Query 034908
Match_columns 79
No_of_seqs 104 out of 1035
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 07:34:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034908.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034908hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00123 rps6 ribosomal protei 100.0 3.3E-29 7.2E-34 157.9 7.2 74 1-75 5-78 (97)
2 PRK00453 rpsF 30S ribosomal pr 99.9 4.2E-27 9.1E-32 149.9 7.3 74 1-75 1-74 (108)
3 COG0360 RpsF Ribosomal protein 99.9 2.8E-27 6.1E-32 153.1 6.5 73 2-75 1-73 (112)
4 TIGR00166 S6 ribosomal protein 99.9 1.8E-26 3.8E-31 143.7 6.8 72 2-75 1-72 (93)
5 PF01250 Ribosomal_S6: Ribosom 99.9 5E-26 1.1E-30 140.7 6.7 73 2-75 1-73 (92)
6 KOG4708 Mitochondrial ribosoma 99.7 2.4E-17 5.2E-22 109.9 1.7 71 1-72 3-74 (141)
7 PRK14074 rpsF 30S ribosomal pr 99.6 3.9E-16 8.4E-21 112.0 4.0 59 14-75 160-218 (257)
8 PRK14074 rpsF 30S ribosomal pr 98.9 1.8E-09 4E-14 77.8 3.8 47 1-47 1-47 (257)
9 COG4911 Uncharacterized conser 83.8 3.1 6.8E-05 27.2 4.5 51 17-73 47-97 (123)
10 PF13670 PepSY_2: Peptidase pr 76.0 5.4 0.00012 23.5 3.6 43 23-71 31-75 (83)
11 PF04914 DltD_C: DltD C-termin 73.0 11 0.00025 24.7 4.8 42 5-46 51-101 (130)
12 PF03059 NAS: Nicotianamine sy 71.4 7.6 0.00016 28.6 4.0 58 3-61 192-252 (276)
13 PF04472 DUF552: Protein of un 71.2 13 0.00028 21.6 4.3 30 12-41 30-59 (73)
14 PRK02220 4-oxalocrotonate taut 69.7 9 0.00019 20.9 3.3 34 1-36 1-34 (61)
15 PRK02289 4-oxalocrotonate taut 68.4 11 0.00023 21.0 3.4 33 1-35 1-33 (60)
16 PF02680 DUF211: Uncharacteriz 64.1 6.6 0.00014 24.9 2.1 19 24-42 61-79 (95)
17 PF07876 Dabb: Stress responsi 64.1 27 0.00058 20.4 6.1 59 7-71 6-64 (97)
18 PLN03075 nicotianamine synthas 63.7 12 0.00025 27.9 3.7 57 3-61 195-255 (296)
19 PF03147 FDX-ACB: Ferredoxin-f 61.9 11 0.00023 22.8 2.8 27 12-38 67-94 (94)
20 PRK00745 4-oxalocrotonate taut 60.5 19 0.00042 19.6 3.5 32 1-34 1-32 (62)
21 PRK10239 2-amino-4-hydroxy-6-h 57.5 18 0.00039 24.5 3.5 47 3-53 54-100 (159)
22 PF11305 DUF3107: Protein of u 56.4 35 0.00077 20.5 4.3 35 11-48 17-51 (74)
23 smart00411 BHL bacterial (prok 54.8 16 0.00035 21.4 2.7 39 12-51 14-55 (90)
24 cd00591 HU_IHF Integration hos 52.7 19 0.0004 21.0 2.7 39 13-51 14-54 (87)
25 PHA01632 hypothetical protein 52.6 26 0.00056 20.4 3.1 33 13-45 27-63 (64)
26 PRK01492 rnpA ribonuclease P; 52.5 16 0.00034 23.5 2.5 30 3-32 87-116 (118)
27 PRK00194 hypothetical protein; 51.4 16 0.00034 21.5 2.2 25 19-43 13-37 (90)
28 PF10432 bact-PGI_C: Bacterial 49.5 51 0.0011 21.9 4.7 43 7-49 75-117 (155)
29 COG0089 RplW Ribosomal protein 49.4 32 0.0007 21.6 3.5 23 6-28 24-46 (94)
30 cd04893 ACT_GcvR_1 ACT domains 47.8 15 0.00033 21.2 1.7 26 19-44 11-36 (77)
31 PRK00199 ihfB integration host 47.1 29 0.00062 20.9 3.0 39 12-50 15-55 (94)
32 COG0801 FolK 7,8-dihydro-6-hyd 47.0 31 0.00068 23.6 3.4 44 4-52 55-98 (160)
33 PF10726 DUF2518: Protein of f 46.4 42 0.0009 22.8 3.9 29 6-34 83-111 (145)
34 PF10741 T2SM_b: Type II secre 46.4 28 0.00061 21.5 2.9 31 16-46 12-42 (110)
35 PRK03031 rnpA ribonuclease P; 45.9 26 0.00056 22.4 2.7 33 2-34 84-116 (122)
36 PF09373 PMBR: Pseudomurein-bi 45.5 26 0.00057 17.5 2.2 23 12-34 3-25 (33)
37 PF06877 RraB: Regulator of ri 45.4 41 0.00089 20.3 3.5 38 4-44 66-103 (104)
38 PF14257 DUF4349: Domain of un 45.4 43 0.00094 23.7 4.1 30 16-45 58-87 (262)
39 PF14832 Tautomerase_3: Putati 45.2 33 0.00072 22.6 3.2 32 1-33 1-32 (136)
40 PF07045 DUF1330: Protein of u 45.0 30 0.00065 19.5 2.7 24 17-40 2-25 (65)
41 PF13822 ACC_epsilon: Acyl-CoA 43.5 37 0.00081 19.4 2.9 41 7-47 4-48 (62)
42 PF04320 DUF469: Protein with 42.9 68 0.0015 20.4 4.2 31 4-34 17-47 (101)
43 KOG3178 Hydroxyindole-O-methyl 42.7 40 0.00087 25.8 3.7 30 12-42 247-276 (342)
44 PRK01732 rnpA ribonuclease P; 42.6 26 0.00057 22.2 2.4 30 2-31 81-110 (114)
45 cd00483 HPPK 7,8-dihydro-6-hyd 42.3 58 0.0013 20.9 4.0 46 3-53 51-96 (128)
46 PRK05738 rplW 50S ribosomal pr 42.1 50 0.0011 20.3 3.5 24 6-29 23-46 (92)
47 CHL00030 rpl23 ribosomal prote 41.9 50 0.0011 20.5 3.5 24 6-29 22-45 (93)
48 COG1888 Uncharacterized protei 41.9 19 0.0004 22.9 1.5 29 7-42 53-81 (97)
49 PRK00499 rnpA ribonuclease P; 41.8 32 0.0007 21.6 2.7 33 2-34 74-106 (114)
50 PF00885 DMRL_synthase: 6,7-di 41.5 35 0.00076 22.6 2.9 55 8-62 7-65 (144)
51 TIGR00489 aEF-1_beta translati 41.4 63 0.0014 19.9 3.8 42 10-55 10-51 (88)
52 TIGR03636 L23_arch archaeal ri 41.4 54 0.0012 19.7 3.5 31 6-42 17-47 (77)
53 PF00216 Bac_DNA_binding: Bact 41.0 31 0.00068 20.1 2.4 38 13-50 15-54 (90)
54 PF14258 DUF4350: Domain of un 40.3 57 0.0012 18.2 3.4 31 6-38 37-67 (70)
55 PF03607 DCX: Doublecortin; I 39.6 70 0.0015 17.8 4.0 51 8-61 1-52 (60)
56 PRK14548 50S ribosomal protein 39.5 58 0.0013 19.9 3.5 24 6-29 24-47 (84)
57 PF03164 Mon1: Trafficking pro 39.3 70 0.0015 24.6 4.6 34 2-35 372-405 (415)
58 PRK15312 antimicrobial resista 39.1 15 0.00032 27.6 0.9 44 5-49 126-169 (298)
59 cd00179 SynN Syntaxin N-termin 37.9 24 0.00052 22.5 1.6 18 8-25 124-141 (151)
60 PLN00176 galactinol synthase 37.9 52 0.0011 24.9 3.6 33 3-43 52-84 (333)
61 PF10664 NdhM: Cyanobacterial 37.6 55 0.0012 21.1 3.2 42 5-48 26-71 (108)
62 PRK00435 ef1B elongation facto 37.1 83 0.0018 19.3 3.9 43 10-56 10-52 (88)
63 TIGR01201 HU_rel DNA-binding p 36.5 43 0.00093 22.0 2.7 39 13-51 45-85 (145)
64 COG3966 DltD Protein involved 36.3 59 0.0013 25.5 3.7 42 5-46 310-361 (415)
65 cd04875 ACT_F4HF-DF N-terminal 36.0 32 0.00069 19.3 1.8 25 19-43 9-33 (74)
66 KOG0124 Polypyrimidine tract-b 35.8 31 0.00067 27.3 2.2 28 4-31 210-239 (544)
67 TIGR00090 iojap_ybeB iojap-lik 34.8 70 0.0015 19.7 3.4 37 4-41 29-65 (99)
68 PF13649 Methyltransf_25: Meth 34.7 57 0.0012 19.1 2.9 30 3-32 67-99 (101)
69 PF01288 HPPK: 7,8-dihydro-6-h 34.7 88 0.0019 20.0 3.9 42 3-49 50-91 (127)
70 PRK13396 3-deoxy-7-phosphohept 34.7 52 0.0011 25.1 3.3 24 6-29 1-24 (352)
71 cd04869 ACT_GcvR_2 ACT domains 34.3 37 0.0008 19.1 1.9 24 19-42 9-32 (81)
72 PTZ00191 60S ribosomal protein 34.1 69 0.0015 21.7 3.4 24 6-29 85-108 (145)
73 PRK11702 hypothetical protein; 33.3 1.2E+02 0.0027 19.5 4.4 31 4-34 23-54 (108)
74 COG2509 Uncharacterized FAD-de 33.2 50 0.0011 26.5 3.0 34 5-38 158-191 (486)
75 cd00027 BRCT Breast Cancer Sup 33.1 31 0.00067 17.8 1.4 18 24-41 16-33 (72)
76 PRK13011 formyltetrahydrofolat 32.6 97 0.0021 22.7 4.3 40 1-46 5-44 (286)
77 PF03135 CagE_TrbE_VirB: CagE, 32.5 1.5E+02 0.0032 20.0 4.9 39 4-44 149-187 (205)
78 PF09837 DUF2064: Uncharacteri 32.1 1.4E+02 0.003 19.0 4.8 57 3-79 59-120 (122)
79 PRK03459 rnpA ribonuclease P; 32.0 48 0.001 21.3 2.3 30 3-32 85-114 (122)
80 PRK00285 ihfA integration host 31.8 54 0.0012 19.8 2.4 39 12-50 16-56 (99)
81 PF14826 FACT-Spt16_Nlob: FACT 31.7 1.3E+02 0.0028 20.2 4.5 35 3-37 95-129 (163)
82 PF02913 FAD-oxidase_C: FAD li 31.6 22 0.00047 23.7 0.7 36 16-51 183-218 (248)
83 PF00276 Ribosomal_L23: Riboso 31.3 1.1E+02 0.0023 18.6 3.7 25 5-29 22-46 (91)
84 PF13740 ACT_6: ACT domain; PD 31.1 44 0.00095 19.1 1.9 24 19-42 12-35 (76)
85 COG2893 ManX Phosphotransferas 30.7 1.6E+02 0.0035 19.5 5.0 42 5-46 31-72 (143)
86 PRK04390 rnpA ribonuclease P; 30.7 46 0.00099 21.2 2.1 31 2-32 80-110 (120)
87 TIGR01498 folK 2-amino-4-hydro 30.2 1.2E+02 0.0027 19.5 4.1 45 3-52 50-94 (127)
88 PRK01964 4-oxalocrotonate taut 29.9 1E+02 0.0022 16.9 3.7 31 1-33 1-31 (64)
89 cd00292 EF1B Elongation factor 29.7 1.2E+02 0.0025 18.5 3.7 42 10-55 10-51 (88)
90 cd01514 Elongation_Factor_C El 29.5 1.1E+02 0.0025 17.2 3.9 35 2-44 2-36 (79)
91 PF00736 EF1_GNE: EF-1 guanine 29.4 73 0.0016 19.5 2.8 46 7-54 5-50 (89)
92 PF00533 BRCT: BRCA1 C Terminu 29.4 78 0.0017 17.1 2.7 12 26-37 24-35 (78)
93 cd04872 ACT_1ZPV ACT domain pr 29.3 39 0.00085 19.7 1.5 26 19-44 11-36 (88)
94 cd06150 YjgF_YER057c_UK114_lik 29.1 29 0.00063 21.1 0.9 25 15-39 27-51 (105)
95 TIGR00988 hip integration host 29.0 80 0.0017 18.8 2.9 39 12-50 15-55 (94)
96 PRK14092 2-amino-4-hydroxy-6-h 29.0 1.3E+02 0.0029 20.3 4.2 49 3-56 59-107 (163)
97 PF01042 Ribonuc_L-PSP: Endori 29.0 32 0.0007 21.3 1.1 24 16-39 42-65 (121)
98 COG4193 LytD Beta- N-acetylglu 28.8 44 0.00095 24.5 1.9 62 13-76 80-160 (245)
99 PF12965 DUF3854: Domain of un 28.8 1.5E+02 0.0032 19.2 4.3 35 5-39 70-107 (130)
100 PF07564 DUF1542: Domain of Un 28.7 67 0.0014 18.2 2.4 22 11-32 9-30 (70)
101 PF04548 AIG1: AIG1 family; I 28.6 51 0.0011 22.4 2.2 22 16-37 171-192 (212)
102 PF02410 Oligomerisation: Olig 28.4 1.3E+02 0.0029 18.3 3.8 38 3-41 28-66 (100)
103 PF08734 GYD: GYD domain; Int 28.2 63 0.0014 19.6 2.3 19 23-41 22-40 (91)
104 PF13727 CoA_binding_3: CoA-bi 28.2 98 0.0021 19.4 3.3 26 4-29 142-167 (175)
105 PF07208 DUF1414: Protein of u 28.1 23 0.00049 19.4 0.3 23 10-32 20-42 (44)
106 PF10131 PTPS_related: 6-pyruv 27.8 1E+02 0.0022 25.0 4.0 46 2-50 486-532 (616)
107 PF02829 3H: 3H domain; Inter 27.4 56 0.0012 20.5 2.0 16 27-42 14-29 (98)
108 PF05891 Methyltransf_PK: AdoM 27.2 56 0.0012 23.4 2.2 42 3-45 122-165 (218)
109 PRK00396 rnpA ribonuclease P; 27.1 83 0.0018 20.5 2.9 29 2-30 82-110 (130)
110 PF00391 PEP-utilizers: PEP-ut 27.1 13 0.00027 21.9 -1.0 30 8-37 13-42 (80)
111 TIGR02645 ARCH_P_rylase putati 26.8 44 0.00096 26.7 1.8 41 21-61 385-425 (493)
112 PF14080 DUF4261: Domain of un 26.7 1.3E+02 0.0028 17.5 3.4 43 4-47 11-54 (77)
113 PF11829 DUF3349: Protein of u 26.5 41 0.0009 21.2 1.3 21 8-28 30-50 (96)
114 TIGR00987 himA integration hos 26.4 77 0.0017 19.1 2.5 38 12-50 15-55 (96)
115 PF11148 DUF2922: Protein of u 26.3 1.3E+02 0.0029 17.0 3.5 28 12-39 24-53 (69)
116 COG3172 NadR Predicted ATPase/ 26.3 1.5E+02 0.0034 20.8 4.2 41 2-42 113-164 (187)
117 COG2123 RNase PH-related exori 26.2 46 0.00099 24.8 1.6 39 7-48 205-243 (272)
118 PRK11538 ribosome-associated p 26.0 1.1E+02 0.0023 19.3 3.1 32 3-35 33-64 (105)
119 PF03413 PepSY: Peptidase prop 26.0 1.1E+02 0.0024 16.0 2.9 38 33-71 15-58 (64)
120 PF08212 Lipocalin_2: Lipocali 25.9 1.3E+02 0.0029 19.1 3.7 25 5-29 105-131 (143)
121 cd06155 eu_AANH_C_1 A group of 25.9 36 0.00078 20.6 0.9 24 16-39 25-48 (101)
122 PF14189 DUF4312: Domain of un 25.6 1.7E+02 0.0037 18.1 4.1 50 4-53 2-54 (85)
123 PRK03987 translation initiatio 25.6 77 0.0017 23.0 2.7 37 2-38 219-256 (262)
124 PRK11026 ftsX cell division AB 25.5 1.1E+02 0.0024 22.5 3.6 24 5-28 67-90 (309)
125 PF00586 AIRS: AIR synthase re 25.4 1.5E+02 0.0033 17.3 3.8 31 8-38 62-92 (96)
126 PF03129 HGTP_anticodon: Antic 25.3 92 0.002 18.0 2.6 48 7-56 2-49 (94)
127 PF09723 Zn-ribbon_8: Zinc rib 25.3 34 0.00074 17.9 0.6 6 1-6 1-6 (42)
128 PF08915 tRNA-Thr_ED: Archaea- 25.0 1.6E+02 0.0035 19.7 4.0 47 15-77 89-135 (138)
129 COG4860 Uncharacterized protei 24.8 1.1E+02 0.0024 21.1 3.2 29 13-41 107-135 (170)
130 PRK01313 rnpA ribonuclease P; 24.8 89 0.0019 20.4 2.7 29 2-30 84-112 (129)
131 cd04884 ACT_CBS C-terminal ACT 24.3 73 0.0016 17.6 2.0 21 21-41 11-31 (72)
132 PF10869 DUF2666: Protein of u 24.3 83 0.0018 21.0 2.4 42 9-54 20-65 (131)
133 TIGR03610 RutC pyrimidine util 24.3 49 0.0011 21.1 1.3 25 15-39 48-72 (127)
134 cd04905 ACT_CM-PDT C-terminal 24.2 1.5E+02 0.0032 16.8 4.1 22 20-41 12-33 (80)
135 TIGR00824 EIIA-man PTS system, 24.1 1.9E+02 0.0041 18.0 4.2 38 10-47 35-72 (116)
136 COG1597 LCB5 Sphingosine kinas 24.1 1.5E+02 0.0032 21.7 4.0 40 6-45 5-44 (301)
137 PF03369 Herpes_UL3: Herpesvir 23.9 22 0.00048 23.7 -0.3 18 37-54 9-26 (134)
138 cd04886 ACT_ThrD-II-like C-ter 23.8 72 0.0016 16.8 1.8 22 20-41 9-30 (73)
139 PRK10753 transcriptional regul 23.8 95 0.0021 18.6 2.5 39 12-50 14-54 (90)
140 PF01842 ACT: ACT domain; Int 23.7 97 0.0021 16.2 2.4 29 19-47 10-38 (66)
141 PF02686 Glu-tRNAGln: Glu-tRNA 23.6 86 0.0019 17.5 2.2 39 14-53 1-39 (72)
142 PLN02805 D-lactate dehydrogena 23.6 1.1E+02 0.0023 24.7 3.4 39 18-56 485-523 (555)
143 TIGR00188 rnpA ribonuclease P 23.4 94 0.002 19.1 2.5 27 3-29 77-103 (105)
144 PF07983 X8: X8 domain; Inter 23.4 1.4E+02 0.003 17.7 3.1 23 7-29 2-24 (78)
145 COG4753 Response regulator con 23.4 58 0.0013 26.0 1.8 30 8-38 102-131 (475)
146 PF11964 SpoIIAA-like: SpoIIAA 23.3 1E+02 0.0023 18.1 2.6 27 8-34 5-31 (109)
147 TIGR02644 Y_phosphoryl pyrimid 23.2 53 0.0012 25.6 1.6 41 21-61 302-345 (405)
148 PF10789 Phage_RpbA: Phage RNA 23.2 1.1E+02 0.0024 19.8 2.8 27 21-49 60-86 (108)
149 cd06152 YjgF_YER057c_UK114_lik 23.1 47 0.001 20.8 1.1 23 15-37 32-55 (114)
150 PF03389 MobA_MobL: MobA/MobL 23.0 2.1E+02 0.0046 19.9 4.5 36 5-40 70-105 (216)
151 COG3575 Uncharacterized protei 22.9 2.6E+02 0.0056 19.7 4.8 30 3-32 58-87 (184)
152 CHL00192 syfB phenylalanyl-tRN 22.9 75 0.0016 26.2 2.4 28 12-39 676-704 (704)
153 PF09181 ProRS-C_2: Prolyl-tRN 22.7 76 0.0016 18.8 1.8 23 16-38 8-30 (68)
154 PRK04027 30S ribosomal protein 22.7 38 0.00082 24.0 0.6 28 20-53 57-84 (195)
155 PF00825 Ribonuclease_P: Ribon 22.6 73 0.0016 19.6 1.9 29 3-31 80-108 (111)
156 PF08434 CLCA_N: Calcium-activ 22.5 91 0.002 23.0 2.6 28 4-33 31-59 (262)
157 smart00044 CYCc Adenylyl- / gu 22.4 1.1E+02 0.0024 19.9 2.8 27 15-41 55-85 (194)
158 COG3140 Uncharacterized protei 22.4 1.1E+02 0.0024 17.7 2.4 21 12-32 6-26 (60)
159 KOG0174 20S proteasome, regula 22.3 1.5E+02 0.0031 21.5 3.5 47 10-56 162-214 (224)
160 PLN02788 phenylalanine-tRNA sy 22.1 83 0.0018 24.5 2.4 26 13-38 376-402 (402)
161 PF00076 RRM_1: RNA recognitio 21.9 66 0.0014 16.9 1.4 20 10-29 6-25 (70)
162 COG0252 AnsB L-asparaginase/ar 21.9 1.4E+02 0.0029 22.8 3.5 44 4-50 70-115 (351)
163 PF08708 PriCT_1: Primase C te 21.9 1.2E+02 0.0025 17.0 2.5 19 11-29 50-68 (71)
164 PF08242 Methyltransf_12: Meth 21.8 1.3E+02 0.0027 17.3 2.7 34 3-37 66-99 (99)
165 cd02572 PseudoU_synth_hDyskeri 21.7 1.3E+02 0.0028 20.6 3.1 29 2-30 64-92 (182)
166 PF10758 DUF2586: Protein of u 21.6 1.7E+02 0.0036 22.7 3.9 32 3-34 97-128 (363)
167 PF01383 CpcD: CpcD/allophycoc 21.6 1.6E+02 0.0035 16.4 3.1 23 16-42 33-55 (56)
168 PTZ00248 eukaryotic translatio 21.5 1.1E+02 0.0023 23.2 2.9 37 2-38 227-264 (319)
169 cd05566 PTS_IIB_galactitol PTS 21.5 75 0.0016 18.4 1.7 22 8-29 67-88 (89)
170 COG4048 Uncharacterized protei 21.5 1.7E+02 0.0037 19.2 3.4 37 10-46 3-39 (123)
171 PRK13010 purU formyltetrahydro 21.4 72 0.0016 23.5 1.9 37 1-43 7-43 (289)
172 PF09186 DUF1949: Domain of un 21.4 1.1E+02 0.0023 15.9 2.2 20 23-42 8-27 (56)
173 PF05373 Pro_3_hydrox_C: L-pro 21.3 54 0.0012 20.9 1.1 26 7-33 18-43 (101)
174 TIGR00439 ftsX putative protei 21.2 1.5E+02 0.0033 21.8 3.6 24 5-28 67-90 (309)
175 COG1093 SUI2 Translation initi 21.2 1E+02 0.0022 22.9 2.6 37 2-38 221-258 (269)
176 PF00958 GMP_synt_C: GMP synth 21.2 2E+02 0.0043 17.9 3.6 31 2-32 33-75 (93)
177 cd04467 S1_aIF5A S1_aIF5A: Arc 21.2 1.5E+02 0.0033 16.8 2.9 36 1-48 21-56 (57)
178 cd04887 ACT_MalLac-Enz ACT_Mal 21.0 96 0.0021 17.0 2.0 23 20-42 10-32 (74)
179 PF05833 FbpA: Fibronectin-bin 20.9 3E+02 0.0066 20.8 5.3 41 19-61 5-45 (455)
180 COG1942 Uncharacterized protei 20.9 1.6E+02 0.0035 17.2 3.0 28 8-35 7-34 (69)
181 cd01852 AIG1 AIG1 (avrRpt2-ind 20.6 93 0.002 20.5 2.2 22 15-36 168-189 (196)
182 PF05045 RgpF: Rhamnan synthes 20.5 1.3E+02 0.0029 23.7 3.3 30 6-35 1-31 (498)
183 PF08863 YolD: YolD-like prote 20.4 1.9E+02 0.0041 16.7 4.1 33 9-43 18-50 (92)
184 PF05941 Chordopox_A20R: Chord 20.4 1.1E+02 0.0025 23.4 2.8 50 2-51 269-324 (334)
185 PRK00629 pheT phenylalanyl-tRN 20.4 90 0.0019 26.0 2.4 27 13-39 764-791 (791)
186 PRK05820 deoA thymidine phosph 20.3 57 0.0012 25.7 1.2 41 21-61 308-352 (440)
187 PRK00061 ribH 6,7-dimethyl-8-r 20.3 1.2E+02 0.0025 20.4 2.6 56 7-62 15-74 (154)
188 TIGR00387 glcD glycolate oxida 20.1 86 0.0019 23.7 2.1 35 18-52 351-385 (413)
189 PF07237 DUF1428: Protein of u 20.1 1.5E+02 0.0032 18.9 2.9 39 6-45 5-43 (103)
190 PF03701 UPF0181: Uncharacteri 20.1 1.4E+02 0.003 16.9 2.4 21 12-32 6-26 (51)
No 1
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=99.96 E-value=3.3e-29 Score=157.93 Aligned_cols=74 Identities=23% Similarity=0.359 Sum_probs=71.6
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFE 75 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e 75 (79)
|+.||+|+|++|++++++++++++++.++|.++||+|.++++||+|+|||||+|+++|||+ ++.|+++|+.+.|
T Consensus 5 mr~YE~~~Il~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv-~~~f~~~~~~i~e 78 (97)
T CHL00123 5 LNKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYI-QMNYSGNGKLVNS 78 (97)
T ss_pred ccceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEE-EEEEEECHHHHHH
Confidence 7899999999999999999999999999999999999999999999999999999999999 9999999988766
No 2
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=99.94 E-value=4.2e-27 Score=149.86 Aligned_cols=74 Identities=26% Similarity=0.484 Sum_probs=71.4
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFE 75 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e 75 (79)
||.||+|+|++|++++++++++++++.++|.++||+|.++++||.|+|||+|+|+++|||. ++.|.++|+.+.|
T Consensus 1 M~~YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LAY~I~k~~~G~Y~-~~~f~~~~~~i~e 74 (108)
T PRK00453 1 MRKYEIVFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRRLAYPINKLRKGHYV-LLNFEAPPAAIAE 74 (108)
T ss_pred CCceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEecccccccceEcCCCcEEEEE-EEEEEeCHHHHHH
Confidence 8999999999999999999999999999999999999999999999999999999999999 8999998887765
No 3
>COG0360 RpsF Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=2.8e-27 Score=153.07 Aligned_cols=73 Identities=23% Similarity=0.462 Sum_probs=70.5
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFE 75 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e 75 (79)
++||+|||++|+++++++++.++++.++|+++||+|.++++||+|+|||||+|+++|||+ ++.|+++|+.+.|
T Consensus 1 ~~YEi~~iv~p~~see~~~~~ve~~~~~l~~~gg~i~~~e~wG~R~LAY~IkK~~~g~Y~-l~~f~~~~~~i~E 73 (112)
T COG0360 1 RKYEIVFIVRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLREGHYV-LMNFEAEPAAIAE 73 (112)
T ss_pred CceEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEehhhhhhhhcceecccceEEEE-EEEEEcCHHHHHH
Confidence 579999999999999999999999999999999999999999999999999999999999 9999999888876
No 4
>TIGR00166 S6 ribosomal protein S6. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6.
Probab=99.93 E-value=1.8e-26 Score=143.69 Aligned_cols=72 Identities=21% Similarity=0.311 Sum_probs=68.2
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFE 75 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e 75 (79)
+.||+|+|++|+++++ +++++++++++|.++||+|.++++||+|+|||||+|+++|||+ ++.|+++|+.+.|
T Consensus 1 ~~YE~~~Il~p~~~~~-~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LaY~I~k~~~G~Y~-~~~f~~~~~~i~e 72 (93)
T TIGR00166 1 RHYEIIFLVRPTLSEE-VKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQLRAHYV-LMNFSGEAQVIKE 72 (93)
T ss_pred CceeEEEEECCCCcHH-HHHHHHHHHHHHHhCCCEEEEEEeecceecceEcCCCceEEEE-EEEEEeCHHHHHH
Confidence 5799999999999988 9999999999999999999999999999999999999999999 8888888887765
No 5
>PF01250 Ribosomal_S6: Ribosomal protein S6; InterPro: IPR000529 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 [, ]. Ribosomal protein S6 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S6 is known to bind together with S18 to 16S ribosomal RNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups bacterial, red algal chloroplast and cyanelle S6 ribosomal proteins.; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 3BBN_F 3R3T_B 3F1E_F 2QNH_g 2OW8_g 3PYQ_F 3PYS_F 3PYU_F 3MR8_F 3PYN_F ....
Probab=99.93 E-value=5e-26 Score=140.69 Aligned_cols=73 Identities=27% Similarity=0.511 Sum_probs=68.8
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFE 75 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e 75 (79)
|.||+++|++|++++++++++++++.++|.++||+|+++++||.|+|||||+|+.+|||. ++.|.++|+.+.|
T Consensus 1 r~YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~LaY~i~k~~~G~Y~-~~~f~~~~~~i~e 73 (92)
T PF01250_consen 1 RKYELMFILRPDLSEEEIKKLIERVKKIIEKNGGVVRSVENWGKRRLAYPIKKQKEGHYF-LFNFDASPSAIKE 73 (92)
T ss_dssp EEEEEEEEE-TTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEEESSEETTECEEEEE-EEEEEESTTHHHH
T ss_pred CceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEeecccccCCCCCCEEEEE-EEEEEeCHHHHHH
Confidence 579999999999999999999999999999999999999999999999999999999999 8889988887765
No 6
>KOG4708 consensus Mitochondrial ribosomal protein MRP17 [Translation, ribosomal structure and biogenesis]
Probab=99.66 E-value=2.4e-17 Score=109.88 Aligned_cols=71 Identities=44% Similarity=0.662 Sum_probs=64.6
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEE-EEEEEeecCc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQL-IPTWEFNSGS 72 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~-~~~~~~~~~~ 72 (79)
||.||++.|+++...++ +...+.|..+.+.+.||+|++++++|.|.|||+|+|+++.||.+ +|.+.|.+++
T Consensus 3 mp~yelali~~~~~rpe-la~~l~rt~~~lid~ngVvrdveslG~r~Lpy~i~K~~~~h~~g~~f~m~f~ss~ 74 (141)
T KOG4708|consen 3 MPLYELALITRSLSRPE-LAKLLARTGGHLIDRNGVVRDVESLGKRELPYKIKKLDQRHYRGQHFLMTFYSSP 74 (141)
T ss_pred chHHHHHHHhcccCCHH-HHHHHHHHhhHHhhcCCeEeechhcchhhhcchHHHhcCccccceEEEEeecCCH
Confidence 89999999999775555 88889999999999999999999999999999999999999999 8899887654
No 7
>PRK14074 rpsF 30S ribosomal protein S6; Provisional
Probab=99.61 E-value=3.9e-16 Score=112.01 Aligned_cols=59 Identities=17% Similarity=0.176 Sum_probs=53.9
Q ss_pred CCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccc
Q 034908 14 VRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFE 75 (79)
Q Consensus 14 l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e 75 (79)
+++++++++++++.++|+++| +.++++||+|+|||||+|+++|||+ ++.|+++|+.+.|
T Consensus 160 v~PDQveevvEkik~iIe~~G--iikvE~WGkRkLAYpIkK~~eGyYv-L~nFeAep~aIaE 218 (257)
T PRK14074 160 NGPNQSNKTLEMLLKNIEASG--LIKYEYWGLLDFAYPINKMKSGHYC-IMCISSTSSIMDE 218 (257)
T ss_pred CCHHHHHHHHHHHHHHHHhcC--eeehHhhcchhhccccCCCCeEEEE-EEEEEcCHHHHHH
Confidence 456889999999999999995 5699999999999999999999999 9999999988776
No 8
>PRK14074 rpsF 30S ribosomal protein S6; Provisional
Probab=98.87 E-value=1.8e-09 Score=77.82 Aligned_cols=47 Identities=13% Similarity=0.192 Sum_probs=46.0
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQ 47 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~ 47 (79)
||+||.+||++|+|+..+++.+++.++.++.++||.|.+.+.||.+.
T Consensus 1 m~lYE~~fIa~q~ls~~q~e~l~e~~~~~l~~~~~~v~~~e~wG~~~ 47 (257)
T PRK14074 1 MNLYEFTFIAQQGLLQQEVEEMVQELAVLLKNIKADVMFQQIKGILE 47 (257)
T ss_pred CCccceeeeecccccHHHHHHHHHHHHHHHHhcCCeeehhhhhhhhh
Confidence 99999999999999999999999999999999999999999999875
No 9
>COG4911 Uncharacterized conserved protein [Function unknown]
Probab=83.75 E-value=3.1 Score=27.22 Aligned_cols=51 Identities=14% Similarity=0.240 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcc
Q 034908 17 ESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSI 73 (79)
Q Consensus 17 e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~ 73 (79)
++.++-.++.-.-|.+.|++|+++++ |.-.++=.+ .|.|. ++-++.|-+.+
T Consensus 47 ~e~e~q~k~~l~~i~e~G~iird~d~-glVDFpa~~----Ng~~~-~lCWK~DE~~i 97 (123)
T COG4911 47 QEYESQTKKILDEIIEKGIIIRDIDI-GLVDFPAII----NGKPA-FLCWKIDENDI 97 (123)
T ss_pred HHHHHHHHHHHHHHHHcCceeecccc-ccccchhhh----CCceE-EEEEecCCcce
Confidence 45666677777778889999999987 777777666 36677 66777776654
No 10
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=76.02 E-value=5.4 Score=23.54 Aligned_cols=43 Identities=2% Similarity=-0.010 Sum_probs=30.7
Q ss_pred HHHHhhhhccCCcEEEeeec-ccccccccccc-cCCeeeEEEEEEEEeecC
Q 034908 23 VARVGKHVYGRNGVLTDITS-FGTVQLGYGIK-KLDGRYYQLIPTWEFNSG 71 (79)
Q Consensus 23 ~~~~~~~I~~~GG~I~~~e~-wG~R~LAY~I~-k~~~g~Y~~~~~~~~~~~ 71 (79)
.+.+...+...|+.|++++- .+.. |++. ..++|.-+ .+.+||.
T Consensus 31 ~~~~~~~l~~~G~~v~~ve~~~~g~---yev~~~~~dG~~~---ev~vD~~ 75 (83)
T PF13670_consen 31 IEQAVAKLEAQGYQVREVEFDDDGC---YEVEARDKDGKKV---EVYVDPA 75 (83)
T ss_pred HHHHHHHHHhcCCceEEEEEcCCCE---EEEEEEECCCCEE---EEEEcCC
Confidence 45566667778999999987 6544 9998 66677766 4566554
No 11
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=72.97 E-value=11 Score=24.66 Aligned_cols=42 Identities=14% Similarity=0.217 Sum_probs=29.3
Q ss_pred eEEEEEcC---------CCCHHHHHHHHHHHhhhhccCCcEEEeeeccccc
Q 034908 5 DCMLLLKP---------HVRKESLMELVARVGKHVYGRNGVLTDITSFGTV 46 (79)
Q Consensus 5 E~~~I~~p---------~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R 46 (79)
+.+||+-| .++.+.++...+++..++.++|..|.+..+-|-.
T Consensus 51 ~~lfVi~PvNg~wydytG~~~~~r~~~y~kI~~~~~~~gf~v~D~s~~~y~ 101 (130)
T PF04914_consen 51 DVLFVIQPVNGKWYDYTGLSKEMRQEYYKKIKYQLKSQGFNVADFSDDEYE 101 (130)
T ss_dssp EEEEEE----HHHHHHTT--HHHHHHHHHHHHHHHHTTT--EEE-TTGTTS
T ss_pred ceEEEecCCcHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCEEEecccCCCC
Confidence 45666666 4688999999999999999999999988776654
No 12
>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2.5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.
Probab=71.39 E-value=7.6 Score=28.62 Aligned_cols=58 Identities=17% Similarity=0.229 Sum_probs=33.4
Q ss_pred ceeEEEEEcC-CCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC--eeeEE
Q 034908 3 LYDCMLLLKP-HVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD--GRYYQ 61 (79)
Q Consensus 3 ~YE~~~I~~p-~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~--~g~Y~ 61 (79)
.|+.++|..- ..+.++.+++++.+...... |+.|.--..||.|.+=||.-... .|+=+
T Consensus 192 ~~DvV~lAalVg~~~e~K~~Il~~l~~~m~~-ga~l~~Rsa~GlR~~LYp~vd~~~l~gf~~ 252 (276)
T PF03059_consen 192 EYDVVFLAALVGMDAEPKEEILEHLAKHMAP-GARLVVRSAHGLRSFLYPVVDPEDLRGFEV 252 (276)
T ss_dssp --SEEEE-TT-S----SHHHHHHHHHHHS-T-TSEEEEEE--GGGGGSS----TGGGTTEEE
T ss_pred cCCEEEEhhhcccccchHHHHHHHHHhhCCC-CcEEEEecchhhHHHcCCCCChHHCCCeEE
Confidence 5778888762 33566789999999999664 66666669999999999986642 35555
No 13
>PF04472 DUF552: Protein of unknown function (DUF552); InterPro: IPR007561 This entry represents a cell division protein, designated SepF, which is conserved in Gram-positive bacteria. SepF accumulates at the cell division site in an FtsZ-dependent manner and is required for proper septum formation []. Mutants are viable but the formation of the septum is much slower and occurs with a very abnormal morphology. This entry also includes archaeal related proteins of unknown function.; GO: 0000917 barrier septum formation; PDB: 3P04_A.
Probab=71.25 E-value=13 Score=21.57 Aligned_cols=30 Identities=17% Similarity=0.338 Sum_probs=24.2
Q ss_pred CCCCHHHHHHHHHHHhhhhccCCcEEEeee
Q 034908 12 PHVRKESLMELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e 41 (79)
..+++++.+.+++.++..+-..+|.+..+.
T Consensus 30 ~~l~~~~~~Ri~Dfl~G~~~al~G~i~~i~ 59 (73)
T PF04472_consen 30 ENLDDEEAQRILDFLSGAVYALDGDIQKIS 59 (73)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTT-EEEEEE
T ss_pred CCCCHHHHHHHHHHHhchheeeCCEEEEEc
Confidence 577888899999999999999999998873
No 14
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=69.68 E-value=9 Score=20.93 Aligned_cols=34 Identities=29% Similarity=0.287 Sum_probs=25.8
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcE
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGV 36 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~ 36 (79)
||.... -+.+..++++.+++++.+...+.+.=|.
T Consensus 1 MP~i~i--~~~~Grs~eqk~~l~~~it~~l~~~~~~ 34 (61)
T PRK02220 1 MPYVHI--KLIEGRTEEQLKALVKDVTAAVSKNTGA 34 (61)
T ss_pred CCEEEE--EEcCCCCHHHHHHHHHHHHHHHHHHhCc
Confidence 677766 2335679999999999999988865443
No 15
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=68.39 E-value=11 Score=20.99 Aligned_cols=33 Identities=21% Similarity=0.084 Sum_probs=24.3
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNG 35 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG 35 (79)
||++..-+ .|..++|+.+++.+.+.+.+.+.=|
T Consensus 1 MP~i~i~~--~~Grs~EqK~~L~~~it~a~~~~~~ 33 (60)
T PRK02289 1 MPFVRIDL--FEGRSQEQKNALAREVTEVVSRIAK 33 (60)
T ss_pred CCEEEEEE--CCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 66664333 3578999999999999998876433
No 16
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=64.07 E-value=6.6 Score=24.86 Aligned_cols=19 Identities=16% Similarity=0.309 Sum_probs=14.5
Q ss_pred HHHhhhhccCCcEEEeeec
Q 034908 24 ARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 24 ~~~~~~I~~~GG~I~~~e~ 42 (79)
+.+.+.|++.||.|.++|.
T Consensus 61 d~i~~~Ie~~Gg~IHSIDe 79 (95)
T PF02680_consen 61 DEIKEAIEELGGVIHSIDE 79 (95)
T ss_dssp HHHHHHHHHTT-EEEEEEE
T ss_pred HHHHHHHHHcCCeEEeeee
Confidence 3566778889999999986
No 17
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=64.05 E-value=27 Score=20.40 Aligned_cols=59 Identities=19% Similarity=0.209 Sum_probs=38.0
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecC
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSG 71 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~ 71 (79)
++=++|+.++++++++++.+.++-....| |++++ .|+--.+=. ..+|+=. .+.+.|++.
T Consensus 6 lfklk~~~~~~~~~~~~~~l~~l~~~ip~-i~~~~-~G~~~~~~~---~~~~~~~-~~~~~F~s~ 64 (97)
T PF07876_consen 6 LFKLKPDATEEEIEEVLEALRALKDKIPG-IVSFE-VGRNFSPED---LAKGYDH-ALVSTFESE 64 (97)
T ss_dssp EEEESTTTCHHHHHHHHHHHHHHHHHSTT-ECEEE-EEEESSTSS---TSTT-SE-EEEEEESSH
T ss_pred EEEECCCCCHHHHHHHHHHHHhcccCCCc-eEEEE-EEcccCccc---ccCCCcE-EEEEEECCH
Confidence 45678999999999999999999777766 44554 554433322 2345555 455666543
No 18
>PLN03075 nicotianamine synthase; Provisional
Probab=63.66 E-value=12 Score=27.91 Aligned_cols=57 Identities=18% Similarity=0.268 Sum_probs=40.6
Q ss_pred ceeEEEEEcC--CCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC--eeeEE
Q 034908 3 LYDCMLLLKP--HVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD--GRYYQ 61 (79)
Q Consensus 3 ~YE~~~I~~p--~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~--~g~Y~ 61 (79)
.|+++|+. . +.++++..++++++...+...|-.+... -||.|.+=||.=... +|+-+
T Consensus 195 ~FDlVF~~-ALi~~dk~~k~~vL~~l~~~LkPGG~Lvlr~-~~G~r~~LYp~v~~~~~~gf~~ 255 (296)
T PLN03075 195 EYDVVFLA-ALVGMDKEEKVKVIEHLGKHMAPGALLMLRS-AHGARAFLYPVVDPCDLRGFEV 255 (296)
T ss_pred CcCEEEEe-cccccccccHHHHHHHHHHhcCCCcEEEEec-ccchHhhcCCCCChhhCCCeEE
Confidence 57788877 3 1245778999999999987755555565 799999999954322 35555
No 19
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=61.92 E-value=11 Score=22.80 Aligned_cols=27 Identities=15% Similarity=0.134 Sum_probs=19.4
Q ss_pred CCCCHHHHHHHHHHHhhhhc-cCCcEEE
Q 034908 12 PHVRKESLMELVARVGKHVY-GRNGVLT 38 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~-~~GG~I~ 38 (79)
-.|++++++++.+++.+.+. +.|+++|
T Consensus 67 ~TLt~~ev~~~~~~i~~~l~~~~~~~lR 94 (94)
T PF03147_consen 67 RTLTDEEVNEIHDKIIKALEKKLGAELR 94 (94)
T ss_dssp S---HHHHHHHHHHHHHHHHHTCT-BEE
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhCcEeC
Confidence 46899999999999999995 4677765
No 20
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=60.51 E-value=19 Score=19.62 Aligned_cols=32 Identities=19% Similarity=0.184 Sum_probs=24.2
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
||....-+.- ..++++.+++.+.+...+.+.=
T Consensus 1 MP~i~I~~~~--grs~eqk~~l~~~it~~l~~~~ 32 (62)
T PRK00745 1 MPTFHIELFE--GRTVEQKRKLVEEITRVTVETL 32 (62)
T ss_pred CCEEEEEEcC--CCCHHHHHHHHHHHHHHHHHHc
Confidence 6776665553 4689999999999999877643
No 21
>PRK10239 2-amino-4-hydroxy-6-hydroxymethyldihyropteridine pyrophosphokinase; Provisional
Probab=57.51 E-value=18 Score=24.48 Aligned_cols=47 Identities=17% Similarity=0.302 Sum_probs=34.5
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIK 53 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~ 53 (79)
+|=+++.+..++++.++-+.++.+.... |.+++...||-|.|==.|=
T Consensus 54 FlN~v~~i~T~l~p~~Ll~~l~~IE~~~----GR~r~~~~~gpRtiDlDIL 100 (159)
T PRK10239 54 YLNAAVALETALAPEELLNHTQRIELQQ----GRVRKAERWGPRTLDLDIM 100 (159)
T ss_pred ceEEEEEEEeCCCHHHHHHHHHHHHHHh----CCCCCCcCCCCceEEEEEE
Confidence 4567888888999998887777776553 5676667999988754443
No 22
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=56.42 E-value=35 Score=20.52 Aligned_cols=35 Identities=20% Similarity=0.186 Sum_probs=25.6
Q ss_pred cCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccccc
Q 034908 11 KPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQL 48 (79)
Q Consensus 11 ~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~L 48 (79)
..+.+.+++.+ .+.+.+.+..|.+.=.|+-|+|-|
T Consensus 17 es~~s~dev~~---~v~~Al~~~~~~l~LtD~kGr~~l 51 (74)
T PF11305_consen 17 ESDQSADEVEA---AVTDALADGSGVLTLTDEKGRRVL 51 (74)
T ss_pred ecCCCHHHHHH---HHHHHHhCCCceEEEEeCCCCEEE
Confidence 34556666654 677777776699999999998854
No 23
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=54.77 E-value=16 Score=21.42 Aligned_cols=39 Identities=13% Similarity=0.174 Sum_probs=28.9
Q ss_pred CCCCHHHHHHHHHHHhhhhcc---CCcEEEeeecccccccccc
Q 034908 12 PHVRKESLMELVARVGKHVYG---RNGVLTDITSFGTVQLGYG 51 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~---~GG~I~~~e~wG~R~LAY~ 51 (79)
..++..++.++++.+.+.|.+ +|+ -+.+.+||.-++...
T Consensus 14 ~~~~~~~v~~vl~~l~~~i~~~L~~g~-~V~i~g~G~F~~~~~ 55 (90)
T smart00411 14 AGLSKKDAKAAVDAFLEIITEALKKGE-KVELRGFGTFEVRER 55 (90)
T ss_pred hCCCHHHHHHHHHHHHHHHHHHHhCCC-eEEEeCcEEEEEEee
Confidence 466788888888888877744 455 566999999887643
No 24
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=52.65 E-value=19 Score=20.97 Aligned_cols=39 Identities=15% Similarity=0.187 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHHhhhhcc--CCcEEEeeecccccccccc
Q 034908 13 HVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGYG 51 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY~ 51 (79)
.++..+++.+++.+.+.+.+ ..|.-+.+.++|.-++...
T Consensus 14 ~~~~~~v~~vl~~~~~~i~~~L~~g~~V~l~~~G~F~~~~~ 54 (87)
T cd00591 14 GLSKKDAEAAVDAFLDVITEALAKGEKVELPGFGTFEVRER 54 (87)
T ss_pred CcCHHHHHHHHHHHHHHHHHHHhCCCeEEEeCCEEEEEEEE
Confidence 56778888888888877754 4666889999999888754
No 25
>PHA01632 hypothetical protein
Probab=52.59 E-value=26 Score=20.42 Aligned_cols=33 Identities=12% Similarity=0.190 Sum_probs=24.9
Q ss_pred CCCHHHHH----HHHHHHhhhhccCCcEEEeeecccc
Q 034908 13 HVRKESLM----ELVARVGKHVYGRNGVLTDITSFGT 45 (79)
Q Consensus 13 ~l~~e~~~----~~~~~~~~~I~~~GG~I~~~e~wG~ 45 (79)
..+++++. ++++.+++.|++-.-.|.+.+.||.
T Consensus 27 kpteeelrkvlpkilkdyanmie~gk~ki~ds~ewgi 63 (64)
T PHA01632 27 KPTEEELRKVLPKILKDYANMIENGKIKILDSKEWGI 63 (64)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhcCceEEeccccccc
Confidence 34566654 5667888999987778889999995
No 26
>PRK01492 rnpA ribonuclease P; Reviewed
Probab=52.50 E-value=16 Score=23.46 Aligned_cols=30 Identities=7% Similarity=0.163 Sum_probs=24.4
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhcc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~ 32 (79)
-|.+++|++|...+-.-+++.+.+..++..
T Consensus 87 g~DiVviaR~~~~~~~~~~l~~~l~~l~~~ 116 (118)
T PRK01492 87 KFAMIIIPRKGFEEINFSHLNYELSKIILR 116 (118)
T ss_pred CceEEEEECCCcccCCHHHHHHHHHHHHHh
Confidence 489999999998877777777787777764
No 27
>PRK00194 hypothetical protein; Validated
Probab=51.39 E-value=16 Score=21.46 Aligned_cols=25 Identities=20% Similarity=0.169 Sum_probs=21.7
Q ss_pred HHHHHHHHhhhhccCCcEEEeeecc
Q 034908 19 LMELVARVGKHVYGRNGVLTDITSF 43 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~w 43 (79)
...++.++.+.+.++|+.|.+++.-
T Consensus 13 rpGiva~vt~~la~~g~nI~~~~~~ 37 (90)
T PRK00194 13 KVGIIAGVSTVLAELNVNILDISQT 37 (90)
T ss_pred CCCHHHHHHHHHHHcCCCEEehhhH
Confidence 4578889999999999999998865
No 28
>PF10432 bact-PGI_C: Bacterial phospho-glucose isomerase C-terminal region; InterPro: IPR019490 Phosphoglucose isomerase (PGI) catalyses the interconversion of phosphoglucose and phosphofructose, and is a component of many sugar metabolic pathways. In some archaea and bacteria PGI activity occurs via a bifunctional enzyme that also exhibits phosphomannose isomerase (PMI) activity. Though not closely related to eukaryotic PGIs, the bifunctional enzyme is similar enough that the sequence includes the cluster of threonines and serines that forms the sugar phosphate-binding site in conventional PGI. This entry represents the C-terminal half of the bifunctional PGI/PMI enzyme, which contains many of the active catalytic site residues. The enzyme is thought to use the same catalytic mechanisms for both glucose ring-opening and isomerisation for the interconversion of glucose 6-phosphate to fructose 6-phosphate [].; GO: 0004347 glucose-6-phosphate isomerase activity, 0004476 mannose-6-phosphate isomerase activity; PDB: 1TZB_A 1X9H_A 1TZC_B 1X9I_A 1WIW_A.
Probab=49.50 E-value=51 Score=21.86 Aligned_cols=43 Identities=14% Similarity=0.133 Sum_probs=31.4
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccc
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLG 49 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LA 49 (79)
+++++..-+....+..++.+.+++.+.|..+..++.=|.-.|+
T Consensus 75 ~v~l~d~~~~~~~~~r~~~~~e~~~~~~~~v~~v~~~g~s~l~ 117 (155)
T PF10432_consen 75 VVLLRDPEDHPRVQRRVEITREIAEDRGVRVIEVEAEGGSPLE 117 (155)
T ss_dssp EEEEC-TCCHHHHHHHHHHHHHHHTTCSSEEEEE--SCCCHHH
T ss_pred EEEEEcCCccccchhhhHHHHHHHHhcCCcEEEEecCCCCHHH
Confidence 4455545577778889999999999999999999887766543
No 29
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=49.41 E-value=32 Score=21.61 Aligned_cols=23 Identities=13% Similarity=0.270 Sum_probs=20.3
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhh
Q 034908 6 CMLLLKPHVRKESLMELVARVGK 28 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~ 28 (79)
++|+++|+.+..+++..++.+-+
T Consensus 24 ~vF~V~~~AtK~~IK~AvE~lF~ 46 (94)
T COG0089 24 YVFIVDPDATKPEIKAAVEELFG 46 (94)
T ss_pred EEEEECCCCCHHHHHHHHHHHhC
Confidence 68999999999999998888754
No 30
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=47.80 E-value=15 Score=21.25 Aligned_cols=26 Identities=8% Similarity=-0.066 Sum_probs=23.0
Q ss_pred HHHHHHHHhhhhccCCcEEEeeeccc
Q 034908 19 LMELVARVGKHVYGRNGVLTDITSFG 44 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~wG 44 (79)
...++.++++.+.++||-|.+++..-
T Consensus 11 r~GiVa~vs~~la~~g~nI~d~~q~~ 36 (77)
T cd04893 11 RPGILNELTRAVSESGCNILDSRMAI 36 (77)
T ss_pred CChHHHHHHHHHHHcCCCEEEceeeE
Confidence 46789999999999999999998765
No 31
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=47.14 E-value=29 Score=20.88 Aligned_cols=39 Identities=23% Similarity=0.452 Sum_probs=30.1
Q ss_pred CCCCHHHHHHHHHHHhhhhcc--CCcEEEeeeccccccccc
Q 034908 12 PHVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGY 50 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY 50 (79)
+.++..+++.+++.+.+.|.+ ..|..+.+..||.-.+..
T Consensus 15 ~~~s~~~~~~vv~~~~~~i~~~L~~g~~V~l~gfG~F~~~~ 55 (94)
T PRK00199 15 PHLSAKDVENAVKEILEEMSDALARGDRIEIRGFGSFSLHY 55 (94)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcCCEEEEEEE
Confidence 467888999999888888855 345568899999877654
No 32
>COG0801 FolK 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase [Coenzyme metabolism]
Probab=47.01 E-value=31 Score=23.58 Aligned_cols=44 Identities=14% Similarity=0.267 Sum_probs=32.6
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccccccccc
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGI 52 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I 52 (79)
.=+++.++..+++.++=..++++ +...|.++ ...||-|.|-=.|
T Consensus 55 lN~v~~v~T~L~p~eLL~~l~~i----E~~~gR~R-~~rwgPRtlDlDI 98 (160)
T COG0801 55 LNAVVEVETTLSPRELLARLQAI----ERRLGRVR-SERWGPRTLDLDI 98 (160)
T ss_pred heEEEEEeccCCHHHHHHHHHHH----HHHcCccc-cccCCCcceeeEE
Confidence 34678888888887766544443 57788999 8999999986444
No 33
>PF10726 DUF2518: Protein of function (DUF2518); InterPro: IPR019664 This entry contains the Ycf51 protein family, which is conserved in Cyanobacteria. The function is not known.
Probab=46.43 E-value=42 Score=22.79 Aligned_cols=29 Identities=10% Similarity=0.369 Sum_probs=24.2
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 6 CMLLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
.+.-+.|+.+++++++.++..++-+.+.|
T Consensus 83 vVi~v~~~i~~~~leaTL~QaA~nL~s~G 111 (145)
T PF10726_consen 83 VVIAVPPDITPEALEATLEQAASNLFSGG 111 (145)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhccccC
Confidence 45567799999999999999999887643
No 34
>PF10741 T2SM_b: Type II secretion system (T2SS), protein M subtype b; InterPro: IPR007690 General secretion pathway (GSP) protein M is a membrane protein involved in the export of proteins in bacteria. It consists of a short cytosolic N-terminal domain, a transmembrane domain, and a C-terminal periplasmic domain. The precise function of this protein is unknown, though in Vibrio cholerae, the EpsM protein interacts with the EpsL protein, and also forms homodimers [],; GO: 0006858 extracellular transport
Probab=46.43 E-value=28 Score=21.47 Aligned_cols=31 Identities=13% Similarity=0.084 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHhhhhccCCcEEEeeeccccc
Q 034908 16 KESLMELVARVGKHVYGRNGVLTDITSFGTV 46 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R 46 (79)
.-.-+++.+++.+++.++||.|.+++....+
T Consensus 12 ~~a~A~Lq~~l~~~v~~aG~~v~s~q~~p~~ 42 (110)
T PF10741_consen 12 ALAAAALQQRLRALVAAAGGQVSSSQVLPPR 42 (110)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEEEEecCCC
Confidence 3446788899999999999999999887644
No 35
>PRK03031 rnpA ribonuclease P; Reviewed
Probab=45.92 E-value=26 Score=22.37 Aligned_cols=33 Identities=12% Similarity=0.338 Sum_probs=24.0
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
+-|++++|++|...+-.-.++.+.+..++...|
T Consensus 84 ~g~diVvi~r~~~~~~~~~~l~~~l~~ll~k~~ 116 (122)
T PRK03031 84 PGWDLVIIVKPTAAECNYEQFLQELEQLLIQAE 116 (122)
T ss_pred CCceEEEEECCCcccCCHHHHHHHHHHHHHHcc
Confidence 358999999998776666666666666666554
No 36
>PF09373 PMBR: Pseudomurein-binding repeat; InterPro: IPR018975 Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Probab=45.48 E-value=26 Score=17.47 Aligned_cols=23 Identities=17% Similarity=0.349 Sum_probs=19.9
Q ss_pred CCCCHHHHHHHHHHHhhhhccCC
Q 034908 12 PHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
..++.++...++.|+.+.+.++|
T Consensus 3 ~~i~~~~~~d~a~rv~~f~~~ng 25 (33)
T PF09373_consen 3 GTISKEEYLDMASRVNNFYESNG 25 (33)
T ss_pred ceecHHHHHHHHHHHHHHHHHcC
Confidence 46788999999999999988876
No 37
>PF06877 RraB: Regulator of ribonuclease activity B; InterPro: IPR009671 This entry occurs in several hypothetical bacterial proteins of around 120 residues in length. The function of these proteins is unknown. The protein structure has been determined for one member of this group, the hypothetical protein VCO424 from Vibrio cholerae; it has an alpha+beta sandwich fold.; PDB: 1NXI_A.
Probab=45.44 E-value=41 Score=20.30 Aligned_cols=38 Identities=11% Similarity=0.100 Sum_probs=28.3
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccc
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFG 44 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG 44 (79)
|.+.+...-.++.+.+.+....+..+..+.||. .|-||
T Consensus 66 ~~~~~~~~~~~~~~~I~~~~~~l~~lA~~~~g~---YDGWg 103 (104)
T PF06877_consen 66 YCLDISREMVLDYEDINAITQELEDLAKEFGGE---YDGWG 103 (104)
T ss_dssp EEEEEEEEE-S-HHHHHHHHHHHHHHHHHHT-E---EEEEE
T ss_pred EEEEEEEecCCCHHHHHHHHHHHHHHHHHhCcE---ecCcc
Confidence 566665555667889999999999999999998 66676
No 38
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=45.43 E-value=43 Score=23.67 Aligned_cols=30 Identities=13% Similarity=0.181 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHhhhhccCCcEEEeeecccc
Q 034908 16 KESLMELVARVGKHVYGRNGVLTDITSFGT 45 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~ 45 (79)
-+++.+..+++.+++.+.||.|.+.+.++.
T Consensus 58 v~d~~~a~~~i~~~~~~~gG~i~~~~~~~~ 87 (262)
T PF14257_consen 58 VKDVEKAVKKIENLVESYGGYIESSSSSSS 87 (262)
T ss_pred ECCHHHHHHHHHHHHHHcCCEEEEEeeecc
Confidence 356888999999999999999999997644
No 39
>PF14832 Tautomerase_3: Putative oxalocrotonate tautomerase enzyme; PDB: 3C6V_C 3N4D_I 3N4G_C 3N4H_A 2FLZ_C 3MF8_A 3MF7_A 2FLT_A.
Probab=45.20 E-value=33 Score=22.64 Aligned_cols=32 Identities=16% Similarity=0.129 Sum_probs=22.1
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccC
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGR 33 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~ 33 (79)
||+|.+---.. .+++++.+++.+.+.++=.+.
T Consensus 1 MPlw~I~h~~~-~lt~~~K~~LA~~IT~~y~~~ 32 (136)
T PF14832_consen 1 MPLWQIYHPPG-TLTPEQKQALAEAITDIYTSI 32 (136)
T ss_dssp --EEEEEEETT-SS-HHHHHHHHHHHHHHHHHT
T ss_pred CCcEEEEeCCC-CCCHHHHHHHHHHHHHHHhCC
Confidence 89998766643 678999999988888876544
No 40
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=45.03 E-value=30 Score=19.45 Aligned_cols=24 Identities=17% Similarity=0.040 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhhhhccCCcEEEee
Q 034908 17 ESLMELVARVGKHVYGRNGVLTDI 40 (79)
Q Consensus 17 e~~~~~~~~~~~~I~~~GG~I~~~ 40 (79)
+..+.-.+++..+|.+.||.+.-.
T Consensus 2 ~~~~~Y~~~~~~~l~~~GG~~l~~ 25 (65)
T PF07045_consen 2 EAYQEYREAVPPILEKYGGRVLAR 25 (65)
T ss_dssp HHHHHHHHHHHHHHHHTT-EEEEE
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEE
Confidence 566777888999999999998765
No 41
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=43.48 E-value=37 Score=19.36 Aligned_cols=41 Identities=12% Similarity=0.208 Sum_probs=30.6
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEee----ecccccc
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDI----TSFGTVQ 47 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~----e~wG~R~ 47 (79)
+=|++-+.++||+++++.=+...-....+.-... ..||...
T Consensus 4 ~rVvrGnPt~eElAAL~aVlaa~~a~~~~~~~~~~~~~~~W~~~~ 48 (62)
T PF13822_consen 4 IRVVRGNPTDEELAALTAVLAARAAAAAAAAAPPRPARSAWGRPE 48 (62)
T ss_pred eEEeCCCCCHHHHHHHHHHHHHHhcccccCCCCCCCCcccccChH
Confidence 4478888899999999998888876665555444 6788654
No 42
>PF04320 DUF469: Protein with unknown function (DUF469); InterPro: IPR007416 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.
Probab=42.85 E-value=68 Score=20.40 Aligned_cols=31 Identities=6% Similarity=0.057 Sum_probs=25.4
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
+++.+=++..++++++.++++.+-..|..+|
T Consensus 17 F~v~~~~~~~~~~e~~D~~~D~fId~Ie~~g 47 (101)
T PF04320_consen 17 FEVSCRFAEGTSEEQIDAFVDAFIDVIEPNG 47 (101)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHhCC
Confidence 3555666666899999999999999998876
No 43
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=42.66 E-value=40 Score=25.80 Aligned_cols=30 Identities=7% Similarity=0.125 Sum_probs=24.2
Q ss_pred CCCCHHHHHHHHHHHhhhhccCCcEEEeeec
Q 034908 12 PHVRKESLMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
.+++|++..++++||.+.+-.+|++| -+|+
T Consensus 247 hdwtDedcvkiLknC~~sL~~~GkIi-v~E~ 276 (342)
T KOG3178|consen 247 HDWTDEDCVKILKNCKKSLPPGGKII-VVEN 276 (342)
T ss_pred ccCChHHHHHHHHHHHHhCCCCCEEE-EEec
Confidence 58899999999999999999855444 4444
No 44
>PRK01732 rnpA ribonuclease P; Reviewed
Probab=42.58 E-value=26 Score=22.20 Aligned_cols=30 Identities=23% Similarity=0.180 Sum_probs=20.8
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVY 31 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~ 31 (79)
+-|++++|++|...+..-+++.+.+..++.
T Consensus 81 ~~~diVviar~~~~~~~~~~l~~~l~~ll~ 110 (114)
T PRK01732 81 PAMDFVVIAKKGVADLDNRELFELLEKLWR 110 (114)
T ss_pred CCCeEEEEeCCCcccCCHHHHHHHHHHHHH
Confidence 358999999998766555565555555543
No 45
>cd00483 HPPK 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a carrier-mediated active transport system. Most microbes and plants lack this system and must synthesize folates de novo from guanosine triphosphate. One enzyme from this pathway is HPPK which catalyzes pyrophosphoryl transfer from ATP to 6-hydroxymethyl-7,8-dihydropterin (HP). The functional enzyme is a monomer. Mammals lack many of the enzymes in the folate pathway including, HPPK.
Probab=42.29 E-value=58 Score=20.91 Aligned_cols=46 Identities=11% Similarity=0.252 Sum_probs=32.6
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIK 53 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~ 53 (79)
+|=+++.++..+++.++-+.++.+....- ..+. ..||.|.|==.|=
T Consensus 51 FlN~v~~~~T~l~p~~Ll~~l~~IE~~~G----R~r~-~~~~~RtiDlDIl 96 (128)
T cd00483 51 FLNAVVELETSLSPLELLDALQAIEQRLG----RVRK-ERWGPRTLDLDIL 96 (128)
T ss_pred HHheEEEEEECCCHHHHHHHHHHHHHHhC----CCCc-ccCCCceeeEEEE
Confidence 34567888889999998888887776643 4444 6888887754443
No 46
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=42.08 E-value=50 Score=20.28 Aligned_cols=24 Identities=13% Similarity=0.173 Sum_probs=20.5
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 6 CMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
.+|+++|+++..|+++.++.+-++
T Consensus 23 ~~F~V~~~a~K~eIK~aie~lf~V 46 (92)
T PRK05738 23 YVFEVAPDATKPEIKAAVEKLFGV 46 (92)
T ss_pred EEEEECCCCCHHHHHHHHHHHcCC
Confidence 689999999999999998887543
No 47
>CHL00030 rpl23 ribosomal protein L23
Probab=41.93 E-value=50 Score=20.52 Aligned_cols=24 Identities=4% Similarity=-0.079 Sum_probs=20.3
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 6 CMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
.+|.++|+.+..|+++.++++-++
T Consensus 22 y~F~V~~~anK~eIK~avE~lf~V 45 (93)
T CHL00030 22 YTFDVDSGSTKTEIKHWIELFFGV 45 (93)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCC
Confidence 579999999999999999886543
No 48
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=41.86 E-value=19 Score=22.87 Aligned_cols=29 Identities=7% Similarity=0.196 Sum_probs=20.3
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeec
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
+.|--++++-++ +.+.|++.||.|.++|.
T Consensus 53 itIeG~~ldyde-------i~~~iE~~Gg~IHSiDe 81 (97)
T COG1888 53 ITIEGTNLDYDE-------IEEVIEELGGAIHSIDE 81 (97)
T ss_pred EEEEcCCCCHHH-------HHHHHHHcCCeeeehhh
Confidence 344556777664 45567788999999986
No 49
>PRK00499 rnpA ribonuclease P; Reviewed
Probab=41.82 E-value=32 Score=21.57 Aligned_cols=33 Identities=9% Similarity=0.055 Sum_probs=24.5
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
+-|.+++|++|...+..-+.+.+.+..++...|
T Consensus 74 ~~~d~v~i~r~~~~~~~~~~l~~~l~~ll~k~~ 106 (114)
T PRK00499 74 KGYDFVVIARKPAAELDYKEIKKSLIHVLKLAK 106 (114)
T ss_pred CCceEEEEECCCcccCCHHHHHHHHHHHHHHhC
Confidence 358899999998776666677777777766654
No 50
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=41.50 E-value=35 Score=22.61 Aligned_cols=55 Identities=15% Similarity=0.160 Sum_probs=44.6
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCCc---EEEeeecccccccccccccC-CeeeEEE
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRNG---VLTDITSFGTVQLGYGIKKL-DGRYYQL 62 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~GG---~I~~~e~wG~R~LAY~I~k~-~~g~Y~~ 62 (79)
.|+...-+++-...+++.+.+.+.++|. .|.-+.-=|-..||+-+++- +.+.|-+
T Consensus 7 ~IV~s~~n~~i~~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Da 65 (144)
T PF00885_consen 7 AIVVSRFNEEITDRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDA 65 (144)
T ss_dssp EEEEESTTHHHHHHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESE
T ss_pred EEEEEeccHHHHHHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccE
Confidence 3444577889999999999999999998 78888888999999999874 3455665
No 51
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=41.38 E-value=63 Score=19.89 Aligned_cols=42 Identities=12% Similarity=0.283 Sum_probs=29.8
Q ss_pred EcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccC
Q 034908 10 LKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL 55 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~ 55 (79)
+.|.-++-+++++.+++.+.+. .|..+.++ -...+||.+++-
T Consensus 10 V~P~s~evDle~L~~~ik~~~~-~g~~~~~~---~~ePiaFGLkaL 51 (88)
T TIGR00489 10 VMPESPDVDLEALKEKIKERIP-EGVEIRKI---DEEPIAFGLVAI 51 (88)
T ss_pred ECCCCCccCHHHHHHHHHHhCc-CCcEEeee---EEEeeeccceee
Confidence 4477777778888899988755 58777754 456777766653
No 52
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=41.36 E-value=54 Score=19.66 Aligned_cols=31 Identities=6% Similarity=0.162 Sum_probs=24.0
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeec
Q 034908 6 CMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
.+|+++|+.+..+++..++.+-++ .|.++..
T Consensus 17 y~F~V~~~anK~eIK~avE~lf~V------kV~~Vnt 47 (77)
T TIGR03636 17 LTFIVDRKATKGDIKRAVEKLFDV------KVEKVNT 47 (77)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCC------ceEEEEe
Confidence 579999999999999988887544 5555544
No 53
>PF00216 Bac_DNA_binding: Bacterial DNA-binding protein; InterPro: IPR000119 Bacteria synthesise a set of small, usually basic proteins of about 90 residues that bind DNA and are known as histone-like proteins [, ]. Examples include the HU protein in Escherichia coli is a dimer of closely related alpha and beta chains and in other bacteria can be a dimer of identical chains. HU-type proteins have been found in a variety of eubacteria, cyanobacteria and archaebacteria, and are also encoded in the chloroplast genome of some algae []. The integration host factor (IHF), a dimer of closely related chains which seem to function in genetic recombination as well as in translational and transcriptional control [] is found in enterobacteria and viral proteins include the African Swine fever virus protein A104R (or LMW5-AR) []. The exact function of these proteins is not yet clear but they are capable of wrapping DNA and stabilising it from denaturation under extreme environmental conditions. The structure is known for one of these proteins []. The protein exists as a dimer and two "beta-arms" function as the non-specific binding site for bacterial DNA. ; GO: 0003677 DNA binding; PDB: 3C4I_B 2O97_A 1MUL_A 1P78_A 1P51_C 1P71_B 2HT0_A 1OWG_A 2IIF_A 1OUZ_A ....
Probab=41.03 E-value=31 Score=20.06 Aligned_cols=38 Identities=13% Similarity=0.241 Sum_probs=27.3
Q ss_pred CCCHHHHHHHHHHHhhhhcc--CCcEEEeeeccccccccc
Q 034908 13 HVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGY 50 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY 50 (79)
.++..++..+++.+.+.|.+ ..|..+.+.+||.-.+..
T Consensus 15 ~~s~~~v~~vl~~~~~~i~~~L~~g~~V~l~g~G~F~~~~ 54 (90)
T PF00216_consen 15 GLSKKDVEAVLDALFDVIKEALKEGESVKLPGFGTFSVKE 54 (90)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHHHTT-EEEETTTEEEEEEE
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhcCCeEEeeceeEEEEec
Confidence 46777888888877777655 344556899999887764
No 54
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=40.34 E-value=57 Score=18.19 Aligned_cols=31 Identities=19% Similarity=0.251 Sum_probs=16.2
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 6 CMLLLKPHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
+++++.|...-.+ ..-++++.+.+. +||.+.
T Consensus 37 tll~i~~~~~~~~-~~~~~~l~~~v~-~G~~lv 67 (70)
T PF14258_consen 37 TLLVIGPDLRLSE-PEEAEALLEWVE-AGNTLV 67 (70)
T ss_pred EEEEEeCCCCCCc-hHHHHHHHHHHH-cCCEEE
Confidence 5677777633221 222334555544 688765
No 55
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=39.55 E-value=70 Score=17.83 Aligned_cols=51 Identities=18% Similarity=0.402 Sum_probs=34.4
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC-eeeEE
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD-GRYYQ 61 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~-~g~Y~ 61 (79)
++++|. .-...+++++.+++.+.-..| |+++-..--+++ ..++.-. .+.|+
T Consensus 1 ~~i~~r-~~~s~e~lL~~it~~v~l~~g-Vr~lyt~~G~~V-~~l~~l~dg~~yV 52 (60)
T PF03607_consen 1 VVINPR-RFRSFEQLLDEITEKVQLPSG-VRKLYTLDGKRV-KSLDELEDGGSYV 52 (60)
T ss_dssp EEESTT-THSSHHHHHHHHHHSSSSTTS--SEEEETTSSEE-SSGGGS-TTEEEE
T ss_pred CeEChh-hhcCHHHHHHHHHhhcCCCcc-cceEECCCCCEe-CCHHHHCCCCEEE
Confidence 355554 445689999999999988888 999988776555 4555543 44454
No 56
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=39.51 E-value=58 Score=19.86 Aligned_cols=24 Identities=8% Similarity=0.103 Sum_probs=20.3
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 6 CMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
..|+++|+.+..++++.++++-++
T Consensus 24 y~F~V~~~anK~eIK~AvE~lf~V 47 (84)
T PRK14548 24 LTFIVDRRATKPDIKRAVEELFDV 47 (84)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCC
Confidence 579999999999999998887543
No 57
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=39.33 E-value=70 Score=24.60 Aligned_cols=34 Identities=12% Similarity=0.217 Sum_probs=29.7
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNG 35 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG 35 (79)
+.||+-++++|.++..++-+.++++.+.|.++.-
T Consensus 372 ~~fELY~~~~plv~k~~~i~~~~~likWikk~e~ 405 (415)
T PF03164_consen 372 SDFELYCVFNPLVTKSAAIASANKLIKWIKKEEN 405 (415)
T ss_pred CCeEEEEEeCCcCCHHHHHHHHHHHHHHHHhhcC
Confidence 4699999999999999999999999998887654
No 58
>PRK15312 antimicrobial resistance protein Mig-14; Provisional
Probab=39.13 E-value=15 Score=27.64 Aligned_cols=44 Identities=9% Similarity=0.061 Sum_probs=30.3
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccc
Q 034908 5 DCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLG 49 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LA 49 (79)
+.+.+++++.+..-..+--..+... .++||+|+++.++--..||
T Consensus 126 r~~claK~~fSkKt~~~rrrEl~kF-~~~GG~v~~is~fS~~Ela 169 (298)
T PRK15312 126 KQNCLVKETFSSKFEKTRRNEYQRF-LRNGGSVKSVADCSSDELT 169 (298)
T ss_pred hhhhhehhhhhhHhHHHHHHHHHHH-HHcCCEEEEhHHCCHHHHH
Confidence 4456777777766666555555555 5579999999887665555
No 59
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=37.89 E-value=24 Score=22.49 Aligned_cols=18 Identities=11% Similarity=0.182 Sum_probs=15.6
Q ss_pred EEEcCCCCHHHHHHHHHH
Q 034908 8 LLLKPHVRKESLMELVAR 25 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~ 25 (79)
-|++|+++++++.+.+..
T Consensus 124 ~i~~~~~tdeei~~~~~~ 141 (151)
T cd00179 124 EITGGEATDEELEDMLES 141 (151)
T ss_pred HHcCCCCChHHHHHHHHc
Confidence 368999999999998876
No 60
>PLN00176 galactinol synthase
Probab=37.89 E-value=52 Score=24.89 Aligned_cols=33 Identities=15% Similarity=0.280 Sum_probs=24.3
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSF 43 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~w 43 (79)
.|.+++++.|+++++.++. +.+.|.+|+.++..
T Consensus 52 ~~~lVvlVt~dVp~e~r~~--------L~~~g~~V~~V~~i 84 (333)
T PLN00176 52 AYPLVVAVLPDVPEEHRRI--------LVSQGCIVREIEPV 84 (333)
T ss_pred CCCEEEEECCCCCHHHHHH--------HHHcCCEEEEeccc
Confidence 5889999999999775332 34677788877653
No 61
>PF10664 NdhM: Cyanobacterial and plastid NDH-1 subunit M; InterPro: IPR018922 The NADH dehydrogenase I complex shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in plants is believed to be plastoquinone. The NADH dehydrogenase I complex couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. This entry represents subunit M of the NADH dehydrogenase I complex in cyanobacteria and plant chloroplasts []. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process
Probab=37.65 E-value=55 Score=21.10 Aligned_cols=42 Identities=21% Similarity=0.336 Sum_probs=31.3
Q ss_pred eEEEEEcCCC----CHHHHHHHHHHHhhhhccCCcEEEeeeccccccc
Q 034908 5 DCMLLLKPHV----RKESLMELVARVGKHVYGRNGVLTDITSFGTVQL 48 (79)
Q Consensus 5 E~~~I~~p~l----~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~L 48 (79)
.+.+.++|+- +++.++++-.++.++|....|. ...++-.|+.
T Consensus 26 ~LTLdlDPdNEF~W~~~~l~kVy~~F~eLVe~~~G~--~LtdYnLRrI 71 (108)
T PF10664_consen 26 KLTLDLDPDNEFNWNEEALQKVYRKFDELVESYAGE--DLTDYNLRRI 71 (108)
T ss_pred eeEEecCCCcccccCHHHHHHHHHHHHHHHHhhcCC--CchhhhHHHh
Confidence 3677888875 5888999999999999998774 3444444443
No 62
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=37.07 E-value=83 Score=19.34 Aligned_cols=43 Identities=19% Similarity=0.315 Sum_probs=30.9
Q ss_pred EcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC
Q 034908 10 LKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD 56 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~ 56 (79)
+.|.-++-+++++-+++.+.+. .|..+.+. -...+||.+++-+
T Consensus 10 V~P~d~e~Dl~~L~~~ik~~~~-~g~~~~~~---~~ePIaFGLkaL~ 52 (88)
T PRK00435 10 VMPESPEVDLDELKEKIKEVLP-EGYKINGI---EEEPIAFGLKALK 52 (88)
T ss_pred ECCCCCCcCHHHHHHHHHHhCc-CCcEEeEe---EEEEeeccceeEE
Confidence 4477777789999999988766 47777654 4567788777643
No 63
>TIGR01201 HU_rel DNA-binding protein, histone-like, putative. This model describes a set of proteins related to but longer than DNA-binding protein HU. Its distinctive domain architecture compared to HU and related histone-like DNA-binding proteins justifies the designation as superfamily. Members include, so far, one from Bacteroides fragilis, a gut bacterium, and ten from Porphyromonas gingivalis, an oral anaerobe.
Probab=36.52 E-value=43 Score=22.04 Aligned_cols=39 Identities=15% Similarity=0.248 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHHHhhhhcc--CCcEEEeeecccccccccc
Q 034908 13 HVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGYG 51 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY~ 51 (79)
.++..++.++++.+.+.|.+ ..|..+.+..+|.-++...
T Consensus 45 ~~s~~dv~~vl~~l~~~i~~~L~~G~~V~L~gfGtF~~~~~ 85 (145)
T TIGR01201 45 SLSPGDVKGIIDRLAYVLRRELANGKTVRLGEIGTFRLSAT 85 (145)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCCeEEeCCCEEEEEEec
Confidence 46777888888888888755 5778889999999888765
No 64
>COG3966 DltD Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]
Probab=36.26 E-value=59 Score=25.49 Aligned_cols=42 Identities=12% Similarity=0.260 Sum_probs=34.2
Q ss_pred eEEEEEcC---------CCCHHHHHHHHHHHhhhhccCCc-EEEeeeccccc
Q 034908 5 DCMLLLKP---------HVRKESLMELVARVGKHVYGRNG-VLTDITSFGTV 46 (79)
Q Consensus 5 E~~~I~~p---------~l~~e~~~~~~~~~~~~I~~~GG-~I~~~e~wG~R 46 (79)
+.+||+-| .++++.+++..+++...|.++|+ .|-+....|--
T Consensus 310 dv~FV~~PvNgkW~dYtG~~k~~~q~~y~Kik~Ql~sqGF~~iaDfs~~~~e 361 (415)
T COG3966 310 DVIFVIIPVNGKWYDYTGLNKDGRQAYYKKIKSQLRSQGFTQIADFSDDGYE 361 (415)
T ss_pred CeEEEecCCCCceecccCcCHHHHHHHHHHHHHHHHHcCceeehhhhccCCC
Confidence 45667666 57899999999999999999999 88777766643
No 65
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=36.00 E-value=32 Score=19.34 Aligned_cols=25 Identities=20% Similarity=0.272 Sum_probs=21.6
Q ss_pred HHHHHHHHhhhhccCCcEEEeeecc
Q 034908 19 LMELVARVGKHVYGRNGVLTDITSF 43 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~w 43 (79)
...++.++.+.+.++|+-|.+++..
T Consensus 9 ~~Giv~~it~~l~~~g~nI~~~~~~ 33 (74)
T cd04875 9 RPGIVAAVSGFLAEHGGNIVESDQF 33 (74)
T ss_pred CCCHHHHHHHHHHHcCCCEEeeeee
Confidence 4578899999999999999998665
No 66
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=35.78 E-value=31 Score=27.28 Aligned_cols=28 Identities=11% Similarity=0.393 Sum_probs=21.0
Q ss_pred eeEEEE--EcCCCCHHHHHHHHHHHhhhhc
Q 034908 4 YDCMLL--LKPHVRKESLMELVARVGKHVY 31 (79)
Q Consensus 4 YE~~~I--~~p~l~~e~~~~~~~~~~~~I~ 31 (79)
|--+++ +.|||++++++++++-+.+++.
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~ 239 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVK 239 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceee
Confidence 334444 4599999999999998877653
No 67
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=34.81 E-value=70 Score=19.71 Aligned_cols=37 Identities=5% Similarity=0.051 Sum_probs=28.3
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeee
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e 41 (79)
.+-++|+. ..++.++.++.+.+.+.+.+.|....+++
T Consensus 29 ~dy~VI~T-g~S~rh~~aia~~v~~~~k~~~~~~~~~E 65 (99)
T TIGR00090 29 ADYFVIAS-GTSSRHVKAIADNVEEELKEAGLKPLGVE 65 (99)
T ss_pred cCEEEEEE-eCCHHHHHHHHHHHHHHHHHcCCCccccc
Confidence 45677776 55889999999999999988776554444
No 68
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=34.73 E-value=57 Score=19.09 Aligned_cols=30 Identities=20% Similarity=0.327 Sum_probs=23.3
Q ss_pred ceeEEEEEc---CCCCHHHHHHHHHHHhhhhcc
Q 034908 3 LYDCMLLLK---PHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 3 ~YE~~~I~~---p~l~~e~~~~~~~~~~~~I~~ 32 (79)
.|.+++... ..++++++.++++++.+++..
T Consensus 67 ~~D~v~~~~~~~~~~~~~~~~~ll~~~~~~l~p 99 (101)
T PF13649_consen 67 KFDLVVCSGLSLHHLSPEELEALLRRIARLLRP 99 (101)
T ss_dssp SEEEEEE-TTGGGGSSHHHHHHHHHHHHHTEEE
T ss_pred CeeEEEEcCCccCCCCHHHHHHHHHHHHHHhCC
Confidence 577777732 368999999999999998765
No 69
>PF01288 HPPK: 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK); InterPro: IPR000550 All organisms require reduced folate cofactors for the synthesis of a variety of metabolites. Most microorganisms must synthesise folate de novo because they lack the active transport system of higher vertebrate cells which allows these organisms to use dietary folates. Enzymes involved in folate biosynthesis are therefore targets for a variety of antimicrobial agents such as trimethoprim or sulphonamides. 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (2.7.6.3 from EC) (HPPK) catalyses the attachment of pyrophosphate to 6-hydroxymethyl-7,8-dihydropterin to form 6-hydroxymethyl-7,8-dihydropteridine pyrophosphate. This is the first step in a three-step pathway leading to 7,8 dihydrofolate. Bacterial HPPK (gene folK or sulD) [] is a protein of 160 to 270 amino acids. In the lower eukaryote Pneumocystis carinii, HPPK is the central domain of a multifunctional folate synthesis enzyme (gene fas) [].; GO: 0003848 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase activity, 0009396 folic acid-containing compound biosynthetic process; PDB: 2QX0_B 1RU1_B 2F65_A 1RU2_A 1EQ0_A 3ILJ_A 3HSJ_A 3HD1_A 1TMM_B 1RB0_A ....
Probab=34.72 E-value=88 Score=20.04 Aligned_cols=42 Identities=14% Similarity=0.363 Sum_probs=28.5
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLG 49 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LA 49 (79)
+|=+++.++..++++++...++.+..-.-+ .++. .||-|.|=
T Consensus 50 F~N~v~~~~t~l~~~~ll~~L~~IE~~~GR----~r~~-~~~~R~lD 91 (127)
T PF01288_consen 50 FLNAVVVLETSLSPEELLDLLKQIERRLGR----DRSS-KWGPRTLD 91 (127)
T ss_dssp EEEEEEEEEESS-HHHHHHHHHHHHHHTTS----CSTS-TTSSCSEE
T ss_pred eeeeeeeecCCCCHHHHHHHHHHHHHHhCC----CCcC-CCCCceee
Confidence 466788888899999888888777765433 3333 77776653
No 70
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=34.71 E-value=52 Score=25.12 Aligned_cols=24 Identities=4% Similarity=0.178 Sum_probs=20.7
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 6 CMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
++++.+|..++++++++++++.+.
T Consensus 1 miiv~~~~~~~~~~~~v~~~~~~~ 24 (352)
T PRK13396 1 MIIVMKVGTPEAEIERISQELTSW 24 (352)
T ss_pred CEEEECCCCCHHHHHHHHHHHHHC
Confidence 578999999999999999988743
No 71
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=34.29 E-value=37 Score=19.14 Aligned_cols=24 Identities=21% Similarity=0.247 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhhccCCcEEEeeec
Q 034908 19 LMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
...++.++++.+.++|+.|.+++.
T Consensus 9 ~~Giv~~it~~l~~~~~nI~~~~~ 32 (81)
T cd04869 9 RPGIVHEVTQFLAQRNINIEDLST 32 (81)
T ss_pred CCCHHHHHHHHHHHcCCCeEEeEe
Confidence 356788999999999999999876
No 72
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=34.06 E-value=69 Score=21.66 Aligned_cols=24 Identities=8% Similarity=0.211 Sum_probs=20.9
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 6 CMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
++|+++++.+..|+++.++++-++
T Consensus 85 yvF~Vd~kAnK~qIK~AVEklf~V 108 (145)
T PTZ00191 85 LVFIVDQRANKTQIKKAVEKLYDV 108 (145)
T ss_pred EEEEEcCCCCHHHHHHHHHHHhCC
Confidence 689999999999999999887544
No 73
>PRK11702 hypothetical protein; Provisional
Probab=33.29 E-value=1.2e+02 Score=19.47 Aligned_cols=31 Identities=6% Similarity=-0.004 Sum_probs=24.3
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhh-hhccCC
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGK-HVYGRN 34 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~-~I~~~G 34 (79)
+++.+=+...++++++.++++.+-. .|..||
T Consensus 23 F~v~~~~~~~~~~e~~D~~vD~fIde~Ie~ng 54 (108)
T PRK11702 23 FSVNWRFPEGTSEEQIDATVDAFIDEVIEPNG 54 (108)
T ss_pred eEEEEEECCCCCHHHHHHHHHHHHHHHHhcCC
Confidence 3555666677899999999999974 888876
No 74
>COG2509 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]
Probab=33.22 E-value=50 Score=26.47 Aligned_cols=34 Identities=12% Similarity=0.282 Sum_probs=31.3
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 5 DCMLLLKPHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
|.+.+-.|.+--+.+..+++.+.+.|.+.||+++
T Consensus 158 eil~~~~rHiGTD~l~~vvkni~~~l~~~G~ei~ 191 (486)
T COG2509 158 EILPIYQRHIGTDILPKVVKNIREYLESLGGEIR 191 (486)
T ss_pred eeeeccccccCccchHHHHHHHHHHHHhcCcEEE
Confidence 7788889999999999999999999999999984
No 75
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=33.12 E-value=31 Score=17.80 Aligned_cols=18 Identities=11% Similarity=0.104 Sum_probs=12.7
Q ss_pred HHHhhhhccCCcEEEeee
Q 034908 24 ARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 24 ~~~~~~I~~~GG~I~~~e 41 (79)
+.+.+.|..+||.+...-
T Consensus 16 ~~l~~~i~~~Gg~v~~~~ 33 (72)
T cd00027 16 DELKELIEKLGGKVTSSV 33 (72)
T ss_pred HHHHHHHHHcCCEEeccc
Confidence 456677788899887643
No 76
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=32.65 E-value=97 Score=22.68 Aligned_cols=40 Identities=20% Similarity=0.205 Sum_probs=30.6
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTV 46 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R 46 (79)
|..|-+.++. || ...++.++++.+.++|..|.++...+.+
T Consensus 5 m~~~vitv~G-~D-----rpGIVa~VT~~La~~~vNI~dls~~~~~ 44 (286)
T PRK13011 5 PDTFVLTLSC-PS-----AAGIVAAVTGFLAEHGCYITELHSFDDR 44 (286)
T ss_pred CceEEEEEEe-CC-----CCCHHHHHHHHHHhCCCCEEEeeeeecC
Confidence 5556655554 34 4678999999999999999999987543
No 77
>PF03135 CagE_TrbE_VirB: CagE, TrbE, VirB family, component of type IV transporter system; InterPro: IPR018145 This domain is found in (amongst others): the Helicobacter pylori protein CagE (see examples), which together with other proteins from the cag pathogenicity island (PAI), encodes a type IV transporter secretion system. The precise role of CagE is not known, but studies in animal models have shown that it is essential for pathogenesis in Helicobacter pylori induced gastritis and peptic ulceration []. Indeed, the expression of the cag PAI has been shown to be essential for stimulating human gastric epithelial cell apoptosis in vitro []. Similar type IV transport systems are also found in other bacteria. This domain is also found in proteins from the trb and Vir conjugal transfer systems in Agrobacterium tumefaciens and homologues of VirB proteins from other species.; GO: 0005524 ATP binding
Probab=32.53 E-value=1.5e+02 Score=20.01 Aligned_cols=39 Identities=15% Similarity=0.210 Sum_probs=28.5
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccc
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFG 44 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG 44 (79)
|-+.+++..+ ++++++..++++.+.+.+.| .+-..+..+
T Consensus 149 ~~~~i~v~~~-~~~~l~~~~~~v~~~l~~~G-~~~~~e~~~ 187 (205)
T PF03135_consen 149 YHFTIVVFAD-DPEELDDKVAEVSSALNNLG-FVAVRETLN 187 (205)
T ss_pred eEEEEEEEcC-CHHHHHHHHHHHHHHHHHCC-CEEEEeccc
Confidence 5566777755 78999999999999988765 444444443
No 78
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=32.12 E-value=1.4e+02 Score=18.99 Aligned_cols=57 Identities=25% Similarity=0.528 Sum_probs=27.2
Q ss_pred ceeEEEEEc---CCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEe--ecCcccccc
Q 034908 3 LYDCMLLLK---PHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEF--NSGSIFEGF 77 (79)
Q Consensus 3 ~YE~~~I~~---p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~--~~~~~~e~~ 77 (79)
-|+.++++- |+++.+.+.+.++.+... . .|.. -....|||. +-++- .+..+|++.
T Consensus 59 g~~~vvliGsD~P~l~~~~l~~A~~~L~~~----d-~Vlg-------------Pa~DGGy~L--iG~~~~~~~~~lF~~i 118 (122)
T PF09837_consen 59 GYEPVVLIGSDCPDLTPDDLEQAFEALQRH----D-VVLG-------------PAEDGGYYL--IGLRRRPDPPALFEGI 118 (122)
T ss_dssp T-SEEEEE-SS-TT--HHHHHHHHHHTTT-----S-EEEE-------------EBTTSSEEE--EEEEGGG--GGGGTT-
T ss_pred CCCcEEEEcCCCCCCCHHHHHHHHHHhccC----C-EEEe-------------eccCCCEEE--EecCCCCCCHHHccCC
Confidence 477888887 677777776666655433 2 2221 122445555 34442 455888887
Q ss_pred cC
Q 034908 78 MW 79 (79)
Q Consensus 78 ~~ 79 (79)
-|
T Consensus 119 ~W 120 (122)
T PF09837_consen 119 PW 120 (122)
T ss_dssp -T
T ss_pred CC
Confidence 76
No 79
>PRK03459 rnpA ribonuclease P; Reviewed
Probab=31.96 E-value=48 Score=21.32 Aligned_cols=30 Identities=17% Similarity=0.037 Sum_probs=19.9
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhcc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~ 32 (79)
-|++++|++|.+.+..-+++.+.+..++..
T Consensus 85 g~D~Viiar~~~~~~~~~~l~~~l~~ll~k 114 (122)
T PRK03459 85 THHVVIRALPGAATASSAELERDVRAGLGK 114 (122)
T ss_pred CcEEEEEECcccccCCHHHHHHHHHHHHHH
Confidence 488999999987664455555555555443
No 80
>PRK00285 ihfA integration host factor subunit alpha; Reviewed
Probab=31.75 E-value=54 Score=19.84 Aligned_cols=39 Identities=26% Similarity=0.308 Sum_probs=29.0
Q ss_pred CCCCHHHHHHHHHHHhhhhcc--CCcEEEeeeccccccccc
Q 034908 12 PHVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGY 50 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY 50 (79)
..++..+++.+++.+.+.|.+ ..|.-+.+..+|.-.+..
T Consensus 16 ~~~s~~~v~~vl~~~~~~i~~~L~~g~~V~l~gfG~F~~~~ 56 (99)
T PRK00285 16 VGLSKREAKELVELFFEEIRDALENGEQVKLSGFGNFQLRD 56 (99)
T ss_pred hCcCHHHHHHHHHHHHHHHHHHHHcCCeEEEcCCEEEEEEE
Confidence 467788888888888888844 344558899999876653
No 81
>PF14826 FACT-Spt16_Nlob: FACT complex subunit SPT16 N-terminal lobe domain; PDB: 3BIQ_A 3BIT_A 3BIP_A 3CB6_A 3CB5_A.
Probab=31.68 E-value=1.3e+02 Score=20.21 Aligned_cols=35 Identities=9% Similarity=-0.001 Sum_probs=26.0
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEE
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVL 37 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I 37 (79)
..++.+++|+.-++++-++.++++.+.|.+.|.+|
T Consensus 95 ~~~v~ll~R~k~d~~~~~~~f~kl~~~ik~~g~~v 129 (163)
T PF14826_consen 95 SIPVELLVRNKKDPEKNKANFEKLIEAIKKAGKKV 129 (163)
T ss_dssp SSEEEEEEE-TT-HHHHHHHHHHHHHHHHCCTSEE
T ss_pred CceEEEEEeCCCCccchHHHHHHHHHHHHhcCCeE
Confidence 34678899986666788889999999988877655
No 82
>PF02913 FAD-oxidase_C: FAD linked oxidases, C-terminal domain; InterPro: IPR004113 Some oxygen-dependent oxidoreductases are flavoproteins that contain a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. The region around the histidine that binds the FAD group is conserved in these enzymes (see IPR006093 from INTERPRO).; GO: 0003824 catalytic activity, 0050660 flavin adenine dinucleotide binding; PDB: 1WVE_B 1DII_B 1WVF_A 1DIQ_A 2UUU_B 2UUV_A 1W1M_A 1E8H_B 1E0Y_B 1DZN_B ....
Probab=31.64 E-value=22 Score=23.72 Aligned_cols=36 Identities=17% Similarity=0.157 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhhhhccCCcEEEeeecccccccccc
Q 034908 16 KESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYG 51 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~ 51 (79)
.+...++.+.+.+.+.+.||.+....-.|..+-+|-
T Consensus 183 ~~~~~~~~~~~~~~~~~~gG~is~eHG~G~~k~~~~ 218 (248)
T PF02913_consen 183 PERAEALWDELYELVLELGGSISAEHGIGKLKKPYL 218 (248)
T ss_dssp HHHHHHHHHHHHHHHHHTT-BBSSSSGGGHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcccccccccchhhhhHHHH
Confidence 344667788888889999999999988888876653
No 83
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 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 domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=31.28 E-value=1.1e+02 Score=18.61 Aligned_cols=25 Identities=12% Similarity=0.246 Sum_probs=21.6
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 5 DCMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
..+|.+.|+++..++++.++.+-++
T Consensus 22 ~~tF~V~~~atK~~Ik~aie~iy~V 46 (91)
T PF00276_consen 22 QYTFEVDPRATKTEIKEAIEKIYGV 46 (91)
T ss_dssp EEEEEETTTSTHHHHHHHHHHHHTS
T ss_pred EEEEEEeCCCCHHHHHHHHHhhcCC
Confidence 4689999999999999999887654
No 84
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=31.10 E-value=44 Score=19.14 Aligned_cols=24 Identities=17% Similarity=0.044 Sum_probs=19.2
Q ss_pred HHHHHHHHhhhhccCCcEEEeeec
Q 034908 19 LMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
...++..+...+.++|+.|.++.-
T Consensus 12 rpGiv~~v~~~l~~~g~ni~d~~~ 35 (76)
T PF13740_consen 12 RPGIVAAVTGVLAEHGCNIEDSRQ 35 (76)
T ss_dssp -TTHHHHHHHHHHCTT-EEEEEEE
T ss_pred CCcHHHHHHHHHHHCCCcEEEEEE
Confidence 567888999999999999988764
No 85
>COG2893 ManX Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]
Probab=30.75 E-value=1.6e+02 Score=19.45 Aligned_cols=42 Identities=17% Similarity=0.158 Sum_probs=31.8
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccc
Q 034908 5 DCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTV 46 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R 46 (79)
+.+-+..-+..++.+.+.++.+...+....|+|.=+|-||--
T Consensus 31 ~~v~~~~~~~~~~~l~~~~~~~~~~~d~~eevl~ltDl~GGS 72 (143)
T COG2893 31 EAVDFVPGEDSEDLLTKQIAAAIAALDSGEGVLFLTDLFGGS 72 (143)
T ss_pred EEEEeecCCChHHHHHHHHHHHHhhcCCCCcEEEEEecCCCC
Confidence 344444333677778888888888888779999999999964
No 86
>PRK04390 rnpA ribonuclease P; Reviewed
Probab=30.68 E-value=46 Score=21.20 Aligned_cols=31 Identities=13% Similarity=0.223 Sum_probs=19.8
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhcc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~ 32 (79)
+-|+.+++++|...+..-+++.+.+..++..
T Consensus 80 ~~~DiVvi~r~~~~~~~~~~l~~~l~~ll~k 110 (120)
T PRK04390 80 PPVDFVVRVQRKFDRATAKQAVAELAQLMAK 110 (120)
T ss_pred CCceEEEEeCCCcccCCHHHHHHHHHHHHHH
Confidence 4589999999976554444555555554443
No 87
>TIGR01498 folK 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase. This model describes the folate biosynthesis enzyme 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase. Alternate names include 6-hydroxymethyl-7,8-dihydropterin diphosphokinase and 7,8-dihydro-6-hydroxymethylpterin pyrophosphokinase (HPPK). The extreme C-terminal region, of typically eight to thirty residues, is not included in the model. This enzyme may be found as a fusion protein with other enzymes of folate biosynthesis.
Probab=30.19 E-value=1.2e+02 Score=19.45 Aligned_cols=45 Identities=11% Similarity=0.240 Sum_probs=30.9
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccccccccc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGI 52 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I 52 (79)
+|=+++.+...++++++-+.++.+....- ..+ -..||-|.|==.|
T Consensus 50 FlN~v~~~~T~l~p~~Ll~~l~~IE~~~G----R~r-~~~~~pRtlDlDI 94 (127)
T TIGR01498 50 FLNAVVEVETTLAPRELLALLQAIEAELG----RVR-EFRWGPRTLDLDI 94 (127)
T ss_pred hheEEEEEEeCCCHHHHHHHHHHHHHHhC----CCC-CCCCCCceEeEEE
Confidence 45577888889998888877777665533 444 3588888775433
No 88
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=29.86 E-value=1e+02 Score=16.86 Aligned_cols=31 Identities=23% Similarity=0.366 Sum_probs=22.4
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccC
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGR 33 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~ 33 (79)
||.-..-+. +..++++.+++++.+...+.+.
T Consensus 1 MP~v~i~l~--~grt~eqk~~l~~~it~~l~~~ 31 (64)
T PRK01964 1 MPIVQIQLL--EGRPEEKIKNLIREVTEAISAT 31 (64)
T ss_pred CCEEEEEEe--CCCCHHHHHHHHHHHHHHHHHH
Confidence 555544333 4568999999999999988763
No 89
>cd00292 EF1B Elongation factor 1 beta (EF1B) guanine nucleotide exchange domain. EF1B catalyzes the exchange of GDP bound to the G-protein, EF1A, for GTP, an important step in the elongation cycle of the protein biosynthesis. EF1A binds to and delivers the aminoacyl tRNA to the ribosome. The guanine nucleotide exchange domain of EF1B, which is the alpha subunit in yeast, is responsible for the catalysis of this exchange reaction.
Probab=29.69 E-value=1.2e+02 Score=18.55 Aligned_cols=42 Identities=19% Similarity=0.267 Sum_probs=29.6
Q ss_pred EcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccC
Q 034908 10 LKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL 55 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~ 55 (79)
+.|.-++-+++++.+++.+.+. .|.++.+. -...+||.+++-
T Consensus 10 V~P~~~e~Dl~~l~~~Ik~~~~-~gl~~~~~---~~epiaFGlk~L 51 (88)
T cd00292 10 VKPWDDEVDLDELEEKIRAILM-DGLLWGKS---KLEPIAFGLKAL 51 (88)
T ss_pred EecCCCCcCHHHHHHHHHHhCc-CCcEEEEE---EEEEeeeEeeEE
Confidence 4587777789999999988655 57666644 356677777664
No 90
>cd01514 Elongation_Factor_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the ribosomal protection proteins Tet(M) and Tet(O), BipA, LepA and, spliceosomal proteins: human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and yeast counterpart Snu114p. This domain adopts a ferredoxin-like fold consisting of an alpha-beta sandwich with anti-parallel beta-sheets, resembling the topology of domain III found in the elongation factors EF-G and eukaryotic EF-2, with which it forms the C-terminal block. The two domains however are not superimposable and domain III lacks some of the characteristics of this domain. EF-2/EF-G in complex with GTP, promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the
Probab=29.47 E-value=1.1e+02 Score=17.25 Aligned_cols=35 Identities=17% Similarity=0.310 Sum_probs=23.7
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFG 44 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG 44 (79)
|.|++-+.+. ++ .+.++.+.|.+.+|.|.+.+..+
T Consensus 2 Pi~~~~I~~p----~~----~~g~v~~~l~~rrg~v~~~~~~~ 36 (79)
T cd01514 2 PIMKVEITVP----EE----YLGAVIGDLSKRRGEILGMEPRG 36 (79)
T ss_pred CEEEEEEEcC----HH----HHHHHHHHHHhcCCeeEeeEecC
Confidence 4455555543 23 34467777788899999999887
No 91
>PF00736 EF1_GNE: EF-1 guanine nucleotide exchange domain; InterPro: IPR014038 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents the guanine nucleotide exchange domain of the beta (EF-1beta, also known as EF1B-alpha) and delta (EF-1delta, also known as EF1B-beta) chains of EF1B proteins from eukaryotes and archaea. The beta and delta chains have exchange activity, which mainly resides in their homologous guanine nucleotide exchange domains, found in the C-terminal region of the peptides. Their N-terminal regions may be involved in interactions with the gamma chain (EF-1gamma). More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 2YY3_B 1GH8_A 1B64_A 1IJE_B 1IJF_B 1F60_B 1G7C_B 2B7B_B 2B7C_B.
Probab=29.41 E-value=73 Score=19.46 Aligned_cols=46 Identities=15% Similarity=0.208 Sum_probs=28.1
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccccccccccc
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKK 54 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k 54 (79)
++=+.|.-++.+++++.+++.+.|...| .. =.+......+||.+++
T Consensus 5 v~~V~P~d~e~Dl~~l~~~Ik~~i~~~g-l~-w~~~~~~epIaFGlk~ 50 (89)
T PF00736_consen 5 VLKVKPWDDETDLEKLEKKIKRKIPMEG-LK-WGEKSKEEPIAFGLKA 50 (89)
T ss_dssp EEEEEESSTTS-HHHHHHHHHHHS-TTT-EE-EEEEEEEEEECTTEEE
T ss_pred EEEEeeCCCcccHHHHHHHHHHhchhcc-ee-eeeeeeeeeecccEEE
Confidence 4445687778889999999988887654 31 0112224566777665
No 92
>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1. The domain is an approximately 100 amino acid tandem repeat, which appears to act as a phospho-protein binding domain []. A chitin biosynthesis protein from yeast also seems to belong to this group. ; GO: 0005622 intracellular; PDB: 3L46_A 3AL3_A 3AL2_A 1WF6_A 3II6_X 2NTE_B 3FA2_A 2R1Z_A 2COK_A 2K7F_A ....
Probab=29.36 E-value=78 Score=17.14 Aligned_cols=12 Identities=8% Similarity=0.277 Sum_probs=10.1
Q ss_pred HhhhhccCCcEE
Q 034908 26 VGKHVYGRNGVL 37 (79)
Q Consensus 26 ~~~~I~~~GG~I 37 (79)
+.+.|.++||.+
T Consensus 24 l~~~i~~~GG~v 35 (78)
T PF00533_consen 24 LEQLIKKHGGTV 35 (78)
T ss_dssp HHHHHHHTTEEE
T ss_pred HHHHHHHcCCEE
Confidence 377888899999
No 93
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.31 E-value=39 Score=19.73 Aligned_cols=26 Identities=23% Similarity=0.141 Sum_probs=22.0
Q ss_pred HHHHHHHHhhhhccCCcEEEeeeccc
Q 034908 19 LMELVARVGKHVYGRNGVLTDITSFG 44 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~wG 44 (79)
...++.++.+.+.++|+.|.+++..-
T Consensus 11 ~pGiva~vt~~la~~g~nI~~~~~~~ 36 (88)
T cd04872 11 RVGIVAGVSTKLAELNVNILDISQTI 36 (88)
T ss_pred CCCHHHHHHHHHHHcCCCEEechhHh
Confidence 45788899999999999999998543
No 94
>cd06150 YjgF_YER057c_UK114_like_2 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=29.10 E-value=29 Score=21.12 Aligned_cols=25 Identities=4% Similarity=0.011 Sum_probs=21.3
Q ss_pred CHHHHHHHHHHHhhhhccCCcEEEe
Q 034908 15 RKESLMELVARVGKHVYGRNGVLTD 39 (79)
Q Consensus 15 ~~e~~~~~~~~~~~~I~~~GG~I~~ 39 (79)
-++|....++.+.+++.+.|+...+
T Consensus 27 ~~~Q~~~~~~nl~~~L~~~G~~~~d 51 (105)
T cd06150 27 ITGQTRQVLAKIDALLAEAGSDKSR 51 (105)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 4688999999999999999987544
No 95
>TIGR00988 hip integration host factor, beta subunit. This protein forms a site-specific DNA-binding heterodimer with the homologous integration host factor alpha subunit. It is closely related to the DNA-binding protein HU.
Probab=29.03 E-value=80 Score=18.78 Aligned_cols=39 Identities=23% Similarity=0.434 Sum_probs=26.7
Q ss_pred CCCCHHHHHHHHHHHhhhhcc--CCcEEEeeeccccccccc
Q 034908 12 PHVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGY 50 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY 50 (79)
+.++..+++.+++.+.+.|.+ ..|.-+.+.++|.-.+..
T Consensus 15 ~~~s~~~v~~vv~~~~~~i~~~L~~g~~V~l~gfG~F~~~~ 55 (94)
T TIGR00988 15 SHLPAKDVEDAVKTMLEHMASALAQGDRIEIRGFGSFSLHY 55 (94)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcCcEEEEEEE
Confidence 356777777777777777643 234457889999876654
No 96
>PRK14092 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
Probab=29.00 E-value=1.3e+02 Score=20.34 Aligned_cols=49 Identities=8% Similarity=0.054 Sum_probs=34.9
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD 56 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~ 56 (79)
+|=+++.+..+++++++-+.++.+....- .++. ..||-|.|==.|=-.+
T Consensus 59 FlN~vv~~~T~l~p~~Ll~~L~~IE~~~G----R~r~-~k~gpRtiDlDIL~~~ 107 (163)
T PRK14092 59 FVNAVAALDTTLAPLDLLDLLQALEQRHG----RERP-YRNAPRTLDLDLLLYG 107 (163)
T ss_pred hhEEEEEEEeCCCHHHHHHHHHHHHHHcC----CCCC-cCCCCceeeeEEeccC
Confidence 56678889999999998888887776644 3443 5899988765544333
No 97
>PF01042 Ribonuc_L-PSP: Endoribonuclease L-PSP; InterPro: IPR006175 This domain is found in endoribonuclease, that is active on single-stranded mRNA and inhibits protein synthesis by cleavage of mRNA []. Previously it was thought to inhibit protein synthesis initiation []. This endoribonuclease may also be involved in the regulation of purine biosynthesis []. ; PDB: 3GTZ_B 3V4D_E 1J7H_A 3R0P_D 2IG8_A 1QD9_B 3L7Q_E 3VCZ_A 3QUW_A 2EWC_K ....
Probab=28.99 E-value=32 Score=21.35 Aligned_cols=24 Identities=13% Similarity=0.213 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHhhhhccCCcEEEe
Q 034908 16 KESLMELVARVGKHVYGRNGVLTD 39 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~~ 39 (79)
++|...+++++..++.+.|+...+
T Consensus 42 ~~Q~~~~l~ni~~~L~~~G~~~~d 65 (121)
T PF01042_consen 42 EEQTRQALDNIERILAAAGASLDD 65 (121)
T ss_dssp HHHHHHHHHHHHHHHHHTTS-GGG
T ss_pred HHHHHHHHHhhhhhhhcCCCccee
Confidence 688999999999999999987544
No 98
>COG4193 LytD Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]
Probab=28.83 E-value=44 Score=24.46 Aligned_cols=62 Identities=18% Similarity=0.230 Sum_probs=43.3
Q ss_pred CCCHHHHHHHHHHHhhhhccCCcEEEe------------------eecccccccccccccCCeeeEEEEEEEEe-ecCcc
Q 034908 13 HVRKESLMELVARVGKHVYGRNGVLTD------------------ITSFGTVQLGYGIKKLDGRYYQLIPTWEF-NSGSI 73 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~~GG~I~~------------------~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~-~~~~~ 73 (79)
.++.+++.+++. =..+++.+|+.-.+ ...||+-.||-.++-.+..+|- +|-+.+ |++|+
T Consensus 80 ~is~~evnqlL~-gkgiLen~g~aFleAa~~y~IN~~YLiSHALLETGnGtS~LAkG~~~~~k~yyN-ffGI~AyDs~P~ 157 (245)
T COG4193 80 GISVEEVNQLLV-GKGILENHGAAFLEAAEQYHINELYLISHALLETGNGTSELAKGVEVDGKKYYN-FFGIGAYDSDPN 157 (245)
T ss_pred CCCHHHHHHHHc-CcchhhcchHHHHHHHHhcCchhhhhhHHHHHHcCCchHHHhcccccCCeEEEe-eeeeecccCCch
Confidence 557777777443 23445555554322 2459999999999999999999 777766 88886
Q ss_pred ccc
Q 034908 74 FEG 76 (79)
Q Consensus 74 ~e~ 76 (79)
-+|
T Consensus 158 ~~G 160 (245)
T COG4193 158 YYG 160 (245)
T ss_pred hhH
Confidence 655
No 99
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=28.83 E-value=1.5e+02 Score=19.20 Aligned_cols=35 Identities=9% Similarity=0.188 Sum_probs=25.9
Q ss_pred eEEEEEcCCC---CHHHHHHHHHHHhhhhccCCcEEEe
Q 034908 5 DCMLLLKPHV---RKESLMELVARVGKHVYGRNGVLTD 39 (79)
Q Consensus 5 E~~~I~~p~l---~~e~~~~~~~~~~~~I~~~GG~I~~ 39 (79)
|.++..+.|. +...+...++++...+.+.|+.+.-
T Consensus 70 ~v~iaFD~D~~~~Tn~~V~~a~~~l~~~L~~~G~~v~~ 107 (130)
T PF12965_consen 70 EVYIAFDADTKPKTNKNVRRAIKRLGKLLKEAGCKVKI 107 (130)
T ss_pred eEEEEecCCCccchhHHHHHHHHHHHHHHHHCCCEEEE
Confidence 4556666552 2377889999999999999988544
No 100
>PF07564 DUF1542: Domain of Unknown Function (DUF1542); InterPro: IPR011439 This domain is found in several cell surface proteins. Some are involved in antibiotic resistance (e.g. Q9RL69 from SWISSPROT and Q9LCJ9 from SWISSPROT) [] and/or cellular adhesion (e.g. Q931R6 from SWISSPROT) []. In some proteins it is repeated more than fifteen times.
Probab=28.72 E-value=67 Score=18.20 Aligned_cols=22 Identities=14% Similarity=0.191 Sum_probs=18.7
Q ss_pred cCCCCHHHHHHHHHHHhhhhcc
Q 034908 11 KPHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 11 ~p~l~~e~~~~~~~~~~~~I~~ 32 (79)
+|+++.++.+..+.++..++.+
T Consensus 9 ~~~~T~eEK~~A~~~v~~~~~~ 30 (70)
T PF07564_consen 9 NPNATDEEKQAAKQKVDQILNQ 30 (70)
T ss_pred CCcCCHHHHHHHHHHHHHHHHH
Confidence 6899999999999998887654
No 101
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=28.62 E-value=51 Score=22.43 Aligned_cols=22 Identities=18% Similarity=0.350 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhhhhccCCcEE
Q 034908 16 KESLMELVARVGKHVYGRNGVL 37 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I 37 (79)
+++++++++++.+++.++||.-
T Consensus 171 ~~qv~~Ll~~ie~mv~~n~g~~ 192 (212)
T PF04548_consen 171 ESQVSELLEKIEEMVQENGGQY 192 (212)
T ss_dssp HHHHHHHHHHHHHHHHHTTTT-
T ss_pred HHHHHHHHHHHHHHHHHcCCCC
Confidence 4789999999999999999853
No 102
>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.
Probab=28.45 E-value=1.3e+02 Score=18.29 Aligned_cols=38 Identities=11% Similarity=0.094 Sum_probs=25.9
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhh-ccCCcEEEeee
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHV-YGRNGVLTDIT 41 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I-~~~GG~I~~~e 41 (79)
..+.++|+... ++.++.++.+.+.+.+ .+.|.....++
T Consensus 28 ~~dy~II~T~~-S~rh~~aia~~v~~~~~k~~~~~~~~~e 66 (100)
T PF02410_consen 28 WADYFIIATGR-SERHVRAIADEVEKALKKEYGERPLRIE 66 (100)
T ss_dssp S-SEEEEEEES-SHHHHHHHHHHHHHHH-HHTT----EEE
T ss_pred ccCEEEEEEcC-CHHHHHHHHHHHHHHHHHHcCCcccccC
Confidence 35667787754 8899999999999999 55666666655
No 103
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=28.23 E-value=63 Score=19.55 Aligned_cols=19 Identities=16% Similarity=0.130 Sum_probs=14.6
Q ss_pred HHHHhhhhccCCcEEEeee
Q 034908 23 VARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 23 ~~~~~~~I~~~GG~I~~~e 41 (79)
.+.+.+.+.+.||++.++.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y 40 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFY 40 (91)
T ss_pred HHHHHHHHHHcCCEEEEEE
Confidence 3457788999999998653
No 104
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=28.17 E-value=98 Score=19.37 Aligned_cols=26 Identities=15% Similarity=0.411 Sum_probs=16.3
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
.+.++|+=|..++++++++++.+.+.
T Consensus 142 id~v~ial~~~~~~~i~~ii~~~~~~ 167 (175)
T PF13727_consen 142 IDEVIIALPWSEEEQIKRIIEELENH 167 (175)
T ss_dssp --EEEE--TTS-HHHHHHHHHHHHTT
T ss_pred CCEEEEEcCccCHHHHHHHHHHHHhC
Confidence 35677887888888888888877654
No 105
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=28.06 E-value=23 Score=19.43 Aligned_cols=23 Identities=9% Similarity=0.156 Sum_probs=17.4
Q ss_pred EcCCCCHHHHHHHHHHHhhhhcc
Q 034908 10 LKPHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~~ 32 (79)
++..+++++++.+.++|++.+.+
T Consensus 20 ln~~V~~~qR~~iAe~Fa~AL~~ 42 (44)
T PF07208_consen 20 LNTSVPPAQRQAIAEKFAQALKS 42 (44)
T ss_dssp HHHCS-HHHHHHHHHHHHHHHHH
T ss_pred HhhcCCHHHHHHHHHHHHHHHHh
Confidence 34567899999999999987653
No 106
>PF10131 PTPS_related: 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; InterPro: IPR018776 This entry is found in various bacterial and archaeal hypothetical membrane proteins, as well as in tetratricopeptide TPR_2 repeat protein. Its function has not yet been established, though it shows similarity to 6-pyruvoyl-tetrahydropterin synthase.
Probab=27.79 E-value=1e+02 Score=25.02 Aligned_cols=46 Identities=20% Similarity=0.343 Sum_probs=30.0
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCc-EEEeeeccccccccc
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNG-VLTDITSFGTVQLGY 50 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG-~I~~~e~wG~R~LAY 50 (79)
+.|.++++-.|+..++..+ ++...-..+.|| +|..+...+.++.|-
T Consensus 486 ~~~~~v~~~~~~~~~~~~~---e~~~~~~~~~G~~v~i~~~~~~~~~~~~ 532 (616)
T PF10131_consen 486 PKYKVVYLSGPSYKDESKA---EKLVSKLARSGGKVVIDMPRIPDDRIAR 532 (616)
T ss_pred ccceEEEecCCCccchhHH---HHHHHHHHhCCCEEEEEcCCCCcchhhc
Confidence 5788888888776555432 233333456799 888888877666553
No 107
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=27.37 E-value=56 Score=20.45 Aligned_cols=16 Identities=13% Similarity=0.183 Sum_probs=10.8
Q ss_pred hhhhccCCcEEEeeec
Q 034908 27 GKHVYGRNGVLTDITS 42 (79)
Q Consensus 27 ~~~I~~~GG~I~~~e~ 42 (79)
-++|.++||.|.++.-
T Consensus 14 L~~IVd~Gg~V~DV~v 29 (98)
T PF02829_consen 14 LEIIVDNGGRVLDVIV 29 (98)
T ss_dssp HHHHHHTT-EEEEEEE
T ss_pred HHHHHHCCCEEEEEEE
Confidence 3456779999988753
No 108
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=27.15 E-value=56 Score=23.44 Aligned_cols=42 Identities=19% Similarity=0.341 Sum_probs=28.7
Q ss_pred ceeEEEE--EcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccc
Q 034908 3 LYDCMLL--LKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGT 45 (79)
Q Consensus 3 ~YE~~~I--~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~ 45 (79)
.|.++-+ +--.|+++++-+.++|+.+.+..+ |.|.==||-..
T Consensus 122 ~YDlIW~QW~lghLTD~dlv~fL~RCk~~L~~~-G~IvvKEN~~~ 165 (218)
T PF05891_consen 122 KYDLIWIQWCLGHLTDEDLVAFLKRCKQALKPN-GVIVVKENVSS 165 (218)
T ss_dssp -EEEEEEES-GGGS-HHHHHHHHHHHHHHEEEE-EEEEEEEEEES
T ss_pred cEeEEEehHhhccCCHHHHHHHHHHHHHhCcCC-cEEEEEecCCC
Confidence 4666655 224789999999999999999875 56654455433
No 109
>PRK00396 rnpA ribonuclease P; Reviewed
Probab=27.08 E-value=83 Score=20.50 Aligned_cols=29 Identities=17% Similarity=0.170 Sum_probs=18.9
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhh
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHV 30 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I 30 (79)
+-|++++|++|.+.+..-.++.+.+..++
T Consensus 82 ~g~DiVviaR~~~~~~~~~~l~~~l~~ll 110 (130)
T PRK00396 82 AGWDIVVVARKGLGELENPELHQQFGKLW 110 (130)
T ss_pred CCeeEEEEeCCCcccCCHHHHHHHHHHHH
Confidence 35899999999876544444444444443
No 110
>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=27.05 E-value=13 Score=21.91 Aligned_cols=30 Identities=20% Similarity=0.204 Sum_probs=20.7
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCCcEE
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRNGVL 37 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I 37 (79)
+++.+++++..+.-..++++.+|++.||.-
T Consensus 13 IlV~~~~~p~~~~~~~~~~~Giv~~~Gg~~ 42 (80)
T PF00391_consen 13 ILVAEELTPSDLALDLQRVAGIVTEEGGPT 42 (80)
T ss_dssp EEEESS--TTCHHSHHTTSSEEEESSSSTT
T ss_pred EEEECCCCHHHHhcchhheEEEEEEcCCcc
Confidence 445568887776646788999999998854
No 111
>TIGR02645 ARCH_P_rylase putative thymidine phosphorylase. Members of this family are closely related to characterized examples of thymidine phosphorylase (EC 2.4.2.4) and pyrimidine nucleoside phosphorylase (RC 2.4.2.2). Most examples are found in the archaea, but other examples in Legionella pneumophila str. Paris and Rhodopseudomonas palustris CGA009.
Probab=26.78 E-value=44 Score=26.74 Aligned_cols=41 Identities=7% Similarity=0.063 Sum_probs=30.6
Q ss_pred HHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEE
Q 034908 21 ELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQ 61 (79)
Q Consensus 21 ~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~ 61 (79)
+.++++.++|..+||...+.+..-.=+.-|+|...++||-.
T Consensus 385 ~Al~kf~~ii~aQGG~~~~~~~~~~~~~~~~v~A~~~G~v~ 425 (493)
T TIGR02645 385 KALEKMKEIIEAQGGDPNKSDDIEAGIYTADIHAETDGYVT 425 (493)
T ss_pred HHHHHHHHHHHHcCCCCccccccCCCCeEEEEEcCCCeEEE
Confidence 46789999999999987644444445556888888888766
No 112
>PF14080 DUF4261: Domain of unknown function (DUF4261)
Probab=26.67 E-value=1.3e+02 Score=17.45 Aligned_cols=43 Identities=12% Similarity=0.185 Sum_probs=34.5
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecc-cccc
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSF-GTVQ 47 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~w-G~R~ 47 (79)
.|+=+.. ...+++++...+-.++..|.++|-+|.+=|-. |...
T Consensus 11 ~eie~~~-~~~~p~ev~~~l~~ia~Yil~~~~~l~dGdTi~G~~~ 54 (77)
T PF14080_consen 11 PEIEIHF-SDLDPEEVYNFLYNIAYYILENGVVLKDGDTISGFSE 54 (77)
T ss_pred ccEEEEc-CCCCHHHHHHHHHHHHHHHHcCCCccCCCCeeccCCC
Confidence 4555555 47799999999999999999999988887777 6554
No 113
>PF11829 DUF3349: Protein of unknown function (DUF3349); InterPro: IPR021784 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 99 to 124 amino acids in length. ; PDB: 2KVC_A 3OL3_B 3OL4_A 2LKY_A.
Probab=26.49 E-value=41 Score=21.17 Aligned_cols=21 Identities=19% Similarity=0.406 Sum_probs=15.4
Q ss_pred EEEcCCCCHHHHHHHHHHHhh
Q 034908 8 LLLKPHVRKESLMELVARVGK 28 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~ 28 (79)
.++++.|+++|++++...+..
T Consensus 30 ALL~r~Ltd~ev~~Va~~L~~ 50 (96)
T PF11829_consen 30 ALLRRRLTDDEVAEVAAELAA 50 (96)
T ss_dssp HHHTTTS-HHHHHHHHHHHHH
T ss_pred HHhcccCCHHHHHHHHHHHHh
Confidence 356788999999998877644
No 114
>TIGR00987 himA integration host factor, alpha subunit. This protein forms a site-specific DNA-binding heterodimer with the integration host factor beta subunit. It is closely related to the DNA-binding protein HU.
Probab=26.40 E-value=77 Score=19.11 Aligned_cols=38 Identities=18% Similarity=0.208 Sum_probs=27.2
Q ss_pred CCCCHHHHHHHHHHHhhhhcc---CCcEEEeeeccccccccc
Q 034908 12 PHVRKESLMELVARVGKHVYG---RNGVLTDITSFGTVQLGY 50 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~---~GG~I~~~e~wG~R~LAY 50 (79)
.+++..+++.+++.+.+.|.+ .|+ -+.+.++|.-.+.-
T Consensus 15 ~~~s~~~v~~vv~~~~~~i~~~L~~g~-~V~l~gfG~F~~~~ 55 (96)
T TIGR00987 15 LGLSKREAKELVELFFEEIRRALENGE-QVKLSGFGNFDLRD 55 (96)
T ss_pred hCcCHHHHHHHHHHHHHHHHHHHHcCC-eEEecCCEEEEEEE
Confidence 356777888888888777743 455 47889999876653
No 115
>PF11148 DUF2922: Protein of unknown function (DUF2922); InterPro: IPR021321 This bacterial family of proteins has no known function.
Probab=26.34 E-value=1.3e+02 Score=17.04 Aligned_cols=28 Identities=7% Similarity=0.067 Sum_probs=20.1
Q ss_pred CCCCHHHHHHHHHHHhh--hhccCCcEEEe
Q 034908 12 PHVRKESLMELVARVGK--HVYGRNGVLTD 39 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~--~I~~~GG~I~~ 39 (79)
+++++++++++++.+-+ ++...||.+..
T Consensus 24 ~~lt~~~V~~~m~~ii~~~vf~~~~~~l~~ 53 (69)
T PF11148_consen 24 EDLTEAEVKAAMQAIIAKKVFAKDGGKLVK 53 (69)
T ss_pred CCCCHHHHHHHHHHHHHhCCeeCCCcceee
Confidence 57899999999988754 45555665543
No 116
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=26.29 E-value=1.5e+02 Score=20.85 Aligned_cols=41 Identities=20% Similarity=0.178 Sum_probs=33.9
Q ss_pred CceeEEEEEcCCC-----------CHHHHHHHHHHHhhhhccCCcEEEeeec
Q 034908 2 PLYDCMLLLKPHV-----------RKESLMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 2 ~~YE~~~I~~p~l-----------~~e~~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
+.|.+++++.|+. +.++.++.-..+...+.+++-..+.++.
T Consensus 113 ~r~DL~lLl~p~t~wvaDG~R~~~~~~~R~~F~~~l~~~L~~~~~~~v~i~~ 164 (187)
T COG3172 113 YRFDLTLLLEPNTPWVADGLRSLGSSVQRQEFQNLLEQMLEENNIPFVVIEG 164 (187)
T ss_pred cccceEEEcCCCCceeCCCccccccHhHHHHHHHHHHHHHHHhCCcEEEEcC
Confidence 3589999999875 4668899999999999999888777765
No 117
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=26.17 E-value=46 Score=24.76 Aligned_cols=39 Identities=15% Similarity=0.299 Sum_probs=29.8
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccccc
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQL 48 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~L 48 (79)
.++++|.++++.+.. ..-.+..+.+|.|..+...|..-+
T Consensus 205 ~lvvDPsleEe~v~d---~~ltit~~~~~~Iv~iqK~g~~~~ 243 (272)
T COG2123 205 VLVVDPSLEEELVAD---GRLTITVNEDGEIVAIQKVGGGSI 243 (272)
T ss_pred EEEeCCCcchhhhcC---ceEEEEECCCCcEEEEEEcCCCcC
Confidence 468999998886654 555667788999999999885443
No 118
>PRK11538 ribosome-associated protein; Provisional
Probab=26.03 E-value=1.1e+02 Score=19.30 Aligned_cols=32 Identities=16% Similarity=0.303 Sum_probs=24.6
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNG 35 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG 35 (79)
..+.++|+. ..+..+++++.+.+.+.+.+.|-
T Consensus 33 ~~Dy~VIat-g~S~rh~~aia~~v~~~~k~~~~ 64 (105)
T PRK11538 33 ITDCMIICT-GTSSRHVMSIADHVVQESRAAGL 64 (105)
T ss_pred ccCEEEEEE-eCCHHHHHHHHHHHHHHHHHcCC
Confidence 457778887 44889999999999888776554
No 119
>PF03413 PepSY: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR005075 This signature, PepSY, is found in the propeptide of members of the MEROPS peptidase family M4 (clan MA(E)), which contains the thermostable thermolysins (3.4.24.27 from EC), and related thermolabile neutral proteases (bacillolysins) (3.4.24.28 from EC) from various species of Bacillus. It is also in many non-peptidase proteins, including Bacillus subtilis YpeB protein - a regulator of SleB spore cortex lytic enzyme - and a large number of eubacterial and archaeal cell wall-associated and secreted proteins which are mostly annotated as 'hypothetical protein'. Many extracellular bacterial proteases are produced as proenzymes. The propeptides usually have a dual function, i.e. they function as an intramolecular chaperone required for the folding of the polypeptide and as an inhibitor preventing premature activation of the enzyme. Analysis of the propeptide region of the M4 family of peptidases reveals two regions of conservation, the PepSY domain and a second domain, proximate to the N terminus, the FTP domain (IPR011096 from INTERPRO), which is also found in isolation in the propeptide of eukaryotic peptidases belong to MEROPS peptidase family M36. Propeptide domain swapping experiments, for example swapping the propeptide domain of PA protease with that of vibrolysin, both propeptides contain the FTP and PepSY domains, allows the PA protease domain to fold correctly and inhibits the C-terminal autoprocessing activity. However, swapping the propeptide of PA protease for the thermolysin propeptide, does not facilitate the correct folding nor the processing of the chimaeric protein into an active peptidase []. Mutational analysis of the Pseudomonas aeruginosa elastase gene revealed two mutations in the propeptide which resulted in the loss of inhibitory activity but not chaperone activity: A-15V and T-153I (where +1 is defined as the first residue of the mature peptidase). Both mutations resulted in peptidase activity, the T-153V mutation being much less effective than the A-15I mutation [] in activating peptidase activity. The T-153V mutation lies N-terminal to the FTP domain while the A-15I mutation is C-terminal to the PepSY domain. Given the diverse range of other proteins, both domains occur in in isolation, the exact function of each is still unclear; though it has been proposed that the PepSY domain primarily has inhibitory activity and in conjunction with the FTP domain in chaperone activity. ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 2GU3_A 3NQZ_A 3NQY_A 2KGY_A.
Probab=26.00 E-value=1.1e+02 Score=16.03 Aligned_cols=38 Identities=11% Similarity=0.004 Sum_probs=21.0
Q ss_pred CCcEEEeeeccc--ccccccccccCC----eeeEEEEEEEEeecC
Q 034908 33 RNGVLTDITSFG--TVQLGYGIKKLD----GRYYQLIPTWEFNSG 71 (79)
Q Consensus 33 ~GG~I~~~e~wG--~R~LAY~I~k~~----~g~Y~~~~~~~~~~~ 71 (79)
.+|.......-. .-+++|.|.-.. .+... .+.+.+.+.
T Consensus 15 ~~~~~~~~~~~~~~~~~~~Y~v~~~~~~~~~~~~~-~v~VDa~tG 58 (64)
T PF03413_consen 15 YPGKVISVELEEDENGRLVYEVEVVSDDDPDGGEY-EVYVDAYTG 58 (64)
T ss_dssp CCCEEEEEEEECC-TCEEEEEEEEEBTTSTTTEEE-EEEEETTT-
T ss_pred CCCCEEEEEEccccCCcEEEEEEEEEEecCCCCEE-EEEEECCCC
Confidence 455555554444 788999998552 45444 334554443
No 120
>PF08212 Lipocalin_2: Lipocalin-like domain; InterPro: IPR000566 Proteins which transport small hydrophobic molecules such as steroids, bilins, retinoids, and lipids share limited regions of sequence homology and a common tertiary structure architecture [, , , , ]. This is an eight stranded antiparallel beta-barrel with a repeated + 1 topology enclosing a internal ligand binding site [, ]. The name 'lipocalin' has been proposed [] for this protein family, but cytosolic fatty-acid binding proteins are also included. The sequences of most members of the family, the core or kernal lipocalins, are characterised by three short conserved stretches of residues, while others, the outlier lipocalin group, share only one or two of these [, ]. Proteins known to belong to this family include alpha-1-microglobulin (protein HC); alpha-1-acid glycoprotein (orosomucoid) []; aphrodisin; apolipoprotein D; beta-lactoglobulin; complement component C8 gamma chain []; crustacyanin []; epididymal-retinoic acid binding protein (E-RABP) []; insectacyanin; odorant-binding protein (OBP); human pregnancy-associated endometrial alpha-2 globulin; probasin (PB), a rat prostatic protein; prostaglandin D synthase (5.3.99.2 from EC) []; purpurin; Von Ebner's gland protein (VEGP) []; and lizard epididymal secretory protein IV (LESP IV) [].; GO: 0005488 binding; PDB: 3EBW_B 1QWD_A 2ACO_A 3MBT_A.
Probab=25.90 E-value=1.3e+02 Score=19.13 Aligned_cols=25 Identities=20% Similarity=0.554 Sum_probs=15.4
Q ss_pred eEEEEEc--CCCCHHHHHHHHHHHhhh
Q 034908 5 DCMLLLK--PHVRKESLMELVARVGKH 29 (79)
Q Consensus 5 E~~~I~~--p~l~~e~~~~~~~~~~~~ 29 (79)
+.+.|+. |.++++.++.+++++.+.
T Consensus 105 ~~~WILsR~p~~~~~~~~~~~~~~~~~ 131 (143)
T PF08212_consen 105 EYLWILSRTPQLSEETYAEILDRAKQQ 131 (143)
T ss_dssp CEEEEEESSSS--HHHHHHHHHHHHHT
T ss_pred CEEEEEeCCCCCCHHHHHHHHHHHHHc
Confidence 3455554 888888888877776543
No 121
>cd06155 eu_AANH_C_1 A group of hypothetical eukaryotic proteins, characterized by the presence of an adenine nucleotide alpha hydrolase (AANH)-like domain located N-terminal to two distinctly different YjgF-YER057c-UK114-like domains. This CD contains the first of these domains. The YjgF-YER057c-UK114 protein family is a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=25.89 E-value=36 Score=20.62 Aligned_cols=24 Identities=13% Similarity=0.259 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhhhhccCCcEEEe
Q 034908 16 KESLMELVARVGKHVYGRNGVLTD 39 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~~ 39 (79)
++|..++++.+.+++.+.|+...+
T Consensus 25 ~~Q~~~v~~ni~~~L~~aG~~~~d 48 (101)
T cd06155 25 EEQMESIFSKLREILQSNGLSLSD 48 (101)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHH
Confidence 578999999999999999986543
No 122
>PF14189 DUF4312: Domain of unknown function (DUF4312)
Probab=25.62 E-value=1.7e+02 Score=18.05 Aligned_cols=50 Identities=22% Similarity=0.297 Sum_probs=35.4
Q ss_pred eeEEEEEc--CCCCHHHHHHHHHHHhhhhcc-CCcEEEeeecccccccccccc
Q 034908 4 YDCMLLLK--PHVRKESLMELVARVGKHVYG-RNGVLTDITSFGTVQLGYGIK 53 (79)
Q Consensus 4 YE~~~I~~--p~l~~e~~~~~~~~~~~~I~~-~GG~I~~~e~wG~R~LAY~I~ 53 (79)
++..+.++ -+..+++.++++.+++..+.+ .+|.+..+|.-...-|.=..+
T Consensus 2 ~~~tv~vsGkG~tKe~Afa~als~vq~~v~~~~~~vlLrIEP~dV~vl~a~e~ 54 (85)
T PF14189_consen 2 FTTTVTVSGKGETKEEAFAKALSQVQKTVLKETNGVLLRIEPVDVEVLKAKEK 54 (85)
T ss_pred eEEEEEEEcccccHHHHHHHHHHHHHHHHHhcCCCcEEEEcCcEEEEEEeeee
Confidence 45556665 344567799999999988776 567899998877666554433
No 123
>PRK03987 translation initiation factor IF-2 subunit alpha; Validated
Probab=25.59 E-value=77 Score=23.04 Aligned_cols=37 Identities=16% Similarity=0.146 Sum_probs=25.4
Q ss_pred CceeEEEEEc-CCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 2 PLYDCMLLLK-PHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 2 ~~YE~~~I~~-p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
|.|=+..... +....+.++++++.+.+.|.++||+..
T Consensus 219 P~Y~i~~~~~d~k~~~~~l~~~~~~~~~~i~~~gg~~~ 256 (262)
T PRK03987 219 PRYRIDVTAPDYKTAEKALKKIAERAIKVIKKLGGEGS 256 (262)
T ss_pred CeEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhCCEEE
Confidence 4555555442 222356688889999999999999863
No 124
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=25.53 E-value=1.1e+02 Score=22.50 Aligned_cols=24 Identities=8% Similarity=0.191 Sum_probs=20.6
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhh
Q 034908 5 DCMLLLKPHVRKESLMELVARVGK 28 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~ 28 (79)
|..+.++|++++++++++.+++++
T Consensus 67 ei~vyl~~~~~~~~~~~l~~~L~~ 90 (309)
T PRK11026 67 QLTVYLDKTLDDDAANAVVEQLKA 90 (309)
T ss_pred eEEEEECCCCCHHHHHHHHHHHhC
Confidence 778889999999999988888765
No 125
>PF00586 AIRS: AIR synthase related protein, N-terminal domain; InterPro: IPR000728 This family includes Hydrogen expression/formation protein, HypE, which may be involved in the maturation of NifE hydrogenase; AIR synthase and FGAM synthase, which are involved in de novo purine biosynthesis; and selenide, water dikinase, an enzyme which synthesizes selenophosphate from selenide and ATP.; GO: 0003824 catalytic activity; PDB: 3VIU_A 2Z1T_A 2Z1U_A 3C9U_B 3C9S_A 3C9R_A 1VQV_A 3C9T_B 3M84_A 3QTY_A ....
Probab=25.45 E-value=1.5e+02 Score=17.34 Aligned_cols=31 Identities=19% Similarity=0.090 Sum_probs=23.8
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
+.+.+..++++++++++.+.+...+.|..|.
T Consensus 62 l~~~~~~~~~~l~~~~~Gi~~~~~~~g~~iv 92 (96)
T PF00586_consen 62 LGLPNPESPEELKEIVKGIAEACREFGIPIV 92 (96)
T ss_dssp EEESTTSBHHHHHHHHHHHHHHHHHHT-EEE
T ss_pred EEcCCCCCHHHHHHHHHHHHHHHHHhCCcEe
Confidence 4445556889999999999999888887665
No 126
>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=25.32 E-value=92 Score=17.95 Aligned_cols=48 Identities=15% Similarity=0.307 Sum_probs=33.8
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD 56 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~ 56 (79)
++|+..+-.+++..+....+.+.+.++| .-+.++. +.++|...|+...
T Consensus 2 v~Ii~~~~~~~~~~~~a~~l~~~L~~~g-i~v~~d~-~~~~~~k~~~~a~ 49 (94)
T PF03129_consen 2 VVIIPVGKKDEEIIEYAQELANKLRKAG-IRVELDD-SDKSLGKQIKYAD 49 (94)
T ss_dssp EEEEESSCSHHHHHHHHHHHHHHHHHTT-SEEEEES-SSSTHHHHHHHHH
T ss_pred EEEEEeCCCcHHHHHHHHHHHHHHHHCC-CEEEEEC-CCCchhHHHHHHh
Confidence 4555555446678888899999988877 3344444 8888888888754
No 127
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=25.28 E-value=34 Score=17.87 Aligned_cols=6 Identities=50% Similarity=1.370 Sum_probs=3.2
Q ss_pred CCceeE
Q 034908 1 MPLYDC 6 (79)
Q Consensus 1 M~~YE~ 6 (79)
||.||-
T Consensus 1 MP~Yey 6 (42)
T PF09723_consen 1 MPIYEY 6 (42)
T ss_pred CCCEEE
Confidence 555553
No 128
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=25.03 E-value=1.6e+02 Score=19.73 Aligned_cols=47 Identities=9% Similarity=0.059 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEEEEEEEEeecCcccccc
Q 034908 15 RKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQLIPTWEFNSGSIFEGF 77 (79)
Q Consensus 15 ~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~~~~~~~~~~~~~~e~~ 77 (79)
+++...++++++.+.+.+.|-+| .+-.=|+|. -|.+++-+-|++|.+
T Consensus 89 ~P~~A~~iL~~le~~L~~~g~eV---------------~raPFGwyK-~F~i~ckGHPLsElS 135 (138)
T PF08915_consen 89 SPDVAVEILKKLEERLKSRGFEV---------------YRAPFGWYK-EFEISCKGHPLSELS 135 (138)
T ss_dssp -HHHHHHHHHHHHHHHHHTT-EE---------------EE--TTEEE-EEEEEE-SSTTSEEE
T ss_pred ChHHHHHHHHHHHHHHHhCCCeE---------------EEeCCccce-eEEEEecCccHHHhh
Confidence 46667889999999887777555 444558999 789999999998864
No 129
>COG4860 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.84 E-value=1.1e+02 Score=21.07 Aligned_cols=29 Identities=17% Similarity=0.203 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHhhhhccCCcEEEeee
Q 034908 13 HVRKESLMELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~~GG~I~~~e 41 (79)
-+++++++...+.+...+.+-++.+.++.
T Consensus 107 f~sdeev~ey~~ei~~l~e~g~ts~~~vt 135 (170)
T COG4860 107 FLSDEEVKEYEDEIKALMEEGNTSFLDVT 135 (170)
T ss_pred hCCHHHHHHHHHHHHHHHHcCCceEeehh
Confidence 46889999999999999998887777654
No 130
>PRK01313 rnpA ribonuclease P; Reviewed
Probab=24.75 E-value=89 Score=20.37 Aligned_cols=29 Identities=10% Similarity=0.313 Sum_probs=18.8
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhh
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHV 30 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I 30 (79)
+-|++++|++|...+..-.++.+.+...+
T Consensus 84 ~g~DiVivar~~~~~~~~~~l~~~L~~~l 112 (129)
T PRK01313 84 PGTDYVIVARRDALNAPFSQLTEELSRRI 112 (129)
T ss_pred CCceEEEEECcccccCCHHHHHHHHHHHH
Confidence 34899999999866554445444444443
No 131
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.34 E-value=73 Score=17.64 Aligned_cols=21 Identities=14% Similarity=0.040 Sum_probs=17.4
Q ss_pred HHHHHHhhhhccCCcEEEeee
Q 034908 21 ELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 21 ~~~~~~~~~I~~~GG~I~~~e 41 (79)
..+.++.++|.++|+.|.++.
T Consensus 11 G~L~~l~~~i~~~g~nI~~i~ 31 (72)
T cd04884 11 GTLKPVVDTLREFNARIISIL 31 (72)
T ss_pred ccHHHHHHHHHHCCCeEEEEE
Confidence 346788899999999999884
No 132
>PF10869 DUF2666: Protein of unknown function (DUF2666) ; InterPro: IPR022620 This Archaeal family of proteins has no known function. ; PDB: 3V68_A.
Probab=24.30 E-value=83 Score=21.01 Aligned_cols=42 Identities=21% Similarity=0.348 Sum_probs=25.9
Q ss_pred EEcCCCCHHHHHHHHHHHhhhhcc----CCcEEEeeeccccccccccccc
Q 034908 9 LLKPHVRKESLMELVARVGKHVYG----RNGVLTDITSFGTVQLGYGIKK 54 (79)
Q Consensus 9 I~~p~l~~e~~~~~~~~~~~~I~~----~GG~I~~~e~wG~R~LAY~I~k 54 (79)
++++++++++++.++.++++.|.. .-| +|-=|.+.+|=+|.+
T Consensus 20 ~Ide~t~~~eIAr~LAsI~eTv~~Kip~yl~----iDv~~i~~~a~ei~~ 65 (131)
T PF10869_consen 20 IIDEKTEDEEIARFLASINETVNSKIPEYLG----IDVKGIEEIAEEIKK 65 (131)
T ss_dssp C--TTS-HHHHHHHHHHHHHHHHHHHHHHTT----B-HHHHHCHTTT--S
T ss_pred ecCCCCCHHHHHHHHHHHHHHHHHhhhhhcc----cCHHHHHHHHHHHHh
Confidence 456788999999999999988764 222 566666666655554
No 133
>TIGR03610 RutC pyrimidine utilization protein C. This protein is observed in operons extremely similar to that characterized in E. coli K-12 responsible for the import and catabolism of pyrimidines, primarily uracil. This protein is a member of the endoribonuclease L-PSP family defined by pfam01042.
Probab=24.30 E-value=49 Score=21.09 Aligned_cols=25 Identities=8% Similarity=0.179 Sum_probs=21.6
Q ss_pred CHHHHHHHHHHHhhhhccCCcEEEe
Q 034908 15 RKESLMELVARVGKHVYGRNGVLTD 39 (79)
Q Consensus 15 ~~e~~~~~~~~~~~~I~~~GG~I~~ 39 (79)
-.+|..++++++..++.+.|+...+
T Consensus 48 ~~~Q~~~~l~ni~~iL~~aG~~~~d 72 (127)
T TIGR03610 48 AAAQTRHVLETIKSVIETAGGTMDD 72 (127)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 4678999999999999999987544
No 134
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=24.25 E-value=1.5e+02 Score=16.80 Aligned_cols=22 Identities=23% Similarity=-0.040 Sum_probs=18.1
Q ss_pred HHHHHHHhhhhccCCcEEEeee
Q 034908 20 MELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 20 ~~~~~~~~~~I~~~GG~I~~~e 41 (79)
...+.++.+.+.++|.-|.+++
T Consensus 12 ~G~L~~il~~f~~~~ini~~i~ 33 (80)
T cd04905 12 PGALYDVLGVFAERGINLTKIE 33 (80)
T ss_pred CCHHHHHHHHHHHCCcCEEEEE
Confidence 3457788888899999999997
No 135
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=24.07 E-value=1.9e+02 Score=18.00 Aligned_cols=38 Identities=21% Similarity=0.177 Sum_probs=24.6
Q ss_pred EcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccccc
Q 034908 10 LKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQ 47 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~ 47 (79)
+.|+-+.+++.+-++++-+-+.+..|+|.=+|-+|--.
T Consensus 35 ~~~~~~~~~~~~~l~~~i~~~~~~~~vivltDl~GGSp 72 (116)
T TIGR00824 35 FVPGENAETLQEKYNAALADLDTEEEVLFLVDIFGGSP 72 (116)
T ss_pred cCCCcCHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCH
Confidence 44666666666555555555555678898888887543
No 136
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=24.06 E-value=1.5e+02 Score=21.72 Aligned_cols=40 Identities=15% Similarity=0.145 Sum_probs=36.2
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccc
Q 034908 6 CMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGT 45 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~ 45 (79)
..+|++|.-.....++..+++.+.+.+.|.++....-+..
T Consensus 5 ~~~i~Np~sG~~~~~~~~~~~~~~l~~~g~~~~~~~t~~~ 44 (301)
T COG1597 5 ALLIYNPTSGKGKAKKLLREVEELLEEAGHELSVRVTEEA 44 (301)
T ss_pred EEEEEcccccccchhhHHHHHHHHHHhcCCeEEEEEeecC
Confidence 4789999988888999999999999999999998888877
No 137
>PF03369 Herpes_UL3: Herpesvirus UL3 protein; InterPro: IPR005035 Herpes simplex viruses are large DNA viruses, the genome of which encode approximately 80 genes. The UL3 gene of Human herpesvirus 2 (HHV-2) is predicted to encode a 233 amino acid protein with a molecular mass of 26 kDa. Homologues of the UL3 protein are encoded only among alphaherpesviruses. The function of the UL3 protein of Herpes simplex viruses remains unknown but it is known to localize to the nucleus and is a phosphoprotein [].
Probab=23.92 E-value=22 Score=23.68 Aligned_cols=18 Identities=33% Similarity=0.482 Sum_probs=15.1
Q ss_pred EEeeeccccccccccccc
Q 034908 37 LTDITSFGTVQLGYGIKK 54 (79)
Q Consensus 37 I~~~e~wG~R~LAY~I~k 54 (79)
|-++|+.|+|+|.=.|.|
T Consensus 9 VsSidELGRRQLTDTIRk 26 (134)
T PF03369_consen 9 VSSIDELGRRQLTDTIRK 26 (134)
T ss_pred EeecchhhhhhhhHHHHH
Confidence 568899999999877775
No 138
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.83 E-value=72 Score=16.76 Aligned_cols=22 Identities=5% Similarity=0.075 Sum_probs=18.1
Q ss_pred HHHHHHHhhhhccCCcEEEeee
Q 034908 20 MELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 20 ~~~~~~~~~~I~~~GG~I~~~e 41 (79)
...+.++.+.|.++|+.|.++.
T Consensus 9 ~G~L~~i~~~i~~~~~nI~~i~ 30 (73)
T cd04886 9 PGQLAKLLAVIAEAGANIIEVS 30 (73)
T ss_pred CChHHHHHHHHHHcCCCEEEEE
Confidence 3467788888999999999885
No 139
>PRK10753 transcriptional regulator HU subunit alpha; Provisional
Probab=23.79 E-value=95 Score=18.64 Aligned_cols=39 Identities=13% Similarity=0.225 Sum_probs=27.9
Q ss_pred CCCCHHHHHHHHHHHhhhhcc--CCcEEEeeeccccccccc
Q 034908 12 PHVRKESLMELVARVGKHVYG--RNGVLTDITSFGTVQLGY 50 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~--~GG~I~~~e~wG~R~LAY 50 (79)
..++..+++.+++.+-+.|.+ ..|.-+.+-.||.-++..
T Consensus 14 ~~~s~~~~~~~v~~~~~~i~~~L~~g~~V~i~gfG~F~v~~ 54 (90)
T PRK10753 14 AELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNH 54 (90)
T ss_pred hCCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcCCEEEEEee
Confidence 467778888888888877744 334457888899877753
No 140
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=23.67 E-value=97 Score=16.19 Aligned_cols=29 Identities=10% Similarity=0.030 Sum_probs=23.8
Q ss_pred HHHHHHHHhhhhccCCcEEEeeecccccc
Q 034908 19 LMELVARVGKHVYGRNGVLTDITSFGTVQ 47 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~wG~R~ 47 (79)
...++.++.+++.++|.-|..+.....+.
T Consensus 10 rpG~l~~v~~~la~~~inI~~~~~~~~~~ 38 (66)
T PF01842_consen 10 RPGILADVTEILADHGINIDSISQSSDKD 38 (66)
T ss_dssp STTHHHHHHHHHHHTTEEEEEEEEEEESS
T ss_pred CCCHHHHHHHHHHHcCCCHHHeEEEecCC
Confidence 35678899999999999999988766543
No 141
>PF02686 Glu-tRNAGln: Glu-tRNAGln amidotransferase C subunit; InterPro: IPR003837 Glu-tRNAGln amidotransferase is a heterotrimeric enzyme that is required for correct decoding of glutamine codons during translation. The Glu-tRNA Gln amidotransferase enzyme is an important translational fidelity mechanism replacing incorrectly charged Glu-tRNAGln with the correct Gln-tRANGln via transmidation of the misacylated Glu-tRNAGln []. This activity supplements the lack of glutaminyl-tRNA synthetase activity in Gram-positive eubacteria, cyanobacteria, archaea, and organelles [].; GO: 0006450 regulation of translational fidelity; PDB: 2DQN_C 3IP4_C 2G5I_C 2F2A_C 2G5H_C 2DF4_C 3AL0_C 3KFU_G 3H0R_I 3H0L_U ....
Probab=23.60 E-value=86 Score=17.54 Aligned_cols=39 Identities=13% Similarity=0.163 Sum_probs=19.9
Q ss_pred CCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccccc
Q 034908 14 VRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIK 53 (79)
Q Consensus 14 l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~ 53 (79)
+++++++++.+.+.+++.--. .+..++-=|...+.+++.
T Consensus 1 l~eeE~~~~~~~l~~il~~~~-~l~~vdt~~v~p~~~~~~ 39 (72)
T PF02686_consen 1 LTEEELEKLTKQLNDILDYVE-KLQEVDTEGVEPMYHPVE 39 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHT-TGGGS--TT----S-SS-
T ss_pred CCHHHHHHHHHHHHHHHHHHH-HHhhcccCCCCccccccc
Confidence 467888888888888765433 455555556666666654
No 142
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=23.58 E-value=1.1e+02 Score=24.67 Aligned_cols=39 Identities=21% Similarity=0.147 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhhhccCCcEEEeeecccccccccccccCC
Q 034908 18 SLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD 56 (79)
Q Consensus 18 ~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~ 56 (79)
+..++.+.+.+.+.+.||.|..-.=-|+-+.+|-=+..+
T Consensus 485 ~~~~~~~~i~~~~~~~gGsiSgEHGiG~~k~~~l~~~~g 523 (555)
T PLN02805 485 EAERLNHFMVHTALSMEGTCTGEHGVGTGKMKYLEKELG 523 (555)
T ss_pred HHHHHHHHHHHHHHHcCCeEeEECCCChhHHHHHHHhcC
Confidence 356688888999999999999999999988776544333
No 143
>TIGR00188 rnpA ribonuclease P protein component, eubacterial. The yeast mitochondrial RNase P protein component gene RPM2 has no obvious sequence similarity to rnpA, but resembles eukaryotic nuclear RNase P instead.
Probab=23.45 E-value=94 Score=19.11 Aligned_cols=27 Identities=4% Similarity=0.103 Sum_probs=18.3
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhh
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
-|..++|++|...+..-+++.+.+..+
T Consensus 77 ~~d~v~i~r~~~~~~~~~~l~~~l~~l 103 (105)
T TIGR00188 77 ALDVVVIVRKGFSELTYEAFLKLLLQL 103 (105)
T ss_pred CccEEEEECCCcCcCCHHHHHHHHHHH
Confidence 478999999986655555555555443
No 144
>PF07983 X8: X8 domain; InterPro: IPR012946 The X8 domain [] contains 6 conserved cysteine residues that presumably form three disulphide bridges. The domain is found in an Olive pollen allergen [] as well as at the C terminus of family 17 glycosyl hydrolases []. This domain may be involved in carbohydrate binding.; PDB: 2JON_A 2W61_A 2W62_A 2W63_A.
Probab=23.44 E-value=1.4e+02 Score=17.74 Aligned_cols=23 Identities=17% Similarity=0.271 Sum_probs=18.2
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhh
Q 034908 7 MLLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
-.|++|+++++++.++++-+...
T Consensus 2 ~Cv~~~~~~~~~l~~~l~~aC~~ 24 (78)
T PF07983_consen 2 WCVAKPDADDKELQDLLDYACGQ 24 (78)
T ss_dssp EEEE-TTS-HHHHHHHHHHHTTT
T ss_pred cceeCCCCCHHHHHHHHHHHHcC
Confidence 46899999999999999988776
No 145
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=23.42 E-value=58 Score=25.96 Aligned_cols=30 Identities=30% Similarity=0.364 Sum_probs=25.3
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
++++| ++++++.+.++++.+-|..+..+=.
T Consensus 102 YLLKP-~~k~eL~~~L~ki~~kl~~~~~~~~ 131 (475)
T COG4753 102 YLLKP-VDKAELEEALKKIIGKLEEQQKVKQ 131 (475)
T ss_pred heeCc-CCHHHHHHHHHHHHHHHHHHHhhcc
Confidence 68899 7999999999999999988765544
No 146
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=23.26 E-value=1e+02 Score=18.09 Aligned_cols=27 Identities=11% Similarity=0.217 Sum_probs=20.6
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
+.++..++.++.+++...+.+.+.++|
T Consensus 5 v~~~g~~t~ed~~~~~~~~~~~~~~~~ 31 (109)
T PF11964_consen 5 VRVSGKLTEEDYKELLPALEELIADHG 31 (109)
T ss_dssp EEEEEEE-HHHHHHHHHHHHHHHTTSS
T ss_pred EEEeeeeCHHHHHHHHHHHHHHHhcCC
Confidence 445567889999999999999977544
No 147
>TIGR02644 Y_phosphoryl pyrimidine-nucleoside phosphorylase. In general, members of this protein family are designated pyrimidine-nucleoside phosphorylase, enzyme family EC 2.4.2.2, as in Bacillus subtilis, and more narrowly as the enzyme family EC 2.4.2.4, thymidine phosphorylase (alternate name: pyrimidine phosphorylase), as in Escherichia coli. The set of proteins encompassed by this model is designated subfamily rather than equivalog for this reason; the protein name from this model should be used when TIGR02643 does not score above trusted cutoff.
Probab=23.23 E-value=53 Score=25.55 Aligned_cols=41 Identities=12% Similarity=0.179 Sum_probs=30.2
Q ss_pred HHHHHHhhhhccCCcEEEeeecccccccc---cccccCCeeeEE
Q 034908 21 ELVARVGKHVYGRNGVLTDITSFGTVQLG---YGIKKLDGRYYQ 61 (79)
Q Consensus 21 ~~~~~~~~~I~~~GG~I~~~e~wG~R~LA---Y~I~k~~~g~Y~ 61 (79)
+.++++.++|..+||...-++++-.-..| |+|...++||-.
T Consensus 302 ~Al~kf~~~v~aQGG~~~~~~~~~~~~~~~~~~~v~a~~~G~v~ 345 (405)
T TIGR02644 302 KALEKFRRFVEAQGGDPDVIKNLDKLPKAKYKEEVKAEKSGYIS 345 (405)
T ss_pred HHHHHHHHHHHHhCCChhhhcCcccCCCCCeEEEEECCCCeEEE
Confidence 45788999999999987766665332222 778888888766
No 148
>PF10789 Phage_RpbA: Phage RNA polymerase binding, RpbA; InterPro: IPR019725 Upon infection, the RpbA encoded phage protein binds to the ADP-ribosylated core RNA polymerase and modulates function to preferentially bind T4 promoters. This is a non-essential protein to the phage life cycle.
Probab=23.22 E-value=1.1e+02 Score=19.77 Aligned_cols=27 Identities=15% Similarity=0.283 Sum_probs=22.8
Q ss_pred HHHHHHhhhhccCCcEEEeeecccccccc
Q 034908 21 ELVARVGKHVYGRNGVLTDITSFGTVQLG 49 (79)
Q Consensus 21 ~~~~~~~~~I~~~GG~I~~~e~wG~R~LA 49 (79)
.+.++..+-..++|+..+... |..+|+
T Consensus 60 ~Lm~~~r~~sl~~Gak~V~~~--g~~rle 86 (108)
T PF10789_consen 60 ELMRKHREDSLAAGAKFVRVN--GKERLE 86 (108)
T ss_pred HHHHHHHHHHHHccCceeccC--Cceecc
Confidence 677788888888999999887 998886
No 149
>cd06152 YjgF_YER057c_UK114_like_4 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=23.11 E-value=47 Score=20.79 Aligned_cols=23 Identities=9% Similarity=-0.029 Sum_probs=19.5
Q ss_pred CHHHHHHHHHHHhhhhccCC-cEE
Q 034908 15 RKESLMELVARVGKHVYGRN-GVL 37 (79)
Q Consensus 15 ~~e~~~~~~~~~~~~I~~~G-G~I 37 (79)
-++|...+++++..++...| +..
T Consensus 32 ~~~Q~~~~~~Nl~~~L~~aG~~~~ 55 (114)
T cd06152 32 LEEEIDQAFDNVELALKAAGGKGW 55 (114)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCH
Confidence 36889999999999999999 543
No 150
>PF03389 MobA_MobL: MobA/MobL family; InterPro: IPR005053 This entry represents a domain found at the N terminus of MobA in Escherichia coli, and MobL in Thiobacillus ferrooxidans (Acidithiobacillus ferrooxidans), as well as in conjugal transfer protein TraA. MobA and MobL are mobilisation proteins, which are essential for specific plasmid transfer.; GO: 0009291 unidirectional conjugation; PDB: 2NS6_A.
Probab=22.95 E-value=2.1e+02 Score=19.94 Aligned_cols=36 Identities=19% Similarity=0.314 Sum_probs=23.9
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEee
Q 034908 5 DCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDI 40 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~ 40 (79)
|+++-|.-+|+.++..++++++.+-.....|.+.++
T Consensus 70 e~~iALP~EL~~eq~~~L~~~f~~~~~~~~G~~~d~ 105 (216)
T PF03389_consen 70 EFEIALPRELTLEQNIELVREFAQENFVDYGMAADV 105 (216)
T ss_dssp EEEEE--TTS-HHHHHHHHHHHHHHHHTTTT--EEE
T ss_pred eeeeeCCccCCHHHHHHHHHHHHHHHhhccceEEEE
Confidence 567777779999999999999998855555555443
No 151
>COG3575 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.94 E-value=2.6e+02 Score=19.72 Aligned_cols=30 Identities=10% Similarity=0.086 Sum_probs=24.8
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhcc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~ 32 (79)
-|+++|.=.++++.++-+++.+|+.+...+
T Consensus 58 DiDv~yFD~~dls~e~e~~~~kkl~~~f~~ 87 (184)
T COG3575 58 DIDVIYFDDADLSYEAEAALEKKLAEQFPQ 87 (184)
T ss_pred cceEEEecCcccChHHHHHHHHHHHHhccC
Confidence 367777777999999999999998888664
No 152
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=22.89 E-value=75 Score=26.19 Aligned_cols=28 Identities=11% Similarity=0.208 Sum_probs=24.0
Q ss_pred CCCCHHHHHHHHHHHhhhhccC-CcEEEe
Q 034908 12 PHVRKESLMELVARVGKHVYGR-NGVLTD 39 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~~-GG~I~~ 39 (79)
-.|++++++++.+++.+.+.+. |+++|+
T Consensus 676 ~TLtd~ei~~~~~~i~~~l~~~~~a~lR~ 704 (704)
T CHL00192 676 KTLTNEEIDRIQQNLQKVLEKKLNAEIRE 704 (704)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhCcEeCC
Confidence 4689999999999999999765 888873
No 153
>PF09181 ProRS-C_2: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR015264 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found predominantly found in prolyl-tRNA synthetases from archaeal Methanococci species. It contains a zinc binding site, and adopts a structure consisting of alpha helices and antiparallel beta sheets arranged in 2 layers, in a beta-alpha-beta-alpha-beta motif []. ; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ8_C.
Probab=22.74 E-value=76 Score=18.84 Aligned_cols=23 Identities=13% Similarity=0.336 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHhhhhccCCcEEE
Q 034908 16 KESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
+.++..+++++++++.+..|+|.
T Consensus 8 ~~~~~~l~e~iK~~L~ekrgviL 30 (68)
T PF09181_consen 8 ESDVNLLIEKIKEILSEKRGVIL 30 (68)
T ss_dssp -HH------HHHHHCTTT-SEEE
T ss_pred CccchhhHHHHHHHHHhcCCEEE
Confidence 56678999999999999888885
No 154
>PRK04027 30S ribosomal protein S7P; Reviewed
Probab=22.73 E-value=38 Score=23.96 Aligned_cols=28 Identities=21% Similarity=0.324 Sum_probs=22.6
Q ss_pred HHHHHHHhhhhccCCcEEEeeecccccccccccc
Q 034908 20 MELVARVGKHVYGRNGVLTDITSFGTVQLGYGIK 53 (79)
Q Consensus 20 ~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~ 53 (79)
-.+++++-+.|+..| .|-|+|.+||.|=
T Consensus 57 ~~iVerLiN~lM~~~------~n~GKK~~A~~Iv 84 (195)
T PRK04027 57 VPIVERLINKLMRTE------RNTGKKQKAYNIV 84 (195)
T ss_pred CHHHHHHHHHHhccC------ccCCcHHHHHHHH
Confidence 457888888888766 6779999998874
No 155
>PF00825 Ribonuclease_P: Ribonuclease P; InterPro: IPR000100 Ribonuclease P (3.1.26.5 from EC) (RNase P) [, , ] is a site specific endonuclease that generates mature tRNAs by catalysing the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. In bacteria RNase P is known to be composed of two components: a large RNA (about 400 base pairs) encoded by rnpB, and a small protein (119 to 133 amino acids) encoded by rnpA. The RNA moiety of RNase P carries the catalytic activity; the protein component plays an auxiliary, but essential, role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. The sequence of rnpA is not highly conserved, however there is, in the central part of the protein, a conserved basic region.; GO: 0000049 tRNA binding, 0004526 ribonuclease P activity, 0008033 tRNA processing; PDB: 1D6T_A 1A6F_A 2LJP_A 1NZ0_C 3Q1Q_A 3Q1R_A.
Probab=22.63 E-value=73 Score=19.60 Aligned_cols=29 Identities=24% Similarity=0.312 Sum_probs=18.7
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhc
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVY 31 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~ 31 (79)
-|.++++++|...+..-.++.+.+..++.
T Consensus 80 ~~d~v~~~r~~~~~~~~~~l~~~l~~ll~ 108 (111)
T PF00825_consen 80 GYDIVFIARPGALELSFEELEKELKKLLK 108 (111)
T ss_dssp SSEEEEEE-CGGGGS-HHHHHHHHHHHHH
T ss_pred CcEEEEEEcCCcCcCCHHHHHHHHHHHHH
Confidence 57899999988665556666666655543
No 156
>PF08434 CLCA_N: Calcium-activated chloride channel; InterPro: IPR013642 The CLCA family of calcium-activated chloride channels has been identified in many epithelial and endothelial cell types as well as in smooth muscle cells [] and has four or five putative transmembrane regions. Additionally to their role as chloride channels some CLCA proteins function as adhesion molecules and may also have roles as tumour suppressors []. The domain described here is found at the N terminus of CLCAs.
Probab=22.48 E-value=91 Score=22.96 Aligned_cols=28 Identities=14% Similarity=0.399 Sum_probs=20.3
Q ss_pred eeEEE-EEcCCCCHHHHHHHHHHHhhhhccC
Q 034908 4 YDCML-LLKPHVRKESLMELVARVGKHVYGR 33 (79)
Q Consensus 4 YE~~~-I~~p~l~~e~~~~~~~~~~~~I~~~ 33 (79)
||=++ -++|++++++ ++++++++.+++.
T Consensus 31 Ye~vvIAI~p~VpEd~--~lI~~Ik~m~t~A 59 (262)
T PF08434_consen 31 YEDVVIAINPSVPEDE--KLIDNIKDMFTEA 59 (262)
T ss_pred cccEEEEECCCCCccH--HHHHHHHHHHHHH
Confidence 65444 4679998875 7888888887764
No 157
>smart00044 CYCc Adenylyl- / guanylyl cyclase, catalytic domain. Present in two copies in mammalian adenylyl cyclases. Eubacterial homologues are known. Two residues (Asn, Arg) are thought to be involved in catalysis. These cyclases have important roles in a diverse range of cellular processes.
Probab=22.41 E-value=1.1e+02 Score=19.94 Aligned_cols=27 Identities=15% Similarity=0.267 Sum_probs=19.8
Q ss_pred CHHHHH----HHHHHHhhhhccCCcEEEeee
Q 034908 15 RKESLM----ELVARVGKHVYGRNGVLTDIT 41 (79)
Q Consensus 15 ~~e~~~----~~~~~~~~~I~~~GG~I~~~e 41 (79)
+++++. ...+.+.+++.++||.+.+..
T Consensus 55 ~~~~~~~~l~~~~~~~~~~i~~~gg~v~~~~ 85 (194)
T smart00044 55 TPEQVVTLLNDLYSRFDRIIDRHGGYKVKTI 85 (194)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCeEEEEEe
Confidence 445554 455578899999999998864
No 158
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.37 E-value=1.1e+02 Score=17.66 Aligned_cols=21 Identities=19% Similarity=0.302 Sum_probs=18.0
Q ss_pred CCCCHHHHHHHHHHHhhhhcc
Q 034908 12 PHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~ 32 (79)
|.|+-++-...++|+.++..+
T Consensus 6 p~LtHeqQQ~AVE~Iq~lMae 26 (60)
T COG3140 6 PSLTHEQQQKAVERIQELMAE 26 (60)
T ss_pred ccccHHHHHHHHHHHHHHHHc
Confidence 788889999999999998654
No 159
>KOG0174 consensus 20S proteasome, regulatory subunit beta type PSMB6/PSMB9/PRE3 [Posttranslational modification, protein turnover, chaperones]
Probab=22.28 E-value=1.5e+02 Score=21.47 Aligned_cols=47 Identities=19% Similarity=0.223 Sum_probs=31.4
Q ss_pred EcCCCCHHHHHHHHHHHhhhhc----cCCcEEEe--eecccccccccccccCC
Q 034908 10 LKPHVRKESLMELVARVGKHVY----GRNGVLTD--ITSFGTVQLGYGIKKLD 56 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~----~~GG~I~~--~e~wG~R~LAY~I~k~~ 56 (79)
-||+++.||-.+++++.-.+-. +.||+||- +..=|..+.-|+.++..
T Consensus 162 ~r~nMt~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~ 214 (224)
T KOG0174|consen 162 WRPNMTLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLG 214 (224)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCccc
Confidence 3799999998888877665544 36888875 34456655555555543
No 160
>PLN02788 phenylalanine-tRNA synthetase
Probab=22.14 E-value=83 Score=24.50 Aligned_cols=26 Identities=19% Similarity=0.226 Sum_probs=22.0
Q ss_pred CCCHHHHHHHHHHHhhhhccC-CcEEE
Q 034908 13 HVRKESLMELVARVGKHVYGR-NGVLT 38 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~~-GG~I~ 38 (79)
.|+++++.++.+++.+.+.+. |+++|
T Consensus 376 TLTdeEIn~i~~kI~~~L~~klgv~LR 402 (402)
T PLN02788 376 SLTDEEINALQDKVREEVQKKLGVELR 402 (402)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhCcEeC
Confidence 689999999999999988765 76664
No 161
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=21.95 E-value=66 Score=16.89 Aligned_cols=20 Identities=35% Similarity=0.617 Sum_probs=14.4
Q ss_pred EcCCCCHHHHHHHHHHHhhh
Q 034908 10 LKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~ 29 (79)
+.++.+++++.++++.+..+
T Consensus 6 lp~~~t~~~l~~~f~~~g~i 25 (70)
T PF00076_consen 6 LPPDVTEEELRDFFSQFGKI 25 (70)
T ss_dssp ETTTSSHHHHHHHHHTTSTE
T ss_pred CCCcCCHHHHHHHHHHhhhc
Confidence 34788888888777765554
No 162
>COG0252 AnsB L-asparaginase/archaeal Glu-tRNAGln amidotransferase subunit D [Amino acid transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=21.92 E-value=1.4e+02 Score=22.82 Aligned_cols=44 Identities=14% Similarity=0.225 Sum_probs=34.4
Q ss_pred eeEEEEEcCCCCHHHHHHHHHHHhhhhccC--CcEEEeeeccccccccc
Q 034908 4 YDCMLLLKPHVRKESLMELVARVGKHVYGR--NGVLTDITSFGTVQLGY 50 (79)
Q Consensus 4 YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~--GG~I~~~e~wG~R~LAY 50 (79)
+.++.|-+++++++...++.+++.+.+.+. -|+|.- .|...|+|
T Consensus 70 ~~~~ni~S~~m~~~~w~~la~~I~~~~~~~~~dGvVIt---HGTDTmee 115 (351)
T COG0252 70 EQVLNIDSSDMTPEDWLRLAEAINEALDDGDVDGVVIT---HGTDTMEE 115 (351)
T ss_pred EEeccCCcccCCHHHHHHHHHHHHHHhccCCCCeEEEe---CCCchHHH
Confidence 456677889999999999999999999875 666642 46666665
No 163
>PF08708 PriCT_1: Primase C terminal 1 (PriCT-1); InterPro: IPR014820 This alpha helical domain is found at the C-terminal of primases.
Probab=21.92 E-value=1.2e+02 Score=17.03 Aligned_cols=19 Identities=11% Similarity=0.314 Sum_probs=16.0
Q ss_pred cCCCCHHHHHHHHHHHhhh
Q 034908 11 KPHVRKESLMELVARVGKH 29 (79)
Q Consensus 11 ~p~l~~e~~~~~~~~~~~~ 29 (79)
+|-|+++|+.++++.+.+-
T Consensus 50 ~~PL~~~Ev~~i~kSi~k~ 68 (71)
T PF08708_consen 50 SPPLPESEVKAIAKSIAKW 68 (71)
T ss_pred CCCCCHHHHHHHHHHHHHh
Confidence 6788999999999888764
No 164
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=21.80 E-value=1.3e+02 Score=17.33 Aligned_cols=34 Identities=12% Similarity=0.200 Sum_probs=18.9
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEE
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVL 37 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I 37 (79)
.|.+++....----++.+++++++...+.. ||.+
T Consensus 66 ~fD~V~~~~vl~~l~~~~~~l~~~~~~L~p-gG~l 99 (99)
T PF08242_consen 66 SFDLVVASNVLHHLEDIEAVLRNIYRLLKP-GGIL 99 (99)
T ss_dssp --SEEEEE-TTS--S-HHHHHHHHTTT-TS-S-EE
T ss_pred ccceehhhhhHhhhhhHHHHHHHHHHHcCC-CCCC
Confidence 577777776322236788999999988665 5553
No 165
>cd02572 PseudoU_synth_hDyskerin PseudoU_synth_hDyskerin_Like: Pseudouridine synthase, human dyskerin like. This group consists of eukaryotic and archeal pseudouridine synthases similar to human dyskerin, Saccharomyces cerevisiae Cbf5, and Drosophila melanogaster Mfl (minifly protein). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactor is required. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. D. melanogaster mfl hosts in its fourth intron, a box H/AC snoRNA gene. In addition dyskerin is likely to have a structural role in the telomerase complex. Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Mutations in Drosophila Mfl r
Probab=21.66 E-value=1.3e+02 Score=20.60 Aligned_cols=29 Identities=17% Similarity=0.371 Sum_probs=23.2
Q ss_pred CceeEEEEEcCCCCHHHHHHHHHHHhhhh
Q 034908 2 PLYDCMLLLKPHVRKESLMELVARVGKHV 30 (79)
Q Consensus 2 ~~YE~~~I~~p~l~~e~~~~~~~~~~~~I 30 (79)
+.|+..+.+.-.+++++++++++++...+
T Consensus 64 K~Y~a~v~~g~~it~e~l~~~l~~f~G~i 92 (182)
T cd02572 64 KEYVCVMRLHDDVDEEKVRRVLEEFTGAI 92 (182)
T ss_pred CEEEEEEEECCcCCHHHHHHHHHHCCCcE
Confidence 46998888888888998988888776554
No 166
>PF10758 DUF2586: Protein of unknown function (DUF2586); InterPro: IPR019694 This entry is represented by Bacteriophage HP1, Orf23. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family of proteins has currently has no known function but is thought to be a tail sheath protein.
Probab=21.61 E-value=1.7e+02 Score=22.70 Aligned_cols=32 Identities=9% Similarity=0.152 Sum_probs=25.9
Q ss_pred ceeEEEEEcCCCCHHHHHHHHHHHhhhhccCC
Q 034908 3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRN 34 (79)
Q Consensus 3 ~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~G 34 (79)
.+|.+.|+.|..+..+++++-+...+++.+.|
T Consensus 97 s~E~Vvi~~~~t~~a~~~a~qa~~~eL~~~~~ 128 (363)
T PF10758_consen 97 SFEFVVIVGPVTDKAEWAAAQALAAELLNKYG 128 (363)
T ss_pred CeEEEEEeCCcCCHHHHHHHHHHHHHHHHHhC
Confidence 48999999988788888888888888776654
No 167
>PF01383 CpcD: CpcD/allophycocyanin linker domain; InterPro: IPR008213 Ferredoxin-NADP(+) oxydoreductase (FNR) (EC=1.18.1.2) transfers electrons from ferredoxin (or flavodoxin) to NADP(+) to generate NADPH. In eucaryotes, the nuclear-encoded, chloroplast-targeted enzyme contains two domains: an FAD-binding domain (see PDOC51384 from PROSITEDOC) and an NADP(+)-binding domain. With the exception of Gloeobacter violaceus PCC 7421, the predicted sequences of all cyanobacterial petH genes, encoding FNR, correspond to a protein containing three domains. Two domains at the C terminus correspond to the FAD- and NADP(+)-binding domains of higher plants FNR protein, which compose the catalytic domains of the enzyme. The N-terminal domain is similar to phycobilisome (PBS)-associated linker proteins from numerous cyanobacteria [, , ] and is associated with: - CpcD, the phycocyanin (PC)-associated, rod-capping, linker polypeptide of PBS. The similarity spans nearly the entire sequence of this linker class. - CpcC, the PC-associated rod linker polypeptide. The similarity is confined only to the C terminus of this linker class. - ApcC, the allophycocyanin (APC)-associated, core linker polypeptide. The similarity only correspond to about half of the molecule. The CpcD-like domain has an elongated shape and consists of a three-stranded beta-sheet, two alpha-helices, one of which has only about one turn, and the connecting random coil segments [].; GO: 0030089 phycobilisome; PDB: 1B33_O.
Probab=21.61 E-value=1.6e+02 Score=16.36 Aligned_cols=23 Identities=22% Similarity=0.344 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHhhhhccCCcEEEeeec
Q 034908 16 KESLMELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 16 ~e~~~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
-+++.+.++++ .+.||.|.+|..
T Consensus 33 y~~ls~~~q~I----~r~GGkIvsItp 55 (56)
T PF01383_consen 33 YSQLSQEMQRI----NRQGGKIVSITP 55 (56)
T ss_dssp HHHHHHHHHHH----HHCT-EEEEEEE
T ss_pred HHHhHHHHHHH----HHCCCEEEEEEe
Confidence 35555555554 557999999863
No 168
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=21.53 E-value=1.1e+02 Score=23.19 Aligned_cols=37 Identities=11% Similarity=0.130 Sum_probs=25.5
Q ss_pred CceeEEEEEc-CCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 2 PLYDCMLLLK-PHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 2 ~~YE~~~I~~-p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
|.|=+..... +....+.++++++.+.+.|.++||...
T Consensus 227 P~Y~i~~~~~d~k~g~~~l~~a~~~i~~~i~~~gG~~~ 264 (319)
T PTZ00248 227 PQYVIVTTCSDKDKGMEIIGAALEAIKEVIKKKGGDFK 264 (319)
T ss_pred CeEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHcCCeEE
Confidence 4565555442 222345688889999999999999853
No 169
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=21.46 E-value=75 Score=18.38 Aligned_cols=22 Identities=5% Similarity=-0.079 Sum_probs=15.7
Q ss_pred EEEcCCCCHHHHHHHHHHHhhh
Q 034908 8 LLLKPHVRKESLMELVARVGKH 29 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~ 29 (79)
+.++|-+++.+.+++.+++.++
T Consensus 67 i~v~~~l~~~d~~~i~~~I~~~ 88 (89)
T cd05566 67 INGLPFLTGIGEDKVYEEILEA 88 (89)
T ss_pred EEEeeccccCChHHHHHHHHHh
Confidence 4556777777888877777665
No 170
>COG4048 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.46 E-value=1.7e+02 Score=19.19 Aligned_cols=37 Identities=14% Similarity=0.045 Sum_probs=31.2
Q ss_pred EcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccc
Q 034908 10 LKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTV 46 (79)
Q Consensus 10 ~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R 46 (79)
++++...+++..+.--+-+++-+.--+||+.++=|.|
T Consensus 3 Iseds~~eel~piaiaVH~Lv~rLP~tiRS~~~pGlR 39 (123)
T COG4048 3 ISEDSTAEELEPIAIAVHELVNRLPVTIRSRNKPGLR 39 (123)
T ss_pred ecCCCCHHHHHHHHHHHHHHHccccceeeccCCCcee
Confidence 4678889999999999988888888888888888876
No 171
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=21.44 E-value=72 Score=23.46 Aligned_cols=37 Identities=24% Similarity=0.349 Sum_probs=28.3
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSF 43 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~w 43 (79)
|+.|=+.++. || ...++.++++.+.++|+-|.+++..
T Consensus 7 m~~~iitv~G-~D-----r~GIVA~Vs~~Lae~g~NI~disq~ 43 (289)
T PRK13010 7 SPSYVLTLAC-PS-----APGIVAAVSGFLAEKGCYIVELTQF 43 (289)
T ss_pred ccCEEEEEEC-CC-----CCCcHHHHHHHHHHCCCCEEecccc
Confidence 5555444443 44 4678999999999999999999876
No 172
>PF09186 DUF1949: Domain of unknown function (DUF1949); InterPro: IPR015269 Members of this entry are a set of functionally uncharacterised hypothetical bacterial proteins. They adopt a ferredoxin-like fold, with a beta-alpha-beta-beta-alpha-beta arrangement []. This entry contains the protein Impact, which is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. ; PDB: 2CVE_A 1VI7_A.
Probab=21.36 E-value=1.1e+02 Score=15.94 Aligned_cols=20 Identities=10% Similarity=0.016 Sum_probs=15.0
Q ss_pred HHHHhhhhccCCcEEEeeec
Q 034908 23 VARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 23 ~~~~~~~I~~~GG~I~~~e~ 42 (79)
..++...+.++|+.|.+.+-
T Consensus 8 ~~~v~~~l~~~~~~i~~~~y 27 (56)
T PF09186_consen 8 YGKVERLLEQNGIEIVDEDY 27 (56)
T ss_dssp HHHHHHHHHHTTTEEEEEEE
T ss_pred HHHHHHHHHHCCCEEEccee
Confidence 35677788889999987653
No 173
>PF05373 Pro_3_hydrox_C: L-proline 3-hydroxylase, C-terminal; InterPro: IPR008035 Iron (II)/2-oxoglutarate (2-OG)-dependent oxygenases catalyse oxidative reactions in a range of metabolic processes. Proline 3-hydroxylase hydroxylates proline at position 3, the first of a 2-OG oxygenase catalysing oxidation of a free alpha-amino acid. The structure contains conserved motifs present in other 2-OG oxygenases including a jelly roll strand core and residues binding iron and 2-oxoglutarate, consistent with divergent evolution within the extended family. The structure differs significantly from many other 2-OG oxygenases in possessing a discrete C-terminal helical domain.; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process; PDB: 1E5S_A 1E5R_B.
Probab=21.30 E-value=54 Score=20.91 Aligned_cols=26 Identities=15% Similarity=0.303 Sum_probs=14.1
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccC
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGR 33 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~ 33 (79)
.++-||.+++++.+.++. ++.+|...
T Consensus 18 ~i~~R~~~t~e~~e~Ll~-ls~vis~~ 43 (101)
T PF05373_consen 18 TIISRPPLTEEERERLLA-LSAVISRE 43 (101)
T ss_dssp B----EE--HHHHHHHHG-GGGT--TT
T ss_pred cccCCCCCCHHHHHHHHH-HHHHhhHH
Confidence 456788899999998887 77777653
No 174
>TIGR00439 ftsX putative protein insertion permease FtsX. FtsX is an integral membrane protein encoded in the same operon as signal recognition particle docking protein FtsY and FtsE. It belongs to a family of predicted permeases and may play a role in the insertion of proteins required for potassium transport, cell division, and other activities. FtsE is a hydrophilic nucleotide-binding protein that associates with the inner membrane by means of association with FtsX.
Probab=21.24 E-value=1.5e+02 Score=21.81 Aligned_cols=24 Identities=8% Similarity=0.160 Sum_probs=20.5
Q ss_pred eEEEEEcCCCCHHHHHHHHHHHhh
Q 034908 5 DCMLLLKPHVRKESLMELVARVGK 28 (79)
Q Consensus 5 E~~~I~~p~l~~e~~~~~~~~~~~ 28 (79)
|..+-++|++++++.+++.+++++
T Consensus 67 ~i~vyl~~~~~~~~~~~l~~~l~~ 90 (309)
T TIGR00439 67 QITVYLEKALAQSDADTVVSLLTR 90 (309)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHhC
Confidence 677888999999999988888775
No 175
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=21.22 E-value=1e+02 Score=22.94 Aligned_cols=37 Identities=19% Similarity=0.066 Sum_probs=27.0
Q ss_pred CceeEEEEEc-CCCCHHHHHHHHHHHhhhhccCCcEEE
Q 034908 2 PLYDCMLLLK-PHVRKESLMELVARVGKHVYGRNGVLT 38 (79)
Q Consensus 2 ~~YE~~~I~~-p~l~~e~~~~~~~~~~~~I~~~GG~I~ 38 (79)
|.|=+.+... +...++.++++++.+.+.|.+.||+..
T Consensus 221 PrYri~v~a~dykkaee~l~~a~~~~~~~ikk~gg~~~ 258 (269)
T COG1093 221 PRYRIDVQAPDYKKAEEVLEKAAEAAIKTIKKLGGEGT 258 (269)
T ss_pred CeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhCCeEE
Confidence 5565555542 344567789999999999999999864
No 176
>PF00958 GMP_synt_C: GMP synthase C terminal domain domain; InterPro: IPR001674 The amidotransferase family of enzymes utilises the ammonia derived from the hydrolysis of glutamine for a subsequent chemical reaction catalyzed by the same enzyme. The ammonia intermediate does not dissociate into solution during the chemical transformations []. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. The C-terminal domain is specific to the GMP synthases 6.3.5.2 from EC. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP synthases are monomers. This domain in eukaryotes includes several large insertions that may form globular domains [].; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006164 purine nucleotide biosynthetic process, 0006177 GMP biosynthetic process; PDB: 2VXO_A 2YWC_D 2YWB_D 2DPL_B 3A4I_A 3UOW_B 3TQI_D 1GPM_C.
Probab=21.18 E-value=2e+02 Score=17.92 Aligned_cols=31 Identities=26% Similarity=0.433 Sum_probs=21.5
Q ss_pred CceeEEEEEcC------------CCCHHHHHHHHHHHhhhhcc
Q 034908 2 PLYDCMLLLKP------------HVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 2 ~~YE~~~I~~p------------~l~~e~~~~~~~~~~~~I~~ 32 (79)
|.|.-++++|| .++.+-++++.+++.+.+..
T Consensus 33 RtY~~~vvlR~v~s~D~MTa~~~~~p~~~L~~is~~I~n~v~~ 75 (93)
T PF00958_consen 33 RTYGYVVVLRAVESEDFMTADWARLPWELLEEISSRITNEVPG 75 (93)
T ss_dssp CEEEEEEEEEEEEESSSSSEEE-TB-HHHHHHHHHHHHHHSTT
T ss_pred cceeeeEEEEEeecccccccccccCCHHHHHHHHHHHHHcCCC
Confidence 67888999985 45667777777777665544
No 177
>cd04467 S1_aIF5A S1_aIF5A: Archaeal translation Initiation Factor 5A (aIF5A), S1-like RNA-binding domain. aIF5A is a homolog of eukaryotic eIF5A. IF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is a post-translationally modified lysine and is essential for IF5A function. In yeast, eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the cold-shock domain which binds RNA. Moreover, IF5A prefers binding to the actively translating ribosome. This evidence suggests that IF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=21.16 E-value=1.5e+02 Score=16.77 Aligned_cols=36 Identities=14% Similarity=0.253 Sum_probs=24.3
Q ss_pred CCceeEEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeeccccccc
Q 034908 1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQL 48 (79)
Q Consensus 1 M~~YE~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~L 48 (79)
|..||+.=+-.|+ + . ..- .+.|-+|.=++.+|+|++
T Consensus 21 ~eTYeT~ev~~p~---~-~-------~~~-i~~G~eV~y~~~~g~~ki 56 (57)
T cd04467 21 LETYETFEVPIPE---E-I-------KDK-LEPGKEVEYWESMGKRKI 56 (57)
T ss_pred cccceeEEEecch---h-h-------ccc-CCCCCEEEEEeecCeEec
Confidence 3568877777662 1 1 111 457888999999999875
No 178
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.98 E-value=96 Score=16.95 Aligned_cols=23 Identities=17% Similarity=0.195 Sum_probs=18.4
Q ss_pred HHHHHHHhhhhccCCcEEEeeec
Q 034908 20 MELVARVGKHVYGRNGVLTDITS 42 (79)
Q Consensus 20 ~~~~~~~~~~I~~~GG~I~~~e~ 42 (79)
..++.++.+.|.+.|+.|.+++.
T Consensus 10 ~g~L~~i~~~i~~~~~nI~~v~~ 32 (74)
T cd04887 10 PGMLGRVTTAIGEAGGDIGAIDL 32 (74)
T ss_pred CchHHHHHHHHHHcCCcEEEEEE
Confidence 34677888899999999987754
No 179
>PF05833 FbpA: Fibronectin-binding protein A N-terminus (FbpA); InterPro: IPR008616 This family consists of the N-terminal region of the prokaryotic fibronectin-binding protein, the C-terminal region is IPR008532 from INTERPRO. Fibronectin binding is considered to be an important virulence factor in streptococcal infections. Fibronectin is a dimeric glycoprotein that is present in a soluble form in plasma and extracellular fluids; it is also present in a fibrillar form on cell surfaces. Both the soluble and cellular forms of fibronectin may be incorporated into the extracellular tissue matrix. While fibronectin has critical roles in eukaryotic cellular processes, such as adhesion, migration and differentiation, it is also a substrate for the attachment of bacteria. The binding of pathogenic Streptococcus pyogenes and Staphylococcus aureus to epithelial cells via fibronectin facilitates their internalisation and systemic spread within the host [].; PDB: 3DOA_A 2ZBK_F 2HKJ_A 1Z5B_A 1Z5C_B 1MX0_F 1Z5A_A 1MU5_A 1Z59_A.
Probab=20.94 E-value=3e+02 Score=20.78 Aligned_cols=41 Identities=22% Similarity=0.274 Sum_probs=31.2
Q ss_pred HHHHHHHHhhhhccCCcEEEeeecccccccccccccCCeeeEE
Q 034908 19 LMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQ 61 (79)
Q Consensus 19 ~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I~k~~~g~Y~ 61 (79)
+.++++.+...+ .||.|.++..-+.+.|.-.+.+....++.
T Consensus 5 l~a~~~El~~~l--~g~~i~~i~q~~~~~~~l~~~~~~~~~~L 45 (455)
T PF05833_consen 5 LRALVKELKKKL--EGGRIDKIYQPDKRELLLKFRKPGGNHWL 45 (455)
T ss_dssp HHHHHHHHGG-G--TT-EEEEEEEEETTEEEEEEEETTEEEEE
T ss_pred HHHHHHHHHHhh--cCCEEEEEEcCCCCEEEEEEEeCCCcEEE
Confidence 566777777755 49999999999999999999966666565
No 180
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=20.91 E-value=1.6e+02 Score=17.17 Aligned_cols=28 Identities=25% Similarity=0.255 Sum_probs=21.0
Q ss_pred EEEcCCCCHHHHHHHHHHHhhhhccCCc
Q 034908 8 LLLKPHVRKESLMELVARVGKHVYGRNG 35 (79)
Q Consensus 8 ~I~~p~l~~e~~~~~~~~~~~~I~~~GG 35 (79)
=+.++.+++++.+++++++.+++.+.=|
T Consensus 7 k~~~g~~~~~~K~~la~~vT~~~~~~lg 34 (69)
T COG1942 7 KLFEGRLDEEQKAELAAEVTEVTVETLG 34 (69)
T ss_pred EecCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 3455667888899999999998876433
No 181
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=20.55 E-value=93 Score=20.55 Aligned_cols=22 Identities=27% Similarity=0.410 Sum_probs=18.9
Q ss_pred CHHHHHHHHHHHhhhhccCCcE
Q 034908 15 RKESLMELVARVGKHVYGRNGV 36 (79)
Q Consensus 15 ~~e~~~~~~~~~~~~I~~~GG~ 36 (79)
...+++++++++.+.+.+|||.
T Consensus 168 ~~~q~~~Ll~~i~~~~~~~~~~ 189 (196)
T cd01852 168 QEQQVKELLAKVESMVKENGGK 189 (196)
T ss_pred hHHHHHHHHHHHHHHHHhcCCC
Confidence 5688999999999999998874
No 182
>PF05045 RgpF: Rhamnan synthesis protein F; InterPro: IPR007739 This family consists of a group of proteins which are related to the Streptococcal rhamnose-glucose polysaccharide assembly protein (RgpF). Rhamnan backbones are found in several O-polysaccharides found in phytopathogenic bacteria and are regarded as pathogenic factors [].
Probab=20.47 E-value=1.3e+02 Score=23.74 Aligned_cols=30 Identities=13% Similarity=0.174 Sum_probs=24.4
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhhhcc-CCc
Q 034908 6 CMLLLKPHVRKESLMELVARVGKHVYG-RNG 35 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~I~~-~GG 35 (79)
.++|.+..+++++++.+.+.+..+|.. |.|
T Consensus 1 iv~VsN~~l~~~~~~~L~~~~~~vi~R~N~G 31 (498)
T PF05045_consen 1 IVFVSNSPLSEEDREKLKDLCDKVIQRENEG 31 (498)
T ss_pred CEEEECCCCCHHHHHHHHHHHHHhEEeccCC
Confidence 378899999999999999988887776 444
No 183
>PF08863 YolD: YolD-like protein; InterPro: IPR014962 These proteins are functionally uncharacterised. However it has been predicted that these proteins are functionally equivalent to the UmuD subunit of polymerase V from Gram-negative bacteria [].
Probab=20.42 E-value=1.9e+02 Score=16.66 Aligned_cols=33 Identities=18% Similarity=0.293 Sum_probs=24.1
Q ss_pred EEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecc
Q 034908 9 LLKPHVRKESLMELVARVGKHVYGRNGVLTDITSF 43 (79)
Q Consensus 9 I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~w 43 (79)
+-+|.|++++++.+-..+...+..+ ....+..|
T Consensus 18 ~~kp~Lde~~leei~~~l~~a~~~~--~~v~ity~ 50 (92)
T PF08863_consen 18 VEKPELDEQQLEEINEKLSEAYQEN--QPVTITYY 50 (92)
T ss_pred cCCCCCcHHHHHHHHHHHHHHhcCC--CEEEEEEE
Confidence 4589999999999999998876543 33444444
No 184
>PF05941 Chordopox_A20R: Chordopoxvirus A20R protein; InterPro: IPR010267 This family consists of several Chordopoxvirus A20R proteins. The A20R protein is required for DNA replication, is associated with the processive form of the viral DNA polymerase, and directly interacts with the viral proteins encoded by the D4R, D5R, and H5R open reading frames. A20R may contribute to the assembly or stability of the multiprotein DNA replication complex [].
Probab=20.39 E-value=1.1e+02 Score=23.35 Aligned_cols=50 Identities=18% Similarity=0.260 Sum_probs=37.4
Q ss_pred CceeEEEEEcC------CCCHHHHHHHHHHHhhhhccCCcEEEeeecccccccccc
Q 034908 2 PLYDCMLLLKP------HVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYG 51 (79)
Q Consensus 2 ~~YE~~~I~~p------~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~ 51 (79)
++|.-..|+.- +...|.+-.+++.+..-..-+|+-+.++.+.+.++|+=.
T Consensus 269 kkk~~~~iL~d~~~~~~esr~e~l~rI~~~~g~~~fvnGkYlskv~~~~i~~ls~~ 324 (334)
T PF05941_consen 269 KKKKNFLILVDNASDDSESRSEALRRIMKYFGNDYFVNGKYLSKVNDISIKQLSNR 324 (334)
T ss_pred EEeceEEEEccCccccccchhHHHHHHHHHhCcceEEeccEEEEeccchHhhhHHh
Confidence 45666777731 223455677888888888889999999999999998744
No 185
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=20.37 E-value=90 Score=25.97 Aligned_cols=27 Identities=7% Similarity=0.144 Sum_probs=23.5
Q ss_pred CCCHHHHHHHHHHHhhhhccC-CcEEEe
Q 034908 13 HVRKESLMELVARVGKHVYGR-NGVLTD 39 (79)
Q Consensus 13 ~l~~e~~~~~~~~~~~~I~~~-GG~I~~ 39 (79)
.|+++++.++.+++.+.+.+. |+++|.
T Consensus 764 TLtd~eI~~~~~~ii~~L~~~~~~~LR~ 791 (791)
T PRK00629 764 TLTDEEINAAMDKIVAALEEKFGAELRG 791 (791)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhCcEecC
Confidence 689999999999999999765 888873
No 186
>PRK05820 deoA thymidine phosphorylase; Reviewed
Probab=20.30 E-value=57 Score=25.69 Aligned_cols=41 Identities=12% Similarity=0.117 Sum_probs=31.0
Q ss_pred HHHHHHhhhhccCCcEEEeeeccc----ccccccccccCCeeeEE
Q 034908 21 ELVARVGKHVYGRNGVLTDITSFG----TVQLGYGIKKLDGRYYQ 61 (79)
Q Consensus 21 ~~~~~~~~~I~~~GG~I~~~e~wG----~R~LAY~I~k~~~g~Y~ 61 (79)
+.+++|.++|..+||....++++. .-+.-|+|...++||-.
T Consensus 308 ~Al~kF~~~v~aQGGd~~~~~~~~~~~~~~~~~~~v~A~~~G~v~ 352 (440)
T PRK05820 308 KAAERFGRMVAAQGGPPDFVENYDKYLPTAPHTKPVYADRSGVLS 352 (440)
T ss_pred HHHHHHHHHHHHhCCChhhhcCccccCCCCCeEEEEECCCCeEEE
Confidence 457899999999999887777652 23445788888888766
No 187
>PRK00061 ribH 6,7-dimethyl-8-ribityllumazine synthase; Provisional
Probab=20.27 E-value=1.2e+02 Score=20.44 Aligned_cols=56 Identities=11% Similarity=0.077 Sum_probs=43.3
Q ss_pred EEEEcCCCCHHHHHHHHHHHhhhhccCC---cEEEeeecccccccccccccCC-eeeEEE
Q 034908 7 MLLLKPHVRKESLMELVARVGKHVYGRN---GVLTDITSFGTVQLGYGIKKLD-GRYYQL 62 (79)
Q Consensus 7 ~~I~~p~l~~e~~~~~~~~~~~~I~~~G---G~I~~~e~wG~R~LAY~I~k~~-~g~Y~~ 62 (79)
+.|+...-.++-.+.+++.+.+.+.+.| ..|.-+.-=|--.||+-+++-- .+.|-+
T Consensus 15 iaIV~s~~n~~i~~~l~~ga~~~l~~~gv~~~~i~v~~VPGa~EiP~a~~~l~~~~~~Da 74 (154)
T PRK00061 15 IGIVVARFNDFITDALLEGALDALKRHGVSEENIDVVRVPGAFEIPLAAKKLAESGKYDA 74 (154)
T ss_pred EEEEEecCcHHHHHHHHHHHHHHHHHcCCCccceEEEECCCHHHHHHHHHHHHHcCCCCE
Confidence 4455567788889999999999999999 5677777789999999887642 344554
No 188
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=20.14 E-value=86 Score=23.73 Aligned_cols=35 Identities=11% Similarity=0.112 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhhhccCCcEEEeeeccccccccccc
Q 034908 18 SLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGI 52 (79)
Q Consensus 18 ~~~~~~~~~~~~I~~~GG~I~~~e~wG~R~LAY~I 52 (79)
...++.+.+.+.+.+.||.|....-.|.-+-+|--
T Consensus 351 ~~~~~~~~~~~~~~~~gG~is~eHG~G~~r~~~~~ 385 (413)
T TIGR00387 351 RVEEAGGEIFELAIELGGTISGEHGIGVVKAEFMP 385 (413)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeccCcHhHHHHHH
Confidence 34567888899999999999999999987766543
No 189
>PF07237 DUF1428: Protein of unknown function (DUF1428); InterPro: IPR009874 This family consists of several hypothetical bacterial and one archaeal sequence of around 120 residues in length. The function of this family is unknown.; PDB: 2OKQ_A.
Probab=20.12 E-value=1.5e+02 Score=18.90 Aligned_cols=39 Identities=13% Similarity=0.278 Sum_probs=29.8
Q ss_pred EEEEEcCCCCHHHHHHHHHHHhhhhccCCcEEEeeecccc
Q 034908 6 CMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGT 45 (79)
Q Consensus 6 ~~~I~~p~l~~e~~~~~~~~~~~~I~~~GG~I~~~e~wG~ 45 (79)
..++.=|.-+.++-.+..++..++..++| -++-+|.||.
T Consensus 5 Gfv~~VP~~nk~aY~~~A~~a~~vf~e~G-Al~~vE~wgd 43 (103)
T PF07237_consen 5 GFVLPVPTANKDAYRAMAEKAAEVFKEHG-ALRVVECWGD 43 (103)
T ss_dssp EEEEEEEGGGHHHHHHHHHHHHHHHHHTT--SEEEEEEEE
T ss_pred EEEEECcHHHHHHHHHHHHHHHHHHHHhC-CEEEEEeecC
Confidence 34444478788888999999988887755 6788899997
No 190
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=20.07 E-value=1.4e+02 Score=16.85 Aligned_cols=21 Identities=19% Similarity=0.306 Sum_probs=18.1
Q ss_pred CCCCHHHHHHHHHHHhhhhcc
Q 034908 12 PHVRKESLMELVARVGKHVYG 32 (79)
Q Consensus 12 p~l~~e~~~~~~~~~~~~I~~ 32 (79)
|.|+-++-...++++.++...
T Consensus 6 p~LtHeeQQ~AvE~Iq~LMaq 26 (51)
T PF03701_consen 6 PSLTHEEQQQAVERIQELMAQ 26 (51)
T ss_pred CCCCHHHHHHHHHHHHHHHHh
Confidence 788999999999999998653
Done!