Query 033061
Match_columns 128
No_of_seqs 128 out of 1023
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 09:20:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033061.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033061hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03677 rpl7ae 50S ribosomal 100.0 1.7E-30 3.7E-35 184.4 14.3 116 8-126 1-116 (117)
2 PRK04175 rpl7ae 50S ribosomal 100.0 3.5E-30 7.5E-35 184.1 15.1 117 8-126 3-120 (122)
3 COG1358 RPL8A Ribosomal protei 100.0 5.7E-28 1.2E-32 171.3 13.8 113 9-125 2-114 (116)
4 KOG3167 Box H/ACA snoRNP compo 100.0 2.2E-28 4.7E-33 176.6 11.1 121 5-127 30-150 (153)
5 PTZ00106 60S ribosomal protein 99.9 4.4E-27 9.4E-32 165.0 11.8 99 16-115 7-106 (108)
6 PRK07714 hypothetical protein; 99.9 6.1E-26 1.3E-30 156.8 12.6 95 19-118 3-97 (100)
7 PRK07283 hypothetical protein; 99.9 7.7E-26 1.7E-30 156.0 12.4 94 19-118 3-96 (98)
8 PRK01018 50S ribosomal protein 99.9 9.1E-26 2E-30 155.9 12.2 91 22-113 4-95 (99)
9 PRK05583 ribosomal protein L7A 99.9 1.2E-25 2.7E-30 156.6 12.9 96 18-118 1-96 (104)
10 PRK13602 putative ribosomal pr 99.9 1.6E-24 3.5E-29 145.2 10.6 76 29-105 6-81 (82)
11 PRK06683 hypothetical protein; 99.9 2.1E-24 4.5E-29 144.7 10.4 79 26-105 3-81 (82)
12 PF01248 Ribosomal_L7Ae: Ribos 99.9 1.5E-24 3.2E-29 147.3 9.7 92 20-111 1-92 (95)
13 KOG3387 60S ribosomal protein 99.9 4.6E-23 9.9E-28 146.9 11.2 128 1-128 1-131 (131)
14 PRK13601 putative L7Ae-like ri 99.9 3.1E-23 6.8E-28 139.1 9.4 75 32-107 6-80 (82)
15 PRK13600 putative ribosomal pr 99.9 3.3E-22 7.1E-27 134.6 9.4 72 33-105 12-83 (84)
16 PRK09190 hypothetical protein; 99.9 2.3E-21 4.9E-26 150.7 12.3 98 15-117 92-195 (220)
17 PTZ00222 60S ribosomal protein 99.9 9.5E-21 2.1E-25 149.1 14.0 113 10-124 98-224 (263)
18 PTZ00365 60S ribosomal protein 99.8 8.7E-20 1.9E-24 144.0 12.0 113 10-124 100-224 (266)
19 COG1911 RPL30 Ribosomal protei 99.8 8.7E-19 1.9E-23 119.9 9.0 94 20-114 5-99 (100)
20 KOG3406 40S ribosomal protein 99.7 1E-15 2.2E-20 109.3 11.8 103 8-110 8-121 (134)
21 KOG2988 60S ribosomal protein 99.2 6.7E-11 1.5E-15 82.7 7.7 96 20-116 12-108 (112)
22 KOG3166 60S ribosomal protein 98.1 3.7E-06 8E-11 65.0 5.0 75 35-123 110-186 (209)
23 PF08228 RNase_P_pop3: RNase P 98.1 7.7E-05 1.7E-09 55.7 11.1 107 11-118 21-146 (158)
24 PF08032 SpoU_sub_bind: RNA 2' 96.6 0.0097 2.1E-07 37.8 6.2 70 35-106 1-71 (76)
25 PF03465 eRF1_3: eRF1 domain 3 96.6 0.012 2.7E-07 41.2 6.8 69 25-93 11-98 (113)
26 PRK04011 peptide chain release 95.7 0.054 1.2E-06 45.8 7.8 81 25-106 286-408 (411)
27 PF15608 PELOTA_1: PELOTA RNA 95.6 0.03 6.6E-07 38.9 5.0 63 22-86 22-89 (100)
28 TIGR03676 aRF1/eRF1 peptide ch 95.6 0.066 1.4E-06 45.3 7.8 76 30-106 284-400 (403)
29 TIGR00111 pelota probable tran 95.3 0.077 1.7E-06 43.9 7.3 75 30-106 273-348 (351)
30 TIGR00108 eRF peptide chain re 95.1 0.12 2.7E-06 43.6 8.0 77 29-106 287-404 (409)
31 PF10087 DUF2325: Uncharacteri 93.1 0.35 7.7E-06 32.4 5.6 53 40-92 36-92 (97)
32 PRK11181 23S rRNA (guanosine-2 92.7 1.7 3.6E-05 34.1 9.7 72 34-107 3-76 (244)
33 PRK10864 putative methyltransf 92.4 1.5 3.4E-05 36.5 9.5 78 26-106 101-180 (346)
34 cd01422 MGS Methylglyoxal synt 91.8 0.49 1.1E-05 33.1 5.1 49 36-84 56-108 (115)
35 TIGR00186 rRNA_methyl_3 rRNA m 91.4 2.4 5.1E-05 33.1 9.1 78 34-116 2-81 (237)
36 PF02142 MGS: MGS-like domain 89.3 0.69 1.5E-05 30.8 4.0 42 41-82 51-95 (95)
37 PRK05234 mgsA methylglyoxal sy 88.3 1.3 2.7E-05 32.3 5.0 56 38-93 63-123 (142)
38 PF07997 DUF1694: Protein of u 88.2 1.8 3.9E-05 30.8 5.6 50 39-89 51-100 (120)
39 cd00532 MGS-like MGS-like doma 88.2 1.1 2.5E-05 30.7 4.5 46 38-83 55-105 (112)
40 COG1537 PelA Predicted RNA-bin 87.5 2 4.4E-05 36.0 6.2 71 29-99 267-343 (352)
41 PLN02821 1-hydroxy-2-methyl-2- 86.8 3.9 8.5E-05 35.4 7.8 77 44-126 356-452 (460)
42 PF13727 CoA_binding_3: CoA-bi 85.4 1.4 3.1E-05 31.1 3.9 48 37-84 128-175 (175)
43 smart00851 MGS MGS-like domain 85.2 1.7 3.7E-05 28.5 4.0 48 34-81 39-89 (90)
44 PF02603 Hpr_kinase_N: HPr Ser 85.0 1.3 2.8E-05 31.3 3.5 41 41-84 72-112 (127)
45 KOG4175 Tryptophan synthase al 83.5 3.9 8.5E-05 32.3 5.8 72 7-81 53-152 (268)
46 PRK01045 ispH 4-hydroxy-3-meth 82.2 11 0.00025 30.7 8.3 78 43-125 204-281 (298)
47 TIGR00216 ispH_lytB (E)-4-hydr 82.0 7.1 0.00015 31.6 7.0 70 50-124 208-278 (280)
48 COG1648 CysG Siroheme synthase 81.5 5.9 0.00013 30.6 6.2 63 51-117 73-140 (210)
49 COG0566 SpoU rRNA methylases [ 81.1 20 0.00044 28.4 9.2 70 34-106 22-92 (260)
50 PF03618 Kinase-PPPase: Kinase 81.0 15 0.00032 29.4 8.4 65 54-120 55-121 (255)
51 PRK12360 4-hydroxy-3-methylbut 80.4 13 0.00028 30.2 8.0 71 50-125 209-280 (281)
52 PF11823 DUF3343: Protein of u 80.3 4.8 0.0001 25.6 4.5 58 53-118 4-61 (73)
53 cd01483 E1_enzyme_family Super 80.1 3.6 7.8E-05 28.9 4.3 36 49-86 88-123 (143)
54 PF02401 LYTB: LytB protein; 80.1 24 0.00053 28.5 9.5 76 43-125 203-280 (281)
55 PF13611 Peptidase_S76: Serine 79.6 2.7 5.9E-05 30.1 3.4 30 56-86 30-59 (121)
56 PRK13371 4-hydroxy-3-methylbut 79.1 13 0.00029 31.5 7.9 79 43-126 281-378 (387)
57 PF13344 Hydrolase_6: Haloacid 79.0 4.9 0.00011 27.1 4.5 47 32-80 12-58 (101)
58 TIGR03025 EPS_sugtrans exopoly 77.9 22 0.00047 29.8 9.0 53 38-90 176-228 (445)
59 PF07085 DRTGG: DRTGG domain; 77.6 4.3 9.2E-05 27.3 3.8 47 40-89 51-98 (105)
60 cd01424 MGS_CPS_II Methylglyox 77.4 6.6 0.00014 26.5 4.8 46 37-82 54-100 (110)
61 PRK10124 putative UDP-glucose 75.2 37 0.00081 29.0 9.7 53 38-90 191-243 (463)
62 COG1503 eRF1 Peptide chain rel 75.0 11 0.00025 32.2 6.4 76 30-106 291-406 (411)
63 cd01020 TroA_b Metal binding p 74.8 9.2 0.0002 30.0 5.6 57 65-125 194-261 (264)
64 PF02421 FeoB_N: Ferrous iron 74.3 18 0.00039 26.6 6.7 76 40-119 68-156 (156)
65 PRK06552 keto-hydroxyglutarate 73.8 11 0.00025 29.0 5.8 58 39-105 78-136 (213)
66 PRK05562 precorrin-2 dehydroge 73.4 11 0.00023 29.6 5.5 62 50-114 85-150 (223)
67 TIGR03023 WcaJ_sugtrans Undeca 73.4 10 0.00023 31.8 5.9 53 38-90 179-231 (451)
68 COG0159 TrpA Tryptophan syntha 72.8 29 0.00063 28.0 8.0 114 7-122 52-203 (265)
69 PF15632 ATPgrasp_Ter: ATP-gra 72.8 10 0.00022 31.4 5.5 53 36-89 8-78 (329)
70 PRK03147 thiol-disulfide oxido 71.9 32 0.0007 24.3 8.7 55 39-97 83-138 (173)
71 KOG4201 Anthranilate synthase 71.5 9.7 0.00021 30.4 4.9 71 35-108 145-216 (289)
72 PRK12723 flagellar biosynthesi 71.3 34 0.00073 28.9 8.4 59 50-108 206-264 (388)
73 smart00187 INB Integrin beta s 71.1 19 0.00041 31.0 6.9 102 20-125 188-340 (423)
74 PRK00087 4-hydroxy-3-methylbut 70.6 28 0.00061 31.1 8.2 71 50-125 206-277 (647)
75 PF00009 GTP_EFTU: Elongation 70.6 7.3 0.00016 28.5 3.9 87 39-125 84-188 (188)
76 PRK09590 celB cellobiose phosp 70.5 7.4 0.00016 26.8 3.7 46 37-84 37-82 (104)
77 PRK06628 lipid A biosynthesis 69.4 18 0.00039 28.7 6.2 76 6-85 140-231 (290)
78 TIGR00679 hpr-ser Hpr(Ser) kin 69.1 17 0.00037 29.9 6.0 52 41-95 73-125 (304)
79 TIGR01470 cysG_Nterm siroheme 68.8 17 0.00037 27.7 5.7 36 50-87 69-104 (205)
80 cd01485 E1-1_like Ubiquitin ac 67.9 8.5 0.00018 29.1 3.8 39 50-90 113-151 (198)
81 cd03420 SirA_RHOD_Pry_redox Si 67.3 15 0.00033 23.0 4.4 40 42-84 16-57 (69)
82 PRK06553 lipid A biosynthesis 66.8 21 0.00045 28.6 6.1 77 5-85 158-250 (308)
83 cd00757 ThiF_MoeB_HesA_family 66.7 8.8 0.00019 29.4 3.8 39 50-90 111-149 (228)
84 COG1105 FruK Fructose-1-phosph 66.3 36 0.00079 28.0 7.4 85 5-98 102-198 (310)
85 COG0761 lytB 4-Hydroxy-3-methy 66.2 45 0.00097 27.4 7.8 73 50-126 212-284 (294)
86 PRK07920 lipid A biosynthesis 66.0 19 0.00042 28.6 5.8 77 5-85 133-229 (298)
87 PF08534 Redoxin: Redoxin; In 65.5 42 0.0009 23.1 7.2 49 43-96 55-104 (146)
88 TIGR02208 lipid_A_msbB lipid A 65.1 32 0.0007 27.4 6.9 77 5-85 147-240 (305)
89 PF13241 NAD_binding_7: Putati 64.9 8.6 0.00019 25.8 3.0 33 51-85 61-93 (103)
90 PF04705 TSNR_N: Thiostrepton- 64.8 7.4 0.00016 27.3 2.7 83 20-105 16-100 (115)
91 TIGR02661 MauD methylamine deh 64.6 55 0.0012 24.2 7.7 71 50-125 104-184 (189)
92 PRK14722 flhF flagellar biosyn 64.6 26 0.00057 29.5 6.5 60 49-108 166-225 (374)
93 PRK08943 lipid A biosynthesis 64.5 36 0.00078 27.3 7.1 79 3-85 154-249 (314)
94 PF00578 AhpC-TSA: AhpC/TSA fa 63.8 35 0.00076 22.5 6.0 53 39-96 48-101 (124)
95 TIGR00160 MGSA methylglyoxal s 63.7 15 0.00032 27.1 4.2 60 37-98 60-126 (143)
96 PF00218 IGPS: Indole-3-glycer 63.1 30 0.00065 27.6 6.2 73 34-109 116-189 (254)
97 PLN02591 tryptophan synthase 62.9 64 0.0014 25.6 8.1 114 7-122 37-187 (250)
98 PF01297 TroA: Periplasmic sol 62.9 28 0.0006 26.8 6.0 64 60-125 183-254 (256)
99 PF08862 DUF1829: Domain of un 62.8 10 0.00022 25.3 3.0 49 36-85 39-87 (88)
100 cd00755 YgdL_like Family of ac 62.7 18 0.00038 28.3 4.8 40 44-85 96-135 (231)
101 PF00462 Glutaredoxin: Glutare 62.5 29 0.00064 20.4 4.9 43 42-85 15-57 (60)
102 cd01492 Aos1_SUMO Ubiquitin ac 62.5 12 0.00026 28.2 3.8 39 50-90 110-148 (197)
103 PRK05339 PEP synthetase regula 62.3 69 0.0015 25.9 8.2 66 53-120 60-127 (269)
104 PRK13957 indole-3-glycerol-pho 62.3 49 0.0011 26.3 7.3 76 34-112 109-185 (247)
105 TIGR03022 WbaP_sugtrans Undeca 62.2 84 0.0018 26.4 9.2 54 37-90 175-229 (456)
106 PRK13111 trpA tryptophan synth 61.7 80 0.0017 25.1 9.1 114 7-122 47-198 (258)
107 COG1168 MalY Bifunctional PLP- 61.2 20 0.00042 30.6 5.1 52 31-82 139-196 (388)
108 cd03017 PRX_BCP Peroxiredoxin 60.8 49 0.0011 22.4 7.2 52 42-98 49-101 (140)
109 COG1436 NtpG Archaeal/vacuolar 60.5 34 0.00074 23.7 5.4 45 40-85 36-81 (104)
110 cd01491 Ube1_repeat1 Ubiquitin 60.5 13 0.00027 30.2 3.7 42 50-93 105-146 (286)
111 COG0796 MurI Glutamate racemas 60.1 92 0.002 25.2 8.8 69 44-119 62-134 (269)
112 PRK08057 cobalt-precorrin-6x r 60.0 27 0.00058 27.6 5.5 47 38-84 53-99 (248)
113 PRK05428 HPr kinase/phosphoryl 59.9 22 0.00047 29.3 5.0 41 41-84 73-113 (308)
114 cd04724 Tryptophan_synthase_al 59.8 73 0.0016 24.7 7.9 113 8-122 36-185 (242)
115 PF07905 PucR: Purine cataboli 59.6 24 0.00051 24.5 4.6 39 47-86 70-108 (123)
116 PF00899 ThiF: ThiF family; I 59.4 14 0.0003 25.7 3.4 42 40-85 84-125 (135)
117 cd01857 HSR1_MMR1 HSR1/MMR1. 59.0 21 0.00046 24.8 4.3 13 77-89 42-54 (141)
118 COG1880 CdhB CO dehydrogenase/ 58.9 30 0.00064 26.2 5.2 44 41-84 27-70 (170)
119 cd04164 trmE TrmE (MnmE, ThdF, 58.0 54 0.0012 22.0 6.3 79 42-122 74-155 (157)
120 cd04165 GTPBP1_like GTPBP1-lik 57.9 22 0.00047 27.3 4.5 50 40-89 99-150 (224)
121 PF00205 TPP_enzyme_M: Thiamin 57.7 6.8 0.00015 27.3 1.6 45 40-84 2-46 (137)
122 COG2099 CobK Precorrin-6x redu 57.6 24 0.00053 28.4 4.8 48 37-84 53-100 (257)
123 TIGR03659 IsdE heme ABC transp 57.3 89 0.0019 24.4 8.0 72 41-123 82-162 (289)
124 PRK15116 sulfur acceptor prote 57.0 26 0.00057 28.1 5.0 38 45-84 116-153 (268)
125 PRK05703 flhF flagellar biosyn 56.8 77 0.0017 26.9 8.0 61 48-108 249-309 (424)
126 cd06423 CESA_like CESA_like is 56.8 42 0.00091 22.2 5.4 69 40-109 13-89 (180)
127 PF02571 CbiJ: Precorrin-6x re 56.6 31 0.00068 27.2 5.3 47 38-84 54-100 (249)
128 PF00391 PEP-utilizers: PEP-ut 56.1 23 0.00051 22.7 3.8 34 51-84 10-60 (80)
129 PRK11018 hypothetical protein; 56.0 32 0.00069 22.2 4.4 35 46-84 32-66 (78)
130 TIGR02181 GRX_bact Glutaredoxi 54.9 38 0.00082 21.0 4.6 15 67-81 13-27 (79)
131 KOG2486 Predicted GTPase [Gene 54.8 13 0.00028 30.7 2.9 35 53-87 224-258 (320)
132 TIGR02356 adenyl_thiF thiazole 54.8 17 0.00038 27.4 3.5 35 50-86 111-145 (202)
133 PF03279 Lip_A_acyltrans: Bact 54.7 68 0.0015 25.1 7.0 76 7-86 148-240 (295)
134 TIGR00315 cdhB CO dehydrogenas 54.5 33 0.00072 25.6 4.9 46 39-84 17-62 (162)
135 TIGR00283 arch_pth2 peptidyl-t 53.9 31 0.00068 24.2 4.4 43 40-85 39-81 (115)
136 TIGR02342 chap_CCT_delta T-com 53.8 33 0.00071 29.7 5.4 47 40-86 263-309 (517)
137 cd03027 GRX_DEP Glutaredoxin ( 53.8 49 0.0011 20.2 5.0 42 53-96 3-50 (73)
138 TIGR03499 FlhF flagellar biosy 53.1 64 0.0014 25.6 6.6 48 49-96 223-270 (282)
139 TIGR02355 moeB molybdopterin s 53.0 21 0.00047 27.8 3.8 34 50-85 114-147 (240)
140 PRK05690 molybdopterin biosynt 53.0 18 0.00039 28.3 3.4 34 50-85 122-155 (245)
141 TIGR00853 pts-lac PTS system, 52.6 19 0.00041 24.2 3.0 45 37-85 39-83 (95)
142 cd01493 APPBP1_RUB Ubiquitin a 52.4 14 0.00031 31.5 2.9 40 51-92 113-152 (425)
143 cd03423 SirA SirA (also known 52.0 51 0.0011 20.4 4.8 40 42-84 16-57 (69)
144 PRK14723 flhF flagellar biosyn 52.0 70 0.0015 29.7 7.3 72 48-119 213-288 (767)
145 PRK00278 trpC indole-3-glycero 51.9 88 0.0019 24.6 7.2 69 35-106 119-188 (260)
146 COG1803 MgsA Methylglyoxal syn 51.7 35 0.00075 25.0 4.4 61 37-99 62-129 (142)
147 cd01147 HemV-2 Metal binding p 51.7 1E+02 0.0022 23.2 7.5 75 40-123 64-148 (262)
148 cd01018 ZntC Metal binding pro 51.6 36 0.00077 26.6 4.9 85 35-122 173-263 (266)
149 PF00290 Trp_syntA: Tryptophan 51.5 1E+02 0.0022 24.6 7.5 113 7-122 45-196 (259)
150 cd03012 TlpA_like_DipZ_like Tl 51.5 73 0.0016 21.5 7.0 57 41-97 47-105 (126)
151 cd01018 ZntC Metal binding pro 51.4 71 0.0015 24.9 6.6 12 70-81 181-192 (266)
152 COG0352 ThiE Thiamine monophos 51.2 77 0.0017 24.5 6.6 55 39-94 24-81 (211)
153 COG1493 HprK Serine kinase of 51.1 47 0.001 27.5 5.6 44 38-84 69-112 (308)
154 cd03422 YedF YedF is a bacteri 50.9 50 0.0011 20.6 4.7 40 42-84 16-57 (69)
155 TIGR00262 trpA tryptophan synt 50.2 1.2E+02 0.0027 23.8 7.9 114 7-122 45-196 (256)
156 PRK08328 hypothetical protein; 50.0 25 0.00055 27.1 3.8 35 50-86 118-152 (231)
157 PRK00945 acetyl-CoA decarbonyl 49.7 44 0.00096 25.1 4.9 46 40-85 25-71 (171)
158 cd03338 TCP1_delta TCP-1 (CTT 49.7 43 0.00094 28.8 5.5 46 40-85 262-307 (515)
159 PRK10637 cysG siroheme synthas 49.6 46 0.001 28.3 5.6 63 50-115 72-138 (457)
160 TIGR00715 precor6x_red precorr 49.5 39 0.00085 26.8 4.9 47 38-84 53-99 (256)
161 TIGR00461 gcvP glycine dehydro 49.4 1.8E+02 0.0039 27.7 9.7 105 10-120 99-220 (939)
162 TIGR01182 eda Entner-Doudoroff 49.1 34 0.00073 26.4 4.3 66 32-106 57-129 (204)
163 cd01879 FeoB Ferrous iron tran 48.9 44 0.00095 22.7 4.6 45 45-89 69-113 (158)
164 PRK00865 glutamate racemase; P 48.5 89 0.0019 24.5 6.7 41 41-84 58-98 (261)
165 PF13407 Peripla_BP_4: Peripla 48.4 53 0.0012 24.4 5.3 73 12-86 6-89 (257)
166 PF04609 MCR_C: Methyl-coenzym 48.4 10 0.00022 30.7 1.3 66 23-89 103-168 (268)
167 PRK00299 sulfur transfer prote 48.1 60 0.0013 21.0 4.9 38 42-83 29-66 (81)
168 PRK08419 lipid A biosynthesis 48.0 87 0.0019 24.7 6.7 76 5-85 138-231 (298)
169 COG1419 FlhF Flagellar GTP-bin 47.8 85 0.0018 27.0 6.8 62 47-108 230-291 (407)
170 cd01821 Rhamnogalacturan_acety 47.8 43 0.00093 24.3 4.6 22 65-86 134-155 (198)
171 TIGR00045 glycerate kinase. Th 47.5 97 0.0021 26.2 7.1 53 32-84 261-322 (375)
172 cd02970 PRX_like2 Peroxiredoxi 47.5 87 0.0019 21.2 7.2 50 42-96 49-99 (149)
173 COG0050 TufB GTPases - transla 47.2 21 0.00046 29.9 3.0 37 47-84 98-134 (394)
174 cd01894 EngA1 EngA1 subfamily. 47.2 43 0.00093 22.6 4.3 23 67-89 95-117 (157)
175 PRK13753 dihydropteroate synth 46.8 1.4E+02 0.003 24.2 7.6 79 3-86 46-128 (279)
176 cd01489 Uba2_SUMO Ubiquitin ac 46.1 28 0.0006 28.6 3.6 39 50-90 90-128 (312)
177 cd01537 PBP1_Repressors_Sugar_ 45.8 56 0.0012 23.7 5.0 67 15-84 10-86 (264)
178 PRK01889 GTPase RsgA; Reviewed 45.8 26 0.00056 29.0 3.4 38 52-90 116-155 (356)
179 PF02844 GARS_N: Phosphoribosy 45.6 38 0.00082 23.3 3.7 38 40-80 52-89 (100)
180 TIGR03729 acc_ester putative p 45.1 66 0.0014 24.5 5.4 44 40-83 22-67 (239)
181 PRK05646 lipid A biosynthesis 45.0 1.2E+02 0.0025 24.3 7.0 73 7-85 149-241 (310)
182 cd04188 DPG_synthase DPG_synth 44.6 68 0.0015 23.2 5.2 58 50-109 30-93 (211)
183 COG1707 ACT domain-containing 44.6 67 0.0015 24.7 5.2 48 36-83 123-174 (218)
184 cd04104 p47_IIGP_like p47 (47- 44.6 1.2E+02 0.0027 22.2 6.8 25 65-89 95-119 (197)
185 cd03418 GRX_GRXb_1_3_like Glut 44.6 70 0.0015 19.3 5.1 18 66-83 13-30 (75)
186 TIGR00789 flhB_rel flhB C-term 44.5 39 0.00084 22.4 3.5 58 55-123 20-77 (82)
187 cd01423 MGS_CPS_I_III Methylgl 44.3 20 0.00043 24.4 2.2 42 40-81 61-105 (116)
188 cd01017 AdcA Metal binding pro 44.2 55 0.0012 25.7 5.0 25 59-84 203-227 (282)
189 PRK01438 murD UDP-N-acetylmura 43.9 1E+02 0.0022 25.9 6.8 67 50-121 78-145 (480)
190 cd01822 Lysophospholipase_L1_l 43.6 58 0.0012 22.8 4.6 47 37-83 88-141 (177)
191 PF12759 HTH_Tnp_IS1: InsA C-t 43.6 13 0.00028 22.3 1.0 41 9-49 5-45 (46)
192 PF00248 Aldo_ket_red: Aldo/ke 43.4 1E+02 0.0022 23.6 6.3 67 18-84 114-188 (283)
193 PRK06153 hypothetical protein; 43.4 52 0.0011 28.1 4.9 40 49-90 265-304 (393)
194 cd06312 PBP1_ABC_sugar_binding 43.0 74 0.0016 23.9 5.4 43 41-85 48-90 (271)
195 PF07498 Rho_N: Rho terminatio 43.0 14 0.00029 21.3 1.0 28 65-92 6-33 (43)
196 PRK12566 glycine dehydrogenase 42.4 2.6E+02 0.0056 26.7 9.6 104 10-120 114-234 (954)
197 cd03339 TCP1_epsilon TCP-1 (CT 42.4 79 0.0017 27.4 6.0 43 41-88 278-320 (526)
198 PRK05906 lipid A biosynthesis 42.4 1.1E+02 0.0025 26.4 6.9 76 6-85 165-256 (454)
199 COG1363 FrvX Cellulase M and r 42.3 37 0.00079 28.5 3.8 56 53-109 256-321 (355)
200 cd02430 PTH2 Peptidyl-tRNA hyd 42.0 55 0.0012 22.9 4.2 41 41-84 40-80 (115)
201 PRK13802 bifunctional indole-3 41.6 1.5E+02 0.0033 27.2 7.8 77 33-112 117-194 (695)
202 cd01019 ZnuA Zinc binding prot 41.6 1.5E+02 0.0032 23.5 7.1 65 59-124 211-283 (286)
203 cd03361 TOPRIM_TopoIA_RevGyr T 41.5 80 0.0017 23.3 5.2 44 37-80 103-150 (170)
204 COG1412 Uncharacterized protei 41.4 1E+02 0.0022 22.3 5.6 69 10-86 42-126 (136)
205 COG2229 Predicted GTPase [Gene 41.4 48 0.001 25.5 4.0 50 42-92 84-136 (187)
206 PRK00124 hypothetical protein; 41.1 36 0.00079 25.2 3.2 30 54-85 3-32 (151)
207 KOG2016 NEDD8-activating compl 41.1 26 0.00057 30.6 2.8 34 52-86 120-153 (523)
208 PRK09545 znuA high-affinity zi 40.8 1.6E+02 0.0034 23.8 7.2 62 61-124 237-307 (311)
209 cd02968 SCO SCO (an acronym fo 40.6 93 0.002 21.0 5.2 46 50-96 59-108 (142)
210 cd01540 PBP1_arabinose_binding 40.0 72 0.0016 24.1 4.9 36 46-84 50-86 (289)
211 PF02347 GDC-P: Glycine cleava 40.0 40 0.00087 29.0 3.8 111 10-125 100-224 (429)
212 PRK08733 lipid A biosynthesis 39.9 1.8E+02 0.0039 23.1 7.4 73 7-85 152-242 (306)
213 PRK10444 UMP phosphatase; Prov 39.7 59 0.0013 25.3 4.5 45 32-78 15-59 (248)
214 cd02407 PTH2_family Peptidyl-t 39.6 86 0.0019 21.9 4.8 42 41-85 40-81 (115)
215 cd02969 PRX_like1 Peroxiredoxi 39.4 1.4E+02 0.003 21.2 7.4 57 41-97 49-109 (171)
216 PF01081 Aldolase: KDPG and KH 39.4 58 0.0013 24.9 4.2 68 31-107 56-130 (196)
217 cd04168 TetM_like Tet(M)-like 39.3 63 0.0014 24.9 4.5 49 40-89 79-128 (237)
218 cd03028 GRX_PICOT_like Glutare 39.3 1E+02 0.0023 19.9 5.0 31 66-96 26-62 (90)
219 cd03770 SR_TndX_transposase Se 39.2 1E+02 0.0022 21.6 5.3 48 37-85 55-107 (140)
220 PF07894 DUF1669: Protein of u 39.0 72 0.0016 26.1 4.9 52 38-90 134-187 (284)
221 PF04900 Fcf1: Fcf1; InterPro 38.7 89 0.0019 20.7 4.7 39 39-84 54-92 (101)
222 cd03769 SR_IS607_transposase_l 38.7 86 0.0019 22.0 4.8 48 37-84 49-97 (134)
223 cd01391 Periplasmic_Binding_Pr 38.6 93 0.002 22.1 5.1 43 40-85 48-90 (269)
224 cd01484 E1-2_like Ubiquitin ac 38.5 45 0.00097 26.1 3.6 37 49-87 90-126 (234)
225 COG0800 Eda 2-keto-3-deoxy-6-p 38.5 59 0.0013 25.4 4.2 47 39-92 75-122 (211)
226 CHL00073 chlN photochlorophyll 38.3 69 0.0015 27.8 5.0 44 42-85 89-136 (457)
227 PF00535 Glycos_transf_2: Glyc 38.3 31 0.00067 23.0 2.4 81 39-121 13-105 (169)
228 PLN02645 phosphoglycolate phos 38.2 67 0.0014 25.7 4.6 47 32-80 42-88 (311)
229 KOG3432 Vacuolar H+-ATPase V1 38.1 35 0.00076 24.3 2.6 49 33-84 21-69 (121)
230 PRK07688 thiamine/molybdopteri 38.0 50 0.0011 27.2 4.0 40 50-91 116-155 (339)
231 COG1377 FlhB Flagellar biosynt 37.9 1.3E+02 0.0027 25.5 6.3 61 54-124 288-348 (363)
232 PF14367 DUF4411: Domain of un 37.8 47 0.001 24.2 3.4 67 17-86 74-154 (162)
233 PF10686 DUF2493: Protein of u 37.6 1.1E+02 0.0023 19.5 5.1 45 39-84 20-64 (71)
234 cd04501 SGNH_hydrolase_like_4 37.6 41 0.00089 23.9 3.1 49 37-85 83-146 (183)
235 cd04169 RF3 RF3 subfamily. Pe 37.6 57 0.0012 25.7 4.1 48 41-88 87-134 (267)
236 PRK09932 glycerate kinase II; 37.6 1.7E+02 0.0038 24.8 7.1 53 32-84 262-323 (381)
237 PRK06995 flhF flagellar biosyn 37.6 2.2E+02 0.0048 24.9 7.9 45 48-92 284-328 (484)
238 TIGR03772 anch_rpt_subst ancho 37.4 74 0.0016 27.7 5.0 60 61-125 405-476 (479)
239 cd01539 PBP1_GGBP Periplasmic 37.3 1.1E+02 0.0023 23.8 5.6 41 41-84 48-89 (303)
240 PRK06512 thiamine-phosphate py 37.2 1.5E+02 0.0033 22.8 6.4 55 41-96 31-89 (221)
241 cd00338 Ser_Recombinase Serine 37.1 1.2E+02 0.0026 20.4 5.2 46 38-84 53-102 (137)
242 cd06300 PBP1_ABC_sugar_binding 37.0 1E+02 0.0022 23.0 5.3 42 41-84 51-92 (272)
243 COG0541 Ffh Signal recognition 36.9 57 0.0012 28.4 4.2 78 44-123 122-211 (451)
244 TIGR02339 thermosome_arch ther 36.9 1E+02 0.0022 26.6 5.8 46 40-90 272-317 (519)
245 cd02966 TlpA_like_family TlpA- 36.8 1E+02 0.0023 19.1 6.6 61 43-107 45-106 (116)
246 PF05621 TniB: Bacterial TniB 36.8 96 0.0021 25.5 5.4 105 18-123 112-230 (302)
247 PLN02331 phosphoribosylglycina 36.8 85 0.0018 24.1 4.8 42 40-85 14-57 (207)
248 TIGR02194 GlrX_NrdH Glutaredox 36.4 66 0.0014 19.7 3.5 11 70-80 16-26 (72)
249 TIGR01460 HAD-SF-IIA Haloacid 36.3 90 0.0019 23.8 4.9 31 32-62 12-42 (236)
250 TIGR00513 accA acetyl-CoA carb 36.2 65 0.0014 26.7 4.3 33 51-83 108-157 (316)
251 TIGR01689 EcbF-BcbF capsule bi 36.0 82 0.0018 22.3 4.3 18 65-82 65-82 (126)
252 PF13848 Thioredoxin_6: Thiore 35.9 1.1E+02 0.0024 21.5 5.1 92 25-116 12-114 (184)
253 COG0420 SbcD DNA repair exonuc 35.9 95 0.0021 25.5 5.3 44 40-84 30-82 (390)
254 PRK05724 acetyl-CoA carboxylas 35.9 52 0.0011 27.3 3.7 33 51-83 108-157 (319)
255 PRK02842 light-independent pro 35.8 73 0.0016 26.8 4.7 49 37-85 79-137 (427)
256 cd06301 PBP1_rhizopine_binding 35.8 1E+02 0.0022 23.0 5.1 42 41-85 47-89 (272)
257 TIGR02343 chap_CCT_epsi T-comp 35.7 1E+02 0.0022 26.8 5.7 40 42-86 283-322 (532)
258 cd03343 cpn60 cpn60 chaperonin 35.7 1.1E+02 0.0024 26.3 5.9 44 41-89 270-313 (517)
259 cd01863 Rab18 Rab18 subfamily. 35.7 77 0.0017 21.7 4.1 20 71-90 100-119 (161)
260 cd01456 vWA_ywmD_type VWA ywmD 35.7 1.4E+02 0.0031 21.9 5.8 63 20-82 101-173 (206)
261 PRK08734 lipid A biosynthesis 35.6 1.6E+02 0.0035 23.5 6.5 73 7-85 139-231 (305)
262 cd01016 TroA Metal binding pro 35.6 79 0.0017 24.9 4.6 24 60-84 194-217 (276)
263 PF10165 Ric8: Guanine nucleot 35.6 73 0.0016 27.2 4.7 48 2-50 392-446 (446)
264 PF03808 Glyco_tran_WecB: Glyc 35.5 1.2E+02 0.0027 22.1 5.4 69 58-126 29-104 (172)
265 cd02971 PRX_family Peroxiredox 35.5 1.4E+02 0.003 20.0 6.6 53 41-98 47-101 (140)
266 PF01990 ATP-synt_F: ATP synth 35.5 75 0.0016 20.9 3.9 40 46-86 38-78 (95)
267 PF04414 tRNA_deacylase: D-ami 35.4 66 0.0014 25.1 4.0 44 38-81 169-212 (213)
268 smart00857 Resolvase Resolvase 35.3 1.3E+02 0.0029 20.6 5.3 47 37-84 52-102 (148)
269 PRK10867 signal recognition pa 35.3 2.9E+02 0.0063 23.7 8.4 41 50-90 129-172 (433)
270 PRK08762 molybdopterin biosynt 35.2 54 0.0012 27.1 3.8 35 50-86 225-259 (376)
271 PRK12475 thiamine/molybdopteri 35.1 59 0.0013 26.7 3.9 35 50-86 116-150 (338)
272 PLN02721 threonine aldolase 35.1 1.1E+02 0.0024 24.0 5.4 44 39-82 120-176 (353)
273 PLN02460 indole-3-glycerol-pho 35.1 1.4E+02 0.003 25.0 6.1 74 35-110 189-263 (338)
274 PRK14106 murD UDP-N-acetylmura 35.0 1.9E+02 0.004 24.0 7.0 64 49-121 67-131 (450)
275 PRK10342 glycerate kinase I; P 34.7 2E+02 0.0043 24.5 7.0 52 33-84 263-323 (381)
276 PRK05645 lipid A biosynthesis 34.7 1.2E+02 0.0027 23.9 5.6 72 8-85 139-230 (295)
277 TIGR01456 CECR5 HAD-superfamil 34.6 72 0.0016 25.7 4.3 48 31-79 13-64 (321)
278 PF00702 Hydrolase: haloacid d 34.5 1.7E+02 0.0037 20.9 7.2 67 35-107 128-204 (215)
279 cd06318 PBP1_ABC_sugar_binding 34.5 1.1E+02 0.0024 22.8 5.2 43 41-85 46-88 (282)
280 cd01028 TOPRIM_TopoIA TOPRIM_T 34.5 1.1E+02 0.0023 21.7 4.8 57 37-93 75-139 (142)
281 PRK13010 purU formyltetrahydro 34.5 1E+02 0.0023 24.9 5.2 44 35-84 99-148 (289)
282 COG4639 Predicted kinase [Gene 34.4 1.8E+02 0.0039 22.0 6.0 50 39-90 59-110 (168)
283 cd01884 EF_Tu EF-Tu subfamily. 34.3 84 0.0018 23.5 4.4 44 40-83 80-124 (195)
284 cd06267 PBP1_LacI_sugar_bindin 34.3 1.8E+02 0.0039 21.0 8.1 70 12-85 7-86 (264)
285 PRK00766 hypothetical protein; 34.3 88 0.0019 24.0 4.5 47 49-95 70-120 (194)
286 PRK10638 glutaredoxin 3; Provi 34.3 1.2E+02 0.0026 19.0 4.7 43 52-96 3-51 (83)
287 cd01143 YvrC Periplasmic bindi 34.2 1.7E+02 0.0037 20.8 6.9 73 40-123 50-132 (195)
288 cd00378 SHMT Serine-glycine hy 34.2 71 0.0015 25.9 4.2 45 38-82 149-194 (402)
289 TIGR02634 xylF D-xylose ABC tr 34.2 1.1E+02 0.0025 23.7 5.3 69 15-85 9-87 (302)
290 TIGR01458 HAD-SF-IIA-hyp3 HAD- 34.1 98 0.0021 24.0 4.9 30 34-63 21-50 (257)
291 PRK06718 precorrin-2 dehydroge 34.0 1.4E+02 0.0031 22.5 5.6 61 50-114 70-134 (202)
292 PRK06015 keto-hydroxyglutarate 33.9 98 0.0021 23.8 4.7 67 31-106 52-125 (201)
293 PF14639 YqgF: Holliday-juncti 33.8 83 0.0018 22.9 4.2 35 42-76 55-90 (150)
294 PF13545 HTH_Crp_2: Crp-like h 33.8 30 0.00065 21.3 1.6 35 65-99 3-44 (76)
295 cd04195 GT2_AmsE_like GT2_AmsE 33.8 1.7E+02 0.0037 20.6 6.4 69 40-110 16-92 (201)
296 PF08134 cIII: cIII protein fa 33.7 55 0.0012 19.1 2.5 29 3-32 8-36 (44)
297 PRK13109 flhB flagellar biosyn 33.7 1.3E+02 0.0029 25.1 5.9 52 65-124 299-350 (358)
298 cd01850 CDC_Septin CDC/Septin. 33.7 2E+02 0.0044 22.7 6.7 86 40-126 134-255 (276)
299 PRK03379 vitamin B12-transport 33.6 2.2E+02 0.0048 21.9 8.2 55 41-99 63-126 (260)
300 cd05564 PTS_IIB_chitobiose_lic 33.2 60 0.0013 21.6 3.1 46 36-85 34-79 (96)
301 PRK02228 V-type ATP synthase s 33.1 1.5E+02 0.0033 19.9 5.1 34 47-81 41-74 (100)
302 COG1879 RbsB ABC-type sugar tr 33.1 1.1E+02 0.0023 24.0 5.0 45 39-86 81-125 (322)
303 cd00291 SirA_YedF_YeeD SirA, Y 33.0 1.1E+02 0.0024 18.3 4.9 41 41-84 15-57 (69)
304 cd01017 AdcA Metal binding pro 33.0 1.7E+02 0.0037 22.9 6.2 41 40-84 210-250 (282)
305 PF01976 DUF116: Protein of un 33.0 1.9E+02 0.004 21.3 6.0 58 22-82 75-135 (158)
306 KOG2869 Meiotic cell division 32.9 1E+02 0.0022 26.1 4.9 72 28-100 285-363 (379)
307 TIGR00854 pts-sorbose PTS syst 32.9 1.7E+02 0.0037 21.3 5.7 85 24-117 44-134 (151)
308 PF01206 TusA: Sulfurtransfera 32.8 1.1E+02 0.0025 18.5 4.2 41 41-84 16-58 (70)
309 TIGR01457 HAD-SF-IIA-hyp2 HAD- 32.8 93 0.002 24.0 4.5 31 32-62 15-45 (249)
310 cd04795 SIS SIS domain. SIS (S 32.4 1.2E+02 0.0026 18.5 7.7 68 54-122 2-73 (87)
311 cd02066 GRX_family Glutaredoxi 32.3 1E+02 0.0022 17.6 5.1 30 66-95 13-48 (72)
312 PRK07114 keto-hydroxyglutarate 32.3 1.2E+02 0.0025 23.7 5.0 50 39-95 81-131 (222)
313 cd06281 PBP1_LacI_like_5 Ligan 32.1 1.2E+02 0.0026 22.6 5.0 43 40-85 45-87 (269)
314 cd06313 PBP1_ABC_sugar_binding 32.0 1.4E+02 0.003 22.6 5.4 42 41-85 46-88 (272)
315 cd01141 TroA_d Periplasmic bin 32.0 1.9E+02 0.0041 20.6 8.3 54 41-98 60-125 (186)
316 TIGR03603 cyclo_dehy_ocin bact 32.0 67 0.0015 26.2 3.8 34 50-83 151-184 (318)
317 cd05017 SIS_PGI_PMI_1 The memb 32.0 1.3E+02 0.0028 20.3 4.7 43 53-96 47-89 (119)
318 PRK06946 lipid A biosynthesis 31.9 2.6E+02 0.0056 22.1 8.1 77 4-84 134-227 (293)
319 PRK04322 peptidyl-tRNA hydrola 31.8 1E+02 0.0022 21.5 4.1 43 40-85 37-79 (113)
320 COG2047 Uncharacterized protei 31.7 1.3E+02 0.0029 24.1 5.2 56 49-106 82-143 (258)
321 PRK09437 bcp thioredoxin-depen 31.7 1.8E+02 0.0038 20.2 7.1 51 41-96 55-106 (154)
322 cd01891 TypA_BipA TypA (tyrosi 31.6 1E+02 0.0022 22.3 4.4 48 42-89 82-129 (194)
323 cd01482 vWA_collagen_alphaI-XI 31.6 1.9E+02 0.004 20.4 7.6 77 20-96 63-153 (164)
324 smart00513 SAP Putative DNA-bi 31.5 53 0.0012 17.7 2.2 24 65-90 5-28 (35)
325 cd01487 E1_ThiF_like E1_ThiF_l 31.4 80 0.0017 23.2 3.8 33 50-84 88-121 (174)
326 cd06292 PBP1_LacI_like_10 Liga 31.4 1.4E+02 0.003 22.2 5.2 64 22-85 18-91 (273)
327 PRK06731 flhF flagellar biosyn 31.4 2.7E+02 0.0059 22.2 9.0 60 50-109 103-165 (270)
328 PRK11889 flhF flagellar biosyn 31.1 3.6E+02 0.0077 23.5 9.2 72 37-108 252-330 (436)
329 PF05159 Capsule_synth: Capsul 31.1 75 0.0016 24.6 3.8 30 54-85 3-32 (269)
330 cd04185 GT_2_like_b Subfamily 31.1 1.1E+02 0.0025 21.7 4.6 43 39-82 12-57 (202)
331 TIGR01664 DNA-3'-Pase DNA 3'-p 31.0 1.9E+02 0.0041 20.9 5.8 45 36-80 44-95 (166)
332 PF01751 Toprim: Toprim domain 31.0 1.1E+02 0.0024 20.0 4.1 38 40-77 47-88 (100)
333 PRK05597 molybdopterin biosynt 31.0 75 0.0016 26.2 3.9 33 50-84 118-150 (355)
334 PRK11172 dkgB 2,5-diketo-D-glu 30.9 1.9E+02 0.0041 22.4 6.0 64 20-83 108-178 (267)
335 PRK14072 6-phosphofructokinase 30.7 80 0.0017 26.9 4.1 47 37-84 90-139 (416)
336 cd01895 EngA2 EngA2 subfamily. 30.6 1.5E+02 0.0031 20.1 4.9 40 51-90 85-126 (174)
337 PF13911 AhpC-TSA_2: AhpC/TSA 30.6 1.6E+02 0.0036 19.5 5.7 52 43-99 6-58 (115)
338 cd01859 MJ1464 MJ1464. This f 30.5 1.9E+02 0.004 20.1 7.4 22 68-89 32-53 (156)
339 PRK06298 type III secretion sy 30.5 1.7E+02 0.0037 24.5 6.0 59 55-123 283-341 (356)
340 cd06380 PBP1_iGluR_AMPA N-term 30.4 1.2E+02 0.0026 24.3 5.0 44 37-84 50-93 (382)
341 cd01885 EF2 EF2 (for archaea a 30.3 1E+02 0.0022 23.6 4.4 50 40-89 88-137 (222)
342 TIGR03594 GTPase_EngA ribosome 30.3 3.1E+02 0.0067 22.5 8.6 49 41-89 247-295 (429)
343 PF00875 DNA_photolyase: DNA p 30.3 85 0.0018 22.4 3.7 36 49-84 87-124 (165)
344 PRK09427 bifunctional indole-3 30.3 1.9E+02 0.0042 25.0 6.4 75 35-112 118-193 (454)
345 PRK01189 V-type ATP synthase s 30.2 1.1E+02 0.0023 21.1 4.0 41 41-82 36-76 (104)
346 COG1535 EntB Isochorismate hyd 30.2 48 0.0011 25.8 2.4 18 66-83 60-77 (218)
347 cd06660 Aldo_ket_red Aldo-keto 30.1 2.5E+02 0.0054 21.4 6.6 66 18-83 125-198 (285)
348 cd06278 PBP1_LacI_like_2 Ligan 30.1 1.7E+02 0.0037 21.4 5.5 69 12-85 7-85 (266)
349 TIGR03013 EpsB_2 sugar transfe 29.9 1.4E+02 0.0031 25.1 5.5 52 38-89 174-225 (442)
350 cd01832 SGNH_hydrolase_like_1 29.8 1.4E+02 0.003 21.0 4.8 49 38-86 93-154 (185)
351 cd06378 PBP1_iGluR_NMDA_NR2 N- 29.8 80 0.0017 25.9 3.9 45 40-84 52-96 (362)
352 PRK06027 purU formyltetrahydro 29.8 64 0.0014 26.0 3.2 44 35-84 95-144 (286)
353 PF07287 DUF1446: Protein of u 29.7 2.1E+02 0.0046 24.0 6.4 63 18-80 32-101 (362)
354 TIGR01452 PGP_euk phosphoglyco 29.6 1.1E+02 0.0024 23.8 4.6 30 32-61 16-45 (279)
355 cd06308 PBP1_sensor_kinase_lik 29.5 1.5E+02 0.0032 22.1 5.1 41 43-85 49-89 (270)
356 PF01039 Carboxyl_trans: Carbo 29.4 51 0.0011 28.5 2.8 34 51-84 294-336 (493)
357 TIGR00655 PurU formyltetrahydr 29.4 1.2E+02 0.0027 24.3 4.8 45 35-85 90-140 (280)
358 PLN02828 formyltetrahydrofolat 29.4 1.1E+02 0.0024 24.5 4.6 49 35-84 76-130 (268)
359 PRK00098 GTPase RsgA; Reviewed 29.3 80 0.0017 25.2 3.7 26 65-90 99-124 (298)
360 PF02595 Gly_kinase: Glycerate 29.3 58 0.0013 27.5 3.0 74 34-107 264-347 (377)
361 PRK08025 lipid A biosynthesis 29.2 2.9E+02 0.0063 21.9 7.3 74 6-84 149-240 (305)
362 PF04244 DPRP: Deoxyribodipyri 29.2 94 0.002 24.2 4.0 55 40-95 81-141 (224)
363 PRK06091 membrane protein FdrA 29.1 1.2E+02 0.0026 27.1 5.0 42 40-83 132-173 (555)
364 cd06427 CESA_like_2 CESA_like_ 29.1 2.3E+02 0.0049 21.0 6.0 57 51-109 33-95 (241)
365 cd01825 SGNH_hydrolase_peri1 S 29.1 1.6E+02 0.0036 20.6 5.1 49 36-84 80-144 (189)
366 cd01139 TroA_f Periplasmic bin 29.0 2.9E+02 0.0063 21.8 7.8 77 42-124 83-170 (342)
367 COG4799 Acetyl-CoA carboxylase 28.9 60 0.0013 28.8 3.1 20 64-83 346-365 (526)
368 TIGR02200 GlrX_actino Glutared 28.8 1.1E+02 0.0023 18.2 3.6 17 67-83 14-30 (77)
369 cd06324 PBP1_ABC_sugar_binding 28.7 1.4E+02 0.003 23.1 4.9 41 42-85 48-90 (305)
370 cd01854 YjeQ_engC YjeQ/EngC. 28.6 87 0.0019 24.9 3.8 25 65-89 97-121 (287)
371 cd06282 PBP1_GntR_like_2 Ligan 28.6 2.4E+02 0.0051 20.7 7.7 42 41-85 46-87 (266)
372 COG4378 Uncharacterized protei 28.6 86 0.0019 21.7 3.2 34 51-84 45-78 (103)
373 COG1179 Dinucleotide-utilizing 28.5 1.3E+02 0.0028 24.3 4.7 42 41-84 112-153 (263)
374 cd06320 PBP1_allose_binding Pe 28.4 1.6E+02 0.0034 22.0 5.1 41 43-85 50-90 (275)
375 cd06295 PBP1_CelR Ligand bindi 28.4 1.8E+02 0.004 21.6 5.5 41 40-85 54-95 (275)
376 cd07396 MPP_Nbla03831 Homo sap 28.3 1.2E+02 0.0027 23.4 4.6 49 40-88 30-84 (267)
377 cd04196 GT_2_like_d Subfamily 28.3 2.2E+02 0.0047 20.1 6.2 68 40-109 14-90 (214)
378 cd06299 PBP1_LacI_like_13 Liga 28.2 1.7E+02 0.0037 21.5 5.2 40 42-85 47-86 (265)
379 COG1086 Predicted nucleoside-d 28.2 2E+02 0.0044 25.9 6.2 56 35-91 162-218 (588)
380 PRK08156 type III secretion sy 28.2 2.1E+02 0.0045 24.1 6.1 52 65-124 285-336 (361)
381 smart00685 DM14 Repeats in fly 28.2 35 0.00076 21.4 1.2 26 26-51 24-49 (59)
382 cd03018 PRX_AhpE_like Peroxire 28.2 2E+02 0.0043 19.6 7.5 51 42-97 54-107 (149)
383 PTZ00125 ornithine aminotransf 28.2 1.4E+02 0.003 24.1 5.1 43 40-82 168-217 (400)
384 PF03851 UvdE: UV-endonuclease 28.2 58 0.0012 26.4 2.7 30 52-82 179-208 (275)
385 cd00739 DHPS DHPS subgroup of 28.1 3E+02 0.0065 21.7 7.0 79 3-85 45-128 (257)
386 cd01886 EF-G Elongation factor 28.1 1.1E+02 0.0024 24.1 4.4 48 40-87 79-126 (270)
387 PRK08905 lipid A biosynthesis 28.1 3E+02 0.0065 21.7 8.2 76 6-85 126-219 (289)
388 COG1671 Uncharacterized protei 28.1 85 0.0019 23.3 3.4 31 54-86 4-34 (150)
389 TIGR01662 HAD-SF-IIIA HAD-supe 28.0 1.9E+02 0.0041 19.4 5.8 48 34-81 25-75 (132)
390 PF10281 Ish1: Putative stress 28.0 52 0.0011 18.2 1.8 27 66-92 6-33 (38)
391 COG4052 Uncharacterized protei 28.0 43 0.00093 27.1 1.9 67 24-91 106-172 (310)
392 PF01497 Peripla_BP_2: Peripla 27.9 1.3E+02 0.0028 22.0 4.5 73 43-125 53-135 (238)
393 cd06323 PBP1_ribose_binding Pe 27.9 1.7E+02 0.0038 21.4 5.2 43 41-85 46-88 (268)
394 PRK13011 formyltetrahydrofolat 27.9 1E+02 0.0022 24.8 4.1 43 35-83 95-143 (286)
395 PRK01395 V-type ATP synthase s 27.9 1.1E+02 0.0023 21.0 3.7 50 35-86 27-80 (104)
396 cd06347 PBP1_ABC_ligand_bindin 27.8 1.2E+02 0.0027 23.2 4.5 44 38-84 55-98 (334)
397 PRK08706 lipid A biosynthesis 27.7 3E+02 0.0065 21.6 6.7 74 7-85 132-225 (289)
398 TIGR00450 mnmE_trmE_thdF tRNA 27.7 3.5E+02 0.0075 23.1 7.5 50 39-90 273-323 (442)
399 PRK02627 acetylornithine amino 27.7 1.5E+02 0.0033 23.8 5.2 49 41-90 174-229 (396)
400 PF01522 Polysacc_deac_1: Poly 27.6 95 0.0021 20.4 3.4 41 51-91 5-45 (123)
401 PRK05647 purN phosphoribosylgl 27.5 1.8E+02 0.0039 22.0 5.2 43 38-84 14-58 (200)
402 PRK00011 glyA serine hydroxyme 27.5 1.1E+02 0.0024 25.0 4.3 44 39-82 154-198 (416)
403 TIGR00067 glut_race glutamate 27.5 3E+02 0.0065 21.5 6.8 48 41-91 51-101 (251)
404 TIGR01766 tspaseT_teng_C trans 27.5 72 0.0016 20.1 2.6 24 61-84 54-77 (82)
405 cd06322 PBP1_ABC_sugar_binding 27.4 1.8E+02 0.004 21.4 5.3 43 40-85 45-88 (267)
406 PRK12721 secretion system appa 27.4 2E+02 0.0044 23.9 5.9 51 65-123 290-340 (349)
407 cd07984 LPLAT_LABLAT-like Lyso 27.4 2.3E+02 0.005 20.1 8.0 81 37-126 78-176 (192)
408 cd01460 vWA_midasin VWA_Midasi 27.4 88 0.0019 25.1 3.6 49 35-83 141-200 (266)
409 cd06319 PBP1_ABC_sugar_binding 27.4 1.8E+02 0.0039 21.6 5.2 37 46-84 51-87 (277)
410 PRK09331 Sep-tRNA:Cys-tRNA syn 27.1 1.3E+02 0.0027 24.6 4.6 43 39-82 141-193 (387)
411 TIGR00328 flhB flagellar biosy 27.1 2.2E+02 0.0049 23.7 6.1 29 65-96 290-318 (347)
412 PRK07377 hypothetical protein; 27.0 1.7E+02 0.0037 22.4 4.9 48 49-96 75-128 (184)
413 cd06383 PBP1_iGluR_AMPA_Like N 27.0 1.6E+02 0.0035 24.1 5.3 41 42-84 58-98 (368)
414 PRK07525 sulfoacetaldehyde ace 26.9 1.4E+02 0.0029 26.2 5.0 45 39-83 190-234 (588)
415 cd06310 PBP1_ABC_sugar_binding 26.9 1.9E+02 0.004 21.5 5.2 41 43-85 50-90 (273)
416 PRK12773 flhB flagellar biosyn 26.9 2E+02 0.0043 26.3 6.0 60 55-124 581-640 (646)
417 PLN00144 acetylornithine trans 26.8 1.5E+02 0.0031 24.4 4.9 43 41-83 158-207 (382)
418 COG0134 TrpC Indole-3-glycerol 26.7 1.1E+02 0.0023 24.6 4.0 75 35-112 115-190 (254)
419 PRK05600 thiamine biosynthesis 26.7 94 0.002 25.9 3.8 34 50-85 131-164 (370)
420 PRK11613 folP dihydropteroate 26.6 3.5E+02 0.0075 21.9 7.6 78 3-85 59-141 (282)
421 cd00880 Era_like Era (E. coli 26.6 1.8E+02 0.0039 18.9 4.6 20 69-88 96-115 (163)
422 cd04170 EF-G_bact Elongation f 26.5 1.4E+02 0.003 23.0 4.6 47 40-86 79-125 (268)
423 cd06316 PBP1_ABC_sugar_binding 26.5 1.7E+02 0.0038 22.2 5.1 39 43-84 49-88 (294)
424 PF12687 DUF3801: Protein of u 26.4 2.4E+02 0.0053 21.6 5.8 86 19-120 5-91 (204)
425 PRK00771 signal recognition pa 26.4 3.9E+02 0.0084 23.0 7.5 39 46-84 119-157 (437)
426 PF07693 KAP_NTPase: KAP famil 26.3 2.6E+02 0.0057 21.8 6.2 58 41-98 162-225 (325)
427 TIGR02637 RhaS rhamnose ABC tr 26.3 1.7E+02 0.0037 22.4 5.0 41 41-84 47-88 (302)
428 TIGR00035 asp_race aspartate r 26.2 1.3E+02 0.0028 22.9 4.3 51 35-89 60-112 (229)
429 cd06289 PBP1_MalI_like Ligand- 26.2 1.9E+02 0.0041 21.2 5.1 42 41-85 46-87 (268)
430 PRK13225 phosphoglycolate phos 26.1 2.4E+02 0.0052 22.2 5.9 28 33-60 141-168 (273)
431 PF01041 DegT_DnrJ_EryC1: DegT 26.1 1.3E+02 0.0028 24.4 4.5 45 37-82 101-145 (363)
432 PF13684 Dak1_2: Dihydroxyacet 26.1 1.5E+02 0.0032 24.2 4.8 76 39-124 131-207 (313)
433 TIGR01917 gly_red_sel_B glycin 26.1 1.7E+02 0.0037 25.3 5.3 66 40-105 326-392 (431)
434 PRK04966 hypothetical protein; 26.0 80 0.0017 20.6 2.6 21 35-55 35-55 (72)
435 cd04509 PBP1_ABC_transporter_G 26.0 1.4E+02 0.003 22.0 4.4 37 45-84 62-98 (299)
436 PRK09259 putative oxalyl-CoA d 25.9 1.4E+02 0.0029 26.0 4.8 46 39-84 203-248 (569)
437 PF11116 DUF2624: Protein of u 25.9 40 0.00086 22.7 1.2 16 65-80 16-31 (85)
438 cd04124 RabL2 RabL2 subfamily. 25.9 2.3E+02 0.005 19.6 5.4 49 76-124 103-158 (161)
439 cd03363 TOPRIM_TopoIA_TopoI TO 25.8 1.6E+02 0.0034 20.5 4.3 31 49-80 71-103 (123)
440 TIGR00365 monothiol glutaredox 25.8 2E+02 0.0044 18.9 5.1 31 66-96 30-66 (97)
441 cd01452 VWA_26S_proteasome_sub 25.8 2.9E+02 0.0064 20.8 6.2 68 11-81 63-140 (187)
442 cd07402 MPP_GpdQ Enterobacter 25.7 2.3E+02 0.005 21.0 5.6 45 40-84 28-77 (240)
443 KOG2014 SMT3/SUMO-activating c 25.7 49 0.0011 27.5 1.9 32 54-86 123-154 (331)
444 cd02979 PHOX_C FAD-dependent P 25.7 1E+02 0.0022 22.6 3.5 32 48-79 27-58 (167)
445 PTZ00175 diphthine synthase; P 25.7 2.6E+02 0.0057 22.3 6.1 54 41-96 69-125 (270)
446 cd01828 sialate_O-acetylestera 25.6 94 0.002 21.7 3.2 48 37-84 72-131 (169)
447 cd06273 PBP1_GntR_like_1 This 25.6 2.2E+02 0.0047 21.0 5.4 64 17-85 12-86 (268)
448 PRK00304 hypothetical protein; 25.5 83 0.0018 20.7 2.6 18 38-55 37-54 (75)
449 PRK06860 lipid A biosynthesis 25.4 2E+02 0.0043 22.9 5.4 76 6-85 151-243 (309)
450 PRK06965 acetolactate synthase 25.3 1.5E+02 0.0034 25.9 5.1 45 39-83 211-255 (587)
451 PF13519 VWA_2: von Willebrand 25.3 1.8E+02 0.0038 19.8 4.6 84 34-119 81-172 (172)
452 PRK12772 bifunctional flagella 25.3 2.2E+02 0.0047 25.6 6.0 59 55-123 545-603 (609)
453 PF13728 TraF: F plasmid trans 25.3 3.1E+02 0.0068 20.9 7.9 67 38-104 110-190 (215)
454 PLN02884 6-phosphofructokinase 25.2 1.5E+02 0.0032 25.4 4.8 46 38-84 131-179 (411)
455 cd03334 Fab1_TCP TCP-1 like do 25.2 2.6E+02 0.0057 21.9 6.0 47 39-90 119-165 (261)
456 COG0533 QRI7 Metal-dependent p 25.2 1.4E+02 0.0029 25.1 4.4 45 40-84 251-296 (342)
457 PRK07878 molybdopterin biosynt 25.2 1E+02 0.0022 25.8 3.8 41 50-92 132-172 (392)
458 COG0403 GcvP Glycine cleavage 25.1 4.7E+02 0.01 22.9 10.2 109 10-121 110-238 (450)
459 CHL00198 accA acetyl-CoA carbo 25.1 1E+02 0.0022 25.6 3.7 33 51-83 111-160 (322)
460 TIGR03697 NtcA_cyano global ni 25.1 67 0.0015 22.9 2.4 41 58-99 113-159 (193)
461 PRK09108 type III secretion sy 25.1 3E+02 0.0064 23.0 6.5 51 65-124 292-342 (353)
462 cd06367 PBP1_iGluR_NMDA N-term 25.1 1.2E+02 0.0027 24.0 4.1 48 37-84 50-97 (362)
463 cd06296 PBP1_CatR_like Ligand- 25.1 2E+02 0.0044 21.2 5.1 40 41-85 46-86 (270)
464 cd00615 Orn_deC_like Ornithine 25.0 1.6E+02 0.0034 23.0 4.6 43 39-82 142-188 (294)
465 PRK10714 undecaprenyl phosphat 24.9 1.1E+02 0.0024 24.7 3.8 70 53-122 40-118 (325)
466 cd02002 TPP_BFDC Thiamine pyro 24.8 2.6E+02 0.0057 19.9 6.8 25 37-61 81-105 (178)
467 PRK15408 autoinducer 2-binding 24.8 1.7E+02 0.0037 23.6 5.0 39 44-85 74-113 (336)
468 PLN02161 beta-amylase 24.8 1.7E+02 0.0037 26.0 5.1 46 36-81 415-471 (531)
469 PRK03244 argD acetylornithine 24.8 1.9E+02 0.0041 23.4 5.3 36 48-83 181-223 (398)
470 cd07388 MPP_Tt1561 Thermus the 24.7 2.3E+02 0.005 21.9 5.5 43 42-84 23-69 (224)
471 PF02472 ExbD: Biopolymer tran 24.7 2.2E+02 0.0049 19.1 5.3 49 39-87 78-129 (130)
472 TIGR01261 hisB_Nterm histidino 24.7 2E+02 0.0043 20.8 4.9 47 34-80 29-85 (161)
473 cd03362 TOPRIM_TopoIA_TopoIII 24.6 1.8E+02 0.0039 20.7 4.6 56 37-92 83-147 (151)
474 cd06348 PBP1_ABC_ligand_bindin 24.5 1.7E+02 0.0037 22.9 4.8 43 38-83 55-97 (344)
475 KOG3009 Predicted carbohydrate 24.5 1.6E+02 0.0035 26.2 4.9 42 50-93 425-467 (614)
476 cd06321 PBP1_ABC_sugar_binding 24.5 2.2E+02 0.0048 21.1 5.3 42 41-85 48-90 (271)
477 cd05565 PTS_IIB_lactose PTS_II 24.5 96 0.0021 21.1 2.9 45 36-84 35-79 (99)
478 cd02004 TPP_BZL_OCoD_HPCL Thia 24.4 2.7E+02 0.0058 19.9 6.1 12 85-96 130-141 (172)
479 PF13058 DUF3920: Protein of u 24.4 72 0.0016 22.8 2.3 24 65-88 13-36 (126)
480 cd06330 PBP1_Arsenic_SBP_like 24.3 1.7E+02 0.0037 22.8 4.8 42 39-83 56-97 (346)
481 PRK08322 acetolactate synthase 24.2 1.8E+02 0.004 24.9 5.2 45 40-84 187-231 (547)
482 cd01545 PBP1_SalR Ligand-bindi 24.1 2E+02 0.0044 21.1 4.9 42 41-85 47-88 (270)
483 cd01020 TroA_b Metal binding p 24.1 2.7E+02 0.0059 21.6 5.8 43 40-83 196-238 (264)
484 PRK02936 argD acetylornithine 24.0 1.9E+02 0.004 23.3 5.0 33 49-82 166-206 (377)
485 TIGR01404 FlhB_rel_III type II 24.0 99 0.0021 25.7 3.4 48 65-120 289-336 (342)
486 cd03008 TryX_like_RdCVF Trypar 24.0 2.6E+02 0.0056 20.2 5.3 67 50-121 65-136 (146)
487 PRK08199 thiamine pyrophosphat 24.0 1.8E+02 0.0038 25.2 5.2 43 40-82 195-237 (557)
488 cd06351 PBP1_iGluR_N_LIVBP_lik 24.0 1.8E+02 0.004 22.1 4.8 44 38-84 51-94 (328)
489 cd06294 PBP1_ycjW_transcriptio 23.9 2.2E+02 0.0048 20.9 5.1 41 40-85 50-91 (270)
490 TIGR00959 ffh signal recogniti 23.9 4.6E+02 0.01 22.4 8.7 36 50-85 128-163 (428)
491 KOG3282 Uncharacterized conser 23.9 2.4E+02 0.0053 21.7 5.2 46 37-85 111-156 (190)
492 PRK12468 flhB flagellar biosyn 23.9 2.6E+02 0.0057 23.7 6.0 51 65-123 297-347 (386)
493 PRK10957 iron-enterobactin tra 23.8 3.6E+02 0.0078 21.1 7.7 59 38-99 101-167 (317)
494 PRK00741 prfC peptide chain re 23.7 1.3E+02 0.0029 26.3 4.3 47 41-87 95-141 (526)
495 PLN03230 acetyl-coenzyme A car 23.7 1.1E+02 0.0023 26.5 3.7 33 51-83 178-227 (431)
496 cd06311 PBP1_ABC_sugar_binding 23.6 2.5E+02 0.0053 20.9 5.4 42 41-85 51-93 (274)
497 cd02003 TPP_IolD Thiamine pyro 23.6 3.1E+02 0.0068 20.4 6.4 25 37-61 80-104 (205)
498 PF06794 UPF0270: Uncharacteri 23.6 1E+02 0.0022 19.9 2.7 21 35-55 35-55 (70)
499 PRK08644 thiamine biosynthesis 23.6 1.3E+02 0.0028 22.9 3.8 33 50-84 117-150 (212)
500 TIGR03264 met_CoM_red_C methyl 23.6 54 0.0012 25.3 1.7 72 23-96 65-150 (194)
No 1
>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=1.7e-30 Score=184.36 Aligned_cols=116 Identities=33% Similarity=0.614 Sum_probs=104.3
Q ss_pred ccccCCCChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 8 PKAYPLADSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 8 p~~~P~~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
|.+.|+.++ ++++++++|++|+++|++++|.++|+++|++|+++|||+|+|++|++++++++.+|++++|||++++|++
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 346788666 9999999999999999999999999999999999999999999998688999999999999999999999
Q ss_pred HHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhhh
Q 033061 88 ALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 88 eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~~ 126 (128)
|||++||+++++++++|+|. ..-..+++++.+.|.+|
T Consensus 80 eLG~a~Gk~~~~svvaI~d~--g~a~~~~~~~~~~i~~~ 116 (117)
T TIGR03677 80 DLGAAAGLEVGAASAAIVDE--GKAEELLKEIIEKVEAL 116 (117)
T ss_pred HHHHHhCCCCCeEEEEEEch--hhhHHHHHHHHHHHHhc
Confidence 99999999988889999984 34445577788888776
No 2
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.97 E-value=3.5e-30 Score=184.06 Aligned_cols=117 Identities=36% Similarity=0.664 Sum_probs=103.5
Q ss_pred ccccCC-CChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 8 PKAYPL-ADSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 8 p~~~P~-~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
|++.|. ++++++++++++|++|+++|++++|.++|+++|++|+++|||+|+|++|.++.++++.+|++++|||++++|+
T Consensus 3 ~~~~~~~~~~~l~~ki~~lL~la~ragklv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk 82 (122)
T PRK04175 3 PVYVKFEVPEELAEKALEAVEKARDTGKIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSK 82 (122)
T ss_pred CccccCCCCHHHHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCH
Confidence 444453 4677999999999999999999999999999999999999999999999867899999999999999999999
Q ss_pred HHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhhh
Q 033061 87 QALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 87 ~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~~ 126 (128)
++||+|||+++++++++|+|.+ .-..+++++.+.|.+|
T Consensus 83 ~eLG~a~Gk~~~~svvaI~d~g--~a~~~~~~~~~~i~~~ 120 (122)
T PRK04175 83 KDLGKAAGLEVGAAAAAIVDAG--KAKELVEDIVEKVNEL 120 (122)
T ss_pred HHHHHHhCCCCCeEEEEEechh--hhHHHHHHHHHHHHHh
Confidence 9999999999888899999843 3344567787777766
No 3
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=5.7e-28 Score=171.34 Aligned_cols=113 Identities=38% Similarity=0.621 Sum_probs=101.0
Q ss_pred cccCCCChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHH
Q 033061 9 KAYPLADSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 9 ~~~P~~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~e 88 (128)
.++|+++.++.++++++++.|.++|++++|.++++++|++|+++|||||+|++|.++..|++.+|+++||||++++|+.+
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 46789999999999999999999999999999999999999999999999999888999999999999999999999999
Q ss_pred HhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhh
Q 033061 89 LGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 89 LG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~ 125 (128)
||+|+|++.+. ++++.+ ..|.+.++++.+.+..
T Consensus 82 LG~a~g~~~~~-vv~i~~---~~~~~~~~~l~~~~~~ 114 (116)
T COG1358 82 LGKAVGKEVRK-VVAIVD---KGFAKKLEDLVEKVEE 114 (116)
T ss_pred HHHHhCCCcce-eEEEee---hhhhhHHHHHHHHhhh
Confidence 99999999764 566666 4555666666665544
No 4
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=99.96 E-value=2.2e-28 Score=176.59 Aligned_cols=121 Identities=39% Similarity=0.665 Sum_probs=115.1
Q ss_pred CCCccccCCCChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 5 AVNPKAYPLADSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 5 ~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.++|||+|+++++++++++.+++.|.+.++|..|.++|.+.+++|+-.|+|+|.|++|.|+..|+|.+|+++||||+++.
T Consensus 30 ~~~PIAkPLA~kkl~kk~~KlvkKa~k~k~lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~p 109 (153)
T KOG3167|consen 30 AVNPIAKPLASKKLAKKVYKLVKKAAKQKGLRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTP 109 (153)
T ss_pred hhcccccccccHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCccccc
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhhhh
Q 033061 85 SKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEKLL 127 (128)
Q Consensus 85 sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~~~ 127 (128)
|+++||.|.|.+|+++++.|.. +.+|++.++++.+.+++|-
T Consensus 110 sk~dlg~A~~~krpt~~v~v~p--~~eyke~ydev~eel~~l~ 150 (153)
T KOG3167|consen 110 SKEDLGAAGGTKRPTCCVFVKP--GGEYKELYDEVLEELEALA 150 (153)
T ss_pred cHHHHHHhcCCCCCceEEEEee--ChhHHHHHHHHHHHHHhhc
Confidence 9999999999999998777754 3699999999999999874
No 5
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.95 E-value=4.4e-27 Score=164.99 Aligned_cols=99 Identities=17% Similarity=0.231 Sum_probs=89.7
Q ss_pred hhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhC
Q 033061 16 SNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACG 94 (128)
Q Consensus 16 ~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G 94 (128)
.+-...+.++||+|+|+|++++|.++|+++|++|+++|||+|+|++++ ++++|.++|+.++||++. .+|++|||+|||
T Consensus 7 ~~~~~~i~~~Lgla~raGKlv~G~~~vlkalk~gkaklViiA~D~~~~-~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~G 85 (108)
T PTZ00106 7 KKAQESINSKLQLVMKSGKYTLGTKSTLKALRNGKAKLVIISNNCPPI-RRSEIEYYAMLSKTGVHHYAGNNNDLGTACG 85 (108)
T ss_pred cccHhhHHHHHHHHHHhCCeeecHHHHHHHHHcCCeeEEEEeCCCCHH-HHHHHHHHHhhcCCCEEEeCCCHHHHHHHhC
Confidence 344466899999999999999999999999999999999999999998 999999999999999985 599999999999
Q ss_pred CCCceEEEEEecCCchHHHHH
Q 033061 95 VTRPVIACSVTSNEASQLKTQ 115 (128)
Q Consensus 95 ~~~~~~~v~i~~~~~~~~~~l 115 (128)
+++++++++|+|.+.+++.++
T Consensus 86 k~~r~svvaI~D~G~a~~l~~ 106 (108)
T PTZ00106 86 RHFRVSVMSITDAGDSDILRA 106 (108)
T ss_pred CccCeEEEEEeCcchHHHHhh
Confidence 999998999999666655443
No 6
>PRK07714 hypothetical protein; Provisional
Probab=99.94 E-value=6.1e-26 Score=156.77 Aligned_cols=95 Identities=17% Similarity=0.228 Sum_probs=86.7
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCc
Q 033061 19 TITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRP 98 (128)
Q Consensus 19 ~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~ 98 (128)
.++++++|++|+|+|++++|.++|.+++++|++++||+|+|++|+ +++++..+|+.++||+++++|++|||++||++.+
T Consensus 3 ~~~~~~~Lgla~raGk~v~G~~~v~~al~~g~~~lViiA~D~s~~-~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~~~ 81 (100)
T PRK07714 3 MSDWKSFLGLANRARKVISGEELVLKEVRSGKAKLVLLSEDASVN-TTKKITDKCTYYNVPMRKVENRQQLGHAIGKDER 81 (100)
T ss_pred HHHHHHHHHHHHHhCCeeecHHHHHHHHHhCCceEEEEeCCCCHH-HHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcc
Confidence 468999999999999999999999999999999999999999998 9999999999999999999999999999999988
Q ss_pred eEEEEEecCCchHHHHHHHH
Q 033061 99 VIACSVTSNEASQLKTQIQQ 118 (128)
Q Consensus 99 ~~~v~i~~~~~~~~~~li~~ 118 (128)
+ +++|+| ..|.+.+.+
T Consensus 82 ~-~vai~d---~g~a~~l~~ 97 (100)
T PRK07714 82 V-VVAVLD---EGFAKKLRS 97 (100)
T ss_pred e-EEEEeC---chhHHHHHH
Confidence 6 788888 445544433
No 7
>PRK07283 hypothetical protein; Provisional
Probab=99.94 E-value=7.7e-26 Score=155.96 Aligned_cols=94 Identities=19% Similarity=0.234 Sum_probs=86.4
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCc
Q 033061 19 TITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRP 98 (128)
Q Consensus 19 ~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~ 98 (128)
+++++++|++|+|+|++++|.++|+++|++|++++||+|+|++++ +++++.+.|++++||++.++|++|||++||+++
T Consensus 3 ~~~~l~~LglA~raGklv~G~~~v~~aik~gk~~lVi~A~Das~~-~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~~- 80 (98)
T PRK07283 3 KQKISNLLGLAQRAGRIISGEELVVKAIQSGQAKLVFLANDAGPN-LTKKVTDKSNYYQVEVSTVFSTLELSAAVGKPR- 80 (98)
T ss_pred HHHHHHHHHHHHHhCCeeEcHHHHHHHHHcCCccEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCc-
Confidence 368999999999999999999999999999999999999999998 999999999999999999999999999999964
Q ss_pred eEEEEEecCCchHHHHHHHH
Q 033061 99 VIACSVTSNEASQLKTQIQQ 118 (128)
Q Consensus 99 ~~~v~i~~~~~~~~~~li~~ 118 (128)
++++|+| +.|.+.+.+
T Consensus 81 -~vvai~d---~g~a~~l~~ 96 (98)
T PRK07283 81 -KVLAVTD---AGFSKKMRS 96 (98)
T ss_pred -eEEEEeC---hhHHHHHHH
Confidence 3588988 667776654
No 8
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.94 E-value=9.1e-26 Score=155.91 Aligned_cols=91 Identities=18% Similarity=0.239 Sum_probs=83.3
Q ss_pred HHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe-CCHHHHhHHhCCCCceE
Q 033061 22 ILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRPVI 100 (128)
Q Consensus 22 i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~~~ 100 (128)
+.+.|++|+|+|++++|.++|+++|++|+++|||+|+|++++ ++++|+++|++++||++.+ +|++|||+|||++++++
T Consensus 4 ~~~~l~~a~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~-~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~ 82 (99)
T PRK01018 4 FNRELRVAVDTGKVILGSKRTIKAIKLGKAKLVIVASNCPKD-IKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVS 82 (99)
T ss_pred HHHHHHHHHHcCCEEEcHHHHHHHHHcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEE
Confidence 456799999999999999999999999999999999999997 9999999999999998776 89999999999999888
Q ss_pred EEEEecCCchHHH
Q 033061 101 ACSVTSNEASQLK 113 (128)
Q Consensus 101 ~v~i~~~~~~~~~ 113 (128)
+++|+|.+.+++.
T Consensus 83 ~vaI~D~G~a~~~ 95 (99)
T PRK01018 83 ALAIVDPGESDIL 95 (99)
T ss_pred EEEEecCCHHHHH
Confidence 9999996655553
No 9
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.94 E-value=1.2e-25 Score=156.64 Aligned_cols=96 Identities=17% Similarity=0.249 Sum_probs=87.3
Q ss_pred HHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCC
Q 033061 18 LTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTR 97 (128)
Q Consensus 18 ~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~ 97 (128)
|+++++++|++|+|+|++++|.++|.++|++|+++|||+|+|++++ +++++.++|+.++||++.++|++|||.+||++.
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 MMNKFLNFLGLTKKAGKLLEGYNKCEEAIKKKKVYLIIISNDISEN-SKNKFKNYCNKYNIPYIEGYSKEELGNAIGRDE 79 (104)
T ss_pred ChHHHHHHHHHHHHhCCeeecHHHHHHHHHcCCceEEEEeCCCCHh-HHHHHHHHHHHcCCCEEEecCHHHHHHHhCCCC
Confidence 5789999999999999999999999999999999999999999998 999999999999999999999999999999998
Q ss_pred ceEEEEEecCCchHHHHHHHH
Q 033061 98 PVIACSVTSNEASQLKTQIQQ 118 (128)
Q Consensus 98 ~~~~v~i~~~~~~~~~~li~~ 118 (128)
+ ++++|+|+ .|.+.+.+
T Consensus 80 ~-~~iai~d~---g~a~~l~~ 96 (104)
T PRK05583 80 I-KILGVKDK---NMAKKLLK 96 (104)
T ss_pred e-EEEEEeCh---HHHHHHHH
Confidence 4 68899884 44444433
No 10
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.92 E-value=1.6e-24 Score=145.15 Aligned_cols=76 Identities=30% Similarity=0.494 Sum_probs=73.4
Q ss_pred HHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEe
Q 033061 29 AANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVT 105 (128)
Q Consensus 29 a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~ 105 (128)
..|+|++++|.++|+++|++|+++|||+|+|++|+ +.++++++|++++||+++++|++|||+|||+++++++++|+
T Consensus 6 ~~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~-~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 6 VSQAKSIVIGTKQTVKALKRGSVKEVVVAEDADPR-LTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred HHhcCCEEEcHHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence 45899999999999999999999999999999997 99999999999999999999999999999999999999886
No 11
>PRK06683 hypothetical protein; Provisional
Probab=99.92 E-value=2.1e-24 Score=144.72 Aligned_cols=79 Identities=22% Similarity=0.309 Sum_probs=75.7
Q ss_pred HHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEe
Q 033061 26 VQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVT 105 (128)
Q Consensus 26 L~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~ 105 (128)
+..+.++|++++|.++|+++|++|++++||+|+|++++ ++++|.++|++++||+++++|+.|||++||+++++++++|+
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 45678999999999999999999999999999999998 99999999999999999999999999999999999999886
No 12
>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=99.92 E-value=1.5e-24 Score=147.27 Aligned_cols=92 Identities=42% Similarity=0.716 Sum_probs=86.0
Q ss_pred HHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCce
Q 033061 20 ITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV 99 (128)
Q Consensus 20 ~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~ 99 (128)
++++++|+.|+++|+++.|.++|.++|++|++++||+|+|++|....++++.+|++++|||++++|+++||+++|+++.+
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 57899999999999999999999999999999999999999998665669999999999999999999999999999888
Q ss_pred EEEEEecCCchH
Q 033061 100 IACSVTSNEASQ 111 (128)
Q Consensus 100 ~~v~i~~~~~~~ 111 (128)
++++|.|++.++
T Consensus 81 ~~~~i~d~~~a~ 92 (95)
T PF01248_consen 81 SALAIKDAGDAK 92 (95)
T ss_dssp SEEEEEESTTHH
T ss_pred EEEEEECcccch
Confidence 899999977654
No 13
>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=99.90 E-value=4.6e-23 Score=146.88 Aligned_cols=128 Identities=80% Similarity=1.122 Sum_probs=122.9
Q ss_pred CCCCCCCccccCCCChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 1 MTGEAVNPKAYPLADSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 1 ~~~~~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
|+..-++|.+.|+++.+++++++.+.+.|.+..++..|.+++++.+.+|...|||+|.|+.|.++..|++.+|+.+||||
T Consensus 1 m~~~~v~~~~~P~ad~~L~ekildl~Qqa~~~kql~kg~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~ 80 (131)
T KOG3387|consen 1 MIEDGVNPKAYPLADSNLTEKILDLKQQATGYKQLKKGANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPY 80 (131)
T ss_pred CcccccCcccCcccchhhHHHHHHHHHHHhhHHHHhcccchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCce
Confidence 67788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCHHHHhHHhC---CCCceEEEEEecCCchHHHHHHHHHHHHHhhhhC
Q 033061 81 VFVPSKQALGRACG---VTRPVIACSVTSNEASQLKTQIQQLKDAIEKLLI 128 (128)
Q Consensus 81 ~~~~sk~eLG~a~G---~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~~~~ 128 (128)
+|+.|+..||++|| ..+++.++.|+..+.+....++..++..++.|++
T Consensus 81 v~Vpsk~alG~~cg~~~~~r~~~a~~i~~~~~~~~~~~~q~l~~~~~~l~~ 131 (131)
T KOG3387|consen 81 VFVPSKQALGLACGELVVLRPVIACSITTNEASIPLSQIQSLKRAIERLLI 131 (131)
T ss_pred EEeeccHHhhhhhhhHhhcCcceeEEEEeccccchhhHHHHhHHHHHHhcC
Confidence 99999999999999 9999989999988889999999999999998875
No 14
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.90 E-value=3.1e-23 Score=139.05 Aligned_cols=75 Identities=20% Similarity=0.294 Sum_probs=71.5
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecC
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSN 107 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~ 107 (128)
-|++++|.++|+++|++|+++|||+|+|++++ ++++|.++|++++||+++++|+.|||++||+++++++++++-+
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~~~-~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~~ 80 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAEEH-VTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADIIG 80 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCCHH-HHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEeec
Confidence 47999999999999999999999999999997 9999999999999999999999999999999999999888653
No 15
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.88 E-value=3.3e-22 Score=134.64 Aligned_cols=72 Identities=24% Similarity=0.403 Sum_probs=69.0
Q ss_pred CCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEe
Q 033061 33 KQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVT 105 (128)
Q Consensus 33 g~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~ 105 (128)
..++.|.+|++|+|++|++++||+|.|++|. +..|++.+|+++||||+|++||.+||++||.++++++++|+
T Consensus 12 ~~~vvG~kqt~Kai~kg~~~~v~iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 12 QHFVVGLKETLKALKKDQVTSLIIAEDVEVY-LMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred cCceeeHHHHHHHHhcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence 4579999999999999999999999999998 88999999999999999999999999999999999988875
No 16
>PRK09190 hypothetical protein; Provisional
Probab=99.87 E-value=2.3e-21 Score=150.68 Aligned_cols=98 Identities=16% Similarity=0.184 Sum_probs=89.1
Q ss_pred ChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHh------CCCCEEEeCCHHH
Q 033061 15 DSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAED------KNVPYVFVPSKQA 88 (128)
Q Consensus 15 ~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~------~~IP~~~~~sk~e 88 (128)
.+.+.++++++||+|+|+|++++|.+.|.++|++|+++|||+|+|+|++ ++++|.++|+. ++||++.++|++|
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 4667799999999999999999999999999999999999999999998 99999999999 9999999999999
Q ss_pred HhHHhCCCCceEEEEEecCCchHHHHHHH
Q 033061 89 LGRACGVTRPVIACSVTSNEASQLKTQIQ 117 (128)
Q Consensus 89 LG~a~G~~~~~~~v~i~~~~~~~~~~li~ 117 (128)
||.++|++.++ +++|++ ..|++.+.
T Consensus 171 Lg~AlGr~~~~-~vav~d---~gfA~~l~ 195 (220)
T PRK09190 171 LGLAFGRENVI-HAALLA---GGAAERVV 195 (220)
T ss_pred HHHHhCCCcee-EEEEcC---hHHHHHHH
Confidence 99999999775 678888 44554433
No 17
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.86 E-value=9.5e-21 Score=149.13 Aligned_cols=113 Identities=19% Similarity=0.385 Sum_probs=94.1
Q ss_pred ccCCCChhHHHHHHHHHHHHHHcC-----------CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC
Q 033061 10 AYPLADSNLTITILDLVQQAANYK-----------QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV 78 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~ag-----------~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I 78 (128)
|+|...++-.+++...-.. ..+| .|++|.++|+++|++|+++|||||+|++|++++.+|+++|++++|
T Consensus 98 YrPEtk~~kk~Rl~~~A~~-~~~g~~~~~~~kkp~~LvsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~V 176 (263)
T PTZ00222 98 YAPETRKARRDRLHKVAEE-KKKDPKKTVSTKAPLAVVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKI 176 (263)
T ss_pred cCCccHHHHHHHHHHHHHH-HhcCCCCCCCCCCCCeeccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCC
Confidence 7788777777776654432 2222 188999999999999999999999999999777899999999999
Q ss_pred CEEEeCCHHHHhHHhCCCCceEEEEEecC---CchHHHHHHHHHHHHHh
Q 033061 79 PYVFVPSKQALGRACGVTRPVIACSVTSN---EASQLKTQIQQLKDAIE 124 (128)
Q Consensus 79 P~~~~~sk~eLG~a~G~~~~~~~v~i~~~---~~~~~~~li~~i~~~~~ 124 (128)
||++++++++||+++|++.++ +++|+|. +.++|.++++.++++..
T Consensus 177 PY~iVktKaeLG~AIGkKtra-vVAItD~g~ed~~~l~~lv~~~~~~~n 224 (263)
T PTZ00222 177 PYAIVKDMARLGDAIGRKTAT-CVAITDVNAEDEAALKNLIRSVNARFL 224 (263)
T ss_pred CEEEECCHHHHHHHHCCCCCe-EEEEeeCCcccHHHHHHHHHHHHHhhc
Confidence 999999999999999999875 6777654 34789999999888753
No 18
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.83 E-value=8.7e-20 Score=144.04 Aligned_cols=113 Identities=20% Similarity=0.389 Sum_probs=92.8
Q ss_pred ccCCCChhHHHHHHHHHHHHHHcC---------CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 10 AYPLADSNLTITILDLVQQAANYK---------QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~ag---------~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
|+|...++-.+++..--. +..+| .+.+|.++|+++|++++++|||||+|++|++.+.+++++|++++|||
T Consensus 100 YrPEtk~~kk~RL~~~A~-~~a~g~~~~~kkp~~vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY 178 (266)
T PTZ00365 100 YKPETRAEKKARLLKEAE-KAAAGEEVESKKPFMLKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPY 178 (266)
T ss_pred cCCccHHHHHHHHHHHHH-HHhcCCCCCCCCchHHHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCE
Confidence 788877777776665433 12222 27799999999999999999999999999977777899999999999
Q ss_pred EEeCCHHHHhHHhCCCCceEEEEEec---CCchHHHHHHHHHHHHHh
Q 033061 81 VFVPSKQALGRACGVTRPVIACSVTS---NEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 81 ~~~~sk~eLG~a~G~~~~~~~v~i~~---~~~~~~~~li~~i~~~~~ 124 (128)
++++|+++||+++|++.++ +++|++ +|.++|.++++.++++..
T Consensus 179 ~iv~sK~eLG~AIGkktra-VVAItdV~~EDk~~l~~lv~~~~~~~n 224 (266)
T PTZ00365 179 CIIKGKSRLGKLVHQKTAA-VVAIDNVRKEDQAEFDNLCKNFRAMFN 224 (266)
T ss_pred EEECCHHHHHHHhCCCCce-EEEecccCHHHHHHHHHHHHHHHHhcc
Confidence 9999999999999998775 667653 456789999998887653
No 19
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.78 E-value=8.7e-19 Score=119.93 Aligned_cols=94 Identities=17% Similarity=0.280 Sum_probs=86.1
Q ss_pred HHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE-EeCCHHHHhHHhCCCCc
Q 033061 20 ITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRP 98 (128)
Q Consensus 20 ~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~ 98 (128)
..+-.-|+.|.++|+++.|.++++|+++.|++|+||+|+|+.+. .++++..+++-.+||++ |-+|..|||.+||+.++
T Consensus 5 ~~v~~~L~~avkTGkvilG~k~tiK~lk~gkaKliiiAsN~P~~-~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~ 83 (100)
T COG1911 5 DDVEKELKLAVKTGKVILGSKRTIKSLKLGKAKLIIIASNCPKE-LKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFR 83 (100)
T ss_pred chHHHHHHHHHhcCCEEEehHHHHHHHHcCCCcEEEEecCCCHH-HHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCce
Confidence 44667889999999999999999999999999999999999775 99999999999999975 45799999999999999
Q ss_pred eEEEEEecCCchHHHH
Q 033061 99 VIACSVTSNEASQLKT 114 (128)
Q Consensus 99 ~~~v~i~~~~~~~~~~ 114 (128)
+++++|+|.+++++.+
T Consensus 84 v~~laIiD~G~S~Il~ 99 (100)
T COG1911 84 VAALAIIDEGDSDILA 99 (100)
T ss_pred EEEEEEecCchhhhhc
Confidence 9999999999987754
No 20
>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=99.68 E-value=1e-15 Score=109.31 Aligned_cols=103 Identities=17% Similarity=0.242 Sum_probs=90.1
Q ss_pred ccccCCCChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 8 PKAYPLADSNLTITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 8 p~~~P~~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
+.+.|-+...++..+...|+.|+-.+.++.|+++..|++.+++++|+++|+||++..+.+.+..||.+|+||++.++|..
T Consensus 8 ~v~~~~a~mdv~~AL~~Vlk~al~~dGlarGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k 87 (134)
T KOG3406|consen 8 GVAEETAVMDVNTALQEVLKTALVHDGLARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAK 87 (134)
T ss_pred ccCcccccccHHHHHHHHHHHHHHhchHHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccch
Confidence 34444445678899999999999999999999999999999999999999998866699999999999999999999999
Q ss_pred HHhHHhCCC-----------CceEEEEEecCCch
Q 033061 88 ALGRACGVT-----------RPVIACSVTSNEAS 110 (128)
Q Consensus 88 eLG~a~G~~-----------~~~~~v~i~~~~~~ 110 (128)
+||+|.|.. .+.+++++.|.+..
T Consensus 88 ~LGew~Glckid~eGnarKvvGcs~vvVkd~gee 121 (134)
T KOG3406|consen 88 ELGEWAGLCKIDSEGNARKVVGCSCVVVKDYGEE 121 (134)
T ss_pred hhhhhhceeeecCCCCeeEeecceEEEEeecccc
Confidence 999999975 45667778777654
No 21
>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=99.21 E-value=6.7e-11 Score=82.67 Aligned_cols=96 Identities=19% Similarity=0.228 Sum_probs=84.1
Q ss_pred HHHHHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE-EeCCHHHHhHHhCCCCc
Q 033061 20 ITILDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRP 98 (128)
Q Consensus 20 ~~i~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~ 98 (128)
+-+.+-|-+++++|+.+.|.+++++.++.|+++|+++|.+|.+. -++.++.++-....+|. +.+...+||.+||+-+|
T Consensus 12 e~ins~lll~mksgkY~lgyK~T~k~~r~gkakL~~is~n~p~l-rks~ieyyamlak~~v~~~sg~n~~lgt~~g~~fR 90 (112)
T KOG2988|consen 12 EFINSSLLLVMKSGKYILGYKQTLKSLRQGKAKLIIISSNCPPL-RKSEIEYYAMLAKTGVHHYSGNNVELGTACGKTFR 90 (112)
T ss_pred hhhhHHHHHHHhhcceeechHHHHHHHHhccceEEEeecCCCCc-chhHHHHHHHHhcCceeeecCCcEeHHHHhcCeeE
Confidence 45667778899999999999999999999999999999999887 68889988887778875 45788999999999999
Q ss_pred eEEEEEecCCchHHHHHH
Q 033061 99 VIACSVTSNEASQLKTQI 116 (128)
Q Consensus 99 ~~~v~i~~~~~~~~~~li 116 (128)
+++..|+|.++++....+
T Consensus 91 v~v~~ivd~gds~~~~~l 108 (112)
T KOG2988|consen 91 VSVLSIVDLGDSDIIAAL 108 (112)
T ss_pred eeEEEEEeccchhhhhhc
Confidence 999999998887765543
No 22
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=98.14 E-value=3.7e-06 Score=65.02 Aligned_cols=75 Identities=21% Similarity=0.419 Sum_probs=60.3
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEE--EEEecCCchHH
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIA--CSVTSNEASQL 112 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~--v~i~~~~~~~~ 112 (128)
+-.|.+.|+..+++.+++||++|.|++|.++.-.+|.+|.+. +.-++ .+++|+ +.+..+|...|
T Consensus 110 ~~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km----ivk~~----------~~kT~t~~a~v~~edk~~l 175 (209)
T KOG3166|consen 110 LRAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM----IVKGK----------HRKTCTTVAFVNSEDKGAL 175 (209)
T ss_pred cccCcceEeehhhccccceeEEecccCchhheeecHHhhhhh----ccccc----------ccceeeeeeeechhhHHHH
Confidence 668999999999999999999999999999999999999998 22222 333332 23556677899
Q ss_pred HHHHHHHHHHH
Q 033061 113 KTQIQQLKDAI 123 (128)
Q Consensus 113 ~~li~~i~~~~ 123 (128)
..+++.++++-
T Consensus 176 ~kl~e~i~tn~ 186 (209)
T KOG3166|consen 176 AKLVEAIRTNY 186 (209)
T ss_pred HHHHHHHhccc
Confidence 99999988764
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=98.09 E-value=7.7e-05 Score=55.67 Aligned_cols=107 Identities=22% Similarity=0.347 Sum_probs=78.6
Q ss_pred cCCCChh------HHHHHHHHHHHHHHcC-----CccccHHHHHHHHHcCce--eEEEEecCCChhhHHhhHHHHHHhCC
Q 033061 11 YPLADSN------LTITILDLVQQAANYK-----QLKKGANEATKTLNRGIS--EFIVMAADTEPLEILLHLPLLAEDKN 77 (128)
Q Consensus 11 ~P~~~~~------~~~~i~~lL~~a~~ag-----~lv~G~~~v~kai~~~ka--kLVilA~D~~p~~~~~~l~~lc~~~~ 77 (128)
+|..+++ +...+.+.+..+++++ .+..|.+++.+.++.... .+||++..-.|.-+..||+.+|.-.+
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 7888888 7777777777776632 489999999999994332 47777765566668999999998766
Q ss_pred --CCEEEeC--CHHHHhHHhCCCCceEEEEEecC--CchHHHHHHHH
Q 033061 78 --VPYVFVP--SKQALGRACGVTRPVIACSVTSN--EASQLKTQIQQ 118 (128)
Q Consensus 78 --IP~~~~~--sk~eLG~a~G~~~~~~~v~i~~~--~~~~~~~li~~ 118 (128)
|..+..+ +.+.|+.++|.++- ++++|... .++.|.+++++
T Consensus 101 ~~vrLV~Lpkgs~~rLs~aLgi~r~-g~l~v~~~~~~~~~L~~~i~~ 146 (158)
T PF08228_consen 101 KSVRLVQLPKGSEARLSEALGIPRV-GILAVRADAPGAKSLVDLIRS 146 (158)
T ss_pred CcceEEeCChhHHHHHHHHhCCCCc-cEEEEecCCcccHHHHHHHHh
Confidence 8888764 66899999999754 67777643 23455555443
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=96.63 E-value=0.0097 Score=37.83 Aligned_cols=70 Identities=19% Similarity=0.237 Sum_probs=49.7
Q ss_pred ccccHHHHHHHHHcCc-eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 35 LKKGANEATKTLNRGI-SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 35 lv~G~~~v~kai~~~k-akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
++.|.+.|..+++++. ..-|++..+.... -...+..+|++.++|+.++ ++..|.+..+...+=-++++..
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~-~~~~i~~~~~~~~i~v~~v-~~~~l~~ls~~~~hQGv~a~v~ 71 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADK-RIKEILKLAKKKGIPVYEV-SKKVLDKLSDTENHQGVVAVVK 71 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---C-CTHHHHHHHHHCT-EEEEE--HHHHHHCTTTSS-TTEEEEEE
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccch-hHHHHHHHHHHcCCeEEEe-CHHHHHHHcCCCCCCeEEEEEe
Confidence 5789999999999986 8888999983332 2578899999999998777 4567988886554323455543
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=96.56 E-value=0.012 Score=41.18 Aligned_cols=69 Identities=20% Similarity=0.226 Sum_probs=54.9
Q ss_pred HHHHHHH-cCCccccHHHHHHHHHcCceeEEEEecCCChhh------------------HHhhHHHHHHhCCCCEEEeCC
Q 033061 25 LVQQAAN-YKQLKKGANEATKTLNRGISEFIVMAADTEPLE------------------ILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 25 lL~~a~~-ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~------------------~~~~l~~lc~~~~IP~~~~~s 85 (128)
++....+ .|..+.|.++|.+|++.|.+.-+++..|..-.. +...+...++++|.-+.++++
T Consensus 11 f~~~l~k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~v~iis~ 90 (113)
T PF03465_consen 11 FFEELAKDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAKVEIISS 90 (113)
T ss_dssp HHHHHHTTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSEEEEE-T
T ss_pred HHHHHhhCCCcEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCEEEEEcC
Confidence 3333334 489999999999999999999999999875331 257888999999999999999
Q ss_pred HHHHhHHh
Q 033061 86 KQALGRAC 93 (128)
Q Consensus 86 k~eLG~a~ 93 (128)
..+-|.-+
T Consensus 91 ~~e~G~~L 98 (113)
T PF03465_consen 91 EHEEGEQL 98 (113)
T ss_dssp TSHHHHHH
T ss_pred CCccHHHH
Confidence 98888877
No 26
>PRK04011 peptide chain release factor 1; Provisional
Probab=95.71 E-value=0.054 Score=45.82 Aligned_cols=81 Identities=17% Similarity=0.188 Sum_probs=59.4
Q ss_pred HHHH-HHHcCCccccHHHHHHHHHcCceeEEEEecCC-----------------------------------------Ch
Q 033061 25 LVQQ-AANYKQLKKGANEATKTLNRGISEFIVMAADT-----------------------------------------EP 62 (128)
Q Consensus 25 lL~~-a~~ag~lv~G~~~v~kai~~~kakLVilA~D~-----------------------------------------~p 62 (128)
++.. ++..|..+.|.++|.+|++.|.+.-++|..|- ..
T Consensus 286 f~~~l~~d~g~avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~ 365 (411)
T PRK04011 286 FFKELAKDGGLAVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEE 365 (411)
T ss_pred HHHHHhcCCCcEEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchh
Confidence 4433 33578899999999999999999988887653 11
Q ss_pred hhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 63 LEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 63 ~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
.+....+...++++|..+.++.+..+-|.-+-+..+ -++||+.
T Consensus 366 ~~~v~~l~e~a~~~g~~v~iis~~~e~G~qL~~~fG-GIaAiLR 408 (411)
T PRK04011 366 EDIIEELSELAEQSGTKVEVISTDTEEGEQLLKAFG-GIAAILR 408 (411)
T ss_pred hhHHHHHHHHHHHcCCEEEEECCCChhHHHHHHcCC-CEEEEEe
Confidence 235677888999999999999998888877633332 2345543
No 27
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=95.64 E-value=0.03 Score=38.87 Aligned_cols=63 Identities=33% Similarity=0.453 Sum_probs=51.6
Q ss_pred HHHHHHHHHHcC-----CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 22 ILDLVQQAANYK-----QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 22 i~~lL~~a~~ag-----~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
...+-.++.+-| .+.-|+-++++.+.+.-.-.|++-+..+|. ..|+..||+++|||+..+++.
T Consensus 22 ~~~v~~i~~~~gI~diN~IKPGIgEaTRvLLRRvP~~vLVr~~~~pd--~~Hl~~LA~ekgVpVe~~~d~ 89 (100)
T PF15608_consen 22 WAEVERIAERYGISDINLIKPGIGEATRVLLRRVPWKVLVRDPDDPD--LAHLLLLAEEKGVPVEVYPDL 89 (100)
T ss_pred HHHHHHHHHHhCCCCcccccCChhHHHHHHHhcCCCEEEECCCCCcc--HHHHHHHHHHcCCcEEEeCCC
Confidence 334455566655 477899999999999999888888777776 699999999999999998864
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=95.59 E-value=0.066 Score=45.28 Aligned_cols=76 Identities=16% Similarity=0.170 Sum_probs=58.7
Q ss_pred HHcCCccccHHHHHHHHHcCceeEEEEecCCC-----------------------------------------hhhHHhh
Q 033061 30 ANYKQLKKGANEATKTLNRGISEFIVMAADTE-----------------------------------------PLEILLH 68 (128)
Q Consensus 30 ~~ag~lv~G~~~v~kai~~~kakLVilA~D~~-----------------------------------------p~~~~~~ 68 (128)
+..|..+.|.++|.+|++.|.+.-+++..|-. ..+....
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 45688999999999999999999999987651 1235677
Q ss_pred HHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 69 LPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 69 l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
+...++++|-.+.++.+..+-|.-+-+..+ -++||+.
T Consensus 364 L~e~a~~~Ga~V~~iS~~~eeG~ql~~~fG-GIaAiLR 400 (403)
T TIGR03676 364 LSELAEESGAKVEIISTDTEEGEQLLKAFG-GIAAILR 400 (403)
T ss_pred HHHHHHHcCCEEEEECCCChhHHHHHHcCC-cEEEEEe
Confidence 888899999999999999888877644433 2345553
No 29
>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=95.32 E-value=0.077 Score=43.92 Aligned_cols=75 Identities=15% Similarity=0.166 Sum_probs=58.7
Q ss_pred HHcCCccccHHHHHHHHHcCceeEEEEecCC-ChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 30 ANYKQLKKGANEATKTLNRGISEFIVMAADT-EPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 30 ~~ag~lv~G~~~v~kai~~~kakLVilA~D~-~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
+..|..+.|.++|.+|++.|.+.-+++..+. ..+.-...+...+++.|..++.+++..+-|.-+. ..+ -++||+.
T Consensus 273 kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL~-~lg-GiaAiLR 348 (351)
T TIGR00111 273 KDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQLD-SLG-GIAGILR 348 (351)
T ss_pred cCCCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHHh-hCC-CEEEEEe
Confidence 3457999999999999999999999999988 3222256678888999999999999999998873 332 2455654
No 30
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=95.10 E-value=0.12 Score=43.64 Aligned_cols=77 Identities=18% Similarity=0.170 Sum_probs=58.5
Q ss_pred HHHcCCccccHHHHHHHHHcCceeEEEEecCCCh-----------------------------------------hhHHh
Q 033061 29 AANYKQLKKGANEATKTLNRGISEFIVMAADTEP-----------------------------------------LEILL 67 (128)
Q Consensus 29 a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p-----------------------------------------~~~~~ 67 (128)
++..|..+.|.++|.+|++.|.+..+++..|-.- .++..
T Consensus 287 ~~d~G~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve 366 (409)
T TIGR00108 287 IQEDGLACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIE 366 (409)
T ss_pred hcCCCcEEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHH
Confidence 3447899999999999999999999999997520 12456
Q ss_pred hHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 68 HLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 68 ~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
.+...++++|..+.++.+..+=|.-+-+..+ -++||+.
T Consensus 367 ~L~e~a~~~Ga~V~iiS~~~eeG~ql~~~fG-GIaAiLR 404 (409)
T TIGR00108 367 WLSELAENFGAKLEFISTESEEGAQLLTAFG-GIGAILR 404 (409)
T ss_pred HHHHHHHHcCCEEEEECCCChhHHHHHHhCC-CEEEEEe
Confidence 7888899999999999998888866533332 2345554
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=93.07 E-value=0.35 Score=32.44 Aligned_cols=53 Identities=13% Similarity=0.271 Sum_probs=39.2
Q ss_pred HHHHHHHHc--CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC--CHHHHhHH
Q 033061 40 NEATKTLNR--GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP--SKQALGRA 92 (128)
Q Consensus 40 ~~v~kai~~--~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~a 92 (128)
+.-...|.+ +++-+||+-.|+-.-+....+...|+++++|+++.. +...|=++
T Consensus 36 ~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~ 92 (97)
T PF10087_consen 36 EKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERA 92 (97)
T ss_pred ccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHH
Confidence 333334443 567999999998777799999999999999999986 43444443
No 32
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=92.73 E-value=1.7 Score=34.12 Aligned_cols=72 Identities=14% Similarity=0.032 Sum_probs=52.0
Q ss_pred CccccHHHHHHHHHc-C-ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecC
Q 033061 34 QLKKGANEATKTLNR-G-ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSN 107 (128)
Q Consensus 34 ~lv~G~~~v~kai~~-~-kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~ 107 (128)
.++.|.+.|..+++. + ...-+++..+.... -.+.+..+|++++|++..+ +.++|-+..+....=-++++...
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~i~~~~v-~~~~l~~ls~~~~~qGv~a~~~~ 76 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGREDK-RLLPLINELEAQGIVIQLA-NRQTLDEKAEGAVHQGIIARVKP 76 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcch-HHHHHHHHHHHcCCcEEEe-CHHHHhhhhcCCCCceEEEEEec
Confidence 468999999999985 3 46677777776443 2466778889999997665 67889999887544345666553
No 33
>PRK10864 putative methyltransferase; Provisional
Probab=92.37 E-value=1.5 Score=36.47 Aligned_cols=78 Identities=12% Similarity=0.096 Sum_probs=55.6
Q ss_pred HHHHHHcCCccccHHHHHHHHHcC--ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEE
Q 033061 26 VQQAANYKQLKKGANEATKTLNRG--ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACS 103 (128)
Q Consensus 26 L~~a~~ag~lv~G~~~v~kai~~~--kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~ 103 (128)
++..+....++.|.+.|..+++++ .+.-+++.....+. ...+..++..++++|..+ +.++|-+..+....--+++
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 455555667999999999999863 46666777777664 356667777788996655 7788999998864434555
Q ss_pred Eec
Q 033061 104 VTS 106 (128)
Q Consensus 104 i~~ 106 (128)
+..
T Consensus 178 ~v~ 180 (346)
T PRK10864 178 LIK 180 (346)
T ss_pred EEe
Confidence 554
No 34
>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=91.85 E-value=0.49 Score=33.06 Aligned_cols=49 Identities=16% Similarity=0.200 Sum_probs=38.9
Q ss_pred cccHHHHHHHHHcCceeEEEEecCC---Ch-hhHHhhHHHHHHhCCCCEEEeC
Q 033061 36 KKGANEATKTLNRGISEFIVMAADT---EP-LEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D~---~p-~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..|..++.+.|++|++.+||--.|- .+ ..-...+...|-+++|||++.-
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 2135788999999999998643
No 35
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=91.36 E-value=2.4 Score=33.08 Aligned_cols=78 Identities=14% Similarity=0.103 Sum_probs=51.5
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCC-ChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCC-chH
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADT-EPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNE-ASQ 111 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~-~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~-~~~ 111 (128)
.++.|.+.|.++++++ .++.+. ... .+. ...+..+|++++||+..+ ++++|-+.+|...+=-++++.+.. ...
T Consensus 2 ~~i~G~~~v~eal~~~-~~~~~~-~~~~~~~--~~~~~~~~~~~~~~~~~v-~~~~l~~l~~~~~~qGv~a~~~~~~~~~ 76 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQ-QRVFIL-KGLESKR--LKKLIQLAKKQGINIQLV-DRQKLDQLTKGGNHQGIAAKVKPILYKD 76 (237)
T ss_pred cEEEehHHHHHHHhCC-CEEEEE-ecCcchH--HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEecCCCCC
Confidence 3578999999999988 333332 222 333 456788889999998887 578899998865433455665533 224
Q ss_pred HHHHH
Q 033061 112 LKTQI 116 (128)
Q Consensus 112 ~~~li 116 (128)
+.++.
T Consensus 77 ~~~~~ 81 (237)
T TIGR00186 77 LNDLY 81 (237)
T ss_pred HHHHH
Confidence 54444
No 36
>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=89.34 E-value=0.69 Score=30.82 Aligned_cols=42 Identities=10% Similarity=0.103 Sum_probs=32.9
Q ss_pred HHHHHHHcCceeEEEEecCCChhhH---HhhHHHHHHhCCCCEEE
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEI---LLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~---~~~l~~lc~~~~IP~~~ 82 (128)
++.+.|++|++.+||.-.+...... -..+.++|.+++||+.+
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 5999999999999999988865522 35678999999999863
No 37
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=88.28 E-value=1.3 Score=32.30 Aligned_cols=56 Identities=16% Similarity=0.153 Sum_probs=41.4
Q ss_pred cHHHHHHHHHcCceeEEEEecCC-Ch---hhHHhhHHHHHHhCCCCEEEe-CCHHHHhHHh
Q 033061 38 GANEATKTLNRGISEFIVMAADT-EP---LEILLHLPLLAEDKNVPYVFV-PSKQALGRAC 93 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~-~p---~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~ 93 (128)
|..++...|++|++.+||--.|- ++ ..-...+...|-.+||||++- .+-..+=+++
T Consensus 63 g~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l~tA~a~~~al 123 (142)
T PRK05234 63 GDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNRATADFLISSL 123 (142)
T ss_pred CchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCHHHHHHHHHHH
Confidence 67889999999999999997752 22 112458899999999999764 4555555553
No 38
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=88.18 E-value=1.8 Score=30.76 Aligned_cols=50 Identities=12% Similarity=0.096 Sum_probs=37.2
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
..++.++|++...-.++|..+.+.. ....+..+|+++|+|+-.+.+...=
T Consensus 51 ~~~~~~~l~~~~~~~l~ing~l~~~-~~~~YiklA~~~~~~fTiv~~~~~~ 100 (120)
T PF07997_consen 51 YPEFEQALKDYPNYKLKINGNLDYS-FQSKYIKLANKHGIPFTIVNDPEYH 100 (120)
T ss_dssp -HHHHHHHHC-SSEEEEEETTS-HH-HHHHHHHHHHHTT--EEEE---SS-
T ss_pred HHHHHHHHhhCCCeEEEEcCCCCHH-HHHHHHHHHHHcCCCEEEeCCCCcc
Confidence 3678889999999999999999997 8999999999999999888765433
No 39
>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=88.18 E-value=1.1 Score=30.71 Aligned_cols=46 Identities=17% Similarity=0.116 Sum_probs=36.2
Q ss_pred cHHHHHHHHHc-CceeEEEEecCCCh----hhHHhhHHHHHHhCCCCEEEe
Q 033061 38 GANEATKTLNR-GISEFIVMAADTEP----LEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 38 G~~~v~kai~~-~kakLVilA~D~~p----~~~~~~l~~lc~~~~IP~~~~ 83 (128)
|..++.+.|++ |++.+||--.|... ..--..+...|-+++||+++-
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 99999999776221 112567889999999999864
No 40
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=87.46 E-value=2 Score=35.96 Aligned_cols=71 Identities=18% Similarity=0.170 Sum_probs=56.9
Q ss_pred HHHcCCccccHHHHHHHHHcCceeEEEEecCC------ChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCce
Q 033061 29 AANYKQLKKGANEATKTLNRGISEFIVMAADT------EPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV 99 (128)
Q Consensus 29 a~~ag~lv~G~~~v~kai~~~kakLVilA~D~------~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~ 99 (128)
|+..++...|.++|.+|++-|.+.-++++... ..++-...+....+..|-+++.+++-.+.|.-+-.=-++
T Consensus 267 ak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~~~~~~re~~~~ll~~ve~~ggkV~Ivs~~he~Ge~Lk~lGGi 343 (352)
T COG1537 267 AKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRSDDVEEREDVEELLEEVESMGGKVVIVSTEHEPGERLKALGGI 343 (352)
T ss_pred hcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcccchhhHHHHHHHHHHHHHcCCeEEEEecCCcchHHHHhccCe
Confidence 44467899999999999999999888887544 232456788888899999999999999999886554554
No 41
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=86.82 E-value=3.9 Score=35.42 Aligned_cols=77 Identities=19% Similarity=0.251 Sum_probs=52.5
Q ss_pred HHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH------------------Hh-CCCCceEEEE
Q 033061 44 KTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR------------------AC-GVTRPVIACS 103 (128)
Q Consensus 44 kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~------------------a~-G~~~~~~~v~ 103 (128)
..|-..++-++|+ ..--|.| ..||..+|+++++|..++.+.++|+. |+ +.. ..++
T Consensus 356 ~~L~~~~vDlmiVVGG~NSSN--T~~L~eIa~~~g~~sy~Ie~~~eI~~~~~i~h~~~~~e~~~~~~wl~~~~---~~VG 430 (460)
T PLN02821 356 YKLVEEKLDLMLVVGGWNSSN--TSHLQEIAEHKGIPSYWIDSEERIGPGNTIAHKLNHGELVEKENWLPEGP---VTIG 430 (460)
T ss_pred HHHhhcCCCEEEEECCCCCcc--HHHHHHHHHHhCCCEEEECCHHHcCcccccccccccchhhhhHHHhccCC---CEEE
Confidence 3343344554444 4444555 59999999999999999999999995 76 222 2467
Q ss_pred EecCCchHHHHHHHHHHHHHhhh
Q 033061 104 VTSNEASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 104 i~~~~~~~~~~li~~i~~~~~~~ 126 (128)
|+- +++.-..+++++...+.++
T Consensus 431 ITA-GASTPd~lIeeVi~~l~~~ 452 (460)
T PLN02821 431 VTS-GASTPDKVVEDVLDKVFDI 452 (460)
T ss_pred Eec-CCCCCHHHHHHHHHHHHHh
Confidence 774 4566677777777766654
No 42
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=85.42 E-value=1.4 Score=31.10 Aligned_cols=48 Identities=13% Similarity=0.086 Sum_probs=34.4
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
...++..+.++++.+.-|++|-+-++.+...++.+.|++++|.+..++
T Consensus 128 g~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 128 GDLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp --GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred cCHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence 456899999999999999999877777789999999999999987653
No 43
>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=85.24 E-value=1.7 Score=28.50 Aligned_cols=48 Identities=17% Similarity=0.185 Sum_probs=36.0
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCC-C--hhhHHhhHHHHHHhCCCCEE
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADT-E--PLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~-~--p~~~~~~l~~lc~~~~IP~~ 81 (128)
++-.|...+.+.+++|++.+||--.+. . +.+--..+...|.+++||+.
T Consensus 39 ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 39 KVHGGILAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred CCCCCCHHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 343466679999999999999997653 2 22124578999999999986
No 44
>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=85.02 E-value=1.3 Score=31.35 Aligned_cols=41 Identities=29% Similarity=0.312 Sum_probs=28.6
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+..+.+-+.+.-.+|++.|..|. ..+..+|++++||+....
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 45667777889999999999775 788999999999997754
No 45
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=83.51 E-value=3.9 Score=32.30 Aligned_cols=72 Identities=25% Similarity=0.331 Sum_probs=53.3
Q ss_pred CccccCCCChh-------------H-HHHHHHHHHHHHHcCC-------------ccccHHHHHHHHHc-CceeEEEEec
Q 033061 7 NPKAYPLADSN-------------L-TITILDLVQQAANYKQ-------------LKKGANEATKTLNR-GISEFIVMAA 58 (128)
Q Consensus 7 ~p~~~P~~~~~-------------~-~~~i~~lL~~a~~ag~-------------lv~G~~~v~kai~~-~kakLVilA~ 58 (128)
-|+++|+++-. . -+.++++++.|+.+|- +..|......-.++ |--.|+| -
T Consensus 53 vPfSDp~ADGPtIq~~n~~aL~ng~tl~~i~emvk~ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfii--v 130 (268)
T KOG4175|consen 53 VPFSDPLADGPTIQAANRRALLNGTTLNSIIEMVKEARPQGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFII--V 130 (268)
T ss_pred CccCccccCCchhhhhHHHHHHcCCcHHHHHHHHHHhcccCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEe--c
Confidence 48888887621 1 1678999999999973 45788877777766 4445555 4
Q ss_pred CCChhhHHhhHHHHHHhCCCCEE
Q 033061 59 DTEPLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 59 D~~p~~~~~~l~~lc~~~~IP~~ 81 (128)
|..|. -...+...|++|+|.++
T Consensus 131 DlPpE-Ea~~~Rne~~k~gislv 152 (268)
T KOG4175|consen 131 DLPPE-EAETLRNEARKHGISLV 152 (268)
T ss_pred cCChH-HHHHHHHHHHhcCceEE
Confidence 88887 47889999999999765
No 46
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=82.17 E-value=11 Score=30.72 Aligned_cols=78 Identities=17% Similarity=0.140 Sum_probs=51.7
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHH
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDA 122 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~ 122 (128)
.+.|.+.-=-++|+..--|.+ ..+|-..|++++.|...+.+.+||-...=... ..++|+- ++|.-..+++++...
T Consensus 204 ~~~La~~vD~miVVGg~~SsN--T~kL~~i~~~~~~~t~~Ie~~~el~~~~l~~~--~~VGita-GASTP~~li~eV~~~ 278 (298)
T PRK01045 204 VKELAPQADLVIVVGSKNSSN--SNRLREVAEEAGAPAYLIDDASEIDPEWFKGV--KTVGVTA-GASAPEWLVQEVIAR 278 (298)
T ss_pred HHHHHhhCCEEEEECCCCCcc--HHHHHHHHHHHCCCEEEECChHHCcHHHhcCC--CEEEEEe-cCCCCHHHHHHHHHH
Confidence 334433323455566666676 58899999999999999999999974322322 2466764 456666777777666
Q ss_pred Hhh
Q 033061 123 IEK 125 (128)
Q Consensus 123 ~~~ 125 (128)
+..
T Consensus 279 l~~ 281 (298)
T PRK01045 279 LKE 281 (298)
T ss_pred HHH
Confidence 654
No 47
>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=82.01 E-value=7.1 Score=31.63 Aligned_cols=70 Identities=17% Similarity=0.175 Sum_probs=48.5
Q ss_pred cee-EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 50 ISE-FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 50 kak-LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
++- ++|+..--|.| ..+|-..|++++.|...+.+.+||....=.... .++|+- ++|.-..+++++...+.
T Consensus 208 ~vD~miVVGg~nSsN--T~rL~ei~~~~~~~t~~Ie~~~el~~~~l~~~~--~VGiTA-GASTP~~li~eVi~~l~ 278 (280)
T TIGR00216 208 EVDLMIVIGGKNSSN--TTRLYEIAEEHGPPSYLIETAEELPEEWLKGVK--VVGITA-GASTPDWIIEEVIRKIK 278 (280)
T ss_pred hCCEEEEECCCCCch--HHHHHHHHHHhCCCEEEECChHHCCHHHhCCCC--EEEEEe-cCCCCHHHHHHHHHHHH
Confidence 454 45555555666 588999999999999999999999854333333 366764 45666777777766654
No 48
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=81.53 E-value=5.9 Score=30.59 Aligned_cols=63 Identities=11% Similarity=0.214 Sum_probs=42.4
Q ss_pred eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHH----HhHHhCCCCceEEEEEecCC-chHHHHHHH
Q 033061 51 SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQA----LGRACGVTRPVIACSVTSNE-ASQLKTQIQ 117 (128)
Q Consensus 51 akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~e----LG~a~G~~~~~~~v~i~~~~-~~~~~~li~ 117 (128)
+-|||.|.|-.+ +-..+-..|+++++|+..+++.+. ++..+.+. + ..++|..++ +.-+++.+.
T Consensus 73 ~~lviaAt~d~~--ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~-~-l~iaIsT~G~sP~la~~ir 140 (210)
T COG1648 73 AFLVIAATDDEE--LNERIAKAARERRILVNVVDDPELCDFIFPAIVDRG-P-LQIAISTGGKSPVLARLLR 140 (210)
T ss_pred ceEEEEeCCCHH--HHHHHHHHHHHhCCceeccCCcccCceecceeeccC-C-eEEEEECCCCChHHHHHHH
Confidence 889999998744 679999999999999877765542 33333332 2 467776555 455554443
No 49
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=81.11 E-value=20 Score=28.39 Aligned_cols=70 Identities=23% Similarity=0.257 Sum_probs=53.7
Q ss_pred CccccHHHHHHHHHcC-ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 34 QLKKGANEATKTLNRG-ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~-kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
.++.|.+.|..+++++ .+.-+++.++..+ ....+.......++|+..+ +++.|-...+...+--++++.+
T Consensus 22 ~~~~G~~~v~~al~~~~~i~~i~~~~~~~~--~~~~~~~~~~~~~~~~~~v-~~~~l~~~~~~~~hqGi~a~~~ 92 (260)
T COG0566 22 FLIEGEHAVLEALASGPKIVRILVTEGRLP--RFEELLALAAAKGIPVYVV-SEAILDKLSGTENHQGIVAVVK 92 (260)
T ss_pred EEEeeHHHHHHHHhcCCCceEEEEecccch--hHHHHHHHHHhcCCeEEEE-CHHHHHHHhCCCCCCeEEEEEe
Confidence 4899999999999999 6888888888874 3678888889999997665 4567777777554444556554
No 50
>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=81.00 E-value=15 Score=29.44 Aligned_cols=65 Identities=15% Similarity=0.168 Sum_probs=47.8
Q ss_pred EEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH--HHHhHHhCCCCceEEEEEecCCchHHHHHHHHHH
Q 033061 54 IVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK--QALGRACGVTRPVIACSVTSNEASQLKTQIQQLK 120 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk--~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~ 120 (128)
+|+..=+++. +...+...|++++||++.+.+. ..|...+|.+..- ..+....-+.++-+-++.|.
T Consensus 55 iV~~Tlv~~~-lr~~l~~~~~~~~i~~~Dll~~~l~~l~~~lg~~p~~-~pg~~~~ld~~Yf~RIeAie 121 (255)
T PF03618_consen 55 IVFYTLVDPE-LREYLEEFCREHGIPCVDLLGPLLSALEEFLGQKPSR-KPGLQHQLDEDYFKRIEAIE 121 (255)
T ss_pred EEEEeCCCHH-HHHHHHHHHHhcCCCEEeccHHHHHHHHHHHCcCccc-ccCccccchHHHHHHHHHHH
Confidence 7777888886 9999999999999999987654 7999999998653 33444333344555555554
No 51
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=80.36 E-value=13 Score=30.16 Aligned_cols=71 Identities=14% Similarity=0.094 Sum_probs=49.5
Q ss_pred cee-EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhh
Q 033061 50 ISE-FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 50 kak-LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~ 125 (128)
++- ++|+..--|.| ..+|-.+|++++.|...+.+.+||-...=... ..++|+- ++|.-..+++++...+..
T Consensus 209 ~vD~miVVGg~~SsN--T~rL~eia~~~~~~t~~Ie~~~el~~~~~~~~--~~VGita-GASTP~~li~eV~~~l~~ 280 (281)
T PRK12360 209 EVDVMIVIGGKHSSN--TQKLVKICEKNCPNTFHIETADELDLEMLKDY--KIIGITA-GASTPDWIIEEVIKKIKN 280 (281)
T ss_pred hCCEEEEecCCCCcc--HHHHHHHHHHHCCCEEEECChHHCCHHHhCCC--CEEEEEc-cCCCCHHHHHHHHHHHHh
Confidence 454 45555555666 58899999999999999999999954322222 2467764 467777778887776654
No 52
>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=80.25 E-value=4.8 Score=25.56 Aligned_cols=58 Identities=12% Similarity=0.429 Sum_probs=39.4
Q ss_pred EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHH
Q 033061 53 FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQ 118 (128)
Q Consensus 53 LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~ 118 (128)
.+|+...... .-+...+++++|+++..+++..+++.-||.. +-+...+.....+++++
T Consensus 4 ~~i~F~st~~---a~~~ek~lk~~gi~~~liP~P~~i~~~CG~a-----l~~~~~d~~~i~~~l~~ 61 (73)
T PF11823_consen 4 YLITFPSTHD---AMKAEKLLKKNGIPVRLIPTPREISAGCGLA-----LRFEPEDLEKIKEILEE 61 (73)
T ss_pred EEEEECCHHH---HHHHHHHHHHCCCcEEEeCCChhccCCCCEE-----EEEChhhHHHHHHHHHH
Confidence 4455555433 3566789999999999999999999998865 33444444444444443
No 53
>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=80.11 E-value=3.6 Score=28.91 Aligned_cols=36 Identities=11% Similarity=0.102 Sum_probs=30.7
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
.+..+||.+.|. .. ....+..+|+++++|++..++.
T Consensus 88 ~~~diVi~~~d~-~~-~~~~l~~~~~~~~i~~i~~~~~ 123 (143)
T cd01483 88 DGVDLVIDAIDN-IA-VRRALNRACKELGIPVIDAGGL 123 (143)
T ss_pred cCCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEcCC
Confidence 457899999998 44 6899999999999999998864
No 54
>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=80.05 E-value=24 Score=28.52 Aligned_cols=76 Identities=17% Similarity=0.246 Sum_probs=47.7
Q ss_pred HHHHHcCcee-EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh-HHhCCCCceEEEEEecCCchHHHHHHHHHH
Q 033061 43 TKTLNRGISE-FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG-RACGVTRPVIACSVTSNEASQLKTQIQQLK 120 (128)
Q Consensus 43 ~kai~~~kak-LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG-~a~G~~~~~~~v~i~~~~~~~~~~li~~i~ 120 (128)
.+.|.+ ++- ++|+..--|.| ..+|-.+|++++.|.+++.+..||- .++.-.. .++|+- ++|.-..+++++.
T Consensus 203 ~~~La~-~vD~miVIGg~~SsN--T~kL~eia~~~~~~t~~Ie~~~el~~~~l~~~~---~VGIta-GASTP~~ii~eVi 275 (281)
T PF02401_consen 203 ARELAK-EVDAMIVIGGKNSSN--TRKLAEIAKEHGKPTYHIETADELDPEWLKGVK---KVGITA-GASTPDWIIEEVI 275 (281)
T ss_dssp HHHHHC-CSSEEEEES-TT-HH--HHHHHHHHHHCTTCEEEESSGGG--HHHHTT-S---EEEEEE--TTS-HHHHHHHH
T ss_pred HHHHHh-hCCEEEEecCCCCcc--HHHHHHHHHHhCCCEEEeCCccccCHhHhCCCC---EEEEEc-cCCCCHHHHHHHH
Confidence 344443 454 45555555555 5889999999999999999999995 4444332 356665 4577777788877
Q ss_pred HHHhh
Q 033061 121 DAIEK 125 (128)
Q Consensus 121 ~~~~~ 125 (128)
..+..
T Consensus 276 ~~l~~ 280 (281)
T PF02401_consen 276 DRLEE 280 (281)
T ss_dssp HHHHH
T ss_pred HHHhc
Confidence 76654
No 55
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=79.58 E-value=2.7 Score=30.14 Aligned_cols=30 Identities=13% Similarity=0.298 Sum_probs=24.8
Q ss_pred EecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 56 MAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 56 lA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+|+ ++-.++...+.++|.++|||+.+++++
T Consensus 30 v~~-~~i~dL~~~~~~ic~ergiPIe~I~~~ 59 (121)
T PF13611_consen 30 VAN-NEIDDLVREVTEICCERGIPIEIIDKK 59 (121)
T ss_pred Eec-CcHHHHHHHHHHHHHHcCCCEEEecCc
Confidence 776 444458999999999999999999854
No 56
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=79.11 E-value=13 Score=31.52 Aligned_cols=79 Identities=16% Similarity=0.172 Sum_probs=52.5
Q ss_pred HHHHHcCceeE-EEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH------------------HhCCCCceEEEE
Q 033061 43 TKTLNRGISEF-IVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR------------------ACGVTRPVIACS 103 (128)
Q Consensus 43 ~kai~~~kakL-VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~------------------a~G~~~~~~~v~ 103 (128)
.+.|...++-+ +|+..--|.| ..+|-.+|++++.|..++.+.++|-. |+-.. ...++
T Consensus 281 ~~~La~~~vD~miVVGG~nSSN--T~rL~eia~~~g~~ty~Ie~~~eL~~~~~i~h~~~~~~~~~t~~wl~~~--~~~VG 356 (387)
T PRK13371 281 MFSLVEEPLDLMVVIGGYNSSN--TTHLQEIAIERGIPSYHIDSPERILSGNSIEHKPLGKELVVTENWLPEG--PVTVG 356 (387)
T ss_pred HHHHhhcCCCEEEEECCCCCcc--HHHHHHHHHhcCCCEEEECCHHHcCCccccccccccchhhhhhhhhccC--CCEEE
Confidence 44443334544 4444444555 58999999999999999999999976 55211 12467
Q ss_pred EecCCchHHHHHHHHHHHHHhhh
Q 033061 104 VTSNEASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 104 i~~~~~~~~~~li~~i~~~~~~~ 126 (128)
|+- ++|.-..+++++...+..+
T Consensus 357 ITA-GASTP~~lI~eVi~~l~~l 378 (387)
T PRK13371 357 ITS-GASTPDKVVEDVIEKIFAL 378 (387)
T ss_pred Eec-CCCCCHHHHHHHHHHHHHh
Confidence 764 4677777777777766554
No 57
>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=78.97 E-value=4.9 Score=27.10 Aligned_cols=47 Identities=13% Similarity=0.088 Sum_probs=34.7
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
.++.+-|..+.++.+++...+++|+.++.+.. ...+...-+..|+++
T Consensus 12 g~~~ipga~e~l~~L~~~g~~~~~lTNns~~s--~~~~~~~L~~~Gi~~ 58 (101)
T PF13344_consen 12 GNEPIPGAVEALDALRERGKPVVFLTNNSSRS--REEYAKKLKKLGIPV 58 (101)
T ss_dssp TTEE-TTHHHHHHHHHHTTSEEEEEES-SSS---HHHHHHHHHHTTTT-
T ss_pred CCCcCcCHHHHHHHHHHcCCCEEEEeCCCCCC--HHHHHHHHHhcCcCC
Confidence 34578899999999999999999999998764 344455558889986
No 58
>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=77.94 E-value=22 Score=29.83 Aligned_cols=53 Identities=15% Similarity=0.120 Sum_probs=44.0
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+.++..+.+++..+.-|++|.+....+...++...|+++++++...++..++.
T Consensus 176 ~~~~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~vP~~~e~~ 228 (445)
T TIGR03025 176 KLDDLVELVRAHRVDEVIIALPLSEEARILELLLQLRDLGVDVRLVPDLFEFL 228 (445)
T ss_pred CHHHHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 44678888888999999999877665567899999999999999999887763
No 59
>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=77.57 E-value=4.3 Score=27.29 Aligned_cols=47 Identities=15% Similarity=0.194 Sum_probs=29.8
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC-CHHHH
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP-SKQAL 89 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~-sk~eL 89 (128)
.++....-...+..+|+..+..|. ..+..+|++++||++..+ +.-+-
T Consensus 51 ~di~~~a~~~~i~~iIltg~~~~~---~~v~~la~~~~i~vi~t~~dtf~t 98 (105)
T PF07085_consen 51 EDIQLAAIEAGIACIILTGGLEPS---EEVLELAKELGIPVISTPYDTFET 98 (105)
T ss_dssp HHHHHHHCCTTECEEEEETT-------HHHHHHHHHHT-EEEE-SS-HHHH
T ss_pred HHHHHHHHHhCCCEEEEeCCCCCC---HHHHHHHHHCCCEEEEECCCHHHH
Confidence 455555555558999999988776 788999999999998765 43343
No 60
>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=77.39 E-value=6.6 Score=26.53 Aligned_cols=46 Identities=13% Similarity=0.240 Sum_probs=34.6
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCCh-hhHHhhHHHHHHhCCCCEEE
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEP-LEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p-~~~~~~l~~lc~~~~IP~~~ 82 (128)
.|..++.+.+++|++.+||-..+... ..--..+...|-+++||++.
T Consensus 54 ~~~~~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 54 EGRPNIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred CCchhHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 46688999999999999998655321 11135788999999999974
No 61
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=75.21 E-value=37 Score=29.01 Aligned_cols=53 Identities=9% Similarity=0.078 Sum_probs=43.7
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+.++..+.+++.++.-|++|-+..+.+-.+++.+.|++.++++..+++..++.
T Consensus 191 ~~~dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~~v~V~ivP~l~~~~ 243 (463)
T PRK10124 191 NLQQLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADTTCSVLLIPDVFTFN 243 (463)
T ss_pred CHHHHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHcCCeEEEecchhhcc
Confidence 34678888999999999999887665567899999999999999988776543
No 62
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=74.97 E-value=11 Score=32.17 Aligned_cols=76 Identities=14% Similarity=0.156 Sum_probs=56.5
Q ss_pred HHcCCccccHHHHHHHHHcCceeEEEEecCCCh----------------------------------------hhHHhhH
Q 033061 30 ANYKQLKKGANEATKTLNRGISEFIVMAADTEP----------------------------------------LEILLHL 69 (128)
Q Consensus 30 ~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p----------------------------------------~~~~~~l 69 (128)
...|..+.|..+|.+++.-|.+..+++..|-.- .++...+
T Consensus 291 ~~~Gla~yG~~~vr~aL~~gaVd~llv~Edl~~~r~~~~c~~~~~e~~~t~~~~~~~~~~~~~~~~e~~~v~~~d~vd~l 370 (411)
T COG1503 291 KDSGLAVYGEEEVREALEMGAVDTLLVSEDLEKERVTYKCPTCGYENLKSKREFEQKRFRCPECGSEMEEVEVSDLVDEL 370 (411)
T ss_pred cCcceeecchHHHHHHHHhcccceEEeeccccccceeecCCCcchhhhhcccccccccccCccccccccchhhhhHHHHH
Confidence 345667799999999999999999999999872 2346677
Q ss_pred HHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 70 PLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 70 ~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
...+++.+.-+.++.+..+-|.++-..+.- +.||++
T Consensus 371 ~e~a~~~Ga~ve~is~~~~eg~q~~~afgG-i~AiLR 406 (411)
T COG1503 371 AELAEESGAKVEIISDDTDEGAQLLKAFGG-LAAILR 406 (411)
T ss_pred HHHHHhcCCeEEEecCchHHHHHHHHcccc-hheeee
Confidence 777788888888887777777776655542 344443
No 63
>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=74.83 E-value=9.2 Score=29.99 Aligned_cols=57 Identities=18% Similarity=0.249 Sum_probs=29.0
Q ss_pred HHhhHHHHHHhCCCCEEEeCC--HH-------HHhHHhCCCCceEEEEEecC--CchHHHHHHHHHHHHHhh
Q 033061 65 ILLHLPLLAEDKNVPYVFVPS--KQ-------ALGRACGVTRPVIACSVTSN--EASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~s--k~-------eLG~a~G~~~~~~~v~i~~~--~~~~~~~li~~i~~~~~~ 125 (128)
-...+....++++|++++... .. +|.+-.|.+. +.+.+. ...+|.+.+++.-++|..
T Consensus 194 ~l~~l~~~ik~~~v~~if~e~~~~~k~~~~l~~la~~~~~~v----~~l~~~~~~~~~y~~~m~~n~~~i~~ 261 (264)
T cd01020 194 DIAAFQNAIKNRQIDALIVNPQQASSATTNITGLAKRSGVPV----VEVTETMPNGTTYLTWMLKQVDQLEK 261 (264)
T ss_pred HHHHHHHHHHhCCCCEEEeCCCCCcHHHHHHHHHHHHcCCCE----EeecCCCCCCCCHHHHHHHHHHHHHH
Confidence 346666677777777776431 11 2344444432 222211 124677777666665543
No 64
>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=74.29 E-value=18 Score=26.65 Aligned_cols=76 Identities=22% Similarity=0.269 Sum_probs=47.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHH-------------HhHHhCCCCceEEEEEec
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQA-------------LGRACGVTRPVIACSVTS 106 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~e-------------LG~a~G~~~~~~~v~i~~ 106 (128)
+-+.+++..++..++|.--|+...+---.+...-.+.++|++.+-+|.+ |.+.+|.+ ++.+.-
T Consensus 68 ~v~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg~p----vi~~sa 143 (156)
T PF02421_consen 68 RVARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAERKGIEIDAEKLSERLGVP----VIPVSA 143 (156)
T ss_dssp HHHHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-----EEEEBT
T ss_pred HHHHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEECHHHHHHHhCCC----EEEEEe
Confidence 3345666678888888888887542122233344578999998877754 44555443 455555
Q ss_pred CCchHHHHHHHHH
Q 033061 107 NEASQLKTQIQQL 119 (128)
Q Consensus 107 ~~~~~~~~li~~i 119 (128)
....++.++.++|
T Consensus 144 ~~~~g~~~L~~~I 156 (156)
T PF02421_consen 144 RTGEGIDELKDAI 156 (156)
T ss_dssp TTTBTHHHHHHHH
T ss_pred CCCcCHHHHHhhC
Confidence 5556777666554
No 65
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=73.77 E-value=11 Score=29.01 Aligned_cols=58 Identities=17% Similarity=0.165 Sum_probs=44.3
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCCCceEEEEEe
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTRPVIACSVT 105 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~~v~i~ 105 (128)
.+++.++++.| +.++| +|. +-..+...|+++++|++- +.|..|+=++. ..++..+.+.
T Consensus 78 ~~~~~~a~~aG-A~Fiv-----sP~-~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~--~~Gad~vklF 136 (213)
T PRK06552 78 AVTARLAILAG-AQFIV-----SPS-FNRETAKICNLYQIPYLPGCMTVTEIVTAL--EAGSEIVKLF 136 (213)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEECCcCCHHHHHHHH--HcCCCEEEEC
Confidence 47788888888 67776 676 677788999999999875 67889998884 4555556664
No 66
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=73.44 E-value=11 Score=29.59 Aligned_cols=62 Identities=10% Similarity=0.066 Sum_probs=39.7
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhC---CCCceEEEEEecCC-chHHHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACG---VTRPVIACSVTSNE-ASQLKT 114 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G---~~~~~~~v~i~~~~-~~~~~~ 114 (128)
.+.|||.|.|- +. +-..+-..|+.+++++..+.+.. ++..+- .++.-.+++|..++ +..++.
T Consensus 85 g~~LViaATdD-~~-vN~~I~~~a~~~~~lvn~vd~p~-~~dFi~PAiv~rg~l~IaIST~G~sP~lar 150 (223)
T PRK05562 85 DKHLIVIATDD-EK-LNNKIRKHCDRLYKLYIDCSDYK-KGLCIIPYQRSTKNFVFALNTKGGSPKTSV 150 (223)
T ss_pred CCcEEEECCCC-HH-HHHHHHHHHHHcCCeEEEcCCcc-cCeEEeeeEEecCCEEEEEECCCcCcHHHH
Confidence 37899999874 54 67999999999999998887653 343311 11222356665444 444443
No 67
>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=73.40 E-value=10 Score=31.81 Aligned_cols=53 Identities=17% Similarity=0.176 Sum_probs=44.2
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+.++..+.+++..+.-|++|-.....+-..++...|+.+++++..+++-.++.
T Consensus 179 ~~~dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~vvP~~~e~~ 231 (451)
T TIGR03023 179 KLDDLEELIREGEVDEVYIALPLAAEDRILELLDALEDLTVDVRLVPDLFDFA 231 (451)
T ss_pred CHHHHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 45778888999999999999877655567889999999999999998877654
No 68
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=72.83 E-value=29 Score=28.00 Aligned_cols=114 Identities=18% Similarity=0.212 Sum_probs=74.3
Q ss_pred CccccCCCChh---------HH-----HHHHHHHHHHHHcCC-------------ccccHHHHHHHHHcCceeEEEEecC
Q 033061 7 NPKAYPLADSN---------LT-----ITILDLVQQAANYKQ-------------LKKGANEATKTLNRGISEFIVMAAD 59 (128)
Q Consensus 7 ~p~~~P~~~~~---------~~-----~~i~~lL~~a~~ag~-------------lv~G~~~v~kai~~~kakLVilA~D 59 (128)
-|+++|+++-. +. .+.+++++..+..+. +..|...-.+..++--+.=|++ .|
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 48999988721 11 677888888886642 4488888666666655544444 48
Q ss_pred CChhhHHhhHHHHHHhCCCCEEEeC----CHHHHhHHhCCC----CceEEEEEe---cCCchHHHHHHHHHHHH
Q 033061 60 TEPLEILLHLPLLAEDKNVPYVFVP----SKQALGRACGVT----RPVIACSVT---SNEASQLKTQIQQLKDA 122 (128)
Q Consensus 60 ~~p~~~~~~l~~lc~~~~IP~~~~~----sk~eLG~a~G~~----~~~~~v~i~---~~~~~~~~~li~~i~~~ 122 (128)
..+. ...++...|++++|-++++- +.+.|-+..... +-++..+++ +.....+.++++.+|..
T Consensus 131 LP~e-e~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~~GvTG~~~~~~~~~~~~v~~vr~~ 203 (265)
T COG0159 131 LPPE-ESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAASGFIYYVSRMGVTGARNPVSADVKELVKRVRKY 203 (265)
T ss_pred CChH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEecccccCCCcccchhHHHHHHHHHHh
Confidence 8675 78999999999999877642 335666655444 333333444 22233578888888764
No 69
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=72.81 E-value=10 Score=31.38 Aligned_cols=53 Identities=11% Similarity=0.234 Sum_probs=42.9
Q ss_pred cccHHHHHHHHHcCceeEEEEecCCChh------------------hHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 36 KKGANEATKTLNRGISEFIVMAADTEPL------------------EILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D~~p~------------------~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.++...++++|+++ ..+-|+|+|.+|. ++...+.+.|++++|.++......++
T Consensus 8 ~s~~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~~P~~~~~~ 78 (329)
T PF15632_consen 8 FSSQRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVFVPGRNREL 78 (329)
T ss_pred CccHHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEEEcCccHHH
Confidence 46778889999998 8888888888654 57888999999999999887744444
No 70
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=71.93 E-value=32 Score=24.30 Aligned_cols=55 Identities=16% Similarity=0.178 Sum_probs=34.1
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCCC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTR 97 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~ 97 (128)
.++..+.......+++.+..|.++. .+..+.+++++|+-. .....++.+.+|...
T Consensus 83 l~~~~~~~~~~~~~vi~i~~d~~~~----~~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~ 138 (173)
T PRK03147 83 MNELYPKYKEKGVEIIAVNVDETEL----AVKNFVNRYGLTFPVAIDKGRQVIDAYGVGP 138 (173)
T ss_pred HHHHHHHhhcCCeEEEEEEcCCCHH----HHHHHHHHhCCCceEEECCcchHHHHcCCCC
Confidence 3344444555557777777775443 344555677777643 345578889988764
No 71
>KOG4201 consensus Anthranilate synthase component II [Amino acid transport and metabolism]
Probab=71.47 E-value=9.7 Score=30.44 Aligned_cols=71 Identities=17% Similarity=0.236 Sum_probs=50.9
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC-CEEEeCCHHHHhHHhCCCCceEEEEEecCC
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV-PYVFVPSKQALGRACGVTRPVIACSVTSNE 108 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I-P~~~~~sk~eLG~a~G~~~~~~~v~i~~~~ 108 (128)
++.---|+..+-.+|.=..++|+.=-+.. ..+.+-..|+.-|. |.+.+.+.+|++++++. ++-+++|.+.+
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 44555566777777764444444444444 46888899998887 89999999999999988 55567876543
No 72
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=71.31 E-value=34 Score=28.89 Aligned_cols=59 Identities=8% Similarity=0.039 Sum_probs=45.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNE 108 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~ 108 (128)
..+..+++.|+........+..+|+..++|+....+..++..++......-.+.|+..+
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDTaG 264 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDTIG 264 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcCCC
Confidence 35888999999655466779999999999998888888888877665554455565544
No 73
>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=71.11 E-value=19 Score=30.96 Aligned_cols=102 Identities=15% Similarity=0.171 Sum_probs=73.4
Q ss_pred HHHHHHHHHHHHcCCcc---ccHHHHHHHH--------HcCceeEEEEecCCChh--------------h----------
Q 033061 20 ITILDLVQQAANYKQLK---KGANEATKTL--------NRGISEFIVMAADTEPL--------------E---------- 64 (128)
Q Consensus 20 ~~i~~lL~~a~~ag~lv---~G~~~v~kai--------~~~kakLVilA~D~~p~--------------~---------- 64 (128)
+++-+.+...+-+|.+= -|....+.+. |++.-+|||++.|+... |
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 44555566666666644 5788887777 45566999999998642 1
Q ss_pred ----------HHhhHHHHHHhCCCCEEEeCCH------HHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhh
Q 033061 65 ----------ILLHLPLLAEDKNVPYVFVPSK------QALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 65 ----------~~~~l~~lc~~~~IP~~~~~sk------~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~ 125 (128)
...++...-.+++|-.+|.-+. ++|...+. . +.++++..|++++.+||.+-...|.+
T Consensus 268 Yt~s~~~DYPSi~ql~~kL~e~nI~~IFAVT~~~~~~Y~~Ls~lip---g-s~vg~Ls~DSsNIv~LI~~aY~~i~S 340 (423)
T smart00187 268 YTMSTTQDYPSIGQLNQKLAENNINPIFAVTKKQVSLYKELSALIP---G-SSVGVLSEDSSNVVELIKDAYNKISS 340 (423)
T ss_pred cCccCcCCCCCHHHHHHHHHhcCceEEEEEcccchhHHHHHHHhcC---c-ceeeecccCcchHHHHHHHHHHhhce
Confidence 2456667778899987775332 57888875 2 57899999999999999998877653
No 74
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=70.64 E-value=28 Score=31.10 Aligned_cols=71 Identities=13% Similarity=0.059 Sum_probs=47.6
Q ss_pred ce-eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhh
Q 033061 50 IS-EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 50 ka-kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~ 125 (128)
++ -++|+..--|.| ..++-.+|++++.|...+.+.+||-.-.=.... .++|+- ++|.-..+++++...+..
T Consensus 206 ~~d~~~vvGg~~SsN--t~~L~~i~~~~~~~~~~ie~~~el~~~~~~~~~--~vgita-gaStP~~~i~~v~~~l~~ 277 (647)
T PRK00087 206 KVDVMIVVGGKNSSN--TTKLYEICKSNCTNTIHIENAGELPEEWFKGVK--IIGVTA-GASTPDWIIEEVIKKMSE 277 (647)
T ss_pred hCCEEEEECCCCCcc--HHHHHHHHHHHCCCEEEECChHHCCHHHhCCCC--EEEEEe-ccCCCHHHHHHHHHHHHH
Confidence 45 455555555666 589999999999999999999999763222222 366664 345556666666555544
No 75
>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=70.63 E-value=7.3 Score=28.45 Aligned_cols=87 Identities=11% Similarity=0.158 Sum_probs=51.2
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHH------------Hh----HHhCCCC--ceE
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQA------------LG----RACGVTR--PVI 100 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~e------------LG----~a~G~~~--~~~ 100 (128)
.+++.++++.-.+-++++..+..+.........+|..+++|++.+-+|-+ +- +-.+... .+.
T Consensus 84 ~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 163 (188)
T PF00009_consen 84 IKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVP 163 (188)
T ss_dssp HHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEE
T ss_pred eecccceecccccceeeeecccccccccccccccccccccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccce
Confidence 34566677666677777776644443456677889999999877765432 22 1223332 233
Q ss_pred EEEEecCCchHHHHHHHHHHHHHhh
Q 033061 101 ACSVTSNEASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 101 ~v~i~~~~~~~~~~li~~i~~~~~~ 125 (128)
++.+--....++.++++.+...+|+
T Consensus 164 vi~~Sa~~g~gi~~Ll~~l~~~~P~ 188 (188)
T PF00009_consen 164 VIPISALTGDGIDELLEALVELLPS 188 (188)
T ss_dssp EEEEBTTTTBTHHHHHHHHHHHS--
T ss_pred EEEEecCCCCCHHHHHHHHHHhCcC
Confidence 4444444456777888887777663
No 76
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=70.51 E-value=7.4 Score=26.83 Aligned_cols=46 Identities=15% Similarity=0.226 Sum_probs=37.2
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+..++...+.....-+|+++.+++-. .+++...|..+|+|+..++
T Consensus 37 ~~~~e~~~~~~~~~~DvIll~PQi~~~--~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 37 ITATEGEKAIAAAEYDLYLVSPQTKMY--FKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred ecHHHHHHhhccCCCCEEEEChHHHHH--HHHHHHHhhhcCCCEEEeC
Confidence 566666666666678999999999654 7999999999999997765
No 77
>PRK06628 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=69.40 E-value=18 Score=28.70 Aligned_cols=76 Identities=12% Similarity=0.117 Sum_probs=48.8
Q ss_pred CCccccCCCChhHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCceeEEEEecCCChhh------------HHhhH
Q 033061 6 VNPKAYPLADSNLTITILDLVQQAANYKQLK----KGANEATKTLNRGISEFIVMAADTEPLE------------ILLHL 69 (128)
Q Consensus 6 ~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv----~G~~~v~kai~~~kakLVilA~D~~p~~------------~~~~l 69 (128)
+..+++|.-++.+++ ++.-.+. +....++ .|.+++.+++++|. .|.+..|-++.+ +..-.
T Consensus 140 ~~~vyr~~~n~~~d~-~~~~~R~-~~g~~~i~~~~~~~r~l~k~Lk~g~--~v~il~Dq~~~~gv~v~FFG~~a~t~~~~ 215 (290)
T PRK06628 140 VAVIYRKANNPYVNK-LVNESRA-GDKLRLIPKGPEGSRALVRAIKESE--SIVMLVDQKMNDGIEVPFLGHPAMTASAI 215 (290)
T ss_pred eeEEEecCCCHHHHH-HHHHHHH-hcCCceecCCCchHHHHHHHHHcCC--eEEEEecccCCCCeeeecCCCccccchHH
Confidence 556789986666654 3332332 2222444 47899999999885 777777776431 23344
Q ss_pred HHHHHhCCCCEEEeCC
Q 033061 70 PLLAEDKNVPYVFVPS 85 (128)
Q Consensus 70 ~~lc~~~~IP~~~~~s 85 (128)
..++.+.|.|++.+..
T Consensus 216 a~LA~~~~apvv~~~~ 231 (290)
T PRK06628 216 AKIALQYKYPIIPCQI 231 (290)
T ss_pred HHHHHHHCCCEEEEEE
Confidence 5788999999887664
No 78
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=69.15 E-value=17 Score=29.89 Aligned_cols=52 Identities=13% Similarity=0.019 Sum_probs=39.7
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC-CHHHHhHHhCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP-SKQALGRACGV 95 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~ 95 (128)
+..+.+-+.+.-.+|++.+..|. ..+...|++++||++... ...+++..+..
T Consensus 73 ~~~~~~~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ip~l~t~~~~~~~~~~l~~ 125 (304)
T TIGR00679 73 QIIHNLLTLNPPAIILSKSFTDP---TVLLQVNETYQVPILKTDLFSTELSFRLET 125 (304)
T ss_pred HHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEeCCcHHHHHHHHHH
Confidence 45666677888999999999886 778899999999987654 44666665443
No 79
>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=68.83 E-value=17 Score=27.65 Aligned_cols=36 Identities=19% Similarity=0.241 Sum_probs=28.7
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
.+.+||.|.|... +-..+-..|+.++||+..+++.+
T Consensus 69 ~~~lVi~at~d~~--ln~~i~~~a~~~~ilvn~~d~~e 104 (205)
T TIGR01470 69 GAFLVIAATDDEE--LNRRVAHAARARGVPVNVVDDPE 104 (205)
T ss_pred CcEEEEECCCCHH--HHHHHHHHHHHcCCEEEECCCcc
Confidence 4889999988853 45889999999999997666543
No 80
>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=67.89 E-value=8.5 Score=29.08 Aligned_cols=39 Identities=5% Similarity=0.181 Sum_probs=30.0
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+..+||.+.|. .. ....+.++|++++||++..++..-.|
T Consensus 113 ~~dvVi~~~d~-~~-~~~~ln~~c~~~~ip~i~~~~~G~~G 151 (198)
T cd01485 113 KFTLVIATEEN-YE-RTAKVNDVCRKHHIPFISCATYGLIG 151 (198)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEeecCEE
Confidence 46778877665 54 78889999999999999987644434
No 81
>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=67.30 E-value=15 Score=22.96 Aligned_cols=40 Identities=10% Similarity=0.094 Sum_probs=27.5
Q ss_pred HHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 42 ATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 42 v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+++++-+ -.|.|++.|.. ....++.+|+++|-.+....
T Consensus 16 ~kkal~~l~~G~~l~V~~d~~~---a~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 16 LKKEIDKLQDGEQLEVKASDPG---FARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEECCcc---HHHHHHHHHHHcCCEEEEEE
Confidence 445555432 25777777663 35899999999999887544
No 82
>PRK06553 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=66.80 E-value=21 Score=28.63 Aligned_cols=77 Identities=18% Similarity=0.111 Sum_probs=47.4
Q ss_pred CCCccccCCCChhHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCceeEEEEecCCChhh------------HHhh
Q 033061 5 AVNPKAYPLADSNLTITILDLVQQAANYKQLK----KGANEATKTLNRGISEFIVMAADTEPLE------------ILLH 68 (128)
Q Consensus 5 ~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv----~G~~~v~kai~~~kakLVilA~D~~p~~------------~~~~ 68 (128)
-+..+++|..++.+++-+.+. +. +..+.++ .|.+++.+++++|. .|.+..|-++.+ +..-
T Consensus 158 ~~~~vyr~~~n~~~d~~i~~~-R~-~~g~~~i~~~~~~~r~l~r~Lk~g~--~v~il~DQ~~~~gv~v~FFG~~a~t~~~ 233 (308)
T PRK06553 158 DVTVLFRPPNNPYAARKVLEA-RR-TTMGGLVPSGAGAAFALAGVLERGG--HVGMLVDQKFTRGVEVTFFGRPVKTNPL 233 (308)
T ss_pred ceEEEEecCCChHHHHHHHHH-HH-HcCCCcccCCChHHHHHHHHHHcCC--eEEEEecccCCCCceeccCCCcCCCCch
Confidence 355678999777776533322 22 1222444 45789999999885 677777766431 2233
Q ss_pred HHHHHHhCCCCEEEeCC
Q 033061 69 LPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 69 l~~lc~~~~IP~~~~~s 85 (128)
...++...|.|++.+..
T Consensus 234 ~a~LA~~~~apVvp~~~ 250 (308)
T PRK06553 234 LAKLARQYDCPVHGARC 250 (308)
T ss_pred HHHHHHHHCCCEEEEEE
Confidence 34677788888776553
No 83
>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=66.66 E-value=8.8 Score=29.42 Aligned_cols=39 Identities=10% Similarity=-0.067 Sum_probs=31.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
...+||.|.|. +. ....+..+|.++++|+++.+...--|
T Consensus 111 ~~DvVi~~~d~-~~-~r~~l~~~~~~~~ip~i~~g~~g~~g 149 (228)
T cd00757 111 GYDLVLDCTDN-FA-TRYLINDACVKLGKPLVSGAVLGFEG 149 (228)
T ss_pred CCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEEeccCEE
Confidence 37899999995 55 68889999999999999987543333
No 84
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=66.26 E-value=36 Score=28.04 Aligned_cols=85 Identities=18% Similarity=0.202 Sum_probs=54.6
Q ss_pred CCCccccCCCChhHHHHHHHHHHHHHHcCC--cccc----------HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHH
Q 033061 5 AVNPKAYPLADSNLTITILDLVQQAANYKQ--LKKG----------ANEATKTLNRGISEFIVMAADTEPLEILLHLPLL 72 (128)
Q Consensus 5 ~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~--lv~G----------~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~l 72 (128)
.-....-|..+++=.+.++..+........ +++| +.+.++.+++..+++++ |+|...+...+..
T Consensus 102 Tein~~Gp~is~~~~~~~l~~~~~~l~~~d~VvlsGSlP~g~~~d~y~~li~~~~~~g~~vil---D~Sg~~L~~~L~~- 177 (310)
T COG1105 102 TEINFPGPEISEAELEQFLEQLKALLESDDIVVLSGSLPPGVPPDAYAELIRILRQQGAKVIL---DTSGEALLAALEA- 177 (310)
T ss_pred EEecCCCCCCCHHHHHHHHHHHHHhcccCCEEEEeCCCCCCCCHHHHHHHHHHHHhcCCeEEE---ECChHHHHHHHcc-
Confidence 334455666666666667777766444443 4456 56777777776565554 7766534333332
Q ss_pred HHhCCCCEEEeCCHHHHhHHhCCCCc
Q 033061 73 AEDKNVPYVFVPSKQALGRACGVTRP 98 (128)
Q Consensus 73 c~~~~IP~~~~~sk~eLG~a~G~~~~ 98 (128)
. |...-++.+||..++|.+..
T Consensus 178 ---~--P~lIKPN~~EL~~~~g~~~~ 198 (310)
T COG1105 178 ---K--PWLIKPNREELEALFGRELT 198 (310)
T ss_pred ---C--CcEEecCHHHHHHHhCCCCC
Confidence 2 99999999999999998855
No 85
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=66.19 E-value=45 Score=27.40 Aligned_cols=73 Identities=12% Similarity=0.140 Sum_probs=52.8
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHhhh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~~~ 126 (128)
++-++|+=.+.... -..++..+|++++.|-+.+++.+||....=.... .++|+- ++|.-..+++++...+..+
T Consensus 212 ~~Dl~iVVG~~nSS-Ns~rL~eiA~~~g~~aylId~~~ei~~~w~~~~~--~VGvTA-GAStPd~lV~~Vi~~l~~~ 284 (294)
T COG0761 212 EVDLVIVVGSKNSS-NSNRLAEIAKRHGKPAYLIDDAEEIDPEWLKGVK--TVGVTA-GASTPDWLVQEVIAKLREL 284 (294)
T ss_pred cCCEEEEECCCCCc-cHHHHHHHHHHhCCCeEEeCChHhCCHHHhcCcc--EEEEec-CCCCCHHHHHHHHHHHHHh
Confidence 47676666666554 3689999999999999999999999876544433 467765 4566667777777766543
No 86
>PRK07920 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=66.02 E-value=19 Score=28.61 Aligned_cols=77 Identities=13% Similarity=0.045 Sum_probs=49.0
Q ss_pred CCCccccCCCChhHHHHHHHHHHHHHHcCCcc-------ccHHHHHHHHHcCceeEEEEecCCChh-------------h
Q 033061 5 AVNPKAYPLADSNLTITILDLVQQAANYKQLK-------KGANEATKTLNRGISEFIVMAADTEPL-------------E 64 (128)
Q Consensus 5 ~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv-------~G~~~v~kai~~~kakLVilA~D~~p~-------------~ 64 (128)
-+..+++|+.+..+.+.+.+ .+. +...+++ .|.+++.+++++|+ .|.+..|-++. .
T Consensus 133 ~~~~vyr~~~n~~~~~~~~~-~R~-~~g~~~i~~~~~~~~~~r~ii~~Lk~g~--~v~il~Dq~~~~~g~~v~FFG~~a~ 208 (298)
T PRK07920 133 PFTTVAERLKPESLYERFVA-YRE-SLGFEVLPLTGGERPPFEVLAERLRAGG--VVCLLADRDLTRSGVEVDFFGERTR 208 (298)
T ss_pred CeEEEEeccCCHHHHHHHHH-HHH-hcCCEEEecCCCCchHHHHHHHHHHcCC--eEEEEeccCccCCCCEEeeCCCCCC
Confidence 34557889988888876554 221 1122344 27889999999997 56666665532 1
Q ss_pred HHhhHHHHHHhCCCCEEEeCC
Q 033061 65 ILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..-...++.+.+.|++.+..
T Consensus 209 t~~g~a~LA~~~~apVvp~~~ 229 (298)
T PRK07920 209 MPAGPAALALETGAALLPVHL 229 (298)
T ss_pred CCCCHHHHHHHHCCcEEEEEE
Confidence 233345788888999876653
No 87
>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=65.49 E-value=42 Score=23.10 Aligned_cols=49 Identities=16% Similarity=0.300 Sum_probs=34.8
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC-CHHHHhHHhCCC
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP-SKQALGRACGVT 96 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~ 96 (128)
.+..+.+.+.+|.+..|.++. +..+++++++++.... ...++.+++|..
T Consensus 55 ~~~~~~~~v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 104 (146)
T PF08534_consen 55 QEKYKDKGVDVVGVSSDDDPP-----VREFLKKYGINFPVLSDPDGALAKALGVT 104 (146)
T ss_dssp HHHHHTTTCEEEEEEESSSHH-----HHHHHHHTTTTSEEEEETTSHHHHHTTCE
T ss_pred hhhhccCceEEEEecccCCHH-----HHHHHHhhCCCceEEechHHHHHHHhCCc
Confidence 333455668999999888775 4555566777765544 567999999976
No 88
>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=65.14 E-value=32 Score=27.44 Aligned_cols=77 Identities=16% Similarity=0.034 Sum_probs=48.2
Q ss_pred CCCccccCCCChhHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCceeEEEEecCCChh--------------hHHh
Q 033061 5 AVNPKAYPLADSNLTITILDLVQQAANYKQLK---KGANEATKTLNRGISEFIVMAADTEPL--------------EILL 67 (128)
Q Consensus 5 ~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv---~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~~ 67 (128)
-+..+++|+.+..++. +++-.+... ...++ .|.+++++++++|. .|.+..|-++. .+..
T Consensus 147 ~~~~v~r~~~n~~~d~-~~~~~R~~~-g~~~i~~~~~~r~i~~aLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~ 222 (305)
T TIGR02208 147 PMVTMFNNHKNPLFDW-LWNRVRSRF-GGHVYAREAGIKALLASLKRGE--SGYYLPDEDHGPEQSVFVPFFATYKATLP 222 (305)
T ss_pred CceEEeeCCCCHHHHH-HHHHHHhcC-CCceecChhhHHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeccCCCcchhHH
Confidence 3455789998877743 333222211 11333 48899999999986 56777676531 1223
Q ss_pred hHHHHHHhCCCCEEEeCC
Q 033061 68 HLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 68 ~l~~lc~~~~IP~~~~~s 85 (128)
-...++.+.|.|++.+..
T Consensus 223 ~~a~LA~~~~apvv~~~~ 240 (305)
T TIGR02208 223 VVGRLAKAGNAQVVPVFP 240 (305)
T ss_pred HHHHHHHhcCCeEEEEEE
Confidence 344688999999886653
No 89
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=64.93 E-value=8.6 Score=25.81 Aligned_cols=33 Identities=15% Similarity=0.183 Sum_probs=24.8
Q ss_pred eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 51 SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 51 akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.|||.|.|- +. +-..+-..|+++++|+..+.+
T Consensus 61 ~~lV~~at~d-~~-~n~~i~~~a~~~~i~vn~~D~ 93 (103)
T PF13241_consen 61 ADLVFAATDD-PE-LNEAIYADARARGILVNVVDD 93 (103)
T ss_dssp ESEEEE-SS--HH-HHHHHHHHHHHTTSEEEETT-
T ss_pred heEEEecCCC-HH-HHHHHHHHHhhCCEEEEECCC
Confidence 7788888876 44 678899999999999877654
No 90
>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=64.77 E-value=7.4 Score=27.34 Aligned_cols=83 Identities=16% Similarity=0.238 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHcCC--ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCC
Q 033061 20 ITILDLVQQAANYKQ--LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTR 97 (128)
Q Consensus 20 ~~i~~lL~~a~~ag~--lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~ 97 (128)
++|..+-+-.+-+=+ |+.-.+-...+|+.|---+=|.+.|.+|. --.+.++|++++||+-.++... .-+.+--++
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 QRIIDVTKHSRSNIKTTLIEDPEPLTHSIRAGVEFIEVYGSDGSPV--PPELLAACRQRGIPVRLVDSAV-VNQLFKGER 92 (115)
T ss_dssp HHHHHHHCTSTTTTTEEEEESHHHHHHHHCTT-EEEEEEEETTS-----CCCCHHHHCTT--EEEE-HHH-HCCCS-SSS
T ss_pred HHHHhhcccchhhheeeeecCchHHHHHHhcCcEEEEEeeecCCCC--ChHHHHHHHhcCCceEEecHHH-HHHHHhccc
Confidence 456666555444333 77888999999999977788999999986 5888999999999998776432 222333334
Q ss_pred ceEEEEEe
Q 033061 98 PVIACSVT 105 (128)
Q Consensus 98 ~~~~v~i~ 105 (128)
+.-+.+|.
T Consensus 93 K~k~fGiA 100 (115)
T PF04705_consen 93 KPKVFGIA 100 (115)
T ss_dssp --SEEEEE
T ss_pred ccceeeee
Confidence 43344543
No 91
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD. This protein, MauD, appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulfide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulfide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded.
Probab=64.61 E-value=55 Score=24.20 Aligned_cols=71 Identities=8% Similarity=0.143 Sum_probs=38.4
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCc----------hHHHHHHHHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEA----------SQLKTQIQQL 119 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~----------~~~~~li~~i 119 (128)
...++++..| ++. ....+.++++++...+....++++..|...--....|..++. +.+.++++++
T Consensus 104 ~~~vv~Is~~-~~~----~~~~~~~~~~~~~~~~~~~~~i~~~y~v~~~P~~~lID~~G~I~~~g~~~~~~~le~ll~~l 178 (189)
T TIGR02661 104 ETDVVMISDG-TPA----EHRRFLKDHELGGERYVVSAEIGMAFQVGKIPYGVLLDQDGKIRAKGLTNTREHLESLLEAD 178 (189)
T ss_pred CCcEEEEeCC-CHH----HHHHHHHhcCCCcceeechhHHHHhccCCccceEEEECCCCeEEEccCCCCHHHHHHHHHHH
Confidence 4667777644 333 335666777775432224568998888764322333332221 3555556666
Q ss_pred HHHHhh
Q 033061 120 KDAIEK 125 (128)
Q Consensus 120 ~~~~~~ 125 (128)
++.+.+
T Consensus 179 ~~~~~~ 184 (189)
T TIGR02661 179 REGFAS 184 (189)
T ss_pred HcCcch
Confidence 555544
No 92
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=64.55 E-value=26 Score=29.45 Aligned_cols=60 Identities=17% Similarity=0.106 Sum_probs=42.4
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCC
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNE 108 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~ 108 (128)
|..+..++..|.....-.+.+..+++..++|+..+.+..+|..++..-...-.+.|+..+
T Consensus 166 G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~DlVLIDTaG 225 (374)
T PRK14722 166 GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKHMVLIDTIG 225 (374)
T ss_pred CCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCCEEEEcCCC
Confidence 445777888888533356888999999999999888877777766543333345666554
No 93
>PRK08943 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated
Probab=64.49 E-value=36 Score=27.31 Aligned_cols=79 Identities=13% Similarity=0.090 Sum_probs=49.3
Q ss_pred CCCCCccccCCCChhHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCceeEEEEecCCChh--------------hH
Q 033061 3 GEAVNPKAYPLADSNLTITILDLVQQAANYKQLK---KGANEATKTLNRGISEFIVMAADTEPL--------------EI 65 (128)
Q Consensus 3 ~~~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv---~G~~~v~kai~~~kakLVilA~D~~p~--------------~~ 65 (128)
|.-+..+++|+-+..++ +++.-.+.... .+++ .|.+++++++++|. .|.+..|-++. .+
T Consensus 154 ~~~~~~vyr~~~n~~~d-~~~~~~R~~~g-~~~i~~~~~~r~i~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t 229 (314)
T PRK08943 154 GQPMAAMFHNQRNPLFD-WLWNRVRRRFG-GRLHAREDGIKPFISSVRQGY--WGYYLPDEDHGPEHSVFVDFFATYKAT 229 (314)
T ss_pred CCCccEEEeCCCCHHHH-HHHHHHHhhcC-CeeecCchhHHHHHHHHhCCC--eEEEeCCCCCCCCCCEEeCCCCCchhH
Confidence 33456689999887774 34433332221 1333 36889999999886 66667666541 12
Q ss_pred HhhHHHHHHhCCCCEEEeCC
Q 033061 66 LLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~~s 85 (128)
..-...++.+.|.|++.+..
T Consensus 230 ~~g~a~LA~k~~apvvp~~~ 249 (314)
T PRK08943 230 LPGIGRLAKVCRARVVPLFP 249 (314)
T ss_pred hHHHHHHHHHhCCeEEEEEE
Confidence 33344788899999876664
No 94
>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=63.85 E-value=35 Score=22.50 Aligned_cols=53 Identities=19% Similarity=0.318 Sum_probs=37.7
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC-CHHHHhHHhCCC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP-SKQALGRACGVT 96 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~ 96 (128)
.++..+.+++..+.++.+..|... .+..+.+++++|+-.+. ...++.+..|..
T Consensus 48 l~~~~~~~~~~~~~vi~is~d~~~-----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 101 (124)
T PF00578_consen 48 LNELYKKYKDKGVQVIGISTDDPE-----EIKQFLEEYGLPFPVLSDPDGELAKAFGIE 101 (124)
T ss_dssp HHHHHHHHHTTTEEEEEEESSSHH-----HHHHHHHHHTCSSEEEEETTSHHHHHTTCE
T ss_pred HHHHhhhhccceEEeeeccccccc-----chhhhhhhhccccccccCcchHHHHHcCCc
Confidence 445556667778999999997644 34666677777765444 457999999887
No 95
>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=63.65 E-value=15 Score=27.12 Aligned_cols=60 Identities=18% Similarity=0.194 Sum_probs=47.5
Q ss_pred ccHHHHHHHHHcCceeEEEEecCC------ChhhHHhhHHHHHHhCCCCEE-EeCCHHHHhHHhCCCCc
Q 033061 37 KGANEATKTLNRGISEFIVMAADT------EPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRP 98 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~------~p~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~ 98 (128)
-|..|.-..|..|++.+||.-.|- +|. .+-+..+|.-||||+- ...|.+-|=....+++.
T Consensus 60 GGDqQIga~Ia~g~id~vIFf~DPl~~~phepD--i~aLlRlc~v~nIP~AtN~aTA~~li~~~~~~~~ 126 (143)
T TIGR00160 60 GGDQQIGALIAEGKIDAVIFFWDPLNAQPHEPD--VKALLRLCTVWNIPLATNVATADFLIKSPHFNDA 126 (143)
T ss_pred cHHHHHHHHHHhCCCCEEEEecCCCCCCCCCcC--HHHHHHHHHhhCcccccCHHHHHHHHhCcccccc
Confidence 678899999999999999999994 243 5788999999999984 46677777666655544
No 96
>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=63.13 E-value=30 Score=27.58 Aligned_cols=73 Identities=16% Similarity=0.110 Sum_probs=55.6
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC-CEEEeCCHHHHhHHhCCCCceEEEEEecCCc
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV-PYVFVPSKQALGRACGVTRPVIACSVTSNEA 109 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I-P~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~ 109 (128)
.++.-.-|+..+-.-|---+++++.=-++. ....+..+|+..|. |++.+.|.+||-+++ ..++.+++|.+.+=
T Consensus 116 DFIid~~QI~eA~~~GADaVLLI~~~L~~~-~l~~l~~~a~~lGle~lVEVh~~~El~~al--~~~a~iiGINnRdL 189 (254)
T PF00218_consen 116 DFIIDPYQIYEARAAGADAVLLIAAILSDD-QLEELLELAHSLGLEALVEVHNEEELERAL--EAGADIIGINNRDL 189 (254)
T ss_dssp S---SHHHHHHHHHTT-SEEEEEGGGSGHH-HHHHHHHHHHHTT-EEEEEESSHHHHHHHH--HTT-SEEEEESBCT
T ss_pred cCCCCHHHHHHHHHcCCCEeehhHHhCCHH-HHHHHHHHHHHcCCCeEEEECCHHHHHHHH--HcCCCEEEEeCccc
Confidence 577888899999999987888888888786 67999999999999 568899999999997 44455788886553
No 97
>PLN02591 tryptophan synthase
Probab=62.90 E-value=64 Score=25.57 Aligned_cols=114 Identities=18% Similarity=0.285 Sum_probs=70.8
Q ss_pred CccccCCCChhHH--------------HHHHHHHHHHHHcCC------------ccccHHHHHHHHHcCceeEEEEecCC
Q 033061 7 NPKAYPLADSNLT--------------ITILDLVQQAANYKQ------------LKKGANEATKTLNRGISEFIVMAADT 60 (128)
Q Consensus 7 ~p~~~P~~~~~~~--------------~~i~~lL~~a~~ag~------------lv~G~~~v~kai~~~kakLVilA~D~ 60 (128)
-||+.|+++-.+= ++++++++..++.-+ +..|.+.-.+..++--+.=||+. |.
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 4899999883321 256777777664322 12488887777777656555555 77
Q ss_pred ChhhHHhhHHHHHHhCCCCEEE-e-CCH--HHHhHHhCCCCceE----EEEEe---cCCchHHHHHHHHHHHH
Q 033061 61 EPLEILLHLPLLAEDKNVPYVF-V-PSK--QALGRACGVTRPVI----ACSVT---SNEASQLKTQIQQLKDA 122 (128)
Q Consensus 61 ~p~~~~~~l~~lc~~~~IP~~~-~-~sk--~eLG~a~G~~~~~~----~v~i~---~~~~~~~~~li~~i~~~ 122 (128)
.+. -...+...|+++++..++ + ++. +.+-++......-. ..+++ .....++.+.++.+|+.
T Consensus 116 P~e-e~~~~~~~~~~~gl~~I~lv~Ptt~~~ri~~ia~~~~gFIY~Vs~~GvTG~~~~~~~~~~~~i~~vk~~ 187 (250)
T PLN02591 116 PLE-ETEALRAEAAKNGIELVLLTTPTTPTERMKAIAEASEGFVYLVSSTGVTGARASVSGRVESLLQELKEV 187 (250)
T ss_pred CHH-HHHHHHHHHHHcCCeEEEEeCCCCCHHHHHHHHHhCCCcEEEeeCCCCcCCCcCCchhHHHHHHHHHhc
Confidence 665 578999999999998654 3 333 44676666654321 11222 12246677777777763
No 98
>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=62.87 E-value=28 Score=26.80 Aligned_cols=64 Identities=17% Similarity=0.153 Sum_probs=37.0
Q ss_pred CChhhHHhhHHHHHHhCCCCEEEeC--CHHHHhHHhCCCCceEEEEEecCC------chHHHHHHHHHHHHHhh
Q 033061 60 TEPLEILLHLPLLAEDKNVPYVFVP--SKQALGRACGVTRPVIACSVTSNE------ASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 60 ~~p~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~a~G~~~~~~~v~i~~~~------~~~~~~li~~i~~~~~~ 125 (128)
.++. -...+....++++|++++.. ....+.+.+.+..++.+ ..+++. ..+|.+.++..-.++..
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-VYLDPLGGGIPDGDSYLDMMEQNLDTLAE 254 (256)
T ss_dssp S-HH-HHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EE-EESSTTCSTTSSTTSHHHHHHHHHHHHHH
T ss_pred CCHH-HHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcE-EEeCCCcCCCCCcCCHHHHHHHHHHHHHH
Confidence 3455 46777888899999988864 34455555544444433 334443 45777777776666544
No 99
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=62.77 E-value=10 Score=25.34 Aligned_cols=49 Identities=16% Similarity=0.099 Sum_probs=37.5
Q ss_pred cccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 36 KKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..-..|.+.-+..+.++.++..|.+-. +...+..+.++++|..+-|..
T Consensus 39 ~f~w~D~~~~~~~~~~~~~ii~ND~e~~-i~~~~~~a~~~y~I~~i~wS~ 87 (88)
T PF08862_consen 39 IFAWEDTKKRNRKSNSKFYIILNDSEKP-ISEDIINALEQYNIKPIPWSK 87 (88)
T ss_pred HHHHhhhhhhccCCCceEEEEECCCCCc-cCHHHHHHHHHCCCceecCCc
Confidence 3443444455556778999999999765 789999999999999887764
No 100
>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=62.71 E-value=18 Score=28.28 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=31.3
Q ss_pred HHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 44 KTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 44 kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+-..+..+||.|-|..+ .+..+..+|.+++||++..++
T Consensus 96 ~~l~~~~~D~VvdaiD~~~--~k~~L~~~c~~~~ip~I~s~g 135 (231)
T cd00755 96 EDLLGGDPDFVVDAIDSIR--AKVALIAYCRKRKIPVISSMG 135 (231)
T ss_pred HHHhcCCCCEEEEcCCCHH--HHHHHHHHHHHhCCCEEEEeC
Confidence 3344456889999999754 478899999999999998743
No 101
>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=62.51 E-value=29 Score=20.39 Aligned_cols=43 Identities=21% Similarity=0.222 Sum_probs=26.9
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.+.+++..+.+-++==|.++. ..+.+..+.....+|.++++.
T Consensus 15 ~~~~L~~~~i~y~~~dv~~~~~-~~~~l~~~~g~~~~P~v~i~g 57 (60)
T PF00462_consen 15 AKEFLDEKGIPYEEVDVDEDEE-AREELKELSGVRTVPQVFIDG 57 (60)
T ss_dssp HHHHHHHTTBEEEEEEGGGSHH-HHHHHHHHHSSSSSSEEEETT
T ss_pred HHHHHHHcCCeeeEcccccchh-HHHHHHHHcCCCccCEEEECC
Confidence 4455555666666655555554 667777666667777777654
No 102
>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=62.46 E-value=12 Score=28.22 Aligned_cols=39 Identities=13% Similarity=0.133 Sum_probs=30.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+..+||.+.|- .. ....+.++|.+++||++..++..-.|
T Consensus 110 ~~dvVi~~~~~-~~-~~~~ln~~c~~~~ip~i~~~~~G~~G 148 (197)
T cd01492 110 QFDVVVATELS-RA-ELVKINELCRKLGVKFYATGVHGLFG 148 (197)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEecCCEE
Confidence 46788888774 54 78899999999999998887644333
No 103
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=62.31 E-value=69 Score=25.91 Aligned_cols=66 Identities=14% Similarity=0.127 Sum_probs=46.6
Q ss_pred EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH--HHHhHHhCCCCceEEEEEecCCchHHHHHHHHHH
Q 033061 53 FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK--QALGRACGVTRPVIACSVTSNEASQLKTQIQQLK 120 (128)
Q Consensus 53 LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk--~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~ 120 (128)
-+|+..=++|. +...+...|+.+|||++.+.+. ..|...+|.+..- ..+....-++++-+-++.|.
T Consensus 60 ~iV~~Tlv~~e-lr~~l~~~~~~~~i~~vdll~p~i~~le~~lg~~p~~-~pG~~~~ld~~Yf~RIeAie 127 (269)
T PRK05339 60 PIVFYTLVDPE-LREILEERCAEFGIPCIDILGPLIAPLEQELGLKPTP-EPGRTHGLDEEYFKRIEAIE 127 (269)
T ss_pred CEEEEeCCCHH-HHHHHHHHHHHcCCCEEeccHHHHHHHHHHHCcCCCC-CCCcccCCcHHHHHHHHHHH
Confidence 36777778886 9999999999999999887644 7999999998543 22333332355555566554
No 104
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=62.26 E-value=49 Score=26.32 Aligned_cols=76 Identities=9% Similarity=0.045 Sum_probs=57.9
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC-CEEEeCCHHHHhHHhCCCCceEEEEEecCCchHH
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV-PYVFVPSKQALGRACGVTRPVIACSVTSNEASQL 112 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I-P~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~ 112 (128)
.++.=..|+..+-.-|-=-+++++.--++. ....+...|+..|. |++.+.+.+||-+++-- .+.+++|.+.+=.+|
T Consensus 109 DFIid~~QI~ea~~~GADavLLI~~~L~~~-~l~~l~~~a~~lGle~LVEVh~~~El~~a~~~--ga~iiGINnRdL~t~ 185 (247)
T PRK13957 109 DFILDEIQIREARAFGASAILLIVRILTPS-QIKSFLKHASSLGMDVLVEVHTEDEAKLALDC--GAEIIGINTRDLDTF 185 (247)
T ss_pred cccCCHHHHHHHHHcCCCEEEeEHhhCCHH-HHHHHHHHHHHcCCceEEEECCHHHHHHHHhC--CCCEEEEeCCCCccc
Confidence 456667788888887766677788888776 57888999999999 56899999999999554 445688887654443
No 105
>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=62.24 E-value=84 Score=26.40 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=42.5
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC-CEEEeCCHHHHh
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV-PYVFVPSKQALG 90 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I-P~~~~~sk~eLG 90 (128)
.|..+..+.+++.++.-|++|-+....+...++...|++.++ ++..+++..++.
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 344677788888889888888775544467888899999999 888888877766
No 106
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=61.67 E-value=80 Score=25.05 Aligned_cols=114 Identities=18% Similarity=0.299 Sum_probs=71.7
Q ss_pred CccccCCCChhHH--------------HHHHHHHHHHHHcC---C----------ccccHHHHHHHHHcCceeEEEEecC
Q 033061 7 NPKAYPLADSNLT--------------ITILDLVQQAANYK---Q----------LKKGANEATKTLNRGISEFIVMAAD 59 (128)
Q Consensus 7 ~p~~~P~~~~~~~--------------~~i~~lL~~a~~ag---~----------lv~G~~~v~kai~~~kakLVilA~D 59 (128)
-|++.|+++-.+= +.++++++..+... . +..|.+...+..++--+.=|++ .|
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 4899998883322 24677777766221 1 1248887777777766655555 58
Q ss_pred CChhhHHhhHHHHHHhCCCCEEE-e-C-C-HHHHhHHhCCCCceE-EE---EEec---CCchHHHHHHHHHHHH
Q 033061 60 TEPLEILLHLPLLAEDKNVPYVF-V-P-S-KQALGRACGVTRPVI-AC---SVTS---NEASQLKTQIQQLKDA 122 (128)
Q Consensus 60 ~~p~~~~~~l~~lc~~~~IP~~~-~-~-s-k~eLG~a~G~~~~~~-~v---~i~~---~~~~~~~~li~~i~~~ 122 (128)
..+. -...+...|+++++..+. + + + .+++.........-. ++ +++. ....++.+.+..+++.
T Consensus 126 Lp~e-e~~~~~~~~~~~gl~~I~lvap~t~~eri~~i~~~s~gfIY~vs~~GvTG~~~~~~~~~~~~i~~vk~~ 198 (258)
T PRK13111 126 LPPE-EAEELRAAAKKHGLDLIFLVAPTTTDERLKKIASHASGFVYYVSRAGVTGARSADAADLAELVARLKAH 198 (258)
T ss_pred CCHH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEeCCCCCCcccCCCccHHHHHHHHHhc
Confidence 8775 678999999999998765 2 2 3 366777666665421 11 2221 2234667777777763
No 107
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=61.24 E-value=20 Score=30.55 Aligned_cols=52 Identities=12% Similarity=0.136 Sum_probs=42.3
Q ss_pred HcCCccccHHHHHHHHHcCceeEEEEecCCChh------hHHhhHHHHHHhCCCCEEE
Q 033061 31 NYKQLKKGANEATKTLNRGISEFIVMAADTEPL------EILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 31 ~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~------~~~~~l~~lc~~~~IP~~~ 82 (128)
..|+...-..+..+++..+++++.|+++=-.|- +-..++..+|++|||.++.
T Consensus 139 ~~~~y~iD~~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VIS 196 (388)
T COG1168 139 DDGRYEIDFDALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVIS 196 (388)
T ss_pred cCCcEEecHHHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEEe
Confidence 567777888999999999999999998765543 3457788999999998763
No 108
>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=60.77 E-value=49 Score=22.37 Aligned_cols=52 Identities=17% Similarity=0.182 Sum_probs=34.2
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe-CCHHHHhHHhCCCCc
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRP 98 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~ 98 (128)
..+.+..+.+.+|-|+.|.. ..+..+++++++++-.+ +...++++.+|....
T Consensus 49 ~~~~~~~~~~~vv~is~d~~-----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~~ 101 (140)
T cd03017 49 LYEEFKALGAVVIGVSPDSV-----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWGE 101 (140)
T ss_pred HHHHHHHCCCEEEEEcCCCH-----HHHHHHHHHhCCCceEEECCccHHHHHhCCccc
Confidence 33444555688888888742 33456677777776443 445789999998753
No 109
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=60.48 E-value=34 Score=23.69 Aligned_cols=45 Identities=20% Similarity=0.245 Sum_probs=34.9
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE-EEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY-VFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~-~~~~s 85 (128)
.++.+.+.++.+.++++.+|.-+. +.+.+...-+.+-.|. +.+++
T Consensus 36 ~~~~~~l~~~~~~iIiite~~a~~-i~~~i~~~~~~~~~P~iv~IPs 81 (104)
T COG1436 36 RAALRVLAEDDVGIILITEDLAEK-IREEIRRIIRSSVLPAIVEIPS 81 (104)
T ss_pred HHHHHhhccCCceEEEEeHHHHhh-hHHHHHHHhhccCccEEEEeCC
Confidence 567777888889999999988776 7777777776777785 45677
No 110
>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=60.47 E-value=13 Score=30.17 Aligned_cols=42 Identities=7% Similarity=0.152 Sum_probs=32.8
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRAC 93 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~ 93 (128)
+..+||.+.| +.. ...++.++|++++||++..++.--.|..+
T Consensus 105 ~fdvVV~~~~-~~~-~~~~in~~c~~~~ipfI~a~~~G~~G~vf 146 (286)
T cd01491 105 KFQVVVLTDA-SLE-DQLKINEFCHSPGIKFISADTRGLFGSIF 146 (286)
T ss_pred cCCEEEEecC-CHH-HHHHHHHHHHHcCCEEEEEeccccEEEEE
Confidence 3557777766 565 78899999999999999988876666654
No 111
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=60.07 E-value=92 Score=25.22 Aligned_cols=69 Identities=23% Similarity=0.259 Sum_probs=40.6
Q ss_pred HHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHh--CCCCceEEEEEecC--CchHHHHHHHHH
Q 033061 44 KTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRAC--GVTRPVIACSVTSN--EASQLKTQIQQL 119 (128)
Q Consensus 44 kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~--G~~~~~~~v~i~~~--~~~~~~~li~~i 119 (128)
+-++++ ++++|||-|+.. .--+..+=++++||++-+- --+-.|. .++.++.+++ +.. .+..+.+++.++
T Consensus 62 ~l~~~~-ik~lVIACNTAS---a~al~~LR~~~~iPVvGvi--Paik~A~~~t~~~~IgVia-T~~Tvks~~y~~~i~~~ 134 (269)
T COG0796 62 FLLERG-IKALVIACNTAS---AVALEDLREKFDIPVVGVI--PAIKPAVALTRNGRIGVIA-TPATVKSNAYRDLIARF 134 (269)
T ss_pred HHHHcC-CCEEEEecchHH---HHHHHHHHHhCCCCEEEec--cchHHHHHhccCCeEEEEe-ccchhccHHHHHHHHHh
Confidence 334445 999999999944 3556677788899997654 1233333 3444553333 221 135666666643
No 112
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=60.01 E-value=27 Score=27.60 Aligned_cols=47 Identities=15% Similarity=0.209 Sum_probs=40.0
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+...+.+++++..+||=|.---..++.+.....|++.||||+.+.
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 66788888899999999977776666678889999999999998765
No 113
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=59.85 E-value=22 Score=29.28 Aligned_cols=41 Identities=24% Similarity=0.271 Sum_probs=33.9
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+..+.+-+.+.-.+|++.+..+. ..+...|++++||+....
T Consensus 73 ~~~~~l~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ipll~t~ 113 (308)
T PRK05428 73 ERLKKLFSLEPPCIIVTRGLEPP---PELLEAAKEAGIPLLRTP 113 (308)
T ss_pred HHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHcCCcEEEeC
Confidence 45566677888999999999886 558899999999997754
No 114
>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=59.82 E-value=73 Score=24.71 Aligned_cols=113 Identities=16% Similarity=0.237 Sum_probs=64.4
Q ss_pred ccccCCCChhHHH--------------HHHHHHHHHHHcCC---cc---------ccHHHHHHHHHcCceeEEEEecCCC
Q 033061 8 PKAYPLADSNLTI--------------TILDLVQQAANYKQ---LK---------KGANEATKTLNRGISEFIVMAADTE 61 (128)
Q Consensus 8 p~~~P~~~~~~~~--------------~i~~lL~~a~~ag~---lv---------~G~~~v~kai~~~kakLVilA~D~~ 61 (128)
|+.+|+++-..-+ ..+++++..++.-+ .+ .|...-.+.+.+-.+.-+++ .|..
T Consensus 36 PfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giii-pDl~ 114 (242)
T cd04724 36 PFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKNTIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLII-PDLP 114 (242)
T ss_pred CCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcCCCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEE-CCCC
Confidence 9999999854443 56777777776432 22 24455555555544554444 4776
Q ss_pred hhhHHhhHHHHHHhCCCCEEE-e--CCH-HHHhHHhCCCCce-EEEEE---ecC---CchHHHHHHHHHHHH
Q 033061 62 PLEILLHLPLLAEDKNVPYVF-V--PSK-QALGRACGVTRPV-IACSV---TSN---EASQLKTQIQQLKDA 122 (128)
Q Consensus 62 p~~~~~~l~~lc~~~~IP~~~-~--~sk-~eLG~a~G~~~~~-~~v~i---~~~---~~~~~~~li~~i~~~ 122 (128)
+. -...+...|+++|+..+. + .|. +.+-.+......- -++.+ +-. ...+..+.++++++.
T Consensus 115 ~e-e~~~~~~~~~~~g~~~i~~i~P~T~~~~i~~i~~~~~~~vy~~s~~g~tG~~~~~~~~~~~~i~~lr~~ 185 (242)
T cd04724 115 PE-EAEEFREAAKEYGLDLIFLVAPTTPDERIKKIAELASGFIYYVSRTGVTGARTELPDDLKELIKRIRKY 185 (242)
T ss_pred HH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHhhCCCCEEEEeCCCCCCCccCCChhHHHHHHHHHhc
Confidence 64 568899999999996643 2 343 4555555423321 12221 111 124566667777653
No 115
>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=59.56 E-value=24 Score=24.49 Aligned_cols=39 Identities=15% Similarity=0.220 Sum_probs=29.0
Q ss_pred HcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 47 NRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 47 ~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
++|-+.|+|=-.+--+. +-+.+.++|+++++|++.++..
T Consensus 70 ~~~~agL~i~~~~~~~~-iP~~~i~~A~~~~lPli~ip~~ 108 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLDE-IPEEIIELADELGLPLIEIPWE 108 (123)
T ss_pred HCCCeEEEEeccCcccc-CCHHHHHHHHHcCCCEEEeCCC
Confidence 34567777755544454 7788999999999999988754
No 116
>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=59.41 E-value=14 Score=25.71 Aligned_cols=42 Identities=12% Similarity=0.194 Sum_probs=30.4
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
....+.+ ....+||.+.|. .. ....+..+|.++++|++..+.
T Consensus 84 ~~~~~~~--~~~d~vi~~~d~-~~-~~~~l~~~~~~~~~p~i~~~~ 125 (135)
T PF00899_consen 84 ENIEELL--KDYDIVIDCVDS-LA-ARLLLNEICREYGIPFIDAGV 125 (135)
T ss_dssp HHHHHHH--HTSSEEEEESSS-HH-HHHHHHHHHHHTT-EEEEEEE
T ss_pred ccccccc--cCCCEEEEecCC-HH-HHHHHHHHHHHcCCCEEEEEe
Confidence 3444444 356799999888 43 578899999999999988753
No 117
>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=59.01 E-value=21 Score=24.84 Aligned_cols=13 Identities=15% Similarity=0.227 Sum_probs=5.8
Q ss_pred CCCEEEeCCHHHH
Q 033061 77 NVPYVFVPSKQAL 89 (128)
Q Consensus 77 ~IP~~~~~sk~eL 89 (128)
+.|++.+.+|.+|
T Consensus 42 ~k~~iivlNK~DL 54 (141)
T cd01857 42 RKKNILLLNKADL 54 (141)
T ss_pred CCcEEEEEechhc
Confidence 4444444444443
No 118
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=58.94 E-value=30 Score=26.16 Aligned_cols=44 Identities=14% Similarity=0.153 Sum_probs=35.5
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
-+..-|+|-+--|+|+..+.-..+..+++..+.++.|+|++..+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa 70 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATA 70 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecc
Confidence 34466777778899999999833489999999999999987654
No 119
>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=58.00 E-value=54 Score=21.97 Aligned_cols=79 Identities=13% Similarity=0.127 Sum_probs=43.0
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCC---CCceEEEEEecCCchHHHHHHHH
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGV---TRPVIACSVTSNEASQLKTQIQQ 118 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~---~~~~~~v~i~~~~~~~~~~li~~ 118 (128)
+...+. .+.++++--|++..........+....++|++.+.+|.++...... ....-.+.+--....++.++.+.
T Consensus 74 ~~~~~~--~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~ 151 (157)
T cd04164 74 AREAIE--EADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPDSELLSLLAGKPIIAISAKTGEGLDELKEA 151 (157)
T ss_pred HHHHHh--hCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCccccccccCCCceEEEECCCCCCHHHHHHH
Confidence 334443 4555555556653223334444444788999999999888644321 00111223333334677777777
Q ss_pred HHHH
Q 033061 119 LKDA 122 (128)
Q Consensus 119 i~~~ 122 (128)
+...
T Consensus 152 l~~~ 155 (157)
T cd04164 152 LLEL 155 (157)
T ss_pred HHHh
Confidence 6654
No 120
>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=57.88 E-value=22 Score=27.33 Aligned_cols=50 Identities=22% Similarity=0.143 Sum_probs=29.9
Q ss_pred HHHHHHHHc--CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 40 NEATKTLNR--GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 40 ~~v~kai~~--~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
+.+..++.. -..-++++..|..+......+..++...++|++.+-+|-++
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 23445555554443334566677889999998877666554
No 121
>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=57.67 E-value=6.8 Score=27.27 Aligned_cols=45 Identities=22% Similarity=0.243 Sum_probs=34.5
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++.+.|++-+--++++...+.-....+.+..++++.++|++...
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEG
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecC
Confidence 577888888877788887777633468999999999999997765
No 122
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=57.60 E-value=24 Score=28.38 Aligned_cols=48 Identities=17% Similarity=0.222 Sum_probs=38.6
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
-|.+...+.|+..++.+||=|.---...+.+.....|++.||||+.+.
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 467888899999999999966665555567788899999999997543
No 123
>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=57.28 E-value=89 Score=24.38 Aligned_cols=72 Identities=11% Similarity=0.159 Sum_probs=44.6
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC--C-------HHHHhHHhCCCCceEEEEEecCCchH
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP--S-------KQALGRACGVTRPVIACSVTSNEASQ 111 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~--s-------k~eLG~a~G~~~~~~~v~i~~~~~~~ 111 (128)
--.+.|..=+.-|||.....++. ..+.+ ++.++|++++. + -+.||+++|++.++ +.--..
T Consensus 82 ~n~E~I~al~PDlIi~~~~~~~~-~~~~l----~~~gi~v~~~~~~~~~~~~~~i~~lg~~~G~~~~A------~~li~~ 150 (289)
T TIGR03659 82 PDMEKIKSLKPTVVLSVTTLEED-LGPKF----KQLGVEATFLNLTSVDGMKKSITELGEKYGREEQA------EKLVKE 150 (289)
T ss_pred CCHHHHhccCCcEEEEcCcccHH-HHHHH----HHcCCcEEEEcCCCHHHHHHHHHHHHHHhCCHHHH------HHHHHH
Confidence 44666778889999887655443 44444 45689987653 2 35799999988553 111235
Q ss_pred HHHHHHHHHHHH
Q 033061 112 LKTQIQQLKDAI 123 (128)
Q Consensus 112 ~~~li~~i~~~~ 123 (128)
|.+.+++++..+
T Consensus 151 ~~~~v~~i~~~~ 162 (289)
T TIGR03659 151 INEKEAEVKKKV 162 (289)
T ss_pred HHHHHHHHHHHh
Confidence 555555555544
No 124
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=56.96 E-value=26 Score=28.05 Aligned_cols=38 Identities=13% Similarity=0.081 Sum_probs=30.0
Q ss_pred HHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 45 TLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 45 ai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+-.++.-+||.|-|. .. .+..+..+|.+++||++..+
T Consensus 116 ~ll~~~~D~VIdaiD~-~~-~k~~L~~~c~~~~ip~I~~g 153 (268)
T PRK15116 116 EYMSAGFSYVIDAIDS-VR-PKAALIAYCRRNKIPLVTTG 153 (268)
T ss_pred HHhcCCCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEC
Confidence 3334568899999996 33 46789999999999999875
No 125
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=56.84 E-value=77 Score=26.93 Aligned_cols=61 Identities=16% Similarity=0.152 Sum_probs=42.9
Q ss_pred cCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCC
Q 033061 48 RGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNE 108 (128)
Q Consensus 48 ~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~ 108 (128)
++..+..++..|....-....+..+++..++|+....+..++..++..-...-.+.|+.++
T Consensus 249 ~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~DlVlIDt~G 309 (424)
T PRK05703 249 YGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCDVILIDTAG 309 (424)
T ss_pred cCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCCEEEEeCCC
Confidence 4556788888887543245678888999999998888888888877654443345555443
No 126
>cd06423 CESA_like CESA_like is the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, glucan biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis protein catalyzes the
Probab=56.79 E-value=42 Score=22.24 Aligned_cols=69 Identities=19% Similarity=0.053 Sum_probs=35.9
Q ss_pred HHHHHHHHcC---ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC-----CceEEEEEecCCc
Q 033061 40 NEATKTLNRG---ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT-----RPVIACSVTSNEA 109 (128)
Q Consensus 40 ~~v~kai~~~---kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~-----~~~~~v~i~~~~~ 109 (128)
.++++++.+. ...++|+..+.+.. +...+..+.......+++.......|..-+.+ .+.-.++++|.|.
T Consensus 13 ~~~l~sl~~q~~~~~~iivvdd~s~d~-t~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~n~~~~~~~~~~i~~~D~D~ 89 (180)
T cd06423 13 ERTIESLLALDYPKLEVIVVDDGSTDD-TLEILEELAALYIRRVLVVRDKENGGKAGALNAGLRHAKGDIVVVLDADT 89 (180)
T ss_pred HHHHHHHHhCCCCceEEEEEeCCCccc-hHHHHHHHhccccceEEEEEecccCCchHHHHHHHHhcCCCEEEEECCCC
Confidence 3455555554 45667666655554 77777777665433344443434444332222 1223456666664
No 127
>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=56.63 E-value=31 Score=27.23 Aligned_cols=47 Identities=13% Similarity=0.113 Sum_probs=39.7
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
|..+....++++.+.+||=|.---..++.+.....|++.||||+.+.
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 67788889999999999977766666677888999999999998765
No 128
>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=56.13 E-value=23 Score=22.71 Aligned_cols=34 Identities=21% Similarity=0.399 Sum_probs=21.5
Q ss_pred eeEEEEecCCChhhHH-----------------hhHHHHHHhCCCCEEEeC
Q 033061 51 SEFIVMAADTEPLEIL-----------------LHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 51 akLVilA~D~~p~~~~-----------------~~l~~lc~~~~IP~~~~~ 84 (128)
...|+++.+.+|.++. .|.--+|++++||++.--
T Consensus 10 ~~~IlV~~~~~p~~~~~~~~~~~Giv~~~Gg~~SH~aIlAr~~giP~ivg~ 60 (80)
T PF00391_consen 10 EGVILVAEELTPSDLALDLQRVAGIVTEEGGPTSHAAILARELGIPAIVGV 60 (80)
T ss_dssp STEEEEESS--TTCHHSHHTTSSEEEESSSSTTSHHHHHHHHTT-EEEEST
T ss_pred CCEEEEECCCCHHHHhcchhheEEEEEEcCCccchHHHHHHHcCCCEEEee
Confidence 4456666666665433 688889999999987644
No 129
>PRK11018 hypothetical protein; Provisional
Probab=55.96 E-value=32 Score=22.16 Aligned_cols=35 Identities=17% Similarity=0.280 Sum_probs=24.3
Q ss_pred HHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 46 LNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 46 i~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+..|+. |.|++.|... ...++.+|+++|-.+....
T Consensus 32 l~~G~~-L~V~~d~~~a---~~di~~~~~~~G~~v~~~~ 66 (78)
T PRK11018 32 LKKGEI-LEVVSDCPQS---INNIPLDARNHGYTVLDIQ 66 (78)
T ss_pred CCCCCE-EEEEeCCccH---HHHHHHHHHHcCCEEEEEE
Confidence 333433 6677777644 5899999999999886543
No 130
>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=54.95 E-value=38 Score=20.96 Aligned_cols=15 Identities=20% Similarity=0.268 Sum_probs=7.2
Q ss_pred hhHHHHHHhCCCCEE
Q 033061 67 LHLPLLAEDKNVPYV 81 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~ 81 (128)
.....+.++++|++.
T Consensus 13 ~~a~~~L~~~~i~~~ 27 (79)
T TIGR02181 13 TRAKALLSSKGVTFT 27 (79)
T ss_pred HHHHHHHHHcCCCcE
Confidence 344444455555553
No 131
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=54.82 E-value=13 Score=30.72 Aligned_cols=35 Identities=20% Similarity=0.096 Sum_probs=24.1
Q ss_pred EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 53 FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 53 LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
++.++.+++...+-.....+|.++|||+..++++-
T Consensus 224 FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~ 258 (320)
T KOG2486|consen 224 FLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKC 258 (320)
T ss_pred eeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehh
Confidence 34444444444345667899999999999988764
No 132
>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=54.82 E-value=17 Score=27.36 Aligned_cols=35 Identities=6% Similarity=-0.014 Sum_probs=28.9
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+..+||.|.|. +. ....+..+|.++++|++..+.-
T Consensus 111 ~~D~Vi~~~d~-~~-~r~~l~~~~~~~~ip~i~~~~~ 145 (202)
T TIGR02356 111 NVDLVLDCTDN-FA-TRYLINDACVALGTPLISAAVV 145 (202)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEec
Confidence 47799999887 43 6788999999999999987643
No 133
>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=54.68 E-value=68 Score=25.12 Aligned_cols=76 Identities=18% Similarity=0.160 Sum_probs=44.9
Q ss_pred CccccCCCChhHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCceeEEEEecCCChh--------------hHHhhH
Q 033061 7 NPKAYPLADSNLTITILDLVQQAANYKQLK---KGANEATKTLNRGISEFIVMAADTEPL--------------EILLHL 69 (128)
Q Consensus 7 ~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv---~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~~~l 69 (128)
.-++.|.-++.+++.+.+. +... ..+++ .|..++.+++++|+ +|.+..|-.+. .+-.-.
T Consensus 148 ~~i~~~~~n~~~~~~~~~~-R~~~-g~~~i~~~~~~~~~~~~Lk~g~--~v~~l~Dq~~~~~~~~~v~FfG~~a~~~~g~ 223 (295)
T PF03279_consen 148 AVIYRPQKNPYIDRLLNKL-RERF-GIELIPKGEGIRELIRALKEGG--IVGLLGDQDPGKKDGVFVPFFGRPASTPTGP 223 (295)
T ss_pred EEEecCCccHhHHHHHHHH-HHhc-CCeEecchhhHHHHHHHhccCC--EEEEEECCCCCCCCceEEeECCeecccccHH
Confidence 3455666555555443332 2111 12222 23578899998887 78888886532 123345
Q ss_pred HHHHHhCCCCEEEeCCH
Q 033061 70 PLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 70 ~~lc~~~~IP~~~~~sk 86 (128)
..++.+.++|++.+...
T Consensus 224 a~lA~~~~apvvp~~~~ 240 (295)
T PF03279_consen 224 ARLARKTGAPVVPVFAY 240 (295)
T ss_pred HHHHHHhCCcEEEEEEE
Confidence 67888999998877643
No 134
>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=54.50 E-value=33 Score=25.55 Aligned_cols=46 Identities=11% Similarity=0.119 Sum_probs=35.4
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
-+++.+.|++.+--++++..-+......+.+..+++..++|++...
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 3567777887777777777777532368999999999999998765
No 135
>TIGR00283 arch_pth2 peptidyl-tRNA hydrolase. This model describes an archaeal/eukaryotic form of peptidyl-tRNA hydrolase. Most bacterial forms are described by TIGR00447.
Probab=53.88 E-value=31 Score=24.19 Aligned_cols=43 Identities=19% Similarity=0.186 Sum_probs=33.4
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+.+..+.|+.|+|+-..|.+. ...+...++..|+|+..+.+
T Consensus 39 ~~~~~W~~~G~~KVvlk~~~~~e---l~~l~~~a~~~~l~~~~v~D 81 (115)
T TIGR00283 39 SLRRKWLDEGQKKVVLKVNSLEE---LLEIYHKAESLGLVTGLIRD 81 (115)
T ss_pred HHHHHHHHcCCCEEEEEeCCHHH---HHHHHHHHHHcCCCEEEEEc
Confidence 44567778899999998887643 47778899999999887753
No 136
>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=53.80 E-value=33 Score=29.69 Aligned_cols=47 Identities=4% Similarity=-0.086 Sum_probs=27.3
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
....+.+.+..+.+||++.+.+...+-.....++.++||-++..-++
T Consensus 263 ~~~v~~i~~~g~~lvi~~~~I~~~~l~~l~~~~l~~~~I~av~~v~~ 309 (517)
T TIGR02342 263 LNIVKKIKKTGCNVLLIQKSILRDAVNDLALHFLAKMKIMVVKDIER 309 (517)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHhhCCceEEecCCH
Confidence 44555566666788888877744322233455556677766665443
No 137
>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=53.80 E-value=49 Score=20.21 Aligned_cols=42 Identities=19% Similarity=0.230 Sum_probs=25.2
Q ss_pred EEEEecCCChhhHHhhHHHHHHhCCCCEEEeC--C----HHHHhHHhCCC
Q 033061 53 FIVMAADTEPLEILLHLPLLAEDKNVPYVFVP--S----KQALGRACGVT 96 (128)
Q Consensus 53 LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~--s----k~eLG~a~G~~ 96 (128)
+++...+.-|. -.+...+.++++|||.... . +.+|-+..|..
T Consensus 3 v~ly~~~~C~~--C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~~ 50 (73)
T cd03027 3 VTIYSRLGCED--CTAVRLFLREKGLPYVEINIDIFPERKAELEERTGSS 50 (73)
T ss_pred EEEEecCCChh--HHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCCC
Confidence 44444444453 5777778888888875542 2 23566666653
No 138
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=53.06 E-value=64 Score=25.62 Aligned_cols=48 Identities=19% Similarity=0.192 Sum_probs=32.9
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT 96 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~ 96 (128)
|..+..++..|.........+..+++..++|+....+..+|..++..-
T Consensus 223 g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~ 270 (282)
T TIGR03499 223 GNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRL 270 (282)
T ss_pred CCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHc
Confidence 445777777776433245666778888888887777777777776543
No 139
>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=53.01 E-value=21 Score=27.80 Aligned_cols=34 Identities=18% Similarity=0.108 Sum_probs=28.5
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+||-|.|. +. ++..+.++|.++++|++....
T Consensus 114 ~~DlVvd~~D~-~~-~r~~ln~~~~~~~ip~v~~~~ 147 (240)
T TIGR02355 114 EHDIVVDCTDN-VE-VRNQLNRQCFAAKVPLVSGAA 147 (240)
T ss_pred cCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEEe
Confidence 47899999998 44 688899999999999987543
No 140
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=52.98 E-value=18 Score=28.26 Aligned_cols=34 Identities=12% Similarity=0.018 Sum_probs=28.3
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
...+||.|.|. +. ....+.++|.++++|++..+.
T Consensus 122 ~~DiVi~~~D~-~~-~r~~ln~~~~~~~ip~v~~~~ 155 (245)
T PRK05690 122 GHDLVLDCTDN-VA-TRNQLNRACFAAKKPLVSGAA 155 (245)
T ss_pred cCCEEEecCCC-HH-HHHHHHHHHHHhCCEEEEeee
Confidence 47799999996 54 688899999999999988554
No 141
>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=52.58 E-value=19 Score=24.16 Aligned_cols=45 Identities=16% Similarity=0.251 Sum_probs=34.7
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+..++...+ ...-+|+++.+.... .+.+...++.+|||+..++.
T Consensus 39 ~~~~~~~~~~--~~~Dvill~pqi~~~--~~~i~~~~~~~~ipv~~I~~ 83 (95)
T TIGR00853 39 GSYGAAGEKL--DDADVVLLAPQVAYM--LPDLKKETDKKGIPVEVING 83 (95)
T ss_pred ecHHHHHhhc--CCCCEEEECchHHHH--HHHHHHHhhhcCCCEEEeCh
Confidence 4566655544 457899999999654 78999999999999987654
No 142
>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=52.37 E-value=14 Score=31.52 Aligned_cols=40 Identities=20% Similarity=0.265 Sum_probs=29.9
Q ss_pred eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHH
Q 033061 51 SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRA 92 (128)
Q Consensus 51 akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 92 (128)
..+||.+ +-++. ...++..+|.+++||++...+.--.|..
T Consensus 113 fdiVI~t-~~~~~-~~~~L~~~c~~~~iPlI~~~s~G~~G~v 152 (425)
T cd01493 113 FTVVIAT-NLPES-TLLRLADVLWSANIPLLYVRSYGLYGYI 152 (425)
T ss_pred CCEEEEC-CCCHH-HHHHHHHHHHHcCCCEEEEecccCEEEE
Confidence 4556554 44555 5677999999999999999987766654
No 143
>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=52.01 E-value=51 Score=20.45 Aligned_cols=40 Identities=13% Similarity=0.143 Sum_probs=27.0
Q ss_pred HHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 42 ATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 42 v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+++++-. -.|.|++.|... ...++.+|++.|-.+....
T Consensus 16 ~k~~l~~l~~G~~l~V~~dd~~s---~~di~~~~~~~g~~~~~~~ 57 (69)
T cd03423 16 LHKKVRKMKPGDTLLVLATDPST---TRDIPKFCTFLGHELLAQE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEeCCCch---HHHHHHHHHHcCCEEEEEE
Confidence 445555443 246777776643 5889999999999886543
No 144
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=51.96 E-value=70 Score=29.65 Aligned_cols=72 Identities=17% Similarity=0.159 Sum_probs=49.2
Q ss_pred cCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCC----chHHHHHHHHH
Q 033061 48 RGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNE----ASQLKTQIQQL 119 (128)
Q Consensus 48 ~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~----~~~~~~li~~i 119 (128)
+|+.+..+++.|....-..+.+..+++..+||+....+..++-.++..-...-.+.|+-.+ +.+..+.+..+
T Consensus 213 ~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~VLIDTAGRs~~d~~l~eel~~l 288 (767)
T PRK14723 213 EGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHLVLIDTVGMSQRDRNVSEQIAML 288 (767)
T ss_pred cCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCEEEEeCCCCCccCHHHHHHHHHH
Confidence 3445788999998754467889999999999998888888887777644333345565444 33444444443
No 145
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=51.87 E-value=88 Score=24.63 Aligned_cols=69 Identities=14% Similarity=0.113 Sum_probs=52.3
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCC-EEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP-~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
++.=..|+..+...|-=-+.+++.+-++. ....+...|+..|.. ++.+.+.+|+-++.-. ++-.+++..
T Consensus 119 fi~~~~qi~~a~~~GAD~VlLi~~~l~~~-~l~~li~~a~~lGl~~lvevh~~~E~~~A~~~--gadiIgin~ 188 (260)
T PRK00278 119 FIIDPYQIYEARAAGADAILLIVAALDDE-QLKELLDYAHSLGLDVLVEVHDEEELERALKL--GAPLIGINN 188 (260)
T ss_pred ecCCHHHHHHHHHcCCCEEEEEeccCCHH-HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHc--CCCEEEECC
Confidence 44555578888888877778888887765 789999999999986 5789999999888633 444677764
No 146
>COG1803 MgsA Methylglyoxal synthase [Carbohydrate transport and metabolism]
Probab=51.67 E-value=35 Score=24.99 Aligned_cols=61 Identities=18% Similarity=0.173 Sum_probs=49.8
Q ss_pred ccHHHHHHHHHcCceeEEEEecCC------ChhhHHhhHHHHHHhCCCCEE-EeCCHHHHhHHhCCCCce
Q 033061 37 KGANEATKTLNRGISEFIVMAADT------EPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRPV 99 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~------~p~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~ 99 (128)
-|..|+=..|..|++-++|.--|- +|. .+-+..+|.-+|||+- ...|.+-|=+..+.....
T Consensus 62 GGDQQiGa~Iaeg~id~lIFf~DPLtaqPHdpD--VkAL~Rl~~V~nIP~A~N~aTAe~li~~~~~~~~~ 129 (142)
T COG1803 62 GGDQQIGALIAEGKIDVLIFFWDPLTAQPHDPD--VKALLRLATVYNIPVATNRATAEFLIKSLLFNDFV 129 (142)
T ss_pred CccHHHHHHHhcCcceEEEEEecCCCCCCCCcC--HHHHHHHHHhhcccchhhHhHHHHHHhccccCCce
Confidence 578889899999999999998886 353 5778999999999984 577888888887776554
No 147
>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=51.66 E-value=1e+02 Score=23.18 Aligned_cols=75 Identities=11% Similarity=0.205 Sum_probs=47.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC----------HHHHhHHhCCCCceEEEEEecCCc
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS----------KQALGRACGVTRPVIACSVTSNEA 109 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s----------k~eLG~a~G~~~~~~~v~i~~~~~ 109 (128)
.--.+.|..=+.-|||......+. +.+..+.+..++|++.+.+ -..||+++|++..+. .+ -
T Consensus 64 ~~n~E~i~~l~PDLIi~~~~~~~~---~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~~~a~--~~----~ 134 (262)
T cd01147 64 TPNYEKIAALKPDVVIDVGSDDPT---SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKEERAE--EL----I 134 (262)
T ss_pred CCCHHHHHhcCCCEEEEecCCccc---hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCHHHHH--HH----H
Confidence 456777778889999886544331 2344455558899876653 357999999875531 11 1
Q ss_pred hHHHHHHHHHHHHH
Q 033061 110 SQLKTQIQQLKDAI 123 (128)
Q Consensus 110 ~~~~~li~~i~~~~ 123 (128)
.++.+.+++++..+
T Consensus 135 ~~~~~~~~~i~~~~ 148 (262)
T cd01147 135 SFIESILADVEERT 148 (262)
T ss_pred HHHHHHHHHHHHHh
Confidence 34556666666554
No 148
>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=51.60 E-value=36 Score=26.62 Aligned_cols=85 Identities=20% Similarity=0.104 Sum_probs=45.9
Q ss_pred ccccHHHHHHHHHc-CceeEEEE-ec--CCChhhHHhhHHHHHHhCCCCEEEeCC--HHHHhHHhCCCCceEEEEEecCC
Q 033061 35 LKKGANEATKTLNR-GISEFIVM-AA--DTEPLEILLHLPLLAEDKNVPYVFVPS--KQALGRACGVTRPVIACSVTSNE 108 (128)
Q Consensus 35 lv~G~~~v~kai~~-~kakLVil-A~--D~~p~~~~~~l~~lc~~~~IP~~~~~s--k~eLG~a~G~~~~~~~v~i~~~~ 108 (128)
++.... ....+.+ -..+.+-+ .. +.++. -...+..+.++++|+++++.+ ...+.+.+.+..++-+ ..+++.
T Consensus 173 ~v~~H~-af~Y~~~~ygl~~~~~~~~~~eps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v-~~ld~~ 249 (266)
T cd01018 173 FMVYHP-AWGYFARDYGLTQIPIEEEGKEPSPA-DLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKV-VTIDPL 249 (266)
T ss_pred EEEECc-hhHHHHHHcCCEEEecCCCCCCCCHH-HHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeE-EEeCCc
Confidence 555544 3444433 33343333 23 33455 568888899999999998752 2333334444333333 334555
Q ss_pred chHHHHHHHHHHHH
Q 033061 109 ASQLKTQIQQLKDA 122 (128)
Q Consensus 109 ~~~~~~li~~i~~~ 122 (128)
+.+|.+.++..-++
T Consensus 250 ~~~y~~~m~~n~~~ 263 (266)
T cd01018 250 AADWEENLLKVADA 263 (266)
T ss_pred HHHHHHHHHHHHHH
Confidence 56666666555444
No 149
>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=51.49 E-value=1e+02 Score=24.63 Aligned_cols=113 Identities=18% Similarity=0.233 Sum_probs=65.4
Q ss_pred CccccCCCChhHH--------------HHHHHHHHHHH-HcCC------------ccccHHHHHHHHHcCceeEEEEecC
Q 033061 7 NPKAYPLADSNLT--------------ITILDLVQQAA-NYKQ------------LKKGANEATKTLNRGISEFIVMAAD 59 (128)
Q Consensus 7 ~p~~~P~~~~~~~--------------~~i~~lL~~a~-~ag~------------lv~G~~~v~kai~~~kakLVilA~D 59 (128)
-|++.|+++-.+- +.++++++..+ +.-+ +..|.+.-.+..++-.+.=||+ .|
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 3889998883322 45677777777 3322 1257777777776644544444 57
Q ss_pred CChhhHHhhHHHHHHhCCCCEEEe--C--CHHHHhHHhCCCCceEEEEE-----e---cCCchHHHHHHHHHHHH
Q 033061 60 TEPLEILLHLPLLAEDKNVPYVFV--P--SKQALGRACGVTRPVIACSV-----T---SNEASQLKTQIQQLKDA 122 (128)
Q Consensus 60 ~~p~~~~~~l~~lc~~~~IP~~~~--~--sk~eLG~a~G~~~~~~~v~i-----~---~~~~~~~~~li~~i~~~ 122 (128)
..+. -...+...|+++|++.+.+ + +.+.+.+......+- +=.+ + .....++.+.++.+|..
T Consensus 124 LP~e-e~~~~~~~~~~~gl~~I~lv~p~t~~~Ri~~i~~~a~gF-iY~vs~~GvTG~~~~~~~~l~~~i~~ik~~ 196 (259)
T PF00290_consen 124 LPPE-ESEELREAAKKHGLDLIPLVAPTTPEERIKKIAKQASGF-IYLVSRMGVTGSRTELPDELKEFIKRIKKH 196 (259)
T ss_dssp SBGG-GHHHHHHHHHHTT-EEEEEEETTS-HHHHHHHHHH-SSE-EEEESSSSSSSTTSSCHHHHHHHHHHHHHT
T ss_pred CChH-HHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHHhCCcE-EEeeccCCCCCCcccchHHHHHHHHHHHhh
Confidence 8665 5788999999999987653 2 346667665554443 2222 2 11235677777777764
No 150
>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=51.48 E-value=73 Score=21.48 Aligned_cols=57 Identities=12% Similarity=-0.017 Sum_probs=32.6
Q ss_pred HHHHHHHcCceeEEEEecCC-ChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCCC
Q 033061 41 EATKTLNRGISEFIVMAADT-EPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTR 97 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~-~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~ 97 (128)
+..+..+...+.++.+..+- +..+....+..+.+++++++-. .+...++.+.+|...
T Consensus 47 ~l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~v~~ 105 (126)
T cd03012 47 DLEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVANDNDYATWRAYGNQY 105 (126)
T ss_pred HHHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhCCCc
Confidence 33333443446666665431 1111356677778888887643 345567888888653
No 151
>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=51.40 E-value=71 Score=24.94 Aligned_cols=12 Identities=17% Similarity=0.265 Sum_probs=6.5
Q ss_pred HHHHHhCCCCEE
Q 033061 70 PLLAEDKNVPYV 81 (128)
Q Consensus 70 ~~lc~~~~IP~~ 81 (128)
..+++.+|+...
T Consensus 181 ~Y~~~~ygl~~~ 192 (266)
T cd01018 181 GYFARDYGLTQI 192 (266)
T ss_pred HHHHHHcCCEEE
Confidence 455555666544
No 152
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=51.22 E-value=77 Score=24.54 Aligned_cols=55 Identities=20% Similarity=0.290 Sum_probs=42.0
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhh---HHhhHHHHHHhCCCCEEEeCCHHHHhHHhC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLE---ILLHLPLLAEDKNVPYVFVPSKQALGRACG 94 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~---~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G 94 (128)
.+.+.++++.|-.-+.+-..|.+..+ ...++..+|++|++|++ +.+.-+|-...|
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~li-INd~~dlA~~~~ 81 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVPLI-INDRVDLALAVG 81 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCeEE-ecCcHHHHHhCC
Confidence 68899999999778888888888753 34688999999999965 455556655444
No 153
>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]
Probab=51.09 E-value=47 Score=27.47 Aligned_cols=44 Identities=11% Similarity=-0.004 Sum_probs=36.1
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..+..++.+-.-+.-.+|++.+..+. ..+.+.|++++||+....
T Consensus 69 ~r~~~i~~~~~~~~P~iI~sk~~~~p---~~l~~~a~~~~~pil~s~ 112 (308)
T COG1493 69 ERKKRIGKLFSLDTPALIVSKGLPIP---EELLDAAKKYNIPILTSK 112 (308)
T ss_pred hHHHHHHHHhCcCCCEEEEECCCCCC---HHHHHHHHHcCCceEEec
Confidence 34556667777888999999999875 788999999999997754
No 154
>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=50.91 E-value=50 Score=20.57 Aligned_cols=40 Identities=10% Similarity=0.133 Sum_probs=26.8
Q ss_pred HHHHHHcCce--eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 42 ATKTLNRGIS--EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 42 v~kai~~~ka--kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+++++-.. .|.|++.|... ...++.+|+++|-.+....
T Consensus 16 ~kkal~~l~~G~~l~V~~d~~~s---~~ni~~~~~~~g~~v~~~~ 57 (69)
T cd03422 16 TLEALPSLKPGEILEVISDCPQS---INNIPIDARNHGYKVLAIE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEecCchH---HHHHHHHHHHcCCEEEEEE
Confidence 4555655442 35666766543 5889999999998886543
No 155
>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=50.21 E-value=1.2e+02 Score=23.79 Aligned_cols=114 Identities=21% Similarity=0.195 Sum_probs=65.2
Q ss_pred CccccCCCChhHH--------------HHHHHHHHHHHHcC-C------------ccccHHHHHHHHHcCceeEEEEecC
Q 033061 7 NPKAYPLADSNLT--------------ITILDLVQQAANYK-Q------------LKKGANEATKTLNRGISEFIVMAAD 59 (128)
Q Consensus 7 ~p~~~P~~~~~~~--------------~~i~~lL~~a~~ag-~------------lv~G~~~v~kai~~~kakLVilA~D 59 (128)
-|++.|+++-.+= ++++++++..++.. + +..|.+.-.+...+--+.-|++- |
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 4899999884332 46677777766542 1 12365665555555445444443 6
Q ss_pred CChhhHHhhHHHHHHhCCCCEEE---eCC-HHHHhHHhCCCCc-eEEEEE---ec---CCchHHHHHHHHHHHH
Q 033061 60 TEPLEILLHLPLLAEDKNVPYVF---VPS-KQALGRACGVTRP-VIACSV---TS---NEASQLKTQIQQLKDA 122 (128)
Q Consensus 60 ~~p~~~~~~l~~lc~~~~IP~~~---~~s-k~eLG~a~G~~~~-~~~v~i---~~---~~~~~~~~li~~i~~~ 122 (128)
-... ....+...|+++|+..+. ..| .+++...+..... +-++.+ +- ....+..+.++++++.
T Consensus 124 lp~e-e~~~~~~~~~~~gl~~i~lv~P~T~~eri~~i~~~~~gfiy~vs~~G~TG~~~~~~~~~~~~i~~lr~~ 196 (256)
T TIGR00262 124 LPLE-ESGDLVEAAKKHGVKPIFLVAPNADDERLKQIAEKSQGFVYLVSRAGVTGARNRAASALNELVKRLKAY 196 (256)
T ss_pred CChH-HHHHHHHHHHHCCCcEEEEECCCCCHHHHHHHHHhCCCCEEEEECCCCCCCcccCChhHHHHHHHHHhh
Confidence 6554 578899999999987543 334 3566666555542 222222 11 1224567777777764
No 156
>PRK08328 hypothetical protein; Provisional
Probab=49.99 E-value=25 Score=27.11 Aligned_cols=35 Identities=23% Similarity=0.119 Sum_probs=28.9
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
...+||-|.|. +. +...+.++|.++++|++..+.-
T Consensus 118 ~~D~Vid~~d~-~~-~r~~l~~~~~~~~ip~i~g~~~ 152 (231)
T PRK08328 118 GVDVIVDCLDN-FE-TRYLLDDYAHKKGIPLVHGAVE 152 (231)
T ss_pred cCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEeec
Confidence 46899999998 54 6788899999999999886553
No 157
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=49.74 E-value=44 Score=25.14 Aligned_cols=46 Identities=15% Similarity=0.156 Sum_probs=34.5
Q ss_pred HHHHHHHHcCceeEEEEecCCCh-hhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEP-LEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p-~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.+.+.|++-+--++++...+.. .+..+.+..++++.++|++....
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 55667777776677777776654 34688999999999999987654
No 158
>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=49.70 E-value=43 Score=28.82 Aligned_cols=46 Identities=4% Similarity=-0.098 Sum_probs=24.5
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
....+.+.+..+.+||++.|.++.-+-.....++.++||-++..-+
T Consensus 262 ~~~v~~i~~~g~~lvi~~~~i~~~~v~~l~~~~l~~~~I~av~~~~ 307 (515)
T cd03338 262 LNMCKKIKKSGCNVLLIQKSILRDAVSDLALHFLAKLKIMVVKDIE 307 (515)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHHHCCceEEecCC
Confidence 3344445555567888887764332223334444556666555444
No 159
>PRK10637 cysG siroheme synthase; Provisional
Probab=49.57 E-value=46 Score=28.35 Aligned_cols=63 Identities=14% Similarity=0.146 Sum_probs=39.0
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHh-C--CCCceEEEEEecCC-chHHHHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRAC-G--VTRPVIACSVTSNE-ASQLKTQ 115 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~-G--~~~~~~~v~i~~~~-~~~~~~l 115 (128)
.+.|||.|.|-.. +-..+-..|+..++++..+.+. +++... . .++.-..++|..++ +..+.+.
T Consensus 72 ~~~lv~~at~d~~--~n~~i~~~a~~~~~lvN~~d~~-~~~~f~~pa~~~~g~l~iaisT~G~sP~~a~~ 138 (457)
T PRK10637 72 TCWLAIAATDDDA--VNQRVSEAAEARRIFCNVVDAP-KAASFIMPSIIDRSPLMVAVSSGGTSPVLARL 138 (457)
T ss_pred CCEEEEECCCCHH--HhHHHHHHHHHcCcEEEECCCc-ccCeEEEeeEEecCCEEEEEECCCCCcHHHHH
Confidence 3678888877643 6799999999999997666654 333321 1 12333456675544 3444433
No 160
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=49.54 E-value=39 Score=26.78 Aligned_cols=47 Identities=19% Similarity=0.265 Sum_probs=38.2
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+..+..+.++..++.+||=|.=.-..++.+.....|++.+|||+.+.
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 44566678888889999988776666678888999999999998764
No 161
>TIGR00461 gcvP glycine dehydrogenase (decarboxylating). This apparently ubiquitous enzyme is found in bacterial, mammalian and plant sources. The enzyme catalyzes the reaction: GLYCINE + LIPOYLPROTEIN = S-AMINOMETHYL-DIHYDROLIPOYLPROTEIN + CO2. It is part of the glycine decarboxylase multienzyme complex (GDC) consisting of four proteins P, H, L and T. Active site in E.coli is located as the (K) residues at position 713 of the SEED alignment.
Probab=49.42 E-value=1.8e+02 Score=27.70 Aligned_cols=105 Identities=14% Similarity=0.156 Sum_probs=64.1
Q ss_pred ccCCCChhHHHHHHHHHHHHHH-cC------CccccHH----HHHHHH--HcCceeEEEEecCCChhhHHhhHHHHHHhC
Q 033061 10 AYPLADSNLTITILDLVQQAAN-YK------QLKKGAN----EATKTL--NRGISEFIVMAADTEPLEILLHLPLLAEDK 76 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~-ag------~lv~G~~----~v~kai--~~~kakLVilA~D~~p~~~~~~l~~lc~~~ 76 (128)
|.|..++-.-+.++++-.+... .| .+.-|.. .+..+. .+++..-|+++.++-|. +..-+...++..
T Consensus 99 yQ~EisQG~Le~l~e~Qt~i~eLtGm~~aNaSl~d~atA~aEa~~~a~~~~~~~~~~vlv~~~~hP~-~~~v~~t~a~~~ 177 (939)
T TIGR00461 99 YQPEISQGRLEALLNFQTVVSDLTGLPVANASLLDEGTAAAEAMALSFNVSKKKANKFFVAKDLHPQ-TKSVLHTRAKPF 177 (939)
T ss_pred CChhhhhHHHHHHHHHHHHHHHHHCCChhhhhccchhhHHHHHHHHHHHhhcCCCCEEEECCCCCcc-hHHHHHHHHHhc
Confidence 4456677666777776655443 33 2333433 344442 23444679999999998 889999999999
Q ss_pred CCCEEEeCCHHHHhHHhCCCCceEEEEEecCCc----hHHHHHHHHHH
Q 033061 77 NVPYVFVPSKQALGRACGVTRPVIACSVTSNEA----SQLKTQIQQLK 120 (128)
Q Consensus 77 ~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~----~~~~~li~~i~ 120 (128)
|+.++.++ .++|-..+ .++++.+..++. .++.++.+.++
T Consensus 178 g~~v~~~~-~~~l~~~~----~~~~v~~q~Pn~~G~ied~~~i~~~~h 220 (939)
T TIGR00461 178 GIEVIVVD-CSDIKKAV----DVFGCLLQYPATDGSILDYKQLIDALH 220 (939)
T ss_pred CcEEEEEc-HHHHhhcC----CEEEEEEECCCCCeEEecHHHHHHHHH
Confidence 99988874 45565554 344555544432 24444444443
No 162
>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=49.13 E-value=34 Score=26.40 Aligned_cols=66 Identities=18% Similarity=0.284 Sum_probs=46.0
Q ss_pred cCCcccc------HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCCCceEEEEE
Q 033061 32 YKQLKKG------ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTRPVIACSV 104 (128)
Q Consensus 32 ag~lv~G------~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~~v~i 104 (128)
.+.+..| .+++.++++.| ++++ ++|. +-..+...|+++++|++- +.|..|+-+| .+.++.++=+
T Consensus 57 ~~~~~vGAGTVl~~~~a~~a~~aG-A~Fi-----vsP~-~~~~v~~~~~~~~i~~iPG~~TptEi~~A--~~~Ga~~vKl 127 (204)
T TIGR01182 57 VPDALIGAGTVLNPEQLRQAVDAG-AQFI-----VSPG-LTPELAKHAQDHGIPIIPGVATPSEIMLA--LELGITALKL 127 (204)
T ss_pred CCCCEEEEEeCCCHHHHHHHHHcC-CCEE-----ECCC-CCHHHHHHHHHcCCcEECCCCCHHHHHHH--HHCCCCEEEE
Confidence 3456555 46777788777 7777 4666 667788999999999875 6788898888 4444433444
Q ss_pred ec
Q 033061 105 TS 106 (128)
Q Consensus 105 ~~ 106 (128)
..
T Consensus 128 FP 129 (204)
T TIGR01182 128 FP 129 (204)
T ss_pred CC
Confidence 43
No 163
>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=48.86 E-value=44 Score=22.68 Aligned_cols=45 Identities=24% Similarity=0.160 Sum_probs=27.6
Q ss_pred HHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 45 TLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 45 ai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.+....+..+++--|.+..+........+.+.++|++.+.+|.++
T Consensus 69 ~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl 113 (158)
T cd01879 69 FLLGEKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDE 113 (158)
T ss_pred HhcCCCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhh
Confidence 343245566666656654322233444556689999999999877
No 164
>PRK00865 glutamate racemase; Provisional
Probab=48.47 E-value=89 Score=24.48 Aligned_cols=41 Identities=27% Similarity=0.309 Sum_probs=28.0
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+..+.+.+..++++++|.++... . -+..+-+..++|++-+.
T Consensus 58 ~~~~~L~~~g~d~iVIaCNTa~~-~--~l~~lr~~~~iPvigi~ 98 (261)
T PRK00865 58 EIVEFLLEYGVKMLVIACNTASA-V--ALPDLRERYDIPVVGIV 98 (261)
T ss_pred HHHHHHHhCCCCEEEEeCchHHH-H--HHHHHHHhCCCCEEeeH
Confidence 44556666779999999998653 1 23444456789998743
No 165
>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=48.40 E-value=53 Score=24.37 Aligned_cols=73 Identities=15% Similarity=0.076 Sum_probs=40.7
Q ss_pred CCCChhHHHHHHHHHHHHHHc-CC-ccc---------cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 12 PLADSNLTITILDLVQQAANY-KQ-LKK---------GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 12 P~~~~~~~~~i~~lL~~a~~a-g~-lv~---------G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
|-++......+.+-+..+.+. |- +.. -..+.++.+...++.-+|+..--+.. + ..+...|..+|||+
T Consensus 6 ~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~-~-~~~l~~~~~~gIpv 83 (257)
T PF13407_consen 6 PSMDNPFWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDS-L-APFLEKAKAAGIPV 83 (257)
T ss_dssp SSSSSHHHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTT-T-HHHHHHHHHTTSEE
T ss_pred CCCCCHHHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHH-H-HHHHHHHhhcCceE
Confidence 445555666666655555443 32 111 12233333334457666655443333 3 35566789999999
Q ss_pred EEeCCH
Q 033061 81 VFVPSK 86 (128)
Q Consensus 81 ~~~~sk 86 (128)
+.+.+-
T Consensus 84 v~~d~~ 89 (257)
T PF13407_consen 84 VTVDSD 89 (257)
T ss_dssp EEESST
T ss_pred EEEecc
Confidence 998766
No 166
>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=48.40 E-value=10 Score=30.67 Aligned_cols=66 Identities=9% Similarity=0.027 Sum_probs=52.6
Q ss_pred HHHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 23 LDLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 23 ~~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.|++++++.+|+=.+|.++-.+.+-+..---||.-.|...- +..+.+.+.+.-+||++..+...++
T Consensus 103 tn~i~L~~G~G~~~~gl~~~E~~~I~~Hd~AV~~~Gn~~~~-I~~K~~~ll~~i~iPiVv~~~P~d~ 168 (268)
T PF04609_consen 103 TNMIGLARGSGGRIFGLTPKEIEQINEHDLAVFHLGNFKSC-IIYKKRHLLRGIDIPIVVCGGPVDF 168 (268)
T ss_pred cceEEEeccCCCCccCCCHHHHHHHhhcCEEEEEeCCHHHH-HHHHHHHHHhhcCCcEEEecCCccc
Confidence 47889999999999999998888776665566677777665 7888889999999998877766433
No 167
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=48.07 E-value=60 Score=20.97 Aligned_cols=38 Identities=11% Similarity=0.237 Sum_probs=25.5
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
.++.+..|+ .|.|++.|-. ....++.+|+++|-.+...
T Consensus 29 ~l~~l~~G~-~l~V~~dd~~---~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 29 TVRNMQPGE-TLLIIADDPA---TTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred HHHcCCCCC-EEEEEeCCcc---HHHHHHHHHHHcCCEEEEE
Confidence 333444443 4556777653 3589999999999998754
No 168
>PRK08419 lipid A biosynthesis lauroyl acyltransferase; Reviewed
Probab=48.01 E-value=87 Score=24.74 Aligned_cols=76 Identities=18% Similarity=0.140 Sum_probs=46.0
Q ss_pred CCCccccCCCChhHHHHHHHHHHHHHHcC-Ccc---ccHHHHHHHHHcCceeEEEEecCCChh--------------hHH
Q 033061 5 AVNPKAYPLADSNLTITILDLVQQAANYK-QLK---KGANEATKTLNRGISEFIVMAADTEPL--------------EIL 66 (128)
Q Consensus 5 ~~~p~~~P~~~~~~~~~i~~lL~~a~~ag-~lv---~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~ 66 (128)
.+..+++|.-++.+++-+.+ .+. +.| +++ .|.+++++++++|. .|.+..|-++. .+.
T Consensus 138 ~~~~v~~~~~n~~~~~~~~~-~R~--~~g~~~i~~~~~~r~~l~~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~~~ 212 (298)
T PRK08419 138 AVSIVGRLLKSAPINEMISK-RRE--QFGIELIDKKGAMKELLKALKQGR--ALGILVDQNVVPKEGVEVKFFNKRVTHT 212 (298)
T ss_pred CeEEEEeCCCChHHHHHHHH-HHH--HcCCeeEECccHHHHHHHHHHcCC--eEEEEecCCCCCCCCeEEecCCCCcccc
Confidence 34556888877666543322 221 122 233 36889999999887 44555444321 123
Q ss_pred hhHHHHHHhCCCCEEEeCC
Q 033061 67 LHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~~s 85 (128)
.-...++.+.|.|++.+..
T Consensus 213 ~g~a~LA~k~~apvvpv~~ 231 (298)
T PRK08419 213 TIASILARRYNALIIPVFI 231 (298)
T ss_pred hhHHHHHHHHCCCEEEEEE
Confidence 4445799999999887665
No 169
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=47.81 E-value=85 Score=26.96 Aligned_cols=62 Identities=19% Similarity=0.158 Sum_probs=49.2
Q ss_pred HcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCC
Q 033061 47 NRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNE 108 (128)
Q Consensus 47 ~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~ 108 (128)
..++-+.=||.-|+-..--.+.+..+|+-.|+|++.+.+..||-.++.--...=++.|+-.|
T Consensus 230 ~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~d~ILVDTaG 291 (407)
T COG1419 230 LKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDCDVILVDTAG 291 (407)
T ss_pred hccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcCCEEEEeCCC
Confidence 56778899999999766567899999999999999999999999998764333345665433
No 170
>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=47.77 E-value=43 Score=24.32 Aligned_cols=22 Identities=18% Similarity=0.244 Sum_probs=18.6
Q ss_pred HHhhHHHHHHhCCCCEEEeCCH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+...+..+|+++++|++-+.+.
T Consensus 134 ~~~~~~~~a~~~~~~~vD~~~~ 155 (198)
T cd01821 134 YPAAMRELAAEEGVPLIDLNAA 155 (198)
T ss_pred HHHHHHHHHHHhCCCEEecHHH
Confidence 5688899999999999887654
No 171
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=47.49 E-value=97 Score=26.19 Aligned_cols=53 Identities=13% Similarity=0.166 Sum_probs=38.9
Q ss_pred cCCccccHHHHHHHHHc----CceeEEEEecCCChhh-----HHhhHHHHHHhCCCCEEEeC
Q 033061 32 YKQLKKGANEATKTLNR----GISEFIVMAADTEPLE-----ILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~----~kakLVilA~D~~p~~-----~~~~l~~lc~~~~IP~~~~~ 84 (128)
.++++.|..-|.+.+.= ..+-|||..+-.-... +-..+-.+|+++++|++.+.
T Consensus 261 ga~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qtl~GK~p~~Va~~A~~~~vPviai~ 322 (375)
T TIGR00045 261 GARLKPGIDLVLELLDLEQKIKDADLVITGEGRLDRQSLMGKAPVGVAKRAKKYGVPVIAIA 322 (375)
T ss_pred CCEEccHHHHHHHhhCHHHHhcCCCEEEECCCcccccccCCchHHHHHHHHHHhCCeEEEEe
Confidence 34788999999887722 4589999998753321 44667789999999987663
No 172
>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=47.46 E-value=87 Score=21.19 Aligned_cols=50 Identities=16% Similarity=0.250 Sum_probs=32.4
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVT 96 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~ 96 (128)
..+..+...+.+|.|..|..+. . ..+++++++|+-. .+...++.+++|..
T Consensus 49 ~~~~~~~~~v~vv~V~~~~~~~-~----~~~~~~~~~~~p~~~D~~~~~~~~~g~~ 99 (149)
T cd02970 49 LLPELDALGVELVAVGPESPEK-L----EAFDKGKFLPFPVYADPDRKLYRALGLV 99 (149)
T ss_pred HHHHHHhcCeEEEEEeCCCHHH-H----HHHHHhcCCCCeEEECCchhHHHHcCce
Confidence 3444445568888888776433 2 2567778887744 44567888888874
No 173
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=47.20 E-value=21 Score=29.94 Aligned_cols=37 Identities=30% Similarity=0.354 Sum_probs=27.8
Q ss_pred HcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 47 NRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 47 ~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+-.-+-||+=|.|..-..+++|+ -++++.+||++.++
T Consensus 98 qmDgAILVVsA~dGpmPqTrEHi-LlarqvGvp~ivvf 134 (394)
T COG0050 98 QMDGAILVVAATDGPMPQTREHI-LLARQVGVPYIVVF 134 (394)
T ss_pred hcCccEEEEEcCCCCCCcchhhh-hhhhhcCCcEEEEE
Confidence 34457788888888744588885 48999999987643
No 174
>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=47.17 E-value=43 Score=22.56 Aligned_cols=23 Identities=13% Similarity=0.147 Sum_probs=16.6
Q ss_pred hhHHHHHHhCCCCEEEeCCHHHH
Q 033061 67 LHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
..+..+.++.++|++.+.+|.++
T Consensus 95 ~~~~~~~~~~~~piiiv~nK~D~ 117 (157)
T cd01894 95 EEIAKYLRKSKKPVILVVNKVDN 117 (157)
T ss_pred HHHHHHHHhcCCCEEEEEECccc
Confidence 34556667788999998877553
No 175
>PRK13753 dihydropteroate synthase; Provisional
Probab=46.78 E-value=1.4e+02 Score=24.23 Aligned_cols=79 Identities=16% Similarity=0.146 Sum_probs=54.4
Q ss_pred CCCCCccccCCCChhHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC
Q 033061 3 GEAVNPKAYPLADSNLTITILDLVQQAANYKQLK----KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV 78 (128)
Q Consensus 3 ~~~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv----~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I 78 (128)
|+-..|-+.|+..++=.+++..+++..+..+-.+ .=.+....+++.| +.+ -+|++.. .-..+...+.++++
T Consensus 46 geSTrPga~~vs~eeE~~Rv~pvI~~l~~~~~~ISIDT~~~~va~~al~aG-adi---INDVsg~-~d~~~~~vva~~~~ 120 (279)
T PRK13753 46 PAASHPDARPVSPADEIRRIAPLLDALSDQMHRVSIDSFQPETQRYALKRG-VGY---LNDIQGF-PDPALYPDIAEADC 120 (279)
T ss_pred CCCCCCCCCcCCHHHHHHHHHHHHHHHHhCCCcEEEECCCHHHHHHHHHcC-CCE---EEeCCCC-CchHHHHHHHHcCC
Confidence 6667788888877776688989998887654322 2334556677777 554 3676655 34556677888999
Q ss_pred CEEEeCCH
Q 033061 79 PYVFVPSK 86 (128)
Q Consensus 79 P~~~~~sk 86 (128)
|+|...+.
T Consensus 121 ~vVlmH~~ 128 (279)
T PRK13753 121 RLVVMHSA 128 (279)
T ss_pred CEEEEecC
Confidence 99887753
No 176
>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=46.13 E-value=28 Score=28.56 Aligned_cols=39 Identities=18% Similarity=0.190 Sum_probs=31.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+..+||.|.|. .. .+..+-++|..++||++..++.--.|
T Consensus 90 ~~DvVv~a~Dn-~~-ar~~in~~c~~~~ip~I~~gt~G~~G 128 (312)
T cd01489 90 QFDLVFNALDN-LA-ARRHVNKMCLAADVPLIESGTTGFLG 128 (312)
T ss_pred cCCEEEECCCC-HH-HHHHHHHHHHHCCCCEEEEecCccee
Confidence 46789999886 44 68999999999999999987654333
No 177
>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=45.82 E-value=56 Score=23.66 Aligned_cols=67 Identities=19% Similarity=0.182 Sum_probs=37.1
Q ss_pred ChhHHHHHHHHHHHHHHcCCcc-----cc-----HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 15 DSNLTITILDLVQQAANYKQLK-----KG-----ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 15 ~~~~~~~i~~lL~~a~~ag~lv-----~G-----~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+....+.+.+-+..+.+...+. .+ ..+..+.+.++++..+|+.....+. . . ....+.++++|++.++
T Consensus 10 ~~~~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~-~-~-~~~~l~~~~ip~v~~~ 86 (264)
T cd01537 10 DNPFFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTA-P-T-IVKLARKAGIPVVLVD 86 (264)
T ss_pred CChHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcc-h-h-HHHHhhhcCCCEEEec
Confidence 4445555666555554444322 11 2344555555567666665433332 2 3 5677788999998764
No 178
>PRK01889 GTPase RsgA; Reviewed
Probab=45.80 E-value=26 Score=28.97 Aligned_cols=38 Identities=24% Similarity=0.143 Sum_probs=29.0
Q ss_pred eEEEEecC--CChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 52 EFIVMAAD--TEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 52 kLVilA~D--~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
-+||++.| .++. ..+++..+++..|+|.+.+.+|.+|.
T Consensus 116 vliV~s~~p~~~~~-~ldr~L~~a~~~~i~piIVLNK~DL~ 155 (356)
T PRK01889 116 VFIVCSLNHDFNLR-RIERYLALAWESGAEPVIVLTKADLC 155 (356)
T ss_pred EEEEEecCCCCChh-HHHHHHHHHHHcCCCEEEEEEChhcC
Confidence 34555554 3444 67899999999999999999998884
No 179
>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=45.61 E-value=38 Score=23.31 Aligned_cols=38 Identities=13% Similarity=0.289 Sum_probs=21.0
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
+.+.+..++.++.|||+..+. | +..-+.+..++.|||+
T Consensus 52 ~~l~~~a~~~~idlvvvGPE~-p--L~~Gl~D~l~~~gi~v 89 (100)
T PF02844_consen 52 EELADFAKENKIDLVVVGPEA-P--LVAGLADALRAAGIPV 89 (100)
T ss_dssp HHHHHHHHHTTESEEEESSHH-H--HHTTHHHHHHHTT-CE
T ss_pred HHHHHHHHHcCCCEEEECChH-H--HHHHHHHHHHHCCCcE
Confidence 445555555666666666554 2 3455666666666664
No 180
>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=45.08 E-value=66 Score=24.46 Aligned_cols=44 Identities=18% Similarity=0.185 Sum_probs=29.6
Q ss_pred HHHHHHHHcCceeEEEEecCCChh--hHHhhHHHHHHhCCCCEEEe
Q 033061 40 NEATKTLNRGISEFIVMAADTEPL--EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~--~~~~~l~~lc~~~~IP~~~~ 83 (128)
+.+.+.+++.++.+||++.|.... .....+..+.+..++|+.++
T Consensus 22 ~~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v 67 (239)
T TIGR03729 22 ETLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFN 67 (239)
T ss_pred HHHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEE
Confidence 456677777789999999998642 12334445555467898665
No 181
>PRK05646 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=45.03 E-value=1.2e+02 Score=24.28 Aligned_cols=73 Identities=10% Similarity=-0.011 Sum_probs=45.3
Q ss_pred CccccCCCChhHHHHHHHHHHHHHHc-C-Ccc----ccHHHHHHHHHcCceeEEEEecCCChh--------------hHH
Q 033061 7 NPKAYPLADSNLTITILDLVQQAANY-K-QLK----KGANEATKTLNRGISEFIVMAADTEPL--------------EIL 66 (128)
Q Consensus 7 ~p~~~P~~~~~~~~~i~~lL~~a~~a-g-~lv----~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~ 66 (128)
..+++|+.+.-++ .+....+.. | +++ .|.+++++++++|+ .|.+..|-++. .+.
T Consensus 149 ~~vyr~~~n~~~d----~~~~~~R~~~g~~~i~~~~~~~r~ilk~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~ 222 (310)
T PRK05646 149 DGMYREHKNPVFD----FIQRRGRERHNLDSTAIEREDVRGMLKLLRAGR--AIWYAPDQDYGAKQSIFVPLFGIPAATV 222 (310)
T ss_pred eEEeeCCCCHHHH----HHHHHHhhccCCCcccccHhhHHHHHHHHhCCC--eEEEeCCCCCCCCCCEEecCCCCcchhh
Confidence 3468887666554 233333332 2 333 47888999998885 66666665431 133
Q ss_pred hhHHHHHHhCCCCEEEeCC
Q 033061 67 LHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~~s 85 (128)
.-...++.+.|.|++.+..
T Consensus 223 ~g~a~LA~~~~apvvp~~~ 241 (310)
T PRK05646 223 TATTKFARLGRARVIPFTQ 241 (310)
T ss_pred hHHHHHHHhhCCcEEEEEE
Confidence 4445788899999887664
No 182
>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=44.64 E-value=68 Score=23.23 Aligned_cols=58 Identities=16% Similarity=0.035 Sum_probs=31.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC------CceEEEEEecCCc
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT------RPVIACSVTSNEA 109 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~------~~~~~v~i~~~~~ 109 (128)
...++|+ .|.|...+...+..++++++..+..+......|.+-+.+ .. -.++++|.|.
T Consensus 30 ~~eiivv-dd~S~D~t~~~~~~~~~~~~~~i~~i~~~~n~G~~~a~~~g~~~a~g-d~i~~ld~D~ 93 (211)
T cd04188 30 SYEIIVV-DDGSKDGTAEVARKLARKNPALIRVLTLPKNRGKGGAVRAGMLAARG-DYILFADADL 93 (211)
T ss_pred CEEEEEE-eCCCCCchHHHHHHHHHhCCCcEEEEEcccCCCcHHHHHHHHHHhcC-CEEEEEeCCC
Confidence 3555555 555544477888888877765544444444444432222 22 2456666654
No 183
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=44.64 E-value=67 Score=24.73 Aligned_cols=48 Identities=17% Similarity=0.209 Sum_probs=38.0
Q ss_pred cccHHHHHHHHHc----CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 36 KKGANEATKTLNR----GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 36 v~G~~~v~kai~~----~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
+.|.++..+|++. .++..+++|...-.-.+...+..+-++++||++..
T Consensus 123 lVGEE~laEAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~VISL 174 (218)
T COG1707 123 LVGEEELAEAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPVISL 174 (218)
T ss_pred ccChHHHHHHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeEEEe
Confidence 3677777776654 57889999988765558888999999999999864
No 184
>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=44.61 E-value=1.2e+02 Score=22.18 Aligned_cols=25 Identities=16% Similarity=0.072 Sum_probs=19.5
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.-..+...+++.+.|++.+.+|.++
T Consensus 95 ~d~~~~~~l~~~~~~~ilV~nK~D~ 119 (197)
T cd04104 95 NDVKLAKAIQCMGKKFYFVRTKVDR 119 (197)
T ss_pred HHHHHHHHHHHhCCCEEEEEecccc
Confidence 4456666777789999999988777
No 185
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=44.61 E-value=70 Score=19.27 Aligned_cols=18 Identities=22% Similarity=0.285 Sum_probs=12.2
Q ss_pred HhhHHHHHHhCCCCEEEe
Q 033061 66 LLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~ 83 (128)
-.....+.++++||+..+
T Consensus 13 C~~ak~~L~~~~i~~~~i 30 (75)
T cd03418 13 CVRAKALLDKKGVDYEEI 30 (75)
T ss_pred HHHHHHHHHHCCCcEEEE
Confidence 466666677788887543
No 186
>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=44.55 E-value=39 Score=22.36 Aligned_cols=58 Identities=14% Similarity=0.154 Sum_probs=34.9
Q ss_pred EEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHH
Q 033061 55 VMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAI 123 (128)
Q Consensus 55 ilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~ 123 (128)
|+|.=.+. +..++...+++++||++.-. .|.+.+- .. -+.+.--.++-+-+-++---+
T Consensus 20 VvAKG~g~--~A~~I~~~A~e~~VPi~~~~---~LAr~L~-~~-----~ig~~IP~~ly~aVAeil~~v 77 (82)
T TIGR00789 20 VVASGVGE--VAERIIEIAKKHGIPIVEDP---DLVDVLL-KL-----DLDDEIPEELYEVVAEIFAFL 77 (82)
T ss_pred EEEEeCCH--HHHHHHHHHHHcCCCEEeCH---HHHHHHH-hC-----CCCCccCHHHHHHHHHHHHHH
Confidence 44554444 58999999999999986544 6777764 21 233333345555555444333
No 187
>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=44.34 E-value=20 Score=24.38 Aligned_cols=42 Identities=14% Similarity=0.183 Sum_probs=27.8
Q ss_pred HHHHHHHHcCceeEEEEecCCChh---hHHhhHHHHHHhCCCCEE
Q 033061 40 NEATKTLNRGISEFIVMAADTEPL---EILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~---~~~~~l~~lc~~~~IP~~ 81 (128)
..+.+.|++|++.+||-..+-+.. .---.+...|-+++||++
T Consensus 61 ~~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~i 105 (116)
T cd01423 61 PSLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLI 105 (116)
T ss_pred hhHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCccc
Confidence 667888888888888875442221 012456778888888885
No 188
>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=44.18 E-value=55 Score=25.73 Aligned_cols=25 Identities=24% Similarity=0.476 Sum_probs=19.8
Q ss_pred CCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 59 DTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 59 D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..++. -...+..+.++++|++++..
T Consensus 203 eps~~-~l~~l~~~ik~~~v~~if~e 227 (282)
T cd01017 203 EPSPK-QLAELVEFVKKSDVKYIFFE 227 (282)
T ss_pred CCCHH-HHHHHHHHHHHcCCCEEEEe
Confidence 44566 56888889999999999874
No 189
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=43.90 E-value=1e+02 Score=25.92 Aligned_cols=67 Identities=18% Similarity=0.150 Sum_probs=43.5
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEe-cCCchHHHHHHHHHHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVT-SNEASQLKTQIQQLKD 121 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~-~~~~~~~~~li~~i~~ 121 (128)
.+.+||++.-+.|+ ..+...++++++|++ +..+-++..+...+++-+++|+ .+++.....++..+-.
T Consensus 78 ~~D~Vv~s~Gi~~~---~~~~~~a~~~gi~v~--~~~e~~~~~~~~~~~~~~I~VTGTnGKTTTt~mi~~iL~ 145 (480)
T PRK01438 78 DTDLVVTSPGWRPD---APLLAAAADAGIPVW--GEVELAWRLRDPDRPAPWLAVTGTNGKTTTVQMLASMLR 145 (480)
T ss_pred CCCEEEECCCcCCC---CHHHHHHHHCCCeec--chHHHHHHhhhccCCCCEEEEeCCCcHHHHHHHHHHHHH
Confidence 36789999988886 345566788999983 3334446665443333357776 5566777777766543
No 190
>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=43.60 E-value=58 Score=22.77 Aligned_cols=47 Identities=19% Similarity=0.236 Sum_probs=30.5
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCCh-------hhHHhhHHHHHHhCCCCEEEe
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEP-------LEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p-------~~~~~~l~~lc~~~~IP~~~~ 83 (128)
....+.++.+++..++++++.--..+ ..+...+..+|++++++++..
T Consensus 88 ~~l~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d~ 141 (177)
T cd01822 88 ANLRQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVPF 141 (177)
T ss_pred HHHHHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEech
Confidence 34556666677667787776432211 125567778999999998754
No 191
>PF12759 HTH_Tnp_IS1: InsA C-terminal domain; InterPro: IPR024431 This entry represents the helix-turn-helix domain found at the C-terminal of InsA.
Probab=43.56 E-value=13 Score=22.27 Aligned_cols=41 Identities=15% Similarity=0.098 Sum_probs=32.6
Q ss_pred cccCCCChhHHHHHHHHHHHHHHcCCccccHHHHHHHHHcC
Q 033061 9 KAYPLADSNLTITILDLVQQAANYKQLKKGANEATKTLNRG 49 (128)
Q Consensus 9 ~~~P~~~~~~~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~ 49 (128)
-++|-+.+++.+..++-.|.---++-|-.|.+.|++.+++.
T Consensus 5 A~kpgikeqIvema~nG~GiRdtaRvL~I~~nTVlrtLK~s 45 (46)
T PF12759_consen 5 ARKPGIKEQIVEMAFNGSGIRDTARVLKISINTVLRTLKNS 45 (46)
T ss_pred ccCccHHHHHHHHHhcCCcchhhHhHhcchHHHHHHHHhcC
Confidence 36788888888877777776666777889999999999874
No 192
>PF00248 Aldo_ket_red: Aldo/keto reductase family; InterPro: IPR023210 The aldo-keto reductase family includes a number of related monomeric NADPH-dependent oxidoreductases, such as aldehyde reductase, aldose reductase, prostaglandin F synthase, xylose reductase, rho crystallin, and many others []. All possess a similar structure, with a beta-alpha-beta fold characteristic of nucleotide binding proteins []. The fold comprises a parallel beta-8/alpha-8-barrel, which contains a novel NADP-binding motif. The binding site is located in a large, deep, elliptical pocket in the C-terminal end of the beta sheet, the substrate being bound in an extended conformation. The hydrophobic nature of the pocket favours aromatic and apolar substrates over highly polar ones []. Binding of the NADPH coenzyme causes a massive conformational change, reorienting a loop, effectively locking the coenzyme in place. This binding is more similar to FAD- than to NAD(P)-binding oxidoreductases []. Some proteins of this entry contain a K+ ion channel beta chain regulatory domain; these are reported to have oxidoreductase activity []. This entry represents the NADP-dependent oxidoreductase domain found in these proteins.; PDB: 1C9W_A 4F40_B 1VBJ_A 1XGD_A 1X97_A 2ACS_A 1EF3_A 2ACU_A 1PWM_A 2NVD_A ....
Probab=43.44 E-value=1e+02 Score=23.65 Aligned_cols=67 Identities=7% Similarity=0.032 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHcCCcc------ccHHHHHHHHHcCceeEEEEecCCChh--hHHhhHHHHHHhCCCCEEEeC
Q 033061 18 LTITILDLVQQAANYKQLK------KGANEATKTLNRGISEFIVMAADTEPL--EILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 18 ~~~~i~~lL~~a~~ag~lv------~G~~~v~kai~~~kakLVilA~D~~p~--~~~~~l~~lc~~~~IP~~~~~ 84 (128)
....++..|...++.|++. .....+..+.+.+..+++++--..++. ...+.+..+|+++||+++...
T Consensus 114 ~~~~~~~~l~~l~~~G~ir~iGvs~~~~~~l~~~~~~~~~~~~~~q~~~n~~~~~~~~~l~~~~~~~gi~v~a~~ 188 (283)
T PF00248_consen 114 ALEEVWEALEELKKEGKIRHIGVSNFSPEQLEAALKIGSIPPDVVQINYNLLNRREEEGLLEFCREHGIGVIAYS 188 (283)
T ss_dssp HHHHHHHHHHHHHHTTSEEEEEEES--HHHHHHHHTCTSS-ESEEEEE-BTTBHBGGHHHHHHHHHTT-EEEEES
T ss_pred ccchhhhhhhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 5677888899999999854 334455555466777787777666643 356888999999999987654
No 193
>PRK06153 hypothetical protein; Provisional
Probab=43.38 E-value=52 Score=28.09 Aligned_cols=40 Identities=15% Similarity=0.130 Sum_probs=33.3
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
...-+||.|-|..+ .+..+-.+|.+++||++.++-..++.
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 45899999999855 47888999999999999988766663
No 194
>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=43.04 E-value=74 Score=23.87 Aligned_cols=43 Identities=14% Similarity=0.056 Sum_probs=25.3
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.++.+...++.-+|+..- ++. ........+.+++||++.+++
T Consensus 48 ~~i~~l~~~~vdgiii~~~-~~~-~~~~~l~~~~~~~ipvV~~~~ 90 (271)
T cd06312 48 RLIEAAIAAKPDGIVVTIP-DPD-ALDPAIKRAVAAGIPVISFNA 90 (271)
T ss_pred HHHHHHHHhCCCEEEEeCC-ChH-HhHHHHHHHHHCCCeEEEeCC
Confidence 3444455567776666552 232 223344556778999988863
No 195
>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=42.99 E-value=14 Score=21.35 Aligned_cols=28 Identities=25% Similarity=0.055 Sum_probs=20.2
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRA 92 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a 92 (128)
+...+..+|+++|||-..-.+|.||=.+
T Consensus 6 ~~~eL~~iAk~lgI~~~~~~~K~eLI~~ 33 (43)
T PF07498_consen 6 TLSELREIAKELGIEGYSKMRKQELIFA 33 (43)
T ss_dssp -HHHHHHHHHCTT-TTGCCS-HHHHHHH
T ss_pred CHHHHHHHHHHcCCCCCCcCCHHHHHHH
Confidence 4678899999999997777788887544
No 196
>PRK12566 glycine dehydrogenase; Provisional
Probab=42.42 E-value=2.6e+02 Score=26.75 Aligned_cols=104 Identities=18% Similarity=0.193 Sum_probs=62.3
Q ss_pred ccCCCChhHHHHHHHHHHHHHH-cC------CccccHHHHHHHH----H--cCceeEEEEecCCChhhHHhhHHHHHHhC
Q 033061 10 AYPLADSNLTITILDLVQQAAN-YK------QLKKGANEATKTL----N--RGISEFIVMAADTEPLEILLHLPLLAEDK 76 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~-ag------~lv~G~~~v~kai----~--~~kakLVilA~D~~p~~~~~~l~~lc~~~ 76 (128)
|.|..++-.-+.++++=.+... .| .+.-|...+-+++ + +++.+-|++++++.|. +..-+...++..
T Consensus 114 YQpEisQG~Lqal~e~Qtmi~~LtGm~vaNASl~D~atA~aEA~~ma~~~~~~k~~~~~v~~~~hP~-~~~v~~t~~~~~ 192 (954)
T PRK12566 114 YQPEIAQGRLEALLNFQQMTIDLTGLDLANASLLDEATAAAEAMALAKRVAKSKSNRFFVDEHCHPQ-TLSVLRTRAEGF 192 (954)
T ss_pred CCchhhhHHHHHHHHHHHHHHHHhCchhhhhhhccchhHHHHHHHHHHHHhhcCCCEEEECCCCCHH-HHHHHHHhhhcC
Confidence 5677787777777776554433 22 2333544433322 2 2334569999999998 999999999999
Q ss_pred CCCEEEeCCHHHHhHHhCCCCceEEEEEecCCc----hHHHHHHHHHH
Q 033061 77 NVPYVFVPSKQALGRACGVTRPVIACSVTSNEA----SQLKTQIQQLK 120 (128)
Q Consensus 77 ~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~----~~~~~li~~i~ 120 (128)
|+.++. .+|-...+- .++++.+..++. .++.++.+.++
T Consensus 193 g~~i~~----~~~~~~~~~--~~~~v~vq~P~~~G~i~d~~~i~~~~h 234 (954)
T PRK12566 193 GFELVV----DAVDNLAAH--AVFGALLQYPDTHGEIRDLRPLIDQLH 234 (954)
T ss_pred CcEEEE----cchhhcCCC--CEEEEEEECCCCceEEccHHHHHHHHH
Confidence 999876 333333333 355555544332 24454444444
No 197
>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=42.41 E-value=79 Score=27.36 Aligned_cols=43 Identities=9% Similarity=0.036 Sum_probs=28.2
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHH
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~e 88 (128)
..++.+.+-.+.+||++.++++. . ..++.++||.++...++.+
T Consensus 278 ~~v~~i~~~g~~lvi~~~~I~~~-a----l~~L~~~~I~av~~v~~~~ 320 (526)
T cd03339 278 EMVEQVKDAGANLVICQWGFDDE-A----NHLLLQNGLPAVRWVGGVE 320 (526)
T ss_pred HHHHHHHHCCCCEEEeCCCCCHH-H----HHHHHHCCCEEEEeCCHHH
Confidence 33455556667899999998876 2 3455677777766554433
No 198
>PRK05906 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=42.39 E-value=1.1e+02 Score=26.35 Aligned_cols=76 Identities=21% Similarity=0.245 Sum_probs=48.5
Q ss_pred CCccccCCCChhHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCceeEEEEecCCChh-------------hHHhhH
Q 033061 6 VNPKAYPLADSNLTITILDLVQQAANYKQLK---KGANEATKTLNRGISEFIVMAADTEPL-------------EILLHL 69 (128)
Q Consensus 6 ~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv---~G~~~v~kai~~~kakLVilA~D~~p~-------------~~~~~l 69 (128)
+..+++|+-++.+++-+. -.+. +..++++ .|.+++.+++++|. .|.+..|-++. .+..-.
T Consensus 165 ~~~vyRp~kNp~ld~li~-~~R~-r~G~~lI~~~~giR~liraLk~G~--~vgiL~DQ~~~~~Gv~VpFFG~~a~T~tgp 240 (454)
T PRK05906 165 GLAFAKPIKNRRLNKKIF-SLRE-SFKGKIVPPKNGINQALRALHQGE--VVGIVGDQALLSSSYSYPLFGSQAFTTTSP 240 (454)
T ss_pred eEEEEecCCCHHHHHHHH-HHHH-hcCCeeecCchHHHHHHHHHhcCC--EEEEEeCCCCCCCceEeCCCCCccchhhHH
Confidence 345789987776664332 2221 1112333 47899999999886 66777676642 234555
Q ss_pred HHHHHhCCCCEEEeCC
Q 033061 70 PLLAEDKNVPYVFVPS 85 (128)
Q Consensus 70 ~~lc~~~~IP~~~~~s 85 (128)
..++...|.|++.+..
T Consensus 241 A~LA~rtgApVVpv~~ 256 (454)
T PRK05906 241 ALLAYKTGKPVIAVAI 256 (454)
T ss_pred HHHHHHhCCeEEEEEE
Confidence 6888999999876653
No 199
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=42.28 E-value=37 Score=28.51 Aligned_cols=56 Identities=27% Similarity=0.335 Sum_probs=34.3
Q ss_pred EEEEecCCC----hhhHHhhHHHHHHhCCCCEEE-eCC--HHHHhHH--hCCCCceEEEEE-ecCCc
Q 033061 53 FIVMAADTE----PLEILLHLPLLAEDKNVPYVF-VPS--KQALGRA--CGVTRPVIACSV-TSNEA 109 (128)
Q Consensus 53 LVilA~D~~----p~~~~~~l~~lc~~~~IP~~~-~~s--k~eLG~a--~G~~~~~~~v~i-~~~~~ 109 (128)
-+|.+.|.+ |. +.+++..+|+++||||-. +.. -.+=|.+ .|--.+++++++ +++.+
T Consensus 256 p~i~~~D~~~~~~~~-l~~~L~~~A~~~~Ip~Q~~v~~~ggTDA~a~~~~g~gvpta~Igip~ry~H 321 (355)
T COG1363 256 PVIRVKDASGIYHPK-LRKFLLELAEKNNIPYQVDVSPGGGTDAGAAHLTGGGVPTALIGIPTRYIH 321 (355)
T ss_pred CEEEEEcCCCCCCHH-HHHHHHHHHHHcCCCeEEEecCCCCccHHHHHHcCCCCceEEEeccccccc
Confidence 455566664 54 999999999999999843 322 2233322 233367666765 34444
No 200
>cd02430 PTH2 Peptidyl-tRNA hydrolase, type 2 (PTH2). Peptidyl-tRNA hydrolase (PTH) activity releases tRNA from the premature translation termination product peptidyl-tRNA, therefore allowing the tRNA and peptide to be reused in protein synthesis. PTH2 is present in archaea and eukaryotes.
Probab=42.01 E-value=55 Score=22.90 Aligned_cols=41 Identities=17% Similarity=0.205 Sum_probs=30.1
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+......|..+.|+-+.|.+. ...+...++..++|+..+.
T Consensus 40 ~~~~W~~~G~~KiVl~~~~~~e---l~~l~~~a~~~~l~~~~v~ 80 (115)
T cd02430 40 LLRAWEREGQKKIVLKVNSEEE---LLELKKKAKSLGLPTSLIQ 80 (115)
T ss_pred HHHHHHhcCCcEEEEecCCHHH---HHHHHHHHHHcCCCeEEEE
Confidence 3445566787888877776633 4778888899999988775
No 201
>PRK13802 bifunctional indole-3-glycerol phosphate synthase/tryptophan synthase subunit beta; Provisional
Probab=41.64 E-value=1.5e+02 Score=27.16 Aligned_cols=77 Identities=16% Similarity=0.176 Sum_probs=56.0
Q ss_pred CCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCC-EEEeCCHHHHhHHhCCCCceEEEEEecCCchH
Q 033061 33 KQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVIACSVTSNEASQ 111 (128)
Q Consensus 33 g~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP-~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~ 111 (128)
+.++.=..|+.++-.-|-=-+++|++=-++. ....+..+|+..|.- ++.+.+.+||-+++- ..+.+++|.+.+=.+
T Consensus 117 KDFIid~~QI~ea~~~GADavLLI~~~L~~~-~l~~l~~~a~~lGme~LvEvh~~~el~~a~~--~ga~iiGINnRdL~t 193 (695)
T PRK13802 117 KDFIVTDYQIWEARAHGADLVLLIVAALDDA-QLKHLLDLAHELGMTVLVETHTREEIERAIA--AGAKVIGINARNLKD 193 (695)
T ss_pred ccccCCHHHHHHHHHcCCCEeehhHhhcCHH-HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHh--CCCCEEEEeCCCCcc
Confidence 3466777777777777765555556555555 578899999999995 689999999999955 445578888765443
Q ss_pred H
Q 033061 112 L 112 (128)
Q Consensus 112 ~ 112 (128)
|
T Consensus 194 f 194 (695)
T PRK13802 194 L 194 (695)
T ss_pred c
Confidence 3
No 202
>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=41.62 E-value=1.5e+02 Score=23.51 Aligned_cols=65 Identities=11% Similarity=0.121 Sum_probs=36.4
Q ss_pred CCChhhHHhhHHHHHHhCCCCEEEeC--CHHHHhHHhCCCCceEEEEE--ecC----CchHHHHHHHHHHHHHh
Q 033061 59 DTEPLEILLHLPLLAEDKNVPYVFVP--SKQALGRACGVTRPVIACSV--TSN----EASQLKTQIQQLKDAIE 124 (128)
Q Consensus 59 D~~p~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~a~G~~~~~~~v~i--~~~----~~~~~~~li~~i~~~~~ 124 (128)
..+|. -...+....++++|++++.. ...++.+.+-+..++-++.+ +.. +..+|.+++++.-.+|.
T Consensus 211 eps~~-~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v~~l~~l~~~~~~~~~~Y~~~m~~n~~~i~ 283 (286)
T cd01019 211 DPGAK-RLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKVGELDPLGGLIELGKNSYVNFLRNLADSLA 283 (286)
T ss_pred CCCHH-HHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceEEEecccccccccchhhHHHHHHHHHHHHH
Confidence 34565 46788899999999999875 23444444444333322222 111 12466666665555543
No 203
>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=41.48 E-value=80 Score=23.32 Aligned_cols=44 Identities=16% Similarity=0.113 Sum_probs=31.3
Q ss_pred ccHHHHHHHHHc--CceeEEEEecCCChh--hHHhhHHHHHHhCCCCE
Q 033061 37 KGANEATKTLNR--GISEFIVMAADTEPL--EILLHLPLLAEDKNVPY 80 (128)
Q Consensus 37 ~G~~~v~kai~~--~kakLVilA~D~~p~--~~~~~l~~lc~~~~IP~ 80 (128)
.+.+...+.|++ .++..||+|.|++.. .+..++..++...+.|+
T Consensus 103 ~~~~~~~~~l~~l~~~~~~iiiatD~drEGe~I~~~i~~~~~~~~~~v 150 (170)
T cd03361 103 DDKLETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNI 150 (170)
T ss_pred cchHHHHHHHHHHHhhCCEEEEecCCCccHHHHHHHHHHHhccCCCCe
Confidence 566667777766 578999999999732 26667788887655554
No 204
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=41.42 E-value=1e+02 Score=22.35 Aligned_cols=69 Identities=13% Similarity=0.158 Sum_probs=37.8
Q ss_pred ccCCCChhHHHHHHHHHHHHHHcCC----------------ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHH
Q 033061 10 AYPLADSNLTITILDLVQQAANYKQ----------------LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLA 73 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~ag~----------------lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc 73 (128)
++|+..+-+-..+..+....+.+.+ .-.+.+.+.++..+.. +.+|..+|. ++++++
T Consensus 42 ~~~~Ip~~Vi~EL~~l~~~~~~~~r~~ia~~~~er~~~~~~~~~aDe~i~~~a~~~~-~~iVaTnD~---eLk~rl---- 113 (136)
T COG1412 42 YKPAIPSCVIRELEKLKRKHRGKARIAIALKYAERLECIHKGRYADECLLEAALKHG-RYIVATNDK---ELKRRL---- 113 (136)
T ss_pred ccccchHHHHHHHHHHHHhcCchHHHHHHHHHhhccCccccCCChHHHHHHHHHHcC-CEEEEeCCH---HHHHHH----
Confidence 5777777776666655553222222 2234445555554443 455555554 244444
Q ss_pred HhCCCCEEEeCCH
Q 033061 74 EDKNVPYVFVPSK 86 (128)
Q Consensus 74 ~~~~IP~~~~~sk 86 (128)
++.|||++++..+
T Consensus 114 r~~GIPvi~lr~r 126 (136)
T COG1412 114 RENGIPVITLRQR 126 (136)
T ss_pred HHcCCCEEEEeCC
Confidence 4459999988643
No 205
>COG2229 Predicted GTPase [General function prediction only]
Probab=41.41 E-value=48 Score=25.47 Aligned_cols=50 Identities=26% Similarity=0.344 Sum_probs=36.0
Q ss_pred HHHHHHcCceeEEEEecCCChhhHH--hhHHHHHHhCC-CCEEEeCCHHHHhHH
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEIL--LHLPLLAEDKN-VPYVFVPSKQALGRA 92 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~--~~l~~lc~~~~-IP~~~~~sk~eLG~a 92 (128)
..+-+-+|-.++||+-.+..|. .. .++...-+..+ +|++.+-+|.+|..+
T Consensus 84 m~~~l~~ga~gaivlVDss~~~-~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a 136 (187)
T COG2229 84 MWEILSRGAVGAIVLVDSSRPI-TFHAEEIIDFLTSRNPIPVVVAINKQDLFDA 136 (187)
T ss_pred HHHHHhCCcceEEEEEecCCCc-chHHHHHHHHHhhccCCCEEEEeeccccCCC
Confidence 4455567777777777766666 33 56666666666 999999999888877
No 206
>PRK00124 hypothetical protein; Validated
Probab=41.14 E-value=36 Score=25.15 Aligned_cols=30 Identities=30% Similarity=0.393 Sum_probs=26.1
Q ss_pred EEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 54 IVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
++|=.|+-| +++.+...|+++++|++++.|
T Consensus 3 I~VDADACP--Vk~~i~r~a~r~~i~v~~Vas 32 (151)
T PRK00124 3 IYVDADACP--VKDIIIRVAERHGIPVTLVAS 32 (151)
T ss_pred EEEECCCCc--HHHHHHHHHHHHCCeEEEEEe
Confidence 677788888 689999999999999998873
No 207
>KOG2016 consensus NEDD8-activating complex, APP-BP1/UBA5 component [Posttranslational modification, protein turnover, chaperones]
Probab=41.08 E-value=26 Score=30.64 Aligned_cols=34 Identities=26% Similarity=0.366 Sum_probs=28.9
Q ss_pred eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 52 EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 52 kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
-=||+|++..+. +.-++...|.++|||++.+.|-
T Consensus 120 FtvViatnl~E~-~~~kl~~~l~~~~vpll~~rs~ 153 (523)
T KOG2016|consen 120 FTVVIATNLNEQ-TLLKLAEILREANVPLLLTRSY 153 (523)
T ss_pred eeeeeccccchh-hhhhhHHHHHhcCCceEEEeee
Confidence 447889998876 8899999999999999887754
No 208
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=40.83 E-value=1.6e+02 Score=23.80 Aligned_cols=62 Identities=11% Similarity=0.079 Sum_probs=35.7
Q ss_pred ChhhHHhhHHHHHHhCCCCEEEeCC--HHHHhHHhCCCCceEEEEEecCC-------chHHHHHHHHHHHHHh
Q 033061 61 EPLEILLHLPLLAEDKNVPYVFVPS--KQALGRACGVTRPVIACSVTSNE-------ASQLKTQIQQLKDAIE 124 (128)
Q Consensus 61 ~p~~~~~~l~~lc~~~~IP~~~~~s--k~eLG~a~G~~~~~~~v~i~~~~-------~~~~~~li~~i~~~~~ 124 (128)
+|. -...+....++++|+++++.. .....+.+....++-++. +++- ..+|.++++..-.++.
T Consensus 237 s~~-~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~-ldpl~~~~~~~~~~Y~~~m~~n~~~l~ 307 (311)
T PRK09545 237 GAQ-RLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGT-LDPLGTNIKLGKDSYSEFLSQLANQYA 307 (311)
T ss_pred CHH-HHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEE-eccccccccCCHhHHHHHHHHHHHHHH
Confidence 555 567888999999999998753 234444444443332333 2221 2456666665555443
No 209
>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=40.61 E-value=93 Score=21.01 Aligned_cols=46 Identities=20% Similarity=0.162 Sum_probs=30.7
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC----HHHHhHHhCCC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS----KQALGRACGVT 96 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s----k~eLG~a~G~~ 96 (128)
++.+|.|+.|-... ....+..+.++++.++.++.+ ...+.+.+|..
T Consensus 59 ~v~~v~vs~d~~~d-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~g~~ 108 (142)
T cd02968 59 DVQVVFISVDPERD-TPEVLKAYAKAFGPGWIGLTGTPEEIEALAKAFGVY 108 (142)
T ss_pred ceEEEEEEECCCCC-CHHHHHHHHHHhCCCcEEEECCHHHHHHHHHHhcEE
Confidence 58889998876422 345566777777766655443 36788888854
No 210
>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=40.03 E-value=72 Score=24.05 Aligned_cols=36 Identities=19% Similarity=0.160 Sum_probs=21.6
Q ss_pred HHcCce-eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 46 LNRGIS-EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 46 i~~~ka-kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+...++ .+++.+.|. + ....+...+.+++||++.++
T Consensus 50 ~~~~~~dgiii~~~~~-~--~~~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 50 LGAQGAKGFVICVPDV-K--LGPAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHcCCCEEEEccCch-h--hhHHHHHHHHhCCCeEEEec
Confidence 344555 455555553 2 23455666778999988775
No 211
>PF02347 GDC-P: Glycine cleavage system P-protein; InterPro: IPR020580 This family consists of glycine cleavage system P-proteins (1.4.4.2 from EC) from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex (2.1.2.10 from EC (GDC) also annotated as glycine cleavage system or glycine synthase. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor, carbon dioxide is released and the remaining methylamin moiety is then transferred to the lipoamide cofactor of the H protein. GDC consists of four proteins P, H, L and T []. The reaction catalysed by this protein is: Glycine + lipoylprotein = S-aminomethyldihydrolipoylprotein + CO2 ; GO: 0004375 glycine dehydrogenase (decarboxylating) activity, 0055114 oxidation-reduction process; PDB: 1WYV_A 1WYT_C 1WYU_A.
Probab=40.00 E-value=40 Score=29.01 Aligned_cols=111 Identities=14% Similarity=0.167 Sum_probs=64.6
Q ss_pred ccCCCChhHHHHHHHHHHHHHH-cCC------ccccHHHHHHHH------HcCceeEEEEecCCChhhHHhhHHHHHHhC
Q 033061 10 AYPLADSNLTITILDLVQQAAN-YKQ------LKKGANEATKTL------NRGISEFIVMAADTEPLEILLHLPLLAEDK 76 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~-ag~------lv~G~~~v~kai------~~~kakLVilA~D~~p~~~~~~l~~lc~~~ 76 (128)
|.|..++-.-+.++++=.+... .|- +--|....-+++ .+++.+-|++..++.|. +..-+..+|+-.
T Consensus 100 YQpEisQG~Lq~lfe~Qs~i~eLTGmdvaNaSlyd~atA~aEa~~ma~r~~~~~~~~vlv~~~~hP~-~~~v~~t~a~~~ 178 (429)
T PF02347_consen 100 YQPEISQGRLQALFEYQSMICELTGMDVANASLYDGATAAAEAMLMAVRATKRKRNKVLVPESLHPQ-TRAVLRTYAAPL 178 (429)
T ss_dssp TSGGGBHHHHHHHHHHHHHHHHHHTSSEE-SEBSSCCHHHHHHHHHHHHHHTT---EEEEETTS-CH-HHHHHHHHCCHC
T ss_pred CCcHHHHHHHHHHHHHHHHHHHhhCCCccCCCCCChhHHHHHHHHHHHHhcccCCcEEEEcCCcChh-hHHHHHHhhhhC
Confidence 4577777777777776665443 332 222333332222 23444589999999998 788888999999
Q ss_pred CCCEEEeCCHHHHhHHhCCCCceEEEEEecCCch-HHHHHHHHHHHHHhh
Q 033061 77 NVPYVFVPSKQALGRACGVTRPVIACSVTSNEAS-QLKTQIQQLKDAIEK 125 (128)
Q Consensus 77 ~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~-~~~~li~~i~~~~~~ 125 (128)
++.++.++..++ |..- +..++++.+..++.- -|.+ +++|.+.+++
T Consensus 179 g~~iv~~~~~~~-~~~d--~~~~a~v~vq~Pn~~G~~ed-~~~i~~~~h~ 224 (429)
T PF02347_consen 179 GIEIVEVPLDED-GTTD--DDDTAAVMVQNPNTFGVFED-IKEIADIAHA 224 (429)
T ss_dssp CEEEEEE-BBTT-CSB---STTEEEEEEESS-TTSB--T-HHHHHHHHHH
T ss_pred CeEEEEeccccc-CCcc--ccCeEEEEeecCCCCceEee-HHHHHHHHHH
Confidence 999988774332 2211 566777888776543 3333 6666665553
No 212
>PRK08733 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=39.88 E-value=1.8e+02 Score=23.15 Aligned_cols=73 Identities=16% Similarity=0.115 Sum_probs=46.0
Q ss_pred CccccCCCChhHHHHHHHHHHHHHH-cC-Cc--cccHHHHHHHHHcCceeEEEEecCCChh--------------hHHhh
Q 033061 7 NPKAYPLADSNLTITILDLVQQAAN-YK-QL--KKGANEATKTLNRGISEFIVMAADTEPL--------------EILLH 68 (128)
Q Consensus 7 ~p~~~P~~~~~~~~~i~~lL~~a~~-ag-~l--v~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~~~ 68 (128)
..+++|+.+.-+++ ++...|. .| ++ -.|.+++++++++|. .|.+..|-++. .+..-
T Consensus 152 ~~vyr~~~n~~~d~----~i~~~R~~~g~~~i~~~~~r~~~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~g 225 (306)
T PRK08733 152 AGMYRRHRNPVFEW----AVKRGRLRYATHMFANEDLRATIKHLKRGG--FLWYAPDQDMRGKDTVFVPFFGHPASTITA 225 (306)
T ss_pred eEEEeCCCCHHHHH----HHHHHHhhcCCcCcCcccHHHHHHHHhCCC--eEEEeCCCCCCCCCcEEeCCCCCchhHHHH
Confidence 34688887776654 2222222 12 22 357899999999885 66666665431 13344
Q ss_pred HHHHHHhCCCCEEEeCC
Q 033061 69 LPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 69 l~~lc~~~~IP~~~~~s 85 (128)
...++...|.|++.+..
T Consensus 226 ~a~LA~~~~apvvp~~~ 242 (306)
T PRK08733 226 THQLARLTGCAVVPYFH 242 (306)
T ss_pred HHHHHHHhCCeEEEEEE
Confidence 45889999999986554
No 213
>PRK10444 UMP phosphatase; Provisional
Probab=39.68 E-value=59 Score=25.33 Aligned_cols=45 Identities=11% Similarity=-0.042 Sum_probs=32.4
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV 78 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I 78 (128)
.+++.-|..++++.+++....++++.++.+.. ...+....+..|+
T Consensus 15 ~~~~~p~a~~~l~~L~~~g~~~~~~Tn~~~~~--~~~~~~~l~~~G~ 59 (248)
T PRK10444 15 DNVAVPGAAEFLHRILDKGLPLVLLTNYPSQT--GQDLANRFATAGV 59 (248)
T ss_pred CCeeCccHHHHHHHHHHCCCeEEEEeCCCCCC--HHHHHHHHHHcCC
Confidence 34678899999999999889999999998753 2333333344555
No 214
>cd02407 PTH2_family Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in bacteria and eukaryotes and Pth2 present in archaea and eukaryotes.
Probab=39.63 E-value=86 Score=21.87 Aligned_cols=42 Identities=17% Similarity=0.198 Sum_probs=31.8
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
........|..|.|+-++|-+. ...+...++..++|++.+-+
T Consensus 40 ~~~~W~~~g~~KvVl~v~~~~~---l~~l~~~a~~~gl~~~~v~D 81 (115)
T cd02407 40 LLRAWELEGQKKVVLKVPSEEE---LLELAKKAKELGLPHSLIQD 81 (115)
T ss_pred HHHHHHhCCCcEEEEECCCHHH---HHHHHHHHHHcCCCeEEEEE
Confidence 4556777888888888887533 47788888999999876653
No 215
>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=39.43 E-value=1.4e+02 Score=21.24 Aligned_cols=57 Identities=11% Similarity=0.195 Sum_probs=37.5
Q ss_pred HHHHHHHcCceeEEEEecCCCh---hhHHhhHHHHHHhCCCCEEEe-CCHHHHhHHhCCCC
Q 033061 41 EATKTLNRGISEFIVMAADTEP---LEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTR 97 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p---~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~ 97 (128)
+..+...+..+.+|-+..|... .+....+..+.+++++|+.++ .....+.+.+|...
T Consensus 49 ~l~~~~~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~v~~ 109 (171)
T cd02969 49 RLAKEYGAKGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFPYLLDETQEVAKAYGAAC 109 (171)
T ss_pred HHHHHHhhCCeEEEEEecCccccccccCHHHHHHHHHHCCCCceEEECCchHHHHHcCCCc
Confidence 3344454456888888877632 123566777778888887554 45568888888864
No 216
>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=39.41 E-value=58 Score=24.93 Aligned_cols=68 Identities=21% Similarity=0.293 Sum_probs=46.2
Q ss_pred HcCCcccc------HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCCCceEEEE
Q 033061 31 NYKQLKKG------ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTRPVIACS 103 (128)
Q Consensus 31 ~ag~lv~G------~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~~v~ 103 (128)
+...+..| .+++.++++.| +++++ +|. +-..+..+|+++++|++= +.|..|+-+|. +.++.++=
T Consensus 56 ~~p~~~vGAGTV~~~e~a~~a~~aG-A~Fiv-----SP~-~~~~v~~~~~~~~i~~iPG~~TptEi~~A~--~~G~~~vK 126 (196)
T PF01081_consen 56 EFPDLLVGAGTVLTAEQAEAAIAAG-AQFIV-----SPG-FDPEVIEYAREYGIPYIPGVMTPTEIMQAL--EAGADIVK 126 (196)
T ss_dssp HHTTSEEEEES--SHHHHHHHHHHT--SEEE-----ESS---HHHHHHHHHHTSEEEEEESSHHHHHHHH--HTT-SEEE
T ss_pred HCCCCeeEEEeccCHHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCcccCCcCCHHHHHHHH--HCCCCEEE
Confidence 34566666 47788888888 77765 465 667779999999999986 88999998884 44433444
Q ss_pred EecC
Q 033061 104 VTSN 107 (128)
Q Consensus 104 i~~~ 107 (128)
+...
T Consensus 127 ~FPA 130 (196)
T PF01081_consen 127 LFPA 130 (196)
T ss_dssp ETTT
T ss_pred Eecc
Confidence 5443
No 217
>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=39.35 E-value=63 Score=24.90 Aligned_cols=49 Identities=16% Similarity=0.120 Sum_probs=29.4
Q ss_pred HHHHHHHHcCceeEEEEe-cCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 40 NEATKTLNRGISEFIVMA-ADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA-~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.++..+++.-.+-++++. .|.... -...+..+++++++|++.+.+|.++
T Consensus 79 ~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~~~P~iivvNK~D~ 128 (237)
T cd04168 79 AEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKLNIPTIIFVNKIDR 128 (237)
T ss_pred HHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHcCCCEEEEEECccc
Confidence 356667766665555543 333222 3455666777888998777666554
No 218
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=39.26 E-value=1e+02 Score=19.85 Aligned_cols=31 Identities=10% Similarity=0.041 Sum_probs=20.1
Q ss_pred HhhHHHHHHhCCCCEEEeC---C---HHHHhHHhCCC
Q 033061 66 LLHLPLLAEDKNVPYVFVP---S---KQALGRACGVT 96 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~~---s---k~eLG~a~G~~ 96 (128)
-.....+.++++|||..+. + +.+|.+.-|..
T Consensus 26 C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g~~ 62 (90)
T cd03028 26 SRKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSNWP 62 (90)
T ss_pred HHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 4666777788889986654 2 34566666654
No 219
>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=39.23 E-value=1e+02 Score=21.65 Aligned_cols=48 Identities=17% Similarity=0.351 Sum_probs=30.4
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCCh-----hhHHhhHHHHHHhCCCCEEEeCC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEP-----LEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p-----~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
-|.+..++.+++|++..|++.. .+- .+....+..+++.+||.++++..
T Consensus 55 p~l~~ll~~~~~g~vd~vvv~~-ldRl~R~~~d~~~~~~~l~~~~gv~l~~~~~ 107 (140)
T cd03770 55 PGFNRMIEDIEAGKIDIVIVKD-MSRLGRNYLKVGLYMEILFPKKGVRFIAIND 107 (140)
T ss_pred HHHHHHHHHHHcCCCCEEEEec-cchhccCHHHHHHHHHHHHhhcCcEEEEecC
Confidence 4566778888899888766643 321 12334445555666999988763
No 220
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=39.05 E-value=72 Score=26.06 Aligned_cols=52 Identities=19% Similarity=0.294 Sum_probs=34.7
Q ss_pred cHHHHHHHHHcCceeEEEEecCC--ChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 38 GANEATKTLNRGISEFIVMAADT--EPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~--~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
.+|++.+.+-+.--++|-|.=|. +. |+..++.+.|.+++||++..-+...+.
T Consensus 134 ~IKE~vR~~I~~A~kVIAIVMD~FTD~-dIf~DLleAa~kR~VpVYiLLD~~~~~ 187 (284)
T PF07894_consen 134 HIKEVVRRMIQQAQKVIAIVMDVFTDV-DIFCDLLEAANKRGVPVYILLDEQNLP 187 (284)
T ss_pred CHHHHHHHHHHHhcceeEEEeeccccH-HHHHHHHHHHHhcCCcEEEEechhcCh
Confidence 45555555544444444444454 45 488999999999999998877665554
No 221
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=38.69 E-value=89 Score=20.73 Aligned_cols=39 Identities=18% Similarity=0.296 Sum_probs=22.6
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+.+...+.++.. ++|...|- ++++++. +..|||++++.
T Consensus 54 ddci~~~~~~~~~-~~VaT~D~---~Lr~~lr---~~~GvPvi~l~ 92 (101)
T PF04900_consen 54 DDCILDLAGKNNK-YIVATQDK---ELRRRLR---KIPGVPVIYLR 92 (101)
T ss_pred HHHHHHHhccCCe-EEEEecCH---HHHHHHh---cCCCCCEEEEE
Confidence 4444444433333 55555554 2555554 68899998875
No 222
>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=38.65 E-value=86 Score=22.00 Aligned_cols=48 Identities=21% Similarity=0.106 Sum_probs=29.2
Q ss_pred ccHHHHHHHHHcCceeEEEEe-cCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMA-ADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA-~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
-|..+.++.+++|++..|++. -|-=.++..+.+..+|+.+||.++.+.
T Consensus 49 p~l~~ll~~i~~g~~d~lvV~~ldRl~R~~~d~~~~~l~~~gv~l~~~~ 97 (134)
T cd03769 49 KGLLKLLEDVLAGKVERVVITYKDRLARFGFELLEELFKAYGVEIVVIN 97 (134)
T ss_pred HHHHHHHHHHHcCCCCEEEEEeccHHHHhhHHHHHHHHHHCCCEEEEEe
Confidence 566678888888886544432 231112234445567888888887765
No 223
>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=38.61 E-value=93 Score=22.09 Aligned_cols=43 Identities=21% Similarity=0.174 Sum_probs=27.5
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+..+.+..+.+..||+..+.... .. +...+.+.+||++.+..
T Consensus 48 ~~~~~~~~~~~~d~ii~~~~~~~~--~~-~~~~~~~~~ip~v~~~~ 90 (269)
T cd01391 48 LEALRDLIQQGVDGIIGPPSSSSA--LA-VVELAAAAGIPVVSLDA 90 (269)
T ss_pred HHHHHHHHHcCCCEEEecCCCHHH--HH-HHHHHHHcCCcEEEecC
Confidence 344555555667777766554332 22 67788899999988764
No 224
>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=38.54 E-value=45 Score=26.10 Aligned_cols=37 Identities=16% Similarity=-0.086 Sum_probs=30.4
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
.+..+||.|-|.-+ .+..+-.+|..+++|++..++-.
T Consensus 90 ~~~DvVi~a~Dn~~--aR~~ln~~c~~~~iplI~~g~~G 126 (234)
T cd01484 90 EQFHIIVNALDNII--ARRYVNGMLIFLIVPLIESGTEG 126 (234)
T ss_pred hCCCEEEECCCCHH--HHHHHHHHHHHcCCCEEEEcccC
Confidence 34789999989744 58999999999999999988643
No 225
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=38.48 E-value=59 Score=25.41 Aligned_cols=47 Identities=23% Similarity=0.411 Sum_probs=35.2
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHH
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRA 92 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a 92 (128)
..++..++..| ++|+| +|+ +...+...|+.+++|++= +.|..|+=.+
T Consensus 75 ~~q~~~a~~aG-a~fiV-----sP~-~~~ev~~~a~~~~ip~~PG~~TptEi~~A 122 (211)
T COG0800 75 PEQARQAIAAG-AQFIV-----SPG-LNPEVAKAANRYGIPYIPGVATPTEIMAA 122 (211)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHhCCCcccCCCCCHHHHHHH
Confidence 46777788777 67765 676 778889999999999974 5566665554
No 226
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=38.32 E-value=69 Score=27.77 Aligned_cols=44 Identities=16% Similarity=0.148 Sum_probs=31.5
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHH----hCCCCEEEeCC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAE----DKNVPYVFVPS 85 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~----~~~IP~~~~~s 85 (128)
+.+.+++...+.+|+-+=|.+.-+..++...|+ +.+||++.+.+
T Consensus 89 i~ei~~~~~p~~ifv~~TC~t~iIGdDle~va~~~~~~~gipVV~v~~ 136 (457)
T CHL00073 89 CLQIKKDRNPSVIVWIGTCTTEIIKMDLEGMAPKLEAEIGIPIVVARA 136 (457)
T ss_pred HHHHHHhCCCCEEEEEccCcHHhhccCHHHHHHHHHHhhCCCEEEEeC
Confidence 334445567888887777766657788888886 67999987653
No 227
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; PDB: 2Z87_A 2Z86_B 2D7R_A 2D7I_A 3CKN_A 3CKQ_A 3CKJ_A 3CKV_A 3CKO_A 2FFU_A ....
Probab=38.29 E-value=31 Score=23.00 Aligned_cols=81 Identities=14% Similarity=0.102 Sum_probs=38.5
Q ss_pred HHHHHHHHHcC---ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC-----CceEEEEEecCCc-
Q 033061 39 ANEATKTLNRG---ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT-----RPVIACSVTSNEA- 109 (128)
Q Consensus 39 ~~~v~kai~~~---kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~-----~~~~~v~i~~~~~- 109 (128)
..+++.++++. ...++|+-...++. +...+..+.+ .+.++.++...+.+|..-+.+ ...-.+.++|.|.
T Consensus 13 l~~~l~sl~~q~~~~~eiivvdd~s~d~-~~~~~~~~~~-~~~~i~~i~~~~n~g~~~~~n~~~~~a~~~~i~~ld~D~~ 90 (169)
T PF00535_consen 13 LERTLESLLKQTDPDFEIIVVDDGSTDE-TEEILEEYAE-SDPNIRYIRNPENLGFSAARNRGIKHAKGEYILFLDDDDI 90 (169)
T ss_dssp HHHHHHHHHHHSGCEEEEEEEECS-SSS-HHHHHHHHHC-CSTTEEEEEHCCCSHHHHHHHHHHHH--SSEEEEEETTEE
T ss_pred HHHHHHHHhhccCCCEEEEEeccccccc-cccccccccc-cccccccccccccccccccccccccccceeEEEEeCCCce
Confidence 45566666554 45665554444444 6666666666 455554443222223332222 1111455666654
Q ss_pred ---hHHHHHHHHHHH
Q 033061 110 ---SQLKTQIQQLKD 121 (128)
Q Consensus 110 ---~~~~~li~~i~~ 121 (128)
..+.++++.+..
T Consensus 91 ~~~~~l~~l~~~~~~ 105 (169)
T PF00535_consen 91 ISPDWLEELVEALEK 105 (169)
T ss_dssp E-TTHHHHHHHHHHH
T ss_pred EcHHHHHHHHHHHHh
Confidence 235555554443
No 228
>PLN02645 phosphoglycolate phosphatase
Probab=38.16 E-value=67 Score=25.73 Aligned_cols=47 Identities=11% Similarity=0.036 Sum_probs=32.6
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
.+.+..|..+.++.+++...+++|+.++.... ....+..+ ++.|+++
T Consensus 42 ~~~~~~ga~e~l~~lr~~g~~~~~~TN~~~~~-~~~~~~~l-~~lGi~~ 88 (311)
T PLN02645 42 GDKLIEGVPETLDMLRSMGKKLVFVTNNSTKS-RAQYGKKF-ESLGLNV 88 (311)
T ss_pred CCccCcCHHHHHHHHHHCCCEEEEEeCCCCCC-HHHHHHHH-HHCCCCC
Confidence 34677899999999999889999999888543 22323333 4455553
No 229
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=38.13 E-value=35 Score=24.26 Aligned_cols=49 Identities=16% Similarity=0.247 Sum_probs=39.4
Q ss_pred CCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 33 KQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 33 g~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
|-|.-|.-++- ++++..++++.++..+.++..-|..++.+-.|-++.+.
T Consensus 21 GfLlaGvg~v~---~~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLIn 69 (121)
T KOG3432|consen 21 GFLLAGVGEVN---ENREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILIN 69 (121)
T ss_pred eeeeecccccc---cCCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEh
Confidence 44566776666 56788999999999999999999999998888776553
No 230
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated
Probab=38.02 E-value=50 Score=27.15 Aligned_cols=40 Identities=15% Similarity=0.197 Sum_probs=31.0
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR 91 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 91 (128)
..-+||.+.|. +. +...+-++|.++++|+++......-|.
T Consensus 116 ~~DlVid~~Dn-~~-~r~~ln~~~~~~~iP~i~~~~~g~~G~ 155 (339)
T PRK07688 116 GVDLIIDATDN-FE-TRFIVNDAAQKYGIPWIYGACVGSYGL 155 (339)
T ss_pred CCCEEEEcCCC-HH-HHHHHHHHHHHhCCCEEEEeeeeeeeE
Confidence 47899999996 44 678999999999999998665444443
No 231
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=37.86 E-value=1.3e+02 Score=25.55 Aligned_cols=61 Identities=18% Similarity=0.272 Sum_probs=40.8
Q ss_pred EEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 54 IVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
+|+|.-.+. +.-++...+++||||++.-. .|.|++-.... +.+.--.+|=+.+.++-.-|.
T Consensus 288 ~VvAKG~d~--~AlkIreiA~e~~Ipi~enp---pLARaLY~~~~-----v~~~IP~e~y~aVaevL~~V~ 348 (363)
T COG1377 288 VVVAKGVDL--VALKIREIAKEHGIPIIENP---PLARALYRQVE-----VGQQIPEELYKAVAEVLAYVY 348 (363)
T ss_pred EEEEeCCcH--HHHHHHHHHHHcCCceecCh---HHHHHHHHhcC-----ccccCCHHHHHHHHHHHHHHH
Confidence 345555544 57899999999999997655 78888777654 344434566555655554443
No 232
>PF14367 DUF4411: Domain of unknown function (DUF4411)
Probab=37.78 E-value=47 Score=24.25 Aligned_cols=67 Identities=19% Similarity=0.229 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHH-HHcCCccccH----------HHHHHHHHcCceeEEEEecCCC-hhh--HHhhHHHHHHhCCCCEEE
Q 033061 17 NLTITILDLVQQA-ANYKQLKKGA----------NEATKTLNRGISEFIVMAADTE-PLE--ILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 17 ~~~~~i~~lL~~a-~~ag~lv~G~----------~~v~kai~~~kakLVilA~D~~-p~~--~~~~l~~lc~~~~IP~~~ 82 (128)
.....+.+++..+ ...++...|. .-+..|...|- .|+..... |+. ..-++|+.|+..|||++.
T Consensus 74 ~~~~~~~~v~~~~~~~~~~~~~~a~~~f~~~ADp~LIA~A~~~~~---~VVT~E~~~~~~~~~~~KIPdvC~~~gV~ci~ 150 (162)
T PF14367_consen 74 AIQAEYAEVLNWVIINSQQYKKGAKDEFLSVADPWLIAYAKAYGA---TVVTHEVSNPNKKKKKIKIPDVCEHFGVPCIN 150 (162)
T ss_pred HHHHHHHHHHHHHhhcchhhchhHHhhhcccCCHHHHHHHHhcCC---EEEccCCCCCCCCccCCCCChhHHhCCCcCCC
Confidence 4556677777763 4444443332 22344444332 66666655 331 146799999999999987
Q ss_pred eCCH
Q 033061 83 VPSK 86 (128)
Q Consensus 83 ~~sk 86 (128)
....
T Consensus 151 ~~~~ 154 (162)
T PF14367_consen 151 LFEF 154 (162)
T ss_pred HHHH
Confidence 6543
No 233
>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=37.64 E-value=1.1e+02 Score=19.48 Aligned_cols=45 Identities=11% Similarity=0.118 Sum_probs=31.4
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+...+..+.+....++++-..+..- .-......|++++||++.+.
T Consensus 20 i~~~Ld~~~~~~~~~~lvhGga~~G-aD~iA~~wA~~~gv~~~~~~ 64 (71)
T PF10686_consen 20 IWAALDKVHARHPDMVLVHGGAPKG-ADRIAARWARERGVPVIRFP 64 (71)
T ss_pred HHHHHHHHHHhCCCEEEEECCCCCC-HHHHHHHHHHHCCCeeEEeC
Confidence 3455666667777788888877222 33666789999999987653
No 234
>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=37.64 E-value=41 Score=23.92 Aligned_cols=49 Identities=8% Similarity=-0.036 Sum_probs=31.3
Q ss_pred ccHHHHHHHHHcCceeEEEEecC------C---------ChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 37 KGANEATKTLNRGISEFIVMAAD------T---------EPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D------~---------~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+.++.++.+++..+++|++..- . ....+-.-+..+|++++++++-+.+
T Consensus 83 ~~~~~li~~~~~~~~~~il~~~~p~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~v~~vd~~~ 146 (183)
T cd04501 83 DNIRSMVELAEANGIKVILASPLPVDDYPWKPQWLRPANKLKSLNRWLKDYARENGLLFLDFYS 146 (183)
T ss_pred HHHHHHHHHHHHCCCcEEEEeCCCcCccccchhhcchHHHHHHHHHHHHHHHHHcCCCEEechh
Confidence 44555666666666777776511 1 0112455678999999999987765
No 235
>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=37.61 E-value=57 Score=25.73 Aligned_cols=48 Identities=17% Similarity=0.107 Sum_probs=29.4
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHH
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~e 88 (128)
++..+++.-.+-++++............+..+++.+++|++.+.+|.+
T Consensus 87 ~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D 134 (267)
T cd04169 87 DTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLD 134 (267)
T ss_pred HHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCc
Confidence 466777766666666644332221334566778888999877666544
No 236
>PRK09932 glycerate kinase II; Provisional
Probab=37.59 E-value=1.7e+02 Score=24.77 Aligned_cols=53 Identities=15% Similarity=0.187 Sum_probs=38.5
Q ss_pred cCCccccHHHHHHHHHc----CceeEEEEecCCChhh-----HHhhHHHHHHhCCCCEEEeC
Q 033061 32 YKQLKKGANEATKTLNR----GISEFIVMAADTEPLE-----ILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~----~kakLVilA~D~~p~~-----~~~~l~~lc~~~~IP~~~~~ 84 (128)
..++.+|.+-|.+.+.= ..+-|||..+-.-... +--.+-.+|+++++|++.+.
T Consensus 262 ~a~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qt~~GK~p~~Va~~A~~~~~Pvi~i~ 323 (381)
T PRK09932 262 NADIKPGIEIVLNAVNLEQAVQGAALVITGEGRIDSQTAGGKAPLGVASVAKQFNVPVIGIA 323 (381)
T ss_pred CCEEccHHHHHHHhcChHHHhccCCEEEECCCcccccccCCccHHHHHHHHHHcCCCEEEEe
Confidence 34688999999888722 4589999988653221 34567789999999987653
No 237
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=37.57 E-value=2.2e+02 Score=24.89 Aligned_cols=45 Identities=20% Similarity=0.186 Sum_probs=32.9
Q ss_pred cCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHH
Q 033061 48 RGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRA 92 (128)
Q Consensus 48 ~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 92 (128)
+|..++.+++.|....-..+.+..+++.+++|+....+..++-..
T Consensus 284 ~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~a 328 (484)
T PRK06995 284 HGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLA 328 (484)
T ss_pred cCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHH
Confidence 344577888999864445677889999999999877766554444
No 238
>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=37.39 E-value=74 Score=27.73 Aligned_cols=60 Identities=17% Similarity=0.246 Sum_probs=36.3
Q ss_pred ChhhHHhhHHHHHHhCCCCEEEeCC----H----HHHhHHhCCCCceEEEEEe-cCC---chHHHHHHHHHHHHHhh
Q 033061 61 EPLEILLHLPLLAEDKNVPYVFVPS----K----QALGRACGVTRPVIACSVT-SNE---ASQLKTQIQQLKDAIEK 125 (128)
Q Consensus 61 ~p~~~~~~l~~lc~~~~IP~~~~~s----k----~eLG~a~G~~~~~~~v~i~-~~~---~~~~~~li~~i~~~~~~ 125 (128)
++. -...+....++++|+++++.. + +.|.+-.|.+. +.+. +.. ...|.++++.+-+++..
T Consensus 405 S~~-~L~~Li~~IK~~~V~~IF~Epq~~~~~~~l~~IA~e~Gv~V----~~l~~d~l~~~~~tY~~~M~~N~~~L~~ 476 (479)
T TIGR03772 405 SLA-DRRRLTRTIENLKVPAVFLEPNLAARSTTLNEIADELGVRV----CAIYGDTFDDDVTNYVDLMRFNADSLAD 476 (479)
T ss_pred CHH-HHHHHHHHHHHcCCCEEEEeCCCCCchHHHHHHHHHcCCcE----EeeecCCCCCccccHHHHHHHHHHHHHH
Confidence 454 357778888999999988742 2 45666666542 2232 222 24677777666666544
No 239
>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=37.32 E-value=1.1e+02 Score=23.79 Aligned_cols=41 Identities=20% Similarity=0.218 Sum_probs=23.6
Q ss_pred HHHHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.++.+...++.-+|+ +.|. . ........++..+||++.++
T Consensus 48 ~~i~~l~~~~vdgiii~~~~~--~-~~~~~~~~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVDP--T-AAQTVINKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecCch--h-hHHHHHHHHHHCCCCEEEeC
Confidence 4555555556654444 4443 2 22344455678899998874
No 240
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=37.25 E-value=1.5e+02 Score=22.75 Aligned_cols=55 Identities=5% Similarity=0.061 Sum_probs=37.1
Q ss_pred HHHHHHHcCceeEEEE-ecCCChhh---HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC
Q 033061 41 EATKTLNRGISEFIVM-AADTEPLE---ILLHLPLLAEDKNVPYVFVPSKQALGRACGVT 96 (128)
Q Consensus 41 ~v~kai~~~kakLVil-A~D~~p~~---~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~ 96 (128)
.+..++..|.+.+|.+ ..|.+..+ +..++..+|+.+++|++ +.+..++...+|-+
T Consensus 31 ~l~~al~~G~v~~vQlR~K~l~~~~~~~~a~~l~~l~~~~gv~li-INd~~dlA~~~~ad 89 (221)
T PRK06512 31 LLRAALQGGDVASVILPQYGLDEATFQKQAEKLVPVIQEAGAAAL-IAGDSRIAGRVKAD 89 (221)
T ss_pred HHHHHHcCCCccEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEEE-EeCHHHHHHHhCCC
Confidence 4445566664454444 56666553 46788899999999965 56678888777643
No 241
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=37.08 E-value=1.2e+02 Score=20.44 Aligned_cols=46 Identities=20% Similarity=0.192 Sum_probs=32.6
Q ss_pred cHHHHHHHHHcCceeEEEEecCC----ChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADT----EPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~----~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
|.++.++.+++++...|++.+-. ++. -...+...+..+||+++++.
T Consensus 53 ~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~~-~~~~~~~~l~~~gi~l~~~~ 102 (137)
T cd00338 53 GLQRLLADVKAGKIDVVLVEKLDRLSRNLV-DLLELLELLEAHGVRVVTAD 102 (137)
T ss_pred HHHHHHHHHHcCCCCEEEEEecchhhCCHH-HHHHHHHHHHHCCCEEEEec
Confidence 67788888888887766665433 233 23556778889999988876
No 242
>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=37.02 E-value=1e+02 Score=23.00 Aligned_cols=42 Identities=17% Similarity=0.137 Sum_probs=23.8
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.++.+...++.-+|+..- ++. ........+++.+||++.+.
T Consensus 51 ~~~~~~~~~~vdgiIi~~~-~~~-~~~~~l~~~~~~~iPvv~~~ 92 (272)
T cd06300 51 ADIRNLIAQGVDAIIINPA-SPT-ALNPVIEEACEAGIPVVSFD 92 (272)
T ss_pred HHHHHHHHcCCCEEEEeCC-Chh-hhHHHHHHHHHCCCeEEEEe
Confidence 4444445567766666542 222 22333456677899998765
No 243
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=36.93 E-value=57 Score=28.36 Aligned_cols=78 Identities=22% Similarity=0.264 Sum_probs=50.9
Q ss_pred HHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC---CHHHH-----hHHhCCCCceEEEEEecCC----chH
Q 033061 44 KTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP---SKQAL-----GRACGVTRPVIACSVTSNE----ASQ 111 (128)
Q Consensus 44 kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~---sk~eL-----G~a~G~~~~~~~v~i~~~~----~~~ 111 (128)
+.+++..-+..++|.|+...--.+.+..++++.+||++-.+ +..++ -++ ++...=++.|+-.+ +++
T Consensus 122 ~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~a--k~~~~DvvIvDTAGRl~ide~ 199 (451)
T COG0541 122 KYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKA--KEEGYDVVIVDTAGRLHIDEE 199 (451)
T ss_pred HHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHH--HHcCCCEEEEeCCCcccccHH
Confidence 45677778999999999754478999999999999987653 33444 333 33332234444322 356
Q ss_pred HHHHHHHHHHHH
Q 033061 112 LKTQIQQLKDAI 123 (128)
Q Consensus 112 ~~~li~~i~~~~ 123 (128)
+.+-+.+|++.+
T Consensus 200 Lm~El~~Ik~~~ 211 (451)
T COG0541 200 LMDELKEIKEVI 211 (451)
T ss_pred HHHHHHHHHhhc
Confidence 666666666654
No 244
>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=36.87 E-value=1e+02 Score=26.61 Aligned_cols=46 Identities=9% Similarity=0.053 Sum_probs=28.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
++..+.|.+-++.+||.+.++++. ... ++.++||-++..-++.+|.
T Consensus 272 ~~~v~~i~~~g~~lvi~~~~I~~~-al~----~L~~~gI~~v~~v~~~~L~ 317 (519)
T TIGR02339 272 KEMVDKIADAGANVVFCQKGIDDL-AQH----YLAKAGILAVRRVKKSDIE 317 (519)
T ss_pred HHHHHHHHhcCCcEEEECCCccHH-HHH----HHHHCCCEEEecCCHHHHH
Confidence 344456666678888888888775 322 2346777666655554433
No 245
>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=36.84 E-value=1e+02 Score=19.06 Aligned_cols=61 Identities=11% Similarity=0.127 Sum_probs=34.6
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC-CHHHHhHHhCCCCceEEEEEecC
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP-SKQALGRACGVTRPVIACSVTSN 107 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~~~~~~v~i~~~ 107 (128)
.+...+..+.++.+..|.. +.+.+..+.++++.|+.++. ...++.+..|....- ...+.|+
T Consensus 45 ~~~~~~~~~~~~~v~~d~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P-~~~l~d~ 106 (116)
T cd02966 45 AKEYKDDGVEVVGVNVDDD---DPAAVKAFLKKYGITFPVLLDPDGELAKAYGVRGLP-TTFLIDR 106 (116)
T ss_pred HHHhCCCCeEEEEEECCCC---CHHHHHHHHHHcCCCcceEEcCcchHHHhcCcCccc-eEEEECC
Confidence 3334344566777766664 23444555566667665443 447899999885322 3344443
No 246
>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=36.84 E-value=96 Score=25.50 Aligned_cols=105 Identities=13% Similarity=0.188 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHHHHcC-CccccHHHHHHHHHcCceeEEEEec-------C-CChhhHHhhHHHHHHhCCCCEEEeCCHHH
Q 033061 18 LTITILDLVQQAANYK-QLKKGANEATKTLNRGISEFIVMAA-------D-TEPLEILLHLPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 18 ~~~~i~~lL~~a~~ag-~lv~G~~~v~kai~~~kakLVilA~-------D-~~p~~~~~~l~~lc~~~~IP~~~~~sk~e 88 (128)
+-..|++.|+.-.+.. ....=..++...++.-+++++||=+ . ...++....+..+|++..||++-+|+.+.
T Consensus 112 ~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A 191 (302)
T PF05621_consen 112 FYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREA 191 (302)
T ss_pred HHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHH
Confidence 3466777777665443 3444456678888998999998732 2 22345778889999999999999999987
Q ss_pred HhHHhCCC----CceEEEEE-ecCCchHHHHHHHHHHHHH
Q 033061 89 LGRACGVT----RPVIACSV-TSNEASQLKTQIQQLKDAI 123 (128)
Q Consensus 89 LG~a~G~~----~~~~~v~i-~~~~~~~~~~li~~i~~~~ 123 (128)
.-. +..+ .|.-.+.+ -+..+.+|..++.......
T Consensus 192 ~~a-l~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~L 230 (302)
T PF05621_consen 192 YRA-LRTDPQLASRFEPFELPRWELDEEFRRLLASFERAL 230 (302)
T ss_pred HHH-hccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhC
Confidence 653 3332 22222233 2445688988887765544
No 247
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=36.78 E-value=85 Score=24.11 Aligned_cols=42 Identities=12% Similarity=0.215 Sum_probs=26.5
Q ss_pred HHHHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+.+++++|+ +..+++-+|-.. .....+|+++|||+..+..
T Consensus 14 ~al~~~~~~~~l~~~i~~visn~~~----~~~~~~A~~~gIp~~~~~~ 57 (207)
T PLN02331 14 RAIHDACLDGRVNGDVVVVVTNKPG----CGGAEYARENGIPVLVYPK 57 (207)
T ss_pred HHHHHHHHcCCCCeEEEEEEEeCCC----ChHHHHHHHhCCCEEEecc
Confidence 44556667775 455555555422 2236789999999987654
No 248
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=36.43 E-value=66 Score=19.67 Aligned_cols=11 Identities=9% Similarity=0.326 Sum_probs=4.9
Q ss_pred HHHHHhCCCCE
Q 033061 70 PLLAEDKNVPY 80 (128)
Q Consensus 70 ~~lc~~~~IP~ 80 (128)
..+-++++||+
T Consensus 16 k~~L~~~~i~~ 26 (72)
T TIGR02194 16 KKALEEHGIAF 26 (72)
T ss_pred HHHHHHCCCce
Confidence 33334455554
No 249
>TIGR01460 HAD-SF-IIA Haloacid Dehalogenase Superfamily Class (subfamily) IIA. Many of the genes in this subfamily have been annotated as "pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These all refer to the same activity versus a common lab test compound used to determine phosphatase activity. There is no evidence that this activity is physiologically relevant.
Probab=36.34 E-value=90 Score=23.83 Aligned_cols=31 Identities=16% Similarity=0.155 Sum_probs=25.6
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCCh
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTEP 62 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~p 62 (128)
.+....|..+.++.+++....++++.++.+.
T Consensus 12 ~~~~~~~a~e~i~~l~~~g~~~~~~tN~~~~ 42 (236)
T TIGR01460 12 GHKPIPGAAEALNRLRAKGKPVVFLTNNSSR 42 (236)
T ss_pred CCccCcCHHHHHHHHHHCCCeEEEEECCCCC
Confidence 4556778899999999888999999988853
No 250
>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=36.18 E-value=65 Score=26.65 Aligned_cols=33 Identities=21% Similarity=0.302 Sum_probs=25.0
Q ss_pred eeEEEEecCCC---------------hh--hHHhhHHHHHHhCCCCEEEe
Q 033061 51 SEFIVMAADTE---------------PL--EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 51 akLVilA~D~~---------------p~--~~~~~l~~lc~~~~IP~~~~ 83 (128)
-...|+|+|.. |. .-..++..+|.++++|++++
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 46789999963 21 23568889999999998875
No 251
>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=35.95 E-value=82 Score=22.32 Aligned_cols=18 Identities=33% Similarity=0.361 Sum_probs=14.0
Q ss_pred HHhhHHHHHHhCCCCEEE
Q 033061 65 ILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~ 82 (128)
+.....+++++++|||-.
T Consensus 65 ~~~~t~~wL~k~~ipYd~ 82 (126)
T TIGR01689 65 TLPIIILWLNQHNVPYDE 82 (126)
T ss_pred hHHHHHHHHHHcCCCCce
Confidence 335778999999999943
No 252
>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=35.91 E-value=1.1e+02 Score=21.53 Aligned_cols=92 Identities=12% Similarity=0.160 Sum_probs=57.1
Q ss_pred HHHHHHHc-CCcccc---HHHHHHHHHcCceeEEEEec-CCChh------hHHhhHHHHHHhCCCCEEEeCCHHHHhHHh
Q 033061 25 LVQQAANY-KQLKKG---ANEATKTLNRGISEFIVMAA-DTEPL------EILLHLPLLAEDKNVPYVFVPSKQALGRAC 93 (128)
Q Consensus 25 lL~~a~~a-g~lv~G---~~~v~kai~~~kakLVilA~-D~~p~------~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~ 93 (128)
+...|..- +.+..| ..++.+...-....+++.=. |-.+. ...+.+..+-+.+..|.+...|.+...+..
T Consensus 12 f~~~A~~~~~~~~F~~~~~~~~~~~~~~~~p~i~~~k~~~~~~~~y~~~~~~~~~l~~fI~~~~~P~v~~~t~~n~~~~~ 91 (184)
T PF13848_consen 12 FEEAAEKLKGDYQFGVTFNEELAKKYGIKEPTIVVYKKFDEKPVVYDGDKFTPEELKKFIKKNSFPLVPELTPENFEKLF 91 (184)
T ss_dssp HHHHHHHHTTTSEEEEEE-HHHHHHCTCSSSEEEEEECTTTSEEEESSSTTSHHHHHHHHHHHSSTSCEEESTTHHHHHH
T ss_pred HHHHHHhCcCCcEEEEEcHHHHHHHhCCCCCcEEEeccCCCCceecccccCCHHHHHHHHHHhccccccccchhhHHHHh
Confidence 33344443 356666 44566666555566665533 22110 157888999999999999888888999999
Q ss_pred CCCCceEEEEEecCCchHHHHHH
Q 033061 94 GVTRPVIACSVTSNEASQLKTQI 116 (128)
Q Consensus 94 G~~~~~~~v~i~~~~~~~~~~li 116 (128)
+.+.+..++.+.+.+.....+..
T Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~ 114 (184)
T PF13848_consen 92 SSPKPPVLILFDNKDNESTEAFK 114 (184)
T ss_dssp STSSEEEEEEEETTTHHHHHHHH
T ss_pred cCCCceEEEEEEcCCchhHHHHH
Confidence 99887544555544444443333
No 253
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=35.91 E-value=95 Score=25.49 Aligned_cols=44 Identities=20% Similarity=0.309 Sum_probs=27.0
Q ss_pred HHHHHHHHcCceeEEEEecCCC------hhhHHhhHH---HHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRGISEFIVMAADTE------PLEILLHLP---LLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~------p~~~~~~l~---~lc~~~~IP~~~~~ 84 (128)
.++++.++..++-+||+|.|.- +. ....+. ...+.-+||++.+.
T Consensus 30 ~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~-a~~~~~~~l~~l~~~~Ipv~~I~ 82 (390)
T COG0420 30 DELLEIAKEEKVDFVLIAGDLFDTNNPSPR-ALKLFLEALRRLKDAGIPVVVIA 82 (390)
T ss_pred HHHHHHHHHccCCEEEEccccccCCCCCHH-HHHHHHHHHHHhccCCCcEEEec
Confidence 4566667777889999999983 22 222222 22233679986653
No 254
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=35.88 E-value=52 Score=27.25 Aligned_cols=33 Identities=21% Similarity=0.302 Sum_probs=24.7
Q ss_pred eeEEEEecCCC---------------hh--hHHhhHHHHHHhCCCCEEEe
Q 033061 51 SEFIVMAADTE---------------PL--EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 51 akLVilA~D~~---------------p~--~~~~~l~~lc~~~~IP~~~~ 83 (128)
-...|+|+|.. |. +-..++..+|.++++|++++
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 46788999862 21 23467889999999998875
No 255
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=35.83 E-value=73 Score=26.84 Aligned_cols=49 Identities=18% Similarity=0.178 Sum_probs=34.7
Q ss_pred ccHHHHHHHHHc-----CceeEEEEecCCChhhHHhhHHHHHHh----C-CCCEEEeCC
Q 033061 37 KGANEATKTLNR-----GISEFIVMAADTEPLEILLHLPLLAED----K-NVPYVFVPS 85 (128)
Q Consensus 37 ~G~~~v~kai~~-----~kakLVilA~D~~p~~~~~~l~~lc~~----~-~IP~~~~~s 85 (128)
-|.+...++|++ .+.+++++..-|.+.-+-+.+...|++ . ++|++.+.+
T Consensus 79 Gg~~~L~~ai~ei~~~~~~P~~I~V~tTC~~e~IGDDi~~v~~e~~~~~~~~pvv~v~t 137 (427)
T PRK02842 79 DANEELDRVVEELIKRRPNISVLFLVGSCPSEVIKLDLEGLAERLSTEFAGVPVLNYSG 137 (427)
T ss_pred CcHHHHHHHHHHHHhccCCCCEEEEECCChHHhhcCCHHHHHHHhhcccCCCeEEEeeC
Confidence 455555666655 578999999999887566778777753 2 799987543
No 256
>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=35.79 E-value=1e+02 Score=22.98 Aligned_cols=42 Identities=17% Similarity=0.226 Sum_probs=24.3
Q ss_pred HHHHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.++.+.+.++.-+|+ +.|. +. ...+...+.+++||++.+++
T Consensus 47 ~~i~~l~~~~vdgiii~~~~~-~~--~~~~~~~l~~~~iPvv~~~~ 89 (272)
T cd06301 47 SQVENFIAQGVDAIIVVPVDT-AA--TAPIVKAANAAGIPLVYVNR 89 (272)
T ss_pred HHHHHHHHcCCCEEEEecCch-hh--hHHHHHHHHHCCCeEEEecC
Confidence 4444455556654544 4443 32 23445667889999987764
No 257
>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=35.71 E-value=1e+02 Score=26.80 Aligned_cols=40 Identities=8% Similarity=0.049 Sum_probs=25.9
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
.++.|.+..+.+||.+.++++. . ..++.++||..+...++
T Consensus 283 ~l~~i~~~g~~lvi~~~~I~~~-a----l~~L~~~~i~~v~~~~~ 322 (532)
T TIGR02343 283 MIDDIKKSGANIVICQWGFDDE-A----NHLLLQNDLPAVRWVGG 322 (532)
T ss_pred HHHHHHHcCCCEEEeCCCccHH-H----HHHHHHCCcEEEEcCCH
Confidence 3445555667899999998876 2 33456667766655444
No 258
>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=35.71 E-value=1.1e+02 Score=26.27 Aligned_cols=44 Identities=9% Similarity=0.043 Sum_probs=26.9
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
+..+.|.+-++.+||.+.++++. ... ++.++||-++..-++.+|
T Consensus 270 ~~v~~i~~~g~~lvi~~~~I~~~-al~----~l~~~gI~~v~~v~~~~l 313 (517)
T cd03343 270 EMVDKIADTGANVVFCQKGIDDL-AQH----YLAKAGILAVRRVKKSDM 313 (517)
T ss_pred HHHHHHHhcCCCEEEeCCCccHH-HHH----HHhHCCcEEEEeCCHHHH
Confidence 34446666667888888888775 322 223577766655555443
No 259
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=35.71 E-value=77 Score=21.68 Aligned_cols=20 Identities=10% Similarity=0.144 Sum_probs=15.2
Q ss_pred HHHHhCCCCEEEeCCHHHHh
Q 033061 71 LLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 71 ~lc~~~~IP~~~~~sk~eLG 90 (128)
..+...++|++.+++|.++-
T Consensus 100 ~~~~~~~~~~~iv~nK~D~~ 119 (161)
T cd01863 100 TYSTNNDIVKMLVGNKIDKE 119 (161)
T ss_pred HhCCCCCCcEEEEEECCccc
Confidence 44556789999888887765
No 260
>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=35.66 E-value=1.4e+02 Score=21.93 Aligned_cols=63 Identities=14% Similarity=0.054 Sum_probs=37.8
Q ss_pred HHHHHHHHHHH-HcC--CccccHHHHHHHHHcCceeEEEEecCCChhh---HHhhHHHHHHh----CCCCEEE
Q 033061 20 ITILDLVQQAA-NYK--QLKKGANEATKTLNRGISEFIVMAADTEPLE---ILLHLPLLAED----KNVPYVF 82 (128)
Q Consensus 20 ~~i~~lL~~a~-~ag--~lv~G~~~v~kai~~~kakLVilA~D~~p~~---~~~~l~~lc~~----~~IP~~~ 82 (128)
+.+.+.+.... ..| .+-.|.+...+.+..++.+.||+-.|..++. ....+..+.+. .+|++..
T Consensus 101 ~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~~~i~i~~ 173 (206)
T cd01456 101 SALDAALNSLQTPTGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDPCEVARELAKRRTPAPPIKVNV 173 (206)
T ss_pred HHHHHHHHhhcCCCCcChHHHHHHHHHHHhCCCCcceEEEEcCCCccCCCCHHHHHHHHHHhcCCCCCceEEE
Confidence 44444444443 333 2667777777777666668899988887652 13445555555 4777644
No 261
>PRK08734 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=35.62 E-value=1.6e+02 Score=23.49 Aligned_cols=73 Identities=14% Similarity=0.078 Sum_probs=46.3
Q ss_pred CccccCCCChhHHHHHHHHHHHHHHc-C-Ccc----ccHHHHHHHHHcCceeEEEEecCCChh--------------hHH
Q 033061 7 NPKAYPLADSNLTITILDLVQQAANY-K-QLK----KGANEATKTLNRGISEFIVMAADTEPL--------------EIL 66 (128)
Q Consensus 7 ~p~~~P~~~~~~~~~i~~lL~~a~~a-g-~lv----~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~ 66 (128)
..+++|.-++.+++ ++...|.. | .++ .|.+++.+++++|. +|.+..|-++. .+.
T Consensus 139 ~~vyr~~~n~~~d~----~~~~~R~~~g~~~i~~~~~~~r~li~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FfG~~a~t~ 212 (305)
T PRK08734 139 AIVYRPPESEAVDG----FLQLVRGGDNVRQVRAEGPAVRQLFKVLKDGG--AVGILPDQQPKMGDGVFAPFFGIPALTM 212 (305)
T ss_pred eEEEeCCCCHHHHH----HHHHHhccCCCeeecCCchhHHHHHHHHhcCC--eEEEeCCCCCCCCCCeEeccCCCccchh
Confidence 44688886666553 33333332 2 333 25789999999886 77777777642 123
Q ss_pred hhHHHHHHhCCCCEEEeCC
Q 033061 67 LHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~~s 85 (128)
.-...++...|.|++.+..
T Consensus 213 ~g~a~LA~~~~apVvp~~~ 231 (305)
T PRK08734 213 TLVNRLAERTGATVLYGWC 231 (305)
T ss_pred hHHHHHHHHhCCeEEEEEE
Confidence 3445788899999886654
No 262
>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=35.62 E-value=79 Score=24.93 Aligned_cols=24 Identities=17% Similarity=0.151 Sum_probs=19.3
Q ss_pred CChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 60 TEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 60 ~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+|. -...+..+.++++|+++++.
T Consensus 194 ps~~-~l~~l~~~ik~~~v~~if~e 217 (276)
T cd01016 194 AGLR-DINELVDLIVERKIKAIFVE 217 (276)
T ss_pred CCHH-HHHHHHHHHHHcCCCEEEEe
Confidence 4565 56888899999999998874
No 263
>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=35.58 E-value=73 Score=27.19 Aligned_cols=48 Identities=15% Similarity=0.232 Sum_probs=34.6
Q ss_pred CCCCCC-ccccC---CCChhHH---HHHHHHHHHHHHcCCccccHHHHHHHHHcCc
Q 033061 2 TGEAVN-PKAYP---LADSNLT---ITILDLVQQAANYKQLKKGANEATKTLNRGI 50 (128)
Q Consensus 2 ~~~~~~-p~~~P---~~~~~~~---~~i~~lL~~a~~ag~lv~G~~~v~kai~~~k 50 (128)
||+... +-..| |.++|.+ ++++.+.....+.|-+-. .+-|.++.+.|+
T Consensus 392 tg~~~~~~~~~~~~~mt~eeke~ea~~l~~lf~rl~~~g~i~~-~npv~~~~~~Gr 446 (446)
T PF10165_consen 392 TGQREDAEKPNPMPEMTEEEKEREAERLFVLFDRLEKTGVIQV-QNPVRQAGQDGR 446 (446)
T ss_pred cCCCCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhCCCcCc-chhhhhhhccCC
Confidence 666666 33333 5566665 788999999999987754 788888888775
No 264
>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=35.54 E-value=1.2e+02 Score=22.09 Aligned_cols=69 Identities=6% Similarity=0.040 Sum_probs=41.9
Q ss_pred cCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH----HhCCCC-ceEEEEEecC--CchHHHHHHHHHHHHHhhh
Q 033061 58 ADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR----ACGVTR-PVIACSVTSN--EASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 58 ~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~----a~G~~~-~~~~v~i~~~--~~~~~~~li~~i~~~~~~~ 126 (128)
..++..|+...+...+++++.++.+++++++... .+...+ ...+++..++ +.++-.++++.|..+=+++
T Consensus 29 ~rv~g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdi 104 (172)
T PF03808_consen 29 ERVTGSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDI 104 (172)
T ss_pred cccCHHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCE
Confidence 4555666788888888888888888887765544 333333 4434444443 2456666666666554443
No 265
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They 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 TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a
Probab=35.53 E-value=1.4e+02 Score=20.04 Aligned_cols=53 Identities=17% Similarity=0.355 Sum_probs=32.0
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhC-CCCEEEe-CCHHHHhHHhCCCCc
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDK-NVPYVFV-PSKQALGRACGVTRP 98 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~-~IP~~~~-~sk~eLG~a~G~~~~ 98 (128)
+..+.++.+.+.++.+..|. +. .+..+.+++ +.++-.+ .....+++.+|....
T Consensus 47 ~~~~~~~~~~~~~i~is~d~-~~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~g~~~~ 101 (140)
T cd02971 47 DLAEEFAKGGAEVLGVSVDS-PF----SHKAWAEKEGGLNFPLLSDPDGEFAKAYGVLIE 101 (140)
T ss_pred HHHHHHHHCCCEEEEEeCCC-HH----HHHHHHhcccCCCceEEECCChHHHHHcCCccc
Confidence 33444445668888888874 32 234455555 5555443 345689999887644
No 266
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=35.45 E-value=75 Score=20.89 Aligned_cols=40 Identities=25% Similarity=0.336 Sum_probs=30.1
Q ss_pred HHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE-EeCCH
Q 033061 46 LNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV-FVPSK 86 (128)
Q Consensus 46 i~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~-~~~sk 86 (128)
+++....++++.++.... +.+.+..+-+++.-|++ .++++
T Consensus 38 ~~~~~~gIIii~e~~~~~-~~~~l~~~~~~~~~P~iv~IP~~ 78 (95)
T PF01990_consen 38 LKDEDVGIIIITEDLAEK-IRDELDEYREESSLPLIVEIPSK 78 (95)
T ss_dssp HHHTTEEEEEEEHHHHTT-HHHHHHHHHHTSSSSEEEEESTT
T ss_pred hcCCCccEEEeeHHHHHH-HHHHHHHHHhccCCceEEEcCCC
Confidence 346778999999988776 78888888777778864 45554
No 267
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=35.39 E-value=66 Score=25.05 Aligned_cols=44 Identities=7% Similarity=0.095 Sum_probs=34.6
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~ 81 (128)
+.+.+.+++++..+..+++-.+.-..+.+.++..+.++.|||++
T Consensus 169 ~~~~l~~a~~~s~~~~a~id~K~l~~~~r~~i~~~l~~~gi~v~ 212 (213)
T PF04414_consen 169 DEDVLRQAIEKSGADVAIIDWKSLKSEDRRRIEELLEELGIEVI 212 (213)
T ss_dssp -HHHHHHHHCHCT-SEEEEETTTS-HHHHHHHHHHHHHHT-EEE
T ss_pred CHHHHHHHHHhCCCcEEEEecCCCCHHHHHHHHHHHHHcCCeee
Confidence 46778888888888888888888777789999999999999986
No 268
>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=35.35 E-value=1.3e+02 Score=20.60 Aligned_cols=47 Identities=28% Similarity=0.238 Sum_probs=30.8
Q ss_pred ccHHHHHHHHHcCceeEEEEecCC----ChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMAADT----EPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~----~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
-|.++.++.+++|++..|++.+=. ++.+ ...+...|..+||.+++..
T Consensus 52 p~l~~ll~~~~~g~~~~ivv~~~~Rl~R~~~~-~~~~~~~l~~~gi~l~~~~ 102 (148)
T smart00857 52 PGLQRLLADLRAGDIDVLVVYKLDRLGRSLRD-LLALLELLEKKGVRLVSVT 102 (148)
T ss_pred HHHHHHHHHHHcCCCCEEEEeccchhhCcHHH-HHHHHHHHHHCCCEEEECc
Confidence 356778888888887655554322 1332 3445678889999988765
No 269
>PRK10867 signal recognition particle protein; Provisional
Probab=35.35 E-value=2.9e+02 Score=23.72 Aligned_cols=41 Identities=20% Similarity=0.196 Sum_probs=30.3
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC---CHHHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP---SKQALG 90 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~---sk~eLG 90 (128)
..+.++++.|.......+.+..++++.+||++..+ +..++-
T Consensus 129 G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~ 172 (433)
T PRK10867 129 KKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIA 172 (433)
T ss_pred CCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHH
Confidence 46788899998655456788899999999987653 444554
No 270
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=35.21 E-value=54 Score=27.07 Aligned_cols=35 Identities=20% Similarity=0.107 Sum_probs=28.6
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+..+||-|.|..+ ....+.++|.+++||+++....
T Consensus 225 ~~D~Vv~~~d~~~--~r~~ln~~~~~~~ip~i~~~~~ 259 (376)
T PRK08762 225 DVDVVVDGADNFP--TRYLLNDACVKLGKPLVYGAVF 259 (376)
T ss_pred CCCEEEECCCCHH--HHHHHHHHHHHcCCCEEEEEec
Confidence 4789999999743 5778999999999999987543
No 271
>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional
Probab=35.09 E-value=59 Score=26.73 Aligned_cols=35 Identities=20% Similarity=0.269 Sum_probs=28.5
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+.-+||.+.|.. . +.-.+.++|.++++|+++.+..
T Consensus 116 ~~DlVid~~D~~-~-~r~~in~~~~~~~ip~i~~~~~ 150 (338)
T PRK12475 116 EVDLIIDATDNF-D-TRLLINDLSQKYNIPWIYGGCV 150 (338)
T ss_pred CCCEEEEcCCCH-H-HHHHHHHHHHHcCCCEEEEEec
Confidence 478999999864 3 5778999999999999987543
No 272
>PLN02721 threonine aldolase
Probab=35.09 E-value=1.1e+02 Score=24.00 Aligned_cols=44 Identities=9% Similarity=0.107 Sum_probs=28.9
Q ss_pred HHHHHHHHHc------CceeEEEEecCC-------ChhhHHhhHHHHHHhCCCCEEE
Q 033061 39 ANEATKTLNR------GISEFIVMAADT-------EPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 39 ~~~v~kai~~------~kakLVilA~D~-------~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
.....+++.+ .+.++|++..-. -+.+-.+.+.++|+++|++++.
T Consensus 120 ~~~l~~~i~~~~~~~~~~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~g~~liv 176 (353)
T PLN02721 120 LDAIEAAIRPKGDDHFPTTRLICLENTHANCGGRCLSVEYTDKVGELAKRHGLKLHI 176 (353)
T ss_pred HHHHHHHHHhccCCCCCcceEEEEeccccccCCccccHHHHHHHHHHHHHcCCEEEE
Confidence 3556666653 367888885421 1222367899999999999854
No 273
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=35.08 E-value=1.4e+02 Score=25.01 Aligned_cols=74 Identities=12% Similarity=0.154 Sum_probs=47.6
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCC-EEEeCCHHHHhHHhCCCCceEEEEEecCCch
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVIACSVTSNEAS 110 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP-~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~ 110 (128)
++.-.-|+..+-.-|-=-+++||.=-++. ....|..+|+..|.- ++.+.+.+||-+++... ++.+++|.+.+=.
T Consensus 189 FIID~yQI~eAr~~GADAVLLIaaiL~~~-~L~~l~~~A~~LGme~LVEVH~~~ElerAl~~~-ga~iIGINNRdL~ 263 (338)
T PLN02460 189 FIVDAWQIYYARSKGADAILLIAAVLPDL-DIKYMLKICKSLGMAALIEVHDEREMDRVLGIE-GVELIGINNRSLE 263 (338)
T ss_pred ccCCHHHHHHHHHcCCCcHHHHHHhCCHH-HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHhcC-CCCEEEEeCCCCC
Confidence 33444444444444433333344444554 568889999999995 68999999999997652 3457888876543
No 274
>PRK14106 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=35.04 E-value=1.9e+02 Score=24.03 Aligned_cols=64 Identities=13% Similarity=0.079 Sum_probs=41.1
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEe-cCCchHHHHHHHHHHH
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVT-SNEASQLKTQIQQLKD 121 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~-~~~~~~~~~li~~i~~ 121 (128)
+..-+||.+....+. ......|+++|||+..-. +-+.+. .. .+ +++|+ .+++...++++..+-.
T Consensus 67 ~~~d~vv~~~g~~~~---~~~~~~a~~~~i~~~~~~--~~~~~~-~~-~~--vI~ITGS~GKTTt~~~l~~iL~ 131 (450)
T PRK14106 67 EGVDLVVVSPGVPLD---SPPVVQAHKKGIEVIGEV--ELAYRF-SK-AP--IVAITGTNGKTTTTTLLGEIFK 131 (450)
T ss_pred hcCCEEEECCCCCCC---CHHHHHHHHCCCcEEeHH--HHHHhh-cC-CC--EEEEeCCCchHHHHHHHHHHHH
Confidence 458899999988765 457788999999987532 112222 12 23 56776 5566666766666543
No 275
>PRK10342 glycerate kinase I; Provisional
Probab=34.73 E-value=2e+02 Score=24.46 Aligned_cols=52 Identities=15% Similarity=0.210 Sum_probs=37.9
Q ss_pred CCccccHHHHHHHHHc----CceeEEEEecCCChh-----hHHhhHHHHHHhCCCCEEEeC
Q 033061 33 KQLKKGANEATKTLNR----GISEFIVMAADTEPL-----EILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 33 g~lv~G~~~v~kai~~----~kakLVilA~D~~p~-----~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.++.+|.+-|.+.+.= ..+-|||..+=.-.. .+--.+-.+|+++++|++.+-
T Consensus 263 a~l~~G~d~v~~~~~l~~~l~~ADLVITGEG~~D~QTl~GK~p~gVa~~A~~~~vPviai~ 323 (381)
T PRK10342 263 AELKSGIEIVTTALNLEEHIHDCTLVITGEGRIDSQSIHGKVPIGVANVAKKYHKPVIGIA 323 (381)
T ss_pred CEECCHHHHHHHhcCHHHHhccCCEEEECCCcCcccccCCccHHHHHHHHHHhCCCEEEEe
Confidence 4788999999887732 458899998764322 144567789999999997653
No 276
>PRK05645 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=34.72 E-value=1.2e+02 Score=23.88 Aligned_cols=72 Identities=17% Similarity=0.156 Sum_probs=45.1
Q ss_pred ccccCCCChhHHHHHHHHHHHHHHc-C-Ccc----ccHHHHHHHHHcCceeEEEEecCCChh--------------hHHh
Q 033061 8 PKAYPLADSNLTITILDLVQQAANY-K-QLK----KGANEATKTLNRGISEFIVMAADTEPL--------------EILL 67 (128)
Q Consensus 8 p~~~P~~~~~~~~~i~~lL~~a~~a-g-~lv----~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~~ 67 (128)
.+++|+.++.+++ ++...|.. | .++ .|.+++++++++|. +|.+..|-++. .+..
T Consensus 139 ~v~r~~~n~~~d~----~~~~~R~~~g~~~i~~~~~~~r~l~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~ 212 (295)
T PRK05645 139 IFYRPPKLKAVDE----LLRKQRVQLGNRVAPSTKEGILSVIKEVRKGG--QVGIPADPEPAESAGIFVPFLGTQALTSK 212 (295)
T ss_pred EEEeCCCCHHHHH----HHHHHhCCCCCeEeecCcccHHHHHHHHhcCC--eEEEcCCCCCCCCCCeEeCCCCCchhhhh
Confidence 4677887666654 33333332 2 333 38999999999886 67777666531 1222
Q ss_pred hHHHHHHhCCCCEEEeCC
Q 033061 68 HLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 68 ~l~~lc~~~~IP~~~~~s 85 (128)
-...++...++|++.+..
T Consensus 213 ~~~~la~~~~~pvv~~~~ 230 (295)
T PRK05645 213 FVPNMLAGGKAVGVFLHA 230 (295)
T ss_pred HHHHHHHhhCCeEEEEEE
Confidence 245777888999887664
No 277
>TIGR01456 CECR5 HAD-superfamily class IIA hydrolase, TIGR01456, CECR5. The Schizosaccharomyces pombe sequence (EGAD|138276) is annotated as "phosphatidyl synthase," however this is due entirely to a C-terminal region of the protein (outside the region of similarity of this model) which is highly homologous to a family of CDP-alcohol phosphatidyltransferases. (Thus, the annotation of GP|4226073 from C. elegans as similar to phosphatidyl synthase, is a mistake as this gene does not contain the C-terminal portion). The physical connection of the phosphatidyl synthase and the HAD-superfamily hydrolase domain in S. pombe may, however, be an important clue to the substrate for the hydrolases in this equivalog.
Probab=34.57 E-value=72 Score=25.69 Aligned_cols=48 Identities=19% Similarity=0.117 Sum_probs=33.4
Q ss_pred HcCCccccHHHHHHHHHcC----ceeEEEEecCCChhhHHhhHHHHHHhCCCC
Q 033061 31 NYKQLKKGANEATKTLNRG----ISEFIVMAADTEPLEILLHLPLLAEDKNVP 79 (128)
Q Consensus 31 ~ag~lv~G~~~v~kai~~~----kakLVilA~D~~p~~~~~~l~~lc~~~~IP 79 (128)
+.+.++.|..+.++.++.. ...++++.++.+.. .......+.++.+++
T Consensus 13 ~g~~~i~ga~eal~~L~~~~~~~g~~~~flTNn~g~s-~~~~~~~l~~~lG~~ 64 (321)
T TIGR01456 13 RGKKPIAGASDALRRLNRNQGQLKIPYIFLTNGGGFS-ERARAEEISSLLGVD 64 (321)
T ss_pred CCccccHHHHHHHHHHhccccccCCCEEEEecCCCCC-HHHHHHHHHHHcCCC
Confidence 3456788899999999886 78889999988643 333344445556654
No 278
>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=34.55 E-value=1.7e+02 Score=20.85 Aligned_cols=67 Identities=21% Similarity=0.238 Sum_probs=45.3
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCC-E-EEeCC------H--HHHhHHhCCCCceEEEEE
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVP-Y-VFVPS------K--QALGRACGVTRPVIACSV 104 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP-~-~~~~s------k--~eLG~a~G~~~~~~~v~i 104 (128)
+..|..++++.+++...++.++..|.... ....+++.+|+ . ++... + .++=+.++.+... ++.|
T Consensus 128 ~~~~~~~~l~~L~~~Gi~~~i~TGD~~~~-----a~~~~~~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~~~~~-v~~v 201 (215)
T PF00702_consen 128 LRPGAKEALQELKEAGIKVAILTGDNEST-----ASAIAKQLGIFDSIVFARVIGKPEPKIFLRIIKELQVKPGE-VAMV 201 (215)
T ss_dssp BHTTHHHHHHHHHHTTEEEEEEESSEHHH-----HHHHHHHTTSCSEEEEESHETTTHHHHHHHHHHHHTCTGGG-EEEE
T ss_pred chhhhhhhhhhhhccCcceeeeecccccc-----ccccccccccccccccccccccccchhHHHHHHHHhcCCCE-EEEE
Confidence 45789999999999888999999887543 24566778884 3 33222 2 6777777755553 4556
Q ss_pred ecC
Q 033061 105 TSN 107 (128)
Q Consensus 105 ~~~ 107 (128)
-|+
T Consensus 202 GDg 204 (215)
T PF00702_consen 202 GDG 204 (215)
T ss_dssp ESS
T ss_pred ccC
Confidence 554
No 279
>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=34.49 E-value=1.1e+02 Score=22.82 Aligned_cols=43 Identities=21% Similarity=0.200 Sum_probs=23.6
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.++.+.+.++.-+|+... ++. ........+.+++||++.+++
T Consensus 46 ~~i~~~~~~~~Dgiii~~~-~~~-~~~~~i~~~~~~~iPvV~~~~ 88 (282)
T cd06318 46 ADVEDLLTRGVNVLIINPV-DPE-GLVPAVAAAKAAGVPVVVVDS 88 (282)
T ss_pred HHHHHHHHcCCCEEEEecC-Ccc-chHHHHHHHHHCCCCEEEecC
Confidence 3455556666655555432 222 122334555678999887764
No 280
>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=34.48 E-value=1.1e+02 Score=21.67 Aligned_cols=57 Identities=19% Similarity=0.240 Sum_probs=34.0
Q ss_pred ccHHHHHHHHHc--CceeEEEEecCCChh--hHHhhHHHHHHhCCCCEE--EeC--CHHHHhHHh
Q 033061 37 KGANEATKTLNR--GISEFIVMAADTEPL--EILLHLPLLAEDKNVPYV--FVP--SKQALGRAC 93 (128)
Q Consensus 37 ~G~~~v~kai~~--~kakLVilA~D~~p~--~~~~~l~~lc~~~~IP~~--~~~--sk~eLG~a~ 93 (128)
.+.....+.|++ .++..||+|.|++.. .+..++..+|...+.|+. .+. |+.++=+|+
T Consensus 75 ~~~~~~~~~ik~l~~~~d~iiiAtD~DrEGE~I~~~i~~~~~~~~~~v~R~~fsslT~~~I~~A~ 139 (142)
T cd01028 75 PDKKKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAF 139 (142)
T ss_pred CcHHHHHHHHHHHHhcCCEEEEcCCCCcchHHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHH
Confidence 344444444443 456899999999843 256677788876445652 222 555555543
No 281
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=34.47 E-value=1e+02 Score=24.87 Aligned_cols=44 Identities=14% Similarity=0.293 Sum_probs=31.3
Q ss_pred ccccH----HHHHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 35 LKKGA----NEATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 35 lv~G~----~~v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++|. ...++++++|. +..+++-+|-.. . ..+|+++|||++.+.
T Consensus 99 l~Sg~g~nl~al~~~~~~~~l~~~i~~visn~~~--~----~~~A~~~gIp~~~~~ 148 (289)
T PRK13010 99 MVSKFDHCLNDLLYRWRMGELDMDIVGIISNHPD--L----QPLAVQHDIPFHHLP 148 (289)
T ss_pred EEeCCCccHHHHHHHHHCCCCCcEEEEEEECChh--H----HHHHHHcCCCEEEeC
Confidence 45775 45555566675 788888888743 2 388999999998753
No 282
>COG4639 Predicted kinase [General function prediction only]
Probab=34.36 E-value=1.8e+02 Score=22.00 Aligned_cols=50 Identities=18% Similarity=0.064 Sum_probs=35.7
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE--EEeCCHHHHh
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY--VFVPSKQALG 90 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~--~~~~sk~eLG 90 (128)
.++....+++|+ ..||=|.+..+. ...++.+||+.|+.-. +.+.+..++=
T Consensus 59 ~~~l~qrl~~Gk-~tiidAtn~rr~-~r~~l~~La~~y~~~~~~ivfdtp~~~c 110 (168)
T COG4639 59 YKQLEQRLRRGK-FTIIDATNLRRE-DRRKLIDLAKAYGYKIYAIVFDTPLELC 110 (168)
T ss_pred HHHHHHHHHcCC-eEEEEcccCCHH-HHHHHHHHHHHhCCeEEEEEEeCCHHHH
Confidence 345556666675 457889999997 7999999999999864 3455654443
No 283
>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=34.34 E-value=84 Score=23.46 Aligned_cols=44 Identities=20% Similarity=0.221 Sum_probs=25.3
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCC-EEEe
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVP-YVFV 83 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP-~~~~ 83 (128)
.++..++..-.+-++++..+-........+..++.+.++| ++.+
T Consensus 80 ~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvv 124 (195)
T cd01884 80 KNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVF 124 (195)
T ss_pred HHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEE
Confidence 4556666666666666665543222234455667778887 4343
No 284
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including 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 this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=34.33 E-value=1.8e+02 Score=21.00 Aligned_cols=70 Identities=19% Similarity=0.108 Sum_probs=39.1
Q ss_pred CCCChhHHHHHHHHHHHHHHc-CC-cc---cc-----HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE
Q 033061 12 PLADSNLTITILDLVQQAANY-KQ-LK---KG-----ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 12 P~~~~~~~~~i~~lL~~a~~a-g~-lv---~G-----~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~ 81 (128)
|..+......+.+-+..+.+. |. +. .+ ..+..+.+.++++.-+++....+.. .. ...+.+.+||++
T Consensus 7 ~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~-~~---~~~~~~~~ipvv 82 (264)
T cd06267 7 PDISNPFFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDD-EL---LEELAALGIPVV 82 (264)
T ss_pred CCCCCHHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcch-HH---HHHHHHcCCCEE
Confidence 444556666666655555443 32 11 11 2344555556667666665544343 22 555788999998
Q ss_pred EeCC
Q 033061 82 FVPS 85 (128)
Q Consensus 82 ~~~s 85 (128)
.+++
T Consensus 83 ~~~~ 86 (264)
T cd06267 83 LVDR 86 (264)
T ss_pred Eecc
Confidence 8764
No 285
>PRK00766 hypothetical protein; Provisional
Probab=34.30 E-value=88 Score=24.02 Aligned_cols=47 Identities=19% Similarity=0.198 Sum_probs=35.3
Q ss_pred CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe----CCHHHHhHHhCC
Q 033061 49 GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV----PSKQALGRACGV 95 (128)
Q Consensus 49 ~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~----~sk~eLG~a~G~ 95 (128)
.++++|++..=+-.---.-.+..+.++-++|++.+ ++.+.+-.|+-+
T Consensus 70 ~~i~~V~L~Git~agFNvvD~~~l~~~tg~PVI~V~r~~p~~~~ie~AL~k 120 (194)
T PRK00766 70 GQLRVIMLDGITYGGFNVVDIEELYRETGLPVIVVMRKKPDFEAIESALKK 120 (194)
T ss_pred cceEEEEECCEeeeeeEEecHHHHHHHHCCCEEEEEecCCCHHHHHHHHHH
Confidence 57889999887743323567788999999999877 777778777643
No 286
>PRK10638 glutaredoxin 3; Provisional
Probab=34.29 E-value=1.2e+02 Score=19.01 Aligned_cols=43 Identities=16% Similarity=0.236 Sum_probs=28.0
Q ss_pred eEEEEecCCChhhHHhhHHHHHHhCCCCEEEe--C----CHHHHhHHhCCC
Q 033061 52 EFIVMAADTEPLEILLHLPLLAEDKNVPYVFV--P----SKQALGRACGVT 96 (128)
Q Consensus 52 kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~--~----sk~eLG~a~G~~ 96 (128)
++++.+....|. -.+...+.++++|||..+ . .++++.+..|..
T Consensus 3 ~v~ly~~~~Cp~--C~~a~~~L~~~gi~y~~~dv~~~~~~~~~l~~~~g~~ 51 (83)
T PRK10638 3 NVEIYTKATCPF--CHRAKALLNSKGVSFQEIPIDGDAAKREEMIKRSGRT 51 (83)
T ss_pred cEEEEECCCChh--HHHHHHHHHHcCCCcEEEECCCCHHHHHHHHHHhCCC
Confidence 345566555564 688888889999998554 2 134666666664
No 287
>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=34.24 E-value=1.7e+02 Score=20.76 Aligned_cols=73 Identities=16% Similarity=0.305 Sum_probs=44.6
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC----------HHHHhHHhCCCCceEEEEEecCCc
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS----------KQALGRACGVTRPVIACSVTSNEA 109 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s----------k~eLG~a~G~~~~~~~v~i~~~~~ 109 (128)
.--.+.|.+-+.-+||......+. .....++.++|++.+.. -..||+++|++.++- .--
T Consensus 50 ~~n~E~l~~l~PDlii~~~~~~~~-----~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~lg~~~g~~~~a~------~~~ 118 (195)
T cd01143 50 NPNVEKIVALKPDLVIVSSSSLAE-----LLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAEEEAE------KLV 118 (195)
T ss_pred CCCHHHHhccCCCEEEEcCCcCHH-----HHHHHHHcCCcEEEeCCCCCHHHHHHHHHHHHHHhCChHHHH------HHH
Confidence 345677778889998875533222 34555788999866532 237999999875541 111
Q ss_pred hHHHHHHHHHHHHH
Q 033061 110 SQLKTQIQQLKDAI 123 (128)
Q Consensus 110 ~~~~~li~~i~~~~ 123 (128)
..+.+.+++++..+
T Consensus 119 ~~~~~~~~~v~~~~ 132 (195)
T cd01143 119 KEMKQKIDKVKDKG 132 (195)
T ss_pred HHHHHHHHHHHHHh
Confidence 34555555555544
No 288
>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=34.19 E-value=71 Score=25.86 Aligned_cols=45 Identities=13% Similarity=0.076 Sum_probs=30.8
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhh-HHhhHHHHHHhCCCCEEE
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLE-ILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~-~~~~l~~lc~~~~IP~~~ 82 (128)
-.++..+++...+.++|++.....|.. -.+.+..+|++++++++.
T Consensus 149 d~~~l~~~i~~~~~~~v~~~~~~~~~~~~~~~I~~l~~~~~~~li~ 194 (402)
T cd00378 149 DYDALEKMALEFKPKLIVAGASAYPRPIDFKRFREIADEVGAYLLV 194 (402)
T ss_pred CHHHHHHHHHhCCCCEEEecCcccCCCcCHHHHHHHHHhcCCEEEE
Confidence 345667777666788888765444431 356788899999988654
No 289
>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=34.18 E-value=1.1e+02 Score=23.68 Aligned_cols=69 Identities=12% Similarity=0.006 Sum_probs=36.2
Q ss_pred ChhHHHHHHHHHH-HHHHcCC-ccc---c-----HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 15 DSNLTITILDLVQ-QAANYKQ-LKK---G-----ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 15 ~~~~~~~i~~lL~-~a~~ag~-lv~---G-----~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+....+.+-+. .|+..|. ++. + ..+..+.+...++.-+|++..- +. ........+.+++||++.+.
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~-~~-~~~~~l~~~~~~~iPvV~~d 86 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIARGVDVLVIIPQN-GQ-VLSNAVQEAKDEGIKVVAYD 86 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCC-hh-HHHHHHHHHHHCCCeEEEec
Confidence 4444555555444 4444552 221 1 2345555666676555555422 22 22344566778899988875
Q ss_pred C
Q 033061 85 S 85 (128)
Q Consensus 85 s 85 (128)
+
T Consensus 87 ~ 87 (302)
T TIGR02634 87 R 87 (302)
T ss_pred C
Confidence 4
No 290
>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=34.14 E-value=98 Score=24.03 Aligned_cols=30 Identities=20% Similarity=0.173 Sum_probs=25.1
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCCChh
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADTEPL 63 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~~p~ 63 (128)
.+..|..+.++.+++...+++|+.++.+..
T Consensus 21 ~~~~~a~~al~~l~~~G~~~~~~Tn~~~~~ 50 (257)
T TIGR01458 21 VAVPGSQEAVKRLRGASVKVRFVTNTTKES 50 (257)
T ss_pred CcCCCHHHHHHHHHHCCCeEEEEECCCCCC
Confidence 378899999999998888898888887653
No 291
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=33.97 E-value=1.4e+02 Score=22.48 Aligned_cols=61 Identities=11% Similarity=0.156 Sum_probs=34.9
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhC---CCCceEEEEEecCC-chHHHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACG---VTRPVIACSVTSNE-ASQLKT 114 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G---~~~~~~~v~i~~~~-~~~~~~ 114 (128)
.+.+||.|.|... +-..+...| ..++++..+++.+ +|...= .++.-..++|..++ +..++.
T Consensus 70 ~adlViaaT~d~e--lN~~i~~~a-~~~~lvn~~d~~~-~~~f~~Pa~~~~g~l~iaIsT~G~sP~la~ 134 (202)
T PRK06718 70 DAFLVIAATNDPR--VNEQVKEDL-PENALFNVITDAE-SGNVVFPSALHRGKLTISVSTDGASPKLAK 134 (202)
T ss_pred CceEEEEcCCCHH--HHHHHHHHH-HhCCcEEECCCCc-cCeEEEeeEEEcCCeEEEEECCCCChHHHH
Confidence 4678888877744 568888888 4578876655543 344321 11333456675444 344443
No 292
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=33.89 E-value=98 Score=23.80 Aligned_cols=67 Identities=19% Similarity=0.198 Sum_probs=46.4
Q ss_pred HcCCcccc------HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCCCCceEEEE
Q 033061 31 NYKQLKKG------ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTRPVIACS 103 (128)
Q Consensus 31 ~ag~lv~G------~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~~v~ 103 (128)
+.+.+..| .+++.++++.| +++++ ||. +-..+...|+++++|++= +.|..|+=++ .+.++.++=
T Consensus 52 ~~~~~~vGAGTVl~~e~a~~ai~aG-A~Fiv-----SP~-~~~~vi~~a~~~~i~~iPG~~TptEi~~A--~~~Ga~~vK 122 (201)
T PRK06015 52 EVEEAIVGAGTILNAKQFEDAAKAG-SRFIV-----SPG-TTQELLAAANDSDVPLLPGAATPSEVMAL--REEGYTVLK 122 (201)
T ss_pred HCCCCEEeeEeCcCHHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEeCCCCCHHHHHHH--HHCCCCEEE
Confidence 34556655 46777788777 77765 565 667788999999999875 6788888888 444433344
Q ss_pred Eec
Q 033061 104 VTS 106 (128)
Q Consensus 104 i~~ 106 (128)
+..
T Consensus 123 ~FP 125 (201)
T PRK06015 123 FFP 125 (201)
T ss_pred ECC
Confidence 443
No 293
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=33.84 E-value=83 Score=22.93 Aligned_cols=35 Identities=11% Similarity=0.201 Sum_probs=18.6
Q ss_pred HHHHHHcCceeEEEEecC-CChhhHHhhHHHHHHhC
Q 033061 42 ATKTLNRGISEFIVMAAD-TEPLEILLHLPLLAEDK 76 (128)
Q Consensus 42 v~kai~~~kakLVilA~D-~~p~~~~~~l~~lc~~~ 76 (128)
..+-|++.+..+|.|+.+ .+-..+.+.+...-++.
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 445677888999999544 33333555555555544
No 294
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=33.81 E-value=30 Score=21.25 Aligned_cols=35 Identities=20% Similarity=0.180 Sum_probs=26.1
Q ss_pred HHhhHHHHHHhCCCC-------EEEeCCHHHHhHHhCCCCce
Q 033061 65 ILLHLPLLAEDKNVP-------YVFVPSKQALGRACGVTRPV 99 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP-------~~~~~sk~eLG~a~G~~~~~ 99 (128)
+...+..+|+..+.+ +.+..|.++|+..+|.++.+
T Consensus 3 la~~Ll~l~~~~~~~~~~~~~~~~~~lt~~~iA~~~g~sr~t 44 (76)
T PF13545_consen 3 LARFLLELAERFGRRQDGDGIRIPLPLTQEEIADMLGVSRET 44 (76)
T ss_dssp HHHHHHHHHHHHEEEEETTEEEEEEESSHHHHHHHHTSCHHH
T ss_pred HHHHHHHHHHHHCCCCCCCCceEEecCCHHHHHHHHCCCHHH
Confidence 455666777766553 55668999999999999764
No 295
>cd04195 GT2_AmsE_like GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis. AmsE is a glycosyltransferase involved in exopolysaccharide amylovora biosynthesis in Erwinia amylovora. Amylovara is one of the three exopolysaccharide produced by E. amylovora. Amylovara-deficient mutants are non-pathogenic. It is a subfamily of Glycosyltransferase Family GT2, which 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.
Probab=33.78 E-value=1.7e+02 Score=20.60 Aligned_cols=69 Identities=9% Similarity=0.033 Sum_probs=32.8
Q ss_pred HHHHHHHHcCc---eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCC-----ceEEEEEecCCch
Q 033061 40 NEATKTLNRGI---SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTR-----PVIACSVTSNEAS 110 (128)
Q Consensus 40 ~~v~kai~~~k---akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~-----~~~~v~i~~~~~~ 110 (128)
.++++++.++. ..++|+-.+.+...+..-+..+.++.++.++.... ..|..-+.+. ..-.++++|.|+.
T Consensus 16 ~~~l~Sl~~q~~~~~eiiivdd~ss~d~t~~~~~~~~~~~~i~~i~~~~--n~G~~~a~N~g~~~a~gd~i~~lD~Dd~ 92 (201)
T cd04195 16 REALESILKQTLPPDEVVLVKDGPVTQSLNEVLEEFKRKLPLKVVPLEK--NRGLGKALNEGLKHCTYDWVARMDTDDI 92 (201)
T ss_pred HHHHHHHHhcCCCCcEEEEEECCCCchhHHHHHHHHHhcCCeEEEEcCc--cccHHHHHHHHHHhcCCCEEEEeCCccc
Confidence 45555555543 34444444432333555566677776655544333 2343333321 1124556776653
No 296
>PF08134 cIII: cIII protein family; InterPro: IPR012995 This family consists of the CIII family of regulatory proteins. The lambda CIII protein has 54 amino acids and it forms an amphipathic helix within its amino acid sequence. Lambda CIII stabilises the lambda CII protein and the host sigma factor 32, responsible for transcribing genes of the heat shock regulon [].
Probab=33.73 E-value=55 Score=19.12 Aligned_cols=29 Identities=31% Similarity=0.463 Sum_probs=22.6
Q ss_pred CCCCCccccCCCChhHHHHHHHHHHHHHHc
Q 033061 3 GEAVNPKAYPLADSNLTITILDLVQQAANY 32 (128)
Q Consensus 3 ~~~~~p~~~P~~~~~~~~~i~~lL~~a~~a 32 (128)
|-.|-..++|- +.++.+++-.+++.|++.
T Consensus 8 G~gvmSAyYP~-ESELskr~rrLIRaa~k~ 36 (44)
T PF08134_consen 8 GSGVMSAYYPT-ESELSKRIRRLIRAARKQ 36 (44)
T ss_pred CceeeeeecCc-HHHHHHHHHHHHHHHHHH
Confidence 44555667776 789999999999988764
No 297
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=33.66 E-value=1.3e+02 Score=25.09 Aligned_cols=52 Identities=17% Similarity=0.172 Sum_probs=34.9
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
+..++...+++||||++.-. .|.|++-.... +.++--+++=+-+-++-.-|.
T Consensus 299 ~A~~Ir~~A~e~~VPiven~---pLARaLy~~~e-----vg~~IP~ely~AVA~ILa~v~ 350 (358)
T PRK13109 299 IALKIREIAEENGIPVIEDK---PLARSLYDAVQ-----VDQVIPAEFYRPVAQILYFLF 350 (358)
T ss_pred HHHHHHHHHHHcCCCEEeCH---HHHHHHHHhCC-----CCCcCCHHHHHHHHHHHHHHH
Confidence 68999999999999998755 68888766543 333333555555555544443
No 298
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=33.66 E-value=2e+02 Score=22.70 Aligned_cols=86 Identities=16% Similarity=0.184 Sum_probs=50.9
Q ss_pred HHHHHHHHcCceeEEEEecCCCh------hhHHhhHHHHHHhCCCCEEEeCCHH------HHhHHh--------------
Q 033061 40 NEATKTLNRGISEFIVMAADTEP------LEILLHLPLLAEDKNVPYVFVPSKQ------ALGRAC-------------- 93 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p------~~~~~~l~~lc~~~~IP~~~~~sk~------eLG~a~-------------- 93 (128)
-+.++.+.. .+.++++.+-++- ...++.+....+.++|+++.++... +....+
T Consensus 134 ~~~lk~l~~-~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~Pfavi~s~~~ 212 (276)
T cd01850 134 IEFMKRLSK-RVNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPEDEEDDETIEENKKLRSLIPFAVVGSNEE 212 (276)
T ss_pred HHHHHHHhc-cCCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCCCcccHHHHHHHHhhccCCCcEEEecCce
Confidence 455777765 5666666666653 1256778888899999987655422 122222
Q ss_pred ---------CCCCceEEEEEecCCchHHHHHHHH-HHHHHhhh
Q 033061 94 ---------GVTRPVIACSVTSNEASQLKTQIQQ-LKDAIEKL 126 (128)
Q Consensus 94 ---------G~~~~~~~v~i~~~~~~~~~~li~~-i~~~~~~~ 126 (128)
|++++--++-|-++...+|..|-+- +.+++.+|
T Consensus 213 ~~~~g~~~~~R~y~WG~~~v~n~~h~df~~Lr~~l~~~~~~~l 255 (276)
T cd01850 213 VEVNGKKVRGRKYPWGVVEVENEEHCDFVKLRNLLIRTHLQDL 255 (276)
T ss_pred eecCCcEEEEecCCccEEeecCcccccHHHHHHHHHHHHHHHH
Confidence 3444444445666677888877554 34444443
No 299
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=33.57 E-value=2.2e+02 Score=21.86 Aligned_cols=55 Identities=4% Similarity=-0.063 Sum_probs=35.2
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC---------HHHHhHHhCCCCce
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS---------KQALGRACGVTRPV 99 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s---------k~eLG~a~G~~~~~ 99 (128)
--.+.|.+=+.-+||...+..+. ...+..++.|||++++.. -..||+++|++.++
T Consensus 63 ~n~E~il~l~PDlVi~~~~~~~~----~~~~~L~~~gi~v~~~~~~~~~~~~~~i~~lg~~~g~~~~A 126 (260)
T PRK03379 63 MNLERIVALKPDLVLAWRGGNAE----RQVDQLASLGIKVMWVDATSIEQIANALRQLAPWSPQPEKA 126 (260)
T ss_pred CCHHHHHhcCCCEEEEecCCCcH----HHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHcCCHHHH
Confidence 44677777788888875543322 222344678999887742 24688888887553
No 300
>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=33.15 E-value=60 Score=21.59 Aligned_cols=46 Identities=9% Similarity=0.130 Sum_probs=33.8
Q ss_pred cccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 36 KKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+..++... ..+.-+|+++.+.... .+.+...+...++|+..++.
T Consensus 34 ~~~~~~~~~~--~~~~Diil~~Pqv~~~--~~~i~~~~~~~~~pv~~I~~ 79 (96)
T cd05564 34 AVPESELEEY--IDDADVVLLGPQVRYM--LDEVKKKAAEYGIPVAVIDM 79 (96)
T ss_pred EecHHHHHHh--cCCCCEEEEChhHHHH--HHHHHHHhccCCCcEEEcCh
Confidence 3555555543 3557899999998654 68888888999999987764
No 301
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=33.07 E-value=1.5e+02 Score=19.92 Aligned_cols=34 Identities=21% Similarity=0.134 Sum_probs=24.0
Q ss_pred HcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE
Q 033061 47 NRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 47 ~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~ 81 (128)
.++...+|++.++.-+. ..+.+..+-+++..|.+
T Consensus 41 ~~~d~gII~Ite~~~~~-i~e~i~~~~~~~~~P~i 74 (100)
T PRK02228 41 EDDDVGILVMHDDDLEK-LPRRLRRTLEESVEPTV 74 (100)
T ss_pred hCCCEEEEEEehhHhHh-hHHHHHHHHhcCCCCEE
Confidence 45668888888887665 66666666677777754
No 302
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=33.06 E-value=1.1e+02 Score=24.03 Aligned_cols=45 Identities=20% Similarity=0.306 Sum_probs=31.3
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
..++...|.++---++|.+.|... .......+.+.|||++.+.+.
T Consensus 81 ~~~i~~~ia~~~daIiv~~~d~~~---~~~~v~~a~~aGIpVv~~d~~ 125 (322)
T COG1879 81 IAQIEDLIAQGVDAIIINPVDPDA---LTPAVKKAKAAGIPVVTVDSD 125 (322)
T ss_pred HHHHHHHHHcCCCEEEEcCCChhh---hHHHHHHHHHCCCcEEEEecC
Confidence 345666665565577777777643 466778888999999887654
No 303
>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=33.03 E-value=1.1e+02 Score=18.30 Aligned_cols=41 Identities=17% Similarity=0.208 Sum_probs=27.7
Q ss_pred HHHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+.+++++-. -.+.|++.|... ...++.+|+.+|..+....
T Consensus 15 ~~~~~l~~l~~g~~l~v~~d~~~~---~~~i~~~~~~~g~~~~~~~ 57 (69)
T cd00291 15 KTKKALEKLKSGEVLEVLLDDPGA---VEDIPAWAKETGHEVLEVE 57 (69)
T ss_pred HHHHHHhcCCCCCEEEEEecCCcH---HHHHHHHHHHcCCEEEEEE
Confidence 3455665522 356777776643 5888999999999876554
No 304
>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=33.03 E-value=1.7e+02 Score=22.93 Aligned_cols=41 Identities=12% Similarity=0.241 Sum_probs=27.9
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.++.+.+++++++.||.-...+++ +. ..++++.|+|++.+.
T Consensus 210 ~~l~~~ik~~~v~~if~e~~~~~~-~~---~~la~~~g~~v~~ld 250 (282)
T cd01017 210 AELVEFVKKSDVKYIFFEENASSK-IA---ETLAKETGAKLLVLN 250 (282)
T ss_pred HHHHHHHHHcCCCEEEEeCCCChH-HH---HHHHHHcCCcEEEec
Confidence 456667777888888887777665 33 336677788775544
No 305
>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=33.02 E-value=1.9e+02 Score=21.32 Aligned_cols=58 Identities=19% Similarity=0.199 Sum_probs=47.9
Q ss_pred HHHHHHHHHHcCC---ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 22 ILDLVQQAANYKQ---LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 22 i~~lL~~a~~ag~---lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
+-+++.+|.+.|- ++.|..-+.+.+++.+.+ .|+|-=|... +.+.+.++-. .|+|+.-
T Consensus 75 Ig~l~~lae~~g~~v~i~~Ggt~ar~~ik~~~p~-~iigVAC~~d-L~~g~~~~~~-~~ip~~g 135 (158)
T PF01976_consen 75 IGDLKKLAEKYGYKVYIATGGTLARKIIKEYRPK-AIIGVACERD-LISGIQDLKP-LGIPVQG 135 (158)
T ss_pred hhHHHHHHHHcCCEEEEEcChHHHHHHHHHhCCC-EEEEEechHH-HHHHHHHHhh-cCCCeeE
Confidence 5678889999985 889999999999999988 7888889775 8888776554 7888753
No 306
>KOG2869 consensus Meiotic cell division protein Pelota/DOM34 [Translation, ribosomal structure and biogenesis]
Probab=32.88 E-value=1e+02 Score=26.07 Aligned_cols=72 Identities=13% Similarity=0.110 Sum_probs=52.7
Q ss_pred HHHHcCCccccHHHHHHHHHcCceeEEEEecCC----ChhhHHhhHHHHHH---hCCCCEEEeCCHHHHhHHhCCCCceE
Q 033061 28 QAANYKQLKKGANEATKTLNRGISEFIVMAADT----EPLEILLHLPLLAE---DKNVPYVFVPSKQALGRACGVTRPVI 100 (128)
Q Consensus 28 ~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~----~p~~~~~~l~~lc~---~~~IP~~~~~sk~eLG~a~G~~~~~~ 100 (128)
++....+.-.|.++|.+|-+.|..+-++|+... +- .+.+++..+|+ .+|-++..+++....|.-+-.-.++|
T Consensus 285 l~~~~drA~yG~khV~~A~e~~AI~tLLitD~lfr~~DV-~tRkkyv~lvesVk~~~gkv~Ifss~H~SGEqL~qltGia 363 (379)
T KOG2869|consen 285 LSKDPDRACYGPKHVEKANEYGAIETLLITDELFRSQDV-ATRKKYVRLVESVKENNGKVFIFSSLHVSGEQLAQLTGIA 363 (379)
T ss_pred hccCccccccCHHHHHHHHhhcchhheehhhhhcccccH-HHHHHHHHHHHHHHhcCCcEEEEehhhccHHHHHhhcCee
Confidence 344566788999999999999998777765432 12 36688888885 68999988888877777755555543
No 307
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=32.85 E-value=1.7e+02 Score=21.27 Aligned_cols=85 Identities=12% Similarity=0.072 Sum_probs=52.6
Q ss_pred HHHHHHHHcCC--ccccHHHHHHHHHcCc---eeEEEEecCCChhhHHhhHHHHHH-hCCCCEEEeCCHHHHhHHhCCCC
Q 033061 24 DLVQQAANYKQ--LKKGANEATKTLNRGI---SEFIVMAADTEPLEILLHLPLLAE-DKNVPYVFVPSKQALGRACGVTR 97 (128)
Q Consensus 24 ~lL~~a~~ag~--lv~G~~~v~kai~~~k---akLVilA~D~~p~~~~~~l~~lc~-~~~IP~~~~~sk~eLG~a~G~~~ 97 (128)
+++++|.-+|- -+....+..+.+++++ -+..+|..+.... ..+++ -..++.+.+|.. +.--|+..
T Consensus 44 ~~lkma~P~gvk~~i~sve~a~~~l~~~~~~~~~v~vl~k~~~da------~~l~~~g~~i~~iniG~~---~~~~g~~~ 114 (151)
T TIGR00854 44 TLMGIVAPTGFKVRFVSLEKTINVIHKPAYHDQTIFLLFRNPQDV------LTLVEGGVPIKTVNVGGM---HFSNGKKQ 114 (151)
T ss_pred HHHHhhCCCCCEEEEEEHHHHHHHHhCcCCCCceEEEEECCHHHH------HHHHHcCCCCCEEEECCc---ccCCCCEE
Confidence 56677765553 6788889999997643 4788888886443 23333 344778888866 22225544
Q ss_pred ceEEEEEecCCchHHHHHHH
Q 033061 98 PVIACSVTSNEASQLKTQIQ 117 (128)
Q Consensus 98 ~~~~v~i~~~~~~~~~~li~ 117 (128)
-.-.+.+.+.+-+.|.++.+
T Consensus 115 v~~~v~l~~~e~~~l~~l~~ 134 (151)
T TIGR00854 115 ITKKVSVDDQDITAFRFLKQ 134 (151)
T ss_pred EecceeeCHHHHHHHHHHHH
Confidence 33345676655566665543
No 308
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=32.84 E-value=1.1e+02 Score=18.52 Aligned_cols=41 Identities=22% Similarity=0.238 Sum_probs=27.4
Q ss_pred HHHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+.+++++=. -.|.|++.|... ...++.+|+++|-.++.+.
T Consensus 16 ~~~~~l~~l~~G~~l~v~~d~~~~---~~di~~~~~~~g~~~~~~~ 58 (70)
T PF01206_consen 16 KAKKALKELPPGEVLEVLVDDPAA---VEDIPRWCEENGYEVVEVE 58 (70)
T ss_dssp HHHHHHHTSGTT-EEEEEESSTTH---HHHHHHHHHHHTEEEEEEE
T ss_pred HHHHHHHhcCCCCEEEEEECCccH---HHHHHHHHHHCCCEEEEEE
Confidence 3455565522 457777777643 5889999999998766553
No 309
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=32.80 E-value=93 Score=24.00 Aligned_cols=31 Identities=10% Similarity=0.104 Sum_probs=24.7
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCCh
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTEP 62 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~p 62 (128)
.++.+.|..+.++.+++...+++|+.++++.
T Consensus 15 ~~~~i~~a~~~l~~l~~~g~~~~~~Tnn~~r 45 (249)
T TIGR01457 15 GKERIPEAETFVHELQKRDIPYLFVTNNSTR 45 (249)
T ss_pred CCeeCcCHHHHHHHHHHCCCeEEEEeCCCCC
Confidence 3456678899999999888889998887753
No 310
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=32.39 E-value=1.2e+02 Score=18.51 Aligned_cols=68 Identities=9% Similarity=0.070 Sum_probs=44.3
Q ss_pred EEEecCCChhhHHhhHHHHHHhC-CCCEEEeCCH-HHHhH-HhCCCCceEEEEEecC-CchHHHHHHHHHHHH
Q 033061 54 IVMAADTEPLEILLHLPLLAEDK-NVPYVFVPSK-QALGR-ACGVTRPVIACSVTSN-EASQLKTQIQQLKDA 122 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~-~IP~~~~~sk-~eLG~-a~G~~~~~~~v~i~~~-~~~~~~~li~~i~~~ 122 (128)
.+++...+-. ....+..+..+. ++|+....+. ...+. +...+..-.++++... ...+..+.++.++++
T Consensus 2 ~i~g~G~s~~-~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~iS~sg~t~~~~~~~~~a~~~ 73 (87)
T cd04795 2 FVIGIGGSGA-IAAYFALELLELTGIEVVALIATELEHASLLSLLRKGDVVIALSYSGRTEELLAALEIAKEL 73 (87)
T ss_pred EEEEcCHHHH-HHHHHHHHHhcccCCceEEeCCcHHHHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHc
Confidence 5677776665 778888888888 9998776543 34443 3444555556666544 456777777777653
No 311
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=32.33 E-value=1e+02 Score=17.63 Aligned_cols=30 Identities=13% Similarity=0.132 Sum_probs=17.9
Q ss_pred HhhHHHHHHhCCCCEEEe--CC----HHHHhHHhCC
Q 033061 66 LLHLPLLAEDKNVPYVFV--PS----KQALGRACGV 95 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~--~s----k~eLG~a~G~ 95 (128)
-..+..+-+++++++..+ .+ +.+|.+..|.
T Consensus 13 C~~~~~~L~~~~i~~~~~di~~~~~~~~~l~~~~~~ 48 (72)
T cd02066 13 CKRAKRLLESLGIEFEEIDILEDGELREELKELSGW 48 (72)
T ss_pred HHHHHHHHHHcCCcEEEEECCCCHHHHHHHHHHhCC
Confidence 466666677777887544 22 2455555565
No 312
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=32.28 E-value=1.2e+02 Score=23.71 Aligned_cols=50 Identities=28% Similarity=0.408 Sum_probs=38.1
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eCCHHHHhHHhCC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGV 95 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~ 95 (128)
.+++.++++.| ++++| +|. +-..+...|++++||++= +.|..|+=++...
T Consensus 81 ~e~a~~a~~aG-A~FiV-----sP~-~~~~v~~~~~~~~i~~iPG~~TpsEi~~A~~~ 131 (222)
T PRK07114 81 AATAALYIQLG-ANFIV-----TPL-FNPDIAKVCNRRKVPYSPGCGSLSEIGYAEEL 131 (222)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEeCCCCCHHHHHHHHHC
Confidence 56777788777 67765 565 567779999999999875 6788888888433
No 313
>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=32.13 E-value=1.2e+02 Score=22.62 Aligned_cols=43 Identities=16% Similarity=0.162 Sum_probs=24.9
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
....+.+..+++.=+|+.....+ . ..+...+++++||++++++
T Consensus 45 ~~~i~~l~~~~vdgii~~~~~~~--~-~~~~~~~~~~~ipvV~i~~ 87 (269)
T cd06281 45 LEILRSFEQRRMDGIIIAPGDER--D-PELVDALASLDLPIVLLDR 87 (269)
T ss_pred HHHHHHHHHcCCCEEEEecCCCC--c-HHHHHHHHhCCCCEEEEec
Confidence 35566677777655555432212 1 2334556778999888764
No 314
>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=32.03 E-value=1.4e+02 Score=22.57 Aligned_cols=42 Identities=14% Similarity=0.140 Sum_probs=24.1
Q ss_pred HHHHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.++.+.+.++--+|+ +.|. + ........+.+.+||++.+.+
T Consensus 46 ~~i~~~~~~~vdgiii~~~~~-~--~~~~~i~~~~~~~iPvV~~~~ 88 (272)
T cd06313 46 AAIENMASQGWDFIAVDPLGI-G--TLTEAVQKAIARGIPVIDMGT 88 (272)
T ss_pred HHHHHHHHcCCCEEEEcCCCh-H--HhHHHHHHHHHCCCcEEEeCC
Confidence 4444555566655555 4342 2 234445666778999888764
No 315
>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=32.03 E-value=1.9e+02 Score=20.63 Aligned_cols=54 Identities=7% Similarity=0.081 Sum_probs=34.0
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC----------HHHHhHHhC--CCCc
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS----------KQALGRACG--VTRP 98 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s----------k~eLG~a~G--~~~~ 98 (128)
--.+.|.+-+.-+||......+. .....-++.+||++++.. -..+|+++| ++.+
T Consensus 60 ~n~E~ll~l~PDlii~~~~~~~~----~~~~~l~~~gIpvv~i~~~~~~~~~~~~i~~~g~~~g~~~~~~ 125 (186)
T cd01141 60 LNVELIVALKPDLVILYGGFQAQ----TILDKLEQLGIPVLYVNEYPSPLGRAEWIKFAAAFYGVGKEDK 125 (186)
T ss_pred CCHHHHhccCCCEEEEecCCCch----hHHHHHHHcCCCEEEeCCCCChhhHHHHHHHHHHHcCCchHHH
Confidence 34566777788898875432221 244555788999977752 234888888 5433
No 316
>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=32.01 E-value=67 Score=26.23 Aligned_cols=34 Identities=15% Similarity=0.348 Sum_probs=27.3
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
...+||.+.|-....+...+-+.|.++++|+++.
T Consensus 151 ~~DlVid~tDn~~~r~L~~iN~ac~~~~~PlV~g 184 (318)
T TIGR03603 151 DYNYIIICTEHSNISLLRGLNKLSKETKKPNTIA 184 (318)
T ss_pred CCCEEEECCCCccHhHHHHHHHHHHHHCCCEEEE
Confidence 4789999999866434566899999999999854
No 317
>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=31.97 E-value=1.3e+02 Score=20.26 Aligned_cols=43 Identities=16% Similarity=0.078 Sum_probs=26.2
Q ss_pred EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC
Q 033061 53 FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT 96 (128)
Q Consensus 53 LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~ 96 (128)
++++.....-.+ .-.....|+++++|++.+-+..+|.+.+-..
T Consensus 47 ~I~iS~SG~t~e-~i~~~~~a~~~g~~iI~IT~~~~l~~~~~~~ 89 (119)
T cd05017 47 VIAVSYSGNTEE-TLSAVEQAKERGAKIVAITSGGKLLEMAREH 89 (119)
T ss_pred EEEEECCCCCHH-HHHHHHHHHHCCCEEEEEeCCchHHHHHHHc
Confidence 344444444333 4455667888999987654445688876644
No 318
>PRK06946 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=31.88 E-value=2.6e+02 Score=22.11 Aligned_cols=77 Identities=16% Similarity=0.104 Sum_probs=48.8
Q ss_pred CCCCccccCCCChhHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCceeEEEEecCCChh--------------hHH
Q 033061 4 EAVNPKAYPLADSNLTITILDLVQQAANYKQLK---KGANEATKTLNRGISEFIVMAADTEPL--------------EIL 66 (128)
Q Consensus 4 ~~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv---~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~ 66 (128)
.-+..+++|+-|..+++-+ .=.+... ...++ .|.+.+++++++|. .|.+..|-++. .+.
T Consensus 134 ~~~~~vyr~~~n~~~d~~~-~~~R~~~-g~~~i~~~~~~r~~~~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FFG~~a~t~ 209 (293)
T PRK06946 134 RRVGSLYTPMSNPLLDAIA-KAARGRF-GAEMVSRADSARQVLRWLRDGK--PVMLGADMDFGLRDSTFVPFFGVPACTL 209 (293)
T ss_pred CCceEEeeCCCCHHHHHHH-HHHHHhc-CCCccCCCchHHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeCCCCCCcHHh
Confidence 3456689999777777533 3333222 22343 35889999999886 67777776642 133
Q ss_pred hhHHHHHHhCCCCEEEeC
Q 033061 67 LHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~~ 84 (128)
.-...++.+.|.|++-+.
T Consensus 210 ~~~a~LA~~~~a~vvp~~ 227 (293)
T PRK06946 210 TAVSRLARTGGAQVVPFI 227 (293)
T ss_pred HHHHHHHHhcCCeEEEEE
Confidence 444578899999987543
No 319
>PRK04322 peptidyl-tRNA hydrolase; Provisional
Probab=31.80 E-value=1e+02 Score=21.51 Aligned_cols=43 Identities=23% Similarity=0.291 Sum_probs=31.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.+......|..|.|+=++|-+. ...+...++..++|+..+.+
T Consensus 37 ~~~~~W~~~G~~Kvvlkv~~~~e---l~~l~~~a~~~~l~~~~v~D 79 (113)
T PRK04322 37 EWLEEWLNEGQKKVVLKVNSEEE---LLELKEKAERLGLPTALIRD 79 (113)
T ss_pred HHHHHHHHCCCcEEEEeCCCHHH---HHHHHHHHHHcCCCEEEEEe
Confidence 33445567788888877776533 47788889999999887754
No 320
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=31.74 E-value=1.3e+02 Score=24.10 Aligned_cols=56 Identities=20% Similarity=0.299 Sum_probs=42.4
Q ss_pred CceeEEEEecCCChh------hHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEec
Q 033061 49 GISEFIVMAADTEPL------EILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTS 106 (128)
Q Consensus 49 ~kakLVilA~D~~p~------~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~ 106 (128)
++--++|+..|.... ++...+.+.+++++++.+|.-.--..|+.+..++- ..|+++
T Consensus 82 ~~~Dliil~Gd~Q~~~~~gqyel~~~~Ld~a~e~g~~~IyTLGGy~vGkl~eep~V--lGA~ts 143 (258)
T COG2047 82 GERDLIILVGDTQATSSEGQYELTGKILDIAKEFGARMIYTLGGYGVGKLVEEPRV--LGAVTS 143 (258)
T ss_pred CCCcEEEEeccccccCcchhHHHHHHHHHHHHHcCCcEEEEecCcccCcccCCcee--EEecCC
Confidence 456899999998632 46788899999999999988776777888766643 345555
No 321
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=31.73 E-value=1.8e+02 Score=20.18 Aligned_cols=51 Identities=16% Similarity=0.294 Sum_probs=33.5
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe-CCHHHHhHHhCCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVT 96 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~ 96 (128)
+..+.+....+.+|-|..|. + ..+..+++++++++-.+ +...++++..|..
T Consensus 55 ~~~~~~~~~~v~vi~Is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~ 106 (154)
T PRK09437 55 DNMDELKKAGVVVLGISTDK-P----EKLSRFAEKELLNFTLLSDEDHQVAEQFGVW 106 (154)
T ss_pred HHHHHHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCCeEEECCCchHHHHhCCC
Confidence 34444555568888887763 2 44456778888877544 4557888888853
No 322
>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=31.60 E-value=1e+02 Score=22.33 Aligned_cols=48 Identities=13% Similarity=0.067 Sum_probs=25.5
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
+...++.-..-++++...-.+......+...+..+++|++.+.+|.+|
T Consensus 82 ~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl 129 (194)
T cd01891 82 VERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDR 129 (194)
T ss_pred HHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECCCC
Confidence 444555544444444433222111233344556678999888877766
No 323
>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=31.57 E-value=1.9e+02 Score=20.39 Aligned_cols=77 Identities=9% Similarity=0.088 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHcC---CccccHHHHHHHHHc-------CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC----C
Q 033061 20 ITILDLVQQAANYK---QLKKGANEATKTLNR-------GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP----S 85 (128)
Q Consensus 20 ~~i~~lL~~a~~ag---~lv~G~~~v~kai~~-------~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~----s 85 (128)
+.+++.+...+..| .+-.|.+.+.+.+.+ +..+.+|+-.|..+++-........++.||.++.++ +
T Consensus 63 ~~l~~~l~~~~~~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~~ 142 (164)
T cd01482 63 EDVLAAIKNLPYKGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDAD 142 (164)
T ss_pred HHHHHHHHhCcCCCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcCC
Confidence 45555555444222 255666666655422 235677777898775433444556677888876554 3
Q ss_pred HHHHhHHhCCC
Q 033061 86 KQALGRACGVT 96 (128)
Q Consensus 86 k~eLG~a~G~~ 96 (128)
+.+|.+..+.+
T Consensus 143 ~~~L~~ia~~~ 153 (164)
T cd01482 143 ESELKMIASKP 153 (164)
T ss_pred HHHHHHHhCCC
Confidence 55666666654
No 324
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=31.54 E-value=53 Score=17.72 Aligned_cols=24 Identities=13% Similarity=0.018 Sum_probs=18.7
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+...+.+.|+.+|+|. .++|.+|=
T Consensus 5 ~~~~Lk~~l~~~gl~~--~G~K~~Lv 28 (35)
T smart00513 5 KVSELKDELKKRGLST--SGTKAELV 28 (35)
T ss_pred cHHHHHHHHHHcCCCC--CCCHHHHH
Confidence 3577889999999994 67887764
No 325
>cd01487 E1_ThiF_like E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. 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=31.42 E-value=80 Score=23.19 Aligned_cols=33 Identities=21% Similarity=0.104 Sum_probs=23.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhC-CCCEEEeC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDK-NVPYVFVP 84 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~-~IP~~~~~ 84 (128)
...+||.|.|. +. ++..+.+.|.++ ++|+++..
T Consensus 88 ~~DlVi~~~d~-~~-~r~~i~~~~~~~~~ip~i~~~ 121 (174)
T cd01487 88 DCDIVVEAFDN-AE-TKAMLAESLLGNKNKPVVCAS 121 (174)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHHCCCCEEEEe
Confidence 47799999775 43 556565555554 99998864
No 326
>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=31.39 E-value=1.4e+02 Score=22.22 Aligned_cols=64 Identities=11% Similarity=-0.006 Sum_probs=35.0
Q ss_pred HHHHHHHHHHcCCcc----c-----cHHHHHHHHHcCceeEEEEec-CCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 22 ILDLVQQAANYKQLK----K-----GANEATKTLNRGISEFIVMAA-DTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 22 i~~lL~~a~~ag~lv----~-----G~~~v~kai~~~kakLVilA~-D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+...+.+.|.-+ . ...+..+.+.++++.-+|+.. +.+...........+.++++|++++++
T Consensus 18 ~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~ 91 (273)
T cd06292 18 AEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNG 91 (273)
T ss_pred HHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcC
Confidence 344555666666422 1 133566777777887666643 211111122223445678999998874
No 327
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=31.37 E-value=2.7e+02 Score=22.20 Aligned_cols=60 Identities=12% Similarity=0.052 Sum_probs=40.7
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhC---CCCceEEEEEecCCc
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACG---VTRPVIACSVTSNEA 109 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G---~~~~~~~v~i~~~~~ 109 (128)
.....+++.|.........+..+++..++|+....+..+|..++. ...+.-.+.|..++.
T Consensus 103 ~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr 165 (270)
T PRK06731 103 KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGK 165 (270)
T ss_pred CCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCC
Confidence 356777788876544677888889999999988788878777653 212333456665543
No 328
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=31.13 E-value=3.6e+02 Score=23.49 Aligned_cols=72 Identities=11% Similarity=0.081 Sum_probs=48.1
Q ss_pred ccHHHHHHHH----HcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCC---ceEEEEEecCC
Q 033061 37 KGANEATKTL----NRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTR---PVIACSVTSNE 108 (128)
Q Consensus 37 ~G~~~v~kai----~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~---~~~~v~i~~~~ 108 (128)
+|-..+...| .+...+..+++.|.........+..+++..++|++...+..+|..++..-. ..-.+.|+..+
T Consensus 252 vGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaG 330 (436)
T PRK11889 252 VGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAG 330 (436)
T ss_pred CcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCcc
Confidence 3444444444 233457778999987544678888999999999998888889888874321 22345565444
No 329
>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=31.12 E-value=75 Score=24.56 Aligned_cols=30 Identities=20% Similarity=0.362 Sum_probs=23.1
Q ss_pred EEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 54 IVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
|++=+|+.+. ..-...+|+++|||+++++.
T Consensus 3 v~~wg~~~~~--~~~~~~~a~~~~i~~~~~E~ 32 (269)
T PF05159_consen 3 VVVWGDKRPY--HRAAIEVAKELGIPVIFFED 32 (269)
T ss_pred EEEECCCccH--HHHHHHHHHHhCCCEEEEec
Confidence 5666787665 45667889999999988763
No 330
>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=31.08 E-value=1.1e+02 Score=21.66 Aligned_cols=43 Identities=19% Similarity=0.187 Sum_probs=23.7
Q ss_pred HHHHHHHHHcCc---eeEEEEecCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 39 ANEATKTLNRGI---SEFIVMAADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 39 ~~~v~kai~~~k---akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
..++++++.+.. ..++|+ .|.+...+...+..+....++.++.
T Consensus 12 l~~~l~sl~~q~~~~~eiiiv-D~~s~d~t~~~~~~~~~~~~i~~~~ 57 (202)
T cd04185 12 LKECLDALLAQTRPPDHIIVI-DNASTDGTAEWLTSLGDLDNIVYLR 57 (202)
T ss_pred HHHHHHHHHhccCCCceEEEE-ECCCCcchHHHHHHhcCCCceEEEE
Confidence 455666666543 344444 5544434777777776665544443
No 331
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=31.05 E-value=1.9e+02 Score=20.95 Aligned_cols=45 Identities=9% Similarity=0.087 Sum_probs=31.4
Q ss_pred cccHHHHHHHHHcCceeEEEEecCCCh-------hhHHhhHHHHHHhCCCCE
Q 033061 36 KKGANEATKTLNRGISEFIVMAADTEP-------LEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D~~p-------~~~~~~l~~lc~~~~IP~ 80 (128)
--|..++++.+++...++.|+.+.... ..+...+..+++..+++.
T Consensus 44 ~pgv~e~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~~ 95 (166)
T TIGR01664 44 YPEIPAKLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVPI 95 (166)
T ss_pred cCCHHHHHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCCE
Confidence 478888999998877888877765432 113345677788888875
No 332
>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=30.98 E-value=1.1e+02 Score=20.01 Aligned_cols=38 Identities=21% Similarity=0.262 Sum_probs=24.5
Q ss_pred HHHHHHHHc--CceeEEEEecCCChh--hHHhhHHHHHHhCC
Q 033061 40 NEATKTLNR--GISEFIVMAADTEPL--EILLHLPLLAEDKN 77 (128)
Q Consensus 40 ~~v~kai~~--~kakLVilA~D~~p~--~~~~~l~~lc~~~~ 77 (128)
+...+.|++ .++.-||+|.|++.. .+..++..++..++
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 344555544 468999999999853 35666666666554
No 333
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=30.97 E-value=75 Score=26.21 Aligned_cols=33 Identities=15% Similarity=0.093 Sum_probs=27.2
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
...+||-+.|. .. ++..+..+|.+++||+++..
T Consensus 118 ~~DvVvd~~d~-~~-~r~~~n~~c~~~~ip~v~~~ 150 (355)
T PRK05597 118 DADVILDGSDN-FD-TRHLASWAAARLGIPHVWAS 150 (355)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEE
Confidence 47899999987 43 67789999999999998754
No 334
>PRK11172 dkgB 2,5-diketo-D-gluconate reductase B; Provisional
Probab=30.88 E-value=1.9e+02 Score=22.43 Aligned_cols=64 Identities=5% Similarity=-0.030 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHcCCcc------ccHHHHHHHHHcCce-eEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 20 ITILDLVQQAANYKQLK------KGANEATKTLNRGIS-EFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 20 ~~i~~lL~~a~~ag~lv------~G~~~v~kai~~~ka-kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
...+..|..++++|++. .+..++.+++..... .+.++--..++.+....+..+|+++||.++-.
T Consensus 108 ~~~~~~l~~l~~~Gkir~iGvSn~~~~~l~~~~~~~~~~~~~~~Q~~~~~~~~~~~ll~~~~~~gi~v~a~ 178 (267)
T PRK11172 108 EEFMQALLEAKKQGLTREIGISNFTIALMKQAIAAVGAENIATNQIELSPYLQNRKVVAFAKEHGIHVTSY 178 (267)
T ss_pred HHHHHHHHHHHHCCCCCEEEEccCCHHHHHHHHHhcCCCCCeEEeeecCCCCCcHHHHHHHHHCCCEEEEE
Confidence 35678888889999864 234566666654322 33443333343322357899999999987654
No 335
>PRK14072 6-phosphofructokinase; Provisional
Probab=30.73 E-value=80 Score=26.91 Aligned_cols=47 Identities=11% Similarity=0.085 Sum_probs=37.3
Q ss_pred ccHHHHHHHHHcCce-eEEEEecCCChhhHHhhHHHHHHhCC--CCEEEeC
Q 033061 37 KGANEATKTLNRGIS-EFIVMAADTEPLEILLHLPLLAEDKN--VPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~ka-kLVilA~D~~p~~~~~~l~~lc~~~~--IP~~~~~ 84 (128)
.+.+.+.+.+++..+ .||+|..|-|-. ...++..++++++ ||++-++
T Consensus 90 ~~~~~~~~~l~~~~Id~LivIGGdgS~~-~a~~L~e~~~~~g~~i~vIgIP 139 (416)
T PRK14072 90 AEYERLLEVFKAHDIGYFFYNGGNDSMD-TALKVSQLAKKMGYPIRCIGIP 139 (416)
T ss_pred HHHHHHHHHHHHcCCCEEEEECChHHHH-HHHHHHHHHHHhCCCceEEEee
Confidence 467788888888775 888999999886 7888888887777 8887655
No 336
>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=30.60 E-value=1.5e+02 Score=20.06 Aligned_cols=40 Identities=20% Similarity=0.196 Sum_probs=23.5
Q ss_pred eeEEEEecCCChh--hHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 51 SEFIVMAADTEPL--EILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 51 akLVilA~D~~p~--~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
+.++++.-|++.. ....++...+..++.|++.+.+|.++.
T Consensus 85 ~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~ 126 (174)
T cd01895 85 ADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLV 126 (174)
T ss_pred cCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccC
Confidence 4444444454321 123455566677789999988876553
No 337
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=30.58 E-value=1.6e+02 Score=19.46 Aligned_cols=52 Identities=17% Similarity=0.341 Sum_probs=38.4
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE-EEeCCHHHHhHHhCCCCce
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY-VFVPSKQALGRACGVTRPV 99 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~-~~~~sk~eLG~a~G~~~~~ 99 (128)
...+++..+++|+|.....+ . +..+|+..+.|+ ++++...+|=+++|..+..
T Consensus 6 ~~~l~~~gv~lv~I~~g~~~----~-~~~f~~~~~~p~~ly~D~~~~lY~~lg~~~~~ 58 (115)
T PF13911_consen 6 KPELEAAGVKLVVIGCGSPE----G-IEKFCELTGFPFPLYVDPERKLYKALGLKRGL 58 (115)
T ss_pred HHHHHHcCCeEEEEEcCCHH----H-HHHHHhccCCCCcEEEeCcHHHHHHhCCcccc
Confidence 45676777999999965522 2 566776677766 7788889999999999753
No 338
>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=30.51 E-value=1.9e+02 Score=20.06 Aligned_cols=22 Identities=18% Similarity=0.144 Sum_probs=15.6
Q ss_pred hHHHHHHhCCCCEEEeCCHHHH
Q 033061 68 HLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 68 ~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.+..+....+.|++.+.+|.+|
T Consensus 32 ~l~~~~~~~~~p~iiv~NK~Dl 53 (156)
T cd01859 32 KLERYVLELGKKLLIVLNKADL 53 (156)
T ss_pred HHHHHHHhCCCcEEEEEEhHHh
Confidence 3444556678898888888776
No 339
>PRK06298 type III secretion system protein; Validated
Probab=30.47 E-value=1.7e+02 Score=24.46 Aligned_cols=59 Identities=14% Similarity=-0.043 Sum_probs=36.4
Q ss_pred EEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHH
Q 033061 55 VMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAI 123 (128)
Q Consensus 55 ilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~ 123 (128)
|+|.=.+. ...++...|+++|||++.-. .|.|++-.... +.++--.++=+-+-++---|
T Consensus 283 VvAKG~d~--~A~~Ir~iA~e~~VPiven~---pLARaLy~~~e-----vg~~IP~ely~AVA~IL~~v 341 (356)
T PRK06298 283 IIAMGINL--RAKRIIAEAEKYGVPIMRNV---PLAHQLLDEGK-----ELKFIPESTYEAIGEILLYI 341 (356)
T ss_pred EEEeeCcH--HHHHHHHHHHHcCCCEEeCH---HHHHHHHHcCC-----CCCcCCHHHHHHHHHHHHHH
Confidence 34444433 58999999999999997654 68888765533 23333344444454444433
No 340
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=30.42 E-value=1.2e+02 Score=24.26 Aligned_cols=44 Identities=18% Similarity=0.311 Sum_probs=31.0
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
...+.+++.|.+| ...|+...++. ....+..+|+..+||++...
T Consensus 50 ~~~~~~c~ll~~~--V~aiiGp~~s~--~~~~~~~~~~~~~iP~i~~~ 93 (382)
T cd06380 50 ALTNAICSQLSRG--VFAIFGSYDKS--SVNTLTSYSDALHVPFITPS 93 (382)
T ss_pred HHHHHHHHHHhcC--cEEEEecCcHH--HHHHHHHHHhcCCCCeEecC
Confidence 4567777888653 44456666554 35678899999999998754
No 341
>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=30.32 E-value=1e+02 Score=23.64 Aligned_cols=50 Identities=20% Similarity=0.028 Sum_probs=32.5
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.++..+++.-.+-++++...-.+..-...+...+...++|++.+.+|-++
T Consensus 88 ~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~ 137 (222)
T cd01885 88 SEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDR 137 (222)
T ss_pred HHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCc
Confidence 46778887777777777554432212244455566778998888887765
No 342
>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=30.32 E-value=3.1e+02 Score=22.53 Aligned_cols=49 Identities=22% Similarity=0.191 Sum_probs=31.3
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
.+.+++++-.+-++++..+-.......++...+.++++|++.+.+|-+|
T Consensus 247 ~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl 295 (429)
T TIGR03594 247 RTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDL 295 (429)
T ss_pred HHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECccc
Confidence 3456677766666666444322223355677788889999998877665
No 343
>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=30.28 E-value=85 Score=22.38 Aligned_cols=36 Identities=6% Similarity=-0.067 Sum_probs=18.2
Q ss_pred CceeEEEEecCCChhh--HHhhHHHHHHhCCCCEEEeC
Q 033061 49 GISEFIVMAADTEPLE--ILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 49 ~kakLVilA~D~~p~~--~~~~l~~lc~~~~IP~~~~~ 84 (128)
-.+.-|+...|..+.+ --+.+...|.+++|++..+.
T Consensus 87 ~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~ 124 (165)
T PF00875_consen 87 YGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFD 124 (165)
T ss_dssp HTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE-
T ss_pred cCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEEC
Confidence 3466666666666542 22445556666677765544
No 344
>PRK09427 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional
Probab=30.28 E-value=1.9e+02 Score=24.97 Aligned_cols=75 Identities=13% Similarity=0.122 Sum_probs=49.8
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCC-CEEEeCCHHHHhHHhCCCCceEEEEEecCCchHH
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNV-PYVFVPSKQALGRACGVTRPVIACSVTSNEASQL 112 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~I-P~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~ 112 (128)
++.=..|+.++-.-|-=-+++++.=-++. ....+..+|++.|. |++.+.+.+||-+++-. ++.+++|.+.+=.+|
T Consensus 118 Fiid~~QI~ea~~~GADavLLI~~~L~~~-~l~~l~~~a~~lGl~~lvEvh~~~El~~al~~--~a~iiGiNnRdL~t~ 193 (454)
T PRK09427 118 FIIDPYQIYLARYYGADAILLMLSVLDDE-QYRQLAAVAHSLNMGVLTEVSNEEELERAIAL--GAKVIGINNRNLRDL 193 (454)
T ss_pred ccCCHHHHHHHHHcCCCchhHHHHhCCHH-HHHHHHHHHHHcCCcEEEEECCHHHHHHHHhC--CCCEEEEeCCCCccc
Confidence 44444555555554543444444445554 56888999999998 56899999999999554 455788887654333
No 345
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=30.23 E-value=1.1e+02 Score=21.06 Aligned_cols=41 Identities=15% Similarity=0.176 Sum_probs=19.7
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
++.+.+.++...++++.++.... ....+.+.-++.-.|.+.
T Consensus 36 ~~~~~l~~~~~gII~iTE~~a~~-i~~~~i~~~~~~~~P~II 76 (104)
T PRK01189 36 KFLEIFNNPKCKYIFVSESTKNM-FDKNTLRSLESSSKPLVV 76 (104)
T ss_pred HHHHHHhcCCeEEEEEEHHHHhh-CCHHHHHHHhccCCCeEE
Confidence 44445556666666666655443 321222222344555443
No 346
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.15 E-value=48 Score=25.78 Aligned_cols=18 Identities=17% Similarity=0.521 Sum_probs=15.6
Q ss_pred HhhHHHHHHhCCCCEEEe
Q 033061 66 LLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~ 83 (128)
+.++...|+++|||+++.
T Consensus 60 i~~Lr~~~~~~giPVvyT 77 (218)
T COG1535 60 IAKLRIWCKQAGIPVVYT 77 (218)
T ss_pred HHHHHHHHHHcCCcEEEE
Confidence 567889999999999875
No 347
>cd06660 Aldo_ket_red Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial applications. Members have very distinct functions and include the prokaryotic 2,5-diketo-D-gluconic acid reductases and beta-keto ester reductases, the eukaryotic aldose reductases, aldehyde reductases, hydroxysteroid dehydrogenases, steroid 5beta-reductases, potassium channel beta-subunits and aflatoxin aldehyde reductases, among others.
Probab=30.11 E-value=2.5e+02 Score=21.44 Aligned_cols=66 Identities=9% Similarity=0.018 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHcCCcc------ccHHHHHHHHHcCceeEEEEecCCChhhHH--hhHHHHHHhCCCCEEEe
Q 033061 18 LTITILDLVQQAANYKQLK------KGANEATKTLNRGISEFIVMAADTEPLEIL--LHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 18 ~~~~i~~lL~~a~~ag~lv------~G~~~v~kai~~~kakLVilA~D~~p~~~~--~~l~~lc~~~~IP~~~~ 83 (128)
.....+..|..++..|++- .+..++.+.+......+.++--..++.+.. ..+..+|++++|+++-.
T Consensus 125 ~~~~~~~~l~~l~~~G~ir~iGvS~~~~~~l~~~~~~~~~~~~~~q~~~n~~~~~~~~~~~~~~~~~gi~v~~~ 198 (285)
T cd06660 125 DIEETLRALEELVKEGKIRAIGVSNFSAEQLEEALAAAGVPPAVNQVEYNLLDRQAEEELLPYCREHGIGVIAY 198 (285)
T ss_pred CHHHHHHHHHHHHHcCCccEEEeeCCCHHHHHHHHHhhCCCceEEecccCcccCchHHHHHHHHHHcCcEEEEe
Confidence 3567788888888888743 344566666666444555555555544212 25889999999998653
No 348
>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=30.06 E-value=1.7e+02 Score=21.40 Aligned_cols=69 Identities=14% Similarity=0.131 Sum_probs=35.0
Q ss_pred CCCChhHHHHHHH-HHHHHHHcCCc---ccc-----HHHHHHHHHcCcee-EEEEecCCChhhHHhhHHHHHHhCCCCEE
Q 033061 12 PLADSNLTITILD-LVQQAANYKQL---KKG-----ANEATKTLNRGISE-FIVMAADTEPLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 12 P~~~~~~~~~i~~-lL~~a~~ag~l---v~G-----~~~v~kai~~~kak-LVilA~D~~p~~~~~~l~~lc~~~~IP~~ 81 (128)
|-.+......+++ +...+...|.- ... ..+..+.+.++++. +++.+.|.+.. ....+.+.+||++
T Consensus 7 ~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~-----~~~~~~~~~ipvV 81 (266)
T cd06278 7 ADLDNPFYSELLEALSRALQARGYQPLLINTDDDEDLDAALRQLLQYRVDGVIVTSGTLSSE-----LAEECRRNGIPVV 81 (266)
T ss_pred CCCCCchHHHHHHHHHHHHHHCCCeEEEEcCCCCHHHHHHHHHHHHcCCCEEEEecCCCCHH-----HHHHHhhcCCCEE
Confidence 3334444444444 44555666641 111 22344444555664 55544443322 2455677899998
Q ss_pred EeCC
Q 033061 82 FVPS 85 (128)
Q Consensus 82 ~~~s 85 (128)
.+++
T Consensus 82 ~~~~ 85 (266)
T cd06278 82 LINR 85 (266)
T ss_pred EECC
Confidence 8864
No 349
>TIGR03013 EpsB_2 sugar transferase, PEP-CTERM system associated. Members of this protein family belong to the family of bacterial sugar transferases (pfam02397). Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria (notable exceptions appear to include Magnetococcus sp. MC-1 and Myxococcus xanthus DK 1622 ). These genes are generally found near one or more of the PrsK, PrsR or PrsT genes that have been related to the PEP-CTERM system by phylogenetic profiling methods. The nature of the sugar transferase reaction catalyzed by members of this clade is unknown and may conceivably be variable with respect to substrate by species. These proteins are homologs of the EpsB protien found in Methylobacillus sp. strain 12S, which is also associated with a PEP-CTERM system, but of a distinct type. A name which appears attached to a number of genes (by transitive annotation) in this family is "undecapre
Probab=29.92 E-value=1.4e+02 Score=25.11 Aligned_cols=52 Identities=17% Similarity=0.049 Sum_probs=37.7
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
..++..+.+++.++.-|++|-+....+........|+..+|++..+++..++
T Consensus 174 ~~~dl~~~v~~~~Id~ViIAlp~~~~~~~~~~l~~~~~~gv~V~ivP~~~e~ 225 (442)
T TIGR03013 174 NGDGLVEYVLRHRIDEIVIALDERRGSLPVDELLECKLSGIEVVDAPSFFER 225 (442)
T ss_pred CHHHHHHHHHhCCCCEEEEECchhhcchHHHHHHHHHhCCCEEEEcchHHHH
Confidence 3467888899999999999986433321122346799999999988887665
No 350
>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=29.82 E-value=1.4e+02 Score=21.03 Aligned_cols=49 Identities=18% Similarity=0.144 Sum_probs=30.6
Q ss_pred cHHHHHHHHHcCceeEEEEec-CC---Ch---------hhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 38 GANEATKTLNRGISEFIVMAA-DT---EP---------LEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~-D~---~p---------~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+.+..++.++...++++++.. +. ++ ..+-+.+..+|+++++|++.+.+.
T Consensus 93 ~~~~~i~~i~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~v~~vd~~~~ 154 (185)
T cd01832 93 DLEEAVRRLRAAGARVVVFTIPDPAVLEPFRRRVRARLAAYNAVIRAVAARYGAVHVDLWEH 154 (185)
T ss_pred HHHHHHHHHHhCCCEEEEecCCCccccchhHHHHHHHHHHHHHHHHHHHHHcCCEEEecccC
Confidence 344555666655666666642 11 11 124566788999999999887654
No 351
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=29.81 E-value=80 Score=25.90 Aligned_cols=45 Identities=13% Similarity=0.169 Sum_probs=30.5
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+++.|.++++.-+|...+.++......+...|.+..||++.+.
T Consensus 52 ~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~ 96 (362)
T cd06378 52 TQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIH 96 (362)
T ss_pred HHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEec
Confidence 456677778888877777777763122345555667999998764
No 352
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=29.80 E-value=64 Score=25.95 Aligned_cols=44 Identities=23% Similarity=0.372 Sum_probs=28.0
Q ss_pred ccccHHHHHHHH----HcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 35 LKKGANEATKTL----NRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 35 lv~G~~~v~kai----~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++|.-..+++| ++|+ +..+++-+|-+. +..+|+++|||+..+.
T Consensus 95 l~Sg~gsnl~al~~~~~~~~~~~~i~~visn~~~------~~~lA~~~gIp~~~~~ 144 (286)
T PRK06027 95 LVSKEDHCLGDLLWRWRSGELPVEIAAVISNHDD------LRSLVERFGIPFHHVP 144 (286)
T ss_pred EEcCCCCCHHHHHHHHHcCCCCcEEEEEEEcChh------HHHHHHHhCCCEEEec
Confidence 446655555555 4553 677777777532 2345999999998753
No 353
>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=29.74 E-value=2.1e+02 Score=24.05 Aligned_cols=63 Identities=10% Similarity=0.063 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHcC-------CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCE
Q 033061 18 LTITILDLVQQAANYK-------QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 18 ~~~~i~~lL~~a~~ag-------~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~ 80 (128)
+-+.-+.++..+++.+ .+....+.++.++++..+++|+=+.-.+|....+.+..+++++++++
T Consensus 32 LaE~tma~~~~~~~~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg~np~~~a~~v~eia~e~Gl~l 101 (362)
T PF07287_consen 32 LAERTMAILARAKRKDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGGLNPAGCADIVREIARELGLSL 101 (362)
T ss_pred HHHHHHHHHHHHHhhCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHHHHHhcCCCe
Confidence 3344455666555443 26677888899999999999999999999989999999999998884
No 354
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=29.57 E-value=1.1e+02 Score=23.83 Aligned_cols=30 Identities=17% Similarity=0.205 Sum_probs=23.9
Q ss_pred cCCccccHHHHHHHHHcCceeEEEEecCCC
Q 033061 32 YKQLKKGANEATKTLNRGISEFIVMAADTE 61 (128)
Q Consensus 32 ag~lv~G~~~v~kai~~~kakLVilA~D~~ 61 (128)
.++..-|..+.++.+++...+++++.++..
T Consensus 16 ~~~~~~ga~e~l~~L~~~g~~~~~~Tnns~ 45 (279)
T TIGR01452 16 GERVVPGAPELLDRLARAGKAALFVTNNST 45 (279)
T ss_pred CCeeCcCHHHHHHHHHHCCCeEEEEeCCCC
Confidence 345677888999999888888888888764
No 355
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=29.48 E-value=1.5e+02 Score=22.11 Aligned_cols=41 Identities=10% Similarity=0.186 Sum_probs=23.2
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+.+...++.-+|+.... +. ........+.+++||++.+++
T Consensus 49 i~~~~~~~vdgiii~~~~-~~-~~~~~~~~~~~~~ipvV~~~~ 89 (270)
T cd06308 49 IENFIRQGVDLLIISPNE-AA-PLTPVVEEAYRAGIPVILLDR 89 (270)
T ss_pred HHHHHHhCCCEEEEecCc-hh-hchHHHHHHHHCCCCEEEeCC
Confidence 333445566666665432 22 123334555678999988764
No 356
>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=29.43 E-value=51 Score=28.48 Aligned_cols=34 Identities=18% Similarity=0.216 Sum_probs=22.1
Q ss_pred eeEEEEecCCC-------hh--hHHhhHHHHHHhCCCCEEEeC
Q 033061 51 SEFIVMAADTE-------PL--EILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 51 akLVilA~D~~-------p~--~~~~~l~~lc~~~~IP~~~~~ 84 (128)
--..|||+|.. +. +-..+|..+|..+|+|++++-
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 34678899842 11 245789999999999998764
No 357
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=29.43 E-value=1.2e+02 Score=24.30 Aligned_cols=45 Identities=20% Similarity=0.421 Sum_probs=29.9
Q ss_pred ccccHHHHHHHH----HcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 35 LKKGANEATKTL----NRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 35 lv~G~~~v~kai----~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+++|.-.++++| +.|+ +.++++-+|-.. . ..+|+++|||+..+..
T Consensus 90 l~Sg~g~nl~~l~~~~~~g~l~~~i~~visn~~~--~----~~~A~~~gIp~~~~~~ 140 (280)
T TIGR00655 90 LVSKEDHCLGDLLWRWYSGELDAEIALVISNHED--L----RSLVERFGIPFHYIPA 140 (280)
T ss_pred EEcCCChhHHHHHHHHHcCCCCcEEEEEEEcChh--H----HHHHHHhCCCEEEcCC
Confidence 457765555555 5564 677777777632 2 2369999999987764
No 358
>PLN02828 formyltetrahydrofolate deformylase
Probab=29.41 E-value=1.1e+02 Score=24.54 Aligned_cols=49 Identities=18% Similarity=0.323 Sum_probs=31.6
Q ss_pred ccccHHHHHHHH----HcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 35 LKKGANEATKTL----NRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 35 lv~G~~~v~kai----~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++|.-.++.+| +.|+ +.++.+-+|-+.. -...+..+++++|||+..++
T Consensus 76 lvSg~g~nl~~ll~~~~~g~l~~eI~~ViSn~~~~-~~a~~~~~A~~~gIP~~~~~ 130 (268)
T PLN02828 76 LASKQDHCLIDLLHRWQDGRLPVDITCVISNHERG-PNTHVMRFLERHGIPYHYLP 130 (268)
T ss_pred EEcCCChhHHHHHHhhhcCCCCceEEEEEeCCCCC-CCchHHHHHHHcCCCEEEeC
Confidence 567777666666 4454 5666666665321 12466788999999997654
No 359
>PRK00098 GTPase RsgA; Reviewed
Probab=29.33 E-value=80 Score=25.22 Aligned_cols=26 Identities=27% Similarity=0.282 Sum_probs=20.6
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
...++...++..++|++.+.+|.+|-
T Consensus 99 ~idr~L~~~~~~~ip~iIVlNK~DL~ 124 (298)
T PRK00098 99 LLDRFLVLAEANGIKPIIVLNKIDLL 124 (298)
T ss_pred HHHHHHHHHHHCCCCEEEEEEhHHcC
Confidence 44666667888899999999998883
No 360
>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=29.25 E-value=58 Score=27.52 Aligned_cols=74 Identities=16% Similarity=0.213 Sum_probs=40.7
Q ss_pred CccccHHHHHHHHH----cCceeEEEEec---CCChh--hHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCce-EEEE
Q 033061 34 QLKKGANEATKTLN----RGISEFIVMAA---DTEPL--EILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV-IACS 103 (128)
Q Consensus 34 ~lv~G~~~v~kai~----~~kakLVilA~---D~~p~--~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~-~~v~ 103 (128)
++++|.+-+.+.+. -..+-|||-.+ |.... .+-..+-.+|+++++|++-+....+.+..--.+... .+..
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 67899999977662 25689999999 65322 144556788999999998765554554432223222 3444
Q ss_pred EecC
Q 033061 104 VTSN 107 (128)
Q Consensus 104 i~~~ 107 (128)
|.+.
T Consensus 344 i~~~ 347 (377)
T PF02595_consen 344 IIDG 347 (377)
T ss_dssp EE-S
T ss_pred CCCC
Confidence 5544
No 361
>PRK08025 lipid A biosynthesis palmitoleoyl acyltransferase; Reviewed
Probab=29.19 E-value=2.9e+02 Score=21.87 Aligned_cols=74 Identities=9% Similarity=0.029 Sum_probs=44.1
Q ss_pred CCccccCCCChhHHHHHHHHHHHHHHcC-Ccc--ccHHHHHHHHHcCceeEEEEecCCChh---------------hHHh
Q 033061 6 VNPKAYPLADSNLTITILDLVQQAANYK-QLK--KGANEATKTLNRGISEFIVMAADTEPL---------------EILL 67 (128)
Q Consensus 6 ~~p~~~P~~~~~~~~~i~~lL~~a~~ag-~lv--~G~~~v~kai~~~kakLVilA~D~~p~---------------~~~~ 67 (128)
+..+++|+.+.-+++ +.+-.+. +.| .++ .|.+++.+++++|. +|.+..|-++. .+..
T Consensus 149 ~~~vyr~~~n~~~d~-~~~~~R~--~~g~~~i~~~~~r~~~~aLk~g~--~v~il~DQ~~~~~~gv~v~FfG~~~a~t~~ 223 (305)
T PRK08025 149 MMATYRPHNNKLMEW-VQTRGRM--RSNKAMIGRNNLRGIVGALKKGE--AVWFAPDQDYGPKGSSFAPFFAVENVATTN 223 (305)
T ss_pred CeEEEeCCCCHHHHH-HHHHHHh--ccCCcCcCcccHHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeCCCCCcchhHHH
Confidence 345788887755543 3332221 123 333 57888999999885 66677665531 1223
Q ss_pred hHHHHHHhCCCCEEEeC
Q 033061 68 HLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 68 ~l~~lc~~~~IP~~~~~ 84 (128)
-...++.+.|.|++.+.
T Consensus 224 g~~~LA~~~~apvvp~~ 240 (305)
T PRK08025 224 GTYVLSRLSGAAMLTVT 240 (305)
T ss_pred HHHHHHHhhCCeEEEEE
Confidence 33477788888887655
No 362
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=29.18 E-value=94 Score=24.20 Aligned_cols=55 Identities=11% Similarity=0.122 Sum_probs=32.4
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe------CCHHHHhHHhCC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV------PSKQALGRACGV 95 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~------~sk~eLG~a~G~ 95 (128)
..+.+.++.....-|.+..=.+-. +.+.+..+|+..+||+... -|.+++..+++-
T Consensus 81 ~~L~~~~~~~~~~~~~~~~P~d~~-l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~ 141 (224)
T PF04244_consen 81 DALARALKQHGIDRLHVMEPGDYR-LEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEG 141 (224)
T ss_dssp HHHHHHHHHH----EEEE--S-HH-HHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT
T ss_pred HHHHHHHHHcCCCEEEEECCCCHH-HHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHcc
Confidence 455567777777777777777776 8999999999999998654 367899988874
No 363
>PRK06091 membrane protein FdrA; Validated
Probab=29.12 E-value=1.2e+02 Score=27.15 Aligned_cols=42 Identities=14% Similarity=0.121 Sum_probs=32.3
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
..+.+++++| .+.+|+++..+.. ....+..+|+++|+.++=.
T Consensus 132 ~al~ea~~~G-~~viI~S~gfg~~-~E~~L~e~Ar~~GlrvmGP 173 (555)
T PRK06091 132 ELAEQALDRN-LNVMMFSDNVTLE-DEIRLKTRAREKGLLVMGP 173 (555)
T ss_pred HHHHHHHHcC-CeEEEEcCCCCHH-HHHHHHHHHHHcCCEEECC
Confidence 3566777888 5688888888654 7899999999999876533
No 364
>cd06427 CESA_like_2 CESA_like_2 is a member of the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, Glucan Biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis prot
Probab=29.09 E-value=2.3e+02 Score=21.02 Aligned_cols=57 Identities=12% Similarity=0.093 Sum_probs=30.0
Q ss_pred eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHH------hCCCCceEEEEEecCCc
Q 033061 51 SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRA------CGVTRPVIACSVTSNEA 109 (128)
Q Consensus 51 akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a------~G~~~~~~~v~i~~~~~ 109 (128)
..++|+-.+.++. +...+..++...++.++........|.+ +-.... -.++++|.|.
T Consensus 33 ~eiivVdd~s~d~-t~~i~~~~~~~~~~~i~~~~~~~~~G~~~a~n~g~~~a~g-d~i~~~DaD~ 95 (241)
T cd06427 33 LDVKLLLEEDDEE-TIAAARALRLPSIFRVVVVPPSQPRTKPKACNYALAFARG-EYVVIYDAED 95 (241)
T ss_pred EEEEEEECCCCch-HHHHHHHhccCCCeeEEEecCCCCCchHHHHHHHHHhcCC-CEEEEEcCCC
Confidence 5666666666565 7777666665455666655432222222 222233 2456777764
No 365
>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=29.08 E-value=1.6e+02 Score=20.61 Aligned_cols=49 Identities=10% Similarity=0.171 Sum_probs=30.1
Q ss_pred cccHHHHHHHHHc--CceeEEEEec-CC-------------ChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 36 KKGANEATKTLNR--GISEFIVMAA-DT-------------EPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 36 v~G~~~v~kai~~--~kakLVilA~-D~-------------~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..+.+..++.+++ ..+++|++.. +. .-.++...+..+|+++++|++-+.
T Consensus 80 ~~~~~~li~~i~~~~~~~~iv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~v~~vd~~ 144 (189)
T cd01825 80 RQQLREFIKRLRQILPNASILLVGPPDSLQKTGAGRWRTPPGLDAVIAAQRRVAKEEGIAFWDLY 144 (189)
T ss_pred HHHHHHHHHHHHHHCCCCeEEEEcCCchhccCCCCCcccCCcHHHHHHHHHHHHHHcCCeEEeHH
Confidence 3444555555655 5677777652 10 111245677899999999998655
No 366
>cd01139 TroA_f Periplasmic binding protein TroA_f. 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=29.01 E-value=2.9e+02 Score=21.84 Aligned_cols=77 Identities=14% Similarity=0.187 Sum_probs=44.7
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC-----------HHHHhHHhCCCCceEEEEEecCCch
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS-----------KQALGRACGVTRPVIACSVTSNEAS 110 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s-----------k~eLG~a~G~~~~~~~v~i~~~~~~ 110 (128)
-.+.|.+=+.-|||.................-++.+||++.+.. -+.||+++|++-++- .--+
T Consensus 83 n~E~l~~l~PDLIi~~~~~~~~~~~~~~~~~l~~~gipvv~~~~~~~~~~~~~~~i~~lg~i~g~~~~A~------~li~ 156 (342)
T cd01139 83 SVEKVLTLKPDLVILNIWAKTTAEESGILEKLEQAGIPVVFVDFRQKPLKNTTPSMRLLGKALGREERAE------EFIE 156 (342)
T ss_pred CHHHHhhcCCCEEEEeccccccchhhHHHHHHHHcCCcEEEEeCCCchhhhHHHHHHHHHHHhCCHHHHH------HHHH
Confidence 46777777888988875542100112233334677899876541 346799999876541 1113
Q ss_pred HHHHHHHHHHHHHh
Q 033061 111 QLKTQIQQLKDAIE 124 (128)
Q Consensus 111 ~~~~li~~i~~~~~ 124 (128)
.+.+.++++++.+.
T Consensus 157 ~~~~~l~~i~~~~~ 170 (342)
T cd01139 157 FYQERIDRIRDRLA 170 (342)
T ss_pred HHHHHHHHHHHHHh
Confidence 45556666665553
No 367
>COG4799 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]
Probab=28.95 E-value=60 Score=28.79 Aligned_cols=20 Identities=25% Similarity=0.439 Sum_probs=16.9
Q ss_pred hHHhhHHHHHHhCCCCEEEe
Q 033061 64 EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 64 ~~~~~l~~lc~~~~IP~~~~ 83 (128)
+-..+|..+|..+|||++++
T Consensus 346 ~KaArFI~~cd~~~iPlv~L 365 (526)
T COG4799 346 DKAARFIRLCDAFNIPLVFL 365 (526)
T ss_pred HHHHHHHHhhhccCCCeEEE
Confidence 34678889999999999875
No 368
>TIGR02200 GlrX_actino Glutaredoxin-like protein. This family of glutaredoxin-like proteins is limited to the Actinobacteria and contains the conserved CxxC motif.
Probab=28.77 E-value=1.1e+02 Score=18.21 Aligned_cols=17 Identities=18% Similarity=0.231 Sum_probs=9.1
Q ss_pred hhHHHHHHhCCCCEEEe
Q 033061 67 LHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~ 83 (128)
..+..+.++.++|+..+
T Consensus 14 ~~~~~~L~~~~~~~~~i 30 (77)
T TIGR02200 14 AQLMRTLDKLGAAYEWV 30 (77)
T ss_pred HHHHHHHHHcCCceEEE
Confidence 34444556666666443
No 369
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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=28.69 E-value=1.4e+02 Score=23.13 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=25.1
Q ss_pred HHHHHHcC--ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 42 ATKTLNRG--ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 42 v~kai~~~--kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+.+.+. .+.-+|+..... . ...+...+.+++||++.+++
T Consensus 48 ~i~~~~~~~~~vdgiIi~~~~~-~--~~~~~~~~~~~giPvV~~~~ 90 (305)
T cd06324 48 QARTILQRPDKPDALIFTNEKS-V--APELLRLAEGAGVKLFLVNS 90 (305)
T ss_pred HHHHHHHhccCCCEEEEcCCcc-c--hHHHHHHHHhCCCeEEEEec
Confidence 34445555 776666665432 2 23445667789999988764
No 370
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ 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. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=28.64 E-value=87 Score=24.85 Aligned_cols=25 Identities=28% Similarity=0.276 Sum_probs=19.5
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQAL 89 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eL 89 (128)
..+++...++..++|++.+.+|.+|
T Consensus 97 ~ldr~L~~~~~~~ip~iIVlNK~DL 121 (287)
T cd01854 97 LLDRYLVAAEAAGIEPVIVLTKADL 121 (287)
T ss_pred HHHHHHHHHHHcCCCEEEEEEHHHC
Confidence 4456666778888999888888887
No 371
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. 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
Probab=28.64 E-value=2.4e+02 Score=20.65 Aligned_cols=42 Identities=21% Similarity=0.260 Sum_probs=25.8
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+.+.++++.-+|+....... .. +...+++++||++.+++
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~~--~~-~~~~~~~~~ipvV~~~~ 87 (266)
T cd06282 46 DAVETLLRQRVDGLILTVADAAT--SP-ALDLLDAERVPYVLAYN 87 (266)
T ss_pred HHHHHHHhcCCCEEEEecCCCCc--hH-HHHHHhhCCCCEEEEec
Confidence 45556666777777765432222 12 45667888999877653
No 372
>COG4378 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.59 E-value=86 Score=21.67 Aligned_cols=34 Identities=15% Similarity=0.312 Sum_probs=25.0
Q ss_pred eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 51 SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 51 akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..|+++-.|---.++.+.+..-+++++||+++..
T Consensus 45 ~dlilvLtdf~nHNl~~~iK~eakk~~ip~~~ak 78 (103)
T COG4378 45 TDLILVLTDFLNHNLMKKIKNEAKKRKIPLVCAK 78 (103)
T ss_pred ccEEEEEhhhhcchHHHHHHHHHhhcCCCeEEee
Confidence 4455555554333499999999999999998753
No 373
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=28.53 E-value=1.3e+02 Score=24.33 Aligned_cols=42 Identities=14% Similarity=0.150 Sum_probs=34.2
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+....+-.+..-+||=|-|.-+ ++-++..+|.+++||++..+
T Consensus 112 en~~~~~~~~~DyvIDaiD~v~--~Kv~Li~~c~~~ki~vIss~ 153 (263)
T COG1179 112 ENLEDLLSKGFDYVIDAIDSVR--AKVALIAYCRRNKIPVISSM 153 (263)
T ss_pred hHHHHHhcCCCCEEEEchhhhH--HHHHHHHHHHHcCCCEEeec
Confidence 4455555667899999999855 58999999999999999865
No 374
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta 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.
Probab=28.44 E-value=1.6e+02 Score=21.97 Aligned_cols=41 Identities=12% Similarity=0.080 Sum_probs=21.8
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+.+.+.++.-+|+....++. +... ...+.+++||++.+++
T Consensus 50 i~~l~~~~vdgiIi~~~~~~~-~~~~-~~~~~~~~iPvV~~~~ 90 (275)
T cd06320 50 AENMINKGYKGLLFSPISDVN-LVPA-VERAKKKGIPVVNVND 90 (275)
T ss_pred HHHHHHhCCCEEEECCCChHH-hHHH-HHHHHHCCCeEEEECC
Confidence 444444555544444322222 2233 3455788999988764
No 375
>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=28.42 E-value=1.8e+02 Score=21.59 Aligned_cols=41 Identities=12% Similarity=0.276 Sum_probs=24.4
Q ss_pred HHHHHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+++.+.+..+++.=+|+ +.+.++. . ...+...+||++.+++
T Consensus 54 ~~~~~~l~~~~~dgiii~~~~~~~~-~----~~~~~~~~ipvV~~~~ 95 (275)
T cd06295 54 DWLARYLASGRADGVILIGQHDQDP-L----PERLAETGLPFVVWGR 95 (275)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCChH-H----HHHHHhCCCCEEEECC
Confidence 35666676667654444 4443332 2 3456788999887753
No 376
>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=28.35 E-value=1.2e+02 Score=23.43 Aligned_cols=49 Identities=20% Similarity=0.194 Sum_probs=33.3
Q ss_pred HHHHHHHHcCceeEEEEecCCChhh------HHhhHHHHHHhCCCCEEEeCCHHH
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLE------ILLHLPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~------~~~~l~~lc~~~~IP~~~~~sk~e 88 (128)
+++++.+++.++.+||++.|..... .-..+.......++|+..+...-|
T Consensus 30 ~~~i~~i~~~~~d~vv~~GDlv~~~~~~~~~~~~~~~~~l~~l~~p~~~v~GNHD 84 (267)
T cd07396 30 EEAVEEWNRESLDFVVQLGDIIDGDNARAEEALDAVLAILDRLKGPVHHVLGNHD 84 (267)
T ss_pred HHHHHHHHcCCCCEEEECCCeecCCCchHHHHHHHHHHHHHhcCCCEEEecCccc
Confidence 3556777777799999999986321 233445666778899987754444
No 377
>cd04196 GT_2_like_d 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=28.25 E-value=2.2e+02 Score=20.06 Aligned_cols=68 Identities=10% Similarity=0.078 Sum_probs=36.6
Q ss_pred HHHHHHHHcC---ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhC------CCCceEEEEEecCCc
Q 033061 40 NEATKTLNRG---ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACG------VTRPVIACSVTSNEA 109 (128)
Q Consensus 40 ~~v~kai~~~---kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G------~~~~~~~v~i~~~~~ 109 (128)
.+++.++.+. ...++|+ .|.|+.++.+.+..++.++..++.........|.+-+ .... -.++++|.|+
T Consensus 14 ~~~l~sl~~q~~~~~eiiVv-ddgS~d~t~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~n~g~~~~~g-~~v~~ld~Dd 90 (214)
T cd04196 14 REQLDSILAQTYKNDELIIS-DDGSTDGTVEIIKEYIDKDPFIIILIRNGKNLGVARNFESLLQAADG-DYVFFCDQDD 90 (214)
T ss_pred HHHHHHHHhCcCCCeEEEEE-eCCCCCCcHHHHHHHHhcCCceEEEEeCCCCccHHHHHHHHHHhCCC-CEEEEECCCc
Confidence 3555555543 3455555 5555444777788888887655555544444444322 2222 2456667664
No 378
>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=28.25 E-value=1.7e+02 Score=21.54 Aligned_cols=40 Identities=15% Similarity=0.111 Sum_probs=23.6
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+.+.++.+.-||+....... .. ...+++++||++++++
T Consensus 47 ~~~~l~~~~vdgiIi~~~~~~~---~~-~~~l~~~~ipvV~~~~ 86 (265)
T cd06299 47 YLDNLLSQRVDGIIVVPHEQSA---EQ-LEDLLKRGIPVVFVDR 86 (265)
T ss_pred HHHHHHhcCCCEEEEcCCCCCh---HH-HHHHHhCCCCEEEEec
Confidence 3455666777666666532221 12 3455668999987764
No 379
>COG1086 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]
Probab=28.24 E-value=2e+02 Score=25.93 Aligned_cols=56 Identities=13% Similarity=0.084 Sum_probs=44.2
Q ss_pred ccccHHHHHHHHHcCceeEEEEe-cCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH
Q 033061 35 LKKGANEATKTLNRGISEFIVMA-ADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR 91 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA-~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 91 (128)
-|.|..++...+++..+..+++| ..+++. -.+++...|+++++.+-..++-.+|..
T Consensus 162 ~V~g~~~i~~~v~~~~~~~iiiAips~~~~-~~~~i~~~l~~~~~~v~~lP~~~~l~~ 218 (588)
T COG1086 162 PVLGRIEIERVVEELGIQLILIAIPSASQE-ERRRILLRLARTGIAVRILPQLTDLKD 218 (588)
T ss_pred eeechhHHHHHHHHcCCceEEEecCCCCHH-HHHHHHHHHHhcCCcEEecCcHHHHHH
Confidence 45677778888888887766666 455665 678889999999999999988888665
No 380
>PRK08156 type III secretion system protein SpaS; Validated
Probab=28.23 E-value=2.1e+02 Score=24.10 Aligned_cols=52 Identities=23% Similarity=0.040 Sum_probs=35.4
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
+..++...+++|+||++.-. -|.|++-.... +.+.--.++=+-+-++-.-|.
T Consensus 285 ~A~~IreiA~e~~VPiven~---pLARaLY~~ve-----vg~~IP~ely~AVA~iLa~v~ 336 (361)
T PRK08156 285 RALAVRAYAEKVGVPVVRDI---KLARRLYKTHR-----RYSFVSLEDLDEVLRLLIWLE 336 (361)
T ss_pred HHHHHHHHHHHCCCCEeeCH---HHHHHHHHhCC-----CCCcCCHHHHHHHHHHHHHHH
Confidence 68999999999999997654 68888766533 344434555555555554443
No 381
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=28.22 E-value=35 Score=21.37 Aligned_cols=26 Identities=19% Similarity=0.213 Sum_probs=20.0
Q ss_pred HHHHHHcCCccccHHHHHHHHHcCce
Q 033061 26 VQQAANYKQLKKGANEATKTLNRGIS 51 (128)
Q Consensus 26 L~~a~~ag~lv~G~~~v~kai~~~ka 51 (128)
+..|++.++++.|.+..+++.+.|+.
T Consensus 24 ~~kAr~~~R~~K~~~~~I~~~~aG~p 49 (59)
T smart00685 24 EEKARRHLRIAKQFDDAIKAARAGRP 49 (59)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHCCCC
Confidence 34566666788999999999999873
No 382
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective 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. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=28.21 E-value=2e+02 Score=19.58 Aligned_cols=51 Identities=16% Similarity=0.254 Sum_probs=32.1
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC-H--HHHhHHhCCCC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS-K--QALGRACGVTR 97 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s-k--~eLG~a~G~~~ 97 (128)
..+...++.+.++.+..|..+ .+..+.+++++++-.+.+ . .++++.+|...
T Consensus 54 ~~~~~~~~~v~vi~vs~d~~~-----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~g~~~ 107 (149)
T cd03018 54 SLELFEAAGAEVLGISVDSPF-----SLRAWAEENGLTFPLLSDFWPHGEVAKAYGVFD 107 (149)
T ss_pred HHHHHHhCCCEEEEecCCCHH-----HHHHHHHhcCCCceEecCCCchhHHHHHhCCcc
Confidence 344445556788888776422 245566777777755544 3 68888888763
No 383
>PTZ00125 ornithine aminotransferase-like protein; Provisional
Probab=28.19 E-value=1.4e+02 Score=24.12 Aligned_cols=43 Identities=14% Similarity=0.040 Sum_probs=29.1
Q ss_pred HHHHHHHHcCceeEEEEecC-------CChhhHHhhHHHHHHhCCCCEEE
Q 033061 40 NEATKTLNRGISEFIVMAAD-------TEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D-------~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
.+..+.++.++.++|++-.- .++.+..+.+.++|++|++.++.
T Consensus 168 ~~le~~l~~~~~~~v~~ep~~~~~G~~~~~~~~l~~l~~l~~~~~~lli~ 217 (400)
T PTZ00125 168 EALEKLLQDPNVAAFIVEPIQGEAGVIVPDDGYLKQVYELCKKYNVLLIV 217 (400)
T ss_pred HHHHHHhCCCCeEEEEEcCccCCCCCccCCHHHHHHHHHHHHHcCCEEEE
Confidence 45555565467888887432 12333689999999999998754
No 384
>PF03851 UvdE: UV-endonuclease UvdE; InterPro: IPR004601 Schizosaccharomyces pombe ultraviolet damage endonuclease (UVDE or Uve1p) performs the initial step in an alternative excision repair pathway for UV-induced DNA damage. This DNA repair pathway was originally thought to be specific for UV damage, however Uve1p also recognises UV-induced bipyrimidine photoadducts and other non-UV-induced DNA adducts []. The Deinococcus radiodurans UVSE protein has also shown to be a UV DNA damage endonuclease that catalyzes repair of UV-induced DNA damage by a similar mechanism [].; GO: 0004519 endonuclease activity, 0006289 nucleotide-excision repair, 0009411 response to UV; PDB: 3BZG_A 3BZJ_A 3C0L_A 3C0S_A 3C0Q_A.
Probab=28.16 E-value=58 Score=26.36 Aligned_cols=30 Identities=17% Similarity=0.356 Sum_probs=18.7
Q ss_pred eEEEEecCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 52 EFIVMAADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 52 kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
+-+++=+|=... +...+..+|++.|||+++
T Consensus 179 ~rL~lENDd~~y-t~~d~L~ic~~~giP~Vf 208 (275)
T PF03851_consen 179 KRLTLENDDKTY-TVEDVLPICEKLGIPMVF 208 (275)
T ss_dssp TTEEEE--SSS---HHHHHHHHHHHT--EEE
T ss_pred hcEEEecCCCcc-CHHHHHHHHHHhCCCEEE
Confidence 345566665555 788899999999999987
No 385
>cd00739 DHPS DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.
Probab=28.15 E-value=3e+02 Score=21.67 Aligned_cols=79 Identities=16% Similarity=0.177 Sum_probs=50.7
Q ss_pred CCCCCccccCCCChhHHHHHHHHHHHHHHcCCcc-----ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCC
Q 033061 3 GEAVNPKAYPLADSNLTITILDLVQQAANYKQLK-----KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKN 77 (128)
Q Consensus 3 ~~~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv-----~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~ 77 (128)
|+...|-+.|+..++=.+++..+++..+..-.+. .=.+....+++.| +.+ =+|++.......+..++.+++
T Consensus 45 ~~st~p~~~~i~~~~E~~rl~~~v~~i~~~~~~plSIDT~~~~v~e~al~~G-~~i---INdisg~~~~~~~~~l~~~~~ 120 (257)
T cd00739 45 GESTRPGADPVSVEEELERVIPVLEALRGELDVLISVDTFRAEVARAALEAG-ADI---INDVSGGSDDPAMLEVAAEYG 120 (257)
T ss_pred CCcCCCCCCCCCHHHHHHHHHHHHHHHHhcCCCcEEEeCCCHHHHHHHHHhC-CCE---EEeCCCCCCChHHHHHHHHcC
Confidence 3556687888877777788888888777542322 2345566677777 333 345544311256677888999
Q ss_pred CCEEEeCC
Q 033061 78 VPYVFVPS 85 (128)
Q Consensus 78 IP~~~~~s 85 (128)
+|++...+
T Consensus 121 ~~vV~m~~ 128 (257)
T cd00739 121 APLVLMHM 128 (257)
T ss_pred CCEEEECC
Confidence 99988654
No 386
>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=28.11 E-value=1.1e+02 Score=24.10 Aligned_cols=48 Identities=19% Similarity=0.018 Sum_probs=27.2
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
.++.++++.-.+-++++...-....-...+..++.++++|++.+-+|.
T Consensus 79 ~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~ivviNK~ 126 (270)
T cd01886 79 IEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRIAFVNKM 126 (270)
T ss_pred HHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECC
Confidence 345666666666555554433222223455667778888876654443
No 387
>PRK08905 lipid A biosynthesis lauroyl acyltransferase; Validated
Probab=28.11 E-value=3e+02 Score=21.68 Aligned_cols=76 Identities=21% Similarity=0.236 Sum_probs=45.1
Q ss_pred CCccccCCCChhHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCceeEEEEecCCChh--------------hHHh
Q 033061 6 VNPKAYPLADSNLTITILDLVQQAANYKQLK----KGANEATKTLNRGISEFIVMAADTEPL--------------EILL 67 (128)
Q Consensus 6 ~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv----~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~~ 67 (128)
+.-+++|.-+..+++-+.+. +.. ...+++ .|.+++.+++++|. +|.+..|-++. .+-.
T Consensus 126 ~~~v~r~~~n~~~~~~~~~~-R~~-~g~~~i~~~~~~~~~i~~aLk~g~--~v~il~Dq~~~~~~g~~v~FfG~~a~~~~ 201 (289)
T PRK08905 126 LTAMFRPPRKAALRPLMEAG-RAR-GNMRTAPATPQGVRMLVKALRRGE--AVGILPDQVPSGGEGVWAPFFGRPAYTMT 201 (289)
T ss_pred ceEEEECCCCHHHHHHHHHH-hcc-cCCceeccCCccHHHHHHHHhcCC--eEEEcCCCCCCCCCceEecCCCCcchHHH
Confidence 44567888666666433222 211 112344 56889999999885 67777776542 1222
Q ss_pred hHHHHHHhCCCCEEEeCC
Q 033061 68 HLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 68 ~l~~lc~~~~IP~~~~~s 85 (128)
-...++...+.|++.+..
T Consensus 202 gpa~lA~~~~apvvp~~~ 219 (289)
T PRK08905 202 LVARLAEVTGVPVIFVAG 219 (289)
T ss_pred HHHHHHHhhCCcEEEEEE
Confidence 233677888888776553
No 388
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.06 E-value=85 Score=23.30 Aligned_cols=31 Identities=26% Similarity=0.268 Sum_probs=25.6
Q ss_pred EEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 54 IVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+++=.|+=| +++.+...++++++|+.++.+.
T Consensus 4 I~VDADACP--Vk~~i~r~A~r~~~~v~~Van~ 34 (150)
T COG1671 4 IWVDADACP--VKDEIYRVAERMGLKVTFVANF 34 (150)
T ss_pred EEEeCCCCc--hHHHHHHHHHHhCCeEEEEeCC
Confidence 455567667 6899999999999999998865
No 389
>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=28.04 E-value=1.9e+02 Score=19.38 Aligned_cols=48 Identities=13% Similarity=0.034 Sum_probs=32.7
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCCC---hhhHHhhHHHHHHhCCCCEE
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADTE---PLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~~---p~~~~~~l~~lc~~~~IP~~ 81 (128)
.+--|..++++.+++...+++|+.+... +......+..+++..+++..
T Consensus 25 ~~~~~v~~~l~~L~~~g~~l~i~Sn~~~~~~~~~~~~~~~~~l~~~~l~~~ 75 (132)
T TIGR01662 25 ILYPEVPDALAELKEAGYKVVIVTNQSGIGRGKFSSGRVARRLEELGVPID 75 (132)
T ss_pred eeCCCHHHHHHHHHHCCCEEEEEECCccccccHHHHHHHHHHHHHCCCCEE
Confidence 4567888899999887788888877651 11014556677777788743
No 390
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=28.01 E-value=52 Score=18.21 Aligned_cols=27 Identities=11% Similarity=0.081 Sum_probs=19.7
Q ss_pred HhhHHHHHHhCCCCEEEeC-CHHHHhHH
Q 033061 66 LLHLPLLAEDKNVPYVFVP-SKQALGRA 92 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~~-sk~eLG~a 92 (128)
.+.+....+++|||+-... ++++|=..
T Consensus 6 ~~~L~~wL~~~gi~~~~~~~~rd~Ll~~ 33 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPKSAKTRDELLKL 33 (38)
T ss_pred HHHHHHHHHHcCCCCCCCCCCHHHHHHH
Confidence 3667788888999986555 78877544
No 391
>COG4052 Uncharacterized protein related to methyl coenzyme M reductase subunit C [General function prediction only]
Probab=27.95 E-value=43 Score=27.10 Aligned_cols=67 Identities=15% Similarity=0.132 Sum_probs=42.6
Q ss_pred HHHHHHHHcCCccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH
Q 033061 24 DLVQQAANYKQLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR 91 (128)
Q Consensus 24 ~lL~~a~~ag~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 91 (128)
|++|+|+..|+=++-..+-.+.+-+..=--||.-.+-+.= ++++=+.+-+.-.||++..++.+|+-.
T Consensus 106 NmIGLARG~Gr~is~l~e~ErrLieEHDlavf~~GsF~dC-I~~~K~~Lf~~i~iPvvVtGgPeeid~ 172 (310)
T COG4052 106 NMIGLARGMGRRISQLREYERRLIEEHDLAVFVFGSFEDC-IKKKKPHLFEGIEIPVVVTGGPEEIDT 172 (310)
T ss_pred chhhhhhhccchhHHHHHHHHHhhhhcceEEEEecCHHHH-HhhcCCcccccccccEEEeCCcccccC
Confidence 6899999999877777776666655443333433332222 333234444567899999998887754
No 392
>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=27.93 E-value=1.3e+02 Score=22.04 Aligned_cols=73 Identities=14% Similarity=0.171 Sum_probs=45.6
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH----------HHHhHHhCCCCceEEEEEecCCchHH
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK----------QALGRACGVTRPVIACSVTSNEASQL 112 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk----------~eLG~a~G~~~~~~~v~i~~~~~~~~ 112 (128)
.+.|..-+.-|||........+. ...-.+.++|++.+... ..||+++|++..+- .--+++
T Consensus 53 ~E~i~~l~PDlIi~~~~~~~~~~----~~~~~~~~ip~~~~~~~~~~~~~~~~i~~lg~~~g~~~~a~------~~~~~~ 122 (238)
T PF01497_consen 53 LEAILALKPDLIIGSSFYGQSEE----IEKLLEAGIPVVVFDSSSPFDDWKEQIRQLGKALGKEDQAE------ALIAEY 122 (238)
T ss_dssp HHHHHHT--SEEEEETTSSCHHH----HHHHHHTTSEEEEESSTTCSHHHHHHHHHHHHHHTSHHHHH------HHHHHH
T ss_pred HHHHHhCCCCEEEEeccccchHH----HHHHhcccceEEEeecccchHHHHHHHHHHHHhcccHHHHH------HHHHHH
Confidence 45666777999998888822212 23334679999887754 37999999985541 112456
Q ss_pred HHHHHHHHHHHhh
Q 033061 113 KTQIQQLKDAIEK 125 (128)
Q Consensus 113 ~~li~~i~~~~~~ 125 (128)
.+.++++++.+.+
T Consensus 123 ~~~~~~~~~~~~~ 135 (238)
T PF01497_consen 123 DARLDEIRKRLAK 135 (238)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhc
Confidence 6666667666654
No 393
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=27.88 E-value=1.7e+02 Score=21.41 Aligned_cols=43 Identities=9% Similarity=0.157 Sum_probs=23.0
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+.+...++.-||+....++. ....+ ..++.++||++.+.+
T Consensus 46 ~~~~~~~~~~~dgii~~~~~~~~-~~~~l-~~l~~~~ipvv~~~~ 88 (268)
T cd06323 46 NDIEDLITRGVDAIIINPTDSDA-VVPAV-KAANEAGIPVFTIDR 88 (268)
T ss_pred HHHHHHHHcCCCEEEEcCCChHH-HHHHH-HHHHHCCCcEEEEcc
Confidence 34444455566655555433332 23333 334677899887754
No 394
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=27.87 E-value=1e+02 Score=24.80 Aligned_cols=43 Identities=14% Similarity=0.190 Sum_probs=28.2
Q ss_pred ccccHHH----HHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 35 LKKGANE----ATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 35 lv~G~~~----v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
+++|.-. .+++++.|+ +.++++-+|- |. +..+|+++|||++.+
T Consensus 95 l~Sg~g~nl~al~~~~~~~~~~~~i~~visn~-~~-----~~~lA~~~gIp~~~~ 143 (286)
T PRK13011 95 MVSKFDHCLNDLLYRWRIGELPMDIVGVVSNH-PD-----LEPLAAWHGIPFHHF 143 (286)
T ss_pred EEcCCcccHHHHHHHHHcCCCCcEEEEEEECC-cc-----HHHHHHHhCCCEEEe
Confidence 3466544 445555664 6888877774 32 355599999998775
No 395
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=27.87 E-value=1.1e+02 Score=21.01 Aligned_cols=50 Identities=16% Similarity=0.190 Sum_probs=29.3
Q ss_pred ccccHHHHHH---HHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEE-EeCCH
Q 033061 35 LKKGANEATK---TLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYV-FVPSK 86 (128)
Q Consensus 35 lv~G~~~v~k---ai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~-~~~sk 86 (128)
.+...+++.+ .+.++...+|++.++.-+. ....+..+ ++...|.+ .++++
T Consensus 27 ~v~~~ee~~~~i~~l~~~d~gII~Ite~~a~~-i~~~i~~~-~~~~~P~Il~IP~~ 80 (104)
T PRK01395 27 PVIDEQEAINTLRKLAMEDYGIIYITEQIAAD-IPETIERY-DNQVLPAIILIPSN 80 (104)
T ss_pred EecChHHHHHHHHHHhcCCcEEEEEcHHHHHH-hHHHHHHh-cCCCCCEEEEeCCC
Confidence 3334444443 3345667888888877665 66666555 45567753 45553
No 396
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=27.83 E-value=1.2e+02 Score=23.24 Aligned_cols=44 Identities=27% Similarity=0.289 Sum_probs=27.9
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+...+.+.+.+.++..| +....++ ....+..++++++||++...
T Consensus 55 ~~~~~~~li~~~~v~ai-iG~~~s~--~~~~v~~~~~~~~ip~i~~~ 98 (334)
T cd06347 55 AANAATRLIDQDKVVAI-IGPVTSG--ATLAAGPIAEDAKVPMITPS 98 (334)
T ss_pred HHHHHHHHhcccCeEEE-EcCCccH--hHHHhHHHHHHCCCeEEcCC
Confidence 34555555655466665 4544433 35667789999999988743
No 397
>PRK08706 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=27.74 E-value=3e+02 Score=21.58 Aligned_cols=74 Identities=15% Similarity=0.109 Sum_probs=44.4
Q ss_pred CccccCCCChhHHHHHHHHHHHHHHc-C--Cc---cccHHHHHHHHHcCceeEEEEecCCChh--------------hHH
Q 033061 7 NPKAYPLADSNLTITILDLVQQAANY-K--QL---KKGANEATKTLNRGISEFIVMAADTEPL--------------EIL 66 (128)
Q Consensus 7 ~p~~~P~~~~~~~~~i~~lL~~a~~a-g--~l---v~G~~~v~kai~~~kakLVilA~D~~p~--------------~~~ 66 (128)
..++.|+.++.+.+-+ ...|.. | .+ -.|.+++.++++++..-++++ .|-++. .+.
T Consensus 132 ~~i~r~~~n~~~d~~~----~~~R~~~g~~~i~~~~~~~r~i~k~L~k~~~~v~~l-~Dq~~~~~~gv~v~FfG~~a~t~ 206 (289)
T PRK08706 132 ISMYSHQKNKILDEQI----LKGRNRYHNVFLIGRTEGLRALVKQFRKSSAPFLYL-PDQDFGRNDSVFVDFFGIQTATI 206 (289)
T ss_pred cEEeeCCCCHHHHHHH----HHHHhccCCcccccChhhHHHHHHHHHhCCceEEEe-CCCCCCCCCCEEeccCCccchhh
Confidence 4568888777776533 333332 2 22 248899999996554333444 565531 133
Q ss_pred hhHHHHHHhCCCCEEEeCC
Q 033061 67 LHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 67 ~~l~~lc~~~~IP~~~~~s 85 (128)
.-...++.+.|.|++.+..
T Consensus 207 ~g~a~LA~~~~apvvp~~~ 225 (289)
T PRK08706 207 TGLSRIAALANAKVIPAIP 225 (289)
T ss_pred hHHHHHHHhcCCeEEEEEE
Confidence 4445788899999877654
No 398
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=27.71 E-value=3.5e+02 Score=23.08 Aligned_cols=50 Identities=16% Similarity=0.169 Sum_probs=26.2
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHH-hhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEIL-LHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~-~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
.....+.+++-.+-++++ |++..... ..+...+...++|++.+.+|.+|-
T Consensus 273 i~~~~~~~~~aD~il~V~--D~s~~~s~~~~~l~~~~~~~~piIlV~NK~Dl~ 323 (442)
T TIGR00450 273 IEKSFKAIKQADLVIYVL--DASQPLTKDDFLIIDLNKSKKPFILVLNKIDLK 323 (442)
T ss_pred HHHHHHHHhhCCEEEEEE--ECCCCCChhHHHHHHHhhCCCCEEEEEECccCC
Confidence 344455665444444443 33211111 113344455789999999887763
No 399
>PRK02627 acetylornithine aminotransferase; Provisional
Probab=27.69 E-value=1.5e+02 Score=23.76 Aligned_cols=49 Identities=10% Similarity=0.199 Sum_probs=30.9
Q ss_pred HHHHHHHcCceeEEEEecC-------CChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 41 EATKTLNRGISEFIVMAAD-------TEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D-------~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
...+++ +++.++|++-.. .-+.+..+.+.++|+++++.++.=+.-..+|
T Consensus 174 ~l~~~i-~~~~~~vii~p~~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~DE~~~g~g 229 (396)
T PRK02627 174 ALKAAI-TDKTAAVMLEPIQGEGGVNPADKEYLQALRELCDENGILLILDEVQTGMG 229 (396)
T ss_pred HHHHhc-CCCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEEechhcCCC
Confidence 344444 456888888531 2123478999999999999886533333344
No 400
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=27.61 E-value=95 Score=20.39 Aligned_cols=41 Identities=15% Similarity=0.110 Sum_probs=26.4
Q ss_pred eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhH
Q 033061 51 SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGR 91 (128)
Q Consensus 51 akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 91 (128)
.+.|++.=|-.+.+....+..+.+++++|..++-+...+++
T Consensus 5 ~~~v~ltfDdg~~~~~~~~~~~l~~~~i~at~fv~~~~~~~ 45 (123)
T PF01522_consen 5 KKSVALTFDDGYRDNYDRLLPLLKKYGIPATFFVIGSWVER 45 (123)
T ss_dssp SSEEEEEEESHCHTHHHHHHHHHHHTT--EEEEE-HHHHHH
T ss_pred CCEEEEEEecCchhhHHHHHHHHHhcccceeeeeccccccc
Confidence 35566666665555889999999999999877655444443
No 401
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=27.55 E-value=1.8e+02 Score=22.02 Aligned_cols=43 Identities=14% Similarity=0.132 Sum_probs=27.1
Q ss_pred cHHHHHHHHHcCc--eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGI--SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~k--akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..+.+++++.++. +.++++-.|-+. .....+|+++|||+..+.
T Consensus 14 ~~~~ll~~~~~~~~~~~I~~vvs~~~~----~~~~~~a~~~gIp~~~~~ 58 (200)
T PRK05647 14 NLQAIIDACAAGQLPAEIVAVISDRPD----AYGLERAEAAGIPTFVLD 58 (200)
T ss_pred hHHHHHHHHHcCCCCcEEEEEEecCcc----chHHHHHHHcCCCEEEEC
Confidence 3456777777775 445544344321 124788999999997744
No 402
>PRK00011 glyA serine hydroxymethyltransferase; Reviewed
Probab=27.55 E-value=1.1e+02 Score=25.03 Aligned_cols=44 Identities=11% Similarity=0.080 Sum_probs=29.2
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhh-HHhhHHHHHHhCCCCEEE
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLE-ILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~-~~~~l~~lc~~~~IP~~~ 82 (128)
.+++.+++...+.++|++.....+.. -.+.+..+|++++++++.
T Consensus 154 ~~~l~~~i~~~~~k~v~~~~~~~~~~~~~~~I~~la~~~~~~liv 198 (416)
T PRK00011 154 YDEVEKLALEHKPKLIIAGASAYSRPIDFKRFREIADEVGAYLMV 198 (416)
T ss_pred HHHHHHHHHhcCCCEEEECCCcCCCccCHHHHHHHHHHcCCEEEE
Confidence 45666777665678888853333321 257888999999987653
No 403
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=27.49 E-value=3e+02 Score=21.48 Aligned_cols=48 Identities=29% Similarity=0.250 Sum_probs=31.9
Q ss_pred HHHHHHH-cCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC--CHHHHhH
Q 033061 41 EATKTLN-RGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP--SKQALGR 91 (128)
Q Consensus 41 ~v~kai~-~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~ 91 (128)
+..+.++ +..++++++|.|+--. --+..+-+..++|++.+- .-..+-+
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 7779999999998532 225556677799998743 3445544
No 404
>TIGR01766 tspaseT_teng_C transposase, IS605 OrfB family, central region. This model represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by pfam model pfam01385, and other proteins.
Probab=27.48 E-value=72 Score=20.08 Aligned_cols=24 Identities=13% Similarity=0.138 Sum_probs=19.7
Q ss_pred ChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 61 EPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 61 ~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.-..+...+...|+.+||+++.+.
T Consensus 54 ~~~~~~~~l~yka~~~Gi~v~~v~ 77 (82)
T TIGR01766 54 SFRKLISKIKYKAEEYGIEVIEVN 77 (82)
T ss_pred hHHHHHHHHHHHHHHcCCeEEEeC
Confidence 333478899999999999998875
No 405
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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 consist 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=27.43 E-value=1.8e+02 Score=21.42 Aligned_cols=43 Identities=16% Similarity=0.156 Sum_probs=24.8
Q ss_pred HHHHHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+..+.+...++.-+|+ +.|. +. ....+ ..+++.+||++.++.
T Consensus 45 ~~~~~~~~~~~vdgiii~~~~~-~~-~~~~~-~~~~~~~ipvV~~~~ 88 (267)
T cd06322 45 LSDVEDFITKKVDAIVLSPVDS-KG-IRAAI-AKAKKAGIPVITVDI 88 (267)
T ss_pred HHHHHHHHHcCCCEEEEcCCCh-hh-hHHHH-HHHHHCCCCEEEEcc
Confidence 34455555666765555 4332 21 23334 446778999998864
No 406
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=27.42 E-value=2e+02 Score=23.95 Aligned_cols=51 Identities=24% Similarity=0.164 Sum_probs=32.9
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAI 123 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~ 123 (128)
+..++...|+++|||++.-. .|.|++-.... +.+.--.++=+-+-++---|
T Consensus 290 ~A~~Ir~iA~e~~VPiven~---pLARaLY~~~~-----vg~~IP~ely~aVA~ILa~v 340 (349)
T PRK12721 290 QALHIVKLAERNGIPVVENI---PLARALFKEVE-----CGDYIPETLFEPVAALLRMV 340 (349)
T ss_pred HHHHHHHHHHHcCCCEEeCH---HHHHHHHHhCC-----CCCcCCHHHHHHHHHHHHHH
Confidence 67899999999999997654 67777665533 22333345555555544443
No 407
>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=27.41 E-value=2.3e+02 Score=20.14 Aligned_cols=81 Identities=19% Similarity=0.197 Sum_probs=46.5
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChh--h------------HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEE
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPL--E------------ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIAC 102 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~--~------------~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v 102 (128)
.+.+++.+++++|+ .|++..|-... . +..-...++...++|++.+....+ + ..+. .+
T Consensus 78 ~~~~~~~~~l~~g~--~v~i~pD~~~~~~~~~~~~F~G~~~~~~~G~~~lA~~~~~pivp~~~~~~-----~-~~~~-~i 148 (192)
T cd07984 78 GGLRELIRALKKGE--IVGILPDQDPGRKGGVFVPFFGRPAATPTGPARLALKTGAPVVPAFAYRL-----P-GGGY-RI 148 (192)
T ss_pred chHHHHHHHHhCCC--EEEEEeCCCCCCCCCEEeccCCCCccchHHHHHHHHHHCCcEEEEEEEEc-----C-CCCE-EE
Confidence 46889999999986 34455454422 1 245566889999999976653211 0 1122 23
Q ss_pred EEecC----CchHHHHHHHHHHHHHhhh
Q 033061 103 SVTSN----EASQLKTQIQQLKDAIEKL 126 (128)
Q Consensus 103 ~i~~~----~~~~~~~li~~i~~~~~~~ 126 (128)
-+.+. +..+..++.+++.+.++.+
T Consensus 149 ~~~~~i~~~~~~~~~~~~~~~~~~lE~~ 176 (192)
T cd07984 149 EFEPPLENPPSEDVEEDTQRLNDALEAA 176 (192)
T ss_pred EEeCCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 33322 1345666666666666554
No 408
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=27.36 E-value=88 Score=25.09 Aligned_cols=49 Identities=12% Similarity=0.069 Sum_probs=31.0
Q ss_pred ccccHHHHHHHHHcC-----c---eeEEEEecCCC--hh-hHHhhHHHHHHhCCCCEEEe
Q 033061 35 LKKGANEATKTLNRG-----I---SEFIVMAADTE--PL-EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 35 lv~G~~~v~kai~~~-----k---akLVilA~D~~--p~-~~~~~l~~lc~~~~IP~~~~ 83 (128)
+..+.....+.+... . -+++||-+|.. .. .........+.+++|-++++
T Consensus 141 i~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~~~~~~~r~a~e~~i~l~~I 200 (266)
T cd01460 141 IANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSEGAQKVRLREAREQNVFVVFI 200 (266)
T ss_pred HHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCccHHHHHHHHHHHcCCeEEEE
Confidence 555566666655433 1 28999999987 32 13445567778888876654
No 409
>cd06319 PBP1_ABC_sugar_binding_like_10 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=27.35 E-value=1.8e+02 Score=21.59 Aligned_cols=37 Identities=16% Similarity=0.150 Sum_probs=21.4
Q ss_pred HHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 46 LNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 46 i~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+...++.-+|+....++ ........+.+.++|++.++
T Consensus 51 ~~~~~~dgiii~~~~~~--~~~~~l~~~~~~~ipvV~~~ 87 (277)
T cd06319 51 AIDKGVSGIIISPTNSS--AAVTLLKLAAQAKIPVVIAD 87 (277)
T ss_pred HHhcCCCEEEEcCCchh--hhHHHHHHHHHCCCCEEEEe
Confidence 33455655555442222 23344566778899998765
No 410
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=27.13 E-value=1.3e+02 Score=24.61 Aligned_cols=43 Identities=5% Similarity=0.144 Sum_probs=29.3
Q ss_pred HHHHHHHHHcC------ceeEEEEecCC----ChhhHHhhHHHHHHhCCCCEEE
Q 033061 39 ANEATKTLNRG------ISEFIVMAADT----EPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 39 ~~~v~kai~~~------kakLVilA~D~----~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
...+.+++++. +.++|++..=. ... -.+.+..+|+++|++++.
T Consensus 141 ~~~l~~~l~~~~~~~~~~~~lV~l~~~~~~tG~~~-~l~~I~~la~~~g~~liv 193 (387)
T PRK09331 141 PEAYAEKIEEVKEETGKPPALALLTHVDGNYGNLA-DAKKVAKVAHEYGIPFLL 193 (387)
T ss_pred HHHHHHHHHHhhhccCCCCEEEEEECCCCCCcccc-cHHHHHHHHHHcCCEEEE
Confidence 46677777643 68888886522 222 357888999999998653
No 411
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=27.06 E-value=2.2e+02 Score=23.65 Aligned_cols=29 Identities=34% Similarity=0.439 Sum_probs=23.7
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCC
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVT 96 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~ 96 (128)
...++..+|+++|||++.-. .|.+++-.+
T Consensus 290 ~A~~I~~~A~~~~vPi~~~~---~LAr~Ly~~ 318 (347)
T TIGR00328 290 LALKIKEIARENNVPIVENP---PLARALYRQ 318 (347)
T ss_pred HHHHHHHHHHHcCCCEEeCH---HHHHHHHHc
Confidence 67899999999999997654 688887554
No 412
>PRK07377 hypothetical protein; Provisional
Probab=27.03 E-value=1.7e+02 Score=22.44 Aligned_cols=48 Identities=17% Similarity=0.139 Sum_probs=34.9
Q ss_pred CceeEEEEec----CCChhhHHhhHHHHHHhCC--CCEEEeCCHHHHhHHhCCC
Q 033061 49 GISEFIVMAA----DTEPLEILLHLPLLAEDKN--VPYVFVPSKQALGRACGVT 96 (128)
Q Consensus 49 ~kakLVilA~----D~~p~~~~~~l~~lc~~~~--IP~~~~~sk~eLG~a~G~~ 96 (128)
...++-|+.. +-.......++...+++++ +-++.+.+.++|.+++--.
T Consensus 75 ~~~Rlgv~~~~~~~~~~~~~l~~~l~~~~~~y~~rlElv~y~~~~~l~~aL~~~ 128 (184)
T PRK07377 75 LVMRLGVLEIETETSSVFDQLIDQLRTILDKYHLRLELVVYPDLQALEQALRDK 128 (184)
T ss_pred cEEEEEEEeccccccccHHHHHHHHHHHHHHhCceeeEEecCCHHHHHHHHhcC
Confidence 4578888773 1123346788888999988 6678889999999997544
No 413
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=26.98 E-value=1.6e+02 Score=24.09 Aligned_cols=41 Identities=10% Similarity=0.089 Sum_probs=31.4
Q ss_pred HHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++.+.+|.+...|+....+. ...++..+|...+||.+.+.
T Consensus 58 ~C~~~~~gv~~~AIiGp~ss~--~a~~V~si~~~~~IP~Is~s 98 (368)
T cd06383 58 VCDKADSAIVPHLVLDTTTCG--DASEIKSVTGALGIPTFSAS 98 (368)
T ss_pred HHHHHHccCCcEEEECCCcch--hHHHHHHHHhccCCCEEEcc
Confidence 555677787666788887654 45679999999999997753
No 414
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=26.92 E-value=1.4e+02 Score=26.18 Aligned_cols=45 Identities=20% Similarity=0.135 Sum_probs=33.3
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
.+++.+.|.+-+--++++...+.-.+....+..++++.|+|++..
T Consensus 190 i~~a~~~L~~A~rPvil~G~g~~~~~a~~~l~~lae~~~~pv~tT 234 (588)
T PRK07525 190 LAEAAELLSEAKFPVILSGAGVVLSDAIEECKALAERLDAPVACG 234 (588)
T ss_pred HHHHHHHHHhCCCCEEEECCCccccChHHHHHHHHHHhCCCeEEc
Confidence 355566676667677777777753336788999999999999864
No 415
>cd06310 PBP1_ABC_sugar_binding_like_2 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=26.91 E-value=1.9e+02 Score=21.49 Aligned_cols=41 Identities=22% Similarity=0.278 Sum_probs=22.0
Q ss_pred HHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 43 TKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 43 ~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+.+.++++--||+.. .++......+ ..+...++|++++++
T Consensus 50 i~~l~~~~vdgvii~~-~~~~~~~~~l-~~~~~~~ipvV~~~~ 90 (273)
T cd06310 50 LENAIARGPDAILLAP-TDAKALVPPL-KEAKDAGIPVVLIDS 90 (273)
T ss_pred HHHHHHhCCCEEEEcC-CChhhhHHHH-HHHHHCCCCEEEecC
Confidence 3344556666566543 2222122333 444568899988754
No 416
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=26.89 E-value=2e+02 Score=26.27 Aligned_cols=60 Identities=18% Similarity=0.176 Sum_probs=38.5
Q ss_pred EEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 55 VMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 55 ilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
|+|.=.+. +..++.+.|+++|||++.-. .|.|++-++.. +.++--.++=+.+.++---|.
T Consensus 581 VVAKG~D~--lAlrIReiAeE~gVPIVENp---PLARALY~~ve-----VGq~IP~eLYeAVAeILa~Vy 640 (646)
T PRK12773 581 VIAKGVDD--FALLIIRIARENGVPTVEDR---LQARGLYEEVE-----LGAEVPQQFYRAIATILSRLE 640 (646)
T ss_pred EEEEeCcH--HHHHHHHHHHHcCCcEEECH---HHHHHHHHcCC-----CCCcCCHHHHHHHHHHHHHHH
Confidence 34444433 68999999999999998755 78888776544 233333555555555544443
No 417
>PLN00144 acetylornithine transaminase
Probab=26.77 E-value=1.5e+02 Score=24.44 Aligned_cols=43 Identities=21% Similarity=0.269 Sum_probs=29.6
Q ss_pred HHHHHHHcCceeEEEEecC------CC-hhhHHhhHHHHHHhCCCCEEEe
Q 033061 41 EATKTLNRGISEFIVMAAD------TE-PLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D------~~-p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
...+.+++++...||+-.. .+ +.++.+.+..+|++|+++++.=
T Consensus 158 ~l~~~~~~~~~aavi~eP~q~~gg~~~~~~~~~~~l~~l~~~~g~llI~D 207 (382)
T PLN00144 158 AARKLIQKGKTAAVFVEPVQGEGGIYPATKEFLQGLRALCDEAGALLVFD 207 (382)
T ss_pred HHHHhcCCCCeEEEEEccccCCCCCccCCHHHHHHHHHHHHHcCCEEEEe
Confidence 3445555667777776632 11 3357899999999999998753
No 418
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=26.74 E-value=1.1e+02 Score=24.60 Aligned_cols=75 Identities=15% Similarity=0.120 Sum_probs=50.6
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCC-EEEeCCHHHHhHHhCCCCceEEEEEecCCchHH
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVIACSVTSNEASQL 112 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP-~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~ 112 (128)
++.-..|+..+-.-|-=-+++|++=-++. -.+.+.+.|++.|.- ++.+.+.+||-+|+- -++.+++|.+.+=.+|
T Consensus 115 FiiD~yQI~~Ar~~GADavLLI~~~L~~~-~l~el~~~A~~LGm~~LVEVh~~eEl~rAl~--~ga~iIGINnRdL~tf 190 (254)
T COG0134 115 FIIDPYQIYEARAAGADAVLLIVAALDDE-QLEELVDRAHELGMEVLVEVHNEEELERALK--LGAKIIGINNRDLTTL 190 (254)
T ss_pred CCCCHHHHHHHHHcCcccHHHHHHhcCHH-HHHHHHHHHHHcCCeeEEEECCHHHHHHHHh--CCCCEEEEeCCCcchh
Confidence 45555566666555543333444444454 468889999999995 688999999999976 4445688887654444
No 419
>PRK05600 thiamine biosynthesis protein ThiF; Validated
Probab=26.72 E-value=94 Score=25.91 Aligned_cols=34 Identities=15% Similarity=0.113 Sum_probs=27.9
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
...+||-+.|. .. ++..+.++|.++++|+++...
T Consensus 131 ~~DlVid~~Dn-~~-~r~~in~~~~~~~iP~v~~~~ 164 (370)
T PRK05600 131 GVDLVLDGSDS-FA-TKFLVADAAEITGTPLVWGTV 164 (370)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEE
Confidence 47899999988 43 678889999999999987643
No 420
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=26.57 E-value=3.5e+02 Score=21.87 Aligned_cols=78 Identities=14% Similarity=0.152 Sum_probs=50.2
Q ss_pred CCCCCccccCCCChhHHHHHHHHHHHHHHcCCcc-----ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCC
Q 033061 3 GEAVNPKAYPLADSNLTITILDLVQQAANYKQLK-----KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKN 77 (128)
Q Consensus 3 ~~~~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv-----~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~ 77 (128)
|+...|-+.|+..++-.+++..+++..+..-.+. +=.+....+++.| +.+ =+|++.. .-......+.+++
T Consensus 59 geSTrPg~~~v~~eeE~~Rv~pvI~~l~~~~~~~ISIDT~~~~va~~AL~~G-adi---INDI~g~-~d~~~~~~~a~~~ 133 (282)
T PRK11613 59 GESTRPGAAEVSVEEELDRVIPVVEAIAQRFEVWISVDTSKPEVIRESAKAG-AHI---INDIRSL-SEPGALEAAAETG 133 (282)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHhcCCCeEEEECCCHHHHHHHHHcC-CCE---EEECCCC-CCHHHHHHHHHcC
Confidence 5667788888877777789888888776532322 3345566777777 444 3555432 1223344567889
Q ss_pred CCEEEeCC
Q 033061 78 VPYVFVPS 85 (128)
Q Consensus 78 IP~~~~~s 85 (128)
+|+|...+
T Consensus 134 ~~vVlmh~ 141 (282)
T PRK11613 134 LPVCLMHM 141 (282)
T ss_pred CCEEEEcC
Confidence 99987654
No 421
>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=26.56 E-value=1.8e+02 Score=18.86 Aligned_cols=20 Identities=25% Similarity=0.326 Sum_probs=14.8
Q ss_pred HHHHHHhCCCCEEEeCCHHH
Q 033061 69 LPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 69 l~~lc~~~~IP~~~~~sk~e 88 (128)
+.......++|++.+.+|.+
T Consensus 96 ~~~~~~~~~~~~ivv~nK~D 115 (163)
T cd00880 96 LLELLRERGKPVLLVLNKID 115 (163)
T ss_pred HHHHHHhcCCeEEEEEEccc
Confidence 35566678999998887744
No 422
>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=26.54 E-value=1.4e+02 Score=23.05 Aligned_cols=47 Identities=17% Similarity=0.196 Sum_probs=27.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
.++..+++.-..-++++..+.........+...++..++|.+.+.+|
T Consensus 79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~iivvNK 125 (268)
T cd04170 79 GETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRIIFINK 125 (268)
T ss_pred HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEEC
Confidence 45677776655555555433322212344555678889998776555
No 423
>cd06316 PBP1_ABC_sugar_binding_like_7 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=26.48 E-value=1.7e+02 Score=22.19 Aligned_cols=39 Identities=13% Similarity=0.104 Sum_probs=20.7
Q ss_pred HHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 43 TKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 43 ~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+.+..+++.-+|+ +.|. + ....+...+.+++||++.+.
T Consensus 49 l~~~~~~~~dgiii~~~~~-~--~~~~~i~~~~~~~iPvV~~~ 88 (294)
T cd06316 49 IETTISQKPDIIISIPVDP-V--STAAAYKKVAEAGIKLVFMD 88 (294)
T ss_pred HHHHHHhCCCEEEEcCCCc-h--hhhHHHHHHHHcCCcEEEec
Confidence 33333445554444 4443 2 12334456677899987764
No 424
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=26.41 E-value=2.4e+02 Score=21.56 Aligned_cols=86 Identities=15% Similarity=0.153 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCc-eeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCC
Q 033061 19 TITILDLVQQAANYKQLKKGANEATKTLNRGI-SEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTR 97 (128)
Q Consensus 19 ~~~i~~lL~~a~~ag~lv~G~~~v~kai~~~k-akLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~ 97 (128)
-..++.+|....+.. |-..+.+.++.|+ ...+=| ++. -.+.|...++.|||.|+...++.. - .
T Consensus 5 ~~~l~~~lk~~kK~~----Gk~slk~L~k~g~~l~~i~i----~~~-~lk~F~k~AkKyGV~yav~kdk~~------~-~ 68 (204)
T PF12687_consen 5 AAALKALLKDYKKTK----GKQSLKKLLKQGKGLKNIEI----TDE-DLKEFKKEAKKYGVDYAVKKDKST------G-P 68 (204)
T ss_pred HHHHHHHHHHHHHhc----CceeHHHHHhcCCCceEEec----CHh-hHHHHHHHHHHcCCceEEeeccCC------C-C
Confidence 344555665554443 8888888888877 333322 222 358889999999999998876431 1 1
Q ss_pred ceEEEEEecCCchHHHHHHHHHH
Q 033061 98 PVIACSVTSNEASQLKTQIQQLK 120 (128)
Q Consensus 98 ~~~~v~i~~~~~~~~~~li~~i~ 120 (128)
+..-|.+--.|...+...++++.
T Consensus 69 ~~~~V~FkA~Da~~i~~af~~~~ 91 (204)
T PF12687_consen 69 GKYDVFFKAKDADVINRAFKEFS 91 (204)
T ss_pred CcEEEEEEcCcHHHHHHHHHHHH
Confidence 12234444445555555555543
No 425
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=26.40 E-value=3.9e+02 Score=22.97 Aligned_cols=39 Identities=28% Similarity=0.221 Sum_probs=28.7
Q ss_pred HHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 46 LNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 46 i~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++...+..+++.|+........+..+++..++|++...
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 344446888899998644357788899999999986543
No 426
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=26.25 E-value=2.6e+02 Score=21.75 Aligned_cols=58 Identities=19% Similarity=0.312 Sum_probs=41.1
Q ss_pred HHHHHHHcCceeEEEEecCCC---hh---hHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCc
Q 033061 41 EATKTLNRGISEFIVMAADTE---PL---EILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRP 98 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~---p~---~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~ 98 (128)
+..+.+...+-++||+=.|.+ |. ++...+..+....+|-++...+.+.|.+++....+
T Consensus 162 ~~~~~l~~~~~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~~~i~~Il~~D~~~l~~ai~~~~~ 225 (325)
T PF07693_consen 162 KIKKKLKESKKRIVIIIDDLDRCSPEEIVELLEAIKLLLDFPNIIFILAFDPEILEKAIEKNYG 225 (325)
T ss_pred HHHHhhhcCCceEEEEEcchhcCCcHHHHHHHHHHHHhcCCCCeEEEEEecHHHHHHHHHhhcC
Confidence 444555557789999999986 33 23344455566677778888999999999877654
No 427
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=26.25 E-value=1.7e+02 Score=22.42 Aligned_cols=41 Identities=15% Similarity=0.111 Sum_probs=21.7
Q ss_pred HHHHHHHcCce-eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 41 EATKTLNRGIS-EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 41 ~v~kai~~~ka-kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.++.+.++++ .+++.+.|.++ . ......+++.+||++.+.
T Consensus 47 ~~i~~l~~~~vdgiIi~~~~~~~--~-~~~l~~~~~~giPvV~~~ 88 (302)
T TIGR02637 47 EVVNSLIAQKVDAIAISANDPDA--L-VPALKKAMKRGIKVVTWD 88 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCChHH--H-HHHHHHHHHCCCEEEEeC
Confidence 34444445555 45554444322 2 334455677889987654
No 428
>TIGR00035 asp_race aspartate racemase.
Probab=26.18 E-value=1.3e+02 Score=22.90 Aligned_cols=51 Identities=14% Similarity=0.211 Sum_probs=35.5
Q ss_pred ccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC--CHHHH
Q 033061 35 LKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP--SKQAL 89 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~--sk~eL 89 (128)
+..-..+..+.+++..+.++++|.++... . +..+-+..+||++.+. +...+
T Consensus 60 ~~~~l~~~~~~L~~~g~d~iviaCNTah~-~---~~~l~~~~~iPii~i~~~~~~~~ 112 (229)
T TIGR00035 60 PRPILIDIAVKLENAGADFIIMPCNTAHK-F---AEDIQKAIGIPLISMIEETAEAV 112 (229)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCccHHH-H---HHHHHHhCCCCEechHHHHHHHH
Confidence 44455666777778889999999999655 3 3455566789998754 34455
No 429
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which 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=26.16 E-value=1.9e+02 Score=21.23 Aligned_cols=42 Identities=14% Similarity=0.064 Sum_probs=23.7
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+.+.++++.-+|+.... +. ... ....++..+||++.+.+
T Consensus 46 ~~i~~~~~~~vdgiii~~~~-~~-~~~-~~~~~~~~~ipvV~~~~ 87 (268)
T cd06289 46 QLLSTMLEHGVAGIILCPAA-GT-SPD-LLKRLAESGIPVVLVAR 87 (268)
T ss_pred HHHHHHHHcCCCEEEEeCCC-Cc-cHH-HHHHHHhcCCCEEEEec
Confidence 34455555666555555422 22 122 45567788999987753
No 430
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=26.13 E-value=2.4e+02 Score=22.25 Aligned_cols=28 Identities=14% Similarity=0.150 Sum_probs=20.2
Q ss_pred CCccccHHHHHHHHHcCceeEEEEecCC
Q 033061 33 KQLKKGANEATKTLNRGISEFIVMAADT 60 (128)
Q Consensus 33 g~lv~G~~~v~kai~~~kakLVilA~D~ 60 (128)
-++.-|..++++.+++...++.|+.+..
T Consensus 141 ~~l~pg~~e~L~~L~~~gi~laIvSn~~ 168 (273)
T PRK13225 141 LQLFPGVADLLAQLRSRSLCLGILSSNS 168 (273)
T ss_pred CCcCCCHHHHHHHHHHCCCeEEEEeCCC
Confidence 3567888899998887767766665544
No 431
>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=26.11 E-value=1.3e+02 Score=24.36 Aligned_cols=45 Identities=11% Similarity=0.220 Sum_probs=27.6
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
.=...+.+.|..+..-++++--...|.+ .+.+..+|+++||+++.
T Consensus 101 id~~~~~~~i~~~t~ai~~~h~~G~~~d-~~~i~~~~~~~~i~lIe 145 (363)
T PF01041_consen 101 IDPEALEKAITPKTKAILVVHLFGNPAD-MDAIRAIARKHGIPLIE 145 (363)
T ss_dssp B-HHHHHHHHHTTEEEEEEE-GGGB----HHHHHHHHHHTT-EEEE
T ss_pred cCHHHHHHHhccCccEEEEecCCCCccc-HHHHHHHHHHcCCcEEE
Confidence 4456677777766544444444445553 68899999999999876
No 432
>PF13684 Dak1_2: Dihydroxyacetone kinase family
Probab=26.10 E-value=1.5e+02 Score=24.19 Aligned_cols=76 Identities=24% Similarity=0.348 Sum_probs=46.1
Q ss_pred HHHHHHHHHc-CceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHH
Q 033061 39 ANEATKTLNR-GISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQ 117 (128)
Q Consensus 39 ~~~v~kai~~-~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~ 117 (128)
.++..++|++ +.-+.+|+.+|..-.-..+....+++.++ +..++|+.-..-. ++++..+++. ++.+..+
T Consensus 131 ~~dl~~Ai~~~~a~~VivLPNn~ni~~aa~qa~~~~~~~~--v~VipTks~~qGl-------aAl~~~dp~~-~~~~n~~ 200 (313)
T PF13684_consen 131 TEDLLNAIEKVGADEVIVLPNNKNIILAAEQAARLSEDKN--VVVIPTKSIPQGL-------AALLVFDPEA-DLEENVE 200 (313)
T ss_pred HHHHHHHHHhCCCCeEEEEeCCchHHHHHHHHHHHhcCCC--EEEEecCCHHHHH-------HHHHHhCccC-ChHHHHH
Confidence 4688899998 55688888888766545566677776664 5666665433322 2334444432 5555555
Q ss_pred HHHHHHh
Q 033061 118 QLKDAIE 124 (128)
Q Consensus 118 ~i~~~~~ 124 (128)
.+.+.+.
T Consensus 201 ~M~ea~~ 207 (313)
T PF13684_consen 201 AMTEAAA 207 (313)
T ss_pred HHHHHHh
Confidence 5555543
No 433
>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=26.09 E-value=1.7e+02 Score=25.34 Aligned_cols=66 Identities=14% Similarity=0.167 Sum_probs=50.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChh-hHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEe
Q 033061 40 NEATKTLNRGISEFIVMAADTEPL-EILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVT 105 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~-~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~ 105 (128)
.++.+.++...+--||+.+.|.-= ....-+..--++.|||++.+.+-..+..-+|-+|-+..++|.
T Consensus 326 ~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~i~~~~pI~~~vGanRiv~~~~i~ 392 (431)
T TIGR01917 326 KEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHICTVTPIALTVGANRIIPAIAIP 392 (431)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeechhHHHhcCCCceecCCCCC
Confidence 457788888899999999988532 022333334467999999999999999999999877666664
No 434
>PRK04966 hypothetical protein; Provisional
Probab=26.04 E-value=80 Score=20.57 Aligned_cols=21 Identities=14% Similarity=0.336 Sum_probs=16.5
Q ss_pred ccccHHHHHHHHHcCceeEEE
Q 033061 35 LKKGANEATKTLNRGISEFIV 55 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVi 55 (128)
+..=..+|.++|++|++.+|+
T Consensus 35 l~~kv~qv~~qL~~G~~viv~ 55 (72)
T PRK04966 35 LEQKVADVKRQLQSGEAVLVW 55 (72)
T ss_pred HHHHHHHHHHHHHcCCEEEEE
Confidence 445567899999999987776
No 435
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=26.00 E-value=1.4e+02 Score=21.95 Aligned_cols=37 Identities=14% Similarity=0.102 Sum_probs=22.5
Q ss_pred HHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 45 TLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 45 ai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+.+.++..+|.. -+++. ...+..+++..+||++.+.
T Consensus 62 l~~~~~v~~iig~-~~~~~--~~~~~~~~~~~~iP~i~~~ 98 (299)
T cd04509 62 LCQQEGVDALVGP-VSSGV--ALAVAPVAEALKIPLISPG 98 (299)
T ss_pred HhcccCceEEEcC-CCcHH--HHHHHHHHhhCCceEEecc
Confidence 3333366655543 33333 3566778888999988764
No 436
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=25.94 E-value=1.4e+02 Score=26.03 Aligned_cols=46 Identities=11% Similarity=0.244 Sum_probs=31.6
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.++..+.|.+-+--++++...+.-....+.+..++++.++|++...
T Consensus 203 l~~~~~~L~~AkrPvIi~G~g~~~~~a~~~l~~lae~l~iPV~tt~ 248 (569)
T PRK09259 203 VDRALDLLKKAKRPLIILGKGAAYAQADEQIREFVEKTGIPFLPMS 248 (569)
T ss_pred HHHHHHHHHhCCCCEEEECcCccccChHHHHHHHHHHHCCCEEecc
Confidence 4455566666666677766666432357888999999999987643
No 437
>PF11116 DUF2624: Protein of unknown function (DUF2624); InterPro: IPR020277 This entry contains proteins with no known function.
Probab=25.91 E-value=40 Score=22.72 Aligned_cols=16 Identities=13% Similarity=0.081 Sum_probs=14.0
Q ss_pred HHhhHHHHHHhCCCCE
Q 033061 65 ILLHLPLLAEDKNVPY 80 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~ 80 (128)
+.+.+..+|++||||+
T Consensus 16 T~~eLlkyskqy~i~i 31 (85)
T PF11116_consen 16 TAKELLKYSKQYNISI 31 (85)
T ss_pred CHHHHHHHHHHhCCCC
Confidence 4578899999999996
No 438
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=25.85 E-value=2.3e+02 Score=19.56 Aligned_cols=49 Identities=12% Similarity=0.173 Sum_probs=26.3
Q ss_pred CCCCEEEeCCHHHHhHHh-------CCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 76 KNVPYVFVPSKQALGRAC-------GVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 76 ~~IP~~~~~sk~eLG~a~-------G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
.++|++.+++|.+|.... ........+-+--....++.++++.+...+.
T Consensus 103 ~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~ 158 (161)
T cd04124 103 PEIPCIVVANKIDLDPSVTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAV 158 (161)
T ss_pred CCCcEEEEEECccCchhHHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 379999999888764211 0111112233333344567777766655443
No 439
>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=25.79 E-value=1.6e+02 Score=20.52 Aligned_cols=31 Identities=19% Similarity=0.149 Sum_probs=21.2
Q ss_pred CceeEEEEecCCChh--hHHhhHHHHHHhCCCCE
Q 033061 49 GISEFIVMAADTEPL--EILLHLPLLAEDKNVPY 80 (128)
Q Consensus 49 ~kakLVilA~D~~p~--~~~~~l~~lc~~~~IP~ 80 (128)
+++.-||+|.|++.. .+..++..++.. +.|+
T Consensus 71 ~~~~eiiiAtD~drEGe~i~~~i~~~~~~-~~~v 103 (123)
T cd03363 71 KKADEIYLATDPDREGEAIAWHLAEVLKL-KKNV 103 (123)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHcCC-CCCe
Confidence 458899999999743 245556666664 5565
No 440
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=25.78 E-value=2e+02 Score=18.92 Aligned_cols=31 Identities=13% Similarity=0.223 Sum_probs=20.4
Q ss_pred HhhHHHHHHhCCCCEEEeC--C----HHHHhHHhCCC
Q 033061 66 LLHLPLLAEDKNVPYVFVP--S----KQALGRACGVT 96 (128)
Q Consensus 66 ~~~l~~lc~~~~IP~~~~~--s----k~eLG~a~G~~ 96 (128)
-.....+-++++|||..+. + ..+|.+..|..
T Consensus 30 C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg~~ 66 (97)
T TIGR00365 30 SARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSNWP 66 (97)
T ss_pred HHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhCCC
Confidence 4666777788999986643 2 24666666654
No 441
>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=25.76 E-value=2.9e+02 Score=20.81 Aligned_cols=68 Identities=16% Similarity=0.167 Sum_probs=39.4
Q ss_pred cCCCChhHHHHHHHHHHHHHHcCC--ccccHHHHHHHHHcC----c-ee-EEEEecCCC--hhhHHhhHHHHHHhCCCCE
Q 033061 11 YPLADSNLTITILDLVQQAANYKQ--LKKGANEATKTLNRG----I-SE-FIVMAADTE--PLEILLHLPLLAEDKNVPY 80 (128)
Q Consensus 11 ~P~~~~~~~~~i~~lL~~a~~ag~--lv~G~~~v~kai~~~----k-ak-LVilA~D~~--p~~~~~~l~~lc~~~~IP~ 80 (128)
.|++++ ...+.+.|....-.|. +..+......+++.. . -+ ++|+.++.+ |.+ .......++++||.+
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 355444 3445666654433332 667777777788532 1 24 888888854 443 334556667888886
Q ss_pred E
Q 033061 81 V 81 (128)
Q Consensus 81 ~ 81 (128)
-
T Consensus 140 ~ 140 (187)
T cd01452 140 D 140 (187)
T ss_pred E
Confidence 3
No 442
>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=25.75 E-value=2.3e+02 Score=20.95 Aligned_cols=45 Identities=16% Similarity=0.215 Sum_probs=29.6
Q ss_pred HHHHHHHHcC--ceeEEEEecCCChh---hHHhhHHHHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRG--ISEFIVMAADTEPL---EILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~--kakLVilA~D~~p~---~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+++.+.+++. ++.+||++.|.... +....+...-++.++|+.++.
T Consensus 28 ~~~~~~i~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~l~~~~~p~~~v~ 77 (240)
T cd07402 28 EAVLAHINALHPRPDLVLVTGDLTDDGSPESYERLRELLAALPIPVYLLP 77 (240)
T ss_pred HHHHHHHHhcCCCCCEEEECccCCCCCCHHHHHHHHHHHhhcCCCEEEeC
Confidence 4566666665 88999999997532 122344455556689987764
No 443
>KOG2014 consensus SMT3/SUMO-activating complex, AOS1/RAD31 component [Posttranslational modification, protein turnover, chaperones]
Probab=25.73 E-value=49 Score=27.53 Aligned_cols=32 Identities=13% Similarity=0.088 Sum_probs=25.5
Q ss_pred EEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH
Q 033061 54 IVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK 86 (128)
Q Consensus 54 VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk 86 (128)
+|++.|.+.. ...++..+|++.+|+++..+..
T Consensus 123 lVV~~~~s~e-~~~kvn~icrk~~i~F~a~d~~ 154 (331)
T KOG2014|consen 123 LVVATDQSRE-EKCKVNEICRKLNIAFYAGDCF 154 (331)
T ss_pred EEEEeccchh-hhhhHHHHHHhcCceEEecccc
Confidence 5667788776 7899999999999998765543
No 444
>cd02979 PHOX_C FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and simple phenol derivatives in the ortho position with the consumption of NADPH and oxygen. This is the first step in the biodegradation and detoxification of phenolic compounds. PHOX contains three domains. The substrate and FAD/NAD(P) binding sites are contained in the first two domains, which adopt a complicated folding pattern. The third or C-terminal domain contains a TRX fold and is involved in dimerization. The functional unit of PHOX is a dimer, although active tetramers of the recombinant enzyme can be isolated when overproduced in bacteria.
Probab=25.71 E-value=1e+02 Score=22.58 Aligned_cols=32 Identities=25% Similarity=0.340 Sum_probs=26.3
Q ss_pred cCceeEEEEecCCChhhHHhhHHHHHHhCCCC
Q 033061 48 RGISEFIVMAADTEPLEILLHLPLLAEDKNVP 79 (128)
Q Consensus 48 ~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP 79 (128)
.|+-+++|.|.|..+....+.+..+|+...-|
T Consensus 27 dGrfrI~vFagd~~~~~~~~~l~~~~~~L~~~ 58 (167)
T cd02979 27 DGRFRIYVFAGDIAPAQQKSRLTQLCDALDSP 58 (167)
T ss_pred CCCEEEEEEcCCCCchhHHHHHHHHHHHHcCC
Confidence 48899999999998655778999999876554
No 445
>PTZ00175 diphthine synthase; Provisional
Probab=25.68 E-value=2.6e+02 Score=22.28 Aligned_cols=54 Identities=20% Similarity=0.207 Sum_probs=32.2
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC--CH-HHHhHHhCCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP--SK-QALGRACGVT 96 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~--sk-~eLG~a~G~~ 96 (128)
...+..+.+++-++ .+.|..-..+-..+...++++||++..++ |- .-+|. +|..
T Consensus 69 ~ii~~a~~~~Vv~L-~~GDP~i~~t~~~l~~~~~~~gi~vevIPGvSi~sA~~~-~Gl~ 125 (270)
T PTZ00175 69 EILEEAKEKNVAFL-VVGDPFCATTHTDLYLRAKKKGIEVEVIHNASIMNAIGC-TGLQ 125 (270)
T ss_pred HHHHHhCCCCEEEE-ECCCCCccCCHHHHHHHHHHCCCcEEEECCcCHHHHHhh-cCCC
Confidence 34444443333333 37777555456677778889999998887 32 34433 4653
No 446
>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=25.64 E-value=94 Score=21.75 Aligned_cols=48 Identities=15% Similarity=0.150 Sum_probs=29.7
Q ss_pred ccHHHHHHHHHc--CceeEEEEec-CC-------Ch--hhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNR--GISEFIVMAA-DT-------EP--LEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~--~kakLVilA~-D~-------~p--~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+....++.+++ ..++++++.- .. .+ ..+-+.+..+|++++++++-..
T Consensus 72 ~~l~~li~~~~~~~~~~~vi~~~~~p~~~~~~~~~~~~~~~n~~l~~~a~~~~~~~id~~ 131 (169)
T cd01828 72 ANYRTILEKLRKHFPNIKIVVQSILPVGELKSIPNEQIEELNRQLAQLAQQEGVTFLDLW 131 (169)
T ss_pred HHHHHHHHHHHHHCCCCeEEEEecCCcCccCcCCHHHHHHHHHHHHHHHHHCCCEEEech
Confidence 344445566665 5677777633 11 11 1255667899999999998654
No 447
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. 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
Probab=25.60 E-value=2.2e+02 Score=21.00 Aligned_cols=64 Identities=17% Similarity=0.225 Sum_probs=33.6
Q ss_pred hHHHHHH-HHHHHHHHcCC-ccc---c-----HHHHHHHHHcCcee-EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 17 NLTITIL-DLVQQAANYKQ-LKK---G-----ANEATKTLNRGISE-FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 17 ~~~~~i~-~lL~~a~~ag~-lv~---G-----~~~v~kai~~~kak-LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.....++ .+.+.+.+.|. ++. + ..+..+.+.++++. +++++.+.++. . ...+++++||++++++
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~----~~~l~~~~iPvv~~~~ 86 (268)
T cd06273 12 AIFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLERGVDGLALIGLDHSPA-L----LDLLARRGVPYVATWN 86 (268)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCCHH-H----HHHHHhCCCCEEEEcC
Confidence 3334443 35555666664 222 1 12345556666664 44444443332 2 3356778999988764
No 448
>PRK00304 hypothetical protein; Provisional
Probab=25.50 E-value=83 Score=20.69 Aligned_cols=18 Identities=11% Similarity=0.252 Sum_probs=14.4
Q ss_pred cHHHHHHHHHcCceeEEE
Q 033061 38 GANEATKTLNRGISEFIV 55 (128)
Q Consensus 38 G~~~v~kai~~~kakLVi 55 (128)
=..+|.++|++|++.+|+
T Consensus 37 kv~qv~~qL~~G~~vIvf 54 (75)
T PRK00304 37 RVLRVRQALTKGQAVILF 54 (75)
T ss_pred HHHHHHHHHHcCCEEEEE
Confidence 346889999999887765
No 449
>PRK06860 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=25.41 E-value=2e+02 Score=22.91 Aligned_cols=76 Identities=14% Similarity=-0.009 Sum_probs=46.1
Q ss_pred CCccccCCCChhHHHHHHHHHHHHHHcCCcc--ccHHHHHHHHHcCceeEEEEecCCChh---------------hHHhh
Q 033061 6 VNPKAYPLADSNLTITILDLVQQAANYKQLK--KGANEATKTLNRGISEFIVMAADTEPL---------------EILLH 68 (128)
Q Consensus 6 ~~p~~~P~~~~~~~~~i~~lL~~a~~ag~lv--~G~~~v~kai~~~kakLVilA~D~~p~---------------~~~~~ 68 (128)
+..+++|..+..++ ++.+-.+.. ....++ .|.+++.+++++|. .|.+..|-++. .+..-
T Consensus 151 ~~~vyr~~~n~~~d-~~~~~~R~~-~g~~~i~~~~~r~~~k~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~~a~t~~g 226 (309)
T PRK06860 151 GIGVYRPNDNPLYD-WLQTWGRLR-SNKSMLDRKDLKGMIKALKKGE--RIWYAPDHDYGPRSSVFVPFFAVEQAATTTG 226 (309)
T ss_pred CeEEeeCCCCHHHH-HHHHHHHhh-cCCcCcCcccHHHHHHHHhcCC--eEEEeCCCCCCCCCCEEecCCCCCchhhHHH
Confidence 34578999888774 333333321 112333 56788999999886 56777665531 12233
Q ss_pred HHHHHHhCCCCEEEeCC
Q 033061 69 LPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 69 l~~lc~~~~IP~~~~~s 85 (128)
...++...|.|++.+..
T Consensus 227 ~a~LA~~~~apvvp~~~ 243 (309)
T PRK06860 227 TWMLARMSKAAVIPFVP 243 (309)
T ss_pred HHHHHHHhCCeEEEEEE
Confidence 33678888888876553
No 450
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=25.34 E-value=1.5e+02 Score=25.85 Aligned_cols=45 Identities=16% Similarity=0.048 Sum_probs=32.9
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
.++..+.|++-+--++++...+........+..++++.++|++..
T Consensus 211 i~~~~~~L~~AkrPvil~G~g~~~~~a~~~l~~lae~~g~pv~tt 255 (587)
T PRK06965 211 IRKAVSLLLSAKRPYIYTGGGVILANASRELRQLADLLGYPVTNT 255 (587)
T ss_pred HHHHHHHHHhcCCCEEEECCCccccchHHHHHHHHHHhCCCEEEc
Confidence 345556667777777777777753335788999999999998854
No 451
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=25.32 E-value=1.8e+02 Score=19.76 Aligned_cols=84 Identities=23% Similarity=0.203 Sum_probs=45.9
Q ss_pred CccccHHHHHHHHHcC--ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe--CCH----HHHhHHhCCCCceEEEEEe
Q 033061 34 QLKKGANEATKTLNRG--ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV--PSK----QALGRACGVTRPVIACSVT 105 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~--kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~--~sk----~eLG~a~G~~~~~~~v~i~ 105 (128)
.+..|.....+.+... ..+.+|+-.|..+..-.......+++.+|++..+ ++. ..|-+......+. ...+
T Consensus 81 ~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~-~~~~- 158 (172)
T PF13519_consen 81 NLYDALQEAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGR-YFHV- 158 (172)
T ss_dssp -HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEE-EEEE-
T ss_pred cHHHHHHHHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCE-EEEe-
Confidence 3777888888888764 4677777788776421223444566888997554 221 2344443323232 2222
Q ss_pred cCCchHHHHHHHHH
Q 033061 106 SNEASQLKTQIQQL 119 (128)
Q Consensus 106 ~~~~~~~~~li~~i 119 (128)
+.+.+++.+.+++|
T Consensus 159 ~~~~~~l~~~~~~I 172 (172)
T PF13519_consen 159 DNDPEDLDDAFQQI 172 (172)
T ss_dssp -SSSHHHHHHHHH-
T ss_pred cCCHHHHHHHHhcC
Confidence 34558888877765
No 452
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=25.31 E-value=2.2e+02 Score=25.59 Aligned_cols=59 Identities=14% Similarity=0.238 Sum_probs=38.0
Q ss_pred EEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHH
Q 033061 55 VMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAI 123 (128)
Q Consensus 55 ilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~ 123 (128)
|+|.=.+. +..++.+.+++|+||++.-. .|.|++-++.. +.++--+++=+-+-++--.+
T Consensus 545 VvAKG~d~--~A~~Ir~~A~e~~VPive~~---~LAR~Ly~~~e-----vg~~IP~ely~aVA~iL~~v 603 (609)
T PRK12772 545 VVAKGADY--VALKIKEIAKENDVPIIENK---PLARLIYKKVE-----IDQEIPQDMYQAVAEILAIV 603 (609)
T ss_pred EEEeeCcH--HHHHHHHHHHHCCCcEEeCH---HHHHHHHHcCC-----CCCCCCHHHHHHHHHHHHHH
Confidence 44444433 68999999999999997654 78888766544 33333455555555554444
No 453
>PF13728 TraF: F plasmid transfer operon protein
Probab=25.27 E-value=3.1e+02 Score=20.94 Aligned_cols=67 Identities=16% Similarity=0.113 Sum_probs=43.4
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChh-hHHhhHHHHHHhCCCCEEEeCC-------------HHHHhHHhCCCCceEEEE
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPL-EILLHLPLLAEDKNVPYVFVPS-------------KQALGRACGVTRPVIACS 103 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~-~~~~~l~~lc~~~~IP~~~~~s-------------k~eLG~a~G~~~~~~~v~ 103 (128)
-.+++++.+.++-.-++|..+||.-- ...-.+..+++++|+++..+.- -..+.+.+|....-+...
T Consensus 110 ~~~~~l~~la~~~gL~~F~~~~C~~C~~~~pil~~~~~~yg~~v~~vs~DG~~~~~fp~~~~~~g~~~~l~v~~~Pal~L 189 (215)
T PF13728_consen 110 KRDKALKQLAQKYGLFFFYRSDCPYCQQQAPILQQFADKYGFSVIPVSLDGRPIPSFPNPRPDPGQAKRLGVKVTPALFL 189 (215)
T ss_pred HHHHHHHHHhhCeEEEEEEcCCCchhHHHHHHHHHHHHHhCCEEEEEecCCCCCcCCCCCCCCHHHHHHcCCCcCCEEEE
Confidence 34677888885555555677787522 2456677899999999877653 155667788875433333
Q ss_pred E
Q 033061 104 V 104 (128)
Q Consensus 104 i 104 (128)
|
T Consensus 190 v 190 (215)
T PF13728_consen 190 V 190 (215)
T ss_pred E
Confidence 3
No 454
>PLN02884 6-phosphofructokinase
Probab=25.22 E-value=1.5e+02 Score=25.38 Aligned_cols=46 Identities=11% Similarity=0.076 Sum_probs=37.6
Q ss_pred cHHHHHHHHHcCce-eEEEEecCCChhhHHhhHHHHHHhCC--CCEEEeC
Q 033061 38 GANEATKTLNRGIS-EFIVMAADTEPLEILLHLPLLAEDKN--VPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~ka-kLVilA~D~~p~~~~~~l~~lc~~~~--IP~~~~~ 84 (128)
..+++.+.+++..+ .|++|..|-+-. ...+|...|++++ ||++-++
T Consensus 131 ~~~~i~~~L~~~~Id~LivIGGdgS~~-~a~~L~~~~~~~g~~i~vIGIP 179 (411)
T PLN02884 131 KTSDIVDSIEARGINMLFVLGGNGTHA-GANAIHNECRKRKMKVSVVGVP 179 (411)
T ss_pred cHHHHHHHHHHcCCCEEEEECCchHHH-HHHHHHHHHHHcCCCceEEecc
Confidence 57788888888775 889999999887 8888888888877 8877665
No 455
>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=25.21 E-value=2.6e+02 Score=21.89 Aligned_cols=47 Identities=9% Similarity=0.077 Sum_probs=30.6
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG 90 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG 90 (128)
.++..+.|.+-.+.+||.-..+++. . ..++.++||.++..-++.+|-
T Consensus 119 l~~~v~kI~~~g~nvIl~~k~I~~~-a----~~~l~k~gI~~v~~v~~~dl~ 165 (261)
T cd03334 119 LKNLVSRIVALRPDVILVEKSVSRI-A----QDLLLEAGITLVLNVKPSVLE 165 (261)
T ss_pred HHHHHHHHHhcCCCEEEECCccCHH-H----HHHHHHCCCEEEEecCHHHHH
Confidence 4556666666778888888887665 2 345666777776665554443
No 456
>COG0533 QRI7 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=25.19 E-value=1.4e+02 Score=25.14 Aligned_cols=45 Identities=11% Similarity=0.181 Sum_probs=34.9
Q ss_pred HHHHHHHHcCceeEEEEecCCChh-hHHhhHHHHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPL-EILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~-~~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+.++++.-..+-++++.=++.| .+++.+..+|+.+++-+++.+
T Consensus 251 ~kt~rAl~~~~~~~lvi~GGVaaN~~LR~~l~~~~~~~g~~~~~p~ 296 (342)
T COG0533 251 EKTERALKHTGKKELVIAGGVAANSRLREMLEEMCKERGAEVYIPP 296 (342)
T ss_pred HHHHHHHHHhCCCEEEEeccHHHhHHHHHHHHHHHHhcCCEEEcCC
Confidence 456788888888889999888765 366778999999987665544
No 457
>PRK07878 molybdopterin biosynthesis-like protein MoeZ; Validated
Probab=25.16 E-value=1e+02 Score=25.77 Aligned_cols=41 Identities=20% Similarity=0.110 Sum_probs=32.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHhHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRA 92 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 92 (128)
..-+||-+.|. .. ++..+.++|.++++|+++.+...--|+.
T Consensus 132 ~~D~Vvd~~d~-~~-~r~~ln~~~~~~~~p~v~~~~~g~~G~v 172 (392)
T PRK07878 132 QYDLILDGTDN-FA-TRYLVNDAAVLAGKPYVWGSIYRFEGQA 172 (392)
T ss_pred cCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEeccCEEEE
Confidence 47788888886 44 6788999999999999987665555553
No 458
>COG0403 GcvP Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]
Probab=25.15 E-value=4.7e+02 Score=22.88 Aligned_cols=109 Identities=16% Similarity=0.151 Sum_probs=71.3
Q ss_pred ccCCCChhHHHHHHHHHHHHHH-cC------CccccHHHHHHHH------HcCceeEEEEecCCChhhHHhhHHHHHHhC
Q 033061 10 AYPLADSNLTITILDLVQQAAN-YK------QLKKGANEATKTL------NRGISEFIVMAADTEPLEILLHLPLLAEDK 76 (128)
Q Consensus 10 ~~P~~~~~~~~~i~~lL~~a~~-ag------~lv~G~~~v~kai------~~~kakLVilA~D~~p~~~~~~l~~lc~~~ 76 (128)
|.|..++-.-+.++++=.+... .| .+.-|....-+|+ .+++.+-++++.|+-|. +.+-+...++-.
T Consensus 110 YQpEISQGrLqaLfefQtlv~dLTGm~VANASm~DeaTAaAEAm~ma~r~~k~k~~~~~V~~~vhpq-t~~Vl~Tra~~~ 188 (450)
T COG0403 110 YQPEISQGRLEALFEFQTLVADLTGLDVANASMLDEATAAAEAMLMAKRVTKKKRNKFLVPKDVHPQ-TLDVLRTRAEGL 188 (450)
T ss_pred CchhhhhHHHHHHHHHHHHHHHHhCCCcccchhhhhHHHHHHHHHHHHHhhcCcCceEEecCCCCHH-HHHHHHhhcccC
Confidence 6788888888888877665543 22 3444444444443 44557899999999998 999999999999
Q ss_pred CCCEEEeC--CHHHHhHHhCCCCceEEEEEecCCc-----hHHHHHHHHHHH
Q 033061 77 NVPYVFVP--SKQALGRACGVTRPVIACSVTSNEA-----SQLKTQIQQLKD 121 (128)
Q Consensus 77 ~IP~~~~~--sk~eLG~a~G~~~~~~~v~i~~~~~-----~~~~~li~~i~~ 121 (128)
|+-++... +-++|-.+ .+.-++.+.+-.++. .++..+.+..+.
T Consensus 189 g~~i~~~~~~d~~~l~~~--~~~~~~gv~vQyP~~~G~~~~d~~~l~~~~h~ 238 (450)
T COG0403 189 GIEIEVVDADDLDDLESA--DDGDVFGVLVQYPNTFGIVEEDLRALIEAAHS 238 (450)
T ss_pred ceEEEEeccchhhhhhhc--cccCeEEEEEecCCCCCccchhHHHHHHHHhh
Confidence 99886643 44555555 444555555544332 345555555443
No 459
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=25.12 E-value=1e+02 Score=25.59 Aligned_cols=33 Identities=15% Similarity=0.185 Sum_probs=24.6
Q ss_pred eeEEEEecCCC---------------hh--hHHhhHHHHHHhCCCCEEEe
Q 033061 51 SEFIVMAADTE---------------PL--EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 51 akLVilA~D~~---------------p~--~~~~~l~~lc~~~~IP~~~~ 83 (128)
-...|+|.|.. |. .-..++..+|.++++|++++
T Consensus 111 rpV~VIa~dkg~~~~e~~~~~~G~~~p~g~rKa~Rlm~lA~~f~lPIItl 160 (322)
T CHL00198 111 RTIVFLGHQRGRNTKENVLRNFGMPSPGGYRKALRLMKHANKFGLPILTF 160 (322)
T ss_pred EEEEEEEecCCccchhhhhhcCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 36788999973 21 13467889999999998875
No 460
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=25.10 E-value=67 Score=22.94 Aligned_cols=41 Identities=32% Similarity=0.377 Sum_probs=30.5
Q ss_pred cCCChhhHHhhHHHHHHhCCCCE-----E-EeCCHHHHhHHhCCCCce
Q 033061 58 ADTEPLEILLHLPLLAEDKNVPY-----V-FVPSKQALGRACGVTRPV 99 (128)
Q Consensus 58 ~D~~p~~~~~~l~~lc~~~~IP~-----~-~~~sk~eLG~a~G~~~~~ 99 (128)
.|+..+ +...+..+|+.++.|. + ...|.++|+..+|..+.+
T Consensus 113 ~~~~~R-la~~L~~l~~~~~~~~~~~~~~~~~~t~~~iA~~lG~tret 159 (193)
T TIGR03697 113 RDMGSR-LVSFLLILCRDFGVPGQRGVTIDLRLSHQAIAEAIGSTRVT 159 (193)
T ss_pred CCHHHH-HHHHHHHHHHHhCCCCCCeEEecCCCCHHHHHHHhCCcHHH
Confidence 456666 7788888898877652 2 345999999999998654
No 461
>PRK09108 type III secretion system protein HrcU; Validated
Probab=25.08 E-value=3e+02 Score=23.00 Aligned_cols=51 Identities=18% Similarity=0.126 Sum_probs=34.3
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHHh
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAIE 124 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~~ 124 (128)
+..++.+.++++|||++.-. .|.|++- +.. +.+.--+++=+-+-++--.|.
T Consensus 292 ~A~~Ir~~A~e~~VPvven~---pLARaLy-~~~-----vg~~IP~ely~aVA~iL~~v~ 342 (353)
T PRK09108 292 GALALRRHAHALGIPIVGNP---PVARALY-RVE-----LDEPIPEELFETVAAILRWVD 342 (353)
T ss_pred HHHHHHHHHHHcCCCEEeCH---HHHHHHh-cCC-----CCCcCCHHHHHHHHHHHHHHH
Confidence 68999999999999997654 7888876 322 333334555555555554443
No 462
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=25.06 E-value=1.2e+02 Score=24.02 Aligned_cols=48 Identities=13% Similarity=0.086 Sum_probs=29.9
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
.+.+.+.+.+.++++..|+-....+.......+..+|+.++||++...
T Consensus 50 ~~~~~~~~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~ 97 (362)
T cd06367 50 SLLLSVCDLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGIS 97 (362)
T ss_pred HHHHHHHHHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEee
Confidence 344556666766765555544444331134667888999999998653
No 463
>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=25.05 E-value=2e+02 Score=21.18 Aligned_cols=40 Identities=13% Similarity=0.205 Sum_probs=24.3
Q ss_pred HHHHHHHcCceeE-EEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEF-IVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakL-VilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.++.+..+++.- ++.+.|.+.. . ...+..++||++.+++
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~~-~----~~~~~~~~ipvV~i~~ 86 (270)
T cd06296 46 QWVERLSARRTDGVILVTPELTSA-Q----RAALRRTGIPFVVVDP 86 (270)
T ss_pred HHHHHHHHcCCCEEEEecCCCChH-H----HHHHhcCCCCEEEEec
Confidence 4556666777654 4455554332 2 4555778999888764
No 464
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=24.97 E-value=1.6e+02 Score=23.05 Aligned_cols=43 Identities=16% Similarity=0.122 Sum_probs=29.8
Q ss_pred HHHHHHHHHc-CceeEEEEecCC---ChhhHHhhHHHHHHhCCCCEEE
Q 033061 39 ANEATKTLNR-GISEFIVMAADT---EPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 39 ~~~v~kai~~-~kakLVilA~D~---~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
.+++.+++++ .+.++|++.+-. ...+ .+.+.++|++++++++.
T Consensus 142 ~~~l~~~l~~~~~~k~v~l~~p~~~G~~~d-l~~I~~~~~~~g~~liv 188 (294)
T cd00615 142 PETFKKALIEHPDAKAAVITNPTYYGICYN-LRKIVEEAHHRGLPVLV 188 (294)
T ss_pred HHHHHHHHHhCCCceEEEEECCCCCCEecC-HHHHHHHHHhcCCeEEE
Confidence 4567777765 468888887421 1122 46789999999998764
No 465
>PRK10714 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional
Probab=24.94 E-value=1.1e+02 Score=24.71 Aligned_cols=70 Identities=11% Similarity=0.082 Sum_probs=37.6
Q ss_pred EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHHHHh--HH--hCCCC-ceEEEEEecCCc----hHHHHHHHHHHHH
Q 033061 53 FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALG--RA--CGVTR-PVIACSVTSNEA----SQLKTQIQQLKDA 122 (128)
Q Consensus 53 LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~eLG--~a--~G~~~-~~~~v~i~~~~~----~~~~~li~~i~~~ 122 (128)
=+|+..|.|...+.+.+..++++.+.+++.+......| .| .|... +.-.++++|.|. +.+.++++.+.+.
T Consensus 40 EIIvVDDgS~D~T~~il~~~~~~~~~~v~~i~~~~n~G~~~A~~~G~~~A~gd~vv~~DaD~q~~p~~i~~l~~~~~~~ 118 (325)
T PRK10714 40 EILLIDDGSSDNSAEMLVEAAQAPDSHIVAILLNRNYGQHSAIMAGFSHVTGDLIITLDADLQNPPEEIPRLVAKADEG 118 (325)
T ss_pred EEEEEeCCCCCcHHHHHHHHHhhcCCcEEEEEeCCCCCHHHHHHHHHHhCCCCEEEEECCCCCCCHHHHHHHHHHHHhh
Confidence 35566777766677777777776666665432222233 22 22211 112456677664 4566666666543
No 466
>cd02002 TPP_BFDC Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of benzoylformate to benzaldehyde and carbon dioxide. This enzyme is dependent on TPP and a divalent metal cation as cofactors.
Probab=24.85 E-value=2.6e+02 Score=19.90 Aligned_cols=25 Identities=8% Similarity=0.061 Sum_probs=14.3
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTE 61 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~ 61 (128)
.+..+...+.+.+..-++|+-+|-.
T Consensus 81 ~~~~el~ta~~~~~p~~~iV~nN~~ 105 (178)
T cd02002 81 YTIQALWTAARYGLPVTVVILNNRG 105 (178)
T ss_pred ccHHHHHHHHHhCCCeEEEEEcCcc
Confidence 4455666666665555555566653
No 467
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=24.84 E-value=1.7e+02 Score=23.59 Aligned_cols=39 Identities=18% Similarity=0.016 Sum_probs=22.2
Q ss_pred HHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 44 KTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 44 kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+.+..+++.-+++ +.| +. -.......+.+.+||++.+.+
T Consensus 74 ~~li~~~vdgIiv~~~d--~~-al~~~l~~a~~~gIpVV~~d~ 113 (336)
T PRK15408 74 NNFVNQGYNAIIVSAVS--PD-GLCPALKRAMQRGVKVLTWDS 113 (336)
T ss_pred HHHHHcCCCEEEEecCC--HH-HHHHHHHHHHHCCCeEEEeCC
Confidence 3344455544444 434 32 234555667888999887753
No 468
>PLN02161 beta-amylase
Probab=24.84 E-value=1.7e+02 Score=26.04 Aligned_cols=46 Identities=11% Similarity=0.172 Sum_probs=40.6
Q ss_pred cccHHHHHHHHHcCceeEEEEecC-----------CChhhHHhhHHHHHHhCCCCEE
Q 033061 36 KKGANEATKTLNRGISEFIVMAAD-----------TEPLEILLHLPLLAEDKNVPYV 81 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D-----------~~p~~~~~~l~~lc~~~~IP~~ 81 (128)
.-|+..+.+-+++..+.|.|-+-+ ++|..+...+...|.+++|++.
T Consensus 415 rDGY~~Ia~m~~rh~~~l~FTClEM~D~eq~~~~~s~Pe~Lv~QV~~aa~~~Gv~~a 471 (531)
T PLN02161 415 RDGYDPVASVLSRHGAALHIPCLDMADSETPEKYLCSPEGLRQQIHDVSKKWTIHVT 471 (531)
T ss_pred ccchHHHHHHHHHcCceEEEEeccccCCCCCccccCCHHHHHHHHHHHHHHcCCcee
Confidence 468999999999999999998865 5788899999999999999984
No 469
>PRK03244 argD acetylornithine aminotransferase; Provisional
Probab=24.82 E-value=1.9e+02 Score=23.42 Aligned_cols=36 Identities=8% Similarity=0.061 Sum_probs=26.2
Q ss_pred cCceeEEEEecCC-------ChhhHHhhHHHHHHhCCCCEEEe
Q 033061 48 RGISEFIVMAADT-------EPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 48 ~~kakLVilA~D~-------~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
.++.++|++-.-- .+.++...+.++|+++++.++.=
T Consensus 181 ~~~~~aviiep~~~~~G~~~~~~~~l~~l~~l~~~~~~llI~D 223 (398)
T PRK03244 181 DDDTAAVFLEPIQGEAGVVPPPAGYLAAAREITDRHGALLVLD 223 (398)
T ss_pred cCCeEEEEEecccCCCCCcCCCHHHHHHHHHHHHHcCCEEEEe
Confidence 3567888886542 23346889999999999998653
No 470
>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=24.69 E-value=2.3e+02 Score=21.91 Aligned_cols=43 Identities=14% Similarity=0.175 Sum_probs=23.8
Q ss_pred HHHHHHcCceeEEEEecCCChhh----HHhhHHHHHHhCCCCEEEeC
Q 033061 42 ATKTLNRGISEFIVMAADTEPLE----ILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 42 v~kai~~~kakLVilA~D~~p~~----~~~~l~~lc~~~~IP~~~~~ 84 (128)
+.+..+...+.+||++.|..... -...+.......++|+..+.
T Consensus 23 l~~~~~~~~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~l~~pv~~V~ 69 (224)
T cd07388 23 LVGLAPETGADAIVLIGNLLPKAAKSEDYAAFFRILGEAHLPTFYVP 69 (224)
T ss_pred HHHHHhhcCCCEEEECCCCCCCCCCHHHHHHHHHHHHhcCCceEEEc
Confidence 33334446688888888884321 11233333445567876653
No 471
>PF02472 ExbD: Biopolymer transport protein ExbD/TolR; InterPro: IPR003400 This group of proteins are membrane bound transport proteins essential for ferric ion uptake in bacteria []. The family consists of ExbD, and TolR which are involved in TonB-dependent transport of various receptor bound substrates including colicins [].; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2JWL_A 2JWK_A 2PFU_A.
Probab=24.68 E-value=2.2e+02 Score=19.06 Aligned_cols=49 Identities=10% Similarity=0.150 Sum_probs=27.1
Q ss_pred HHHHHHHHHcCc--e-eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 39 ANEATKTLNRGI--S-EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 39 ~~~v~kai~~~k--a-kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
..+-++...... . .++|.|.+.-+....-++.+.|++.|+.-+.+-+..
T Consensus 78 L~~~l~~~~~~~~~~~~v~i~aD~~~~y~~vv~vl~~l~~~g~~~v~l~t~~ 129 (130)
T PF02472_consen 78 LEARLKELKQKNPDPVRVLIRADKDAPYQDVVDVLDALREAGFTKVSLATEK 129 (130)
T ss_dssp HHHHHHHHCCC-TTS--EEEEE-TTS-HHHHHHHHHHHHHTT---EE-TT--
T ss_pred HHHHHHHhhccCCCcceEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEEEec
Confidence 344444444433 2 567777766677788999999999999877766544
No 472
>TIGR01261 hisB_Nterm histidinol-phosphatase. This model describes histidinol phosphatase. All known examples in the scope of this model are bifunctional proteins with a histidinol phosphatase domain followed by an imidazoleglycerol-phosphate dehydratase domain. These enzymatic domains catalyze the ninth and seventh steps, respectively, of histidine biosynthesis.
Probab=24.66 E-value=2e+02 Score=20.81 Aligned_cols=47 Identities=11% Similarity=0.151 Sum_probs=34.7
Q ss_pred CccccHHHHHHHHHcCceeEEEEecCCCh-------h---hHHhhHHHHHHhCCCCE
Q 033061 34 QLKKGANEATKTLNRGISEFIVMAADTEP-------L---EILLHLPLLAEDKNVPY 80 (128)
Q Consensus 34 ~lv~G~~~v~kai~~~kakLVilA~D~~p-------~---~~~~~l~~lc~~~~IP~ 80 (128)
++.-|..++++.+++...+++|+.+..+. . .....+..+++..|+++
T Consensus 29 ~~~pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~f 85 (161)
T TIGR01261 29 RFEKGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGIIF 85 (161)
T ss_pred eECCCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCce
Confidence 56789999999999887888888775321 0 02356778889999984
No 473
>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=24.63 E-value=1.8e+02 Score=20.70 Aligned_cols=56 Identities=27% Similarity=0.264 Sum_probs=32.3
Q ss_pred ccHHHHHHHHHc--CceeEEEEecCCChh--hHHhhHHHHHHh-CCCCEEE--eC--CHHHHhHH
Q 033061 37 KGANEATKTLNR--GISEFIVMAADTEPL--EILLHLPLLAED-KNVPYVF--VP--SKQALGRA 92 (128)
Q Consensus 37 ~G~~~v~kai~~--~kakLVilA~D~~p~--~~~~~l~~lc~~-~~IP~~~--~~--sk~eLG~a 92 (128)
.+.+...+.|++ .++.-||+|.|++.. .+..++...|.. .+.|+.. +. |..++=+|
T Consensus 83 ~~~~~~~~~ik~l~~~ad~ii~atD~DrEGE~I~~~i~~~~~~~~~~~v~R~~fsslT~~~I~~A 147 (151)
T cd03362 83 KGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCVKRKPVKRAWFSSLTPKAIRRA 147 (151)
T ss_pred ccHHHHHHHHHHHHhCCCeEEEccCCCccccHHHHHHHHHhCCCCCCcEEEEEEccCCHHHHHHH
Confidence 344444444433 356889999999843 255667777775 2456532 22 44555444
No 474
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=24.54 E-value=1.7e+02 Score=22.86 Aligned_cols=43 Identities=16% Similarity=0.167 Sum_probs=26.2
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
+...+.+.+.+.++ .+|+..-+++. ...+...+++++||++..
T Consensus 55 a~~~~~~li~~~~v-~~iiG~~~s~~--~~a~~~~~~~~~ip~i~~ 97 (344)
T cd06348 55 AINAFQTLINKDRV-LAIIGPTLSQQ--AFAADPIAERAGVPVVGP 97 (344)
T ss_pred HHHHHHHHhhhcCc-eEEECCCCcHH--HHhhhHHHHhCCCCEEec
Confidence 34455555555555 44555555553 344566888999998864
No 475
>KOG3009 consensus Predicted carbohydrate kinase, contains PfkB domain [General function prediction only]
Probab=24.54 E-value=1.6e+02 Score=26.22 Aligned_cols=42 Identities=12% Similarity=0.274 Sum_probs=34.0
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC-HHHHhHHh
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS-KQALGRAC 93 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s-k~eLG~a~ 93 (128)
.+.++++-+|.|+. ....+.. ++.+.+|+.|-++ ...-++.+
T Consensus 425 ~a~~I~~DsNiS~~-~Ma~il~-ak~~k~~V~fEPTd~~k~~K~f 467 (614)
T KOG3009|consen 425 SADFILLDSNISVP-VMARILE-AKKHKKQVWFEPTDIDKVKKVF 467 (614)
T ss_pred cCCEEEEcCCCCHH-HHHHHHH-hhhccCceEecCCCchhhhhhh
Confidence 68999999999998 7888887 9999999988764 44555553
No 476
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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 consist 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=24.51 E-value=2.2e+02 Score=21.08 Aligned_cols=42 Identities=14% Similarity=0.054 Sum_probs=22.6
Q ss_pred HHHHHHHcCce-eEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGIS-EFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~ka-kLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+.+...++ .+++.+.|.+. . ......+.++++|++.++.
T Consensus 48 ~~i~~~~~~~~dgiIi~~~~~~~--~-~~~i~~~~~~~ipvv~~~~ 90 (271)
T cd06321 48 SQIDNFIAAKVDLILLNAVDSKG--I-APAVKRAQAAGIVVVAVDV 90 (271)
T ss_pred HHHHHHHHhCCCEEEEeCCChhH--h-HHHHHHHHHCCCeEEEecC
Confidence 34444445555 45554544321 2 2333445678999988864
No 477
>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=24.46 E-value=96 Score=21.09 Aligned_cols=45 Identities=7% Similarity=0.047 Sum_probs=33.8
Q ss_pred cccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 36 KKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 36 v~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..+..++...+. ..-+++++.-+.- ..+++...+..+|||+..+.
T Consensus 35 a~~~~e~~~~~~--~~Dvill~PQv~~--~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 35 AGAYGSHYDMIP--DYDLVILAPQMAS--YYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred EeeHHHHHHhcc--CCCEEEEcChHHH--HHHHHHHHhhhcCCCEEEeC
Confidence 456666666543 4679999888854 47899999999999997665
No 478
>cd02004 TPP_BZL_OCoD_HPCL Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL cleaves the acyloin linkage of benzoin producing 2 molecules of benzaldehyde and enabling the Pseudomonas to grow on benzoin as the sole carbon and energy source. OCoD has a role in the detoxification of oxalate, catalyzing the decarboxylation of oxalyl-CoA to formate. 2-HPCL is a peroxisomal enzyme which plays a role in the alpha-oxidation of 3-methyl-branched fatty acids, catalyzing the cleavage of 2-hydroxy-3-methylacyl-CoA into formyl-CoA and a 2-methyl-branched fatty aldehyde. All these enzymes depend on Mg2+ and TPP for activity.
Probab=24.45 E-value=2.7e+02 Score=19.87 Aligned_cols=12 Identities=17% Similarity=0.144 Sum_probs=7.3
Q ss_pred CHHHHhHHhCCC
Q 033061 85 SKQALGRACGVT 96 (128)
Q Consensus 85 sk~eLG~a~G~~ 96 (128)
+-..|.+++|.+
T Consensus 130 d~~~la~a~G~~ 141 (172)
T cd02004 130 RYDLVAEAFGGK 141 (172)
T ss_pred CHHHHHHHCCCe
Confidence 345667777665
No 479
>PF13058 DUF3920: Protein of unknown function (DUF3920)
Probab=24.38 E-value=72 Score=22.77 Aligned_cols=24 Identities=21% Similarity=0.288 Sum_probs=19.5
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQA 88 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~e 88 (128)
+...+-++-+...||+++..|-+.
T Consensus 13 l~~DvFs~i~k~~~pviFcdTc~a 36 (126)
T PF13058_consen 13 LRNDVFSLIEKCHIPVIFCDTCDA 36 (126)
T ss_pred HHHHHHHHHHhhcCCeEEecccch
Confidence 567777888888999999887654
No 480
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=24.31 E-value=1.7e+02 Score=22.84 Aligned_cols=42 Identities=14% Similarity=0.208 Sum_probs=27.4
Q ss_pred HHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 39 ANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 39 ~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
.+.+.+.+.+.++..|| +..+++. ...+..++++++||++..
T Consensus 56 ~~~a~~li~~~~v~aii-g~~~s~~--~~~~~~~~~~~~ip~i~~ 97 (346)
T cd06330 56 IREARELVENEGVDMLI-GLISSGV--ALAVAPVAEELKVFFIAT 97 (346)
T ss_pred HHHHHHHHhccCCcEEE-cccchHH--HHHHHHHHHHcCCeEEEc
Confidence 34566666655666554 5444443 456778999999999864
No 481
>PRK08322 acetolactate synthase; Reviewed
Probab=24.15 E-value=1.8e+02 Score=24.92 Aligned_cols=45 Identities=11% Similarity=0.256 Sum_probs=30.1
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
++..+.|.+-+--++++...+......+.+..+|+..++|++...
T Consensus 187 ~~~~~~l~~A~rPviv~G~g~~~~~a~~~l~~lae~~~~pv~tt~ 231 (547)
T PRK08322 187 ERAAEAIQAAKNPLILIGAGANRKTASKALTEFVDKTGIPFFTTQ 231 (547)
T ss_pred HHHHHHHHhCCCcEEEECCCcchhcHHHHHHHHHHHhCCCEEEcc
Confidence 344556665555566666555332357889999999999998643
No 482
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. 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 type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=24.08 E-value=2e+02 Score=21.14 Aligned_cols=42 Identities=19% Similarity=0.271 Sum_probs=22.8
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+.+...++.-+|+.....+ . ......+.+.+||++++++
T Consensus 47 ~~~~~l~~~~vdgiii~~~~~~--~-~~~~~~~~~~~ipvv~i~~ 88 (270)
T cd01545 47 RVRALLQRSRVDGVILTPPLSD--N-PELLDLLDEAGVPYVRIAP 88 (270)
T ss_pred HHHHHHHHCCCCEEEEeCCCCC--c-cHHHHHHHhcCCCEEEEec
Confidence 3455565666655555432111 1 2233456678899987753
No 483
>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=24.07 E-value=2.7e+02 Score=21.61 Aligned_cols=43 Identities=14% Similarity=0.172 Sum_probs=35.5
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEe
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~ 83 (128)
.++.+.+++++++.||.....++. ..+.+..++++.++|++.+
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 567777888889999988888776 7788888899999998765
No 484
>PRK02936 argD acetylornithine aminotransferase; Provisional
Probab=24.04 E-value=1.9e+02 Score=23.25 Aligned_cols=33 Identities=9% Similarity=0.186 Sum_probs=24.0
Q ss_pred CceeEEEEe--------cCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 49 GISEFIVMA--------ADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 49 ~kakLVilA--------~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
++.+.|++- ...++. ..+.+..+|++++++++.
T Consensus 166 ~~~~~ii~e~i~~~~G~~~~~~~-~l~~l~~l~~~~~~~lI~ 206 (377)
T PRK02936 166 EEVAAVMLEVVQGEGGVIPADPA-FLQEVQTLCKKFGALLII 206 (377)
T ss_pred CCeEEEEEecccCCCCCccCCHH-HHHHHHHHHHHcCCEEEE
Confidence 456777773 123444 789999999999999864
No 485
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=24.04 E-value=99 Score=25.65 Aligned_cols=48 Identities=23% Similarity=0.162 Sum_probs=31.6
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLK 120 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~ 120 (128)
+..++...+++||||++.-. -|.|++-.... +.+.--.++=+.+.++-
T Consensus 289 ~A~~Ir~iA~e~~VPiven~---pLAR~Ly~~~e-----vg~~IP~ely~aVA~IL 336 (342)
T TIGR01404 289 QALAVRAYAEEAGIPVVRDI---PLARQLYRTAR-----VGQYIPEELFEAVAELL 336 (342)
T ss_pred HHHHHHHHHHHcCCCEeeCH---HHHHHHHHcCC-----CCCcCCHHHHHHHHHHH
Confidence 68999999999999997654 67787766533 22332344444444443
No 486
>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=24.04 E-value=2.6e+02 Score=20.20 Aligned_cols=67 Identities=9% Similarity=0.180 Sum_probs=36.1
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE--eC--CHHHHhHHhCCCC-ceEEEEEecCCchHHHHHHHHHHH
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF--VP--SKQALGRACGVTR-PVIACSVTSNEASQLKTQIQQLKD 121 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~--~~--sk~eLG~a~G~~~-~~~~v~i~~~~~~~~~~li~~i~~ 121 (128)
+..+|.|+.|-++. .+.++.+++++++.+ +. ...+|++..|... ++ .+.|...+.---.++.+.+++
T Consensus 65 ~~~vV~Vs~D~~~~----~~~~f~~~~~~~~~~~p~~~~~~~~l~~~y~v~~iPt-~vlId~~G~Vv~~~~~~~i~~ 136 (146)
T cd03008 65 QLALVYVSMDQSEQ----QQESFLKDMPKKWLFLPFEDEFRRELEAQFSVEELPT-VVVLKPDGDVLAANAVDEILR 136 (146)
T ss_pred CEEEEEEECCCCHH----HHHHHHHHCCCCceeecccchHHHHHHHHcCCCCCCE-EEEECCCCcEEeeChHHHHHH
Confidence 36777777665443 355667788865322 22 2458999998863 43 344443333222333333433
No 487
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=24.01 E-value=1.8e+02 Score=25.19 Aligned_cols=43 Identities=14% Similarity=0.185 Sum_probs=30.2
Q ss_pred HHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE
Q 033061 40 NEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF 82 (128)
Q Consensus 40 ~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~ 82 (128)
+++.+.|.+-+--++++...+...+-...+..+++..++|++.
T Consensus 195 ~~~~~~L~~A~rPvi~~G~g~~~~~a~~~l~~lae~~~~pV~t 237 (557)
T PRK08199 195 ARLAELLARAERPLVILGGSGWTEAAVADLRAFAERWGLPVAC 237 (557)
T ss_pred HHHHHHHHhCCCCEEEECCCcCchhHHHHHHHHHHHhCCCEEE
Confidence 4555666665656666666654323578899999999999985
No 488
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=23.98 E-value=1.8e+02 Score=22.09 Aligned_cols=44 Identities=5% Similarity=0.048 Sum_probs=29.3
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeC
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVP 84 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~ 84 (128)
..+.+.+.+. ++.-.+|+...++.. ...+..+|...+||++...
T Consensus 51 ~~~~~c~l~~-~~~v~ai~G~~~s~~--~~~v~~~~~~~~iP~is~~ 94 (328)
T cd06351 51 LLRAVCDLLV-SQGVAAIFGPTSSES--ASAVQSICDALEIPHISIS 94 (328)
T ss_pred HHHHHHHHHh-ccCcEEEECCCCHHH--HHHHHHHhccCCCCeEEee
Confidence 3455555554 334555666666554 4568899999999998764
No 489
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.94 E-value=2.2e+02 Score=20.93 Aligned_cols=41 Identities=10% Similarity=0.249 Sum_probs=23.6
Q ss_pred HHHHHHHHcCceeEEEE-ecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 40 NEATKTLNRGISEFIVM-AADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 40 ~~v~kai~~~kakLVil-A~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+++.+.+.++++.-+|+ +.+.+. .....+.+++||++.+++
T Consensus 50 ~~~~~~~~~~~~dgiii~~~~~~~-----~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 50 EEVKKMIQQKRVDGFILLYSREDD-----PIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred HHHHHHHHHcCcCEEEEecCcCCc-----HHHHHHHhcCCCEEEECC
Confidence 34445566676654444 333322 224456788999888764
No 490
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=23.94 E-value=4.6e+02 Score=22.42 Aligned_cols=36 Identities=17% Similarity=0.214 Sum_probs=27.9
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
..+.++++.|.........+..++++.++|+...++
T Consensus 128 g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~ 163 (428)
T TIGR00959 128 GKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGK 163 (428)
T ss_pred CCeEEEEeccccchHHHHHHHHHHHhcCCceEecCC
Confidence 357888899986543577888999999999877643
No 491
>KOG3282 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.91 E-value=2.4e+02 Score=21.73 Aligned_cols=46 Identities=17% Similarity=0.162 Sum_probs=37.4
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
.+-+.+.+.-+.|++|+|+=++|- +....+...++..+++...+.+
T Consensus 111 ~~p~ll~~We~~GQ~KIvvk~~~e---~~l~~l~~~A~~~gl~t~~i~D 156 (190)
T KOG3282|consen 111 RDPELLRRWENCGQAKIVVKAESE---EELMELQKDAKKLGLYTHLIQD 156 (190)
T ss_pred hCHHHHHHHHHcCCceEEEEcCCH---HHHHHHHHHHHHcCCcEEEEEc
Confidence 566777788888999999999997 2457788899999999876654
No 492
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=23.86 E-value=2.6e+02 Score=23.67 Aligned_cols=51 Identities=18% Similarity=0.266 Sum_probs=33.5
Q ss_pred HHhhHHHHHHhCCCCEEEeCCHHHHhHHhCCCCceEEEEEecCCchHHHHHHHHHHHHH
Q 033061 65 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKTQIQQLKDAI 123 (128)
Q Consensus 65 ~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~~v~i~~~~~~~~~~li~~i~~~~ 123 (128)
+..++...+++||||++.-. .|.|++-.... +.+.--.++=+-+-++--.|
T Consensus 297 ~A~~Ir~~A~e~~VPiven~---pLARaLy~~~e-----vg~~IP~ely~AVA~ILa~V 347 (386)
T PRK12468 297 VALRIRELGAEHRIPLLEAP---PLARALFRHSE-----VGQHIPATLYAAVAEVLAWV 347 (386)
T ss_pred HHHHHHHHHHHcCCcEEeCH---HHHHHHHHhCC-----CCCCCCHHHHHHHHHHHHHH
Confidence 68999999999999997654 68888766544 23333345555555544443
No 493
>PRK10957 iron-enterobactin transporter periplasmic binding protein; Provisional
Probab=23.83 E-value=3.6e+02 Score=21.13 Aligned_cols=59 Identities=15% Similarity=0.233 Sum_probs=36.6
Q ss_pred cHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCH--------HHHhHHhCCCCce
Q 033061 38 GANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSK--------QALGRACGVTRPV 99 (128)
Q Consensus 38 G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk--------~eLG~a~G~~~~~ 99 (128)
+..--.+.|..=+.-|||......+. ....+.. .++.+ |++++... ..||+++|++.++
T Consensus 101 ~~~~n~E~i~~l~PDLVi~~~~~~~~-~~~~~~~-L~~~g-pvv~v~~~~~~~~~~~~~lg~~lg~e~~A 167 (317)
T PRK10957 101 IGEPDAEAVAAQMPDLIVISATGGDS-ALALYDQ-LSAIA-PTLVIDYDDKSWQELATQLGEATGLEKQA 167 (317)
T ss_pred CCCcCHHHHhhcCCCEEEEeCCCchh-HHHHHHH-HHhhC-CEEEEeCCCccHHHHHHHHHHHhCcHHHH
Confidence 34555677777789999987554433 2222333 34556 98766421 5889999987554
No 494
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=23.74 E-value=1.3e+02 Score=26.28 Aligned_cols=47 Identities=17% Similarity=0.104 Sum_probs=29.3
Q ss_pred HHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEEeCCHH
Q 033061 41 EATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVFVPSKQ 87 (128)
Q Consensus 41 ~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~sk~ 87 (128)
++..+++.-..-++|+...-........+..+|+.+++|++.+.+|.
T Consensus 95 ~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPiiv~iNK~ 141 (526)
T PRK00741 95 DTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKL 141 (526)
T ss_pred HHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEEEEEECC
Confidence 46777776666555554322222134566788999999987765543
No 495
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=23.70 E-value=1.1e+02 Score=26.54 Aligned_cols=33 Identities=18% Similarity=0.233 Sum_probs=24.6
Q ss_pred eeEEEEecCCC---------------hh--hHHhhHHHHHHhCCCCEEEe
Q 033061 51 SEFIVMAADTE---------------PL--EILLHLPLLAEDKNVPYVFV 83 (128)
Q Consensus 51 akLVilA~D~~---------------p~--~~~~~l~~lc~~~~IP~~~~ 83 (128)
-..+|+|+|.. |. .-..++..+|.++++|++++
T Consensus 178 rpV~VIandkg~~~ke~~~rnfG~~~peGyRKAlR~mklAekf~lPIVtL 227 (431)
T PLN03230 178 MSFMFIGHQKGRNTKENIYRNFAMPQPNGYRKALRFMRHAEKFGFPILTF 227 (431)
T ss_pred EEEEEEEeccCcccccccccCCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 46788999952 11 23467889999999998775
No 496
>cd06311 PBP1_ABC_sugar_binding_like_3 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=23.62 E-value=2.5e+02 Score=20.94 Aligned_cols=42 Identities=12% Similarity=0.198 Sum_probs=22.8
Q ss_pred HHHHHHHcCcee-EEEEecCCChhhHHhhHHHHHHhCCCCEEEeCC
Q 033061 41 EATKTLNRGISE-FIVMAADTEPLEILLHLPLLAEDKNVPYVFVPS 85 (128)
Q Consensus 41 ~v~kai~~~kak-LVilA~D~~p~~~~~~l~~lc~~~~IP~~~~~s 85 (128)
+..+.+...++. +++.+.|.+. ....+ ..+.+.+||++.+.+
T Consensus 51 ~~~~~l~~~~vDgiii~~~~~~~--~~~~i-~~~~~~gIpvV~~d~ 93 (274)
T cd06311 51 AQQDLLINRKIDALVILPFESAP--LTQPV-AKAKKAGIFVVVVDR 93 (274)
T ss_pred HHHHHHHHcCCCEEEEeCCCchh--hHHHH-HHHHHCCCeEEEEcC
Confidence 334444445554 4444445432 23333 445778999988653
No 497
>cd02003 TPP_IolD Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism.
Probab=23.62 E-value=3.1e+02 Score=20.37 Aligned_cols=25 Identities=16% Similarity=0.231 Sum_probs=14.4
Q ss_pred ccHHHHHHHHHcCceeEEEEecCCC
Q 033061 37 KGANEATKTLNRGISEFIVMAADTE 61 (128)
Q Consensus 37 ~G~~~v~kai~~~kakLVilA~D~~ 61 (128)
.+..+...+.+.+-.-++|+-+|..
T Consensus 80 m~~~eL~Ta~~~~lpv~ivV~NN~~ 104 (205)
T cd02003 80 MLHSEIVTAVQEGLKIIIVLFDNHG 104 (205)
T ss_pred ccHHHHHHHHHcCCCCEEEEEECCc
Confidence 3445566666666555566666654
No 498
>PF06794 UPF0270: Uncharacterised protein family (UPF0270); InterPro: IPR010648 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1Y0N_A.
Probab=23.60 E-value=1e+02 Score=19.95 Aligned_cols=21 Identities=14% Similarity=0.344 Sum_probs=17.1
Q ss_pred ccccHHHHHHHHHcCceeEEE
Q 033061 35 LKKGANEATKTLNRGISEFIV 55 (128)
Q Consensus 35 lv~G~~~v~kai~~~kakLVi 55 (128)
+..-..+|.++|++|++.+|+
T Consensus 35 L~~kv~qv~~qL~~G~avI~~ 55 (70)
T PF06794_consen 35 LEEKVEQVKQQLKSGEAVIVF 55 (70)
T ss_dssp HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHcCCEEEEE
Confidence 456678999999999987765
No 499
>PRK08644 thiamine biosynthesis protein ThiF; Provisional
Probab=23.58 E-value=1.3e+02 Score=22.91 Aligned_cols=33 Identities=15% Similarity=0.028 Sum_probs=25.7
Q ss_pred ceeEEEEecCCChhhHHhhHHHHHHhC-CCCEEEeC
Q 033061 50 ISEFIVMAADTEPLEILLHLPLLAEDK-NVPYVFVP 84 (128)
Q Consensus 50 kakLVilA~D~~p~~~~~~l~~lc~~~-~IP~~~~~ 84 (128)
...+||-|.|..+ .+..+.+.|.++ ++|+++..
T Consensus 117 ~~DvVI~a~D~~~--~r~~l~~~~~~~~~~p~I~~~ 150 (212)
T PRK08644 117 DCDIVVEAFDNAE--TKAMLVETVLEHPGKKLVAAS 150 (212)
T ss_pred CCCEEEECCCCHH--HHHHHHHHHHHhCCCCEEEee
Confidence 4778888977643 567788999998 99998763
No 500
>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=23.58 E-value=54 Score=25.26 Aligned_cols=72 Identities=10% Similarity=0.133 Sum_probs=51.0
Q ss_pred HHHHHHHHHcC----------CccccHHHHHHHHHcCceeEEEEecCCChhhHHhhHHHHHHhCCCCEEE-eC---CHHH
Q 033061 23 LDLVQQAANYK----------QLKKGANEATKTLNRGISEFIVMAADTEPLEILLHLPLLAEDKNVPYVF-VP---SKQA 88 (128)
Q Consensus 23 ~~lL~~a~~ag----------~lv~G~~~v~kai~~~kakLVilA~D~~p~~~~~~l~~lc~~~~IP~~~-~~---sk~e 88 (128)
-|.|.+++.+| +-.+|.++-+..+-+..--.||.-.|...- +..+.+.+.+.-+||++. .. +.++
T Consensus 65 ts~lvLnaG~GvP~da~~~~~g~~fgl~~~E~~qI~~HklAV~h~GNvk~h-Ii~K~r~ilr~vdIP~IiVcq~PvdfEd 143 (194)
T TIGR03264 65 TSVLVLNAGSGIPPDAPRGGGGSTFGLTPEEIEQINRHKLAVIHLGNVKSH-IIYKARLILKHVDIPAIIVCQAPVDFED 143 (194)
T ss_pred cceEEEecCCCCCCcccccccccccCCCHHHHHHHhhcCEEEEEeCCHHHH-HHHHHHHHHhcCCCCEEEEeCCCcCHHH
Confidence 35677788888 778888888777665554455555666554 778888888999999873 33 6677
Q ss_pred HhHHhCCC
Q 033061 89 LGRACGVT 96 (128)
Q Consensus 89 LG~a~G~~ 96 (128)
+.+. |.+
T Consensus 144 fak~-Gvk 150 (194)
T TIGR03264 144 FAKI-GVK 150 (194)
T ss_pred HHHh-Ccc
Confidence 7765 554
Done!