Query 039625
Match_columns 238
No_of_seqs 162 out of 1314
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 11:32:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039625.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039625hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03080 Probable beta-xylosid 100.0 3.4E-52 7.3E-57 408.0 21.8 229 8-237 186-549 (779)
2 PRK15098 beta-D-glucoside gluc 100.0 2.8E-47 6.1E-52 373.7 21.4 219 9-236 188-561 (765)
3 COG1472 BglX Beta-glucosidase- 99.9 7.5E-28 1.6E-32 220.5 9.0 137 9-160 152-367 (397)
4 PF00933 Glyco_hydro_3: Glycos 99.8 2.7E-20 5.9E-25 165.3 1.0 79 8-87 139-228 (299)
5 PRK05337 beta-hexosaminidase; 99.8 1.5E-19 3.3E-24 162.7 5.5 78 9-87 151-243 (337)
6 PF01915 Glyco_hydro_3_C: Glyc 99.7 2.7E-17 5.8E-22 140.4 7.2 101 131-236 1-150 (227)
7 COG0486 ThdF Predicted GTPase 93.3 1.2 2.7E-05 41.8 11.3 38 48-86 60-102 (454)
8 TIGR00237 xseA exodeoxyribonuc 92.7 0.67 1.5E-05 43.5 8.8 101 117-232 102-232 (432)
9 PRK00286 xseA exodeoxyribonucl 92.4 0.71 1.5E-05 43.2 8.6 101 117-232 108-237 (438)
10 COG1160 Predicted GTPases [Gen 90.7 1.5 3.3E-05 41.1 8.7 46 167-225 75-120 (444)
11 PF02601 Exonuc_VII_L: Exonucl 87.1 2.4 5.3E-05 37.8 7.2 56 164-231 58-119 (319)
12 PF02421 FeoB_N: Ferrous iron 85.3 4.6 0.0001 32.5 7.2 38 173-225 76-113 (156)
13 TIGR01756 LDH_protist lactate 80.7 1.1 2.4E-05 40.2 2.2 58 171-232 56-115 (313)
14 TIGR01759 MalateDH-SF1 malate 80.4 1.7 3.6E-05 39.3 3.2 58 171-232 75-134 (323)
15 COG1570 XseA Exonuclease VII, 78.8 8.6 0.00019 36.2 7.4 100 117-231 108-237 (440)
16 cd06533 Glyco_transf_WecG_TagA 77.7 12 0.00026 30.3 7.2 41 173-232 97-137 (171)
17 PLN00135 malate dehydrogenase 74.5 3.1 6.6E-05 37.4 3.1 59 170-232 53-113 (309)
18 PF03808 Glyco_tran_WecB: Glyc 73.9 13 0.00028 30.2 6.5 40 174-232 100-139 (172)
19 PRK05442 malate dehydrogenase; 72.3 3.4 7.4E-05 37.3 2.9 58 171-232 76-135 (326)
20 PF00056 Ldh_1_N: lactate/mala 72.2 0.85 1.8E-05 35.9 -0.9 54 172-232 66-123 (141)
21 PF06858 NOG1: Nucleolar GTP-b 72.1 13 0.00027 25.0 4.9 23 203-225 32-55 (58)
22 cd01338 MDH_choloroplast_like 71.6 3.3 7.1E-05 37.3 2.7 57 170-232 73-133 (322)
23 PRK15494 era GTPase Era; Provi 70.4 43 0.00093 30.2 9.7 44 169-225 125-168 (339)
24 PLN00112 malate dehydrogenase 69.0 3.6 7.8E-05 38.8 2.4 58 171-232 172-231 (444)
25 COG1159 Era GTPase [General fu 69.0 35 0.00076 30.5 8.4 48 165-225 75-122 (298)
26 TIGR01757 Malate-DH_plant mala 68.6 3.8 8.2E-05 38.0 2.4 56 171-232 116-175 (387)
27 cd00300 LDH_like L-lactate deh 67.6 4.4 9.5E-05 36.0 2.6 57 171-232 62-120 (300)
28 PRK13556 azoreductase; Provisi 67.5 19 0.00042 29.9 6.4 56 164-230 78-148 (208)
29 cd00704 MDH Malate dehydrogena 66.8 4.8 0.0001 36.3 2.6 59 170-232 71-131 (323)
30 COG1084 Predicted GTPase [Gene 66.5 25 0.00055 31.9 7.1 23 203-225 266-288 (346)
31 cd05294 LDH-like_MDH_nadp A la 66.3 6.8 0.00015 35.0 3.6 56 172-232 69-126 (309)
32 TIGR01772 MDH_euk_gproteo mala 66.1 8.3 0.00018 34.6 4.0 57 170-232 62-121 (312)
33 COG0039 Mdh Malate/lactate deh 65.3 6.3 0.00014 35.5 3.1 58 170-232 64-123 (313)
34 cd01336 MDH_cytoplasmic_cytoso 64.3 6.8 0.00015 35.3 3.1 59 170-232 73-133 (325)
35 PRK13555 azoreductase; Provisi 64.0 21 0.00046 30.0 5.9 57 164-231 78-149 (208)
36 cd01337 MDH_glyoxysomal_mitoch 63.5 6.9 0.00015 35.1 3.0 58 170-232 63-122 (310)
37 COG3053 CitC Citrate lyase syn 63.3 32 0.00069 30.9 6.9 89 128-234 117-218 (352)
38 PLN02602 lactate dehydrogenase 63.0 6.1 0.00013 36.1 2.6 56 172-232 102-159 (350)
39 COG1160 Predicted GTPases [Gen 62.8 26 0.00057 33.1 6.7 46 167-225 252-297 (444)
40 TIGR01758 MDH_euk_cyt malate d 62.4 7.4 0.00016 35.1 3.0 57 170-232 70-130 (324)
41 cd01857 HSR1_MMR1 HSR1/MMR1. 61.6 19 0.00042 27.7 5.0 18 167-184 3-20 (141)
42 cd05291 HicDH_like L-2-hydroxy 61.5 6.8 0.00015 34.8 2.6 53 173-232 66-122 (306)
43 TIGR01771 L-LDH-NAD L-lactate 61.1 6.3 0.00014 35.1 2.3 57 171-232 60-118 (299)
44 PF00009 GTP_EFTU: Elongation 60.1 61 0.0013 26.0 7.9 61 148-225 70-130 (188)
45 COG2875 CobM Precorrin-4 methy 60.0 21 0.00045 30.9 5.1 78 148-230 3-87 (254)
46 TIGR01763 MalateDH_bact malate 59.8 7.8 0.00017 34.6 2.7 53 173-232 67-123 (305)
47 PF10662 PduV-EutP: Ethanolami 59.2 63 0.0014 25.7 7.5 22 165-186 53-74 (143)
48 TIGR00124 cit_ly_ligase [citra 59.1 58 0.0013 29.5 8.2 72 148-233 139-211 (332)
49 TIGR00608 radc DNA repair prot 58.8 8.8 0.00019 32.7 2.7 49 32-81 136-188 (218)
50 PRK00066 ldh L-lactate dehydro 57.1 9.7 0.00021 34.1 2.8 54 172-232 70-127 (315)
51 TIGR00696 wecB_tagA_cpsF bacte 56.9 54 0.0012 26.8 7.0 40 174-232 99-138 (177)
52 PF01926 MMR_HSR1: 50S ribosom 56.3 33 0.00072 25.1 5.3 47 165-225 69-115 (116)
53 PF10087 DUF2325: Uncharacteri 56.0 48 0.001 23.9 6.0 40 169-223 42-81 (97)
54 PRK05086 malate dehydrogenase; 55.9 10 0.00022 33.9 2.7 57 171-232 65-123 (312)
55 cd05290 LDH_3 A subgroup of L- 55.4 12 0.00025 33.5 3.1 57 171-232 64-124 (307)
56 PRK00170 azoreductase; Reviewe 55.0 36 0.00079 27.7 5.8 56 164-230 75-145 (201)
57 COG2003 RadC DNA repair protei 54.9 9.9 0.00021 32.5 2.4 40 45-85 158-198 (224)
58 KOG0058 Peptide exporter, ABC 54.3 14 0.0003 36.8 3.5 57 167-224 572-628 (716)
59 PF02401 LYTB: LytB protein; 52.2 86 0.0019 27.8 7.9 87 117-221 123-239 (281)
60 cd01413 SIR2_Af2 SIR2_Af2: Arc 51.8 66 0.0014 27.2 7.0 32 149-185 149-180 (222)
61 COG0391 Uncharacterized conser 50.3 40 0.00087 30.5 5.6 69 147-230 166-234 (323)
62 TIGR02990 ectoine_eutA ectoine 49.7 61 0.0013 27.9 6.5 32 173-221 179-210 (239)
63 PRK00024 hypothetical protein; 49.5 14 0.0003 31.6 2.5 48 33-81 143-194 (224)
64 cd05293 LDH_1 A subgroup of L- 49.2 12 0.00026 33.6 2.1 54 172-232 68-125 (312)
65 PRK12569 hypothetical protein; 48.0 23 0.00049 30.8 3.5 74 138-219 27-108 (245)
66 cd05295 MDH_like Malate dehydr 47.9 14 0.0003 35.0 2.4 43 45-87 58-107 (452)
67 TIGR03566 FMN_reduc_MsuE FMN r 47.0 55 0.0012 26.2 5.6 57 163-230 56-114 (174)
68 TIGR01469 cobA_cysG_Cterm urop 46.9 96 0.0021 25.9 7.3 32 149-182 1-32 (236)
69 PTZ00325 malate dehydrogenase; 46.3 17 0.00038 32.7 2.7 57 170-232 71-130 (321)
70 COG1058 CinA Predicted nucleot 46.0 68 0.0015 28.1 6.2 52 117-188 21-73 (255)
71 PTZ00117 malate dehydrogenase; 45.8 18 0.00038 32.5 2.7 56 172-232 70-127 (319)
72 TIGR02836 spore_IV_A stage IV 45.2 82 0.0018 30.0 6.9 55 171-231 139-194 (492)
73 cd01858 NGP_1 NGP-1. Autoanti 45.2 37 0.00081 26.5 4.2 15 170-184 3-17 (157)
74 PRK06136 uroporphyrin-III C-me 44.9 1.9E+02 0.0041 24.4 8.9 33 148-182 3-35 (249)
75 cd01410 SIRT7 SIRT7: Eukaryoti 44.9 1E+02 0.0023 25.7 7.1 32 149-185 133-164 (206)
76 cd01409 SIRT4 SIRT4: Eukaryoti 44.1 88 0.0019 27.2 6.7 32 149-185 182-213 (260)
77 COG1182 AcpD Acyl carrier prot 43.7 78 0.0017 26.7 5.9 55 166-231 78-147 (202)
78 PTZ00409 Sir2 (Silent Informat 43.5 1.2E+02 0.0025 26.7 7.4 32 149-185 177-208 (271)
79 cd01339 LDH-like_MDH L-lactate 42.8 23 0.00051 31.2 2.9 55 172-232 63-120 (300)
80 COG0007 CysG Uroporphyrinogen- 42.5 1.9E+02 0.0041 25.2 8.3 81 148-232 4-95 (244)
81 PRK02228 V-type ATP synthase s 42.2 1.1E+02 0.0025 22.4 6.1 47 164-224 30-77 (100)
82 PLN00106 malate dehydrogenase 41.7 28 0.0006 31.5 3.2 57 169-231 80-139 (323)
83 PF11071 DUF2872: Protein of u 40.9 58 0.0013 25.6 4.4 18 169-186 66-83 (141)
84 PRK01355 azoreductase; Reviewe 40.7 1E+02 0.0022 25.3 6.4 56 164-230 66-139 (199)
85 cd01861 Rab6 Rab6 subfamily. 40.2 1.5E+02 0.0033 22.4 7.0 16 169-184 66-81 (161)
86 PRK05406 LamB/YcsF family prot 40.2 54 0.0012 28.5 4.6 76 135-218 20-104 (246)
87 cd01884 EF_Tu EF-Tu subfamily. 40.0 1.4E+02 0.0029 24.6 7.0 21 164-184 77-97 (195)
88 PRK09739 hypothetical protein; 39.9 73 0.0016 26.1 5.3 57 164-231 68-134 (199)
89 PRK06223 malate dehydrogenase; 39.7 22 0.00048 31.3 2.3 56 172-232 67-124 (307)
90 cd01821 Rhamnogalacturan_acety 38.7 89 0.0019 25.1 5.7 22 167-188 57-78 (198)
91 PLN02625 uroporphyrin-III C-me 38.7 2.6E+02 0.0056 24.1 10.0 33 148-182 15-47 (263)
92 COG4604 CeuD ABC-type enteroch 38.2 1.2E+02 0.0027 26.0 6.3 43 172-225 150-194 (252)
93 PRK15473 cbiF cobalt-precorrin 37.5 1.2E+02 0.0026 26.0 6.6 33 148-182 8-40 (257)
94 cd00650 LDH_MDH_like NAD-depen 37.1 32 0.00069 29.7 2.8 57 171-232 66-124 (263)
95 PRK05765 precorrin-3B C17-meth 36.9 76 0.0016 27.2 5.1 32 148-181 2-33 (246)
96 TIGR00732 dprA DNA protecting 36.7 1.8E+02 0.0038 24.6 7.3 37 148-184 45-81 (220)
97 TIGR03646 YtoQ_fam YtoQ family 36.2 75 0.0016 25.1 4.4 19 168-186 68-86 (144)
98 PRK05576 cobalt-precorrin-2 C( 36.2 98 0.0021 26.0 5.7 33 148-182 2-34 (229)
99 cd01894 EngA1 EngA1 subfamily. 35.9 1.8E+02 0.0038 21.7 6.7 45 168-225 69-113 (157)
100 TIGR00436 era GTP-binding prot 35.2 1.3E+02 0.0029 25.8 6.5 45 167-225 71-115 (270)
101 PRK00089 era GTPase Era; Revie 35.2 1.3E+02 0.0029 26.0 6.5 46 167-225 76-121 (292)
102 PF07302 AroM: AroM protein; 35.0 1.6E+02 0.0034 25.2 6.6 34 65-98 61-100 (221)
103 COG0373 HemA Glutamyl-tRNA red 34.9 92 0.002 29.2 5.6 53 166-234 229-281 (414)
104 PF04002 RadC: RadC-like JAB d 34.9 47 0.001 25.4 3.2 37 44-81 56-93 (123)
105 cd05292 LDH_2 A subgroup of L- 34.7 33 0.00071 30.5 2.6 54 172-232 64-121 (308)
106 PF03746 LamB_YcsF: LamB/YcsF 34.5 59 0.0013 28.2 4.0 76 136-219 19-103 (242)
107 PF04187 DUF399: Protein of un 34.1 58 0.0013 27.4 3.9 48 165-224 3-50 (213)
108 PRK14138 NAD-dependent deacety 34.0 1.5E+02 0.0033 25.4 6.6 32 149-185 156-187 (244)
109 PF12982 DUF3866: Protein of u 33.8 3.2E+02 0.007 24.7 8.6 43 173-220 173-216 (320)
110 COG4618 ArpD ABC-type protease 33.7 58 0.0013 31.6 4.1 11 148-158 363-373 (580)
111 PF00350 Dynamin_N: Dynamin fa 33.7 1.7E+02 0.0037 22.5 6.4 47 167-225 120-166 (168)
112 cd01840 SGNH_hydrolase_yrhL_li 33.5 95 0.0021 24.0 4.8 26 149-174 52-77 (150)
113 PF01380 SIS: SIS domain SIS d 33.2 84 0.0018 23.2 4.4 13 148-160 6-18 (131)
114 PF10727 Rossmann-like: Rossma 33.2 69 0.0015 24.8 3.9 13 172-184 65-77 (127)
115 PF03358 FMN_red: NADPH-depend 33.1 91 0.002 23.9 4.7 55 163-228 58-117 (152)
116 cd07381 MPP_CapA CapA and rela 33.0 2.9E+02 0.0064 23.1 8.2 46 175-232 174-219 (239)
117 PRK03692 putative UDP-N-acetyl 32.6 1E+02 0.0022 26.6 5.2 41 173-232 155-195 (243)
118 cd07187 YvcK_like family of mo 32.5 98 0.0021 27.8 5.2 19 167-185 167-185 (308)
119 TIGR02383 Hfq RNA chaperone Hf 32.3 1E+02 0.0022 20.8 4.1 25 205-230 4-28 (61)
120 COG1618 Predicted nucleotide k 32.2 1.6E+02 0.0035 24.3 5.9 46 171-230 96-145 (179)
121 cd05212 NAD_bind_m-THF_DH_Cycl 31.9 38 0.00083 26.7 2.3 47 140-189 24-85 (140)
122 PRK11199 tyrA bifunctional cho 31.3 1.8E+02 0.004 26.5 7.0 68 115-184 67-151 (374)
123 PF13130 DUF3952: Domain of un 31.3 25 0.00054 26.3 1.0 23 39-61 13-35 (107)
124 TIGR01465 cobM_cbiF precorrin- 31.2 1.5E+02 0.0032 24.7 5.9 30 151-182 2-31 (229)
125 COG2241 CobL Precorrin-6B meth 31.1 77 0.0017 26.9 4.1 77 150-232 2-82 (210)
126 PF14606 Lipase_GDSL_3: GDSL-l 31.1 1.6E+02 0.0036 24.2 5.9 53 163-225 48-101 (178)
127 COG1737 RpiR Transcriptional r 30.9 3E+02 0.0065 24.0 8.0 66 148-230 131-218 (281)
128 TIGR03567 FMN_reduc_SsuE FMN r 30.8 1.5E+02 0.0033 23.6 5.7 52 164-226 54-107 (171)
129 PF13653 GDPD_2: Glycerophosph 30.5 52 0.0011 18.9 2.0 18 44-62 12-29 (30)
130 PF09587 PGA_cap: Bacterial ca 30.3 2.4E+02 0.0053 23.9 7.2 46 166-220 173-219 (250)
131 PRK05787 cobalt-precorrin-6Y C 30.2 1.1E+02 0.0023 25.1 4.8 30 150-181 2-31 (210)
132 PRK05990 precorrin-2 C(20)-met 30.1 3.1E+02 0.0066 23.4 7.8 34 148-183 3-36 (241)
133 cd01856 YlqF YlqF. Proteins o 30.1 1.2E+02 0.0026 24.0 5.0 21 164-184 8-28 (171)
134 PRK07168 bifunctional uroporph 29.7 2.1E+02 0.0046 27.3 7.2 32 148-181 3-34 (474)
135 cd01886 EF-G Elongation factor 29.6 2E+02 0.0044 25.0 6.7 47 166-225 78-124 (270)
136 PF09837 DUF2064: Uncharacteri 29.5 99 0.0022 23.6 4.2 34 148-182 61-94 (122)
137 PRK05333 NAD-dependent deacety 29.5 2.4E+02 0.0051 24.8 7.1 33 149-186 192-224 (285)
138 TIGR03594 GTPase_EngA ribosome 29.3 2E+02 0.0044 26.3 7.0 45 168-225 247-291 (429)
139 cd01859 MJ1464 MJ1464. This f 28.9 1.8E+02 0.0039 22.3 5.8 12 173-184 10-21 (156)
140 PRK10528 multifunctional acyl- 28.5 2.7E+02 0.0058 22.4 6.9 14 174-187 70-83 (191)
141 PRK00481 NAD-dependent deacety 28.4 2.4E+02 0.0053 23.9 6.9 32 149-185 155-186 (242)
142 TIGR03594 GTPase_EngA ribosome 28.2 2.5E+02 0.0053 25.8 7.4 46 167-225 70-115 (429)
143 PF06283 ThuA: Trehalose utili 28.2 1.3E+02 0.0028 24.9 5.1 39 173-225 50-88 (217)
144 PF02882 THF_DHG_CYH_C: Tetrah 27.9 57 0.0012 26.3 2.7 45 140-187 32-91 (160)
145 cd01408 SIRT1 SIRT1: Eukaryoti 27.9 2.9E+02 0.0063 23.5 7.2 32 149-185 153-184 (235)
146 PRK00093 GTP-binding protein D 27.2 2.6E+02 0.0055 25.8 7.3 45 168-225 73-117 (435)
147 cd01885 EF2 EF2 (for archaea a 27.0 2.4E+02 0.0052 23.8 6.5 47 166-225 87-133 (222)
148 PRK00093 GTP-binding protein D 26.8 2.3E+02 0.005 26.1 6.9 45 168-225 248-292 (435)
149 PRK11557 putative DNA-binding 26.7 1.5E+02 0.0033 25.4 5.4 36 148-183 129-183 (278)
150 COG0421 SpeE Spermidine syntha 26.6 2.9E+02 0.0062 24.5 7.1 49 172-230 146-194 (282)
151 PRK08284 precorrin 6A synthase 26.3 2.6E+02 0.0056 24.2 6.7 34 148-183 2-35 (253)
152 TIGR00522 dph5 diphthine synth 26.3 2.3E+02 0.005 24.4 6.4 31 150-182 2-32 (257)
153 PF07991 IlvN: Acetohydroxy ac 26.0 2E+02 0.0043 23.5 5.5 11 147-157 4-14 (165)
154 cd04165 GTPBP1_like GTPBP1-lik 25.9 3.5E+02 0.0075 22.7 7.3 46 167-225 99-146 (224)
155 TIGR03596 GTPase_YlqF ribosome 25.9 2.1E+02 0.0045 24.8 6.1 21 164-184 10-30 (276)
156 PRK05991 precorrin-3B C17-meth 25.7 2.6E+02 0.0057 23.8 6.6 32 148-181 3-34 (250)
157 COG0816 Predicted endonuclease 25.6 1.6E+02 0.0035 23.3 4.8 53 165-222 41-93 (141)
158 cd01134 V_A-ATPase_A V/A-type 25.6 4.2E+02 0.0092 24.5 8.1 44 138-186 150-194 (369)
159 COG1578 Uncharacterized conser 25.5 1.7E+02 0.0038 25.9 5.3 48 168-231 144-191 (285)
160 PRK10637 cysG siroheme synthas 25.4 4.1E+02 0.0089 25.0 8.4 32 148-181 216-247 (457)
161 smart00854 PGA_cap Bacterial c 25.3 4.1E+02 0.0089 22.3 8.2 47 174-232 171-217 (239)
162 PF08218 Citrate_ly_lig: Citra 25.2 1.7E+02 0.0037 24.2 5.0 51 171-234 21-72 (182)
163 PRK03003 GTP-binding protein D 24.9 2.4E+02 0.0051 26.6 6.7 45 168-225 110-154 (472)
164 COG0431 Predicted flavoprotein 24.9 1.8E+02 0.004 23.6 5.3 57 163-230 55-113 (184)
165 cd01882 BMS1 Bms1. Bms1 is an 24.9 2.7E+02 0.0058 23.3 6.4 18 167-184 95-112 (225)
166 TIGR01826 CofD_related conserv 24.4 1.8E+02 0.0039 26.2 5.4 20 167-186 164-183 (310)
167 cd01080 NAD_bind_m-THF_DH_Cycl 24.3 71 0.0015 25.9 2.7 39 148-186 45-98 (168)
168 PF09547 Spore_IV_A: Stage IV 24.3 90 0.0019 29.7 3.6 28 203-231 167-194 (492)
169 cd05014 SIS_Kpsf KpsF-like pro 24.0 2.3E+02 0.005 20.8 5.4 19 206-225 64-82 (128)
170 TIGR02717 AcCoA-syn-alpha acet 24.0 1.9E+02 0.0041 27.2 5.8 9 148-156 8-16 (447)
171 PF02844 GARS_N: Phosphoribosy 23.9 1.3E+02 0.0028 22.4 3.7 34 149-186 2-35 (100)
172 PF05014 Nuc_deoxyrib_tr: Nucl 23.8 2.6E+02 0.0056 20.5 5.5 51 165-229 51-101 (113)
173 PF02481 DNA_processg_A: DNA r 23.7 2.1E+02 0.0045 24.0 5.5 13 148-160 45-57 (212)
174 cd01407 SIR2-fam SIR2 family o 23.5 3.7E+02 0.008 22.4 7.0 31 149-185 146-176 (218)
175 cd01879 FeoB Ferrous iron tran 23.4 2.4E+02 0.0052 21.0 5.5 37 174-225 73-109 (158)
176 TIGR02690 resist_ArsH arsenica 23.4 2.1E+02 0.0046 24.3 5.5 54 165-229 80-140 (219)
177 PRK09563 rbgA GTPase YlqF; Rev 23.1 2.1E+02 0.0046 24.9 5.7 22 163-184 12-33 (287)
178 cd07186 CofD_like LPPG:FO 2-ph 23.0 1.6E+02 0.0034 26.5 4.7 50 166-225 174-223 (303)
179 KOG1423 Ras-like GTPase ERA [C 22.9 2.8E+02 0.0062 25.3 6.3 18 167-184 147-164 (379)
180 PRK00395 hfq RNA-binding prote 22.8 1.6E+02 0.0035 21.0 3.9 25 205-230 8-32 (79)
181 PRK06213 enoyl-CoA hydratase; 22.6 2.3E+02 0.005 23.7 5.6 63 164-229 32-102 (229)
182 cd01888 eIF2_gamma eIF2-gamma 22.5 3.8E+02 0.0083 21.7 6.8 22 164-185 95-116 (203)
183 PRK10569 NAD(P)H-dependent FMN 22.5 2.6E+02 0.0055 23.0 5.7 54 165-229 56-111 (191)
184 TIGR00962 atpA proton transloc 22.4 5.9E+02 0.013 24.5 8.8 45 138-186 154-200 (501)
185 PRK00871 glutathione-regulated 22.3 3.3E+02 0.0073 22.2 6.3 55 165-230 45-110 (176)
186 PRK07165 F0F1 ATP synthase sub 21.4 6.5E+02 0.014 24.4 8.8 44 138-185 136-181 (507)
187 TIGR03156 GTP_HflX GTP-binding 21.0 3E+02 0.0065 25.0 6.3 19 166-184 259-277 (351)
188 PF09370 TIM-br_sig_trns: TIM- 20.9 2E+02 0.0044 25.4 4.9 54 174-232 169-226 (268)
189 PRK09518 bifunctional cytidyla 20.8 3.2E+02 0.0069 27.4 6.9 46 167-225 346-391 (712)
190 COG2845 Uncharacterized protei 20.8 4.1E+02 0.0088 24.3 6.8 71 147-227 116-186 (354)
191 KOG0055 Multidrug/pheromone ex 20.7 1.3E+02 0.0029 32.2 4.3 43 167-210 1094-1136(1228)
192 TIGR01043 ATP_syn_A_arch ATP s 20.7 5.5E+02 0.012 25.3 8.2 43 138-185 215-258 (578)
193 COG0370 FeoB Fe2+ transport sy 20.7 3.9E+02 0.0086 26.7 7.3 10 174-183 80-89 (653)
194 PRK09866 hypothetical protein; 20.5 7.9E+02 0.017 25.0 9.3 44 169-225 252-297 (741)
195 CHL00071 tufA elongation facto 20.5 3.7E+02 0.0079 24.8 6.9 21 164-184 87-107 (409)
196 cd01411 SIR2H SIR2H: Uncharact 20.4 1.7E+02 0.0037 24.7 4.4 31 150-185 150-180 (225)
197 PF10994 DUF2817: Protein of u 20.4 2E+02 0.0044 26.2 5.0 34 202-235 69-104 (341)
198 TIGR01466 cobJ_cbiH precorrin- 20.2 1.9E+02 0.0041 24.3 4.6 19 164-182 13-31 (239)
199 TIGR02467 CbiE precorrin-6y C5 20.2 1.5E+02 0.0033 24.3 3.9 62 166-231 13-79 (204)
200 PRK06242 flavodoxin; Provision 20.1 2.2E+02 0.0049 21.7 4.7 12 118-129 14-25 (150)
201 COG3623 SgaU Putative L-xylulo 20.0 3.9E+02 0.0085 23.4 6.3 59 116-182 87-153 (287)
No 1
>PLN03080 Probable beta-xylosidase; Provisional
Probab=100.00 E-value=3.4e-52 Score=407.97 Aligned_cols=229 Identities=42% Similarity=0.671 Sum_probs=198.3
Q ss_pred cchhccccc-----------c---hhhhccccccc-------------ccccChHHHHhhccHHHHHHHHhcCcceeEee
Q 039625 8 TSNIGLRSL-----------V---VASIILLMMLT-------------IRKVTKQDLEDMYQPPFKSCVKESHVSSVICS 60 (238)
Q Consensus 8 ~~~~G~q~~-----------g---v~~~~khf~~~-------------ds~i~~~~L~e~~l~PF~~ai~~g~~~~VM~s 60 (238)
--|+|+|+. | |++|.|||+.. |+++++++|+|+||+||++||++|.+++||||
T Consensus 186 a~V~GlQ~~~~~~~~~~~~~~~~~V~a~~KHF~g~~~e~~~~~~r~~~~~~v~~~~L~e~yl~PF~~ai~~g~~~~VM~s 265 (779)
T PLN03080 186 EFVKGFQGGKWKKVRDDGEDGKLMLSACCKHYTAYDLEKWGNFSRYTFNAVVTEQDMEDTYQPPFKSCIQEGKASCLMCS 265 (779)
T ss_pred HHHHHhcCCCcccccccccCCCceEEEECCeeeCCCccccCCccccCccCccCHHHHHhhhhHHHHHHHHhcCCeEEEeC
Confidence 348899974 4 99999999733 45689999999999999999999987799999
Q ss_pred cccCCCcccccCHHHHHHHHHHhhhhh-----------------------------------------------------
Q 039625 61 YNRVIGIPTCADPDLLKGVIKSQWGLD----------------------------------------------------- 87 (238)
Q Consensus 61 y~~vng~pa~~s~~ll~~lLR~elgF~----------------------------------------------------- 87 (238)
||++||+|+|.|+++|+. ||+||||+
T Consensus 266 Yn~vnG~Pa~~s~~lL~~-LR~ewGF~G~VvSD~~a~~~~~~~~~~~~~~~ea~~~Al~AG~Dl~~~~~~~~~l~~av~~ 344 (779)
T PLN03080 266 YNQVNGVPACARKDLLQK-ARDEWGFQGYITSDCDAVATIFEYQTYTKSPEDAVADVLKAGMDINCGSYMLRHTQSAIEK 344 (779)
T ss_pred CcCcCCccccCCHHHHHH-HHHHhCcCCeEecchHHHHHhhhcccccCCHHHHHHHHHHcCCCcccCchhHHHHHHHHHc
Confidence 999999999999999986 99999999
Q ss_pred ---------------HHHHHHhcCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhCceeccCC-CCCCCCCCCCCcEE
Q 039625 88 ---------------WLKNMRLGFFDGDPKSQPLGNLGPSDVHTDDHKSLALDAAKQGIDSLDNK-GALPLSSNNTKNLA 151 (238)
Q Consensus 88 ---------------L~~k~~~G~~~~~~~~~p~~~~~~~~~~~~~~~~la~~~a~~sivLLkN~-~~LPL~~~~~~~i~ 151 (238)
|++|+++|+|+..+...+|.++....+++++|+++|+++|++|||||||+ ++|||++.+.++|+
T Consensus 345 G~i~e~~ID~av~RiL~~k~rlGlfd~~~~~~~~~~~~~~~v~~~~h~~lA~eaA~~siVLLKN~~~~LPL~~~~~~~Ia 424 (779)
T PLN03080 345 GKVQEEDIDRALFNLFSVQLRLGLFDGDPRNGWYGKLGPNNVCTKEHRELALEAARQGIVLLKNDKKFLPLNKSEVSSLA 424 (779)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhCCCcCCCcccccccccccccCCHHHHHHHHHHHHhCEEEEecCCCCCCCCCCCCCEEE
Confidence 67899999998533333454444567889999999999999999999999 89999976557999
Q ss_pred EEccCCCchhh---------------------------------------hHHHHHHHHHhCCCCEEEEEeeCCCCcccc
Q 039625 152 VIGSNANATNR---------------------------------------RLLIEQAAKAAGTADVVVMVVGLDQSIEAE 192 (238)
Q Consensus 152 viG~~a~~~~~---------------------------------------~~~~~~a~~~a~~aD~vIv~~g~~~~~~~e 192 (238)
||||+|+.... ...+++|+++|++||+|||++|.+...++|
T Consensus 425 ViGp~A~~~~~~~g~~~~~~~~~~t~~~gl~~~~~~~~y~~g~~~~~~~~~~~~~~A~~~A~~aD~vIv~~G~~~~~e~E 504 (779)
T PLN03080 425 IIGPMANDPYNLGGDYTGVPCQPTTLFKGLQAYVKKTSFAAGCKDVSCNSDTGFGEAIAIAKRADFVVVVAGLDLSQETE 504 (779)
T ss_pred EECCCCCCcCcCCCCCCCCCCCCCCHHHHHHHHhhcceeccCccccccCchhhHHHHHHHhccCCEEEEEeCCCcccccc
Confidence 99998854311 123567889999999999999999889999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeecCCCcC
Q 039625 193 GLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDVSFCKD 237 (238)
Q Consensus 193 g~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l~~~~~ 237 (238)
|.||.+|.||+.|.+||++|++++++|||||+++|+|++|+|+++
T Consensus 505 ~~Dr~~l~Lp~~Q~~LI~~va~~~~~pvIvVl~~g~Pv~l~~~~~ 549 (779)
T PLN03080 505 DHDRVSLLLPGKQMDLISSVASVSKKPVVLVLTGGGPVDVSFAKQ 549 (779)
T ss_pred CCCcccccCCccHHHHHHHHHhhcCCCEEEEEeCCceeeccchhc
Confidence 999999999999999999999877778999999999999999863
No 2
>PRK15098 beta-D-glucoside glucohydrolase; Provisional
Probab=100.00 E-value=2.8e-47 Score=373.69 Aligned_cols=219 Identities=26% Similarity=0.449 Sum_probs=188.8
Q ss_pred chhccccc------chhhhccccccc----------ccccChHHHHhhccHHHHHHHHhcCcceeEeecccCCCcccccC
Q 039625 9 SNIGLRSL------VVASIILLMMLT----------IRKVTKQDLEDMYQPPFKSCVKESHVSSVICSYNRVIGIPTCAD 72 (238)
Q Consensus 9 ~~~G~q~~------gv~~~~khf~~~----------ds~i~~~~L~e~~l~PF~~ai~~g~~~~VM~sy~~vng~pa~~s 72 (238)
-++|+|+. ||++|.|||+.. ++.+++++|+|+||+||++||++|. ++||||||.+||+|+|.|
T Consensus 188 ~v~GlQ~~~~~~~~gV~a~~KHFpG~g~~~~~~~~~~~~~~~~~l~e~~l~PF~~ai~ag~-~~VM~sy~~~~g~pa~~s 266 (765)
T PRK15098 188 MVKAMQGKSPADRYSVMTSVKHFALYGAVEGGRDYNTVDMSPQRMFNDYLPPYKAGLDAGS-GGVMVALNSLNGTPATSD 266 (765)
T ss_pred HHHHHcCCCCCCCCCEEEECcEEeCCCCcccCccCccCcCCHHHHHHHHHHHHHHHHHhCC-CEEEecccCcCCEeccCC
Confidence 47899987 899999999732 2246899999999999999999885 599999999999999999
Q ss_pred HHHHHHHHHHhhhhh-----------------------------------------------------------------
Q 039625 73 PDLLKGVIKSQWGLD----------------------------------------------------------------- 87 (238)
Q Consensus 73 ~~ll~~lLR~elgF~----------------------------------------------------------------- 87 (238)
+++|+++||+||||+
T Consensus 267 ~~ll~~lLR~e~GF~G~VvSD~~a~~~l~~~~~~~~~~ea~~~Al~AG~Dl~m~~~~~~~~l~~av~~G~i~~~~id~av 346 (765)
T PRK15098 267 SWLLKDLLRDQWGFKGITVSDHGAIKELIKHGVAADPEDAVRLALKSGIDMSMSDEYYSKYLPGLVKSGKVTMAELDDAV 346 (765)
T ss_pred HHHHHHHHHHhcCCCcEEEecchhHHHHHhcccCCCHHHHHHHHHHcCCCcccCchhHHHHHHHHHHcCcCCHHHHHHHH
Confidence 999999999999999
Q ss_pred ---HHHHHHhcCCCCCCCCCCCCCCC-------CCCCCCHHHHHHHHHHHHhCceeccCC-CCCCCCCCCCCcEEEEccC
Q 039625 88 ---WLKNMRLGFFDGDPKSQPLGNLG-------PSDVHTDDHKSLALDAAKQGIDSLDNK-GALPLSSNNTKNLAVIGSN 156 (238)
Q Consensus 88 ---L~~k~~~G~~~~~~~~~p~~~~~-------~~~~~~~~~~~la~~~a~~sivLLkN~-~~LPL~~~~~~~i~viG~~ 156 (238)
|++|+++|+|+ + ||.+.. ...+.+++|+++++++|++|||||||+ ++|||++. +||+|+||+
T Consensus 347 ~RIL~~k~~~glf~-~----p~~~~~~~~~~~~~~~~~~~~~~~~a~~~a~~sivLLKN~~~~LPL~~~--~~IaviG~~ 419 (765)
T PRK15098 347 RHVLNVKYDMGLFN-D----PYSHLGPKESDPVDTNAESRLHRKEAREVARESLVLLKNRLETLPLKKS--GTIAVVGPL 419 (765)
T ss_pred HHHHHHHHHhCCCC-C----CccccccccccccccccCCHHHHHHHHHHHHhcEEEEecCCCCCCCCCC--CEEEEECCC
Confidence 66889999998 3 442211 123467899999999999999999999 89999864 799999997
Q ss_pred CCchhh---------------------------------------------------------------hHHHHHHHHHh
Q 039625 157 ANATNR---------------------------------------------------------------RLLIEQAAKAA 173 (238)
Q Consensus 157 a~~~~~---------------------------------------------------------------~~~~~~a~~~a 173 (238)
++.... ...+++|+++|
T Consensus 420 a~~~~~~~G~~s~~~~~~~~vt~~~gl~~~~~~~~~v~y~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~A 499 (765)
T PRK15098 420 ADSQRDVMGSWSAAGVADQSVTVLQGIKNAVGDKAKVLYAKGANVTDDKGIIDFLNQYEEAVKVDPRSPQAMIDEAVQAA 499 (765)
T ss_pred cccccccCCCccccCccCCCCCHHHHHHHhhcCCceEEEecccccccCcccchhhhccccccccccccchhhHHHHHHHH
Confidence 754210 01356788999
Q ss_pred CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeecCCCc
Q 039625 174 GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDVSFCK 236 (238)
Q Consensus 174 ~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l~~~~ 236 (238)
++||+|||++|....+++||.||.+|.||+.|.+||+++++ .++|||||+++|+||+|+|+.
T Consensus 500 ~~aD~vIv~vg~~~~~~~E~~Dr~~l~Lp~~Q~~Li~~v~~-~~~~vVvVl~~g~P~~l~~~~ 561 (765)
T PRK15098 500 KQADVVVAVVGEAQGMAHEASSRTDITIPQSQRDLIAALKA-TGKPLVLVLMNGRPLALVKED 561 (765)
T ss_pred hcCCEEEEEEcCCCCccccCCCcccccCCHHHHHHHHHHHH-hCcCEEEEEeCCceeeccchh
Confidence 99999999999988899999999999999999999999987 567899999999999999985
No 3
>COG1472 BglX Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]
Probab=99.95 E-value=7.5e-28 Score=220.54 Aligned_cols=137 Identities=29% Similarity=0.559 Sum_probs=118.1
Q ss_pred chhcccccchhhhccccc-----ccccc-----cChHHHHhhccHHHHHHHHhcC--cceeEeecccCCCcccccCHHHH
Q 039625 9 SNIGLRSLVVASIILLMM-----LTIRK-----VTKQDLEDMYQPPFKSCVKESH--VSSVICSYNRVIGIPTCADPDLL 76 (238)
Q Consensus 9 ~~~G~q~~gv~~~~khf~-----~~ds~-----i~~~~L~e~~l~PF~~ai~~g~--~~~VM~sy~~vng~pa~~s~~ll 76 (238)
.++|||..||.+|.|||| ..||| ++++.|+|+|++||+.+++.|. +.++|++||++||.|||.|+++|
T Consensus 152 ~i~Glq~~gv~at~KHFpGhG~~~~dsh~~~~~v~~~~L~e~~~~~f~~~~~~~~~~~mtahv~y~~id~~Pat~s~~ll 231 (397)
T COG1472 152 FIKGLQGAGVAATIKHFPGHGAVEGDSHYGLLPIDPRALRELYLPPFQPAIALGDDAAMTAHVAYPKIDGTPATLSRKLL 231 (397)
T ss_pred HHHHHhhCCceeeeccccCCCCCcCCcccccCCCChHHHHHhhccchHHHHHhccccceEEeeeccCCCCCcccCCHHHH
Confidence 478999999999999997 34555 5899999999999999999994 56999999999999999999999
Q ss_pred HHHHHHhhhhh------------------------------------------------------------------HHH
Q 039625 77 KGVIKSQWGLD------------------------------------------------------------------WLK 90 (238)
Q Consensus 77 ~~lLR~elgF~------------------------------------------------------------------L~~ 90 (238)
+++||++|||+ |++
T Consensus 232 ~diLR~~~GF~G~ViSD~~~m~~~~~~~g~~~d~~~~al~AG~Di~l~~~~~~~~~~~~~~~~~~~~~~i~~~v~Ril~~ 311 (397)
T COG1472 232 TDILRDEWGFDGVVISDDLSMKAIAAAHGSAADRAEAALKAGVDIVLVCNELYEAYLVVLELVGLSEARLDDAVRRILRV 311 (397)
T ss_pred HHHHHhccCCCeEEEeecchhHHHHHhccCHHHHHHHHHhcCCCEEecCCchhHHHHHHHHhcCCcHHHHHHHHHHHHHH
Confidence 99999999999 345
Q ss_pred HHHhcCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhCceeccCC-CCCCCCCCCCCcEEEEccCCCch
Q 039625 91 NMRLGFFDGDPKSQPLGNLGPSDVHTDDHKSLALDAAKQGIDSLDNK-GALPLSSNNTKNLAVIGSNANAT 160 (238)
Q Consensus 91 k~~~G~~~~~~~~~p~~~~~~~~~~~~~~~~la~~~a~~sivLLkN~-~~LPL~~~~~~~i~viG~~a~~~ 160 (238)
|++.|+|+ + ||. .+|++++++++++|+|||||+ .+||++ ....+|+++||++...
T Consensus 312 k~~~~~f~-~----~~~---------~~~~~~a~~~~~~~~~ll~n~~~~~p~~-~~~~~i~v~g~~~~~~ 367 (397)
T COG1472 312 KFKLGLFE-N----PYS---------SEHRALAREAARESIVLLKNDGGLLPLK-KSAKRIAVIGPYADDG 367 (397)
T ss_pred HHHhcccc-C----CCc---------hhhHHHHHHHHHHHHHHHHhccCCCccc-cccCceEEEccccccC
Confidence 56666666 3 222 179999999999999999999 899999 4456999999987744
No 4
>PF00933 Glyco_hydro_3: Glycosyl hydrolase family 3 N terminal domain; InterPro: IPR001764 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 3 GH3 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-xylosidase (3.2.1.37 from EC); N-acetyl beta-glucosaminidase (3.2.1.52 from EC); glucan beta-1,3-glucosidase (3.2.1.58 from EC); cellodextrinase (3.2.1.74 from EC); exo-1,3-1,4-glucanase (3.2.1 from EC). These enzymes are two-domain globular proteins that are N-glycosylated at three sites []. This domain is often N-terminal to the glycoside hydrolase family 3, C-terminal domain IPR002772 from INTERPRO.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1Y65_A 2OXN_A 3GS6_A 1TR9_A 3GSM_A 3UT0_B 3RRX_A 3USZ_A 2X42_A 2X40_A ....
Probab=99.78 E-value=2.7e-20 Score=165.31 Aligned_cols=79 Identities=23% Similarity=0.449 Sum_probs=64.7
Q ss_pred cchhcccccchhhhcccccc---cccc-------cChHHHHhhccHHHHHHH-HhcCcceeEeecccCCCcccccCHHHH
Q 039625 8 TSNIGLRSLVVASIILLMML---TIRK-------VTKQDLEDMYQPPFKSCV-KESHVSSVICSYNRVIGIPTCADPDLL 76 (238)
Q Consensus 8 ~~~~G~q~~gv~~~~khf~~---~ds~-------i~~~~L~e~~l~PF~~ai-~~g~~~~VM~sy~~vng~pa~~s~~ll 76 (238)
.-++|+|..||++|.||||. .|+| ++.++|+|.||+||+.+| ++| +.+|||||+.+||+|+|.|+++|
T Consensus 139 a~v~G~q~~gv~~~~KHFpG~~~~d~~~~~~~~~~~~~~l~~~~l~pF~~~i~~ag-~~~VM~sy~~id~~pas~s~~~l 217 (299)
T PF00933_consen 139 AFVRGLQGAGVAATAKHFPGHGAQDSHRDLPSVDVSERELREIDLPPFRAAIKDAG-ADAVMTSYPAIDGTPASLSPKIL 217 (299)
T ss_dssp HHHHHHHCTTSEEEEEEETTGGCSCTTTTTEEEE--HHHHHHTTSHHHHHHHHHTT--SEEEE-STCCTTEEGGG-HHHH
T ss_pred HHhcccccccccccccccccccccccccccceecCCcccccchhcccchhcccccc-cceeeeeccccCCccchhhhccc
Confidence 46899999999999999985 2333 689999999999999999 666 46999999999999999999999
Q ss_pred HHHHHHhhhhh
Q 039625 77 KGVIKSQWGLD 87 (238)
Q Consensus 77 ~~lLR~elgF~ 87 (238)
+++||+||||+
T Consensus 218 ~~lLR~~lgf~ 228 (299)
T PF00933_consen 218 TDLLRNELGFD 228 (299)
T ss_dssp CCCCCCCS---
T ss_pred hhhCcCcccCC
Confidence 99999999998
No 5
>PRK05337 beta-hexosaminidase; Provisional
Probab=99.78 E-value=1.5e-19 Score=162.69 Aligned_cols=78 Identities=15% Similarity=0.200 Sum_probs=70.3
Q ss_pred chhcccccchhhhccccc-----cccccc-------ChHHHHhhccHHHHHHHHhcCcceeEee---cccCCCcccccCH
Q 039625 9 SNIGLRSLVVASIILLMM-----LTIRKV-------TKQDLEDMYQPPFKSCVKESHVSSVICS---YNRVIGIPTCADP 73 (238)
Q Consensus 9 ~~~G~q~~gv~~~~khf~-----~~ds~i-------~~~~L~e~~l~PF~~ai~~g~~~~VM~s---y~~vng~pa~~s~ 73 (238)
-++|+|+.||++|.|||| ..|+|. +.++|++.||+||+.+|++|. .+|||| |+.+|+.|+|.|+
T Consensus 151 ~i~Glq~~gv~~~~KHFpG~G~~~~dsh~~~~~~~~~~~el~~~~l~PF~~ai~~g~-~~vM~aHv~y~~id~~Pa~~S~ 229 (337)
T PRK05337 151 FIDGMHAAGMAATGKHFPGHGAVEADSHVETPVDERPLEEIRAEDMAPFRALIAAGL-DAVMPAHVIYPQVDPRPAGFSR 229 (337)
T ss_pred HHHHHHHCCCEEEecccCCCCCCcCCCCCCCCCCCCCHHHHHhhhHHHHHHHHhcCC-CEEEeCceeccCCCCCCCcCCH
Confidence 578999999999999998 346663 446888899999999999995 699999 8999999999999
Q ss_pred HHHHHHHHHhhhhh
Q 039625 74 DLLKGVIKSQWGLD 87 (238)
Q Consensus 74 ~ll~~lLR~elgF~ 87 (238)
++|+++||+||||+
T Consensus 230 ~~l~~lLR~elGF~ 243 (337)
T PRK05337 230 YWLQDILRQELGFD 243 (337)
T ss_pred HHHHHHHHHhcCCC
Confidence 99999999999998
No 6
>PF01915 Glyco_hydro_3_C: Glycosyl hydrolase family 3 C-terminal domain; InterPro: IPR002772 Glycoside hydrolase family 3 GH3 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-xylosidase (3.2.1.37 from EC); N-acetyl beta-glucosaminidase (3.2.1.52 from EC); glucan beta-1,3-glucosidase (3.2.1.58 from EC); cellodextrinase(3.2.1.74 from EC); exo-1,3-1,4-glucanase (3.2.1 from EC). These enzymes are two-domain globular proteins that are N-glycosylated at three sites []. This domain is often C-terminal to the glycoside hydrolase family 3, N-terminal domain IPR001764 from INTERPRO.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3LK6_D 3NVD_B 3BMX_B 3ABZ_D 3AC0_D 2X40_A 2X41_A 2X42_A 1J8V_A 1IEX_A ....
Probab=99.70 E-value=2.7e-17 Score=140.36 Aligned_cols=101 Identities=36% Similarity=0.463 Sum_probs=78.1
Q ss_pred ceeccCC-CCCCCCCCCCCcEEEEccCCCchhh----------------------------------------hHHHHHH
Q 039625 131 IDSLDNK-GALPLSSNNTKNLAVIGSNANATNR----------------------------------------RLLIEQA 169 (238)
Q Consensus 131 ivLLkN~-~~LPL~~~~~~~i~viG~~a~~~~~----------------------------------------~~~~~~a 169 (238)
||||||+ ++|||++.+. +|+|+|+.+..... ...+.++
T Consensus 1 ivLLKN~~~~LPL~~~~~-~v~viG~~~~~~~~~g~g~~~~~~~~~~t~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (227)
T PF01915_consen 1 IVLLKNEGNLLPLKPDKK-KVAVIGPNADNPVAQGGGSGNVNPGYGVTPLDALKQRFGNAGVVVPEGGDAVDDDEGIDEA 79 (227)
T ss_dssp -EEEEEGCG--SB-TTST-EEEEESTTTTSHHHCHBSTTSSTCSTHBHHHHHHHHHHHTTSEEEECCCCCCCCCSCHHHH
T ss_pred CEEEEeCCCCCCCCCCCC-EEEEEcCccccccccCCcccccCccccccHHhhhccccCCCceEEeeeccccccccchHHH
Confidence 7999999 7999998732 99999999886311 1345788
Q ss_pred HHHhCCCCEEEEEeeCCCCccccC--------CCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeecCCCc
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEG--------LDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDVSFCK 236 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg--------~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l~~~~ 236 (238)
++.++++|++|+++|. .++|| .||.++.+|+.|.+||+++++++ +|+|||+++|+||++.|+.
T Consensus 80 ~~~~~~aD~vIv~~~~---~~~e~~~~~~~~~~~~~~~~l~~~q~~li~~v~~~~-~~~Ivvv~~~~P~~l~~~~ 150 (227)
T PF01915_consen 80 VAAAKEADVVIVFVGR---PSGEGNDNNTEGESDRSDLALPANQQELIKAVAAAG-KKVIVVVNSGNPYDLDPWE 150 (227)
T ss_dssp HHHHHCSSEEEEEEET---TSBCCCSS-EETTGSCSSTBCCCHHHHHHHHHHHHH-SCEEEEEE-SSGGCGHCCH
T ss_pred HHHhhcCCEEEEeccc---cccccccccccccCCcccccchhhHHHHHHHHHHhc-CCeEEEEecCCccccHHHH
Confidence 8999999999999992 33444 59999999999999999999854 6799999999999995543
No 7
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=93.33 E-value=1.2 Score=41.83 Aligned_cols=38 Identities=16% Similarity=0.138 Sum_probs=28.6
Q ss_pred HHHhcCcceeEeecccCCCc-----ccccCHHHHHHHHHHhhhh
Q 039625 48 CVKESHVSSVICSYNRVIGI-----PTCADPDLLKGVIKSQWGL 86 (238)
Q Consensus 48 ai~~g~~~~VM~sy~~vng~-----pa~~s~~ll~~lLR~elgF 86 (238)
.|+++.+ .+|.|.+++.|+ .|+.++-+++.+|+.=+..
T Consensus 60 ~iDe~lv-l~f~aP~SFTGEDvvEi~~HGg~~v~~~iL~~~l~~ 102 (454)
T COG0486 60 IIDEVLV-LYFKAPNSFTGEDVVEIQCHGGPVVVNLILELLLKL 102 (454)
T ss_pred EeeeeeE-EEEeCCCCcccccEEEEEcCCCHHHHHHHHHHHHHc
Confidence 5677765 888888888774 5788888888888865544
No 8
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=92.70 E-value=0.67 Score=43.48 Aligned_cols=101 Identities=23% Similarity=0.170 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHhCceeccCCCCCCCCCCCCCcEEEEccCCCchhh---------------------------hHHHHHH
Q 039625 117 DDHKSLALDAAKQGIDSLDNKGALPLSSNNTKNLAVIGSNANATNR---------------------------RLLIEQA 169 (238)
Q Consensus 117 ~~~~~la~~~a~~sivLLkN~~~LPL~~~~~~~i~viG~~a~~~~~---------------------------~~~~~~a 169 (238)
.+-.++-++++.||+-=.....-||.-+ ++|+||.+....... ...+.+|
T Consensus 102 ~~~~~lk~~L~~eGlfd~~~k~~lP~~p---~~i~vits~~~aa~~D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~a 178 (432)
T TIGR00237 102 LAYEQLKEKLAAEGLFDQEYKKPLPHFP---KRVGVITSQTGAALADILHILKRRDPSLKVVIYPTLVQGEGAVQSIVES 178 (432)
T ss_pred HHHHHHHHHHHHCCCCCchhcCCCCCCC---CEEEEEeCCccHHHHHHHHHHHhhCCCceEEEecccccCccHHHHHHHH
Confidence 4557788888888854322223355443 789988654332211 3345555
Q ss_pred HHHhC---CCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAG---TADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~---~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..+. +.|++|++=|. +...+|. +-+...+.+++++ ++.|||.- .|.=.|.
T Consensus 179 l~~~~~~~~~dviii~RGG--------Gs~eDL~-~Fn~e~~~rai~~-~~~Pvis~--iGHe~D~ 232 (432)
T TIGR00237 179 IELANTKNECDVLIVGRGG--------GSLEDLW-SFNDEKVARAIFL-SKIPIISA--VGHETDF 232 (432)
T ss_pred HHHhhcCCCCCEEEEecCC--------CCHHHhh-hcCcHHHHHHHHc-CCCCEEEe--cCcCCCc
Confidence 55443 37999988762 2223332 2346789999986 88998643 3554443
No 9
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=92.43 E-value=0.71 Score=43.22 Aligned_cols=101 Identities=24% Similarity=0.238 Sum_probs=61.1
Q ss_pred HHHHHHHHHHHHhCceeccCCCCCCCCCCCCCcEEEEccCCCchhh---------------------------hHHHHHH
Q 039625 117 DDHKSLALDAAKQGIDSLDNKGALPLSSNNTKNLAVIGSNANATNR---------------------------RLLIEQA 169 (238)
Q Consensus 117 ~~~~~la~~~a~~sivLLkN~~~LPL~~~~~~~i~viG~~a~~~~~---------------------------~~~~~~a 169 (238)
.+-.++-+++.+||+-=. | .-+||..- .++|+||-+....... ...+-+|
T Consensus 108 ~~~~~lk~~L~~eGlfd~-~-~k~~lP~~-p~~I~viTs~~gAa~~D~~~~~~~r~p~~~~~~~~~~vQG~~A~~~i~~a 184 (438)
T PRK00286 108 AAFEQLKEKLAAEGLFDP-E-RKKPLPFF-PKRIGVITSPTGAAIRDILTVLRRRFPLVEVIIYPTLVQGEGAAASIVAA 184 (438)
T ss_pred HHHHHHHHHHHHCCCCCh-h-hcCCCCCC-CCEEEEEeCCccHHHHHHHHHHHhcCCCCeEEEecCcCcCccHHHHHHHH
Confidence 455778888999995322 2 23444332 2799988764433211 3456667
Q ss_pred HHHhCC--CCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGT--ADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~--aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..+.. +|++|++=| |+...+|. +-+...+++++++ ++.|||.- .|.=.|.
T Consensus 185 l~~~~~~~~Dviii~RG--------GGS~eDL~-~Fn~e~v~~ai~~-~~~Pvis~--IGHE~D~ 237 (438)
T PRK00286 185 IERANARGEDVLIVARG--------GGSLEDLW-AFNDEAVARAIAA-SRIPVISA--VGHETDF 237 (438)
T ss_pred HHHhcCCCCCEEEEecC--------CCCHHHhh-ccCcHHHHHHHHc-CCCCEEEe--ccCCCCc
Confidence 766655 699998866 22223333 2347789999997 88998643 3554443
No 10
>COG1160 Predicted GTPases [General function prediction only]
Probab=90.74 E-value=1.5 Score=41.10 Aligned_cols=46 Identities=33% Similarity=0.320 Sum_probs=31.9
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
+.+..++.+||++|+++-.. -.+.+...++.+-|.. .++|+|+|++
T Consensus 75 ~Qa~~Ai~eADvilfvVD~~------------~Git~~D~~ia~~Lr~-~~kpviLvvN 120 (444)
T COG1160 75 EQALIAIEEADVILFVVDGR------------EGITPADEEIAKILRR-SKKPVILVVN 120 (444)
T ss_pred HHHHHHHHhCCEEEEEEeCC------------CCCCHHHHHHHHHHHh-cCCCEEEEEE
Confidence 56777899999999998521 2233444555566663 6789999987
No 11
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=87.10 E-value=2.4 Score=37.78 Aligned_cols=56 Identities=23% Similarity=0.252 Sum_probs=34.3
Q ss_pred HHHHHHHHHhC------CCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceee
Q 039625 164 LLIEQAAKAAG------TADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVD 231 (238)
Q Consensus 164 ~~~~~a~~~a~------~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~ 231 (238)
..+-+|++.+. .+|++|++=| |+...+|. +-+...+.+++++ ++.|||.- .|.=.|
T Consensus 58 ~~I~~al~~~~~~~~~~~~Dviii~RG--------GGs~eDL~-~FN~e~varai~~-~~~Pvisa--IGHe~D 119 (319)
T PF02601_consen 58 ASIVSALRKANEMGQADDFDVIIIIRG--------GGSIEDLW-AFNDEEVARAIAA-SPIPVISA--IGHETD 119 (319)
T ss_pred HHHHHHHHHHHhccccccccEEEEecC--------CCChHHhc-ccChHHHHHHHHh-CCCCEEEe--cCCCCC
Confidence 34555655553 5899998866 22222333 2357789999997 88898643 354443
No 12
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=85.26 E-value=4.6 Score=32.55 Aligned_cols=38 Identities=16% Similarity=0.251 Sum_probs=27.5
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..+.|++|+++-. .+ ......|..++.+ .++|+|+|++
T Consensus 76 ~~~~D~ii~VvDa-----------~~---l~r~l~l~~ql~e-~g~P~vvvlN 113 (156)
T PF02421_consen 76 SEKPDLIIVVVDA-----------TN---LERNLYLTLQLLE-LGIPVVVVLN 113 (156)
T ss_dssp HTSSSEEEEEEEG-----------GG---HHHHHHHHHHHHH-TTSSEEEEEE
T ss_pred hcCCCEEEEECCC-----------CC---HHHHHHHHHHHHH-cCCCEEEEEe
Confidence 4789999999842 12 2345567788886 7899998886
No 13
>TIGR01756 LDH_protist lactate dehydrogenase. This model represents a family of protist lactate dehydrogenases which have aparrently evolved from a recent protist malate dehydrogenase ancestor. Lactate dehydrogenase converts the hydroxyl at C-2 of lactate to a carbonyl in the product, pyruvate. The preference of this enzyme for NAD or NADP has not been determined. A critical residue in malate dehydrogenase, arginine-91 (T. vaginalis numbering) has been mutated to a leucine, eliminating the positive charge which complemeted the carboxylate in malate which is absent in lactate. Several other more subtle changes are proposed to make the active site smaller to accomadate the less bulky lactate molecule.
Probab=80.69 E-value=1.1 Score=40.24 Aligned_cols=58 Identities=12% Similarity=0.115 Sum_probs=32.3
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..+++|+||++.|.+. .+|.+|.++--... -++++.++.+. .+|-++|+..++|+++
T Consensus 56 ~~~~daDiVVitaG~~~---k~g~tR~dll~~N~~I~~~i~~~i~~~-a~~~~ivivvtNPvDv 115 (313)
T TIGR01756 56 EAFKDIDCAFLVASVPL---KPGEVRADLLTKNTPIFKATGEALSEY-AKPTVKVLVIGNPVNT 115 (313)
T ss_pred HHhCCCCEEEECCCCCC---CcCCCHHHHHHHHHHHHHHHHHHHHhh-CCCCeEEEEeCCchHH
Confidence 35679999999998642 34556643221111 12344556553 3342334445799975
No 14
>TIGR01759 MalateDH-SF1 malate dehydrogenase. This model represents a family of malate dehydrogenases in bacteria and eukaryotes which utilize either NAD or NADP depending on the species and context. MDH interconverts malate and oxaloacetate and is a part of the citric acid cycle as well as the C4 cycle in certain photosynthetic organisms.
Probab=80.40 E-value=1.7 Score=39.28 Aligned_cols=58 Identities=12% Similarity=0.208 Sum_probs=34.2
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||+||++.|.+. .+|.+|.++--... -.+++.++.+.+++..++++. ++|+++
T Consensus 75 ~~~~daDvVVitAG~~~---k~g~tR~dll~~Na~i~~~i~~~i~~~~~~~~iiivv-sNPvDv 134 (323)
T TIGR01759 75 EAFKDVDAALLVGAFPR---KPGMERADLLSKNGKIFKEQGKALNKVAKKDVKVLVV-GNPANT 134 (323)
T ss_pred HHhCCCCEEEEeCCCCC---CCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEEe-CCcHHH
Confidence 45779999999999652 45656643322111 124555666644424554444 799975
No 15
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=78.79 E-value=8.6 Score=36.15 Aligned_cols=100 Identities=25% Similarity=0.268 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHhCceeccCCCCCCCCCCCCCcEEEEccCCCchhh---------------------------hHHHHHH
Q 039625 117 DDHKSLALDAAKQGIDSLDNKGALPLSSNNTKNLAVIGSNANATNR---------------------------RLLIEQA 169 (238)
Q Consensus 117 ~~~~~la~~~a~~sivLLkN~~~LPL~~~~~~~i~viG~~a~~~~~---------------------------~~~~~~a 169 (238)
....++-.+++.||+-=-++..-||--+ ++|+||.+-...... ...+.++
T Consensus 108 ~~~E~lK~kL~aEGlFd~~~KkpLP~~p---~~IGVITS~tgAairDIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~a 184 (440)
T COG1570 108 LAFEQLKAKLAAEGLFDPERKKPLPFFP---KKIGVITSPTGAALRDILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEA 184 (440)
T ss_pred HHHHHHHHHHHhCCCcChhhcCCCCCCC---CeEEEEcCCchHHHHHHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHH
Confidence 4557777888999955433334455443 789988764332111 3445566
Q ss_pred HHHh---CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceee
Q 039625 170 AKAA---GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVD 231 (238)
Q Consensus 170 ~~~a---~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~ 231 (238)
+..+ .+.|++||+=|.. ...+|. .-+...+++++++ +..|||-- .|.=.|
T Consensus 185 I~~an~~~~~DvlIVaRGGG--------SiEDLW-~FNdE~vaRAi~~-s~iPvISA--VGHEtD 237 (440)
T COG1570 185 IERANQRGDVDVLIVARGGG--------SIEDLW-AFNDEIVARAIAA-SRIPVISA--VGHETD 237 (440)
T ss_pred HHHhhccCCCCEEEEecCcc--------hHHHHh-ccChHHHHHHHHh-CCCCeEee--cccCCC
Confidence 5544 4599999887632 222221 1246678899986 78888633 354433
No 16
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=77.65 E-value=12 Score=30.32 Aligned_cols=41 Identities=20% Similarity=0.257 Sum_probs=28.6
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
...+|+++|++|.+ .|..++.+.....+.+ +++..|+.++.
T Consensus 97 ~~~pdiv~vglG~P-----------------kQE~~~~~~~~~l~~~--v~~~vG~~~d~ 137 (171)
T cd06533 97 ASGADILFVGLGAP-----------------KQELWIARHKDRLPVP--VAIGVGGSFDF 137 (171)
T ss_pred HcCCCEEEEECCCC-----------------HHHHHHHHHHHHCCCC--EEEEeceeeEe
Confidence 34799999999844 3888898888755433 34556777664
No 17
>PLN00135 malate dehydrogenase
Probab=74.49 E-value=3.1 Score=37.37 Aligned_cols=59 Identities=15% Similarity=0.287 Sum_probs=33.4
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..++||+||++.|.+. .+|.+|.++-.... -.++++++.+..+...++++ .++|+++
T Consensus 53 y~~~~daDiVVitAG~~~---k~g~sR~dll~~N~~I~~~i~~~i~~~~~p~aiviv-vsNPvDv 113 (309)
T PLN00135 53 VEACKGVNIAVMVGGFPR---KEGMERKDVMSKNVSIYKSQASALEKHAAPDCKVLV-VANPANT 113 (309)
T ss_pred HHHhCCCCEEEEeCCCCC---CCCCcHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEE-eCCcHHH
Confidence 345679999999999653 34556543221111 12445566652233355444 4799975
No 18
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=73.90 E-value=13 Score=30.18 Aligned_cols=40 Identities=18% Similarity=0.302 Sum_probs=27.4
Q ss_pred CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 174 GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 174 ~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..+|++++++|.+ .|..++.......+.+ +++..|+.+++
T Consensus 100 ~~pdiv~vglG~P-----------------kQE~~~~~~~~~l~~~--v~i~vG~~~d~ 139 (172)
T PF03808_consen 100 SGPDIVFVGLGAP-----------------KQERWIARHRQRLPAG--VIIGVGGAFDF 139 (172)
T ss_pred cCCCEEEEECCCC-----------------HHHHHHHHHHHHCCCC--EEEEECchhhh
Confidence 4788888888743 3888888887766544 34556776654
No 19
>PRK05442 malate dehydrogenase; Provisional
Probab=72.34 E-value=3.4 Score=37.32 Aligned_cols=58 Identities=12% Similarity=0.152 Sum_probs=31.9
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH--HHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ--EKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q--~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||+||++.|.+ ..+|.+|.++--.... .++.+++.+..+...+++ ..++|+++
T Consensus 76 ~~~~daDiVVitaG~~---~k~g~tR~dll~~Na~i~~~i~~~i~~~~~~~~iii-vvsNPvDv 135 (326)
T PRK05442 76 VAFKDADVALLVGARP---RGPGMERKDLLEANGAIFTAQGKALNEVAARDVKVL-VVGNPANT 135 (326)
T ss_pred HHhCCCCEEEEeCCCC---CCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCeEEE-EeCCchHH
Confidence 5577999999999854 2345566432211111 234445555232234434 44799975
No 20
>PF00056 Ldh_1_N: lactate/malate dehydrogenase, NAD binding domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR001236 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the N-terminal, and is thought to be a Rossmann NAD-binding fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IB6_B 3HHP_C 1IE3_A 2PWZ_A 1EMD_A 2CMD_A 1EZ4_D 9LDT_B 9LDB_B 2D4A_C ....
Probab=72.17 E-value=0.85 Score=35.93 Aligned_cols=54 Identities=28% Similarity=0.457 Sum_probs=29.9
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHH----HHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEK----LVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~----li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..+++|+||++.|.+. .+|.+|..+- ....+ +.+++.+.+++ .++++ ..+|+++
T Consensus 66 ~~~~aDivvitag~~~---~~g~sR~~ll--~~N~~i~~~~~~~i~~~~p~-~~viv-vtNPvd~ 123 (141)
T PF00056_consen 66 ALKDADIVVITAGVPR---KPGMSRLDLL--EANAKIVKEIAKKIAKYAPD-AIVIV-VTNPVDV 123 (141)
T ss_dssp GGTTESEEEETTSTSS---STTSSHHHHH--HHHHHHHHHHHHHHHHHSTT-SEEEE--SSSHHH
T ss_pred ccccccEEEEeccccc---cccccHHHHH--HHhHhHHHHHHHHHHHhCCc-cEEEE-eCCcHHH
Confidence 4679999999998542 3454543221 22223 34455554544 33333 4899875
No 21
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=72.09 E-value=13 Score=24.99 Aligned_cols=23 Identities=22% Similarity=0.167 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHhhC-CCceEEEEe
Q 039625 203 GYQEKLVMEVANAT-KGTMILVVM 225 (238)
Q Consensus 203 ~~q~~li~~l~~~~-~~~vVvV~~ 225 (238)
..|..|.+++.... ++|+++|++
T Consensus 32 e~Q~~L~~~ik~~F~~~P~i~V~n 55 (58)
T PF06858_consen 32 EEQLSLFKEIKPLFPNKPVIVVLN 55 (58)
T ss_dssp HHHHHHHHHHHHHTTTS-EEEEE-
T ss_pred HHHHHHHHHHHHHcCCCCEEEEEe
Confidence 56889999998876 789987764
No 22
>cd01338 MDH_choloroplast_like Chloroplast-like malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are bacterial MDHs, and plant MDHs localized to the choloroplasts. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=71.64 E-value=3.3 Score=37.33 Aligned_cols=57 Identities=11% Similarity=0.148 Sum_probs=32.8
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHH----HHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQE----KLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~----~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..++||+||++.|.+. .+|.+|.++ -..-. ++..++.+..++..++ ++.++|+++
T Consensus 73 ~~~~~daDivvitaG~~~---k~g~tR~dl--l~~N~~i~~~i~~~i~~~~~~~~ii-ivvsNPvD~ 133 (322)
T cd01338 73 NVAFKDADWALLVGAKPR---GPGMERADL--LKANGKIFTAQGKALNDVASRDVKV-LVVGNPCNT 133 (322)
T ss_pred HHHhCCCCEEEEeCCCCC---CCCCcHHHH--HHHHHHHHHHHHHHHHhhCCCCeEE-EEecCcHHH
Confidence 345679999999998653 345566433 22222 3444555533223544 445799975
No 23
>PRK15494 era GTPase Era; Provisional
Probab=70.38 E-value=43 Score=30.22 Aligned_cols=44 Identities=11% Similarity=0.206 Sum_probs=25.0
Q ss_pred HHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 169 AAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 169 a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
+...+..+|++|+++-... .+......+++.+.. .+.|+|+|++
T Consensus 125 ~~~~l~~aDvil~VvD~~~------------s~~~~~~~il~~l~~-~~~p~IlViN 168 (339)
T PRK15494 125 AWSSLHSADLVLLIIDSLK------------SFDDITHNILDKLRS-LNIVPIFLLN 168 (339)
T ss_pred HHHHhhhCCEEEEEEECCC------------CCCHHHHHHHHHHHh-cCCCEEEEEE
Confidence 4455789999999874211 112223456666654 4556665543
No 24
>PLN00112 malate dehydrogenase (NADP); Provisional
Probab=68.99 E-value=3.6 Score=38.83 Aligned_cols=58 Identities=9% Similarity=0.135 Sum_probs=32.2
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH--HHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ--EKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q--~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||+||+..|.+ .++|.+|.++--...+ .++.+++.+..+...+ |++.++|+++
T Consensus 172 e~~kdaDiVVitAG~p---rkpG~tR~dLl~~N~~I~k~i~~~I~~~a~p~~i-vIVVsNPvDv 231 (444)
T PLN00112 172 EVFQDAEWALLIGAKP---RGPGMERADLLDINGQIFAEQGKALNEVASRNVK-VIVVGNPCNT 231 (444)
T ss_pred HHhCcCCEEEECCCCC---CCCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCeE-EEEcCCcHHH
Confidence 4567999999999864 2456666533211111 1344455541123354 4445799875
No 25
>COG1159 Era GTPase [General function prediction only]
Probab=68.98 E-value=35 Score=30.50 Aligned_cols=48 Identities=27% Similarity=0.331 Sum_probs=30.4
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
....|.+..+++|++++++-.... +..+...+++.+.. .+.|+|++++
T Consensus 75 m~~~a~~sl~dvDlilfvvd~~~~------------~~~~d~~il~~lk~-~~~pvil~iN 122 (298)
T COG1159 75 MNKAARSALKDVDLILFVVDADEG------------WGPGDEFILEQLKK-TKTPVILVVN 122 (298)
T ss_pred HHHHHHHHhccCcEEEEEEecccc------------CCccHHHHHHHHhh-cCCCeEEEEE
Confidence 346677889999999999853211 11123445566654 4568887776
No 26
>TIGR01757 Malate-DH_plant malate dehydrogenase, NADP-dependent. This model represents the NADP-dependent malate dehydrogenase found in plants, mosses and green algae and localized to the chloroplast. Malate dehydrogenase converts oxaloacetate into malate, a critical step in the C4 cycle which allows circumvention of the effects of photorespiration. Malate is subsequenctly transported from the chloroplast to the cytoplasm (and then to the bundle sheath cells in C4 plants). The plant and moss enzymes are light regulated via cysteine disulfide bonds. The enzyme from Sorghum has been crystallized.
Probab=68.57 E-value=3.8 Score=37.97 Aligned_cols=56 Identities=9% Similarity=0.169 Sum_probs=31.1
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHH----HHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEK----LVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~----li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..+++|+||++.|.+. .+|.+|.++- ..-.+ +..++.+..++..+ +++.++|+++
T Consensus 116 ~~~kdaDIVVitAG~pr---kpg~tR~dll--~~N~~I~k~i~~~I~~~a~~~~i-viVVsNPvDv 175 (387)
T TIGR01757 116 EVFEDADWALLIGAKPR---GPGMERADLL--DINGQIFADQGKALNAVASKNCK-VLVVGNPCNT 175 (387)
T ss_pred HHhCCCCEEEECCCCCC---CCCCCHHHHH--HHHHHHHHHHHHHHHHhCCCCeE-EEEcCCcHHH
Confidence 44679999999998652 3455554322 22223 33445442223344 4445799875
No 27
>cd00300 LDH_like L-lactate dehydrogenase-like enzymes. Members of this subfamily are tetrameric NAD-dependent 2-hydroxycarboxylate dehydrogenases including LDHs, L-2-hydroxyisocaproate dehydrogenases (L-HicDH), and LDH-like malate dehydrogenases (MDH). Dehydrogenases catalyze the conversion of carbonyl compounds to alcohols or amino acids. LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Vertebrate LDHs are non-allosteric, but some bacterial LDHs are activated by an allosteric effector such as fructose-1,6-bisphosphate. L-HicDH catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of prot
Probab=67.56 E-value=4.4 Score=35.98 Aligned_cols=57 Identities=19% Similarity=0.331 Sum_probs=33.7
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||++|++.|.+. .+|.+|.++..-.- -.++.+++.+.++ ..+ |++.++|.++
T Consensus 62 ~~l~~aDiVIitag~p~---~~~~~R~~l~~~n~~i~~~~~~~i~~~~p-~~~-viv~sNP~d~ 120 (300)
T cd00300 62 ADAADADIVVITAGAPR---KPGETRLDLINRNAPILRSVITNLKKYGP-DAI-ILVVSNPVDI 120 (300)
T ss_pred HHhCCCCEEEEcCCCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHhCC-CeE-EEEccChHHH
Confidence 35779999999999653 35666654332211 2244555665443 354 4455799864
No 28
>PRK13556 azoreductase; Provisional
Probab=67.50 E-value=19 Score=29.87 Aligned_cols=56 Identities=18% Similarity=0.131 Sum_probs=39.3
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhh---------------CCCceEEEEecCc
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANA---------------TKGTMILVVMAAG 228 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~---------------~~~~vVvV~~~g~ 228 (238)
...++..+..++||.+|++.=. -++..|.-=..+|+.+... .+||++++..+|+
T Consensus 78 ~~~~~~~~~l~~AD~iVi~~P~-----------yn~~~Pa~LK~~iD~v~~~g~tf~~~~~g~~gll~~K~~~vi~tsGg 146 (208)
T PRK13556 78 AVADKYLNQFLEADKVVFAFPL-----------WNFTIPAVLHTYIDYLNRAGKTFKYTPEGPVGLIGDKKVALLNARGG 146 (208)
T ss_pred HHHHHHHHHHHHCCEEEEeccc-----------cccCCcHHHHHHHHHHhcCCceeecCCCCCccccCCCEEEEEEeCCC
Confidence 3445677888999999987631 2677777666777776632 3577887777888
Q ss_pred ee
Q 039625 229 NV 230 (238)
Q Consensus 229 P~ 230 (238)
++
T Consensus 147 ~~ 148 (208)
T PRK13556 147 VY 148 (208)
T ss_pred CC
Confidence 76
No 29
>cd00704 MDH Malate dehydrogenase. Malate dehydrogenase (MDH) is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. MDHs belong to the NAD-dependent, lactate dehydrogenase (LDH)-like, 2-hydroxycarboxylate dehydrogenase family, which also includes the GH4 family of glycoside hydrolases. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=66.75 E-value=4.8 Score=36.31 Aligned_cols=59 Identities=15% Similarity=0.240 Sum_probs=33.3
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..+++|+||++.|.+. .+|.+|.++-.... -+++..++.+..+...++++ .++|+++
T Consensus 71 ~~~~~~aDiVVitAG~~~---~~g~tR~dll~~N~~i~~~i~~~i~~~~~~~~iiiv-vsNPvD~ 131 (323)
T cd00704 71 EEAFKDVDVAILVGAFPR---KPGMERADLLRKNAKIFKEQGEALNKVAKPTVKVLV-VGNPANT 131 (323)
T ss_pred HHHhCCCCEEEEeCCCCC---CcCCcHHHHHHHhHHHHHHHHHHHHHhCCCCeEEEE-eCCcHHH
Confidence 456779999999998652 34555543221111 12445556653223455444 4799975
No 30
>COG1084 Predicted GTPase [General function prediction only]
Probab=66.52 E-value=25 Score=31.93 Aligned_cols=23 Identities=22% Similarity=0.287 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhhCCCceEEEEe
Q 039625 203 GYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 203 ~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..|..|++++....++|+|+|++
T Consensus 266 E~Q~~L~~eIk~~f~~p~v~V~n 288 (346)
T COG1084 266 EEQISLLEEIKELFKAPIVVVIN 288 (346)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEe
Confidence 46999999998877788888876
No 31
>cd05294 LDH-like_MDH_nadp A lactate dehydrogenases-like structure with malate dehydrogenase enzymatic activity. The LDH-like MDH proteins have a lactate dehyhydrogenase-like (LDH-like) structure and malate dehydrogenase (MDH) enzymatic activity. This subgroup is composed of some archaeal LDH-like MDHs that prefer NADP(H) rather than NAD(H) as a cofactor. One member, MJ0490 from Methanococcus jannaschii, has been observed to form dimers and tetramers during crystalization, although it is believed to exist primarilly as a tetramer in solution. In addition to its MDH activity, MJ0490 also possesses fructose-1,6-bisphosphate-activated LDH activity. Members of this subgroup have a higher sequence similarity to LDHs than to other MDHs. LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carbox
Probab=66.31 E-value=6.8 Score=34.96 Aligned_cols=56 Identities=21% Similarity=0.411 Sum_probs=30.6
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCH--HHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHG--YQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~--~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..++||++|+++|.+. .+|.+|.++-.-. --.+.++++.+.+++ .++++ .++|+++
T Consensus 69 ~l~~aDiViitag~p~---~~~~~r~dl~~~n~~i~~~~~~~i~~~~~~-~~viv-~~npvd~ 126 (309)
T cd05294 69 DVAGSDIVIITAGVPR---KEGMSRLDLAKKNAKIVKKYAKQIAEFAPD-TKILV-VTNPVDV 126 (309)
T ss_pred HhCCCCEEEEecCCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHCCC-eEEEE-eCCchHH
Confidence 4789999999999653 3444554321110 012344455554444 33333 4699864
No 32
>TIGR01772 MDH_euk_gproteo malate dehydrogenase, NAD-dependent. Although malate dehydrogenases have in some cases been mistaken for lactate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of lactate dehydrogenases.
Probab=66.11 E-value=8.3 Score=34.63 Aligned_cols=57 Identities=25% Similarity=0.396 Sum_probs=33.1
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH---HHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ---EKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q---~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..+++|+||++.|.+. .+|.+|.++- +.+- .+..+++.+.+++ .+ +++..+|+++
T Consensus 62 ~~~~~daDivvitaG~~~---~~g~~R~dll-~~N~~I~~~i~~~i~~~~p~-~i-iivvsNPvDv 121 (312)
T TIGR01772 62 ENALKGADVVVIPAGVPR---KPGMTRDDLF-NVNAGIVKDLVAAVAESCPK-AM-ILVITNPVNS 121 (312)
T ss_pred HHHcCCCCEEEEeCCCCC---CCCccHHHHH-HHhHHHHHHHHHHHHHhCCC-eE-EEEecCchhh
Confidence 345789999999999653 3455664322 1111 2344456554443 44 4455899973
No 33
>COG0039 Mdh Malate/lactate dehydrogenases [Energy production and conversion]
Probab=65.31 E-value=6.3 Score=35.47 Aligned_cols=58 Identities=19% Similarity=0.335 Sum_probs=34.8
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
-+..++||+||++.|.+ .+.|.+|.+|---.. -.++.+++.+.+++ .+++ ...+|+++
T Consensus 64 y~~~~~aDiVvitAG~p---rKpGmtR~DLl~~Na~I~~~i~~~i~~~~~d-~ivl-VvtNPvD~ 123 (313)
T COG0039 64 YEDLKGADIVVITAGVP---RKPGMTRLDLLEKNAKIVKDIAKAIAKYAPD-AIVL-VVTNPVDI 123 (313)
T ss_pred hhhhcCCCEEEEeCCCC---CCCCCCHHHHHHhhHHHHHHHHHHHHhhCCC-eEEE-EecCcHHH
Confidence 34567999999999865 355666654321111 23455666664443 5433 45899875
No 34
>cd01336 MDH_cytoplasmic_cytosolic Cytoplasmic and cytosolic Malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are eukaryotic MDHs localized to the cytoplasm and cytosol. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=64.32 E-value=6.8 Score=35.31 Aligned_cols=59 Identities=15% Similarity=0.283 Sum_probs=31.9
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH--HHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ--EKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q--~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..+++|+||.+.|.+. .++.+|..+--.... .++...+.+..+...++++. .+|+++
T Consensus 73 ~~~l~~aDiVI~tAG~~~---~~~~~R~~l~~~N~~i~~~i~~~i~~~~~~~~iiivv-sNPvD~ 133 (325)
T cd01336 73 EEAFKDVDVAILVGAMPR---KEGMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVV-GNPANT 133 (325)
T ss_pred HHHhCCCCEEEEeCCcCC---CCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEe-cCcHHH
Confidence 355679999999998653 234454322211111 23445565533323554444 699875
No 35
>PRK13555 azoreductase; Provisional
Probab=64.01 E-value=21 Score=30.01 Aligned_cols=57 Identities=16% Similarity=0.112 Sum_probs=37.3
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhh---------------CCCceEEEEecCc
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANA---------------TKGTMILVVMAAG 228 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~---------------~~~~vVvV~~~g~ 228 (238)
....+.++..+.||.+|++.-. -++.+|..=...|+.+... .+||++++..+|+
T Consensus 78 ~~~~~~~~~~~~AD~lvi~~P~-----------~n~~~Pa~LK~~iD~v~~~G~tF~~~~~~~~gll~~k~~~vi~~~gg 146 (208)
T PRK13555 78 ATVDQYLNQFLEADKVVFAFPL-----------WNFTVPAPLITYISYLSQAGKTFKYTANGPEGLAGGKKVVVLGARGS 146 (208)
T ss_pred HHHHHHHHHHHHcCEEEEEcCc-----------ccccchHHHHHHHHHHhcCCceeecCCCCCccccCCCeEEEEEcCCC
Confidence 3456677888899999887631 2556666555556555421 3678887777788
Q ss_pred eee
Q 039625 229 NVD 231 (238)
Q Consensus 229 P~~ 231 (238)
||.
T Consensus 147 ~~~ 149 (208)
T PRK13555 147 DYS 149 (208)
T ss_pred CCC
Confidence 864
No 36
>cd01337 MDH_glyoxysomal_mitochondrial Glyoxysomal and mitochondrial malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are localized to the glycosome and mitochondria. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=63.46 E-value=6.9 Score=35.11 Aligned_cols=58 Identities=26% Similarity=0.367 Sum_probs=33.0
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..+++|+||++.|.+. .+|.+|.++---.. -.++++++.+.+++ .+ +++..+|.++
T Consensus 63 y~~~~daDivvitaG~~~---k~g~tR~dll~~N~~i~~~i~~~i~~~~p~-a~-vivvtNPvDv 122 (310)
T cd01337 63 KKALKGADVVVIPAGVPR---KPGMTRDDLFNINAGIVRDLATAVAKACPK-AL-ILIISNPVNS 122 (310)
T ss_pred HHhcCCCCEEEEeCCCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHhCCC-eE-EEEccCchhh
Confidence 355789999999999653 34545543221111 12344556654443 44 4455899865
No 37
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=63.30 E-value=32 Score=30.89 Aligned_cols=89 Identities=22% Similarity=0.178 Sum_probs=51.6
Q ss_pred HhCceeccCC--CC------C--CCCCCCCCcEEEEccCCCchhh--hHHHHHHHHHhCCCCEEEEEeeCCCCccccCCC
Q 039625 128 KQGIDSLDNK--GA------L--PLSSNNTKNLAVIGSNANATNR--RLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLD 195 (238)
Q Consensus 128 ~~sivLLkN~--~~------L--PL~~~~~~~i~viG~~a~~~~~--~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~D 195 (238)
...||||.|. ++ | +..+ .+||+-|-.+|+..+. ...++ ++++++|.+=+|+=.. |
T Consensus 117 ~~~ivlmENs~trl~~y~~~L~k~r~~--gkkIgaIVMNANPFTLGH~YLVE---qAaaqcDwlHLFvV~e--------D 183 (352)
T COG3053 117 ENVIVLMENSATRLKDYLSSLKKLRHP--GKKIGAIVMNANPFTLGHRYLVE---QAAAQCDWLHLFVVKE--------D 183 (352)
T ss_pred CceEEEeecCchhHHHHHHHHHHhccC--CCeeEEEEEeCCCccchhHHHHH---HHHhhCCEEEEEEEec--------c
Confidence 4457888886 21 2 3333 4899877777765442 22333 3466899987765321 3
Q ss_pred CCCCCCCHHH-HHHHHHHHhhCCCceEEEEecCceeecCC
Q 039625 196 KENLTLHGYQ-EKLVMEVANATKGTMILVVMAAGNVDVSF 234 (238)
Q Consensus 196 r~~l~l~~~q-~~li~~l~~~~~~~vVvV~~~g~P~~l~~ 234 (238)
+.- +|... .+||++=.+..++ + .+++|++|.++.
T Consensus 184 ~S~--f~y~~R~~Lv~~G~~~l~N-v--t~HsgsdYiISr 218 (352)
T COG3053 184 SSL--FPYEDRLDLVKKGTADLPN-V--TVHSGSDYIISR 218 (352)
T ss_pred ccc--CCHHHHHHHHHHhhccCCc-e--EEecCCCeEEEe
Confidence 332 34433 4677664433543 3 567899998753
No 38
>PLN02602 lactate dehydrogenase
Probab=62.98 E-value=6.1 Score=36.07 Aligned_cols=56 Identities=25% Similarity=0.399 Sum_probs=31.8
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH--HHHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ--EKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q--~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..++||+||++.|.+. .+|.+|.++-..... .++.+++.+.+++ .++++ ..+|.++
T Consensus 102 ~~~daDiVVitAG~~~---k~g~tR~dll~~N~~I~~~i~~~I~~~~p~-~iviv-vtNPvdv 159 (350)
T PLN02602 102 VTAGSDLCIVTAGARQ---IPGESRLNLLQRNVALFRKIIPELAKYSPD-TILLI-VSNPVDV 159 (350)
T ss_pred HhCCCCEEEECCCCCC---CcCCCHHHHHHHHHHHHHHHHHHHHHHCCC-eEEEE-ecCchHH
Confidence 4679999999999653 345566433221111 1344555554444 54444 4699865
No 39
>COG1160 Predicted GTPases [General function prediction only]
Probab=62.77 E-value=26 Score=33.05 Aligned_cols=46 Identities=26% Similarity=0.390 Sum_probs=29.5
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
.++..+...+|+|++++-.. || +. .|++-|-.++...++++|+|++
T Consensus 252 ~rt~~aI~~a~vvllviDa~-----~~-------~~-~qD~~ia~~i~~~g~~~vIvvN 297 (444)
T COG1160 252 ARTLKAIERADVVLLVIDAT-----EG-------IS-EQDLRIAGLIEEAGRGIVIVVN 297 (444)
T ss_pred hhhHhHHhhcCEEEEEEECC-----CC-------ch-HHHHHHHHHHHHcCCCeEEEEE
Confidence 56778889999999998522 11 22 3554444443346888888876
No 40
>TIGR01758 MDH_euk_cyt malate dehydrogenase, NAD-dependent. This model represents the NAD-dependent cytosolic malate dehydrogenase from eukaryotes. The enzyme from pig has been studied by X-ray crystallography
Probab=62.43 E-value=7.4 Score=35.08 Aligned_cols=57 Identities=18% Similarity=0.250 Sum_probs=32.3
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHH----HHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQE----KLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~----~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..+++|+||+..|.+. .+|.+|.++- ..-. ++..++.+..++..++++ ..+|+++
T Consensus 70 ~~~~~~aDiVVitAG~~~---~~~~tr~~ll--~~N~~i~k~i~~~i~~~~~~~~iiiv-vsNPvDv 130 (324)
T TIGR01758 70 AVAFTDVDVAILVGAFPR---KEGMERRDLL--SKNVKIFKEQGRALDKLAKKDCKVLV-VGNPANT 130 (324)
T ss_pred HHHhCCCCEEEEcCCCCC---CCCCcHHHHH--HHHHHHHHHHHHHHHhhCCCCeEEEE-eCCcHHH
Confidence 456779999999998653 2344443222 2222 344556653223355444 4699975
No 41
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=61.56 E-value=19 Score=27.70 Aligned_cols=18 Identities=28% Similarity=0.399 Sum_probs=14.6
Q ss_pred HHHHHHhCCCCEEEEEee
Q 039625 167 EQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g 184 (238)
.++...++++|++++++-
T Consensus 3 ~~~~~~i~~aD~vl~ViD 20 (141)
T cd01857 3 RQLWRVVERSDIVVQIVD 20 (141)
T ss_pred HHHHHHHhhCCEEEEEEE
Confidence 467788899999988874
No 42
>cd05291 HicDH_like L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases. L-2-hydroxyisocapronate dehydrogenase (HicDH) catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. This subfamily is composed of HicDHs and some bacterial L-lactate dehydrogenases (LDH). LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Bacterial LDHs can be non-allosteric or may be activated by an allosteric effector such as fructose-1,6-bisphosphate. Members of this subfamily with known structures such as the HicDH of Lactobacillus confusus, the non-allosteric LDH of Lactobacillus pentosus, and the allosteric LDH of Bacillus stearothermophilus, show that they exist as homotetramers. The HicDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine
Probab=61.54 E-value=6.8 Score=34.78 Aligned_cols=53 Identities=26% Similarity=0.345 Sum_probs=30.6
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHH----HHHHHHHhhCCCceEEEEecCceeec
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQE----KLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~----~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
++++|++|++.|.+. .+|.+|.++- ..-. ++.+++.+.+++ .+ +++.++|+++
T Consensus 66 l~~aDIVIitag~~~---~~g~~R~dll--~~N~~i~~~~~~~i~~~~~~-~~-vivvsNP~d~ 122 (306)
T cd05291 66 CKDADIVVITAGAPQ---KPGETRLDLL--EKNAKIMKSIVPKIKASGFD-GI-FLVASNPVDV 122 (306)
T ss_pred hCCCCEEEEccCCCC---CCCCCHHHHH--HHHHHHHHHHHHHHHHhCCC-eE-EEEecChHHH
Confidence 579999999998653 3455664322 2222 334455553443 44 4445799864
No 43
>TIGR01771 L-LDH-NAD L-lactate dehydrogenase. This model represents the NAD-dependent L-lactate dehydrogenases from bacteria and eukaryotes. This enzyme function as as the final step in anaerobic glycolysis. Although lactate dehydrogenases have in some cases been mistaken for malate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of malate dehydrogenases.
Probab=61.10 E-value=6.3 Score=35.09 Aligned_cols=57 Identities=26% Similarity=0.320 Sum_probs=32.3
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||+||++.|.+. .+|.+|.++---.. -.++.+++.+.++ ..+ +++.++|.++
T Consensus 60 ~~~~daDivVitag~~r---k~g~~R~dll~~N~~i~~~~~~~i~~~~p-~~~-vivvsNP~d~ 118 (299)
T TIGR01771 60 SDCKDADLVVITAGAPQ---KPGETRLELVGRNVRIMKSIVPEVVKSGF-DGI-FLVATNPVDI 118 (299)
T ss_pred HHHCCCCEEEECCCCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHhCC-CeE-EEEeCCHHHH
Confidence 45679999999998653 34556643211110 1234455665433 354 4455899864
No 44
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=60.06 E-value=61 Score=26.05 Aligned_cols=61 Identities=16% Similarity=0.326 Sum_probs=36.7
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
.++-++..-.. .....+....++.+|++|+++-... | +.....+.++.+.. .+.|+|+|++
T Consensus 70 ~~i~~iDtPG~----~~f~~~~~~~~~~~D~ailvVda~~-----g-------~~~~~~~~l~~~~~-~~~p~ivvlN 130 (188)
T PF00009_consen 70 RKITLIDTPGH----EDFIKEMIRGLRQADIAILVVDAND-----G-------IQPQTEEHLKILRE-LGIPIIVVLN 130 (188)
T ss_dssp EEEEEEEESSS----HHHHHHHHHHHTTSSEEEEEEETTT-----B-------STHHHHHHHHHHHH-TT-SEEEEEE
T ss_pred cceeecccccc----cceeecccceecccccceeeeeccc-----c-------cccccccccccccc-cccceEEeee
Confidence 45666643211 3345667777899999999995321 1 23334566666654 6778877775
No 45
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=59.95 E-value=21 Score=30.90 Aligned_cols=78 Identities=19% Similarity=0.230 Sum_probs=46.5
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCC-------ccccCCCCCCCCCCHHHHHHHHHHHhhCCCce
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQS-------IEAEGLDKENLTLHGYQEKLVMEVANATKGTM 220 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~-------~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~v 220 (238)
.+|.+||.+..++. --.-++.+..++||+||.+...-+. ...|-.|-.++.|..--..+++++. .+| .
T Consensus 3 ~~VyFIGAGPGdpd--LiTvkg~~ll~~advviYAGSLV~~elL~~~~~~aei~nSa~~tLeeIi~~m~~a~~--~Gk-~ 77 (254)
T COG2875 3 MKVYFIGAGPGDPD--LITVKGQRLLEKADVVIYAGSLVPPELLEYCRPDAEIVNSASLTLEEIIDLMVDAVR--EGK-D 77 (254)
T ss_pred ceEEEEccCCCCcc--eeeehHHHHHhhCCEEEECCCcCCHHHHhhcCCCCEEEecCcCCHHHHHHHHHHHHH--cCC-e
Confidence 57888886655432 1123567788999999988664331 1233345455665433333444443 366 6
Q ss_pred EEEEecCcee
Q 039625 221 ILVVMAAGNV 230 (238)
Q Consensus 221 VvV~~~g~P~ 230 (238)
|+=+++|.|-
T Consensus 78 VvRLhSGDps 87 (254)
T COG2875 78 VVRLHSGDPS 87 (254)
T ss_pred EEEeecCChh
Confidence 6789999984
No 46
>TIGR01763 MalateDH_bact malate dehydrogenase, NAD-dependent. The annotation of Botryococcus braunii as lactate dehydrogenase appears top be in error. This was initially annotated as MDH by Swiss-Prot and then changed. The rationale for either of these annotations is not traceable.
Probab=59.78 E-value=7.8 Score=34.56 Aligned_cols=53 Identities=21% Similarity=0.443 Sum_probs=29.6
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHH----HHHHHHhhCCCceEEEEecCceeec
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEK----LVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~----li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+++|++|+++|.+. .+|.+|.+ +-....+ .++++.+..++ .+ +++..+|.++
T Consensus 67 ~~~aDiVIitag~p~---~~~~sR~~--l~~~N~~iv~~i~~~I~~~~p~-~~-iIv~tNP~di 123 (305)
T TIGR01763 67 TANSDIVVITAGLPR---KPGMSRED--LLSMNAGIVREVTGRIMEHSPN-PI-IVVVSNPLDA 123 (305)
T ss_pred hCCCCEEEEcCCCCC---CcCCCHHH--HHHHHHHHHHHHHHHHHHHCCC-eE-EEEecCcHHH
Confidence 579999999999663 23334422 2122333 44455554444 33 3445799864
No 47
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=59.21 E-value=63 Score=25.67 Aligned_cols=22 Identities=23% Similarity=0.267 Sum_probs=16.5
Q ss_pred HHHHHHHHhCCCCEEEEEeeCC
Q 039625 165 LIEQAAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~ 186 (238)
.....+..+.+||+|+++....
T Consensus 53 ~y~aLi~ta~dad~V~ll~dat 74 (143)
T PF10662_consen 53 FYHALIVTAQDADVVLLLQDAT 74 (143)
T ss_pred HHHHHHHHHhhCCEEEEEecCC
Confidence 3456677888999999987543
No 48
>TIGR00124 cit_ly_ligase [citrate (pro-3S)-lyase] ligase. ATP is cleaved to AMP and pyrophosphate during the reaction. The carboxyl end is homologous to a number of cytidyltransferases that also release pyrophosphate.
Probab=59.06 E-value=58 Score=29.49 Aligned_cols=72 Identities=18% Similarity=0.059 Sum_probs=45.1
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH-HHHHHHHHhhCCCceEEEEec
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ-EKLVMEVANATKGTMILVVMA 226 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q-~~li~~l~~~~~~~vVvV~~~ 226 (238)
++|+++|.+.+... .--..-+..+++..|.++|++..+ |+ + -++.++ .+++++..+..+ +|. |+ .
T Consensus 139 ~~i~~~~g~fdP~t-~GH~~li~~A~~~~d~~~v~v~~~--------~~-~-~f~~~~R~~~v~~~~~~~~-nv~-v~-~ 204 (332)
T TIGR00124 139 NKIGSIVMNANPFT-NGHRYLIEQAARQCDWLHLFVVKE--------DA-S-LFSYDERFALVKQGIQDLS-NVT-VH-N 204 (332)
T ss_pred CcEEEEEeCcCCCc-hHHHHHHHHHHHHCCEEEEEEEeC--------CC-C-CCCHHHHHHHHHHHhcCCC-CEE-EE-e
Confidence 58999998887665 223344555677889998888632 22 2 344444 478888776454 454 33 4
Q ss_pred CceeecC
Q 039625 227 AGNVDVS 233 (238)
Q Consensus 227 g~P~~l~ 233 (238)
++.|.++
T Consensus 205 ~~~~~is 211 (332)
T TIGR00124 205 GSAYIIS 211 (332)
T ss_pred cCCceec
Confidence 6667664
No 49
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=58.79 E-value=8.8 Score=32.70 Aligned_cols=49 Identities=22% Similarity=0.301 Sum_probs=33.3
Q ss_pred cChHHHHhhccHH---HHHHHHhcCcceeEeecccCCCccc-ccCHHHHHHHHH
Q 039625 32 VTKQDLEDMYQPP---FKSCVKESHVSSVICSYNRVIGIPT-CADPDLLKGVIK 81 (238)
Q Consensus 32 i~~~~L~e~~l~P---F~~ai~~g~~~~VM~sy~~vng~pa-~~s~~ll~~lLR 81 (238)
++..++......| |+.|++.+.. +|+.+||-..|.|. +.....+|.-|+
T Consensus 136 i~~Gt~~~~~v~pReI~~~Al~~~A~-~vIlaHNHPSG~~~PS~~Di~~T~~l~ 188 (218)
T TIGR00608 136 VFIGTVNHVPVHPREIFKEALKLSAS-ALILAHNHPSGEPSPSQEDILITERLR 188 (218)
T ss_pred eecCCCCeEEEcHHHHHHHHHHhhCC-eEEEEeecCCCCCCCCHHHHHHHHHHH
Confidence 3445555555555 9999999975 99999999988764 333334555554
No 50
>PRK00066 ldh L-lactate dehydrogenase; Reviewed
Probab=57.08 E-value=9.7 Score=34.12 Aligned_cols=54 Identities=28% Similarity=0.326 Sum_probs=30.9
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHH----HHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQE----KLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~----~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..++||+||++.|.+. .+|.+|.++- .... ++++.+.+.+++ .+ +++.++|.++
T Consensus 70 ~~~~adivIitag~~~---k~g~~R~dll--~~N~~i~~~i~~~i~~~~~~-~~-vivvsNP~d~ 127 (315)
T PRK00066 70 DCKDADLVVITAGAPQ---KPGETRLDLV--EKNLKIFKSIVGEVMASGFD-GI-FLVASNPVDI 127 (315)
T ss_pred HhCCCCEEEEecCCCC---CCCCCHHHHH--HHHHHHHHHHHHHHHHhCCC-eE-EEEccCcHHH
Confidence 4679999999998652 3455664322 1222 334455553433 44 3445799864
No 51
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=56.94 E-value=54 Score=26.84 Aligned_cols=40 Identities=20% Similarity=0.268 Sum_probs=27.0
Q ss_pred CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 174 GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 174 ~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..+|+++|++|.+ .|+.++.+.....+.+ +++..|+.++.
T Consensus 99 s~~dil~VglG~P-----------------kQE~~~~~~~~~~~~~--v~~gvGg~fd~ 138 (177)
T TIGR00696 99 SGAGIVFVGLGCP-----------------KQEIWMRNHRHLKPDA--VMIGVGGSFDV 138 (177)
T ss_pred cCCCEEEEEcCCc-----------------HhHHHHHHhHHhCCCc--EEEEeceeeee
Confidence 5799999999844 3888888876544433 34555777654
No 52
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=56.34 E-value=33 Score=25.10 Aligned_cols=47 Identities=21% Similarity=0.355 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
.+.+..+....+|++|+++-.+ . .+.....++++.+. .++|+++|++
T Consensus 69 ~~~~~~~~~~~~d~ii~vv~~~-----------~-~~~~~~~~~~~~l~--~~~~~i~v~N 115 (116)
T PF01926_consen 69 EIRKFLEQISKSDLIIYVVDAS-----------N-PITEDDKNILRELK--NKKPIILVLN 115 (116)
T ss_dssp HHHHHHHHHCTESEEEEEEETT-----------S-HSHHHHHHHHHHHH--TTSEEEEEEE
T ss_pred HHHHHHHHHHHCCEEEEEEECC-----------C-CCCHHHHHHHHHHh--cCCCEEEEEc
Confidence 3556777789999999998522 1 11234567778884 5678888764
No 53
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=55.98 E-value=48 Score=23.95 Aligned_cols=40 Identities=15% Similarity=0.042 Sum_probs=28.8
Q ss_pred HHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEE
Q 039625 169 AAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILV 223 (238)
Q Consensus 169 a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV 223 (238)
.-+..++||+||++++-- ..+--..+++.++..++|++.+
T Consensus 42 l~~~i~~aD~VIv~t~~v---------------sH~~~~~vk~~akk~~ip~~~~ 81 (97)
T PF10087_consen 42 LPSKIKKADLVIVFTDYV---------------SHNAMWKVKKAAKKYGIPIIYS 81 (97)
T ss_pred HHHhcCCCCEEEEEeCCc---------------ChHHHHHHHHHHHHcCCcEEEE
Confidence 455678999999998632 2335567888888788988643
No 54
>PRK05086 malate dehydrogenase; Provisional
Probab=55.87 E-value=10 Score=33.95 Aligned_cols=57 Identities=25% Similarity=0.340 Sum_probs=32.2
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCH--HHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHG--YQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~--~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..+++|+||++.|... .++.+|.++--.. --.++++++.+.+.+ -+ |++..+|.++
T Consensus 65 ~~l~~~DiVIitaG~~~---~~~~~R~dll~~N~~i~~~ii~~i~~~~~~-~i-vivvsNP~D~ 123 (312)
T PRK05086 65 PALEGADVVLISAGVAR---KPGMDRSDLFNVNAGIVKNLVEKVAKTCPK-AC-IGIITNPVNT 123 (312)
T ss_pred HHcCCCCEEEEcCCCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHhCCC-eE-EEEccCchHH
Confidence 44578999999999653 2333443221110 123556667664444 33 4556899863
No 55
>cd05290 LDH_3 A subgroup of L-lactate dehydrogenases. L-lactate dehydrogenases (LDH) are tetrameric enzymes catalyzing the last step of glycolysis in which pyruvate is converted to L-lactate. This subgroup is composed of some bacterial LDHs from firmicutes, gammaproteobacteria, and actinobacteria. Vertebrate LDHs are non-allosteric, but some bacterial LDHs are activated by an allosteric effector such as fructose-1,6-bisphosphate. LDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenase, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=55.41 E-value=12 Score=33.54 Aligned_cols=57 Identities=19% Similarity=0.408 Sum_probs=31.7
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHH----HHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKL----VMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~l----i~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||+||++.|.+. .+|.+|..++|=..-.++ +.++.+..++ .+ ++...+|+++
T Consensus 64 ~~~~~aDivvitaG~~~---kpg~tr~R~dll~~N~~I~~~i~~~i~~~~p~-~i-~ivvsNPvDv 124 (307)
T cd05290 64 DDCADADIIVITAGPSI---DPGNTDDRLDLAQTNAKIIREIMGNITKVTKE-AV-IILITNPLDI 124 (307)
T ss_pred HHhCCCCEEEECCCCCC---CCCCCchHHHHHHHHHHHHHHHHHHHHHhCCC-eE-EEEecCcHHH
Confidence 45679999999998653 234443113332333334 4455553433 44 4445899875
No 56
>PRK00170 azoreductase; Reviewed
Probab=55.05 E-value=36 Score=27.68 Aligned_cols=56 Identities=16% Similarity=0.179 Sum_probs=37.1
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHh---------------hCCCceEEEEecCc
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVAN---------------ATKGTMILVVMAAG 228 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~---------------~~~~~vVvV~~~g~ 228 (238)
....+..+...+||.+|++.=. -+..+|+.-..+|+.+.. -.+|++++|..+|+
T Consensus 75 d~~~~l~~~i~~AD~iV~~sP~-----------y~~~~pa~LK~~iDrv~~~~~~~~~~~~~~~~~l~~K~~~~i~t~g~ 143 (201)
T PRK00170 75 ALSDELLEEFLAADKIVIAAPM-----------YNFSIPTQLKAYIDLIARAGKTFRYTENGPVGLVTGKKALLITSRGG 143 (201)
T ss_pred HHHHHHHHHHHHCCEEEEeecc-----------cccCCcHHHHHHHHhheeCCceEEecCCCCccCcCCcEEEEEEeCCC
Confidence 4566778888999999987631 245666655667766531 13577877777776
Q ss_pred ee
Q 039625 229 NV 230 (238)
Q Consensus 229 P~ 230 (238)
+.
T Consensus 144 ~~ 145 (201)
T PRK00170 144 IH 145 (201)
T ss_pred CC
Confidence 53
No 57
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
Probab=54.90 E-value=9.9 Score=32.53 Aligned_cols=40 Identities=28% Similarity=0.274 Sum_probs=30.4
Q ss_pred HHHHHHhcCcceeEeecccCCCccc-ccCHHHHHHHHHHhhh
Q 039625 45 FKSCVKESHVSSVICSYNRVIGIPT-CADPDLLKGVIKSQWG 85 (238)
Q Consensus 45 F~~ai~~g~~~~VM~sy~~vng~pa-~~s~~ll~~lLR~elg 85 (238)
|+.|++.... +||++||-..|.|- +.....+|.-|++-.+
T Consensus 158 ~k~Al~~nAa-avIlaHNHPSGd~~PS~aD~~iT~rl~~a~~ 198 (224)
T COG2003 158 FKEALKYNAA-AVILAHNHPSGDPTPSRADILITERLKEAGK 198 (224)
T ss_pred HHHHHHhcch-hhheeccCCCCCCCcCHHHHHHHHHHHHHHH
Confidence 8999998864 99999999988654 4455566777666554
No 58
>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.27 E-value=14 Score=36.85 Aligned_cols=57 Identities=16% Similarity=0.181 Sum_probs=27.5
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEE
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVV 224 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~ 224 (238)
++..++|+.|.+-=+..+-+..++.+=.+| ...|+++|+|-|.-..+-..+|.|+++
T Consensus 572 e~i~~AAk~ANah~FI~~~p~gY~T~VGEk-G~qLSGGQKQRIAIARALlr~P~VLIL 628 (716)
T KOG0058|consen 572 EEIEAAAKMANAHEFITNFPDGYNTVVGEK-GSQLSGGQKQRIAIARALLRNPRVLIL 628 (716)
T ss_pred HHHHHHHHHhChHHHHHhCccccccccCCc-cccccchHHHHHHHHHHHhcCCCEEEE
Confidence 344445554444333333333333322222 467788888766422222345777665
No 59
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=52.15 E-value=86 Score=27.78 Aligned_cols=87 Identities=16% Similarity=0.193 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHhCceeccCC---CCCCCCCCCCCcEEEEccCCCchhh---------------------------hHHH
Q 039625 117 DDHKSLALDAAKQGIDSLDNK---GALPLSSNNTKNLAVIGSNANATNR---------------------------RLLI 166 (238)
Q Consensus 117 ~~~~~la~~~a~~sivLLkN~---~~LPL~~~~~~~i~viG~~a~~~~~---------------------------~~~~ 166 (238)
||-..+.-.+..+...++++. .-||+... ++++++.--..+... ..--
T Consensus 123 pEv~gi~g~~~~~~~~vv~~~~~~~~l~~~~~--~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~nTIC~aT~~RQ 200 (281)
T PF02401_consen 123 PEVIGILGYAPEEKAIVVESPEDVEKLPISDP--KKVAVVSQTTQSVEKFEEIVEALKKRFPELEGPVFNTICYATQNRQ 200 (281)
T ss_dssp HHHHHHHCCHHTS-EEEESSHHHHHHGGGSST--TCEEEEE-TTS-HHHHHHHHHHHHHHSTCEE-SCC-S--CHHHHHH
T ss_pred ceEEEecccccCCceEEeCChhhhcccCCCCC--CeEEEEEeecccHHHHHHHHHHHHHhCccccCCCCCCCCHhHHHHH
Confidence 333333333333556677774 34777654 789888654332211 1112
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceE
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMI 221 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vV 221 (238)
+++.++++..|++||..|.++ .+..+|.+-.. ..++|+.
T Consensus 201 ~a~~~La~~vD~miVIGg~~S---------------sNT~kL~eia~-~~~~~t~ 239 (281)
T PF02401_consen 201 EAARELAKEVDAMIVIGGKNS---------------SNTRKLAEIAK-EHGKPTY 239 (281)
T ss_dssp HHHHHHHCCSSEEEEES-TT----------------HHHHHHHHHHH-HCTTCEE
T ss_pred HHHHHHHhhCCEEEEecCCCC---------------ccHHHHHHHHH-HhCCCEE
Confidence 456778999999888877543 44666666444 3555664
No 60
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=51.77 E-value=66 Score=27.16 Aligned_cols=32 Identities=25% Similarity=0.483 Sum_probs=21.0
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|.... ...++++.+.++++|++|| +|+
T Consensus 149 ~Vv~fgE~lp----~~~~~~a~~~~~~~Dl~lv-vGT 180 (222)
T cd01413 149 DVVLFGEPLP----QALLREAIEAAKEADLFIV-LGS 180 (222)
T ss_pred CEEECCCCCC----HHHHHHHHHHHhcCCEEEE-Ecc
Confidence 3556665432 3456788888889998776 453
No 61
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=50.26 E-value=40 Score=30.53 Aligned_cols=69 Identities=17% Similarity=0.160 Sum_probs=40.5
Q ss_pred CCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEec
Q 039625 147 TKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMA 226 (238)
Q Consensus 147 ~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~ 226 (238)
..+|.+.||.-. ....+|+++.++||+||+.-|+.- .. =..+|.+|+ +-++|.+ +..|+|.+-+.
T Consensus 166 v~~V~~~~~~~~-----~a~~eaveAI~~AD~IviGPgSl~--TS---IlP~Lllp~----I~eaLr~-~~ap~i~v~n~ 230 (323)
T COG0391 166 VHRVRLEGPEKP-----SAAPEAVEAIKEADLIVIGPGSLF--TS---ILPILLLPG----IAEALRE-TVAPIVYVCNL 230 (323)
T ss_pred ceEEEEecCCCC-----CCCHHHHHHHHhCCEEEEcCCccH--hh---hchhhchhH----HHHHHHh-CCCCEEEeccC
Confidence 467777763222 223589999999999997766431 11 113566665 3344444 44567777665
Q ss_pred Ccee
Q 039625 227 AGNV 230 (238)
Q Consensus 227 g~P~ 230 (238)
..|.
T Consensus 231 ~~~~ 234 (323)
T COG0391 231 MTQA 234 (323)
T ss_pred CCCC
Confidence 4443
No 62
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=49.72 E-value=61 Score=27.90 Aligned_cols=32 Identities=13% Similarity=0.184 Sum_probs=21.5
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceE
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMI 221 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vV 221 (238)
..++|.+++... +|. -.++|+.+-...+||||
T Consensus 179 ~~~aDAifisCT-------------nLr----t~~vi~~lE~~lGkPVl 210 (239)
T TIGR02990 179 DPDADALFLSCT-------------ALR----AATCAQRIEQAIGKPVV 210 (239)
T ss_pred CCCCCEEEEeCC-------------Cch----hHHHHHHHHHHHCCCEE
Confidence 346888777653 232 45678888777889875
No 63
>PRK00024 hypothetical protein; Reviewed
Probab=49.52 E-value=14 Score=31.55 Aligned_cols=48 Identities=21% Similarity=0.205 Sum_probs=31.0
Q ss_pred ChHHHHhhccHH---HHHHHHhcCcceeEeecccCCCccc-ccCHHHHHHHHH
Q 039625 33 TKQDLEDMYQPP---FKSCVKESHVSSVICSYNRVIGIPT-CADPDLLKGVIK 81 (238)
Q Consensus 33 ~~~~L~e~~l~P---F~~ai~~g~~~~VM~sy~~vng~pa-~~s~~ll~~lLR 81 (238)
+..++.+....| |+.|++.+.. +|..+||-..|.|. +.....+|.-|+
T Consensus 143 ~~Gt~~~~~v~pRei~~~Al~~~A~-~iIl~HNHPSG~~~PS~~D~~~T~~l~ 194 (224)
T PRK00024 143 FIGTLNSSIVHPREIVKRALKLNAA-ALILAHNHPSGDPEPSQADILITKRLK 194 (224)
T ss_pred eeecCCeEEEcHHHHHHHHHHhhcc-ceEEEecCCCCCCCCCHHHHHHHHHHH
Confidence 333444444443 9999999975 99999999988654 333333554444
No 64
>cd05293 LDH_1 A subgroup of L-lactate dehydrogenases. L-lactate dehydrogenases (LDH) are tetrameric enzymes catalyzing the last step of glycolysis in which pyruvate is converted to L-lactate. This subgroup is composed of eukaryotic LDHs. Vertebrate LDHs are non-allosteric. This is in contrast to some bacterial LDHs that are activated by an allosteric effector such as fructose-1,6-bisphosphate. LDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=49.17 E-value=12 Score=33.56 Aligned_cols=54 Identities=19% Similarity=0.375 Sum_probs=31.2
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHH----HHHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQ----EKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q----~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..++||+||++.|.+.. +|.+|.++ =..- .++.+.+.+.+++ .+ +++..+|.++
T Consensus 68 ~~~~adivvitaG~~~k---~g~~R~dl--l~~N~~i~~~~~~~i~~~~p~-~~-vivvsNP~d~ 125 (312)
T cd05293 68 VTANSKVVIVTAGARQN---EGESRLDL--VQRNVDIFKGIIPKLVKYSPN-AI-LLVVSNPVDI 125 (312)
T ss_pred HhCCCCEEEECCCCCCC---CCCCHHHH--HHHHHHHHHHHHHHHHHhCCC-cE-EEEccChHHH
Confidence 36799999999986542 45565432 1112 2345556654443 44 3445799864
No 65
>PRK12569 hypothetical protein; Provisional
Probab=48.03 E-value=23 Score=30.80 Aligned_cols=74 Identities=19% Similarity=0.185 Sum_probs=48.6
Q ss_pred CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--------HHHHH
Q 039625 138 GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--------QEKLV 209 (238)
Q Consensus 138 ~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--------q~~li 209 (238)
.++|+=.. -+|+- |..|.+ .....+.+++|++.+|.| ...+++.+.+|+-|.++.++.. |...+
T Consensus 27 ~lmp~Its--aNIAC-G~HAGD---p~~M~~tv~lA~~~~V~I--GAHPsyPD~~gFGRr~m~~s~~el~~~v~yQigaL 98 (245)
T PRK12569 27 ALMPLISS--ANIAT-GFHAGD---PNIMRRTVELAKAHGVGI--GAHPGFRDLVGFGRRHINASPQELVNDVLYQLGAL 98 (245)
T ss_pred HHHHHhhh--HHHhc-cccCCC---HHHHHHHHHHHHHcCCEe--ccCCCCCcCCCCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 56776544 45554 333332 345678899999999876 2245567889999999999864 55556
Q ss_pred HHHHhhCCCc
Q 039625 210 MEVANATKGT 219 (238)
Q Consensus 210 ~~l~~~~~~~ 219 (238)
++++++.+.+
T Consensus 99 ~~~~~~~g~~ 108 (245)
T PRK12569 99 REFARAHGVR 108 (245)
T ss_pred HHHHHHcCCe
Confidence 6666655543
No 66
>cd05295 MDH_like Malate dehydrogenase-like. These MDH-like proteins are related to other groups in the MDH family but do not have conserved substrate and cofactor binding residues. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subgroup are uncharacterized MDH-like proteins from animals. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=47.92 E-value=14 Score=35.00 Aligned_cols=43 Identities=7% Similarity=0.156 Sum_probs=25.7
Q ss_pred HHHHHHhcCcceeEeecccC-------CCcccccCHHHHHHHHHHhhhhh
Q 039625 45 FKSCVKESHVSSVICSYNRV-------IGIPTCADPDLLKGVIKSQWGLD 87 (238)
Q Consensus 45 F~~ai~~g~~~~VM~sy~~v-------ng~pa~~s~~ll~~lLR~elgF~ 87 (238)
||..++.|.-+-..-.||.. -|.-+..+...|+.+-.+-+...
T Consensus 58 wrel~~rggkg~l~gg~~~f~e~~~~yyg~~s~m~~~~~~~i~~en~~~~ 107 (452)
T cd05295 58 WRELLDRGGKGLLLGGCNEFLEYAESYYGITSSMMSEEMTVIAEENLETH 107 (452)
T ss_pred HHHHHhcCCCceEecChHHHHHHHHHHhCccccccHHHHHHHHHHhHHHH
Confidence 67778878753334455532 45556666666666666655544
No 67
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=47.02 E-value=55 Score=26.23 Aligned_cols=57 Identities=16% Similarity=0.093 Sum_probs=36.4
Q ss_pred hHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHh--hCCCceEEEEecCcee
Q 039625 163 RLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVAN--ATKGTMILVVMAAGNV 230 (238)
Q Consensus 163 ~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~--~~~~~vVvV~~~g~P~ 230 (238)
.....+..+...+||.+|++.-. .+...|+.=..+|+.+.. -.+||++++..+|++.
T Consensus 56 ~~~~~~~~~~i~~AD~iIi~tP~-----------Y~~s~~~~LKn~lD~~~~~~l~~K~~~~v~~~g~~~ 114 (174)
T TIGR03566 56 PPDAERILQAIESADLLVVGSPV-----------YRGSYTGLFKHLFDLVDPNALIGKPVLLAATGGSER 114 (174)
T ss_pred CHHHHHHHHHHHHCCEEEEECCc-----------CcCcCcHHHHHHHHhcCHhHhCCCEEEEEEecCCcc
Confidence 34567788888999999877631 145566655566665431 2368887776655553
No 68
>TIGR01469 cobA_cysG_Cterm uroporphyrin-III C-methyltransferase. This model represents enzymes, or enzyme domains, with uroporphyrin-III C-methyltransferase activity. This enzyme catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). Cobalamin contains cobalt while siroheme contains iron. Siroheme is a cofactor for nitrite and sulfite reductases and therefore plays a role in cysteine biosynthesis; many members of this family are CysG, siroheme synthase, with an additional N-terminal domain and with additional oxidation and iron insertion activities.
Probab=46.89 E-value=96 Score=25.93 Aligned_cols=32 Identities=25% Similarity=0.349 Sum_probs=22.4
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
||.++|-...++ +....+|++..++||+++..
T Consensus 1 ~i~iVG~GpG~~--~~lT~~a~~~l~~advI~~~ 32 (236)
T TIGR01469 1 KVYLVGAGPGDP--ELLTLKALRLLQEADVVLYD 32 (236)
T ss_pred CEEEEecCCCCh--HHhHHHHHHHHHhCCEEEEe
Confidence 467777655433 23456788999999999873
No 69
>PTZ00325 malate dehydrogenase; Provisional
Probab=46.29 E-value=17 Score=32.71 Aligned_cols=57 Identities=26% Similarity=0.432 Sum_probs=32.9
Q ss_pred HHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCH---HHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 170 AKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHG---YQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~---~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+..+++|+||.+.|.+. .++.+|.++ +.. .-.++++++.+...+ -+ |+.+.+|++.
T Consensus 71 ~~~l~gaDvVVitaG~~~---~~~~tR~dl-l~~N~~i~~~i~~~i~~~~~~-~i-viv~SNPvdv 130 (321)
T PTZ00325 71 EKALRGADLVLICAGVPR---KPGMTRDDL-FNTNAPIVRDLVAAVASSAPK-AI-VGIVSNPVNS 130 (321)
T ss_pred HHHhCCCCEEEECCCCCC---CCCCCHHHH-HHHHHHHHHHHHHHHHHHCCC-eE-EEEecCcHHH
Confidence 456779999999999653 223344332 222 223566677664444 33 4445889864
No 70
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=45.99 E-value=68 Score=28.07 Aligned_cols=52 Identities=29% Similarity=0.387 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHhCceeccCCCCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHH-HhCCCCEEEEEeeCCCC
Q 039625 117 DDHKSLALDAAKQGIDSLDNKGALPLSSNNTKNLAVIGSNANATNRRLLIEQAAK-AAGTADVVVMVVGLDQS 188 (238)
Q Consensus 117 ~~~~~la~~~a~~sivLLkN~~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~-~a~~aD~vIv~~g~~~~ 188 (238)
...+-++++++..|+.| .++.++|.+ ...+.+++. +.+.+|++|+..|..++
T Consensus 21 tNa~~la~~L~~~G~~v--------------~~~~~VgD~------~~~I~~~l~~a~~r~D~vI~tGGLGPT 73 (255)
T COG1058 21 TNAAFLADELTELGVDL--------------ARITTVGDN------PDRIVEALREASERADVVITTGGLGPT 73 (255)
T ss_pred chHHHHHHHHHhcCceE--------------EEEEecCCC------HHHHHHHHHHHHhCCCEEEECCCcCCC
Confidence 44567888898888776 356777776 344545543 44569999999887653
No 71
>PTZ00117 malate dehydrogenase; Provisional
Probab=45.83 E-value=18 Score=32.47 Aligned_cols=56 Identities=18% Similarity=0.286 Sum_probs=32.4
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..++||+||++.|.+ ..+|.+|.++--+.. -.++.+++.+.+++ .+++ +..+|.++
T Consensus 70 ~l~~ADiVVitag~~---~~~g~~r~dll~~n~~i~~~i~~~i~~~~p~-a~vi-vvsNP~di 127 (319)
T PTZ00117 70 DIKDSDVVVITAGVQ---RKEEMTREDLLTINGKIMKSVAESVKKYCPN-AFVI-CVTNPLDC 127 (319)
T ss_pred HhCCCCEEEECCCCC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCC-eEEE-EecChHHH
Confidence 457999999999854 234555543222221 23566667665544 4433 34789865
No 72
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=45.21 E-value=82 Score=29.98 Aligned_cols=55 Identities=15% Similarity=0.238 Sum_probs=36.6
Q ss_pred HHhC-CCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceee
Q 039625 171 KAAG-TADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVD 231 (238)
Q Consensus 171 ~~a~-~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~ 231 (238)
+... .+|+.||++...+ . .+-.|.+ .-....++|++|.+ .++|.|+|+++..|+.
T Consensus 139 kVI~dhstIgivVtTDgs-i--~dI~Re~--y~~aEe~~i~eLk~-~~kPfiivlN~~dp~~ 194 (492)
T TIGR02836 139 KVIQEHSTIGVVVTTDGT-I--TDIPRED--YVEAEERVIEELKE-LNKPFIILLNSTHPYH 194 (492)
T ss_pred HHHHhcCcEEEEEEcCCC-c--ccccccc--chHHHHHHHHHHHh-cCCCEEEEEECcCCCC
Confidence 3444 8999998874221 0 0112222 33457789999987 7899999999999873
No 73
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=45.16 E-value=37 Score=26.50 Aligned_cols=15 Identities=33% Similarity=0.488 Sum_probs=11.8
Q ss_pred HHHhCCCCEEEEEee
Q 039625 170 AKAAGTADVVVMVVG 184 (238)
Q Consensus 170 ~~~a~~aD~vIv~~g 184 (238)
.+.++++|++++++=
T Consensus 3 ~~~l~~aD~il~VvD 17 (157)
T cd01858 3 YKVIDSSDVVIQVLD 17 (157)
T ss_pred hHhhhhCCEEEEEEE
Confidence 356789999998883
No 74
>PRK06136 uroporphyrin-III C-methyltransferase; Reviewed
Probab=44.93 E-value=1.9e+02 Score=24.41 Aligned_cols=33 Identities=18% Similarity=0.306 Sum_probs=24.0
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.++.++|-...++ +....+|++.+++||+|+..
T Consensus 3 g~l~iVGvGpGdp--~~lT~~A~~~L~~advI~~~ 35 (249)
T PRK06136 3 GKVYLVGAGPGDP--DLITLKGVRLLEQADVVLYD 35 (249)
T ss_pred cEEEEEEECCCCh--HHHHHHHHHHHhcCCEEEEc
Confidence 4688887665443 34456899999999999863
No 75
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=44.92 E-value=1e+02 Score=25.70 Aligned_cols=32 Identities=25% Similarity=0.200 Sum_probs=21.9
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|..-. ...++++.+.++++|++|+ +|+
T Consensus 133 ~VV~FgE~lp----~~~~~~a~~~~~~aDlllv-iGT 164 (206)
T cd01410 133 TIVDFGERLP----PENWMGAAAAACRADLFLC-LGT 164 (206)
T ss_pred cEEECCCCCC----HHHHHHHHHHHhcCCEEEE-ECc
Confidence 4777776432 3346788888889998776 453
No 76
>cd01409 SIRT4 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=44.06 E-value=88 Score=27.20 Aligned_cols=32 Identities=25% Similarity=0.380 Sum_probs=21.4
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|..-. ...+.++.+.+++||++|| +|+
T Consensus 182 ~VV~FGE~lp----~~~~~~a~~~~~~aDlllv-iGT 213 (260)
T cd01409 182 DVVFFGENVP----RDRVVTAAARLAEADALLV-LGS 213 (260)
T ss_pred CEEECCCCCC----HHHHHHHHHHHhcCCEEEE-eCc
Confidence 4666665322 3457788888889998776 553
No 77
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=43.66 E-value=78 Score=26.71 Aligned_cols=55 Identities=16% Similarity=0.169 Sum_probs=39.9
Q ss_pred HHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhh---------------CCCceEEEEecCcee
Q 039625 166 IEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANA---------------TKGTMILVVMAAGNV 230 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~---------------~~~~vVvV~~~g~P~ 230 (238)
.++.+.....||.+|++.. .-|+.+|..-...|+.++-+ .+|+++++...|++|
T Consensus 78 sd~l~~ef~aAD~vVi~~P-----------M~Nf~iPa~LK~yiD~i~~aGkTFkYte~Gp~GLl~gKKv~~l~srGG~y 146 (202)
T COG1182 78 SDKLLEEFLAADKVVIAAP-----------MYNFNIPAQLKAYIDHIAVAGKTFKYTENGPVGLLTGKKVLILTSRGGIY 146 (202)
T ss_pred HHHHHHHHHhcCeEEEEec-----------ccccCCCHHHHHHHHHHhcCCceEEeccCCcccccCCceEEEEECCCCcC
Confidence 3556677789999988774 24889998878888877642 246677777678877
Q ss_pred e
Q 039625 231 D 231 (238)
Q Consensus 231 ~ 231 (238)
.
T Consensus 147 ~ 147 (202)
T COG1182 147 S 147 (202)
T ss_pred C
Confidence 4
No 78
>PTZ00409 Sir2 (Silent Information Regulator) protein; Provisional
Probab=43.47 E-value=1.2e+02 Score=26.74 Aligned_cols=32 Identities=28% Similarity=0.498 Sum_probs=22.1
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|..-. ...++++.+.+++||++|| +|+
T Consensus 177 ~VV~FGE~lp----~~~~~~a~~~~~~aDlllv-iGT 208 (271)
T PTZ00409 177 NVILFGEVIP----KSLLKQAEKEIDKCDLLLV-VGT 208 (271)
T ss_pred cEEEeCCcCC----HHHHHHHHHHHHcCCEEEE-ECC
Confidence 4667776432 3456778888899999877 554
No 79
>cd01339 LDH-like_MDH L-lactate dehydrogenase-like malate dehydrogenase proteins. Members of this subfamily have an LDH-like structure and an MDH enzymatic activity. Some members, like MJ0490 from Methanococcus jannaschii, exhibit both MDH and LDH activities. Tetrameric MDHs, including those from phototrophic bacteria, are more similar to LDHs than to other MDHs. LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH-like MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenas
Probab=42.77 E-value=23 Score=31.19 Aligned_cols=55 Identities=20% Similarity=0.411 Sum_probs=30.8
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH---HHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY---QEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~---q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+++||+||+++|.+. .+|.+|.. .++.+ -.++++++.+.+++ -++++ ..+|.++
T Consensus 63 ~l~dADiVIit~g~p~---~~~~~r~e-~~~~n~~i~~~i~~~i~~~~p~-~~iIv-~sNP~di 120 (300)
T cd01339 63 DIAGSDVVVITAGIPR---KPGMSRDD-LLGTNAKIVKEVAENIKKYAPN-AIVIV-VTNPLDV 120 (300)
T ss_pred HhCCCCEEEEecCCCC---CcCCCHHH-HHHHHHHHHHHHHHHHHHHCCC-eEEEE-ecCcHHH
Confidence 3689999999998653 23434431 11111 22455666665543 44344 4699865
No 80
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=42.48 E-value=1.9e+02 Score=25.15 Aligned_cols=81 Identities=19% Similarity=0.195 Sum_probs=42.7
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCC------cccc----CCCCCCCCCCHHH-HHHHHHHHhhC
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQS------IEAE----GLDKENLTLHGYQ-EKLVMEVANAT 216 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~------~~~e----g~Dr~~l~l~~~q-~~li~~l~~~~ 216 (238)
.+|.++|....++. -..-++.+..++||+++.--=-+.. .+.| |.-......+++. .+++.+.+. .
T Consensus 4 GkV~lVGAGPGdp~--LLTlka~~~L~~ADvvlyD~LV~~~il~~~~~~a~~i~vGkr~g~~~~~q~eIn~~lv~~a~-~ 80 (244)
T COG0007 4 GKVYLVGAGPGDPG--LLTLRALRALQEADVVLYDRLVPEEVLALARRDAERIYVGKRPGGHSKPQDEINALLVELAR-E 80 (244)
T ss_pred ceEEEEecCCCChh--hhhHHHHHHHhhCCEEEEcCcCCHHHHHhhccCCEEEEecCcCCCCCCCHHHHHHHHHHHHh-c
Confidence 68999987665542 2234567777778877652100000 0000 0000112233322 245556665 4
Q ss_pred CCceEEEEecCceeec
Q 039625 217 KGTMILVVMAAGNVDV 232 (238)
Q Consensus 217 ~~~vVvV~~~g~P~~l 232 (238)
++ .||-+-.|.|+.+
T Consensus 81 G~-~VVRLKgGDP~iF 95 (244)
T COG0007 81 GK-RVVRLKGGDPYIF 95 (244)
T ss_pred CC-eEEEecCCCCCee
Confidence 65 6678999999976
No 81
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=42.23 E-value=1.1e+02 Score=22.41 Aligned_cols=47 Identities=13% Similarity=0.185 Sum_probs=27.6
Q ss_pred HHHHHHHHHh-CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEE
Q 039625 164 LLIEQAAKAA-GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVV 224 (238)
Q Consensus 164 ~~~~~a~~~a-~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~ 224 (238)
+.+.++++.+ ++-|+.|+++.+.- + ..-.+.++.+......|+|+.+
T Consensus 30 ee~~~~l~~l~~~~d~gII~Ite~~-----------~---~~i~e~i~~~~~~~~~P~ii~I 77 (100)
T PRK02228 30 EKLDEAVEEVLEDDDVGILVMHDDD-----------L---EKLPRRLRRTLEESVEPTVVTL 77 (100)
T ss_pred HHHHHHHHHHhhCCCEEEEEEehhH-----------h---HhhHHHHHHHHhcCCCCEEEEE
Confidence 3455566543 78899999996431 0 0112455554444567888766
No 82
>PLN00106 malate dehydrogenase
Probab=41.73 E-value=28 Score=31.46 Aligned_cols=57 Identities=21% Similarity=0.351 Sum_probs=33.3
Q ss_pred HHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH---HHHHHHHHHhhCCCceEEEEecCceee
Q 039625 169 AAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY---QEKLVMEVANATKGTMILVVMAAGNVD 231 (238)
Q Consensus 169 a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~---q~~li~~l~~~~~~~vVvV~~~g~P~~ 231 (238)
..+..+++|+||+..|.+. .+|.+|.++ ++.+ =.++++++.+..+. .+ |++..+|.+
T Consensus 80 ~~~~l~~aDiVVitAG~~~---~~g~~R~dl-l~~N~~i~~~i~~~i~~~~p~-ai-vivvSNPvD 139 (323)
T PLN00106 80 LGDALKGADLVIIPAGVPR---KPGMTRDDL-FNINAGIVKTLCEAVAKHCPN-AL-VNIISNPVN 139 (323)
T ss_pred HHHHcCCCCEEEEeCCCCC---CCCCCHHHH-HHHHHHHHHHHHHHHHHHCCC-eE-EEEeCCCcc
Confidence 3456789999999998653 234455332 2221 12455666664443 44 445589997
No 83
>PF11071 DUF2872: Protein of unknown function (DUF2872); InterPro: IPR019884 This entry represents a family of uncharacterised proteins, including YtoQ from Bacillus subtilis. This family shows some sequence similarity to a family of nucleoside 2-deoxyribosyltransferases (COG3613 as iterated through CDD), but sufficiently remote that PSI-BLAST starting from YtoQ and exploring outwards does not discover the relationship.
Probab=40.87 E-value=58 Score=25.63 Aligned_cols=18 Identities=33% Similarity=0.348 Sum_probs=14.6
Q ss_pred HHHHhCCCCEEEEEeeCC
Q 039625 169 AAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 169 a~~~a~~aD~vIv~~g~~ 186 (238)
.....++||+||+-.|+.
T Consensus 66 T~~li~~aDvVVvrFGek 83 (141)
T PF11071_consen 66 TRTLIEKADVVVVRFGEK 83 (141)
T ss_pred HHHHHhhCCEEEEEechH
Confidence 445788999999999864
No 84
>PRK01355 azoreductase; Reviewed
Probab=40.73 E-value=1e+02 Score=25.35 Aligned_cols=56 Identities=11% Similarity=0.141 Sum_probs=36.9
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhh------------------CCCceEEEEe
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANA------------------TKGTMILVVM 225 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~------------------~~~~vVvV~~ 225 (238)
....+..+...+||.+|++.=. -++..|+.-..+|+.+... .+|+++++..
T Consensus 66 ~~~~~~~~~l~~AD~iV~~sP~-----------y~~~ipa~LK~~iDrv~~~~~~f~y~~~~~~~~~gll~~kk~~vi~T 134 (199)
T PRK01355 66 EVSDKYINQLKSVDKVVISCPM-----------TNFNVPATLKNYLDHIAVANKTFSYKYSKKGDAIGLLDHLKVQILTT 134 (199)
T ss_pred hhHHHHHHHHHhCCEEEEEcCc-----------cccCChHHHHHHHHHHHhcCCceEecccCCCCcccccCCCEEEEEEe
Confidence 4556778888999999987621 2566676666677776321 2455777777
Q ss_pred cCcee
Q 039625 226 AAGNV 230 (238)
Q Consensus 226 ~g~P~ 230 (238)
+|+|.
T Consensus 135 ~G~~~ 139 (199)
T PRK01355 135 QGAPL 139 (199)
T ss_pred cCCCC
Confidence 78763
No 85
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=40.23 E-value=1.5e+02 Score=22.38 Aligned_cols=16 Identities=19% Similarity=0.171 Sum_probs=11.8
Q ss_pred HHHHhCCCCEEEEEee
Q 039625 169 AAKAAGTADVVVMVVG 184 (238)
Q Consensus 169 a~~~a~~aD~vIv~~g 184 (238)
.....+.+|++|++..
T Consensus 66 ~~~~~~~~~~ii~v~d 81 (161)
T cd01861 66 IPSYIRDSSVAVVVYD 81 (161)
T ss_pred HHHHhccCCEEEEEEE
Confidence 3445788999888875
No 86
>PRK05406 LamB/YcsF family protein; Provisional
Probab=40.17 E-value=54 Score=28.53 Aligned_cols=76 Identities=22% Similarity=0.326 Sum_probs=48.6
Q ss_pred cCC-CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--------H
Q 039625 135 DNK-GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--------Q 205 (238)
Q Consensus 135 kN~-~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--------q 205 (238)
.|+ .++|+=.. -+|+- |..|.+ .....+.+++|++.+|.| ...+++.+-+|+-|.++.++.. |
T Consensus 20 g~D~~lmp~Iss--ANIAC-G~HAGD---p~~M~~tv~lA~~~gV~I--GAHPgypD~~gFGRR~m~~s~~el~~~v~yQ 91 (246)
T PRK05406 20 GDDEALLPLVTS--ANIAC-GFHAGD---PAVMRRTVRLAKENGVAI--GAHPGYPDLEGFGRRNMDLSPEELYALVLYQ 91 (246)
T ss_pred CCHHHHHHHhhh--HHHhc-cccCCC---HHHHHHHHHHHHHcCCeE--ccCCCCCccCCCCCCCCCCCHHHHHHHHHHH
Confidence 345 66776544 45554 333333 345678899999999876 2245567889999999999864 4
Q ss_pred HHHHHHHHhhCCC
Q 039625 206 EKLVMEVANATKG 218 (238)
Q Consensus 206 ~~li~~l~~~~~~ 218 (238)
...++++++..+.
T Consensus 92 igAL~~~a~~~g~ 104 (246)
T PRK05406 92 IGALQAIARAAGG 104 (246)
T ss_pred HHHHHHHHHHcCC
Confidence 4455555554443
No 87
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=40.02 E-value=1.4e+02 Score=24.60 Aligned_cols=21 Identities=24% Similarity=0.284 Sum_probs=16.4
Q ss_pred HHHHHHHHHhCCCCEEEEEee
Q 039625 164 LLIEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g 184 (238)
..+.++...+..+|++|+++.
T Consensus 77 ~~~~~~~~~~~~~D~~ilVvd 97 (195)
T cd01884 77 DYIKNMITGAAQMDGAILVVS 97 (195)
T ss_pred HHHHHHHHHhhhCCEEEEEEE
Confidence 345667777889999999986
No 88
>PRK09739 hypothetical protein; Provisional
Probab=39.88 E-value=73 Score=26.14 Aligned_cols=57 Identities=16% Similarity=0.097 Sum_probs=37.6
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHh----------hCCCceEEEEecCceee
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVAN----------ATKGTMILVVMAAGNVD 231 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~----------~~~~~vVvV~~~g~P~~ 231 (238)
...++..+...+||.+|++.=. -++..|..=..+|+.+.. -.+++++++..+|++..
T Consensus 68 ~~~~~~~~~l~~AD~iV~~~P~-----------y~~~~Pa~LK~~iD~v~~~g~~y~~~~~l~~k~~~~v~t~g~~~~ 134 (199)
T PRK09739 68 PEVHQLYSELLEHDALVFVFPL-----------WWYSFPAMLKGYIDRVWNNGLAYGDGHKLPFNKVRWVALVGGSKE 134 (199)
T ss_pred HHHHHHHHHHHhCCEEEEECch-----------hhhcchHHHHHHHHHHccccccccCCccCCCCeEEEEEecCCChH
Confidence 4467778888899999987521 246666655667776531 12567877777777653
No 89
>PRK06223 malate dehydrogenase; Reviewed
Probab=39.68 E-value=22 Score=31.29 Aligned_cols=56 Identities=20% Similarity=0.348 Sum_probs=29.3
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCC--HHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLH--GYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~--~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
.+++||+||+++|.+. .+|.+|..+-.- +--.++++.+.+.+++ -++++ ..+|.++
T Consensus 67 ~~~~aDiVii~~~~p~---~~~~~r~~~~~~n~~i~~~i~~~i~~~~~~-~~viv-~tNP~d~ 124 (307)
T PRK06223 67 DIAGSDVVVITAGVPR---KPGMSRDDLLGINAKIMKDVAEGIKKYAPD-AIVIV-VTNPVDA 124 (307)
T ss_pred HHCCCCEEEECCCCCC---CcCCCHHHHHHHHHHHHHHHHHHHHHHCCC-eEEEE-ecCcHHH
Confidence 4679999999998653 234343211100 0112445555554444 33333 3789865
No 90
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=38.72 E-value=89 Score=25.14 Aligned_cols=22 Identities=18% Similarity=0.291 Sum_probs=14.6
Q ss_pred HHHHHHhCCCCEEEEEeeCCCC
Q 039625 167 EQAAKAAGTADVVVMVVGLDQS 188 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~ 188 (238)
.++++..+.+|+||+.+|.+-.
T Consensus 57 ~~~l~~~~~pdlVii~~G~ND~ 78 (198)
T cd01821 57 DAILKLIKPGDYVLIQFGHNDQ 78 (198)
T ss_pred HHHHhhCCCCCEEEEECCCCCC
Confidence 3444444578999988887643
No 91
>PLN02625 uroporphyrin-III C-methyltransferase
Probab=38.67 E-value=2.6e+02 Score=24.11 Aligned_cols=33 Identities=30% Similarity=0.380 Sum_probs=24.9
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.+|.++|-...++ +...-++++.+++||+|+..
T Consensus 15 g~l~vVG~GpGdp--~~LTl~a~~~l~~ADvI~~~ 47 (263)
T PLN02625 15 GNVFLVGTGPGDP--DLLTLKALRLLQTADVVLYD 47 (263)
T ss_pred CEEEEEEeCCCCh--HHhHHHHHHHHhcCCEEEEe
Confidence 6899998766544 23456788999999999873
No 92
>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=38.16 E-value=1.2e+02 Score=25.95 Aligned_cols=43 Identities=23% Similarity=0.292 Sum_probs=27.0
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH-H-HHHHHHHHhhCCCceEEEEe
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY-Q-EKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~-q-~~li~~l~~~~~~~vVvV~~ 225 (238)
.+++.|+|++-- ..+||+.-.. | -++++.++...+|.+|+|++
T Consensus 150 laQdTdyvlLDE-----------PLNNLDmkHsv~iMk~Lrrla~el~KtiviVlH 194 (252)
T COG4604 150 LAQDTDYVLLDE-----------PLNNLDMKHSVQIMKILRRLADELGKTIVVVLH 194 (252)
T ss_pred eeccCcEEEecC-----------cccccchHHHHHHHHHHHHHHHHhCCeEEEEEe
Confidence 466778876432 2246665543 2 26788888778887777765
No 93
>PRK15473 cbiF cobalt-precorrin-4 C(11)-methyltransferase; Provisional
Probab=37.50 E-value=1.2e+02 Score=26.05 Aligned_cols=33 Identities=15% Similarity=0.273 Sum_probs=24.2
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.+|.++|-...++ +...-+|++..++||+++..
T Consensus 8 ~~l~iVG~GpG~~--~~lT~~A~~~L~~advv~~~ 40 (257)
T PRK15473 8 RCVWFVGAGPGDK--ELITLKGYRLLQQAQVVIYA 40 (257)
T ss_pred CEEEEEEeCCCCh--HHhhHHHHHHHHhCCEEEEe
Confidence 5788888765543 23456788999999999864
No 94
>cd00650 LDH_MDH_like NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family. Members of this family include ubiquitous enzymes like L-lactate dehydrogenases (LDH), L-2-hydroxyisocaproate dehydrogenases, and some malate dehydrogenases (MDH). LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH/MDH-like proteins are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains
Probab=37.05 E-value=32 Score=29.67 Aligned_cols=57 Identities=19% Similarity=0.349 Sum_probs=30.3
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCH--HHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHG--YQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~--~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+..++||+||+..|.+. . +|.+|..+..-. --+++.+++.+.+++ .++++ ..+|.++
T Consensus 66 ~~~~~aDiVv~t~~~~~-~--~g~~r~~~~~~n~~i~~~i~~~i~~~~p~-a~~i~-~tNP~d~ 124 (263)
T cd00650 66 EAFKDADVVIITAGVGR-K--PGMGRLDLLKRNVPIVKEIGDNIEKYSPD-AWIIV-VSNPVDI 124 (263)
T ss_pred HHhCCCCEEEECCCCCC-C--cCCCHHHHHHHHHHHHHHHHHHHHHHCCC-eEEEE-ecCcHHH
Confidence 44679999999988553 2 233332111110 112445556554443 54444 4799864
No 95
>PRK05765 precorrin-3B C17-methyltransferase; Provisional
Probab=36.88 E-value=76 Score=27.21 Aligned_cols=32 Identities=16% Similarity=0.244 Sum_probs=23.1
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVM 181 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv 181 (238)
.+|.++|-...++ +...-++++.+++||+|+.
T Consensus 2 g~v~iVG~GpGdp--~~lT~ra~~~L~~AdvV~~ 33 (246)
T PRK05765 2 GKLYIVGIGPGSK--EQRTIKAQEAIEKSNVIIG 33 (246)
T ss_pred CEEEEEEcCCCCh--HHhhHHHHHHHHhCCEEEE
Confidence 4688888765544 2344678889999999883
No 96
>TIGR00732 dprA DNA protecting protein DprA. Disruption of this gene in both Haemophilus influenzae and Helicobacter pylori drastically reduces the efficiency of transformation with exogenous DNA, but with different levels of effect on chromosomal (linear) and plasmid (circular) DNA. This difference suggests the DprA is not active in recombination, and it has been shown not to affect DNA binding, leaving the intermediate step in natural transformation, DNA processing. In Strep. pneumoniae, inactivation of dprA had no effect on the uptake of DNA. All of these data indicated that DprA is required at a later stage in transformation. Subsequently DprA and RecA were both shown in S. pneumoniae to be required to protect incoming ssDNA from immediate degradation. Role of DprA in non-transformable species is not known. The gene symbol smf was assigned in E. coli, but without assignment of function.
Probab=36.67 E-value=1.8e+02 Score=24.64 Aligned_cols=37 Identities=11% Similarity=0.172 Sum_probs=20.6
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEee
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g 184 (238)
.+|+|+|....+........+....+.+.+++||..+
T Consensus 45 ~~iaIvGsR~~s~~~~~~a~~l~~~l~~~g~~IVSG~ 81 (220)
T TIGR00732 45 RKVAIVGTRRPTKYGERWTRKLAEELAKNGVTIVSGL 81 (220)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHHHHhCCCEEEcCc
Confidence 6799999875433322222333444456677766543
No 97
>TIGR03646 YtoQ_fam YtoQ family protein. Members of this family are uncharacterized proteins, including YtoQ from Bacillus subtilis. This family shows some sequence similarity to a family of nucleoside 2-deoxyribosyltransferases (COG3613 as iterated through CDD), but sufficiently remote that PSI-BLAST starting from YtoQ and exploring outwards does not discover the relationship.
Probab=36.20 E-value=75 Score=25.08 Aligned_cols=19 Identities=32% Similarity=0.431 Sum_probs=15.1
Q ss_pred HHHHHhCCCCEEEEEeeCC
Q 039625 168 QAAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~ 186 (238)
+.....++||+|||-.|+.
T Consensus 68 RT~~li~~aDvvVvrFGek 86 (144)
T TIGR03646 68 RTRKLIEKADVVIALFGEK 86 (144)
T ss_pred HHHHHHhhCCEEEEEechH
Confidence 3456788999999999854
No 98
>PRK05576 cobalt-precorrin-2 C(20)-methyltransferase; Validated
Probab=36.16 E-value=98 Score=26.05 Aligned_cols=33 Identities=33% Similarity=0.304 Sum_probs=23.7
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.+|.++|-+...+ +....++++.+++||+|+..
T Consensus 2 ~~l~vVG~GpG~~--~~lT~~a~~~l~~advV~~~ 34 (229)
T PRK05576 2 GKLYGIGLGPGDP--ELLTVKAARILEEADVVYAP 34 (229)
T ss_pred CEEEEEEeCCCCh--HHHHHHHHHHHhcCCEEEEE
Confidence 3678877665433 24456889999999999865
No 99
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=35.91 E-value=1.8e+02 Score=21.71 Aligned_cols=45 Identities=33% Similarity=0.367 Sum_probs=25.9
Q ss_pred HHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 168 QAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
......+.+|++|+++.... .. ...+.++++.+.. .+.|+|+|++
T Consensus 69 ~~~~~~~~~d~ii~v~d~~~----------~~--~~~~~~~~~~~~~-~~~piiiv~n 113 (157)
T cd01894 69 QAELAIEEADVILFVVDGRE----------GL--TPADEEIAKYLRK-SKKPVILVVN 113 (157)
T ss_pred HHHHHHHhCCEEEEEEeccc----------cC--CccHHHHHHHHHh-cCCCEEEEEE
Confidence 44456778999999885321 01 1123345555544 4678877665
No 100
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=35.20 E-value=1.3e+02 Score=25.83 Aligned_cols=45 Identities=27% Similarity=0.333 Sum_probs=27.0
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..+...++++|++++++-.+. .. . .+..+++.+.. .++|+++|++
T Consensus 71 ~~~~~~l~~aDvvl~VvD~~~--------~~----~-~~~~i~~~l~~-~~~p~ilV~N 115 (270)
T TIGR00436 71 KEARSAIGGVDLILFVVDSDQ--------WN----G-DGEFVLTKLQN-LKRPVVLTRN 115 (270)
T ss_pred HHHHHHHhhCCEEEEEEECCC--------CC----c-hHHHHHHHHHh-cCCCEEEEEE
Confidence 345667789999999884221 00 1 12345555554 5678887765
No 101
>PRK00089 era GTPase Era; Reviewed
Probab=35.16 E-value=1.3e+02 Score=25.99 Aligned_cols=46 Identities=24% Similarity=0.307 Sum_probs=27.8
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..+.....++|++++++-... .+......+++.+.. .++|+++|++
T Consensus 76 ~~~~~~~~~~D~il~vvd~~~------------~~~~~~~~i~~~l~~-~~~pvilVlN 121 (292)
T PRK00089 76 KAAWSSLKDVDLVLFVVDADE------------KIGPGDEFILEKLKK-VKTPVILVLN 121 (292)
T ss_pred HHHHHHHhcCCEEEEEEeCCC------------CCChhHHHHHHHHhh-cCCCEEEEEE
Confidence 445566789999999885321 122234455555553 4568877765
No 102
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=34.98 E-value=1.6e+02 Score=25.23 Aligned_cols=34 Identities=15% Similarity=0.134 Sum_probs=23.1
Q ss_pred CCcccccCHHHHHHHHHHh------hhhhHHHHHHhcCCC
Q 039625 65 IGIPTCADPDLLKGVIKSQ------WGLDWLKNMRLGFFD 98 (238)
Q Consensus 65 ng~pa~~s~~ll~~lLR~e------lgF~L~~k~~~G~~~ 98 (238)
||..++.|+.-+...|.+. -||++.+.+=+|.|.
T Consensus 61 DG~~V~ls~~~v~~~lq~~i~~le~~G~d~illlCTG~F~ 100 (221)
T PF07302_consen 61 DGTQVVLSKKKVEPRLQACIAQLEAQGYDVILLLCTGEFP 100 (221)
T ss_pred CCCEEEEEHHHHHHHHHHHHHHHHHCCCCEEEEeccCCCC
Confidence 7999999999888777753 344433444456666
No 103
>COG0373 HemA Glutamyl-tRNA reductase [Coenzyme metabolism]
Probab=34.90 E-value=92 Score=29.25 Aligned_cols=53 Identities=21% Similarity=0.258 Sum_probs=31.7
Q ss_pred HHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeecCC
Q 039625 166 IEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDVSF 234 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l~~ 234 (238)
+++......++|+||.++|.+.. -++ ...++...+ ..+..+ ++=.+.|.+++|
T Consensus 229 l~el~~~l~~~DvVissTsa~~~-----------ii~---~~~ve~a~~-~r~~~l-ivDiavPRdie~ 281 (414)
T COG0373 229 LEELLEALAEADVVISSTSAPHP-----------IIT---REMVERALK-IRKRLL-IVDIAVPRDVEP 281 (414)
T ss_pred HHHHHHhhhhCCEEEEecCCCcc-----------ccC---HHHHHHHHh-cccCeE-EEEecCCCCCCc
Confidence 35666778899999999886532 111 234444433 234433 334589998865
No 104
>PF04002 RadC: RadC-like JAB domain; InterPro: IPR001405 This family was named initially with reference to the Escherichia coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions []. However the relevant mutation has subsequently been shown to be in recG, not radC []. In addition all attempts to characterise a radiation-related function for RadC in Streptococcus pneumoniae failed, suggesting that it is not involved in repair of DNA lesions, in recombination during transformation, in gene conversion, nor in mismatch repair [].; PDB: 2QLC_A.
Probab=34.86 E-value=47 Score=25.36 Aligned_cols=37 Identities=24% Similarity=0.247 Sum_probs=22.9
Q ss_pred HHHHHHHhcCcceeEeecccCCCccc-ccCHHHHHHHHH
Q 039625 44 PFKSCVKESHVSSVICSYNRVIGIPT-CADPDLLKGVIK 81 (238)
Q Consensus 44 PF~~ai~~g~~~~VM~sy~~vng~pa-~~s~~ll~~lLR 81 (238)
-|++|++.+.. +|+.+||-.+|.|. +....-+|.-|+
T Consensus 56 I~~~al~~~A~-~vIl~HNHPsG~~~PS~~D~~~T~~L~ 93 (123)
T PF04002_consen 56 IFRRALRLNAS-SVILAHNHPSGDPEPSDADIALTRRLK 93 (123)
T ss_dssp HHHHHHHTT-S-EEEEEEE-TTS--S--HHHHHHHHHHH
T ss_pred HHHHHHhhCCc-eEEEEEEcCCCCCCCCHhHHHHHHHHH
Confidence 38999999875 99999999888643 333334554444
No 105
>cd05292 LDH_2 A subgroup of L-lactate dehydrogenases. L-lactate dehydrogenases (LDH) are tetrameric enzymes catalyzing the last step of glycolysis in which pyruvate is converted to L-lactate. This subgroup is composed predominantly of bacterial LDHs and a few fungal LDHs. Bacterial LDHs may be non-allosteric or may be activated by an allosteric effector such as fructose-1,6-bisphosphate. LDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=34.67 E-value=33 Score=30.50 Aligned_cols=54 Identities=28% Similarity=0.380 Sum_probs=30.1
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHH----HHHHHHHhhCCCceEEEEecCceeec
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQE----KLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~----~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
..++||++|++.|.+. .+|.+|.++ -.... ++++.+.+.. .+.++++ ..+|.++
T Consensus 64 ~l~~aDiViita~~~~---~~~~~r~dl--~~~n~~i~~~~~~~l~~~~-~~giiiv-~tNP~d~ 121 (308)
T cd05292 64 DCKGADVVVITAGANQ---KPGETRLDL--LKRNVAIFKEIIPQILKYA-PDAILLV-VTNPVDV 121 (308)
T ss_pred HhCCCCEEEEccCCCC---CCCCCHHHH--HHHHHHHHHHHHHHHHHHC-CCeEEEE-ecCcHHH
Confidence 4789999999998653 234444322 12222 3445555533 3354444 4789865
No 106
>PF03746 LamB_YcsF: LamB/YcsF family; InterPro: IPR005501 This entry represents the uncharacterised protein family UPF0271, including LamB. The lam locus of Emericella nidulans (Aspergillus nidulans) consists of two divergently transcribed genes, lamA and lamB, involved in the utilization of lactams such as 2-pyrrolidinone. Both genes are under the control of the positive regulatory gene amdR and are subject to carbon and nitrogen metabolite repression []. The exact molecular function of the proteins in this family is unknown.; PDB: 1V6T_A 1XW8_A 2XU2_A 2DFA_A.
Probab=34.50 E-value=59 Score=28.21 Aligned_cols=76 Identities=17% Similarity=0.220 Sum_probs=37.6
Q ss_pred CC-CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH--------HH
Q 039625 136 NK-GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY--------QE 206 (238)
Q Consensus 136 N~-~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~--------q~ 206 (238)
++ .++|+=.. -+|+- |..|.+ .....+.+++|++.++.|= ..+++.+.+|+-|..+.++.. |.
T Consensus 19 ~D~~lmp~I~s--aNIAC-G~HAGD---p~~M~~tv~lA~~~gV~iG--AHPsyPD~~gFGRr~m~~s~~el~~~v~yQi 90 (242)
T PF03746_consen 19 DDEALMPYISS--ANIAC-GFHAGD---PETMRRTVRLAKEHGVAIG--AHPSYPDREGFGRRSMDISPEELRDSVLYQI 90 (242)
T ss_dssp -HHHHTTT-SE--EEEE--SSSS-----HHHHHHHHHHHHHTT-EEE--EE---S-TTTTT-S-----HHHHHHHHHHHH
T ss_pred CHHHHHHHhhh--HHHhh-cccccC---HHHHHHHHHHHHHcCCEec--cCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
Confidence 44 67787643 44544 444443 3456788888999997662 245567889999999999864 55
Q ss_pred HHHHHHHhhCCCc
Q 039625 207 KLVMEVANATKGT 219 (238)
Q Consensus 207 ~li~~l~~~~~~~ 219 (238)
..++++++..+.+
T Consensus 91 gaL~~~a~~~g~~ 103 (242)
T PF03746_consen 91 GALQAIAAAEGVP 103 (242)
T ss_dssp HHHHHHHHHTT--
T ss_pred HHHHHHHHHcCCe
Confidence 5566666555543
No 107
>PF04187 DUF399: Protein of unknown function, DUF399; InterPro: IPR007314 No function is known for any member of this family.; PDB: 2G5G_X.
Probab=34.06 E-value=58 Score=27.39 Aligned_cols=48 Identities=29% Similarity=0.340 Sum_probs=27.5
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEE
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVV 224 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~ 224 (238)
.+++.++.+..+|+|+ +|+.. | +-.-..-|.++|+++.+. +.++++.+
T Consensus 3 s~~~l~~~l~~~~vVl--lGE~H-------d--n~~~H~~Ql~ll~~L~~~-~~~~al~l 50 (213)
T PF04187_consen 3 SFEQLIKQLANADVVL--LGEQH-------D--NPDHHRLQLELLRALYAQ-RPPLALGL 50 (213)
T ss_dssp -HHHHHHHHTT-SEEE--EEE-T-------T---HHHHHHHHHHHHHHHHT-T--EEEEE
T ss_pred CHHHHHHHHhCCCEEE--ECCCC-------C--CHHHHHHHHHHHHHHHhc-CCCCEEEE
Confidence 3567788889999877 55432 1 222234588999999764 44565443
No 108
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=33.97 E-value=1.5e+02 Score=25.38 Aligned_cols=32 Identities=16% Similarity=0.368 Sum_probs=22.3
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|.... ...++++.+.+.+||++|| +|+
T Consensus 156 ~Vv~FgE~~p----~~~~~~~~~~~~~aDl~lv-iGT 187 (244)
T PRK14138 156 NIVFFGEALP----QDALREAIRLSSKASLMIV-MGS 187 (244)
T ss_pred CEEECCCcCC----HHHHHHHHHHHhcCCEEEE-eCc
Confidence 4677776433 3457788888899999877 453
No 109
>PF12982 DUF3866: Protein of unknown function (DUF3866); InterPro: IPR024479 This family of proteins is currently functionally uncharacterised.
Probab=33.81 E-value=3.2e+02 Score=24.72 Aligned_cols=43 Identities=23% Similarity=0.316 Sum_probs=27.8
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCH-HHHHHHHHHHhhCCCce
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHG-YQEKLVMEVANATKGTM 220 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~-~q~~li~~l~~~~~~~v 220 (238)
.-+||++||..|.. .-|.| +.+.+++ .|-+.|.++..--++|+
T Consensus 173 v~~ADv~iV~~GPG--ivGTG---T~~GFSGv~~g~~inAv~~LgG~pv 216 (320)
T PF12982_consen 173 VLKADVAIVAMGPG--IVGTG---TKWGFSGVEQGEIINAVAALGGRPV 216 (320)
T ss_pred HhCCCEEEEecCCC--ccCCC---CCCcccHHHHHHHHHHHHHhCCeEE
Confidence 34899999998842 23333 4567776 45578888776345544
No 110
>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]
Probab=33.74 E-value=58 Score=31.55 Aligned_cols=11 Identities=27% Similarity=0.661 Sum_probs=6.8
Q ss_pred CcEEEEccCCC
Q 039625 148 KNLAVIGSNAN 158 (238)
Q Consensus 148 ~~i~viG~~a~ 158 (238)
.-++||||.+.
T Consensus 363 ~~lgIIGPSgS 373 (580)
T COG4618 363 EALGIIGPSGS 373 (580)
T ss_pred ceEEEECCCCc
Confidence 45667777653
No 111
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=33.73 E-value=1.7e+02 Score=22.53 Aligned_cols=47 Identities=26% Similarity=0.340 Sum_probs=27.9
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
+-+.+.+..+|++|+++.... .+.....+++.+........+|+|++
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~------------~~~~~~~~~l~~~~~~~~~~~i~V~n 166 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQ------------DLTESDMEFLKQMLDPDKSRTIFVLN 166 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTS------------TGGGHHHHHHHHHHTTTCSSEEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCc------------ccchHHHHHHHHHhcCCCCeEEEEEc
Confidence 345556689999999986332 12223445565555545556776654
No 112
>cd01840 SGNH_hydrolase_yrhL_like yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases. Most members of this sub-family appear to co-occur with N-terminal acyltransferase domains. Might be involved in lipid metabolism.
Probab=33.47 E-value=95 Score=24.00 Aligned_cols=26 Identities=23% Similarity=0.307 Sum_probs=12.7
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAG 174 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~ 174 (238)
++.|+.-+++.......+++.++.++
T Consensus 52 d~vvi~lGtNd~~~~~nl~~ii~~~~ 77 (150)
T cd01840 52 KTVVIGLGTNGPFTKDQLDELLDALG 77 (150)
T ss_pred CeEEEEecCCCCCCHHHHHHHHHHcC
Confidence 34454444444443455555555553
No 113
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=33.25 E-value=84 Score=23.17 Aligned_cols=13 Identities=23% Similarity=0.370 Sum_probs=10.1
Q ss_pred CcEEEEccCCCch
Q 039625 148 KNLAVIGSNANAT 160 (238)
Q Consensus 148 ~~i~viG~~a~~~ 160 (238)
++|.++|.+....
T Consensus 6 ~~i~i~G~G~s~~ 18 (131)
T PF01380_consen 6 KRIYIYGSGSSYG 18 (131)
T ss_dssp SEEEEEESTHHHH
T ss_pred CEEEEEEcchHHH
Confidence 7899999876544
No 114
>PF10727 Rossmann-like: Rossmann-like domain; InterPro: IPR019665 This entry represents an NAD/NADP-binding domain with a core Rossmann-type fold, found in an uncharacterised protein family thought to be putative NADP oxidoreductase coenzyme F420-dependent proteins and/or NAD-dependent glycerol-3-phosphate dehydrogenase-like proteins. This Rossmann-fold domain consists of 3-layers alpha/beta/alpha, where the six beta strands are parallel in the order 321456.; PDB: 3DFU_A 3C24_A.
Probab=33.16 E-value=69 Score=24.77 Aligned_cols=13 Identities=31% Similarity=0.355 Sum_probs=7.5
Q ss_pred HhCCCCEEEEEee
Q 039625 172 AAGTADVVVMVVG 184 (238)
Q Consensus 172 ~a~~aD~vIv~~g 184 (238)
.++.+|++++++.
T Consensus 65 ~~~~aDlv~iavp 77 (127)
T PF10727_consen 65 ILRDADLVFIAVP 77 (127)
T ss_dssp GGCC-SEEEE-S-
T ss_pred ccccCCEEEEEec
Confidence 4577888888774
No 115
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=33.13 E-value=91 Score=23.94 Aligned_cols=55 Identities=9% Similarity=0.148 Sum_probs=35.9
Q ss_pred hHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHH-----hhCCCceEEEEecCc
Q 039625 163 RLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVA-----NATKGTMILVVMAAG 228 (238)
Q Consensus 163 ~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~-----~~~~~~vVvV~~~g~ 228 (238)
...+++..+...+||.+|++.-.- ....|+.=..+++.+. .-.+|++.++..+|+
T Consensus 58 ~d~~~~~~~~l~~aD~iI~~sP~y-----------~~~~s~~lK~~lD~~~~~~~~~~~~K~~~~i~~~g~ 117 (152)
T PF03358_consen 58 PDDVQELYDKLKEADGIIFASPVY-----------NGSVSGQLKNFLDRLSCWFRRALRGKPVAIIAVGGG 117 (152)
T ss_dssp SHHHHHHHHHHHHSSEEEEEEEEB-----------TTBE-HHHHHHHHTHHHTHTTTTTTSEEEEEEEESS
T ss_pred cHHHHHHHhceecCCeEEEeecEE-----------cCcCChhhhHHHHHhccccccccCCCEEEEEEEecC
Confidence 466788889999999999886421 3445555567777775 223676666655544
No 116
>cd07381 MPP_CapA CapA and related proteins, metallophosphatase domain. CapA is one of three membrane-associated enzymes in Bacillus anthracis that is required for synthesis of gamma-polyglutamic acid (PGA), a major component of the bacterial capsule. The YwtB and PgsA proteins of Bacillus subtilis are closely related to CapA and are also included in this alignment model. CapA belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal
Probab=33.00 E-value=2.9e+02 Score=23.10 Aligned_cols=46 Identities=13% Similarity=0.144 Sum_probs=26.1
Q ss_pred CCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 175 TADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 175 ~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
++|++|+... +..|. ...-...|.++.+++.. .+.-+| ..+.|-.+
T Consensus 174 ~~D~vIv~~H----~G~e~----~~~p~~~~~~la~~l~~-~G~D~I---iG~H~Hv~ 219 (239)
T cd07381 174 KADIVIVSLH----WGVEY----SYYPTPEQRELARALID-AGADLV---IGHHPHVL 219 (239)
T ss_pred cCCEEEEEec----CcccC----CCCCCHHHHHHHHHHHH-CCCCEE---EcCCCCcC
Confidence 5999999885 22222 12234567888888775 343332 34666443
No 117
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=32.64 E-value=1e+02 Score=26.65 Aligned_cols=41 Identities=22% Similarity=0.279 Sum_probs=28.1
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+.++|+++|++|.+ .|+.++.+.....+.++ ++..|+.++.
T Consensus 155 ~s~~dil~VglG~P-----------------kQE~~~~~~~~~~~~~v--~~gvGg~fD~ 195 (243)
T PRK03692 155 ASGAKIVTVAMGSP-----------------KQEIFMRDCRLVYPDAL--YMGVGGTYDV 195 (243)
T ss_pred hcCCCEEEEECCCc-----------------HHHHHHHHHHHhCCCCE--EEEeCeEEEE
Confidence 45799999888843 38888888776555444 4555776654
No 118
>cd07187 YvcK_like family of mostly uncharacterized proteins similar to B.subtilis YvcK. One member of this protein family, YvcK from Bacillus subtilis, has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and the pentose phosphate pathway. In general, this family of mostly uncharacterized proteins is related to the CofD-like protein family. CofD has been characterized as a 2-phospho-L-lactate transferase involved in F420 biosynthesis. This family appears to have the same conserved phosphate binding site as the other family in this hierarchy, but a different substrate binding site.
Probab=32.49 E-value=98 Score=27.80 Aligned_cols=19 Identities=32% Similarity=0.333 Sum_probs=14.2
Q ss_pred HHHHHHhCCCCEEEEEeeC
Q 039625 167 EQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~ 185 (238)
.+++++..+||+||+.-|+
T Consensus 167 ~~a~~AI~~AD~Iv~gPGS 185 (308)
T cd07187 167 PEALEAIEEADLIVYGPGS 185 (308)
T ss_pred HHHHHHHHhCCEEEECCCc
Confidence 4677888888887776664
No 119
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=32.31 E-value=1e+02 Score=20.83 Aligned_cols=25 Identities=4% Similarity=0.193 Sum_probs=20.5
Q ss_pred HHHHHHHHHhhCCCceEEEEecCcee
Q 039625 205 QEKLVMEVANATKGTMILVVMAAGNV 230 (238)
Q Consensus 205 q~~li~~l~~~~~~~vVvV~~~g~P~ 230 (238)
|++++.++.+ .++||.+.+..|-.+
T Consensus 4 Qd~fln~~r~-~~~~Vti~L~nG~~l 28 (61)
T TIGR02383 4 QDQFLNTLRK-ERIPVTVFLVNGVQL 28 (61)
T ss_pred HHHHHHHHHH-cCCcEEEEEeCCcEE
Confidence 8899999987 678898888877664
No 120
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=32.21 E-value=1.6e+02 Score=24.27 Aligned_cols=46 Identities=22% Similarity=0.328 Sum_probs=28.7
Q ss_pred HHhCCCCEEEEE-eeCCCCccccCCCCCCCCCCH-HHHHHHHHHHhhCCCceEEEEe--cCcee
Q 039625 171 KAAGTADVVVMV-VGLDQSIEAEGLDKENLTLHG-YQEKLVMEVANATKGTMILVVM--AAGNV 230 (238)
Q Consensus 171 ~~a~~aD~vIv~-~g~~~~~~~eg~Dr~~l~l~~-~q~~li~~l~~~~~~~vVvV~~--~g~P~ 230 (238)
.+.+.||++|+- +| .+.|-. .=.+.++.+.+ +++|+|++++ +..|+
T Consensus 96 rA~~~aDvIIIDEIG-------------pMElks~~f~~~ve~vl~-~~kpliatlHrrsr~P~ 145 (179)
T COG1618 96 RALEEADVIIIDEIG-------------PMELKSKKFREAVEEVLK-SGKPLIATLHRRSRHPL 145 (179)
T ss_pred HHhhcCCEEEEeccc-------------chhhccHHHHHHHHHHhc-CCCcEEEEEecccCChH
Confidence 345668999975 34 233322 22466777776 7899999888 34453
No 121
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=31.94 E-value=38 Score=26.66 Aligned_cols=47 Identities=21% Similarity=0.201 Sum_probs=29.7
Q ss_pred CCCCCCCCCcEEEEccCCCchhh---------------hHHHHHHHHHhCCCCEEEEEeeCCCCc
Q 039625 140 LPLSSNNTKNLAVIGSNANATNR---------------RLLIEQAAKAAGTADVVVMVVGLDQSI 189 (238)
Q Consensus 140 LPL~~~~~~~i~viG~~a~~~~~---------------~~~~~~a~~~a~~aD~vIv~~g~~~~~ 189 (238)
++++. ++|.|+|........ ...-....+..++||++|.++|..+-.
T Consensus 24 ~~~~g---k~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~t~~l~~~v~~ADIVvsAtg~~~~i 85 (140)
T cd05212 24 VRLDG---KKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWKTIQLQSKVHDADVVVVGSPKPEKV 85 (140)
T ss_pred CCCCC---CEEEEECCCchHHHHHHHHHHHCCCEEEEeCCCCcCHHHHHhhCCEEEEecCCCCcc
Confidence 36653 799999986543321 100013445678999999999976533
No 122
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=31.34 E-value=1.8e+02 Score=26.54 Aligned_cols=68 Identities=13% Similarity=0.163 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHHHhCceeccCC-CCCCCCCCCCCcEEEEc-cCCCchhh---------------hHHHHHHHHHhCCCC
Q 039625 115 HTDDHKSLALDAAKQGIDSLDNK-GALPLSSNNTKNLAVIG-SNANATNR---------------RLLIEQAAKAAGTAD 177 (238)
Q Consensus 115 ~~~~~~~la~~~a~~sivLLkN~-~~LPL~~~~~~~i~viG-~~a~~~~~---------------~~~~~~a~~~a~~aD 177 (238)
+...-..+.+.+..+|.. ++.. ++=++.+. .++|+|+| .+.-.... ........+.++++|
T Consensus 67 ~~~~~~~i~~~i~~~s~~-~q~~~~~~~~~~~-~~~I~IiGG~GlmG~slA~~l~~~G~~V~~~d~~~~~~~~~~~~~aD 144 (374)
T PRK11199 67 PPDLIEDVLRRVMRESYS-SENDKGFKTLNPD-LRPVVIVGGKGQLGRLFAKMLTLSGYQVRILEQDDWDRAEDILADAG 144 (374)
T ss_pred CHHHHHHHHHHHHHHHHH-HhHHhcccccCcc-cceEEEEcCCChhhHHHHHHHHHCCCeEEEeCCCcchhHHHHHhcCC
Confidence 334457788888888875 4444 55555553 47899998 54322111 011223344567899
Q ss_pred EEEEEee
Q 039625 178 VVVMVVG 184 (238)
Q Consensus 178 ~vIv~~g 184 (238)
+||+++-
T Consensus 145 lVilavP 151 (374)
T PRK11199 145 MVIVSVP 151 (374)
T ss_pred EEEEeCc
Confidence 9998884
No 123
>PF13130 DUF3952: Domain of unknown function (DUF3952)
Probab=31.34 E-value=25 Score=26.26 Aligned_cols=23 Identities=13% Similarity=0.265 Sum_probs=20.1
Q ss_pred hhccHHHHHHHHhcCcceeEeec
Q 039625 39 DMYQPPFKSCVKESHVSSVICSY 61 (238)
Q Consensus 39 e~~l~PF~~ai~~g~~~~VM~sy 61 (238)
.++.-||-+|+++|....||+|-
T Consensus 13 KIeYe~~VKALDEGDMktVMSAS 35 (107)
T PF13130_consen 13 KIEYERFVKALDEGDMKTVMSAS 35 (107)
T ss_pred eeehHHHHHHhcccchhheeccC
Confidence 45778999999999999999974
No 124
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=31.18 E-value=1.5e+02 Score=24.71 Aligned_cols=30 Identities=23% Similarity=0.365 Sum_probs=19.5
Q ss_pred EEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 151 AVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 151 ~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.++|-...++ +....+|++.+++||+|+..
T Consensus 2 ~iVG~GpG~~--~~lT~~a~~~l~~advV~~~ 31 (229)
T TIGR01465 2 YFIGAGPGDP--DLITVKGRKLLESADVILYA 31 (229)
T ss_pred EEEEeCCCCc--HHHHHHHHHHHHhCCEEEEe
Confidence 4455443322 23456899999999999864
No 125
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=31.12 E-value=77 Score=26.89 Aligned_cols=77 Identities=18% Similarity=0.194 Sum_probs=37.5
Q ss_pred EEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccc--cCCCCCCCCCCHH-HHHHHHHHHhhC-CCceEEEEe
Q 039625 150 LAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEA--EGLDKENLTLHGY-QEKLVMEVANAT-KGTMILVVM 225 (238)
Q Consensus 150 i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~--eg~Dr~~l~l~~~-q~~li~~l~~~~-~~~vVvV~~ 225 (238)
|.|+|-+.+.+ .....+|.+..++||+|+ |.....+- +-.+..-..++.. +.+.++.+.+.. +.++ +|+.
T Consensus 2 I~vVGiGp~~~--~~Lt~~A~~~I~~A~vV~---G~kr~L~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~~g~~v-~VLa 75 (210)
T COG2241 2 ITVVGIGPGGP--EGLTLAAIEAIRRADVVA---GSKRHLELLPPLIKAERIIWPYPFDAESLEEILAERKGRDV-VVLA 75 (210)
T ss_pred EEEEEeCCCCh--hhhcHHHHHHHHhCCEEe---ecHHHHHhhhccccceEEEeccccchHHHHHHHHHhCCCCe-EEEe
Confidence 45666554433 233467888888999876 32211110 0000011222222 222455555432 5655 5788
Q ss_pred cCceeec
Q 039625 226 AAGNVDV 232 (238)
Q Consensus 226 ~g~P~~l 232 (238)
+|.|.-.
T Consensus 76 sGDP~f~ 82 (210)
T COG2241 76 SGDPLFS 82 (210)
T ss_pred cCCcchh
Confidence 9999543
No 126
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=31.05 E-value=1.6e+02 Score=24.20 Aligned_cols=53 Identities=15% Similarity=0.202 Sum_probs=29.5
Q ss_pred hHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhC-CCceEEEEe
Q 039625 163 RLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANAT-KGTMILVVM 225 (238)
Q Consensus 163 ~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~-~~~vVvV~~ 225 (238)
+..+.+.++.. ++|++++.+|.+. + .-.+...-..+|+.+.++. .+|+|+|-.
T Consensus 48 e~~~a~~ia~~-~a~~~~ld~~~N~-------~--~~~~~~~~~~fv~~iR~~hP~tPIllv~~ 101 (178)
T PF14606_consen 48 EPEVADLIAEI-DADLIVLDCGPNM-------S--PEEFRERLDGFVKTIREAHPDTPILLVSP 101 (178)
T ss_dssp -HHHHHHHHHS---SEEEEEESHHC-------C--TTTHHHHHHHHHHHHHTT-SSS-EEEEE-
T ss_pred CHHHHHHHhcC-CCCEEEEEeecCC-------C--HHHHHHHHHHHHHHHHHhCCCCCEEEEec
Confidence 44556666666 6799999998551 1 1122334457888888766 467765543
No 127
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=30.94 E-value=3e+02 Score=23.97 Aligned_cols=66 Identities=12% Similarity=0.127 Sum_probs=37.7
Q ss_pred CcEEEEccCCCchhh------------------hHHH-HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHH
Q 039625 148 KNLAVIGSNANATNR------------------RLLI-EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKL 208 (238)
Q Consensus 148 ~~i~viG~~a~~~~~------------------~~~~-~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~l 208 (238)
++|.++|-.+..... +... .........-|++|++.... ...++
T Consensus 131 ~rI~~~G~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~~~~~~~~~~Dv~i~iS~sG-----------------~t~e~ 193 (281)
T COG1737 131 RRIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQLMQLALLTPGDVVIAISFSG-----------------YTREI 193 (281)
T ss_pred CeEEEEEechhHHHHHHHHHHHHHcCCceeEecchHHHHHHHHhCCCCCEEEEEeCCC-----------------CcHHH
Confidence 789999965544332 1111 13556777888888775421 13344
Q ss_pred HHH--HHhhCCCceEEEEec-Ccee
Q 039625 209 VME--VANATKGTMILVVMA-AGNV 230 (238)
Q Consensus 209 i~~--l~~~~~~~vVvV~~~-g~P~ 230 (238)
++. .++..|.|||.+... .+|+
T Consensus 194 i~~a~~ak~~ga~vIaiT~~~~spl 218 (281)
T COG1737 194 VEAAELAKERGAKVIAITDSADSPL 218 (281)
T ss_pred HHHHHHHHHCCCcEEEEcCCCCCch
Confidence 433 233478888766655 5664
No 128
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=30.84 E-value=1.5e+02 Score=23.61 Aligned_cols=52 Identities=15% Similarity=0.151 Sum_probs=32.2
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHH--hhCCCceEEEEec
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVA--NATKGTMILVVMA 226 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~--~~~~~~vVvV~~~ 226 (238)
....+..+...+||.+|++.-. -+..+|+.=..+|+.+. .-.+||+.++..+
T Consensus 54 ~~~~~l~~~i~~AD~iI~~sP~-----------Y~~sip~~LK~~iD~~~~~~l~~K~v~~~~~g 107 (171)
T TIGR03567 54 PAIKAATAQVAQADGVVVATPV-----------YKASYSGVLKALLDLLPQRALRGKVVLPIATG 107 (171)
T ss_pred HHHHHHHHHHHHCCEEEEECCc-----------ccCCCCHHHHHHHHhCChhhhCCCEEEEEEcC
Confidence 3567788888899999987631 24556665556666552 1236766544433
No 129
>PF13653 GDPD_2: Glycerophosphoryl diester phosphodiesterase family; PDB: 3RLG_A 2F9R_B 1XX1_A 3RLH_A.
Probab=30.49 E-value=52 Score=18.92 Aligned_cols=18 Identities=6% Similarity=0.311 Sum_probs=13.3
Q ss_pred HHHHHHHhcCcceeEeecc
Q 039625 44 PFKSCVKESHVSSVICSYN 62 (238)
Q Consensus 44 PF~~ai~~g~~~~VM~sy~ 62 (238)
-|+.+++.|+ .+|||-|.
T Consensus 12 ~~~~~l~~GV-DgI~Td~p 29 (30)
T PF13653_consen 12 SWRELLDLGV-DGIMTDYP 29 (30)
T ss_dssp HHHHHHHHT--SEEEES-H
T ss_pred HHHHHHHcCC-CEeeCCCC
Confidence 4789999997 69999663
No 130
>PF09587 PGA_cap: Bacterial capsule synthesis protein PGA_cap; InterPro: IPR019079 CapA is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein [].
Probab=30.32 E-value=2.4e+02 Score=23.88 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=28.7
Q ss_pred HHHHHHHh-CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCce
Q 039625 166 IEQAAKAA-GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTM 220 (238)
Q Consensus 166 ~~~a~~~a-~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~v 220 (238)
+.+.++.+ +.+|++||.+. |..|. ...-.+.|+++-+++.+ .+.-+
T Consensus 173 i~~~i~~~r~~~D~vIv~~H----wG~e~----~~~p~~~q~~~a~~lid-aGaDi 219 (250)
T PF09587_consen 173 IKEDIREARKKADVVIVSLH----WGIEY----ENYPTPEQRELARALID-AGADI 219 (250)
T ss_pred HHHHHHHHhcCCCEEEEEec----cCCCC----CCCCCHHHHHHHHHHHH-cCCCE
Confidence 33334434 56999999984 33332 22336779999999987 56433
No 131
>PRK05787 cobalt-precorrin-6Y C(5)-methyltransferase; Validated
Probab=30.17 E-value=1.1e+02 Score=25.15 Aligned_cols=30 Identities=30% Similarity=0.356 Sum_probs=20.5
Q ss_pred EEEEccCCCchhhhHHHHHHHHHhCCCCEEEE
Q 039625 150 LAVIGSNANATNRRLLIEQAAKAAGTADVVVM 181 (238)
Q Consensus 150 i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv 181 (238)
|.++|-+..++ +....+|++..++||+++.
T Consensus 2 l~vVG~GpG~~--~~lT~~a~~~l~~advv~~ 31 (210)
T PRK05787 2 IYIVGIGPGDP--EYLTLKALEAIRKADVVVG 31 (210)
T ss_pred EEEEEeCCCCh--HHhhHHHHHHHHhCCEEEE
Confidence 56666554433 2344678899999999984
No 132
>PRK05990 precorrin-2 C(20)-methyltransferase; Reviewed
Probab=30.09 E-value=3.1e+02 Score=23.36 Aligned_cols=34 Identities=26% Similarity=0.275 Sum_probs=24.4
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEe
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVV 183 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~ 183 (238)
.++.++|-+..++ +...-+|++..++||+|++..
T Consensus 3 g~l~~VG~GPGdp--~LlTlkA~~~L~~advi~~~~ 36 (241)
T PRK05990 3 GRLIGLGVGPGDP--ELLTLKALRLLQAAPVVAYFV 36 (241)
T ss_pred ceEEEEeCCCCCh--HHhhHHHHHHHhhCCEEEEEC
Confidence 4788887665544 233467888999999998764
No 133
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=30.08 E-value=1.2e+02 Score=23.98 Aligned_cols=21 Identities=19% Similarity=0.180 Sum_probs=17.1
Q ss_pred HHHHHHHHHhCCCCEEEEEee
Q 039625 164 LLIEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g 184 (238)
..+.++.+.+++||++++++-
T Consensus 8 ~~~~~~~~~i~~aD~il~v~D 28 (171)
T cd01856 8 KALRQIKEKLKLVDLVIEVRD 28 (171)
T ss_pred HHHHHHHHHHhhCCEEEEEee
Confidence 456778889999999988874
No 134
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=29.69 E-value=2.1e+02 Score=27.28 Aligned_cols=32 Identities=19% Similarity=0.359 Sum_probs=23.5
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVM 181 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv 181 (238)
.+|.++|-+..++ +...-++.+..++||+|+.
T Consensus 3 G~V~lVGaGPGdp--~LLTlrA~~~L~~ADVVvy 34 (474)
T PRK07168 3 GYVYLVGAGPGDE--GLITKKAIECLKRADIVLY 34 (474)
T ss_pred CEEEEEEECCCCh--HHHHHHHHHHHHhCCEEEE
Confidence 4788888765544 2334678899999999995
No 135
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=29.64 E-value=2e+02 Score=24.97 Aligned_cols=47 Identities=15% Similarity=0.066 Sum_probs=27.7
Q ss_pred HHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 166 IEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..++....+.+|.+|+++-... | ......++++.+.. .++|++++++
T Consensus 78 ~~~~~~~l~~aD~ailVVDa~~-----g-------~~~~t~~~~~~~~~-~~~p~ivviN 124 (270)
T cd01886 78 TIEVERSLRVLDGAVAVFDAVA-----G-------VEPQTETVWRQADR-YNVPRIAFVN 124 (270)
T ss_pred HHHHHHHHHHcCEEEEEEECCC-----C-------CCHHHHHHHHHHHH-cCCCEEEEEE
Confidence 3456677788999999885321 1 11222345555544 5677776665
No 136
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=29.47 E-value=99 Score=23.58 Aligned_cols=34 Identities=29% Similarity=0.259 Sum_probs=24.2
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.+|.+||.+..... ...+.+|.+.++..|+|+--
T Consensus 61 ~~vvliGsD~P~l~-~~~l~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 61 EPVVLIGSDCPDLT-PDDLEQAFEALQRHDVVLGP 94 (122)
T ss_dssp SEEEEE-SS-TT---HHHHHHHHHHTTT-SEEEEE
T ss_pred CcEEEEcCCCCCCC-HHHHHHHHHHhccCCEEEee
Confidence 58999999877666 77889999999999997643
No 137
>PRK05333 NAD-dependent deacetylase; Provisional
Probab=29.46 E-value=2.4e+02 Score=24.81 Aligned_cols=33 Identities=30% Similarity=0.438 Sum_probs=21.1
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~ 186 (238)
.|..+|..-. ...+.++.+.++++|++|| +|++
T Consensus 192 ~Vv~FgE~lp----~~~~~~a~~~~~~~Dlllv-vGTS 224 (285)
T PRK05333 192 DVVFFGENVP----RERVAAARAALDAADAVLV-VGSS 224 (285)
T ss_pred CEEEcCCCCC----HHHHHHHHHHHhcCCEEEE-ECcC
Confidence 3555664322 3456778888889998776 6643
No 138
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=29.31 E-value=2e+02 Score=26.30 Aligned_cols=45 Identities=20% Similarity=0.301 Sum_probs=27.5
Q ss_pred HHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 168 QAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
++....+.+|++|+++-... .+.....+++..+.. .++|+|+|++
T Consensus 247 ~~~~~~~~ad~~ilV~D~~~------------~~~~~~~~~~~~~~~-~~~~iiiv~N 291 (429)
T TIGR03594 247 RTLKAIERADVVLLVLDATE------------GITEQDLRIAGLILE-AGKALVIVVN 291 (429)
T ss_pred HHHHHHHhCCEEEEEEECCC------------CccHHHHHHHHHHHH-cCCcEEEEEE
Confidence 44567789999999984221 122233455555554 5678877765
No 139
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=28.90 E-value=1.8e+02 Score=22.35 Aligned_cols=12 Identities=33% Similarity=0.437 Sum_probs=9.1
Q ss_pred hCCCCEEEEEee
Q 039625 173 AGTADVVVMVVG 184 (238)
Q Consensus 173 a~~aD~vIv~~g 184 (238)
.+++|++|+++-
T Consensus 10 ~~~aD~vl~V~D 21 (156)
T cd01859 10 IKESDVVLEVLD 21 (156)
T ss_pred HhhCCEEEEEee
Confidence 446999998874
No 140
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=28.53 E-value=2.7e+02 Score=22.41 Aligned_cols=14 Identities=14% Similarity=0.192 Sum_probs=11.5
Q ss_pred CCCCEEEEEeeCCC
Q 039625 174 GTADVVVMVVGLDQ 187 (238)
Q Consensus 174 ~~aD~vIv~~g~~~ 187 (238)
...|+||+.+|.+.
T Consensus 70 ~~pd~Vii~~GtND 83 (191)
T PRK10528 70 HQPRWVLVELGGND 83 (191)
T ss_pred cCCCEEEEEeccCc
Confidence 37899999999764
No 141
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=28.38 E-value=2.4e+02 Score=23.93 Aligned_cols=32 Identities=25% Similarity=0.468 Sum_probs=21.0
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|.... ...+.++.+..+++|++|+ +|+
T Consensus 155 ~Vv~fge~~~----~~~~~~a~~~~~~~dl~lv-iGT 186 (242)
T PRK00481 155 DVVLFGEMLP----ELAIDEAYEALEEADLFIV-IGT 186 (242)
T ss_pred CeEECCCCCC----HHHHHHHHHHHhcCCEEEE-ECC
Confidence 3555665432 3456778888889999777 663
No 142
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=28.22 E-value=2.5e+02 Score=25.77 Aligned_cols=46 Identities=30% Similarity=0.304 Sum_probs=28.4
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..+....+++|++++++-... .+.....++.+.+.+ .++|+++|++
T Consensus 70 ~~~~~~~~~ad~vl~vvD~~~------------~~~~~d~~i~~~l~~-~~~piilVvN 115 (429)
T TIGR03594 70 EQAEIAIEEADVILFVVDGRE------------GLTPEDEEIAKWLRK-SGKPVILVAN 115 (429)
T ss_pred HHHHHHHhhCCEEEEEEeCCC------------CCCHHHHHHHHHHHH-hCCCEEEEEE
Confidence 345566789999999884221 122333455555554 5788887775
No 143
>PF06283 ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A.
Probab=28.17 E-value=1.3e+02 Score=24.90 Aligned_cols=39 Identities=18% Similarity=0.102 Sum_probs=24.8
Q ss_pred hCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 173 AGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 173 a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
++++|++|+.... .-.++..|.+-|++..+ .|+++| .++
T Consensus 50 L~~~Dvvv~~~~~------------~~~l~~~~~~al~~~v~-~Ggglv-~lH 88 (217)
T PF06283_consen 50 LKGYDVVVFYNTG------------GDELTDEQRAALRDYVE-NGGGLV-GLH 88 (217)
T ss_dssp HCT-SEEEEE-SS------------CCGS-HHHHHHHHHHHH-TT-EEE-EEG
T ss_pred hcCCCEEEEECCC------------CCcCCHHHHHHHHHHHH-cCCCEE-EEc
Confidence 6799999988752 11267888888877776 688875 556
No 144
>PF02882 THF_DHG_CYH_C: Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain; InterPro: IPR020631 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the NAD(P)-binding domain found in these enzymes.; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1B0A_A 2C2X_B 2C2Y_A 3NGL_C 3NGX_A 4A26_B 1EDZ_A 1EE9_A 3P2O_B 1DIA_A ....
Probab=27.93 E-value=57 Score=26.35 Aligned_cols=45 Identities=22% Similarity=0.312 Sum_probs=25.2
Q ss_pred CCCCCCCCCcEEEEccCCCchhh---------------hHHHHHHHHHhCCCCEEEEEeeCCC
Q 039625 140 LPLSSNNTKNLAVIGSNANATNR---------------RLLIEQAAKAAGTADVVVMVVGLDQ 187 (238)
Q Consensus 140 LPL~~~~~~~i~viG~~a~~~~~---------------~~~~~~a~~~a~~aD~vIv~~g~~~ 187 (238)
.+|.. |++.|+|....-... ........+..++||++|.++|.+.
T Consensus 32 ~~l~G---k~v~VvGrs~~VG~Pla~lL~~~~atVt~~h~~T~~l~~~~~~ADIVVsa~G~~~ 91 (160)
T PF02882_consen 32 IDLEG---KKVVVVGRSNIVGKPLAMLLLNKGATVTICHSKTKNLQEITRRADIVVSAVGKPN 91 (160)
T ss_dssp -STTT----EEEEE-TTTTTHHHHHHHHHHTT-EEEEE-TTSSSHHHHHTTSSEEEE-SSSTT
T ss_pred CCCCC---CEEEEECCcCCCChHHHHHHHhCCCeEEeccCCCCcccceeeeccEEeeeecccc
Confidence 46653 799999976432211 1111234566789999999999764
No 145
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=27.88 E-value=2.9e+02 Score=23.49 Aligned_cols=32 Identities=13% Similarity=0.381 Sum_probs=20.1
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|..-. ...+.++.+.+++||++|| +|+
T Consensus 153 ~Vv~FGE~lp----~~~~~~~~~~~~~aDlllv-vGT 184 (235)
T cd01408 153 DIVFFGESLP----SRFFSHMEEDKEEADLLIV-IGT 184 (235)
T ss_pred cEEECCCCCC----HHHHHHHHHHHhcCCEEEE-ECC
Confidence 4777776432 2334566677889998776 553
No 146
>PRK00093 GTP-binding protein Der; Reviewed
Probab=27.17 E-value=2.6e+02 Score=25.78 Aligned_cols=45 Identities=31% Similarity=0.324 Sum_probs=27.7
Q ss_pred HHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 168 QAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
.+......+|++|+++-... .+.....++.+.+.. .++|+|+|++
T Consensus 73 ~~~~~~~~ad~il~vvd~~~------------~~~~~~~~~~~~l~~-~~~piilv~N 117 (435)
T PRK00093 73 QAELAIEEADVILFVVDGRA------------GLTPADEEIAKILRK-SNKPVILVVN 117 (435)
T ss_pred HHHHHHHhCCEEEEEEECCC------------CCCHHHHHHHHHHHH-cCCcEEEEEE
Confidence 34556789999999985321 112223455555554 5788887776
No 147
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=26.95 E-value=2.4e+02 Score=23.76 Aligned_cols=47 Identities=19% Similarity=0.205 Sum_probs=28.3
Q ss_pred HHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 166 IEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..++....+.+|.+|+++-.. +| ......++++.... .+.|+|+|++
T Consensus 87 ~~~~~~~l~~aD~~ilVvD~~-----~g-------~~~~t~~~l~~~~~-~~~p~ilviN 133 (222)
T cd01885 87 SSEVTAALRLCDGALVVVDAV-----EG-------VCVQTETVLRQALK-ERVKPVLVIN 133 (222)
T ss_pred HHHHHHHHHhcCeeEEEEECC-----CC-------CCHHHHHHHHHHHH-cCCCEEEEEE
Confidence 345667788999999998522 12 11223455555544 4677777765
No 148
>PRK00093 GTP-binding protein Der; Reviewed
Probab=26.84 E-value=2.3e+02 Score=26.06 Aligned_cols=45 Identities=22% Similarity=0.346 Sum_probs=26.9
Q ss_pred HHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 168 QAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
++...++.+|++|+++-... | +.....+++..+.. .++|+|+|++
T Consensus 248 ~~~~~~~~ad~~ilViD~~~-----~-------~~~~~~~i~~~~~~-~~~~~ivv~N 292 (435)
T PRK00093 248 RTLKAIERADVVLLVIDATE-----G-------ITEQDLRIAGLALE-AGRALVIVVN 292 (435)
T ss_pred HHHHHHHHCCEEEEEEeCCC-----C-------CCHHHHHHHHHHHH-cCCcEEEEEE
Confidence 34567789999999985321 1 22223344544443 5678887765
No 149
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=26.70 E-value=1.5e+02 Score=25.41 Aligned_cols=36 Identities=11% Similarity=0.198 Sum_probs=22.8
Q ss_pred CcEEEEccCCCchhh-------------------hHHHHHHHHHhCCCCEEEEEe
Q 039625 148 KNLAVIGSNANATNR-------------------RLLIEQAAKAAGTADVVVMVV 183 (238)
Q Consensus 148 ~~i~viG~~a~~~~~-------------------~~~~~~a~~~a~~aD~vIv~~ 183 (238)
++|.++|.+...... ..........+.+-|++|++.
T Consensus 129 ~~I~i~G~G~s~~~A~~~~~~l~~~g~~~~~~~d~~~~~~~~~~~~~~Dv~I~iS 183 (278)
T PRK11557 129 RRIILTGIGASGLVAQNFAWKLMKIGINAVAERDMHALLATVQALSPDDLLLAIS 183 (278)
T ss_pred CeEEEEecChhHHHHHHHHHHHhhCCCeEEEcCChHHHHHHHHhCCCCCEEEEEc
Confidence 789999987654332 112234455677888877664
No 150
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=26.58 E-value=2.9e+02 Score=24.47 Aligned_cols=49 Identities=18% Similarity=0.122 Sum_probs=26.0
Q ss_pred HhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCcee
Q 039625 172 AAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNV 230 (238)
Q Consensus 172 ~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~ 230 (238)
.....|+||+-...+ .|.+ -.|. +.++.+.+.++.+..=|+|..+++|.
T Consensus 146 ~~~~fDvIi~D~tdp---~gp~-----~~Lf--t~eFy~~~~~~L~~~Gi~v~q~~~~~ 194 (282)
T COG0421 146 CEEKFDVIIVDSTDP---VGPA-----EALF--TEEFYEGCRRALKEDGIFVAQAGSPF 194 (282)
T ss_pred CCCcCCEEEEcCCCC---CCcc-----cccC--CHHHHHHHHHhcCCCcEEEEecCCcc
Confidence 334699988876532 1111 1111 44566666554433345667778764
No 151
>PRK08284 precorrin 6A synthase; Provisional
Probab=26.34 E-value=2.6e+02 Score=24.22 Aligned_cols=34 Identities=35% Similarity=0.362 Sum_probs=23.4
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEe
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVV 183 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~ 183 (238)
+++.++|-+..++. -..-+|++..++||+|++..
T Consensus 2 ~kly~VGvGPGDPe--LLTlkA~r~L~~advV~~p~ 35 (253)
T PRK08284 2 RRLLLIGIGAGDPD--HLTLQAIKALNRADVFFVPD 35 (253)
T ss_pred cEEEEEEecCCChh--HhhHHHHHHHHhCCEEEEEC
Confidence 46778776655442 23457888899999998853
No 152
>TIGR00522 dph5 diphthine synthase. This protein participates in the modification of a specific His of elongation factor 2 of eukarotes and Archaea to diphthamide. The protein was characterized in Saccharomyces cerevisiae and designated DPH5.
Probab=26.26 E-value=2.3e+02 Score=24.43 Aligned_cols=31 Identities=23% Similarity=0.135 Sum_probs=20.4
Q ss_pred EEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE
Q 039625 150 LAVIGSNANATNRRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 150 i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~ 182 (238)
+.++|-+..++ +...-++++.+++||+|++-
T Consensus 2 l~~VG~GPGd~--~llTl~a~~~L~~advV~~~ 32 (257)
T TIGR00522 2 LYLIGLGLYDE--NDISVKGLEAIKKADEVYAE 32 (257)
T ss_pred EEEEECCCCCh--hhhCHHHHHHHHcCCEEEEe
Confidence 56666544332 23346788999999999765
No 153
>PF07991 IlvN: Acetohydroxy acid isomeroreductase, catalytic domain; InterPro: IPR013116 Acetohydroxy acid isomeroreductase catalyses the conversion of acetohydroxy acids into dihydroxy valerates. This reaction is the second in the synthetic pathway of the essential branched side chain amino acids valine and isoleucine.; GO: 0004455 ketol-acid reductoisomerase activity, 0008652 cellular amino acid biosynthetic process, 0055114 oxidation-reduction process; PDB: 1QMG_A 1YVE_J 3FR8_B 3FR7_A 1NP3_C 1YRL_C.
Probab=25.97 E-value=2e+02 Score=23.48 Aligned_cols=11 Identities=45% Similarity=0.649 Sum_probs=8.0
Q ss_pred CCcEEEEccCC
Q 039625 147 TKNLAVIGSNA 157 (238)
Q Consensus 147 ~~~i~viG~~a 157 (238)
.++|+|+|..+
T Consensus 4 ~k~IAViGyGs 14 (165)
T PF07991_consen 4 GKTIAVIGYGS 14 (165)
T ss_dssp TSEEEEES-SH
T ss_pred CCEEEEECCCh
Confidence 37999999864
No 154
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=25.87 E-value=3.5e+02 Score=22.71 Aligned_cols=46 Identities=15% Similarity=0.173 Sum_probs=26.4
Q ss_pred HHHHHHh--CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAA--GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a--~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
.++...+ ..+|++++++-... | +.....+++..+.. .+.|+|+|++
T Consensus 99 ~~~~~~~~~~~~D~~llVvda~~-----g-------~~~~d~~~l~~l~~-~~ip~ivvvN 146 (224)
T cd04165 99 KTTLFGLTGYAPDYAMLVVAANA-----G-------IIGMTKEHLGLALA-LNIPVFVVVT 146 (224)
T ss_pred HHHHHhhcccCCCEEEEEEECCC-----C-------CcHHHHHHHHHHHH-cCCCEEEEEE
Confidence 3444444 37899999885221 1 12333456665554 6788877765
No 155
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=25.87 E-value=2.1e+02 Score=24.84 Aligned_cols=21 Identities=19% Similarity=0.167 Sum_probs=16.6
Q ss_pred HHHHHHHHHhCCCCEEEEEee
Q 039625 164 LLIEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g 184 (238)
..+.+..+.++.+|++|+++-
T Consensus 10 k~~~~~~~~l~~aDvVl~V~D 30 (276)
T TIGR03596 10 KARREIKEKLKLVDVVIEVLD 30 (276)
T ss_pred HHHHHHHHHHhhCCEEEEEEe
Confidence 456677888999999998874
No 156
>PRK05991 precorrin-3B C17-methyltransferase; Provisional
Probab=25.65 E-value=2.6e+02 Score=23.82 Aligned_cols=32 Identities=22% Similarity=0.198 Sum_probs=23.1
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVM 181 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv 181 (238)
.+|.++|-+..++ +....++++.+++||+|+.
T Consensus 3 ~~l~iVG~GpG~p--~~lT~~a~~~l~~AdvV~~ 34 (250)
T PRK05991 3 GRLFVIGTGPGNP--EQMTPEALAAVEAATDFFG 34 (250)
T ss_pred ceEEEEEeCCCCh--hhhhHHHHHHHHhCCEEEE
Confidence 4688888765443 2344678889999999984
No 157
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=25.64 E-value=1.6e+02 Score=23.29 Aligned_cols=53 Identities=15% Similarity=0.147 Sum_probs=34.3
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEE
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMIL 222 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVv 222 (238)
.++...+..++..+..+++|.+-.++++...+. ..-.++.+.|....+.|+++
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~-----~~~~~f~~~L~~r~~lpv~l 93 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRA-----ELARKFAERLKKRFNLPVVL 93 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhH-----HHHHHHHHHHHHhcCCCEEE
Confidence 667777778888888888998876665432221 12345667777666666653
No 158
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=25.58 E-value=4.2e+02 Score=24.50 Aligned_cols=44 Identities=18% Similarity=0.271 Sum_probs=27.0
Q ss_pred CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEE-EeeCC
Q 039625 138 GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVM-VVGLD 186 (238)
Q Consensus 138 ~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv-~~g~~ 186 (238)
.++|+-++ .|++|+|+...-- ..+...+..-.++|++|+ .+|+.
T Consensus 150 ~l~Pi~kG--qr~~I~G~~G~GK---T~L~~~Iak~~~~dvvVyv~iGER 194 (369)
T cd01134 150 TLFPVVKG--GTAAIPGPFGCGK---TVIQQSLSKYSNSDIVIYVGCGER 194 (369)
T ss_pred ccccccCC--CEEEEECCCCCCh---HHHHHHHHhCCCCCEEEEEEeCCC
Confidence 46899877 8999999754321 122333444557888773 45543
No 159
>COG1578 Uncharacterized conserved protein [Function unknown]
Probab=25.48 E-value=1.7e+02 Score=25.85 Aligned_cols=48 Identities=13% Similarity=0.183 Sum_probs=26.0
Q ss_pred HHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceee
Q 039625 168 QAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVD 231 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~ 231 (238)
+.....+.|++..++- ..||- . -..=|++.+.. .++.+++| .-|+|+.
T Consensus 144 k~~~~l~~a~VlYl~D-----NaGEi------~---FD~vlie~ik~-~~~~vv~v-Vrg~PIl 191 (285)
T COG1578 144 KLLELLKNASVLYLTD-----NAGEI------V---FDKVLIEVIKE-LGKKVVVV-VRGGPIL 191 (285)
T ss_pred HHHHHhccCcEEEEec-----CCccH------H---HHHHHHHHHHh-cCCceEEE-EcCCcee
Confidence 4455667775555442 23331 1 12235677765 56656544 4689984
No 160
>PRK10637 cysG siroheme synthase; Provisional
Probab=25.39 E-value=4.1e+02 Score=24.98 Aligned_cols=32 Identities=25% Similarity=0.384 Sum_probs=24.5
Q ss_pred CcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEE
Q 039625 148 KNLAVIGSNANATNRRLLIEQAAKAAGTADVVVM 181 (238)
Q Consensus 148 ~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv 181 (238)
.+|.++|-+...+ +....++++.+++||+|+.
T Consensus 216 g~l~iVG~GpGdp--~lLTl~A~~~L~~ADvV~~ 247 (457)
T PRK10637 216 GEVVLVGAGPGDA--GLLTLKGLQQIQQADVVVY 247 (457)
T ss_pred cEEEEEEeCCCCh--HHHHHHHHHHHHcCCEEEE
Confidence 6899988776544 2345678899999999986
No 161
>smart00854 PGA_cap Bacterial capsule synthesis protein PGA_cap. This protein is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein.
Probab=25.32 E-value=4.1e+02 Score=22.30 Aligned_cols=47 Identities=17% Similarity=0.164 Sum_probs=26.6
Q ss_pred CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCceeec
Q 039625 174 GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGNVDV 232 (238)
Q Consensus 174 ~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P~~l 232 (238)
+++|++|+.... ..|. + ..-.+.|.++.+++.. .+.-+ +..+.|-.+
T Consensus 171 ~~~D~vIv~~H~----G~e~-~---~~p~~~~~~~A~~l~~-~G~Dv---IiG~H~H~~ 217 (239)
T smart00854 171 KKADVVIVSLHW----GVEY-Q---YEPTDEQRELAHALID-AGADV---VIGHHPHVL 217 (239)
T ss_pred ccCCEEEEEecC----cccc-C---CCCCHHHHHHHHHHHH-cCCCE---EEcCCCCcC
Confidence 469999998852 2221 1 1224568888888875 34323 234565443
No 162
>PF08218 Citrate_ly_lig: Citrate lyase ligase C-terminal domain; InterPro: IPR013166 [Citrate (pro-3S)-lyase] ligase (6.2.1.22 from EC), also known as citrate lyase ligase, is responsible for acetylation of the prosthetic group (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase. It converts the inactive thiol form of the enzyme to the active form. In Clostridium sphenoides, citrate lyase ligase actively degrades citrate. In Clostridium sporosphaeroides and Lactococcus lactis, however, the enzyme is under stringent regulatory control. The enzyme's activity in anaerobic bacteria is modulated by phosphorylation and dephosphorylation []. The proteins in this entry represent the C-terminal domain of citrate lyase ligase.; GO: 0008771 [citrate (pro-3S)-lyase] ligase activity
Probab=25.16 E-value=1.7e+02 Score=24.24 Aligned_cols=51 Identities=22% Similarity=0.153 Sum_probs=31.4
Q ss_pred HHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHH-HHHHHHHHHhhCCCceEEEEecCceeecCC
Q 039625 171 KAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGY-QEKLVMEVANATKGTMILVVMAAGNVDVSF 234 (238)
Q Consensus 171 ~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~-q~~li~~l~~~~~~~vVvV~~~g~P~~l~~ 234 (238)
.+++++|.+.+|+=+. |+.- +|.. -.+|+++=.+..++ |+ ++.|++|.++.
T Consensus 21 ~Aa~~~d~l~vFVV~e--------D~S~--Fpf~~R~~LVk~G~~~L~N-V~--V~~~g~YiIS~ 72 (182)
T PF08218_consen 21 QAAKECDWLHVFVVSE--------DRSL--FPFADRYELVKEGTADLPN-VT--VHPGGDYIISS 72 (182)
T ss_pred HHHHhCCEEEEEEEcc--------ccCc--CCHHHHHHHHHHHhCcCCC-EE--EEcCCCeeeec
Confidence 3467899988887532 3332 3333 34788876654554 53 45699998753
No 163
>PRK03003 GTP-binding protein Der; Reviewed
Probab=24.94 E-value=2.4e+02 Score=26.64 Aligned_cols=45 Identities=27% Similarity=0.237 Sum_probs=27.5
Q ss_pred HHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 168 QAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 168 ~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
.+....+.||++|+++-... + +.....++.+.+.. .++|+|+|++
T Consensus 110 ~~~~~~~~aD~il~VvD~~~--------~----~s~~~~~i~~~l~~-~~~piilV~N 154 (472)
T PRK03003 110 QAEVAMRTADAVLFVVDATV--------G----ATATDEAVARVLRR-SGKPVILAAN 154 (472)
T ss_pred HHHHHHHhCCEEEEEEECCC--------C----CCHHHHHHHHHHHH-cCCCEEEEEE
Confidence 34456789999999985321 1 12223445555554 5688888776
No 164
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=24.90 E-value=1.8e+02 Score=23.61 Aligned_cols=57 Identities=12% Similarity=0.123 Sum_probs=36.2
Q ss_pred hHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhh--CCCceEEEEecCcee
Q 039625 163 RLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANA--TKGTMILVVMAAGNV 230 (238)
Q Consensus 163 ~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~--~~~~vVvV~~~g~P~ 230 (238)
...+.+..+.+..||.+|++.-+ .+-.+|+.=..+|+-+... .+||+.++..++++.
T Consensus 55 p~~v~~~~~~i~~aD~li~~tPe-----------Yn~s~pg~lKnaiD~l~~~~~~~Kpv~~~~~s~g~~ 113 (184)
T COG0431 55 PPAVQALREAIAAADGLIIATPE-----------YNGSYPGALKNAIDWLSREALGGKPVLLLGTSGGGA 113 (184)
T ss_pred CHHHHHHHHHHHhCCEEEEECCc-----------cCCCCCHHHHHHHHhCCHhHhCCCcEEEEecCCCch
Confidence 34567778888999999988742 1455666544444433321 367877666666654
No 165
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=24.88 E-value=2.7e+02 Score=23.32 Aligned_cols=18 Identities=22% Similarity=0.410 Sum_probs=14.7
Q ss_pred HHHHHHhCCCCEEEEEee
Q 039625 167 EQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g 184 (238)
.++++.++.+|++++++-
T Consensus 95 ~~~l~~ak~aDvVllviD 112 (225)
T cd01882 95 NAMIDIAKVADLVLLLID 112 (225)
T ss_pred HHHHHHHHhcCEEEEEEe
Confidence 566777889999998875
No 166
>TIGR01826 CofD_related conserved hypothetical protein, cofD-related. This model represents a subfamily of conserved hypothetical proteins that forms a sister group to the family of CofD, (TIGR01819), LPPG:Fo 2-phospho-L-lactate transferase, an enzyme of cytochrome F420 biosynthesis. Both this family and TIGR01819 are within the scope of the pfam model pfam01933.
Probab=24.39 E-value=1.8e+02 Score=26.17 Aligned_cols=20 Identities=25% Similarity=0.328 Sum_probs=14.5
Q ss_pred HHHHHHhCCCCEEEEEeeCC
Q 039625 167 EQAAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~ 186 (238)
.+++++..+||.||+.-|+.
T Consensus 164 ~~al~AI~~ADlIvlgPGSl 183 (310)
T TIGR01826 164 REAVEAIREADLIILGPGSL 183 (310)
T ss_pred HHHHHHHHhCCEEEECCCcC
Confidence 56777788888877766643
No 167
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=24.34 E-value=71 Score=25.89 Aligned_cols=39 Identities=21% Similarity=0.302 Sum_probs=26.0
Q ss_pred CcEEEEccCCC-ch-hh-------------hHHHHHHHHHhCCCCEEEEEeeCC
Q 039625 148 KNLAVIGSNAN-AT-NR-------------RLLIEQAAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 148 ~~i~viG~~a~-~~-~~-------------~~~~~~a~~~a~~aD~vIv~~g~~ 186 (238)
++|+|+|.... .. .. ....++..+.+++||+||.++|.+
T Consensus 45 k~vlViG~G~~~G~~~a~~L~~~g~~V~v~~r~~~~l~~~l~~aDiVIsat~~~ 98 (168)
T cd01080 45 KKVVVVGRSNIVGKPLAALLLNRNATVTVCHSKTKNLKEHTKQADIVIVAVGKP 98 (168)
T ss_pred CEEEEECCcHHHHHHHHHHHhhCCCEEEEEECCchhHHHHHhhCCEEEEcCCCC
Confidence 78999998642 11 11 122245566788999999999864
No 168
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=24.34 E-value=90 Score=29.70 Aligned_cols=28 Identities=7% Similarity=0.229 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhhCCCceEEEEecCceee
Q 039625 203 GYQEKLVMEVANATKGTMILVVMAAGNVD 231 (238)
Q Consensus 203 ~~q~~li~~l~~~~~~~vVvV~~~g~P~~ 231 (238)
....+.|++|.+ .+||.|+++++..|+.
T Consensus 167 eAEervI~ELk~-igKPFvillNs~~P~s 194 (492)
T PF09547_consen 167 EAEERVIEELKE-IGKPFVILLNSTKPYS 194 (492)
T ss_pred HHHHHHHHHHHH-hCCCEEEEEeCCCCCC
Confidence 346678899886 7899999999999985
No 169
>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=23.96 E-value=2.3e+02 Score=20.84 Aligned_cols=19 Identities=11% Similarity=0.137 Sum_probs=10.1
Q ss_pred HHHHHHHHhhCCCceEEEEe
Q 039625 206 EKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 206 ~~li~~l~~~~~~~vVvV~~ 225 (238)
.+.++...+ .+.|||++..
T Consensus 64 ~~~~~~a~~-~g~~vi~iT~ 82 (128)
T cd05014 64 LNLLPHLKR-RGAPIIAITG 82 (128)
T ss_pred HHHHHHHHH-CCCeEEEEeC
Confidence 344555443 5667765544
No 170
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=23.95 E-value=1.9e+02 Score=27.20 Aligned_cols=9 Identities=56% Similarity=0.899 Sum_probs=5.2
Q ss_pred CcEEEEccC
Q 039625 148 KNLAVIGSN 156 (238)
Q Consensus 148 ~~i~viG~~ 156 (238)
++|+|+|-.
T Consensus 8 ~siavvGaS 16 (447)
T TIGR02717 8 KSVAVIGAS 16 (447)
T ss_pred CEEEEEccC
Confidence 556666644
No 171
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=23.92 E-value=1.3e+02 Score=22.40 Aligned_cols=34 Identities=21% Similarity=0.224 Sum_probs=18.5
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLD 186 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~ 186 (238)
||+|+|..+. +-.+..++..-...+-+.++-|..
T Consensus 2 kVLviGsGgR----EHAia~~l~~s~~v~~v~~aPGN~ 35 (100)
T PF02844_consen 2 KVLVIGSGGR----EHAIAWKLSQSPSVEEVYVAPGNP 35 (100)
T ss_dssp EEEEEESSHH----HHHHHHHHTTCTTEEEEEEEE--T
T ss_pred EEEEECCCHH----HHHHHHHHhcCCCCCEEEEeCCCH
Confidence 7899999755 333444443334455566666643
No 172
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=23.78 E-value=2.6e+02 Score=20.47 Aligned_cols=51 Identities=16% Similarity=0.109 Sum_probs=29.4
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEecCce
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMAAGN 229 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~g~P 229 (238)
-++.-.+..++||++|+.+.... .-++---|+--+ .+.+|||+++..-.++
T Consensus 51 i~~~d~~~i~~~D~via~l~~~~------------~d~Gt~~ElG~A--~algkpv~~~~~d~~~ 101 (113)
T PF05014_consen 51 IFERDLEGIRECDIVIANLDGFR------------PDSGTAFELGYA--YALGKPVILLTEDDRP 101 (113)
T ss_dssp HHHHHHHHHHHSSEEEEEECSSS--------------HHHHHHHHHH--HHTTSEEEEEECCCCT
T ss_pred HHHHHHHHHHHCCEEEEECCCCC------------CCCcHHHHHHHH--HHCCCEEEEEEcCCcc
Confidence 34556678889999999985210 001222344333 3468998866654443
No 173
>PF02481 DNA_processg_A: DNA recombination-mediator protein A; InterPro: IPR003488 The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In Helicobacter pylori, dprA is required for natural chromosomal and plasmid transformation []. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyse the homology-dependent formation of joint molecules. While the Escherichia coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation [].; GO: 0009294 DNA mediated transformation; PDB: 3MAJ_A.
Probab=23.70 E-value=2.1e+02 Score=24.01 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=6.3
Q ss_pred CcEEEEccCCCch
Q 039625 148 KNLAVIGSNANAT 160 (238)
Q Consensus 148 ~~i~viG~~a~~~ 160 (238)
+.|+|+|.-..+.
T Consensus 45 ~~iaIvGsR~~s~ 57 (212)
T PF02481_consen 45 PSIAIVGSRNPSE 57 (212)
T ss_dssp -EEEEE--SS--H
T ss_pred ceEEEEcCCCCCH
Confidence 7899999865433
No 174
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=23.50 E-value=3.7e+02 Score=22.36 Aligned_cols=31 Identities=26% Similarity=0.514 Sum_probs=20.3
Q ss_pred cEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 149 NLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 149 ~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.|..+|.... .. ++++.+...++|++| ++|+
T Consensus 146 ~Vv~fgE~~p----~~-~~~a~~~~~~~Dl~l-vlGT 176 (218)
T cd01407 146 DVVFFGESLP----EE-LDEAAEALAKADLLL-VIGT 176 (218)
T ss_pred CeEECCCCCc----HH-HHHHHHHHhcCCEEE-EeCC
Confidence 4666665432 33 788888888899955 5563
No 175
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=23.45 E-value=2.4e+02 Score=21.04 Aligned_cols=37 Identities=14% Similarity=0.161 Sum_probs=21.7
Q ss_pred CCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 174 GTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 174 ~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
+.+|++|+++-... +.....++..+.+ .++|+|+|++
T Consensus 73 ~~~d~vi~v~d~~~--------------~~~~~~~~~~~~~-~~~~~iiv~N 109 (158)
T cd01879 73 EKPDLIVNVVDATN--------------LERNLYLTLQLLE-LGLPVVVALN 109 (158)
T ss_pred CCCcEEEEEeeCCc--------------chhHHHHHHHHHH-cCCCEEEEEe
Confidence 68999999885321 1112234444444 5678877765
No 176
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=23.39 E-value=2.1e+02 Score=24.30 Aligned_cols=54 Identities=9% Similarity=0.091 Sum_probs=35.5
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhh-------CCCceEEEEecCce
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANA-------TKGTMILVVMAAGN 229 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~-------~~~~vVvV~~~g~P 229 (238)
...+..+..+.||.+|++.-+ .+-.+|+..+..|+-+... .+||+.++-.+|+.
T Consensus 80 ~v~~l~~~v~~ADgvii~TPE-----------Yn~sipg~LKNaiDwls~~~~~~~~~~~KpvaivgaSgg~ 140 (219)
T TIGR02690 80 KVRELRQLSEWSEGQVWCSPE-----------RHGAITGSQKDQIDWIPLSVGPVRPTQGKTLAVMQVSGGS 140 (219)
T ss_pred HHHHHHHHHHhCCEEEEeCCc-----------cccCcCHHHHHHHHhcccCcccccccCCCcEEEEEeCCcH
Confidence 345566777789999988642 2567788777777766531 36777665555543
No 177
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=23.08 E-value=2.1e+02 Score=24.93 Aligned_cols=22 Identities=18% Similarity=0.152 Sum_probs=17.5
Q ss_pred hHHHHHHHHHhCCCCEEEEEee
Q 039625 163 RLLIEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 163 ~~~~~~a~~~a~~aD~vIv~~g 184 (238)
...+.+..+.++++|++|.++-
T Consensus 12 ~k~~~~l~~~l~~aDvIL~VvD 33 (287)
T PRK09563 12 AKARREIKENLKLVDVVIEVLD 33 (287)
T ss_pred HHHHHHHHHHhhhCCEEEEEEE
Confidence 3456777888999999998874
No 178
>cd07186 CofD_like LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis. CofD is a 2-phospho-L-lactate transferase that catalyzes the last step in the biosynthesis of coenzyme F(420)-0 (F(420) without polyglutamate) by transferring the lactyl phosphate moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0). F420 is a hydride carrier, important for energy metabolism of methanogenic archaea, as well as for the biosynthesis of other natural products, like tetracycline in Streptomyces. F420 and some of its precursors are also utilized as cofactors for enzymes, like DNA photolyase in Mycobacterium tuberculosis.
Probab=23.03 E-value=1.6e+02 Score=26.51 Aligned_cols=50 Identities=18% Similarity=0.185 Sum_probs=29.6
Q ss_pred HHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 166 IEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..+++++..+||+||+.=|+.. ++- ..+|.+|+ +-++|.+ ++.|+|.|.+
T Consensus 174 ~p~vl~AI~~AD~IVlGPgsp~-TSI----~P~LlVpg----I~eAL~~-s~A~vV~Vsp 223 (303)
T cd07186 174 APEVLEAIEDADLVIIGPSNPV-TSI----GPILALPG----IREALRD-KKAPVVAVSP 223 (303)
T ss_pred CHHHHHHHHhCCEEEECCCccH-HHh----hhhccchh----HHHHHHh-CCCCEEEEcC
Confidence 3578889999999887665431 111 13566664 3445554 4456765543
No 179
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=22.90 E-value=2.8e+02 Score=25.33 Aligned_cols=18 Identities=44% Similarity=0.543 Sum_probs=13.7
Q ss_pred HHHHHHhCCCCEEEEEee
Q 039625 167 EQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g 184 (238)
+....++..||.++|+.-
T Consensus 147 q~~~~a~q~AD~vvVv~D 164 (379)
T KOG1423|consen 147 QNPRDAAQNADCVVVVVD 164 (379)
T ss_pred hCHHHHHhhCCEEEEEEe
Confidence 455667889999998874
No 180
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=22.75 E-value=1.6e+02 Score=20.96 Aligned_cols=25 Identities=4% Similarity=0.165 Sum_probs=20.6
Q ss_pred HHHHHHHHHhhCCCceEEEEecCcee
Q 039625 205 QEKLVMEVANATKGTMILVVMAAGNV 230 (238)
Q Consensus 205 q~~li~~l~~~~~~~vVvV~~~g~P~ 230 (238)
|+.++..+.+ .++||.+.+..|-.+
T Consensus 8 Qd~fLn~lr~-~~~~VtifL~NG~~l 32 (79)
T PRK00395 8 QDPFLNALRK-ERVPVTIYLVNGIKL 32 (79)
T ss_pred HHHHHHHHHH-cCCCEEEEEeCCcEE
Confidence 8899999987 678898888877664
No 181
>PRK06213 enoyl-CoA hydratase; Provisional
Probab=22.63 E-value=2.3e+02 Score=23.73 Aligned_cols=63 Identities=16% Similarity=0.176 Sum_probs=30.6
Q ss_pred HHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCC-CHHH-------HHHHHHHHhhCCCceEEEEecCce
Q 039625 164 LLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTL-HGYQ-------EKLVMEVANATKGTMILVVMAAGN 229 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l-~~~q-------~~li~~l~~~~~~~vVvV~~~g~P 229 (238)
..+.+++..+.+..-+|+..|....+ +-|.|...+.- +... .+++.++.. .+||||..++ |..
T Consensus 32 ~~l~~~l~~~~~~~~vvvl~g~g~~F-~~G~Dl~~~~~~~~~~~~~~~~~~~l~~~l~~-~~kPvIAav~-G~a 102 (229)
T PRK06213 32 DALNAALDQAEDDRAVVVITGQPGIF-SGGFDLKVMTSGAQAAIALLTAGSTLARRLLS-HPKPVIVACT-GHA 102 (229)
T ss_pred HHHHHHHHHhhccCcEEEEeCCCCce-EcCcCHHHHhcchHhHHHHHHHHHHHHHHHHc-CCCCEEEEEc-Cee
Confidence 34455555554334455555654333 23445332211 1111 234555554 7899987765 543
No 182
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=22.53 E-value=3.8e+02 Score=21.73 Aligned_cols=22 Identities=14% Similarity=0.312 Sum_probs=16.4
Q ss_pred HHHHHHHHHhCCCCEEEEEeeC
Q 039625 164 LLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
.........+..+|++|+++..
T Consensus 95 ~~~~~~~~~~~~~D~~llVvd~ 116 (203)
T cd01888 95 ILMATMLSGAAVMDGALLLIAA 116 (203)
T ss_pred HHHHHHHHhhhcCCEEEEEEEC
Confidence 3445677778899999999863
No 183
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=22.50 E-value=2.6e+02 Score=23.00 Aligned_cols=54 Identities=7% Similarity=0.126 Sum_probs=32.1
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHh--hCCCceEEEEecCce
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVAN--ATKGTMILVVMAAGN 229 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~--~~~~~vVvV~~~g~P 229 (238)
.+.+..+..++||.+|++.-. -+..+|+-=+.+|+.+.. -.+||+.++..+|.+
T Consensus 56 ~~~~~~~~i~~AD~iIi~tP~-----------Y~~s~pg~LKn~iD~l~~~~l~~K~v~iiat~G~~ 111 (191)
T PRK10569 56 ALKTFTEQLAQADGLIVATPV-----------YKASFSGALKTLLDLLPERALEHKVVLPLATGGSV 111 (191)
T ss_pred HHHHHHHHHHHCCEEEEECCc-----------cCCCCCHHHHHHHHhCChhhhCCCEEEEEEecCCc
Confidence 567788888999999877521 134556655555554321 135666555544443
No 184
>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit. The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.
Probab=22.45 E-value=5.9e+02 Score=24.55 Aligned_cols=45 Identities=18% Similarity=0.359 Sum_probs=25.8
Q ss_pred CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEE-EE-EeeCC
Q 039625 138 GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVV-VM-VVGLD 186 (238)
Q Consensus 138 ~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~v-Iv-~~g~~ 186 (238)
.++|+-++ .|++|+|+...--+ .-.+ .++..-+++|++ |+ .+|+.
T Consensus 154 ~l~pigrG--Qr~~I~g~~g~GKt-~Lal-~~i~~~~~~dv~~V~~~IGer 200 (501)
T TIGR00962 154 AMIPIGRG--QRELIIGDRQTGKT-AVAI-DTIINQKDSDVYCVYVAIGQK 200 (501)
T ss_pred ccCCcccC--CEEEeecCCCCCcc-HHHH-HHHHhhcCCCeEEEEEEccCC
Confidence 46899877 89999997543222 1112 233333578885 33 45543
No 185
>PRK00871 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional
Probab=22.30 E-value=3.3e+02 Score=22.16 Aligned_cols=55 Identities=15% Similarity=0.129 Sum_probs=34.4
Q ss_pred HHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHh-----------hCCCceEEEEecCcee
Q 039625 165 LIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVAN-----------ATKGTMILVVMAAGNV 230 (238)
Q Consensus 165 ~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~-----------~~~~~vVvV~~~g~P~ 230 (238)
++++-.+....||.+|+..= --.+..|.--...|+.|.. -.+|++++++.+|+|-
T Consensus 45 dv~~eq~~l~~aD~iV~~fP-----------~~w~~~Pa~lK~wiD~V~~~g~ay~~~g~~l~gk~~~~~~t~G~~~ 110 (176)
T PRK00871 45 DIAAEQEALSRADLIVWQHP-----------MQWYSIPPLLKLWIDKVLSHGWAYGHGGTALHGKHLLWAVTTGGGE 110 (176)
T ss_pred hHHHHHHHHHhCCEEEEEcC-----------hhhccccHHHHHHHHHHhhCCccccCCCCCcCCCEEEEEEeCCCCH
Confidence 34555666778999988752 1245566655555555532 1367787788888874
No 186
>PRK07165 F0F1 ATP synthase subunit alpha; Validated
Probab=21.35 E-value=6.5e+02 Score=24.35 Aligned_cols=44 Identities=11% Similarity=0.302 Sum_probs=25.4
Q ss_pred CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEE--EEEeeC
Q 039625 138 GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVV--VMVVGL 185 (238)
Q Consensus 138 ~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~v--Iv~~g~ 185 (238)
.++|+-++ .|+.|+|+...--+ .-.++..+.. +++|++ ++.+|+
T Consensus 136 ~l~pigrG--QR~~Ifg~~gtGKT-~lal~~I~~q-~~~dv~~V~~~IGe 181 (507)
T PRK07165 136 LLIPIGKG--QRELIIGDRQTGKT-HIALNTIINQ-KNTNVKCIYVAIGQ 181 (507)
T ss_pred hcCCcccC--CEEEeecCCCCCcc-HHHHHHHHHh-cCCCeEEEEEEccC
Confidence 46899877 89999987543222 1113333333 578875 334454
No 187
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=21.02 E-value=3e+02 Score=24.97 Aligned_cols=19 Identities=21% Similarity=0.333 Sum_probs=14.3
Q ss_pred HHHHHHHhCCCCEEEEEee
Q 039625 166 IEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g 184 (238)
+......+.+||++|+++-
T Consensus 259 f~~tle~~~~ADlil~VvD 277 (351)
T TIGR03156 259 FRATLEEVREADLLLHVVD 277 (351)
T ss_pred HHHHHHHHHhCCEEEEEEE
Confidence 4455567889999998874
No 188
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=20.94 E-value=2e+02 Score=25.36 Aligned_cols=54 Identities=24% Similarity=0.404 Sum_probs=21.6
Q ss_pred CCCCEEEEEeeCCCCccc-cCCCCCCCCCCHHHHHHHHHHHhh---CCCceEEEEecCceeec
Q 039625 174 GTADVVVMVVGLDQSIEA-EGLDKENLTLHGYQEKLVMEVANA---TKGTMILVVMAAGNVDV 232 (238)
Q Consensus 174 ~~aD~vIv~~g~~~~~~~-eg~Dr~~l~l~~~q~~li~~l~~~---~~~~vVvV~~~g~P~~l 232 (238)
..+|++++-+|... .| -|.+ +.++|.+ -.++++++.++ .++-+| +++.|+|+.-
T Consensus 169 AGaDiiv~H~GlT~--gG~~Ga~-~~~sl~~-a~~~~~~i~~aa~~v~~dii-~l~hGGPI~~ 226 (268)
T PF09370_consen 169 AGADIIVAHMGLTT--GGSIGAK-TALSLEE-AAERIQEIFDAARAVNPDII-VLCHGGPIAT 226 (268)
T ss_dssp HT-SEEEEE-SS-------------S--HHH-HHHHHHHHHHHHHCC-TT-E-EEEECTTB-S
T ss_pred cCCCEEEecCCccC--CCCcCcc-ccCCHHH-HHHHHHHHHHHHHHhCCCeE-EEEeCCCCCC
Confidence 48999999998542 11 1221 1223322 22444444332 333355 5556999864
No 189
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=20.85 E-value=3.2e+02 Score=27.40 Aligned_cols=46 Identities=30% Similarity=0.312 Sum_probs=28.9
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVM 225 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~ 225 (238)
..+....+.+|++|+++-... .+.....++++.+.. .++|+|+|++
T Consensus 346 ~~~~~~~~~aD~iL~VvDa~~------------~~~~~d~~i~~~Lr~-~~~pvIlV~N 391 (712)
T PRK09518 346 SQAQIAVSLADAVVFVVDGQV------------GLTSTDERIVRMLRR-AGKPVVLAVN 391 (712)
T ss_pred HHHHHHHHhCCEEEEEEECCC------------CCCHHHHHHHHHHHh-cCCCEEEEEE
Confidence 344556789999999984211 122333456666654 6789988776
No 190
>COG2845 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.77 E-value=4.1e+02 Score=24.31 Aligned_cols=71 Identities=11% Similarity=0.126 Sum_probs=36.3
Q ss_pred CCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEec
Q 039625 147 TKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKGTMILVVMA 226 (238)
Q Consensus 147 ~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~~vVvV~~~ 226 (238)
.++|+++|..-.... ..++.. +.+.+.++.|+..... .-|.-|.++--++.+ +-+.+.+ .++|-+||++.
T Consensus 116 a~kvLvvGDslm~gl-a~gl~~--al~t~~~i~i~~~sn~----SSGlvr~dYfdWpk~--i~~~l~~-~~~~a~vVV~l 185 (354)
T COG2845 116 ADKVLVVGDSLMQGL-AEGLDK--ALATSPGITIVTRSNG----SSGLVRDDYFDWPKA--IPELLDK-HPKPAAVVVML 185 (354)
T ss_pred CCEEEEechHHhhhh-HHHHHH--HhccCCCcEEEEeecC----CCCcccccccccHHH--HHHHHHh-cCCccEEEEEe
Confidence 378999997644322 222222 2345677777766432 236677765444333 3333443 33455555553
Q ss_pred C
Q 039625 227 A 227 (238)
Q Consensus 227 g 227 (238)
|
T Consensus 186 G 186 (354)
T COG2845 186 G 186 (354)
T ss_pred c
Confidence 3
No 191
>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=20.71 E-value=1.3e+02 Score=32.18 Aligned_cols=43 Identities=21% Similarity=0.259 Sum_probs=25.8
Q ss_pred HHHHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHH
Q 039625 167 EQAAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVM 210 (238)
Q Consensus 167 ~~a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~ 210 (238)
++..++|+.|+.==+..+.+..++..=.+| .-.|+++|.|-|.
T Consensus 1094 ~eIi~Aak~ANaH~FI~sLP~GyDT~vGer-G~QLSGGQKQRIA 1136 (1228)
T KOG0055|consen 1094 EEIIEAAKLANAHNFISSLPQGYDTRVGER-GVQLSGGQKQRIA 1136 (1228)
T ss_pred HHHHHHHHHhhhHHHHhcCcCcccCccCcc-cCcCCchHHHHHH
Confidence 455556665555445556665555554454 4678888887653
No 192
>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit. Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.
Probab=20.66 E-value=5.5e+02 Score=25.33 Aligned_cols=43 Identities=19% Similarity=0.315 Sum_probs=26.5
Q ss_pred CCCCCCCCCCCcEEEEccCCCchhhhHHHHHHHHHhCCCCEEEEE-eeC
Q 039625 138 GALPLSSNNTKNLAVIGSNANATNRRLLIEQAAKAAGTADVVVMV-VGL 185 (238)
Q Consensus 138 ~~LPL~~~~~~~i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~-~g~ 185 (238)
.++|+-++ .|++|+|+...--+ .+...++.-.++|++|++ +|+
T Consensus 215 ~l~Pi~kG--qr~~I~gg~G~GKT---~l~~~lak~~~adivVyvg~GE 258 (578)
T TIGR01043 215 TFFPIAKG--GTAAIPGPFGSGKT---VTQHQLAKWSDADIVVYIGCGE 258 (578)
T ss_pred ccccccCC--CEEEEecCCCCCHH---HHHHHHHhcCCCCEEEEEEecc
Confidence 46788876 89999988643222 123333334578888775 454
No 193
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=20.65 E-value=3.9e+02 Score=26.69 Aligned_cols=10 Identities=50% Similarity=0.820 Sum_probs=7.6
Q ss_pred CCCCEEEEEe
Q 039625 174 GTADVVVMVV 183 (238)
Q Consensus 174 ~~aD~vIv~~ 183 (238)
.++|++|-++
T Consensus 80 ~~~D~ivnVv 89 (653)
T COG0370 80 GKPDLIVNVV 89 (653)
T ss_pred CCCCEEEEEc
Confidence 4679888777
No 194
>PRK09866 hypothetical protein; Provisional
Probab=20.50 E-value=7.9e+02 Score=24.96 Aligned_cols=44 Identities=14% Similarity=0.111 Sum_probs=27.5
Q ss_pred HHHHhCCCCEEEEEeeCCCCccccCCCCCCCCCCHHHHHHHHHHHhhCCC--ceEEEEe
Q 039625 169 AAKAAGTADVVVMVVGLDQSIEAEGLDKENLTLHGYQEKLVMEVANATKG--TMILVVM 225 (238)
Q Consensus 169 a~~~a~~aD~vIv~~g~~~~~~~eg~Dr~~l~l~~~q~~li~~l~~~~~~--~vVvV~~ 225 (238)
..+.++++|+|++++-... ........+++.+.+ .++ |+++|++
T Consensus 252 M~eqL~eADvVLFVVDat~------------~~s~~DeeIlk~Lkk-~~K~~PVILVVN 297 (741)
T PRK09866 252 LNQQLARASAVLAVLDYTQ------------LKSISDEEVREAILA-VGQSVPLYVLVN 297 (741)
T ss_pred HHHHHhhCCEEEEEEeCCC------------CCChhHHHHHHHHHh-cCCCCCEEEEEE
Confidence 4457889999999984210 112234456666765 453 8888876
No 195
>CHL00071 tufA elongation factor Tu
Probab=20.46 E-value=3.7e+02 Score=24.84 Aligned_cols=21 Identities=19% Similarity=0.270 Sum_probs=16.4
Q ss_pred HHHHHHHHHhCCCCEEEEEee
Q 039625 164 LLIEQAAKAAGTADVVVMVVG 184 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~~g 184 (238)
..+..+...+..+|++++++-
T Consensus 87 ~~~~~~~~~~~~~D~~ilVvd 107 (409)
T CHL00071 87 DYVKNMITGAAQMDGAILVVS 107 (409)
T ss_pred HHHHHHHHHHHhCCEEEEEEE
Confidence 445666777889999999985
No 196
>cd01411 SIR2H SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=20.40 E-value=1.7e+02 Score=24.68 Aligned_cols=31 Identities=32% Similarity=0.458 Sum_probs=21.3
Q ss_pred EEEEccCCCchhhhHHHHHHHHHhCCCCEEEEEeeC
Q 039625 150 LAVIGSNANATNRRLLIEQAAKAAGTADVVVMVVGL 185 (238)
Q Consensus 150 i~viG~~a~~~~~~~~~~~a~~~a~~aD~vIv~~g~ 185 (238)
|..+|.... ...++++.+.++++|++|+ +|+
T Consensus 150 vv~fge~~~----~~~~~~~~~~~~~~Dlllv-iGT 180 (225)
T cd01411 150 IVLYEEMLN----ESVIEEAIQAIEKADLLVI-VGT 180 (225)
T ss_pred EEEcCCCCC----HHHHHHHHHHHhcCCEEEE-ECc
Confidence 556665433 3456778888889997776 874
No 197
>PF10994 DUF2817: Protein of unknown function (DUF2817); InterPro: IPR021259 This family of proteins has no known function.
Probab=20.40 E-value=2e+02 Score=26.20 Aligned_cols=34 Identities=24% Similarity=0.248 Sum_probs=24.3
Q ss_pred CHHHHHHHHHH-Hh-hCCCceEEEEecCceeecCCC
Q 039625 202 HGYQEKLVMEV-AN-ATKGTMILVVMAAGNVDVSFC 235 (238)
Q Consensus 202 ~~~q~~li~~l-~~-~~~~~vVvV~~~g~P~~l~~~ 235 (238)
+.-|..+|+.. .. ....+-|+.|+.=+||-+.|.
T Consensus 69 SaiQ~~~L~~~~~~~~~~~~avllVHAlNPyGfa~~ 104 (341)
T PF10994_consen 69 SAIQIALLREDLARSLPAGVAVLLVHALNPYGFAWL 104 (341)
T ss_pred HHHHHHHHHcccccccCCCCeEEEEEccCcccccee
Confidence 56799999884 11 123346678889999999886
No 198
>TIGR01466 cobJ_cbiH precorrin-3B C17-methyltransferase. This model represents precorrin-3B C17-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-4 C11-methyltransferase, EC 2.1.1.133). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products. Members of this family may appear as fusion proteins with other enzymes of cobalamin biosynthesis.
Probab=20.24 E-value=1.9e+02 Score=24.34 Aligned_cols=19 Identities=37% Similarity=0.433 Sum_probs=14.8
Q ss_pred HHHHHHHHHhCCCCEEEEE
Q 039625 164 LLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 164 ~~~~~a~~~a~~aD~vIv~ 182 (238)
....+|++..++||+++..
T Consensus 13 ~lT~~A~~~i~~AdvV~~~ 31 (239)
T TIGR01466 13 LMTPEAKEALAEADVIVGY 31 (239)
T ss_pred HHHHHHHHHHHhCCEEEEC
Confidence 3456889999999998843
No 199
>TIGR02467 CbiE precorrin-6y C5,15-methyltransferase (decarboxylating), CbiE subunit. This model recognizes the CbiE methylase which is responsible, in part (along with CbiT), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiT subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=20.22 E-value=1.5e+02 Score=24.33 Aligned_cols=62 Identities=21% Similarity=0.190 Sum_probs=33.0
Q ss_pred HHHHHHHhCCCCEEEEEeeCCCCccc--c--CCCCCCCCCCHHHHHHHHHHHhhC-CCceEEEEecCceee
Q 039625 166 IEQAAKAAGTADVVVMVVGLDQSIEA--E--GLDKENLTLHGYQEKLVMEVANAT-KGTMILVVMAAGNVD 231 (238)
Q Consensus 166 ~~~a~~~a~~aD~vIv~~g~~~~~~~--e--g~Dr~~l~l~~~q~~li~~l~~~~-~~~vVvV~~~g~P~~ 231 (238)
..++++..++||+++..- ...+. + +.++.-......+.+.++.+.+.. +++| +++.+|.|..
T Consensus 13 T~~a~~~L~~advv~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~v-v~l~~GDP~~ 79 (204)
T TIGR02467 13 TPAAIEAIRKADLVVGGE---RHLELLAELIGEKREIILTYKDLDELLEFIAATRKEKRV-VVLASGDPLF 79 (204)
T ss_pred CHHHHHHHHhCCEEEech---hhHHHHhhhcCCceEeccCcCCHHHHHHHHHHhcCCCCE-EEEecCCCcc
Confidence 457888899999988531 11110 0 011111111223556666666533 6655 5667899954
No 200
>PRK06242 flavodoxin; Provisional
Probab=20.10 E-value=2.2e+02 Score=21.67 Aligned_cols=12 Identities=17% Similarity=0.205 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHh
Q 039625 118 DHKSLALDAAKQ 129 (238)
Q Consensus 118 ~~~~la~~~a~~ 129 (238)
..+.+|+.+++.
T Consensus 14 nT~~~A~~ia~~ 25 (150)
T PRK06242 14 NTEKIAKAIAEV 25 (150)
T ss_pred CHHHHHHHHHHh
Confidence 356677777655
No 201
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=20.01 E-value=3.9e+02 Score=23.38 Aligned_cols=59 Identities=17% Similarity=0.227 Sum_probs=40.5
Q ss_pred CHHHHHHHHHHHHhCceeccCCCCCCCCCCCCCcEEEEccCCCc-----hh---hhHHHHHHHHHhCCCCEEEEE
Q 039625 116 TDDHKSLALDAAKQGIDSLDNKGALPLSSNNTKNLAVIGSNANA-----TN---RRLLIEQAAKAAGTADVVVMV 182 (238)
Q Consensus 116 ~~~~~~la~~~a~~sivLLkN~~~LPL~~~~~~~i~viG~~a~~-----~~---~~~~~~~a~~~a~~aD~vIv~ 182 (238)
.+..++-++++.+++|+|-++=+ +++|-+.|-+..- .+ ...++..++..|..|-|.+.+
T Consensus 87 D~~~r~~aleiM~KaI~LA~dLG--------IRtIQLAGYDVYYE~~d~eT~~rFi~g~~~a~~lA~~aqV~lAv 153 (287)
T COG3623 87 DEATRQQALEIMEKAIQLAQDLG--------IRTIQLAGYDVYYEEADEETRQRFIEGLKWAVELAARAQVMLAV 153 (287)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhC--------ceeEeeccceeeeccCCHHHHHHHHHHHHHHHHHHHhhccEEEe
Confidence 47788999999999999987432 3556666654311 11 145677888888888776654
Done!