Query psy6265
Match_columns 91
No_of_seqs 122 out of 1026
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 21:58:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6265.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6265hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03677 rpl7ae 50S ribosomal 99.9 2.1E-24 4.5E-29 142.1 11.1 87 2-88 31-117 (117)
2 KOG3167|consensus 99.9 1E-24 2.2E-29 146.8 8.9 89 2-90 64-152 (153)
3 PRK04175 rpl7ae 50S ribosomal 99.9 9.1E-24 2E-28 140.0 10.6 86 2-87 35-120 (122)
4 PTZ00222 60S ribosomal protein 99.9 1.3E-23 2.7E-28 153.4 10.8 86 2-87 137-222 (263)
5 COG1358 RPL8A Ribosomal protei 99.9 5.1E-23 1.1E-27 135.6 10.1 71 2-72 32-102 (116)
6 PRK13600 putative ribosomal pr 99.9 4.7E-23 1E-27 129.1 8.9 66 2-68 18-83 (84)
7 PTZ00365 60S ribosomal protein 99.9 7.6E-23 1.7E-27 149.6 10.2 86 2-87 137-222 (266)
8 PRK13602 putative ribosomal pr 99.9 2.7E-22 5.8E-27 124.9 9.1 66 2-68 16-81 (82)
9 PRK13601 putative L7Ae-like ri 99.9 3.4E-22 7.3E-27 124.7 8.8 68 2-70 13-80 (82)
10 PRK06683 hypothetical protein; 99.9 9.7E-22 2.1E-26 122.5 9.0 66 2-68 16-81 (82)
11 PRK01018 50S ribosomal protein 99.8 1.6E-20 3.4E-25 120.5 9.5 70 2-72 21-91 (99)
12 PF01248 Ribosomal_L7Ae: Ribos 99.8 3.6E-20 7.9E-25 116.5 7.9 74 2-75 20-93 (95)
13 PTZ00106 60S ribosomal protein 99.8 8.7E-20 1.9E-24 118.8 9.2 70 2-72 30-100 (108)
14 PRK07714 hypothetical protein; 99.8 1.5E-19 3.3E-24 115.8 8.7 67 2-69 23-89 (100)
15 PRK07283 hypothetical protein; 99.8 1.2E-18 2.7E-23 111.4 8.4 66 2-69 23-88 (98)
16 PRK05583 ribosomal protein L7A 99.7 4.2E-17 9.2E-22 105.5 10.2 68 2-70 22-89 (104)
17 KOG3387|consensus 99.7 3.1E-16 6.8E-21 104.2 8.1 71 2-72 39-112 (131)
18 KOG3406|consensus 99.6 1.4E-15 2.9E-20 101.2 8.6 84 2-85 39-133 (134)
19 PRK09190 hypothetical protein; 99.6 1.5E-14 3.2E-19 104.2 10.0 88 3-91 117-212 (220)
20 COG1911 RPL30 Ribosomal protei 99.5 5.9E-14 1.3E-18 89.6 7.6 70 2-72 24-94 (100)
21 PF08228 RNase_P_pop3: RNase P 98.6 3.9E-07 8.5E-12 63.0 9.4 90 2-91 60-155 (158)
22 KOG2988|consensus 98.6 2.4E-07 5.3E-12 60.4 6.0 70 2-72 31-101 (112)
23 KOG3166|consensus 98.2 1.4E-06 3.1E-11 62.5 3.3 72 2-87 114-185 (209)
24 PF15608 PELOTA_1: PELOTA RNA 96.5 0.017 3.7E-07 37.3 6.4 45 3-49 45-89 (100)
25 PF08032 SpoU_sub_bind: RNA 2' 95.3 0.069 1.5E-06 31.3 5.2 65 2-68 5-71 (76)
26 PF03465 eRF1_3: eRF1 domain 3 94.4 0.045 9.7E-07 35.5 2.9 66 2-67 26-109 (113)
27 PF07997 DUF1694: Protein of u 93.9 0.24 5.2E-06 32.7 5.6 51 2-53 51-101 (120)
28 PF10087 DUF2325: Uncharacteri 93.4 0.36 7.7E-06 30.0 5.6 44 12-55 47-92 (97)
29 TIGR00111 pelota probable tran 92.3 0.6 1.3E-05 35.7 6.4 66 2-68 282-348 (351)
30 KOG2486|consensus 91.9 0.17 3.8E-06 38.4 3.0 74 12-91 218-293 (320)
31 PRK04011 peptide chain release 91.7 0.73 1.6E-05 36.1 6.4 67 2-68 301-408 (411)
32 TIGR03676 aRF1/eRF1 peptide ch 91.6 0.83 1.8E-05 35.7 6.6 67 2-68 293-400 (403)
33 PF02142 MGS: MGS-like domain 90.1 0.56 1.2E-05 29.0 3.7 42 4-45 51-95 (95)
34 PRK12723 flagellar biosynthesi 90.1 2.3 5E-05 33.1 7.8 75 13-87 206-283 (388)
35 TIGR00108 eRF peptide chain re 90.1 1.4 3E-05 34.6 6.5 68 2-69 297-405 (409)
36 PF02603 Hpr_kinase_N: HPr Ser 90.0 0.53 1.1E-05 30.9 3.7 42 3-47 71-112 (127)
37 cd01422 MGS Methylglyoxal synt 89.9 0.95 2.1E-05 29.2 4.7 44 4-47 61-108 (115)
38 PLN02821 1-hydroxy-2-methyl-2- 89.7 3 6.6E-05 33.4 8.2 47 7-54 356-402 (460)
39 cd04168 TetM_like Tet(M)-like 89.6 1.7 3.6E-05 31.2 6.3 50 3-52 79-128 (237)
40 PF13727 CoA_binding_3: CoA-bi 89.6 0.75 1.6E-05 30.1 4.2 45 3-47 131-175 (175)
41 cd01020 TroA_b Metal binding p 89.2 2.7 5.8E-05 30.5 7.2 65 3-85 196-260 (264)
42 cd00532 MGS-like MGS-like doma 86.5 1.9 4.1E-05 27.4 4.5 43 4-46 58-105 (112)
43 PF00009 GTP_EFTU: Elongation 86.5 1.2 2.5E-05 30.3 3.7 50 2-51 84-133 (188)
44 PRK05234 mgsA methylglyoxal sy 86.1 2.1 4.6E-05 28.8 4.8 53 4-56 66-123 (142)
45 PRK14723 flhF flagellar biosyn 85.9 4.6 0.0001 34.3 7.5 62 10-71 212-273 (767)
46 PF08534 Redoxin: Redoxin; In 85.4 5.2 0.00011 25.7 6.3 63 4-71 53-125 (146)
47 cd03420 SirA_RHOD_Pry_redox Si 85.2 1.7 3.7E-05 25.4 3.5 40 3-46 17-56 (69)
48 COG1648 CysG Siroheme synthase 84.5 4.4 9.6E-05 29.0 6.0 68 14-84 73-147 (210)
49 COG1419 FlhF Flagellar GTP-bin 84.0 6.1 0.00013 31.3 7.0 62 10-71 230-291 (407)
50 PRK00299 sulfur transfer prote 83.1 2.2 4.8E-05 25.9 3.5 41 2-46 26-66 (81)
51 PF11823 DUF3343: Protein of u 82.9 6.8 0.00015 23.0 5.5 40 16-58 4-43 (73)
52 cd01857 HSR1_MMR1 HSR1/MMR1. 82.7 3.2 7E-05 26.9 4.4 51 2-52 2-54 (141)
53 PRK01045 ispH 4-hydroxy-3-meth 82.6 15 0.00033 27.8 8.5 76 7-86 205-281 (298)
54 PRK03147 thiol-disulfide oxido 82.6 11 0.00024 24.7 8.8 65 3-71 84-149 (173)
55 PF03618 Kinase-PPPase: Kinase 82.5 9.9 0.00022 28.2 7.3 62 3-67 43-106 (255)
56 cd01483 E1_enzyme_family Super 82.5 3 6.5E-05 27.1 4.2 36 12-49 88-123 (143)
57 TIGR00679 hpr-ser Hpr(Ser) kin 82.4 5.8 0.00012 30.2 6.1 53 3-58 72-125 (304)
58 PF02401 LYTB: LytB protein; 82.3 19 0.00041 27.0 9.4 75 7-85 204-279 (281)
59 PF07085 DRTGG: DRTGG domain; 82.1 2.4 5.2E-05 26.4 3.5 46 4-52 52-98 (105)
60 PF13611 Peptidase_S76: Serine 81.4 2.4 5.3E-05 28.2 3.4 31 19-50 30-60 (121)
61 PRK14722 flhF flagellar biosyn 80.8 4.1 8.9E-05 31.7 5.0 62 11-72 165-226 (374)
62 TIGR00216 ispH_lytB (E)-4-hydr 80.4 22 0.00048 26.7 8.8 70 13-85 208-278 (280)
63 cd03017 PRX_BCP Peroxiredoxin 80.2 12 0.00026 23.5 6.9 64 4-72 48-121 (140)
64 PRK13371 4-hydroxy-3-methylbut 80.1 16 0.00034 28.8 8.0 48 6-54 281-328 (387)
65 smart00851 MGS MGS-like domain 80.0 3 6.6E-05 25.3 3.4 40 5-44 47-89 (90)
66 TIGR03025 EPS_sugtrans exopoly 79.8 6.3 0.00014 30.5 5.8 51 3-53 178-228 (445)
67 cd04165 GTPBP1_like GTPBP1-lik 79.7 4 8.7E-05 29.0 4.3 51 2-52 98-150 (224)
68 PRK11889 flhF flagellar biosyn 79.7 22 0.00047 28.5 8.7 76 10-85 266-347 (436)
69 PRK11018 hypothetical protein; 79.2 3.6 7.9E-05 24.7 3.5 40 3-46 26-65 (78)
70 PRK06731 flhF flagellar biosyn 78.9 24 0.00052 26.1 9.3 76 10-85 100-181 (270)
71 PRK12360 4-hydroxy-3-methylbut 77.9 25 0.00054 26.4 8.2 76 6-86 203-280 (281)
72 TIGR03499 FlhF flagellar biosy 77.5 16 0.00035 26.9 7.1 60 12-71 223-282 (282)
73 PRK05703 flhF flagellar biosyn 77.4 20 0.00043 28.2 7.9 62 11-72 249-310 (424)
74 PRK11181 23S rRNA (guanosine-2 77.2 25 0.00054 25.4 8.1 65 3-69 9-76 (244)
75 TIGR03023 WcaJ_sugtrans Undeca 76.9 8.3 0.00018 29.9 5.7 51 3-53 181-231 (451)
76 PF13241 NAD_binding_7: Putati 76.7 3.9 8.4E-05 25.5 3.2 33 14-48 61-93 (103)
77 cd01886 EF-G Elongation factor 76.5 13 0.00027 27.3 6.3 51 2-52 78-128 (270)
78 KOG3101|consensus 76.3 2.4 5.2E-05 31.5 2.4 76 13-91 72-183 (283)
79 TIGR02661 MauD methylamine deh 75.9 23 0.00049 24.3 7.9 70 12-86 103-180 (189)
80 COG0420 SbcD DNA repair exonuc 75.7 6.2 0.00013 30.0 4.6 47 2-48 29-83 (390)
81 COG1493 HprK Serine kinase of 75.0 13 0.00028 28.5 6.0 52 3-57 71-123 (308)
82 cd02964 TryX_like_family Trypa 75.0 17 0.00037 23.1 6.0 74 13-91 52-132 (132)
83 PF00448 SRP54: SRP54-type pro 74.5 6.8 0.00015 27.4 4.3 73 13-85 29-110 (196)
84 PF03279 Lip_A_acyltrans: Bact 74.4 2 4.3E-05 31.3 1.6 85 2-91 181-286 (295)
85 cd01485 E1-1_like Ubiquitin ac 74.3 5.2 0.00011 27.9 3.7 35 13-49 113-147 (198)
86 PF01297 TroA: Periplasmic sol 74.2 8.5 0.00018 27.4 4.8 15 71-85 239-253 (256)
87 cd01424 MGS_CPS_II Methylglyox 74.1 9.5 0.00021 23.8 4.5 42 4-45 58-100 (110)
88 PF00578 AhpC-TSA: AhpC/TSA fa 73.7 12 0.00026 23.0 4.9 64 3-71 49-119 (124)
89 PTZ00416 elongation factor 2; 73.5 8.4 0.00018 32.8 5.3 74 2-85 106-180 (836)
90 COG1436 NtpG Archaeal/vacuolar 73.5 13 0.00029 23.9 5.1 46 2-48 35-81 (104)
91 TIGR02342 chap_CCT_delta T-com 73.4 10 0.00022 30.3 5.5 55 3-57 263-320 (517)
92 PF13344 Hydrolase_6: Haloacid 73.4 12 0.00026 23.3 4.9 41 2-44 19-59 (101)
93 PF15632 ATPgrasp_Ter: ATP-gra 73.3 10 0.00022 29.0 5.3 50 2-52 11-78 (329)
94 cd01894 EngA1 EngA1 subfamily. 73.3 7 0.00015 24.6 3.8 52 31-83 96-156 (157)
95 PRK09437 bcp thioredoxin-depen 73.2 22 0.00048 23.0 8.2 78 3-85 54-153 (154)
96 COG0796 MurI Glutamate racemas 73.0 37 0.0008 25.5 8.7 63 4-71 58-120 (269)
97 PF07905 PucR: Purine cataboli 72.9 12 0.00026 24.1 4.9 47 4-51 63-110 (123)
98 cd07399 MPP_YvnB Bacillus subt 72.8 17 0.00038 25.4 6.0 50 3-52 25-81 (214)
99 cd02971 PRX_family Peroxiredox 72.4 21 0.00046 22.4 7.2 64 3-71 46-120 (140)
100 cd01491 Ube1_repeat1 Ubiquitin 71.9 5.1 0.00011 30.0 3.3 40 14-55 106-145 (286)
101 cd04169 RF3 RF3 subfamily. Pe 71.9 24 0.00052 25.7 6.8 50 3-52 86-135 (267)
102 TIGR00503 prfC peptide chain r 71.5 24 0.00052 28.5 7.2 50 3-52 95-144 (527)
103 TIGR03729 acc_ester putative p 71.3 13 0.00028 26.2 5.2 48 4-51 23-72 (239)
104 TIGR00853 pts-lac PTS system, 71.3 22 0.00048 22.1 7.7 72 14-90 4-77 (95)
105 cd03012 TlpA_like_DipZ_like Tl 71.3 23 0.00049 22.3 6.6 68 5-72 48-117 (126)
106 cd05565 PTS_IIB_lactose PTS_II 71.2 23 0.00051 22.4 7.7 63 23-90 11-74 (99)
107 cd05564 PTS_IIB_chitobiose_lic 71.1 22 0.00047 22.0 7.7 61 24-89 11-72 (96)
108 cd00757 ThiF_MoeB_HesA_family 70.7 7 0.00015 27.7 3.6 35 13-49 111-145 (228)
109 cd01879 FeoB Ferrous iron tran 70.6 12 0.00027 23.5 4.5 42 12-53 73-114 (158)
110 COG0761 lytB 4-Hydroxy-3-methy 70.5 40 0.00086 25.7 7.7 76 7-85 207-282 (294)
111 PRK10124 putative UDP-glucose 70.5 15 0.00032 29.0 5.8 51 3-53 193-243 (463)
112 cd04164 trmE TrmE (MnmE, ThdF, 70.5 18 0.00039 22.6 5.3 72 13-84 80-156 (157)
113 PRK10864 putative methyltransf 70.3 43 0.00093 25.9 8.1 65 3-70 115-182 (346)
114 cd00755 YgdL_like Family of ac 70.3 11 0.00023 27.3 4.5 39 8-48 97-135 (231)
115 PF03709 OKR_DC_1_N: Orn/Lys/A 70.2 18 0.00039 23.0 5.2 54 35-88 12-69 (115)
116 cd01884 EF_Tu EF-Tu subfamily. 70.2 8.5 0.00018 26.7 3.9 50 2-51 79-129 (195)
117 PF00899 ThiF: ThiF family; I 70.1 6 0.00013 25.5 3.0 34 13-48 92-125 (135)
118 PRK05428 HPr kinase/phosphoryl 70.1 13 0.00028 28.4 5.1 42 3-47 72-113 (308)
119 COG5258 GTPBP1 GTPase [General 69.9 22 0.00047 28.7 6.4 49 3-70 216-266 (527)
120 COG2229 Predicted GTPase [Gene 69.8 33 0.00072 24.5 6.8 78 6-83 85-176 (187)
121 PF00205 TPP_enzyme_M: Thiamin 69.6 2.5 5.5E-05 27.3 1.1 46 2-47 1-46 (137)
122 cd01492 Aos1_SUMO Ubiquitin ac 69.3 8.2 0.00018 27.0 3.7 36 13-50 110-145 (197)
123 PF02421 FeoB_N: Ferrous iron 69.3 23 0.00051 24.1 5.9 53 5-57 70-122 (156)
124 PF00391 PEP-utilizers: PEP-ut 69.0 12 0.00025 22.4 3.9 36 13-48 9-61 (80)
125 cd04170 EF-G_bact Elongation f 68.7 23 0.0005 25.4 6.1 50 3-52 79-128 (268)
126 cd01018 ZntC Metal binding pro 68.7 16 0.00034 26.5 5.2 16 31-46 208-223 (266)
127 cd04888 ACT_PheB-BS C-terminal 68.7 19 0.00041 20.3 7.6 66 15-88 2-67 (76)
128 TIGR02356 adenyl_thiF thiazole 68.5 9.1 0.0002 26.7 3.8 34 13-48 111-144 (202)
129 PRK05339 PEP synthetase regula 68.4 35 0.00077 25.5 7.0 59 3-64 49-109 (269)
130 TIGR00186 rRNA_methyl_3 rRNA m 68.3 41 0.0009 24.1 8.6 63 3-70 8-72 (237)
131 cd02966 TlpA_like_family TlpA- 68.2 21 0.00046 20.7 6.0 63 6-72 45-109 (116)
132 TIGR00315 cdhB CO dehydrogenas 68.1 15 0.00033 25.4 4.8 45 3-47 18-62 (162)
133 cd06378 PBP1_iGluR_NMDA_NR2 N- 68.1 7 0.00015 29.7 3.4 46 2-47 51-96 (362)
134 PRK00945 acetyl-CoA decarbonyl 67.0 18 0.00038 25.3 4.9 46 3-48 25-71 (171)
135 cd03421 SirA_like_N SirA_like_ 66.9 7.7 0.00017 22.2 2.7 36 3-43 17-52 (67)
136 cd07984 LPLAT_LABLAT-like Lyso 66.7 24 0.00052 23.5 5.5 82 2-91 80-184 (192)
137 PRK06995 flhF flagellar biosyn 66.4 22 0.00047 28.7 5.9 62 10-71 283-344 (484)
138 PRK10200 putative racemase; Pr 66.4 35 0.00075 24.4 6.5 41 3-47 65-105 (230)
139 cd03338 TCP1_delta TCP-1 (CTT 66.3 18 0.00039 28.7 5.5 55 3-57 262-319 (515)
140 cd01493 APPBP1_RUB Ubiquitin a 65.7 10 0.00022 29.9 3.9 39 14-54 113-151 (425)
141 PRK00124 hypothetical protein; 65.6 22 0.00048 24.4 5.1 63 17-86 3-67 (151)
142 PF13407 Peripla_BP_4: Peripla 65.5 41 0.00089 23.1 7.3 42 5-49 48-89 (257)
143 cd01859 MJ1464 MJ1464. This f 65.4 20 0.00044 23.2 4.8 52 1-53 1-54 (156)
144 PRK08057 cobalt-precorrin-6x r 65.4 21 0.00045 26.1 5.3 44 4-47 56-99 (248)
145 PRK12726 flagellar biosynthesi 65.3 44 0.00096 26.6 7.3 72 13-84 234-311 (407)
146 cd04104 p47_IIGP_like p47 (47- 65.2 15 0.00033 25.1 4.3 40 13-52 80-119 (197)
147 cd03423 SirA SirA (also known 65.1 25 0.00053 20.3 4.8 39 5-46 16-56 (69)
148 PRK15116 sulfur acceptor prote 65.0 41 0.00088 25.0 6.8 52 9-68 117-168 (268)
149 PRK06552 keto-hydroxyglutarate 64.7 16 0.00035 26.1 4.5 48 3-57 79-127 (213)
150 cd07396 MPP_Nbla03831 Homo sap 64.5 14 0.00029 26.7 4.2 51 3-53 30-86 (267)
151 cd03422 YedF YedF is a bacteri 64.5 25 0.00054 20.4 4.6 39 5-46 16-56 (69)
152 COG1363 FrvX Cellulase M and r 63.8 8.7 0.00019 29.8 3.2 29 16-44 256-287 (355)
153 cd01017 AdcA Metal binding pro 63.4 23 0.00051 25.7 5.3 19 29-47 209-227 (282)
154 PF09875 DUF2102: Uncharacteri 63.2 21 0.00046 23.2 4.4 54 16-89 1-56 (104)
155 COG0552 FtsY Signal recognitio 63.1 61 0.0013 25.2 7.6 80 7-88 161-254 (340)
156 COG1880 CdhB CO dehydrogenase/ 63.0 22 0.00048 24.9 4.7 44 5-48 28-71 (170)
157 TIGR02339 thermosome_arch ther 62.9 25 0.00054 28.0 5.7 48 3-55 272-319 (519)
158 TIGR02355 moeB molybdopterin s 62.8 13 0.00027 26.9 3.7 34 13-48 114-147 (240)
159 TIGR01917 gly_red_sel_B glycin 62.5 45 0.00098 26.7 6.9 58 2-63 325-387 (431)
160 PRK05690 molybdopterin biosynt 62.5 10 0.00023 27.3 3.2 34 13-48 122-155 (245)
161 COG1440 CelA Phosphotransferas 62.5 40 0.00086 21.8 7.3 67 16-87 5-72 (102)
162 PF03808 Glyco_tran_WecB: Glyc 62.3 38 0.00083 23.0 5.9 69 21-89 29-102 (172)
163 COG1105 FruK Fructose-1-phosph 62.3 40 0.00087 25.7 6.5 47 13-59 129-178 (310)
164 TIGR00035 asp_race aspartate r 62.2 27 0.00059 24.7 5.3 46 3-52 65-112 (229)
165 PRK00087 4-hydroxy-3-methylbut 62.0 70 0.0015 26.4 8.3 45 7-54 201-246 (647)
166 PRK01889 GTPase RsgA; Reviewed 62.0 11 0.00024 28.8 3.4 27 27-53 129-155 (356)
167 KOG0780|consensus 62.0 55 0.0012 26.4 7.3 80 9-88 125-213 (483)
168 PRK00771 signal recognition pa 61.9 61 0.0013 25.7 7.6 65 8-72 118-186 (437)
169 cd03339 TCP1_epsilon TCP-1 (CT 61.7 30 0.00064 27.7 5.9 46 3-53 277-322 (526)
170 TIGR00715 precor6x_red precorr 61.6 18 0.0004 26.5 4.4 41 6-46 58-98 (256)
171 PF07894 DUF1669: Protein of u 61.2 21 0.00045 27.0 4.7 52 2-53 135-187 (284)
172 cd03015 PRX_Typ2cys Peroxiredo 61.2 46 0.001 22.2 6.9 67 3-71 53-130 (173)
173 PRK09590 celB cellobiose phosp 61.2 13 0.00029 23.7 3.2 34 12-47 49-82 (104)
174 TIGR00283 arch_pth2 peptidyl-t 60.4 39 0.00085 22.0 5.4 67 6-85 42-113 (115)
175 cd01143 YvrC Periplasmic bindi 60.3 44 0.00096 22.1 5.9 48 8-60 55-112 (195)
176 PF04705 TSNR_N: Thiostrepton- 59.9 9.7 0.00021 24.9 2.4 41 6-48 41-81 (115)
177 COG0352 ThiE Thiamine monophos 59.9 29 0.00063 24.9 5.1 55 2-57 24-81 (211)
178 PF05621 TniB: Bacterial TniB 59.9 24 0.00052 26.9 4.9 51 3-53 135-193 (302)
179 PRK10867 signal recognition pa 59.8 51 0.0011 26.2 6.8 59 13-71 129-193 (433)
180 cd06312 PBP1_ABC_sugar_binding 59.6 33 0.00072 23.8 5.4 43 4-48 48-90 (271)
181 cd01885 EF2 EF2 (for archaea a 59.4 24 0.00052 25.2 4.6 51 2-52 87-137 (222)
182 KOG4201|consensus 59.2 27 0.00059 26.0 4.9 54 4-58 151-205 (289)
183 PF02844 GARS_N: Phosphoribosy 59.2 17 0.00036 23.3 3.4 20 31-50 53-72 (100)
184 PRK14721 flhF flagellar biosyn 59.2 31 0.00068 27.3 5.6 60 12-71 220-279 (420)
185 PF02571 CbiJ: Precorrin-6x re 59.1 30 0.00064 25.3 5.1 44 4-47 57-100 (249)
186 cd03018 PRX_AhpE_like Peroxire 59.0 44 0.00095 21.2 7.2 64 3-71 52-124 (149)
187 TIGR03772 anch_rpt_subst ancho 58.9 27 0.00058 28.1 5.2 40 3-44 410-449 (479)
188 PRK00007 elongation factor G; 58.8 37 0.0008 28.2 6.2 51 3-53 90-140 (693)
189 COG2099 CobK Precorrin-6x redu 58.3 25 0.00055 26.3 4.6 56 4-59 57-127 (257)
190 PRK05562 precorrin-2 dehydroge 58.0 15 0.00032 26.6 3.4 35 14-50 86-120 (223)
191 PRK00098 GTPase RsgA; Reviewed 57.8 16 0.00034 27.1 3.6 26 28-53 99-124 (298)
192 PRK06512 thiamine-phosphate py 57.7 49 0.0011 23.6 6.0 55 3-58 30-88 (221)
193 cd01822 Lysophospholipase_L1_l 57.6 43 0.00092 21.7 5.3 44 3-46 91-141 (177)
194 CHL00071 tufA elongation facto 57.5 39 0.00084 26.1 5.8 51 2-52 89-140 (409)
195 PF00535 Glycos_transf_2: Glyc 57.5 18 0.00039 22.3 3.4 85 2-87 13-106 (169)
196 PF00072 Response_reg: Respons 57.4 36 0.00078 20.0 4.7 45 3-47 33-78 (112)
197 TIGR03659 IsdE heme ABC transp 57.4 50 0.0011 23.8 6.1 48 8-60 86-142 (289)
198 cd01016 TroA Metal binding pro 57.2 28 0.0006 25.4 4.8 18 30-47 200-217 (276)
199 PF07498 Rho_N: Rho terminatio 57.2 6 0.00013 21.2 0.9 28 29-56 7-34 (43)
200 PRK00741 prfC peptide chain re 57.2 51 0.0011 26.7 6.6 50 3-52 94-143 (526)
201 TIGR01626 ytfJ_HI0045 conserve 57.0 65 0.0014 22.6 8.2 83 5-87 80-182 (184)
202 COG0050 TufB GTPases - transla 57.0 14 0.0003 28.9 3.1 34 13-47 101-134 (394)
203 PF08862 DUF1829: Domain of un 56.5 19 0.00041 22.2 3.3 38 7-45 47-84 (88)
204 COG0425 SirA Predicted redox p 56.0 21 0.00046 21.5 3.4 39 2-44 22-61 (78)
205 TIGR01182 eda Entner-Doudoroff 55.9 24 0.00053 25.2 4.1 48 3-57 71-119 (204)
206 cd01539 PBP1_GGBP Periplasmic 55.5 44 0.00096 23.9 5.5 41 4-47 48-89 (303)
207 cd06383 PBP1_iGluR_AMPA_Like N 55.4 28 0.00061 26.4 4.7 43 2-46 55-97 (368)
208 cd06295 PBP1_CelR Ligand bindi 55.4 48 0.001 22.9 5.6 40 4-47 55-94 (275)
209 cd04185 GT_2_like_b Subfamily 55.3 38 0.00082 22.4 4.9 82 2-85 12-105 (202)
210 cd06318 PBP1_ABC_sugar_binding 55.2 42 0.00091 23.2 5.3 42 5-48 47-88 (282)
211 cd02968 SCO SCO (an acronym fo 55.0 50 0.0011 20.7 6.0 55 3-58 46-107 (142)
212 TIGR02181 GRX_bact Glutaredoxi 54.9 39 0.00084 19.3 4.9 14 32-45 15-28 (79)
213 COG1168 MalY Bifunctional PLP- 54.8 32 0.00069 27.2 4.9 42 3-44 148-195 (388)
214 cd03343 cpn60 cpn60 chaperonin 54.8 42 0.00092 26.6 5.7 48 3-55 269-316 (517)
215 cd06313 PBP1_ABC_sugar_binding 54.5 49 0.0011 23.1 5.6 43 4-48 46-88 (272)
216 cd03115 SRP The signal recogni 54.2 61 0.0013 21.3 6.0 67 7-73 22-94 (173)
217 COG1105 FruK Fructose-1-phosph 54.0 37 0.00079 26.0 5.0 51 2-61 148-198 (310)
218 TIGR01425 SRP54_euk signal rec 54.0 78 0.0017 25.2 7.0 73 9-83 124-207 (429)
219 PF13905 Thioredoxin_8: Thiore 54.0 43 0.00093 19.6 7.2 66 3-72 24-94 (95)
220 PRK08734 lipid A biosynthesis 53.9 56 0.0012 24.1 6.0 45 2-48 173-231 (305)
221 cd02970 PRX_like2 Peroxiredoxi 53.8 53 0.0012 20.6 7.0 50 5-59 49-99 (149)
222 cd07393 MPP_DR1119 Deinococcus 53.6 36 0.00079 24.0 4.8 49 3-51 25-82 (232)
223 cd06300 PBP1_ABC_sugar_binding 53.5 49 0.0011 22.8 5.4 41 5-47 52-92 (272)
224 PRK10637 cysG siroheme synthas 53.5 30 0.00065 27.3 4.6 36 13-50 72-107 (457)
225 cd01891 TypA_BipA TypA (tyrosi 53.5 30 0.00064 23.3 4.1 49 4-52 81-129 (194)
226 COG1223 Predicted ATPase (AAA+ 53.4 43 0.00092 25.9 5.2 38 32-69 168-218 (368)
227 cd00877 Ran Ran (Ras-related n 53.3 61 0.0013 21.1 6.3 52 40-91 104-165 (166)
228 TIGR03022 WbaP_sugtrans Undeca 53.1 37 0.0008 26.3 5.1 50 4-53 179-229 (456)
229 TIGR02343 chap_CCT_epsi T-comp 53.0 43 0.00093 26.9 5.5 44 3-51 281-324 (532)
230 cd00291 SirA_YedF_YeeD SirA, Y 52.8 28 0.0006 19.6 3.4 40 5-47 16-57 (69)
231 cd03361 TOPRIM_TopoIA_RevGyr T 52.7 72 0.0016 21.8 6.0 45 12-56 117-167 (170)
232 cd01147 HemV-2 Metal binding p 52.6 69 0.0015 22.2 6.0 73 7-86 68-150 (262)
233 cd07402 MPP_GpdQ Enterobacter 52.6 49 0.0011 22.8 5.2 49 3-51 28-81 (240)
234 PRK05647 purN phosphoribosylgl 52.5 42 0.00092 23.6 4.9 42 2-47 15-58 (200)
235 TIGR02634 xylF D-xylose ABC tr 52.4 51 0.0011 23.7 5.4 42 4-47 45-86 (302)
236 cd01537 PBP1_Repressors_Sugar_ 52.4 52 0.0011 22.0 5.2 41 4-47 46-86 (264)
237 cd06267 PBP1_LacI_sugar_bindin 52.4 51 0.0011 22.1 5.2 40 5-48 47-86 (264)
238 PRK06553 lipid A biosynthesis 52.3 49 0.0011 24.5 5.4 22 2-25 194-215 (308)
239 cd04195 GT2_AmsE_like GT2_AmsE 52.3 64 0.0014 21.1 6.7 84 2-85 15-106 (201)
240 TIGR03594 GTPase_EngA ribosome 52.2 34 0.00074 26.0 4.7 49 4-52 247-295 (429)
241 PF13728 TraF: F plasmid trans 52.0 84 0.0018 22.3 7.3 69 3-71 112-194 (215)
242 TIGR00619 sbcd exonuclease Sbc 52.0 37 0.00081 24.5 4.7 46 3-48 29-83 (253)
243 PF01206 TusA: Sulfurtransfera 51.9 15 0.00033 21.0 2.2 38 5-46 17-57 (70)
244 PRK05645 lipid A biosynthesis 51.9 67 0.0015 23.4 6.1 45 2-48 172-230 (295)
245 PF00462 Glutaredoxin: Glutare 51.8 38 0.00083 18.4 4.9 44 4-48 14-57 (60)
246 cd01821 Rhamnogalacturan_acety 51.8 38 0.00082 22.7 4.5 47 3-49 97-155 (198)
247 TIGR00385 dsbE periplasmic pro 51.8 70 0.0015 21.4 6.4 61 7-71 86-148 (173)
248 cd02969 PRX_like1 Peroxiredoxi 51.6 68 0.0015 21.2 6.7 68 4-71 49-120 (171)
249 TIGR03598 GTPase_YsxC ribosome 51.4 58 0.0013 21.5 5.3 22 31-52 120-141 (179)
250 cd01887 IF2_eIF5B IF2/eIF5B (i 51.3 61 0.0013 20.5 7.7 22 32-53 94-115 (168)
251 KOG0368|consensus 51.3 19 0.00041 33.5 3.4 56 14-69 1546-1612(2196)
252 cd06299 PBP1_LacI_like_13 Liga 51.2 54 0.0012 22.4 5.3 41 4-48 46-86 (265)
253 PLN00116 translation elongatio 51.1 40 0.00087 28.8 5.3 75 2-85 112-186 (843)
254 PHA02546 47 endonuclease subun 50.8 38 0.00081 25.5 4.7 49 3-51 29-87 (340)
255 cd04188 DPG_synthase DPG_synth 50.7 73 0.0016 21.3 6.8 80 4-84 14-107 (211)
256 PRK00865 glutamate racemase; P 50.7 94 0.002 22.5 8.1 42 3-47 57-98 (261)
257 KOG2016|consensus 50.4 16 0.00035 29.7 2.7 33 16-49 121-153 (523)
258 cd07395 MPP_CSTP1 Homo sapiens 50.3 44 0.00095 23.7 4.8 51 2-52 36-98 (262)
259 TIGR01918 various_sel_PB selen 50.1 97 0.0021 24.9 6.9 58 2-63 325-387 (431)
260 TIGR00789 flhB_rel flhB C-term 50.0 27 0.00059 21.4 3.2 28 27-57 27-54 (82)
261 PF01497 Peripla_BP_2: Peripla 50.0 60 0.0013 22.0 5.3 48 8-59 55-112 (238)
262 COG2129 Predicted phosphoester 49.9 48 0.001 24.3 4.9 47 2-48 19-72 (226)
263 PRK04435 hypothetical protein; 49.9 76 0.0016 21.2 6.7 70 11-88 67-136 (147)
264 TIGR01470 cysG_Nterm siroheme 49.9 30 0.00065 24.3 3.8 36 13-50 69-104 (205)
265 cd04911 ACT_AKiii-YclM-BS_1 AC 49.7 57 0.0012 19.8 4.6 23 28-50 17-39 (76)
266 cd01137 PsaA Metal binding pro 49.4 55 0.0012 24.0 5.3 18 30-47 216-233 (287)
267 cd06282 PBP1_GntR_like_2 Ligan 49.3 57 0.0012 22.2 5.1 42 4-48 46-87 (266)
268 cd01484 E1-2_like Ubiquitin ac 49.3 33 0.00071 24.8 4.0 35 13-49 91-125 (234)
269 COG4799 Acetyl-CoA carboxylase 49.3 19 0.00041 29.5 3.0 31 27-57 346-384 (526)
270 PRK12739 elongation factor G; 49.1 69 0.0015 26.6 6.3 51 3-53 88-138 (691)
271 cd01895 EngA2 EngA2 subfamily. 49.0 58 0.0012 20.4 4.8 41 13-53 84-126 (174)
272 cd01391 Periplasmic_Binding_Pr 48.9 62 0.0014 21.2 5.1 41 5-48 50-90 (269)
273 PRK04966 hypothetical protein; 48.9 20 0.00043 21.8 2.4 17 2-18 39-55 (72)
274 PF01751 Toprim: Toprim domain 48.9 32 0.00069 21.0 3.4 37 4-40 48-88 (100)
275 PRK08328 hypothetical protein; 48.7 30 0.00065 24.7 3.7 35 13-49 118-152 (231)
276 PRK09545 znuA high-affinity zi 48.7 82 0.0018 23.5 6.2 61 24-85 237-307 (311)
277 PRK05395 3-dehydroquinate dehy 48.6 60 0.0013 22.2 5.0 65 27-91 30-96 (146)
278 cd01423 MGS_CPS_I_III Methylgl 48.5 24 0.00053 22.1 2.9 41 4-44 62-105 (116)
279 PRK06628 lipid A biosynthesis 48.5 64 0.0014 23.6 5.5 45 2-48 175-231 (290)
280 PLN02331 phosphoribosylglycina 48.4 48 0.001 23.6 4.7 42 3-48 14-57 (207)
281 PRK06015 keto-hydroxyglutarate 48.3 28 0.00061 24.8 3.5 48 3-57 67-115 (201)
282 PRK14974 cell division protein 48.1 1.2E+02 0.0026 23.2 7.1 62 7-72 162-233 (336)
283 PRK00304 hypothetical protein; 48.0 21 0.00045 21.9 2.4 17 2-18 38-54 (75)
284 TIGR00160 MGSA methylglyoxal s 48.0 42 0.00091 22.9 4.1 54 4-59 64-124 (143)
285 TIGR00513 accA acetyl-CoA carb 47.7 33 0.00072 26.2 4.0 32 15-46 109-157 (316)
286 TIGR03603 cyclo_dehy_ocin bact 47.6 30 0.00066 26.1 3.7 34 13-46 151-184 (318)
287 cd00958 DhnA Class I fructose- 47.6 42 0.0009 23.6 4.3 43 3-45 80-127 (235)
288 cd06296 PBP1_CatR_like Ligand- 47.3 70 0.0015 21.9 5.3 40 4-48 46-86 (270)
289 PRK13351 elongation factor G; 47.3 59 0.0013 26.9 5.6 51 3-53 88-138 (687)
290 PF01081 Aldolase: KDPG and KH 47.1 40 0.00087 23.9 4.1 48 3-57 71-119 (196)
291 PF07693 KAP_NTPase: KAP famil 47.1 77 0.0017 22.9 5.7 58 4-61 162-225 (325)
292 COG4108 PrfC Peptide chain rel 47.1 68 0.0015 26.2 5.7 60 14-91 108-170 (528)
293 cd01017 AdcA Metal binding pro 46.7 69 0.0015 23.3 5.4 42 2-47 209-250 (282)
294 PRK09259 putative oxalyl-CoA d 46.6 46 0.001 26.7 4.8 45 3-47 204-248 (569)
295 cd01854 YjeQ_engC YjeQ/EngC. 46.6 25 0.00054 25.9 3.1 25 28-52 97-121 (287)
296 cd06322 PBP1_ABC_sugar_binding 46.2 77 0.0017 21.7 5.4 43 4-48 46-88 (267)
297 cd01888 eIF2_gamma eIF2-gamma 46.1 94 0.002 21.2 6.7 83 2-86 97-200 (203)
298 PF01039 Carboxyl_trans: Carbo 46.1 16 0.00036 29.1 2.2 33 15-47 295-336 (493)
299 TIGR01394 TypA_BipA GTP-bindin 46.1 37 0.00079 27.9 4.2 50 3-52 79-128 (594)
300 COG1879 RbsB ABC-type sugar tr 46.1 55 0.0012 23.7 4.8 43 3-48 82-124 (322)
301 PF06794 UPF0270: Uncharacteri 46.0 25 0.00054 21.2 2.5 17 2-18 39-55 (70)
302 COG0800 Eda 2-keto-3-deoxy-6-p 46.0 40 0.00086 24.5 3.9 43 3-52 76-119 (211)
303 cd06301 PBP1_rhizopine_binding 46.0 71 0.0015 22.0 5.2 41 6-48 49-89 (272)
304 COG1503 eRF1 Peptide chain rel 45.9 78 0.0017 25.2 5.8 22 3-24 301-322 (411)
305 TIGR01689 EcbF-BcbF capsule bi 45.9 55 0.0012 21.5 4.4 16 31-46 68-83 (126)
306 cd06294 PBP1_ycjW_transcriptio 45.8 76 0.0016 21.7 5.3 40 4-48 51-91 (270)
307 cd07388 MPP_Tt1561 Thermus the 45.8 63 0.0014 23.2 5.0 47 4-50 22-72 (224)
308 PRK08322 acetolactate synthase 45.7 56 0.0012 25.9 5.1 45 3-47 187-231 (547)
309 PRK06946 lipid A biosynthesis 45.7 21 0.00045 26.3 2.5 44 2-47 170-227 (293)
310 cd06292 PBP1_LacI_like_10 Liga 45.6 70 0.0015 22.0 5.1 45 4-48 46-91 (273)
311 cd01540 PBP1_arabinose_binding 45.5 66 0.0014 22.4 5.0 38 7-47 48-86 (289)
312 PRK10966 exonuclease subunit S 45.5 55 0.0012 25.5 4.9 47 3-49 29-83 (407)
313 cd04934 ACT_AK-Hom3_1 CT domai 45.4 60 0.0013 19.0 4.1 50 27-87 16-66 (73)
314 cd06273 PBP1_GntR_like_1 This 45.3 85 0.0018 21.4 5.5 40 4-48 46-86 (268)
315 cd04196 GT_2_like_d Subfamily 45.3 85 0.0019 20.5 7.5 80 3-83 14-103 (214)
316 PRK02228 V-type ATP synthase s 45.2 74 0.0016 19.9 4.8 34 10-44 41-74 (100)
317 PRK08762 molybdopterin biosynt 45.2 33 0.00071 26.2 3.6 35 13-49 225-259 (376)
318 COG0541 Ffh Signal recognition 45.1 1.3E+02 0.0028 24.3 7.0 76 7-82 122-206 (451)
319 PRK11148 cyclic 3',5'-adenosin 45.1 70 0.0015 23.0 5.2 48 3-50 43-95 (275)
320 PF13545 HTH_Crp_2: Crp-like h 45.0 15 0.00032 21.0 1.4 35 28-62 3-44 (76)
321 PRK06030 hypothetical protein; 45.0 2.8 6E-05 27.9 -2.0 45 47-91 70-120 (124)
322 cd06281 PBP1_LacI_like_5 Ligan 45.0 67 0.0014 22.2 5.0 42 4-48 46-87 (269)
323 cd02979 PHOX_C FAD-dependent P 44.8 32 0.0007 23.4 3.2 33 10-42 26-58 (167)
324 cd03009 TryX_like_TryX_NRX Try 44.8 76 0.0017 19.8 6.0 65 13-81 53-122 (131)
325 cd06278 PBP1_LacI_like_2 Ligan 44.7 87 0.0019 21.2 5.5 40 4-48 45-85 (266)
326 cd01889 SelB_euk SelB subfamil 44.6 59 0.0013 21.7 4.5 19 34-52 114-132 (192)
327 cd03334 Fab1_TCP TCP-1 like do 44.5 94 0.002 22.6 5.8 48 3-55 120-167 (261)
328 PRK07525 sulfoacetaldehyde ace 44.5 56 0.0012 26.4 5.0 45 2-46 190-234 (588)
329 cd03028 GRX_PICOT_like Glutare 44.5 69 0.0015 19.2 5.3 30 30-59 27-62 (90)
330 cd01487 E1_ThiF_like E1_ThiF_l 44.3 40 0.00087 22.9 3.7 33 13-47 88-121 (174)
331 PRK07114 keto-hydroxyglutarate 44.2 54 0.0012 23.7 4.4 49 3-58 82-131 (222)
332 TIGR00436 era GTP-binding prot 44.0 40 0.00088 24.2 3.8 84 3-88 71-167 (270)
333 COG1794 RacX Aspartate racemas 43.9 81 0.0018 23.2 5.3 54 4-62 66-121 (230)
334 cd01028 TOPRIM_TopoIA TOPRIM_T 43.9 88 0.0019 20.4 5.2 50 6-56 84-139 (142)
335 cd03418 GRX_GRXb_1_3_like Glut 43.6 59 0.0013 18.1 5.4 16 31-46 15-30 (75)
336 PRK08905 lipid A biosynthesis 43.4 58 0.0013 23.8 4.6 45 2-48 161-219 (289)
337 cd03027 GRX_DEP Glutaredoxin ( 43.4 61 0.0013 18.3 5.4 42 16-59 3-50 (73)
338 cd06308 PBP1_sensor_kinase_lik 43.3 78 0.0017 21.8 5.1 41 6-48 49-89 (270)
339 TIGR00639 PurN phosphoribosylg 43.3 74 0.0016 22.2 4.9 42 2-47 14-57 (190)
340 PRK07688 thiamine/molybdopteri 43.3 40 0.00087 25.6 3.8 39 13-53 116-154 (339)
341 cd07392 MPP_PAE1087 Pyrobaculu 43.2 52 0.0011 21.4 4.0 43 8-51 18-63 (188)
342 PRK08199 thiamine pyrophosphat 43.1 69 0.0015 25.6 5.3 43 3-45 195-237 (557)
343 PRK06965 acetolactate synthase 43.0 62 0.0013 26.1 5.1 44 3-46 212-255 (587)
344 TIGR02194 GlrX_NrdH Glutaredox 43.0 63 0.0014 18.3 3.9 9 37-45 20-28 (72)
345 KOG0465|consensus 42.8 26 0.00056 29.6 2.9 56 2-57 118-174 (721)
346 COG2870 RfaE ADP-heptose synth 42.7 43 0.00094 27.0 4.0 47 12-59 142-206 (467)
347 TIGR00530 AGP_acyltrn 1-acyl-s 42.6 65 0.0014 19.7 4.2 46 2-47 79-128 (130)
348 cd01489 Uba2_SUMO Ubiquitin ac 42.6 46 0.00099 25.3 4.0 36 13-50 90-125 (312)
349 PRK10610 chemotaxis regulatory 42.4 65 0.0014 18.3 5.9 81 6-86 43-126 (129)
350 PRK00093 GTP-binding protein D 42.3 46 0.001 25.5 4.1 79 4-83 73-160 (435)
351 PRK09545 znuA high-affinity zi 42.2 74 0.0016 23.7 5.1 41 2-46 241-281 (311)
352 PRK12736 elongation factor Tu; 42.2 46 0.00099 25.6 4.0 50 2-51 89-139 (394)
353 cd04795 SIS SIS domain. SIS (S 42.1 66 0.0014 18.3 7.2 69 17-87 2-73 (87)
354 COG1861 SpsF Spore coat polysa 42.0 88 0.0019 23.2 5.3 53 1-57 30-85 (241)
355 cd06309 PBP1_YtfQ_like Peripla 42.0 75 0.0016 21.9 4.9 42 5-48 47-88 (273)
356 cd06270 PBP1_GalS_like Ligand 41.9 94 0.002 21.3 5.3 40 4-48 46-86 (268)
357 PRK05724 acetyl-CoA carboxylas 41.5 47 0.001 25.5 3.9 33 14-46 108-157 (319)
358 PRK15408 autoinducer 2-binding 41.4 88 0.0019 23.4 5.4 39 7-48 75-113 (336)
359 cd01892 Miro2 Miro2 subfamily. 41.3 33 0.00072 22.5 2.8 72 13-85 77-166 (169)
360 cd06380 PBP1_iGluR_AMPA N-term 41.3 61 0.0013 24.0 4.5 41 2-46 52-92 (382)
361 cd00881 GTP_translation_factor 41.3 96 0.0021 19.9 6.0 23 31-53 105-127 (189)
362 TIGR00157 ribosome small subun 41.2 38 0.00083 24.3 3.3 25 28-52 55-79 (245)
363 PF12850 Metallophos_2: Calcin 41.2 67 0.0015 20.2 4.2 40 4-51 18-58 (156)
364 PRK15494 era GTPase Era; Provi 41.1 59 0.0013 24.5 4.5 84 3-86 123-217 (339)
365 PF07157 DNA_circ_N: DNA circu 41.1 41 0.0009 21.2 3.1 46 38-86 30-75 (93)
366 PRK07377 hypothetical protein; 41.0 54 0.0012 23.3 3.9 54 12-65 75-135 (184)
367 TIGR03254 oxalate_oxc oxalyl-C 40.9 66 0.0014 25.7 4.9 45 3-47 197-241 (554)
368 COG1803 MgsA Methylglyoxal syn 40.9 91 0.002 21.2 4.8 57 4-62 66-129 (142)
369 PRK12475 thiamine/molybdopteri 40.9 48 0.001 25.2 3.9 34 13-48 116-149 (338)
370 PRK06860 lipid A biosynthesis 40.9 72 0.0016 23.5 4.8 45 2-48 184-243 (309)
371 cd04147 Ras_dva Ras-dva subfam 40.7 1.1E+02 0.0024 20.5 5.6 73 13-85 70-163 (198)
372 cd03363 TOPRIM_TopoIA_TopoI TO 40.6 84 0.0018 20.3 4.6 44 12-56 71-120 (123)
373 cd05017 SIS_PGI_PMI_1 The memb 40.1 77 0.0017 19.8 4.3 43 16-59 47-89 (119)
374 cd06379 PBP1_iGluR_NMDA_NR1 N- 40.1 88 0.0019 23.2 5.2 42 5-46 72-115 (377)
375 COG2257 Uncharacterized homolo 40.0 44 0.00095 21.2 3.0 40 12-57 20-59 (92)
376 cd06285 PBP1_LacI_like_7 Ligan 39.9 1.1E+02 0.0024 20.9 5.4 40 4-48 46-86 (265)
377 PLN02775 Probable dihydrodipic 39.9 1.6E+02 0.0035 22.2 6.9 53 4-58 70-125 (286)
378 PRK08978 acetolactate synthase 39.8 72 0.0016 25.4 4.9 44 3-46 187-230 (548)
379 PRK05597 molybdopterin biosynt 39.7 48 0.001 25.3 3.8 33 13-47 118-150 (355)
380 TIGR00583 mre11 DNA repair pro 39.7 82 0.0018 24.8 5.1 22 3-24 32-53 (405)
381 cd06321 PBP1_ABC_sugar_binding 39.7 1E+02 0.0022 21.2 5.2 40 6-48 50-90 (271)
382 COG2961 ComJ Protein involved 39.6 54 0.0012 24.8 3.9 52 35-86 130-181 (279)
383 cd04501 SGNH_hydrolase_like_4 39.6 47 0.001 21.8 3.4 47 3-49 86-147 (183)
384 PF04430 DUF498: Protein of un 39.6 96 0.0021 19.5 5.0 48 4-51 42-91 (110)
385 PF02472 ExbD: Biopolymer tran 39.6 95 0.0021 19.4 5.0 37 15-51 94-130 (130)
386 cd06289 PBP1_MalI_like Ligand- 39.5 1.1E+02 0.0023 20.9 5.2 41 4-47 46-86 (268)
387 TIGR02637 RhaS rhamnose ABC tr 39.2 1.1E+02 0.0023 21.7 5.4 40 6-47 49-88 (302)
388 COG1671 Uncharacterized protei 39.2 42 0.00092 23.1 3.1 52 17-73 4-55 (150)
389 cd00466 DHQase_II Dehydroquina 39.1 96 0.0021 21.1 4.8 65 27-91 28-94 (140)
390 TIGR02740 TraF-like TraF-like 38.9 1.6E+02 0.0034 21.7 7.0 66 4-69 159-238 (271)
391 cd06316 PBP1_ABC_sugar_binding 38.9 1E+02 0.0022 21.7 5.2 37 8-47 51-88 (294)
392 cd03362 TOPRIM_TopoIA_TopoIII 38.8 1.1E+02 0.0023 20.3 5.0 50 6-56 92-148 (151)
393 PRK12735 elongation factor Tu; 38.8 43 0.00094 25.7 3.4 51 2-52 89-140 (396)
394 COG1535 EntB Isochorismate hyd 38.7 30 0.00064 25.1 2.3 18 29-46 60-77 (218)
395 cd06423 CESA_like CESA_like is 38.6 91 0.002 18.9 6.6 78 2-80 12-99 (180)
396 cd01574 PBP1_LacI Ligand-bindi 38.6 1.2E+02 0.0025 20.7 5.4 41 4-48 47-87 (264)
397 PF04414 tRNA_deacylase: D-ami 38.3 60 0.0013 23.4 3.9 41 4-44 172-212 (213)
398 PTZ00175 diphthine synthase; P 38.3 1.6E+02 0.0035 21.7 7.9 66 19-85 83-156 (270)
399 PRK07789 acetolactate synthase 38.2 78 0.0017 25.7 5.0 44 3-46 222-265 (612)
400 PRK02627 acetylornithine amino 38.2 63 0.0014 24.0 4.2 43 11-53 180-229 (396)
401 cd02983 P5_C P5 family, C-term 38.2 64 0.0014 21.0 3.8 45 43-87 4-56 (130)
402 PRK03692 putative UDP-N-acetyl 38.1 1.4E+02 0.003 21.8 5.8 65 23-87 88-156 (243)
403 COG2877 KdsA 3-deoxy-D-manno-o 38.0 1.7E+02 0.0037 22.0 6.3 66 12-84 14-87 (279)
404 cd06274 PBP1_FruR Ligand bindi 37.9 1.2E+02 0.0026 20.7 5.3 39 5-48 47-86 (264)
405 TIGR01766 tspaseT_teng_C trans 37.9 39 0.00083 19.8 2.5 22 27-48 57-78 (82)
406 cd06351 PBP1_iGluR_N_LIVBP_lik 37.9 91 0.002 22.0 4.8 42 3-47 53-94 (328)
407 cd01141 TroA_d Periplasmic bin 37.8 1.2E+02 0.0026 20.0 6.8 46 8-57 64-119 (186)
408 COG0028 IlvB Thiamine pyrophos 37.7 70 0.0015 26.0 4.6 45 2-46 190-234 (550)
409 PLN03126 Elongation factor Tu; 37.7 87 0.0019 25.1 5.1 50 2-51 158-208 (478)
410 PRK07418 acetolactate synthase 37.7 81 0.0018 25.6 5.0 43 3-45 215-257 (616)
411 PF00532 Peripla_BP_1: Peripla 37.7 1.2E+02 0.0027 21.8 5.6 42 4-49 47-88 (279)
412 cd06324 PBP1_ABC_sugar_binding 37.7 96 0.0021 22.2 5.0 40 6-48 49-90 (305)
413 cd06389 PBP1_iGluR_AMPA_GluR2 37.6 69 0.0015 24.1 4.3 42 2-47 47-88 (370)
414 PRK08155 acetolactate synthase 37.5 83 0.0018 25.2 5.0 43 3-45 202-244 (564)
415 cd00840 MPP_Mre11_N Mre11 nucl 37.4 97 0.0021 20.8 4.7 47 3-49 31-85 (223)
416 PRK03244 argD acetylornithine 37.4 74 0.0016 23.8 4.5 36 11-46 181-223 (398)
417 PRK07710 acetolactate synthase 37.4 89 0.0019 25.1 5.1 45 3-47 206-250 (571)
418 PRK13010 purU formyltetrahydro 37.3 80 0.0017 23.6 4.6 38 4-47 109-148 (289)
419 cd06311 PBP1_ABC_sugar_binding 37.3 1.3E+02 0.0027 20.8 5.4 41 4-47 51-92 (274)
420 PRK06153 hypothetical protein; 37.3 51 0.0011 26.0 3.6 40 12-53 265-304 (393)
421 cd06319 PBP1_ABC_sugar_binding 37.0 1.2E+02 0.0025 20.9 5.2 38 8-47 50-87 (277)
422 KOG0540|consensus 37.0 27 0.00058 28.5 2.1 30 28-57 372-409 (536)
423 TIGR02418 acolac_catab acetola 37.0 91 0.002 24.7 5.1 44 3-46 186-229 (539)
424 cd03010 TlpA_like_DsbE TlpA-li 37.0 1E+02 0.0022 19.0 6.9 55 13-71 55-111 (127)
425 cd01019 ZnuA Zinc binding prot 37.0 1E+02 0.0022 22.6 5.0 24 23-47 212-235 (286)
426 cd03335 TCP1_alpha TCP-1 (CTT 37.0 1.2E+02 0.0026 24.2 5.8 40 4-48 265-304 (527)
427 cd07383 MPP_Dcr2 Saccharomyces 36.9 1.2E+02 0.0026 20.5 5.2 47 5-51 33-87 (199)
428 cd06367 PBP1_iGluR_NMDA N-term 36.8 67 0.0014 23.6 4.1 43 3-46 53-96 (362)
429 PRK10850 PTS system phosphohis 36.8 87 0.0019 19.1 4.0 58 30-87 20-84 (85)
430 cd04890 ACT_AK-like_1 ACT doma 36.8 73 0.0016 17.3 4.8 47 27-84 15-61 (62)
431 PRK07979 acetolactate synthase 36.7 91 0.002 25.1 5.1 44 3-46 197-240 (574)
432 PRK13015 3-dehydroquinate dehy 36.6 91 0.002 21.4 4.4 65 27-91 30-96 (146)
433 PRK05291 trmE tRNA modificatio 36.6 1.5E+02 0.0032 23.4 6.2 73 14-86 295-371 (449)
434 cd01832 SGNH_hydrolase_like_1 36.6 1.2E+02 0.0026 19.7 5.3 47 3-49 95-154 (185)
435 PRK01395 V-type ATP synthase s 36.5 60 0.0013 20.6 3.3 45 4-50 36-81 (104)
436 PRK08025 lipid A biosynthesis 36.5 82 0.0018 23.1 4.5 44 2-47 182-240 (305)
437 PF00218 IGPS: Indole-3-glycer 36.4 99 0.0021 22.8 4.9 55 4-59 123-178 (254)
438 CHL00099 ilvB acetohydroxyacid 36.4 87 0.0019 25.3 4.9 43 3-45 208-250 (585)
439 cd01542 PBP1_TreR_like Ligand- 36.4 1.3E+02 0.0029 20.3 5.3 40 4-47 46-85 (259)
440 TIGR03436 acidobact_VWFA VWFA- 36.4 1.6E+02 0.0035 21.2 6.6 70 15-86 166-256 (296)
441 TIGR03013 EpsB_2 sugar transfe 36.4 1E+02 0.0023 23.9 5.3 49 4-52 177-225 (442)
442 COG2401 ABC-type ATPase fused 36.3 53 0.0011 27.0 3.6 38 27-64 545-582 (593)
443 cd04103 Centaurin_gamma Centau 36.3 71 0.0015 20.8 3.8 16 39-54 98-113 (158)
444 cd00880 Era_like Era (E. coli 36.3 98 0.0021 18.6 4.7 20 33-52 97-116 (163)
445 cd06305 PBP1_methylthioribose_ 36.2 1.3E+02 0.0028 20.5 5.3 42 5-48 47-88 (273)
446 cd01475 vWA_Matrilin VWA_Matri 36.1 1.3E+02 0.0027 21.0 5.2 59 14-72 109-171 (224)
447 cd06298 PBP1_CcpA_like Ligand- 36.1 1.3E+02 0.0029 20.4 5.3 39 4-47 46-85 (268)
448 PRK07920 lipid A biosynthesis 36.1 1.3E+02 0.0029 22.0 5.5 45 2-48 172-229 (298)
449 TIGR01056 topB DNA topoisomera 36.0 98 0.0021 25.8 5.3 59 3-61 85-150 (660)
450 cd01545 PBP1_SalR Ligand-bindi 36.0 1.2E+02 0.0026 20.7 5.1 42 4-48 47-88 (270)
451 cd04117 Rab15 Rab15 subfamily. 36.0 38 0.00082 21.9 2.4 41 14-54 73-119 (161)
452 cd06320 PBP1_allose_binding Pe 35.9 1.2E+02 0.0025 21.0 5.0 41 6-48 50-90 (275)
453 PRK06048 acetolactate synthase 35.9 88 0.0019 25.0 4.9 45 2-46 197-241 (561)
454 PLN02828 formyltetrahydrofolat 35.8 82 0.0018 23.5 4.4 44 3-47 85-130 (268)
455 cd07385 MPP_YkuE_C Bacillus su 35.7 95 0.0021 21.0 4.5 48 3-50 22-73 (223)
456 PRK05290 hybrid cluster protei 35.7 1.1E+02 0.0023 25.3 5.4 88 2-89 380-480 (546)
457 cd00761 Glyco_tranf_GTA_type G 35.5 90 0.0019 18.4 4.0 36 2-38 12-50 (156)
458 PRK01189 V-type ATP synthase s 35.5 74 0.0016 20.3 3.6 21 3-23 35-55 (104)
459 TIGR01117 mmdA methylmalonyl-C 35.5 60 0.0013 26.2 3.9 32 15-46 316-356 (512)
460 cd01898 Obg Obg subfamily. Th 35.5 1.2E+02 0.0025 19.3 6.9 14 39-52 113-126 (170)
461 cd00378 SHMT Serine-glycine hy 35.5 73 0.0016 23.8 4.2 45 3-47 151-196 (402)
462 cd01019 ZnuA Zinc binding prot 35.2 1.8E+02 0.0039 21.3 6.2 41 2-46 217-257 (286)
463 cd03008 TryX_like_RdCVF Trypar 35.1 1.4E+02 0.003 20.0 6.2 56 13-72 65-124 (146)
464 TIGR02663 nifX nitrogen fixati 35.1 33 0.00072 21.9 2.0 24 68-91 91-114 (119)
465 TIGR01088 aroQ 3-dehydroquinat 34.6 1.3E+02 0.0027 20.6 4.8 65 27-91 28-94 (141)
466 PF07293 DUF1450: Protein of u 34.6 75 0.0016 19.4 3.4 49 37-89 25-77 (78)
467 cd06323 PBP1_ribose_binding Pe 34.6 1.3E+02 0.0029 20.4 5.1 43 4-48 46-88 (268)
468 TIGR00067 glut_race glutamate 34.6 1.8E+02 0.0039 21.1 6.3 49 3-54 50-101 (251)
469 TIGR02207 lipid_A_htrB lipid A 34.4 1.2E+02 0.0025 22.3 5.0 45 2-48 178-237 (303)
470 PRK05600 thiamine biosynthesis 34.4 62 0.0013 24.9 3.7 33 13-47 131-163 (370)
471 PRK08644 thiamine biosynthesis 34.4 69 0.0015 22.6 3.7 33 13-47 117-150 (212)
472 PF10281 Ish1: Putative stress 34.3 32 0.0007 17.7 1.5 26 31-56 8-34 (38)
473 CHL00198 accA acetyl-CoA carbo 34.3 72 0.0016 24.5 3.9 32 15-46 112-160 (322)
474 COG1707 ACT domain-containing 34.2 1.3E+02 0.0027 21.7 4.9 43 4-46 131-174 (218)
475 TIGR00655 PurU formyltetrahydr 34.1 93 0.002 23.1 4.5 40 3-48 99-140 (280)
476 PLN02721 threonine aldolase 34.1 1.3E+02 0.0028 21.8 5.2 33 13-45 137-176 (353)
477 PF00118 Cpn60_TCP1: TCP-1/cpn 34.0 39 0.00086 26.0 2.6 51 3-58 235-288 (485)
478 cd04109 Rab28 Rab28 subfamily. 34.0 1.5E+02 0.0034 20.2 6.3 76 14-89 74-170 (215)
479 cd06271 PBP1_AglR_RafR_like Li 34.0 1.4E+02 0.003 20.2 5.1 40 4-47 50-89 (268)
480 PRK00049 elongation factor Tu; 34.0 63 0.0014 24.9 3.7 49 2-50 89-138 (396)
481 PF03129 HGTP_anticodon: Antic 33.8 1E+02 0.0022 18.1 4.7 48 2-53 18-65 (94)
482 PTZ00125 ornithine aminotransf 33.7 84 0.0018 23.5 4.3 42 4-45 169-217 (400)
483 cd06268 PBP1_ABC_transporter_L 33.7 1.1E+02 0.0023 20.8 4.5 40 5-47 58-97 (298)
484 PRK12436 UDP-N-acetylenolpyruv 33.7 47 0.001 24.9 2.9 35 11-48 34-68 (305)
485 PRK07878 molybdopterin biosynt 33.7 63 0.0014 24.9 3.6 40 13-54 132-171 (392)
486 PRK06718 precorrin-2 dehydroge 33.5 1.1E+02 0.0024 21.4 4.6 35 13-50 70-104 (202)
487 smart00513 SAP Putative DNA-bi 33.4 51 0.0011 16.5 2.2 22 30-53 7-28 (35)
488 KOG3022|consensus 33.4 1.3E+02 0.0029 23.0 5.2 52 33-86 241-293 (300)
489 PF00875 DNA_photolyase: DNA p 33.4 1.2E+02 0.0025 20.0 4.5 39 3-46 56-94 (165)
490 TIGR03457 sulphoacet_xsc sulfo 33.3 1.1E+02 0.0023 24.7 5.0 44 3-46 187-230 (579)
491 TIGR02015 BchY chlorophyllide 33.3 1.1E+02 0.0025 23.9 5.0 45 3-47 76-122 (422)
492 TIGR03594 GTPase_EngA ribosome 33.2 77 0.0017 24.1 4.0 80 3-85 70-160 (429)
493 cd04102 RabL3 RabL3 (Rab-like3 33.2 36 0.00078 23.8 2.1 16 39-54 128-143 (202)
494 TIGR00040 yfcE phosphoesterase 33.1 1.2E+02 0.0027 19.6 4.6 45 3-51 17-62 (158)
495 COG1537 PelA Predicted RNA-bin 33.0 1.5E+02 0.0033 23.1 5.6 65 2-67 277-347 (352)
496 PRK10936 TMAO reductase system 33.0 1.3E+02 0.0028 22.2 5.1 38 6-46 97-134 (343)
497 PF06897 DUF1269: Protein of u 32.9 71 0.0015 20.3 3.2 39 2-44 45-83 (102)
498 TIGR00287 cas1 CRISPR-associat 32.9 49 0.0011 24.7 2.8 41 14-57 35-76 (323)
499 COG0803 LraI ABC-type metal io 32.9 66 0.0014 23.9 3.5 38 21-59 223-266 (303)
500 PRK09453 phosphodiesterase; Pr 32.8 1.1E+02 0.0025 20.4 4.5 49 3-51 17-74 (182)
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=99.92 E-value=2.1e-24 Score=142.08 Aligned_cols=87 Identities=36% Similarity=0.615 Sum_probs=79.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
+++|+++|++|+++|||||+|++|.+++++++.+|++++|||++++|+++||++||++++.+++.+.+.|..+..+++|.
T Consensus 31 ~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~svvaI~d~g~a~~~~~~~~ 110 (117)
T TIGR03677 31 TNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAASAAIVDEGKAEELLKEII 110 (117)
T ss_pred HHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEEchhhhHHHHHHHH
Confidence 58999999999999999999999977889999999999999999999999999999986666666667788899999999
Q ss_pred HHhhcCC
Q psy6265 82 QEIGALP 88 (91)
Q Consensus 82 ~~~~~~~ 88 (91)
++|++|.
T Consensus 111 ~~i~~~~ 117 (117)
T TIGR03677 111 EKVEALK 117 (117)
T ss_pred HHHHhcC
Confidence 9998863
No 2
>KOG3167|consensus
Probab=99.92 E-value=1e-24 Score=146.77 Aligned_cols=89 Identities=46% Similarity=0.867 Sum_probs=87.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
+|+|.|.+++|+-+++|||+|++|.++.+|||.+|++++|||+|+.|+++||.|.|.+++++|+++..+++|++.||++.
T Consensus 64 vKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~psk~dlg~A~~~krpt~~v~v~p~~eyke~ydev~ 143 (153)
T KOG3167|consen 64 VKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTPSKEDLGAAGGTKRPTCCVFVKPGGEYKELYDEVL 143 (153)
T ss_pred HHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCccccccHHHHHHhcCCCCCceEEEEeeChhHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCCCC
Q psy6265 82 QEIGALPVT 90 (91)
Q Consensus 82 ~~~~~~~~~ 90 (91)
++++.|+++
T Consensus 144 eel~~l~~~ 152 (153)
T KOG3167|consen 144 EELEALAVE 152 (153)
T ss_pred HHHHhhccC
Confidence 999999876
No 3
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.91 E-value=9.1e-24 Score=140.00 Aligned_cols=86 Identities=36% Similarity=0.652 Sum_probs=78.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
++||+++|++|+++|||||+|++|.+++++++.+|++++|||++++|+++||+|||++++.+++.+.+.|..+..++.|.
T Consensus 35 ~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~eLG~a~Gk~~~~svvaI~d~g~a~~~~~~~~ 114 (122)
T PRK04175 35 TNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAAAAIVDAGKAKELVEDIV 114 (122)
T ss_pred HHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCeEEEEEechhhhHHHHHHHH
Confidence 58999999999999999999999977889999999999999999999999999999997666666667788899999999
Q ss_pred HHhhcC
Q psy6265 82 QEIGAL 87 (91)
Q Consensus 82 ~~~~~~ 87 (91)
+.++.+
T Consensus 115 ~~i~~~ 120 (122)
T PRK04175 115 EKVNEL 120 (122)
T ss_pred HHHHHh
Confidence 988765
No 4
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.90 E-value=1.3e-23 Score=153.36 Aligned_cols=86 Identities=22% Similarity=0.476 Sum_probs=82.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
.++|+++|++|+++|||||+|+||++++.+|+.+|++++|||++++||++||+++|+++++++++++.++|++.+|++++
T Consensus 137 ~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkKtravVAItD~g~ed~~~l~~lv 216 (263)
T PTZ00222 137 LQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAITDVNAEDEAALKNLI 216 (263)
T ss_pred HHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCCCCeEEEEeeCCcccHHHHHHHH
Confidence 47899999999999999999999999989999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcC
Q psy6265 82 QEIGAL 87 (91)
Q Consensus 82 ~~~~~~ 87 (91)
+.++..
T Consensus 217 ~~~~~~ 222 (263)
T PTZ00222 217 RSVNAR 222 (263)
T ss_pred HHHHHh
Confidence 988753
No 5
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=5.1e-23 Score=135.58 Aligned_cols=71 Identities=38% Similarity=0.709 Sum_probs=66.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
+|+|+|+|++|+++|||||+|++|.+++.|++.+|++++|||++++|+.+||+|+|++.+.++++++.+-.
T Consensus 32 ~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~LG~a~g~~~~~vv~i~~~~~~ 102 (116)
T COG1358 32 TNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVGKEVRKVVAIVDKGFA 102 (116)
T ss_pred HHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcceeEEEeehhhh
Confidence 58999999999999999999999889999999999999999999999999999999998887888877654
No 6
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.89 E-value=4.7e-23 Score=129.05 Aligned_cols=66 Identities=21% Similarity=0.308 Sum_probs=62.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
+|||+|+|++|++++||||.|++| .++.|++.+|+++||||+|++||.+||+|||+++.++++.+.
T Consensus 18 ~kqt~Kai~kg~~~~v~iA~Da~~-~vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 18 LKETLKALKKDQVTSLIIAEDVEV-YLMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred HHHHHHHHhcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence 589999999999999999999999 688999999999999999999999999999999998877654
No 7
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.89 E-value=7.6e-23 Score=149.57 Aligned_cols=86 Identities=27% Similarity=0.579 Sum_probs=82.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
+|+|+++|++|+++|||||+|+||++++.+++++|++++|||++++|+++||+++|++.++++++++...|++.+|++++
T Consensus 137 in~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkktraVVAItdV~~EDk~~l~~lv 216 (266)
T PTZ00365 137 LNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQKTAAVVAIDNVRKEDQAEFDNLC 216 (266)
T ss_pred hHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHHhCCCCceEEEecccCHHHHHHHHHHH
Confidence 58999999999999999999999999999899999999999999999999999999999999999999999999999999
Q ss_pred HHhhcC
Q psy6265 82 QEIGAL 87 (91)
Q Consensus 82 ~~~~~~ 87 (91)
+.+++.
T Consensus 217 ~~~~~~ 222 (266)
T PTZ00365 217 KNFRAM 222 (266)
T ss_pred HHHHHh
Confidence 998764
No 8
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.88 E-value=2.7e-22 Score=124.91 Aligned_cols=66 Identities=23% Similarity=0.356 Sum_probs=62.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
.+||+|+|++|++++||||+|++| +++++++.+|++++||+++++|++|||+|||+++.++++.+.
T Consensus 16 ~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 16 TKQTVKALKRGSVKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred HHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence 589999999999999999999999 689999999999999999999999999999999998877664
No 9
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.88 E-value=3.4e-22 Score=124.68 Aligned_cols=68 Identities=15% Similarity=0.255 Sum_probs=63.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST 70 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~ 70 (91)
.++|+++|++|+++|||||+|+++ ++++++.++|++++||+++++|+.|||+|||++++++++.+.-+
T Consensus 13 ~~~vlkaIk~gkakLViiA~Da~~-~~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~~ 80 (82)
T PRK13601 13 AKQTLKAITNCNVLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADIIG 80 (82)
T ss_pred hHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEeec
Confidence 489999999999999999999998 78999999999999999999999999999999999888777544
No 10
>PRK06683 hypothetical protein; Provisional
Probab=99.87 E-value=9.7e-22 Score=122.50 Aligned_cols=66 Identities=12% Similarity=0.178 Sum_probs=61.9
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
.+||+|+|++|++++||||+|++| ++.+++.++|++++||+++++|+.|||+|||+++.++++.+.
T Consensus 16 ~~~v~kaik~gkaklViiA~Da~~-~~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~ 81 (82)
T PRK06683 16 HKRTLEAIKNGIVKEVVIAEDADM-RLTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGII 81 (82)
T ss_pred HHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEe
Confidence 479999999999999999999999 688999999999999999999999999999999998877764
No 11
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.84 E-value=1.6e-20 Score=120.45 Aligned_cols=70 Identities=13% Similarity=0.143 Sum_probs=60.0
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
.++|+++|++|++++||||+|+++ +++++++.+|++++||++. .+|++|||+|||++++++++.+.+.|.
T Consensus 21 ~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~vaI~D~G~ 91 (99)
T PRK01018 21 SKRTIKAIKLGKAKLVIVASNCPK-DIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSALAIVDPGE 91 (99)
T ss_pred HHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEEEEEecCCH
Confidence 579999999999999999999988 7899999999999999866 489999999999997644444444443
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=99.82 E-value=3.6e-20 Score=116.51 Aligned_cols=74 Identities=38% Similarity=0.684 Sum_probs=67.0
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~ 75 (91)
++||.++|++|++++||+|+|++|.....|++.+|++++|||++++|+.+||+++|+++.++++++.++++...
T Consensus 20 ~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~~~~~i~d~~~a~~ 93 (95)
T PF01248_consen 20 IKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPVSALAIKDAGDAKI 93 (95)
T ss_dssp HHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTSSEEEEEESTTHHH
T ss_pred hHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcEEEEEEECcccchh
Confidence 58999999999999999999999987777799999999999999999999999999998777777777776543
No 13
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.82 E-value=8.7e-20 Score=118.84 Aligned_cols=70 Identities=13% Similarity=0.142 Sum_probs=62.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
.++|+++|++|++++||||+|+++ +.++++..+|+.++||++. .+|++|||+|||++++++++.+.+.|.
T Consensus 30 ~~~vlkalk~gkaklViiA~D~~~-~~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~r~svvaI~D~G~ 100 (108)
T PTZ00106 30 TKSTLKALRNGKAKLVIISNNCPP-IRRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHFRVSVMSITDAGD 100 (108)
T ss_pred HHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCccCeEEEEEeCcch
Confidence 479999999999999999999999 6789999999999999974 699999999999999886555555554
No 14
>PRK07714 hypothetical protein; Provisional
Probab=99.81 E-value=1.5e-19 Score=115.76 Aligned_cols=67 Identities=13% Similarity=0.348 Sum_probs=60.9
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS 69 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~ 69 (91)
.++|.++|++|++++||+|+|++| +.++++..+|+.++||+++++|++|||+|||++.++++++++.
T Consensus 23 ~~~v~~al~~g~~~lViiA~D~s~-~~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~~~~~vai~d~ 89 (100)
T PRK07714 23 EELVLKEVRSGKAKLVLLSEDASV-NTTKKITDKCTYYNVPMRKVENRQQLGHAIGKDERVVVAVLDE 89 (100)
T ss_pred HHHHHHHHHhCCceEEEEeCCCCH-HHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcceEEEEeCc
Confidence 478999999999999999999999 6889999999999999999999999999999998886665443
No 15
>PRK07283 hypothetical protein; Provisional
Probab=99.78 E-value=1.2e-18 Score=111.40 Aligned_cols=66 Identities=15% Similarity=0.218 Sum_probs=59.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS 69 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~ 69 (91)
.++|.++|++|++++||+|+|+++ +.++++.+.|++++||++.++|++|||+|||++ +++++++|.
T Consensus 23 ~~~v~~aik~gk~~lVi~A~Das~-~~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~-~~vvai~d~ 88 (98)
T PRK07283 23 EELVVKAIQSGQAKLVFLANDAGP-NLTKKVTDKSNYYQVEVSTVFSTLELSAAVGKP-RKVLAVTDA 88 (98)
T ss_pred HHHHHHHHHcCCccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCC-ceEEEEeCh
Confidence 468999999999999999999999 688999999999999999999999999999996 565665443
No 16
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.73 E-value=4.2e-17 Score=105.50 Aligned_cols=68 Identities=22% Similarity=0.418 Sum_probs=60.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST 70 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~ 70 (91)
..+|.++|++|++++||+|+|+++ +.++++..+|+.++||++..+|++|||+|||++.++++++++.+
T Consensus 22 ~~~v~~aik~gk~~lVI~A~D~s~-~~kkki~~~~~~~~vp~~~~~t~~eLg~a~Gk~~~~~iai~d~g 89 (104)
T PRK05583 22 YNKCEEAIKKKKVYLIIISNDISE-NSKNKFKNYCNKYNIPYIEGYSKEELGNAIGRDEIKILGVKDKN 89 (104)
T ss_pred HHHHHHHHHcCCceEEEEeCCCCH-hHHHHHHHHHHHcCCCEEEecCHHHHHHHhCCCCeEEEEEeChH
Confidence 368999999999999999999999 67899999999999999988999999999999986666655543
No 17
>KOG3387|consensus
Probab=99.67 E-value=3.1e-16 Score=104.17 Aligned_cols=71 Identities=38% Similarity=0.726 Sum_probs=64.9
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC---CCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG---RKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G---~~~~~~v~~i~~~~~ 72 (91)
.||++|.+.+|...+|++|.|+.|.++..|++.+|+.+||||+||.|+..||.+|| ..+++....++..+.
T Consensus 39 ~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~Vpsk~alG~~cg~~~~~r~~~a~~i~~~~~ 112 (131)
T KOG3387|consen 39 ANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYVFVPSKQALGLACGELVVLRPVIACSITTNEA 112 (131)
T ss_pred cchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceEEeeccHHhhhhhhhHhhcCcceeEEEEeccc
Confidence 58999999999999999999999999999999999999999999999999999999 777777666666543
No 18
>KOG3406|consensus
Probab=99.64 E-value=1.4e-15 Score=101.16 Aligned_cols=84 Identities=25% Similarity=0.443 Sum_probs=76.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC----------C-CceEEEEEecC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR----------K-KPCICVIVKST 70 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~----------~-~~~~v~~i~~~ 70 (91)
++|+.|+|.+.+++|+++|+||+++.+++.+..||.+++||++.++|..+||+|+|. + ...+++++.+.
T Consensus 39 i~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k~LGew~Glckid~eGnarKvvGcs~vvVkd~ 118 (134)
T KOG3406|consen 39 IHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAGLCKIDSEGNARKVVGCSCVVVKDY 118 (134)
T ss_pred HHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhceeeecCCCCeeEeecceEEEEeec
Confidence 589999999999999999999998899999999999999999999999999999994 2 34668888888
Q ss_pred chHHHHHHHHHHHhh
Q psy6265 71 ESVAELYEEVKQEIG 85 (91)
Q Consensus 71 ~~~~~~~~~~~~~~~ 85 (91)
|+.+.+.+.+.+++.
T Consensus 119 geet~a~~~v~~~~~ 133 (134)
T KOG3406|consen 119 GEETQALDIVKEHFA 133 (134)
T ss_pred ccccHHHHHHHHHhh
Confidence 888999999998875
No 19
>PRK09190 hypothetical protein; Provisional
Probab=99.59 E-value=1.5e-14 Score=104.24 Aligned_cols=88 Identities=17% Similarity=0.181 Sum_probs=70.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhc------CCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc--hHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCED------KDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE--SVA 74 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~------~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~--~~~ 74 (91)
.+|.++|++|+++|||+|+|+|+ +.+++|..+|+. ++||++..+|++|||+|+|++.++++++.+.+- ...
T Consensus 117 ~~V~~alk~gk~~Lvi~A~DaS~-~t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~eLg~AlGr~~~~~vav~d~gfA~~l~ 195 (220)
T PRK09190 117 EKVDAALRSGEAAALIHASDGAA-DGKRKLDQARRALVHETGREIPVIGLFTAAELGLAFGRENVIHAALLAGGAAERVV 195 (220)
T ss_pred HHHHHHHHcCCceEEEEeccCCh-hHHHHHHHHHHhhcccccCCccEEEecCHHHHHHHhCCCceeEEEEcChHHHHHHH
Confidence 57899999999999999999999 568899999999 999999999999999999999888777776542 234
Q ss_pred HHHHHHHHHhhcCCCCC
Q psy6265 75 ELYEEVKQEIGALPVTW 91 (91)
Q Consensus 75 ~~~~~~~~~~~~~~~~~ 91 (91)
++++.+...-..-+.+|
T Consensus 196 ~~~~rl~~~~~~~~~~~ 212 (220)
T PRK09190 196 KRAQRLAGYRGGDPGRA 212 (220)
T ss_pred HHHHHHHhhhcCCCCcc
Confidence 44555444444444433
No 20
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.52 E-value=5.9e-14 Score=89.63 Aligned_cols=70 Identities=16% Similarity=0.219 Sum_probs=61.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
+|+++|+++.|++++||||+|+.+ ++++.+..++.-.+||++ |-+|..|||.+||+.++.++..+.+.|+
T Consensus 24 ~k~tiK~lk~gkaKliiiAsN~P~-~~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v~~laIiD~G~ 94 (100)
T COG1911 24 SKRTIKSLKLGKAKLIIIASNCPK-ELKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRVAALAIIDEGD 94 (100)
T ss_pred hHHHHHHHHcCCCcEEEEecCCCH-HHHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCceEEEEEEecCch
Confidence 589999999999999999999955 899999999999999975 5679999999999999977666555554
No 21
>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=98.64 E-value=3.9e-07 Score=62.96 Aligned_cols=90 Identities=14% Similarity=0.317 Sum_probs=76.9
Q ss_pred hhHHHHHHHhCCc--eEEEEeCCCCchhHHhhHHHHHhcCC--CCEEEeC--CHhHHhhHhCCCCceEEEEEecCchHHH
Q psy6265 2 NSTVQGPLQRKTI--MLCIFAGDVTPIEIMCHLPAVCEDKD--IPYCYVP--SKKDIGEALGRKKPCICVIVKSTESVAE 75 (91)
Q Consensus 2 ~kev~kai~~gka--~lViiA~D~sp~~~~~~l~~lc~~~~--IP~~~~~--sk~eLG~a~G~~~~~~v~~i~~~~~~~~ 75 (91)
+|++.+.|+.... .+||++..-.|.-+..|++.+|.-.+ |.++..+ +.+.|+.++|..+.+++++..+.+..+.
T Consensus 60 fNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~~rLs~aLgi~r~g~l~v~~~~~~~~~ 139 (158)
T PF08228_consen 60 FNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATASKSVRLVQLPKGSEARLSEALGIPRVGILAVRADAPGAKS 139 (158)
T ss_pred hHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhccCcceEEeCChhHHHHHHHHhCCCCccEEEEecCCcccHH
Confidence 5899999994333 47888876578789999999999888 8888765 7789999999999998999888888889
Q ss_pred HHHHHHHHhhcCCCCC
Q psy6265 76 LYEEVKQEIGALPVTW 91 (91)
Q Consensus 76 ~~~~~~~~~~~~~~~~ 91 (91)
.++.+.+.|..+..||
T Consensus 140 L~~~i~~~V~~ve~PW 155 (158)
T PF08228_consen 140 LVDLIRSHVPPVEIPW 155 (158)
T ss_pred HHHHHHhcCCccCCCC
Confidence 9999999999999999
No 22
>KOG2988|consensus
Probab=98.55 E-value=2.4e-07 Score=60.39 Aligned_cols=70 Identities=11% Similarity=0.144 Sum_probs=56.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
+|+++|.++.|+++|+++|+++.|. -++.+..++=-...+|. +-++..+||.+||+-++.+|..+.+.++
T Consensus 31 yK~T~k~~r~gkakL~~is~n~p~l-rks~ieyyamlak~~v~~~sg~n~~lgt~~g~~fRv~v~~ivd~gd 101 (112)
T KOG2988|consen 31 YKQTLKSLRQGKAKLIIISSNCPPL-RKSEIEYYAMLAKTGVHHYSGNNVELGTACGKTFRVSVLSIVDLGD 101 (112)
T ss_pred hHHHHHHHHhccceEEEeecCCCCc-chhHHHHHHHHhcCceeeecCCcEeHHHHhcCeeEeeEEEEEeccc
Confidence 5899999999999999999999764 35556666655556664 5678899999999999988777777766
No 23
>KOG3166|consensus
Probab=98.19 E-value=1.4e-06 Score=62.46 Aligned_cols=72 Identities=26% Similarity=0.345 Sum_probs=58.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
.+.|+..+++.+++||++|.|++|.+++-.+|.+|... .+..+ ..++++++++ -+.+++.++.+++
T Consensus 114 vnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km-----ivk~~-------~~kT~t~~a~--v~~edk~~l~kl~ 179 (209)
T KOG3166|consen 114 VNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM-----IVKGK-------HRKTCTTVAF--VNSEDKGALAKLV 179 (209)
T ss_pred cceEeehhhccccceeEEecccCchhheeecHHhhhhh-----ccccc-------ccceeeeeee--echhhHHHHHHHH
Confidence 35677789999999999999999999999999999998 22323 5566676777 6677788899999
Q ss_pred HHhhcC
Q psy6265 82 QEIGAL 87 (91)
Q Consensus 82 ~~~~~~ 87 (91)
+.+++.
T Consensus 180 e~i~tn 185 (209)
T KOG3166|consen 180 EAIRTN 185 (209)
T ss_pred HHHhcc
Confidence 988764
No 24
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=96.47 E-value=0.017 Score=37.29 Aligned_cols=45 Identities=20% Similarity=0.319 Sum_probs=38.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
-|+++.|.+..--.|++-+..+| + ..||..||+++|||+...++.
T Consensus 45 gEaTRvLLRRvP~~vLVr~~~~p-d-~~Hl~~LA~ekgVpVe~~~d~ 89 (100)
T PF15608_consen 45 GEATRVLLRRVPWKVLVRDPDDP-D-LAHLLLLAEEKGVPVEVYPDL 89 (100)
T ss_pred hHHHHHHHhcCCCEEEECCCCCc-c-HHHHHHHHHHcCCcEEEeCCC
Confidence 48899999998888888877777 5 589999999999999988765
No 25
>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=95.32 E-value=0.069 Score=31.30 Aligned_cols=65 Identities=18% Similarity=0.233 Sum_probs=44.5
Q ss_pred hhHHHHHHHhCC-ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc-eEEEEEe
Q psy6265 2 NSTVQGPLQRKT-IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIVK 68 (91)
Q Consensus 2 ~kev~kai~~gk-a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~-~~v~~i~ 68 (91)
.|-|..+|+++. +.-|++..+..... ...+..+|+..+||+..+ |++.|.+.++...+ ..++.+.
T Consensus 5 ~~~V~eaL~~~~~i~~l~~~~~~~~~~-~~~i~~~~~~~~i~v~~v-~~~~l~~ls~~~~hQGv~a~v~ 71 (76)
T PF08032_consen 5 RHAVEEALKSGPRIKKLFVTEEKADKR-IKEILKLAKKKGIPVYEV-SKKVLDKLSDTENHQGVVAVVK 71 (76)
T ss_dssp HHHHHHHHHCTGGEEEEEEETT---CC-THHHHHHHHHCT-EEEEE--HHHHHHCTTTSS-TTEEEEEE
T ss_pred HHHHHHHHcCCCCccEEEEEcCccchh-HHHHHHHHHHcCCeEEEe-CHHHHHHHcCCCCCCeEEEEEe
Confidence 366888898876 88899999943323 456889999999998777 66679999976554 4455444
No 26
>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=94.41 E-value=0.045 Score=35.51 Aligned_cols=66 Identities=17% Similarity=0.190 Sum_probs=50.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchh------------------HHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIE------------------IMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~------------------~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~ 63 (91)
.++|.++++.|.+..++|..|..-.. +...+...+++.|.-+.++.+..+-|.-+=+.....
T Consensus 26 ~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~v~iis~~~e~G~~L~~~~gGI 105 (113)
T PF03465_consen 26 IEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAKVEIISSEHEEGEQLLKGFGGI 105 (113)
T ss_dssp HHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSEEEEE-TTSHHHHHHHHCTTTE
T ss_pred HHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHHHhcCCcE
Confidence 47899999999999999999875321 357789999999999999999998888773344444
Q ss_pred EEEE
Q psy6265 64 CVIV 67 (91)
Q Consensus 64 v~~i 67 (91)
+|++
T Consensus 106 aaiL 109 (113)
T PF03465_consen 106 AAIL 109 (113)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 5554
No 27
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=93.89 E-value=0.24 Score=32.70 Aligned_cols=51 Identities=10% Similarity=0.130 Sum_probs=37.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
+.++.+.|++...-.++|.++.+. +....+..+|+++|+|+..+.+...=|
T Consensus 51 ~~~~~~~l~~~~~~~l~ing~l~~-~~~~~YiklA~~~~~~fTiv~~~~~~~ 101 (120)
T PF07997_consen 51 YPEFEQALKDYPNYKLKINGNLDY-SFQSKYIKLANKHGIPFTIVNDPEYHS 101 (120)
T ss_dssp -HHHHHHHHC-SSEEEEEETTS-H-HHHHHHHHHHHHTT--EEEE---SS--
T ss_pred HHHHHHHHhhCCCeEEEEcCCCCH-HHHHHHHHHHHHcCCCEEEeCCCCccC
Confidence 467889999999999999999988 678899999999999999988766433
No 28
>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=93.43 E-value=0.36 Score=30.04 Aligned_cols=44 Identities=20% Similarity=0.236 Sum_probs=33.3
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC--CHhHHhhH
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP--SKKDIGEA 55 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~a 55 (91)
+++.+||+-.|+-.=+....+...|+++++|+++.. +...|=++
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~ 92 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERA 92 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHH
Confidence 456888888887654677889999999999999987 44444333
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=92.26 E-value=0.6 Score=35.74 Aligned_cols=66 Identities=15% Similarity=0.152 Sum_probs=52.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
.++|.+|++.|.+.-++|+.+. ....-...+...+++.|..+..+.|..+-|+-+ ......+|++.
T Consensus 282 ~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL-~~lgGiaAiLR 348 (351)
T TIGR00111 282 EDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQL-DSLGGIAGILR 348 (351)
T ss_pred HHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHH-hhCCCEEEEEe
Confidence 4799999999999999999988 322224568888999999999999999999888 45556566554
No 30
>KOG2486|consensus
Probab=91.91 E-value=0.17 Score=38.44 Aligned_cols=74 Identities=12% Similarity=0.111 Sum_probs=43.6
Q ss_pred CCceEEEEeCCCC--chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCC
Q psy6265 12 KTIMLCIFAGDVT--PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPV 89 (91)
Q Consensus 12 gka~lViiA~D~s--p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~ 89 (91)
....-+|++-|++ ...+=-....+|.+++||+..++||-+=-...-+. ..+....-+.-|..+.+.+-...+
T Consensus 218 ~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k~~~~~------~kKp~~~i~~~f~~l~~~~f~~~~ 291 (320)
T KOG2486|consen 218 ENLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQKKVKRT------GKKPGLNIKINFQGLIRGVFLVDL 291 (320)
T ss_pred hhhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhhhcccc------ccCccccceeehhhccccceeccC
Confidence 3344455555554 22223346899999999999999987633322210 111112223347777888888888
Q ss_pred CC
Q psy6265 90 TW 91 (91)
Q Consensus 90 ~~ 91 (91)
||
T Consensus 292 Pw 293 (320)
T KOG2486|consen 292 PW 293 (320)
T ss_pred Cc
Confidence 87
No 31
>PRK04011 peptide chain release factor 1; Provisional
Probab=91.75 E-value=0.73 Score=36.08 Aligned_cols=67 Identities=16% Similarity=0.243 Sum_probs=51.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCC-----------------------------------------chhHHhhHHHHHhcCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVT-----------------------------------------PIEIMCHLPAVCEDKD 40 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~s-----------------------------------------p~~~~~~l~~lc~~~~ 40 (91)
.++|.+|++.|.+.-++|..|.. ..+....+...++++|
T Consensus 301 ~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~v~~l~e~a~~~g 380 (411)
T PRK04011 301 EEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEEEDIIEELSELAEQSG 380 (411)
T ss_pred HHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHHHHcC
Confidence 37899999999999999987641 1135677889999999
Q ss_pred CCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 41 IPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 41 IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
..+.++.+..+-|.-+-+.....+|++.
T Consensus 381 ~~v~iis~~~e~G~qL~~~fGGIaAiLR 408 (411)
T PRK04011 381 TKVEVISTDTEEGEQLLKAFGGIAAILR 408 (411)
T ss_pred CEEEEECCCChhHHHHHHcCCCEEEEEe
Confidence 9999999998888777555555555553
No 32
>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=91.65 E-value=0.83 Score=35.74 Aligned_cols=67 Identities=16% Similarity=0.252 Sum_probs=53.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCC-----------------------------------------chhHHhhHHHHHhcCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVT-----------------------------------------PIEIMCHLPAVCEDKD 40 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~s-----------------------------------------p~~~~~~l~~lc~~~~ 40 (91)
.++|.+|++.|.+.-++|..|.. ..+....+...++++|
T Consensus 293 ~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~L~e~a~~~G 372 (403)
T TIGR03676 293 EEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEELSELAEESG 372 (403)
T ss_pred HHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHHHHcC
Confidence 36899999999999999988762 1135667888999999
Q ss_pred CCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 41 IPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 41 IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
--+.++.+..+-|.-+-+.....+|++.
T Consensus 373 a~V~~iS~~~eeG~ql~~~fGGIaAiLR 400 (403)
T TIGR03676 373 AKVEIISTDTEEGEQLLKAFGGIAAILR 400 (403)
T ss_pred CEEEEECCCChhHHHHHHcCCcEEEEEe
Confidence 9999999999888777666666666654
No 33
>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=90.14 E-value=0.56 Score=28.97 Aligned_cols=42 Identities=12% Similarity=0.046 Sum_probs=31.6
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhH---HhhHHHHHhcCCCCEEE
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEI---MCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~---~~~l~~lc~~~~IP~~~ 45 (91)
+..+.|++|++.+||.-.+-..... -..+..+|.+++||+.+
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 4788999999999999888654322 34579999999999863
No 34
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.08 E-value=2.3 Score=33.13 Aligned_cols=75 Identities=20% Similarity=0.154 Sum_probs=56.3
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchH---HHHHHHHHHHhhcC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESV---AELYEEVKQEIGAL 87 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~---~~~~~~~~~~~~~~ 87 (91)
..+..+++.|+.-..-...+..+|+..++|+....+..+|..++......-++++|..|-. ...++++.+.+...
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~ 283 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNAC 283 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhc
Confidence 4688899999864444566899999999999999998999988877666679999987643 22355666655544
No 35
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=90.06 E-value=1.4 Score=34.55 Aligned_cols=68 Identities=15% Similarity=0.177 Sum_probs=52.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCc-----------------------------------------hhHHhhHHHHHhcCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTP-----------------------------------------IEIMCHLPAVCEDKD 40 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp-----------------------------------------~~~~~~l~~lc~~~~ 40 (91)
.++|.++++.|.+..++|..|..- .+++..+...|+++|
T Consensus 297 ~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~L~e~a~~~G 376 (409)
T TIGR00108 297 EDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEWLSELAENFG 376 (409)
T ss_pred HHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHHHHHHHHHcC
Confidence 478999999999999999998620 134566888999999
Q ss_pred CCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265 41 IPYCYVPSKKDIGEALGRKKPCICVIVKS 69 (91)
Q Consensus 41 IP~~~~~sk~eLG~a~G~~~~~~v~~i~~ 69 (91)
-.+.++.++.+=|.-+-+.....+|++.-
T Consensus 377 a~V~iiS~~~eeG~ql~~~fGGIaAiLRy 405 (409)
T TIGR00108 377 AKLEFISTESEEGAQLLTAFGGIGAILRY 405 (409)
T ss_pred CEEEEECCCChhHHHHHHhCCCEEEEEec
Confidence 99999999988887664455555666543
No 36
>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=90.04 E-value=0.53 Score=30.93 Aligned_cols=42 Identities=19% Similarity=0.150 Sum_probs=28.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++..+.+-+.+.-.+|++.|..|. ..+.+.|++++||+....
T Consensus 71 ~~~l~~l~~~~~P~iIvt~~~~~p---~~l~e~a~~~~ipll~t~ 112 (127)
T PF02603_consen 71 KERLEKLFSYNPPCIIVTRGLEPP---PELIELAEKYNIPLLRTP 112 (127)
T ss_dssp CCHHHHHCTTT-S-EEEETTT------HHHHHHHHHCT--EEEES
T ss_pred HHHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEcC
Confidence 456777888889999999999764 458889999999998655
No 37
>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=89.86 E-value=0.95 Score=29.24 Aligned_cols=44 Identities=20% Similarity=0.248 Sum_probs=33.8
Q ss_pred HHHHHHHhCCceEEEEeCCC---Cc-hhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDV---TP-IEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~---sp-~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++...|++|++.+||--.|- .+ ..--..+...|-+++|||++.-
T Consensus 61 ~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Ttl 108 (115)
T cd01422 61 QIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATNR 108 (115)
T ss_pred HHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEcH
Confidence 57889999999999988772 12 1224568999999999997643
No 38
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=89.70 E-value=3 Score=33.45 Aligned_cols=47 Identities=26% Similarity=0.426 Sum_probs=35.0
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE 54 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 54 (91)
..|-..++-++|+-++-...+ ..||-.+|+.+++|-.++.+.++|+.
T Consensus 356 ~~L~~~~vDlmiVVGG~NSSN-T~~L~eIa~~~g~~sy~Ie~~~eI~~ 402 (460)
T PLN02821 356 YKLVEEKLDLMLVVGGWNSSN-TSHLQEIAEHKGIPSYWIDSEERIGP 402 (460)
T ss_pred HHHhhcCCCEEEEECCCCCcc-HHHHHHHHHHhCCCEEEECCHHHcCc
Confidence 344334566666666554433 57999999999999999999999985
No 39
>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=89.64 E-value=1.7 Score=31.21 Aligned_cols=50 Identities=14% Similarity=0.010 Sum_probs=32.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.++..+++...+-++++...-....-...+..+++.+++|++.+.+|.++
T Consensus 79 ~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~ 128 (237)
T cd04168 79 AEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDR 128 (237)
T ss_pred HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 45677777776655555433222223455677788889999888888775
No 40
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=89.62 E-value=0.75 Score=30.08 Aligned_cols=45 Identities=16% Similarity=0.103 Sum_probs=32.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+..+.++++.+.-|++|-+-++.+...++...|++.+|.+..++
T Consensus 131 ~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp GGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred HHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence 567888999999999999877766778899999999999887653
No 41
>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=89.15 E-value=2.7 Score=30.49 Aligned_cols=65 Identities=8% Similarity=0.148 Sum_probs=35.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQ 82 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~ 82 (91)
.++.+.+++++++.||.....++ ...+.+..++++.++|++.+.+ -...+++|.+.++...+
T Consensus 196 ~~l~~~ik~~~v~~if~e~~~~~-k~~~~l~~la~~~~~~v~~l~~-----------------~~~~~~~y~~~m~~n~~ 257 (264)
T cd01020 196 AAFQNAIKNRQIDALIVNPQQAS-SATTNITGLAKRSGVPVVEVTE-----------------TMPNGTTYLTWMLKQVD 257 (264)
T ss_pred HHHHHHHHhCCCCEEEeCCCCCc-HHHHHHHHHHHHcCCCEEeecC-----------------CCCCCCCHHHHHHHHHH
Confidence 45556666666666666655544 4445555566666666644311 00123567776666666
Q ss_pred Hhh
Q psy6265 83 EIG 85 (91)
Q Consensus 83 ~~~ 85 (91)
.+.
T Consensus 258 ~i~ 260 (264)
T cd01020 258 QLE 260 (264)
T ss_pred HHH
Confidence 654
No 42
>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=86.52 E-value=1.9 Score=27.39 Aligned_cols=43 Identities=19% Similarity=0.046 Sum_probs=31.8
Q ss_pred HHHHHHHh-CCceEEEEeCCCCc----hhHHhhHHHHHhcCCCCEEEe
Q psy6265 4 TVQGPLQR-KTIMLCIFAGDVTP----IEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 4 ev~kai~~-gka~lViiA~D~sp----~~~~~~l~~lc~~~~IP~~~~ 46 (91)
++...|++ |++.+||--.|-.. ..--..+...|-+++||+++-
T Consensus 58 ~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 58 TVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred HHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 57888999 99999998665211 111345889999999999764
No 43
>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=86.47 E-value=1.2 Score=30.27 Aligned_cols=50 Identities=14% Similarity=0.084 Sum_probs=36.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
.+++..+++.-.+-++++..+..+......+...|...++|++.+-+|.+
T Consensus 84 ~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D 133 (188)
T PF00009_consen 84 IKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMD 133 (188)
T ss_dssp HHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCT
T ss_pred eecccceecccccceeeeecccccccccccccccccccccceEEeeeecc
Confidence 46777888777777788877654444456678899999999988777654
No 44
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=86.13 E-value=2.1 Score=28.79 Aligned_cols=53 Identities=17% Similarity=0.137 Sum_probs=37.5
Q ss_pred HHHHHHHhCCceEEEEeCC-CCc---hhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHh
Q psy6265 4 TVQGPLQRKTIMLCIFAGD-VTP---IEIMCHLPAVCEDKDIPYCY-VPSKKDIGEAL 56 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D-~sp---~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~ 56 (91)
+....|++|++.+||--.| .++ ..-...+...|-.++|||++ ..+-..+=+++
T Consensus 66 ~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l~tA~a~~~al 123 (142)
T PRK05234 66 QIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNRATADFLISSL 123 (142)
T ss_pred hHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCHHHHHHHHHHH
Confidence 4788999999999998764 122 11134689999999999976 33555555554
No 45
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=85.90 E-value=4.6 Score=34.33 Aligned_cols=62 Identities=16% Similarity=0.114 Sum_probs=49.7
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
+.|+.+..+++.|..-......+..+++..+||+..+.+..+|-.++..-...-+++||.+|
T Consensus 212 ~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~VLIDTAG 273 (767)
T PRK14723 212 REGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHLVLIDTVG 273 (767)
T ss_pred HcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCEEEEeCCC
Confidence 45556888999998655566789999999999998888988988888754444589999987
No 46
>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=85.44 E-value=5.2 Score=25.67 Aligned_cols=63 Identities=13% Similarity=0.163 Sum_probs=42.5
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCCC---------CceEEEEEecCc
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGRK---------KPCICVIVKSTE 71 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~---------~~~~v~~i~~~~ 71 (91)
+..+..+.+.+.++.++.|-++. +..+++++++++.... ...++.+++|.. ..=...+++.+|
T Consensus 53 ~l~~~~~~~~v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~~P~~~lId~~G 125 (146)
T PF08534_consen 53 ELQEKYKDKGVDVVGVSSDDDPP-----VREFLKKYGINFPVLSDPDGALAKALGVTIMEDPGNGFGIPTTFLIDKDG 125 (146)
T ss_dssp HHHHHHHTTTCEEEEEEESSSHH-----HHHHHHHTTTTSEEEEETTSHHHHHTTCEEECCTTTTSSSSEEEEEETTS
T ss_pred hhhhhhccCceEEEEecccCCHH-----HHHHHHhhCCCceEEechHHHHHHHhCCccccccccCCeecEEEEEECCC
Confidence 33344466668999999887773 4456666877775554 667999999966 343466666654
No 47
>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=85.16 E-value=1.7 Score=25.44 Aligned_cols=40 Identities=18% Similarity=0.101 Sum_probs=27.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+..++.+..|+ .|.+++.|-. ....++.+|++.|-.+...
T Consensus 17 kkal~~l~~G~-~l~V~~d~~~---a~~di~~~~~~~G~~~~~~ 56 (69)
T cd03420 17 KKEIDKLQDGE-QLEVKASDPG---FARDAQAWCKSTGNTLISL 56 (69)
T ss_pred HHHHHcCCCCC-EEEEEECCcc---HHHHHHHHHHHcCCEEEEE
Confidence 44444444555 5888888743 3567999999999887643
No 48
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=84.48 E-value=4.4 Score=28.97 Aligned_cols=68 Identities=19% Similarity=0.198 Sum_probs=42.9
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh----HHhhHhCCCCceEEEEEecCch--H-HHHHHHHHHHh
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK----DIGEALGRKKPCICVIVKSTES--V-AELYEEVKQEI 84 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~----eLG~a~G~~~~~~v~~i~~~~~--~-~~~~~~~~~~~ 84 (91)
+-|||+|.|= + .+-..+-..|++++||+..+.... -....+.+. +..+++-..+.. . +...++|.+.+
T Consensus 73 ~~lviaAt~d-~-~ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~-~l~iaIsT~G~sP~la~~ir~~Ie~~l 147 (210)
T COG1648 73 AFLVIAATDD-E-ELNERIAKAARERRILVNVVDDPELCDFIFPAIVDRG-PLQIAISTGGKSPVLARLLREKIEALL 147 (210)
T ss_pred ceEEEEeCCC-H-HHHHHHHHHHHHhCCceeccCCcccCceecceeeccC-CeEEEEECCCCChHHHHHHHHHHHHHc
Confidence 8899999994 4 567889999999999987766544 234444444 354555554422 2 34444444444
No 49
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=84.05 E-value=6.1 Score=31.27 Aligned_cols=62 Identities=21% Similarity=0.306 Sum_probs=52.5
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
..++-+.-||.-|+--.--...|..+|+-.|+|+.-+.|.+||-.++.--...=+.++|..|
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 67888999999998765556779999999999999999999999999865455688888765
No 50
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=83.13 E-value=2.2 Score=25.87 Aligned_cols=41 Identities=20% Similarity=0.181 Sum_probs=28.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
++..++.+..|+ .+.+++.|-. ....++.+|++.+-.+...
T Consensus 26 ~kk~l~~l~~G~-~l~V~~dd~~---~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 26 VRKTVRNMQPGE-TLLIIADDPA---TTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred HHHHHHcCCCCC-EEEEEeCCcc---HHHHHHHHHHHcCCEEEEE
Confidence 455566666665 3556777742 3567999999999988653
No 51
>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=82.88 E-value=6.8 Score=23.01 Aligned_cols=40 Identities=15% Similarity=0.242 Sum_probs=30.5
Q ss_pred EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC
Q psy6265 16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR 58 (91)
Q Consensus 16 lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~ 58 (91)
.+|+-...+. .-+...+++++||++..+++-.+++.-||.
T Consensus 4 ~~i~F~st~~---a~~~ek~lk~~gi~~~liP~P~~i~~~CG~ 43 (73)
T PF11823_consen 4 YLITFPSTHD---AMKAEKLLKKNGIPVRLIPTPREISAGCGL 43 (73)
T ss_pred EEEEECCHHH---HHHHHHHHHHCCCcEEEeCCChhccCCCCE
Confidence 4455555433 345788999999999999999999988883
No 52
>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=82.65 E-value=3.2 Score=26.91 Aligned_cols=51 Identities=12% Similarity=0.042 Sum_probs=33.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcC--CCCEEEeCCHhHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDK--DIPYCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~--~IP~~~~~sk~eL 52 (91)
.+++.+++++-.+-++++.....+.+.-..+..+.+.. +.|++.+.+|.+|
T Consensus 2 ~~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL 54 (141)
T cd01857 2 WRQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADL 54 (141)
T ss_pred HHHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhc
Confidence 57889999888866666654322211222444444444 8999999999887
No 53
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=82.57 E-value=15 Score=27.77 Aligned_cols=76 Identities=14% Similarity=0.127 Sum_probs=43.6
Q ss_pred HHHHhCCceEEEE-eCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265 7 GPLQRKTIMLCIF-AGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIG 85 (91)
Q Consensus 7 kai~~gka~lVii-A~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~ 85 (91)
+.|-+ ++.++|+ ++--|. + ..+|-+.|++.+.|..++.+.+||-...=.. ...++++--..--....+++...++
T Consensus 205 ~~La~-~vD~miVVGg~~Ss-N-T~kL~~i~~~~~~~t~~Ie~~~el~~~~l~~-~~~VGitaGASTP~~li~eV~~~l~ 280 (298)
T PRK01045 205 KELAP-QADLVIVVGSKNSS-N-SNRLREVAEEAGAPAYLIDDASEIDPEWFKG-VKTVGVTAGASAPEWLVQEVIARLK 280 (298)
T ss_pred HHHHh-hCCEEEEECCCCCc-c-HHHHHHHHHHHCCCEEEECChHHCcHHHhcC-CCEEEEEecCCCCHHHHHHHHHHHH
Confidence 34433 3444444 444455 3 4689999999999999999999997432121 2234444333322334455554444
Q ss_pred c
Q psy6265 86 A 86 (91)
Q Consensus 86 ~ 86 (91)
.
T Consensus 281 ~ 281 (298)
T PRK01045 281 E 281 (298)
T ss_pred H
Confidence 4
No 54
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=82.56 E-value=11 Score=24.68 Aligned_cols=65 Identities=8% Similarity=0.116 Sum_probs=41.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
++..+........++.+..|-++. .+..+.+++++|+-. .....++.+..|....-+..+++.+|
T Consensus 84 ~~~~~~~~~~~~~vi~i~~d~~~~----~~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~~P~~~lid~~g 149 (173)
T PRK03147 84 NELYPKYKEKGVEIIAVNVDETEL----AVKNFVNRYGLTFPVAIDKGRQVIDAYGVGPLPTTFLIDKDG 149 (173)
T ss_pred HHHHHHhhcCCeEEEEEEcCCCHH----HHHHHHHHhCCCceEEECCcchHHHHcCCCCcCeEEEECCCC
Confidence 345555566667888888876542 344556777887754 34557899999976554555666544
No 55
>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=82.55 E-value=9.9 Score=28.20 Aligned_cols=62 Identities=19% Similarity=0.290 Sum_probs=47.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH--hHHhhHhCCCCceEEEEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK--KDIGEALGRKKPCICVIV 67 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk--~eLG~a~G~~~~~~v~~i 67 (91)
.+++..++...+ +|+..=+++ ++...+...|++++||++.+.+. ..|.+.+|.+.....+..
T Consensus 43 ~~il~~i~~~~~--iV~~Tlv~~-~lr~~l~~~~~~~~i~~~Dll~~~l~~l~~~lg~~p~~~pg~~ 106 (255)
T PF03618_consen 43 DEILEEIKEENA--IVFYTLVDP-ELREYLEEFCREHGIPCVDLLGPLLSALEEFLGQKPSRKPGLQ 106 (255)
T ss_pred HHHHHHHhccCC--EEEEeCCCH-HHHHHHHHHHHhcCCCEEeccHHHHHHHHHHHCcCcccccCcc
Confidence 456666766434 777777888 79999999999999999988764 599999998865544443
No 56
>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=82.47 E-value=3 Score=27.10 Aligned_cols=36 Identities=22% Similarity=0.174 Sum_probs=29.6
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
.+..+||.+.|. . .....+..+|+++++|++..++.
T Consensus 88 ~~~diVi~~~d~-~-~~~~~l~~~~~~~~i~~i~~~~~ 123 (143)
T cd01483 88 DGVDLVIDAIDN-I-AVRRALNRACKELGIPVIDAGGL 123 (143)
T ss_pred cCCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEcCC
Confidence 357799999997 4 45678999999999999988764
No 57
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=82.37 E-value=5.8 Score=30.20 Aligned_cols=53 Identities=15% Similarity=0.056 Sum_probs=40.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGR 58 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~ 58 (91)
++..+.+-+.+.-.+|++.+..|+ ..+...|++++||++..+ +..+++..+..
T Consensus 72 ~~~~~~~~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ip~l~t~~~~~~~~~~l~~ 125 (304)
T TIGR00679 72 KQIIHNLLTLNPPAIILSKSFTDP---TVLLQVNETYQVPILKTDLFSTELSFRLET 125 (304)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEeCCcHHHHHHHHHH
Confidence 456777888889999999999875 357889999999997654 55566665543
No 58
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=82.25 E-value=19 Score=27.02 Aligned_cols=75 Identities=17% Similarity=0.200 Sum_probs=44.0
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh-hHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG-EALGRKKPCICVIVKSTESVAELYEEVKQEIG 85 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG-~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~ 85 (91)
+.|- +++-++|+-++-..++ ..+|-++|++++.|.+++.+..||= .++.-.. .++++--..--....++++..++
T Consensus 204 ~~La-~~vD~miVIGg~~SsN-T~kL~eia~~~~~~t~~Ie~~~el~~~~l~~~~--~VGItaGASTP~~ii~eVi~~l~ 279 (281)
T PF02401_consen 204 RELA-KEVDAMIVIGGKNSSN-TRKLAEIAKEHGKPTYHIETADELDPEWLKGVK--KVGITAGASTPDWIIEEVIDRLE 279 (281)
T ss_dssp HHHH-CCSSEEEEES-TT-HH-HHHHHHHHHHCTTCEEEESSGGG--HHHHTT-S--EEEEEE-TTS-HHHHHHHHHHHH
T ss_pred HHHH-hhCCEEEEecCCCCcc-HHHHHHHHHHhCCCEEEeCCccccCHhHhCCCC--EEEEEccCCCCHHHHHHHHHHHh
Confidence 3443 3455666555554434 5789999999999999999999995 4444322 45555444433445566665554
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=82.13 E-value=2.4 Score=26.42 Aligned_cols=46 Identities=17% Similarity=0.252 Sum_probs=27.8
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDI 52 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eL 52 (91)
+++...-...+..+|+.++..|. ..+..+|++++||++..+ +.-+-
T Consensus 52 di~~~a~~~~i~~iIltg~~~~~---~~v~~la~~~~i~vi~t~~dtf~t 98 (105)
T PF07085_consen 52 DIQLAAIEAGIACIILTGGLEPS---EEVLELAKELGIPVISTPYDTFET 98 (105)
T ss_dssp HHHHHHCCTTECEEEEETT-------HHHHHHHHHHT-EEEE-SS-HHHH
T ss_pred HHHHHHHHhCCCEEEEeCCCCCC---HHHHHHHHHCCCEEEEECCCHHHH
Confidence 34444444458899999988774 468889999999998766 43343
No 60
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=81.44 E-value=2.4 Score=28.20 Aligned_cols=31 Identities=19% Similarity=0.373 Sum_probs=25.0
Q ss_pred EeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 19 FAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 19 iA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
+|+ +.-.+++..+.++|-+.|||+.+++++.
T Consensus 30 v~~-~~i~dL~~~~~~ic~ergiPIe~I~~~k 60 (121)
T PF13611_consen 30 VAN-NEIDDLVREVTEICCERGIPIEIIDKKK 60 (121)
T ss_pred Eec-CcHHHHHHHHHHHHHHcCCCEEEecCcc
Confidence 675 3334688899999999999999998654
No 61
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=80.77 E-value=4.1 Score=31.69 Aligned_cols=62 Identities=15% Similarity=0.070 Sum_probs=47.0
Q ss_pred hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 11 RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 11 ~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
.|..+..++..|..-..-...+..+++..++|+..+.+..+|..++..-...-+.+||..|-
T Consensus 165 ~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~DlVLIDTaG~ 226 (374)
T PRK14722 165 FGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKHMVLIDTIGM 226 (374)
T ss_pred cCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCCEEEEcCCCC
Confidence 35567788888875334456788999999999999998888877776544456788998763
No 62
>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=80.36 E-value=22 Score=26.65 Aligned_cols=70 Identities=17% Similarity=0.231 Sum_probs=42.7
Q ss_pred CceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265 13 TIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIG 85 (91)
Q Consensus 13 ka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~ 85 (91)
++-++|+-++- |. + ..+|-+.|++++.|..++.+.+||...-=... ..++++--..--....++++..++
T Consensus 208 ~vD~miVVGg~nSs-N-T~rL~ei~~~~~~~t~~Ie~~~el~~~~l~~~-~~VGiTAGASTP~~li~eVi~~l~ 278 (280)
T TIGR00216 208 EVDLMIVIGGKNSS-N-TTRLYEIAEEHGPPSYLIETAEELPEEWLKGV-KVVGITAGASTPDWIIEEVIRKIK 278 (280)
T ss_pred hCCEEEEECCCCCc-h-HHHHHHHHHHhCCCEEEECChHHCCHHHhCCC-CEEEEEecCCCCHHHHHHHHHHHH
Confidence 34455444444 44 3 47899999999999999999999974322221 224554433333345555555544
No 63
>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=80.21 E-value=12 Score=23.55 Aligned_cols=64 Identities=8% Similarity=0.088 Sum_probs=41.3
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHhCCCCc---------eEEEEEecCch
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV-PSKKDIGEALGRKKP---------CICVIVKSTES 72 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~---------~~v~~i~~~~~ 72 (91)
+..+.++...+.+|.|+.|. + ..+..+++++++++-.+ ....+++++.|.... -...+++.+|.
T Consensus 48 ~~~~~~~~~~~~vv~is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~~~~~~~~~~~p~~~lid~~G~ 121 (140)
T cd03017 48 DLYEEFKALGAVVIGVSPDS-V----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWGEKKKKYMGIERSTFLIDPDGK 121 (140)
T ss_pred HHHHHHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCceEEECCccHHHHHhCCccccccccCCcceeEEEECCCCE
Confidence 34455566678899998874 3 23456677777776443 345689999997653 34666776553
No 64
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=80.07 E-value=16 Score=28.84 Aligned_cols=48 Identities=19% Similarity=0.252 Sum_probs=34.0
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE 54 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 54 (91)
.+.|-..++-++|+-++-..++ ..+|-.+|++.+.|..++.+.++|-.
T Consensus 281 ~~~La~~~vD~miVVGG~nSSN-T~rL~eia~~~g~~ty~Ie~~~eL~~ 328 (387)
T PRK13371 281 MFSLVEEPLDLMVVIGGYNSSN-TTHLQEIAIERGIPSYHIDSPERILS 328 (387)
T ss_pred HHHHhhcCCCEEEEECCCCCcc-HHHHHHHHHhcCCCEEEECCHHHcCC
Confidence 3445333455555555543323 57899999999999999999999965
No 65
>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=80.04 E-value=3 Score=25.26 Aligned_cols=40 Identities=25% Similarity=0.142 Sum_probs=29.9
Q ss_pred HHHHHHhCCceEEEEeCCC-C--chhHHhhHHHHHhcCCCCEE
Q psy6265 5 VQGPLQRKTIMLCIFAGDV-T--PIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~-s--p~~~~~~l~~lc~~~~IP~~ 44 (91)
..+.++.|++.+||--.+- . +.+--..+...|.+++||+.
T Consensus 47 i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 47 ILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred HHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 6788999999999986652 1 21113368899999999986
No 66
>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=79.80 E-value=6.3 Score=30.52 Aligned_cols=51 Identities=12% Similarity=0.032 Sum_probs=41.8
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.+..+.+++..+.-|++|.+....+....+...|+..+|++..+++-.++.
T Consensus 178 ~~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~vP~~~e~~ 228 (445)
T TIGR03025 178 DDLVELVRAHRVDEVIIALPLSEEARILELLLQLRDLGVDVRLVPDLFEFL 228 (445)
T ss_pred HHHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 456677888999999999877655556789999999999999999888764
No 67
>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=79.74 E-value=4 Score=29.05 Aligned_cols=51 Identities=18% Similarity=0.112 Sum_probs=32.6
Q ss_pred hhHHHHHHHh--CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 2 NSTVQGPLQR--KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~--gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.+++.+++.. -..-++++..|-.+......+..++...++|++.+-||.++
T Consensus 98 ~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~ 150 (224)
T cd04165 98 LKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDL 150 (224)
T ss_pred HHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 3566667653 23445555544444344556778899999999888777664
No 68
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=79.72 E-value=22 Score=28.53 Aligned_cols=76 Identities=14% Similarity=0.153 Sum_probs=53.5
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC---CceEEEEEecCchH---HHHHHHHHHH
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK---KPCICVIVKSTESV---AELYEEVKQE 83 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~---~~~~v~~i~~~~~~---~~~~~~~~~~ 83 (91)
.+...+..+++.|.....-...+..+++..++|++...+-.+|.+++..- ...-+.++|.+|.. ....+++.+.
T Consensus 266 ~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~ 345 (436)
T PRK11889 266 HGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIET 345 (436)
T ss_pred HHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHH
Confidence 33445777899998654456778889999999999888999998888532 13458899988753 3445555554
Q ss_pred hh
Q psy6265 84 IG 85 (91)
Q Consensus 84 ~~ 85 (91)
++
T Consensus 346 lk 347 (436)
T PRK11889 346 MG 347 (436)
T ss_pred Hh
Confidence 43
No 69
>PRK11018 hypothetical protein; Provisional
Probab=79.25 E-value=3.6 Score=24.72 Aligned_cols=40 Identities=10% Similarity=0.130 Sum_probs=26.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+..++.+..|+. |.|++.|-.. ...++.+|++.|-.+...
T Consensus 26 kk~l~~l~~G~~-L~V~~d~~~a---~~di~~~~~~~G~~v~~~ 65 (78)
T PRK11018 26 LEALPQLKKGEI-LEVVSDCPQS---INNIPLDARNHGYTVLDI 65 (78)
T ss_pred HHHHHhCCCCCE-EEEEeCCccH---HHHHHHHHHHcCCEEEEE
Confidence 344444455544 6678887433 467999999999887643
No 70
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=78.88 E-value=24 Score=26.14 Aligned_cols=76 Identities=14% Similarity=0.182 Sum_probs=52.5
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC---CCCceEEEEEecCchH---HHHHHHHHHH
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG---RKKPCICVIVKSTESV---AELYEEVKQE 83 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G---~~~~~~v~~i~~~~~~---~~~~~~~~~~ 83 (91)
........+++.|.........+..+++..++|+....+..+|..++. .....-+.++|.+|.- .+..+++.+.
T Consensus 100 ~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~ 179 (270)
T PRK06731 100 HGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIET 179 (270)
T ss_pred HHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHH
Confidence 333456777888876555667788889999999988888888877764 2224568899988753 4455555554
Q ss_pred hh
Q psy6265 84 IG 85 (91)
Q Consensus 84 ~~ 85 (91)
++
T Consensus 180 ~~ 181 (270)
T PRK06731 180 MG 181 (270)
T ss_pred Hh
Confidence 43
No 71
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=77.85 E-value=25 Score=26.39 Aligned_cols=76 Identities=18% Similarity=0.195 Sum_probs=45.8
Q ss_pred HHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhh-HhCCCCceEEEEEecCchHHHHHHHHHHH
Q psy6265 6 QGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE-ALGRKKPCICVIVKSTESVAELYEEVKQE 83 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~-a~G~~~~~~v~~i~~~~~~~~~~~~~~~~ 83 (91)
.+.|- +++-++|+-++- |. + ..+|-++|++.+.|..++.+.+||-. ++- . ...++++--..--....+++...
T Consensus 203 ~~~La-~~vD~miVVGg~~Ss-N-T~rL~eia~~~~~~t~~Ie~~~el~~~~~~-~-~~~VGitaGASTP~~li~eV~~~ 277 (281)
T PRK12360 203 AKELS-KEVDVMIVIGGKHSS-N-TQKLVKICEKNCPNTFHIETADELDLEMLK-D-YKIIGITAGASTPDWIIEEVIKK 277 (281)
T ss_pred HHHHH-HhCCEEEEecCCCCc-c-HHHHHHHHHHHCCCEEEECChHHCCHHHhC-C-CCEEEEEccCCCCHHHHHHHHHH
Confidence 34443 345555555444 45 3 46899999999999999999999953 332 2 23455544333334455555555
Q ss_pred hhc
Q psy6265 84 IGA 86 (91)
Q Consensus 84 ~~~ 86 (91)
+++
T Consensus 278 l~~ 280 (281)
T PRK12360 278 IKN 280 (281)
T ss_pred HHh
Confidence 543
No 72
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=77.50 E-value=16 Score=26.85 Aligned_cols=60 Identities=13% Similarity=0.179 Sum_probs=42.9
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
|.-+..++..|..-......+..+++..++|+....+..+|.+++..-...-++++|..|
T Consensus 223 g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~~~d~vliDt~G 282 (282)
T TIGR03499 223 GNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLRDKDLILIDTAG 282 (282)
T ss_pred CCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHccCCCEEEEeCCC
Confidence 456788888886433345567778888999998888888888887754444577777654
No 73
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=77.39 E-value=20 Score=28.15 Aligned_cols=62 Identities=16% Similarity=0.227 Sum_probs=46.6
Q ss_pred hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 11 RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 11 ~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
++..+..++..|..-......+..+++..++|+..+.+..+|..++..-...-++++|.+|-
T Consensus 249 ~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~DlVlIDt~G~ 310 (424)
T PRK05703 249 YGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCDVILIDTAGR 310 (424)
T ss_pred cCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCCEEEEeCCCC
Confidence 55578888888864322345677889999999988888889888887554556889998753
No 74
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=77.23 E-value=25 Score=25.44 Aligned_cols=65 Identities=17% Similarity=0.116 Sum_probs=45.1
Q ss_pred hHHHHHHHhC--CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc-eEEEEEec
Q psy6265 3 STVQGPLQRK--TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIVKS 69 (91)
Q Consensus 3 kev~kai~~g--ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~-~~v~~i~~ 69 (91)
|-|..+++.+ ...-+++..+..... ...+..+|++++|++..+ ++++|-+.++...+ ..++.+..
T Consensus 9 ~~v~eal~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~i~~~~v-~~~~l~~ls~~~~~qGv~a~~~~ 76 (244)
T PRK11181 9 HAVQALLERAPERFIEVFVLKGREDKR-LLPLINELEAQGIVIQLA-NRQTLDEKAEGAVHQGIIARVKP 76 (244)
T ss_pred HHHHHHHhCCCCceeEEEEECCCcchH-HHHHHHHHHHcCCcEEEe-CHHHHhhhhcCCCCceEEEEEec
Confidence 5677788753 466788877765433 355777888899987665 68889999986544 55555554
No 75
>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=76.90 E-value=8.3 Score=29.89 Aligned_cols=51 Identities=14% Similarity=0.124 Sum_probs=41.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
++..+.+++..+.-|++|......+-...+...|+..++++..+++-.++.
T Consensus 181 ~dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~vvP~~~e~~ 231 (451)
T TIGR03023 181 DDLEELIREGEVDEVYIALPLAAEDRILELLDALEDLTVDVRLVPDLFDFA 231 (451)
T ss_pred HHHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 456677888999999999876554556789999999999999999877665
No 76
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=76.74 E-value=3.9 Score=25.50 Aligned_cols=33 Identities=24% Similarity=0.138 Sum_probs=24.6
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.+||+|.|- + .+-..+...|+.++||+..+..
T Consensus 61 ~~lV~~at~d-~-~~n~~i~~~a~~~~i~vn~~D~ 93 (103)
T PF13241_consen 61 ADLVFAATDD-P-ELNEAIYADARARGILVNVVDD 93 (103)
T ss_dssp ESEEEE-SS--H-HHHHHHHHHHHHTTSEEEETT-
T ss_pred heEEEecCCC-H-HHHHHHHHHHhhCCEEEEECCC
Confidence 6789999874 4 5667899999999999876653
No 77
>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=76.50 E-value=13 Score=27.32 Aligned_cols=51 Identities=12% Similarity=0.027 Sum_probs=35.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
..++.++++.-.+-++++...-....-...+...++.+++|++.+-+|.++
T Consensus 78 ~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~ivviNK~D~ 128 (270)
T cd01886 78 TIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRIAFVNKMDR 128 (270)
T ss_pred HHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCC
Confidence 356778888877777776554333233345777888899999877777765
No 78
>KOG3101|consensus
Probab=76.29 E-value=2.4 Score=31.48 Aligned_cols=76 Identities=14% Similarity=0.292 Sum_probs=48.4
Q ss_pred CceEEEEeCCCCch------------------------------------hHHhhHHHHHhcCCCCEEEeCCHhHHhhHh
Q psy6265 13 TIMLCIFAGDVTPI------------------------------------EIMCHLPAVCEDKDIPYCYVPSKKDIGEAL 56 (91)
Q Consensus 13 ka~lViiA~D~sp~------------------------------------~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~ 56 (91)
+-+|++++.|+||. -+++.|+++-...++|+.... ..--|+..
T Consensus 72 ~hgl~vV~PDTSPRG~~v~g~~eswDFG~GAGFYvnAt~epw~~~yrMYdYv~kELp~~l~~~~~pld~~k-~~IfGHSM 150 (283)
T KOG3101|consen 72 KHGLAVVAPDTSPRGVEVAGDDESWDFGQGAGFYVNATQEPWAKHYRMYDYVVKELPQLLNSANVPLDPLK-VGIFGHSM 150 (283)
T ss_pred hcCeEEECCCCCCCccccCCCcccccccCCceeEEecccchHhhhhhHHHHHHHHHHHHhccccccccchh-cceecccc
Confidence 45799999999885 235667888888888886554 45567777
Q ss_pred CCCCceEEEEEecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 57 GRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 57 G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
|-. .+-+..++..+.|++ .....+-....+.||
T Consensus 151 GGh-GAl~~~Lkn~~kykS-vSAFAPI~NP~~cpW 183 (283)
T KOG3101|consen 151 GGH-GALTIYLKNPSKYKS-VSAFAPICNPINCPW 183 (283)
T ss_pred CCC-ceEEEEEcCcccccc-eeccccccCcccCcc
Confidence 744 455555666666654 222333344555555
No 79
>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=75.85 E-value=23 Score=24.32 Aligned_cols=70 Identities=16% Similarity=0.124 Sum_probs=41.7
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch--------HHHHHHHHHHH
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES--------VAELYEEVKQE 83 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~--------~~~~~~~~~~~ 83 (91)
....+++++.| ++.+ ...+.++++++........++++..|....-...+++..|. ..+.++++.+.
T Consensus 103 ~~~~vv~Is~~-~~~~----~~~~~~~~~~~~~~~~~~~~i~~~y~v~~~P~~~lID~~G~I~~~g~~~~~~~le~ll~~ 177 (189)
T TIGR02661 103 EETDVVMISDG-TPAE----HRRFLKDHELGGERYVVSAEIGMAFQVGKIPYGVLLDQDGKIRAKGLTNTREHLESLLEA 177 (189)
T ss_pred cCCcEEEEeCC-CHHH----HHHHHHhcCCCcceeechhHHHHhccCCccceEEEECCCCeEEEccCCCCHHHHHHHHHH
Confidence 34678888755 3422 34566778876422224568998888764434556665543 24557777766
Q ss_pred hhc
Q psy6265 84 IGA 86 (91)
Q Consensus 84 ~~~ 86 (91)
+++
T Consensus 178 l~~ 180 (189)
T TIGR02661 178 DRE 180 (189)
T ss_pred HHc
Confidence 654
No 80
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=75.68 E-value=6.2 Score=30.01 Aligned_cols=47 Identities=13% Similarity=0.173 Sum_probs=31.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCc----h-hH---HhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTP----I-EI---MCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp----~-~~---~~~l~~lc~~~~IP~~~~~s 48 (91)
..++++.++..++-+|++|+|.-. + +. ...........+||++-+..
T Consensus 29 f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~G 83 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAG 83 (390)
T ss_pred HHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecC
Confidence 468889999999999999999842 1 11 11222233347899986553
No 81
>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]
Probab=74.99 E-value=13 Score=28.48 Aligned_cols=52 Identities=15% Similarity=0.077 Sum_probs=40.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G 57 (91)
+++++.+-+-+--.+|++.+..+. ..+.+.|++++||+.... +..+|..-+.
T Consensus 71 ~~~i~~~~~~~~P~iI~sk~~~~p---~~l~~~a~~~~~pil~s~~~ts~l~~~l~ 123 (308)
T COG1493 71 KKRIGKLFSLDTPALIVSKGLPIP---EELLDAAKKYNIPILTSKLSTSELSFTLT 123 (308)
T ss_pred HHHHHHHhCcCCCEEEEECCCCCC---HHHHHHHHHcCCceEEecchHHHHHHHHH
Confidence 456777778889999999999874 458899999999998655 5556555444
No 82
>cd02964 TryX_like_family Tryparedoxin (TryX)-like family; composed of TryX and related proteins including nucleoredoxin (NRX), rod-derived cone viability factor (RdCVF) and the nematode homolog described as a 16-kD class of TRX. Most members of this family, except RdCVF, are protein disulfide oxidoreductases containing an active site CXXC motif, similar to TRX.
Probab=74.97 E-value=17 Score=23.08 Aligned_cols=74 Identities=15% Similarity=0.266 Sum_probs=40.8
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe--CC---HhHHhhHhCCCCceEEEEEecCchH--HHHHHHHHHHhh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV--PS---KKDIGEALGRKKPCICVIVKSTESV--AELYEEVKQEIG 85 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~--~s---k~eLG~a~G~~~~~~v~~i~~~~~~--~~~~~~~~~~~~ 85 (91)
...++.++.|.++.. +..++++++ ++..+ .+ ..++.+..|...-=+..+++.+|.. ...-+.+...=.
T Consensus 52 ~v~vi~Vs~d~~~~~----~~~~~~~~~-~~~~~~~~d~~~~~~~~~~~~v~~iPt~~lid~~G~iv~~~~~~~~~~~~~ 126 (132)
T cd02964 52 NFEIVFVSRDRSEES----FNEYFSEMP-PWLAVPFEDEELRELLEKQFKVEGIPTLVVLKPDGDVVTTNARDEVEEDPG 126 (132)
T ss_pred CeEEEEEecCCCHHH----HHHHHhcCC-CeEeeccCcHHHHHHHHHHcCCCCCCEEEEECCCCCEEchhHHHHHHhCcc
Confidence 577888888876533 445666775 44333 22 3577777886543345667766653 344444444333
Q ss_pred cCCCCC
Q psy6265 86 ALPVTW 91 (91)
Q Consensus 86 ~~~~~~ 91 (91)
+---||
T Consensus 127 ~~~~~~ 132 (132)
T cd02964 127 ACAFPW 132 (132)
T ss_pred cccCCC
Confidence 333343
No 83
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=74.54 E-value=6.8 Score=27.40 Aligned_cols=73 Identities=21% Similarity=0.239 Sum_probs=47.3
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh----HHhhHhCCC--CceEEEEEecCc---hHHHHHHHHHHH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK----DIGEALGRK--KPCICVIVKSTE---SVAELYEEVKQE 83 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~----eLG~a~G~~--~~~~v~~i~~~~---~~~~~~~~~~~~ 83 (91)
..+..+++.|..-..-...+..+|+..+||+....+.. .+-+++..- ...=++++|.+| ...+..+++.+.
T Consensus 29 ~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~ 108 (196)
T PF00448_consen 29 GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKKL 108 (196)
T ss_dssp T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHH
T ss_pred cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHHH
Confidence 78899999998866667889999999999998776443 333444432 234588999876 334445555544
Q ss_pred hh
Q psy6265 84 IG 85 (91)
Q Consensus 84 ~~ 85 (91)
++
T Consensus 109 ~~ 110 (196)
T PF00448_consen 109 LE 110 (196)
T ss_dssp HH
T ss_pred hh
Confidence 43
No 84
>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=74.41 E-value=2 Score=31.32 Aligned_cols=85 Identities=11% Similarity=0.116 Sum_probs=46.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch--------------hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEE-E
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI--------------EIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICV-I 66 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~--------------~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~-~ 66 (91)
+++..++|++|+ +|.+..|-++. ....-...++...+.|++.+....+=+. ......+- .
T Consensus 181 ~~~~~~~Lk~g~--~v~~l~Dq~~~~~~~~~v~FfG~~a~~~~g~a~lA~~~~apvvp~~~~r~~~~---~~~~~~i~~~ 255 (295)
T PF03279_consen 181 IRELIRALKEGG--IVGLLGDQDPGKKDGVFVPFFGRPASTPTGPARLARKTGAPVVPVFAYREPDG---SHYRIEIEPP 255 (295)
T ss_pred HHHHHHHhccCC--EEEEEECCCCCCCCceEEeECCeecccccHHHHHHHHhCCcEEEEEEEEeCCC---CEEEEEEeec
Confidence 468899999998 77777785431 1122245577778888877664333221 11111111 0
Q ss_pred Ee-cCc----hH-HHHHHHHHHHhhcCCCCC
Q psy6265 67 VK-STE----SV-AELYEEVKQEIGALPVTW 91 (91)
Q Consensus 67 i~-~~~----~~-~~~~~~~~~~~~~~~~~~ 91 (91)
++ ..+ +. +...+.+.+.|++-|.+|
T Consensus 256 ~~~~~~~~~~~~~~~~~~~lE~~Ir~~P~QW 286 (295)
T PF03279_consen 256 LDFPSSEDIEELTQRYNDRLEEWIREHPEQW 286 (295)
T ss_pred ccCCccchHHHHHHHHHHHHHHHHHcChHhh
Confidence 11 111 22 344445566699999888
No 85
>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=74.34 E-value=5.2 Score=27.94 Aligned_cols=35 Identities=20% Similarity=0.343 Sum_probs=27.3
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
+..+||.+.|- . .....+.++|++++||++...+.
T Consensus 113 ~~dvVi~~~d~-~-~~~~~ln~~c~~~~ip~i~~~~~ 147 (198)
T cd01485 113 KFTLVIATEEN-Y-ERTAKVNDVCRKHHIPFISCATY 147 (198)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEee
Confidence 46677777664 4 56678999999999999988763
No 86
>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=74.24 E-value=8.5 Score=27.42 Aligned_cols=15 Identities=13% Similarity=0.291 Sum_probs=7.7
Q ss_pred chHHHHHHHHHHHhh
Q psy6265 71 ESVAELYEEVKQEIG 85 (91)
Q Consensus 71 ~~~~~~~~~~~~~~~ 85 (91)
+.|.+.++.....+.
T Consensus 239 ~~y~~~~~~n~~~l~ 253 (256)
T PF01297_consen 239 DSYLDMMEQNLDTLA 253 (256)
T ss_dssp TSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH
Confidence 345555555555443
No 87
>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=74.09 E-value=9.5 Score=23.79 Aligned_cols=42 Identities=14% Similarity=0.150 Sum_probs=30.2
Q ss_pred HHHHHHHhCCceEEEEeCCCCc-hhHHhhHHHHHhcCCCCEEE
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTP-IEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp-~~~~~~l~~lc~~~~IP~~~ 45 (91)
+....+++|++.+||--.+... ..---.+...|-+++||++.
T Consensus 58 ~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 58 NIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred hHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 5677889999999988655211 11123588999999999974
No 88
>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=73.68 E-value=12 Score=22.97 Aligned_cols=64 Identities=9% Similarity=0.201 Sum_probs=43.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCCC------CceEEEEEecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGRK------KPCICVIVKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~------~~~~v~~i~~~~ 71 (91)
++..+.++...+.++.|..|-.. .+..+.+++++|+-.+. ...++.+..|.. ..=++.+++..|
T Consensus 49 ~~~~~~~~~~~~~vi~is~d~~~-----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~p~~~lid~~g 119 (124)
T PF00578_consen 49 NELYKKYKDKGVQVIGISTDDPE-----EIKQFLEEYGLPFPVLSDPDGELAKAFGIEDEKDTLALPAVFLIDPDG 119 (124)
T ss_dssp HHHHHHHHTTTEEEEEEESSSHH-----HHHHHHHHHTCSSEEEEETTSHHHHHTTCEETTTSEESEEEEEEETTS
T ss_pred HHHhhhhccceEEeeeccccccc-----chhhhhhhhccccccccCcchHHHHHcCCccccCCceEeEEEEECCCC
Confidence 34455667778999999998532 34566777777765544 466999999986 334466666655
No 89
>PTZ00416 elongation factor 2; Provisional
Probab=73.54 E-value=8.4 Score=32.76 Aligned_cols=74 Identities=12% Similarity=-0.001 Sum_probs=50.8
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH-hhHhCCCCceEEEEEecCchHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI-GEALGRKKPCICVIVKSTESVAELYEEV 80 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL-G~a~G~~~~~~v~~i~~~~~~~~~~~~~ 80 (91)
..++..+++.-.+-++++..+-....-..++...+.+.++|.+.+-+|.++ ..-+| .++.+....|+++
T Consensus 106 ~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~~p~iv~iNK~D~~~~~~~----------~~~~~~~~~~~~i 175 (836)
T PTZ00416 106 SSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIRPVLFINKVDRAILELQ----------LDPEEIYQNFVKT 175 (836)
T ss_pred HHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcCCCEEEEEEChhhhhhhcC----------CCHHHHHHHHHHH
Confidence 567888998888888888766554334567888999999999888888775 11122 2344545556666
Q ss_pred HHHhh
Q psy6265 81 KQEIG 85 (91)
Q Consensus 81 ~~~~~ 85 (91)
++.++
T Consensus 176 i~~in 180 (836)
T PTZ00416 176 IENVN 180 (836)
T ss_pred HHHHH
Confidence 66665
No 90
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=73.45 E-value=13 Score=23.88 Aligned_cols=46 Identities=13% Similarity=0.219 Sum_probs=32.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCE-EEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY-CYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~-~~~~s 48 (91)
.+++.+.+.+..+.++++.+|.-+ .+...+...-+..-.|. +.++|
T Consensus 35 ~~~~~~~l~~~~~~iIiite~~a~-~i~~~i~~~~~~~~~P~iv~IPs 81 (104)
T COG1436 35 LRAALRVLAEDDVGIILITEDLAE-KIREEIRRIIRSSVLPAIVEIPS 81 (104)
T ss_pred HHHHHHhhccCCceEEEEeHHHHh-hhHHHHHHHhhccCccEEEEeCC
Confidence 356778888888888888888866 56666665555555675 45666
No 91
>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=73.39 E-value=10 Score=30.27 Aligned_cols=55 Identities=5% Similarity=-0.017 Sum_probs=36.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh---HHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK---DIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~---eLG~a~G 57 (91)
++.++.+.+..+.+||++.+++...+-.....++++++|-++.-.++. +|.+++|
T Consensus 263 ~~~v~~i~~~g~~lvi~~~~I~~~~l~~l~~~~l~~~~I~av~~v~~~~LerIa~~tG 320 (517)
T TIGR02342 263 LNIVKKIKKTGCNVLLIQKSILRDAVNDLALHFLAKMKIMVVKDIEREEVEFICKTIG 320 (517)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHhhCCceEEecCCHHHHHHHHHHHC
Confidence 445677777789999999998543333344667777999887766654 4444444
No 92
>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=73.37 E-value=12 Score=23.27 Aligned_cols=41 Identities=7% Similarity=0.049 Sum_probs=28.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~ 44 (91)
+.+.++.|++...+++|+.++.+.. ...+...-+..++++-
T Consensus 19 a~e~l~~L~~~g~~~~~lTNns~~s--~~~~~~~L~~~Gi~~~ 59 (101)
T PF13344_consen 19 AVEALDALRERGKPVVFLTNNSSRS--REEYAKKLKKLGIPVD 59 (101)
T ss_dssp HHHHHHHHHHTTSEEEEEES-SSS---HHHHHHHHHHTTTT--
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCCC--HHHHHHHHHhcCcCCC
Confidence 4688999999999999999998652 2234344478899864
No 93
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=73.33 E-value=10 Score=29.00 Aligned_cols=50 Identities=14% Similarity=0.219 Sum_probs=39.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch------------------hHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI------------------EIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~------------------~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
..+++++|+++ ..+-|+|+|.+|. +++..+.+.|++++|-++...-..++
T Consensus 11 ~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~~P~~~~~~ 78 (329)
T PF15632_consen 11 QRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVFVPGRNREL 78 (329)
T ss_pred HHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEEEcCccHHH
Confidence 35788899998 8888999888653 67888999999999998877644433
No 94
>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=73.32 E-value=7 Score=24.55 Aligned_cols=52 Identities=15% Similarity=0.179 Sum_probs=30.0
Q ss_pred hHHHHHhcCCCCEEEeCCHhHHhh---------HhCCCCceEEEEEecCchHHHHHHHHHHH
Q psy6265 31 HLPAVCEDKDIPYCYVPSKKDIGE---------ALGRKKPCICVIVKSTESVAELYEEVKQE 83 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~~sk~eLG~---------a~G~~~~~~v~~i~~~~~~~~~~~~~~~~ 83 (91)
.+..+....++|++.+.+|.++=. ..|.. .........+....+.++.+.+.
T Consensus 96 ~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~l~~~ 156 (157)
T cd01894 96 EIAKYLRKSKKPVILVVNKVDNIKEEDEAAEFYSLGFG-EPIPISAEHGRGIGDLLDAILEL 156 (157)
T ss_pred HHHHHHHhcCCCEEEEEECcccCChHHHHHHHHhcCCC-CeEEEecccCCCHHHHHHHHHhh
Confidence 355666778899999988876432 12222 22223333445566777777654
No 95
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=73.18 E-value=22 Score=23.00 Aligned_cols=78 Identities=12% Similarity=0.200 Sum_probs=48.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCCCCc------------eEEEEEec
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGRKKP------------CICVIVKS 69 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~~~------------~~v~~i~~ 69 (91)
++..+.+....+.+|-|..|. + ..+..+++++++++-.+. ...++++..|.... ....+++.
T Consensus 54 ~~~~~~~~~~~v~vi~Is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~~~~~~~~~~~~~~~~~~lid~ 128 (154)
T PRK09437 54 RDNMDELKKAGVVVLGISTDK-P----EKLSRFAEKELLNFTLLSDEDHQVAEQFGVWGEKKFMGKTYDGIHRISFLIDA 128 (154)
T ss_pred HHHHHHHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCCeEEECCCchHHHHhCCCcccccccccccCcceEEEEECC
Confidence 445566666678888888773 3 235567788888775444 55688888885321 13456664
Q ss_pred Cch---------HHHHHHHHHHHhh
Q psy6265 70 TES---------VAELYEEVKQEIG 85 (91)
Q Consensus 70 ~~~---------~~~~~~~~~~~~~ 85 (91)
.|. -.+.++++..+++
T Consensus 129 ~G~i~~~~~g~~~~~~~~~~~~~~~ 153 (154)
T PRK09437 129 DGKIEHVFDKFKTSNHHDVVLDYLK 153 (154)
T ss_pred CCEEEEEEcCCCcchhHHHHHHHHh
Confidence 432 1345777777664
No 96
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=72.98 E-value=37 Score=25.45 Aligned_cols=63 Identities=17% Similarity=0.156 Sum_probs=39.5
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
+....+.+..+++++||=|+.- . --+..+=++.+||++-+- -..-.|....+.--++++-..+
T Consensus 58 ~i~~~l~~~~ik~lVIACNTAS-a--~al~~LR~~~~iPVvGvi--Paik~A~~~t~~~~IgViaT~~ 120 (269)
T COG0796 58 EIVDFLLERGIKALVIACNTAS-A--VALEDLREKFDIPVVGVI--PAIKPAVALTRNGRIGVIATPA 120 (269)
T ss_pred HHHHHHHHcCCCEEEEecchHH-H--HHHHHHHHhCCCCEEEec--cchHHHHHhccCCeEEEEeccc
Confidence 3444455555999999999854 2 246777788899998655 3334455544444455555444
No 97
>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=72.92 E-value=12 Score=24.09 Aligned_cols=47 Identities=17% Similarity=0.200 Sum_probs=32.0
Q ss_pred HHHHHH-HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 4 TVQGPL-QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 4 ev~kai-~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
+..+.+ ++|-+.|+|--.+--+ ++-..+.++|+++++|++.++..-.
T Consensus 63 ~~i~~L~~~~~agL~i~~~~~~~-~iP~~~i~~A~~~~lPli~ip~~~~ 110 (123)
T PF07905_consen 63 EFIRELAEKGAAGLGIKTGRYLD-EIPEEIIELADELGLPLIEIPWEVP 110 (123)
T ss_pred HHHHHHHHCCCeEEEEeccCccc-cCCHHHHHHHHHcCCCEEEeCCCCC
Confidence 344555 4556777775553334 5667788999999999998876443
No 98
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=72.83 E-value=17 Score=25.36 Aligned_cols=50 Identities=14% Similarity=0.199 Sum_probs=32.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhH----HhhHHHHHhc---CCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEI----MCHLPAVCED---KDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~----~~~l~~lc~~---~~IP~~~~~sk~eL 52 (91)
.++.+.+++.++.+|++++|...... ...+..+++. .++|+..+....|+
T Consensus 25 ~~i~~~~~~~~~d~iv~~GDl~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~GNHD~ 81 (214)
T cd07399 25 DWIVDNAEALNIAFVLHLGDIVDDGDNDAEWEAADKAFARLDKAGIPYSVLAGNHDL 81 (214)
T ss_pred HHHHHHHHHcCCCEEEECCCccCCCCCHHHHHHHHHHHHHHHHcCCcEEEECCCCcc
Confidence 44566667778999999999864211 1222233333 57999988877773
No 99
>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=72.43 E-value=21 Score=22.37 Aligned_cols=64 Identities=11% Similarity=0.131 Sum_probs=39.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcC-CCCEEEe-CCHhHHhhHhCCCCce---------EEEEEecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDK-DIPYCYV-PSKKDIGEALGRKKPC---------ICVIVKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~-~IP~~~~-~sk~eLG~a~G~~~~~---------~v~~i~~~~ 71 (91)
++..+.++.+.+.++.|..|. +.. +..+.+++ +.++..+ .....+++..|..... +..+++..|
T Consensus 46 ~~~~~~~~~~~~~~i~is~d~-~~~----~~~~~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~~~~~~p~~~lid~~g 120 (140)
T cd02971 46 RDLAEEFAKGGAEVLGVSVDS-PFS----HKAWAEKEGGLNFPLLSDPDGEFAKAYGVLIEKSAGGGLAARATFIIDPDG 120 (140)
T ss_pred HHHHHHHHHCCCEEEEEeCCC-HHH----HHHHHhcccCCCceEEECCChHHHHHcCCccccccccCceeEEEEEECCCC
Confidence 445556666778999998873 322 33455555 5555433 3456899999976443 456666654
No 100
>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=71.91 E-value=5.1 Score=30.01 Aligned_cols=40 Identities=10% Similarity=0.246 Sum_probs=30.3
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhH
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEA 55 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 55 (91)
..+||.+.| +. +...++-++|++++||++...+.--.|+.
T Consensus 106 fdvVV~~~~-~~-~~~~~in~~c~~~~ipfI~a~~~G~~G~v 145 (286)
T cd01491 106 FQVVVLTDA-SL-EDQLKINEFCHSPGIKFISADTRGLFGSI 145 (286)
T ss_pred CCEEEEecC-CH-HHHHHHHHHHHHcCCEEEEEeccccEEEE
Confidence 557777766 45 56678999999999999988876555543
No 101
>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=71.89 E-value=24 Score=25.74 Aligned_cols=50 Identities=16% Similarity=0.094 Sum_probs=31.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.++..+++.-.+-++++........-...+..+++.+++|++.+.+|.++
T Consensus 86 ~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D~ 135 (267)
T cd04169 86 EDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDR 135 (267)
T ss_pred HHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCcc
Confidence 35667777766666666443222222345667888889998887777654
No 102
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=71.45 E-value=24 Score=28.51 Aligned_cols=50 Identities=16% Similarity=0.033 Sum_probs=34.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.++.++++.-..-++++-..-........+...|+.+++|++.+.+|.++
T Consensus 95 ~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~PiivviNKiD~ 144 (527)
T TIGR00503 95 EDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIFTFMNKLDR 144 (527)
T ss_pred HHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECccc
Confidence 45777887766656555443222233456778899999999988888876
No 103
>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=71.30 E-value=13 Score=26.22 Aligned_cols=48 Identities=21% Similarity=0.236 Sum_probs=31.3
Q ss_pred HHHHHHHhCCceEEEEeCCCCch--hHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPI--EIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~--~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
.+++.+.+.++.+|++++|.... .....+..+.+..++|+.++....|
T Consensus 23 ~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v~GNHD 72 (239)
T TIGR03729 23 TLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFNAGNHD 72 (239)
T ss_pred HHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEECCCCC
Confidence 45666777889999999998641 2223344455546789877654433
No 104
>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=71.28 E-value=22 Score=22.10 Aligned_cols=72 Identities=15% Similarity=0.178 Sum_probs=46.4
Q ss_pred ceEEEEeCCC-CchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCCC
Q psy6265 14 IMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVT 90 (91)
Q Consensus 14 a~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~ 90 (91)
.+++++++.. +-.-+.+++.+.++++|+++. ...+-.++......- =++.-+++....++++.+.....+.|
T Consensus 4 ~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~v~a~~~~~~~~~~~~~-----Dvill~pqi~~~~~~i~~~~~~~~ip 77 (95)
T TIGR00853 4 TNILLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGSYGAAGEKLDDA-----DVVLLAPQVAYMLPDLKKETDKKGIP 77 (95)
T ss_pred cEEEEECCCchhHHHHHHHHHHHHHHCCCcEEEEEecHHHHHhhcCCC-----CEEEECchHHHHHHHHHHHhhhcCCC
Confidence 3444554443 333467889999999999984 455666766554321 24555677777888888877765433
No 105
>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=71.25 E-value=23 Score=22.25 Aligned_cols=68 Identities=7% Similarity=0.008 Sum_probs=36.3
Q ss_pred HHHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 5 VQGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYV-PSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
..+..+...+.++.|..+- +..+-...+..+.+++++++-.+ ....++.+..|....-+..+++..|.
T Consensus 48 l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~v~~~P~~~vid~~G~ 117 (126)
T cd03012 48 LEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVANDNDYATWRAYGNQYWPALYLIDPTGN 117 (126)
T ss_pred HHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhCCCcCCeEEEECCCCc
Confidence 3334444445666665421 01011335666777888876433 34557778888654334556665553
No 106
>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=71.24 E-value=23 Score=22.39 Aligned_cols=63 Identities=14% Similarity=0.144 Sum_probs=42.1
Q ss_pred CCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCCC
Q psy6265 23 VTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVT 90 (91)
Q Consensus 23 ~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~ 90 (91)
.|-.-+.+++.+.|+++|+++. ...+-.++-.....- =++.-+++..-.++++.+.......|
T Consensus 11 aSSs~la~km~~~a~~~gi~~~i~a~~~~e~~~~~~~~-----Dvill~PQv~~~~~~i~~~~~~~~ip 74 (99)
T cd05565 11 GTSGLLANALNKGAKERGVPLEAAAGAYGSHYDMIPDY-----DLVILAPQMASYYDELKKDTDRLGIK 74 (99)
T ss_pred CCHHHHHHHHHHHHHHCCCcEEEEEeeHHHHHHhccCC-----CEEEEcChHHHHHHHHHHHhhhcCCC
Confidence 3443567889999999999984 455666666554422 24555677777778888777665443
No 107
>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=71.13 E-value=22 Score=22.01 Aligned_cols=61 Identities=13% Similarity=0.186 Sum_probs=39.6
Q ss_pred CchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCC
Q psy6265 24 TPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPV 89 (91)
Q Consensus 24 sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~ 89 (91)
+..-+.+++...++++|+|+.. ..+-.++..... + .=++.-+++....++++.+.......
T Consensus 11 sTS~~~~ki~~~~~~~~~~~~v~~~~~~~~~~~~~-~----~Diil~~Pqv~~~~~~i~~~~~~~~~ 72 (96)
T cd05564 11 STSILVKKMKKAAEKRGIDAEIEAVPESELEEYID-D----ADVVLLGPQVRYMLDEVKKKAAEYGI 72 (96)
T ss_pred hHHHHHHHHHHHHHHCCCceEEEEecHHHHHHhcC-C----CCEEEEChhHHHHHHHHHHHhccCCC
Confidence 3435677899999999999844 445455543322 1 12555677888888888876554443
No 108
>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=70.67 E-value=7 Score=27.70 Aligned_cols=35 Identities=11% Similarity=-0.015 Sum_probs=28.7
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
...+||.|.|- + .....+.++|.++++|+++.+..
T Consensus 111 ~~DvVi~~~d~-~-~~r~~l~~~~~~~~ip~i~~g~~ 145 (228)
T cd00757 111 GYDLVLDCTDN-F-ATRYLINDACVKLGKPLVSGAVL 145 (228)
T ss_pred CCCEEEEcCCC-H-HHHHHHHHHHHHcCCCEEEEEec
Confidence 37899999994 5 45677999999999999988654
No 109
>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=70.63 E-value=12 Score=23.55 Aligned_cols=42 Identities=17% Similarity=0.031 Sum_probs=28.1
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
..+..+++--|.+..+........+.+.++|++.+.+|.+|-
T Consensus 73 ~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~ 114 (158)
T cd01879 73 EKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDEA 114 (158)
T ss_pred CCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhhc
Confidence 456677777676643322334445567899999999998873
No 110
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=70.54 E-value=40 Score=25.70 Aligned_cols=76 Identities=13% Similarity=0.151 Sum_probs=47.6
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIG 85 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~ 85 (91)
+.|-. ++.++|+-++...++ ..+|..+|++.+.|-+.+.+-+||....=.. ...++++--..-=+...+.+++.++
T Consensus 207 k~la~-~~Dl~iVVG~~nSSN-s~rL~eiA~~~g~~aylId~~~ei~~~w~~~-~~~VGvTAGAStPd~lV~~Vi~~l~ 282 (294)
T COG0761 207 KELAP-EVDLVIVVGSKNSSN-SNRLAEIAKRHGKPAYLIDDAEEIDPEWLKG-VKTVGVTAGASTPDWLVQEVIAKLR 282 (294)
T ss_pred HHHhh-cCCEEEEECCCCCcc-HHHHHHHHHHhCCCeEEeCChHhCCHHHhcC-ccEEEEecCCCCCHHHHHHHHHHHH
Confidence 34433 377777777765544 4679999999999999999999887654433 3344554433222334444444443
No 111
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=70.54 E-value=15 Score=29.03 Aligned_cols=51 Identities=10% Similarity=-0.013 Sum_probs=41.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.+..+.+++.++.-|+||-+..+.+-...+...|+..++++..+++-.++.
T Consensus 193 ~dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~~v~V~ivP~l~~~~ 243 (463)
T PRK10124 193 QQLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADTTCSVLLIPDVFTFN 243 (463)
T ss_pred HHHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHcCCeEEEecchhhcc
Confidence 456677889999999999887665566788999999999999888876543
No 112
>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=70.54 E-value=18 Score=22.56 Aligned_cols=72 Identities=24% Similarity=0.155 Sum_probs=39.4
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC-----CCceEEEEEecCchHHHHHHHHHHHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR-----KKPCICVIVKSTESVAELYEEVKQEI 84 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~-----~~~~~v~~i~~~~~~~~~~~~~~~~~ 84 (91)
.+.++++--|++...-......+....++|++.+.||.++...... .......-..++...++.++.|.+.+
T Consensus 80 ~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~ 156 (157)
T cd04164 80 EADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPDSELLSLLAGKPIIAISAKTGEGLDELKEALLELA 156 (157)
T ss_pred hCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCccccccccCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence 4556666666662222222333333678999999999998754422 11122222234445567777766554
No 113
>PRK10864 putative methyltransferase; Provisional
Probab=70.33 E-value=43 Score=25.89 Aligned_cols=65 Identities=20% Similarity=0.336 Sum_probs=45.7
Q ss_pred hHHHHHHHh--CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc-eEEEEEecC
Q psy6265 3 STVQGPLQR--KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIVKST 70 (91)
Q Consensus 3 kev~kai~~--gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~-~~v~~i~~~ 70 (91)
|-|..++++ ..+.-+++.....+ . ...+..+++.++++|..+ +.++|-+.+|.... .+++++...
T Consensus 115 ~aV~ealk~~~~~i~~l~~~~~~~~-~-~~~il~~~~~~~~~v~~V-~~~~l~kls~~~~hqGV~A~v~~~ 182 (346)
T PRK10864 115 NACQALFQSRPEAIVRAWFIQSVTP-R-FKEALRWMAANRKAYHVV-DEAELTKASGTEHHGGVCFLIKKR 182 (346)
T ss_pred HHHHHHHhCCCCceeEEEEecCccH-H-HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEeCC
Confidence 567788875 34667777877765 3 355777788889986654 88899999997644 555566543
No 114
>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=70.28 E-value=11 Score=27.31 Aligned_cols=39 Identities=21% Similarity=0.126 Sum_probs=30.1
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.+-.++..+||.|-|..+ .+..+..+|.+++||++...+
T Consensus 97 ~l~~~~~D~VvdaiD~~~--~k~~L~~~c~~~~ip~I~s~g 135 (231)
T cd00755 97 DLLGGDPDFVVDAIDSIR--AKVALIAYCRKRKIPVISSMG 135 (231)
T ss_pred HHhcCCCCEEEEcCCCHH--HHHHHHHHHHHhCCCEEEEeC
Confidence 344456889999999644 456799999999999998743
No 115
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=70.23 E-value=18 Score=23.01 Aligned_cols=54 Identities=13% Similarity=0.175 Sum_probs=41.1
Q ss_pred HHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC----chHHHHHHHHHHHhhcCC
Q psy6265 35 VCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST----ESVAELYEEVKQEIGALP 88 (91)
Q Consensus 35 lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~----~~~~~~~~~~~~~~~~~~ 88 (91)
.=++.|..++.+.+-+++-..+......++++++.. ....+.++++.+.-..+|
T Consensus 12 ~L~~~~~~vv~~~~~dd~~~~i~~~~~i~avvi~~d~~~~~~~~~ll~~i~~~~~~iP 69 (115)
T PF03709_consen 12 ALEQRGREVVDADSTDDALAIIESFTDIAAVVISWDGEEEDEAQELLDKIRERNFGIP 69 (115)
T ss_dssp HHHHTTTEEEEESSHHHHHHHHHCTTTEEEEEEECHHHHHHHHHHHHHHHHHHSTT-E
T ss_pred HHHHCCCEEEEeCChHHHHHHHHhCCCeeEEEEEcccccchhHHHHHHHHHHhCCCCC
Confidence 334589999999999999999999888888888877 444566666666555555
No 116
>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=70.16 E-value=8.5 Score=26.73 Aligned_cols=50 Identities=8% Similarity=0.052 Sum_probs=32.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCC-EEEeCCHhH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKD 51 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP-~~~~~sk~e 51 (91)
.+++..++..-.+-++++..+-........+..++...++| ++.+-+|.+
T Consensus 79 ~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D 129 (195)
T cd01884 79 IKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKAD 129 (195)
T ss_pred HHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCC
Confidence 56778888877777777766544323334566678888998 445545544
No 117
>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=70.11 E-value=6 Score=25.50 Aligned_cols=34 Identities=18% Similarity=0.202 Sum_probs=26.4
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
...+||.+.|- . .....+..+|.++++|+++..+
T Consensus 92 ~~d~vi~~~d~-~-~~~~~l~~~~~~~~~p~i~~~~ 125 (135)
T PF00899_consen 92 DYDIVIDCVDS-L-AARLLLNEICREYGIPFIDAGV 125 (135)
T ss_dssp TSSEEEEESSS-H-HHHHHHHHHHHHTT-EEEEEEE
T ss_pred CCCEEEEecCC-H-HHHHHHHHHHHHcCCCEEEEEe
Confidence 46789999885 3 4566789999999999998764
No 118
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=70.09 E-value=13 Score=28.36 Aligned_cols=42 Identities=17% Similarity=0.147 Sum_probs=34.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++..+.+-+.+.-.+|++.+..++. .+...|++++||+....
T Consensus 72 ~~~~~~l~~~~~P~iIvt~~~~~p~---~l~~~a~~~~ipll~t~ 113 (308)
T PRK05428 72 KERLKKLFSLEPPCIIVTRGLEPPP---ELLEAAKEAGIPLLRTP 113 (308)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCCH---HHHHHHHHcCCcEEEeC
Confidence 4567778888899999999998753 37899999999998655
No 119
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=69.88 E-value=22 Score=28.72 Aligned_cols=49 Identities=27% Similarity=0.249 Sum_probs=35.0
Q ss_pred hHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265 3 STVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST 70 (91)
Q Consensus 3 kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~ 70 (91)
+.+++-|-..| -.|+.+|.|-.+ +. .||+.||-++-.+.+..+++++..
T Consensus 216 rTtirGL~gqk~dYglLvVaAddG~-~~------------------~tkEHLgi~~a~~lPviVvvTK~D 266 (527)
T COG5258 216 RTTIRGLLGQKVDYGLLVVAADDGV-TK------------------MTKEHLGIALAMELPVIVVVTKID 266 (527)
T ss_pred HHHHHHHhccccceEEEEEEccCCc-ch------------------hhhHhhhhhhhhcCCEEEEEEecc
Confidence 45666665555 456666777556 21 478999999999999988888764
No 120
>COG2229 Predicted GTPase [General function prediction only]
Probab=69.79 E-value=33 Score=24.46 Aligned_cols=78 Identities=17% Similarity=0.211 Sum_probs=48.6
Q ss_pred HHHHHhCCceEEEEeCCCCchhH-HhhHHHHHhcCC-CCEEEeCCHhHHhhHhCC------------CCceEEEEEecCc
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEI-MCHLPAVCEDKD-IPYCYVPSKKDIGEALGR------------KKPCICVIVKSTE 71 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~-~~~l~~lc~~~~-IP~~~~~sk~eLG~a~G~------------~~~~~v~~i~~~~ 71 (91)
..-+-+|-.++||+-.+..|.+. ..++..+-+..+ ||++..-+|.+|..+..- .....-.-..+++
T Consensus 85 ~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~~~~~vi~~~a~e~~ 164 (187)
T COG2229 85 WEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVVAINKQDLFDALPPEKIREALKLELLSVPVIEIDATEGE 164 (187)
T ss_pred HHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCCEEEEeeccccCCCCCHHHHHHHHHhccCCCceeeeecccch
Confidence 44566788888888777766442 134555555555 999999999999877442 2223222233345
Q ss_pred hHHHHHHHHHHH
Q psy6265 72 SVAELYEEVKQE 83 (91)
Q Consensus 72 ~~~~~~~~~~~~ 83 (91)
+..+.++.+...
T Consensus 165 ~~~~~L~~ll~~ 176 (187)
T COG2229 165 GARDQLDVLLLK 176 (187)
T ss_pred hHHHHHHHHHhh
Confidence 556667766554
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=69.55 E-value=2.5 Score=27.27 Aligned_cols=46 Identities=13% Similarity=0.086 Sum_probs=35.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++++...|++.+--++++...+.-......+..+++..++|++...
T Consensus 1 i~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 1 IDEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEG
T ss_pred CHHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecC
Confidence 4678889999988888888776533456789999999999998665
No 122
>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=69.35 E-value=8.2 Score=26.98 Aligned_cols=36 Identities=3% Similarity=0.105 Sum_probs=27.9
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
+..+||.+.|- + +....+.++|.+++||++...+.-
T Consensus 110 ~~dvVi~~~~~-~-~~~~~ln~~c~~~~ip~i~~~~~G 145 (197)
T cd01492 110 QFDVVVATELS-R-AELVKINELCRKLGVKFYATGVHG 145 (197)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEecC
Confidence 46788888773 4 566789999999999998877633
No 123
>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=69.27 E-value=23 Score=24.11 Aligned_cols=53 Identities=26% Similarity=0.164 Sum_probs=36.4
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G 57 (91)
+.+.+..++..+++.--|++..+--..+...-.+.++|++.+.+|.++-+.-|
T Consensus 70 ~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g 122 (156)
T PF02421_consen 70 ARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAERKG 122 (156)
T ss_dssp HHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTT
T ss_pred HHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcC
Confidence 45667788899999999987643222344555688999998887655444333
No 124
>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=69.04 E-value=12 Score=22.39 Aligned_cols=36 Identities=17% Similarity=0.252 Sum_probs=21.7
Q ss_pred CceEEEEeCCCCchhHH-----------------hhHHHHHhcCCCCEEEeCC
Q psy6265 13 TIMLCIFAGDVTPIEIM-----------------CHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~-----------------~~l~~lc~~~~IP~~~~~s 48 (91)
.-..|+++.+.+|..+. +|.--+|++.+||++.--.
T Consensus 9 ~~~~IlV~~~~~p~~~~~~~~~~~Giv~~~Gg~~SH~aIlAr~~giP~ivg~~ 61 (80)
T PF00391_consen 9 PEGVILVAEELTPSDLALDLQRVAGIVTEEGGPTSHAAILARELGIPAIVGVG 61 (80)
T ss_dssp TSTEEEEESS--TTCHHSHHTTSSEEEESSSSTTSHHHHHHHHTT-EEEESTT
T ss_pred CCCEEEEECCCCHHHHhcchhheEEEEEEcCCccchHHHHHHHcCCCEEEeec
Confidence 34456666666664333 6788889999999876443
No 125
>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=68.70 E-value=23 Score=25.40 Aligned_cols=50 Identities=14% Similarity=0.099 Sum_probs=30.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.++..+++.-..-++++..+.........+...++..++|.+.+.+|.++
T Consensus 79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~iivvNK~D~ 128 (268)
T cd04170 79 GETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRIIFINKMDR 128 (268)
T ss_pred HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCcc
Confidence 45677777666555555443322222344566788889999888777664
No 126
>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=68.68 E-value=16 Score=26.47 Aligned_cols=16 Identities=19% Similarity=0.434 Sum_probs=8.5
Q ss_pred hHHHHHhcCCCCEEEe
Q psy6265 31 HLPAVCEDKDIPYCYV 46 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~ 46 (91)
.+..+.++++|++++.
T Consensus 208 ~l~~~ik~~~v~~if~ 223 (266)
T cd01018 208 RLIDLAKEKGVRVVFV 223 (266)
T ss_pred HHHHHHHHcCCCEEEE
Confidence 3555555555555554
No 127
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=68.65 E-value=19 Score=20.33 Aligned_cols=66 Identities=9% Similarity=0.079 Sum_probs=45.5
Q ss_pred eEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCC
Q psy6265 15 MLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALP 88 (91)
Q Consensus 15 ~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~ 88 (91)
.+.+.+.|- | .+...+.....+.++.+..+.+.. +......+.+.-+-.+.+..++.+...++++|
T Consensus 2 ~l~i~~~d~-~-g~l~~I~~~la~~~inI~~i~~~~------~~~~~~~i~~~v~v~~~~~~l~~l~~~L~~i~ 67 (76)
T cd04888 2 TLSLLLEHR-P-GVLSKVLNTIAQVRGNVLTINQNI------PIHGRANVTISIDTSTMNGDIDELLEELREID 67 (76)
T ss_pred EEEEEecCC-C-chHHHHHHHHHHcCCCEEEEEeCC------CCCCeEEEEEEEEcCchHHHHHHHHHHHhcCC
Confidence 577888885 5 456778888899999998875431 11123445555555554557999999999886
No 128
>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=68.54 E-value=9.1 Score=26.73 Aligned_cols=34 Identities=12% Similarity=0.087 Sum_probs=27.7
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+||.|.|- + +....+..+|.++++|+++...
T Consensus 111 ~~D~Vi~~~d~-~-~~r~~l~~~~~~~~ip~i~~~~ 144 (202)
T TIGR02356 111 NVDLVLDCTDN-F-ATRYLINDACVALGTPLISAAV 144 (202)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEe
Confidence 47799999885 4 4566799999999999998764
No 129
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=68.42 E-value=35 Score=25.53 Aligned_cols=59 Identities=20% Similarity=0.188 Sum_probs=43.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC--HhHHhhHhCCCCceEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS--KKDIGEALGRKKPCIC 64 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s--k~eLG~a~G~~~~~~v 64 (91)
.+++..++. ..-+|+..=++| ++...+...|+.++||++.+.+ -..|...+|.+..-..
T Consensus 49 ~~i~~~~~~--~~~iV~~Tlv~~-elr~~l~~~~~~~~i~~vdll~p~i~~le~~lg~~p~~~p 109 (269)
T PRK05339 49 DEVLEEINA--ERPIVFYTLVDP-ELREILEERCAEFGIPCIDILGPLIAPLEQELGLKPTPEP 109 (269)
T ss_pred HHHHHHHHh--cCCEEEEeCCCH-HHHHHHHHHHHHcCCCEEeccHHHHHHHHHHHCcCCCCCC
Confidence 455566654 334677777778 7999999999999999998775 4588999998754433
No 130
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=68.30 E-value=41 Score=24.09 Aligned_cols=63 Identities=14% Similarity=0.170 Sum_probs=41.9
Q ss_pred hHHHHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCC-ceEEEEEecC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKK-PCICVIVKST 70 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~-~~~v~~i~~~ 70 (91)
|-|..+++++ .++.+ .... ++ + ...+..+|++++||+..+ ++++|-+.+|... ...++.+...
T Consensus 8 ~~v~eal~~~-~~~~~-~~~~~~~-~-~~~~~~~~~~~~~~~~~v-~~~~l~~l~~~~~~qGv~a~~~~~ 72 (237)
T TIGR00186 8 NAVLEALLNQ-QRVFI-LKGLESK-R-LKKLIQLAKKQGINIQLV-DRQKLDQLTKGGNHQGIAAKVKPI 72 (237)
T ss_pred HHHHHHHhCC-CEEEE-EecCcch-H-HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEecC
Confidence 5677788877 33333 2322 33 3 345778889999999887 6889999998654 4666666543
No 131
>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=68.19 E-value=21 Score=20.70 Aligned_cols=63 Identities=10% Similarity=0.124 Sum_probs=37.0
Q ss_pred HHHHHhCCceEEEEeCCCC-chhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCCCCceEEEEEecCch
Q psy6265 6 QGPLQRKTIMLCIFAGDVT-PIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~s-p~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
.+......+.++.+..|.. +.. +..+.++++.|+.+.. ...++.+..|....-...+++..|.
T Consensus 45 ~~~~~~~~~~~~~v~~d~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~l~d~~g~ 109 (116)
T cd02966 45 AKEYKDDGVEVVGVNVDDDDPAA----VKAFLKKYGITFPVLLDPDGELAKAYGVRGLPTTFLIDRDGR 109 (116)
T ss_pred HHHhCCCCeEEEEEECCCCCHHH----HHHHHHHcCCCcceEEcCcchHHHhcCcCccceEEEECCCCc
Confidence 3334434567777777754 433 3344456666654433 3478899999864445666666654
No 132
>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=68.10 E-value=15 Score=25.35 Aligned_cols=45 Identities=18% Similarity=0.058 Sum_probs=35.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+++...|++.+--++++..-+........+..+++..++|++...
T Consensus 18 ~~aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~ 62 (162)
T TIGR00315 18 KLVAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATA 62 (162)
T ss_pred HHHHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcC
Confidence 456778888887788887777533567889999999999998766
No 133
>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=68.07 E-value=7 Score=29.68 Aligned_cols=46 Identities=11% Similarity=0.104 Sum_probs=32.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+++++.|.++++.-+|+..+.++......+..+|.+++||++.+.
T Consensus 51 ~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~ 96 (362)
T cd06378 51 LTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIH 96 (362)
T ss_pred HHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEec
Confidence 5778888888889877778777652222235566677999998753
No 134
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=66.99 E-value=18 Score=25.29 Aligned_cols=46 Identities=9% Similarity=0.096 Sum_probs=35.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCc-hhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTP-IEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp-~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++...|++.+--++++...+.. .+....+.++++..+||++....
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 45677888888888888877754 45677899999999999986554
No 135
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. 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=66.85 E-value=7.7 Score=22.17 Aligned_cols=36 Identities=6% Similarity=0.070 Sum_probs=23.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY 43 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~ 43 (91)
+..+ .+..|+ .+.+++.|-. -...++.+|+++|-.+
T Consensus 17 k~al-~~~~g~-~l~v~~d~~~---s~~~i~~~~~~~G~~~ 52 (67)
T cd03421 17 KKAL-ELEAGG-EIEVLVDNEV---AKENVSRFAESRGYEV 52 (67)
T ss_pred HHHH-hcCCCC-EEEEEEcChh---HHHHHHHHHHHcCCEE
Confidence 3444 444554 4667777732 2457999999999876
No 136
>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=66.70 E-value=24 Score=23.47 Aligned_cols=82 Identities=11% Similarity=0.037 Sum_probs=45.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCC--chh------------HHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVT--PIE------------IMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIV 67 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~s--p~~------------~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i 67 (91)
++++.+++++|+. |.|..|-. +.. ...-...++...++|++.+....+ + ..+..+-+.
T Consensus 80 ~~~~~~~l~~g~~--v~i~pD~~~~~~~~~~~~F~G~~~~~~~G~~~lA~~~~~pivp~~~~~~-----~-~~~~~i~~~ 151 (192)
T cd07984 80 LRELIRALKKGEI--VGILPDQDPGRKGGVFVPFFGRPAATPTGPARLALKTGAPVVPAFAYRL-----P-GGGYRIEFE 151 (192)
T ss_pred HHHHHHHHhCCCE--EEEEeCCCCCCCCCEEeccCCCCccchHHHHHHHHHHCCcEEEEEEEEc-----C-CCCEEEEEe
Confidence 5788899999874 34444443 211 233356788999999986654221 0 112223222
Q ss_pred ec-----Cc---hH-HHHHHHHHHHhhcCCCCC
Q psy6265 68 KS-----TE---SV-AELYEEVKQEIGALPVTW 91 (91)
Q Consensus 68 ~~-----~~---~~-~~~~~~~~~~~~~~~~~~ 91 (91)
.. .+ +. +...+.+.+.+++-|.+|
T Consensus 152 ~~i~~~~~~~~~~~~~~~~~~lE~~i~~~P~qw 184 (192)
T cd07984 152 PPLENPPSEDVEEDTQRLNDALEAAIREHPEQW 184 (192)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHhCchhh
Confidence 21 11 22 455555666688888887
No 137
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=66.41 E-value=22 Score=28.73 Aligned_cols=62 Identities=15% Similarity=0.105 Sum_probs=43.9
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
+.|..++.++..|..-......+..+|+.+++|+....+..++-..+..-...-..++|..|
T Consensus 283 ~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L~d~d~VLIDTaG 344 (484)
T PRK06995 283 RHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSELRNKHIVLIDTIG 344 (484)
T ss_pred hcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhccCCCeEEeCCCC
Confidence 45556778899998644556778889999999998877766655544332233477888877
No 138
>PRK10200 putative racemase; Provisional
Probab=66.36 E-value=35 Score=24.42 Aligned_cols=41 Identities=12% Similarity=0.158 Sum_probs=30.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+..+.|++..+.+++||-|+.- .. +..+-+..+||++..-
T Consensus 65 ~~~~~~L~~~g~~~iviaCNTah-~~---~~~l~~~~~iPii~ii 105 (230)
T PRK10200 65 AEAALGLQRAGAEGIVLCTNTMH-KV---ADAIESRCSLPFLHIA 105 (230)
T ss_pred HHHHHHHHHcCCCEEEECCchHH-HH---HHHHHHhCCCCEeehH
Confidence 46677888888999999999854 23 3555567789998743
No 139
>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=66.35 E-value=18 Score=28.75 Aligned_cols=55 Identities=5% Similarity=-0.031 Sum_probs=34.4
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh---HHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK---DIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~---eLG~a~G 57 (91)
+..++.+.+..+.+||++.|+++..+-.....+++++||-.+.--++. +|.+++|
T Consensus 262 ~~~v~~i~~~g~~lvi~~~~i~~~~v~~l~~~~l~~~~I~av~~~~~~~LerIa~~tG 319 (515)
T cd03338 262 LNMCKKIKKSGCNVLLIQKSILRDAVSDLALHFLAKLKIMVVKDIEREEIEFICKTIG 319 (515)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHHHCCceEEecCCHHHHHHHHHHHC
Confidence 344566777778999999998542222334556667888777655543 4444444
No 140
>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=65.72 E-value=10 Score=29.94 Aligned_cols=39 Identities=26% Similarity=0.301 Sum_probs=27.8
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE 54 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 54 (91)
..+|| +.+-++ ....++..+|.+++||++.+.+.--.|.
T Consensus 113 fdiVI-~t~~~~-~~~~~L~~~c~~~~iPlI~~~s~G~~G~ 151 (425)
T cd01493 113 FTVVI-ATNLPE-STLLRLADVLWSANIPLLYVRSYGLYGY 151 (425)
T ss_pred CCEEE-ECCCCH-HHHHHHHHHHHHcCCCEEEEecccCEEE
Confidence 34555 445445 4456699999999999999888665553
No 141
>PRK00124 hypothetical protein; Validated
Probab=65.61 E-value=22 Score=24.39 Aligned_cols=63 Identities=22% Similarity=0.152 Sum_probs=41.6
Q ss_pred EEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCC--ceEEEEEecCchHHHHHHHHHHHhhc
Q psy6265 17 CIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKK--PCICVIVKSTESVAELYEEVKQEIGA 86 (91)
Q Consensus 17 ViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~--~~~v~~i~~~~~~~~~~~~~~~~~~~ 86 (91)
++|=.|+-| ++.-+...|+++++|++++.|=. +.+..+. .+....++.+.+..+ +.|++.+++
T Consensus 3 I~VDADACP--Vk~~i~r~a~r~~i~v~~Vas~n---~~~~~~~~~~v~~v~V~~g~D~AD--~~Iv~~~~~ 67 (151)
T PRK00124 3 IYVDADACP--VKDIIIRVAERHGIPVTLVASFN---HFLRVPYSPFIRTVYVDAGFDAAD--NEIVQLAEK 67 (151)
T ss_pred EEEECCCCc--HHHHHHHHHHHHCCeEEEEEeCC---cccCCCCCCceEEEEeCCCCChHH--HHHHHhCCC
Confidence 778889889 78889999999999999987321 2233332 344556666665444 456655543
No 142
>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=65.55 E-value=41 Score=23.06 Aligned_cols=42 Identities=12% Similarity=0.120 Sum_probs=26.1
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
....+.+| +.-+|+..--+. .. ..+...|.+++||++.+.+-
T Consensus 48 i~~~i~~~-~d~Iiv~~~~~~-~~-~~~l~~~~~~gIpvv~~d~~ 89 (257)
T PF13407_consen 48 IEQAISQG-VDGIIVSPVDPD-SL-APFLEKAKAAGIPVVTVDSD 89 (257)
T ss_dssp HHHHHHTT-ESEEEEESSSTT-TT-HHHHHHHHHTTSEEEEESST
T ss_pred HHHHHHhc-CCEEEecCCCHH-HH-HHHHHHHhhcCceEEEEecc
Confidence 33444444 666665533222 23 35667789999999987765
No 143
>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=65.39 E-value=20 Score=23.23 Aligned_cols=52 Identities=12% Similarity=-0.029 Sum_probs=32.3
Q ss_pred ChhHHHHHHHhCCceEEEEeCCCCch--hHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 1 MNSTVQGPLQRKTIMLCIFAGDVTPI--EIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 1 ~~kev~kai~~gka~lViiA~D~sp~--~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
|-++..+.+.++ +.++++--|++.. ..-..+..+....+.|++.+.+|.+|.
T Consensus 1 ~~~~~~~~i~~~-aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~ 54 (156)
T cd01859 1 MWKRLVRRIIKE-SDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADLV 54 (156)
T ss_pred CHHHHHHHHHhh-CCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHhC
Confidence 456777777764 4455555555321 111234455566789999999999884
No 144
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=65.36 E-value=21 Score=26.15 Aligned_cols=44 Identities=25% Similarity=0.308 Sum_probs=34.4
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+-..-|+++++.+||=|+=--...+.+.....|++.||||+.+.
T Consensus 56 ~l~~~l~~~~i~~VIDATHPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 56 GLAAYLREEGIDLVIDATHPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred HHHHHHHHCCCCEEEECCCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 44566788899999966665455777889999999999998654
No 145
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=65.33 E-value=44 Score=26.55 Aligned_cols=72 Identities=10% Similarity=0.089 Sum_probs=49.9
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC---CceEEEEEecCchH---HHHHHHHHHHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK---KPCICVIVKSTESV---AELYEEVKQEI 84 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~---~~~~v~~i~~~~~~---~~~~~~~~~~~ 84 (91)
..+..+++.|..-..-...+..+++..++|+....+..+|..++..- ...-.+++|.+|-. ++..+++....
T Consensus 234 g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~~d~~~l~EL~~l~ 311 (407)
T PRK12726 234 NRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEISAYT 311 (407)
T ss_pred CCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCccCHHHHHHHHHHh
Confidence 35778899997543335678889999999998888888998876532 23457888887652 44455544433
No 146
>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=65.25 E-value=15 Score=25.12 Aligned_cols=40 Identities=13% Similarity=0.057 Sum_probs=25.6
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
++.++++-.|.+....-..+...+++.+.|++.+.||.++
T Consensus 80 ~~d~~l~v~~~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~ 119 (197)
T cd04104 80 EYDFFIIISSTRFSSNDVKLAKAIQCMGKKFYFVRTKVDR 119 (197)
T ss_pred CcCEEEEEeCCCCCHHHHHHHHHHHHhCCCEEEEEecccc
Confidence 3334333334333334445666777789999999999987
No 147
>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=65.09 E-value=25 Score=20.32 Aligned_cols=39 Identities=13% Similarity=0.180 Sum_probs=25.4
Q ss_pred HHHHHHhCCc--eEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 5 VQGPLQRKTI--MLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 5 v~kai~~gka--~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.++|++.+. .+.+++.|-.. ...++.+|++.|-.+...
T Consensus 16 ~k~~l~~l~~G~~l~V~~dd~~s---~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 16 LHKKVRKMKPGDTLLVLATDPST---TRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred HHHHHHcCCCCCEEEEEeCCCch---HHHHHHHHHHcCCEEEEE
Confidence 3444544432 36677777433 467999999999887643
No 148
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=65.03 E-value=41 Score=24.97 Aligned_cols=52 Identities=25% Similarity=0.242 Sum_probs=36.0
Q ss_pred HHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265 9 LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 9 i~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~ 68 (91)
+-.++.-+||.|-|. . ..+..+..+|.+++||++.. |-+.|+-.++-+-+.|
T Consensus 117 ll~~~~D~VIdaiD~-~-~~k~~L~~~c~~~~ip~I~~------gGag~k~dp~~~~~~d 168 (268)
T PRK15116 117 YMSAGFSYVIDAIDS-V-RPKAALIAYCRRNKIPLVTT------GGAGGQIDPTQIQVVD 168 (268)
T ss_pred HhcCCCCEEEEcCCC-H-HHHHHHHHHHHHcCCCEEEE------CCcccCCCCCeEEEEe
Confidence 334467899999995 3 33567999999999999977 4445665555444443
No 149
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=64.72 E-value=16 Score=26.09 Aligned_cols=48 Identities=19% Similarity=0.259 Sum_probs=34.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G 57 (91)
.|+.++++.| +++++ || .+-..+...|++++||++- +.|-.|+=++..
T Consensus 79 ~~~~~a~~aG-A~Fiv-----sP-~~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~~ 127 (213)
T PRK06552 79 VTARLAILAG-AQFIV-----SP-SFNRETAKICNLYQIPYLPGCMTVTEIVTALE 127 (213)
T ss_pred HHHHHHHHcC-CCEEE-----CC-CCCHHHHHHHHHcCCCEECCcCCHHHHHHHHH
Confidence 4667777777 66655 45 3444577889999999985 668888777764
No 150
>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=64.52 E-value=14 Score=26.67 Aligned_cols=51 Identities=16% Similarity=0.167 Sum_probs=37.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch------hHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI------EIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~------~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
+++++.+.+.+..+|++++|.... +....+....+..++|+..+....|..
T Consensus 30 ~~~i~~i~~~~~d~vv~~GDlv~~~~~~~~~~~~~~~~~l~~l~~p~~~v~GNHD~~ 86 (267)
T cd07396 30 EEAVEEWNRESLDFVVQLGDIIDGDNARAEEALDAVLAILDRLKGPVHHVLGNHDLY 86 (267)
T ss_pred HHHHHHHHcCCCCEEEECCCeecCCCchHHHHHHHHHHHHHhcCCCEEEecCccccc
Confidence 566778877889999999999632 123345666677889999888766654
No 151
>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=64.50 E-value=25 Score=20.37 Aligned_cols=39 Identities=8% Similarity=0.092 Sum_probs=25.0
Q ss_pred HHHHHHhCCc--eEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 5 VQGPLQRKTI--MLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 5 v~kai~~gka--~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.+++++-+. .+.+++.|-.. ...++.+|++.|-.+...
T Consensus 16 ~kkal~~l~~G~~l~V~~d~~~s---~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 16 TLEALPSLKPGEILEVISDCPQS---INNIPIDARNHGYKVLAI 56 (69)
T ss_pred HHHHHHcCCCCCEEEEEecCchH---HHHHHHHHHHcCCEEEEE
Confidence 3445544442 25667777433 467999999999877643
No 152
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=63.83 E-value=8.7 Score=29.79 Aligned_cols=29 Identities=24% Similarity=0.319 Sum_probs=23.2
Q ss_pred EEEEeCCCC---chhHHhhHHHHHhcCCCCEE
Q psy6265 16 LCIFAGDVT---PIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 16 lViiA~D~s---p~~~~~~l~~lc~~~~IP~~ 44 (91)
-+|.+.|.+ +..++++|..+|+++||||-
T Consensus 256 p~i~~~D~~~~~~~~l~~~L~~~A~~~~Ip~Q 287 (355)
T COG1363 256 PVIRVKDASGIYHPKLRKFLLELAEKNNIPYQ 287 (355)
T ss_pred CEEEEEcCCCCCCHHHHHHHHHHHHHcCCCeE
Confidence 456666764 33799999999999999994
No 153
>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=63.41 E-value=23 Score=25.74 Aligned_cols=19 Identities=16% Similarity=0.464 Sum_probs=12.7
Q ss_pred HhhHHHHHhcCCCCEEEeC
Q psy6265 29 MCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 29 ~~~l~~lc~~~~IP~~~~~ 47 (91)
...+..+.++++|++++..
T Consensus 209 l~~l~~~ik~~~v~~if~e 227 (282)
T cd01017 209 LAELVEFVKKSDVKYIFFE 227 (282)
T ss_pred HHHHHHHHHHcCCCEEEEe
Confidence 3456677777777777654
No 154
>PF09875 DUF2102: Uncharacterized protein conserved in archaea (DUF2102); InterPro: IPR012025 The exact functionof this protein unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=63.16 E-value=21 Score=23.17 Aligned_cols=54 Identities=19% Similarity=0.266 Sum_probs=32.1
Q ss_pred EEEEeCCC--CchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCC
Q psy6265 16 LCIFAGDV--TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPV 89 (91)
Q Consensus 16 lViiA~D~--sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~ 89 (91)
+||+++|+ +|.++..++- ..+-|+.. + -+|-+++-+++ ++.+++++++++++..
T Consensus 1 ~ivl~~~~~v~Ps~l~~~~~----~~~~~v~i-------------K-ETCFG~~i~Ge--~e~V~~~i~~iR~ld~ 56 (104)
T PF09875_consen 1 YIVLSSEANVSPSDLAMKLY----ELSLPVTI-------------K-ETCFGAMIEGE--EEEVDKVIEEIRKLDP 56 (104)
T ss_pred CEEeCCCCCcCHHHHHHHHH----hcCCCcee-------------e-ecceeeEEECC--HHHHHHHHHHHHhhCC
Confidence 47889886 7877665543 22333211 1 13444444444 3568999999988764
No 155
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=63.06 E-value=61 Score=25.19 Aligned_cols=80 Identities=14% Similarity=0.129 Sum_probs=55.2
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHh-------HHhhHhCCCCceEEEEEecCch------
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKK-------DIGEALGRKKPCICVIVKSTES------ 72 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~-------eLG~a~G~~~~~~v~~i~~~~~------ 72 (91)
+.++++.-+.++-|.|+--.--...|..++++.|+|++.-. ..+ .+-+| +.+..-++++|.+|-
T Consensus 161 ~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~A--kar~~DvvliDTAGRLhnk~n 238 (340)
T COG0552 161 KYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAA--KARGIDVVLIDTAGRLHNKKN 238 (340)
T ss_pred HHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHH--HHcCCCEEEEeCcccccCchh
Confidence 45566668899999999766667789999999999998732 111 11111 234455888998773
Q ss_pred HHHHHHHHHHHhhcCC
Q psy6265 73 VAELYEEVKQEIGALP 88 (91)
Q Consensus 73 ~~~~~~~~~~~~~~~~ 88 (91)
..+++++|.+-+++..
T Consensus 239 LM~EL~KI~rV~~k~~ 254 (340)
T COG0552 239 LMDELKKIVRVIKKDD 254 (340)
T ss_pred HHHHHHHHHHHhcccc
Confidence 4678888887766543
No 156
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=62.96 E-value=22 Score=24.92 Aligned_cols=44 Identities=18% Similarity=0.102 Sum_probs=36.8
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+...|++-+=-|.|+..++-..+...++..+.++.|||++-..+
T Consensus 28 ~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~ 71 (170)
T COG1880 28 VAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATAS 71 (170)
T ss_pred HHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecch
Confidence 45667888889999999998458899999999999999976553
No 157
>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=62.90 E-value=25 Score=28.00 Aligned_cols=48 Identities=8% Similarity=0.018 Sum_probs=32.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEA 55 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 55 (91)
++..+.|.+-++.+||.+.++++. . . .++.++||-.+...++.+|.+.
T Consensus 272 ~~~v~~i~~~g~~lvi~~~~I~~~-a-l---~~L~~~gI~~v~~v~~~~L~rI 319 (519)
T TIGR02339 272 KEMVDKIADAGANVVFCQKGIDDL-A-Q---HYLAKAGILAVRRVKKSDIEKL 319 (519)
T ss_pred HHHHHHHHhcCCcEEEECCCccHH-H-H---HHHHHCCCEEEecCCHHHHHHH
Confidence 345567777889999999999883 2 2 2345888877766666554443
No 158
>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=62.78 E-value=13 Score=26.92 Aligned_cols=34 Identities=15% Similarity=0.158 Sum_probs=27.5
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+||-|.|- + +....+.++|.+++||+++...
T Consensus 114 ~~DlVvd~~D~-~-~~r~~ln~~~~~~~ip~v~~~~ 147 (240)
T TIGR02355 114 EHDIVVDCTDN-V-EVRNQLNRQCFAAKVPLVSGAA 147 (240)
T ss_pred cCCEEEEcCCC-H-HHHHHHHHHHHHcCCCEEEEEe
Confidence 47799999996 4 4567799999999999997543
No 159
>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=62.54 E-value=45 Score=26.72 Aligned_cols=58 Identities=12% Similarity=0.146 Sum_probs=46.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCc-----hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTP-----IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp-----~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~ 63 (91)
..|..+.|+...+.-|||-+.|.- ..+.++| ++.+||++.+.+-....+.+|-.|-.-
T Consensus 325 g~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~kei----E~~GIPvV~i~~~~pI~~~vGanRiv~ 387 (431)
T TIGR01917 325 AKEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEI----ERAGIPVVHICTVTPIALTVGANRIIP 387 (431)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHH----HHcCCCEEEEeechhHHHhcCCCceec
Confidence 467888999999999999999852 1334444 679999999999999999999876544
No 160
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=62.53 E-value=10 Score=27.35 Aligned_cols=34 Identities=15% Similarity=0.050 Sum_probs=27.7
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
...+||.|.|- + +....+.++|.++++|++....
T Consensus 122 ~~DiVi~~~D~-~-~~r~~ln~~~~~~~ip~v~~~~ 155 (245)
T PRK05690 122 GHDLVLDCTDN-V-ATRNQLNRACFAAKKPLVSGAA 155 (245)
T ss_pred cCCEEEecCCC-H-HHHHHHHHHHHHhCCEEEEeee
Confidence 47799999994 4 4567899999999999998554
No 161
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=62.47 E-value=40 Score=21.82 Aligned_cols=67 Identities=13% Similarity=0.162 Sum_probs=46.0
Q ss_pred EEEEeCCCCchhHHhhHHHHHhcCCCCE-EEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcC
Q psy6265 16 LCIFAGDVTPIEIMCHLPAVCEDKDIPY-CYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGAL 87 (91)
Q Consensus 16 lViiA~D~sp~~~~~~l~~lc~~~~IP~-~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~ 87 (91)
+++.+.=.|-.=++++....++.+|+++ +...+..+++..++. .-+++ -+++-.=.++++.+.....
T Consensus 5 lLvC~aGmSTSlLV~Km~~aA~~kg~~~~I~A~s~~e~~~~~~~---~DvvL--lGPQv~y~~~~~~~~~~~~ 72 (102)
T COG1440 5 LLVCAAGMSTSLLVTKMKKAAESKGKDVTIEAYSETELSEYIDN---ADVVL--LGPQVRYMLKQLKEAAEEK 72 (102)
T ss_pred EEEecCCCcHHHHHHHHHHHHHhCCCceEEEEechhHHHHhhhc---CCEEE--EChHHHHHHHHHHHHhccc
Confidence 4455555566567889999999999998 568899999999982 22333 3555544555565555554
No 162
>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=62.31 E-value=38 Score=22.97 Aligned_cols=69 Identities=17% Similarity=0.052 Sum_probs=45.7
Q ss_pred CCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh----HhCCCC-ceEEEEEecCchHHHHHHHHHHHhhcCCC
Q psy6265 21 GDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE----ALGRKK-PCICVIVKSTESVAELYEEVKQEIGALPV 89 (91)
Q Consensus 21 ~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~----a~G~~~-~~~v~~i~~~~~~~~~~~~~~~~~~~~~~ 89 (91)
..++..++...+...|++.+.++..++++++... .+.... ...++....+.-..++.+.+++.|++..+
T Consensus 29 ~rv~g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~p 102 (172)
T PF03808_consen 29 ERVTGSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGP 102 (172)
T ss_pred cccCHHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCC
Confidence 4455668888899999999999999998876555 333343 34455455443335567777777766543
No 163
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=62.28 E-value=40 Score=25.74 Aligned_cols=47 Identities=15% Similarity=0.199 Sum_probs=33.6
Q ss_pred CceEEEEeCCCC---chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC
Q psy6265 13 TIMLCIFAGDVT---PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK 59 (91)
Q Consensus 13 ka~lViiA~D~s---p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~ 59 (91)
+.-+|++|.... |.+....+...|++++++++.-.|-+.|-+++--+
T Consensus 129 ~~d~VvlsGSlP~g~~~d~y~~li~~~~~~g~~vilD~Sg~~L~~~L~~~ 178 (310)
T COG1105 129 SDDIVVLSGSLPPGVPPDAYAELIRILRQQGAKVILDTSGEALLAALEAK 178 (310)
T ss_pred cCCEEEEeCCCCCCCCHHHHHHHHHHHHhcCCeEEEECChHHHHHHHccC
Confidence 344589998553 22677889999999999888777766666665544
No 164
>TIGR00035 asp_race aspartate racemase.
Probab=62.22 E-value=27 Score=24.67 Aligned_cols=46 Identities=9% Similarity=0.125 Sum_probs=32.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC--CHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP--SKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~--sk~eL 52 (91)
.+..+.+++..+.+++||-|+.. .. +..+-+..+||++.+. +.+.+
T Consensus 65 ~~~~~~L~~~g~d~iviaCNTah-~~---~~~l~~~~~iPii~i~~~~~~~~ 112 (229)
T TIGR00035 65 IDIAVKLENAGADFIIMPCNTAH-KF---AEDIQKAIGIPLISMIEETAEAV 112 (229)
T ss_pred HHHHHHHHHcCCCEEEECCccHH-HH---HHHHHHhCCCCEechHHHHHHHH
Confidence 35567777888999999999855 22 3455566789998743 34555
No 165
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=62.02 E-value=70 Score=26.44 Aligned_cols=45 Identities=16% Similarity=0.267 Sum_probs=32.6
Q ss_pred HHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265 7 GPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE 54 (91)
Q Consensus 7 kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 54 (91)
+.|- +++-++|+-++- |. + ..+|-.+|++.+.|..++.+.+||-.
T Consensus 201 ~~la-~~~d~~~vvGg~~Ss-N-t~~L~~i~~~~~~~~~~ie~~~el~~ 246 (647)
T PRK00087 201 EKLA-KKVDVMIVVGGKNSS-N-TTKLYEICKSNCTNTIHIENAGELPE 246 (647)
T ss_pred HHHH-hhCCEEEEECCCCCc-c-HHHHHHHHHHHCCCEEEECChHHCCH
Confidence 3443 345555555544 45 3 47899999999999999999999965
No 166
>PRK01889 GTPase RsgA; Reviewed
Probab=62.02 E-value=11 Score=28.79 Aligned_cols=27 Identities=15% Similarity=0.063 Sum_probs=23.7
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
....++..+|+..++|.+.+.||.+|.
T Consensus 129 ~~ldr~L~~a~~~~i~piIVLNK~DL~ 155 (356)
T PRK01889 129 RRIERYLALAWESGAEPVIVLTKADLC 155 (356)
T ss_pred hHHHHHHHHHHHcCCCEEEEEEChhcC
Confidence 367788899999999999999999984
No 167
>KOG0780|consensus
Probab=61.99 E-value=55 Score=26.42 Aligned_cols=80 Identities=20% Similarity=0.243 Sum_probs=56.7
Q ss_pred HHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH------HhhHhCCCCceEEEEEecCch---HHHHHHH
Q psy6265 9 LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD------IGEALGRKKPCICVIVKSTES---VAELYEE 79 (91)
Q Consensus 9 i~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e------LG~a~G~~~~~~v~~i~~~~~---~~~~~~~ 79 (91)
+++.--+..++|.|+--..-...|...+.+.+||++--+|..+ -|=-=.++...=+.++|.+|- .++.|++
T Consensus 125 ~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfeE 204 (483)
T KOG0780|consen 125 YKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFEE 204 (483)
T ss_pred HHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHHH
Confidence 4555678889999997555677899999999999987665432 222223455666888998874 4677888
Q ss_pred HHHHhhcCC
Q psy6265 80 VKQEIGALP 88 (91)
Q Consensus 80 ~~~~~~~~~ 88 (91)
+.+--+.+.
T Consensus 205 M~~v~~ai~ 213 (483)
T KOG0780|consen 205 MKQVSKAIK 213 (483)
T ss_pred HHHHHhhcC
Confidence 877655554
No 168
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=61.90 E-value=61 Score=25.71 Aligned_cols=65 Identities=20% Similarity=0.286 Sum_probs=40.9
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh---H-HhhHhCCCCceEEEEEecCch
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK---D-IGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~---e-LG~a~G~~~~~~v~~i~~~~~ 72 (91)
.+.+...+..+++.|+........+..+|+..++|+....+.. + +-+++..-...-++++|.+|-
T Consensus 118 ~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~~~DvVIIDTAGr 186 (437)
T PRK00771 118 YFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKKADVIIVDTAGR 186 (437)
T ss_pred HHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHhhcCCEEEEECCCc
Confidence 4444446888899998644556678889999999986543221 1 223332211225788999864
No 169
>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=61.70 E-value=30 Score=27.68 Aligned_cols=46 Identities=9% Similarity=-0.005 Sum_probs=32.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
++.++.+.+-.+.+||.+.++++. ...++.++||..+...++.+|-
T Consensus 277 ~~~v~~i~~~g~~lvi~~~~I~~~-----al~~L~~~~I~av~~v~~~~Le 322 (526)
T cd03339 277 REMVEQVKDAGANLVICQWGFDDE-----ANHLLLQNGLPAVRWVGGVEIE 322 (526)
T ss_pred HHHHHHHHHCCCCEEEeCCCCCHH-----HHHHHHHCCCEEEEeCCHHHHH
Confidence 445666777778999999999883 2345678999888766655433
No 170
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=61.58 E-value=18 Score=26.52 Aligned_cols=41 Identities=27% Similarity=0.399 Sum_probs=33.0
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
...++.+++.+||=|.=--...+.......|++.+|||+.+
T Consensus 58 ~~~l~~~~i~~VIDAtHPfA~~is~~a~~a~~~~~ipylR~ 98 (256)
T TIGR00715 58 REFLKRHSIDILVDATHPFAAQITTNATAVCKELGIPYVRF 98 (256)
T ss_pred HHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHHHhCCcEEEE
Confidence 35677888999998876555567778899999999999865
No 171
>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=61.24 E-value=21 Score=27.01 Aligned_cols=52 Identities=15% Similarity=0.323 Sum_probs=37.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
+||+.+.+-+..-++|=|.=|. +..++.+.|.+.|.+++||++..-+...|.
T Consensus 135 IKE~vR~~I~~A~kVIAIVMD~FTD~dIf~DLleAa~kR~VpVYiLLD~~~~~ 187 (284)
T PF07894_consen 135 IKEVVRRMIQQAQKVIAIVMDVFTDVDIFCDLLEAANKRGVPVYILLDEQNLP 187 (284)
T ss_pred HHHHHHHHHHHhcceeEEEeeccccHHHHHHHHHHHHhcCCcEEEEechhcCh
Confidence 5777777755555555555554 233899999999999999998877665444
No 172
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=61.21 E-value=46 Score=22.16 Aligned_cols=67 Identities=12% Similarity=0.006 Sum_probs=36.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHh----cCCCCEEEeC-CHhHHhhHhCCCC------ceEEEEEecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCE----DKDIPYCYVP-SKKDIGEALGRKK------PCICVIVKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~----~~~IP~~~~~-sk~eLG~a~G~~~------~~~v~~i~~~~ 71 (91)
++..+......+.++.|+.|-.. .. ..+...-. ..++|+-.+. ...++.+..|... .-...+++..|
T Consensus 53 ~~~~~~~~~~~v~vv~Is~d~~~-~~-~~~~~~~~~~~~~~~~~f~~l~D~~~~~~~~~gv~~~~~~~~~p~~~lID~~G 130 (173)
T cd03015 53 SDRYEEFKKLNAEVLGVSTDSHF-SH-LAWRNTPRKEGGLGKINFPLLADPKKKISRDYGVLDEEEGVALRGTFIIDPEG 130 (173)
T ss_pred HHHHHHHHHCCCEEEEEecCCHH-HH-HHHHHhhhhhCCccCcceeEEECCchhHHHHhCCccccCCceeeEEEEECCCC
Confidence 34445566667889999887422 21 12221111 1456665444 5668888888641 12456666543
No 173
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=61.16 E-value=13 Score=23.70 Aligned_cols=34 Identities=9% Similarity=0.115 Sum_probs=25.5
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
....+++++.+++- ....+...|+.++||+..+.
T Consensus 49 ~~~DvIll~PQi~~--~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 49 AEYDLYLVSPQTKM--YFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred CCCCEEEEChHHHH--HHHHHHHHhhhcCCCEEEeC
Confidence 35678888888743 35678889999999987654
No 174
>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=60.36 E-value=39 Score=21.97 Aligned_cols=67 Identities=7% Similarity=0.081 Sum_probs=44.1
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC-----CceEEEEEecCchHHHHHHHH
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK-----KPCICVIVKSTESVAELYEEV 80 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~-----~~~~v~~i~~~~~~~~~~~~~ 80 (91)
.+..+.|+.++++=+.|.+ ++ ..+...++..++|+..+.+. |+. ..++++ + ++...+.+|++
T Consensus 42 ~~W~~~G~~KVvlk~~~~~--el-~~l~~~a~~~~l~~~~v~DA-------G~Tei~pgs~Tvla-i--gP~~~~~id~i 108 (115)
T TIGR00283 42 RKWLDEGQKKVVLKVNSLE--EL-LEIYHKAESLGLVTGLIRDA-------GHTQIPPGTITAVG-I--GPDEDEKIDKI 108 (115)
T ss_pred HHHHHcCCCEEEEEeCCHH--HH-HHHHHHHHHcCCCEEEEEcC-------CcceeCCCCcEEEE-E--CCCCHHHHHHH
Confidence 4566789999999888853 34 45888999999998766432 322 123333 3 55556778887
Q ss_pred HHHhh
Q psy6265 81 KQEIG 85 (91)
Q Consensus 81 ~~~~~ 85 (91)
.-+++
T Consensus 109 tg~Lk 113 (115)
T TIGR00283 109 TGDLK 113 (115)
T ss_pred hCCCc
Confidence 66553
No 175
>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=60.28 E-value=44 Score=22.07 Aligned_cols=48 Identities=23% Similarity=0.289 Sum_probs=29.9
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC----------HhHHhhHhCCCC
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS----------KKDIGEALGRKK 60 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s----------k~eLG~a~G~~~ 60 (91)
.|.+-+--+||......+ + +....++.+||++.+.+ -..||+++|++.
T Consensus 55 ~l~~l~PDlii~~~~~~~-~----~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~lg~~~g~~~ 112 (195)
T cd01143 55 KIVALKPDLVIVSSSSLA-E----LLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAEE 112 (195)
T ss_pred HHhccCCCEEEEcCCcCH-H----HHHHHHHcCCcEEEeCCCCCHHHHHHHHHHHHHHhCChH
Confidence 445556677776543322 2 33445788999876542 227999999863
No 176
>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=59.94 E-value=9.7 Score=24.91 Aligned_cols=41 Identities=22% Similarity=0.415 Sum_probs=25.1
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
..+|+.|-=-+=+-+.|.+|. -..+.++|++++||+-.+.+
T Consensus 41 ~~~i~AGvefieVYg~~~~p~--~~~ll~~c~~r~Ipvrlv~~ 81 (115)
T PF04705_consen 41 THSIRAGVEFIEVYGSDGSPV--PPELLAACRQRGIPVRLVDS 81 (115)
T ss_dssp HHHHCTT-EEEEEEEETTS-----CCCCHHHHCTT--EEEE-H
T ss_pred HHHHhcCcEEEEEeeecCCCC--ChHHHHHHHhcCCceEEecH
Confidence 345666654455668888873 46789999999999977664
No 177
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=59.91 E-value=29 Score=24.93 Aligned_cols=55 Identities=20% Similarity=0.340 Sum_probs=40.9
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchh---HHhhHHHHHhcCCCCEEEeCCHhHHhhHhC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIE---IMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~---~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G 57 (91)
.+.+.++++.|-.-+.+-..|.+..+ ....+..+|+++++|++ +.+.-+|-...|
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 46788999999888888899988754 34578999999999875 445555554444
No 178
>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=59.88 E-value=24 Score=26.86 Aligned_cols=51 Identities=18% Similarity=0.194 Sum_probs=39.9
Q ss_pred hHHHHHHHhCCceEEEEeC-------CC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAG-------DV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~-------D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.++...++.-+++++||=+ .. ....+...|..+|++.+||++-++|.+..-
T Consensus 135 ~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~ 193 (302)
T PF05621_consen 135 QQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYR 193 (302)
T ss_pred HHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHH
Confidence 4677888899999998732 22 233566778999999999999999998776
No 179
>PRK10867 signal recognition particle protein; Provisional
Probab=59.83 E-value=51 Score=26.17 Aligned_cols=59 Identities=22% Similarity=0.229 Sum_probs=39.1
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC---CHhHHhh-HhC--CCCceEEEEEecCc
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP---SKKDIGE-ALG--RKKPCICVIVKSTE 71 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~---sk~eLG~-a~G--~~~~~~v~~i~~~~ 71 (91)
..+..+++.|..-......+..+++..+||++... +-.++-+ ++. +....-++++|.+|
T Consensus 129 G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaG 193 (433)
T PRK10867 129 KKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAG 193 (433)
T ss_pred CCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCC
Confidence 46788899998654555678888999999987653 3334432 221 22234488899887
No 180
>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=59.59 E-value=33 Score=23.78 Aligned_cols=43 Identities=7% Similarity=-0.116 Sum_probs=25.3
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+...++.-+|+..- ++... ......+.+++||++.+.+
T Consensus 48 ~~i~~l~~~~vdgiii~~~-~~~~~-~~~l~~~~~~~ipvV~~~~ 90 (271)
T cd06312 48 RLIEAAIAAKPDGIVVTIP-DPDAL-DPAIKRAVAAGIPVISFNA 90 (271)
T ss_pred HHHHHHHHhCCCEEEEeCC-ChHHh-HHHHHHHHHCCCeEEEeCC
Confidence 3445555566777776652 23222 2344556788999988753
No 181
>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=59.39 E-value=24 Score=25.16 Aligned_cols=51 Identities=14% Similarity=-0.034 Sum_probs=34.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
..++..+++...+-++++...-.+..-...+...+...++|++.+.+|-++
T Consensus 87 ~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~ 137 (222)
T cd01885 87 SSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDR 137 (222)
T ss_pred HHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCc
Confidence 456778888877777777554333222344566677788999988888875
No 182
>KOG4201|consensus
Probab=59.22 E-value=27 Score=26.00 Aligned_cols=54 Identities=11% Similarity=0.173 Sum_probs=41.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCC-CEEEeCCHhHHhhHhCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDI-PYCYVPSKKDIGEALGR 58 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~I-P~~~~~sk~eLG~a~G~ 58 (91)
|...+-.+|.--.++|+.=.+... .+.+...|+..+. |++-+.+.+|+++++++
T Consensus 151 QI~~aR~~GADaVLLIvamLs~~~-lk~l~k~~K~L~me~LVEVn~~eEm~ralei 205 (289)
T KOG4201|consen 151 QIYEARLKGADAVLLIVAMLSDLL-LKELYKISKDLGMEPLVEVNDEEEMQRALEI 205 (289)
T ss_pred HHHHHHhcCCceeehHHHHcChHH-HHHHHHHHHHcCCcceeeeccHHHHHHHHHh
Confidence 344455667656666666666645 4568889999996 78999999999999998
No 183
>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=59.21 E-value=17 Score=23.28 Aligned_cols=20 Identities=15% Similarity=0.258 Sum_probs=9.9
Q ss_pred hHHHHHhcCCCCEEEeCCHh
Q psy6265 31 HLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~~sk~ 50 (91)
.+..+|++++|-++.++.-.
T Consensus 53 ~l~~~a~~~~idlvvvGPE~ 72 (100)
T PF02844_consen 53 ELADFAKENKIDLVVVGPEA 72 (100)
T ss_dssp HHHHHHHHTTESEEEESSHH
T ss_pred HHHHHHHHcCCCEEEECChH
Confidence 34455555555555554433
No 184
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=59.16 E-value=31 Score=27.28 Aligned_cols=60 Identities=10% Similarity=0.004 Sum_probs=45.4
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
+..+.-++..|..-......+..+|+..++|+..+.+..++..++..-...-..++|..|
T Consensus 220 ~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~d~VLIDTaG 279 (420)
T PRK14721 220 GADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGKHMVLIDTVG 279 (420)
T ss_pred CCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCCCEEEecCCC
Confidence 334556677787665667779999999999999999998887777654444577788765
No 185
>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=59.10 E-value=30 Score=25.31 Aligned_cols=44 Identities=23% Similarity=0.211 Sum_probs=33.4
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+-..-|+.+.+.+||=|+=--...+.......|++.||||+.+.
T Consensus 57 ~l~~~l~~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~e 100 (249)
T PF02571_consen 57 GLAEFLRENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRFE 100 (249)
T ss_pred HHHHHHHhCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEEE
Confidence 44566788889999966654444677778999999999998543
No 186
>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=58.95 E-value=44 Score=21.19 Aligned_cols=64 Identities=11% Similarity=0.113 Sum_probs=39.0
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC-H--hHHhhHhCCCCce------EEEEEecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS-K--KDIGEALGRKKPC------ICVIVKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s-k--~eLG~a~G~~~~~------~v~~i~~~~ 71 (91)
++..+..++..+.++.|..|. + . .+..+.+++++++-.+.+ . .++++..|..... +..+++..|
T Consensus 52 ~~~~~~~~~~~v~vi~vs~d~-~-~---~~~~~~~~~~~~~~~~~D~~~~~~~~~~~g~~~~~~~~~~~~~~lid~~G 124 (149)
T cd03018 52 RDSLELFEAAGAEVLGISVDS-P-F---SLRAWAEENGLTFPLLSDFWPHGEVAKAYGVFDEDLGVAERAVFVIDRDG 124 (149)
T ss_pred HHHHHHHHhCCCEEEEecCCC-H-H---HHHHHHHhcCCCceEecCCCchhHHHHHhCCccccCCCccceEEEECCCC
Confidence 344555666668888888774 3 2 244566777777765544 3 5788888865221 345666543
No 187
>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=58.94 E-value=27 Score=28.13 Aligned_cols=40 Identities=5% Similarity=0.252 Sum_probs=19.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~ 44 (91)
++..+.|++.+++.||.-...++ + .+.+..++++.++|++
T Consensus 410 ~~Li~~IK~~~V~~IF~Epq~~~-~-~~~l~~IA~e~Gv~V~ 449 (479)
T TIGR03772 410 RRLTRTIENLKVPAVFLEPNLAA-R-STTLNEIADELGVRVC 449 (479)
T ss_pred HHHHHHHHHcCCCEEEEeCCCCC-c-hHHHHHHHHHcCCcEE
Confidence 34445555555555555555443 1 1234445555555543
No 188
>PRK00007 elongation factor G; Reviewed
Probab=58.82 E-value=37 Score=28.22 Aligned_cols=51 Identities=12% Similarity=-0.016 Sum_probs=37.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.++.++++.-.+-++++.....+..-...+..++.+.++|.+.+-+|-++-
T Consensus 90 ~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~iv~vNK~D~~ 140 (693)
T PRK00007 90 IEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRIAFVNKMDRT 140 (693)
T ss_pred HHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCCEEEEEECCCCC
Confidence 578889988888888886554433334567788999999998777877754
No 189
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=58.33 E-value=25 Score=26.25 Aligned_cols=56 Identities=21% Similarity=0.202 Sum_probs=41.7
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE---------------eCCHhHHhhHhCCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY---------------VPSKKDIGEALGRK 59 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~---------------~~sk~eLG~a~G~~ 59 (91)
+-.+.|+...+.+||=|+---..++.......|++.||||+. +.|-+|+.+++++.
T Consensus 57 ~l~~~l~e~~i~llIDATHPyAa~iS~Na~~aake~gipy~r~eRP~~~~~gd~~~~V~d~~ea~~~~~~~ 127 (257)
T COG2099 57 GLAAFLREEGIDLLIDATHPYAARISQNAARAAKETGIPYLRLERPPWAPNGDNWIEVADIEEAAEAAKQL 127 (257)
T ss_pred HHHHHHHHcCCCEEEECCChHHHHHHHHHHHHHHHhCCcEEEEECCccccCCCceEEecCHHHHHHHHhcc
Confidence 345678899999999666544446777889999999999973 45566777777654
No 190
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=58.04 E-value=15 Score=26.63 Aligned_cols=35 Identities=17% Similarity=0.189 Sum_probs=28.2
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
+.|||.|.| ++ .+-..+-..|+.+++++..+.+.+
T Consensus 86 ~~LViaATd-D~-~vN~~I~~~a~~~~~lvn~vd~p~ 120 (223)
T PRK05562 86 KHLIVIATD-DE-KLNNKIRKHCDRLYKLYIDCSDYK 120 (223)
T ss_pred CcEEEECCC-CH-HHHHHHHHHHHHcCCeEEEcCCcc
Confidence 678999988 35 567789999999999988776653
No 191
>PRK00098 GTPase RsgA; Reviewed
Probab=57.82 E-value=16 Score=27.08 Aligned_cols=26 Identities=19% Similarity=0.181 Sum_probs=20.6
Q ss_pred HHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 28 IMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 28 ~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
...++...++..++|++.+.+|.+|-
T Consensus 99 ~idr~L~~~~~~~ip~iIVlNK~DL~ 124 (298)
T PRK00098 99 LLDRFLVLAEANGIKPIIVLNKIDLL 124 (298)
T ss_pred HHHHHHHHHHHCCCCEEEEEEhHHcC
Confidence 34556666788999999999999984
No 192
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=57.68 E-value=49 Score=23.61 Aligned_cols=55 Identities=9% Similarity=0.081 Sum_probs=37.3
Q ss_pred hHHHHHHHhCCce-EEEEeCCCCchh---HHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC
Q psy6265 3 STVQGPLQRKTIM-LCIFAGDVTPIE---IMCHLPAVCEDKDIPYCYVPSKKDIGEALGR 58 (91)
Q Consensus 3 kev~kai~~gka~-lViiA~D~sp~~---~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~ 58 (91)
..+..++..|.+. +.+=..|.+..+ +...+..+|+.+++|++ +.+.-+|...+|-
T Consensus 30 ~~l~~al~~G~v~~vQlR~K~l~~~~~~~~a~~l~~l~~~~gv~li-INd~~dlA~~~~a 88 (221)
T PRK06512 30 KLLRAALQGGDVASVILPQYGLDEATFQKQAEKLVPVIQEAGAAAL-IAGDSRIAGRVKA 88 (221)
T ss_pred HHHHHHHcCCCccEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEEE-EeCHHHHHHHhCC
Confidence 3455666777544 445567776544 35678999999999865 5667777777663
No 193
>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=57.61 E-value=43 Score=21.66 Aligned_cols=44 Identities=11% Similarity=0.195 Sum_probs=29.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCc-------hhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTP-------IEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp-------~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.+.++.+++..++++++..-..+ ..+...+..+|++++++++..
T Consensus 91 ~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d~ 141 (177)
T cd01822 91 RQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVPF 141 (177)
T ss_pred HHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEech
Confidence 56677777777888887543222 134455778899999988754
No 194
>CHL00071 tufA elongation factor Tu
Probab=57.54 E-value=39 Score=26.11 Aligned_cols=51 Identities=8% Similarity=0.050 Sum_probs=33.7
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCC-EEEeCCHhHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP-~~~~~sk~eL 52 (91)
++++..++..-.+-++++..+-.+......+..++...++| ++.+-+|.++
T Consensus 89 ~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~ 140 (409)
T CHL00071 89 VKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQ 140 (409)
T ss_pred HHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCC
Confidence 46677788777677777765533322334455788899999 5567788775
No 195
>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=57.46 E-value=18 Score=22.32 Aligned_cols=85 Identities=15% Similarity=0.122 Sum_probs=42.1
Q ss_pred hhHHHHHHHhC--CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh--HHhhHhC--CC--CceEEEEEecCchH
Q psy6265 2 NSTVQGPLQRK--TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK--DIGEALG--RK--KPCICVIVKSTESV 73 (91)
Q Consensus 2 ~kev~kai~~g--ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~--eLG~a~G--~~--~~~~v~~i~~~~~~ 73 (91)
+.+++.++.+. ..-=|||..|.++.+....+..+.+ .+.++.++...+ -++.+.. .+ ..--++++++...+
T Consensus 13 l~~~l~sl~~q~~~~~eiivvdd~s~d~~~~~~~~~~~-~~~~i~~i~~~~n~g~~~~~n~~~~~a~~~~i~~ld~D~~~ 91 (169)
T PF00535_consen 13 LERTLESLLKQTDPDFEIIVVDDGSTDETEEILEEYAE-SDPNIRYIRNPENLGFSAARNRGIKHAKGEYILFLDDDDII 91 (169)
T ss_dssp HHHHHHHHHHHSGCEEEEEEEECS-SSSHHHHHHHHHC-CSTTEEEEEHCCCSHHHHHHHHHHHH--SSEEEEEETTEEE
T ss_pred HHHHHHHHhhccCCCEEEEEeccccccccccccccccc-cccccccccccccccccccccccccccceeEEEEeCCCceE
Confidence 45677777665 3344455566554355555555555 455555444332 3333222 11 11246666665544
Q ss_pred -HHHHHHHHHHhhcC
Q psy6265 74 -AELYEEVKQEIGAL 87 (91)
Q Consensus 74 -~~~~~~~~~~~~~~ 87 (91)
.+.++.+.+.+.+.
T Consensus 92 ~~~~l~~l~~~~~~~ 106 (169)
T PF00535_consen 92 SPDWLEELVEALEKN 106 (169)
T ss_dssp -TTHHHHHHHHHHHC
T ss_pred cHHHHHHHHHHHHhC
Confidence 23466666665553
No 196
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=57.45 E-value=36 Score=20.01 Aligned_cols=45 Identities=16% Similarity=0.089 Sum_probs=25.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhc-CCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCED-KDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~-~~IP~~~~~ 47 (91)
.+....+++....++|+--+.+..+...-+..+.+. .++|++.+.
T Consensus 33 ~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t 78 (112)
T PF00072_consen 33 EEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVT 78 (112)
T ss_dssp HHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEE
T ss_pred HHHHHHhcccCceEEEEEeeeccccccccccccccccccccEEEec
Confidence 466777777778888887544432222223333332 467776544
No 197
>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=57.42 E-value=50 Score=23.83 Aligned_cols=48 Identities=8% Similarity=0.229 Sum_probs=30.7
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC---------HhHHhhHhCCCC
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS---------KKDIGEALGRKK 60 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s---------k~eLG~a~G~~~ 60 (91)
.|.+-+--+||.....++ +....+ ++.+||++++.. -..||+++|++.
T Consensus 86 ~I~al~PDlIi~~~~~~~-~~~~~l----~~~gi~v~~~~~~~~~~~~~~i~~lg~~~G~~~ 142 (289)
T TIGR03659 86 KIKSLKPTVVLSVTTLEE-DLGPKF----KQLGVEATFLNLTSVDGMKKSITELGEKYGREE 142 (289)
T ss_pred HHhccCCcEEEEcCcccH-HHHHHH----HHcCCcEEEEcCCCHHHHHHHHHHHHHHhCCHH
Confidence 455556778877655544 444444 466899876532 347999999763
No 198
>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=57.22 E-value=28 Score=25.43 Aligned_cols=18 Identities=17% Similarity=0.248 Sum_probs=11.3
Q ss_pred hhHHHHHhcCCCCEEEeC
Q psy6265 30 CHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 30 ~~l~~lc~~~~IP~~~~~ 47 (91)
..+..+.++++|++++..
T Consensus 200 ~~l~~~ik~~~v~~if~e 217 (276)
T cd01016 200 NELVDLIVERKIKAIFVE 217 (276)
T ss_pred HHHHHHHHHcCCCEEEEe
Confidence 446666667777766644
No 199
>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=57.18 E-value=6 Score=21.25 Aligned_cols=28 Identities=14% Similarity=0.141 Sum_probs=20.7
Q ss_pred HhhHHHHHhcCCCCEEEeCCHhHHhhHh
Q psy6265 29 MCHLPAVCEDKDIPYCYVPSKKDIGEAL 56 (91)
Q Consensus 29 ~~~l~~lc~~~~IP~~~~~sk~eLG~a~ 56 (91)
...|..+|++.+||-..-..|.||=.++
T Consensus 7 ~~eL~~iAk~lgI~~~~~~~K~eLI~~I 34 (43)
T PF07498_consen 7 LSELREIAKELGIEGYSKMRKQELIFAI 34 (43)
T ss_dssp HHHHHHHHHCTT-TTGCCS-HHHHHHHH
T ss_pred HHHHHHHHHHcCCCCCCcCCHHHHHHHH
Confidence 3568899999999988888898886554
No 200
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=57.16 E-value=51 Score=26.68 Aligned_cols=50 Identities=18% Similarity=0.120 Sum_probs=32.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.++..+++.-..-++++...-.......++...|+.+++|++.+-+|.++
T Consensus 94 ~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPiiv~iNK~D~ 143 (526)
T PRK00741 94 EDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKLDR 143 (526)
T ss_pred HHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEEEEEECCcc
Confidence 35677777666655555442222223456778999999999887777654
No 201
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626. This model represents sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ.
Probab=57.04 E-value=65 Score=22.58 Aligned_cols=83 Identities=8% Similarity=0.066 Sum_probs=46.3
Q ss_pred HHHHHHhCCceE------EEEeCCCCchhHHhhHHHHHhcCCCCE----EEeCCHhHHhhHhCCCCc-eEEEEEecCch-
Q psy6265 5 VQGPLQRKTIML------CIFAGDVTPIEIMCHLPAVCEDKDIPY----CYVPSKKDIGEALGRKKP-CICVIVKSTES- 72 (91)
Q Consensus 5 v~kai~~gka~l------ViiA~D~sp~~~~~~l~~lc~~~~IP~----~~~~sk~eLG~a~G~~~~-~~v~~i~~~~~- 72 (91)
.+.+|+...... .+|.-|-.+......+....++.++.+ +.......++.+.|...- .+..+++..|.
T Consensus 80 ~l~~l~~~~~~~~~y~~t~~IN~dd~~~~~~~fVk~fie~~~~~~P~~~vllD~~g~v~~~~gv~~~P~T~fVIDk~GkV 159 (184)
T TIGR01626 80 LIDAIKAAKFPPVKYQTTTIINADDAIVGTGMFVKSSAKKGKKENPWSQVVLDDKGAVKNAWQLNSEDSAIIVLDKTGKV 159 (184)
T ss_pred HHHHHHHcCCCcccccceEEEECccchhhHHHHHHHHHHHhcccCCcceEEECCcchHHHhcCCCCCCceEEEECCCCcE
Confidence 455665555666 666666443333333444445444332 445555567777787543 55467776553
Q ss_pred --------HHHHHHHHHHHhhcC
Q psy6265 73 --------VAELYEEVKQEIGAL 87 (91)
Q Consensus 73 --------~~~~~~~~~~~~~~~ 87 (91)
-+++++++...++++
T Consensus 160 v~~~~G~l~~ee~e~~~~li~~l 182 (184)
T TIGR01626 160 KFVKEGALSDSDIQTVISLVNGL 182 (184)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHH
Confidence 245677777766654
No 202
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=56.99 E-value=14 Score=28.87 Aligned_cols=34 Identities=21% Similarity=0.237 Sum_probs=25.9
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
-+-||+=|.|..-+....|+. ++++.++|++.++
T Consensus 101 gAILVVsA~dGpmPqTrEHiL-larqvGvp~ivvf 134 (394)
T COG0050 101 GAILVVAATDGPMPQTREHIL-LARQVGVPYIVVF 134 (394)
T ss_pred ccEEEEEcCCCCCCcchhhhh-hhhhcCCcEEEEE
Confidence 366788888876336678875 8999999998655
No 203
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=56.52 E-value=19 Score=22.22 Aligned_cols=38 Identities=13% Similarity=0.037 Sum_probs=29.8
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~ 45 (91)
+.-+..+.++.+|.+|... .+...+..+.++++|.++-
T Consensus 47 ~~~~~~~~~~~ii~ND~e~-~i~~~~~~a~~~y~I~~i~ 84 (88)
T PF08862_consen 47 KRNRKSNSKFYIILNDSEK-PISEDIINALEQYNIKPIP 84 (88)
T ss_pred hhccCCCceEEEEECCCCC-ccCHHHHHHHHHCCCceec
Confidence 4455667899999999864 4667888999999998764
No 204
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=56.02 E-value=21 Score=21.53 Aligned_cols=39 Identities=15% Similarity=0.187 Sum_probs=25.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCC-CCEE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKD-IPYC 44 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~-IP~~ 44 (91)
++..++.++.|+ .|-|++.|-. . +..++.+|+..+ ..++
T Consensus 22 ~kk~l~~m~~Ge-~LeV~~ddp~--~-~~dIp~~~~~~~~~~ll 61 (78)
T COG0425 22 TKKALAKLKPGE-ILEVIADDPA--A-KEDIPAWAKKEGGHELL 61 (78)
T ss_pred HHHHHHcCCCCC-EEEEEecCcc--h-HHHHHHHHHHcCCcEEE
Confidence 455666666664 4777788742 2 467999999555 5444
No 205
>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=55.88 E-value=24 Score=25.15 Aligned_cols=48 Identities=21% Similarity=0.286 Sum_probs=32.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G 57 (91)
.|+.++++.| ++++ +|| .+...+.+.|++++||++- +.|-.|.-+|..
T Consensus 71 ~~a~~a~~aG-A~Fi-----vsP-~~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~ 119 (204)
T TIGR01182 71 EQLRQAVDAG-AQFI-----VSP-GLTPELAKHAQDHGIPIIPGVATPSEIMLALE 119 (204)
T ss_pred HHHHHHHHcC-CCEE-----ECC-CCCHHHHHHHHHcCCcEECCCCCHHHHHHHHH
Confidence 4566666666 6665 345 3344577899999999975 567777666654
No 206
>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=55.46 E-value=44 Score=23.94 Aligned_cols=41 Identities=17% Similarity=0.169 Sum_probs=23.3
Q ss_pred HHHHHHHhCCceEEEEe-CCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFA-GDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA-~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.+..+...++.-+|+. .| + +........++..+||++.+.
T Consensus 48 ~~i~~l~~~~vdgiii~~~~--~-~~~~~~~~~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVD--P-TAAQTVINKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecCc--h-hhHHHHHHHHHHCCCCEEEeC
Confidence 34555555556555554 44 2 222344455678999998764
No 207
>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=55.39 E-value=28 Score=26.41 Aligned_cols=43 Identities=9% Similarity=-0.004 Sum_probs=33.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.+.++..+.+|.+...||....+. ...++..+|...+||.+..
T Consensus 55 ~~~~C~~~~~gv~~~AIiGp~ss~--~a~~V~si~~~~~IP~Is~ 97 (368)
T cd06383 55 LIEVCDKADSAIVPHLVLDTTTCG--DASEIKSVTGALGIPTFSA 97 (368)
T ss_pred HHHHHHHHHccCCcEEEECCCcch--hHHHHHHHHhccCCCEEEc
Confidence 355777888898777888887654 3456999999999999765
No 208
>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=55.36 E-value=48 Score=22.94 Aligned_cols=40 Identities=15% Similarity=0.131 Sum_probs=23.9
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++.+.+.++++.-+|+.....+.. ....+...+||++.++
T Consensus 55 ~~~~~l~~~~~dgiii~~~~~~~~----~~~~~~~~~ipvV~~~ 94 (275)
T cd06295 55 WLARYLASGRADGVILIGQHDQDP----LPERLAETGLPFVVWG 94 (275)
T ss_pred HHHHHHHhCCCCEEEEeCCCCChH----HHHHHHhCCCCEEEEC
Confidence 455667666776666544322212 2345678999988765
No 209
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=55.26 E-value=38 Score=22.37 Aligned_cols=82 Identities=12% Similarity=0.019 Sum_probs=40.9
Q ss_pred hhHHHHHHHhCCc--eEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC---------CceEEEEEecC
Q psy6265 2 NSTVQGPLQRKTI--MLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK---------KPCICVIVKST 70 (91)
Q Consensus 2 ~kev~kai~~gka--~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~---------~~~~v~~i~~~ 70 (91)
+.+++.+|.+..- .-|||..|.|......-+..+....++.++. ..+..|.+.|.. ..-.+++++..
T Consensus 12 l~~~l~sl~~q~~~~~eiiivD~~s~d~t~~~~~~~~~~~~i~~~~--~~~n~g~~~~~n~~~~~a~~~~~d~v~~ld~D 89 (202)
T cd04185 12 LKECLDALLAQTRPPDHIIVIDNASTDGTAEWLTSLGDLDNIVYLR--LPENLGGAGGFYEGVRRAYELGYDWIWLMDDD 89 (202)
T ss_pred HHHHHHHHHhccCCCceEEEEECCCCcchHHHHHHhcCCCceEEEE--CccccchhhHHHHHHHHHhccCCCEEEEeCCC
Confidence 4577888876532 2355555555435555555555555433333 333444333221 12245566554
Q ss_pred chH-HHHHHHHHHHhh
Q psy6265 71 ESV-AELYEEVKQEIG 85 (91)
Q Consensus 71 ~~~-~~~~~~~~~~~~ 85 (91)
... .+.++.+.+.++
T Consensus 90 ~~~~~~~l~~l~~~~~ 105 (202)
T cd04185 90 AIPDPDALEKLLAYAD 105 (202)
T ss_pred CCcChHHHHHHHHHHh
Confidence 433 455666666554
No 210
>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=55.24 E-value=42 Score=23.24 Aligned_cols=42 Identities=17% Similarity=0.154 Sum_probs=23.4
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.++.+.+.++.-+|+... ++.. ...+...+.+++||++.+.+
T Consensus 47 ~i~~~~~~~~Dgiii~~~-~~~~-~~~~i~~~~~~~iPvV~~~~ 88 (282)
T cd06318 47 DVEDLLTRGVNVLIINPV-DPEG-LVPAVAAAKAAGVPVVVVDS 88 (282)
T ss_pred HHHHHHHcCCCEEEEecC-Cccc-hHHHHHHHHHCCCCEEEecC
Confidence 455555666666666542 2212 22344555678999887653
No 211
>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=55.03 E-value=50 Score=20.67 Aligned_cols=55 Identities=11% Similarity=0.086 Sum_probs=33.0
Q ss_pred hHHHHHHHh---CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC----HhHHhhHhCC
Q psy6265 3 STVQGPLQR---KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS----KKDIGEALGR 58 (91)
Q Consensus 3 kev~kai~~---gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s----k~eLG~a~G~ 58 (91)
++....+.. +++.++.|+.|-.. +-...+..+.+++++++.++.+ ...|.+.+|.
T Consensus 46 ~~~~~~~~~~~~~~v~~v~vs~d~~~-d~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~g~ 107 (142)
T cd02968 46 AQALKQLGADGGDDVQVVFISVDPER-DTPEVLKAYAKAFGPGWIGLTGTPEEIEALAKAFGV 107 (142)
T ss_pred HHHHHHhhHhhcCceEEEEEEECCCC-CCHHHHHHHHHHhCCCcEEEECCHHHHHHHHHHhcE
Confidence 344445543 26889999887531 1123455667777766655443 3578888884
No 212
>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=54.88 E-value=39 Score=19.33 Aligned_cols=14 Identities=14% Similarity=0.240 Sum_probs=7.8
Q ss_pred HHHHHhcCCCCEEE
Q psy6265 32 LPAVCEDKDIPYCY 45 (91)
Q Consensus 32 l~~lc~~~~IP~~~ 45 (91)
...+.++++|+|..
T Consensus 15 a~~~L~~~~i~~~~ 28 (79)
T TIGR02181 15 AKALLSSKGVTFTE 28 (79)
T ss_pred HHHHHHHcCCCcEE
Confidence 44455566666644
No 213
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=54.83 E-value=32 Score=27.17 Aligned_cols=42 Identities=12% Similarity=0.301 Sum_probs=33.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch------hHHhhHHHHHhcCCCCEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI------EIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~------~~~~~l~~lc~~~~IP~~ 44 (91)
.+..+++..+++++.|+++==.|- +-..++.++|+++||.++
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 567889999999999999866553 234569999999999876
No 214
>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=54.83 E-value=42 Score=26.63 Aligned_cols=48 Identities=8% Similarity=0.058 Sum_probs=32.4
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEA 55 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 55 (91)
++.++.|.+-++.+||.+.++++. . .+ ++.++||-.+..-++.+|-+.
T Consensus 269 ~~~v~~i~~~g~~lvi~~~~I~~~-a-l~---~l~~~gI~~v~~v~~~~l~~I 316 (517)
T cd03343 269 KEMVDKIADTGANVVFCQKGIDDL-A-QH---YLAKAGILAVRRVKKSDMEKL 316 (517)
T ss_pred HHHHHHHHhcCCCEEEeCCCccHH-H-HH---HHhHCCcEEEEeCCHHHHHHH
Confidence 345567777789999999999883 2 22 335788877766666554443
No 215
>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=54.46 E-value=49 Score=23.15 Aligned_cols=43 Identities=5% Similarity=-0.071 Sum_probs=24.0
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+...++--+|+... ++ .....+...+.+.+||++.+.+
T Consensus 46 ~~i~~~~~~~vdgiii~~~-~~-~~~~~~i~~~~~~~iPvV~~~~ 88 (272)
T cd06313 46 AAIENMASQGWDFIAVDPL-GI-GTLTEAVQKAIARGIPVIDMGT 88 (272)
T ss_pred HHHHHHHHcCCCEEEEcCC-Ch-HHhHHHHHHHHHCCCcEEEeCC
Confidence 4455555566665666432 12 1223444566778999887653
No 216
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=54.18 E-value=61 Score=21.34 Aligned_cols=67 Identities=19% Similarity=0.138 Sum_probs=39.4
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHh----C--CCCceEEEEEecCchH
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEAL----G--RKKPCICVIVKSTESV 73 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~----G--~~~~~~v~~i~~~~~~ 73 (91)
..+.+...+.+++..|.........+..++++.++|+....+..++.... . .....-+.++|.+|..
T Consensus 22 ~~~~~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~viiDt~g~~ 94 (173)
T cd03115 22 LYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAREENFDVVIVDTAGRL 94 (173)
T ss_pred HHHHHCCCcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHHHhCCCCEEEEECcccc
Confidence 33444445777888886543445567778889999987765444433222 1 1222335668887753
No 217
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=54.04 E-value=37 Score=25.96 Aligned_cols=51 Identities=16% Similarity=0.357 Sum_probs=36.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP 61 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~ 61 (91)
+.+.++.+++..+++++ |+|...+...|. .. |...-++.+||..++|.+..
T Consensus 148 y~~li~~~~~~g~~vil---D~Sg~~L~~~L~----~~--P~lIKPN~~EL~~~~g~~~~ 198 (310)
T COG1105 148 YAELIRILRQQGAKVIL---DTSGEALLAALE----AK--PWLIKPNREELEALFGRELT 198 (310)
T ss_pred HHHHHHHHHhcCCeEEE---ECChHHHHHHHc----cC--CcEEecCHHHHHHHhCCCCC
Confidence 45677777777666554 666645544442 22 99999999999999998744
No 218
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=53.98 E-value=78 Score=25.19 Aligned_cols=73 Identities=21% Similarity=0.265 Sum_probs=44.5
Q ss_pred HHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh--------HHhhHhCCCCceEEEEEecCchH---HHHH
Q psy6265 9 LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK--------DIGEALGRKKPCICVIVKSTESV---AELY 77 (91)
Q Consensus 9 i~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~--------eLG~a~G~~~~~~v~~i~~~~~~---~~~~ 77 (91)
+++...+.++++.|.....-...+..+++..+||+....+.. .+-++- ....-++++|.+|-. +...
T Consensus 124 l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~--~~~~DvViIDTaGr~~~d~~lm 201 (429)
T TIGR01425 124 YQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK--KENFDIIIVDTSGRHKQEDSLF 201 (429)
T ss_pred HHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH--hCCCCEEEEECCCCCcchHHHH
Confidence 334345888999998654556667888999999987655322 222222 123447889987643 3344
Q ss_pred HHHHHH
Q psy6265 78 EEVKQE 83 (91)
Q Consensus 78 ~~~~~~ 83 (91)
+++...
T Consensus 202 ~El~~i 207 (429)
T TIGR01425 202 EEMLQV 207 (429)
T ss_pred HHHHHH
Confidence 444443
No 219
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=53.97 E-value=43 Score=19.57 Aligned_cols=66 Identities=8% Similarity=0.117 Sum_probs=41.5
Q ss_pred hHHHHHHH-hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE--eC--CHhHHhhHhCCCCceEEEEEecCch
Q psy6265 3 STVQGPLQ-RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY--VP--SKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 3 kev~kai~-~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~--~~--sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
++..+... ++++.+|.|..|-+..+..+ ..++++.|... +. ...+|.+..|....=...+++.+|+
T Consensus 24 ~~l~~~~~~~~~v~~v~Vs~d~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~iP~~~lld~~G~ 94 (95)
T PF13905_consen 24 KELYKKYKKKDDVEFVFVSLDEDEEEWKK----FLKKNNFPWYNVPFDDDNNSELLKKYGINGIPTLVLLDPDGK 94 (95)
T ss_dssp HHHHHHHTTTTTEEEEEEE-SSSHHHHHH----HHHTCTTSSEEEETTTHHHHHHHHHTT-TSSSEEEEEETTSB
T ss_pred HHHHHHhCCCCCEEEEEEEeCCCHHHHHH----HHHhcCCCceEEeeCcchHHHHHHHCCCCcCCEEEEECCCCC
Confidence 44455555 67899999999966544433 34555555332 22 2568999999887766788887764
No 220
>PRK08734 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=53.92 E-value=56 Score=24.12 Aligned_cols=45 Identities=13% Similarity=-0.005 Sum_probs=29.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch--------------hHHhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI--------------EIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~--------------~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++.++++++|+ .|.+..|-++. ....-...++...+.|++.++.
T Consensus 173 ~r~li~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FfG~~a~t~~g~a~LA~~~~apVvp~~~ 231 (305)
T PRK08734 173 VRQLFKVLKDGG--AVGILPDQQPKMGDGVFAPFFGIPALTMTLVNRLAERTGATVLYGWC 231 (305)
T ss_pred HHHHHHHHhcCC--eEEEeCCCCCCCCCCeEeccCCCccchhhHHHHHHHHhCCeEEEEEE
Confidence 468889999986 77777776542 1112234577788888876554
No 221
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=53.84 E-value=53 Score=20.58 Aligned_cols=50 Identities=16% Similarity=0.200 Sum_probs=30.7
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRK 59 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~ 59 (91)
..+..+...+.+|.|+.|..+ .. ..+++++++|+-. .....++.++.|..
T Consensus 49 ~~~~~~~~~v~vv~V~~~~~~-~~----~~~~~~~~~~~p~~~D~~~~~~~~~g~~ 99 (149)
T cd02970 49 LLPELDALGVELVAVGPESPE-KL----EAFDKGKFLPFPVYADPDRKLYRALGLV 99 (149)
T ss_pred HHHHHHhcCeEEEEEeCCCHH-HH----HHHHHhcCCCCeEEECCchhHHHHcCce
Confidence 344455556788888877433 22 2566777777643 34556788888863
No 222
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=53.63 E-value=36 Score=23.98 Aligned_cols=49 Identities=10% Similarity=0.022 Sum_probs=28.4
Q ss_pred hHHHHHHHhC------CceEEEEeCCCCch---hHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 3 STVQGPLQRK------TIMLCIFAGDVTPI---EIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 3 kev~kai~~g------ka~lViiA~D~sp~---~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
++..++++.- +..+|++|+|.... +-........+....|++++....|
T Consensus 25 ~~~~~~i~~~~~~~~~~~D~viiaGDl~~~~~~~~~~~~l~~l~~l~~~v~~V~GNHD 82 (232)
T cd07393 25 KNHTEKIKENWDNVVAPEDIVLIPGDISWAMKLEEAKLDLAWIDALPGTKVLLKGNHD 82 (232)
T ss_pred HHHHHHHHHHHHhcCCCCCEEEEcCCCccCCChHHHHHHHHHHHhCCCCeEEEeCCcc
Confidence 3555666555 89999999998731 1111223344455557766654433
No 223
>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=53.51 E-value=49 Score=22.82 Aligned_cols=41 Identities=12% Similarity=0.079 Sum_probs=23.0
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.++.+...++.-+|+..- ++..+ ......+++++||++.+.
T Consensus 52 ~~~~~~~~~vdgiIi~~~-~~~~~-~~~l~~~~~~~iPvv~~~ 92 (272)
T cd06300 52 DIRNLIAQGVDAIIINPA-SPTAL-NPVIEEACEAGIPVVSFD 92 (272)
T ss_pred HHHHHHHcCCCEEEEeCC-Chhhh-HHHHHHHHHCCCeEEEEe
Confidence 344445556766666542 22122 234456678899988754
No 224
>PRK10637 cysG siroheme synthase; Provisional
Probab=53.47 E-value=30 Score=27.26 Aligned_cols=36 Identities=25% Similarity=0.185 Sum_probs=27.7
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
.+.|||.|.|- + ++-..+-..|+..+|++..+.+.+
T Consensus 72 ~~~lv~~at~d-~-~~n~~i~~~a~~~~~lvN~~d~~~ 107 (457)
T PRK10637 72 TCWLAIAATDD-D-AVNQRVSEAAEARRIFCNVVDAPK 107 (457)
T ss_pred CCEEEEECCCC-H-HHhHHHHHHHHHcCcEEEECCCcc
Confidence 37789999874 4 566789999999999876666553
No 225
>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=53.46 E-value=30 Score=23.28 Aligned_cols=49 Identities=14% Similarity=0.042 Sum_probs=27.0
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
++...++.-..-++++...-.+......+...+...++|++.+.+|.+|
T Consensus 81 ~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl 129 (194)
T cd01891 81 EVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDR 129 (194)
T ss_pred HHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECCCC
Confidence 3444555544444444432222122233445566789999988888877
No 226
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=53.41 E-value=43 Score=25.90 Aligned_cols=38 Identities=24% Similarity=0.392 Sum_probs=30.9
Q ss_pred HHHHHhcCCCCEEEeCCHhHHhhHhCC-------------CCceEEEEEec
Q psy6265 32 LPAVCEDKDIPYCYVPSKKDIGEALGR-------------KKPCICVIVKS 69 (91)
Q Consensus 32 l~~lc~~~~IP~~~~~sk~eLG~a~G~-------------~~~~~v~~i~~ 69 (91)
-.+++++.++|++.+..-+-+|..+|- +..-|+.++|+
T Consensus 168 Akalane~kvp~l~vkat~liGehVGdgar~Ihely~rA~~~aPcivFiDE 218 (368)
T COG1223 168 AKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDE 218 (368)
T ss_pred HHHHhcccCCceEEechHHHHHHHhhhHHHHHHHHHHHHHhcCCeEEEehh
Confidence 468899999999999999999999993 33445777776
No 227
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=53.30 E-value=61 Score=21.12 Aligned_cols=52 Identities=21% Similarity=0.172 Sum_probs=32.3
Q ss_pred CCCEEEeCCHhHHhhHhC--------CCCc--eEEEEEecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 40 DIPYCYVPSKKDIGEALG--------RKKP--CICVIVKSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 40 ~IP~~~~~sk~eLG~a~G--------~~~~--~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
++|++.+.+|.+|-..-- .... ..-.--..+....+.|+.|.+.+-+.|.-|
T Consensus 104 ~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~~ 165 (166)
T cd00877 104 NIPIVLCGNKVDIKDRKVKAKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLGNPNLE 165 (166)
T ss_pred CCcEEEEEEchhcccccCCHHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHhccccc
Confidence 799999999888741110 0111 111122335567889999998888777654
No 228
>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=53.09 E-value=37 Score=26.34 Aligned_cols=50 Identities=20% Similarity=0.038 Sum_probs=38.6
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCC-CEEEeCCHhHHh
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDI-PYCYVPSKKDIG 53 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~I-P~~~~~sk~eLG 53 (91)
+..+.+++.++.-|++|-+....+....+...|++.++ ++..+++-.++.
T Consensus 179 ~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~~~v~~V~~vP~~~e~~ 229 (456)
T TIGR03022 179 DALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGALHFRNVLIVPSLFGLP 229 (456)
T ss_pred HHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHhCCCeEEEEeCcccccc
Confidence 34556777888889999875544566778889999999 888888877766
No 229
>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=52.96 E-value=43 Score=26.93 Aligned_cols=44 Identities=7% Similarity=0.058 Sum_probs=30.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
.+.++.|.+..+.+||.+.++++. ...++.+++|..+...++.+
T Consensus 281 ~~~l~~i~~~g~~lvi~~~~I~~~-----al~~L~~~~i~~v~~~~~~~ 324 (532)
T TIGR02343 281 AEMIDDIKKSGANIVICQWGFDDE-----ANHLLLQNDLPAVRWVGGHE 324 (532)
T ss_pred HHHHHHHHHcCCCEEEeCCCccHH-----HHHHHHHCCcEEEEcCCHHH
Confidence 344666767778999999999883 22356788888776555543
No 230
>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=52.83 E-value=28 Score=19.57 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=25.9
Q ss_pred HHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 5 VQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 5 v~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.++|++-+ -.+.++++|-.. ...++.+|+++|-.+....
T Consensus 16 ~~~~l~~l~~g~~l~v~~d~~~~---~~~i~~~~~~~g~~~~~~~ 57 (69)
T cd00291 16 TKKALEKLKSGEVLEVLLDDPGA---VEDIPAWAKETGHEVLEVE 57 (69)
T ss_pred HHHHHhcCCCCCEEEEEecCCcH---HHHHHHHHHHcCCEEEEEE
Confidence 445555432 346777777533 4569999999998875543
No 231
>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=52.66 E-value=72 Score=21.81 Aligned_cols=45 Identities=16% Similarity=0.050 Sum_probs=29.3
Q ss_pred CCceEEEEeCCCCch--hHHhhHHHHHhcCCCCEEEe----CCHhHHhhHh
Q psy6265 12 KTIMLCIFAGDVTPI--EIMCHLPAVCEDKDIPYCYV----PSKKDIGEAL 56 (91)
Q Consensus 12 gka~lViiA~D~sp~--~~~~~l~~lc~~~~IP~~~~----~sk~eLG~a~ 56 (91)
.++..||+|.|++-. .+..++...+...+.|+.++ -|+.++=+|+
T Consensus 117 ~~~~~iiiatD~drEGe~I~~~i~~~~~~~~~~v~R~~fs~it~~~I~~a~ 167 (170)
T cd03361 117 LEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNIKRAEFHEVTRRAILEAL 167 (170)
T ss_pred hhCCEEEEecCCCccHHHHHHHHHHHhccCCCCeEEEEEecCCHHHHHHHH
Confidence 568899999999732 45556777887655565332 2555655554
No 232
>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=52.58 E-value=69 Score=22.25 Aligned_cols=73 Identities=12% Similarity=0.208 Sum_probs=40.4
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC----------HhHHhhHhCCCCceEEEEEecCchHHHH
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS----------KKDIGEALGRKKPCICVIVKSTESVAEL 76 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s----------k~eLG~a~G~~~~~~v~~i~~~~~~~~~ 76 (91)
..|..-+.-|||......+ . ..+..+.+..+||++.+.+ -..||+++|++..+. .+ -.++++.
T Consensus 68 E~i~~l~PDLIi~~~~~~~-~--~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~~~a~-~~---~~~~~~~ 140 (262)
T cd01147 68 EKIAALKPDVVIDVGSDDP-T--SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKEERAE-EL---ISFIESI 140 (262)
T ss_pred HHHHhcCCCEEEEecCCcc-c--hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCHHHHH-HH---HHHHHHH
Confidence 3455556778877654333 1 1233444558899876664 247999999853321 00 1224455
Q ss_pred HHHHHHHhhc
Q psy6265 77 YEEVKQEIGA 86 (91)
Q Consensus 77 ~~~~~~~~~~ 86 (91)
++.+.+.+++
T Consensus 141 ~~~i~~~~~~ 150 (262)
T cd01147 141 LADVEERTKD 150 (262)
T ss_pred HHHHHHHhhc
Confidence 5666555544
No 233
>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=52.58 E-value=49 Score=22.78 Aligned_cols=49 Identities=22% Similarity=0.281 Sum_probs=33.1
Q ss_pred hHHHHHHHhC--CceEEEEeCCCCch---hHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 3 STVQGPLQRK--TIMLCIFAGDVTPI---EIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 3 kev~kai~~g--ka~lViiA~D~sp~---~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
+++.+.+++. +..+|++++|.... .-...+...-+..++|+.++....+
T Consensus 28 ~~~~~~i~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~l~~~~~p~~~v~GNHD 81 (240)
T cd07402 28 EAVLAHINALHPRPDLVLVTGDLTDDGSPESYERLRELLAALPIPVYLLPGNHD 81 (240)
T ss_pred HHHHHHHHhcCCCCCEEEECccCCCCCCHHHHHHHHHHHhhcCCCEEEeCCCCC
Confidence 4566667675 89999999997632 1223454555667999988876444
No 234
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=52.54 E-value=42 Score=23.58 Aligned_cols=42 Identities=10% Similarity=-0.005 Sum_probs=27.6
Q ss_pred hhHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+.+++++.++. +.++++-+|-.. .....+|++.|||+....
T Consensus 15 ~~~ll~~~~~~~~~~~I~~vvs~~~~----~~~~~~a~~~gIp~~~~~ 58 (200)
T PRK05647 15 LQAIIDACAAGQLPAEIVAVISDRPD----AYGLERAEAAGIPTFVLD 58 (200)
T ss_pred HHHHHHHHHcCCCCcEEEEEEecCcc----chHHHHHHHcCCCEEEEC
Confidence 467788888876 455544344322 125678999999997744
No 235
>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=52.42 E-value=51 Score=23.72 Aligned_cols=42 Identities=7% Similarity=0.019 Sum_probs=24.9
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.++.+...++.-+|++..-.+ . .......+.+.+||++.+.
T Consensus 45 ~~i~~l~~~~vDgIIi~~~~~~-~-~~~~l~~~~~~~iPvV~~d 86 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQNGQ-V-LSNAVQEAKDEGIKVVAYD 86 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCChh-H-HHHHHHHHHHCCCeEEEec
Confidence 4455566666666666553212 1 2345556778899987664
No 236
>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=52.41 E-value=52 Score=22.00 Aligned_cols=41 Identities=15% Similarity=0.098 Sum_probs=24.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+..+.+.++++..+|+.....+ .. . ....+.+.+||++.+.
T Consensus 46 ~~~~~~~~~~~d~ii~~~~~~~-~~-~-~~~~l~~~~ip~v~~~ 86 (264)
T cd01537 46 SALENLIARGVDGIIIAPSDLT-AP-T-IVKLARKAGIPVVLVD 86 (264)
T ss_pred HHHHHHHHcCCCEEEEecCCCc-ch-h-HHHHhhhcCCCEEEec
Confidence 3444455556666666543323 22 2 4567788999998654
No 237
>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=52.36 E-value=51 Score=22.08 Aligned_cols=40 Identities=15% Similarity=0.051 Sum_probs=24.1
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
..+.+.++++..+++....+. ... ...+.+.+||++.+.+
T Consensus 47 ~~~~~~~~~~d~iii~~~~~~-~~~---~~~~~~~~ipvv~~~~ 86 (264)
T cd06267 47 ALELLLSRRVDGIILAPSRLD-DEL---LEELAALGIPVVLVDR 86 (264)
T ss_pred HHHHHHHcCcCEEEEecCCcc-hHH---HHHHHHcCCCEEEecc
Confidence 344455556666666554433 222 4557899999987654
No 238
>PRK06553 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=52.30 E-value=49 Score=24.47 Aligned_cols=22 Identities=18% Similarity=0.037 Sum_probs=16.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCc
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTP 25 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp 25 (91)
+++..+++++|. .|.+..|-++
T Consensus 194 ~r~l~r~Lk~g~--~v~il~DQ~~ 215 (308)
T PRK06553 194 AFALAGVLERGG--HVGMLVDQKF 215 (308)
T ss_pred HHHHHHHHHcCC--eEEEEecccC
Confidence 468889999986 6777777654
No 239
>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=52.26 E-value=64 Score=21.09 Aligned_cols=84 Identities=10% Similarity=0.069 Sum_probs=40.4
Q ss_pred hhHHHHHHHhCCc--eEEEEeCCCC-chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC----CCceEEEEEecCchH-
Q psy6265 2 NSTVQGPLQRKTI--MLCIFAGDVT-PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR----KKPCICVIVKSTESV- 73 (91)
Q Consensus 2 ~kev~kai~~gka--~lViiA~D~s-p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~----~~~~~v~~i~~~~~~- 73 (91)
+.+++.++.++.. .-+||..|.+ .......+..++++.++-++......-.|.++.. ...=-+++++.....
T Consensus 15 l~~~l~Sl~~q~~~~~eiiivdd~ss~d~t~~~~~~~~~~~~i~~i~~~~n~G~~~a~N~g~~~a~gd~i~~lD~Dd~~~ 94 (201)
T cd04195 15 LREALESILKQTLPPDEVVLVKDGPVTQSLNEVLEEFKRKLPLKVVPLEKNRGLGKALNEGLKHCTYDWVARMDTDDISL 94 (201)
T ss_pred HHHHHHHHHhcCCCCcEEEEEECCCCchhHHHHHHHHHhcCCeEEEEcCccccHHHHHHHHHHhcCCCEEEEeCCccccC
Confidence 3567788876541 3344454554 4344444555666666544444333333333221 112225555544332
Q ss_pred HHHHHHHHHHhh
Q psy6265 74 AELYEEVKQEIG 85 (91)
Q Consensus 74 ~~~~~~~~~~~~ 85 (91)
.+.++.+++.+.
T Consensus 95 ~~~l~~~~~~~~ 106 (201)
T cd04195 95 PDRFEKQLDFIE 106 (201)
T ss_pred cHHHHHHHHHHH
Confidence 445555555554
No 240
>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=52.20 E-value=34 Score=26.04 Aligned_cols=49 Identities=12% Similarity=0.148 Sum_probs=31.8
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
++.++++...+-++++...-.......++...+.+.++|++.+.+|-+|
T Consensus 247 ~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl 295 (429)
T TIGR03594 247 RTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDL 295 (429)
T ss_pred HHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECccc
Confidence 3456677666666666444222122345677788889999999888776
No 241
>PF13728 TraF: F plasmid transfer operon protein
Probab=52.04 E-value=84 Score=22.33 Aligned_cols=69 Identities=13% Similarity=0.095 Sum_probs=44.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch-hHHhhHHHHHhcCCCCEEEeCC-------------HhHHhhHhCCCCceEEEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI-EIMCHLPAVCEDKDIPYCYVPS-------------KKDIGEALGRKKPCICVIVK 68 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~-~~~~~l~~lc~~~~IP~~~~~s-------------k~eLG~a~G~~~~~~v~~i~ 68 (91)
+++++.+.++-.-++|..+||.-- ...-.+..+++++|+++..+.- -..+.+.+|....=++.++.
T Consensus 112 ~~~l~~la~~~gL~~F~~~~C~~C~~~~pil~~~~~~yg~~v~~vs~DG~~~~~fp~~~~~~g~~~~l~v~~~Pal~Lv~ 191 (215)
T PF13728_consen 112 DKALKQLAQKYGLFFFYRSDCPYCQQQAPILQQFADKYGFSVIPVSLDGRPIPSFPNPRPDPGQAKRLGVKVTPALFLVN 191 (215)
T ss_pred HHHHHHHhhCeEEEEEEcCCCchhHHHHHHHHHHHHHhCCEEEEEecCCCCCcCCCCCCCCHHHHHHcCCCcCCEEEEEE
Confidence 467778875544445566777521 2334478899999999876543 15677778887665566665
Q ss_pred cCc
Q psy6265 69 STE 71 (91)
Q Consensus 69 ~~~ 71 (91)
.+.
T Consensus 192 ~~~ 194 (215)
T PF13728_consen 192 PNT 194 (215)
T ss_pred CCC
Confidence 544
No 242
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.96 E-value=37 Score=24.46 Aligned_cols=46 Identities=15% Similarity=0.218 Sum_probs=28.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch----h-----HHhhHHHHHhcCCCCEEEeCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI----E-----IMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~----~-----~~~~l~~lc~~~~IP~~~~~s 48 (91)
++..+.+++.++.+|++++|.... . +...+..+.+..++|++.+..
T Consensus 29 ~~l~~~~~~~~~D~lli~GDi~d~~~p~~~~~~~~~~~l~~l~~~~~i~v~~i~G 83 (253)
T TIGR00619 29 DDLLEFAKAEQIDALLVAGDVFDTANPPAEAQELFNAFFRNLSDANPIPIVVISG 83 (253)
T ss_pred HHHHHHHHHcCCCEEEECCccCCCCCCCHHHHHHHHHHHHHHHhcCCceEEEEcc
Confidence 456677778889999999998532 1 112233333333499887653
No 243
>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=51.94 E-value=15 Score=20.95 Aligned_cols=38 Identities=18% Similarity=0.324 Sum_probs=24.9
Q ss_pred HHHHHHh---CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 5 VQGPLQR---KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 5 v~kai~~---gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.+++++ | -.+.|++.|-. ....++.+|+++|-.++.+
T Consensus 17 ~~~~l~~l~~G-~~l~v~~d~~~---~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 17 AKKALKELPPG-EVLEVLVDDPA---AVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp HHHHHHTSGTT--EEEEEESSTT---HHHHHHHHHHHHTEEEEEE
T ss_pred HHHHHHhcCCC-CEEEEEECCcc---HHHHHHHHHHHCCCEEEEE
Confidence 3444544 4 45778888843 2467999999999876544
No 244
>PRK05645 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=51.87 E-value=67 Score=23.45 Aligned_cols=45 Identities=9% Similarity=0.132 Sum_probs=29.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch-------------hHHhh-HHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI-------------EIMCH-LPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~-------------~~~~~-l~~lc~~~~IP~~~~~s 48 (91)
+++.++++++|. +|.|..|-++. ..... ...++...++|++.+..
T Consensus 172 ~r~l~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~~~~~la~~~~~pvv~~~~ 230 (295)
T PRK05645 172 ILSVIKEVRKGG--QVGIPADPEPAESAGIFVPFLGTQALTSKFVPNMLAGGKAVGVFLHA 230 (295)
T ss_pred HHHHHHHHhcCC--eEEEcCCCCCCCCCCeEeCCCCCchhhhhHHHHHHHhhCCeEEEEEE
Confidence 467899999986 66777666531 11122 44677778888887664
No 245
>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=51.84 E-value=38 Score=18.37 Aligned_cols=44 Identities=16% Similarity=0.145 Sum_probs=23.7
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.+.+.|++..+..-++==|.++ .....+..+.....+|.+++++
T Consensus 14 ~~~~~L~~~~i~y~~~dv~~~~-~~~~~l~~~~g~~~~P~v~i~g 57 (60)
T PF00462_consen 14 KAKEFLDEKGIPYEEVDVDEDE-EAREELKELSGVRTVPQVFIDG 57 (60)
T ss_dssp HHHHHHHHTTBEEEEEEGGGSH-HHHHHHHHHHSSSSSSEEEETT
T ss_pred HHHHHHHHcCCeeeEcccccch-hHHHHHHHHcCCCccCEEEECC
Confidence 3445555555555555444444 3455555555566666666654
No 246
>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=51.83 E-value=38 Score=22.72 Aligned_cols=47 Identities=6% Similarity=0.032 Sum_probs=31.2
Q ss_pred hHHHHHHHhCCceEEEEeCCC------------CchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDV------------TPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~------------sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
.+.++.+++..+..+++..=. .-..+...+..+|+++++|++...+.
T Consensus 97 ~~ii~~~~~~~~~~il~tp~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~vD~~~~ 155 (198)
T cd01821 97 RRYIAEARAKGATPILVTPVTRRTFDEGGKVEDTLGDYPAAMRELAAEEGVPLIDLNAA 155 (198)
T ss_pred HHHHHHHHHCCCeEEEECCccccccCCCCcccccchhHHHHHHHHHHHhCCCEEecHHH
Confidence 455666777777877763110 01134567889999999999887653
No 247
>TIGR00385 dsbE periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily. Involved in the biogenesis of c-type cytochromes as well as in disulfide bond formation in some periplasmic proteins.
Probab=51.82 E-value=70 Score=21.36 Aligned_cols=61 Identities=11% Similarity=0.117 Sum_probs=35.5
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCE--EEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY--CYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~--~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
..+.+..+.++.+..|-++.+ ...+++++++|+ +......++++..|....=...+++.+|
T Consensus 86 ~~l~~~~~~vi~V~~~~~~~~----~~~~~~~~~~~f~~v~~D~~~~~~~~~~v~~~P~~~~id~~G 148 (173)
T TIGR00385 86 NELAKDGLPIVGVDYKDQSQN----ALKFLKELGNPYQAILIDPNGKLGLDLGVYGAPETFLVDGNG 148 (173)
T ss_pred HHHHHcCCEEEEEECCCChHH----HHHHHHHcCCCCceEEECCCCchHHhcCCeeCCeEEEEcCCc
Confidence 444444466666665433322 335677788876 3456677899988865433355555444
No 248
>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=51.60 E-value=68 Score=21.15 Aligned_cols=68 Identities=9% Similarity=0.155 Sum_probs=41.0
Q ss_pred HHHHHHHhCCceEEEEeCCCCc---hhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCCCCceEEEEEecCc
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTP---IEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp---~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
+..+...+..+.+|.|..|-.. .+-...+..+.+++++|+.++. +...+.+..|....-...+++.+|
T Consensus 49 ~l~~~~~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~v~~~P~~~lid~~G 120 (171)
T cd02969 49 RLAKEYGAKGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFPYLLDETQEVAKAYGAACTPDFFLFDPDG 120 (171)
T ss_pred HHHHHHhhCCeEEEEEecCccccccccCHHHHHHHHHHCCCCceEEECCchHHHHHcCCCcCCcEEEECCCC
Confidence 3344445556888888877521 0112446667778888865544 556888888875444466666443
No 249
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=51.37 E-value=58 Score=21.50 Aligned_cols=22 Identities=23% Similarity=0.289 Sum_probs=16.2
Q ss_pred hHHHHHhcCCCCEEEeCCHhHH
Q psy6265 31 HLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.+..++..+++|++.+.||.++
T Consensus 120 ~~~~~~~~~~~pviiv~nK~D~ 141 (179)
T TIGR03598 120 EMLEWLRERGIPVLIVLTKADK 141 (179)
T ss_pred HHHHHHHHcCCCEEEEEECccc
Confidence 3456777788888888888765
No 250
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=51.27 E-value=61 Score=20.53 Aligned_cols=22 Identities=14% Similarity=0.232 Sum_probs=16.4
Q ss_pred HHHHHhcCCCCEEEeCCHhHHh
Q psy6265 32 LPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 32 l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.....+..++|++.+.+|.+|.
T Consensus 94 ~~~~~~~~~~p~ivv~NK~Dl~ 115 (168)
T cd01887 94 AIKLAKAANVPFIVALNKIDKP 115 (168)
T ss_pred HHHHHHHcCCCEEEEEEceecc
Confidence 3445677899999998887764
No 251
>KOG0368|consensus
Probab=51.26 E-value=19 Score=33.55 Aligned_cols=56 Identities=25% Similarity=0.227 Sum_probs=42.4
Q ss_pred ceEEEEeCCCC---------chhHHhhHHHHHhcCCCCEEEe--CCHhHHhhHhCCCCceEEEEEec
Q psy6265 14 IMLCIFAGDVT---------PIEIMCHLPAVCEDKDIPYCYV--PSKKDIGEALGRKKPCICVIVKS 69 (91)
Q Consensus 14 a~lViiA~D~s---------p~~~~~~l~~lc~~~~IP~~~~--~sk~eLG~a~G~~~~~~v~~i~~ 69 (91)
-.+++|++|+. +..+......++++++||-+++ .|-..+|-|=-....--++..++
T Consensus 1546 r~~iVIgNDiTfqiGSFGp~ED~lF~~aselAR~~~iPrIylaaNSGARIGlAeei~~lfkVaw~d~ 1612 (2196)
T KOG0368|consen 1546 RDLIVIGNDVTFQIGSFGPREDLLFLAASELAREKGIPRIYLAANSGARIGLAEEIKPLFKVAWVDE 1612 (2196)
T ss_pred ceEEEEeccceEeccCCCChHHHHHHHHHHHHHhcCCCeEEEeccCccccccHHHHHHHheeeccCC
Confidence 46899999984 2256778899999999998774 47788887766665555666665
No 252
>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=51.23 E-value=54 Score=22.38 Aligned_cols=41 Identities=15% Similarity=0.075 Sum_probs=24.4
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++.+.-+|+........ ....+++++||++++.+
T Consensus 46 ~~~~~l~~~~vdgiIi~~~~~~~~----~~~~l~~~~ipvV~~~~ 86 (265)
T cd06299 46 RYLDNLLSQRVDGIIVVPHEQSAE----QLEDLLKRGIPVVFVDR 86 (265)
T ss_pred HHHHHHHhcCCCEEEEcCCCCChH----HHHHHHhCCCCEEEEec
Confidence 345566677777777765432212 23455678999887653
No 253
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=51.13 E-value=40 Score=28.78 Aligned_cols=75 Identities=12% Similarity=-0.007 Sum_probs=48.9
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK 81 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~ 81 (91)
..++..+++.-...++++...-.......++...|...++|.+.+-+|-++= .+=+-.++++....|+.++
T Consensus 112 ~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~~~p~i~~iNK~D~~---------~~~~~~~~~~~~~~~~~vi 182 (843)
T PLN00116 112 SSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPVLTVNKMDRC---------FLELQVDGEEAYQTFSRVI 182 (843)
T ss_pred HHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHCCCCEEEEEECCccc---------chhhcCCHHHHHHHHHHHH
Confidence 4678888988888888887664432334567888999999988887776521 1111233444444577777
Q ss_pred HHhh
Q psy6265 82 QEIG 85 (91)
Q Consensus 82 ~~~~ 85 (91)
+.++
T Consensus 183 ~~in 186 (843)
T PLN00116 183 ENAN 186 (843)
T ss_pred HHHH
Confidence 7765
No 254
>PHA02546 47 endonuclease subunit; Provisional
Probab=50.77 E-value=38 Score=25.54 Aligned_cols=49 Identities=14% Similarity=0.128 Sum_probs=31.8
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchh------HHhh----HHHHHhcCCCCEEEeCCHhH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIE------IMCH----LPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~------~~~~----l~~lc~~~~IP~~~~~sk~e 51 (91)
+++...+++.++.+|++|+|.-... .... +...-.+.+||++.+....+
T Consensus 29 ~~ii~~a~~~~vD~VliaGDlfD~~~~~~~~~~~~~~~~l~~~L~~~gi~v~~I~GNHD 87 (340)
T PHA02546 29 KQAIEYSKAHGITTWIQLGDTFDVRKAITQNTMNFVREKIFDLLKEAGITLHVLVGNHD 87 (340)
T ss_pred HHHHHHHHHcCCCEEEECCcccCCCCCCCHHHHHHHHHHHHHHHHHCCCeEEEEccCCC
Confidence 5666777888999999999985321 1111 22233456899988765544
No 255
>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=50.73 E-value=73 Score=21.27 Aligned_cols=80 Identities=8% Similarity=-0.007 Sum_probs=41.2
Q ss_pred HHHHHHHhC-------CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC------CCceEEEEEecC
Q psy6265 4 TVQGPLQRK-------TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR------KKPCICVIVKST 70 (91)
Q Consensus 4 ev~kai~~g-------ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~------~~~~~v~~i~~~ 70 (91)
++++++.+. ...+ |+..|.|.......+..+++.++..+..+..+..+|.+-+. ...--+++++..
T Consensus 14 ~~l~~l~~~~~~~~~~~~ei-ivvdd~S~D~t~~~~~~~~~~~~~~i~~i~~~~n~G~~~a~~~g~~~a~gd~i~~ld~D 92 (211)
T cd04188 14 PTLEEAVEYLEERPSFSYEI-IVVDDGSKDGTAEVARKLARKNPALIRVLTLPKNRGKGGAVRAGMLAARGDYILFADAD 92 (211)
T ss_pred HHHHHHHHHHhccCCCCEEE-EEEeCCCCCchHHHHHHHHHhCCCcEEEEEcccCCCcHHHHHHHHHHhcCCEEEEEeCC
Confidence 455555442 3444 45566665455565666777666554445444444443222 122346666665
Q ss_pred chH-HHHHHHHHHHh
Q psy6265 71 ESV-AELYEEVKQEI 84 (91)
Q Consensus 71 ~~~-~~~~~~~~~~~ 84 (91)
..+ .+.++.+.+.+
T Consensus 93 ~~~~~~~l~~l~~~~ 107 (211)
T cd04188 93 LATPFEELEKLEEAL 107 (211)
T ss_pred CCCCHHHHHHHHHHH
Confidence 544 44566666553
No 256
>PRK00865 glutamate racemase; Provisional
Probab=50.73 E-value=94 Score=22.51 Aligned_cols=42 Identities=19% Similarity=0.249 Sum_probs=30.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+..+.+++..+.+++||-++... . -+..+-+..+||++-+.
T Consensus 57 ~~~~~~L~~~g~d~iVIaCNTa~~-~--~l~~lr~~~~iPvigi~ 98 (261)
T PRK00865 57 LEIVEFLLEYGVKMLVIACNTASA-V--ALPDLRERYDIPVVGIV 98 (261)
T ss_pred HHHHHHHHhCCCCEEEEeCchHHH-H--HHHHHHHhCCCCEEeeH
Confidence 466777888889999999998552 1 23445567799998743
No 257
>KOG2016|consensus
Probab=50.42 E-value=16 Score=29.66 Aligned_cols=33 Identities=12% Similarity=0.271 Sum_probs=26.8
Q ss_pred EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 16 lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
-|++|++..+. ..-++...|++.|||++...|-
T Consensus 121 tvViatnl~E~-~~~kl~~~l~~~~vpll~~rs~ 153 (523)
T KOG2016|consen 121 TVVIATNLNEQ-TLLKLAEILREANVPLLLTRSY 153 (523)
T ss_pred eeeeccccchh-hhhhhHHHHHhcCCceEEEeee
Confidence 47888888774 4567999999999999987763
No 258
>cd07395 MPP_CSTP1 Homo sapiens CSTP1 and related proteins, metallophosphatase domain. CSTP1 (complete S-transactivated protein 1) is an uncharacterized Homo sapiens protein with a metallophosphatase domain, that is transactivated by the complete S protein of hepatitis B virus. CSTP1 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 th
Probab=50.27 E-value=44 Score=23.66 Aligned_cols=51 Identities=18% Similarity=0.251 Sum_probs=32.5
Q ss_pred hhHHHHHHHhC--CceEEEEeCCCCchhH--------HhhHHHHHhcC--CCCEEEeCCHhHH
Q psy6265 2 NSTVQGPLQRK--TIMLCIFAGDVTPIEI--------MCHLPAVCEDK--DIPYCYVPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~g--ka~lViiA~D~sp~~~--------~~~l~~lc~~~--~IP~~~~~sk~eL 52 (91)
++++...+.+. +..+||+++|...... ...+...-+.. ++|+..+....|.
T Consensus 36 l~~~~~~i~~~~~~pd~ii~~GDl~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~~~i~GNHD~ 98 (262)
T cd07395 36 TEQAVQAINKLNPKPKFVVVCGDLVNAMPGDELRERQVSDLKDVLSLLDPDIPLVCVCGNHDV 98 (262)
T ss_pred HHHHHHHHHhcCCCCCEEEEeCCcCCCCcchhhHHHHHHHHHHHHhhccCCCcEEEeCCCCCC
Confidence 46777888776 8999999999975211 12233333333 7999877655444
No 259
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=50.09 E-value=97 Score=24.90 Aligned_cols=58 Identities=12% Similarity=0.134 Sum_probs=45.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCc-----hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTP-----IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp-----~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~ 63 (91)
..+..+.|+...+.-|||-+.|.- ..+.+++ ++.+||++.+.+--.....+|-+|-.-
T Consensus 325 g~eIa~~Lk~dgVDAVILTstCgtC~r~~a~m~kei----E~~GiPvv~~~~~~pis~tvGanrivp 387 (431)
T TIGR01918 325 AKEFVVELKQGGVDAVILTSTUGTCTRCGATMVKEI----ERAGIPVVHMCTVIPIALTVGANRIVP 387 (431)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHH----HHcCCCEEEEeecccHhhhcCccceec
Confidence 457788899999999999999852 1334444 579999999999888888899775543
No 260
>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=50.04 E-value=27 Score=21.44 Aligned_cols=28 Identities=18% Similarity=0.293 Sum_probs=21.1
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G 57 (91)
.+..++...+++++||++. ...|.+.+-
T Consensus 27 ~~A~~I~~~A~e~~VPi~~---~~~LAr~L~ 54 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVE---DPDLVDVLL 54 (82)
T ss_pred HHHHHHHHHHHHcCCCEEe---CHHHHHHHH
Confidence 3678899999999999954 445666554
No 261
>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=50.02 E-value=60 Score=22.04 Aligned_cols=48 Identities=23% Similarity=0.242 Sum_probs=31.1
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH----------hHHhhHhCCC
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK----------KDIGEALGRK 59 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk----------~eLG~a~G~~ 59 (91)
.|..-+--|||........+....+ .+.+||++.+.+. ..||+++|++
T Consensus 55 ~i~~l~PDlIi~~~~~~~~~~~~~~----~~~~ip~~~~~~~~~~~~~~~~i~~lg~~~g~~ 112 (238)
T PF01497_consen 55 AILALKPDLIIGSSFYGQSEEIEKL----LEAGIPVVVFDSSSPFDDWKEQIRQLGKALGKE 112 (238)
T ss_dssp HHHHT--SEEEEETTSSCHHHHHHH----HHTTSEEEEESSTTCSHHHHHHHHHHHHHHTSH
T ss_pred HHHhCCCCEEEEeccccchHHHHHH----hcccceEEEeecccchHHHHHHHHHHHHhcccH
Confidence 4555567788888877221222222 4789999988764 3799999987
No 262
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=49.92 E-value=48 Score=24.31 Aligned_cols=47 Identities=26% Similarity=0.315 Sum_probs=32.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCC-----chhHHhhH--HHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVT-----PIEIMCHL--PAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~s-----p~~~~~~l--~~lc~~~~IP~~~~~s 48 (91)
.++.+.+...-++-++++|.|.+ |....... ...-.+.++|++.+..
T Consensus 19 ~~k~~~~~~~~~~D~lviaGDlt~~~~~~~~~~~~~~~~e~l~~~~~~v~avpG 72 (226)
T COG2129 19 LKKLLNAAADIRADLLVIAGDLTYFHFGPKEVAEELNKLEALKELGIPVLAVPG 72 (226)
T ss_pred HHHHHHHHhhccCCEEEEecceehhhcCchHHHHhhhHHHHHHhcCCeEEEEcC
Confidence 36677777777899999999998 22223332 2344568899998774
No 263
>PRK04435 hypothetical protein; Provisional
Probab=49.89 E-value=76 Score=21.20 Aligned_cols=70 Identities=14% Similarity=0.127 Sum_probs=48.5
Q ss_pred hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCC
Q psy6265 11 RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALP 88 (91)
Q Consensus 11 ~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~ 88 (91)
...+.+-+.+.|- | .+...+.....+.++.+..+... ......+.+.+.-+-.+.+..++.+++.+++++
T Consensus 67 ~r~vtL~i~l~Dr-~-GlLs~Il~~IA~~~aNIltI~q~------i~~~g~a~vs~tVevs~~~~~L~~Li~~L~~i~ 136 (147)
T PRK04435 67 GKIITLSLLLEDR-S-GTLSKVLNVIAEAGGNILTINQS------IPLQGRANVTISIDTSSMEGDIDELLEKLRNLD 136 (147)
T ss_pred CcEEEEEEEEecC-C-CHHHHHHHHHHHcCCCeEEEEEE------cCCCCEEEEEEEEEeCChHHHHHHHHHHHHcCC
Confidence 3447888888885 5 45677888889999999877542 222223445555555555657999999998876
No 264
>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=49.86 E-value=30 Score=24.33 Aligned_cols=36 Identities=19% Similarity=0.245 Sum_probs=27.1
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
.+.+||+|.|-. ++-..+...|+..+||+..+...+
T Consensus 69 ~~~lVi~at~d~--~ln~~i~~~a~~~~ilvn~~d~~e 104 (205)
T TIGR01470 69 GAFLVIAATDDE--ELNRRVAHAARARGVPVNVVDDPE 104 (205)
T ss_pred CcEEEEECCCCH--HHHHHHHHHHHHcCCEEEECCCcc
Confidence 367899998863 355679999999999986655443
No 265
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=49.68 E-value=57 Score=19.75 Aligned_cols=23 Identities=30% Similarity=0.359 Sum_probs=18.6
Q ss_pred HHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 28 IMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 28 ~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
...++...-++++||+...+|-.
T Consensus 17 F~rk~L~I~E~~~is~Eh~PSGI 39 (76)
T cd04911 17 FGRKLLSILEDNGISYEHMPSGI 39 (76)
T ss_pred HHHHHHHHHHHcCCCEeeecCCC
Confidence 45677788899999999999743
No 266
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=49.37 E-value=55 Score=24.03 Aligned_cols=18 Identities=17% Similarity=0.372 Sum_probs=10.7
Q ss_pred hhHHHHHhcCCCCEEEeC
Q psy6265 30 CHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 30 ~~l~~lc~~~~IP~~~~~ 47 (91)
..+..+.++.+|+++++.
T Consensus 216 ~~l~~~ik~~~v~~if~e 233 (287)
T cd01137 216 ATLIEQVKKEKVPAVFVE 233 (287)
T ss_pred HHHHHHHHHhCCCEEEEe
Confidence 345666666666666543
No 267
>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=49.34 E-value=57 Score=22.19 Aligned_cols=42 Identities=12% Similarity=0.122 Sum_probs=25.5
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+.+.++++.-+|+...... . . .....+++++||++.+.+
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~-~-~-~~~~~~~~~~ipvV~~~~ 87 (266)
T cd06282 46 DAVETLLRQRVDGLILTVADAA-T-S-PALDLLDAERVPYVLAYN 87 (266)
T ss_pred HHHHHHHhcCCCEEEEecCCCC-c-h-HHHHHHhhCCCCEEEEec
Confidence 3455566677777777643222 1 1 244667888999876643
No 268
>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=49.28 E-value=33 Score=24.84 Aligned_cols=35 Identities=9% Similarity=-0.139 Sum_probs=28.5
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
+..+||-|.|- . +.+..+-.+|..+++|++..++-
T Consensus 91 ~~DvVi~a~Dn-~-~aR~~ln~~c~~~~iplI~~g~~ 125 (234)
T cd01484 91 QFHIIVNALDN-I-IARRYVNGMLIFLIVPLIESGTE 125 (234)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEccc
Confidence 46789999885 3 34678999999999999988774
No 269
>COG4799 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]
Probab=49.26 E-value=19 Score=29.47 Aligned_cols=31 Identities=13% Similarity=0.469 Sum_probs=23.2
Q ss_pred hHHhhHHHHHhcCCCCEEEe--------CCHhHHhhHhC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYV--------PSKKDIGEALG 57 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~--------~sk~eLG~a~G 57 (91)
....++..+|...|||++++ +++.|=|..+.
T Consensus 346 ~KaArFI~~cd~~~iPlv~L~d~pGFm~G~~~E~~giik 384 (526)
T COG4799 346 DKAARFIRLCDAFNIPLVFLVDTPGFMPGTDQEYGGIIK 384 (526)
T ss_pred HHHHHHHHhhhccCCCeEEEeCCCCCCCChhHHhChHHH
Confidence 45678999999999999853 45666665555
No 270
>PRK12739 elongation factor G; Reviewed
Probab=49.12 E-value=69 Score=26.59 Aligned_cols=51 Identities=12% Similarity=-0.019 Sum_probs=36.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.++..+++.-.+-++++...-....-...+..++..+++|.+.+-+|.++-
T Consensus 88 ~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~iv~iNK~D~~ 138 (691)
T PRK12739 88 IEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRIVFVNKMDRI 138 (691)
T ss_pred HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCC
Confidence 467888888877777776544432334567778889999998887887754
No 271
>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=49.04 E-value=58 Score=20.43 Aligned_cols=41 Identities=15% Similarity=0.065 Sum_probs=25.4
Q ss_pred CceEEEEeCCCCch--hHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 13 TIMLCIFAGDVTPI--EIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 13 ka~lViiA~D~sp~--~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.+.++++.-|++.. ....++...+...+.|++.+.+|.+|.
T Consensus 84 ~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~ 126 (174)
T cd01895 84 RADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLV 126 (174)
T ss_pred hcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccC
Confidence 34555555555321 222345566667789999999887764
No 272
>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=48.94 E-value=62 Score=21.22 Aligned_cols=41 Identities=10% Similarity=0.084 Sum_probs=25.6
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
..+.+..+.+..+|+...... . .. +...+.+.+||++.+.+
T Consensus 50 ~~~~~~~~~~d~ii~~~~~~~-~-~~-~~~~~~~~~ip~v~~~~ 90 (269)
T cd01391 50 ALRDLIQQGVDGIIGPPSSSS-A-LA-VVELAAAAGIPVVSLDA 90 (269)
T ss_pred HHHHHHHcCCCEEEecCCCHH-H-HH-HHHHHHHcCCcEEEecC
Confidence 444455556777766655433 2 22 66778899999987653
No 273
>PRK04966 hypothetical protein; Provisional
Probab=48.94 E-value=20 Score=21.78 Aligned_cols=17 Identities=24% Similarity=0.216 Sum_probs=14.4
Q ss_pred hhHHHHHHHhCCceEEE
Q psy6265 2 NSTVQGPLQRKTIMLCI 18 (91)
Q Consensus 2 ~kev~kai~~gka~lVi 18 (91)
+.||.+.|++|++.+|+
T Consensus 39 v~qv~~qL~~G~~viv~ 55 (72)
T PRK04966 39 VADVKRQLQSGEAVLVW 55 (72)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46899999999987776
No 274
>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=48.89 E-value=32 Score=21.01 Aligned_cols=37 Identities=16% Similarity=0.067 Sum_probs=23.5
Q ss_pred HHHHHHHh--CCceEEEEeCCCCch--hHHhhHHHHHhcCC
Q psy6265 4 TVQGPLQR--KTIMLCIFAGDVTPI--EIMCHLPAVCEDKD 40 (91)
Q Consensus 4 ev~kai~~--gka~lViiA~D~sp~--~~~~~l~~lc~~~~ 40 (91)
..++.|++ .++.-||+|.|.+.. .+..++..++..++
T Consensus 48 ~~i~~l~~~~~~~~~iiiatD~D~EGe~Ia~~i~~~~~~~~ 88 (100)
T PF01751_consen 48 KQIKNLKKLLKKADEIIIATDPDREGELIAWEIIELLGKNN 88 (100)
T ss_dssp HHHHHHHHHHHSCSEEEEEC-SSHHHHHHHHHHHHHHHHHS
T ss_pred ccchhhHHHhhhccEeeecCCCChHHHHHHHHHHHHHhHhC
Confidence 34555554 468999999999853 45556666665544
No 275
>PRK08328 hypothetical protein; Provisional
Probab=48.75 E-value=30 Score=24.69 Aligned_cols=35 Identities=17% Similarity=0.052 Sum_probs=27.3
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
+..+||-|.|- + +....+.++|.+++||++...+-
T Consensus 118 ~~D~Vid~~d~-~-~~r~~l~~~~~~~~ip~i~g~~~ 152 (231)
T PRK08328 118 GVDVIVDCLDN-F-ETRYLLDDYAHKKGIPLVHGAVE 152 (231)
T ss_pred cCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEeec
Confidence 46789999986 4 34567889999999999875543
No 276
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=48.71 E-value=82 Score=23.51 Aligned_cols=61 Identities=5% Similarity=0.141 Sum_probs=33.0
Q ss_pred CchhHHhhHHHHHhcCCCCEEEeCC--HhHHhhHhCCCCceEEEEEecC--------chHHHHHHHHHHHhh
Q psy6265 24 TPIEIMCHLPAVCEDKDIPYCYVPS--KKDIGEALGRKKPCICVIVKST--------ESVAELYEEVKQEIG 85 (91)
Q Consensus 24 sp~~~~~~l~~lc~~~~IP~~~~~s--k~eLG~a~G~~~~~~v~~i~~~--------~~~~~~~~~~~~~~~ 85 (91)
||.+ ...+....++++|+++++.. .....+.+.+...+-++.++.- ..|.+.++...+.+.
T Consensus 237 s~~~-l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~ldpl~~~~~~~~~~Y~~~m~~n~~~l~ 307 (311)
T PRK09545 237 GAQR-LHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGTLDPLGTNIKLGKDSYSEFLSQLANQYA 307 (311)
T ss_pred CHHH-HHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEEeccccccccCCHhHHHHHHHHHHHHHH
Confidence 4434 35588888899999988663 2333333333333334444321 345555555555543
No 277
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=48.58 E-value=60 Score=22.25 Aligned_cols=65 Identities=8% Similarity=0.138 Sum_probs=45.3
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHh--HHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKK--DIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~--eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
++...+...|++.++.+.+..|.. +|=.++......+-+++-.++-|+..==-|...++.++.||
T Consensus 30 ~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THtSiAl~DAl~~~~~P~ 96 (146)
T PRK05395 30 DIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHTSVALRDALAAVSIPV 96 (146)
T ss_pred HHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHHHHHHHHHHHcCCCCE
Confidence 567778888899999988777655 55555554443457788888888764455666677777664
No 278
>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=48.49 E-value=24 Score=22.14 Aligned_cols=41 Identities=15% Similarity=0.082 Sum_probs=26.7
Q ss_pred HHHHHHHhCCceEEEEeCCCCchh---HHhhHHHHHhcCCCCEE
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIE---IMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~---~~~~l~~lc~~~~IP~~ 44 (91)
...+.|++|++.+||-..+-+... ---.+...|-+++||++
T Consensus 62 ~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~i 105 (116)
T cd01423 62 SLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLI 105 (116)
T ss_pred hHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCccc
Confidence 366778889999998754321100 01246778889999985
No 279
>PRK06628 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=48.47 E-value=64 Score=23.60 Aligned_cols=45 Identities=4% Similarity=-0.001 Sum_probs=29.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch------------hHHhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI------------EIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~------------~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++.++++++|+ .|.+..|-++. ....-...++...|.|++.++.
T Consensus 175 ~r~l~k~Lk~g~--~v~il~Dq~~~~gv~v~FFG~~a~t~~~~a~LA~~~~apvv~~~~ 231 (290)
T PRK06628 175 SRALVRAIKESE--SIVMLVDQKMNDGIEVPFLGHPAMTASAIAKIALQYKYPIIPCQI 231 (290)
T ss_pred HHHHHHHHHcCC--eEEEEecccCCCCeeeecCCCccccchHHHHHHHHHCCCEEEEEE
Confidence 478899999886 67777776542 1112234577788888876664
No 280
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=48.39 E-value=48 Score=23.60 Aligned_cols=42 Identities=10% Similarity=0.159 Sum_probs=27.9
Q ss_pred hHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 3 STVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 3 kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
...++++++|+ +..+++-+|-.. .....+|+++|||+.....
T Consensus 14 ~al~~~~~~~~l~~~i~~visn~~~----~~~~~~A~~~gIp~~~~~~ 57 (207)
T PLN02331 14 RAIHDACLDGRVNGDVVVVVTNKPG----CGGAEYARENGIPVLVYPK 57 (207)
T ss_pred HHHHHHHHcCCCCeEEEEEEEeCCC----ChHHHHHHHhCCCEEEecc
Confidence 34677888886 466665555322 2346789999999976543
No 281
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=48.32 E-value=28 Score=24.81 Aligned_cols=48 Identities=13% Similarity=0.191 Sum_probs=31.0
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G 57 (91)
.|+.++++.| +++++ || .+-..+...|++++||++= +.|-.|+=+|..
T Consensus 67 e~a~~ai~aG-A~Fiv-----SP-~~~~~vi~~a~~~~i~~iPG~~TptEi~~A~~ 115 (201)
T PRK06015 67 KQFEDAAKAG-SRFIV-----SP-GTTQELLAAANDSDVPLLPGAATPSEVMALRE 115 (201)
T ss_pred HHHHHHHHcC-CCEEE-----CC-CCCHHHHHHHHHcCCCEeCCCCCHHHHHHHHH
Confidence 4566666666 55554 44 3344577899999999974 556666655544
No 282
>PRK14974 cell division protein FtsY; Provisional
Probab=48.10 E-value=1.2e+02 Score=23.16 Aligned_cols=62 Identities=18% Similarity=0.131 Sum_probs=38.9
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH----------HhhHhCCCCceEEEEEecCch
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD----------IGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e----------LG~a~G~~~~~~v~~i~~~~~ 72 (91)
..+++...+.++++.|+.-..-...+..+++..++|++...+..+ ..++-|. -++++|.+|-
T Consensus 162 ~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~----DvVLIDTaGr 233 (336)
T PRK14974 162 YYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGI----DVVLIDTAGR 233 (336)
T ss_pred HHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCC----CEEEEECCCc
Confidence 345555567888999975334456688899999999875443211 2222222 3888998764
No 283
>PRK00304 hypothetical protein; Provisional
Probab=47.99 E-value=21 Score=21.88 Aligned_cols=17 Identities=12% Similarity=0.167 Sum_probs=14.3
Q ss_pred hhHHHHHHHhCCceEEE
Q psy6265 2 NSTVQGPLQRKTIMLCI 18 (91)
Q Consensus 2 ~kev~kai~~gka~lVi 18 (91)
+.||.++|++|++.++|
T Consensus 38 v~qv~~qL~~G~~vIvf 54 (75)
T PRK00304 38 VLRVRQALTKGQAVILF 54 (75)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46899999999987776
No 284
>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=47.98 E-value=42 Score=22.95 Aligned_cols=54 Identities=19% Similarity=0.218 Sum_probs=38.4
Q ss_pred HHHHHHHhCCceEEEEeCCC------CchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDV------TPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRK 59 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~------sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~ 59 (91)
|.-..|..|++.+||+=.|- +| ++ +-|..+|.-+|||+-. ..|.+-|=....++
T Consensus 64 QIga~Ia~g~id~vIFf~DPl~~~phep-Di-~aLlRlc~v~nIP~AtN~aTA~~li~~~~~~ 124 (143)
T TIGR00160 64 QIGALIAEGKIDAVIFFWDPLNAQPHEP-DV-KALLRLCTVWNIPLATNVATADFLIKSPHFN 124 (143)
T ss_pred HHHHHHHhCCCCEEEEecCCCCCCCCCc-CH-HHHHHHHHhhCcccccCHHHHHHHHhCcccc
Confidence 44456788999999999883 24 54 5689999999999965 44555555555443
No 285
>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=47.74 E-value=33 Score=26.24 Aligned_cols=32 Identities=13% Similarity=0.133 Sum_probs=23.6
Q ss_pred eEEEEeCCCC---------------ch--hHHhhHHHHHhcCCCCEEEe
Q psy6265 15 MLCIFAGDVT---------------PI--EIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 15 ~lViiA~D~s---------------p~--~~~~~l~~lc~~~~IP~~~~ 46 (91)
...|+|+|.. |. +...++..+|++.++|++++
T Consensus 109 pV~VIa~d~g~~~~e~~~~~~G~~~p~g~rKa~R~m~lA~~f~iPvVtl 157 (316)
T TIGR00513 109 PVVVIGHQKGRDTKEKLRRNFGMPAPEGYRKALRLMKMAERFKMPIITF 157 (316)
T ss_pred EEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 5678888853 22 33456899999999998865
No 286
>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=47.60 E-value=30 Score=26.11 Aligned_cols=34 Identities=12% Similarity=0.198 Sum_probs=26.7
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
...+|+.+.|-...++...+-+.|.++++|+++.
T Consensus 151 ~~DlVid~tDn~~~r~L~~iN~ac~~~~~PlV~g 184 (318)
T TIGR03603 151 DYNYIIICTEHSNISLLRGLNKLSKETKKPNTIA 184 (318)
T ss_pred CCCEEEECCCCccHhHHHHHHHHHHHHCCCEEEE
Confidence 3789999999755444456889999999999853
No 287
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=47.57 E-value=42 Score=23.56 Aligned_cols=43 Identities=12% Similarity=0.234 Sum_probs=26.2
Q ss_pred hHHHHHHHhCCceE--EEEeCCCCch---hHHhhHHHHHhcCCCCEEE
Q psy6265 3 STVQGPLQRKTIML--CIFAGDVTPI---EIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 3 kev~kai~~gka~l--ViiA~D~sp~---~~~~~l~~lc~~~~IP~~~ 45 (91)
.++..+++.|-..+ ++-..+.+.. +....+...|+.+++|++.
T Consensus 80 ~~v~~a~~~Ga~~v~~~~~~~~~~~~~~~~~i~~v~~~~~~~g~~~ii 127 (235)
T cd00958 80 ASVEDAVRLGADAVGVTVYVGSEEEREMLEELARVAAEAHKYGLPLIA 127 (235)
T ss_pred cCHHHHHHCCCCEEEEEEecCCchHHHHHHHHHHHHHHHHHcCCCEEE
Confidence 46777888886444 3332333221 2345677888999999864
No 288
>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=47.29 E-value=70 Score=21.90 Aligned_cols=40 Identities=18% Similarity=0.187 Sum_probs=24.0
Q ss_pred HHHHHHHhCCceEEEE-eCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIF-AGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lVii-A~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++++.-+|+ +.|.++ . ....+.+++||++.+++
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~-~----~~~~~~~~~ipvV~i~~ 86 (270)
T cd06296 46 QWVERLSARRTDGVILVTPELTS-A----QRAALRRTGIPFVVVDP 86 (270)
T ss_pred HHHHHHHHcCCCEEEEecCCCCh-H----HHHHHhcCCCCEEEEec
Confidence 4456666777665555 445333 2 23455778999887654
No 289
>PRK13351 elongation factor G; Reviewed
Probab=47.27 E-value=59 Score=26.86 Aligned_cols=51 Identities=14% Similarity=0.012 Sum_probs=34.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.++..+++.-.+-++++..+-.+..-...+...+...++|++.+.+|.++-
T Consensus 88 ~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~ 138 (687)
T PRK13351 88 GEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDRV 138 (687)
T ss_pred HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEECCCCC
Confidence 466777777776666665543332223445667788899999888888754
No 290
>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=47.10 E-value=40 Score=23.90 Aligned_cols=48 Identities=17% Similarity=0.258 Sum_probs=32.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALG 57 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G 57 (91)
.|+.++++.| +++++ || .+-..+...|++++||++= +.|-.|+-+|..
T Consensus 71 e~a~~a~~aG-A~Fiv-----SP-~~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~ 119 (196)
T PF01081_consen 71 EQAEAAIAAG-AQFIV-----SP-GFDPEVIEYAREYGIPYIPGVMTPTEIMQALE 119 (196)
T ss_dssp HHHHHHHHHT--SEEE-----ES-S--HHHHHHHHHHTSEEEEEESSHHHHHHHHH
T ss_pred HHHHHHHHcC-CCEEE-----CC-CCCHHHHHHHHHcCCcccCCcCCHHHHHHHHH
Confidence 4677777777 55554 34 2344577899999999986 888888866654
No 291
>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=47.10 E-value=77 Score=22.89 Aligned_cols=58 Identities=12% Similarity=0.213 Sum_probs=42.9
Q ss_pred HHHHHHHhCCceEEEEeCCCC---ch---hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVT---PI---EIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP 61 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~s---p~---~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~ 61 (91)
+..+.+...+-++||+=.|.+ |. ++...+..+....+|-++...+.+.|.+++.....
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 445556667889999999986 43 23444566677788888899999999999886543
No 292
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=47.07 E-value=68 Score=26.25 Aligned_cols=60 Identities=33% Similarity=0.576 Sum_probs=36.9
Q ss_pred ceEEEEeCC-CCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHH--hhcCCCC
Q psy6265 14 IMLCIFAGD-VTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQE--IGALPVT 90 (91)
Q Consensus 14 a~lViiA~D-~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~--~~~~~~~ 90 (91)
+-+||=|.- +.| . ..+|-..|+-++||++++-+|-+ + ++-+=-+.+|+|.+. |...|..
T Consensus 108 AvMVIDaAKGiE~-q-T~KLfeVcrlR~iPI~TFiNKlD------R----------~~rdP~ELLdEiE~~L~i~~~Pit 169 (528)
T COG4108 108 AVMVIDAAKGIEP-Q-TLKLFEVCRLRDIPIFTFINKLD------R----------EGRDPLELLDEIEEELGIQCAPIT 169 (528)
T ss_pred eeEEEecccCccH-H-HHHHHHHHhhcCCceEEEeeccc------c----------ccCChHHHHHHHHHHhCcceeccc
Confidence 444554433 445 3 45789999999999998877643 1 112223466777666 5566666
Q ss_pred C
Q psy6265 91 W 91 (91)
Q Consensus 91 ~ 91 (91)
|
T Consensus 170 W 170 (528)
T COG4108 170 W 170 (528)
T ss_pred c
Confidence 6
No 293
>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=46.70 E-value=69 Score=23.26 Aligned_cols=42 Identities=5% Similarity=0.154 Sum_probs=32.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.++.+.+++++++.||.-...++ .. +..++++.++|++.+.
T Consensus 209 l~~l~~~ik~~~v~~if~e~~~~~-~~---~~~la~~~g~~v~~ld 250 (282)
T cd01017 209 LAELVEFVKKSDVKYIFFEENASS-KI---AETLAKETGAKLLVLN 250 (282)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCh-HH---HHHHHHHcCCcEEEec
Confidence 467888999999999999888876 33 3447888899876544
No 294
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=46.61 E-value=46 Score=26.67 Aligned_cols=45 Identities=13% Similarity=0.160 Sum_probs=34.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++....|.+.+--++++...+.-......+..++++.++|++...
T Consensus 204 ~~~~~~L~~AkrPvIi~G~g~~~~~a~~~l~~lae~l~iPV~tt~ 248 (569)
T PRK09259 204 DRALDLLKKAKRPLIILGKGAAYAQADEQIREFVEKTGIPFLPMS 248 (569)
T ss_pred HHHHHHHHhCCCCEEEECcCccccChHHHHHHHHHHHCCCEEecc
Confidence 456777888777788887777533456789999999999998643
No 295
>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=46.56 E-value=25 Score=25.88 Aligned_cols=25 Identities=20% Similarity=0.228 Sum_probs=19.9
Q ss_pred HHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 28 IMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 28 ~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
....+...++..++|++.+.+|.+|
T Consensus 97 ~ldr~L~~~~~~~ip~iIVlNK~DL 121 (287)
T cd01854 97 LLDRYLVAAEAAGIEPVIVLTKADL 121 (287)
T ss_pred HHHHHHHHHHHcCCCEEEEEEHHHC
Confidence 3455666778889999999999988
No 296
>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=46.16 E-value=77 Score=21.71 Aligned_cols=43 Identities=14% Similarity=0.047 Sum_probs=24.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+.+.+.++.-+|+..- ++..... ....+++.+||++.+..
T Consensus 46 ~~~~~~~~~~vdgiii~~~-~~~~~~~-~~~~~~~~~ipvV~~~~ 88 (267)
T cd06322 46 SDVEDFITKKVDAIVLSPV-DSKGIRA-AIAKAKKAGIPVITVDI 88 (267)
T ss_pred HHHHHHHHcCCCEEEEcCC-ChhhhHH-HHHHHHHCCCCEEEEcc
Confidence 4455555666666666432 2212222 33456778999988763
No 297
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=46.14 E-value=94 Score=21.21 Aligned_cols=83 Identities=19% Similarity=0.174 Sum_probs=43.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCC---CchhHHhhHHHHHhcCCC-CEEEeCCHhHHhhH-------------hCC----CC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDV---TPIEIMCHLPAVCEDKDI-PYCYVPSKKDIGEA-------------LGR----KK 60 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~---sp~~~~~~l~~lc~~~~I-P~~~~~sk~eLG~a-------------~G~----~~ 60 (91)
.+++..++..-..-++++..+- .+ ....++ ..+...++ |++.+.+|.+|-.. +.. ..
T Consensus 97 ~~~~~~~~~~~D~~llVvd~~~~~~~~-~t~~~l-~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~ 174 (203)
T cd01888 97 MATMLSGAAVMDGALLLIAANEPCPQP-QTSEHL-AALEIMGLKHIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENA 174 (203)
T ss_pred HHHHHHhhhcCCEEEEEEECCCCCCCc-chHHHH-HHHHHcCCCcEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCC
Confidence 3556666665555555555442 12 233444 44566676 57778888776421 110 11
Q ss_pred ceEEEEEecCchHHHHHHHHHHHhhc
Q psy6265 61 PCICVIVKSTESVAELYEEVKQEIGA 86 (91)
Q Consensus 61 ~~~v~~i~~~~~~~~~~~~~~~~~~~ 86 (91)
...-..-..+....+.++.|.+.++.
T Consensus 175 ~i~~vSA~~g~gi~~L~~~l~~~l~~ 200 (203)
T cd01888 175 PIIPISAQLKYNIDVLLEYIVKKIPT 200 (203)
T ss_pred cEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence 12222223455567777777766554
No 298
>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=46.13 E-value=16 Score=29.09 Aligned_cols=33 Identities=18% Similarity=0.347 Sum_probs=20.6
Q ss_pred eEEEEeCCC-------Cc--hhHHhhHHHHHhcCCCCEEEeC
Q psy6265 15 MLCIFAGDV-------TP--IEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 15 ~lViiA~D~-------sp--~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
-..|||+|. ++ .....++..+|...+||++++-
T Consensus 295 pVGiian~~~~~~G~~~~~~a~K~arfi~lcd~~~iPlv~l~ 336 (493)
T PF01039_consen 295 PVGIIANNPRQRAGALDPDGARKAARFIRLCDAFNIPLVTLV 336 (493)
T ss_dssp EEEEEEE-TTCGGGEB-HHHHHHHHHHHHHHHHTT--EEEEE
T ss_pred ceEEEEeccccccccCChHHHHHHHHHHHHHHhhCCceEEEe
Confidence 356888883 11 1345679999999999998643
No 299
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=46.10 E-value=37 Score=27.94 Aligned_cols=50 Identities=14% Similarity=0.036 Sum_probs=34.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
.++..+++.-..-++++...-.+..-...+..++...++|++.+.+|.++
T Consensus 79 ~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~IVviNKiD~ 128 (594)
T TIGR01394 79 GEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDR 128 (594)
T ss_pred HHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEEEEEECCCC
Confidence 46777787777666666554343333445677888899999888777765
No 300
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=46.06 E-value=55 Score=23.68 Aligned_cols=43 Identities=14% Similarity=0.124 Sum_probs=30.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.++...|.+|--.+++.+.|... .......+.+.+||++.+.+
T Consensus 82 ~~i~~~ia~~~daIiv~~~d~~~---~~~~v~~a~~aGIpVv~~d~ 124 (322)
T COG1879 82 AQIEDLIAQGVDAIIINPVDPDA---LTPAVKKAKAAGIPVVTVDS 124 (322)
T ss_pred HHHHHHHHcCCCEEEEcCCChhh---hHHHHHHHHHCCCcEEEEec
Confidence 45566676776677777777533 35577888999999986654
No 301
>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=46.00 E-value=25 Score=21.18 Aligned_cols=17 Identities=12% Similarity=0.206 Sum_probs=14.2
Q ss_pred hhHHHHHHHhCCceEEE
Q psy6265 2 NSTVQGPLQRKTIMLCI 18 (91)
Q Consensus 2 ~kev~kai~~gka~lVi 18 (91)
+.||.+.|++|++.+++
T Consensus 39 v~qv~~qL~~G~avI~~ 55 (70)
T PF06794_consen 39 VEQVKQQLKSGEAVIVF 55 (70)
T ss_dssp HHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46899999999987776
No 302
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=45.98 E-value=40 Score=24.46 Aligned_cols=43 Identities=14% Similarity=0.295 Sum_probs=27.8
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDI 52 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eL 52 (91)
.|+..++..| +++++ || .+...+...|..++|||+- +.|-.|+
T Consensus 76 ~q~~~a~~aG-a~fiV-----sP-~~~~ev~~~a~~~~ip~~PG~~TptEi 119 (211)
T COG0800 76 EQARQAIAAG-AQFIV-----SP-GLNPEVAKAANRYGIPYIPGVATPTEI 119 (211)
T ss_pred HHHHHHHHcC-CCEEE-----CC-CCCHHHHHHHHhCCCcccCCCCCHHHH
Confidence 3555666666 55553 55 3555678899999999973 4454443
No 303
>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=45.96 E-value=71 Score=21.95 Aligned_cols=41 Identities=15% Similarity=0.126 Sum_probs=21.9
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
++.+.+.++.-+|+..-.++ ....+...+.+++||++.+.+
T Consensus 49 i~~l~~~~vdgiii~~~~~~--~~~~~~~~l~~~~iPvv~~~~ 89 (272)
T cd06301 49 VENFIAQGVDAIIVVPVDTA--ATAPIVKAANAAGIPLVYVNR 89 (272)
T ss_pred HHHHHHcCCCEEEEecCchh--hhHHHHHHHHHCCCeEEEecC
Confidence 34444445555555432222 122345567888999887653
No 304
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=45.93 E-value=78 Score=25.25 Aligned_cols=22 Identities=14% Similarity=0.228 Sum_probs=20.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVT 24 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~s 24 (91)
.+|.++|.-|.+..+++..|-.
T Consensus 301 ~~vr~aL~~gaVd~llv~Edl~ 322 (411)
T COG1503 301 EEVREALEMGAVDTLLVSEDLE 322 (411)
T ss_pred HHHHHHHHhcccceEEeecccc
Confidence 5899999999999999999986
No 305
>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=45.92 E-value=55 Score=21.52 Aligned_cols=16 Identities=13% Similarity=0.272 Sum_probs=12.9
Q ss_pred hHHHHHhcCCCCEEEe
Q psy6265 31 HLPAVCEDKDIPYCYV 46 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~ 46 (91)
....++++++|||-.+
T Consensus 68 ~t~~wL~k~~ipYd~l 83 (126)
T TIGR01689 68 IIILWLNQHNVPYDEI 83 (126)
T ss_pred HHHHHHHHcCCCCceE
Confidence 6778999999999443
No 306
>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=45.83 E-value=76 Score=21.66 Aligned_cols=40 Identities=13% Similarity=0.169 Sum_probs=23.5
Q ss_pred HHHHHHHhCCceEEEEeC-CCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAG-DVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~-D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
++.+.+.++++.-+|+.. +.+. .....+.+++||++.+.+
T Consensus 51 ~~~~~~~~~~~dgiii~~~~~~~-----~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 51 EVKKMIQQKRVDGFILLYSREDD-----PIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred HHHHHHHHcCcCEEEEecCcCCc-----HHHHHHHhcCCCEEEECC
Confidence 445556677666555543 3221 234456788999887754
No 307
>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=45.79 E-value=63 Score=23.21 Aligned_cols=47 Identities=15% Similarity=0.287 Sum_probs=29.8
Q ss_pred HHHHHHHhCCceEEEEeCCCCchh----HHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIE----IMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~----~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
.+.+..+...+.+||++.|..... -...+...-...++|+..+....
T Consensus 22 ~l~~~~~~~~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~l~~pv~~V~GNh 72 (224)
T cd07388 22 KLVGLAPETGADAIVLIGNLLPKAAKSEDYAAFFRILGEAHLPTFYVPGPQ 72 (224)
T ss_pred HHHHHHhhcCCCEEEECCCCCCCCCCHHHHHHHHHHHHhcCCceEEEcCCC
Confidence 344555667899999999995421 12234444456678988877433
No 308
>PRK08322 acetolactate synthase; Reviewed
Probab=45.67 E-value=56 Score=25.91 Aligned_cols=45 Identities=11% Similarity=0.148 Sum_probs=32.0
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++..+.|.+.+--++++..-+........+..+|+..++|++...
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 456677777776666666665432446778999999999998543
No 309
>PRK06946 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=45.65 E-value=21 Score=26.27 Aligned_cols=44 Identities=7% Similarity=-0.041 Sum_probs=28.8
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch--------------hHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI--------------EIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~--------------~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++++++++++|. .|.+..|-++. ....-...++...|.|++-++
T Consensus 170 ~r~~~~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FFG~~a~t~~~~a~LA~~~~a~vvp~~ 227 (293)
T PRK06946 170 ARQVLRWLRDGK--PVMLGADMDFGLRDSTFVPFFGVPACTLTAVSRLARTGGAQVVPFI 227 (293)
T ss_pred HHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeCCCCCCcHHhHHHHHHHHhcCCeEEEEE
Confidence 578899999986 67777776542 112223467788888887544
No 310
>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=45.55 E-value=70 Score=21.98 Aligned_cols=45 Identities=9% Similarity=0.029 Sum_probs=25.6
Q ss_pred HHHHHHHhCCceEEEEeC-CCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAG-DVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~-D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++++.-+|+.. +.+...........+.+++||++++++
T Consensus 46 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~ 91 (273)
T cd06292 46 DYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNG 91 (273)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcC
Confidence 456677777777777653 211111111223445688999988864
No 311
>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=45.49 E-value=66 Score=22.38 Aligned_cols=38 Identities=16% Similarity=0.098 Sum_probs=21.3
Q ss_pred HHHHhCCce-EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 7 GPLQRKTIM-LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 7 kai~~gka~-lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.+...++. +++.+.|. + ....+...+.+++||++.+.
T Consensus 48 ~~~~~~~~dgiii~~~~~-~--~~~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 48 DNLGAQGAKGFVICVPDV-K--LGPAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHHHcCCCEEEEccCch-h--hhHHHHHHHHhCCCeEEEec
Confidence 334445554 44444453 2 22345566778999988664
No 312
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=45.45 E-value=55 Score=25.54 Aligned_cols=47 Identities=11% Similarity=0.111 Sum_probs=29.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch----hH----HhhHHHHHhcCCCCEEEeCCH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI----EI----MCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~----~~----~~~l~~lc~~~~IP~~~~~sk 49 (91)
.+..+.+.+.++.+||||+|.-.. .. ...+...-...++|++.+...
T Consensus 29 ~~l~~~i~~~~~D~viIaGDifD~~~p~~~a~~~~~~~l~~L~~~~~~v~~I~GN 83 (407)
T PRK10966 29 DWLLEQVQEHQVDAIIVAGDIFDTGSPPSYARELYNRFVVNLQQTGCQLVVLAGN 83 (407)
T ss_pred HHHHHHHHhcCCCEEEECCccccCCCCcHHHHHHHHHHHHHHHhcCCcEEEEcCC
Confidence 356667788899999999999632 11 112222223457998876543
No 313
>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydro
Probab=45.40 E-value=60 Score=19.02 Aligned_cols=50 Identities=6% Similarity=0.163 Sum_probs=33.3
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHH-HHHHHHHHhhcC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE-LYEEVKQEIGAL 87 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~-~~~~~~~~~~~~ 87 (91)
.+..++....++++|++..+.+ | - ..+.++-...+.++ ..++|.+++++.
T Consensus 16 g~~~~If~~la~~~I~vd~I~~----s----~---~~isftv~~~~~~~~~l~~l~~el~~~ 66 (73)
T cd04934 16 GFLARIFAILDKYRLSVDLIST----S----E---VHVSMALHMENAEDTNLDAAVKDLQKL 66 (73)
T ss_pred CHHHHHHHHHHHcCCcEEEEEe----C----C---CEEEEEEehhhcChHHHHHHHHHHHHh
Confidence 5667788889999999998876 1 1 33445444444433 677787777653
No 314
>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=45.32 E-value=85 Score=21.44 Aligned_cols=40 Identities=13% Similarity=0.159 Sum_probs=22.9
Q ss_pred HHHHHHHhCCceEEEEe-CCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFA-GDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA-~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++++.-+|+. .+.++ .. ...+++++||++.+.+
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~~-~~----~~~l~~~~iPvv~~~~ 86 (268)
T cd06273 46 AQARKLLERGVDGLALIGLDHSP-AL----LDLLARRGVPYVATWN 86 (268)
T ss_pred HHHHHHHhcCCCEEEEeCCCCCH-HH----HHHHHhCCCCEEEEcC
Confidence 34455656666555554 44333 22 2355788999988754
No 315
>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=45.32 E-value=85 Score=20.49 Aligned_cols=80 Identities=10% Similarity=0.016 Sum_probs=42.7
Q ss_pred hHHHHHHHhCC---ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHh----CC--CCceEEEEEecCchH
Q psy6265 3 STVQGPLQRKT---IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEAL----GR--KKPCICVIVKSTESV 73 (91)
Q Consensus 3 kev~kai~~gk---a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~----G~--~~~~~v~~i~~~~~~ 73 (91)
.+++.++.+.. ..++|+ .|.|+......+..++.+++.++....+....|.+- |. ...--+++++....+
T Consensus 14 ~~~l~sl~~q~~~~~eiiVv-ddgS~d~t~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~n~g~~~~~g~~v~~ld~Dd~~ 92 (214)
T cd04196 14 REQLDSILAQTYKNDELIIS-DDGSTDGTVEIIKEYIDKDPFIIILIRNGKNLGVARNFESLLQAADGDYVFFCDQDDIW 92 (214)
T ss_pred HHHHHHHHhCcCCCeEEEEE-eCCCCCCcHHHHHHHHhcCCceEEEEeCCCCccHHHHHHHHHHhCCCCEEEEECCCccc
Confidence 46677776543 445544 565554555556777777765555554444444332 22 223336666655443
Q ss_pred -HHHHHHHHHH
Q psy6265 74 -AELYEEVKQE 83 (91)
Q Consensus 74 -~~~~~~~~~~ 83 (91)
.+.+..+.+.
T Consensus 93 ~~~~l~~~~~~ 103 (214)
T cd04196 93 LPDKLERLLKA 103 (214)
T ss_pred ChhHHHHHHHH
Confidence 4456666665
No 316
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=45.22 E-value=74 Score=19.88 Aligned_cols=34 Identities=12% Similarity=0.142 Sum_probs=18.3
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~ 44 (91)
.++...+|++.++.-+ .+...+..+-++...|.+
T Consensus 41 ~~~d~gII~Ite~~~~-~i~e~i~~~~~~~~~P~i 74 (100)
T PRK02228 41 EDDDVGILVMHDDDLE-KLPRRLRRTLEESVEPTV 74 (100)
T ss_pred hCCCEEEEEEehhHhH-hhHHHHHHHHhcCCCCEE
Confidence 4555666666666544 344444444455555653
No 317
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=45.21 E-value=33 Score=26.20 Aligned_cols=35 Identities=17% Similarity=0.208 Sum_probs=27.5
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
+..+||-|.|-.+ ....+.++|.+++||+++....
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 4779999999633 4556899999999999987543
No 318
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=45.11 E-value=1.3e+02 Score=24.32 Aligned_cols=76 Identities=22% Similarity=0.316 Sum_probs=49.6
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC---HhHHhh-HhC--CCCceEEEEEecCchH---HHHH
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS---KKDIGE-ALG--RKKPCICVIVKSTESV---AELY 77 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s---k~eLG~-a~G--~~~~~~v~~i~~~~~~---~~~~ 77 (91)
+.+++..-+..++|.|+--+.-...|..++++.+||++-..+ -.++-+ ++- ++...=+.++|.+|-. ++.+
T Consensus 122 ~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm 201 (451)
T COG0541 122 KYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELM 201 (451)
T ss_pred HHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHH
Confidence 456777788999999997445678899999999999976542 223321 222 2233458889988742 4444
Q ss_pred HHHHH
Q psy6265 78 EEVKQ 82 (91)
Q Consensus 78 ~~~~~ 82 (91)
+++.+
T Consensus 202 ~El~~ 206 (451)
T COG0541 202 DELKE 206 (451)
T ss_pred HHHHH
Confidence 44443
No 319
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=45.11 E-value=70 Score=23.02 Aligned_cols=48 Identities=17% Similarity=0.283 Sum_probs=32.7
Q ss_pred hHHHHHHHhC--CceEEEEeCCCCch---hHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 3 STVQGPLQRK--TIMLCIFAGDVTPI---EIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 3 kev~kai~~g--ka~lViiA~D~sp~---~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
+.+++.+.+. ++.+||+++|.... +-...+.....+.++|+..+....
T Consensus 43 ~~~i~~i~~~~~~~D~vvitGDl~~~~~~~~~~~~~~~l~~l~~Pv~~v~GNH 95 (275)
T PRK11148 43 QAVLEAIRAQQHEFDLIVATGDLAQDHSSEAYQHFAEGIAPLRKPCVWLPGNH 95 (275)
T ss_pred HHHHHHHHhhCCCCCEEEECCCCCCCCCHHHHHHHHHHHhhcCCcEEEeCCCC
Confidence 4556666554 58999999998642 223456666677889998777543
No 320
>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=45.02 E-value=15 Score=21.01 Aligned_cols=35 Identities=14% Similarity=0.159 Sum_probs=24.7
Q ss_pred HHhhHHHHHhcCCC-------CEEEeCCHhHHhhHhCCCCce
Q psy6265 28 IMCHLPAVCEDKDI-------PYCYVPSKKDIGEALGRKKPC 62 (91)
Q Consensus 28 ~~~~l~~lc~~~~I-------P~~~~~sk~eLG~a~G~~~~~ 62 (91)
+...+..+|+..+. .+....|.++|+..+|.++.+
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 34445666766554 356678999999999987543
No 321
>PRK06030 hypothetical protein; Provisional
Probab=45.00 E-value=2.8 Score=27.86 Aligned_cols=45 Identities=9% Similarity=0.212 Sum_probs=30.7
Q ss_pred CCHhHHhhHhCCCCceEEEEEe------cCchHHHHHHHHHHHhhcCCCCC
Q psy6265 47 PSKKDIGEALGRKKPCICVIVK------STESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 47 ~sk~eLG~a~G~~~~~~v~~i~------~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
.|-.++|+.+|++..++.=.+. ++.++...++.|...+..++..|
T Consensus 70 ~sl~~IG~~FGRDHSTV~haikkIe~~~~d~~lk~~v~~L~~~l~~~~~~~ 120 (124)
T PRK06030 70 WPMNEVALAFGRDRTTVGHACHTVEDLRDDAAFDARVSVLERIVNSAFTAW 120 (124)
T ss_pred CCHHHHHHHHCCChhHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHh
Confidence 3667999999976555432222 35567788888888887776655
No 322
>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=45.00 E-value=67 Score=22.16 Aligned_cols=42 Identities=12% Similarity=0.150 Sum_probs=24.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+.+..+++.-+|+.....+ . ..+...+++++||++.+.+
T Consensus 46 ~~i~~l~~~~vdgii~~~~~~~-~--~~~~~~~~~~~ipvV~i~~ 87 (269)
T cd06281 46 EILRSFEQRRMDGIIIAPGDER-D--PELVDALASLDLPIVLLDR 87 (269)
T ss_pred HHHHHHHHcCCCEEEEecCCCC-c--HHHHHHHHhCCCCEEEEec
Confidence 4556666667666665543222 1 1234456778999887653
No 323
>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=44.78 E-value=32 Score=23.43 Aligned_cols=33 Identities=27% Similarity=0.619 Sum_probs=26.4
Q ss_pred HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCC
Q psy6265 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP 42 (91)
Q Consensus 10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP 42 (91)
..|+-+++++|+|..+..-.+.+..+|+...-|
T Consensus 26 adGrfrI~vFagd~~~~~~~~~l~~~~~~L~~~ 58 (167)
T cd02979 26 ADGRFRIYVFAGDIAPAQQKSRLTQLCDALDSP 58 (167)
T ss_pred CCCCEEEEEEcCCCCchhHHHHHHHHHHHHcCC
Confidence 468899999999998655667888899876544
No 324
>cd03009 TryX_like_TryX_NRX Tryparedoxin (TryX)-like family, TryX and nucleoredoxin (NRX) subfamily; TryX and NRX are thioredoxin (TRX)-like protein disulfide oxidoreductases that alter the redox state of target proteins via the reversible oxidation of an active center CXXC motif. TryX is involved in the regulation of oxidative stress in parasitic trypanosomatids by reducing TryX peroxidase, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. TryX derives reducing equivalents from reduced trypanothione, a polyamine peptide conjugate unique to trypanosomatids, which is regenerated by the NADPH-dependent flavoprotein trypanothione reductase. Vertebrate NRX is a 400-amino acid nuclear protein with one redox active TRX domain containing a CPPC active site motif followed by one redox inactive TRX-like domain. Mouse NRX transcripts are expressed in all adult tissues but is restricted to the nervous system and limb buds in embryos. Plant NRX, longer than the
Probab=44.77 E-value=76 Score=19.76 Aligned_cols=65 Identities=9% Similarity=0.116 Sum_probs=34.9
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcC---CCCEEEeCCHhHHhhHhCCCCceEEEEEecCchH--HHHHHHHH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDK---DIPYCYVPSKKDIGEALGRKKPCICVIVKSTESV--AELYEEVK 81 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~---~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~--~~~~~~~~ 81 (91)
...++.++-|.+.. .+....+++ ++|+..-....++.+..|....=+..+++.+|+. ...++.+.
T Consensus 53 ~~~vv~is~d~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~P~~~lid~~G~i~~~~~~~~~~ 122 (131)
T cd03009 53 NFEIVFISWDRDEE----SFNDYFSKMPWLAVPFSDRERRSRLNRTFKIEGIPTLIILDADGEVVTTDARELVL 122 (131)
T ss_pred CEEEEEEECCCCHH----HHHHHHHcCCeeEcccCCHHHHHHHHHHcCCCCCCEEEEECCCCCEEcccHHHHHh
Confidence 56788888876543 233344444 2333211123578888887644446677766653 34444433
No 325
>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=44.73 E-value=87 Score=21.25 Aligned_cols=40 Identities=20% Similarity=0.349 Sum_probs=22.5
Q ss_pred HHHHHHHhCCceEEEE-eCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIF-AGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lVii-A~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++++.-+|+ +.|.++ . ....+.+.+||++.+.+
T Consensus 45 ~~i~~~~~~~vdgiii~~~~~~~-~----~~~~~~~~~ipvV~~~~ 85 (266)
T cd06278 45 AALRQLLQYRVDGVIVTSGTLSS-E----LAEECRRNGIPVVLINR 85 (266)
T ss_pred HHHHHHHHcCCCEEEEecCCCCH-H----HHHHHhhcCCCEEEECC
Confidence 3444455555654554 444332 2 24456778999987754
No 326
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=44.65 E-value=59 Score=21.73 Aligned_cols=19 Identities=21% Similarity=0.027 Sum_probs=14.2
Q ss_pred HHHhcCCCCEEEeCCHhHH
Q psy6265 34 AVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 34 ~lc~~~~IP~~~~~sk~eL 52 (91)
..++..++|++.+.+|.++
T Consensus 114 ~~~~~~~~~~iiv~NK~Dl 132 (192)
T cd01889 114 VIGEILCKKLIVVLNKIDL 132 (192)
T ss_pred HHHHHcCCCEEEEEECccc
Confidence 3566678999888887765
No 327
>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=44.53 E-value=94 Score=22.61 Aligned_cols=48 Identities=6% Similarity=0.008 Sum_probs=33.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEA 55 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a 55 (91)
++..+.|..-.+.+||.-..+++. ...++.++||-.+.--++.+|-+.
T Consensus 120 ~~~v~kI~~~g~nvIl~~k~I~~~-----a~~~l~k~gI~~v~~v~~~dl~rI 167 (261)
T cd03334 120 KNLVSRIVALRPDVILVEKSVSRI-----AQDLLLEAGITLVLNVKPSVLERI 167 (261)
T ss_pred HHHHHHHHhcCCCEEEECCccCHH-----HHHHHHHCCCEEEEecCHHHHHHH
Confidence 455667777779999999888773 234667889888776666654443
No 328
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=44.50 E-value=56 Score=26.38 Aligned_cols=45 Identities=13% Similarity=0.087 Sum_probs=34.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.++...|.+.+--++++...+.-......+..+++..++|++..
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 356677888888788888888753345677899999999999864
No 329
>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=44.48 E-value=69 Score=19.18 Aligned_cols=30 Identities=3% Similarity=0.076 Sum_probs=19.2
Q ss_pred hhHHHHHhcCCCCEEEeC---C---HhHHhhHhCCC
Q psy6265 30 CHLPAVCEDKDIPYCYVP---S---KKDIGEALGRK 59 (91)
Q Consensus 30 ~~l~~lc~~~~IP~~~~~---s---k~eLG~a~G~~ 59 (91)
..+..+-+.++|||..+. + +++|.+.-|..
T Consensus 27 ~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g~~ 62 (90)
T cd03028 27 RKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSNWP 62 (90)
T ss_pred HHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 345566688899987654 1 34666666654
No 330
>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=44.27 E-value=40 Score=22.94 Aligned_cols=33 Identities=15% Similarity=0.055 Sum_probs=22.3
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcC-CCCEEEeC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDK-DIPYCYVP 47 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~-~IP~~~~~ 47 (91)
...+||.|.|- + +.+..+...|.++ ++|+++..
T Consensus 88 ~~DlVi~~~d~-~-~~r~~i~~~~~~~~~ip~i~~~ 121 (174)
T cd01487 88 DCDIVVEAFDN-A-ETKAMLAESLLGNKNKPVVCAS 121 (174)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHHCCCCEEEEe
Confidence 46789989774 4 4445455555555 99999864
No 331
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=44.20 E-value=54 Score=23.69 Aligned_cols=49 Identities=24% Similarity=0.310 Sum_probs=32.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGR 58 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~ 58 (91)
.|+..+++.| +++++ || .+...+.+.|++++||++= +.|-.|+-+|...
T Consensus 82 e~a~~a~~aG-A~FiV-----sP-~~~~~v~~~~~~~~i~~iPG~~TpsEi~~A~~~ 131 (222)
T PRK07114 82 ATAALYIQLG-ANFIV-----TP-LFNPDIAKVCNRRKVPYSPGCGSLSEIGYAEEL 131 (222)
T ss_pred HHHHHHHHcC-CCEEE-----CC-CCCHHHHHHHHHcCCCEeCCCCCHHHHHHHHHC
Confidence 3555666666 55543 34 2334577899999999975 6677777666653
No 332
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=43.95 E-value=40 Score=24.24 Aligned_cols=84 Identities=10% Similarity=0.002 Sum_probs=42.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch-hHHhhHHHHHhcCCCCEEEeCCHhHHh----------hHhCCC-C-ceEEEEEec
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI-EIMCHLPAVCEDKDIPYCYVPSKKDIG----------EALGRK-K-PCICVIVKS 69 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~-~~~~~l~~lc~~~~IP~~~~~sk~eLG----------~a~G~~-~-~~~v~~i~~ 69 (91)
+.+.++++.-. ++++--|++.. .....+....+..++|++.+.+|.++- ...+.. . ...-..-..
T Consensus 71 ~~~~~~l~~aD--vvl~VvD~~~~~~~~~~i~~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~v~~iSA~~ 148 (270)
T TIGR00436 71 KEARSAIGGVD--LILFVVDSDQWNGDGEFVLTKLQNLKRPVVLTRNKLDNKFKDKLLPLIDKYAILEDFKDIVPISALT 148 (270)
T ss_pred HHHHHHHhhCC--EEEEEEECCCCCchHHHHHHHHHhcCCCEEEEEECeeCCCHHHHHHHHHHHHhhcCCCceEEEecCC
Confidence 34555565443 44444444321 111345555567899999888887652 111111 1 111222234
Q ss_pred CchHHHHHHHHHHHhhcCC
Q psy6265 70 TESVAELYEEVKQEIGALP 88 (91)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~~ 88 (91)
+....+.++.+.+.++.-|
T Consensus 149 g~gi~~L~~~l~~~l~~~~ 167 (270)
T TIGR00436 149 GDNTSFLAAFIEVHLPEGP 167 (270)
T ss_pred CCCHHHHHHHHHHhCCCCC
Confidence 4555677777777765543
No 333
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=43.91 E-value=81 Score=23.22 Aligned_cols=54 Identities=19% Similarity=0.220 Sum_probs=36.9
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC--CHhHHhhHhCCCCce
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP--SKKDIGEALGRKKPC 62 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~a~G~~~~~ 62 (91)
+..+.|+++-+.+++|+.|+-- .+.. +.=+.-+||++..- |-.++-+. |.++..
T Consensus 66 ~~a~~Le~~GAd~i~l~~NT~H-~~~d---~iq~~~~iPllhIidaTa~~ik~~-g~kkvg 121 (230)
T COG1794 66 DAAKKLERAGADFIVLPTNTMH-KVAD---DIQKAVGIPLLHIIDATAKAIKAA-GAKKVG 121 (230)
T ss_pred HHHHHHHhcCCCEEEEeCCcHH-HHHH---HHHHhcCCCeehHHHHHHHHHHhc-CCceeE
Confidence 5678999999999999999843 3333 33357789998754 44555544 655444
No 334
>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=43.88 E-value=88 Score=20.43 Aligned_cols=50 Identities=20% Similarity=0.111 Sum_probs=31.1
Q ss_pred HHHHHhCCceEEEEeCCCCch--hHHhhHHHHHhcCCCCEEE--e--CCHhHHhhHh
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPI--EIMCHLPAVCEDKDIPYCY--V--PSKKDIGEAL 56 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~--~~~~~l~~lc~~~~IP~~~--~--~sk~eLG~a~ 56 (91)
++.+-+ ++..||+|.|++.. .+.-++...|...+.|+.. + -|++++=+|+
T Consensus 84 ik~l~~-~~d~iiiAtD~DrEGE~I~~~i~~~~~~~~~~v~R~~fsslT~~~I~~A~ 139 (142)
T cd01028 84 LKKLAK-KADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAF 139 (142)
T ss_pred HHHHHh-cCCEEEEcCCCCcchHHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHH
Confidence 334433 46899999999842 4566677888764556643 2 2555655554
No 335
>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=43.59 E-value=59 Score=18.13 Aligned_cols=16 Identities=19% Similarity=0.326 Sum_probs=10.7
Q ss_pred hHHHHHhcCCCCEEEe
Q psy6265 31 HLPAVCEDKDIPYCYV 46 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~ 46 (91)
....+.++++||+..+
T Consensus 15 ~ak~~L~~~~i~~~~i 30 (75)
T cd03418 15 RAKALLDKKGVDYEEI 30 (75)
T ss_pred HHHHHHHHCCCcEEEE
Confidence 4555667788888654
No 336
>PRK08905 lipid A biosynthesis lauroyl acyltransferase; Validated
Probab=43.42 E-value=58 Score=23.82 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=27.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch--------------hHHhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI--------------EIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~--------------~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++..++|++|+ +|.+..|-++. ....-...++...+.|++.+..
T Consensus 161 ~~~i~~aLk~g~--~v~il~Dq~~~~~~g~~v~FfG~~a~~~~gpa~lA~~~~apvvp~~~ 219 (289)
T PRK08905 161 VRMLVKALRRGE--AVGILPDQVPSGGEGVWAPFFGRPAYTMTLVARLAEVTGVPVIFVAG 219 (289)
T ss_pred HHHHHHHHhcCC--eEEEcCCCCCCCCCceEecCCCCcchHHHHHHHHHHhhCCcEEEEEE
Confidence 468899999995 66777776542 1111123566667777665543
No 337
>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=43.39 E-value=61 Score=18.29 Aligned_cols=42 Identities=17% Similarity=0.260 Sum_probs=24.4
Q ss_pred EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC--C----HhHHhhHhCCC
Q psy6265 16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP--S----KKDIGEALGRK 59 (91)
Q Consensus 16 lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~--s----k~eLG~a~G~~ 59 (91)
+++...+--|. -.+...+.++++|||..+. . +.+|-+..|..
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 34444443352 3456777788999986543 1 33576666653
No 338
>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=43.33 E-value=78 Score=21.81 Aligned_cols=41 Identities=12% Similarity=0.112 Sum_probs=22.9
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
++.+.+.++..+|+.... + +........+.+++||++.+.+
T Consensus 49 i~~~~~~~vdgiii~~~~-~-~~~~~~~~~~~~~~ipvV~~~~ 89 (270)
T cd06308 49 IENFIRQGVDLLIISPNE-A-APLTPVVEEAYRAGIPVILLDR 89 (270)
T ss_pred HHHHHHhCCCEEEEecCc-h-hhchHHHHHHHHCCCCEEEeCC
Confidence 344445566666666532 2 1112344455678999987764
No 339
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=43.31 E-value=74 Score=22.20 Aligned_cols=42 Identities=5% Similarity=0.014 Sum_probs=27.6
Q ss_pred hhHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
...+++++.+|. +..+++.+|-.. .....+|++++||+..+.
T Consensus 14 ~~~ll~~~~~~~l~~~I~~vi~~~~~----~~~~~~A~~~gip~~~~~ 57 (190)
T TIGR00639 14 LQAIIDACKEGKIPASVVLVISNKPD----AYGLERAAQAGIPTFVLS 57 (190)
T ss_pred HHHHHHHHHcCCCCceEEEEEECCcc----chHHHHHHHcCCCEEEEC
Confidence 456777887776 366655555322 234678999999998643
No 340
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated
Probab=43.26 E-value=40 Score=25.62 Aligned_cols=39 Identities=23% Similarity=0.209 Sum_probs=29.4
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
...+||-+.|- + +....+-++|.+++||+++.....--|
T Consensus 116 ~~DlVid~~Dn-~-~~r~~ln~~~~~~~iP~i~~~~~g~~G 154 (339)
T PRK07688 116 GVDLIIDATDN-F-ETRFIVNDAAQKYGIPWIYGACVGSYG 154 (339)
T ss_pred CCCEEEEcCCC-H-HHHHHHHHHHHHhCCCEEEEeeeeeee
Confidence 36899999884 4 456679999999999999866544334
No 341
>cd07392 MPP_PAE1087 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain. PAE1087 is an uncharacterized Pyrobaculum aerophilum protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordina
Probab=43.24 E-value=52 Score=21.44 Aligned_cols=43 Identities=26% Similarity=0.328 Sum_probs=28.6
Q ss_pred HHHhCCceEEEEeCCCCch---hHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 8 PLQRKTIMLCIFAGDVTPI---EIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~---~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
.+++.+..+||+++|.... .-...+ ..-+..++|+.++....+
T Consensus 18 ~~~~~~~D~vv~~GDl~~~~~~~~~~~~-~~l~~~~~p~~~v~GNHD 63 (188)
T cd07392 18 ILKAEEADAVIVAGDITNFGGKEAAVEI-NLLLAIGVPVLAVPGNCD 63 (188)
T ss_pred HhhccCCCEEEECCCccCcCCHHHHHHH-HHHHhcCCCEEEEcCCCC
Confidence 4567789999999998542 112223 444667899988775443
No 342
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=43.08 E-value=69 Score=25.56 Aligned_cols=43 Identities=21% Similarity=0.217 Sum_probs=31.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~ 45 (91)
.++.+.|.+-+--++++...+.-......+..+++..++|++.
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 4566778777766777776664224467799999999999985
No 343
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=43.03 E-value=62 Score=26.14 Aligned_cols=44 Identities=11% Similarity=-0.003 Sum_probs=34.4
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.+..+.|++.+--++++...+.-......+..+++..++|++..
T Consensus 212 ~~~~~~L~~AkrPvil~G~g~~~~~a~~~l~~lae~~g~pv~tt 255 (587)
T PRK06965 212 RKAVSLLLSAKRPYIYTGGGVILANASRELRQLADLLGYPVTNT 255 (587)
T ss_pred HHHHHHHHhcCCCEEEECCCccccchHHHHHHHHHHhCCCEEEc
Confidence 46677888888888888888853345677899999999999843
No 344
>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=42.96 E-value=63 Score=18.28 Aligned_cols=9 Identities=22% Similarity=0.398 Sum_probs=4.7
Q ss_pred hcCCCCEEE
Q psy6265 37 EDKDIPYCY 45 (91)
Q Consensus 37 ~~~~IP~~~ 45 (91)
++++|||..
T Consensus 20 ~~~~i~~~~ 28 (72)
T TIGR02194 20 EEHGIAFEE 28 (72)
T ss_pred HHCCCceEE
Confidence 455666543
No 345
>KOG0465|consensus
Probab=42.77 E-value=26 Score=29.62 Aligned_cols=56 Identities=9% Similarity=0.085 Sum_probs=37.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCE-EEeCCHhHHhhHhC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY-CYVPSKKDIGEALG 57 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~-~~~~sk~eLG~a~G 57 (91)
+-||.++|+==.-..+|+.+=..-..-...+....+.||||- +|+.-++++|.-.+
T Consensus 118 T~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~~ry~vP~i~FiNKmDRmGa~~~ 174 (721)
T KOG0465|consen 118 TFEVERALRVLDGAVLVLDAVAGVESQTETVWRQMKRYNVPRICFINKMDRMGASPF 174 (721)
T ss_pred EEEehhhhhhccCeEEEEEcccceehhhHHHHHHHHhcCCCeEEEEehhhhcCCChH
Confidence 457888887655455555544443234556888889999996 56777778886655
No 346
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=42.68 E-value=43 Score=26.96 Aligned_cols=47 Identities=19% Similarity=0.326 Sum_probs=32.3
Q ss_pred CCceEEEEeCCCCchhH--HhhHHHHHhcCCCCEEE----------------eCCHhHHhhHhCCC
Q psy6265 12 KTIMLCIFAGDVTPIEI--MCHLPAVCEDKDIPYCY----------------VPSKKDIGEALGRK 59 (91)
Q Consensus 12 gka~lViiA~D~sp~~~--~~~l~~lc~~~~IP~~~----------------~~sk~eLG~a~G~~ 59 (91)
.+...||++ |-....+ .+.++++|++.|+|+.. .+++.|+.+++|+.
T Consensus 142 ~~~~~vVLS-DY~KG~L~~~q~~I~~ar~~~~pVLvDPKg~Df~~Y~GAtLiTPN~~E~~~~vg~~ 206 (467)
T COG2870 142 KSFDALVLS-DYAKGVLTNVQKMIDLAREAGIPVLVDPKGKDFEKYRGATLITPNLKEFEEAVGKC 206 (467)
T ss_pred hcCCEEEEe-ccccccchhHHHHHHHHHHcCCcEEECCCCcchhhhCCCeecCCCHHHHHHHHccc
Confidence 456666665 4332222 46799999999999862 35677888888865
No 347
>TIGR00530 AGP_acyltrn 1-acyl-sn-glycerol-3-phosphate acyltransferases. 1-acyl-sn-glycerol-3-phosphate acyltransferase is also called 1-AGP acyltransferase, lysophosphatidic acid acyltransferase, and LPA acyltransferase.
Probab=42.64 E-value=65 Score=19.68 Aligned_cols=46 Identities=9% Similarity=-0.060 Sum_probs=27.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchh----HHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIE----IMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~----~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+++.+.+++|..-+++--.+.+... ...-+..++.+.++|++-+.
T Consensus 79 ~~~~~~~l~~g~~v~ifPeG~~~~~~~~~~f~~g~~~la~~~~~pvvpv~ 128 (130)
T TIGR00530 79 LKAAIEVLKQGRSIGVFPEGTRSRGRDILPFKKGAFHIAIKAGVPILPVV 128 (130)
T ss_pred HHHHHHHHhCCCEEEEeCCCCCCCCCCCCCcchhHHHHHHHcCCCEEeEE
Confidence 45678888888754444444333211 12345677888889887653
No 348
>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=42.63 E-value=46 Score=25.25 Aligned_cols=36 Identities=19% Similarity=0.178 Sum_probs=28.9
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
+..+||.|.|- . +...++-.+|..++||++..++.-
T Consensus 90 ~~DvVv~a~Dn-~-~ar~~in~~c~~~~ip~I~~gt~G 125 (312)
T cd01489 90 QFDLVFNALDN-L-AARRHVNKMCLAADVPLIESGTTG 125 (312)
T ss_pred cCCEEEECCCC-H-HHHHHHHHHHHHCCCCEEEEecCc
Confidence 36688888885 4 457789999999999999887643
No 349
>PRK10610 chemotaxis regulatory protein CheY; Provisional
Probab=42.45 E-value=65 Score=18.28 Aligned_cols=81 Identities=12% Similarity=0.081 Sum_probs=34.4
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHh---cCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHH
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCE---DKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQ 82 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~---~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~ 82 (91)
...+......++++..+.....-...+..+-+ ..++|++.+.+....+.....-...+..++..+-+..+..+.+..
T Consensus 43 ~~~~~~~~~di~l~d~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~ 122 (129)
T PRK10610 43 LNKLQAGGFGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNK 122 (129)
T ss_pred HHHhhccCCCEEEEcCCCCCCCHHHHHHHHHhCCCcCCCcEEEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHH
Confidence 34455556677776543322111222222322 245777766443322222111112234455555554544444444
Q ss_pred Hhhc
Q psy6265 83 EIGA 86 (91)
Q Consensus 83 ~~~~ 86 (91)
.++.
T Consensus 123 ~~~~ 126 (129)
T PRK10610 123 IFEK 126 (129)
T ss_pred HHHH
Confidence 4433
No 350
>PRK00093 GTP-binding protein Der; Reviewed
Probab=42.30 E-value=46 Score=25.46 Aligned_cols=79 Identities=14% Similarity=0.230 Sum_probs=43.0
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh-------H--hCCCCceEEEEEecCchHH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE-------A--LGRKKPCICVIVKSTESVA 74 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~-------a--~G~~~~~~v~~i~~~~~~~ 74 (91)
++..+++.-.+-++++.........-..+..+.+..++|++.+.+|.++-. . +|......+. -..+....
T Consensus 73 ~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~~~~~~~~~~~lg~~~~~~iS-a~~g~gv~ 151 (435)
T PRK00093 73 QAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGPDEEADAYEFYSLGLGEPYPIS-AEHGRGIG 151 (435)
T ss_pred HHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEEEEEECccCccchhhHHHHHhcCCCCCEEEE-eeCCCCHH
Confidence 445566655554554444332222233466677788999999988876421 1 3332222222 23344557
Q ss_pred HHHHHHHHH
Q psy6265 75 ELYEEVKQE 83 (91)
Q Consensus 75 ~~~~~~~~~ 83 (91)
+.++.+.+.
T Consensus 152 ~l~~~I~~~ 160 (435)
T PRK00093 152 DLLDAILEE 160 (435)
T ss_pred HHHHHHHhh
Confidence 778877763
No 351
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=42.21 E-value=74 Score=23.74 Aligned_cols=41 Identities=7% Similarity=0.159 Sum_probs=32.8
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.++.+.|+..+++.||.....++ .. +..++++.++++...
T Consensus 241 l~~l~~~ik~~~v~~If~e~~~~~-~~---~~~la~e~g~~v~~l 281 (311)
T PRK09545 241 LHEIRTQLVEQKATCVFAEPQFRP-AV---IESVAKGTSVRMGTL 281 (311)
T ss_pred HHHHHHHHHHcCCCEEEecCCCCh-HH---HHHHHHhcCCeEEEe
Confidence 467889999999999999998877 33 445678889988664
No 352
>PRK12736 elongation factor Tu; Reviewed
Probab=42.18 E-value=46 Score=25.58 Aligned_cols=50 Identities=12% Similarity=0.110 Sum_probs=28.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCE-EEeCCHhH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY-CYVPSKKD 51 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~-~~~~sk~e 51 (91)
++++..++..-.+-++++..+-...........++...++|. +.+-+|.+
T Consensus 89 ~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D 139 (394)
T PRK12736 89 VKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVD 139 (394)
T ss_pred HHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecC
Confidence 355666666556667777665432122234456788899994 44444443
No 353
>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=42.10 E-value=66 Score=18.28 Aligned_cols=69 Identities=7% Similarity=-0.054 Sum_probs=40.6
Q ss_pred EEEeCCCCchhHHhhHHHHHhcC-CCCEEEeCC-HhHHhh-HhCCCCceEEEEEecCchHHHHHHHHHHHhhcC
Q psy6265 17 CIFAGDVTPIEIMCHLPAVCEDK-DIPYCYVPS-KKDIGE-ALGRKKPCICVIVKSTESVAELYEEVKQEIGAL 87 (91)
Q Consensus 17 ViiA~D~sp~~~~~~l~~lc~~~-~IP~~~~~s-k~eLG~-a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~ 87 (91)
.|++...+- .....+..+..+. ++|+....+ -..++. +...+....+.++..+|+- .+...+.+.+++.
T Consensus 2 ~i~g~G~s~-~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~iS~sg~t-~~~~~~~~~a~~~ 73 (87)
T cd04795 2 FVIGIGGSG-AIAAYFALELLELTGIEVVALIATELEHASLLSLLRKGDVVIALSYSGRT-EELLAALEIAKEL 73 (87)
T ss_pred EEEEcCHHH-HHHHHHHHHHhcccCCceEEeCCcHHHHHHHHhcCCCCCEEEEEECCCCC-HHHHHHHHHHHHc
Confidence 456666554 4566677777777 888877664 334444 4444555666666666653 3344555555544
No 354
>COG1861 SpsF Spore coat polysaccharide biosynthesis protein F, CMP-KDO synthetase homolog [Cell envelope biogenesis, outer membrane]
Probab=42.04 E-value=88 Score=23.19 Aligned_cols=53 Identities=13% Similarity=0.167 Sum_probs=37.8
Q ss_pred ChhHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh-HHhhHhC
Q psy6265 1 MNSTVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK-DIGEALG 57 (91)
Q Consensus 1 ~~kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~-eLG~a~G 57 (91)
|+.-+++.+++-+ .++|+-++|-.. -+.|...|+.+|+ +++-+|-+ -|-+-++
T Consensus 30 mI~~~lervrks~~~d~ivvATS~~~~---d~~l~~~~~~~G~-~vfrGs~~dVL~Rf~~ 85 (241)
T COG1861 30 MIEYQLERVRKSKDLDKIVVATSDKEE---DDALEEVCRSHGF-YVFRGSEEDVLQRFII 85 (241)
T ss_pred hHHHHHHHHhccccccceEEEecCCcc---hhHHHHHHHHcCe-eEecCCHHHHHHHHHH
Confidence 4555677787777 888888888644 3568899999999 66667655 3444444
No 355
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=41.97 E-value=75 Score=21.93 Aligned_cols=42 Identities=14% Similarity=0.073 Sum_probs=22.6
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.++.+...++.-+|+...... .. ......+++++||++.+.+
T Consensus 47 ~i~~l~~~~vdgiIi~~~~~~-~~-~~~i~~~~~~~iPvV~~~~ 88 (273)
T cd06309 47 AIRSFIAQGVDVIILAPVVET-GW-DPVLKEAKAAGIPVILVDR 88 (273)
T ss_pred HHHHHHHcCCCEEEEcCCccc-cc-hHHHHHHHHCCCCEEEEec
Confidence 344455555555555442211 11 2234556788999887764
No 356
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=41.88 E-value=94 Score=21.32 Aligned_cols=40 Identities=8% Similarity=-0.008 Sum_probs=23.8
Q ss_pred HHHHHHHhCCceEEEEeC-CCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAG-DVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~-D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++++.-+|+.. +.++ .. ...+..++||++.+.+
T Consensus 46 ~~i~~~~~~~vdgii~~~~~~~~-~~----~~~~~~~~ipvV~~~~ 86 (268)
T cd06270 46 EAIEFLLERRCDALILHSKALSD-DE----LIELAAQVPPLVLINR 86 (268)
T ss_pred HHHHHHHHcCCCEEEEecCCCCH-HH----HHHHhhCCCCEEEEec
Confidence 455555566666666654 4333 21 3445678999987754
No 357
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=41.52 E-value=47 Score=25.46 Aligned_cols=33 Identities=12% Similarity=0.103 Sum_probs=23.5
Q ss_pred ceEEEEeCCCC---------------ch--hHHhhHHHHHhcCCCCEEEe
Q psy6265 14 IMLCIFAGDVT---------------PI--EIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 14 a~lViiA~D~s---------------p~--~~~~~l~~lc~~~~IP~~~~ 46 (91)
-...|+|+|-. |. +...++..+|++.++|++++
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 35678888852 22 33456899999999998865
No 358
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=41.44 E-value=88 Score=23.36 Aligned_cols=39 Identities=10% Similarity=0.071 Sum_probs=21.8
Q ss_pred HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
..+.+| +.-++++.. ++.. .......+.+.+||++.+.+
T Consensus 75 ~li~~~-vdgIiv~~~-d~~a-l~~~l~~a~~~gIpVV~~d~ 113 (336)
T PRK15408 75 NFVNQG-YNAIIVSAV-SPDG-LCPALKRAMQRGVKVLTWDS 113 (336)
T ss_pred HHHHcC-CCEEEEecC-CHHH-HHHHHHHHHHCCCeEEEeCC
Confidence 344444 554555432 2322 33456678899999886543
No 359
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=41.30 E-value=33 Score=22.52 Aligned_cols=72 Identities=21% Similarity=0.249 Sum_probs=37.2
Q ss_pred CceEEEEeCCCCchhHHhhHHHHH----hcCCCCEEEeCCHhHHhhH--------------hCCCCceEEEEEecCchHH
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVC----EDKDIPYCYVPSKKDIGEA--------------LGRKKPCICVIVKSTESVA 74 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc----~~~~IP~~~~~sk~eLG~a--------------~G~~~~~~v~~i~~~~~~~ 74 (91)
.+..+++--|.+...-...+..+- ...++|++.+.+|.+|... .|..... -.-...+....
T Consensus 77 ~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~Sa~~~~~v~ 155 (169)
T cd01892 77 ACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPL-HFSSKLGDSSN 155 (169)
T ss_pred cCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCE-EEEeccCccHH
Confidence 355555555664322222222222 2348999999999888421 2221111 12223344567
Q ss_pred HHHHHHHHHhh
Q psy6265 75 ELYEEVKQEIG 85 (91)
Q Consensus 75 ~~~~~~~~~~~ 85 (91)
+.|+.+.+.+-
T Consensus 156 ~lf~~l~~~~~ 166 (169)
T cd01892 156 ELFTKLATAAQ 166 (169)
T ss_pred HHHHHHHHHhh
Confidence 77777777643
No 360
>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=41.29 E-value=61 Score=24.01 Aligned_cols=41 Identities=15% Similarity=0.287 Sum_probs=28.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
++.+++.|.+| -..||...++. ....+..+|+..+||++..
T Consensus 52 ~~~~c~ll~~~--V~aiiGp~~s~--~~~~~~~~~~~~~iP~i~~ 92 (382)
T cd06380 52 TNAICSQLSRG--VFAIFGSYDKS--SVNTLTSYSDALHVPFITP 92 (382)
T ss_pred HHHHHHHHhcC--cEEEEecCcHH--HHHHHHHHHhcCCCCeEec
Confidence 45677778654 34456665544 3456888999999999864
No 361
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=41.28 E-value=96 Score=19.91 Aligned_cols=23 Identities=13% Similarity=0.108 Sum_probs=16.1
Q ss_pred hHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 31 HLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
.+...+...++|++.+.+|.++-
T Consensus 105 ~~~~~~~~~~~~i~iv~nK~D~~ 127 (189)
T cd00881 105 EHLRIAREGGLPIIVAINKIDRV 127 (189)
T ss_pred HHHHHHHHCCCCeEEEEECCCCc
Confidence 34456666889998888876654
No 362
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=41.24 E-value=38 Score=24.33 Aligned_cols=25 Identities=24% Similarity=0.244 Sum_probs=18.8
Q ss_pred HHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 28 IMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 28 ~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
........++..++|++.+.+|.+|
T Consensus 55 ~l~r~l~~~~~~~i~~vIV~NK~DL 79 (245)
T TIGR00157 55 QLDRFLVVAEAQNIEPIIVLNKIDL 79 (245)
T ss_pred HHHHHHHHHHHCCCCEEEEEECccc
Confidence 3445556777788999888888887
No 363
>PF12850 Metallophos_2: Calcineurin-like phosphoesterase superfamily domain; InterPro: IPR024654 Domains in this entry are members of the calcineurin-like phosphoesterase domain superfamily [].; PDB: 2GJU_A 1Z2W_A 1Z2X_B 3PSO_B 3PSN_B 1W24_A 2R17_B 3QFN_B 3QFO_A 3QFM_A ....
Probab=41.16 E-value=67 Score=20.21 Aligned_cols=40 Identities=28% Similarity=0.382 Sum_probs=23.2
Q ss_pred HHHHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
++.+.+ +++.+||+++|. ++.++...+. +. |+.++....+
T Consensus 18 ~~~~~~--~~~d~vi~~GDi~~~~~~~~~~~----~~--~~~~v~GNHD 58 (156)
T PF12850_consen 18 AVLEYI--NEPDFVIILGDIFDPEEVLELLR----DI--PVYVVRGNHD 58 (156)
T ss_dssp HHHHHH--TTESEEEEES-SCSHHHHHHHHH----HH--EEEEE--CCH
T ss_pred HHHHHh--cCCCEEEECCCchhHHHHHHHHh----cC--CEEEEeCCcc
Confidence 456666 469999999999 4434443332 22 7777765554
No 364
>PRK15494 era GTPase Era; Provisional
Probab=41.15 E-value=59 Score=24.49 Aligned_cols=84 Identities=15% Similarity=0.152 Sum_probs=41.2
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh--------hHhCCCCc-eEEEE--EecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG--------EALGRKKP-CICVI--VKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG--------~a~G~~~~-~~v~~--i~~~~ 71 (91)
+.+..+++.-.+-++++-+.-+..+....+....++.+.|.+.+.+|.+|- +.+..... ..+.- -..+.
T Consensus 123 r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~~~~~~~~~~l~~~~~~~~i~~iSAktg~ 202 (339)
T PRK15494 123 RCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIVPIFLLNKIDIESKYLNDIKAFLTENHPDSLLFPISALSGK 202 (339)
T ss_pred HHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCccccHHHHHHHHHhcCCCcEEEEEeccCcc
Confidence 344455554444444443222222333334455556678888888887652 22222111 11111 22345
Q ss_pred hHHHHHHHHHHHhhc
Q psy6265 72 SVAELYEEVKQEIGA 86 (91)
Q Consensus 72 ~~~~~~~~~~~~~~~ 86 (91)
...+.++.+.+.++.
T Consensus 203 gv~eL~~~L~~~l~~ 217 (339)
T PRK15494 203 NIDGLLEYITSKAKI 217 (339)
T ss_pred CHHHHHHHHHHhCCC
Confidence 567778888777664
No 365
>PF07157 DNA_circ_N: DNA circularisation protein N-terminus; InterPro: IPR009826 This entry represents the N terminus (approximately 100 residues) of a number of phage DNA circulation proteins.
Probab=41.12 E-value=41 Score=21.19 Aligned_cols=46 Identities=13% Similarity=0.154 Sum_probs=32.1
Q ss_pred cCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhc
Q psy6265 38 DKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGA 86 (91)
Q Consensus 38 ~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~ 86 (91)
.+..|+..-..-++||+.. +...+-++--+.+|...++.+++.+++
T Consensus 30 ~heyP~rd~~~vEDlG~~~---r~~~~~a~~~G~dy~~~~~~L~~al~~ 75 (93)
T PF07157_consen 30 VHEYPYRDGPWVEDLGRKA---RRIRVTAFFVGDDYEAQRDALIAALEA 75 (93)
T ss_pred EEecCCCCCcCeeecCCCC---cEEEEEEEEECCcHHHHHHHHHHHHcC
Confidence 4556766666677777543 345555566688899999999988875
No 366
>PRK07377 hypothetical protein; Provisional
Probab=40.98 E-value=54 Score=23.34 Aligned_cols=54 Identities=15% Similarity=0.277 Sum_probs=37.7
Q ss_pred CCceEEEEeC--CC--CchhHHhhHHHHHhcCC--CCEEEeCCHhHHhhHhCCCCc-eEEE
Q psy6265 12 KTIMLCIFAG--DV--TPIEIMCHLPAVCEDKD--IPYCYVPSKKDIGEALGRKKP-CICV 65 (91)
Q Consensus 12 gka~lViiA~--D~--sp~~~~~~l~~lc~~~~--IP~~~~~sk~eLG~a~G~~~~-~~v~ 65 (91)
...++-++.. +. ....+..++...+++++ +.++...+.++|++|+--+.. ++|.
T Consensus 75 ~~~Rlgv~~~~~~~~~~~~~l~~~l~~~~~~y~~rlElv~y~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEIETETSSVFDQLIDQLRTILDKYHLRLELVVYPDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEeccccccccHHHHHHHHHHHHHHhCceeeEEecCCHHHHHHHHhcCCccEEec
Confidence 4467777773 11 23356777888999998 677788899999999986544 4343
No 367
>TIGR03254 oxalate_oxc oxalyl-CoA decarboxylase. In a number of bacteria, including Oxalobacter formigenes from the human gut, a two-gene operon of oxc (oxalyl-CoA decarboxylase) and frc (formyl-CoA transferase) encodes a system for degrading and therefore detoxifying oxalate. Members of this family are the thiamine pyrophosphate (TPP)-containing enzyme oxalyl-CoA decarboxylase.
Probab=40.93 E-value=66 Score=25.65 Aligned_cols=45 Identities=11% Similarity=0.118 Sum_probs=34.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.++...|.+.+--++++...+.-......+.++++..++|++...
T Consensus 197 ~~~~~~L~~AkrPvi~~G~g~~~~~a~~~l~~lae~~~~pv~tt~ 241 (554)
T TIGR03254 197 DRAVELLKDAKRPLILLGKGAAYAQADEEIREFVEKTGIPFLPMS 241 (554)
T ss_pred HHHHHHHHhCCCCEEEECCCccccChHHHHHHHHHHHCCCEEEcC
Confidence 466777888888888888887533446779999999999998643
No 368
>COG1803 MgsA Methylglyoxal synthase [Carbohydrate transport and metabolism]
Probab=40.89 E-value=91 Score=21.23 Aligned_cols=57 Identities=16% Similarity=0.126 Sum_probs=41.7
Q ss_pred HHHHHHHhCCceEEEEeCCC------CchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCce
Q psy6265 4 TVQGPLQRKTIMLCIFAGDV------TPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPC 62 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~------sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~ 62 (91)
|+=-.|-.|++-++|+--|- +| ++ +-+..+|.-+|||+-. ..|.+-|=+..+.....
T Consensus 66 QiGa~Iaeg~id~lIFf~DPLtaqPHdp-DV-kAL~Rl~~V~nIP~A~N~aTAe~li~~~~~~~~~ 129 (142)
T COG1803 66 QIGALIAEGKIDVLIFFWDPLTAQPHDP-DV-KALLRLATVYNIPVATNRATAEFLIKSLLFNDFV 129 (142)
T ss_pred HHHHHHhcCcceEEEEEecCCCCCCCCc-CH-HHHHHHHHhhcccchhhHhHHHHHHhccccCCce
Confidence 34456788999999988774 34 64 5689999999999954 66777777777765443
No 369
>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional
Probab=40.88 E-value=48 Score=25.21 Aligned_cols=34 Identities=21% Similarity=0.241 Sum_probs=27.1
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
++-+||.+.|-. +....+.++|.+++||+++...
T Consensus 116 ~~DlVid~~D~~--~~r~~in~~~~~~~ip~i~~~~ 149 (338)
T PRK12475 116 EVDLIIDATDNF--DTRLLINDLSQKYNIPWIYGGC 149 (338)
T ss_pred CCCEEEEcCCCH--HHHHHHHHHHHHcCCCEEEEEe
Confidence 478999999853 3456789999999999998654
No 370
>PRK06860 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=40.87 E-value=72 Score=23.51 Aligned_cols=45 Identities=7% Similarity=-0.138 Sum_probs=27.0
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch---------------hHHhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI---------------EIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~---------------~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++.++++++|+ .|.+..|-++. ....-...++...|.|++.+..
T Consensus 184 ~r~~~k~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~~a~t~~g~a~LA~~~~apvvp~~~ 243 (309)
T PRK06860 184 LKGMIKALKKGE--RIWYAPDHDYGPRSSVFVPFFAVEQAATTTGTWMLARMSKAAVIPFVP 243 (309)
T ss_pred HHHHHHHHhcCC--eEEEeCCCCCCCCCCEEecCCCCCchhhHHHHHHHHHHhCCeEEEEEE
Confidence 467899999996 56777775531 1111123466667777665543
No 371
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=40.75 E-value=1.1e+02 Score=20.52 Aligned_cols=73 Identities=22% Similarity=0.170 Sum_probs=40.1
Q ss_pred CceEEEEeCCCCchhHH-------hhHHHHHhcCCCCEEEeCCHhHHhhH------------hCCCC--ceEEEEEecCc
Q psy6265 13 TIMLCIFAGDVTPIEIM-------CHLPAVCEDKDIPYCYVPSKKDIGEA------------LGRKK--PCICVIVKSTE 71 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~-------~~l~~lc~~~~IP~~~~~sk~eLG~a------------~G~~~--~~~v~~i~~~~ 71 (91)
.+..+++.-|++...-. ..+.......++|++.+.+|.++-.. ..... ...-.-...+.
T Consensus 70 ~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~ 149 (198)
T cd04147 70 NSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNE 149 (198)
T ss_pred cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCC
Confidence 34555555566432111 23444444578999999999887321 01111 11112234456
Q ss_pred hHHHHHHHHHHHhh
Q psy6265 72 SVAELYEEVKQEIG 85 (91)
Q Consensus 72 ~~~~~~~~~~~~~~ 85 (91)
...+.|+.+.+.+.
T Consensus 150 gv~~l~~~l~~~~~ 163 (198)
T cd04147 150 NVLEVFKELLRQAN 163 (198)
T ss_pred CHHHHHHHHHHHhh
Confidence 67888888887765
No 372
>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=40.61 E-value=84 Score=20.29 Aligned_cols=44 Identities=30% Similarity=0.156 Sum_probs=26.9
Q ss_pred CCceEEEEeCCCCch--hHHhhHHHHHhcCCCCEEEe----CCHhHHhhHh
Q psy6265 12 KTIMLCIFAGDVTPI--EIMCHLPAVCEDKDIPYCYV----PSKKDIGEAL 56 (91)
Q Consensus 12 gka~lViiA~D~sp~--~~~~~l~~lc~~~~IP~~~~----~sk~eLG~a~ 56 (91)
.++.-||+|.|++.. .+..++..++.. +.|+.++ -|+.++=+|+
T Consensus 71 ~~~~eiiiAtD~drEGe~i~~~i~~~~~~-~~~v~Rl~~sslt~~~I~~A~ 120 (123)
T cd03363 71 KKADEIYLATDPDREGEAIAWHLAEVLKL-KKNVKRVVFNEITKEAIKEAL 120 (123)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHcCC-CCCeEEEEEccCCHHHHHHHH
Confidence 458899999999842 344456666664 5666432 2455554443
No 373
>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=40.11 E-value=77 Score=19.80 Aligned_cols=43 Identities=7% Similarity=0.003 Sum_probs=27.2
Q ss_pred EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC
Q psy6265 16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK 59 (91)
Q Consensus 16 lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~ 59 (91)
+++++....-.++. ...+.|+++++|++-+-+..+|.+.+...
T Consensus 47 ~I~iS~SG~t~e~i-~~~~~a~~~g~~iI~IT~~~~l~~~~~~~ 89 (119)
T cd05017 47 VIAVSYSGNTEETL-SAVEQAKERGAKIVAITSGGKLLEMAREH 89 (119)
T ss_pred EEEEECCCCCHHHH-HHHHHHHHCCCEEEEEeCCchHHHHHHHc
Confidence 44444444433444 46678888999887665555788877654
No 374
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. 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 ccomposed 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. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=40.06 E-value=88 Score=23.21 Aligned_cols=42 Identities=14% Similarity=0.059 Sum_probs=25.4
Q ss_pred HHHHHHhCCceEEEEeCCCCchh--HHhhHHHHHhcCCCCEEEe
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIE--IMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~--~~~~l~~lc~~~~IP~~~~ 46 (91)
+.+.|-..++..||.+...++.. ....+..+|+.++||.+..
T Consensus 72 ~~~~Li~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~ 115 (377)
T cd06379 72 VCEQLISNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGI 115 (377)
T ss_pred HHHHHhhcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEec
Confidence 34333334566666655544422 3456777899999999864
No 375
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=40.04 E-value=44 Score=21.24 Aligned_cols=40 Identities=15% Similarity=0.069 Sum_probs=25.4
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G 57 (91)
++|--|+=.+.. .+..++...+++++||+..- .+|-+.++
T Consensus 20 ~~AP~vvA~G~G---~iAe~II~~Ake~~Vpi~ed---p~Lv~~L~ 59 (92)
T COG2257 20 DKAPKVVASGKG---EIAEKIIEKAKEHGVPIQED---PLLVELLL 59 (92)
T ss_pred CCCCEEEeecch---HHHHHHHHHHHHcCCCcccC---HHHHHHHH
Confidence 344444444432 57789999999999999543 34444444
No 376
>cd06285 PBP1_LacI_like_7 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=39.93 E-value=1.1e+02 Score=20.93 Aligned_cols=40 Identities=10% Similarity=0.116 Sum_probs=24.3
Q ss_pred HHHHHHHhCCceEEEEeC-CCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAG-DVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~-D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.+.++.+.-+|+.. +.+. . ......+++||+++++.
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~-~----~~~~~~~~~iPvv~~~~ 86 (265)
T cd06285 46 RAIEMLLDRRVDGLILGDARSDD-H----FLDELTRRGVPFVLVLR 86 (265)
T ss_pred HHHHHHHHcCCCEEEEecCCCCh-H----HHHHHHHcCCCEEEEcc
Confidence 456666677777666654 3222 2 23345778999987764
No 377
>PLN02775 Probable dihydrodipicolinate reductase
Probab=39.91 E-value=1.6e+02 Score=22.19 Aligned_cols=53 Identities=9% Similarity=0.136 Sum_probs=36.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE---eCCHhHHhhHhCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY---VPSKKDIGEALGR 58 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~---~~sk~eLG~a~G~ 58 (91)
+++..++...+.+|+| |.+.++.......+|.++++|++. =++.++|-+.+..
T Consensus 70 ~~l~~~~~~~~~~VvI--DFT~P~a~~~~~~~~~~~g~~~VvGTTG~~~e~l~~~~~~ 125 (286)
T PLN02775 70 AVLSSVKAEYPNLIVV--DYTLPDAVNDNAELYCKNGLPFVMGTTGGDRDRLLKDVEE 125 (286)
T ss_pred HHHHHhhccCCCEEEE--ECCChHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHhc
Confidence 3444444556665555 555446677788999999999874 3378888887774
No 378
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=39.80 E-value=72 Score=25.36 Aligned_cols=44 Identities=11% Similarity=0.077 Sum_probs=30.8
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.++...|.+.+--++++...+.-..-...+..+|+..++|++..
T Consensus 187 ~~~~~~L~~AkrPvIl~G~g~~~~~a~~~l~~lae~l~~Pv~tt 230 (548)
T PRK08978 187 EQARALLAQAKKPVLYVGGGVGMAGAVPALREFLAATGMPAVAT 230 (548)
T ss_pred HHHHHHHHcCCCCEEEECCCccccchHHHHHHHHHHHCCCEEEc
Confidence 45566777776666666665543234567899999999999864
No 379
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=39.74 E-value=48 Score=25.28 Aligned_cols=33 Identities=9% Similarity=0.002 Sum_probs=26.1
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
...+||-+.|- . .....+..+|.+++||+++..
T Consensus 118 ~~DvVvd~~d~-~-~~r~~~n~~c~~~~ip~v~~~ 150 (355)
T PRK05597 118 DADVILDGSDN-F-DTRHLASWAAARLGIPHVWAS 150 (355)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEE
Confidence 37799999985 3 345678999999999998754
No 380
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=39.70 E-value=82 Score=24.76 Aligned_cols=22 Identities=14% Similarity=0.282 Sum_probs=19.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVT 24 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~s 24 (91)
.+++..+...++-+|++|+|.-
T Consensus 32 ~eil~~a~~~~vD~VLiaGDLF 53 (405)
T TIGR00583 32 EEVLQIAKEQDVDMILLGGDLF 53 (405)
T ss_pred HHHHHHHHHcCCCEEEECCccC
Confidence 5778888899999999999984
No 381
>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=39.66 E-value=1e+02 Score=21.17 Aligned_cols=40 Identities=13% Similarity=0.002 Sum_probs=20.6
Q ss_pred HHHHHhCCce-EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 6 QGPLQRKTIM-LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 6 ~kai~~gka~-lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
++.+...++. +++.+.|.+ .. ......+.+++||++.+..
T Consensus 50 i~~~~~~~~dgiIi~~~~~~--~~-~~~i~~~~~~~ipvv~~~~ 90 (271)
T cd06321 50 IDNFIAAKVDLILLNAVDSK--GI-APAVKRAQAAGIVVVAVDV 90 (271)
T ss_pred HHHHHHhCCCEEEEeCCChh--Hh-HHHHHHHHHCCCeEEEecC
Confidence 3344444454 444443421 11 2233455678999987764
No 382
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=39.65 E-value=54 Score=24.75 Aligned_cols=52 Identities=12% Similarity=0.115 Sum_probs=43.2
Q ss_pred HHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhc
Q psy6265 35 VCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGA 86 (91)
Q Consensus 35 lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~ 86 (91)
+...+++-+.....=..|+..+.-+.+=..++||.+=|.+++|+.+++.+++
T Consensus 130 f~~d~~vrv~~~DG~~~l~a~LPP~erRglVLIDPPfE~~~eY~rvv~~l~~ 181 (279)
T COG2961 130 FAGDRRVRVLRGDGFLALKAHLPPKERRGLVLIDPPFELKDEYQRVVEALAE 181 (279)
T ss_pred hCCCcceEEEecCcHHHHhhhCCCCCcceEEEeCCCcccccHHHHHHHHHHH
Confidence 4467778777788888999999988877799999988888889999888765
No 383
>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=39.60 E-value=47 Score=21.77 Aligned_cols=47 Identities=6% Similarity=-0.036 Sum_probs=31.2
Q ss_pred hHHHHHHHhCCceEEEEeCC------C---------CchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 3 STVQGPLQRKTIMLCIFAGD------V---------TPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D------~---------sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
++.++.+++..+.+|++..- . .-..+-..+..+|++++++++-+.+.
T Consensus 86 ~~li~~~~~~~~~~il~~~~p~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~v~~vd~~~~ 147 (183)
T cd04501 86 RSMVELAEANGIKVILASPLPVDDYPWKPQWLRPANKLKSLNRWLKDYARENGLLFLDFYSP 147 (183)
T ss_pred HHHHHHHHHCCCcEEEEeCCCcCccccchhhcchHHHHHHHHHHHHHHHHHcCCCEEechhh
Confidence 45667777777887777521 1 01134455788999999999877753
No 384
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=39.59 E-value=96 Score=19.46 Aligned_cols=48 Identities=10% Similarity=-0.049 Sum_probs=30.3
Q ss_pred HHHHHHHhC--CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 4 TVQGPLQRK--TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 4 ev~kai~~g--ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
+-+..+..- +..++||..-.....+-..+....++++|.+....|.+.
T Consensus 42 ~~l~~l~~~~p~pe~liiGtG~~~~~~~~~~~~~l~~~GI~ve~m~T~~A 91 (110)
T PF04430_consen 42 EDLEELLELEPKPEVLIIGTGKRQLFLPPELREYLRKKGIGVEVMDTPAA 91 (110)
T ss_dssp HHHHHHHCTCCS-SEEEEEETTS-SECTHHHHHHHHTTT-EEEEE-HHHH
T ss_pred HHHHHHHhccCCCcEEEEccCCccccCCHHHHHHHHHcCCeEEEECHHHH
Confidence 344555555 788999988654333334566677899999999888764
No 385
>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=39.59 E-value=95 Score=19.38 Aligned_cols=37 Identities=11% Similarity=0.140 Sum_probs=21.3
Q ss_pred eEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 15 MLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 15 ~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
.+++.|.+..+....-++.+.|++.|+.-+.+-+..|
T Consensus 94 ~v~i~aD~~~~y~~vv~vl~~l~~~g~~~v~l~t~~e 130 (130)
T PF02472_consen 94 RVLIRADKDAPYQDVVDVLDALREAGFTKVSLATEKE 130 (130)
T ss_dssp -EEEEE-TTS-HHHHHHHHHHHHHTT---EE-TT---
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEEEecC
Confidence 5666666666777778899999999998777666543
No 386
>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=39.50 E-value=1.1e+02 Score=20.85 Aligned_cols=41 Identities=12% Similarity=0.099 Sum_probs=23.5
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.++.+.++++.-+|+....+. . .. ....++..+||++.+.
T Consensus 46 ~~i~~~~~~~vdgiii~~~~~~-~-~~-~~~~~~~~~ipvV~~~ 86 (268)
T cd06289 46 QLLSTMLEHGVAGIILCPAAGT-S-PD-LLKRLAESGIPVVLVA 86 (268)
T ss_pred HHHHHHHHcCCCEEEEeCCCCc-c-HH-HHHHHHhcCCCEEEEe
Confidence 3445555666666666543222 2 12 4456678899998765
No 387
>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=39.20 E-value=1.1e+02 Score=21.69 Aligned_cols=40 Identities=8% Similarity=0.028 Sum_probs=20.4
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++.+.+.++.-+|+..- ++... ......+.+.+||++.+.
T Consensus 49 i~~l~~~~vdgiIi~~~-~~~~~-~~~l~~~~~~giPvV~~~ 88 (302)
T TIGR02637 49 VNSLIAQKVDAIAISAN-DPDAL-VPALKKAMKRGIKVVTWD 88 (302)
T ss_pred HHHHHHcCCCEEEEeCC-ChHHH-HHHHHHHHHCCCEEEEeC
Confidence 44444445554444432 22122 234455677889987553
No 388
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.20 E-value=42 Score=23.12 Aligned_cols=52 Identities=13% Similarity=0.091 Sum_probs=35.2
Q ss_pred EEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchH
Q psy6265 17 CIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESV 73 (91)
Q Consensus 17 ViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~ 73 (91)
+++=.|+=| ++..+...++++++|+.+|.+...-- -....+-...++.+.+.
T Consensus 4 I~VDADACP--Vk~~i~r~A~r~~~~v~~Van~~~~~---~~~~~i~~v~V~~g~Da 55 (150)
T COG1671 4 IWVDADACP--VKDEIYRVAERMGLKVTFVANFPHRV---PPSPEIRTVVVDAGFDA 55 (150)
T ss_pred EEEeCCCCc--hHHHHHHHHHHhCCeEEEEeCCCccC---CCCCceeEEEecCCcch
Confidence 566677778 78889999999999999998765321 12334445555555553
No 389
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=39.08 E-value=96 Score=21.10 Aligned_cols=65 Identities=8% Similarity=0.130 Sum_probs=43.9
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHh--HHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKK--DIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~--eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
++.+.+...|++.++.+.+..|.. +|=.++.......-+++-.++-|+..==-|...+...+.|+
T Consensus 28 ~i~~~l~~~a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THtSvAi~DAl~~~~~P~ 94 (140)
T cd00466 28 DIEALLRELAAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHTSIALRDALAAVSIPV 94 (140)
T ss_pred HHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHHHHHHHHHHHcCCCCE
Confidence 567778888888999887776554 55555554433456788888888754445566666666663
No 390
>TIGR02740 TraF-like TraF-like protein. This protein is related to the F-type conjugation system pilus assembly proteins TraF (TIGR02739)and TrbB (TIGR02738) both of which exhibit a thioredoxin fold. The protein represented by this model has the same length and architecture as TraF, but lacks the CXXC-motif found in TrbB and believed to be responsible for the disulfide isomerase activity of that protein.
Probab=38.91 E-value=1.6e+02 Score=21.68 Aligned_cols=66 Identities=15% Similarity=0.095 Sum_probs=41.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhH-HhhHHHHHhcCCCCEEEeCC-------------HhHHhhHhCCCCceEEEEEec
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEI-MCHLPAVCEDKDIPYCYVPS-------------KKDIGEALGRKKPCICVIVKS 69 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~-~~~l~~lc~~~~IP~~~~~s-------------k~eLG~a~G~~~~~~v~~i~~ 69 (91)
++++.+...-+-+.|-|++|.+=.. .-.|..+++++++.++.+.. ...+.+..|....=+..+++.
T Consensus 159 ~~l~~l~~k~~Lv~F~AswCp~C~~~~P~L~~la~~yg~~Vi~VsvD~~~~~~fp~~~~d~~la~~~gV~~vPtl~Lv~~ 238 (271)
T TIGR02740 159 RVMKDLAKKSGLFFFFKSDCPYCHQQAPILQAFEDRYGIEVLPVSVDGGPLPGFPNARPDAGQAQQLKIRTVPAVFLADP 238 (271)
T ss_pred HHHHHhcCCeEEEEEECCCCccHHHHhHHHHHHHHHcCcEEEEEeCCCCccccCCcccCCHHHHHHcCCCcCCeEEEEEC
Confidence 4555555444555577888865322 33467889999987765442 135777888765545666665
No 391
>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=38.90 E-value=1e+02 Score=21.72 Aligned_cols=37 Identities=8% Similarity=-0.014 Sum_probs=19.2
Q ss_pred HHHhCCceEEEE-eCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 8 PLQRKTIMLCIF-AGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 8 ai~~gka~lVii-A~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+..+.+.-+|+ +.|.+ ........+.+.+||++.+.
T Consensus 51 ~~~~~~~dgiii~~~~~~---~~~~~i~~~~~~~iPvV~~~ 88 (294)
T cd06316 51 TTISQKPDIIISIPVDPV---STAAAYKKVAEAGIKLVFMD 88 (294)
T ss_pred HHHHhCCCEEEEcCCCch---hhhHHHHHHHHcCCcEEEec
Confidence 333344554444 44421 11234455678899987653
No 392
>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=38.85 E-value=1.1e+02 Score=20.27 Aligned_cols=50 Identities=18% Similarity=0.054 Sum_probs=30.2
Q ss_pred HHHHHhCCceEEEEeCCCCch--hHHhhHHHHHhc-CCCCEEEe----CCHhHHhhHh
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPI--EIMCHLPAVCED-KDIPYCYV----PSKKDIGEAL 56 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~--~~~~~l~~lc~~-~~IP~~~~----~sk~eLG~a~ 56 (91)
++.+-+ ++..||+|.|++.. .+..++...|.. .+.|+.++ -|+.++=+|+
T Consensus 92 ik~l~~-~ad~ii~atD~DrEGE~I~~~i~~~~~~~~~~~v~R~~fsslT~~~I~~A~ 148 (151)
T cd03362 92 LKKLAK-RADEIVIATDADREGELIGREILEYAKCVKRKPVKRAWFSSLTPKAIRRAF 148 (151)
T ss_pred HHHHHh-CCCeEEEccCCCccccHHHHHHHHHhCCCCCCcEEEEEEccCCHHHHHHHH
Confidence 344443 46899999999842 455667777776 25566432 2555555443
No 393
>PRK12735 elongation factor Tu; Reviewed
Probab=38.75 E-value=43 Score=25.74 Aligned_cols=51 Identities=10% Similarity=0.100 Sum_probs=29.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDI 52 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eL 52 (91)
.+++..++..-..-++++..+-.+..-......++...++|.+. +-+|.+|
T Consensus 89 ~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl 140 (396)
T PRK12735 89 VKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDM 140 (396)
T ss_pred HHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCC
Confidence 35566666655565666665543222223445678889999653 4455544
No 394
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=38.69 E-value=30 Score=25.06 Aligned_cols=18 Identities=28% Similarity=0.647 Sum_probs=15.1
Q ss_pred HhhHHHHHhcCCCCEEEe
Q psy6265 29 MCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 29 ~~~l~~lc~~~~IP~~~~ 46 (91)
..+|...|++.+||++|.
T Consensus 60 i~~Lr~~~~~~giPVvyT 77 (218)
T COG1535 60 IAKLRIWCKQAGIPVVYT 77 (218)
T ss_pred HHHHHHHHHHcCCcEEEE
Confidence 356889999999999874
No 395
>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=38.64 E-value=91 Score=18.92 Aligned_cols=78 Identities=13% Similarity=0.078 Sum_probs=39.0
Q ss_pred hhHHHHHHHhC---CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC------CCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRK---TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG------RKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~g---ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G------~~~~~~v~~i~~~~~ 72 (91)
+.++++++.+. ...++|+....++ .....+..+.......+.+.......|..-+ ....-.+++++....
T Consensus 12 l~~~l~sl~~q~~~~~~iivvdd~s~d-~t~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~n~~~~~~~~~~i~~~D~D~~ 90 (180)
T cd06423 12 IERTIESLLALDYPKLEVIVVDDGSTD-DTLEILEELAALYIRRVLVVRDKENGGKAGALNAGLRHAKGDIVVVLDADTI 90 (180)
T ss_pred HHHHHHHHHhCCCCceEEEEEeCCCcc-chHHHHHHHhccccceEEEEEecccCCchHHHHHHHHhcCCCEEEEECCCCC
Confidence 45677888776 3566665554444 4455555555544333444444444443222 223334666665543
Q ss_pred H-HHHHHHH
Q psy6265 73 V-AELYEEV 80 (91)
Q Consensus 73 ~-~~~~~~~ 80 (91)
. .+.+.++
T Consensus 91 ~~~~~l~~~ 99 (180)
T cd06423 91 LEPDALKRL 99 (180)
T ss_pred cChHHHHHH
Confidence 3 3445555
No 396
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type 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 binding which in turn changes the DNA b
Probab=38.64 E-value=1.2e+02 Score=20.68 Aligned_cols=41 Identities=12% Similarity=0.122 Sum_probs=24.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+.+.++++.-+|+...-++ .. .+. ....++||++.+++
T Consensus 47 ~~~~~l~~~~vdgiii~~~~~~-~~--~~~-~~~~~~ipvv~~~~ 87 (264)
T cd01574 47 AAVRRLLAQRVDGVIVNAPLDD-AD--AAL-AAAPADVPVVFVDG 87 (264)
T ss_pred HHHHHHHhcCCCEEEEeCCCCC-hH--HHH-HHHhcCCCEEEEec
Confidence 4566677777777776543333 21 122 23467899887764
No 397
>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=38.33 E-value=60 Score=23.43 Aligned_cols=41 Identities=10% Similarity=0.071 Sum_probs=31.4
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~ 44 (91)
-+.+++++..+..++|-.+.-....+.++..+.++.|||++
T Consensus 172 ~l~~a~~~s~~~~a~id~K~l~~~~r~~i~~~l~~~gi~v~ 212 (213)
T PF04414_consen 172 VLRQAIEKSGADVAIIDWKSLKSEDRRRIEELLEELGIEVI 212 (213)
T ss_dssp HHHHHHCHCT-SEEEEETTTS-HHHHHHHHHHHHHHT-EEE
T ss_pred HHHHHHHhCCCcEEEEecCCCCHHHHHHHHHHHHHcCCeee
Confidence 35677888888888888777766788999999999999986
No 398
>PTZ00175 diphthine synthase; Provisional
Probab=38.26 E-value=1.6e+02 Score=21.72 Aligned_cols=66 Identities=18% Similarity=0.180 Sum_probs=36.2
Q ss_pred EeCCCCchhHHhhHHHHHhcCCCCEEEeC--CH-hHHhhHhCC---C--CceEEEEEecCchHHHHHHHHHHHhh
Q psy6265 19 FAGDVTPIEIMCHLPAVCEDKDIPYCYVP--SK-KDIGEALGR---K--KPCICVIVKSTESVAELYEEVKQEIG 85 (91)
Q Consensus 19 iA~D~sp~~~~~~l~~lc~~~~IP~~~~~--sk-~eLG~a~G~---~--~~~~v~~i~~~~~~~~~~~~~~~~~~ 85 (91)
.++|-.-.+-...+...+++++|++..++ |- ..+| .+|. + ..+++.+......-.+-||.+.+-++
T Consensus 83 ~~GDP~i~~t~~~l~~~~~~~gi~vevIPGvSi~sA~~-~~Gl~~~~fg~~~sv~~~t~~~~~~s~~~~i~~n~~ 156 (270)
T PTZ00175 83 VVGDPFCATTHTDLYLRAKKKGIEVEVIHNASIMNAIG-CTGLQLYRFGETVSIPFFTETWKPDSFYDKIKANRD 156 (270)
T ss_pred ECCCCCccCCHHHHHHHHHHCCCcEEEECCcCHHHHHh-hcCCCcCCCCceEEEEEEeCCCCCCChhHHHHHHHH
Confidence 36665332334456678889999999887 42 2343 3565 2 33445555443222345666555443
No 399
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=38.25 E-value=78 Score=25.71 Aligned_cols=44 Identities=16% Similarity=0.130 Sum_probs=32.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+++.+.|.+.+--++++..-+........+..+|+..++|++..
T Consensus 222 ~~~~~~L~~AkrPlIl~G~g~~~~~a~~~l~~lae~l~~PV~tt 265 (612)
T PRK07789 222 REAAKLIAAARRPVLYVGGGVIRAEASAELRELAELTGIPVVTT 265 (612)
T ss_pred HHHHHHHHhCCCCEEEECCCccccCHHHHHHHHHHHHCCCEEEc
Confidence 45566777777777777777743345677999999999999854
No 400
>PRK02627 acetylornithine aminotransferase; Provisional
Probab=38.19 E-value=63 Score=24.00 Aligned_cols=43 Identities=12% Similarity=0.197 Sum_probs=28.3
Q ss_pred hCCceEEEEeCC-------CCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 11 RKTIMLCIFAGD-------VTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 11 ~gka~lViiA~D-------~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
+.+.++||+-.. .-+.+....|.++|+++++.++.-..-..+|
T Consensus 180 ~~~~~~vii~p~~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~DE~~~g~g 229 (396)
T PRK02627 180 TDKTAAVMLEPIQGEGGVNPADKEYLQALRELCDENGILLILDEVQTGMG 229 (396)
T ss_pred CCCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEEechhcCCC
Confidence 457888888532 2123567889999999999887543333344
No 401
>cd02983 P5_C P5 family, C-terminal redox inactive TRX-like domain; P5 is a protein disulfide isomerase (PDI)-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. The C-terminal domain is likely involved in substrate binding, similar to the b and b' domains of PDI.
Probab=38.17 E-value=64 Score=21.00 Aligned_cols=45 Identities=16% Similarity=0.221 Sum_probs=25.7
Q ss_pred EEEeCCHhHHhhHhCCCCceEEEEEec----C----chHHHHHHHHHHHhhcC
Q psy6265 43 YCYVPSKKDIGEALGRKKPCICVIVKS----T----ESVAELYEEVKQEIGAL 87 (91)
Q Consensus 43 ~~~~~sk~eLG~a~G~~~~~~v~~i~~----~----~~~~~~~~~~~~~~~~~ 87 (91)
++..-+.+.|...|+.+.-+.++++.. . .++.+.|.++.+..+..
T Consensus 4 ~~~l~~~~~~~~~C~~~~~C~i~~l~~~~d~~~e~~~~~~~~l~~vAk~~kgk 56 (130)
T cd02983 4 IIELTSEDVFEETCEEKQLCIIAFLPHILDCQASCRNKYLEILKSVAEKFKKK 56 (130)
T ss_pred eEEecCHHHHHhhccCCCeEEEEEcCccccCCHHHHHHHHHHHHHHHHHhcCC
Confidence 456667778888888764455555542 1 12344555555555443
No 402
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=38.14 E-value=1.4e+02 Score=21.80 Aligned_cols=65 Identities=17% Similarity=0.062 Sum_probs=37.4
Q ss_pred CCchhHHhhHHHHHhcCCCCEEEeCCHhH----HhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcC
Q psy6265 23 VTPIEIMCHLPAVCEDKDIPYCYVPSKKD----IGEALGRKKPCICVIVKSTESVAELYEEVKQEIGAL 87 (91)
Q Consensus 23 ~sp~~~~~~l~~lc~~~~IP~~~~~sk~e----LG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~ 87 (91)
++-.++...+...|++++.++.+++++.+ +-+.+......-++....+--..++.+.+++.|...
T Consensus 88 v~G~dl~~~ll~~~~~~~~~v~llG~~~~v~~~a~~~l~~~y~l~i~g~~~Gyf~~~e~~~i~~~I~~s 156 (243)
T PRK03692 88 VAGADLWEALMARAGKEGTPVFLVGGKPEVLAQTEAKLRTQWNVNIVGSQDGYFTPEQRQALFERIHAS 156 (243)
T ss_pred eChHHHHHHHHHHHHhcCCeEEEECCCHHHHHHHHHHHHHHhCCEEEEEeCCCCCHHHHHHHHHHHHhc
Confidence 33347788888889899999999998876 333333322222333332211133445666666544
No 403
>COG2877 KdsA 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]
Probab=38.04 E-value=1.7e+02 Score=22.04 Aligned_cols=66 Identities=23% Similarity=0.381 Sum_probs=41.5
Q ss_pred CCceEEEEeCCCC------chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch--HHHHHHHHHHH
Q psy6265 12 KTIMLCIFAGDVT------PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES--VAELYEEVKQE 83 (91)
Q Consensus 12 gka~lViiA~D~s------p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~--~~~~~~~~~~~ 83 (91)
+..++++||+=|- ..++-.++..+|+..+|||+|-.| ..|-.++++-...-.|= --+.|++++++
T Consensus 14 n~~~~~LiaGpcviEs~d~a~~~a~~lk~~t~~lgi~~vfKsS-------fDKANRsSi~s~RGpGLeeglki~~~vK~e 86 (279)
T COG2877 14 NDLPFVLIAGPCVIESRDLALEIAEHLKELTEKLGIPYVFKSS-------FDKANRSSIHSYRGPGLEEGLKILQEVKEE 86 (279)
T ss_pred CCCceEEEeccceeccHHHHHHHHHHHHHHHhccCCceEEecc-------cccccccccccccCCCHHHHHHHHHHHHHH
Confidence 3467888888763 124567788899999999998654 22344555555444432 13556666665
Q ss_pred h
Q psy6265 84 I 84 (91)
Q Consensus 84 ~ 84 (91)
+
T Consensus 87 f 87 (279)
T COG2877 87 F 87 (279)
T ss_pred c
Confidence 4
No 404
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are 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 members of the type I periplasmic binding protein superfamily. 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=37.93 E-value=1.2e+02 Score=20.74 Aligned_cols=39 Identities=10% Similarity=0.158 Sum_probs=21.1
Q ss_pred HHHHHHhCCce-EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIM-LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~-lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.++.+...++. +++.+.+.++ .. ...+.++++|++.+.+
T Consensus 47 ~i~~l~~~~vdgiii~~~~~~~-~~----~~~~~~~~ipvV~~~~ 86 (264)
T cd06274 47 TVETLIARQVDALIVAGSLPPD-DP----YYLCQKAGLPVVALDR 86 (264)
T ss_pred HHHHHHHcCCCEEEEcCCCCch-HH----HHHHHhcCCCEEEecC
Confidence 44445455555 4444444433 22 2345678899887643
No 405
>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=37.90 E-value=39 Score=19.78 Aligned_cols=22 Identities=14% Similarity=0.181 Sum_probs=17.3
Q ss_pred hHHhhHHHHHhcCCCCEEEeCC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.+...|...|+.+||+++.+..
T Consensus 57 ~~~~~l~yka~~~Gi~v~~v~~ 78 (82)
T TIGR01766 57 KLISKIKYKAEEYGIEVIEVNP 78 (82)
T ss_pred HHHHHHHHHHHHcCCeEEEeCc
Confidence 3566788889999999988763
No 406
>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=37.89 E-value=91 Score=21.96 Aligned_cols=42 Identities=17% Similarity=0.280 Sum_probs=27.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.+++.+. ++.-.+|+...++. ....+..+|...+||++...
T Consensus 53 ~~~c~l~~-~~~v~ai~G~~~s~--~~~~v~~~~~~~~iP~is~~ 94 (328)
T cd06351 53 RAVCDLLV-SQGVAAIFGPTSSE--SASAVQSICDALEIPHISIS 94 (328)
T ss_pred HHHHHHHh-ccCcEEEECCCCHH--HHHHHHHHhccCCCCeEEee
Confidence 44556664 33345566666655 23457889999999998653
No 407
>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=37.81 E-value=1.2e+02 Score=20.04 Aligned_cols=46 Identities=22% Similarity=0.195 Sum_probs=27.9
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC----------HhHHhhHhC
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS----------KKDIGEALG 57 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s----------k~eLG~a~G 57 (91)
.|.+-+--+||......+ . .+...-++.+||++++.. -..+|+++|
T Consensus 64 ~ll~l~PDlii~~~~~~~-~---~~~~~l~~~gIpvv~i~~~~~~~~~~~~i~~~g~~~g 119 (186)
T cd01141 64 LIVALKPDLVILYGGFQA-Q---TILDKLEQLGIPVLYVNEYPSPLGRAEWIKFAAAFYG 119 (186)
T ss_pred HHhccCCCEEEEecCCCc-h---hHHHHHHHcCCCEEEeCCCCChhhHHHHHHHHHHHcC
Confidence 445556677777543323 1 133444789999987752 224888888
No 408
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=37.74 E-value=70 Score=26.04 Aligned_cols=45 Identities=13% Similarity=0.066 Sum_probs=35.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
++.+.+.|.+.+--++++..-+.-.+-...+..+++..++|++..
T Consensus 190 i~~aa~~L~~AkrPvIl~G~G~~~a~a~~~l~~lae~~~~Pv~~t 234 (550)
T COG0028 190 IRKAAELLAEAKRPVILAGGGVRRAGASEELRELAEKLGAPVVTT 234 (550)
T ss_pred HHHHHHHHHhCCCCEEEECCCccccccHHHHHHHHHHHCCCEEEc
Confidence 466778888888778888777765444567999999999999853
No 409
>PLN03126 Elongation factor Tu; Provisional
Probab=37.70 E-value=87 Score=25.06 Aligned_cols=50 Identities=10% Similarity=0.109 Sum_probs=30.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCC-EEEeCCHhH
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKD 51 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP-~~~~~sk~e 51 (91)
++++..++..-..-++++..+-...........++...++| ++.+-+|.+
T Consensus 158 ~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~D 208 (478)
T PLN03126 158 VKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQD 208 (478)
T ss_pred HHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEeccc
Confidence 35667777777777777765533222233445678899999 444444443
No 410
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=37.70 E-value=81 Score=25.64 Aligned_cols=43 Identities=14% Similarity=0.135 Sum_probs=31.8
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~ 45 (91)
.++.+.|++.+--++++..-+.-......+.++|+..++|++.
T Consensus 215 ~~~~~~L~~AkrPvI~~G~g~~~~~a~~~l~~lae~l~~pV~t 257 (616)
T PRK07418 215 NAALKLIEEAERPLLYVGGGAISAGAHAELKELAERFQIPVTT 257 (616)
T ss_pred HHHHHHHHhCCCCEEEECCCcCcccHHHHHHHHHHHHCCCEEE
Confidence 4567778887777777776664223456789999999999984
No 411
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=37.69 E-value=1.2e+02 Score=21.76 Aligned_cols=42 Identities=14% Similarity=0.097 Sum_probs=25.4
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
+.++.+.++++.=+|+++-... ..++..+.+. ++|++.+...
T Consensus 47 ~~i~~l~~~~vDGiI~~s~~~~---~~~l~~~~~~-~iPvV~~~~~ 88 (279)
T PF00532_consen 47 EYIELLLQRRVDGIILASSEND---DEELRRLIKS-GIPVVLIDRY 88 (279)
T ss_dssp HHHHHHHHTTSSEEEEESSSCT---CHHHHHHHHT-TSEEEEESS-
T ss_pred HHHHHHHhcCCCEEEEecccCC---hHHHHHHHHc-CCCEEEEEec
Confidence 4556677777666666633222 2445556666 8888877654
No 412
>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=37.69 E-value=96 Score=22.16 Aligned_cols=40 Identities=15% Similarity=0.147 Sum_probs=24.3
Q ss_pred HHHHHhC--CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 6 QGPLQRK--TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 6 ~kai~~g--ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.+.+.++ .+.-+|+.... + . ...+...+.+++||++.+.+
T Consensus 49 i~~~~~~~~~vdgiIi~~~~-~-~-~~~~~~~~~~~giPvV~~~~ 90 (305)
T cd06324 49 ARTILQRPDKPDALIFTNEK-S-V-APELLRLAEGAGVKLFLVNS 90 (305)
T ss_pred HHHHHHhccCCCEEEEcCCc-c-c-hHHHHHHHHhCCCeEEEEec
Confidence 3344444 67777776542 2 1 23345667789999987764
No 413
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=37.60 E-value=69 Score=24.11 Aligned_cols=42 Identities=7% Similarity=0.172 Sum_probs=28.3
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+.++..|.+| +-.+ +..- +. ....++...|+..+||.+...
T Consensus 47 ~~~~C~~~~~G-V~AI-~Gp~-ss-~~~~~v~~i~~~~~IP~I~~~ 88 (370)
T cd06389 47 TNAFCSQFSRG-VYAI-FGFY-DK-KSVNTITSFCGTLHVSFITPS 88 (370)
T ss_pred HHHHHHHhhcC-cEEE-EecC-CH-HHHHHHHHhhccCCCCeeeec
Confidence 46677777777 3333 3333 33 346789999999999999653
No 414
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=37.55 E-value=83 Score=25.17 Aligned_cols=43 Identities=9% Similarity=0.112 Sum_probs=32.0
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~ 45 (91)
++....|.+.+--++++...+........+..+++..++|++.
T Consensus 202 ~~~~~~L~~AkrPvIl~G~g~~~~~a~~~l~~lae~~~~pv~t 244 (564)
T PRK08155 202 RDAAAMINAAKRPVLYLGGGVINSGAPARARELAEKAQLPTTM 244 (564)
T ss_pred HHHHHHHHhCCCCEEEECCCccccchHHHHHHHHHHHCCCEEE
Confidence 4566777777777777776774323456789999999999986
No 415
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=37.43 E-value=97 Score=20.81 Aligned_cols=47 Identities=15% Similarity=0.188 Sum_probs=28.9
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch-----hHHhhHHHHHhcC---CCCEEEeCCH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI-----EIMCHLPAVCEDK---DIPYCYVPSK 49 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~-----~~~~~l~~lc~~~---~IP~~~~~sk 49 (91)
.++.+.+++.++.+|++++|.-.. .....+...-++. ++|+.++...
T Consensus 31 ~~~~~~~~~~~~d~i~~~GD~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~GN 85 (223)
T cd00840 31 EEIVELAIEEKVDFVLIAGDLFDSNNPSPEALELLIEALRRLKEAGIPVFIIAGN 85 (223)
T ss_pred HHHHHHHHhcCCCEEEECCcccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence 455666677889999999998532 1122333333333 8998776543
No 416
>PRK03244 argD acetylornithine aminotransferase; Provisional
Probab=37.42 E-value=74 Score=23.83 Aligned_cols=36 Identities=3% Similarity=-0.004 Sum_probs=25.9
Q ss_pred hCCceEEEEeCCC-------CchhHHhhHHHHHhcCCCCEEEe
Q psy6265 11 RKTIMLCIFAGDV-------TPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 11 ~gka~lViiA~D~-------sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.++..+|++-.-- .|.++...+.++|+++++.++.-
T Consensus 181 ~~~~~aviiep~~~~~G~~~~~~~~l~~l~~l~~~~~~llI~D 223 (398)
T PRK03244 181 DDDTAAVFLEPIQGEAGVVPPPAGYLAAAREITDRHGALLVLD 223 (398)
T ss_pred cCCeEEEEEecccCCCCCcCCCHHHHHHHHHHHHHcCCEEEEe
Confidence 3567888886552 23355778999999999988753
No 417
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=37.41 E-value=89 Score=25.06 Aligned_cols=45 Identities=11% Similarity=0.099 Sum_probs=30.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.++.+.|.+.+--+|++...+.-......+..+|+..++|++...
T Consensus 206 ~~~~~~L~~A~rPvIl~G~g~~~~~a~~~l~~lae~~~~pv~tt~ 250 (571)
T PRK07710 206 RKLVQAVSVAKKPVILAGAGVLHAKASKELTSYAEQQEIPVVHTL 250 (571)
T ss_pred HHHHHHHHhCCCCEEEECCCcCccchHHHHHHHHHHhCCCEEEcC
Confidence 455667777766677766665322334568889999999998543
No 418
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=37.32 E-value=80 Score=23.62 Aligned_cols=38 Identities=13% Similarity=0.302 Sum_probs=27.1
Q ss_pred HHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
..++++++|+ +..+++-+|- | +. ..+|+++|||+..+.
T Consensus 109 al~~~~~~~~l~~~i~~visn~-~-~~----~~~A~~~gIp~~~~~ 148 (289)
T PRK13010 109 DLLYRWRMGELDMDIVGIISNH-P-DL----QPLAVQHDIPFHHLP 148 (289)
T ss_pred HHHHHHHCCCCCcEEEEEEECC-h-hH----HHHHHHcCCCEEEeC
Confidence 4567777776 6888888885 3 22 378899999988654
No 419
>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=37.31 E-value=1.3e+02 Score=20.80 Aligned_cols=41 Identities=15% Similarity=0.015 Sum_probs=22.4
Q ss_pred HHHHHHHhCCceEEEEe-CCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFA-GDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA-~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+....+...++.-+|+. .|.+ .+.. ....+.+++||++.+.
T Consensus 51 ~~~~~l~~~~vDgiii~~~~~~--~~~~-~i~~~~~~gIpvV~~d 92 (274)
T cd06311 51 AQQDLLINRKIDALVILPFESA--PLTQ-PVAKAKKAGIFVVVVD 92 (274)
T ss_pred HHHHHHHHcCCCEEEEeCCCch--hhHH-HHHHHHHCCCeEEEEc
Confidence 34454555555555554 4532 2223 3345578899988764
No 420
>PRK06153 hypothetical protein; Provisional
Probab=37.26 E-value=51 Score=26.04 Aligned_cols=40 Identities=13% Similarity=0.081 Sum_probs=31.9
Q ss_pred CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
....+||.|-|..+ .+..+-.+|.+++||++.++-.-++.
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 35789999999755 35668899999999999988666653
No 421
>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=37.04 E-value=1.2e+02 Score=20.87 Aligned_cols=38 Identities=13% Similarity=0.100 Sum_probs=21.4
Q ss_pred HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+...++.-+|+....++ ........+.+.+||++.+.
T Consensus 50 ~~~~~~~dgiii~~~~~~--~~~~~l~~~~~~~ipvV~~~ 87 (277)
T cd06319 50 TAIDKGVSGIIISPTNSS--AAVTLLKLAAQAKIPVVIAD 87 (277)
T ss_pred HHHhcCCCEEEEcCCchh--hhHHHHHHHHHCCCCEEEEe
Confidence 333455666655543222 12234566778899988664
No 422
>KOG0540|consensus
Probab=37.04 E-value=27 Score=28.48 Aligned_cols=30 Identities=13% Similarity=0.402 Sum_probs=22.6
Q ss_pred HHhhHHHHHhcCCCCEEEe--------CCHhHHhhHhC
Q psy6265 28 IMCHLPAVCEDKDIPYCYV--------PSKKDIGEALG 57 (91)
Q Consensus 28 ~~~~l~~lc~~~~IP~~~~--------~sk~eLG~a~G 57 (91)
.-.|+.++|.+.+||++++ ++..|+|...-
T Consensus 372 KgarfIe~c~q~~IPLi~l~ni~Gfm~g~~~e~~gIaK 409 (536)
T KOG0540|consen 372 KGARFIELCDQRNIPLIFLQNITGFMVGRAAEAGGIAK 409 (536)
T ss_pred hhHHHHHHHHhcCCcEEEEEccCCccccchhhhhchhh
Confidence 3578999999999999864 45667765543
No 423
>TIGR02418 acolac_catab acetolactate synthase, catabolic. Acetolactate synthase (EC 2.2.1.6) combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. This reaction may be involved in either valine biosynthesis (biosynthetic) or conversion of pyruvate to acetoin and possibly to 2,3-butanediol (catabolic). The biosynthetic type, described by TIGR00118, is also capable of forming acetohydroxybutyrate from pyruvate and 2-oxobutyrate for isoleucine biosynthesis. The family described here, part of the same larger family of thiamine pyrophosphate-dependent enzymes (pfam00205, pfam02776) is the catabolic form, generally found associated with in species with acetolactate decarboxylase and usually found in the same operon. The model may not encompass all catabolic acetolactate synthases, but rather one particular clade in the larger TPP-dependent enzyme family.
Probab=37.03 E-value=91 Score=24.74 Aligned_cols=44 Identities=9% Similarity=0.137 Sum_probs=31.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+++.+.|++.+--++++..-+.-......+.++|+..++|++..
T Consensus 186 ~~~~~~l~~A~rPvi~~G~g~~~~~a~~~l~~lae~~g~pv~tt 229 (539)
T TIGR02418 186 DEVAEAIQNAKLPVLLLGLRASSPETTEAVRRLLKKTQLPVVET 229 (539)
T ss_pred HHHHHHHHcCCCCEEEECCCcCcccHHHHHHHHHHHhCCCEEEc
Confidence 45666777776666666666643345678999999999999854
No 424
>cd03010 TlpA_like_DsbE TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c maturation (Ccm) factor with a redox active CXXC motif. Assembly of cytochrome c requires the ligation of heme to reduced thiols of the apocytochrome. In bacteria, this assembly occurs in the periplasm. The reductase activity of DsbE in the oxidizing environment of the periplasm is crucial in the maturation of cytochrome c.
Probab=36.98 E-value=1e+02 Score=19.00 Aligned_cols=55 Identities=13% Similarity=0.075 Sum_probs=30.8
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCE--EEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY--CYVPSKKDIGEALGRKKPCICVIVKSTE 71 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~--~~~~sk~eLG~a~G~~~~~~v~~i~~~~ 71 (91)
.+.+|-++.|-++. .+..+++++++|+ +......++++..|....=...+++..|
T Consensus 55 ~~~vv~v~~~~~~~----~~~~~~~~~~~~~~~~~~D~~~~~~~~~~v~~~P~~~~ld~~G 111 (127)
T cd03010 55 RVPIYGINYKDNPE----NALAWLARHGNPYAAVGFDPDGRVGIDLGVYGVPETFLIDGDG 111 (127)
T ss_pred CcEEEEEECCCCHH----HHHHHHHhcCCCCceEEECCcchHHHhcCCCCCCeEEEECCCc
Confidence 36666666543332 2344566777765 3445666788888865432344555444
No 425
>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=36.96 E-value=1e+02 Score=22.61 Aligned_cols=24 Identities=4% Similarity=0.124 Sum_probs=16.0
Q ss_pred CCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 23 VTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 23 ~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+|.+ ...+....++++|+++++.
T Consensus 212 ps~~~-l~~l~~~ik~~~v~~If~e 235 (286)
T cd01019 212 PGAKR-LAKIRKEIKEKGATCVFAE 235 (286)
T ss_pred CCHHH-HHHHHHHHHHcCCcEEEec
Confidence 34433 3457778888888887765
No 426
>cd03335 TCP1_alpha TCP-1 (CTT or eukaryotic type II) chaperonin family, alpha 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=36.95 E-value=1.2e+02 Score=24.22 Aligned_cols=40 Identities=3% Similarity=-0.090 Sum_probs=26.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+.++.|.+-.+.+||.+.++++. . ..++.+++|-.+.--+
T Consensus 265 ~~i~~i~~~g~~lvi~~k~I~d~-a----l~~L~~~~I~~v~~v~ 304 (527)
T cd03335 265 ERIKKILAAGANVVLTTGGIDDM-C----LKYFVEAGAMAVRRVK 304 (527)
T ss_pred HHHHHHHHcCCCEEEeCCCCcHH-H----HHHHHHCCcEEEEeCC
Confidence 44556666678999999999883 2 2344556776655333
No 427
>cd07383 MPP_Dcr2 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain. DCR2 phosphatase (Dosage-dependent Cell Cycle Regulator 2) functions together with DCR1 (Gid8) in a common pathway to accelerate initiation of DNA replication in Saccharomyces cerevisiae. Genetic analysis suggests that DCR1 functions upstream of DCR2. DCR2 interacts with and dephosphorylates Sic1, an inhibitor of mitotic cyclin/cyclin-dependent kinase complexes, which may serve to trigger the initiation of cell division. DCR2 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAP
Probab=36.92 E-value=1.2e+02 Score=20.50 Aligned_cols=47 Identities=17% Similarity=0.262 Sum_probs=29.1
Q ss_pred HHHHHHhCCceEEEEeCCCCch--------hHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPI--------EIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~--------~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
..+.++..+..+|++..|.... .....+.......++|+..+....+
T Consensus 33 ~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~GNHD 87 (199)
T cd07383 33 IERVLDAEKPDLVVLTGDLITGENTNDNSTSALDKAVSPMIDRKIPWAATFGNHD 87 (199)
T ss_pred HHHHHhhcCCCEEEECCccccCCCCchHHHHHHHHHHHHHHHcCCCEEEECccCC
Confidence 3445667789999999998421 1122233334556899987765444
No 428
>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=36.84 E-value=67 Score=23.60 Aligned_cols=43 Identities=16% Similarity=0.084 Sum_probs=26.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch-hHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI-EIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~-~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.+++.|.++++..|+ ..-.+.. .+...+..+|+.++||++..
T Consensus 53 ~~~~~~l~~~~v~~ii-g~~~s~~~~~~~~~~~v~~~~~iP~Is~ 96 (362)
T cd06367 53 LSVCDLLVVQVVAGVV-FSDPTDEEAVAQILDFTSAQTRIPVVGI 96 (362)
T ss_pred HHHHHHhcccceEEEE-ecCCCCccchhhhhhhhhhhhcCcEEEe
Confidence 3456667666554444 4444441 12455778899999999854
No 429
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=36.81 E-value=87 Score=19.06 Aligned_cols=58 Identities=12% Similarity=0.117 Sum_probs=36.8
Q ss_pred hhHHHHHhcCCCCEEEe------CCHhHHh-hHhCCCCceEEEEEecCchHHHHHHHHHHHhhcC
Q psy6265 30 CHLPAVCEDKDIPYCYV------PSKKDIG-EALGRKKPCICVIVKSTESVAELYEEVKQEIGAL 87 (91)
Q Consensus 30 ~~l~~lc~~~~IP~~~~------~sk~eLG-~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~ 87 (91)
.+|...+.+++-.+... .-|.-|| -.+|......+-+.-++++.++.++.|.+.++++
T Consensus 20 a~lv~~a~~~~s~v~l~~~~~~~~akSil~lm~Lg~~~G~~v~i~~~G~De~~A~~~l~~ll~~~ 84 (85)
T PRK10850 20 AQFVKEAKGFTSEITVTSNGKSASAKSLFKLQTLGLTQGTVVTISAEGEDEQKAVEHLVKLMAEL 84 (85)
T ss_pred HHHHHHHHhCCCEEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEeCcCHHHHHHHHHHHHHhc
Confidence 45666777776554321 1122111 1244556677888888888899999999988765
No 430
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=36.77 E-value=73 Score=17.27 Aligned_cols=47 Identities=9% Similarity=0.170 Sum_probs=31.6
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHh
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEI 84 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~ 84 (91)
.+..++....++++|++..+.+.. ..+.++-...+.++.++.+..++
T Consensus 15 ~~~~~if~~l~~~~i~v~~i~t~~-----------~~is~~v~~~~~~~~~~~l~~~l 61 (62)
T cd04890 15 GFLRKIFEILEKHGISVDLIPTSE-----------NSVTLYLDDSLLPKKLKRLLAEL 61 (62)
T ss_pred CHHHHHHHHHHHcCCeEEEEecCC-----------CEEEEEEehhhhhHHHHHHHHhh
Confidence 456778888899999999886611 23444444454456777777665
No 431
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=36.66 E-value=91 Score=25.05 Aligned_cols=44 Identities=11% Similarity=0.101 Sum_probs=31.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.+..+.|++.+--++++..-+.-......+..++++.++|++..
T Consensus 197 ~~a~~~L~~A~rPvi~~G~g~~~~~a~~~l~~lae~~~~pv~tt 240 (574)
T PRK07979 197 KRALQTLVAAKKPVVYVGGGAINAACHQQLKELVEKLNLPVVSS 240 (574)
T ss_pred HHHHHHHHcCCCCEEEECCCccccchHHHHHHHHHHhCCCEEEc
Confidence 45667777776666666666643244567999999999999854
No 432
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=36.65 E-value=91 Score=21.36 Aligned_cols=65 Identities=11% Similarity=0.132 Sum_probs=42.6
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHh--HHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKK--DIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~--eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
++...+...|++.++.+.+..|.. +|=.++......+-+++-.++-|+..==-|...++.++.|+
T Consensus 30 ~i~~~~~~~a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSiAl~DAl~~~~~P~ 96 (146)
T PRK13015 30 DVEALCRAAAEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTSVAIRDALAALELPV 96 (146)
T ss_pred HHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHHHHHHHHHcCCCCE
Confidence 567778888898999888777654 44444433322345678888888754445555667676664
No 433
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=36.61 E-value=1.5e+02 Score=23.35 Aligned_cols=73 Identities=25% Similarity=0.196 Sum_probs=40.4
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC----CCceEEEEEecCchHHHHHHHHHHHhhc
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR----KKPCICVIVKSTESVAELYEEVKQEIGA 86 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~----~~~~~v~~i~~~~~~~~~~~~~~~~~~~ 86 (91)
+.++++--|++..........+-+..++|++.+.+|.+|-..-.. ...........+....+.++.|.+.+..
T Consensus 295 aD~il~VvD~s~~~s~~~~~~l~~~~~~piiiV~NK~DL~~~~~~~~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~ 371 (449)
T PRK05291 295 ADLVLLVLDASEPLTEEDDEILEELKDKPVIVVLNKADLTGEIDLEEENGKPVIRISAKTGEGIDELREAIKELAFG 371 (449)
T ss_pred CCEEEEEecCCCCCChhHHHHHHhcCCCCcEEEEEhhhccccchhhhccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence 555565556543211122222223568999999999998432211 1122233344555677788888777654
No 434
>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=36.56 E-value=1.2e+02 Score=19.71 Aligned_cols=47 Identities=13% Similarity=0.051 Sum_probs=30.6
Q ss_pred hHHHHHHHhCCceEEEEeC-CC---Cc---------hhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265 3 STVQGPLQRKTIMLCIFAG-DV---TP---------IEIMCHLPAVCEDKDIPYCYVPSK 49 (91)
Q Consensus 3 kev~kai~~gka~lViiA~-D~---sp---------~~~~~~l~~lc~~~~IP~~~~~sk 49 (91)
++.++.++...+.++++.. +. ++ ..+-..+..+|+++++|++...+.
T Consensus 95 ~~~i~~i~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~v~~vd~~~~ 154 (185)
T cd01832 95 EEAVRRLRAAGARVVVFTIPDPAVLEPFRRRVRARLAAYNAVIRAVAARYGAVHVDLWEH 154 (185)
T ss_pred HHHHHHHHhCCCEEEEecCCCccccchhHHHHHHHHHHHHHHHHHHHHHcCCEEEecccC
Confidence 4566777766677766643 11 11 124455788999999999887654
No 435
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=36.49 E-value=60 Score=20.62 Aligned_cols=45 Identities=11% Similarity=0.228 Sum_probs=26.3
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHh
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKK 50 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~ 50 (91)
+..+.+.++...+|++.++..+ .+...+..+ ++...|.+ .++|+.
T Consensus 36 ~~i~~l~~~d~gII~Ite~~a~-~i~~~i~~~-~~~~~P~Il~IP~~~ 81 (104)
T PRK01395 36 NTLRKLAMEDYGIIYITEQIAA-DIPETIERY-DNQVLPAIILIPSNQ 81 (104)
T ss_pred HHHHHHhcCCcEEEEEcHHHHH-HhHHHHHHh-cCCCCCEEEEeCCCC
Confidence 4444556667778887777655 454444444 45566754 455544
No 436
>PRK08025 lipid A biosynthesis palmitoleoyl acyltransferase; Reviewed
Probab=36.46 E-value=82 Score=23.15 Aligned_cols=44 Identities=14% Similarity=0.009 Sum_probs=27.0
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch---------------hHHhhHHHHHhcCCCCEEEeC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI---------------EIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~---------------~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+++.++++++|+ .|.+..|-++. ....-...++...|.|++.+.
T Consensus 182 ~r~~~~aLk~g~--~v~il~DQ~~~~~~gv~v~FfG~~~a~t~~g~~~LA~~~~apvvp~~ 240 (305)
T PRK08025 182 LRGIVGALKKGE--AVWFAPDQDYGPKGSSFAPFFAVENVATTNGTYVLSRLSGAAMLTVT 240 (305)
T ss_pred HHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeCCCCCcchhHHHHHHHHHHhhCCeEEEEE
Confidence 467889999996 66777665531 111122356667777776554
No 437
>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=36.44 E-value=99 Score=22.80 Aligned_cols=55 Identities=9% Similarity=0.104 Sum_probs=43.6
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCC-EEEeCCHhHHhhHhCCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKDIGEALGRK 59 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP-~~~~~sk~eLG~a~G~~ 59 (91)
|+..+-.-|---+++|++=.++ +....+..+|+..|.- ++-+-|.+||=+|+...
T Consensus 123 QI~eA~~~GADaVLLI~~~L~~-~~l~~l~~~a~~lGle~lVEVh~~~El~~al~~~ 178 (254)
T PF00218_consen 123 QIYEARAAGADAVLLIAAILSD-DQLEELLELAHSLGLEALVEVHNEEELERALEAG 178 (254)
T ss_dssp HHHHHHHTT-SEEEEEGGGSGH-HHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTT
T ss_pred HHHHHHHcCCCEeehhHHhCCH-HHHHHHHHHHHHcCCCeEEEECCHHHHHHHHHcC
Confidence 6777778888888888888877 4557799999999984 67899999999998543
No 438
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=36.44 E-value=87 Score=25.29 Aligned_cols=43 Identities=12% Similarity=0.086 Sum_probs=32.1
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~ 45 (91)
.+..+.|.+.+--++++...+.-..-...+..+++..++|++.
T Consensus 208 ~~a~~~L~~AkrPvil~G~g~~~~~a~~~l~~lae~lg~PV~t 250 (585)
T CHL00099 208 EQAAKLILQSSQPLLYVGGGAIISDAHQEITELAELYKIPVTT 250 (585)
T ss_pred HHHHHHHHcCCCcEEEECCCCchhchHHHHHHHHHHHCCCEEE
Confidence 4566677777777777777774334567799999999999985
No 439
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type 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 binding wh
Probab=36.41 E-value=1.3e+02 Score=20.34 Aligned_cols=40 Identities=15% Similarity=0.110 Sum_probs=22.8
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.++.+.+..+..+|+.....+.. +...+++++||++.+.
T Consensus 46 ~~i~~l~~~~~dgii~~~~~~~~~----~~~~~~~~~ipvv~~~ 85 (259)
T cd01542 46 EALELLARQKVDGIILLATTITDE----HREAIKKLNVPVVVVG 85 (259)
T ss_pred HHHHHHHhcCCCEEEEeCCCCCHH----HHHHHhcCCCCEEEEe
Confidence 345556666777777664432212 3344566788887654
No 440
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=36.41 E-value=1.6e+02 Score=21.19 Aligned_cols=70 Identities=7% Similarity=0.107 Sum_probs=41.9
Q ss_pred eEEEEeCCCCch---hHHhhHHHHHhcCCCCEEEeCC------------------HhHHhhHhCCCCceEEEEEecCchH
Q psy6265 15 MLCIFAGDVTPI---EIMCHLPAVCEDKDIPYCYVPS------------------KKDIGEALGRKKPCICVIVKSTESV 73 (91)
Q Consensus 15 ~lViiA~D~sp~---~~~~~l~~lc~~~~IP~~~~~s------------------k~eLG~a~G~~~~~~v~~i~~~~~~ 73 (91)
+.+|+-+|.... .-...+...++..+|++..++. .+.|-+.+........ .. +.++.
T Consensus 166 k~iIllTDG~~~~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~-~~-~~~~l 243 (296)
T TIGR03436 166 KALIVISDGGDNRSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETGGRAF-YV-NSNDL 243 (296)
T ss_pred eEEEEEecCCCcchHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhCCeEe-cc-cCccH
Confidence 456666665432 1234466678899999876542 2345444443333322 22 66788
Q ss_pred HHHHHHHHHHhhc
Q psy6265 74 AELYEEVKQEIGA 86 (91)
Q Consensus 74 ~~~~~~~~~~~~~ 86 (91)
...|.++.+++..
T Consensus 244 ~~~f~~i~~~~~~ 256 (296)
T TIGR03436 244 DGAFAQIAEELRS 256 (296)
T ss_pred HHHHHHHHHHHhh
Confidence 8889999887653
No 441
>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=36.40 E-value=1e+02 Score=23.93 Aligned_cols=49 Identities=16% Similarity=0.015 Sum_probs=35.2
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL 52 (91)
+..+.+++.++.-|++|-+....+........|+..+|++..+++-.++
T Consensus 177 dl~~~v~~~~Id~ViIAlp~~~~~~~~~~l~~~~~~gv~V~ivP~~~e~ 225 (442)
T TIGR03013 177 GLVEYVLRHRIDEIVIALDERRGSLPVDELLECKLSGIEVVDAPSFFER 225 (442)
T ss_pred HHHHHHHhCCCCEEEEECchhhcchHHHHHHHHHhCCCEEEEcchHHHH
Confidence 5567788899999999986433221112356799999999888887765
No 442
>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]
Probab=36.32 E-value=53 Score=26.98 Aligned_cols=38 Identities=13% Similarity=0.305 Sum_probs=31.7
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEE
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v 64 (91)
.+..++..+|++.+||.+-+.++.|+|+|+.-+.-.-+
T Consensus 545 rVArkiselaRe~giTlivvThrpEv~~AL~PD~li~v 582 (593)
T COG2401 545 RVARKISELAREAGITLIVVTHRPEVGNALRPDTLILV 582 (593)
T ss_pred HHHHHHHHHHHHhCCeEEEEecCHHHHhccCCceeEEe
Confidence 45677899999999999999999999999976644433
No 443
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=36.26 E-value=71 Score=20.85 Aligned_cols=16 Identities=31% Similarity=0.549 Sum_probs=13.8
Q ss_pred CCCCEEEeCCHhHHhh
Q psy6265 39 KDIPYCYVPSKKDIGE 54 (91)
Q Consensus 39 ~~IP~~~~~sk~eLG~ 54 (91)
.++|++.+++|.+|+.
T Consensus 98 ~~~piilvgnK~Dl~~ 113 (158)
T cd04103 98 SEIPLILVGTQDAISE 113 (158)
T ss_pred CCCCEEEEeeHHHhhh
Confidence 5799999999999863
No 444
>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=36.26 E-value=98 Score=18.59 Aligned_cols=20 Identities=20% Similarity=0.291 Sum_probs=15.4
Q ss_pred HHHHhcCCCCEEEeCCHhHH
Q psy6265 33 PAVCEDKDIPYCYVPSKKDI 52 (91)
Q Consensus 33 ~~lc~~~~IP~~~~~sk~eL 52 (91)
.......++|++.+.||.++
T Consensus 97 ~~~~~~~~~~~ivv~nK~D~ 116 (163)
T cd00880 97 LELLRERGKPVLLVLNKIDL 116 (163)
T ss_pred HHHHHhcCCeEEEEEEcccc
Confidence 55666789999998888654
No 445
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) 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. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=36.16 E-value=1.3e+02 Score=20.54 Aligned_cols=42 Identities=10% Similarity=-0.039 Sum_probs=22.5
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.++.+-..++.-+|+....++ .. ..+...+.+++||++.+.+
T Consensus 47 ~l~~~~~~~vdgii~~~~~~~-~~-~~~i~~~~~~~ipvV~~~~ 88 (273)
T cd06305 47 QIDQAIAQKVDAIIIQHGRAE-VL-KPWVKRALDAGIPVVAFDV 88 (273)
T ss_pred HHHHHHHcCCCEEEEecCChh-hh-HHHHHHHHHcCCCEEEecC
Confidence 334444445666666532112 12 2344556788999887653
No 446
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=36.12 E-value=1.3e+02 Score=20.95 Aligned_cols=59 Identities=14% Similarity=0.093 Sum_probs=35.6
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC----CHhHHhhHhCCCCceEEEEEecCch
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP----SKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~----sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
.+.||+=.|..+.+-........+..+|.++.++ +..+|-...+......+..+.+..+
T Consensus 109 ~kvvillTDG~s~~~~~~~a~~lk~~gv~i~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~ 171 (224)
T cd01475 109 PRVGIVVTDGRPQDDVSEVAAKARALGIEMFAVGVGRADEEELREIASEPLADHVFYVEDFST 171 (224)
T ss_pred CeEEEEEcCCCCcccHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHH
Confidence 5677777887543323344566788899876654 4678888877654333334433333
No 447
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=36.12 E-value=1.3e+02 Score=20.40 Aligned_cols=39 Identities=21% Similarity=0.218 Sum_probs=22.0
Q ss_pred HHHHHHHhCCceEEEEeC-CCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAG-DVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~-D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.++.+...++.-+|+.+ +.++ . +...++.++||++.+.
T Consensus 46 ~~i~~l~~~~vdgiii~~~~~~~-~----~~~~l~~~~ipvV~~~ 85 (268)
T cd06298 46 KVLNNLLAKQVDGIIFMGGKISE-E----HREEFKRSPTPVVLAG 85 (268)
T ss_pred HHHHHHHHhcCCEEEEeCCCCcH-H----HHHHHhcCCCCEEEEc
Confidence 344555556666666653 3333 2 3334567789988765
No 448
>PRK07920 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=36.05 E-value=1.3e+02 Score=21.99 Aligned_cols=45 Identities=9% Similarity=-0.005 Sum_probs=27.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchh-------------HHhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIE-------------IMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~-------------~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++.++++++|+ .|.+..|-++.. ...-...++...+.|++.+..
T Consensus 172 ~r~ii~~Lk~g~--~v~il~Dq~~~~~g~~v~FFG~~a~t~~g~a~LA~~~~apVvp~~~ 229 (298)
T PRK07920 172 FEVLAERLRAGG--VVCLLADRDLTRSGVEVDFFGERTRMPAGPAALALETGAALLPVHL 229 (298)
T ss_pred HHHHHHHHHcCC--eEEEEeccCccCCCCEEeeCCCCCCCCCCHHHHHHHHCCcEEEEEE
Confidence 467889999997 466666654311 111233577777777776553
No 449
>TIGR01056 topB DNA topoisomerase III, bacteria and conjugative plasmid. This model describes topoisomerase III from bacteria and its equivalents encoded on plasmids. The gene is designated topB if found in the bacterial chromosome, traE on conjugative plasmid RP4, etc. These enzymes are involved in the control of DNA topology. DNA topoisomerase III belongs to the type I topoisomerases, which are ATP-independent.
Probab=36.03 E-value=98 Score=25.85 Aligned_cols=59 Identities=14% Similarity=0.120 Sum_probs=39.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCch--hHHhhHHHHHhcCC-CCEEE----eCCHhHHhhHhCCCCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPI--EIMCHLPAVCEDKD-IPYCY----VPSKKDIGEALGRKKP 61 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~--~~~~~l~~lc~~~~-IP~~~----~~sk~eLG~a~G~~~~ 61 (91)
+...+.+++.++.-||+|.|.+-. .+.-|+...|...+ .|+.+ --|+.++=+|+...+.
T Consensus 85 ~~ik~l~k~~~ad~Ii~AtDpDREGE~I~~~i~~~l~~~~~~~v~Ri~f~~iT~~~I~~A~~n~~~ 150 (660)
T TIGR01056 85 NVIKRILKENKVDEVVIATDPDREGELIAREILDYLKVTDKVTIKRLWISSLVDSSIRKAFKNLRP 150 (660)
T ss_pred HHHHHHhhhcCCCEEEECCCCCcchHHHHHHHHHHhCCCCCCceEEEEeccCCHHHHHHHHHcCCC
Confidence 444555555678999999999722 46667888887433 46643 2378888888876544
No 450
>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=36.00 E-value=1.2e+02 Score=20.67 Aligned_cols=42 Identities=19% Similarity=0.337 Sum_probs=24.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+.+...++.-+|+.....+ . ......+.+++||++.+.+
T Consensus 47 ~~~~~l~~~~vdgiii~~~~~~-~--~~~~~~~~~~~ipvv~i~~ 88 (270)
T cd01545 47 RVRALLQRSRVDGVILTPPLSD-N--PELLDLLDEAGVPYVRIAP 88 (270)
T ss_pred HHHHHHHHCCCCEEEEeCCCCC-c--cHHHHHHHhcCCCEEEEec
Confidence 4556666677666666532212 1 1233456778999987653
No 451
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate 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 most Rab proteins. Due to
Probab=35.96 E-value=38 Score=21.92 Aligned_cols=41 Identities=10% Similarity=0.058 Sum_probs=23.4
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHh------cCCCCEEEeCCHhHHhh
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCE------DKDIPYCYVPSKKDIGE 54 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~------~~~IP~~~~~sk~eLG~ 54 (91)
+..+++.=|.+..+....+..+.+ ..++|++.+++|.+|+.
T Consensus 73 ~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~ 119 (161)
T cd04117 73 AQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQ 119 (161)
T ss_pred CcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence 344555555543333333333222 24799999999999864
No 452
>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=35.90 E-value=1.2e+02 Score=20.96 Aligned_cols=41 Identities=15% Similarity=0.091 Sum_probs=21.4
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
++.+...++.-+|+....++ .+.. ....+.+++||++.+.+
T Consensus 50 i~~l~~~~vdgiIi~~~~~~-~~~~-~~~~~~~~~iPvV~~~~ 90 (275)
T cd06320 50 AENMINKGYKGLLFSPISDV-NLVP-AVERAKKKGIPVVNVND 90 (275)
T ss_pred HHHHHHhCCCEEEECCCChH-HhHH-HHHHHHHCCCeEEEECC
Confidence 34444445555555432122 2222 33455789999987754
No 453
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=35.89 E-value=88 Score=25.03 Aligned_cols=45 Identities=11% Similarity=0.040 Sum_probs=33.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
++++.+.|.+.+--++++...+........+..+|+..++|++..
T Consensus 197 i~~~a~~L~~AkrPvil~G~g~~~~~a~~~l~~lae~lg~pV~tt 241 (561)
T PRK06048 197 IKRAAELIMKAERPIIYAGGGVISSNASEELVELAETIPAPVTTT 241 (561)
T ss_pred HHHHHHHHHhCCCCEEEECCCcccccHHHHHHHHHHHhCCCEEEc
Confidence 355667778877777777777753334567889999999999853
No 454
>PLN02828 formyltetrahydrofolate deformylase
Probab=35.79 E-value=82 Score=23.46 Aligned_cols=44 Identities=18% Similarity=0.242 Sum_probs=28.9
Q ss_pred hHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
...+.+.++|+ +.++.+-+|-++.. ...+..+|++++||+..+.
T Consensus 85 ~~ll~~~~~g~l~~eI~~ViSn~~~~~-~a~~~~~A~~~gIP~~~~~ 130 (268)
T PLN02828 85 IDLLHRWQDGRLPVDITCVISNHERGP-NTHVMRFLERHGIPYHYLP 130 (268)
T ss_pred HHHHHhhhcCCCCceEEEEEeCCCCCC-CchHHHHHHHcCCCEEEeC
Confidence 34567778886 56776666653111 1356678999999998654
No 455
>cd07385 MPP_YkuE_C Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE 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-dia
Probab=35.71 E-value=95 Score=21.04 Aligned_cols=48 Identities=10% Similarity=0.072 Sum_probs=29.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHH--hhHHHHHhc--CCCCEEEeCCHh
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIM--CHLPAVCED--KDIPYCYVPSKK 50 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~--~~l~~lc~~--~~IP~~~~~sk~ 50 (91)
++..+.+++.+..+|+++.|....... ..+..+.+. ..+|+..+....
T Consensus 22 ~~~~~~~~~~~~d~vl~~GD~~~~~~~~~~~~~~~l~~l~~~~~v~~v~GNH 73 (223)
T cd07385 22 ERLVEKINALKPDLVVLTGDLVDGSVDVLELLLELLKKLKAPLGVYAVLGNH 73 (223)
T ss_pred HHHHHHHhccCCCEEEEcCcccCCcchhhHHHHHHHhccCCCCCEEEECCCc
Confidence 466777888889999999999642211 123333333 347777665433
No 456
>PRK05290 hybrid cluster protein; Provisional
Probab=35.67 E-value=1.1e+02 Score=25.30 Aligned_cols=88 Identities=15% Similarity=0.124 Sum_probs=51.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCC-chhHHhhHHHHHhcC--CCCEE------EeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVT-PIEIMCHLPAVCEDK--DIPYC------YVPSKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~s-p~~~~~~l~~lc~~~--~IP~~------~~~sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
.+.+..+|++|+++-+++-.=|+ +..-...+.+++++- ++=+. +.+.+.+||.+.|++|.--++-..++..
T Consensus 380 ~~~lidavk~G~Ir~~~~v~GCd~~~~~~~y~~~~a~~lp~D~lilt~gC~k~r~~~~~lg~~~GIPrvLd~GqCnD~~~ 459 (546)
T PRK05290 380 ADKVIDAVKSGAIRHFFLMGGCDGAKPGRNYYTEFAEKLPKDTVILTLGCGKYRFNKLDLGDIGGIPRLLDAGQCNDAYS 459 (546)
T ss_pred HHHHHHHHHcCCcceEEEEeeCCCCCCCchhHHHHHHHCCCCEEEEccchHhhhccccCCcccCCCCCcccccccccHHH
Confidence 45788999999987655544333 111122245555554 33233 2345889999999998877777766655
Q ss_pred HHHHHHHHHH----HhhcCCC
Q psy6265 73 VAELYEEVKQ----EIGALPV 89 (91)
Q Consensus 73 ~~~~~~~~~~----~~~~~~~ 89 (91)
.-...-.+.+ .+.+||+
T Consensus 460 ~~~ia~aLa~~~g~~vn~LPl 480 (546)
T PRK05290 460 AIVIALALAEAFGCDVNDLPL 480 (546)
T ss_pred HHHHHHHHHHHhCCCcccCcc
Confidence 4333333333 3555554
No 457
>cd00761 Glyco_tranf_GTA_type Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold. Glycosyltransferases (GTs) are enzymes that synthesize oligosaccharides, polysaccharides, and glycoconjugates by transferring the sugar moiety from an activated nucleotide-sugar donor to an acceptor molecule, which may be a growing oligosaccharide, a lipid, or a protein. Based on the stereochemistry of the donor and acceptor molecules, GTs are classified as either retaining or inverting enzymes. To date, all GT structures adopt one of two possible folds, termed GT-A fold and GT-B fold. This hierarchy includes diverse families of glycosyl transferases 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. The majority of the proteins in this superfamily are Glycosyltransferase family 2 (GT-2) proteins. But it als
Probab=35.54 E-value=90 Score=18.42 Aligned_cols=36 Identities=11% Similarity=0.051 Sum_probs=22.3
Q ss_pred hhHHHHHHHhCC---ceEEEEeCCCCchhHHhhHHHHHhc
Q psy6265 2 NSTVQGPLQRKT---IMLCIFAGDVTPIEIMCHLPAVCED 38 (91)
Q Consensus 2 ~kev~kai~~gk---a~lViiA~D~sp~~~~~~l~~lc~~ 38 (91)
+.++++++.+.. ..++|+.+..++ .....+..++..
T Consensus 12 l~~~l~s~~~~~~~~~~i~i~~~~~~~-~~~~~~~~~~~~ 50 (156)
T cd00761 12 LERCLESLLAQTYPNFEVIVVDDGSTD-GTLEILEEYAKK 50 (156)
T ss_pred HHHHHHHHHhCCccceEEEEEeCCCCc-cHHHHHHHHHhc
Confidence 456778887774 565655555444 566666666654
No 458
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=35.52 E-value=74 Score=20.26 Aligned_cols=21 Identities=0% Similarity=-0.059 Sum_probs=11.5
Q ss_pred hHHHHHHHhCCceEEEEeCCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDV 23 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~ 23 (91)
+++.+.+.++...++++.++.
T Consensus 35 ~~~~~~l~~~~~gII~iTE~~ 55 (104)
T PRK01189 35 KKFLEIFNNPKCKYIFVSEST 55 (104)
T ss_pred HHHHHHHhcCCeEEEEEEHHH
Confidence 344555555556666665554
No 459
>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane.
Probab=35.51 E-value=60 Score=26.25 Aligned_cols=32 Identities=16% Similarity=0.252 Sum_probs=23.3
Q ss_pred eEEEEeCCCC-------ch--hHHhhHHHHHhcCCCCEEEe
Q psy6265 15 MLCIFAGDVT-------PI--EIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 15 ~lViiA~D~s-------p~--~~~~~l~~lc~~~~IP~~~~ 46 (91)
...|+|+|.. +. +...++..+|.+.++|++++
T Consensus 316 ~V~vvAnd~~~~~G~~~~~~~~K~~r~i~~a~~~~lPlV~l 356 (512)
T TIGR01117 316 SVGIIANQPKVMAGCLDIDSSDKIARFIRFCDAFNIPIVTF 356 (512)
T ss_pred EEEEEEeccccccCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 5678888842 21 34566889999999998865
No 460
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=35.51 E-value=1.2e+02 Score=19.26 Aligned_cols=14 Identities=29% Similarity=0.304 Sum_probs=11.2
Q ss_pred CCCCEEEeCCHhHH
Q psy6265 39 KDIPYCYVPSKKDI 52 (91)
Q Consensus 39 ~~IP~~~~~sk~eL 52 (91)
.++|++.+.+|.+|
T Consensus 113 ~~~p~ivv~NK~Dl 126 (170)
T cd01898 113 LEKPRIVVLNKIDL 126 (170)
T ss_pred cccccEEEEEchhc
Confidence 47899888888776
No 461
>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=35.47 E-value=73 Score=23.77 Aligned_cols=45 Identities=4% Similarity=-0.057 Sum_probs=29.8
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchh-HHhhHHHHHhcCCCCEEEeC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIE-IMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~-~~~~l~~lc~~~~IP~~~~~ 47 (91)
.+..+++...+.+++++.....|.. -...|..+|++++++++.-.
T Consensus 151 ~~l~~~i~~~~~~~v~~~~~~~~~~~~~~~I~~l~~~~~~~li~D~ 196 (402)
T cd00378 151 DALEKMALEFKPKLIVAGASAYPRPIDFKRFREIADEVGAYLLVDM 196 (402)
T ss_pred HHHHHHHHhCCCCEEEecCcccCCCcCHHHHHHHHHhcCCEEEEEc
Confidence 3556677667788888866444321 14568889999999766433
No 462
>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=35.21 E-value=1.8e+02 Score=21.27 Aligned_cols=41 Identities=10% Similarity=0.127 Sum_probs=29.6
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
+.++.+.+++++++.||.....++ +. ...++++.++++..+
T Consensus 217 l~~l~~~ik~~~v~~If~e~~~~~-~~---~~~ia~~~g~~v~~l 257 (286)
T cd01019 217 LAKIRKEIKEKGATCVFAEPQFHP-KI---AETLAEGTGAKVGEL 257 (286)
T ss_pred HHHHHHHHHHcCCcEEEecCCCCh-HH---HHHHHHhcCceEEEe
Confidence 357788889999999998888766 33 345567777766443
No 463
>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=35.14 E-value=1.4e+02 Score=20.00 Aligned_cols=56 Identities=9% Similarity=0.169 Sum_probs=35.2
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE--eC--CHhHHhhHhCCCCceEEEEEecCch
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY--VP--SKKDIGEALGRKKPCICVIVKSTES 72 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~--~~--sk~eLG~a~G~~~~~~v~~i~~~~~ 72 (91)
+..+|.|+.|-++. .+..+.+++++++.+ +. ...+|++..|...-=+..+++..|.
T Consensus 65 ~~~vV~Vs~D~~~~----~~~~f~~~~~~~~~~~p~~~~~~~~l~~~y~v~~iPt~vlId~~G~ 124 (146)
T cd03008 65 QLALVYVSMDQSEQ----QQESFLKDMPKKWLFLPFEDEFRRELEAQFSVEELPTVVVLKPDGD 124 (146)
T ss_pred CEEEEEEECCCCHH----HHHHHHHHCCCCceeecccchHHHHHHHHcCCCCCCEEEEECCCCc
Confidence 47788888776542 244566788865422 22 3458999999864445666666654
No 464
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=35.10 E-value=33 Score=21.87 Aligned_cols=24 Identities=29% Similarity=0.623 Sum_probs=20.7
Q ss_pred ecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 68 KSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
..++..++.++.+.+.+..-|+||
T Consensus 91 ~~~~~v~eal~~l~~~~~~~~~~w 114 (119)
T TIGR02663 91 NEPESISELLERLQKMLKGNPPPW 114 (119)
T ss_pred CCCccHHHHHHHHHHHHcCCCCHH
Confidence 344567999999999999999999
No 465
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=34.64 E-value=1.3e+02 Score=20.57 Aligned_cols=65 Identities=8% Similarity=0.134 Sum_probs=43.2
Q ss_pred hHHhhHHHHHhcCCCCEEEeCCHh--HHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCCCC
Q psy6265 27 EIMCHLPAVCEDKDIPYCYVPSKK--DIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW 91 (91)
Q Consensus 27 ~~~~~l~~lc~~~~IP~~~~~sk~--eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~ 91 (91)
++...+...|++.++.+.+..|.. +|=.++.......-+++-.++-|+..==-|...+.....|+
T Consensus 28 di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSiAl~DAl~~~~~P~ 94 (141)
T TIGR01088 28 EIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSVALRDALAAVSLPV 94 (141)
T ss_pred HHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHHHHHHHHHcCCCCE
Confidence 566778888888899888777654 45555544433356788888888754444555566666663
No 466
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=34.63 E-value=75 Score=19.41 Aligned_cols=49 Identities=24% Similarity=0.276 Sum_probs=32.6
Q ss_pred hcCCCCEEEeCCHhHHhhHhCCCCceEEEEEec----CchHHHHHHHHHHHhhcCCC
Q psy6265 37 EDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS----TESVAELYEEVKQEIGALPV 89 (91)
Q Consensus 37 ~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~----~~~~~~~~~~~~~~~~~~~~ 89 (91)
++-++-++..+=. | -||.-....-|+++. ++..++.+++|.+.|++.|.
T Consensus 25 ~~p~~~Vie~gCl---~-~Cg~C~~~pFAlVnG~~V~A~t~eeL~~kI~~~i~e~~~ 77 (78)
T PF07293_consen 25 KDPDIDVIEYGCL---S-YCGPCAKKPFALVNGEIVAAETAEELLEKIKEKIEENPM 77 (78)
T ss_pred cCCCccEEEcChh---h-hCcCCCCCccEEECCEEEecCCHHHHHHHHHHHHhcccC
Confidence 4555544433322 2 388777777777653 55668899999999998774
No 467
>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=34.61 E-value=1.3e+02 Score=20.35 Aligned_cols=43 Identities=9% Similarity=0.069 Sum_probs=22.8
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+..+.+...++.-+|+....++ .... ....++.++||++.+.+
T Consensus 46 ~~~~~~~~~~~dgii~~~~~~~-~~~~-~l~~l~~~~ipvv~~~~ 88 (268)
T cd06323 46 NDIEDLITRGVDAIIINPTDSD-AVVP-AVKAANEAGIPVFTIDR 88 (268)
T ss_pred HHHHHHHHcCCCEEEEcCCChH-HHHH-HHHHHHHCCCcEEEEcc
Confidence 3444455556666666543323 2222 33345677898876643
No 468
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=34.56 E-value=1.8e+02 Score=21.06 Aligned_cols=49 Identities=20% Similarity=0.180 Sum_probs=33.2
Q ss_pred hHHHHHHH-hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC--CHhHHhh
Q psy6265 3 STVQGPLQ-RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP--SKKDIGE 54 (91)
Q Consensus 3 kev~kai~-~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~ 54 (91)
.+..+.++ +..+.+++||-|+.- .. -+..+-+..+||++.+- +-+.+.+
T Consensus 50 ~~~~~~L~~~~g~d~ivIaCNTA~-a~--~~~~l~~~~~iPii~iie~~v~~a~~ 101 (251)
T TIGR00067 50 LELLTFLKERHNIKLLVVACNTAS-AL--ALEDLQRNFDFPVVGVIEPAIKAAIR 101 (251)
T ss_pred HHHHHHHHHhCCCCEEEEeCchHH-HH--HHHHHHHHCCCCEEeecHHHHHHHHH
Confidence 35566777 888999999999743 11 25556667799998743 4445544
No 469
>TIGR02207 lipid_A_htrB lipid A biosynthesis lauroyl (or palmitoleoyl) acyltransferase. This model represents a narrow clade of acyltransferases, nearly all of which transfer a lauroyl group to KDO2-lipid IV-A, a lipid A precursor; these proteins are termed lipid A biosynthesis lauroyl acyltransferase, HtrB. An exception is a closely related paralog of E. coli HtrB, LpxP, which acts in cold shock conditions by transferring a palmitoleoyl rather than lauroyl group to the lipid A precursor. Members of this family are homologous to the family of acyltransferases responsible for the next step in lipid A biosynthesis.
Probab=34.43 E-value=1.2e+02 Score=22.29 Aligned_cols=45 Identities=7% Similarity=-0.107 Sum_probs=27.0
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch---------------hHHhhHHHHHhcCCCCEEEeCC
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI---------------EIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~---------------~~~~~l~~lc~~~~IP~~~~~s 48 (91)
+++..+++++|+ .|.+..|-++. ....-...++...+.|++.++.
T Consensus 178 ~r~i~~~Lk~g~--~v~il~Dq~~~~~~g~~v~FfG~~~a~~~~g~a~LA~~~~apvip~~~ 237 (303)
T TIGR02207 178 LRGMIKALKNGE--RIWYAPDHDYGRKSSVFVPFFAVPDAATTTGTSILARLSKCAVVPFTP 237 (303)
T ss_pred HHHHHHHHhCCC--eEEEeCCCCCCCCCcEEeCCCCCCcchhHHHHHHHHHHhCCeEEEEEE
Confidence 467889999987 66666665431 1111123566777777765553
No 470
>PRK05600 thiamine biosynthesis protein ThiF; Validated
Probab=34.43 E-value=62 Score=24.94 Aligned_cols=33 Identities=12% Similarity=0.080 Sum_probs=26.4
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
...+||-+.|- . +....+.++|..++||+++..
T Consensus 131 ~~DlVid~~Dn-~-~~r~~in~~~~~~~iP~v~~~ 163 (370)
T PRK05600 131 GVDLVLDGSDS-F-ATKFLVADAAEITGTPLVWGT 163 (370)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEE
Confidence 37889989886 3 446678999999999998764
No 471
>PRK08644 thiamine biosynthesis protein ThiF; Provisional
Probab=34.40 E-value=69 Score=22.56 Aligned_cols=33 Identities=12% Similarity=-0.027 Sum_probs=25.0
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcC-CCCEEEeC
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDK-DIPYCYVP 47 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~-~IP~~~~~ 47 (91)
...+||-|.|- + +.+..+.+.|.++ ++|+++..
T Consensus 117 ~~DvVI~a~D~-~-~~r~~l~~~~~~~~~~p~I~~~ 150 (212)
T PRK08644 117 DCDIVVEAFDN-A-ETKAMLVETVLEHPGKKLVAAS 150 (212)
T ss_pred CCCEEEECCCC-H-HHHHHHHHHHHHhCCCCEEEee
Confidence 46788888774 3 3455678899998 99999863
No 472
>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=34.32 E-value=32 Score=17.67 Aligned_cols=26 Identities=12% Similarity=0.161 Sum_probs=19.2
Q ss_pred hHHHHHhcCCCCEEEeC-CHhHHhhHh
Q psy6265 31 HLPAVCEDKDIPYCYVP-SKKDIGEAL 56 (91)
Q Consensus 31 ~l~~lc~~~~IP~~~~~-sk~eLG~a~ 56 (91)
.|..+.+.+|||+-... ++++|=..+
T Consensus 8 ~L~~wL~~~gi~~~~~~~~rd~Ll~~~ 34 (38)
T PF10281_consen 8 DLKSWLKSHGIPVPKSAKTRDELLKLA 34 (38)
T ss_pred HHHHHHHHcCCCCCCCCCCHHHHHHHH
Confidence 46667788999987666 888886543
No 473
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=34.28 E-value=72 Score=24.54 Aligned_cols=32 Identities=9% Similarity=0.067 Sum_probs=23.0
Q ss_pred eEEEEeCCCC---------------ch--hHHhhHHHHHhcCCCCEEEe
Q psy6265 15 MLCIFAGDVT---------------PI--EIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 15 ~lViiA~D~s---------------p~--~~~~~l~~lc~~~~IP~~~~ 46 (91)
...|+|.|-. |. +...++..+|++.++|++++
T Consensus 112 pV~VIa~dkg~~~~e~~~~~~G~~~p~g~rKa~Rlm~lA~~f~lPIItl 160 (322)
T CHL00198 112 TIVFLGHQRGRNTKENVLRNFGMPSPGGYRKALRLMKHANKFGLPILTF 160 (322)
T ss_pred EEEEEEecCCccchhhhhhcCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 5678888853 22 23456889999999998865
No 474
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=34.20 E-value=1.3e+02 Score=21.66 Aligned_cols=43 Identities=14% Similarity=0.207 Sum_probs=33.7
Q ss_pred HHHHHH-HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 4 TVQGPL-QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 4 ev~kai-~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
|..|++ +--++..+++|...--..+...+..+-++++||++..
T Consensus 131 EAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~VISL 174 (218)
T COG1707 131 EAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPVISL 174 (218)
T ss_pred HHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeEEEe
Confidence 445555 4466889999998876678888888999999999853
No 475
>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=34.13 E-value=93 Score=23.12 Aligned_cols=40 Identities=13% Similarity=0.311 Sum_probs=24.8
Q ss_pred hHHHHHHHhCC--ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 3 STVQGPLQRKT--IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 3 kev~kai~~gk--a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
...+++++.|+ +..+.+-+|- | +. ..+|+++|||+.++..
T Consensus 99 ~~l~~~~~~g~l~~~i~~visn~-~-~~----~~~A~~~gIp~~~~~~ 140 (280)
T TIGR00655 99 GDLLWRWYSGELDAEIALVISNH-E-DL----RSLVERFGIPFHYIPA 140 (280)
T ss_pred HHHHHHHHcCCCCcEEEEEEEcC-h-hH----HHHHHHhCCCEEEcCC
Confidence 34566677775 5666666664 2 22 2357888888876654
No 476
>PLN02721 threonine aldolase
Probab=34.09 E-value=1.3e+02 Score=21.75 Aligned_cols=33 Identities=9% Similarity=0.108 Sum_probs=22.6
Q ss_pred CceEEEEeCCCC-------chhHHhhHHHHHhcCCCCEEE
Q psy6265 13 TIMLCIFAGDVT-------PIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 13 ka~lViiA~D~s-------p~~~~~~l~~lc~~~~IP~~~ 45 (91)
+.++|++.+-.+ +.+-...+.++|+++|++++.
T Consensus 137 ~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~g~~liv 176 (353)
T PLN02721 137 TTRLICLENTHANCGGRCLSVEYTDKVGELAKRHGLKLHI 176 (353)
T ss_pred cceEEEEeccccccCCccccHHHHHHHHHHHHHcCCEEEE
Confidence 678899855211 212346799999999998864
No 477
>PF00118 Cpn60_TCP1: TCP-1/cpn60 chaperonin family Chaperonins cpn60 signature Chaperonins TCP-1 signatures 60 kd chaperonin signature; InterPro: IPR002423 Partially folded polypeptide chains, either newly made by ribosomes or emerging from mature proteins unfolded by stress, run the risk of aggregating with one another to the detriment of the organism. Folding of newly synthesised polypeptides in the crowded cellular environment requires the assistance of molecular chaperone proteins, such as the large bacterial chaperonins GroEL and GroES. GroEL and GroES prevent aggregation by encapsulating individual chains within the so-called 'Anfinsen cage' provided by the GroEL-GroES complex, where they can fold in isolation from one another []. GroEL consists of two heptameric rings of identical ATPase subunits stacked back to back, containing a cage in each ring. Each subunit consists of three domains. The equatorial domain contains the nucleotide binding site and is connected by a flexible intermediate domain with the apical domain. The latter presents several hydrophobic amino-acid side chains at the top of the ring, orientated towards the cavity of the cage. These side chains are involved in binding either a partially folded polypeptide chain or a single molecule of GroES. The assembly of proteins has been thought to be the sole result of properties inherent in the primary sequence of polypeptides themselves. In some cases, however, structural information from other protein molecules is required for correct folding and subsequent assembly into oligomers []. These 'helper' molecules are referred to as molecular chaperones, a subfamily of which are the chaperonins [], which include 10 kDa and 60 kDa proteins. These are found in abundance in prokaryotes, chloroplasts and mitochondria. They are required for normal cell growth (as demonstrated by the fact that no temperature sensitive mutants for the chaperonin genes can be found in the temperature range 20 to 43 degrees centigrade []), and are stress-induced, acting to stabilise or protect disassembled polypeptides under heat-shock conditions []. The 10 kDa chaperonin (cpn10 - or groES in bacteria) exists as a ring-shaped oligomer of between 6 to 8 identical subunits, whereas the 60 kDa chaperonin (cpn60 - or groEL in bacteria) forms a structure comprising 2 stacked rings, each ring containing 7 identical subunits []. These ring structures assemble by self-stimulation in the presence of Mg2+-ATP. The cpn10 and cpn60 oligomers also require Mg2+-ATP in order to interact to form a functional complex, although the mechanism of this interaction is as yet unknown []. This chaperonin complex is essential for the correct folding and assembly of polypeptides into oligomeric structures, of which the chaperonins themselves are not a part []. The binding of cpn10 to cpn60 inhibits the weak ATPase activity of cpn60. The 60 kDa form of chaperonin is the immunodominant antigen of patients with Legionnaire's disease [], and is thought to play a role in the protection of the Legionella bacteria from oxygen radicals within macrophages. This hypothesis is based on the finding that the cpn60 gene is upregulated in response to hydrogen peroxide, a source of oxygen radicals. Cpn60 has also been found to display strong antigenicity in many bacterial species [], and has the potential for inducing immune protection against unrelated bacterial infections. The RuBisCO subunit binding protein (which has been implicated in the assembly of RuBisCO) and cpn60 have been found to be evolutionary homologues, the RuBisCO subunit binding protein having the C-terminal Gly-Gly-Met repeat found in all bacterial cpn60 sequences. Although the precise function of this repeat is unknown, it is thought to be important as it is also found in 70 kDa heat-shock proteins []. The crystal structure of Escherichia coli GroEL has been resolved to 2.8A []. The TCP-1 family of proteins act as molecular chaperones for tubulin, actin and probably some other proteins. They are weakly, but significantly, related to the cpn60/groEL chaperonin family. ; GO: 0005524 ATP binding, 0044267 cellular protein metabolic process; PDB: 3IZH_B 3IZI_I 3LOS_I 3IYF_H 3KFK_C 3KFE_E 3RUV_C 3IZK_L 3J02_B 3RUQ_A ....
Probab=34.02 E-value=39 Score=26.00 Aligned_cols=51 Identities=18% Similarity=0.111 Sum_probs=34.7
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH---hHHhhHhCC
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK---KDIGEALGR 58 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk---~eLG~a~G~ 58 (91)
+..++.+.+-.+.+|+.+.++++ . +..+|.+++|.++.--++ +.|.+++|-
T Consensus 235 ~~~~~~i~~~~~~lIi~~~~i~~-~----~l~~l~~~~I~~i~~v~~~~l~~i~~~tg~ 288 (485)
T PF00118_consen 235 KKILEKIINLGVNLIISQKSIDD-E----ALQYLNKNGILVIRRVSKEDLERIARATGA 288 (485)
T ss_dssp HHHHHHHHTTTSSEEEESSEBTH-H----HHHHHHHCTHEEESSEHHHHHHHHHHHHTS
T ss_pred ccccceEeeeccceeeeeccccc-c----cchhhhhhhhhccccchHHHHHhhhcccCC
Confidence 45667777777999999999987 3 335667888876643333 355666663
No 478
>cd04109 Rab28 Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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
Probab=33.98 E-value=1.5e+02 Score=20.18 Aligned_cols=76 Identities=17% Similarity=0.209 Sum_probs=40.9
Q ss_pred ceEEEEeCCCCchhHHhhHH-------HHHh--cCCCCEEEeCCHhHHhh----------HhCCCCc--eEEEEEecCch
Q psy6265 14 IMLCIFAGDVTPIEIMCHLP-------AVCE--DKDIPYCYVPSKKDIGE----------ALGRKKP--CICVIVKSTES 72 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~-------~lc~--~~~IP~~~~~sk~eLG~----------a~G~~~~--~~v~~i~~~~~ 72 (91)
+..+|+.=|++..+....+. .... ..++|++.+++|.+|-. .+-.... ..-.--..+..
T Consensus 74 ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~g 153 (215)
T cd04109 74 AHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDR 153 (215)
T ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCC
Confidence 55666666766432223322 2221 24578999999988741 1111111 11112234556
Q ss_pred HHHHHHHHHHHhhcCCC
Q psy6265 73 VAELYEEVKQEIGALPV 89 (91)
Q Consensus 73 ~~~~~~~~~~~~~~~~~ 89 (91)
..+.|+.+.+.+...+.
T Consensus 154 v~~lf~~l~~~l~~~~~ 170 (215)
T cd04109 154 VNLLFQQLAAELLGVDL 170 (215)
T ss_pred HHHHHHHHHHHHHhccc
Confidence 78889999888765543
No 479
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members 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 which in turn changes the DNA binding affinity of the represso
Probab=33.98 E-value=1.4e+02 Score=20.25 Aligned_cols=40 Identities=8% Similarity=0.015 Sum_probs=22.1
Q ss_pred HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
++.+.+.++++.-+|+........ ....+++.+||++.+.
T Consensus 50 ~~~~~~~~~~vdgiii~~~~~~~~----~~~~~~~~~ipvV~~~ 89 (268)
T cd06271 50 VYRRLVESGLVDGVIISRTRPDDP----RVALLLERGFPFVTHG 89 (268)
T ss_pred HHHHHHHcCCCCEEEEecCCCCCh----HHHHHHhcCCCEEEEC
Confidence 345556666676666654221211 2245567889987664
No 480
>PRK00049 elongation factor Tu; Reviewed
Probab=33.97 E-value=63 Score=24.87 Aligned_cols=49 Identities=8% Similarity=0.055 Sum_probs=28.5
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHh
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKK 50 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~ 50 (91)
++++..++..-.+-++++..+-.+..-...+..++...++|.+. +-+|.
T Consensus 89 ~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~ 138 (396)
T PRK00049 89 VKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKC 138 (396)
T ss_pred HHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeec
Confidence 45566666555566666665543222233455788889999753 44443
No 481
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=33.84 E-value=1e+02 Score=18.07 Aligned_cols=48 Identities=13% Similarity=0.216 Sum_probs=32.4
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
..++...|++......+--.+- ++.++ ...|+..++||+.+-..+|+.
T Consensus 18 a~~l~~~L~~~gi~v~~d~~~~---~~~k~-~~~a~~~g~p~~iiiG~~e~~ 65 (94)
T PF03129_consen 18 AQELANKLRKAGIRVELDDSDK---SLGKQ-IKYADKLGIPFIIIIGEKELE 65 (94)
T ss_dssp HHHHHHHHHHTTSEEEEESSSS---THHHH-HHHHHHTTESEEEEEEHHHHH
T ss_pred HHHHHHHHHHCCCEEEEECCCC---chhHH-HHHHhhcCCeEEEEECchhHh
Confidence 3566677777765555554443 34344 457889999999888888875
No 482
>PTZ00125 ornithine aminotransferase-like protein; Provisional
Probab=33.75 E-value=84 Score=23.46 Aligned_cols=42 Identities=12% Similarity=0.139 Sum_probs=27.9
Q ss_pred HHHHHHHhCCceEEEEeCC-------CCchhHHhhHHHHHhcCCCCEEE
Q psy6265 4 TVQGPLQRKTIMLCIFAGD-------VTPIEIMCHLPAVCEDKDIPYCY 45 (91)
Q Consensus 4 ev~kai~~gka~lViiA~D-------~sp~~~~~~l~~lc~~~~IP~~~ 45 (91)
+..+.++.++.++|++-.- .++.+....+.++|+++++.++.
T Consensus 169 ~le~~l~~~~~~~v~~ep~~~~~G~~~~~~~~l~~l~~l~~~~~~lli~ 217 (400)
T PTZ00125 169 ALEKLLQDPNVAAFIVEPIQGEAGVIVPDDGYLKQVYELCKKYNVLLIV 217 (400)
T ss_pred HHHHHhCCCCeEEEEEcCccCCCCCccCCHHHHHHHHHHHHHcCCEEEE
Confidence 3445555467888887432 12334567899999999997764
No 483
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=33.74 E-value=1.1e+02 Score=20.80 Aligned_cols=40 Identities=13% Similarity=0.025 Sum_probs=23.4
Q ss_pred HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265 5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP 47 (91)
Q Consensus 5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~ 47 (91)
+.+.+...++..+|...+ ++ . ...+...+++.+||++...
T Consensus 58 ~~~~l~~~~v~~iig~~~-~~-~-~~~~~~~~~~~~ip~i~~~ 97 (298)
T cd06268 58 AARELVDDGVDAVIGPLS-SG-V-ALAAAPVAEEAGVPLISPG 97 (298)
T ss_pred HHHHHHhCCceEEEcCCc-ch-h-HHhhHHHHHhCCCcEEccC
Confidence 344444556666554333 33 2 2346678889999987653
No 484
>PRK12436 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=33.73 E-value=47 Score=24.90 Aligned_cols=35 Identities=9% Similarity=0.133 Sum_probs=26.5
Q ss_pred hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265 11 RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS 48 (91)
Q Consensus 11 ~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s 48 (91)
.|.+..++...|.+. + ..+..+|+++++|+...+.
T Consensus 34 gg~a~~vv~p~~~ed--v-~~~l~~a~~~~ip~~v~Gg 68 (305)
T PRK12436 34 GGKADVFVAPTNYDE--I-QEVIKYANKYNIPVTFLGN 68 (305)
T ss_pred CceEEEEEecCCHHH--H-HHHHHHHHHcCCCEEEEcC
Confidence 456888888888644 4 4577999999999987663
No 485
>PRK07878 molybdopterin biosynthesis-like protein MoeZ; Validated
Probab=33.71 E-value=63 Score=24.94 Aligned_cols=40 Identities=13% Similarity=0.005 Sum_probs=29.9
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE 54 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~ 54 (91)
...+||-+.|- + .....+-++|..+++|+++....---|+
T Consensus 132 ~~D~Vvd~~d~-~-~~r~~ln~~~~~~~~p~v~~~~~g~~G~ 171 (392)
T PRK07878 132 QYDLILDGTDN-F-ATRYLVNDAAVLAGKPYVWGSIYRFEGQ 171 (392)
T ss_pred cCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEEeccCEEE
Confidence 36788888885 4 4556789999999999998765554454
No 486
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=33.53 E-value=1.1e+02 Score=21.38 Aligned_cols=35 Identities=11% Similarity=0.167 Sum_probs=22.2
Q ss_pred CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265 13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK 50 (91)
Q Consensus 13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~ 50 (91)
.+.+||.|.|- + ++-..+...| ..++++..+.+.+
T Consensus 70 ~adlViaaT~d-~-elN~~i~~~a-~~~~lvn~~d~~~ 104 (202)
T PRK06718 70 DAFLVIAATND-P-RVNEQVKEDL-PENALFNVITDAE 104 (202)
T ss_pred CceEEEEcCCC-H-HHHHHHHHHH-HhCCcEEECCCCc
Confidence 35678888775 3 3456678888 4578765554433
No 487
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=33.44 E-value=51 Score=16.49 Aligned_cols=22 Identities=9% Similarity=0.152 Sum_probs=16.6
Q ss_pred hhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265 30 CHLPAVCEDKDIPYCYVPSKKDIG 53 (91)
Q Consensus 30 ~~l~~lc~~~~IP~~~~~sk~eLG 53 (91)
..+...|+.+++|. -++|.+|=
T Consensus 7 ~~Lk~~l~~~gl~~--~G~K~~Lv 28 (35)
T smart00513 7 SELKDELKKRGLST--SGTKAELV 28 (35)
T ss_pred HHHHHHHHHcCCCC--CCCHHHHH
Confidence 45788899999984 56777763
No 488
>KOG3022|consensus
Probab=33.38 E-value=1.3e+02 Score=22.96 Aligned_cols=52 Identities=17% Similarity=0.287 Sum_probs=30.4
Q ss_pred HHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhc
Q psy6265 33 PAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGA 86 (91)
Q Consensus 33 ~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~ 86 (91)
..+|++.+||+. .++=..++++++..-+. ++.-.....+...|.+|.+.+.+
T Consensus 241 ~~l~~~~glp~Lg~iPld~~i~~~~d~G~~--~v~~~p~s~~~~af~~i~~~i~~ 293 (300)
T KOG3022|consen 241 ERLAEELGLPLLGSLPLDPLIAESSDSGVP--FVEEYPDSPASEAFEDIAEKLVE 293 (300)
T ss_pred HHHHHHcCCCeEeecCCCHHHHHhccCCCe--eEecCCCchHHHHHHHHHHHHHH
Confidence 456677777764 35555566666665433 23333334556778888777654
No 489
>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=33.37 E-value=1.2e+02 Score=20.00 Aligned_cols=39 Identities=26% Similarity=0.441 Sum_probs=24.3
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.+..+.|++-...|+++.+| + ...++.+|++++|--++.
T Consensus 56 ~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~V~~ 94 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLVLRGD--P---EEVLPELAKEYGATAVYF 94 (165)
T ss_dssp HHHHHHHHHTTS-EEEEESS--H---HHHHHHHHHHHTESEEEE
T ss_pred HHHHHHHHhcCcceEEEecc--h---HHHHHHHHHhcCcCeeEe
Confidence 34455666667888888887 2 234667777777766543
No 490
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=33.33 E-value=1.1e+02 Score=24.69 Aligned_cols=44 Identities=16% Similarity=0.107 Sum_probs=31.5
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
.+....|++-+--++++..-+.-......+..+++..++|++..
T Consensus 187 ~~~~~~L~~A~rP~i~~G~g~~~~~a~~~l~~lae~~~~PV~tt 230 (579)
T TIGR03457 187 AQAARLLAEAKFPVIISGGGVVMGDAVEECKALAERLGAPVVNS 230 (579)
T ss_pred HHHHHHHHhCCCCEEEECcCccccChHHHHHHHHHHhCCCEEEc
Confidence 45667777766666666666642244567999999999999864
No 491
>TIGR02015 BchY chlorophyllide reductase subunit Y. This model represents the Y subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase.
Probab=33.28 E-value=1.1e+02 Score=23.88 Aligned_cols=45 Identities=7% Similarity=-0.041 Sum_probs=32.1
Q ss_pred hHHHHHH-HhCCceEEEEeCCCCchhHHhhHHHHHhc-CCCCEEEeC
Q psy6265 3 STVQGPL-QRKTIMLCIFAGDVTPIEIMCHLPAVCED-KDIPYCYVP 47 (91)
Q Consensus 3 kev~kai-~~gka~lViiA~D~sp~~~~~~l~~lc~~-~~IP~~~~~ 47 (91)
+++++.+ ++-+.+++++.+=|.+..+-..+...|++ .++|++.+.
T Consensus 76 ~~~i~~~~~~~~P~~I~V~tTC~se~IGdDi~~~~~~~~~~pVi~v~ 122 (422)
T TIGR02015 76 RCSVHKLADPASYDAIVVINLCVPTASGVPLELLPKRINGVRVLGID 122 (422)
T ss_pred HHHHHHHhhcCCCCEEEEECCCcHHHhcCcHHHHHHhcCCCCeEEEe
Confidence 4555555 55568999999999886566667767765 678887654
No 492
>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=33.25 E-value=77 Score=24.12 Aligned_cols=80 Identities=13% Similarity=0.135 Sum_probs=42.0
Q ss_pred hHHHHHHHhCCceEEEEeCCCCc--hhHHhhHHHHHhcCCCCEEEeCCHhHHhh---------HhCCCCceEEEEEecCc
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTP--IEIMCHLPAVCEDKDIPYCYVPSKKDIGE---------ALGRKKPCICVIVKSTE 71 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp--~~~~~~l~~lc~~~~IP~~~~~sk~eLG~---------a~G~~~~~~v~~i~~~~ 71 (91)
.++..+++. +.++++--|+.. ...-..+..+.++.+.|++.+.+|.++-. -+|......+. ...+.
T Consensus 70 ~~~~~~~~~--ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~piilVvNK~D~~~~~~~~~~~~~lg~~~~~~vS-a~~g~ 146 (429)
T TIGR03594 70 EQAEIAIEE--ADVILFVVDGREGLTPEDEEIAKWLRKSGKPVILVANKIDGKKEDAVAAEFYSLGFGEPIPIS-AEHGR 146 (429)
T ss_pred HHHHHHHhh--CCEEEEEEeCCCCCCHHHHHHHHHHHHhCCCEEEEEECccCCcccccHHHHHhcCCCCeEEEe-CCcCC
Confidence 345555654 344444445431 12223466677788999999888776421 12322221121 22234
Q ss_pred hHHHHHHHHHHHhh
Q psy6265 72 SVAELYEEVKQEIG 85 (91)
Q Consensus 72 ~~~~~~~~~~~~~~ 85 (91)
...+.++.+.+.+.
T Consensus 147 gv~~ll~~i~~~l~ 160 (429)
T TIGR03594 147 GIGDLLDAILELLP 160 (429)
T ss_pred ChHHHHHHHHHhcC
Confidence 45677777776654
No 493
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=33.21 E-value=36 Score=23.76 Aligned_cols=16 Identities=25% Similarity=0.264 Sum_probs=13.3
Q ss_pred CCCCEEEeCCHhHHhh
Q psy6265 39 KDIPYCYVPSKKDIGE 54 (91)
Q Consensus 39 ~~IP~~~~~sk~eLG~ 54 (91)
.++|++.+++|.+|-.
T Consensus 128 ~~~PiilVGnK~Dl~~ 143 (202)
T cd04102 128 NQIPLLVIGTKLDQIP 143 (202)
T ss_pred CCceEEEEEECccchh
Confidence 4799999999999843
No 494
>TIGR00040 yfcE phosphoesterase, MJ0936 family. Members of this largely uncharacterized family share a motif approximating DXH(X25)GDXXD(X25)GNHD as found in several phosphoesterases, including the nucleases SbcD and Mre11, and a family of uncharacterized archaeal putative phosphoesterases described by TIGR00024. In this family, the His residue in GNHD portion of the motif is not conserved. The member MJ0936, one of two from Methanococcus jannaschii, was shown (PubMed:15128743) to act on model phosphodiesterase substrates; a divalent cation was required.
Probab=33.06 E-value=1.2e+02 Score=19.64 Aligned_cols=45 Identities=22% Similarity=0.220 Sum_probs=29.3
Q ss_pred hHHHHHHHhC-CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 3 STVQGPLQRK-TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 3 kev~kai~~g-ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
+.+.+.++.. ++.+|+.++|..+.++...+ ++.+.|+..+....+
T Consensus 17 ~~~~~~~~~~~~~d~ii~~GD~~~~~~~~~l----~~~~~~~~~V~GN~D 62 (158)
T TIGR00040 17 ELPVELFNLESNVDLVIHAGDLTSPFVLKEF----EDLAAKVIAVRGNND 62 (158)
T ss_pred HhHHHHHhhccCCCEEEEcCCCCCHHHHHHH----HHhCCceEEEccCCC
Confidence 3455666665 79999999999553443333 455667877765444
No 495
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=33.03 E-value=1.5e+02 Score=23.13 Aligned_cols=65 Identities=15% Similarity=0.106 Sum_probs=49.1
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCch------hHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPI------EIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIV 67 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~------~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i 67 (91)
.+||.+|++-|.+.-++|+...--. .-...+....++.|=+++.+.|-.+.|.-+-.= ...+|++
T Consensus 277 ~~eV~~A~e~GAve~LLv~De~lr~~~~~~re~~~~ll~~ve~~ggkV~Ivs~~he~Ge~Lk~l-GGiaaIL 347 (352)
T COG1537 277 LEEVEKAAEYGAVETLLVTDELLRSDDVEEREDVEELLEEVESMGGKVVIVSTEHEPGERLKAL-GGIAAIL 347 (352)
T ss_pred HHHHHHHHhcCcceeEEeehhhhcccchhhHHHHHHHHHHHHHcCCeEEEEecCCcchHHHHhc-cCeEEEE
Confidence 4799999999999999998765221 334568888899999999999999998877533 3334444
No 496
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=32.98 E-value=1.3e+02 Score=22.19 Aligned_cols=38 Identities=11% Similarity=-0.000 Sum_probs=22.5
Q ss_pred HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265 6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV 46 (91)
Q Consensus 6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~ 46 (91)
++.+.+.++.-+|++... +..+...+ .+++.+||++.+
T Consensus 97 i~~l~~~~vdgIIl~~~~-~~~~~~~l--~~~~~giPvV~~ 134 (343)
T PRK10936 97 LEQCVAWGADAILLGAVT-PDGLNPDL--ELQAANIPVIAL 134 (343)
T ss_pred HHHHHHhCCCEEEEeCCC-hHHhHHHH--HHHHCCCCEEEe
Confidence 444555667766766532 32333333 567889999865
No 497
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=32.92 E-value=71 Score=20.30 Aligned_cols=39 Identities=13% Similarity=0.049 Sum_probs=28.2
Q ss_pred hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE
Q psy6265 2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC 44 (91)
Q Consensus 2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~ 44 (91)
++++-..|+.|.+-++++.++..+..+ .+.-+.++=-++
T Consensus 45 ~~ev~~~L~~GssAl~~lv~~~~~d~v----~~~l~~~gg~v~ 83 (102)
T PF06897_consen 45 IKEVGEALKPGSSALFLLVDEATEDKV----DAALRKFGGKVL 83 (102)
T ss_pred HHHHHhhcCCCceEEEEEeccCCHHHH----HHHHHhcCCEEE
Confidence 578999999999999999999877433 333345553343
No 498
>TIGR00287 cas1 CRISPR-associated endonuclease Cas1. This model identifies CRISPR-associated protein Cas1, the most universal CRISPR system protein. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Cas1 is a metal-dependent DNA-specific endonuclease.
Probab=32.87 E-value=49 Score=24.71 Aligned_cols=41 Identities=12% Similarity=0.157 Sum_probs=28.8
Q ss_pred ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh-HHhhHhC
Q psy6265 14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK-DIGEALG 57 (91)
Q Consensus 14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~-eLG~a~G 57 (91)
+..|+|..+++ +...+..+|.++|||++++...- -.|...+
T Consensus 35 i~~I~i~g~~~---lst~~l~~l~~~~I~v~f~~~~g~~~g~~~p 76 (323)
T TIGR00287 35 VDCIVLFGGVS---ISSAAIRELAKRGIDIVFLGGDGNYLGRLSP 76 (323)
T ss_pred ccEEEEECCCC---cCHHHHHHHHHCCCeEEEECCCCcEEEEEec
Confidence 45566667663 45678999999999999988553 3444444
No 499
>COG0803 LraI ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=32.86 E-value=66 Score=23.88 Aligned_cols=38 Identities=21% Similarity=0.412 Sum_probs=27.0
Q ss_pred CCCCchhHHhhHHHHHhcCCCCEEEeCC------HhHHhhHhCCC
Q psy6265 21 GDVTPIEIMCHLPAVCEDKDIPYCYVPS------KKDIGEALGRK 59 (91)
Q Consensus 21 ~D~sp~~~~~~l~~lc~~~~IP~~~~~s------k~eLG~a~G~~ 59 (91)
++.||.+ .+++.++.++++|+++++.+ .+.|-+-.|.+
T Consensus 223 ~e~s~~~-l~~l~~~ik~~~i~~If~e~~~~~~~~~~la~e~g~~ 266 (303)
T COG0803 223 AEPSPKD-LAKLVDLIKKKNIKAIFVESNVSSKSAETLAKETGVK 266 (303)
T ss_pred cCCCHHH-HHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHhCCc
Confidence 5667755 46799999999999988753 23666666644
No 500
>PRK09453 phosphodiesterase; Provisional
Probab=32.84 E-value=1.1e+02 Score=20.40 Aligned_cols=49 Identities=10% Similarity=-0.042 Sum_probs=30.6
Q ss_pred hHHHHHHHhCCceEEEEeCCCCchh---------HHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265 3 STVQGPLQRKTIMLCIFAGDVTPIE---------IMCHLPAVCEDKDIPYCYVPSKKD 51 (91)
Q Consensus 3 kev~kai~~gka~lViiA~D~sp~~---------~~~~l~~lc~~~~IP~~~~~sk~e 51 (91)
+++++.+++.++..+|+++|..... -...+...-++.++|+..+....+
T Consensus 17 ~~~l~~~~~~~~d~ii~lGDi~~~~~~~~~~~~~~~~~~~~~l~~~~~~v~~V~GNhD 74 (182)
T PRK09453 17 EKALELFAQSGADWLVHLGDVLYHGPRNPLPEGYAPKKVAELLNAYADKIIAVRGNCD 74 (182)
T ss_pred HHHHHHHHhcCCCEEEEcccccccCcCCCCccccCHHHHHHHHHhcCCceEEEccCCc
Confidence 4667778788899999999984100 012233444566677777664443
Done!