Query psy10258
Match_columns 69
No_of_seqs 37 out of 39
Neff 3.1
Searched_HMMs 46136
Date Fri Aug 16 21:52:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10258.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10258hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00034 Cytochrom_C: Cytochro 83.8 0.76 1.7E-05 25.4 1.5 16 54-69 74-89 (91)
2 cd04764 HTH_MlrA-like_sg1 Heli 81.8 3 6.6E-05 23.7 3.6 32 27-65 36-67 (67)
3 PF05099 TerB: Tellurite resis 75.3 6.1 0.00013 24.8 3.8 30 38-67 23-52 (140)
4 TIGR01381 E1_like_apg7 E1-like 66.1 9.8 0.00021 32.5 4.1 42 5-46 131-176 (664)
5 PF09860 DUF2087: Uncharacteri 63.9 18 0.00038 22.3 4.0 29 38-66 13-41 (71)
6 cd06395 PB1_Map2k5 PB1 domain 61.6 5.6 0.00012 26.5 1.5 12 56-67 58-69 (91)
7 PF05193 Peptidase_M16_C: Pept 55.4 34 0.00074 20.7 4.2 33 33-67 152-184 (184)
8 TIGR03872 cytochrome_MoxG cyto 55.4 8.5 0.00018 25.9 1.6 16 54-69 105-120 (133)
9 PF03242 LEA_3: Late embryogen 54.9 11 0.00024 24.6 2.1 30 7-42 62-92 (93)
10 cd06891 PX_Vps17p The phosphoi 54.0 57 0.0012 22.6 5.6 38 27-64 100-137 (140)
11 PF13442 Cytochrome_CBB3: Cyto 53.6 38 0.00083 18.9 5.4 29 39-67 35-67 (67)
12 cd04787 HTH_HMRTR_unk Helix-Tu 53.0 25 0.00055 22.9 3.5 50 2-65 15-68 (133)
13 CHL00183 petJ cytochrome c553; 52.6 12 0.00026 23.2 1.9 16 54-69 87-102 (108)
14 PF09384 UTP15_C: UTP15 C term 51.9 24 0.00052 23.8 3.4 28 41-68 51-84 (148)
15 TIGR01226 phe_am_lyase phenyla 51.9 49 0.0011 28.4 5.9 48 18-67 115-162 (680)
16 PRK13618 psbV cytochrome c-550 51.5 23 0.00049 25.2 3.4 49 20-68 81-146 (163)
17 PF10415 FumaraseC_C: Fumarase 50.4 11 0.00025 22.0 1.4 22 45-66 28-49 (55)
18 PHA02871 hypothetical protein; 49.6 7.7 0.00017 28.8 0.8 14 3-16 192-205 (222)
19 COG5606 Uncharacterized conser 49.3 40 0.00086 22.5 4.0 22 28-49 16-37 (91)
20 cd01105 HTH_GlnR-like Helix-Tu 48.1 45 0.00098 20.3 3.9 32 27-65 38-69 (88)
21 PF15634 Tox-ART-HYE1: HYE1 si 46.4 29 0.00063 26.9 3.5 43 6-48 30-77 (285)
22 KOG2273|consensus 45.1 64 0.0014 25.2 5.2 51 13-63 173-223 (503)
23 cd04773 HTH_TioE_rpt2 Second H 44.8 38 0.00083 21.4 3.4 31 2-39 15-49 (108)
24 PF03801 Ndc80_HEC: HEC/Ndc80p 44.2 61 0.0013 22.2 4.5 42 18-65 58-102 (157)
25 PF10363 DUF2435: Protein of u 43.4 43 0.00094 21.1 3.4 32 35-67 17-48 (92)
26 cd06863 PX_Atg24p The phosphoi 43.4 84 0.0018 19.9 5.0 38 27-64 78-115 (118)
27 cd06133 ERI-1_3'hExo_like DEDD 42.6 30 0.00065 22.1 2.6 41 4-48 39-89 (176)
28 cd06145 REX1_like DEDDh 3'-5' 42.5 22 0.00049 23.4 2.1 38 6-46 29-74 (150)
29 cd07281 PX_SNX1 The phosphoino 42.0 82 0.0018 20.4 4.6 36 29-64 86-121 (124)
30 TIGR03046 PS_II_psbV2 photosys 41.9 33 0.0007 24.3 2.9 15 54-68 127-141 (155)
31 PF04904 NCD1: NAB conserved r 41.1 41 0.00088 22.1 3.1 30 38-67 18-54 (82)
32 PF09968 DUF2202: Uncharacteri 41.0 49 0.0011 23.6 3.7 28 38-65 128-160 (162)
33 cd04774 HTH_YfmP Helix-Turn-He 40.6 73 0.0016 19.9 4.1 34 28-67 37-70 (96)
34 KOG2337|consensus 40.2 25 0.00055 30.3 2.5 21 4-24 133-158 (669)
35 cd06137 DEDDh_RNase DEDDh 3'-5 39.4 5.1 0.00011 26.6 -1.4 48 7-55 32-92 (161)
36 PF09832 DUF2059: Uncharacteri 39.1 74 0.0016 18.0 3.9 14 56-69 18-31 (64)
37 COG4858 Uncharacterized membra 38.2 93 0.002 23.7 5.0 38 27-66 6-47 (226)
38 cd06872 PX_SNX19_like_plant Th 38.1 1.1E+02 0.0023 19.6 4.7 35 30-64 70-104 (107)
39 cd04766 HTH_HspR Helix-Turn-He 38.1 57 0.0012 19.8 3.3 34 27-66 37-70 (91)
40 TIGR02603 CxxCH_TIGR02603 puta 38.1 28 0.0006 22.7 2.0 17 53-69 116-132 (133)
41 PF01454 MAGE: MAGE family; I 37.7 87 0.0019 21.2 4.4 31 35-65 101-131 (195)
42 PLN02457 phenylalanine ammonia 37.1 1.2E+02 0.0026 26.2 6.0 36 30-67 141-176 (706)
43 cd06882 PX_p40phox The phospho 37.0 1.2E+02 0.0026 19.9 5.1 32 33-64 82-115 (123)
44 PRK13697 cytochrome c6; Provis 36.8 28 0.0006 21.3 1.7 16 54-69 89-104 (111)
45 PRK07473 carboxypeptidase; Pro 36.6 73 0.0016 23.7 4.2 31 38-68 10-41 (376)
46 PF08887 GAD-like: GAD-like do 35.9 11 0.00024 24.8 -0.2 16 4-19 49-64 (109)
47 TIGR03859 PQQ_PqqD coenzyme PQ 35.6 81 0.0018 19.1 3.7 27 23-50 39-76 (81)
48 cd07177 terB_like tellurium re 35.5 83 0.0018 18.1 3.6 16 52-67 13-28 (104)
49 PF05220 MgpC: MgpC protein pr 35.2 23 0.00051 26.6 1.4 13 6-18 9-21 (224)
50 PRK09367 histidine ammonia-lya 35.1 1E+02 0.0022 25.2 5.1 35 31-67 93-127 (500)
51 PF02228 Gag_p19: Major core p 34.9 74 0.0016 21.2 3.6 24 26-49 35-58 (92)
52 PF08944 p47_phox_C: NADPH oxi 34.8 21 0.00046 22.0 0.9 10 27-36 33-42 (58)
53 PF11108 Phage_glycop_gL: Vira 34.3 30 0.00065 23.4 1.7 55 10-68 24-86 (111)
54 cd06130 DNA_pol_III_epsilon_li 34.2 32 0.0007 21.6 1.8 22 6-27 32-61 (156)
55 cd01051 Mn_catalase Manganese 33.8 29 0.00063 23.7 1.6 19 50-68 26-44 (156)
56 cd07276 PX_SNX16 The phosphoin 32.4 1.2E+02 0.0027 19.0 4.2 36 29-64 72-107 (110)
57 PRK03573 transcriptional regul 32.2 1.4E+02 0.0029 19.0 4.9 49 9-67 78-130 (144)
58 PF05685 Uma2: Putative restri 32.0 26 0.00056 22.5 1.1 11 7-17 124-134 (171)
59 PF04451 Capsid_NCLDV: Large e 31.6 31 0.00068 24.4 1.5 17 2-18 59-75 (207)
60 PF04444 Dioxygenase_N: Catech 31.3 83 0.0018 19.5 3.2 17 52-68 21-37 (74)
61 PF12958 DUF3847: Protein of u 31.2 73 0.0016 20.6 3.1 23 47-69 55-77 (86)
62 cd06260 DUF820 Domain of unkno 31.0 28 0.0006 21.7 1.1 11 7-17 112-122 (155)
63 COG3860 Uncharacterized protei 30.7 75 0.0016 21.1 3.1 28 38-65 30-57 (89)
64 PF07659 DUF1599: Domain of Un 30.6 69 0.0015 19.7 2.7 12 56-67 43-54 (61)
65 cd06870 PX_CISK The phosphoino 30.5 1.4E+02 0.0031 18.7 4.3 38 28-65 70-107 (109)
66 cd06893 PX_SNX19 The phosphoin 30.5 1.3E+02 0.0028 20.1 4.3 35 32-66 96-131 (132)
67 PF06570 DUF1129: Protein of u 30.3 77 0.0017 22.1 3.3 27 38-66 7-33 (206)
68 cd04775 HTH_Cfa-like Helix-Tur 30.3 69 0.0015 20.0 2.8 41 17-64 24-67 (102)
69 smart00422 HTH_MERR helix_turn 30.2 92 0.002 17.2 3.1 34 27-67 37-70 (70)
70 KOG4013|consensus 29.8 84 0.0018 24.3 3.6 17 50-66 184-200 (255)
71 COG4840 Uncharacterized protei 29.8 60 0.0013 20.8 2.4 24 41-64 40-63 (71)
72 cd07316 terB_like_DjlA N-termi 29.5 83 0.0018 18.7 3.0 15 51-65 12-26 (106)
73 smart00768 X8 Possibly involve 29.2 52 0.0011 20.4 2.1 15 53-67 7-21 (85)
74 cd00332 PAL-HAL Phenylalanine 29.2 1.5E+02 0.0032 23.9 5.1 35 31-67 85-119 (444)
75 cd01279 HTH_HspR-like Helix-Tu 29.0 1.1E+02 0.0024 19.0 3.5 35 27-67 37-71 (98)
76 PRK13619 psbV cytochrome c-550 28.8 54 0.0012 23.6 2.4 51 18-68 78-145 (160)
77 PF07637 PSD5: Protein of unkn 28.4 1.3E+02 0.0028 17.6 4.1 28 38-67 4-31 (64)
78 cd06093 PX_domain The Phox Hom 28.3 1.2E+02 0.0027 17.3 4.9 34 29-62 69-102 (106)
79 TIGR03874 4cys_cytochr c-type 28.1 72 0.0016 22.2 2.8 13 56-68 100-113 (143)
80 cd06149 ISG20 DEDDh 3'-5' exon 27.8 19 0.0004 24.0 -0.2 45 6-54 32-84 (157)
81 PF13758 Prefoldin_3: Prefoldi 27.7 74 0.0016 21.2 2.7 28 28-64 29-56 (99)
82 cd07285 PX_SNX9 The phosphoino 27.6 2E+02 0.0043 19.4 5.1 39 27-65 68-106 (126)
83 TIGR03832 Tyr_2_3_mutase tyros 27.5 1.3E+02 0.0029 24.6 4.6 34 32-67 89-122 (507)
84 cd06135 Orn DEDDh 3'-5' exonuc 27.5 47 0.001 22.3 1.8 39 5-47 35-88 (173)
85 PF02137 A_deamin: Adenosine-d 27.4 71 0.0015 23.8 2.9 21 30-50 24-44 (343)
86 PRK14981 DNA-directed RNA poly 27.3 78 0.0017 20.7 2.7 16 53-68 93-108 (112)
87 cd06134 RNaseT DEDDh 3'-5' exo 27.3 1.2E+02 0.0026 20.6 3.8 41 5-46 44-96 (189)
88 PF10297 Hap4_Hap_bind: Minima 27.2 41 0.0009 16.3 1.1 11 8-18 4-14 (17)
89 PF07539 DRIM: Down-regulated 27.2 66 0.0014 21.8 2.4 26 35-67 112-137 (141)
90 PF08514 STAG: STAG domain ; 27.0 1.4E+02 0.003 19.6 3.9 35 34-68 15-52 (118)
91 cd04783 HTH_MerR1 Helix-Turn-H 26.5 1.3E+02 0.0029 19.2 3.7 30 29-65 39-68 (126)
92 cd04782 HTH_BltR Helix-Turn-He 26.5 1.2E+02 0.0027 18.6 3.5 32 27-65 37-68 (97)
93 PRK07392 threonine-phosphate d 26.3 83 0.0018 22.7 3.0 15 6-20 150-164 (360)
94 COG1745 Predicted metal-bindin 25.7 1.5E+02 0.0033 19.7 3.9 31 31-62 3-33 (94)
95 cd06898 PX_SNX10 The phosphoin 25.6 1.9E+02 0.0041 18.5 4.7 34 31-64 77-110 (113)
96 PF08860 DUF1827: Domain of un 25.6 41 0.00089 22.1 1.2 19 50-68 51-69 (91)
97 PRK03979 ADP-specific phosphof 25.4 88 0.0019 25.6 3.2 18 50-67 291-308 (463)
98 PRK09146 DNA polymerase III su 25.2 54 0.0012 23.7 1.8 30 5-35 83-120 (239)
99 cd01637 IMPase_like Inositol-m 25.2 34 0.00074 23.4 0.8 11 7-17 75-85 (238)
100 KOG2318|consensus 25.1 34 0.00074 29.5 0.9 11 3-13 265-275 (650)
101 PF06319 DUF1052: Protein of u 25.1 45 0.00098 24.0 1.4 17 7-23 90-106 (157)
102 cd01639 IMPase IMPase, inosito 25.0 34 0.00075 23.7 0.8 11 7-17 76-86 (244)
103 PRK07740 hypothetical protein; 24.7 51 0.0011 23.7 1.6 31 4-35 94-132 (244)
104 PTZ00048 cytochrome c; Provisi 24.6 66 0.0014 20.8 2.0 17 53-69 94-111 (115)
105 cd07284 PX_SNX7 The phosphoino 24.6 2E+02 0.0042 18.8 4.3 33 32-64 80-113 (116)
106 cd00131 PAX Paired Box domain 24.6 71 0.0015 21.0 2.2 42 18-64 62-103 (128)
107 PF05952 ComX: Bacillus compet 24.4 1.2E+02 0.0025 18.4 2.9 23 44-66 15-40 (57)
108 cd04763 HTH_MlrA-like Helix-Tu 24.2 1.5E+02 0.0032 16.7 3.8 32 27-65 37-68 (68)
109 PF03810 IBN_N: Importin-beta 24.0 1.4E+02 0.0031 16.6 3.9 33 36-68 31-72 (77)
110 PHA02780 hypothetical protein; 23.9 49 0.0011 21.2 1.2 31 38-68 13-45 (73)
111 PF07623 PEGSRP: Protein of un 23.9 59 0.0013 17.4 1.4 16 14-32 5-20 (27)
112 CHL00171 cpcB phycocyanin beta 23.8 1E+02 0.0022 21.9 3.0 28 42-69 2-33 (172)
113 PF11784 DUF3320: Protein of u 23.8 1.2E+02 0.0027 17.2 2.8 25 38-62 10-34 (52)
114 PF10820 DUF2543: Protein of u 23.6 2.2E+02 0.0048 18.6 4.3 37 32-68 27-76 (81)
115 CHL00133 psbV photosystem II c 23.5 77 0.0017 22.5 2.3 14 55-68 133-146 (163)
116 cd06875 PX_IRAS The phosphoino 22.6 2.2E+02 0.0049 18.3 4.7 47 19-66 58-104 (116)
117 COG4930 Predicted ATP-dependen 22.4 1.6E+02 0.0034 25.4 4.3 42 26-68 408-449 (683)
118 COG5440 Uncharacterized conser 22.1 91 0.002 22.7 2.5 33 6-38 30-73 (161)
119 cd07282 PX_SNX2 The phosphoino 22.0 2.4E+02 0.0052 18.4 4.5 36 30-65 87-122 (124)
120 TIGR02045 P_fruct_ADP ADP-spec 21.9 1.1E+02 0.0025 24.9 3.2 18 50-67 277-294 (446)
121 PF14821 Thr_synth_N: Threonin 21.7 2E+02 0.0044 17.4 4.9 44 18-65 28-76 (79)
122 cd01636 FIG FIG, FBPase/IMPase 21.7 46 0.001 22.0 0.9 11 7-17 79-89 (184)
123 cd06897 PX_SNARE The phosphoin 21.6 2.1E+02 0.0045 17.5 4.4 38 28-65 67-106 (108)
124 PRK09225 threonine synthase; V 21.6 2.8E+02 0.006 22.3 5.3 44 18-65 29-77 (462)
125 cd07176 terB tellurite resista 21.3 1.9E+02 0.0041 17.0 3.7 19 49-67 13-31 (111)
126 PF15104 DUF4558: Domain of un 21.3 53 0.0011 21.3 1.0 31 30-63 49-79 (88)
127 TIGR01331 bisphos_cysQ 3'(2'), 21.2 47 0.001 23.4 0.8 11 7-17 77-87 (249)
128 PF05763 DUF835: Protein of un 20.9 1.3E+02 0.0028 20.3 2.9 31 7-47 43-73 (136)
129 TIGR02688 conserved hypothetic 20.8 2.6E+02 0.0057 23.0 5.1 40 27-67 394-433 (449)
130 PF10215 Ost4: Oligosaccaryltr 20.8 79 0.0017 17.5 1.6 13 55-67 2-14 (35)
131 TIGR03791 TTQ_mauG tryptophan 20.6 83 0.0018 23.7 2.1 17 53-69 261-277 (291)
132 KOG0995|consensus 20.6 2.7E+02 0.0059 23.9 5.3 19 27-45 63-83 (581)
133 smart00552 ADEAMc tRNA-specifi 20.5 1.1E+02 0.0023 24.0 2.8 21 30-50 71-91 (374)
134 PF06757 Ins_allergen_rp: Inse 20.1 70 0.0015 21.8 1.5 15 55-69 29-43 (179)
No 1
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=83.81 E-value=0.76 Score=25.45 Aligned_cols=16 Identities=19% Similarity=0.499 Sum_probs=14.3
Q ss_pred CCChHHHHHHHHhhhC
Q psy10258 54 GVKEDELQSILNYLTT 69 (69)
Q Consensus 54 g~~ddEl~aiLNyL~T 69 (69)
.++|+|+++|.+||.|
T Consensus 74 ~ls~~e~~~l~ayl~s 89 (91)
T PF00034_consen 74 ILSDEEIADLAAYLRS 89 (91)
T ss_dssp TSSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHH
Confidence 5899999999999964
No 2
>cd04764 HTH_MlrA-like_sg1 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.
Probab=81.82 E-value=3 Score=23.75 Aligned_cols=32 Identities=28% Similarity=0.420 Sum_probs=23.5
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-+-+.+||..++ .+++|.. .|.+=+|++.+||
T Consensus 36 R~y~~~~l~~l~-----~i~~l~~--~g~~l~~i~~~l~ 67 (67)
T cd04764 36 RYYTDEDIELLK-----KIKTLLE--KGLSIKEIKEILN 67 (67)
T ss_pred eeeCHHHHHHHH-----HHHHHHH--CCCCHHHHHHHhC
Confidence 457888888665 4555653 7788889998886
No 3
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=75.29 E-value=6.1 Score=24.84 Aligned_cols=30 Identities=23% Similarity=0.351 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 38 RAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
+..++..+-.+...|+.+.++|.+.|..++
T Consensus 23 ~~a~~~ll~~~a~aDG~v~~~E~~~i~~~~ 52 (140)
T PF05099_consen 23 REALLALLAAVAKADGEVDPEEIEAIRQLL 52 (140)
T ss_dssp HHHHHHHHHHHHHTTSS--CHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 667777888888899999999999999887
No 4
>TIGR01381 E1_like_apg7 E1-like protein-activating enzyme Gsa7p/Apg7p. This model represents a family of eukaryotic proteins found in animals, plants, and yeasts, including Apg7p (YHR171W) from Saccharomyces cerevisiae and GSA7 from Pichia pastoris. Members are about 650 to 700 residues in length and include a central domain of about 150 residues shared with the ThiF/MoeB/HesA family of proteins. A low level of similarity to ubiquitin-activating enzyme E1 is described in a paper on peroxisome autophagy mediated by GSA7, and is the basis of the name ubiquitin activating enzyme E1-like protein. Members of the family appear to be involved in protein lipidation events analogous to ubiquitination and required for membrane fusion events during autophagy.
Probab=66.14 E-value=9.8 Score=32.48 Aligned_cols=42 Identities=19% Similarity=0.295 Sum_probs=22.9
Q ss_pred ceeeeeecCC--CCCCCCCCCCC--CCCCchHHHHHHHHHHHHHHH
Q psy10258 5 KFYYWVVNPR--LKTGVIPKGLD--GPRPAQKDILAIRAYILLFLK 46 (69)
Q Consensus 5 K~YYWvv~Pr--~~Sg~~pkgl~--g~rp~~~ei~siRa~iL~flk 46 (69)
|||||+.-|. ..+.+...+.. ....+.+|.-++-+.+-.+.+
T Consensus 131 ~f~YWfafPal~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 176 (664)
T TIGR01381 131 KFYYWFCFPALVYPSKVNKLSGLTESIKQEITPLESLGADHKILFD 176 (664)
T ss_pred eEEEEEEEcccCCCCcceEccccccccccCchhhHHHHHHHHHHHh
Confidence 8999999998 44456543321 122333454455455444433
No 5
>PF09860 DUF2087: Uncharacterized protein conserved in bacteria (DUF2087); InterPro: IPR018656 This domain, found in various hypothetical prokaryotic proteins and transcriptional activators, has no known function.
Probab=63.86 E-value=18 Score=22.31 Aligned_cols=29 Identities=31% Similarity=0.379 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHHHHHh
Q psy10258 38 RAYILLFLKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~ddEl~aiLNy 66 (69)
|..+|..|-+.+..+..-+|.|+|++|.-
T Consensus 13 r~~iL~~l~~~f~~g~~y~E~EVN~~L~~ 41 (71)
T PF09860_consen 13 RLVILEYLASRFEPGREYSEKEVNEILKR 41 (71)
T ss_pred HHHHHHHHHHhCCCCCccCHHHHHHHHHH
Confidence 55678888887766666689999999974
No 6
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=61.63 E-value=5.6 Score=26.53 Aligned_cols=12 Identities=25% Similarity=0.825 Sum_probs=10.8
Q ss_pred ChHHHHHHHHhh
Q psy10258 56 KEDELQSILNYL 67 (69)
Q Consensus 56 ~ddEl~aiLNyL 67 (69)
.|+|++|.|||-
T Consensus 58 SDeEm~AMlsyy 69 (91)
T cd06395 58 SDEEMKAMLSYY 69 (91)
T ss_pred chHHHHHHHHHH
Confidence 599999999985
No 7
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=55.43 E-value=34 Score=20.68 Aligned_cols=33 Identities=33% Similarity=0.316 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 33 DILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 33 ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
++-.+-..++..+++|-.. |+.++||+.+-+-|
T Consensus 152 ~~~~~~~~~~~~l~~l~~~--~~s~~el~~~k~~L 184 (184)
T PF05193_consen 152 NLDEAIEAILQELKRLREG--GISEEELERAKNQL 184 (184)
T ss_dssp GHHHHHHHHHHHHHHHHHH--CS-HHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHc--CCCHHHHHHHHhcC
Confidence 5555667788889988854 79999999987643
No 8
>TIGR03872 cytochrome_MoxG cytochrome c(L), periplasmic. This model describes a periplasmic c-type cytochrome that serves as the primary electron acceptor for the quinoprotein methanol dehydrogenase, a PQQ enzyme. The member from Paracoccus denitrificans is also characterized as an electron acceptor for methylamine dehydrogenase, a tryptophan tryptophylquinone enzyme. This protein is called cytochrome c(L) in methylotrophic bacteria such Methylobacterium extorquens, but c551i in Paracoccus denitrificans.
Probab=55.40 E-value=8.5 Score=25.93 Aligned_cols=16 Identities=19% Similarity=0.461 Sum_probs=13.9
Q ss_pred CCChHHHHHHHHhhhC
Q psy10258 54 GVKEDELQSILNYLTT 69 (69)
Q Consensus 54 g~~ddEl~aiLNyL~T 69 (69)
..+|+|+.+|.|||.+
T Consensus 105 ~LsdeeI~aLaaYI~s 120 (133)
T TIGR03872 105 NLTLDEMLQIMAWIRH 120 (133)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 4689999999999964
No 9
>PF03242 LEA_3: Late embryogenesis abundant protein; InterPro: IPR004926 Late-embryogenesis abundant (LEA) genes encode a diverse group of proteins that accumulate to high levels during the maturation phase of seed development []. This group includes LEA-5 [], whose expression is induced by salt, drought and heat stress [], and related proteins. ; GO: 0006950 response to stress
Probab=54.91 E-value=11 Score=24.60 Aligned_cols=30 Identities=27% Similarity=0.445 Sum_probs=21.8
Q ss_pred eeeeecCCCCCCC-CCCCCCCCCCchHHHHHHHHHHH
Q psy10258 7 YYWVVNPRLKTGV-IPKGLDGPRPAQKDILAIRAYIL 42 (69)
Q Consensus 7 YYWvv~Pr~~Sg~-~pkgl~g~rp~~~ei~siRa~iL 42 (69)
-.|+-+|.+ || +|++.. .+=|+..+|+-+|
T Consensus 62 ~~W~pDPvT--GyyrPen~~----~EiD~AeLR~~lL 92 (93)
T PF03242_consen 62 SSWMPDPVT--GYYRPENHF----GEIDAAELRAKLL 92 (93)
T ss_pred cccccCCCC--ccccCCCCC----CCCCHHHHHHHHh
Confidence 368877754 54 999754 5678899999876
No 10
>cd06891 PX_Vps17p The phosphoinositide binding Phox Homology domain of yeast sorting nexin Vps17p. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. Similar to Vps5p and SNX1, Vps17p harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvatur
Probab=54.02 E-value=57 Score=22.56 Aligned_cols=38 Identities=11% Similarity=0.202 Sum_probs=31.1
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
++-+.+++...|+.+=.|++++...+.=.+|+||+..|
T Consensus 100 ~~~~~E~~~~rr~~LqrfL~RV~~hP~L~~d~~l~~FL 137 (140)
T cd06891 100 GSNNEEDARKLKANLQRWFNRVCSDPILIRDEELRFFI 137 (140)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhCChhhccCHHHHHHh
Confidence 44567888888999999999999777667899998754
No 11
>PF13442 Cytochrome_CBB3: Cytochrome C oxidase, cbb3-type, subunit III ; PDB: 1KB0_A 2DGE_D 2CE1_A 2CE0_A 2V07_A 1W2L_A 2ZOO_A 2ZBO_G 1DVV_A 2EXV_A ....
Probab=53.62 E-value=38 Score=18.88 Aligned_cols=29 Identities=14% Similarity=0.344 Sum_probs=20.5
Q ss_pred HHHHHHHHHHh--hCCCC--CChHHHHHHHHhh
Q psy10258 39 AYILLFLKQLM--MLGPG--VKEDELQSILNYL 67 (69)
Q Consensus 39 a~iL~flkqLi--~~~~g--~~ddEl~aiLNyL 67 (69)
..+..++++.. |.+.+ .+|+|+++|..||
T Consensus 35 ~~l~~~i~~g~~~Mp~~~~~ls~~e~~~l~~yi 67 (67)
T PF13442_consen 35 EELYNIIRNGRGGMPPFGGQLSDEEIEALAAYI 67 (67)
T ss_dssp HHHHHHHHHTBTTBSCTTTTSTHHHHHHHHHHH
T ss_pred HHHHHHHHhCcCCCCCCCCCCCHHHHHHHHHHC
Confidence 55556666663 44443 6899999999986
No 12
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=53.00 E-value=25 Score=22.92 Aligned_cols=50 Identities=24% Similarity=0.447 Sum_probs=26.8
Q ss_pred cccceeeeeecCCCCCCCCCCCCCC----CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 2 HTLKFYYWVVNPRLKTGVIPKGLDG----PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 2 HtLK~YYWvv~Pr~~Sg~~pkgl~g----~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
+||+|| .+.|..|...+. -.-+.+++-.++ ||+.|- .-|.+=+|++.+++
T Consensus 15 ~TLRyY-------E~~GLl~p~r~~~~gyR~Y~~~~~~~l~-----~I~~lr--~~G~sL~eI~~~l~ 68 (133)
T cd04787 15 DTVRFY-------TRIGLLRPTRDPVNGYRLYSEKDLSRLR-----FILSAR--QLGFSLKDIKEILS 68 (133)
T ss_pred HHHHHH-------HHCCCCCCCcCCCCCeeeCCHHHHHHHH-----HHHHHH--HcCCCHHHHHHHHh
Confidence 467666 566765544431 156777877553 444443 34445455555543
No 13
>CHL00183 petJ cytochrome c553; Provisional
Probab=52.63 E-value=12 Score=23.20 Aligned_cols=16 Identities=13% Similarity=0.615 Sum_probs=13.9
Q ss_pred CCChHHHHHHHHhhhC
Q psy10258 54 GVKEDELQSILNYLTT 69 (69)
Q Consensus 54 g~~ddEl~aiLNyL~T 69 (69)
.++|+|+++|.+|+.+
T Consensus 87 ~Ls~~ei~~i~aYi~~ 102 (108)
T CHL00183 87 RLSDEDIEDVANYVLS 102 (108)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 4689999999999864
No 14
>PF09384 UTP15_C: UTP15 C terminal; InterPro: IPR018983 This entry represents the C-terminal domain of the U3 small nucleolar RNA-associated protein 15 (UTP15). This protein is involved in nucleolar processing of pre-18S ribosomal RNA, and is required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs). UTP15 is a component of the ribosomal small subunit (SSU) processome, which is a large ribonucleoprotein (RNP) required for processing of precursors to the small subunit RNA, the 18S, of the ribosome [, ]. This domain is found C-terminal to the WD40 repeat (IPR001680 from INTERPRO). UTP15 associates with U3 snoRNA, which is ubiquitous in eukaryotes and is required for nucleolar processing of pre-18S ribosomal RNA []. ; GO: 0006364 rRNA processing, 0005730 nucleolus
Probab=51.89 E-value=24 Score=23.78 Aligned_cols=28 Identities=32% Similarity=0.657 Sum_probs=22.7
Q ss_pred HHHHHHHHhhCC------CCCChHHHHHHHHhhh
Q psy10258 41 ILLFLKQLMMLG------PGVKEDELQSILNYLT 68 (69)
Q Consensus 41 iL~flkqLi~~~------~g~~ddEl~aiLNyL~ 68 (69)
+...|.-|+..+ .|..|.+|+.||+|+.
T Consensus 51 ~vavl~EL~~R~~L~~AL~~Rde~~L~piL~Fl~ 84 (148)
T PF09384_consen 51 VVAVLEELIRRGALRAALAGRDEESLEPILKFLI 84 (148)
T ss_pred HHHHHHHHHHccHHHHHHHhCCHHHHHHHHHHHH
Confidence 456777777666 7889999999999985
No 15
>TIGR01226 phe_am_lyase phenylalanine ammonia-lyase. Members of this family are found, so far, in plants and fungi. From phenylalanine, this enzyme yields cinnaminic acid, a precursor of many important plant compounds. This protein shows extensive homology to histidine ammonia-lyase, the first enzyme of a histidine degradation pathway.
Probab=51.86 E-value=49 Score=28.35 Aligned_cols=48 Identities=23% Similarity=0.382 Sum_probs=36.6
Q ss_pred CCCCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 18 GVIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 18 g~~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
|+-|.+-+|-.|-..+++ ||.|+.=+++|..-.+|++-+=++++..+|
T Consensus 115 Gvg~~~~~~~~~lp~~~v--RAaMlvRlNsL~~G~SGVr~evle~l~~lL 162 (680)
T TIGR01226 115 GILGTGSDNHNSLPEEAT--RAAMLVRINTLLQGYSGIRFEILEAITKLL 162 (680)
T ss_pred CCCCCCCcCCCcCCHHHH--HHHHHHHHHHhccCCCCCCHHHHHHHHHHH
Confidence 555544333234556666 999999999999989999998888888776
No 16
>PRK13618 psbV cytochrome c-550; Provisional
Probab=51.53 E-value=23 Score=25.16 Aligned_cols=49 Identities=16% Similarity=0.312 Sum_probs=32.8
Q ss_pred CCCCCCCCCCchHHHHHHHHHH--HH-------------HHHHHhhCC--CCCChHHHHHHHHhhh
Q psy10258 20 IPKGLDGPRPAQKDILAIRAYI--LL-------------FLKQLMMLG--PGVKEDELQSILNYLT 68 (69)
Q Consensus 20 ~pkgl~g~rp~~~ei~siRa~i--L~-------------flkqLi~~~--~g~~ddEl~aiLNyL~ 68 (69)
.++.+.|-.|.+++|-++-.+| =+ .||+=..++ ...+||||++|-.||+
T Consensus 81 ~~~~La~a~p~rd~v~~l~~yik~P~~~Dg~~~~~~~h~~ik~~~~mP~~~~Lsd~eL~ava~yll 146 (163)
T PRK13618 81 EPEALALATPNRDNIEGLVDYMKNPTTYDGEEEISEIHPSIKSADIFTAMRNLTDKDLEAIAGHIL 146 (163)
T ss_pred ChhhhccCCCCccCHHHHHHHHhCchhccccchhcccccccCccccCCCCCCCCHHHHHHHHHHHH
Confidence 5555677778877877777776 11 224433333 2378999999999986
No 17
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=50.41 E-value=11 Score=22.01 Aligned_cols=22 Identities=18% Similarity=0.389 Sum_probs=16.9
Q ss_pred HHHHhhCCCCCChHHHHHHHHh
Q psy10258 45 LKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 45 lkqLi~~~~g~~ddEl~aiLNy 66 (69)
+++++...+.++++|+..|||.
T Consensus 28 vre~v~~~g~lt~ee~d~ll~p 49 (55)
T PF10415_consen 28 VREVVLEEGLLTEEELDELLDP 49 (55)
T ss_dssp HHHHHHHTTSS-HHHHHHHTSH
T ss_pred HHHHHHHcCCCCHHHHHHHcCH
Confidence 5677776777899999999975
No 18
>PHA02871 hypothetical protein; Provisional
Probab=49.58 E-value=7.7 Score=28.84 Aligned_cols=14 Identities=43% Similarity=1.030 Sum_probs=11.5
Q ss_pred ccceeeeeecCCCC
Q psy10258 3 TLKFYYWVVNPRLK 16 (69)
Q Consensus 3 tLK~YYWvv~Pr~~ 16 (69)
|-|||||.+.|...
T Consensus 192 tkkffywfiapags 205 (222)
T PHA02871 192 TKKFFYWFIAPAGS 205 (222)
T ss_pred HhhhheeEeccCCC
Confidence 56999999998753
No 19
>COG5606 Uncharacterized conserved small protein [Function unknown]
Probab=49.35 E-value=40 Score=22.50 Aligned_cols=22 Identities=23% Similarity=0.505 Sum_probs=19.4
Q ss_pred CCchHHHHHHHHHHHHHHHHHh
Q psy10258 28 RPAQKDILAIRAYILLFLKQLM 49 (69)
Q Consensus 28 rp~~~ei~siRa~iL~flkqLi 49 (69)
.|..+|=+.||+.+.+-|+++|
T Consensus 16 ~~e~a~~m~ir~~l~~~i~~~i 37 (91)
T COG5606 16 TPEAAENMKIRSALMMAIKQWI 37 (91)
T ss_pred cHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888999999999999998
No 20
>cd01105 HTH_GlnR-like Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator GlnR and related proteins, N-terminal domain. The GlnR and TnrA (also known as ScgR) proteins have been shown to regulate expression of glutamine synthetase as well as several genes involved in nitrogen metabolism. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=48.05 E-value=45 Score=20.34 Aligned_cols=32 Identities=16% Similarity=0.202 Sum_probs=21.1
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-+-+.+||..|| ++++|. ..|++=+|+..+++
T Consensus 38 R~Ys~~dv~~l~-----~I~~Lr--~~G~sl~~i~~~l~ 69 (88)
T cd01105 38 RKYSLADVDRLL-----VIKELL--DEGFTLAAAVEKLR 69 (88)
T ss_pred eecCHHHHHHHH-----HHHHHH--HCCCCHHHHHHHHH
Confidence 456788888655 566665 36666667776665
No 21
>PF15634 Tox-ART-HYE1: HYE1 signature containing ADP-ribosyltransferase
Probab=46.39 E-value=29 Score=26.90 Aligned_cols=43 Identities=26% Similarity=0.564 Sum_probs=30.7
Q ss_pred eeeeeecCCC-----CCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHH
Q psy10258 6 FYYWVVNPRL-----KTGVIPKGLDGPRPAQKDILAIRAYILLFLKQL 48 (69)
Q Consensus 6 ~YYWvv~Pr~-----~Sg~~pkgl~g~rp~~~ei~siRa~iL~flkqL 48 (69)
|||-+.+.+. ..|+.|.|-.||..|.+|.-.=.--+..+|.-.
T Consensus 30 yyyh~t~~~nl~s~~~~gf~pqgs~gptls~~d~~~rk~gvi~~iyt~ 77 (285)
T PF15634_consen 30 YYYHITNARNLMSIVEKGFIPQGSQGPTLSAGDFENRKKGVIRYIYTK 77 (285)
T ss_pred eEEEecCcccHHHHHHcCCCCCCCCCCccChhhhhhcccchhhHHHHH
Confidence 8898988876 359999999999999998754333333344333
No 22
>KOG2273|consensus
Probab=45.14 E-value=64 Score=25.17 Aligned_cols=51 Identities=18% Similarity=0.172 Sum_probs=38.7
Q ss_pred CCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHH
Q psy10258 13 PRLKTGVIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSI 63 (69)
Q Consensus 13 Pr~~Sg~~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~ai 63 (69)
|..|.-.+.....|++.+.+.+-.-|+.+-.|++++...+.-..+.++...
T Consensus 173 PplP~k~~~~~~~~~~~s~ef~e~rr~~L~~~l~r~~~hP~l~~~~~~~~F 223 (503)
T KOG2273|consen 173 PPLPEKSIVGSKSGDSFSDEFIEKRRKALERFLNRLSLHPVLSNDEDFRLF 223 (503)
T ss_pred CCCCchhhhhccccCCCCHHHHHHHHHHHHHHHHHHhcCcccccCHHHHHH
Confidence 444443344445678999999999999999999999977766677777763
No 23
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=44.76 E-value=38 Score=21.41 Aligned_cols=31 Identities=23% Similarity=0.291 Sum_probs=18.0
Q ss_pred cccceeeeeecCCCCCCCCCCC-CC--CC-CCchHHHHHHHH
Q psy10258 2 HTLKFYYWVVNPRLKTGVIPKG-LD--GP-RPAQKDILAIRA 39 (69)
Q Consensus 2 HtLK~YYWvv~Pr~~Sg~~pkg-l~--g~-rp~~~ei~siRa 39 (69)
+||+|| .+.|..|.. .+ |- +-+.+||..++.
T Consensus 15 ~tlR~y-------e~~Gll~p~~~~~~g~R~Y~~~dl~~l~~ 49 (108)
T cd04773 15 STLRHW-------EKEGLLSPDREPETGYRVYDPSDVRDARL 49 (108)
T ss_pred HHHHHH-------HHCCCCCCCcCCCCCceeeCHHHHHHHHH
Confidence 456655 455665443 22 33 478889886653
No 24
>PF03801 Ndc80_HEC: HEC/Ndc80p family; InterPro: IPR005550 Members of this family are components of the mitotic spindle. It has been shown that Ndc80 from yeast is part of a complex called the Ndc80p complex []. This complex is thought to bind to the microtubules of the spindle.; PDB: 3IZ0_E 2VE7_B 2IGP_A.
Probab=44.19 E-value=61 Score=22.18 Aligned_cols=42 Identities=31% Similarity=0.456 Sum_probs=21.6
Q ss_pred CCCCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCC--CCCC-hHHHHHHHH
Q psy10258 18 GVIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLG--PGVK-EDELQSILN 65 (69)
Q Consensus 18 g~~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~--~g~~-ddEl~aiLN 65 (69)
-++++.+ ..|+++|++.|=.|| -+.|-.. .+.+ |||+-.+|=
T Consensus 58 ~is~k~l--~~Pt~kdf~~I~~fL----~~~idp~~~~~~k~eeev~~~lK 102 (157)
T PF03801_consen 58 PISPKTL--KSPTQKDFVEIFNFL----FRQIDPNFKFGKKFEEEVPFLLK 102 (157)
T ss_dssp ---TTTT--SS--HHHHHHHHHHH----HHTTSTT---SSTHHHHHHHHHH
T ss_pred ccccccc--CCCCHHHHHHHHHHH----HHHhCCCCCcCcCHHHHHHHHHH
Confidence 4467776 678899988654444 4444322 2323 888776653
No 25
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=43.42 E-value=43 Score=21.15 Aligned_cols=32 Identities=22% Similarity=0.299 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 35 LAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 35 ~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
+-+||+=|.-|++||...+ .....+.+++..+
T Consensus 17 ~PvRa~gL~~L~~Li~~~~-~~~~~~~~il~l~ 48 (92)
T PF10363_consen 17 PPVRAHGLVLLRKLIESKS-EPVIDIPKILDLF 48 (92)
T ss_pred cchHHHHHHHHHHHHHcCC-cchhhHHHHHHHH
Confidence 5589999999999998777 3444455665543
No 26
>cd06863 PX_Atg24p The phosphoinositide binding Phox Homology domain of yeast Atg24p, an autophagic degradation protein. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. The yeast Atg24p is a sorting nexin (SNX) which is involved in membrane fusion events at the vacuolar surface during pexophagy. This is facilitated via binding of Atg24p to phosphatidylinositol 3-phosphate (PI3P) through its PX domain. SNXs make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway.
Probab=43.41 E-value=84 Score=19.89 Aligned_cols=38 Identities=16% Similarity=0.111 Sum_probs=27.2
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
.+.+.+-|-.=|..+=.||+++...+.=..++++++.|
T Consensus 78 ~~~~~~~ie~Rr~~Le~fL~~i~~~p~l~~s~~l~~FL 115 (118)
T cd06863 78 DRFSPEFITRRAQSLQRFLRRISLHPVLSQSKILHQFL 115 (118)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHhcCcccccCcHHHhhc
Confidence 45566667777888889999998766555677776543
No 27
>cd06133 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins. This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional ho
Probab=42.62 E-value=30 Score=22.06 Aligned_cols=41 Identities=22% Similarity=0.405 Sum_probs=30.0
Q ss_pred cceeeeeecCCC----------CCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHH
Q psy10258 4 LKFYYWVVNPRL----------KTGVIPKGLDGPRPAQKDILAIRAYILLFLKQL 48 (69)
Q Consensus 4 LK~YYWvv~Pr~----------~Sg~~pkgl~g~rp~~~ei~siRa~iL~flkqL 48 (69)
+.-|++.++|.. -.||+++.+.+. |.-++++ +-++.|++..
T Consensus 39 ~~~f~~~i~P~~~~~i~~~~~~i~gIt~e~l~~~-~~~~~vl---~~~~~~l~~~ 89 (176)
T cd06133 39 IDTFSSYVKPVINPKLSDFCTELTGITQEDVDNA-PSFPEVL---KEFLEWLGKN 89 (176)
T ss_pred EeeeeeeECCCcCCchhHHHHHhcCcCHHHHhcC-CCHHHHH---HHHHHHHHhC
Confidence 457899999998 347888888754 7777766 3566777774
No 28
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins. This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherichia coli RNase T.
Probab=42.53 E-value=22 Score=23.36 Aligned_cols=38 Identities=16% Similarity=0.261 Sum_probs=26.4
Q ss_pred eeeeeecCCCC--------CCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q psy10258 6 FYYWVVNPRLK--------TGVIPKGLDGPRPAQKDILAIRAYILLFLK 46 (69)
Q Consensus 6 ~YYWvv~Pr~~--------Sg~~pkgl~g~rp~~~ei~siRa~iL~flk 46 (69)
-|+-.|+|..+ +||+|+-+.+.-|+.+|+. ..++.|++
T Consensus 29 ~f~~lv~P~~~i~~~~t~itGIt~~~l~~a~~~~~~v~---~~~~~fl~ 74 (150)
T cd06145 29 VLDELVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQ---KKLLSLIS 74 (150)
T ss_pred EEEEeECCCCccchhccCcCCCCHHHhccCCCCHHHHH---HHHHHHhC
Confidence 47888999654 7999988874335666664 55666775
No 29
>cd07281 PX_SNX1 The phosphoinositide binding Phox Homology domain of Sorting Nexin 1. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX1 is both membrane associated and a cytosolic protein that exists as a tetramer in protein complexes. It can associate reversibly with membranes of the endosomal compartment, thereby coating these vesicles. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval
Probab=42.05 E-value=82 Score=20.37 Aligned_cols=36 Identities=11% Similarity=0.204 Sum_probs=25.4
Q ss_pred CchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 29 PAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 29 p~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
++.+-|-.=|+.+=.||++|...+.=..++++++.|
T Consensus 86 ~~~~fie~Rr~~Le~FL~~l~~~p~l~~s~~~~~FL 121 (124)
T cd07281 86 SSAEFLERRRAALERYLQRIVSHPSLLQDPDVREFL 121 (124)
T ss_pred ccHHHHHHHHHHHHHHHHHHhcCcccccChHHHHHh
Confidence 344445455577778999998766666788888766
No 30
>TIGR03046 PS_II_psbV2 photosystem II cytochrome PsbV2. Members of this protein family are PsbV2, a protein closely related cytochrome c-550 (PsbV), a protein important to the water-splitting and oxygen-evolving activity of photosystem II. Mutant studies in Thermosynechococcus elongatus showed PsbV2 can partially replace PsbV, from which it appears to have arisen first by duplication, then by intergenic recombination with a different gene.
Probab=41.86 E-value=33 Score=24.33 Aligned_cols=15 Identities=7% Similarity=0.432 Sum_probs=13.0
Q ss_pred CCChHHHHHHHHhhh
Q psy10258 54 GVKEDELQSILNYLT 68 (69)
Q Consensus 54 g~~ddEl~aiLNyL~ 68 (69)
.++|||+++|..||+
T Consensus 127 ~LsdeEL~aIAaYLl 141 (155)
T TIGR03046 127 WMDDEEVENLAAFIL 141 (155)
T ss_pred CCCHHHHHHHHHHHH
Confidence 478999999999986
No 31
>PF04904 NCD1: NAB conserved region 1 (NCD1); InterPro: IPR006988 Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of eukaryotic (metazoa) transcription factors []. This entry represents the N-terminal NAB domain, which interacts with the EGR1 inhibitory domain (R1) []. It may also mediate multimerisation.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=41.07 E-value=41 Score=22.11 Aligned_cols=30 Identities=23% Similarity=0.463 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHhhCCCC-------CChHHHHHHHHhh
Q psy10258 38 RAYILLFLKQLMMLGPG-------VKEDELQSILNYL 67 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g-------~~ddEl~aiLNyL 67 (69)
||.+|.+.--+|..|+- ..|+||..|+..+
T Consensus 18 rAnLl~Yyd~fi~~GgDDvqQL~~~~e~eF~eim~lv 54 (82)
T PF04904_consen 18 RANLLQYYDTFIAQGGDDVQQLCEAGEEEFLEIMALV 54 (82)
T ss_pred HhhHHHHHHHHHHHcChhHHHHHhcChHHHHHHHHHh
Confidence 89999998888876632 4689999998754
No 32
>PF09968 DUF2202: Uncharacterized protein domain (DUF2202); InterPro: IPR019243 This domain, found in various hypothetical archaeal proteins, has no known function.; PDB: 3Q4O_A 3Q4Q_A 3Q4R_A 3Q4N_A.
Probab=41.03 E-value=49 Score=23.58 Aligned_cols=28 Identities=29% Similarity=0.502 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHhhCC-----CCCChHHHHHHHH
Q psy10258 38 RAYILLFLKQLMMLG-----PGVKEDELQSILN 65 (69)
Q Consensus 38 Ra~iL~flkqLi~~~-----~g~~ddEl~aiLN 65 (69)
|.|+=.|.++|-..+ .-+..+|+.+|+|
T Consensus 128 ~NHLrAF~r~L~~~g~~Y~pq~ls~~e~~~i~~ 160 (162)
T PF09968_consen 128 RNHLRAFVRQLERYGVTYTPQYLSQEEFEAILS 160 (162)
T ss_dssp HHHHHHHHHHHHHTT-----SSS-HHHHHHHHT
T ss_pred HHHHHHHHHHHHHcCCCCCCeecCHHHHHHHHh
Confidence 668888999998766 3368999999987
No 33
>cd04774 HTH_YfmP Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator. Helix-turn-helix (HTH) transcription regulator, YfmP, and related proteins; N-terminal domain. YfmP regulates the multidrug efflux protein, YfmO, and indirectly regulates the expression of the Bacillus subtilis copZA operon encoding a metallochaperone, CopZ, and a CPx-type ATPase efflux protein, CopA. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=40.61 E-value=73 Score=19.88 Aligned_cols=34 Identities=15% Similarity=0.123 Sum_probs=20.7
Q ss_pred CCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 28 RPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 28 rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
+-+..||..++ +|+.|-. +.|++-+|++.+++..
T Consensus 37 ~Y~~~dv~~l~-----~I~~L~~-~~G~~l~ei~~~l~~~ 70 (96)
T cd04774 37 LYSEEDLKRLE-----RILRLRE-VLGFSLQEVTHFLERP 70 (96)
T ss_pred EECHHHHHHHH-----HHHHHHH-HcCCCHHHHHHHHhcc
Confidence 46777887443 3333331 1577888888888753
No 34
>KOG2337|consensus
Probab=40.20 E-value=25 Score=30.26 Aligned_cols=21 Identities=29% Similarity=0.515 Sum_probs=13.5
Q ss_pred cceeeeeecC-----CCCCCCCCCCC
Q psy10258 4 LKFYYWVVNP-----RLKTGVIPKGL 24 (69)
Q Consensus 4 LK~YYWvv~P-----r~~Sg~~pkgl 24 (69)
-|||||..-| ...|-|.+.+.
T Consensus 133 y~fyYW~~fPal~~~~~~~~I~~~p~ 158 (669)
T KOG2337|consen 133 YKFYYWFCFPALVLPEPVSLIKDLPP 158 (669)
T ss_pred heeEEEeecchhhcCCcchhhcccCc
Confidence 4899999777 44455544433
No 35
>cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins. This group is composed of eukaryotic exoribonucleases that include PAN2, RNA exonuclease 1 (REX1 or Rex1p), REX3 (Rex3p), REX4 (or Rex4p), ISG20, and similar proteins. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. REX proteins are required for the processing and maturation of many RNA species, and ISG20 is an interferon-induced antiviral exonuclease with a strong prefere
Probab=39.44 E-value=5.1 Score=26.58 Aligned_cols=48 Identities=23% Similarity=0.458 Sum_probs=28.9
Q ss_pred eeeeecCCCC--------CCCCCCCCCCCCCchHHHH----HHHHHHHHHHHH-HhhCCCCC
Q psy10258 7 YYWVVNPRLK--------TGVIPKGLDGPRPAQKDIL----AIRAYILLFLKQ-LMMLGPGV 55 (69)
Q Consensus 7 YYWvv~Pr~~--------Sg~~pkgl~g~rp~~~ei~----siRa~iL~flkq-Li~~~~g~ 55 (69)
|...|+|..+ +||+|+.+. .-|+.++.+ .++..++.|++. -+.-+..+
T Consensus 32 ~~~~v~P~~~i~~~~~~i~GIt~~~l~-~a~~~~~~~~~~~~~~~~~~~~i~~~~vlVgHn~ 92 (161)
T cd06137 32 IDSLVRPSVRVTDWRTRFSGVTPADLE-EAAKAGKTIFGWEAARAALWKFIDPDTILVGHSL 92 (161)
T ss_pred EeccccCCCCCCccceeccCCCHHHHh-hhhhcCCccccHHHHHHHHHHhcCCCcEEEeccH
Confidence 6678888754 588888775 334434333 566777778765 33334433
No 36
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=39.07 E-value=74 Score=17.96 Aligned_cols=14 Identities=36% Similarity=0.719 Sum_probs=11.0
Q ss_pred ChHHHHHHHHhhhC
Q psy10258 56 KEDELQSILNYLTT 69 (69)
Q Consensus 56 ~ddEl~aiLNyL~T 69 (69)
+++||++|+.|..|
T Consensus 18 t~~El~~i~~FY~S 31 (64)
T PF09832_consen 18 TEEELDAILAFYES 31 (64)
T ss_dssp -HHHHHHHHHHHHS
T ss_pred CHHHHHHHHHHHCC
Confidence 89999999998654
No 37
>COG4858 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]
Probab=38.20 E-value=93 Score=23.71 Aligned_cols=38 Identities=26% Similarity=0.456 Sum_probs=29.1
Q ss_pred CCCchHHHHHHHH----HHHHHHHHHhhCCCCCChHHHHHHHHh
Q psy10258 27 PRPAQKDILAIRA----YILLFLKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 27 ~rp~~~ei~siRa----~iL~flkqLi~~~~g~~ddEl~aiLNy 66 (69)
.-|.++++-++-+ |+-..-|||| +.|-.|+|++.|+|=
T Consensus 6 ~p~~~~llqeLTkkNqeyvh~vtkqli--~~gksdeeik~Il~e 47 (226)
T COG4858 6 KPPVADLLQELTKKNQEYVHEVTKQLI--GDGKSDEEIKIILEE 47 (226)
T ss_pred CCchHHHHHHHHHHhHHHHHHHHHHHH--hcCCCHHHHHHHHHH
Confidence 4577777777754 5666678999 678889999999873
No 38
>cd06872 PX_SNX19_like_plant The phosphoinositide binding Phox Homology domain of uncharacterized SNX19-like plant proteins. The PX domain is a phosphoinositide (PI) binding module involved in targeting proteins to PI-enriched membranes. Members in this subfamily are uncharacterized plant proteins containing an N-terminal PXA domain, a central PX domain, and a C-terminal domain that is conserved in some sorting nexins (SNXs). This is the same domain architecture found in SNX19. SNX13 and SNX14 also contain these three domains but also contain a regulator of G protein signaling (RGS) domain in between the PXA and PX domains. SNXs make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction dom
Probab=38.15 E-value=1.1e+02 Score=19.59 Aligned_cols=35 Identities=20% Similarity=0.175 Sum_probs=26.3
Q ss_pred chHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 30 AQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 30 ~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
+.+-|-.=|..+=.||++|...+.-...+++++.|
T Consensus 70 ~~~fie~Rr~~Le~yL~~l~~~p~i~~s~~~~~FL 104 (107)
T cd06872 70 DGAFIEERCKLLDKYLKDLLVIEKVAESHEVWSFL 104 (107)
T ss_pred CHHHHHHHHHHHHHHHHHHhcChhhhcCHHHHHHh
Confidence 45556666677778999999877666788888765
No 39
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=38.14 E-value=57 Score=19.75 Aligned_cols=34 Identities=26% Similarity=0.391 Sum_probs=22.1
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHh
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNy 66 (69)
-+-+.+||-.++ ++++|.. +.|+.-+++..+++.
T Consensus 37 R~y~~~dv~~l~-----~i~~L~~-d~g~~l~~i~~~l~l 70 (91)
T cd04766 37 RRYSERDIERLR-----RIQRLTQ-ELGVNLAGVKRILEL 70 (91)
T ss_pred eeECHHHHHHHH-----HHHHHHH-HcCCCHHHHHHHHHH
Confidence 467888888655 5566653 256677777777654
No 40
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=38.07 E-value=28 Score=22.73 Aligned_cols=17 Identities=24% Similarity=0.675 Sum_probs=14.6
Q ss_pred CCCChHHHHHHHHhhhC
Q psy10258 53 PGVKEDELQSILNYLTT 69 (69)
Q Consensus 53 ~g~~ddEl~aiLNyL~T 69 (69)
..++++|+..++.||.|
T Consensus 116 ~~Lt~~e~~dL~aYL~s 132 (133)
T TIGR02603 116 MGLSDQDLADLVAYLKS 132 (133)
T ss_pred ccCCHHHHHHHHHHHhh
Confidence 45789999999999975
No 41
>PF01454 MAGE: MAGE family; InterPro: IPR002190 The first mammalian members of the MAGE (melanoma-associated antigen) gene family were originally described as completely silent in normal adult tissues, with the exception of male germ cells and, for some of them, placenta. By contrast, these genes were expressed in various kinds of tumors. However, other members of the family were recently found to be expressed in normal cells, indicating that the family is larger and more disparate than initially expected. MAGE-like genes have also been identified in non-mammalian species, including Drosophila melanogaster (Fruit fly) and Danio rerio (Zebrafish). Although no MAGE homologous sequences have been identified in Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast) or Schizosaccharomyces pombe (Fission yeast), MAGE sequences have been found in several vegetal species, including Arabidopsis thaliana (Mouse-ear cress) []. The only region of homology shared by all of the members of the family is a stretch of about 200 amino acids which has been named the MAGE conserved domain. The MAGE conserved domain is usually located close to the C-terminal, although it can also be found in a more central position in some proteins. The MAGE conserved domain is generally present as a single copy but it is duplicated in some proteins. It has been proposed that the MAGE conserved domain of MAGE-D proteins might interact with p75 neurotrophin or related receptors [].; PDB: 3NW0_B 2WA0_A 1I4F_C.
Probab=37.71 E-value=87 Score=21.20 Aligned_cols=31 Identities=32% Similarity=0.552 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 35 LAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 35 ~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
..-.+.+...|.=+++.++.+.|+||...|.
T Consensus 101 ~~~~Gll~~IL~lI~~~g~~i~E~~L~~~L~ 131 (195)
T PF01454_consen 101 LAKTGLLMLILSLIFMSGNSISEDDLWKFLR 131 (195)
T ss_dssp --HHHHHHHHHHHHHHCTT-EEHHHHHHHHH
T ss_pred HhHhhHHHHHHHHHHhcCCccCHHHHHHHHH
Confidence 4557777777777778889899999988775
No 42
>PLN02457 phenylalanine ammonia-lyase
Probab=37.10 E-value=1.2e+02 Score=26.23 Aligned_cols=36 Identities=22% Similarity=0.287 Sum_probs=30.9
Q ss_pred chHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 30 AQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 30 ~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
-..+++ ||.|+.=+++|..-.+|++-+=+++++.+|
T Consensus 141 lp~~~V--RAaMliRlNsL~~G~SGVr~evle~L~~lL 176 (706)
T PLN02457 141 LPASAT--RAAMLVRINTLLQGYSGIRFEILEAITKLL 176 (706)
T ss_pred CCHHHH--HHHHHHHHHHhccCCCCCCHHHHHHHHHHH
Confidence 335555 999999999999989999999899888876
No 43
>cd06882 PX_p40phox The phosphoinositide binding Phox Homology domain of the p40phox subunit of NADPH oxidase. The PX domain is a phosphoinositide binding module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. p40phox contains an N-terminal PX domain, a central SH3 domain that binds p47phox, and a C-terminal PB1 domain that interacts with p67phox. It is a cytosolic subunit of the phagocytic NADPH oxidase complex (also called Nox2 or gp91phox) which plays a crucial role in the cellular response to bacterial infection. NADPH oxidase catalyzes the transfer of electrons from NADPH to oxygen during phagocytosis forming superoxide and reactive oxygen species. p40phox positively regulates NADPH oxidase in both phosphatidylinositol-3-phosphate (PI3P)-dependent and PI3P-independent manner. The PX domain is a phospholipid-binding module involved in the membrane targeting of proteins. The p40phox
Probab=36.97 E-value=1.2e+02 Score=19.86 Aligned_cols=32 Identities=19% Similarity=0.352 Sum_probs=23.5
Q ss_pred HHHHHHH-HHHHHHHHHhhCCCCC-ChHHHHHHH
Q psy10258 33 DILAIRA-YILLFLKQLMMLGPGV-KEDELQSIL 64 (69)
Q Consensus 33 ei~siRa-~iL~flkqLi~~~~g~-~ddEl~aiL 64 (69)
+++.-|. .+=.||++|+..+..+ .++|+++.|
T Consensus 82 ~~~e~Rr~~Le~yl~~Ll~~p~~i~~~~~v~~Fl 115 (123)
T cd06882 82 EIAERRIPLLNRYMKELLSLPVWVLMDEDVRLFF 115 (123)
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHhcCCHHHHHHh
Confidence 5555555 6778999999877644 688888765
No 44
>PRK13697 cytochrome c6; Provisional
Probab=36.83 E-value=28 Score=21.30 Aligned_cols=16 Identities=13% Similarity=0.451 Sum_probs=13.7
Q ss_pred CCChHHHHHHHHhhhC
Q psy10258 54 GVKEDELQSILNYLTT 69 (69)
Q Consensus 54 g~~ddEl~aiLNyL~T 69 (69)
..+|+|+.+|..|+.+
T Consensus 89 ~ls~~di~~l~~Yi~~ 104 (111)
T PRK13697 89 RLSPDQIEDVAAYVLE 104 (111)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 3589999999999864
No 45
>PRK07473 carboxypeptidase; Provisional
Probab=36.59 E-value=73 Score=23.67 Aligned_cols=31 Identities=10% Similarity=0.069 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHhhCCCCCC-hHHHHHHHHhhh
Q psy10258 38 RAYILLFLKQLMMLGPGVK-EDELQSILNYLT 68 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~-ddEl~aiLNyL~ 68 (69)
+.-++.++++||..++... +++++.+++|+.
T Consensus 10 ~~~~~~~l~~Lv~i~S~s~~~~~~~~~~~~l~ 41 (376)
T PRK07473 10 SEAMLAGLRPWVECESPTWDAAAVNRMLDLAA 41 (376)
T ss_pred HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHH
Confidence 6677789999998887664 678888888764
No 46
>PF08887 GAD-like: GAD-like domain; InterPro: IPR014983 This domain is functionally uncharacterised, but it appears to be distantly related to the GAD domain IPR004115 from INTERPRO.
Probab=35.91 E-value=11 Score=24.82 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=12.0
Q ss_pred cceeeeeecCCCCCCC
Q psy10258 4 LKFYYWVVNPRLKTGV 19 (69)
Q Consensus 4 LK~YYWvv~Pr~~Sg~ 19 (69)
.+=|+|+|||++=.++
T Consensus 49 ~dG~f~~vnP~dy~~v 64 (109)
T PF08887_consen 49 GDGLFWLVNPDDYEDV 64 (109)
T ss_pred cCcEEEEECHHHHHHH
Confidence 3458999999876554
No 47
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=35.58 E-value=81 Score=19.13 Aligned_cols=27 Identities=26% Similarity=0.367 Sum_probs=17.5
Q ss_pred CCCCCCCchHHHH-----------HHHHHHHHHHHHHhh
Q psy10258 23 GLDGPRPAQKDIL-----------AIRAYILLFLKQLMM 50 (69)
Q Consensus 23 gl~g~rp~~~ei~-----------siRa~iL~flkqLi~ 50 (69)
-+||+| |.+||+ .+.+-++.|+++|..
T Consensus 39 lldg~~-tv~eI~~~L~~~Y~~~e~~~~dV~~fL~~L~~ 76 (81)
T TIGR03859 39 LCDGKR-SLAEIIQELAQRFPAAEEIEDDVIAFLAVARA 76 (81)
T ss_pred HccCCC-cHHHHHHHHHHHcCChhhHHHHHHHHHHHHHH
Confidence 367766 777777 345566667776654
No 48
>cd07177 terB_like tellurium resistance terB-like protein. This family consists of tellurium resistance terB proteins, N-terminal domain of heat shock DnaJ-like proteins, N-terminal domain of Mo-dependent nitrogenase-like proteins, C-terminal domain of ABC transporter ATP-binding proteins, C-terminal domain of serine/threonine protein kinase, and many hypothetical bacterial proteins. The function of this family is unknown.
Probab=35.50 E-value=83 Score=18.05 Aligned_cols=16 Identities=31% Similarity=0.416 Sum_probs=8.3
Q ss_pred CCCCChHHHHHHHHhh
Q psy10258 52 GPGVKEDELQSILNYL 67 (69)
Q Consensus 52 ~~g~~ddEl~aiLNyL 67 (69)
|+-+.++|++.+.+++
T Consensus 13 DG~i~~~E~~~i~~~~ 28 (104)
T cd07177 13 DGRVDEEEIAAIEALL 28 (104)
T ss_pred cCCCCHHHHHHHHHHH
Confidence 4555555555555443
No 49
>PF05220 MgpC: MgpC protein precursor; InterPro: IPR007885 This family contains several Mycoplasma MgpC-like proteins. MgpC encode antigenic proteins associated with attachment [].
Probab=35.22 E-value=23 Score=26.65 Aligned_cols=13 Identities=46% Similarity=1.234 Sum_probs=11.8
Q ss_pred eeeeeecCCCCCC
Q psy10258 6 FYYWVVNPRLKTG 18 (69)
Q Consensus 6 ~YYWvv~Pr~~Sg 18 (69)
.+||||.-+..||
T Consensus 9 lwYWVV~e~~~S~ 21 (224)
T PF05220_consen 9 LWYWVVDERTTSG 21 (224)
T ss_pred eEEEEEecccCCC
Confidence 5899999999998
No 50
>PRK09367 histidine ammonia-lyase; Provisional
Probab=35.13 E-value=1e+02 Score=25.24 Aligned_cols=35 Identities=26% Similarity=0.472 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 31 QKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 31 ~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
..|++ ||.|+.=+++|..-.+|++-+=++.++.||
T Consensus 93 ~~~~v--Ra~m~~Rln~l~~G~SGV~~ev~~~L~~~l 127 (500)
T PRK09367 93 PEEVV--RLMMLLRLNSLARGHSGVRPEVIEALLALL 127 (500)
T ss_pred CHHHH--HHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence 35555 999999999999989999998888888776
No 51
>PF02228 Gag_p19: Major core protein p19; InterPro: IPR003139 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from delta-retroviruses such as Human T-lymphotropic virus 1 and Human T-cell leukemia virus 2 (HTLV-2), both members of the human oncovirus subclass of retroviruses [, ].; GO: 0005198 structural molecule activity, 0019013 viral nucleocapsid; PDB: 1JVR_A.
Probab=34.88 E-value=74 Score=21.23 Aligned_cols=24 Identities=29% Similarity=0.501 Sum_probs=17.1
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHh
Q psy10258 26 GPRPAQKDILAIRAYILLFLKQLM 49 (69)
Q Consensus 26 g~rp~~~ei~siRa~iL~flkqLi 49 (69)
.||||.-|.-.+|.|+-.++|-=|
T Consensus 35 ~PgPS~~DF~qLr~flk~alkTpv 58 (92)
T PF02228_consen 35 QPGPSSFDFHQLRNFLKLALKTPV 58 (92)
T ss_dssp S---STTTHHHHHHHHHHHHT-TT
T ss_pred CCCCCcccHHHHHHHHHHHHcCCe
Confidence 489999999999999998887533
No 52
>PF08944 p47_phox_C: NADPH oxidase subunit p47Phox, C terminal domain; InterPro: IPR015039 The C-terminal domain of the phagocyte NADPH oxidase subunit p47Phox contains conserved PxxP motifs that allow binding to SH3 domains, with subsequent activation of the NADPH oxidase, and generation of superoxide, which plays a crucial role in host defence against microbial infection []. ; PDB: 1K4U_P 1UEC_A.
Probab=34.77 E-value=21 Score=21.98 Aligned_cols=10 Identities=50% Similarity=0.860 Sum_probs=5.2
Q ss_pred CCCchHHHHH
Q psy10258 27 PRPAQKDILA 36 (69)
Q Consensus 27 ~rp~~~ei~s 36 (69)
|||+.++|+.
T Consensus 33 PRPS~~~IL~ 42 (58)
T PF08944_consen 33 PRPSPELILQ 42 (58)
T ss_dssp ----HHHHHH
T ss_pred CCCCHHHHHH
Confidence 9999999984
No 53
>PF11108 Phage_glycop_gL: Viral glycoprotein L; InterPro: IPR020175 Herpesviruses are enveloped by a lipid bilayer that contains at least a dozen glycoproteins. The virion surface glycoproteins mediate recognition of susceptible cells and promote fusion of the viral envelope with the cell membrane, leading to virus entry. No single glycoprotein associated with the virion membrane has been identified as the fusogen []. Glycoprotein L (gL) forms a non-covalently linked heterodimer with glycoprotein H (gH). This heterodimer is essential for virus-cell and cell-cell fusion since the association of gH and gL is necessary for correct localisation of gH to the virion or cell surface. gH anchoring the heterodimer to the plasma membrane through its transmembrane domain. gL lacks a transmembrane domain and is secreted from cells when expressed in the absence of gH [].; PDB: 3PHF_N.
Probab=34.27 E-value=30 Score=23.41 Aligned_cols=55 Identities=20% Similarity=0.276 Sum_probs=28.1
Q ss_pred eecCCCCCCCCCCCCCCCCCchHHH--------HHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhhh
Q psy10258 10 VVNPRLKTGVIPKGLDGPRPAQKDI--------LAIRAYILLFLKQLMMLGPGVKEDELQSILNYLT 68 (69)
Q Consensus 10 vv~Pr~~Sg~~pkgl~g~rp~~~ei--------~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL~ 68 (69)
.+.|+.=.|...-.+--.|..++.+ .-+++|++..++++= .. .-.|.+.+||+|.
T Consensus 24 l~~p~tC~g~~VA~l~~~~~~~~~~t~~~CaNGFnlmSFllAvl~rl~---~~-~~~~~~~lln~L~ 86 (111)
T PF11108_consen 24 LTSPSTCNGFSVAQLNYVRQKTNQSTVEVCANGFNLMSFLLAVLDRLP---SN-TPPEDLELLNHLQ 86 (111)
T ss_dssp E--TTSSSS--EEEEEEE-TTTTSSEEEEEEEHHHHHHHHHHHHHGGG---GG---THHHHHHHHHH
T ss_pred ecCcccCCCeEEEEEeeeccCCCCEEEEEecCcchHHHHHHHHHHhcc---cc-CCHHHHHHHHHHH
Confidence 4556655555444332234444433 358999999999982 11 2234455677664
No 54
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III. This subfamily is composed of uncharacterized bacterial proteins with similarity to the epsilon subunit of DNA polymerase III (Pol III), a multisubunit polymerase which is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. The Pol III holoenzyme is a complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that ser
Probab=34.17 E-value=32 Score=21.55 Aligned_cols=22 Identities=18% Similarity=0.536 Sum_probs=16.7
Q ss_pred eeeeeecCCC--------CCCCCCCCCCCC
Q psy10258 6 FYYWVVNPRL--------KTGVIPKGLDGP 27 (69)
Q Consensus 6 ~YYWvv~Pr~--------~Sg~~pkgl~g~ 27 (69)
-||+.++|.. -.||+++.+.+.
T Consensus 32 ~~~~~i~p~~~~~~~~~~i~GIt~e~l~~~ 61 (156)
T cd06130 32 TFYTLIRPPTRFDPFNIAIHGITPEDVADA 61 (156)
T ss_pred EEEEEeCcCCCCChhhccccCcCHHHHhcC
Confidence 4789999986 468888887643
No 55
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=33.78 E-value=29 Score=23.75 Aligned_cols=19 Identities=26% Similarity=0.233 Sum_probs=14.9
Q ss_pred hCCCCCChHHHHHHHHhhh
Q psy10258 50 MLGPGVKEDELQSILNYLT 68 (69)
Q Consensus 50 ~~~~g~~ddEl~aiLNyL~ 68 (69)
...-|-.++|+.|+++|+.
T Consensus 26 ~~~~gG~~gEl~ai~qYl~ 44 (156)
T cd01051 26 QEQLGGAFGELSAAMQYLF 44 (156)
T ss_pred HHHhCCccHHHHHHHHHHH
Confidence 3445668899999999984
No 56
>cd07276 PX_SNX16 The phosphoinositide binding Phox Homology domain of Sorting Nexin 16. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX16 contains a central PX domain followed by a coiled-coil region. SNX16 is localized in early and recycling endosomes through the binding of its PX domain to phosphatidylinositol-3-phosphate (PI3P). It plays a role in epidermal growth factor (EGF) signaling by regulating EGF receptor membrane trafficking.
Probab=32.45 E-value=1.2e+02 Score=19.02 Aligned_cols=36 Identities=8% Similarity=-0.010 Sum_probs=24.7
Q ss_pred CchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 29 PAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 29 p~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
-+.+-|-.=|..+=.||++|...+.=...+++++.|
T Consensus 72 ~~~~fie~Rr~~Lq~fL~~ll~~~~l~~s~~~~~FL 107 (110)
T cd07276 72 FDPDFLEERQLGLQAFVNNIMAHKDIAKCKLVREFF 107 (110)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCHhhhcChHHHHHh
Confidence 344555566666777999998765445678887765
No 57
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=32.25 E-value=1.4e+02 Score=18.99 Aligned_cols=49 Identities=12% Similarity=0.168 Sum_probs=30.0
Q ss_pred eeecCCCCCCC----CCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 9 WVVNPRLKTGV----IPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 9 Wvv~Pr~~Sg~----~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
...+|.++-.. |++|. +-+-.++.....+..++. .++.++|.+.+.+.|
T Consensus 78 r~~~~~DrR~~~l~LT~~G~-------~~~~~~~~~~~~~~~~~~---~~l~~ee~~~l~~~l 130 (144)
T PRK03573 78 RQTCASDRRAKRIKLTEKAE-------PLISEVEAVINKTRAEIL---HGISAEEIEQLITLI 130 (144)
T ss_pred eecCCCCcCeeeeEEChHHH-------HHHHHHHHHHHHHHHHHH---hCCCHHHHHHHHHHH
Confidence 34455554432 77766 333345555555555554 578999999988876
No 58
>PF05685 Uma2: Putative restriction endonuclease; InterPro: IPR008538 This entry consists of a number of hypothetical proteins from the Anabaena and Synechocystis cyanobacterial species. The function of this protein is completely unknown. In a small number of proteins this protein also contains Clp_N domains (IPR004176 from INTERPRO) that are involved in protein interactions.; PDB: 3IJM_B 1WDJ_B 3OT2_A.
Probab=31.95 E-value=26 Score=22.49 Aligned_cols=11 Identities=36% Similarity=1.099 Sum_probs=9.5
Q ss_pred eeeeecCCCCC
Q psy10258 7 YYWVVNPRLKT 17 (69)
Q Consensus 7 YYWvv~Pr~~S 17 (69)
.||+++|..+.
T Consensus 124 eywivDp~~~~ 134 (171)
T PF05685_consen 124 EYWIVDPERRR 134 (171)
T ss_dssp EEEEEETTTTE
T ss_pred eEEEEEeCCCE
Confidence 59999999876
No 59
>PF04451 Capsid_NCLDV: Large eukaryotic DNA virus major capsid protein; InterPro: IPR007542 The entry includes major capsid proteins (vp54 and vp72) found in Iridoviruses, Phycodnaviruses, Asfarviruses and Ascoviruses, which are all type II dsDNA viruses with no RNA stage. This is the most abundant structural protein and can account for up to 45% of virion protein []. The structure of vp54 has been determined from Paramecium bursaria Chlorella virus 1 (PBCV-1), a very large icosahedral virus containing an internal membrane enclosed within a glycoprotein coat. The vp54 protein is a duplication consisting of two domains with a similar fold packed together like the nucleoplasmin subunits. The vp54 protein forms a trimer, where the domains are arranged around a pseudo 6-fold axis. The domains have a beta-sandwich structure consisting of 8 strands in two sheets with a jelly-roll topology [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 1J5Q_A 1M3Y_A 1M4X_B.
Probab=31.63 E-value=31 Score=24.40 Aligned_cols=17 Identities=29% Similarity=0.573 Sum_probs=11.7
Q ss_pred cccceeeeeecCCCCCC
Q psy10258 2 HTLKFYYWVVNPRLKTG 18 (69)
Q Consensus 2 HtLK~YYWvv~Pr~~Sg 18 (69)
|-.|+.||++.+.+..+
T Consensus 59 hPVK~l~~~~~~~~~~~ 75 (207)
T PF04451_consen 59 HPVKELFWVVQNTTFNN 75 (207)
T ss_dssp SEEEEEEEEEE---TTS
T ss_pred ceeeEEEEEEEeccccc
Confidence 78999999999655444
No 60
>PF04444 Dioxygenase_N: Catechol dioxygenase N terminus; InterPro: IPR007535 This domain is the N-terminal region of catechol, chlorocatechol or hydroxyquinol 1,2-dioxygenase proteins. This region is always found adjacent to the dioxygenase domain (IPR000627 from INTERPRO). Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes (IPR000486 from INTERPRO) use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) []. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Enzymes that belong to the intradiol family include catechol 1,2-dioxygenase (1,2-CTD) (1.13.11.1 from EC); protocatechuate 3,4-dioxygenase (3,4-PCD) (1.13.11.3 from EC); and chlorocatechol 1,2-dioxygenase (1.13.11.1 from EC) [].; GO: 0005506 iron ion binding, 0018576 catechol 1,2-dioxygenase activity, 0009712 catechol-containing compound metabolic process, 0055114 oxidation-reduction process; PDB: 3O6R_B 1S9A_A 3O6J_A 3O5U_B 3O32_B 3HHY_A 3HHX_A 3HJS_A 3HJQ_A 3HKP_A ....
Probab=31.28 E-value=83 Score=19.52 Aligned_cols=17 Identities=24% Similarity=0.429 Sum_probs=13.0
Q ss_pred CCCCChHHHHHHHHhhh
Q psy10258 52 GPGVKEDELQSILNYLT 68 (69)
Q Consensus 52 ~~g~~ddEl~aiLNyL~ 68 (69)
+..++++|+.+.++||.
T Consensus 21 e~~lT~~E~~~av~~L~ 37 (74)
T PF04444_consen 21 EVDLTEDEWWAAVDFLN 37 (74)
T ss_dssp HCT--HHHHHHHHHHHH
T ss_pred HhCCCHHHHHHHHHHHH
Confidence 56779999999999985
No 61
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=31.18 E-value=73 Score=20.59 Aligned_cols=23 Identities=17% Similarity=0.337 Sum_probs=17.4
Q ss_pred HHhhCCCCCChHHHHHHHHhhhC
Q psy10258 47 QLMMLGPGVKEDELQSILNYLTT 69 (69)
Q Consensus 47 qLi~~~~g~~ddEl~aiLNyL~T 69 (69)
.++......++||+.++|++++.
T Consensus 55 si~~e~~~lT~~E~~~ll~~~~~ 77 (86)
T PF12958_consen 55 SIFPEPKDLTNDEFYELLEFLFH 77 (86)
T ss_pred HHhhcchhcCHHHHHHHHHHHHc
Confidence 34444567799999999998863
No 62
>cd06260 DUF820 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of nucleases.
Probab=31.04 E-value=28 Score=21.67 Aligned_cols=11 Identities=36% Similarity=1.060 Sum_probs=8.6
Q ss_pred eeeeecCCCCC
Q psy10258 7 YYWVVNPRLKT 17 (69)
Q Consensus 7 YYWvv~Pr~~S 17 (69)
.||+++|..+.
T Consensus 112 ~ywivd~~~~~ 122 (155)
T cd06260 112 EYWLVDPERRR 122 (155)
T ss_pred EEEEEEcCCCE
Confidence 59999997554
No 63
>COG3860 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.73 E-value=75 Score=21.14 Aligned_cols=28 Identities=18% Similarity=0.177 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 38 RAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
|-.+|.+|-+.+..+.--+|.|++.|+|
T Consensus 30 klivLk~ll~~fe~~r~YsEkeVN~ii~ 57 (89)
T COG3860 30 KLIVLKHLLKNFENERQYSEKEVNLIIK 57 (89)
T ss_pred hhhhHHHHHhhcccccccCHHHHHHHHH
Confidence 3346677777776667778999999997
No 64
>PF07659 DUF1599: Domain of Unknown Function (DUF1599); InterPro: IPR011630 This entry is represented by Clostridium phage phiCTP1, Gp74. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=30.63 E-value=69 Score=19.65 Aligned_cols=12 Identities=33% Similarity=0.584 Sum_probs=10.3
Q ss_pred ChHHHHHHHHhh
Q psy10258 56 KEDELQSILNYL 67 (69)
Q Consensus 56 ~ddEl~aiLNyL 67 (69)
-+||+..|.||-
T Consensus 43 i~~~~~diiNYa 54 (61)
T PF07659_consen 43 IDDTYIDIINYA 54 (61)
T ss_pred cchHHHHHHHHH
Confidence 378999999994
No 65
>cd06870 PX_CISK The phosphoinositide binding Phox Homology Domain of Cytokine-Independent Survival Kinase. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Cytokine-independent survival kinase (CISK), also called Serum- and Glucocorticoid-induced Kinase 3 (SGK3), plays a role in cell growth and survival. It is expressed in most tissues and is most abundant in the embryo and adult heart and spleen. It was originally discovered in a screen for antiapoptotic genes. It phosphorylates and inhibits the proapoptotic proteins, Bad and FKHRL1. CISK/SGK3 also regulates many transporters, ion channels, and receptors. It plays a critical role in hair follicle morphogenesis and hair cycling. N-terminal to a catalytic kinase domain, CISK contains a PX domain which binds highly phosphorylated PIs, directs membrane localization, and regulates the enzyme's activity.
Probab=30.50 E-value=1.4e+02 Score=18.71 Aligned_cols=38 Identities=16% Similarity=0.107 Sum_probs=25.5
Q ss_pred CCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 28 RPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 28 rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
+.+.+-|-.=|..+=.||++|...+.-...++++..|.
T Consensus 70 ~~~~~~ie~Rr~~Le~fL~~ll~~p~l~~s~~~~~FL~ 107 (109)
T cd06870 70 NFDPDFIKQRRAGLDEFIQRLVSDPKLLNHPDVRAFLQ 107 (109)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhCCHhhhcChHHHHHhC
Confidence 45555455555566689999987665556888877664
No 66
>cd06893 PX_SNX19 The phosphoinositide binding Phox Homology domain of Sorting Nexin 19. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX19 contains an N-terminal PXA domain, a central PX domain, and a C-terminal domain that is conserved in some SNXs. These domains are also found in SNX13 and SNX14, which also contain a regulator of G protein signaling (RGS) domain in between the PXA and PX domains. SNX19 interacts with IA-2, a major autoantigen found
Probab=30.45 E-value=1.3e+02 Score=20.11 Aligned_cols=35 Identities=34% Similarity=0.488 Sum_probs=25.5
Q ss_pred HHHHHHHHHHH-HHHHHHhhCCCCCChHHHHHHHHh
Q psy10258 32 KDILAIRAYIL-LFLKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 32 ~ei~siRa~iL-~flkqLi~~~~g~~ddEl~aiLNy 66 (69)
++.+.-|...| .||++|...+.-..+.|+++.|.|
T Consensus 96 ~~fie~Rr~~Le~fL~~l~~~p~l~~s~~l~~FL~~ 131 (132)
T cd06893 96 KDKIEARRGLLETFLRQLCSIPEISNSEEVQEFLAY 131 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHcCHhhhcCHHHHHHHcc
Confidence 45555555555 699999877766678999998865
No 67
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=30.32 E-value=77 Score=22.05 Aligned_cols=27 Identities=33% Similarity=0.555 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHHHHHh
Q psy10258 38 RAYILLFLKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~ddEl~aiLNy 66 (69)
+.|+..+.++| ...+++|+|..++|+=
T Consensus 7 ~~y~~~l~~~L--~~~~~~e~~~e~~L~e 33 (206)
T PF06570_consen 7 QEYIFDLRKYL--RSSGVSEEEIEELLEE 33 (206)
T ss_pred HHHHHHHHHHH--HHcCCCHHHHHHHHHH
Confidence 45777788888 5788899999888874
No 68
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=30.27 E-value=69 Score=19.98 Aligned_cols=41 Identities=20% Similarity=0.304 Sum_probs=22.7
Q ss_pred CCCCCCCCC--C-CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 17 TGVIPKGLD--G-PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 17 Sg~~pkgl~--g-~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
-|+.|...+ | -.-+.++|..|+ +|+.|- ..|++=+|+..++
T Consensus 24 ~Gll~~~r~~~g~R~Y~~~dl~~l~-----~I~~l~--~~G~~l~ei~~~~ 67 (102)
T cd04775 24 IGLIPSARSEANYRLYSEADLSRLE-----KIVFLQ--AGGLPLEEIAGCL 67 (102)
T ss_pred CCCCCCCCCCCCCeeeCHHHHHHHH-----HHHHHH--HCCCCHHHHHHHH
Confidence 355544332 2 247888988655 444443 3456655666554
No 69
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=30.20 E-value=92 Score=17.16 Aligned_cols=34 Identities=21% Similarity=0.299 Sum_probs=25.2
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
-+-+.+|+..+|... +| .+.|+.-+++..+++.+
T Consensus 37 r~y~~~dl~~l~~i~-----~l--r~~g~~~~~i~~~l~l~ 70 (70)
T smart00422 37 RLYSDEDLERLRFIK-----RL--KELGFSLEEIKELLELL 70 (70)
T ss_pred EecCHHHHHHHHHHH-----HH--HHcCCCHHHHHHHHhcC
Confidence 457999999776544 34 35888999999988753
No 70
>KOG4013|consensus
Probab=29.85 E-value=84 Score=24.25 Aligned_cols=17 Identities=35% Similarity=0.692 Sum_probs=14.1
Q ss_pred hCCCCCChHHHHHHHHh
Q psy10258 50 MLGPGVKEDELQSILNY 66 (69)
Q Consensus 50 ~~~~g~~ddEl~aiLNy 66 (69)
|.+.|+++..|+.||-.
T Consensus 184 mpG~Gi~~sNl~~ile~ 200 (255)
T KOG4013|consen 184 MPGCGINSSNLANILEW 200 (255)
T ss_pred ecCCCcchHHHHHHHhh
Confidence 66789999999998853
No 71
>COG4840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.82 E-value=60 Score=20.84 Aligned_cols=24 Identities=17% Similarity=0.126 Sum_probs=19.2
Q ss_pred HHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 41 ILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 41 iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
=|+-|.++|++......-|+|||-
T Consensus 40 dLtdiy~mvkkkenfSpsEmqaiA 63 (71)
T COG4840 40 DLTDIYDMVKKKENFSPSEMQAIA 63 (71)
T ss_pred HHHHHHHHHHHhccCCHHHHHHHH
Confidence 367888888888888888888874
No 72
>cd07316 terB_like_DjlA N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins. Tellurium resistance terB-like domain of the DnaJ-like DjlA proteins. This family represents the terB-like domain of DjlA-like proteins, a subgroup of heat shock DnaJ-like proteins. Escherichia coli DjlA is a type III membrane protein with a small N-terminal transmembrane region and DnaJ-like domain on the extreme C-terminus. Overproduction has been shown to activate the RcsC pathway, which regulates the production of the capsular exopolysaccharide colanic acid. The specific function of this domain is unknown.
Probab=29.53 E-value=83 Score=18.73 Aligned_cols=15 Identities=27% Similarity=0.224 Sum_probs=6.2
Q ss_pred CCCCCChHHHHHHHH
Q psy10258 51 LGPGVKEDELQSILN 65 (69)
Q Consensus 51 ~~~g~~ddEl~aiLN 65 (69)
.|+-++++|.+.|-.
T Consensus 12 aDG~v~~~E~~~i~~ 26 (106)
T cd07316 12 ADGRVSEAEIQAARA 26 (106)
T ss_pred ccCCcCHHHHHHHHH
Confidence 334444444444433
No 73
>smart00768 X8 Possibly involved in carbohydrate binding. The X8 domain, which may be involved in carbohydrate binding, is found in an Olive pollen antigen as well as at the C terminus of family 17 glycosyl hydrolases. It contains 6 conserved cysteine residues which presumably form three disulfide bridges.
Probab=29.16 E-value=52 Score=20.44 Aligned_cols=15 Identities=40% Similarity=0.698 Sum_probs=12.8
Q ss_pred CCCChHHHHHHHHhh
Q psy10258 53 PGVKEDELQSILNYL 67 (69)
Q Consensus 53 ~g~~ddEl~aiLNyL 67 (69)
.++.+++||+.++|+
T Consensus 7 ~~~~~~~l~~~~~ya 21 (85)
T smart00768 7 PDADEAALQAALDYA 21 (85)
T ss_pred CCCCHHHHHHHHHHH
Confidence 457899999999996
No 74
>cd00332 PAL-HAL Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL). PAL and HAL are members of the Lyase class I_like superfamily of enzymes that, catalyze similar beta-elimination reactions and are active as homotetramers. The four active sites of the homotetrameric enzyme are each formed by residues from three different subunits. PAL, present in plants and fungi, catalyzes the conversion of L-phenylalanine to E-cinnamic acid. HAL, found in several bacteria and animals, catalyzes the conversion of L-histidine to E-urocanic acid. Both PAL and HAL contain the cofactor 3, 5-dihydro-5-methylidene-4H-imidazol-4-one (MIO) which is formed by autocatalytic excision/cyclization of the internal tripeptide, Ala-Ser-Gly. PAL is being explored as enzyme substitution therapy for Phenylketonuria (PKU), a disorder which involves an inability to metabolize phenylalanine. HAL failure in humans results in the disease histidinemia.
Probab=29.16 E-value=1.5e+02 Score=23.85 Aligned_cols=35 Identities=29% Similarity=0.466 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 31 QKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 31 ~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
..|++ ||.|+.=+++|..-.+|++.+=++.+..||
T Consensus 85 ~~~~v--Ra~m~~Rln~l~~G~SGV~~~vv~~L~~~l 119 (444)
T cd00332 85 PEEVV--RAAMLLRLNSLARGHSGVRPEVLERLVALL 119 (444)
T ss_pred CHHHH--HHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence 35555 999999999999988999988888888776
No 75
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=29.02 E-value=1.1e+02 Score=19.04 Aligned_cols=35 Identities=17% Similarity=0.317 Sum_probs=22.7
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
.+-+.+||-.+| +++.|.. +.|+.-+|++.+|..+
T Consensus 37 R~Ys~~dv~~l~-----~I~~L~~-~~G~~l~~i~~~l~l~ 71 (98)
T cd01279 37 RRYSNNDLELLR-----QVQRLSQ-DEGFNLAGIKRIIELY 71 (98)
T ss_pred eeECHHHHHHHH-----HHHHHHH-HCCCCHHHHHHHHHhh
Confidence 447889998666 4444442 2567777777777654
No 76
>PRK13619 psbV cytochrome c-550; Provisional
Probab=28.84 E-value=54 Score=23.65 Aligned_cols=51 Identities=22% Similarity=0.387 Sum_probs=31.8
Q ss_pred CCCCCCCCCCCCchHHHHHHHHHH-----------HHHHHHHhhC-C-----CCCChHHHHHHHHhhh
Q psy10258 18 GVIPKGLDGPRPAQKDILAIRAYI-----------LLFLKQLMML-G-----PGVKEDELQSILNYLT 68 (69)
Q Consensus 18 g~~pkgl~g~rp~~~ei~siRa~i-----------L~flkqLi~~-~-----~g~~ddEl~aiLNyL~ 68 (69)
+..++-|.+-.|.+++|..+=+|| ...+-+=|.. + ...+||||++|--|++
T Consensus 78 ~L~~~~L~~atP~RdnV~aLVdymk~PtsyDG~~~~a~~hpsi~~~di~P~mr~LtdedL~~iAg~IL 145 (160)
T PRK13619 78 SLGLEDLAGAEPPRDNVLALVDYLKHPTSYDGEDDYSELHPNVSRPDIFPELRNFTEDDLYDVAGYML 145 (160)
T ss_pred CcCHHHHHhcCCCcccHHHHHHHHhCCcccccchhhhhhcccccccccccccCCCCHHHHHHHHHHHH
Confidence 446666777888888888776666 2222211211 1 2467899998887765
No 77
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=28.40 E-value=1.3e+02 Score=17.57 Aligned_cols=28 Identities=14% Similarity=0.307 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 38 RAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
|..|-.|..+.. ...+.++|++.++.+.
T Consensus 4 ~~~l~~Fa~rAf--RRp~~~~e~~~~~~~~ 31 (64)
T PF07637_consen 4 REILRRFARRAF--RRPLTDEEVDRYLALY 31 (64)
T ss_pred HHHHHHHHHHHh--CCCCCHHHHHHHHHHH
Confidence 556666666666 4566777777776653
No 78
>cd06093 PX_domain The Phox Homology domain, a phosphoinositide binding module. The PX domain is a phosphoinositide (PI) binding module involved in targeting proteins to membranes. Proteins containing PX domains interact with PIs and have been implicated in highly diverse functions such as cell signaling, vesicular trafficking, protein sorting, lipid modification, cell polarity and division, activation of T and B cells, and cell survival. Many members of this superfamily bind phosphatidylinositol-3-phosphate (PI3P) but in some cases, other PIs such as PI4P or PI(3,4)P2, among others, are the preferred substrates. In addition to protein-lipid interaction, the PX domain may also be involved in protein-protein interaction, as in the cases of p40phox, p47phox, and some sorting nexins (SNXs). The PX domain is conserved from yeast to humans and is found in more than 100 proteins. The majority of PX domain-containing proteins are SNXs, which play important roles in endosomal sorting.
Probab=28.33 E-value=1.2e+02 Score=17.30 Aligned_cols=34 Identities=18% Similarity=0.117 Sum_probs=25.9
Q ss_pred CchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHH
Q psy10258 29 PAQKDILAIRAYILLFLKQLMMLGPGVKEDELQS 62 (69)
Q Consensus 29 p~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~a 62 (69)
.+.+.+-.-|..+-.|+++|...+.-...+.+..
T Consensus 69 ~~~~~~~~R~~~L~~yl~~l~~~~~~~~~~~~~~ 102 (106)
T cd06093 69 LDPEFIEERRKQLEQYLQSLLNHPELRNSEELKE 102 (106)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCcccccChHHHH
Confidence 4668888888999999999998776655555554
No 79
>TIGR03874 4cys_cytochr c-type cytochrome, methanol metabolism-related. This family represents a c-type cytochrome related to (but excluding) cytochrome c-555 of Methylococcus capsulatus. Members contain four invariant Cys residues, including two from a heme-binding motif shared with c-555, and two others.
Probab=28.07 E-value=72 Score=22.19 Aligned_cols=13 Identities=23% Similarity=0.278 Sum_probs=10.8
Q ss_pred ChH-HHHHHHHhhh
Q psy10258 56 KED-ELQSILNYLT 68 (69)
Q Consensus 56 ~dd-El~aiLNyL~ 68 (69)
.|+ |+.+|+|||.
T Consensus 100 sD~~eIa~L~~YLR 113 (143)
T TIGR03874 100 NVMCYLDDLYVYLR 113 (143)
T ss_pred CcHHHHHHHHHHHH
Confidence 455 8999999985
No 80
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins. Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. It was also independently identified by its response to estrogen and was called HEM45 (human estrogen regulated transcript). ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease containing three conserved sequence motifs termed ExoI, ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ISG20 may be a major effector of innate immunity against pathogens including viruses, bacteria, and parasites. It is located in promyelocytic leukemia (PML) nuclear bodies, sites for oncogenic DNA viral transcription and repli
Probab=27.80 E-value=19 Score=24.00 Aligned_cols=45 Identities=20% Similarity=0.237 Sum_probs=28.8
Q ss_pred eeeeeecCCCC--------CCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCC
Q psy10258 6 FYYWVVNPRLK--------TGVIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGPG 54 (69)
Q Consensus 6 ~YYWvv~Pr~~--------Sg~~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~~g 54 (69)
-|.+.|+|+.+ +||+|+-+.+ -|+-+++ +.-++.|++.-++-+.+
T Consensus 32 ~~~~lv~P~~~i~~~~~~i~GIt~~~l~~-a~~~~~v---~~~l~~~l~~~vlV~Hn 84 (157)
T cd06149 32 LYDKYIRPEGPVTDYRTRWSGIRRQHLVN-ATPFAVA---QKEILKILKGKVVVGHA 84 (157)
T ss_pred EEEEeECCCCccCccceECCCCCHHHHhc-CCCHHHH---HHHHHHHcCCCEEEEeC
Confidence 37899999743 5889988873 4666654 45556666554444444
No 81
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=27.72 E-value=74 Score=21.24 Aligned_cols=28 Identities=36% Similarity=0.506 Sum_probs=19.7
Q ss_pred CCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 28 RPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 28 rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
-+++++++.||.-. .|..+++.|++.||
T Consensus 29 ~~~~e~l~~i~r~f---------~g~lv~~kEi~~il 56 (99)
T PF13758_consen 29 DATREDLLRIRRDF---------GGSLVTEKEIKEIL 56 (99)
T ss_pred CCCHHHHHHHHHhc---------CcccccHHHHHHHh
Confidence 46778888877653 25667888888776
No 82
>cd07285 PX_SNX9 The phosphoinositide binding Phox Homology domain of Sorting Nexin 9. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It contains an N-terminal Src Homology 3 (SH3) domain, a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature. T
Probab=27.61 E-value=2e+02 Score=19.43 Aligned_cols=39 Identities=13% Similarity=0.056 Sum_probs=26.4
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
.|.+.+=|-.=|..+=.||+++...+.=..++++++.|.
T Consensus 68 g~f~~~FIe~Rr~~Le~FL~ri~~hP~L~~~~~l~~FL~ 106 (126)
T cd07285 68 GRFEEEFIKMRMERLQAWMTRMCRHPVISESEVFQQFLN 106 (126)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHcCcCcCCCcHHHHHhC
Confidence 355554444444555569999987766667999998774
No 83
>TIGR03832 Tyr_2_3_mutase tyrosine 2,3-aminomutase. Members of this protein family are tyrosine 2,3-aminomutase. It is variable from member to member as to whether the (R)-beta-Tyr or (S)-beta-Tyr is the preferred product from L-Tyr. This enzyme tends to occur in secondary metabolite biosynthesis systems, as in the production of chondramides in Chondromyces crocatus.
Probab=27.53 E-value=1.3e+02 Score=24.62 Aligned_cols=34 Identities=26% Similarity=0.286 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 32 KDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 32 ~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
.|++ ||.|+.=+++|..-.+|++-+=+++++.||
T Consensus 89 ~~~v--Ra~m~iRln~l~~G~SGvr~~vve~L~~~L 122 (507)
T TIGR03832 89 EDEA--RAIVAARLNALAKGHSAVRPEILERLALYL 122 (507)
T ss_pred HHHH--HHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence 5666 999999999999989999988888887776
No 84
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins. Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Orn is essential for Escherichia coli survival. The human homolog, also called Sfn (small fragment nuclease), is able to hydrolyze short single-stranded RNA and DNA oligomers. It plays a role in cellular nucleotide recycling.
Probab=27.47 E-value=47 Score=22.26 Aligned_cols=39 Identities=13% Similarity=0.098 Sum_probs=25.7
Q ss_pred ceeeeeecCCCC---------------CCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q psy10258 5 KFYYWVVNPRLK---------------TGVIPKGLDGPRPAQKDILAIRAYILLFLKQ 47 (69)
Q Consensus 5 K~YYWvv~Pr~~---------------Sg~~pkgl~g~rp~~~ei~siRa~iL~flkq 47 (69)
.-|+++++|..+ +|++++.++ ..|+.+|++ ++ ++.|++.
T Consensus 35 ~~f~~~i~p~~~~~~~~~~~~~~ih~~tgIt~~~l~-~~~~~~~vl--~~-~~~f~~~ 88 (173)
T cd06135 35 EGPELVIHQPDEVLDGMDEWCTEMHTKSGLTERVRA-STVTLAQAE--AE-LLEFIKK 88 (173)
T ss_pred CceeEEECCCHHHhhhccHHHHHcccccccHHHHHh-CCCCHHHHH--HH-HHHHHHH
Confidence 458999999752 377777775 466677766 33 3356665
No 85
>PF02137 A_deamin: Adenosine-deaminase (editase) domain; InterPro: IPR002466 Editase (3.5 from EC) are enzymes that alter mRNA by catalyzing the site-selective deamination of adenosine residue into inosine residue. The editase domain contains the active site and binds three Zn atoms []. Several editases share a common global arrangement of domains, from N to C terminus: two 'double-stranded RNA-specific adenosine deaminase' (DRADA) repeat domains (IPR000607 from INTERPRO), followed by three 'double-stranded RNA binding' (DsRBD) domains (IPR001159 from INTERPRO), followed by the editase domain. Other editases have a simplified domains structure with no DRADA_REP and possibly fewer DSRBD domains. Editase that deaminate cytidine are not detected by this signature.; GO: 0003723 RNA binding, 0004000 adenosine deaminase activity, 0006396 RNA processing; PDB: 1ZY7_B.
Probab=27.41 E-value=71 Score=23.79 Aligned_cols=21 Identities=24% Similarity=0.566 Sum_probs=17.1
Q ss_pred chHHHHHHHHHHHHHHHHHhh
Q psy10258 30 AQKDILAIRAYILLFLKQLMM 50 (69)
Q Consensus 30 ~~~ei~siRa~iL~flkqLi~ 50 (69)
+..||+..||++--++.||-.
T Consensus 24 ~HAEVLARR~f~r~L~~el~~ 44 (343)
T PF02137_consen 24 CHAEVLARRAFLRFLYEELEL 44 (343)
T ss_dssp --HHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHH
Confidence 679999999999988888864
No 86
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=27.32 E-value=78 Score=20.66 Aligned_cols=16 Identities=25% Similarity=0.418 Sum_probs=13.0
Q ss_pred CCCChHHHHHHHHhhh
Q psy10258 53 PGVKEDELQSILNYLT 68 (69)
Q Consensus 53 ~g~~ddEl~aiLNyL~ 68 (69)
....|+|++.||+.+.
T Consensus 93 ~~~~~e~l~~ILd~l~ 108 (112)
T PRK14981 93 YTLSPEELDEILDIVK 108 (112)
T ss_pred cCCCHHHHHHHHHHHH
Confidence 4568999999999874
No 87
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. RNase T is a DEDDh-type DnaQ-like 3'-5' exoribonuclease E implicated in the 3' maturation of small stable RNAs and 23srRNA, and in the end turnover of tRNA. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase T is related to the proofreading domain of DNA polymerase III. Despite its important role, RNase T is mainly found only in gammaproteobacteria. It is speculated that it might have originated from DNA polymerase III at the time the gamma division of proteobacteria diverged from other bacteria. RNase T is a homodimer with the catalytic residues of one monomer contacting a large basic patch on the other monomer to form a functional active site.
Probab=27.27 E-value=1.2e+02 Score=20.64 Aligned_cols=41 Identities=17% Similarity=0.089 Sum_probs=21.9
Q ss_pred ceeeeeecCCC-C---------CCCCCCCC--CCCCCchHHHHHHHHHHHHHHH
Q psy10258 5 KFYYWVVNPRL-K---------TGVIPKGL--DGPRPAQKDILAIRAYILLFLK 46 (69)
Q Consensus 5 K~YYWvv~Pr~-~---------Sg~~pkgl--~g~rp~~~ei~siRa~iL~flk 46 (69)
.-|+|.++|.. . .||+++.+ +|+. ..+.+-.+..++..|++
T Consensus 44 ~~f~~lv~P~~~~~i~~~~~~ihGIt~~~~~~~~~~-~~~~~~~~~~~l~~~~~ 96 (189)
T cd06134 44 ETFHFHILPFEGANLDPAALEFNGIDPFHPFRFAVD-EKEALKEIFKPIRKALK 96 (189)
T ss_pred ceEEEEEcCCCCCCCCHHHHhhcCCCchhhhccccc-hHHHHHHHHHHHHHHHh
Confidence 46999999942 1 37777642 2222 22333344455555443
No 88
>PF10297 Hap4_Hap_bind: Minimal binding motif of Hap4 for binding to Hap2/3/5 ; InterPro: IPR018287 This entry represents an essential domain of the transcription activator Hap4 that allows it to associate with Hap2, Hap3 and Hap5 to form the Hap complex [, ]. In Saccharomyces cerevisiae (Baker's yeast), the haem-activated protein complex Hap2/3/4/5 plays a major role in the transcription of genes involved in respiration []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=27.23 E-value=41 Score=16.32 Aligned_cols=11 Identities=55% Similarity=1.120 Sum_probs=8.5
Q ss_pred eeeecCCCCCC
Q psy10258 8 YWVVNPRLKTG 18 (69)
Q Consensus 8 YWvv~Pr~~Sg 18 (69)
=||..||.+.|
T Consensus 4 ~WvlPprpkpg 14 (17)
T PF10297_consen 4 NWVLPPRPKPG 14 (17)
T ss_pred ccccCCCCCCC
Confidence 48888887776
No 89
>PF07539 DRIM: Down-regulated in metastasis; InterPro: IPR011430 These eukaryotic proteins include DRIM (Down-Regulated In Metastasis) (O75691 from SWISSPROT), which is differentially expressed in metastatic and non-metastatic human breast carcinoma cells []. It is believed to be involved in processing of non-coding RNA [].
Probab=27.22 E-value=66 Score=21.82 Aligned_cols=26 Identities=42% Similarity=0.548 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 35 LAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 35 ~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
-+=|+.||.|+.++ +++|+...+..+
T Consensus 112 ~~rR~aIL~~L~~l-------~~~El~~Fl~l~ 137 (141)
T PF07539_consen 112 ASRRAAILRFLAGL-------SEEELGLFLDLM 137 (141)
T ss_pred hHHHHHHHHHHhCC-------CHHHHHHHHHHH
Confidence 45588888887654 788888877654
No 90
>PF08514 STAG: STAG domain ; InterPro: IPR013721 STAG domain proteins are subunits of cohesin complex - a protein complex required for sister chromatid cohesion in eukaryotes. The STAG domain is present in Schizosaccharomyces pombe (Fission yeast) mitotic cohesin Psc3, and the meiosis specific cohesin Rec11. Many organisms express a meiosis-specific STAG protein, for example, mice and humans have a meiosis specific variant called STAG3, although budding yeast does not have a meiosis specific version [].
Probab=27.01 E-value=1.4e+02 Score=19.55 Aligned_cols=35 Identities=20% Similarity=0.377 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHhhCC-CCC-ChH-HHHHHHHhhh
Q psy10258 34 ILAIRAYILLFLKQLMMLG-PGV-KED-ELQSILNYLT 68 (69)
Q Consensus 34 i~siRa~iL~flkqLi~~~-~g~-~dd-El~aiLNyL~ 68 (69)
--..|..+..|+.+||..- .++ =|| =+..+++||+
T Consensus 15 ~k~Fr~~~~~F~~~lv~~~~~~~Lyd~~l~~~l~~wl~ 52 (118)
T PF08514_consen 15 FKKFRKNFCEFFDQLVEQCHSSILYDDYLMDNLISWLT 52 (118)
T ss_pred cHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHH
Confidence 4567999999999999433 444 344 4457777775
No 91
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.49 E-value=1.3e+02 Score=19.21 Aligned_cols=30 Identities=23% Similarity=0.454 Sum_probs=16.2
Q ss_pred CchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 29 PAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 29 p~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-+.+++-.++ +|+.|- .-|++=+|++.+++
T Consensus 39 Y~~~~l~~l~-----~I~~lr--~~G~sL~eI~~~l~ 68 (126)
T cd04783 39 YPEETVTRLR-----FIKRAQ--ELGFTLDEIAELLE 68 (126)
T ss_pred cCHHHHHHHH-----HHHHHH--HcCCCHHHHHHHHh
Confidence 5677777654 444432 34455555555554
No 92
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.48 E-value=1.2e+02 Score=18.62 Aligned_cols=32 Identities=16% Similarity=0.258 Sum_probs=19.1
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-..+.++|..|+... +++ ..|++=+|+..+++
T Consensus 37 R~Y~~~~~~~l~~I~--~lr-----~~G~~l~eI~~~l~ 68 (97)
T cd04782 37 RYYTLEQFEQLDIIL--LLK-----ELGISLKEIKDYLD 68 (97)
T ss_pred ccCCHHHHHHHHHHH--HHH-----HcCCCHHHHHHHHh
Confidence 467888988776432 222 34555566666654
No 93
>PRK07392 threonine-phosphate decarboxylase; Validated
Probab=26.31 E-value=83 Score=22.70 Aligned_cols=15 Identities=27% Similarity=0.202 Sum_probs=12.6
Q ss_pred eeeeeecCCCCCCCC
Q psy10258 6 FYYWVVNPRLKTGVI 20 (69)
Q Consensus 6 ~YYWvv~Pr~~Sg~~ 20 (69)
-.|++.||+.|+|..
T Consensus 150 ~~~~l~nP~NPTG~~ 164 (360)
T PRK07392 150 DGLLLNNPHNPTGKL 164 (360)
T ss_pred CEEEEeCCCCCCCCC
Confidence 468999999999963
No 94
>COG1745 Predicted metal-binding protein [General function prediction only]
Probab=25.73 E-value=1.5e+02 Score=19.73 Aligned_cols=31 Identities=10% Similarity=0.474 Sum_probs=23.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhCCCCCChHHHHH
Q psy10258 31 QKDILAIRAYILLFLKQLMMLGPGVKEDELQS 62 (69)
Q Consensus 31 ~~ei~siRa~iL~flkqLi~~~~g~~ddEl~a 62 (69)
.+|++.+-.++- .+++.+..+.|++++|+.+
T Consensus 3 KeELi~LH~~l~-~vkky~e~~~~~~n~~fk~ 33 (94)
T COG1745 3 KEELIQLHQLLV-YVKKYFENEYGIDNEEFKE 33 (94)
T ss_pred HHHHHHHHHHHH-HHHHHHHhhcCCChHHHHH
Confidence 478888877766 7777777789999888764
No 95
>cd06898 PX_SNX10 The phosphoinositide binding Phox Homology domain of Sorting Nexin 10. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX10 may be involved in the regulation of endosome homeostasis. Its expression induces the formation of giant vacuoles in mammalian cells.
Probab=25.63 E-value=1.9e+02 Score=18.51 Aligned_cols=34 Identities=15% Similarity=0.107 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 31 QKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 31 ~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
.+-|-.=|..+=.||+++...+.=..++++++.|
T Consensus 77 ~~fie~Rr~~L~~fL~~i~~~p~l~~s~~l~~FL 110 (113)
T cd06898 77 EGFIEERQQGLQDFLEKVLQTPLLLSDSRLHLFL 110 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHcChhhccChHHHHhc
Confidence 4444444455556999998766666788887754
No 96
>PF08860 DUF1827: Domain of unknown function (DUF1827); InterPro: IPR014959 This presumed domain has no known function. ; PDB: 2QZI_B.
Probab=25.59 E-value=41 Score=22.14 Aligned_cols=19 Identities=26% Similarity=0.312 Sum_probs=12.5
Q ss_pred hCCCCCChHHHHHHHHhhh
Q psy10258 50 MLGPGVKEDELQSILNYLT 68 (69)
Q Consensus 50 ~~~~g~~ddEl~aiLNyL~ 68 (69)
.+...++|+|+..++.+|+
T Consensus 51 N~~R~I~~~EIefi~~~ll 69 (91)
T PF08860_consen 51 NKKRAIKEAEIEFIIERLL 69 (91)
T ss_dssp ESSS---HHHHHHHHHHHH
T ss_pred cCCCCCCHHHHHHHHHHHh
Confidence 4457789999999988874
No 97
>PRK03979 ADP-specific phosphofructokinase; Provisional
Probab=25.40 E-value=88 Score=25.63 Aligned_cols=18 Identities=39% Similarity=0.562 Sum_probs=14.7
Q ss_pred hCCCCCChHHHHHHHHhh
Q psy10258 50 MLGPGVKEDELQSILNYL 67 (69)
Q Consensus 50 ~~~~g~~ddEl~aiLNyL 67 (69)
...-|+.||||+.++|.|
T Consensus 291 vDSlGmNE~ELa~l~~~l 308 (463)
T PRK03979 291 VDSVGMDETEIANILNVL 308 (463)
T ss_pred cccccCCHHHHHHHHHHh
Confidence 344789999999999865
No 98
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=25.19 E-value=54 Score=23.66 Aligned_cols=30 Identities=33% Similarity=0.584 Sum_probs=21.2
Q ss_pred ceeeeeecCCCC--------CCCCCCCCCCCCCchHHHH
Q psy10258 5 KFYYWVVNPRLK--------TGVIPKGLDGPRPAQKDIL 35 (69)
Q Consensus 5 K~YYWvv~Pr~~--------Sg~~pkgl~g~rp~~~ei~ 35 (69)
.-|||+++|..+ -||+++.+.+ -|+-+|++
T Consensus 83 ~~~~~li~P~~~i~~~~~~IhGIt~e~l~~-ap~~~evl 120 (239)
T PRK09146 83 QARHWVVKPRRPLEEESVVIHGITHSELQD-APDLERIL 120 (239)
T ss_pred ceEEEEECCCCCCChhhhhhcCCCHHHHhC-CCCHHHHH
Confidence 458999999642 2788888864 56666655
No 99
>cd01637 IMPase_like Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-bisphosphate, inositol poly- and monophosphates, PAP and PAPS, sedoheptulose-1,7-bisphosphate and probably others.
Probab=25.16 E-value=34 Score=23.41 Aligned_cols=11 Identities=36% Similarity=0.685 Sum_probs=6.3
Q ss_pred eeeeecCCCCC
Q psy10258 7 YYWVVNPRLKT 17 (69)
Q Consensus 7 YYWvv~Pr~~S 17 (69)
|+|+++|=+-+
T Consensus 75 ~~wviDPIDGT 85 (238)
T cd01637 75 RVWVIDPIDGT 85 (238)
T ss_pred cEEEEcceeCh
Confidence 55666665443
No 100
>KOG2318|consensus
Probab=25.14 E-value=34 Score=29.48 Aligned_cols=11 Identities=55% Similarity=0.869 Sum_probs=8.7
Q ss_pred ccceeeeeecC
Q psy10258 3 TLKFYYWVVNP 13 (69)
Q Consensus 3 tLK~YYWvv~P 13 (69)
-|||||.||-=
T Consensus 265 rLkYYyAVvec 275 (650)
T KOG2318|consen 265 RLKYYYAVVEC 275 (650)
T ss_pred hheeEEEEEEe
Confidence 48999999854
No 101
>PF06319 DUF1052: Protein of unknown function (DUF1052); InterPro: IPR009394 This entry is represented by Ralstonia phage RSL1, Orf212. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial proteins of unknown function.; PDB: 3DNX_A.
Probab=25.11 E-value=45 Score=23.98 Aligned_cols=17 Identities=24% Similarity=0.763 Sum_probs=12.0
Q ss_pred eeeeecCCCCCCCCCCC
Q psy10258 7 YYWVVNPRLKTGVIPKG 23 (69)
Q Consensus 7 YYWvv~Pr~~Sg~~pkg 23 (69)
|||+|.|.-+..+.|++
T Consensus 90 fyfAv~~~~p~e~lP~~ 106 (157)
T PF06319_consen 90 FYFAVPPDFPQELLPDE 106 (157)
T ss_dssp EEEEE-TTS-GGGS-TT
T ss_pred eEEecCCCCChhhCCCC
Confidence 79999999888888875
No 102
>cd01639 IMPase IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be recycled into inositol lipids; in eukaryotes IMPase plays a vital role in intracellular signaling. IMPase is one of the proposed targets of Li+ therapy in manic-depressive illness. This family contains some bacterial members of the inositol monophosphatase family classified as SuhB-like. E. coli SuhB has been suggested to participate in posstranscriptional control of gene expression, and its inositol monophosphatase activity doesn't appear to be sufficient for its cellular function. It has been proposed, that SuhB plays a role in the biosynthesis of phosphatidylinositol in mycobacteria.
Probab=25.05 E-value=34 Score=23.70 Aligned_cols=11 Identities=27% Similarity=0.619 Sum_probs=7.2
Q ss_pred eeeeecCCCCC
Q psy10258 7 YYWVVNPRLKT 17 (69)
Q Consensus 7 YYWvv~Pr~~S 17 (69)
|+||++|=+-+
T Consensus 76 ~~WvIDPIDGT 86 (244)
T cd01639 76 PTWIIDPLDGT 86 (244)
T ss_pred cEEEEecccCh
Confidence 67777776543
No 103
>PRK07740 hypothetical protein; Provisional
Probab=24.73 E-value=51 Score=23.67 Aligned_cols=31 Identities=23% Similarity=0.481 Sum_probs=22.1
Q ss_pred cceeeeeecCCCC--------CCCCCCCCCCCCCchHHHH
Q psy10258 4 LKFYYWVVNPRLK--------TGVIPKGLDGPRPAQKDIL 35 (69)
Q Consensus 4 LK~YYWvv~Pr~~--------Sg~~pkgl~g~rp~~~ei~ 35 (69)
..-||++|+|..+ .||+++.+++ -|+-+|++
T Consensus 94 ~~~f~~lv~P~~~i~~~~~~ltGIt~e~l~~-ap~~~evl 132 (244)
T PRK07740 94 TDTFYSLVKPKRPIPEHILELTGITAEDVAF-APPLAEVL 132 (244)
T ss_pred EEEEEEEeCcCCCCChhheeccCCCHHHHhC-CCCHHHHH
Confidence 3568999999754 5888888863 45666655
No 104
>PTZ00048 cytochrome c; Provisional
Probab=24.64 E-value=66 Score=20.84 Aligned_cols=17 Identities=35% Similarity=0.708 Sum_probs=13.6
Q ss_pred CCCC-hHHHHHHHHhhhC
Q psy10258 53 PGVK-EDELQSILNYLTT 69 (69)
Q Consensus 53 ~g~~-ddEl~aiLNyL~T 69 (69)
.|++ |||..+|+-||.|
T Consensus 94 ~gl~~~~~~~~liaYL~s 111 (115)
T PTZ00048 94 AGIKKEKERADLIAYLKE 111 (115)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 5676 7788899999965
No 105
>cd07284 PX_SNX7 The phosphoinositide binding Phox Homology domain of Sorting Nexin 7. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX7 harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to the sorting nexins SNX1-2, SNX4-6, SNX8, SNX30,
Probab=24.63 E-value=2e+02 Score=18.78 Aligned_cols=33 Identities=15% Similarity=0.247 Sum_probs=23.1
Q ss_pred HHHHHHH-HHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 32 KDILAIR-AYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 32 ~ei~siR-a~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
.|.+.-| ..|=.||+++..-+.=..++|++..|
T Consensus 80 ~~fie~Rr~~Le~FL~ri~~hp~L~~s~~~~~FL 113 (116)
T cd07284 80 EDFIETRRKALHKFLNRIADHPTLTFNEDFKIFL 113 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHcCcccccChHHHHhh
Confidence 4555555 55666999997666555788888765
No 106
>cd00131 PAX Paired Box domain
Probab=24.58 E-value=71 Score=20.99 Aligned_cols=42 Identities=17% Similarity=0.276 Sum_probs=23.4
Q ss_pred CCCCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHH
Q psy10258 18 GVIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSIL 64 (69)
Q Consensus 18 g~~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiL 64 (69)
.+.|+...|+||.... - ....+|.+++...+..+-.||+..|
T Consensus 62 ~v~pk~~gg~rpr~~~---~--~~~~~i~~~v~~~p~~Tl~El~~~L 103 (128)
T cd00131 62 SIRPGAIGGSKPRVAT---P--EVVKKIEIYKQENPGMFAWEIRDRL 103 (128)
T ss_pred CcCCCCCCCCCCCcCC---H--HHHHHHHHHHHHCCCCCHHHHHHHH
Confidence 3567666666666311 1 1112444566667777777777764
No 107
>PF05952 ComX: Bacillus competence pheromone ComX; InterPro: IPR009233 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. Natural genetic competence in Bacillus subtilis is controlled by quorum-sensing (QS). The ComP- ComA two-component system detects the signalling molecule ComX, and this signal is transduced by a conserved phosphotransfer mechanism. ComX is synthesised as an inactive precursor and is then cleaved and modified by ComQ before export to the extracellular environment [].
Probab=24.36 E-value=1.2e+02 Score=18.43 Aligned_cols=23 Identities=30% Similarity=0.398 Sum_probs=16.7
Q ss_pred HHHHHhhCC---CCCChHHHHHHHHh
Q psy10258 44 FLKQLMMLG---PGVKEDELQSILNY 66 (69)
Q Consensus 44 flkqLi~~~---~g~~ddEl~aiLNy 66 (69)
.++||.... -|+.++|.+||++=
T Consensus 15 vl~kl~~g~asLIGv~~~e~~aIi~~ 40 (57)
T PF05952_consen 15 VLEKLKEGEASLIGVDKDEQKAIIDA 40 (57)
T ss_pred HHHHHHcCCeeEecCCHHHHHHHHHH
Confidence 456666443 68899999999873
No 108
>cd04763 HTH_MlrA-like Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A) and related proteins, N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen
Probab=24.16 E-value=1.5e+02 Score=16.72 Aligned_cols=32 Identities=22% Similarity=0.315 Sum_probs=22.0
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-+-+.+||..++. ++.|. +.|++=+|+..+|+
T Consensus 37 R~yt~~di~~l~~-----i~~l~--~~g~~l~~i~~~l~ 68 (68)
T cd04763 37 RLFNDADIDRILE-----IKRWI--DNGVQVSKVKKLLS 68 (68)
T ss_pred cccCHHHHHHHHH-----HHHHH--HcCCCHHHHHHHhC
Confidence 4578889886654 66665 37777777777653
No 109
>PF03810 IBN_N: Importin-beta N-terminal domain; InterPro: IPR001494 Karyopherins are a group of proteins involved in transporting molecules through the pores of the nuclear envelope. Karyopherins, which may act as importins or exportins, are part of the Importin-beta super-family, which all share a similar three-dimensional structure. Members of the importin-beta (karyopherin-beta) family can bind and transport cargo by themselves, or can form heterodimers with importin-alpha. As part of a heterodimer, importin-beta mediates interactions with the pore complex, while importin-alpha acts as an adaptor protein to bind the nuclear localisation signal (NLS) on the cargo through the classical NLS import of proteins. Importin-beta is a helicoidal molecule constructed from 19 HEAT repeats. Many nuclear pore proteins contain FG sequence repeats that can bind to HEAT repeats within importins [, ], which is important for importin-beta mediated transport. Ran GTPase helps to control the unidirectional transfer of cargo. The cytoplasm contains primarily RanGDP and the nucleus RanGTP through the actions of RanGAP and RanGEF, respectively. In the nucleus, RanGTP binds to importin-beta within the importin/cargo complex, causing a conformational change in importin-beta that releases it from importin-alpha-bound cargo. As a result, the N-terminal auto-inhibitory region on importin-alpha is free to loop back and bind to the major NLS-binding site, causing the cargo to be released []. There are additional release factors as well. This entry represents the N-terminal domain of karyopherins that is important for the binding of the Ran protein []. More information about these proteins can be found at Protein of the Month: Importins [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport; PDB: 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 1IBR_D 1QGR_A 3LWW_A 1F59_A 2Q5D_A ....
Probab=23.96 E-value=1.4e+02 Score=16.55 Aligned_cols=33 Identities=24% Similarity=0.363 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhhCC-C--------CCChHHHHHHHHhhh
Q psy10258 36 AIRAYILLFLKQLMMLG-P--------GVKEDELQSILNYLT 68 (69)
Q Consensus 36 siRa~iL~flkqLi~~~-~--------g~~ddEl~aiLNyL~ 68 (69)
.+|.+-..++|..|... . .+.++|=+.|-+.|+
T Consensus 31 ~~R~~A~i~LKn~I~~~W~~~~~~~~~~~~~~~k~~Ik~~ll 72 (77)
T PF03810_consen 31 EVRQLAAILLKNLIKKNWSPSKQKGWSQLPEEEKEQIKSQLL 72 (77)
T ss_dssp HHHHHHHHHHHHHHHHSGGHHHHHHHHGSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCchhhccCCCCCCHHHHHHHHHHHH
Confidence 56888899999999877 5 677887776666553
No 110
>PHA02780 hypothetical protein; Provisional
Probab=23.89 E-value=49 Score=21.20 Aligned_cols=31 Identities=26% Similarity=0.344 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHhhCC--CCCChHHHHHHHHhhh
Q psy10258 38 RAYILLFLKQLMMLG--PGVKEDELQSILNYLT 68 (69)
Q Consensus 38 Ra~iL~flkqLi~~~--~g~~ddEl~aiLNyL~ 68 (69)
..-+...|.|.-..+ -.+.|||+-.+||.|+
T Consensus 13 std~nsiisq~st~d~d~eided~i~ellnilt 45 (73)
T PHA02780 13 STDLNSIISQQSTMDTDMEIDEDEIMELLNILT 45 (73)
T ss_pred chhHhhhhccccccccceeechHHHHHHHHHHH
Confidence 333444556665444 5568999999999876
No 111
>PF07623 PEGSRP: Protein of unknown function (DUF1584); InterPro: IPR011477 This sequence motif is highly conserved in several short hypothetical proteins from Rhodopirellula baltica. It is also associated with IPR011476 from INTERPRO in Q7UJJ9 from SWISSPROT.
Probab=23.85 E-value=59 Score=17.44 Aligned_cols=16 Identities=38% Similarity=0.692 Sum_probs=11.3
Q ss_pred CCCCCCCCCCCCCCCCchH
Q psy10258 14 RLKTGVIPKGLDGPRPAQK 32 (69)
Q Consensus 14 r~~Sg~~pkgl~g~rp~~~ 32 (69)
|.++|-.|+ |.|||..
T Consensus 5 RkppG~~Pe---gSrpSA~ 20 (27)
T PF07623_consen 5 RKPPGEEPE---GSRPSAT 20 (27)
T ss_pred ccCCCCCCC---CCCcccc
Confidence 677888887 4677754
No 112
>CHL00171 cpcB phycocyanin beta subunit; Reviewed
Probab=23.79 E-value=1e+02 Score=21.91 Aligned_cols=28 Identities=11% Similarity=0.196 Sum_probs=18.3
Q ss_pred HHHHHHHhh----CCCCCChHHHHHHHHhhhC
Q psy10258 42 LLFLKQLMM----LGPGVKEDELQSILNYLTT 69 (69)
Q Consensus 42 L~flkqLi~----~~~g~~ddEl~aiLNyL~T 69 (69)
+.-+.++|. .+....+.||++|-+|+.+
T Consensus 2 ~~~it~~i~~AD~~gRyls~~EL~~l~~~~~~ 33 (172)
T CHL00171 2 LDAFAKVVAQADARGEFLSNTQLDALSKMVAE 33 (172)
T ss_pred hHHHHHHHHHHhhccCCCCHHHHHHHHHHHHh
Confidence 344566662 2455678899998888753
No 113
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=23.76 E-value=1.2e+02 Score=17.22 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHH
Q psy10258 38 RAYILLFLKQLMMLGPGVKEDELQS 62 (69)
Q Consensus 38 Ra~iL~flkqLi~~~~g~~ddEl~a 62 (69)
+..|...+.++|...+++.+|+|-.
T Consensus 10 ~~~L~~~i~~Iv~~EgPI~~~~L~~ 34 (52)
T PF11784_consen 10 RPQLARMIRQIVEVEGPIHEDELAR 34 (52)
T ss_pred HHHHHHHHHHHHHHcCCccHHHHHH
Confidence 3456678889999999999999854
No 114
>PF10820 DUF2543: Protein of unknown function (DUF2543); InterPro: IPR020251 This entry contains proteins with no known function.
Probab=23.57 E-value=2.2e+02 Score=18.60 Aligned_cols=37 Identities=27% Similarity=0.500 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHhhCC-------------CCCChHHHHHHHHhhh
Q psy10258 32 KDILAIRAYILLFLKQLMMLG-------------PGVKEDELQSILNYLT 68 (69)
Q Consensus 32 ~ei~siRa~iL~flkqLi~~~-------------~g~~ddEl~aiLNyL~ 68 (69)
.|--.+--+.-++|-||+... -|+.++-+..|-|||-
T Consensus 27 ~erd~LAhYFQlLitRLmnneeIsEeaQ~EMA~eAgi~~~rID~IA~fLN 76 (81)
T PF10820_consen 27 AERDALAHYFQLLITRLMNNEEISEEAQQEMASEAGIDEQRIDDIANFLN 76 (81)
T ss_pred hhhhHHHHHHHHHHHHHhccHhhhHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence 333345566667788887444 6888888888888873
No 115
>CHL00133 psbV photosystem II cytochrome c550; Validated
Probab=23.46 E-value=77 Score=22.54 Aligned_cols=14 Identities=14% Similarity=0.380 Sum_probs=8.8
Q ss_pred CChHHHHHHHHhhh
Q psy10258 55 VKEDELQSILNYLT 68 (69)
Q Consensus 55 ~~ddEl~aiLNyL~ 68 (69)
.+||||++|..|++
T Consensus 133 LsdeEL~aVAaYIl 146 (163)
T CHL00133 133 LTDEDLYAIAGHIL 146 (163)
T ss_pred CCHHHHHHHHHHHH
Confidence 46666666666654
No 116
>cd06875 PX_IRAS The phosphoinositide binding Phox Homology domain of the Imidazoline Receptor Antisera-Selected. The PX domain is a phosphoinositide binding (PI) module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. Imidazoline Receptor Antisera-Selected (IRAS), also called nischarin, contains an N-terminal PX domain, leucine rich repeats, and a predicted coiled coil domain. The PX domain of IRAS binds to phosphatidylinositol-3-phosphate in membranes. Together with the coiled coil domain, it is essential for the localization of IRAS to endosomes. IRAS has been shown to interact with integrin and inhibit cell migration. Its interaction with alpha5 integrin causes a redistribution of the receptor from the cell surface to endosomal structures, suggesting that IRAS may function as a sorting nexin (SNX) which regulates the endosomal trafficking of integrin. SNXs make up the largest group a
Probab=22.57 E-value=2.2e+02 Score=18.29 Aligned_cols=47 Identities=21% Similarity=0.304 Sum_probs=33.3
Q ss_pred CCCCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHh
Q psy10258 19 VIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNY 66 (69)
Q Consensus 19 ~~pkgl~g~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNy 66 (69)
+-||.+-| +.+.+-|-.=|..+=.||++|.....-...+||.+.|.+
T Consensus 58 ~P~Kk~~~-~~~~~~ie~Rr~~Le~yL~~ll~~~~~~~s~~l~~FL~~ 104 (116)
T cd06875 58 LPPKKLIG-NKSPSFVEKRRKELEIYLQTLLSFFQKTMPRELAHFLDF 104 (116)
T ss_pred CCCccccC-CCCHHHHHHHHHHHHHHHHHHHhhhcccCCHHHHHHhCC
Confidence 34555543 456777777788888899999976666678888877753
No 117
>COG4930 Predicted ATP-dependent Lon-type protease [Posttranslational modification, protein turnover, chaperones]
Probab=22.39 E-value=1.6e+02 Score=25.41 Aligned_cols=42 Identities=29% Similarity=0.449 Sum_probs=34.0
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhhh
Q psy10258 26 GPRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYLT 68 (69)
Q Consensus 26 g~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL~ 68 (69)
|...+|.|+++.|.-.-.++|-|.. +.....+|++.||-|-+
T Consensus 408 gnNlnqRDviavkrt~SGLlKLL~P-d~t~~kee~k~ileyAl 449 (683)
T COG4930 408 GNNLNQRDVIAVKRTTSGLLKLLFP-DKTFDKEELKTILEYAL 449 (683)
T ss_pred ccccchhhhHHHHHHHHHHHHHhCC-CCCcCHHHHHHHHHHHH
Confidence 4778999999999998888887774 44557789999998854
No 118
>COG5440 Uncharacterized conserved protein [Function unknown]
Probab=22.15 E-value=91 Score=22.68 Aligned_cols=33 Identities=21% Similarity=0.193 Sum_probs=21.8
Q ss_pred eeeeeecCCCCC----CCCCCCCC-------CCCCchHHHHHHH
Q psy10258 6 FYYWVVNPRLKT----GVIPKGLD-------GPRPAQKDILAIR 38 (69)
Q Consensus 6 ~YYWvv~Pr~~S----g~~pkgl~-------g~rp~~~ei~siR 38 (69)
+|-|+|+|-..+ -|.|++-+ |-+-+++..-+++
T Consensus 30 ~fH~~v~~P~~~~~i~VI~p~~~~d~viVA~gi~ls~eH~~al~ 73 (161)
T COG5440 30 PFHFVVKPPTGGKVISVIQPPRGSDMVIVAIGIALSQEHRRALM 73 (161)
T ss_pred ceeEEecCCCCCceEEEEecCCCCcEEEEEEeeccCHHHHHHHH
Confidence 677888876553 33454432 5677888888777
No 119
>cd07282 PX_SNX2 The phosphoinositide binding Phox Homology domain of Sorting Nexin 2. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures efficient cargo sort
Probab=22.03 E-value=2.4e+02 Score=18.42 Aligned_cols=36 Identities=14% Similarity=0.194 Sum_probs=25.3
Q ss_pred chHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 30 AQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 30 ~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
+.+-|-.=|..+=.||+++...+.=.+++++++.|.
T Consensus 87 ~~~fie~Rr~~Le~fL~~i~~~p~l~~s~~~~~FL~ 122 (124)
T cd07282 87 STEFVEKRRAALERYLQRTVKHPTLLQDPDLRQFLE 122 (124)
T ss_pred CHHHHHHHHHHHHHHHHHHhcCcccccChHHHHhhc
Confidence 344455555677789999987665557899988763
No 120
>TIGR02045 P_fruct_ADP ADP-specific phosphofructokinase. Phosphofructokinase is a key enzyme of glycolysis. The phosphate group donor for different subtypes of phosphofructokinase can be ATP, ADP, or pyrophosphate. This family consists of ADP-dependent phosphofructokinases. Members are more similar to ADP-dependent glucokinases (excluded from this family) than to other phosphofructokinases.
Probab=21.87 E-value=1.1e+02 Score=24.89 Aligned_cols=18 Identities=28% Similarity=0.486 Sum_probs=14.6
Q ss_pred hCCCCCChHHHHHHHHhh
Q psy10258 50 MLGPGVKEDELQSILNYL 67 (69)
Q Consensus 50 ~~~~g~~ddEl~aiLNyL 67 (69)
...-|+.||||+.++|.|
T Consensus 277 vDSlGMNE~ELa~ll~~l 294 (446)
T TIGR02045 277 VDSVGMDEAEIANVLSVL 294 (446)
T ss_pred cccccCCHHHHHHHHHHh
Confidence 344789999999999865
No 121
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=21.66 E-value=2e+02 Score=17.43 Aligned_cols=44 Identities=18% Similarity=0.493 Sum_probs=25.9
Q ss_pred CCCCCCCCCCCCchHHHHHH-----HHHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 18 GVIPKGLDGPRPAQKDILAI-----RAYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 18 g~~pkgl~g~rp~~~ei~si-----Ra~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-|.|+.+ |..+.+++-++ ...-...++..+ +..+.++||++|++
T Consensus 28 LyvP~~i--P~l~~~~l~~l~~~sy~elA~~il~~f~--~~di~~~~L~~ii~ 76 (79)
T PF14821_consen 28 LYVPEEI--PKLSKEELEELKNLSYAELAFEILSPFL--GDDIPEEELKEIIE 76 (79)
T ss_dssp -EEESS-------HHHHHHHTTS-HHHHHHHHHHHHC--CCCS-HHHHHHHHH
T ss_pred eEecCcC--CCCCHHHHHHHHCCCHHHHHHHHHHHHH--ccCCCHHHHHHHHH
Confidence 3577777 67777766544 344455666666 78889999999976
No 122
>cd01636 FIG FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in gluconeogenesis. Inositol-monophosphatases and inositol polyphosphatases play vital roles in eukaryotic signalling, as they participate in metabolizing the messenger molecule Inositol-1,4,5-triphosphate. Many of these enzymes are inhibited by Li+.
Probab=21.65 E-value=46 Score=21.99 Aligned_cols=11 Identities=45% Similarity=0.951 Sum_probs=9.5
Q ss_pred eeeeecCCCCC
Q psy10258 7 YYWVVNPRLKT 17 (69)
Q Consensus 7 YYWvv~Pr~~S 17 (69)
|+|+++|=+-+
T Consensus 79 ~~WiiDPiDGT 89 (184)
T cd01636 79 YTWVIDPIDGT 89 (184)
T ss_pred eEEEEecccCh
Confidence 78999998876
No 123
>cd06897 PX_SNARE The phosphoinositide binding Phox Homology domain of SNARE proteins from fungi. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. This subfamily is composed of fungal proteins similar to Saccharomyces cerevisiae Vam7p. They contain an N-terminal PX domain and a C-terminal SNARE domain. The SNARE (Soluble NSF attachment protein receptor) family of proteins are integral membrane proteins that serve as key factors for vesicular trafficking. Vam7p is anchored at the vacuolar membrane through the specific interaction of its PX domain with phosphatidylinositol-3-phosphate (PI3P) present in bilayers. It plays an essential role in vacuole fusion. The PX domain is involved in targeting of proteins to PI-enriched membranes, and may also be involved in protein-protein interaction.
Probab=21.63 E-value=2.1e+02 Score=17.52 Aligned_cols=38 Identities=18% Similarity=0.137 Sum_probs=28.1
Q ss_pred CCchHHHHHHHHHHHHHHHHHhhCC--CCCChHHHHHHHH
Q psy10258 28 RPAQKDILAIRAYILLFLKQLMMLG--PGVKEDELQSILN 65 (69)
Q Consensus 28 rp~~~ei~siRa~iL~flkqLi~~~--~g~~ddEl~aiLN 65 (69)
+.+.+-|-.=|..+=.||++|...+ .-...++++..|+
T Consensus 67 ~~~~~~ie~Rr~~Le~yL~~l~~~~~~~l~~s~~~~~FL~ 106 (108)
T cd06897 67 SSNPKLVEERRVGLEAFLRALLNDEDSRWRNSPAVKEFLN 106 (108)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHcCCccchhcCHHHHHHhC
Confidence 5566666677778888999999877 4457788887664
No 124
>PRK09225 threonine synthase; Validated
Probab=21.60 E-value=2.8e+02 Score=22.33 Aligned_cols=44 Identities=25% Similarity=0.492 Sum_probs=30.9
Q ss_pred CCCCCCCCCCCCchHHHHHHH-----HHHHHHHHHHhhCCCCCChHHHHHHHH
Q psy10258 18 GVIPKGLDGPRPAQKDILAIR-----AYILLFLKQLMMLGPGVKEDELQSILN 65 (69)
Q Consensus 18 g~~pkgl~g~rp~~~ei~siR-----a~iL~flkqLi~~~~g~~ddEl~aiLN 65 (69)
-|.|+.+ |..+.+++-+++ ..-...++..+ +..+.++||..|++
T Consensus 29 LyvP~~~--P~l~~~~~~~~~~~sy~~~a~~il~~f~--~~~i~~~~l~~~i~ 77 (462)
T PRK09225 29 LYVPEEL--PKLSAEEIDALLGLSYAELAFEILSAFV--GDDIPEDDLKAIIA 77 (462)
T ss_pred eEeCccc--CCCCHHHHHHHhCCCHHHHHHHHHHHhc--cCCCCHHHHHHHHH
Confidence 3578877 777777876654 34445556555 45689999999987
No 125
>cd07176 terB tellurite resistance protein terB. This family contains uncharacterized bacterial proteins involved in tellurium resistance. The prototype of this CD is the Kp-terB protein from Klebsiella pneumoniae, whose 3D structure was recently determined. The biological function of terB and the mechanism responsible for tellurium resistance are unknown.
Probab=21.31 E-value=1.9e+02 Score=17.02 Aligned_cols=19 Identities=26% Similarity=0.323 Sum_probs=10.4
Q ss_pred hhCCCCCChHHHHHHHHhh
Q psy10258 49 MMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 49 i~~~~g~~ddEl~aiLNyL 67 (69)
...|+.+.++|.+.+.+++
T Consensus 13 a~aDG~v~~~E~~~i~~~l 31 (111)
T cd07176 13 AAADGDIDDAELQAIEALL 31 (111)
T ss_pred HHhccCCCHHHHHHHHHHH
Confidence 3445555566666665554
No 126
>PF15104 DUF4558: Domain of unknown function (DUF4558)
Probab=21.29 E-value=53 Score=21.34 Aligned_cols=31 Identities=35% Similarity=0.453 Sum_probs=23.8
Q ss_pred chHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHH
Q psy10258 30 AQKDILAIRAYILLFLKQLMMLGPGVKEDELQSI 63 (69)
Q Consensus 30 ~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~ai 63 (69)
+.++++.+|-.-| ++|+.++...=++||++.
T Consensus 49 ank~l~~vRqa~L---~~L~e~E~~~ye~EL~a~ 79 (88)
T PF15104_consen 49 ANKELLAVRQARL---RQLFEKEHQQYEQELNAM 79 (88)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhc
Confidence 5678888888765 889987776678888764
No 127
>TIGR01331 bisphos_cysQ 3'(2'),5'-bisphosphate nucleotidase, bacterial. Sulfate is incorporated into 3-phosphoadenylylsulfate, PAPS, for utilization in pathways such as methionine biosynthesis. Transfer of sulfate from PAPS to an acceptor leaves adenosine 3'-5'-bisphosphate, APS. This model describes a form found in bacteria of the enzyme 3'(2'),5'-bisphosphate nucleotidase, which removes the 3'-phosphate from APS to regenerate AMP and help drive the cycle.
Probab=21.20 E-value=47 Score=23.39 Aligned_cols=11 Identities=36% Similarity=0.839 Sum_probs=6.9
Q ss_pred eeeeecCCCCC
Q psy10258 7 YYWVVNPRLKT 17 (69)
Q Consensus 7 YYWvv~Pr~~S 17 (69)
++||++|=+-+
T Consensus 77 ~~WvIDPIDGT 87 (249)
T TIGR01331 77 RFWLVDPLDGT 87 (249)
T ss_pred cEEEEcCCcCh
Confidence 46777776543
No 128
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=20.85 E-value=1.3e+02 Score=20.25 Aligned_cols=31 Identities=23% Similarity=0.435 Sum_probs=22.8
Q ss_pred eeeeecCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q psy10258 7 YYWVVNPRLKTGVIPKGLDGPRPAQKDILAIRAYILLFLKQ 47 (69)
Q Consensus 7 YYWvv~Pr~~Sg~~pkgl~g~rp~~~ei~siRa~iL~flkq 47 (69)
+||+.+-...+.|.|..+ -.|...+..|+++
T Consensus 43 viWlT~~~~~~~I~Pt~L----------~~l~~~i~~fl~~ 73 (136)
T PF05763_consen 43 VIWLTKVEGENAISPTNL----------HKLLDTIVRFLKE 73 (136)
T ss_pred EEEEeccCCCCccCchhh----------HHHHHHHHHHHHh
Confidence 789988776667777655 3556778888887
No 129
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=20.81 E-value=2.6e+02 Score=23.05 Aligned_cols=40 Identities=18% Similarity=0.302 Sum_probs=32.9
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhCCCCCChHHHHHHHHhh
Q psy10258 27 PRPAQKDILAIRAYILLFLKQLMMLGPGVKEDELQSILNYL 67 (69)
Q Consensus 27 ~rp~~~ei~siRa~iL~flkqLi~~~~g~~ddEl~aiLNyL 67 (69)
+-.++.|...+|..+=.++|-|... ...+++|+.-+|.|-
T Consensus 394 ~~~~~RD~~aV~kt~SgllKLL~P~-~~~~~ee~~~~l~~A 433 (449)
T TIGR02688 394 PNLNTRDVIAVKKTFSGLMKILFPH-GTITKEEFTECLEPA 433 (449)
T ss_pred CCcchhhHHHHHHHHHHHHHHhCCC-CCCCHHHHHHHHHHH
Confidence 5568999999999999999987743 557899999988764
No 130
>PF10215 Ost4: Oligosaccaryltransferase ; InterPro: IPR018943 Ost4 is a very short, approximately 30 residues, enzyme found from fungi to vertebrates. It is a member of the ER oligosaccaryltansferase complex, 2.4.1.119 from EC, that catalyses the asparagine-linked glycosylation of proteins. It appears to be an integral membrane protein that mediates the en bloc transfer of a pre-assembled high-mannose oligosaccharide onto asparagine residues of nascent polypeptides as they enter the lumen of the rough endoplasmic reticulum. ; PDB: 1RKL_A 2LAT_A.
Probab=20.79 E-value=79 Score=17.48 Aligned_cols=13 Identities=23% Similarity=0.590 Sum_probs=10.8
Q ss_pred CChHHHHHHHHhh
Q psy10258 55 VKEDELQSILNYL 67 (69)
Q Consensus 55 ~~ddEl~aiLNyL 67 (69)
++|++|..+-|+|
T Consensus 2 IsD~qL~~lan~l 14 (35)
T PF10215_consen 2 ISDVQLYTLANFL 14 (35)
T ss_dssp -SSHHHHHHHHHH
T ss_pred CcHHHHHHHHHHH
Confidence 5899999999986
No 131
>TIGR03791 TTQ_mauG tryptophan tryptophylquinone biosynthesis enzyme MauG. Members of this protein family are the tryptophan tryptophylquinone biosynthesis (TTQ) enzyme MauG, as found in Methylobacterium extorquens and related species. This protein is required to complete the maturation of the TTQ cofactor in the methylamine dehydrogenase light (beta) chain.
Probab=20.62 E-value=83 Score=23.71 Aligned_cols=17 Identities=18% Similarity=0.389 Sum_probs=14.8
Q ss_pred CCCChHHHHHHHHhhhC
Q psy10258 53 PGVKEDELQSILNYLTT 69 (69)
Q Consensus 53 ~g~~ddEl~aiLNyL~T 69 (69)
...+++|+++|+.||.|
T Consensus 261 ~~Lt~~E~~dLvaFL~t 277 (291)
T TIGR03791 261 FELSEREREDLIAFIET 277 (291)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 46799999999999975
No 132
>KOG0995|consensus
Probab=20.59 E-value=2.7e+02 Score=23.88 Aligned_cols=19 Identities=32% Similarity=0.377 Sum_probs=9.3
Q ss_pred CCCchHH--HHHHHHHHHHHH
Q psy10258 27 PRPAQKD--ILAIRAYILLFL 45 (69)
Q Consensus 27 ~rp~~~e--i~siRa~iL~fl 45 (69)
|||-.+. +-..=..|+-||
T Consensus 63 pRpl~dk~~~s~c~~~I~~fL 83 (581)
T KOG0995|consen 63 PRPLSDKRYRSQCIRQIYNFL 83 (581)
T ss_pred CCCcccHHHHHHHHHHHHHHH
Confidence 7776665 333333444443
No 133
>smart00552 ADEAMc tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase).
Probab=20.51 E-value=1.1e+02 Score=24.01 Aligned_cols=21 Identities=24% Similarity=0.548 Sum_probs=18.8
Q ss_pred chHHHHHHHHHHHHHHHHHhh
Q psy10258 30 AQKDILAIRAYILLFLKQLMM 50 (69)
Q Consensus 30 ~~~ei~siRa~iL~flkqLi~ 50 (69)
+..||++.||++--+++||-.
T Consensus 71 ~HAEVlArR~f~r~l~~el~~ 91 (374)
T smart00552 71 CHAEILARRGFLRFLYSELQL 91 (374)
T ss_pred CCHHHHHHHHHHHHHHHHHHH
Confidence 679999999999999999864
No 134
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=20.13 E-value=70 Score=21.84 Aligned_cols=15 Identities=27% Similarity=0.665 Sum_probs=12.8
Q ss_pred CChHHHHHHHHhhhC
Q psy10258 55 VKEDELQSILNYLTT 69 (69)
Q Consensus 55 ~~ddEl~aiLNyL~T 69 (69)
..|.|+|+.++|+.|
T Consensus 29 ~~D~efq~~~~yl~s 43 (179)
T PF06757_consen 29 LEDAEFQAAVRYLNS 43 (179)
T ss_pred HcCHHHHHHHHHHcC
Confidence 368999999999865
Done!