Query 034414
Match_columns 95
No_of_seqs 101 out of 1004
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 02:36:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034414.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034414hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02739 5_3_exonuc_N: 5'-3' e 100.0 2E-36 4.4E-41 215.1 5.0 86 2-87 64-152 (169)
2 PRK09482 flap endonuclease-lik 100.0 5.9E-34 1.3E-38 214.3 9.4 87 2-88 62-149 (256)
3 smart00475 53EXOc 5'-3' exonuc 100.0 3.1E-32 6.6E-37 204.7 9.9 89 1-89 61-150 (259)
4 PRK14976 5'-3' exonuclease; Pr 100.0 4.6E-32 1E-36 205.7 10.5 90 1-90 67-157 (281)
5 PHA02567 rnh RnaseH; Provision 100.0 1.1E-31 2.4E-36 205.9 9.3 89 1-89 76-174 (304)
6 cd00008 53EXOc 5'-3' exonuclea 100.0 5.4E-31 1.2E-35 195.3 10.1 88 1-88 62-150 (240)
7 PHA00439 exonuclease 100.0 8.7E-30 1.9E-34 194.2 8.7 83 1-85 75-159 (286)
8 TIGR00593 pola DNA polymerase 100.0 2.3E-29 4.9E-34 213.6 9.0 89 1-89 61-150 (887)
9 PRK05755 DNA polymerase I; Pro 100.0 4.3E-28 9.3E-33 205.0 10.4 88 1-88 63-151 (880)
10 COG0258 Exo 5'-3' exonuclease 99.9 8.7E-25 1.9E-29 166.6 7.2 91 1-91 72-164 (310)
11 PTZ00217 flap endonuclease-1; 99.3 1.5E-12 3.3E-17 103.0 4.8 80 2-87 93-196 (393)
12 PRK03980 flap endonuclease-1; 99.2 7.9E-12 1.7E-16 95.7 3.8 75 2-82 38-137 (292)
13 TIGR03674 fen_arch flap struct 99.2 1.9E-11 4.2E-16 94.9 4.6 81 2-88 85-189 (338)
14 cd00128 XPG Xeroderma pigmento 99.1 3.4E-11 7.4E-16 91.9 3.3 76 4-84 92-184 (316)
15 PF12813 XPG_I_2: XPG domain c 97.4 0.00031 6.7E-09 52.7 4.6 43 27-75 7-52 (246)
16 TIGR00600 rad2 DNA excision re 95.9 0.018 3.8E-07 51.2 5.9 46 25-75 773-818 (1034)
17 PF05991 NYN_YacP: YacP-like N 95.8 0.0088 1.9E-07 42.3 2.8 50 37-86 67-119 (166)
18 cd06167 LabA_like LabA_like pr 95.1 0.055 1.2E-06 36.3 4.9 54 26-79 54-117 (149)
19 PF01936 NYN: NYN domain; Int 94.8 0.055 1.2E-06 35.7 4.1 54 26-79 49-113 (146)
20 TIGR00288 conserved hypothetic 93.3 0.26 5.6E-06 35.2 5.3 57 29-86 71-134 (160)
21 cd00431 cysteine_hydrolases Cy 91.5 0.47 1E-05 32.0 4.6 43 28-70 100-142 (161)
22 PF00867 XPG_I: XPG I-region; 91.4 0.2 4.3E-06 32.0 2.6 36 35-75 2-37 (94)
23 cd01015 CSHase N-carbamoylsarc 91.3 0.53 1.1E-05 32.9 4.9 43 28-70 104-146 (179)
24 COG1412 Uncharacterized protei 91.2 0.6 1.3E-05 32.5 4.9 49 35-88 74-124 (136)
25 cd01012 YcaC_related YcaC rela 90.8 0.62 1.3E-05 31.9 4.7 43 28-70 78-120 (157)
26 PRK11440 putative hydrolase; P 90.4 0.75 1.6E-05 32.3 4.9 43 28-70 111-153 (188)
27 TIGR00028 Mtu_PIN_fam Mycobact 90.1 0.39 8.5E-06 31.3 3.2 36 47-89 105-141 (142)
28 cd01013 isochorismatase Isocho 89.8 0.66 1.4E-05 33.3 4.4 43 28-70 132-174 (203)
29 TIGR03614 RutB pyrimidine util 89.7 0.85 1.8E-05 33.2 4.9 43 28-70 141-183 (226)
30 cd01014 nicotinamidase_related 89.0 1 2.3E-05 30.7 4.7 44 27-70 88-131 (155)
31 smart00484 XPGI Xeroderma pigm 88.5 2.7 5.8E-05 26.1 5.9 42 35-81 2-44 (73)
32 PLN02621 nicotinamidase 88.4 1.1 2.5E-05 31.9 4.7 43 28-70 117-159 (197)
33 PF00857 Isochorismatase: Isoc 87.8 0.94 2E-05 30.8 3.9 43 28-70 102-144 (174)
34 COG1335 PncA Amidases related 87.1 1.7 3.7E-05 30.5 5.0 43 28-70 123-165 (205)
35 PF04900 Fcf1: Fcf1; InterPro 86.9 0.42 9.1E-06 30.8 1.6 42 45-90 50-94 (101)
36 cd01011 nicotinamidase Nicotin 85.5 1.9 4.1E-05 30.7 4.5 44 27-70 127-170 (196)
37 PRK11609 nicotinamidase/pyrazi 85.2 1.9 4.2E-05 30.8 4.5 43 28-70 132-174 (212)
38 PTZ00331 alpha/beta hydrolase; 83.9 2.4 5.1E-05 30.7 4.5 44 27-70 135-178 (212)
39 COG2266 GTP:adenosylcobinamide 78.6 5.6 0.00012 29.0 4.8 44 26-74 52-97 (177)
40 TIGR00305 probable toxin-antit 77.4 2.5 5.4E-05 27.3 2.5 27 45-75 85-111 (114)
41 PF01927 Mut7-C: Mut7-C RNAse 76.8 5.5 0.00012 27.4 4.2 48 26-79 9-57 (147)
42 smart00670 PINc Large family o 72.1 3.7 8.1E-05 25.5 2.3 24 48-75 86-109 (111)
43 PF01875 Memo: Memo-like prote 70.6 7.1 0.00015 29.5 3.9 51 21-72 123-179 (276)
44 KOG1159 NADP-dependent flavopr 66.7 14 0.0003 31.2 5.0 49 46-94 12-63 (574)
45 TIGR02667 moaB_proteo molybden 66.5 25 0.00054 24.5 5.7 50 26-75 24-80 (163)
46 cd06578 HemD Uroporphyrinogen- 66.0 21 0.00046 24.8 5.3 50 29-79 88-142 (239)
47 COG3959 Transketolase, N-termi 64.5 17 0.00036 27.8 4.7 42 28-69 196-237 (243)
48 cd03283 ABC_MutS-like MutS-lik 64.4 43 0.00093 23.8 6.7 62 26-87 91-165 (199)
49 PF13638 PIN_4: PIN domain; PD 63.3 3.5 7.6E-05 26.9 0.8 40 46-85 87-130 (133)
50 KOG4700 Uncharacterized homolo 62.8 11 0.00023 28.0 3.4 40 49-93 44-86 (207)
51 PF00456 Transketolase_N: Tran 62.8 21 0.00045 28.0 5.2 43 27-69 196-239 (332)
52 PF10673 DUF2487: Protein of u 61.9 21 0.00046 25.0 4.6 27 50-76 71-98 (142)
53 COG1015 DeoB Phosphopentomutas 61.5 26 0.00057 28.5 5.6 68 9-82 102-170 (397)
54 TIGR00177 molyb_syn molybdenum 61.3 39 0.00084 22.8 5.8 52 26-79 29-89 (144)
55 PLN02743 nicotinamidase 60.3 14 0.0003 27.6 3.7 42 29-70 142-191 (239)
56 smart00115 CASc Caspase, inter 59.7 49 0.0011 24.3 6.5 35 26-60 32-66 (241)
57 cd02012 TPP_TK Thiamine pyroph 59.6 34 0.00074 25.2 5.7 49 27-75 181-230 (255)
58 KOG3165 Predicted nucleic-acid 59.5 10 0.00022 27.8 2.6 40 43-87 133-176 (195)
59 cd00886 MogA_MoaB MogA_MoaB fa 58.6 42 0.00092 22.8 5.6 54 26-79 22-84 (152)
60 KOG2518 5'-3' exonuclease [Rep 58.0 19 0.00042 30.5 4.4 47 31-82 135-182 (556)
61 TIGR01370 cysRS possible cyste 56.9 40 0.00087 26.4 5.8 57 18-75 246-309 (315)
62 PF02602 HEM4: Uroporphyrinoge 53.0 45 0.00098 23.4 5.2 45 27-71 130-176 (231)
63 PF11977 RNase_Zc3h12a: Zc3h12 52.8 23 0.0005 24.3 3.6 34 35-73 69-110 (155)
64 KOG2645 Type I phosphodiestera 52.6 22 0.00048 29.0 3.9 30 47-77 205-239 (418)
65 COG1355 Predicted dioxygenase 52.0 19 0.0004 28.1 3.2 51 22-72 137-191 (279)
66 cd00032 CASc Caspase, interleu 51.7 66 0.0014 23.5 6.0 34 26-59 34-67 (243)
67 TIGR00264 alpha-NAC-related pr 51.5 40 0.00086 23.0 4.4 46 24-87 9-54 (116)
68 smart00255 TIR Toll - interleu 50.8 51 0.0011 21.1 4.8 49 24-72 17-65 (140)
69 KOG0180 20S proteasome, regula 50.7 20 0.00042 26.5 3.0 33 42-74 153-194 (204)
70 cd05017 SIS_PGI_PMI_1 The memb 50.6 38 0.00082 21.8 4.2 33 47-80 55-88 (119)
71 COG1432 Uncharacterized conser 49.7 7.1 0.00015 27.8 0.6 48 32-79 68-128 (181)
72 COG1569 Predicted nucleic acid 49.4 9.2 0.0002 27.0 1.1 23 66-88 106-131 (142)
73 PRK06646 DNA polymerase III su 49.0 6.2 0.00013 27.8 0.2 37 49-85 15-52 (154)
74 PRK13397 3-deoxy-7-phosphohept 48.8 90 0.0019 23.7 6.4 34 10-44 50-86 (250)
75 cd00758 MoCF_BD MoCF_BD: molyb 48.7 69 0.0015 21.2 5.3 53 26-80 21-82 (133)
76 PF02579 Nitro_FeMo-Co: Dinitr 48.5 50 0.0011 19.9 4.3 27 29-55 66-92 (94)
77 COG0041 PurE Phosphoribosylcar 47.3 90 0.0019 22.5 5.9 45 25-69 17-63 (162)
78 COG1656 Uncharacterized conser 47.2 46 0.00099 24.0 4.4 33 25-58 14-46 (165)
79 PF00875 DNA_photolyase: DNA p 47.1 88 0.0019 21.1 5.8 49 22-74 51-99 (165)
80 KOG2520 5'-3' exonuclease [Rep 47.0 45 0.00097 29.6 5.1 59 10-75 453-512 (815)
81 KOG2519 5'-3' exonuclease [Rep 46.6 45 0.00097 27.6 4.8 44 27-75 135-178 (449)
82 cd00885 cinA Competence-damage 46.1 82 0.0018 22.1 5.6 44 26-71 21-66 (170)
83 COG1058 CinA Predicted nucleot 46.0 68 0.0015 24.5 5.4 44 26-71 23-68 (255)
84 TIGR03599 YloV DAK2 domain fus 45.5 70 0.0015 26.8 5.8 58 28-89 325-394 (530)
85 PF03698 UPF0180: Uncharacteri 44.9 44 0.00096 21.2 3.6 53 24-88 8-64 (80)
86 cd03238 ABC_UvrA The excision 44.3 95 0.0021 21.8 5.7 63 23-87 93-163 (176)
87 PF00994 MoCF_biosynth: Probab 44.0 74 0.0016 21.1 4.9 48 26-75 19-73 (144)
88 PF04273 DUF442: Putative phos 44.0 92 0.002 20.5 5.6 55 14-69 34-92 (110)
89 smart00852 MoCF_biosynth Proba 43.7 92 0.002 20.4 5.4 51 26-78 20-79 (135)
90 KOG1504 Ornithine carbamoyltra 43.6 63 0.0014 25.5 4.9 53 34-86 211-265 (346)
91 TIGR01696 deoB phosphopentomut 42.5 76 0.0016 25.6 5.5 57 17-79 102-158 (381)
92 PF08758 Cadherin_pro: Cadheri 42.5 4.9 0.00011 25.8 -1.1 44 43-86 16-60 (90)
93 cd00014 CH Calponin homology d 42.4 53 0.0012 20.1 3.8 26 24-52 62-87 (107)
94 KOG0062 ATPase component of AB 42.3 29 0.00062 29.6 3.1 46 40-85 505-552 (582)
95 PHA03065 Hypothetical protein; 42.0 83 0.0018 26.0 5.6 51 29-79 150-204 (438)
96 TIGR00642 mmCoA_mut_beta methy 42.0 43 0.00093 28.6 4.1 52 24-78 510-563 (619)
97 KOG1282 Serine carboxypeptidas 41.3 25 0.00055 28.9 2.6 17 59-75 359-375 (454)
98 PF08373 RAP: RAP domain; Int 41.1 17 0.00038 20.5 1.2 23 29-51 23-45 (58)
99 cd03169 GATase1_PfpI_1 Type 1 41.0 60 0.0013 22.2 4.2 35 39-74 3-37 (180)
100 cd07361 MEMO_like Memo (mediat 40.3 52 0.0011 24.4 4.0 51 21-72 126-179 (266)
101 PF02374 ArsA_ATPase: Anion-tr 40.3 34 0.00073 26.2 3.1 23 51-73 17-39 (305)
102 PF10137 TIR-like: Predicted n 40.2 77 0.0017 21.4 4.5 47 27-73 14-62 (125)
103 PRK05728 DNA polymerase III su 40.0 11 0.00023 25.9 0.3 36 49-84 15-51 (142)
104 TIGR01357 aroB 3-dehydroquinat 39.8 93 0.002 23.8 5.5 39 25-63 276-314 (344)
105 cd08195 DHQS Dehydroquinate sy 39.5 90 0.0019 24.0 5.3 39 25-64 279-317 (345)
106 TIGR00640 acid_CoA_mut_C methy 39.4 1.2E+02 0.0026 20.5 5.4 46 25-73 18-64 (132)
107 COG1861 SpsF Spore coat polysa 39.0 1E+02 0.0022 23.5 5.4 44 29-75 60-104 (241)
108 PRK13398 3-deoxy-7-phosphohept 38.7 50 0.0011 25.1 3.7 33 11-44 63-98 (266)
109 PRK03094 hypothetical protein; 38.5 65 0.0014 20.5 3.7 53 24-88 8-64 (80)
110 PRK09189 uroporphyrinogen-III 38.3 75 0.0016 22.8 4.5 43 31-74 87-129 (240)
111 PF11834 DUF3354: Domain of un 38.0 22 0.00047 21.9 1.4 34 18-51 24-57 (69)
112 cd06291 PBP1_Qymf_like Ligand 37.9 1.4E+02 0.003 20.8 7.2 62 24-86 16-80 (265)
113 PF08984 DUF1858: Domain of un 37.9 15 0.00034 21.3 0.7 26 20-45 8-33 (59)
114 PF02110 HK: Hydroxyethylthiaz 37.8 1.1E+02 0.0024 23.1 5.4 48 44-94 132-179 (246)
115 PRK05899 transketolase; Review 37.5 67 0.0014 27.0 4.6 48 28-75 204-251 (624)
116 PRK05362 phosphopentomutase; P 37.5 89 0.0019 25.2 5.1 57 17-79 108-165 (394)
117 TIGR00345 arsA arsenite-activa 37.3 35 0.00076 25.7 2.7 23 52-74 2-24 (284)
118 COG3083 Predicted hydrolase of 36.7 37 0.0008 29.0 2.9 30 46-75 430-462 (600)
119 PF07351 DUF1480: Protein of u 36.6 9 0.00019 24.5 -0.5 48 36-85 1-53 (80)
120 PRK12571 1-deoxy-D-xylulose-5- 36.5 79 0.0017 26.9 4.9 39 30-68 239-278 (641)
121 PF00072 Response_reg: Respons 36.2 63 0.0014 19.3 3.4 31 43-75 53-83 (112)
122 PF14399 Transpep_BrtH: NlpC/p 35.5 1.4E+02 0.003 22.1 5.7 42 27-69 53-94 (317)
123 PRK01215 competence damage-ind 35.3 1.3E+02 0.0028 22.7 5.5 44 26-71 25-70 (264)
124 PF11360 DUF3110: Protein of u 35.3 83 0.0018 20.0 3.8 42 30-75 39-80 (86)
125 PF01990 ATP-synt_F: ATP synth 35.3 51 0.0011 20.7 2.9 39 32-71 12-50 (95)
126 TIGR02765 crypto_DASH cryptoch 34.9 1.6E+02 0.0034 23.3 6.2 47 22-72 59-105 (429)
127 PRK09417 mogA molybdenum cofac 34.8 1.8E+02 0.0038 21.1 6.0 46 26-71 25-74 (193)
128 COG0411 LivG ABC-type branched 34.4 57 0.0012 25.0 3.4 47 44-90 181-228 (250)
129 PRK11914 diacylglycerol kinase 34.2 1.7E+02 0.0036 21.9 5.9 52 26-78 28-81 (306)
130 PRK03670 competence damage-ind 34.2 1.5E+02 0.0033 22.3 5.7 46 26-72 22-69 (252)
131 COG1122 CbiO ABC-type cobalt t 34.2 53 0.0012 24.4 3.2 43 44-86 170-213 (235)
132 cd01994 Alpha_ANH_like_IV This 34.1 1.6E+02 0.0036 20.9 5.7 47 24-74 101-148 (194)
133 PF04599 Pox_G5: Poxvirus G5 p 33.6 1.2E+02 0.0026 25.0 5.3 51 29-79 148-202 (425)
134 COG4634 Uncharacterized protei 33.5 88 0.0019 21.3 3.8 57 27-87 11-76 (113)
135 COG2102 Predicted ATPases of P 33.3 1.5E+02 0.0034 22.3 5.5 49 22-74 97-146 (223)
136 PRK05198 2-dehydro-3-deoxyphos 33.1 61 0.0013 25.0 3.4 31 12-42 52-86 (264)
137 PF13477 Glyco_trans_4_2: Glyc 33.0 1.1E+02 0.0024 19.3 4.3 37 51-87 12-50 (139)
138 PRK02261 methylaspartate mutas 32.6 1.2E+02 0.0026 20.5 4.6 31 29-59 104-134 (137)
139 PLN02234 1-deoxy-D-xylulose-5- 32.4 1.2E+02 0.0026 26.1 5.4 41 29-69 275-317 (641)
140 TIGR01361 DAHP_synth_Bsub phos 32.2 73 0.0016 24.0 3.7 22 23-44 75-96 (260)
141 cd03522 MoeA_like MoeA_like. T 31.9 1.2E+02 0.0027 23.6 5.0 53 26-79 181-242 (312)
142 COG2927 HolC DNA polymerase II 31.8 21 0.00045 25.2 0.7 36 51-86 17-53 (144)
143 KOG4204 Histone deacetylase co 31.7 12 0.00026 28.1 -0.6 36 7-46 46-86 (231)
144 cd05013 SIS_RpiR RpiR-like pro 31.6 1.2E+02 0.0026 18.9 4.2 32 42-75 68-99 (139)
145 TIGR01362 KDO8P_synth 3-deoxy- 31.6 69 0.0015 24.6 3.5 39 12-51 44-86 (258)
146 TIGR00290 MJ0570_dom MJ0570-re 31.4 1.8E+02 0.0038 21.6 5.6 48 23-74 97-145 (223)
147 PLN03194 putative disease resi 31.3 1.5E+02 0.0033 21.7 5.1 48 25-72 42-91 (187)
148 PRK13634 cbiO cobalt transport 31.1 46 0.00099 24.9 2.5 40 47-86 180-220 (290)
149 cd00550 ArsA_ATPase Oxyanion-t 30.9 56 0.0012 24.1 2.8 29 45-73 10-38 (254)
150 KOG0442 Structure-specific end 30.8 1.4E+02 0.003 27.0 5.5 55 15-70 9-63 (892)
151 PF02589 DUF162: Uncharacteris 30.7 85 0.0018 21.7 3.6 47 27-78 2-50 (189)
152 PRK14098 glycogen synthase; Pr 30.7 57 0.0012 26.4 3.1 23 49-71 25-47 (489)
153 PF04364 DNA_pol3_chi: DNA pol 30.6 30 0.00066 23.4 1.3 31 49-79 15-46 (137)
154 PF03465 eRF1_3: eRF1 domain 3 30.4 50 0.0011 21.7 2.3 29 51-79 70-100 (113)
155 PF02348 CTP_transf_3: Cytidyl 30.1 1.9E+02 0.0041 20.0 5.6 47 29-75 52-101 (217)
156 PF02639 DUF188: Uncharacteriz 30.1 18 0.0004 24.7 0.1 38 45-88 38-77 (130)
157 PRK12457 2-dehydro-3-deoxyphos 30.1 74 0.0016 24.8 3.4 31 12-42 58-92 (281)
158 PLN03033 2-dehydro-3-deoxyphos 29.9 74 0.0016 24.9 3.4 31 12-42 58-92 (290)
159 PF00411 Ribosomal_S11: Riboso 29.9 60 0.0013 21.3 2.6 58 9-70 32-93 (110)
160 PF12804 NTP_transf_3: MobA-li 29.9 1.6E+02 0.0035 19.2 4.8 40 33-73 55-96 (160)
161 PRK10247 putative ABC transpor 29.8 87 0.0019 22.2 3.6 37 49-86 174-211 (225)
162 PF13684 Dak1_2: Dihydroxyacet 29.8 1.8E+02 0.0039 22.5 5.6 44 29-75 108-155 (313)
163 PTZ00089 transketolase; Provis 29.5 1.5E+02 0.0033 25.3 5.5 42 27-68 201-244 (661)
164 PRK12753 transketolase; Review 29.4 1.5E+02 0.0032 25.4 5.4 42 27-68 199-241 (663)
165 cd03791 GT1_Glycogen_synthase_ 29.4 62 0.0014 25.2 3.0 26 49-74 19-44 (476)
166 COG2877 KdsA 3-deoxy-D-manno-o 29.4 68 0.0015 24.9 3.1 31 12-42 59-93 (279)
167 PF02608 Bmp: Basic membrane p 29.2 1.7E+02 0.0036 22.0 5.3 42 29-71 25-69 (306)
168 PF06892 Phage_CP76: Phage reg 29.2 80 0.0017 22.2 3.3 55 2-58 36-97 (162)
169 PLN02790 transketolase 29.1 1.6E+02 0.0035 25.1 5.6 42 27-68 190-233 (654)
170 PF00113 Enolase_C: Enolase, C 29.1 49 0.0011 25.6 2.4 46 25-72 138-183 (295)
171 PF08323 Glyco_transf_5: Starc 29.1 53 0.0012 24.0 2.5 26 50-75 20-45 (245)
172 TIGR00111 pelota probable tran 28.8 57 0.0012 25.6 2.7 26 52-77 310-337 (351)
173 TIGR01382 PfpI intracellular p 28.7 1.2E+02 0.0026 20.2 4.0 35 39-74 3-37 (166)
174 TIGR01527 arch_NMN_Atrans nico 28.5 39 0.00085 23.8 1.6 47 27-82 100-147 (165)
175 PF01850 PIN: PIN domain; Int 28.4 36 0.00079 20.9 1.3 11 67-77 107-118 (121)
176 PF11130 TraC_F_IV: F pilus as 28.2 1E+02 0.0022 22.1 3.8 61 21-84 142-207 (235)
177 TIGR03297 Ppyr-DeCO2ase phosph 28.1 1.6E+02 0.0036 23.2 5.2 44 27-70 105-150 (361)
178 PF13579 Glyco_trans_4_4: Glyc 27.9 1.3E+02 0.0029 18.6 3.9 37 51-87 6-45 (160)
179 cd08169 DHQ-like Dehydroquinat 27.9 1.8E+02 0.004 22.5 5.4 38 26-63 277-314 (344)
180 PRK00782 hypothetical protein; 27.8 55 0.0012 24.5 2.4 51 22-72 123-178 (267)
181 COG1136 SalX ABC-type antimicr 27.8 70 0.0015 23.9 2.9 40 45-84 175-215 (226)
182 cd03270 ABC_UvrA_I The excisio 27.8 81 0.0017 22.7 3.2 37 48-86 175-212 (226)
183 KOG2655 Septin family protein 27.7 2.2E+02 0.0048 23.0 5.9 57 18-75 172-228 (366)
184 TIGR02324 CP_lyasePhnL phospho 27.6 1.3E+02 0.0029 21.1 4.2 28 58-85 194-222 (224)
185 COG4032 Predicted thiamine-pyr 27.4 85 0.0018 22.6 3.1 57 14-70 101-161 (172)
186 cd08174 G1PDH-like Glycerol-1- 27.4 1.2E+02 0.0026 23.1 4.3 49 26-75 272-321 (331)
187 PRK14099 glycogen synthase; Pr 27.3 72 0.0016 25.8 3.1 23 49-71 23-45 (485)
188 PRK08227 autoinducer 2 aldolas 27.3 2.2E+02 0.0048 21.7 5.6 63 22-85 125-196 (264)
189 cd08187 BDH Butanol dehydrogen 27.0 2E+02 0.0044 22.4 5.5 43 26-68 46-91 (382)
190 PF00884 Sulfatase: Sulfatase; 26.8 76 0.0016 22.6 2.9 29 47-75 219-250 (308)
191 PF04705 TSNR_N: Thiostrepton- 26.8 14 0.0003 25.0 -0.9 58 12-70 23-80 (115)
192 PF15632 ATPgrasp_Ter: ATP-gra 26.6 1.4E+02 0.0031 23.4 4.6 59 23-84 52-111 (329)
193 cd04509 PBP1_ABC_transporter_G 26.5 1.6E+02 0.0035 20.3 4.5 53 25-78 152-208 (299)
194 TIGR03679 arCOG00187 arCOG0018 26.5 2E+02 0.0044 20.8 5.1 47 26-74 45-96 (218)
195 cd01537 PBP1_Repressors_Sugar_ 26.4 2.1E+02 0.0046 19.3 6.5 48 24-71 16-63 (264)
196 PRK00549 competence damage-ind 26.3 2E+02 0.0043 23.1 5.5 44 26-71 22-67 (414)
197 PRK12754 transketolase; Review 26.2 1.7E+02 0.0036 25.3 5.2 42 27-68 199-241 (663)
198 PRK15366 type III secretion sy 26.1 1.8E+02 0.004 18.6 5.0 37 13-61 35-71 (80)
199 PRK00654 glgA glycogen synthas 26.0 79 0.0017 25.1 3.1 29 43-73 16-44 (466)
200 COG1436 NtpG Archaeal/vacuolar 26.0 52 0.0011 21.8 1.8 15 58-72 41-55 (104)
201 TIGR03180 UraD_2 OHCU decarbox 25.9 2.1E+02 0.0046 20.0 5.0 40 21-60 91-132 (158)
202 TIGR00960 3a0501s02 Type II (G 25.8 2.3E+02 0.005 19.7 5.2 38 48-86 174-212 (216)
203 COG2089 SpsE Sialic acid synth 25.8 2E+02 0.0044 23.1 5.3 54 17-73 86-157 (347)
204 PF13439 Glyco_transf_4: Glyco 25.7 95 0.0021 19.7 3.0 27 49-75 15-41 (177)
205 PRK05628 coproporphyrinogen II 25.6 1.1E+02 0.0023 23.8 3.7 39 9-47 207-247 (375)
206 TIGR01223 Pmev_kin_anim phosph 25.6 55 0.0012 23.9 2.0 54 6-59 51-112 (182)
207 cd03279 ABC_sbcCD SbcCD and ot 25.6 1.2E+02 0.0025 21.5 3.7 38 48-86 169-207 (213)
208 TIGR00200 cinA_nterm competenc 25.5 2.1E+02 0.0046 23.1 5.5 44 26-71 22-67 (413)
209 PF14062 DUF4253: Domain of un 25.4 1.5E+02 0.0032 19.5 3.9 40 32-72 14-53 (111)
210 PRK00002 aroB 3-dehydroquinate 25.2 2.2E+02 0.0047 22.1 5.3 37 26-63 287-323 (358)
211 cd00138 PLDc Phospholipase D. 25.0 2.1E+02 0.0046 18.9 4.9 27 46-73 50-76 (176)
212 PLN02213 sinapoylglucose-malat 24.8 47 0.001 25.4 1.6 14 62-75 232-245 (319)
213 PF00702 Hydrolase: haloacid d 24.8 71 0.0015 21.6 2.4 24 47-74 131-154 (215)
214 TIGR02095 glgA glycogen/starch 24.7 86 0.0019 24.8 3.1 25 49-73 20-44 (473)
215 cd03134 GATase1_PfpI_like A ty 24.5 1.6E+02 0.0034 19.6 4.0 36 39-75 3-39 (165)
216 cd08182 HEPD Hydroxyethylphosp 24.4 2.5E+02 0.0053 21.7 5.5 44 25-68 36-82 (367)
217 cd01026 TOPRIM_OLD TOPRIM_OLD: 24.4 1.7E+02 0.0036 18.1 3.9 38 33-75 29-66 (97)
218 TIGR03632 bact_S11 30S ribosom 24.1 1.3E+02 0.0029 19.7 3.5 58 9-70 32-93 (108)
219 PRK13637 cbiO cobalt transport 24.0 79 0.0017 23.6 2.6 39 48-86 180-219 (287)
220 PRK08507 prephenate dehydrogen 23.9 1.3E+02 0.0028 22.2 3.7 34 24-57 147-180 (275)
221 cd05009 SIS_GlmS_GlmD_2 SIS (S 23.9 1.9E+02 0.0041 18.6 4.2 32 42-74 69-100 (153)
222 TIGR03569 NeuB_NnaB N-acetylne 23.9 2.5E+02 0.0055 22.0 5.5 32 24-55 76-108 (329)
223 cd03301 ABC_MalK_N The N-termi 23.9 1.2E+02 0.0025 21.1 3.4 37 49-85 167-204 (213)
224 PF09349 OHCU_decarbox: OHCU d 23.8 1.5E+02 0.0032 20.6 3.8 41 19-59 92-134 (159)
225 cd06292 PBP1_LacI_like_10 Liga 23.7 2.6E+02 0.0057 19.5 6.6 64 23-86 15-88 (273)
226 PTZ00081 enolase; Provisional 23.5 2.5E+02 0.0054 23.0 5.6 70 15-89 279-358 (439)
227 COG1105 FruK Fructose-1-phosph 23.3 1.7E+02 0.0037 23.0 4.4 68 20-88 114-185 (310)
228 COG0552 FtsY Signal recognitio 23.2 83 0.0018 25.2 2.7 34 40-73 144-177 (340)
229 PF03159 XRN_N: XRN 5'-3' exon 23.2 1.3E+02 0.0027 22.6 3.5 50 37-86 172-234 (237)
230 TIGR00334 5S_RNA_mat_M5 ribonu 23.2 2.8E+02 0.0061 20.0 5.2 37 36-75 21-58 (174)
231 PLN03028 pyrophosphate--fructo 23.0 2.9E+02 0.0063 23.8 6.0 52 24-75 160-216 (610)
232 COG3688 Predicted RNA-binding 22.9 1.7E+02 0.0036 21.3 4.0 31 44-74 79-110 (173)
233 COG1908 FrhD Coenzyme F420-red 22.8 77 0.0017 22.0 2.2 31 26-56 80-115 (132)
234 TIGR02982 heterocyst_DevA ABC 22.8 1.1E+02 0.0023 21.6 3.0 38 47-85 176-214 (220)
235 PRK09984 phosphonate/organopho 22.6 1.1E+02 0.0024 22.2 3.1 39 48-86 188-227 (262)
236 PF05889 SLA_LP_auto_ag: Solub 22.6 1.1E+02 0.0024 24.9 3.3 60 26-85 174-235 (389)
237 TIGR03740 galliderm_ABC gallid 22.6 2.7E+02 0.0058 19.5 5.1 36 50-85 161-197 (223)
238 cd03255 ABC_MJ0796_Lo1CDE_FtsE 22.6 1.1E+02 0.0024 21.3 3.0 36 49-85 177-213 (218)
239 cd08199 EEVS 2-epi-5-epi-valio 22.5 2.1E+02 0.0046 22.4 4.8 33 26-59 290-322 (354)
240 PF01902 ATP_bind_4: ATP-bindi 22.5 2.6E+02 0.0056 20.6 5.1 49 22-74 96-145 (218)
241 PRK11247 ssuB aliphatic sulfon 22.5 1.3E+02 0.0028 22.2 3.5 36 51-86 172-208 (257)
242 PRK07379 coproporphyrinogen II 22.4 1.3E+02 0.0029 23.7 3.7 40 7-46 212-253 (400)
243 cd03256 ABC_PhnC_transporter A 22.4 1.2E+02 0.0026 21.5 3.2 38 49-86 181-219 (241)
244 COG1409 Icc Predicted phosphoh 22.3 1.4E+02 0.003 21.2 3.5 12 64-75 66-77 (301)
245 TIGR00232 tktlase_bact transke 22.3 2.5E+02 0.0054 24.0 5.5 42 27-68 195-237 (653)
246 PF00217 ATP-gua_Ptrans: ATP:g 22.3 3.3E+02 0.0072 20.2 6.5 72 19-90 29-123 (243)
247 PRK11248 tauB taurine transpor 22.3 1.3E+02 0.0028 22.0 3.4 38 49-86 165-203 (255)
248 cd08186 Fe-ADH8 Iron-containin 22.3 3.1E+02 0.0068 21.4 5.8 43 26-68 44-89 (383)
249 cd05014 SIS_Kpsf KpsF-like pro 22.2 1.3E+02 0.0028 19.0 3.1 30 47-77 59-88 (128)
250 PRK10624 L-1,2-propanediol oxi 22.1 2.9E+02 0.0063 21.6 5.6 43 26-68 47-92 (382)
251 COG1597 LCB5 Sphingosine kinas 22.1 3.4E+02 0.0073 20.7 5.8 56 22-78 18-75 (301)
252 COG0094 RplE Ribosomal protein 22.1 44 0.00095 24.5 0.9 30 36-72 130-160 (180)
253 cd02035 ArsA ArsA ATPase funct 22.1 1.2E+02 0.0026 21.6 3.2 26 49-74 13-38 (217)
254 TIGR03417 chol_sulfatase choli 22.0 1.2E+02 0.0025 24.7 3.4 29 47-75 261-292 (500)
255 PRK06582 coproporphyrinogen II 21.9 1.1E+02 0.0025 24.2 3.3 40 7-46 207-248 (390)
256 PTZ00323 NAD+ synthase; Provis 21.9 3.3E+02 0.0072 21.0 5.7 26 25-50 93-118 (294)
257 TIGR01277 thiQ thiamine ABC tr 21.9 1.4E+02 0.003 20.9 3.4 39 48-86 164-203 (213)
258 PRK03604 moaC bifunctional mol 21.8 3.1E+02 0.0068 21.4 5.6 49 26-75 177-232 (312)
259 PF02441 Flavoprotein: Flavopr 21.7 1.1E+02 0.0023 20.1 2.7 26 47-72 94-119 (129)
260 CHL00041 rps11 ribosomal prote 21.6 1.6E+02 0.0034 19.6 3.5 58 9-70 45-106 (116)
261 COG0337 AroB 3-dehydroquinate 21.5 2.4E+02 0.0052 22.7 5.0 33 26-58 288-320 (360)
262 PRK13059 putative lipid kinase 21.3 3.4E+02 0.0075 20.2 5.7 50 24-75 19-69 (295)
263 cd03261 ABC_Org_Solvent_Resist 21.2 1E+02 0.0023 21.8 2.7 39 48-86 172-211 (235)
264 cd04955 GT1_like_6 This family 21.2 2.5E+02 0.0054 20.2 4.8 42 46-87 15-59 (363)
265 TIGR03164 UHCUDC OHCU decarbox 21.2 3E+02 0.0064 19.2 5.6 41 20-60 90-132 (157)
266 TIGR01545 YfhB_g-proteo haloac 21.2 1.1E+02 0.0024 21.9 2.8 26 50-75 98-123 (210)
267 TIGR03190 benz_CoA_bzdN benzoy 21.2 1.4E+02 0.0031 23.4 3.6 28 29-57 335-362 (377)
268 PLN02295 glycerol kinase 21.2 34 0.00073 27.8 0.1 49 27-75 203-252 (512)
269 COG3119 AslA Arylsulfatase A a 21.1 1E+02 0.0023 24.9 2.9 29 46-74 267-298 (475)
270 PF07131 DUF1382: Protein of u 21.1 1.8E+02 0.0039 17.7 3.3 41 14-57 2-42 (61)
271 KOG3164 Uncharacterized protei 21.1 89 0.0019 23.8 2.4 42 43-86 94-138 (236)
272 PHA02754 hypothetical protein; 21.0 1.2E+02 0.0026 18.5 2.5 42 19-73 13-54 (67)
273 TIGR01425 SRP54_euk signal rec 21.0 1.2E+02 0.0025 24.9 3.2 32 42-73 107-138 (429)
274 PRK10771 thiQ thiamine transpo 21.0 1.2E+02 0.0027 21.5 3.0 37 50-86 167-204 (232)
275 PF03102 NeuB: NeuB family; I 20.9 3.6E+02 0.0077 20.2 5.6 53 23-75 55-125 (241)
276 smart00490 HELICc helicase sup 20.8 1.7E+02 0.0036 16.2 5.0 43 29-72 3-45 (82)
277 PRK13909 putative recombinatio 20.8 1.2E+02 0.0025 26.9 3.4 33 8-41 860-893 (910)
278 PF06069 PerC: PerC transcript 20.8 1.5E+02 0.0033 19.2 3.1 29 12-40 49-78 (90)
279 cd03115 SRP The signal recogni 20.8 1.3E+02 0.0029 20.1 3.1 29 44-72 9-37 (173)
280 KOG4003 Pyrazinamidase/nicotin 20.8 2.2E+02 0.0048 21.3 4.3 43 28-70 142-184 (223)
281 PRK05904 coproporphyrinogen II 20.7 1.5E+02 0.0034 23.1 3.7 37 11-47 201-237 (353)
282 PRK09552 mtnX 2-hydroxy-3-keto 20.7 1E+02 0.0022 21.8 2.5 14 61-74 88-101 (219)
283 PRK14250 phosphate ABC transpo 20.5 1.1E+02 0.0025 21.9 2.8 38 49-86 168-206 (241)
284 cd04336 YeaK YeaK is an unchar 20.5 1.3E+02 0.0027 20.1 2.9 47 27-73 2-50 (153)
285 PRK10358 putative rRNA methyla 20.5 1.3E+02 0.0028 20.9 2.9 20 26-45 15-34 (157)
286 PF08645 PNK3P: Polynucleotide 20.4 78 0.0017 21.8 1.8 24 51-75 34-57 (159)
287 COG0541 Ffh Signal recognition 20.4 3.7E+02 0.0081 22.4 6.0 43 26-69 144-188 (451)
288 COG0003 ArsA Predicted ATPase 20.4 1.1E+02 0.0024 23.9 2.9 22 52-73 19-40 (322)
289 PLN02251 pyrophosphate-depende 20.3 3.9E+02 0.0085 22.8 6.2 53 23-75 176-233 (568)
290 COG2185 Sbm Methylmalonyl-CoA 20.2 3.2E+02 0.0069 19.2 5.2 47 25-74 28-75 (143)
291 KOG2825 Putative arsenite-tran 20.2 2.2E+02 0.0048 22.5 4.4 46 28-73 9-57 (323)
292 COG1921 SelA Selenocysteine sy 20.2 2.4E+02 0.0051 23.1 4.7 46 29-75 179-225 (395)
293 PRK06852 aldolase; Validated 20.1 3.8E+02 0.0082 20.9 5.8 46 22-67 152-205 (304)
294 PRK05799 coproporphyrinogen II 20.1 1.4E+02 0.0031 23.0 3.4 39 8-46 197-237 (374)
295 cd03235 ABC_Metallic_Cations A 20.1 3.1E+02 0.0067 19.0 5.3 37 49-86 169-206 (213)
296 PRK03673 hypothetical protein; 20.0 3E+02 0.0065 22.2 5.3 44 26-71 23-68 (396)
No 1
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=100.00 E-value=2e-36 Score=215.08 Aligned_cols=86 Identities=44% Similarity=0.816 Sum_probs=80.1
Q ss_pred ccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccC
Q 034414 2 NFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSH 80 (95)
Q Consensus 2 ~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~ 80 (95)
|||+++||+||+||+++|++|..|++.++++++.+|+++++.+|+||||+|||+|+++...|.+|+|+|+|||| ||+++
T Consensus 64 ~fR~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkD~~QLv~~ 143 (169)
T PF02739_consen 64 TFRKELYPEYKANRKPMPEELIPQLPYIKELLEALGIPVLEVPGYEADDVIATLAKKASEEGFEVIIVSGDKDLLQLVDE 143 (169)
T ss_dssp HHHHHCCTTTTHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEETTB-HHHHHHHHHHHHHHTTCEEEEE-SSGGGGGGTCS
T ss_pred chHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHCCCCEecCCCCcHHHHHHHHHhhhccCCCEEEEEcCCCCHHHhcCC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999 99999
Q ss_pred --CeEEEEe
Q 034414 81 --SLCLLRI 87 (95)
Q Consensus 81 --~v~v~~~ 87 (95)
+|.++++
T Consensus 144 ~~~V~~~~~ 152 (169)
T PF02739_consen 144 NVNVYLLDP 152 (169)
T ss_dssp -TSEEEEET
T ss_pred CceEEEeec
Confidence 5666655
No 2
>PRK09482 flap endonuclease-like protein; Provisional
Probab=100.00 E-value=5.9e-34 Score=214.26 Aligned_cols=87 Identities=34% Similarity=0.597 Sum_probs=84.4
Q ss_pred ccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccC
Q 034414 2 NFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSH 80 (95)
Q Consensus 2 ~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~ 80 (95)
+|||++||+||+||+++|++|..|++.++++++++|++++..||+||||+|||+|+++.+.|.+|+|+|+|||| ||+++
T Consensus 62 ~fR~~l~p~YKa~R~~~Pe~l~~Q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~I~S~DKDl~Qlv~~ 141 (256)
T PRK09482 62 GWRHQLLPDYKAGRKPMPEALQQGLPAIRAAFEELGIDSWHADGNEADDLIATLAVKVAQAGHQATIVSTDKGYCQLLSP 141 (256)
T ss_pred ccHHHHhHHHhcCCCCCcHHHHHHHHHHHHHHHhCCCCEeccCCcCHHHHHHHHHHHHHHCCCeEEEEECCCCccccCCC
Confidence 39999999999999999999999999999999999999999999999999999999999889999999999999 99999
Q ss_pred CeEEEEec
Q 034414 81 SLCLLRIA 88 (95)
Q Consensus 81 ~v~v~~~~ 88 (95)
+|++|.+.
T Consensus 142 ~v~~~~~~ 149 (256)
T PRK09482 142 TIQIRDYF 149 (256)
T ss_pred CeEEEecc
Confidence 99999864
No 3
>smart00475 53EXOc 5'-3' exonuclease.
Probab=99.97 E-value=3.1e-32 Score=204.66 Aligned_cols=89 Identities=42% Similarity=0.746 Sum_probs=85.8
Q ss_pred CccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
.+||+++||+||+||+++|++|..|++.++++++.+|++++..+|+||||+|||+|+++...|..++|+|+|||| ||++
T Consensus 61 ~~~R~~l~p~YKa~R~~~pe~L~~q~~~~~~~l~~~gi~~i~~~g~EADD~iatla~~~~~~g~~~~IvS~DkDl~ql~~ 140 (259)
T smart00475 61 KTFRHELYPEYKANRPKTPDELLEQIPLIKELLDALGIPVLEVEGYEADDVIATLAKKAEAEGYEVRIVSGDKDLLQLVS 140 (259)
T ss_pred CccccchhHHHHhCCCCCCHHHHHHHHHHHHHHHHCCCCEEeeCCcCHHHHHHHHHHHHHhCCCeEEEEeCCCcHhhcCC
Confidence 489999999999999999999999999999999999999999999999999999999988889999999999999 9999
Q ss_pred CCeEEEEecc
Q 034414 80 HSLCLLRIAP 89 (95)
Q Consensus 80 ~~v~v~~~~k 89 (95)
++|++|.+.+
T Consensus 141 ~~v~~~~~~~ 150 (259)
T smart00475 141 DKVSVLDPTK 150 (259)
T ss_pred CCEEEEeccC
Confidence 9999998765
No 4
>PRK14976 5'-3' exonuclease; Provisional
Probab=99.97 E-value=4.6e-32 Score=205.66 Aligned_cols=90 Identities=34% Similarity=0.541 Sum_probs=86.2
Q ss_pred CccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
.+||+++||+||+||+++|++|..|++.++++++.+||+++..||+||||+|||+|+++...|..|+|+|+|||| ||++
T Consensus 67 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~~~~g~~v~IvS~DkDl~ql~~ 146 (281)
T PRK14976 67 KTFRHQLYDEYKQGRKKTPESLISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKLSKQNITVLIYSSDKDLLQLVN 146 (281)
T ss_pred CcccccccHHHhcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHCCCeEEEEeCCCCcCccCC
Confidence 489999999999999999999999999999999999999999999999999999999999889999999999999 9999
Q ss_pred CCeEEEEeccC
Q 034414 80 HSLCLLRIAPR 90 (95)
Q Consensus 80 ~~v~v~~~~k~ 90 (95)
++|+++.+.++
T Consensus 147 ~~v~~~~~~~~ 157 (281)
T PRK14976 147 ENTDVLLKKKG 157 (281)
T ss_pred CCeEEEEecCC
Confidence 99999987543
No 5
>PHA02567 rnh RnaseH; Provisional
Probab=99.97 E-value=1.1e-31 Score=205.92 Aligned_cols=89 Identities=21% Similarity=0.248 Sum_probs=82.5
Q ss_pred CccccccChhhhcCCCCCChhhHHhH--------HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGL--------QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~--------~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
++|||++||+||+||+++|++|..|+ +.+++++..||++++..+|+||||+|||+|+++...|.+|+|+|+|
T Consensus 76 ~tfR~elyp~YKAnR~~~Peel~~q~~~l~~~l~~ii~el~~~~gi~~l~~~g~EADDvIgTLA~k~~~~g~~VvIvS~D 155 (304)
T PHA02567 76 GYWRRDIAWYYKKNRKKDREESPWDWEGLFEAINKIVDEIKENMPYKVMKIDKAEADDIIAVLTKKFSAEGRPVLIVSSD 155 (304)
T ss_pred CCchhhhhhHhhcCCCCCChHHHHHHHHhhhhHHHHHHHHHHHCCCCEEEeCCccHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence 37999999999999999999987776 6788889999999999999999999999999999889999999999
Q ss_pred CCc-cccc-CCeEEEEecc
Q 034414 73 KDS-QILS-HSLCLLRIAP 89 (95)
Q Consensus 73 kDl-QLv~-~~v~v~~~~k 89 (95)
||| ||++ ++|++|.+.+
T Consensus 156 KDl~QLv~~~~v~~~~~~~ 174 (304)
T PHA02567 156 GDFTQLHKYPGVKQWSPMQ 174 (304)
T ss_pred CChhhccCCCCeEEeecCC
Confidence 999 9995 8999998753
No 6
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=99.97 E-value=5.4e-31 Score=195.33 Aligned_cols=88 Identities=39% Similarity=0.693 Sum_probs=85.0
Q ss_pred CccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
.+||+++||+||+||+++|++|..|++.++++++.+|++++..+|+||||+|||+|+++...|.+++|+|+|||| ||++
T Consensus 62 ~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g~~~~I~S~DkD~~ql~~ 141 (240)
T cd00008 62 KTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEGYKVVIVSGDKDLLQLVS 141 (240)
T ss_pred CcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcCCeEEEEeCCCChhhhCC
Confidence 489999999999999999999999999999999999999999999999999999999998889999999999999 9999
Q ss_pred CCeEEEEec
Q 034414 80 HSLCLLRIA 88 (95)
Q Consensus 80 ~~v~v~~~~ 88 (95)
++|+++++.
T Consensus 142 ~~v~~~~~~ 150 (240)
T cd00008 142 DNVKVVSPM 150 (240)
T ss_pred CCEEEEeCC
Confidence 999999864
No 7
>PHA00439 exonuclease
Probab=99.96 E-value=8.7e-30 Score=194.21 Aligned_cols=83 Identities=33% Similarity=0.436 Sum_probs=77.2
Q ss_pred CccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCC-cEEEEcCCCCc-ccc
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGF-KIQVVSPNKDS-QIL 78 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~-~v~IvS~DkDl-QLv 78 (95)
+||||++||+||+||+++|++ ..|++.++++++.+|++++..+|+||||+|||+|+++...|+ +|+|+|+|||| ||+
T Consensus 75 ~tfR~elyp~YKanR~~~p~~-~~~~~~i~el~~~~gi~~i~~~G~EADDvIgtla~~~~~~g~~~vvIvS~DKDl~QLv 153 (286)
T PHA00439 75 VNWRKEVVPTYKANRKAKRKP-VGYRKFLEELMAREEWKSILEPGLEGDDVMGIIGTNPSLFGFKKAVLVSCDKDFKTIP 153 (286)
T ss_pred CChHhhhhhHhcCCCCCCCCc-hhhHHHHHHHHHhCCCCEEeeCCccHHHHHHHHHHHHHHCCCCeEEEEeCCCCHhhcC
Confidence 589999999999999999999 789999999999999999999999999999999999988888 99999999999 999
Q ss_pred cCCeEEE
Q 034414 79 SHSLCLL 85 (95)
Q Consensus 79 ~~~v~v~ 85 (95)
+. +.++
T Consensus 154 ~~-~~~~ 159 (286)
T PHA00439 154 NC-DFLW 159 (286)
T ss_pred cc-eEEE
Confidence 76 3344
No 8
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.96 E-value=2.3e-29 Score=213.63 Aligned_cols=89 Identities=36% Similarity=0.670 Sum_probs=85.9
Q ss_pred CccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
+|||+++||+||+||+++|++|..|++.++++++.+||++++.+||||||+|||+|+++...|++|+|+|+|||+ ||++
T Consensus 61 ~tfR~~~~~~YKa~R~~~Pe~l~~Q~~~i~~~l~~~gi~~i~~~g~EADDiIatla~~~~~~g~~v~IvS~DkDllQLv~ 140 (887)
T TIGR00593 61 PTFRHEAYAEYKANRAPTPEELIEQIPLIKELLDALGIPILEVEGYEADDVIATLAKQAEKEGYEVRIISGDKDLLQLVS 140 (887)
T ss_pred CcchHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHCCCcEEeeCCccHHHHHHHHHHHHHhCCCcEEEEECCCChhhcCC
Confidence 489999999999999999999999999999999999999999999999999999999999899999999999999 9999
Q ss_pred CCeEEEEecc
Q 034414 80 HSLCLLRIAP 89 (95)
Q Consensus 80 ~~v~v~~~~k 89 (95)
++|+++++.+
T Consensus 141 ~~v~~~~~~~ 150 (887)
T TIGR00593 141 DNVKVLIPKG 150 (887)
T ss_pred CCEEEEeccC
Confidence 9999998753
No 9
>PRK05755 DNA polymerase I; Provisional
Probab=99.95 E-value=4.3e-28 Score=205.01 Aligned_cols=88 Identities=38% Similarity=0.747 Sum_probs=85.1
Q ss_pred CccccccChhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 1 MNFRHTLYPSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
+|||+++||+||+||+++|++|..|++.++++|+.+|++++..||+||||+|||+|+++...|..|+|+|+|||| ||++
T Consensus 63 ~~~R~~~~~~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~~~~~g~EADD~ia~la~~~~~~~~~~~i~S~DkD~~ql~~ 142 (880)
T PRK05755 63 KTFRHELYPEYKANRPPMPEDLREQIPLIRELLRALGIPLLELEGYEADDVIGTLAKQAEAAGYEVLIVTGDKDLLQLVD 142 (880)
T ss_pred CccccccCHHHhCCCCCCcHHHHHHHHHHHHHHHHCCCCEEeeCCccHHHHHHHHHHHHHhCCCcEEEEcCCCChhhhCC
Confidence 489999999999999999999999999999999999999999999999999999999988889999999999999 9999
Q ss_pred CCeEEEEec
Q 034414 80 HSLCLLRIA 88 (95)
Q Consensus 80 ~~v~v~~~~ 88 (95)
++|+++.+.
T Consensus 143 ~~v~~~~~~ 151 (880)
T PRK05755 143 DNVTLLDTM 151 (880)
T ss_pred CCEEEeecc
Confidence 999999874
No 10
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=99.91 E-value=8.7e-25 Score=166.60 Aligned_cols=91 Identities=31% Similarity=0.483 Sum_probs=87.3
Q ss_pred CccccccChhhhcCCCC-CChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccc
Q 034414 1 MNFRHTLYPSYKNNRPP-TPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QIL 78 (95)
Q Consensus 1 ~~~R~~l~p~YKanR~~-~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv 78 (95)
++||+++|++||++|++ +|++|..|++.+.+++.++|+++++.+|+||||+|||+|+++.+.|+.+.|+|+|||+ ||+
T Consensus 72 ~tfR~~~~~~yK~~R~~~~p~~l~~q~~~i~~~~~~~~~~~l~~~G~eadd~i~t~A~~a~~~g~~~~I~S~DkD~lql~ 151 (310)
T COG0258 72 PTFRHELLEEYKANREKEMPDELAPQIPILTELLVALGIPLLELMGIEADDPIETLAQKAYKKGDVVLIISGDKDLLQLV 151 (310)
T ss_pred CcchHHHHHHHHhCCCccCHHHHHHHHHHHHHHHHHhCcHhhhcCCCCcchhHHHHHHHHHhcCCeEEEEeCCcchhhhc
Confidence 58999999999999999 9999999999999999999999999999999999999999999889999999999999 999
Q ss_pred cCCeEEEEeccCC
Q 034414 79 SHSLCLLRIAPRG 91 (95)
Q Consensus 79 ~~~v~v~~~~k~~ 91 (95)
+++|+++++.++.
T Consensus 152 ~~~~~~~~~~~~~ 164 (310)
T COG0258 152 SPNVLVINGKKGE 164 (310)
T ss_pred CCCcEEEeccCCC
Confidence 9999999876654
No 11
>PTZ00217 flap endonuclease-1; Provisional
Probab=99.32 E-value=1.5e-12 Score=103.03 Aligned_cols=80 Identities=20% Similarity=0.264 Sum_probs=69.4
Q ss_pred ccccccChhhhcCCCCCChhh-----------------------HHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHH
Q 034414 2 NFRHTLYPSYKNNRPPTPDTM-----------------------VQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVR 58 (95)
Q Consensus 2 ~~R~~l~p~YKanR~~~p~~l-----------------------~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~ 58 (95)
++|++.++.||++|.+.++++ ..|++.++++|+.|||+++..|+ ||||.+|+|++
T Consensus 93 ~~K~~~~~~Rk~~R~~a~~~l~~a~~~g~~~~a~k~~~r~~~vt~~~~~~~~~lL~~~Gip~i~AP~-EAdaq~A~L~~- 170 (393)
T PTZ00217 93 ELKSGELEKRRERREEAEEELEKAIEEGDDEEIKKQSKRTVRVTKEQNEDAKKLLRLMGIPVIEAPC-EAEAQCAELVK- 170 (393)
T ss_pred hhhHHHHHHHHHHHHHhHHHHHHHHhcCCHHHHHHHHhhcccCCHHHHHHHHHHHHHcCCceEECCc-CHHHHHHHHHH-
Confidence 578999999999999998887 67889999999999999999998 99999999874
Q ss_pred hhhCCCcEEEEcCCCCc-ccccCCeEEEEe
Q 034414 59 SVDDGFKIQVVSPNKDS-QILSHSLCLLRI 87 (95)
Q Consensus 59 ~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~ 87 (95)
.|.-..|+|.|+|+ |+..+.| ++++
T Consensus 171 ---~g~v~~ViS~D~D~l~fg~~~v-i~~l 196 (393)
T PTZ00217 171 ---KGKVYAVATEDMDALTFGTPVL-LRNL 196 (393)
T ss_pred ---CCCeEEEeCCCcCeeecCCcEE-EEcc
Confidence 46667799999999 9988743 4444
No 12
>PRK03980 flap endonuclease-1; Provisional
Probab=99.22 E-value=7.9e-12 Score=95.68 Aligned_cols=75 Identities=19% Similarity=0.170 Sum_probs=65.8
Q ss_pred ccccccChhhhcCCCCCChhhHH-----------------------hHHHHHHHHHHCCCcEEecCCc-chhHHHHHHHH
Q 034414 2 NFRHTLYPSYKNNRPPTPDTMVQ-----------------------GLQYLKASIKAMSIKVIEVPGV-EADDVIGKLAV 57 (95)
Q Consensus 2 ~~R~~l~p~YKanR~~~p~~l~~-----------------------q~~~i~~~l~~~gi~~~~~~g~-EADDvIatla~ 57 (95)
++|++.++.||++|.+.++.+.. |++.++++|..|||+++..|+. ||+ +|+|++
T Consensus 38 ~~K~~~~~~rk~~R~~a~~~~~~~~~~g~~~~a~k~~~~~~~vt~~~~~~~k~lL~~~GIp~i~AP~EAEAq--~A~L~~ 115 (292)
T PRK03980 38 ELKAEEIEERREVREEAEEKYEEAKEEGDLEEARKYAQRSSRLTDEIVEDSKKLLDLMGIPYVQAPSEGEAQ--AAYMAK 115 (292)
T ss_pred hHHHHHHHHHHHHHHHhHHHHHHHHHcCCHHHHHHHHhccccCCHHHHHHHHHHHHHCCCCEEecCchHHHH--HHHHHH
Confidence 57899999999999999988766 8999999999999999999996 666 887773
Q ss_pred HhhhCCCcEEEEcCCCCc-ccccCCe
Q 034414 58 RSVDDGFKIQVVSPNKDS-QILSHSL 82 (95)
Q Consensus 58 ~~~~~~~~v~IvS~DkDl-QLv~~~v 82 (95)
.|.-..|+|+|+|+ |+.+++|
T Consensus 116 ----~g~vd~V~S~D~D~l~fg~~~v 137 (292)
T PRK03980 116 ----KGDAWAVGSQDYDSLLFGAPRL 137 (292)
T ss_pred ----CCCeEEEecCCcCeeeecCCEE
Confidence 46667899999999 9999876
No 13
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=99.19 E-value=1.9e-11 Score=94.93 Aligned_cols=81 Identities=16% Similarity=0.158 Sum_probs=64.3
Q ss_pred ccccccChhhhcCCCCCChhhHH-----------------------hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHH
Q 034414 2 NFRHTLYPSYKNNRPPTPDTMVQ-----------------------GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVR 58 (95)
Q Consensus 2 ~~R~~l~p~YKanR~~~p~~l~~-----------------------q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~ 58 (95)
+||++.++.||+.|.+.++.+.. |++.++++|+.+||+++..|| |||+.+|.|++
T Consensus 85 ~~K~~~~~~R~~~r~~a~~~~~~~~~~g~~~~a~~~~~r~~~~~~~~~~~~k~lL~~~Gip~i~AP~-EAeaq~a~L~~- 162 (338)
T TIGR03674 85 ELKAETLEERREIREEAEEKWEEALEKGDLEEARKYAQRSSRLTSEIVESSKKLLDLMGIPYVQAPS-EGEAQAAYMAK- 162 (338)
T ss_pred hhhHhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCeEEECCc-cHHHHHHHHHH-
Confidence 46777777787777665555432 488899999999999999999 99999888774
Q ss_pred hhhCCCcEEEEcCCCCc-ccccCCeEEEEec
Q 034414 59 SVDDGFKIQVVSPNKDS-QILSHSLCLLRIA 88 (95)
Q Consensus 59 ~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~~ 88 (95)
.|.-..|+|+|+|+ |+.+++| +.++.
T Consensus 163 ---~g~vd~v~S~D~D~l~fg~~~v-i~~~~ 189 (338)
T TIGR03674 163 ---KGDVDYVGSQDYDSLLFGAPRL-VRNLT 189 (338)
T ss_pred ---CCCeeEEecCCcCeeeecCCEE-EEecc
Confidence 35444889999999 9999987 55543
No 14
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=99.12 E-value=3.4e-11 Score=91.86 Aligned_cols=76 Identities=17% Similarity=0.177 Sum_probs=63.8
Q ss_pred ccccChhhhcCCCCCCh----------------hhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEE
Q 034414 4 RHTLYPSYKNNRPPTPD----------------TMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQ 67 (95)
Q Consensus 4 R~~l~p~YKanR~~~p~----------------~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~ 67 (95)
|++..++||++|..+++ ....|++.++++|+.+|++++..| +||||.+|+|++. |.-..
T Consensus 92 R~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lL~~~gi~~i~ap-~EAdaq~a~l~~~----g~v~~ 166 (316)
T cd00128 92 RRERREEAEEEAKEALEKGLEEEAKKLERRAVRVTPQMIEEAKELLRLMGIPYIVAP-YEAEAQCAYLAKK----GLVDA 166 (316)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHhccCcCCHHHHHHHHHHHHHcCCCEEECC-cCHHHHHHHHHhC----CCeeE
Confidence 88889999999987776 236778999999999999999988 6999999998763 44557
Q ss_pred EEcCCCCc-ccccCCeEE
Q 034414 68 VVSPNKDS-QILSHSLCL 84 (95)
Q Consensus 68 IvS~DkDl-QLv~~~v~v 84 (95)
|+|+|+|+ |+..++|..
T Consensus 167 i~S~DsD~l~fg~~~vi~ 184 (316)
T cd00128 167 IITEDSDLLLFGAPRVYR 184 (316)
T ss_pred EEecCCCeeeecCceEEE
Confidence 99999999 988776543
No 15
>PF12813 XPG_I_2: XPG domain containing
Probab=97.36 E-value=0.00031 Score=52.73 Aligned_cols=43 Identities=23% Similarity=0.365 Sum_probs=36.3
Q ss_pred HHHHHHHHHC---CCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 27 QYLKASIKAM---SIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 27 ~~i~~~l~~~---gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
+.+.+.|..+ |..++..+| |||.-+|++|++. .+.|+|+|.||
T Consensus 7 ~~~~e~L~~~~~~~~~~~~~~~-EAD~~~A~~A~~~-----~~~VLt~DSDf 52 (246)
T PF12813_consen 7 PAFIEALRESWRYGVPVVQCPG-EADRECAALARKW-----GCPVLTNDSDF 52 (246)
T ss_pred HHHHHHHHHHhhcCCcEEEcCc-cchHHHHHHHHHc-----CCeEEccCCCE
Confidence 4566777777 999999988 9999999999655 34899999998
No 16
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.94 E-value=0.018 Score=51.16 Aligned_cols=46 Identities=15% Similarity=0.161 Sum_probs=40.3
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.+..++++|..|||+++..| +||+..+|.|++ .|.-..|+|.|.|.
T Consensus 773 m~~~~~~LL~~~GIP~i~AP-~EAEAqcA~L~~----~G~vd~V~TeDsD~ 818 (1034)
T TIGR00600 773 MILESQELLRLFGIPYIVAP-MEAEAQCAILDL----LDQTSGTITDDSDI 818 (1034)
T ss_pred HHHHHHHHHHHCCCCeeeCC-ccHHHHHHHHHh----CCCeEEEEccccce
Confidence 36779999999999999999 999999998854 56677899999998
No 17
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=95.78 E-value=0.0088 Score=42.31 Aligned_cols=50 Identities=20% Similarity=0.272 Sum_probs=39.0
Q ss_pred CCcEEec-CCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc-CCeEEEE
Q 034414 37 SIKVIEV-PGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS-HSLCLLR 86 (95)
Q Consensus 37 gi~~~~~-~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~-~~v~v~~ 86 (95)
|+.++-. +|-.||++|--++......+.+|+|||+|+.. +.+. -+..++.
T Consensus 67 gi~Vvft~~~~tAD~~Ie~~v~~~~~~~~~v~VVTSD~~iq~~~~~~GA~~is 119 (166)
T PF05991_consen 67 GIEVVFTKEGETADDYIERLVRELKNRPRQVTVVTSDREIQRAARGRGAKRIS 119 (166)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhccCCCeEEEEeCCHHHHHHHhhCCCEEEc
Confidence 6665544 47999999999999888767899999999999 6654 4555543
No 18
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=95.12 E-value=0.055 Score=36.29 Aligned_cols=54 Identities=15% Similarity=0.103 Sum_probs=37.9
Q ss_pred HHHHHHHHHHCCCcEEecCCc-------chhHHHHHHHHHhhh-C-CCcEEEEcCCCCc-cccc
Q 034414 26 LQYLKASIKAMSIKVIEVPGV-------EADDVIGKLAVRSVD-D-GFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~-------EADDvIatla~~~~~-~-~~~v~IvS~DkDl-QLv~ 79 (95)
.....+.|...|+.++..+.. .+|=-|++-+..... . -..++|+|+|+|| .++.
T Consensus 54 ~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~ 117 (149)
T cd06167 54 QRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVE 117 (149)
T ss_pred HHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHH
Confidence 344556688899999988854 377667655543322 2 3578999999999 8875
No 19
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=94.79 E-value=0.055 Score=35.73 Aligned_cols=54 Identities=17% Similarity=0.166 Sum_probs=29.5
Q ss_pred HHHHHHHHHHCCCcEEecCC--------cchhHHHHHHHHHhh--hCCCcEEEEcCCCCc-cccc
Q 034414 26 LQYLKASIKAMSIKVIEVPG--------VEADDVIGKLAVRSV--DDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g--------~EADDvIatla~~~~--~~~~~v~IvS~DkDl-QLv~ 79 (95)
...+.+.|...|+.+...+. -.+|=-|++-+.... ..-..++|+|+|+|| .+++
T Consensus 49 ~~~~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~v~ 113 (146)
T PF01936_consen 49 QKSFQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGDSDFAPLVR 113 (146)
T ss_dssp HHHHHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE---GGGHHHHH
T ss_pred hhhHHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECcHHHHHHHH
Confidence 34455677888997766544 236666665554433 223789999999999 8886
No 20
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=93.29 E-value=0.26 Score=35.20 Aligned_cols=57 Identities=14% Similarity=0.172 Sum_probs=36.5
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHHHHHhh--hCCCcEEEEcCCCCc-cccc----CCeEEEE
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKLAVRSV--DDGFKIQVVSPNKDS-QILS----HSLCLLR 86 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatla~~~~--~~~~~v~IvS~DkDl-QLv~----~~v~v~~ 86 (95)
+.+.+...|+..+...| -.|=-|+.=|-... .+=..++|+|+|.|| .|+. .+.+|.-
T Consensus 71 l~~~l~~~Gf~pv~~kG-~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v 134 (160)
T TIGR00288 71 LIEAVVNQGFEPIIVAG-DVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIV 134 (160)
T ss_pred HHHHHHHCCceEEEecC-cccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEE
Confidence 46678889999887777 34433333332222 233578899999999 9984 4555543
No 21
>cd00431 cysteine_hydrolases Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It also contains isochorismatase, an enzyme that catalyzes the conversion of isochorismate to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of the vinyl ether bond, and other related enzymes with unknown function.
Probab=91.50 E-value=0.47 Score=31.97 Aligned_cols=43 Identities=23% Similarity=0.342 Sum_probs=39.4
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+.++|...|+..+..-|.++|=++.+-+..+.+.|++|+|++
T Consensus 100 ~l~~~L~~~~i~~vil~G~~t~~CV~~T~~~a~~~G~~v~vi~ 142 (161)
T cd00431 100 DLDELLRERGIDTLVVCGIATDICVLATARDALDLGYRVIVVE 142 (161)
T ss_pred CHHHHHHHCCCCEEEEEecCcChhHHHHHHHHHHCCCEEEEeh
Confidence 4677888999999999999999999999999999999999976
No 22
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=91.41 E-value=0.2 Score=32.01 Aligned_cols=36 Identities=25% Similarity=0.347 Sum_probs=25.0
Q ss_pred HCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 35 AMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 35 ~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.+|++++..| +|||=.+|.|.+ .|.==.|+|.|.|+
T Consensus 2 ~~gv~~i~AP-~EAeAq~A~L~~----~g~vd~V~t~DsD~ 37 (94)
T PF00867_consen 2 LMGVPYIVAP-YEAEAQCAYLER----NGLVDAVITEDSDL 37 (94)
T ss_dssp HHT-EEEE-S-S-HHHHHHHHHH----TTSSSEEE-SSSHH
T ss_pred CCCCeEEEcC-chHHHHHHHHHH----hcceeEEEecCCCE
Confidence 5799999999 999999998774 33333578999998
No 23
>cd01015 CSHase N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This CSHase-containing pathway degrades creatinine via N-methylhydantoin N-carbamoylsarcosine and sarcosine to glycine. Enzymes of this pathway are used in the diagnosis for renal disfunction, for determining creatinine levels in urine and serum.
Probab=91.34 E-value=0.53 Score=32.86 Aligned_cols=43 Identities=28% Similarity=0.421 Sum_probs=39.7
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+.++|...|+..+..-|.++|=++-+-+..+...|++|++++
T Consensus 104 ~L~~~L~~~gi~~vvi~G~~t~~CV~~Ta~~A~~~Gy~v~vv~ 146 (179)
T cd01015 104 SLAATLTARGVDTLIVAGCSTSGCIRATAVDAMQHGFRPIVVR 146 (179)
T ss_pred cHHHHHHHcCCCEEEEeeecccHhHHHHHHHHHHCCCeEEEee
Confidence 4777889999999999999999999999999999999999976
No 24
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=91.16 E-value=0.6 Score=32.54 Aligned_cols=49 Identities=18% Similarity=0.283 Sum_probs=38.1
Q ss_pred HCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc-CCeEEEEec
Q 034414 35 AMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS-HSLCLLRIA 88 (95)
Q Consensus 35 ~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~-~~v~v~~~~ 88 (95)
..+++++.. +-.|||.|-.+|.+.. .++|+|+|+.| |-+. .+|-+....
T Consensus 74 ~er~~~~~~-~~~aDe~i~~~a~~~~----~~iVaTnD~eLk~rlr~~GIPvi~lr 124 (136)
T COG1412 74 AERLECIHK-GRYADECLLEAALKHG----RYIVATNDKELKRRLRENGIPVITLR 124 (136)
T ss_pred hhccCcccc-CCChHHHHHHHHHHcC----CEEEEeCCHHHHHHHHHcCCCEEEEe
Confidence 457778887 8888999998876553 79999999999 8765 477666553
No 25
>cd01012 YcaC_related YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them. Multimerisation interface seems not to be conserved in all members.
Probab=90.78 E-value=0.62 Score=31.89 Aligned_cols=43 Identities=21% Similarity=0.414 Sum_probs=39.2
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+.+.|+..|+..+..-|..+|=++.+-+..+...|++|++++
T Consensus 78 ~L~~~L~~~gi~~lii~G~~T~~CV~~Ta~~a~~~g~~v~v~~ 120 (157)
T cd01012 78 AFRKALKATGRKQVVLAGLETHVCVLQTALDLLEEGYEVFVVA 120 (157)
T ss_pred HHHHHHHhcCCCEEEEEEeeccHHHHHHHHHHHHCCCEEEEEe
Confidence 4677888999999999999999999999999999999999975
No 26
>PRK11440 putative hydrolase; Provisional
Probab=90.37 E-value=0.75 Score=32.34 Aligned_cols=43 Identities=16% Similarity=0.265 Sum_probs=39.0
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+..+|...|+..+..-|.+++=++.+-+..+...|++|++++
T Consensus 111 ~L~~~L~~~gi~~lii~Gv~T~~CV~~Ta~~A~~~gy~v~vv~ 153 (188)
T PRK11440 111 DLELQLRRRGIDTIVLCGISTNIGVESTARNAWELGFNLVIAE 153 (188)
T ss_pred CHHHHHHHCCCCEEEEeeechhHHHHHHHHHHHHCCCEEEEec
Confidence 3666788999999999999999999999999999999999975
No 27
>TIGR00028 Mtu_PIN_fam Mycobacterium tuberculosis PIN domain family. Members of this protein consist almost entirely of a PIN (PilT N terminus) domain (see Pfam pfam01850). This family was originally defined a set of twelve closely related paralogs found in Mycobacterium tuberculosis. Two more are now found in Synechococcus sp. WH8102. The specific function is unknown but may be in signal transduction.
Probab=90.14 E-value=0.39 Score=31.33 Aligned_cols=36 Identities=14% Similarity=0.159 Sum_probs=24.7
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEEecc
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLRIAP 89 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~~k 89 (95)
-+|-+|+..|... | ..++|.|+|| +. +++++++|.-
T Consensus 105 ~~D~~i~a~A~~~---~--~~lvT~D~~f~~~--~~~~i~~P~~ 141 (142)
T TIGR00028 105 VTDAHLAALAREH---G--AELVTFDRGFARF--AGIRWRDPLT 141 (142)
T ss_pred chHHHHHHHHHHc---C--CEEEecCCCcccc--CCCeeeCCCC
Confidence 4677777655433 3 4677999999 64 5788888753
No 28
>cd01013 isochorismatase Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological systems. Isochorismatase is part of the phenazine biosynthesis pathway. Phenazines are antimicrobial compounds that provide the competitive advantage for certain bacteria.
Probab=89.85 E-value=0.66 Score=33.27 Aligned_cols=43 Identities=21% Similarity=0.068 Sum_probs=39.5
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+.++|...|+..+.+-|.++|=++-+-|..+...|++|+|++
T Consensus 132 ~L~~~Lr~~gi~~lii~Gv~T~~CV~~Ta~~A~~~Gy~v~vv~ 174 (203)
T cd01013 132 PLLERLKESGRDQLIITGVYAHIGCLSTAVDAFMRDIQPFVVA 174 (203)
T ss_pred CHHHHHHHcCCCEEEEEEeccChhHHHHHHHHHHCCCeEEEec
Confidence 4677889999999999999999999999999999999999976
No 29
>TIGR03614 RutB pyrimidine utilization protein B. RL Proc Natl Acad Sci U S A. 2006 Mar 28;103(13):5114-9. Epub 2006 Mar 15.
Probab=89.65 E-value=0.85 Score=33.23 Aligned_cols=43 Identities=12% Similarity=0.140 Sum_probs=39.9
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+..+|...|+..+..-|...|=++.+-+..+...|++|+|++
T Consensus 141 ~L~~~Lr~~gI~~lvi~Gv~T~~CV~sTar~A~~~Gy~v~vv~ 183 (226)
T TIGR03614 141 PLDSMLRARGIRNLVFTGIATNVCVESTLRDGFHLEYFGVVLE 183 (226)
T ss_pred CHHHHHHHCCCCEEEEeccCccHhHHHHHHHHHHCCCEEEEec
Confidence 3778889999999999999999999999999999999999976
No 30
>cd01014 nicotinamidase_related Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia.
Probab=89.03 E-value=1 Score=30.70 Aligned_cols=44 Identities=16% Similarity=0.287 Sum_probs=39.3
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
+.+.+.|...|+..+..-|..+|=++.+-|..+.+.|++|+|++
T Consensus 88 t~l~~~L~~~gi~~viv~G~~td~CV~~Ta~~a~~~g~~v~vi~ 131 (155)
T cd01014 88 TDLEEWLREAGIDHLVICGAMTEMCVDTTVRSAFDLGYDVTVVA 131 (155)
T ss_pred CCHHHHHHHCCCCEEEEEeeccchhHHHHHHHHHHCCCcEEEec
Confidence 34677889999999999999999999998988999999999975
No 31
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=88.51 E-value=2.7 Score=26.05 Aligned_cols=42 Identities=24% Similarity=0.246 Sum_probs=31.4
Q ss_pred HCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCC
Q 034414 35 AMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHS 81 (95)
Q Consensus 35 ~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~ 81 (95)
.+|++++..|+ ||+--.|.|.+ .|.==.|+|.|.|+ -.-.+.
T Consensus 2 ~~gi~~i~AP~-eAeAq~A~L~~----~g~vdav~s~D~D~llfG~~~ 44 (73)
T smart00484 2 LMGIPYIVAPY-EAEAQCAYLAK----SGLVDAIITEDSDLLLFGAPR 44 (73)
T ss_pred cCCCeEEEcCC-cHHHHHHHHHh----CCCeeEEEcCccceEecCCcE
Confidence 47999999998 99988887775 34333699999999 443343
No 32
>PLN02621 nicotinamidase
Probab=88.36 E-value=1.1 Score=31.86 Aligned_cols=43 Identities=19% Similarity=0.307 Sum_probs=38.9
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+.++|...|+..+.+-|.++|=++-+-+..+.+.|++|++++
T Consensus 117 ~L~~~L~~~gi~~lvi~Gv~T~~CV~~Ta~~a~~~gy~v~v~~ 159 (197)
T PLN02621 117 RLEERLRKIGVKEVIVTGVMTNLCCETTAREAFVRGFRVFFST 159 (197)
T ss_pred cHHHHHHHCCCCEEEEEecccchhHHHHHHHHHHCCCEEEEec
Confidence 4677788999999999999999999999998999999999974
No 33
>PF00857 Isochorismatase: Isochorismatase family; InterPro: IPR000868 This is a family of hydrolase enzymes. Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate (3.3.2.1 from EC).; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1XN4_A 3KL2_F 1YZV_A 3IRV_A 1IM5_A 1ILW_A 3PL1_A 1NF9_A 1NF8_A 1X9G_A ....
Probab=87.84 E-value=0.94 Score=30.81 Aligned_cols=43 Identities=23% Similarity=0.350 Sum_probs=37.9
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+.++|...|+..+.+-|+.+|=+|-+-+..+.+.|++|+|++
T Consensus 102 ~L~~~L~~~gi~~vil~G~~t~~CV~~Ta~~a~~~g~~v~v~~ 144 (174)
T PF00857_consen 102 DLDEILRKRGIDTVILCGVATDVCVLATARDAFDRGYRVIVVE 144 (174)
T ss_dssp SHHHHHHHTTESEEEEEEESTTTHHHHHHHHHHHTT-EEEEEE
T ss_pred cccccccccccceEEEcccccCcEEehhHHHHHHCCCEEEEEC
Confidence 3667788899999999999999999999999999999999976
No 34
>COG1335 PncA Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=87.09 E-value=1.7 Score=30.52 Aligned_cols=43 Identities=21% Similarity=0.357 Sum_probs=39.1
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+..+|+..|+..+..-|..+|=++-+-+..+...|++|++++
T Consensus 123 ~L~~~Lr~~~i~~l~v~G~~td~CV~~T~~~A~~~gy~v~v~~ 165 (205)
T COG1335 123 DLDDILRNLGIDTVVVCGIATDICVLATARDAFDLGYQVTLVE 165 (205)
T ss_pred CHHHHHHHCCCCEEEEeeeehhHHHHHHHHHHHHCCCeEEEeh
Confidence 4777888899999999999999999999999999999998865
No 35
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=86.89 E-value=0.42 Score=30.77 Aligned_cols=42 Identities=19% Similarity=0.169 Sum_probs=31.3
Q ss_pred CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc--ccc-cCCeEEEEeccC
Q 034414 45 GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS--QIL-SHSLCLLRIAPR 90 (95)
Q Consensus 45 g~EADDvIatla~~~~~~~~~v~IvS~DkDl--QLv-~~~v~v~~~~k~ 90 (95)
+.-|||.|-.++. +.+. .+|+|.|++| +|- .++|-++.+.+.
T Consensus 50 ~~~addci~~~~~---~~~~-~~VaT~D~~Lr~~lr~~~GvPvi~l~~~ 94 (101)
T PF04900_consen 50 PGSADDCILDLAG---KNNK-YIVATQDKELRRRLRKIPGVPVIYLRRN 94 (101)
T ss_pred CcCHHHHHHHHhc---cCCe-EEEEecCHHHHHHHhcCCCCCEEEEECC
Confidence 3568999988885 2222 8999999999 566 578888877543
No 36
>cd01011 nicotinamidase Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is also called pyrazinamidase, because in converts the tuberculosis drug pyrazinamide (PZA) into its active form pyrazinoic acid (POA).
Probab=85.48 E-value=1.9 Score=30.67 Aligned_cols=44 Identities=20% Similarity=0.416 Sum_probs=40.3
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
..+.++|...|+..+.+-|...|=++.+-+..+...|++|+|++
T Consensus 127 t~L~~~L~~~~i~~lii~G~~t~~CV~~T~~~a~~~g~~v~v~~ 170 (196)
T cd01011 127 TGLAEYLRERGIDRVDVVGLATDYCVKATALDALKAGFEVRVLE 170 (196)
T ss_pred hhHHHHHHHCCCCEEEEEEecccHHHHHHHHHHHHCCCEEEEec
Confidence 45788899999999999999999999999999999999999976
No 37
>PRK11609 nicotinamidase/pyrazinamidase; Provisional
Probab=85.23 E-value=1.9 Score=30.80 Aligned_cols=43 Identities=16% Similarity=0.312 Sum_probs=39.3
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.+..+|...|+..+..-|...|=++-+-+..+...|++|+|++
T Consensus 132 ~L~~~L~~~gi~~lii~G~~T~~CV~~Ta~dA~~~gy~v~v~~ 174 (212)
T PRK11609 132 ALDDWLREHGITELIVMGLATDYCVKFTVLDALALGYQVNVIT 174 (212)
T ss_pred cHHHHHHHcCCCEEEEEEeccCHHHHHHHHHHHHCCCEEEEEe
Confidence 4677889999999999999999999999999999999999975
No 38
>PTZ00331 alpha/beta hydrolase; Provisional
Probab=83.90 E-value=2.4 Score=30.74 Aligned_cols=44 Identities=25% Similarity=0.283 Sum_probs=39.5
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
..+.++|+..|+..+..-|.+.|=++.+-+..+...|++|+|++
T Consensus 135 t~L~~~L~~~gi~~lvi~G~~t~~CV~~Ta~~a~~~g~~v~vv~ 178 (212)
T PTZ00331 135 TGLAQILKAHGVRRVFICGLAFDFCVLFTALDAVKLGFKVVVLE 178 (212)
T ss_pred chHHHHHHHCCCCEEEEEEeccCHHHHHHHHHHHHCCCEEEEeC
Confidence 34667888999999999999999999999998999999999976
No 39
>COG2266 GTP:adenosylcobinamide-phosphate guanylyltransferase [Coenzyme metabolism]
Probab=78.59 E-value=5.6 Score=28.97 Aligned_cols=44 Identities=32% Similarity=0.335 Sum_probs=30.9
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
-|..++++.+.|+++++.+ ||+.| +-..+ ..-|-+++++|+|==
T Consensus 52 tp~t~~~~~~~gv~vi~tpG~GYv~D-l~~al----~~l~~P~lvvsaDLp 97 (177)
T COG2266 52 TPKTKEYLESVGVKVIETPGEGYVED-LRFAL----ESLGTPILVVSADLP 97 (177)
T ss_pred CHhHHHHHHhcCceEEEcCCCChHHH-HHHHH----HhcCCceEEEecccc
Confidence 3567888889999999987 68776 33322 223448999998843
No 40
>TIGR00305 probable toxin-antitoxin system toxin component, PIN family. This uncharacterized protein family, part of the PIN domain superfamily, is restricted to bacteria and archaea. A comprehensive in silico study of toxin-antitoxin systems by Makarova, et al. (2009) finds evidence this family represents the toxin-like component of one class of type 2 toxin-antitoxin systems.
Probab=77.37 E-value=2.5 Score=27.32 Aligned_cols=27 Identities=15% Similarity=0.073 Sum_probs=18.1
Q ss_pred CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 45 GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 45 g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.-..|+.+...|.... -=.|+|+||||
T Consensus 85 ~D~~D~~~l~~A~~~~----ad~iVT~Dkdl 111 (114)
T TIGR00305 85 RDKKDNKFLNTAYASK----ANALITGDTDL 111 (114)
T ss_pred CCchhHHHHHHHHhcC----CCEEEECCHHH
Confidence 3455788776665432 22689999998
No 41
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=76.81 E-value=5.5 Score=27.36 Aligned_cols=48 Identities=13% Similarity=0.213 Sum_probs=33.9
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
+..+-..|..+|+.++..++.+=++++ .+|.. -+=+|+|.|++| ....
T Consensus 9 L~~Lar~LR~lG~Dt~~~~~~~D~~il-~~A~~-----e~RillTrd~~l~~~~~ 57 (147)
T PF01927_consen 9 LGRLARWLRLLGYDTLYSRDIDDDEIL-ELARE-----EGRILLTRDRDLLKRRR 57 (147)
T ss_pred HHHHHHHHHHCCCcEEEeCCCChHHHH-HHhhh-----CCeEEEECCHHHHHHhh
Confidence 566777899999999998877444444 44432 156788999999 5543
No 42
>smart00670 PINc Large family of predicted nucleotide-binding domains. From similarities to 5'-exonucleases, these domains are predicted to be RNases. PINc domains in nematode SMG-5 and yeast NMD4p are predicted to be involved in RNAi.
Probab=72.07 E-value=3.7 Score=25.55 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=18.1
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.|+.|..+|.... .++|+|.|+++
T Consensus 86 ~D~~il~~a~~~~----~~~lvT~D~~l 109 (111)
T smart00670 86 NDALILATAKELG----NVVLVTNDRDL 109 (111)
T ss_pred ChHHHHHHHHHCC----CCEEEeCCccc
Confidence 4777777676443 68999999997
No 43
>PF01875 Memo: Memo-like protein; InterPro: IPR002737 This entry contains proteins from all branches of life. The molecular function of these proteins are unknown, but Memo (mediator of ErbB2-driven cell motility) a human protein is included in this family []. It has been suggested that Memo controls cell migration by relaying extracellular chemotactic signals to the microtubule cytoskeleton [].; PDB: 3BD0_C 3BCZ_C.
Probab=70.62 E-value=7.1 Score=29.49 Aligned_cols=51 Identities=25% Similarity=0.296 Sum_probs=28.8
Q ss_pred hhHHhHHHHHHHHHH---CCCcEEecC--Ccc-hhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 21 TMVQGLQYLKASIKA---MSIKVIEVP--GVE-ADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 21 ~l~~q~~~i~~~l~~---~gi~~~~~~--g~E-ADDvIatla~~~~~~~~~v~IvS~D 72 (95)
.+.-|+|+|+.++.. .-|--+.+- ..+ +..+...|+....+.+ ..+|+|+|
T Consensus 123 SlEvqlPFLq~~~~~~~~~~IVPI~vg~~~~~~~~~~a~~L~~~~~~~~-~liV~SsD 179 (276)
T PF01875_consen 123 SLEVQLPFLQYLFPDRRDFKIVPILVGDQSPETAKELAEALAEYLKDEG-TLIVASSD 179 (276)
T ss_dssp TTGGGHHHHHHHTGGGTS-EEEEEEE-S--HHHHHHHHHHHHHHHTSTT-EEEEEE--
T ss_pred cEEEHHHHHHHHhccCCceEEEEEEecCCCHHHHHHHHHHHHHHHcCCC-EEEEEeCc
Confidence 367799999999987 444333332 222 2345555555454444 78889987
No 44
>KOG1159 consensus NADP-dependent flavoprotein reductase [Energy production and conversion]
Probab=66.65 E-value=14 Score=31.24 Aligned_cols=49 Identities=22% Similarity=0.219 Sum_probs=40.4
Q ss_pred cchhHHHHHHHHHhhhCCCcEEEEcCC-CCc-ccccCCeEEEEe-ccCCccc
Q 034414 46 VEADDVIGKLAVRSVDDGFKIQVVSPN-KDS-QILSHSLCLLRI-APRGFEL 94 (95)
Q Consensus 46 ~EADDvIatla~~~~~~~~~v~IvS~D-kDl-QLv~~~v~v~~~-~k~~~~~ 94 (95)
=-|-|+.-.|.+.+.+.|+.+.++|-| -|+ +|+++...|+-. |.+.|||
T Consensus 12 GtA~dvAe~l~Re~~r~~~~~~V~s~Deyd~~~ll~~~~vvFVcSTTGqGe~ 63 (574)
T KOG1159|consen 12 GTAQDVAESLGREAHRRGLQCLVMSMDEYDVEKLLDERLVVFVCSTTGQGEE 63 (574)
T ss_pred ccHHHHHHHHHHHHHhccCCceEeeccccCHhHhccCceEEEEEecCCCCCC
Confidence 358899999999999999999998876 588 999998877764 6677775
No 45
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=66.47 E-value=25 Score=24.54 Aligned_cols=50 Identities=10% Similarity=0.203 Sum_probs=33.6
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS 75 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl 75 (95)
-+.+..+++.+|+.+.... .-+.+++..++.......+..++|.|+ ++|+
T Consensus 24 ~~~l~~~L~~~G~~v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVIttGGtg~g~~D~ 80 (163)
T TIGR02667 24 GQYLVERLTEAGHRLADRAIVKDDIYQIRAQVSAWIADPDVQVILITGGTGFTGRDV 80 (163)
T ss_pred HHHHHHHHHHCCCeEEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEECCCcCCCCCCC
Confidence 4567888999999866543 455566667666543335689999885 5665
No 46
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=65.97 E-value=21 Score=24.76 Aligned_cols=50 Identities=12% Similarity=0.170 Sum_probs=37.8
Q ss_pred HHHHHHHCCCcEEec-CCcchhHHHHHHHHHhhhCCCcEEEEcCCC---Cc-cccc
Q 034414 29 LKASIKAMSIKVIEV-PGVEADDVIGKLAVRSVDDGFKIQVVSPNK---DS-QILS 79 (95)
Q Consensus 29 i~~~l~~~gi~~~~~-~g~EADDvIatla~~~~~~~~~v~IvS~Dk---Dl-QLv~ 79 (95)
..+.+...|+..... ++..+++++..+..+ ...+.+|++..+++ ++ +.+.
T Consensus 88 Ta~~l~~~g~~~~~~~~~~~~~~L~~~i~~~-~~~~~~il~~~g~~~~~~l~~~L~ 142 (239)
T cd06578 88 TAEALREAGLTADFVPEEGDSEGLLELLELQ-DGKGKRILRPRGGRAREDLAEALR 142 (239)
T ss_pred HHHHHHHcCCCceeCCCccCHHHHHHHHHhc-CCCCCEEEEEcCcchhHHHHHHHH
Confidence 445677889987776 789999999888875 33577999999886 66 6554
No 47
>COG3959 Transketolase, N-terminal subunit [Carbohydrate transport and metabolism]
Probab=64.53 E-value=17 Score=27.80 Aligned_cols=42 Identities=21% Similarity=0.323 Sum_probs=32.5
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEE
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVV 69 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~Iv 69 (95)
.+..-++++|+.+++++|..=.-|++++-+.....|.+.+|+
T Consensus 196 pL~~k~eAFGw~V~evdG~d~~~i~~a~~~~~~~~~rP~~II 237 (243)
T COG3959 196 PLADKWEAFGWEVIEVDGHDIEEIVEALEKAKGSKGRPTVII 237 (243)
T ss_pred hhHHHHHhcCceEEEEcCcCHHHHHHHHHhhhccCCCCeEEE
Confidence 366678999999999999999999998887655444555544
No 48
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=64.37 E-value=43 Score=23.85 Aligned_cols=62 Identities=8% Similarity=0.020 Sum_probs=40.0
Q ss_pred HHHHHHHHHHCC---CcEEecCC-------cchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccc--cCCeEEEEe
Q 034414 26 LQYLKASIKAMS---IKVIEVPG-------VEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QIL--SHSLCLLRI 87 (95)
Q Consensus 26 ~~~i~~~l~~~g---i~~~~~~g-------~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv--~~~v~v~~~ 87 (95)
...+.++++.++ -.++..+. .+++.+...+.....+.+..++++|.|-++ .++ .++|..+..
T Consensus 91 ~~~~~~iL~~~~~~~p~llllDEp~~glD~~~~~~l~~~ll~~l~~~~~tiiivTH~~~~~~~~~~~~~v~~~~~ 165 (199)
T cd03283 91 LRRLKEIVEKAKKGEPVLFLLDEIFKGTNSRERQAASAAVLKFLKNKNTIGIISTHDLELADLLDLDSAVRNYHF 165 (199)
T ss_pred HHHHHHHHHhccCCCCeEEEEecccCCCCHHHHHHHHHHHHHHHHHCCCEEEEEcCcHHHHHhhhcCCCeEEEEE
Confidence 456788888877 23444332 234455544444445567889999999999 877 578877653
No 49
>PF13638 PIN_4: PIN domain; PDB: 2HWW_C 2HWX_A 2DOK_B 2HWY_B 2WP8_J.
Probab=63.30 E-value=3.5 Score=26.92 Aligned_cols=40 Identities=20% Similarity=0.220 Sum_probs=24.9
Q ss_pred cchhHHHHHHHHHhhhC--CCcEEEEcCCCCc-c-cccCCeEEE
Q 034414 46 VEADDVIGKLAVRSVDD--GFKIQVVSPNKDS-Q-ILSHSLCLL 85 (95)
Q Consensus 46 ~EADDvIatla~~~~~~--~~~v~IvS~DkDl-Q-Lv~~~v~v~ 85 (95)
-..||.|-..|..+... +.+|+++|.|+.+ . ....++.+.
T Consensus 87 ~~~D~~Il~~a~~~~~~~~~~~vvLvT~D~~l~~~A~~~gi~~~ 130 (133)
T PF13638_consen 87 QRNDDRILNCALYLQEENPGRKVVLVTNDKNLRLKARAEGIPAV 130 (133)
T ss_dssp -HHHHHHHHHHHHHHHHCGCEEEEEEE--HHHHHHHHHTT--EE
T ss_pred cccHHHHHHHHHHHHHhcCCCeEEEEeCCHHHHHHHhhcccccc
Confidence 47888887777766553 6799999999998 3 233555544
No 50
>KOG4700 consensus Uncharacterized homolog of ribosome-binding factor A [General function prediction only]
Probab=62.83 E-value=11 Score=27.96 Aligned_cols=40 Identities=20% Similarity=0.136 Sum_probs=29.8
Q ss_pred hHHHHH--HHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEEeccCCcc
Q 034414 49 DDVIGK--LAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLRIAPRGFE 93 (95)
Q Consensus 49 DDvIat--la~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~~k~~~~ 93 (95)
-||+|| .|.-....+-++-=|+-+.|| | ++||=-.+++||
T Consensus 44 tdvlaTgava~~l~~l~vqiS~V~vt~dFS~-----~~vYWm~~~~ge 86 (207)
T KOG4700|consen 44 TDVLATGAVAEMLGRLQVQISRVRVTRDFSQ-----VSVYWMCRGDGE 86 (207)
T ss_pred HHHHhchHHHHHHhhcceeEEEEEeccchhh-----heeEEEecCCcc
Confidence 378888 555566667788889999999 8 466655677776
No 51
>PF00456 Transketolase_N: Transketolase, thiamine diphosphate binding domain; InterPro: IPR005474 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; PDB: 3M49_B 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 3HYL_A 3RIM_A ....
Probab=62.82 E-value=21 Score=27.99 Aligned_cols=43 Identities=16% Similarity=0.319 Sum_probs=31.8
Q ss_pred HHHHHHHHHCCCcEEec-CCcchhHHHHHHHHHhhhCCCcEEEE
Q 034414 27 QYLKASIKAMSIKVIEV-PGVEADDVIGKLAVRSVDDGFKIQVV 69 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~-~g~EADDvIatla~~~~~~~~~v~Iv 69 (95)
..+.+-++++|+.++++ +|.--+.|..++...-...+.+++|+
T Consensus 196 ~~~~~k~~a~Gw~v~~v~dGhd~~~i~~A~~~a~~~~~kP~~Ii 239 (332)
T PF00456_consen 196 EDIAKKFEAFGWNVIEVCDGHDVEAIYAAIEEAKASKGKPTVII 239 (332)
T ss_dssp SHHHHHHHHTT-EEEEEEETTBHHHHHHHHHHHHHSTSS-EEEE
T ss_pred hHHHHHHHHhhhhhcccccCcHHHHHHHHHHHHHhcCCCCceee
Confidence 34577799999999998 99999999999886544446666554
No 52
>PF10673 DUF2487: Protein of unknown function (DUF2487); InterPro: IPR019615 This entry represents proteins with unknown function that appears to be restricted to Bacillus sp.
Probab=61.92 E-value=21 Score=24.96 Aligned_cols=27 Identities=7% Similarity=0.281 Sum_probs=21.1
Q ss_pred HHHHHHHHHhhhCCC-cEEEEcCCCCcc
Q 034414 50 DVIGKLAVRSVDDGF-KIQVVSPNKDSQ 76 (95)
Q Consensus 50 DvIatla~~~~~~~~-~v~IvS~DkDlQ 76 (95)
+-+..++.+..+.|+ +|+++|+|.+|+
T Consensus 71 ~~L~~w~~~l~~~GFkhV~~lT~D~~Wk 98 (142)
T PF10673_consen 71 ERLNDWCEELKESGFKHVFYLTSDSEWK 98 (142)
T ss_pred HHHHHHHHHHHhcCCcEEEEEecCcccc
Confidence 345666777777777 788999999995
No 53
>COG1015 DeoB Phosphopentomutase [Carbohydrate transport and metabolism]
Probab=61.46 E-value=26 Score=28.50 Aligned_cols=68 Identities=18% Similarity=0.181 Sum_probs=48.5
Q ss_pred hhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEE-ecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCcccccCCe
Q 034414 9 PSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVI-EVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILSHSL 82 (95)
Q Consensus 9 p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~-~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~~~v 82 (95)
+.|...=..-|++| +.++.+.-|.+++ --.-+-.++||.-+.....+.|..++.-|.|.=||+....+
T Consensus 102 ~~f~~~~~~fp~el------~~~i~~~~g~~~i~gN~~asGT~ii~~lGe~h~~Tg~~IvYTSaDsV~QIaahE~ 170 (397)
T COG1015 102 GYFPDTVNGFPEEL------LDEIERRTGRKGILGNKHASGTEIIKDLGEEHMKTGKPIVYTSADSVFQIAAHEE 170 (397)
T ss_pred cccccccccChHHH------HHHHHhhcCCceEeccCccchhHHHHHhhHHHHhcCCeEEEecCCchhheeeecc
Confidence 33444334556666 3444556788988 44467789999999998888898999999996669887543
No 54
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=61.26 E-value=39 Score=22.81 Aligned_cols=52 Identities=13% Similarity=0.161 Sum_probs=35.7
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc--cccc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS--QILS 79 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl--QLv~ 79 (95)
-+.+...|+.+|+.+.... .-+.+++...+.+.. .+..++|+|+ ++|+ +.+.
T Consensus 29 ~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~--~~~DliIttGG~g~g~~D~t~~ai~ 89 (144)
T TIGR00177 29 GPLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAV--DEADVVLTTGGTGVGPRDVTPEALE 89 (144)
T ss_pred HHHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHH--hCCCEEEECCCCCCCCCccHHHHHH
Confidence 4668889999999876654 446667777665533 2578999876 5666 4444
No 55
>PLN02743 nicotinamidase
Probab=60.29 E-value=14 Score=27.60 Aligned_cols=42 Identities=26% Similarity=0.286 Sum_probs=35.7
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHH---HHHHHhhhCCC-----cEEEEc
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIG---KLAVRSVDDGF-----KIQVVS 70 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIa---tla~~~~~~~~-----~v~IvS 70 (95)
+.+.|...|+..+.+-|...|=++- +-++.+...|+ +|+|++
T Consensus 142 L~~~Lr~~gI~~liv~Gv~T~~CV~~~~sTardA~~~Gy~~~~~~V~Vv~ 191 (239)
T PLN02743 142 FVDWVNNNKIKVILVVGICTDICVLDFVASALSARNHGILPPLEDVVVYS 191 (239)
T ss_pred HHHHHHHCCCCEEEEEEeCcchhccChHHHHHHHHHcCCCCCCceEEEeC
Confidence 4567889999999999999999994 66777888899 899876
No 56
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=59.74 E-value=49 Score=24.29 Aligned_cols=35 Identities=11% Similarity=0.169 Sum_probs=30.5
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhh
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSV 60 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~ 60 (95)
...+.++|+.+|+.+....+..+.++...+..-..
T Consensus 32 ~~~l~~~f~~lgF~V~~~~dlt~~em~~~l~~~~~ 66 (241)
T smart00115 32 AENLTELFQSLGYEVHVKNNLTAEEMLEELKEFAE 66 (241)
T ss_pred HHHHHHHHHHCCCEEEEecCCCHHHHHHHHHHHHh
Confidence 56688899999999999999999999999876544
No 57
>cd02012 TPP_TK Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.
Probab=59.57 E-value=34 Score=25.17 Aligned_cols=49 Identities=20% Similarity=0.333 Sum_probs=35.8
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCc-EEEEcCCCCc
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFK-IQVVSPNKDS 75 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~-v~IvS~DkDl 75 (95)
..+.+.++++|+.++.++|...+++..++.......+.+ ++++...|..
T Consensus 181 ~~~~~~~~a~G~~~~~v~G~d~~~l~~al~~a~~~~~~P~~I~~~t~kg~ 230 (255)
T cd02012 181 EDLAKKFEAFGWNVIEVDGHDVEEILAALEEAKKSKGKPTLIIAKTIKGK 230 (255)
T ss_pred hhHHHHHHHcCCeEEEECCCCHHHHHHHHHHHHHcCCCCEEEEEEeeccc
Confidence 446678899999999999999999999887644332333 5556666665
No 58
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=59.48 E-value=10 Score=27.79 Aligned_cols=40 Identities=20% Similarity=0.278 Sum_probs=28.0
Q ss_pred cCCcchhHHHHHHHHHhhhCCCcEE-EEcCCCCc-cccc--CCeEEEEe
Q 034414 43 VPGVEADDVIGKLAVRSVDDGFKIQ-VVSPNKDS-QILS--HSLCLLRI 87 (95)
Q Consensus 43 ~~g~EADDvIatla~~~~~~~~~v~-IvS~DkDl-QLv~--~~v~v~~~ 87 (95)
..|.=|||+|--=+.+ ++++ +.|+|+|| |=+. |+|-+...
T Consensus 133 HKGTYADDClv~RV~q-----HkCYIVAT~D~dLK~RIrkIPGVPim~v 176 (195)
T KOG3165|consen 133 HKGTYADDCLVQRVTQ-----HKCYIVATNDRDLKQRIRKIPGVPIMYV 176 (195)
T ss_pred cCCcchhhHHHHHHhh-----cceEEEEeccHHHHHHHhcCCCCceEEE
Confidence 3688899997543332 3444 57999999 9887 77776654
No 59
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=58.60 E-value=42 Score=22.82 Aligned_cols=54 Identities=13% Similarity=0.161 Sum_probs=35.3
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc--cccc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS--QILS 79 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl--QLv~ 79 (95)
-+.+..++...|+.+.... .-+.+++..++.....+.+..++|.|+ ++|+ +.+.
T Consensus 22 ~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVittGG~s~g~~D~t~~al~ 84 (152)
T cd00886 22 GPALVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLILTTGGTGLAPRDVTPEATR 84 (152)
T ss_pred HHHHHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEECCCcCCCCCcCcHHHHH
Confidence 4567888999998765543 455566667666544322678888774 6777 5544
No 60
>KOG2518 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=58.00 E-value=19 Score=30.46 Aligned_cols=47 Identities=15% Similarity=0.240 Sum_probs=35.1
Q ss_pred HHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCe
Q 034414 31 ASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSL 82 (95)
Q Consensus 31 ~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v 82 (95)
+.|...|+.++.. .||||=-++.|.+ .|.-=-|+|-|.|| +.-...|
T Consensus 135 ~~~r~~nVe~IVA-PyEADAQlayL~~----~~~i~~IITEDSDLl~fGc~~v 182 (556)
T KOG2518|consen 135 QYLRSQNVEYIVA-PYEADAQLAYLER----EGIVDAIITEDSDLLVFGCKKV 182 (556)
T ss_pred HHHHHcCCceEec-CccccchhHHHHh----cCcceEEEeccccccccCchhh
Confidence 3566778888655 5999999998873 34444588999999 8877654
No 61
>TIGR01370 cysRS possible cysteinyl-tRNA synthetase, Methanococcus type. Assignment of this protein family as cysteinyl-tRNA synthetase is controversial, supported by PubMed:11333988 but challenged by PubMed:14679218. Members of this family from Deinococcus radiodurans (bacterial) and Methanococcus jannaschii (archaeal), species lacking a conventional cysteinyl-tRNA synthetase (Cys--tRNA ligase), have been indicated to be a novel form of that enzyme, perhaps distantly related to class I tRNA ligases. The member from Thermotoga maritima is presumed to be a second isozyme of cysteinyl-tRNA synthetase. A number of homologous but more distantly related proteins are annotated as alpha-1,4 polygalactosaminidases.
Probab=56.92 E-value=40 Score=26.41 Aligned_cols=57 Identities=16% Similarity=0.064 Sum_probs=39.8
Q ss_pred CChhhHHhHHHHHHHHHHCCCcEEecCCcc-h------hHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 18 TPDTMVQGLQYLKASIKAMSIKVIEVPGVE-A------DDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 18 ~p~~l~~q~~~i~~~l~~~gi~~~~~~g~E-A------DDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
+.++....+..++.+... |++++..+=.. + -.++..+++++.+.|+.-+|..+|.++
T Consensus 246 ~e~dr~~~l~~L~~~~~~-G~~Vl~IDY~~~~~~~~~n~~~~~~~~~~~~~~Gf~pYVsd~~l~l 309 (315)
T TIGR01370 246 TEAERQRRLLALYRLWQQ-GKFVLTVDYVDDGTKTNENPARMKDAAEKARAAGLIPYVAESDLEL 309 (315)
T ss_pred CHHHHHHHHHHHHHHHHC-CCcEEEEEecCCcccchhhHHHHHHHHHHHHHcCCeeeecCchhcc
Confidence 344555556667776555 99999876333 2 367888899999999977776666665
No 62
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=52.96 E-value=45 Score=23.40 Aligned_cols=45 Identities=18% Similarity=0.169 Sum_probs=31.6
Q ss_pred HHHHHHHHHCCCcEEecCCcch--hHHHHHHHHHhhhCCCcEEEEcC
Q 034414 27 QYLKASIKAMSIKVIEVPGVEA--DDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EA--DDvIatla~~~~~~~~~v~IvS~ 71 (95)
+.+.+.|...|+.+.+.+-|+- +.....+.......+..+++++|
T Consensus 130 ~~l~~~L~~~g~~v~~~~vY~~~~~~~~~~~~~~l~~~~~~~v~ftS 176 (231)
T PF02602_consen 130 PDLPEKLREAGIEVTEVIVYETPPEELSPELKEALDRGEIDAVVFTS 176 (231)
T ss_dssp HHHHHHHHHTTEEEEEEECEEEEEHHHHHHHHHHHHHTTTSEEEESS
T ss_pred HHHHHHHHHCCCeEEEEEEeecccccchHHHHHHHHcCCCCEEEECC
Confidence 4466778888999999998888 44444445555555677777775
No 63
>PF11977 RNase_Zc3h12a: Zc3h12a-like Ribonuclease NYN domain; InterPro: IPR021869 This domain is found in the Zc3h12a protein which has shown to be a ribonuclease that controls the stability of a set of inflammatory genes []. It has been suggested that this domain belongs to the PIN domain superfamily []. ; PDB: 3V33_A 3V34_B 3V32_B.
Probab=52.76 E-value=23 Score=24.30 Aligned_cols=34 Identities=21% Similarity=0.175 Sum_probs=19.9
Q ss_pred HCCCcEEecCCcc--------hhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 35 AMSIKVIEVPGVE--------ADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 35 ~~gi~~~~~~g~E--------ADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
..|.-.+...|.. +|=.|-++|... ..+|||+|+
T Consensus 69 ~~~~i~~tp~~~~~g~~~~~ydD~~il~~A~~~-----~a~IVSND~ 110 (155)
T PF11977_consen 69 RKGIIYFTPSGSNYGSRSRNYDDRYILYYAEEK-----DAVIVSNDR 110 (155)
T ss_dssp HTTSEEEE-EEEETTEEEEB-HHHHHHHHHHHT-----T-EEE-S--
T ss_pred HCCeEEEcCCCCCCCCcccccchHHHHHHHHHc-----CCEEEeCch
Confidence 4788777777887 666666666432 568889996
No 64
>KOG2645 consensus Type I phosphodiesterase/nucleotide pyrophosphatase [General function prediction only]
Probab=52.61 E-value=22 Score=29.00 Aligned_cols=30 Identities=33% Similarity=0.471 Sum_probs=23.3
Q ss_pred chhHHHHHHHHHhhhCCC----cEEEEcCCCCc-cc
Q 034414 47 EADDVIGKLAVRSVDDGF----KIQVVSPNKDS-QI 77 (95)
Q Consensus 47 EADDvIatla~~~~~~~~----~v~IvS~DkDl-QL 77 (95)
|-|+.|+.|.+...+++. +++|+| |..| |+
T Consensus 205 ~vD~~i~~L~~~Lk~r~L~~~vNvIi~S-DHGM~~~ 239 (418)
T KOG2645|consen 205 EVDDFIGYLIKGLKDRNLFEDVNVIIVS-DHGMTDI 239 (418)
T ss_pred HHHHHHHHHHHHHHHccccccceEEEee-cCCcccc
Confidence 568999999988777653 566655 9999 88
No 65
>COG1355 Predicted dioxygenase [General function prediction only]
Probab=52.02 E-value=19 Score=28.06 Aligned_cols=51 Identities=16% Similarity=0.173 Sum_probs=32.2
Q ss_pred hHHhHHHHHHHHH-HCCCc--EEecCCcchh-HHHHHHHHHhhhCCCcEEEEcCC
Q 034414 22 MVQGLQYLKASIK-AMSIK--VIEVPGVEAD-DVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 22 l~~q~~~i~~~l~-~~gi~--~~~~~g~EAD-DvIatla~~~~~~~~~v~IvS~D 72 (95)
+.-|+|+|+-++. ..-|- ++.....|-+ |+...+++...+.|..++|.|+|
T Consensus 137 iEvQlPFLqy~f~~~fKIVPi~m~~q~~~~a~~ig~~i~k~i~e~~~~liIaSSD 191 (279)
T COG1355 137 IEVQLPFLQYLFGDEFKIVPICMGMQDKEVARDIGRAIAKVIKELGDALIIASSD 191 (279)
T ss_pred EEeehHHHHHHccCCcEEEeEEEecccHHHHHHHHHHHHHHHhhcCCeEEEEecC
Confidence 5669999998886 33333 2334455544 55555555556656578889987
No 66
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=51.72 E-value=66 Score=23.54 Aligned_cols=34 Identities=12% Similarity=0.195 Sum_probs=29.7
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHh
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRS 59 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~ 59 (95)
...+.++|+.+|+.+....+..++++.-.+..-.
T Consensus 34 ~~~l~~~f~~lgF~V~~~~nlt~~~~~~~l~~f~ 67 (243)
T cd00032 34 AENLTKLFESLGYEVEVKNNLTAEEILEELKEFA 67 (243)
T ss_pred HHHHHHHHHHCCCEEEEeCCCCHHHHHHHHHHHH
Confidence 5668889999999999999999999999887654
No 67
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=51.53 E-value=40 Score=22.98 Aligned_cols=46 Identities=13% Similarity=0.237 Sum_probs=34.4
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCcccccCCeEEEEe
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILSHSLCLLRI 87 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~~~v~v~~~ 87 (95)
.++..++.+++.||+..-..+ . .+|+|-+.|+++=+-+++|+++..
T Consensus 9 r~~~~mkkmMk~MGi~~~eid-V-----------------~~ViIk~~~k~ivf~~p~V~~m~~ 54 (116)
T TIGR00264 9 KMLKQMQKMMKQMGMEMEDLD-V-----------------EEVIIVFDDEEWIFENPKVQVMDI 54 (116)
T ss_pred ccHHHHHHHHHHcCCCccccc-c-----------------EEEEEEeCCceEEEecCeeEEEec
Confidence 356778899999999864332 1 268888889988777788888864
No 68
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=50.78 E-value=51 Score=21.14 Aligned_cols=49 Identities=16% Similarity=0.114 Sum_probs=27.9
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
...+.+.+.+...|+.+..-+...+.+....+.........-|+++|.+
T Consensus 17 ~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~~i~~~i~~s~~~i~vlS~~ 65 (140)
T smart00255 17 EFLSHLLEKLRGYGLCVFIDDFEPGGGDLEEIDEAIEKSRIAIVVLSPN 65 (140)
T ss_pred HHHHHHHHHhhcCCcEEEecCcccccchHHHHHHHHHHCcEEEEEECcc
Confidence 3455666677777888766543322222225555555545567777764
No 69
>KOG0180 consensus 20S proteasome, regulatory subunit beta type PSMB3/PUP3 [Posttranslational modification, protein turnover, chaperones]
Probab=50.73 E-value=20 Score=26.50 Aligned_cols=33 Identities=15% Similarity=0.260 Sum_probs=25.1
Q ss_pred ecCCcchhHHHHHHHHHh---------hhCCCcEEEEcCCCC
Q 034414 42 EVPGVEADDVIGKLAVRS---------VDDGFKIQVVSPNKD 74 (95)
Q Consensus 42 ~~~g~EADDvIatla~~~---------~~~~~~v~IvS~DkD 74 (95)
..|+.|.|++--|+++.. +-.|..|.|++.||=
T Consensus 153 y~pnmepd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdkv 194 (204)
T KOG0180|consen 153 YEPNMEPDELFETISQALLNAVDRDALSGWGAVVYIITKDKV 194 (204)
T ss_pred cCCCCCHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccchh
Confidence 458999999999998763 223567888888873
No 70
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=50.60 E-value=38 Score=21.80 Aligned_cols=33 Identities=9% Similarity=0.276 Sum_probs=24.2
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccC
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSH 80 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~ 80 (95)
|..+++.. ++.+.++|.+|+.+|++.++ ++-++
T Consensus 55 ~t~e~i~~-~~~a~~~g~~iI~IT~~~~l~~~~~~ 88 (119)
T cd05017 55 NTEETLSA-VEQAKERGAKIVAITSGGKLLEMARE 88 (119)
T ss_pred CCHHHHHH-HHHHHHCCCEEEEEeCCchHHHHHHH
Confidence 34455554 44577789999999999999 87763
No 71
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=49.73 E-value=7.1 Score=27.80 Aligned_cols=48 Identities=15% Similarity=0.099 Sum_probs=27.6
Q ss_pred HHHHCCCcEEecCCcchhH----------HHHHHHHHhhh--CCCcEEEEcCCCCc-cccc
Q 034414 32 SIKAMSIKVIEVPGVEADD----------VIGKLAVRSVD--DGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 32 ~l~~~gi~~~~~~g~EADD----------vIatla~~~~~--~~~~v~IvS~DkDl-QLv~ 79 (95)
.+...|+.+...+-.+=-| .||.=+..... .-..++++|+|.|| -++.
T Consensus 68 ~~~~~g~~v~~~~~~~~~~~~~~k~~vDv~la~D~~~l~~~~~~D~ivl~SgD~DF~p~v~ 128 (181)
T COG1432 68 ELRSDGFTVVTSNLDGFTDLRITKGDVDVELAVDAMELADKKNVDTIVLFSGDGDFIPLVE 128 (181)
T ss_pred HHhhcCcEEEeccccccCcccccccCcchhhHHHHHHhhcccCCCEEEEEcCCccHHHHHH
Confidence 4556777776665433333 22222221221 23579999999999 8875
No 72
>COG1569 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=49.42 E-value=9.2 Score=26.96 Aligned_cols=23 Identities=13% Similarity=0.138 Sum_probs=17.6
Q ss_pred EEEEcCCCCc-ccccCC--eEEEEec
Q 034414 66 IQVVSPNKDS-QILSHS--LCLLRIA 88 (95)
Q Consensus 66 v~IvS~DkDl-QLv~~~--v~v~~~~ 88 (95)
=+|+|+|+|+ -|=+++ +.++.|.
T Consensus 106 ~~lvTgD~dLL~lr~~n~~~~Iltp~ 131 (142)
T COG1569 106 DYLVTGDQDLLVLRDENKRVEILTPQ 131 (142)
T ss_pred CEEEEcchhhheecccCCcEEEcCHH
Confidence 3699999999 776655 7877663
No 73
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=48.98 E-value=6.2 Score=27.77 Aligned_cols=37 Identities=16% Similarity=0.195 Sum_probs=28.1
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
-..++.|+.++...|.+|+|.++|.+. +-+++...-|
T Consensus 15 ~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~LWtf 52 (154)
T PRK06646 15 LKSILLLIEKCYYSDLKSVILTADADQQEMLNKNLWTY 52 (154)
T ss_pred HHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHhcCC
Confidence 456777888888889999999999888 7676544433
No 74
>PRK13397 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=48.79 E-value=90 Score=23.73 Aligned_cols=34 Identities=21% Similarity=0.402 Sum_probs=25.2
Q ss_pred hhhcCCCCCCh--h-hHHhHHHHHHHHHHCCCcEEecC
Q 034414 10 SYKNNRPPTPD--T-MVQGLQYLKASIKAMSIKVIEVP 44 (95)
Q Consensus 10 ~YKanR~~~p~--~-l~~q~~~i~~~l~~~gi~~~~~~ 44 (95)
.|| ||..+.. . =.++++.+++.++.+|++++...
T Consensus 50 ~~k-pRts~~sf~G~G~~gl~~L~~~~~~~Gl~~~Tev 86 (250)
T PRK13397 50 AYK-PRTSAASFQGLGLQGIRYLHEVCQEFGLLSVSEI 86 (250)
T ss_pred ccC-CCCCCcccCCCCHHHHHHHHHHHHHcCCCEEEee
Confidence 466 8875432 1 13589999999999999998855
No 75
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=48.70 E-value=69 Score=21.17 Aligned_cols=53 Identities=17% Similarity=0.191 Sum_probs=32.6
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc--ccccC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS--QILSH 80 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl--QLv~~ 80 (95)
-+.+..+++..|+.+.... .-+.+.+-..+.+ +.+ ...++|.|+ +.|+ +.+.+
T Consensus 21 ~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~-~~~-~~DlvittGG~g~g~~D~t~~ai~~ 82 (133)
T cd00758 21 GPALEALLEDLGCEVIYAGVVPDDADSIRAALIE-ASR-EADLVLTTGGTGVGRRDVTPEALAE 82 (133)
T ss_pred HHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHH-HHh-cCCEEEECCCCCCCCCcchHHHHHH
Confidence 4568888999998875543 3333334444433 332 378888874 6777 66654
No 76
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=48.52 E-value=50 Score=19.86 Aligned_cols=27 Identities=19% Similarity=0.281 Sum_probs=20.1
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHH
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKL 55 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatl 55 (95)
....|...|+.++...+-..+|+|..+
T Consensus 66 ~~~~L~~~gI~v~~~~~~~i~~~l~~~ 92 (94)
T PF02579_consen 66 AFRALKEAGIKVYQGAGGDIEEALEAY 92 (94)
T ss_dssp HHHHHHHTTSEEEESTSSBHHHHHHHH
T ss_pred HHHHHHHCCCEEEEcCCCCHHHHHHHH
Confidence 455677778888888888888887655
No 77
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=47.26 E-value=90 Score=22.49 Aligned_cols=45 Identities=9% Similarity=0.148 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHCCCcE--EecCCcchhHHHHHHHHHhhhCCCcEEEE
Q 034414 25 GLQYLKASIKAMSIKV--IEVPGVEADDVIGKLAVRSVDDGFKIQVV 69 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~--~~~~g~EADDvIatla~~~~~~~~~v~Iv 69 (95)
-....-++|+.+|++. -...-+--=|.+..+++.+.++|.+|+|.
T Consensus 17 ~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIA 63 (162)
T COG0041 17 TMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIA 63 (162)
T ss_pred HHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEe
Confidence 3455667788889883 33556667788899999899999999885
No 78
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=47.17 E-value=46 Score=24.02 Aligned_cols=33 Identities=21% Similarity=0.182 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHH
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVR 58 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~ 58 (95)
-|..+-..|.-||+.+.... .+.||-|..++..
T Consensus 14 mLG~LARwLRllGydt~~~~-~~~d~~i~~i~~~ 46 (165)
T COG1656 14 MLGKLARWLRLLGYDTVYSS-NESDDEIILIAKK 46 (165)
T ss_pred hHHHHHHHHHHcCCceeeec-cCCcHHHHHHHhc
Confidence 46778888999999987766 6777777766654
No 79
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=47.10 E-value=88 Score=21.13 Aligned_cols=49 Identities=16% Similarity=0.270 Sum_probs=33.9
Q ss_pred hHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 22 MVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
+.+.+..+++-|..+|++.+...|- +.+++..+++... ...++++.|-.
T Consensus 51 l~~sL~~L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~---~~~V~~~~~~~ 99 (165)
T PF00875_consen 51 LLESLADLQESLRKLGIPLLVLRGD-PEEVLPELAKEYG---ATAVYFNEEYT 99 (165)
T ss_dssp HHHHHHHHHHHHHHTTS-EEEEESS-HHHHHHHHHHHHT---ESEEEEE---S
T ss_pred HHHHHHHHHHHHHhcCcceEEEecc-hHHHHHHHHHhcC---cCeeEeccccC
Confidence 5677888999999999999888884 7778887776543 45666655543
No 80
>KOG2520 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=47.02 E-value=45 Score=29.63 Aligned_cols=59 Identities=15% Similarity=0.193 Sum_probs=38.8
Q ss_pred hhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 10 SYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 10 ~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.|+..|-..+ -.-..+..++++|..+|||+|..| ..||-... ....+--=-|+|-|.|.
T Consensus 453 k~~~~r~~~e-vt~~m~~e~QElL~~fGIPyI~APmEAEAQCa~------Le~~~LvdGiITDDSDV 512 (815)
T KOG2520|consen 453 KYIQSRGADE-VTSDMFKELQELLRLFGIPYIIAPMEAEAQCAF------LEQLNLVDGIITDDSDV 512 (815)
T ss_pred HHHHhccCch-hHHHHHHHHHHHHHHcCCceecccccHHHHHHH------HHHcCCcceeecccccc
Confidence 5666665544 223447889999999999999998 45554332 12223333489999996
No 81
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=46.63 E-value=45 Score=27.65 Aligned_cols=44 Identities=27% Similarity=0.391 Sum_probs=31.6
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
..++.+|..|||+++..|+ ||.=-=|.|.+ .|.=-.++|.|-|-
T Consensus 135 dEak~LL~lmGIp~i~ap~-EAEAqCA~Lnk----~g~V~~~at~DsD~ 178 (449)
T KOG2519|consen 135 DEAKRLLSLMGIPVLDAPG-EAEAQCAALNK----AGKVYAVATEDSDA 178 (449)
T ss_pred HHHHHHHHHcCCeeecCCc-hHHHHHHHHhh----cCceeeeeccccch
Confidence 4688999999999888773 55544444443 35556689999996
No 82
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=46.12 E-value=82 Score=22.09 Aligned_cols=44 Identities=18% Similarity=0.283 Sum_probs=30.1
Q ss_pred HHHHHHHHHHCCCcEEec--CCcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVIEV--PGVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~--~g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
.+++...|..+|+.+... -+-+.+.+..++..... ...++|+|+
T Consensus 21 ~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~--~~dlVIttG 66 (170)
T cd00885 21 AAFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASE--RADLVITTG 66 (170)
T ss_pred HHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHh--CCCEEEECC
Confidence 466888899999987553 35556666666655432 468888875
No 83
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=45.99 E-value=68 Score=24.51 Aligned_cols=44 Identities=11% Similarity=0.301 Sum_probs=34.6
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
..+|.+.|...|+.+...- |-+-++|...+..... + ..++|+|+
T Consensus 23 a~~la~~L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~-r-~D~vI~tG 68 (255)
T COG1058 23 AAFLADELTELGVDLARITTVGDNPDRIVEALREASE-R-ADVVITTG 68 (255)
T ss_pred HHHHHHHHHhcCceEEEEEecCCCHHHHHHHHHHHHh-C-CCEEEECC
Confidence 4568888999999976654 8889999998876554 4 79999986
No 84
>TIGR03599 YloV DAK2 domain fusion protein YloV. This model describes a protein family that contains an N-terminal DAK2 domain (pfam02734), so named because of similarity to the dihydroxyacetone kinase family family. The GTP-binding protein CgtA (a member of the obg family) is a bacterial GTPase associated with ribosome biogenesis, and it has a characteristic extension (TIGR03595) in certain lineages. This protein family described here was found, by the method of partial phylognetic profiling, to have a phylogenetic distribution strongly correlated to that of TIGR03595. This correlation implies some form of functional coupling.
Probab=45.45 E-value=70 Score=26.76 Aligned_cols=58 Identities=12% Similarity=0.242 Sum_probs=41.7
Q ss_pred HHHHHHHHCCCcEEecCCc----chhHHHHHHHHHhhhCCCcEEEEcCCCCc--------ccccCCeEEEEecc
Q 034414 28 YLKASIKAMSIKVIEVPGV----EADDVIGKLAVRSVDDGFKIQVVSPNKDS--------QILSHSLCLLRIAP 89 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~----EADDvIatla~~~~~~~~~v~IvS~DkDl--------QLv~~~v~v~~~~k 89 (95)
-+.++++.+|..++..-|- -..|++..+-+--. .+|+|+.+|+.. ++.+.+|.|. |+|
T Consensus 325 g~~~~f~~~Ga~~vi~ggqt~nPS~~dll~ai~~~~a---~~V~iLPNn~nii~aA~qa~~~~~~~v~vv-pT~ 394 (530)
T TIGR03599 325 GIAELFKSLGADVVIEGGQTMNPSTEDILKAIEKVNA---KNVFVLPNNKNIILAAEQAAELADKNVVVI-PTK 394 (530)
T ss_pred hHHHHHHHCCCCEEEeCCCCCCCCHHHHHHHHHhCCC---CeEEEecCCccHHHHHHHHHHHhCCcEEEE-eCC
Confidence 3677889999997776554 57899987654332 489999999985 3345677777 554
No 85
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=44.90 E-value=44 Score=21.19 Aligned_cols=53 Identities=15% Similarity=0.268 Sum_probs=36.0
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcC-CCCc-ccc--cCCeEEEEec
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSP-NKDS-QIL--SHSLCLLRIA 88 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~-DkDl-QLv--~~~v~v~~~~ 88 (95)
+.|..+++.|+.-|+.+....+.. ..+++.++|+|+ |+++ -.- .-++.|.+-.
T Consensus 8 ~~Ls~v~~~L~~~GyeVv~l~~~~------------~~~~~daiVvtG~~~n~mg~~d~~~~~pVInA~ 64 (80)
T PF03698_consen 8 EGLSNVKEALREKGYEVVDLENEQ------------DLQNVDAIVVTGQDTNMMGIQDTSTKVPVINAS 64 (80)
T ss_pred CCchHHHHHHHHCCCEEEecCCcc------------ccCCcCEEEEECCCcccccccccccCceEEecC
Confidence 457789999999999998887443 224678888887 5555 332 3456666543
No 86
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=44.27 E-value=95 Score=21.78 Aligned_cols=63 Identities=10% Similarity=0.154 Sum_probs=38.4
Q ss_pred HHhHHHHHHHHHH--CCCcEEecC-----CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEEe
Q 034414 23 VQGLQYLKASIKA--MSIKVIEVP-----GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLRI 87 (95)
Q Consensus 23 ~~q~~~i~~~l~~--~gi~~~~~~-----g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~ 87 (95)
...+...+.++.. --+-.+..| .-.+..+...+.. ..+.|..|+++|.|-++ ++ .+.+-++..
T Consensus 93 ~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~-~~~~g~tvIivSH~~~~~~~-~d~i~~l~~ 163 (176)
T cd03238 93 LQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKG-LIDLGNTVILIEHNLDVLSS-ADWIIDFGP 163 (176)
T ss_pred HHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHH-HHhCCCEEEEEeCCHHHHHh-CCEEEEECC
Confidence 4445666666665 555555444 2234444444443 34467889999999999 85 666666653
No 87
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=44.03 E-value=74 Score=21.14 Aligned_cols=48 Identities=17% Similarity=0.182 Sum_probs=33.8
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS 75 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl 75 (95)
-+.+..+|..+|+.+.... .-+.+++..++.....+ ..++|.|+ ++|+
T Consensus 19 ~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~--~D~VittGG~g~~~~D~ 73 (144)
T PF00994_consen 19 GPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDR--ADLVITTGGTGPGPDDV 73 (144)
T ss_dssp HHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHT--TSEEEEESSSSSSTTCH
T ss_pred HHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhcc--CCEEEEcCCcCcccCCc
Confidence 4568889999999876432 44667777777543332 38999887 7787
No 88
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=43.96 E-value=92 Score=20.47 Aligned_cols=55 Identities=15% Similarity=0.143 Sum_probs=26.8
Q ss_pred CCCCCChhhHHhHHHHHHHHHHCCCcEEecC----CcchhHHHHHHHHHhhhCCCcEEEE
Q 034414 14 NRPPTPDTMVQGLQYLKASIKAMSIKVIEVP----GVEADDVIGKLAVRSVDDGFKIQVV 69 (95)
Q Consensus 14 nR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~----g~EADDvIatla~~~~~~~~~v~Iv 69 (95)
||+...+.-......+++..+++|+..+..| +...+|+-+ ++........+|++.
T Consensus 34 lRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~-f~~~l~~~~~Pvl~h 92 (110)
T PF04273_consen 34 LRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEA-FADALESLPKPVLAH 92 (110)
T ss_dssp -S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHH-HHHHHHTTTTSEEEE
T ss_pred CCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHH-HHHHHHhCCCCEEEE
Confidence 5654333222234557788899999987765 444444443 444455445577764
No 89
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=43.67 E-value=92 Score=20.41 Aligned_cols=51 Identities=10% Similarity=0.072 Sum_probs=32.7
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc--ccc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS--QIL 78 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl--QLv 78 (95)
-+.+.+.|+..|+.+.... .-+.+++..++.+... +..++|.|+ .+|+ +.+
T Consensus 20 ~~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~--~~dliittGG~g~g~~D~t~~~l 79 (135)
T smart00852 20 GPALAELLTELGIEVTRYVIVPDDKEAIKEALREALE--RADLVITTGGTGPGPDDVTPEAV 79 (135)
T ss_pred HHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHh--CCCEEEEcCCCCCCCCcCcHHHH
Confidence 4568888999998754332 3555666666655443 468888775 5666 444
No 90
>KOG1504 consensus Ornithine carbamoyltransferase OTC/ARG3 [Amino acid transport and metabolism]
Probab=43.56 E-value=63 Score=25.52 Aligned_cols=53 Identities=11% Similarity=0.111 Sum_probs=36.7
Q ss_pred HHCCCc--EEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCcccccCCeEEEE
Q 034414 34 KAMSIK--VIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILSHSLCLLR 86 (95)
Q Consensus 34 ~~~gi~--~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~~~v~v~~ 86 (95)
..+|++ +...+|||-|+=|-+.|+++.+.+...+-++.|.--...+-+|-+-+
T Consensus 211 ak~gih~s~atPkg~e~d~div~~akq~a~eNgsk~eltnDp~eA~~~anvlvtD 265 (346)
T KOG1504|consen 211 AKFGIHFSCATPKGYEPDKDIVSKAKQAAEENGSKFELTNDPLEAVIGANVLVTD 265 (346)
T ss_pred hhcceEEEecCCCCCCcchHHHHHHHHHHHhcCCEEEEecChHHhhcCCcEEEEe
Confidence 346776 34467999999999999998877666677776642244555555444
No 91
>TIGR01696 deoB phosphopentomutase. This protein is involved in the purine and pyrimidine salvage pathway. It catalyzes the conversion of D-ribose 1-phosphate to D-ribose 5-phosphate and the conversion of 2-deoxy-D-ribose 1-phosphate to 2-deoxy-D-ribose 5-phosphate. The seed members of this protein are characterized deoB proteins from E.Coli and Bacillus. This model matches pfam01676 for Metalloenzyme superfamily.
Probab=42.54 E-value=76 Score=25.61 Aligned_cols=57 Identities=18% Similarity=0.170 Sum_probs=46.2
Q ss_pred CCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCccccc
Q 034414 17 PTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILS 79 (95)
Q Consensus 17 ~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~ 79 (95)
.-|++|.+++ .+..|-+++.-.-+-.+.||.-+.....+.|..|+--|.|.-||+-.
T Consensus 102 ~fp~~l~~~~------~~~~gr~~l~n~~asgt~ii~~~G~e~~~tg~~ivytsadsv~qiaa 158 (381)
T TIGR01696 102 GFPQELLQKL------EERAGRKYLGNKPASGTVILDELGEEHMKTGKLIVYTSADSVLQIAA 158 (381)
T ss_pred cCCHHHHHHH------HhhcCCEEEccccCchhHHHHHhhHHHHhhCCceEeeccChheeEEe
Confidence 4677775553 33478888888889999999999988888899999999999997754
No 92
>PF08758 Cadherin_pro: Cadherin prodomain like; InterPro: IPR014868 Cadherins are a group of proteins that mediate calcium dependent cell-cell adhesion. They are activated through cleavage of a prosequence in the late Golgi. This protein corresponds to the folded region of the prosequence, and is termed the prodomain. The prodomain shows structural resemblance to the cadherin domain, but lacks all the features known to be important for cadherin-cadherin interactions []. ; GO: 0007155 cell adhesion, 0016021 integral to membrane; PDB: 1OP4_A.
Probab=42.48 E-value=4.9 Score=25.84 Aligned_cols=44 Identities=20% Similarity=0.299 Sum_probs=18.8
Q ss_pred cCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCcccccC-CeEEEE
Q 034414 43 VPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILSH-SLCLLR 86 (95)
Q Consensus 43 ~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~~-~v~v~~ 86 (95)
...+||+-.||.+.-.-+.....+...|+|.||.+..+ .|..-+
T Consensus 16 p~~l~~g~~lg~V~f~dC~~~~~~~~~ssDpdF~V~~DGsVy~~r 60 (90)
T PF08758_consen 16 PSNLEAGQPLGKVNFEDCTGRRRVIFESSDPDFRVLEDGSVYAKR 60 (90)
T ss_dssp --SS-SS--EEE---B--SS---EEEE---SEEEEETTTEEEEES
T ss_pred CchhhCCcEEEEEEeccCCCCCceEEecCCCCEEEcCCCeEEEee
Confidence 44799999998876554443456888899999965554 444433
No 93
>cd00014 CH Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like spectrin, alpha-actinin, dystrophin, utrophin, and fimbrin, proteins essential for regulation of cell shape (cortexillins), and signaling proteins (Vav).
Probab=42.41 E-value=53 Score=20.09 Aligned_cols=26 Identities=12% Similarity=0.377 Sum_probs=18.8
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHH
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVI 52 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvI 52 (95)
+-+..+-++++.+|++.. +.+++|+.
T Consensus 62 ~Ni~~~l~~~~~~gi~~~---~~~~~Dl~ 87 (107)
T cd00014 62 ENINLALNFAEKLGVPVV---NFDAEDLV 87 (107)
T ss_pred HHHHHHHHHHHHcCCcee---ccCHHHHh
Confidence 345555566677899875 89999996
No 94
>KOG0062 consensus ATPase component of ABC transporters with duplicated ATPase domains/Translation elongation factor EF-3b [Amino acid transport and metabolism; Translation, ribosomal structure and biogenesis]
Probab=42.25 E-value=29 Score=29.58 Aligned_cols=46 Identities=22% Similarity=0.259 Sum_probs=37.9
Q ss_pred EEecC-CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 40 VIEVP-GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 40 ~~~~~-g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
++..| ||===|-|+.|++.....+.-|++||.|-.| -.+.+.+.+.
T Consensus 505 VLDEPTNhLD~dsl~AL~~Al~~F~GGVv~VSHd~~fi~~~c~E~Wvv 552 (582)
T KOG0062|consen 505 VLDEPTNHLDRDSLGALAKALKNFNGGVVLVSHDEEFISSLCKELWVV 552 (582)
T ss_pred EecCCCccccHHHHHHHHHHHHhcCCcEEEEECcHHHHhhcCceeEEE
Confidence 44444 7777788999999998888899999999999 8888776665
No 95
>PHA03065 Hypothetical protein; Provisional
Probab=42.04 E-value=83 Score=26.02 Aligned_cols=51 Identities=20% Similarity=0.298 Sum_probs=39.3
Q ss_pred HHHHHHHC--CCcEEecCCcchhHHHHHHHHHhh-hCCCcEEEEcCCCCc-cccc
Q 034414 29 LKASIKAM--SIKVIEVPGVEADDVIGKLAVRSV-DDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 29 i~~~l~~~--gi~~~~~~g~EADDvIatla~~~~-~~~~~v~IvS~DkDl-QLv~ 79 (95)
+.+.|..+ ++.++-.+|.-|.=++.+-|+... ..|.=-+++|+|.|. -+.+
T Consensus 150 l~~~L~~~~~~v~I~yCdgvDAEfvMC~~ak~~a~~~g~WPl~iStDQDtllf~s 204 (438)
T PHA03065 150 LESALARLGENVEIVYCDGVDAEFVMCARAKELAATTGEWPLLISTDQDTLLFSS 204 (438)
T ss_pred HHHHHHhccCCceEEEECCcchhHHHHHHHHHHHhhcCCCceEEeccCCeeEEEe
Confidence 44455556 889999999999999999998754 446556788999998 5544
No 96
>TIGR00642 mmCoA_mut_beta methylmalonyl-CoA mutase, heterodimeric type, beta chain. The adenosylcobalamin-binding, catalytic chain of methylmalonyl-CoA mutase may form homodimers, as in mitochondrion and E. coli, or heterodimers with a shorter, homologous chain that does not bind adenosylcobalamin. This model describes this non-catalytic beta chain, as found in the enzyme from Propionibacterium freudenreichii, for which the 3-dimensional structure has been solved.
Probab=41.97 E-value=43 Score=28.65 Aligned_cols=52 Identities=15% Similarity=0.085 Sum_probs=36.2
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCC-cEEEEcCCCCc-ccc
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGF-KIQVVSPNKDS-QIL 78 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~-~v~IvS~DkDl-QLv 78 (95)
..=.+...++..-||.++...|++..+- .+..+.+.|. -++|||+|+++ ...
T Consensus 510 aRa~Fa~nff~~gG~~~~~~~~~~~~~~---~~~a~~~sga~i~viCssD~~Y~~~a 563 (619)
T TIGR00642 510 GREGFSSNVWHIAGIDTIQVEGGTTAEI---VVEAFKKAGAQVAVLCSSDKVYAQQG 563 (619)
T ss_pred cHHHHHHhHHhcCceeeccCCCCCCHHH---HHHHHHhcCCCEEEEeCCCcchHHHH
Confidence 3345588888999999999999855442 2333444454 56789999999 654
No 97
>KOG1282 consensus Serine carboxypeptidases (lysosomal cathepsin A) [Posttranslational modification, protein turnover, chaperones; Amino acid transport and metabolism]
Probab=41.31 E-value=25 Score=28.93 Aligned_cols=17 Identities=18% Similarity=0.448 Sum_probs=13.7
Q ss_pred hhhCCCcEEEEcCCCCc
Q 034414 59 SVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 59 ~~~~~~~v~IvS~DkDl 75 (95)
....+++|+|+|+|.|+
T Consensus 359 ~~~~~~rvliysGD~D~ 375 (454)
T KOG1282|consen 359 IASGGYRVLIYSGDHDL 375 (454)
T ss_pred hhcCceEEEEEeCCcce
Confidence 33345899999999998
No 98
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=41.09 E-value=17 Score=20.49 Aligned_cols=23 Identities=30% Similarity=0.429 Sum_probs=17.1
Q ss_pred HHHHHHHCCCcEEecCCcchhHH
Q 034414 29 LKASIKAMSIKVIEVPGVEADDV 51 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDv 51 (95)
=..+|+++|+.++.+|-+|=..+
T Consensus 23 k~r~L~~~G~~Vi~Ip~~eW~~l 45 (58)
T PF08373_consen 23 KHRHLKALGYKVISIPYYEWNKL 45 (58)
T ss_pred HHHHHHHCCCEEEEecHHHHHhc
Confidence 34578899999999987764433
No 99
>cd03169 GATase1_PfpI_1 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. PfpI is an ATP-independent intracellular proteases which may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=41.01 E-value=60 Score=22.23 Aligned_cols=35 Identities=23% Similarity=0.304 Sum_probs=27.8
Q ss_pred cEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 39 KVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 39 ~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
.++..+|.|.-++.+.+. .+.+.|++|.++|.+.+
T Consensus 3 ~il~~~g~~~~e~~~p~~-~l~~ag~~v~~vs~~~~ 37 (180)
T cd03169 3 LILTGDFVEDYEVMVPFQ-ALQEVGHEVDVVAPGKK 37 (180)
T ss_pred EEEeCCCccHHHHHHHHH-HHHHCCCEEEEEcCCCC
Confidence 466788999999888766 45567899999998876
No 100
>cd07361 MEMO_like Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility. This subfamily is composed of Memo (mediator of ErbB2-driven cell motility) and similar proteins. Memo is a protein that is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility. It is required for the ErbB2-driven cell mobility and is found in protein complexes with cofilin, ErbB2 and PLCgamma1. However, Memo is not homologous to any known signaling proteins, and its function in ErbB2 signaling is not known. Structural studies show that Memo binds directly to a specific ErbB2-derived phosphopeptide. Memo is homologous to class III nonheme iron-dependent extradiol dioxygenases, however, no metal binding or enzymatic activity can be detected for Memo. This subfamily also contains a few members containing a C-terminal AMMECR1-like domain. The AMMECR1 protein was proposed to be a regulatory factor that is potentia
Probab=40.34 E-value=52 Score=24.40 Aligned_cols=51 Identities=20% Similarity=0.227 Sum_probs=28.2
Q ss_pred hhHHhHHHHHHHHHHCCCcEEecCC---cchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 21 TMVQGLQYLKASIKAMSIKVIEVPG---VEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 21 ~l~~q~~~i~~~l~~~gi~~~~~~g---~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
.+.-|+|+|+.++..+.+-.+.+.. -.+..+-..+. .+.....-++|+|+|
T Consensus 126 s~EvqLpfLq~~~~~~~iVPi~vg~~~~~~~~~~g~~l~-~~~~~~~~~iV~SsD 179 (266)
T cd07361 126 SLEVQLPFLQYLLPDFKIVPILVGDQSPEAAEALAEALS-KYLLDPDTLIVISSD 179 (266)
T ss_pred eeeeHHHHHHHHcCCCeEEEEEeCCCCHHHHHHHHHHHH-HHhcCCCeEEEEeCC
Confidence 3667999999888755555555533 22333333333 222223356788887
No 101
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=40.33 E-value=34 Score=26.23 Aligned_cols=23 Identities=26% Similarity=0.300 Sum_probs=17.9
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCC
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~Dk 73 (95)
+-|++|.++.+.|.+|.++|.|-
T Consensus 17 ~aaA~A~~~A~~G~rtLlvS~Dp 39 (305)
T PF02374_consen 17 VAAALALALARRGKRTLLVSTDP 39 (305)
T ss_dssp HHHHHHHHHHHTTS-EEEEESST
T ss_pred HHHHHHHHHhhCCCCeeEeecCC
Confidence 34567777888899999999996
No 102
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=40.25 E-value=77 Score=21.45 Aligned_cols=47 Identities=15% Similarity=0.220 Sum_probs=32.6
Q ss_pred HHHHHHHHHCCCcEEecC-C-cchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 27 QYLKASIKAMSIKVIEVP-G-VEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~-g-~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
..++.+|+.+|+..+... + --+.-+|-.+.......++-|+++|+|-
T Consensus 14 ~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD 62 (125)
T PF10137_consen 14 EAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDD 62 (125)
T ss_pred HHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccc
Confidence 447778888888765432 2 3345567777777766788999999873
No 103
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=40.03 E-value=11 Score=25.89 Aligned_cols=36 Identities=17% Similarity=0.432 Sum_probs=26.9
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCL 84 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v 84 (95)
...++-|+.++...|.+|+|+..|... +-+++....
T Consensus 15 ~~~~c~L~~ka~~~g~rv~I~~~d~~~a~~lD~~LW~ 51 (142)
T PRK05728 15 EALLCELAEKALRAGWRVLVQCEDEEQAEALDEALWT 51 (142)
T ss_pred HHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHHHHhcC
Confidence 456777777788889999999999887 766654433
No 104
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=39.76 E-value=93 Score=23.83 Aligned_cols=39 Identities=10% Similarity=0.178 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCC
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDG 63 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~ 63 (95)
.+..+.++++.+|+++...+.+..++++..+.......+
T Consensus 276 ~~~~i~~~l~~~g~p~~~~~~~~~~~~~~~l~~dkk~~~ 314 (344)
T TIGR01357 276 LIERLVQLLKRYGLPTDLPKDLDVDELLNAMLNDKKNSG 314 (344)
T ss_pred HHHHHHHHHHHcCCCccCCCCCCHHHHHHHHHHhhhccC
Confidence 467788899999999865555889999998886544443
No 105
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=39.49 E-value=90 Score=24.02 Aligned_cols=39 Identities=15% Similarity=0.336 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCC
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGF 64 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~ 64 (95)
.+..+.++|+.+|++... ++...|+++..+.......+.
T Consensus 279 ~~~~i~~~l~~~g~p~~~-~~~~~~~~~~~l~~dkk~~~~ 317 (345)
T cd08195 279 DLERIEKLLKKLGLPTSL-PDLDAEDLLEAMKHDKKNRGG 317 (345)
T ss_pred HHHHHHHHHHHcCCCCCC-CCCCHHHHHHHHHHhhcccCC
Confidence 467788999999999765 778889999988764444433
No 106
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=39.43 E-value=1.2e+02 Score=20.46 Aligned_cols=46 Identities=15% Similarity=0.238 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcC-CC
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSP-NK 73 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~-Dk 73 (95)
.-..+..+|...||.++.....-.-+-+.. .+.+.+.+++.+|+ |.
T Consensus 18 g~~iv~~~l~~~GfeVi~lg~~~s~e~~v~---aa~e~~adii~iSsl~~ 64 (132)
T TIGR00640 18 GAKVIATAYADLGFDVDVGPLFQTPEEIAR---QAVEADVHVVGVSSLAG 64 (132)
T ss_pred HHHHHHHHHHhCCcEEEECCCCCCHHHHHH---HHHHcCCCEEEEcCchh
Confidence 346688889999999999886544433322 23344556665554 44
No 107
>COG1861 SpsF Spore coat polysaccharide biosynthesis protein F, CMP-KDO synthetase homolog [Cell envelope biogenesis, outer membrane]
Probab=39.04 E-value=1e+02 Score=23.54 Aligned_cols=44 Identities=14% Similarity=0.219 Sum_probs=27.7
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCc-EEEEcCCCCc
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFK-IQVVSPNKDS 75 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~-v~IvS~DkDl 75 (95)
+.+.+.+.|+.+++ |- ++||+.-++......+.. |+=+|+|--|
T Consensus 60 l~~~~~~~G~~vfr--Gs-~~dVL~Rf~~a~~a~~~~~VVRvTGD~P~ 104 (241)
T COG1861 60 LEEVCRSHGFYVFR--GS-EEDVLQRFIIAIKAYSADVVVRVTGDNPF 104 (241)
T ss_pred HHHHHHHcCeeEec--CC-HHHHHHHHHHHHHhcCCCeEEEeeCCCCC
Confidence 55666667777654 33 356777777665554444 4448998766
No 108
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=38.66 E-value=50 Score=25.05 Aligned_cols=33 Identities=21% Similarity=0.247 Sum_probs=24.4
Q ss_pred hhcCCCCCC--h-hhHHhHHHHHHHHHHCCCcEEecC
Q 034414 11 YKNNRPPTP--D-TMVQGLQYLKASIKAMSIKVIEVP 44 (95)
Q Consensus 11 YKanR~~~p--~-~l~~q~~~i~~~l~~~gi~~~~~~ 44 (95)
|| +|..+- . ...+++..++++++.+|++++..+
T Consensus 63 ~k-pRTs~~s~~G~g~~gl~~l~~~~~~~Gl~~~te~ 98 (266)
T PRK13398 63 FK-PRTSPYSFQGLGEEGLKILKEVGDKYNLPVVTEV 98 (266)
T ss_pred ec-CCCCCCccCCcHHHHHHHHHHHHHHcCCCEEEee
Confidence 56 887521 2 135778999999999999988865
No 109
>PRK03094 hypothetical protein; Provisional
Probab=38.50 E-value=65 Score=20.53 Aligned_cols=53 Identities=19% Similarity=0.288 Sum_probs=34.1
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcC-CCCc-ccc--cCCeEEEEec
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSP-NKDS-QIL--SHSLCLLRIA 88 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~-DkDl-QLv--~~~v~v~~~~ 88 (95)
+.|..+++.|+.-|+.++...+.. | .+++.++|+|+ |.|+ =.- .-++.|.+-.
T Consensus 8 ~~Ls~i~~~L~~~GYeVv~l~~~~-~-----------~~~~Da~VitG~d~n~mgi~d~~t~~pVI~A~ 64 (80)
T PRK03094 8 QSLTDVQQALKQKGYEVVQLRSEQ-D-----------AQGCDCCVVTGQDSNVMGIADTSTKGSVITAS 64 (80)
T ss_pred cCcHHHHHHHHHCCCEEEecCccc-c-----------cCCcCEEEEeCCCcceecccccccCCcEEEcC
Confidence 457789999999999998886532 1 24567777775 5555 222 2355665543
No 110
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=38.32 E-value=75 Score=22.81 Aligned_cols=43 Identities=5% Similarity=0.073 Sum_probs=31.6
Q ss_pred HHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 31 ASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 31 ~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
+.++..|+..+..+.+-|++++..+..+. ..+.+|+++.++.-
T Consensus 87 ~~l~~~G~~~~~~~~~~~e~L~~~~~~~~-~~~~~vL~~rg~~~ 129 (240)
T PRK09189 87 EAARELGFRHVIEGGGDGVRLAETVAAAL-APTARLLYLAGRPR 129 (240)
T ss_pred HHHHHcCCCCCcCCCCCHHHHHHHHHHhc-CCCCcEEEeccCcc
Confidence 45677899866666777999988776543 35678999988843
No 111
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=38.05 E-value=22 Score=21.93 Aligned_cols=34 Identities=26% Similarity=0.402 Sum_probs=22.0
Q ss_pred CChhhHHhHHHHHHHHHHCCCcEEecCCcchhHH
Q 034414 18 TPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDV 51 (95)
Q Consensus 18 ~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDv 51 (95)
.|+.+.+-+....+-+..-+-.++..+|.|=|||
T Consensus 24 lP~SleeLl~ia~~kfg~~~~~v~~~dgaeIdDI 57 (69)
T PF11834_consen 24 LPDSLEELLKIASEKFGFSATKVLNEDGAEIDDI 57 (69)
T ss_pred cCccHHHHHHHHHHHhCCCceEEEcCCCCEEeEE
Confidence 5777666555555545444444677789888886
No 112
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=37.87 E-value=1.4e+02 Score=20.80 Aligned_cols=62 Identities=6% Similarity=-0.044 Sum_probs=35.5
Q ss_pred HhHHHHHHHHHHCCCcEEecCCc-chhHHHHHHHHHhhhCCCcE-EEEcCCCCc-ccccCCeEEEE
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGV-EADDVIGKLAVRSVDDGFKI-QVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~-EADDvIatla~~~~~~~~~v-~IvS~DkDl-QLv~~~v~v~~ 86 (95)
..+..+.+.++..|+.++..... .++.. ..+.......+... ++.+.|.++ ++...++-+..
T Consensus 16 ~~~~gi~~~~~~~g~~~~~~~~~~~~~~~-~~~i~~~~~~~~dgiii~~~~~~~~~~~~~gipvv~ 80 (265)
T cd06291 16 ELARAVEKELYKKGYKLILCNSDNDPEKE-REYLEMLRQNQVDGIIAGTHNLGIEEYENIDLPIVS 80 (265)
T ss_pred HHHHHHHHHHHHCCCeEEEecCCccHHHH-HHHHHHHHHcCCCEEEEecCCcCHHHHhcCCCCEEE
Confidence 34566888889999997776543 33322 23333444444554 445556677 77665544443
No 113
>PF08984 DUF1858: Domain of unknown function (DUF1858); InterPro: IPR015077 This protein has no known function. It is found in various hypothetical bacterial proteins. ; PDB: 2K53_A 2K5E_A 2FI0_A.
Probab=37.86 E-value=15 Score=21.29 Aligned_cols=26 Identities=8% Similarity=0.101 Sum_probs=21.8
Q ss_pred hhhHHhHHHHHHHHHHCCCcEEecCC
Q 034414 20 DTMVQGLQYLKASIKAMSIKVIEVPG 45 (95)
Q Consensus 20 ~~l~~q~~~i~~~l~~~gi~~~~~~g 45 (95)
.++.++.|.+.++|..+|+.++.-|.
T Consensus 8 ~el~~~yP~~~~il~~~gf~~l~~p~ 33 (59)
T PF08984_consen 8 YELLEQYPELIEILVSYGFHCLGNPV 33 (59)
T ss_dssp HHHHHH-GGGHHHHHHTTGGGGGSCC
T ss_pred HHHHHHCHHHHHHHHHcCCcccCCcH
Confidence 46788999999999999999988775
No 114
>PF02110 HK: Hydroxyethylthiazole kinase family; InterPro: IPR000417 Thiamine pyrophosphate (TPP), a required cofactor for many enzymes in the cell, is synthesised de novo in Salmonella typhimurium []. Five kinase activities have been implicated in TPP synthesis, which involves joining a 4-methyl-5-(beta-hydroxyethyl)thiazole (THZ) moiety and a 4-amino-5- hydroxymethyl-2-methylpyrimidine (HMP) moiety [, ]. THZ kinase (2.7.1.50 from EC) activity is involved in the salvage synthesis of TH-P from the thiazole: 2-methyl-4-amino-5-hydroxymethylpyrimidine diphosphate + 4-4-methyl-5-(2-phosphonooxyethyl)-thiazole = pyrophosphate + thiamin monophosphate Hydroxyethylthiazole kinase expression is regulated at the mRNA level by intracellular thiamin pyrophosphate [].; GO: 0004417 hydroxyethylthiazole kinase activity, 0009228 thiamine biosynthetic process; PDB: 1EKK_A 1ESQ_C 1C3Q_B 1ESJ_A 1EKQ_B 3HPD_A 3DZV_A 3NL5_A 3NL2_A 3NM1_A ....
Probab=37.82 E-value=1.1e+02 Score=23.14 Aligned_cols=48 Identities=23% Similarity=0.194 Sum_probs=27.5
Q ss_pred CCcchhHHHHHHHHHhhhCCCcEEEEcCCCCcccccCCeEEEEeccCCccc
Q 034414 44 PGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILSHSLCLLRIAPRGFEL 94 (95)
Q Consensus 44 ~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~~~v~v~~~~k~~~~~ 94 (95)
+..+.+.-+..++++..++-.-|+++|+-.|+ |++.-+++.+ ..|.||
T Consensus 132 Ds~~~~~~~~~~a~~lA~k~~~vVvvTG~~D~--Isdg~~~~~i-~nG~~~ 179 (246)
T PF02110_consen 132 DSGDSDEDAIEAAKQLAQKYNCVVVVTGEVDY--ISDGNRVYRI-PNGSPL 179 (246)
T ss_dssp SSSCGSHHHHHHHHHHHHHTTSEEEEESSSEE--EEESSCEEEE-CSSSGG
T ss_pred CcCCcchHHHHHHHHHHHhcCCEEEEecCCcE--EECCCeEEEe-CCCChH
Confidence 33333332445566655555579999999996 3344445554 355554
No 115
>PRK05899 transketolase; Reviewed
Probab=37.50 E-value=67 Score=26.96 Aligned_cols=48 Identities=15% Similarity=0.168 Sum_probs=35.5
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.+...++++|+..+.++|.-.+++..++.......+=.++++...|-.
T Consensus 204 ~~~~~~~a~G~~~~~VdG~d~~~l~~al~~a~~~~~P~vI~v~t~kg~ 251 (624)
T PRK05899 204 DVKKRFEAYGWHVIEVDGHDVEAIDAAIEEAKASTKPTLIIAKTIIGK 251 (624)
T ss_pred cHHHHhccCCCeEEEECCCCHHHHHHHHHHHHhcCCCEEEEEEeEecc
Confidence 456778899999999999999999999886443333345556666655
No 116
>PRK05362 phosphopentomutase; Provisional
Probab=37.45 E-value=89 Score=25.25 Aligned_cols=57 Identities=14% Similarity=0.180 Sum_probs=44.8
Q ss_pred CCChhhHHhHHHHHHHHHHCCC-cEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCccccc
Q 034414 17 PTPDTMVQGLQYLKASIKAMSI-KVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILS 79 (95)
Q Consensus 17 ~~p~~l~~q~~~i~~~l~~~gi-~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~ 79 (95)
.-|++|.++ +.+..|. +++.---+-++.||.-+.....+.|..|+--|.|.-||+-.
T Consensus 108 ~fp~~l~~~------~~~~~g~~~~l~n~~~sgt~i~~~~G~~~~~tg~~ivytsadsv~qiaa 165 (394)
T PRK05362 108 GFPQELIDE------IEERAGRPGILGNKHASGTEIIDELGEEHMKTGKPIVYTSADSVFQIAA 165 (394)
T ss_pred cCCHHHHHH------HHhhcCCCceecCccCchhHHHHHhhHHHHhhCCcEEeeccChheeEEe
Confidence 456666444 4455788 67766678889999999988888899999999999998754
No 117
>TIGR00345 arsA arsenite-activated ATPase (arsA). The N-terminal 50 amino acids hits Pfam families NB-ARC and fer4_NifH. residues 4-11 of the seed alignment contain a potential ATP binding site. The function of the gene product is to catalyze the extrusion of the oxyanions arsenite, antimonite and arsenate for detoxification. Some members of this family contain a duplication so the model finds hits twice.
Probab=37.29 E-value=35 Score=25.66 Aligned_cols=23 Identities=26% Similarity=0.336 Sum_probs=18.7
Q ss_pred HHHHHHHhhhCCCcEEEEcCCCC
Q 034414 52 IGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 52 Iatla~~~~~~~~~v~IvS~DkD 74 (95)
-+.+|..+.+.|.+|.++|.|..
T Consensus 2 a~a~a~~~a~~g~~vllv~~Dp~ 24 (284)
T TIGR00345 2 SCATAIRLAEQGKKVLLVSTDPA 24 (284)
T ss_pred HHHHHHHHHHCCCeEEEEECCCC
Confidence 35677777888999999999965
No 118
>COG3083 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]
Probab=36.73 E-value=37 Score=28.97 Aligned_cols=30 Identities=13% Similarity=0.305 Sum_probs=23.6
Q ss_pred cchhHHHHHHHHHhhhC---CCcEEEEcCCCCc
Q 034414 46 VEADDVIGKLAVRSVDD---GFKIQVVSPNKDS 75 (95)
Q Consensus 46 ~EADDvIatla~~~~~~---~~~v~IvS~DkDl 75 (95)
.|+|.+||++-.+.... +..|+|+|+|...
T Consensus 430 ~~vD~~I~~vLe~L~~~~~L~NTvVIITs~HG~ 462 (600)
T COG3083 430 REVDSQIGRVLEQLRNSGLLDNTVVIITADHGE 462 (600)
T ss_pred HHHHHHHHHHHHHHhhcccccceEEEEECCCCc
Confidence 57899999988876544 3579999999765
No 119
>PF07351 DUF1480: Protein of unknown function (DUF1480); InterPro: IPR009950 This family consists of several hypothetical Enterobacterial proteins of around 80 residues in length. The function of this family is unknown.
Probab=36.60 E-value=9 Score=24.49 Aligned_cols=48 Identities=15% Similarity=0.115 Sum_probs=29.0
Q ss_pred CCCcEEecCCcchhHHHHHHHHHhhhCCCcE-EEEcCCCCc--ccc--cCCeEEE
Q 034414 36 MSIKVIEVPGVEADDVIGKLAVRSVDDGFKI-QVVSPNKDS--QIL--SHSLCLL 85 (95)
Q Consensus 36 ~gi~~~~~~g~EADDvIatla~~~~~~~~~v-~IvS~DkDl--QLv--~~~v~v~ 85 (95)
||-.++..--||-||..- ..........+ +-+-+|.|| ||= +++++|=
T Consensus 1 M~kt~vkIg~fEIdDA~l--~~~~~~~~~tlsIPCksdpdlcmQLDgWDe~TSiP 53 (80)
T PF07351_consen 1 MGKTVVKIGSFEIDDAEL--SSEPDKGEDTLSIPCKSDPDLCMQLDGWDEHTSIP 53 (80)
T ss_pred CCceEEEEEEEEEEeeEe--cCCCCCCCCeEEeecCCChhheeEecccccCCccc
Confidence 455677788889888532 22111112233 347889999 885 3676653
No 120
>PRK12571 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=36.53 E-value=79 Score=26.89 Aligned_cols=39 Identities=8% Similarity=0.186 Sum_probs=28.7
Q ss_pred HHHHHHCCCcEE-ecCCcchhHHHHHHHHHhhhCCCcEEE
Q 034414 30 KASIKAMSIKVI-EVPGVEADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 30 ~~~l~~~gi~~~-~~~g~EADDvIatla~~~~~~~~~v~I 68 (95)
.+.++++|+.++ .++|.-=+.++.++...-...+.+++|
T Consensus 239 ~~~f~a~G~~~~~~vdGhd~~~l~~al~~ak~~~~~P~~I 278 (641)
T PRK12571 239 GTLFEELGFTYVGPIDGHDMEALLSVLRAARARADGPVLV 278 (641)
T ss_pred hhHHHHcCCEEECccCCCCHHHHHHHHHHHHhCCCCCEEE
Confidence 467889999999 699999999999887532213455554
No 121
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=36.18 E-value=63 Score=19.35 Aligned_cols=31 Identities=19% Similarity=0.332 Sum_probs=23.5
Q ss_pred cCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 43 VPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 43 ~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.++..+-+++..+.+.. ...+++++|+..|.
T Consensus 53 ~~~~~~~~~~~~i~~~~--~~~~ii~~t~~~~~ 83 (112)
T PF00072_consen 53 LPDGDGLELLEQIRQIN--PSIPIIVVTDEDDS 83 (112)
T ss_dssp SSSSBHHHHHHHHHHHT--TTSEEEEEESSTSH
T ss_pred ecccccccccccccccc--ccccEEEecCCCCH
Confidence 56888888888886544 56799999977663
No 122
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=35.51 E-value=1.4e+02 Score=22.06 Aligned_cols=42 Identities=14% Similarity=0.052 Sum_probs=33.2
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEE
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVV 69 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~Iv 69 (95)
.....+++.+|+.+-....-..|+.+..+..... .|.+|++.
T Consensus 53 ~~~~~~~~~lG~~~~~~~~~~~~~~~~~l~~~l~-~g~pv~~~ 94 (317)
T PF14399_consen 53 DFEENLLERLGIKYEWREFSSPDEAWEELKEALD-AGRPVIVW 94 (317)
T ss_pred HHHHHHHHHCCceEEEEecCCHHHHHHHHHHHHh-CCCceEEE
Confidence 5677888999999988888888999998887654 56666665
No 123
>PRK01215 competence damage-inducible protein A; Provisional
Probab=35.30 E-value=1.3e+02 Score=22.75 Aligned_cols=44 Identities=5% Similarity=0.101 Sum_probs=31.5
Q ss_pred HHHHHHHHHHCCCcEEec--CCcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVIEV--PGVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~--~g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
-+++.+.|..+|+.+... -+-+.++|..++..... ...++|+|+
T Consensus 25 ~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~a~~--~~DlVIttG 70 (264)
T PRK01215 25 ASWIARRLTYLGYTVRRITVVMDDIEEIVSAFREAID--RADVVVSTG 70 (264)
T ss_pred HHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhc--CCCEEEEeC
Confidence 456888899999987554 36677778887776443 348888875
No 124
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=35.27 E-value=83 Score=20.05 Aligned_cols=42 Identities=14% Similarity=0.328 Sum_probs=32.1
Q ss_pred HHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 30 KASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 30 ~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
..+|++=+++.-.+...++++|.. .+.+.|+...|+..+++|
T Consensus 39 a~lLEAqd~~~p~Ve~id~~~i~~----fC~~~gy~~~iv~~g~~l 80 (86)
T PF11360_consen 39 AGLLEAQDFPDPTVEEIDPEEIEE----FCRSAGYEYEIVPPGRDL 80 (86)
T ss_pred HHHHHhcCCCCCCeEEECHHHHHH----HHHHCCceEEEECCCCCe
Confidence 346677777777888888888865 466678999999988775
No 125
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=35.27 E-value=51 Score=20.66 Aligned_cols=39 Identities=10% Similarity=0.195 Sum_probs=23.8
Q ss_pred HHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 32 SIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 32 ~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
.+...|+..+... ...+++...+.+.....++.|+|+|.
T Consensus 12 gFrLaGv~~~~~~-~~~ee~~~~l~~l~~~~~~gIIii~e 50 (95)
T PF01990_consen 12 GFRLAGVEGVYVN-TDPEEAEEALKELLKDEDVGIIIITE 50 (95)
T ss_dssp HHHHTTSEEEEES-HSHHHHHHHHHHHHHHTTEEEEEEEH
T ss_pred HHHHcCCCCccCC-CCHHHHHHHHHHHhcCCCccEEEeeH
Confidence 3456788776664 34455555555555556677888774
No 126
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=34.91 E-value=1.6e+02 Score=23.26 Aligned_cols=47 Identities=17% Similarity=0.411 Sum_probs=34.8
Q ss_pred hHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 22 MVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
+.+.+..+++-|.++|++.+...| ++-++|..|++.. +...+++..|
T Consensus 59 l~esL~~L~~~L~~~g~~L~v~~G-~~~~vl~~L~~~~---~~~~V~~~~~ 105 (429)
T TIGR02765 59 LLESLKDLRTSLRKLGSDLLVRSG-KPEDVLPELIKEL---GVRTVFLHQE 105 (429)
T ss_pred HHHHHHHHHHHHHHcCCCeEEEeC-CHHHHHHHHHHHh---CCCEEEEecc
Confidence 566788888889999999988888 7788888877654 3455555444
No 127
>PRK09417 mogA molybdenum cofactor biosynthesis protein MogA; Provisional
Probab=34.82 E-value=1.8e+02 Score=21.08 Aligned_cols=46 Identities=11% Similarity=0.036 Sum_probs=27.6
Q ss_pred HHHHHHHHHHCCCcEE----ecCCcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVI----EVPGVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~----~~~g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
-+.+.+.+..+|.... ..=.-+.++|-.++.......++.++|.|+
T Consensus 25 g~~L~~~L~~~G~~g~~v~~~iVpDd~~~I~~aL~~a~~~~~~DlIITTG 74 (193)
T PRK09417 25 IPALEEWLASALTSPFEIETRLIPDEQDLIEQTLIELVDEMGCDLVLTTG 74 (193)
T ss_pred HHHHHHHHHHcCCCCceEEEEECCCCHHHHHHHHHHHhhcCCCCEEEECC
Confidence 3457778888865321 222344455666666544335789999885
No 128
>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=34.38 E-value=57 Score=24.99 Aligned_cols=47 Identities=11% Similarity=0.119 Sum_probs=36.8
Q ss_pred CCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEEeccC
Q 034414 44 PGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLRIAPR 90 (95)
Q Consensus 44 ~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~~k~ 90 (95)
.--|++++...+.......|..|+++=.|=|+ -=++++|.|++..+.
T Consensus 181 n~~e~~~l~~~i~~i~~~~g~tillIEHdM~~Vm~l~dri~Vl~~G~~ 228 (250)
T COG0411 181 NPEETEELAELIRELRDRGGVTILLIEHDMKLVMGLADRIVVLNYGEV 228 (250)
T ss_pred CHHHHHHHHHHHHHHHhcCCcEEEEEEeccHHHhhhccEEEeccCCcC
Confidence 34699999998887555566888899888888 777899999986544
No 129
>PRK11914 diacylglycerol kinase; Reviewed
Probab=34.22 E-value=1.7e+02 Score=21.93 Aligned_cols=52 Identities=21% Similarity=0.289 Sum_probs=32.1
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCC-cEEEEcCCCCc-ccc
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGF-KIQVVSPNKDS-QIL 78 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~-~v~IvS~DkDl-QLv 78 (95)
+..+.+.|+..|+.+.......+.|.-. +++.+...+. -|+++.+|-=+ ..+
T Consensus 28 ~~~~~~~l~~~g~~~~~~~t~~~~~~~~-~a~~~~~~~~d~vvv~GGDGTi~evv 81 (306)
T PRK11914 28 AERAIARLHHRGVDVVEIVGTDAHDARH-LVAAALAKGTDALVVVGGDGVISNAL 81 (306)
T ss_pred HHHHHHHHHHcCCeEEEEEeCCHHHHHH-HHHHHHhcCCCEEEEECCchHHHHHh
Confidence 5556677888898755444444666544 3444444444 57788899766 544
No 130
>PRK03670 competence damage-inducible protein A; Provisional
Probab=34.21 E-value=1.5e+02 Score=22.28 Aligned_cols=46 Identities=9% Similarity=0.138 Sum_probs=31.9
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
..++.+.|..+|+.+.... +-+.++|..++.... ...+.++|+|+=
T Consensus 22 ~~~la~~L~~~G~~v~~~~iV~Dd~~~I~~~l~~a~-~~~~DlVIttGG 69 (252)
T PRK03670 22 SAFIAQKLTEKGYWVRRITTVGDDVEEIKSVVLEIL-SRKPEVLVISGG 69 (252)
T ss_pred HHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHh-hCCCCEEEECCC
Confidence 4568888999999875533 667777777765533 345688888753
No 131
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=34.16 E-value=53 Score=24.40 Aligned_cols=43 Identities=12% Similarity=0.132 Sum_probs=32.4
Q ss_pred CCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 44 PGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 44 ~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+.--...++..+.+...+.|..++++|.|-|+ ..+.+.|.+++
T Consensus 170 D~~~~~~l~~~l~~L~~~~~~tii~~tHd~~~~~~~ad~v~vl~ 213 (235)
T COG1122 170 DPKGRRELLELLKKLKEEGGKTIIIVTHDLELVLEYADRVVVLD 213 (235)
T ss_pred CHHHHHHHHHHHHHHHhcCCCeEEEEeCcHHHHHhhCCEEEEEE
Confidence 34445677777666555556789999999999 88888888886
No 132
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=34.08 E-value=1.6e+02 Score=20.94 Aligned_cols=47 Identities=9% Similarity=0.282 Sum_probs=28.2
Q ss_pred HhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 24 QGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
.|..++..+|+.+|+..+..= +....+++- .+...|++++|++-+.+
T Consensus 101 ~~~~~~e~~~~~~gl~~~~PLW~~~~~~ll~----e~~~~g~~~~iv~v~~~ 148 (194)
T cd01994 101 YQRTRVERVCERLGLEPLAPLWGRDQEELLR----EMIEAGFKAIIIKVAAE 148 (194)
T ss_pred HHHHHHHHHHHHcCCEEEecccCCCHHHHHH----HHHHcCCeEEEEEeccC
Confidence 456666777777777654432 333333433 34457899999777664
No 133
>PF04599 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 Protein G5 is found in a number of Poxviruses.
Probab=33.57 E-value=1.2e+02 Score=25.03 Aligned_cols=51 Identities=22% Similarity=0.311 Sum_probs=38.7
Q ss_pred HHHHHHH--CCCcEEecCCcchhHHHHHHHHHhh-hCCCcEEEEcCCCCc-cccc
Q 034414 29 LKASIKA--MSIKVIEVPGVEADDVIGKLAVRSV-DDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 29 i~~~l~~--~gi~~~~~~g~EADDvIatla~~~~-~~~~~v~IvS~DkDl-QLv~ 79 (95)
+.++|.. -++.++-.+|.-|.=+|.+-|+... ..|.=-+++|+|.|. -+.+
T Consensus 148 l~~~L~~~~~~V~IvyCDgvDAEFvMC~~Ak~~a~~~g~WPlliStDQDtllfss 202 (425)
T PF04599_consen 148 LESSLSRLKEDVEIVYCDGVDAEFVMCARAKKLAAKNGRWPLLISTDQDTLLFSS 202 (425)
T ss_pred HHHHHHhccCCceEEEECCcChhHHHHHHHHHHHHhcCCCceEEeeccceeeeee
Confidence 4445544 4788999999999999999998644 456556788999998 5544
No 134
>COG4634 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.47 E-value=88 Score=21.27 Aligned_cols=57 Identities=19% Similarity=0.133 Sum_probs=33.2
Q ss_pred HHHHHHHHHCCCc--EEecCC-cchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccc----c-CCeEEEEe
Q 034414 27 QYLKASIKAMSIK--VIEVPG-VEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QIL----S-HSLCLLRI 87 (95)
Q Consensus 27 ~~i~~~l~~~gi~--~~~~~g-~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv----~-~~v~v~~~ 87 (95)
+.+.+.+...|+. +++--| .+|-|+.= ++.... ..-+|+|-|+|| -|. + +++-+++.
T Consensus 11 ~rlad~l~~~g~e~~h~r~lg~~da~D~EI-~a~A~~---~~~iivTkDsDF~~la~~~G~Ppki~wLr~ 76 (113)
T COG4634 11 PRLADWLPMAGIEAVHWRDLGLRDATDIEI-WAYARR---NNRIIVTKDSDFADLALTLGSPPKIVWLRC 76 (113)
T ss_pred hHHHHHhhhcccceeeecccCcCCCccHHH-HHHHHh---cCcEEEEcCccHHHHHHHcCCCCeEEEEEe
Confidence 3456666666644 223334 88887642 222111 256799999999 664 2 46766654
No 135
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=33.30 E-value=1.5e+02 Score=22.28 Aligned_cols=49 Identities=14% Similarity=0.292 Sum_probs=33.3
Q ss_pred hHHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 22 MVQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
...|...+..+|+.+|+.++..= |----.++. .....|++++|++.++=
T Consensus 97 s~yqk~rve~lc~~lGl~~~~PLWg~d~~ell~----e~~~~Gf~~~Iv~Vsa~ 146 (223)
T COG2102 97 SEYQKERVERLCEELGLKVYAPLWGRDPEELLE----EMVEAGFEAIIVAVSAE 146 (223)
T ss_pred hHHHHHHHHHHHHHhCCEEeecccCCCHHHHHH----HHHHcCCeEEEEEEecc
Confidence 45688899999999999987642 332223333 34557889999887653
No 136
>PRK05198 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=33.08 E-value=61 Score=25.01 Aligned_cols=31 Identities=23% Similarity=0.417 Sum_probs=23.8
Q ss_pred hcCCCCCCh----hhHHhHHHHHHHHHHCCCcEEe
Q 034414 12 KNNRPPTPD----TMVQGLQYLKASIKAMSIKVIE 42 (95)
Q Consensus 12 KanR~~~p~----~l~~q~~~i~~~l~~~gi~~~~ 42 (95)
||||..+.. .+.+-|.+++++-+..|++++.
T Consensus 52 KapRTSp~sFqG~G~eeGL~~L~~vk~~~GlpvvT 86 (264)
T PRK05198 52 KANRSSIHSFRGPGLEEGLKILQEVKETFGVPVLT 86 (264)
T ss_pred CCCCCCCCCCCCCChHHHHHHHHHHHHHHCCceEE
Confidence 359975432 3467899999999999999876
No 137
>PF13477 Glyco_trans_4_2: Glycosyl transferase 4-like
Probab=33.02 E-value=1.1e+02 Score=19.34 Aligned_cols=37 Identities=19% Similarity=0.477 Sum_probs=28.3
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCCCc-cc-ccCCeEEEEe
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNKDS-QI-LSHSLCLLRI 87 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~DkDl-QL-v~~~v~v~~~ 87 (95)
.+-.+++...+.|++|.|++.+.+. .. ..+++.++..
T Consensus 12 ~~~~~~~~L~~~g~~V~ii~~~~~~~~~~~~~~i~~~~~ 50 (139)
T PF13477_consen 12 FIYNLAKELKKRGYDVHIITPRNDYEKYEIIEGIKVIRL 50 (139)
T ss_pred HHHHHHHHHHHCCCEEEEEEcCCCchhhhHhCCeEEEEe
Confidence 3556677777789999999998886 44 4688888875
No 138
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=32.63 E-value=1.2e+02 Score=20.50 Aligned_cols=31 Identities=19% Similarity=0.381 Sum_probs=20.7
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHHHHHh
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKLAVRS 59 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatla~~~ 59 (95)
..+.+.++|+..+-.+|...|+++..+-+.+
T Consensus 104 ~~~~l~~~G~~~vf~~~~~~~~i~~~l~~~~ 134 (137)
T PRK02261 104 VEKKFKEMGFDRVFPPGTDPEEAIDDLKKDL 134 (137)
T ss_pred HHHHHHHcCCCEEECcCCCHHHHHHHHHHHh
Confidence 4445666777777777777777777666544
No 139
>PLN02234 1-deoxy-D-xylulose-5-phosphate synthase
Probab=32.36 E-value=1.2e+02 Score=26.08 Aligned_cols=41 Identities=12% Similarity=0.154 Sum_probs=30.5
Q ss_pred HHHHHHHCCCcEE-ecCCcchhHHHHHHHHHhhhC-CCcEEEE
Q 034414 29 LKASIKAMSIKVI-EVPGVEADDVIGKLAVRSVDD-GFKIQVV 69 (95)
Q Consensus 29 i~~~l~~~gi~~~-~~~g~EADDvIatla~~~~~~-~~~v~Iv 69 (95)
+.+.++++|+.++ .++|+-=++++.++...-... +.+++|+
T Consensus 275 ~~~~fe~fG~~~~g~vDGHd~~~l~~al~~~k~~~~~~P~vI~ 317 (641)
T PLN02234 275 SSTLFEELGFHYVGPVDGHNIDDLVSILETLKSTKTIGPVLIH 317 (641)
T ss_pred HHHHHHHcCCEEEeeECCCCHHHHHHHHHHHHhcCCCCCEEEE
Confidence 4678899999999 999999999999987532222 3455543
No 140
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=32.23 E-value=73 Score=23.97 Aligned_cols=22 Identities=18% Similarity=0.347 Sum_probs=19.4
Q ss_pred HHhHHHHHHHHHHCCCcEEecC
Q 034414 23 VQGLQYLKASIKAMSIKVIEVP 44 (95)
Q Consensus 23 ~~q~~~i~~~l~~~gi~~~~~~ 44 (95)
.+++..+++.++..|++++..+
T Consensus 75 ~~gl~~l~~~~~~~Gl~~~t~~ 96 (260)
T TIGR01361 75 EEGLKLLRRAADEHGLPVVTEV 96 (260)
T ss_pred HHHHHHHHHHHHHhCCCEEEee
Confidence 6789999999999999998865
No 141
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=31.88 E-value=1.2e+02 Score=23.57 Aligned_cols=53 Identities=13% Similarity=0.284 Sum_probs=35.8
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc--cccc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS--QILS 79 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl--QLv~ 79 (95)
-+.+...+..+|+.+.... .-+.+.+...+... .+.|..++|+|+ ++|+ +.+.
T Consensus 181 ~~~l~~~L~~~G~~v~~~~iv~Dd~~~I~~ai~~~-~~~g~DlIItTGGtsvg~~D~tp~Ai~ 242 (312)
T cd03522 181 GPVLRARLAALGVELVEQVIVPHDEAAIAAAIAEA-LEAGAELLILTGGASVDPDDVTPAAIR 242 (312)
T ss_pred HHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHH-hcCCCCEEEEeCCcccCCcchHHHHHH
Confidence 5678889999999876543 45566666666543 345688998764 6676 4444
No 142
>COG2927 HolC DNA polymerase III, chi subunit [DNA replication, recombination, and repair]
Probab=31.83 E-value=21 Score=25.16 Aligned_cols=36 Identities=14% Similarity=0.315 Sum_probs=28.6
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
++.-|+.++-..|.+|+|.+.|..= +-++++...|.
T Consensus 17 ~~c~L~~k~~~~G~rvlI~~~d~~q~e~LD~~LWt~~ 53 (144)
T COG2927 17 AACRLAEKAWRSGWRVLIQCEDEAQAEALDEHLWTFS 53 (144)
T ss_pred HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHhhhccc
Confidence 7777888888889999999999877 66777665554
No 143
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=31.74 E-value=12 Score=28.05 Aligned_cols=36 Identities=22% Similarity=0.441 Sum_probs=19.7
Q ss_pred cChhhhcCCCCCChhhHHhHHHHHHHHHH-----CCCcEEecCCc
Q 034414 7 LYPSYKNNRPPTPDTMVQGLQYLKASIKA-----MSIKVIEVPGV 46 (95)
Q Consensus 7 l~p~YKanR~~~p~~l~~q~~~i~~~l~~-----~gi~~~~~~g~ 46 (95)
+.-+||++|-.+++- +..+++++.. +|+..+-.+||
T Consensus 46 im~d~ka~~iD~~~v----i~rv~eLfK~h~~Ll~gfN~fLP~~~ 86 (231)
T KOG4204|consen 46 IMKDFKAQRIDTPGV----IARVKELLKGHPDLLLGFNTFLPPGY 86 (231)
T ss_pred HHHHHHhccCCHHHH----HHHHHHHHccCHHHHHHHHhhCcccc
Confidence 456788888776654 3334444432 45555555444
No 144
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=31.59 E-value=1.2e+02 Score=18.92 Aligned_cols=32 Identities=16% Similarity=0.275 Sum_probs=21.4
Q ss_pred ecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 42 EVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 42 ~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
...|... +++. +++.+.++|.+++.+|+..+-
T Consensus 68 S~~g~~~-~~~~-~~~~a~~~g~~iv~iT~~~~~ 99 (139)
T cd05013 68 SFSGETK-ETVE-AAEIAKERGAKVIAITDSANS 99 (139)
T ss_pred eCCCCCH-HHHH-HHHHHHHcCCeEEEEcCCCCC
Confidence 3445554 3333 456677889999999988765
No 145
>TIGR01362 KDO8P_synth 3-deoxy-8-phosphooctulonate synthase. In Gram-negative bacteria, this is the first step in the biosynthesis of 3-deoxy-D-manno-octulosonate, part of the oligosaccharide core of lipopolysaccharide.
Probab=31.56 E-value=69 Score=24.64 Aligned_cols=39 Identities=18% Similarity=0.322 Sum_probs=27.1
Q ss_pred hcCCCCCCh----hhHHhHHHHHHHHHHCCCcEEecCCcchhHH
Q 034414 12 KNNRPPTPD----TMVQGLQYLKASIKAMSIKVIEVPGVEADDV 51 (95)
Q Consensus 12 KanR~~~p~----~l~~q~~~i~~~l~~~gi~~~~~~g~EADDv 51 (95)
||||..+.. .+.+.|.+++++-+..|++++. +=.|..++
T Consensus 44 KapRTsp~sFqG~G~eeGL~iL~~vk~~~glpvvT-eV~~~~~~ 86 (258)
T TIGR01362 44 KANRSSIHSFRGPGLEEGLKILQKVKEEFGVPILT-DVHESSQC 86 (258)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHhCCceEE-EeCCHHHH
Confidence 469975432 2467899999999999999876 33344443
No 146
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=31.36 E-value=1.8e+02 Score=21.64 Aligned_cols=48 Identities=6% Similarity=0.201 Sum_probs=32.6
Q ss_pred HHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 23 VQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 23 ~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
..|..++..+|+.+|+..+..= +....+++. .+.+.|++++|++.+.+
T Consensus 97 ~~qr~~~e~v~~~lgl~~~~PLW~~~~~~ll~----e~i~~G~~aiIv~v~a~ 145 (223)
T TIGR00290 97 EYQKTRIERVCRELGLKSFAPLWHRDPEKLME----EFVEEKFEARIIAVAAE 145 (223)
T ss_pred HHHHHHHHHHHHhcCCEEeccccCCCHHHHHH----HHHHcCCeEEEEEEecC
Confidence 4466778888888888876543 555555544 44567899999776653
No 147
>PLN03194 putative disease resistance protein; Provisional
Probab=31.33 E-value=1.5e+02 Score=21.65 Aligned_cols=48 Identities=13% Similarity=0.178 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHCCCcEEecC-Ccc-hhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 25 GLQYLKASIKAMSIKVIEVP-GVE-ADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~-g~E-ADDvIatla~~~~~~~~~v~IvS~D 72 (95)
...+|.+.|...||.++.-+ ..+ .|.+...+-+.....-.-|+|+|.+
T Consensus 42 FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~ 91 (187)
T PLN03194 42 IATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPR 91 (187)
T ss_pred HHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCC
Confidence 36778889999999998755 455 4555567777776666778888875
No 148
>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=31.07 E-value=46 Score=24.90 Aligned_cols=40 Identities=5% Similarity=0.193 Sum_probs=27.0
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
....++..+.....+.|..|+++|.|-+. .-+.++|-++.
T Consensus 180 ~~~~l~~~L~~l~~~~g~tviiitHd~~~~~~~~drv~~l~ 220 (290)
T PRK13634 180 GRKEMMEMFYKLHKEKGLTTVLVTHSMEDAARYADQIVVMH 220 (290)
T ss_pred HHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhCCEEEEEE
Confidence 44455555544334457889999999998 66677777664
No 149
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=30.86 E-value=56 Score=24.09 Aligned_cols=29 Identities=31% Similarity=0.439 Sum_probs=21.5
Q ss_pred CcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 45 GVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 45 g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
|..=--+.+.+|..+.+.|.+|.++|.|-
T Consensus 10 G~GKtt~a~~la~~~a~~g~~vLlvd~D~ 38 (254)
T cd00550 10 GVGKTTISAATAVRLAEQGKKVLLVSTDP 38 (254)
T ss_pred CchHHHHHHHHHHHHHHCCCCceEEeCCC
Confidence 33334456777777888899999999886
No 150
>KOG0442 consensus Structure-specific endonuclease ERCC1-XPF, catalytic component XPF/ERCC4 [Replication, recombination and repair]
Probab=30.78 E-value=1.4e+02 Score=26.96 Aligned_cols=55 Identities=16% Similarity=0.160 Sum_probs=44.9
Q ss_pred CCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 15 RPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 15 R~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
|..++ .|.-+-..+.++++.-|--++..+|+-.+++++.+...+...|.-+.++.
T Consensus 9 ~~~~~-lL~Ye~qv~~~ll~~d~~L~V~a~GLsl~~l~~~~l~~~s~~~sL~LvLN 63 (892)
T KOG0442|consen 9 RKNMA-LLEYEQQVLLELLEADGNLLVLAPGLSLLRLVAELLILFSPPGSLVLVLN 63 (892)
T ss_pred cCCcc-cchhHHHHHHhhhcccCceEEecCCcCHHHHHHHHHHHhCCccceEEEec
Confidence 45555 56566666888887888788899999999999999998888888888877
No 151
>PF02589 DUF162: Uncharacterised ACR, YkgG family COG1556; InterPro: IPR003741 This entry represents a domain found in lactate utilization proteins B (LutB) and C (LutC), as well as several uncharacterised proteins. Lactate utilization proteins B and C are involved in L-lactate degradation and allows cells to grow with lactate as the sole carbon source. LutB probably has a role as an electron transporter during oxidation of L-lactate.; PDB: 2G40_A.
Probab=30.67 E-value=85 Score=21.69 Aligned_cols=47 Identities=17% Similarity=0.152 Sum_probs=24.7
Q ss_pred HHHHHHHHHCCCcEEecCC-cchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccc
Q 034414 27 QYLKASIKAMSIKVIEVPG-VEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QIL 78 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g-~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv 78 (95)
+.+.+.+++.|..+..... -||-++|..+.... .+.+...+.|+ ++.
T Consensus 2 e~f~~~l~~~g~~v~~~~~~~ea~~~i~~~i~~~-----~~~~~~~~~~l~~~~ 50 (189)
T PF02589_consen 2 EKFIKNLEANGGEVHRAKTKEEAAEAIAEIIKEK-----GAVVIGGSTDLGEIG 50 (189)
T ss_dssp -HHHHHHHHTT-EEEEE-T-TTHHHHHHHHHTT------------------EEE
T ss_pred HHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHh-----cccccccccchHhhc
Confidence 4566778899999998887 88988888776533 23455556666 443
No 152
>PRK14098 glycogen synthase; Provisional
Probab=30.66 E-value=57 Score=26.45 Aligned_cols=23 Identities=17% Similarity=0.517 Sum_probs=20.8
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcC
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~ 71 (95)
=||+++|.+...+.|..|.|+.+
T Consensus 25 ~dv~~~Lp~al~~~g~~v~v~~P 47 (489)
T PRK14098 25 ADFMASFPQALEEEGFEARIMMP 47 (489)
T ss_pred HHHHHHHHHHHHHCCCeEEEEcC
Confidence 38999999999999999999887
No 153
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=30.63 E-value=30 Score=23.43 Aligned_cols=31 Identities=19% Similarity=0.463 Sum_probs=22.7
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS 79 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~ 79 (95)
...++.|+.++...|.+|+|++.|... +-++
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD 46 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALD 46 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHH
Confidence 667888888888899999999999876 5444
No 154
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 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 but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=30.40 E-value=50 Score=21.66 Aligned_cols=29 Identities=24% Similarity=0.472 Sum_probs=22.3
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCCCc--cccc
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNKDS--QILS 79 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~DkDl--QLv~ 79 (95)
++--+...+.+.|.+|.|+|++.+- ||+.
T Consensus 70 ~i~~l~~~a~~~g~~v~iis~~~e~G~~L~~ 100 (113)
T PF03465_consen 70 LIEELIELAEQSGAKVEIISSEHEEGEQLLK 100 (113)
T ss_dssp HHHHHHHHHHHTTSEEEEE-TTSHHHHHHHH
T ss_pred HHHHHHHHHHHcCCEEEEEcCCCccHHHHHh
Confidence 5666777788889999999999987 6644
No 155
>PF02348 CTP_transf_3: Cytidylyltransferase; InterPro: IPR003329 Synonym(s): CMP-N-acetylneuraminic acid synthetase Acylneuraminate cytidylyltransferase (2.7.7.43 from EC) (CMP-NeuAc synthetase) catalyzes the reaction of CTP and NeuAc to form CMP-NeuAc, which is the nucleotide sugar donor used by sialyltransferases []. The outer membrane lipooligosaccharides of some microorganisms contain terminal sialic acid attached to N-acetyllactosamine and so this modification may be important in pathogenesis.; GO: 0009103 lipopolysaccharide biosynthetic process; PDB: 3K8D_C 1VH1_B 3K8E_C 1QWJ_A 3EWI_A 1VIC_B 3DUV_A 1VH3_C 3TQD_A 2Y6P_C ....
Probab=30.09 E-value=1.9e+02 Score=19.96 Aligned_cols=47 Identities=17% Similarity=0.075 Sum_probs=28.3
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHHHH--HhhhC-CCcEEEEcCCCCc
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKLAV--RSVDD-GFKIQVVSPNKDS 75 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatla~--~~~~~-~~~v~IvS~DkDl 75 (95)
+.+++...|..++..+|.+++|.-.++-. ++... ...++.+++|-=|
T Consensus 52 i~~~~~~~g~~v~~~~~~~~~~~~r~~~~~~~~~~~~~~~vv~~~~d~Pl 101 (217)
T PF02348_consen 52 IDDIAEEYGAKVIFRRGSLADDTDRFIEAIKHFLADDEDIVVRLQGDSPL 101 (217)
T ss_dssp HHHHHHHTTSEEEE--TTSSSHHHHHHHHHHHHTCSTTSEEEEESTTETT
T ss_pred HHHHHHHcCCeeEEcChhhcCCcccHHHHHHHhhhhHHhhccccCCeeeE
Confidence 55677888999999999999888655322 22111 1146667767555
No 156
>PF02639 DUF188: Uncharacterized BCR, YaiI/YqxD family COG1671; InterPro: IPR003791 This entry describes proteins of unknown function.
Probab=30.09 E-value=18 Score=24.71 Aligned_cols=38 Identities=18% Similarity=0.008 Sum_probs=27.5
Q ss_pred CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc--ccccCCeEEEEec
Q 034414 45 GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS--QILSHSLCLLRIA 88 (95)
Q Consensus 45 g~EADDvIatla~~~~~~~~~v~IvS~DkDl--QLv~~~v~v~~~~ 88 (95)
--.||+-|...++ . .=++||.|--| .|+..++.|++|.
T Consensus 38 ~DaaD~~I~~~~~----~--gDiVITqDigLA~~~l~Kga~vl~~r 77 (130)
T PF02639_consen 38 FDAADFYIVNHAK----P--GDIVITQDIGLASLLLAKGAYVLNPR 77 (130)
T ss_pred CChHHHHHHHcCC----C--CCEEEECCHHHHHHHHHCCCEEECCC
Confidence 4567888775432 2 23578999999 6788999999873
No 157
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=30.06 E-value=74 Score=24.80 Aligned_cols=31 Identities=23% Similarity=0.365 Sum_probs=23.8
Q ss_pred hcCCCCCCh----hhHHhHHHHHHHHHHCCCcEEe
Q 034414 12 KNNRPPTPD----TMVQGLQYLKASIKAMSIKVIE 42 (95)
Q Consensus 12 KanR~~~p~----~l~~q~~~i~~~l~~~gi~~~~ 42 (95)
|+||..+.. .+.+.+.+++++-+..|++++.
T Consensus 58 KapRTSp~sFqG~G~eeGL~iL~~vk~~~GlpvvT 92 (281)
T PRK12457 58 KANRSSIHSYRGVGLDEGLRIFEEVKARFGVPVIT 92 (281)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCceEE
Confidence 468875432 3567899999999999999876
No 158
>PLN03033 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=29.92 E-value=74 Score=24.92 Aligned_cols=31 Identities=26% Similarity=0.439 Sum_probs=24.2
Q ss_pred hcCCCCCCh----hhHHhHHHHHHHHHHCCCcEEe
Q 034414 12 KNNRPPTPD----TMVQGLQYLKASIKAMSIKVIE 42 (95)
Q Consensus 12 KanR~~~p~----~l~~q~~~i~~~l~~~gi~~~~ 42 (95)
||||..+.. .+.+.|.++.++-+.+|++++.
T Consensus 58 KApRTSp~sFrG~G~eeGL~iL~~vk~~~glpvvT 92 (290)
T PLN03033 58 KANRTSSKSFRGPGMAEGLKILEKVKVAYDLPIVT 92 (290)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCceEE
Confidence 469985432 3567899999999999999865
No 159
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 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 [, ]. Ribosomal protein S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....
Probab=29.87 E-value=60 Score=21.31 Aligned_cols=58 Identities=24% Similarity=0.381 Sum_probs=40.4
Q ss_pred hhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEec----CCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 9 PSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEV----PGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 9 p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~----~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
-.||..|+.+|..-......+-+.+..+|+..+.+ .|.-.+-+|-+|. ..|.+|.-++
T Consensus 32 ~gfK~~rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~ikG~g~gr~~~lk~l~----~~gl~I~~I~ 93 (110)
T PF00411_consen 32 LGFKGARKSTPYAAQQAAEKIAKKAKELGIKTVRVKIKGFGPGREAALKALK----KSGLKIVSIT 93 (110)
T ss_dssp SSTTTTCGSSHHHHHHHHHHHHHHHHCTTEEEEEEEEESSSTTHHHHHHHHH----HTTSEEEEEE
T ss_pred cccccccccCHHHHHHHHHHHHHHHHHcCCeEEEEEEcCCCccHHHHHHHHH----hcCCEEEEEE
Confidence 46999999999876555566666677789987664 4666777777664 2466666554
No 160
>PF12804 NTP_transf_3: MobA-like NTP transferase domain; PDB: 3FWW_A 2XME_D 2XMH_C 2DPW_A 2WAW_A 2OI5_B 1HV9_B 1FWY_A 2OI6_A 2OI7_B ....
Probab=29.87 E-value=1.6e+02 Score=19.16 Aligned_cols=40 Identities=15% Similarity=0.198 Sum_probs=23.1
Q ss_pred HHHCCCcEEecCCcchhHHHHHHHHHhhh--CCCcEEEEcCCC
Q 034414 33 IKAMSIKVIEVPGVEADDVIGKLAVRSVD--DGFKIQVVSPNK 73 (95)
Q Consensus 33 l~~~gi~~~~~~g~EADDvIatla~~~~~--~~~~v~IvS~Dk 73 (95)
+...++.++.-+..+ ...++++...... ....++|+++|-
T Consensus 55 ~~~~~~~~v~~~~~~-~G~~~sl~~a~~~~~~~~~vlv~~~D~ 96 (160)
T PF12804_consen 55 LERYGIKVVVDPEPG-QGPLASLLAALSQLPSSEPVLVLPCDQ 96 (160)
T ss_dssp HTTTTSEEEE-STSS-CSHHHHHHHHHHTSTTSSEEEEEETTE
T ss_pred HhccCceEEEecccc-CChHHHHHHHHHhcccCCCcEEEeCCc
Confidence 344566666665444 5566666554443 245677777776
No 161
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=29.84 E-value=87 Score=22.25 Aligned_cols=37 Identities=14% Similarity=0.165 Sum_probs=23.4
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+.+...+.....+.|..|+|+|.|.+. .. .+.+-+++
T Consensus 174 ~~l~~~l~~~~~~~~~tvii~sh~~~~~~~-~d~i~~l~ 211 (225)
T PRK10247 174 HNVNEIIHRYVREQNIAVLWVTHDKDEINH-ADKVITLQ 211 (225)
T ss_pred HHHHHHHHHHHHhcCCEEEEEECChHHHHh-CCEEEEEe
Confidence 334444443333347789999999999 75 66665553
No 162
>PF13684 Dak1_2: Dihydroxyacetone kinase family
Probab=29.82 E-value=1.8e+02 Score=22.46 Aligned_cols=44 Identities=16% Similarity=0.319 Sum_probs=31.7
Q ss_pred HHHHHHHCCCcEEecCC----cchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 29 LKASIKAMSIKVIEVPG----VEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g----~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
+.++++.+|+..+...| --..|++..+.+-. ..+|+|+.+++..
T Consensus 108 ~~~lf~~~Gv~~vi~ggqt~nPS~~dl~~Ai~~~~---a~~VivLPNn~ni 155 (313)
T PF13684_consen 108 LAELFRSLGVDVVISGGQTMNPSTEDLLNAIEKVG---ADEVIVLPNNKNI 155 (313)
T ss_pred HHHHHHhCCCeEEEeCCCCCCCCHHHHHHHHHhCC---CCeEEEEeCCchH
Confidence 57788999988665443 23568888766532 2489999999986
No 163
>PTZ00089 transketolase; Provisional
Probab=29.50 E-value=1.5e+02 Score=25.27 Aligned_cols=42 Identities=19% Similarity=0.211 Sum_probs=30.1
Q ss_pred HHHHHHHHHCCCcEEec-CCc-chhHHHHHHHHHhhhCCCcEEE
Q 034414 27 QYLKASIKAMSIKVIEV-PGV-EADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~-~g~-EADDvIatla~~~~~~~~~v~I 68 (95)
+.+.+.++++|+.++.+ +|. --+.++.++.......+.+++|
T Consensus 201 ~~~~~~f~a~G~~~i~v~dG~~D~~~l~~a~~~a~~~~~~P~~I 244 (661)
T PTZ00089 201 EDVEKKYEAYGWHVIEVDNGNTDFDGLRKAIEEAKKSKGKPKLI 244 (661)
T ss_pred ccHHHHHHhcCCcEEEeCCCCCCHHHHHHHHHHHHhcCCCcEEE
Confidence 44567889999999999 898 8888888876533222445554
No 164
>PRK12753 transketolase; Reviewed
Probab=29.38 E-value=1.5e+02 Score=25.43 Aligned_cols=42 Identities=10% Similarity=0.072 Sum_probs=30.1
Q ss_pred HHHHHHHHHCCCcEEe-cCCcchhHHHHHHHHHhhhCCCcEEE
Q 034414 27 QYLKASIKAMSIKVIE-VPGVEADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~-~~g~EADDvIatla~~~~~~~~~v~I 68 (95)
+.+.+.++++|+.+++ ++|.--+.+..++.......+.+++|
T Consensus 199 ~~~~~~f~a~Gw~~~~~vDGhD~~~i~~a~~~a~~~~~~P~~I 241 (663)
T PRK12753 199 DDTAKRFEAYHWHVIHEIDGHDPQAIKEAILEAQSVKDKPSLI 241 (663)
T ss_pred hhHHHHHHHcCCeEEceeCCCCHHHHHHHHHHHHHCCCCeEEE
Confidence 4567788999999995 89998888888886433222445444
No 165
>cd03791 GT1_Glycogen_synthase_DULL1_like This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family includes starch synthases of plants, such as DULL1 in Zea mays and glycogen synthases of various organisms.
Probab=29.38 E-value=62 Score=25.24 Aligned_cols=26 Identities=27% Similarity=0.477 Sum_probs=22.0
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
-|+++.|++...+.|++|.|+++.-+
T Consensus 19 ~~~~~~L~~aL~~~G~~V~Vi~p~y~ 44 (476)
T cd03791 19 GDVVGALPKALAKLGHDVRVIMPKYG 44 (476)
T ss_pred HHHHHHHHHHHHHCCCeEEEEecCCc
Confidence 38899999999999999999996444
No 166
>COG2877 KdsA 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]
Probab=29.35 E-value=68 Score=24.89 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=25.1
Q ss_pred hcCCCCCC----hhhHHhHHHHHHHHHHCCCcEEe
Q 034414 12 KNNRPPTP----DTMVQGLQYLKASIKAMSIKVIE 42 (95)
Q Consensus 12 KanR~~~p----~~l~~q~~~i~~~l~~~gi~~~~ 42 (95)
||||.... ..|.+.++.+.++-+.+|++++.
T Consensus 59 KANRsSi~s~RGpGLeeglki~~~vK~efgv~ilT 93 (279)
T COG2877 59 KANRSSIHSYRGPGLEEGLKILQEVKEEFGVPILT 93 (279)
T ss_pred cccccccccccCCCHHHHHHHHHHHHHHcCCceee
Confidence 89997633 45778888888888999999986
No 167
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=29.25 E-value=1.7e+02 Score=22.03 Aligned_cols=42 Identities=24% Similarity=0.345 Sum_probs=17.6
Q ss_pred HHHHHHHC-CCcEEecCCcc--hhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 29 LKASIKAM-SIKVIEVPGVE--ADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 29 i~~~l~~~-gi~~~~~~g~E--ADDvIatla~~~~~~~~~v~IvS~ 71 (95)
++++.+.+ |+.+...++.. .+|....+ +.+.+.|+.++|.++
T Consensus 25 ~~~~~~~~~~i~~~~~e~~~~~~~~~~~~~-~~~~~~g~dlIi~~g 69 (306)
T PF02608_consen 25 LKRAEKELDGIEIIYVENVPETDADYEEAI-RQLADQGYDLIIGHG 69 (306)
T ss_dssp HHHHHHHCTTEEEEEEES-S-TCHHHHHHH-HHHHHTT-SEEEEES
T ss_pred HHHHHHHcCCceEEEEecCCccHHHHHHHH-HHHHHcCCCEEEEcc
Confidence 34444444 55555555444 44443333 223334555555443
No 168
>PF06892 Phage_CP76: Phage regulatory protein CII (CP76); InterPro: IPR009679 This entry is represented by Bacteriophage 186, CII. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage regulatory protein CII (CP76) sequences which are thought to be DNA binding proteins which are involved in the establishment of lysogeny [].
Probab=29.23 E-value=80 Score=22.22 Aligned_cols=55 Identities=18% Similarity=0.249 Sum_probs=35.4
Q ss_pred ccccccChhhhcCCCCCChhhHHh------HHHHHHHHHHCCCcEEecCCcc-hhHHHHHHHHH
Q 034414 2 NFRHTLYPSYKNNRPPTPDTMVQG------LQYLKASIKAMSIKVIEVPGVE-ADDVIGKLAVR 58 (95)
Q Consensus 2 ~~R~~l~p~YKanR~~~p~~l~~q------~~~i~~~l~~~gi~~~~~~g~E-ADDvIatla~~ 58 (95)
++|+++.|+. . .+.+..++... .-.+.-++..+|...+..|..| +.+++-.+...
T Consensus 36 ~LrNKLNP~q-~-H~Lt~~el~~i~~~Tgd~~il~~ll~~lg~v~v~lP~~~~~~~l~~~~l~~ 97 (162)
T PF06892_consen 36 TLRNKLNPEQ-P-HKLTVDELIAITDATGDYRILDALLAELGCVPVVLPKNEAAKSLPERVLKA 97 (162)
T ss_pred HHHHHcCCCC-C-CCCCHHHHHHHHHHhCCcHHHHHHHHHCCCeeecCCccccccCHHHHHHHH
Confidence 5799999983 3 45566665433 2347777888999888856444 44665554443
No 169
>PLN02790 transketolase
Probab=29.11 E-value=1.6e+02 Score=25.08 Aligned_cols=42 Identities=10% Similarity=0.093 Sum_probs=29.1
Q ss_pred HHHHHHHHHCCCcEEecCC--cchhHHHHHHHHHhhhCCCcEEE
Q 034414 27 QYLKASIKAMSIKVIEVPG--VEADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g--~EADDvIatla~~~~~~~~~v~I 68 (95)
+.+.+.++++|++++.++| .--+.+..++...-...+.+++|
T Consensus 190 ~~~~~~f~a~G~~~~~vdgg~hd~~~l~~a~~~a~~~~~~P~lI 233 (654)
T PLN02790 190 EDVDKRYEALGWHTIWVKNGNTDYDEIRAAIKEAKAVTDKPTLI 233 (654)
T ss_pred hhHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCeEEE
Confidence 4456788999999999987 77888888776432213445544
No 170
>PF00113 Enolase_C: Enolase, C-terminal TIM barrel domain; InterPro: IPR020810 Enolase (2-phospho-D-glycerate hydrolase) is an essential glycolytic enzyme that catalyses the interconversion of 2-phosphoglycerate and phosphoenolpyruvate [, ]. In vertebrates, there are 3 different, tissue-specific isoenzymes, designated alpha, beta and gamma. Alpha is present in most tissues, beta is localised in muscle tissue, and gamma is found only in nervous tissue. The functional enzyme exists as a dimer of any 2 isoforms. In immature organs and in adult liver, it is usually an alpha homodimer, in adult skeletal muscle, a beta homodimer, and in adult neurons, a gamma homodimer. In developing muscle, it is usually an alpha/beta heterodimer, and in the developing nervous system, an alpha/gamma heterodimer []. The tissue specific forms display minor kinetic differences. Tau-crystallin, one of the major lens proteins in some fish, reptiles and birds, has been shown [] to be evolutionary related to enolase. Neuron-specific enolase is released in a variety of neurological diseases, such as multiple sclerosis and after seizures or acute stroke. Several tumour cells have also been found positive for neuron-specific enolase. Beta-enolase deficiency is associated with glycogenosis type XIII defect.; GO: 0000287 magnesium ion binding, 0004634 phosphopyruvate hydratase activity, 0006096 glycolysis, 0000015 phosphopyruvate hydratase complex; PDB: 2FYM_D 3H8A_C 1E9I_D 3TQP_B 2PU1_A 1OEP_A 2PA6_A 1PDY_A 1PDZ_A 3UJ2_E ....
Probab=29.09 E-value=49 Score=25.63 Aligned_cols=46 Identities=37% Similarity=0.310 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
++.+..++++..+|..++-|-.| ||. ..+++...+-|.+|.||..|
T Consensus 138 lid~y~~li~~YPIvsIEDpf~e-dD~-e~w~~lt~~~g~~~~iVGDD 183 (295)
T PF00113_consen 138 LIDYYKDLIKKYPIVSIEDPFDE-DDW-EGWAKLTKRLGDKIQIVGDD 183 (295)
T ss_dssp HHHHHHHHHHHS-EEEEESSS-T-T-H-HHHHHHHHHHTTTSEEEEST
T ss_pred HHHHHHHHHHhcCeEEEEccccc-cch-HHHHHHHHhhhcceeeeccc
Confidence 47888999999887666555444 553 34555445556678888766
No 171
>PF08323 Glyco_transf_5: Starch synthase catalytic domain; InterPro: IPR013534 This region represents the catalytic domain of glycogen (or starch) synthases that use ADP-glucose (2.4.1.21 from EC), rather than UDP-glucose (2.4.1.11 from EC) as in animals, as the glucose donor. This enzyme is found in bacteria and plants. Whether the name given is glycogen synthase or starch synthase depends on context, and therefore on substrate.; PDB: 2BIS_C 3L01_A 3FRO_A 2R4U_A 2R4T_A 3D1J_A 3COP_A 3GUH_A 2QZS_A 3CX4_A ....
Probab=29.06 E-value=53 Score=24.04 Aligned_cols=26 Identities=27% Similarity=0.509 Sum_probs=20.8
Q ss_pred HHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 50 DVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 50 DvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
|+.+.|++...+.|.+|.|+++--+.
T Consensus 20 dv~~~L~kaL~~~G~~V~Vi~P~y~~ 45 (245)
T PF08323_consen 20 DVVGSLPKALAKQGHDVRVIMPKYGF 45 (245)
T ss_dssp HHHHHHHHHHHHTT-EEEEEEE-THH
T ss_pred HHHHHHHHHHHhcCCeEEEEEccchh
Confidence 78999999999999999999886654
No 172
>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=28.79 E-value=57 Score=25.60 Aligned_cols=26 Identities=27% Similarity=0.280 Sum_probs=20.7
Q ss_pred HHHHHHHhhhCCCcEEEEcCCCCc--cc
Q 034414 52 IGKLAVRSVDDGFKIQVVSPNKDS--QI 77 (95)
Q Consensus 52 Iatla~~~~~~~~~v~IvS~DkDl--QL 77 (95)
+--+...+.+.|.+|.|+|+|.+- ||
T Consensus 310 ~~~l~~~v~~~gg~V~i~Ss~~e~G~qL 337 (351)
T TIGR00111 310 IEKLLDSVESMGGKVVILSTEHELGKQL 337 (351)
T ss_pred HHHHHHHHHHcCCEEEEEcCCCccHHHH
Confidence 444666677789999999999999 65
No 173
>TIGR01382 PfpI intracellular protease, PfpI family. The member of this family from Pyrococcus horikoshii has been solved to 2 Angstrom resolution. It is an ATP-independent intracellular protease that crystallizes as a hexameric ring. Cys-101 is proposed as the active site residue in a catalytic triad with the adjacent His-102 and a Glu residue from an adjacent monomer. A member of this family from Bacillus subtilis, GSP18, has been shown to be expressed in response to several forms of stress. A role in the degradation of small peptides has been suggested. A closely related family consists of the thiamine biosynthesis protein ThiJ and its homologs.
Probab=28.71 E-value=1.2e+02 Score=20.15 Aligned_cols=35 Identities=20% Similarity=0.317 Sum_probs=24.4
Q ss_pred cEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 39 KVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 39 ~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
.++..+|++.-++++.+. .+...|+++.++|.+..
T Consensus 3 ~il~~~g~~~~e~~~~~~-~l~~ag~~v~~vs~~~~ 37 (166)
T TIGR01382 3 LVLTTDEFEDSELLYPLD-RLREAGHEVDTVSKEAG 37 (166)
T ss_pred EEEecCCchHHHHHHHHH-HHHHCCCEEEEEecCCC
Confidence 456778888888877654 34556788888886654
No 174
>TIGR01527 arch_NMN_Atrans nicotinamide-nucleotide adenylyltransferase. In some archaeal species, a lower-scoring paralog, uncharacterized with respect to activity, is also present. These score between trusted and noise cutoffs.
Probab=28.45 E-value=39 Score=23.82 Aligned_cols=47 Identities=13% Similarity=0.238 Sum_probs=32.8
Q ss_pred HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCe
Q 034414 27 QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSL 82 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v 82 (95)
+....++..+|+.+...|-++-+.+=||..++. |.+ |.+| +||-+.|
T Consensus 100 ~~~~~~f~e~g~~v~~~p~~~r~~~S~T~IR~~--------i~~-~~~W~~lVP~~v 147 (165)
T TIGR01527 100 PLVRRLFKEAGYEVKRPPMFNRKEYSGTEIRRR--------MLN-GEDWEHLVPKAV 147 (165)
T ss_pred HHHHHHHHHcCCEEEECCCcCCCcccHHHHHHH--------HHc-CCChhhhCCHHH
Confidence 445678888999999998887776666655544 334 4559 8887654
No 175
>PF01850 PIN: PIN domain; InterPro: IPR002716 The PilT protein, N-terminal domain (PIN) is a compact domain of about 100 amino acids. The domain has two nearly invariant aspartates and forms a coiled-coil with other monomer units to polymerise a pilus fibre []. The function of the PIN domain is unknown but a role in signalling appears likely given the presence of this domain in some bacterial plasmid stability proteins and Dis3 from yeast that is implicated in mitotic control [].; PDB: 3TND_G 2H1O_B 2BSQ_B 2H1C_A 2FE1_A 3ZVK_C 1V8P_F 1V8O_C 3H87_A 1O4W_A ....
Probab=28.43 E-value=36 Score=20.89 Aligned_cols=11 Identities=36% Similarity=0.449 Sum_probs=7.8
Q ss_pred EEEcCCCCc-cc
Q 034414 67 QVVSPNKDS-QI 77 (95)
Q Consensus 67 ~IvS~DkDl-QL 77 (95)
+|+|.|+|| ++
T Consensus 107 ~v~T~D~~f~~~ 118 (121)
T PF01850_consen 107 LVVTFDKDFRKV 118 (121)
T ss_dssp EE-ESSHHHHHH
T ss_pred EEEECCcCHHhc
Confidence 455999998 64
No 176
>PF11130 TraC_F_IV: F pilus assembly Type-IV secretion system for plasmid transfer
Probab=28.22 E-value=1e+02 Score=22.06 Aligned_cols=61 Identities=16% Similarity=0.204 Sum_probs=40.6
Q ss_pred hhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhC---CCcEEEEcCCCCc--ccccCCeEE
Q 034414 21 TMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDD---GFKIQVVSPNKDS--QILSHSLCL 84 (95)
Q Consensus 21 ~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~---~~~v~IvS~DkDl--QLv~~~v~v 84 (95)
++.+....+...|..+|+..- -+.++++|.-+...+.-. +....-+..++++ |++....++
T Consensus 142 ~l~~~~~~~~~~L~~~gi~~~---~~~~~~l~~~l~~~~Np~~~~~~~~~~yd~~~~l~~Qi~~~~~~~ 207 (235)
T PF11130_consen 142 ELNELRERLESSLRSAGIPPR---RLDPEDLISWLRRIFNPNPDANWPAPEYDPDEPLREQILDSDTEI 207 (235)
T ss_pred HHHHHHHHHHHHHHHCCCccE---EcCHHHHHHHHHHHcCCCccccCCccCCCCCCCHHHhcCCCCCeE
Confidence 455666777888888998854 456889999888765321 1111127888999 998865544
No 177
>TIGR03297 Ppyr-DeCO2ase phosphonopyruvate decarboxylase. This family consists of examples of phosphonopyruvate an decarboxylase enzyme that produces phosphonoacetaldehyde (Pald), the second step in the biosynthesis phosphonate-containing compounds. Since the preceding enzymate step, PEP phosphomutase (AepX, TIGR02320) favors the substrate PEP energetically, the decarboxylase is required to drive the reaction in the direction of phosphonate production. Pald is a precursor of natural products including antibiotics like bialaphos and phosphonothricin in Streptomyces species, phosphonate-modified molecules such as the polysaccharide B of Bacteroides fragilis, the phosphonolipids of Tetrahymena pyroformis, the glycosylinositolphospholipids of Trypanosoma cruzi. This gene generally occurs in prokaryotic organisms adjacent to the gene for AepX. Most often an aminotansferase (aepZ) is also present which leads to the production of the most common phosphonate compound, 2-aminoethylphosphonate (A
Probab=28.05 E-value=1.6e+02 Score=23.22 Aligned_cols=44 Identities=14% Similarity=0.051 Sum_probs=29.5
Q ss_pred HHHHHHHHHCCCcEEecCC--cchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 27 QYLKASIKAMSIKVIEVPG--VEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~~g--~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.....+|+.|||++...+. -|+-+.|....+.+.+.+.++.++-
T Consensus 105 ~~t~~lL~~~~i~~~~~~~~~~~~~~~~~~a~~~~~~~~~p~a~l~ 150 (361)
T TIGR03297 105 RITLSLLDALEIPWEVLSTDNDEALAQIERALAHALATSRPYALVV 150 (361)
T ss_pred HHHHHHHHHcCCCEEECCCChHHHHHHHHHHHHHHHHHCCCEEEEE
Confidence 4567889999999999853 3445555555555555566666554
No 178
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=27.90 E-value=1.3e+02 Score=18.62 Aligned_cols=37 Identities=22% Similarity=0.350 Sum_probs=23.5
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCCCc-c--cccCCeEEEEe
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNKDS-Q--ILSHSLCLLRI 87 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~DkDl-Q--Lv~~~v~v~~~ 87 (95)
.+..++....+.|++|.|++...+- + ...+++.++.+
T Consensus 6 ~~~~l~~~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~ 45 (160)
T PF13579_consen 6 YVRELARALAARGHEVTVVTPQPDPEDDEEEEDGVRVHRL 45 (160)
T ss_dssp HHHHHHHHHHHTT-EEEEEEE---GGG-SEEETTEEEEEE
T ss_pred HHHHHHHHHHHCCCEEEEEecCCCCcccccccCCceEEec
Confidence 3556777788889999988876666 3 44567777763
No 179
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=27.85 E-value=1.8e+02 Score=22.54 Aligned_cols=38 Identities=8% Similarity=0.023 Sum_probs=28.5
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCC
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDG 63 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~ 63 (95)
+..+.++++.+|++.....+...+.++..+..--...+
T Consensus 277 ~~~i~~~l~~~glp~~~~~~~~~~~~~~~~~~dkk~~~ 314 (344)
T cd08169 277 YSRIYNLLKKLGLPQDHPLKLDPDSLYHYLLHDKKNGY 314 (344)
T ss_pred HHHHHHHHHHcCCCcCCCCCCCHHHHHHHHHHhhcccC
Confidence 56688889999999765467788999998876544443
No 180
>PRK00782 hypothetical protein; Provisional
Probab=27.84 E-value=55 Score=24.54 Aligned_cols=51 Identities=22% Similarity=0.176 Sum_probs=25.0
Q ss_pred hHHhHHHHHHHH-HHCCCcEEecCCc---chhHHHHHHHHHhhhCCCcE-EEEcCC
Q 034414 22 MVQGLQYLKASI-KAMSIKVIEVPGV---EADDVIGKLAVRSVDDGFKI-QVVSPN 72 (95)
Q Consensus 22 l~~q~~~i~~~l-~~~gi~~~~~~g~---EADDvIatla~~~~~~~~~v-~IvS~D 72 (95)
+.-|+|+|+.++ ..+.+--+.+-.. .+.++...|+....+.+.++ +|+|+|
T Consensus 123 iEvqlPFLq~~~~~~~~iVPI~vg~~~~~~~~~lg~~L~~~~~~~~~~vliIaSsD 178 (267)
T PRK00782 123 IEVQLPFLQYLFGKDFKIVPICLGMQDEETAREVGEAIAEAIEELGKKVVVIASSD 178 (267)
T ss_pred EEecHHHhhHhhcCCCeEEEEEcCCCCHHHHHHHHHHHHHHHHhcCCCEEEEEeCC
Confidence 556899998765 2222322322222 23344444444333334445 567755
No 181
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=27.83 E-value=70 Score=23.93 Aligned_cols=40 Identities=18% Similarity=0.210 Sum_probs=28.5
Q ss_pred CcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEE
Q 034414 45 GVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCL 84 (95)
Q Consensus 45 g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v 84 (95)
---|+.|+.-+.....+.|..|++||.|.++ ...+.-+.+
T Consensus 175 ~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~dr~i~l 215 (226)
T COG1136 175 SKTAKEVLELLRELNKERGKTIIMVTHDPELAKYADRVIEL 215 (226)
T ss_pred hHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCCEEEEE
Confidence 3456677777776666678899999999999 755543333
No 182
>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=27.82 E-value=81 Score=22.66 Aligned_cols=37 Identities=22% Similarity=0.255 Sum_probs=26.0
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
.+.++..+.. ..+.|..|+++|.|-++ . ..+++.++.
T Consensus 175 ~~~l~~~l~~-~~~~g~tii~itH~~~~~~-~~d~i~~l~ 212 (226)
T cd03270 175 NDRLIETLKR-LRDLGNTVLVVEHDEDTIR-AADHVIDIG 212 (226)
T ss_pred HHHHHHHHHH-HHhCCCEEEEEEeCHHHHH-hCCEEEEeC
Confidence 4455555544 34457889999999999 7 577787774
No 183
>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.70 E-value=2.2e+02 Score=22.97 Aligned_cols=57 Identities=19% Similarity=0.290 Sum_probs=41.8
Q ss_pred CChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 18 TPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 18 ~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
++++|......|.+.++.-+|+++..|..|.|+-..-.++.... -.+.-|++++..+
T Consensus 172 T~~El~~~K~~I~~~i~~~nI~vf~fp~~~~d~~~~~~~~~l~~-~~PFAIigs~~~~ 228 (366)
T KOG2655|consen 172 TKDELNQFKKRIRQDIEEHNIKVFDFPTDESDEELKEEEQDLKS-SIPFAIIGSNTEI 228 (366)
T ss_pred CHHHHHHHHHHHHHHHHHcCcceecCCCCcchhhhHHHHHHHhh-cCCeEEEecCcee
Confidence 67788777788999999999999999988865554444444332 3577788888764
No 184
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=27.64 E-value=1.3e+02 Score=21.08 Aligned_cols=28 Identities=4% Similarity=0.137 Sum_probs=19.2
Q ss_pred HhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 58 RSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 58 ~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
...+.|..|+++|.|.++ .-+.+.+-.+
T Consensus 194 ~~~~~g~tii~vsH~~~~~~~~~d~i~~~ 222 (224)
T TIGR02324 194 EAKARGAALIGIFHDEEVRELVADRVMDV 222 (224)
T ss_pred HHHhcCCEEEEEeCCHHHHHHhcceeEec
Confidence 344457789999999887 6556655544
No 185
>COG4032 Predicted thiamine-pyrophosphate-binding protein [General function prediction only]
Probab=27.41 E-value=85 Score=22.61 Aligned_cols=57 Identities=11% Similarity=0.139 Sum_probs=40.9
Q ss_pred CCCCCChhhHHhHH---HHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 14 NRPPTPDTMVQGLQ---YLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 14 nR~~~p~~l~~q~~---~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
+|.---|....|.| ++..+|+-++++.+... --||=++|.-+...+.+.+.+|.++-
T Consensus 101 hRG~~~E~i~AQVpmGr~~~kiLe~~~lpt~t~~~p~Ea~~li~~~~~~a~~~s~pv~vll 161 (172)
T COG4032 101 HRGVLKEGIEAQVPMGRALPKILEGLELPTYTIIGPEEALPLIENAILDAFENSRPVAVLL 161 (172)
T ss_pred ccchhhcCCccccccchhhHHHHhhcCCcccccCCHHHHHHHHHHHHHHHHHcCCceEEEe
Confidence 44444444555654 37788999999888776 56789999998887777777776654
No 186
>cd08174 G1PDH-like Glycerol-1-phosphate dehydrogenase-like. Glycerol-1-phosphate dehydrogenase-like. The proteins of this family have not been characterized. The protein sequences have high similarity with that of glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. This family is bacteria specific.
Probab=27.36 E-value=1.2e+02 Score=23.06 Aligned_cols=49 Identities=2% Similarity=0.082 Sum_probs=32.6
Q ss_pred HHHHHHHHHHCCCcEEe-cCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 26 LQYLKASIKAMSIKVIE-VPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~-~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
...+..+++.+|+++.- .-|...||+...+......++.+.+|.. ++++
T Consensus 272 ~~~i~~~l~~~glp~~~~~~g~~~~~~~~~~~~~~k~~~~~~~~l~-~~~~ 321 (331)
T cd08174 272 TERIQKLLTLTGFFLYVKELGLDKEEFLEAVQLAPSTRPGRYTILE-HLGL 321 (331)
T ss_pred HHHHHHHHHHcCCCCCHHHcCCCHHHHHHHHHhccccCCCceEeeC-CCCC
Confidence 45788899999999643 3377889999877654443444666655 4443
No 187
>PRK14099 glycogen synthase; Provisional
Probab=27.34 E-value=72 Score=25.84 Aligned_cols=23 Identities=26% Similarity=0.497 Sum_probs=20.9
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcC
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~ 71 (95)
=|++++|.+...+.|++|.|+.+
T Consensus 23 ~dv~~~lp~~l~~~g~~v~v~~P 45 (485)
T PRK14099 23 ADVAGALPAALKAHGVEVRTLVP 45 (485)
T ss_pred HHHHHHHHHHHHHCCCcEEEEeC
Confidence 38999999999999999999887
No 188
>PRK08227 autoinducer 2 aldolase; Validated
Probab=27.34 E-value=2.2e+02 Score=21.72 Aligned_cols=63 Identities=13% Similarity=0.128 Sum_probs=39.8
Q ss_pred hHHhHHHHHHHHHHCCCcEEec-C-C---cchhHHHHHHHHHhhhCCCcEEE--EcCCCCc-cccc-CCeEEE
Q 034414 22 MVQGLQYLKASIKAMSIKVIEV-P-G---VEADDVIGKLAVRSVDDGFKIQV--VSPNKDS-QILS-HSLCLL 85 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~~-~-g---~EADDvIatla~~~~~~~~~v~I--vS~DkDl-QLv~-~~v~v~ 85 (95)
...++..+.+-++..|+|++.. + | --..|+|+..++.+.+-|..++= +++ ..| .++. -.+-|+
T Consensus 125 ~l~~l~~v~~ea~~~G~Plla~~prG~~~~~~~~~ia~aaRiaaELGADiVK~~y~~-~~f~~vv~a~~vPVv 196 (264)
T PRK08227 125 SIKNIIQLVDAGLRYGMPVMAVTAVGKDMVRDARYFSLATRIAAEMGAQIIKTYYVE-EGFERITAGCPVPIV 196 (264)
T ss_pred HHHHHHHHHHHHHHhCCcEEEEecCCCCcCchHHHHHHHHHHHHHHcCCEEecCCCH-HHHHHHHHcCCCcEE
Confidence 3445666777788899997762 2 2 11345999999888888876652 333 456 7665 234444
No 189
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=27.04 E-value=2e+02 Score=22.41 Aligned_cols=43 Identities=21% Similarity=0.324 Sum_probs=29.1
Q ss_pred HHHHHHHHHHCCCcEEecCCcchh---HHHHHHHHHhhhCCCcEEE
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEAD---DVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EAD---DvIatla~~~~~~~~~v~I 68 (95)
++.+.+.|+..|+.+...++.+++ +.+-..+..+...+..++|
T Consensus 46 ~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~II 91 (382)
T cd08187 46 YDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFIL 91 (382)
T ss_pred HHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 567888888889988888888765 3333344445555666655
No 190
>PF00884 Sulfatase: Sulfatase; InterPro: IPR000917 Sulphatases 3.1.6. from EC are enzymes that hydrolyze various sulphate esters. The sequence of different types of sulphatases are available and have shown to be structurally related [, , ]; these include: arylsulphatase A 3.1.6.8 from EC (ASA), a lysosomal enzyme which hydrolyses cerebroside sulphate; arylsulphatase B 3.1.6.12 from EC (ASB), which hydrolyses the sulphate ester group from N-acetylgalactosamine 4-sulphate residues of dermatan sulphate; arylsulphatase C (ASD) and E (ASE); steryl-sulphatase 3.1.6.2 from EC (STS), a membrane bound microsomal enzyme which hydrolyses 3-beta-hydroxy steroid sulphates; iduronate 2-sulphatase precursor 3.1.6.13 from EC (IDS), a lysosomal enzyme that hydrolyses the 2-sulphate groups from non-reducing-terminal iduronic acid residues in dermatan sulphate and heparan sulphate; N-acetylgalactosamine-6-sulphatase 3.1.6.4 from EC, which hydrolyses the 6-sulphate groups of the N-acetyl-d-galactosamine 6-sulphate units of chondroitin sulphate and the D-galactose 6-sulphate units of keratan sulphate; glucosamine-6-sulphatase 3.1.6.14 from EC (G6S), which hydrolyses the N-acetyl-D-glucosamine 6-sulphate units of heparan sulphate and keratan sulphate; N-sulphoglucosamine sulphohydrolase 3.10.1.1 from EC (sulphamidase), the lysosomal enzyme that catalyses the hydrolysis of N-sulpho-d-glucosamine into glucosamine and sulphate; sea urchin embryo arylsulphatase 3.1.6.1 from EC; green algae arylsulphatase 3.1.6.1 from EC, which plays an important role in the mineralisation of sulphates; and arylsulphatase 3.1.6.1 from EC from Escherichia coli (aslA), Klebsiella aerogenes (gene atsA) and Pseudomonas aeruginosa (gene atsA). ; GO: 0008484 sulfuric ester hydrolase activity, 0008152 metabolic process; PDB: 1P49_A 1FSU_A 2QZU_A 2W5Q_A 2W5T_A 2W5S_A 2W5R_A 3LXQ_A 1HDH_B 1E33_P ....
Probab=26.84 E-value=76 Score=22.55 Aligned_cols=29 Identities=17% Similarity=0.423 Sum_probs=21.6
Q ss_pred chhHHHHHHHHHhhhCCC---cEEEEcCCCCc
Q 034414 47 EADDVIGKLAVRSVDDGF---KIQVVSPNKDS 75 (95)
Q Consensus 47 EADDvIatla~~~~~~~~---~v~IvS~DkDl 75 (95)
.+|+.|+-+.....+.|. -++|+++|.-.
T Consensus 219 ~~D~~l~~~~~~l~~~~~~d~TiiiitsDHG~ 250 (308)
T PF00884_consen 219 YVDDQLGRFIEYLKEQGLYDNTIIIITSDHGE 250 (308)
T ss_dssp HHHHHHHHHHHHHHHTTCGGGEEEEEEESSSS
T ss_pred HHHHHhhhhhhhhhhcCCcccceeEEecCcCc
Confidence 468888888887755543 58889999765
No 191
>PF04705 TSNR_N: Thiostrepton-resistance methylase, N terminus; InterPro: IPR006795 This region is found in some members of the SpoU-type rRNA methylase family (IPR001537 from INTERPRO).; GO: 0008649 rRNA methyltransferase activity, 0046677 response to antibiotic; PDB: 3GYQ_B 3NK6_A 3NK7_A.
Probab=26.81 E-value=14 Score=25.00 Aligned_cols=58 Identities=24% Similarity=0.382 Sum_probs=35.1
Q ss_pred hcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 12 KNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 12 KanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
|-.|....--|.+-.+.+-+.+. .|+..+++-|.|+-++=+-+...+.++|..|.+++
T Consensus 23 k~sRs~ikT~LIED~EPL~~~i~-AGvefieVYg~~~~p~~~~ll~~c~~r~Ipvrlv~ 80 (115)
T PF04705_consen 23 KHSRSNIKTTLIEDPEPLTHSIR-AGVEFIEVYGSDGSPVPPELLAACRQRGIPVRLVD 80 (115)
T ss_dssp CTSTTTTTEEEEESHHHHHHHHC-TT-EEEEEEEETTS---CCCCHHHHCTT--EEEE-
T ss_pred ccchhhheeeeecCchHHHHHHh-cCcEEEEEeeecCCCCChHHHHHHHhcCCceEEec
Confidence 44455444334444444444443 59999999999999998887778888899988875
No 192
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=26.65 E-value=1.4e+02 Score=23.43 Aligned_cols=59 Identities=14% Similarity=0.185 Sum_probs=43.2
Q ss_pred HHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEE
Q 034414 23 VQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCL 84 (95)
Q Consensus 23 ~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v 84 (95)
.+.+.++-++|..-||.++ .|++++.. ++.--..+.+.|.++.+ ++|.+. +++++....
T Consensus 52 ~~yv~~~l~~C~~~~Idv~-~P~~~~~~-l~~~r~~F~a~Gv~l~~-~~~~~~l~~~~dK~~~ 111 (329)
T PF15632_consen 52 EEYVDWCLDFCKEHGIDVF-VPGRNREL-LAAHRDEFEALGVKLLT-ASSAETLELADDKAAF 111 (329)
T ss_pred HHHHHHHHHHHHHhCCeEE-EcCccHHH-HHHHHHHHHHhCCEEEe-cCCHHHHHHHhhHHHH
Confidence 3458889999999999884 67888887 44444457777878777 678888 887765443
No 193
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=26.55 E-value=1.6e+02 Score=20.30 Aligned_cols=53 Identities=19% Similarity=0.110 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHCCCcEEecCCcch--hHHHHHHHHHhhhCCCcEEEEcCC-CCc-ccc
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEA--DDVIGKLAVRSVDDGFKIQVVSPN-KDS-QIL 78 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EA--DDvIatla~~~~~~~~~v~IvS~D-kDl-QLv 78 (95)
....+++.+...|+.+.....+.. +|.-.. .+.....+-.++++.+| .+. .++
T Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~-~~~l~~~~~~~v~~~~~~~~~~~~~ 208 (299)
T cd04509 152 LLEAFKAAFKKKGGTVVGEEYYPLGTTDFTSL-LQKLKAAKPDVIVLCGSGEDAATIL 208 (299)
T ss_pred HHHHHHHHHHHcCCEEEEEecCCCCCccHHHH-HHHHHhcCCCEEEEcccchHHHHHH
Confidence 345566677777777654433332 343332 23333344567776666 444 443
No 194
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=26.46 E-value=2e+02 Score=20.77 Aligned_cols=47 Identities=17% Similarity=0.320 Sum_probs=27.7
Q ss_pred HHHHHHHHHHCCCcEEecC-----CcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 26 LQYLKASIKAMSIKVIEVP-----GVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~-----g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
+..++...+.+|+++...+ ..|-.++...+.. +.+.|.+. |+++|-+
T Consensus 45 ~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~-~~~~g~~~-vv~G~i~ 96 (218)
T TIGR03679 45 IELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKE-LKREGVEG-IVTGAIA 96 (218)
T ss_pred HHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHH-HHHcCCCE-EEECCcc
Confidence 5667888899999976554 2333445555444 44346653 4555544
No 195
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=26.44 E-value=2.1e+02 Score=19.34 Aligned_cols=48 Identities=15% Similarity=0.141 Sum_probs=30.0
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
..+.-++..++..|+.+...+.-+..+-.....++....+...+|+++
T Consensus 16 ~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~ 63 (264)
T cd01537 16 QVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAP 63 (264)
T ss_pred HHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEec
Confidence 345667778888999987776443334444445555555677666654
No 196
>PRK00549 competence damage-inducible protein A; Provisional
Probab=26.26 E-value=2e+02 Score=23.09 Aligned_cols=44 Identities=14% Similarity=0.323 Sum_probs=30.8
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
-+++...|..+|+.+.... +-+.++|..++... . .+..++|+|+
T Consensus 22 ~~~L~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~a-~-~~~DlVItTG 67 (414)
T PRK00549 22 AQFLSEKLAELGIDVYHQTVVGDNPERLLSALEIA-E-ERSDLIITTG 67 (414)
T ss_pred HHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHh-c-cCCCEEEECC
Confidence 4568888999999876543 55666677776643 2 4678999885
No 197
>PRK12754 transketolase; Reviewed
Probab=26.25 E-value=1.7e+02 Score=25.26 Aligned_cols=42 Identities=14% Similarity=0.119 Sum_probs=29.5
Q ss_pred HHHHHHHHHCCCcEEe-cCCcchhHHHHHHHHHhhhCCCcEEE
Q 034414 27 QYLKASIKAMSIKVIE-VPGVEADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~-~~g~EADDvIatla~~~~~~~~~v~I 68 (95)
+.+.+-++++|+.+++ ++|.--+.|..++...-...+.+++|
T Consensus 199 ~~~~~r~~a~Gw~vi~vvDG~D~~ai~~A~~~a~~~~~~Pt~I 241 (663)
T PRK12754 199 DDTAMRFEAYGWHVIRGIDGHDADSIKRAVEEARAVTDKPSLL 241 (663)
T ss_pred ccHHHHHHhcCCeEEeeECCCCHHHHHHHHHHHHhcCCCCEEE
Confidence 5577788999999999 89998888877775432223445444
No 198
>PRK15366 type III secretion system chaperone SsaE; Provisional
Probab=26.15 E-value=1.8e+02 Score=18.55 Aligned_cols=37 Identities=22% Similarity=0.218 Sum_probs=24.2
Q ss_pred cCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhh
Q 034414 13 NNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVD 61 (95)
Q Consensus 13 anR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~ 61 (95)
+.++|...+-.+|+..+.+.+. -|-|||.++-..+-+
T Consensus 35 al~~P~sp~qYqq~t~l~ea~l------------qA~~IIn~i~~ryhn 71 (80)
T PRK15366 35 NNGKLQDPQQYQQNTLLLEAIE------------QAENIINIIYYRYHN 71 (80)
T ss_pred HhcCCCCHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHhc
Confidence 4455544444566766666554 488999999877643
No 199
>PRK00654 glgA glycogen synthase; Provisional
Probab=26.02 E-value=79 Score=25.09 Aligned_cols=29 Identities=28% Similarity=0.457 Sum_probs=24.0
Q ss_pred cCCcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 43 VPGVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 43 ~~g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
.-|+. |+++.|++...+.|++|.|+++--
T Consensus 16 ~GGl~--~~v~~L~~~L~~~G~~V~v~~p~y 44 (466)
T PRK00654 16 TGGLG--DVVGALPKALAALGHDVRVLLPGY 44 (466)
T ss_pred cCcHH--HHHHHHHHHHHHCCCcEEEEecCC
Confidence 44554 999999999999999999999753
No 200
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=26.00 E-value=52 Score=21.76 Aligned_cols=15 Identities=13% Similarity=0.284 Sum_probs=10.4
Q ss_pred HhhhCCCcEEEEcCC
Q 034414 58 RSVDDGFKIQVVSPN 72 (95)
Q Consensus 58 ~~~~~~~~v~IvS~D 72 (95)
...+.++.++++|.|
T Consensus 41 ~l~~~~~~iIiite~ 55 (104)
T COG1436 41 VLAEDDVGIILITED 55 (104)
T ss_pred hhccCCceEEEEeHH
Confidence 344458889998854
No 201
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=25.91 E-value=2.1e+02 Score=19.98 Aligned_cols=40 Identities=15% Similarity=0.126 Sum_probs=27.7
Q ss_pred hhHHhHHHHHH-HHHHCCCcEE-ecCCcchhHHHHHHHHHhh
Q 034414 21 TMVQGLQYLKA-SIKAMSIKVI-EVPGVEADDVIGKLAVRSV 60 (95)
Q Consensus 21 ~l~~q~~~i~~-~l~~~gi~~~-~~~g~EADDvIatla~~~~ 60 (95)
+....|..++. ..+.+|++.+ .+.|.-+|+|++.+..+..
T Consensus 91 ~~~~~L~~lN~~Y~~kFGfpFii~v~g~s~~~IL~~l~~Rl~ 132 (158)
T TIGR03180 91 ETRAALLEGNAAYEEKFGRIFLIRAAGRSAEEMLDALQARLP 132 (158)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEeeCCCCHHHHHHHHHHHhC
Confidence 33444544444 3466999954 4579999999999988764
No 202
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=25.83 E-value=2.3e+02 Score=19.70 Aligned_cols=38 Identities=13% Similarity=0.189 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
.+.++..+. ...+.|..|+++|.|.++ .-+.+++.++.
T Consensus 174 ~~~l~~~l~-~~~~~~~tii~vsH~~~~~~~~~d~i~~l~ 212 (216)
T TIGR00960 174 SRDIMRLFE-EFNRRGTTVLVATHDINLVETYRHRTLTLS 212 (216)
T ss_pred HHHHHHHHH-HHHHCCCEEEEEeCCHHHHHHhCCEEEEEe
Confidence 334444443 344457789999999998 65666666553
No 203
>COG2089 SpsE Sialic acid synthase [Cell envelope biogenesis, outer membrane]
Probab=25.83 E-value=2e+02 Score=23.09 Aligned_cols=54 Identities=20% Similarity=0.174 Sum_probs=34.2
Q ss_pred CCChhhHHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHH-----------------HHHhhhCCCcEEEEcCCC
Q 034414 17 PTPDTMVQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKL-----------------AVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 17 ~~p~~l~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatl-----------------a~~~~~~~~~v~IvS~Dk 73 (95)
.+|.+. ...+++.++..|+.++..| +.+|=|++-++ -+...+.+.++++-|+=-
T Consensus 86 ~~p~e~---~~~Lke~a~~~Gi~~~SSPfd~~svd~l~~~~~~ayKIaS~E~~~~plik~iA~~~kPiIlSTGma 157 (347)
T COG2089 86 ETPLEW---HAQLKEYARKRGIIFFSSPFDLTAVDLLESLNPPAYKIASGEINDLPLIKYIAKKGKPIILSTGMA 157 (347)
T ss_pred cCCHHH---HHHHHHHHHHcCeEEEecCCCHHHHHHHHhcCCCeEEecCccccChHHHHHHHhcCCCEEEEcccc
Confidence 445443 4557788888888888887 66776776655 223344566777666543
No 204
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=25.74 E-value=95 Score=19.68 Aligned_cols=27 Identities=30% Similarity=0.426 Sum_probs=18.7
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.=++-.+++...+.|++|.|++...+=
T Consensus 15 e~~~~~l~~~l~~~G~~v~v~~~~~~~ 41 (177)
T PF13439_consen 15 ERVVLNLARALAKRGHEVTVVSPGVKD 41 (177)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEESS-TT
T ss_pred HHHHHHHHHHHHHCCCEEEEEEcCCCc
Confidence 345667788888899999998765443
No 205
>PRK05628 coproporphyrinogen III oxidase; Validated
Probab=25.63 E-value=1.1e+02 Score=23.81 Aligned_cols=39 Identities=18% Similarity=0.294 Sum_probs=26.3
Q ss_pred hhhhcCCCCCC--hhhHHhHHHHHHHHHHCCCcEEecCCcc
Q 034414 9 PSYKNNRPPTP--DTMVQGLQYLKASIKAMSIKVIEVPGVE 47 (95)
Q Consensus 9 p~YKanR~~~p--~~l~~q~~~i~~~l~~~gi~~~~~~g~E 47 (95)
..|+.+.-+.| +.+..++..+.+.|++.|+..++..++-
T Consensus 207 ~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~G~~~ye~s~fa 247 (375)
T PRK05628 207 RRVRRGELPAPDDDVLADRYELADARLSAAGFDWYEVSNWA 247 (375)
T ss_pred HHhhcCCCCCCChHHHHHHHHHHHHHHHHcCCCeeeecccc
Confidence 34444433333 3467888999999999999988765443
No 206
>TIGR01223 Pmev_kin_anim phosphomevalonate kinase, animal type. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found. One is this type, found in animals. The other is the ERG8 type, found in plants and fungi (TIGR01219) and in Gram-positive bacteria (TIGR01220).
Probab=25.57 E-value=55 Score=23.91 Aligned_cols=54 Identities=13% Similarity=0.049 Sum_probs=27.7
Q ss_pred ccChh--hhcC-CCCCChhhHHhH-----HHHHHHHHHCCCcEEecCCcchhHHHHHHHHHh
Q 034414 6 TLYPS--YKNN-RPPTPDTMVQGL-----QYLKASIKAMSIKVIEVPGVEADDVIGKLAVRS 59 (95)
Q Consensus 6 ~l~p~--YKan-R~~~p~~l~~q~-----~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~ 59 (95)
+|+++ ||.. |+.|-.-..+|. =+++.++..++.+++.+.+.---.=|+++...+
T Consensus 51 ~Ll~d~~YKE~~R~~mi~w~e~~r~~dp~~F~r~~~~~~~~~v~iIsD~Rr~~dv~~f~~~~ 112 (182)
T TIGR01223 51 RLLDTSTYKEAFRKDMIRWGEEKRQADPGFFCRKIVEGISQPIWLVSDTRRVSDIQWFREAY 112 (182)
T ss_pred HhcCCcccchhhhHHHHHHHHHHHhhCccHHHHHHHhccCCCEEEEeCCCcccHHHHHHHHc
Confidence 35555 8887 655443322221 124445555566666666655555555555544
No 207
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=25.57 E-value=1.2e+02 Score=21.47 Aligned_cols=38 Identities=13% Similarity=0.176 Sum_probs=27.0
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
.+.+...+. ...+.+..|+++|.|.++ ..+++.+.+..
T Consensus 169 ~~~~~~~l~-~~~~~~~tii~itH~~~~~~~~~~~i~~~~ 207 (213)
T cd03279 169 LEAVATALE-LIRTENRMVGVISHVEELKERIPQRLEVIK 207 (213)
T ss_pred HHHHHHHHH-HHHhCCCEEEEEECchHHHHhhCcEEEEEe
Confidence 344545554 344457789999999999 88888887775
No 208
>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species
Probab=25.55 E-value=2.1e+02 Score=23.07 Aligned_cols=44 Identities=9% Similarity=0.172 Sum_probs=31.4
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
-+++...|..+|+.+.... +-+.+++...+.... ....++|+|+
T Consensus 22 ~~~l~~~L~~~G~~v~~~~~v~Dd~~~i~~~l~~a~--~~~DlVIttG 67 (413)
T TIGR00200 22 AQWLADFLAHQGLPLSRRTTVGDNPERLKTIIRIAS--ERADVLIFNG 67 (413)
T ss_pred HHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHh--cCCCEEEEcC
Confidence 4567888999999876543 667777777776544 3478888875
No 209
>PF14062 DUF4253: Domain of unknown function (DUF4253)
Probab=25.44 E-value=1.5e+02 Score=19.50 Aligned_cols=40 Identities=13% Similarity=-0.086 Sum_probs=24.4
Q ss_pred HHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 32 SIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 32 ~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
++..+|. --.-.+.+..|++|.+-.-..+.|..++-+|.|
T Consensus 14 i~a~~~~-gg~N~~~~~~~~~a~lr~W~er~ga~i~~i~~d 53 (111)
T PF14062_consen 14 IPAYLGW-GGWNYCPDTADIIAVLRYWEERYGAEIVGIGFD 53 (111)
T ss_pred HHHHccC-CCCCCCCCHHHHHHHHHHHHHHhCEEEEEEECC
Confidence 3444554 223346778888888776666656666666655
No 210
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=25.20 E-value=2.2e+02 Score=22.06 Aligned_cols=37 Identities=11% Similarity=0.291 Sum_probs=28.4
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCC
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDG 63 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~ 63 (95)
+..+.++|+.+|+++. .++...+.++..+......++
T Consensus 287 ~~~~~~~l~~~g~p~~-~~~~~~~~~~~~l~~dkk~~~ 323 (358)
T PRK00002 287 AERIRALLERAGLPTS-LPDLDAEALLEAMKRDKKVRG 323 (358)
T ss_pred HHHHHHHHHHcCCCCC-CCCCCHHHHHHHHHHhhhccC
Confidence 5668888999999975 448889999999887554443
No 211
>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=24.96 E-value=2.1e+02 Score=18.91 Aligned_cols=27 Identities=11% Similarity=0.176 Sum_probs=19.4
Q ss_pred cchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 46 VEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 46 ~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
.+.+.++..|..... +|.+|.|+..+.
T Consensus 50 ~~~~~l~~~L~~a~~-rGv~V~il~~~~ 76 (176)
T cd00138 50 EYGPVILDALLAAAR-RGVKVRILVDEW 76 (176)
T ss_pred ccchHHHHHHHHHHH-CCCEEEEEEccc
Confidence 347788888887554 588888877543
No 212
>PLN02213 sinapoylglucose-malate O-sinapoyltransferase/ carboxypeptidase
Probab=24.82 E-value=47 Score=25.36 Aligned_cols=14 Identities=21% Similarity=0.472 Sum_probs=12.6
Q ss_pred CCCcEEEEcCCCCc
Q 034414 62 DGFKIQVVSPNKDS 75 (95)
Q Consensus 62 ~~~~v~IvS~DkDl 75 (95)
.|.+|+|+|||.|+
T Consensus 232 ~~i~VliY~Gd~D~ 245 (319)
T PLN02213 232 SGYRSLIYSGDHDI 245 (319)
T ss_pred cCceEEEEECCcCe
Confidence 57999999999994
No 213
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=24.78 E-value=71 Score=21.59 Aligned_cols=24 Identities=13% Similarity=0.428 Sum_probs=16.0
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
+|-++|.. ..+.|.++.|+|+|..
T Consensus 131 ~~~~~l~~----L~~~Gi~~~i~TGD~~ 154 (215)
T PF00702_consen 131 GAKEALQE----LKEAGIKVAILTGDNE 154 (215)
T ss_dssp THHHHHHH----HHHTTEEEEEEESSEH
T ss_pred hhhhhhhh----hhccCcceeeeecccc
Confidence 34444443 4456889999999943
No 214
>TIGR02095 glgA glycogen/starch synthases, ADP-glucose type. This family consists of glycogen (or starch) synthases that use ADP-glucose (EC 2.4.1.21), rather than UDP-glucose (EC 2.4.1.11) as in animals, as the glucose donor. This enzyme is found in bacteria and plants. Whether the name given is glycogen synthase or starch synthase depends on context, and therefore on substrate.
Probab=24.75 E-value=86 Score=24.75 Aligned_cols=25 Identities=28% Similarity=0.437 Sum_probs=21.7
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
-|+++.|++...+.|++|.|+++--
T Consensus 20 ~~~v~~L~~aL~~~G~~v~v~~p~y 44 (473)
T TIGR02095 20 ADVVGALPKALAALGHDVRVLLPAY 44 (473)
T ss_pred HHHHHHHHHHHHHcCCeEEEEecCC
Confidence 4899999999999999999998743
No 215
>cd03134 GATase1_PfpI_like A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. This group includes proteins similar to PfpI from P. furiosus. and PH1704 from Pyrococcus horikoshii. These enzymes are ATP-independent intracellular proteases and may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For PH1704, it is believed that this Cys together with a different His in one monomer and Glu (from an adjacent monomer) forms a different catalytic triad from the typical GATase1domain. PfpI is homooligomeric. Protease activity is only found for oligomeric forms of PH1704.
Probab=24.54 E-value=1.6e+02 Score=19.55 Aligned_cols=36 Identities=19% Similarity=0.324 Sum_probs=26.6
Q ss_pred cEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC-CCc
Q 034414 39 KVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN-KDS 75 (95)
Q Consensus 39 ~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D-kDl 75 (95)
.++..+|++..++.+.+. .+...|+++.++|.+ ...
T Consensus 3 ~il~~~gf~~~e~~~~~~-~l~~a~~~v~~vs~~~~~~ 39 (165)
T cd03134 3 AILAADGFEDVELTYPLY-RLREAGAEVVVAGPEAGGE 39 (165)
T ss_pred EEEcCCCchHHHHHHHHH-HHHHCCCEEEEEccCCCcc
Confidence 456788888888888765 355668899999988 443
No 216
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=24.42 E-value=2.5e+02 Score=21.71 Aligned_cols=44 Identities=11% Similarity=0.012 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchh---HHHHHHHHHhhhCCCcEEE
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEAD---DVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EAD---DvIatla~~~~~~~~~v~I 68 (95)
....+.+.++..|+.+....+.|.+ +.+-.++..+.+.+..++|
T Consensus 36 ~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~II 82 (367)
T cd08182 36 IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVL 82 (367)
T ss_pred HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEE
Confidence 4566778888889888888888876 5555566666666666666
No 217
>cd01026 TOPRIM_OLD TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as RNase activity, consists of an N-terminal ABC-type ATPase domain and a C-terminal Toprim domain; the nuclease activity of OLD is stimulated by ATP, though the ATPase activity is not DNA-dependent. Functional details on OLD are scant and further experimentation is required to define the relationship between the ATPase and Toprim nuclease domains. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general acid in strand cleavage by nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=24.37 E-value=1.7e+02 Score=18.12 Aligned_cols=38 Identities=18% Similarity=0.253 Sum_probs=29.3
Q ss_pred HHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 33 IKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 33 l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
+...|+.++.+.|. -+..++..+...|.++.+++ |.|.
T Consensus 29 ~~~~~i~ii~~gG~----~~~~~~~ll~~~~i~~~vi~-D~D~ 66 (97)
T cd01026 29 LDEAGISIIPVGGK----NFKPFIKLLNALGIPVAVLT-DLDA 66 (97)
T ss_pred HHHCCEEEEEeCCc----chHHHHHHHHHcCCCEEEEE-eCCC
Confidence 56689999999885 35555667777888988887 8887
No 218
>TIGR03632 bact_S11 30S ribosomal protein S11. This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.
Probab=24.11 E-value=1.3e+02 Score=19.67 Aligned_cols=58 Identities=19% Similarity=0.391 Sum_probs=37.8
Q ss_pred hhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEec----CCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 9 PSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEV----PGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 9 p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~----~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
..||..|+.+|-.-...-..+-+.+..+|+..+.+ +|.-.+=+|-+|.. .|.+|.-+.
T Consensus 32 ~gfkg~rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~~kG~G~gr~~~ir~l~~----~glkI~~I~ 93 (108)
T TIGR03632 32 VGFKGSKKSTPYAAQLAAEDAAKKAKEFGMKTVDVYVKGPGAGRESAIRALQA----AGLEVTSIK 93 (108)
T ss_pred eeeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCCCcHHHHHHHHHH----CCCEEEEEE
Confidence 46899998888764333445556677799997664 45556666666553 466666555
No 219
>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=23.99 E-value=79 Score=23.57 Aligned_cols=39 Identities=15% Similarity=0.304 Sum_probs=26.2
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
...+...+.....+.|..|+++|.|-++ .-+.++|-++.
T Consensus 180 ~~~l~~~l~~l~~~~g~tvi~vtHd~~~~~~~~drv~~l~ 219 (287)
T PRK13637 180 RDEILNKIKELHKEYNMTIILVSHSMEDVAKLADRIIVMN 219 (287)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhCCEEEEEE
Confidence 4445554444334447789999999888 66677777764
No 220
>PRK08507 prephenate dehydrogenase; Validated
Probab=23.95 E-value=1.3e+02 Score=22.17 Aligned_cols=34 Identities=9% Similarity=0.128 Sum_probs=28.4
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHH
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAV 57 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~ 57 (95)
+.+..++++++.+|..++.++.-|-|-++|....
T Consensus 147 ~~~~~v~~l~~~~G~~~~~~~~~~hD~~~a~vs~ 180 (275)
T PRK08507 147 KHQERAKEIFSGLGMRIVYMDAKEHDLHAAYISH 180 (275)
T ss_pred HHHHHHHHHHHHhCCEEEEeCHHHHHHHHHHHhH
Confidence 3467899999999999999998888888886553
No 221
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=23.91 E-value=1.9e+02 Score=18.61 Aligned_cols=32 Identities=16% Similarity=0.243 Sum_probs=20.0
Q ss_pred ecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 42 EVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 42 ~~~g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
...| |..+.+-.+++.+.+.|.+|+.+|+..+
T Consensus 69 s~~g-~t~~~~~~~~~~~~~~~~~vi~it~~~~ 100 (153)
T cd05009 69 APED-RLEEKLESLIKEVKARGAKVIVITDDGD 100 (153)
T ss_pred ecCC-hhHHHHHHHHHHHHHcCCEEEEEecCCc
Confidence 3345 5445444445667777889998887653
No 222
>TIGR03569 NeuB_NnaB N-acetylneuraminate synthase. This family is a subset of the Pfam model pfam03102 and is believed to include only authentic NeuB N-acetylneuraminate (sialic acid) synthase enzymes. The majority of the genes identified by this model are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine.
Probab=23.88 E-value=2.5e+02 Score=22.02 Aligned_cols=32 Identities=22% Similarity=0.394 Sum_probs=24.4
Q ss_pred HhHHHHHHHHHHCCCcEEecC-CcchhHHHHHH
Q 034414 24 QGLQYLKASIKAMSIKVIEVP-GVEADDVIGKL 55 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatl 55 (95)
+++..+++.++..|+.++..+ ..++=|.+..+
T Consensus 76 e~~~~L~~~~~~~Gi~~~stpfd~~svd~l~~~ 108 (329)
T TIGR03569 76 EDHRELKEYCESKGIEFLSTPFDLESADFLEDL 108 (329)
T ss_pred HHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhc
Confidence 457889999999999999887 55555666654
No 223
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=23.85 E-value=1.2e+02 Score=21.11 Aligned_cols=37 Identities=8% Similarity=0.082 Sum_probs=22.7
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
..++..+.....+.|..|+++|.|.++ .-+.+++.++
T Consensus 167 ~~l~~~l~~~~~~~~~tvi~~sH~~~~~~~~~d~i~~l 204 (213)
T cd03301 167 VQMRAELKRLQQRLGTTTIYVTHDQVEAMTMADRIAVM 204 (213)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCHHHHHHhcCeEEEE
Confidence 334444443333347789999999887 5555666555
No 224
>PF09349 OHCU_decarbox: OHCU decarboxylase; InterPro: IPR018020 The proteins in this entry are OHCU decarboxylase, an enzyme of the purine catabolism that catalyses the conversion of OHCU into S(+)-allantoin []; it is the third step of the conversion of uric acid (a purine derivative) to allantoin. Step one is catalysed by urate oxidase (IPR002042 from INTERPRO) and step two is catalysed by hydroxyisourate hydrolase (IPR000895 from INTERPRO). ; PDB: 3O7I_B 3O7H_B 3O7J_A 3O7K_A 2Q37_A 2O70_B 2O73_C 2O74_C 2O8I_A.
Probab=23.79 E-value=1.5e+02 Score=20.59 Aligned_cols=41 Identities=20% Similarity=0.281 Sum_probs=25.2
Q ss_pred ChhhHHhHHHHHHHH-HHCCCc-EEecCCcchhHHHHHHHHHh
Q 034414 19 PDTMVQGLQYLKASI-KAMSIK-VIEVPGVEADDVIGKLAVRS 59 (95)
Q Consensus 19 p~~l~~q~~~i~~~l-~~~gi~-~~~~~g~EADDvIatla~~~ 59 (95)
+++....|..++... +.+|++ ++.+.|.-++.|++.+..+.
T Consensus 92 ~~~~~~~L~~lN~~Y~~kFGf~Fvi~~~g~s~~~Il~~l~~Rl 134 (159)
T PF09349_consen 92 DEEELAELAALNQAYEEKFGFPFVICARGRSAAEILAALERRL 134 (159)
T ss_dssp HHHHHHHHHHHHHHHHHHHSS-----GTT--HHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHHHcCCceEeecCCCCHHHHHHHHHHHh
Confidence 344555566655544 569999 66688999999999998775
No 225
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.68 E-value=2.6e+02 Score=19.48 Aligned_cols=64 Identities=9% Similarity=0.054 Sum_probs=34.5
Q ss_pred HHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEE-c---CCCC-----c-ccccCCeEEEE
Q 034414 23 VQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVV-S---PNKD-----S-QILSHSLCLLR 86 (95)
Q Consensus 23 ~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~Iv-S---~DkD-----l-QLv~~~v~v~~ 86 (95)
...+..+.+.+...|+.++........+--..+.......+..-+|+ + .|.. + ++...++-+..
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~ 88 (273)
T cd06292 15 PAFAEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVL 88 (273)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEE
Confidence 34456788888889988766554333333333334444445554444 3 2333 5 66565554443
No 226
>PTZ00081 enolase; Provisional
Probab=23.48 E-value=2.5e+02 Score=22.95 Aligned_cols=70 Identities=21% Similarity=0.229 Sum_probs=42.8
Q ss_pred CCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCC------Cc-ccccC---CeEE
Q 034414 15 RPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNK------DS-QILSH---SLCL 84 (95)
Q Consensus 15 R~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~Dk------Dl-QLv~~---~v~v 84 (95)
+..+++++ +.++.++++..++.+++-|-. .||.-+ +++....-|..+.|+..|- ++ +++.. ++-+
T Consensus 279 ~~~s~~el---i~~~~~~l~~y~I~~IEDPl~-~~D~eg-~~~Lt~~lg~~i~IvgDE~~~tn~~~l~~~I~~~aad~i~ 353 (439)
T PTZ00081 279 NKLTGEEL---VELYLDLVKKYPIVSIEDPFD-QDDWEA-YAKLTAAIGQKVQIVGDDLLVTNPTRIKKAIEKKACNALL 353 (439)
T ss_pred cccCHHHH---HHHHHHHHhcCCcEEEEcCCC-cccHHH-HHHHHHhhCCCceEEcCCcccCCHHHHHHHHHhCCCCEEE
Confidence 44566665 777888899999988886554 466554 3443444455777776663 45 55553 4444
Q ss_pred EEecc
Q 034414 85 LRIAP 89 (95)
Q Consensus 85 ~~~~k 89 (95)
..+.+
T Consensus 354 iKvnq 358 (439)
T PTZ00081 354 LKVNQ 358 (439)
T ss_pred ecccc
Confidence 44443
No 227
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=23.34 E-value=1.7e+02 Score=22.99 Aligned_cols=68 Identities=24% Similarity=0.242 Sum_probs=49.2
Q ss_pred hhhHHhHHHHHHHHHHCCCcEEe---cCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEEec
Q 034414 20 DTMVQGLQYLKASIKAMSIKVIE---VPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLRIA 88 (95)
Q Consensus 20 ~~l~~q~~~i~~~l~~~gi~~~~---~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~~~ 88 (95)
+++.+.+..++..+..-.+-++. .+|+..|+..- +.+.+.+.|.+|++=|+-.=| +.+.-+..+..|.
T Consensus 114 ~~~~~~l~~~~~~l~~~d~VvlsGSlP~g~~~d~y~~-li~~~~~~g~~vilD~Sg~~L~~~L~~~P~lIKPN 185 (310)
T COG1105 114 AELEQFLEQLKALLESDDIVVLSGSLPPGVPPDAYAE-LIRILRQQGAKVILDTSGEALLAALEAKPWLIKPN 185 (310)
T ss_pred HHHHHHHHHHHHhcccCCEEEEeCCCCCCCCHHHHHH-HHHHHHhcCCeEEEECChHHHHHHHccCCcEEecC
Confidence 45555567777777766664444 45888887754 555677789999998888888 8888777777664
No 228
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=23.23 E-value=83 Score=25.16 Aligned_cols=34 Identities=24% Similarity=0.304 Sum_probs=29.3
Q ss_pred EEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 40 VIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 40 ~~~~~g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
++.+.|.-=-=-||-||+.+.+.|.+|+|.-+|.
T Consensus 144 ~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DT 177 (340)
T COG0552 144 FVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDT 177 (340)
T ss_pred EEecCCCchHhHHHHHHHHHHHCCCeEEEEecch
Confidence 3446777777889999999999999999999996
No 229
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions. The members of this family all appear to possess 5'-3' exonuclease activity 3.1.11 from EC. Thus, the aligned region may be necessary for 5'-3' exonuclease function.; GO: 0003676 nucleic acid binding, 0004527 exonuclease activity, 0005622 intracellular; PDB: 2Y35_A 3PIE_B 3PIF_C 3FQD_A.
Probab=23.21 E-value=1.3e+02 Score=22.60 Aligned_cols=50 Identities=16% Similarity=0.165 Sum_probs=26.8
Q ss_pred CCcEEecCCc---chhHHHHHHHHHhhh-----CCCcEEEEcCCCCcc---ccc--CCeEEEE
Q 034414 37 SIKVIEVPGV---EADDVIGKLAVRSVD-----DGFKIQVVSPNKDSQ---ILS--HSLCLLR 86 (95)
Q Consensus 37 gi~~~~~~g~---EADDvIatla~~~~~-----~~~~v~IvS~DkDlQ---Lv~--~~v~v~~ 86 (95)
++.++-.+-. |+.==|-.+.+.... .+...+|+|+|.||- |.. +++.+++
T Consensus 172 ~~~vi~S~~~vpGEGE~KI~~~IR~~~~~~~~~~n~~h~i~g~DaDlIll~L~~~~~~~~ilr 234 (237)
T PF03159_consen 172 NLKVIFSGSDVPGEGEHKIMDFIRSQRSQPDYDPNTSHCIYGSDADLILLSLATHEPNIYILR 234 (237)
T ss_dssp CSEEEEE-TTSSS-HHHHHHHHHHHHHHSTTS-TT--EEEE-SSTHHHHHHHHTT-SSEEEEE
T ss_pred ceEEEEeCCCCCCccHHHHHHHHHHhhhcCCCCCCceEEEEecCHhHHHHHHccCCCeEEEEe
Confidence 4455544322 666555555554433 456899999999992 222 6777775
No 230
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=23.19 E-value=2.8e+02 Score=20.04 Aligned_cols=37 Identities=19% Similarity=0.337 Sum_probs=26.3
Q ss_pred CCCcEEecCCcc-hhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 36 MSIKVIEVPGVE-ADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 36 ~gi~~~~~~g~E-ADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
+...+++..|.- .++.|.-+...... ..|+|+| |-|+
T Consensus 21 ~d~~~I~T~Gs~i~~~~i~~i~~~~~~--rgVIIfT-DpD~ 58 (174)
T TIGR00334 21 FDVDVIETNGSALKDETINLIKKAQKK--QGVIILT-DPDF 58 (174)
T ss_pred cCceEEEECCCccCHHHHHHHHHHhhc--CCEEEEe-CCCC
Confidence 346788888887 77888877665443 3577776 8887
No 231
>PLN03028 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=22.97 E-value=2.9e+02 Score=23.75 Aligned_cols=52 Identities=19% Similarity=0.192 Sum_probs=36.7
Q ss_pred HhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCC--CcEEEE--cCCCCc
Q 034414 24 QGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDG--FKIQVV--SPNKDS 75 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~--~~v~Iv--S~DkDl 75 (95)
+++..+.+.|++++|..+.+- |-.+=+-.+.|+..+.+.+ .+|+-+ |-|-|+
T Consensus 160 e~~~~i~e~l~~l~Id~LvvIGGddS~~~A~~Lae~~~~~~~~i~VIGIPKTIDNDL 216 (610)
T PLN03028 160 EQVNAALAACEALKLDGLVIIGGVTSNTDAAQLAETFAEAKCKTKVVGVPVTLNGDL 216 (610)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHcCCCceEEEeceeeeCCC
Confidence 478889999999999966655 5555566666676666564 444433 789988
No 232
>COG3688 Predicted RNA-binding protein containing a PIN domain [General function prediction only]
Probab=22.85 E-value=1.7e+02 Score=21.31 Aligned_cols=31 Identities=16% Similarity=0.298 Sum_probs=23.7
Q ss_pred CCcchhHHHHHHHHHhhhC-CCcEEEEcCCCC
Q 034414 44 PGVEADDVIGKLAVRSVDD-GFKIQVVSPNKD 74 (95)
Q Consensus 44 ~g~EADDvIatla~~~~~~-~~~v~IvS~DkD 74 (95)
.|--||--|--++...... -.+|+++|||.-
T Consensus 79 ~~ETADs~IEr~~~el~~~~t~~V~VaTSD~~ 110 (173)
T COG3688 79 EGETADSFIERYVAELRNAATHQVIVATSDRA 110 (173)
T ss_pred CCccHHHHHHHHHHHHhccccceEEEEeCchh
Confidence 4666999999988877633 348999999864
No 233
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=22.85 E-value=77 Score=22.04 Aligned_cols=31 Identities=19% Similarity=0.414 Sum_probs=23.7
Q ss_pred HHHHHHHHHHCCCc-----EEecCCcchhHHHHHHH
Q 034414 26 LQYLKASIKAMSIK-----VIEVPGVEADDVIGKLA 56 (95)
Q Consensus 26 ~~~i~~~l~~~gi~-----~~~~~g~EADDvIatla 56 (95)
...++++|+.+||. ++.+.--|||-+.-++-
T Consensus 80 ~~~lke~l~elgie~eRv~~~wiSa~E~ekf~e~~~ 115 (132)
T COG1908 80 MELLKELLKELGIEPERVRVLWISAAEGEKFAETIN 115 (132)
T ss_pred HHHHHHHHHHhCCCcceEEEEEEehhhHHHHHHHHH
Confidence 66788999998874 67778888887766544
No 234
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family. Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.
Probab=22.77 E-value=1.1e+02 Score=21.56 Aligned_cols=38 Identities=13% Similarity=0.299 Sum_probs=25.2
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
.+..++..+.....+.+..|+++|.|-++ . ..++|-++
T Consensus 176 ~~~~l~~~l~~~~~~~~~tii~~sh~~~~~~-~~d~v~~l 214 (220)
T TIGR02982 176 SGRDVVELMQKLAREQGCTILIVTHDNRILD-VADRIVHM 214 (220)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEeCCHHHHh-hCCEEEEE
Confidence 44555665555444457899999999887 6 35566555
No 235
>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional
Probab=22.62 E-value=1.1e+02 Score=22.22 Aligned_cols=39 Identities=23% Similarity=0.230 Sum_probs=24.6
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
.+.+...+.....+.|..|+++|.|.++ .-+.+++-++.
T Consensus 188 ~~~l~~~l~~~~~~~g~tvii~tH~~~~~~~~~d~i~~l~ 227 (262)
T PRK09984 188 ARIVMDTLRDINQNDGITVVVTLHQVDYALRYCERIVALR 227 (262)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhCCEEEEEE
Confidence 3444444443333347789999999997 66666666653
No 236
>PF05889 SLA_LP_auto_ag: Soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen); InterPro: IPR008829 This family consists of several eukaryotic and archaeal proteins which are related to the Homo sapiens soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen). Autoantibodies are a hallmark of autoimmune hepatitis, but most are not disease specific. Autoantibodies to soluble liver antigen (SLA) and to liver and pancreas antigen (LP) have been described as disease specific, occurring in about 30% of all patients with autoimmune hepatitis []. The function of SLA/LP is unknown, however, it has been suggested that the protein may function as a serine hydroxymethyltransferase and may be an important enzyme in the thus far poorly understood selenocysteine pathway []. The archaeal sequences Q8TXK0 from SWISSPROT and Q8TYR3 from SWISSPROT are annotated as being pyridoxal phosphate-dependent enzymes.; GO: 0016740 transferase activity; PDB: 2E7J_B 2E7I_B 2Z67_C 3HL2_D 3BC8_A 3BCA_A 3BCB_A.
Probab=22.59 E-value=1.1e+02 Score=24.88 Aligned_cols=60 Identities=12% Similarity=0.065 Sum_probs=35.1
Q ss_pred HHHHHHHHHHCCCcEEe--cCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCcccccCCeEEE
Q 034414 26 LQYLKASIKAMSIKVIE--VPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDSQILSHSLCLL 85 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~--~~g~EADDvIatla~~~~~~~~~v~IvS~DkDlQLv~~~v~v~ 85 (95)
+..|-++|+..|||++. .-|.-+-.++..+-+.+..-=.++++-|.||||-....+-.+.
T Consensus 174 i~~IakiC~~~~IPhlvNnAYgvQ~~~~~~~i~~a~~~GRvda~vqS~dkNF~VPvGgai~A 235 (389)
T PF05889_consen 174 IEEIAKICKEYDIPHLVNNAYGVQSSKCMHLIQQAWRVGRVDAFVQSTDKNFMVPVGGAIMA 235 (389)
T ss_dssp HHHHHHHHHHHT--EEEEGTTTTT-HHHHHHHHHHHHHSTCSEEEEEHHHHHCEESSHEEEE
T ss_pred HHHHHHHHHHcCCceEEccchhhhHHHHHHHHHHHHhcCCcceeeeecCCCEEecCCCcEEE
Confidence 44566677777777766 3366666666666554443224789999999994444444443
No 237
>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit. Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.
Probab=22.59 E-value=2.7e+02 Score=19.49 Aligned_cols=36 Identities=14% Similarity=0.197 Sum_probs=23.1
Q ss_pred HHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 50 DVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 50 DvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
+.+..+-....+.|..|+|+|.|.++ .-+.+++-++
T Consensus 161 ~~l~~~L~~~~~~~~tiii~sH~~~~~~~~~d~i~~l 197 (223)
T TIGR03740 161 QELRELIRSFPEQGITVILSSHILSEVQQLADHIGII 197 (223)
T ss_pred HHHHHHHHHHHHCCCEEEEEcCCHHHHHHhcCEEEEE
Confidence 33334444444457789999999998 6566666555
No 238
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=22.58 E-value=1.1e+02 Score=21.35 Aligned_cols=36 Identities=19% Similarity=0.274 Sum_probs=23.0
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLL 85 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~ 85 (95)
+.+...+.....+.|..|+++|.|.+. . +.+++-++
T Consensus 177 ~~l~~~l~~~~~~~~~tii~~sH~~~~~~-~~d~v~~l 213 (218)
T cd03255 177 KEVMELLRELNKEAGTTIVVVTHDPELAE-YADRIIEL 213 (218)
T ss_pred HHHHHHHHHHHHhcCCeEEEEECCHHHHh-hhcEEEEe
Confidence 344444443333247789999999998 8 66666665
No 239
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=22.49 E-value=2.1e+02 Score=22.36 Aligned_cols=33 Identities=15% Similarity=0.186 Sum_probs=25.7
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHh
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRS 59 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~ 59 (95)
+..+.++++.+|+++.. ++...+.++..+.+.-
T Consensus 290 ~~~i~~~l~~~glp~~~-~~~~~~~~~~~l~~dk 322 (354)
T cd08199 290 RDRILALMRRLGLPVWH-PLLDPDLLWAALKDTV 322 (354)
T ss_pred HHHHHHHHHHcCCCcCC-CCCCHHHHHHHHHhcc
Confidence 55678889999999764 7778899999877643
No 240
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=22.47 E-value=2.6e+02 Score=20.57 Aligned_cols=49 Identities=10% Similarity=0.260 Sum_probs=30.9
Q ss_pred hHHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 22 MVQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
+..|..++..+|+.+|+..+..= +..--++ ...+-+.|++++|++-|.+
T Consensus 96 ~~~~r~~~e~vc~~lGl~~~~PLW~~d~~~l----l~e~i~~Gf~aiIv~V~~~ 145 (218)
T PF01902_consen 96 SEYQRNWVERVCERLGLEAVFPLWGRDREEL----LREFIESGFEAIIVKVDAD 145 (218)
T ss_dssp -HHHHHHHHHHHHHCT-EEE-TTTT--HHHH----HHHHHHTT-EEEEEEEEST
T ss_pred cHHHHHHHHHHHHHcCCEEEecccCCCHHHH----HHHHHHCCCeEEEEEEecc
Confidence 46678899999999999986543 3333333 3345557999999887775
No 241
>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional
Probab=22.47 E-value=1.3e+02 Score=22.15 Aligned_cols=36 Identities=11% Similarity=0.234 Sum_probs=22.7
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+...+.....+.+..|+|+|.|.++ .-+.+++.++.
T Consensus 172 l~~~L~~~~~~~~~tviivsHd~~~~~~~~d~i~~l~ 208 (257)
T PRK11247 172 MQDLIESLWQQHGFTVLLVTHDVSEAVAMADRVLLIE 208 (257)
T ss_pred HHHHHHHHHHHcCCEEEEEeCCHHHHHHhCCEEEEEE
Confidence 3333333334457789999999987 65666665553
No 242
>PRK07379 coproporphyrinogen III oxidase; Provisional
Probab=22.44 E-value=1.3e+02 Score=23.74 Aligned_cols=40 Identities=13% Similarity=0.259 Sum_probs=27.5
Q ss_pred cChhhhcCCCCCC--hhhHHhHHHHHHHHHHCCCcEEecCCc
Q 034414 7 LYPSYKNNRPPTP--DTMVQGLQYLKASIKAMSIKVIEVPGV 46 (95)
Q Consensus 7 l~p~YKanR~~~p--~~l~~q~~~i~~~l~~~gi~~~~~~g~ 46 (95)
++..|+.++...| ++...++..+.+.|.+.|+..+++.++
T Consensus 212 l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~~Gy~~yeisnf 253 (400)
T PRK07379 212 FGKQYQPGKAPLPSDETTAAMYRLAQEILTQAGYEHYEISNY 253 (400)
T ss_pred hHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHcCCceeeeehe
Confidence 4455666554443 445667888999999999998876443
No 243
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=22.40 E-value=1.2e+02 Score=21.49 Aligned_cols=38 Identities=16% Similarity=0.203 Sum_probs=24.0
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
..+...+.....+.|..|+++|.|-+. .-+.+.+-++.
T Consensus 181 ~~l~~~l~~~~~~~~~tii~~tH~~~~~~~~~d~v~~l~ 219 (241)
T cd03256 181 RQVMDLLKRINREEGITVIVSLHQVDLAREYADRIVGLK 219 (241)
T ss_pred HHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhCCEEEEEE
Confidence 334444443333347789999999988 65666666653
No 244
>COG1409 Icc Predicted phosphohydrolases [General function prediction only]
Probab=22.32 E-value=1.4e+02 Score=21.17 Aligned_cols=12 Identities=33% Similarity=0.393 Sum_probs=6.3
Q ss_pred CcEEEEcCCCCc
Q 034414 64 FKIQVVSPNKDS 75 (95)
Q Consensus 64 ~~v~IvS~DkDl 75 (95)
.+++++-+..|.
T Consensus 66 ~~~~~vpGNHD~ 77 (301)
T COG1409 66 APVIVVPGNHDA 77 (301)
T ss_pred CceEeeCCCCcC
Confidence 345555555553
No 245
>TIGR00232 tktlase_bact transketolase, bacterial and yeast. This model is designed to capture orthologs of bacterial transketolases. The group includes two from the yeast Saccharomyces cerevisiae but excludes dihydroxyactetone synthases (formaldehyde transketolases) from various yeasts and the even more distant mammalian transketolases. Among the family of thiamine diphosphate-dependent enzymes that includes transketolases, dihydroxyacetone synthases, pyruvate dehydrogenase E1-beta subunits, and deoxyxylulose-5-phosphate synthases, mammalian and bacterial transketolases seem not to be orthologous.
Probab=22.31 E-value=2.5e+02 Score=23.96 Aligned_cols=42 Identities=12% Similarity=0.160 Sum_probs=28.5
Q ss_pred HHHHHHHHHCCCcEEec-CCcchhHHHHHHHHHhhhCCCcEEE
Q 034414 27 QYLKASIKAMSIKVIEV-PGVEADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 27 ~~i~~~l~~~gi~~~~~-~g~EADDvIatla~~~~~~~~~v~I 68 (95)
+.+.+.++++|+.++++ +|.--+.+..++...-...+.+++|
T Consensus 195 ~~~~~~~~a~Gw~~~~v~DG~D~~ai~~A~~~a~~~~~~P~~I 237 (653)
T TIGR00232 195 EDVAKRFEAYGWEVLEVEDGHDLAAIDAAIEEAKASKDKPTLI 237 (653)
T ss_pred ccHHHHHHhcCCcEEEeCCCCCHHHHHHHHHHHHhCCCCCEEE
Confidence 45677888999999999 9987777777665422222345544
No 246
>PF00217 ATP-gua_Ptrans: ATP:guanido phosphotransferase, C-terminal catalytic domain; InterPro: IPR022414 ATP:guanido phosphotransferases are a family of structurally and functionally related enzymes [, ] that reversibly catalyse the transfer of phosphate between ATP and various phosphogens. The enzymes belonging to this family include: Glycocyamine kinase (2.7.3.1 from EC), which catalyses the transfer of phosphate from ATP to guanidoacetate. Arginine kinase (2.7.3.3 from EC), which catalyses the transfer of phosphate from ATP to arginine. Taurocyamine kinase (2.7.3.4 from EC), an annelid-specific enzyme that catalyses the transfer of phosphate from ATP to taurocyamine. Lombricine kinase (2.7.3.5 from EC), an annelid-specific enzyme that catalyses the transfer of phosphate from ATP to lombricine. Smc74, a cercaria-specific enzyme from Schistosoma mansoni []. Creatine kinase (2.7.3.2 from EC) (CK) [, ], which catalyses the reversible transfer of high energy phosphate from ATP to creatine, generating phosphocreatine and ADP. Creatine kinase plays an important role in energy metabolism of vertebrates. There are at least four different, but very closely related, forms of CK. Two isozymes, M (muscle) and B (brain), are cytosolic, while the other two are mitochondrial. In sea urchins there is a flagellar isozyme, which consists of the triplication of a CK-domain. A cysteine residue is implicated in the catalytic activity of these enzymes and the region around this active site residue is highly conserved. Eukaryotic phosphagen kinases consist of a small, ~100-residue, alpha-helical N-terminal domain and a larger, 250+- residue, C-terminal alpha/beta saddle domain in which many key residues involved in catalysis are found. The N-terminal domain undergoes significant conformational movements during catalysis, closing down on the catalytic pocket. It is involved in dimer formation. Bacterial phosphagen kinases have the large C-terminal domain seen in eukaryotic phosphagen kinases but lack the N-terminal domain [, , , ]. This entry represents the C-terminal catalytic domain of ATP:guanido phosphotransferase, which is comprised of a duplication where the common core consists of two beta-alpha-beta2-alpha repeats []. The substrate binding site is located in the cleft between N and C-terminal domains, but most of the catalytic residues are found in the larger C-terminal domain [].; GO: 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 3JU6_D 3JU5_D 1G0W_A 1QH4_C 1U6R_B 2CRK_A 2J1Q_A 3L2E_A 2GL6_F 1QK1_F ....
Probab=22.30 E-value=3.3e+02 Score=20.15 Aligned_cols=72 Identities=8% Similarity=0.020 Sum_probs=42.8
Q ss_pred ChhhHHhHHHHHHHHHH----CCCcEEecCCcchhHHHHHHHHHh---------------hhC-CCcEEEEcCCCCc-cc
Q 034414 19 PDTMVQGLQYLKASIKA----MSIKVIEVPGVEADDVIGKLAVRS---------------VDD-GFKIQVVSPNKDS-QI 77 (95)
Q Consensus 19 p~~l~~q~~~i~~~l~~----~gi~~~~~~g~EADDvIatla~~~---------------~~~-~~~v~IvS~DkDl-QL 77 (95)
+++...-...+...+.. .+...+.......-+.-.-..++. ... ...-+++|.|+++ =.
T Consensus 29 ~~e~~~v~~~i~~~l~~l~~~~~~~~~~l~~l~~~~~~~L~e~~ll~~~~~~~~~~~g~~~~~p~~rgi~~~~d~~~~v~ 108 (243)
T PF00217_consen 29 REERREVEEKIKSALSSLEGELKGQYYSLKELSELERQQLVERHLLSPDSDPFLLSAGLARDWPDGRGIFVSEDESFSVW 108 (243)
T ss_dssp HHHHHHHHHHHHHHHTT--GGG-EEEEEGTTS-HHHHHHHHHTTSS--STSHHHHTTTTTTTTTTT-EEEEETTSSEEEE
T ss_pred HHHHHHHHHHHHHHHhccccccCeEEEEccCCCHHHHHHHHHcccCCccchhhhhhccccccccccceeEecCCCCeEEE
Confidence 34444445556666654 345677777666655544443331 111 1468899999999 88
Q ss_pred cc--CCeEEEEeccC
Q 034414 78 LS--HSLCLLRIAPR 90 (95)
Q Consensus 78 v~--~~v~v~~~~k~ 90 (95)
|+ +++++....++
T Consensus 109 VNeeDHLri~s~~~G 123 (243)
T PF00217_consen 109 VNEEDHLRIQSMSPG 123 (243)
T ss_dssp ESSSSSEEEEEEEES
T ss_pred EecCCcEEEEEEecC
Confidence 87 68888876544
No 247
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=22.27 E-value=1.3e+02 Score=22.00 Aligned_cols=38 Identities=13% Similarity=0.235 Sum_probs=23.8
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+.++..+.....+.|..|+++|.|.++ .-+.++|.++.
T Consensus 165 ~~l~~~L~~~~~~~g~tviivsH~~~~~~~~~d~i~~l~ 203 (255)
T PRK11248 165 EQMQTLLLKLWQETGKQVLLITHDIEEAVFMATELVLLS 203 (255)
T ss_pred HHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhCCEEEEEe
Confidence 333343333233457789999999888 66666666664
No 248
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=22.25 E-value=3.1e+02 Score=21.39 Aligned_cols=43 Identities=12% Similarity=0.121 Sum_probs=31.2
Q ss_pred HHHHHHHHHHCCCcEEecCCcc---hhHHHHHHHHHhhhCCCcEEE
Q 034414 26 LQYLKASIKAMSIKVIEVPGVE---ADDVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~E---ADDvIatla~~~~~~~~~v~I 68 (95)
+..+.+.|+..|+.+...++.| -.+.+..++..+.+.+..++|
T Consensus 44 ~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 44 WDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 5678888888899888888887 445566666666666666666
No 249
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=22.18 E-value=1.3e+02 Score=18.97 Aligned_cols=30 Identities=20% Similarity=0.302 Sum_probs=20.6
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCCCCccc
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPNKDSQI 77 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~DkDlQL 77 (95)
+..+++.. ++.+.++|.+|+.+|+..+-+|
T Consensus 59 ~t~~~~~~-~~~a~~~g~~vi~iT~~~~s~l 88 (128)
T cd05014 59 ETDELLNL-LPHLKRRGAPIIAITGNPNSTL 88 (128)
T ss_pred CCHHHHHH-HHHHHHCCCeEEEEeCCCCCch
Confidence 44555554 4457788999999998766433
No 250
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=22.10 E-value=2.9e+02 Score=21.57 Aligned_cols=43 Identities=12% Similarity=0.124 Sum_probs=29.9
Q ss_pred HHHHHHHHHHCCCcEEecCCcchh---HHHHHHHHHhhhCCCcEEE
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEAD---DVIGKLAVRSVDDGFKIQV 68 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EAD---DvIatla~~~~~~~~~v~I 68 (95)
+..+.+.|+..|+.+...++.|.+ +.+-..+..+.+.+..++|
T Consensus 47 ~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~II 92 (382)
T PRK10624 47 VAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLI 92 (382)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEE
Confidence 566778888888888777788766 4444444556666777776
No 251
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=22.10 E-value=3.4e+02 Score=20.69 Aligned_cols=56 Identities=13% Similarity=0.133 Sum_probs=37.6
Q ss_pred hHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCC-cEEEEcCCCCc-ccc
Q 034414 22 MVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGF-KIQVVSPNKDS-QIL 78 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~-~v~IvS~DkDl-QLv 78 (95)
....++.+.+.|+.-|.......-.+++|.+-. |+.+...++ -|++..+|-=+ ..+
T Consensus 18 ~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~-a~~a~~~~~D~via~GGDGTv~evi 75 (301)
T COG1597 18 AKKLLREVEELLEEAGHELSVRVTEEAGDAIEI-AREAAVEGYDTVIAAGGDGTVNEVA 75 (301)
T ss_pred hhhHHHHHHHHHHhcCCeEEEEEeecCccHHHH-HHHHHhcCCCEEEEecCcchHHHHH
Confidence 345577788888898999888777777777665 444544455 55667777655 444
No 252
>COG0094 RplE Ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=22.09 E-value=44 Score=24.46 Aligned_cols=30 Identities=33% Similarity=0.615 Sum_probs=23.2
Q ss_pred CCCc-EEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 36 MSIK-VIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 36 ~gi~-~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
+||. ++..|+.+.|.++++ .|..|.|+++=
T Consensus 130 fGI~E~i~FPei~yD~~~~i-------~GMdi~ivtta 160 (180)
T COG0094 130 FGIKEQIIFPEIDYDPIIGI-------RGMDITIVTTA 160 (180)
T ss_pred ecchheeecCccccCccCCc-------cCceEEEEecC
Confidence 6776 778899999999874 46788887753
No 253
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=22.07 E-value=1.2e+02 Score=21.58 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=19.8
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCC
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKD 74 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkD 74 (95)
--+.+.+|..+.+.|.+|.+++.|--
T Consensus 13 t~~~~~la~~~a~~g~~~~l~~~d~~ 38 (217)
T cd02035 13 TTIAAATAVRLAEEGKKVLLVSTDPA 38 (217)
T ss_pred HHHHHHHHHHHHHCCCcEEEEECCCC
Confidence 34566677778888999999997743
No 254
>TIGR03417 chol_sulfatase choline-sulfatase.
Probab=21.97 E-value=1.2e+02 Score=24.69 Aligned_cols=29 Identities=21% Similarity=0.250 Sum_probs=23.1
Q ss_pred chhHHHHHHHHHhhhCCC---cEEEEcCCCCc
Q 034414 47 EADDVIGKLAVRSVDDGF---KIQVVSPNKDS 75 (95)
Q Consensus 47 EADDvIatla~~~~~~~~---~v~IvS~DkDl 75 (95)
..|+-||.+.....+.|. .++|+++|.--
T Consensus 261 ~~D~~iG~il~~L~~~g~~dnTivvf~sDHG~ 292 (500)
T TIGR03417 261 YLDDKIGELLQTLEETRQADDTIVLFTSDHGD 292 (500)
T ss_pred HHHHHHHHHHHHHHhcCCcCCcEEEEECCCch
Confidence 478999998888777653 68999999875
No 255
>PRK06582 coproporphyrinogen III oxidase; Provisional
Probab=21.93 E-value=1.1e+02 Score=24.15 Aligned_cols=40 Identities=13% Similarity=0.230 Sum_probs=28.4
Q ss_pred cChhhhcCCCCCC--hhhHHhHHHHHHHHHHCCCcEEecCCc
Q 034414 7 LYPSYKNNRPPTP--DTMVQGLQYLKASIKAMSIKVIEVPGV 46 (95)
Q Consensus 7 l~p~YKanR~~~p--~~l~~q~~~i~~~l~~~gi~~~~~~g~ 46 (95)
++..|+.++-..| ++....+..+.+.|.+.|+..+++.++
T Consensus 207 l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~yeis~f 248 (390)
T PRK06582 207 FYKLFKEGNLILPHSDAAAEMYEWTNHYLESKKYFRYEISNY 248 (390)
T ss_pred HHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCceeeceee
Confidence 4455666665444 445677889999999999998876544
No 256
>PTZ00323 NAD+ synthase; Provisional
Probab=21.90 E-value=3.3e+02 Score=20.97 Aligned_cols=26 Identities=19% Similarity=0.198 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhH
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADD 50 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADD 50 (95)
.+..++++++.+|++....+--|.-+
T Consensus 93 ~~~~A~~la~~lGi~~~~idi~~l~~ 118 (294)
T PTZ00323 93 ALNRGRENIQACGATEVTVDQTEIHT 118 (294)
T ss_pred HHHHHHHHHHHhCCcEEEEECcHHHH
Confidence 46678889999999988887766553
No 257
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=21.87 E-value=1.4e+02 Score=20.89 Aligned_cols=39 Identities=3% Similarity=0.179 Sum_probs=24.3
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+..+...+.....+.+..|+++|.|.++ .-+.+++.++.
T Consensus 164 ~~~~~~~l~~~~~~~~~tii~vsh~~~~~~~~~d~v~~l~ 203 (213)
T TIGR01277 164 REEMLALVKQLCSERQRTLLMVTHHLSDARAIASQIAVVS 203 (213)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEeCCHHHHHhhcCeEEEEE
Confidence 3444444443333347789999999887 55556666664
No 258
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=21.78 E-value=3.1e+02 Score=21.39 Aligned_cols=49 Identities=10% Similarity=0.231 Sum_probs=33.0
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC-----CCCc
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP-----NKDS 75 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~-----DkDl 75 (95)
-+.+..+++.+|+.+.... .-+.+.+...+.... ..+..++|.|+ ++|+
T Consensus 177 ~~~L~~~L~~~G~~v~~~~iVpDD~~~I~~al~~a~-~~~~DlIITTGGtg~g~~D~ 232 (312)
T PRK03604 177 GKLIVEGLEEAGFEVSHYTIIPDEPAEIAAAVAAWI-AEGYALIITTGGTGLGPRDV 232 (312)
T ss_pred HHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHhh-hCCCCEEEECCCCCCCCCcc
Confidence 5678999999999876643 445555655554432 34678999875 5666
No 259
>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN []. This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance []. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC [].; GO: 0003824 catalytic activity; PDB: 3QJG_L 1G63_G 1G5Q_L 1P3Y_1 1QZU_A 1E20_A 1MVN_A 1MVL_A 3ZQU_A 2EJB_A ....
Probab=21.74 E-value=1.1e+02 Score=20.08 Aligned_cols=26 Identities=15% Similarity=0.390 Sum_probs=19.5
Q ss_pred chhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 47 EADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 47 EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
=||+++.+++..+...+.+|+|+=+.
T Consensus 94 iaD~l~~~~~~~~l~~~~pvvi~P~m 119 (129)
T PF02441_consen 94 IADNLLTRVALAALKEGKPVVIAPAM 119 (129)
T ss_dssp --SSHHHHHHHHHHHTTCGEEEEEEE
T ss_pred CcchHHHHHHHHHccCCCCeEEEEeC
Confidence 38999999998887778898887543
No 260
>CHL00041 rps11 ribosomal protein S11
Probab=21.61 E-value=1.6e+02 Score=19.62 Aligned_cols=58 Identities=21% Similarity=0.342 Sum_probs=36.8
Q ss_pred hhhhcCCCCCChhhHHhHHHHHHHHHHCCCcEEec----CCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 9 PSYKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEV----PGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 9 p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~----~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
..||..|+.+|-.-...-..+-+.+..+|+..+.+ +|.-.+=+|-+|. ..|.+|.-+.
T Consensus 45 ~gfKg~rK~T~~Aa~~~a~~~~~~~~~~gi~~v~I~ikG~G~Gr~~~ir~l~----~~glkI~~I~ 106 (116)
T CHL00041 45 CGFKGARKGTPFAAQTAAENAIRTVIDQGMKRAEVMIKGPGLGRDTALRAIR----RSGLKLSSIR 106 (116)
T ss_pred eeeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCCCcHHHHHHHHH----HCCCEEEEEE
Confidence 36899999888654333344555566688886654 4666666666553 4566766555
No 261
>COG0337 AroB 3-dehydroquinate synthetase [Amino acid transport and metabolism]
Probab=21.54 E-value=2.4e+02 Score=22.71 Aligned_cols=33 Identities=9% Similarity=0.136 Sum_probs=28.3
Q ss_pred HHHHHHHHHHCCCcEEecCCcchhHHHHHHHHH
Q 034414 26 LQYLKASIKAMSIKVIEVPGVEADDVIGKLAVR 58 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~ 58 (95)
...+..+|...|+|+-..++..++.++..++.-
T Consensus 288 ~~r~~~~L~~~gLP~~~~~~~~~~~l~~~m~~D 320 (360)
T COG0337 288 AERILNLLKRYGLPTSLPDELDAEKLLEAMARD 320 (360)
T ss_pred HHHHHHHHHHcCCCccCCCcCCHHHHHHHHhhc
Confidence 667888999999999777789999999998853
No 262
>PRK13059 putative lipid kinase; Reviewed
Probab=21.32 E-value=3.4e+02 Score=20.23 Aligned_cols=50 Identities=14% Similarity=0.127 Sum_probs=29.9
Q ss_pred HhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCC-cEEEEcCCCCc
Q 034414 24 QGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGF-KIQVVSPNKDS 75 (95)
Q Consensus 24 ~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~-~v~IvS~DkDl 75 (95)
..+..+.+.+...|+.+....-..+++. ..+..+...+. -|+++.+|-=+
T Consensus 19 ~~~~~i~~~l~~~g~~~~~~~~~~~~~~--~~~~~~~~~~~d~vi~~GGDGTv 69 (295)
T PRK13059 19 SELDKVIRIHQEKGYLVVPYRISLEYDL--KNAFKDIDESYKYILIAGGDGTV 69 (295)
T ss_pred HHHHHHHHHHHHCCcEEEEEEccCcchH--HHHHHHhhcCCCEEEEECCccHH
Confidence 3456677888888988554333344443 23444444443 57788889865
No 263
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=21.23 E-value=1e+02 Score=21.84 Aligned_cols=39 Identities=10% Similarity=0.142 Sum_probs=24.0
Q ss_pred hhHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 48 ADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 48 ADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
...++..+.....+.|..|+++|.|-+. .-+.++|-++.
T Consensus 172 ~~~l~~~l~~~~~~~~~tvi~vsH~~~~~~~~~d~v~~l~ 211 (235)
T cd03261 172 SGVIDDLIRSLKKELGLTSIMVTHDLDTAFAIADRIAVLY 211 (235)
T ss_pred HHHHHHHHHHHHHhcCcEEEEEecCHHHHHHhcCEEEEEE
Confidence 3444444443333347789999999887 65566665553
No 264
>cd04955 GT1_like_6 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=21.21 E-value=2.5e+02 Score=20.22 Aligned_cols=42 Identities=21% Similarity=0.241 Sum_probs=30.1
Q ss_pred cchhHHHHHHHHHhhhCCCcEEEEcCCCCc-c--cccCCeEEEEe
Q 034414 46 VEADDVIGKLAVRSVDDGFKIQVVSPNKDS-Q--ILSHSLCLLRI 87 (95)
Q Consensus 46 ~EADDvIatla~~~~~~~~~v~IvS~DkDl-Q--Lv~~~v~v~~~ 87 (95)
--+.-.+..++....+.|++|.|++.+... . ...++++++.+
T Consensus 15 gG~~~~~~~la~~L~~~g~~v~v~~~~~~~~~~~~~~~~i~~~~~ 59 (363)
T cd04955 15 GGFETFVEELAPRLVARGHEVTVYCRSPYPKQKETEYNGVRLIHI 59 (363)
T ss_pred CcHHHHHHHHHHHHHhcCCCEEEEEccCCCCCcccccCCceEEEc
Confidence 345567888888888899999999887655 4 23357777653
No 265
>TIGR03164 UHCUDC OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model.
Probab=21.19 E-value=3e+02 Score=19.18 Aligned_cols=41 Identities=10% Similarity=0.196 Sum_probs=29.0
Q ss_pred hhhHHhHHHHHHHH-HHCCCcE-EecCCcchhHHHHHHHHHhh
Q 034414 20 DTMVQGLQYLKASI-KAMSIKV-IEVPGVEADDVIGKLAVRSV 60 (95)
Q Consensus 20 ~~l~~q~~~i~~~l-~~~gi~~-~~~~g~EADDvIatla~~~~ 60 (95)
++...+|..++... +.+|++. +.+.|.-+++|++.+-.+..
T Consensus 90 ~~~~~~L~~lN~~Y~~kFGfpFvi~v~g~~~~~Il~~l~~Rl~ 132 (157)
T TIGR03164 90 QEEFARFTRLNNAYRARFGFPFIMAVKGKTKQSILAAFEARLN 132 (157)
T ss_pred HHHHHHHHHHHHHHHHHCCCeeEEeeCCCCHHHHHHHHHHHHC
Confidence 34445565555444 5699994 45689999999999988764
No 266
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=21.16 E-value=1.1e+02 Score=21.92 Aligned_cols=26 Identities=12% Similarity=0.049 Sum_probs=18.3
Q ss_pred HHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 50 DVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 50 DvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.+..++..+..++|.+++|+|+=-+.
T Consensus 98 ga~e~L~~~l~~~G~~v~IvSas~~~ 123 (210)
T TIGR01545 98 LVAERLRQYLESSDADIWLITGSPQP 123 (210)
T ss_pred cHHHHHHHHHHhCCCEEEEEcCCcHH
Confidence 45556654555579999999986654
No 267
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=21.16 E-value=1.4e+02 Score=23.43 Aligned_cols=28 Identities=21% Similarity=0.244 Sum_probs=12.7
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHHHH
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKLAV 57 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatla~ 57 (95)
+++.++..|||++..++--+|+ .+.+-+
T Consensus 335 lk~~l~e~GIP~L~iE~D~~~~-~gQi~T 362 (377)
T TIGR03190 335 LKRHLEANGIPTLFLEFDITNP-IGPFRI 362 (377)
T ss_pred HHHHHHHCCCCEEEEecCCCCc-hHHHHH
Confidence 4444444555555544433443 444333
No 268
>PLN02295 glycerol kinase
Probab=21.16 E-value=34 Score=27.77 Aligned_cols=49 Identities=22% Similarity=0.241 Sum_probs=34.0
Q ss_pred HHHHHHHHHCCCcE-EecCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 27 QYLKASIKAMSIKV-IEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 27 ~~i~~~l~~~gi~~-~~~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
.+-.++++.+|++. +-.+=..+++++|++...+...|.+|+...+|.-.
T Consensus 203 ~W~~ell~~~gi~~~~lP~l~~~~~~~G~v~~~~a~~g~pV~~g~~D~~a 252 (512)
T PLN02295 203 DWDKPTLEALGIPAEILPKIVSNSEVIGTIAKGWPLAGVPIAGCLGDQHA 252 (512)
T ss_pred cCCHHHHHHcCCCHHHCCCcccCccceeccccccccCCCcEEEEechHHH
Confidence 34567788888883 34556788888888876555457777777777665
No 269
>COG3119 AslA Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]
Probab=21.10 E-value=1e+02 Score=24.86 Aligned_cols=29 Identities=28% Similarity=0.335 Sum_probs=24.5
Q ss_pred cchhHHHHHHHHHhhhCCC---cEEEEcCCCC
Q 034414 46 VEADDVIGKLAVRSVDDGF---KIQVVSPNKD 74 (95)
Q Consensus 46 ~EADDvIatla~~~~~~~~---~v~IvS~DkD 74 (95)
.+.|+-||.|-....+.|. .++|+++|.-
T Consensus 267 ~~~D~~iGrll~~L~~~g~~DnTivvftsDhG 298 (475)
T COG3119 267 RYLDDQIGRLLDALKELGLLDNTIVVFTSDHG 298 (475)
T ss_pred HHHHHHHhHHHHHHHHhCCccCcEEEEeCCCC
Confidence 4789999999998887773 7888899987
No 270
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=21.09 E-value=1.8e+02 Score=17.66 Aligned_cols=41 Identities=24% Similarity=0.496 Sum_probs=26.8
Q ss_pred CCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHH
Q 034414 14 NRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAV 57 (95)
Q Consensus 14 nR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~ 57 (95)
||. .|-+|+.-++... .|...||..+-+| .++|-=-.+|+.
T Consensus 2 nra-sPv~LR~~lE~A~-~La~~GIRFVpiP-v~~dee~~~L~s 42 (61)
T PF07131_consen 2 NRA-SPVDLRKALEMAH-SLAHIGIRFVPIP-VVTDEEFHTLSS 42 (61)
T ss_pred CCc-cHHHHHHHHHHHH-HHHHcCceeeccc-cccHHHHHHHHH
Confidence 444 5777988888887 6777899988777 233333334443
No 271
>KOG3164 consensus Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=21.07 E-value=89 Score=23.78 Aligned_cols=42 Identities=10% Similarity=0.130 Sum_probs=32.5
Q ss_pred cCCcchhHHHHHHHHHhhhCCCcEEEEcCCCCc-cccc--CCeEEEE
Q 034414 43 VPGVEADDVIGKLAVRSVDDGFKIQVVSPNKDS-QILS--HSLCLLR 86 (95)
Q Consensus 43 ~~g~EADDvIatla~~~~~~~~~v~IvS~DkDl-QLv~--~~v~v~~ 86 (95)
.+-.-|+++|.+++... +-.+-+|.|.|.+| +.+. ++|-+..
T Consensus 94 ~~~~s~seCl~svv~~~--Nk~~YvvATQD~el~~kLr~~pgvPli~ 138 (236)
T KOG3164|consen 94 KDARSPSECLRSVVRIS--NKHHYVVATQDQELRRKLRKEPGVPLIY 138 (236)
T ss_pred CCCCCHHHHHHHHHhcc--CCceEEEecCCHHHHHHHhcCCCCceEE
Confidence 45667899999999766 34688999999999 8886 5665554
No 272
>PHA02754 hypothetical protein; Provisional
Probab=21.01 E-value=1.2e+02 Score=18.53 Aligned_cols=42 Identities=17% Similarity=0.252 Sum_probs=26.6
Q ss_pred ChhhHHhHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 19 PDTMVQGLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 19 p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
..++.+.+..+++.|...|+-+=+.. ...-.|.+++++++|.
T Consensus 13 eK~Fke~MRelkD~LSe~GiYi~RIk-------------ai~~SGdkIVVi~aD~ 54 (67)
T PHA02754 13 EKDFKEAMRELKDILSEAGIYIDRIK-------------AITTSGDKIVVITADA 54 (67)
T ss_pred HhHHHHHHHHHHHHHhhCceEEEEEE-------------EEEecCCEEEEEEcce
Confidence 34566777778888888887764332 1122466777777764
No 273
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=21.00 E-value=1.2e+02 Score=24.88 Aligned_cols=32 Identities=25% Similarity=0.275 Sum_probs=26.7
Q ss_pred ecCCcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 42 EVPGVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 42 ~~~g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
..+|.-=--.++-||..+...|.+|.+++.|.
T Consensus 107 G~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~ 138 (429)
T TIGR01425 107 GLQGSGKTTTCTKLAYYYQRKGFKPCLVCADT 138 (429)
T ss_pred CCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence 34666667888999988888899999999996
No 274
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=20.99 E-value=1.2e+02 Score=21.46 Aligned_cols=37 Identities=5% Similarity=0.129 Sum_probs=22.7
Q ss_pred HHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 50 DVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 50 DvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
.+...+.....+.|..|+++|.|.+. .-+.+++-++.
T Consensus 167 ~~~~~l~~~~~~~~~tiii~sH~~~~~~~~~d~i~~l~ 204 (232)
T PRK10771 167 EMLTLVSQVCQERQLTLLMVSHSLEDAARIAPRSLVVA 204 (232)
T ss_pred HHHHHHHHHHHhcCCEEEEEECCHHHHHHhCCEEEEEE
Confidence 33444444334447789999999997 55555665553
No 275
>PF03102 NeuB: NeuB family; InterPro: IPR013132 NeuB is the prokaryotic N-acetylneuraminic acid synthase (Neu5Ac). It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been observed in prokaryotes; eukaryotes synthesise the 9-phosphate form, Neu5Ac-9-P, and utilise ManNAc-6-P instead of ManNAc. Such eukaryotic enzymes are not present in this family []. This family also contains SpsE spore coat polysaccharide biosynthesis proteins.; GO: 0016051 carbohydrate biosynthetic process; PDB: 3G8R_B 1XUU_A 1XUZ_A 3CM4_A 2ZDR_A 1VLI_A 2WQP_A.
Probab=20.90 E-value=3.6e+02 Score=20.17 Aligned_cols=53 Identities=15% Similarity=0.125 Sum_probs=30.7
Q ss_pred HHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHH-----------------HHHhhhCCCcEEEEcCCCCc
Q 034414 23 VQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKL-----------------AVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 23 ~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatl-----------------a~~~~~~~~~v~IvS~DkDl 75 (95)
.+++..|.+.++..|+..+..+ ..++=|.+..+ -+++.+.|.+|+|-||=..+
T Consensus 55 ~e~~~~L~~~~~~~gi~f~stpfd~~s~d~l~~~~~~~~KIaS~dl~n~~lL~~~A~tgkPvIlSTG~stl 125 (241)
T PF03102_consen 55 EEQHKELFEYCKELGIDFFSTPFDEESVDFLEELGVPAYKIASGDLTNLPLLEYIAKTGKPVILSTGMSTL 125 (241)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEE-SHHHHHHHHHHT-SEEEE-GGGTT-HHHHHHHHTT-S-EEEE-TT--H
T ss_pred HHHHHHHHHHHHHcCCEEEECCCCHHHHHHHHHcCCCEEEeccccccCHHHHHHHHHhCCcEEEECCCCCH
Confidence 3467788899999999988877 55665666443 12234456666666665544
No 276
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=20.81 E-value=1.7e+02 Score=16.18 Aligned_cols=43 Identities=19% Similarity=0.224 Sum_probs=22.4
Q ss_pred HHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 29 LKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
+.+.|...|+.+....|--...--..+...+.. +...+++|++
T Consensus 3 l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~-~~~~vli~t~ 45 (82)
T smart00490 3 LAELLKELGIKVARLHGGLSQEEREEILEKFNN-GKIKVLVATD 45 (82)
T ss_pred HHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHc-CCCeEEEECC
Confidence 556667778888777663333222333333443 3345555554
No 277
>PRK13909 putative recombination protein RecB; Provisional
Probab=20.80 E-value=1.2e+02 Score=26.86 Aligned_cols=33 Identities=15% Similarity=0.214 Sum_probs=24.8
Q ss_pred ChhhhcCCCCCChhhHHhHHHHHHHH-HHCCCcEE
Q 034414 8 YPSYKNNRPPTPDTMVQGLQYLKASI-KAMSIKVI 41 (95)
Q Consensus 8 ~p~YKanR~~~p~~l~~q~~~i~~~l-~~~gi~~~ 41 (95)
.=|||.+|++ ++....|+..-++++ ..+|...+
T Consensus 860 IiDYKTg~~~-~~~y~~Ql~~Y~~~L~~~~~~~~v 893 (910)
T PRK13909 860 VIDYKSSKKY-QEEHKAQVSHYKEAIKEILPKKKV 893 (910)
T ss_pred EEEECCCCCC-hHHHHHHHHHHHHHHHHHcCCCee
Confidence 4589999865 567789998888888 66776643
No 278
>PF06069 PerC: PerC transcriptional activator; InterPro: IPR024684 This family includes PerC, which is a transcriptional activator of EaeA/BfpA expression in enteropathogenic bacteria []. It also includes a number of uncharacterised proteins, such as Orf40 from bacteriophage SfV.
Probab=20.79 E-value=1.5e+02 Score=19.16 Aligned_cols=29 Identities=31% Similarity=0.424 Sum_probs=18.9
Q ss_pred hcCCCCCC-hhhHHhHHHHHHHHHHCCCcE
Q 034414 12 KNNRPPTP-DTMVQGLQYLKASIKAMSIKV 40 (95)
Q Consensus 12 KanR~~~p-~~l~~q~~~i~~~l~~~gi~~ 40 (95)
|++|++.+ ++|-..-..+......|||..
T Consensus 49 kakR~p~~~~~f~~l~~Aa~~T~~~MGi~~ 78 (90)
T PF06069_consen 49 KAKRPPEPPDNFGDLRKAADRTQKRMGIDQ 78 (90)
T ss_pred hcccCCCChhHHHHHHHHHHHHHHHcCCCC
Confidence 66776654 444444566777778899954
No 279
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=20.79 E-value=1.3e+02 Score=20.11 Aligned_cols=29 Identities=28% Similarity=0.368 Sum_probs=19.8
Q ss_pred CCcchhHHHHHHHHHhhhCCCcEEEEcCC
Q 034414 44 PGVEADDVIGKLAVRSVDDGFKIQVVSPN 72 (95)
Q Consensus 44 ~g~EADDvIatla~~~~~~~~~v~IvS~D 72 (95)
+|.-=--++..++..+.+.|.+|.+++.|
T Consensus 9 ~G~GKTt~~~~la~~~~~~g~~v~~i~~D 37 (173)
T cd03115 9 QGVGKTTTAAKLALYLKKKGKKVLLVAAD 37 (173)
T ss_pred CCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Confidence 33333445666777676778889888888
No 280
>KOG4003 consensus Pyrazinamidase/nicotinamidase PNC1 [Defense mechanisms]
Probab=20.76 E-value=2.2e+02 Score=21.32 Aligned_cols=43 Identities=21% Similarity=0.318 Sum_probs=36.6
Q ss_pred HHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc
Q 034414 28 YLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS 70 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS 70 (95)
.++.+|+.-||.-+...|+.-|=++-.-|-.+.+.|+...|++
T Consensus 142 ~L~~~L~k~~Id~V~IAGvA~DICVk~TaL~A~~~~y~t~vI~ 184 (223)
T KOG4003|consen 142 DLNKYLEKHHIDEVYIAGVALDICVKATALSAAELGYKTTVIL 184 (223)
T ss_pred hHHHHHHHcCCCeEEEeehhhHHHHHHHHhhHHHhCcceeeeh
Confidence 4788899999999999999999888777777888889888775
No 281
>PRK05904 coproporphyrinogen III oxidase; Provisional
Probab=20.70 E-value=1.5e+02 Score=23.06 Aligned_cols=37 Identities=24% Similarity=0.278 Sum_probs=26.3
Q ss_pred hhcCCCCCChhhHHhHHHHHHHHHHCCCcEEecCCcc
Q 034414 11 YKNNRPPTPDTMVQGLQYLKASIKAMSIKVIEVPGVE 47 (95)
Q Consensus 11 YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~E 47 (95)
||..++..++.-.+.+..+.+.+...|+...++.++-
T Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~yeisnfa 237 (353)
T PRK05904 201 KKYHYTIDEDKEAEQLNYIKAKFNKLNYKRYEVSNWT 237 (353)
T ss_pred hhcCCCCChHHHHHHHHHHHHHHHHcCCcEEechhhc
Confidence 4444433444556778889999999999998876554
No 282
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=20.67 E-value=1e+02 Score=21.76 Aligned_cols=14 Identities=29% Similarity=0.385 Sum_probs=6.8
Q ss_pred hCCCcEEEEcCCCC
Q 034414 61 DDGFKIQVVSPNKD 74 (95)
Q Consensus 61 ~~~~~v~IvS~DkD 74 (95)
++|+++.|+|+=-+
T Consensus 88 ~~g~~~~IvS~~~~ 101 (219)
T PRK09552 88 ENNIPFYVVSGGMD 101 (219)
T ss_pred HcCCeEEEECCCcH
Confidence 34555555554333
No 283
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.48 E-value=1.1e+02 Score=21.87 Aligned_cols=38 Identities=5% Similarity=0.064 Sum_probs=23.1
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+.+...+.....+.|..|+++|.|.++ .-+.+++-++.
T Consensus 168 ~~l~~~l~~~~~~~g~tii~~sH~~~~~~~~~d~i~~l~ 206 (241)
T PRK14250 168 EIIEELIVKLKNKMNLTVIWITHNMEQAKRIGDYTAFLN 206 (241)
T ss_pred HHHHHHHHHHHHhCCCEEEEEeccHHHHHHhCCEEEEEe
Confidence 334444443333347789999999988 54556655553
No 284
>cd04336 YeaK YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.
Probab=20.47 E-value=1.3e+02 Score=20.12 Aligned_cols=47 Identities=9% Similarity=0.199 Sum_probs=23.5
Q ss_pred HHHHHHHHHCCCcE--EecCCcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 27 QYLKASIKAMSIKV--IEVPGVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 27 ~~i~~~l~~~gi~~--~~~~g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
..+.++|+..|+.. +..++...-+-++.........-.+.+++..|+
T Consensus 2 ~~v~~~L~~~~i~y~~~~~~~~~t~~~~a~~~~~~~~~~~Ktll~~~~~ 50 (153)
T cd04336 2 ERLQELLNTNGARFRVLDHPPEGTSEEVAAIRGTELGQGAKALLCKVKD 50 (153)
T ss_pred HHHHHHHHHCCCCEEEEecCCCCCHHHHHHHhCCCcccceEEEEEEecC
Confidence 45777888889886 444443322111111111112234666766665
No 285
>PRK10358 putative rRNA methylase; Provisional
Probab=20.47 E-value=1.3e+02 Score=20.89 Aligned_cols=20 Identities=0% Similarity=-0.099 Sum_probs=13.0
Q ss_pred HHHHHHHHHHCCCcEEecCC
Q 034414 26 LQYLKASIKAMSIKVIEVPG 45 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g 45 (95)
+..+-..++++|+..+...+
T Consensus 15 lGti~Rta~a~G~~~viv~~ 34 (157)
T PRK10358 15 TGNIIRLCANTGFRLHIIEP 34 (157)
T ss_pred HHHHHHHHHHhCCEEEEECC
Confidence 34455667788888666654
No 286
>PF08645 PNK3P: Polynucleotide kinase 3 phosphatase; InterPro: IPR013954 Polynucleotide kinase 3 phosphatases play a role in the repair of single breaks in DNA induced by DNA-damaging agents such as gamma radiation and camptothecin []. ; PDB: 2FPW_A 2FPR_A 2FPX_A 2FPS_A 2FPU_B 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B 3U7G_A ....
Probab=20.40 E-value=78 Score=21.82 Aligned_cols=24 Identities=25% Similarity=0.300 Sum_probs=16.8
Q ss_pred HHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 51 VIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 51 vIatla~~~~~~~~~v~IvS~DkDl 75 (95)
|+..|... .+.|+.|+|+|+=.-.
T Consensus 34 v~~~L~~l-~~~Gy~IvIvTNQ~gi 57 (159)
T PF08645_consen 34 VPEALREL-HKKGYKIVIVTNQSGI 57 (159)
T ss_dssp HHHHHHHH-HHTTEEEEEEEE-CCC
T ss_pred HHHHHHHH-HhcCCeEEEEeCcccc
Confidence 67777754 5679999999975433
No 287
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=20.39 E-value=3.7e+02 Score=22.41 Aligned_cols=43 Identities=14% Similarity=0.360 Sum_probs=30.1
Q ss_pred HHHHHHHHHHCCCcEEecCCcc--hhHHHHHHHHHhhhCCCcEEEE
Q 034414 26 LQYLKASIKAMSIKVIEVPGVE--ADDVIGKLAVRSVDDGFKIQVV 69 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~g~E--ADDvIatla~~~~~~~~~v~Iv 69 (95)
++.++.+.+..|++++.. +.+ +.++..--..++...++.|+||
T Consensus 144 ~eQL~~La~q~~v~~f~~-~~~~~Pv~Iak~al~~ak~~~~DvvIv 188 (451)
T COG0541 144 IEQLKQLAEQVGVPFFGS-GTEKDPVEIAKAALEKAKEEGYDVVIV 188 (451)
T ss_pred HHHHHHHHHHcCCceecC-CCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 555777778899999988 545 4454444445567778899987
No 288
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=20.37 E-value=1.1e+02 Score=23.91 Aligned_cols=22 Identities=27% Similarity=0.377 Sum_probs=16.5
Q ss_pred HHHHHHHhhhCCCcEEEEcCCC
Q 034414 52 IGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 52 Iatla~~~~~~~~~v~IvS~Dk 73 (95)
-|++|.++.+.|.+|+++|.|-
T Consensus 19 aaA~A~~lA~~g~kvLlvStDP 40 (322)
T COG0003 19 AAATAVKLAESGKKVLLVSTDP 40 (322)
T ss_pred HHHHHHHHHHcCCcEEEEEeCC
Confidence 3455666777787899999985
No 289
>PLN02251 pyrophosphate-dependent phosphofructokinase
Probab=20.30 E-value=3.9e+02 Score=22.78 Aligned_cols=53 Identities=13% Similarity=0.143 Sum_probs=36.7
Q ss_pred HHhHHHHHHHHHHCCCcEEecC-CcchhHHHHHHHHHhhhCCCcEEEE----cCCCCc
Q 034414 23 VQGLQYLKASIKAMSIKVIEVP-GVEADDVIGKLAVRSVDDGFKIQVV----SPNKDS 75 (95)
Q Consensus 23 ~~q~~~i~~~l~~~gi~~~~~~-g~EADDvIatla~~~~~~~~~v~Iv----S~DkDl 75 (95)
.++++.+.+.|+++||..+.+- |-..=+-.+.|+..+.+.|.++-|+ |-|-|+
T Consensus 176 ~e~~~~~~~~l~~l~Id~LViIGGddS~~~A~~Lae~~~~~g~~i~VIGVPKTIDNDL 233 (568)
T PLN02251 176 PEQFKQAEETATKLDLDGLVVIGGDDSNTNACLLAEYFRAKNLKTRVIGCPKTIDGDL 233 (568)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHhcCCCeeEEEeCceEeCCC
Confidence 3467888899999999976665 5555555666666666677554443 668887
No 290
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=20.23 E-value=3.2e+02 Score=19.15 Aligned_cols=47 Identities=15% Similarity=0.222 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHCCCcEEecCCcchhHHHHHHHHHhhhCCCcEEEEc-CCCC
Q 034414 25 GLQYLKASIKAMSIKVIEVPGVEADDVIGKLAVRSVDDGFKIQVVS-PNKD 74 (95)
Q Consensus 25 q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS-~DkD 74 (95)
-...+..+|..+||.++-....-+=|=++..| .+..-+|+.+| -|-.
T Consensus 28 gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA---~~~dv~vIgvSsl~g~ 75 (143)
T COG2185 28 GAKVIARALADAGFEVINLGLFQTPEEAVRAA---VEEDVDVIGVSSLDGG 75 (143)
T ss_pred chHHHHHHHHhCCceEEecCCcCCHHHHHHHH---HhcCCCEEEEEeccch
Confidence 35568888999999998887666655554444 33344555544 3433
No 291
>KOG2825 consensus Putative arsenite-translocating ATPase [Inorganic ion transport and metabolism]
Probab=20.17 E-value=2.2e+02 Score=22.53 Aligned_cols=46 Identities=24% Similarity=0.226 Sum_probs=35.9
Q ss_pred HHHHHHHHCCCcEEecC---CcchhHHHHHHHHHhhhCCCcEEEEcCCC
Q 034414 28 YLKASIKAMSIKVIEVP---GVEADDVIGKLAVRSVDDGFKIQVVSPNK 73 (95)
Q Consensus 28 ~i~~~l~~~gi~~~~~~---g~EADDvIatla~~~~~~~~~v~IvS~Dk 73 (95)
.+.++++.--++|+-+- |.----+-++||-+..+.+..|+|+|+|-
T Consensus 9 ~l~nil~q~slKwifVGGKGGVGKTTcs~sLAvqla~~r~~vLiISTDP 57 (323)
T KOG2825|consen 9 TLQNILEQTSLKWIFVGGKGGVGKTTCSCSLAVQLAKVRESVLIISTDP 57 (323)
T ss_pred hHHHHhhcceeeEEEEcCcCCcCccchhhHHHHHHhccCCceEEeecCc
Confidence 57778888788887765 44555677888888887788999999985
No 292
>COG1921 SelA Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]
Probab=20.16 E-value=2.4e+02 Score=23.07 Aligned_cols=46 Identities=17% Similarity=-0.005 Sum_probs=30.9
Q ss_pred HHHHHHHCCCcEEecCCcchh-HHHHHHHHHhhhCCCcEEEEcCCCCc
Q 034414 29 LKASIKAMSIKVIEVPGVEAD-DVIGKLAVRSVDDGFKIQVVSPNKDS 75 (95)
Q Consensus 29 i~~~l~~~gi~~~~~~g~EAD-DvIatla~~~~~~~~~v~IvS~DkDl 75 (95)
+-++.+..|++++.-.|-++= |.-.. -+.+.+.|...+++|+||=|
T Consensus 179 l~~ia~~~~lpvivD~aSg~~v~~e~~-l~~~la~GaDLV~~SgdKll 225 (395)
T COG1921 179 LVEIAHEKGLPVIVDLASGALVDKEPD-LREALALGADLVSFSGDKLL 225 (395)
T ss_pred HHHHHHHcCCCEEEecCCccccccccc-hhHHHhcCCCEEEEecchhc
Confidence 667788899999987665430 01111 12355568999999999965
No 293
>PRK06852 aldolase; Validated
Probab=20.12 E-value=3.8e+02 Score=20.95 Aligned_cols=46 Identities=13% Similarity=0.053 Sum_probs=32.0
Q ss_pred hHHhHHHHHHHHHHCCCcEEe---cCCcc----hh-HHHHHHHHHhhhCCCcEE
Q 034414 22 MVQGLQYLKASIKAMSIKVIE---VPGVE----AD-DVIGKLAVRSVDDGFKIQ 67 (95)
Q Consensus 22 l~~q~~~i~~~l~~~gi~~~~---~~g~E----AD-DvIatla~~~~~~~~~v~ 67 (95)
....+..+.+-++..|++++. ..|-+ -| |+|+..++.+.+-|..++
T Consensus 152 ml~~l~~v~~ea~~~GlPll~~~yprG~~i~~~~~~~~ia~aaRiaaELGADIV 205 (304)
T PRK06852 152 MLSEAAQIIYEAHKHGLIAVLWIYPRGKAVKDEKDPHLIAGAAGVAACLGADFV 205 (304)
T ss_pred HHHHHHHHHHHHHHhCCcEEEEeeccCcccCCCccHHHHHHHHHHHHHHcCCEE
Confidence 334456666778889999875 22321 22 699999998888887766
No 294
>PRK05799 coproporphyrinogen III oxidase; Provisional
Probab=20.12 E-value=1.4e+02 Score=23.02 Aligned_cols=39 Identities=15% Similarity=0.223 Sum_probs=26.2
Q ss_pred ChhhhcCCCCC--ChhhHHhHHHHHHHHHHCCCcEEecCCc
Q 034414 8 YPSYKNNRPPT--PDTMVQGLQYLKASIKAMSIKVIEVPGV 46 (95)
Q Consensus 8 ~p~YKanR~~~--p~~l~~q~~~i~~~l~~~gi~~~~~~g~ 46 (95)
+..|+.++-.. .+.....+..+.+.|.+.|+..+++.++
T Consensus 197 ~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~Gy~~ye~~~f 237 (374)
T PRK05799 197 YNLYENGKLKLPDEEEEREMYHYTIEFLKEKGYHQYEISNF 237 (374)
T ss_pred HHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCcEEeeeee
Confidence 34455555433 3445667788999999999998876443
No 295
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=20.09 E-value=3.1e+02 Score=18.97 Aligned_cols=37 Identities=22% Similarity=0.242 Sum_probs=23.6
Q ss_pred hHHHHHHHHHhhhCCCcEEEEcCCCCc-ccccCCeEEEE
Q 034414 49 DDVIGKLAVRSVDDGFKIQVVSPNKDS-QILSHSLCLLR 86 (95)
Q Consensus 49 DDvIatla~~~~~~~~~v~IvS~DkDl-QLv~~~v~v~~ 86 (95)
+.++..+. ...+.|..|+++|.|.++ .-+.+.+-++.
T Consensus 169 ~~l~~~l~-~~~~~~~tvi~~sH~~~~~~~~~d~i~~l~ 206 (213)
T cd03235 169 EDIYELLR-ELRREGMTILVVTHDLGLVLEYFDRVLLLN 206 (213)
T ss_pred HHHHHHHH-HHHhcCCEEEEEeCCHHHHHHhcCEEEEEc
Confidence 33444443 333357789999999988 66666666653
No 296
>PRK03673 hypothetical protein; Provisional
Probab=20.05 E-value=3e+02 Score=22.18 Aligned_cols=44 Identities=16% Similarity=0.163 Sum_probs=32.2
Q ss_pred HHHHHHHHHHCCCcEEecC--CcchhHHHHHHHHHhhhCCCcEEEEcC
Q 034414 26 LQYLKASIKAMSIKVIEVP--GVEADDVIGKLAVRSVDDGFKIQVVSP 71 (95)
Q Consensus 26 ~~~i~~~l~~~gi~~~~~~--g~EADDvIatla~~~~~~~~~v~IvS~ 71 (95)
-.+|...|..+|+.+.... +-+.+.+...+..... ...++|+|+
T Consensus 23 ~~~la~~L~~~G~~v~~~~~v~D~~~~i~~~l~~a~~--~~DlVI~tG 68 (396)
T PRK03673 23 AAWLADFFFHQGLPLSRRNTVGDNLDALVAILRERSQ--HADVLIVNG 68 (396)
T ss_pred HHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhc--cCCEEEEcC
Confidence 4568888999999875543 7778888888776433 357888886
Done!