Query psy14162
Match_columns 90
No_of_seqs 103 out of 266
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 21:02:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14162.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14162hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2869|consensus 99.9 2.8E-23 6.1E-28 164.4 7.7 80 10-90 167-247 (379)
2 PF03464 eRF1_2: eRF1 domain 2 99.7 2.1E-17 4.5E-22 113.5 7.7 72 10-89 32-111 (133)
3 TIGR00111 pelota probable tran 99.4 2.1E-13 4.5E-18 107.1 6.0 63 10-76 166-228 (351)
4 COG1537 PelA Predicted RNA-bin 98.8 1.4E-08 3E-13 81.1 6.1 45 25-72 176-220 (352)
5 PRK04011 peptide chain release 98.8 1.4E-08 3E-13 81.7 5.8 49 20-68 190-243 (411)
6 TIGR03676 aRF1/eRF1 peptide ch 98.7 2.5E-08 5.4E-13 80.2 6.0 48 20-68 182-235 (403)
7 TIGR00108 eRF peptide chain re 98.7 3.7E-08 8.1E-13 79.1 5.9 48 20-68 186-239 (409)
8 COG1503 eRF1 Peptide chain rel 93.5 0.11 2.4E-06 42.7 4.1 46 21-66 190-240 (411)
9 PF03485 Arg_tRNA_synt_N: Argi 84.3 1.5 3.2E-05 27.5 3.2 27 29-55 54-81 (85)
10 COG4972 PilM Tfp pilus assembl 73.2 8.1 0.00018 31.5 4.9 46 21-66 258-310 (354)
11 KOG1205|consensus 68.5 5 0.00011 31.4 2.7 38 19-60 165-202 (282)
12 PRK05082 N-acetylmannosamine k 64.2 20 0.00044 26.6 5.2 50 20-69 210-259 (291)
13 PF06782 UPF0236: Uncharacteri 63.8 11 0.00023 31.1 3.9 31 23-53 236-266 (470)
14 PRK15080 ethanolamine utilizat 63.4 26 0.00056 26.4 5.7 50 18-67 196-245 (267)
15 PF10116 Host_attach: Protein 62.8 15 0.00032 24.9 3.9 38 18-55 65-103 (138)
16 PRK13917 plasmid segregation p 56.0 51 0.0011 25.8 6.3 48 20-69 267-315 (344)
17 PRK09557 fructokinase; Reviewe 51.9 42 0.00091 25.1 5.1 48 21-68 222-269 (301)
18 cd00223 TOPRIM_TopoIIB_SPO TOP 50.3 37 0.00081 23.5 4.3 37 30-66 10-46 (160)
19 PF06406 StbA: StbA protein; 47.5 93 0.002 23.9 6.5 49 19-69 247-296 (318)
20 COG4939 Major membrane immunog 46.8 1.1E+02 0.0023 22.1 6.2 48 26-75 94-144 (147)
21 TIGR01175 pilM type IV pilus a 46.4 54 0.0012 24.9 5.0 45 22-66 254-305 (348)
22 COG0018 ArgS Arginyl-tRNA synt 45.6 74 0.0016 27.3 6.1 27 29-55 57-84 (577)
23 PF11568 Med29: Mediator compl 44.6 36 0.00079 24.5 3.6 22 16-38 50-71 (148)
24 cd00419 Ferrochelatase_C Ferro 44.4 26 0.00055 24.1 2.7 17 43-59 90-106 (135)
25 PLN02286 arginine-tRNA ligase 44.0 24 0.00052 29.8 3.0 27 29-55 59-86 (576)
26 PRK07854 enoyl-CoA hydratase; 43.2 37 0.0008 25.0 3.6 26 27-53 28-53 (243)
27 KOG0477|consensus 43.0 24 0.00053 31.6 2.9 27 43-69 482-508 (854)
28 TIGR03739 PRTRC_D PRTRC system 42.9 1.3E+02 0.0029 22.9 6.7 42 26-69 255-297 (320)
29 COG1911 RPL30 Ribosomal protei 42.3 44 0.00096 22.8 3.5 30 29-62 25-56 (100)
30 COG3172 NadR Predicted ATPase/ 39.5 54 0.0012 24.6 3.9 32 20-55 137-168 (187)
31 PF08671 SinI: Anti-repressor 39.4 30 0.00065 18.6 1.9 13 53-65 16-28 (30)
32 PF07110 EthD: EthD domain; I 39.4 23 0.0005 21.4 1.7 15 52-66 1-15 (95)
33 PRK07066 3-hydroxybutyryl-CoA 38.4 38 0.00082 26.7 3.1 26 44-69 177-204 (321)
34 PRK09698 D-allose kinase; Prov 37.9 1.1E+02 0.0024 22.7 5.5 47 22-68 215-262 (302)
35 PF11104 PilM_2: Type IV pilus 37.8 35 0.00077 26.2 2.9 47 20-66 244-297 (340)
36 smart00490 HELICc helicase sup 37.5 46 0.001 18.7 2.7 30 33-62 45-74 (82)
37 KOG1497|consensus 36.9 34 0.00074 28.3 2.7 22 44-65 229-250 (399)
38 smart00732 YqgFc Likely ribonu 36.4 63 0.0014 19.7 3.4 28 24-55 36-63 (99)
39 PRK07511 enoyl-CoA hydratase; 36.1 60 0.0013 23.9 3.8 28 26-53 30-57 (260)
40 PRK08150 enoyl-CoA hydratase; 35.7 55 0.0012 24.3 3.5 26 26-53 29-54 (255)
41 PF10996 Beta-Casp: Beta-Casp 34.8 30 0.00066 22.3 1.8 32 44-75 80-112 (126)
42 PRK07658 enoyl-CoA hydratase; 34.3 60 0.0013 23.9 3.5 27 27-53 29-55 (257)
43 PRK13310 N-acetyl-D-glucosamin 33.7 1.1E+02 0.0025 22.7 5.0 49 21-69 223-271 (303)
44 PF00762 Ferrochelatase: Ferro 33.5 31 0.00067 27.0 1.9 26 30-59 245-270 (316)
45 PRK05995 enoyl-CoA hydratase; 32.8 69 0.0015 23.7 3.6 27 27-53 32-58 (262)
46 PRK12435 ferrochelatase; Provi 32.7 53 0.0012 25.7 3.1 17 43-59 246-262 (311)
47 PRK07827 enoyl-CoA hydratase; 32.3 73 0.0016 23.6 3.7 28 26-53 33-60 (260)
48 cd03785 GT1_MurG MurG is an N- 32.2 1.4E+02 0.0031 21.8 5.2 40 21-65 193-232 (350)
49 PRK05870 enoyl-CoA hydratase; 32.2 72 0.0016 23.5 3.6 26 28-53 32-57 (249)
50 PRK05980 enoyl-CoA hydratase; 32.0 67 0.0014 23.7 3.4 27 27-53 31-57 (260)
51 PF14213 DUF4325: Domain of un 31.4 70 0.0015 19.4 3.0 40 25-67 4-47 (74)
52 TIGR00315 cdhB CO dehydrogenas 31.4 73 0.0016 22.9 3.4 41 30-75 19-59 (162)
53 TIGR03189 dienoyl_CoA_hyt cycl 31.4 73 0.0016 23.6 3.6 27 27-53 28-54 (251)
54 cd05295 MDH_like Malate dehydr 31.3 1.6E+02 0.0035 24.6 5.9 43 8-51 207-250 (452)
55 PF04055 Radical_SAM: Radical 31.1 1.4E+02 0.003 18.8 4.5 38 27-64 125-164 (166)
56 PF12363 DUF3647: Phage protei 31.0 74 0.0016 21.3 3.2 28 22-63 85-112 (113)
57 PRK06495 enoyl-CoA hydratase; 31.0 73 0.0016 23.6 3.5 28 26-53 30-57 (257)
58 KOG4426|consensus 30.7 26 0.00057 30.2 1.1 46 28-73 131-181 (656)
59 COG0062 Uncharacterized conser 30.2 70 0.0015 23.9 3.3 34 28-61 33-73 (203)
60 PRK09245 enoyl-CoA hydratase; 30.1 84 0.0018 23.3 3.7 28 26-53 31-58 (266)
61 PF03853 YjeF_N: YjeF-related 30.1 1.1E+02 0.0024 21.4 4.1 25 29-53 10-35 (169)
62 PRK06144 enoyl-CoA hydratase; 30.0 81 0.0018 23.5 3.6 27 27-53 36-62 (262)
63 PRK07327 enoyl-CoA hydratase; 29.9 90 0.0019 23.3 3.8 28 26-53 39-66 (268)
64 COG0420 SbcD DNA repair exonuc 29.4 78 0.0017 24.7 3.6 32 19-54 20-51 (390)
65 PRK07659 enoyl-CoA hydratase; 29.3 90 0.0019 23.1 3.7 27 26-53 33-59 (260)
66 PRK06563 enoyl-CoA hydratase; 28.9 88 0.0019 23.1 3.6 27 27-53 27-53 (255)
67 PRK06072 enoyl-CoA hydratase; 28.8 90 0.002 23.0 3.7 12 42-53 43-54 (248)
68 PF00625 Guanylate_kin: Guanyl 28.5 90 0.0019 21.5 3.4 25 44-68 2-27 (183)
69 TIGR00744 ROK_glcA_fam ROK fam 28.4 1.9E+02 0.0041 21.5 5.4 49 21-69 229-278 (318)
70 COG1105 FruK Fructose-1-phosph 28.4 1.3E+02 0.0028 24.0 4.6 47 21-74 113-162 (310)
71 COG0796 MurI Glutamate racemas 28.2 66 0.0014 25.2 2.9 38 31-68 82-135 (269)
72 PRK09674 enoyl-CoA hydratase-i 28.0 92 0.002 23.0 3.6 27 27-53 30-56 (255)
73 COG1024 CaiD Enoyl-CoA hydrata 27.9 94 0.002 22.9 3.6 28 26-53 32-59 (257)
74 PF07515 DUF1528: Protein of u 27.8 70 0.0015 21.3 2.7 19 44-66 14-32 (106)
75 PRK06494 enoyl-CoA hydratase; 27.6 94 0.002 23.0 3.6 12 42-53 47-58 (259)
76 PRK06143 enoyl-CoA hydratase; 27.6 91 0.002 23.1 3.5 27 27-53 35-61 (256)
77 KOG0481|consensus 27.4 59 0.0013 28.7 2.7 27 43-69 364-390 (729)
78 PF02843 GARS_C: Phosphoribosy 27.4 35 0.00076 22.0 1.1 12 46-57 4-15 (93)
79 PRK07112 polyketide biosynthes 27.2 90 0.002 23.1 3.4 26 26-53 31-56 (255)
80 KOG1682|consensus 26.9 70 0.0015 25.1 2.8 26 28-53 61-86 (287)
81 TIGR01929 menB naphthoate synt 26.9 92 0.002 23.1 3.4 28 26-53 30-57 (259)
82 PRK07938 enoyl-CoA hydratase; 26.5 1E+02 0.0023 22.7 3.7 28 26-53 28-55 (249)
83 PRK08138 enoyl-CoA hydratase; 26.5 1E+02 0.0022 22.9 3.6 28 26-53 35-62 (261)
84 PRK06242 flavodoxin; Provision 26.4 65 0.0014 21.3 2.4 27 40-66 40-69 (150)
85 PRK05864 enoyl-CoA hydratase; 26.2 1E+02 0.0023 23.0 3.6 27 27-53 38-64 (276)
86 PRK07799 enoyl-CoA hydratase; 26.1 98 0.0021 22.9 3.5 27 27-53 33-59 (263)
87 PRK06213 enoyl-CoA hydratase; 25.9 1E+02 0.0022 22.4 3.4 26 26-53 29-54 (229)
88 PRK07110 polyketide biosynthes 25.9 1E+02 0.0022 22.8 3.5 27 27-53 33-59 (249)
89 TIGR03210 badI 2-ketocyclohexa 25.8 1.1E+02 0.0023 22.7 3.6 27 27-53 30-56 (256)
90 TIGR00109 hemH ferrochelatase. 25.8 78 0.0017 24.6 3.0 29 29-61 249-277 (322)
91 PLN02664 enoyl-CoA hydratase/d 25.7 1E+02 0.0022 23.1 3.5 27 27-53 36-62 (275)
92 PRK07396 dihydroxynaphthoic ac 25.7 1E+02 0.0022 23.2 3.5 28 26-53 40-67 (273)
93 PRK08293 3-hydroxybutyryl-CoA 25.6 1.1E+02 0.0023 22.9 3.6 26 44-69 178-205 (287)
94 PRK06023 enoyl-CoA hydratase; 25.5 1.2E+02 0.0025 22.4 3.7 27 27-53 34-60 (251)
95 PRK07260 enoyl-CoA hydratase; 25.5 1.2E+02 0.0027 22.3 3.9 28 26-53 29-56 (255)
96 PRK07657 enoyl-CoA hydratase; 25.3 1E+02 0.0022 22.8 3.4 27 27-53 32-58 (260)
97 PRK08252 enoyl-CoA hydratase; 25.3 1.1E+02 0.0024 22.6 3.6 27 27-53 31-57 (254)
98 TIGR01500 sepiapter_red sepiap 25.3 1.4E+02 0.003 21.3 4.0 38 21-63 168-205 (256)
99 PF09290 AcetDehyd-dimer: Prok 25.2 1.2E+02 0.0026 21.7 3.6 35 19-53 36-70 (137)
100 PRK05809 3-hydroxybutyryl-CoA 25.2 1.1E+02 0.0025 22.5 3.6 12 42-53 47-58 (260)
101 PF12724 Flavodoxin_5: Flavodo 25.2 1.2E+02 0.0027 20.2 3.6 35 39-73 39-76 (143)
102 PRK08260 enoyl-CoA hydratase; 25.0 1.1E+02 0.0024 23.2 3.6 27 27-53 32-58 (296)
103 PHA02558 uvsW UvsW helicase; P 24.9 63 0.0014 26.4 2.4 31 33-63 403-433 (501)
104 TIGR00241 CoA_E_activ CoA-subs 24.8 2.3E+02 0.0051 20.7 5.3 48 20-67 179-227 (248)
105 TIGR02529 EutJ ethanolamine ut 24.5 2.2E+02 0.0048 21.0 5.1 49 19-67 170-218 (239)
106 TIGR02280 PaaB1 phenylacetate 24.4 1.2E+02 0.0026 22.4 3.6 27 26-53 26-52 (256)
107 PF00205 TPP_enzyme_M: Thiamin 24.2 23 0.0005 23.4 -0.2 39 29-72 2-40 (137)
108 PRK00440 rfc replication facto 24.2 2E+02 0.0042 21.1 4.7 24 44-67 38-62 (319)
109 PF10100 DUF2338: Uncharacteri 24.1 1.8E+02 0.004 24.4 4.9 26 43-68 110-135 (429)
110 PLN00135 malate dehydrogenase 24.0 2.4E+02 0.0052 22.0 5.4 55 8-67 66-121 (309)
111 PLN03049 pyridoxine (pyridoxam 23.9 93 0.002 25.8 3.2 24 30-53 45-69 (462)
112 PRK05869 enoyl-CoA hydratase; 23.7 1.3E+02 0.0029 21.9 3.7 26 28-53 36-61 (222)
113 PRK01018 50S ribosomal protein 23.6 2E+02 0.0044 18.6 4.3 35 29-69 22-56 (99)
114 KOG2595|consensus 23.5 59 0.0013 27.0 1.9 44 20-64 28-71 (395)
115 COG3613 Nucleoside 2-deoxyribo 23.4 92 0.002 23.0 2.8 20 42-62 2-21 (172)
116 PRK11423 methylmalonyl-CoA dec 23.4 1.3E+02 0.0027 22.5 3.6 26 26-52 31-56 (261)
117 PLN02888 enoyl-CoA hydratase 23.4 1.2E+02 0.0027 22.6 3.6 27 27-53 38-64 (265)
118 PF07637 PSD5: Protein of unkn 23.3 18 0.0004 21.8 -0.8 10 46-55 50-59 (64)
119 PRK08140 enoyl-CoA hydratase; 22.9 1.4E+02 0.003 22.0 3.7 27 26-53 31-57 (262)
120 PF01210 NAD_Gly3P_dh_N: NAD-d 22.9 47 0.001 22.7 1.2 39 26-66 80-121 (157)
121 PRK08258 enoyl-CoA hydratase; 22.9 1.4E+02 0.0029 22.4 3.7 27 27-53 45-71 (277)
122 PRK07714 hypothetical protein; 22.8 2.2E+02 0.0048 18.3 4.4 22 28-53 23-44 (100)
123 PRK05583 ribosomal protein L7A 22.8 2.2E+02 0.0047 18.8 4.3 33 28-66 22-54 (104)
124 PRK08272 enoyl-CoA hydratase; 22.7 1.3E+02 0.0028 22.9 3.6 26 28-53 39-64 (302)
125 PRK06688 enoyl-CoA hydratase; 22.7 1.4E+02 0.003 21.9 3.7 27 27-53 33-59 (259)
126 PF00493 MCM: MCM2/3/5 family 22.6 26 0.00057 27.3 -0.2 27 43-69 57-83 (331)
127 PRK08139 enoyl-CoA hydratase; 22.6 1.3E+02 0.0029 22.4 3.6 26 28-53 40-65 (266)
128 PRK05674 gamma-carboxygeranoyl 22.6 1.4E+02 0.003 22.3 3.7 27 27-53 34-60 (265)
129 PF00271 Helicase_C: Helicase 22.5 1.3E+02 0.0028 17.4 2.9 28 34-61 42-69 (78)
130 smart00072 GuKc Guanylate kina 22.5 1.1E+02 0.0023 21.3 2.9 25 44-68 2-27 (184)
131 PLN03050 pyridoxine (pyridoxam 22.5 1.1E+02 0.0024 23.1 3.2 10 44-53 61-70 (246)
132 PRK11104 hemG protoporphyrinog 22.3 89 0.0019 22.1 2.5 26 42-67 45-73 (177)
133 PLN03214 probable enoyl-CoA hy 22.2 1.3E+02 0.0028 22.7 3.5 28 26-53 38-65 (278)
134 PRK07509 enoyl-CoA hydratase; 22.1 1.4E+02 0.003 22.0 3.6 27 27-53 31-57 (262)
135 PF01248 Ribosomal_L7Ae: Ribos 21.7 1.4E+02 0.003 18.5 3.1 22 28-53 20-41 (95)
136 PRK05862 enoyl-CoA hydratase; 21.7 1.4E+02 0.0031 22.0 3.6 27 27-53 32-58 (257)
137 PRK08321 naphthoate synthase; 21.7 1.4E+02 0.003 22.9 3.6 27 27-53 53-79 (302)
138 COG1084 Predicted GTPase [Gene 21.6 1.3E+02 0.0027 24.7 3.5 44 26-69 149-194 (346)
139 COG1856 Uncharacterized homolo 21.5 1.9E+02 0.0041 22.9 4.3 43 21-69 70-112 (275)
140 PRK09260 3-hydroxybutyryl-CoA 21.4 1.4E+02 0.003 22.2 3.5 25 45-69 176-201 (288)
141 PRK08259 enoyl-CoA hydratase; 21.2 1.5E+02 0.0033 21.9 3.7 27 27-53 31-57 (254)
142 PRK01611 argS arginyl-tRNA syn 20.9 95 0.0021 25.6 2.7 22 29-55 58-79 (507)
143 cd00138 PLDc Phospholipase D. 20.9 2.1E+02 0.0045 19.1 4.0 9 47-55 37-45 (176)
144 PF07224 Chlorophyllase: Chlor 20.9 1.1E+02 0.0023 24.7 2.9 20 25-50 59-78 (307)
145 PRK10753 transcriptional regul 20.8 2.2E+02 0.0048 18.0 3.9 31 17-53 18-48 (90)
146 COG1241 MCM2 Predicted ATPase 20.7 92 0.002 27.5 2.7 27 43-69 319-345 (682)
147 PRK03580 carnitinyl-CoA dehydr 20.5 1.4E+02 0.0031 22.1 3.4 27 27-53 30-56 (261)
148 TIGR00197 yjeF_nterm yjeF N-te 20.5 2E+02 0.0043 20.8 4.1 29 24-53 27-55 (205)
149 PRK06210 enoyl-CoA hydratase; 20.3 1.7E+02 0.0036 21.7 3.7 12 42-53 49-60 (272)
150 PRK07468 enoyl-CoA hydratase; 20.3 1.6E+02 0.0036 21.7 3.7 27 27-53 33-59 (262)
151 PF08369 PCP_red: Proto-chloro 20.1 61 0.0013 18.5 1.1 24 52-75 13-36 (45)
152 PRK09120 p-hydroxycinnamoyl Co 20.1 1.5E+02 0.0033 22.2 3.5 12 42-53 51-62 (275)
153 PF13091 PLDc_2: PLD-like doma 20.1 1.3E+02 0.0028 18.8 2.7 21 45-65 10-30 (126)
154 PF01831 Peptidase_C16: Peptid 20.1 64 0.0014 24.9 1.4 25 32-60 75-99 (249)
No 1
>KOG2869|consensus
Probab=99.89 E-value=2.8e-23 Score=164.39 Aligned_cols=80 Identities=49% Similarity=0.747 Sum_probs=75.1
Q ss_pred Cccccc-chhHHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcccCCCCcchhccCceEEeee
Q psy14162 10 KLMWEG-DVKQHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTSQQAKSPSVQLISKFQYCFF 88 (90)
Q Consensus 10 ~~~r~~-~~s~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r~~~k~l~~~~kskfv~~~~ 88 (90)
=|||++ ..++||+++++||++|+++|.+|+||+.|+|+|||||||++++|++||+++|.+.++|.++ .|++||+.+|+
T Consensus 167 iPrKr~~~~s~~e~~l~kfye~V~qA~~k~v~fd~vk~~vvASpgF~~~~~~d~~~q~A~~~~~k~il-~nk~kf~~~h~ 245 (379)
T KOG2869|consen 167 IPRKRKGDVSQHEEGLEKFYENVVQAILKHVNFDVVKCVVVASPGFVKDQFMDYLFQQAVKLDLKLIL-ENKSKFPLVHA 245 (379)
T ss_pred cccccCcchhHHHHHHHHHHHHHHHHHHHhcCcceEEEEEEcCCchhHHHHHHHHHHHHHHhchhhhh-hcccceeEEec
Confidence 466654 6889999999999999999999999999999999999999999999999999999999997 99999999998
Q ss_pred cC
Q psy14162 89 HS 90 (90)
Q Consensus 89 ~~ 90 (90)
.|
T Consensus 246 ss 247 (379)
T KOG2869|consen 246 SS 247 (379)
T ss_pred CC
Confidence 64
No 2
>PF03464 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination ; PDB: 3AGK_A 2VGN_A 2VGM_A 3J16_A 3IZQ 3IR9_A 3OBW_A 3MCA_B 2QI2_A 3E1Y_D ....
Probab=99.72 E-value=2.1e-17 Score=113.54 Aligned_cols=72 Identities=31% Similarity=0.532 Sum_probs=60.2
Q ss_pred Ccccc--cchhHH----HHHHHHHHHHHHHHHHhc--cccCcccEEEEeCCCccHHHHHHHHHHHhcccCCCCcchhccC
Q psy14162 10 KLMWE--GDVKQH----EKALVRFYDNVMQGILRH--VNFDIVKCVLLASPGFVKDKFFEYMFQVFTSQQAKSPSVQLIS 81 (90)
Q Consensus 10 ~~~r~--~~~s~~----dKal~kFf~~v~~al~r~--vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r~~~k~l~~~~ks 81 (90)
-|+|+ |+++++ ++++++||++|++++.++ ++++.+++||||||||+|++|++|+.+++++.+ +.
T Consensus 32 ip~K~~~Gg~s~~rf~r~~~~~~f~~~i~~~l~~~f~~~~~~~~~iIiaGPGf~k~~f~~~l~~~~~~~~--------~~ 103 (133)
T PF03464_consen 32 IPGKHKKGGQSQRRFEREKALEKFFKEIAEALKKYFLVNFDDVKCIIIAGPGFTKEEFYKYLKAEARRKD--------KK 103 (133)
T ss_dssp HCCCSSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHCCCHTTTCSEEEEEESTTHHHHHHHHHHHHHHHHT--------CC
T ss_pred CCCccCCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECCHHHHHHHHHHHHHhhHhhc--------CC
Confidence 35564 345565 999999999999999999 899999999999999999999999999999877 24
Q ss_pred ceEEeeec
Q psy14162 82 KFQYCFFH 89 (90)
Q Consensus 82 kfv~~~~~ 89 (90)
+++++|+.
T Consensus 104 ~i~~~~~s 111 (133)
T PF03464_consen 104 KIVVVDTS 111 (133)
T ss_dssp EEEEEE-S
T ss_pred EEEEEECC
Confidence 56666653
No 3
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=99.43 E-value=2.1e-13 Score=107.13 Aligned_cols=63 Identities=22% Similarity=0.513 Sum_probs=53.8
Q ss_pred CcccccchhHHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcccCCCCcc
Q psy14162 10 KLMWEGDVKQHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTSQQAKSPS 76 (90)
Q Consensus 10 ~~~r~~~~s~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r~~~k~l~ 76 (90)
-|+|+.+ +.+++++++||++|+++| .+|++++|||||||||+|++|++||.+++++..++.+.
T Consensus 166 iP~K~~~-~~~e~~~~~Ff~~v~~~l---~~~~~v~~iIiaGPGf~k~~f~~~l~~~~~~~~~k~ii 228 (351)
T TIGR00111 166 MPGKKRT-LKFGELRKEFYKEIAKKL---LNFDDLKTIIVAGPGFYKNDFYDFIFERYPEEANKAVL 228 (351)
T ss_pred CCCCccc-chhHHHHHHHHHHHHHHH---hhhcccCEEEEECCHHHHHHHHHHHHHHhhhhhCCcEE
Confidence 4555543 679999999999999998 46789999999999999999999999999887776653
No 4
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=98.77 E-value=1.4e-08 Score=81.12 Aligned_cols=45 Identities=18% Similarity=0.600 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcccCC
Q psy14162 25 VRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTSQQA 72 (90)
Q Consensus 25 ~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r~~~ 72 (90)
.+||..|+++|.+.. ++..||||||||+|++|++|+.+.++...+
T Consensus 176 ~k~~~~i~~~~~~~~---~~~~iIvaGPGF~k~~~~~~~~~~~p~~~~ 220 (352)
T COG1537 176 RKFFDEIAKALKEYA---NLDIIIVAGPGFAKEDFYDFLRERYPELAN 220 (352)
T ss_pred HHHHHHHHHHHHHhh---CCCeEEEeCCchHHHHHHHHHHHhcccccc
Confidence 899999999999986 688999999999999999999999986554
No 5
>PRK04011 peptide chain release factor 1; Provisional
Probab=98.76 E-value=1.4e-08 Score=81.66 Aligned_cols=49 Identities=27% Similarity=0.399 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHhccc---cCcccEEEEeCCCccHHHHHH--HHHHHhc
Q psy14162 20 HEKALVRFYDNVMQGILRHVN---FDIVKCVLLASPGFVKDKFFE--YMFQVFT 68 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~vd---F~~vk~VIIAsPGF~Kd~F~k--yl~~~a~ 68 (90)
++++..+||+.|++++.+++. +..+++||||||||+|++|.+ ||..+..
T Consensus 190 ~e~~~~~f~k~Vae~~~~~f~~~~~~~v~~IvlaGpg~~K~~f~~~~~L~~~l~ 243 (411)
T PRK04011 190 IEQAAHEFYKRVGEKANEAFLPLLEGKLKGILIGGPGPTKEEFLEGDYLHYELK 243 (411)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECChhHHHHHhhhhhhhHHHH
Confidence 589999999999999977743 688999999999999999999 9988754
No 6
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=98.72 E-value=2.5e-08 Score=80.15 Aligned_cols=48 Identities=27% Similarity=0.411 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHhc----cccCcccEEEEeCCCccHHHHHH--HHHHHhc
Q psy14162 20 HEKALVRFYDNVMQGILRH----VNFDIVKCVLLASPGFVKDKFFE--YMFQVFT 68 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~----vdF~~vk~VIIAsPGF~Kd~F~k--yl~~~a~ 68 (90)
++++..+||+.|++++.+. .++ ++++||||||||+|++|++ ||..+..
T Consensus 182 ~e~~~~~f~~~Vae~~~~~f~~~~~~-~v~~lILaGpg~~K~~f~~~~~L~~~l~ 235 (403)
T TIGR03676 182 IEIAAHEFYKRVGEAANEAFLPLKDK-KLKGILIGGPGPTKEEFAEGDYLHHELK 235 (403)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccc-cccEEEEeCCHHHHHHHhhhhhhhHHHH
Confidence 7899999999999996554 455 6999999999999999999 9987543
No 7
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=98.67 E-value=3.7e-08 Score=79.14 Aligned_cols=48 Identities=25% Similarity=0.415 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHHHHhcc----ccCcccEEEEeCCCccHHHHHH--HHHHHhc
Q psy14162 20 HEKALVRFYDNVMQGILRHV----NFDIVKCVLLASPGFVKDKFFE--YMFQVFT 68 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~v----dF~~vk~VIIAsPGF~Kd~F~k--yl~~~a~ 68 (90)
++.+..+||+.|++.+.+++ ++ .+++||||||||+|++|.+ ||..+..
T Consensus 186 ~e~~~~~f~~~Vae~~~~~f~~~~~~-~v~~IIlaGpg~~K~~f~~~~~l~~~l~ 239 (409)
T TIGR00108 186 RELAAHEFLKKVGEVANEAFLPNDDV-KLKGIILGGPGHTKEEFAEGEYLHHELK 239 (409)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcccc-cceEEEEeccHHHHHHhhhhhhHHHHhh
Confidence 58899999999999887773 44 7999999999999999998 8866554
No 8
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=93.45 E-value=0.11 Score=42.74 Aligned_cols=46 Identities=28% Similarity=0.452 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHhcccc---CcccEEEEeCCCccHHHHHH--HHHHH
Q psy14162 21 EKALVRFYDNVMQGILRHVNF---DIVKCVLLASPGFVKDKFFE--YMFQV 66 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF---~~vk~VIIAsPGF~Kd~F~k--yl~~~ 66 (90)
+-+-..||..|.+....++.- .+++.|||+|||-+|++|++ ||-..
T Consensus 190 ee~~h~f~k~vge~A~e~f~~~~~~~~kgIilgGp~~tk~ef~e~~yL~~~ 240 (411)
T COG1503 190 EEAAHEFYKKVGEAASEAFLPIAKKELKGIILGGPGPTKEEFVEGDYLHHE 240 (411)
T ss_pred HHHHHHHHHHHHHHHHHHhcchhhhhhcceEeeCCcccchhhhcccccchH
Confidence 344459999999998887641 14788999999999999998 66443
No 9
>PF03485 Arg_tRNA_synt_N: Arginyl tRNA synthetase N terminal domain; InterPro: IPR005148 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found at the N terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [].; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1F7V_A 1F7U_A 1BS2_A 2ZUE_A 2ZUF_A 1IQ0_A 3GDZ_B.
Probab=84.34 E-value=1.5 Score=27.49 Aligned_cols=27 Identities=22% Similarity=0.445 Sum_probs=18.2
Q ss_pred HHHHHHHHhccccCc-ccEEEEeCCCcc
Q psy14162 29 DNVMQGILRHVNFDI-VKCVLLASPGFV 55 (90)
Q Consensus 29 ~~v~~al~r~vdF~~-vk~VIIAsPGF~ 55 (90)
.+|++.|..++.-+. ++.|=++||||+
T Consensus 54 ~~iA~~i~~~l~~~~~i~~vev~gpGFi 81 (85)
T PF03485_consen 54 REIAEEIAEKLEKSPIIEKVEVAGPGFI 81 (85)
T ss_dssp HHHHHHHHHCHCTTTTEEEEEEETTTEE
T ss_pred HHHHHHHHHhcCCCCCEEEEEEcCCcEE
Confidence 345555555544333 889999999996
No 10
>COG4972 PilM Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=73.23 E-value=8.1 Score=31.51 Aligned_cols=46 Identities=24% Similarity=0.271 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHhcccc-------CcccEEEEeCCCccHHHHHHHHHHH
Q psy14162 21 EKALVRFYDNVMQGILRHVNF-------DIVKCVLLASPGFVKDKFFEYMFQV 66 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF-------~~vk~VIIAsPGF~Kd~F~kyl~~~ 66 (90)
...+..|-+++.+.|.|.++| .++++|+|||||=.=+++.+++-+.
T Consensus 258 ~~vl~~f~~~l~~ei~Rslqfy~~~s~~~~id~i~LaGggA~l~gL~~~i~qr 310 (354)
T COG4972 258 SEVLRPFLGELTQEIRRSLQFYLSQSEMVDIDQILLAGGGASLEGLAAAIQQR 310 (354)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccceeeEEEEecCCcchhhHHHHHHHH
Confidence 345679999999999988765 5699999999999988888887554
No 11
>KOG1205|consensus
Probab=68.47 E-value=5 Score=31.43 Aligned_cols=38 Identities=24% Similarity=0.452 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHH
Q psy14162 19 QHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFF 60 (90)
Q Consensus 19 ~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~ 60 (90)
+.--|++.||+.+-..+..+. +...|+.+||++..+|.
T Consensus 165 ASK~Al~~f~etLR~El~~~~----~~i~i~V~PG~V~Te~~ 202 (282)
T KOG1205|consen 165 ASKHALEGFFETLRQELIPLG----TIIIILVSPGPIETEFT 202 (282)
T ss_pred hHHHHHHHHHHHHHHHhhccC----ceEEEEEecCceeeccc
Confidence 334499999999988888752 43444799999999853
No 12
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=64.19 E-value=20 Score=26.57 Aligned_cols=50 Identities=12% Similarity=0.119 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 20 HEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
....++++-+.+..+|...+..-+...|||.|+....+.|++.+.+...+
T Consensus 210 a~~~~~~~~~~la~~l~~l~~~~dpe~IvlgG~~~~~~~~~~~i~~~l~~ 259 (291)
T PRK05082 210 AQALINRSAQAIARLIADLKATLDCQCVVLGGSVGLAEGYLELVQAYLAQ 259 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCEEEEcCccccHHHHHHHHHHHHHh
Confidence 34567778888878777776667788999999987777788777665544
No 13
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=63.79 E-value=11 Score=31.15 Aligned_cols=31 Identities=19% Similarity=0.476 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 23 ALVRFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 23 al~kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+-+.|++++.+.|.++.|.+.++.|+++|-|
T Consensus 236 ~~~~~~~~v~~~i~~~Y~~~~~~~iiingDG 266 (470)
T PF06782_consen 236 SAEEFWEEVLDYIYNHYDLDKTTKIIINGDG 266 (470)
T ss_pred chHHHHHHHHHHHHHhcCcccceEEEEeCCC
Confidence 4578999999999999999999999999999
No 14
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=63.45 E-value=26 Score=26.36 Aligned_cols=50 Identities=14% Similarity=0.054 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHh
Q psy14162 18 KQHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVF 67 (90)
Q Consensus 18 s~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a 67 (90)
......++.+++++++.+.+.++...+..|+|+|-|--=..+.+++.+..
T Consensus 196 ~~~~~ii~~~~~~i~~~i~~~l~~~~~~~IvLtGG~s~lpgl~e~l~~~l 245 (267)
T PRK15080 196 KEIFPVVKPVVEKMASIVARHIEGQDVEDIYLVGGTCCLPGFEEVFEKQT 245 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCEEEEECCcccchhHHHHHHHHh
Confidence 34567788999999999999988888999999998865556666665543
No 15
>PF10116 Host_attach: Protein required for attachment to host cells; InterPro: IPR019291 Members of this family of bacterial proteins are required for the attachment of the bacterium to host cells [, ].
Probab=62.83 E-value=15 Score=24.88 Aligned_cols=38 Identities=24% Similarity=0.337 Sum_probs=27.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhccccCcc-cEEEEeCCCcc
Q psy14162 18 KQHEKALVRFYDNVMQGILRHVNFDIV-KCVLLASPGFV 55 (90)
Q Consensus 18 s~~dKal~kFf~~v~~al~r~vdF~~v-k~VIIAsPGF~ 55 (90)
+-++..-++|..+|++.|.+.+.=... +.||+|.|-|.
T Consensus 65 ~~~~~~~~~Fa~~vA~~L~~~~~~~~~~~LvlvA~p~~L 103 (138)
T PF10116_consen 65 DPKEEEEERFAREVADRLEKARRAGKFDRLVLVAPPRFL 103 (138)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEECHHHH
Confidence 347888889999999999877653333 35666666543
No 16
>PRK13917 plasmid segregation protein ParM; Provisional
Probab=56.04 E-value=51 Score=25.77 Aligned_cols=48 Identities=23% Similarity=0.358 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHhcc-ccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 20 HEKALVRFYDNVMQGILRHV-NFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~v-dF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
...+.++..+.+.+.+.+.+ |+.++..|+|+|=| ..-+.++|.+..++
T Consensus 267 ~~~~~~~~~~~i~~~i~~~~~~~~~~d~IiL~GGG--A~ll~~~lk~~f~~ 315 (344)
T PRK13917 267 FYKEQDSVIDEVMSGFEIAVGNINSFDRVIVTGGG--ANIFFDSLSHWYSD 315 (344)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCCEEEEECCc--HHHHHHHHHHHcCC
Confidence 45688888888888886554 55678889999988 66688888887665
No 17
>PRK09557 fructokinase; Reviewed
Probab=51.87 E-value=42 Score=25.06 Aligned_cols=48 Identities=15% Similarity=0.216 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhc
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFT 68 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~ 68 (90)
.+.++++-+.+..+|...+.+-+...|||.|+..-.+.|++.+.+...
T Consensus 222 ~~~l~~~~~~La~~l~~l~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~ 269 (301)
T PRK09557 222 ELAFRRYEDRLAKSLAHVINILDPDVIVLGGGMSNVDRLYPTLPALLK 269 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCEEEEcCcccchHHHHHHHHHHHH
Confidence 456778888888888877777789999999987666667666554443
No 18
>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart
Probab=50.30 E-value=37 Score=23.52 Aligned_cols=37 Identities=14% Similarity=0.359 Sum_probs=25.2
Q ss_pred HHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHH
Q psy14162 30 NVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQV 66 (90)
Q Consensus 30 ~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~ 66 (90)
.|++.|.+.--.....||||.|.||-.-.-+.+|..-
T Consensus 10 avf~~L~~~~~~~~~~~ilit~kG~P~~~tr~~l~~L 46 (160)
T cd00223 10 AVFQRLIEEGFHERNNCILITGKGYPDRATRRFLRRL 46 (160)
T ss_pred HHHHHHHHcCccccCCEEEEEcCCcCCHHHHHHHHHH
Confidence 4555666643333567999999999977777776543
No 19
>PF06406 StbA: StbA protein; InterPro: IPR009440 This entry represents bacterial plasmid segregation proteins ParM and StbA []. They are involved in the control of plasmid partition and required for the accurate segregation of the plasmid. ; PDB: 3IKY_C 3IKU_I 2ZGZ_B 1MWM_A 1MWK_A 2ZHC_A 2ZGY_A 2QU4_A.
Probab=47.53 E-value=93 Score=23.90 Aligned_cols=49 Identities=12% Similarity=0.278 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHhcc-ccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 19 QHEKALVRFYDNVMQGILRHV-NFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 19 ~~dKal~kFf~~v~~al~r~v-dF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
.....++...+++.+.+.+.+ +|.+...|+++|=| +.-+.++|.+..+.
T Consensus 247 ~v~~~i~~~~~~l~~~i~~~~~~~~~~~~I~~vGGG--A~ll~~~Ik~~~~~ 296 (318)
T PF06406_consen 247 DVSEVIEEAVEELINRILRELGDFSDIDRIFFVGGG--AILLKDAIKEAFPV 296 (318)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTS-S-SEEEEESTT--HHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccCCeEEEECCc--HHHHHHHHHHhhCC
Confidence 345566677777777776653 57778889999999 88999999888763
No 20
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=46.77 E-value=1.1e+02 Score=22.15 Aligned_cols=48 Identities=10% Similarity=0.146 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHH---HHHHhcccCCCCc
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEY---MFQVFTSQQAKSP 75 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~ky---l~~~a~r~~~k~l 75 (90)
+.|.+..++|++--|-+.|.+| .|.--.-+.|.+| +.+.|.+.+...|
T Consensus 94 ~~f~~laD~Lve~q~p~~VdvV--sGATvSs~~F~~~~~~llq~A~kadtttI 144 (147)
T COG4939 94 QGFSTLADKLVEVQDPNEVDVV--SGATVSSKEFKEAVWNLLQKAKKADTTTI 144 (147)
T ss_pred HHHHHHHHHHHhcCCccceeee--eccccchHHHHHHHHHHHHHHHhcCceee
Confidence 8999999999998887777654 4555668899998 4666666655544
No 21
>TIGR01175 pilM type IV pilus assembly protein PilM. This protein is required for the assembly of the type IV fimbria in Pseudomonas aeruginosa responsible for twitching motility, and for a similar pilus-like structure in Synechocystis. It is also found in species such as Deinococcus described as having natural transformation (for which a type IV pilus-like structure is proposed) but not fimbria.
Probab=46.35 E-value=54 Score=24.85 Aligned_cols=45 Identities=22% Similarity=0.307 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHhccccC-------cccEEEEeCCCccHHHHHHHHHHH
Q psy14162 22 KALVRFYDNVMQGILRHVNFD-------IVKCVLLASPGFVKDKFFEYMFQV 66 (90)
Q Consensus 22 Kal~kFf~~v~~al~r~vdF~-------~vk~VIIAsPGF~Kd~F~kyl~~~ 66 (90)
..+..++++++..|.+.++|= .+..|+|+|.|---..+.+++.++
T Consensus 254 ~~~~~~~~~l~~eI~~~l~~~~~~~~~~~i~~I~LtGgga~~~gl~~~l~~~ 305 (348)
T TIGR01175 254 EVLRRFKGELVDEIRRSLQFFTAQSGTNSLDGLVLAGGGATLSGLDAAIYQR 305 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCcccceEEEECccccchhHHHHHHHH
Confidence 455677777777777776543 488899999887777888887554
No 22
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=45.64 E-value=74 Score=27.30 Aligned_cols=27 Identities=30% Similarity=0.620 Sum_probs=19.1
Q ss_pred HHHHHHHHhccccC-cccEEEEeCCCcc
Q psy14162 29 DNVMQGILRHVNFD-IVKCVLLASPGFV 55 (90)
Q Consensus 29 ~~v~~al~r~vdF~-~vk~VIIAsPGF~ 55 (90)
.+|++.|...++-+ .+..|-+|||||+
T Consensus 57 ~eiA~~i~~~l~~~~~~~~veiaGpgfI 84 (577)
T COG0018 57 REIAEEIAEKLDTDEIIEKVEIAGPGFI 84 (577)
T ss_pred HHHHHHHHHhccccCcEeEEEEcCCCEE
Confidence 45666666665544 4788999999975
No 23
>PF11568 Med29: Mediator complex subunit 29; InterPro: IPR021018 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med29, along with Med11 and Med28, in mammals, is part of the core head-region of the complex. Med29 is the apparent orthologue of the Drosophila melanogaster Intersex protein, which interacts directly with, and functions as a transcriptional coactivator for, the DNA-binding transcription factor Doublesex, so it is likely that mammalian Med29 serves as a target for one or more DNA-binding transcriptional activators []. ; GO: 0016592 mediator complex
Probab=44.60 E-value=36 Score=24.51 Aligned_cols=22 Identities=32% Similarity=0.516 Sum_probs=15.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHhc
Q psy14162 16 DVKQHEKALVRFYDNVMQGILRH 38 (90)
Q Consensus 16 ~~s~~dKal~kFf~~v~~al~r~ 38 (90)
....+||.||.||. |.|.|..+
T Consensus 50 ~~~RFdK~lEeFys-iCDQIEl~ 71 (148)
T PF11568_consen 50 PVPRFDKNLEEFYS-ICDQIELH 71 (148)
T ss_pred cHHHHHHHHHHHHH-HHHHHHHH
Confidence 34569999999994 45555433
No 24
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=44.40 E-value=26 Score=24.07 Aligned_cols=17 Identities=41% Similarity=0.581 Sum_probs=14.7
Q ss_pred cccEEEEeCCCccHHHH
Q psy14162 43 IVKCVLLASPGFVKDKF 59 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F 59 (90)
.++.|+|+.|||+.|..
T Consensus 90 G~~~i~v~p~gF~~D~~ 106 (135)
T cd00419 90 GVKNVVVVPIGFVSDHL 106 (135)
T ss_pred CCCeEEEECCccccccH
Confidence 47889999999998876
No 25
>PLN02286 arginine-tRNA ligase
Probab=44.02 E-value=24 Score=29.82 Aligned_cols=27 Identities=30% Similarity=0.530 Sum_probs=19.8
Q ss_pred HHHHHHHHhccccCc-ccEEEEeCCCcc
Q psy14162 29 DNVMQGILRHVNFDI-VKCVLLASPGFV 55 (90)
Q Consensus 29 ~~v~~al~r~vdF~~-vk~VIIAsPGF~ 55 (90)
.+|++.|..++.-+. +..|-+|||||+
T Consensus 59 ~~iA~~i~~~l~~~~~i~~v~vagpGfi 86 (576)
T PLN02286 59 RAVAQAIVKNLPASEMIESTSVAGPGFV 86 (576)
T ss_pred HHHHHHHHHhCccccceeeEEEcCCCeE
Confidence 567777777764333 678899999965
No 26
>PRK07854 enoyl-CoA hydratase; Provisional
Probab=43.20 E-value=37 Score=25.05 Aligned_cols=26 Identities=12% Similarity=0.466 Sum_probs=17.3
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+ +++++|||.|.|
T Consensus 28 ~~~~l~~al~~~~~-~~vr~vvl~g~g 53 (243)
T PRK07854 28 LCEELREAVRKAVD-ESARAIVLTGQG 53 (243)
T ss_pred HHHHHHHHHHHHhc-CCceEEEEECCC
Confidence 44555555554333 579999999988
No 27
>KOG0477|consensus
Probab=42.97 E-value=24 Score=31.59 Aligned_cols=27 Identities=26% Similarity=0.497 Sum_probs=24.2
Q ss_pred cccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 43 IVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
++..+++.-||-.|.+|++|+...++|
T Consensus 482 DinvLL~GDPGTaKSQFLKY~eK~s~R 508 (854)
T KOG0477|consen 482 DINVLLLGDPGTAKSQFLKYAEKTSPR 508 (854)
T ss_pred ceeEEEecCCCccHHHHHHHHHhcCcc
Confidence 467789999999999999999988887
No 28
>TIGR03739 PRTRC_D PRTRC system protein D. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein D. The gray zone, between trusted and noise, includes proteins found in the same genomes as other proteins of the PRTRC systems, but not in the same contiguous gene region.
Probab=42.88 E-value=1.3e+02 Score=22.93 Aligned_cols=42 Identities=10% Similarity=0.181 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhcc-ccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 26 RFYDNVMQGILRHV-NFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 26 kFf~~v~~al~r~v-dF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
+..+++++.|.+.+ +..++..|+++|=| +.-+.+|+.+..++
T Consensus 255 ~~~~~~v~~i~~~~~~~~~~~~Iil~GGG--a~ll~~~l~~~f~~ 297 (320)
T TIGR03739 255 TVAQQAVSTMMTWIGAPESIQNIVLVGGG--AFLFKKAVKAAFPK 297 (320)
T ss_pred HHHHHHHHHHHHhcccCCcccEEEEeCCc--HHHHHHHHHHHCCC
Confidence 33344444444433 23458899999999 88888999887776
No 29
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=42.26 E-value=44 Score=22.79 Aligned_cols=30 Identities=20% Similarity=0.332 Sum_probs=21.7
Q ss_pred HHHHHHHHhccccCcccEEEEeC--CCccHHHHHHH
Q psy14162 29 DNVMQGILRHVNFDIVKCVLLAS--PGFVKDKFFEY 62 (90)
Q Consensus 29 ~~v~~al~r~vdF~~vk~VIIAs--PGF~Kd~F~ky 62 (90)
+..+.++.. ...|+||||| |.-.|++..=|
T Consensus 25 k~tiK~lk~----gkaKliiiAsN~P~~~k~~ieyY 56 (100)
T COG1911 25 KRTIKSLKL----GKAKLIIIASNCPKELKEDIEYY 56 (100)
T ss_pred HHHHHHHHc----CCCcEEEEecCCCHHHHHHHHHH
Confidence 344445444 5799999998 77888888666
No 30
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=39.53 E-value=54 Score=24.64 Aligned_cols=32 Identities=9% Similarity=0.145 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCcc
Q psy14162 20 HEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFV 55 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~ 55 (90)
-+++=+.|++.+.+.|.++ .+..|+|+|||..
T Consensus 137 ~~~~R~~F~~~l~~~L~~~----~~~~v~i~~~~y~ 168 (187)
T COG3172 137 SSVQRQEFQNLLEQMLEEN----NIPFVVIEGEDYL 168 (187)
T ss_pred cHhHHHHHHHHHHHHHHHh----CCcEEEEcCCCHH
Confidence 4566779999999999998 5889999999853
No 31
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=39.39 E-value=30 Score=18.59 Aligned_cols=13 Identities=23% Similarity=0.450 Sum_probs=9.6
Q ss_pred CccHHHHHHHHHH
Q psy14162 53 GFVKDKFFEYMFQ 65 (90)
Q Consensus 53 GF~Kd~F~kyl~~ 65 (90)
|.++++|.+|+..
T Consensus 16 Gls~eeir~FL~~ 28 (30)
T PF08671_consen 16 GLSKEEIREFLEF 28 (30)
T ss_dssp T--HHHHHHHHHH
T ss_pred CCCHHHHHHHHHh
Confidence 8999999999864
No 32
>PF07110 EthD: EthD domain; InterPro: IPR009799 This family consists of several bacterial sequences which are related to the EthD protein of Rhodococcus ruber (Q93EX2 from SWISSPROT). R. ruber (formerly Gordonia terrae) IFP 2001 is one of a few bacterial strains able to degrade ethyl tert-butyl ether (ETBE), which is a major pollutant from gasoline. This strain was found to undergo a spontaneous 14.3-kbp chromosomal deletion, which results in the loss of the ability to degrade ETBE. Sequence analysis of the region corresponding to the deletion revealed the presence of a gene cluster, ethABCD, encoding a ferredoxin reductase (EthA), a cytochrome P-450 (EthB), a ferredoxin (EthC), and a 10kDa protein of unknown function (EthD), respectively. Upstream of ethABCD lies ethR, which codes for a putative positive transcriptional regulator of the AraC/XylS family. Transformation of the ETBE-negative mutant by a plasmid carrying the ethRABCD genes restored the ability to degrade ETBE. Complementation was abolished if the plasmid carried ethRABC only demonstrating that EthD is essential for the ETBE degradation system [].; PDB: 3BF4_B 2FTR_A.
Probab=39.38 E-value=23 Score=21.43 Aligned_cols=15 Identities=33% Similarity=0.817 Sum_probs=10.7
Q ss_pred CCccHHHHHHHHHHH
Q psy14162 52 PGFVKDKFFEYMFQV 66 (90)
Q Consensus 52 PGF~Kd~F~kyl~~~ 66 (90)
||.+.++|.+|..+.
T Consensus 1 Pgls~eeF~~~~~~~ 15 (95)
T PF07110_consen 1 PGLSPEEFHDYWREV 15 (95)
T ss_dssp --S-HHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHh
Confidence 899999999998773
No 33
>PRK07066 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=38.35 E-value=38 Score=26.66 Aligned_cols=26 Identities=19% Similarity=0.516 Sum_probs=22.1
Q ss_pred ccEEEEe--CCCccHHHHHHHHHHHhcc
Q psy14162 44 VKCVLLA--SPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 44 vk~VIIA--sPGF~Kd~F~kyl~~~a~r 69 (90)
-.+|++. .|||+.+-++-.+..++.+
T Consensus 177 k~pV~v~kd~pGFi~NRl~~a~~~EA~~ 204 (321)
T PRK07066 177 MRPLHVRKEVPGFIADRLLEALWREALH 204 (321)
T ss_pred CEeEecCCCCccHHHHHHHHHHHHHHHH
Confidence 3588884 8999999999999888876
No 34
>PRK09698 D-allose kinase; Provisional
Probab=37.86 E-value=1.1e+02 Score=22.66 Aligned_cols=47 Identities=11% Similarity=0.088 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHH-HHHHHHHHHhc
Q psy14162 22 KALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKD-KFFEYMFQVFT 68 (90)
Q Consensus 22 Kal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd-~F~kyl~~~a~ 68 (90)
..++++-+.+..+|...++.-+...|||.|...-.. .|.+++.+...
T Consensus 215 ~~~~~~~~~la~~l~~li~~ldP~~IvlgG~~~~~~~~~~~~l~~~~~ 262 (302)
T PRK09698 215 PFIQSLLENLARAIATSINLFDPDAIILGGGVMDMPAFPRETLIAMIQ 262 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCEEEEcCccccCchhHHHHHHHHHH
Confidence 466777777888887777777788999999754332 23455544433
No 35
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=37.83 E-value=35 Score=26.21 Aligned_cols=47 Identities=21% Similarity=0.392 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHhcccc-------CcccEEEEeCCCccHHHHHHHHHHH
Q psy14162 20 HEKALVRFYDNVMQGILRHVNF-------DIVKCVLLASPGFVKDKFFEYMFQV 66 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~vdF-------~~vk~VIIAsPGF~Kd~F~kyl~~~ 66 (90)
.+.++..|++++.+.|.|.++| ..+..|+|+|.|--=..+.+||.++
T Consensus 244 ~~~~l~~~~~~l~~EI~rsl~~y~~~~~~~~i~~I~L~Ggga~l~gL~~~l~~~ 297 (340)
T PF11104_consen 244 DQDALRPFLEELAREIRRSLDFYQSQSGGESIERIYLSGGGARLPGLAEYLSEE 297 (340)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH------SEEEEESGGGGSTTHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEECCccchhhHHHHHHHH
Confidence 4567889999999999988885 2488999999998777888888654
No 36
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=37.54 E-value=46 Score=18.73 Aligned_cols=30 Identities=10% Similarity=0.132 Sum_probs=22.7
Q ss_pred HHHHhccccCcccEEEEeCCCccHHHHHHH
Q psy14162 33 QGILRHVNFDIVKCVLLASPGFVKDKFFEY 62 (90)
Q Consensus 33 ~al~r~vdF~~vk~VIIAsPGF~Kd~F~ky 62 (90)
+.+..-+|+..+..||+.+|.....++.+-
T Consensus 45 ~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~ 74 (82)
T smart00490 45 DVAERGLDLPGVDLVIIYDLPWSPASYIQR 74 (82)
T ss_pred ChhhCCcChhcCCEEEEeCCCCCHHHHHHh
Confidence 345666788889999999998887777543
No 37
>KOG1497|consensus
Probab=36.95 E-value=34 Score=28.26 Aligned_cols=22 Identities=32% Similarity=0.726 Sum_probs=18.8
Q ss_pred ccEEEEeCCCccHHHHHHHHHH
Q psy14162 44 VKCVLLASPGFVKDKFFEYMFQ 65 (90)
Q Consensus 44 vk~VIIAsPGF~Kd~F~kyl~~ 65 (90)
+-|+|+||||-.+..|..-|+.
T Consensus 229 ~~CtlLA~~gpqrsr~Latlfk 250 (399)
T KOG1497|consen 229 LQCTLLASAGPQRSRMLATLFK 250 (399)
T ss_pred HhheeecCCChHHHHHHHHHhc
Confidence 7899999999999888877643
No 38
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=36.42 E-value=63 Score=19.71 Aligned_cols=28 Identities=7% Similarity=-0.096 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhccccCcccEEEEeCCCcc
Q psy14162 24 LVRFYDNVMQGILRHVNFDIVKCVLLASPGFV 55 (90)
Q Consensus 24 l~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~ 55 (90)
.+.+++.+.+.+.++ .+..|.|+.||.+
T Consensus 36 ~~~~~~~l~~~i~~~----~~~~i~Ig~pg~v 63 (99)
T smart00732 36 KEADAARLKKLIKKY----QPDLIVIGLPLNM 63 (99)
T ss_pred cchHHHHHHHHHHHh----CCCEEEEeCCcCC
Confidence 345666666666554 4779999999987
No 39
>PRK07511 enoyl-CoA hydratase; Provisional
Probab=36.08 E-value=60 Score=23.95 Aligned_cols=28 Identities=14% Similarity=0.281 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.++|.+.-+=+++++|||.|.|
T Consensus 30 ~~~~~l~~~l~~~~~d~~vr~vVl~g~g 57 (260)
T PRK07511 30 DMYAAGIEALNTAERDPSIRAVVLTGAG 57 (260)
T ss_pred HHHHHHHHHHHHhccCCCeEEEEEECCC
Confidence 4555566666554333679999999987
No 40
>PRK08150 enoyl-CoA hydratase; Provisional
Probab=35.65 E-value=55 Score=24.29 Aligned_cols=26 Identities=19% Similarity=0.325 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
..++++.+++.. ++ +++++|||.|.|
T Consensus 29 ~~~~~l~~al~~-~~-~~vr~vvltg~g 54 (255)
T PRK08150 29 GLIAALRAAFAR-LP-EGVRAVVLHGEG 54 (255)
T ss_pred HHHHHHHHHHHH-hh-cCCeEEEEECCC
Confidence 344555555544 34 789999999988
No 41
>PF10996 Beta-Casp: Beta-Casp domain; InterPro: IPR022712 The beta-CASP domain is found C-terminal to the beta-lactamase domain in pre-mRNA 3'-end-processing endonuclease. The active site of this enzyme is located at the interface of these two domains []. ; PDB: 2YCB_B 2XR1_B 2I7T_A 2I7V_A 2I7X_A 3A4Y_A 3IE2_D 3IE1_B 3IE0_D 2DKF_D ....
Probab=34.80 E-value=30 Score=22.27 Aligned_cols=32 Identities=13% Similarity=0.053 Sum_probs=20.4
Q ss_pred ccEEEEeCCCccHHHHHHHH-HHHhcccCCCCc
Q psy14162 44 VKCVLLASPGFVKDKFFEYM-FQVFTSQQAKSP 75 (90)
Q Consensus 44 vk~VIIAsPGF~Kd~F~kyl-~~~a~r~~~k~l 75 (90)
--+|||||||-....+-.++ ...+....|..|
T Consensus 80 ~p~Vvias~gml~~G~s~~~l~~~~~d~~n~Ii 112 (126)
T PF10996_consen 80 GPKVVIASSGMLEGGRSRHYLKRLASDPRNTII 112 (126)
T ss_dssp SSEEEEESSTTSSSSHHHHHHHHHTTSTTSEEE
T ss_pred CCeEEEeCCCCCCCCHHHHHHHHHcCCCCCeEE
Confidence 35999999998866665554 444444444433
No 42
>PRK07658 enoyl-CoA hydratase; Provisional
Probab=34.31 E-value=60 Score=23.85 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=16.5
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 29 ~~~~l~~~l~~~~~d~~vr~vvl~g~g 55 (257)
T PRK07658 29 VLHELSELLDQVEKDDNVRVVVIHGEG 55 (257)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEECCC
Confidence 344444444333222679999999988
No 43
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=33.75 E-value=1.1e+02 Score=22.69 Aligned_cols=49 Identities=12% Similarity=0.032 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
...++++-+.+..+|...++.-+...|||.|+-...+.|++.+.+...+
T Consensus 223 ~~~~~~~~~~la~~l~n~~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 271 (303)
T PRK13310 223 VAHVERYLDLLAICLGNILTIVDPHLVVLGGGLSNFDAIYEQLPKRLPR 271 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCEEEECCcccChHHHHHHHHHHHHH
Confidence 4566777777777777777777789999999654345666666555544
No 44
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=33.47 E-value=31 Score=26.97 Aligned_cols=26 Identities=35% Similarity=0.641 Sum_probs=17.4
Q ss_pred HHHHHHHhccccCcccEEEEeCCCccHHHH
Q psy14162 30 NVMQGILRHVNFDIVKCVLLASPGFVKDKF 59 (90)
Q Consensus 30 ~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F 59 (90)
++++.+.+. .++.|+|..|||+.|..
T Consensus 245 ~~l~~l~~~----G~~~V~v~p~gFv~D~l 270 (316)
T PF00762_consen 245 DVLEELAKE----GVKRVVVVPPGFVSDCL 270 (316)
T ss_dssp HHHHHHHHC----T-SEEEEEETT-SSSSH
T ss_pred HHHHHHHhc----CCCeEEEECCccccccH
Confidence 344455553 48899999999998876
No 45
>PRK05995 enoyl-CoA hydratase; Provisional
Probab=32.78 E-value=69 Score=23.67 Aligned_cols=27 Identities=22% Similarity=0.230 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 32 ~~~~l~~~l~~~~~d~~vr~vVltg~g 58 (262)
T PRK05995 32 VIAELTAAFRALDADDSVRAVVLAGAG 58 (262)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEEECCC
Confidence 344444454432222579999999988
No 46
>PRK12435 ferrochelatase; Provisional
Probab=32.67 E-value=53 Score=25.68 Aligned_cols=17 Identities=24% Similarity=0.426 Sum_probs=15.0
Q ss_pred cccEEEEeCCCccHHHH
Q psy14162 43 IVKCVLLASPGFVKDKF 59 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F 59 (90)
.++.|+|+.|||+.|-.
T Consensus 246 G~k~v~vvpigFvsDhl 262 (311)
T PRK12435 246 GYKSFIYTPVGFVAEHL 262 (311)
T ss_pred CCceEEEECCchhhhhH
Confidence 57899999999999875
No 47
>PRK07827 enoyl-CoA hydratase; Provisional
Probab=32.31 E-value=73 Score=23.55 Aligned_cols=28 Identities=21% Similarity=0.357 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++...-.=+++++|||.|.|
T Consensus 33 ~~~~el~~~l~~~~~d~~vr~vVltg~g 60 (260)
T PRK07827 33 RLVAQLHDGLRAAAADPAVRAVVLTHTG 60 (260)
T ss_pred HHHHHHHHHHHHHhcCCCeeEEEEEcCC
Confidence 4555555555443222568999999998
No 48
>cd03785 GT1_MurG MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide (NAM). The resulting disaccharide is then transported across the cell membrane, where it is polymerized into NAG-NAM cell-wall repeat structure. MurG belongs to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains, each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.
Probab=32.23 E-value=1.4e+02 Score=21.83 Aligned_cols=40 Identities=10% Similarity=0.140 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHH
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQ 65 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~ 65 (90)
.+.+..++..++..+.+ ..+..++++||| .++++.+.+.+
T Consensus 193 ~~~~~~~l~~a~~~l~~----~~~~~~~i~G~g-~~~~l~~~~~~ 232 (350)
T cd03785 193 ARAINEAVPEALAELLR----KRLQVIHQTGKG-DLEEVKKAYEE 232 (350)
T ss_pred HHHHHHHHHHHHHHhhc----cCeEEEEEcCCc-cHHHHHHHHhc
Confidence 44555555445555542 245678899999 67777777654
No 49
>PRK05870 enoyl-CoA hydratase; Provisional
Probab=32.23 E-value=72 Score=23.48 Aligned_cols=26 Identities=8% Similarity=0.079 Sum_probs=16.1
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
++++.+++.+.-+=+++++|||.|.|
T Consensus 32 ~~~l~~~l~~~~~d~~vr~vvl~g~g 57 (249)
T PRK05870 32 SAQLRAAVAAAEADPDVHALVVTGAG 57 (249)
T ss_pred HHHHHHHHHHHhcCCCeeEEEEECCC
Confidence 34444444433222579999999988
No 50
>PRK05980 enoyl-CoA hydratase; Provisional
Probab=31.98 E-value=67 Score=23.71 Aligned_cols=27 Identities=19% Similarity=0.282 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++...-.=+++++|||.|.|
T Consensus 31 ~~~~l~~~l~~~~~d~~v~~vVl~g~g 57 (260)
T PRK05980 31 LIDRLLARLDAIEVDESVRAVILTGAG 57 (260)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEEEeCC
Confidence 444444444432212579999999966
No 51
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=31.40 E-value=70 Score=19.45 Aligned_cols=40 Identities=15% Similarity=0.241 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHh----ccccCcccEEEEeCCCccHHHHHHHHHHHh
Q psy14162 25 VRFYDNVMQGILR----HVNFDIVKCVLLASPGFVKDKFFEYMFQVF 67 (90)
Q Consensus 25 ~kFf~~v~~al~r----~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a 67 (90)
+++|+.+..++.. .+||+.+ -..+|+|.-+.|-..+....
T Consensus 4 ~~~~~~i~~~l~~~~~V~lDF~gv---~~~~ssFl~eafg~l~~~~~ 47 (74)
T PF14213_consen 4 ERLRDEIEPALKEGEKVVLDFEGV---ESITSSFLNEAFGQLVREFG 47 (74)
T ss_pred HHHHHHHHHHHhcCCeEEEECCCc---ccccHHHHHHHHHHHHHHcC
Confidence 4678887777773 4777766 45688999999988877654
No 52
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=31.37 E-value=73 Score=22.95 Aligned_cols=41 Identities=17% Similarity=0.131 Sum_probs=27.7
Q ss_pred HHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcccCCCCc
Q psy14162 30 NVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTSQQAKSP 75 (90)
Q Consensus 30 ~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r~~~k~l 75 (90)
.+++.|.+. -+++||.|+|-..++-.+.+.+-+.+.+-...
T Consensus 19 ~aa~lLk~A-----KRPvIivG~ga~~~~a~e~l~~laEklgiPVv 59 (162)
T TIGR00315 19 LVAMMIKRA-----KRPLLIVGPENLEDEEKELIVKFIEKFDLPVV 59 (162)
T ss_pred HHHHHHHcC-----CCcEEEECCCcCcccHHHHHHHHHHHHCCCEE
Confidence 344455554 68999999999866667777666666544433
No 53
>TIGR03189 dienoyl_CoA_hyt cyclohexa-1,5-dienecarbonyl-CoA hydratase. This enzyme, cyclohexa-1,5-dienecarbonyl-CoA hydratase, also called dienoyl-CoA hydratase, acts on the product of benzoyl-CoA reductase (EC 1.3.99.15). Benzoyl-CoA is a common intermediate in the degradation of many aromatic compounds, and this enzyme is part of an anaerobic pathway for dearomatization and degradation.
Probab=31.37 E-value=73 Score=23.62 Aligned_cols=27 Identities=19% Similarity=0.335 Sum_probs=15.9
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 28 ~~~~l~~~l~~~~~~~~vr~vVl~g~g 54 (251)
T TIGR03189 28 MIAALSAALGEHLEDSALRAVLLDAEG 54 (251)
T ss_pred HHHHHHHHHHHHHcCCCceEEEEECCC
Confidence 333444444332222579999999987
No 54
>cd05295 MDH_like Malate dehydrogenase-like. These MDH-like proteins are related to other groups in the MDH family but do not have conserved substrate and cofactor binding residues. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subgroup are uncharacterized MDH-like proteins from animals. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=31.33 E-value=1.6e+02 Score=24.57 Aligned_cols=43 Identities=19% Similarity=0.160 Sum_probs=28.4
Q ss_pred CCCcccccc-hhHHHHHHHHHHHHHHHHHHhccccCcccEEEEeC
Q psy14162 8 DGKLMWEGD-VKQHEKALVRFYDNVMQGILRHVNFDIVKCVLLAS 51 (90)
Q Consensus 8 ~~~~~r~~~-~s~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAs 51 (90)
.|.|++.+. -.+.=..--+-|..+..+|.++- +.+.+.||+++
T Consensus 207 ag~prk~G~~R~DLL~~N~~Ifk~~g~~I~~~a-~~~~~VlVv~t 250 (452)
T cd05295 207 DDFLIKEGEDLEGCIRSRVAICQLYGPLIEKNA-KEDVKVIVAGR 250 (452)
T ss_pred CCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHhC-CCCCeEEEEeC
Confidence 467877663 22333344488999999999974 44577777773
No 55
>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....
Probab=31.09 E-value=1.4e+02 Score=18.84 Aligned_cols=38 Identities=16% Similarity=0.214 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhcccc--CcccEEEEeCCCccHHHHHHHHH
Q psy14162 27 FYDNVMQGILRHVNF--DIVKCVLLASPGFVKDKFFEYMF 64 (90)
Q Consensus 27 Ff~~v~~al~r~vdF--~~vk~VIIAsPGF~Kd~F~kyl~ 64 (90)
-++.+++++.+..+- ..+..+++..||.+.+++.+.+.
T Consensus 125 ~~~~~~~~l~~l~~~g~~~~~~~i~~~~~~~~~e~~~~~~ 164 (166)
T PF04055_consen 125 SFERVLEALERLKEAGIPRVIIFIVGLPGENDEEIEETIR 164 (166)
T ss_dssp HHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCCcEEEEEEEeCCCCHHHHHHHhC
Confidence 345555555444332 23678899999999999877653
No 56
>PF12363 DUF3647: Phage protein ; InterPro: IPR024410 Proteins in this entry are frequently annotated as phage proteins, however there is little accompanying literature to back this up or to describe the nature of these phage proteins.
Probab=31.05 E-value=74 Score=21.26 Aligned_cols=28 Identities=14% Similarity=0.479 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHH
Q psy14162 22 KALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYM 63 (90)
Q Consensus 22 Kal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl 63 (90)
..++++|+.|++.|... ||+|....+|+
T Consensus 85 ~~~~~l~~~vl~el~~s--------------~~~k~~~k~~~ 112 (113)
T PF12363_consen 85 DDIEELFDEVLKELKKS--------------NFFKRAVKKFL 112 (113)
T ss_pred hhHHHHHHHHHHHHHhC--------------hhHHHHHHHHh
Confidence 34778999999999876 77777766654
No 57
>PRK06495 enoyl-CoA hydratase; Provisional
Probab=31.04 E-value=73 Score=23.57 Aligned_cols=28 Identities=18% Similarity=0.211 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-+=+++++|||.|.|
T Consensus 30 ~~~~~l~~al~~~~~d~~vr~vVl~g~g 57 (257)
T PRK06495 30 ELRDELIAVFDEISERPDVRVVVLTGAG 57 (257)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEECCC
Confidence 3455555555543222579999999988
No 58
>KOG4426|consensus
Probab=30.65 E-value=26 Score=30.23 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=27.9
Q ss_pred HHHHHHHHHhccccCc-ccEEEEeCCCccH----HHHHHHHHHHhcccCCC
Q psy14162 28 YDNVMQGILRHVNFDI-VKCVLLASPGFVK----DKFFEYMFQVFTSQQAK 73 (90)
Q Consensus 28 f~~v~~al~r~vdF~~-vk~VIIAsPGF~K----d~F~kyl~~~a~r~~~k 73 (90)
=..|.++|.+|..=+. +..+=||||||+. .+++.--.+.-...+-+
T Consensus 131 P~~va~~l~~~lP~se~vEk~~iagpGFiNv~Ls~d~~~~~i~nll~~GV~ 181 (656)
T KOG4426|consen 131 PRDVAQELQKHLPTSEMVEKCEIAGPGFINVFLSKDYMSKQISNLLVNGVK 181 (656)
T ss_pred cHHHHHHHHhhCCchhhhhhhcccCCceEEEEechHHHHHHHHHHHHcCCC
Confidence 3568888888875222 6667899999874 44444333333344443
No 59
>COG0062 Uncharacterized conserved protein [Function unknown]
Probab=30.25 E-value=70 Score=23.93 Aligned_cols=34 Identities=24% Similarity=0.420 Sum_probs=22.1
Q ss_pred HHHHHHHHHhccccC-cccEEEEeCCC------ccHHHHHH
Q psy14162 28 YDNVMQGILRHVNFD-IVKCVLLASPG------FVKDKFFE 61 (90)
Q Consensus 28 f~~v~~al~r~vdF~-~vk~VIIAsPG------F~Kd~F~k 61 (90)
=..|.+.+.+..+-. ..+.+|+|||| |+.-.++.
T Consensus 33 G~aVa~~i~~~~~~~~~~~v~vlcG~GnNGGDG~VaAR~L~ 73 (203)
T COG0062 33 GLAVARAILREYPLGRARRVLVLCGPGNNGGDGLVAARHLK 73 (203)
T ss_pred HHHHHHHHHHHcCcccCCEEEEEECCCCccHHHHHHHHHHH
Confidence 346777777776432 35589999998 55544443
No 60
>PRK09245 enoyl-CoA hydratase; Provisional
Probab=30.06 E-value=84 Score=23.27 Aligned_cols=28 Identities=18% Similarity=0.179 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-+=+++++|||.|.|
T Consensus 31 ~~~~~l~~~l~~~~~d~~vr~vVl~g~g 58 (266)
T PRK09245 31 DAVDALVAACAAINADRSVRAVILTGAG 58 (266)
T ss_pred HHHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 3455555555543222579999999987
No 61
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=30.06 E-value=1.1e+02 Score=21.39 Aligned_cols=25 Identities=16% Similarity=0.262 Sum_probs=15.5
Q ss_pred HHHHHHHHhcc-ccCcccEEEEeCCC
Q psy14162 29 DNVMQGILRHV-NFDIVKCVLLASPG 53 (90)
Q Consensus 29 ~~v~~al~r~v-dF~~vk~VIIAsPG 53 (90)
..+++.+.+.+ +-..-+.+|++|||
T Consensus 10 ~~~a~~i~~~~~~~~~~~v~il~G~G 35 (169)
T PF03853_consen 10 RAIAELIRKLFGSPKGPRVLILCGPG 35 (169)
T ss_dssp HHHHHHHHHHSTCCTT-EEEEEE-SS
T ss_pred HHHHHHHHHHhcccCCCeEEEEECCC
Confidence 34555565555 34567899999999
No 62
>PRK06144 enoyl-CoA hydratase; Provisional
Probab=30.00 E-value=81 Score=23.45 Aligned_cols=27 Identities=15% Similarity=0.238 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 36 ~~~~l~~~l~~~~~d~~v~~vVltg~g 62 (262)
T PRK06144 36 MYEGLAEICEAIAADPSIRAVVLRGAG 62 (262)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEecCC
Confidence 445555555443222569999999855
No 63
>PRK07327 enoyl-CoA hydratase; Provisional
Probab=29.86 E-value=90 Score=23.29 Aligned_cols=28 Identities=18% Similarity=0.080 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-.=+++++|||.|.|
T Consensus 39 ~~~~~l~~~l~~~~~d~~vr~vVltg~g 66 (268)
T PRK07327 39 RMHRELADIWRDVDRDPDVRVVLIRGEG 66 (268)
T ss_pred HHHHHHHHHHHHhhhCCCceEEEEECCC
Confidence 3444555555443222568999999987
No 64
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=29.42 E-value=78 Score=24.70 Aligned_cols=32 Identities=19% Similarity=0.234 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCc
Q psy14162 19 QHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGF 54 (90)
Q Consensus 19 ~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF 54 (90)
.......++|+++++.+... .+..|||||-=|
T Consensus 20 ~r~~d~~~~f~~~l~~a~~~----~vD~vliAGDlF 51 (390)
T COG0420 20 SRLEDQKKAFDELLEIAKEE----KVDFVLIAGDLF 51 (390)
T ss_pred cchHHHHHHHHHHHHHHHHc----cCCEEEEccccc
Confidence 34455667788888888775 578999999544
No 65
>PRK07659 enoyl-CoA hydratase; Provisional
Probab=29.28 E-value=90 Score=23.13 Aligned_cols=27 Identities=15% Similarity=0.286 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-| +++++|||.|.|
T Consensus 33 ~~~~~l~~~l~~~~d-~~vrvvvl~g~g 59 (260)
T PRK07659 33 PMLKELLQALKEVAE-SSAHIVVLRGNG 59 (260)
T ss_pred HHHHHHHHHHHHhcC-CCeeEEEEECCC
Confidence 345555555555422 679999999988
No 66
>PRK06563 enoyl-CoA hydratase; Provisional
Probab=28.93 E-value=88 Score=23.07 Aligned_cols=27 Identities=15% Similarity=0.188 Sum_probs=16.5
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 27 ~~~~l~~~l~~~~~d~~vrvvvl~g~g 53 (255)
T PRK06563 27 MLDDLALALGEYEADDELRVAVLFAHG 53 (255)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEEECCC
Confidence 344444444432222568999999988
No 67
>PRK06072 enoyl-CoA hydratase; Provisional
Probab=28.81 E-value=90 Score=23.00 Aligned_cols=12 Identities=17% Similarity=0.504 Sum_probs=10.4
Q ss_pred CcccEEEEeCCC
Q psy14162 42 DIVKCVLLASPG 53 (90)
Q Consensus 42 ~~vk~VIIAsPG 53 (90)
+++++|||.|.|
T Consensus 43 ~~vr~vVl~g~g 54 (248)
T PRK06072 43 PKIRVVIVTGEG 54 (248)
T ss_pred CCeeEEEEECCC
Confidence 568999999987
No 68
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=28.48 E-value=90 Score=21.54 Aligned_cols=25 Identities=20% Similarity=0.315 Sum_probs=19.9
Q ss_pred ccEEEEeCCC-ccHHHHHHHHHHHhc
Q psy14162 44 VKCVLLASPG-FVKDKFFEYMFQVFT 68 (90)
Q Consensus 44 vk~VIIAsPG-F~Kd~F~kyl~~~a~ 68 (90)
-|+|||.||- ==|+.+.+.|.++.+
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~ 27 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFP 27 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHST
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcc
Confidence 4789999993 339999999988765
No 69
>TIGR00744 ROK_glcA_fam ROK family protein (putative glucokinase). This alignment models one branch of the ROK superfamily of proteins. The three members of the seed alignment for this model all have experimental evidence for activity as glucokinase, but the set of related proteins is crowded with paralogs of different or unknown function. Proteins scoring above the trusted_cutoff will show strong similarity to at least one known glucokinase and may be designated as putative glucokinases. However, definitive identification of glucokinases should be done only with extreme caution.
Probab=28.40 E-value=1.9e+02 Score=21.52 Aligned_cols=49 Identities=6% Similarity=-0.018 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeCCCcc-HHHHHHHHHHHhcc
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFV-KDKFFEYMFQVFTS 69 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~-Kd~F~kyl~~~a~r 69 (90)
.+.++++-+.+..+|...+..-+...|||.|+-+. -+.|.+.+.+...+
T Consensus 229 ~~i~~~~~~~L~~~i~~~~~~~dP~~IvlgG~~~~~~~~~~~~i~~~~~~ 278 (318)
T TIGR00744 229 VDSYREVARWAGAGLADLASLFNPSAIVLGGGLSDAGDLLLDPIRKSYKR 278 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCEEEECChhhhCcHHHHHHHHHHHHH
Confidence 44566666666666655555456778999998543 24677776655443
No 70
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=28.36 E-value=1.3e+02 Score=24.03 Aligned_cols=47 Identities=26% Similarity=0.422 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeC---CCccHHHHHHHHHHHhcccCCCC
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLAS---PGFVKDKFFEYMFQVFTSQQAKS 74 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAs---PGF~Kd~F~kyl~~~a~r~~~k~ 74 (90)
+..++.|-+.+...+.. ..+||||| ||+-.|.|.+ |.+.+.+.+-+.
T Consensus 113 ~~~~~~~l~~~~~~l~~------~d~VvlsGSlP~g~~~d~y~~-li~~~~~~g~~v 162 (310)
T COG1105 113 EAELEQFLEQLKALLES------DDIVVLSGSLPPGVPPDAYAE-LIRILRQQGAKV 162 (310)
T ss_pred HHHHHHHHHHHHHhccc------CCEEEEeCCCCCCCCHHHHHH-HHHHHHhcCCeE
Confidence 44555555544444444 45699999 5665555544 444444444333
No 71
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=28.19 E-value=66 Score=25.19 Aligned_cols=38 Identities=16% Similarity=0.368 Sum_probs=26.6
Q ss_pred HHHHHHhccccCccc----------------EEEEeCCCccHHHHHHHHHHHhc
Q psy14162 31 VMQGILRHVNFDIVK----------------CVLLASPGFVKDKFFEYMFQVFT 68 (90)
Q Consensus 31 v~~al~r~vdF~~vk----------------~VIIAsPGF~Kd~F~kyl~~~a~ 68 (90)
+++.|.+.+|+..+. .-|||+||-++.+.++-+..+..
T Consensus 82 al~~LR~~~~iPVvGviPaik~A~~~t~~~~IgViaT~~Tvks~~y~~~i~~~~ 135 (269)
T COG0796 82 ALEDLREKFDIPVVGVIPAIKPAVALTRNGRIGVIATPATVKSNAYRDLIARFA 135 (269)
T ss_pred HHHHHHHhCCCCEEEeccchHHHHHhccCCeEEEEeccchhccHHHHHHHHHhC
Confidence 455666666665543 34999999999999888766443
No 72
>PRK09674 enoyl-CoA hydratase-isomerase; Provisional
Probab=28.03 E-value=92 Score=23.01 Aligned_cols=27 Identities=0% Similarity=0.078 Sum_probs=17.1
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|-|
T Consensus 30 ~~~~L~~~~~~~~~d~~vr~vVltg~g 56 (255)
T PRK09674 30 LLTQLVNELEAAATDTSIGVCVITGNA 56 (255)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEEECCC
Confidence 444555555443222579999999987
No 73
>COG1024 CaiD Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]
Probab=27.91 E-value=94 Score=22.87 Aligned_cols=28 Identities=18% Similarity=0.255 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++...-+=+.+++|||.|.|
T Consensus 32 ~~~~~l~~al~~~~~d~~vr~vvltg~g 59 (257)
T COG1024 32 EMLDELAEALDEAEADPDVRVVVLTGAG 59 (257)
T ss_pred HHHHHHHHHHHHHhhCCCeEEEEEECCC
Confidence 4566677777665433689999999998
No 74
>PF07515 DUF1528: Protein of unknown function (DUF1528); InterPro: IPR011093 This entry contains proteins some of which are from pathogenic strains of Gammaproteobacteria. Though the function of these proteins is unknown, they could be involved in pathogenesis. This domain is found at the C terminus of proteins that contain a N-terminal metal-dependent phosphohydrolase (HD) region and are considered to be helicases/relaxases. ; PDB: 2IPQ_X 3KQ5_A.
Probab=27.82 E-value=70 Score=21.35 Aligned_cols=19 Identities=37% Similarity=0.524 Sum_probs=14.9
Q ss_pred ccEEEEeCCCccHHHHHHHHHHH
Q psy14162 44 VKCVLLASPGFVKDKFFEYMFQV 66 (90)
Q Consensus 44 vk~VIIAsPGF~Kd~F~kyl~~~ 66 (90)
-..+.|.||| -|++|+.+.
T Consensus 14 ~~~vfLvsP~----IF~~y~~e~ 32 (106)
T PF07515_consen 14 AGGVFLVSPG----IFQRYAQEH 32 (106)
T ss_dssp TTEEEEETTC----HHHHHHHH-
T ss_pred CCEEEEECHH----HHHHHHHhc
Confidence 4578899999 689999855
No 75
>PRK06494 enoyl-CoA hydratase; Provisional
Probab=27.63 E-value=94 Score=23.01 Aligned_cols=12 Identities=8% Similarity=0.119 Sum_probs=10.0
Q ss_pred CcccEEEEeCCC
Q psy14162 42 DIVKCVLLASPG 53 (90)
Q Consensus 42 ~~vk~VIIAsPG 53 (90)
+++++|||.|.|
T Consensus 47 ~~v~~vVl~g~g 58 (259)
T PRK06494 47 PEQWVAIVTGAG 58 (259)
T ss_pred CCcEEEEEEcCC
Confidence 569999999865
No 76
>PRK06143 enoyl-CoA hydratase; Provisional
Probab=27.63 E-value=91 Score=23.14 Aligned_cols=27 Identities=15% Similarity=0.099 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-.=+++++|||.|.|
T Consensus 35 ~~~~l~~~l~~~~~d~~vr~vVltg~g 61 (256)
T PRK06143 35 VILALTQALRWLAADPDVRVLVLRGAG 61 (256)
T ss_pred HHHHHHHHHHHHhcCCCcEEEEEEeCC
Confidence 334444444443222579999999855
No 77
>KOG0481|consensus
Probab=27.43 E-value=59 Score=28.72 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=23.5
Q ss_pred cccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 43 IVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
++..++|.-||-.|.+|++|+..-+|=
T Consensus 364 DINVLLLGDPgtAKSQlLKFvEkvsPI 390 (729)
T KOG0481|consen 364 DINVLLLGDPGTAKSQLLKFVEKVSPI 390 (729)
T ss_pred ceeEEEecCCchhHHHHHHHHHhcCce
Confidence 477889999999999999999877664
No 78
>PF02843 GARS_C: Phosphoribosylglycinamide synthetase, C domain; InterPro: IPR020560 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the C-domain, which is related to the C-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005480 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 2YW2_B 2YYA_A 3MJF_A 2IP4_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A 2YRW_A 2YS7_A ....
Probab=27.37 E-value=35 Score=22.02 Aligned_cols=12 Identities=42% Similarity=0.570 Sum_probs=9.6
Q ss_pred EEEEeCCCccHH
Q psy14162 46 CVLLASPGFVKD 57 (90)
Q Consensus 46 ~VIIAsPGF~Kd 57 (90)
|||+||+|.-.+
T Consensus 4 ~vv~as~GYP~~ 15 (93)
T PF02843_consen 4 GVVLASKGYPGS 15 (93)
T ss_dssp EEEEEETTTTSS
T ss_pred EEEEeCCCcCCC
Confidence 899999997543
No 79
>PRK07112 polyketide biosynthesis enoyl-CoA hydratase; Validated
Probab=27.16 E-value=90 Score=23.10 Aligned_cols=26 Identities=19% Similarity=0.207 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+. + +++++|||.|.|
T Consensus 31 ~~~~~L~~~l~~~-~-~~vr~vVl~g~g 56 (255)
T PRK07112 31 RLIAECMDVLDRC-E-HAATIVVLEGLP 56 (255)
T ss_pred HHHHHHHHHHHHh-h-cCceEEEEEcCC
Confidence 3555566666543 2 479999999866
No 80
>KOG1682|consensus
Probab=26.93 E-value=70 Score=25.09 Aligned_cols=26 Identities=15% Similarity=0.400 Sum_probs=20.7
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
...+.++|++.-|-.+++||||+-.|
T Consensus 61 ~~~Lq~~ll~d~d~~dlr~viita~G 86 (287)
T KOG1682|consen 61 MCALQDALLKDKDNLDLRCVIITAQG 86 (287)
T ss_pred HHHHHHHHhhcccccceeEEEEecCC
Confidence 34556788888888999999998666
No 81
>TIGR01929 menB naphthoate synthase (dihydroxynaphthoic acid synthetase). This model represents an enzyme, naphthoate synthase (dihydroxynaphthoic acid synthetase), which is involved in the fifth step of the menaquinone biosynthesis pathway. Together with o-succinylbenzoate-CoA ligase (menE: TIGR01923), this enzyme takes 2-succinylbenzoate and converts it into 1,4-di-hydroxy-2-naphthoate. Included above the trusted cutoff are two enzymes from Arabadopsis thaliana and one from Staphylococcus aureus which are identified as putative enoyl-CoA hydratase/isomerases. These enzymes group with the naphthoate synthases when building a tree and when doing BLAST searches.
Probab=26.91 E-value=92 Score=23.10 Aligned_cols=28 Identities=14% Similarity=0.150 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-+=+++++|||.|.|
T Consensus 30 ~~~~el~~~l~~~~~d~~vr~vVltg~g 57 (259)
T TIGR01929 30 LTVKEIIQALDDAREDPDIGVVILTGAG 57 (259)
T ss_pred HHHHHHHHHHHHHhhCCCeEEEEEEeCC
Confidence 3455555555443322579999999976
No 82
>PRK07938 enoyl-CoA hydratase; Provisional
Probab=26.54 E-value=1e+02 Score=22.72 Aligned_cols=28 Identities=14% Similarity=0.040 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++...-.=+.+++|||.|.|
T Consensus 28 ~~~~~l~~~l~~~~~d~~vr~vVltg~G 55 (249)
T PRK07938 28 AGWFALADAITAAGADPDTRVVVLRAEG 55 (249)
T ss_pred HHHHHHHHHHHHhhcCCCeEEEEEECCC
Confidence 3445555555443222569999999987
No 83
>PRK08138 enoyl-CoA hydratase; Provisional
Probab=26.52 E-value=1e+02 Score=22.86 Aligned_cols=28 Identities=4% Similarity=0.057 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-+=+++++|||.|.|
T Consensus 35 ~~~~~l~~al~~~~~d~~vr~vvl~g~g 62 (261)
T PRK08138 35 EVRQQLAEHFTELSEDPDIRAIVLTGGE 62 (261)
T ss_pred HHHHHHHHHHHHHhhCCCeeEEEEECCC
Confidence 3445555555443222579999999987
No 84
>PRK06242 flavodoxin; Provisional
Probab=26.45 E-value=65 Score=21.26 Aligned_cols=27 Identities=7% Similarity=0.167 Sum_probs=20.0
Q ss_pred ccCcccEEEEeCC---CccHHHHHHHHHHH
Q psy14162 40 NFDIVKCVLLASP---GFVKDKFFEYMFQV 66 (90)
Q Consensus 40 dF~~vk~VIIAsP---GF~Kd~F~kyl~~~ 66 (90)
++.+...|||++| |-.-..+.+|+...
T Consensus 40 ~~~~~d~ii~g~pvy~~~~~~~~~~fl~~~ 69 (150)
T PRK06242 40 DLSEYDLIGFGSGIYFGKFHKSLLKLIEKL 69 (150)
T ss_pred cHhHCCEEEEeCchhcCCcCHHHHHHHHhh
Confidence 4556789999999 55667777777554
No 85
>PRK05864 enoyl-CoA hydratase; Provisional
Probab=26.21 E-value=1e+02 Score=23.05 Aligned_cols=27 Identities=15% Similarity=0.192 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 38 ~~~~L~~~l~~~~~d~~vrvvVl~g~g 64 (276)
T PRK05864 38 VMVPLKEALAEVSYDNSVRVVVLTGAG 64 (276)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 444444444432222569999999876
No 86
>PRK07799 enoyl-CoA hydratase; Provisional
Probab=26.09 E-value=98 Score=22.91 Aligned_cols=27 Identities=15% Similarity=0.156 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-.=+++++|||.|.|
T Consensus 33 ~~~~l~~al~~~~~d~~vr~vVltg~g 59 (263)
T PRK07799 33 MLRIMVDAWDRVDNDPDIRSCILTGAG 59 (263)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEECCC
Confidence 344444444432211569999999987
No 87
>PRK06213 enoyl-CoA hydratase; Provisional
Probab=25.91 E-value=1e+02 Score=22.35 Aligned_cols=26 Identities=12% Similarity=0.139 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++... + +++++|||.|.|
T Consensus 29 ~~~~~l~~~l~~~-~-~~~~vvvl~g~g 54 (229)
T PRK06213 29 AMIDALNAALDQA-E-DDRAVVVITGQP 54 (229)
T ss_pred HHHHHHHHHHHHh-h-ccCcEEEEeCCC
Confidence 3455555555542 3 678999999988
No 88
>PRK07110 polyketide biosynthesis enoyl-CoA hydratase; Validated
Probab=25.87 E-value=1e+02 Score=22.77 Aligned_cols=27 Identities=15% Similarity=0.076 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+.+++.+++.+.-.=+++++|||.|.|
T Consensus 33 ~~~~L~~~l~~~~~d~~vr~vvl~g~g 59 (249)
T PRK07110 33 LCDQLHEAFDTIAQDPRYKVVILTGYP 59 (249)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEECCC
Confidence 334444444433222579999999987
No 89
>TIGR03210 badI 2-ketocyclohexanecarboxyl-CoA hydrolase. Members of this protein family are 2-ketocyclohexanecarboxyl-CoA hydrolase, a ring-opening enzyme that acts in catabolism of molecules such as benzoyl-CoA and cyclohexane carboxylate. It converts -ketocyclohexanecarboxyl-CoA to pimelyl-CoA. It is not sensitive to oxygen.
Probab=25.81 E-value=1.1e+02 Score=22.70 Aligned_cols=27 Identities=15% Similarity=0.220 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.++++.+++...-.=+++++|||.|.|
T Consensus 30 ~~~~l~~al~~~~~d~~vr~vVl~g~g 56 (256)
T TIGR03210 30 TCDELIHALKDAGYDRQIGVIVLAGAG 56 (256)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEecCC
Confidence 444555555443222579999999865
No 90
>TIGR00109 hemH ferrochelatase. Human ferrochelatase, found at the mitochondrial inner membrane inner surface, was shown in an active recombinant form to be a homodimer. This contrasts to an earlier finding by gel filtration that overexpressed E. coli ferrochelatase runs as a monomer.
Probab=25.76 E-value=78 Score=24.64 Aligned_cols=29 Identities=14% Similarity=0.335 Sum_probs=20.1
Q ss_pred HHHHHHHHhccccCcccEEEEeCCCccHHHHHH
Q psy14162 29 DNVMQGILRHVNFDIVKCVLLASPGFVKDKFFE 61 (90)
Q Consensus 29 ~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~k 61 (90)
+++++.+.+. .++-|+|..|||+-|..-.
T Consensus 249 ~~~l~~l~~~----G~k~V~vvP~gFv~D~lET 277 (322)
T TIGR00109 249 EELLEKLGEQ----GVQHIVVVPIGFTADHLET 277 (322)
T ss_pred HHHHHHHHHc----CCceEEEECCcccccchhH
Confidence 3344444442 4789999999999987643
No 91
>PLN02664 enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase
Probab=25.72 E-value=1e+02 Score=23.10 Aligned_cols=27 Identities=15% Similarity=0.301 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++...-+=+++++|||.|.|
T Consensus 36 ~~~~l~~al~~~~~d~~vrvvVltg~g 62 (275)
T PLN02664 36 FFTEFPKALSSLDQNPNVSVIILSGAG 62 (275)
T ss_pred HHHHHHHHHHHHHhCCCcEEEEEECCC
Confidence 334444444432211468999999988
No 92
>PRK07396 dihydroxynaphthoic acid synthetase; Validated
Probab=25.66 E-value=1e+02 Score=23.16 Aligned_cols=28 Identities=11% Similarity=0.268 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.-+=+++++|||.|.|
T Consensus 40 ~~~~~l~~al~~~~~d~~vr~vVltg~g 67 (273)
T PRK07396 40 KTVKEMIDAFADARDDDNIGVIILTGAG 67 (273)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEEeCC
Confidence 3445555555443222468999999866
No 93
>PRK08293 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=25.56 E-value=1.1e+02 Score=22.89 Aligned_cols=26 Identities=12% Similarity=0.372 Sum_probs=21.2
Q ss_pred ccEEEE--eCCCccHHHHHHHHHHHhcc
Q psy14162 44 VKCVLL--ASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 44 vk~VII--AsPGF~Kd~F~kyl~~~a~r 69 (90)
-.+|++ ..|||+-+..+-.+..++.+
T Consensus 178 k~pv~v~~d~pgfi~nRi~~~~~~ea~~ 205 (287)
T PRK08293 178 MVPIVLKKEQPGYILNSLLVPFLSAALA 205 (287)
T ss_pred CeEEEecCCCCCHhHHHHHHHHHHHHHH
Confidence 346777 49999999999998888877
No 94
>PRK06023 enoyl-CoA hydratase; Provisional
Probab=25.49 E-value=1.2e+02 Score=22.42 Aligned_cols=27 Identities=7% Similarity=0.182 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++...-+=+++++|||.|.|
T Consensus 34 ~~~~L~~~l~~~~~d~~vr~vVl~g~g 60 (251)
T PRK06023 34 MYATMAKALKAADADDAIRAHVFLGTE 60 (251)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 444455555443222579999999887
No 95
>PRK07260 enoyl-CoA hydratase; Provisional
Probab=25.46 E-value=1.2e+02 Score=22.26 Aligned_cols=28 Identities=11% Similarity=0.241 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++...-.=+++++|||.|.|
T Consensus 29 ~~~~~l~~~l~~~~~d~~v~~vVl~g~g 56 (255)
T PRK07260 29 PMCQEILEALRLAEEDPSVRFLLINANG 56 (255)
T ss_pred HHHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 3455555555443323679999999998
No 96
>PRK07657 enoyl-CoA hydratase; Provisional
Probab=25.35 E-value=1e+02 Score=22.76 Aligned_cols=27 Identities=15% Similarity=0.240 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-.=+++++|||.|.|
T Consensus 32 ~~~~l~~al~~~~~d~~v~~vVl~g~g 58 (260)
T PRK07657 32 LLEELQNILTQINEEANVRVVILTGAG 58 (260)
T ss_pred HHHHHHHHHHHHHhCCCeEEEEEecCC
Confidence 344444444433222679999999965
No 97
>PRK08252 enoyl-CoA hydratase; Provisional
Probab=25.33 E-value=1.1e+02 Score=22.57 Aligned_cols=27 Identities=7% Similarity=-0.010 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-.=+++++|||.|.|
T Consensus 31 ~~~~l~~~l~~~~~d~~vr~vvl~g~g 57 (254)
T PRK08252 31 VAQGLAAALDELDADPDLSVGILTGAG 57 (254)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEECCC
Confidence 344444444443222579999999887
No 98
>TIGR01500 sepiapter_red sepiapterin reductase. This model describes sepiapterin reductase, a member of the short chain dehydrogenase/reductase family. The enzyme catalyzes the last step in the biosynthesis of tetrahydrobiopterin. A similar enzyme in Bacillus cereus was isolated for its ability to convert benzil to (S)-benzoin, a property sepiapterin reductase also shares. Cutoff scores for this model are set such that benzil reductase scores between trusted and noise cutoffs.
Probab=25.30 E-value=1.4e+02 Score=21.28 Aligned_cols=38 Identities=11% Similarity=0.148 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHH
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYM 63 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl 63 (90)
--+++.|.+.+...+.. ..+++..| .||++..++.+.+
T Consensus 168 Kaal~~l~~~la~e~~~----~~i~v~~v-~PG~v~T~~~~~~ 205 (256)
T TIGR01500 168 KAARDMLFQVLALEEKN----PNVRVLNY-APGVLDTDMQQQV 205 (256)
T ss_pred HHHHHHHHHHHHHHhcC----CCeEEEEe-cCCcccchHHHHH
Confidence 34555666555555443 24655554 9999999887654
No 99
>PF09290 AcetDehyd-dimer: Prokaryotic acetaldehyde dehydrogenase, dimerisation; InterPro: IPR015426 This C-terminal domain is found in prokaryotic acetaldehyde dehydrogenases, it adopts a structure consisting of an alpha-beta-alpha-beta(3) core, which mediates dimerisation of the protein []. The acetaldehyde dehydrogenase family of bacterial enzymes catalyses the formation of acetyl-CoA from acetaldehyde in the 3-hydroxyphenylpropinoate degradation pathway. It occurs as a late step in the meta-cleavage pathways of a variety of compounds, including catechol, biphenyl, toluene, salicylate [].; GO: 0008774 acetaldehyde dehydrogenase (acetylating) activity, 0019439 aromatic compound catabolic process, 0055114 oxidation-reduction process; PDB: 1NVM_F.
Probab=25.24 E-value=1.2e+02 Score=21.71 Aligned_cols=35 Identities=11% Similarity=0.181 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 19 QHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 19 ~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+...-+++|.+++..+|.+.---...|+||+-.|-
T Consensus 36 gTR~NIDEft~TT~~ai~~vgGa~~~KaIiilNPA 70 (137)
T PF09290_consen 36 GTRANIDEFTETTARAIEQVGGAKRGKAIIILNPA 70 (137)
T ss_dssp HHHTTHHHHHHHHHHHHHHTT--SSEEEEEEEE--
T ss_pred hhhhhHHHHHHHHHHHHHHhcCcccceeEEEecCC
Confidence 45667889999999999998777789999998775
No 100
>PRK05809 3-hydroxybutyryl-CoA dehydratase; Validated
Probab=25.22 E-value=1.1e+02 Score=22.49 Aligned_cols=12 Identities=42% Similarity=0.606 Sum_probs=10.4
Q ss_pred CcccEEEEeCCC
Q psy14162 42 DIVKCVLLASPG 53 (90)
Q Consensus 42 ~~vk~VIIAsPG 53 (90)
+++++|||.|.|
T Consensus 47 ~~v~~vvl~g~g 58 (260)
T PRK05809 47 DNVYAVILTGAG 58 (260)
T ss_pred CCcEEEEEEcCC
Confidence 579999999976
No 101
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=25.21 E-value=1.2e+02 Score=20.21 Aligned_cols=35 Identities=17% Similarity=0.294 Sum_probs=21.3
Q ss_pred cccCcccEEEEeCC---CccHHHHHHHHHHHhcccCCC
Q psy14162 39 VNFDIVKCVLLASP---GFVKDKFFEYMFQVFTSQQAK 73 (90)
Q Consensus 39 vdF~~vk~VIIAsP---GF~Kd~F~kyl~~~a~r~~~k 73 (90)
.+++.-..||++|| |-+.-.+.+|+.+......++
T Consensus 39 ~~~~~yD~vi~gspiy~g~~~~~~~~fi~~~~~~l~~k 76 (143)
T PF12724_consen 39 PDLSDYDAVIFGSPIYAGRIPGEMREFIKKNKDNLKNK 76 (143)
T ss_pred cccccCCEEEEEEEEECCcCCHHHHHHHHHHHHHHcCC
Confidence 45666677888887 455556666766654333333
No 102
>PRK08260 enoyl-CoA hydratase; Provisional
Probab=24.97 E-value=1.1e+02 Score=23.19 Aligned_cols=27 Identities=15% Similarity=0.258 Sum_probs=17.3
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.++++.++|...-.=+++++|||.|.|
T Consensus 32 ~~~~L~~al~~~~~d~~vr~vVltg~g 58 (296)
T PRK08260 32 MARELIEAFDAADADDAVRAVIVTGAG 58 (296)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEEECCC
Confidence 445555555443222579999999987
No 103
>PHA02558 uvsW UvsW helicase; Provisional
Probab=24.91 E-value=63 Score=26.43 Aligned_cols=31 Identities=13% Similarity=0.137 Sum_probs=26.0
Q ss_pred HHHHhccccCcccEEEEeCCCccHHHHHHHH
Q psy14162 33 QGILRHVNFDIVKCVLLASPGFVKDKFFEYM 63 (90)
Q Consensus 33 ~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl 63 (90)
+.+.+=+|+..+.+||+|.|.-.+..+.+++
T Consensus 403 ~~l~eG~Dip~ld~vIl~~p~~s~~~~~Qri 433 (501)
T PHA02558 403 GVFSTGISIKNLHHVIFAHPSKSKIIVLQSI 433 (501)
T ss_pred ceeccccccccccEEEEecCCcchhhhhhhh
Confidence 4566778999999999999998888777776
No 104
>TIGR00241 CoA_E_activ CoA-substrate-specific enzyme activase, putative. This domain may be involved in generating or regenerating the active sites of enzymes related to (R)-2-hydroxyglutaryl-CoA dehydratase and benzoyl-CoA reductase.
Probab=24.85 E-value=2.3e+02 Score=20.68 Aligned_cols=48 Identities=6% Similarity=0.124 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHhccccCccc-EEEEeCCCccHHHHHHHHHHHh
Q psy14162 20 HEKALVRFYDNVMQGILRHVNFDIVK-CVLLASPGFVKDKFFEYMFQVF 67 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~vdF~~vk-~VIIAsPGF~Kd~F~kyl~~~a 67 (90)
.+.-+..+++.+...+.+.+.--.++ .|+++|-++--..+.+++.+..
T Consensus 179 ~~di~~~~~~~va~~i~~~~~~~~~~~~Vvl~GGva~n~~l~~~l~~~l 227 (248)
T TIGR00241 179 KEDILAGVYESIAERVAEMLQRLKIEAPIVFTGGVSKNKGLVKALEKKL 227 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCCEEEECccccCHHHHHHHHHHh
Confidence 45677788888888887766544556 8999998887777777776654
No 105
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=24.52 E-value=2.2e+02 Score=20.96 Aligned_cols=49 Identities=14% Similarity=0.113 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHh
Q psy14162 19 QHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVF 67 (90)
Q Consensus 19 ~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a 67 (90)
.....++.+++++.+.+.+.++=..+..|+|.|-|=-=..+.+|+.+..
T Consensus 170 ~~~~~i~~~~~~i~~~i~~~l~~~~~~~v~LtGG~a~ipgl~e~l~~~l 218 (239)
T TIGR02529 170 EIFPVVKPVYQKMASIVKRHIEGQGVKDLYLVGGACSFSGFADVFEKQL 218 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCEEEEECchhcchhHHHHHHHHh
Confidence 3445667888888888888775556778999997754455566665543
No 106
>TIGR02280 PaaB1 phenylacetate degradation probable enoyl-CoA hydratase paaB. This family of proteins are found within apparent operons for the degradation of phenylacetic acid. These proteins contain the enoyl-CoA hydratase domain as detected by pfam00378. This activity is consistent with current hypotheses for the degradation pathway which involve the ligation of phenylacetate with coenzyme A (paaF), hydroxylation (paaGHIJK), ring-opening (paaN) and degradation of the resulting fatty acid-like compound to a Krebs cycle intermediate (paaABCDE).
Probab=24.36 E-value=1.2e+02 Score=22.38 Aligned_cols=27 Identities=15% Similarity=0.250 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+. +-+.+++|||.|.|
T Consensus 26 ~~~~~l~~~l~~~-~~d~v~~vVltg~g 52 (256)
T TIGR02280 26 EMHLELREALERV-ERDDARALMLTGAG 52 (256)
T ss_pred HHHHHHHHHHHHH-hcCCcEEEEEECCC
Confidence 4566666666553 33449999999988
No 107
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=24.24 E-value=23 Score=23.36 Aligned_cols=39 Identities=15% Similarity=0.082 Sum_probs=23.4
Q ss_pred HHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcccCC
Q psy14162 29 DNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTSQQA 72 (90)
Q Consensus 29 ~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r~~~ 72 (90)
+++++.|.+. -+++||+|.|-.+.+-.+-+.+-+.+.+-
T Consensus 2 ~~~~~~L~~A-----~rP~il~G~g~~~~~a~~~l~~lae~~~~ 40 (137)
T PF00205_consen 2 DEAADLLSSA-----KRPVILAGRGARRSGAAEELRELAEKLGI 40 (137)
T ss_dssp HHHHHHHHH------SSEEEEE-HHHHHTTCHHHHHHHHHHHTS
T ss_pred HHHHHHHHhC-----CCEEEEEcCCcChhhHHHHHHHHHHHHCC
Confidence 4566677765 78999999996544444445444444443
No 108
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=24.22 E-value=2e+02 Score=21.10 Aligned_cols=24 Identities=21% Similarity=0.207 Sum_probs=17.6
Q ss_pred ccEEEEeC-CCccHHHHHHHHHHHh
Q psy14162 44 VKCVLLAS-PGFVKDKFFEYMFQVF 67 (90)
Q Consensus 44 vk~VIIAs-PGF~Kd~F~kyl~~~a 67 (90)
...++|.| ||.-|..+.+.+..+.
T Consensus 38 ~~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 38 MPHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH
Confidence 33456665 8999999998886664
No 109
>PF10100 DUF2338: Uncharacterized protein conserved in bacteria (DUF2338); InterPro: IPR016935 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.07 E-value=1.8e+02 Score=24.44 Aligned_cols=26 Identities=23% Similarity=0.331 Sum_probs=20.9
Q ss_pred cccEEEEeCCCccHHHHHHHHHHHhc
Q psy14162 43 IVKCVLLASPGFVKDKFFEYMFQVFT 68 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F~kyl~~~a~ 68 (90)
.+|+|||-||.|--.-+.+-+.....
T Consensus 110 ~vk~iVLvSPtfGS~~lv~~~l~~~~ 135 (429)
T PF10100_consen 110 RVKSIVLVSPTFGSHLLVKGFLNDLG 135 (429)
T ss_pred hCCEEEEECcccchHHHHHHHHHhcC
Confidence 48999999999998888877655443
No 110
>PLN00135 malate dehydrogenase
Probab=23.97 E-value=2.4e+02 Score=22.05 Aligned_cols=55 Identities=20% Similarity=0.243 Sum_probs=35.1
Q ss_pred CCCcccccc-hhHHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHh
Q psy14162 8 DGKLMWEGD-VKQHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVF 67 (90)
Q Consensus 8 ~~~~~r~~~-~s~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a 67 (90)
.|.|++.+. ..+.=+.--+-|+.+...|.++..|+-+ .|+++-|- |.+-|+..+.
T Consensus 66 AG~~~k~g~sR~dll~~N~~I~~~i~~~i~~~~~p~ai-vivvsNPv----Dv~t~~~~~~ 121 (309)
T PLN00135 66 GGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAPDCK-VLVVANPA----NTNALILKEF 121 (309)
T ss_pred CCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhcCCCeE-EEEeCCcH----HHHHHHHHHH
Confidence 467777652 2233344448999999999997666544 67777664 6666654443
No 111
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=23.92 E-value=93 Score=25.81 Aligned_cols=24 Identities=21% Similarity=0.303 Sum_probs=14.5
Q ss_pred HHHHHHHhccccC-cccEEEEeCCC
Q psy14162 30 NVMQGILRHVNFD-IVKCVLLASPG 53 (90)
Q Consensus 30 ~v~~al~r~vdF~-~vk~VIIAsPG 53 (90)
.|++.|.+...-. .-+.+|+||||
T Consensus 45 ava~~i~~~~~~~~~~~VlVlcG~G 69 (462)
T PLN03049 45 SVASAIAEVYSPSEYRRVLALCGPG 69 (462)
T ss_pred HHHHHHHHhcccccCCEEEEEECCC
Confidence 4455555543211 14688999999
No 112
>PRK05869 enoyl-CoA hydratase; Validated
Probab=23.68 E-value=1.3e+02 Score=21.88 Aligned_cols=26 Identities=19% Similarity=0.152 Sum_probs=16.3
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
++++.+++.+.-+=+++++|||.|.|
T Consensus 36 ~~~l~~~l~~~~~d~~vr~vVltg~g 61 (222)
T PRK05869 36 YREIVAAANELGRRDDVAAVILYGGH 61 (222)
T ss_pred HHHHHHHHHHHhcCCCceEEEEECCC
Confidence 34444444443222679999999987
No 113
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=23.59 E-value=2e+02 Score=18.61 Aligned_cols=35 Identities=17% Similarity=0.035 Sum_probs=21.8
Q ss_pred HHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 29 DNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 29 ~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
++++.+|.+. +.+.||||+-- -++..+-+...+..
T Consensus 22 ~~v~kai~~g----kaklViiA~D~--~~~~~~~i~~~c~~ 56 (99)
T PRK01018 22 KRTIKAIKLG----KAKLVIVASNC--PKDIKEDIEYYAKL 56 (99)
T ss_pred HHHHHHHHcC----CceEEEEeCCC--CHHHHHHHHHHHHH
Confidence 4566777764 69999999872 44444444444433
No 114
>KOG2595|consensus
Probab=23.53 E-value=59 Score=26.97 Aligned_cols=44 Identities=18% Similarity=0.388 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHH
Q psy14162 20 HEKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMF 64 (90)
Q Consensus 20 ~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~ 64 (90)
-.|+.+.+-.++...+.+ .|++.++-+=+++=||+-|+|++-+-
T Consensus 28 Krk~ieq~~~~~~~~~~~-~dv~~Lr~i~l~p~Glv~dslRk~vW 71 (395)
T KOG2595|consen 28 KRKAIEQLIKKISKLLLK-KDVDALRYIGLSPGGLVNDSLRKDVW 71 (395)
T ss_pred hhHHHHHHHHHHHhhhhh-ccHHHHHHhccCCCccccHHHHHHHH
Confidence 457777888888887765 57788999999999999999999763
No 115
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=23.43 E-value=92 Score=23.05 Aligned_cols=20 Identities=25% Similarity=0.301 Sum_probs=14.1
Q ss_pred CcccEEEEeCCCccHHHHHHH
Q psy14162 42 DIVKCVLLASPGFVKDKFFEY 62 (90)
Q Consensus 42 ~~vk~VIIAsPGF~Kd~F~ky 62 (90)
...++|-|||| |.+.+-.++
T Consensus 2 ~~~~~IYLAGP-~F~~~~i~~ 21 (172)
T COG3613 2 SKKKKIYLAGP-VFRPDEIEL 21 (172)
T ss_pred CCcceEEEecC-cCCHHHHHH
Confidence 46789999999 555544444
No 116
>PRK11423 methylmalonyl-CoA decarboxylase; Provisional
Probab=23.42 E-value=1.3e+02 Score=22.46 Aligned_cols=26 Identities=23% Similarity=0.422 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASP 52 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsP 52 (90)
.+++++.+++.+.-+ +.+++|||.|.
T Consensus 31 ~~~~~l~~al~~~~~-d~v~~vvltg~ 56 (261)
T PRK11423 31 VLIDDLMQALSDLNR-PEIRVVILRAP 56 (261)
T ss_pred HHHHHHHHHHHHHhc-CCceEEEEECC
Confidence 455666666655332 34999999975
No 117
>PLN02888 enoyl-CoA hydratase
Probab=23.37 E-value=1.2e+02 Score=22.59 Aligned_cols=27 Identities=22% Similarity=0.290 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 38 ~~~~l~~al~~~~~d~~vr~vVltg~g 64 (265)
T PLN02888 38 MMVELAAAFKRLDEDDSVKVIILTGSG 64 (265)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEECCC
Confidence 444444444433222568999999988
No 118
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=23.30 E-value=18 Score=21.83 Aligned_cols=10 Identities=40% Similarity=0.800 Sum_probs=7.9
Q ss_pred EEEEeCCCcc
Q psy14162 46 CVLLASPGFV 55 (90)
Q Consensus 46 ~VIIAsPGF~ 55 (90)
..||+||.|.
T Consensus 50 ~aiL~SP~FL 59 (64)
T PF07637_consen 50 QAILCSPSFL 59 (64)
T ss_pred HHHHcCcchh
Confidence 4578999985
No 119
>PRK08140 enoyl-CoA hydratase; Provisional
Probab=22.94 E-value=1.4e+02 Score=22.04 Aligned_cols=27 Identities=15% Similarity=0.197 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++.+.- =+++++|||.|.|
T Consensus 31 ~~~~~l~~~~~~~~-d~~v~~vVl~g~g 57 (262)
T PRK08140 31 EMHRELREALDQVE-DDGARALLLTGAG 57 (262)
T ss_pred HHHHHHHHHHHHhc-CCCceEEEEECCC
Confidence 45666666666532 2469999999988
No 120
>PF01210 NAD_Gly3P_dh_N: NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; InterPro: IPR011128 NAD-dependent glycerol-3-phosphate dehydrogenase (GPDH) catalyses the interconversion of dihydroxyacetone phosphate and L-glycerol-3-phosphate. This family represents the N-terminal NAD-binding domain [].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0046168 glycerol-3-phosphate catabolic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1YJ8_B 2PLA_A 1WPQ_B 1X0V_A 1X0X_A 1BG6_A 1TXG_B 1N1G_A 1M67_A 1JDJ_A ....
Probab=22.88 E-value=47 Score=22.71 Aligned_cols=39 Identities=13% Similarity=0.155 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCCc---cHHHHHHHHHHH
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPGF---VKDKFFEYMFQV 66 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPGF---~Kd~F~kyl~~~ 66 (90)
.+++.+++.|..++ ..-..||+++.|| +..-+.+++.+.
T Consensus 80 ~~~~~~~~~l~~~l--~~~~~ii~~~KG~~~~~~~~~~~~i~~~ 121 (157)
T PF01210_consen 80 QAHREVLEQLAPYL--KKGQIIISATKGFEPGTLLLLSEVIEEI 121 (157)
T ss_dssp GGHHHHHHHHTTTS--HTT-EEEETS-SEETTEEEEHHHHHHHH
T ss_pred HHHHHHHHHHhhcc--CCCCEEEEecCCcccCCCccHHHHHHHH
Confidence 45666666666665 3445666666676 333344444443
No 121
>PRK08258 enoyl-CoA hydratase; Provisional
Probab=22.86 E-value=1.4e+02 Score=22.43 Aligned_cols=27 Identities=30% Similarity=0.302 Sum_probs=17.1
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.++++.+++.+.-.=+++++|||.|.|
T Consensus 45 ~~~eL~~~l~~~~~d~~vr~vVltg~g 71 (277)
T PRK08258 45 SYAELRDLFRELVYADDVKAVVLTGAG 71 (277)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEeCCC
Confidence 444555555443212579999999987
No 122
>PRK07714 hypothetical protein; Provisional
Probab=22.82 E-value=2.2e+02 Score=18.30 Aligned_cols=22 Identities=23% Similarity=0.235 Sum_probs=16.7
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++|.++|.+- .++.||+|+-.
T Consensus 23 ~~~v~~al~~g----~~~lViiA~D~ 44 (100)
T PRK07714 23 EELVLKEVRSG----KAKLVLLSEDA 44 (100)
T ss_pred HHHHHHHHHhC----CceEEEEeCCC
Confidence 35677788774 68999999865
No 123
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=22.81 E-value=2.2e+02 Score=18.80 Aligned_cols=33 Identities=9% Similarity=0.139 Sum_probs=22.0
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHH
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQV 66 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~ 66 (90)
|++|.++|.+. .++.||+|+-. .++-.+-+...
T Consensus 22 ~~~v~~aik~g----k~~lVI~A~D~--s~~~kkki~~~ 54 (104)
T PRK05583 22 YNKCEEAIKKK----KVYLIIISNDI--SENSKNKFKNY 54 (104)
T ss_pred HHHHHHHHHcC----CceEEEEeCCC--CHhHHHHHHHH
Confidence 35677787774 69999999887 44444444443
No 124
>PRK08272 enoyl-CoA hydratase; Provisional
Probab=22.70 E-value=1.3e+02 Score=22.93 Aligned_cols=26 Identities=15% Similarity=0.055 Sum_probs=16.3
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
++++.+++...-+=+++++|||.|.|
T Consensus 39 ~~eL~~al~~~~~d~~vrvvVl~G~G 64 (302)
T PRK08272 39 PLELRAAVERADLDPGVHVILVSGAG 64 (302)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEcCC
Confidence 44444444443222569999999987
No 125
>PRK06688 enoyl-CoA hydratase; Provisional
Probab=22.66 E-value=1.4e+02 Score=21.91 Aligned_cols=27 Identities=19% Similarity=0.358 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 33 ~~~~l~~~l~~~~~d~~v~~vVl~g~g 59 (259)
T PRK06688 33 MYQALADALEAAATDPAVRVVVLTGAG 59 (259)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 344455555443222569999999877
No 126
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=22.60 E-value=26 Score=27.27 Aligned_cols=27 Identities=19% Similarity=0.439 Sum_probs=21.9
Q ss_pred cccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 43 IVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
++-.++|..||.-|..+++|+.+.+++
T Consensus 57 ~ihiLlvGdpg~gKS~ll~~~~~~~pr 83 (331)
T PF00493_consen 57 NIHILLVGDPGTGKSQLLKYVAKLAPR 83 (331)
T ss_dssp S--EEEECSCHHCHHHHHHCCCCT-SS
T ss_pred ccceeeccchhhhHHHHHHHHHhhCCc
Confidence 467899999999999999999888877
No 127
>PRK08139 enoyl-CoA hydratase; Validated
Probab=22.60 E-value=1.3e+02 Score=22.36 Aligned_cols=26 Identities=19% Similarity=0.194 Sum_probs=15.6
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
++++.+++.+.-+=+++++|||.|.|
T Consensus 40 ~~~l~~~l~~~~~d~~vr~vVltg~g 65 (266)
T PRK08139 40 LAALQAALDAIAADPSVRVVVLAAAG 65 (266)
T ss_pred HHHHHHHHHHHhcCCCeeEEEEecCC
Confidence 33444444332212569999999988
No 128
>PRK05674 gamma-carboxygeranoyl-CoA hydratase; Validated
Probab=22.59 E-value=1.4e+02 Score=22.29 Aligned_cols=27 Identities=11% Similarity=0.185 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++...-.=+++++|||.|.|
T Consensus 34 ~~~el~~al~~~~~d~~vr~vVl~g~g 60 (265)
T PRK05674 34 MIRELILALDQVQSDASLRFLLLRGRG 60 (265)
T ss_pred HHHHHHHHHHHHhcCCCeeEEEEECCC
Confidence 444555555443222569999999887
No 129
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=22.54 E-value=1.3e+02 Score=17.39 Aligned_cols=28 Identities=7% Similarity=0.249 Sum_probs=21.1
Q ss_pred HHHhccccCcccEEEEeCCCccHHHHHH
Q psy14162 34 GILRHVNFDIVKCVLLASPGFVKDKFFE 61 (90)
Q Consensus 34 al~r~vdF~~vk~VIIAsPGF~Kd~F~k 61 (90)
.+..=+|+..+..||+.+|-+...++.+
T Consensus 42 ~~~~Gid~~~~~~vi~~~~~~~~~~~~Q 69 (78)
T PF00271_consen 42 ILGEGIDLPDASHVIFYDPPWSPEEYIQ 69 (78)
T ss_dssp GGTTSSTSTTESEEEESSSESSHHHHHH
T ss_pred cccccccccccccccccccCCCHHHHHH
Confidence 3456678888999999999777766544
No 130
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=22.47 E-value=1.1e+02 Score=21.28 Aligned_cols=25 Identities=20% Similarity=0.393 Sum_probs=18.8
Q ss_pred ccEEEEeCC-CccHHHHHHHHHHHhc
Q psy14162 44 VKCVLLASP-GFVKDKFFEYMFQVFT 68 (90)
Q Consensus 44 vk~VIIAsP-GF~Kd~F~kyl~~~a~ 68 (90)
.+.|||.|| |==|+...+.|.++.+
T Consensus 2 ~r~ivl~Gpsg~GK~tl~~~L~~~~~ 27 (184)
T smart00072 2 RRPIVLSGPSGVGKGTLLAELIQEIP 27 (184)
T ss_pred CcEEEEECCCCCCHHHHHHHHHhcCC
Confidence 357888887 4459999999988754
No 131
>PLN03050 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=22.47 E-value=1.1e+02 Score=23.11 Aligned_cols=10 Identities=30% Similarity=0.786 Sum_probs=8.6
Q ss_pred ccEEEEeCCC
Q psy14162 44 VKCVLLASPG 53 (90)
Q Consensus 44 vk~VIIAsPG 53 (90)
-+.+|+||||
T Consensus 61 ~~V~VlcG~G 70 (246)
T PLN03050 61 PRVLLVCGPG 70 (246)
T ss_pred CeEEEEECCC
Confidence 4688999999
No 132
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=22.33 E-value=89 Score=22.05 Aligned_cols=26 Identities=8% Similarity=0.259 Sum_probs=16.8
Q ss_pred CcccEEEEeCC---CccHHHHHHHHHHHh
Q psy14162 42 DIVKCVLLASP---GFVKDKFFEYMFQVF 67 (90)
Q Consensus 42 ~~vk~VIIAsP---GF~Kd~F~kyl~~~a 67 (90)
..-..|||+|| |-.-..+.+|+....
T Consensus 45 ~~yD~vIlGspi~~G~~~~~~~~fl~~~~ 73 (177)
T PRK11104 45 SDYDRVVIGASIRYGHFHSALYKFVKKHA 73 (177)
T ss_pred HHCCEEEEECccccCCcCHHHHHHHHHHH
Confidence 34577888888 455566666665543
No 133
>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional
Probab=22.17 E-value=1.3e+02 Score=22.71 Aligned_cols=28 Identities=18% Similarity=0.132 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 26 RFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.+++++.+++...-+=+++++|||.|.|
T Consensus 38 ~~~~eL~~al~~~~~d~~vr~vVltg~g 65 (278)
T PLN03214 38 AMWRSLDDALTALENDPTVRGVVFASGL 65 (278)
T ss_pred HHHHHHHHHHHHHHcCCCceEEEEeCCC
Confidence 3455555555443322569999999965
No 134
>PRK07509 enoyl-CoA hydratase; Provisional
Probab=22.06 E-value=1.4e+02 Score=21.98 Aligned_cols=27 Identities=19% Similarity=0.395 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-.=+++++|||.|.|
T Consensus 31 ~~~~l~~al~~~~~d~~vr~vvl~g~g 57 (262)
T PRK07509 31 MFEELIATIKRLKKDRGIRAVILSGEG 57 (262)
T ss_pred HHHHHHHHHHHHhhCCCCeEEEEECCC
Confidence 344444444432222569999999877
No 135
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=21.73 E-value=1.4e+02 Score=18.48 Aligned_cols=22 Identities=23% Similarity=0.315 Sum_probs=16.7
Q ss_pred HHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 28 YDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 28 f~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
++++..+|.+. ..+.||||+.-
T Consensus 20 ~~~v~k~l~~~----~~~lvilA~d~ 41 (95)
T PF01248_consen 20 IKEVLKALKKG----KAKLVILAEDC 41 (95)
T ss_dssp HHHHHHHHHTT----CESEEEEETTS
T ss_pred hHHHHHHHHcC----CCcEEEEcCCC
Confidence 34566777774 79999999876
No 136
>PRK05862 enoyl-CoA hydratase; Provisional
Probab=21.72 E-value=1.4e+02 Score=21.96 Aligned_cols=27 Identities=4% Similarity=0.103 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-+=+++++|||.|.|
T Consensus 32 ~~~~l~~~l~~~~~d~~vr~vvl~g~g 58 (257)
T PRK05862 32 LMDELGAALAAFDADEGIGAIVITGSE 58 (257)
T ss_pred HHHHHHHHHHHHhhCCCeeEEEEECCC
Confidence 444455555443222579999999987
No 137
>PRK08321 naphthoate synthase; Validated
Probab=21.68 E-value=1.4e+02 Score=22.85 Aligned_cols=27 Identities=26% Similarity=0.309 Sum_probs=16.5
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++...-+=+++++|||.|-|
T Consensus 53 ~~~~l~~al~~~~~d~~vrvvVltg~g 79 (302)
T PRK08321 53 TVDELYRALDHARMSPDVGCVLLTGNG 79 (302)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEEeCCC
Confidence 444444554443222579999999865
No 138
>COG1084 Predicted GTPase [General function prediction only]
Probab=21.61 E-value=1.3e+02 Score=24.68 Aligned_cols=44 Identities=9% Similarity=0.088 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhccccC-cccEEEEeCCC-ccHHHHHHHHHHHhcc
Q psy14162 26 RFYDNVMQGILRHVNFD-IVKCVLLASPG-FVKDKFFEYMFQVFTS 69 (90)
Q Consensus 26 kFf~~v~~al~r~vdF~-~vk~VIIAsPG-F~Kd~F~kyl~~~a~r 69 (90)
.|.+++-+.|.+.=..+ ++.+|||||+= -=|..|.+-+-..-+.
T Consensus 149 ~fL~~~r~~l~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~AkpE 194 (346)
T COG1084 149 EFLRKARDHLKKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAKPE 194 (346)
T ss_pred HHHHHHHHHHhcCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCCCc
Confidence 68888888888877777 79999999964 3488888877655554
No 139
>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]
Probab=21.53 E-value=1.9e+02 Score=22.91 Aligned_cols=43 Identities=19% Similarity=0.269 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHhccccCcccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 21 EKALVRFYDNVMQGILRHVNFDIVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 21 dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
+--+.+||+.+- ++.. ..+..|.|--||++|+..++++++...
T Consensus 70 ~VPl~kf~d~lK-~lke-----~~~l~inaHvGfvdE~~~eklk~~~vd 112 (275)
T COG1856 70 KVPLWKFKDELK-ALKE-----RTGLLINAHVGFVDESDLEKLKEELVD 112 (275)
T ss_pred CccHHHHHHHHH-HHHH-----hhCeEEEEEeeeccHHHHHHHHHhcCc
Confidence 345678886543 3333 367889999999999999999886544
No 140
>PRK09260 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=21.37 E-value=1.4e+02 Score=22.24 Aligned_cols=25 Identities=20% Similarity=0.301 Sum_probs=18.8
Q ss_pred cEEEEeC-CCccHHHHHHHHHHHhcc
Q psy14162 45 KCVLLAS-PGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 45 k~VIIAs-PGF~Kd~F~kyl~~~a~r 69 (90)
.++++.. |||+.+.++--+..++.+
T Consensus 176 ~~v~v~d~~Gf~~nRl~~~~~~ea~~ 201 (288)
T PRK09260 176 ETVVVNEFPGFVTSRISALVGNEAFY 201 (288)
T ss_pred eEEEecCcccHHHHHHHHHHHHHHHH
Confidence 3555555 999999998877777665
No 141
>PRK08259 enoyl-CoA hydratase; Provisional
Probab=21.24 E-value=1.5e+02 Score=21.88 Aligned_cols=27 Identities=11% Similarity=0.022 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++...-.=+++++|||.|.|
T Consensus 31 ~~~~l~~~l~~~~~d~~vr~vvltg~g 57 (254)
T PRK08259 31 TAAALADAFRAFDADDAASVAVLWGAG 57 (254)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 344444444432222579999999987
No 142
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=20.92 E-value=95 Score=25.58 Aligned_cols=22 Identities=27% Similarity=0.626 Sum_probs=17.2
Q ss_pred HHHHHHHHhccccCcccEEEEeCCCcc
Q psy14162 29 DNVMQGILRHVNFDIVKCVLLASPGFV 55 (90)
Q Consensus 29 ~~v~~al~r~vdF~~vk~VIIAsPGF~ 55 (90)
.+|++.|... +..|-++||||+
T Consensus 58 ~~ia~~i~~~-----i~~v~~~~~gfi 79 (507)
T PRK01611 58 REIAEEIVEA-----IEKVEIAGPGFI 79 (507)
T ss_pred HHHHHHHHhh-----eeEEEEeCCCEE
Confidence 5677777775 577889999976
No 143
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=20.91 E-value=2.1e+02 Score=19.06 Aligned_cols=9 Identities=22% Similarity=0.139 Sum_probs=3.4
Q ss_pred EEEeCCCcc
Q psy14162 47 VLLASPGFV 55 (90)
Q Consensus 47 VIIAsPGF~ 55 (90)
|.|++|=|.
T Consensus 37 I~i~~~~~~ 45 (176)
T cd00138 37 IYIASFYLS 45 (176)
T ss_pred EEEEEeEec
Confidence 333333333
No 144
>PF07224 Chlorophyllase: Chlorophyllase; InterPro: IPR010821 This family consists of several chlorophyllase proteins (3.1.1.14 from EC). Chlorophyllase (Chlase) is the first enzyme involved in chlorophyll degradation and catalyses the hydrolysis of the ester bond to yield chlorophyllide and phytol [, , ].; GO: 0047746 chlorophyllase activity, 0015996 chlorophyll catabolic process
Probab=20.89 E-value=1.1e+02 Score=24.69 Aligned_cols=20 Identities=25% Similarity=0.541 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhccccCcccEEEEe
Q psy14162 25 VRFYDNVMQGILRHVNFDIVKCVLLA 50 (90)
Q Consensus 25 ~kFf~~v~~al~r~vdF~~vk~VIIA 50 (90)
++||.++++.|..| .+||||
T Consensus 59 ns~Ys~lL~HIASH------GfIVVA 78 (307)
T PF07224_consen 59 NSFYSQLLAHIASH------GFIVVA 78 (307)
T ss_pred hHHHHHHHHHHhhc------CeEEEe
Confidence 69999999999988 467765
No 145
>PRK10753 transcriptional regulator HU subunit alpha; Provisional
Probab=20.80 E-value=2.2e+02 Score=18.02 Aligned_cols=31 Identities=19% Similarity=0.185 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 17 VKQHEKALVRFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 17 ~s~~dKal~kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
..+-+..++.|++.|.++|.+. ..|-|.|-|
T Consensus 18 ~~~~~~~v~~~~~~i~~~L~~g------~~V~i~gfG 48 (90)
T PRK10753 18 KTQAKAALESTLAAITESLKEG------DAVQLVGFG 48 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHcC------CeEEEcCCE
Confidence 3456788889999999999875 357777777
No 146
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=20.71 E-value=92 Score=27.49 Aligned_cols=27 Identities=19% Similarity=0.469 Sum_probs=24.2
Q ss_pred cccEEEEeCCCccHHHHHHHHHHHhcc
Q psy14162 43 IVKCVLLASPGFVKDKFFEYMFQVFTS 69 (90)
Q Consensus 43 ~vk~VIIAsPGF~Kd~F~kyl~~~a~r 69 (90)
++-.+++.=||-.|.+|++|+...+|+
T Consensus 319 DInILLvGDPgtaKSqlLk~v~~~aPr 345 (682)
T COG1241 319 DIHILLVGDPGTAKSQLLKYVAKLAPR 345 (682)
T ss_pred ceeEEEcCCCchhHHHHHHHHHhhCCc
Confidence 366788888999999999999999998
No 147
>PRK03580 carnitinyl-CoA dehydratase; Provisional
Probab=20.55 E-value=1.4e+02 Score=22.05 Aligned_cols=27 Identities=7% Similarity=0.042 Sum_probs=15.4
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
+++++.+++.+.-.=+++++|||.|.|
T Consensus 30 ~~~~l~~~l~~~~~d~~vr~vvl~g~g 56 (261)
T PRK03580 30 TSFAMGEVFLNFRDDPELRVAIITGAG 56 (261)
T ss_pred HHHHHHHHHHHHHhCCCcEEEEEEeCC
Confidence 344444444332212568999998865
No 148
>TIGR00197 yjeF_nterm yjeF N-terminal region. This model is built on yeast protein YNL200C and the N-terminal regions of E. coli yjeF and its orthologs in various species. The C-terminal region of yjeF and its orthologs shows similarity to hydroxyethylthiazole kinase (thiM) and other enzymes involved in thiamine biosynthesis. Yeast YKL151C and B. subtilis yxkO match the yjeF C-terminal domain but lack this region.
Probab=20.48 E-value=2e+02 Score=20.84 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 24 LVRFYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 24 l~kFf~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
||+==..+++.+.+... +.-+.+|+||||
T Consensus 27 ME~Ag~~va~~i~~~~~-~~~~v~vl~G~G 55 (205)
T TIGR00197 27 MENAGKAVAQAVLQAFP-LAGHVIIFCGPG 55 (205)
T ss_pred HHHHHHHHHHHHHHHcC-CCCeEEEEECCC
Confidence 44333445555555432 235688999998
No 149
>PRK06210 enoyl-CoA hydratase; Provisional
Probab=20.33 E-value=1.7e+02 Score=21.73 Aligned_cols=12 Identities=25% Similarity=0.595 Sum_probs=10.5
Q ss_pred CcccEEEEeCCC
Q psy14162 42 DIVKCVLLASPG 53 (90)
Q Consensus 42 ~~vk~VIIAsPG 53 (90)
+++++|||.|.|
T Consensus 49 ~~vr~vVl~g~g 60 (272)
T PRK06210 49 PAVRVIVLTGAG 60 (272)
T ss_pred CCeeEEEEECCC
Confidence 569999999987
No 150
>PRK07468 enoyl-CoA hydratase; Provisional
Probab=20.30 E-value=1.6e+02 Score=21.75 Aligned_cols=27 Identities=19% Similarity=0.254 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhccccCcccEEEEeCCC
Q psy14162 27 FYDNVMQGILRHVNFDIVKCVLLASPG 53 (90)
Q Consensus 27 Ff~~v~~al~r~vdF~~vk~VIIAsPG 53 (90)
.++++.+++...-.=+++++|||.|.|
T Consensus 33 ~~~~l~~~l~~~~~d~~v~~vVl~g~g 59 (262)
T PRK07468 33 MIAELTTAARRLAADAAVRVVVLTGAG 59 (262)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEEECCC
Confidence 444454444432211568999999987
No 151
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=20.11 E-value=61 Score=18.52 Aligned_cols=24 Identities=17% Similarity=0.119 Sum_probs=18.7
Q ss_pred CCccHHHHHHHHHHHhcccCCCCc
Q psy14162 52 PGFVKDKFFEYMFQVFTSQQAKSP 75 (90)
Q Consensus 52 PGF~Kd~F~kyl~~~a~r~~~k~l 75 (90)
|+|++.-..+-+...|...+...|
T Consensus 13 P~fvR~~~r~~~E~~Ar~~G~~~I 36 (45)
T PF08369_consen 13 PFFVRKKLRDAAEKYARERGYDEI 36 (45)
T ss_dssp -HHHHHHHHHHHHHHHHHCT-SEE
T ss_pred CHHHHHHHHHHHHHHHHHcCCCeE
Confidence 999999888888888888877665
No 152
>PRK09120 p-hydroxycinnamoyl CoA hydratase/lyase; Validated
Probab=20.06 E-value=1.5e+02 Score=22.22 Aligned_cols=12 Identities=25% Similarity=0.429 Sum_probs=10.8
Q ss_pred CcccEEEEeCCC
Q psy14162 42 DIVKCVLLASPG 53 (90)
Q Consensus 42 ~~vk~VIIAsPG 53 (90)
+++++|||.|.|
T Consensus 51 ~~vr~vVl~g~g 62 (275)
T PRK09120 51 DDAGVLVLTGAG 62 (275)
T ss_pred CCceEEEEEcCC
Confidence 579999999988
No 153
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=20.06 E-value=1.3e+02 Score=18.79 Aligned_cols=21 Identities=19% Similarity=0.393 Sum_probs=9.5
Q ss_pred cEEEEeCCCccHHHHHHHHHH
Q psy14162 45 KCVLLASPGFVKDKFFEYMFQ 65 (90)
Q Consensus 45 k~VIIAsPGF~Kd~F~kyl~~ 65 (90)
+.|.|++|-|...++.+-|..
T Consensus 10 ~~i~i~~~~~~~~~i~~~l~~ 30 (126)
T PF13091_consen 10 KSIWIASPYITDPDIIKALLD 30 (126)
T ss_dssp SEEEEEESSS-SCHHHHHHHH
T ss_pred CEEEEEEEecCcHHHHHHHHH
Confidence 345555555544444444433
No 154
>PF01831 Peptidase_C16: Peptidase C16 family; InterPro: IPR002705 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This entry contains coronavirus cysteine endopeptidases that belong to MEROPS peptidase families C30 (clan PA) and C16 (subfamiles C16A and C16B, clan CA). These peptidase are involved in viral polyprotein processing. All coronaviruses encodes between one and two accessory cysteine proteinases that recognise and process one or two sites in the amino-terminal half of the replicase polyprotein during assembly of the viral replication complex. MHV, HCoV and TGEV encode two accesssory proteinases, called coronavirus papain-like proteinase 1 and 2 (PL1-PRO and PL2-PRO). IBV and SARS encodes only one called PL-PRO []. Coronavirus papain-like proteinases 1 and 2 have restricted specificities, cleaving respectively two and one bond(s)in the polyprotein. This restricted activity may be due to extended specificity sites: Arg or Lys at the cleavage site position P5 are required for PL1-PRO [], and Phe at the cleavage site position P6 is required for PL2-PRO []. PL1-PRO releases p28 and p65 from the N terminus of the polyprotein; PL2-PRO cleaves between p210 and p150. ; GO: 0003968 RNA-directed RNA polymerase activity, 0008234 cysteine-type peptidase activity, 0006508 proteolysis
Probab=20.05 E-value=64 Score=24.91 Aligned_cols=25 Identities=16% Similarity=0.316 Sum_probs=18.8
Q ss_pred HHHHHhccccCcccEEEEeCCCccHHHHH
Q psy14162 32 MQGILRHVNFDIVKCVLLASPGFVKDKFF 60 (90)
Q Consensus 32 ~~al~r~vdF~~vk~VIIAsPGF~Kd~F~ 60 (90)
++.++.-+ .+.||+-+||+++|--+
T Consensus 75 VD~lv~~I----p~~IV~pqgGyVADfay 99 (249)
T PF01831_consen 75 VDKLVIGI----PKNIVDPQGGYVADFAY 99 (249)
T ss_pred HHHHHhhC----cHheEcCCCCEEeeeHH
Confidence 56666654 78999999999987433
Done!