>PRK14428 acylphosphatase; Provisional
Probab=33.57 E-value=79 Score=24.14 Aligned_cols=34 Identities=21% Similarity=0.140 Sum_probs=28.7
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.++|+++.+++..++|++-|.-.+|...
T Consensus 45 dGsVei~~qG~~~~i~~fi~~l~~gP~~a~V~~v 78 (97)
T PRK14428 45 DGSVELEAQGSSDAVQALVEQLAIGPRWSEVSHV 78 (97)
T ss_pred CCEEEEEEEcCHHHHHHHHHHHhhCCCccEEEEE
Confidence 3468999999999999999999988877666664
No 217
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=32.57 E-value=81 Score=21.18 Aligned_cols=49 Identities=6% Similarity=0.199 Sum_probs=34.1
Q ss_pred CCccchhh-hhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhh
Q 018198 55 SGILSRID-GVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKL 108 (359)
Q Consensus 55 G~~lsp~~-a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~ 108 (359)
+++...+. ++..+.|.....+-. ...++++....+....++|.+.|++.
T Consensus 10 ~~C~~~v~~~l~~~~GV~~v~vd~-----~~~~v~v~~~~~~~~~~~i~~~i~~~ 59 (62)
T PF00403_consen 10 EGCAKKVEKALSKLPGVKSVKVDL-----ETKTVTVTYDPDKTSIEKIIEAIEKA 59 (62)
T ss_dssp HHHHHHHHHHHHTSTTEEEEEEET-----TTTEEEEEESTTTSCHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhcCCCCcEEEEEC-----CCCEEEEEEecCCCCHHHHHHHHHHh
Confidence 34444444 455556777666666 77888999887776778888888874
No 218
>PF05578 Peptidase_S31: Pestivirus NS3 polyprotein peptidase S31; InterPro: IPR000280 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S31 (clan PA(S)). The type example is pestivirus NS3 polyprotein peptidase from bovine viral diarrhea virus, which is Type 1 pestivirus. The pestiviruses are single-stranded RNA viruses whose genomes encode one large polyprotein []. The p80 endopeptidase resides towards the middle of the polyprotein and is responsible for processing all non-structural pestivirus proteins [, ]. The p80 enzyme is similar to other proteases in the PA(S) clan and is predicted to have a fold similar to that of chymotrypsin [, ]. An HDS catalytic triad has been identified [].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis
Probab=32.40 E-value=1.6e+02 Score=24.51 Aligned_cols=68 Identities=22% Similarity=0.317 Sum_probs=37.7
Q ss_pred CCCCCEEEEEecCCCCCCceeEeEEeeeecccCCccccc------EEEEcccCCCCCccceeecC-CCeEEEEEeeec
Q 018198 258 LRVGKKIYAIGHPLGWSFTCTTGVISALDREIPGRLIQG------VIQIDASVNLGNSGGPLLDS-SGSLIGVNTFIT 328 (359)
Q Consensus 258 ~~~G~~v~~iG~p~~~~~~~~~G~vs~~~~~~~~~~~~~------~i~~~~~~~~G~SGgPl~~~-~G~viGi~~~~~ 328 (359)
-..|..+|++ +|.....+-+.|.+.-+... +..+.- --.+|..-..|.||=|+|.. .|++||=.-.+-
T Consensus 109 cp~garcyv~-npea~nisgtkga~vhlqk~--ggef~cvta~gtpaf~~~knlkg~s~~pifeassgr~vgr~k~gk 183 (211)
T PF05578_consen 109 CPDGARCYVL-NPEATNISGTKGAMVHLQKT--GGEFTCVTASGTPAFFDLKNLKGWSGLPIFEASSGRVVGRVKVGK 183 (211)
T ss_pred CCCCcEEEEe-CCcccccccCcceEEEEecc--CCceEEEeccCCcceeeccccCCCCCCceeeccCCcEEEEEEecC
Confidence 3567888887 55544444444443333221 111000 01123334469999999976 899999876654
No 219
>PRK13580 serine hydroxymethyltransferase; Provisional
Probab=32.38 E-value=24 Score=35.40 Aligned_cols=56 Identities=14% Similarity=0.026 Sum_probs=35.1
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhh
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTR 67 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~ 67 (359)
.|+. ++|+++-|+.|.+.|-. ||.|.++.+.... ..+..-...|+.+.|..+....
T Consensus 272 ~~~~-~~D~vtgT~hKaL~GP~---GG~I~~~~~l~~~-L~~a~P~i~gg~l~p~iAA~av 327 (493)
T PRK13580 272 DPVP-HADIVTTTTHKTLRGPR---GGLVLAKKEYADA-VDKGCPLVLGGPLPHVMAAKAV 327 (493)
T ss_pred CCCC-CCcEEEeCChhhccCCC---eEEEEecHHHHHH-HhhCCCcccCCCccHHHHHHHH
Confidence 5653 89999999999986532 5777776653321 1111123567788886665554
No 220
>PRK14449 acylphosphatase; Provisional
Probab=32.32 E-value=85 Score=23.48 Aligned_cols=32 Identities=9% Similarity=0.236 Sum_probs=27.5
Q ss_pred EEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.|.++++++.+++..++|++-+...+|...
T Consensus 42 ~Vei~~~G~~~~v~~f~~~l~~~~~~a~V~~i 73 (90)
T PRK14449 42 SVEVVAEGDEENIKELINFIKTGLRWARVDNV 73 (90)
T ss_pred eEEEEEEeCHHHHHHHHHHHhhCCCceEEEEE
Confidence 68999999999999999999987766666664
No 221
>PRK04366 glycine dehydrogenase subunit 2; Validated
Probab=32.27 E-value=25 Score=35.15 Aligned_cols=35 Identities=20% Similarity=0.227 Sum_probs=24.6
Q ss_pred ccccccCCcEEEeeecccccCCcc---eeeeeeeeccc
Q 018198 6 LRPLEFGAGIVMHSASKFIARHSD---VMACGIAVNSE 40 (359)
Q Consensus 6 ~~p~~~g~d~~~~s~tK~~~gh~d---~~~g~~~~~~~ 40 (359)
.+|-++|||+++-|+.|++++.-. --+|.+.++++
T Consensus 255 ~~~~~~GaD~~~~~~hK~l~~P~g~Ggp~~G~l~~~~~ 292 (481)
T PRK04366 255 ARPGDMGFDVVHLNLHKTFSTPHGGGGPGSGPVGVKEE 292 (481)
T ss_pred CCccccCCCEEEEechhhcCCCCCCCCCCeeeeeehhh
Confidence 378899999999999999874422 23445555543
No 222
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl group of N5, N10-methylene tetrahydrofolate to glycine resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers; the mammalian enzyme forms a homotetramer comprising four pyridoxal phosphate-bound active sites.
Probab=32.11 E-value=32 Score=33.15 Aligned_cols=32 Identities=22% Similarity=0.289 Sum_probs=23.4
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
.|++ ++|+++.|++|++.|.. +|.++++++.+
T Consensus 210 ~~~~-~~dv~~~s~sK~l~G~~---gg~i~~~~~~~ 241 (402)
T cd00378 210 NPLP-GADVVTTTTHKTLRGPR---GGLILTRKGEL 241 (402)
T ss_pred Cccc-CCcEEEeccccCCCCCC---ceEEEeccHHH
Confidence 4566 89999999999987753 56666666334
No 223
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=32.09 E-value=1.3e+02 Score=21.18 Aligned_cols=32 Identities=6% Similarity=0.201 Sum_probs=29.0
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
..+.|.+.+|..+.+++..+|...++.|-.+.
T Consensus 11 ~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~ 42 (70)
T cd01721 11 HIVTVELKTGEVYRGKLIEAEDNMNCQLKDVT 42 (70)
T ss_pred CEEEEEECCCcEEEEEEEEEcCCceeEEEEEE
Confidence 57889999999999999999999999998774
No 224
>PRK14433 acylphosphatase; Provisional
Probab=31.80 E-value=75 Score=23.66 Aligned_cols=32 Identities=16% Similarity=0.206 Sum_probs=26.9
Q ss_pred EEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.|.++++++.+++..++|++-|.-..|...
T Consensus 40 ~Vei~~~G~~~~i~~f~~~l~~gP~~a~V~~i 71 (87)
T PRK14433 40 RVEVVAEGPKEALERLLHWLRRGPRHARVEAV 71 (87)
T ss_pred CEEEEEEECHHHHHHHHHHHhhCCCCcEEEEE
Confidence 58899999999999999999987776666654
No 225
>PLN02483 serine palmitoyltransferase
Probab=31.75 E-value=15 Score=36.97 Aligned_cols=56 Identities=14% Similarity=-0.033 Sum_probs=33.4
Q ss_pred cCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEee--cCCCCccchhhhhhhhcccee
Q 018198 11 FGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFV--GDESGILSRIDGVFTRRNCNI 72 (359)
Q Consensus 11 ~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~--~~~G~~lsp~~a~l~~RG~~t 72 (359)
.++||++.|+||.+++.+ |.++++.+.+.. +.... ...++.++|..+......++.
T Consensus 300 ~~~dI~~~SfSKs~g~~G----G~i~~~~~li~~--l~~~~~~~~~~~~~~p~~~~~~~aaL~~ 357 (489)
T PLN02483 300 ADVDIMMGTFTKSFGSCG----GYIAGSKELIQY--LKRTCPAHLYATSMSPPAVQQVISAIKV 357 (489)
T ss_pred ccCcEEEEecchhcccCc----eEEEcCHHHHHH--HHHhCccccccCCcCHHHHHHHHHHHHH
Confidence 368999999999998853 777765543322 21111 123555666666555555543
No 226
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=31.42 E-value=59 Score=25.85 Aligned_cols=44 Identities=18% Similarity=0.293 Sum_probs=35.4
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEE
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFT 88 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~ 88 (359)
++++.+.+|..|-|.....-|.--|+|+-.+.++.+. -+.-||.
T Consensus 4 KQISvFlENk~GRL~~~~~~L~eagINiRA~tiAdt~dFGIiRmv 48 (142)
T COG4747 4 KQISVFLENKPGRLASVANKLKEAGINIRAFTIADTGDFGIIRMV 48 (142)
T ss_pred eEEEEEecCCcchHHHHHHHHHHcCCceEEEEeccccCcceEEEE
Confidence 3789999999999999999999999999999994433 3344443
No 227
>PF04455 Saccharop_dh_N: LOR/SDH bifunctional enzyme conserved region ; InterPro: IPR007545 Lysine-oxoglutarate reductase/Saccharopine dehydrogenase (LOR/SDH) is a bifunctional enzyme. This conserved region is commonly found immediately N-terminal to saccharopine dehydrogenase conserved region (IPR005097 from INTERPRO) in eukaryotes [, ].; PDB: 3C2Q_B 3MGJ_A.
Probab=30.88 E-value=1.5e+02 Score=22.93 Aligned_cols=43 Identities=19% Similarity=0.264 Sum_probs=31.0
Q ss_pred cceeeeeEeecccCCceEEEEEEE-CChhHHHHHHHHHhhhhce
Q 018198 69 NCNIESLGVIGLNKDRALFTMVVF-GTDRELQQVVKQLQKLVNV 111 (359)
Q Consensus 69 G~~tl~lr~~~~~~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v 111 (359)
.|+++.+++++...+.+.-.+.+. .|.+...+|..+|..+-.+
T Consensus 31 ~F~i~~~~vG~~~~d~S~a~l~V~a~d~~~L~~Il~~L~~lga~ 74 (103)
T PF04455_consen 31 DFEILEFDVGKSKDDTSYARLQVSAPDEEHLDEILDELHQLGAV 74 (103)
T ss_dssp EEEEEEEE--SSTTS-EEEEEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CEEEEEEEeCCCCCCceeEEEEEecCCHHHHHHHHHHHHHHcCC
Confidence 478999999766667776666666 5588999999999988765
No 228
>PRK14437 acylphosphatase; Provisional
Probab=30.87 E-value=80 Score=24.70 Aligned_cols=34 Identities=15% Similarity=0.057 Sum_probs=29.1
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.++++++.+++..++|++-|.-.+|...
T Consensus 60 dG~Vei~~qG~~~~ie~f~~~L~~gP~~a~V~~i 93 (109)
T PRK14437 60 HGDVELVACGERDSIMILTEWLWEGPPQAAVSNV 93 (109)
T ss_pred CCCEEEEEEECHHHHHHHHHHHHhCCCceEEEEE
Confidence 3468999999999999999999998877777765
No 229
>PRK00011 glyA serine hydroxymethyltransferase; Reviewed
Probab=30.65 E-value=32 Score=33.40 Aligned_cols=32 Identities=22% Similarity=0.264 Sum_probs=23.7
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
.+++ ++|+++.|++|.+.|.. +|.++++++.+
T Consensus 214 ~~~~-~~di~~~S~~K~l~g~~---gg~i~~~~~~~ 245 (416)
T PRK00011 214 SPVP-HADVVTTTTHKTLRGPR---GGLILTNDEEL 245 (416)
T ss_pred CCCC-CCcEEEecCCcCCCCCC---ceEEEeCCHHH
Confidence 4566 89999999999886643 67777765444
No 230
>cd04614 CBS_pair_1 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=30.64 E-value=59 Score=23.96 Aligned_cols=49 Identities=24% Similarity=0.144 Sum_probs=30.1
Q ss_pred CCCccceeecCCCeEEEEEeeecCCCcceeEEEEehHHHHHHHHHHHhc
Q 018198 306 LGNSGGPLLDSSGSLIGVNTFITSGAFSGIGFALPIDTVRGIVDQLVKF 354 (359)
Q Consensus 306 ~G~SGgPl~~~~G~viGi~~~~~~~~~~~~~~aip~~~i~~~l~~l~~~ 354 (359)
.+.++-|++|.+|+++|+.+...--......+.-|-+.+.+.++.+.++
T Consensus 22 ~~~~~~~V~d~~~~~~Giv~~~dl~~~~~~~~v~~~~~l~~a~~~m~~~ 70 (96)
T cd04614 22 ANVKALPVLDDDGKLSGIITERDLIAKSEVVTATKRTTVSECAQKMKRN 70 (96)
T ss_pred cCCCeEEEECCCCCEEEEEEHHHHhcCCCcEEecCCCCHHHHHHHHHHh
Confidence 3567889999899999998865411101123333445566666666554
No 231
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=30.59 E-value=1.2e+02 Score=21.99 Aligned_cols=33 Identities=21% Similarity=0.381 Sum_probs=29.2
Q ss_pred CeEEEEecCCcEEEEEEEEEcCCCCEEEEEEcC
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQVNDLAVLHIDA 242 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~~ 242 (359)
..+.|.+.+|+.+.+++.++|...++.|--+..
T Consensus 18 ~~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e 50 (79)
T COG1958 18 KRVLVKLKNGREYRGTLVGFDQYMNLVLDDVEE 50 (79)
T ss_pred CEEEEEECCCCEEEEEEEEEccceeEEEeceEE
Confidence 678999999999999999999999988876654
No 232
>TIGR03403 nifS_epsilon cysteine desulfurase, NifS family, epsilon proteobacteria type. Members of this family are the NifS-like cysteine desulfurase of the epsilon division of the Proteobacteria, similar to the NifS protein of nitrogen-fixing bacteria. Like NifS, and unlike IscS, this protein is found as part of a system of just two proteins, a cysteine desulfurase and a scaffold, for iron-sulfur cluster biosynthesis. This protein is called NifS by Olsen, et al. (PubMed:11123951), so we use this designation.
Probab=30.57 E-value=44 Score=31.95 Aligned_cols=22 Identities=23% Similarity=0.249 Sum_probs=18.8
Q ss_pred cccccCCcEEEeeecccccCCc
Q 018198 7 RPLEFGAGIVMHSASKFIARHS 28 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~ 28 (359)
+..++|+|+++.|++||.+.++
T Consensus 187 ~~~~~~~D~~~~s~~K~~gp~G 208 (382)
T TIGR03403 187 DVQKAGVDFLSFSAHKFHGPKG 208 (382)
T ss_pred CccccCCCEEEEcchhhCCCCc
Confidence 4457899999999999988777
No 233
>PRK14012 cysteine desulfurase; Provisional
Probab=30.55 E-value=54 Score=31.68 Aligned_cols=29 Identities=10% Similarity=0.100 Sum_probs=21.2
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeecc
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNS 39 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~ 39 (359)
-++|+|+++.|.+|+++..+ +|+.++.++
T Consensus 193 ~~~~~D~~~~s~~K~~gp~g--~G~l~~~~~ 221 (404)
T PRK14012 193 SKLKVDLMSFSAHKIYGPKG--IGALYVRRK 221 (404)
T ss_pred ccCCCCEEEEehhhccCCCc--eEEEEEecC
Confidence 35789999999999887653 555555544
No 234
>PRK10534 L-threonine aldolase; Provisional
Probab=30.39 E-value=9 Score=35.92 Aligned_cols=80 Identities=10% Similarity=0.027 Sum_probs=38.8
Q ss_pred CCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEE
Q 018198 12 GAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVV 91 (359)
Q Consensus 12 g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~ 91 (359)
+.|.++.|+||. |+..+||.++++.+.. + .+..+....++.++ ..++.+..+...+.=.. ..-...
T Consensus 187 ~~~~~~~s~SK~---~~~~~G~~~~~~~~~i-~-~~~~~~~~~~~~~~-~~~~~~a~~~~~l~~~~--~~~~~~------ 252 (333)
T PRK10534 187 YCDSFTICLSKG---LGTPVGSLLVGNRDYI-K-RARRWRKMTGGGMR-QAGILAAAGLYALKHNV--ARLQED------ 252 (333)
T ss_pred cCCEEEEEeEcC---CCCcccceEEcCHHHH-H-HHHHHHHHhCCchh-hHHHHHHHHHHHHHhhH--HHHHHH------
Confidence 468778899994 4445665666554433 2 23333333443333 33333333443332001 000111
Q ss_pred ECChhHHHHHHHHHhhh
Q 018198 92 FGTDRELQQVVKQLQKL 108 (359)
Q Consensus 92 ~~~~~~~~~i~~~L~k~ 108 (359)
.++.+.+.++|+++
T Consensus 253 ---~~~r~~l~~~L~~~ 266 (333)
T PRK10534 253 ---HDNAAWLAEQLREA 266 (333)
T ss_pred ---HHHHHHHHHHHHhC
Confidence 23456788888875
No 235
>COG0156 BioF 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]
Probab=30.27 E-value=45 Score=32.39 Aligned_cols=99 Identities=14% Similarity=0.064 Sum_probs=54.2
Q ss_pred CcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccceeee---------------eE-
Q 018198 13 AGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCNIES---------------LG- 76 (359)
Q Consensus 13 ~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~---------------lr- 76 (359)
+||++.+++|.++. +||.++++.......+.+..--.....|+|..+--...-++++. +|
T Consensus 233 vdi~~gTlsKAlGs----~Gg~v~g~~~~~d~L~~~ar~~ifStalpP~~aaa~~~al~~l~~~~~~r~~L~~~~~~~~~ 308 (388)
T COG0156 233 VDIIVGTLGKALGS----SGGYIAGSAALIDYLRNRARPFIFSTALPPAVAAAALAALRILEEGPERRERLQELAAFFRS 308 (388)
T ss_pred ceEEEEEchhhhcc----cCceeeCcHHHHHHHHHhCCceeccCCCCHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHH
Confidence 48999999999985 45556555433211011111222455667765433333333322 11
Q ss_pred ---eeccc--CCceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 77 ---VIGLN--KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 77 ---~~~~~--~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
..+.. +..+-|.-+..+|++.+.+++.+|.+. .+ .+..+
T Consensus 309 ~~~~~~~~~~~s~s~I~pv~~gd~~~a~~~s~~l~~~-Gi-~v~~i 352 (388)
T COG0156 309 LLKALGLVLLPSESPIIPVILGDEERALEASRALLEE-GI-YVSAI 352 (388)
T ss_pred HHHhcCCccCCCCCCeeeeEeCCHHHHHHHHHHHHHC-Ce-eEeee
Confidence 00111 222446667789989999999999886 43 44443
No 236
>PRK07334 threonine dehydratase; Provisional
Probab=30.17 E-value=1.8e+02 Score=28.28 Aligned_cols=63 Identities=22% Similarity=0.313 Sum_probs=50.1
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeecc----cCCceEEEEEEE-CChhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGL----NKDRALFTMVVF-GTDRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~----~~~~~~~~~~~~-~~~~~~~~i~~~L~k~ 108 (359)
.+.....+..|.|..+...+..-+.|+.++..... ..+...+.++++ .+.+...+|.+.|++.
T Consensus 328 ~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~ 395 (403)
T PRK07334 328 RLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAA 395 (403)
T ss_pred EEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHc
Confidence 56777888999999999999999999999998433 223445666666 5788899999999885
No 237
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=30.10 E-value=1.1e+02 Score=26.50 Aligned_cols=64 Identities=22% Similarity=0.299 Sum_probs=50.0
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhh
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLV 109 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~ 109 (359)
..+..+-.+..|.++.+...+...|.|++..|+.-..... -|++.+.+....+.++...|.++.
T Consensus 9 lviTviG~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~F-a~i~lvs~~~~~~~~le~~L~~l~ 72 (190)
T PRK11589 9 LVITALGADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEF-TFIMLLSGSWNAITLIESTLPLKG 72 (190)
T ss_pred EEEEEEcCCCChHHHHHHHHHHHcCCCeeehhhHhhCCce-EEEEEEeCChhHHHHHHHHHHhhh
Confidence 3677888999999999999999999999999994333333 355555777778888888777765
No 238
>cd04618 CBS_pair_5 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=30.01 E-value=76 Score=23.58 Aligned_cols=50 Identities=20% Similarity=0.131 Sum_probs=31.5
Q ss_pred CCCccceeecCC-CeEEEEEeeecCCCcceeEEEEehHHHHHHHHHHHhcC
Q 018198 306 LGNSGGPLLDSS-GSLIGVNTFITSGAFSGIGFALPIDTVRGIVDQLVKFS 355 (359)
Q Consensus 306 ~G~SGgPl~~~~-G~viGi~~~~~~~~~~~~~~aip~~~i~~~l~~l~~~g 355 (359)
.+.++-|++|.+ |+++|+.+...--........-|-..+.++++.+.+++
T Consensus 22 ~~~~~~~Vvd~~~~~~~Givt~~Dl~~~~~~~~v~~~~~l~~a~~~m~~~~ 72 (98)
T cd04618 22 NGIRSAPLWDSRKQQFVGMLTITDFILILRLVSIHPERSLFDAALLLLKNK 72 (98)
T ss_pred cCCceEEEEeCCCCEEEEEEEHHHHhhheeeEEeCCCCcHHHHHHHHHHCC
Confidence 355788999974 89999999653111000233445557777777776653
No 239
>PRK14420 acylphosphatase; Provisional
Probab=29.94 E-value=84 Score=23.49 Aligned_cols=34 Identities=18% Similarity=0.184 Sum_probs=28.3
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.++++++.+++..++|++-|.-.+|..+
T Consensus 39 dG~Vei~~qG~~~~i~~f~~~l~~~p~~a~V~~i 72 (91)
T PRK14420 39 DGTVEIEAEGPEEALQLFLDAIEKGSPFSKVTDV 72 (91)
T ss_pred CCcEEEEEEECHHHHHHHHHHHHhCCCCCEEEEE
Confidence 3468899999999999999999887766666665
No 240
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=29.93 E-value=2e+02 Score=20.27 Aligned_cols=51 Identities=16% Similarity=0.303 Sum_probs=39.2
Q ss_pred cCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECCh-----hHHHHHHHHHhh
Q 018198 52 GDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTD-----RELQQVVKQLQK 107 (359)
Q Consensus 52 ~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~-----~~~~~i~~~L~k 107 (359)
....+.+.++-.-|...|++.+.+-- ...++.+++..++ ....+|.+.|++
T Consensus 12 ~~~~g~~~~if~~L~~~~I~v~~i~~-----s~~~is~~v~~~~~~~~~~~~~~~~~~l~~ 67 (75)
T cd04912 12 LGAHGFLAKVFEIFAKHGLSVDLIST-----SEVSVSLTLDPTKNLSDQLLLDALVKDLSQ 67 (75)
T ss_pred CCCccHHHHHHHHHHHcCCeEEEEEc-----CCcEEEEEEEchhhccchHHHHHHHHHHHh
Confidence 34467778888888999999988864 4467888888665 477888999988
No 241
>PRK14441 acylphosphatase; Provisional
Probab=29.63 E-value=96 Score=23.37 Aligned_cols=35 Identities=9% Similarity=-0.015 Sum_probs=28.4
Q ss_pred CceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 83 DRALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
..-++.|.++|+++.++++.++|++-|.-.+|..+
T Consensus 41 ~dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v 75 (93)
T PRK14441 41 PDGRVEAEAEGERAAVGALVRWCHAGPPAARVDRV 75 (93)
T ss_pred CCCEEEEEEEECHHHHHHHHHHHhhCCCCcEEEEE
Confidence 33468899999999999999999988776666654
No 242
>TIGR02539 SepCysS Sep-tRNA:Cys-tRNA synthase. Aminoacylation of tRNA(Cys) with Cys, and cysteine biosynthesis in the process, happens in Methanocaldococcus jannaschii and several other archaea by misacylation of tRNA(Cys) with O-phosphoserine (Sep), followed by modification of the phosphoserine to cysteine. In some species, direct tRNA-cys aminoacylation also occurs but this pathway is required for Cys biosynthesis. Members of this protein catalyze the second step in this two step pathway, using pyridoxal phosphate and a sulfur donor to synthesize Cys from Sep while attached to the tRNA.
Probab=29.12 E-value=40 Score=32.20 Aligned_cols=33 Identities=21% Similarity=0.263 Sum_probs=24.3
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeecccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSER 41 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~ 41 (359)
.+.++++|+++.|++|++++.+. .|.++++.+.
T Consensus 193 ~~~~~~~di~v~s~sK~~~~~g~--~G~l~~~~~~ 225 (370)
T TIGR02539 193 SAKEIGADFIVGSGHKSMAASGP--CGVLGMSEEW 225 (370)
T ss_pred CHHHcCCCEEEeeCcccccCCCC--EEEEEECHHH
Confidence 34567899999999999987654 4566665543
No 243
>PRK14448 acylphosphatase; Provisional
Probab=28.98 E-value=97 Score=23.18 Aligned_cols=33 Identities=18% Similarity=0.158 Sum_probs=27.9
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++++++.+++..++|++-|.-.+|...
T Consensus 40 G~Vei~~~G~~~~v~~f~~~l~~gp~~a~V~~v 72 (90)
T PRK14448 40 GSVEVVAVGSDAQIAAFRDWLQHGPPTAVVCNV 72 (90)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHhCCCceEEEEE
Confidence 358899999999999999999988876666664
No 244
>PRK08198 threonine dehydratase; Provisional
Probab=28.88 E-value=2.1e+02 Score=27.79 Aligned_cols=63 Identities=10% Similarity=0.199 Sum_probs=49.9
Q ss_pred EEEEeecCCCCccchhhhhhhhccceeeeeEeeccc----CCceEEEEEEEC-ChhHHHHHHHHHhhh
Q 018198 46 TISVFVGDESGILSRIDGVFTRRNCNIESLGVIGLN----KDRALFTMVVFG-TDRELQQVVKQLQKL 108 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~----~~~~~~~~~~~~-~~~~~~~i~~~L~k~ 108 (359)
.+.....+.+|.|+.+-..+..-|.|+++++..... .+...++++++. +.+..++|.+.|++.
T Consensus 329 ~l~v~l~D~PG~L~~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~ie~~~~~~~~~l~~~L~~~ 396 (404)
T PRK08198 329 KLRVRLPDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLETRGPEHIEEILDALRDA 396 (404)
T ss_pred EEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEeCCHHHHHHHHHHHHHC
Confidence 677788899999999999999999999999985422 234567777774 456788999999775
No 245
>PRK14427 acylphosphatase; Provisional
Probab=27.73 E-value=1.1e+02 Score=23.23 Aligned_cols=33 Identities=15% Similarity=0.163 Sum_probs=27.1
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-.+.|.++++++.++++.++|++-|.-.+|..+
T Consensus 44 GsVei~~qG~~~~i~~f~~~l~~~p~~a~V~~i 76 (94)
T PRK14427 44 GSVALVAEGTGEQVEKLLDWLNSDRAPGRVERV 76 (94)
T ss_pred CeEEEEEEECHHHHHHHHHHHhhCCCCcEEEEE
Confidence 468899999999999999999987665555554
No 246
>COG1254 AcyP Acylphosphatases [Energy production and conversion]
Probab=27.65 E-value=1.2e+02 Score=22.89 Aligned_cols=33 Identities=21% Similarity=0.248 Sum_probs=28.3
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|++++++++++++.+||.+=+.-.+|.+.
T Consensus 42 GsVeiva~G~~~~v~~~~~~l~~g~~~a~V~~v 74 (92)
T COG1254 42 GSVEIVAEGPDEAVEKFIEWLRKGPPAAKVERV 74 (92)
T ss_pred CeEEEEEEcCHHHHHHHHHHHHhCCCceEEEEE
Confidence 379999999999999999999987777777665
No 247
>PRK00907 hypothetical protein; Provisional
Probab=27.55 E-value=1.8e+02 Score=21.99 Aligned_cols=69 Identities=9% Similarity=0.036 Sum_probs=42.7
Q ss_pred EEEEeecCCCCccchhhhhhhhcc--ceeeeeEeeccc-CCceEEEEEEE-CChhHHHHHHHHHhhhhceeee
Q 018198 46 TISVFVGDESGILSRIDGVFTRRN--CNIESLGVIGLN-KDRALFTMVVF-GTDRELQQVVKQLQKLVNVLKV 114 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~RG--~~tl~lr~~~~~-~~~~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v 114 (359)
.++..-.+.......+-..+.... +.-.++.+.++. .+.+-+|+++. .+.+.++.|.+.|.+++.|.-|
T Consensus 19 piKVmG~a~~~l~~~V~~vv~~h~p~~~~~~i~~r~Ss~GkY~Svtv~i~ats~eQld~iY~~L~~~~~Vkmv 91 (92)
T PRK00907 19 ELSAMGTAERGLETELPRLLAATGVELLQERISWKHSSSGKYVSVRIGFRAESREQYDAAHQALRDHPEVKWT 91 (92)
T ss_pred eEEEEEcCchhHHHHHHHHHHHhCCCCCcCcEEeccCCCCEEEEEEEEEEECCHHHHHHHHHHHhhCCCEEEe
Confidence 455555555555555555544332 234455553333 34456777777 4588999999999999999544
No 248
>PRK14422 acylphosphatase; Provisional
Probab=27.53 E-value=1e+02 Score=23.23 Aligned_cols=33 Identities=12% Similarity=0.077 Sum_probs=27.4
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++|+++.++++.++|++-|.-.+|..+
T Consensus 44 G~Vei~~~G~~~~i~~f~~~l~~gp~~a~V~~i 76 (93)
T PRK14422 44 GRVQVVAEGPRAACEKLLQLLRGDDTPGRVDKV 76 (93)
T ss_pred CCEEEEEEcCHHHHHHHHHHHHhCCCCcEEEEE
Confidence 358899999999999999999987766666654
No 249
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=26.86 E-value=1.5e+02 Score=27.59 Aligned_cols=34 Identities=18% Similarity=0.442 Sum_probs=31.6
Q ss_pred eEEEEeecCCCCccchhhhhhhhccceeeeeEee
Q 018198 45 HTISVFVGDESGILSRIDGVFTRRNCNIESLGVI 78 (359)
Q Consensus 45 ~~l~~~~~~~G~~lsp~~a~l~~RG~~tl~lr~~ 78 (359)
..+.....+..|.++.+..+|...|.|++.++..
T Consensus 10 ~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~ 43 (289)
T PRK13010 10 YVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQF 43 (289)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHCCCCEEecccc
Confidence 4788899999999999999999999999999983
No 250
>PRK14438 acylphosphatase; Provisional
Probab=26.86 E-value=1.1e+02 Score=22.88 Aligned_cols=34 Identities=9% Similarity=0.047 Sum_probs=27.7
Q ss_pred ceEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 84 RALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 84 ~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
.-++.|.++|+++.++++.++|++-|.-.+|..+
T Consensus 40 dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v 73 (91)
T PRK14438 40 NGSVQGCFEGEETDVAALIDWCHHGPSRARVSGV 73 (91)
T ss_pred CCEEEEEEEECHHHHHHHHHHHhhCCCCcEEEEE
Confidence 3468899999999999999999987766666654
No 251
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.72 E-value=2.4e+02 Score=20.13 Aligned_cols=58 Identities=16% Similarity=0.170 Sum_probs=42.5
Q ss_pred ecCCCCccchhhhhhhhccceeeeeEeecccCC--ceEEEEEEECChhHHHHHHHHHhhh
Q 018198 51 VGDESGILSRIDGVFTRRNCNIESLGVIGLNKD--RALFTMVVFGTDRELQQVVKQLQKL 108 (359)
Q Consensus 51 ~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~--~~~~~~~~~~~~~~~~~i~~~L~k~ 108 (359)
..+..|.|...=..|..+|+|..+|--.+.... ...+-|-++++...++++.+.|++.
T Consensus 7 l~~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e~~~~~i~~~l~~l~~~ 66 (74)
T cd04929 7 LKNEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCECDQRRLDELVQLLKRE 66 (74)
T ss_pred cCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcCHHHHHHHHHHHHHh
Confidence 356688899999999999999999988554322 2345566777777777777777663
No 252
>PF08753 NikR_C: NikR C terminal nickel binding domain; InterPro: IPR014864 NikR is a transcription factor that regulates nickel uptake. It consists of two dimeric DNA binding domains separated by a tetrameric regulatory domain that binds nickel. This protein corresponds to the C-terminal regulatory domain which contains four nickel binding sites at the tetramer interface []. ; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 2WVB_B 2WVD_C 3QSI_B 3LGH_A 2CAD_A ....
Probab=26.66 E-value=1e+02 Score=22.36 Aligned_cols=34 Identities=26% Similarity=0.405 Sum_probs=29.5
Q ss_pred CceEEEEEEECChhHHHHHHHHHhhhhceeeeee
Q 018198 83 DRALFTMVVFGTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
+.-..++++.|+.+.+.++++.|.++..|..+..
T Consensus 41 ~~ClEvivv~G~~~~I~~l~~~l~~~kGV~~~~l 74 (78)
T PF08753_consen 41 DNCLEVIVVRGPADRIKELAEKLRSLKGVKHVKL 74 (78)
T ss_dssp SEEEEEEEEEEEHHHHHHHHHHHHTSTTEEEEEE
T ss_pred CCeEEEEEEEcCHHHHHHHHHHHhccCCeeEEEE
Confidence 3346788999999999999999999999988775
No 253
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=26.09 E-value=1.4e+02 Score=21.72 Aligned_cols=32 Identities=16% Similarity=0.225 Sum_probs=26.7
Q ss_pred eEEEEEEE-CChhHHHHHHHHHhhhhceeeeee
Q 018198 85 ALFTMVVF-GTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 85 ~~~~~~~~-~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
.|+.++++ .+.+...+..++|+.++.|..+.-
T Consensus 39 GKiVVtiE~~~~~~~~~~~~~i~~l~GVlsa~l 71 (79)
T PF03927_consen 39 GKIVVTIEAESSEEEVDLIDAINALPGVLSASL 71 (79)
T ss_dssp TEEEEEEEESSHHHHHHHHHHHCCSTTEEEEEE
T ss_pred CeEEEEEEeCChHHHHHHHHHHHcCCCceEEEE
Confidence 78888888 446888899999999999988753
No 254
>PRK14426 acylphosphatase; Provisional
Probab=26.03 E-value=1.2e+02 Score=22.81 Aligned_cols=32 Identities=13% Similarity=0.249 Sum_probs=26.5
Q ss_pred EEEEEEECChhHHHHHHHHHhhh-hceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKL-VNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~-~~v~~v~~~ 117 (359)
++.|.++++++.++++.++|++- |.-.+|...
T Consensus 43 ~Vei~~~G~~~~i~~f~~~l~~g~P~~a~V~~i 75 (92)
T PRK14426 43 SVEVVACGEEEQVEKLMEWLKEGGPRSARVDRV 75 (92)
T ss_pred cEEEEEEeCHHHHHHHHHHHhcCCCCCeEEEEE
Confidence 68899999999999999999986 665555554
No 255
>TIGR02326 transamin_PhnW 2-aminoethylphosphonate--pyruvate transaminase. Members of this family are 2-aminoethylphosphonate--pyruvate transaminase. This enzyme acts on the most common type of naturally occurring phosphonate. It interconverts 2-aminoethylphosphonate plus pyruvate with 2-phosphonoacetaldehyde plus alanine. The enzyme phosphonoacetaldehyde hydrolase (EC 3.11.1.1), usually encoded by an adjacent gene, then cleaves the C-P bond of phosphonoacetaldehyde, adding water to yield acetaldehyde plus inorganic phosphate. Species with this pathway generally have an identified phosphonate ABC transporter but do not also have the multisubunit C-P lysase complex as found in Escherichia coli.
Probab=25.97 E-value=41 Score=31.92 Aligned_cols=31 Identities=16% Similarity=0.154 Sum_probs=22.9
Q ss_pred ccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 10 EFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 10 ~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
++|+|+++-|+.|++.|...+ |.+..+.+.+
T Consensus 179 ~~~~D~~~~s~~K~l~~p~G~--G~l~~~~~~~ 209 (363)
T TIGR02326 179 ELHIDYLISSANKCIQGVPGF--GFVIARQAEL 209 (363)
T ss_pred hcCccEEEecCccccccCCcc--eEEEECHHHH
Confidence 579999999999999766442 6666655443
No 256
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=25.91 E-value=2e+02 Score=21.82 Aligned_cols=49 Identities=16% Similarity=0.344 Sum_probs=33.4
Q ss_pred hhhhhhccceeeeeEeecccCCceEEEEEEEC-ChhHHHHHHHHHhhhhceeeeee
Q 018198 62 DGVFTRRNCNIESLGVIGLNKDRALFTMVVFG-TDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 62 ~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~-~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
.+++.+.|.++-.. +.+ -++.++.++ +.+.+.+=.+++++++.|..++-
T Consensus 25 ~~L~~ip~~EV~~~-----d~~-GKlVVVie~~~~~~l~~tie~i~nl~gVlav~l 74 (94)
T COG3062 25 TALLAIPGCEVYGE-----DAE-GKLVVVIEAEDSETLLETIESIRNLPGVLAVSL 74 (94)
T ss_pred HHHhcCCCcEeecc-----CCC-ceEEEEEEcCchHHHHHHHHHHhcCCceeEEEE
Confidence 44555666443221 223 678888884 46778888899999999988764
No 257
>TIGR03588 PseC UDP-4-keto-6-deoxy-N-acetylglucosamine 4-aminotransferase. This family of enzymes are aminotransferases of the pfam01041 family involved in the biosynthesis of pseudaminic acid. They convert UDP-4-keto-6-deoxy-N-acetylglucosamine into UDP-4-amino-4,6-dideoxy-N-acetylgalactose. Pseudaminic acid has a role in surface polysaccharide in Pseudomonas as well as in the modification of flagellin in Campylobacter and Helicobacter species.
Probab=25.60 E-value=50 Score=31.61 Aligned_cols=28 Identities=18% Similarity=0.254 Sum_probs=20.9
Q ss_pred cEEEeeec--ccccCCcceeeeeeeecccccee
Q 018198 14 GIVMHSAS--KFIARHSDVMACGIAVNSERVQR 44 (359)
Q Consensus 14 d~~~~s~t--K~~~gh~d~~~g~~~~~~~~~~~ 44 (359)
|+++.|+. |+++. + -||+++++++.+.+
T Consensus 175 d~~~~S~~~~K~~~~-~--~GG~v~~~~~~~~~ 204 (380)
T TIGR03588 175 DATVFSFHPVKIITT-A--EGGAVTTNDEELAE 204 (380)
T ss_pred ceEEEecCCCCcccc-c--CceEEEECCHHHHH
Confidence 99999964 99964 2 47888887766543
No 258
>PRK05764 aspartate aminotransferase; Provisional
Probab=25.28 E-value=16 Score=35.09 Aligned_cols=58 Identities=16% Similarity=-0.003 Sum_probs=37.5
Q ss_pred cCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccchhhhhhhhccce
Q 018198 11 FGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILSRIDGVFTRRNCN 71 (359)
Q Consensus 11 ~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~lsp~~a~l~~RG~~ 71 (359)
.+-++++.|.||.++..+ .-.|.++.+.+.. + .+.......+..++++..+...+.++
T Consensus 227 ~~~~i~~~s~SK~~~~~G-~RiG~i~~~~~~~-~-~~~~~~~~~~~~~~~~~q~~~~~~l~ 284 (393)
T PRK05764 227 RDRTITVNGFSKAYAMTG-WRLGYAAGPKELI-K-AMSKLQSHSTSNPTSIAQYAAVAALN 284 (393)
T ss_pred cCCEEEEecCcccccCcc-ceeEEEecCHHHH-H-HHHHHHhhcccCCChHHHHHHHHHHc
Confidence 467899999999986554 3446777655433 2 23334444466678888777777665
No 259
>PF01276 OKR_DC_1: Orn/Lys/Arg decarboxylase, major domain; InterPro: IPR000310 Pyridoxal-dependent decarboxylases are bacterial proteins acting on ornithine, lysine, arginine and related substrates []. One of the regions of sequence similarity contains a conserved lysine residue, which is the site of attachment of the pyridoxal-phosphate group.; GO: 0003824 catalytic activity; PDB: 1C4K_A 1ORD_A 2X3L_B 3Q16_C 3N75_A 2VYC_D.
Probab=25.26 E-value=39 Score=33.16 Aligned_cols=26 Identities=27% Similarity=0.383 Sum_probs=20.4
Q ss_pred ccccccccCCc-------EEEeeecccccCCcc
Q 018198 4 VVLRPLEFGAG-------IVMHSASKFIARHSD 29 (359)
Q Consensus 4 ~~~~p~~~g~d-------~~~~s~tK~~~gh~d 29 (359)
+.-.++.+||| +++||+.|-+.+=+=
T Consensus 215 lp~~a~~~gad~~~~~~~~vvqS~HKtL~altQ 247 (417)
T PF01276_consen 215 LPRSALALGADRPNDPGIIVVQSTHKTLPALTQ 247 (417)
T ss_dssp GGTTCSSTTSS-CTSBEEEEEEEHHHHSSS-TT
T ss_pred CccchhhccCccccccceeeeechhhccccccc
Confidence 33456789999 999999999987654
No 260
>cd04627 CBS_pair_14 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=25.10 E-value=51 Score=25.33 Aligned_cols=21 Identities=33% Similarity=0.491 Sum_probs=16.9
Q ss_pred CCccceeecCCCeEEEEEeee
Q 018198 307 GNSGGPLLDSSGSLIGVNTFI 327 (359)
Q Consensus 307 G~SGgPl~~~~G~viGi~~~~ 327 (359)
+.+.=|++|.+|+++|+.+..
T Consensus 98 ~~~~lpVvd~~~~~vGiit~~ 118 (123)
T cd04627 98 GISSVAVVDNQGNLIGNISVT 118 (123)
T ss_pred CCceEEEECCCCcEEEEEeHH
Confidence 445569999889999998864
No 261
>PF06838 Met_gamma_lyase: Methionine gamma-lyase ; InterPro: IPR009651 This family represents the aluminium resistance protein, which confers resistance to aluminium in bacteria [].; PDB: 3JZL_A 3I16_C 3GWP_A 3FD0_B 3HT4_F.
Probab=25.08 E-value=54 Score=31.55 Aligned_cols=127 Identities=16% Similarity=0.094 Sum_probs=71.1
Q ss_pred ccccccCCcEEEeeecccccCCcceeeeeeeeccccceee--EE--EEeecC------------CCCccchhhh------
Q 018198 6 LRPLEFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRH--TI--SVFVGD------------ESGILSRIDG------ 63 (359)
Q Consensus 6 ~~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~--~l--~~~~~~------------~G~~lsp~~a------ 63 (359)
.-|.+.|||++.=|+-|-.+|.=--.||-|+++.+...+- ++ -.+-+. +|--|+|...
T Consensus 206 ~EP~~vGADl~aGSLIKNpGGgiAptGGYIaGr~~lVe~~a~RLTaPGiG~e~G~t~~~~R~~~QGlFlAP~vV~eAlKg 285 (403)
T PF06838_consen 206 QEPTEVGADLMAGSLIKNPGGGIAPTGGYIAGRKDLVERAAYRLTAPGIGKEVGATLGTNRLMFQGLFLAPHVVGEALKG 285 (403)
T ss_dssp S-GGGGT-SEEEEETTSGGGTTT-SS-EEEEESHHHHHHHHHHHS-TTTGGGSS--TTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCccccchhheeccceeCCCCCccCcCCEEechHHHHHHHHhhhcCCccccccccCcchHHHHHhHHhhchHHHHHHHHH
Confidence 4689999999999999999999999999999887543210 00 001111 2334455432
Q ss_pred -hhhhccceeeeeEeeccc-CCce-EEEEEEECChhHHHHHHHHHhhhhceeeeeecc-CCCCCCCcccccCC
Q 018198 64 -VFTRRNCNIESLGVIGLN-KDRA-LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTKQ-SSSSSLEPFFLPCS 132 (359)
Q Consensus 64 -~l~~RG~~tl~lr~~~~~-~~~~-~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~~-~~~~~~el~li~~~ 132 (359)
.|..+=++-|...+.+.- +.++ -|..+..++.+.+...++-+++--.|..-...+ .+.+=.+--+|...
T Consensus 286 aif~A~~fe~lG~~v~P~~~~~R~DiIQai~l~~~e~l~~FC~~iQ~~sPVDs~v~PeP~~MPGY~d~VIMAa 358 (403)
T PF06838_consen 286 AIFAAALFEKLGFEVSPKPDDPRSDIIQAIELGSPEKLIAFCQGIQAASPVDSHVTPEPWDMPGYEDPVIMAA 358 (403)
T ss_dssp HHHHHHHHHHTT-EEES-TTS--SSS-EEEE-SSHHHHHHHHHHHHHTSSSSTTS---EEEETTCSSEEEEEE
T ss_pred HHHHHHHHHHcCCcCCCCCCCCCCceEEEEECCCHHHHHHHHHHHHhcCCcCccceecCCCCCCCCCceEEec
Confidence 233333555666665532 3333 477777799999999999999877665544432 24444444444333
No 262
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=24.79 E-value=27 Score=24.54 Aligned_cols=23 Identities=17% Similarity=0.413 Sum_probs=18.5
Q ss_pred EEEehHHHHHHHHHHHhcCcccC
Q 018198 337 FALPIDTVRGIVDQLVKFSRYCN 359 (359)
Q Consensus 337 ~aip~~~i~~~l~~l~~~g~v~~ 359 (359)
|.++.+.+...|++|++.|+|++
T Consensus 24 ~~~s~~~ve~mL~~l~~kG~I~~ 46 (69)
T PF09012_consen 24 FGISPEAVEAMLEQLIRKGYIRK 46 (69)
T ss_dssp TT--HHHHHHHHHHHHCCTSCEE
T ss_pred HCcCHHHHHHHHHHHHHCCcEEE
Confidence 45789999999999999999863
No 263
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=24.40 E-value=2.1e+02 Score=20.46 Aligned_cols=29 Identities=17% Similarity=0.161 Sum_probs=21.1
Q ss_pred CeEEEEecCCcEEEEEEEEEcC---CCCEEEE
Q 018198 210 STVKVSFSDQSTFYAQVVGHDQ---VNDLAVL 238 (359)
Q Consensus 210 ~~~~v~~~~g~~~~~~v~~~d~---~~DlAll 238 (359)
..+.|++.||..|++-+...++ +.|++|=
T Consensus 13 ~~V~V~~~~G~~yeGif~s~s~~~~~~~vvLk 44 (77)
T PF14438_consen 13 QTVEVTTKNGSVYEGIFHSASPESNEFDVVLK 44 (77)
T ss_dssp SEEEEEETTS-EEEEEEEEE-T---T--EEEE
T ss_pred CEEEEEECCCCEEEEEEEeCCCcccceeEEEE
Confidence 4789999999999999988887 6677663
No 264
>cd06453 SufS_like Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L-selenocystine to produce L-alanine; and selenocysteine lyase catalyzes the decomposition of L-selenocysteine.
Probab=24.26 E-value=54 Score=31.08 Aligned_cols=30 Identities=13% Similarity=0.214 Sum_probs=22.6
Q ss_pred ccCCcEEEeeecccccCCcceeeeeeeeccccc
Q 018198 10 EFGAGIVMHSASKFIARHSDVMACGIAVNSERV 42 (359)
Q Consensus 10 ~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~ 42 (359)
++|+|+++-|.+|++++.+ .|.++.+++.+
T Consensus 189 ~~~~d~~~~s~~K~~~~~g---~g~~~~~~~~~ 218 (373)
T cd06453 189 DLGCDFLAFSGHKMLGPTG---IGVLYGKEELL 218 (373)
T ss_pred ccCCCEEEeccccccCCCC---cEEEEEchHHh
Confidence 6799999999999999833 46666665443
No 265
>PF01732 DUF31: Putative peptidase (DUF31); InterPro: IPR022382 This domain has no known function. It is found in various hypothetical proteins and putative lipoproteins from mycoplasmas.
Probab=24.13 E-value=87 Score=30.14 Aligned_cols=23 Identities=39% Similarity=0.583 Sum_probs=18.3
Q ss_pred cceEEEEEEeC----CC------EEEecccccC
Q 018198 185 RGSGAGFLWDQ----DG------HIVTNYHVIC 207 (359)
Q Consensus 185 ~~~GsGfii~~----~g------~vlT~~Hvv~ 207 (359)
...|||+|++- ++ ++-||.||+.
T Consensus 35 ~~~GT~WIlDy~~~~~~~~p~k~y~ATNlHVa~ 67 (374)
T PF01732_consen 35 SVSGTGWILDYKKPEDNKYPTKWYFATNLHVAS 67 (374)
T ss_pred cCcceEEEEEEeccCCCCCCeEEEEEechhhhc
Confidence 45799999972 22 6999999997
No 266
>TIGR01822 2am3keto_CoA 2-amino-3-ketobutyrate coenzyme A ligase. This model represents a narrowly defined clade of animal and bacterial (almost exclusively Proteobacterial) 2-amino-3-ketobutyrate--CoA ligase. This enzyme can act in threonine catabolism. The closest homolog from Bacillus subtilis, and sequences like it, may be functionally equivalent but were not included in the model because of difficulty in finding reports of function.
Probab=23.80 E-value=32 Score=33.01 Aligned_cols=27 Identities=11% Similarity=-0.020 Sum_probs=20.7
Q ss_pred cCCcEEEeeecccccCCcceeeeeeeeccc
Q 018198 11 FGAGIVMHSASKFIARHSDVMACGIAVNSE 40 (359)
Q Consensus 11 ~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~ 40 (359)
.++|+++.|++|.++|. .+|.+.++.+
T Consensus 229 ~~~di~~~s~sK~l~g~---r~G~~~~~~~ 255 (393)
T TIGR01822 229 GRVDIITGTLGKALGGA---SGGFTTARKE 255 (393)
T ss_pred CCCeEEEEEChHHhhCC---CcEEEEeCHH
Confidence 37899999999999874 3577766543
No 267
>PRK05783 hypothetical protein; Provisional
Probab=23.77 E-value=3.1e+02 Score=20.35 Aligned_cols=54 Identities=6% Similarity=0.143 Sum_probs=32.1
Q ss_pred EEEEeecCCCCccchhhh----hhhhccce-eeeeEeecccCCceEEEEEEECC-hhHHHHHHHHH
Q 018198 46 TISVFVGDESGILSRIDG----VFTRRNCN-IESLGVIGLNKDRALFTMVVFGT-DRELQQVVKQL 105 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a----~l~~RG~~-tl~lr~~~~~~~~~~~~~~~~~~-~~~~~~i~~~L 105 (359)
....++....|+++|.-- -|..+||. +-++|+ .. .+.+.++++ ++.+++.++.+
T Consensus 4 k~~V~V~lK~gVlDPqG~aI~~aL~~lg~~~V~~VRv-----GK-~iel~l~~~~~e~a~~~v~~m 63 (84)
T PRK05783 4 YVELIIINKDSVRDPEGETIQRYVIERYTGNIIEVRA-----GK-YLVFKIEANSPEEAKELALKI 63 (84)
T ss_pred EEEEEEEECCCCcCchHHHHHHHHHHcCCCCcceEEe-----eE-EEEEEEcCCCHHHHHHHHHHH
Confidence 456677788999999632 34445664 668888 33 356666653 33344444333
No 268
>PRK09977 putative Mg(2+) transport ATPase; Provisional
Probab=23.75 E-value=2.3e+02 Score=25.14 Aligned_cols=57 Identities=9% Similarity=0.195 Sum_probs=41.0
Q ss_pred cchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeee
Q 018198 58 LSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 58 lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
+..+..++...++++.++++...+ ++.-.+++.+. .+.+..++.++|++++.|.++.
T Consensus 156 ~~~i~~~l~~~~i~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~L~~~~~V~~v~ 213 (215)
T PRK09977 156 VVSMLDWFKQQKIKTDLVSLQENEDHEVVAIDITLH-ATTSIEDLYRLLKGIAGVKGVS 213 (215)
T ss_pred HHHHHHHHHHcCceEEEEEEEecCCCcEEEEEEEEC-CCCCHHHHHHHHhcCCCceEEE
Confidence 456667888899999999984333 22223444444 4678889999999999998875
No 269
>PF08669 GCV_T_C: Glycine cleavage T-protein C-terminal barrel domain; InterPro: IPR013977 This entry shows glycine cleavage T-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. The T-protein is an aminomethyl transferase. ; PDB: 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 3GIR_A 1WOO_A 1WOS_A 1WOR_A ....
Probab=23.68 E-value=1.6e+02 Score=21.81 Aligned_cols=22 Identities=27% Similarity=0.386 Sum_probs=17.8
Q ss_pred CCccceeecCCCeEEEEEeeec
Q 018198 307 GNSGGPLLDSSGSLIGVNTFIT 328 (359)
Q Consensus 307 G~SGgPl~~~~G~viGi~~~~~ 328 (359)
=..|.|+++.+|+.||.+++..
T Consensus 33 ~~~g~~v~~~~g~~vG~vTS~~ 54 (95)
T PF08669_consen 33 PRGGEPVYDEDGKPVGRVTSGA 54 (95)
T ss_dssp -STTCEEEETTTEEEEEEEEEE
T ss_pred CCCCCEEEECCCcEEeEEEEEe
Confidence 3458999977999999998875
No 270
>PRK02948 cysteine desulfurase; Provisional
Probab=23.52 E-value=63 Score=30.82 Aligned_cols=29 Identities=21% Similarity=0.326 Sum_probs=21.9
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeeccc
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNSE 40 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~ 40 (359)
.++|+|+++-|++|+++.+| + |.+..+.+
T Consensus 187 ~~~~~d~~~~s~~K~~gp~G--~-G~l~~~~~ 215 (381)
T PRK02948 187 FEMGIDSLSVSAHKIYGPKG--V-GAVYINPQ 215 (381)
T ss_pred ccCCCCEEEecHHhcCCCCc--E-EEEEEcCC
Confidence 36799999999999998787 3 45444443
No 271
>PLN02409 serine--glyoxylate aminotransaminase
Probab=23.51 E-value=47 Score=32.22 Aligned_cols=30 Identities=10% Similarity=0.202 Sum_probs=22.0
Q ss_pred cccCCcEEEeeecccccC-Ccceeeeeeeecccc
Q 018198 9 LEFGAGIVMHSASKFIAR-HSDVMACGIAVNSER 41 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~g-h~d~~~g~~~~~~~~ 41 (359)
-++|+|+++.|++|+++| ++ .|.+..+.+.
T Consensus 188 ~~~~~D~~~~s~~K~l~~P~G---~G~l~~~~~~ 218 (401)
T PLN02409 188 DEWGVDVALTGSQKALSLPTG---LGIVCASPKA 218 (401)
T ss_pred cccCccEEEEcCccccCcCCC---cceeEECHHH
Confidence 357999999999999977 54 4555555543
No 272
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=23.42 E-value=57 Score=28.84 Aligned_cols=72 Identities=22% Similarity=0.362 Sum_probs=46.1
Q ss_pred EEEEeecCCCCccchhhhhhhh------ccceeeeeEeecccCCceEEEEEEE------CChhHHHHHHHHHhhhhceee
Q 018198 46 TISVFVGDESGILSRIDGVFTR------RNCNIESLGVIGLNKDRALFTMVVF------GTDRELQQVVKQLQKLVNVLK 113 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~~a~l~~------RG~~tl~lr~~~~~~~~~~~~~~~~------~~~~~~~~i~~~L~k~~~v~~ 113 (359)
.+..+..+.|-.++-....... +|+++-.|-+-+.+.+.||++|++. .++..+.+++|+|+|.---..
T Consensus 61 vLsT~T~d~gkils~lh~i~~~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaid 140 (259)
T KOG2884|consen 61 VLSTLTSDRGKILSKLHGIQPHGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAID 140 (259)
T ss_pred eeeeccccchHHHHHhcCCCcCCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEE
Confidence 5566666666666665554444 4555555666334455567887776 447788999999999665555
Q ss_pred eeec
Q 018198 114 VSTK 117 (359)
Q Consensus 114 v~~~ 117 (359)
+..+
T Consensus 141 ii~F 144 (259)
T KOG2884|consen 141 IINF 144 (259)
T ss_pred EEEe
Confidence 5555
No 273
>PRK14452 acylphosphatase; Provisional
Probab=23.19 E-value=1.3e+02 Score=23.49 Aligned_cols=33 Identities=9% Similarity=-0.031 Sum_probs=28.7
Q ss_pred eEEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 85 ALFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 85 ~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
-++.|.++|+++.++++.+++++-|.-.+|...
T Consensus 58 GsVeI~~qG~~~~ve~F~~~l~~gP~~A~V~~v 90 (107)
T PRK14452 58 GSVEVQAEGPPLALSELRAWCERGPPGARVKRV 90 (107)
T ss_pred CCEEEEEEcCHHHHHHHHHHHhcCCCCcEEEEE
Confidence 368999999999999999999998877777765
No 274
>cd04910 ACT_AK-Ectoine_1 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinase
Probab=23.17 E-value=2.3e+02 Score=20.22 Aligned_cols=48 Identities=13% Similarity=0.152 Sum_probs=38.5
Q ss_pred ccchhhhhhhhccceeeeeEeecccCCceEEEEEEECChhHHHHHHHHHhhhh
Q 018198 57 ILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTDRELQQVVKQLQKLV 109 (359)
Q Consensus 57 ~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~~~~~~i~~~L~k~~ 109 (359)
.-..+-..|.+-+.++.+--+ +..-+|+.+.++.....++.+.|++..
T Consensus 17 ~d~~i~~~l~~~~v~ii~K~~-----nANtit~yl~~~~k~~~r~~~~Le~~~ 64 (71)
T cd04910 17 YDLEILELLQRFKVSIIAKDT-----NANTITHYLAGSLKTIKRLTEDLENRF 64 (71)
T ss_pred HHHHHHHHHHHcCCeEEEEec-----CCCeEEEEEEcCHHHHHHHHHHHHHhC
Confidence 444555566777888777766 888899999999999999999998754
No 275
>PLN02651 cysteine desulfurase
Probab=23.07 E-value=49 Score=31.46 Aligned_cols=23 Identities=13% Similarity=0.213 Sum_probs=17.8
Q ss_pred ccccccCCcEEEeeecccccCCc
Q 018198 6 LRPLEFGAGIVMHSASKFIARHS 28 (359)
Q Consensus 6 ~~p~~~g~d~~~~s~tK~~~gh~ 28 (359)
+++-++|+|+++.|..||.+.++
T Consensus 184 ~~~~~~~~D~~~~s~hK~~gp~G 206 (364)
T PLN02651 184 VDVDDLGVDLMSISGHKIYGPKG 206 (364)
T ss_pred cCcccCCCCEEEechhhhCCCCc
Confidence 34457899999999999865553
No 276
>PF10049 DUF2283: Protein of unknown function (DUF2283); InterPro: IPR019270 Members of this family of hypothetical proteins have no known function.
Probab=22.87 E-value=57 Score=21.45 Aligned_cols=12 Identities=25% Similarity=0.825 Sum_probs=7.9
Q ss_pred cCCCeEEEEEee
Q 018198 315 DSSGSLIGVNTF 326 (359)
Q Consensus 315 ~~~G~viGi~~~ 326 (359)
|.+|++|||-..
T Consensus 36 d~~G~ivGIEIl 47 (50)
T PF10049_consen 36 DEDGRIVGIEIL 47 (50)
T ss_pred CCCCCEEEEEEE
Confidence 457788887543
No 277
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.36 E-value=3e+02 Score=19.60 Aligned_cols=55 Identities=13% Similarity=0.255 Sum_probs=40.8
Q ss_pred cCCCCccchhhhhhhhccceeeeeEeecccCCceEEEEEEECCh-----hHHHHHHHHHhhhhce
Q 018198 52 GDESGILSRIDGVFTRRNCNIESLGVIGLNKDRALFTMVVFGTD-----RELQQVVKQLQKLVNV 111 (359)
Q Consensus 52 ~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~~~~~~~~~~~~~~~-----~~~~~i~~~L~k~~~v 111 (359)
....+.+...-.-|...|++.+.+-- ....+.+++..++ +...+|.+.|++.-+|
T Consensus 12 ~~~~g~~~~IF~~La~~~I~vDmI~~-----s~~~isftv~~~~~~~~~~~~~~l~~el~~~~~v 71 (75)
T cd04935 12 WQQVGFLADVFAPFKKHGVSVDLVST-----SETNVTVSLDPDPNGLDPDVLDALLDDLNQICRV 71 (75)
T ss_pred CCccCHHHHHHHHHHHcCCcEEEEEe-----CCCEEEEEEeCcccccchHHHHHHHHHHHhceEE
Confidence 34467778888889999999999965 3366788888665 3788889999884443
No 278
>TIGR01821 5aminolev_synth 5-aminolevulinic acid synthase. This model represents 5-aminolevulinic acid synthase, an enzyme for one of two routes to the heme precursor 5-aminolevulinate. The protein is a pyridoxal phosphate-dependent enzyme related to 2-amino-3-ketobutyrate CoA tranferase and 8-amino-7-oxononanoate synthase. This enzyme appears restricted to the alpha Proteobacteria and mitochondrial derivatives.
Probab=22.20 E-value=25 Score=34.00 Aligned_cols=55 Identities=11% Similarity=-0.049 Sum_probs=30.8
Q ss_pred CCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEee--cCCCCccchhhhhhhhcccee
Q 018198 12 GAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFV--GDESGILSRIDGVFTRRNCNI 72 (359)
Q Consensus 12 g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~--~~~G~~lsp~~a~l~~RG~~t 72 (359)
..|+++.+++|.+++.+ |.++++.+.+.. +.... ......++|..+.-.+..++.
T Consensus 237 ~~div~~t~sKa~g~~G----G~i~~~~~~~~~--l~~~~~~~~~t~~~~~~~~aaa~aaL~~ 293 (402)
T TIGR01821 237 RIDIIEGTLAKAFGVVG----GYIAASRKLIDA--IRSYAPGFIFTTSLPPAIAAGATASIRH 293 (402)
T ss_pred CCeEEEEechhhhccCC----ceeecCHHHHHH--HHHhCcCceecCcCCHHHHHHHHHHHHH
Confidence 46999999999998644 656555443211 11000 112345677666655555443
No 279
>cd04603 CBS_pair_KefB_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the KefB (Kef-type K+ transport systems) domain which is involved in inorganic ion transport and metabolism. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=22.00 E-value=71 Score=24.04 Aligned_cols=21 Identities=19% Similarity=0.167 Sum_probs=16.3
Q ss_pred CCccceeecCCCeEEEEEeee
Q 018198 307 GNSGGPLLDSSGSLIGVNTFI 327 (359)
Q Consensus 307 G~SGgPl~~~~G~viGi~~~~ 327 (359)
+.+--|++|.+|+++|+.+..
T Consensus 86 ~~~~lpVvd~~~~~~Giit~~ 106 (111)
T cd04603 86 EPPVVAVVDKEGKLVGTIYER 106 (111)
T ss_pred CCCeEEEEcCCCeEEEEEEhH
Confidence 444459999889999998864
No 280
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=21.85 E-value=1.3e+02 Score=21.54 Aligned_cols=24 Identities=25% Similarity=0.462 Sum_probs=21.6
Q ss_pred CChhHHHHHHHHHhhhhceeeeee
Q 018198 93 GTDRELQQVVKQLQKLVNVLKVST 116 (359)
Q Consensus 93 ~~~~~~~~i~~~L~k~~~v~~v~~ 116 (359)
.+++.+++++++|+++.-|.+|.-
T Consensus 37 vn~~~~e~~~~kl~~l~fVk~Ve~ 60 (71)
T PF09902_consen 37 VNEEDVEEIIEKLKKLKFVKKVEP 60 (71)
T ss_pred ECHHHHHHHHHHHhcCCCeeEEec
Confidence 567899999999999999999985
No 281
>cd04620 CBS_pair_7 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=21.74 E-value=70 Score=24.04 Aligned_cols=21 Identities=38% Similarity=0.437 Sum_probs=16.8
Q ss_pred CCccceeecCCCeEEEEEeee
Q 018198 307 GNSGGPLLDSSGSLIGVNTFI 327 (359)
Q Consensus 307 G~SGgPl~~~~G~viGi~~~~ 327 (359)
+...-|++|.+|+++|+.+..
T Consensus 90 ~~~~~pVvd~~~~~~Gvit~~ 110 (115)
T cd04620 90 QIRHLPVLDDQGQLIGLVTAE 110 (115)
T ss_pred CCceEEEEcCCCCEEEEEEhH
Confidence 445679999889999998864
No 282
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=21.65 E-value=1.1e+02 Score=28.56 Aligned_cols=35 Identities=20% Similarity=0.444 Sum_probs=30.0
Q ss_pred eEEEEEEeCCCEEEecccccCCCCeEEEEecCCcE
Q 018198 187 SGAGFLWDQDGHIVTNYHVICGASTVKVSFSDQST 221 (359)
Q Consensus 187 ~GsGfii~~~g~vlT~~Hvv~~~~~~~v~~~~g~~ 221 (359)
.|-+++-+++|.+||+..-++..+.+.+.+.||..
T Consensus 281 RGYaiv~~~~g~vI~s~~~l~~gd~i~i~l~DG~~ 315 (319)
T PF02601_consen 281 RGYAIVRDKDGKVITSVKQLKPGDEIEIRLADGSI 315 (319)
T ss_pred CceEEEECCCCCEECCHHHCCCCCEEEEEEcceEE
Confidence 46677777889999999999999999999999943
No 283
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=21.34 E-value=1.7e+02 Score=20.09 Aligned_cols=23 Identities=9% Similarity=0.215 Sum_probs=20.4
Q ss_pred hHHHHHHHHHhhhhceeeeeecc
Q 018198 96 RELQQVVKQLQKLVNVLKVSTKQ 118 (359)
Q Consensus 96 ~~~~~i~~~L~k~~~v~~v~~~~ 118 (359)
+...+++++|.++|+|..++...
T Consensus 10 ~~~~~~~~~l~~~p~V~~~~~vt 32 (74)
T PF01037_consen 10 DAYDEFAEALAEIPEVVECYSVT 32 (74)
T ss_dssp THHHHHHHHHHTSTTEEEEEEES
T ss_pred chHHHHHHHHHcCCCEEEEEEEe
Confidence 56999999999999999999863
No 284
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=21.32 E-value=3.2e+02 Score=19.57 Aligned_cols=33 Identities=12% Similarity=0.229 Sum_probs=29.2
Q ss_pred CCeEEEEecCCcEEEEEEEEEcCCCCEEEEEEc
Q 018198 209 ASTVKVSFSDQSTFYAQVVGHDQVNDLAVLHID 241 (359)
Q Consensus 209 ~~~~~v~~~~g~~~~~~v~~~d~~~DlAll~v~ 241 (359)
...+.|.+.+|..+.+.+..+|...++.|-.+.
T Consensus 11 g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~ 43 (76)
T cd01723 11 NHPMLVELKNGETYNGHLVNCDNWMNIHLREVI 43 (76)
T ss_pred CCEEEEEECCCCEEEEEEEEEcCCCceEEEeEE
Confidence 357889999999999999999999999987764
No 285
>COG1828 PurS Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]
Probab=21.15 E-value=3.5e+02 Score=20.04 Aligned_cols=65 Identities=14% Similarity=0.274 Sum_probs=43.6
Q ss_pred EEEEeecCCCCccchh----hhhhhhccce-eeeeEeecccCCceEEEEEEEC-Ch----hHHHHHHHHHhhhhceeeee
Q 018198 46 TISVFVGDESGILSRI----DGVFTRRNCN-IESLGVIGLNKDRALFTMVVFG-TD----RELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 46 ~l~~~~~~~G~~lsp~----~a~l~~RG~~-tl~lr~~~~~~~~~~~~~~~~~-~~----~~~~~i~~~L~k~~~v~~v~ 115 (359)
.....+....|+++|. ...|...||+ .-.+|. . -.|.+.+++ ++ +.+.++++.|-..|-+....
T Consensus 3 ~v~V~V~lK~~VlDPqG~ti~~aL~~lg~~~V~~vR~-----g-K~~el~ld~~~~e~a~~~v~~mcekLLaNpVIe~y~ 76 (83)
T COG1828 3 KVRVYVTLKPGVLDPEGETIEKALHRLGYNEVSDVRV-----G-KVIELELDAESEEKAEEEVKEMCEKLLANPVIEDYE 76 (83)
T ss_pred EEEEEEEeCCcccCchhHHHHHHHHHcCCcccceeee-----e-eEEEEEecCcchhHHHHHHHHHHHHHhCCCceeEEE
Confidence 3456777788999985 3456777877 888888 3 246677776 34 45666666666666665554
Q ss_pred e
Q 018198 116 T 116 (359)
Q Consensus 116 ~ 116 (359)
+
T Consensus 77 v 77 (83)
T COG1828 77 V 77 (83)
T ss_pred E
Confidence 4
No 286
>COG2150 Predicted regulator of amino acid metabolism, contains ACT domain [General function prediction only]
Probab=21.07 E-value=1.8e+02 Score=24.48 Aligned_cols=63 Identities=19% Similarity=0.271 Sum_probs=49.5
Q ss_pred ecCCCCccchhhhhhhhccceeeeeEeeccc-CCceEEEEEEECChhHHHHHHHHHhhhhceeeee
Q 018198 51 VGDESGILSRIDGVFTRRNCNIESLGVIGLN-KDRALFTMVVFGTDRELQQVVKQLQKLVNVLKVS 115 (359)
Q Consensus 51 ~~~~G~~lsp~~a~l~~RG~~tl~lr~~~~~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~ 115 (359)
..+..|++.-....++-||+++-.+=..-.+ .+..+++|+++.- .-..+..+|.|...|.++.
T Consensus 102 ~~~~pgi~A~V~~~iak~gi~Irqi~~~dpe~~~e~~l~IVte~~--iP~~li~el~~i~gVk~i~ 165 (167)
T COG2150 102 DARYPGILAGVASLIAKRGISIRQIISEDPELQEEPKLTIVTERP--IPGDLIDELKKIDGVKKIS 165 (167)
T ss_pred cCCCccHHHHHHHHHHHcCceEEEEecCCcccCCCceEEEEEecc--CCHHHHHHHhcccCceeEE
Confidence 3567999999999999999998888774333 5667899998853 3446889999999888775
No 287
>PF01212 Beta_elim_lyase: Beta-eliminating lyase; InterPro: IPR001597 This domain is found in many tryptophanases (tryptophan indole-lyase, TNase), tyrosine phenol-lyases (TPL) and threonine aldolases. It is involved in the degradation of amino acids. The glycine cleavage system is composed of four proteins: P, T, L and H. In Bacillus subtilis, the P 'protein' is an heterodimer of two subunits. The glycine cleavage system catalyses the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO(2) is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein; GO: 0016829 lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3PJ0_C 2C44_C 2V0Y_A 2OQX_A 2V1P_A 1AX4_B 3LWS_A 1C7G_A 1V72_A 2YHK_B ....
Probab=21.06 E-value=8.7 Score=35.71 Aligned_cols=83 Identities=16% Similarity=0.048 Sum_probs=44.4
Q ss_pred ccCCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeecCCCCccc---hhhh---h--hhhccceeeeeEeeccc
Q 018198 10 EFGAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVGDESGILS---RIDG---V--FTRRNCNIESLGVIGLN 81 (359)
Q Consensus 10 ~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~~~G~~ls---p~~a---~--l~~RG~~tl~lr~~~~~ 81 (359)
--++|++.-|+||.++.- ++++++.+++.+.+ . ..+++.+|+.|- ...+ | ..+++++.-.-++
T Consensus 183 ~~~~D~v~~~~tK~~g~~---~Gavl~~~~~~i~~-~-~~~~k~~gg~~~~~G~~~a~~~~~~~~l~~l~~~~~~~---- 253 (290)
T PF01212_consen 183 AAGADSVSFGGTKNGGAP---GGAVLAGNKEFIAK-A-RRQRKRLGGGMRQAGVLAAAELYQFAALRALELWLERA---- 253 (290)
T ss_dssp HTTSSEEEEETTSTT-SS---SEEEEEESHHHHHH-H-HHHHHHHTHHHHHTTHHHHHHHHHHHHHCHEECSHHHH----
T ss_pred hhhCCEEEEEEEcccccc---cceEEEechHHHHH-H-HHHHHHhccCeeecceeeeechhhHHHHHHHHhhHHHH----
Confidence 358999999999988763 23345555554432 2 234556666553 1111 1 2233333332222
Q ss_pred CCceEEEEEEECChhHHHHHHHHHhhhhce
Q 018198 82 KDRALFTMVVFGTDRELQQVVKQLQKLVNV 111 (359)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~L~k~~~v 111 (359)
.+. .+.++++++.|+.+.-+
T Consensus 254 -~~~---------~~~A~~La~~l~~~~~~ 273 (290)
T PF01212_consen 254 -RHA---------NAMAKRLAAGLEALGGV 273 (290)
T ss_dssp -HCH---------HHHHHCHHHCHHEECEE
T ss_pred -HHH---------HHHHHHHHHHHHHCCCc
Confidence 233 56777777777775554
No 288
>PLN02855 Bifunctional selenocysteine lyase/cysteine desulfurase
Probab=20.83 E-value=71 Score=31.09 Aligned_cols=30 Identities=17% Similarity=0.123 Sum_probs=22.3
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeecccc
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNSER 41 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~ 41 (359)
-++|+|+++.|++|+.+.++ .|.+..+.+.
T Consensus 222 ~~~~~d~~~~s~~K~~gp~G---~G~l~~~~~~ 251 (424)
T PLN02855 222 QTLGADFLVASSHKMCGPTG---IGFLWGKSDL 251 (424)
T ss_pred hhcCCCEEEeecccccCCCc---cEEEEEchhh
Confidence 36799999999999887776 3556555543
No 289
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=20.42 E-value=67 Score=30.20 Aligned_cols=33 Identities=18% Similarity=0.227 Sum_probs=24.1
Q ss_pred cccccCCcEEEeeecccccCCcceeeeeeeecccc
Q 018198 7 RPLEFGAGIVMHSASKFIARHSDVMACGIAVNSER 41 (359)
Q Consensus 7 ~p~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~ 41 (359)
++.++|+|+++-|++|++++-.. .|.++.+++.
T Consensus 171 ~~~~~~~d~~~~s~~K~l~~p~g--~G~l~~~~~~ 203 (356)
T cd06451 171 RMDEWGVDVAYTGSQKALGAPPG--LGPIAFSERA 203 (356)
T ss_pred cccccCccEEEecCchhccCCCC--cceeEECHHH
Confidence 44467999999999999997643 3666665543
No 290
>cd04871 ACT_PSP_2 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_2 CD includes the second of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains
Probab=20.40 E-value=81 Score=23.16 Aligned_cols=57 Identities=19% Similarity=0.316 Sum_probs=40.1
Q ss_pred CCCccchhhhhhhhccceeeeeEee-cc------c-CCceEEEEEEECChhHHHHHHHHHhhhhc
Q 018198 54 ESGILSRIDGVFTRRNCNIESLGVI-GL------N-KDRALFTMVVFGTDRELQQVVKQLQKLVN 110 (359)
Q Consensus 54 ~G~~lsp~~a~l~~RG~~tl~lr~~-~~------~-~~~~~~~~~~~~~~~~~~~i~~~L~k~~~ 110 (359)
..+.+++...++..+|+|++.++=- .. . ....-|.+.+.+.+.....+.++|.++-.
T Consensus 10 ~a~~ia~Vs~~lA~~~~NI~~I~~l~~~~~~~~~~~~~~~~~e~~v~~~~~~~~~lr~~L~~la~ 74 (84)
T cd04871 10 TAEQLAAVTRVVADQGLNIDRIRRLSGRVPLEEQDDSPKACVEFSVRGQPADLEALRAALLELAS 74 (84)
T ss_pred CHHHHHHHHHHHHHcCCCHHHHHHhhccccccccCCCCcEEEEEEEeCCCCCHHHHHHHHHHHhc
Confidence 6778899999999999999998762 11 0 11223566666666777888888876543
No 291
>TIGR01979 sufS cysteine desulfurases, SufS subfamily. This model represents a subfamily of NifS-related cysteine desulfurases involved in FeS cluster formation needed for nitrogen fixation among other vital functions. Many cysteine desulfurases are also active as selenocysteine lyase and/or cysteine sulfinate desulfinase. This subfamily is associated with the six-gene SUF system described in E. coli and Erwinia as an FeS cluster formation system during oxidative stress. The active site Cys is this subfamily resembles GHHC with one or both His conserved.
Probab=20.10 E-value=86 Score=30.14 Aligned_cols=29 Identities=10% Similarity=0.055 Sum_probs=21.8
Q ss_pred cccCCcEEEeeecccccCCcceeeeeeeeccc
Q 018198 9 LEFGAGIVMHSASKFIARHSDVMACGIAVNSE 40 (359)
Q Consensus 9 ~~~g~d~~~~s~tK~~~gh~d~~~g~~~~~~~ 40 (359)
.++|+|+++.|++|++++.+ .|.+..+.+
T Consensus 208 ~~~~~d~~~~s~~K~~gp~G---~g~l~~~~~ 236 (403)
T TIGR01979 208 QALDCDFYVFSGHKMYGPTG---IGVLYGKEE 236 (403)
T ss_pred cccCCCEEEEecccccCCCC---ceEEEEchH
Confidence 46799999999999987666 455555543
No 292
>PRK13392 5-aminolevulinate synthase; Provisional
Probab=20.08 E-value=25 Score=34.15 Aligned_cols=54 Identities=9% Similarity=-0.007 Sum_probs=29.8
Q ss_pred CCcEEEeeecccccCCcceeeeeeeeccccceeeEEEEeec--CCCCccchhhhhhhhccce
Q 018198 12 GAGIVMHSASKFIARHSDVMACGIAVNSERVQRHTISVFVG--DESGILSRIDGVFTRRNCN 71 (359)
Q Consensus 12 g~d~~~~s~tK~~~gh~d~~~g~~~~~~~~~~~~~l~~~~~--~~G~~lsp~~a~l~~RG~~ 71 (359)
..|+++.|++|.+++. ||.++++.+.+ + .+..+.. .....++|..++-....++
T Consensus 238 ~~div~~tlsK~~g~~----GG~~~~~~~~~-~-~l~~~~~~~~~s~~~~~~~~~a~~aaL~ 293 (410)
T PRK13392 238 RIDMIQGTLAKAFGCL----GGYIAASADLI-D-FVRSFAPGFIFTTALPPAVAAGATAAIR 293 (410)
T ss_pred CCcEEEEEChHhhhcc----cchhhcCHHHH-H-HHHHhCcchhccCcCCHHHHHHHHHHHH
Confidence 5799999999999864 36666554433 2 1111111 2244456655554444443
No 293
>PRK14424 acylphosphatase; Provisional
Probab=20.00 E-value=1.6e+02 Score=22.22 Aligned_cols=32 Identities=9% Similarity=0.177 Sum_probs=27.2
Q ss_pred EEEEEEECChhHHHHHHHHHhhhhceeeeeec
Q 018198 86 LFTMVVFGTDRELQQVVKQLQKLVNVLKVSTK 117 (359)
Q Consensus 86 ~~~~~~~~~~~~~~~i~~~L~k~~~v~~v~~~ 117 (359)
++.|.++|+++.+++..++|++-|.-..|...
T Consensus 46 ~Vei~~qG~~~~v~~f~~~l~~gp~~a~V~~v 77 (94)
T PRK14424 46 TVEAMIQGPAAQIDRMLAWLRHGPPAARVTEV 77 (94)
T ss_pred CEEEEEEECHHHHHHHHHHHHhCCCCcEEEEE
Confidence 68999999999999999999987766666654
Done!