Query 025016
Match_columns 259
No_of_seqs 263 out of 1040
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 09:16:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025016.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025016hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00365 60S ribosomal protein 100.0 1E-102 3E-107 705.7 22.3 247 12-259 16-262 (266)
2 PTZ00222 60S ribosomal protein 100.0 6.2E-98 1E-102 673.7 21.6 228 20-247 22-251 (263)
3 KOG3166 60S ribosomal protein 100.0 2E-75 4.3E-80 513.9 10.0 208 18-249 1-209 (209)
4 COG1358 RPL8A Ribosomal protei 99.9 3.1E-24 6.7E-29 175.3 11.3 99 94-203 4-102 (116)
5 TIGR03677 rpl7ae 50S ribosomal 99.9 1.3E-23 2.7E-28 171.3 12.4 108 98-217 7-115 (117)
6 PRK04175 rpl7ae 50S ribosomal 99.9 3.7E-23 7.9E-28 169.9 12.5 109 97-217 10-119 (122)
7 PRK07714 hypothetical protein; 99.8 1.5E-19 3.4E-24 143.1 10.3 89 102-202 3-91 (100)
8 PRK07283 hypothetical protein; 99.8 8.3E-19 1.8E-23 138.8 11.1 88 102-202 3-90 (98)
9 PRK01018 50S ribosomal protein 99.8 7.4E-19 1.6E-23 139.4 10.7 85 106-202 5-91 (99)
10 PTZ00106 60S ribosomal protein 99.8 1.4E-18 2.9E-23 140.3 11.0 95 97-203 5-101 (108)
11 PF01248 Ribosomal_L7Ae: Ribos 99.8 9.5E-19 2.1E-23 135.5 8.6 88 104-202 2-90 (95)
12 PRK05583 ribosomal protein L7A 99.8 3.6E-18 7.8E-23 136.9 11.7 97 102-215 2-98 (104)
13 KOG3167 Box H/ACA snoRNP compo 99.8 2.7E-18 5.8E-23 143.7 8.6 89 129-217 60-148 (153)
14 PRK13602 putative ribosomal pr 99.7 1.6E-17 3.5E-22 127.8 9.3 69 129-198 12-81 (82)
15 PRK09190 hypothetical protein; 99.7 1.6E-16 3.5E-21 142.4 14.5 138 37-201 23-189 (220)
16 PRK13600 putative ribosomal pr 99.7 2.9E-17 6.3E-22 127.5 7.7 70 128-198 13-83 (84)
17 PRK06683 hypothetical protein; 99.7 1.3E-16 2.7E-21 123.1 9.2 69 129-198 12-81 (82)
18 PRK13601 putative L7Ae-like ri 99.7 3E-16 6.4E-21 121.3 8.0 69 128-197 8-77 (82)
19 KOG3387 60S ribosomal protein 99.4 3.8E-13 8.2E-18 111.3 8.3 74 128-201 34-111 (131)
20 KOG3406 40S ribosomal protein 99.2 5.9E-11 1.3E-15 98.4 10.5 86 129-215 35-132 (134)
21 COG1911 RPL30 Ribosomal protei 99.2 1.6E-10 3.6E-15 91.9 10.4 87 106-204 8-96 (100)
22 KOG2988 60S ribosomal protein 97.9 5.9E-05 1.3E-09 61.5 8.3 83 109-205 18-104 (112)
23 PF08228 RNase_P_pop3: RNase P 97.4 0.0014 3.1E-08 56.6 10.2 82 125-206 52-139 (158)
24 PF08032 SpoU_sub_bind: RNA 2' 93.7 0.22 4.7E-06 36.3 5.7 70 129-200 1-72 (76)
25 PF15608 PELOTA_1: PELOTA RNA 93.4 0.45 9.7E-06 38.5 7.5 64 124-199 35-98 (100)
26 PF03465 eRF1_3: eRF1 domain 3 92.4 0.22 4.7E-06 40.4 4.4 61 127-187 20-98 (113)
27 TIGR00108 eRF peptide chain re 90.2 1.5 3.3E-05 42.9 8.6 72 128-199 292-404 (409)
28 TIGR03676 aRF1/eRF1 peptide ch 88.6 3.8 8.2E-05 40.2 10.1 72 127-198 287-399 (403)
29 PRK04011 peptide chain release 88.5 1.7 3.7E-05 42.7 7.6 73 126-198 294-407 (411)
30 PF10087 DUF2325: Uncharacteri 87.7 1.1 2.5E-05 34.7 4.8 49 132-180 34-84 (97)
31 TIGR00111 pelota probable tran 85.8 3.1 6.8E-05 39.9 7.6 72 126-198 275-347 (351)
32 cd01422 MGS Methylglyoxal synt 80.8 3.8 8.2E-05 33.1 5.1 47 131-177 57-107 (115)
33 PF13611 Peptidase_S76: Serine 80.2 3.3 7.1E-05 34.6 4.6 40 140-181 21-60 (121)
34 PF13727 CoA_binding_3: CoA-bi 77.4 4.2 9.2E-05 32.9 4.5 50 129-178 126-175 (175)
35 PRK05234 mgsA methylglyoxal sy 72.1 8 0.00017 32.6 5.0 45 132-176 63-111 (142)
36 PF07997 DUF1694: Protein of u 71.8 9.9 0.00021 31.4 5.3 49 133-182 51-99 (120)
37 PF02142 MGS: MGS-like domain 71.3 6.1 0.00013 30.4 3.7 41 135-175 51-94 (95)
38 cd00532 MGS-like MGS-like doma 71.0 8.6 0.00019 30.5 4.7 46 132-177 55-105 (112)
39 smart00851 MGS MGS-like domain 70.0 6.5 0.00014 29.8 3.7 47 129-175 40-89 (90)
40 PRK05562 precorrin-2 dehydroge 70.0 23 0.0005 32.2 7.8 78 144-226 85-166 (223)
41 TIGR01470 cysG_Nterm siroheme 69.7 21 0.00045 31.6 7.3 79 144-227 69-152 (205)
42 PRK11181 23S rRNA (guanosine-2 67.0 29 0.00063 31.5 7.8 70 129-200 4-76 (244)
43 PLN02821 1-hydroxy-2-methyl-2- 64.0 30 0.00066 34.9 7.8 71 144-217 362-451 (460)
44 COG2355 Zn-dependent dipeptida 63.8 6.9 0.00015 37.5 3.2 87 131-236 218-305 (313)
45 COG1844 Uncharacterized protei 63.6 10 0.00022 31.7 3.7 85 147-233 3-104 (125)
46 PF00391 PEP-utilizers: PEP-ut 61.8 17 0.00037 27.2 4.5 19 161-179 43-61 (80)
47 PF02421 FeoB_N: Ferrous iron 60.5 15 0.00033 31.4 4.5 48 137-184 71-118 (156)
48 TIGR00283 arch_pth2 peptidyl-t 59.6 72 0.0016 26.1 8.1 69 135-211 40-108 (115)
49 TIGR00186 rRNA_methyl_3 rRNA m 58.1 48 0.001 29.8 7.5 68 129-201 3-72 (237)
50 PRK00087 4-hydroxy-3-methylbut 57.8 41 0.00089 34.9 7.8 74 144-220 206-280 (647)
51 PF00497 SBP_bac_3: Bacterial 56.5 47 0.001 27.1 6.7 88 129-233 137-225 (225)
52 PF00009 GTP_EFTU: Elongation 54.6 25 0.00055 29.6 4.9 50 134-183 85-134 (188)
53 cd01424 MGS_CPS_II Methylglyox 54.5 29 0.00063 27.0 4.9 46 131-176 54-100 (110)
54 COG1648 CysG Siroheme synthase 54.1 1E+02 0.0022 27.6 8.8 57 145-204 73-133 (210)
55 PRK10864 putative methyltransf 52.8 61 0.0013 31.5 7.6 70 128-200 109-181 (346)
56 KOG1615 Phosphoserine phosphat 52.0 20 0.00043 32.8 3.9 86 124-221 84-173 (227)
57 PRK10637 cysG siroheme synthas 51.9 52 0.0011 32.5 7.2 78 144-226 72-154 (457)
58 TIGR03729 acc_ester putative p 51.8 40 0.00087 29.7 5.9 49 134-182 22-72 (239)
59 TIGR01544 HAD-SF-IE haloacid d 51.7 18 0.0004 33.9 3.8 74 79-152 55-145 (277)
60 PF01601 Corona_S2: Coronaviru 51.6 4.6 0.0001 41.8 -0.2 13 45-57 540-552 (610)
61 PF02603 Hpr_kinase_N: HPr Ser 51.5 20 0.00042 29.4 3.5 36 140-178 77-112 (127)
62 PRK06718 precorrin-2 dehydroge 51.2 85 0.0018 27.6 7.8 79 144-227 70-152 (202)
63 PRK13371 4-hydroxy-3-methylbut 50.9 59 0.0013 32.2 7.3 76 144-222 288-382 (387)
64 TIGR03025 EPS_sugtrans exopoly 50.4 36 0.00078 33.0 5.7 55 129-183 173-227 (445)
65 TIGR03023 WcaJ_sugtrans Undeca 49.9 34 0.00075 33.2 5.6 56 129-184 176-231 (451)
66 KOG1402 Ornithine aminotransfe 49.4 38 0.00082 33.5 5.6 82 158-255 228-330 (427)
67 COG0420 SbcD DNA repair exonuc 48.9 38 0.00082 32.3 5.6 46 133-179 29-83 (390)
68 cd02430 PTH2 Peptidyl-tRNA hyd 48.3 1.2E+02 0.0027 24.7 7.7 69 136-212 41-109 (115)
69 cd01483 E1_enzyme_family Super 45.9 37 0.00081 27.4 4.4 37 143-181 88-124 (143)
70 COG1419 FlhF Flagellar GTP-bin 44.7 68 0.0015 32.0 6.6 87 131-218 212-310 (407)
71 cd00952 CHBPH_aldolase Trans-o 44.4 2.6E+02 0.0056 26.1 10.3 102 106-216 64-185 (309)
72 PF14367 DUF4411: Domain of un 44.0 35 0.00076 29.0 4.1 31 148-178 119-152 (162)
73 PF02401 LYTB: LytB protein; 43.0 94 0.002 29.3 7.1 70 143-216 208-279 (281)
74 cd01485 E1-1_like Ubiquitin ac 41.6 28 0.0006 30.4 3.2 39 144-184 113-151 (198)
75 cd01879 FeoB Ferrous iron tran 41.5 50 0.0011 25.8 4.4 41 143-183 73-113 (158)
76 PRK10124 putative UDP-glucose 41.5 63 0.0014 32.1 6.0 54 130-183 189-242 (463)
77 PRK01045 ispH 4-hydroxy-3-meth 41.2 88 0.0019 29.8 6.6 72 144-218 210-282 (298)
78 PRK03147 thiol-disulfide oxido 40.9 2E+02 0.0042 23.4 8.2 55 133-191 83-138 (173)
79 COG0566 SpoU rRNA methylases [ 40.7 1.9E+02 0.0041 26.6 8.6 71 128-201 22-94 (260)
80 cd04165 GTPBP1_like GTPBP1-lik 40.3 60 0.0013 28.9 5.2 49 135-183 100-150 (224)
81 COG4029 Uncharacterized protei 40.1 81 0.0018 26.9 5.5 58 143-220 4-63 (142)
82 PF07905 PucR: Purine cataboli 39.8 86 0.0019 25.2 5.6 48 136-184 65-112 (123)
83 PF07085 DRTGG: DRTGG domain; 39.2 36 0.00079 26.3 3.2 39 136-178 54-92 (105)
84 COG0796 MurI Glutamate racemas 38.4 1.1E+02 0.0024 28.8 6.8 52 132-189 56-107 (269)
85 cd01491 Ube1_repeat1 Ubiquitin 38.4 54 0.0012 30.8 4.7 41 144-186 105-145 (286)
86 TIGR00216 ispH_lytB (E)-4-hydr 38.3 1.4E+02 0.0031 28.1 7.5 69 144-215 208-277 (280)
87 PRK13111 trpA tryptophan synth 38.2 1E+02 0.0022 28.5 6.4 86 131-218 104-198 (258)
88 PF13241 NAD_binding_7: Putati 38.2 41 0.00088 26.1 3.3 33 145-179 61-93 (103)
89 PRK12723 flagellar biosynthesi 37.5 1E+02 0.0023 30.2 6.7 57 144-200 206-262 (388)
90 cd07388 MPP_Tt1561 Thermus the 37.5 82 0.0018 28.4 5.6 46 136-182 23-73 (224)
91 PRK09932 glycerate kinase II; 37.5 2.5E+02 0.0055 27.7 9.3 97 128-228 264-371 (381)
92 PF03618 Kinase-PPPase: Kinase 37.3 94 0.002 29.0 6.1 50 148-198 55-106 (255)
93 smart00857 Resolvase Resolvase 36.8 2.1E+02 0.0046 22.7 7.5 46 131-178 52-102 (148)
94 PRK15116 sulfur acceptor prote 36.8 1.3E+02 0.0027 28.1 6.9 53 142-202 119-171 (268)
95 PF00072 Response_reg: Respons 36.4 1.7E+02 0.0037 21.4 7.1 54 129-182 28-82 (112)
96 PRK12360 4-hydroxy-3-methylbut 36.1 1.6E+02 0.0034 27.9 7.4 70 143-215 208-278 (281)
97 KOG2486 Predicted GTPase [Gene 36.1 34 0.00074 32.9 3.0 47 137-183 212-260 (320)
98 PF00899 ThiF: ThiF family; I 35.9 35 0.00076 27.4 2.7 44 134-181 84-127 (135)
99 PRK06628 lipid A biosynthesis 35.6 1.6E+02 0.0035 27.0 7.4 76 95-179 143-231 (290)
100 PF03129 HGTP_anticodon: Antic 35.4 54 0.0012 24.3 3.5 26 158-184 40-65 (94)
101 TIGR03871 ABC_peri_MoxJ_2 quin 35.2 2.5E+02 0.0055 23.7 8.1 88 132-232 142-229 (232)
102 PRK06719 precorrin-2 dehydroge 34.9 2.8E+02 0.006 23.4 8.2 81 144-229 70-154 (157)
103 PF11823 DUF3343: Protein of u 34.7 1.8E+02 0.0039 21.2 6.4 29 161-189 15-43 (73)
104 COG1377 FlhB Flagellar biosynt 34.4 53 0.0012 32.2 4.1 80 56-190 244-325 (363)
105 COG0439 AccC Biotin carboxylas 34.3 3.1E+02 0.0068 27.6 9.6 108 147-259 4-127 (449)
106 PF08534 Redoxin: Redoxin; In 33.3 1.5E+02 0.0032 23.5 6.0 46 140-190 58-104 (146)
107 cd01492 Aos1_SUMO Ubiquitin ac 33.1 48 0.001 29.0 3.3 39 144-184 110-148 (197)
108 COG2452 Predicted site-specifi 32.7 2.4E+02 0.0053 25.4 7.7 86 132-249 102-188 (193)
109 COG2961 ComJ Protein involved 32.6 1.2E+02 0.0025 28.8 5.9 95 131-235 97-191 (279)
110 PF12850 Metallophos_2: Calcin 32.6 93 0.002 24.5 4.7 40 135-182 18-58 (156)
111 PRK09590 celB cellobiose phosp 32.5 68 0.0015 25.7 3.8 48 130-179 36-83 (104)
112 PRK01889 GTPase RsgA; Reviewed 32.4 55 0.0012 31.3 3.9 26 159-184 130-155 (356)
113 COG0486 ThdF Predicted GTPase 32.2 2.1E+02 0.0045 29.1 7.9 87 131-222 273-378 (454)
114 COG1537 PelA Predicted RNA-bin 31.4 1.3E+02 0.0028 29.5 6.1 63 126-188 270-338 (352)
115 TIGR00619 sbcd exonuclease Sbc 31.2 1.1E+02 0.0024 27.6 5.4 20 135-154 30-49 (253)
116 cd03420 SirA_RHOD_Pry_redox Si 30.6 1.5E+02 0.0033 21.4 5.2 40 136-178 16-57 (69)
117 cd00755 YgdL_like Family of ac 30.6 1.8E+02 0.0039 26.3 6.7 53 142-202 100-152 (231)
118 cd00757 ThiF_MoeB_HesA_family 30.6 50 0.0011 29.2 3.1 36 144-181 111-146 (228)
119 cd01147 HemV-2 Metal binding p 30.5 2.7E+02 0.0058 24.1 7.6 52 136-190 66-127 (262)
120 TIGR00583 mre11 DNA repair pro 30.5 1.1E+02 0.0023 30.3 5.6 22 133-154 31-52 (405)
121 cd04104 p47_IIGP_like p47 (47- 30.2 1E+02 0.0022 26.3 4.9 38 146-183 82-119 (197)
122 PRK00124 hypothetical protein; 30.0 1.1E+02 0.0024 26.4 4.9 30 148-179 3-32 (151)
123 cd03770 SR_TndX_transposase Se 30.0 1.4E+02 0.003 24.4 5.4 48 131-179 55-107 (140)
124 PF05325 DUF730: Protein of un 29.8 92 0.002 25.5 4.1 46 147-201 28-73 (122)
125 cd01861 Rab6 Rab6 subfamily. 29.0 62 0.0013 25.5 3.1 40 145-184 73-118 (161)
126 PRK06731 flhF flagellar biosyn 28.8 4.6E+02 0.01 24.3 9.2 73 144-216 103-181 (270)
127 cd07396 MPP_Nbla03831 Homo sap 28.6 1.2E+02 0.0026 27.3 5.2 51 134-184 30-86 (267)
128 cd01020 TroA_b Metal binding p 28.6 1.4E+02 0.0031 26.9 5.7 16 163-178 198-213 (264)
129 PTZ00408 NAD-dependent deacety 28.5 1.5E+02 0.0033 27.0 5.9 54 124-179 149-207 (242)
130 PF07894 DUF1669: Protein of u 28.4 1.2E+02 0.0026 28.8 5.3 54 132-185 134-188 (284)
131 COG0352 ThiE Thiamine monophos 28.1 1.3E+02 0.0028 27.2 5.2 55 133-188 24-81 (211)
132 cd01857 HSR1_MMR1 HSR1/MMR1. 27.9 1.2E+02 0.0025 24.4 4.6 16 164-179 64-79 (141)
133 cd01493 APPBP1_RUB Ubiquitin a 27.9 59 0.0013 32.3 3.3 40 144-185 112-151 (425)
134 PRK00098 GTPase RsgA; Reviewed 27.8 62 0.0013 30.0 3.3 46 137-182 104-152 (298)
135 cd04164 trmE TrmE (MnmE, ThdF, 27.8 2.5E+02 0.0053 21.6 6.3 43 144-186 80-122 (157)
136 cd07392 MPP_PAE1087 Pyrobaculu 27.5 1.4E+02 0.003 24.3 5.0 43 139-182 18-63 (188)
137 PRK05703 flhF flagellar biosyn 27.5 2.1E+02 0.0046 28.2 7.1 75 142-216 249-326 (424)
138 cd01822 Lysophospholipase_L1_l 27.3 1.6E+02 0.0034 23.7 5.3 45 133-177 90-141 (177)
139 TIGR02661 MauD methylamine deh 27.1 3.5E+02 0.0075 23.1 7.6 76 141-221 101-184 (189)
140 PF13848 Thioredoxin_6: Thiore 27.0 1.7E+02 0.0037 23.8 5.4 71 147-221 54-126 (184)
141 cd00862 ProRS_anticodon_zinc P 27.0 4.3E+02 0.0093 23.1 8.8 21 164-184 60-80 (202)
142 cd07402 MPP_GpdQ Enterobacter 26.9 1.6E+02 0.0034 25.4 5.5 50 133-183 27-82 (240)
143 PRK12454 carbamate kinase-like 26.9 1.2E+02 0.0027 29.0 5.2 35 117-154 156-194 (313)
144 TIGR03022 WbaP_sugtrans Undeca 26.8 1.5E+02 0.0032 28.9 5.8 53 132-184 176-229 (456)
145 PHA02546 47 endonuclease subun 26.6 1.5E+02 0.0034 27.9 5.8 50 133-182 28-87 (340)
146 PRK06278 cobyrinic acid a,c-di 26.5 1.5E+02 0.0033 29.9 5.9 53 125-177 351-416 (476)
147 PRK03980 flap endonuclease-1; 26.3 93 0.002 29.2 4.2 39 151-190 77-117 (292)
148 PF13932 GIDA_assoc_3: GidA as 26.2 48 0.001 24.9 1.8 49 49-100 1-52 (72)
149 cd01821 Rhamnogalacturan_acety 26.1 1.4E+02 0.0031 24.9 4.9 22 158-179 133-154 (198)
150 cd01423 MGS_CPS_I_III Methylgl 25.8 62 0.0013 25.5 2.5 42 134-175 61-105 (116)
151 PRK04322 peptidyl-tRNA hydrola 25.8 3.6E+02 0.0079 21.9 7.6 67 137-211 40-106 (113)
152 COG0549 ArcC Carbamate kinase 25.6 1.3E+02 0.0029 28.9 5.0 116 117-247 155-284 (312)
153 COG1223 Predicted ATPase (AAA+ 25.3 59 0.0013 31.4 2.6 70 163-236 168-259 (368)
154 COG1116 TauB ABC-type nitrate/ 25.1 1.2E+02 0.0027 28.2 4.6 47 45-92 120-172 (248)
155 COG0159 TrpA Tryptophan syntha 24.9 5.9E+02 0.013 24.0 10.3 149 88-245 68-242 (265)
156 COG5482 Uncharacterized conser 24.7 2.5E+02 0.0055 25.5 6.3 91 132-243 51-149 (229)
157 KOG0368 Acetyl-CoA carboxylase 24.6 65 0.0014 37.5 3.1 57 145-201 1546-1613(2196)
158 cd07400 MPP_YydB Bacillus subt 24.6 1.8E+02 0.0039 22.9 5.1 50 133-183 24-80 (144)
159 PRK14722 flhF flagellar biosyn 24.5 1.3E+02 0.0029 29.3 5.0 46 143-188 166-211 (374)
160 cd05017 SIS_PGI_PMI_1 The memb 24.5 3.3E+02 0.0072 21.2 6.5 67 147-215 47-113 (119)
161 PF04378 RsmJ: Ribosomal RNA s 24.2 64 0.0014 29.8 2.6 95 129-234 64-159 (245)
162 PRK13234 nifH nitrogenase redu 24.0 5.7E+02 0.012 23.5 9.2 116 131-248 160-291 (295)
163 cd02429 PTH2_like Peptidyl-tRN 24.0 3.4E+02 0.0073 22.3 6.6 57 142-211 53-109 (116)
164 PRK10342 glycerate kinase I; P 23.9 5.3E+02 0.012 25.5 9.0 73 128-200 264-347 (381)
165 cd02407 PTH2_family Peptidyl-t 23.9 4E+02 0.0086 21.6 7.2 57 136-197 41-97 (115)
166 COG0370 FeoB Fe2+ transport sy 23.9 3.2E+02 0.007 29.0 7.8 65 137-201 74-151 (653)
167 cd01894 EngA1 EngA1 subfamily. 23.9 2E+02 0.0042 22.2 5.1 39 145-183 77-117 (157)
168 TIGR00408 proS_fam_I prolyl-tR 23.8 4.4E+02 0.0096 26.3 8.6 44 136-183 307-350 (472)
169 PRK09453 phosphodiesterase; Pr 23.7 1.7E+02 0.0037 24.5 5.0 46 133-182 16-74 (182)
170 PF10111 Glyco_tranf_2_2: Glyc 23.7 2.3E+02 0.0049 25.7 6.1 66 148-213 37-111 (281)
171 PF04705 TSNR_N: Thiostrepton- 23.5 99 0.0021 25.5 3.3 51 127-179 31-81 (115)
172 cd01143 YvrC Periplasmic bindi 23.4 4.2E+02 0.009 21.7 7.5 49 137-190 53-111 (195)
173 PRK13010 purU formyltetrahydro 23.2 2E+02 0.0042 27.1 5.7 48 125-178 95-148 (289)
174 CHL00200 trpA tryptophan synth 23.2 2.2E+02 0.0047 26.4 5.9 87 131-219 106-201 (263)
175 PRK00865 glutamate racemase; P 22.9 3.8E+02 0.0082 24.3 7.4 42 133-177 56-97 (261)
176 cd01866 Rab2 Rab2 subfamily. 22.9 1.1E+02 0.0024 24.7 3.6 41 144-184 76-122 (168)
177 PF00205 TPP_enzyme_M: Thiamin 22.9 65 0.0014 25.8 2.2 45 134-178 2-46 (137)
178 TIGR02356 adenyl_thiF thiazole 22.8 97 0.0021 27.0 3.4 35 143-179 110-144 (202)
179 TIGR03603 cyclo_dehy_ocin bact 22.6 1.1E+02 0.0024 29.0 3.9 39 136-176 145-183 (318)
180 PF09875 DUF2102: Uncharacteri 22.5 1.8E+02 0.0039 23.9 4.5 53 147-219 1-55 (104)
181 COG0800 Eda 2-keto-3-deoxy-6-p 22.5 81 0.0018 28.7 2.9 43 133-182 75-118 (211)
182 PF00462 Glutaredoxin: Glutare 22.4 2.6E+02 0.0056 18.9 5.1 45 135-180 14-58 (60)
183 COG1503 eRF1 Peptide chain rel 22.3 3.9E+02 0.0085 26.8 7.8 29 128-156 295-323 (411)
184 PF00578 AhpC-TSA: AhpC/TSA fa 22.3 2.4E+02 0.0052 21.3 5.2 64 133-201 48-118 (124)
185 PF15632 ATPgrasp_Ter: ATP-gra 22.3 1.7E+02 0.0036 28.2 5.1 52 131-183 9-78 (329)
186 COG3809 Uncharacterized protei 22.0 47 0.001 26.1 1.1 32 203-234 32-73 (88)
187 PF14639 YqgF: Holliday-juncti 21.9 1.3E+02 0.0029 25.5 3.9 37 134-170 53-90 (150)
188 TIGR03499 FlhF flagellar biosy 21.8 1.6E+02 0.0035 27.1 4.8 117 70-189 132-269 (282)
189 PRK14723 flhF flagellar biosyn 21.8 2E+02 0.0043 31.0 6.0 62 141-202 212-273 (767)
190 PF13344 Hydrolase_6: Haloacid 21.7 2.6E+02 0.0056 21.6 5.3 44 129-174 15-58 (101)
191 TIGR00679 hpr-ser Hpr(Ser) kin 21.7 1.9E+02 0.0041 27.7 5.3 42 145-189 83-125 (304)
192 TIGR02355 moeB molybdopterin s 21.6 1E+02 0.0022 27.9 3.3 34 144-179 114-147 (240)
193 PRK11148 cyclic 3',5'-adenosin 21.5 2.4E+02 0.0053 25.4 5.8 50 133-182 42-96 (275)
194 KOG3432 Vacuolar H+-ATPase V1 21.5 99 0.0021 25.8 2.9 93 126-221 20-117 (121)
195 COG0761 lytB 4-Hydroxy-3-methy 21.4 3.7E+02 0.0081 25.8 7.1 74 144-219 212-285 (294)
196 PRK06553 lipid A biosynthesis 21.3 4.1E+02 0.009 24.5 7.4 76 95-179 162-250 (308)
197 PRK10966 exonuclease subunit S 21.3 2.1E+02 0.0046 28.0 5.7 21 135-155 30-50 (407)
198 PRK08419 lipid A biosynthesis 21.1 5.1E+02 0.011 23.6 7.9 76 95-179 142-231 (298)
199 PF03279 Lip_A_acyltrans: Bact 21.1 5.3E+02 0.011 23.3 8.0 46 133-180 181-240 (295)
200 cd02988 Phd_like_VIAF Phosduci 21.0 5.6E+02 0.012 22.4 7.8 52 149-201 109-162 (192)
201 cd04235 AAK_CK AAK_CK: Carbama 20.9 1.6E+02 0.0034 28.2 4.6 30 121-153 160-189 (308)
202 PRK08661 prolyl-tRNA synthetas 20.8 5.5E+02 0.012 25.7 8.6 21 164-184 337-357 (477)
203 TIGR00045 glycerate kinase. Th 20.7 6.8E+02 0.015 24.6 9.0 57 128-184 263-328 (375)
204 PF02844 GARS_N: Phosphoribosy 20.5 1.5E+02 0.0032 23.9 3.7 40 132-174 50-89 (100)
205 cd00338 Ser_Recombinase Serine 20.4 2.6E+02 0.0055 21.8 5.1 48 129-178 50-102 (137)
206 PF00448 SRP54: SRP54-type pro 20.3 5.7E+02 0.012 22.2 7.7 38 144-181 29-66 (196)
207 PRK13505 formate--tetrahydrofo 20.3 3.9E+02 0.0084 27.9 7.4 48 129-176 354-406 (557)
208 TIGR00157 ribosome small subun 20.1 1.1E+02 0.0025 27.5 3.4 10 170-179 96-105 (245)
209 cd01489 Uba2_SUMO Ubiquitin ac 20.1 1.2E+02 0.0026 28.9 3.6 40 144-185 90-129 (312)
210 COG1880 CdhB CO dehydrogenase/ 20.1 2.6E+02 0.0056 24.8 5.3 55 134-190 26-80 (170)
211 PF01522 Polysacc_deac_1: Poly 20.0 3.2E+02 0.0068 20.7 5.5 35 145-179 5-39 (123)
No 1
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=100.00 E-value=1.3e-102 Score=705.68 Aligned_cols=247 Identities=62% Similarity=0.997 Sum_probs=241.0
Q ss_pred CcccCCCccccCCccccCCCccccCCCCCCCCccccccccchhhHhHHhHHHHhhhccCCcccccccccCChhhHHHHHh
Q 025016 12 APAKKKPEKVVNPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFK 91 (259)
Q Consensus 12 ~~~~~~~k~~~~pl~ekrpknf~ig~~i~pkrdl~~fvkwp~yi~lqrq~~il~~~lkvpp~inqf~~~ld~~~a~~l~k 91 (259)
..++.++++++|||||+|||||||||||||+|||||||+||+||||||||+||++||||||+||||+++||+|+|+|||+
T Consensus 16 ~~~~~~~~k~~~plfe~rpknf~iG~~iqpkrdlsrfvkwP~yirlQRqk~iL~~RlKvPp~inqF~~~ldk~~a~~lfk 95 (266)
T PTZ00365 16 PLKKSKKKKQKHPLFEKTPRNFRIGGDIRPKVDLSRYVRWPRYILLQRQRRVLLQRLKVPPALNQFTYTLDKNQASQLLR 95 (266)
T ss_pred cccccccccccCcccccCccccCcCCCCCCCccchhhcccchhhhHHHHHHHHHHhcCCCccHhhhhhhhcHhhHHHHHH
Confidence 33455677899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcC
Q 025016 92 LLLKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKME 171 (259)
Q Consensus 92 l~~kyrPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~ 171 (259)
|++||||||++||++||+..|+.+++|++.++++|.+|.+|+|+|+++|++++++|||||+||||++++.|||+||++|+
T Consensus 96 ll~KYrPEtk~~kk~RL~~~A~~~a~g~~~~~kkp~~vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~ 175 (266)
T PTZ00365 96 LLSKYKPETRAEKKARLLKEAEKAAAGEEVESKKPFMLKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKE 175 (266)
T ss_pred HHHhcCCccHHHHHHHHHHHHHHHhcCCCCCCCCchHHHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccC
Confidence 99999999999999999999999999999779999999999999999999999999999999999999999999999999
Q ss_pred CCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhhhhhhHhhhhhcCCCCCCchhHHHHHHHHHHHH
Q 025016 172 IPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQAKTKAKEKLLA 251 (259)
Q Consensus 172 VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~k~~~ 251 (259)
||||+++|+++||+++|++++++|||+|+++||+.+|++||+++++|||| |||+|+|||||+||.||+++++++||+++
T Consensus 176 VPY~iv~sK~eLG~AIGkktraVVAItdV~~EDk~~l~~lv~~~~~~~nd-~~e~rr~wGG~~~g~ks~~~~~k~~k~~~ 254 (266)
T PTZ00365 176 VPYCIIKGKSRLGKLVHQKTAAVVAIDNVRKEDQAEFDNLCKNFRAMFND-NSELRRRWGGGIMGIKSQHVIAKREKLIA 254 (266)
T ss_pred CCEEEECCHHHHHHHhCCCCceEEEecccCHHHHHHHHHHHHHHHHhccc-cHhhhhhcCCCccChhHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999 99999999999999999999999999999
Q ss_pred HHHHhhcC
Q 025016 252 KEAAQRLT 259 (259)
Q Consensus 252 ~e~~~k~~ 259 (259)
+|+++|+|
T Consensus 255 ~e~~~k~~ 262 (266)
T PTZ00365 255 MENAKKLG 262 (266)
T ss_pred HHHHHhhc
Confidence 99999975
No 2
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=100.00 E-value=6.2e-98 Score=673.67 Aligned_cols=228 Identities=42% Similarity=0.792 Sum_probs=222.2
Q ss_pred cccCCccccCCCccccCCCCCCCCccccccccchhhHhHHhHHHHhhhccCCcccccccccCChhhHHHHHhhhhcCCcc
Q 025016 20 KVVNPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFKLLLKYRPE 99 (259)
Q Consensus 20 ~~~~pl~ekrpknf~ig~~i~pkrdl~~fvkwp~yi~lqrq~~il~~~lkvpp~inqf~~~ld~~~a~~l~kl~~kyrPe 99 (259)
-...||||+|||||||||||||+|||||||+||+||||||||+||++||||||+||||+++||+|+|+|||+|++|||||
T Consensus 22 ~~~~~lfe~rpknf~ig~di~pkrdlsrfvkwP~yirlQrqk~iL~~rlKvPp~inqF~~~ldk~~a~~lfkll~KYrPE 101 (263)
T PTZ00222 22 PAAASHFVARPKNFGIGQDVPYARDLSRFMRWPTFVTMQRKKRVLQRRLKVPPALNQFTKVLDRSSRNELLKLIKKYAPE 101 (263)
T ss_pred CCcchhhhcCccccCCCCCCCCCccchhhhcchhhhhHHHHHHHHHHhcCCCchHhhhhhhhhHhhHHHHHHHHHHcCCc
Confidence 34679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHHHHHHHHHcCCC-Cc-cCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEE
Q 025016 100 DRAAKKERLLKRAQAEAEGKT-VE-AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 100 ~k~eK~~rLl~lA~kkaaGk~-~~-~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v 177 (259)
|++||++||+..|+++++|+. .+ +++|.+|++|+++|+++|++|+++|||||+||||++++.|||+||++|+||||++
T Consensus 102 tk~~kk~Rl~~~A~~~~~g~~~~~~~kkp~~LvsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iV 181 (263)
T PTZ00222 102 TRKARRDRLHKVAEEKKKDPKKTVSTKAPLAVVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIV 181 (263)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCCCCCCCCeeccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEE
Confidence 999999999999999999998 44 4999999999999999999999999999999999999999999999999999999
Q ss_pred CCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhhhhhhHhhhhhcCCCCCCchhHHHHHHHH
Q 025016 178 KGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQAKTKAKE 247 (259)
Q Consensus 178 ~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~ 247 (259)
+|+++||++||+++|+||||+|+|+||+.+|++||+++++||||+|||||+|||||+||.||+++++++.
T Consensus 182 ktKaeLG~AIGkKtravVAItD~g~ed~~~l~~lv~~~~~~~nd~~~e~rr~wGGg~~g~ks~~~~~k~~ 251 (263)
T PTZ00222 182 KDMARLGDAIGRKTATCVAITDVNAEDEAALKNLIRSVNARFLSRSDVIRRQWGGLQLSLRSRAELRKKH 251 (263)
T ss_pred CCHHHHHHHHCCCCCeEEEEeeCCcccHHHHHHHHHHHHHhhccchHHHHhhccCCccCHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999754
No 3
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-75 Score=513.94 Aligned_cols=208 Identities=61% Similarity=0.988 Sum_probs=197.0
Q ss_pred CccccCCccccCCCccccCCCCCCCCccccccccchhhHhHHhHHHHhhhccCCcccccccccCChhhHHHHHhhhhcCC
Q 025016 18 PEKVVNPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFKLLLKYR 97 (259)
Q Consensus 18 ~k~~~~pl~ekrpknf~ig~~i~pkrdl~~fvkwp~yi~lqrq~~il~~~lkvpp~inqf~~~ld~~~a~~l~kl~~kyr 97 (259)
+++++|||||+||+||||||||||+||||+||+||+||++|||++||+ ||||||+||||+++||.++++++++|+|+||
T Consensus 1 ~~k~~~~l~~~rp~nfg~gq~iqpk~dlt~~~k~p~~i~lq~q~~~l~-~lkvpp~i~qf~~~l~~~~a~~~~kl~hkyr 79 (209)
T KOG3166|consen 1 AKKVVNPLFEKRPKNFGIGQDIQPKRDLTCFVKWPRYIRLQRQKAILY-RLKVPPAINQFTQALDLQTATKLLKLAHKYR 79 (209)
T ss_pred CCcccchhHHhcccccCcccccccccccccceeccHHHHhhhchhhhe-eeccCcchhhhhcccchHHHHHHHHHHhhcC
Confidence 468999999999999999999999999999999999999999999999 9999999999999999999999999999999
Q ss_pred cccHHHHHHHHHHHHHHHHcCCC-CccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEE
Q 025016 98 PEDRAAKKERLLKRAQAEAEGKT-VEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 98 Pe~k~eK~~rLl~lA~kkaaGk~-~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~ 176 (259)
||+++++.++++.. ++++|++ +++++|+++..|+|+|+++||+++|+|||+|||+||+|++.|||+||++| +
T Consensus 80 P~~~~~~~~r~~a~--~~~~~kg~v~tkrp~~~~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km-----i 152 (209)
T KOG3166|consen 80 PETKKKKKQRLLAE--AKAAGKGDVPTKRPPVLRAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM-----I 152 (209)
T ss_pred chhhhhhhhhHHHH--HHHHhccCCCcCCCcccccCcceEeehhhccccceeEEecccCchhheeecHHhhhhh-----c
Confidence 98888888777655 4457777 99999999999999999999999999999999999999999999999999 6
Q ss_pred ECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhhhhhhHhhhhhcCCCCCCchhHHHHHHHHHH
Q 025016 177 VKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQAKTKAKEKL 249 (259)
Q Consensus 177 v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~k~ 249 (259)
|+++ +++||++||+ +++||+++|.+|+|+|++||||||||||+|||| ||+++ ++|||
T Consensus 153 vk~~-------~~kT~t~~a~--v~~edk~~l~kl~e~i~tn~ndrydei~~hWgg-----ks~a~--kleka 209 (209)
T KOG3166|consen 153 VKGK-------HRKTCTTVAF--VNSEDKGALAKLVEAIRTNYNDRYDEICRHWGG-----KSVAH--KLEKA 209 (209)
T ss_pred cccc-------ccceeeeeee--echhhHHHHHHHHHHHhcccccchhhhhhcccC-----HhHHH--HhhcC
Confidence 6776 9999999999 999999999999999999999999999999999 99999 88764
No 4
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=3.1e-24 Score=175.31 Aligned_cols=99 Identities=42% Similarity=0.567 Sum_probs=94.4
Q ss_pred hcCCcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCC
Q 025016 94 LKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIP 173 (259)
Q Consensus 94 ~kyrPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VP 173 (259)
.-+.|++..++..++++.|.+ +|+ |+.|+|+|+++|++|+++|||||+|+||.+++.|||.||++++||
T Consensus 4 ~~~~~~~~~~k~l~~l~~a~~--~~k---------i~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vp 72 (116)
T COG1358 4 KPLAPEMLEQKALSLLGKASR--AGK---------LKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVP 72 (116)
T ss_pred cccCcHHHHHHHHHHHHHHHh--cCC---------chhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCC
Confidence 456899999999999999998 888 999999999999999999999999999999999999999999999
Q ss_pred EEEECCccchhhhhcCCceEEEEEeecCcc
Q 025016 174 YCIVKGKSRLGSIVHKKTASVLCLTTVKNE 203 (259)
Q Consensus 174 y~~v~sK~eLG~avGkk~~a~VAitd~g~e 203 (259)
|++|+|+.+||+++|...+++|+++|.+..
T Consensus 73 yv~V~sk~~LG~a~g~~~~~vv~i~~~~~~ 102 (116)
T COG1358 73 YVYVGSKKELGKAVGKEVRKVVAIVDKGFA 102 (116)
T ss_pred EEEeCCHHHHHHHhCCCcceeEEEeehhhh
Confidence 999999999999999998899999999854
No 5
>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=99.91 E-value=1.3e-23 Score=171.31 Aligned_cols=108 Identities=38% Similarity=0.583 Sum_probs=96.7
Q ss_pred cccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEE
Q 025016 98 PEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 98 Pe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v 177 (259)
|+...+|.++||++|.+ +|+ +++|+++|+++|++|+++|||||+|+||+++..+++.+|++++|||+++
T Consensus 7 ~~~l~~ki~~lL~la~r--agk---------l~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~ 75 (117)
T TIGR03677 7 PEELANKALEAVEKARE--TGK---------IKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYV 75 (117)
T ss_pred cHHHHHHHHHHHHHHHH--cCC---------EeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEe
Confidence 55578999999999999 898 9999999999999999999999999999988899999999999999999
Q ss_pred CCccchhhhhcCC-ceEEEEEeecCcccHHHHHHHHHHHHH
Q 025016 178 KGKSRLGSIVHKK-TASVLCLTTVKNEDKMEFSKILEAIKA 217 (259)
Q Consensus 178 ~sK~eLG~avGkk-~~a~VAitd~g~eDk~~l~kLve~i~~ 217 (259)
+|+.+||++||++ .+++|||+|.|..+. .+++|.+.|++
T Consensus 76 ~sk~eLG~a~Gk~~~~svvaI~d~g~a~~-~~~~~~~~i~~ 115 (117)
T TIGR03677 76 KKKEDLGAAAGLEVGAASAAIVDEGKAEE-LLKEIIEKVEA 115 (117)
T ss_pred CCHHHHHHHhCCCCCeEEEEEEchhhhHH-HHHHHHHHHHh
Confidence 9999999999996 699999999885433 46666666653
No 6
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.90 E-value=3.7e-23 Score=169.88 Aligned_cols=109 Identities=36% Similarity=0.534 Sum_probs=97.8
Q ss_pred CcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEE
Q 025016 97 RPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 97 rPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~ 176 (259)
-|+...+|.++||++|.+ +|+ |++|.++|+++|++|+++|||||+|+||.++..+++.+|++++|||++
T Consensus 10 ~~~~l~~ki~~lL~la~r--agk---------lv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~ 78 (122)
T PRK04175 10 VPEELAEKALEAVEKARD--TGK---------IKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVY 78 (122)
T ss_pred CCHHHHHHHHHHHHHHHH--cCC---------EeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEE
Confidence 567778999999999999 898 999999999999999999999999999998889999999999999999
Q ss_pred ECCccchhhhhcCC-ceEEEEEeecCcccHHHHHHHHHHHHH
Q 025016 177 VKGKSRLGSIVHKK-TASVLCLTTVKNEDKMEFSKILEAIKA 217 (259)
Q Consensus 177 v~sK~eLG~avGkk-~~a~VAitd~g~eDk~~l~kLve~i~~ 217 (259)
++++++||++||++ .+++|||+|.|.. +..++++.+.|++
T Consensus 79 ~~tk~eLG~a~Gk~~~~svvaI~d~g~a-~~~~~~~~~~i~~ 119 (122)
T PRK04175 79 VPSKKDLGKAAGLEVGAAAAAIVDAGKA-KELVEDIVEKVNE 119 (122)
T ss_pred ECCHHHHHHHhCCCCCeEEEEEechhhh-HHHHHHHHHHHHH
Confidence 99999999999999 5999999998853 3345666666653
No 7
>PRK07714 hypothetical protein; Provisional
Probab=99.81 E-value=1.5e-19 Score=143.07 Aligned_cols=89 Identities=20% Similarity=0.240 Sum_probs=84.0
Q ss_pred HHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 102 AAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 102 ~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
.+|.+++|++|++ +|+ +++|.++|.++|++|+++|||+|+|++|. ...++..+|+.++|||+++.+++
T Consensus 3 ~~~~~~~Lgla~r--aGk---------~v~G~~~v~~al~~g~~~lViiA~D~s~~-~~~ki~~~~~~~~vp~~~~~sk~ 70 (100)
T PRK07714 3 MSDWKSFLGLANR--ARK---------VISGEELVLKEVRSGKAKLVLLSEDASVN-TTKKITDKCTYYNVPMRKVENRQ 70 (100)
T ss_pred HHHHHHHHHHHHH--hCC---------eeecHHHHHHHHHhCCceEEEEeCCCCHH-HHHHHHHHHHhcCCCEEEeCCHH
Confidence 5789999999999 999 99999999999999999999999999996 66789999999999999999999
Q ss_pred chhhhhcCCceEEEEEeecCc
Q 025016 182 RLGSIVHKKTASVLCLTTVKN 202 (259)
Q Consensus 182 eLG~avGkk~~a~VAitd~g~ 202 (259)
+||++||+..++++||+|.|.
T Consensus 71 eLG~a~Gk~~~~~vai~d~g~ 91 (100)
T PRK07714 71 QLGHAIGKDERVVVAVLDEGF 91 (100)
T ss_pred HHHHHhCCCcceEEEEeCchh
Confidence 999999999888999999874
No 8
>PRK07283 hypothetical protein; Provisional
Probab=99.79 E-value=8.3e-19 Score=138.80 Aligned_cols=88 Identities=26% Similarity=0.273 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 102 AAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 102 ~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
.+|.+++|++|++ ||+ |++|.+.|.++|++|+++|||+|+|+|+. ....+...|++++||++.+.+++
T Consensus 3 ~~~~l~~LglA~r--aGk---------lv~G~~~v~~aik~gk~~lVi~A~Das~~-~~kk~~~~~~~~~Vp~~~~~t~~ 70 (98)
T PRK07283 3 KQKISNLLGLAQR--AGR---------IISGEELVVKAIQSGQAKLVFLANDAGPN-LTKKVTDKSNYYQVEVSTVFSTL 70 (98)
T ss_pred HHHHHHHHHHHHH--hCC---------eeEcHHHHHHHHHcCCccEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEeCCHH
Confidence 5799999999999 999 99999999999999999999999999995 55668999999999999999999
Q ss_pred chhhhhcCCceEEEEEeecCc
Q 025016 182 RLGSIVHKKTASVLCLTTVKN 202 (259)
Q Consensus 182 eLG~avGkk~~a~VAitd~g~ 202 (259)
+||++||+. +++|||+|.|.
T Consensus 71 eLG~a~Gk~-~~vvai~d~g~ 90 (98)
T PRK07283 71 ELSAAVGKP-RKVLAVTDAGF 90 (98)
T ss_pred HHHHHhCCC-ceEEEEeChhH
Confidence 999999996 68899999984
No 9
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.79 E-value=7.4e-19 Score=139.42 Aligned_cols=85 Identities=24% Similarity=0.281 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEE-CCccchh
Q 025016 106 ERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIV-KGKSRLG 184 (259)
Q Consensus 106 ~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v-~sK~eLG 184 (259)
.+-|.+|.+ +|+ +++|.++|+++|++|+++|||||+|+++ ++..+|+.+|++++|||+.+ +|+.+||
T Consensus 5 ~~~l~~a~r--agk---------l~~G~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~tk~eLG 72 (99)
T PRK01018 5 NRELRVAVD--TGK---------VILGSKRTIKAIKLGKAKLVIVASNCPK-DIKEDIEYYAKLSGIPVYEYEGSSVELG 72 (99)
T ss_pred HHHHHHHHH--cCC---------EEEcHHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCCHHHHH
Confidence 345778888 898 9999999999999999999999999977 56788999999999998776 8999999
Q ss_pred hhhcCCc-eEEEEEeecCc
Q 025016 185 SIVHKKT-ASVLCLTTVKN 202 (259)
Q Consensus 185 ~avGkk~-~a~VAitd~g~ 202 (259)
++||++. ++++||+|.|.
T Consensus 73 ~a~Gk~~~~~~vaI~D~G~ 91 (99)
T PRK01018 73 TLCGKPFTVSALAIVDPGE 91 (99)
T ss_pred HHhCCCCCEEEEEEecCCH
Confidence 9999996 79999999983
No 10
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.78 E-value=1.4e-18 Score=140.35 Aligned_cols=95 Identities=16% Similarity=0.201 Sum_probs=84.4
Q ss_pred CcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEE
Q 025016 97 RPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 97 rPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~ 176 (259)
+-.++..-..++|++|.+ +|+ +++|.++|+++|++|+++|||||.|++++ ....+..+|+.++||++.
T Consensus 5 ~~~~~~~~i~~~Lgla~r--aGK---------lv~G~~~vlkalk~gkaklViiA~D~~~~-~kkki~~~~~~~~Vpv~~ 72 (108)
T PTZ00106 5 KKKKAQESINSKLQLVMK--SGK---------YTLGTKSTLKALRNGKAKLVIISNNCPPI-RRSEIEYYAMLSKTGVHH 72 (108)
T ss_pred cccccHhhHHHHHHHHHH--hCC---------eeecHHHHHHHHHcCCeeEEEEeCCCCHH-HHHHHHHHHhhcCCCEEE
Confidence 444556678899999999 999 99999999999999999999999999996 456699999999999985
Q ss_pred -ECCccchhhhhcCCceE-EEEEeecCcc
Q 025016 177 -VKGKSRLGSIVHKKTAS-VLCLTTVKNE 203 (259)
Q Consensus 177 -v~sK~eLG~avGkk~~a-~VAitd~g~e 203 (259)
++++.+||++||+..++ +|||+|.|..
T Consensus 73 ~~~t~~eLG~A~Gk~~r~svvaI~D~G~a 101 (108)
T PTZ00106 73 YAGNNNDLGTACGRHFRVSVMSITDAGDS 101 (108)
T ss_pred eCCCHHHHHHHhCCccCeEEEEEeCcchH
Confidence 69999999999998755 8999999953
No 11
>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=99.77 E-value=9.5e-19 Score=135.46 Aligned_cols=88 Identities=35% Similarity=0.571 Sum_probs=82.5
Q ss_pred HHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 104 KKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 104 K~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
+..++|+.|.+ +|+ ++.|+++|+++|++++++|||+|+|++|..+..+++.+|++++|||+++.|+.+|
T Consensus 2 ~i~~~l~~a~~--~~~---------lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eL 70 (95)
T PF01248_consen 2 KIYKLLKLARK--AGR---------LVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEEL 70 (95)
T ss_dssp HHHHHHHHHHH--HSE---------EEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHH
T ss_pred hHHHHHHHHHh--cCC---------EEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHH
Confidence 56788999988 776 9999999999999999999999999999999888999999999999999999999
Q ss_pred hhhhcCCc-eEEEEEeecCc
Q 025016 184 GSIVHKKT-ASVLCLTTVKN 202 (259)
Q Consensus 184 G~avGkk~-~a~VAitd~g~ 202 (259)
|+++|+++ +++++++|.|.
T Consensus 71 G~~~g~~~~~~~~~i~d~~~ 90 (95)
T PF01248_consen 71 GRACGKKRPVSALAIKDAGD 90 (95)
T ss_dssp HHHTTSSSTSSEEEEEESTT
T ss_pred HHHHCCCCcEEEEEEECccc
Confidence 99999996 78999999985
No 12
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.77 E-value=3.6e-18 Score=136.93 Aligned_cols=97 Identities=23% Similarity=0.323 Sum_probs=86.9
Q ss_pred HHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 102 AAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 102 ~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
.++.++||++|++ ||+ +++|.+.|.++|++|+++|||+|+|++++.. ..|..+|+.++||++.+++++
T Consensus 2 ~~k~l~lLglA~r--AGk---------lv~G~~~v~~aik~gk~~lVI~A~D~s~~~k-kki~~~~~~~~vp~~~~~t~~ 69 (104)
T PRK05583 2 MNKFLNFLGLTKK--AGK---------LLEGYNKCEEAIKKKKVYLIIISNDISENSK-NKFKNYCNKYNIPYIEGYSKE 69 (104)
T ss_pred hHHHHHHHHHHHH--hCC---------eeecHHHHHHHHHcCCceEEEEeCCCCHhHH-HHHHHHHHHcCCCEEEecCHH
Confidence 4688999999999 999 9999999999999999999999999999654 668999999999999999999
Q ss_pred chhhhhcCCceEEEEEeecCcccHHHHHHHHHHH
Q 025016 182 RLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAI 215 (259)
Q Consensus 182 eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i 215 (259)
+||.+||+..++++||+|.|. ...+++.+
T Consensus 70 eLg~a~Gk~~~~~iai~d~g~-----a~~l~~~~ 98 (104)
T PRK05583 70 ELGNAIGRDEIKILGVKDKNM-----AKKLLKLW 98 (104)
T ss_pred HHHHHhCCCCeEEEEEeChHH-----HHHHHHHH
Confidence 999999999999999999873 34455444
No 13
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=99.75 E-value=2.7e-18 Score=143.73 Aligned_cols=89 Identities=27% Similarity=0.496 Sum_probs=84.4
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHH
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEF 208 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l 208 (259)
|..|+.+|.+.|++|.-.|+|||.|++|+++..|||.||+++||||+++.|++.||.+.|.++.+|+.|+..+.|.++.+
T Consensus 60 lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~psk~dlg~A~~~krpt~~v~v~p~~eyke~y 139 (153)
T KOG3167|consen 60 LRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTPSKEDLGAAGGTKRPTCCVFVKPGGEYKELY 139 (153)
T ss_pred HHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCccccccHHHHHHhcCCCCCceEEEEeeChhHHHHH
Confidence 88999999999999999999999999999999999999999999999999999999999999989888999998888888
Q ss_pred HHHHHHHHH
Q 025016 209 SKILEAIKA 217 (259)
Q Consensus 209 ~kLve~i~~ 217 (259)
++++|.+..
T Consensus 140 dev~eel~~ 148 (153)
T KOG3167|consen 140 DEVLEELEA 148 (153)
T ss_pred HHHHHHHHh
Confidence 888887753
No 14
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.73 E-value=1.6e-17 Score=127.83 Aligned_cols=69 Identities=22% Similarity=0.349 Sum_probs=64.7
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEe
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLT 198 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAit 198 (259)
+++|.++|+++|++|+++|||||.|++|. +..+|+.+|++++|||++++|+.+||++||++. ++++||.
T Consensus 12 l~~G~~~v~kai~~gkaklViiA~D~~~~-~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 12 IVIGTKQTVKALKRGSVKEVVVAEDADPR-LTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred EEEcHHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence 99999999999999999999999999995 788899999999999999999999999999998 5667764
No 15
>PRK09190 hypothetical protein; Provisional
Probab=99.71 E-value=1.6e-16 Score=142.44 Aligned_cols=138 Identities=21% Similarity=0.211 Sum_probs=113.8
Q ss_pred CCCCCCCccccccccc-----------------------hhhHhHHhHHHHhhhccCCcccccccccCChhhHHHHHhhh
Q 025016 37 GALPPKKDLHRYVKWP-----------------------KAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFKLL 93 (259)
Q Consensus 37 ~~i~pkrdl~~fvkwp-----------------------~yi~lqrq~~il~~~lkvpp~inqf~~~ld~~~a~~l~kl~ 93 (259)
+-..|+.+|-|||+=| .++..=.++..|.+.||.+-.+ +.+...+|-.++
T Consensus 23 r~~~~k~~LiR~v~~~dg~v~~D~~~k~pGRGaYvc~~~~c~~~A~kkk~l~Ralk~~v~v-------~~~l~~~l~~~l 95 (220)
T PRK09190 23 REVGPPDELIRFVVGPDGQVVPDLKRKLPGRGCWVSADRAAVEKAVAKKLFARAAKADVKV-------PPDLADLVEALL 95 (220)
T ss_pred CCccCHHHcEEEEEcCCCcEEECCCCCCCCCEEEEcCCHHHHHHHHHhChhHHHhCCCCCC-------CHHHHHHHHHHH
Confidence 3466888888888533 3444445678888888864222 344555666555
Q ss_pred hcCCcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhh----
Q 025016 94 LKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRK---- 169 (259)
Q Consensus 94 ~kyrPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~---- 169 (259)
.++.++||++|++ ||+ |++|.+.|..+|+++++.|||+|+|+|+++. ..|..+|+.
T Consensus 96 --------~~ril~lLGLArR--AGk---------lVsG~~~V~~alk~gk~~Lvi~A~DaS~~t~-kKl~~~~~~~~~~ 155 (220)
T PRK09190 96 --------ARRALDALGLARK--AGQ---------VVSGFEKVDAALRSGEAAALIHASDGAADGK-RKLDQARRALVHE 155 (220)
T ss_pred --------HHHHHHHHHHHhh--hCC---------EeecHHHHHHHHHcCCceEEEEeccCChhHH-HHHHHHHHhhccc
Confidence 5799999999999 999 9999999999999999999999999999766 558899999
Q ss_pred --cCCCEEEECCccchhhhhcCCceEEEEEeecC
Q 025016 170 --MEIPYCIVKGKSRLGSIVHKKTASVLCLTTVK 201 (259)
Q Consensus 170 --~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g 201 (259)
++|||+.++++++||.++|+..+++|||+|.+
T Consensus 156 ~~~~Vp~v~~~tk~eLg~AlGr~~~~~vav~d~g 189 (220)
T PRK09190 156 TGREIPVIGLFTAAELGLAFGRENVIHAALLAGG 189 (220)
T ss_pred ccCCccEEEecCHHHHHHHhCCCceeEEEEcChH
Confidence 99999999999999999999999999999886
No 16
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.71 E-value=2.9e-17 Score=127.52 Aligned_cols=70 Identities=23% Similarity=0.347 Sum_probs=64.9
Q ss_pred eeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEe
Q 025016 128 VVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLT 198 (259)
Q Consensus 128 ~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAit 198 (259)
.++.|+++++++|++|++++||||.|+||. ++.+||.+|++++|||+++.|+.+||++||.++ ++++|+.
T Consensus 13 ~~vvG~kqt~Kai~kg~~~~v~iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 13 HFVVGLKETLKALKKDQVTSLIIAEDVEVY-LMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred CceeeHHHHHHHHhcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence 368999999999999999999999999995 789999999999999999999999999999996 6677764
No 17
>PRK06683 hypothetical protein; Provisional
Probab=99.69 E-value=1.3e-16 Score=123.11 Aligned_cols=69 Identities=25% Similarity=0.261 Sum_probs=63.9
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEe
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLT 198 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAit 198 (259)
+++|.++|+++|++|+++|||||.|++|+ +...|..+|++++|||+++.|+.+||++||++. .+++||+
T Consensus 12 ~v~G~~~v~kaik~gkaklViiA~Da~~~-~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~ 81 (82)
T PRK06683 12 VVVGHKRTLEAIKNGIVKEVVIAEDADMR-LTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGII 81 (82)
T ss_pred EEEcHHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEe
Confidence 99999999999999999999999999996 567799999999999999999999999999998 5667664
No 18
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.66 E-value=3e-16 Score=121.26 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=63.1
Q ss_pred eeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceE-EEEE
Q 025016 128 VVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTAS-VLCL 197 (259)
Q Consensus 128 ~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a-~VAi 197 (259)
.+++|.++|+++|++|+++|||||.|+++ +++.+|+.+|++++|||++++|+.+||++||+++.+ ++|+
T Consensus 8 Klv~G~~~vlkaIk~gkakLViiA~Da~~-~~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~ 77 (82)
T PRK13601 8 KRVVGAKQTLKAITNCNVLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAAD 77 (82)
T ss_pred cEEEchHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEE
Confidence 39999999999999999999999999998 577889999999999999999999999999999844 4444
No 19
>KOG3387 consensus 60S ribosomal protein 15.5kD/SNU13, NHP2/L7A family (includes ribonuclease P subunit p38), involved in splicing [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.44 E-value=3.8e-13 Score=111.27 Aligned_cols=74 Identities=31% Similarity=0.513 Sum_probs=66.0
Q ss_pred eeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhc---CCc-eEEEEEeecC
Q 025016 128 VVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH---KKT-ASVLCLTTVK 201 (259)
Q Consensus 128 ~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avG---kk~-~a~VAitd~g 201 (259)
.++.|.|++|+.+++|...+||+|.||.|.++..|||.||+.+|||||+|.|+..||.+|| ..+ .+++.|+..+
T Consensus 34 ql~kg~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~Vpsk~alG~~cg~~~~~r~~~a~~i~~~~ 111 (131)
T KOG3387|consen 34 QLKKGANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYVFVPSKQALGLACGELVVLRPVIACSITTNE 111 (131)
T ss_pred HHhcccchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceEEeeccHHhhhhhhhHhhcCcceeEEEEecc
Confidence 3778999999999999999999999999999999999999999999999999999999999 555 3445555444
No 20
>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=99.25 E-value=5.9e-11 Score=98.38 Aligned_cols=86 Identities=22% Similarity=0.356 Sum_probs=76.6
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcC----------Cc--eEEEE
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHK----------KT--ASVLC 196 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGk----------k~--~a~VA 196 (259)
|..|+.+.++++.+.+|.|+|+|+|++...+++.+.+||.+++||++.|.+...||+++|. +. |+|++
T Consensus 35 larGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k~LGew~Glckid~eGnarKvvGcs~vv 114 (134)
T KOG3406|consen 35 LARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAGLCKIDSEGNARKVVGCSCVV 114 (134)
T ss_pred HHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhceeeecCCCCeeEeecceEEE
Confidence 8899999999999999999999999998899999999999999999999999999999983 32 89999
Q ss_pred EeecCcccHHHHHHHHHHH
Q 025016 197 LTTVKNEDKMEFSKILEAI 215 (259)
Q Consensus 197 itd~g~eDk~~l~kLve~i 215 (259)
++|.|.|.. ++.-+.+++
T Consensus 115 Vkd~geet~-a~~~v~~~~ 132 (134)
T KOG3406|consen 115 VKDYGEETQ-ALDIVKEHF 132 (134)
T ss_pred EeecccccH-HHHHHHHHh
Confidence 999997655 456655554
No 21
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.20 E-value=1.6e-10 Score=91.87 Aligned_cols=87 Identities=26% Similarity=0.354 Sum_probs=74.7
Q ss_pred HHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEE-CCccchh
Q 025016 106 ERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIV-KGKSRLG 184 (259)
Q Consensus 106 ~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v-~sK~eLG 184 (259)
.+-|.+|.+ .|+ ++.|.+.++++++.|+++|||||+++ |.++...|...+.-.+||++.. ++..+||
T Consensus 8 ~~~L~~avk--TGk---------vilG~k~tiK~lk~gkaKliiiAsN~-P~~~k~~ieyYAkLs~ipV~~y~Gt~~eLG 75 (100)
T COG1911 8 EKELKLAVK--TGK---------VILGSKRTIKSLKLGKAKLIIIASNC-PKELKEDIEYYAKLSDIPVYVYEGTSVELG 75 (100)
T ss_pred HHHHHHHHh--cCC---------EEEehHHHHHHHHcCCCcEEEEecCC-CHHHHHHHHHHHHHcCCcEEEecCCceeHH
Confidence 344666777 788 89999999999999999999999999 6588888888888889997765 5788999
Q ss_pred hhhcCCc-eEEEEEeecCccc
Q 025016 185 SIVHKKT-ASVLCLTTVKNED 204 (259)
Q Consensus 185 ~avGkk~-~a~VAitd~g~eD 204 (259)
.+||+.. .++++|+|.|+.|
T Consensus 76 ~~cgkpf~v~~laIiD~G~S~ 96 (100)
T COG1911 76 TVCGKPFRVAALAIIDEGDSD 96 (100)
T ss_pred hhhCCCceEEEEEEecCchhh
Confidence 9999996 6899999999643
No 22
>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=97.92 E-value=5.9e-05 Score=61.49 Aligned_cols=83 Identities=22% Similarity=0.323 Sum_probs=63.8
Q ss_pred HHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhh--HhhHHHHhhhcCCCEEE-ECCccchhh
Q 025016 109 LKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIEL--VVWLPALCRKMEIPYCI-VKGKSRLGS 185 (259)
Q Consensus 109 l~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~el--v~~LpaLC~~~~VPy~~-v~sK~eLG~ 185 (259)
+.++++ +|| -+.|..++.+.++.++++|++||.++-|... ..++.-|+. .+|.. .+...+||.
T Consensus 18 lll~mk--sgk---------Y~lgyK~T~k~~r~gkakL~~is~n~p~lrks~ieyyamlak---~~v~~~sg~n~~lgt 83 (112)
T KOG2988|consen 18 LLLVMK--SGK---------YILGYKQTLKSLRQGKAKLIIISSNCPPLRKSEIEYYAMLAK---TGVHHYSGNNVELGT 83 (112)
T ss_pred HHHHHh--hcc---------eeechHHHHHHHHhccceEEEeecCCCCcchhHHHHHHHHhc---CceeeecCCcEeHHH
Confidence 446677 898 7889999999999999999999999976432 233444443 56554 456789999
Q ss_pred hhcCCc-eEEEEEeecCcccH
Q 025016 186 IVHKKT-ASVLCLTTVKNEDK 205 (259)
Q Consensus 186 avGkk~-~a~VAitd~g~eDk 205 (259)
+||+-. .+|++|+|.|..|.
T Consensus 84 ~~g~~fRv~v~~ivd~gds~~ 104 (112)
T KOG2988|consen 84 ACGKTFRVSVLSIVDLGDSDI 104 (112)
T ss_pred HhcCeeEeeEEEEEeccchhh
Confidence 999875 57899999986553
No 23
>PF08228 RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR013241 This family of fungal proteins form a subunit of RNase P, the ribonucleoprotein enzyme that cleaves the leader sequence of precursor tRNAs to generate mature tRNAs. The structure of Pop3 has been assigned the L7Ae/L30e fold []. This RNA-binding fold is also present in human RNase P subunit Rpp38, raising the possibility that Pop3p and Rpp38 are functional homologues.
Probab=97.43 E-value=0.0014 Score=56.63 Aligned_cols=82 Identities=17% Similarity=0.244 Sum_probs=64.8
Q ss_pred CCceeecchHHHHHHHHhCCc--cEEEEeCCCCchhhHhhHHHHhhhcC--CCEEEEC--CccchhhhhcCCceEEEEEe
Q 025016 125 KPIVVKYGLNHVTYLIEQNKA--QLVVIAHDVDPIELVVWLPALCRKME--IPYCIVK--GKSRLGSIVHKKTASVLCLT 198 (259)
Q Consensus 125 kp~~l~~G~n~Vtk~IekkKA--kLVVIA~DvsP~elv~~LpaLC~~~~--VPy~~v~--sK~eLG~avGkk~~a~VAit 198 (259)
.+.-+..|+|+|++.+|...+ .+||++..=+|.-+..|||.||.-.+ |.++-.. +.++|+.++|..+.++++|.
T Consensus 52 ~~~~v~~GfNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~~rLs~aLgi~r~g~l~v~ 131 (158)
T PF08228_consen 52 WPWGVTVGFNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATASKSVRLVQLPKGSEARLSEALGIPRVGILAVR 131 (158)
T ss_pred CCccEEEehHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhccCcceEEeCChhHHHHHHHHhCCCCccEEEEe
Confidence 445689999999999994333 26666654378889999999999888 7777655 56789999999999999999
Q ss_pred ecCcccHH
Q 025016 199 TVKNEDKM 206 (259)
Q Consensus 199 d~g~eDk~ 206 (259)
...+.++.
T Consensus 132 ~~~~~~~~ 139 (158)
T PF08228_consen 132 ADAPGAKS 139 (158)
T ss_pred cCCcccHH
Confidence 87766653
No 24
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=93.68 E-value=0.22 Score=36.29 Aligned_cols=70 Identities=14% Similarity=0.189 Sum_probs=48.9
Q ss_pred eecchHHHHHHHHhCC-ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCce-EEEEEeec
Q 025016 129 VKYGLNHVTYLIEQNK-AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTA-SVLCLTTV 200 (259)
Q Consensus 129 l~~G~n~Vtk~IekkK-AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~-a~VAitd~ 200 (259)
++.|.+.|..+++++. ..-|++..+..... ...+..+|...|||+..+. +..|.++++..+. .++|+...
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~~-~~~i~~~~~~~~i~v~~v~-~~~l~~ls~~~~hQGv~a~v~~ 72 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADKR-IKEILKLAKKKGIPVYEVS-KKVLDKLSDTENHQGVVAVVKP 72 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---CC-THHHHHHHHHCT-EEEEE--HHHHHHCTTTSS-TTEEEEEE-
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccchh-HHHHHHHHHHcCCeEEEeC-HHHHHHHcCCCCCCeEEEEEeC
Confidence 4689999999999986 88888888832222 3457889999999998874 5568888876652 45665543
No 25
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=93.41 E-value=0.45 Score=38.50 Aligned_cols=64 Identities=17% Similarity=0.209 Sum_probs=53.5
Q ss_pred CCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEee
Q 025016 124 KKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTT 199 (259)
Q Consensus 124 kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd 199 (259)
.....++-|+-++|+.+-+.-.-.|++-..-+| + +.||..||++.|||+..+.+. .-+|++|+.
T Consensus 35 ~diN~IKPGIgEaTRvLLRRvP~~vLVr~~~~p-d-~~Hl~~LA~ekgVpVe~~~d~----------~Y~a~glIk 98 (100)
T PF15608_consen 35 SDINLIKPGIGEATRVLLRRVPWKVLVRDPDDP-D-LAHLLLLAEEKGVPVEVYPDL----------PYSACGLIK 98 (100)
T ss_pred CCcccccCChhHHHHHHHhcCCCEEEECCCCCc-c-HHHHHHHHHHcCCcEEEeCCC----------CeEEEEEee
Confidence 445668889999999999999999999877777 3 478999999999999998875 257777764
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=92.40 E-value=0.22 Score=40.36 Aligned_cols=61 Identities=18% Similarity=0.237 Sum_probs=50.9
Q ss_pred ceeecchHHHHHHHHhCCccEEEEeCCCCchh------------------hHhhHHHHhhhcCCCEEEECCccchhhhh
Q 025016 127 IVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIE------------------LVVWLPALCRKMEIPYCIVKGKSRLGSIV 187 (259)
Q Consensus 127 ~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~e------------------lv~~LpaLC~~~~VPy~~v~sK~eLG~av 187 (259)
..+..|.++|.++++.|-+..++|..|..-.. ++.+|..+++++|.-+.++.+..+-|.-+
T Consensus 20 ~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~v~iis~~~e~G~~L 98 (113)
T PF03465_consen 20 GLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAKVEIISSEHEEGEQL 98 (113)
T ss_dssp SSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSEEEEE-TTSHHHHHH
T ss_pred CcEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHH
Confidence 34899999999999999999999999875432 46789999999999999999998888766
No 27
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=90.19 E-value=1.5 Score=42.94 Aligned_cols=72 Identities=14% Similarity=0.312 Sum_probs=55.9
Q ss_pred eeecchHHHHHHHHhCCccEEEEeCCCCc-----------------------------------------hhhHhhHHHH
Q 025016 128 VVKYGLNHVTYLIEQNKAQLVVIAHDVDP-----------------------------------------IELVVWLPAL 166 (259)
Q Consensus 128 ~l~~G~n~Vtk~IekkKAkLVVIA~DvsP-----------------------------------------~elv~~LpaL 166 (259)
..+.|.++|.++++.|.+..++|..|..- .+++.+|..+
T Consensus 292 ~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~L~e~ 371 (409)
T TIGR00108 292 LACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEWLSEL 371 (409)
T ss_pred cEEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHHHHHH
Confidence 48899999999999999999999998731 1356788999
Q ss_pred hhhcCCCEEEECCccchhhhhcCCceEEEEEee
Q 025016 167 CRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTT 199 (259)
Q Consensus 167 C~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd 199 (259)
|+.+|.-+.++.+..+=|.-+-+..-...||.-
T Consensus 372 a~~~Ga~V~iiS~~~eeG~ql~~~fGGIaAiLR 404 (409)
T TIGR00108 372 AENFGAKLEFISTESEEGAQLLTAFGGIGAILR 404 (409)
T ss_pred HHHcCCEEEEECCCChhHHHHHHhCCCEEEEEe
Confidence 999999999999998888544333224455543
No 28
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=88.62 E-value=3.8 Score=40.22 Aligned_cols=72 Identities=15% Similarity=0.225 Sum_probs=56.2
Q ss_pred ceeecchHHHHHHHHhCCccEEEEeCCCC-----------------------------------------chhhHhhHHH
Q 025016 127 IVVKYGLNHVTYLIEQNKAQLVVIAHDVD-----------------------------------------PIELVVWLPA 165 (259)
Q Consensus 127 ~~l~~G~n~Vtk~IekkKAkLVVIA~Dvs-----------------------------------------P~elv~~Lpa 165 (259)
...+.|.++|.++++.|.+..++|..|.. ..+++.+|..
T Consensus 287 g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~L~e 366 (403)
T TIGR03676 287 GLAAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEELSE 366 (403)
T ss_pred CcEEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHH
Confidence 34889999999999999999999988762 1246778899
Q ss_pred HhhhcCCCEEEECCccchhhhhcCCceEEEEEe
Q 025016 166 LCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLT 198 (259)
Q Consensus 166 LC~~~~VPy~~v~sK~eLG~avGkk~~a~VAit 198 (259)
+++.+|.-+.++.+..+-|.-+-+..-.+.||.
T Consensus 367 ~a~~~Ga~V~~iS~~~eeG~ql~~~fGGIaAiL 399 (403)
T TIGR03676 367 LAEESGAKVEIISTDTEEGEQLLKAFGGIAAIL 399 (403)
T ss_pred HHHHcCCEEEEECCCChhHHHHHHcCCcEEEEE
Confidence 999999999999999888855533332444544
No 29
>PRK04011 peptide chain release factor 1; Provisional
Probab=88.52 E-value=1.7 Score=42.68 Aligned_cols=73 Identities=14% Similarity=0.206 Sum_probs=55.8
Q ss_pred CceeecchHHHHHHHHhCCccEEEEeCCCC-----------------------------------------chhhHhhHH
Q 025016 126 PIVVKYGLNHVTYLIEQNKAQLVVIAHDVD-----------------------------------------PIELVVWLP 164 (259)
Q Consensus 126 p~~l~~G~n~Vtk~IekkKAkLVVIA~Dvs-----------------------------------------P~elv~~Lp 164 (259)
+...+.|.++|.++++.|.+..++|..|.. ..+++.+|.
T Consensus 294 ~g~avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~v~~l~ 373 (411)
T PRK04011 294 GGLAVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEEEDIIEELS 373 (411)
T ss_pred CCcEEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHH
Confidence 344889999999999999999999986641 224678889
Q ss_pred HHhhhcCCCEEEECCccchhhhhcCCceEEEEEe
Q 025016 165 ALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLT 198 (259)
Q Consensus 165 aLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAit 198 (259)
.+++.+|.-+.++.+..+-|.-+-+..-...||.
T Consensus 374 e~a~~~g~~v~iis~~~e~G~qL~~~fGGIaAiL 407 (411)
T PRK04011 374 ELAEQSGTKVEVISTDTEEGEQLLKAFGGIAAIL 407 (411)
T ss_pred HHHHHcCCEEEEECCCChhHHHHHHcCCCEEEEE
Confidence 9999999999999999888865533322344443
No 30
>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=87.74 E-value=1.1 Score=34.67 Aligned_cols=49 Identities=18% Similarity=0.224 Sum_probs=36.9
Q ss_pred chHHHHHHHHh--CCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCc
Q 025016 132 GLNHVTYLIEQ--NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGK 180 (259)
Q Consensus 132 G~n~Vtk~Iek--kKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK 180 (259)
|.+.-...|++ ++|.+||+-.|.---.....+...|+++++|++++.+.
T Consensus 34 ~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~ 84 (97)
T PF10087_consen 34 GDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSR 84 (97)
T ss_pred CCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCC
Confidence 44444444554 56899999888766567778999999999999998743
No 31
>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=85.84 E-value=3.1 Score=39.87 Aligned_cols=72 Identities=15% Similarity=0.130 Sum_probs=56.9
Q ss_pred CceeecchHHHHHHHHhCCccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEe
Q 025016 126 PIVVKYGLNHVTYLIEQNKAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLT 198 (259)
Q Consensus 126 p~~l~~G~n~Vtk~IekkKAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAit 198 (259)
+....+|.++|.++++.|-+.-++|+.+. ....-+..|-..++.+|..++++.+..+-|.-+ ..--.++||.
T Consensus 275 ~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL-~~lgGiaAiL 347 (351)
T TIGR00111 275 GDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQL-DSLGGIAGIL 347 (351)
T ss_pred CCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHH-hhCCCEEEEE
Confidence 44589999999999999999999999988 222224557888999999999999999999766 2333555654
No 32
>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=80.84 E-value=3.8 Score=33.09 Aligned_cols=47 Identities=26% Similarity=0.308 Sum_probs=37.7
Q ss_pred cchHHHHHHHHhCCccEEEEeCCC---Cc-hhhHhhHHHHhhhcCCCEEEE
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDV---DP-IELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~Dv---sP-~elv~~LpaLC~~~~VPy~~v 177 (259)
.|..++..+|++|+..+||-..|- ++ ..-...|...|-.++|||+..
T Consensus 57 ~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Tt 107 (115)
T cd01422 57 GGDQQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATN 107 (115)
T ss_pred CchhHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEc
Confidence 577889999999999999988773 23 333456899999999999864
No 33
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=80.18 E-value=3.3 Score=34.64 Aligned_cols=40 Identities=25% Similarity=0.398 Sum_probs=28.4
Q ss_pred HHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 140 IEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 140 IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
+...+++=| +|+ ++-.+++.-+..+|.+.|||+.+++++.
T Consensus 21 ~~~~~~~~v-v~~-~~i~dL~~~~~~ic~ergiPIe~I~~~k 60 (121)
T PF13611_consen 21 VKRRKEKQV-VAN-NEIDDLVREVTEICCERGIPIEIIDKKK 60 (121)
T ss_pred hhhhhhcce-Eec-CcHHHHHHHHHHHHHHcCCCEEEecCcc
Confidence 333333333 675 4344688889999999999999998754
No 34
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=77.43 E-value=4.2 Score=32.95 Aligned_cols=50 Identities=16% Similarity=0.122 Sum_probs=36.6
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~ 178 (259)
+....+++...+++..+.-|+||-+-++.+.+..+-..|+.++|.+.+++
T Consensus 126 ~lg~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 126 VLGDLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp EE--GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred eEcCHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence 55668999999999999999999888888888899999999999988763
No 35
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=72.12 E-value=8 Score=32.60 Aligned_cols=45 Identities=22% Similarity=0.262 Sum_probs=35.3
Q ss_pred chHHHHHHHHhCCccEEEEeCC-CCc---hhhHhhHHHHhhhcCCCEEE
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHD-VDP---IELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~D-vsP---~elv~~LpaLC~~~~VPy~~ 176 (259)
|..++...|.+|+..+||--.| .++ ..-...|...|-.++|||+.
T Consensus 63 g~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 63 GDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVAT 111 (142)
T ss_pred CchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEc
Confidence 6788999999999999998774 232 22234588999999999965
No 36
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=71.79 E-value=9.9 Score=31.39 Aligned_cols=49 Identities=16% Similarity=0.157 Sum_probs=36.5
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
..++.+.+.+...-.|+|..+++.. ....+..+|.++|+||.+|.+...
T Consensus 51 ~~~~~~~l~~~~~~~l~ing~l~~~-~~~~YiklA~~~~~~fTiv~~~~~ 99 (120)
T PF07997_consen 51 YPEFEQALKDYPNYKLKINGNLDYS-FQSKYIKLANKHGIPFTIVNDPEY 99 (120)
T ss_dssp -HHHHHHHHC-SSEEEEEETTS-HH-HHHHHHHHHHHTT--EEEE---SS
T ss_pred HHHHHHHHhhCCCeEEEEcCCCCHH-HHHHHHHHHHHcCCCEEEeCCCCc
Confidence 4788899999999999999999885 667789999999999999998664
No 37
>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=71.27 E-value=6.1 Score=30.39 Aligned_cols=41 Identities=17% Similarity=0.096 Sum_probs=31.9
Q ss_pred HHHHHHHhCCccEEEEeCCCCchhh---HhhHHHHhhhcCCCEE
Q 025016 135 HVTYLIEQNKAQLVVIAHDVDPIEL---VVWLPALCRKMEIPYC 175 (259)
Q Consensus 135 ~Vtk~IekkKAkLVVIA~DvsP~el---v~~LpaLC~~~~VPy~ 175 (259)
++..+|++++..|||.-.+-..... ...+..+|.+++||+.
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCc
Confidence 4999999999999999888654322 3458999999999996
No 38
>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=71.02 E-value=8.6 Score=30.49 Aligned_cols=46 Identities=26% Similarity=0.174 Sum_probs=35.5
Q ss_pred chHHHHHHHHh-CCccEEEEeCCCC----chhhHhhHHHHhhhcCCCEEEE
Q 025016 132 GLNHVTYLIEQ-NKAQLVVIAHDVD----PIELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 132 G~n~Vtk~Iek-kKAkLVVIA~Dvs----P~elv~~LpaLC~~~~VPy~~v 177 (259)
|..++...|++ |+..|||-..|-. ...-...|...|-+++|||+.-
T Consensus 55 g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 55 GEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred CCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 67889999999 9999999876521 1222345889999999999863
No 39
>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=70.04 E-value=6.5 Score=29.77 Aligned_cols=47 Identities=23% Similarity=0.226 Sum_probs=35.7
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCC---CchhhHhhHHHHhhhcCCCEE
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDV---DPIELVVWLPALCRKMEIPYC 175 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~Dv---sP~elv~~LpaLC~~~~VPy~ 175 (259)
+..|...+.+++++++..+||...+- ++.+-...+..+|.+++|||.
T Consensus 40 i~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 40 VHGGILAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred CCCCCHHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 33466679999999999999987652 223324568999999999985
No 40
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=69.99 E-value=23 Score=32.19 Aligned_cols=78 Identities=24% Similarity=0.308 Sum_probs=47.8
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhh----cCCceEEEEEeecCcccHHHHHHHHHHHHHhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIV----HKKTASVLCLTTVKNEDKMEFSKILEAIKANF 219 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~av----Gkk~~a~VAitd~g~eDk~~l~kLve~i~~~y 219 (259)
.+.|||+|.| |+ ++-..+-..|+.+++++..+.+. ++|..+ -..-..+|||...|..-. ....|-+.+...+
T Consensus 85 g~~LViaATd-D~-~vN~~I~~~a~~~~~lvn~vd~p-~~~dFi~PAiv~rg~l~IaIST~G~sP~-lar~lR~~ie~~l 160 (223)
T PRK05562 85 DKHLIVIATD-DE-KLNNKIRKHCDRLYKLYIDCSDY-KKGLCIIPYQRSTKNFVFALNTKGGSPK-TSVFIGEKVKNFL 160 (223)
T ss_pred CCcEEEECCC-CH-HHHHHHHHHHHHcCCeEEEcCCc-ccCeEEeeeEEecCCEEEEEECCCcCcH-HHHHHHHHHHHHH
Confidence 4789999987 34 56677899999999999987764 445322 122246788877765332 2233334444444
Q ss_pred hhhhHhh
Q 025016 220 NDKYEEL 226 (259)
Q Consensus 220 ~d~y~e~ 226 (259)
+.|+++
T Consensus 161 -~~~~~l 166 (223)
T PRK05562 161 -KKYDDF 166 (223)
T ss_pred -HHHHHH
Confidence 335543
No 41
>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=69.68 E-value=21 Score=31.55 Aligned_cols=79 Identities=23% Similarity=0.243 Sum_probs=49.3
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhh-----hhcCCceEEEEEeecCcccHHHHHHHHHHHHHh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGS-----IVHKKTASVLCLTTVKNEDKMEFSKILEAIKAN 218 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~-----avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~ 218 (259)
.+.|||+|.|.. ++-..+-..|+..+||+..+... ++|. .+-+. ...|||...|..-. .-..|-+.|...
T Consensus 69 ~~~lVi~at~d~--~ln~~i~~~a~~~~ilvn~~d~~-e~~~f~~pa~~~~g-~l~iaisT~G~sP~-la~~lr~~ie~~ 143 (205)
T TIGR01470 69 GAFLVIAATDDE--ELNRRVAHAARARGVPVNVVDDP-ELCSFIFPSIVDRS-PVVVAISSGGAAPV-LARLLRERIETL 143 (205)
T ss_pred CcEEEEECCCCH--HHHHHHHHHHHHcCCEEEECCCc-ccCeEEEeeEEEcC-CEEEEEECCCCCcH-HHHHHHHHHHHh
Confidence 588999998864 34456789999999999765543 3443 22233 36788877765332 234445556665
Q ss_pred hhhhhHhhh
Q 025016 219 FNDKYEELR 227 (259)
Q Consensus 219 y~d~y~e~~ 227 (259)
|.+.|+++.
T Consensus 144 l~~~~~~~~ 152 (205)
T TIGR01470 144 LPPSLGDLA 152 (205)
T ss_pred cchhHHHHH
Confidence 655555543
No 42
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=67.01 E-value=29 Score=31.47 Aligned_cols=70 Identities=14% Similarity=0.175 Sum_probs=50.8
Q ss_pred eecchHHHHHHHHhC--CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEeec
Q 025016 129 VKYGLNHVTYLIEQN--KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLTTV 200 (259)
Q Consensus 129 l~~G~n~Vtk~Iekk--KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAitd~ 200 (259)
++.|.+.|..+++.+ ...-|++..+.+...+ ..+..+|.+.+|++..+ +.+.|-++++..+ -.++|+...
T Consensus 4 ~i~G~~~v~eal~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~i~~~~v-~~~~l~~ls~~~~~qGv~a~~~~ 76 (244)
T PRK11181 4 IIYGIHAVQALLERAPERFIEVFVLKGREDKRL-LPLINELEAQGIVIQLA-NRQTLDEKAEGAVHQGIIARVKP 76 (244)
T ss_pred EEEehHHHHHHHhCCCCceeEEEEECCCcchHH-HHHHHHHHHcCCcEEEe-CHHHHhhhhcCCCCceEEEEEec
Confidence 569999999999863 4666777777644333 44567888899998776 5777888888765 356677664
No 43
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=64.01 E-value=30 Score=34.90 Aligned_cols=71 Identities=13% Similarity=0.223 Sum_probs=46.6
Q ss_pred CccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhh------------------hhcCCceEEEEEeecCccc
Q 025016 144 KAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGS------------------IVHKKTASVLCLTTVKNED 204 (259)
Q Consensus 144 KAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~------------------avGkk~~a~VAitd~g~eD 204 (259)
++.|+|+-.+- |.|+ .+|-.+|+..|+|-+.|.+.++|+. ++-. ....|+||..-+-.
T Consensus 362 ~vDlmiVVGG~NSSNT--~~L~eIa~~~g~~sy~Ie~~~eI~~~~~i~h~~~~~e~~~~~~wl~~-~~~~VGITAGASTP 438 (460)
T PLN02821 362 KLDLMLVVGGWNSSNT--SHLQEIAEHKGIPSYWIDSEERIGPGNTIAHKLNHGELVEKENWLPE-GPVTIGVTSGASTP 438 (460)
T ss_pred CCCEEEEECCCCCccH--HHHHHHHHHhCCCEEEECCHHHcCcccccccccccchhhhhHHHhcc-CCCEEEEecCCCCC
Confidence 35555555544 5554 5789999999999999999999985 4411 13578888765544
Q ss_pred HHHHHHHHHHHHH
Q 025016 205 KMEFSKILEAIKA 217 (259)
Q Consensus 205 k~~l~kLve~i~~ 217 (259)
....+++++.+..
T Consensus 439 d~lIeeVi~~l~~ 451 (460)
T PLN02821 439 DKVVEDVLDKVFD 451 (460)
T ss_pred HHHHHHHHHHHHH
Confidence 4344555554433
No 44
>COG2355 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]
Probab=63.80 E-value=6.9 Score=37.50 Aligned_cols=87 Identities=16% Similarity=0.168 Sum_probs=63.0
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHH
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSK 210 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~k 210 (259)
.|++-+...+..+. +.+.+..+++.|+--+|+-.|+-.+-++|--.=|.. + -.+-||.+.+..
T Consensus 218 Igv~~~~~fl~~~~------~~~atldd~v~hI~h~v~~~G~dhVglGsDf~g~~~-~----------p~gled~~~l~~ 280 (313)
T COG2355 218 IGVNFIPAFLRPGG------AARATLDDLVRHIDHFVELVGIDHVGLGSDFDGGTG-P----------PDGLEDVGKLPN 280 (313)
T ss_pred EEEEeehhhccCCC------CCCCCHHHHHHHHHHHHHhcCcceeEecccccCCCC-C----------chhhcChhHHHH
Confidence 35555555555422 667777899999999999999988776653321110 0 235678888999
Q ss_pred HHHHHHHh-hhhhhHhhhhhcCCCCCC
Q 025016 211 ILEAIKAN-FNDKYEELRKKWGGGIMG 236 (259)
Q Consensus 211 Lve~i~~~-y~d~y~e~~~~wgg~~lg 236 (259)
|++++.+. |.| +++..-||+|.+-
T Consensus 281 l~~~L~~~G~~e--~~i~~i~~~N~lR 305 (313)
T COG2355 281 LTAALIERGYSE--EEIEKIAGENWLR 305 (313)
T ss_pred HHHHHHHcCCCH--HHHHHHHHHhHHH
Confidence 99999988 988 6899999999763
No 45
>COG1844 Uncharacterized protein conserved in archaea [Function unknown]
Probab=63.56 E-value=10 Score=31.75 Aligned_cols=85 Identities=26% Similarity=0.334 Sum_probs=54.0
Q ss_pred EEEEeCCCCchhhHhhHHHHhhhcCC-----CEEEECCcc--chhhhhc--CCceEEEEEeecCcccHHHHHHHHHH---
Q 025016 147 LVVIAHDVDPIELVVWLPALCRKMEI-----PYCIVKGKS--RLGSIVH--KKTASVLCLTTVKNEDKMEFSKILEA--- 214 (259)
Q Consensus 147 LVVIA~DvsP~elv~~LpaLC~~~~V-----Py~~v~sK~--eLG~avG--kk~~a~VAitd~g~eDk~~l~kLve~--- 214 (259)
+|+|-.|-.. .+..-|-+|-++-|+ |=|+...-+ -|.+.+| ++.|.+.|+.++...+..+...+-+.
T Consensus 3 ~vliR~Ds~~-Kil~ALaDleRyagiki~gkPrii~p~~aD~~~~~ilGe~R~k~~~aa~a~v~~~a~~aI~rIr~IHPP 81 (125)
T COG1844 3 IVLIRADSYD-KILTALADLERYAGIKIRGKPRIIPPELADEILSSILGEVRKKCKVAAVAEVEEPASKAIGRIRKIHPP 81 (125)
T ss_pred EEEEecCcHH-HHHHHHHHHHHhcCceeecCCcccChhhHHHHHHHHHHHHhcccchhheeeecCccHHHHHHHHhcCCC
Confidence 6778888655 344446677776665 444444332 2444555 55588888888877666555554331
Q ss_pred -----HHHhhhhhhHhhhhhcCCC
Q 025016 215 -----IKANFNDKYEELRKKWGGG 233 (259)
Q Consensus 215 -----i~~~y~d~y~e~~~~wgg~ 233 (259)
|...| |-|.|+.+.||+-
T Consensus 82 AHiIVIs~r~-dvy~el~~~fgkl 104 (125)
T COG1844 82 AHIIVISPRH-DVYKELLRLFGKL 104 (125)
T ss_pred ceEEEeCCCc-hHHHHHHHHhccc
Confidence 33567 8999999999973
No 46
>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=61.76 E-value=17 Score=27.24 Aligned_cols=19 Identities=26% Similarity=0.386 Sum_probs=14.1
Q ss_pred hhHHHHhhhcCCCEEEECC
Q 025016 161 VWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 161 ~~LpaLC~~~~VPy~~v~s 179 (259)
.|.--+|+.+|||+++--+
T Consensus 43 SH~aIlAr~~giP~ivg~~ 61 (80)
T PF00391_consen 43 SHAAILARELGIPAIVGVG 61 (80)
T ss_dssp SHHHHHHHHTT-EEEESTT
T ss_pred chHHHHHHHcCCCEEEeec
Confidence 5777899999999987443
No 47
>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=60.50 E-value=15 Score=31.41 Aligned_cols=48 Identities=19% Similarity=0.286 Sum_probs=35.2
Q ss_pred HHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 137 TYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 137 tk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
.+.+...+..+||.--|++..+--..|...-.+.|+|++.+-+|.++-
T Consensus 71 ~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a 118 (156)
T PF02421_consen 71 RDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEA 118 (156)
T ss_dssp HHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHH
T ss_pred HHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHH
Confidence 344557788899999998876655555566677899999888776543
No 48
>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=59.61 E-value=72 Score=26.11 Aligned_cols=69 Identities=9% Similarity=0.214 Sum_probs=43.4
Q ss_pred HHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHH
Q 025016 135 HVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKI 211 (259)
Q Consensus 135 ~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kL 211 (259)
.+....+.|.+++|+-+.|.+ ++.. |-..|+..|+|++.+.+--+-- +--.+.||+|+ |+.+....+++
T Consensus 40 ~~~~W~~~G~~KVvlk~~~~~--el~~-l~~~a~~~~l~~~~v~DAG~Te--i~pgs~Tvlai---gP~~~~~id~i 108 (115)
T TIGR00283 40 LRRKWLDEGQKKVVLKVNSLE--ELLE-IYHKAESLGLVTGLIRDAGHTQ--IPPGTITAVGI---GPDEDEKIDKI 108 (115)
T ss_pred HHHHHHHcCCCEEEEEeCCHH--HHHH-HHHHHHHcCCCEEEEEcCCcce--eCCCCcEEEEE---CCCCHHHHHHH
Confidence 345566788899999888753 4533 7788999999999886532210 11124577775 45455444444
No 49
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=58.10 E-value=48 Score=29.84 Aligned_cols=68 Identities=16% Similarity=0.231 Sum_probs=47.8
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEeecC
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLTTVK 201 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAitd~g 201 (259)
++.|.+.|..+++++ -++.+. ... ++ +. ..+-.+|++.+||+..+ +++.|-++++..+ -.++|+.+..
T Consensus 3 ~i~G~~~v~eal~~~-~~~~~~-~~~~~~-~~-~~~~~~~~~~~~~~~~v-~~~~l~~l~~~~~~qGv~a~~~~~ 72 (237)
T TIGR00186 3 YLYGKNAVLEALLNQ-QRVFIL-KGLESK-RL-KKLIQLAKKQGINIQLV-DRQKLDQLTKGGNHQGIAAKVKPI 72 (237)
T ss_pred EEEehHHHHHHHhCC-CEEEEE-ecCcch-HH-HHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEecC
Confidence 569999999999998 333332 222 22 22 33677888899999888 5778989888765 4677777653
No 50
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=57.83 E-value=41 Score=34.86 Aligned_cols=74 Identities=9% Similarity=0.120 Sum_probs=51.1
Q ss_pred CccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhhh
Q 025016 144 KAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFN 220 (259)
Q Consensus 144 KAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y~ 220 (259)
++.++|+..+- |.|+ .+|-.+|+..|.|.+.+.+.++|-.-.= +...+|+||-..+-.....+++++.++..++
T Consensus 206 ~~d~~~vvGg~~SsNt--~~L~~i~~~~~~~~~~ie~~~el~~~~~-~~~~~vgitagaStP~~~i~~v~~~l~~~~~ 280 (647)
T PRK00087 206 KVDVMIVVGGKNSSNT--TKLYEICKSNCTNTIHIENAGELPEEWF-KGVKIIGVTAGASTPDWIIEEVIKKMSELDN 280 (647)
T ss_pred hCCEEEEECCCCCccH--HHHHHHHHHHCCCEEEECChHHCCHHHh-CCCCEEEEEeccCCCHHHHHHHHHHHHHhcc
Confidence 45555555444 6665 4588999999999999999999965221 1235688887766555566777777766544
No 51
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=56.53 E-value=47 Score=27.13 Aligned_cols=88 Identities=8% Similarity=0.076 Sum_probs=51.8
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHH
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEF 208 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l 208 (259)
......++..+|.+|++..++.... . +..+...++.....+. +.... .....+++...+ ...+
T Consensus 137 ~~~~~~~~~~~l~~g~~d~~i~~~~----~----~~~~~~~~~~~~~~~~-----~~~~~-~~~~~~~~~~~~---~~l~ 199 (225)
T PF00497_consen 137 EVDSPEEALEALLSGRIDAFIVDES----T----AEYLLKRHPLENIVVI-----PPPIS-PSPVYFAVRKKN---PELL 199 (225)
T ss_dssp EESSHHHHHHHHHTTSSSEEEEEHH----H----HHHHHHHTTTCEEEEE-----EEEEE-EEEEEEEEETTT---HHHH
T ss_pred ccccHHHHHHHHhcCCeeeeeccch----h----hhhhhhhccccccccc-----ccccc-cceeEEeecccc---cHHH
Confidence 4578889999999999998876442 1 2344555555554443 11111 112334444333 3334
Q ss_pred HHHHHHHHHhhhh-hhHhhhhhcCCC
Q 025016 209 SKILEAIKANFND-KYEELRKKWGGG 233 (259)
Q Consensus 209 ~kLve~i~~~y~d-~y~e~~~~wgg~ 233 (259)
+.+=+.+...-.+ .|++|..+|+|.
T Consensus 200 ~~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 200 EIFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 4444555555555 789999999985
No 52
>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=54.60 E-value=25 Score=29.55 Aligned_cols=50 Identities=16% Similarity=0.151 Sum_probs=33.3
Q ss_pred HHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
.++..++..=.+-++||..+-.+......+..+|..+++|++++-+|-++
T Consensus 85 ~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D~ 134 (188)
T PF00009_consen 85 KEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMDL 134 (188)
T ss_dssp HHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCTS
T ss_pred ecccceecccccceeeeecccccccccccccccccccccceEEeeeeccc
Confidence 34555655555666666665445444555778899999999888887765
No 53
>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=54.51 E-value=29 Score=27.05 Aligned_cols=46 Identities=20% Similarity=0.237 Sum_probs=35.1
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCC-chhhHhhHHHHhhhcCCCEEE
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVD-PIELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~Dvs-P~elv~~LpaLC~~~~VPy~~ 176 (259)
.|..++...|++++..+||-..+-. +..-...+..+|-++||||+.
T Consensus 54 ~~~~~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 54 EGRPNIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred CCchhHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 4678899999999999998865521 111234589999999999974
No 54
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=54.07 E-value=1e+02 Score=27.63 Aligned_cols=57 Identities=23% Similarity=0.211 Sum_probs=41.9
Q ss_pred ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc----chhhhhcCCceEEEEEeecCccc
Q 025016 145 AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS----RLGSIVHKKTASVLCLTTVKNED 204 (259)
Q Consensus 145 AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~----eLG~avGkk~~a~VAitd~g~eD 204 (259)
+-|||+|.|= .++-..+-..|+.++||+-.+...+ -++..+++.. ..|||...|.+-
T Consensus 73 ~~lviaAt~d--~~ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~~-l~iaIsT~G~sP 133 (210)
T COG1648 73 AFLVIAATDD--EELNERIAKAARERRILVNVVDDPELCDFIFPAIVDRGP-LQIAISTGGKSP 133 (210)
T ss_pred ceEEEEeCCC--HHHHHHHHHHHHHhCCceeccCCcccCceecceeeccCC-eEEEEECCCCCh
Confidence 8999999884 3566778899999999997766544 2445556665 678888887543
No 55
>PRK10864 putative methyltransferase; Provisional
Probab=52.84 E-value=61 Score=31.46 Aligned_cols=70 Identities=16% Similarity=0.135 Sum_probs=49.3
Q ss_pred eeecchHHHHHHHHhC--CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEeec
Q 025016 128 VVKYGLNHVTYLIEQN--KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLTTV 200 (259)
Q Consensus 128 ~l~~G~n~Vtk~Iekk--KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAitd~ 200 (259)
.++.|.+.|..+++++ ...-+++....++ .. ..+..++...+++|..| +.++|-++++..+ -.++|++..
T Consensus 109 ~~I~G~~aV~ealk~~~~~i~~l~~~~~~~~-~~-~~il~~~~~~~~~v~~V-~~~~l~kls~~~~hqGV~A~v~~ 181 (346)
T PRK10864 109 TRVYGENACQALFQSRPEAIVRAWFIQSVTP-RF-KEALRWMAANRKAYHVV-DEAELTKASGTEHHGGVCFLIKK 181 (346)
T ss_pred cEEEEHHHHHHHHhCCCCceeEEEEecCccH-HH-HHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEeC
Confidence 4789999999999874 3556667777765 22 33556677788998665 6677999888765 345666554
No 56
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=52.04 E-value=20 Score=32.82 Aligned_cols=86 Identities=12% Similarity=0.196 Sum_probs=59.8
Q ss_pred CCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCE--EEECC--ccchhhhhcCCceEEEEEee
Q 025016 124 KKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPY--CIVKG--KSRLGSIVHKKTASVLCLTT 199 (259)
Q Consensus 124 kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy--~~v~s--K~eLG~avGkk~~a~VAitd 199 (259)
++|+.+.-|+.+..+.+...-+++++|..-..+ .+.-.+...|||+ |+... =...|...|-++.- .+.|
T Consensus 84 ~~k~~lT~Gi~eLv~~L~~~~~~v~liSGGF~~-----~i~~Va~~Lgi~~~n~yAN~l~fd~~Gk~~gfd~~~--ptsd 156 (227)
T KOG1615|consen 84 KQKPTLTPGIRELVSRLHARGTQVYLISGGFRQ-----LIEPVAEQLGIPKSNIYANELLFDKDGKYLGFDTNE--PTSD 156 (227)
T ss_pred cCCCccCCCHHHHHHHHHHcCCeEEEEcCChHH-----HHHHHHHHhCCcHhhhhhheeeeccCCcccccccCC--cccc
Confidence 567789999999999999999999999987654 2444568889999 54322 12467777766411 1123
Q ss_pred cCcccHHHHHHHHHHHHHhhhh
Q 025016 200 VKNEDKMEFSKILEAIKANFND 221 (259)
Q Consensus 200 ~g~eDk~~l~kLve~i~~~y~d 221 (259)
.+ --++.+..++.|||+
T Consensus 157 sg-----gKa~~i~~lrk~~~~ 173 (227)
T KOG1615|consen 157 SG-----GKAEVIALLRKNYNY 173 (227)
T ss_pred CC-----ccHHHHHHHHhCCCh
Confidence 32 235777778888874
No 57
>PRK10637 cysG siroheme synthase; Provisional
Probab=51.89 E-value=52 Score=32.53 Aligned_cols=78 Identities=10% Similarity=0.109 Sum_probs=49.2
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhh-----hhcCCceEEEEEeecCcccHHHHHHHHHHHHHh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGS-----IVHKKTASVLCLTTVKNEDKMEFSKILEAIKAN 218 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~-----avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~ 218 (259)
.+.|||+|.|- .++-..+-..|+..+|++..+.+. +++. .+-+. .-+|||...|..-. .-..|-+.+.+.
T Consensus 72 ~~~lv~~at~d--~~~n~~i~~~a~~~~~lvN~~d~~-~~~~f~~pa~~~~g-~l~iaisT~G~sP~-~a~~lr~~ie~~ 146 (457)
T PRK10637 72 TCWLAIAATDD--DAVNQRVSEAAEARRIFCNVVDAP-KAASFIMPSIIDRS-PLMVAVSSGGTSPV-LARLLREKLESL 146 (457)
T ss_pred CCEEEEECCCC--HHHhHHHHHHHHHcCcEEEECCCc-ccCeEEEeeEEecC-CEEEEEECCCCCcH-HHHHHHHHHHHh
Confidence 47889888763 256677899999999998666554 3442 22333 46788887775432 334455666666
Q ss_pred hhhhhHhh
Q 025016 219 FNDKYEEL 226 (259)
Q Consensus 219 y~d~y~e~ 226 (259)
|.+.|+++
T Consensus 147 ~~~~~~~~ 154 (457)
T PRK10637 147 LPQHLGQV 154 (457)
T ss_pred cchhHHHH
Confidence 65555543
No 58
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=51.84 E-value=40 Score=29.74 Aligned_cols=49 Identities=14% Similarity=0.191 Sum_probs=33.4
Q ss_pred HHHHHHHHhCCccEEEEeCCCCc--hhhHhhHHHHhhhcCCCEEEECCccc
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDP--IELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP--~elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
..+...+.+.++.+||++.|+.. .+...++..+.+..++|++++.+.-+
T Consensus 22 ~~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v~GNHD 72 (239)
T TIGR03729 22 ETLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFNAGNHD 72 (239)
T ss_pred HHHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEECCCCC
Confidence 44566666677999999999864 22234455666556799988776555
No 59
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=51.66 E-value=18 Score=33.91 Aligned_cols=74 Identities=16% Similarity=0.229 Sum_probs=41.9
Q ss_pred ccCChhhHHHHHhhhhcCCccc------HHHHHHHHHHHHHHHHc---CCCCc--------cCCCceeecchHHHHHHHH
Q 025016 79 KTLDKNLASSLFKLLLKYRPED------RAAKKERLLKRAQAEAE---GKTVE--------AKKPIVVKYGLNHVTYLIE 141 (259)
Q Consensus 79 ~~ld~~~a~~l~kl~~kyrPe~------k~eK~~rLl~lA~kkaa---Gk~~~--------~kkp~~l~~G~n~Vtk~Ie 141 (259)
..+..+-...+.+|.+||.|=. .+||..-+...-.+..+ |.+.. ......+.-|..+....++
T Consensus 55 ~~~~~~~~~~~~~l~~~Y~PiE~d~~~~~~eK~~~m~eWw~k~~~l~~~~~~~~e~i~~~v~~~~l~l~pG~~efl~~L~ 134 (277)
T TIGR01544 55 KLLTDECRKKLLQLKEKYYPIEVDPVLTVEEKYPYMVEWWTKSHGLLVQQAFPKAKIKEIVAESDVMLKDGYENFFDKLQ 134 (277)
T ss_pred CCCCHHHHHHHHHHHhhccceecCCCCChHHhhhHHHHHHHHHHHHHhcCCCCHHHHHHHHhhcCCccCcCHHHHHHHHH
Confidence 4456677888999999999954 45777666665544211 11000 0123345556666666665
Q ss_pred hCCccEEEEeC
Q 025016 142 QNKAQLVVIAH 152 (259)
Q Consensus 142 kkKAkLVVIA~ 152 (259)
.....++|+..
T Consensus 135 ~~GIpv~IvS~ 145 (277)
T TIGR01544 135 QHSIPVFIFSA 145 (277)
T ss_pred HCCCcEEEEeC
Confidence 55555554443
No 60
>PF01601 Corona_S2: Coronavirus S2 glycoprotein; InterPro: IPR002552 The type I glycoprotein S of Coronavirus, trimers of which constitute the typical viral spikes, is assembled into virions through noncovalent interactions with the M protein. The spike glycoprotein is translated as a large polypeptide that is subsequently cleaved to S1 IPR002551 from INTERPRO and S2 []. Both chimeric S proteins appeared to cause cell fusion when expressed individually, suggesting that they were biologically fully active []. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich (cys) domain that bridges the putative junction of the anchor and the cytoplasmic tail [].; GO: 0006944 cellular membrane fusion, 0046813 virion attachment, binding of host cell surface receptor, 0016021 integral to membrane, 0019031 viral envelope; PDB: 2BEQ_B 2FXP_A 1ZVB_A 1WNC_D 1ZV8_H 1ZV7_B 1WYY_B 1ZVA_A 2BEZ_F 1WDG_A ....
Probab=51.61 E-value=4.6 Score=41.79 Aligned_cols=13 Identities=31% Similarity=0.889 Sum_probs=3.6
Q ss_pred cccccccchhhHh
Q 025016 45 LHRYVKWPKAIRI 57 (259)
Q Consensus 45 l~~fvkwp~yi~l 57 (259)
...|+|||-||||
T Consensus 540 ~e~YiKWPWyVWL 552 (610)
T PF01601_consen 540 YETYIKWPWYVWL 552 (610)
T ss_dssp CCCHH--------
T ss_pred eeEEeehHHHHHH
Confidence 4579999999997
No 61
>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=51.50 E-value=20 Score=29.39 Aligned_cols=36 Identities=17% Similarity=0.277 Sum_probs=22.3
Q ss_pred HHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC
Q 025016 140 IEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 140 IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~ 178 (259)
+-....-.||++.|..|.+ .+..+|++++||++...
T Consensus 77 l~~~~~P~iIvt~~~~~p~---~l~e~a~~~~ipll~t~ 112 (127)
T PF02603_consen 77 LFSYNPPCIIVTRGLEPPP---ELIELAEKYNIPLLRTP 112 (127)
T ss_dssp HCTTT-S-EEEETTT---H---HHHHHHHHCT--EEEES
T ss_pred HhCCCCCEEEEECcCCCCH---HHHHHHHHhCCcEEEcC
Confidence 3345566779999997653 47889999999998755
No 62
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=51.20 E-value=85 Score=27.59 Aligned_cols=79 Identities=15% Similarity=0.190 Sum_probs=47.0
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhh----cCCceEEEEEeecCcccHHHHHHHHHHHHHhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIV----HKKTASVLCLTTVKNEDKMEFSKILEAIKANF 219 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~av----Gkk~~a~VAitd~g~eDk~~l~kLve~i~~~y 219 (259)
.+.+||.|.|-+. +-..+-..| ..+++|..+.+ .++|..+ ...-.-+|||+..|..- .....|-+.+.+.|
T Consensus 70 ~adlViaaT~d~e--lN~~i~~~a-~~~~lvn~~d~-~~~~~f~~Pa~~~~g~l~iaIsT~G~sP-~la~~lr~~ie~~~ 144 (202)
T PRK06718 70 DAFLVIAATNDPR--VNEQVKEDL-PENALFNVITD-AESGNVVFPSALHRGKLTISVSTDGASP-KLAKKIRDELEALY 144 (202)
T ss_pred CceEEEEcCCCHH--HHHHHHHHH-HhCCcEEECCC-CccCeEEEeeEEEcCCeEEEEECCCCCh-HHHHHHHHHHHHHc
Confidence 4788888877543 445577889 55788766544 4455322 22224678888777533 22344446666666
Q ss_pred hhhhHhhh
Q 025016 220 NDKYEELR 227 (259)
Q Consensus 220 ~d~y~e~~ 227 (259)
-+.|+++.
T Consensus 145 ~~~~~~~~ 152 (202)
T PRK06718 145 DESYESYI 152 (202)
T ss_pred chhHHHHH
Confidence 66666544
No 63
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=50.86 E-value=59 Score=32.17 Aligned_cols=76 Identities=16% Similarity=0.155 Sum_probs=52.9
Q ss_pred CccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhh------------------hhcCCceEEEEEeecCccc
Q 025016 144 KAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGS------------------IVHKKTASVLCLTTVKNED 204 (259)
Q Consensus 144 KAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~------------------avGkk~~a~VAitd~g~eD 204 (259)
++.++||-.+- |.|+ .+|-.+|+..+.|...|.+.++|-. ++-. ...+|+||-.-+-.
T Consensus 288 ~vD~miVVGG~nSSNT--~rL~eia~~~g~~ty~Ie~~~eL~~~~~i~h~~~~~~~~~t~~wl~~-~~~~VGITAGASTP 364 (387)
T PRK13371 288 PLDLMVVIGGYNSSNT--THLQEIAIERGIPSYHIDSPERILSGNSIEHKPLGKELVVTENWLPE-GPVTVGITSGASTP 364 (387)
T ss_pred CCCEEEEECCCCCccH--HHHHHHHHhcCCCEEEECCHHHcCCccccccccccchhhhhhhhhcc-CCCEEEEecCCCCC
Confidence 34555444444 5565 5588999999999999999999964 3311 24579999766655
Q ss_pred HHHHHHHHHHHHHhhhhh
Q 025016 205 KMEFSKILEAIKANFNDK 222 (259)
Q Consensus 205 k~~l~kLve~i~~~y~d~ 222 (259)
....+++++.++..|-|.
T Consensus 365 ~~lI~eVi~~l~~l~~~~ 382 (387)
T PRK13371 365 DKVVEDVIEKIFALKEDA 382 (387)
T ss_pred HHHHHHHHHHHHHhhccc
Confidence 556678888887777554
No 64
>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=50.37 E-value=36 Score=33.02 Aligned_cols=55 Identities=16% Similarity=0.160 Sum_probs=45.7
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
+..+.++....+++..+.-|+||.+-...+....+-..|+.++|++..+.+-.++
T Consensus 173 Vlg~~~~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~vP~~~e~ 227 (445)
T TIGR03025 173 VLGKLDDLVELVRAHRVDEVIIALPLSEEARILELLLQLRDLGVDVRLVPDLFEF 227 (445)
T ss_pred ccCCHHHHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhcCCEEEEeCchhhh
Confidence 3345678899999999999999987766666677889999999999999987765
No 65
>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=49.91 E-value=34 Score=33.20 Aligned_cols=56 Identities=16% Similarity=0.135 Sum_probs=45.9
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
+..+.++..+.+++..+.-|+||.+....+....+-..|+.++|++..+.+-.++.
T Consensus 176 Vlg~~~dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~vvP~~~e~~ 231 (451)
T TIGR03023 176 VLGKLDDLEELIREGEVDEVYIALPLAAEDRILELLDALEDLTVDVRLVPDLFDFA 231 (451)
T ss_pred ccCCHHHHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 44557889999999999999999877665556778899999999999998866553
No 66
>KOG1402 consensus Ornithine aminotransferase [Amino acid transport and metabolism]
Probab=49.40 E-value=38 Score=33.47 Aligned_cols=82 Identities=18% Similarity=0.255 Sum_probs=45.1
Q ss_pred hhHhhHHHHhhhcCCCEEE--E-------------------CCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHH
Q 025016 158 ELVVWLPALCRKMEIPYCI--V-------------------KGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIK 216 (259)
Q Consensus 158 elv~~LpaLC~~~~VPy~~--v-------------------~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~ 216 (259)
........||.+|+|=++- | .+---||.+++-...-+-|+... ++++
T Consensus 228 GYL~~vreLCtkynvl~I~DEvQTGl~RTGk~la~d~env~PDivilgKalSGG~~Pvsavl~~--------~~im---- 295 (427)
T KOG1402|consen 228 GYLKKVRELCTKYNVLLIADEVQTGLARTGKLLACDYENVRPDIVILGKALSGGVYPVSAVLAD--------DDIM---- 295 (427)
T ss_pred hhHHHHHHHHHhhcEEEEehhhhhcccccCcEEEeehhhcCCCeEEEeccccCCeeeeEEEEec--------HHHH----
Confidence 4556689999999987662 1 12223444444333111122211 1222
Q ss_pred HhhhhhhHhhhhhcCCCCCCchhHHHHHHHHHHHHHHHH
Q 025016 217 ANFNDKYEELRKKWGGGIMGSKSQAKTKAKEKLLAKEAA 255 (259)
Q Consensus 217 ~~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~k~~~~e~~ 255 (259)
.+|+- .|+-..+|||-||.. .-||.+|=..+..|+
T Consensus 296 ~~~~p--geHgsTyggNpLg~~--vaiAalevi~eekL~ 330 (427)
T KOG1402|consen 296 LNIKP--GEHGSTYGGNPLGCA--VAIAALEVIVEEKLV 330 (427)
T ss_pred hccCC--CccccccCCChHHHH--HHHHHHHHHHHHHHH
Confidence 33543 467889999999954 456666655444443
No 67
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=48.94 E-value=38 Score=32.25 Aligned_cols=46 Identities=24% Similarity=0.399 Sum_probs=32.3
Q ss_pred hHHHHHHHHhCCccEEEEeCCCC------chh---hHhhHHHHhhhcCCCEEEECC
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVD------PIE---LVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~Dvs------P~e---lv~~LpaLC~~~~VPy~~v~s 179 (259)
..+++..++..++.+||||+|+= +.. ....|..||. -+||++.+.+
T Consensus 29 f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~-~~Ipv~~I~G 83 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKD-AGIPVVVIAG 83 (390)
T ss_pred HHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhcc-CCCcEEEecC
Confidence 56777888888899999999983 222 2344555554 6799887664
No 68
>cd02430 PTH2 Peptidyl-tRNA hydrolase, type 2 (PTH2). Peptidyl-tRNA hydrolase (PTH) activity releases tRNA from the premature translation termination product peptidyl-tRNA, therefore allowing the tRNA and peptide to be reused in protein synthesis. PTH2 is present in archaea and eukaryotes.
Probab=48.26 E-value=1.2e+02 Score=24.72 Aligned_cols=69 Identities=14% Similarity=0.232 Sum_probs=41.2
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHH
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKIL 212 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLv 212 (259)
+......|..+.|+-+.|. .++.. |-..++..|||++.|.+--.- =+--.+.||+|+ |+.+...++++.
T Consensus 41 ~~~W~~~G~~KiVl~~~~~--~el~~-l~~~a~~~~l~~~~v~DAG~T--ev~~gt~T~lai---gP~~~~~i~~it 109 (115)
T cd02430 41 LRAWEREGQKKIVLKVNSE--EELLE-LKKKAKSLGLPTSLIQDAGRT--QIAPGTITVLGI---GPAPEELIDKVT 109 (115)
T ss_pred HHHHHhcCCcEEEEecCCH--HHHHH-HHHHHHHcCCCeEEEEeCCCc--ccCCCCceEEEe---CCCCHHHHHHhh
Confidence 3445567777788777774 34533 788889999999988642110 111234677775 444444444443
No 69
>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.
Probab=45.91 E-value=37 Score=27.41 Aligned_cols=37 Identities=24% Similarity=0.273 Sum_probs=29.8
Q ss_pred CCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 143 NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 143 kKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
....+||.+.|-. +....+-.+|++.++|++...+..
T Consensus 88 ~~~diVi~~~d~~--~~~~~l~~~~~~~~i~~i~~~~~g 124 (143)
T cd01483 88 DGVDLVIDAIDNI--AVRRALNRACKELGIPVIDAGGLG 124 (143)
T ss_pred cCCCEEEECCCCH--HHHHHHHHHHHHcCCCEEEEcCCC
Confidence 4688999999973 345668999999999999988743
No 70
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=44.75 E-value=68 Score=31.99 Aligned_cols=87 Identities=21% Similarity=0.273 Sum_probs=64.4
Q ss_pred cchHHHHHHH--------HhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEee-c
Q 025016 131 YGLNHVTYLI--------EQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLTT-V 200 (259)
Q Consensus 131 ~G~n~Vtk~I--------ekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAitd-~ 200 (259)
.|+--+|++- ..++-++-||.-|.--+-=+.-|..+|+-||||++.+.+..+|-.++.-=. |= +.++| .
T Consensus 212 TGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~d-~ILVDTa 290 (407)
T COG1419 212 TGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDCD-VILVDTA 290 (407)
T ss_pred CCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcCC-EEEEeCC
Confidence 4555555542 578888999999998887788899999999999999999999998887543 43 33444 2
Q ss_pred --CcccHHHHHHHHHHHHHh
Q 025016 201 --KNEDKMEFSKILEAIKAN 218 (259)
Q Consensus 201 --g~eDk~~l~kLve~i~~~ 218 (259)
+.-|....++|.+.++..
T Consensus 291 Grs~~D~~~i~el~~~~~~~ 310 (407)
T COG1419 291 GRSQYDKEKIEELKELIDVS 310 (407)
T ss_pred CCCccCHHHHHHHHHHHhcc
Confidence 235666677777776643
No 71
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=44.38 E-value=2.6e+02 Score=26.12 Aligned_cols=102 Identities=13% Similarity=0.128 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHH-------hCCccEEEEeCC---CCchhhHhhHHHHhhhc-CCCE
Q 025016 106 ERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIE-------QNKAQLVVIAHD---VDPIELVVWLPALCRKM-EIPY 174 (259)
Q Consensus 106 ~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~Ie-------kkKAkLVVIA~D---vsP~elv~~LpaLC~~~-~VPy 174 (259)
.+++..+.+.++|+ -|.++-.|.+.+..+++ .|--.++|++.- .++.++..|+.++|+.- ++|+
T Consensus 64 ~~v~~~~~~~~~gr-----vpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lPv 138 (309)
T cd00952 64 QAFVATVVETVAGR-----VPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAI 138 (309)
T ss_pred HHHHHHHHHHhCCC-----CCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCcE
Confidence 45555555544554 34444344333433333 244456666553 35678999999999999 6999
Q ss_pred EEECCcc---------chhhhhcCCceEEEEEeecCcccHHHHHHHHHHHH
Q 025016 175 CIVKGKS---------RLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIK 216 (259)
Q Consensus 175 ~~v~sK~---------eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~ 216 (259)
+++.--. -|.+++ +...+++|-|.+ |-..+..+++..+
T Consensus 139 ~iYn~P~~tg~~l~~~~l~~L~--~~pnivgiKdss--d~~~~~~~i~~~~ 185 (309)
T cd00952 139 AIYANPEAFKFDFPRAAWAELA--QIPQVVAAKYLG--DIGALLSDLAAVK 185 (309)
T ss_pred EEEcCchhcCCCCCHHHHHHHh--cCCCEEEEEecC--ChHHHHHHHHHcC
Confidence 8763322 234444 234678888864 6666666666554
No 72
>PF14367 DUF4411: Domain of unknown function (DUF4411)
Probab=44.05 E-value=35 Score=29.00 Aligned_cols=31 Identities=19% Similarity=0.463 Sum_probs=21.8
Q ss_pred EEEeCCCCc-hhh--HhhHHHHhhhcCCCEEEEC
Q 025016 148 VVIAHDVDP-IEL--VVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 148 VVIA~DvsP-~el--v~~LpaLC~~~~VPy~~v~ 178 (259)
+||.+.... +.- ...||+.|+..||||+...
T Consensus 119 ~VVT~E~~~~~~~~~~~KIPdvC~~~gV~ci~~~ 152 (162)
T PF14367_consen 119 TVVTHEVSNPNKKKKKIKIPDVCEHFGVPCINLF 152 (162)
T ss_pred EEEccCCCCCCCCccCCCCChhHHhCCCcCCCHH
Confidence 667777652 211 3568999999999998544
No 73
>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=42.98 E-value=94 Score=29.26 Aligned_cols=70 Identities=6% Similarity=0.134 Sum_probs=41.8
Q ss_pred CCccEEEEeCC-CCchhhHhhHHHHhhhcCCCEEEECCccchhh-hhcCCceEEEEEeecCcccHHHHHHHHHHHH
Q 025016 143 NKAQLVVIAHD-VDPIELVVWLPALCRKMEIPYCIVKGKSRLGS-IVHKKTASVLCLTTVKNEDKMEFSKILEAIK 216 (259)
Q Consensus 143 kKAkLVVIA~D-vsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~-avGkk~~a~VAitd~g~eDk~~l~kLve~i~ 216 (259)
+++.++|+-.+ =|.|+ .+|-.+|++++.|.+.+.+-++|=. ++.. +..|+||-.-+-...-.+++++.++
T Consensus 208 ~~vD~miVIGg~~SsNT--~kL~eia~~~~~~t~~Ie~~~el~~~~l~~--~~~VGItaGASTP~~ii~eVi~~l~ 279 (281)
T PF02401_consen 208 KEVDAMIVIGGKNSSNT--RKLAEIAKEHGKPTYHIETADELDPEWLKG--VKKVGITAGASTPDWIIEEVIDRLE 279 (281)
T ss_dssp CCSSEEEEES-TT-HHH--HHHHHHHHHCTTCEEEESSGGG--HHHHTT---SEEEEEE-TTS-HHHHHHHHHHHH
T ss_pred hhCCEEEEecCCCCccH--HHHHHHHHHhCCCEEEeCCccccCHhHhCC--CCEEEEEccCCCCHHHHHHHHHHHh
Confidence 34555555544 45554 4588999999999999999999953 2222 3478888776544444455554443
No 74
>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=41.62 E-value=28 Score=30.45 Aligned_cols=39 Identities=26% Similarity=0.412 Sum_probs=29.5
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
...+||.+.|- .+...++-.+|++++||++...+..-.|
T Consensus 113 ~~dvVi~~~d~--~~~~~~ln~~c~~~~ip~i~~~~~G~~G 151 (198)
T cd01485 113 KFTLVIATEEN--YERTAKVNDVCRKHHIPFISCATYGLIG 151 (198)
T ss_pred CCCEEEECCCC--HHHHHHHHHHHHHcCCCEEEEEeecCEE
Confidence 46788877653 4566779999999999999987654444
No 75
>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=41.53 E-value=50 Score=25.84 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=28.0
Q ss_pred CCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 143 NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 143 kKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
..+.+||+.-|++..+-...+...+...++|++++.+|.+|
T Consensus 73 ~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl 113 (158)
T cd01879 73 EKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDE 113 (158)
T ss_pred CCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhh
Confidence 45677777777765433223334456679999999999887
No 76
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=41.46 E-value=63 Score=32.05 Aligned_cols=54 Identities=13% Similarity=-0.044 Sum_probs=44.7
Q ss_pred ecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 130 KYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 130 ~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
..+.+++.+.+++..+.-|+||.+....+....+-..|+..+|++.++.+-.++
T Consensus 189 lG~~~dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~~v~V~ivP~l~~~ 242 (463)
T PRK10124 189 AGNLQQLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADTTCSVLLIPDVFTF 242 (463)
T ss_pred CCCHHHHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHcCCeEEEecchhhc
Confidence 345577889999999999999998766666677889999999999999886644
No 77
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=41.18 E-value=88 Score=29.76 Aligned_cols=72 Identities=13% Similarity=0.180 Sum_probs=48.3
Q ss_pred CccEEE-EeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHh
Q 025016 144 KAQLVV-IAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKAN 218 (259)
Q Consensus 144 KAkLVV-IA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~ 218 (259)
++.++| |..-=|.|+ .+|-.+|+..+.|.+.+.+.++|-...=. ....|+||-.-+-.....+++++.++..
T Consensus 210 ~vD~miVVGg~~SsNT--~kL~~i~~~~~~~t~~Ie~~~el~~~~l~-~~~~VGitaGASTP~~li~eV~~~l~~~ 282 (298)
T PRK01045 210 QADLVIVVGSKNSSNS--NRLREVAEEAGAPAYLIDDASEIDPEWFK-GVKTVGVTAGASAPEWLVQEVIARLKEL 282 (298)
T ss_pred hCCEEEEECCCCCccH--HHHHHHHHHHCCCEEEECChHHCcHHHhc-CCCEEEEEecCCCCHHHHHHHHHHHHHh
Confidence 344444 444446665 45889999999999999999999742212 2467888876665555556666666543
No 78
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=40.90 E-value=2e+02 Score=23.39 Aligned_cols=55 Identities=4% Similarity=0.125 Sum_probs=33.9
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC-ccchhhhhcCCc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG-KSRLGSIVHKKT 191 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s-K~eLG~avGkk~ 191 (259)
++.+.+.......++|.|..|-++.++ ...++++++||..+.+ ..++.+..|...
T Consensus 83 l~~~~~~~~~~~~~vi~i~~d~~~~~~----~~~~~~~~~~~~~~~d~~~~~~~~~~v~~ 138 (173)
T PRK03147 83 MNELYPKYKEKGVEIIAVNVDETELAV----KNFVNRYGLTFPVAIDKGRQVIDAYGVGP 138 (173)
T ss_pred HHHHHHHhhcCCeEEEEEEcCCCHHHH----HHHHHHhCCCceEEECCcchHHHHcCCCC
Confidence 334444444455778888877665443 4455778888776544 456777777654
No 79
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=40.71 E-value=1.9e+02 Score=26.57 Aligned_cols=71 Identities=15% Similarity=0.196 Sum_probs=51.5
Q ss_pred eeecchHHHHHHHHhC-CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCc-eEEEEEeecC
Q 025016 128 VVKYGLNHVTYLIEQN-KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT-ASVLCLTTVK 201 (259)
Q Consensus 128 ~l~~G~n~Vtk~Iekk-KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~-~a~VAitd~g 201 (259)
.++.|.+.|..+++++ ...=+++..+..+ . ...+.......++||..+.. ..|-.+.+..+ -.++++.+..
T Consensus 22 ~~~~G~~~v~~al~~~~~i~~i~~~~~~~~-~-~~~~~~~~~~~~~~~~~v~~-~~l~~~~~~~~hqGi~a~~~~~ 94 (260)
T COG0566 22 FLIEGEHAVLEALASGPKIVRILVTEGRLP-R-FEELLALAAAKGIPVYVVSE-AILDKLSGTENHQGIVAVVKKR 94 (260)
T ss_pred EEEeeHHHHHHHHhcCCCceEEEEecccch-h-HHHHHHHHHhcCCeEEEECH-HHHHHHhCCCCCCeEEEEEecc
Confidence 6899999999999999 7888888888872 2 34477888889999977654 55666655443 3455555443
No 80
>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=40.30 E-value=60 Score=28.87 Aligned_cols=49 Identities=18% Similarity=0.203 Sum_probs=30.3
Q ss_pred HHHHHHHhCC--ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 135 HVTYLIEQNK--AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 135 ~Vtk~IekkK--AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
++...+.... .-++||..|-.+......+-.+|..+++|++++-+|.++
T Consensus 100 ~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~ 150 (224)
T cd04165 100 TTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDL 150 (224)
T ss_pred HHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 3444444223 334445444344444455677889999999998888876
No 81
>COG4029 Uncharacterized protein conserved in archaea [Function unknown]
Probab=40.11 E-value=81 Score=26.86 Aligned_cols=58 Identities=28% Similarity=0.347 Sum_probs=39.5
Q ss_pred CCccEEEEeC--CCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhhh
Q 025016 143 NKAQLVVIAH--DVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFN 220 (259)
Q Consensus 143 kKAkLVVIA~--DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y~ 220 (259)
+..+.+|||. -++|.+++.+|- ..+-| ++|++ +|.+.+-.|+||. ..++++-||+.+-
T Consensus 4 ~vtk~ivlapsa~vsp~elv~~l~----~~~~P-vtiKe-------------TCfGaii~G~Ed~--v~klveriR~~d~ 63 (142)
T COG4029 4 NVTKYIVLAPSAGVSPKELVQKLL----ELSPP-VTIKE-------------TCFGAIIDGPEDE--VRKLVERIRELDG 63 (142)
T ss_pred cceEEEEEcCccCcChHHHHHHHH----hcCCC-eEeee-------------eeeeeeecCcHHH--HHHHHHHHHHhcc
Confidence 3456788883 358988888764 44577 44443 6666666676654 7899999997653
No 82
>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=39.81 E-value=86 Score=25.20 Aligned_cols=48 Identities=15% Similarity=0.124 Sum_probs=32.0
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
+..+.+.|-+.|+|-..+--+ ++-..+.++|+++++|++.+.....+.
T Consensus 65 i~~L~~~~~agL~i~~~~~~~-~iP~~~i~~A~~~~lPli~ip~~~~f~ 112 (123)
T PF07905_consen 65 IRELAEKGAAGLGIKTGRYLD-EIPEEIIELADELGLPLIEIPWEVPFS 112 (123)
T ss_pred HHHHHHCCCeEEEEeccCccc-cCCHHHHHHHHHcCCCEEEeCCCCCHH
Confidence 344455566777774442222 455667899999999999988755444
No 83
>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=39.19 E-value=36 Score=26.32 Aligned_cols=39 Identities=18% Similarity=0.304 Sum_probs=24.5
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~ 178 (259)
...+++.+ +..||+..+..|.+- +..+|++.+||++.+.
T Consensus 54 ~~~a~~~~-i~~iIltg~~~~~~~---v~~la~~~~i~vi~t~ 92 (105)
T PF07085_consen 54 QLAAIEAG-IACIILTGGLEPSEE---VLELAKELGIPVISTP 92 (105)
T ss_dssp HHHHCCTT-ECEEEEETT----HH---HHHHHHHHT-EEEE-S
T ss_pred HHHHHHhC-CCEEEEeCCCCCCHH---HHHHHHHCCCEEEEEC
Confidence 34444555 888889988877644 5689999999998766
No 84
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=38.43 E-value=1.1e+02 Score=28.77 Aligned_cols=52 Identities=29% Similarity=0.362 Sum_probs=36.8
Q ss_pred chHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcC
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHK 189 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGk 189 (259)
-.+-+..+++++ +++||||.|..- ..-|+.|=++++||++-+- ...-.|+..
T Consensus 56 ~~~i~~~l~~~~-ik~lVIACNTAS---a~al~~LR~~~~iPVvGvi--Paik~A~~~ 107 (269)
T COG0796 56 TLEIVDFLLERG-IKALVIACNTAS---AVALEDLREKFDIPVVGVI--PAIKPAVAL 107 (269)
T ss_pred HHHHHHHHHHcC-CCEEEEecchHH---HHHHHHHHHhCCCCEEEec--cchHHHHHh
Confidence 355666777788 999999999743 2447999999999998544 334444433
No 85
>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=38.38 E-value=54 Score=30.83 Aligned_cols=41 Identities=24% Similarity=0.359 Sum_probs=31.0
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSI 186 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~a 186 (259)
+..+||++.| +. +...++-.+|++.+||++...+..-.|++
T Consensus 105 ~fdvVV~~~~-~~-~~~~~in~~c~~~~ipfI~a~~~G~~G~v 145 (286)
T cd01491 105 KFQVVVLTDA-SL-EDQLKINEFCHSPGIKFISADTRGLFGSI 145 (286)
T ss_pred cCCEEEEecC-CH-HHHHHHHHHHHHcCCEEEEEeccccEEEE
Confidence 4568877766 44 55577999999999999988876666653
No 86
>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=38.32 E-value=1.4e+02 Score=28.13 Aligned_cols=69 Identities=12% Similarity=0.154 Sum_probs=45.0
Q ss_pred CccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHH
Q 025016 144 KAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAI 215 (259)
Q Consensus 144 KAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i 215 (259)
++.++|+-.+- |.|+ .+|-.+|+..+.|.+.+.+.++|....=.. ...|+||-.-+-.....+++++.+
T Consensus 208 ~vD~miVVGg~nSsNT--~rL~ei~~~~~~~t~~Ie~~~el~~~~l~~-~~~VGiTAGASTP~~li~eVi~~l 277 (280)
T TIGR00216 208 EVDLMIVIGGKNSSNT--TRLYEIAEEHGPPSYLIETAEELPEEWLKG-VKVVGITAGASTPDWIIEEVIRKI 277 (280)
T ss_pred hCCEEEEECCCCCchH--HHHHHHHHHhCCCEEEECChHHCCHHHhCC-CCEEEEEecCCCCHHHHHHHHHHH
Confidence 35555554444 5665 458899999999999999999997432222 345888876654444445555444
No 87
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=38.25 E-value=1e+02 Score=28.47 Aligned_cols=86 Identities=21% Similarity=0.303 Sum_probs=53.0
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEE-EC-C--ccchhhhhcCCc--e---EEEEEeecC
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCI-VK-G--KSRLGSIVHKKT--A---SVLCLTTVK 201 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~-v~-s--K~eLG~avGkk~--~---a~VAitd~g 201 (259)
.|++...+...+--+.=|+| .|..+.+. ..+...|+++|+.++. +. + .+++-..+.... . +..++|...
T Consensus 104 ~G~e~f~~~~~~aGvdGvii-pDLp~ee~-~~~~~~~~~~gl~~I~lvap~t~~eri~~i~~~s~gfIY~vs~~GvTG~~ 181 (258)
T PRK13111 104 YGVERFAADAAEAGVDGLII-PDLPPEEA-EELRAAAKKHGLDLIFLVAPTTTDERLKKIASHASGFVYYVSRAGVTGAR 181 (258)
T ss_pred cCHHHHHHHHHHcCCcEEEE-CCCCHHHH-HHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEeCCCCCCcc
Confidence 47666555555544544444 69977555 5578899999988876 32 2 246666555443 1 334455554
Q ss_pred cccHHHHHHHHHHHHHh
Q 025016 202 NEDKMEFSKILEAIKAN 218 (259)
Q Consensus 202 ~eDk~~l~kLve~i~~~ 218 (259)
.+....+.++++.++..
T Consensus 182 ~~~~~~~~~~i~~vk~~ 198 (258)
T PRK13111 182 SADAADLAELVARLKAH 198 (258)
T ss_pred cCCCccHHHHHHHHHhc
Confidence 45555677888888873
No 88
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=38.17 E-value=41 Score=26.13 Aligned_cols=33 Identities=36% Similarity=0.281 Sum_probs=24.4
Q ss_pred ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 145 AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 145 AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
+.|||+|.|- + ++-..+-..|+.++||+..+..
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 7799998874 3 4557788999999999987654
No 89
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=37.54 E-value=1e+02 Score=30.17 Aligned_cols=57 Identities=16% Similarity=0.109 Sum_probs=42.3
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeec
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTV 200 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~ 200 (259)
...+.+|+.|..-+.-...+..+|+.+|||+..+.+-.+|..++..-.-.-+.|+|.
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDT 262 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDT 262 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcC
Confidence 357889999987666666799999999999998888888887665443233445554
No 90
>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=37.49 E-value=82 Score=28.42 Aligned_cols=46 Identities=15% Similarity=0.255 Sum_probs=28.6
Q ss_pred HHHHHHhCCccEEEEeCCCC-----chhhHhhHHHHhhhcCCCEEEECCccc
Q 025016 136 VTYLIEQNKAQLVVIAHDVD-----PIELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~Dvs-----P~elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
+...++...+.+||++.|+. +.+...++..+ ...++|+..|.+.-+
T Consensus 23 l~~~~~~~~~D~vv~~GDl~~~g~~~~~~~~~l~~l-~~l~~pv~~V~GNhD 73 (224)
T cd07388 23 LVGLAPETGADAIVLIGNLLPKAAKSEDYAAFFRIL-GEAHLPTFYVPGPQD 73 (224)
T ss_pred HHHHHhhcCCCEEEECCCCCCCCCCHHHHHHHHHHH-HhcCCceEEEcCCCC
Confidence 34444556788999999983 33344444334 355688888776554
No 91
>PRK09932 glycerate kinase II; Provisional
Probab=37.49 E-value=2.5e+02 Score=27.69 Aligned_cols=97 Identities=13% Similarity=0.194 Sum_probs=55.4
Q ss_pred eeecchHHHHHHHHh----CCccEEEEeCCC-Cchh----hHhhHHHHhhhcCCCEEEECCccchhh--hhcCCceEEEE
Q 025016 128 VVKYGLNHVTYLIEQ----NKAQLVVIAHDV-DPIE----LVVWLPALCRKMEIPYCIVKGKSRLGS--IVHKKTASVLC 196 (259)
Q Consensus 128 ~l~~G~n~Vtk~Iek----kKAkLVVIA~Dv-sP~e----lv~~LpaLC~~~~VPy~~v~sK~eLG~--avGkk~~a~VA 196 (259)
.+.+|++.|..++.= ..|.|||..+-. |..+ ...-+-.+|++++||++.+.+.-..+. +-.....++..
T Consensus 264 ~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qt~~GK~p~~Va~~A~~~~~Pvi~i~G~~~~~~~~~~~~g~~~~~~ 343 (381)
T PRK09932 264 DIKPGIEIVLNAVNLEQAVQGAALVITGEGRIDSQTAGGKAPLGVASVAKQFNVPVIGIAGVLGDGVEVVHQYGIDAVFS 343 (381)
T ss_pred EEccHHHHHHHhcChHHHhccCCEEEECCCcccccccCCccHHHHHHHHHHcCCCEEEEecccCCChHHHHhcCceEEEE
Confidence 488999999888732 458999888753 2111 234466799999999998776543332 22222335555
Q ss_pred EeecCcccHHHHHHHHHHHHHhhhhhhHhhhh
Q 025016 197 LTTVKNEDKMEFSKILEAIKANFNDKYEELRK 228 (259)
Q Consensus 197 itd~g~eDk~~l~kLve~i~~~y~d~y~e~~~ 228 (259)
+.+... .+++.++.-..|..+.-+.+.+
T Consensus 344 i~~~~~----~l~~a~~~~~~~l~~~~~~~~~ 371 (381)
T PRK09932 344 ILPRLA----PLAEVLASGETNLFNSARNIAC 371 (381)
T ss_pred cCCCCC----CHHHHHHHHHHHHHHHHHHHHH
Confidence 555322 2344444444444444444443
No 92
>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=37.35 E-value=94 Score=28.98 Aligned_cols=50 Identities=32% Similarity=0.447 Sum_probs=38.0
Q ss_pred EEEeCCCCchhhHhhHHHHhhhcCCCEEEECC--ccchhhhhcCCceEEEEEe
Q 025016 148 VVIAHDVDPIELVVWLPALCRKMEIPYCIVKG--KSRLGSIVHKKTASVLCLT 198 (259)
Q Consensus 148 VVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s--K~eLG~avGkk~~a~VAit 198 (259)
+|+..=|+| ++...+...|+.+|||++.+.+ -..|...+|.+.....+..
T Consensus 55 iV~~Tlv~~-~lr~~l~~~~~~~~i~~~Dll~~~l~~l~~~lg~~p~~~pg~~ 106 (255)
T PF03618_consen 55 IVFYTLVDP-ELREYLEEFCREHGIPCVDLLGPLLSALEEFLGQKPSRKPGLQ 106 (255)
T ss_pred EEEEeCCCH-HHHHHHHHHHHhcCCCEEeccHHHHHHHHHHHCcCcccccCcc
Confidence 556666777 7889899999999999998886 4578888888764444433
No 93
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=36.79 E-value=2.1e+02 Score=22.73 Aligned_cols=46 Identities=20% Similarity=0.258 Sum_probs=32.0
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCC-----chhhHhhHHHHhhhcCCCEEEEC
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVD-----PIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~Dvs-----P~elv~~LpaLC~~~~VPy~~v~ 178 (259)
-|.+..+..++.|++..||+ .+.| +.++.. +..+|..+||.++++.
T Consensus 52 p~l~~ll~~~~~g~~~~ivv-~~~~Rl~R~~~~~~~-~~~~l~~~gi~l~~~~ 102 (148)
T smart00857 52 PGLQRLLADLRAGDIDVLVV-YKLDRLGRSLRDLLA-LLELLEKKGVRLVSVT 102 (148)
T ss_pred HHHHHHHHHHHcCCCCEEEE-eccchhhCcHHHHHH-HHHHHHHCCCEEEECc
Confidence 46788888888888765544 4443 344444 5568899999988765
No 94
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=36.77 E-value=1.3e+02 Score=28.12 Aligned_cols=53 Identities=19% Similarity=0.198 Sum_probs=37.4
Q ss_pred hCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCc
Q 025016 142 QNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKN 202 (259)
Q Consensus 142 kkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~ 202 (259)
.....+||.|-|- + .-...|-..|++++||++.+.+ +-|+--.+-+-+.|...
T Consensus 119 ~~~~D~VIdaiD~-~-~~k~~L~~~c~~~~ip~I~~gG------ag~k~dp~~~~~~di~~ 171 (268)
T PRK15116 119 SAGFSYVIDAIDS-V-RPKAALIAYCRRNKIPLVTTGG------AGGQIDPTQIQVVDLAK 171 (268)
T ss_pred cCCCCEEEEcCCC-H-HHHHHHHHHHHHcCCCEEEECC------cccCCCCCeEEEEeeec
Confidence 3468899999984 2 3345689999999999998754 33444356666777654
No 95
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=36.39 E-value=1.7e+02 Score=21.35 Aligned_cols=54 Identities=13% Similarity=0.185 Sum_probs=39.1
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhc-CCCEEEECCccc
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKM-EIPYCIVKGKSR 182 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~-~VPy~~v~sK~e 182 (259)
...-.++....+++....+|++-.+.+..+....+..+.... ++|++.+.+..+
T Consensus 28 ~~~~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~~ 82 (112)
T PF00072_consen 28 TASSGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDEDD 82 (112)
T ss_dssp EESSHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESSTS
T ss_pred EECCHHHHHHHhcccCceEEEEEeeeccccccccccccccccccccEEEecCCCC
Confidence 445677888999999999999997776655555555555554 788887775544
No 96
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=36.15 E-value=1.6e+02 Score=27.86 Aligned_cols=70 Identities=10% Similarity=0.137 Sum_probs=45.9
Q ss_pred CCccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHH
Q 025016 143 NKAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAI 215 (259)
Q Consensus 143 kKAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i 215 (259)
+++.++|+-.+- |.|+ .+|-.+|+..+.|.+.+.+.++|-...=.. +.+|+||-.-+-.....+++++.+
T Consensus 208 ~~vD~miVVGg~~SsNT--~rL~eia~~~~~~t~~Ie~~~el~~~~~~~-~~~VGitaGASTP~~li~eV~~~l 278 (281)
T PRK12360 208 KEVDVMIVIGGKHSSNT--QKLVKICEKNCPNTFHIETADELDLEMLKD-YKIIGITAGASTPDWIIEEVIKKI 278 (281)
T ss_pred HhCCEEEEecCCCCccH--HHHHHHHHHHCCCEEEECChHHCCHHHhCC-CCEEEEEccCCCCHHHHHHHHHHH
Confidence 345555555544 6665 458899999999999999999996422122 467888876654444445555444
No 97
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=36.08 E-value=34 Score=32.89 Aligned_cols=47 Identities=19% Similarity=0.086 Sum_probs=31.3
Q ss_pred HHHHHhCCccEEEEeCCCC--chhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 137 TYLIEQNKAQLVVIAHDVD--PIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 137 tk~IekkKAkLVVIA~Dvs--P~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
.-++|+....-|+++-|+| +.-+-....++|.+.+||+.+|.+|-+=
T Consensus 212 ~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK 260 (320)
T KOG2486|consen 212 SYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDK 260 (320)
T ss_pred HHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhh
Confidence 3456666655566665554 3323334578999999999999987643
No 98
>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=35.95 E-value=35 Score=27.40 Aligned_cols=44 Identities=18% Similarity=0.370 Sum_probs=31.1
Q ss_pred HHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
.....++ ....+||.+.|- .+...++-.+|+++++|++....-.
T Consensus 84 ~~~~~~~--~~~d~vi~~~d~--~~~~~~l~~~~~~~~~p~i~~~~~g 127 (135)
T PF00899_consen 84 ENIEELL--KDYDIVIDCVDS--LAARLLLNEICREYGIPFIDAGVNG 127 (135)
T ss_dssp HHHHHHH--HTSSEEEEESSS--HHHHHHHHHHHHHTT-EEEEEEEET
T ss_pred ccccccc--cCCCEEEEecCC--HHHHHHHHHHHHHcCCCEEEEEeec
Confidence 4445555 356799999885 3455668899999999999876543
No 99
>PRK06628 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=35.58 E-value=1.6e+02 Score=26.98 Aligned_cols=76 Identities=12% Similarity=0.150 Sum_probs=48.4
Q ss_pred cCCcccHHHHHHHHHHHHHHHHcCCC-CccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhh------------Hh
Q 025016 95 KYRPEDRAAKKERLLKRAQAEAEGKT-VEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIEL------------VV 161 (259)
Q Consensus 95 kyrPe~k~eK~~rLl~lA~kkaaGk~-~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~el------------v~ 161 (259)
=|+|-. .....+++...+.. .|-. ++.. ..|+..+.+++++|. +|.|..|-++.+- ..
T Consensus 143 vyr~~~-n~~~d~~~~~~R~~-~g~~~i~~~-----~~~~r~l~k~Lk~g~--~v~il~Dq~~~~gv~v~FFG~~a~t~~ 213 (290)
T PRK06628 143 IYRKAN-NPYVNKLVNESRAG-DKLRLIPKG-----PEGSRALVRAIKESE--SIVMLVDQKMNDGIEVPFLGHPAMTAS 213 (290)
T ss_pred EEecCC-CHHHHHHHHHHHHh-cCCceecCC-----CchHHHHHHHHHcCC--eEEEEecccCCCCeeeecCCCccccch
Confidence 377754 55667777666553 3432 2111 247899999999885 8889988876321 11
Q ss_pred hHHHHhhhcCCCEEEECC
Q 025016 162 WLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 162 ~LpaLC~~~~VPy~~v~s 179 (259)
-...|+.+.|.|++.+..
T Consensus 214 ~~a~LA~~~~apvv~~~~ 231 (290)
T PRK06628 214 AIAKIALQYKYPIIPCQI 231 (290)
T ss_pred HHHHHHHHHCCCEEEEEE
Confidence 123688888888886654
No 100
>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=35.40 E-value=54 Score=24.33 Aligned_cols=26 Identities=27% Similarity=0.399 Sum_probs=19.4
Q ss_pred hhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 158 ELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 158 elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
.+... -..|...|+||+++-+..++.
T Consensus 40 ~~~k~-~~~a~~~g~p~~iiiG~~e~~ 65 (94)
T PF03129_consen 40 SLGKQ-IKYADKLGIPFIIIIGEKELE 65 (94)
T ss_dssp THHHH-HHHHHHTTESEEEEEEHHHHH
T ss_pred chhHH-HHHHhhcCCeEEEEECchhHh
Confidence 34343 467888999999998888775
No 101
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=35.25 E-value=2.5e+02 Score=23.68 Aligned_cols=88 Identities=9% Similarity=0.119 Sum_probs=44.5
Q ss_pred chHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHH
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKI 211 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kL 211 (259)
-..++..++..|++..+|+..++.. .+.+..+-++.+.......+.. -.....++++...+.+-...+++.
T Consensus 142 ~~~~~~~~l~~G~~Da~i~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~n~~ 212 (232)
T TIGR03871 142 PPGRMVEDLAAGEIDVAIVWGPIAG--------YFAKQAGPPLVVVPLLPEDGGI-PFDYRIAMGVRKGDKAWKDELNAV 212 (232)
T ss_pred CHHHHHHHHHcCCcCEEEeccHHHH--------HHHHhCCCCceeeccccCCCCC-CccceEEEEEecCCHHHHHHHHHH
Confidence 3578899999999999888654311 1222222233222111100000 011124555554433333444444
Q ss_pred HHHHHHhhhhhhHhhhhhcCC
Q 025016 212 LEAIKANFNDKYEELRKKWGG 232 (259)
Q Consensus 212 ve~i~~~y~d~y~e~~~~wgg 232 (259)
++.+ ...+++|.++||=
T Consensus 213 l~~~----~~~~~~i~~kyg~ 229 (232)
T TIGR03871 213 LDRR----QAEIDAILREYGV 229 (232)
T ss_pred HHHH----HHHHHHHHHHcCC
Confidence 4443 3478999999983
No 102
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=34.91 E-value=2.8e+02 Score=23.37 Aligned_cols=81 Identities=10% Similarity=0.124 Sum_probs=49.3
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhc----CCceEEEEEeecCcccHHHHHHHHHHHHHhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH----KKTASVLCLTTVKNEDKMEFSKILEAIKANF 219 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avG----kk~~a~VAitd~g~eDk~~l~kLve~i~~~y 219 (259)
.+.+||.|.|-+.. -..+-.+|+. ++++..+ +..++|...- +.---.|||+..|. +...-..|-+.+.+.|
T Consensus 70 ~a~lViaaT~d~e~--N~~i~~~a~~-~~~vn~~-d~~~~~~f~~pa~v~~~~l~iaisT~G~-sP~la~~lr~~ie~~l 144 (157)
T PRK06719 70 DAHLIYAATNQHAV--NMMVKQAAHD-FQWVNVV-SDGTESSFHTPGVIRNDEYVVTISTSGK-DPSFTKRLKQELTSIL 144 (157)
T ss_pred CceEEEECCCCHHH--HHHHHHHHHH-CCcEEEC-CCCCcCcEEeeeEEEECCeEEEEECCCc-ChHHHHHHHHHHHHHh
Confidence 47888888776543 3445677877 4676644 4455554322 11136788887764 3334455667777777
Q ss_pred hhhhHhhhhh
Q 025016 220 NDKYEELRKK 229 (259)
Q Consensus 220 ~d~y~e~~~~ 229 (259)
-+.|+.+-+.
T Consensus 145 ~~~~~~~a~~ 154 (157)
T PRK06719 145 PKLIKKISRT 154 (157)
T ss_pred hHHHHHHHhh
Confidence 7777776543
No 103
>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=34.69 E-value=1.8e+02 Score=21.20 Aligned_cols=29 Identities=14% Similarity=0.115 Sum_probs=25.5
Q ss_pred hhHHHHhhhcCCCEEEECCccchhhhhcC
Q 025016 161 VWLPALCRKMEIPYCIVKGKSRLGSIVHK 189 (259)
Q Consensus 161 ~~LpaLC~~~~VPy~~v~sK~eLG~avGk 189 (259)
.....++++.||++..++.-.+++.-||.
T Consensus 15 ~~~ek~lk~~gi~~~liP~P~~i~~~CG~ 43 (73)
T PF11823_consen 15 MKAEKLLKKNGIPVRLIPTPREISAGCGL 43 (73)
T ss_pred HHHHHHHHHCCCcEEEeCCChhccCCCCE
Confidence 44688999999999999999999988883
No 104
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=34.39 E-value=53 Score=32.22 Aligned_cols=80 Identities=26% Similarity=0.414 Sum_probs=52.4
Q ss_pred HhHHhHHHHhhhcc--CCcccccccccCChhhHHHHHhhhhcCCcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecch
Q 025016 56 RIQRQRRILRQRLK--VPPALNQFTKTLDKNLASSLFKLLLKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGL 133 (259)
Q Consensus 56 ~lqrq~~il~~~lk--vpp~inqf~~~ld~~~a~~l~kl~~kyrPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~ 133 (259)
+-|+||.++++|+. ||-|= -..... ..|..+-+|.||. .+-|.++..|.
T Consensus 244 ~Rq~~re~a~~rm~~~Vp~Ad----vVItNP---TH~AVAlkY~~~~----------------------~~AP~VvAKG~ 294 (363)
T COG1377 244 IRQMQREIARRRMMSDVPKAD----VVITNP---THYAVALKYDPEK----------------------MPAPVVVAKGV 294 (363)
T ss_pred HHHHHHHHHHHHHHhhCCCCC----EEeeCc---Cceeeeeeecccc----------------------CCCCEEEEeCC
Confidence 34888999999875 77651 111111 2466788999985 22466666664
Q ss_pred HHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCC
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKK 190 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk 190 (259)
+ .+...+..+++++|||++.-. -|-+++-+.
T Consensus 295 d-----------------------~~AlkIreiA~e~~Ipi~enp---pLARaLY~~ 325 (363)
T COG1377 295 D-----------------------LVALKIREIAKEHGIPIIENP---PLARALYRQ 325 (363)
T ss_pred c-----------------------HHHHHHHHHHHHcCCceecCh---HHHHHHHHh
Confidence 4 345568899999999996543 477777654
No 105
>COG0439 AccC Biotin carboxylase [Lipid metabolism]
Probab=34.25 E-value=3.1e+02 Score=27.59 Aligned_cols=108 Identities=19% Similarity=0.263 Sum_probs=70.4
Q ss_pred EEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhh-hhcCC-ceEEEEEeecCccc-HHHHHHHHHHHH-------
Q 025016 147 LVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGS-IVHKK-TASVLCLTTVKNED-KMEFSKILEAIK------- 216 (259)
Q Consensus 147 LVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~-avGkk-~~a~VAitd~g~eD-k~~l~kLve~i~------- 216 (259)
=|+||+-- ++..++...|+++||..+.|.|..+... .+... ...|+. ....-+ -.....+++...
T Consensus 4 kiLIanrG---eia~ri~ra~~~lGi~tvav~s~~d~~~~~~~~adeav~i~--~~~~~~syl~i~~ii~~a~~~gadai 78 (449)
T COG0439 4 KILIANRG---EIAVRIIRACRELGIETVAVYSEADADALHVALADEAVCIG--PAPSADSYLNIDAIIAAAEETGADAI 78 (449)
T ss_pred eEEEecCc---hhHHHHHHHHHHhCCeEEEEeccccccchhhhhCceEEEcC--CccchhhhhhHHHHHHHHHhcCCceE
Confidence 36677654 4678899999999999988888776664 12222 123332 111111 122233333222
Q ss_pred -H-----hhhhhhHhhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcC
Q 025016 217 -A-----NFNDKYEELRKKWGGGIMGSKSQAKTKAKEKLLAKEAAQRLT 259 (259)
Q Consensus 217 -~-----~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~k~~~~e~~~k~~ 259 (259)
. .=|..+.|++..-|=...||.+.+.-..-.|..+++++++.|
T Consensus 79 ~pGygflsen~~fae~~~~~gl~fiGP~~~~i~~mgdK~~ar~~~~~aG 127 (449)
T COG0439 79 HPGYGFLSENAAFAEACAEAGLTFIGPSAEAIRRMGDKITARRLMAKAG 127 (449)
T ss_pred cccchhhhCCHHHHHHHHHcCCeeeCcCHHHHHHhhhHHHHHHHHHHcC
Confidence 1 346788899999998888988877777779999999998875
No 106
>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=33.32 E-value=1.5e+02 Score=23.51 Aligned_cols=46 Identities=15% Similarity=0.271 Sum_probs=32.7
Q ss_pred HHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC-CccchhhhhcCC
Q 025016 140 IEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK-GKSRLGSIVHKK 190 (259)
Q Consensus 140 IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~-sK~eLG~avGkk 190 (259)
...+...+|.|+.|-++. +...+++++++|.++. ...++....|..
T Consensus 58 ~~~~~v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 104 (146)
T PF08534_consen 58 YKDKGVDVVGVSSDDDPP-----VREFLKKYGINFPVLSDPDGALAKALGVT 104 (146)
T ss_dssp HHTTTCEEEEEEESSSHH-----HHHHHHHTTTTSEEEEETTSHHHHHTTCE
T ss_pred hccCceEEEEecccCCHH-----HHHHHHhhCCCceEEechHHHHHHHhCCc
Confidence 345568888888887774 4566677888877766 456788888855
No 107
>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=33.08 E-value=48 Score=29.01 Aligned_cols=39 Identities=21% Similarity=0.330 Sum_probs=29.4
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
...+||.+.| +.+....+-.+|++++||++......-.|
T Consensus 110 ~~dvVi~~~~--~~~~~~~ln~~c~~~~ip~i~~~~~G~~G 148 (197)
T cd01492 110 QFDVVVATEL--SRAELVKINELCRKLGVKFYATGVHGLFG 148 (197)
T ss_pred CCCEEEECCC--CHHHHHHHHHHHHHcCCCEEEEEecCCEE
Confidence 4678888876 34556779999999999998877644444
No 108
>COG2452 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]
Probab=32.73 E-value=2.4e+02 Score=25.45 Aligned_cols=86 Identities=21% Similarity=0.357 Sum_probs=48.6
Q ss_pred chHHHHHHHHhCCccEEEEeCCCCchhh-HhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHH
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHDVDPIEL-VVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSK 210 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~DvsP~el-v~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~k 210 (259)
|.-...++|.+.++.-|||++=--+... ...+.+.|+.+|+-++.+.+ +|... ++
T Consensus 102 ~~~kll~li~~~~V~rVvV~ykDRL~RFGfe~le~~~~a~~~eivvv~~-----------------------~e~~~-eE 157 (193)
T COG2452 102 GLLKLLKLVEGNSVRRVVVSYKDRLNRFGFELVEAVCKAHNVEIVVVNQ-----------------------EDKDS-EE 157 (193)
T ss_pred hHHHHHHHHcCCceeEEEEEccchHhHHhHHHHHHHHHhcCcEEEEecC-----------------------CCCCH-HH
Confidence 3446677888888888888874222111 13356666666655544332 11111 56
Q ss_pred HHHHHHHhhhhhhHhhhhhcCCCCCCchhHHHHHHHHHH
Q 025016 211 ILEAIKANFNDKYEELRKKWGGGIMGSKSQAKTKAKEKL 249 (259)
Q Consensus 211 Lve~i~~~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~k~ 249 (259)
|||.+- +|...+-|-.-|.+|....+..+-+
T Consensus 158 LveDli--------sIltsfs~kLYG~Rs~k~~~~~~~~ 188 (193)
T COG2452 158 LVEDLV--------SILTSFSAKLYGKRSHKNEKVKAAA 188 (193)
T ss_pred HHHHHH--------HHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 665552 4556666777787876665555433
No 109
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=32.56 E-value=1.2e+02 Score=28.84 Aligned_cols=95 Identities=17% Similarity=0.210 Sum_probs=64.1
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHH
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSK 210 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~k 210 (259)
-|.-.+...+-+..=++++.- .-|.+....=-.+....+|-+..-.+=..|+..+.-+..-.+.++|+..|.++++..
T Consensus 97 pGSP~lA~~llR~qDRl~l~E--LHp~D~~~L~~~f~~d~~vrv~~~DG~~~l~a~LPP~erRglVLIDPPfE~~~eY~r 174 (279)
T COG2961 97 PGSPLLARQLLREQDRLVLTE--LHPSDAPLLRNNFAGDRRVRVLRGDGFLALKAHLPPKERRGLVLIDPPFELKDEYQR 174 (279)
T ss_pred CCCHHHHHHHcchhceeeeee--cCccHHHHHHHHhCCCcceEEEecCcHHHHhhhCCCCCcceEEEeCCCcccccHHHH
Confidence 466666666666666665443 334333222233445566666666777788888887765567799999999999999
Q ss_pred HHHHHHHhhhhhhHhhhhhcCCCCC
Q 025016 211 ILEAIKANFNDKYEELRKKWGGGIM 235 (259)
Q Consensus 211 Lve~i~~~y~d~y~e~~~~wgg~~l 235 (259)
+|+.+++.| +.|.+|+.
T Consensus 175 vv~~l~~~~--------kRf~~g~y 191 (279)
T COG2961 175 VVEALAEAY--------KRFATGTY 191 (279)
T ss_pred HHHHHHHHH--------HhhcCceE
Confidence 999998655 56777764
No 110
>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=32.55 E-value=93 Score=24.51 Aligned_cols=40 Identities=33% Similarity=0.571 Sum_probs=23.9
Q ss_pred HHHHHHHhCCccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccc
Q 025016 135 HVTYLIEQNKAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 135 ~Vtk~IekkKAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
.+...+ .++.+||++.|+ ++.++...+..+ |+..+.+.-+
T Consensus 18 ~~~~~~--~~~d~vi~~GDi~~~~~~~~~~~~~------~~~~v~GNHD 58 (156)
T PF12850_consen 18 AVLEYI--NEPDFVIILGDIFDPEEVLELLRDI------PVYVVRGNHD 58 (156)
T ss_dssp HHHHHH--TTESEEEEES-SCSHHHHHHHHHHH------EEEEE--CCH
T ss_pred HHHHHh--cCCCEEEECCCchhHHHHHHHHhcC------CEEEEeCCcc
Confidence 444555 469999999999 665554444222 7877776554
No 111
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=32.53 E-value=68 Score=25.70 Aligned_cols=48 Identities=8% Similarity=0.015 Sum_probs=37.2
Q ss_pred ecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 130 KYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 130 ~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
..++.++...+....+.+|+++.++.- ....+..+|..+|||+..+..
T Consensus 36 a~~~~e~~~~~~~~~~DvIll~PQi~~--~~~~i~~~~~~~~ipv~~I~~ 83 (104)
T PRK09590 36 AITATEGEKAIAAAEYDLYLVSPQTKM--YFKQFEEAGAKVGKPVVQIPP 83 (104)
T ss_pred EecHHHHHHhhccCCCCEEEEChHHHH--HHHHHHHHhhhcCCCEEEeCH
Confidence 467777777667777899999999864 245578899999999987654
No 112
>PRK01889 GTPase RsgA; Reviewed
Probab=32.37 E-value=55 Score=31.31 Aligned_cols=26 Identities=23% Similarity=0.069 Sum_probs=18.6
Q ss_pred hHhhHHHHhhhcCCCEEEECCccchh
Q 025016 159 LVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 159 lv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
+...+..+|+..|+|.+++.+|.+|-
T Consensus 130 ~ldr~L~~a~~~~i~piIVLNK~DL~ 155 (356)
T PRK01889 130 RIERYLALAWESGAEPVIVLTKADLC 155 (356)
T ss_pred HHHHHHHHHHHcCCCEEEEEEChhcC
Confidence 44556677777788877777777773
No 113
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=32.18 E-value=2.1e+02 Score=29.05 Aligned_cols=87 Identities=20% Similarity=0.255 Sum_probs=55.7
Q ss_pred cchHHHHHHHHh----------CCccEEEEeCCCCch--hhHhhHHHHhhhcCCCEEEECCccchhhhhc-------CCc
Q 025016 131 YGLNHVTYLIEQ----------NKAQLVVIAHDVDPI--ELVVWLPALCRKMEIPYCIVKGKSRLGSIVH-------KKT 191 (259)
Q Consensus 131 ~G~n~Vtk~Iek----------kKAkLVVIA~DvsP~--elv~~LpaLC~~~~VPy~~v~sK~eLG~avG-------kk~ 191 (259)
.|+.++...||+ .+|.||+.--|.+.. +.-..+.. +...+.|++.|-+|.+|....- .+.
T Consensus 273 AGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~-~~~~~~~~i~v~NK~DL~~~~~~~~~~~~~~~ 351 (454)
T COG0486 273 AGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLALIE-LLPKKKPIIVVLNKADLVSKIELESEKLANGD 351 (454)
T ss_pred CCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHH-hcccCCCEEEEEechhcccccccchhhccCCC
Confidence 677777777766 468999998888762 22122233 5677899999999999986321 121
Q ss_pred eEEEEEeecCcccHHHHHHHHHHHHHhhhhh
Q 025016 192 ASVLCLTTVKNEDKMEFSKILEAIKANFNDK 222 (259)
Q Consensus 192 ~a~VAitd~g~eDk~~l~kLve~i~~~y~d~ 222 (259)
+.+.+..... .-++.|.+.+...|...
T Consensus 352 -~~i~iSa~t~---~Gl~~L~~~i~~~~~~~ 378 (454)
T COG0486 352 -AIISISAKTG---EGLDALREAIKQLFGKG 378 (454)
T ss_pred -ceEEEEecCc---cCHHHHHHHHHHHHhhc
Confidence 2333333322 13678888888877653
No 114
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=31.44 E-value=1.3e+02 Score=29.54 Aligned_cols=63 Identities=21% Similarity=0.158 Sum_probs=50.9
Q ss_pred CceeecchHHHHHHHHhCCccEEEEeCCCCch------hhHhhHHHHhhhcCCCEEEECCccchhhhhc
Q 025016 126 PIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPI------ELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188 (259)
Q Consensus 126 p~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~------elv~~LpaLC~~~~VPy~~v~sK~eLG~avG 188 (259)
+..+.+|.++|.++++-|-+.-++|+-..=-. +-+..+....+.+|-+++++.+-.+.|.-+.
T Consensus 270 ~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~~~~~~re~~~~ll~~ve~~ggkV~Ivs~~he~Ge~Lk 338 (352)
T COG1537 270 DDKVAYGLEEVEKAAEYGAVETLLVTDELLRSDDVEEREDVEELLEEVESMGGKVVIVSTEHEPGERLK 338 (352)
T ss_pred CCceeEcHHHHHHHHhcCcceeEEeehhhhcccchhhHHHHHHHHHHHHHcCCeEEEEecCCcchHHHH
Confidence 34488999999999999999999998665222 4445577888999999999999999886553
No 115
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.16 E-value=1.1e+02 Score=27.64 Aligned_cols=20 Identities=15% Similarity=0.293 Sum_probs=10.6
Q ss_pred HHHHHHHhCCccEEEEeCCC
Q 025016 135 HVTYLIEQNKAQLVVIAHDV 154 (259)
Q Consensus 135 ~Vtk~IekkKAkLVVIA~Dv 154 (259)
.+...+.+.++.+|||+.|+
T Consensus 30 ~l~~~~~~~~~D~lli~GDi 49 (253)
T TIGR00619 30 DLLEFAKAEQIDALLVAGDV 49 (253)
T ss_pred HHHHHHHHcCCCEEEECCcc
Confidence 34444444555666666665
No 116
>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=30.62 E-value=1.5e+02 Score=21.40 Aligned_cols=40 Identities=20% Similarity=0.124 Sum_probs=26.1
Q ss_pred HHHHHHhCC--ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC
Q 025016 136 VTYLIEQNK--AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 136 Vtk~IekkK--AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~ 178 (259)
+-+++++-+ -.|.|++.|-. . ..-+|.+|+.+|-.+..+.
T Consensus 16 ~kkal~~l~~G~~l~V~~d~~~--a-~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 16 LKKEIDKLQDGEQLEVKASDPG--F-ARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred HHHHHHcCCCCCEEEEEECCcc--H-HHHHHHHHHHcCCEEEEEE
Confidence 344555433 24777887743 2 3558999999999887543
No 117
>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=30.62 E-value=1.8e+02 Score=26.32 Aligned_cols=53 Identities=26% Similarity=0.250 Sum_probs=36.4
Q ss_pred hCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCc
Q 025016 142 QNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKN 202 (259)
Q Consensus 142 kkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~ 202 (259)
.....+||.|-|-.+ ....|-.+|.+++||++...+- =|+--.+-+-+.|...
T Consensus 100 ~~~~D~VvdaiD~~~--~k~~L~~~c~~~~ip~I~s~g~------g~~~dp~~i~i~di~~ 152 (231)
T cd00755 100 GGDPDFVVDAIDSIR--AKVALIAYCRKRKIPVISSMGA------GGKLDPTRIRVADISK 152 (231)
T ss_pred cCCCCEEEEcCCCHH--HHHHHHHHHHHhCCCEEEEeCC------cCCCCCCeEEEccEec
Confidence 445889999988543 3456899999999999987651 1222245566666643
No 118
>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=30.56 E-value=50 Score=29.23 Aligned_cols=36 Identities=17% Similarity=0.066 Sum_probs=28.5
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
...+||.|.|- + +...++-.+|.++++|++....-.
T Consensus 111 ~~DvVi~~~d~-~-~~r~~l~~~~~~~~ip~i~~g~~g 146 (228)
T cd00757 111 GYDLVLDCTDN-F-ATRYLINDACVKLGKPLVSGAVLG 146 (228)
T ss_pred CCCEEEEcCCC-H-HHHHHHHHHHHHcCCCEEEEEecc
Confidence 48899999984 4 345678999999999999876543
No 119
>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=30.47 E-value=2.7e+02 Score=24.14 Aligned_cols=52 Identities=25% Similarity=0.306 Sum_probs=32.4
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCc----------cchhhhhcCC
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGK----------SRLGSIVHKK 190 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK----------~eLG~avGkk 190 (259)
-...|-.=+..|||......+. ..+..|.+..|||++.+... ..||.++|+.
T Consensus 66 n~E~i~~l~PDLIi~~~~~~~~---~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~ 127 (262)
T cd01147 66 NYEKIAALKPDVVIDVGSDDPT---SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKE 127 (262)
T ss_pred CHHHHHhcCCCEEEEecCCccc---hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCH
Confidence 3455666678898876544332 12455666689998877653 2467777764
No 120
>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=30.46 E-value=1.1e+02 Score=30.25 Aligned_cols=22 Identities=9% Similarity=0.409 Sum_probs=19.1
Q ss_pred hHHHHHHHHhCCccEEEEeCCC
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDV 154 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~Dv 154 (259)
.++++..+...++.+||||+|+
T Consensus 31 f~eil~~a~~~~vD~VLiaGDL 52 (405)
T TIGR00583 31 FEEVLQIAKEQDVDMILLGGDL 52 (405)
T ss_pred HHHHHHHHHHcCCCEEEECCcc
Confidence 5677778888889999999998
No 121
>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=30.17 E-value=1e+02 Score=26.26 Aligned_cols=38 Identities=16% Similarity=0.084 Sum_probs=24.4
Q ss_pred cEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 146 QLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 146 kLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
.++++-.|.+..+.-..+...+++++.|+++|.+|.++
T Consensus 82 d~~l~v~~~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~ 119 (197)
T cd04104 82 DFFIIISSTRFSSNDVKLAKAIQCMGKKFYFVRTKVDR 119 (197)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHhCCCEEEEEecccc
Confidence 33333334333333344556677789999999999998
No 122
>PRK00124 hypothetical protein; Validated
Probab=30.03 E-value=1.1e+02 Score=26.39 Aligned_cols=30 Identities=17% Similarity=0.309 Sum_probs=25.4
Q ss_pred EEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 148 VVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 148 VVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
++|=.|+-| ++..+-.+|++++||+++|.|
T Consensus 3 I~VDADACP--Vk~~i~r~a~r~~i~v~~Vas 32 (151)
T PRK00124 3 IYVDADACP--VKDIIIRVAERHGIPVTLVAS 32 (151)
T ss_pred EEEECCCCc--HHHHHHHHHHHHCCeEEEEEe
Confidence 677888888 667788999999999999874
No 123
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=29.98 E-value=1.4e+02 Score=24.39 Aligned_cols=48 Identities=19% Similarity=0.396 Sum_probs=34.2
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCCc-----hhhHhhHHHHhhhcCCCEEEECC
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVDP-----IELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~DvsP-----~elv~~LpaLC~~~~VPy~~v~s 179 (259)
-|++..++.++.|++..||+ .+.|- .+....+..||..+||.++++..
T Consensus 55 p~l~~ll~~~~~g~vd~vvv-~~ldRl~R~~~d~~~~~~~l~~~~gv~l~~~~~ 107 (140)
T cd03770 55 PGFNRMIEDIEAGKIDIVIV-KDMSRLGRNYLKVGLYMEILFPKKGVRFIAIND 107 (140)
T ss_pred HHHHHHHHHHHcCCCCEEEE-eccchhccCHHHHHHHHHHHHhhcCcEEEEecC
Confidence 47889999999998887665 44543 23445566666667999988763
No 124
>PF05325 DUF730: Protein of unknown function (DUF730); InterPro: IPR007989 This family consists of several uncharacterised Arabidopsis thaliana proteins of unknown function.
Probab=29.75 E-value=92 Score=25.49 Aligned_cols=46 Identities=26% Similarity=0.209 Sum_probs=33.5
Q ss_pred EEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecC
Q 025016 147 LVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVK 201 (259)
Q Consensus 147 LVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g 201 (259)
-||+|..-||.+--.. ....||-+..+ .|+-||.++.-+||+.|.-
T Consensus 28 kvvvats~dpvts~kl------yfscpyeisdg---~g~~~gfkrwwtvalcdef 73 (122)
T PF05325_consen 28 KVVVATSRDPVTSGKL------YFSCPYEISDG---PGRGCGFKRWWTVALCDEF 73 (122)
T ss_pred eEEEEeccCCccccee------eecCccccccC---CCCCccceeEEeeeechhh
Confidence 4678888889765432 24568877655 7888999997788998763
No 125
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=28.98 E-value=62 Score=25.55 Aligned_cols=40 Identities=15% Similarity=0.259 Sum_probs=28.7
Q ss_pred ccEEEEeCCCC----chhhHhhHHHHhhhcC--CCEEEECCccchh
Q 025016 145 AQLVVIAHDVD----PIELVVWLPALCRKME--IPYCIVKGKSRLG 184 (259)
Q Consensus 145 AkLVVIA~Dvs----P~elv~~LpaLC~~~~--VPy~~v~sK~eLG 184 (259)
+.++|+.-|.+ ..++..++..+....+ +|++.+.+|.++.
T Consensus 73 ~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~ 118 (161)
T cd01861 73 SSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS 118 (161)
T ss_pred CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc
Confidence 45666666775 3455666777766665 9999999998874
No 126
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=28.77 E-value=4.6e+02 Score=24.34 Aligned_cols=73 Identities=12% Similarity=0.195 Sum_probs=47.2
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhc---C-CceEEEEEeecCcc--cHHHHHHHHHHHH
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH---K-KTASVLCLTTVKNE--DKMEFSKILEAIK 216 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avG---k-k~~a~VAitd~g~e--Dk~~l~kLve~i~ 216 (259)
.....+|+.|-..+..+..+...|+.+++|++...+...|..++. . ..+-.|-|-..|.. |...+.+|.+.++
T Consensus 103 ~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~ 181 (270)
T PRK06731 103 KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMG 181 (270)
T ss_pred CCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHHh
Confidence 356777888877666777788999999999998888777776653 1 12233433334433 4555666655544
No 127
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=28.55 E-value=1.2e+02 Score=27.28 Aligned_cols=51 Identities=16% Similarity=0.090 Sum_probs=35.4
Q ss_pred HHHHHHHHhCCccEEEEeCCCCchh------hHhhHHHHhhhcCCCEEEECCccchh
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDPIE------LVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP~e------lv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
..++..|...++.+||++.|+.... ....+-..+...++|+..+.+.-+..
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 4556667667799999999985321 12234556677889999988876654
No 128
>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=28.55 E-value=1.4e+02 Score=26.91 Aligned_cols=16 Identities=19% Similarity=0.221 Sum_probs=9.1
Q ss_pred HHHHhhhcCCCEEEEC
Q 025016 163 LPALCRKMEIPYCIVK 178 (259)
Q Consensus 163 LpaLC~~~~VPy~~v~ 178 (259)
|...+++.+|+|+++.
T Consensus 198 l~~~ik~~~v~~if~e 213 (264)
T cd01020 198 FQNAIKNRQIDALIVN 213 (264)
T ss_pred HHHHHHhCCCCEEEeC
Confidence 5555566666666543
No 129
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=28.52 E-value=1.5e+02 Score=26.98 Aligned_cols=54 Identities=11% Similarity=0.103 Sum_probs=36.3
Q ss_pred CCCceeecch-----HHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 124 KKPIVVKYGL-----NHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 124 kkp~~l~~G~-----n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
=||.+|-+|. +.+.++++ ++.|+|+-.----..-+..|+..++++|.|+++|.-
T Consensus 149 lrP~vV~FGE~~~~~~~~~~~~~--~~DlllviGTSl~V~pa~~l~~~a~~~g~~vi~IN~ 207 (242)
T PTZ00408 149 LRPHIVWFGEMPLYMDEIESVMS--KTDLFVAVGTSGNVYPAAGFVGRAQFYGATTLELNL 207 (242)
T ss_pred CCCCEEEcCCCCCcHHHHHHHHH--hCCEEEEEccCCccccHHHHHHHHHHcCCeEEEECC
Confidence 6899999999 45566654 466655544322222345588899999999998774
No 130
>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=28.35 E-value=1.2e+02 Score=28.83 Aligned_cols=54 Identities=19% Similarity=0.271 Sum_probs=38.5
Q ss_pred chHHHHHHHHhCCccEEEEeCCC-CchhhHhhHHHHhhhcCCCEEEECCccchhh
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHDV-DPIELVVWLPALCRKMEIPYCIVKGKSRLGS 185 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~Dv-sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~ 185 (259)
.++++++-.=+.--++|-|.-|+ ...+|...|-..|.+.+||++++-+...|.+
T Consensus 134 ~IKE~vR~~I~~A~kVIAIVMD~FTD~dIf~DLleAa~kR~VpVYiLLD~~~~~~ 188 (284)
T PF07894_consen 134 HIKEVVRRMIQQAQKVIAIVMDVFTDVDIFCDLLEAANKRGVPVYILLDEQNLPH 188 (284)
T ss_pred CHHHHHHHHHHHhcceeEEEeeccccHHHHHHHHHHHHhcCCcEEEEechhcChH
Confidence 35555555545555666777776 3447888889999999999999888776663
No 131
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=28.06 E-value=1.3e+02 Score=27.20 Aligned_cols=55 Identities=25% Similarity=0.344 Sum_probs=42.0
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchh---hHhhHHHHhhhcCCCEEEECCccchhhhhc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIE---LVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~e---lv~~LpaLC~~~~VPy~~v~sK~eLG~avG 188 (259)
.+.|+.+++.|-.-+.+-..|.+..+ ....+..+|+++++|+++ .+..+|-..++
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~liI-Nd~~dlA~~~~ 81 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVPLII-NDRVDLALAVG 81 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCeEEe-cCcHHHHHhCC
Confidence 68899999999777777788887754 445789999999999954 66666654444
No 132
>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=27.93 E-value=1.2e+02 Score=24.42 Aligned_cols=16 Identities=13% Similarity=0.115 Sum_probs=7.9
Q ss_pred HHHhhhcCCCEEEECC
Q 025016 164 PALCRKMEIPYCIVKG 179 (259)
Q Consensus 164 paLC~~~~VPy~~v~s 179 (259)
...++..+++++.+..
T Consensus 64 ~~~~~~~~~~ii~iSa 79 (141)
T cd01857 64 AEYFKKEGIVVVFFSA 79 (141)
T ss_pred HHHHHhcCCeEEEEEe
Confidence 3444555555555443
No 133
>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=27.86 E-value=59 Score=32.29 Aligned_cols=40 Identities=15% Similarity=0.233 Sum_probs=29.0
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGS 185 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~ 185 (259)
...+||. .+.++. ....|-.+|+.++||++.+.+..-.|.
T Consensus 112 ~fdiVI~-t~~~~~-~~~~L~~~c~~~~iPlI~~~s~G~~G~ 151 (425)
T cd01493 112 QFTVVIA-TNLPES-TLLRLADVLWSANIPLLYVRSYGLYGY 151 (425)
T ss_pred CCCEEEE-CCCCHH-HHHHHHHHHHHcCCCEEEEecccCEEE
Confidence 3456654 444443 445589999999999999998877774
No 134
>PRK00098 GTPase RsgA; Reviewed
Probab=27.84 E-value=62 Score=30.01 Aligned_cols=46 Identities=22% Similarity=0.217 Sum_probs=23.1
Q ss_pred HHHHHhCCccEEEEeCCCCch---hhHhhHHHHhhhcCCCEEEECCccc
Q 025016 137 TYLIEQNKAQLVVIAHDVDPI---ELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 137 tk~IekkKAkLVVIA~DvsP~---elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
+..++......||+.+=+|-. +....+...++..++|++.+..+..
T Consensus 104 L~~~~~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~~g~~v~~vSA~~g 152 (298)
T PRK00098 104 LVLAEANGIKPIIVLNKIDLLDDLEEARELLALYRAIGYDVLELSAKEG 152 (298)
T ss_pred HHHHHHCCCCEEEEEEhHHcCCCHHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 333455556666666544421 1112233445666777776665543
No 135
>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=27.83 E-value=2.5e+02 Score=21.59 Aligned_cols=43 Identities=26% Similarity=0.075 Sum_probs=27.8
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSI 186 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~a 186 (259)
.+.++|+..|++...-......+....++|++++.+|.++...
T Consensus 80 ~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~ 122 (157)
T cd04164 80 EADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPD 122 (157)
T ss_pred hCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCc
Confidence 4566777777763222222334444678999999999988643
No 136
>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=27.52 E-value=1.4e+02 Score=24.31 Aligned_cols=43 Identities=21% Similarity=0.373 Sum_probs=29.2
Q ss_pred HHHhCCccEEEEeCCCCchh---hHhhHHHHhhhcCCCEEEECCccc
Q 025016 139 LIEQNKAQLVVIAHDVDPIE---LVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 139 ~IekkKAkLVVIA~DvsP~e---lv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
.++..++.+||++.|+.... -...+ ......++|++++.+.-+
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 45667899999999985421 12223 455667899998887654
No 137
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=27.45 E-value=2.1e+02 Score=28.19 Aligned_cols=75 Identities=20% Similarity=0.215 Sum_probs=47.1
Q ss_pred hCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeec-Cc--ccHHHHHHHHHHHH
Q 025016 142 QNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTV-KN--EDKMEFSKILEAIK 216 (259)
Q Consensus 142 kkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~-g~--eDk~~l~kLve~i~ 216 (259)
.+..+..+|..|..-+.-...+..+|+..|+|+..+.+..+|..++..-...-+.|+|. |. .|...+..|.+.+.
T Consensus 249 ~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~DlVlIDt~G~~~~d~~~~~~L~~ll~ 326 (424)
T PRK05703 249 YGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCDVILIDTAGRSQRDKRLIEELKALIE 326 (424)
T ss_pred cCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCCEEEEeCCCCCCCCHHHHHHHHHHHh
Confidence 45567888887754333345577889999999988888888877765432223445663 22 44444455555544
No 138
>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=27.31 E-value=1.6e+02 Score=23.72 Aligned_cols=45 Identities=13% Similarity=0.294 Sum_probs=28.0
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCc-------hhhHhhHHHHhhhcCCCEEEE
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDP-------IELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP-------~elv~~LpaLC~~~~VPy~~v 177 (259)
+.+++..++...++++++..-..| ..+...+..+|++++++|+..
T Consensus 90 l~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d~ 141 (177)
T cd01822 90 LRQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVPF 141 (177)
T ss_pred HHHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEech
Confidence 444555566666777776432222 134455778999999998753
No 139
>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=27.06 E-value=3.5e+02 Score=23.13 Aligned_cols=76 Identities=14% Similarity=0.187 Sum_probs=42.9
Q ss_pred HhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCc--------ccHHHHHHHH
Q 025016 141 EQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKN--------EDKMEFSKIL 212 (259)
Q Consensus 141 ekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~--------eDk~~l~kLv 212 (259)
+.....+++|..| ++.+. .+.++++++++.......++++..|....-+..++|.+. .-.+.+++++
T Consensus 101 ~~~~~~vv~Is~~-~~~~~----~~~~~~~~~~~~~~~~~~~i~~~y~v~~~P~~~lID~~G~I~~~g~~~~~~~le~ll 175 (189)
T TIGR02661 101 RAEETDVVMISDG-TPAEH----RRFLKDHELGGERYVVSAEIGMAFQVGKIPYGVLLDQDGKIRAKGLTNTREHLESLL 175 (189)
T ss_pred HhcCCcEEEEeCC-CHHHH----HHHHHhcCCCcceeechhHHHHhccCCccceEEEECCCCeEEEccCCCCHHHHHHHH
Confidence 4445778888754 44333 456677776543222345677776655322233444321 1235688888
Q ss_pred HHHHHhhhh
Q 025016 213 EAIKANFND 221 (259)
Q Consensus 213 e~i~~~y~d 221 (259)
++++++|..
T Consensus 176 ~~l~~~~~~ 184 (189)
T TIGR02661 176 EADREGFAS 184 (189)
T ss_pred HHHHcCcch
Confidence 888888764
No 140
>PF13848 Thioredoxin_6: Thioredoxin-like domain; PDB: 3EC3_B 3BOA_A 2B5E_A 1BJX_A 2K18_A 3UEM_A 3BJ5_A 2BJX_A 2R2J_A 2L4C_A ....
Probab=27.00 E-value=1.7e+02 Score=23.79 Aligned_cols=71 Identities=25% Similarity=0.307 Sum_probs=44.5
Q ss_pred EEEEeCC-CCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEee-cCcccHHHHHHHHHHHHHhhhh
Q 025016 147 LVVIAHD-VDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTT-VKNEDKMEFSKILEAIKANFND 221 (259)
Q Consensus 147 LVVIA~D-vsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd-~g~eDk~~l~kLve~i~~~y~d 221 (259)
.+..-.+ .++.++. ..-.....|++...+...+..+.+.+...++++.. ...++...+.+.++.+...|.+
T Consensus 54 ~~~y~~~~~~~~~l~----~fI~~~~~P~v~~~t~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~ 126 (184)
T PF13848_consen 54 PVVYDGDKFTPEELK----KFIKKNSFPLVPELTPENFEKLFSSPKPPVLILFDNKDNESTEAFKKELQDIAKKFKG 126 (184)
T ss_dssp EEEESSSTTSHHHHH----HHHHHHSSTSCEEESTTHHHHHHSTSSEEEEEEEETTTHHHHHHHHHHHHHHHHCTTT
T ss_pred ceecccccCCHHHHH----HHHHHhccccccccchhhHHHHhcCCCceEEEEEEcCCchhHHHHHHHHHHHHHhcCC
Confidence 3334443 4454444 44578889999999998999999998754555554 3344444555555566655544
No 141
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=26.96 E-value=4.3e+02 Score=23.12 Aligned_cols=21 Identities=19% Similarity=0.069 Sum_probs=16.5
Q ss_pred HHHhhhcCCCEEEECCccchh
Q 025016 164 PALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 164 paLC~~~~VPy~~v~sK~eLG 184 (259)
-..++..||||+++-+..++-
T Consensus 60 ~~~ae~~GvP~~I~IG~~Ele 80 (202)
T cd00862 60 FNDWELKGVPLRIEIGPRDLE 80 (202)
T ss_pred HHHHHhCCCCEEEEECcchhh
Confidence 356899999999987777663
No 142
>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=26.93 E-value=1.6e+02 Score=25.38 Aligned_cols=50 Identities=22% Similarity=0.277 Sum_probs=32.0
Q ss_pred hHHHHHHHHhC--CccEEEEeCCCCch----hhHhhHHHHhhhcCCCEEEECCccch
Q 025016 133 LNHVTYLIEQN--KAQLVVIAHDVDPI----ELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 133 ~n~Vtk~Iekk--KAkLVVIA~DvsP~----elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
++.+...+.+. ++.+||++.|+... +... +-..-+..++|+..+.+.-+.
T Consensus 27 l~~~~~~i~~~~~~~d~vi~~GDl~~~~~~~~~~~-~~~~l~~~~~p~~~v~GNHD~ 82 (240)
T cd07402 27 LEAVLAHINALHPRPDLVLVTGDLTDDGSPESYER-LRELLAALPIPVYLLPGNHDD 82 (240)
T ss_pred HHHHHHHHHhcCCCCCEEEECccCCCCCCHHHHHH-HHHHHhhcCCCEEEeCCCCCC
Confidence 34555666665 88999999997542 2222 333334558999988876554
No 143
>PRK12454 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed
Probab=26.87 E-value=1.2e+02 Score=28.98 Aligned_cols=35 Identities=17% Similarity=0.351 Sum_probs=26.2
Q ss_pred cCCC----CccCCCceeecchHHHHHHHHhCCccEEEEeCCC
Q 025016 117 EGKT----VEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDV 154 (259)
Q Consensus 117 aGk~----~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~Dv 154 (259)
+|.+ +|+++|..++ ..+.+..+++.| .+||++.|.
T Consensus 156 ~g~g~RrvV~SP~P~~iv-e~~aI~~LLe~G--~IvI~~GgG 194 (313)
T PRK12454 156 AGRGWRRVVPSPDPLGIV-EIEVIKALVENG--FIVIASGGG 194 (313)
T ss_pred CCCceEEEeCCCCCcccc-CHHHHHHHHHCC--CEEEEeCCC
Confidence 4666 8899998764 567777778887 578888774
No 144
>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=26.82 E-value=1.5e+02 Score=28.86 Aligned_cols=53 Identities=17% Similarity=0.109 Sum_probs=42.5
Q ss_pred chHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCC-CEEEECCccchh
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEI-PYCIVKGKSRLG 184 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~V-Py~~v~sK~eLG 184 (259)
|..+....+++..+.-|+||-+-...+....+-..|+..++ .+..+.+-.++.
T Consensus 176 g~~~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~~~v~~V~~vP~~~e~~ 229 (456)
T TIGR03022 176 GADDALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGALHFRNVLIVPSLFGLP 229 (456)
T ss_pred ChhHHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHhCCCeEEEEeCcccccc
Confidence 43778888998999999999876555556667889999999 999999877765
No 145
>PHA02546 47 endonuclease subunit; Provisional
Probab=26.63 E-value=1.5e+02 Score=27.92 Aligned_cols=50 Identities=8% Similarity=0.127 Sum_probs=32.6
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCch------hhHhhHHH----HhhhcCCCEEEECCccc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPI------ELVVWLPA----LCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~------elv~~Lpa----LC~~~~VPy~~v~sK~e 182 (259)
+..+...++..++.+||||+|+-.. +...++.. .-...+||++.+.+.=+
T Consensus 28 l~~ii~~a~~~~vD~VliaGDlfD~~~~~~~~~~~~~~~~l~~~L~~~gi~v~~I~GNHD 87 (340)
T PHA02546 28 IKQAIEYSKAHGITTWIQLGDTFDVRKAITQNTMNFVREKIFDLLKEAGITLHVLVGNHD 87 (340)
T ss_pred HHHHHHHHHHcCCCEEEECCcccCCCCCCCHHHHHHHHHHHHHHHHHCCCeEEEEccCCC
Confidence 5666777788889999999998432 11123322 23456899998765543
No 146
>PRK06278 cobyrinic acid a,c-diamide synthase; Validated
Probab=26.48 E-value=1.5e+02 Score=29.89 Aligned_cols=53 Identities=11% Similarity=0.108 Sum_probs=34.0
Q ss_pred CCceeecc-----hHHHHHH-------HHhCCcc-EEEEeCCCCchhhHhhHHHHhhhcCCCEEEE
Q 025016 125 KPIVVKYG-----LNHVTYL-------IEQNKAQ-LVVIAHDVDPIELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 125 kp~~l~~G-----~n~Vtk~-------IekkKAk-LVVIA~DvsP~elv~~LpaLC~~~~VPy~~v 177 (259)
-|.+|+.. ++++.-. ++..... .-||.+.+++......+..+.++.|||++=+
T Consensus 351 ~PVILV~~~~~g~i~~~~~~i~G~~~~l~~~~i~i~GVIlN~v~~~~~~~~~~~~le~~gvpVLG~ 416 (476)
T PRK06278 351 FPVYIVSSCSKSGIEGAFVESMAYYSLLKKMGVKVEGIILNKVYNMEIFEKVKKIAENSNINLIGV 416 (476)
T ss_pred CCEEEEEcCCCChHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCcHHHHHHHHHHHHhcCCCEEEe
Confidence 46666652 3666443 3333433 3577799987666666677778889999855
No 147
>PRK03980 flap endonuclease-1; Provisional
Probab=26.35 E-value=93 Score=29.24 Aligned_cols=39 Identities=21% Similarity=0.248 Sum_probs=28.6
Q ss_pred eCCCCchhhHhhHHHHhhhcCCCEEEECCc--cchhhhhcCC
Q 025016 151 AHDVDPIELVVWLPALCRKMEIPYCIVKGK--SRLGSIVHKK 190 (259)
Q Consensus 151 A~DvsP~elv~~LpaLC~~~~VPy~~v~sK--~eLG~avGkk 190 (259)
+.++++ +.+..+..+++.+||||+...+- ++++.++...
T Consensus 77 ~~~vt~-~~~~~~k~lL~~~GIp~i~AP~EAEAq~A~L~~~g 117 (292)
T PRK03980 77 SSRLTD-EIVEDSKKLLDLMGIPYVQAPSEGEAQAAYMAKKG 117 (292)
T ss_pred cccCCH-HHHHHHHHHHHHCCCCEEecCchHHHHHHHHHHCC
Confidence 335555 46677889999999999998875 4677777544
No 148
>PF13932 GIDA_assoc_3: GidA associated domain 3; PDB: 3CES_C 3CP2_A 3G05_A 3CP8_A 2ZXI_B 2ZXH_A.
Probab=26.25 E-value=48 Score=24.88 Aligned_cols=49 Identities=24% Similarity=0.321 Sum_probs=26.3
Q ss_pred cccchhhHhHHhHH---HHhhhccCCcccccccccCChhhHHHHHhhhhcCCccc
Q 025016 49 VKWPKAIRIQRQRR---ILRQRLKVPPALNQFTKTLDKNLASSLFKLLLKYRPED 100 (259)
Q Consensus 49 vkwp~yi~lqrq~~---il~~~lkvpp~inqf~~~ld~~~a~~l~kl~~kyrPe~ 100 (259)
||+=.|+.-|.|.. --...+++|+.||-.. + .+.......-|.+.+|+|
T Consensus 1 iKY~~Yi~rq~~~i~~~~~~e~~~iP~~~dy~~--i-~~LS~E~~ekL~~~rP~T 52 (72)
T PF13932_consen 1 IKYEGYIERQQQEIERLRKDESLKIPEDFDYSK--I-PGLSNEAREKLEKIRPRT 52 (72)
T ss_dssp HHTHHHHHHHHHHCHHHHHHHTSB--TTS-CCC--S-TT--CHHHHHHHHH--SC
T ss_pred CCcHHHHHHHHHHHHHHHHHhCCCCcCCCChhh--c-cccHHHHHHHHHhcCCCC
Confidence 35556777665543 2345678999997653 2 145556666678999999
No 149
>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=26.10 E-value=1.4e+02 Score=24.94 Aligned_cols=22 Identities=9% Similarity=0.161 Sum_probs=17.8
Q ss_pred hhHhhHHHHhhhcCCCEEEECC
Q 025016 158 ELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 158 elv~~LpaLC~~~~VPy~~v~s 179 (259)
.+...+..+|+++|||++-+..
T Consensus 133 ~~~~~~~~~a~~~~~~~vD~~~ 154 (198)
T cd01821 133 DYPAAMRELAAEEGVPLIDLNA 154 (198)
T ss_pred hHHHHHHHHHHHhCCCEEecHH
Confidence 4566789999999999987654
No 150
>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=25.80 E-value=62 Score=25.48 Aligned_cols=42 Identities=12% Similarity=0.158 Sum_probs=30.8
Q ss_pred HHHHHHHHhCCccEEEEeCCCCc---hhhHhhHHHHhhhcCCCEE
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDP---IELVVWLPALCRKMEIPYC 175 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP---~elv~~LpaLC~~~~VPy~ 175 (259)
..+..+|++++..|||-..+-+. .+--..+...|-+++|||+
T Consensus 61 ~~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~i 105 (116)
T cd01423 61 PSLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLI 105 (116)
T ss_pred hhHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCccc
Confidence 67999999999999998544222 1112347888999999996
No 151
>PRK04322 peptidyl-tRNA hydrolase; Provisional
Probab=25.78 E-value=3.6e+02 Score=21.87 Aligned_cols=67 Identities=13% Similarity=0.252 Sum_probs=39.8
Q ss_pred HHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHH
Q 025016 137 TYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKI 211 (259)
Q Consensus 137 tk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kL 211 (259)
......|.++.|+=+.| +.++.. |-..++..|||++.+.+--+-- +--.+.||+|+ |+.+....+++
T Consensus 40 ~~W~~~G~~Kvvlkv~~--~~el~~-l~~~a~~~~l~~~~v~DAG~Te--i~~gs~Tvlai---gP~~~~~i~~i 106 (113)
T PRK04322 40 EEWLNEGQKKVVLKVNS--EEELLE-LKEKAERLGLPTALIRDAGLTQ--LPPGTVTALGI---GPAPEEKIDKI 106 (113)
T ss_pred HHHHHCCCcEEEEeCCC--HHHHHH-HHHHHHHcCCCEEEEEeCCCcc--cCCCCcEEEEe---CCCCHHHHHHh
Confidence 34455677777776665 444533 7888899999999987632211 11123577876 44444444443
No 152
>COG0549 ArcC Carbamate kinase [Amino acid transport and metabolism]
Probab=25.62 E-value=1.3e+02 Score=28.94 Aligned_cols=116 Identities=18% Similarity=0.293 Sum_probs=59.7
Q ss_pred cCCC----CccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC--ccchhhhhcCC
Q 025016 117 EGKT----VEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG--KSRLGSIVHKK 190 (259)
Q Consensus 117 aGk~----~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s--K~eLG~avGkk 190 (259)
+|.+ +|+++|..+ ...+.+..++++|. +||.+.-- -+-++. .-....||--+|=++ .+.|...++-.
T Consensus 155 ~~rG~RRVVpSP~P~~I-vE~~~Ik~L~~~g~--vVI~~GGG-GIPVv~---~~~~~~GVeAVIDKDlasalLA~~i~AD 227 (312)
T COG0549 155 AGRGYRRVVPSPKPVRI-VEAEAIKALLESGH--VVIAAGGG-GIPVVE---EGAGLQGVEAVIDKDLASALLAEQIDAD 227 (312)
T ss_pred CCCCeeEecCCCCCccc-hhHHHHHHHHhCCC--EEEEeCCC-CcceEe---cCCCcceeeEEEccHHHHHHHHHHhcCC
Confidence 5664 889999876 47788888888884 44444432 110000 000011233333221 23455545444
Q ss_pred ceEEEEEee-------cCcccHHHHHHHH-HHHHHhhhhhhHhhhhhcCCCCCCchhHHHHHHHH
Q 025016 191 TASVLCLTT-------VKNEDKMEFSKIL-EAIKANFNDKYEELRKKWGGGIMGSKSQAKTKAKE 247 (259)
Q Consensus 191 ~~a~VAitd-------~g~eDk~~l~kLv-e~i~~~y~d~y~e~~~~wgg~~lg~ks~~~~~k~~ 247 (259)
. -+.+|| .|.+++..|+.+- +.++ .|.+ .-|+.-|-||||-.|.+.=.|
T Consensus 228 ~--liILTdVd~Vy~n~gkp~q~~L~~v~~~e~~-~yl~-----eg~Fa~GSM~PKVeAai~Fv~ 284 (312)
T COG0549 228 L--LIILTDVDAVYVNFGKPNQQALDRVTVDEME-KYLA-----EGQFAAGSMGPKVEAAISFVE 284 (312)
T ss_pred E--EEEEeccchheecCCCccchhhcccCHHHHH-HHHh-----cCCCCCCCccHHHHHHHHHHH
Confidence 2 223333 4445555454432 2222 2221 248899999999988876544
No 153
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=25.32 E-value=59 Score=31.42 Aligned_cols=70 Identities=19% Similarity=0.323 Sum_probs=47.7
Q ss_pred HHHHhhhcCCCEEEECCccchhhhhc-------------CCceEEEEEeecCcc---------cHHHHHHHHHHHHHhhh
Q 025016 163 LPALCRKMEIPYCIVKGKSRLGSIVH-------------KKTASVLCLTTVKNE---------DKMEFSKILEAIKANFN 220 (259)
Q Consensus 163 LpaLC~~~~VPy~~v~sK~eLG~avG-------------kk~~a~VAitd~g~e---------Dk~~l~kLve~i~~~y~ 220 (259)
-.+|+.+.+||++.++.-+-+|.-|| ++.+-||.|+|.-.. =.|..+++|.+.-|+-
T Consensus 168 Akalane~kvp~l~vkat~liGehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTel- 246 (368)
T COG1223 168 AKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTEL- 246 (368)
T ss_pred HHHHhcccCCceEEechHHHHHHHhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhc-
Confidence 46889999999999999999999888 345668999886421 0133445555555543
Q ss_pred hhhHhhhhhcCCCCCC
Q 025016 221 DKYEELRKKWGGGIMG 236 (259)
Q Consensus 221 d~y~e~~~~wgg~~lg 236 (259)
|-|...||=...+
T Consensus 247 ---Dgi~eneGVvtIa 259 (368)
T COG1223 247 ---DGIKENEGVVTIA 259 (368)
T ss_pred ---cCcccCCceEEEe
Confidence 4566677754443
No 154
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=25.15 E-value=1.2e+02 Score=28.24 Aligned_cols=47 Identities=28% Similarity=0.386 Sum_probs=34.4
Q ss_pred ccccc-ccchhhH-hHHhHHHHhhhccCCccc----ccccccCChhhHHHHHhh
Q 025016 45 LHRYV-KWPKAIR-IQRQRRILRQRLKVPPAL----NQFTKTLDKNLASSLFKL 92 (259)
Q Consensus 45 l~~fv-kwp~yi~-lqrq~~il~~~lkvpp~i----nqf~~~ld~~~a~~l~kl 92 (259)
|+.|- +||+-+. =||||.-|.+.|=..|-| .-|. +||-.|..+|-..
T Consensus 120 L~~~~~~~P~qLSGGMrQRVaiARAL~~~P~lLLlDEPFg-ALDalTR~~lq~~ 172 (248)
T COG1116 120 LAGFEDKYPHQLSGGMRQRVAIARALATRPKLLLLDEPFG-ALDALTREELQDE 172 (248)
T ss_pred CcchhhcCccccChHHHHHHHHHHHHhcCCCEEEEcCCcc-hhhHHHHHHHHHH
Confidence 33343 6898665 489999999999988877 5564 6888887776444
No 155
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=24.89 E-value=5.9e+02 Score=23.98 Aligned_cols=149 Identities=18% Similarity=0.195 Sum_probs=86.2
Q ss_pred HHHhhhhcCCcccHHHHHHHHHHHHHHHHcCCCCc----cCCCceeecchHHHHHHH-HhCCccEEEEeCCCCchhhHhh
Q 025016 88 SLFKLLLKYRPEDRAAKKERLLKRAQAEAEGKTVE----AKKPIVVKYGLNHVTYLI-EQNKAQLVVIAHDVDPIELVVW 162 (259)
Q Consensus 88 ~l~kl~~kyrPe~k~eK~~rLl~lA~kkaaGk~~~----~kkp~~l~~G~n~Vtk~I-ekkKAkLVVIA~DvsP~elv~~ 162 (259)
.+.-|-+.+.++ +...++...+. .+..+| +=--+....|+..-.+.. +.|=-.+ |-.|+-+ |....
T Consensus 68 ~~rAL~~g~t~~----~~lel~~~~r~--~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGl--ivpDLP~-ee~~~ 138 (265)
T COG0159 68 HLRALAAGVTLE----DTLELVEEIRA--KGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGL--LVPDLPP-EESDE 138 (265)
T ss_pred HHHHHHCCCCHH----HHHHHHHHHHh--cCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEE--EeCCCCh-HHHHH
Confidence 344555566655 56667776654 333222 111122456777644444 4443333 4468844 66677
Q ss_pred HHHHhhhcCCCEEEEC----CccchhhhhcCCc-----eEEEEEeecCcccHHHHHHHHHHHHHhh------------hh
Q 025016 163 LPALCRKMEIPYCIVK----GKSRLGSIVHKKT-----ASVLCLTTVKNEDKMEFSKILEAIKANF------------ND 221 (259)
Q Consensus 163 LpaLC~~~~VPy~~v~----sK~eLG~avGkk~-----~a~VAitd~g~eDk~~l~kLve~i~~~y------------~d 221 (259)
+...|+++||-+++.- +.++|-+.+.... .++.++|.....+...+..+++.++.-- .+
T Consensus 139 ~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~~GvTG~~~~~~~~~~~~v~~vr~~~~~Pv~vGFGIs~~e 218 (265)
T COG0159 139 LLKAAEKHGIDPIFLVAPTTPDERLKKIAEAASGFIYYVSRMGVTGARNPVSADVKELVKRVRKYTDVPVLVGFGISSPE 218 (265)
T ss_pred HHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEecccccCCCcccchhHHHHHHHHHHhcCCCeEEecCcCCHH
Confidence 8999999999888643 3457777766552 3556888887776666888998888522 11
Q ss_pred hhHhhhhhcCCCCCCchhHHHHHH
Q 025016 222 KYEELRKKWGGGIMGSKSQAKTKA 245 (259)
Q Consensus 222 ~y~e~~~~wgg~~lg~ks~~~~~k 245 (259)
.-.++..-=-|-|.|+.-+..++.
T Consensus 219 ~~~~v~~~ADGVIVGSAiV~~i~~ 242 (265)
T COG0159 219 QAAQVAEAADGVIVGSAIVKIIEE 242 (265)
T ss_pred HHHHHHHhCCeEEEcHHHHHHHHh
Confidence 122233333455666666655555
No 156
>COG5482 Uncharacterized conserved protein [Function unknown]
Probab=24.71 E-value=2.5e+02 Score=25.52 Aligned_cols=91 Identities=22% Similarity=0.251 Sum_probs=56.6
Q ss_pred chHHHHHHHHhCC-ccEEEEeCCCCc----hhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCccc--
Q 025016 132 GLNHVTYLIEQNK-AQLVVIAHDVDP----IELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNED-- 204 (259)
Q Consensus 132 G~n~Vtk~IekkK-AkLVVIA~DvsP----~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eD-- 204 (259)
-++.+..++.+.+ |.+|.||.-+|. .+-...+..||+..|+-.+-|..-...| .-+.+ +-+|+
T Consensus 51 nleLilQaVdRa~~aDeVwiAar~sakgkgresd~r~r~LcRRLg~G~lgvs~~g~v~-------ilv~~---v~PepR~ 120 (229)
T COG5482 51 NLELILQAVDRAATADEVWIAARVSAKGKGRESDKRYRDLCRRLGLGMLGVSDVGDVS-------ILVGS---VTPEPRT 120 (229)
T ss_pred cHHHHHHHHHHhhhhhhhhhhhccccccccchhHHHHHHHHHHhcCceEEEeecCcee-------EEEee---cCCCCcc
Confidence 4566777777655 899999998875 2344568999999999988766533322 12222 22333
Q ss_pred -HHHHHHHHHHHHHhhhhhhHhhhhhcCCCCCCchhHHHH
Q 025016 205 -KMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQAKT 243 (259)
Q Consensus 205 -k~~l~kLve~i~~~y~d~y~e~~~~wgg~~lg~ks~~~~ 243 (259)
...-++|+ +|+.+.-|....|--+.+.+
T Consensus 121 N~krRskl~-----------~EhqrRrgdp~vGGs~r~pi 149 (229)
T COG5482 121 NPKRRSKLM-----------REHQRRRGDPAVGGSTRAPI 149 (229)
T ss_pred ChhHHHHHH-----------HHHHHhcCCCCcCCccccHH
Confidence 23345554 35666667777776655554
No 157
>KOG0368 consensus Acetyl-CoA carboxylase [Lipid transport and metabolism]
Probab=24.64 E-value=65 Score=37.48 Aligned_cols=57 Identities=25% Similarity=0.304 Sum_probs=42.3
Q ss_pred ccEEEEeCCCC-------c--hhhHhhHHHHhhhcCCCEEEE--CCccchhhhhcCCceEEEEEeecC
Q 025016 145 AQLVVIAHDVD-------P--IELVVWLPALCRKMEIPYCIV--KGKSRLGSIVHKKTASVLCLTTVK 201 (259)
Q Consensus 145 AkLVVIA~Dvs-------P--~elv~~LpaLC~~~~VPy~~v--~sK~eLG~avGkk~~a~VAitd~g 201 (259)
-++|||++|+. | ..+......|+++.+||-+++ .|-+++|-|=-...+--||..|..
T Consensus 1546 r~~iVIgNDiTfqiGSFGp~ED~lF~~aselAR~~~iPrIylaaNSGARIGlAeei~~lfkVaw~d~~ 1613 (2196)
T KOG0368|consen 1546 RDLIVIGNDVTFQIGSFGPREDLLFLAASELAREKGIPRIYLAANSGARIGLAEEIKPLFKVAWVDED 1613 (2196)
T ss_pred ceEEEEeccceEeccCCCChHHHHHHHHHHHHHhcCCCeEEEeccCccccccHHHHHHHheeeccCCC
Confidence 57999999994 2 244555778999999997764 588899977666556667777763
No 158
>cd07400 MPP_YydB Bacillus subtilis YydB and related proteins, metallophosphatase domain. YydB (BSU40220) is an uncharacterized Bacillus subtilis protein that belongs to the following Bacillus subtilis gene cluster yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB 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 productiv
Probab=24.60 E-value=1.8e+02 Score=22.94 Aligned_cols=50 Identities=28% Similarity=0.342 Sum_probs=33.1
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCch----h---hHhhHHHHhhhcCCCEEEECCccch
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPI----E---LVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~----e---lv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
++.+...++..++.+||++.|+... + ...++..++... +|+..+.+.=+.
T Consensus 24 l~~~~~~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~~~~l~~~~-~~~~~v~GNHD~ 80 (144)
T cd07400 24 LDRLLAEIKALDPDLVVITGDLTQRGLPEEFEEAREFLDALPAPL-EPVLVVPGNHDV 80 (144)
T ss_pred HHHHHHHHhccCCCEEEECCCCCCCCCHHHHHHHHHHHHHccccC-CcEEEeCCCCeE
Confidence 3455667778889999999998543 1 233344444332 699888877765
No 159
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=24.47 E-value=1.3e+02 Score=29.35 Aligned_cols=46 Identities=15% Similarity=0.153 Sum_probs=37.0
Q ss_pred CCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhc
Q 025016 143 NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188 (259)
Q Consensus 143 kKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avG 188 (259)
|..++.+|..|..-+.-+..|..+|+.+|||+..+.+..+|..++.
T Consensus 166 G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~ 211 (374)
T PRK14722 166 GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALA 211 (374)
T ss_pred CCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHH
Confidence 4457888888886555567789999999999999999888877665
No 160
>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=24.45 E-value=3.3e+02 Score=21.24 Aligned_cols=67 Identities=7% Similarity=0.159 Sum_probs=34.7
Q ss_pred EEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHH
Q 025016 147 LVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAI 215 (259)
Q Consensus 147 LVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i 215 (259)
+++|...-.-.+++. .-..|+++|+|++.+-+..+|..++.....-++-+ ..+..+...|.-|+...
T Consensus 47 ~I~iS~SG~t~e~i~-~~~~a~~~g~~iI~IT~~~~l~~~~~~~~~~~~~~-p~~~~~r~s~~~~~~~~ 113 (119)
T cd05017 47 VIAVSYSGNTEETLS-AVEQAKERGAKIVAITSGGKLLEMAREHGVPVIII-PKGLQPRAAFPYLFTAL 113 (119)
T ss_pred EEEEECCCCCHHHHH-HHHHHHHCCCEEEEEeCCchHHHHHHHcCCcEEEC-CCCCCCceeHHHHHHHH
Confidence 334444433334444 45667777888776655556776665443222222 22223445566666554
No 161
>PF04378 RsmJ: Ribosomal RNA small subunit methyltransferase D, RsmJ; InterPro: IPR007473 This is a bacterial protein of unknown function, possibly secreted.; PDB: 2OO3_A.
Probab=24.24 E-value=64 Score=29.84 Aligned_cols=95 Identities=17% Similarity=0.305 Sum_probs=48.2
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhh-cCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHH
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRK-MEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKME 207 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~-~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~ 207 (259)
.--|.-.+...+-+.+=++++ .+.-|.+... |...... ..|-+..-.+=+-|...+--+.+-.+.++|+..|++..
T Consensus 64 ~YPGSP~ia~~llR~qDrl~l--~ELHp~d~~~-L~~~~~~~~~v~v~~~DG~~~l~allPP~~rRglVLIDPpYE~~~d 140 (245)
T PF04378_consen 64 FYPGSPAIAARLLREQDRLVL--FELHPQDFEA-LKKNFRRDRRVRVHHRDGYEGLKALLPPPERRGLVLIDPPYEQKDD 140 (245)
T ss_dssp EEE-HHHHHHHHS-TTSEEEE--E--SHHHHHH-HTTS--TTS-EEEE-S-HHHHHHHH-S-TTS-EEEEE-----STTH
T ss_pred cCCCCHHHHHHhCCccceEEE--EecCchHHHH-HHHHhccCCccEEEeCchhhhhhhhCCCCCCCeEEEECCCCCCchH
Confidence 445777777777666555544 4676765432 2222222 23333333334445566666655667799999999999
Q ss_pred HHHHHHHHHHhhhhhhHhhhhhcCCCC
Q 025016 208 FSKILEAIKANFNDKYEELRKKWGGGI 234 (259)
Q Consensus 208 l~kLve~i~~~y~d~y~e~~~~wgg~~ 234 (259)
+..+++++.. .+++|-.|+
T Consensus 141 y~~v~~~l~~--------a~kR~~~G~ 159 (245)
T PF04378_consen 141 YQRVVDALAK--------ALKRWPTGV 159 (245)
T ss_dssp HHHHHHHHHH--------HHHH-TTSE
T ss_pred HHHHHHHHHH--------HHHhcCCcE
Confidence 9999999964 567888885
No 162
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=23.99 E-value=5.7e+02 Score=23.49 Aligned_cols=116 Identities=16% Similarity=0.146 Sum_probs=63.2
Q ss_pred cchHHHHHHHHhC----Ccc-EEEEeCCCCchhhHhhHHHHhhhcCCCEE-EECCccchhhhhcCCceEEEEEeecCccc
Q 025016 131 YGLNHVTYLIEQN----KAQ-LVVIAHDVDPIELVVWLPALCRKMEIPYC-IVKGKSRLGSIVHKKTASVLCLTTVKNED 204 (259)
Q Consensus 131 ~G~n~Vtk~Iekk----KAk-LVVIA~DvsP~elv~~LpaLC~~~~VPy~-~v~sK~eLG~avGkk~~a~VAitd~g~eD 204 (259)
.|...+.+.|+.- ... +-||.+|+....-...+..+.+.++.++. ++.....+..+..... .+...+.++..
T Consensus 160 ~gl~~l~~~i~~~~~~~~l~~~gIV~N~~rt~~~~~~~e~l~e~~g~~ll~~Ip~d~~V~eA~~~g~--pv~~~~p~s~a 237 (295)
T PRK13234 160 YAANNIAKGILKYANSGGVRLGGLICNERQTDRELELAEALAARLGSKLIHFVPRDNIVQHAELRRM--TVIEYAPDSKQ 237 (295)
T ss_pred HHHHHHHHHHHHHhcCCCCeEEEEEecCCCCchHHHHHHHHHHHhCCceEEECCCchHHHHHHHcCC--ceEEECCCCHH
Confidence 5777776666542 122 22555576432223446677778887654 4555566666555443 22233444433
Q ss_pred HHHHHHHHHHHHHh----------hhhhhHhhhhhcCCCCCCchhHHHHHHHHH
Q 025016 205 KMEFSKILEAIKAN----------FNDKYEELRKKWGGGIMGSKSQAKTKAKEK 248 (259)
Q Consensus 205 k~~l~kLve~i~~~----------y~d~y~e~~~~wgg~~lg~ks~~~~~k~~k 248 (259)
...+..|.+.+-+. +.++.+++-+.||---|-.-|.+.++..|.
T Consensus 238 a~~y~~La~ell~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 (295)
T PRK13234 238 AGEYRALAEKIHANSGKGTIPTPITMEELEDMLMDFGIMKTDEQSLAELAAKEA 291 (295)
T ss_pred HHHHHHHHHHHHhcCCCCcCCCCCCHHHHHHHHHHHhhhhhhhhhhhccchhhh
Confidence 34556666555443 246677788899944444455555555553
No 163
>cd02429 PTH2_like Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in bacteria and eukaryotes and Pth2 present in archaea and eukaryotes. There is no functional information for this eukaryote-specific subgroup.
Probab=23.98 E-value=3.4e+02 Score=22.32 Aligned_cols=57 Identities=16% Similarity=0.095 Sum_probs=35.2
Q ss_pred hCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHH
Q 025016 142 QNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKI 211 (259)
Q Consensus 142 kkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kL 211 (259)
.|..++|+=+.|- .++.. |-..++..|||+..+ .++ --.+.||+|+ |+..+...+++
T Consensus 53 ~g~~KVVLkv~~e--~eL~~-L~~~a~~~gi~~~l~---te~----p~gt~T~Lai---gP~~~~~id~i 109 (116)
T cd02429 53 DNMHKVVLEVPDE--AALKN-LSSKLTENSIKHKLW---IEQ----PENIPTCIAL---KPYPKETVASY 109 (116)
T ss_pred CCCceEEEEeCCH--HHHHH-HHHHHHHcCCCeEEE---EEc----CCCCceEEEe---CCCCHHHHHHH
Confidence 4567777777664 34544 788899999999885 221 1234678887 34444334443
No 164
>PRK10342 glycerate kinase I; Provisional
Probab=23.91 E-value=5.3e+02 Score=25.48 Aligned_cols=73 Identities=16% Similarity=0.228 Sum_probs=46.0
Q ss_pred eeecchHHHHHHHHh----CCccEEEEeCCC-Cch----hhHhhHHHHhhhcCCCEEEECCccchhh--hhcCCceEEEE
Q 025016 128 VVKYGLNHVTYLIEQ----NKAQLVVIAHDV-DPI----ELVVWLPALCRKMEIPYCIVKGKSRLGS--IVHKKTASVLC 196 (259)
Q Consensus 128 ~l~~G~n~Vtk~Iek----kKAkLVVIA~Dv-sP~----elv~~LpaLC~~~~VPy~~v~sK~eLG~--avGkk~~a~VA 196 (259)
.+.+|++.|..++.= ..+.|||..+=. |.. ....-+-.+|++++||++.+-+.-.++. +-.....++..
T Consensus 264 ~l~~G~d~v~~~~~l~~~l~~ADLVITGEG~~D~QTl~GK~p~gVa~~A~~~~vPviai~G~~~~~~~~~~~~g~~av~~ 343 (381)
T PRK10342 264 ELKSGIEIVTTALNLEEHIHDCTLVITGEGRIDSQSIHGKVPIGVANVAKKYHKPVIGIAGSLTDDVGVVHQHGIDAVFS 343 (381)
T ss_pred EECCHHHHHHHhcCHHHHhccCCEEEECCCcCcccccCCccHHHHHHHHHHhCCCEEEEecccCCChHHHHhcCceEEEE
Confidence 378999999888732 458999887643 221 2233466789999999998877654443 11112335555
Q ss_pred Eeec
Q 025016 197 LTTV 200 (259)
Q Consensus 197 itd~ 200 (259)
+.+.
T Consensus 344 i~~~ 347 (381)
T PRK10342 344 VLTS 347 (381)
T ss_pred cCCC
Confidence 5554
No 165
>cd02407 PTH2_family Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in bacteria and eukaryotes and Pth2 present in archaea and eukaryotes.
Probab=23.90 E-value=4e+02 Score=21.65 Aligned_cols=57 Identities=16% Similarity=0.288 Sum_probs=36.0
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEE
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCL 197 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAi 197 (259)
+......|..+.|+-+.|-+ ++ .-|-..++..|+|++.+-+-..= =+--.+.||+|+
T Consensus 41 ~~~W~~~g~~KvVl~v~~~~--~l-~~l~~~a~~~gl~~~~v~DAG~T--qi~~gt~Tvlai 97 (115)
T cd02407 41 LRAWELEGQKKVVLKVPSEE--EL-LELAKKAKELGLPHSLIQDAGRT--QIPPGTPTVLAI 97 (115)
T ss_pred HHHHHhCCCcEEEEECCCHH--HH-HHHHHHHHHcCCCeEEEEECCCc--ccCCCCceEEEE
Confidence 44566677888888877743 34 33778889999999887752110 011134677775
No 166
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=23.89 E-value=3.2e+02 Score=28.99 Aligned_cols=65 Identities=14% Similarity=0.190 Sum_probs=49.9
Q ss_pred HHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc-------------chhhhhcCCceEEEEEeecC
Q 025016 137 TYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS-------------RLGSIVHKKTASVLCLTTVK 201 (259)
Q Consensus 137 tk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~-------------eLG~avGkk~~a~VAitd~g 201 (259)
.+.+.++++.+||---|++-.|.-..|..--.++|+|++.+-++. +|.+.+|-+....+|....|
T Consensus 74 r~~ll~~~~D~ivnVvDAtnLeRnLyltlQLlE~g~p~ilaLNm~D~A~~~Gi~ID~~~L~~~LGvPVv~tvA~~g~G 151 (653)
T COG0370 74 RDFLLEGKPDLIVNVVDATNLERNLYLTLQLLELGIPMILALNMIDEAKKRGIRIDIEKLSKLLGVPVVPTVAKRGEG 151 (653)
T ss_pred HHHHhcCCCCEEEEEcccchHHHHHHHHHHHHHcCCCeEEEeccHhhHHhcCCcccHHHHHHHhCCCEEEEEeecCCC
Confidence 456788889999999999888777777777788899988766554 46677777777777777766
No 167
>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=23.88 E-value=2e+02 Score=22.24 Aligned_cols=39 Identities=18% Similarity=0.124 Sum_probs=23.7
Q ss_pred ccEEEEeCCCCc--hhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 145 AQLVVIAHDVDP--IELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 145 AkLVVIA~DvsP--~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
+.++|+.-|++. ......+...++..++|++++.+|.++
T Consensus 77 ~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~ 117 (157)
T cd01894 77 ADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDN 117 (157)
T ss_pred CCEEEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECccc
Confidence 455555555532 112223445566778999999998875
No 168
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=23.84 E-value=4.4e+02 Score=26.30 Aligned_cols=44 Identities=16% Similarity=0.074 Sum_probs=25.9
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccch
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
+...+++......+--.|-++ ... -..+...||||+++-+..++
T Consensus 307 l~~~Lr~~girv~lD~r~~s~---gkk-~k~Ae~~GvP~~IiIG~~El 350 (472)
T TIGR00408 307 VRSRLKKAGFRVHIDDRDNRP---GRK-FYQWEIKGIPLRIEVGPNDI 350 (472)
T ss_pred HHHHHHHCCCEEEEECCCCCH---HHH-HHHHHHCCCCEEEEECcchh
Confidence 444555544444443333333 332 35678899999988877765
No 169
>PRK09453 phosphodiesterase; Provisional
Probab=23.73 E-value=1.7e+02 Score=24.54 Aligned_cols=46 Identities=22% Similarity=0.205 Sum_probs=28.6
Q ss_pred hHHHHHHHHhCCccEEEEeCCCC-------------chhhHhhHHHHhhhcCCCEEEECCccc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVD-------------PIELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~Dvs-------------P~elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
.+.+...++...+..||++.|+- |.++. .+.++.++|+..|.+.-+
T Consensus 16 ~~~~l~~~~~~~~d~ii~lGDi~~~~~~~~~~~~~~~~~~~----~~l~~~~~~v~~V~GNhD 74 (182)
T PRK09453 16 TEKALELFAQSGADWLVHLGDVLYHGPRNPLPEGYAPKKVA----ELLNAYADKIIAVRGNCD 74 (182)
T ss_pred HHHHHHHHHhcCCCEEEEcccccccCcCCCCccccCHHHHH----HHHHhcCCceEEEccCCc
Confidence 45566667777788888888873 22222 223455667777776544
No 170
>PF10111 Glyco_tranf_2_2: Glycosyltransferase like family 2; InterPro: IPR019290 This conserved domain is found in a set of prokaryotic proteins including putative glucosyltransferases, which are involved in bacterial capsule biosynthesis [, ].
Probab=23.65 E-value=2.3e+02 Score=25.65 Aligned_cols=66 Identities=15% Similarity=0.174 Sum_probs=40.7
Q ss_pred EEEeCCCCchhhHhhHHHHhhhcCCC-EEEECCcc-chhhhhcC------CceEEEEEeecCc-ccHHHHHHHHH
Q 025016 148 VVIAHDVDPIELVVWLPALCRKMEIP-YCIVKGKS-RLGSIVHK------KTASVLCLTTVKN-EDKMEFSKILE 213 (259)
Q Consensus 148 VVIA~DvsP~elv~~LpaLC~~~~VP-y~~v~sK~-eLG~avGk------k~~a~VAitd~g~-eDk~~l~kLve 213 (259)
|||+.|-++.+....|..+|+..++. |+...+.. .+|.+..+ .+.-.|.++|+.- =+.+.+.+++.
T Consensus 37 iIvvd~~s~~~~~~~l~~~~~~~~~~~~i~~~~~~~~f~~a~arN~g~~~A~~d~l~flD~D~i~~~~~i~~~~~ 111 (281)
T PF10111_consen 37 IIVVDDGSSDEFDEELKKLCEKNGFIRYIRHEDNGEPFSRAKARNIGAKYARGDYLIFLDADCIPSPDFIEKLLN 111 (281)
T ss_pred EEEEECCCchhHHHHHHHHHhccCceEEEEcCCCCCCcCHHHHHHHHHHHcCCCEEEEEcCCeeeCHHHHHHHHH
Confidence 34555556656657789999999988 66655443 34433322 2334788888764 23456677766
No 171
>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=23.50 E-value=99 Score=25.52 Aligned_cols=51 Identities=24% Similarity=0.248 Sum_probs=34.7
Q ss_pred ceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 127 IVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 127 ~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
.+|+.-.+-.+.+|..|---+=|-+.|.+|.. -.|-++|++.+||+-.+..
T Consensus 31 T~LIED~EPL~~~i~AGvefieVYg~~~~p~~--~~ll~~c~~r~Ipvrlv~~ 81 (115)
T PF04705_consen 31 TTLIEDPEPLTHSIRAGVEFIEVYGSDGSPVP--PELLAACRQRGIPVRLVDS 81 (115)
T ss_dssp EEEEESHHHHHHHHCTT-EEEEEEEETTS-----CCCCHHHHCTT--EEEE-H
T ss_pred eeeecCchHHHHHHhcCcEEEEEeeecCCCCC--hHHHHHHHhcCCceEEecH
Confidence 35777778888888888777777888888743 3467999999999987654
No 172
>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=23.42 E-value=4.2e+02 Score=21.71 Aligned_cols=49 Identities=22% Similarity=0.274 Sum_probs=31.2
Q ss_pred HHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc----------chhhhhcCC
Q 025016 137 TYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS----------RLGSIVHKK 190 (259)
Q Consensus 137 tk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~----------eLG~avGkk 190 (259)
...|-+=+..|||......+ + +....++.|+|++.+.... .||+++|+.
T Consensus 53 ~E~l~~l~PDlii~~~~~~~-~----~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~lg~~~g~~ 111 (195)
T cd01143 53 VEKIVALKPDLVIVSSSSLA-E----LLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAE 111 (195)
T ss_pred HHHHhccCCCEEEEcCCcCH-H----HHHHHHHcCCcEEEeCCCCCHHHHHHHHHHHHHHhCCh
Confidence 34455667888877543322 2 3455688899987775432 578888765
No 173
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=23.22 E-value=2e+02 Score=27.10 Aligned_cols=48 Identities=19% Similarity=0.313 Sum_probs=34.2
Q ss_pred CCceeecch----HHHHHHHHhCC--ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC
Q 025016 125 KPIVVKYGL----NHVTYLIEQNK--AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 125 kp~~l~~G~----n~Vtk~IekkK--AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~ 178 (259)
|-.+++||. .....+++.|. +.++++-+|-.. +..+|+++|||++.+.
T Consensus 95 kiavl~Sg~g~nl~al~~~~~~~~l~~~i~~visn~~~------~~~~A~~~gIp~~~~~ 148 (289)
T PRK13010 95 KVVIMVSKFDHCLNDLLYRWRMGELDMDIVGIISNHPD------LQPLAVQHDIPFHHLP 148 (289)
T ss_pred EEEEEEeCCCccHHHHHHHHHCCCCCcEEEEEEECChh------HHHHHHHcCCCEEEeC
Confidence 445667775 45556667775 788888888632 2488999999999865
No 174
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=23.16 E-value=2.2e+02 Score=26.39 Aligned_cols=87 Identities=26% Similarity=0.331 Sum_probs=52.8
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC----CccchhhhhcCCc----e-EEEEEeecC
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK----GKSRLGSIVHKKT----A-SVLCLTTVK 201 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~----sK~eLG~avGkk~----~-a~VAitd~g 201 (259)
.|++.-.+...+--+.= ||-+|..+.+. ..+-..|+++|+.++..- +.+++-..+.... + +..++|-..
T Consensus 106 ~G~e~F~~~~~~aGvdg-viipDLP~ee~-~~~~~~~~~~gi~~I~lv~PtT~~eri~~i~~~a~gFIY~vS~~GvTG~~ 183 (263)
T CHL00200 106 YGINKFIKKISQAGVKG-LIIPDLPYEES-DYLISVCNLYNIELILLIAPTSSKSRIQKIARAAPGCIYLVSTTGVTGLK 183 (263)
T ss_pred hCHHHHHHHHHHcCCeE-EEecCCCHHHH-HHHHHHHHHcCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEcCCCCCCCC
Confidence 35554443333322333 46789977554 557899999999887533 2356766665553 2 344555554
Q ss_pred cccHHHHHHHHHHHHHhh
Q 025016 202 NEDKMEFSKILEAIKANF 219 (259)
Q Consensus 202 ~eDk~~l~kLve~i~~~y 219 (259)
......+.++++.++.+.
T Consensus 184 ~~~~~~~~~~i~~ir~~t 201 (263)
T CHL00200 184 TELDKKLKKLIETIKKMT 201 (263)
T ss_pred ccccHHHHHHHHHHHHhc
Confidence 344466788888888753
No 175
>PRK00865 glutamate racemase; Provisional
Probab=22.93 E-value=3.8e+02 Score=24.33 Aligned_cols=42 Identities=21% Similarity=0.331 Sum_probs=30.4
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEE
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIV 177 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v 177 (259)
..+..+.+++..+.+||||.+..+. ..+..+-+..+||++-+
T Consensus 56 ~~~~~~~L~~~g~d~iVIaCNTa~~---~~l~~lr~~~~iPvigi 97 (261)
T PRK00865 56 TLEIVEFLLEYGVKMLVIACNTASA---VALPDLRERYDIPVVGI 97 (261)
T ss_pred HHHHHHHHHhCCCCEEEEeCchHHH---HHHHHHHHhCCCCEEee
Confidence 3455556677789999999997552 23567777789998773
No 176
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. 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 featur
Probab=22.87 E-value=1.1e+02 Score=24.73 Aligned_cols=41 Identities=17% Similarity=0.284 Sum_probs=27.2
Q ss_pred CccEEEEeCCCCc----hhhHhhHHHHhhh--cCCCEEEECCccchh
Q 025016 144 KAQLVVIAHDVDP----IELVVWLPALCRK--MEIPYCIVKGKSRLG 184 (259)
Q Consensus 144 KAkLVVIA~DvsP----~elv~~LpaLC~~--~~VPy~~v~sK~eLG 184 (259)
.+..+|+.-|++. .++..++..+-+. .++|++.+.+|.+|.
T Consensus 76 ~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~ 122 (168)
T cd01866 76 GAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE 122 (168)
T ss_pred cCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc
Confidence 3566777777754 2444555555443 379999999998874
No 177
>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=22.86 E-value=65 Score=25.77 Aligned_cols=45 Identities=16% Similarity=0.216 Sum_probs=28.0
Q ss_pred HHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~ 178 (259)
+++..+|.+-+--++++...+.-.....-+..|++..|+|++...
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEG
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecC
Confidence 445556666555555555554422344558899999999998655
No 178
>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=22.78 E-value=97 Score=27.03 Aligned_cols=35 Identities=17% Similarity=0.155 Sum_probs=27.6
Q ss_pred CCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 143 NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 143 kKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
..+.+||.|.|-- +...++-.+|+++++|++....
T Consensus 110 ~~~D~Vi~~~d~~--~~r~~l~~~~~~~~ip~i~~~~ 144 (202)
T TIGR02356 110 NNVDLVLDCTDNF--ATRYLINDACVALGTPLISAAV 144 (202)
T ss_pred hCCCEEEECCCCH--HHHHHHHHHHHHcCCCEEEEEe
Confidence 3578999998853 3456689999999999998664
No 179
>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=22.64 E-value=1.1e+02 Score=29.04 Aligned_cols=39 Identities=21% Similarity=0.337 Sum_probs=30.8
Q ss_pred HHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEE
Q 025016 136 VTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 136 Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~ 176 (259)
+..++ +...+||.+.|--...+..++-+.|.++++|+++
T Consensus 145 ~~~li--~~~DlVid~tDn~~~r~L~~iN~ac~~~~~PlV~ 183 (318)
T TIGR03603 145 LKDLL--KDYNYIIICTEHSNISLLRGLNKLSKETKKPNTI 183 (318)
T ss_pred HHHHh--CCCCEEEECCCCccHhHHHHHHHHHHHHCCCEEE
Confidence 34444 3478999999987666666789999999999985
No 180
>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=22.52 E-value=1.8e+02 Score=23.86 Aligned_cols=53 Identities=21% Similarity=0.370 Sum_probs=33.5
Q ss_pred EEEEeCCC--CchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhh
Q 025016 147 LVVIAHDV--DPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANF 219 (259)
Q Consensus 147 LVVIA~Dv--sP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y 219 (259)
.|||+.|. +|.+++.++- ..+-|+. |+ -||-+..=.|++ +...++++.+|..+
T Consensus 1 ~ivl~~~~~v~Ps~l~~~~~----~~~~~v~-iK-------------ETCFG~~i~Ge~--e~V~~~i~~iR~ld 55 (104)
T PF09875_consen 1 YIVLSSEANVSPSDLAMKLY----ELSLPVT-IK-------------ETCFGAMIEGEE--EEVDKVIEEIRKLD 55 (104)
T ss_pred CEEeCCCCCcCHHHHHHHHH----hcCCCce-ee-------------ecceeeEEECCH--HHHHHHHHHHHhhC
Confidence 37888885 8988877543 2234422 22 156666656643 45789999999754
No 181
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=22.46 E-value=81 Score=28.73 Aligned_cols=43 Identities=19% Similarity=0.339 Sum_probs=28.2
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEE-ECCccc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCI-VKGKSR 182 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~-v~sK~e 182 (259)
..++..++..| ++++ +.-.++| .+-..|..+++||+- +.|-.|
T Consensus 75 ~~q~~~a~~aG-a~fi-VsP~~~~-----ev~~~a~~~~ip~~PG~~TptE 118 (211)
T COG0800 75 PEQARQAIAAG-AQFI-VSPGLNP-----EVAKAANRYGIPYIPGVATPTE 118 (211)
T ss_pred HHHHHHHHHcC-CCEE-ECCCCCH-----HHHHHHHhCCCcccCCCCCHHH
Confidence 45667777777 7776 4444544 356789999999983 334333
No 182
>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=22.36 E-value=2.6e+02 Score=18.92 Aligned_cols=45 Identities=18% Similarity=0.229 Sum_probs=31.0
Q ss_pred HHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCc
Q 025016 135 HVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGK 180 (259)
Q Consensus 135 ~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK 180 (259)
.+...+++......++=-|-++ +....|..+.....+|.+++.++
T Consensus 14 ~~~~~L~~~~i~y~~~dv~~~~-~~~~~l~~~~g~~~~P~v~i~g~ 58 (60)
T PF00462_consen 14 KAKEFLDEKGIPYEEVDVDEDE-EAREELKELSGVRTVPQVFIDGK 58 (60)
T ss_dssp HHHHHHHHTTBEEEEEEGGGSH-HHHHHHHHHHSSSSSSEEEETTE
T ss_pred HHHHHHHHcCCeeeEcccccch-hHHHHHHHHcCCCccCEEEECCE
Confidence 4556677777776666555555 45566666667788999998764
No 183
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=22.32 E-value=3.9e+02 Score=26.79 Aligned_cols=29 Identities=17% Similarity=0.395 Sum_probs=26.7
Q ss_pred eeecchHHHHHHHHhCCccEEEEeCCCCc
Q 025016 128 VVKYGLNHVTYLIEQNKAQLVVIAHDVDP 156 (259)
Q Consensus 128 ~l~~G~n~Vtk~IekkKAkLVVIA~DvsP 156 (259)
....|..+|..+++-|-+...+|..|.+-
T Consensus 295 la~yG~~~vr~aL~~gaVd~llv~Edl~~ 323 (411)
T COG1503 295 LAVYGEEEVREALEMGAVDTLLVSEDLEK 323 (411)
T ss_pred eeecchHHHHHHHHhcccceEEeeccccc
Confidence 46799999999999999999999999873
No 184
>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=22.31 E-value=2.4e+02 Score=21.28 Aligned_cols=64 Identities=13% Similarity=0.195 Sum_probs=41.3
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC-ccchhhhhcCC------ceEEEEEeecC
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG-KSRLGSIVHKK------TASVLCLTTVK 201 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s-K~eLG~avGkk------~~a~VAitd~g 201 (259)
+++.....+...+++|.|..|-.. -+..+++.+++|+-++.+ ..++....|.. ..-++-|+|.+
T Consensus 48 l~~~~~~~~~~~~~vi~is~d~~~-----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~p~~~lid~~ 118 (124)
T PF00578_consen 48 LNELYKKYKDKGVQVIGISTDDPE-----EIKQFLEEYGLPFPVLSDPDGELAKAFGIEDEKDTLALPAVFLIDPD 118 (124)
T ss_dssp HHHHHHHHHTTTEEEEEEESSSHH-----HHHHHHHHHTCSSEEEEETTSHHHHHTTCEETTTSEESEEEEEEETT
T ss_pred HHHHhhhhccceEEeeeccccccc-----chhhhhhhhccccccccCcchHHHHHcCCccccCCceEeEEEEECCC
Confidence 344445556667888888886422 246677888888877664 56788888776 33345555543
No 185
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=22.28 E-value=1.7e+02 Score=28.23 Aligned_cols=52 Identities=21% Similarity=0.373 Sum_probs=42.0
Q ss_pred cchHHHHHHHHhCCccEEEEeCCCCch------------------hhHhhHHHHhhhcCCCEEEECCccch
Q 025016 131 YGLNHVTYLIEQNKAQLVVIAHDVDPI------------------ELVVWLPALCRKMEIPYCIVKGKSRL 183 (259)
Q Consensus 131 ~G~n~Vtk~IekkKAkLVVIA~DvsP~------------------elv~~LpaLC~~~~VPy~~v~sK~eL 183 (259)
++...++.+|+++ ..+-|+|.|.+|. +.+.|+-..|++++|-+++-.-..++
T Consensus 9 s~~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~~P~~~~~~ 78 (329)
T PF15632_consen 9 SSQRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVFVPGRNREL 78 (329)
T ss_pred ccHHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEEEcCccHHH
Confidence 5677888899998 8888898888653 67889999999999999776654444
No 186
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.99 E-value=47 Score=26.15 Aligned_cols=32 Identities=16% Similarity=0.147 Sum_probs=22.4
Q ss_pred ccHHHHHHHHHHHH----Hh------hhhhhHhhhhhcCCCC
Q 025016 203 EDKMEFSKILEAIK----AN------FNDKYEELRKKWGGGI 234 (259)
Q Consensus 203 eDk~~l~kLve~i~----~~------y~d~y~e~~~~wgg~~ 234 (259)
=|.++|++|++-.+ .+ +.+||++--++|++.-
T Consensus 32 LDrGELdKli~r~r~pqpa~ys~~~~~~~r~dd~~y~~~~~Y 73 (88)
T COG3809 32 LDRGELDKLIERSRYPQPAEYSQPDHQHSRHDDEFYAQEEEY 73 (88)
T ss_pred ecchhHHHHHHHhcCCCCcccCCcchhcccccHHHHHHhhhh
Confidence 36678999999886 23 4556666677888753
No 187
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=21.92 E-value=1.3e+02 Score=25.53 Aligned_cols=37 Identities=11% Similarity=0.279 Sum_probs=20.8
Q ss_pred HHHHHHHHhCCccEEEEe-CCCCchhhHhhHHHHhhhc
Q 025016 134 NHVTYLIEQNKAQLVVIA-HDVDPIELVVWLPALCRKM 170 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA-~DvsP~elv~~LpaLC~~~ 170 (259)
+...++|++.+..+|+|+ ...+-..+...+..+-++.
T Consensus 53 ~~l~~~i~~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~ 90 (150)
T PF14639_consen 53 ERLKKFIEKHKPDVIAVGGNSRESRKLYDDVRDIVEEL 90 (150)
T ss_dssp HHHHHHHHHH--SEEEE--SSTHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHcCCeEEEEcCCChhHHHHHHHHHHHHHHh
Confidence 455677888888888884 3333344555555555554
No 188
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=21.81 E-value=1.6e+02 Score=27.06 Aligned_cols=117 Identities=13% Similarity=0.152 Sum_probs=62.6
Q ss_pred CCccccccc-----ccCChhhHHHHHhhhhcCCcccH-HHHHHHHHHHHHHHHcCCC--C-ccCCC-ceeecch------
Q 025016 70 VPPALNQFT-----KTLDKNLASSLFKLLLKYRPEDR-AAKKERLLKRAQAEAEGKT--V-EAKKP-IVVKYGL------ 133 (259)
Q Consensus 70 vpp~inqf~-----~~ld~~~a~~l~kl~~kyrPe~k-~eK~~rLl~lA~kkaaGk~--~-~~kkp-~~l~~G~------ 133 (259)
.||.+.++. .-++...+.+|.+-+..+.+... .+-....| ++. -.... . ...++ .++..|-
T Consensus 132 ~~~~l~~l~~~L~~~gv~~~la~~L~~~l~~~~~~~~~~~~~~~~l--~~~-l~~~~~~~~~~~~~~vi~~vGptGvGKT 208 (282)
T TIGR03499 132 RDPEGAKLLERLLRAGVSPELARELLEKLPERADAEDAWRWLREAL--EKM-LPVKPEEDEILEQGGVIALVGPTGVGKT 208 (282)
T ss_pred cCHHHHHHHHHHHHCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHH--HHH-hccCCccccccCCCeEEEEECCCCCCHH
Confidence 566666653 34566777788777765543321 12222222 121 11111 1 11223 3444452
Q ss_pred ----HHHHHHHHh-CCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcC
Q 025016 134 ----NHVTYLIEQ-NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHK 189 (259)
Q Consensus 134 ----n~Vtk~Iek-kKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGk 189 (259)
+-...+..+ |.-+..||..|-.-+.-+..+..+++.+|+|+..+.+..+|..++..
T Consensus 209 Tt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~ 269 (282)
T TIGR03499 209 TTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDR 269 (282)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHH
Confidence 122223334 45678888888644444566788899999999877776677666653
No 189
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=21.81 E-value=2e+02 Score=31.01 Aligned_cols=62 Identities=19% Similarity=0.170 Sum_probs=45.1
Q ss_pred HhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCc
Q 025016 141 EQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKN 202 (259)
Q Consensus 141 ekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~ 202 (259)
..|..++.+|+.|..-+.-...+..+++.+|||+..+.+..+|-.++..-.---+.|+|--.
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 34455788999998877677789999999999998888888877766533211355666543
No 190
>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=21.69 E-value=2.6e+02 Score=21.65 Aligned_cols=44 Identities=11% Similarity=0.097 Sum_probs=30.9
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCE
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPY 174 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy 174 (259)
...|..+.+..++.....++++.++.+.. -.. +....+.+|++.
T Consensus 15 ~ipga~e~l~~L~~~g~~~~~lTNns~~s-~~~-~~~~L~~~Gi~~ 58 (101)
T PF13344_consen 15 PIPGAVEALDALRERGKPVVFLTNNSSRS-REE-YAKKLKKLGIPV 58 (101)
T ss_dssp E-TTHHHHHHHHHHTTSEEEEEES-SSS--HHH-HHHHHHHTTTT-
T ss_pred cCcCHHHHHHHHHHcCCCEEEEeCCCCCC-HHH-HHHHHHhcCcCC
Confidence 56799999999999999999999997653 222 233337899995
No 191
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=21.66 E-value=1.9e+02 Score=27.74 Aligned_cols=42 Identities=7% Similarity=0.105 Sum_probs=30.6
Q ss_pred ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEEC-CccchhhhhcC
Q 025016 145 AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVK-GKSRLGSIVHK 189 (259)
Q Consensus 145 AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~-sK~eLG~avGk 189 (259)
.-.+|++.+..|.+ .+..+|++++||.+... .-..++..++.
T Consensus 83 ~P~iIvt~~~~~p~---~l~~~a~~~~ip~l~t~~~~~~~~~~l~~ 125 (304)
T TIGR00679 83 PPAIILSKSFTDPT---VLLQVNETYQVPILKTDLFSTELSFRLET 125 (304)
T ss_pred CCEEEEECcCCCCH---HHHHHHHHhCCcEEEeCCcHHHHHHHHHH
Confidence 44568999998763 36788999999988655 44567765554
No 192
>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=21.59 E-value=1e+02 Score=27.91 Aligned_cols=34 Identities=21% Similarity=0.202 Sum_probs=27.1
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
...+||.|.|-- +....|-.+|.+++||++....
T Consensus 114 ~~DlVvd~~D~~--~~r~~ln~~~~~~~ip~v~~~~ 147 (240)
T TIGR02355 114 EHDIVVDCTDNV--EVRNQLNRQCFAAKVPLVSGAA 147 (240)
T ss_pred cCCEEEEcCCCH--HHHHHHHHHHHHcCCCEEEEEe
Confidence 478999999863 4556789999999999997543
No 193
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=21.52 E-value=2.4e+02 Score=25.37 Aligned_cols=50 Identities=16% Similarity=0.155 Sum_probs=31.2
Q ss_pred hHHHHHHHHhC--CccEEEEeCCCCch---hhHhhHHHHhhhcCCCEEEECCccc
Q 025016 133 LNHVTYLIEQN--KAQLVVIAHDVDPI---ELVVWLPALCRKMEIPYCIVKGKSR 182 (259)
Q Consensus 133 ~n~Vtk~Iekk--KAkLVVIA~DvsP~---elv~~LpaLC~~~~VPy~~v~sK~e 182 (259)
++.++..|.+. ++.+||++.|+... +-...+.......++|++.+.+.=+
T Consensus 42 l~~~i~~i~~~~~~~D~vvitGDl~~~~~~~~~~~~~~~l~~l~~Pv~~v~GNHD 96 (275)
T PRK11148 42 YQAVLEAIRAQQHEFDLIVATGDLAQDHSSEAYQHFAEGIAPLRKPCVWLPGNHD 96 (275)
T ss_pred HHHHHHHHHhhCCCCCEEEECCCCCCCCCHHHHHHHHHHHhhcCCcEEEeCCCCC
Confidence 34445555443 58899999998542 1223344556777899888877643
No 194
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=21.48 E-value=99 Score=25.81 Aligned_cols=93 Identities=13% Similarity=0.182 Sum_probs=62.7
Q ss_pred CceeecchHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC--ccchhhhhcC--C-ceEEEEEeec
Q 025016 126 PIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG--KSRLGSIVHK--K-TASVLCLTTV 200 (259)
Q Consensus 126 p~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s--K~eLG~avGk--k-~~a~VAitd~ 200 (259)
-++|..|+-+|. ++++..+.|++.+.++.++...+-.+|..-+|-++.+.. .+.+-..+.- . ..+++-|-..
T Consensus 20 tGfLlaGvg~v~---~~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLInq~~Ae~iR~~vD~h~~~vPAvLeIpSK 96 (121)
T KOG3432|consen 20 TGFLLAGVGEVN---ENREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILINQFIAEMIRDRVDAHTQAVPAVLEIPSK 96 (121)
T ss_pred eeeeeecccccc---cCCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEhHHHHHHHHHHHHhccccCCeeEEecCC
Confidence 356778888776 788899999999999999999999999999998887653 2233333322 2 2444444433
Q ss_pred CcccHHHHHHHHHHHHHhhhh
Q 025016 201 KNEDKMEFSKILEAIKANFND 221 (259)
Q Consensus 201 g~eDk~~l~kLve~i~~~y~d 221 (259)
..-...+-+.++.-++-.|+.
T Consensus 97 dhPYd~~kDSiL~R~r~~f~~ 117 (121)
T KOG3432|consen 97 DHPYDPSKDSILRRARGLFGP 117 (121)
T ss_pred CCCCCchHHHHHHHHHhccCh
Confidence 322234556777777766654
No 195
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=21.40 E-value=3.7e+02 Score=25.79 Aligned_cols=74 Identities=8% Similarity=0.137 Sum_probs=50.6
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCCceEEEEEeecCcccHHHHHHHHHHHHHhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANF 219 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk~~a~VAitd~g~eDk~~l~kLve~i~~~y 219 (259)
++.|+|+-.+-.-..- ..|-.+|+++|.|-+.+.+-++|....=.. ..+|+||-.-+--..--.++++.+++.+
T Consensus 212 ~~Dl~iVVG~~nSSNs-~rL~eiA~~~g~~aylId~~~ei~~~w~~~-~~~VGvTAGAStPd~lV~~Vi~~l~~~~ 285 (294)
T COG0761 212 EVDLVIVVGSKNSSNS-NRLAEIAKRHGKPAYLIDDAEEIDPEWLKG-VKTVGVTAGASTPDWLVQEVIAKLRELG 285 (294)
T ss_pred cCCEEEEECCCCCccH-HHHHHHHHHhCCCeEEeCChHhCCHHHhcC-ccEEEEecCCCCCHHHHHHHHHHHHHhc
Confidence 3777777776643222 458899999999999999999988644333 3568888765544434456666666655
No 196
>PRK06553 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=21.32 E-value=4.1e+02 Score=24.53 Aligned_cols=76 Identities=16% Similarity=0.110 Sum_probs=46.2
Q ss_pred cCCcccHHHHHHHHHHHHHHHHcCCC-CccCCCceeecchHHHHHHHHhCCccEEEEeCCCCchh------------hHh
Q 025016 95 KYRPEDRAAKKERLLKRAQAEAEGKT-VEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIE------------LVV 161 (259)
Q Consensus 95 kyrPe~k~eK~~rLl~lA~kkaaGk~-~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~e------------lv~ 161 (259)
=|+|.. .....+++...+.. .|.. ++.. ..|+.++.+++++|. .|.|..|-+|.. ...
T Consensus 162 vyr~~~-n~~~d~~i~~~R~~-~g~~~i~~~-----~~~~r~l~r~Lk~g~--~v~il~DQ~~~~gv~v~FFG~~a~t~~ 232 (308)
T PRK06553 162 LFRPPN-NPYAARKVLEARRT-TMGGLVPSG-----AGAAFALAGVLERGG--HVGMLVDQKFTRGVEVTFFGRPVKTNP 232 (308)
T ss_pred EEecCC-ChHHHHHHHHHHHH-cCCCcccCC-----ChHHHHHHHHHHcCC--eEEEEecccCCCCceeccCCCcCCCCc
Confidence 467765 45566666665542 3432 2211 246889999999885 888888887532 111
Q ss_pred hHHHHhhhcCCCEEEECC
Q 025016 162 WLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 162 ~LpaLC~~~~VPy~~v~s 179 (259)
....|+...|.|++.+..
T Consensus 233 ~~a~LA~~~~apVvp~~~ 250 (308)
T PRK06553 233 LLAKLARQYDCPVHGARC 250 (308)
T ss_pred hHHHHHHHHCCCEEEEEE
Confidence 223577777777765544
No 197
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=21.27 E-value=2.1e+02 Score=27.99 Aligned_cols=21 Identities=10% Similarity=0.287 Sum_probs=13.7
Q ss_pred HHHHHHHhCCccEEEEeCCCC
Q 025016 135 HVTYLIEQNKAQLVVIAHDVD 155 (259)
Q Consensus 135 ~Vtk~IekkKAkLVVIA~Dvs 155 (259)
.+...+...++.+||||.|+-
T Consensus 30 ~l~~~i~~~~~D~viIaGDif 50 (407)
T PRK10966 30 WLLEQVQEHQVDAIIVAGDIF 50 (407)
T ss_pred HHHHHHHhcCCCEEEECCccc
Confidence 444555666677777777774
No 198
>PRK08419 lipid A biosynthesis lauroyl acyltransferase; Reviewed
Probab=21.13 E-value=5.1e+02 Score=23.63 Aligned_cols=76 Identities=16% Similarity=0.108 Sum_probs=45.8
Q ss_pred cCCcccHHHHHHHHHHHHHHHHcCCCCccCCCceeecchHHHHHHHHhCCccEEEEeCCCCch--h-h-----------H
Q 025016 95 KYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPI--E-L-----------V 160 (259)
Q Consensus 95 kyrPe~k~eK~~rLl~lA~kkaaGk~~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~DvsP~--e-l-----------v 160 (259)
-|+|... ....+++...+. ..|-.. ..-..|+..+.+++++|. +|.|..|-++. + + .
T Consensus 142 v~~~~~n-~~~~~~~~~~R~-~~g~~~-----i~~~~~~r~~l~~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~~~ 212 (298)
T PRK08419 142 VGRLLKS-APINEMISKRRE-QFGIEL-----IDKKGAMKELLKALKQGR--ALGILVDQNVVPKEGVEVKFFNKRVTHT 212 (298)
T ss_pred EEeCCCC-hHHHHHHHHHHH-HcCCee-----EECccHHHHHHHHHHcCC--eEEEEecCCCCCCCCeEEecCCCCcccc
Confidence 4777653 555566654443 234321 011347889999999886 66677666531 1 1 1
Q ss_pred hhHHHHhhhcCCCEEEECC
Q 025016 161 VWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 161 ~~LpaLC~~~~VPy~~v~s 179 (259)
.-...|+.+.|.|++.+..
T Consensus 213 ~g~a~LA~k~~apvvpv~~ 231 (298)
T PRK08419 213 TIASILARRYNALIIPVFI 231 (298)
T ss_pred hhHHHHHHHHCCCEEEEEE
Confidence 2234689999999987765
No 199
>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=21.09 E-value=5.3e+02 Score=23.28 Aligned_cols=46 Identities=20% Similarity=0.182 Sum_probs=33.1
Q ss_pred hHHHHHHHHhCCccEEEEeCCCCchh--------------hHhhHHHHhhhcCCCEEEECCc
Q 025016 133 LNHVTYLIEQNKAQLVVIAHDVDPIE--------------LVVWLPALCRKMEIPYCIVKGK 180 (259)
Q Consensus 133 ~n~Vtk~IekkKAkLVVIA~DvsP~e--------------lv~~LpaLC~~~~VPy~~v~sK 180 (259)
+..+.+++++|+ +|.+..|-++.. ...-...|+.+.|+|++.+...
T Consensus 181 ~~~~~~~Lk~g~--~v~~l~Dq~~~~~~~~~v~FfG~~a~~~~g~a~lA~~~~apvvp~~~~ 240 (295)
T PF03279_consen 181 IRELIRALKEGG--IVGLLGDQDPGKKDGVFVPFFGRPASTPTGPARLARKTGAPVVPVFAY 240 (295)
T ss_pred HHHHHHHhccCC--EEEEEECCCCCCCCceEEeECCeecccccHHHHHHHHhCCcEEEEEEE
Confidence 678889998887 888999976422 1222456788889988877653
No 200
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=20.97 E-value=5.6e+02 Score=22.37 Aligned_cols=52 Identities=12% Similarity=0.079 Sum_probs=27.8
Q ss_pred EEeCCCCchh-hHhhHHHHhhhcC-CCEEEECCccchhhhhcCCceEEEEEeecC
Q 025016 149 VIAHDVDPIE-LVVWLPALCRKME-IPYCIVKGKSRLGSIVHKKTASVLCLTTVK 201 (259)
Q Consensus 149 VIA~DvsP~e-lv~~LpaLC~~~~-VPy~~v~sK~eLG~avGkk~~a~VAitd~g 201 (259)
+-|..+.|=. +-.+|..|+.++. |-++.+.... ...-.+.+.+-++.+...|
T Consensus 109 Fya~wc~~C~~m~~~l~~LA~k~~~vkFvkI~ad~-~~~~~~i~~lPTlliyk~G 162 (192)
T cd02988 109 LYKDGIPLCRLLNQHLSELARKFPDTKFVKIISTQ-CIPNYPDKNLPTILVYRNG 162 (192)
T ss_pred EECCCCchHHHHHHHHHHHHHHCCCCEEEEEEhHH-hHhhCCCCCCCEEEEEECC
Confidence 3455565533 3356889999874 5555554432 2334454544445555544
No 201
>cd04235 AAK_CK AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an essential precursor of arginine and pyrimidine bases, in the presence of ATP, bicarbonate, and ammonia. CK is a homodimer of 33 kDa subunits and is a member of the Amino Acid Kinase Superfamily (AAK).
Probab=20.85 E-value=1.6e+02 Score=28.15 Aligned_cols=30 Identities=20% Similarity=0.366 Sum_probs=22.0
Q ss_pred CccCCCceeecchHHHHHHHHhCCccEEEEeCC
Q 025016 121 VEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHD 153 (259)
Q Consensus 121 ~~~kkp~~l~~G~n~Vtk~IekkKAkLVVIA~D 153 (259)
+|+++|..++ ..+.+..++++|- ++|++.|
T Consensus 160 V~SP~P~~iv-~~~~I~~Ll~~g~--IpI~~Gg 189 (308)
T cd04235 160 VPSPKPKDIV-EIEAIKTLVDNGV--IVIAAGG 189 (308)
T ss_pred eCCCCCcccc-CHHHHHHHHHCCC--EEEEECC
Confidence 7899998764 5666666888875 5677776
No 202
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=20.80 E-value=5.5e+02 Score=25.65 Aligned_cols=21 Identities=19% Similarity=0.088 Sum_probs=16.5
Q ss_pred HHHhhhcCCCEEEECCccchh
Q 025016 164 PALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 164 paLC~~~~VPy~~v~sK~eLG 184 (259)
-.-+...||||+++-+..+|.
T Consensus 337 ~~~ae~~GvP~~IiIG~~ele 357 (477)
T PRK08661 337 FNEWELKGVPLRIEIGPRDLE 357 (477)
T ss_pred HHHHHHCCCCEEEEECcchhh
Confidence 356889999999887777653
No 203
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=20.66 E-value=6.8e+02 Score=24.62 Aligned_cols=57 Identities=21% Similarity=0.251 Sum_probs=40.7
Q ss_pred eeecchHHHHHHHHh----CCccEEEEeCCCC-ch----hhHhhHHHHhhhcCCCEEEECCccchh
Q 025016 128 VVKYGLNHVTYLIEQ----NKAQLVVIAHDVD-PI----ELVVWLPALCRKMEIPYCIVKGKSRLG 184 (259)
Q Consensus 128 ~l~~G~n~Vtk~Iek----kKAkLVVIA~Dvs-P~----elv~~LpaLC~~~~VPy~~v~sK~eLG 184 (259)
.+++|+..|..++.= ..|.|||..+-.- .. ....-+-.+|++++||++.+.+.-..+
T Consensus 263 ~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qtl~GK~p~~Va~~A~~~~vPviai~G~v~~~ 328 (375)
T TIGR00045 263 RLKPGIDLVLELLDLEQKIKDADLVITGEGRLDRQSLMGKAPVGVAKRAKKYGVPVIAIAGSLGDG 328 (375)
T ss_pred EEccHHHHHHHhhCHHHHhcCCCEEEECCCcccccccCCchHHHHHHHHHHhCCeEEEEecccCCC
Confidence 388999999887732 4589999887532 22 223446679999999999887766555
No 204
>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=20.54 E-value=1.5e+02 Score=23.87 Aligned_cols=40 Identities=30% Similarity=0.432 Sum_probs=25.7
Q ss_pred chHHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCE
Q 025016 132 GLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPY 174 (259)
Q Consensus 132 G~n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy 174 (259)
-.+.+.+..++.++.||||..+. | ++.=+-+.+++.|||+
T Consensus 50 d~~~l~~~a~~~~idlvvvGPE~-p--L~~Gl~D~l~~~gi~v 89 (100)
T PF02844_consen 50 DPEELADFAKENKIDLVVVGPEA-P--LVAGLADALRAAGIPV 89 (100)
T ss_dssp -HHHHHHHHHHTTESEEEESSHH-H--HHTTHHHHHHHTT-CE
T ss_pred CHHHHHHHHHHcCCCEEEECChH-H--HHHHHHHHHHHCCCcE
Confidence 34566667777777777777654 3 4455667777777776
No 205
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=20.38 E-value=2.6e+02 Score=21.79 Aligned_cols=48 Identities=17% Similarity=0.252 Sum_probs=34.6
Q ss_pred eecchHHHHHHHHhCCccEEEEeCCCC-----chhhHhhHHHHhhhcCCCEEEEC
Q 025016 129 VKYGLNHVTYLIEQNKAQLVVIAHDVD-----PIELVVWLPALCRKMEIPYCIVK 178 (259)
Q Consensus 129 l~~G~n~Vtk~IekkKAkLVVIA~Dvs-----P~elv~~LpaLC~~~~VPy~~v~ 178 (259)
-.-|.+..+..++.++...||+. +.| +.+.. .+..+|..+||+++++.
T Consensus 50 ~R~~~~~ll~~~~~~~~d~ivv~-~~~Rl~R~~~~~~-~~~~~l~~~gi~l~~~~ 102 (137)
T cd00338 50 DRPGLQRLLADVKAGKIDVVLVE-KLDRLSRNLVDLL-ELLELLEAHGVRVVTAD 102 (137)
T ss_pred CCHHHHHHHHHHHcCCCCEEEEE-ecchhhCCHHHHH-HHHHHHHHCCCEEEEec
Confidence 34578889999998887766554 443 33444 46678999999998876
No 206
>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=20.29 E-value=5.7e+02 Score=22.23 Aligned_cols=38 Identities=18% Similarity=0.336 Sum_probs=31.4
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCcc
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKS 181 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~ 181 (259)
..++.+|+.|...+.-+..|..+|+.+|||++.+.+..
T Consensus 29 ~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~ 66 (196)
T PF00448_consen 29 GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTES 66 (196)
T ss_dssp T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTS
T ss_pred cccceeecCCCCCccHHHHHHHHHHHhccccchhhcch
Confidence 67788999999888888889999999999998877654
No 207
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=20.27 E-value=3.9e+02 Score=27.90 Aligned_cols=48 Identities=21% Similarity=0.321 Sum_probs=31.3
Q ss_pred eecchHHHHHHHHhCC---ccEEE--EeCCCCchhhHhhHHHHhhhcCCCEEE
Q 025016 129 VKYGLNHVTYLIEQNK---AQLVV--IAHDVDPIELVVWLPALCRKMEIPYCI 176 (259)
Q Consensus 129 l~~G~n~Vtk~IekkK---AkLVV--IA~DvsP~elv~~LpaLC~~~~VPy~~ 176 (259)
+.+|.....+.|++=+ ...|| =--|.|+.+-...|..+|++.|||++.
T Consensus 354 l~sGl~NL~RHIenvr~FGvPvVVAINKFd~DTe~Ei~~I~~~c~e~Gv~va~ 406 (557)
T PRK13505 354 LKKGFANLERHIENIRKFGVPVVVAINKFVTDTDAEIAALKELCEELGVEVAL 406 (557)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 5677777777776643 22222 233555554557799999999999863
No 208
>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=20.13 E-value=1.1e+02 Score=27.48 Aligned_cols=10 Identities=0% Similarity=0.042 Sum_probs=4.6
Q ss_pred cCCCEEEECC
Q 025016 170 MEIPYCIVKG 179 (259)
Q Consensus 170 ~~VPy~~v~s 179 (259)
.|++++.+..
T Consensus 96 ~g~~v~~~SA 105 (245)
T TIGR00157 96 IGYQVLMTSS 105 (245)
T ss_pred CCCeEEEEec
Confidence 4455444443
No 209
>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=20.11 E-value=1.2e+02 Score=28.87 Aligned_cols=40 Identities=20% Similarity=0.200 Sum_probs=30.9
Q ss_pred CccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhh
Q 025016 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGS 185 (259)
Q Consensus 144 KAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~ 185 (259)
...+||.|.|-. +...++-.+|..++||++..++..-.|+
T Consensus 90 ~~DvVv~a~Dn~--~ar~~in~~c~~~~ip~I~~gt~G~~G~ 129 (312)
T cd01489 90 QFDLVFNALDNL--AARRHVNKMCLAADVPLIESGTTGFLGQ 129 (312)
T ss_pred cCCEEEECCCCH--HHHHHHHHHHHHCCCCEEEEecCcceeE
Confidence 477899998843 4567799999999999998876554454
No 210
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=20.08 E-value=2.6e+02 Score=24.78 Aligned_cols=55 Identities=20% Similarity=0.327 Sum_probs=41.2
Q ss_pred HHHHHHHHhCCccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECCccchhhhhcCC
Q 025016 134 NHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKK 190 (259)
Q Consensus 134 n~Vtk~IekkKAkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~sK~eLG~avGkk 190 (259)
..|...|++-+=-|.|+..++-..|+..++..+.++.+||.+-.. +.+|..+|++
T Consensus 26 ~v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa--~~~~~~~~~~ 80 (170)
T COG1880 26 EVVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATA--SSMGNLIGRG 80 (170)
T ss_pred HHHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecc--hhhcchhhcc
Confidence 456677888788888888888766888999999999999986544 3445555544
No 211
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=20.05 E-value=3.2e+02 Score=20.70 Aligned_cols=35 Identities=20% Similarity=0.093 Sum_probs=25.4
Q ss_pred ccEEEEeCCCCchhhHhhHHHHhhhcCCCEEEECC
Q 025016 145 AQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKG 179 (259)
Q Consensus 145 AkLVVIA~DvsP~elv~~LpaLC~~~~VPy~~v~s 179 (259)
.+.|+|.-|-.+.+....+-.+.++++||..+.-.
T Consensus 5 ~~~v~ltfDdg~~~~~~~~~~~l~~~~i~at~fv~ 39 (123)
T PF01522_consen 5 KKSVALTFDDGYRDNYDRLLPLLKKYGIPATFFVI 39 (123)
T ss_dssp SSEEEEEEESHCHTHHHHHHHHHHHTT--EEEEE-
T ss_pred CCEEEEEEecCchhhHHHHHHHHHhcccceeeeec
Confidence 56788888887777777788899999999876544
Done!