Query 031617
Match_columns 156
No_of_seqs 107 out of 1105
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 03:01:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031617.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031617hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3167 Box H/ACA snoRNP compo 100.0 3.6E-34 7.8E-39 216.7 12.7 142 1-153 9-151 (153)
2 TIGR03677 rpl7ae 50S ribosomal 100.0 4.3E-30 9.4E-35 191.0 13.7 116 24-151 1-116 (117)
3 PRK04175 rpl7ae 50S ribosomal 100.0 2E-29 4.3E-34 188.8 14.1 116 24-151 5-120 (122)
4 COG1358 RPL8A Ribosomal protei 99.9 1.3E-26 2.7E-31 172.4 13.0 100 25-125 2-101 (116)
5 PF01248 Ribosomal_L7Ae: Ribos 99.9 7.9E-24 1.7E-28 150.2 8.3 91 36-126 1-91 (95)
6 PRK01018 50S ribosomal protein 99.9 5.6E-23 1.2E-27 148.7 10.4 88 38-126 4-92 (99)
7 PRK07714 hypothetical protein; 99.9 4.9E-23 1.1E-27 148.9 9.7 90 35-126 3-92 (100)
8 PTZ00106 60S ribosomal protein 99.9 1.1E-22 2.4E-27 149.6 10.3 91 35-126 10-101 (108)
9 PRK05583 ribosomal protein L7A 99.9 5.3E-22 1.1E-26 145.0 11.9 90 34-125 1-90 (104)
10 PRK07283 hypothetical protein; 99.9 3.3E-22 7.1E-27 144.4 9.8 89 35-126 3-91 (98)
11 PRK13602 putative ribosomal pr 99.9 3.8E-22 8.2E-27 140.0 9.8 77 44-121 5-81 (82)
12 PRK13600 putative ribosomal pr 99.9 3.8E-22 8.3E-27 140.8 8.6 73 48-121 11-83 (84)
13 PRK06683 hypothetical protein; 99.9 9.6E-22 2.1E-26 138.1 9.7 79 42-121 3-81 (82)
14 KOG3387 60S ribosomal protein 99.9 3.6E-21 7.9E-26 143.9 9.7 120 21-142 5-127 (131)
15 PRK13601 putative L7Ae-like ri 99.8 7.8E-21 1.7E-25 133.6 8.4 74 48-122 6-79 (82)
16 PTZ00222 60S ribosomal protein 99.8 2.8E-19 6.1E-24 147.9 13.6 93 51-145 133-231 (263)
17 PRK09190 hypothetical protein; 99.8 6.2E-19 1.3E-23 143.8 10.0 106 31-139 92-203 (220)
18 PTZ00365 60S ribosomal protein 99.8 1.9E-18 4.2E-23 143.2 12.7 91 51-152 133-223 (266)
19 COG1911 RPL30 Ribosomal protei 99.7 1.7E-16 3.7E-21 114.0 8.8 91 36-127 5-96 (100)
20 KOG3406 40S ribosomal protein 99.7 2.3E-16 5.1E-21 118.1 9.7 94 32-125 16-120 (134)
21 KOG2988 60S ribosomal protein 98.9 6.7E-09 1.5E-13 76.3 7.2 92 35-127 11-103 (112)
22 KOG3166 60S ribosomal protein 98.4 3.5E-07 7.6E-12 74.2 3.8 80 51-146 110-195 (209)
23 PF08228 RNase_P_pop3: RNase P 98.2 1.6E-05 3.5E-10 62.2 9.4 97 27-124 21-134 (158)
24 PF08032 SpoU_sub_bind: RNA 2' 96.7 0.0056 1.2E-07 40.8 5.6 72 51-124 1-73 (76)
25 PF03465 eRF1_3: eRF1 domain 3 96.5 0.0064 1.4E-07 44.7 5.0 84 34-121 7-109 (113)
26 PF15608 PELOTA_1: PELOTA RNA 95.6 0.033 7.1E-07 40.6 5.2 52 49-102 38-89 (100)
27 PRK04011 peptide chain release 94.5 0.16 3.4E-06 45.2 7.4 63 47-109 293-396 (411)
28 TIGR03676 aRF1/eRF1 peptide ch 94.5 0.15 3.3E-06 45.2 7.3 75 46-121 284-399 (403)
29 TIGR00108 eRF peptide chain re 94.0 0.25 5.5E-06 43.9 7.7 76 46-122 288-404 (409)
30 TIGR00111 pelota probable tran 93.9 0.21 4.6E-06 43.4 7.0 75 47-123 274-349 (351)
31 PF10087 DUF2325: Uncharacteri 93.0 0.15 3.3E-06 35.9 3.8 43 65-107 47-91 (97)
32 PRK10864 putative methyltransf 91.6 1.2 2.5E-05 39.1 8.3 80 42-124 101-182 (346)
33 PRK11181 23S rRNA (guanosine-2 91.4 1.3 2.9E-05 36.4 8.1 73 50-124 3-77 (244)
34 TIGR00186 rRNA_methyl_3 rRNA m 89.8 2.4 5.1E-05 34.7 8.2 71 50-124 2-72 (237)
35 cd01422 MGS Methylglyoxal synt 87.3 1.4 2.9E-05 32.3 4.7 49 52-100 56-108 (115)
36 PRK05562 precorrin-2 dehydroge 86.2 1.9 4.1E-05 35.5 5.5 85 66-153 85-175 (223)
37 PF07997 DUF1694: Protein of u 84.7 3.8 8.3E-05 30.5 6.0 48 56-104 52-99 (120)
38 PRK05234 mgsA methylglyoxal sy 82.4 2.6 5.7E-05 32.1 4.5 54 54-107 63-121 (142)
39 PF02142 MGS: MGS-like domain 82.3 1.6 3.6E-05 30.4 3.1 42 57-98 51-95 (95)
40 cd00532 MGS-like MGS-like doma 79.9 2.9 6.3E-05 30.1 3.8 46 54-99 55-105 (112)
41 PF13611 Peptidase_S76: Serine 78.1 1.8 4E-05 32.6 2.3 29 72-101 30-58 (121)
42 PLN02821 1-hydroxy-2-methyl-2- 78.0 18 0.0004 33.0 9.0 46 61-107 357-402 (460)
43 PF13727 CoA_binding_3: CoA-bi 77.8 2.2 4.8E-05 31.6 2.7 50 51-100 126-175 (175)
44 PF03618 Kinase-PPPase: Kinase 77.5 12 0.00026 31.5 7.2 42 70-112 55-98 (255)
45 PRK06628 lipid A biosynthesis 77.3 13 0.00029 30.9 7.5 74 22-101 140-231 (290)
46 PRK13371 4-hydroxy-3-methylbut 76.9 23 0.00049 31.7 9.1 49 58-107 280-328 (387)
47 TIGR01470 cysG_Nterm siroheme 76.5 6.4 0.00014 31.5 5.2 84 65-151 68-158 (205)
48 smart00851 MGS MGS-like domain 76.0 4.3 9.4E-05 27.8 3.6 47 51-97 40-89 (90)
49 COG0796 MurI Glutamate racemas 75.9 19 0.00041 30.6 8.0 37 61-100 62-98 (269)
50 COG0566 SpoU rRNA methylases [ 75.1 30 0.00064 28.8 9.0 73 50-125 22-95 (260)
51 COG1105 FruK Fructose-1-phosph 71.8 20 0.00044 31.0 7.4 85 20-113 101-197 (310)
52 PRK01045 ispH 4-hydroxy-3-meth 70.4 38 0.00082 29.1 8.7 61 58-122 203-263 (298)
53 PRK06553 lipid A biosynthesis 70.3 28 0.0006 29.3 7.9 73 22-100 159-249 (308)
54 PF15632 ATPgrasp_Ter: ATP-gra 70.2 10 0.00022 33.0 5.2 55 52-107 8-81 (329)
55 PRK08419 lipid A biosynthesis 69.6 30 0.00064 28.8 7.8 47 53-101 171-231 (298)
56 COG1537 PelA Predicted RNA-bin 68.9 14 0.00029 32.7 5.7 79 41-121 262-347 (352)
57 PF00009 GTP_EFTU: Elongation 68.6 6.1 0.00013 30.3 3.3 49 55-103 84-132 (188)
58 PF02401 LYTB: LytB protein; 67.2 41 0.0009 28.6 8.2 63 56-123 200-263 (281)
59 PF03279 Lip_A_acyltrans: Bact 66.3 20 0.00044 29.5 6.2 93 54-156 180-287 (295)
60 COG1648 CysG Siroheme synthase 66.2 20 0.00043 29.1 5.9 57 67-127 73-133 (210)
61 PRK12723 flagellar biosynthesi 66.1 50 0.0011 29.3 8.8 62 66-127 206-267 (388)
62 PRK07920 lipid A biosynthesis 65.5 76 0.0016 26.4 9.5 74 22-100 134-228 (298)
63 PF07085 DRTGG: DRTGG domain; 65.4 9.3 0.0002 26.9 3.5 42 56-100 51-92 (105)
64 COG2099 CobK Precorrin-6x redu 65.3 20 0.00044 30.3 5.9 48 53-100 53-100 (257)
65 PRK03147 thiol-disulfide oxido 64.6 26 0.00056 26.0 6.0 66 54-124 82-148 (173)
66 cd01424 MGS_CPS_II Methylglyox 64.2 14 0.0003 26.1 4.2 46 53-98 54-100 (110)
67 PRK10637 cysG siroheme synthas 64.1 13 0.00029 33.2 4.9 83 66-151 72-161 (457)
68 PF02603 Hpr_kinase_N: HPr Ser 63.9 9 0.00019 28.4 3.2 41 57-100 72-112 (127)
69 cd01483 E1_enzyme_family Super 62.3 13 0.00029 27.2 3.9 37 65-103 88-124 (143)
70 cd01482 vWA_collagen_alphaI-XI 62.2 53 0.0012 24.4 7.3 78 35-112 62-153 (164)
71 COG1503 eRF1 Peptide chain rel 61.8 31 0.00067 31.1 6.7 32 46-77 291-322 (411)
72 TIGR03025 EPS_sugtrans exopoly 61.7 21 0.00045 31.5 5.6 55 52-106 174-228 (445)
73 cd01020 TroA_b Metal binding p 61.4 22 0.00047 29.2 5.4 88 51-150 156-261 (264)
74 PRK09590 celB cellobiose phosp 60.4 15 0.00032 26.6 3.7 46 53-100 37-82 (104)
75 TIGR02208 lipid_A_msbB lipid A 60.3 60 0.0013 27.2 8.0 74 23-100 149-239 (305)
76 PRK06718 precorrin-2 dehydroge 60.2 18 0.00038 28.9 4.5 85 65-153 69-160 (202)
77 TIGR03023 WcaJ_sugtrans Undeca 60.2 22 0.00048 31.3 5.6 56 51-106 176-231 (451)
78 TIGR00160 MGSA methylglyoxal s 60.1 20 0.00043 27.8 4.6 58 53-111 60-123 (143)
79 TIGR00216 ispH_lytB (E)-4-hydr 60.1 70 0.0015 27.2 8.3 55 65-122 207-261 (280)
80 COG0803 LraI ABC-type metal io 58.8 26 0.00057 29.5 5.6 102 9-111 131-265 (303)
81 COG1419 FlhF Flagellar GTP-bin 58.7 31 0.00068 31.0 6.2 66 63-128 230-295 (407)
82 PRK05906 lipid A biosynthesis 58.6 53 0.0012 29.8 7.8 73 22-100 165-255 (454)
83 PRK12360 4-hydroxy-3-methylbut 58.2 75 0.0016 27.1 8.2 55 65-122 208-262 (281)
84 PF05621 TniB: Bacterial TniB 57.5 25 0.00054 30.3 5.2 75 33-107 111-194 (302)
85 PF13344 Hydrolase_6: Haloacid 57.3 27 0.00059 24.6 4.7 46 49-96 13-58 (101)
86 KOG2486 Predicted GTPase [Gene 56.6 10 0.00022 32.9 2.7 45 63-107 216-262 (320)
87 cd07984 LPLAT_LABLAT-like Lyso 55.8 86 0.0019 23.6 8.8 47 53-101 78-138 (192)
88 PRK08943 lipid A biosynthesis 55.8 1E+02 0.0022 25.9 8.7 76 22-101 157-249 (314)
89 PRK00865 glutamate racemase; P 55.6 45 0.00098 27.5 6.4 41 57-100 58-98 (261)
90 cd04165 GTPBP1_like GTPBP1-lik 54.2 19 0.00042 29.0 3.9 50 56-105 99-150 (224)
91 PRK08057 cobalt-precorrin-6x r 53.8 31 0.00068 28.6 5.1 47 54-100 53-99 (248)
92 COG0761 lytB 4-Hydroxy-3-methy 53.3 1.2E+02 0.0025 26.3 8.5 58 65-126 211-268 (294)
93 PRK00087 4-hydroxy-3-methylbut 52.8 86 0.0019 29.4 8.4 55 65-122 205-259 (647)
94 PRK05703 flhF flagellar biosyn 52.8 97 0.0021 27.6 8.4 64 64-127 249-312 (424)
95 PF00578 AhpC-TSA: AhpC/TSA fa 52.4 48 0.001 22.9 5.3 67 54-125 47-119 (124)
96 PRK11889 flhF flagellar biosyn 52.2 1.8E+02 0.0038 26.6 9.9 64 64-127 267-333 (436)
97 TIGR03729 acc_ester putative p 51.6 39 0.00085 27.0 5.3 46 55-100 21-68 (239)
98 cd03420 SirA_RHOD_Pry_redox Si 51.4 42 0.0009 22.0 4.5 40 58-100 16-57 (69)
99 PRK14723 flhF flagellar biosyn 51.4 70 0.0015 31.1 7.6 65 64-128 213-277 (767)
100 COG0420 SbcD DNA repair exonuc 51.3 27 0.00058 30.1 4.6 45 55-100 29-82 (390)
101 COG1168 MalY Bifunctional PLP- 51.3 33 0.00072 30.6 5.1 51 47-97 139-195 (388)
102 PRK14722 flhF flagellar biosyn 51.0 68 0.0015 28.4 7.0 63 65-127 166-228 (374)
103 COG1880 CdhB CO dehydrogenase/ 50.7 32 0.00069 27.3 4.4 45 57-101 27-71 (170)
104 TIGR01917 gly_red_sel_B glycin 50.5 95 0.002 28.2 7.9 94 56-151 326-420 (431)
105 KOG4201 Anthranilate synthase 50.4 32 0.0007 28.9 4.6 71 51-124 145-216 (289)
106 PF07905 PucR: Purine cataboli 50.3 34 0.00073 24.9 4.3 42 63-105 70-111 (123)
107 PRK05339 PEP synthetase regula 50.1 63 0.0014 27.4 6.4 44 68-112 59-104 (269)
108 cd01143 YvrC Periplasmic bindi 49.9 1.1E+02 0.0023 22.9 7.7 51 57-112 51-111 (195)
109 cd01857 HSR1_MMR1 HSR1/MMR1. 48.7 30 0.00065 25.3 3.9 50 56-105 3-54 (141)
110 PRK08706 lipid A biosynthesis 48.6 1.5E+02 0.0033 24.4 9.6 75 22-101 131-225 (289)
111 PRK09545 znuA high-affinity zi 48.5 63 0.0014 27.4 6.3 70 77-150 237-308 (311)
112 TIGR03499 FlhF flagellar biosy 48.2 77 0.0017 26.4 6.7 47 65-111 223-269 (282)
113 PF03808 Glyco_tran_WecB: Glyc 48.1 58 0.0012 25.1 5.5 71 74-155 29-104 (172)
114 cd01147 HemV-2 Metal binding p 48.0 1.3E+02 0.0029 23.6 7.8 76 57-150 65-150 (262)
115 PF04705 TSNR_N: Thiostrepton- 47.7 18 0.0004 26.7 2.5 84 36-122 16-101 (115)
116 PF02571 CbiJ: Precorrin-6x re 47.6 40 0.00087 27.9 4.8 47 54-100 54-100 (249)
117 PF01497 Peripla_BP_2: Peripla 47.4 1E+02 0.0022 23.7 7.0 73 60-151 54-136 (238)
118 PF00391 PEP-utilizers: PEP-ut 47.4 39 0.00086 22.7 4.0 35 66-100 9-60 (80)
119 TIGR00679 hpr-ser Hpr(Ser) kin 47.3 56 0.0012 28.2 5.8 52 56-110 72-124 (304)
120 TIGR03659 IsdE heme ABC transp 46.9 1.5E+02 0.0033 24.2 8.2 50 58-112 83-141 (289)
121 cd01879 FeoB Ferrous iron tran 46.8 42 0.0009 23.9 4.4 42 65-106 73-114 (158)
122 TIGR01918 various_sel_PB selen 46.1 1.2E+02 0.0026 27.6 7.9 95 56-152 326-421 (431)
123 COG1412 Uncharacterized protei 46.0 49 0.0011 25.3 4.7 71 24-102 40-126 (136)
124 PRK10124 putative UDP-glucose 45.9 51 0.0011 29.6 5.5 73 53-125 190-265 (463)
125 PLN02591 tryptophan synthase 45.7 1.4E+02 0.0031 24.8 7.8 87 23-111 37-153 (250)
126 cd00755 YgdL_like Family of ac 45.6 37 0.00079 27.8 4.3 38 61-100 97-134 (231)
127 cd01485 E1-1_like Ubiquitin ac 45.2 11 0.00025 29.8 1.2 39 66-106 113-151 (198)
128 PF00205 TPP_enzyme_M: Thiamin 45.1 15 0.00032 26.8 1.7 46 55-100 1-46 (137)
129 PRK13111 trpA tryptophan synth 45.1 1.8E+02 0.0039 24.2 8.6 88 23-112 47-165 (258)
130 PRK05645 lipid A biosynthesis 45.0 1.1E+02 0.0025 25.2 7.3 45 54-100 171-229 (295)
131 PF02844 GARS_N: Phosphoribosy 44.9 34 0.00073 24.8 3.5 39 55-96 51-89 (100)
132 cd01822 Lysophospholipase_L1_l 44.9 51 0.0011 24.1 4.7 49 51-99 86-141 (177)
133 cd00757 ThiF_MoeB_HesA_family 44.8 27 0.00058 28.0 3.3 35 66-102 111-145 (228)
134 PF00702 Hydrolase: haloacid d 44.1 1E+02 0.0022 23.1 6.4 69 50-124 127-205 (215)
135 PF00875 DNA_photolyase: DNA p 44.0 41 0.00088 25.3 4.1 45 51-100 51-95 (165)
136 PF00899 ThiF: ThiF family; I 44.0 22 0.00048 25.9 2.5 35 65-101 91-125 (135)
137 TIGR00715 precor6x_red precorr 43.8 43 0.00094 27.9 4.5 47 54-100 53-99 (256)
138 PF08534 Redoxin: Redoxin; In 43.7 1.2E+02 0.0026 21.7 7.1 50 58-112 54-104 (146)
139 TIGR00853 pts-lac PTS system, 43.3 32 0.0007 24.2 3.2 45 52-100 38-82 (95)
140 COG1707 ACT domain-containing 42.6 71 0.0015 25.9 5.3 65 53-124 124-192 (218)
141 cd01141 TroA_d Periplasmic bin 42.1 1.5E+02 0.0032 22.3 8.3 39 58-100 61-99 (186)
142 PRK05646 lipid A biosynthesis 41.7 2.1E+02 0.0045 23.9 10.2 47 53-101 181-241 (310)
143 smart00187 INB Integrin beta s 41.5 44 0.00096 30.2 4.4 104 36-148 188-342 (423)
144 TIGR02342 chap_CCT_delta T-com 41.2 58 0.0013 29.5 5.2 49 56-104 263-311 (517)
145 PF13241 NAD_binding_7: Putati 41.1 37 0.0008 23.8 3.2 32 67-100 61-92 (103)
146 PRK03692 putative UDP-N-acetyl 41.1 63 0.0014 26.7 5.0 69 75-154 87-159 (243)
147 COG0159 TrpA Tryptophan syntha 41.0 2E+02 0.0044 24.4 8.1 97 23-121 52-183 (265)
148 TIGR00035 asp_race aspartate r 40.7 74 0.0016 25.5 5.3 51 51-105 60-112 (229)
149 cd07396 MPP_Nbla03831 Homo sap 40.4 56 0.0012 26.7 4.6 50 56-105 30-85 (267)
150 cd01491 Ube1_repeat1 Ubiquitin 39.6 15 0.00033 31.2 1.2 42 66-109 105-146 (286)
151 cd03423 SirA SirA (also known 39.0 84 0.0018 20.4 4.5 40 58-100 16-57 (69)
152 PRK15116 sulfur acceptor prote 38.7 58 0.0012 27.4 4.5 37 62-100 117-153 (268)
153 COG1363 FrvX Cellulase M and r 38.7 31 0.00067 30.4 3.0 53 68-120 255-315 (355)
154 cd01493 APPBP1_RUB Ubiquitin a 38.5 23 0.00049 31.8 2.1 40 67-108 113-152 (425)
155 TIGR03264 met_CoM_red_C methyl 38.4 1.1E+02 0.0023 24.9 5.7 105 39-150 65-192 (194)
156 PF01297 TroA: Periplasmic sol 38.4 58 0.0013 26.2 4.4 70 76-150 183-254 (256)
157 cd01821 Rhamnogalacturan_acety 38.3 63 0.0014 24.6 4.4 23 80-102 133-155 (198)
158 COG0352 ThiE Thiamine monophos 37.5 1.1E+02 0.0025 24.8 5.9 57 55-112 24-83 (211)
159 PRK11018 hypothetical protein; 37.5 82 0.0018 21.2 4.4 40 58-100 25-66 (78)
160 cd01492 Aos1_SUMO Ubiquitin ac 37.4 43 0.00094 26.4 3.4 40 66-107 110-149 (197)
161 TIGR03022 WbaP_sugtrans Undeca 37.3 59 0.0013 28.7 4.6 54 53-106 175-229 (456)
162 cd03338 TCP1_delta TCP-1 (CTT 37.2 75 0.0016 28.7 5.3 48 56-103 262-309 (515)
163 cd04724 Tryptophan_synthase_al 37.2 2.1E+02 0.0046 23.2 7.6 74 23-98 35-134 (242)
164 PRK08734 lipid A biosynthesis 36.8 2.5E+02 0.0054 23.5 8.3 46 54-101 172-231 (305)
165 cd03017 PRX_BCP Peroxiredoxin 36.8 1.5E+02 0.0033 20.9 7.1 49 60-113 51-100 (140)
166 TIGR02356 adenyl_thiF thiazole 36.6 42 0.0009 26.5 3.2 35 65-101 110-144 (202)
167 cd01018 ZntC Metal binding pro 36.5 74 0.0016 26.0 4.8 86 51-148 173-264 (266)
168 cd01894 EngA1 EngA1 subfamily. 36.5 61 0.0013 22.8 3.9 22 84-105 96-117 (157)
169 PRK14974 cell division protein 36.5 2.9E+02 0.0062 24.0 8.6 40 61-100 163-202 (336)
170 PRK10867 signal recognition pa 36.3 1.8E+02 0.0038 26.2 7.5 62 66-127 129-196 (433)
171 PRK12726 flagellar biosynthesi 35.7 2.6E+02 0.0057 25.2 8.3 62 66-127 234-298 (407)
172 cd01149 HutB Hemin binding pro 35.6 2.1E+02 0.0046 22.3 8.0 51 58-112 50-110 (235)
173 TIGR00315 cdhB CO dehydrogenas 35.4 86 0.0019 24.5 4.7 46 55-100 17-62 (162)
174 cd05565 PTS_IIB_lactose PTS_II 35.3 1.6E+02 0.0034 21.1 5.7 45 52-100 35-79 (99)
175 PRK05428 HPr kinase/phosphoryl 35.2 84 0.0018 27.2 5.0 42 56-100 72-113 (308)
176 PF02421 FeoB_N: Ferrous iron 35.1 73 0.0016 24.6 4.3 52 59-110 71-122 (156)
177 PRK00945 acetyl-CoA decarbonyl 34.9 89 0.0019 24.7 4.8 46 56-101 25-71 (171)
178 PRK06552 keto-hydroxyglutarate 34.6 55 0.0012 26.5 3.7 62 50-120 67-135 (213)
179 PRK00124 hypothetical protein; 34.5 44 0.00096 26.0 2.9 29 70-100 3-31 (151)
180 KOG3282 Uncharacterized conser 34.3 2.5E+02 0.0054 22.8 7.2 99 16-124 75-176 (190)
181 PF01297 TroA: Periplasmic sol 34.3 85 0.0018 25.3 4.8 40 57-100 190-229 (256)
182 cd03422 YedF YedF is a bacteri 33.8 1E+02 0.0022 20.1 4.3 40 58-100 16-57 (69)
183 PF13407 Peripla_BP_4: Peripla 33.5 85 0.0018 24.4 4.5 73 28-102 6-89 (257)
184 PRK01889 GTPase RsgA; Reviewed 33.5 43 0.00094 29.0 3.0 37 69-106 117-155 (356)
185 cd03012 TlpA_like_DipZ_like Tl 33.4 1.7E+02 0.0037 20.6 6.8 58 66-124 56-115 (126)
186 COG0050 TufB GTPases - transla 33.3 42 0.00091 29.6 2.9 46 54-100 84-134 (394)
187 cd03361 TOPRIM_TopoIA_RevGyr T 33.2 1E+02 0.0022 23.9 4.8 44 53-96 103-150 (170)
188 PF07498 Rho_N: Rho terminatio 32.9 43 0.00093 20.2 2.1 28 82-109 7-34 (43)
189 TIGR02339 thermosome_arch ther 32.8 1E+02 0.0022 27.9 5.5 47 56-107 272-318 (519)
190 PF01976 DUF116: Protein of un 32.8 1.1E+02 0.0025 23.6 5.0 41 82-122 75-115 (158)
191 PF10788 DUF2603: Protein of u 32.4 39 0.00084 26.0 2.3 17 140-156 117-133 (137)
192 cd01456 vWA_ywmD_type VWA ywmD 32.4 1.6E+02 0.0034 22.8 5.9 64 35-98 100-173 (206)
193 PRK00771 signal recognition pa 32.3 2.9E+02 0.0063 24.9 8.2 39 62-100 119-157 (437)
194 TIGR00619 sbcd exonuclease Sbc 32.0 93 0.002 25.4 4.7 23 56-78 29-51 (253)
195 PRK09534 btuF corrinoid ABC tr 32.0 1.8E+02 0.004 24.9 6.7 50 58-112 111-170 (359)
196 cd01452 VWA_26S_proteasome_sub 32.0 1.8E+02 0.0039 23.1 6.2 68 27-97 63-140 (187)
197 cd07402 MPP_GpdQ Enterobacter 31.9 1.3E+02 0.0028 23.5 5.3 47 55-101 27-78 (240)
198 cd03339 TCP1_epsilon TCP-1 (CT 31.9 1.2E+02 0.0025 27.7 5.6 47 56-107 277-323 (526)
199 PLN02721 threonine aldolase 31.5 1E+02 0.0022 25.4 4.8 33 66-98 137-176 (353)
200 cd01884 EF_Tu EF-Tu subfamily. 31.2 75 0.0016 24.9 3.8 44 56-99 80-124 (195)
201 cd04164 trmE TrmE (MnmE, ThdF, 31.2 76 0.0017 22.2 3.6 50 57-108 73-122 (157)
202 KOG3432 Vacuolar H+-ATPase V1 31.1 36 0.00078 25.5 1.8 51 48-101 20-70 (121)
203 PF10165 Ric8: Guanine nucleot 31.0 81 0.0018 28.3 4.4 56 10-66 376-446 (446)
204 cd01028 TOPRIM_TopoIA TOPRIM_T 30.7 1E+02 0.0023 22.8 4.4 45 65-109 89-139 (142)
205 cd01019 ZnuA Zinc binding prot 30.7 1.8E+02 0.0038 24.2 6.2 72 75-150 211-284 (286)
206 COG0541 Ffh Signal recognition 30.6 74 0.0016 29.0 4.1 86 60-153 122-213 (451)
207 cd04188 DPG_synthase DPG_synth 30.6 1.6E+02 0.0034 22.3 5.5 60 66-126 30-94 (211)
208 PF13848 Thioredoxin_6: Thiore 30.3 1.7E+02 0.0036 21.5 5.5 91 50-146 22-122 (184)
209 cd04185 GT_2_like_b Subfamily 30.2 1.3E+02 0.0029 22.4 5.0 68 55-125 12-90 (202)
210 KOG2016 NEDD8-activating compl 30.1 42 0.00091 30.9 2.4 37 69-106 121-157 (523)
211 PRK06995 flhF flagellar biosyn 30.1 1.5E+02 0.0031 27.3 5.9 63 64-127 284-347 (484)
212 PRK03379 vitamin B12-transport 29.8 3E+02 0.0064 22.2 8.6 51 58-112 64-123 (260)
213 PRK00766 hypothetical protein; 29.7 98 0.0021 25.0 4.3 46 65-110 70-119 (194)
214 PRK00299 sulfur transfer prote 29.7 1.2E+02 0.0027 20.5 4.3 39 58-100 29-67 (81)
215 PF07637 PSD5: Protein of unkn 29.5 1.1E+02 0.0023 19.9 3.8 39 26-65 16-55 (64)
216 TIGR01689 EcbF-BcbF capsule bi 29.1 1.2E+02 0.0026 22.5 4.5 90 51-154 25-125 (126)
217 PRK00098 GTPase RsgA; Reviewed 29.0 66 0.0014 27.0 3.4 26 81-106 99-124 (298)
218 COG1493 HprK Serine kinase of 29.0 1.4E+02 0.003 26.0 5.3 50 54-106 69-119 (308)
219 cd06312 PBP1_ABC_sugar_binding 28.8 1.4E+02 0.003 23.4 5.1 42 57-100 48-89 (271)
220 cd04168 TetM_like Tet(M)-like 28.7 93 0.002 25.2 4.1 51 56-106 79-129 (237)
221 cd02970 PRX_like2 Peroxiredoxi 28.7 2.1E+02 0.0046 20.1 7.1 49 59-112 50-99 (149)
222 PF05159 Capsule_synth: Capsul 28.5 71 0.0015 25.9 3.4 29 70-100 3-31 (269)
223 TIGR03603 cyclo_dehy_ocin bact 28.5 71 0.0015 27.4 3.5 36 65-100 150-185 (318)
224 cd07388 MPP_Tt1561 Thermus the 28.4 1.2E+02 0.0027 24.6 4.7 44 57-100 22-69 (224)
225 PF07287 DUF1446: Protein of u 28.4 2E+02 0.0044 25.3 6.4 66 31-96 29-101 (362)
226 cd00291 SirA_YedF_YeeD SirA, Y 28.4 1.6E+02 0.0034 18.5 4.6 41 57-100 15-57 (69)
227 PRK06731 flhF flagellar biosyn 28.3 3.6E+02 0.0077 22.6 9.9 63 65-127 102-167 (270)
228 cd03008 TryX_like_RdCVF Trypar 28.3 1.5E+02 0.0033 22.5 5.0 55 66-125 65-123 (146)
229 cd04104 p47_IIGP_like p47 (47- 28.3 99 0.0021 23.8 4.1 40 66-105 80-119 (197)
230 smart00685 DM14 Repeats in fly 28.3 38 0.00083 22.3 1.4 25 42-66 24-48 (59)
231 COG1803 MgsA Methylglyoxal syn 28.3 1.3E+02 0.0029 23.1 4.5 59 52-112 61-126 (142)
232 cd02968 SCO SCO (an acronym fo 28.2 2.2E+02 0.0047 20.1 6.4 47 65-112 58-108 (142)
233 PF01726 LexA_DNA_bind: LexA D 28.2 35 0.00076 22.5 1.3 30 80-113 10-39 (65)
234 TIGR00067 glut_race glutamate 28.1 1.4E+02 0.003 24.6 5.0 48 57-107 51-101 (251)
235 PF12850 Metallophos_2: Calcin 28.1 1.2E+02 0.0026 21.6 4.3 36 57-100 18-54 (156)
236 PRK10200 putative racemase; Pr 28.1 88 0.0019 25.3 3.8 46 51-100 60-105 (230)
237 TIGR01182 eda Entner-Doudoroff 28.0 69 0.0015 25.9 3.2 53 49-108 58-117 (204)
238 PRK14721 flhF flagellar biosyn 27.9 2.8E+02 0.0061 24.9 7.3 61 67-127 222-282 (420)
239 cd04501 SGNH_hydrolase_like_4 27.9 79 0.0017 23.5 3.4 51 51-101 81-146 (183)
240 cd01423 MGS_CPS_I_III Methylgl 27.9 59 0.0013 23.1 2.5 42 56-97 61-105 (116)
241 PF11823 DUF3343: Protein of u 27.9 76 0.0016 20.9 2.9 40 69-111 4-43 (73)
242 PF00448 SRP54: SRP54-type pro 27.8 2.3E+02 0.005 22.3 6.1 63 66-128 29-97 (196)
243 COG4294 Uve UV damage repair e 27.7 36 0.00079 29.7 1.6 62 36-99 161-236 (347)
244 TIGR01425 SRP54_euk signal rec 27.7 3.2E+02 0.0068 24.7 7.6 63 64-128 126-196 (429)
245 COG0800 Eda 2-keto-3-deoxy-6-p 27.7 74 0.0016 26.1 3.3 37 55-98 75-111 (211)
246 TIGR00262 trpA tryptophan synt 27.6 3.5E+02 0.0076 22.3 7.6 96 23-120 45-172 (256)
247 cd01016 TroA Metal binding pro 27.4 1.3E+02 0.0028 24.9 4.8 48 52-100 164-217 (276)
248 COG2129 Predicted phosphoester 27.4 1.3E+02 0.0029 24.9 4.7 20 58-77 22-41 (226)
249 TIGR02355 moeB molybdopterin s 27.3 80 0.0017 25.8 3.5 35 65-101 113-147 (240)
250 PRK06512 thiamine-phosphate py 27.3 2E+02 0.0043 23.3 5.8 52 60-112 34-89 (221)
251 cd01018 ZntC Metal binding pro 27.3 3.4E+02 0.0074 22.1 7.5 36 86-121 181-224 (266)
252 cd05017 SIS_PGI_PMI_1 The memb 27.2 1.6E+02 0.0036 20.7 4.8 42 69-111 47-88 (119)
253 COG4148 ModC ABC-type molybdat 27.0 1E+02 0.0022 27.1 4.1 74 36-110 110-197 (352)
254 cd04169 RF3 RF3 subfamily. Pe 27.0 82 0.0018 26.1 3.5 49 57-105 87-135 (267)
255 PHA02546 47 endonuclease subun 26.9 1.3E+02 0.0029 25.6 4.9 46 55-100 28-83 (340)
256 PRK11148 cyclic 3',5'-adenosin 26.9 1.6E+02 0.0035 24.0 5.3 46 55-100 42-92 (275)
257 PF14639 YqgF: Holliday-juncti 26.9 98 0.0021 23.7 3.7 35 58-92 55-90 (150)
258 PF10111 Glyco_tranf_2_2: Glyc 26.8 86 0.0019 25.7 3.6 59 66-125 34-99 (281)
259 PF01039 Carboxyl_trans: Carbo 26.7 43 0.00093 30.4 1.9 34 67-100 294-336 (493)
260 cd01825 SGNH_hydrolase_peri1 S 26.7 1.3E+02 0.0029 22.1 4.4 21 80-100 124-144 (189)
261 cd06299 PBP1_LacI_like_13 Liga 26.7 1.4E+02 0.0031 23.0 4.8 40 57-100 46-85 (265)
262 cd06533 Glyco_transf_WecG_TagA 26.5 2E+02 0.0043 22.1 5.4 72 73-155 26-102 (171)
263 cd06300 PBP1_ABC_sugar_binding 26.4 3.1E+02 0.0067 21.3 7.3 42 57-100 51-92 (272)
264 PRK06153 hypothetical protein; 26.4 1.3E+02 0.0027 27.1 4.7 40 65-106 265-304 (393)
265 PRK09437 bcp thioredoxin-depen 26.3 2.6E+02 0.0056 20.3 7.0 47 61-112 59-106 (154)
266 cd06318 PBP1_ABC_sugar_binding 26.3 1.6E+02 0.0034 23.1 4.9 42 57-100 46-87 (282)
267 cd01832 SGNH_hydrolase_like_1 26.3 1.4E+02 0.0031 22.0 4.5 50 53-102 92-154 (185)
268 cd03343 cpn60 cpn60 chaperonin 26.2 1.6E+02 0.0034 26.6 5.5 46 57-107 270-315 (517)
269 cd01537 PBP1_Repressors_Sugar_ 26.1 1.7E+02 0.0037 22.0 5.0 66 32-100 11-86 (264)
270 PRK05690 molybdopterin biosynt 26.1 75 0.0016 26.0 3.1 35 66-102 122-156 (245)
271 TIGR03772 anch_rpt_subst ancho 26.1 1.4E+02 0.003 27.4 5.0 91 50-150 372-476 (479)
272 TIGR02343 chap_CCT_epsi T-comp 26.1 1.5E+02 0.0032 27.1 5.3 43 58-105 283-325 (532)
273 PF14367 DUF4411: Domain of un 26.0 2.1E+02 0.0046 21.8 5.5 74 25-101 65-153 (162)
274 cd01017 AdcA Metal binding pro 25.9 1.5E+02 0.0032 24.5 4.9 70 75-150 203-279 (282)
275 cd06301 PBP1_rhizopine_binding 25.8 1.6E+02 0.0035 22.8 5.0 42 57-100 47-88 (272)
276 cd07393 MPP_DR1119 Deinococcus 25.7 1.6E+02 0.0034 23.5 4.9 35 66-100 41-78 (232)
277 PRK06946 lipid A biosynthesis 25.6 3.9E+02 0.0084 22.1 10.8 74 22-99 136-226 (293)
278 cd01017 AdcA Metal binding pro 25.6 1.5E+02 0.0032 24.5 4.8 42 55-100 209-250 (282)
279 cd00248 Mth938-like Mth938-lik 25.6 2.5E+02 0.0055 20.0 5.9 42 66-107 52-93 (109)
280 TIGR00513 accA acetyl-CoA carb 25.5 88 0.0019 27.2 3.5 33 67-99 108-157 (316)
281 KOG1615 Phosphoserine phosphat 25.5 1E+02 0.0023 25.5 3.7 60 48-112 86-149 (227)
282 TIGR01662 HAD-SF-IIIA HAD-supe 25.3 2.4E+02 0.0053 19.8 5.5 49 50-98 25-76 (132)
283 TIGR00789 flhB_rel flhB C-term 25.3 82 0.0018 21.8 2.8 28 80-110 27-54 (82)
284 TIGR02740 TraF-like TraF-like 25.3 2.5E+02 0.0054 23.4 6.2 66 57-123 159-238 (271)
285 cd06295 PBP1_CelR Ligand bindi 25.3 1.7E+02 0.0037 22.8 5.0 40 56-100 54-94 (275)
286 PF08862 DUF1829: Domain of un 25.3 85 0.0018 21.9 2.9 49 51-100 38-86 (88)
287 PF04430 DUF498: Protein of un 25.2 2E+02 0.0043 20.4 4.9 49 59-107 44-94 (110)
288 cd03027 GRX_DEP Glutaredoxin ( 25.1 1.9E+02 0.004 18.4 4.4 49 69-120 3-57 (73)
289 KOG0540 3-Methylcrotonyl-CoA c 25.1 45 0.00098 30.7 1.7 20 81-100 372-391 (536)
290 cd01391 Periplasmic_Binding_Pr 25.0 1.8E+02 0.0038 21.6 4.8 44 55-101 47-90 (269)
291 PF01081 Aldolase: KDPG and KH 24.9 75 0.0016 25.5 2.8 54 49-109 58-118 (196)
292 PF01751 Toprim: Toprim domain 24.9 1.1E+02 0.0023 21.1 3.3 38 56-93 47-88 (100)
293 COG4799 Acetyl-CoA carboxylase 24.9 59 0.0013 30.2 2.5 20 80-99 346-365 (526)
294 COG1535 EntB Isochorismate hyd 24.7 55 0.0012 26.8 2.0 18 82-99 60-77 (218)
295 cd03334 Fab1_TCP TCP-1 like do 24.6 2.1E+02 0.0046 23.6 5.6 50 55-109 119-168 (261)
296 cd01885 EF2 EF2 (for archaea a 24.6 1.2E+02 0.0026 24.5 4.0 50 56-105 88-137 (222)
297 PRK10966 exonuclease subunit S 24.3 1.6E+02 0.0035 26.0 5.1 22 57-78 30-51 (407)
298 PRK10957 iron-enterobactin tra 24.3 4E+02 0.0088 21.9 7.6 52 56-112 103-164 (317)
299 TIGR03594 GTPase_EngA ribosome 24.3 1.2E+02 0.0026 26.2 4.2 49 57-105 247-295 (429)
300 PRK06015 keto-hydroxyglutarate 24.1 1.1E+02 0.0024 24.7 3.6 53 49-108 54-113 (201)
301 cd03769 SR_IS607_transposase_l 24.0 1.6E+02 0.0035 21.6 4.3 48 52-100 48-97 (134)
302 PF00218 IGPS: Indole-3-glycer 24.0 3.5E+02 0.0076 22.6 6.8 74 49-125 115-189 (254)
303 PF01976 DUF116: Protein of un 23.9 2.9E+02 0.0063 21.3 5.9 61 37-100 74-137 (158)
304 cd03362 TOPRIM_TopoIA_TopoIII 23.8 1.7E+02 0.0037 21.9 4.5 31 66-96 98-131 (151)
305 PF00462 Glutaredoxin: Glutare 23.8 1.8E+02 0.0039 17.7 4.5 39 61-100 18-56 (60)
306 PRK09453 phosphodiesterase; Pr 23.7 1.8E+02 0.0038 22.1 4.7 23 55-77 16-38 (182)
307 cd03770 SR_TndX_transposase Se 23.6 1.9E+02 0.0041 21.2 4.7 47 53-100 55-106 (140)
308 PRK06860 lipid A biosynthesis 23.6 4.3E+02 0.0094 22.0 9.0 52 22-78 151-205 (309)
309 cd01489 Uba2_SUMO Ubiquitin ac 23.5 86 0.0019 27.0 3.1 40 66-107 90-129 (312)
310 cd01020 TroA_b Metal binding p 23.5 2.3E+02 0.005 23.1 5.6 43 56-99 196-238 (264)
311 cd01895 EngA2 EngA2 subfamily. 23.5 1.7E+02 0.0037 20.6 4.4 41 66-106 84-126 (174)
312 PF14370 Topo_C_assoc: C-termi 23.4 54 0.0012 22.5 1.5 22 86-107 37-58 (71)
313 PF00072 Response_reg: Respons 23.3 2.3E+02 0.0049 18.6 5.6 50 51-100 28-78 (112)
314 cd01540 PBP1_arabinose_binding 23.2 1.8E+02 0.004 22.8 4.8 37 61-100 49-86 (289)
315 cd01539 PBP1_GGBP Periplasmic 23.1 2E+02 0.0044 23.3 5.2 41 57-100 48-89 (303)
316 PF02595 Gly_kinase: Glycerate 22.9 3.2E+02 0.0068 24.3 6.6 78 50-127 264-351 (377)
317 KOG4464 Signaling protein RIC- 22.8 3E+02 0.0065 25.4 6.4 74 5-89 437-518 (532)
318 TIGR03107 glu_aminopep glutamy 22.7 3.6E+02 0.0078 23.5 6.8 21 80-100 266-286 (350)
319 PLN02161 beta-amylase 22.7 1.6E+02 0.0034 27.6 4.7 47 51-97 414-471 (531)
320 cd07383 MPP_Dcr2 Saccharomyces 22.7 2.4E+02 0.0052 21.6 5.3 42 59-100 34-83 (199)
321 PF04609 MCR_C: Methyl-coenzym 22.6 42 0.00091 28.5 1.0 63 39-102 103-165 (268)
322 TIGR00040 yfcE phosphoesterase 22.6 1.8E+02 0.0038 21.4 4.4 42 56-101 17-59 (158)
323 PRK10444 UMP phosphatase; Prov 22.6 1.9E+02 0.0041 23.6 4.9 45 49-95 16-60 (248)
324 TIGR02181 GRX_bact Glutaredoxi 22.5 1.8E+02 0.0039 18.7 3.9 16 84-99 14-29 (79)
325 COG0552 FtsY Signal recognitio 22.5 4.9E+02 0.011 23.0 7.6 76 51-128 143-235 (340)
326 PRK06719 precorrin-2 dehydroge 22.5 2.3E+02 0.0051 21.4 5.1 60 65-128 69-131 (157)
327 cd00378 SHMT Serine-glycine hy 22.4 1.4E+02 0.0031 25.2 4.3 44 55-98 150-194 (402)
328 PRK08328 hypothetical protein; 22.3 1.1E+02 0.0024 24.7 3.4 35 66-102 118-152 (231)
329 cd02983 P5_C P5 family, C-term 22.3 3.2E+02 0.007 20.0 5.9 51 96-149 4-54 (130)
330 cd01886 EF-G Elongation factor 22.3 1.3E+02 0.0028 24.9 3.9 48 57-104 80-127 (270)
331 PRK08733 lipid A biosynthesis 22.2 4.6E+02 0.01 21.8 10.4 72 24-101 153-242 (306)
332 cd06292 PBP1_LacI_like_10 Liga 22.1 2E+02 0.0044 22.3 4.9 45 57-101 46-91 (273)
333 cd04102 RabL3 RabL3 (Rab-like3 22.1 65 0.0014 25.5 2.0 43 65-107 76-143 (202)
334 cd06296 PBP1_CatR_like Ligand- 22.1 1.9E+02 0.0041 22.4 4.7 40 57-101 46-86 (270)
335 smart00857 Resolvase Resolvase 22.0 2.2E+02 0.0048 20.4 4.7 46 53-100 52-102 (148)
336 cd01891 TypA_BipA TypA (tyrosi 21.8 1.4E+02 0.003 22.7 3.7 22 84-105 108-129 (194)
337 cd02966 TlpA_like_family TlpA- 21.7 2.3E+02 0.0051 18.2 6.4 60 60-124 46-107 (116)
338 PLN00197 beta-amylase; Provisi 21.7 1.7E+02 0.0038 27.5 4.8 46 52-97 419-475 (573)
339 PF01041 DegT_DnrJ_EryC1: DegT 21.7 1.1E+02 0.0024 25.9 3.5 48 50-98 98-145 (363)
340 PLN02803 beta-amylase 21.6 1.8E+02 0.0038 27.3 4.8 46 52-97 398-454 (548)
341 cd01838 Isoamyl_acetate_hydrol 21.6 2.1E+02 0.0045 21.1 4.6 20 81-100 144-163 (199)
342 cd06313 PBP1_ABC_sugar_binding 21.6 2.3E+02 0.005 22.4 5.1 42 57-100 46-87 (272)
343 PRK03244 argD acetylornithine 21.6 1.7E+02 0.0037 24.9 4.6 35 65-99 182-223 (398)
344 PF13519 VWA_2: von Willebrand 21.6 2.6E+02 0.0056 19.8 5.0 50 50-99 81-132 (172)
345 cd03363 TOPRIM_TopoIA_TopoI TO 21.5 1.8E+02 0.0038 21.3 4.1 31 65-96 71-103 (123)
346 cd01484 E1-2_like Ubiquitin ac 21.5 1E+02 0.0023 25.2 3.1 40 65-106 90-129 (234)
347 PRK05724 acetyl-CoA carboxylas 21.4 1.2E+02 0.0025 26.4 3.5 33 67-99 108-157 (319)
348 PRK10528 multifunctional acyl- 21.4 1.8E+02 0.0039 22.2 4.4 20 81-100 130-149 (191)
349 TIGR02634 xylF D-xylose ABC tr 21.4 2.1E+02 0.0045 23.3 4.9 42 57-100 45-86 (302)
350 PRK13599 putative peroxiredoxi 21.3 3.4E+02 0.0074 21.7 6.0 93 56-152 52-156 (215)
351 PF10686 DUF2493: Protein of u 21.3 2.6E+02 0.0057 18.6 5.1 44 55-100 20-64 (71)
352 cd07399 MPP_YvnB Bacillus subt 21.3 2E+02 0.0044 22.6 4.7 46 55-100 24-76 (214)
353 cd04170 EF-G_bact Elongation f 21.2 1.6E+02 0.0034 23.9 4.1 48 56-103 79-126 (268)
354 cd01859 MJ1464 MJ1464. This f 21.2 2E+02 0.0043 20.9 4.3 48 57-105 4-53 (156)
355 COG2877 KdsA 3-deoxy-D-manno-o 21.2 1.3E+02 0.0028 25.6 3.6 36 65-100 14-55 (279)
356 PF02037 SAP: SAP domain; Int 21.1 1.1E+02 0.0024 17.4 2.4 24 81-106 5-28 (35)
357 cd01828 sialate_O-acetylestera 21.0 1.1E+02 0.0024 22.5 2.9 50 51-100 70-131 (169)
358 PRK02842 light-independent pro 20.9 1.8E+02 0.0038 25.7 4.7 48 54-101 80-137 (427)
359 cd00880 Era_like Era (E. coli 20.9 2.2E+02 0.0047 19.3 4.3 21 85-105 96-116 (163)
360 cd01856 YlqF YlqF. Proteins o 20.9 94 0.002 23.3 2.6 55 50-106 5-59 (171)
361 PRK12724 flagellar biosynthesi 20.9 5.8E+02 0.013 23.2 7.9 60 67-127 253-312 (432)
362 PF00290 Trp_syntA: Tryptophan 20.9 5E+02 0.011 21.7 7.5 85 23-109 45-160 (259)
363 PRK07114 keto-hydroxyglutarate 20.8 1.4E+02 0.003 24.5 3.7 47 55-108 81-128 (222)
364 cd05564 PTS_IIB_chitobiose_lic 20.8 1.3E+02 0.0027 21.0 3.0 45 52-100 34-78 (96)
365 PRK06027 purU formyltetrahydro 20.7 1.8E+02 0.0039 24.5 4.5 40 55-100 103-144 (286)
366 PRK13010 purU formyltetrahydro 20.6 1.9E+02 0.0041 24.6 4.6 44 51-100 99-148 (289)
367 COG1671 Uncharacterized protei 20.6 1.2E+02 0.0025 23.7 3.0 32 70-103 4-35 (150)
368 PLN02801 beta-amylase 20.6 1.9E+02 0.0041 27.0 4.8 46 52-97 326-382 (517)
369 COG4378 Uncharacterized protei 20.5 1.2E+02 0.0025 22.1 2.8 34 67-100 45-78 (103)
370 cd06278 PBP1_LacI_like_2 Ligan 20.5 2.7E+02 0.0059 21.3 5.2 40 57-101 45-85 (266)
371 TIGR03106 trio_M42_hydro hydro 20.5 2.1E+02 0.0046 24.7 5.0 19 80-98 267-285 (343)
372 cd07392 MPP_PAE1087 Pyrobaculu 20.4 1.7E+02 0.0037 21.5 3.9 39 61-100 18-59 (188)
373 COG1179 Dinucleotide-utilizing 20.4 1.6E+02 0.0036 25.0 4.1 43 56-100 111-153 (263)
374 COG1436 NtpG Archaeal/vacuolar 20.3 2.6E+02 0.0057 20.2 4.7 23 56-78 36-58 (104)
375 cd01839 SGNH_arylesterase_like 20.3 1.5E+02 0.0033 22.6 3.7 20 80-99 156-175 (208)
376 cd06281 PBP1_LacI_like_5 Ligan 20.3 2.3E+02 0.005 22.1 4.8 42 56-100 45-86 (269)
377 cd01892 Miro2 Miro2 subfamily. 20.2 95 0.0021 23.1 2.5 41 66-106 77-121 (169)
378 cd02969 PRX_like1 Peroxiredoxi 20.2 3.7E+02 0.008 19.9 7.0 67 58-125 50-120 (171)
379 TIGR01458 HAD-SF-IIA-hyp3 HAD- 20.1 2.6E+02 0.0056 22.7 5.2 44 51-96 22-65 (257)
No 1
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=100.00 E-value=3.6e-34 Score=216.75 Aligned_cols=142 Identities=54% Similarity=0.929 Sum_probs=133.4
Q ss_pred CCCcccccc-CCChhhhhhhhccCcccCCCCChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCch
Q 031617 1 MGSDSEAER-TPHKDEKKKIVSLAPIAKPLAGKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPI 79 (156)
Q Consensus 1 ~~~~~~~~~-~~~~~~~~~~~~~~~~a~Pl~~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~ 79 (156)
||+|..++- +++.+|+..+..++|||.|||++++++++++++++|.+.++|..|+++|.|.+++|+-++||||+|++|.
T Consensus 9 ~~~~a~~~~~s~e~~Y~~~l~~~~PIAkPLA~kkl~kk~~KlvkKa~k~k~lrrGvKevqK~vrkGeKGl~VlAgd~sPi 88 (153)
T KOG3167|consen 9 MGSDAKGEKTSGEDEYQALLIAVNPIAKPLASKKLAKKVYKLVKKAAKQKGLRRGVKEVQKRVRKGEKGLCVLAGDTSPI 88 (153)
T ss_pred cccccccccccchhHHHHHHHhhcccccccccHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcceEEEecCCccH
Confidence 677777766 5568899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHhhhc
Q 031617 80 DVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKELAS 153 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~~~~ 153 (156)
+++.|||.+|+++||||+|++++.+||.|.|.+|+.+|+.|.-++ +|++.|+|+.+.++.|.-
T Consensus 89 Dvi~HlP~lCEd~~vPYvy~psk~dlg~A~~~krpt~~v~v~p~~-----------eyke~ydev~eel~~l~~ 151 (153)
T KOG3167|consen 89 DVITHLPALCEDRGVPYVYTPSKEDLGAAGGTKRPTCCVFVKPGG-----------EYKELYDEVLEELEALAV 151 (153)
T ss_pred HHHhccchhhhccCCCccccccHHHHHHhcCCCCCceEEEEeeCh-----------hHHHHHHHHHHHHHhhcc
Confidence 999999999999999999999999999999999999999998544 799999999999998753
No 2
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=99.97 E-value=4.3e-30 Score=190.98 Aligned_cols=116 Identities=31% Similarity=0.560 Sum_probs=107.7
Q ss_pred cccCCCCChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 24 PIAKPLAGKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 24 ~~a~Pl~~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
|.++|++.+ ++++++++|++|+++|+++.|.++|+++|++|+++|||||+|++|.+++++++.+|+++||||++++|+.
T Consensus 1 ~~~~~~~~~-l~~ki~~lL~la~ragkl~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~ 79 (117)
T TIGR03677 1 YVKFEVPEE-LANKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKE 79 (117)
T ss_pred CCCCcCcHH-HHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHH
Confidence 468999666 9999999999999999999999999999999999999999999997789999999999999999999999
Q ss_pred HHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHhh
Q 031617 104 DLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKEL 151 (156)
Q Consensus 104 eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~~ 151 (156)
+||++||+++++++++|+|.|.+ ++.|+++.+.|++|
T Consensus 80 eLG~a~Gk~~~~svvaI~d~g~a-----------~~~~~~~~~~i~~~ 116 (117)
T TIGR03677 80 DLGAAAGLEVGAASAAIVDEGKA-----------EELLKEIIEKVEAL 116 (117)
T ss_pred HHHHHhCCCCCeEEEEEEchhhh-----------HHHHHHHHHHHHhc
Confidence 99999999888999999998754 55788899888876
No 3
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.97 E-value=2e-29 Score=188.79 Aligned_cols=116 Identities=32% Similarity=0.571 Sum_probs=106.3
Q ss_pred cccCCCCChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 24 PIAKPLAGKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 24 ~~a~Pl~~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
+.++|+ +++++++++++|++|+++|++++|.++|+++|++|+++|||||+|++|.+++++++.+|++++|||++++|++
T Consensus 5 ~~~~~~-~~~l~~ki~~lL~la~ragklv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~ 83 (122)
T PRK04175 5 YVKFEV-PEELAEKALEAVEKARDTGKIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKK 83 (122)
T ss_pred cccCCC-CHHHHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHH
Confidence 556666 5669999999999999999999999999999999999999999999998788999999999999999999999
Q ss_pred HHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHhh
Q 031617 104 DLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKEL 151 (156)
Q Consensus 104 eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~~ 151 (156)
+||++||++++++|++|+|+|.+ +..++++.+.|+++
T Consensus 84 eLG~a~Gk~~~~svvaI~d~g~a-----------~~~~~~~~~~i~~~ 120 (122)
T PRK04175 84 DLGKAAGLEVGAAAAAIVDAGKA-----------KELVEDIVEKVNEL 120 (122)
T ss_pred HHHHHhCCCCCeEEEEEechhhh-----------HHHHHHHHHHHHHh
Confidence 99999999988999999998753 55788888888876
No 4
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.3e-26 Score=172.44 Aligned_cols=100 Identities=40% Similarity=0.678 Sum_probs=95.5
Q ss_pred ccCCCCChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHH
Q 031617 25 IAKPLAGKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKED 104 (156)
Q Consensus 25 ~a~Pl~~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~e 104 (156)
.+.|+++..+.++++++++.|.++|++++|+++|+|+|++|+++|||||+|++|.+++.|++.+|+++||||++++|+.+
T Consensus 2 ~~~~~~~~~~~~k~l~~l~~a~~~~ki~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~ 81 (116)
T COG1358 2 YAKPLAPEMLEQKALSLLGKASRAGKLKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKE 81 (116)
T ss_pred CCcccCcHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHH
Confidence 47899999999999999999999999999999999999999999999999999889999999999999999999999999
Q ss_pred HHhhcCCcCceEEEEEecCCC
Q 031617 105 LANAGATKRPTCCVLVLTKPT 125 (156)
Q Consensus 105 LG~a~G~~~~~svvaI~d~~~ 125 (156)
||+++|++. +.++++.|.+.
T Consensus 82 LG~a~g~~~-~~vv~i~~~~~ 101 (116)
T COG1358 82 LGKAVGKEV-RKVVAIVDKGF 101 (116)
T ss_pred HHHHhCCCc-ceeEEEeehhh
Confidence 999999985 67889988775
No 5
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=99.90 E-value=7.9e-24 Score=150.22 Aligned_cols=91 Identities=35% Similarity=0.659 Sum_probs=86.7
Q ss_pred HHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCce
Q 031617 36 KRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPT 115 (156)
Q Consensus 36 ~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~ 115 (156)
++++++|+.|+++|+++.|.++|.++|++|++++||+|+|++|..+..|++.+|+++||||++++|+.+||+++|+++++
T Consensus 1 ~~i~~~l~~a~~~~~lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~ 80 (95)
T PF01248_consen 1 DKIYKLLKLARKAGRLVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPV 80 (95)
T ss_dssp HHHHHHHHHHHHHSEEEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTS
T ss_pred ChHHHHHHHHHhcCCEEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcE
Confidence 57899999999999999999999999999999999999999998777779999999999999999999999999999889
Q ss_pred EEEEEecCCCC
Q 031617 116 CCVLVLTKPTK 126 (156)
Q Consensus 116 svvaI~d~~~~ 126 (156)
++++|+|++.+
T Consensus 81 ~~~~i~d~~~a 91 (95)
T PF01248_consen 81 SALAIKDAGDA 91 (95)
T ss_dssp SEEEEEESTTH
T ss_pred EEEEEECcccc
Confidence 99999998864
No 6
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.89 E-value=5.6e-23 Score=148.71 Aligned_cols=88 Identities=18% Similarity=0.234 Sum_probs=81.8
Q ss_pred HHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceee-CCHHHHHhhcCCcCceE
Q 031617 38 TLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRPTC 116 (156)
Q Consensus 38 i~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v-~sk~eLG~a~G~~~~~s 116 (156)
+.+.|++|+++|+++.|.++|+++|++|+++|||||+|+++ ++.++|+.+|++++||++.+ +|+.+||+|||++++++
T Consensus 4 ~~~~l~~a~ragkl~~G~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~ 82 (99)
T PRK01018 4 FNRELRVAVDTGKVILGSKRTIKAIKLGKAKLVIVASNCPK-DIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVS 82 (99)
T ss_pred HHHHHHHHHHcCCEEEcHHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEE
Confidence 45679999999999999999999999999999999999987 69999999999999998665 89999999999987899
Q ss_pred EEEEecCCCC
Q 031617 117 CVLVLTKPTK 126 (156)
Q Consensus 117 vvaI~d~~~~ 126 (156)
+++|+|.|.+
T Consensus 83 ~vaI~D~G~a 92 (99)
T PRK01018 83 ALAIVDPGES 92 (99)
T ss_pred EEEEecCCHH
Confidence 9999998864
No 7
>PRK07714 hypothetical protein; Provisional
Probab=99.89 E-value=4.9e-23 Score=148.95 Aligned_cols=90 Identities=18% Similarity=0.224 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCc
Q 031617 35 SKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRP 114 (156)
Q Consensus 35 ~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~ 114 (156)
.++++++|++|+++|+++.|.++|.++|++|++++||+|+|++|. ..+++..+|+.++|||++++|+.+||.+||++ +
T Consensus 3 ~~~~~~~Lgla~raGk~v~G~~~v~~al~~g~~~lViiA~D~s~~-~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~-~ 80 (100)
T PRK07714 3 MSDWKSFLGLANRARKVISGEELVLKEVRSGKAKLVLLSEDASVN-TTKKITDKCTYYNVPMRKVENRQQLGHAIGKD-E 80 (100)
T ss_pred HHHHHHHHHHHHHhCCeeecHHHHHHHHHhCCceEEEEeCCCCHH-HHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCC-c
Confidence 478999999999999999999999999999999999999999995 89999999999999999999999999999997 4
Q ss_pred eEEEEEecCCCC
Q 031617 115 TCCVLVLTKPTK 126 (156)
Q Consensus 115 ~svvaI~d~~~~ 126 (156)
+++++|+|++.+
T Consensus 81 ~~~vai~d~g~a 92 (100)
T PRK07714 81 RVVVAVLDEGFA 92 (100)
T ss_pred ceEEEEeCchhH
Confidence 669999998863
No 8
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.89 E-value=1.1e-22 Score=149.57 Aligned_cols=91 Identities=15% Similarity=0.177 Sum_probs=85.1
Q ss_pred HHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee-eCCHHHHHhhcCCcC
Q 031617 35 SKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAGATKR 113 (156)
Q Consensus 35 ~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a~G~~~ 113 (156)
...|.++|++|+++|+++.|.++|+++|++|+++|||||+|+++. +.+.+..+|+.++||++. .+|+.+||+|||+++
T Consensus 10 ~~~i~~~Lgla~raGKlv~G~~~vlkalk~gkaklViiA~D~~~~-~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~ 88 (108)
T PTZ00106 10 QESINSKLQLVMKSGKYTLGTKSTLKALRNGKAKLVIISNNCPPI-RRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHF 88 (108)
T ss_pred HhhHHHHHHHHHHhCCeeecHHHHHHHHHcCCeeEEEEeCCCCHH-HHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCcc
Confidence 456889999999999999999999999999999999999999984 899999999999999975 699999999999988
Q ss_pred ceEEEEEecCCCC
Q 031617 114 PTCCVLVLTKPTK 126 (156)
Q Consensus 114 ~~svvaI~d~~~~ 126 (156)
.+++++|+|.|.+
T Consensus 89 r~svvaI~D~G~a 101 (108)
T PTZ00106 89 RVSVMSITDAGDS 101 (108)
T ss_pred CeEEEEEeCcchH
Confidence 8889999998864
No 9
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.88 E-value=5.3e-22 Score=144.98 Aligned_cols=90 Identities=23% Similarity=0.293 Sum_probs=85.3
Q ss_pred HHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcC
Q 031617 34 LSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKR 113 (156)
Q Consensus 34 l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~ 113 (156)
++++++++|++|+++|+++.|.++|.++|++|+++|||+|+|+++ +..+.|..+|+.++||++.++|+.+||.+||++.
T Consensus 1 ~~~k~l~lLglA~rAGklv~G~~~v~~aik~gk~~lVI~A~D~s~-~~kkki~~~~~~~~vp~~~~~t~~eLg~a~Gk~~ 79 (104)
T PRK05583 1 MMNKFLNFLGLTKKAGKLLEGYNKCEEAIKKKKVYLIIISNDISE-NSKNKFKNYCNKYNIPYIEGYSKEELGNAIGRDE 79 (104)
T ss_pred ChHHHHHHHHHHHHhCCeeecHHHHHHHHHcCCceEEEEeCCCCH-hHHHHHHHHHHHcCCCEEEecCHHHHHHHhCCCC
Confidence 468999999999999999999999999999999999999999999 4899999999999999999999999999999974
Q ss_pred ceEEEEEecCCC
Q 031617 114 PTCCVLVLTKPT 125 (156)
Q Consensus 114 ~~svvaI~d~~~ 125 (156)
+++++|+|++.
T Consensus 80 -~~~iai~d~g~ 90 (104)
T PRK05583 80 -IKILGVKDKNM 90 (104)
T ss_pred -eEEEEEeChHH
Confidence 99999999774
No 10
>PRK07283 hypothetical protein; Provisional
Probab=99.88 E-value=3.3e-22 Score=144.37 Aligned_cols=89 Identities=19% Similarity=0.184 Sum_probs=83.6
Q ss_pred HHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCc
Q 031617 35 SKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRP 114 (156)
Q Consensus 35 ~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~ 114 (156)
+++++++|++|+++|+++.|.++|.++|++|++++||+|+|+++ +..+++...|+.++||++.++|+++||++||++
T Consensus 3 ~~~~l~~LglA~raGklv~G~~~v~~aik~gk~~lVi~A~Das~-~~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~-- 79 (98)
T PRK07283 3 KQKISNLLGLAQRAGRIISGEELVVKAIQSGQAKLVFLANDAGP-NLTKKVTDKSNYYQVEVSTVFSTLELSAAVGKP-- 79 (98)
T ss_pred HHHHHHHHHHHHHhCCeeEcHHHHHHHHHcCCccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCC--
Confidence 47899999999999999999999999999999999999999999 489999999999999999999999999999985
Q ss_pred eEEEEEecCCCC
Q 031617 115 TCCVLVLTKPTK 126 (156)
Q Consensus 115 ~svvaI~d~~~~ 126 (156)
.++++|+|.|.+
T Consensus 80 ~~vvai~d~g~a 91 (98)
T PRK07283 80 RKVLAVTDAGFS 91 (98)
T ss_pred ceEEEEeChhHH
Confidence 578999998853
No 11
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.88 E-value=3.8e-22 Score=140.00 Aligned_cols=77 Identities=25% Similarity=0.397 Sum_probs=73.4
Q ss_pred HHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEe
Q 031617 44 RAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 121 (156)
Q Consensus 44 ~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~ 121 (156)
...++|+++.|.++|+++|++|+++|||||+|++| ++.++|+.+|++++|||++++|+.+||++||+++++++++|+
T Consensus 5 ~~~ragkl~~G~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 5 KVSQAKSIVIGTKQTVKALKRGSVKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred HHHhcCCEEEcHHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence 34588999999999999999999999999999999 599999999999999999999999999999999999999986
No 12
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.87 E-value=3.8e-22 Score=140.78 Aligned_cols=73 Identities=19% Similarity=0.312 Sum_probs=69.6
Q ss_pred cCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEe
Q 031617 48 HKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 121 (156)
Q Consensus 48 ag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~ 121 (156)
+.+++.|++|++|+|++|++++||||.|++|. ++.||+.+|+++||||+|++||.+||++||+++++++++|+
T Consensus 11 ~~~~vvG~kqt~Kai~kg~~~~v~iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 11 KQHFVVGLKETLKALKKDQVTSLIIAEDVEVY-LMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred CcCceeeHHHHHHHHhcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence 35679999999999999999999999999996 89999999999999999999999999999999999999986
No 13
>PRK06683 hypothetical protein; Provisional
Probab=99.87 E-value=9.6e-22 Score=138.09 Aligned_cols=79 Identities=15% Similarity=0.195 Sum_probs=75.5
Q ss_pred HHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEe
Q 031617 42 VRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 121 (156)
Q Consensus 42 L~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~ 121 (156)
++.+.++|+++.|.++|+++|++|++++||||+|++|. +.+.|..+|++++|||++++|+.+||++||+++++++++|+
T Consensus 3 ~~~~~~agk~v~G~~~v~kaik~gkaklViiA~Da~~~-~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~ 81 (82)
T PRK06683 3 YQKVSNAENVVVGHKRTLEAIKNGIVKEVVIAEDADMR-LTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGII 81 (82)
T ss_pred hHHHHhCCCEEEcHHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEe
Confidence 56678999999999999999999999999999999995 89999999999999999999999999999999999999986
No 14
>KOG3387 consensus 60S ribosomal protein 15.5kD/SNU13, NHP2/L7A family (includes ribonuclease P subunit p38), involved in splicing [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.85 E-value=3.6e-21 Score=143.93 Aligned_cols=120 Identities=31% Similarity=0.569 Sum_probs=107.7
Q ss_pred ccCcccCCCCChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 21 SLAPIAKPLAGKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 21 ~~~~~a~Pl~~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
-++|.+.|++...+.++++.+.+.|.+-.++..|.|+++|.+.+|...|||+|.||.|.+++.|||.+|+.+||||+||+
T Consensus 5 ~v~~~~~P~ad~~L~ekildl~Qqa~~~kql~kg~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~Vp 84 (131)
T KOG3387|consen 5 GVNPKAYPLADSNLTEKILDLKQQATGYKQLKKGANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYVFVP 84 (131)
T ss_pred ccCcccCcccchhhHHHHHHHHHHHhhHHHHhcccchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceEEee
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHhhcC---CcCceEEEEEecCCCCCCcchHHHHhhHHHHH
Q 031617 101 SKEDLANAGA---TKRPTCCVLVLTKPTKGELGQEEQDKLKADYT 142 (156)
Q Consensus 101 sk~eLG~a~G---~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~ 142 (156)
++..||.+|| ..+++.++.|....++.- .-.++.....++
T Consensus 85 sk~alG~~cg~~~~~r~~~a~~i~~~~~~~~--~~~~q~l~~~~~ 127 (131)
T KOG3387|consen 85 SKQALGLACGELVVLRPVIACSITTNEASIP--LSQIQSLKRAIE 127 (131)
T ss_pred ccHHhhhhhhhHhhcCcceeEEEEeccccch--hhHHHHhHHHHH
Confidence 9999999999 888999999988776543 234444444444
No 15
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.84 E-value=7.8e-21 Score=133.58 Aligned_cols=74 Identities=19% Similarity=0.238 Sum_probs=71.0
Q ss_pred cCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 48 HKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 48 ag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
-|+++.|.++|+++|++|+++|||||+|+++ ++.++|..+|+.++|||++++|+.+||++||+++++++++|+-
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~~-~~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~ 79 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADII 79 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEee
Confidence 5889999999999999999999999999998 5999999999999999999999999999999999999999874
No 16
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.82 E-value=2.8e-19 Score=147.86 Aligned_cols=93 Identities=23% Similarity=0.458 Sum_probs=78.8
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCc-
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGEL- 129 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~- 129 (156)
|+.|+++|+++|++|+++|||||+|++|.+++.||+.+|++++|||++++++.+||+++|++ .++|++|+|.+. +++
T Consensus 133 LvsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkK-travVAItD~g~-ed~~ 210 (263)
T PTZ00222 133 VVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRK-TATCVAITDVNA-EDEA 210 (263)
T ss_pred eccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCC-CCeEEEEeeCCc-ccHH
Confidence 89999999999999999999999999999888999999999999999999999999999997 478999998664 332
Q ss_pred -----chHHHHhhHHHHHHHH
Q 031617 130 -----GQEEQDKLKADYTLVV 145 (156)
Q Consensus 130 -----~~~~~~~~~~~y~e~~ 145 (156)
......+|+|.|+|+.
T Consensus 211 ~l~~lv~~~~~~~nd~~~e~r 231 (263)
T PTZ00222 211 ALKNLIRSVNARFLSRSDVIR 231 (263)
T ss_pred HHHHHHHHHHHhhccchHHHH
Confidence 1334455555555543
No 17
>PRK09190 hypothetical protein; Provisional
Probab=99.79 E-value=6.2e-19 Score=143.81 Aligned_cols=106 Identities=15% Similarity=0.135 Sum_probs=93.3
Q ss_pred ChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHh------cCCCceeeCCHHH
Q 031617 31 GKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEE------SDIPYIYVASKED 104 (156)
Q Consensus 31 ~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~------~nIP~i~v~sk~e 104 (156)
.+.+.++++++|++|+++|+++.|...|.++|++|+++|||+|+|+++. ..++|..+|+. ++|||+.++|+.+
T Consensus 92 ~~~l~~ril~lLGLArRAGklVsG~~~V~~alk~gk~~Lvi~A~DaS~~-t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~e 170 (220)
T PRK09190 92 EALLARRALDALGLARKAGQVVSGFEKVDAALRSGEAAALIHASDGAAD-GKRKLDQARRALVHETGREIPVIGLFTAAE 170 (220)
T ss_pred HHHHHHHHHHHHHHHhhhCCEeecHHHHHHHHHcCCceEEEEeccCChh-HHHHHHHHHHhhcccccCCccEEEecCHHH
Confidence 4566799999999999999999999999999999999999999999995 89999999999 9999999999999
Q ss_pred HHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHH
Q 031617 105 LANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKA 139 (156)
Q Consensus 105 LG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~ 139 (156)
||.++|++ ++++++|+|++.+.. ..++.++|..
T Consensus 171 Lg~AlGr~-~~~~vav~d~gfA~~-l~~~~~rl~~ 203 (220)
T PRK09190 171 LGLAFGRE-NVIHAALLAGGAAER-VVKRAQRLAG 203 (220)
T ss_pred HHHHhCCC-ceeEEEEcChHHHHH-HHHHHHHHHh
Confidence 99999996 588999999876432 2345555554
No 18
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.78 E-value=1.9e-18 Score=143.24 Aligned_cols=91 Identities=23% Similarity=0.481 Sum_probs=78.8
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCcc
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELG 130 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~~ 130 (156)
+..|+|+|+++|++++++|||||+|++|.+.+.+++.+|++++|||++++++.+||.++|++ +++|++|+| ..++|
T Consensus 133 vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkk-traVVAItd-V~~ED-- 208 (266)
T PTZ00365 133 LKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK-TAAVVAIDN-VRKED-- 208 (266)
T ss_pred HHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHHhCCC-CceEEEecc-cCHHH--
Confidence 78999999999999999999999999999988889999999999999999999999999996 688999997 44444
Q ss_pred hHHHHhhHHHHHHHHHHHHhhh
Q 031617 131 QEEQDKLKADYTLVVEDVKELA 152 (156)
Q Consensus 131 ~~~~~~~~~~y~e~~~~i~~~~ 152 (156)
+..|+++++.|+..|
T Consensus 209 -------k~~l~~lv~~~~~~~ 223 (266)
T PTZ00365 209 -------QAEFDNLCKNFRAMF 223 (266)
T ss_pred -------HHHHHHHHHHHHHhc
Confidence 345556666665554
No 19
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.68 E-value=1.7e-16 Score=114.05 Aligned_cols=91 Identities=18% Similarity=0.245 Sum_probs=83.3
Q ss_pred HHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceee-CCHHHHHhhcCCcCc
Q 031617 36 KRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRP 114 (156)
Q Consensus 36 ~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v-~sk~eLG~a~G~~~~ 114 (156)
..+-.-|+.|.++|+++.|.++++|+++.|++++||||+||.+ ++.+.|...++-.+||+.+. +++.|||.+||+.+.
T Consensus 5 ~~v~~~L~~avkTGkvilG~k~tiK~lk~gkaKliiiAsN~P~-~~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~ 83 (100)
T COG1911 5 DDVEKELKLAVKTGKVILGSKRTIKSLKLGKAKLIIIASNCPK-ELKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFR 83 (100)
T ss_pred chHHHHHHHHHhcCCEEEehHHHHHHHHcCCCcEEEEecCCCH-HHHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCce
Confidence 4566788999999999999999999999999999999999955 79999999999999999665 699999999999999
Q ss_pred eEEEEEecCCCCC
Q 031617 115 TCCVLVLTKPTKG 127 (156)
Q Consensus 115 ~svvaI~d~~~~~ 127 (156)
+++++|+|.|.+.
T Consensus 84 v~~laIiD~G~S~ 96 (100)
T COG1911 84 VAALAIIDEGDSD 96 (100)
T ss_pred EEEEEEecCchhh
Confidence 9999999999764
No 20
>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=99.68 E-value=2.3e-16 Score=118.12 Aligned_cols=94 Identities=26% Similarity=0.400 Sum_probs=87.9
Q ss_pred hHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCC
Q 031617 32 KKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGAT 111 (156)
Q Consensus 32 ~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~ 111 (156)
=.++..+...|+.|+-.+.|++|++++.|+|.+++++||++|+||+...|.+.+.+||.+++||++.+++..+||+++|.
T Consensus 16 mdv~~AL~~Vlk~al~~dGlarGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k~LGew~Gl 95 (134)
T KOG3406|consen 16 MDVNTALQEVLKTALVHDGLARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAGL 95 (134)
T ss_pred ccHHHHHHHHHHHHHHhchHHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhce
Confidence 35789999999999999999999999999999999999999999988789999999999999999999999999999885
Q ss_pred c-----------CceEEEEEecCCC
Q 031617 112 K-----------RPTCCVLVLTKPT 125 (156)
Q Consensus 112 ~-----------~~~svvaI~d~~~ 125 (156)
- .+++|++++|+|.
T Consensus 96 ckid~eGnarKvvGcs~vvVkd~ge 120 (134)
T KOG3406|consen 96 CKIDSEGNARKVVGCSCVVVKDYGE 120 (134)
T ss_pred eeecCCCCeeEeecceEEEEeeccc
Confidence 3 2799999999885
No 21
>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=98.89 E-value=6.7e-09 Score=76.28 Aligned_cols=92 Identities=14% Similarity=0.162 Sum_probs=74.7
Q ss_pred HHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc-eeeCCHHHHHhhcCCcC
Q 031617 35 SKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY-IYVASKEDLANAGATKR 113 (156)
Q Consensus 35 ~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~-i~v~sk~eLG~a~G~~~ 113 (156)
-+-|..-+-.+.++|+.+.|.+++++.++.|+++|+++|.+|-|. -...|..++--...+| .+.+...+||.+||+-.
T Consensus 11 ~e~ins~lll~mksgkY~lgyK~T~k~~r~gkakL~~is~n~p~l-rks~ieyyamlak~~v~~~sg~n~~lgt~~g~~f 89 (112)
T KOG2988|consen 11 GEFINSSLLLVMKSGKYILGYKQTLKSLRQGKAKLIIISSNCPPL-RKSEIEYYAMLAKTGVHHYSGNNVELGTACGKTF 89 (112)
T ss_pred chhhhHHHHHHHhhcceeechHHHHHHHHhccceEEEeecCCCCc-chhHHHHHHHHhcCceeeecCCcEeHHHHhcCee
Confidence 355667788899999999999999999999999999999999764 2444444444444556 44578999999999988
Q ss_pred ceEEEEEecCCCCC
Q 031617 114 PTCCVLVLTKPTKG 127 (156)
Q Consensus 114 ~~svvaI~d~~~~~ 127 (156)
.++|..|+|.+++.
T Consensus 90 Rv~v~~ivd~gds~ 103 (112)
T KOG2988|consen 90 RVSVLSIVDLGDSD 103 (112)
T ss_pred EeeEEEEEeccchh
Confidence 89999999999754
No 22
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=98.36 E-value=3.5e-07 Score=74.16 Aligned_cols=80 Identities=20% Similarity=0.380 Sum_probs=63.5
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCc-
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGEL- 129 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~- 129 (156)
+-.|++.|+..+++.+++||++|.|++|.+++-++|+||.+. +.-++ ..+ .++++++. +++++
T Consensus 110 ~~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km----ivk~~--------~~k-T~t~~a~v---~~edk~ 173 (209)
T KOG3166|consen 110 LRAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM----IVKGK--------HRK-TCTTVAFV---NSEDKG 173 (209)
T ss_pred cccCcceEeehhhccccceeEEecccCchhheeecHHhhhhh----ccccc--------ccc-eeeeeeee---chhhHH
Confidence 778999999999999999999999999999999999999998 12222 344 46667764 34444
Q ss_pred -----chHHHHhhHHHHHHHHH
Q 031617 130 -----GQEEQDKLKADYTLVVE 146 (156)
Q Consensus 130 -----~~~~~~~~~~~y~e~~~ 146 (156)
.+...++|+|.|||+..
T Consensus 174 ~l~kl~e~i~tn~ndrydei~~ 195 (209)
T KOG3166|consen 174 ALAKLVEAIRTNYNDRYDEICR 195 (209)
T ss_pred HHHHHHHHHhcccccchhhhhh
Confidence 25677899999999864
No 23
>PF08228 RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR013241 This family of fungal proteins form a subunit of RNase P, the ribonucleoprotein enzyme that cleaves the leader sequence of precursor tRNAs to generate mature tRNAs. The structure of Pop3 has been assigned the L7Ae/L30e fold []. This RNA-binding fold is also present in human RNase P subunit Rpp38, raising the possibility that Pop3p and Rpp38 are functional homologues.
Probab=98.18 E-value=1.6e-05 Score=62.20 Aligned_cols=97 Identities=14% Similarity=0.213 Sum_probs=77.7
Q ss_pred CCCCChH------HHHHHHHHHHHHHhc-----CCccccHHHHHHHHHcCCc--cEEEEeCCCCchhHHhhHHHHhHhcC
Q 031617 27 KPLAGKK------LSKRTLKLVRRAAEH-----KCLKRGVKEVVKSIRRGHK--GLCVIAGNISPIDVITHVPILCEESD 93 (156)
Q Consensus 27 ~Pl~~~~------l~~ki~~lL~~A~ka-----g~lv~G~~~v~kaI~k~ka--kLVIIA~D~~p~~~~~~l~~lc~~~n 93 (156)
+|.+.++ +...+.+.++.++++ -.+..|.|++++.|+.... .+||++..-.|.-+..|||.||.-.+
T Consensus 21 WP~v~~q~~v~elL~~~l~~~l~~~~~s~~~~~~~v~~GfNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as 100 (158)
T PF08228_consen 21 WPFVKPQKLVLELLQSKLLRPLKHLRESKPEWPWGVTVGFNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATAS 100 (158)
T ss_pred CCcccchHHHHHHHHHHHHHHHHHHhhcCCCCCccEEEehHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhcc
Confidence 8888888 777888777777663 2489999999999994322 37777765577779999999999988
Q ss_pred --CCceeeC--CHHHHHhhcCCcCceEEEEEecCC
Q 031617 94 --IPYIYVA--SKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 94 --IP~i~v~--sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
|..|..+ +...|+.++|.. .+++++|.++.
T Consensus 101 ~~vrLV~Lpkgs~~rLs~aLgi~-r~g~l~v~~~~ 134 (158)
T PF08228_consen 101 KSVRLVQLPKGSEARLSEALGIP-RVGILAVRADA 134 (158)
T ss_pred CcceEEeCChhHHHHHHHHhCCC-CccEEEEecCC
Confidence 8888875 688999999996 48999998744
No 24
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=96.70 E-value=0.0056 Score=40.81 Aligned_cols=72 Identities=22% Similarity=0.264 Sum_probs=53.0
Q ss_pred ccccHHHHHHHHHcCC-ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCC
Q 031617 51 LKRGVKEVVKSIRRGH-KGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 51 lv~G~~~v~kaI~k~k-akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
++.|.+.|..+|+.+. +.-|++..+.... ....+..+|.+.+||+.++ ++..|.+.++...+=.++++..+.
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~-~~~~i~~~~~~~~i~v~~v-~~~~l~~ls~~~~hQGv~a~v~~~ 73 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADK-RIKEILKLAKKKGIPVYEV-SKKVLDKLSDTENHQGVVAVVKPP 73 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---C-CTHHHHHHHHHCT-EEEEE--HHHHHHCTTTSS-TTEEEEEE--
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccch-hHHHHHHHHHHcCCeEEEe-CHHHHHHHcCCCCCCeEEEEEeCC
Confidence 5789999999999975 8889999994332 3677889999999998776 566799998877776778877543
No 25
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=96.46 E-value=0.0064 Score=44.72 Aligned_cols=84 Identities=15% Similarity=0.151 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchh------------------HHhhHHHHhHhcCCC
Q 031617 34 LSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPID------------------VITHVPILCEESDIP 95 (156)
Q Consensus 34 l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~------------------~~~~l~~lc~~~nIP 95 (156)
+-+++++.+. ...|..+.|.++|.++++.|.+..++|..|..... ++..+..++++.|.-
T Consensus 7 ~ve~f~~~l~--k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~ 84 (113)
T PF03465_consen 7 LVEEFFEELA--KDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAK 84 (113)
T ss_dssp HHHHHHHHHH--TTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHh--hCCCcEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCE
Confidence 3445554444 34589999999999999999999999999875432 368899999999999
Q ss_pred ceeeCCHHHHHhhc-CCcCceEEEEEe
Q 031617 96 YIYVASKEDLANAG-ATKRPTCCVLVL 121 (156)
Q Consensus 96 ~i~v~sk~eLG~a~-G~~~~~svvaI~ 121 (156)
+.++++..+-|.-+ ..-.+ ++||+
T Consensus 85 v~iis~~~e~G~~L~~~~gG--IaaiL 109 (113)
T PF03465_consen 85 VEIISSEHEEGEQLLKGFGG--IAAIL 109 (113)
T ss_dssp EEEE-TTSHHHHHHHHCTTT--EEEEE
T ss_pred EEEEcCCCccHHHHHhcCCc--EEEEE
Confidence 99999988887755 22223 45665
No 26
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=95.58 E-value=0.033 Score=40.64 Aligned_cols=52 Identities=19% Similarity=0.290 Sum_probs=46.0
Q ss_pred CCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH
Q 031617 49 KCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 49 g~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
+.+.-|+-++++.|.++-.-.|++-..-+|. +.||..||+++|||+..+++.
T Consensus 38 N~IKPGIgEaTRvLLRRvP~~vLVr~~~~pd--~~Hl~~LA~ekgVpVe~~~d~ 89 (100)
T PF15608_consen 38 NLIKPGIGEATRVLLRRVPWKVLVRDPDDPD--LAHLLLLAEEKGVPVEVYPDL 89 (100)
T ss_pred ccccCChhHHHHHHHhcCCCEEEECCCCCcc--HHHHHHHHHHcCCcEEEeCCC
Confidence 4588899999999999999999998777773 999999999999999998853
No 27
>PRK04011 peptide chain release factor 1; Provisional
Probab=94.49 E-value=0.16 Score=45.21 Aligned_cols=63 Identities=17% Similarity=0.215 Sum_probs=52.3
Q ss_pred hcCCccccHHHHHHHHHcCCccEEEEeCCCC-----------------------------------------chhHHhhH
Q 031617 47 EHKCLKRGVKEVVKSIRRGHKGLCVIAGNIS-----------------------------------------PIDVITHV 85 (156)
Q Consensus 47 kag~lv~G~~~v~kaI~k~kakLVIIA~D~~-----------------------------------------p~~~~~~l 85 (156)
..|..+.|.++|.++++.|.+..+||..|.. ..+.+..|
T Consensus 293 d~g~avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~v~~l 372 (411)
T PRK04011 293 DGGLAVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEEEDIIEEL 372 (411)
T ss_pred CCCcEEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHH
Confidence 4688999999999999999999999986541 12357778
Q ss_pred HHHhHhcCCCceeeCCHHHHHhhc
Q 031617 86 PILCEESDIPYIYVASKEDLANAG 109 (156)
Q Consensus 86 ~~lc~~~nIP~i~v~sk~eLG~a~ 109 (156)
..++++.|..+.++.+..+-|.-+
T Consensus 373 ~e~a~~~g~~v~iis~~~e~G~qL 396 (411)
T PRK04011 373 SELAEQSGTKVEVISTDTEEGEQL 396 (411)
T ss_pred HHHHHHcCCEEEEECCCChhHHHH
Confidence 899999999999999888877654
No 28
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=94.48 E-value=0.15 Score=45.22 Aligned_cols=75 Identities=17% Similarity=0.181 Sum_probs=57.2
Q ss_pred HhcCCccccHHHHHHHHHcCCccEEEEeCCCC-----------------------------------------chhHHhh
Q 031617 46 AEHKCLKRGVKEVVKSIRRGHKGLCVIAGNIS-----------------------------------------PIDVITH 84 (156)
Q Consensus 46 ~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~-----------------------------------------p~~~~~~ 84 (156)
+..|..+.|.++|.++++.|.+..+||..|.. ..+.+..
T Consensus 284 ~d~g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~ 363 (403)
T TIGR03676 284 KDGGLAAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEE 363 (403)
T ss_pred cCCCcEEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHH
Confidence 34688999999999999999999999988762 1246777
Q ss_pred HHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEe
Q 031617 85 VPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 121 (156)
Q Consensus 85 l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~ 121 (156)
|...+++.|-.+.++.+..+-|.-+.+.. -.++||+
T Consensus 364 L~e~a~~~Ga~V~~iS~~~eeG~ql~~~f-GGIaAiL 399 (403)
T TIGR03676 364 LSELAEESGAKVEIISTDTEEGEQLLKAF-GGIAAIL 399 (403)
T ss_pred HHHHHHHcCCEEEEECCCChhHHHHHHcC-CcEEEEE
Confidence 88999999999999999888886442211 1345555
No 29
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=93.98 E-value=0.25 Score=43.88 Aligned_cols=76 Identities=16% Similarity=0.158 Sum_probs=57.5
Q ss_pred HhcCCccccHHHHHHHHHcCCccEEEEeCCCCc-----------------------------------------hhHHhh
Q 031617 46 AEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISP-----------------------------------------IDVITH 84 (156)
Q Consensus 46 ~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p-----------------------------------------~~~~~~ 84 (156)
+..|..+.|.++|.++++.|.+..+||..|..- .+++..
T Consensus 288 ~d~G~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~ 367 (409)
T TIGR00108 288 QEDGLACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEW 367 (409)
T ss_pred cCCCcEEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHH
Confidence 446889999999999999999999999998620 135677
Q ss_pred HHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 85 VPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 85 l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
|...|++.|-.+.++.+..+=|.-+-+.. -.++||+-
T Consensus 368 L~e~a~~~Ga~V~iiS~~~eeG~ql~~~f-GGIaAiLR 404 (409)
T TIGR00108 368 LSELAENFGAKLEFISTESEEGAQLLTAF-GGIGAILR 404 (409)
T ss_pred HHHHHHHcCCEEEEECCCChhHHHHHHhC-CCEEEEEe
Confidence 88899999999999998887775331111 13566653
No 30
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=93.93 E-value=0.21 Score=43.36 Aligned_cols=75 Identities=13% Similarity=0.092 Sum_probs=58.7
Q ss_pred hcCCccccHHHHHHHHHcCCccEEEEeCCC-CchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecC
Q 031617 47 EHKCLKRGVKEVVKSIRRGHKGLCVIAGNI-SPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTK 123 (156)
Q Consensus 47 kag~lv~G~~~v~kaI~k~kakLVIIA~D~-~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~ 123 (156)
..+..+.|.++|.+|++.|-+.-++|..+. ....-...|...+++.|..++.+++..+-|.-+.. --.++||+-+
T Consensus 274 d~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL~~--lgGiaAiLRy 349 (351)
T TIGR00111 274 DGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQLDS--LGGIAGILRF 349 (351)
T ss_pred CCCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHHhh--CCCEEEEEec
Confidence 457999999999999999999999999988 32223566788899999999999988888875532 2346676643
No 31
>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=93.00 E-value=0.15 Score=35.95 Aligned_cols=43 Identities=16% Similarity=0.250 Sum_probs=36.0
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC--CHHHHHh
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA--SKEDLAN 107 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~--sk~eLG~ 107 (156)
+++.+||+-.|+-.......+...|+++++|+++.. +...|=+
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~ 91 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLER 91 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHH
Confidence 568999999998887899999999999999999987 3444443
No 32
>PRK10864 putative methyltransferase; Provisional
Probab=91.62 E-value=1.2 Score=39.07 Aligned_cols=80 Identities=13% Similarity=0.136 Sum_probs=59.3
Q ss_pred HHHHHhcCCccccHHHHHHHHHcC--CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEE
Q 031617 42 VRRAAEHKCLKRGVKEVVKSIRRG--HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVL 119 (156)
Q Consensus 42 L~~A~kag~lv~G~~~v~kaI~k~--kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svva 119 (156)
++..+....++.|.+.|..+|+++ .+.-+++.....+. ...+..++..++++|..+ +.++|-++++...+-.+++
T Consensus 101 ~~~~~~~~~~I~G~~aV~ealk~~~~~i~~l~~~~~~~~~--~~~il~~~~~~~~~v~~V-~~~~l~kls~~~~hqGV~A 177 (346)
T PRK10864 101 LRRQRAEETRVYGENACQALFQSRPEAIVRAWFIQSVTPR--FKEALRWMAANRKAYHVV-DEAELTKASGTEHHGGVCF 177 (346)
T ss_pred HhhccCCCcEEEEHHHHHHHHhCCCCceeEEEEecCccHH--HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEE
Confidence 444555567999999999999863 46666777777663 455667777889986554 7888999999877777888
Q ss_pred EecCC
Q 031617 120 VLTKP 124 (156)
Q Consensus 120 I~d~~ 124 (156)
+....
T Consensus 178 ~v~~~ 182 (346)
T PRK10864 178 LIKKR 182 (346)
T ss_pred EEeCC
Confidence 77644
No 33
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=91.42 E-value=1.3 Score=36.41 Aligned_cols=73 Identities=8% Similarity=-0.014 Sum_probs=55.7
Q ss_pred CccccHHHHHHHHHcC--CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCC
Q 031617 50 CLKRGVKEVVKSIRRG--HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~--kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
.++.|.+.|..+++.+ ...-|++..+.... ....+..+|++++|++..+ ++++|-+.++...+-.++++..++
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~i~~~~v-~~~~l~~ls~~~~~qGv~a~~~~~ 77 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGREDK-RLLPLINELEAQGIVIQLA-NRQTLDEKAEGAVHQGIIARVKPG 77 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcch-HHHHHHHHHHHcCCcEEEe-CHHHHhhhhcCCCCceEEEEEecc
Confidence 3679999999999753 56677777776543 3456678889999987665 688999999887777788887644
No 34
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=89.76 E-value=2.4 Score=34.69 Aligned_cols=71 Identities=11% Similarity=0.108 Sum_probs=52.0
Q ss_pred CccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCC
Q 031617 50 CLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
.++.|.+.|..+++++ .++.+.-.=..+ -...+..+|++++||+..+ +++.|-++++...+-.++++.+..
T Consensus 2 ~~i~G~~~v~eal~~~-~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~v-~~~~l~~l~~~~~~qGv~a~~~~~ 72 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQ-QRVFILKGLESK--RLKKLIQLAKKQGINIQLV-DRQKLDQLTKGGNHQGIAAKVKPI 72 (237)
T ss_pred cEEEehHHHHHHHhCC-CEEEEEecCcch--HHHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEecC
Confidence 3678999999999988 344433221133 2445788889999998877 588999999887777888888754
No 35
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=87.26 E-value=1.4 Score=32.31 Aligned_cols=49 Identities=16% Similarity=0.225 Sum_probs=38.5
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCC---Cc-hhHHhhHHHHhHhcCCCceeeC
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNI---SP-IDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~---~p-~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.-|..++...|++|++.+||-..|- .+ ..--..|.+.|-+++|||+..-
T Consensus 56 ~~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Ttl 108 (115)
T cd01422 56 LGGDQQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATNR 108 (115)
T ss_pred CCchhHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEcH
Confidence 3577889999999999999998873 22 2235678999999999997643
No 36
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=86.25 E-value=1.9 Score=35.47 Aligned_cols=85 Identities=16% Similarity=0.133 Sum_probs=56.5
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhc-C--CcCceEEEEEecCCCCCCc---chHHHHhhHH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAG-A--TKRPTCCVLVLTKPTKGEL---GQEEQDKLKA 139 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~-G--~~~~~svvaI~d~~~~~~~---~~~~~~~~~~ 139 (156)
.+.|||.|.| ++ ++-..+...|+.+++++..+.+. +++... . ..+.--+++|.++|.+-.. ..++++.+-.
T Consensus 85 g~~LViaATd-D~-~vN~~I~~~a~~~~~lvn~vd~p-~~~dFi~PAiv~rg~l~IaIST~G~sP~lar~lR~~ie~~l~ 161 (223)
T PRK05562 85 DKHLIVIATD-DE-KLNNKIRKHCDRLYKLYIDCSDY-KKGLCIIPYQRSTKNFVFALNTKGGSPKTSVFIGEKVKNFLK 161 (223)
T ss_pred CCcEEEECCC-CH-HHHHHHHHHHHHcCCeEEEcCCc-ccCeEEeeeEEecCCEEEEEECCCcCcHHHHHHHHHHHHHHH
Confidence 3789999988 45 47888999999999998877654 445421 1 1133457889888875533 2455555545
Q ss_pred HHHHHHHHHHhhhc
Q 031617 140 DYTLVVEDVKELAS 153 (156)
Q Consensus 140 ~y~e~~~~i~~~~~ 153 (156)
.|+.+...+.+++.
T Consensus 162 ~~~~l~~~l~~~R~ 175 (223)
T PRK05562 162 KYDDFIEYVTKIRN 175 (223)
T ss_pred HHHHHHHHHHHHHH
Confidence 57776666666544
No 37
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=84.66 E-value=3.8 Score=30.55 Aligned_cols=48 Identities=19% Similarity=0.197 Sum_probs=35.7
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKED 104 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~e 104 (156)
.++.+.|++...-.++|.++.+.. +......+|+++|+|+..+.+...
T Consensus 52 ~~~~~~l~~~~~~~l~ing~l~~~-~~~~YiklA~~~~~~fTiv~~~~~ 99 (120)
T PF07997_consen 52 PEFEQALKDYPNYKLKINGNLDYS-FQSKYIKLANKHGIPFTIVNDPEY 99 (120)
T ss_dssp HHHHHHHHC-SSEEEEEETTS-HH-HHHHHHHHHHHTT--EEEE---SS
T ss_pred HHHHHHHhhCCCeEEEEcCCCCHH-HHHHHHHHHHHcCCCEEEeCCCCc
Confidence 567777888899999999999884 899999999999999999876543
No 38
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=82.43 E-value=2.6 Score=32.14 Aligned_cols=54 Identities=13% Similarity=0.179 Sum_probs=38.9
Q ss_pred cHHHHHHHHHcCCccEEEEeCC-CCch---hHHhhHHHHhHhcCCCceeeC-CHHHHHh
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGN-ISPI---DVITHVPILCEESDIPYIYVA-SKEDLAN 107 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D-~~p~---~~~~~l~~lc~~~nIP~i~v~-sk~eLG~ 107 (156)
|..++...|++|++.+||--.| ..+. .-...|.+.|-++||||+.-. +-..+-+
T Consensus 63 g~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l~tA~a~~~ 121 (142)
T PRK05234 63 GDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNRATADFLIS 121 (142)
T ss_pred CchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCHHHHHHHHH
Confidence 6788999999999999998774 2221 124578999999999997643 3333333
No 39
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=82.27 E-value=1.6 Score=30.40 Aligned_cols=42 Identities=14% Similarity=0.122 Sum_probs=32.6
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhH---HhhHHHHhHhcCCCcee
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDV---ITHVPILCEESDIPYIY 98 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~---~~~l~~lc~~~nIP~i~ 98 (156)
++.+.|+++++.|||.-.+-..... -..+.++|.+++||++.
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~T 95 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLFT 95 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEEC
T ss_pred HHHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCcC
Confidence 6999999999999999888765422 34589999999999863
No 40
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=79.90 E-value=2.9 Score=30.08 Aligned_cols=46 Identities=17% Similarity=0.065 Sum_probs=35.3
Q ss_pred cHHHHHHHHHc-CCccEEEEeCCCCc----hhHHhhHHHHhHhcCCCceee
Q 031617 54 GVKEVVKSIRR-GHKGLCVIAGNISP----IDVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 54 G~~~v~kaI~k-~kakLVIIA~D~~p----~~~~~~l~~lc~~~nIP~i~v 99 (156)
|..++...|++ |++.+||--.|-.. ..--..|.+.|-++||||+.-
T Consensus 55 g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 55 GEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred CCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 67889999999 99999998765221 112456889999999999764
No 41
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=78.10 E-value=1.8 Score=32.57 Aligned_cols=29 Identities=24% Similarity=0.377 Sum_probs=24.7
Q ss_pred EeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 72 IAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 72 IA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+|. ++-.+++..+..+|.++|||+.++++
T Consensus 30 v~~-~~i~dL~~~~~~ic~ergiPIe~I~~ 58 (121)
T PF13611_consen 30 VAN-NEIDDLVREVTEICCERGIPIEIIDK 58 (121)
T ss_pred Eec-CcHHHHHHHHHHHHHHcCCCEEEecC
Confidence 675 44467899999999999999999985
No 42
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=78.03 E-value=18 Score=32.96 Aligned_cols=46 Identities=17% Similarity=0.381 Sum_probs=36.7
Q ss_pred HHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 61 SIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
.|...++-++|+-+.-+..+ +.||..+|+++++|-.++.+..+|+.
T Consensus 357 ~L~~~~vDlmiVVGG~NSSN-T~~L~eIa~~~g~~sy~Ie~~~eI~~ 402 (460)
T PLN02821 357 KLVEEKLDLMLVVGGWNSSN-TSHLQEIAEHKGIPSYWIDSEERIGP 402 (460)
T ss_pred HHhhcCCCEEEEECCCCCcc-HHHHHHHHHHhCCCEEEECCHHHcCc
Confidence 33334577777777766544 89999999999999999999999985
No 43
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=77.84 E-value=2.2 Score=31.55 Aligned_cols=50 Identities=14% Similarity=0.081 Sum_probs=35.2
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+....++..+.++++.+.-|+||-+-++.+.+.++...|++++|.+..++
T Consensus 126 ~lg~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 126 VLGDLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp EE--GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred eEcCHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence 33456889999999999999999888877889999999999999887654
No 44
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=77.48 E-value=12 Score=31.51 Aligned_cols=42 Identities=19% Similarity=0.288 Sum_probs=36.5
Q ss_pred EEEeCCCCchhHHhhHHHHhHhcCCCceeeCC--HHHHHhhcCCc
Q 031617 70 CVIAGNISPIDVITHVPILCEESDIPYIYVAS--KEDLANAGATK 112 (156)
Q Consensus 70 VIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s--k~eLG~a~G~~ 112 (156)
+|+..=++| ++...+...|++++||++.+.. -..|...+|.+
T Consensus 55 iV~~Tlv~~-~lr~~l~~~~~~~~i~~~Dll~~~l~~l~~~lg~~ 98 (255)
T PF03618_consen 55 IVFYTLVDP-ELREYLEEFCREHGIPCVDLLGPLLSALEEFLGQK 98 (255)
T ss_pred EEEEeCCCH-HHHHHHHHHHHhcCCCEEeccHHHHHHHHHHHCcC
Confidence 778888888 5999999999999999999865 67899999986
No 45
>PRK06628 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=77.28 E-value=13 Score=30.94 Aligned_cols=74 Identities=16% Similarity=0.187 Sum_probs=45.4
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhc-C-Ccc----ccHHHHHHHHHcCCccEEEEeCCCCch------------hHHh
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEH-K-CLK----RGVKEVVKSIRRGHKGLCVIAGNISPI------------DVIT 83 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~ka-g-~lv----~G~~~v~kaI~k~kakLVIIA~D~~p~------------~~~~ 83 (156)
+..+.+|+-.+.+ ++ ++...|.. | .++ .|.+++++++++|. .|.+..|-++. ....
T Consensus 140 ~~~vyr~~~n~~~-d~---~~~~~R~~~g~~~i~~~~~~~r~l~k~Lk~g~--~v~il~Dq~~~~gv~v~FFG~~a~t~~ 213 (290)
T PRK06628 140 VAVIYRKANNPYV-NK---LVNESRAGDKLRLIPKGPEGSRALVRAIKESE--SIVMLVDQKMNDGIEVPFLGHPAMTAS 213 (290)
T ss_pred eeEEEecCCCHHH-HH---HHHHHHHhcCCceecCCCchHHHHHHHHHcCC--eEEEEecccCCCCeeeecCCCccccch
Confidence 3445677643333 33 33333332 2 333 48899999998885 77788777653 1233
Q ss_pred hHHHHhHhcCCCceeeCC
Q 031617 84 HVPILCEESDIPYIYVAS 101 (156)
Q Consensus 84 ~l~~lc~~~nIP~i~v~s 101 (156)
....++...|.|++.+..
T Consensus 214 ~~a~LA~~~~apvv~~~~ 231 (290)
T PRK06628 214 AIAKIALQYKYPIIPCQI 231 (290)
T ss_pred HHHHHHHHHCCCEEEEEE
Confidence 345688888888877663
No 46
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=76.91 E-value=23 Score=31.67 Aligned_cols=49 Identities=22% Similarity=0.291 Sum_probs=37.3
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
..+.|...++-++|+-++-+..+ +.+|..+|++.+.|..++.+..+|-.
T Consensus 280 A~~~La~~~vD~miVVGG~nSSN-T~rL~eia~~~g~~ty~Ie~~~eL~~ 328 (387)
T PRK13371 280 AMFSLVEEPLDLMVVIGGYNSSN-TTHLQEIAIERGIPSYHIDSPERILS 328 (387)
T ss_pred HHHHHhhcCCCEEEEECCCCCcc-HHHHHHHHHhcCCCEEEECCHHHcCC
Confidence 34445444577777766665544 89999999999999999999999965
No 47
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=76.46 E-value=6.4 Score=31.53 Aligned_cols=84 Identities=13% Similarity=0.082 Sum_probs=50.2
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh-cC--CcCceEEEEEecCCCCCCcc---hHHHHhhH
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GA--TKRPTCCVLVLTKPTKGELG---QEEQDKLK 138 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a-~G--~~~~~svvaI~d~~~~~~~~---~~~~~~~~ 138 (156)
..+.+||+|.|. + ++-..+...|+..+||+..+.+ -+++.. +. ..++--.++|.++|.+-... .+++++.-
T Consensus 68 ~~~~lVi~at~d-~-~ln~~i~~~a~~~~ilvn~~d~-~e~~~f~~pa~~~~g~l~iaisT~G~sP~la~~lr~~ie~~l 144 (205)
T TIGR01470 68 EGAFLVIAATDD-E-ELNRRVAHAARARGVPVNVVDD-PELCSFIFPSIVDRSPVVVAISSGGAAPVLARLLRERIETLL 144 (205)
T ss_pred CCcEEEEECCCC-H-HHHHHHHHHHHHcCCEEEECCC-cccCeEEEeeEEEcCCEEEEEECCCCCcHHHHHHHHHHHHhc
Confidence 358899999987 3 3567899999999999855543 344442 11 12345678898888765332 33333322
Q ss_pred -HHHHHHHHHHHhh
Q 031617 139 -ADYTLVVEDVKEL 151 (156)
Q Consensus 139 -~~y~e~~~~i~~~ 151 (156)
..|+++.+...++
T Consensus 145 ~~~~~~~~~~~~~~ 158 (205)
T TIGR01470 145 PPSLGDLATLAATW 158 (205)
T ss_pred chhHHHHHHHHHHH
Confidence 3445444444433
No 48
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=75.96 E-value=4.3 Score=27.84 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=34.9
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCC-Cc--hhHHhhHHHHhHhcCCCce
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNI-SP--IDVITHVPILCEESDIPYI 97 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~-~p--~~~~~~l~~lc~~~nIP~i 97 (156)
+--|...+.+.|+.|++.+||--.+- .. ..--..+.++|.+++||+.
T Consensus 40 i~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 40 VHGGILAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred CCCCCHHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 43456679999999999999997653 22 1113468999999999986
No 49
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=75.91 E-value=19 Score=30.58 Aligned_cols=37 Identities=27% Similarity=0.161 Sum_probs=27.8
Q ss_pred HHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 61 SIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.+..+++||||.|+- ..--+..+=++.+||++-+-
T Consensus 62 ~l~~~~ik~lVIACNTA---Sa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 62 FLLERGIKALVIACNTA---SAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred HHHHcCCCEEEEecchH---HHHHHHHHHHhCCCCEEEec
Confidence 44444499999999983 35566777789999998764
No 50
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=75.15 E-value=30 Score=28.80 Aligned_cols=73 Identities=21% Similarity=0.235 Sum_probs=58.9
Q ss_pred CccccHHHHHHHHHcC-CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCC
Q 031617 50 CLKRGVKEVVKSIRRG-HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 125 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~-kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~ 125 (156)
.++.|.+.|..++..+ .+.-+++..+..+ ....+.......++|+..+ ++..|-...+...+-.++++.+...
T Consensus 22 ~~~~G~~~v~~al~~~~~i~~i~~~~~~~~--~~~~~~~~~~~~~~~~~~v-~~~~l~~~~~~~~hqGi~a~~~~~~ 95 (260)
T COG0566 22 FLIEGEHAVLEALASGPKIVRILVTEGRLP--RFEELLALAAAKGIPVYVV-SEAILDKLSGTENHQGIVAVVKKRR 95 (260)
T ss_pred EEEeeHHHHHHHHhcCCCceEEEEecccch--hHHHHHHHHHhcCCeEEEE-CHHHHHHHhCCCCCCeEEEEEeccc
Confidence 4999999999999999 7888888888873 3667788888999987554 5778888877766777888877654
No 51
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=71.76 E-value=20 Score=30.99 Aligned_cols=85 Identities=12% Similarity=0.194 Sum_probs=56.9
Q ss_pred hccCcccCCCCChHHHHHHHHHHHHHHhcCC--cccc----------HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHH
Q 031617 20 VSLAPIAKPLAGKKLSKRTLKLVRRAAEHKC--LKRG----------VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPI 87 (156)
Q Consensus 20 ~~~~~~a~Pl~~~~l~~ki~~lL~~A~kag~--lv~G----------~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~ 87 (156)
..-....-|.++++=.+.+++.++....... ++.| +.++++.+++..+++++ |++...+...|.
T Consensus 101 ~Tein~~Gp~is~~~~~~~l~~~~~~l~~~d~VvlsGSlP~g~~~d~y~~li~~~~~~g~~vil---D~Sg~~L~~~L~- 176 (310)
T COG1105 101 ETEINFPGPEISEAELEQFLEQLKALLESDDIVVLSGSLPPGVPPDAYAELIRILRQQGAKVIL---DTSGEALLAALE- 176 (310)
T ss_pred EEEecCCCCCCCHHHHHHHHHHHHHhcccCCEEEEeCCCCCCCCHHHHHHHHHHHHhcCCeEEE---ECChHHHHHHHc-
Confidence 3344456677788777787787777554433 4445 56777777766555544 666655555553
Q ss_pred HhHhcCCCceeeCCHHHHHhhcCCcC
Q 031617 88 LCEESDIPYIYVASKEDLANAGATKR 113 (156)
Q Consensus 88 lc~~~nIP~i~v~sk~eLG~a~G~~~ 113 (156)
.+ |...-+++.||..++|.+.
T Consensus 177 ----~~-P~lIKPN~~EL~~~~g~~~ 197 (310)
T COG1105 177 ----AK-PWLIKPNREELEALFGREL 197 (310)
T ss_pred ----cC-CcEEecCHHHHHHHhCCCC
Confidence 23 9988899999999999863
No 52
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=70.41 E-value=38 Score=29.10 Aligned_cols=61 Identities=15% Similarity=0.202 Sum_probs=42.5
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
..+.|.+ ++-++|+-++-+..+ +.+|..+|++.+.|..++.+-.+|....-. +...|+|+-
T Consensus 203 a~~~La~-~vD~miVVGg~~SsN-T~kL~~i~~~~~~~t~~Ie~~~el~~~~l~--~~~~VGita 263 (298)
T PRK01045 203 AVKELAP-QADLVIVVGSKNSSN-SNRLREVAEEAGAPAYLIDDASEIDPEWFK--GVKTVGVTA 263 (298)
T ss_pred HHHHHHh-hCCEEEEECCCCCcc-HHHHHHHHHHHCCCEEEECChHHCcHHHhc--CCCEEEEEe
Confidence 3444433 466666555554434 889999999999999999999999863222 245788885
No 53
>PRK06553 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=70.29 E-value=28 Score=29.27 Aligned_cols=73 Identities=12% Similarity=0.056 Sum_probs=42.0
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhc--CCcc----ccHHHHHHHHHcCCccEEEEeCCCCch------------hHHh
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEH--KCLK----RGVKEVVKSIRRGHKGLCVIAGNISPI------------DVIT 83 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~ka--g~lv----~G~~~v~kaI~k~kakLVIIA~D~~p~------------~~~~ 83 (156)
+..++.|.-.+.+. .++...|.. +.++ .|.+++++++++|. .|.+..|-++. ....
T Consensus 159 ~~~vyr~~~n~~~d----~~i~~~R~~~g~~~i~~~~~~~r~l~r~Lk~g~--~v~il~DQ~~~~gv~v~FFG~~a~t~~ 232 (308)
T PRK06553 159 VTVLFRPPNNPYAA----RKVLEARRTTMGGLVPSGAGAAFALAGVLERGG--HVGMLVDQKFTRGVEVTFFGRPVKTNP 232 (308)
T ss_pred eEEEEecCCChHHH----HHHHHHHHHcCCCcccCCChHHHHHHHHHHcCC--eEEEEecccCCCCceeccCCCcCCCCc
Confidence 34467777554444 333333332 2444 46899999998885 77777777652 1222
Q ss_pred hHHHHhHhcCCCceeeC
Q 031617 84 HVPILCEESDIPYIYVA 100 (156)
Q Consensus 84 ~l~~lc~~~nIP~i~v~ 100 (156)
....++...|.|++.+.
T Consensus 233 ~~a~LA~~~~apVvp~~ 249 (308)
T PRK06553 233 LLAKLARQYDCPVHGAR 249 (308)
T ss_pred hHHHHHHHHCCCEEEEE
Confidence 33356666666666554
No 54
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=70.24 E-value=10 Score=32.96 Aligned_cols=55 Identities=20% Similarity=0.382 Sum_probs=44.4
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCCCch------------------hHHhhHHHHhHhcCCCceeeCC-HHHHHh
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNISPI------------------DVITHVPILCEESDIPYIYVAS-KEDLAN 107 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~~p~------------------~~~~~l~~lc~~~nIP~i~v~s-k~eLG~ 107 (156)
..+...++++|+++ ..+-|+|+|.+|. +|+..+...|++++|.++.-.. .+.|.+
T Consensus 8 ~s~~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~~P~~~~~~l~~ 81 (329)
T PF15632_consen 8 FSSQRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVFVPGRNRELLAA 81 (329)
T ss_pred CccHHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEEEcCccHHHHHH
Confidence 45778889999998 8899999998863 6899999999999999877764 444444
No 55
>PRK08419 lipid A biosynthesis lauroyl acyltransferase; Reviewed
Probab=69.63 E-value=30 Score=28.77 Aligned_cols=47 Identities=21% Similarity=0.216 Sum_probs=32.1
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhHHHHhHhcCCCceeeCC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l~~lc~~~nIP~i~v~s 101 (156)
.|.+++++++++|. .|.+..|-++. ....-...++.+.|.|++.+..
T Consensus 171 ~~~r~~l~~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~~~~g~a~LA~k~~apvvpv~~ 231 (298)
T PRK08419 171 GAMKELLKALKQGR--ALGILVDQNVVPKEGVEVKFFNKRVTHTTIASILARRYNALIIPVFI 231 (298)
T ss_pred cHHHHHHHHHHcCC--eEEEEecCCCCCCCCeEEecCCCCcccchhHHHHHHHHCCCEEEEEE
Confidence 36899999998886 55555554431 1233455788999999987765
No 56
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=68.92 E-value=14 Score=32.67 Aligned_cols=79 Identities=13% Similarity=0.135 Sum_probs=59.5
Q ss_pred HHHHHHh-cCCccccHHHHHHHHHcCCccEEEEeCCCCch------hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcC
Q 031617 41 LVRRAAE-HKCLKRGVKEVVKSIRRGHKGLCVIAGNISPI------DVITHVPILCEESDIPYIYVASKEDLANAGATKR 113 (156)
Q Consensus 41 lL~~A~k-ag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~------~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~ 113 (156)
++....+ .+.++.|.++|.+|++=|-+.-++|+...=.. .-...+....+..|=+++.+++-.+.|.-+-.-.
T Consensus 262 fl~~iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~~~~~~re~~~~ll~~ve~~ggkV~Ivs~~he~Ge~Lk~lG 341 (352)
T COG1537 262 FLERLAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRSDDVEEREDVEELLEEVESMGGKVVIVSTEHEPGERLKALG 341 (352)
T ss_pred HHHHHhcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcccchhhHHHHHHHHHHHHHcCCeEEEEecCCcchHHHHhcc
Confidence 4444344 67899999999999999999999988654322 4466788889999999999999999998654332
Q ss_pred ceEEEEEe
Q 031617 114 PTCCVLVL 121 (156)
Q Consensus 114 ~~svvaI~ 121 (156)
+ ++||+
T Consensus 342 G--iaaIL 347 (352)
T COG1537 342 G--IAAIL 347 (352)
T ss_pred C--eEEEE
Confidence 3 45555
No 57
>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=68.64 E-value=6.1 Score=30.29 Aligned_cols=49 Identities=22% Similarity=0.290 Sum_probs=32.7
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
.+++..++..-.+-++++..+-.+......+..+|...++|++.+-+|.
T Consensus 84 ~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~ 132 (188)
T PF00009_consen 84 IKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKM 132 (188)
T ss_dssp HHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETC
T ss_pred eecccceecccccceeeeecccccccccccccccccccccceEEeeeec
Confidence 4456666666666677777664444456666788999999987776554
No 58
>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=67.17 E-value=41 Score=28.57 Aligned_cols=63 Identities=10% Similarity=0.126 Sum_probs=41.6
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh-hcCCcCceEEEEEecC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN-AGATKRPTCCVLVLTK 123 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~-a~G~~~~~svvaI~d~ 123 (156)
++..+.|. +++-++|+-++-+..+ +.+|-.+|++++.|..++.+-.+|-. .+.- ...++|+.+
T Consensus 200 Q~a~~~La-~~vD~miVIGg~~SsN-T~kL~eia~~~~~~t~~Ie~~~el~~~~l~~---~~~VGItaG 263 (281)
T PF02401_consen 200 QEAARELA-KEVDAMIVIGGKNSSN-TRKLAEIAKEHGKPTYHIETADELDPEWLKG---VKKVGITAG 263 (281)
T ss_dssp HHHHHHHH-CCSSEEEEES-TT-HH-HHHHHHHHHHCTTCEEEESSGGG--HHHHTT----SEEEEEE-
T ss_pred HHHHHHHH-hhCCEEEEecCCCCcc-HHHHHHHHHHhCCCEEEeCCccccCHhHhCC---CCEEEEEcc
Confidence 33444443 4577777777766644 89999999999999999999999965 3332 336888863
No 59
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=66.25 E-value=20 Score=29.49 Aligned_cols=93 Identities=15% Similarity=0.247 Sum_probs=50.1
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhHHHHhHhcCCCceeeCC-HHHHHhhcCCcCceEEE
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHVPILCEESDIPYIYVAS-KEDLANAGATKRPTCCV 118 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l~~lc~~~nIP~i~v~s-k~eLG~a~G~~~~~svv 118 (156)
|..+++++|++|+ +|.+..|-.+. ....-...++.+.+.|++.+.. +..=| ... .+
T Consensus 180 ~~~~~~~~Lk~g~--~v~~l~Dq~~~~~~~~~v~FfG~~a~~~~g~a~lA~~~~apvvp~~~~r~~~~----~~~---~~ 250 (295)
T PF03279_consen 180 GIRELIRALKEGG--IVGLLGDQDPGKKDGVFVPFFGRPASTPTGPARLARKTGAPVVPVFAYREPDG----SHY---RI 250 (295)
T ss_pred hHHHHHHHhccCC--EEEEEECCCCCCCCceEEeECCeecccccHHHHHHHHhCCcEEEEEEEEeCCC----CEE---EE
Confidence 3678888888876 88888886542 1233455667777777766653 22222 001 11
Q ss_pred EEecCCCCCCcchHHHHhhHHHHHHHHHHHHhhhccCC
Q 031617 119 LVLTKPTKGELGQEEQDKLKADYTLVVEDVKELASSLF 156 (156)
Q Consensus 119 aI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~~~~~~~ 156 (156)
-|.. +.......+..+.-+...+.+.+.|.+-+.|.|
T Consensus 251 ~i~~-~~~~~~~~~~~~~~~~~~~~lE~~Ir~~P~QW~ 287 (295)
T PF03279_consen 251 EIEP-PLDFPSSEDIEELTQRYNDRLEEWIREHPEQWF 287 (295)
T ss_pred EEee-cccCCccchHHHHHHHHHHHHHHHHHcChHhhc
Confidence 2221 111111112333444555677788888777754
No 60
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=66.25 E-value=20 Score=29.05 Aligned_cols=57 Identities=14% Similarity=0.042 Sum_probs=40.6
Q ss_pred ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHH----HHhhcCCcCceEEEEEecCCCCC
Q 031617 67 KGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKED----LANAGATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 67 akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~e----LG~a~G~~~~~svvaI~d~~~~~ 127 (156)
+-|||+|.|- + .+-+.+...|++++||+..+.+... ++..+.+. + -.++|.++|.+-
T Consensus 73 ~~lviaAt~d-~-~ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~-~-l~iaIsT~G~sP 133 (210)
T COG1648 73 AFLVIAATDD-E-ELNERIAKAARERRILVNVVDDPELCDFIFPAIVDRG-P-LQIAISTGGKSP 133 (210)
T ss_pred ceEEEEeCCC-H-HHHHHHHHHHHHhCCceeccCCcccCceecceeeccC-C-eEEEEECCCCCh
Confidence 8999999995 5 3788999999999998865554332 23333332 4 568999888654
No 61
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=66.05 E-value=50 Score=29.29 Aligned_cols=62 Identities=18% Similarity=0.080 Sum_probs=47.2
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~ 127 (156)
..++.+++.|+....-...+..+|+..+||+..+.+..+|..++......-+|.|-+.|.+.
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDTaGr~~ 267 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDTIGKSP 267 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcCCCCCc
Confidence 46899999999765556679999999999998888888888866554455566676666554
No 62
>PRK07920 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=65.52 E-value=76 Score=26.44 Aligned_cols=74 Identities=14% Similarity=0.157 Sum_probs=45.4
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhcC-Ccc-------ccHHHHHHHHHcCCccEEEEeCCCCch-------------h
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEHK-CLK-------RGVKEVVKSIRRGHKGLCVIAGNISPI-------------D 80 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~kag-~lv-------~G~~~v~kaI~k~kakLVIIA~D~~p~-------------~ 80 (156)
+..++.|+-...+.+.+.+ ++. +.| .++ .|.+++++++++|. .|.+..|-++. .
T Consensus 134 ~~~vyr~~~n~~~~~~~~~-~R~--~~g~~~i~~~~~~~~~~r~ii~~Lk~g~--~v~il~Dq~~~~~g~~v~FFG~~a~ 208 (298)
T PRK07920 134 FTTVAERLKPESLYERFVA-YRE--SLGFEVLPLTGGERPPFEVLAERLRAGG--VVCLLADRDLTRSGVEVDFFGERTR 208 (298)
T ss_pred eEEEEeccCCHHHHHHHHH-HHH--hcCCEEEecCCCCchHHHHHHHHHHcCC--eEEEEeccCccCCCCEEeeCCCCCC
Confidence 3446778766666665554 222 122 233 37899999999886 56667676541 1
Q ss_pred HHhhHHHHhHhcCCCceeeC
Q 031617 81 VITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 81 ~~~~l~~lc~~~nIP~i~v~ 100 (156)
...-...++...+.|++.+.
T Consensus 209 t~~g~a~LA~~~~apVvp~~ 228 (298)
T PRK07920 209 MPAGPAALALETGAALLPVH 228 (298)
T ss_pred CCCCHHHHHHHHCCcEEEEE
Confidence 22334567778888887665
No 63
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=65.43 E-value=9.3 Score=26.85 Aligned_cols=42 Identities=19% Similarity=0.302 Sum_probs=28.8
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+++.......+..+||.++..|. ..+..+|++++||++.++
T Consensus 51 ~di~~~a~~~~i~~iIltg~~~~~---~~v~~la~~~~i~vi~t~ 92 (105)
T PF07085_consen 51 EDIQLAAIEAGIACIILTGGLEPS---EEVLELAKELGIPVISTP 92 (105)
T ss_dssp HHHHHHHCCTTECEEEEETT-------HHHHHHHHHHT-EEEE-S
T ss_pred HHHHHHHHHhCCCEEEEeCCCCCC---HHHHHHHHHCCCEEEEEC
Confidence 456666656669999999988774 577889999999999886
No 64
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=65.28 E-value=20 Score=30.30 Aligned_cols=48 Identities=17% Similarity=0.243 Sum_probs=37.8
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
-|..+..+.|+...+.+||=|+----..+.+.....|++.||||+.+.
T Consensus 53 l~~e~l~~~l~e~~i~llIDATHPyAa~iS~Na~~aake~gipy~r~e 100 (257)
T COG2099 53 LGAEGLAAFLREEGIDLLIDATHPYAARISQNAARAAKETGIPYLRLE 100 (257)
T ss_pred CCHHHHHHHHHHcCCCEEEECCChHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 467888899999999999965543233567778999999999997654
No 65
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=64.57 E-value=26 Score=26.01 Aligned_cols=66 Identities=6% Similarity=0.071 Sum_probs=40.8
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceee-CCHHHHHhhcCCcCceEEEEEecCC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v-~sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
..+++.+......+.++.|..|-++. .+..+.+++++|+..+ ....++.+.+|... .-...+.|+.
T Consensus 82 ~l~~~~~~~~~~~~~vi~i~~d~~~~----~~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~-~P~~~lid~~ 148 (173)
T PRK03147 82 YMNELYPKYKEKGVEIIAVNVDETEL----AVKNFVNRYGLTFPVAIDKGRQVIDAYGVGP-LPTTFLIDKD 148 (173)
T ss_pred HHHHHHHHhhcCCeEEEEEEcCCCHH----HHHHHHHHhCCCceEEECCcchHHHHcCCCC-cCeEEEECCC
Confidence 34445555555567888888775443 3445557888888554 35678888888753 3344555544
No 66
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=64.24 E-value=14 Score=26.15 Aligned_cols=46 Identities=20% Similarity=0.219 Sum_probs=33.5
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCc-hhHHhhHHHHhHhcCCCcee
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISP-IDVITHVPILCEESDIPYIY 98 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p-~~~~~~l~~lc~~~nIP~i~ 98 (156)
.|..++...|++|++.+||-..+-.. ..---.+.++|-++|||++.
T Consensus 54 ~~~~~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 54 EGRPNIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred CCchhHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 36678888899999999988655211 11134688999999999974
No 67
>PRK10637 cysG siroheme synthase; Provisional
Probab=64.07 E-value=13 Score=33.18 Aligned_cols=83 Identities=20% Similarity=0.084 Sum_probs=50.7
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh-cC--CcCceEEEEEecCCCCCCcc---hHHHHhhH-
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GA--TKRPTCCVLVLTKPTKGELG---QEEQDKLK- 138 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a-~G--~~~~~svvaI~d~~~~~~~~---~~~~~~~~- 138 (156)
.+.|||.|.|- + ++-..|...|++.+|++..+. ..+++.. +. .++.--.++|.++|.+-... .++++++-
T Consensus 72 ~~~lv~~at~d-~-~~n~~i~~~a~~~~~lvN~~d-~~~~~~f~~pa~~~~g~l~iaisT~G~sP~~a~~lr~~ie~~~~ 148 (457)
T PRK10637 72 TCWLAIAATDD-D-AVNQRVSEAAEARRIFCNVVD-APKAASFIMPSIIDRSPLMVAVSSGGTSPVLARLLREKLESLLP 148 (457)
T ss_pred CCEEEEECCCC-H-HHhHHHHHHHHHcCcEEEECC-CcccCeEEEeeEEecCCEEEEEECCCCCcHHHHHHHHHHHHhcc
Confidence 37899999885 4 477889999999999865544 4454441 11 12344578999888765332 33444433
Q ss_pred HHHHHHHHHHHhh
Q 031617 139 ADYTLVVEDVKEL 151 (156)
Q Consensus 139 ~~y~e~~~~i~~~ 151 (156)
..|+.+.+.+.++
T Consensus 149 ~~~~~~~~~~~~~ 161 (457)
T PRK10637 149 QHLGQVAKYAGQL 161 (457)
T ss_pred hhHHHHHHHHHHH
Confidence 3455554444443
No 68
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=63.88 E-value=9 Score=28.37 Aligned_cols=41 Identities=15% Similarity=0.247 Sum_probs=27.5
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+-+.+.=.+|++.+..|. ..+..+|++++||+....
T Consensus 72 ~~l~~l~~~~~P~iIvt~~~~~p---~~l~e~a~~~~ipll~t~ 112 (127)
T PF02603_consen 72 ERLEKLFSYNPPCIIVTRGLEPP---PELIELAEKYNIPLLRTP 112 (127)
T ss_dssp CHHHHHCTTT-S-EEEETTT------HHHHHHHHHCT--EEEES
T ss_pred HHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEcC
Confidence 45566667889999999999764 567889999999998765
No 69
>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.
Probab=62.30 E-value=13 Score=27.23 Aligned_cols=37 Identities=22% Similarity=0.148 Sum_probs=30.8
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
....+||.+.|. + .....+-.+|.+++||++..++..
T Consensus 88 ~~~diVi~~~d~-~-~~~~~l~~~~~~~~i~~i~~~~~g 124 (143)
T cd01483 88 DGVDLVIDAIDN-I-AVRRALNRACKELGIPVIDAGGLG 124 (143)
T ss_pred cCCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEcCCC
Confidence 468899999997 4 368889999999999999988643
No 70
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=62.18 E-value=53 Score=24.43 Aligned_cols=78 Identities=8% Similarity=0.073 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHhcC---CccccHHHHHHHHHc-------CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC----
Q 031617 35 SKRTLKLVRRAAEHK---CLKRGVKEVVKSIRR-------GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA---- 100 (156)
Q Consensus 35 ~~ki~~lL~~A~kag---~lv~G~~~v~kaI~k-------~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~---- 100 (156)
...+++.|...+..+ .+-.|++.+.+.+.+ +..+++||-.|-.+.+-........++.||.+..++
T Consensus 62 ~~~l~~~l~~~~~~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~ 141 (164)
T cd01482 62 KEDVLAAIKNLPYKGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDA 141 (164)
T ss_pred HHHHHHHHHhCcCCCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcC
Confidence 345556555544222 366667766665532 235677887898775333444555677788776554
Q ss_pred CHHHHHhhcCCc
Q 031617 101 SKEDLANAGATK 112 (156)
Q Consensus 101 sk~eLG~a~G~~ 112 (156)
++.+|.+..+.+
T Consensus 142 ~~~~L~~ia~~~ 153 (164)
T cd01482 142 DESELKMIASKP 153 (164)
T ss_pred CHHHHHHHhCCC
Confidence 366777776654
No 71
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=61.82 E-value=31 Score=31.09 Aligned_cols=32 Identities=13% Similarity=0.224 Sum_probs=28.8
Q ss_pred HhcCCccccHHHHHHHHHcCCccEEEEeCCCC
Q 031617 46 AEHKCLKRGVKEVVKSIRRGHKGLCVIAGNIS 77 (156)
Q Consensus 46 ~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~ 77 (156)
..+|..+.|..+|.+++.-|.+..+++..|-.
T Consensus 291 ~~~Gla~yG~~~vr~aL~~gaVd~llv~Edl~ 322 (411)
T COG1503 291 KDSGLAVYGEEEVREALEMGAVDTLLVSEDLE 322 (411)
T ss_pred cCcceeecchHHHHHHHHhcccceEEeecccc
Confidence 34577789999999999999999999999987
No 72
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=61.71 E-value=21 Score=31.45 Aligned_cols=55 Identities=13% Similarity=0.092 Sum_probs=45.2
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
.-+.++..+.+++..+.-|+||......+....+...|++++|++..+++-.++.
T Consensus 174 lg~~~~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~vP~~~e~~ 228 (445)
T TIGR03025 174 LGKLDDLVELVRAHRVDEVIIALPLSEEARILELLLQLRDLGVDVRLVPDLFEFL 228 (445)
T ss_pred cCCHHHHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 3345778888888999999999877665667889999999999999999877653
No 73
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=61.39 E-value=22 Score=29.25 Aligned_cols=88 Identities=11% Similarity=0.045 Sum_probs=46.8
Q ss_pred ccccHHHHHHHHHcC-CccEE-E-----E-eCCCCch-hHHhhHHHHhHhcCCCceeeCC--HH-------HHHhhcCCc
Q 031617 51 LKRGVKEVVKSIRRG-HKGLC-V-----I-AGNISPI-DVITHVPILCEESDIPYIYVAS--KE-------DLANAGATK 112 (156)
Q Consensus 51 lv~G~~~v~kaI~k~-kakLV-I-----I-A~D~~p~-~~~~~l~~lc~~~nIP~i~v~s--k~-------eLG~a~G~~ 112 (156)
++. .+.....+.+. ....+ + + ..+..|. .-+..|....++++|++++... .. +|.+-.|.+
T Consensus 156 ~v~-~H~af~Y~~~~yGl~~~~~~~~~~~~~~~~~ps~~~l~~l~~~ik~~~v~~if~e~~~~~k~~~~l~~la~~~~~~ 234 (264)
T cd01020 156 VAA-TEPVFDYLLDALGMKERTPKGYTATTESETEPSPADIAAFQNAIKNRQIDALIVNPQQASSATTNITGLAKRSGVP 234 (264)
T ss_pred EEE-eCchHHHHHHHCCCcccCHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCCCEEEeCCCCCcHHHHHHHHHHHHcCCC
Confidence 444 56677776553 12211 0 1 1244432 2366778888999999998742 22 234445543
Q ss_pred CceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 113 RPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 113 ~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
++.+.++... -+.|.+.+.+..+.|.+
T Consensus 235 ----v~~l~~~~~~-------~~~y~~~m~~n~~~i~~ 261 (264)
T cd01020 235 ----VVEVTETMPN-------GTTYLTWMLKQVDQLEK 261 (264)
T ss_pred ----EEeecCCCCC-------CCCHHHHHHHHHHHHHH
Confidence 3444222211 14677777777776654
No 74
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=60.39 E-value=15 Score=26.62 Aligned_cols=46 Identities=11% Similarity=0.083 Sum_probs=36.4
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+..++...+......+++++.++.- ....+...|..+|||+..++
T Consensus 37 ~~~~e~~~~~~~~~~DvIll~PQi~~--~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 37 ITATEGEKAIAAAEYDLYLVSPQTKM--YFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred ecHHHHHHhhccCCCCEEEEChHHHH--HHHHHHHHhhhcCCCEEEeC
Confidence 56666666555567899999999844 58889999999999987665
No 75
>TIGR02208 lipid_A_msbB lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase. This family consists of MsbB in E. coli and closely related proteins in other species. MsbB is homologous to HtrB (TIGR02207) and acts immediately after it in the biosynthesis of KDO-2 lipid A (also called Re LPS and Re endotoxin). These two enzymes act after creation of KDO-2 lipid IV-A by addition of the KDO sugars.
Probab=60.32 E-value=60 Score=27.18 Aligned_cols=74 Identities=14% Similarity=0.104 Sum_probs=43.4
Q ss_pred CcccCCCCChHHHHHHHHHHHHHHhcCCcc---ccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhH
Q 031617 23 APIAKPLAGKKLSKRTLKLVRRAAEHKCLK---RGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHV 85 (156)
Q Consensus 23 ~~~a~Pl~~~~l~~ki~~lL~~A~kag~lv---~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l 85 (156)
..+++|+-...+ ++++.-.+.... ..++ .|.++++++|++|. .|.+..|-++. ......
T Consensus 149 ~~v~r~~~n~~~-d~~~~~~R~~~g-~~~i~~~~~~r~i~~aLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~~~ 224 (305)
T TIGR02208 149 VTMFNNHKNPLF-DWLWNRVRSRFG-GHVYAREAGIKALLASLKRGE--SGYYLPDEDHGPEQSVFVPFFATYKATLPVV 224 (305)
T ss_pred eEEeeCCCCHHH-HHHHHHHHhcCC-CceecChhhHHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeccCCCcchhHHHH
Confidence 335677765555 333333332211 1233 48999999998886 67777777641 122334
Q ss_pred HHHhHhcCCCceeeC
Q 031617 86 PILCEESDIPYIYVA 100 (156)
Q Consensus 86 ~~lc~~~nIP~i~v~ 100 (156)
..++...|.|++.+.
T Consensus 225 a~LA~~~~apvv~~~ 239 (305)
T TIGR02208 225 GRLAKAGNAQVVPVF 239 (305)
T ss_pred HHHHHhcCCeEEEEE
Confidence 457777777776665
No 76
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=60.20 E-value=18 Score=28.87 Aligned_cols=85 Identities=16% Similarity=0.099 Sum_probs=50.8
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh-cC--CcCceEEEEEecCCCCCCc---chHHHHh-h
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GA--TKRPTCCVLVLTKPTKGEL---GQEEQDK-L 137 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a-~G--~~~~~svvaI~d~~~~~~~---~~~~~~~-~ 137 (156)
..+.+||.|.|- + ++-..+...| +.++++.. -+..++|.. +. .+++--.++|.++|.+-.. ..+++++ |
T Consensus 69 ~~adlViaaT~d-~-elN~~i~~~a-~~~~lvn~-~d~~~~~~f~~Pa~~~~g~l~iaIsT~G~sP~la~~lr~~ie~~~ 144 (202)
T PRK06718 69 VDAFLVIAATND-P-RVNEQVKEDL-PENALFNV-ITDAESGNVVFPSALHRGKLTISVSTDGASPKLAKKIRDELEALY 144 (202)
T ss_pred CCceEEEEcCCC-H-HHHHHHHHHH-HhCCcEEE-CCCCccCeEEEeeEEEcCCeEEEEECCCCChHHHHHHHHHHHHHc
Confidence 347888888885 4 3567788888 55787644 444455552 11 1234567999988876533 2444444 4
Q ss_pred HHHHHHHHHHHHhhhc
Q 031617 138 KADYTLVVEDVKELAS 153 (156)
Q Consensus 138 ~~~y~e~~~~i~~~~~ 153 (156)
-..|++.+..+.++..
T Consensus 145 ~~~~~~~~~~~~~~R~ 160 (202)
T PRK06718 145 DESYESYIDFLYECRQ 160 (202)
T ss_pred chhHHHHHHHHHHHHH
Confidence 4556666655555443
No 77
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=60.16 E-value=22 Score=31.31 Aligned_cols=56 Identities=20% Similarity=0.145 Sum_probs=45.9
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
+..+.++..+.+++..+.-|+||......+-...+...|++.++++..+++-.++.
T Consensus 176 Vlg~~~dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~vvP~~~e~~ 231 (451)
T TIGR03023 176 VLGKLDDLEELIREGEVDEVYIALPLAAEDRILELLDALEDLTVDVRLVPDLFDFA 231 (451)
T ss_pred ccCCHHHHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 33446778888999999999999877665667889999999999999999776654
No 78
>TIGR00160 MGSA methylglyoxal synthase. Methylglyoxal synthase (MGS) generates methylglyoxal (MG), a toxic metabolite (that may also be a regulatory metabolite and) that is detoxified, prinicipally, through a pathway involving glutathione and glyoxylase I. Totemeyer, et al. (MUID:98149311) propose that, during a loss of control over carbon flux, with accumulation of phosphorylated sugars and depletion of phosphate, as might happen during a rapid shift to a richer medium, MGS aids the cell by converting some dihydroxyacetone phosphate (DHAP) to MG and phosphate. This is therefore an alternative to triosephosphate isomerase and the remainder of the glycolytic pathway for the disposal of DHAP during the stress of a sudden increase in available sugars.
Probab=60.12 E-value=20 Score=27.77 Aligned_cols=58 Identities=21% Similarity=0.258 Sum_probs=43.8
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCC---Cc--hhHHhhHHHHhHhcCCCcee-eCCHHHHHhhcCC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNI---SP--IDVITHVPILCEESDIPYIY-VASKEDLANAGAT 111 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~---~p--~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a~G~ 111 (156)
-|..|.-..|..|++.+||.-.|- .| .+ ++.|.++|.-+|||+-. ..|-+-|=....+
T Consensus 60 GGDqQIga~Ia~g~id~vIFf~DPl~~~phepD-i~aLlRlc~v~nIP~AtN~aTA~~li~~~~~ 123 (143)
T TIGR00160 60 GGDQQIGALIAEGKIDAVIFFWDPLNAQPHEPD-VKALLRLCTVWNIPLATNVATADFLIKSPHF 123 (143)
T ss_pred cHHHHHHHHHHhCCCCEEEEecCCCCCCCCCcC-HHHHHHHHHhhCcccccCHHHHHHHHhCccc
Confidence 789999999999999999999993 11 24 77889999999999954 3455555444433
No 79
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). 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.
Probab=60.07 E-value=70 Score=27.20 Aligned_cols=55 Identities=16% Similarity=0.191 Sum_probs=40.6
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
+++-++|+-++-+..+ ..+|..+|++++.|..++.+..+|....-. +...|+|+-
T Consensus 207 ~~vD~miVVGg~nSsN-T~rL~ei~~~~~~~t~~Ie~~~el~~~~l~--~~~~VGiTA 261 (280)
T TIGR00216 207 PEVDLMIVIGGKNSSN-TTRLYEIAEEHGPPSYLIETAEELPEEWLK--GVKVVGITA 261 (280)
T ss_pred hhCCEEEEECCCCCch-HHHHHHHHHHhCCCEEEECChHHCCHHHhC--CCCEEEEEe
Confidence 3466666666655544 889999999999999999999999863222 234688885
No 80
>COG0803 LraI ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=58.77 E-value=26 Score=29.55 Aligned_cols=102 Identities=21% Similarity=0.218 Sum_probs=57.2
Q ss_pred cCCC--hhhhhhhhccCccc------CCCCChHHHHHHHHHHHHHHh------------c-CCccccHHHHHHHHHcC-C
Q 031617 9 RTPH--KDEKKKIVSLAPIA------KPLAGKKLSKRTLKLVRRAAE------------H-KCLKRGVKEVVKSIRRG-H 66 (156)
Q Consensus 9 ~~~~--~~~~~~~~~~~~~a------~Pl~~~~l~~ki~~lL~~A~k------------a-g~lv~G~~~v~kaI~k~-k 66 (156)
..|| -|-.+...++..|+ .|=-.+.++++.-.++++... . ++-+.=.+.....+.+. .
T Consensus 131 ~dpH~Wldp~na~~~v~~I~~~L~~~dP~~~~~y~~N~~~y~~kL~~l~~~~~~~~~~~~~~r~~vt~h~af~Y~~~~~g 210 (303)
T COG0803 131 NDPHVWLDPKNAKIYAENIADALVELDPENKETYEKNAEAYLKKLNKLDEEAKAKLSKIPAQRDVVTSHGAFGYLARDYG 210 (303)
T ss_pred CCCCeecCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcCcEEEeecchHHHHHhccC
Confidence 3455 45666666666663 555555555544444333221 1 23233334455566553 2
Q ss_pred ccEEEEe-----CCCCchhHHhhHHHHhHhcCCCceeeCC------HHHHHhhcCC
Q 031617 67 KGLCVIA-----GNISPIDVITHVPILCEESDIPYIYVAS------KEDLANAGAT 111 (156)
Q Consensus 67 akLVIIA-----~D~~p~~~~~~l~~lc~~~nIP~i~v~s------k~eLG~a~G~ 111 (156)
..-+.++ .+.+|. -+.++..+.++++|+++|+.+ .+.|-+-.|.
T Consensus 211 ~~~~~i~~~~~~~e~s~~-~l~~l~~~ik~~~i~~If~e~~~~~~~~~~la~e~g~ 265 (303)
T COG0803 211 LKQVAIAGISPEAEPSPK-DLAKLVDLIKKKNIKAIFVESNVSSKSAETLAKETGV 265 (303)
T ss_pred CccccccCcCcccCCCHH-HHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHhCC
Confidence 3333333 566676 488889999999999999863 2355555553
No 81
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=58.70 E-value=31 Score=30.99 Aligned_cols=66 Identities=20% Similarity=0.198 Sum_probs=55.7
Q ss_pred HcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCC
Q 031617 63 RRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 128 (156)
Q Consensus 63 ~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~ 128 (156)
..++-++=||.-|+-..-=.+.|..+|+-.|||++-+.+..+|-.++.--+.+=+|.|-.-|.++.
T Consensus 230 ~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~d~ILVDTaGrs~~ 295 (407)
T COG1419 230 LKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDCDVILVDTAGRSQY 295 (407)
T ss_pred hccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcCCEEEEeCCCCCcc
Confidence 567888999999997755577799999999999999999999999877655667888888887764
No 82
>PRK05906 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=58.59 E-value=53 Score=29.76 Aligned_cols=73 Identities=23% Similarity=0.377 Sum_probs=45.1
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhc-C-Ccc---ccHHHHHHHHHcCCccEEEEeCCCCch-------------hHHh
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEH-K-CLK---RGVKEVVKSIRRGHKGLCVIAGNISPI-------------DVIT 83 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~ka-g-~lv---~G~~~v~kaI~k~kakLVIIA~D~~p~-------------~~~~ 83 (156)
+..+++|+-.+.+. +++...|.. | .++ .|++++++++++|. .|.+..|-++. ....
T Consensus 165 ~~~vyRp~kNp~ld----~li~~~R~r~G~~lI~~~~giR~liraLk~G~--~vgiL~DQ~~~~~Gv~VpFFG~~a~T~t 238 (454)
T PRK05906 165 GLAFAKPIKNRRLN----KKIFSLRESFKGKIVPPKNGINQALRALHQGE--VVGIVGDQALLSSSYSYPLFGSQAFTTT 238 (454)
T ss_pred eEEEEecCCCHHHH----HHHHHHHHhcCCeeecCchHHHHHHHHHhcCC--EEEEEeCCCCCCCceEeCCCCCccchhh
Confidence 44567777444443 333333332 2 222 38899999999886 77777776652 2344
Q ss_pred hHHHHhHhcCCCceeeC
Q 031617 84 HVPILCEESDIPYIYVA 100 (156)
Q Consensus 84 ~l~~lc~~~nIP~i~v~ 100 (156)
-...++...|.|++.+.
T Consensus 239 gpA~LA~rtgApVVpv~ 255 (454)
T PRK05906 239 SPALLAYKTGKPVIAVA 255 (454)
T ss_pred HHHHHHHHhCCeEEEEE
Confidence 55677888888887765
No 83
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=58.20 E-value=75 Score=27.05 Aligned_cols=55 Identities=7% Similarity=0.111 Sum_probs=40.4
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
+++-++|+-++-+..+ ..+|..+|++.+.|..++.+-.+|-...-. +...|+|+.
T Consensus 208 ~~vD~miVVGg~~SsN-T~rL~eia~~~~~~t~~Ie~~~el~~~~~~--~~~~VGita 262 (281)
T PRK12360 208 KEVDVMIVIGGKHSSN-TQKLVKICEKNCPNTFHIETADELDLEMLK--DYKIIGITA 262 (281)
T ss_pred HhCCEEEEecCCCCcc-HHHHHHHHHHHCCCEEEECChHHCCHHHhC--CCCEEEEEc
Confidence 4466666666655434 889999999999999999999999753212 245788885
No 84
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=57.51 E-value=25 Score=30.34 Aligned_cols=75 Identities=16% Similarity=0.261 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHhcC-CccccHHHHHHHHHcCCccEEEEe-------CC-CCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 33 KLSKRTLKLVRRAAEHK-CLKRGVKEVVKSIRRGHKGLCVIA-------GN-ISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 33 ~l~~ki~~lL~~A~kag-~lv~G~~~v~kaI~k~kakLVIIA-------~D-~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
.+...|++.|+.-.+.+ .+..=..++...++.-.++++||= +. .....+...|..+|++.+||++.+++.+
T Consensus 111 ~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~ 190 (302)
T PF05621_consen 111 RFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTRE 190 (302)
T ss_pred HHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHH
Confidence 44577777777665443 355556677888888899999872 22 2234678889999999999999999998
Q ss_pred HHHh
Q 031617 104 DLAN 107 (156)
Q Consensus 104 eLG~ 107 (156)
.+-.
T Consensus 191 A~~a 194 (302)
T PF05621_consen 191 AYRA 194 (302)
T ss_pred HHHH
Confidence 7764
No 85
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=57.30 E-value=27 Score=24.57 Aligned_cols=46 Identities=17% Similarity=0.156 Sum_probs=32.1
Q ss_pred CCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc
Q 031617 49 KCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY 96 (156)
Q Consensus 49 g~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~ 96 (156)
+...-|..+.++.|++...+++|+.++.+.. ...+...-+..++++
T Consensus 13 ~~~ipga~e~l~~L~~~g~~~~~lTNns~~s--~~~~~~~L~~~Gi~~ 58 (101)
T PF13344_consen 13 NEPIPGAVEALDALRERGKPVVFLTNNSSRS--REEYAKKLKKLGIPV 58 (101)
T ss_dssp TEE-TTHHHHHHHHHHTTSEEEEEES-SSS---HHHHHHHHHHTTTT-
T ss_pred CCcCcCHHHHHHHHHHcCCCEEEEeCCCCCC--HHHHHHHHHhcCcCC
Confidence 4578899999999999999999999998653 222233336788876
No 86
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=56.56 E-value=10 Score=32.86 Aligned_cols=45 Identities=16% Similarity=0.023 Sum_probs=28.3
Q ss_pred HcCCccEEEEeCCCC--chhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 63 RRGHKGLCVIAGNIS--PIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 63 ~k~kakLVIIA~D~~--p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
++....-||++-|++ +..+=.....+|.++|||+..|+|+.+=-.
T Consensus 216 eR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k 262 (320)
T KOG2486|consen 216 ERENLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQK 262 (320)
T ss_pred hhhhhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhh
Confidence 333444455555544 332334468999999999999987655443
No 87
>cd07984 LPLAT_LABLAT-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lipid A biosynthesis lauroyl/myristoyl (LABLAT, HtrB) acyltransferases and similar proteins.
Probab=55.83 E-value=86 Score=23.57 Aligned_cols=47 Identities=17% Similarity=0.325 Sum_probs=32.5
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhHHHHhHhcCCCceeeCC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l~~lc~~~nIP~i~v~s 101 (156)
.+.+++.+.+++|+ .|+|..|-... .+..-...++...|+|++.+..
T Consensus 78 ~~~~~~~~~l~~g~--~v~i~pD~~~~~~~~~~~~F~G~~~~~~~G~~~lA~~~~~pivp~~~ 138 (192)
T cd07984 78 GGLRELIRALKKGE--IVGILPDQDPGRKGGVFVPFFGRPAATPTGPARLALKTGAPVVPAFA 138 (192)
T ss_pred chHHHHHHHHhCCC--EEEEEeCCCCCCCCCEEeccCCCCccchHHHHHHHHHHCCcEEEEEE
Confidence 46889999998886 44555554431 1245567889999999987753
No 88
>PRK08943 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated
Probab=55.76 E-value=1e+02 Score=25.94 Aligned_cols=76 Identities=14% Similarity=0.126 Sum_probs=44.5
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhcCCcc---ccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhh
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEHKCLK---RGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITH 84 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~kag~lv---~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~ 84 (156)
+..+++|+-...+ ++++.-.+.... ..++ .|.+++++++++|. .|.+..|-++. .....
T Consensus 157 ~~~vyr~~~n~~~-d~~~~~~R~~~g-~~~i~~~~~~r~i~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~g 232 (314)
T PRK08943 157 MAAMFHNQRNPLF-DWLWNRVRRRFG-GRLHAREDGIKPFISSVRQGY--WGYYLPDEDHGPEHSVFVDFFATYKATLPG 232 (314)
T ss_pred ccEEEeCCCCHHH-HHHHHHHHhhcC-CeeecCchhHHHHHHHHhCCC--eEEEeCCCCCCCCCCEEeCCCCCchhHhHH
Confidence 3446778755555 444444433221 1232 26889999998885 77777776641 12333
Q ss_pred HHHHhHhcCCCceeeCC
Q 031617 85 VPILCEESDIPYIYVAS 101 (156)
Q Consensus 85 l~~lc~~~nIP~i~v~s 101 (156)
...++...|.|++.+..
T Consensus 233 ~a~LA~k~~apvvp~~~ 249 (314)
T PRK08943 233 IGRLAKVCRARVVPLFP 249 (314)
T ss_pred HHHHHHHhCCeEEEEEE
Confidence 44677777777766653
No 89
>PRK00865 glutamate racemase; Provisional
Probab=55.57 E-value=45 Score=27.47 Aligned_cols=41 Identities=29% Similarity=0.307 Sum_probs=28.4
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..+.+.+..+.+++||+|..+.. .+..+-+..+||++-+.
T Consensus 58 ~~~~~L~~~g~d~iVIaCNTa~~~---~l~~lr~~~~iPvigi~ 98 (261)
T PRK00865 58 EIVEFLLEYGVKMLVIACNTASAV---ALPDLRERYDIPVVGIV 98 (261)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHH---HHHHHHHhCCCCEEeeH
Confidence 455566677899999999985521 22344466799998854
No 90
>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=54.23 E-value=19 Score=28.99 Aligned_cols=50 Identities=24% Similarity=0.238 Sum_probs=30.9
Q ss_pred HHHHHHHHc--CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 56 KEVVKSIRR--GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 56 ~~v~kaI~k--~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
+.+..++.. -..-++++..+-.+......+..++...++|++.+-+|.++
T Consensus 99 ~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~ 150 (224)
T cd04165 99 KTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDL 150 (224)
T ss_pred HHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 344555542 23445555554444445566778899999999887766654
No 91
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=53.79 E-value=31 Score=28.61 Aligned_cols=47 Identities=17% Similarity=0.326 Sum_probs=38.3
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
|..+....|+++++.+||=|+=---..+.+.+...|++.||||+.+.
T Consensus 53 ~~~~l~~~l~~~~i~~VIDATHPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 53 GAEGLAAYLREEGIDLVIDATHPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred CHHHHHHHHHHCCCCEEEECCCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 66788888899999999966544445678889999999999998765
No 92
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=53.35 E-value=1.2e+02 Score=26.27 Aligned_cols=58 Identities=10% Similarity=0.130 Sum_probs=44.9
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK 126 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~ 126 (156)
.++.++|+=++.+..+ ..+|..+|++++.|-..+.+-.+|....-. ....++|+. |.|
T Consensus 211 ~~~Dl~iVVG~~nSSN-s~rL~eiA~~~g~~aylId~~~ei~~~w~~--~~~~VGvTA-GAS 268 (294)
T COG0761 211 PEVDLVIVVGSKNSSN-SNRLAEIAKRHGKPAYLIDDAEEIDPEWLK--GVKTVGVTA-GAS 268 (294)
T ss_pred hcCCEEEEECCCCCcc-HHHHHHHHHHhCCCeEEeCChHhCCHHHhc--CccEEEEec-CCC
Confidence 4488888888887754 888999999999999999999999883322 245789985 443
No 93
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=52.77 E-value=86 Score=29.45 Aligned_cols=55 Identities=11% Similarity=0.138 Sum_probs=40.7
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
+++-++|+-++-+..+ +.+|..+|++.+.|..++.+..+|-...-. ....|+|+.
T Consensus 205 ~~~d~~~vvGg~~SsN-t~~L~~i~~~~~~~~~~ie~~~el~~~~~~--~~~~vgita 259 (647)
T PRK00087 205 KKVDVMIVVGGKNSSN-TTKLYEICKSNCTNTIHIENAGELPEEWFK--GVKIIGVTA 259 (647)
T ss_pred hhCCEEEEECCCCCcc-HHHHHHHHHHHCCCEEEECChHHCCHHHhC--CCCEEEEEe
Confidence 4566666666665544 899999999999999999999999763212 234688885
No 94
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=52.76 E-value=97 Score=27.64 Aligned_cols=64 Identities=20% Similarity=0.200 Sum_probs=45.3
Q ss_pred cCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCC
Q 031617 64 RGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 64 k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~ 127 (156)
++..+..+|..|.........+..+++..++|+..+.+..+|..++..-...-.|.|-++|.+.
T Consensus 249 ~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~DlVlIDt~G~~~ 312 (424)
T PRK05703 249 YGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCDVILIDTAGRSQ 312 (424)
T ss_pred cCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCCEEEEeCCCCCC
Confidence 4557888998887543345668888999999998888888887766543345566666666544
No 95
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=52.40 E-value=48 Score=22.89 Aligned_cols=67 Identities=15% Similarity=0.197 Sum_probs=45.5
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCcC-----ceEEEEEecCCC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATKR-----PTCCVLVLTKPT 125 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~~-----~~svvaI~d~~~ 125 (156)
..++..+.++...+.++.|..|-.. .+..+.+++++|+-.+. ...++.+..|... ..-.+.|.|+.+
T Consensus 47 ~l~~~~~~~~~~~~~vi~is~d~~~-----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~p~~~lid~~g 119 (124)
T PF00578_consen 47 ELNELYKKYKDKGVQVIGISTDDPE-----EIKQFLEEYGLPFPVLSDPDGELAKAFGIEDEKDTLALPAVFLIDPDG 119 (124)
T ss_dssp HHHHHHHHHHTTTEEEEEEESSSHH-----HHHHHHHHHTCSSEEEEETTSHHHHHTTCEETTTSEESEEEEEEETTS
T ss_pred HHHHHhhhhccceEEeeeccccccc-----chhhhhhhhccccccccCcchHHHHHcCCccccCCceEeEEEEECCCC
Confidence 3455556667777899999987522 44667788888886665 4678999888862 344566666543
No 96
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=52.22 E-value=1.8e+02 Score=26.57 Aligned_cols=64 Identities=14% Similarity=0.064 Sum_probs=46.4
Q ss_pred cCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCc---CceEEEEEecCCCCC
Q 031617 64 RGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATK---RPTCCVLVLTKPTKG 127 (156)
Q Consensus 64 k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~---~~~svvaI~d~~~~~ 127 (156)
+...++.+++.|.....-...+..+++..++|++...+-.+|..++..- ...-++.|-.+|.+.
T Consensus 267 ~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~ 333 (436)
T PRK11889 267 GKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNY 333 (436)
T ss_pred HcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccC
Confidence 3345788999998765567888899999999998888888888776321 123467776666654
No 97
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=51.56 E-value=39 Score=26.99 Aligned_cols=46 Identities=20% Similarity=0.242 Sum_probs=30.3
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCch--hHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPI--DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.+++.+.+.++.+||+++|.... .....+..+.+..++|+.++.
T Consensus 21 l~~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v~ 68 (239)
T TIGR03729 21 LETLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFNA 68 (239)
T ss_pred HHHHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEEC
Confidence 3456666767779999999998651 123344445554678887774
No 98
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=51.36 E-value=42 Score=21.98 Aligned_cols=40 Identities=18% Similarity=0.174 Sum_probs=27.1
Q ss_pred HHHHHHcCC--ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 58 VVKSIRRGH--KGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 58 v~kaI~k~k--akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++|++-+ -.|.|++.|- . ....|+.+|++.|-.++.+.
T Consensus 16 ~kkal~~l~~G~~l~V~~d~~--~-a~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 16 LKKEIDKLQDGEQLEVKASDP--G-FARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEECCc--c-HHHHHHHHHHHcCCEEEEEE
Confidence 445555433 2477777764 2 47899999999998876544
No 99
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=51.36 E-value=70 Score=31.08 Aligned_cols=65 Identities=20% Similarity=0.156 Sum_probs=49.5
Q ss_pred cCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCC
Q 031617 64 RGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 128 (156)
Q Consensus 64 k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~ 128 (156)
+|..++.+++.|.......+.+..+++..+||+..+.+..+|-.++..-...-+|.|-.+|.++.
T Consensus 213 ~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~VLIDTAGRs~~ 277 (767)
T PRK14723 213 EGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHLVLIDTVGMSQR 277 (767)
T ss_pred cCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCEEEEeCCCCCcc
Confidence 34457889999987655678899999999999988888888877765444455777777776554
No 100
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=51.34 E-value=27 Score=30.14 Aligned_cols=45 Identities=18% Similarity=0.335 Sum_probs=30.2
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCch---------hHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPI---------DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~---------~~~~~l~~lc~~~nIP~i~v~ 100 (156)
..++++.++..++-+||+|+|+-.. .+.+.|..+|. -+||++.+.
T Consensus 29 f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~-~~Ipv~~I~ 82 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKD-AGIPVVVIA 82 (390)
T ss_pred HHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhcc-CCCcEEEec
Confidence 3456667777888999999998642 23344444443 789997774
No 101
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=51.27 E-value=33 Score=30.63 Aligned_cols=51 Identities=12% Similarity=0.232 Sum_probs=42.8
Q ss_pred hcCCccccHHHHHHHHHcCCccEEEEeCCCCc------hhHHhhHHHHhHhcCCCce
Q 031617 47 EHKCLKRGVKEVVKSIRRGHKGLCVIAGNISP------IDVITHVPILCEESDIPYI 97 (156)
Q Consensus 47 kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p------~~~~~~l~~lc~~~nIP~i 97 (156)
..++...-..+..+++..+.+++.|+++==+| .+-...|..+|++|||.+|
T Consensus 139 ~~~~y~iD~~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 139 DDGRYEIDFDALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred cCCcEEecHHHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 45777788899999999999999999876665 3567889999999999765
No 102
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=50.95 E-value=68 Score=28.36 Aligned_cols=63 Identities=21% Similarity=0.139 Sum_probs=45.3
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~ 127 (156)
|..++.++..|.....-.+.+..+++..++|+..+.+..+|..++..-...-++.|-+.|.++
T Consensus 166 G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~DlVLIDTaG~~~ 228 (374)
T PRK14722 166 GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKHMVLIDTIGMSQ 228 (374)
T ss_pred CCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCCEEEEcCCCCCc
Confidence 446788888888643457788999999999999888877776655432334567777766654
No 103
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=50.74 E-value=32 Score=27.32 Aligned_cols=45 Identities=18% Similarity=0.242 Sum_probs=36.3
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
-+...|++-+=-|+|+..++-..++.+++..+.++.|||++..++
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~ 71 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATAS 71 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecch
Confidence 344566777777999999998447999999999999999977653
No 104
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=50.51 E-value=95 Score=28.23 Aligned_cols=94 Identities=15% Similarity=0.165 Sum_probs=59.0
Q ss_pred HHHHHHHHcCCccEEEEeCCCCch-hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCcchHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPI-DVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQ 134 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~-~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~ 134 (156)
.++.+.|+...+.-|||.+.|.-= .-..-+..--++.+||++.+.+-......+|-+|-+-.++|--|-++-....++.
T Consensus 326 ~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~i~~~~pI~~~vGanRiv~~~~i~~PlGnp~l~~~~e 405 (431)
T TIGR01917 326 KEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHICTVTPIALTVGANRIIPAIAIPHPLGDPALDAAEE 405 (431)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeechhHHHhcCCCceecCCCCCCCCCCCCCChhHH
Confidence 456777788889999999887421 0122223333689999999999999999999987555566655544443222222
Q ss_pred HhhHHHHHHHHHHHHhh
Q 031617 135 DKLKADYTLVVEDVKEL 151 (156)
Q Consensus 135 ~~~~~~y~e~~~~i~~~ 151 (156)
..+| +.-+.++++.|
T Consensus 406 ~~~r--r~~v~~AL~aL 420 (431)
T TIGR01917 406 KALR--RKIVEKALKAL 420 (431)
T ss_pred HHHH--HHHHHHHHHHh
Confidence 2233 34444455544
No 105
>KOG4201 consensus Anthranilate synthase component II [Amino acid transport and metabolism]
Probab=50.44 E-value=32 Score=28.92 Aligned_cols=71 Identities=13% Similarity=0.203 Sum_probs=53.5
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCC-CceeeCCHHHHHhhcCCcCceEEEEEecCC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDI-PYIYVASKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nI-P~i~v~sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
++.---|+..+-.+|-=-+++|+.=.+.. .++.+...|+..|. |.+-|.+.+|++++++. ++-+++|.+..
T Consensus 145 Fivd~~QI~~aR~~GADaVLLIvamLs~~-~lk~l~k~~K~L~me~LVEVn~~eEm~ralei--GakvvGvNNRn 216 (289)
T KOG4201|consen 145 FIVDPYQIYEARLKGADAVLLIVAMLSDL-LLKELYKISKDLGMEPLVEVNDEEEMQRALEI--GAKVVGVNNRN 216 (289)
T ss_pred HccCHHHHHHHHhcCCceeehHHHHcChH-HHHHHHHHHHHcCCcceeeeccHHHHHHHHHh--CcEEEeecCCc
Confidence 55556677777777765555566655554 57888899999887 88999999999999887 57788886543
No 106
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=50.28 E-value=34 Score=24.89 Aligned_cols=42 Identities=19% Similarity=0.355 Sum_probs=30.1
Q ss_pred HcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 63 RRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 63 ~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
++|-+.|+|--..--+ .+-..+..+|+++++|++.++....+
T Consensus 70 ~~~~agL~i~~~~~~~-~iP~~~i~~A~~~~lPli~ip~~~~f 111 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLD-EIPEEIIELADELGLPLIEIPWEVPF 111 (123)
T ss_pred HCCCeEEEEeccCccc-cCCHHHHHHHHHcCCCEEEeCCCCCH
Confidence 3456777775553434 47788999999999999998864433
No 107
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=50.13 E-value=63 Score=27.42 Aligned_cols=44 Identities=20% Similarity=0.214 Sum_probs=36.5
Q ss_pred cEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC--HHHHHhhcCCc
Q 031617 68 GLCVIAGNISPIDVITHVPILCEESDIPYIYVAS--KEDLANAGATK 112 (156)
Q Consensus 68 kLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s--k~eLG~a~G~~ 112 (156)
.-+|+..=++| ++...+...|+.+|||++.+.. -..|...+|.+
T Consensus 59 ~~iV~~Tlv~~-elr~~l~~~~~~~~i~~vdll~p~i~~le~~lg~~ 104 (269)
T PRK05339 59 RPIVFYTLVDP-ELREILEERCAEFGIPCIDILGPLIAPLEQELGLK 104 (269)
T ss_pred CCEEEEeCCCH-HHHHHHHHHHHHcCCCEEeccHHHHHHHHHHHCcC
Confidence 34677778888 5999999999999999998864 66888888876
No 108
>cd01143 YvrC Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=49.90 E-value=1.1e+02 Score=22.92 Aligned_cols=51 Identities=12% Similarity=0.177 Sum_probs=32.6
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC----------HHHHHhhcCCc
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS----------KEDLANAGATK 112 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s----------k~eLG~a~G~~ 112 (156)
--...|.+-+.-|||......+ . +....++.+||++.+.. -..||+++|+.
T Consensus 51 ~n~E~l~~l~PDlii~~~~~~~-~----~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~lg~~~g~~ 111 (195)
T cd01143 51 PNVEKIVALKPDLVIVSSSSLA-E----LLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAE 111 (195)
T ss_pred CCHHHHhccCCCEEEEcCCcCH-H----HHHHHHHcCCcEEEeCCCCCHHHHHHHHHHHHHHhCCh
Confidence 3456677778889887654332 2 33444789999876642 22688888864
No 109
>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=48.72 E-value=30 Score=25.26 Aligned_cols=50 Identities=12% Similarity=0.137 Sum_probs=23.0
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhc--CCCceeeCCHHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEES--DIPYIYVASKEDL 105 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~--nIP~i~v~sk~eL 105 (156)
+++.++|+.-.+-++++.....+...-..+..+..+. +.|++.+.+|.+|
T Consensus 3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL 54 (141)
T cd01857 3 RQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADL 54 (141)
T ss_pred HHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhc
Confidence 4556666555544444433221111112333333333 6677666666655
No 110
>PRK08706 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=48.59 E-value=1.5e+02 Score=24.38 Aligned_cols=75 Identities=15% Similarity=0.187 Sum_probs=43.2
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhc-C--Cc---cccHHHHHHHHHcCCccEEEEeCCCCch--------------hH
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEH-K--CL---KRGVKEVVKSIRRGHKGLCVIAGNISPI--------------DV 81 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~ka-g--~l---v~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~ 81 (156)
...++.|+-...+. +++...|.. | .+ -.|.++++++++++..-++++ .|-++. ..
T Consensus 131 ~~~i~r~~~n~~~d----~~~~~~R~~~g~~~i~~~~~~~r~i~k~L~k~~~~v~~l-~Dq~~~~~~gv~v~FfG~~a~t 205 (289)
T PRK08706 131 LISMYSHQKNKILD----EQILKGRNRYHNVFLIGRTEGLRALVKQFRKSSAPFLYL-PDQDFGRNDSVFVDFFGIQTAT 205 (289)
T ss_pred CcEEeeCCCCHHHH----HHHHHHHhccCCcccccChhhHHHHHHHHHhCCceEEEe-CCCCCCCCCCEEeccCCccchh
Confidence 44556676555444 344444443 2 22 238899999996555333444 666541 23
Q ss_pred HhhHHHHhHhcCCCceeeCC
Q 031617 82 ITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 82 ~~~l~~lc~~~nIP~i~v~s 101 (156)
..-...++...|.|++.+..
T Consensus 206 ~~g~a~LA~~~~apvvp~~~ 225 (289)
T PRK08706 206 ITGLSRIAALANAKVIPAIP 225 (289)
T ss_pred hhHHHHHHHhcCCeEEEEEE
Confidence 33455777888888877653
No 111
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=48.54 E-value=63 Score=27.39 Aligned_cols=70 Identities=6% Similarity=0.003 Sum_probs=40.2
Q ss_pred CchhHHhhHHHHhHhcCCCceeeCC--HHHHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 77 SPIDVITHVPILCEESDIPYIYVAS--KEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 77 ~p~~~~~~l~~lc~~~nIP~i~v~s--k~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
+|. -+..+..+.++++|+++|+.. .....+.+....++.+ +.+|+-..... ..-..|.+.++..+..|.+
T Consensus 237 s~~-~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v-~~ldpl~~~~~--~~~~~Y~~~m~~n~~~l~~ 308 (311)
T PRK09545 237 GAQ-RLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRM-GTLDPLGTNIK--LGKDSYSEFLSQLANQYAS 308 (311)
T ss_pred CHH-HHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeE-EEecccccccc--CCHhHHHHHHHHHHHHHHH
Confidence 344 466788899999999999863 3344444333333333 33454432211 1125777777777766654
No 112
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=48.22 E-value=77 Score=26.41 Aligned_cols=47 Identities=15% Similarity=0.241 Sum_probs=32.9
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGAT 111 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~ 111 (156)
|..+..+|..|.........+..+++..++|+..+.+..+|..++..
T Consensus 223 g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~ 269 (282)
T TIGR03499 223 GNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDR 269 (282)
T ss_pred CCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHH
Confidence 44677888888644334566777888888888777777777776544
No 113
>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=48.05 E-value=58 Score=25.08 Aligned_cols=71 Identities=6% Similarity=0.044 Sum_probs=49.0
Q ss_pred CCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh----hcCCcC-ceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHH
Q 031617 74 GNISPIDVITHVPILCEESDIPYIYVASKEDLAN----AGATKR-PTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDV 148 (156)
Q Consensus 74 ~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~----a~G~~~-~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i 148 (156)
..++..++...+...|++.+.++.+++++.+... .+.... ...+++..++... .+..+++++.|
T Consensus 29 ~rv~g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~-----------~~~~~~i~~~I 97 (172)
T PF03808_consen 29 ERVTGSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFD-----------EEEEEAIINRI 97 (172)
T ss_pred cccCHHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCC-----------hhhHHHHHHHH
Confidence 5566668899999999999999999987665544 233333 4666777766542 22467788888
Q ss_pred HhhhccC
Q 031617 149 KELASSL 155 (156)
Q Consensus 149 ~~~~~~~ 155 (156)
++..|++
T Consensus 98 ~~~~pdi 104 (172)
T PF03808_consen 98 NASGPDI 104 (172)
T ss_pred HHcCCCE
Confidence 8777664
No 114
>cd01147 HemV-2 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=48.00 E-value=1.3e+02 Score=23.62 Aligned_cols=76 Identities=14% Similarity=0.118 Sum_probs=46.2
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH----------HHHHhhcCCcCceEEEEEecCCCC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK----------EDLANAGATKRPTCCVLVLTKPTK 126 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk----------~eLG~a~G~~~~~svvaI~d~~~~ 126 (156)
--...|..-+.-|||......+. ..+..+.+..+||++.+... ..||+++|+..
T Consensus 65 ~n~E~i~~l~PDLIi~~~~~~~~---~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~~------------- 128 (262)
T cd01147 65 PNYEKIAALKPDVVIDVGSDDPT---SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKEE------------- 128 (262)
T ss_pred CCHHHHHhcCCCEEEEecCCccc---hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCHH-------------
Confidence 45566777788999887554331 12334445588998877642 36777877641
Q ss_pred CCcchHHHHhhHHHHHHHHHHHHh
Q 031617 127 GELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 127 ~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
.+++....|++.++++.+.+++
T Consensus 129 --~a~~~~~~~~~~~~~i~~~~~~ 150 (262)
T cd01147 129 --RAEELISFIESILADVEERTKD 150 (262)
T ss_pred --HHHHHHHHHHHHHHHHHHHhhc
Confidence 1234555666666666666654
No 115
>PF04705 TSNR_N: Thiostrepton-resistance methylase, N terminus; InterPro: IPR006795 This region is found in some members of the SpoU-type rRNA methylase family (IPR001537 from INTERPRO).; GO: 0008649 rRNA methyltransferase activity, 0046677 response to antibiotic; PDB: 3GYQ_B 3NK6_A 3NK7_A.
Probab=47.72 E-value=18 Score=26.70 Aligned_cols=84 Identities=19% Similarity=0.213 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHhcCC--ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcC
Q 031617 36 KRTLKLVRRAAEHKC--LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKR 113 (156)
Q Consensus 36 ~ki~~lL~~A~kag~--lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~ 113 (156)
++|.++-+-.|-+=+ |+.-..-.+.+|+.|-=-+=+-+.|.+| +--.|.++|++++||+-.+... -.-+++.-++
T Consensus 16 qRIiDvtk~sRs~ikT~LIED~EPL~~~i~AGvefieVYg~~~~p--~~~~ll~~c~~r~Ipvrlv~~~-v~N~lFk~er 92 (115)
T PF04705_consen 16 QRIIDVTKHSRSNIKTTLIEDPEPLTHSIRAGVEFIEVYGSDGSP--VPPELLAACRQRGIPVRLVDSA-VVNQLFKGER 92 (115)
T ss_dssp HHHHHHHCTSTTTTTEEEEESHHHHHHHHCTT-EEEEEEEETTS-----CCCCHHHHCTT--EEEE-HH-HHCCCS-SSS
T ss_pred HHHHhhcccchhhheeeeecCchHHHHHHhcCcEEEEEeeecCCC--CChHHHHHHHhcCCceEEecHH-HHHHHHhccc
Confidence 456666555443332 7888999999998885445567889888 4677889999999999766532 2223333344
Q ss_pred ceEEEEEec
Q 031617 114 PTCCVLVLT 122 (156)
Q Consensus 114 ~~svvaI~d 122 (156)
+.-+.+|--
T Consensus 93 K~k~fGiAr 101 (115)
T PF04705_consen 93 KPKVFGIAR 101 (115)
T ss_dssp --SEEEEEE
T ss_pred ccceeeeec
Confidence 555666643
No 116
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=47.57 E-value=40 Score=27.95 Aligned_cols=47 Identities=15% Similarity=0.224 Sum_probs=37.9
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
|..+....|+.+.+.+||=|+=---..+.+.....|++.||||+.+.
T Consensus 54 ~~~~l~~~l~~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~e 100 (249)
T PF02571_consen 54 DEEGLAEFLRENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRFE 100 (249)
T ss_pred CHHHHHHHHHhCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEEE
Confidence 67788888899999999966543334677889999999999998775
No 117
>PF01497 Peripla_BP_2: Periplasmic binding protein; InterPro: IPR002491 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Most bacterial importers employ a periplasmic substrate-binding protein (PBP) that delivers the ligand to the extracellular gate of the TM domains. These proteins bind their substrates selectively and with high affinity, which is thought to ensure the specificity of the transport reaction. Binding proteins in Gram-negative bacteria are present within the periplasm, whereas those in Gram-positive bacteria are tethered to the cell membrane via the acylation of a cysteine residue that is an integral component of a lipoprotein signal sequence. In planta expression of a high-affinity iron-uptake system involving the siderophore chrysobactin in Erwinia chrysanthemi 3937 contributes greatly to invasive growth of this pathogen on its natural host, African violets []. The cobalamin (vitamin B12) and the iron transport systems share many common attributes and probably evolved from the same origin [, ]. The periplasmic-binding domain is composed of two subdomains, each consisting of a central beta-sheet and surrounding alpha-helices, linked by a rigid alpha-helix. The substrate binding site is located in a cleft between the two alpha/beta subdomains [].; GO: 0005488 binding; PDB: 2X4L_A 1N4A_B 1N2Z_B 1N4D_B 4DBL_J 2QI9_F 3EIW_A 3EIX_A 3MWG_A 3MWF_A ....
Probab=47.40 E-value=1e+02 Score=23.72 Aligned_cols=73 Identities=14% Similarity=0.142 Sum_probs=45.1
Q ss_pred HHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH----------HHHHhhcCCcCceEEEEEecCCCCCCc
Q 031617 60 KSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK----------EDLANAGATKRPTCCVLVLTKPTKGEL 129 (156)
Q Consensus 60 kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk----------~eLG~a~G~~~~~svvaI~d~~~~~~~ 129 (156)
..|..-+.-|||......+......+ .+.+||++.+... ..||.++|+.. +
T Consensus 54 E~i~~l~PDlIi~~~~~~~~~~~~~~----~~~~ip~~~~~~~~~~~~~~~~i~~lg~~~g~~~---------------~ 114 (238)
T PF01497_consen 54 EAILALKPDLIIGSSFYGQSEEIEKL----LEAGIPVVVFDSSSPFDDWKEQIRQLGKALGKED---------------Q 114 (238)
T ss_dssp HHHHHT--SEEEEETTSSCHHHHHHH----HHTTSEEEEESSTTCSHHHHHHHHHHHHHHTSHH---------------H
T ss_pred HHHHhCCCCEEEEeccccchHHHHHH----hcccceEEEeecccchHHHHHHHHHHHHhcccHH---------------H
Confidence 45566678899988887222233333 4789999988764 36888888751 1
Q ss_pred chHHHHhhHHHHHHHHHHHHhh
Q 031617 130 GQEEQDKLKADYTLVVEDVKEL 151 (156)
Q Consensus 130 ~~~~~~~~~~~y~e~~~~i~~~ 151 (156)
+++.+..|++.++++.+.+...
T Consensus 115 a~~~~~~~~~~~~~~~~~~~~~ 136 (238)
T PF01497_consen 115 AEALIAEYDARLDEIRKRLAKI 136 (238)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhhcc
Confidence 2345556666666666665554
No 118
>PF00391 PEP-utilizers: PEP-utilising enzyme, mobile domain; InterPro: IPR008279 A number of enzymes that catalyze the transfer of a phosphoryl group from phosphoenolpyruvate (PEP) via a phospho-histidine intermediate have been shown to be structurally related [, , , ]. All these enzymes share the same catalytic mechanism: they bind PEP and transfer the phosphoryl group from it to a histidine residue. This domain is a "swivelling" beta/beta/alpha domain which is thought to be mobile in all proteins known to contain it []. It is often found associated with the pyruvate phosphate dikinase, PEP/pyruvate-binding domain (IPR002192 from INTERPRO) at its N terminus.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016310 phosphorylation; PDB: 2X0S_A 2OLS_A 2HRO_A 2E28_A 2WQD_A 3T05_D 3T0T_D 3T07_B 2DIK_A 2FM4_A ....
Probab=47.36 E-value=39 Score=22.72 Aligned_cols=35 Identities=31% Similarity=0.556 Sum_probs=22.5
Q ss_pred CccEEEEeCCCCchhH-----------------HhhHHHHhHhcCCCceeeC
Q 031617 66 HKGLCVIAGNISPIDV-----------------ITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 66 kakLVIIA~D~~p~~~-----------------~~~l~~lc~~~nIP~i~v~ 100 (156)
....++++.+.+|.++ ..|.--+|++.+||++.-.
T Consensus 9 ~~~~IlV~~~~~p~~~~~~~~~~~Giv~~~Gg~~SH~aIlAr~~giP~ivg~ 60 (80)
T PF00391_consen 9 PEGVILVAEELTPSDLALDLQRVAGIVTEEGGPTSHAAILARELGIPAIVGV 60 (80)
T ss_dssp TSTEEEEESS--TTCHHSHHTTSSEEEESSSSTTSHHHHHHHHTT-EEEEST
T ss_pred CCCEEEEECCCCHHHHhcchhheEEEEEEcCCccchHHHHHHHcCCCEEEee
Confidence 3456677777766533 3688889999999987654
No 119
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=47.34 E-value=56 Score=28.23 Aligned_cols=52 Identities=10% Similarity=0.125 Sum_probs=39.1
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGA 110 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G 110 (156)
++.++.+-+.+.-.+|++.+..|. ..+...|++++||++... ....++..+.
T Consensus 72 ~~~~~~~~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ip~l~t~~~~~~~~~~l~ 124 (304)
T TIGR00679 72 KQIIHNLLTLNPPAIILSKSFTDP---TVLLQVNETYQVPILKTDLFSTELSFRLE 124 (304)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEeCCcHHHHHHHHH
Confidence 345666677888999999999875 466788999999998765 4556666443
No 120
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=46.90 E-value=1.5e+02 Score=24.19 Aligned_cols=50 Identities=6% Similarity=0.108 Sum_probs=33.0
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC---------HHHHHhhcCCc
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS---------KEDLANAGATK 112 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s---------k~eLG~a~G~~ 112 (156)
-...|..-+.-|||......+ +..+.| ++.+||++++.. -..||+++|+.
T Consensus 83 n~E~I~al~PDlIi~~~~~~~-~~~~~l----~~~gi~v~~~~~~~~~~~~~~i~~lg~~~G~~ 141 (289)
T TIGR03659 83 DMEKIKSLKPTVVLSVTTLEE-DLGPKF----KQLGVEATFLNLTSVDGMKKSITELGEKYGRE 141 (289)
T ss_pred CHHHHhccCCcEEEEcCcccH-HHHHHH----HHcCCcEEEEcCCCHHHHHHHHHHHHHHhCCH
Confidence 355666777889987665544 345555 467899876632 34688888875
No 121
>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=46.82 E-value=42 Score=23.89 Aligned_cols=42 Identities=14% Similarity=0.086 Sum_probs=28.3
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
..+.++|+--|.+..+....+...+.+.++|++.+.+|.+|-
T Consensus 73 ~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~ 114 (158)
T cd01879 73 EKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDEA 114 (158)
T ss_pred CCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhhc
Confidence 456677766676653323344445667899999999998873
No 122
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=46.07 E-value=1.2e+02 Score=27.56 Aligned_cols=95 Identities=17% Similarity=0.193 Sum_probs=60.0
Q ss_pred HHHHHHHHcCCccEEEEeCCCCch-hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCcchHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPI-DVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQ 134 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~-~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~ 134 (156)
.+..+.|+...+.-|||.+.|.-= .-..-+..--++.+||++.+.+-......+|-+|-+-.++|--|-++-....++.
T Consensus 326 ~eIa~~Lk~dgVDAVILTstCgtC~r~~a~m~keiE~~GiPvv~~~~~~pis~tvGanrivp~~~ip~PlGnp~l~~~~e 405 (431)
T TIGR01918 326 KEFVVELKQGGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHMCTVIPIALTVGANRIVPTIAIPHPLGDPALSKAEE 405 (431)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeecccHhhhcCccceecccCcCCCCCCCCCCHHHH
Confidence 455667777889999999887421 0112222333689999999999889999999887666677765554444323333
Q ss_pred HhhHHHHHHHHHHHHhhh
Q 031617 135 DKLKADYTLVVEDVKELA 152 (156)
Q Consensus 135 ~~~~~~y~e~~~~i~~~~ 152 (156)
..++ +.-+.++++.|.
T Consensus 406 ~~~R--r~~v~~AL~aL~ 421 (431)
T TIGR01918 406 KKLR--RKRVEKALKALE 421 (431)
T ss_pred HHHH--HHHHHHHHHHhc
Confidence 3333 344455555543
No 123
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=45.99 E-value=49 Score=25.27 Aligned_cols=71 Identities=14% Similarity=0.142 Sum_probs=39.7
Q ss_pred cccCCCCChHHHHHHHHHHHHHHhcCC----------------ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHH
Q 031617 24 PIAKPLAGKKLSKRTLKLVRRAAEHKC----------------LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPI 87 (156)
Q Consensus 24 ~~a~Pl~~~~l~~ki~~lL~~A~kag~----------------lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~ 87 (156)
....|+.++-+-..+..+.+..+...+ .-.|...+.....+.. +.++..+|. ++++.+.
T Consensus 40 ~~~~~~Ip~~Vi~EL~~l~~~~~~~~r~~ia~~~~er~~~~~~~~~aDe~i~~~a~~~~-~~iVaTnD~---eLk~rlr- 114 (136)
T COG1412 40 AKYKPAIPSCVIRELEKLKRKHRGKARIAIALKYAERLECIHKGRYADECLLEAALKHG-RYIVATNDK---ELKRRLR- 114 (136)
T ss_pred ccccccchHHHHHHHHHHHHhcCchHHHHHHHHHhhccCccccCCChHHHHHHHHHHcC-CEEEEeCCH---HHHHHHH-
Confidence 335888888887777776664222222 1223333444443333 444444443 4666664
Q ss_pred HhHhcCCCceeeCCH
Q 031617 88 LCEESDIPYIYVASK 102 (156)
Q Consensus 88 lc~~~nIP~i~v~sk 102 (156)
+.|||++++..+
T Consensus 115 ---~~GIPvi~lr~r 126 (136)
T COG1412 115 ---ENGIPVITLRQR 126 (136)
T ss_pred ---HcCCCEEEEeCC
Confidence 669999998643
No 124
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=45.89 E-value=51 Score=29.61 Aligned_cols=73 Identities=8% Similarity=0.046 Sum_probs=52.4
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh---cCCcCceEEEEEecCCC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA---GATKRPTCCVLVLTKPT 125 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a---~G~~~~~svvaI~d~~~ 125 (156)
.+.++..+.+++.++.-||||-.....+-...+...|++.++++..+++-.++.-. ...-.+..++.+.+.+.
T Consensus 190 G~~~dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~~v~V~ivP~l~~~~~~~~~~~~~~~~p~~~~~~~~~ 265 (463)
T PRK10124 190 GNLQQLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADTTCSVLLIPDVFTFNILHSRLEEMNGVPVVPLYDTPL 265 (463)
T ss_pred CCHHHHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHcCCeEEEecchhhccccccchhhcCCeeEEEEecccc
Confidence 34577888889999999999988776667888999999999999999876544311 11111345667765543
No 125
>PLN02591 tryptophan synthase
Probab=45.66 E-value=1.4e+02 Score=24.79 Aligned_cols=87 Identities=15% Similarity=0.314 Sum_probs=56.9
Q ss_pred CcccCCCCChHHH--------------HHHHHHHHHHHhcCC------------ccccHHHHHHHHHcCCccEEEEeCCC
Q 031617 23 APIAKPLAGKKLS--------------KRTLKLVRRAAEHKC------------LKRGVKEVVKSIRRGHKGLCVIAGNI 76 (156)
Q Consensus 23 ~~~a~Pl~~~~l~--------------~ki~~lL~~A~kag~------------lv~G~~~v~kaI~k~kakLVIIA~D~ 76 (156)
.|+..|+++..+= +.++++++..|+.-. +..|...-.+...+--+.=|||. |.
T Consensus 37 iPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~~~~~~~r~~~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~Gviip-DL 115 (250)
T PLN02591 37 VPYSDPLADGPVIQAAATRALEKGTTLDSVISMLKEVAPQLSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVP-DL 115 (250)
T ss_pred CCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeC-CC
Confidence 5888899886441 256777777664311 23377777777766656666666 77
Q ss_pred CchhHHhhHHHHhHhcCCCceee--CC--HHHHHhhcCC
Q 031617 77 SPIDVITHVPILCEESDIPYIYV--AS--KEDLANAGAT 111 (156)
Q Consensus 77 ~p~~~~~~l~~lc~~~nIP~i~v--~s--k~eLG~a~G~ 111 (156)
.+ +-...+...|+++++..+++ ++ .+.+-++...
T Consensus 116 P~-ee~~~~~~~~~~~gl~~I~lv~Ptt~~~ri~~ia~~ 153 (250)
T PLN02591 116 PL-EETEALRAEAAKNGIELVLLTTPTTPTERMKAIAEA 153 (250)
T ss_pred CH-HHHHHHHHHHHHcCCeEEEEeCCCCCHHHHHHHHHh
Confidence 55 45777889999999987664 33 3345555444
No 126
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=45.59 E-value=37 Score=27.83 Aligned_cols=38 Identities=18% Similarity=0.210 Sum_probs=30.1
Q ss_pred HHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 61 SIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+...+..+||.|-|..+ ...+|..+|.+++||++...
T Consensus 97 ~l~~~~~D~VvdaiD~~~--~k~~L~~~c~~~~ip~I~s~ 134 (231)
T cd00755 97 DLLGGDPDFVVDAIDSIR--AKVALIAYCRKRKIPVISSM 134 (231)
T ss_pred HHhcCCCCEEEEcCCCHH--HHHHHHHHHHHhCCCEEEEe
Confidence 344456889999999644 46789999999999999874
No 127
>cd01485 E1-1_like Ubiquitin activating enzyme (E1), repeat 1-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homol
Probab=45.22 E-value=11 Score=29.77 Aligned_cols=39 Identities=18% Similarity=0.271 Sum_probs=29.7
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
+..+||.+.|. + .....+-.+|.+++||++...+..-.|
T Consensus 113 ~~dvVi~~~d~-~-~~~~~ln~~c~~~~ip~i~~~~~G~~G 151 (198)
T cd01485 113 KFTLVIATEEN-Y-ERTAKVNDVCRKHHIPFISCATYGLIG 151 (198)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEeecCEE
Confidence 46788877664 4 467889999999999999987644433
No 128
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=45.09 E-value=15 Score=26.81 Aligned_cols=46 Identities=11% Similarity=0.159 Sum_probs=33.5
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
++++...|.+.+-=++++...+.-......+..++++.++|++...
T Consensus 1 i~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 1 IDEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEG
T ss_pred CHHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecC
Confidence 3567778877776677777766533468889999999999997765
No 129
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=45.06 E-value=1.8e+02 Score=24.18 Aligned_cols=88 Identities=17% Similarity=0.310 Sum_probs=58.1
Q ss_pred CcccCCCCChHHH--------------HHHHHHHHHHHhcC-C------------ccccHHHHHHHHHcCCccEEEEeCC
Q 031617 23 APIAKPLAGKKLS--------------KRTLKLVRRAAEHK-C------------LKRGVKEVVKSIRRGHKGLCVIAGN 75 (156)
Q Consensus 23 ~~~a~Pl~~~~l~--------------~ki~~lL~~A~kag-~------------lv~G~~~v~kaI~k~kakLVIIA~D 75 (156)
.|+..|+++..+= +.++++++..++.. . +..|.....+.+.+-.+.=||| .|
T Consensus 47 iPfSDP~aDGpvIq~a~~~AL~~G~~~~~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGvii-pD 125 (258)
T PRK13111 47 IPFSDPVADGPVIQAASLRALAAGVTLADVFELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLII-PD 125 (258)
T ss_pred CCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEE-CC
Confidence 5888898887542 24677777777221 1 2237777777777766666666 58
Q ss_pred CCchhHHhhHHHHhHhcCCCcee-e-CC--HHHHHhhcCCc
Q 031617 76 ISPIDVITHVPILCEESDIPYIY-V-AS--KEDLANAGATK 112 (156)
Q Consensus 76 ~~p~~~~~~l~~lc~~~nIP~i~-v-~s--k~eLG~a~G~~ 112 (156)
..+. -...+...|+++++..++ + ++ .+++.......
T Consensus 126 Lp~e-e~~~~~~~~~~~gl~~I~lvap~t~~eri~~i~~~s 165 (258)
T PRK13111 126 LPPE-EAEELRAAAKKHGLDLIFLVAPTTTDERLKKIASHA 165 (258)
T ss_pred CCHH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhC
Confidence 8664 577888999999998877 3 22 35566554443
No 130
>PRK05645 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=45.00 E-value=1.1e+02 Score=25.24 Aligned_cols=45 Identities=20% Similarity=0.344 Sum_probs=30.7
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhHHHHhHhcCCCceeeC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l~~lc~~~nIP~i~v~ 100 (156)
|.+++++++++|. +|.+..|-++. ....-.+.++...++|++.+.
T Consensus 171 ~~r~l~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~~~~~la~~~~~pvv~~~ 229 (295)
T PRK05645 171 GILSVIKEVRKGG--QVGIPADPEPAESAGIFVPFLGTQALTSKFVPNMLAGGKAVGVFLH 229 (295)
T ss_pred cHHHHHHHHhcCC--eEEEcCCCCCCCCCCeEeCCCCCchhhhhHHHHHHHhhCCeEEEEE
Confidence 8999999998885 77777777642 111224466667777777665
No 131
>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=44.94 E-value=34 Score=24.76 Aligned_cols=39 Identities=15% Similarity=0.282 Sum_probs=23.6
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY 96 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~ 96 (156)
.+.+.+..++.++.|||+.... | +..-+.+..++.+||+
T Consensus 51 ~~~l~~~a~~~~idlvvvGPE~-p--L~~Gl~D~l~~~gi~v 89 (100)
T PF02844_consen 51 PEELADFAKENKIDLVVVGPEA-P--LVAGLADALRAAGIPV 89 (100)
T ss_dssp HHHHHHHHHHTTESEEEESSHH-H--HHTTHHHHHHHTT-CE
T ss_pred HHHHHHHHHHcCCCEEEECChH-H--HHHHHHHHHHHCCCcE
Confidence 3455555666667777776654 3 4666666666777664
No 132
>cd01822 Lysophospholipase_L1_like Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity.
Probab=44.90 E-value=51 Score=24.15 Aligned_cols=49 Identities=12% Similarity=0.274 Sum_probs=32.6
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCc-------hhHHhhHHHHhHhcCCCceee
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISP-------IDVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p-------~~~~~~l~~lc~~~nIP~i~v 99 (156)
+..++.+.++.+++..++++++..-..| ..+...+..+|++++++++-.
T Consensus 86 ~~~~l~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d~ 141 (177)
T cd01822 86 TRANLRQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVPF 141 (177)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEech
Confidence 4445566777777777888877532222 135567888999999988754
No 133
>cd00757 ThiF_MoeB_HesA_family ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1).
Probab=44.81 E-value=27 Score=28.05 Aligned_cols=35 Identities=11% Similarity=-0.042 Sum_probs=29.2
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
...+||.|.|- +. ....+-.+|.+++||+++.+..
T Consensus 111 ~~DvVi~~~d~-~~-~r~~l~~~~~~~~ip~i~~g~~ 145 (228)
T cd00757 111 GYDLVLDCTDN-FA-TRYLINDACVKLGKPLVSGAVL 145 (228)
T ss_pred CCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEEec
Confidence 48899999994 53 5778999999999999998754
No 134
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=44.15 E-value=1e+02 Score=23.13 Aligned_cols=69 Identities=13% Similarity=0.191 Sum_probs=47.6
Q ss_pred CccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc--eeeCC------H--HHHHhhcCCcCceEEEE
Q 031617 50 CLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY--IYVAS------K--EDLANAGATKRPTCCVL 119 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~--i~v~s------k--~eLG~a~G~~~~~svva 119 (156)
.+.-|..++++.+++..+++.++.+|-.. .. ...+++.+|+= ++... + ..+=+.++.+.. -|++
T Consensus 127 ~~~~~~~~~l~~L~~~Gi~~~i~TGD~~~--~a---~~~~~~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~~~~-~v~~ 200 (215)
T PF00702_consen 127 PLRPGAKEALQELKEAGIKVAILTGDNES--TA---SAIAKQLGIFDSIVFARVIGKPEPKIFLRIIKELQVKPG-EVAM 200 (215)
T ss_dssp EBHTTHHHHHHHHHHTTEEEEEEESSEHH--HH---HHHHHHTTSCSEEEEESHETTTHHHHHHHHHHHHTCTGG-GEEE
T ss_pred cchhhhhhhhhhhhccCcceeeeeccccc--cc---cccccccccccccccccccccccchhHHHHHHHHhcCCC-EEEE
Confidence 46679999999999988999999999633 23 44567888843 23222 3 566667775433 5788
Q ss_pred EecCC
Q 031617 120 VLTKP 124 (156)
Q Consensus 120 I~d~~ 124 (156)
|-|+.
T Consensus 201 vGDg~ 205 (215)
T PF00702_consen 201 VGDGV 205 (215)
T ss_dssp EESSG
T ss_pred EccCH
Confidence 88755
No 135
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=44.04 E-value=41 Score=25.27 Aligned_cols=45 Identities=22% Similarity=0.318 Sum_probs=30.4
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..|+.+..+.+++....|+++.+|. ...|+.+|++.+|--++..
T Consensus 51 l~~sL~~L~~~L~~~g~~L~v~~g~~-----~~~l~~l~~~~~~~~V~~~ 95 (165)
T PF00875_consen 51 LLESLADLQESLRKLGIPLLVLRGDP-----EEVLPELAKEYGATAVYFN 95 (165)
T ss_dssp HHHHHHHHHHHHHHTTS-EEEEESSH-----HHHHHHHHHHHTESEEEEE
T ss_pred HHHHHHHHHHHHHhcCcceEEEecch-----HHHHHHHHHhcCcCeeEec
Confidence 45667777777777777888887772 3456677777777766653
No 136
>PF00899 ThiF: ThiF family; InterPro: IPR000594 Ubiquitin-activating enzyme (E1 enzyme) [, ] activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin- conjugating enzymes (E2). The family of ubiquitin-activating enzymes shares in its catalytic domain significant similarity with a large family of NAD/FAD-binding proteins. This domain is based on the common NAD/FAD-binding fold and finds members of several families, including UBA ubiquitin activating enzymes; the hesA/moeB/thiF family; NADH peroxidases; the LDH family; sarcosin oxidase; phytoene dehydrogenases; alanine dehydrogenases; hydroxyacyl-CoA dehydrogenases and many other NAD/FAD dependent dehydrogenases and oxidases.; GO: 0003824 catalytic activity; PDB: 1ZKM_D 1ZUD_3 1ZFN_D 1R4M_G 2NVU_A 1R4N_C 3DBR_A 3DBH_C 3DBL_G 1YOV_A ....
Probab=44.03 E-value=22 Score=25.86 Aligned_cols=35 Identities=14% Similarity=0.203 Sum_probs=27.3
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
....+||.+.|- . .....+-.+|.++++|+++...
T Consensus 91 ~~~d~vi~~~d~-~-~~~~~l~~~~~~~~~p~i~~~~ 125 (135)
T PF00899_consen 91 KDYDIVIDCVDS-L-AARLLLNEICREYGIPFIDAGV 125 (135)
T ss_dssp HTSSEEEEESSS-H-HHHHHHHHHHHHTT-EEEEEEE
T ss_pred cCCCEEEEecCC-H-HHHHHHHHHHHHcCCCEEEEEe
Confidence 356799999986 4 3577889999999999998763
No 137
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=43.75 E-value=43 Score=27.87 Aligned_cols=47 Identities=21% Similarity=0.350 Sum_probs=36.9
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..+....|+..++.+||=|.=---..+.......|++.+|||+.+.
T Consensus 53 ~~~~l~~~l~~~~i~~VIDAtHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 53 DPQELREFLKRHSIDILVDATHPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred CHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 44566678888889999977654444678889999999999998764
No 138
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=43.70 E-value=1.2e+02 Score=21.74 Aligned_cols=50 Identities=12% Similarity=0.136 Sum_probs=36.0
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCc
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATK 112 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~ 112 (156)
..+....+.+.++.|..|-++. +..+++++++++.++. ...++..++|..
T Consensus 54 l~~~~~~~~v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 104 (146)
T PF08534_consen 54 LQEKYKDKGVDVVGVSSDDDPP-----VREFLKKYGINFPVLSDPDGALAKALGVT 104 (146)
T ss_dssp HHHHHHTTTCEEEEEEESSSHH-----HHHHHHHTTTTSEEEEETTSHHHHHTTCE
T ss_pred hhhhhccCceEEEEecccCCHH-----HHHHHHhhCCCceEEechHHHHHHHhCCc
Confidence 3334455668899998887774 5566677888887765 567899998865
No 139
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=43.28 E-value=32 Score=24.18 Aligned_cols=45 Identities=7% Similarity=0.159 Sum_probs=35.0
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
..++.++...+ ...-+|+++..+.. ....+...++.+|||+..++
T Consensus 38 a~~~~~~~~~~--~~~Dvill~pqi~~--~~~~i~~~~~~~~ipv~~I~ 82 (95)
T TIGR00853 38 AGSYGAAGEKL--DDADVVLLAPQVAY--MLPDLKKETDKKGIPVEVIN 82 (95)
T ss_pred EecHHHHHhhc--CCCCEEEECchHHH--HHHHHHHHhhhcCCCEEEeC
Confidence 44666655544 45789999999854 58889999999999998875
No 140
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=42.62 E-value=71 Score=25.86 Aligned_cols=65 Identities=22% Similarity=0.269 Sum_probs=43.8
Q ss_pred ccHHHHHHHHHc----CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCC
Q 031617 53 RGVKEVVKSIRR----GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 53 ~G~~~v~kaI~k----~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
.|..+...+++. -.+..+++|+-.--..+++.+..+-++++||++... .+|.-..++=+.++||-
T Consensus 124 VGEE~laEAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~VISL~-------M~GSVpdVADlVvtDPv 192 (218)
T COG1707 124 VGEEELAEAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPVISLN-------MFGSVPDVADLVVTDPV 192 (218)
T ss_pred cChHHHHHHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeEEEec-------cCCCCcchhheeecCch
Confidence 455554444432 468899999988776789999999999999998753 23332234455555543
No 141
>cd01141 TroA_d Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=42.12 E-value=1.5e+02 Score=22.29 Aligned_cols=39 Identities=23% Similarity=0.278 Sum_probs=24.7
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
-...|.+-+.-|||......+. .+...-++.+||++++.
T Consensus 61 n~E~ll~l~PDlii~~~~~~~~----~~~~~l~~~gIpvv~i~ 99 (186)
T cd01141 61 NVELIVALKPDLVILYGGFQAQ----TILDKLEQLGIPVLYVN 99 (186)
T ss_pred CHHHHhccCCCEEEEecCCCch----hHHHHHHHcCCCEEEeC
Confidence 3456666788898875433221 13334478999998875
No 142
>PRK05646 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=41.67 E-value=2.1e+02 Score=23.93 Aligned_cols=47 Identities=15% Similarity=0.105 Sum_probs=32.3
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhHHHHhHhcCCCceeeCC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l~~lc~~~nIP~i~v~s 101 (156)
.|.+++++++++|. +|.+..|-++. ........++...|.|++.+..
T Consensus 181 ~~~r~ilk~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~g~a~LA~~~~apvvp~~~ 241 (310)
T PRK05646 181 EDVRGMLKLLRAGR--AIWYAPDQDYGAKQSIFVPLFGIPAATVTATTKFARLGRARVIPFTQ 241 (310)
T ss_pred hhHHHHHHHHhCCC--eEEEeCCCCCCCCCCEEecCCCCcchhhhHHHHHHHhhCCcEEEEEE
Confidence 47889999998875 77777775531 2333445777888888877663
No 143
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=41.53 E-value=44 Score=30.22 Aligned_cols=104 Identities=18% Similarity=0.239 Sum_probs=68.1
Q ss_pred HHHHHHHHHHHhcCCc---cccHHHHHHHH--------HcCCccEEEEeCCCCch-------------------------
Q 031617 36 KRTLKLVRRAAEHKCL---KRGVKEVVKSI--------RRGHKGLCVIAGNISPI------------------------- 79 (156)
Q Consensus 36 ~ki~~lL~~A~kag~l---v~G~~~v~kaI--------~k~kakLVIIA~D~~p~------------------------- 79 (156)
+++-+.++..+-+|++ --|...+..+. |++--+|||++.|+...
T Consensus 188 ~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~ 267 (423)
T smart00187 188 DEFNEEVKKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNGE 267 (423)
T ss_pred HHHHHHHhhceeecCCcCCcccHHHHHHHHhhccccccCCCceEEEEEEcCCCccccCCcceeeEecCCCCcceeCCCCC
Confidence 4555566666666653 34666666665 44556899999998642
Q ss_pred -------h--HHhhHHHHhHhcCCCceeeCCH------HHHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHH
Q 031617 80 -------D--VITHVPILCEESDIPYIYVASK------EDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLV 144 (156)
Q Consensus 80 -------~--~~~~l~~lc~~~nIP~i~v~sk------~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~ 144 (156)
+ .+.+|...-.++||-.||.-++ ++|...+. -+.++++..+.+. ..+-.++.|+++
T Consensus 268 Yt~s~~~DYPSi~ql~~kL~e~nI~~IFAVT~~~~~~Y~~Ls~lip----gs~vg~Ls~DSsN-----Iv~LI~~aY~~i 338 (423)
T smart00187 268 YTMSTTQDYPSIGQLNQKLAENNINPIFAVTKKQVSLYKELSALIP----GSSVGVLSEDSSN-----VVELIKDAYNKI 338 (423)
T ss_pred cCccCcCCCCCHHHHHHHHHhcCceEEEEEcccchhHHHHHHHhcC----cceeeecccCcch-----HHHHHHHHHHhh
Confidence 0 3556677778999988886443 46666664 4578888655443 356667888887
Q ss_pred HHHH
Q 031617 145 VEDV 148 (156)
Q Consensus 145 ~~~i 148 (156)
.+.|
T Consensus 339 ~S~V 342 (423)
T smart00187 339 SSRV 342 (423)
T ss_pred ceEE
Confidence 7654
No 144
>TIGR02342 chap_CCT_delta T-complex protein 1, delta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT delta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=41.15 E-value=58 Score=29.54 Aligned_cols=49 Identities=16% Similarity=0.123 Sum_probs=28.8
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKED 104 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~e 104 (156)
...++.|.+..+.+||++.++++..+-.....++.++||-++.-.++.+
T Consensus 263 ~~~v~~i~~~g~~lvi~~~~I~~~~l~~l~~~~l~~~~I~av~~v~~~~ 311 (517)
T TIGR02342 263 LNIVKKIKKTGCNVLLIQKSILRDAVNDLALHFLAKMKIMVVKDIEREE 311 (517)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHhhCCceEEecCCHHH
Confidence 4455556666678888888875432223334455667776666555443
No 145
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=41.14 E-value=37 Score=23.80 Aligned_cols=32 Identities=16% Similarity=0.074 Sum_probs=24.6
Q ss_pred ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 67 KGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 67 akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.|||+|.|- + .+-..+...|++++||+..+.
T Consensus 61 ~~lV~~at~d-~-~~n~~i~~~a~~~~i~vn~~D 92 (103)
T PF13241_consen 61 ADLVFAATDD-P-ELNEAIYADARARGILVNVVD 92 (103)
T ss_dssp ESEEEE-SS--H-HHHHHHHHHHHHTTSEEEETT
T ss_pred heEEEecCCC-H-HHHHHHHHHHhhCCEEEEECC
Confidence 7799999885 4 477889999999999886654
No 146
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=41.12 E-value=63 Score=26.74 Aligned_cols=69 Identities=12% Similarity=0.052 Sum_probs=45.6
Q ss_pred CCCchhHHhhHHHHhHhcCCCceeeCCHHH----HHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 75 NISPIDVITHVPILCEESDIPYIYVASKED----LANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 75 D~~p~~~~~~l~~lc~~~nIP~i~v~sk~e----LG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
-++-.++...+...|.+++.++.+++++.+ +.+.+....+.-+++..++..+.+ ..+++++.|.+
T Consensus 87 Rv~G~dl~~~ll~~~~~~~~~v~llG~~~~v~~~a~~~l~~~y~l~i~g~~~Gyf~~~-----------e~~~i~~~I~~ 155 (243)
T PRK03692 87 RVAGADLWEALMARAGKEGTPVFLVGGKPEVLAQTEAKLRTQWNVNIVGSQDGYFTPE-----------QRQALFERIHA 155 (243)
T ss_pred eeChHHHHHHHHHHHHhcCCeEEEECCCHHHHHHHHHHHHHHhCCEEEEEeCCCCCHH-----------HHHHHHHHHHh
Confidence 334447888889999999999999998766 333333333566777877775311 23457777776
Q ss_pred hhcc
Q 031617 151 LASS 154 (156)
Q Consensus 151 ~~~~ 154 (156)
..+.
T Consensus 156 s~~d 159 (243)
T PRK03692 156 SGAK 159 (243)
T ss_pred cCCC
Confidence 6654
No 147
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=41.05 E-value=2e+02 Score=24.37 Aligned_cols=97 Identities=15% Similarity=0.252 Sum_probs=63.7
Q ss_pred CcccCCCCChHH---------H-----HHHHHHHHHHHhcC-C------------ccccHHHHHHHHHcCCccEEEEeCC
Q 031617 23 APIAKPLAGKKL---------S-----KRTLKLVRRAAEHK-C------------LKRGVKEVVKSIRRGHKGLCVIAGN 75 (156)
Q Consensus 23 ~~~a~Pl~~~~l---------~-----~ki~~lL~~A~kag-~------------lv~G~~~v~kaI~k~kakLVIIA~D 75 (156)
.|+..|+++... . .+++++++..+..+ . +..|+..-.+...+-.+.=||+ -|
T Consensus 52 vPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGliv-pD 130 (265)
T COG0159 52 VPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLV-PD 130 (265)
T ss_pred CCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEe-CC
Confidence 588999987532 2 56778888888542 2 5678888666666555555555 47
Q ss_pred CCchhHHhhHHHHhHhcCCCceeeC----CHHHHHhhcCCc----CceEEEEEe
Q 031617 76 ISPIDVITHVPILCEESDIPYIYVA----SKEDLANAGATK----RPTCCVLVL 121 (156)
Q Consensus 76 ~~p~~~~~~l~~lc~~~nIP~i~v~----sk~eLG~a~G~~----~~~svvaI~ 121 (156)
.-+ +....+...|++++|.++++- +.+.|-+..... .-+++.+++
T Consensus 131 LP~-ee~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~~GvT 183 (265)
T COG0159 131 LPP-EESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAASGFIYYVSRMGVT 183 (265)
T ss_pred CCh-HHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEeccccc
Confidence 755 578889999999999887752 345555544332 334555555
No 148
>TIGR00035 asp_race aspartate racemase.
Probab=40.69 E-value=74 Score=25.49 Aligned_cols=51 Identities=10% Similarity=0.154 Sum_probs=36.8
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC--CHHHH
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA--SKEDL 105 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~--sk~eL 105 (156)
+...+.+..+.+++..+.+++||.|.... ... .+-+..+||++.+. +-..+
T Consensus 60 ~~~~l~~~~~~L~~~g~d~iviaCNTah~-~~~---~l~~~~~iPii~i~~~~~~~~ 112 (229)
T TIGR00035 60 PRPILIDIAVKLENAGADFIIMPCNTAHK-FAE---DIQKAIGIPLISMIEETAEAV 112 (229)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCccHHH-HHH---HHHHhCCCCEechHHHHHHHH
Confidence 55566777778888889999999998553 344 44466789998854 34555
No 149
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that 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 active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=40.44 E-value=56 Score=26.66 Aligned_cols=50 Identities=24% Similarity=0.255 Sum_probs=34.8
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchh------HHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPID------VITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~------~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
+++++.|.+.++.+||+++|..... ....+.....+.++|+..+...-+.
T Consensus 30 ~~~i~~i~~~~~d~vv~~GDlv~~~~~~~~~~~~~~~~~l~~l~~p~~~v~GNHD~ 85 (267)
T cd07396 30 EEAVEEWNRESLDFVVQLGDIIDGDNARAEEALDAVLAILDRLKGPVHHVLGNHDL 85 (267)
T ss_pred HHHHHHHHcCCCCEEEECCCeecCCCchHHHHHHHHHHHHHhcCCCEEEecCcccc
Confidence 3456667667799999999997421 2344566667888999988755443
No 150
>cd01491 Ube1_repeat1 Ubiquitin activating enzyme (E1), repeat 1. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Ubiquitin-E1 is a single-chain protein with a weakly conserved two-fold repeat. This CD represents the first repeat of Ub-E1.
Probab=39.58 E-value=15 Score=31.18 Aligned_cols=42 Identities=12% Similarity=0.185 Sum_probs=33.2
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhc
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAG 109 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~ 109 (156)
+..+||.+.| +. +...++-.+|.+++||++...+.--.|..+
T Consensus 105 ~fdvVV~~~~-~~-~~~~~in~~c~~~~ipfI~a~~~G~~G~vf 146 (286)
T cd01491 105 KFQVVVLTDA-SL-EDQLKINEFCHSPGIKFISADTRGLFGSIF 146 (286)
T ss_pred cCCEEEEecC-CH-HHHHHHHHHHHHcCCEEEEEeccccEEEEE
Confidence 4567777766 55 467889999999999999999887777754
No 151
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=39.02 E-value=84 Score=20.44 Aligned_cols=40 Identities=20% Similarity=0.276 Sum_probs=26.7
Q ss_pred HHHHHHcCCc--cEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 58 VVKSIRRGHK--GLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 58 v~kaI~k~ka--kLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++|++-.. .|.|++.|-. ....++.+|++.|-.++...
T Consensus 16 ~k~~l~~l~~G~~l~V~~dd~~---s~~di~~~~~~~g~~~~~~~ 57 (69)
T cd03423 16 LHKKVRKMKPGDTLLVLATDPS---TTRDIPKFCTFLGHELLAQE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEeCCCc---hHHHHHHHHHHcCCEEEEEE
Confidence 4455555432 3667777642 47889999999998776543
No 152
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=38.75 E-value=58 Score=27.43 Aligned_cols=37 Identities=11% Similarity=0.077 Sum_probs=29.0
Q ss_pred HHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 62 IRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 62 I~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..++.-+||.|-|. +. ....|..+|.+++||++.++
T Consensus 117 ll~~~~D~VIdaiD~-~~-~k~~L~~~c~~~~ip~I~~g 153 (268)
T PRK15116 117 YMSAGFSYVIDAIDS-VR-PKAALIAYCRRNKIPLVTTG 153 (268)
T ss_pred HhcCCCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEC
Confidence 334568899999995 32 46778999999999999874
No 153
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=38.69 E-value=31 Score=30.38 Aligned_cols=53 Identities=21% Similarity=0.264 Sum_probs=32.7
Q ss_pred cEEEEeCCCC---chhHHhhHHHHhHhcCCCcee-eCC--HHHHHh--hcCCcCceEEEEE
Q 031617 68 GLCVIAGNIS---PIDVITHVPILCEESDIPYIY-VAS--KEDLAN--AGATKRPTCCVLV 120 (156)
Q Consensus 68 kLVIIA~D~~---p~~~~~~l~~lc~~~nIP~i~-v~s--k~eLG~--a~G~~~~~svvaI 120 (156)
.-+|.+.|.+ +..+.++|..+|+++||||-+ +.. -.+=|. ..|--.++++++|
T Consensus 255 Gp~i~~~D~~~~~~~~l~~~L~~~A~~~~Ip~Q~~v~~~ggTDA~a~~~~g~gvpta~Igi 315 (355)
T COG1363 255 GPVIRVKDASGIYHPKLRKFLLELAEKNNIPYQVDVSPGGGTDAGAAHLTGGGVPTALIGI 315 (355)
T ss_pred CCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCeEEEecCCCCccHHHHHHcCCCCceEEEec
Confidence 3456666664 235999999999999999943 321 222222 2222246777777
No 154
>cd01493 APPBP1_RUB Ubiquitin activating enzyme (E1) subunit APPBP1. APPBP1 is part of the heterodimeric activating enzyme (E1), specific for the Rub family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin(-like) by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by Rub family of ubiquitin-like proteins (Ublps) activates SCF ubiquitin ligases and is involved in cell cycle control, signaling and embryogenesis. ABPP1 contains part of the adenylation domain.
Probab=38.54 E-value=23 Score=31.81 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=30.4
Q ss_pred ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh
Q 031617 67 KGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA 108 (156)
Q Consensus 67 akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a 108 (156)
..+||. .+-++. ...+|-.+|.+++||++.+.+..-.|..
T Consensus 113 fdiVI~-t~~~~~-~~~~L~~~c~~~~iPlI~~~s~G~~G~v 152 (425)
T cd01493 113 FTVVIA-TNLPES-TLLRLADVLWSANIPLLYVRSYGLYGYI 152 (425)
T ss_pred CCEEEE-CCCCHH-HHHHHHHHHHHcCCCEEEEecccCEEEE
Confidence 455554 454453 5667999999999999999998888874
No 155
>TIGR03264 met_CoM_red_C methyl-coenzyme M reductase I operon protein C. has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this protein occurs only operons of type I. The precise function is unknown.
Probab=38.42 E-value=1.1e+02 Score=24.89 Aligned_cols=105 Identities=20% Similarity=0.230 Sum_probs=68.7
Q ss_pred HHHHHHHHhcC----------CccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC----CHHH
Q 031617 39 LKLVRRAAEHK----------CLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA----SKED 104 (156)
Q Consensus 39 ~~lL~~A~kag----------~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~----sk~e 104 (156)
-+.|.+++-+| +-.+|+++-...+-+..--.||.-+|... -++.+.+.+.+.-+||.+.+. +-++
T Consensus 65 ts~lvLnaG~GvP~da~~~~~g~~fgl~~~E~~qI~~HklAV~h~GNvk~-hIi~K~r~ilr~vdIP~IiVcq~PvdfEd 143 (194)
T TIGR03264 65 TSVLVLNAGSGIPPDAPRGGGGSTFGLTPEEIEQINRHKLAVIHLGNVKS-HIIYKARLILKHVDIPAIIVCQAPVDFED 143 (194)
T ss_pred cceEEEecCCCCCCcccccccccccCCCHHHHHHHhhcCEEEEEeCCHHH-HHHHHHHHHHhcCCCCEEEEeCCCcCHHH
Confidence 35566677777 77899998888887776667777788755 478888888999999998442 6788
Q ss_pred HHhhcCCcC---------ceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 105 LANAGATKR---------PTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 105 LG~a~G~~~---------~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
+.+.-=+.+ +=+++.|..+--- -..-=++..+|+++.|+.
T Consensus 144 fak~GvkT~~vmp~~~~T~G~v~~ivtgv~R------g~t~~~~kl~eii~~v~~ 192 (194)
T TIGR03264 144 FAKIGVKTRAVMPLEPKTKGTVVEIVTGVIR------GESCPQEKIDEIIRKVKT 192 (194)
T ss_pred HHHhCcceeeccCCCCCCCceEEEEeeceec------CCCCcHHHHHHHHHHHHh
Confidence 877532221 2245555433210 011125667888887764
No 156
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=38.41 E-value=58 Score=26.24 Aligned_cols=70 Identities=19% Similarity=0.170 Sum_probs=37.8
Q ss_pred CCchhHHhhHHHHhHhcCCCceeeC--CHHHHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 76 ISPIDVITHVPILCEESDIPYIYVA--SKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 76 ~~p~~~~~~l~~lc~~~nIP~i~v~--sk~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
.+|. -+..+..++++++|++++.. ....+...+....++.+ ..+|+-.... ..-..|.+.+......|.+
T Consensus 183 ps~~-~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~v-v~ld~l~~~~---~~~~~y~~~~~~n~~~l~~ 254 (256)
T PF01297_consen 183 PSPK-DLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKV-VYLDPLGGGI---PDGDSYLDMMEQNLDTLAE 254 (256)
T ss_dssp S-HH-HHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EE-EESSTTCSTT---SSTTSHHHHHHHHHHHHHH
T ss_pred CCHH-HHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcE-EEeCCCcCCC---CCcCCHHHHHHHHHHHHHH
Confidence 3444 46777889999999999975 24444444433334444 4555441111 2234677777666666554
No 157
>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=38.31 E-value=63 Score=24.58 Aligned_cols=23 Identities=22% Similarity=0.310 Sum_probs=19.2
Q ss_pred hHHhhHHHHhHhcCCCceeeCCH
Q 031617 80 DVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
.+...+..+|+++++|++-+.+.
T Consensus 133 ~~~~~~~~~a~~~~~~~vD~~~~ 155 (198)
T cd01821 133 DYPAAMRELAAEEGVPLIDLNAA 155 (198)
T ss_pred hHHHHHHHHHHHhCCCEEecHHH
Confidence 46788999999999999887653
No 158
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=37.49 E-value=1.1e+02 Score=24.78 Aligned_cols=57 Identities=18% Similarity=0.328 Sum_probs=44.0
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchh---HHhhHHHHhHhcCCCceeeCCHHHHHhhcCCc
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPID---VITHVPILCEESDIPYIYVASKEDLANAGATK 112 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~---~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~ 112 (156)
.+.+.++++.|-.-+.+-..|.+..+ ....+..+|+++++|+ ++.++.+|....|-.
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~l-iINd~~dlA~~~~Ad 83 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVPL-IINDRVDLALAVGAD 83 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCeE-EecCcHHHHHhCCCC
Confidence 67888888888777778888887754 3457899999999986 667777777765543
No 159
>PRK11018 hypothetical protein; Provisional
Probab=37.47 E-value=82 Score=21.23 Aligned_cols=40 Identities=13% Similarity=0.199 Sum_probs=25.6
Q ss_pred HHHHHHcCCc--cEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 58 VVKSIRRGHK--GLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 58 v~kaI~k~ka--kLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++|++-+. .|.|++.|- . -...|+.+|++.|-.++...
T Consensus 25 ~kk~l~~l~~G~~L~V~~d~~-~--a~~di~~~~~~~G~~v~~~~ 66 (78)
T PRK11018 25 TLEALPQLKKGEILEVVSDCP-Q--SINNIPLDARNHGYTVLDIQ 66 (78)
T ss_pred HHHHHHhCCCCCEEEEEeCCc-c--HHHHHHHHHHHcCCEEEEEE
Confidence 3445544332 266677664 2 37899999999998876543
No 160
>cd01492 Aos1_SUMO Ubiquitin activating enzyme (E1) subunit Aos1. Aos1 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. Aos1 contains part of the adenylation domain.
Probab=37.38 E-value=43 Score=26.44 Aligned_cols=40 Identities=8% Similarity=0.100 Sum_probs=30.5
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
+..+||.+.|- + .....+-.+|.+++||++......-.|.
T Consensus 110 ~~dvVi~~~~~-~-~~~~~ln~~c~~~~ip~i~~~~~G~~G~ 149 (197)
T cd01492 110 QFDVVVATELS-R-AELVKINELCRKLGVKFYATGVHGLFGF 149 (197)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEecCCEEE
Confidence 46788888773 4 4678899999999999988876444443
No 161
>TIGR03022 WbaP_sugtrans Undecaprenyl-phosphate galactose phosphotransferase, WbaP. This model includes the enterobacterial enzymes, where the function is presumed to be identical to the S. typhimurium enzyme as well as a somewhat broader group which are likely to catalyze the same or highly similar reactions based on a phylogenetic tree-building analysis of the broader sugar transferase family. Most of these genes are found within large operons dedicated to the production of complex exopolysaccharides such as the enterobacterial O-antigen. The most likely heterogeneity would be in the precise nature of the sugar molecule transferred.
Probab=37.35 E-value=59 Score=28.66 Aligned_cols=54 Identities=11% Similarity=0.078 Sum_probs=42.5
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCC-CceeeCCHHHHH
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDI-PYIYVASKEDLA 106 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nI-P~i~v~sk~eLG 106 (156)
.|..+..+.+++..+.-|+||-.....+....+...|++.++ ++..+++-.++.
T Consensus 175 lg~~~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~~~v~~V~~vP~~~e~~ 229 (456)
T TIGR03022 175 VGADDALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGALHFRNVLIVPSLFGLP 229 (456)
T ss_pred cChhHHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHhCCCeEEEEeCcccccc
Confidence 344677778888889989999875554567888899999999 888888877665
No 162
>cd03338 TCP1_delta TCP-1 (CTT or eukaryotic type II) chaperonin family, delta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=37.24 E-value=75 Score=28.69 Aligned_cols=48 Identities=15% Similarity=0.086 Sum_probs=26.0
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
...++.|.+..+.+||++.++++..+-.....++.++||-++.--++.
T Consensus 262 ~~~v~~i~~~g~~lvi~~~~i~~~~v~~l~~~~l~~~~I~av~~~~~~ 309 (515)
T cd03338 262 LNMCKKIKKSGCNVLLIQKSILRDAVSDLALHFLAKLKIMVVKDIERE 309 (515)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHHHCCceEEecCCHH
Confidence 334444555567888888877533222233444456666665544443
No 163
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=37.23 E-value=2.1e+02 Score=23.18 Aligned_cols=74 Identities=15% Similarity=0.306 Sum_probs=47.9
Q ss_pred CcccCCCCChHHHH--------------HHHHHHHHHHhcCC---ccc---------cHHHHHHHHHcCCccEEEEeCCC
Q 031617 23 APIAKPLAGKKLSK--------------RTLKLVRRAAEHKC---LKR---------GVKEVVKSIRRGHKGLCVIAGNI 76 (156)
Q Consensus 23 ~~~a~Pl~~~~l~~--------------ki~~lL~~A~kag~---lv~---------G~~~v~kaI~k~kakLVIIA~D~ 76 (156)
.|+..|+++...-+ ..+++++..++... ++. |...-++.+.+-.+.-+++ .|.
T Consensus 35 iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giii-pDl 113 (242)
T cd04724 35 IPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKNTIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLII-PDL 113 (242)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcCCCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEE-CCC
Confidence 48899999865543 56777777776421 222 4455555555444554544 477
Q ss_pred CchhHHhhHHHHhHhcCCCcee
Q 031617 77 SPIDVITHVPILCEESDIPYIY 98 (156)
Q Consensus 77 ~p~~~~~~l~~lc~~~nIP~i~ 98 (156)
.+. -...+...|+++++.++.
T Consensus 114 ~~e-e~~~~~~~~~~~g~~~i~ 134 (242)
T cd04724 114 PPE-EAEEFREAAKEYGLDLIF 134 (242)
T ss_pred CHH-HHHHHHHHHHHcCCcEEE
Confidence 664 577889999999997655
No 164
>PRK08734 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=36.84 E-value=2.5e+02 Score=23.46 Aligned_cols=46 Identities=22% Similarity=0.268 Sum_probs=31.5
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhHHHHhHhcCCCceeeCC
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l~~lc~~~nIP~i~v~s 101 (156)
|.+++++++++|. +|.+..|-++. ........++...|.|++.+..
T Consensus 172 ~~r~li~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FfG~~a~t~~g~a~LA~~~~apVvp~~~ 231 (305)
T PRK08734 172 AVRQLFKVLKDGG--AVGILPDQQPKMGDGVFAPFFGIPALTMTLVNRLAERTGATVLYGWC 231 (305)
T ss_pred hHHHHHHHHhcCC--eEEEeCCCCCCCCCCeEeccCCCccchhhHHHHHHHHhCCeEEEEEE
Confidence 5899999998885 77778777642 1233344677777777776553
No 165
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=36.82 E-value=1.5e+02 Score=20.87 Aligned_cols=49 Identities=10% Similarity=0.091 Sum_probs=32.9
Q ss_pred HHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCcC
Q 031617 60 KSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATKR 113 (156)
Q Consensus 60 kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~~ 113 (156)
..+....+.+|.|+.|. + ..+..+++++++++..+. ....+++++|...
T Consensus 51 ~~~~~~~~~vv~is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~ 100 (140)
T cd03017 51 EEFKALGAVVIGVSPDS-V----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWG 100 (140)
T ss_pred HHHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCceEEECCccHHHHHhCCcc
Confidence 33444557888888873 3 234567778888875554 4568999998764
No 166
>TIGR02356 adenyl_thiF thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF family of proteins (pfam00899) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees, with the Escherichia. coli ThiF and the E. coli MoeB proteins seemingly more closely related than E. coli ThiF and Campylobacter (for example) ThiF. This model represents the more widely distributed clade of ThiF proteins such found in E. coli.
Probab=36.58 E-value=42 Score=26.53 Aligned_cols=35 Identities=14% Similarity=0.059 Sum_probs=28.6
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
....+||.|.|- + .....+-.+|.++++|+++...
T Consensus 110 ~~~D~Vi~~~d~-~-~~r~~l~~~~~~~~ip~i~~~~ 144 (202)
T TIGR02356 110 NNVDLVLDCTDN-F-ATRYLINDACVALGTPLISAAV 144 (202)
T ss_pred hCCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEe
Confidence 357899999986 4 3577799999999999999774
No 167
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=36.50 E-value=74 Score=26.05 Aligned_cols=86 Identities=14% Similarity=0.084 Sum_probs=46.0
Q ss_pred ccccHHHHHHHHHcC-CccEEEE-eCCC--CchhHHhhHHHHhHhcCCCceeeCC--HHHHHhhcCCcCceEEEEEecCC
Q 031617 51 LKRGVKEVVKSIRRG-HKGLCVI-AGNI--SPIDVITHVPILCEESDIPYIYVAS--KEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 51 lv~G~~~v~kaI~k~-kakLVII-A~D~--~p~~~~~~l~~lc~~~nIP~i~v~s--k~eLG~a~G~~~~~svvaI~d~~ 124 (156)
++. .+.....+.+. ....+-+ ..+. +|. -+..+..+.++++|+++|+.. ...+.+.+.+..++.++. +|+-
T Consensus 173 ~v~-~H~af~Y~~~~ygl~~~~~~~~~~eps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~-ld~~ 249 (266)
T cd01018 173 FMV-YHPAWGYFARDYGLTQIPIEEEGKEPSPA-DLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVT-IDPL 249 (266)
T ss_pred EEE-ECchhHHHHHHcCCEEEecCCCCCCCCHH-HHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEE-eCCc
Confidence 444 44455566543 2333322 2333 343 477788899999999999852 223333333333344444 3433
Q ss_pred CCCCcchHHHHhhHHHHHHHHHHH
Q 031617 125 TKGELGQEEQDKLKADYTLVVEDV 148 (156)
Q Consensus 125 ~~~~~~~~~~~~~~~~y~e~~~~i 148 (156)
-..|.+.+...++.|
T Consensus 250 ---------~~~y~~~m~~n~~~~ 264 (266)
T cd01018 250 ---------AADWEENLLKVADAF 264 (266)
T ss_pred ---------HHHHHHHHHHHHHHh
Confidence 135777776666555
No 168
>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=36.45 E-value=61 Score=22.82 Aligned_cols=22 Identities=27% Similarity=0.309 Sum_probs=16.2
Q ss_pred hHHHHhHhcCCCceeeCCHHHH
Q 031617 84 HVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 84 ~l~~lc~~~nIP~i~v~sk~eL 105 (156)
.+..+..+.++|++.+.+|.++
T Consensus 96 ~~~~~~~~~~~piiiv~nK~D~ 117 (157)
T cd01894 96 EIAKYLRKSKKPVILVVNKVDN 117 (157)
T ss_pred HHHHHHHhcCCCEEEEEECccc
Confidence 3556667788999999877654
No 169
>PRK14974 cell division protein FtsY; Provisional
Probab=36.45 E-value=2.9e+02 Score=23.99 Aligned_cols=40 Identities=13% Similarity=0.152 Sum_probs=29.1
Q ss_pred HHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 61 SIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.+...++++++.|.....-...+..+++..++|++...
T Consensus 163 ~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~ 202 (336)
T PRK14974 163 YLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHK 202 (336)
T ss_pred HHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceeccc
Confidence 3444456788899997654456778889999999986543
No 170
>PRK10867 signal recognition particle protein; Provisional
Probab=36.35 E-value=1.8e+02 Score=26.24 Aligned_cols=62 Identities=19% Similarity=0.178 Sum_probs=39.7
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC---CHHHHHh-hcC--CcCceEEEEEecCCCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA---SKEDLAN-AGA--TKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~---sk~eLG~-a~G--~~~~~svvaI~d~~~~~ 127 (156)
..+.++++.|.....-...+..+++..+||++..+ +-.++-. ++. +....-++.|-.+|..+
T Consensus 129 G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~ 196 (433)
T PRK10867 129 KKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLH 196 (433)
T ss_pred CCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcc
Confidence 56789999998765557778889999999987653 3344432 211 11223456666666544
No 171
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=35.73 E-value=2.6e+02 Score=25.24 Aligned_cols=62 Identities=13% Similarity=0.082 Sum_probs=44.2
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCc---CceEEEEEecCCCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATK---RPTCCVLVLTKPTKG 127 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~---~~~svvaI~d~~~~~ 127 (156)
..+..+++.|.....-...+..+++..++|+....+..+|..++..- ...-.|.|-.+|.++
T Consensus 234 g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~ 298 (407)
T PRK12726 234 NRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVNCVDHILIDTVGRNY 298 (407)
T ss_pred CCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCc
Confidence 36788899998653346788899999999998778888887765421 124467776666654
No 172
>cd01149 HutB Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=35.62 E-value=2.1e+02 Score=22.27 Aligned_cols=51 Identities=12% Similarity=0.244 Sum_probs=31.9
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC---C-------HHHHHhhcCCc
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA---S-------KEDLANAGATK 112 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~---s-------k~eLG~a~G~~ 112 (156)
-...|..-+..|||......+....+.| ++.+||++.+. + -..||.++|+.
T Consensus 50 n~E~i~~l~PDlIi~~~~~~~~~~~~~l----~~~gipvv~~~~~~~~~~~~~~~~~lg~i~g~e 110 (235)
T cd01149 50 SAEGVLSLKPTLVIASDEAGPPEALDQL----RAAGVPVVTVPSTPTLDGLLTKIRQVAQALGVP 110 (235)
T ss_pred CHHHhhccCCCEEEEcCCCCCHHHHHHH----HHcCCeEEEecCCCCHHHHHHHHHHHHHHhCCH
Confidence 3456666778899876655443334444 58889987654 2 12677777764
No 173
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=35.36 E-value=86 Score=24.51 Aligned_cols=46 Identities=20% Similarity=0.207 Sum_probs=33.5
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
-.++...|.+.+-=++++..-+....-.+.+..+++..|||++...
T Consensus 17 p~~aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~ 62 (162)
T TIGR00315 17 PKLVAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATA 62 (162)
T ss_pred HHHHHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcC
Confidence 3556677776665566666666533468889999999999998766
No 174
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=35.25 E-value=1.6e+02 Score=21.08 Aligned_cols=45 Identities=9% Similarity=0.068 Sum_probs=34.4
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
..+..++...+ ....+++++.-+. .....+...|..+|||+..+.
T Consensus 35 a~~~~e~~~~~--~~~Dvill~PQv~--~~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 35 AGAYGSHYDMI--PDYDLVILAPQMA--SYYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred EeeHHHHHHhc--cCCCEEEEcChHH--HHHHHHHHHhhhcCCCEEEeC
Confidence 56666666554 4578999998873 468889999999999996655
No 175
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=35.20 E-value=84 Score=27.19 Aligned_cols=42 Identities=17% Similarity=0.235 Sum_probs=33.7
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.++.+-+.+.-.+|++.+..|.. .+...|++++||+....
T Consensus 72 ~~~~~~l~~~~~P~iIvt~~~~~p~---~l~~~a~~~~ipll~t~ 113 (308)
T PRK05428 72 KERLKKLFSLEPPCIIVTRGLEPPP---ELLEAAKEAGIPLLRTP 113 (308)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCCH---HHHHHHHHcCCcEEEeC
Confidence 3456666778899999999998853 47799999999998775
No 176
>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=35.13 E-value=73 Score=24.57 Aligned_cols=52 Identities=15% Similarity=0.147 Sum_probs=36.3
Q ss_pred HHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcC
Q 031617 59 VKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA 110 (156)
Q Consensus 59 ~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G 110 (156)
.+.+..++..++|.--|++..+---.+...-.+.++|++.+-+|.++.+.-|
T Consensus 71 ~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g 122 (156)
T PF02421_consen 71 RDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAERKG 122 (156)
T ss_dssp HHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTT
T ss_pred HHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcC
Confidence 4555678899999988987643233344555679999999988776555444
No 177
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=34.87 E-value=89 Score=24.69 Aligned_cols=46 Identities=13% Similarity=0.257 Sum_probs=32.3
Q ss_pred HHHHHHHHcCCccEEEEeCCCCc-hhHHhhHHHHhHhcCCCceeeCC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISP-IDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p-~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+.+...|.+-+-=++++..-+.. ....+.+..++++.+||++....
T Consensus 25 ~~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 25 KIAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGG 71 (171)
T ss_pred HHHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccc
Confidence 45555666555556666666643 34688899999999999987654
No 178
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=34.61 E-value=55 Score=26.47 Aligned_cols=62 Identities=19% Similarity=0.231 Sum_probs=42.0
Q ss_pred Ccccc------HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee-eCCHHHHHhhcCCcCceEEEEE
Q 031617 50 CLKRG------VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAGATKRPTCCVLV 120 (156)
Q Consensus 50 ~lv~G------~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a~G~~~~~svvaI 120 (156)
.+..| .+++.++++.| +.+++ +|. +...+...|.+++||++- +.|-.|+=++.. .++..+.+
T Consensus 67 ~~~vGaGTV~~~~~~~~a~~aG-A~Fiv-----sP~-~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~~--~Gad~vkl 135 (213)
T PRK06552 67 EVLIGAGTVLDAVTARLAILAG-AQFIV-----SPS-FNRETAKICNLYQIPYLPGCMTVTEIVTALE--AGSEIVKL 135 (213)
T ss_pred CeEEeeeeCCCHHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEECCcCCHHHHHHHHH--cCCCEEEE
Confidence 46666 46777777777 78877 563 556677889999999865 457777766642 23445555
No 179
>PRK00124 hypothetical protein; Validated
Probab=34.51 E-value=44 Score=25.97 Aligned_cols=29 Identities=24% Similarity=0.338 Sum_probs=26.1
Q ss_pred EEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 70 CVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 70 VIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
++|=+|+-| ++..+...|+++++|+++|.
T Consensus 3 I~VDADACP--Vk~~i~r~a~r~~i~v~~Va 31 (151)
T PRK00124 3 IYVDADACP--VKDIIIRVAERHGIPVTLVA 31 (151)
T ss_pred EEEECCCCc--HHHHHHHHHHHHCCeEEEEE
Confidence 677788889 78999999999999999987
No 180
>KOG3282 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.32 E-value=2.5e+02 Score=22.79 Aligned_cols=99 Identities=9% Similarity=0.069 Sum_probs=64.6
Q ss_pred hhhhhccCcccCCCCChHHHHHH-HHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCC
Q 031617 16 KKKIVSLAPIAKPLAGKKLSKRT-LKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDI 94 (156)
Q Consensus 16 ~~~~~~~~~~a~Pl~~~~l~~ki-~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nI 94 (156)
+.||.-+.----+|-..++.-.. .-.++.-++. +..+-+-+.++-+.|++|+|+=+.|- .-...|...++..++
T Consensus 75 ~~KMvLVVR~DLkMgkGKIAAQc~HAalg~Y~~l--~~~~p~ll~~We~~GQ~KIvvk~~~e---~~l~~l~~~A~~~gl 149 (190)
T KOG3282|consen 75 NFKMVLVVRNDLKMGKGKIAAQCAHAALGVYKHL--MQRDPELLRRWENCGQAKIVVKAESE---EELMELQKDAKKLGL 149 (190)
T ss_pred ceEEEEEEeccCCCccchhHHHHHHHHHHHHHHH--HHhCHHHHHHHHHcCCceEEEEcCCH---HHHHHHHHHHHHcCC
Confidence 35666666666677666664322 1222222221 22667777888899999999999995 235667888999999
Q ss_pred CceeeCC--HHHHHhhcCCcCceEEEEEecCC
Q 031617 95 PYIYVAS--KEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 95 P~i~v~s--k~eLG~a~G~~~~~svvaI~d~~ 124 (156)
++..+.+ +.++.. | ..+|++|.+++
T Consensus 150 ~t~~i~DAGrTQIa~--g---S~TVl~Igpg~ 176 (190)
T KOG3282|consen 150 YTHLIQDAGRTQIAP--G---SRTVLGIGPGP 176 (190)
T ss_pred cEEEEEcCCccccCC--C---CeEEEEEcCcc
Confidence 9987764 334332 2 46799998654
No 181
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=34.31 E-value=85 Score=25.25 Aligned_cols=40 Identities=18% Similarity=0.308 Sum_probs=16.0
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
++.+.|++++++.||.-...++. .. ..++++.|+|++.+.
T Consensus 190 ~l~~~ik~~~v~~i~~e~~~~~~-~~---~~la~~~g~~vv~ld 229 (256)
T PF01297_consen 190 ELIKLIKENKVKCIFTEPQFSSK-LA---EALAKETGVKVVYLD 229 (256)
T ss_dssp HHHHHHHHTT-SEEEEETTS-TH-HH---HHHHHCCT-EEEESS
T ss_pred HHHHHhhhcCCcEEEecCCCChH-HH---HHHHHHcCCcEEEeC
Confidence 34444455555555554443332 22 222455555554443
No 182
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=33.82 E-value=1e+02 Score=20.08 Aligned_cols=40 Identities=18% Similarity=0.249 Sum_probs=26.2
Q ss_pred HHHHHHcCCcc--EEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 58 VVKSIRRGHKG--LCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 58 v~kaI~k~kak--LVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.+++++-..+ |.|++.|- . -...|+.+|++.|-.++.+.
T Consensus 16 ~kkal~~l~~G~~l~V~~d~~--~-s~~ni~~~~~~~g~~v~~~~ 57 (69)
T cd03422 16 TLEALPSLKPGEILEVISDCP--Q-SINNIPIDARNHGYKVLAIE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEecCc--h-HHHHHHHHHHHcCCEEEEEE
Confidence 45566554422 56666654 2 47889999999998776543
No 183
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=33.53 E-value=85 Score=24.38 Aligned_cols=73 Identities=12% Similarity=0.087 Sum_probs=41.0
Q ss_pred CCCChHHHHHHHHHHHHHHhc-CC-ccc---------cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc
Q 031617 28 PLAGKKLSKRTLKLVRRAAEH-KC-LKR---------GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY 96 (156)
Q Consensus 28 Pl~~~~l~~ki~~lL~~A~ka-g~-lv~---------G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~ 96 (156)
|-.+...-..+.+-++.+.+. |. +.. -..+.++.+...++..+|+..--.. .+. .+...|.+.+||+
T Consensus 6 ~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~-~~~-~~l~~~~~~gIpv 83 (257)
T PF13407_consen 6 PSMDNPFWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPD-SLA-PFLEKAKAAGIPV 83 (257)
T ss_dssp SSSSSHHHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTT-TTH-HHHHHHHHTTSEE
T ss_pred CCCCCHHHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHH-HHH-HHHHHHhhcCceE
Confidence 444555666666666655543 32 111 2233444444455777776644333 233 4556688999999
Q ss_pred eeeCCH
Q 031617 97 IYVASK 102 (156)
Q Consensus 97 i~v~sk 102 (156)
+++.+-
T Consensus 84 v~~d~~ 89 (257)
T PF13407_consen 84 VTVDSD 89 (257)
T ss_dssp EEESST
T ss_pred EEEecc
Confidence 998655
No 184
>PRK01889 GTPase RsgA; Reviewed
Probab=33.45 E-value=43 Score=29.00 Aligned_cols=37 Identities=27% Similarity=0.196 Sum_probs=27.9
Q ss_pred EEEEeCC--CCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 69 LCVIAGN--ISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 69 LVIIA~D--~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
+++++.| .++ ..+.++..+|+..|+|.+.+.+|.+|.
T Consensus 117 liV~s~~p~~~~-~~ldr~L~~a~~~~i~piIVLNK~DL~ 155 (356)
T PRK01889 117 FIVCSLNHDFNL-RRIERYLALAWESGAEPVIVLTKADLC 155 (356)
T ss_pred EEEEecCCCCCh-hHHHHHHHHHHHcCCCEEEEEEChhcC
Confidence 4444443 333 378889999999999999999999984
No 185
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=33.40 E-value=1.7e+02 Score=20.56 Aligned_cols=58 Identities=7% Similarity=-0.101 Sum_probs=33.6
Q ss_pred CccEEEEeCCC-CchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCcCceEEEEEecCC
Q 031617 66 HKGLCVIAGNI-SPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 66 kakLVIIA~D~-~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~~~~svvaI~d~~ 124 (156)
.+.++.|..+- +...-...+..+.+++++++-.+. ....+.+.+|... .-...|.|+.
T Consensus 56 ~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~v~~-~P~~~vid~~ 115 (126)
T cd03012 56 GLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVANDNDYATWRAYGNQY-WPALYLIDPT 115 (126)
T ss_pred CeEEEEeccCccccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhCCCc-CCeEEEECCC
Confidence 35555554421 111124566777889999885554 4667888888642 3345556543
No 186
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=33.32 E-value=42 Score=29.64 Aligned_cols=46 Identities=28% Similarity=0.385 Sum_probs=31.3
Q ss_pred cHHHHHHHHHcC-----CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 54 GVKEVVKSIRRG-----HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 54 G~~~v~kaI~k~-----kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
|...-+|.+.-| -+-||+=|.|-.-....+|+ -|+++.++||+.++
T Consensus 84 GHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHi-LlarqvGvp~ivvf 134 (394)
T COG0050 84 GHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHI-LLARQVGVPYIVVF 134 (394)
T ss_pred ChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhh-hhhhhcCCcEEEEE
Confidence 444444444433 36678888887544678886 58999999997765
No 187
>cd03361 TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=33.16 E-value=1e+02 Score=23.94 Aligned_cols=44 Identities=11% Similarity=0.036 Sum_probs=29.0
Q ss_pred ccHHHHHHHHHc--CCccEEEEeCCCCch--hHHhhHHHHhHhcCCCc
Q 031617 53 RGVKEVVKSIRR--GHKGLCVIAGNISPI--DVITHVPILCEESDIPY 96 (156)
Q Consensus 53 ~G~~~v~kaI~k--~kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~ 96 (156)
.|.+...+.|++ .++..||+|.|++.. .+..++...|...+.|+
T Consensus 103 ~~~~~~~~~l~~l~~~~~~iiiatD~drEGe~I~~~i~~~~~~~~~~v 150 (170)
T cd03361 103 DDKLETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNI 150 (170)
T ss_pred cchHHHHHHHHHHHhhCCEEEEecCCCccHHHHHHHHHHHhccCCCCe
Confidence 445555555544 568899999999852 35556777776555554
No 188
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=32.89 E-value=43 Score=20.19 Aligned_cols=28 Identities=18% Similarity=0.108 Sum_probs=21.0
Q ss_pred HhhHHHHhHhcCCCceeeCCHHHHHhhc
Q 031617 82 ITHVPILCEESDIPYIYVASKEDLANAG 109 (156)
Q Consensus 82 ~~~l~~lc~~~nIP~i~v~sk~eLG~a~ 109 (156)
+..|..+|++.||+-..-.+|.+|=.++
T Consensus 7 ~~eL~~iAk~lgI~~~~~~~K~eLI~~I 34 (43)
T PF07498_consen 7 LSELREIAKELGIEGYSKMRKQELIFAI 34 (43)
T ss_dssp HHHHHHHHHCTT-TTGCCS-HHHHHHHH
T ss_pred HHHHHHHHHHcCCCCCCcCCHHHHHHHH
Confidence 5678899999999987777888886543
No 189
>TIGR02339 thermosome_arch thermosome, various subunits, archaeal. Thermosome is the name given to the archaeal rather than eukaryotic form of the group II chaperonin (counterpart to the group I chaperonin, GroEL/GroES, in bacterial), a torroidal, ATP-dependent molecular chaperone that assists in the folding or refolding of nascent or denatured proteins. Various homologous subunits, one to five per archaeal genome, may be designated alpha, beta, etc., but phylogenetic analysis does not show distinct alpha subunit and beta subunit lineages traceable to ancient paralogs.
Probab=32.82 E-value=1e+02 Score=27.88 Aligned_cols=47 Identities=19% Similarity=0.270 Sum_probs=29.6
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
++.++.|.+-.+.+||++.++++. ..+ ++.++||-.+..-++.+|.+
T Consensus 272 ~~~v~~i~~~g~~lvi~~~~I~~~--al~---~L~~~gI~~v~~v~~~~L~r 318 (519)
T TIGR02339 272 KEMVDKIADAGANVVFCQKGIDDL--AQH---YLAKAGILAVRRVKKSDIEK 318 (519)
T ss_pred HHHHHHHHhcCCcEEEECCCccHH--HHH---HHHHCCCEEEecCCHHHHHH
Confidence 344456666678899999998874 222 22477776666556555444
No 190
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=32.78 E-value=1.1e+02 Score=23.61 Aligned_cols=41 Identities=15% Similarity=0.045 Sum_probs=32.8
Q ss_pred HhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEec
Q 031617 82 ITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 82 ~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d 122 (156)
+..+..+++++|+.+..+..-.-+-+.+...++-+++||-.
T Consensus 75 Ig~l~~lae~~g~~v~i~~Ggt~ar~~ik~~~p~~iigVAC 115 (158)
T PF01976_consen 75 IGDLKKLAEKYGYKVYIATGGTLARKIIKEYRPKAIIGVAC 115 (158)
T ss_pred hhHHHHHHHHcCCEEEEEcChHHHHHHHHHhCCCEEEEEec
Confidence 56788999999998777776667777777777889999986
No 191
>PF10788 DUF2603: Protein of unknown function (DUF2603); InterPro: IPR019724 This entry represents a conserved protein in epsilon-Proteobacteria. The function is not known.
Probab=32.37 E-value=39 Score=25.99 Aligned_cols=17 Identities=29% Similarity=0.538 Sum_probs=15.6
Q ss_pred HHHHHHHHHHhhhccCC
Q 031617 140 DYTLVVEDVKELASSLF 156 (156)
Q Consensus 140 ~y~e~~~~i~~~~~~~~ 156 (156)
..+.+++.|++.||.||
T Consensus 117 d~~~lvk~IKk~HPNLF 133 (137)
T PF10788_consen 117 DLDKLVKNIKKEHPNLF 133 (137)
T ss_pred CHHHHHHHHHHhCCCee
Confidence 47899999999999998
No 192
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=32.36 E-value=1.6e+02 Score=22.75 Aligned_cols=64 Identities=9% Similarity=-0.012 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHH-hcC--CccccHHHHHHHHHcCCccEEEEeCCCCchh---HHhhHHHHhHh----cCCCcee
Q 031617 35 SKRTLKLVRRAA-EHK--CLKRGVKEVVKSIRRGHKGLCVIAGNISPID---VITHVPILCEE----SDIPYIY 98 (156)
Q Consensus 35 ~~ki~~lL~~A~-kag--~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~---~~~~l~~lc~~----~nIP~i~ 98 (156)
...+.+.|.... ..| .+-.|++.....+..+..+.|||-+|..+.. ....+..+... .+|++..
T Consensus 100 ~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~~~i~i~~ 173 (206)
T cd01456 100 RSALDAALNSLQTPTGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDPCEVARELAKRRTPAPPIKVNV 173 (206)
T ss_pred HHHHHHHHHhhcCCCCcChHHHHHHHHHHHhCCCCcceEEEEcCCCccCCCCHHHHHHHHHHhcCCCCCceEEE
Confidence 344455555444 333 2778888888877666668899999987642 12334444444 3555533
No 193
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=32.26 E-value=2.9e+02 Score=24.90 Aligned_cols=39 Identities=10% Similarity=0.175 Sum_probs=29.3
Q ss_pred HHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 62 IRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 62 I~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.+...+..+++.|+........+..+|+..+||+....
T Consensus 119 L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~ 157 (437)
T PRK00771 119 FKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDP 157 (437)
T ss_pred HHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecC
Confidence 344446889999998654557778889999999976543
No 194
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=32.02 E-value=93 Score=25.41 Aligned_cols=23 Identities=9% Similarity=0.261 Sum_probs=14.1
Q ss_pred HHHHHHHHcCCccEEEEeCCCCc
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISP 78 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p 78 (156)
+++.+.+.+.++.+||+++|+-.
T Consensus 29 ~~l~~~~~~~~~D~lli~GDi~d 51 (253)
T TIGR00619 29 DDLLEFAKAEQIDALLVAGDVFD 51 (253)
T ss_pred HHHHHHHHHcCCCEEEECCccCC
Confidence 34445555566777777777654
No 195
>PRK09534 btuF corrinoid ABC transporter substrate-binding protein; Reviewed
Probab=32.02 E-value=1.8e+02 Score=24.95 Aligned_cols=50 Identities=14% Similarity=0.143 Sum_probs=32.1
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC---C-------HHHHHhhcCCc
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA---S-------KEDLANAGATK 112 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~---s-------k~eLG~a~G~~ 112 (156)
-...|..-+.-|||.... .+.+..+.| ++.+||++.+. + -..||+++|+.
T Consensus 111 n~E~Il~l~PDLVi~~~~-~~~~~~~~L----~~~gi~V~~~~~~~~l~~i~~~i~~lG~i~G~e 170 (359)
T PRK09534 111 NVEAVVGLDPDLVLAPNA-VAGDTVTRL----REAGITVFHFPAATSIEDVAEKTATIGRLTGNC 170 (359)
T ss_pred CHHHHhcCCCCEEEEcCC-CchHHHHHH----HHCCCeEEEeCCCCCHHHHHHHHHHHHHHhCCH
Confidence 466677778889887543 333344444 57899987653 2 13678888875
No 196
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=31.99 E-value=1.8e+02 Score=23.08 Aligned_cols=68 Identities=7% Similarity=0.166 Sum_probs=40.6
Q ss_pred CCCCChHHHHHHHHHHHHHHhcCC--ccccHHHHHHHHHcCC-----cc-EEEEeCCCC--chhHHhhHHHHhHhcCCCc
Q 031617 27 KPLAGKKLSKRTLKLVRRAAEHKC--LKRGVKEVVKSIRRGH-----KG-LCVIAGNIS--PIDVITHVPILCEESDIPY 96 (156)
Q Consensus 27 ~Pl~~~~l~~ki~~lL~~A~kag~--lv~G~~~v~kaI~k~k-----ak-LVIIA~D~~--p~~~~~~l~~lc~~~nIP~ 96 (156)
.|++.+ ...+...|....-.|. +..|+.....+++... -+ ++|++++.+ |.+ ...+...+++.||.+
T Consensus 63 ~plT~D--~~~~~~~L~~i~~~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d~~~-i~~~~~~lkk~~I~v 139 (187)
T cd01452 63 VTLTND--QGKILSKLHDVQPKGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEEDEKD-LVKLAKRLKKNNVSV 139 (187)
T ss_pred ECCCCC--HHHHHHHHHhCCCCCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCCHHH-HHHHHHHHHHcCCeE
Confidence 356555 3445555554333332 7778888888885322 24 888888844 444 334556667888866
Q ss_pred e
Q 031617 97 I 97 (156)
Q Consensus 97 i 97 (156)
-
T Consensus 140 ~ 140 (187)
T cd01452 140 D 140 (187)
T ss_pred E
Confidence 3
No 197
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong 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-diacylglucosa
Probab=31.93 E-value=1.3e+02 Score=23.49 Aligned_cols=47 Identities=15% Similarity=0.263 Sum_probs=30.6
Q ss_pred HHHHHHHHHcC--CccEEEEeCCCCch---hHHhhHHHHhHhcCCCceeeCC
Q 031617 55 VKEVVKSIRRG--HKGLCVIAGNISPI---DVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 55 ~~~v~kaI~k~--kakLVIIA~D~~p~---~~~~~l~~lc~~~nIP~i~v~s 101 (156)
.+++++.+.+. ++.+||+++|.... .-...+..+-++.++|+.++.-
T Consensus 27 l~~~~~~i~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~l~~~~~p~~~v~G 78 (240)
T cd07402 27 LEAVLAHINALHPRPDLVLVTGDLTDDGSPESYERLRELLAALPIPVYLLPG 78 (240)
T ss_pred HHHHHHHHHhcCCCCCEEEECccCCCCCCHHHHHHHHHHHhhcCCCEEEeCC
Confidence 34566666665 89999999997642 1123344444566899988853
No 198
>cd03339 TCP1_epsilon TCP-1 (CTT or eukaryotic type II) chaperonin family, epsilon subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=31.88 E-value=1.2e+02 Score=27.67 Aligned_cols=47 Identities=11% Similarity=0.165 Sum_probs=30.3
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
...++.|.+-.+.+||++.++++. . ..++.++||..+...++.+|-+
T Consensus 277 ~~~v~~i~~~g~~lvi~~~~I~~~--a---l~~L~~~~I~av~~v~~~~Ler 323 (526)
T cd03339 277 REMVEQVKDAGANLVICQWGFDDE--A---NHLLLQNGLPAVRWVGGVEIEL 323 (526)
T ss_pred HHHHHHHHHCCCCEEEeCCCCCHH--H---HHHHHHCCCEEEEeCCHHHHHH
Confidence 334555666668899999999884 2 2344688887777655554443
No 199
>PLN02721 threonine aldolase
Probab=31.49 E-value=1e+02 Score=25.37 Aligned_cols=33 Identities=9% Similarity=0.120 Sum_probs=22.8
Q ss_pred CccEEEEeCC-------CCchhHHhhHHHHhHhcCCCcee
Q 031617 66 HKGLCVIAGN-------ISPIDVITHVPILCEESDIPYIY 98 (156)
Q Consensus 66 kakLVIIA~D-------~~p~~~~~~l~~lc~~~nIP~i~ 98 (156)
+.++|++..- +-+.+.++.|..+|+++|++++.
T Consensus 137 ~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~g~~liv 176 (353)
T PLN02721 137 TTRLICLENTHANCGGRCLSVEYTDKVGELAKRHGLKLHI 176 (353)
T ss_pred cceEEEEeccccccCCccccHHHHHHHHHHHHHcCCEEEE
Confidence 5778888442 11223467889999999998854
No 200
>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=31.19 E-value=75 Score=24.91 Aligned_cols=44 Identities=11% Similarity=0.274 Sum_probs=25.6
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCC-ceee
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIP-YIYV 99 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP-~i~v 99 (156)
.++..++..-.+-++++..+-.+..-...+..++.+.++| ++.+
T Consensus 80 ~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvv 124 (195)
T cd01884 80 KNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVF 124 (195)
T ss_pred HHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEE
Confidence 4556666655566666665543323344556677888888 4343
No 201
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=31.19 E-value=76 Score=22.24 Aligned_cols=50 Identities=24% Similarity=0.175 Sum_probs=30.9
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA 108 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a 108 (156)
.+...+. .+.++++--|++..........+....++|++.+.+|.++...
T Consensus 73 ~~~~~~~--~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~ 122 (157)
T cd04164 73 RAREAIE--EADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPD 122 (157)
T ss_pred HHHHHHh--hCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCc
Confidence 3444443 4666666667663222333334444688999999999998754
No 202
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=31.14 E-value=36 Score=25.46 Aligned_cols=51 Identities=18% Similarity=0.229 Sum_probs=43.7
Q ss_pred cCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 48 HKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 48 ag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
.|-|..|+-++. ++++..++++.++.++.++...+..++..-.|-++.+..
T Consensus 20 tGfLlaGvg~v~---~~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLInq 70 (121)
T KOG3432|consen 20 TGFLLAGVGEVN---ENREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILINQ 70 (121)
T ss_pred eeeeeecccccc---cCCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEhH
Confidence 366778888887 567888999999999999999999999999998888763
No 203
>PF10165 Ric8: Guanine nucleotide exchange factor synembryn; InterPro: IPR019318 Ric8 is involved in the EGL-30 neurotransmitter signalling pathway []. It is a guanine nucleotide exchange factor [] that regulates neurotransmitter secretion.
Probab=30.96 E-value=81 Score=28.27 Aligned_cols=56 Identities=14% Similarity=0.238 Sum_probs=40.4
Q ss_pred CCChhhhhhhhccCccc------------CCCCChHHH---HHHHHHHHHHHhcCCccccHHHHHHHHHcCC
Q 031617 10 TPHKDEKKKIVSLAPIA------------KPLAGKKLS---KRTLKLVRRAAEHKCLKRGVKEVVKSIRRGH 66 (156)
Q Consensus 10 ~~~~~~~~~~~~~~~~a------------~Pl~~~~l~---~ki~~lL~~A~kag~lv~G~~~v~kaI~k~k 66 (156)
|..++|.+....++||. .||.+++-+ .+++.++.+..+.|-+-. .|-|.++.+.|+
T Consensus 376 s~~~~~~~~~~~~npitg~~~~~~~~~~~~~mt~eeke~ea~~l~~lf~rl~~~g~i~~-~npv~~~~~~Gr 446 (446)
T PF10165_consen 376 SDTEEYKEAKRPINPITGQREDAEKPNPMPEMTEEEKEREAERLFVLFDRLEKTGVIQV-QNPVRQAGQDGR 446 (446)
T ss_pred CCCccccccccCcCCCcCCCCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhCCCcCc-chhhhhhhccCC
Confidence 44455777777888881 247777664 788899999999987754 777788877764
No 204
>cd01028 TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli topisomerases I and III, eukaryotic topoisomerase III and, ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA. These enzymes cleave one strand of the DNA duplex, covalently link to the 5' phosphoryl end of the DNA break and allow the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general b
Probab=30.67 E-value=1e+02 Score=22.78 Aligned_cols=45 Identities=9% Similarity=-0.015 Sum_probs=28.0
Q ss_pred CCccEEEEeCCCCch--hHHhhHHHHhHhcCCCcee--eC--CHHHHHhhc
Q 031617 65 GHKGLCVIAGNISPI--DVITHVPILCEESDIPYIY--VA--SKEDLANAG 109 (156)
Q Consensus 65 ~kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~i~--v~--sk~eLG~a~ 109 (156)
.++..||+|.|++.. .+..++...|...+.|+-. +. |+.++-+|+
T Consensus 89 ~~~d~iiiAtD~DrEGE~I~~~i~~~~~~~~~~v~R~~fsslT~~~I~~A~ 139 (142)
T cd01028 89 KKADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAF 139 (142)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHH
Confidence 356899999999863 3555677777654455522 22 455555443
No 205
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=30.66 E-value=1.8e+02 Score=24.22 Aligned_cols=72 Identities=6% Similarity=-0.028 Sum_probs=38.2
Q ss_pred CCCchhHHhhHHHHhHhcCCCceeeCC--HHHHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 75 NISPIDVITHVPILCEESDIPYIYVAS--KEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 75 D~~p~~~~~~l~~lc~~~nIP~i~v~s--k~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
..+|. -+..+..++++++|+++|+.+ ...+.+.+-+..++.+ ..+|+-.... ...-+.|.+.+++-...|.+
T Consensus 211 eps~~-~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v-~~l~~l~~~~--~~~~~~Y~~~m~~n~~~i~~ 284 (286)
T cd01019 211 DPGAK-RLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKV-GELDPLGGLI--ELGKNSYVNFLRNLADSLAS 284 (286)
T ss_pred CCCHH-HHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceE-EEeccccccc--ccchhhHHHHHHHHHHHHHH
Confidence 33444 466788899999999999852 4444444433333333 2222221100 01124677766666665543
No 206
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=30.58 E-value=74 Score=29.04 Aligned_cols=86 Identities=15% Similarity=0.133 Sum_probs=53.3
Q ss_pred HHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC---CHHHHHh-hcC--CcCceEEEEEecCCCCCCcchHH
Q 031617 60 KSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA---SKEDLAN-AGA--TKRPTCCVLVLTKPTKGELGQEE 133 (156)
Q Consensus 60 kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~---sk~eLG~-a~G--~~~~~svvaI~d~~~~~~~~~~~ 133 (156)
+.+++..-+.+++|.|+....=++.|..++++.+||+.-.. +-.++-+ ++. ++...-++-|-+.|.-+.
T Consensus 122 ~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~i----- 196 (451)
T COG0541 122 KYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHI----- 196 (451)
T ss_pred HHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccc-----
Confidence 45667788999999999866678999999999999987653 2333333 111 112234555555554332
Q ss_pred HHhhHHHHHHHHHHHHhhhc
Q 031617 134 QDKLKADYTLVVEDVKELAS 153 (156)
Q Consensus 134 ~~~~~~~y~e~~~~i~~~~~ 153 (156)
. .+.++|+...-+.+.|
T Consensus 197 d---e~Lm~El~~Ik~~~~P 213 (451)
T COG0541 197 D---EELMDELKEIKEVINP 213 (451)
T ss_pred c---HHHHHHHHHHHhhcCC
Confidence 1 3356666655555554
No 207
>cd04188 DPG_synthase DPG_synthase is involved in protein N-linked glycosylation. UDP-glucose:dolichyl-phosphate glucosyltransferase (DPG_synthase) is a transmembrane-bound enzyme of the endoplasmic reticulum involved in protein N-linked glycosylation. This enzyme catalyzes the transfer of glucose from UDP-glucose to dolichyl phosphate.
Probab=30.56 E-value=1.6e+02 Score=22.30 Aligned_cols=60 Identities=10% Similarity=0.032 Sum_probs=30.4
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcC-----ceEEEEEecCCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKR-----PTCCVLVLTKPTK 126 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~-----~~svvaI~d~~~~ 126 (156)
...++|+ .|.+.......+..++.+++..+..+.....+|.+-+... .--.++++|++..
T Consensus 30 ~~eiivv-dd~S~D~t~~~~~~~~~~~~~~i~~i~~~~n~G~~~a~~~g~~~a~gd~i~~ld~D~~ 94 (211)
T cd04188 30 SYEIIVV-DDGSKDGTAEVARKLARKNPALIRVLTLPKNRGKGGAVRAGMLAARGDYILFADADLA 94 (211)
T ss_pred CEEEEEE-eCCCCCchHHHHHHHHHhCCCcEEEEEcccCCCcHHHHHHHHHHhcCCEEEEEeCCCC
Confidence 3455554 5555545666677777766544334443333333221111 1246788876653
No 208
>PF13848 Thioredoxin_6: Thioredoxin-like domain; PDB: 3EC3_B 3BOA_A 2B5E_A 1BJX_A 2K18_A 3UEM_A 3BJ5_A 2BJX_A 2R2J_A 2L4C_A ....
Probab=30.26 E-value=1.7e+02 Score=21.52 Aligned_cols=91 Identities=12% Similarity=0.191 Sum_probs=54.5
Q ss_pred Ccccc---HHHHHHHHHcCCccEEEEeC-CCCch------hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEE
Q 031617 50 CLKRG---VKEVVKSIRRGHKGLCVIAG-NISPI------DVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVL 119 (156)
Q Consensus 50 ~lv~G---~~~v~kaI~k~kakLVIIA~-D~~p~------~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svva 119 (156)
.+.+| ..++.+...-....+++.=. |-.+. .-...|..+-..+..|.+...|...+....+...+..++.
T Consensus 22 ~~~F~~~~~~~~~~~~~~~~p~i~~~k~~~~~~~~y~~~~~~~~~l~~fI~~~~~P~v~~~t~~n~~~~~~~~~~~~~~~ 101 (184)
T PF13848_consen 22 DYQFGVTFNEELAKKYGIKEPTIVVYKKFDEKPVVYDGDKFTPEELKKFIKKNSFPLVPELTPENFEKLFSSPKPPVLIL 101 (184)
T ss_dssp TSEEEEEE-HHHHHHCTCSSSEEEEEECTTTSEEEESSSTTSHHHHHHHHHHHSSTSCEEESTTHHHHHHSTSSEEEEEE
T ss_pred CcEEEEEcHHHHHHHhCCCCCcEEEeccCCCCceecccccCCHHHHHHHHHHhccccccccchhhHHHHhcCCCceEEEE
Confidence 46666 45556555444445554433 22211 1366788888999999999989889999988875544444
Q ss_pred EecCCCCCCcchHHHHhhHHHHHHHHH
Q 031617 120 VLTKPTKGELGQEEQDKLKADYTLVVE 146 (156)
Q Consensus 120 I~d~~~~~~~~~~~~~~~~~~y~e~~~ 146 (156)
+.+ .. .+..+.+.+.+.++.+
T Consensus 102 ~~~-~~-----~~~~~~~~~~l~~~a~ 122 (184)
T PF13848_consen 102 FDN-KD-----NESTEAFKKELQDIAK 122 (184)
T ss_dssp EET-TT-----HHHHHHHHHHHHHHHH
T ss_pred EEc-CC-----chhHHHHHHHHHHHHH
Confidence 432 21 2345555565555554
No 209
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=30.19 E-value=1.3e+02 Score=22.37 Aligned_cols=68 Identities=15% Similarity=0.207 Sum_probs=34.1
Q ss_pred HHHHHHHHHcCC---ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCc--------CceEEEEEecC
Q 031617 55 VKEVVKSIRRGH---KGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATK--------RPTCCVLVLTK 123 (156)
Q Consensus 55 ~~~v~kaI~k~k---akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~--------~~~svvaI~d~ 123 (156)
+.+++++|.+.. .. |||..|.+......-+..++...+|.++.... .+|.+.+.. ...-.++++|+
T Consensus 12 l~~~l~sl~~q~~~~~e-iiivD~~s~d~t~~~~~~~~~~~~i~~~~~~~--n~g~~~~~n~~~~~a~~~~~d~v~~ld~ 88 (202)
T cd04185 12 LKECLDALLAQTRPPDH-IIVIDNASTDGTAEWLTSLGDLDNIVYLRLPE--NLGGAGGFYEGVRRAYELGYDWIWLMDD 88 (202)
T ss_pred HHHHHHHHHhccCCCce-EEEEECCCCcchHHHHHHhcCCCceEEEECcc--ccchhhHHHHHHHHHhccCCCEEEEeCC
Confidence 566777776643 34 45555555444566666666555544443332 333322111 12236778876
Q ss_pred CC
Q 031617 124 PT 125 (156)
Q Consensus 124 ~~ 125 (156)
+.
T Consensus 89 D~ 90 (202)
T cd04185 89 DA 90 (202)
T ss_pred CC
Confidence 54
No 210
>KOG2016 consensus NEDD8-activating complex, APP-BP1/UBA5 component [Posttranslational modification, protein turnover, chaperones]
Probab=30.13 E-value=42 Score=30.89 Aligned_cols=37 Identities=19% Similarity=0.273 Sum_probs=29.3
Q ss_pred EEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 69 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 69 LVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
-|++|++.... ..-+|+..|++.|||++.+.+---.|
T Consensus 121 tvViatnl~E~-~~~kl~~~l~~~~vpll~~rs~Gl~G 157 (523)
T KOG2016|consen 121 TVVIATNLNEQ-TLLKLAEILREANVPLLLTRSYGLAG 157 (523)
T ss_pred eeeeccccchh-hhhhhHHHHHhcCCceEEEeeecceE
Confidence 47889998774 67889999999999999887544333
No 211
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=30.12 E-value=1.5e+02 Score=27.29 Aligned_cols=63 Identities=19% Similarity=0.154 Sum_probs=42.9
Q ss_pred cCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhh-cCCcCceEEEEEecCCCCC
Q 031617 64 RGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 64 k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a-~G~~~~~svvaI~d~~~~~ 127 (156)
+|..++.+++.|.....-.+.|..+|+.+++|+..+.+..++-.. .+. ...-.+.|-..|.++
T Consensus 284 ~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L-~d~d~VLIDTaGr~~ 347 (484)
T PRK06995 284 HGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSEL-RNKHIVLIDTIGMSQ 347 (484)
T ss_pred cCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhc-cCCCeEEeCCCCcCh
Confidence 345578899999865556778899999999999877776655443 333 233456666666443
No 212
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=29.84 E-value=3e+02 Score=22.19 Aligned_cols=51 Identities=12% Similarity=0.063 Sum_probs=31.1
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC--H-------HHHHhhcCCc
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS--K-------EDLANAGATK 112 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s--k-------~eLG~a~G~~ 112 (156)
-...|..-+.-+||......+......| ++.+||++++.. - ..||+++|++
T Consensus 64 n~E~il~l~PDlVi~~~~~~~~~~~~~L----~~~gi~v~~~~~~~~~~~~~~i~~lg~~~g~~ 123 (260)
T PRK03379 64 NLERIVALKPDLVLAWRGGNAERQVDQL----ASLGIKVMWVDATSIEQIANALRQLAPWSPQP 123 (260)
T ss_pred CHHHHHhcCCCEEEEecCCCcHHHHHHH----HHCCCCEEEeCCCCHHHHHHHHHHHHHHcCCH
Confidence 3556666778888765543332333333 589999988742 2 3567776654
No 213
>PRK00766 hypothetical protein; Provisional
Probab=29.73 E-value=98 Score=24.98 Aligned_cols=46 Identities=20% Similarity=0.206 Sum_probs=33.2
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceee----CCHHHHHhhcC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYV----ASKEDLANAGA 110 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v----~sk~eLG~a~G 110 (156)
.++++|++.+-+-----+-.+..+.++-++|++.| ++.+.+-.|+-
T Consensus 70 ~~i~~V~L~Git~agFNvvD~~~l~~~tg~PVI~V~r~~p~~~~ie~AL~ 119 (194)
T PRK00766 70 GQLRVIMLDGITYGGFNVVDIEELYRETGLPVIVVMRKKPDFEAIESALK 119 (194)
T ss_pred cceEEEEECCEeeeeeEEecHHHHHHHHCCCEEEEEecCCCHHHHHHHHH
Confidence 47889998887643222445688889999999888 67777776663
No 214
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=29.69 E-value=1.2e+02 Score=20.49 Aligned_cols=39 Identities=21% Similarity=0.387 Sum_probs=25.5
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.++.+..|+ .|.|++.|- . ....|+.+|++.+-.++...
T Consensus 29 ~l~~l~~G~-~l~V~~dd~--~-~~~di~~~~~~~G~~~~~~~ 67 (81)
T PRK00299 29 TVRNMQPGE-TLLIIADDP--A-TTRDIPSFCRFMDHELLAQE 67 (81)
T ss_pred HHHcCCCCC-EEEEEeCCc--c-HHHHHHHHHHHcCCEEEEEE
Confidence 333443343 356667663 2 47899999999999886543
No 215
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=29.48 E-value=1.1e+02 Score=19.93 Aligned_cols=39 Identities=23% Similarity=0.352 Sum_probs=32.1
Q ss_pred cCCCCChHHHHHHHHHHHHHHhcC-CccccHHHHHHHHHcC
Q 031617 26 AKPLAGKKLSKRTLKLVRRAAEHK-CLKRGVKEVVKSIRRG 65 (156)
Q Consensus 26 a~Pl~~~~l~~ki~~lL~~A~kag-~lv~G~~~v~kaI~k~ 65 (156)
=+|+.+++ .+.++.+...++..| ....|++.++++|...
T Consensus 16 RRp~~~~e-~~~~~~~~~~~~~~g~~~~~a~~~~l~aiL~S 55 (64)
T PF07637_consen 16 RRPLTDEE-VDRYLALYDSARAQGEDFEEALKEALQAILCS 55 (64)
T ss_pred CCCCCHHH-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Confidence 46887777 788999999999865 4999999999998653
No 216
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=29.12 E-value=1.2e+02 Score=22.54 Aligned_cols=90 Identities=9% Similarity=0.011 Sum_probs=44.9
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCch----------hHHhhHHHHhHhcCCCceeeCCHHHHHh-hcCCcCceEEEE
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPI----------DVITHVPILCEESDIPYIYVASKEDLAN-AGATKRPTCCVL 119 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~----------~~~~~l~~lc~~~nIP~i~v~sk~eLG~-a~G~~~~~svva 119 (156)
+..+..++++.+.+....++|+.+=-... +....+..++.+++|||-.+. +|+ .||... .-
T Consensus 25 ~~~~~ie~L~~l~~~G~~IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~k~~ipYd~l~----~~kp~~~~~~----~~ 96 (126)
T TIGR01689 25 PILAVIEKLRHYKALGFEIVISSSRNMRTYEGNVGKINIHTLPIIILWLNQHNVPYDEIY----VGKPWCGHDG----FY 96 (126)
T ss_pred cCHHHHHHHHHHHHCCCEEEEECCCCchhhhccccccchhhHHHHHHHHHHcCCCCceEE----eCCCcCCCCC----ce
Confidence 33455555555544444444444322110 123477889999999994432 333 233210 11
Q ss_pred EecCCCCCCcchHHHHhhHHHHHHHHHHHHhhhcc
Q 031617 120 VLTKPTKGELGQEEQDKLKADYTLVVEDVKELASS 154 (156)
Q Consensus 120 I~d~~~~~~~~~~~~~~~~~~y~e~~~~i~~~~~~ 154 (156)
|-| +...-.+=.+-.|+||.+.++...++
T Consensus 97 ~dD------~~ir~~~~~~~~~~~~~~~~~~~~~~ 125 (126)
T TIGR01689 97 VDD------RAIRPSEFSSLTYDEINTLTKIDKSC 125 (126)
T ss_pred ecc------hhhCHHHHHhcCHHHHHHHHhhcccC
Confidence 211 12222333344688998888665554
No 217
>PRK00098 GTPase RsgA; Reviewed
Probab=29.04 E-value=66 Score=26.99 Aligned_cols=26 Identities=31% Similarity=0.384 Sum_probs=19.2
Q ss_pred HHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 81 VITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 81 ~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
....+...++..++|++.+.+|.+|-
T Consensus 99 ~idr~L~~~~~~~ip~iIVlNK~DL~ 124 (298)
T PRK00098 99 LLDRFLVLAEANGIKPIIVLNKIDLL 124 (298)
T ss_pred HHHHHHHHHHHCCCCEEEEEEhHHcC
Confidence 34555566778888888888888873
No 218
>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]
Probab=29.01 E-value=1.4e+02 Score=25.99 Aligned_cols=50 Identities=10% Similarity=0.110 Sum_probs=37.9
Q ss_pred cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHH
Q 031617 54 GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLA 106 (156)
Q Consensus 54 G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG 106 (156)
...++++.+-+-+.-.||++.+..+. ..+...|++++||+.... +..+|-
T Consensus 69 ~r~~~i~~~~~~~~P~iI~sk~~~~p---~~l~~~a~~~~~pil~s~~~ts~l~ 119 (308)
T COG1493 69 ERKKRIGKLFSLDTPALIVSKGLPIP---EELLDAAKKYNIPILTSKLSTSELS 119 (308)
T ss_pred hHHHHHHHHhCcCCCEEEEECCCCCC---HHHHHHHHHcCCceEEecchHHHHH
Confidence 34556677777889999999999773 567889999999998875 344443
No 219
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=28.79 E-value=1.4e+02 Score=23.42 Aligned_cols=42 Identities=12% Similarity=0.057 Sum_probs=24.6
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+...++.-+|+..- ++.... .....+.+++||++++.
T Consensus 48 ~~i~~l~~~~vdgiii~~~-~~~~~~-~~l~~~~~~~ipvV~~~ 89 (271)
T cd06312 48 RLIEAAIAAKPDGIVVTIP-DPDALD-PAIKRAVAAGIPVISFN 89 (271)
T ss_pred HHHHHHHHhCCCEEEEeCC-ChHHhH-HHHHHHHHCCCeEEEeC
Confidence 4444555567777777652 232122 33455577899998885
No 220
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=28.74 E-value=93 Score=25.16 Aligned_cols=51 Identities=24% Similarity=0.139 Sum_probs=30.6
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
.++..+++.-.+-++++...-....-...+..++.+.++|++.+.+|.++-
T Consensus 79 ~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~~ 129 (237)
T cd04168 79 AEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDRA 129 (237)
T ss_pred HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccc
Confidence 345666666555555553332222234556677888899988877766554
No 221
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=28.71 E-value=2.1e+02 Score=20.14 Aligned_cols=49 Identities=10% Similarity=0.066 Sum_probs=31.9
Q ss_pred HHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCc
Q 031617 59 VKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATK 112 (156)
Q Consensus 59 ~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~ 112 (156)
.+.+....+.+|.|..|... . . ..+++++++|+-.+. ...++.+++|..
T Consensus 50 ~~~~~~~~v~vv~V~~~~~~-~-~---~~~~~~~~~~~p~~~D~~~~~~~~~g~~ 99 (149)
T cd02970 50 LPELDALGVELVAVGPESPE-K-L---EAFDKGKFLPFPVYADPDRKLYRALGLV 99 (149)
T ss_pred HHHHHhcCeEEEEEeCCCHH-H-H---HHHHHhcCCCCeEEECCchhHHHHcCce
Confidence 33444556788888877532 1 1 267788888885554 467888888873
No 222
>PF05159 Capsule_synth: Capsule polysaccharide biosynthesis protein; InterPro: IPR007833 This family includes export proteins involved in capsule polysaccharide biosynthesis, such as KpsS P42218 from SWISSPROT and LipB P57038 from SWISSPROT. Capsule polysaccharide modification protein lipB/A is involved in the phospholipid modification of the capsular polysaccharide and is a strong requirement for its translocation to the cell surface. The capsule of Neisseria meningitidis serogroup B and of other meningococcal serogroups and other Gram-negative bacterial pathogens, are anchored in the outer membrane through a 1,2-diacylglycerol moiety. The lipA and lipB genes are located on the 3' end of the ctr operon. lipA and lipB do not encode proteins responsible for diacylglycerophosphatidic acid substitution of the meningococcal capsule polymer, but they are required for proper translocation and surface expression of the lipidated polymer []. KpsS is an unusual sulphate-modified form of the capsular polysaccharide in Rhizobium loti (Mesorhizobium loti). Many plants, including R. loti, enter into symbiotic relationships with bacteria that allow survival in nutrient-limiting environments. KpsS functions as a fucosyl sulphotransferase in vitro. The kpsS gene product shares no significant amino acid similarity with previously identified sulphotransferases []. Sulphated cell surface polysaccharides are required for optimum nodule formation but limit growth rate and nodule colonisation in M. loti [].; GO: 0000271 polysaccharide biosynthetic process, 0015774 polysaccharide transport
Probab=28.54 E-value=71 Score=25.91 Aligned_cols=29 Identities=24% Similarity=0.377 Sum_probs=22.8
Q ss_pred EEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 70 CVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 70 VIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
||+=+|+.+. -.-...+|+++|||+++++
T Consensus 3 v~~wg~~~~~--~~~~~~~a~~~~i~~~~~E 31 (269)
T PF05159_consen 3 VVVWGDKRPY--HRAAIEVAKELGIPVIFFE 31 (269)
T ss_pred EEEECCCccH--HHHHHHHHHHhCCCEEEEe
Confidence 6677887663 4556788999999999986
No 223
>TIGR03603 cyclo_dehy_ocin bacteriocin biosynthesis cyclodehydratase, SagC family. Members of this protein family include enzymes related to SagC, a cyclodehydratase involved in the biosynthesis of streptolysin S in Streptococcus pyogenes from the protoxin polypeptide (product of the sagA gene). This protein family serves as a marker for widely distributed prokaryotic systems for making a general class of heterocycle-containing bacteriocins. Note that this model does not find all possible examples of bacteriocin biosynthesis cyclodehydratases, an in particular misses the E. coli plasmid protein McbB of microcin B17 biosynthesis.
Probab=28.52 E-value=71 Score=27.39 Aligned_cols=36 Identities=17% Similarity=0.194 Sum_probs=28.3
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
....+||.+.|--...+...+-++|.+.++|+++..
T Consensus 150 ~~~DlVid~tDn~~~r~L~~iN~ac~~~~~PlV~ga 185 (318)
T TIGR03603 150 KDYNYIIICTEHSNISLLRGLNKLSKETKKPNTIAF 185 (318)
T ss_pred CCCCEEEECCCCccHhHHHHHHHHHHHHCCCEEEEE
Confidence 448899999997554455668899999999998643
No 224
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family 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 active site made up of residues located at the C-terminal side of the sheets,
Probab=28.44 E-value=1.2e+02 Score=24.64 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=27.0
Q ss_pred HHHHHHHcCCccEEEEeCCCCchh----HHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPID----VITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~----~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.+.++...+.+||+++|..... -...+.......++|+..+.
T Consensus 22 ~l~~~~~~~~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~l~~pv~~V~ 69 (224)
T cd07388 22 KLVGLAPETGADAIVLIGNLLPKAAKSEDYAAFFRILGEAHLPTFYVP 69 (224)
T ss_pred HHHHHHhhcCCCEEEECCCCCCCCCCHHHHHHHHHHHHhcCCceEEEc
Confidence 344444556789999999995421 12223333456678888885
No 225
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=28.39 E-value=2e+02 Score=25.33 Aligned_cols=66 Identities=18% Similarity=0.297 Sum_probs=52.7
Q ss_pred ChHHHHHHHHHHHHHHhc-------CCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc
Q 031617 31 GKKLSKRTLKLVRRAAEH-------KCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY 96 (156)
Q Consensus 31 ~~~l~~ki~~lL~~A~ka-------g~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~ 96 (156)
-+-|.+.-+.++..++.. ..+....+.++..+.++.+++|+=++-.+|......+..++++.++++
T Consensus 29 ~d~LaE~tma~~~~~~~~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg~np~~~a~~v~eia~e~Gl~l 101 (362)
T PF07287_consen 29 GDYLAERTMAILARAKRKDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGGLNPAGCADIVREIARELGLSL 101 (362)
T ss_pred EecHHHHHHHHHHHHHhhCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHHHHHhcCCCe
Confidence 344555566666665543 237778889999999999999999999999999999999999999874
No 226
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=28.37 E-value=1.6e+02 Score=18.53 Aligned_cols=41 Identities=15% Similarity=0.239 Sum_probs=27.1
Q ss_pred HHHHHHHcCC--ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGH--KGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~k--akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.++|++-. -.+.|++.|-. -...|+.+|+++|..+..+.
T Consensus 15 ~~~~~l~~l~~g~~l~v~~d~~~---~~~~i~~~~~~~g~~~~~~~ 57 (69)
T cd00291 15 KTKKALEKLKSGEVLEVLLDDPG---AVEDIPAWAKETGHEVLEVE 57 (69)
T ss_pred HHHHHHhcCCCCCEEEEEecCCc---HHHHHHHHHHHcCCEEEEEE
Confidence 3455665522 34666766643 37789999999998876554
No 227
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=28.34 E-value=3.6e+02 Score=22.60 Aligned_cols=63 Identities=14% Similarity=0.103 Sum_probs=43.4
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcC---CcCceEEEEEecCCCCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA---TKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G---~~~~~svvaI~d~~~~~ 127 (156)
+.....+++.|.........+..+++..++|+....+..+|..++. .....-++.|-++|.++
T Consensus 102 ~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~ 167 (270)
T PRK06731 102 KKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNY 167 (270)
T ss_pred cCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCc
Confidence 3456788889877656777888899999999988778777766542 11124456666666554
No 228
>cd03008 TryX_like_RdCVF Tryparedoxin (TryX)-like family, Rod-derived cone viability factor (RdCVF) subfamily; RdCVF is a thioredoxin (TRX)-like protein specifically expressed in photoreceptors. RdCVF was isolated and identified as a factor that supports cone survival in retinal cultures. Cone photoreceptor loss is responsible for the visual handicap resulting from the inherited disease, retinitis pigmentosa. RdCVF shows 33% similarity to TRX but does not exhibit any detectable thiol oxidoreductase activity.
Probab=28.33 E-value=1.5e+02 Score=22.53 Aligned_cols=55 Identities=11% Similarity=0.129 Sum_probs=33.4
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCcee--eC--CHHHHHhhcCCcCceEEEEEecCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIY--VA--SKEDLANAGATKRPTCCVLVLTKPT 125 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~--v~--sk~eLG~a~G~~~~~svvaI~d~~~ 125 (156)
+..+|.|+.|-++. .+..+.+++++++.+ +. ...+|++..|.. ..-...++|+.+
T Consensus 65 ~~~vV~Vs~D~~~~----~~~~f~~~~~~~~~~~p~~~~~~~~l~~~y~v~-~iPt~vlId~~G 123 (146)
T cd03008 65 QLALVYVSMDQSEQ----QQESFLKDMPKKWLFLPFEDEFRRELEAQFSVE-ELPTVVVLKPDG 123 (146)
T ss_pred CEEEEEEECCCCHH----HHHHHHHHCCCCceeecccchHHHHHHHHcCCC-CCCEEEEECCCC
Confidence 46677777665442 344566788866422 22 345899998875 344566666554
No 229
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=28.28 E-value=99 Score=23.84 Aligned_cols=40 Identities=10% Similarity=0.051 Sum_probs=25.8
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
.+.++++-.|......-..+...+++.+.|+++|.+|.++
T Consensus 80 ~~d~~l~v~~~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~ 119 (197)
T cd04104 80 EYDFFIIISSTRFSSNDVKLAKAIQCMGKKFYFVRTKVDR 119 (197)
T ss_pred CcCEEEEEeCCCCCHHHHHHHHHHHHhCCCEEEEEecccc
Confidence 3344433334443344555666777789999999998887
No 230
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=28.27 E-value=38 Score=22.30 Aligned_cols=25 Identities=20% Similarity=0.408 Sum_probs=19.8
Q ss_pred HHHHHhcCCccccHHHHHHHHHcCC
Q 031617 42 VRRAAEHKCLKRGVKEVVKSIRRGH 66 (156)
Q Consensus 42 L~~A~kag~lv~G~~~v~kaI~k~k 66 (156)
+..|++.++++.|+...+++.+.|+
T Consensus 24 ~~kAr~~~R~~K~~~~~I~~~~aG~ 48 (59)
T smart00685 24 EEKARRHLRIAKQFDDAIKAARAGR 48 (59)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHCCC
Confidence 3456666778899999999998886
No 231
>COG1803 MgsA Methylglyoxal synthase [Carbohydrate transport and metabolism]
Probab=28.26 E-value=1.3e+02 Score=23.09 Aligned_cols=59 Identities=19% Similarity=0.175 Sum_probs=46.3
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCC------CchhHHhhHHHHhHhcCCCce-eeCCHHHHHhhcCCc
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNI------SPIDVITHVPILCEESDIPYI-YVASKEDLANAGATK 112 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~------~p~~~~~~l~~lc~~~nIP~i-~v~sk~eLG~a~G~~ 112 (156)
.-|..|+=..|..|++-++|.--|- +| + ++.|.++|.=+|||+- ...|-+-|=...+..
T Consensus 61 mGGDQQiGa~Iaeg~id~lIFf~DPLtaqPHdp-D-VkAL~Rl~~V~nIP~A~N~aTAe~li~~~~~~ 126 (142)
T COG1803 61 MGGDQQIGALIAEGKIDVLIFFWDPLTAQPHDP-D-VKALLRLATVYNIPVATNRATAEFLIKSLLFN 126 (142)
T ss_pred CCccHHHHHHHhcCcceEEEEEecCCCCCCCCc-C-HHHHHHHHHhhcccchhhHhHHHHHHhccccC
Confidence 3688899999999999999998773 23 4 6778999999999994 456777777766654
No 232
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=28.20 E-value=2.2e+02 Score=20.07 Aligned_cols=47 Identities=15% Similarity=0.049 Sum_probs=30.5
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC----HHHHHhhcCCc
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS----KEDLANAGATK 112 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s----k~eLG~a~G~~ 112 (156)
+++.+|.|+.|-.. +....+..+.+++++++.++.+ ...|.+.+|..
T Consensus 58 ~~v~~v~vs~d~~~-d~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~g~~ 108 (142)
T cd02968 58 DDVQVVFISVDPER-DTPEVLKAYAKAFGPGWIGLTGTPEEIEALAKAFGVY 108 (142)
T ss_pred CceEEEEEEECCCC-CCHHHHHHHHHHhCCCcEEEECCHHHHHHHHHHhcEE
Confidence 36888888887532 1234556677788777766653 35777887753
No 233
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=28.19 E-value=35 Score=22.49 Aligned_cols=30 Identities=23% Similarity=0.354 Sum_probs=22.4
Q ss_pred hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcC
Q 031617 80 DVITHVPILCEESDIPYIYVASKEDLANAGATKR 113 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~ 113 (156)
++...|...-++++.| +|-.|++.++|.+.
T Consensus 10 ~vL~~I~~~~~~~G~~----Pt~rEIa~~~g~~S 39 (65)
T PF01726_consen 10 EVLEFIREYIEENGYP----PTVREIAEALGLKS 39 (65)
T ss_dssp HHHHHHHHHHHHHSS-------HHHHHHHHTSSS
T ss_pred HHHHHHHHHHHHcCCC----CCHHHHHHHhCCCC
Confidence 4667777777889988 89999999999874
No 234
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=28.13 E-value=1.4e+02 Score=24.58 Aligned_cols=48 Identities=21% Similarity=0.225 Sum_probs=31.8
Q ss_pred HHHHHHH-cCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC--CHHHHHh
Q 031617 57 EVVKSIR-RGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA--SKEDLAN 107 (156)
Q Consensus 57 ~v~kaI~-k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~--sk~eLG~ 107 (156)
+..+.++ +..+.+++||.|+-.. --+..+-+..+||++.+- .-..+.+
T Consensus 51 ~~~~~L~~~~g~d~ivIaCNTA~a---~~~~~l~~~~~iPii~iie~~v~~a~~ 101 (251)
T TIGR00067 51 ELLTFLKERHNIKLLVVACNTASA---LALEDLQRNFDFPVVGVIEPAIKAAIR 101 (251)
T ss_pred HHHHHHHHhCCCCEEEEeCchHHH---HHHHHHHHHCCCCEEeecHHHHHHHHH
Confidence 3445666 7789999999998432 124555567899998843 4445544
No 235
>PF12850 Metallophos_2: Calcineurin-like phosphoesterase superfamily domain; InterPro: IPR024654 Domains in this entry are members of the calcineurin-like phosphoesterase domain superfamily [].; PDB: 2GJU_A 1Z2W_A 1Z2X_B 3PSO_B 3PSN_B 1W24_A 2R17_B 3QFN_B 3QFO_A 3QFM_A ....
Probab=28.05 E-value=1.2e+02 Score=21.58 Aligned_cols=36 Identities=25% Similarity=0.456 Sum_probs=22.2
Q ss_pred HHHHHHHcCCccEEEEeCCC-CchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNI-SPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~-~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
++++.+ +++.+||+++|. ++.++.+.+..+ |+.++.
T Consensus 18 ~~~~~~--~~~d~vi~~GDi~~~~~~~~~~~~~------~~~~v~ 54 (156)
T PF12850_consen 18 AVLEYI--NEPDFVIILGDIFDPEEVLELLRDI------PVYVVR 54 (156)
T ss_dssp HHHHHH--TTESEEEEES-SCSHHHHHHHHHHH------EEEEE-
T ss_pred HHHHHh--cCCCEEEECCCchhHHHHHHHHhcC------CEEEEe
Confidence 556666 469999999999 554444444322 776764
No 236
>PRK10200 putative racemase; Provisional
Probab=28.05 E-value=88 Score=25.35 Aligned_cols=46 Identities=15% Similarity=0.187 Sum_probs=33.6
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
..-=..+..+.+++..+++++||.|+... .. ..+-+..+||++-+-
T Consensus 60 ~~~~l~~~~~~L~~~g~~~iviaCNTah~-~~---~~l~~~~~iPii~ii 105 (230)
T PRK10200 60 TGDILAEAALGLQRAGAEGIVLCTNTMHK-VA---DAIESRCSLPFLHIA 105 (230)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCchHHH-HH---HHHHHhCCCCEeehH
Confidence 44455667778888889999999998653 44 444466789998754
No 237
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=28.02 E-value=69 Score=25.90 Aligned_cols=53 Identities=19% Similarity=0.283 Sum_probs=36.3
Q ss_pred CCcccc------HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee-eCCHHHHHhh
Q 031617 49 KCLKRG------VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANA 108 (156)
Q Consensus 49 g~lv~G------~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a 108 (156)
+.+..| .+++.++++.| ++++ ++|. +...+...|++++||++- +.|-.|.-+|
T Consensus 58 ~~~~vGAGTVl~~~~a~~a~~aG-A~Fi-----vsP~-~~~~v~~~~~~~~i~~iPG~~TptEi~~A 117 (204)
T TIGR01182 58 PDALIGAGTVLNPEQLRQAVDAG-AQFI-----VSPG-LTPELAKHAQDHGIPIIPGVATPSEIMLA 117 (204)
T ss_pred CCCEEEEEeCCCHHHHHHHHHcC-CCEE-----ECCC-CCHHHHHHHHHcCCcEECCCCCHHHHHHH
Confidence 346555 46777777766 7777 3563 556678889999999865 4466665554
No 238
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=27.92 E-value=2.8e+02 Score=24.91 Aligned_cols=61 Identities=13% Similarity=0.025 Sum_probs=44.8
Q ss_pred ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCC
Q 031617 67 KGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 67 akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~ 127 (156)
.+.-++..|.........+..+|+-.|+|+..+.+..++..++..-...-.+.|-+.|-++
T Consensus 222 ~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~d~VLIDTaGrsq 282 (420)
T PRK14721 222 DKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGKHMVLIDTVGMSQ 282 (420)
T ss_pred CeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCCCEEEecCCCCCc
Confidence 4556677787666678889999999999999888888887654433344567776666554
No 239
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, 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 from other serine hydrolases, but may lack the carboxlic acid.
Probab=27.91 E-value=79 Score=23.49 Aligned_cols=51 Identities=8% Similarity=0.083 Sum_probs=33.6
Q ss_pred ccccHHHHHHHHHcCCccEEEEeC------CC---------CchhHHhhHHHHhHhcCCCceeeCC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAG------NI---------SPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~------D~---------~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+..+.++.++.+++..+.+|++.. .. ....+-..+..+|.+++|+|+-+.+
T Consensus 81 ~~~~~~~li~~~~~~~~~~il~~~~p~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~v~~vd~~~ 146 (183)
T cd04501 81 IKDNIRSMVELAEANGIKVILASPLPVDDYPWKPQWLRPANKLKSLNRWLKDYARENGLLFLDFYS 146 (183)
T ss_pred HHHHHHHHHHHHHHCCCcEEEEeCCCcCccccchhhcchHHHHHHHHHHHHHHHHHcCCCEEechh
Confidence 445566666777666677777751 11 0113556688999999999987764
No 240
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=27.89 E-value=59 Score=23.10 Aligned_cols=42 Identities=10% Similarity=0.053 Sum_probs=26.3
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchh---HHhhHHHHhHhcCCCce
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPID---VITHVPILCEESDIPYI 97 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~---~~~~l~~lc~~~nIP~i 97 (156)
..+...|+++++.+||-..+-.... ---.+.+.|-+++||++
T Consensus 61 ~~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~i 105 (116)
T cd01423 61 PSLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLI 105 (116)
T ss_pred hhHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCccc
Confidence 5577777788888887754321110 01346777888888885
No 241
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=27.85 E-value=76 Score=20.89 Aligned_cols=40 Identities=8% Similarity=0.135 Sum_probs=30.5
Q ss_pred EEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCC
Q 031617 69 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGAT 111 (156)
Q Consensus 69 LVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~ 111 (156)
.+|+....+. .-....+++++||++..+++-.+++.-||.
T Consensus 4 ~~i~F~st~~---a~~~ek~lk~~gi~~~liP~P~~i~~~CG~ 43 (73)
T PF11823_consen 4 YLITFPSTHD---AMKAEKLLKKNGIPVRLIPTPREISAGCGL 43 (73)
T ss_pred EEEEECCHHH---HHHHHHHHHHCCCcEEEeCCChhccCCCCE
Confidence 4555555433 344577899999999999999999988885
No 242
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=27.78 E-value=2.3e+02 Score=22.28 Aligned_cols=63 Identities=16% Similarity=0.165 Sum_probs=41.3
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH----HHHhhcCC--cCceEEEEEecCCCCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE----DLANAGAT--KRPTCCVLVLTKPTKGE 128 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~----eLG~a~G~--~~~~svvaI~d~~~~~~ 128 (156)
..+..+++.|....--.+.|..+|+..|||+....+.. .+-+++.. ....-+|.|-.+|.+..
T Consensus 29 ~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~ 97 (196)
T PF00448_consen 29 GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPR 97 (196)
T ss_dssp T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSST
T ss_pred cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchh
Confidence 78899999999876678889999999999987765322 23233321 11244788877776543
No 243
>COG4294 Uve UV damage repair endonuclease [DNA replication, recombination, and repair]
Probab=27.73 E-value=36 Score=29.73 Aligned_cols=62 Identities=23% Similarity=0.333 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHhc------CCccccHH----HHHHHHHc--CC--ccEEEEeCCCCchhHHhhHHHHhHhcCCCceee
Q 031617 36 KRTLKLVRRAAEH------KCLKRGVK----EVVKSIRR--GH--KGLCVIAGNISPIDVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 36 ~ki~~lL~~A~ka------g~lv~G~~----~v~kaI~k--~k--akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v 99 (156)
.++++.++++-++ |..-.|.. |..+.|.+ .. .+|. +-.| +....++.+..+|++-+||+||=
T Consensus 161 ~r~l~~mgl~~Rs~~~lhlgg~~gGK~~~~eqf~kni~~LP~~vksRl~-LEND-d~sYs~eelL~lCek~~iPlVfD 236 (347)
T COG4294 161 YRILDGMGLAERSVWNLHLGGTHGGKKERLEQFIKNIQRLPDSVKSRLT-LEND-DKSYSTEELLPLCEKLNIPLVFD 236 (347)
T ss_pred HHHHhhcCCCcCCceEEEeccccCCchhHHHHHHHHHhhcCHHHHHhhe-eecc-cccccHHHHHHHHHHhCCCEEEe
Confidence 5666777777443 33334444 44444433 11 3333 3333 33346888999999999999873
No 244
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=27.72 E-value=3.2e+02 Score=24.72 Aligned_cols=63 Identities=11% Similarity=0.136 Sum_probs=40.2
Q ss_pred cCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH--------HHHHhhcCCcCceEEEEEecCCCCCC
Q 031617 64 RGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK--------EDLANAGATKRPTCCVLVLTKPTKGE 128 (156)
Q Consensus 64 k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk--------~eLG~a~G~~~~~svvaI~d~~~~~~ 128 (156)
+...+.++++.|.....-...+..+++..+||+....+. ..+-++-. ...-+|.|-++|..+.
T Consensus 126 ~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~--~~~DvViIDTaGr~~~ 196 (429)
T TIGR01425 126 RKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKK--ENFDIIIVDTSGRHKQ 196 (429)
T ss_pred HCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHHh--CCCCEEEEECCCCCcc
Confidence 334589999999876556777788899999998755431 23333321 1234677766665443
No 245
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=27.68 E-value=74 Score=26.13 Aligned_cols=37 Identities=27% Similarity=0.358 Sum_probs=27.5
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY 98 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~ 98 (156)
..++..++..| ++|+| +|. +...+...|..++|||+=
T Consensus 75 ~~q~~~a~~aG-a~fiV-----sP~-~~~ev~~~a~~~~ip~~P 111 (211)
T COG0800 75 PEQARQAIAAG-AQFIV-----SPG-LNPEVAKAANRYGIPYIP 111 (211)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHhCCCcccC
Confidence 46777777777 77765 563 566678899999999854
No 246
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=27.62 E-value=3.5e+02 Score=22.29 Aligned_cols=96 Identities=14% Similarity=0.253 Sum_probs=54.3
Q ss_pred CcccCCCCChHHH--------------HHHHHHHHHHHhcC-C------------ccccHHHHHHHHHcCCccEEEEeCC
Q 031617 23 APIAKPLAGKKLS--------------KRTLKLVRRAAEHK-C------------LKRGVKEVVKSIRRGHKGLCVIAGN 75 (156)
Q Consensus 23 ~~~a~Pl~~~~l~--------------~ki~~lL~~A~kag-~------------lv~G~~~v~kaI~k~kakLVIIA~D 75 (156)
.|+..|+|+..+= +.++++++..++.. . +..|...-.+...+-.+.-|++- |
T Consensus 45 iPfsDP~aDGpvIq~a~~~al~~G~~~~~~~~~v~~ir~~~~~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviip-D 123 (256)
T TIGR00262 45 VPFSDPLADGPTIQAADLRALRAGMTPEKCFELLKKVRQKHPNIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVA-D 123 (256)
T ss_pred CCCCCCCCcCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEEC-C
Confidence 5888999887552 45666666666431 1 12255555555554445444443 6
Q ss_pred CCchhHHhhHHHHhHhcCCCceee--C-C-HHHHHhhcCCcC-ceEEEEE
Q 031617 76 ISPIDVITHVPILCEESDIPYIYV--A-S-KEDLANAGATKR-PTCCVLV 120 (156)
Q Consensus 76 ~~p~~~~~~l~~lc~~~nIP~i~v--~-s-k~eLG~a~G~~~-~~svvaI 120 (156)
..+ +....+...|+++++..+.+ + | -+.+...+.... .+-++.+
T Consensus 124 lp~-ee~~~~~~~~~~~gl~~i~lv~P~T~~eri~~i~~~~~gfiy~vs~ 172 (256)
T TIGR00262 124 LPL-EESGDLVEAAKKHGVKPIFLVAPNADDERLKQIAEKSQGFVYLVSR 172 (256)
T ss_pred CCh-HHHHHHHHHHHHCCCcEEEEECCCCCHHHHHHHHHhCCCCEEEEEC
Confidence 544 45777889999999876543 2 3 345544443322 2444444
No 247
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=27.41 E-value=1.3e+02 Score=24.90 Aligned_cols=48 Identities=17% Similarity=0.063 Sum_probs=28.7
Q ss_pred cccHHHHHHHHHcC-CccEEE---EeCC--CCchhHHhhHHHHhHhcCCCceeeC
Q 031617 52 KRGVKEVVKSIRRG-HKGLCV---IAGN--ISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 52 v~G~~~v~kaI~k~-kakLVI---IA~D--~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.-.+.....+.+. ..+.+- +..+ .+|. -+..+..+.++++|+++|+.
T Consensus 164 ~~t~H~af~Y~~~~ygl~~~~~~~~~~~~eps~~-~l~~l~~~ik~~~v~~if~e 217 (276)
T cd01016 164 LVTAHDAFGYFGRAYGFEVKGLQGISTDSEAGLR-DINELVDLIVERKIKAIFVE 217 (276)
T ss_pred EEEecCcHHHHHHHcCCeEecCcCCCcccCCCHH-HHHHHHHHHHHcCCCEEEEe
Confidence 33344466666543 222222 1233 3344 47778899999999999985
No 248
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=27.38 E-value=1.3e+02 Score=24.95 Aligned_cols=20 Identities=25% Similarity=0.418 Sum_probs=11.2
Q ss_pred HHHHHHcCCccEEEEeCCCC
Q 031617 58 VVKSIRRGHKGLCVIAGNIS 77 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~ 77 (156)
++......++-++|+|+|..
T Consensus 22 ~~~~~~~~~~D~lviaGDlt 41 (226)
T COG2129 22 LLNAAADIRADLLVIAGDLT 41 (226)
T ss_pred HHHHHhhccCCEEEEeccee
Confidence 33344444566666666665
No 249
>TIGR02355 moeB molybdopterin synthase sulfurylase MoeB. This model describes the molybdopterin biosynthesis protein MoeB in E. coli and related species. The enzyme covalently modifies the molybdopterin synthase MoaD by sulfurylation. This enzyme is closely related to ThiF, a thiamine biosynthesis enzyme that modifies ThiS by an analogous adenylation. Both MoeB and ThiF belong to the HesA/MoeB/ThiF family (pfam00899).
Probab=27.34 E-value=80 Score=25.81 Aligned_cols=35 Identities=14% Similarity=0.236 Sum_probs=28.5
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
....+||.|.|. + .....|-.+|.+++||+++...
T Consensus 113 ~~~DlVvd~~D~-~-~~r~~ln~~~~~~~ip~v~~~~ 147 (240)
T TIGR02355 113 AEHDIVVDCTDN-V-EVRNQLNRQCFAAKVPLVSGAA 147 (240)
T ss_pred hcCCEEEEcCCC-H-HHHHHHHHHHHHcCCCEEEEEe
Confidence 347899999996 5 3678889999999999998543
No 250
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=27.32 E-value=2e+02 Score=23.26 Aligned_cols=52 Identities=8% Similarity=0.134 Sum_probs=35.2
Q ss_pred HHHHcCCccEEEE-eCCCCchh---HHhhHHHHhHhcCCCceeeCCHHHHHhhcCCc
Q 031617 60 KSIRRGHKGLCVI-AGNISPID---VITHVPILCEESDIPYIYVASKEDLANAGATK 112 (156)
Q Consensus 60 kaI~k~kakLVII-A~D~~p~~---~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~ 112 (156)
.++..|.+.+|.+ ..|.+..+ +...+..+|+++++|+ ++.++.+|...+|-.
T Consensus 34 ~al~~G~v~~vQlR~K~l~~~~~~~~a~~l~~l~~~~gv~l-iINd~~dlA~~~~ad 89 (221)
T PRK06512 34 AALQGGDVASVILPQYGLDEATFQKQAEKLVPVIQEAGAAA-LIAGDSRIAGRVKAD 89 (221)
T ss_pred HHHcCCCccEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEE-EEeCHHHHHHHhCCC
Confidence 4444453454444 56666543 4677899999999986 577888888877653
No 251
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=27.31 E-value=3.4e+02 Score=22.08 Aligned_cols=36 Identities=17% Similarity=0.174 Sum_probs=17.8
Q ss_pred HHHhHhcCCCceee------CCHHHHHhhcC--CcCceEEEEEe
Q 031617 86 PILCEESDIPYIYV------ASKEDLANAGA--TKRPTCCVLVL 121 (156)
Q Consensus 86 ~~lc~~~nIP~i~v------~sk~eLG~a~G--~~~~~svvaI~ 121 (156)
..+++.+|+..+.+ +|-.+|.++.. ++..+.++..-
T Consensus 181 ~Y~~~~ygl~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if~e 224 (266)
T cd01018 181 GYFARDYGLTQIPIEEEGKEPSPADLKRLIDLAKEKGVRVVFVQ 224 (266)
T ss_pred HHHHHHcCCEEEecCCCCCCCCHHHHHHHHHHHHHcCCCEEEEc
Confidence 34566777775543 13444444322 12345555554
No 252
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=27.22 E-value=1.6e+02 Score=20.74 Aligned_cols=42 Identities=7% Similarity=0.066 Sum_probs=23.9
Q ss_pred EEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCC
Q 031617 69 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGAT 111 (156)
Q Consensus 69 LVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~ 111 (156)
++++...-+-.++++ ....|+++++|++-+-+..+|.+.+..
T Consensus 47 ~I~iS~SG~t~e~i~-~~~~a~~~g~~iI~IT~~~~l~~~~~~ 88 (119)
T cd05017 47 VIAVSYSGNTEETLS-AVEQAKERGAKIVAITSGGKLLEMARE 88 (119)
T ss_pred EEEEECCCCCHHHHH-HHHHHHHCCCEEEEEeCCchHHHHHHH
Confidence 333333333334333 456778888888776544567776653
No 253
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=26.99 E-value=1e+02 Score=27.13 Aligned_cols=74 Identities=18% Similarity=0.297 Sum_probs=49.9
Q ss_pred HHHHHHHHHH----HhcCCccccHHHHH---HHHHcCCccEEEEeCCCC------chhHHhhHHHHhHhcCCCceeeC-C
Q 031617 36 KRTLKLVRRA----AEHKCLKRGVKEVV---KSIRRGHKGLCVIAGNIS------PIDVITHVPILCEESDIPYIYVA-S 101 (156)
Q Consensus 36 ~ki~~lL~~A----~kag~lv~G~~~v~---kaI~k~kakLVIIA~D~~------p~~~~~~l~~lc~~~nIP~i~v~-s 101 (156)
+++..+|+.- |.-..|.-|.+|=. +++.. ...|+++=+=.+ ..++.-.|..+.++-+||++||. |
T Consensus 110 d~iv~lLGI~hLL~R~P~~LSGGEkQRVAIGRALLt-~P~LLLmDEPLaSLD~~RK~EilpylERL~~e~~IPIlYVSHS 188 (352)
T COG4148 110 DQLVALLGIEHLLDRYPGTLSGGEKQRVAIGRALLT-APELLLMDEPLASLDLPRKREILPYLERLRDEINIPILYVSHS 188 (352)
T ss_pred HHHHHHhCcHHHHhhCCCccCcchhhHHHHHHHHhc-CCCeeeecCchhhcccchhhHHHHHHHHHHHhcCCCEEEEecC
Confidence 5666777642 34456888887754 33332 356666643222 23577788899999999999996 8
Q ss_pred HHHHHhhcC
Q 031617 102 KEDLANAGA 110 (156)
Q Consensus 102 k~eLG~a~G 110 (156)
..|+-+...
T Consensus 189 ~~Ev~RLAd 197 (352)
T COG4148 189 LDEVLRLAD 197 (352)
T ss_pred HHHHHhhhh
Confidence 999988754
No 254
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=26.95 E-value=82 Score=26.05 Aligned_cols=49 Identities=16% Similarity=0.188 Sum_probs=29.0
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
++..+++.-.+-++++...-....-...+..+++.+++|++.+.+|.++
T Consensus 87 ~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D~ 135 (267)
T cd04169 87 DTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDR 135 (267)
T ss_pred HHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCcc
Confidence 3566666655555555443222223445667788889998777665543
No 255
>PHA02546 47 endonuclease subunit; Provisional
Probab=26.95 E-value=1.3e+02 Score=25.64 Aligned_cols=46 Identities=13% Similarity=0.146 Sum_probs=30.1
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchh------HHhhH----HHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPID------VITHV----PILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~------~~~~l----~~lc~~~nIP~i~v~ 100 (156)
.++++..+++.++.+||+|+|.-... ....+ ...-.+.+||++.+.
T Consensus 28 l~~ii~~a~~~~vD~VliaGDlfD~~~~~~~~~~~~~~~~l~~~L~~~gi~v~~I~ 83 (340)
T PHA02546 28 IKQAIEYSKAHGITTWIQLGDTFDVRKAITQNTMNFVREKIFDLLKEAGITLHVLV 83 (340)
T ss_pred HHHHHHHHHHcCCCEEEECCcccCCCCCCCHHHHHHHHHHHHHHHHHCCCeEEEEc
Confidence 55666677788899999999986431 11112 223345689998874
No 256
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=26.93 E-value=1.6e+02 Score=23.97 Aligned_cols=46 Identities=17% Similarity=0.282 Sum_probs=29.6
Q ss_pred HHHHHHHHHcC--CccEEEEeCCCCch---hHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRG--HKGLCVIAGNISPI---DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~--kakLVIIA~D~~p~---~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.+++.|.+. ++.+||+++|.... +-...+.....+.++|+..+.
T Consensus 42 l~~~i~~i~~~~~~~D~vvitGDl~~~~~~~~~~~~~~~l~~l~~Pv~~v~ 92 (275)
T PRK11148 42 YQAVLEAIRAQQHEFDLIVATGDLAQDHSSEAYQHFAEGIAPLRKPCVWLP 92 (275)
T ss_pred HHHHHHHHHhhCCCCCEEEECCCCCCCCCHHHHHHHHHHHhhcCCcEEEeC
Confidence 34455555443 58899999998752 123445556677789987775
No 257
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=26.91 E-value=98 Score=23.69 Aligned_cols=35 Identities=20% Similarity=0.250 Sum_probs=17.7
Q ss_pred HHHHHHcCCccEEEEeCCC-CchhHHhhHHHHhHhc
Q 031617 58 VVKSIRRGHKGLCVIAGNI-SPIDVITHVPILCEES 92 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~-~p~~~~~~l~~lc~~~ 92 (156)
..+.|.+.+.++|.|+++. +-..+.+.+..+-++.
T Consensus 55 l~~~i~~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~ 90 (150)
T PF14639_consen 55 LKKFIEKHKPDVIAVGGNSRESRKLYDDVRDIVEEL 90 (150)
T ss_dssp HHHHHHHH--SEEEE--SSTHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHcCCeEEEEcCCChhHHHHHHHHHHHHHHh
Confidence 4456777889999995542 2223445555554444
No 258
>PF10111 Glyco_tranf_2_2: Glycosyltransferase like family 2; InterPro: IPR019290 This conserved domain is found in a set of prokaryotic proteins including putative glucosyltransferases, which are involved in bacterial capsule biosynthesis [, ].
Probab=26.79 E-value=86 Score=25.70 Aligned_cols=59 Identities=17% Similarity=0.202 Sum_probs=34.8
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCC-ceeeCCHH-HHHhhcCCc-----CceEEEEEecCCC
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIP-YIYVASKE-DLANAGATK-----RPTCCVLVLTKPT 125 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP-~i~v~sk~-eLG~a~G~~-----~~~svvaI~d~~~ 125 (156)
...++|+ .|.++..+...|..+|++.+.. |+...+.. -.|.+..++ ...-.++++|.+-
T Consensus 34 ~~eiIvv-d~~s~~~~~~~l~~~~~~~~~~~~i~~~~~~~~f~~a~arN~g~~~A~~d~l~flD~D~ 99 (281)
T PF10111_consen 34 DFEIIVV-DDGSSDEFDEELKKLCEKNGFIRYIRHEDNGEPFSRAKARNIGAKYARGDYLIFLDADC 99 (281)
T ss_pred CEEEEEE-ECCCchhHHHHHHHHHhccCceEEEEcCCCCCCcCHHHHHHHHHHHcCCCEEEEEcCCe
Confidence 4555554 4445545668899999999988 66655433 223322222 1344778888664
No 259
>PF01039 Carboxyl_trans: Carboxyl transferase domain; InterPro: IPR000022 Members in this domain include biotin dependent carboxylases [, ]. The carboxyl transferase domain carries out the following reaction; transcarboxylation from biotin to an acceptor molecule. There are two recognised types of carboxyl transferase. One of them uses acyl-CoA and the other uses 2-oxo acid as the acceptor molecule of carbon dioxide. All of the members in this family utilise acyl-CoA as the acceptor molecule.; GO: 0016874 ligase activity; PDB: 2F9Y_B 1XO6_B 1XNV_B 3MFM_C 3IBB_A 1XNW_F 3IAV_B 1XNY_A 3IB9_A 3U9S_F ....
Probab=26.74 E-value=43 Score=30.39 Aligned_cols=34 Identities=24% Similarity=0.436 Sum_probs=22.5
Q ss_pred ccEEEEeCCCC-------c--hhHHhhHHHHhHhcCCCceeeC
Q 031617 67 KGLCVIAGNIS-------P--IDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 67 akLVIIA~D~~-------p--~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
--+.|||+|.. + ..-..++..+|...|||++++-
T Consensus 294 ~pVGiian~~~~~~G~~~~~~a~K~arfi~lcd~~~iPlv~l~ 336 (493)
T PF01039_consen 294 RPVGIIANNPRQRAGALDPDGARKAARFIRLCDAFNIPLVTLV 336 (493)
T ss_dssp EEEEEEEE-TTCGGGEB-HHHHHHHHHHHHHHHHTT--EEEEE
T ss_pred cceEEEEeccccccccCChHHHHHHHHHHHHHHhhCCceEEEe
Confidence 44678999842 2 1346678999999999998864
No 260
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of 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.
Probab=26.73 E-value=1.3e+02 Score=22.12 Aligned_cols=21 Identities=19% Similarity=0.222 Sum_probs=16.5
Q ss_pred hHHhhHHHHhHhcCCCceeeC
Q 031617 80 DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+...+..+|+++++||+-..
T Consensus 124 ~~~~~~~~~a~~~~v~~vd~~ 144 (189)
T cd01825 124 AVIAAQRRVAKEEGIAFWDLY 144 (189)
T ss_pred HHHHHHHHHHHHcCCeEEeHH
Confidence 356778899999999987654
No 261
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=26.68 E-value=1.4e+02 Score=22.99 Aligned_cols=40 Identities=8% Similarity=0.079 Sum_probs=23.7
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+..+.+.-+|+...-..... ...+.+.+||+++++
T Consensus 46 ~~~~~l~~~~vdgiIi~~~~~~~~~----~~~l~~~~ipvV~~~ 85 (265)
T cd06299 46 RYLDNLLSQRVDGIIVVPHEQSAEQ----LEDLLKRGIPVVFVD 85 (265)
T ss_pred HHHHHHHhcCCCEEEEcCCCCChHH----HHHHHhCCCCEEEEe
Confidence 3455566677777777654222111 344467889987765
No 262
>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=26.52 E-value=2e+02 Score=22.05 Aligned_cols=72 Identities=10% Similarity=0.096 Sum_probs=45.6
Q ss_pred eCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh-h---cCCcC-ceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHH
Q 031617 73 AGNISPIDVITHVPILCEESDIPYIYVASKEDLAN-A---GATKR-PTCCVLVLTKPTKGELGQEEQDKLKADYTLVVED 147 (156)
Q Consensus 73 A~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~-a---~G~~~-~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~ 147 (156)
-..++..++...|...|++++-++.+++++.+-.. + +.... ..-+++..++....+ .-.++++.
T Consensus 26 ~~r~~g~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~-----------~~~~i~~~ 94 (171)
T cd06533 26 PERVTGSDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPE-----------EEEEIIER 94 (171)
T ss_pred CcccCcHHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChh-----------hHHHHHHH
Confidence 34455557888899999999999999986654444 3 22222 356677677665322 11227777
Q ss_pred HHhhhccC
Q 031617 148 VKELASSL 155 (156)
Q Consensus 148 i~~~~~~~ 155 (156)
|++..|++
T Consensus 95 I~~~~pdi 102 (171)
T cd06533 95 INASGADI 102 (171)
T ss_pred HHHcCCCE
Confidence 77777654
No 263
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=26.43 E-value=3.1e+02 Score=21.28 Aligned_cols=42 Identities=17% Similarity=0.180 Sum_probs=23.8
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+...++.-+|+..- ++.. .......+.+.+||++.+.
T Consensus 51 ~~~~~~~~~~vdgiIi~~~-~~~~-~~~~l~~~~~~~iPvv~~~ 92 (272)
T cd06300 51 ADIRNLIAQGVDAIIINPA-SPTA-LNPVIEEACEAGIPVVSFD 92 (272)
T ss_pred HHHHHHHHcCCCEEEEeCC-Chhh-hHHHHHHHHHCCCeEEEEe
Confidence 4444455567777777542 2211 2223345667899988764
No 264
>PRK06153 hypothetical protein; Provisional
Probab=26.38 E-value=1.3e+02 Score=27.07 Aligned_cols=40 Identities=15% Similarity=0.121 Sum_probs=32.7
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
....+||.|-|..+ ....|-.+|.+++||++.++-..++.
T Consensus 265 ~~~DiV~dcvDn~~--aR~~ln~~a~~~gIP~Id~G~~l~~~ 304 (393)
T PRK06153 265 DGFTFVFVCVDKGS--SRKLIVDYLEALGIPFIDVGMGLELS 304 (393)
T ss_pred cCCCEEEEcCCCHH--HHHHHHHHHHHcCCCEEEeeecceec
Confidence 46899999999744 47778899999999999988666553
No 265
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=26.28 E-value=2.6e+02 Score=20.30 Aligned_cols=47 Identities=9% Similarity=0.165 Sum_probs=31.5
Q ss_pred HHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCc
Q 031617 61 SIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATK 112 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~ 112 (156)
.+....+.+|-|..|. + ..+..+++++++++.++. ....+++..|..
T Consensus 59 ~~~~~~v~vi~Is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~ 106 (154)
T PRK09437 59 ELKKAGVVVLGISTDK-P----EKLSRFAEKELLNFTLLSDEDHQVAEQFGVW 106 (154)
T ss_pred HHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCCeEEECCCchHHHHhCCC
Confidence 3444557777777662 2 345577888999886665 466788888753
No 266
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.28 E-value=1.6e+02 Score=23.10 Aligned_cols=42 Identities=12% Similarity=0.187 Sum_probs=23.4
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.+..+...++.-+|+... ++.. ...+...+.+++||++++.
T Consensus 46 ~~i~~~~~~~~Dgiii~~~-~~~~-~~~~i~~~~~~~iPvV~~~ 87 (282)
T cd06318 46 ADVEDLLTRGVNVLIINPV-DPEG-LVPAVAAAKAAGVPVVVVD 87 (282)
T ss_pred HHHHHHHHcCCCEEEEecC-Cccc-hHHHHHHHHHCCCCEEEec
Confidence 4455566666766666542 2321 2223345567888888775
No 267
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, 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 from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=26.28 E-value=1.4e+02 Score=21.99 Aligned_cols=50 Identities=10% Similarity=0.114 Sum_probs=31.2
Q ss_pred ccHHHHHHHHHcCCccEEEEeC-CC---Cc---------hhHHhhHHHHhHhcCCCceeeCCH
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAG-NI---SP---------IDVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~-D~---~p---------~~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
.+++..++.|+...++++++.. +. +| ..+-+.+..+|++++||++.+.+.
T Consensus 92 ~~~~~~i~~i~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~v~~vd~~~~ 154 (185)
T cd01832 92 ADLEEAVRRLRAAGARVVVFTIPDPAVLEPFRRRVRARLAAYNAVIRAVAARYGAVHVDLWEH 154 (185)
T ss_pred HHHHHHHHHHHhCCCEEEEecCCCccccchhHHHHHHHHHHHHHHHHHHHHHcCCEEEecccC
Confidence 3445556666655666666642 11 11 125566889999999999887643
No 268
>cd03343 cpn60 cpn60 chaperonin family. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. Archaeal cpn60 (thermosome), together with TF55 from thermophilic bacteria and the eukaryotic cytosol chaperonin (CTT), belong to the type II group of chaperonins. Cpn60 consists of two stacked octameric rings, which are composed of one or two different subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis.
Probab=26.18 E-value=1.6e+02 Score=26.62 Aligned_cols=46 Identities=17% Similarity=0.242 Sum_probs=28.8
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
+.++.|.+-.+.+||++.++++. ..+ ++.++||-.+..-++.+|.+
T Consensus 270 ~~v~~i~~~g~~lvi~~~~I~~~--al~---~l~~~gI~~v~~v~~~~l~~ 315 (517)
T cd03343 270 EMVDKIADTGANVVFCQKGIDDL--AQH---YLAKAGILAVRRVKKSDMEK 315 (517)
T ss_pred HHHHHHHhcCCCEEEeCCCccHH--HHH---HHhHCCcEEEEeCCHHHHHH
Confidence 34445666668899999998874 222 22467776666556655544
No 269
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=26.13 E-value=1.7e+02 Score=22.03 Aligned_cols=66 Identities=17% Similarity=0.138 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHHHHHhcCCcc-----c-----cHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 32 KKLSKRTLKLVRRAAEHKCLK-----R-----GVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 32 ~~l~~ki~~lL~~A~kag~lv-----~-----G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
......+..-++.+.+...+. . ...+..+.+.++++..+|+...-.+ . .. ....+.+.+||++++.
T Consensus 11 ~~~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~-~-~~-~~~~l~~~~ip~v~~~ 86 (264)
T cd01537 11 NPFFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLT-A-PT-IVKLARKAGIPVVLVD 86 (264)
T ss_pred ChHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCc-c-hh-HHHHhhhcCCCEEEec
Confidence 334455555555544432211 1 1344555555566776666553323 2 22 4567788999998764
No 270
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=26.08 E-value=75 Score=25.99 Aligned_cols=35 Identities=11% Similarity=0.084 Sum_probs=28.5
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
...+||.|.|. + .....+-.+|.++++|++.....
T Consensus 122 ~~DiVi~~~D~-~-~~r~~ln~~~~~~~ip~v~~~~~ 156 (245)
T PRK05690 122 GHDLVLDCTDN-V-ATRNQLNRACFAAKKPLVSGAAI 156 (245)
T ss_pred cCCEEEecCCC-H-HHHHHHHHHHHHhCCEEEEeeec
Confidence 57899999995 5 36778999999999999886543
No 271
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=26.06 E-value=1.4e+02 Score=27.39 Aligned_cols=91 Identities=4% Similarity=0.101 Sum_probs=51.0
Q ss_pred CccccHHHHHHHHHcCC-cc---EEEEeCCCCch-hHHhhHHHHhHhcCCCceeeCC----H----HHHHhhcCCcCceE
Q 031617 50 CLKRGVKEVVKSIRRGH-KG---LCVIAGNISPI-DVITHVPILCEESDIPYIYVAS----K----EDLANAGATKRPTC 116 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~k-ak---LVIIA~D~~p~-~~~~~l~~lc~~~nIP~i~v~s----k----~eLG~a~G~~~~~s 116 (156)
+.+.=.+.....+.+.- .+ ++-+..+.+|. .-+..|..+.++++|+++|+.. + ..|.+-.|.+
T Consensus 372 r~vvt~H~af~YLa~~YGL~~~~~~~~~~~~ePS~~~L~~Li~~IK~~~V~~IF~Epq~~~~~~~l~~IA~e~Gv~---- 447 (479)
T TIGR03772 372 RHLITTHDAYSYLGQAYGLNIAGFVTPNPAVEPSLADRRRLTRTIENLKVPAVFLEPNLAARSTTLNEIADELGVR---- 447 (479)
T ss_pred CEEEEECCcHHHHHHHCCCeEEeeeccCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCchHHHHHHHHHcCCc----
Confidence 33444556777776641 22 22233444442 2366778888999999999852 2 4555555553
Q ss_pred EEEEe-cCCCCCCcchHHHHhhHHHHHHHHHHHHh
Q 031617 117 CVLVL-TKPTKGELGQEEQDKLKADYTLVVEDVKE 150 (156)
Q Consensus 117 vvaI~-d~~~~~~~~~~~~~~~~~~y~e~~~~i~~ 150 (156)
++.+. |... ...+.|.+.+.+....|.+
T Consensus 448 V~~l~~d~l~------~~~~tY~~~M~~N~~~L~~ 476 (479)
T TIGR03772 448 VCAIYGDTFD------DDVTNYVDLMRFNADSLAD 476 (479)
T ss_pred EEeeecCCCC------CccccHHHHHHHHHHHHHH
Confidence 33332 3221 1134777777777776654
No 272
>TIGR02343 chap_CCT_epsi T-complex protein 1, epsilon subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT epsilon chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=26.05 E-value=1.5e+02 Score=27.12 Aligned_cols=43 Identities=12% Similarity=0.232 Sum_probs=27.4
Q ss_pred HHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 58 VVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
.++.|.+..+.+||++.++++. . ..++.++||..+...++.+|
T Consensus 283 ~l~~i~~~g~~lvi~~~~I~~~--a---l~~L~~~~i~~v~~~~~~~l 325 (532)
T TIGR02343 283 MIDDIKKSGANIVICQWGFDDE--A---NHLLLQNDLPAVRWVGGHEL 325 (532)
T ss_pred HHHHHHHcCCCEEEeCCCccHH--H---HHHHHHCCcEEEEcCCHHHH
Confidence 3445555668899999999884 2 22345777776665554433
No 273
>PF14367 DUF4411: Domain of unknown function (DUF4411)
Probab=26.03 E-value=2.1e+02 Score=21.80 Aligned_cols=74 Identities=14% Similarity=0.193 Sum_probs=43.2
Q ss_pred ccCCCCCh-HHHHHHHHHHHHH-HhcCCccccH----------HHHHHHHHcCCccEEEEeCCCCchhH---HhhHHHHh
Q 031617 25 IAKPLAGK-KLSKRTLKLVRRA-AEHKCLKRGV----------KEVVKSIRRGHKGLCVIAGNISPIDV---ITHVPILC 89 (156)
Q Consensus 25 ~a~Pl~~~-~l~~ki~~lL~~A-~kag~lv~G~----------~~v~kaI~k~kakLVIIA~D~~p~~~---~~~l~~lc 89 (156)
...+...+ .....+.+++..+ ...++...|. --+..|+..| ..|+.....+.+. ..+||..|
T Consensus 65 ~~~~~~~d~~~~~~~~~v~~~~~~~~~~~~~~a~~~f~~~ADp~LIA~A~~~~---~~VVT~E~~~~~~~~~~~KIPdvC 141 (162)
T PF14367_consen 65 FFFFSTDDEAIQAEYAEVLNWVIINSQQYKKGAKDEFLSVADPWLIAYAKAYG---ATVVTHEVSNPNKKKKKIKIPDVC 141 (162)
T ss_pred ccccCCChHHHHHHHHHHHHHHhhcchhhchhHHhhhcccCCHHHHHHHHhcC---CEEEccCCCCCCCCccCCCCChhH
Confidence 44555555 5556777777763 4444433332 2233344433 3666666653221 45699999
Q ss_pred HhcCCCceeeCC
Q 031617 90 EESDIPYIYVAS 101 (156)
Q Consensus 90 ~~~nIP~i~v~s 101 (156)
+..|||++....
T Consensus 142 ~~~gV~ci~~~~ 153 (162)
T PF14367_consen 142 EHFGVPCINLFE 153 (162)
T ss_pred HhCCCcCCCHHH
Confidence 999999987664
No 274
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=25.90 E-value=1.5e+02 Score=24.48 Aligned_cols=70 Identities=19% Similarity=0.219 Sum_probs=38.5
Q ss_pred CCCchhHHhhHHHHhHhcCCCceeeCC--H----HHHHhhcCCcCceEEEEEecCCCCCCc-chHHHHhhHHHHHHHHHH
Q 031617 75 NISPIDVITHVPILCEESDIPYIYVAS--K----EDLANAGATKRPTCCVLVLTKPTKGEL-GQEEQDKLKADYTLVVED 147 (156)
Q Consensus 75 D~~p~~~~~~l~~lc~~~nIP~i~v~s--k----~eLG~a~G~~~~~svvaI~d~~~~~~~-~~~~~~~~~~~y~e~~~~ 147 (156)
..+|. -+..+..+.++++|+++|+.. . +.|.+..|. .++ .+|+-..... ....-..|.+.+.+.+..
T Consensus 203 eps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~----~v~-~ld~l~~~~~~~~~~~~~y~~~m~~n~~~ 276 (282)
T cd01017 203 EPSPK-QLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGA----KLL-VLNPLETLTKEEIDDGKDYFSLMKENLET 276 (282)
T ss_pred CCCHH-HHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCC----cEE-EeccccccchhcccccCcHHHHHHHHHHH
Confidence 33444 477788899999999999852 2 234444443 333 3443221110 000123677777777666
Q ss_pred HHh
Q 031617 148 VKE 150 (156)
Q Consensus 148 i~~ 150 (156)
|.+
T Consensus 277 l~~ 279 (282)
T cd01017 277 LKR 279 (282)
T ss_pred HHH
Confidence 654
No 275
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=25.83 E-value=1.6e+02 Score=22.84 Aligned_cols=42 Identities=12% Similarity=0.173 Sum_probs=23.8
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+.+.++.-+|+..-..+ ....+...+.+.+||++.+.
T Consensus 47 ~~i~~l~~~~vdgiii~~~~~~--~~~~~~~~l~~~~iPvv~~~ 88 (272)
T cd06301 47 SQVENFIAQGVDAIIVVPVDTA--ATAPIVKAANAAGIPLVYVN 88 (272)
T ss_pred HHHHHHHHcCCCEEEEecCchh--hhHHHHHHHHHCCCeEEEec
Confidence 4455555556666665542222 22334455678899988765
No 276
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family 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 active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=25.72 E-value=1.6e+02 Score=23.54 Aligned_cols=35 Identities=11% Similarity=0.065 Sum_probs=19.8
Q ss_pred CccEEEEeCCCCch---hHHhhHHHHhHhcCCCceeeC
Q 031617 66 HKGLCVIAGNISPI---DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 66 kakLVIIA~D~~p~---~~~~~l~~lc~~~nIP~i~v~ 100 (156)
++.+||||+|.... +-......+.+....|+++|.
T Consensus 41 ~~D~viiaGDl~~~~~~~~~~~~l~~l~~l~~~v~~V~ 78 (232)
T cd07393 41 PEDIVLIPGDISWAMKLEEAKLDLAWIDALPGTKVLLK 78 (232)
T ss_pred CCCEEEEcCCCccCCChHHHHHHHHHHHhCCCCeEEEe
Confidence 79999999998731 111122233444445666664
No 277
>PRK06946 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=25.63 E-value=3.9e+02 Score=22.14 Aligned_cols=74 Identities=14% Similarity=0.200 Sum_probs=42.6
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhcCCcc---ccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhh
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEHKCLK---RGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITH 84 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~kag~lv---~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~ 84 (156)
+..+++|+-...++ +++.-++.... ..++ .|.+.+++++++|. +|.+..|-++. .....
T Consensus 136 ~~~vyr~~~n~~~d-~~~~~~R~~~g-~~~i~~~~~~r~~~~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FFG~~a~t~~~ 211 (293)
T PRK06946 136 VGSLYTPMSNPLLD-AIAKAARGRFG-AEMVSRADSARQVLRWLRDGK--PVMLGADMDFGLRDSTFVPFFGVPACTLTA 211 (293)
T ss_pred ceEEeeCCCCHHHH-HHHHHHHHhcC-CCccCCCchHHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeCCCCCCcHHhHH
Confidence 34467776444443 33333333221 1233 25889999998885 77777777642 12333
Q ss_pred HHHHhHhcCCCceee
Q 031617 85 VPILCEESDIPYIYV 99 (156)
Q Consensus 85 l~~lc~~~nIP~i~v 99 (156)
...++...|.|++.+
T Consensus 212 ~a~LA~~~~a~vvp~ 226 (293)
T PRK06946 212 VSRLARTGGAQVVPF 226 (293)
T ss_pred HHHHHHhcCCeEEEE
Confidence 446777777777754
No 278
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=25.61 E-value=1.5e+02 Score=24.47 Aligned_cols=42 Identities=14% Similarity=0.256 Sum_probs=32.4
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+.|++++++.||.-...++. ..+ .++++.++|++.+.
T Consensus 209 l~~l~~~ik~~~v~~if~e~~~~~~-~~~---~la~~~g~~v~~ld 250 (282)
T cd01017 209 LAELVEFVKKSDVKYIFFEENASSK-IAE---TLAKETGAKLLVLN 250 (282)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCChH-HHH---HHHHHcCCcEEEec
Confidence 3567778888999999999988774 343 46789999987654
No 279
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=25.57 E-value=2.5e+02 Score=20.01 Aligned_cols=42 Identities=5% Similarity=-0.042 Sum_probs=32.1
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
...+|||..-......-..+...+.+++|.+....|......
T Consensus 52 ~peiliiGTG~~~~~~~~~~~~~l~~~gI~vE~m~T~aAcrT 93 (109)
T cd00248 52 RPDILLIGTGAEIAFLPRALRAALRAAGIGVEVMSTGAACRT 93 (109)
T ss_pred CCCEEEEcCCCCCCcCCHHHHHHHHHcCCeEEEeCcHHHHHH
Confidence 377888887776544445567778899999999999887776
No 280
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=25.50 E-value=88 Score=27.15 Aligned_cols=33 Identities=18% Similarity=0.241 Sum_probs=24.9
Q ss_pred ccEEEEeCCCC---------------ch--hHHhhHHHHhHhcCCCceee
Q 031617 67 KGLCVIAGNIS---------------PI--DVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 67 akLVIIA~D~~---------------p~--~~~~~l~~lc~~~nIP~i~v 99 (156)
-.+.|||.|.. |. .-..++..+|.+.++|++++
T Consensus 108 rpV~VIa~d~g~~~~e~~~~~~G~~~p~g~rKa~R~m~lA~~f~iPvVtl 157 (316)
T TIGR00513 108 RPVVVIGHQKGRDTKEKLRRNFGMPAPEGYRKALRLMKMAERFKMPIITF 157 (316)
T ss_pred EEEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 46788998853 22 23556899999999999876
No 281
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=25.47 E-value=1e+02 Score=25.48 Aligned_cols=60 Identities=22% Similarity=0.344 Sum_probs=43.5
Q ss_pred cCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc--eeeCC--HHHHHhhcCCc
Q 031617 48 HKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY--IYVAS--KEDLANAGATK 112 (156)
Q Consensus 48 ag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~--i~v~s--k~eLG~a~G~~ 112 (156)
.-.|..|+++..+.|.....++.+|.+--.+ ++.++ +.+.+||+ +|... =...|+..|.+
T Consensus 86 k~~lT~Gi~eLv~~L~~~~~~v~liSGGF~~--~i~~V---a~~Lgi~~~n~yAN~l~fd~~Gk~~gfd 149 (227)
T KOG1615|consen 86 KPTLTPGIRELVSRLHARGTQVYLISGGFRQ--LIEPV---AEQLGIPKSNIYANELLFDKDGKYLGFD 149 (227)
T ss_pred CCccCCCHHHHHHHHHHcCCeEEEEcCChHH--HHHHH---HHHhCCcHhhhhhheeeeccCCcccccc
Confidence 4569999999999999999999999887644 45554 58999999 55431 12456655543
No 282
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=25.33 E-value=2.4e+02 Score=19.77 Aligned_cols=49 Identities=12% Similarity=0.089 Sum_probs=32.3
Q ss_pred CccccHHHHHHHHHcCCccEEEEeCCCC---chhHHhhHHHHhHhcCCCcee
Q 031617 50 CLKRGVKEVVKSIRRGHKGLCVIAGNIS---PIDVITHVPILCEESDIPYIY 98 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~kakLVIIA~D~~---p~~~~~~l~~lc~~~nIP~i~ 98 (156)
.+..|..++++.+++...+++|+.+... +.....++..+++..+++..+
T Consensus 25 ~~~~~v~~~l~~L~~~g~~l~i~Sn~~~~~~~~~~~~~~~~~l~~~~l~~~~ 76 (132)
T TIGR01662 25 ILYPEVPDALAELKEAGYKVVIVTNQSGIGRGKFSSGRVARRLEELGVPIDV 76 (132)
T ss_pred eeCCCHHHHHHHHHHCCCEEEEEECCccccccHHHHHHHHHHHHHCCCCEEE
Confidence 4667888899999877777777776541 111134566677777887433
No 283
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=25.31 E-value=82 Score=21.85 Aligned_cols=28 Identities=18% Similarity=0.280 Sum_probs=21.9
Q ss_pred hHHhhHHHHhHhcCCCceeeCCHHHHHhhcC
Q 031617 80 DVITHVPILCEESDIPYIYVASKEDLANAGA 110 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G 110 (156)
.+-..|..++++++||++.-. .|.+++-
T Consensus 27 ~~A~~I~~~A~e~~VPi~~~~---~LAr~L~ 54 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVEDP---DLVDVLL 54 (82)
T ss_pred HHHHHHHHHHHHcCCCEEeCH---HHHHHHH
Confidence 368899999999999986554 6777653
No 284
>TIGR02740 TraF-like TraF-like protein. This protein is related to the F-type conjugation system pilus assembly proteins TraF (TIGR02739)and TrbB (TIGR02738) both of which exhibit a thioredoxin fold. The protein represented by this model has the same length and architecture as TraF, but lacks the CXXC-motif found in TrbB and believed to be responsible for the disulfide isomerase activity of that protein.
Probab=25.31 E-value=2.5e+02 Score=23.40 Aligned_cols=66 Identities=9% Similarity=0.063 Sum_probs=41.3
Q ss_pred HHHHHHHcCCccEEEEeCCCCch-hHHhhHHHHhHhcCCCceeeCC-------------HHHHHhhcCCcCceEEEEEec
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPI-DVITHVPILCEESDIPYIYVAS-------------KEDLANAGATKRPTCCVLVLT 122 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~-~~~~~l~~lc~~~nIP~i~v~s-------------k~eLG~a~G~~~~~svvaI~d 122 (156)
.+++.+..+-+-+.|-|++|.+= ...-.|..+++++++.++.+.- ...+...+|.. .+-.+.+.+
T Consensus 159 ~~l~~l~~k~~Lv~F~AswCp~C~~~~P~L~~la~~yg~~Vi~VsvD~~~~~~fp~~~~d~~la~~~gV~-~vPtl~Lv~ 237 (271)
T TIGR02740 159 RVMKDLAKKSGLFFFFKSDCPYCHQQAPILQAFEDRYGIEVLPVSVDGGPLPGFPNARPDAGQAQQLKIR-TVPAVFLAD 237 (271)
T ss_pred HHHHHhcCCeEEEEEECCCCccHHHHhHHHHHHHHHcCcEEEEEeCCCCccccCCcccCCHHHHHHcCCC-cCCeEEEEE
Confidence 44555544445555778888762 2345678889999988766542 13466777874 345566666
Q ss_pred C
Q 031617 123 K 123 (156)
Q Consensus 123 ~ 123 (156)
+
T Consensus 238 ~ 238 (271)
T TIGR02740 238 P 238 (271)
T ss_pred C
Confidence 5
No 285
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=25.29 E-value=1.7e+02 Score=22.84 Aligned_cols=40 Identities=13% Similarity=0.292 Sum_probs=24.1
Q ss_pred HHHHHHHHcCCccEEEEeC-CCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 56 KEVVKSIRRGHKGLCVIAG-NISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~-D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+++.+.+..+++.-+|+.. +.++ .. ...+.+.+||+++++
T Consensus 54 ~~~~~~l~~~~~dgiii~~~~~~~-~~----~~~~~~~~ipvV~~~ 94 (275)
T cd06295 54 DWLARYLASGRADGVILIGQHDQD-PL----PERLAETGLPFVVWG 94 (275)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCCh-HH----HHHHHhCCCCEEEEC
Confidence 3566666666777666543 3322 22 345578899988765
No 286
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=25.29 E-value=85 Score=21.86 Aligned_cols=49 Identities=12% Similarity=0.076 Sum_probs=37.2
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.++.-..|.+.-+..+..+.+|..|.+. .+...+..+.++++|.++-..
T Consensus 38 ~~f~w~D~~~~~~~~~~~~~ii~ND~e~-~i~~~~~~a~~~y~I~~i~wS 86 (88)
T PF08862_consen 38 AIFAWEDTKKRNRKSNSKFYIILNDSEK-PISEDIINALEQYNIKPIPWS 86 (88)
T ss_pred HHHHHhhhhhhccCCCceEEEEECCCCC-ccCHHHHHHHHHCCCceecCC
Confidence 5556556655566678999999999865 477888999999999876543
No 287
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=25.16 E-value=2e+02 Score=20.43 Aligned_cols=49 Identities=4% Similarity=-0.011 Sum_probs=33.1
Q ss_pred HHHHHcC--CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 59 VKSIRRG--HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 59 ~kaI~k~--kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
+..+..- +..+|||..--....+-..+....++++|.+....|......
T Consensus 44 l~~l~~~~p~pe~liiGtG~~~~~~~~~~~~~l~~~GI~ve~m~T~~Ac~t 94 (110)
T PF04430_consen 44 LEELLELEPKPEVLIIGTGKRQLFLPPELREYLRKKGIGVEVMDTPAACRT 94 (110)
T ss_dssp HHHHHCTCCS-SEEEEEETTS-SECTHHHHHHHHTTT-EEEEE-HHHHHHH
T ss_pred HHHHHhccCCCcEEEEccCCccccCCHHHHHHHHHcCCeEEEECHHHHHHH
Confidence 3444444 899999998765544555677777999999999998887665
No 288
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=25.14 E-value=1.9e+02 Score=18.41 Aligned_cols=49 Identities=14% Similarity=0.221 Sum_probs=27.4
Q ss_pred EEEEeCCCCchhHHhhHHHHhHhcCCCceeeC--C----HHHHHhhcCCcCceEEEEE
Q 031617 69 LCVIAGNISPIDVITHVPILCEESDIPYIYVA--S----KEDLANAGATKRPTCCVLV 120 (156)
Q Consensus 69 LVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~--s----k~eLG~a~G~~~~~svvaI 120 (156)
++|...+.-| .-.+...+.++++|||..+. . +.+|-+..|.. .+-++.+
T Consensus 3 v~ly~~~~C~--~C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~~-~vP~v~i 57 (73)
T cd03027 3 VTIYSRLGCE--DCTAVRLFLREKGLPYVEINIDIFPERKAELEERTGSS-VVPQIFF 57 (73)
T ss_pred EEEEecCCCh--hHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCCC-CcCEEEE
Confidence 3344444334 25566777788999887653 1 34566666653 2344544
No 289
>KOG0540 consensus 3-Methylcrotonyl-CoA carboxylase, non-biotin containing subunit/Acetyl-CoA carboxylase carboxyl transferase, subunit beta [Amino acid transport and metabolism; Lipid transport and metabolism]
Probab=25.07 E-value=45 Score=30.72 Aligned_cols=20 Identities=25% Similarity=0.567 Sum_probs=17.5
Q ss_pred HHhhHHHHhHhcCCCceeeC
Q 031617 81 VITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 81 ~~~~l~~lc~~~nIP~i~v~ 100 (156)
-..|+..+|.++|||++++.
T Consensus 372 KgarfIe~c~q~~IPLi~l~ 391 (536)
T KOG0540|consen 372 KGARFIELCDQRNIPLIFLQ 391 (536)
T ss_pred hhHHHHHHHHhcCCcEEEEE
Confidence 47899999999999999863
No 290
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=25.01 E-value=1.8e+02 Score=21.56 Aligned_cols=44 Identities=14% Similarity=0.157 Sum_probs=28.1
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
..+.++.+..+.+..+|+...... ... +...+.+.+||++.+..
T Consensus 47 ~~~~~~~~~~~~~d~ii~~~~~~~--~~~-~~~~~~~~~ip~v~~~~ 90 (269)
T cd01391 47 ALEALRDLIQQGVDGIIGPPSSSS--ALA-VVELAAAAGIPVVSLDA 90 (269)
T ss_pred HHHHHHHHHHcCCCEEEecCCCHH--HHH-HHHHHHHcCCcEEEecC
Confidence 344555555666777777655433 222 66778899999988753
No 291
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=24.93 E-value=75 Score=25.53 Aligned_cols=54 Identities=28% Similarity=0.292 Sum_probs=37.9
Q ss_pred CCcccc------HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee-eCCHHHHHhhc
Q 031617 49 KCLKRG------VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAG 109 (156)
Q Consensus 49 g~lv~G------~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a~ 109 (156)
..+..| .+++.++++.| +++++ +|. +-..+...|.+++||++= +.|-.|+-+|.
T Consensus 58 p~~~vGAGTV~~~e~a~~a~~aG-A~Fiv-----SP~-~~~~v~~~~~~~~i~~iPG~~TptEi~~A~ 118 (196)
T PF01081_consen 58 PDLLVGAGTVLTAEQAEAAIAAG-AQFIV-----SPG-FDPEVIEYAREYGIPYIPGVMTPTEIMQAL 118 (196)
T ss_dssp TTSEEEEES--SHHHHHHHHHHT--SEEE-----ESS---HHHHHHHHHHTSEEEEEESSHHHHHHHH
T ss_pred CCCeeEEEeccCHHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCcccCCcCCHHHHHHHH
Confidence 456666 57788888888 77776 453 555678899999999976 67877776654
No 292
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=24.89 E-value=1.1e+02 Score=21.14 Aligned_cols=38 Identities=13% Similarity=0.156 Sum_probs=24.1
Q ss_pred HHHHHHHHc--CCccEEEEeCCCCch--hHHhhHHHHhHhcC
Q 031617 56 KEVVKSIRR--GHKGLCVIAGNISPI--DVITHVPILCEESD 93 (156)
Q Consensus 56 ~~v~kaI~k--~kakLVIIA~D~~p~--~~~~~l~~lc~~~n 93 (156)
+..++.|++ .++.-||+|.|.+.. .+..++..++..++
T Consensus 47 ~~~i~~l~~~~~~~~~iiiatD~D~EGe~Ia~~i~~~~~~~~ 88 (100)
T PF01751_consen 47 KKQIKNLKKLLKKADEIIIATDPDREGELIAWEIIELLGKNN 88 (100)
T ss_dssp HHHHHHHHHHHHSCSEEEEEC-SSHHHHHHHHHHHHHHHHHS
T ss_pred cccchhhHHHhhhccEeeecCCCChHHHHHHHHHHHHHhHhC
Confidence 344444444 568999999999863 35566666666655
No 293
>COG4799 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]
Probab=24.86 E-value=59 Score=30.25 Aligned_cols=20 Identities=25% Similarity=0.629 Sum_probs=17.1
Q ss_pred hHHhhHHHHhHhcCCCceee
Q 031617 80 DVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v 99 (156)
+-..++..+|..+|||++++
T Consensus 346 ~KaArFI~~cd~~~iPlv~L 365 (526)
T COG4799 346 DKAARFIRLCDAFNIPLVFL 365 (526)
T ss_pred HHHHHHHHhhhccCCCeEEE
Confidence 45678889999999999875
No 294
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.75 E-value=55 Score=26.78 Aligned_cols=18 Identities=33% Similarity=0.859 Sum_probs=15.7
Q ss_pred HhhHHHHhHhcCCCceee
Q 031617 82 ITHVPILCEESDIPYIYV 99 (156)
Q Consensus 82 ~~~l~~lc~~~nIP~i~v 99 (156)
+.+|...|++.+||+++.
T Consensus 60 i~~Lr~~~~~~giPVvyT 77 (218)
T COG1535 60 IAKLRIWCKQAGIPVVYT 77 (218)
T ss_pred HHHHHHHHHHcCCcEEEE
Confidence 566788999999999986
No 295
>cd03334 Fab1_TCP TCP-1 like domain of the eukaryotic phosphatidylinositol 3-phosphate (PtdIns3P) 5-kinase Fab1. Fab1p is important for vacuole size regulation, presumably by modulating PtdIns(3,5)P2 effector activity. In the human homolog p235/PIKfyve deletion of this domain leads to loss of catalytic activity. However no exact function this domain has been defined. In general, chaperonins are involved in productive folding of proteins.
Probab=24.59 E-value=2.1e+02 Score=23.56 Aligned_cols=50 Identities=18% Similarity=0.186 Sum_probs=34.5
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhc
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAG 109 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~ 109 (156)
.++..+.|..-.+.+||.-..+++. .. .+|.++||-++.--++.+|.+++
T Consensus 119 l~~~v~kI~~~g~nvIl~~k~I~~~--a~---~~l~k~gI~~v~~v~~~dl~rIa 168 (261)
T cd03334 119 LKNLVSRIVALRPDVILVEKSVSRI--AQ---DLLLEAGITLVLNVKPSVLERIS 168 (261)
T ss_pred HHHHHHHHHhcCCCEEEECCccCHH--HH---HHHHHCCCEEEEecCHHHHHHHH
Confidence 4556666767778999988888774 22 44577888777776776665543
No 296
>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=24.58 E-value=1.2e+02 Score=24.49 Aligned_cols=50 Identities=18% Similarity=0.094 Sum_probs=31.3
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
.++..+++.-.+-++++...-.+..-...+...+...++|++.+.+|.++
T Consensus 88 ~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~ 137 (222)
T cd01885 88 SEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDR 137 (222)
T ss_pred HHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCc
Confidence 46777777766666666554333222344555666778888877777665
No 297
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=24.31 E-value=1.6e+02 Score=26.01 Aligned_cols=22 Identities=14% Similarity=0.297 Sum_probs=15.1
Q ss_pred HHHHHHHcCCccEEEEeCCCCc
Q 031617 57 EVVKSIRRGHKGLCVIAGNISP 78 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p 78 (156)
.+.+.+.+.++.+||||+|+-.
T Consensus 30 ~l~~~i~~~~~D~viIaGDifD 51 (407)
T PRK10966 30 WLLEQVQEHQVDAIIVAGDIFD 51 (407)
T ss_pred HHHHHHHhcCCCEEEECCcccc
Confidence 4445556677888888888763
No 298
>PRK10957 iron-enterobactin transporter periplasmic binding protein; Provisional
Probab=24.30 E-value=4e+02 Score=21.88 Aligned_cols=52 Identities=12% Similarity=0.154 Sum_probs=30.2
Q ss_pred HHHHHHHHcCCccEEEEeCCCCch--hHHhhHHHHhHhcCCCceeeCCH--------HHHHhhcCCc
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPI--DVITHVPILCEESDIPYIYVASK--------EDLANAGATK 112 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~i~v~sk--------~eLG~a~G~~ 112 (156)
.--...|..-+.-|||......+. ...+.| ++.+ |++++... ..||+++|++
T Consensus 103 ~~n~E~i~~l~PDLVi~~~~~~~~~~~~~~~L----~~~g-pvv~v~~~~~~~~~~~~~lg~~lg~e 164 (317)
T PRK10957 103 EPDAEAVAAQMPDLIVISATGGDSALALYDQL----SAIA-PTLVIDYDDKSWQELATQLGEATGLE 164 (317)
T ss_pred CcCHHHHhhcCCCEEEEeCCCchhHHHHHHHH----HhhC-CEEEEeCCCccHHHHHHHHHHHhCcH
Confidence 344566666778888886543321 122333 4556 88776421 4677777764
No 299
>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=24.27 E-value=1.2e+02 Score=26.17 Aligned_cols=49 Identities=22% Similarity=0.196 Sum_probs=30.7
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
.+.++++.-.+-++++-..-........+...+.+.++|++.+.+|.+|
T Consensus 247 ~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl 295 (429)
T TIGR03594 247 RTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDL 295 (429)
T ss_pred HHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECccc
Confidence 3455666655555555443211222345677788899999999888776
No 300
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=24.14 E-value=1.1e+02 Score=24.73 Aligned_cols=53 Identities=19% Similarity=0.288 Sum_probs=35.7
Q ss_pred CCcccc------HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee-eCCHHHHHhh
Q 031617 49 KCLKRG------VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANA 108 (156)
Q Consensus 49 g~lv~G------~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a 108 (156)
+.+..| ..++.++++.| +++++ +|. +-..+...|++++||++= +.|-.|+=.+
T Consensus 54 ~~~~vGAGTVl~~e~a~~ai~aG-A~Fiv-----SP~-~~~~vi~~a~~~~i~~iPG~~TptEi~~A 113 (201)
T PRK06015 54 EEAIVGAGTILNAKQFEDAAKAG-SRFIV-----SPG-TTQELLAAANDSDVPLLPGAATPSEVMAL 113 (201)
T ss_pred CCCEEeeEeCcCHHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEeCCCCCHHHHHHH
Confidence 456666 46777777777 78876 553 555678889999999854 4455555443
No 301
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=24.03 E-value=1.6e+02 Score=21.63 Aligned_cols=48 Identities=10% Similarity=0.205 Sum_probs=24.6
Q ss_pred cccHHHHHHHHHcCCccEEEEeC-C-CCchhHHhhHHHHhHhcCCCceeeC
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAG-N-ISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~-D-~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.-|.++.++.++.|++..||+.. | .+- +....+..+|+.+||.++.+.
T Consensus 48 Rp~l~~ll~~i~~g~~d~lvV~~ldRl~R-~~~d~~~~~l~~~gv~l~~~~ 97 (134)
T cd03769 48 RKGLLKLLEDVLAGKVERVVITYKDRLAR-FGFELLEELFKAYGVEIVVIN 97 (134)
T ss_pred CHHHHHHHHHHHcCCCCEEEEEeccHHHH-hhHHHHHHHHHHCCCEEEEEe
Confidence 35677777777777765444321 1 111 122233345666666555543
No 302
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=24.01 E-value=3.5e+02 Score=22.58 Aligned_cols=74 Identities=14% Similarity=0.107 Sum_probs=55.5
Q ss_pred CCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCC-CceeeCCHHHHHhhcCCcCceEEEEEecCCC
Q 031617 49 KCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDI-PYIYVASKEDLANAGATKRPTCCVLVLTKPT 125 (156)
Q Consensus 49 g~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nI-P~i~v~sk~eLG~a~G~~~~~svvaI~d~~~ 125 (156)
+.++.-.-|+..+-.-|---+++|++=.++. ....|..+|...|. |++-|.+.+||-++... ++.+++|.....
T Consensus 115 KDFIid~~QI~eA~~~GADaVLLI~~~L~~~-~l~~l~~~a~~lGle~lVEVh~~~El~~al~~--~a~iiGINnRdL 189 (254)
T PF00218_consen 115 KDFIIDPYQIYEARAAGADAVLLIAAILSDD-QLEELLELAHSLGLEALVEVHNEEELERALEA--GADIIGINNRDL 189 (254)
T ss_dssp ES---SHHHHHHHHHTT-SEEEEEGGGSGHH-HHHHHHHHHHHTT-EEEEEESSHHHHHHHHHT--T-SEEEEESBCT
T ss_pred ccCCCCHHHHHHHHHcCCCEeehhHHhCCHH-HHHHHHHHHHHcCCCeEEEECCHHHHHHHHHc--CCCEEEEeCccc
Confidence 5688888999999999987788888888774 67889999999999 55789999999998744 466889875443
No 303
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=23.90 E-value=2.9e+02 Score=21.33 Aligned_cols=61 Identities=20% Similarity=0.133 Sum_probs=47.9
Q ss_pred HHHHHHHHHHhcCC---ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 37 RTLKLVRRAAEHKC---LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 37 ki~~lL~~A~kag~---lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.|-+++++|.+.|. ++.|-.-+.+.|++.+.+ .|||-=|.. ++.+.+..+ ...|+|..-|.
T Consensus 74 ~Ig~l~~lae~~g~~v~i~~Ggt~ar~~ik~~~p~-~iigVAC~~-dL~~g~~~~-~~~~ip~~gV~ 137 (158)
T PF01976_consen 74 DIGDLKKLAEKYGYKVYIATGGTLARKIIKEYRPK-AIIGVACER-DLISGIQDL-KPLGIPVQGVL 137 (158)
T ss_pred chhHHHHHHHHcCCEEEEEcChHHHHHHHHHhCCC-EEEEEechH-HHHHHHHHH-hhcCCCeeEEE
Confidence 35678888999885 899999999999998888 778888877 688887654 45888875443
No 304
>cd03362 TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=23.83 E-value=1.7e+02 Score=21.89 Aligned_cols=31 Identities=13% Similarity=-0.006 Sum_probs=21.3
Q ss_pred CccEEEEeCCCCch--hHHhhHHHHhHh-cCCCc
Q 031617 66 HKGLCVIAGNISPI--DVITHVPILCEE-SDIPY 96 (156)
Q Consensus 66 kakLVIIA~D~~p~--~~~~~l~~lc~~-~nIP~ 96 (156)
++..||+|.|++.. .+..++...|.. .+.|+
T Consensus 98 ~ad~ii~atD~DrEGE~I~~~i~~~~~~~~~~~v 131 (151)
T cd03362 98 RADEIVIATDADREGELIGREILEYAKCVKRKPV 131 (151)
T ss_pred CCCeEEEccCCCccccHHHHHHHHHhCCCCCCcE
Confidence 56899999999863 355557777765 24455
No 305
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=23.75 E-value=1.8e+02 Score=17.67 Aligned_cols=39 Identities=5% Similarity=0.074 Sum_probs=15.6
Q ss_pred HHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 61 SIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.|++..+.+-++==|.++ +..+.+..+.....+|.++++
T Consensus 18 ~L~~~~i~y~~~dv~~~~-~~~~~l~~~~g~~~~P~v~i~ 56 (60)
T PF00462_consen 18 FLDEKGIPYEEVDVDEDE-EAREELKELSGVRTVPQVFID 56 (60)
T ss_dssp HHHHTTBEEEEEEGGGSH-HHHHHHHHHHSSSSSSEEEET
T ss_pred HHHHcCCeeeEcccccch-hHHHHHHHHcCCCccCEEEEC
Confidence 333333443333333333 234444444444444444443
No 306
>PRK09453 phosphodiesterase; Provisional
Probab=23.65 E-value=1.8e+02 Score=22.09 Aligned_cols=23 Identities=9% Similarity=0.170 Sum_probs=16.4
Q ss_pred HHHHHHHHHcCCccEEEEeCCCC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNIS 77 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~ 77 (156)
.+++++.+++..+..||+++|.-
T Consensus 16 ~~~~l~~~~~~~~d~ii~lGDi~ 38 (182)
T PRK09453 16 TEKALELFAQSGADWLVHLGDVL 38 (182)
T ss_pred HHHHHHHHHhcCCCEEEEccccc
Confidence 45566666667788888888873
No 307
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=23.61 E-value=1.9e+02 Score=21.22 Aligned_cols=47 Identities=17% Similarity=0.389 Sum_probs=29.0
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCCc-----hhHHhhHHHHhHhcCCCceeeC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNISP-----IDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~p-----~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
-|.+..++.+++|++..|++.. .+- .+....+..+++.+||.++++.
T Consensus 55 p~l~~ll~~~~~g~vd~vvv~~-ldRl~R~~~d~~~~~~~l~~~~gv~l~~~~ 106 (140)
T cd03770 55 PGFNRMIEDIEAGKIDIVIVKD-MSRLGRNYLKVGLYMEILFPKKGVRFIAIN 106 (140)
T ss_pred HHHHHHHHHHHcCCCCEEEEec-cchhccCHHHHHHHHHHHHhhcCcEEEEec
Confidence 5677788888888888666643 332 1223334444555588887765
No 308
>PRK06860 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=23.59 E-value=4.3e+02 Score=21.99 Aligned_cols=52 Identities=12% Similarity=0.111 Sum_probs=31.7
Q ss_pred cCcccCCCCChHHHHHHHHHHHHHHhcC-Ccc--ccHHHHHHHHHcCCccEEEEeCCCCc
Q 031617 22 LAPIAKPLAGKKLSKRTLKLVRRAAEHK-CLK--RGVKEVVKSIRRGHKGLCVIAGNISP 78 (156)
Q Consensus 22 ~~~~a~Pl~~~~l~~ki~~lL~~A~kag-~lv--~G~~~v~kaI~k~kakLVIIA~D~~p 78 (156)
+..+..|+-...+ ++++.-.+.. .| .++ .|.+++++++++|. .|.+..|-++
T Consensus 151 ~~~vyr~~~n~~~-d~~~~~~R~~--~g~~~i~~~~~r~~~k~Lk~g~--~v~il~Dq~~ 205 (309)
T PRK06860 151 GIGVYRPNDNPLY-DWLQTWGRLR--SNKSMLDRKDLKGMIKALKKGE--RIWYAPDHDY 205 (309)
T ss_pred CeEEeeCCCCHHH-HHHHHHHHhh--cCCcCcCcccHHHHHHHHhcCC--eEEEeCCCCC
Confidence 3446777766655 4444333322 22 233 56888899998885 6777777664
No 309
>cd01489 Uba2_SUMO Ubiquitin activating enzyme (E1) subunit UBA2. UBA2 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. UBA2 contains both the nucleotide-binding motif involved in adenylation and the catalytic cysteine involved in the thioester intermediate and Ublp transfer to E2.
Probab=23.54 E-value=86 Score=26.99 Aligned_cols=40 Identities=23% Similarity=0.238 Sum_probs=32.1
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHh
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
+..+||.|.|. + +...++-.+|..++||++..++..-.|.
T Consensus 90 ~~DvVv~a~Dn-~-~ar~~in~~c~~~~ip~I~~gt~G~~G~ 129 (312)
T cd01489 90 QFDLVFNALDN-L-AARRHVNKMCLAADVPLIESGTTGFLGQ 129 (312)
T ss_pred cCCEEEECCCC-H-HHHHHHHHHHHHCCCCEEEEecCcceeE
Confidence 47799999885 4 3588899999999999999887654444
No 310
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=23.50 E-value=2.3e+02 Score=23.11 Aligned_cols=43 Identities=14% Similarity=0.227 Sum_probs=23.9
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceee
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v 99 (156)
.++.+.|++++++.||.....+++ ..+.|..++++.++|++.+
T Consensus 196 ~~l~~~ik~~~v~~if~e~~~~~k-~~~~l~~la~~~~~~v~~l 238 (264)
T cd01020 196 AAFQNAIKNRQIDALIVNPQQASS-ATTNITGLAKRSGVPVVEV 238 (264)
T ss_pred HHHHHHHHhCCCCEEEeCCCCCcH-HHHHHHHHHHHcCCCEEee
Confidence 445555555566666665555443 4555555666666665443
No 311
>cd01895 EngA2 EngA2 subfamily. This CD represents the second 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=23.48 E-value=1.7e+02 Score=20.63 Aligned_cols=41 Identities=15% Similarity=0.104 Sum_probs=25.0
Q ss_pred CccEEEEeCCCCch--hHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 66 HKGLCVIAGNISPI--DVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 66 kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
.+.++++.-|++.. .....+...+...+.|++.+.+|.+|.
T Consensus 84 ~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~ 126 (174)
T cd01895 84 RADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLV 126 (174)
T ss_pred hcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccC
Confidence 45566665565432 223345556666789998888876654
No 312
>PF14370 Topo_C_assoc: C-terminal topoisomerase domain; PDB: 1TL8_A 1K4T_A 1A36_A 1RR8_C 1T8I_A 1SC7_A 1EJ9_A 1LPQ_A 1RRJ_A 1A31_A ....
Probab=23.36 E-value=54 Score=22.49 Aligned_cols=22 Identities=18% Similarity=0.277 Sum_probs=15.1
Q ss_pred HHHhHhcCCCceeeCCHHHHHh
Q 031617 86 PILCEESDIPYIYVASKEDLAN 107 (156)
Q Consensus 86 ~~lc~~~nIP~i~v~sk~eLG~ 107 (156)
.++|++++||+-.++++..+-+
T Consensus 37 vAWck~~~VPieKifsktlr~K 58 (71)
T PF14370_consen 37 VAWCKRHEVPIEKIFSKTLREK 58 (71)
T ss_dssp HHHHHHTT--GGGTS-HHHHHH
T ss_pred HHHHHHhCCcHHHHhhHHHHHh
Confidence 6899999999999888765543
No 313
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=23.27 E-value=2.3e+02 Score=18.63 Aligned_cols=50 Identities=16% Similarity=0.204 Sum_probs=35.1
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHh-cCCCceeeC
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEE-SDIPYIYVA 100 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~-~nIP~i~v~ 100 (156)
.+.-..+....+++....++|+--+....+....+..+.+. .++|++.+.
T Consensus 28 ~~~~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t 78 (112)
T PF00072_consen 28 TASSGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVT 78 (112)
T ss_dssp EESSHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEE
T ss_pred EECCHHHHHHHhcccCceEEEEEeeeccccccccccccccccccccEEEec
Confidence 56667888999999999999998665544444444444333 588888775
No 314
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=23.22 E-value=1.8e+02 Score=22.84 Aligned_cols=37 Identities=8% Similarity=0.055 Sum_probs=20.6
Q ss_pred HHHcCCccEEEEe-CCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 61 SIRRGHKGLCVIA-GNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 61 aI~k~kakLVIIA-~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+...++.-+||. .|. + ....+...+.+++||++.+.
T Consensus 49 ~~~~~~~dgiii~~~~~-~--~~~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 49 NLGAQGAKGFVICVPDV-K--LGPAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHHcCCCEEEEccCch-h--hhHHHHHHHHhCCCeEEEec
Confidence 3344556555554 442 2 23344555678888887764
No 315
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=23.14 E-value=2e+02 Score=23.29 Aligned_cols=41 Identities=17% Similarity=0.252 Sum_probs=23.5
Q ss_pred HHHHHHHcCCccEEEEe-CCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIA-GNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA-~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.+..+...++.-+||+ .| +. ........++..+||++++.
T Consensus 48 ~~i~~l~~~~vdgiii~~~~--~~-~~~~~~~~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVD--PT-AAQTVINKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecCc--hh-hHHHHHHHHHHCCCCEEEeC
Confidence 45555555566655554 34 22 22333445578899998764
No 316
>PF02595 Gly_kinase: Glycerate kinase family; InterPro: IPR004381 This family includes glycerate kinase 2 (2.7.1.31 from EC), which catalyses the phosphorylation of (R)-glycerate to 3-phospho-(R)-glycerate in the presence of ATP. These proteins consist of two different alpha/beta domains: domain 1 has a flavodoxin-like fold, while domain 2 has a restriction enzyme-like fold (domain 2 is inserted into domain 1).; GO: 0008887 glycerate kinase activity, 0031388 organic acid phosphorylation; PDB: 3CWC_B 1TO6_A.
Probab=22.92 E-value=3.2e+02 Score=24.30 Aligned_cols=78 Identities=19% Similarity=0.233 Sum_probs=46.0
Q ss_pred CccccHHHHHHHHH----cCCccEEEEeC---CCCch--hHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCc-eEEEE
Q 031617 50 CLKRGVKEVVKSIR----RGHKGLCVIAG---NISPI--DVITHVPILCEESDIPYIYVASKEDLANAGATKRP-TCCVL 119 (156)
Q Consensus 50 ~lv~G~~~v~kaI~----k~kakLVIIA~---D~~p~--~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~-~svva 119 (156)
+++.|..-+...+. -..+-|||..+ |.+.. .....+.++|++++||++-+.-+.+++..--.... .++..
T Consensus 264 ~l~sG~~~v~~~~~l~~~l~~aDlVITGEG~~D~Qtl~GK~p~~Va~~A~~~~vPviav~G~~~~~~~~l~~~Gi~~v~~ 343 (377)
T PF02595_consen 264 ELVSGIDLVLELLGLEERLEDADLVITGEGRLDAQTLAGKVPGGVARLAKKHGVPVIAVAGSVDLDAEELYDAGITAVFS 343 (377)
T ss_dssp EEEEHHHHHHHHTTHHHHCCC-SEEEE--CECSTTTTTTCHHHHHHCCHCCTT--EEEEECEC-TT---SSBTTECEEEE
T ss_pred EECchHHHHHHhcCHHHHhcCCCEEEECccccccccCCCcHHHHHHHHHHHcCCcEEEEeCCCCCChHHHhhhCCeEEEE
Confidence 68888888877652 15699999998 65431 25566788999999999988766655543222222 35788
Q ss_pred EecCCCCC
Q 031617 120 VLTKPTKG 127 (156)
Q Consensus 120 I~d~~~~~ 127 (156)
|.+.+.+-
T Consensus 344 i~~~~~~l 351 (377)
T PF02595_consen 344 IIDGPMSL 351 (377)
T ss_dssp EE-SSTTC
T ss_pred CCCCCCCH
Confidence 88766543
No 317
>KOG4464 consensus Signaling protein RIC-8/synembryn (regulates neurotransmitter secretion) [Signal transduction mechanisms]
Probab=22.79 E-value=3e+02 Score=25.44 Aligned_cols=74 Identities=23% Similarity=0.236 Sum_probs=43.9
Q ss_pred cccccCCChhhhhhhhccCcc--------cCCCCChHHHHHHHHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCC
Q 031617 5 SEAERTPHKDEKKKIVSLAPI--------AKPLAGKKLSKRTLKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNI 76 (156)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~--------a~Pl~~~~l~~ki~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~ 76 (156)
||+|||.-++|++...+.+|+ ..||..=.=+++=|+..++. +..-+..+.|-++=.-|..|.
T Consensus 437 Se~EDtdTeeYkq~k~sINpVtG~ve~~~~n~ld~mtEEQKEyEAMkLV----------nm~dkl~~~giVkp~~i~~dG 506 (532)
T KOG4464|consen 437 SEDEDTDTEEYKQAKDSINPVTGAVEESDPNPLDGMTEEQKEYEAMKLV----------NMMDKLSRTGIVKPGTIDDDG 506 (532)
T ss_pred ccccccchHHHHhhcccCCccccccCCCCCChhhhhhhHHHHHHHHHHH----------HHHHHHHhcCCCCCcccCCCC
Confidence 667777789999999999998 34443322234444443332 222334445556666677777
Q ss_pred CchhHHhhHHHHh
Q 031617 77 SPIDVITHVPILC 89 (156)
Q Consensus 77 ~p~~~~~~l~~lc 89 (156)
.+. -..|+..+-
T Consensus 507 ~~~-~l~h~l~l~ 518 (532)
T KOG4464|consen 507 KIR-ELSHVLELL 518 (532)
T ss_pred Ccc-cHHHHHHHH
Confidence 775 366654433
No 318
>TIGR03107 glu_aminopep glutamyl aminopeptidase. This model represents the M42.001 clade within MEROPS family M42. M42 includes glutamyl aminopeptidase as in the present model, deblocking aminopeptidases as from Pyrococcus horikoshii and related species, and endo-1,4-beta-glucanase (cellulase M) as from Clostridium thermocellum. The current family includes
Probab=22.71 E-value=3.6e+02 Score=23.46 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=18.3
Q ss_pred hHHhhHHHHhHhcCCCceeeC
Q 031617 80 DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.+.|..+|+++||||-++.
T Consensus 266 ~l~~~l~~~A~~~~I~~Q~~~ 286 (350)
T TIGR03107 266 RMKDFLLTTAEEAGIKYQYYV 286 (350)
T ss_pred HHHHHHHHHHHHcCCCcEEec
Confidence 588899999999999997753
No 319
>PLN02161 beta-amylase
Probab=22.70 E-value=1.6e+02 Score=27.56 Aligned_cols=47 Identities=17% Similarity=0.198 Sum_probs=41.1
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCC-----------CCchhHHhhHHHHhHhcCCCce
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGN-----------ISPIDVITHVPILCEESDIPYI 97 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D-----------~~p~~~~~~l~~lc~~~nIP~i 97 (156)
..-|+..+.+.+.+..+.|.|-+-+ ++|..++..+...|.+++|++.
T Consensus 414 ~rDGY~~Ia~m~~rh~~~l~FTClEM~D~eq~~~~~s~Pe~Lv~QV~~aa~~~Gv~~a 471 (531)
T PLN02161 414 LRDGYDPVASVLSRHGAALHIPCLDMADSETPEKYLCSPEGLRQQIHDVSKKWTIHVT 471 (531)
T ss_pred cccchHHHHHHHHHcCceEEEEeccccCCCCCccccCCHHHHHHHHHHHHHHcCCcee
Confidence 3568999999999999999998875 6788899999999999999873
No 320
>cd07383 MPP_Dcr2 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain. DCR2 phosphatase (Dosage-dependent Cell Cycle Regulator 2) functions together with DCR1 (Gid8) in a common pathway to accelerate initiation of DNA replication in Saccharomyces cerevisiae. Genetic analysis suggests that DCR1 functions upstream of DCR2. DCR2 interacts with and dephosphorylates Sic1, an inhibitor of mitotic cyclin/cyclin-dependent kinase complexes, which may serve to trigger the initiation of cell division. DCR2 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 (PAP
Probab=22.65 E-value=2.4e+02 Score=21.61 Aligned_cols=42 Identities=12% Similarity=0.202 Sum_probs=25.3
Q ss_pred HHHHHcCCccEEEEeCCCCch--------hHHhhHHHHhHhcCCCceeeC
Q 031617 59 VKSIRRGHKGLCVIAGNISPI--------DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 59 ~kaI~k~kakLVIIA~D~~p~--------~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+.++..+..+||+++|.... .....+.......++|+..+.
T Consensus 34 ~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~ 83 (199)
T cd07383 34 ERVLDAEKPDLVVLTGDLITGENTNDNSTSALDKAVSPMIDRKIPWAATF 83 (199)
T ss_pred HHHHhhcCCCEEEECCccccCCCCchHHHHHHHHHHHHHHHcCCCEEEEC
Confidence 334555688999999998431 112222333345689987765
No 321
>PF04609 MCR_C: Methyl-coenzyme M reductase operon protein C; InterPro: IPR007687 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein C.; GO: 0003824 catalytic activity, 0015948 methanogenesis
Probab=22.64 E-value=42 Score=28.54 Aligned_cols=63 Identities=16% Similarity=0.085 Sum_probs=51.8
Q ss_pred HHHHHHHHhcCCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH
Q 031617 39 LKLVRRAAEHKCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 39 ~~lL~~A~kag~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
.++|++++-+|+-.+|+++-.+.+-+..--.||.-+|... -++.+.+.+.+.-+||++..+.-
T Consensus 103 tn~i~L~~G~G~~~~gl~~~E~~~I~~Hd~AV~~~Gn~~~-~I~~K~~~ll~~i~iPiVv~~~P 165 (268)
T PF04609_consen 103 TNMIGLARGSGGRIFGLTPKEIEQINEHDLAVFHLGNFKS-CIIYKKRHLLRGIDIPIVVCGGP 165 (268)
T ss_pred cceEEEeccCCCCccCCCHHHHHHHhhcCEEEEEeCCHHH-HHHHHHHHHHhhcCCcEEEecCC
Confidence 3678888999999999999998888877777888888866 47777888999999997766544
No 322
>TIGR00040 yfcE phosphoesterase, MJ0936 family. Members of this largely uncharacterized family share a motif approximating DXH(X25)GDXXD(X25)GNHD as found in several phosphoesterases, including the nucleases SbcD and Mre11, and a family of uncharacterized archaeal putative phosphoesterases described by TIGR00024. In this family, the His residue in GNHD portion of the motif is not conserved. The member MJ0936, one of two from Methanococcus jannaschii, was shown (PubMed:15128743) to act on model phosphodiesterase substrates; a divalent cation was required.
Probab=22.62 E-value=1.8e+02 Score=21.44 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=27.4
Q ss_pred HHHHHHHHcC-CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 56 KEVVKSIRRG-HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 56 ~~v~kaI~k~-kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+.+.+.++.. ++.+||.++|..+.++...+ ++.+.|+.+|.-
T Consensus 17 ~~~~~~~~~~~~~d~ii~~GD~~~~~~~~~l----~~~~~~~~~V~G 59 (158)
T TIGR00040 17 ELPVELFNLESNVDLVIHAGDLTSPFVLKEF----EDLAAKVIAVRG 59 (158)
T ss_pred HhHHHHHhhccCCCEEEEcCCCCCHHHHHHH----HHhCCceEEEcc
Confidence 4455556555 78999999999654444444 345667777753
No 323
>PRK10444 UMP phosphatase; Provisional
Probab=22.56 E-value=1.9e+02 Score=23.57 Aligned_cols=45 Identities=11% Similarity=0.056 Sum_probs=31.6
Q ss_pred CCccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCC
Q 031617 49 KCLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIP 95 (156)
Q Consensus 49 g~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP 95 (156)
+.+.-|..++++.+++....++|+.++.... ...+....+..+++
T Consensus 16 ~~~~p~a~~~l~~L~~~g~~~~~~Tn~~~~~--~~~~~~~l~~~G~~ 60 (248)
T PRK10444 16 NVAVPGAAEFLHRILDKGLPLVLLTNYPSQT--GQDLANRFATAGVD 60 (248)
T ss_pred CeeCccHHHHHHHHHHCCCeEEEEeCCCCCC--HHHHHHHHHHcCCC
Confidence 4577899999999999889999999998642 22233333445553
No 324
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=22.54 E-value=1.8e+02 Score=18.66 Aligned_cols=16 Identities=6% Similarity=0.221 Sum_probs=9.3
Q ss_pred hHHHHhHhcCCCceee
Q 031617 84 HVPILCEESDIPYIYV 99 (156)
Q Consensus 84 ~l~~lc~~~nIP~i~v 99 (156)
....+.++++|+|..+
T Consensus 14 ~a~~~L~~~~i~~~~~ 29 (79)
T TIGR02181 14 RAKALLSSKGVTFTEI 29 (79)
T ss_pred HHHHHHHHcCCCcEEE
Confidence 3445556677777554
No 325
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=22.53 E-value=4.9e+02 Score=22.96 Aligned_cols=76 Identities=24% Similarity=0.242 Sum_probs=51.6
Q ss_pred ccccHHHH---------HHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC---CHH-----HHHhhcCCcC
Q 031617 51 LKRGVKEV---------VKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA---SKE-----DLANAGATKR 113 (156)
Q Consensus 51 lv~G~~~v---------~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~---sk~-----eLG~a~G~~~ 113 (156)
++.|+|-| ...+.+..-+.++-|+|+-...=++.|..++++.|+|++.-. +.. .+.+|-. +
T Consensus 143 l~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~Aka--r 220 (340)
T COG0552 143 LFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAAKA--R 220 (340)
T ss_pred EEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHH--c
Confidence 66677643 234556678999999999877778899999999999998732 111 2333322 3
Q ss_pred ceEEEEEecCCCCCC
Q 031617 114 PTCCVLVLTKPTKGE 128 (156)
Q Consensus 114 ~~svvaI~d~~~~~~ 128 (156)
+.-++.|-+.|.-+.
T Consensus 221 ~~DvvliDTAGRLhn 235 (340)
T COG0552 221 GIDVVLIDTAGRLHN 235 (340)
T ss_pred CCCEEEEeCcccccC
Confidence 455777877776443
No 326
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=22.49 E-value=2.3e+02 Score=21.44 Aligned_cols=60 Identities=15% Similarity=-0.035 Sum_probs=35.9
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcC---CcCceEEEEEecCCCCCC
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA---TKRPTCCVLVLTKPTKGE 128 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G---~~~~~svvaI~d~~~~~~ 128 (156)
..+.+||.|.|-.. +=..+..+|++ ++|+..+ +..++|...= .+++--.++|..+|.+-.
T Consensus 69 ~~a~lViaaT~d~e--~N~~i~~~a~~-~~~vn~~-d~~~~~~f~~pa~v~~~~l~iaisT~G~sP~ 131 (157)
T PRK06719 69 KDAHLIYAATNQHA--VNMMVKQAAHD-FQWVNVV-SDGTESSFHTPGVIRNDEYVVTISTSGKDPS 131 (157)
T ss_pred CCceEEEECCCCHH--HHHHHHHHHHH-CCcEEEC-CCCCcCcEEeeeEEEECCeEEEEECCCcChH
Confidence 34789999988533 34556667766 5666544 4444555211 122446789988887654
No 327
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl group of N5, N10-methylene tetrahydrofolate to glycine resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers; the mammalian enzyme forms a homotetramer comprising four pyridoxal phosphate-bound active sites.
Probab=22.44 E-value=1.4e+02 Score=25.20 Aligned_cols=44 Identities=11% Similarity=0.027 Sum_probs=29.4
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchh-HHhhHHHHhHhcCCCcee
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPID-VITHVPILCEESDIPYIY 98 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~-~~~~l~~lc~~~nIP~i~ 98 (156)
..++.+.+...+.++|++.....|.. -+..|..+|++++++++.
T Consensus 150 ~~~l~~~i~~~~~~~v~~~~~~~~~~~~~~~I~~l~~~~~~~li~ 194 (402)
T cd00378 150 YDALEKMALEFKPKLIVAGASAYPRPIDFKRFREIADEVGAYLLV 194 (402)
T ss_pred HHHHHHHHHhCCCCEEEecCcccCCCcCHHHHHHHHHhcCCEEEE
Confidence 45566667666788888866555531 356688899999986543
No 328
>PRK08328 hypothetical protein; Provisional
Probab=22.29 E-value=1.1e+02 Score=24.73 Aligned_cols=35 Identities=11% Similarity=-0.027 Sum_probs=27.8
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASK 102 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk 102 (156)
...+||-|.|- + .....+-.+|.+++||++....-
T Consensus 118 ~~D~Vid~~d~-~-~~r~~l~~~~~~~~ip~i~g~~~ 152 (231)
T PRK08328 118 GVDVIVDCLDN-F-ETRYLLDDYAHKKGIPLVHGAVE 152 (231)
T ss_pred cCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEeec
Confidence 47899999997 4 35677888999999999886543
No 329
>cd02983 P5_C P5 family, C-terminal redox inactive TRX-like domain; P5 is a protein disulfide isomerase (PDI)-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. The C-terminal domain is likely involved in substrate binding, similar to the b and b' domains of PDI.
Probab=22.26 E-value=3.2e+02 Score=20.01 Aligned_cols=51 Identities=18% Similarity=0.195 Sum_probs=32.1
Q ss_pred ceeeCCHHHHHhhcCCcCceEEEEEecCCCCCCcchHHHHhhHHHHHHHHHHHH
Q 031617 96 YIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVK 149 (156)
Q Consensus 96 ~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~~~~~~~~~~~~~~y~e~~~~i~ 149 (156)
++.+-+...|...|+.+ ..+++++++.-. +...+..+.|.+.|.++++..+
T Consensus 4 ~~~l~~~~~~~~~C~~~-~~C~i~~l~~~~--d~~~e~~~~~~~~l~~vAk~~k 54 (130)
T cd02983 4 IIELTSEDVFEETCEEK-QLCIIAFLPHIL--DCQASCRNKYLEILKSVAEKFK 54 (130)
T ss_pred eEEecCHHHHHhhccCC-CeEEEEEcCccc--cCCHHHHHHHHHHHHHHHHHhc
Confidence 45566788888888775 678888875321 1112345566777777766554
No 330
>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=22.25 E-value=1.3e+02 Score=24.94 Aligned_cols=48 Identities=21% Similarity=0.165 Sum_probs=26.8
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHH
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKED 104 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~e 104 (156)
++.++++.-.+-++++...-....-...+..++.++++|++.+-+|.+
T Consensus 80 ~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~ivviNK~D 127 (270)
T cd01886 80 EVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRIAFVNKMD 127 (270)
T ss_pred HHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCC
Confidence 455566555555555544332222344556677788888876654443
No 331
>PRK08733 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=22.17 E-value=4.6e+02 Score=21.81 Aligned_cols=72 Identities=13% Similarity=0.118 Sum_probs=43.5
Q ss_pred cccCCCCChHHHHHHHHHHHHHHhc-C-C-c-cccHHHHHHHHHcCCccEEEEeCCCCch--------------hHHhhH
Q 031617 24 PIAKPLAGKKLSKRTLKLVRRAAEH-K-C-L-KRGVKEVVKSIRRGHKGLCVIAGNISPI--------------DVITHV 85 (156)
Q Consensus 24 ~~a~Pl~~~~l~~ki~~lL~~A~ka-g-~-l-v~G~~~v~kaI~k~kakLVIIA~D~~p~--------------~~~~~l 85 (156)
.+..|+-...++ .++...|.. | . + -.|.+++++++++|. +|.+..|-++. ......
T Consensus 153 ~vyr~~~n~~~d----~~i~~~R~~~g~~~i~~~~~r~~~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~g~ 226 (306)
T PRK08733 153 GMYRRHRNPVFE----WAVKRGRLRYATHMFANEDLRATIKHLKRGG--FLWYAPDQDMRGKDTVFVPFFGHPASTITAT 226 (306)
T ss_pred EEEeCCCCHHHH----HHHHHHHhhcCCcCcCcccHHHHHHHHhCCC--eEEEeCCCCCCCCCcEEeCCCCCchhHHHHH
Confidence 355665444333 234444432 2 2 2 347899999998885 77777776541 233445
Q ss_pred HHHhHhcCCCceeeCC
Q 031617 86 PILCEESDIPYIYVAS 101 (156)
Q Consensus 86 ~~lc~~~nIP~i~v~s 101 (156)
..++...|.|++.+..
T Consensus 227 a~LA~~~~apvvp~~~ 242 (306)
T PRK08733 227 HQLARLTGCAVVPYFH 242 (306)
T ss_pred HHHHHHhCCeEEEEEE
Confidence 5788888888886654
No 332
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=22.13 E-value=2e+02 Score=22.30 Aligned_cols=45 Identities=11% Similarity=0.002 Sum_probs=26.1
Q ss_pred HHHHHHHcCCccEEEEeC-CCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 57 EVVKSIRRGHKGLCVIAG-NISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~-D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+.++.+..+++.-+|+.. +.+...........+.+++||++++.+
T Consensus 46 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~ 91 (273)
T cd06292 46 DYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNG 91 (273)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcC
Confidence 566777777788777753 211111112222344678999988864
No 333
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=22.09 E-value=65 Score=25.49 Aligned_cols=43 Identities=9% Similarity=0.145 Sum_probs=29.0
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhH-------------------------hcCCCceeeCCHHHHHh
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCE-------------------------ESDIPYIYVASKEDLAN 107 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~-------------------------~~nIP~i~v~sk~eLG~ 107 (156)
..+..+|+--|++..+....+..+.. ..++|++.+++|.+|-.
T Consensus 76 r~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~ 143 (202)
T cd04102 76 NQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP 143 (202)
T ss_pred CcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchh
Confidence 35778888888776544555544322 24799999999988843
No 334
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=22.08 E-value=1.9e+02 Score=22.37 Aligned_cols=40 Identities=10% Similarity=0.246 Sum_probs=24.4
Q ss_pred HHHHHHHcCCccEEEEe-CCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 57 EVVKSIRRGHKGLCVIA-GNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA-~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+.++.+..+++.-+|+. .|.+. .. ...+.+.+||++++.+
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~-~~----~~~~~~~~ipvV~i~~ 86 (270)
T cd06296 46 QWVERLSARRTDGVILVTPELTS-AQ----RAALRRTGIPFVVVDP 86 (270)
T ss_pred HHHHHHHHcCCCEEEEecCCCCh-HH----HHHHhcCCCCEEEEec
Confidence 55666667777766554 44332 22 3445678999888753
No 335
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=22.00 E-value=2.2e+02 Score=20.40 Aligned_cols=46 Identities=17% Similarity=0.335 Sum_probs=29.3
Q ss_pred ccHHHHHHHHHcCCccEEEEeCCCC-----chhHHhhHHHHhHhcCCCceeeC
Q 031617 53 RGVKEVVKSIRRGHKGLCVIAGNIS-----PIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 53 ~G~~~v~kaI~k~kakLVIIA~D~~-----p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.|.++.++.+++|++..||+. +.+ +.+ ...+...|..++|.++++.
T Consensus 52 p~l~~ll~~~~~g~~~~ivv~-~~~Rl~R~~~~-~~~~~~~l~~~gi~l~~~~ 102 (148)
T smart00857 52 PGLQRLLADLRAGDIDVLVVY-KLDRLGRSLRD-LLALLELLEKKGVRLVSVT 102 (148)
T ss_pred HHHHHHHHHHHcCCCCEEEEe-ccchhhCcHHH-HHHHHHHHHHCCCEEEECc
Confidence 567778888888877655544 333 222 3345567788888877664
No 336
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=21.83 E-value=1.4e+02 Score=22.69 Aligned_cols=22 Identities=27% Similarity=0.072 Sum_probs=16.1
Q ss_pred hHHHHhHhcCCCceeeCCHHHH
Q 031617 84 HVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 84 ~l~~lc~~~nIP~i~v~sk~eL 105 (156)
.+...+...++|++.+.+|.+|
T Consensus 108 ~~~~~~~~~~~p~iiv~NK~Dl 129 (194)
T cd01891 108 FVLKKALELGLKPIVVINKIDR 129 (194)
T ss_pred HHHHHHHHcCCCEEEEEECCCC
Confidence 3345566789999988887776
No 337
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=21.75 E-value=2.3e+02 Score=18.20 Aligned_cols=60 Identities=12% Similarity=0.153 Sum_probs=35.0
Q ss_pred HHHHcCCccEEEEeCCCC-chhHHhhHHHHhHhcCCCceeeCC-HHHHHhhcCCcCceEEEEEecCC
Q 031617 60 KSIRRGHKGLCVIAGNIS-PIDVITHVPILCEESDIPYIYVAS-KEDLANAGATKRPTCCVLVLTKP 124 (156)
Q Consensus 60 kaI~k~kakLVIIA~D~~-p~~~~~~l~~lc~~~nIP~i~v~s-k~eLG~a~G~~~~~svvaI~d~~ 124 (156)
+.+.+..+.++.|..|-. +. .+..+.++++.|+.+..+ ..++.+..|.. ....+.|.|+.
T Consensus 46 ~~~~~~~~~~~~v~~d~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~P~~~l~d~~ 107 (116)
T cd02966 46 KEYKDDGVEVVGVNVDDDDPA----AVKAFLKKYGITFPVLLDPDGELAKAYGVR-GLPTTFLIDRD 107 (116)
T ss_pred HHhCCCCeEEEEEECCCCCHH----HHHHHHHHcCCCcceEEcCcchHHHhcCcC-ccceEEEECCC
Confidence 334334566666666654 33 334444666677755543 47888888874 34455666644
No 338
>PLN00197 beta-amylase; Provisional
Probab=21.69 E-value=1.7e+02 Score=27.50 Aligned_cols=46 Identities=13% Similarity=0.278 Sum_probs=40.4
Q ss_pred cccHHHHHHHHHcCCccEEEEeCC-----------CCchhHHhhHHHHhHhcCCCce
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGN-----------ISPIDVITHVPILCEESDIPYI 97 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D-----------~~p~~~~~~l~~lc~~~nIP~i 97 (156)
.-|+..+.+.+.+..+.|.|-+-+ ++|..++..+...|.+++|++.
T Consensus 419 rDGY~~Ia~mfarh~~~l~FTClEM~D~eqp~~a~s~PE~Lv~QV~~aA~~~Gv~va 475 (573)
T PLN00197 419 RDGYLPIAQMLARHGAIFNFTCIEMRDHEQPQDALCAPEKLVRQVALATREAEVPLA 475 (573)
T ss_pred cccHHHHHHHHHHcCCeEEEEecCcccCCCCccccCCHHHHHHHHHHHHHHcCCcEe
Confidence 368899999999999999998864 5788899999999999999984
No 339
>PF01041 DegT_DnrJ_EryC1: DegT/DnrJ/EryC1/StrS aminotransferase family; InterPro: IPR000653 This entry represents a family that are probably all pyridoxal-phosphate-dependent aminotransferase enzymes with a variety of molecular functions. The family includes StsA P72454 from SWISSPROT, StsC P77952 from SWISSPROT and StsS []. The aminotransferase activity was demonstrated for purified StsC protein as the L-glutamine:scyllo-inosose aminotransferase 2.6.1.50 from EC, which catalyses the first amino transfer in the biosynthesis of the streptidine subunit of streptomycin [].; PDB: 2FNI_A 2FNU_A 2FN6_A 2PO3_A 3UWC_A 1O61_B 1O62_B 1O69_B 1B9I_A 1B9H_A ....
Probab=21.68 E-value=1.1e+02 Score=25.93 Aligned_cols=48 Identities=21% Similarity=0.272 Sum_probs=27.7
Q ss_pred CccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee
Q 031617 50 CLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY 98 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~ 98 (156)
.+..=...+.+.|..+..-++++---..|.+ ...|..+|+++||++|.
T Consensus 98 ~~~id~~~~~~~i~~~t~ai~~~h~~G~~~d-~~~i~~~~~~~~i~lIe 145 (363)
T PF01041_consen 98 TLNIDPEALEKAITPKTKAILVVHLFGNPAD-MDAIRAIARKHGIPLIE 145 (363)
T ss_dssp TSSB-HHHHHHHHHTTEEEEEEE-GGGB----HHHHHHHHHHTT-EEEE
T ss_pred cCCcCHHHHHHHhccCccEEEEecCCCCccc-HHHHHHHHHHcCCcEEE
Confidence 3445566777777666533333333334543 77889999999998765
No 340
>PLN02803 beta-amylase
Probab=21.64 E-value=1.8e+02 Score=27.34 Aligned_cols=46 Identities=11% Similarity=0.134 Sum_probs=40.1
Q ss_pred cccHHHHHHHHHcCCccEEEEeCC-----------CCchhHHhhHHHHhHhcCCCce
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGN-----------ISPIDVITHVPILCEESDIPYI 97 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D-----------~~p~~~~~~l~~lc~~~nIP~i 97 (156)
--|+..+.+.+.+..+.|.|-+-+ ++|..++..+...|.+++|++.
T Consensus 398 rdGY~~Ia~mf~rh~~~l~FTClEM~D~eqp~~~~s~Pe~Lv~Qv~~aa~~~Gv~~a 454 (548)
T PLN02803 398 HDGYLPIARMFSKHGVVLNFTCMEMRDGEQPEHANCSPEGLVRQVKMATRTAGTELA 454 (548)
T ss_pred cccHHHHHHHHHHcCCeEEEEecCcccCCCCccccCCHHHHHHHHHHHHHHcCCcee
Confidence 458899999999999999998875 5688899999999999999973
No 341
>cd01838 Isoamyl_acetate_hydrolase_like Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is 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
Probab=21.60 E-value=2.1e+02 Score=21.09 Aligned_cols=20 Identities=20% Similarity=0.155 Sum_probs=15.4
Q ss_pred HHhhHHHHhHhcCCCceeeC
Q 031617 81 VITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 81 ~~~~l~~lc~~~nIP~i~v~ 100 (156)
+...+..+|++++++|+-+.
T Consensus 144 ~~~~~~~~a~~~~~~~iD~~ 163 (199)
T cd01838 144 YAEACVEVAEELGVPVIDLW 163 (199)
T ss_pred HHHHHHHHHHHhCCcEEEHH
Confidence 34457789999999988665
No 342
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.60 E-value=2.3e+02 Score=22.36 Aligned_cols=42 Identities=10% Similarity=0.044 Sum_probs=21.8
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+...++--+|+... ++. ....+...+.+.+||++++.
T Consensus 46 ~~i~~~~~~~vdgiii~~~-~~~-~~~~~i~~~~~~~iPvV~~~ 87 (272)
T cd06313 46 AAIENMASQGWDFIAVDPL-GIG-TLTEAVQKAIARGIPVIDMG 87 (272)
T ss_pred HHHHHHHHcCCCEEEEcCC-ChH-HhHHHHHHHHHCCCcEEEeC
Confidence 4455555566666666432 121 22333455566788877664
No 343
>PRK03244 argD acetylornithine aminotransferase; Provisional
Probab=21.58 E-value=1.7e+02 Score=24.88 Aligned_cols=35 Identities=3% Similarity=0.042 Sum_probs=25.6
Q ss_pred CCccEEEEeCCC-------CchhHHhhHHHHhHhcCCCceee
Q 031617 65 GHKGLCVIAGNI-------SPIDVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 65 ~kakLVIIA~D~-------~p~~~~~~l~~lc~~~nIP~i~v 99 (156)
++..+|++-.-- .|..+...|..+|+++++.++.=
T Consensus 182 ~~~~aviiep~~~~~G~~~~~~~~l~~l~~l~~~~~~llI~D 223 (398)
T PRK03244 182 DDTAAVFLEPIQGEAGVVPPPAGYLAAAREITDRHGALLVLD 223 (398)
T ss_pred CCeEEEEEecccCCCCCcCCCHHHHHHHHHHHHHcCCEEEEe
Confidence 567788886542 23357889999999999987653
No 344
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=21.56 E-value=2.6e+02 Score=19.83 Aligned_cols=50 Identities=12% Similarity=0.061 Sum_probs=31.0
Q ss_pred CccccHHHHHHHHHcC--CccEEEEeCCCCchhHHhhHHHHhHhcCCCceee
Q 031617 50 CLKRGVKEVVKSIRRG--HKGLCVIAGNISPIDVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~--kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v 99 (156)
.+..|+....+.+... ..+.+|+-+|..+..-.......+++.+|++..+
T Consensus 81 ~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v 132 (172)
T PF13519_consen 81 NLYDALQEAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTV 132 (172)
T ss_dssp -HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEE
T ss_pred cHHHHHHHHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEE
Confidence 4888889999888764 3667777788766421222444556777776554
No 345
>cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=21.49 E-value=1.8e+02 Score=21.29 Aligned_cols=31 Identities=6% Similarity=-0.064 Sum_probs=20.3
Q ss_pred CCccEEEEeCCCCch--hHHhhHHHHhHhcCCCc
Q 031617 65 GHKGLCVIAGNISPI--DVITHVPILCEESDIPY 96 (156)
Q Consensus 65 ~kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~ 96 (156)
+++.-||+|.|++.. .+..++..+|.. +.|+
T Consensus 71 ~~~~eiiiAtD~drEGe~i~~~i~~~~~~-~~~v 103 (123)
T cd03363 71 KKADEIYLATDPDREGEAIAWHLAEVLKL-KKNV 103 (123)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHcCC-CCCe
Confidence 458899999999863 234446655553 4555
No 346
>cd01484 E1-2_like Ubiquitin activating enzyme (E1), repeat 2-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homologou
Probab=21.46 E-value=1e+02 Score=25.22 Aligned_cols=40 Identities=13% Similarity=-0.177 Sum_probs=31.5
Q ss_pred CCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 65 GHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 65 ~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
.+..+||.|.|- . .....+-.+|..+++|++..++-.--|
T Consensus 90 ~~~DvVi~a~Dn-~-~aR~~ln~~c~~~~iplI~~g~~G~~G 129 (234)
T cd01484 90 EQFHIIVNALDN-I-IARRYVNGMLIFLIVPLIESGTEGFKG 129 (234)
T ss_pred hCCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEcccCCce
Confidence 457899999995 4 358889999999999999988644333
No 347
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=21.44 E-value=1.2e+02 Score=26.44 Aligned_cols=33 Identities=18% Similarity=0.239 Sum_probs=24.5
Q ss_pred ccEEEEeCCCC---------------ch--hHHhhHHHHhHhcCCCceee
Q 031617 67 KGLCVIAGNIS---------------PI--DVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 67 akLVIIA~D~~---------------p~--~~~~~l~~lc~~~nIP~i~v 99 (156)
-.++|||.|.. |. .-..++..+|.++++|++++
T Consensus 108 rpV~VIa~d~g~~~~e~~~~~~G~~~peg~rKa~R~m~lA~~f~lPIVtl 157 (319)
T PRK05724 108 RPVMVIGHQKGRDTKEKIRRNFGMPRPEGYRKALRLMKMAEKFGLPIITF 157 (319)
T ss_pred EEEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 46788898862 22 23556889999999999876
No 348
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=21.42 E-value=1.8e+02 Score=22.21 Aligned_cols=20 Identities=30% Similarity=0.358 Sum_probs=15.2
Q ss_pred HHhhHHHHhHhcCCCceeeC
Q 031617 81 VITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 81 ~~~~l~~lc~~~nIP~i~v~ 100 (156)
+...+..+|+++++|++-..
T Consensus 130 ~~~~~~~~a~~~~v~~id~~ 149 (191)
T PRK10528 130 FSAIYPKLAKEFDIPLLPFF 149 (191)
T ss_pred HHHHHHHHHHHhCCCccHHH
Confidence 44557889999999987543
No 349
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=21.38 E-value=2.1e+02 Score=23.31 Aligned_cols=42 Identities=10% Similarity=0.069 Sum_probs=23.6
Q ss_pred HHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+.++.+...++.-+|++..- +. ........+.+.+||++.+.
T Consensus 45 ~~i~~l~~~~vDgIIi~~~~-~~-~~~~~l~~~~~~~iPvV~~d 86 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQN-GQ-VLSNAVQEAKDEGIKVVAYD 86 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCC-hh-HHHHHHHHHHHCCCeEEEec
Confidence 45555556666666665422 21 12333455677888877664
No 350
>PRK13599 putative peroxiredoxin; Provisional
Probab=21.34 E-value=3.4e+02 Score=21.72 Aligned_cols=93 Identities=10% Similarity=0.058 Sum_probs=47.3
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhH---hcCCCceeeC-CHHHHHhhcCCc------CceEEEEEecCCC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCE---ESDIPYIYVA-SKEDLANAGATK------RPTCCVLVLTKPT 125 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~---~~nIP~i~v~-sk~eLG~a~G~~------~~~svvaI~d~~~ 125 (156)
.+....+++..+.++-|+.|-.+. ........+ ..++|+-.+. ...+++++.|.- ..+-++.|.|+.+
T Consensus 52 ~~~~~~f~~~gv~vigIS~D~~~~--~~~w~~~i~~~~~~~i~fPil~D~~~~va~~yg~~~~~~~~~~~R~tfIID~dG 129 (215)
T PRK13599 52 ARKANDFKELNTELIGLSVDQVFS--HIKWVEWIKDNTNIAIPFPVIADDLGKVSNQLGMIHPGKGTNTVRAVFIVDDKG 129 (215)
T ss_pred HHHHHHHHHCCCEEEEEeCCCHHH--HHHHHHhHHHhcCCCCceeEEECCCchHHHHcCCCccCCCCceeeEEEEECCCC
Confidence 344456666668888888875321 111111112 3466664443 456888888862 1234566676544
Q ss_pred CCCcc--hHHHHhhHHHHHHHHHHHHhhh
Q 031617 126 KGELG--QEEQDKLKADYTLVVEDVKELA 152 (156)
Q Consensus 126 ~~~~~--~~~~~~~~~~y~e~~~~i~~~~ 152 (156)
.-... ... .-...++|+...|++++
T Consensus 130 ~Ir~~~~~p~--~~gr~~~eilr~l~~lq 156 (215)
T PRK13599 130 TIRLIMYYPQ--EVGRNVDEILRALKALQ 156 (215)
T ss_pred EEEEEEEcCC--CCCCCHHHHHHHHHHhh
Confidence 21110 000 11124677777777664
No 351
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=21.30 E-value=2.6e+02 Score=18.60 Aligned_cols=44 Identities=11% Similarity=0.216 Sum_probs=31.1
Q ss_pred HHHHHHHHHcCCccEEEEeCCC-CchhHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNI-SPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~-~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..++..+......++||-+.+ .-. =.....+|++++||++.++
T Consensus 20 i~~~Ld~~~~~~~~~~lvhGga~~Ga--D~iA~~wA~~~gv~~~~~~ 64 (71)
T PF10686_consen 20 IWAALDKVHARHPDMVLVHGGAPKGA--DRIAARWARERGVPVIRFP 64 (71)
T ss_pred HHHHHHHHHHhCCCEEEEECCCCCCH--HHHHHHHHHHCCCeeEEeC
Confidence 3455566666778888888888 333 3445789999999987654
No 352
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB 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 active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=21.26 E-value=2e+02 Score=22.60 Aligned_cols=46 Identities=15% Similarity=0.133 Sum_probs=27.5
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhH----HhhHHHHhHh---cCCCceeeC
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDV----ITHVPILCEE---SDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~----~~~l~~lc~~---~nIP~i~v~ 100 (156)
.+.+.+.+.+.++.+||+++|...... ...+..+++. .++|+..+.
T Consensus 24 ~~~i~~~~~~~~~d~iv~~GDl~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~ 76 (214)
T cd07399 24 TDWIVDNAEALNIAFVLHLGDIVDDGDNDAEWEAADKAFARLDKAGIPYSVLA 76 (214)
T ss_pred HHHHHHHHHHcCCCEEEECCCccCCCCCHHHHHHHHHHHHHHHHcCCcEEEEC
Confidence 445566666777899999999874211 1122223333 568887654
No 353
>cd04170 EF-G_bact 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
Probab=21.24 E-value=1.6e+02 Score=23.90 Aligned_cols=48 Identities=19% Similarity=0.198 Sum_probs=26.0
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
.++..++..-..-++++..+.........+..++...++|.+.+.+|.
T Consensus 79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~iivvNK~ 126 (268)
T cd04170 79 GETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRIIFINKM 126 (268)
T ss_pred HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECC
Confidence 445666655444444443332222223445556778888887776554
No 354
>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=21.16 E-value=2e+02 Score=20.94 Aligned_cols=48 Identities=15% Similarity=0.106 Sum_probs=25.5
Q ss_pred HHHHHHHcCCccEEEEeCCCCch--hHHhhHHHHhHhcCCCceeeCCHHHH
Q 031617 57 EVVKSIRRGHKGLCVIAGNISPI--DVITHVPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA~D~~p~--~~~~~l~~lc~~~nIP~i~v~sk~eL 105 (156)
++.+.+.++ +.++|+--|++.. ..-..+..+....+.|++.+.+|.+|
T Consensus 4 ~~~~~i~~~-aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl 53 (156)
T cd01859 4 RLVRRIIKE-SDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADL 53 (156)
T ss_pred HHHHHHHhh-CCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHh
Confidence 344444443 4455544455321 11123444455667888888888777
No 355
>COG2877 KdsA 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]
Probab=21.15 E-value=1.3e+02 Score=25.60 Aligned_cols=36 Identities=25% Similarity=0.448 Sum_probs=28.3
Q ss_pred CCccEEEEeCCCCch------hHHhhHHHHhHhcCCCceeeC
Q 031617 65 GHKGLCVIAGNISPI------DVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 65 ~kakLVIIA~D~~p~------~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..++++||+=|.-. ++-.++..+|++.+|||+|-.
T Consensus 14 n~~~~~LiaGpcviEs~d~a~~~a~~lk~~t~~lgi~~vfKs 55 (279)
T COG2877 14 NDLPFVLIAGPCVIESRDLALEIAEHLKELTEKLGIPYVFKS 55 (279)
T ss_pred CCCceEEEeccceeccHHHHHHHHHHHHHHHhccCCceEEec
Confidence 347899999887532 466778889999999999965
No 356
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=21.06 E-value=1.1e+02 Score=17.44 Aligned_cols=24 Identities=13% Similarity=0.183 Sum_probs=17.0
Q ss_pred HHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 81 VITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 81 ~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
.+..|...|+++++| ..++|.+|=
T Consensus 5 ~v~eLk~~l~~~gL~--~~G~K~~Li 28 (35)
T PF02037_consen 5 TVAELKEELKERGLS--TSGKKAELI 28 (35)
T ss_dssp HHHHHHHHHHHTTS---STSSHHHHH
T ss_pred cHHHHHHHHHHCCCC--CCCCHHHHH
Confidence 356688899999998 456777764
No 357
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the 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.
Probab=21.04 E-value=1.1e+02 Score=22.46 Aligned_cols=50 Identities=6% Similarity=0.226 Sum_probs=30.6
Q ss_pred ccccHHHHHHHHHc--CCccEEEEeC-CC-------Cc--hhHHhhHHHHhHhcCCCceeeC
Q 031617 51 LKRGVKEVVKSIRR--GHKGLCVIAG-NI-------SP--IDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 51 lv~G~~~v~kaI~k--~kakLVIIA~-D~-------~p--~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+..++...++.+++ ..++++++.- .. .. ..+-..+..+|++.+++++-+.
T Consensus 70 ~~~~l~~li~~~~~~~~~~~vi~~~~~p~~~~~~~~~~~~~~~n~~l~~~a~~~~~~~id~~ 131 (169)
T cd01828 70 IVANYRTILEKLRKHFPNIKIVVQSILPVGELKSIPNEQIEELNRQLAQLAQQEGVTFLDLW 131 (169)
T ss_pred HHHHHHHHHHHHHHHCCCCeEEEEecCCcCccCcCCHHHHHHHHHHHHHHHHHCCCEEEech
Confidence 33445555666665 5677777633 11 11 2356678899999999987654
No 358
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=20.92 E-value=1.8e+02 Score=25.73 Aligned_cols=48 Identities=10% Similarity=0.177 Sum_probs=31.6
Q ss_pred cHHHHHHHHHc-----CCccEEEEeCCCCchhHHhhHHHHhHhc-----CCCceeeCC
Q 031617 54 GVKEVVKSIRR-----GHKGLCVIAGNISPIDVITHVPILCEES-----DIPYIYVAS 101 (156)
Q Consensus 54 G~~~v~kaI~k-----~kakLVIIA~D~~p~~~~~~l~~lc~~~-----nIP~i~v~s 101 (156)
|.+...++|++ .+.++++|.+=|.+.-+-..+...|++. ++|++.+.+
T Consensus 80 g~~~L~~ai~ei~~~~~~P~~I~V~tTC~~e~IGDDi~~v~~e~~~~~~~~pvv~v~t 137 (427)
T PRK02842 80 ANEELDRVVEELIKRRPNISVLFLVGSCPSEVIKLDLEGLAERLSTEFAGVPVLNYSG 137 (427)
T ss_pred cHHHHHHHHHHHHhccCCCCEEEEECCChHHhhcCCHHHHHHHhhcccCCCeEEEeeC
Confidence 44444444444 5789999999998864555566666543 788888643
No 359
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=20.91 E-value=2.2e+02 Score=19.33 Aligned_cols=21 Identities=33% Similarity=0.362 Sum_probs=15.7
Q ss_pred HHHHhHhcCCCceeeCCHHHH
Q 031617 85 VPILCEESDIPYIYVASKEDL 105 (156)
Q Consensus 85 l~~lc~~~nIP~i~v~sk~eL 105 (156)
+.......++|++.+.+|.++
T Consensus 96 ~~~~~~~~~~~~ivv~nK~D~ 116 (163)
T cd00880 96 LLELLRERGKPVLLVLNKIDL 116 (163)
T ss_pred HHHHHHhcCCeEEEEEEcccc
Confidence 355666789999998887654
No 360
>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=20.90 E-value=94 Score=23.35 Aligned_cols=55 Identities=18% Similarity=0.233 Sum_probs=30.4
Q ss_pred CccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHH
Q 031617 50 CLKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 106 (156)
Q Consensus 50 ~lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG 106 (156)
.+....+++.+.+++-..-++++.... |.. ......+..-.+.|.+.+.+|.+|-
T Consensus 5 ~~~~~~~~~~~~i~~aD~il~v~D~~~-~~~-~~~~~i~~~~~~k~~ilVlNK~Dl~ 59 (171)
T cd01856 5 HMAKALRQIKEKLKLVDLVIEVRDARI-PLS-SRNPLLEKILGNKPRIIVLNKADLA 59 (171)
T ss_pred HHHHHHHHHHHHHhhCCEEEEEeeccC-ccC-cCChhhHhHhcCCCEEEEEehhhcC
Confidence 355677888888866655555544321 211 1111112222467888888888873
No 361
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=20.87 E-value=5.8e+02 Score=23.18 Aligned_cols=60 Identities=13% Similarity=0.148 Sum_probs=40.6
Q ss_pred ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHHHHHhhcCCcCceEEEEEecCCCCC
Q 031617 67 KGLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 127 (156)
Q Consensus 67 akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~eLG~a~G~~~~~svvaI~d~~~~~ 127 (156)
.+..+++.|.....-...+..+|+..++|+..+.+-.++-..+.. ...-++.|-.+|...
T Consensus 253 ~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~-~~~D~VLIDTaGr~~ 312 (432)
T PRK12724 253 KSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLAR-DGSELILIDTAGYSH 312 (432)
T ss_pred CeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHh-CCCCEEEEeCCCCCc
Confidence 568899999866555777889999999998766555555555532 234456665555543
No 362
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=20.87 E-value=5e+02 Score=21.70 Aligned_cols=85 Identities=13% Similarity=0.292 Sum_probs=50.8
Q ss_pred CcccCCCCChHHH--------------HHHHHHHHHHH-hcCC------------ccccHHHHHHHHHcCCccEEEEeCC
Q 031617 23 APIAKPLAGKKLS--------------KRTLKLVRRAA-EHKC------------LKRGVKEVVKSIRRGHKGLCVIAGN 75 (156)
Q Consensus 23 ~~~a~Pl~~~~l~--------------~ki~~lL~~A~-kag~------------lv~G~~~v~kaI~k~kakLVIIA~D 75 (156)
.|+..|+++..+- +.++++++..+ +... +..|.+.-.+...+-.+.=||| -|
T Consensus 45 iPfSDP~ADGpvIq~A~~rAL~~G~~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIi-pD 123 (259)
T PF00290_consen 45 IPFSDPVADGPVIQKASQRALKNGFTLEKIFELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLII-PD 123 (259)
T ss_dssp --SSSCTTSSHHHHHHHHHHHHTT--HHHHHHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEE-TT
T ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEE-cC
Confidence 5788898886542 44567777777 3211 2346666666665544554444 57
Q ss_pred CCchhHHhhHHHHhHhcCCCceee--C--CHHHHHhhc
Q 031617 76 ISPIDVITHVPILCEESDIPYIYV--A--SKEDLANAG 109 (156)
Q Consensus 76 ~~p~~~~~~l~~lc~~~nIP~i~v--~--sk~eLG~a~ 109 (156)
..+ +-...+...|++++++++++ + +.+.+...+
T Consensus 124 LP~-ee~~~~~~~~~~~gl~~I~lv~p~t~~~Ri~~i~ 160 (259)
T PF00290_consen 124 LPP-EESEELREAAKKHGLDLIPLVAPTTPEERIKKIA 160 (259)
T ss_dssp SBG-GGHHHHHHHHHHTT-EEEEEEETTS-HHHHHHHH
T ss_pred CCh-HHHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHH
Confidence 755 45778889999999988775 2 245555544
No 363
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=20.85 E-value=1.4e+02 Score=24.45 Aligned_cols=47 Identities=19% Similarity=0.408 Sum_probs=31.9
Q ss_pred HHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCcee-eCCHHHHHhh
Q 031617 55 VKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANA 108 (156)
Q Consensus 55 ~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~-v~sk~eLG~a 108 (156)
..++..++..| +++++ +|. +-..+...|++++||++= +.|-.|+-.+
T Consensus 81 ~e~a~~a~~aG-A~FiV-----sP~-~~~~v~~~~~~~~i~~iPG~~TpsEi~~A 128 (222)
T PRK07114 81 AATAALYIQLG-ANFIV-----TPL-FNPDIAKVCNRRKVPYSPGCGSLSEIGYA 128 (222)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEeCCCCCHHHHHHH
Confidence 46777777777 77776 453 455678889999999854 4465555544
No 364
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=20.81 E-value=1.3e+02 Score=21.02 Aligned_cols=45 Identities=13% Similarity=0.180 Sum_probs=33.2
Q ss_pred cccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
..+..++.... ....+|+++..+.. ..+.+...+...++|+..++
T Consensus 34 ~~~~~~~~~~~--~~~Diil~~Pqv~~--~~~~i~~~~~~~~~pv~~I~ 78 (96)
T cd05564 34 AVPESELEEYI--DDADVVLLGPQVRY--MLDEVKKKAAEYGIPVAVID 78 (96)
T ss_pred EecHHHHHHhc--CCCCEEEEChhHHH--HHHHHHHHhccCCCcEEEcC
Confidence 45566655332 56889999999844 57788888889999987766
No 365
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=20.65 E-value=1.8e+02 Score=24.50 Aligned_cols=40 Identities=20% Similarity=0.322 Sum_probs=26.4
Q ss_pred HHHHHHHHHcCC--ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 55 VKEVVKSIRRGH--KGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 55 ~~~v~kaI~k~k--akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+..+++++.|. +.++++-+|-.. +..+|+++|||+..+.
T Consensus 103 l~al~~~~~~~~~~~~i~~visn~~~------~~~lA~~~gIp~~~~~ 144 (286)
T PRK06027 103 LGDLLWRWRSGELPVEIAAVISNHDD------LRSLVERFGIPFHHVP 144 (286)
T ss_pred HHHHHHHHHcCCCCcEEEEEEEcChh------HHHHHHHhCCCEEEec
Confidence 445555555653 678888777532 2445999999998754
No 366
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=20.57 E-value=1.9e+02 Score=24.56 Aligned_cols=44 Identities=23% Similarity=0.399 Sum_probs=31.6
Q ss_pred cccc----HHHHHHHHHcCC--ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 51 LKRG----VKEVVKSIRRGH--KGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 51 lv~G----~~~v~kaI~k~k--akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
+++| ....+.+++.|. +..+++-+|- | +. ..+|+++|||++.+.
T Consensus 99 l~Sg~g~nl~al~~~~~~~~l~~~i~~visn~-~-~~----~~~A~~~gIp~~~~~ 148 (289)
T PRK13010 99 MVSKFDHCLNDLLYRWRMGELDMDIVGIISNH-P-DL----QPLAVQHDIPFHHLP 148 (289)
T ss_pred EEeCCCccHHHHHHHHHCCCCCcEEEEEEECC-h-hH----HHHHHHcCCCEEEeC
Confidence 4556 456666667775 7888888886 3 22 378999999998754
No 367
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.57 E-value=1.2e+02 Score=23.75 Aligned_cols=32 Identities=16% Similarity=0.226 Sum_probs=26.0
Q ss_pred EEEeCCCCchhHHhhHHHHhHhcCCCceeeCCHH
Q 031617 70 CVIAGNISPIDVITHVPILCEESDIPYIYVASKE 103 (156)
Q Consensus 70 VIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~sk~ 103 (156)
+++=.|+=| ++..|...++++++|+++|.+..
T Consensus 4 I~VDADACP--Vk~~i~r~A~r~~~~v~~Van~~ 35 (150)
T COG1671 4 IWVDADACP--VKDEIYRVAERMGLKVTFVANFP 35 (150)
T ss_pred EEEeCCCCc--hHHHHHHHHHHhCCeEEEEeCCC
Confidence 456667667 78999999999999999997643
No 368
>PLN02801 beta-amylase
Probab=20.57 E-value=1.9e+02 Score=26.96 Aligned_cols=46 Identities=13% Similarity=0.137 Sum_probs=40.2
Q ss_pred cccHHHHHHHHHcCCccEEEEeCC-----------CCchhHHhhHHHHhHhcCCCce
Q 031617 52 KRGVKEVVKSIRRGHKGLCVIAGN-----------ISPIDVITHVPILCEESDIPYI 97 (156)
Q Consensus 52 v~G~~~v~kaI~k~kakLVIIA~D-----------~~p~~~~~~l~~lc~~~nIP~i 97 (156)
.-|+..+.+.+.+..+.|.|-+-+ ++|..++..+...|.+++|++.
T Consensus 326 rDGY~pIa~m~~rh~~~l~FTClEM~D~eq~~~~~s~PE~Lv~QV~~aa~~~Gv~va 382 (517)
T PLN02801 326 RDGYRPIARMLSRHYGILNFTCLEMRDTEQPAEALSAPQELVQQVLSGAWREGIEVA 382 (517)
T ss_pred ccchHHHHHHHHHcCCeEEEeecccccCCCCcccCCCHHHHHHHHHHHHHHcCCcEe
Confidence 458899999999999999998864 5688899999999999999873
No 369
>COG4378 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.51 E-value=1.2e+02 Score=22.10 Aligned_cols=34 Identities=9% Similarity=0.246 Sum_probs=27.3
Q ss_pred ccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 67 KGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 67 akLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
..|+++-.|--..++++.|..-+++.+||+++..
T Consensus 45 ~dlilvLtdf~nHNl~~~iK~eakk~~ip~~~ak 78 (103)
T COG4378 45 TDLILVLTDFLNHNLMKKIKNEAKKRKIPLVCAK 78 (103)
T ss_pred ccEEEEEhhhhcchHHHHHHHHHhhcCCCeEEee
Confidence 5666666665555799999999999999998865
No 370
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.47 E-value=2.7e+02 Score=21.31 Aligned_cols=40 Identities=13% Similarity=0.381 Sum_probs=23.0
Q ss_pred HHHHHHHcCCccEEEEe-CCCCchhHHhhHHHHhHhcCCCceeeCC
Q 031617 57 EVVKSIRRGHKGLCVIA-GNISPIDVITHVPILCEESDIPYIYVAS 101 (156)
Q Consensus 57 ~v~kaI~k~kakLVIIA-~D~~p~~~~~~l~~lc~~~nIP~i~v~s 101 (156)
+.++.+.++.+.-+|+. .|.+. .. ...+.+.+||++.+.+
T Consensus 45 ~~i~~~~~~~vdgiii~~~~~~~-~~----~~~~~~~~ipvV~~~~ 85 (266)
T cd06278 45 AALRQLLQYRVDGVIVTSGTLSS-EL----AEECRRNGIPVVLINR 85 (266)
T ss_pred HHHHHHHHcCCCEEEEecCCCCH-HH----HHHHhhcCCCEEEECC
Confidence 44455555666655554 44322 12 4455678999988853
No 371
>TIGR03106 trio_M42_hydro hydrolase, peptidase M42 family. This model describes a subfamily of MEROPS peptidase family M42, a glutamyl aminopeptidase family that also includes the cellulase CelM from Clostridium thermocellum and deblocking aminopeptidases that can remove acylated amino acids. Members of this family occur in a three gene cassette with an amidotransferase (TIGR03104)in the asparagine synthase (glutamine-hydrolyzing) family, and a probable acetyltransferase (TIGR03103) in the GNAT family.
Probab=20.46 E-value=2.1e+02 Score=24.71 Aligned_cols=19 Identities=21% Similarity=0.419 Sum_probs=17.2
Q ss_pred hHHhhHHHHhHhcCCCcee
Q 031617 80 DVITHVPILCEESDIPYIY 98 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~ 98 (156)
.+.+.|..+|+++||||-+
T Consensus 267 ~l~~~l~~~A~~~~Ip~Q~ 285 (343)
T TIGR03106 267 HLTRKLIRLCQDHGIPHRR 285 (343)
T ss_pred HHHHHHHHHHHHcCCCcEE
Confidence 5899999999999999955
No 372
>cd07392 MPP_PAE1087 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain. PAE1087 is an uncharacterized Pyrobaculum aerophilum protein with a metallophosphatase domain. The domain present in members of this family 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 active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordina
Probab=20.44 E-value=1.7e+02 Score=21.54 Aligned_cols=39 Identities=15% Similarity=0.311 Sum_probs=26.3
Q ss_pred HHHcCCccEEEEeCCCCchh---HHhhHHHHhHhcCCCceeeC
Q 031617 61 SIRRGHKGLCVIAGNISPID---VITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 61 aI~k~kakLVIIA~D~~p~~---~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+++.++.+||+++|..... ....+ ..-...++|+.++.
T Consensus 18 ~~~~~~~D~vv~~GDl~~~~~~~~~~~~-~~l~~~~~p~~~v~ 59 (188)
T cd07392 18 ILKAEEADAVIVAGDITNFGGKEAAVEI-NLLLAIGVPVLAVP 59 (188)
T ss_pred HhhccCCCEEEECCCccCcCCHHHHHHH-HHHHhcCCCEEEEc
Confidence 45667899999999986421 12223 44456788998885
No 373
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=20.43 E-value=1.6e+02 Score=24.98 Aligned_cols=43 Identities=14% Similarity=0.132 Sum_probs=34.7
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.+....+..+.--+||=|-|.-+ .+.+|..+|..++||++...
T Consensus 111 ~en~~~~~~~~~DyvIDaiD~v~--~Kv~Li~~c~~~ki~vIss~ 153 (263)
T COG1179 111 EENLEDLLSKGFDYVIDAIDSVR--AKVALIAYCRRNKIPVISSM 153 (263)
T ss_pred HhHHHHHhcCCCCEEEEchhhhH--HHHHHHHHHHHcCCCEEeec
Confidence 34455666678999999999744 68999999999999998765
No 374
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=20.34 E-value=2.6e+02 Score=20.24 Aligned_cols=23 Identities=9% Similarity=0.395 Sum_probs=12.6
Q ss_pred HHHHHHHHcCCccEEEEeCCCCc
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISP 78 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p 78 (156)
.++++.+.++...+++|..|.-+
T Consensus 36 ~~~~~~l~~~~~~iIiite~~a~ 58 (104)
T COG1436 36 RAALRVLAEDDVGIILITEDLAE 58 (104)
T ss_pred HHHHHhhccCCceEEEEeHHHHh
Confidence 34455555555666666655544
No 375
>cd01839 SGNH_arylesterase_like SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are 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.
Probab=20.26 E-value=1.5e+02 Score=22.58 Aligned_cols=20 Identities=15% Similarity=0.142 Sum_probs=16.1
Q ss_pred hHHhhHHHHhHhcCCCceee
Q 031617 80 DVITHVPILCEESDIPYIYV 99 (156)
Q Consensus 80 ~~~~~l~~lc~~~nIP~i~v 99 (156)
.+...+..+|++++++++-+
T Consensus 156 ~~~~~~~~~a~~~~~~~iD~ 175 (208)
T cd01839 156 GLADAYRALAEELGCHFFDA 175 (208)
T ss_pred HHHHHHHHHHHHhCCCEEcH
Confidence 35667889999999998764
No 376
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.26 E-value=2.3e+02 Score=22.05 Aligned_cols=42 Identities=14% Similarity=0.146 Sum_probs=24.8
Q ss_pred HHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCceeeC
Q 031617 56 KEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPYIYVA 100 (156)
Q Consensus 56 ~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~i~v~ 100 (156)
.++++.+..+++.-+|+.....+. ..+...+.+.+||++++.
T Consensus 45 ~~~i~~l~~~~vdgii~~~~~~~~---~~~~~~~~~~~ipvV~i~ 86 (269)
T cd06281 45 LEILRSFEQRRMDGIIIAPGDERD---PELVDALASLDLPIVLLD 86 (269)
T ss_pred HHHHHHHHHcCCCEEEEecCCCCc---HHHHHHHHhCCCCEEEEe
Confidence 456666777777666665432221 123345667889987775
No 377
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=20.18 E-value=95 Score=23.06 Aligned_cols=41 Identities=20% Similarity=0.284 Sum_probs=24.0
Q ss_pred CccEEEEeCCCCchhHHhhHHHHhH----hcCCCceeeCCHHHHH
Q 031617 66 HKGLCVIAGNISPIDVITHVPILCE----ESDIPYIYVASKEDLA 106 (156)
Q Consensus 66 kakLVIIA~D~~p~~~~~~l~~lc~----~~nIP~i~v~sk~eLG 106 (156)
.+.++++--|.+.......+..+-+ ..++|++.+.+|.+|.
T Consensus 77 ~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~ 121 (169)
T cd01892 77 ACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLD 121 (169)
T ss_pred cCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEccccc
Confidence 4555555556643223333333222 3489999999998884
No 378
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=20.16 E-value=3.7e+02 Score=19.91 Aligned_cols=67 Identities=15% Similarity=0.151 Sum_probs=41.8
Q ss_pred HHHHHHcCCccEEEEeCCCCc---hhHHhhHHHHhHhcCCCceeeC-CHHHHHhhcCCcCceEEEEEecCCC
Q 031617 58 VVKSIRRGHKGLCVIAGNISP---IDVITHVPILCEESDIPYIYVA-SKEDLANAGATKRPTCCVLVLTKPT 125 (156)
Q Consensus 58 v~kaI~k~kakLVIIA~D~~p---~~~~~~l~~lc~~~nIP~i~v~-sk~eLG~a~G~~~~~svvaI~d~~~ 125 (156)
..+...+..+.+|.|..|-.. .+-...+..+.+++++|+.++. ....+.+.+|... .-.+.|.|+.+
T Consensus 50 l~~~~~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~v~~-~P~~~lid~~G 120 (171)
T cd02969 50 LAKEYGAKGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFPYLLDETQEVAKAYGAAC-TPDFFLFDPDG 120 (171)
T ss_pred HHHHHhhCCeEEEEEecCccccccccCHHHHHHHHHHCCCCceEEECCchHHHHHcCCCc-CCcEEEECCCC
Confidence 334444456788888776531 0124556667778899886664 4567888888753 34567777554
No 379
>TIGR01458 HAD-SF-IIA-hyp3 HAD-superfamily subfamily IIA hydrolase, TIGR01458. This hypothetical equivalog is a member of the IIA subfamily (TIGR01460) of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. One sequence (GP|10716807) has been annotated as a "phospholysine phosphohistidine inorganic pyrophosphatase," probably in reference to studies on similarly described (but unsequenced) enzymes from bovine and rat tissues. However, the supporting information for this annotation has never been published.
Probab=20.15 E-value=2.6e+02 Score=22.70 Aligned_cols=44 Identities=11% Similarity=0.078 Sum_probs=30.9
Q ss_pred ccccHHHHHHHHHcCCccEEEEeCCCCchhHHhhHHHHhHhcCCCc
Q 031617 51 LKRGVKEVVKSIRRGHKGLCVIAGNISPIDVITHVPILCEESDIPY 96 (156)
Q Consensus 51 lv~G~~~v~kaI~k~kakLVIIA~D~~p~~~~~~l~~lc~~~nIP~ 96 (156)
+.-|..++++.+++...+++|+.++.+.. ...+...-++.++++
T Consensus 22 ~~~~a~~al~~l~~~G~~~~~~Tn~~~~~--~~~~~~~l~~~g~~~ 65 (257)
T TIGR01458 22 AVPGSQEAVKRLRGASVKVRFVTNTTKES--KQDLLERLQRLGFDI 65 (257)
T ss_pred cCCCHHHHHHHHHHCCCeEEEEECCCCCC--HHHHHHHHHHcCCCC
Confidence 78899999999998888888888887653 223333334556653
Done!