Query 039296
Match_columns 116
No_of_seqs 109 out of 237
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 08:20:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039296.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039296hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05028 PARG_cat: Poly (ADP-r 99.9 1.2E-24 2.6E-29 177.7 5.5 49 5-54 290-338 (340)
2 KOG2064 Poly(ADP-ribose) glyco 99.8 1.2E-20 2.6E-25 159.6 6.6 78 2-79 401-484 (517)
3 PF05716 AKAP_110: A-kinase an 99.8 3.8E-20 8.3E-25 159.2 9.4 80 20-99 601-685 (685)
4 smart00807 AKAP_110 A-kinase a 99.7 1.9E-17 4.2E-22 143.5 8.8 82 17-99 764-851 (851)
5 COG4295 Uncharacterized protei 96.0 0.0032 6.9E-08 50.3 1.5 20 6-25 219-238 (285)
6 TIGR02452 conserved hypothetic 95.1 0.013 2.8E-07 47.2 1.9 28 7-36 208-235 (266)
7 PF12646 DUF3783: Domain of un 79.9 4.9 0.00011 24.9 4.3 39 39-77 2-52 (58)
8 PF07624 PSD2: Protein of unkn 72.0 19 0.00041 23.2 5.7 45 27-77 27-71 (76)
9 PF00690 Cation_ATPase_N: Cati 69.6 11 0.00024 23.4 4.1 47 55-101 7-56 (69)
10 PRK05568 flavodoxin; Provision 67.2 13 0.00028 25.7 4.4 63 4-67 50-112 (142)
11 KOG4508 Uncharacterized conser 64.3 13 0.00029 32.3 4.6 48 59-107 470-517 (522)
12 PRK05569 flavodoxin; Provision 61.9 16 0.00035 25.3 4.1 62 6-68 52-114 (141)
13 TIGR01753 flav_short flavodoxi 60.2 23 0.00049 24.0 4.5 63 4-67 47-112 (140)
14 COG3952 Predicted membrane pro 58.7 8.9 0.00019 27.4 2.2 17 24-40 39-55 (113)
15 PF10034 Dpy19: Q-cell neurobl 58.5 18 0.00039 32.6 4.7 58 17-80 521-579 (642)
16 COG2327 WcaK Polysaccharide py 58.4 11 0.00025 32.0 3.3 25 8-32 4-28 (385)
17 TIGR00262 trpA tryptophan synt 55.5 55 0.0012 25.8 6.5 63 19-81 18-84 (256)
18 PF00290 Trp_syntA: Tryptophan 53.4 55 0.0012 26.2 6.3 63 19-81 18-84 (259)
19 PRK14508 4-alpha-glucanotransf 52.4 17 0.00037 31.6 3.5 23 10-34 17-39 (497)
20 PF00740 Parvo_coat: Parvoviru 51.9 4.3 9.4E-05 35.6 -0.3 20 2-21 6-26 (529)
21 PF15427 S100PBPR: S100P-bindi 51.4 28 0.00061 29.5 4.4 60 43-102 293-380 (386)
22 PLN02591 tryptophan synthase 51.3 55 0.0012 26.0 5.9 62 19-80 10-75 (250)
23 PF13720 Acetyltransf_11: Udp 50.0 41 0.00089 22.2 4.3 48 45-96 27-75 (83)
24 PRK06703 flavodoxin; Provision 49.4 13 0.00027 26.3 1.9 62 4-68 50-116 (151)
25 PF06570 DUF1129: Protein of u 49.3 29 0.00064 26.2 4.0 38 47-84 23-64 (206)
26 PF14078 DUF4259: Domain of un 49.0 13 0.00028 25.7 1.9 23 11-33 1-23 (128)
27 TIGR03161 ribazole_CobZ alpha- 48.6 12 0.00026 27.6 1.6 46 58-103 2-48 (140)
28 KOG0353 ATP-dependent DNA heli 46.9 28 0.00061 30.6 3.9 41 35-81 450-495 (695)
29 cd04765 HTH_MlrA-like_sg2 Heli 46.5 51 0.0011 22.2 4.5 35 45-79 38-72 (99)
30 PF06745 KaiC: KaiC; InterPro 45.9 67 0.0015 23.9 5.4 36 7-49 22-59 (226)
31 PF13411 MerR_1: MerR HTH fami 45.7 44 0.00095 20.2 3.7 31 45-76 37-67 (69)
32 PF07693 KAP_NTPase: KAP famil 45.2 8.8 0.00019 29.9 0.5 25 7-34 23-47 (325)
33 cd04767 HTH_HspR-like_MBC Heli 44.6 48 0.001 23.6 4.2 36 43-78 35-70 (120)
34 cd01104 HTH_MlrA-CarA Helix-Tu 44.3 59 0.0013 19.5 4.1 32 43-75 36-67 (68)
35 PRK09267 flavodoxin FldA; Vali 44.1 43 0.00093 24.0 4.0 62 4-68 48-116 (169)
36 COG3155 ElbB Uncharacterized p 43.8 42 0.00091 26.1 4.0 38 13-51 9-46 (217)
37 PF02609 Exonuc_VII_S: Exonucl 43.6 69 0.0015 19.2 4.3 26 50-75 4-29 (53)
38 PRK06242 flavodoxin; Provision 43.3 59 0.0013 22.5 4.5 47 21-68 59-105 (150)
39 PF10178 DUF2372: Uncharacteri 42.5 80 0.0017 21.4 4.9 48 18-65 37-89 (90)
40 PRK13111 trpA tryptophan synth 41.7 1.1E+02 0.0023 24.3 6.2 63 19-81 20-86 (258)
41 cd00736 bacteriophage_lambda_l 41.5 30 0.00065 25.8 2.8 21 18-38 2-22 (151)
42 COG0362 Gnd 6-phosphogluconate 41.3 1.4E+02 0.0031 26.2 7.2 80 22-101 151-260 (473)
43 PLN03236 4-alpha-glucanotransf 41.2 22 0.00047 32.8 2.4 21 11-34 75-95 (745)
44 PRK02277 orotate phosphoribosy 40.2 63 0.0014 24.4 4.5 49 53-111 6-54 (200)
45 PF14069 SpoVIF: Stage VI spor 39.9 66 0.0014 21.5 4.1 47 18-75 27-73 (79)
46 cd04763 HTH_MlrA-like Helix-Tu 39.8 71 0.0015 19.4 4.0 30 45-75 38-67 (68)
47 PF07578 LAB_N: Lipid A Biosyn 39.6 27 0.00058 23.1 2.1 17 24-40 11-27 (72)
48 CHL00200 trpA tryptophan synth 39.5 1E+02 0.0023 24.5 5.9 62 19-80 23-88 (263)
49 TIGR03190 benz_CoA_bzdN benzoy 39.0 91 0.002 25.8 5.7 54 7-65 317-375 (377)
50 PF03765 CRAL_TRIO_N: CRAL/TRI 37.9 60 0.0013 19.1 3.4 24 55-78 32-55 (55)
51 PF07498 Rho_N: Rho terminatio 37.2 30 0.00065 20.1 1.9 41 64-104 3-43 (43)
52 PF13289 SIR2_2: SIR2-like dom 36.9 88 0.0019 21.0 4.5 22 14-37 93-114 (143)
53 PF12993 DUF3877: Domain of un 36.5 25 0.00055 27.0 1.8 76 21-96 45-139 (175)
54 PRK11052 malQ 4-alpha-glucanot 36.2 16 0.00035 33.2 0.9 21 11-34 157-177 (695)
55 smart00422 HTH_MERR helix_turn 35.9 97 0.0021 18.5 4.2 32 43-75 36-67 (70)
56 PF05872 DUF853: Bacterial pro 35.4 38 0.00083 29.9 2.9 43 26-68 233-293 (502)
57 PLN02950 4-alpha-glucanotransf 35.2 42 0.00092 31.5 3.4 21 11-34 275-295 (909)
58 PF08285 DPM3: Dolichol-phosph 35.1 38 0.00083 23.1 2.4 24 45-68 62-91 (91)
59 TIGR03191 benz_CoA_bzdO benzoy 34.7 81 0.0018 26.8 4.8 54 7-65 365-427 (430)
60 PTZ00445 p36-lilke protein; Pr 34.7 64 0.0014 25.6 3.9 43 6-51 55-104 (219)
61 PF10678 DUF2492: Protein of u 33.9 66 0.0014 21.5 3.3 36 27-65 25-60 (78)
62 cd04764 HTH_MlrA-like_sg1 Heli 33.7 1E+02 0.0023 18.6 4.1 30 45-75 37-66 (67)
63 cd04789 HTH_Cfa Helix-Turn-Hel 33.2 97 0.0021 20.8 4.2 32 43-75 36-67 (102)
64 cd08793 Death_IRAK4 Death doma 33.2 92 0.002 21.8 4.1 17 62-78 67-83 (100)
65 PF11074 DUF2779: Domain of un 32.4 87 0.0019 22.4 4.0 39 19-57 53-93 (130)
66 KOG2653 6-phosphogluconate deh 32.1 3E+02 0.0066 24.1 7.7 22 22-43 154-176 (487)
67 cd02663 Peptidase_C19G A subfa 31.8 1.2E+02 0.0026 23.7 5.1 63 25-101 12-81 (300)
68 cd01282 HTH_MerR-like_sg3 Heli 31.5 1.5E+02 0.0033 20.1 5.0 35 43-78 35-69 (112)
69 COG0735 Fur Fe2+/Zn2+ uptake r 31.4 92 0.002 22.4 4.0 13 66-78 53-65 (145)
70 PRK03995 hypothetical protein; 31.2 30 0.00066 27.9 1.6 27 9-35 86-121 (267)
71 cd08307 Death_Pelle Death doma 30.9 78 0.0017 21.8 3.4 21 58-78 57-77 (97)
72 PF03162 Y_phosphatase2: Tyros 30.7 2.2E+02 0.0047 20.9 6.8 58 21-81 76-133 (164)
73 PTZ00494 tuzin-like protein; P 30.6 64 0.0014 29.1 3.6 68 4-81 395-463 (664)
74 cd08309 Death_IRAK Death domai 30.5 82 0.0018 21.1 3.4 22 57-78 64-85 (95)
75 PRK14066 exodeoxyribonuclease 30.5 1.3E+02 0.0028 19.7 4.2 33 50-82 9-47 (75)
76 cd07292 PX_SNX6 The phosphoino 30.4 38 0.00082 25.2 1.8 29 86-114 38-74 (141)
77 TIGR03853 matur_matur probable 30.4 76 0.0017 21.2 3.1 36 27-65 23-58 (77)
78 PF06163 DUF977: Bacterial pro 30.3 1.1E+02 0.0023 22.4 4.1 30 46-75 5-36 (127)
79 TIGR01280 xseB exodeoxyribonuc 30.3 1.3E+02 0.0029 19.1 4.2 33 50-82 6-44 (67)
80 PRK11921 metallo-beta-lactamas 30.1 56 0.0012 27.0 3.1 14 46-59 374-387 (394)
81 PRK00977 exodeoxyribonuclease 30.0 1.3E+02 0.0028 19.8 4.2 33 50-82 15-53 (80)
82 cd07977 TFIIE_beta_winged_heli 29.9 1.6E+02 0.0035 19.1 4.9 48 50-104 7-57 (75)
83 PLN02635 disproportionating en 29.8 39 0.00085 29.9 2.1 25 11-39 41-65 (538)
84 cd04781 HTH_MerR-like_sg6 Heli 29.6 1.2E+02 0.0026 20.8 4.2 34 43-77 35-68 (120)
85 PRK14067 exodeoxyribonuclease 29.5 1.3E+02 0.0029 19.9 4.2 33 50-82 12-50 (80)
86 TIGR01613 primase_Cterm phage/ 29.2 1.5E+02 0.0033 23.4 5.3 22 17-38 50-72 (304)
87 PRK14064 exodeoxyribonuclease 29.2 1.4E+02 0.003 19.5 4.2 33 50-82 11-49 (75)
88 PRK14510 putative bifunctional 29.2 38 0.00083 32.7 2.1 21 11-34 738-758 (1221)
89 COG0159 TrpA Tryptophan syntha 29.0 2.1E+02 0.0045 23.3 6.0 63 19-81 25-91 (265)
90 PRK01642 cls cardiolipin synth 28.8 53 0.0011 28.1 2.7 57 18-75 122-179 (483)
91 COG3033 TnaA Tryptophanase [Am 28.6 2.3E+02 0.005 24.7 6.5 64 17-81 164-261 (471)
92 PHA02595 tk.4 hypothetical pro 28.6 47 0.001 24.1 2.1 38 6-47 114-152 (154)
93 PF09153 DUF1938: Domain of un 28.1 77 0.0017 21.7 2.9 26 44-69 29-56 (86)
94 PF06648 DUF1160: Protein of u 27.8 1.2E+02 0.0026 21.9 4.0 28 50-77 35-62 (122)
95 smart00831 Cation_ATPase_N Cat 27.7 83 0.0018 18.8 2.8 37 64-100 9-45 (64)
96 PRK10304 ferritin; Provisional 27.6 62 0.0013 23.9 2.6 45 53-98 82-126 (165)
97 PF02446 Glyco_hydro_77: 4-alp 27.5 49 0.0011 28.6 2.3 23 11-35 10-32 (496)
98 PRK06756 flavodoxin; Provision 27.5 60 0.0013 22.7 2.4 63 4-68 51-117 (148)
99 PLN00032 DNA-directed RNA poly 27.4 1.6E+02 0.0034 19.5 4.2 57 38-97 3-61 (71)
100 PF08642 Rxt3: Histone deacety 27.1 42 0.00092 23.9 1.6 19 10-28 25-43 (115)
101 TIGR03878 thermo_KaiC_2 KaiC d 26.9 3E+02 0.0065 21.3 6.6 36 6-48 38-74 (259)
102 PF05184 SapB_1: Saposin-like 26.8 1.1E+02 0.0025 16.4 4.0 23 59-81 15-37 (39)
103 TIGR03581 EF_0839 conserved hy 26.7 1.8E+02 0.0039 23.4 5.2 60 6-67 119-179 (236)
104 cd08796 Death_IRAK-M Death dom 26.7 1E+02 0.0022 21.0 3.3 17 62-78 63-79 (89)
105 PRK14069 exodeoxyribonuclease 26.5 1.5E+02 0.0033 20.4 4.3 33 50-82 13-51 (95)
106 TIGR01926 peroxid_rel uncharac 26.5 2.4E+02 0.0052 20.1 6.1 51 12-76 105-155 (177)
107 PRK05452 anaerobic nitric oxid 26.3 59 0.0013 28.0 2.6 52 7-62 342-393 (479)
108 PF06535 RGM_N: Repulsive guid 26.2 32 0.00069 26.1 0.8 13 14-27 101-113 (161)
109 PRK10219 DNA-binding transcrip 26.1 1.4E+02 0.0031 19.5 4.0 14 22-35 5-18 (107)
110 PRK14068 exodeoxyribonuclease 26.1 1.7E+02 0.0037 19.2 4.3 33 50-82 11-49 (76)
111 cd04780 HTH_MerR-like_sg5 Heli 26.0 1.8E+02 0.0039 19.4 4.5 35 43-77 36-70 (95)
112 cd08795 Death_IRAK2 Death doma 26.0 1.1E+02 0.0023 20.9 3.3 17 62-78 62-78 (88)
113 PF09357 RteC: RteC protein; 25.8 2.6E+02 0.0057 21.7 6.0 68 25-101 145-212 (218)
114 PF07071 DUF1341: Protein of u 25.5 76 0.0016 25.2 2.8 61 6-68 119-180 (218)
115 PRK14507 putative bifunctional 25.3 35 0.00076 34.3 1.1 22 10-34 185-206 (1693)
116 TIGR01755 flav_wrbA NAD(P)H:qu 25.3 1.2E+02 0.0027 22.5 3.9 57 14-70 75-141 (197)
117 PRK14063 exodeoxyribonuclease 25.1 1.8E+02 0.0039 19.0 4.2 33 50-82 10-48 (76)
118 cd04773 HTH_TioE_rpt2 Second H 25.1 1.9E+02 0.0041 19.6 4.5 35 43-78 36-70 (108)
119 PF11888 DUF3408: Protein of u 24.9 1.4E+02 0.003 21.3 4.0 29 51-79 90-118 (136)
120 cd06906 M14_Nna1 Peptidase M14 24.4 1.1E+02 0.0025 24.9 3.8 39 7-47 105-159 (278)
121 cd04724 Tryptophan_synthase_al 24.4 3.3E+02 0.0072 21.0 6.5 63 19-81 8-74 (242)
122 PF11140 DUF2913: Protein of u 24.4 3.2E+02 0.0069 20.9 6.1 51 23-79 33-85 (207)
123 cd04766 HTH_HspR Helix-Turn-He 24.3 1.8E+02 0.0039 18.8 4.2 34 43-76 36-69 (91)
124 PF09079 Cdc6_C: CDC6, C termi 24.2 2E+02 0.0043 18.3 4.4 31 65-95 15-46 (85)
125 PLN02469 hydroxyacylglutathion 23.9 3.5E+02 0.0075 21.2 6.4 40 7-47 130-175 (258)
126 cd04768 HTH_BmrR-like Helix-Tu 23.8 2E+02 0.0043 19.0 4.4 34 43-77 36-69 (96)
127 COG1313 PflX Uncharacterized F 23.7 2.5E+02 0.0054 23.7 5.6 84 19-103 173-288 (335)
128 PF04084 ORC2: Origin recognit 23.7 4.1E+02 0.009 21.8 8.3 78 25-104 42-135 (326)
129 cd04782 HTH_BltR Helix-Turn-He 23.6 1.8E+02 0.0038 19.3 4.1 34 43-77 36-69 (97)
130 PRK12452 cardiolipin synthetas 23.6 81 0.0018 27.4 2.9 57 18-75 146-203 (509)
131 smart00400 ZnF_CHCC zinc finge 23.2 41 0.00089 20.1 0.8 9 13-22 27-35 (55)
132 TIGR02260 benz_CoA_red_B benzo 22.9 2E+02 0.0043 24.4 5.1 51 7-61 354-413 (413)
133 PF04533 Herpes_U44: Herpes vi 22.9 51 0.0011 26.0 1.4 49 27-75 5-58 (210)
134 PF00869 Flavi_glycoprot: Flav 22.9 31 0.00066 28.5 0.2 6 14-19 104-109 (293)
135 cd03012 TlpA_like_DipZ_like Tl 22.7 53 0.0012 22.1 1.4 34 34-67 20-58 (126)
136 PRK06012 flhA flagellar biosyn 22.7 1.4E+02 0.003 27.4 4.4 27 52-78 535-561 (697)
137 COG3645 Uncharacterized phage- 22.6 1E+02 0.0022 22.7 2.9 24 66-98 48-71 (135)
138 cd04775 HTH_Cfa-like Helix-Tur 22.4 1.9E+02 0.0041 19.3 4.1 33 43-76 36-68 (102)
139 cd04774 HTH_YfmP Helix-Turn-He 22.2 2E+02 0.0044 19.1 4.2 36 43-78 35-70 (96)
140 KOG1982 Nuclear 5'-3' exoribon 21.9 1.3E+02 0.0029 25.5 3.8 54 23-77 251-309 (359)
141 PLN02629 powdery mildew resist 21.9 80 0.0017 26.9 2.5 34 2-35 205-260 (387)
142 PRK09816 thrL thr operon leade 21.6 39 0.00084 17.9 0.4 12 6-18 12-23 (26)
143 cd02801 DUS_like_FMN Dihydrour 21.5 2.4E+02 0.0051 20.8 4.8 57 8-65 95-151 (231)
144 TIGR03436 acidobact_VWFA VWFA- 21.5 2.1E+02 0.0047 22.2 4.8 55 14-68 138-197 (296)
145 PRK03767 NAD(P)H:quinone oxido 21.2 1.8E+02 0.0039 21.5 4.1 55 14-68 76-140 (200)
146 PF02542 YgbB: YgbB family; I 21.2 86 0.0019 23.5 2.3 54 17-70 34-93 (157)
147 PRK14866 hypothetical protein; 21.1 61 0.0013 28.2 1.7 26 9-34 92-126 (451)
148 TIGR02051 MerR Hg(II)-responsi 21.0 2E+02 0.0043 19.9 4.1 34 43-77 35-68 (124)
149 cd01106 HTH_TipAL-Mta Helix-Tu 20.8 2.2E+02 0.0048 18.8 4.2 35 43-78 36-70 (103)
150 PRK13503 transcriptional activ 20.5 2.2E+02 0.0048 21.5 4.5 44 54-97 173-222 (278)
151 PF00771 FHIPEP: FHIPEP family 20.5 1.7E+02 0.0037 26.6 4.4 46 52-97 505-550 (658)
152 PRK09856 fructoselysine 3-epim 20.4 2.7E+02 0.0059 21.1 5.1 45 24-68 89-145 (275)
153 KOG2649 Zinc carboxypeptidase 20.3 70 0.0015 28.3 1.9 31 21-51 234-271 (500)
154 TIGR02884 spore_pdaA delta-lac 20.3 1.4E+02 0.003 22.7 3.4 44 25-68 174-217 (224)
155 PF10036 RLL: Putative carniti 20.2 1.8E+02 0.0039 23.0 4.1 53 46-98 17-86 (249)
156 PF08763 Ca_chan_IQ: Voltage g 20.2 59 0.0013 18.7 1.0 18 64-81 2-21 (35)
No 1
>PF05028 PARG_cat: Poly (ADP-ribose) glycohydrolase (PARG); InterPro: IPR007724 Poly(ADP-ribose) glycohydrolase (PARG) is a ubiquitously expressed exo- and endoglycohydrolase which mediates oxidative and excitotoxic neuronal death [].; GO: 0004649 poly(ADP-ribose) glycohydrolase activity, 0005975 carbohydrate metabolic process; PDB: 4FC2_D 3UEL_C 3UEK_A.
Probab=99.90 E-value=1.2e-24 Score=177.65 Aligned_cols=49 Identities=73% Similarity=1.346 Sum_probs=37.7
Q ss_pred CCceeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHH
Q 039296 5 LPGIATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNL 54 (116)
Q Consensus 5 ~~~I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l 54 (116)
..+|+|||||||||||||+||++|||||||+||||++ ||||+|+++.+.
T Consensus 290 ~~~I~TGnWGCGaFgGd~~lK~lIQ~lAas~a~r~l~-Y~tf~~~~l~~~ 338 (340)
T PF05028_consen 290 IPPIATGNWGCGAFGGDPQLKFLIQWLAASLAGRPLV-YYTFGDEELANK 338 (340)
T ss_dssp S--EEEESTTCCCC-B-HHHHHHHHHHHHHHCT--EE-EE-TT-HHHHHH
T ss_pred cceEecCCcCccccCCCHHHHHHHHHHHHHhcCCCeE-EEecChHHHHhh
Confidence 3469999999999999999999999999999999965 999999988643
No 2
>KOG2064 consensus Poly(ADP-ribose) glycohydrolase [Signal transduction mechanisms]
Probab=99.82 E-value=1.2e-20 Score=159.57 Aligned_cols=78 Identities=44% Similarity=0.691 Sum_probs=70.9
Q ss_pred CCCCCc-----eeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHH-HHHHHHHHHHhCCccHHHHHHHH
Q 039296 2 GKDLPG-----IATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQ-NLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 2 ~~~~~~-----I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~-~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
|+++++ |+||+||||||+|||.||++||||||.+++||+..||||+|++++ ..+++....+...+|+++|+-.|
T Consensus 401 ~~~~~~~~~~~i~~~~wgcgaf~gd~~lkailq~~~a~q~~RPf~sy~tFG~~eL~~~~~~~~~~~~~d~v~~~~l~~~i 480 (517)
T KOG2064|consen 401 GFSNIPGSRWEIATGWWGCGAFRGDPPLKAILQVLVAGQARRPFTSYYTFGDEELRNLCQEMLTLFRNDMVTIGQLLPII 480 (517)
T ss_pred CCCCCCcccchhhcccccccccCCCcHHHHHHHHHHHhhcCCchhheeeccHHHHHHHHHHHHHHHHhccchHhhhhHHH
Confidence 556667 999999999999999999999999999999998779999999995 57888899999999999999999
Q ss_pred HHHH
Q 039296 76 VEYS 79 (116)
Q Consensus 76 ~~y~ 79 (116)
..+.
T Consensus 481 ~S~~ 484 (517)
T KOG2064|consen 481 CSQP 484 (517)
T ss_pred hcCC
Confidence 7664
No 3
>PF05716 AKAP_110: A-kinase anchor protein 110 kDa (AKAP 110); InterPro: IPR018292 This family consists of several mammalian protein kinase A anchoring protein 3 (PRKA3) or A-kinase anchor protein 110 kDa (AKAP 110) sequences. Agents that increase intracellular cAMP are potent stimulators of sperm motility. Anchoring inhibitor peptides, designed to disrupt the interaction of the cAMP-dependent protein kinase A (PKA) with A kinase-anchoring proteins (AKAPs), are potent inhibitors of sperm motility. PKA anchoring is a key biochemical mechanism controlling motility. AKAP110 shares compartments with both RI and RII isoforms of PKA and may function as a regulator of both motility- and head-associated functions such as capacitation and the acrosome reaction []. This entry represents a sub group of the A-kinase anschor 110kDa protein.
Probab=99.82 E-value=3.8e-20 Score=159.16 Aligned_cols=80 Identities=30% Similarity=0.581 Sum_probs=70.2
Q ss_pred CCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhhhc-----CCCcchhHHh
Q 039296 20 GDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEYSSQRLN-----GRTNLGFFAW 94 (116)
Q Consensus 20 GD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~~~~-----~~~~~~lf~w 94 (116)
.|+||+++|||||||++++|.|+|...+|.++++|.++.+++++|+|+||||++++++||+.++. ...+.+||||
T Consensus 601 ~d~QLrAVLQWIAASEl~VP~LYF~~~~e~~leKL~qvs~ra~EKgwkVGDLLQAVLkYcke~Q~dea~g~~~rksLfDW 680 (685)
T PF05716_consen 601 QDKQLRAVLQWIAASELNVPMLYFRKDDEGNLEKLPQVSARAREKGWKVGDLLQAVLKYCKERQLDEAVGNVTRKSLFDW 680 (685)
T ss_pred CcHHHHHHHHHHHHhhcCCceEEEecCcHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhhhhhcccccccHHHH
Confidence 68999999999999999999874334556778999999999999999999999999999987542 3478899999
Q ss_pred hhhhh
Q 039296 95 LLPSL 99 (116)
Q Consensus 95 Ll~~l 99 (116)
||++|
T Consensus 681 LL~Nl 685 (685)
T PF05716_consen 681 LLENL 685 (685)
T ss_pred HhhhC
Confidence 99986
No 4
>smart00807 AKAP_110 A-kinase anchor protein 110 kDa. This family consists of several mammalian protein kinase A anchoring protein 3 (PRKA3) or A-kinase anchor protein 110 kDa (AKAP 110) sequences. Agents that increase intracellular cAMP are potent stimulators of sperm motility. Anchoring inhibitor peptides, designed to disrupt the interaction of the cAMP-dependent protein kinase A (PKA) with A kinase-anchoring proteins (AKAPs), are potent inhibitors of sperm motility. PKA anchoring is a key biochemical mechanism controlling motility. AKAP110 shares compartments with both RI and RII isoforms of PKA and may function as a regulator of both motility- and head-associated functions such as capacitation and the acrosome reaction PUBMED:10319321.
Probab=99.72 E-value=1.9e-17 Score=143.46 Aligned_cols=82 Identities=23% Similarity=0.464 Sum_probs=71.9
Q ss_pred cCCCCHHHHHHHHHHHHHhcCCCeEeeeccCh-hHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhhhc-----CCCcch
Q 039296 17 AFGGDPELKAIIQWLAASQASRPFVLYYTFGI-DALQNLDQITQWILSHEWTVRDLWNMMVEYSSQRLN-----GRTNLG 90 (116)
Q Consensus 17 aFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d-~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~~~~-----~~~~~~ 90 (116)
.---|+||+++|||||||++++|.| ||.-.+ ..+++|.++...+.+|+|+||||++.+++||++++. ..++.+
T Consensus 764 p~~qDkQLrAvLQWIAASE~nVP~L-YF~~s~e~~~eKLlqVSaka~EKGwsVGDLLQaVlkY~KerQ~DEav~~~~rkS 842 (851)
T smart00807 764 DTVQNKQLQAVLQWVAASELNVPIL-YFAGDDEGIQEKLLQLSAKAVEKGYSVGEVLQSVLRYEKERQLDEAVGNVTRLQ 842 (851)
T ss_pred ccccchhhhhHHHHHHHhhcCCceE-EEecCcchHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHhchhhhhccccccc
Confidence 3456899999999999999999976 766665 567899999999999999999999999999988762 347899
Q ss_pred hHHhhhhhh
Q 039296 91 FFAWLLPSL 99 (116)
Q Consensus 91 lf~wLl~~l 99 (116)
||||||.+|
T Consensus 843 LfDWLL~nL 851 (851)
T smart00807 843 LLDWLMANL 851 (851)
T ss_pred HHHHHhhcC
Confidence 999999876
No 5
>COG4295 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=96.02 E-value=0.0032 Score=50.29 Aligned_cols=20 Identities=40% Similarity=0.996 Sum_probs=17.0
Q ss_pred CceeccccCCccCCCCHHHH
Q 039296 6 PGIATGNWGCGAFGGDPELK 25 (116)
Q Consensus 6 ~~I~TGnWGCGaFgGD~qLK 25 (116)
..++-|-||||+|++||---
T Consensus 219 ~alVLGAwGCGVFrNdPA~V 238 (285)
T COG4295 219 KALVLGAWGCGVFRNDPADV 238 (285)
T ss_pred CeEEEcccccccccCCHHHH
Confidence 35788999999999999654
No 6
>TIGR02452 conserved hypothetical protein TIGR02452. Members of this uncharacterized protein family are found in Streptomyces, Nostoc sp. PCC 7120, Clostridium acetobutylicum, Lactobacillus johnsonii NCC 533, Deinococcus radiodurans, and Pirellula sp. for a broad but sparse phylogenetic distibution that at least suggests lateral gene transfer.
Probab=95.07 E-value=0.013 Score=47.15 Aligned_cols=28 Identities=32% Similarity=0.881 Sum_probs=21.6
Q ss_pred ceeccccCCccCCCCHHHHHHHHHHHHHhc
Q 039296 7 GIATGNWGCGAFGGDPELKAIIQWLAASQA 36 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD~qLK~lIQwiAAS~A 36 (116)
.++-|-||||+|++||+ .+-++.+--+.
T Consensus 208 ~LVLGA~GCG~f~N~p~--~VA~~f~evL~ 235 (266)
T TIGR02452 208 ALVLGAWGCGVFGNDPA--EVAKIFHDLLS 235 (266)
T ss_pred EEEECCccccccCCCHH--HHHHHHHHHhc
Confidence 57889999999999997 55555555554
No 7
>PF12646 DUF3783: Domain of unknown function (DUF3783); InterPro: IPR016621 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=79.87 E-value=4.9 Score=24.92 Aligned_cols=39 Identities=23% Similarity=0.435 Sum_probs=25.7
Q ss_pred CeEeeeccChhHHHHHHHHHHHH------------HhCCccHHHHHHHHHH
Q 039296 39 PFVLYYTFGIDALQNLDQITQWI------------LSHEWTVRDLWNMMVE 77 (116)
Q Consensus 39 ~~l~Y~tf~d~~l~~l~~v~~~l------------~~k~~tVgdL~~~L~~ 77 (116)
+++.++.|.++++.++-+.++.. .+.+||+.+|+.-|.+
T Consensus 2 ~~ll~~g~~~~el~~~l~~~r~~~~~~~~kAvlT~tN~~Wt~~~L~~El~~ 52 (58)
T PF12646_consen 2 EFLLFSGFSGEELDKFLDALRKAGIPIPLKAVLTPTNINWTLKDLLEELKE 52 (58)
T ss_pred CEEEECCCCHHHHHHHHHHHHHcCCCcceEEEECCCcccCcHHHHHHHHHH
Confidence 35667788887775554443332 2557899999888754
No 8
>PF07624 PSD2: Protein of unknown function (DUF1585); InterPro: IPR011478 This entry represents a conserved region at the C terminus of a family of cytochrome-like proteins found in bacteria such as Rhodopirellula baltica and Solibacter usitatus. These proteins also contain IPR013036 from INTERPRO, IPR013039 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.
Probab=71.99 E-value=19 Score=23.24 Aligned_cols=45 Identities=22% Similarity=0.361 Sum_probs=32.1
Q ss_pred HHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 27 IIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 27 lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
+++=+..-..||+ + .+.|.. .++++++.+++++.++.+|...|..
T Consensus 27 ~~~kl~~YAlGR~-~---~~~D~~--~i~~i~~~~~~~~y~~~~Li~~iv~ 71 (76)
T PF07624_consen 27 FAEKLLTYALGRP-L---EFSDRC--EIDRIVEAFKANGYRLRDLILAIVT 71 (76)
T ss_pred HHHHHHHHHcCCC-C---CcchHH--HHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 3344445566888 4 355533 3678888999999999999998864
No 9
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=69.64 E-value=11 Score=23.38 Aligned_cols=47 Identities=9% Similarity=0.201 Sum_probs=38.1
Q ss_pred HHHHHHHH---hCCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhcc
Q 039296 55 DQITQWIL---SHEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLTS 101 (116)
Q Consensus 55 ~~v~~~l~---~k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls~ 101 (116)
+++.+.+. ..|.|-.+.-+.+.+|.++...+....+++.-+++++.+
T Consensus 7 ~~v~~~l~t~~~~GLs~~ev~~r~~~~G~N~l~~~~~~s~~~~~~~~f~~ 56 (69)
T PF00690_consen 7 EEVLKRLNTSSSQGLSSEEVEERRKKYGPNELPEPKKKSLWRIFLKQFKN 56 (69)
T ss_dssp HHHHHHHTTBTSSBBTHHHHHHHHHHHSSSSTTTTTSSSHHHHHHHHTTS
T ss_pred HHHHHHHCcCCCCCCCHHHHHHHHHhcccccccccccCcHHHHHHHHHHh
Confidence 44555554 789999999999999998887778889999988887754
No 10
>PRK05568 flavodoxin; Provisional
Probab=67.22 E-value=13 Score=25.68 Aligned_cols=63 Identities=10% Similarity=0.198 Sum_probs=36.9
Q ss_pred CCCceeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCcc
Q 039296 4 DLPGIATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWT 67 (116)
Q Consensus 4 ~~~~I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~t 67 (116)
+.+.++|.-|+.|.+. .++++.++.-+.....+++...+.+++...-+-+..+.+.+++.+++
T Consensus 50 d~iilgsp~y~~~~~~-~~~~~~f~~~~~~~~~~k~~~~f~t~G~~~~~~~~~~~~~l~~~g~~ 112 (142)
T PRK05568 50 DVVALGSPAMGDEVLE-EGEMEPFVESISSLVKGKKLVLFGSYGWGDGEWMRDWVERMEGYGAN 112 (142)
T ss_pred CEEEEECCccCccccc-chhHHHHHHHhhhhhCCCEEEEEEccCCCCChHHHHHHHHHHHCCCE
Confidence 4456666667655532 13678888777666778997778888752111233334445555543
No 11
>KOG4508 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.35 E-value=13 Score=32.31 Aligned_cols=48 Identities=21% Similarity=0.209 Sum_probs=39.9
Q ss_pred HHHHhCCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhccCCCCCC
Q 039296 59 QWILSHEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLTSHNFISP 107 (116)
Q Consensus 59 ~~l~~k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls~~~~~~~ 107 (116)
..||+|=+.|.||+--+..||-+-++-+..-+||. |+.+++..-+.+.
T Consensus 470 sLiRnkIiNV~DlfieVqaFciefsr~REaagLfr-llkqld~g~~~~e 517 (522)
T KOG4508|consen 470 SLIRNKIINVEDLFIEVQAFCIEFSRNREAAGLFR-LLKQLDGGGGGQE 517 (522)
T ss_pred HHHHHhcccHHHHHHHHHhhhhhhhhhHHHHHHHH-HHHHhcCCCCCcc
Confidence 55678889999999999999987666677899999 9999988776653
No 12
>PRK05569 flavodoxin; Provisional
Probab=61.92 E-value=16 Score=25.26 Aligned_cols=62 Identities=8% Similarity=0.190 Sum_probs=35.9
Q ss_pred CceeccccCCccCCCCHHHHHHHHHHHHH-hcCCCeEeeeccChhHHHHHHHHHHHHHhCCccH
Q 039296 6 PGIATGNWGCGAFGGDPELKAIIQWLAAS-QASRPFVLYYTFGIDALQNLDQITQWILSHEWTV 68 (116)
Q Consensus 6 ~~I~TGnWGCGaFgGD~qLK~lIQwiAAS-~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tV 68 (116)
+.+.|.-|+.|.+ +.++++.++.-+... ..|++...+-|++...-.-+..+-+.++++++++
T Consensus 52 iilgsPty~~~~~-~~~~~~~~~~~l~~~~~~~K~v~~f~t~g~~~~~~~~~~~~~l~~~g~~~ 114 (141)
T PRK05569 52 VAFGSPSMDNNNI-EQEEMAPFLDQFKLTPNENKKCILFGSYGWDNGEFMKLWKDRMKDYGFNV 114 (141)
T ss_pred EEEECCCcCCCcC-ChHHHHHHHHHhhccCcCCCEEEEEeCCCCCCCcHHHHHHHHHHHCCCeE
Confidence 3444444444433 136899999888643 3688877788887532112333444566677655
No 13
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=60.18 E-value=23 Score=24.00 Aligned_cols=63 Identities=11% Similarity=0.176 Sum_probs=38.5
Q ss_pred CCCceeccccCCccCCCCHHHHHHHHHHHHH-hcCCCeEeeeccChhH-H-HHHHHHHHHHHhCCcc
Q 039296 4 DLPGIATGNWGCGAFGGDPELKAIIQWLAAS-QASRPFVLYYTFGIDA-L-QNLDQITQWILSHEWT 67 (116)
Q Consensus 4 ~~~~I~TGnWGCGaFgGD~qLK~lIQwiAAS-~Agr~~l~Y~tf~d~~-l-~~l~~v~~~l~~k~~t 67 (116)
+.+.+.|.-|+-|... .++++.+++++... +.|++...|.+.+... . .-...+.+.+++++.+
T Consensus 47 d~iilgspty~~g~~p-~~~~~~f~~~l~~~~~~gk~~~vfgt~g~~~~f~~~~~~~~~~l~~~g~~ 112 (140)
T TIGR01753 47 DAVLLGCSTWGDEDLE-QDDFEPFFEELEDIDLGGKKVALFGSGDWGYEFCEAVDDWEERLKEAGAT 112 (140)
T ss_pred CEEEEEcCCCCCCCCC-cchHHHHHHHhhhCCCCCCEEEEEecCCCCchhhHHHHHHHHHHHHCCCE
Confidence 3455667777666554 35889999988653 5788866666665322 2 2244455566666654
No 14
>COG3952 Predicted membrane protein [Function unknown]
Probab=58.65 E-value=8.9 Score=27.39 Aligned_cols=17 Identities=35% Similarity=0.716 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHhcCCCe
Q 039296 24 LKAIIQWLAASQASRPF 40 (116)
Q Consensus 24 LK~lIQwiAAS~Agr~~ 40 (116)
.++++||+|.-.|+|+.
T Consensus 39 ~Rf~VQw~~se~a~rsv 55 (113)
T COG3952 39 GRFVVQWLASEHANRSV 55 (113)
T ss_pred HHHHHHHHHHHhcCCCc
Confidence 47999999999999984
No 15
>PF10034 Dpy19: Q-cell neuroblast polarisation; InterPro: IPR018732 This entry represents the Dpy-19 protein from Caenorhabditis elegans and its homologues in other Metazoa, including mammals. In C. elegans, Dpy-19 is required to orient neuroblasts QL and QR correctly on the anterior/posterior (A/P) axis. These neuroblasts are born in the same A/P position, but polarise and migrate left/right asymmetrically, where QL migrates toward the posterior and QR migrates toward the anterior. After their migrations, QL (but not QR) switches on the Hox gene mab-5. Dpy-19 is required along with Unc-40 to express Mab-5 correctly in the Q cell descendants []. A mammalian dpy-19 homologue was found to be expressed in GABAergic neurons []. The mammalian homologue of Mab-5 is the Gsh2 homeobox transcription factor, which plays a crucial role in the development of GABAergic neurons. ; GO: 0016021 integral to membrane
Probab=58.54 E-value=18 Score=32.64 Aligned_cols=58 Identities=17% Similarity=0.308 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHH-HHHHHHHHHHHhCCccHHHHHHHHHHHHH
Q 039296 17 AFGGDPELKAIIQWLAASQASRPFVLYYTFGIDAL-QNLDQITQWILSHEWTVRDLWNMMVEYSS 80 (116)
Q Consensus 17 aFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l-~~l~~v~~~l~~k~~tVgdL~~~L~~y~~ 80 (116)
+|.|++|+.+-+-.. .|||++.---++|.++ ++=+++++.-. .-+..|+++.|.+|.-
T Consensus 521 vFAGsM~lma~vkL~----T~r~ivnHPhYEd~~LR~RT~~vY~iys--r~~~~ev~~~l~~~~~ 579 (642)
T PF10034_consen 521 VFAGSMPLMASVKLC----TGRPIVNHPHYEDADLRERTKDVYQIYS--RRSAEEVYKILRKYKV 579 (642)
T ss_pred eeccCcchHHHHHHh----cCCccccCcccCCHHHHHHHHHHHHhhc--CCCHHHHHHHHHHhCC
Confidence 688998888888765 5999665556788888 56777777763 3489999999988753
No 16
>COG2327 WcaK Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]
Probab=58.38 E-value=11 Score=31.98 Aligned_cols=25 Identities=32% Similarity=0.643 Sum_probs=22.8
Q ss_pred eeccccCCccCCCCHHHHHHHHHHH
Q 039296 8 IATGNWGCGAFGGDPELKAIIQWLA 32 (116)
Q Consensus 8 I~TGnWGCGaFgGD~qLK~lIQwiA 32 (116)
.--|+||||-.|.+.-||+++|.+.
T Consensus 4 ~L~g~~g~gN~Gdeail~all~~l~ 28 (385)
T COG2327 4 LLLGYYGFGNIGDEAILKALLDMLR 28 (385)
T ss_pred EEEeeecCCCcccHHHHHHHHHHHH
Confidence 4569999999999999999999996
No 17
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=55.50 E-value=55 Score=25.79 Aligned_cols=63 Identities=13% Similarity=0.182 Sum_probs=48.8
Q ss_pred CCCHHHHHHHHHHHH-HhcCCCeEe-eeccChhHHH--HHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 19 GGDPELKAIIQWLAA-SQASRPFVL-YYTFGIDALQ--NLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 19 gGD~qLK~lIQwiAA-S~Agr~~l~-Y~tf~d~~l~--~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
-|||.+...+.++-+ ..+|.++|. =.+|+|.-.. -+++..++..++++|+.++++.+.+..++
T Consensus 18 aG~P~~~~~~~~~~~l~~~Gad~iElGiPfsDP~aDGpvIq~a~~~al~~G~~~~~~~~~v~~ir~~ 84 (256)
T TIGR00262 18 AGDPTLETSLEIIKTLIEAGADALELGVPFSDPLADGPTIQAADLRALRAGMTPEKCFELLKKVRQK 84 (256)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCcCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence 489999999997665 467788432 2488887663 57888888889999999999999988654
No 18
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=53.42 E-value=55 Score=26.20 Aligned_cols=63 Identities=16% Similarity=0.304 Sum_probs=46.5
Q ss_pred CCCHHHHHHHHHHHHHhc-CCCeEe-eeccChhHH--HHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 19 GGDPELKAIIQWLAASQA-SRPFVL-YYTFGIDAL--QNLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 19 gGD~qLK~lIQwiAAS~A-gr~~l~-Y~tf~d~~l--~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
.|+|.+...+.++-+-.. |.++|. =++|+|.-+ .-+++..+...+++.++.++++++.+..++
T Consensus 18 aG~P~~~~~~~~~~~l~~~GaD~iEiGiPfSDP~ADGpvIq~A~~rAL~~G~~~~~~~~~~~~ir~~ 84 (259)
T PF00290_consen 18 AGYPDLETTLEILKALEEAGADIIEIGIPFSDPVADGPVIQKASQRALKNGFTLEKIFELVKEIRKK 84 (259)
T ss_dssp TTSSSHHHHHHHHHHHHHTTBSSEEEE--SSSCTTSSHHHHHHHHHHHHTT--HHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHhcc
Confidence 589999998888876554 777432 248999766 458888888889999999999999998744
No 19
>PRK14508 4-alpha-glucanotransferase; Provisional
Probab=52.40 E-value=17 Score=31.60 Aligned_cols=23 Identities=35% Similarity=0.716 Sum_probs=19.6
Q ss_pred ccccCCccCCCCHHHHHHHHHHHHH
Q 039296 10 TGNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 10 TGnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
-++||||-|| +.|+.++.|+|++
T Consensus 17 ~~~~GiGDfg--~dl~~~id~~~~~ 39 (497)
T PRK14508 17 PGSYGIGDFG--KGAYEFIDFLAEA 39 (497)
T ss_pred CCCCCCcchH--HHHHHHHHHHHHc
Confidence 5899999997 5688999999884
No 20
>PF00740 Parvo_coat: Parvovirus coat protein VP2 This family is a subset of the SCOP family; InterPro: IPR001403 Parvoviruses are some of the smallest viruses containing linear, non-segmented single-stranded DNA genomes, with an average genome size of 5000 nucleotides. Parvoviruses have been described that infect a wide range of invertebrates and vertebrates and are well known for causing enteric disease in mammals. Genomes contains two large ORFs: NS1 and VP1; other ORFs are found in some sub-types and different gene products can arise from splice variants and the use of different start codons []. The Parvovirus coat protein VP1 together with VP2 forms a capsomer. Both of these proteins are formed from the same transcript using alternative translation start codons. As a result, VP1 and VP2 differ only in the N terminus region. VP2 is involved in packaging the viral DNA []. The mature viron contains three capsid proteins VP1, VP2, and VP3 and a noncapsid protein NS1. VP3 may arise from a third start codon with a favorable translation initiation context which is present at position 3067 in the ChPV genome and which has been described in the goose and Muscovy duck parvoviruses [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 1C8G_A 1C8F_A 1C8E_A 1FPV_A 3KIC_L 3KIE_Q 3UX1_A 2G8G_A 1VU0_U 3SHM_L ....
Probab=51.89 E-value=4.3 Score=35.57 Aligned_cols=20 Identities=35% Similarity=0.692 Sum_probs=13.4
Q ss_pred CCCCCceeccccCCcc-CCCC
Q 039296 2 GKDLPGIATGNWGCGA-FGGD 21 (116)
Q Consensus 2 ~~~~~~I~TGnWGCGa-FgGD 21 (116)
|++.+.++||.|=||. |++|
T Consensus 6 GggGvg~stG~W~~gt~f~~~ 26 (529)
T PF00740_consen 6 GGGGVGNSTGGWHGGTIFSDN 26 (529)
T ss_dssp TBCETTS-SS-B--EEEEESS
T ss_pred CCCCCCccccccCCCCEEcCC
Confidence 6788999999999999 7763
No 21
>PF15427 S100PBPR: S100P-binding protein
Probab=51.43 E-value=28 Score=29.48 Aligned_cols=60 Identities=22% Similarity=0.341 Sum_probs=41.3
Q ss_pred eeccChhHHHH-----HHHHHHHHHh----CCccHHHHHHHHHH-HHHh------------------hhcCCCcchhHHh
Q 039296 43 YYTFGIDALQN-----LDQITQWILS----HEWTVRDLWNMMVE-YSSQ------------------RLNGRTNLGFFAW 94 (116)
Q Consensus 43 Y~tf~d~~l~~-----l~~v~~~l~~----k~~tVgdL~~~L~~-y~~~------------------~~~~~~~~~lf~w 94 (116)
+-+|++.++++ +..|+..|.. ++-+.++||.++.+ |..+ ++....+.+|=+|
T Consensus 293 vp~fSqseLE~qK~iYl~~Vi~Hi~~p~~snqG~~gEL~aLMdqV~~~qn~~WQHPSDLT~RNY~rfRqkplqr~SLtqW 372 (386)
T PF15427_consen 293 VPTFSQSELEQQKQIYLDSVIAHIEDPVDSNQGPLGELYALMDQVHHMQNPKWQHPSDLTMRNYARFRQKPLQRYSLTQW 372 (386)
T ss_pred CCccchHHHHHHHHHHHHHHHhhcCCCcccccchHHHHHHHHHHHHhccCCCCCChHHhhhhhhhhhhcCCccccCHHHH
Confidence 45799888753 5677777766 45689999999966 3222 2223358899999
Q ss_pred hhhhhccC
Q 039296 95 LLPSLTSH 102 (116)
Q Consensus 95 Ll~~ls~~ 102 (116)
.-.|.+++
T Consensus 373 v~rN~rs~ 380 (386)
T PF15427_consen 373 VDRNMRSH 380 (386)
T ss_pred HHhcchhh
Confidence 98886543
No 22
>PLN02591 tryptophan synthase
Probab=51.29 E-value=55 Score=25.97 Aligned_cols=62 Identities=15% Similarity=0.190 Sum_probs=48.7
Q ss_pred CCCHHHHHHHHHHHH-HhcCCCeEe-eeccChhHHH--HHHHHHHHHHhCCccHHHHHHHHHHHHH
Q 039296 19 GGDPELKAIIQWLAA-SQASRPFVL-YYTFGIDALQ--NLDQITQWILSHEWTVRDLWNMMVEYSS 80 (116)
Q Consensus 19 gGD~qLK~lIQwiAA-S~Agr~~l~-Y~tf~d~~l~--~l~~v~~~l~~k~~tVgdL~~~L~~y~~ 80 (116)
.|||.+...++++-+ -.+|.++|. =++|+|.-+. -+++-.++..+++.|+.++++++.++.+
T Consensus 10 aG~P~~e~~~~~~~~l~~~Gad~iElGiPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~~~~~~~r~ 75 (250)
T PLN02591 10 AGDPDLDTTAEALRLLDACGADVIELGVPYSDPLADGPVIQAAATRALEKGTTLDSVISMLKEVAP 75 (250)
T ss_pred CCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 589999999996654 467888432 2489987663 5788888888999999999999988863
No 23
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=49.97 E-value=41 Score=22.17 Aligned_cols=48 Identities=10% Similarity=0.221 Sum_probs=34.5
Q ss_pred ccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH-HHHhhhcCCCcchhHHhhh
Q 039296 45 TFGIDALQNLDQITQWILSHEWTVRDLWNMMVE-YSSQRLNGRTNLGFFAWLL 96 (116)
Q Consensus 45 tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~-y~~~~~~~~~~~~lf~wLl 96 (116)
.|+.+++..++++++.|-.++.++.+-.+.|.+ |.. ...-..+.+||.
T Consensus 27 Gfs~~~i~~l~~ayr~l~~~~~~~~~a~~~l~~~~~~----~~~v~~~~~Fi~ 75 (83)
T PF13720_consen 27 GFSKEEISALRRAYRILFRSGLTLEEALEELEEEYPD----SPEVREIVDFIR 75 (83)
T ss_dssp TS-HHHHHHHHHHHHHHHTSSS-HHHHHHHHHHHTTS----CHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHhccC----CHHHHHHHHHHH
Confidence 467778888999999999899999998888866 322 122466788887
No 24
>PRK06703 flavodoxin; Provisional
Probab=49.38 E-value=13 Score=26.27 Aligned_cols=62 Identities=13% Similarity=0.166 Sum_probs=34.9
Q ss_pred CCCceeccccCCccCCCCHHHHHHHHHHHH-HhcCCCeEeeeccChhH----HHHHHHHHHHHHhCCccH
Q 039296 4 DLPGIATGNWGCGAFGGDPELKAIIQWLAA-SQASRPFVLYYTFGIDA----LQNLDQITQWILSHEWTV 68 (116)
Q Consensus 4 ~~~~I~TGnWGCGaFgGD~qLK~lIQwiAA-S~Agr~~l~Y~tf~d~~----l~~l~~v~~~l~~k~~tV 68 (116)
+.+.|.|--||.|.+ -+..+.++.++.. .+.+++.. .|.-++.. -+-...+.+.+++.+.++
T Consensus 50 d~viigspt~~~g~~--p~~~~~f~~~l~~~~l~~k~~~-vfg~g~~~y~~~~~a~~~l~~~l~~~G~~~ 116 (151)
T PRK06703 50 DGIILGSYTWGDGDL--PYEAEDFHEDLENIDLSGKKVA-VFGSGDTAYPLFCEAVTIFEERLVERGAEL 116 (151)
T ss_pred CcEEEEECCCCCCcC--cHHHHHHHHHHhcCCCCCCEEE-EEccCCCChHHHHHHHHHHHHHHHHCCCEE
Confidence 455677777888876 2357777777753 45566743 33333321 122344555666666653
No 25
>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=49.31 E-value=29 Score=26.22 Aligned_cols=38 Identities=18% Similarity=0.307 Sum_probs=28.6
Q ss_pred ChhHHH-HHHHHHHHH---HhCCccHHHHHHHHHHHHHhhhc
Q 039296 47 GIDALQ-NLDQITQWI---LSHEWTVRDLWNMMVEYSSQRLN 84 (116)
Q Consensus 47 ~d~~l~-~l~~v~~~l---~~k~~tVgdL~~~L~~y~~~~~~ 84 (116)
+|++.+ -++|+.+.+ +++|.|..|+|....+||++-..
T Consensus 23 ~e~~~e~~L~eil~~LleaQk~G~tA~~lfG~P~~~a~eli~ 64 (206)
T PF06570_consen 23 SEEEIEELLEEILPHLLEAQKKGKTARQLFGDPKEYADELIK 64 (206)
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCCcHHHHcCCHHHHHHHHhc
Confidence 445553 367777666 57899999999999999988543
No 26
>PF14078 DUF4259: Domain of unknown function (DUF4259)
Probab=49.05 E-value=13 Score=25.68 Aligned_cols=23 Identities=35% Similarity=0.695 Sum_probs=17.2
Q ss_pred cccCCccCCCCHHHHHHHHHHHH
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAA 33 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAA 33 (116)
|-||.|+|..|--+=++=.+.-+
T Consensus 1 GaWg~g~FdnD~a~D~l~el~~~ 23 (128)
T PF14078_consen 1 GAWGTGPFDNDTALDFLDELRDA 23 (128)
T ss_pred CCCCCCCCCCchHHHHHHHHHHh
Confidence 77999999999877665544433
No 27
>TIGR03161 ribazole_CobZ alpha-ribazole phosphatase CobZ. Sequences in the seed alignment were the experimentally characterized CobZ of the methanogenic archaeon Methanosarcina mazei, and other archaeal proteins found similarly next to or very near to other cobalamin biosynthesis genes. CobZ replaces the alpha-ribazole-phosphate phosphatase (EC 3.1.3.73) called CobC in analogous bacterial pathways for cobalamin biosynthesis under anaerobic conditions.
Probab=48.59 E-value=12 Score=27.65 Aligned_cols=46 Identities=11% Similarity=0.008 Sum_probs=27.1
Q ss_pred HHHHHhCCccHHHHHHHHHHHHHh-hhcCCCcchhHHhhhhhhccCC
Q 039296 58 TQWILSHEWTVRDLWNMMVEYSSQ-RLNGRTNLGFFAWLLPSLTSHN 103 (116)
Q Consensus 58 ~~~l~~k~~tVgdL~~~L~~y~~~-~~~~~~~~~lf~wLl~~ls~~~ 103 (116)
.+.++++|+|+.|+.++..++.-+ ...+.......+-+.+.|++++
T Consensus 2 ~~~L~~rGVtl~dia~~~~~l~~q~~~~~~~~e~~~~~v~~vL~kre 48 (140)
T TIGR03161 2 LLLLEEEGISLEGLVETAMELYVGKEPREEAEERLLRELERYLEDPN 48 (140)
T ss_pred hhHHHHcCCCHHHHHHHHHHHhcCCcCchHHHHHHHHHHHHHHcCHH
Confidence 356778999999999988766332 1111223444555555555544
No 28
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=46.88 E-value=28 Score=30.59 Aligned_cols=41 Identities=24% Similarity=0.479 Sum_probs=25.2
Q ss_pred hcCCC-----eEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 35 QASRP-----FVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 35 ~Agr~-----~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
-|||+ .|.||.|.|- -++...+...+.-+..||+++ +||..
T Consensus 450 ragrd~~~a~cilyy~~~di-----fk~ssmv~~e~~g~q~ly~mv-~y~~d 495 (695)
T KOG0353|consen 450 RAGRDDMKADCILYYGFADI-----FKISSMVQMENTGIQKLYEMV-RYAAD 495 (695)
T ss_pred ccccCCCcccEEEEechHHH-----HhHHHHHHHHhhhHHHHHHHH-HHHhh
Confidence 35664 5779999882 222333444666777788776 66654
No 29
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), 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. 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.
Probab=46.47 E-value=51 Score=22.23 Aligned_cols=35 Identities=11% Similarity=0.135 Sum_probs=28.6
Q ss_pred ccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Q 039296 45 TFGIDALQNLDQITQWILSHEWTVRDLWNMMVEYS 79 (116)
Q Consensus 45 tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y~ 79 (116)
-|.++++..+..+...+++.++++.++-.+|....
T Consensus 38 ~Yt~~di~~l~~I~~llr~~G~~l~~i~~~l~~~~ 72 (99)
T cd04765 38 YYRPKDVELLLLIKHLLYEKGYTIEGAKQALKEDG 72 (99)
T ss_pred eeCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhcc
Confidence 36667788888887788999999999999997653
No 30
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=45.86 E-value=67 Score=23.86 Aligned_cols=36 Identities=19% Similarity=0.334 Sum_probs=21.2
Q ss_pred ceeccccCCccCCCCHHHHHHHHHHHHH-hc-CCCeEeeeccChh
Q 039296 7 GIATGNWGCGAFGGDPELKAIIQWLAAS-QA-SRPFVLYYTFGID 49 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD~qLK~lIQwiAAS-~A-gr~~l~Y~tf~d~ 49 (116)
...+|.=|+|- --+.+|.+++. .. |.+.+ |+++.+.
T Consensus 22 ~li~G~~GsGK------T~l~~q~l~~~~~~~ge~vl-yvs~ee~ 59 (226)
T PF06745_consen 22 VLISGPPGSGK------TTLALQFLYNGLKNFGEKVL-YVSFEEP 59 (226)
T ss_dssp EEEEESTTSSH------HHHHHHHHHHHHHHHT--EE-EEESSS-
T ss_pred EEEEeCCCCCc------HHHHHHHHHHhhhhcCCcEE-EEEecCC
Confidence 35566666662 34567888655 44 78865 9999864
No 31
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=45.68 E-value=44 Score=20.17 Aligned_cols=31 Identities=6% Similarity=0.272 Sum_probs=21.1
Q ss_pred ccChhHHHHHHHHHHHHHhCCccHHHHHHHHH
Q 039296 45 TFGIDALQNLDQITQWILSHEWTVRDLWNMMV 76 (116)
Q Consensus 45 tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~ 76 (116)
-|+++++..|..+.... +.++++.++-++|.
T Consensus 37 ~y~~~dv~~l~~i~~l~-~~G~sl~~I~~~l~ 67 (69)
T PF13411_consen 37 YYSEEDVERLREIKELR-KQGMSLEEIKKLLK 67 (69)
T ss_dssp EE-HHHHHHHHHHHHHH-HTTTHHHHHHHHH-
T ss_pred eccHHHHHHHHHHHHHH-HCcCCHHHHHHHHc
Confidence 35666677676655544 59999999988874
No 32
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=45.17 E-value=8.8 Score=29.93 Aligned_cols=25 Identities=24% Similarity=0.302 Sum_probs=14.7
Q ss_pred ceeccccCCccCCCCHHHHHHHHHHHHH
Q 039296 7 GIATGNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
.-.+|.||||== --|+.+.+.+-..
T Consensus 23 IgL~G~WGsGKS---s~l~~l~~~L~~~ 47 (325)
T PF07693_consen 23 IGLYGEWGSGKS---SFLNMLKEELKED 47 (325)
T ss_pred EEEECCCCCCHH---HHHHHHHHHHhcc
Confidence 356899999951 1244444544443
No 33
>cd04767 HTH_HspR-like_MBC Helix-Turn-Helix DNA binding domain of putative HspR-like transcription regulators. Putative helix-turn-helix (HTH) transcription regulator HspR-like proteins. Unlike the characterized HspR, these proteins have a C-terminal domain with putative metal binding cysteines (MBC). 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 spe
Probab=44.60 E-value=48 Score=23.64 Aligned_cols=36 Identities=14% Similarity=0.225 Sum_probs=29.1
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
|--|+++++..|+.|.....+.++++.++-.+|..|
T Consensus 35 ~R~Ys~~dv~rL~~I~~L~~e~G~~l~eI~~~L~l~ 70 (120)
T cd04767 35 QRLYSNNDLKRLRFIKKLINEKGLNIAGVKQILSMY 70 (120)
T ss_pred cEEECHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence 334677778888887777777999999999999777
No 34
>cd01104 HTH_MlrA-CarA Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), 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- and CarA-like proteins in this group appear to lack the long dimerization helix seen i
Probab=44.32 E-value=59 Score=19.52 Aligned_cols=32 Identities=9% Similarity=0.051 Sum_probs=23.0
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
|-.|.++++..+..+.... +.++++.++-++|
T Consensus 36 ~r~yt~~~v~~l~~i~~l~-~~g~~l~~i~~~~ 67 (68)
T cd01104 36 HRLYSEADVARLRLIRRLT-SEGVRISQAAALA 67 (68)
T ss_pred CeecCHHHHHHHHHHHHHH-HCCCCHHHHHHHh
Confidence 3346677777777665554 5999999988775
No 35
>PRK09267 flavodoxin FldA; Validated
Probab=44.10 E-value=43 Score=23.95 Aligned_cols=62 Identities=13% Similarity=0.275 Sum_probs=35.6
Q ss_pred CCCceeccccCCccCCCCHHHHHHHHHH-HHHhcCCCeEeeeccChhH------HHHHHHHHHHHHhCCccH
Q 039296 4 DLPGIATGNWGCGAFGGDPELKAIIQWL-AASQASRPFVLYYTFGIDA------LQNLDQITQWILSHEWTV 68 (116)
Q Consensus 4 ~~~~I~TGnWGCGaFgGD~qLK~lIQwi-AAS~Agr~~l~Y~tf~d~~------l~~l~~v~~~l~~k~~tV 68 (116)
+.+.|.+.-|+-|.+ .+..+..+..+ ...+.|++.. .|+-++.. ...+.++.+.+++++.++
T Consensus 48 d~vi~g~pt~~~G~~--~~~~~~fl~~~~~~~l~~k~va-ifg~g~~~~~~~~~~~~~~~l~~~l~~~g~~~ 116 (169)
T PRK09267 48 DLLILGIPTWGYGEL--QCDWDDFLPELEEIDFSGKKVA-LFGLGDQEDYAEYFCDAMGTLYDIVEPRGATI 116 (169)
T ss_pred CEEEEEecCcCCCCC--CHHHHHHHHHHhcCCCCCCEEE-EEecCCCCcchHHHHHHHHHHHHHHHHCCCEE
Confidence 445677778877777 35566556555 4456789954 54544321 233455556666655443
No 36
>COG3155 ElbB Uncharacterized protein involved in an early stage of isoprenoid biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=43.78 E-value=42 Score=26.08 Aligned_cols=38 Identities=21% Similarity=0.426 Sum_probs=30.7
Q ss_pred cCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHH
Q 039296 13 WGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDAL 51 (116)
Q Consensus 13 WGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l 51 (116)
-|||+|.|-.--.++|-++|-+..|-..+ +|..+-.+.
T Consensus 9 SGCGV~DGaEIHEsVltllai~r~GA~~~-cFAP~~~Q~ 46 (217)
T COG3155 9 SGCGVYDGAEIHESVLTLLAISRSGAQAV-CFAPDKQQV 46 (217)
T ss_pred ecCcccchHHHHHHHHHHHHHHhcCceeE-EecCCchhh
Confidence 49999999999999999999999999965 545444443
No 37
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=43.57 E-value=69 Score=19.19 Aligned_cols=26 Identities=19% Similarity=0.358 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
.+++|+++++.+.+..+++.+.....
T Consensus 4 ~~~~Le~Iv~~Le~~~~sLdes~~ly 29 (53)
T PF02609_consen 4 AMERLEEIVEKLESGELSLDESLKLY 29 (53)
T ss_dssp HHHHHHHHHHHHHTT-S-HHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence 45789999999999999999888765
No 38
>PRK06242 flavodoxin; Provisional
Probab=43.25 E-value=59 Score=22.46 Aligned_cols=47 Identities=13% Similarity=0.241 Sum_probs=30.1
Q ss_pred CHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccH
Q 039296 21 DPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTV 68 (116)
Q Consensus 21 D~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tV 68 (116)
.+++|.+|+-+.. ..+++...+.|++...-..+..+.+.++.+++++
T Consensus 59 ~~~~~~fl~~~~~-~~~k~~~~f~t~g~~~~~~~~~l~~~l~~~g~~~ 105 (150)
T PRK06242 59 HKSLLKLIEKLPP-VSGKKAFIFSTSGLPFLKYHKALKKKLKEKGFEI 105 (150)
T ss_pred CHHHHHHHHhhhh-hcCCeEEEEECCCCCcchHHHHHHHHHHHCCCEE
Confidence 5789998887643 4688977777887532212444555556666655
No 39
>PF10178 DUF2372: Uncharacterised conserved protein (DUF2372); InterPro: IPR018788 Proteasome assembly chaperone 3 (PSMG3) promotes assembly of the 20S proteasome []. It may cooperate with PSMG1-PSMG2 heterodimers to orchestrate the correct assembly of proteasomes.; PDB: 2Z5E_A.
Probab=42.52 E-value=80 Score=21.40 Aligned_cols=48 Identities=23% Similarity=0.331 Sum_probs=27.1
Q ss_pred CCCC-HHHHHHHHHHHHH----hcCCCeEeeeccChhHHHHHHHHHHHHHhCC
Q 039296 18 FGGD-PELKAIIQWLAAS----QASRPFVLYYTFGIDALQNLDQITQWILSHE 65 (116)
Q Consensus 18 FgGD-~qLK~lIQwiAAS----~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~ 65 (116)
||.| |.+....|-++.. -.+||++.=-...|...+-++.+.+.+++.+
T Consensus 37 lG~dep~l~v~Ar~L~~~i~~~~~~r~lllalgLkd~s~e~lk~i~~~i~~~~ 89 (90)
T PF10178_consen 37 LGKDEPLLHVYARQLIEFISQEGSNRPLLLALGLKDHSPETLKAIVEVIRENK 89 (90)
T ss_dssp ES---HHHHHHHHHHHHHHHHHTTT-EEEEEEE-SS--HHHHHHHHHHHHHT-
T ss_pred ecCCcHHHHHHHHHHHHHHhccCCCCcEEEEEeccCCCHHHHHHHHHHHHHhc
Confidence 4444 5555555555444 4677866566777877788888888887654
No 40
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=41.66 E-value=1.1e+02 Score=24.35 Aligned_cols=63 Identities=16% Similarity=0.277 Sum_probs=48.2
Q ss_pred CCCHHHHHHHHHHH-HHhcCCCeEe-eeccChhHHH--HHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 19 GGDPELKAIIQWLA-ASQASRPFVL-YYTFGIDALQ--NLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 19 gGD~qLK~lIQwiA-AS~Agr~~l~-Y~tf~d~~l~--~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
.|+|-+...++.+- .-..|.++|. =++|+|.-+. -+++..+...+++.|+.++++.+.+..+.
T Consensus 20 aG~P~~~~~~~~~~~l~~~Gad~iElGiPfSDP~aDGpvIq~a~~~AL~~G~~~~~~~~~~~~~r~~ 86 (258)
T PRK13111 20 AGDPDLETSLEIIKALVEAGADIIELGIPFSDPVADGPVIQAASLRALAAGVTLADVFELVREIREK 86 (258)
T ss_pred CCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence 58899999999555 4456787432 2488887663 57888888889999999999999998633
No 41
>cd00736 bacteriophage_lambda_lysozyme The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing end upon cleavage of the peptidoglycan but rather uses the 6-OH of the same MurNAc residue to produce a 1,6-anhydromuramic acid terminal residue and is therefore a lytic transglycosylase. An identical 1,6-anhydro bond is formed in bacterial peptidoglycans by the action of the lytic transglycosylases of E. coli. However, they differ structurally.
Probab=41.47 E-value=30 Score=25.82 Aligned_cols=21 Identities=38% Similarity=0.838 Sum_probs=19.6
Q ss_pred CCCCHHHHHHHHHHHHHhcCC
Q 039296 18 FGGDPELKAIIQWLAASQASR 38 (116)
Q Consensus 18 FgGD~qLK~lIQwiAAS~Agr 38 (116)
+++||++++++-.||.|+.+.
T Consensus 2 ~~~~p~~rA~L~~Ia~aEgt~ 22 (151)
T cd00736 2 YGGDPNVRAFLDTIAASEGTD 22 (151)
T ss_pred CCCCHHHHHHHHHHHHHhCcC
Confidence 689999999999999999886
No 42
>COG0362 Gnd 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]
Probab=41.32 E-value=1.4e+02 Score=26.15 Aligned_cols=80 Identities=11% Similarity=0.107 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHhcCCCeEeeeccCh--------------hHHHHHHHHHHHHHh-CCccH------------HHHHHH
Q 039296 22 PELKAIIQWLAASQASRPFVLYYTFGI--------------DALQNLDQITQWILS-HEWTV------------RDLWNM 74 (116)
Q Consensus 22 ~qLK~lIQwiAAS~Agr~~l~Y~tf~d--------------~~l~~l~~v~~~l~~-k~~tV------------gdL~~~ 74 (116)
+.++-++|=|||..-|.|+..|-.-+- .+++-+-|.+..+++ -+++- |+|=+.
T Consensus 151 ~~v~pil~~IaAk~~g~pCc~~iG~~GAGHfVKmVHNGIEYgDMQlIaE~Y~ilk~~lgls~~ei~~vF~~WN~geL~SY 230 (473)
T COG0362 151 ELVAPILTKIAAKVDGEPCCTWIGPDGAGHFVKMVHNGIEYGDMQLIAEAYDILKDGLGLSAEEIAEVFEEWNKGELDSY 230 (473)
T ss_pred HHHHHHHHHHHhhcCCCCceeeECCCCCCceeeeeecCchHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhccCcchHH
Confidence 468999999999999999765542211 122334566666665 33444 444444
Q ss_pred HHHHHHhhh---cCCCcchhHHhhhhhhcc
Q 039296 75 MVEYSSQRL---NGRTNLGFFAWLLPSLTS 101 (116)
Q Consensus 75 L~~y~~~~~---~~~~~~~lf~wLl~~ls~ 101 (116)
|.+...... .+++...|.|-||+..-+
T Consensus 231 LIeIT~~IL~~kD~~~~kplvd~ILD~AgQ 260 (473)
T COG0362 231 LIEITADILRKKDEEGGKPLVDKILDKAGQ 260 (473)
T ss_pred HHHHHHHHHhhcCcccCCchHHHHHHHhcC
Confidence 444433322 233455799999955433
No 43
>PLN03236 4-alpha-glucanotransferase; Provisional
Probab=41.20 E-value=22 Score=32.82 Aligned_cols=21 Identities=38% Similarity=0.786 Sum_probs=18.4
Q ss_pred cccCCccCCCCHHHHHHHHHHHHH
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
.+||||-|| | |+.++-|+|++
T Consensus 75 ~s~GIGDfg-d--L~~fvD~~a~~ 95 (745)
T PLN03236 75 ESVGAGDFG-D--LEALVDFAAEA 95 (745)
T ss_pred CCCCcccHH-H--HHHHHHHHHHc
Confidence 569999996 5 99999999974
No 44
>PRK02277 orotate phosphoribosyltransferase-like protein; Provisional
Probab=40.21 E-value=63 Score=24.39 Aligned_cols=49 Identities=12% Similarity=0.153 Sum_probs=34.3
Q ss_pred HHHHHHHHHHhCCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhccCCCCCCCCCC
Q 039296 53 NLDQITQWILSHEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLTSHNFISPASDF 111 (116)
Q Consensus 53 ~l~~v~~~l~~k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls~~~~~~~~~~~ 111 (116)
+|-+=...|++++.+.|++.+.|. .|.+ -..||+.+....+.++..||+
T Consensus 6 ~l~~~a~~l~~~~~~~~~ia~el~-vs~~---------t~~~l~~~~~~~~~~~~~~~~ 54 (200)
T PRK02277 6 ELIEKAAELKNKGLSTGEIADELN-VSRE---------TATWLLTRAKKLEKAPAPKDI 54 (200)
T ss_pred HHHHHHHHHHHcCCChhhhhhhhc-chHH---------HHHHHHhcccCCCCCCCCCCE
Confidence 343444567899999999988775 5544 356888887777776666665
No 45
>PF14069 SpoVIF: Stage VI sporulation protein F
Probab=39.93 E-value=66 Score=21.49 Aligned_cols=47 Identities=23% Similarity=0.408 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 18 FGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 18 FgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
|....+|+-+|+=+| ++||+| +. -+.-+++++.+...++ -.|+..++
T Consensus 27 lqdE~~vR~lIk~vs-~~an~~-Vs--------~~~ed~IV~~I~~~~~-p~d~~~l~ 73 (79)
T PF14069_consen 27 LQDEKKVRQLIKQVS-QIANKP-VS--------KEQEDQIVQAIINQKI-PNDMNHLM 73 (79)
T ss_pred cccHHHHHHHHHHHH-HHhCCC-CC--------HHHHHHHHHHHHhCCC-CcCHHHHH
Confidence 455667788887765 677888 41 1223566777777777 55655554
No 46
>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=39.79 E-value=71 Score=19.45 Aligned_cols=30 Identities=13% Similarity=0.396 Sum_probs=22.0
Q ss_pred ccChhHHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 45 TFGIDALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 45 tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
.|.++++..+..+... ++.++++.++-.+|
T Consensus 38 ~yt~~di~~l~~i~~l-~~~g~~l~~i~~~l 67 (68)
T cd04763 38 LFNDADIDRILEIKRW-IDNGVQVSKVKKLL 67 (68)
T ss_pred ccCHHHHHHHHHHHHH-HHcCCCHHHHHHHh
Confidence 4667777777765554 56999999988765
No 47
>PF07578 LAB_N: Lipid A Biosynthesis N-terminal domain; InterPro: IPR011499 This domain is found at the N terminus of a group of Chlamydial lipid A biosynthesis proteins. It is also found by itself in a family of proteins of unknown function.; GO: 0008915 lipid-A-disaccharide synthase activity, 0009245 lipid A biosynthetic process
Probab=39.60 E-value=27 Score=23.07 Aligned_cols=17 Identities=24% Similarity=0.616 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHhcCCCe
Q 039296 24 LKAIIQWLAASQASRPF 40 (116)
Q Consensus 24 LK~lIQwiAAS~Agr~~ 40 (116)
.++++||++.-.+++..
T Consensus 11 ~Rf~~QW~~SEk~k~sv 27 (72)
T PF07578_consen 11 SRFIVQWIYSEKAKKSV 27 (72)
T ss_pred HHHHHHHHHHHHcCCCC
Confidence 57999999999999874
No 48
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=39.48 E-value=1e+02 Score=24.50 Aligned_cols=62 Identities=10% Similarity=0.180 Sum_probs=47.7
Q ss_pred CCCHHHHHHHHHHHHH-hcCCCeEe-eeccChhHHH--HHHHHHHHHHhCCccHHHHHHHHHHHHH
Q 039296 19 GGDPELKAIIQWLAAS-QASRPFVL-YYTFGIDALQ--NLDQITQWILSHEWTVRDLWNMMVEYSS 80 (116)
Q Consensus 19 gGD~qLK~lIQwiAAS-~Agr~~l~-Y~tf~d~~l~--~l~~v~~~l~~k~~tVgdL~~~L~~y~~ 80 (116)
.|||.+...+.++-+- .+|.++|. =++|+|.-+. -+++-.+...+++.|+.++++.+.+..+
T Consensus 23 aG~P~~~~~~~~~~~l~~~Gad~iElGiPfSDP~aDGpvIq~a~~rAL~~g~~~~~~~~~~~~~r~ 88 (263)
T CHL00200 23 AGDPDIVITKKALKILDKKGADIIELGIPYSDPLADGPIIQEASNRALKQGINLNKILSILSEVNG 88 (263)
T ss_pred CCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCCccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 4899999999966655 56777432 2488887663 5777788888999999999999998853
No 49
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=39.01 E-value=91 Score=25.78 Aligned_cols=54 Identities=15% Similarity=0.195 Sum_probs=36.5
Q ss_pred ceeccccCCccCCCCH-HHHHHHHHHHHHhcCCCeEeee-ccCh--hHH-HHHHHHHHHHHhCC
Q 039296 7 GIATGNWGCGAFGGDP-ELKAIIQWLAASQASRPFVLYY-TFGI--DAL-QNLDQITQWILSHE 65 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD~-qLK~lIQwiAAS~Agr~~l~Y~-tf~d--~~l-~~l~~v~~~l~~k~ 65 (116)
.|.-.+|||=.+.++- .+|-.+ ..+|+|+|..- .+.+ .++ .+++.+++.|.++.
T Consensus 317 VI~~~~kfC~~~~~e~~~lk~~l-----~e~GIP~L~iE~D~~~~~gQi~TRlEAFlEml~~~~ 375 (377)
T TIGR03190 317 AIFLQQKFCDPHEGDYPDLKRHL-----EANGIPTLFLEFDITNPIGPFRIRIEAFLETLSEEE 375 (377)
T ss_pred EEEecccCCCcchhhhHHHHHHH-----HHCCCCEEEEecCCCCchHHHHHHHHHHHHHHhhcc
Confidence 5777899999999985 666654 45799966431 2222 344 47888888886653
No 50
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=37.87 E-value=60 Score=19.12 Aligned_cols=24 Identities=8% Similarity=0.356 Sum_probs=19.1
Q ss_pred HHHHHHHHhCCccHHHHHHHHHHH
Q 039296 55 DQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 55 ~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
.-++++|+.++|.|.+=+.+|.+|
T Consensus 32 ~~llRFLRARkf~v~~A~~mL~~t 55 (55)
T PF03765_consen 32 NFLLRFLRARKFDVEKAFKMLKKT 55 (55)
T ss_dssp HHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHccCCHHHHHHHHHhC
Confidence 456789999999999999988764
No 51
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=37.19 E-value=30 Score=20.07 Aligned_cols=41 Identities=10% Similarity=0.077 Sum_probs=28.3
Q ss_pred CCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhccCCC
Q 039296 64 HEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLTSHNF 104 (116)
Q Consensus 64 k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls~~~~ 104 (116)
+.+|+.+|..+-.++.=...++..+..|..-|++.-.++++
T Consensus 3 ~~~~~~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~q~~~~g 43 (43)
T PF07498_consen 3 KSMTLSELREIAKELGIEGYSKMRKQELIFAILKAQAEQGG 43 (43)
T ss_dssp HCS-HHHHHHHHHCTT-TTGCCS-HHHHHHHHHHHHCTSTS
T ss_pred ccCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHHHHHHHcCC
Confidence 35688888888777765566677888888888887776653
No 52
>PF13289 SIR2_2: SIR2-like domain
Probab=36.90 E-value=88 Score=21.03 Aligned_cols=22 Identities=14% Similarity=0.381 Sum_probs=17.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhcC
Q 039296 14 GCGAFGGDPELKAIIQWLAASQAS 37 (116)
Q Consensus 14 GCGaFgGD~qLK~lIQwiAAS~Ag 37 (116)
||| .+|+.++.++.++......
T Consensus 93 Gys--~~D~~i~~~l~~~~~~~~~ 114 (143)
T PF13289_consen 93 GYS--FNDPDIRQLLRSALENSGK 114 (143)
T ss_pred EEC--CCCHHHHHHHHHHHHhccC
Confidence 777 5788888888888877766
No 53
>PF12993 DUF3877: Domain of unknown function, E. rectale Gene description (DUF3877); InterPro: IPR024539 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=36.50 E-value=25 Score=26.95 Aligned_cols=76 Identities=13% Similarity=0.245 Sum_probs=48.9
Q ss_pred CHHHHHHHHHHHHHhcCC--Ce--------EeeeccCh-hH-----H---HHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 21 DPELKAIIQWLAASQASR--PF--------VLYYTFGI-DA-----L---QNLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 21 D~qLK~lIQwiAAS~Agr--~~--------l~Y~tf~d-~~-----l---~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
..+++..+++..+....+ .+ .+++-... .+ . +-|+++++.+...+.|..+++++..+|.+.
T Consensus 45 ~~em~~~L~~f~~~~~~~lG~v~vs~k~eRFCf~IP~~g~~YVhe~~~~~eFik~lIe~v~~hgcT~e~I~~~F~~ys~~ 124 (175)
T PF12993_consen 45 EEEMQEALEEFPEYVKDRLGEVEVSHKGERFCFHIPEEGSEYVHEHTKENEFIKELIELVGKHGCTLEDILELFHKYSDN 124 (175)
T ss_pred HHHHHHHHHHhHHHHHhhhccEEEEecCcEEEEEcCcHHHHHHHhcCCCCHHHHHHHHHHhcCCcCHHHHHHHHHHhcCC
Confidence 477888888887776544 11 11111111 01 1 137888999999999999999999999876
Q ss_pred hhcCCCcchhHHhhh
Q 039296 82 RLNGRTNLGFFAWLL 96 (116)
Q Consensus 82 ~~~~~~~~~lf~wLl 96 (116)
..-+....+=||++.
T Consensus 125 ~~~e~~~~~eFD~~i 139 (175)
T PF12993_consen 125 VHCEEMDNGEFDYLI 139 (175)
T ss_pred eEEEeecCCCCCEEE
Confidence 544444455566553
No 54
>PRK11052 malQ 4-alpha-glucanotransferase; Provisional
Probab=36.18 E-value=16 Score=33.17 Aligned_cols=21 Identities=48% Similarity=0.938 Sum_probs=18.4
Q ss_pred cccCCccCCCCHHHHHHHHHHHHH
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
++||+|-| || |+.++-|+|++
T Consensus 157 ~~~GIGDf-gd--l~~l~d~~a~~ 177 (695)
T PRK11052 157 HNWGIGDF-GD--LKQMLEDVAKR 177 (695)
T ss_pred CCCCeecH-HH--HHHHHHHHHHc
Confidence 59999999 45 99999999965
No 55
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=35.85 E-value=97 Score=18.52 Aligned_cols=32 Identities=13% Similarity=0.335 Sum_probs=22.9
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
+..|++.++..+..+... ++.++++.++-.+|
T Consensus 36 ~r~y~~~dl~~l~~i~~l-r~~g~~~~~i~~~l 67 (70)
T smart00422 36 YRLYSDEDLERLRFIKRL-KELGFSLEEIKELL 67 (70)
T ss_pred CEecCHHHHHHHHHHHHH-HHcCCCHHHHHHHH
Confidence 344666677777665554 67999999988776
No 56
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=35.39 E-value=38 Score=29.91 Aligned_cols=43 Identities=23% Similarity=0.505 Sum_probs=29.1
Q ss_pred HHHHHHHHHhc---------CCCeEeee------ccCh--hH-HHHHHHHHHHHHhCCccH
Q 039296 26 AIIQWLAASQA---------SRPFVLYY------TFGI--DA-LQNLDQITQWILSHEWTV 68 (116)
Q Consensus 26 ~lIQwiAAS~A---------gr~~l~Y~------tf~d--~~-l~~l~~v~~~l~~k~~tV 68 (116)
+.+-||=+-+. .+|.++|| -|+| +. ++++++|++.+|+|++-|
T Consensus 233 TFLLwLLsELfe~LPEvGD~dkPklVfFfDEAHLLF~da~kall~~ieqvvrLIRSKGVGv 293 (502)
T PF05872_consen 233 TFLLWLLSELFEQLPEVGDLDKPKLVFFFDEAHLLFNDAPKALLDKIEQVVRLIRSKGVGV 293 (502)
T ss_pred HHHHHHHHHHHHhCccCCCCCCceEEEEEechhhhhcCCCHHHHHHHHHHHHHhhccCceE
Confidence 45667766653 45655554 3554 22 368999999999999865
No 57
>PLN02950 4-alpha-glucanotransferase
Probab=35.15 E-value=42 Score=31.53 Aligned_cols=21 Identities=33% Similarity=0.714 Sum_probs=18.3
Q ss_pred cccCCccCCCCHHHHHHHHHHHHH
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
.+||||-| | .|+.++.|+|++
T Consensus 275 ~s~GIGDf-~--dl~~~id~~a~~ 295 (909)
T PLN02950 275 EDVGVGEF-L--DLKLLVDWAVKS 295 (909)
T ss_pred CCCCeeCH-H--HHHHHHHHHHHc
Confidence 57999999 3 799999999984
No 58
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=35.05 E-value=38 Score=23.06 Aligned_cols=24 Identities=17% Similarity=0.169 Sum_probs=15.8
Q ss_pred ccCh-hH----H-HHHHHHHHHHHhCCccH
Q 039296 45 TFGI-DA----L-QNLDQITQWILSHEWTV 68 (116)
Q Consensus 45 tf~d-~~----l-~~l~~v~~~l~~k~~tV 68 (116)
||+| ++ + +++++.-+.+++||++|
T Consensus 62 tFnDcpeA~~eL~~eI~eAK~dLr~kGv~~ 91 (91)
T PF08285_consen 62 TFNDCPEAAKELQKEIKEAKADLRKKGVDV 91 (91)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 8887 32 2 34566667788888764
No 59
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=34.72 E-value=81 Score=26.84 Aligned_cols=54 Identities=17% Similarity=0.198 Sum_probs=34.4
Q ss_pred ceeccccCCccCCCC-HHHHHHHHHHHHHhcCCCeEeee-ccCh------hHH-HHHHHHHHHHHhCC
Q 039296 7 GIATGNWGCGAFGGD-PELKAIIQWLAASQASRPFVLYY-TFGI------DAL-QNLDQITQWILSHE 65 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD-~qLK~lIQwiAAS~Agr~~l~Y~-tf~d------~~l-~~l~~v~~~l~~k~ 65 (116)
.|.-.+|||=.+.+. ..+|-.++ .+|+|.|.+- .+.| .+. .+++.+++.|.+++
T Consensus 365 VI~~~~~~C~~~s~e~~~ik~~l~-----~~GIP~L~ietD~~d~r~~~q~qt~TRieAFlEmL~~~~ 427 (430)
T TIGR03191 365 CMLHLNRGCEGLSIGIMENRLAIA-----KAGIPIMTFEGNMGDEREFDEVRTQARVDAFMEQLGLRR 427 (430)
T ss_pred EEEcCCCCCccchHhHHHHHHHHH-----HcCCCEEEEECCCCCCcchhHHHHHHHHHHHHHHHHhhh
Confidence 577889999999755 44454443 3699976442 2222 222 36888888887664
No 60
>PTZ00445 p36-lilke protein; Provisional
Probab=34.66 E-value=64 Score=25.57 Aligned_cols=43 Identities=14% Similarity=0.088 Sum_probs=29.2
Q ss_pred CceeccccCCcc-------CCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHH
Q 039296 6 PGIATGNWGCGA-------FGGDPELKAIIQWLAASQASRPFVLYYTFGIDAL 51 (116)
Q Consensus 6 ~~I~TGnWGCGa-------FgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l 51 (116)
++++||-|.=.. =.+.|++|.+++ ++..+|.++ ..-||+|+..
T Consensus 55 I~~HsgG~~~~~~~~~~~~~~~tpefk~~~~--~l~~~~I~v-~VVTfSd~~~ 104 (219)
T PTZ00445 55 ITKHSGGYIDPDNDDIRVLTSVTPDFKILGK--RLKNSNIKI-SVVTFSDKEL 104 (219)
T ss_pred hhhhcccccCCCcchhhhhccCCHHHHHHHH--HHHHCCCeE-EEEEccchhh
Confidence 457788665443 126788888654 445689994 4779999755
No 61
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=33.90 E-value=66 Score=21.50 Aligned_cols=36 Identities=6% Similarity=0.154 Sum_probs=23.7
Q ss_pred HHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCC
Q 039296 27 IIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHE 65 (116)
Q Consensus 27 lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~ 65 (116)
|.+.|++ ..|.+. .|||.+.+.+. +.++++++.+|+
T Consensus 25 L~~ai~~-~FG~~a-rFhTCSae~m~-a~eLv~FL~~rg 60 (78)
T PF10678_consen 25 LKAAIIE-KFGEDA-RFHTCSAEGMT-ADELVDFLEERG 60 (78)
T ss_pred HHHHHHH-HhCCCc-eEEecCCCCCC-HHHHHHHHHHcC
Confidence 4555554 458884 59999977663 456677776665
No 62
>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=33.71 E-value=1e+02 Score=18.57 Aligned_cols=30 Identities=10% Similarity=0.339 Sum_probs=21.6
Q ss_pred ccChhHHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 45 TFGIDALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 45 tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
.|..+++..+..+... ++.++++.++-.+|
T Consensus 37 ~y~~~~l~~l~~i~~l-~~~g~~l~~i~~~l 66 (67)
T cd04764 37 YYTDEDIELLKKIKTL-LEKGLSIKEIKEIL 66 (67)
T ss_pred eeCHHHHHHHHHHHHH-HHCCCCHHHHHHHh
Confidence 4666677777765554 45999999988765
No 63
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, 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 dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=33.23 E-value=97 Score=20.79 Aligned_cols=32 Identities=16% Similarity=0.224 Sum_probs=24.8
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
|.-|++.++..+. ++..+++.+.++.++..++
T Consensus 36 ~R~Y~~~~l~~l~-~I~~l~~~G~~l~ei~~~l 67 (102)
T cd04789 36 YRLYPDSDLQRLL-LIQQLQAGGLSLKECLACL 67 (102)
T ss_pred CeeCCHHHHHHHH-HHHHHHHCCCCHHHHHHHH
Confidence 4457777787776 6777889999999987765
No 64
>cd08793 Death_IRAK4 Death domain of Interleukin-1 Receptor-Associated Kinase 4. Death Domain (DD) of Interleukin-1 Receptor-Associated Kinase 4 (IRAK4). IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. They are involved in signal transduction pathways involving IL-1 and IL-18 receptors, Toll-like receptors, nuclear factor-kappaB, and mitogen-activated protein kinases. IRAKs contain an N-terminal DD domain and a C-terminal kinase domain. IRAK4 is an active kinase that is also involved in T-cell receptor signaling pathways, implying that it may function in acquired immunity and not just in innate immunity. It is known as the master IRAK member because its absence strongly impairs TLR- and IL-1-mediated signaling and innate immune defenses, while the absence of other IRAK proteins only shows slight effects. IRAK4-deficient patients have impaired inflammatory responses and recurrent life-threatening infections. DDs are protein-protein int
Probab=33.18 E-value=92 Score=21.76 Aligned_cols=17 Identities=24% Similarity=0.372 Sum_probs=14.0
Q ss_pred HhCCccHHHHHHHHHHH
Q 039296 62 LSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 62 ~~k~~tVgdL~~~L~~y 78 (116)
...+-||++|+++|.+-
T Consensus 67 gt~N~TV~~L~~lL~k~ 83 (100)
T cd08793 67 GTTNCTVGDLVDLLIQN 83 (100)
T ss_pred ccCCCcHHHHHHHHHHc
Confidence 35888999999999754
No 65
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=32.43 E-value=87 Score=22.43 Aligned_cols=39 Identities=26% Similarity=0.413 Sum_probs=24.0
Q ss_pred CCCHHHHHHHHHHHHHhcC-CCeEeeec-cChhHHHHHHHH
Q 039296 19 GGDPELKAIIQWLAASQAS-RPFVLYYT-FGIDALQNLDQI 57 (116)
Q Consensus 19 gGD~qLK~lIQwiAAS~Ag-r~~l~Y~t-f~d~~l~~l~~v 57 (116)
+.||+-.++-.++.+--.. -+.++|.. |+...+++|.++
T Consensus 53 ~~DPr~~~~~~L~~~i~~~~g~ivvyN~sfE~~rL~ela~~ 93 (130)
T PF11074_consen 53 GEDPRRELIEALIKAIGSIYGSIVVYNKSFEKTRLKELAEL 93 (130)
T ss_pred CCCchHHHHHHHHHHhhhhcCeEEEechHHHHHHHHHHHHH
Confidence 5788877666666665555 56666664 555555554444
No 66
>KOG2653 consensus 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]
Probab=32.15 E-value=3e+02 Score=24.07 Aligned_cols=22 Identities=32% Similarity=0.499 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHhc-CCCeEee
Q 039296 22 PELKAIIQWLAASQA-SRPFVLY 43 (116)
Q Consensus 22 ~qLK~lIQwiAAS~A-gr~~l~Y 43 (116)
|.+|-+.|=|||... |-|+..|
T Consensus 154 p~ik~ifq~iaakv~~~epCc~w 176 (487)
T KOG2653|consen 154 PHIKDIFQKIAAKVSDGEPCCDW 176 (487)
T ss_pred HHHHHHHHHHHHHhcCCCCCeee
Confidence 679999999999874 4776544
No 67
>cd02663 Peptidase_C19G A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=31.82 E-value=1.2e+02 Score=23.66 Aligned_cols=63 Identities=13% Similarity=0.156 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCC-----ccHHHHHHHHHHHHHhh--hcCCCcchhHHhhhh
Q 039296 25 KAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHE-----WTVRDLWNMMVEYSSQR--LNGRTNLGFFAWLLP 97 (116)
Q Consensus 25 K~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~-----~tVgdL~~~L~~y~~~~--~~~~~~~~lf~wLl~ 97 (116)
=++||.+.. +.-+..|.++...+...+ ++..++.++|..+.+.- ..-.+...++.+||+
T Consensus 12 NsvLQ~L~~--------------~~l~~~L~~lf~~l~~~~~~~~~isP~~f~~~l~~~~~~f~~~~QqDA~EFl~~lLd 77 (300)
T cd02663 12 NSVLQALYF--------------ENLLTCLKDLFESISEQKKRTGVISPKKFITRLKRENELFDNYMHQDAHEFLNFLLN 77 (300)
T ss_pred hHHHHHhhh--------------HHHHHHHHHHHHHHHhCCCCCeeECHHHHHHHHHhhcCCCCCCccccHHHHHHHHHH
Confidence 357777753 333456777776665432 57889999987654321 112356778888887
Q ss_pred hhcc
Q 039296 98 SLTS 101 (116)
Q Consensus 98 ~ls~ 101 (116)
.+.+
T Consensus 78 ~l~~ 81 (300)
T cd02663 78 EIAE 81 (300)
T ss_pred HHHH
Confidence 7644
No 68
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, 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 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.
Probab=31.46 E-value=1.5e+02 Score=20.10 Aligned_cols=35 Identities=14% Similarity=0.304 Sum_probs=25.8
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
|-.|++.++..+.. +..+++-|+++.++-.++..+
T Consensus 35 ~R~Y~~~~~~~l~~-I~~lr~~G~sl~eI~~~l~~~ 69 (112)
T cd01282 35 YRDYDEAAVDRVRQ-IRRLLAAGLTLEEIREFLPCL 69 (112)
T ss_pred CeecCHHHHHHHHH-HHHHHHcCCCHHHHHHHHHHh
Confidence 44567767766654 455688999999999988665
No 69
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=31.38 E-value=92 Score=22.41 Aligned_cols=13 Identities=0% Similarity=0.125 Sum_probs=5.4
Q ss_pred ccHHHHHHHHHHH
Q 039296 66 WTVRDLWNMMVEY 78 (116)
Q Consensus 66 ~tVgdL~~~L~~y 78 (116)
++..-+|+.|..+
T Consensus 53 islaTVYr~L~~l 65 (145)
T COG0735 53 ISLATVYRTLKLL 65 (145)
T ss_pred CCHhHHHHHHHHH
Confidence 3334444444443
No 70
>PRK03995 hypothetical protein; Provisional
Probab=31.20 E-value=30 Score=27.90 Aligned_cols=27 Identities=26% Similarity=0.585 Sum_probs=22.2
Q ss_pred eccccCCccCCCCHH---------HHHHHHHHHHHh
Q 039296 9 ATGNWGCGAFGGDPE---------LKAIIQWLAASQ 35 (116)
Q Consensus 9 ~TGnWGCGaFgGD~q---------LK~lIQwiAAS~ 35 (116)
.|||||=-.|||+|. .|.+++-|.-..
T Consensus 86 ~tGN~~~a~~GG~p~~la~a~P~~~~~lL~~l~~~~ 121 (267)
T PRK03995 86 TPGNPGEASYGGKPKELAIANPRLMTSLLRNLKKLA 121 (267)
T ss_pred CCCCCchhhcCCCCCccccCCHHHHHHHHHHHHHhc
Confidence 589997767999987 999999886554
No 71
>cd08307 Death_Pelle Death domain of the protein kinase Pelle. Death domain (DD) of the protein kinase Pelle from Drosophila melanogaster and simlar proteins. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and in mediating innate immune responses to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Pelle also functions in photoreceptor axon targeting. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=30.95 E-value=78 Score=21.78 Aligned_cols=21 Identities=10% Similarity=0.143 Sum_probs=16.1
Q ss_pred HHHHHhCCccHHHHHHHHHHH
Q 039296 58 TQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 58 ~~~l~~k~~tVgdL~~~L~~y 78 (116)
...--++|-||++|+++|.+-
T Consensus 57 L~~WG~~n~Tv~~L~~~L~k~ 77 (97)
T cd08307 57 LDIWGNKNHTITELFVLLYRE 77 (97)
T ss_pred HHHHhhcCCCHHHHHHHHHHh
Confidence 334457899999999999754
No 72
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=30.69 E-value=2.2e+02 Score=20.90 Aligned_cols=58 Identities=7% Similarity=0.268 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 21 DPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 21 D~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
+.+++.+++.|.-. .+-|+++.|.-|..+.--+-.+++++ ++|+...+++...+|...
T Consensus 76 ~~~v~~aL~~ild~-~n~PvLiHC~~G~~rTG~vvg~lRk~--Q~W~~~~i~~Ey~~f~~~ 133 (164)
T PF03162_consen 76 EEQVAEALEIILDP-RNYPVLIHCNHGKDRTGLVVGCLRKL--QGWSLSSIFDEYRRFAGP 133 (164)
T ss_dssp HHHHHHHHHHHH-G-GG-SEEEE-SSSSSHHHHHHHHHHHH--TTB-HHHHHHHHHHHHGG
T ss_pred HHHHHHHHHHHhCC-CCCCEEEEeCCCCcchhhHHHHHHHH--cCCCHHHHHHHHHHhcCC
Confidence 56777777877544 46698777777765554455666654 899999999999888655
No 73
>PTZ00494 tuzin-like protein; Provisional
Probab=30.58 E-value=64 Score=29.10 Aligned_cols=68 Identities=15% Similarity=0.077 Sum_probs=45.8
Q ss_pred CCCceeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHh
Q 039296 4 DLPGIATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEW-TVRDLWNMMVEYSSQ 81 (116)
Q Consensus 4 ~~~~I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~-tVgdL~~~L~~y~~~ 81 (116)
+++.|.||.-||| |..+=-=|-..-++|.+ |-.-...| .-|.-|++.+.-.++ ..||+++.+.+-|..
T Consensus 395 PRIvV~TG~~GcG--------KSslcRsAvrkE~~paV-~VDVRg~E-DtLrsVVKALgV~nve~CGDlLdFI~ea~~~ 463 (664)
T PTZ00494 395 PRIVALAGGSGGG--------RCVPCRRAVRVEGVALV-HVDVGGTE-DTLRSVVRALGVSNVEVCGDLLGFVEEAMRG 463 (664)
T ss_pred CcEEEEecCCCCC--------chHHHHHHHHHcCCCeE-EEEecCCc-chHHHHHHHhCCCChhhhccHHHHHHHHHHH
Confidence 5678999999999 56666666677788854 43222111 126777777766666 568888888776654
No 74
>cd08309 Death_IRAK Death domain of Interleukin-1 Receptor-Associated Kinases. Death Domains (DDs) found in Interleukin-1 (IL-1) Receptor-Associated Kinases (IRAK1-4) and similar proteins. IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. All four types are involved in signal transduction involving IL-1 and IL-18 receptors, Toll-like receptors, nuclear factor-kappaB, and mitogen-activated protein kinase pathways. IRAK1 and IRAK4 are active kinases while IRAK2 and IRAK-M (also called IRAK3) are inactive. In general, IRAKs are expressed ubiquitously, except for IRAK-M which is detected only in macrophages. The insect homologs, Pelle and Tube, are important components of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and also in the innate immune response. Most members have an N-terminal DD followed by a kinase domain. In general, DDs are protein-protein interaction domains found in a variety of domain a
Probab=30.53 E-value=82 Score=21.13 Aligned_cols=22 Identities=23% Similarity=0.170 Sum_probs=16.8
Q ss_pred HHHHHHhCCccHHHHHHHHHHH
Q 039296 57 ITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 57 v~~~l~~k~~tVgdL~~~L~~y 78 (116)
+.+.-..++-||++|+++|.+-
T Consensus 64 LL~~W~~~~~Tv~~L~~~L~~~ 85 (95)
T cd08309 64 LLWDWGTQNATVQDLVQVLVQL 85 (95)
T ss_pred HHHHHHhcCCCHHHHHHHHHHc
Confidence 3444457899999999999764
No 75
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=30.52 E-value=1.3e+02 Score=19.74 Aligned_cols=33 Identities=18% Similarity=0.389 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+.+|++||+.+.+..++..+.+.+. .++|...
T Consensus 9 al~~LE~IV~~LE~g~l~Leesl~lyeeG~~L~k~C~~~ 47 (75)
T PRK14066 9 ALKKLEEVVKKLEGGELSLDDSLKAFEEGVKHAAFCSKK 47 (75)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999988765 4666553
No 76
>cd07292 PX_SNX6 The phosphoinositide binding Phox Homology domain of Sorting Nexin 6. 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. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transfo
Probab=30.43 E-value=38 Score=25.15 Aligned_cols=29 Identities=24% Similarity=0.389 Sum_probs=22.2
Q ss_pred CCcchhHHhhhhhhccC--------CCCCCCCCCCCC
Q 039296 86 RTNLGFFAWLLPSLTSH--------NFISPASDFNYP 114 (116)
Q Consensus 86 ~~~~~lf~wLl~~ls~~--------~~~~~~~~~~~~ 114 (116)
+.+.+=|.||++.|.++ ++.|+-+|+.-|
T Consensus 38 ~RRysDF~wL~~~L~e~~~~~G~IVPPlP~K~~~~~~ 74 (141)
T cd07292 38 VRQHEEFIWLHDSFVENEDYAGYIIPPAPPRPDFDAS 74 (141)
T ss_pred EeccHhHHHHHHHHhhcccCCcEEECCCCCCccccch
Confidence 45789999999999987 456666777544
No 77
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=30.36 E-value=76 Score=21.22 Aligned_cols=36 Identities=11% Similarity=0.213 Sum_probs=23.9
Q ss_pred HHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCC
Q 039296 27 IIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHE 65 (116)
Q Consensus 27 lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~ 65 (116)
|+++|.+. .|... .|||.+-+.+. +.++++++.+|+
T Consensus 23 L~~~i~~~-FG~~a-rFhTCSa~~m~-a~~Li~FL~~kg 58 (77)
T TIGR03853 23 LKAAIEQK-FGEDA-RFHTCSAEGMT-ADELLQFLLKKG 58 (77)
T ss_pred HHHHHHHH-hCCCc-eEeecccccCC-HHHHHHHHHHCC
Confidence 45666654 48784 59999876663 456677776665
No 78
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.34 E-value=1.1e+02 Score=22.43 Aligned_cols=30 Identities=17% Similarity=0.261 Sum_probs=21.6
Q ss_pred cChhHHHH-HHHHHHHHHhCC-ccHHHHHHHH
Q 039296 46 FGIDALQN-LDQITQWILSHE-WTVRDLWNMM 75 (116)
Q Consensus 46 f~d~~l~~-l~~v~~~l~~k~-~tVgdL~~~L 75 (116)
|.+++-++ ..+|++++++++ +|++|+-...
T Consensus 5 ~T~eer~eLk~rIvElVRe~GRiTi~ql~~~T 36 (127)
T PF06163_consen 5 FTPEEREELKARIVELVREHGRITIKQLVAKT 36 (127)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCccHHHHHHHH
Confidence 44544443 458889998877 8999997765
No 79
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=30.29 E-value=1.3e+02 Score=19.07 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+++|++|++.+.+..++..+..... .++|...
T Consensus 6 ~l~~Le~Iv~~LE~~~l~Leesl~lyeeG~~L~k~c~~~ 44 (67)
T TIGR01280 6 ALSELEQIVQKLESGDLALEEALNLFERGMALARRCEKK 44 (67)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999987764 4666553
No 80
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=30.15 E-value=56 Score=26.96 Aligned_cols=14 Identities=14% Similarity=0.069 Sum_probs=5.5
Q ss_pred cChhHHHHHHHHHH
Q 039296 46 FGIDALQNLDQITQ 59 (116)
Q Consensus 46 f~d~~l~~l~~v~~ 59 (116)
..++++++++++.+
T Consensus 374 p~~~~~~~~~~~g~ 387 (394)
T PRK11921 374 PDDEALDRCRSFGE 387 (394)
T ss_pred CCHHHHHHHHHHHH
Confidence 33334444444333
No 81
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=30.03 E-value=1.3e+02 Score=19.83 Aligned_cols=33 Identities=15% Similarity=0.272 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+++|++|++.+....+++.+..... .++|...
T Consensus 15 a~~~LEeIv~~LE~~~l~Lees~~lyeeg~~L~k~C~~~ 53 (80)
T PRK00977 15 ALAELEEIVTRLESGDLPLEESLAAFERGVALARQCQKK 53 (80)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999988765 4666553
No 82
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=29.91 E-value=1.6e+02 Score=19.10 Aligned_cols=48 Identities=13% Similarity=0.257 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhCC---ccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhccCCC
Q 039296 50 ALQNLDQITQWILSHE---WTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLTSHNF 104 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~---~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls~~~~ 104 (116)
....|..+|+.+++++ +|+.||.+.+... .....+..||.+...-+|+
T Consensus 7 ~~t~l~~aV~ymK~r~~~Plt~~EIl~~ls~~-------d~~~~~~~~L~~~~~~~n~ 57 (75)
T cd07977 7 VFTQLAKIVDYMKKRHQHPLTLDEILDYLSLL-------DIGPKLKEWLKSEALVNNP 57 (75)
T ss_pred hhhhHHHHHHHHHhcCCCCccHHHHHHHHhcc-------CccHHHHHHHHhhhhccCc
Confidence 3456888999999888 6888887766542 1235677888766555433
No 83
>PLN02635 disproportionating enzyme
Probab=29.84 E-value=39 Score=29.92 Aligned_cols=25 Identities=32% Similarity=0.715 Sum_probs=19.9
Q ss_pred cccCCccCCCCHHHHHHHHHHHHHhcCCC
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAASQASRP 39 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAAS~Agr~ 39 (116)
|+||+|-|| +..+.++-|+|+ +|-.
T Consensus 41 s~~GIGDfg--~~a~~fvd~la~--~G~~ 65 (538)
T PLN02635 41 GPYGIGDLG--DEAFRFLDWLAS--TGCS 65 (538)
T ss_pred CCCCCcchH--HHHHHHHHHHHH--cCCC
Confidence 799999998 556678999997 4544
No 84
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, 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 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, an
Probab=29.57 E-value=1.2e+02 Score=20.83 Aligned_cols=34 Identities=9% Similarity=0.184 Sum_probs=26.2
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
|--|+++++..+. ++..+++-+.++.++-+++..
T Consensus 35 yR~Y~~~~l~~l~-~I~~lr~~G~~L~eI~~~l~~ 68 (120)
T cd04781 35 RRQYDPQVLDRLA-LIALGRAAGFSLDEIQAMLSH 68 (120)
T ss_pred ceecCHHHHHHHH-HHHHHHHcCCCHHHHHHHHhc
Confidence 4446777777775 678888999999999887754
No 85
>PRK14067 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.52 E-value=1.3e+02 Score=19.91 Aligned_cols=33 Identities=9% Similarity=0.172 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+++|++|++.+....+++-+.+... .++|...
T Consensus 12 al~~LEeIV~~LE~~~l~Lees~~lyeeG~~L~k~C~~~ 50 (80)
T PRK14067 12 QLARLQEIVDALEGGDLPLEESVALYKEGLGLARACREQ 50 (80)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999999988764 5777664
No 86
>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain. This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.
Probab=29.25 E-value=1.5e+02 Score=23.41 Aligned_cols=22 Identities=27% Similarity=0.498 Sum_probs=18.1
Q ss_pred cCCCCHH-HHHHHHHHHHHhcCC
Q 039296 17 AFGGDPE-LKAIIQWLAASQASR 38 (116)
Q Consensus 17 aFgGD~q-LK~lIQwiAAS~Agr 38 (116)
.|.||+. .++++||+++++.+.
T Consensus 50 ~~~~d~~~~~~l~~~lg~~L~~~ 72 (304)
T TIGR01613 50 TFGGDNELIEYLQRVIGYSLTGN 72 (304)
T ss_pred HhCCCHHHHHHHHHHHhHHhcCC
Confidence 4788985 778889999999994
No 87
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.23 E-value=1.4e+02 Score=19.54 Aligned_cols=33 Identities=15% Similarity=0.282 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+.+|++||+.|.+..++..+.+... .++|...
T Consensus 11 ~l~~LE~IV~~LE~~~l~Leesl~~ye~G~~L~k~c~~~ 49 (75)
T PRK14064 11 AIAELETIVEALENGSASLEDSLDMYQKGIELTKLCQDK 49 (75)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 56889999999999999999988764 4666554
No 88
>PRK14510 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional
Probab=29.16 E-value=38 Score=32.73 Aligned_cols=21 Identities=43% Similarity=0.884 Sum_probs=19.3
Q ss_pred cccCCccCCCCHHHHHHHHHHHHH
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
++||||-| +.|+.++.|+|++
T Consensus 738 ~~~GiGDf---~dl~~~vd~~a~~ 758 (1221)
T PRK14510 738 RPWGIGDF---EELYALVDFLAEG 758 (1221)
T ss_pred CCCCccCH---HHHHHHHHHHHHc
Confidence 59999999 8999999999984
No 89
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=29.01 E-value=2.1e+02 Score=23.26 Aligned_cols=63 Identities=16% Similarity=0.254 Sum_probs=48.9
Q ss_pred CCCHHHHHHHHHHHH-HhcCCCeEe-eeccChhHHH--HHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 19 GGDPELKAIIQWLAA-SQASRPFVL-YYTFGIDALQ--NLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 19 gGD~qLK~lIQwiAA-S~Agr~~l~-Y~tf~d~~l~--~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
.|||-+...+..|=+ -.+|.+.|. =++|+|.-.. -++.-.....++++|..+.++++.++.+.
T Consensus 25 ~GdP~~e~s~e~i~~L~~~GaD~iELGvPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~ 91 (265)
T COG0159 25 AGDPDLETSLEIIKTLVEAGADILELGVPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAK 91 (265)
T ss_pred CCCCCHHHHHHHHHHHHhCCCCEEEecCCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhc
Confidence 588888888888765 677777332 2478887663 57888888889999999999999998655
No 90
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=28.75 E-value=53 Score=28.14 Aligned_cols=57 Identities=19% Similarity=0.259 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHH-HHHHHHHHHHHhCCccHHHHHHHH
Q 039296 18 FGGDPELKAIIQWLAASQASRPFVLYYTFGIDAL-QNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 18 FgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l-~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
..|+.-++.+++-|.++.-.+- |.||.|.+..+ +++.+....-.++|+.|.=|++.+
T Consensus 122 ~~g~~~~~~l~~~I~~Ak~~I~-l~~yi~~~d~~g~~i~~aL~~aa~rGV~VriL~D~~ 179 (483)
T PRK01642 122 TNGDETFQAIIRDIELARHYIL-MEFYIWRPDGLGDQVAEALIAAAKRGVRVRLLYDSI 179 (483)
T ss_pred cCHHHHHHHHHHHHHHhhcEEE-EEEEEEccCCcHHHHHHHHHHHHHCCCEEEEEEECC
Confidence 4677788999999998887777 56888886544 556555555557888887777644
No 91
>COG3033 TnaA Tryptophanase [Amino acid transport and metabolism]
Probab=28.63 E-value=2.3e+02 Score=24.74 Aligned_cols=64 Identities=16% Similarity=0.425 Sum_probs=42.5
Q ss_pred cCCCCHHHHHHHHHHHHHhc-CCCeEeeeccChh-------HHHHHHHHHHHH---------------------Hh----
Q 039296 17 AFGGDPELKAIIQWLAASQA-SRPFVLYYTFGID-------ALQNLDQITQWI---------------------LS---- 63 (116)
Q Consensus 17 aFgGD~qLK~lIQwiAAS~A-gr~~l~Y~tf~d~-------~l~~l~~v~~~l---------------------~~---- 63 (116)
.|.||-.|.-|-|.|=.-=+ ++|.| +.|-..+ .+++++++.+.. ++
T Consensus 164 pFKGd~D~~kLe~lidevG~~nvp~I-~~tiT~NsagGQpVSm~n~r~v~~ia~ky~ipvv~Da~RfaENaYFIk~rE~g 242 (471)
T COG3033 164 PFKGNFDLEKLERLIDEVGADNVPYI-VLTITNNSAGGQPVSMANMKAVYEIAKKYDIPVVMDAARFAENAYFIKQREPG 242 (471)
T ss_pred CCCCccCHHHHHHHHHHhCcccCcEE-EEEEeccccCCCcchHHhHHHHHHHHHHcCCcEEeehhhhhhhhhhhhhcCcc
Confidence 49999999999999865444 48865 5543321 234444443332 21
Q ss_pred -CCccHHHHHHHHHHHHHh
Q 039296 64 -HEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 64 -k~~tVgdL~~~L~~y~~~ 81 (116)
++|||.++-+.+.+|+.-
T Consensus 243 Yrd~sI~~IarEm~sYaD~ 261 (471)
T COG3033 243 YRDWSIEEIAREMYSYADG 261 (471)
T ss_pred cccccHHHHHHHHHhhhhh
Confidence 469999999999999855
No 92
>PHA02595 tk.4 hypothetical protein; Provisional
Probab=28.62 E-value=47 Score=24.14 Aligned_cols=38 Identities=29% Similarity=0.443 Sum_probs=24.6
Q ss_pred CceeccccCCccCCCC-HHHHHHHHHHHHHhcCCCeEeeeccC
Q 039296 6 PGIATGNWGCGAFGGD-PELKAIIQWLAASQASRPFVLYYTFG 47 (116)
Q Consensus 6 ~~I~TGnWGCGaFgGD-~qLK~lIQwiAAS~Agr~~l~Y~tf~ 47 (116)
..|+-=.-|||.+|+| .+++.+|.=. .-+.+..+| .|+
T Consensus 114 ~sIa~P~IG~GlgGl~W~~V~~ii~~~---~~~~~i~Vy-~~~ 152 (154)
T PHA02595 114 PTIYIPRIGAGIAGGDWDKIEAIIDEA---TPDIDIVVV-EYE 152 (154)
T ss_pred cEEeeCCCCccCCCCCHHHHHHHHHHh---cCCCcEEEE-Eec
Confidence 3566667899999999 5666666643 235564433 454
No 93
>PF09153 DUF1938: Domain of unknown function (DUF1938); InterPro: IPR015236 This domain, which is predominantly found in the archaeal protein O6-alkylguanine-DNA alkyltransferase, adopts a secondary structure consisting of a three stranded antiparallel beta-sheet and three alpha helices. The exact function has not, as yet, been defined, though it has been postulated that this domain may confer thermostability to the protein []. ; GO: 0005737 cytoplasm; PDB: 1MGT_A.
Probab=28.14 E-value=77 Score=21.68 Aligned_cols=26 Identities=4% Similarity=0.331 Sum_probs=17.3
Q ss_pred eccChhHH-H-HHHHHHHHHHhCCccHH
Q 039296 44 YTFGIDAL-Q-NLDQITQWILSHEWTVR 69 (116)
Q Consensus 44 ~tf~d~~l-~-~l~~v~~~l~~k~~tVg 69 (116)
|.++-.++ + ++..++.++++++++|.
T Consensus 29 fslDg~efl~eri~~L~~~L~kRgv~v~ 56 (86)
T PF09153_consen 29 FSLDGEEFLRERISRLIEFLKKRGVSVS 56 (86)
T ss_dssp EESSHHHHHH-HHHHHHHHHHHTT----
T ss_pred EEeccHHHHHHHHHHHHHHHHhcCceeE
Confidence 46665554 4 89999999999999884
No 94
>PF06648 DUF1160: Protein of unknown function (DUF1160); InterPro: IPR010594 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf75; it is a family of uncharacterised viral proteins.
Probab=27.84 E-value=1.2e+02 Score=21.88 Aligned_cols=28 Identities=29% Similarity=0.438 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
...+|.+|.++..++++++.++|+++..
T Consensus 35 f~~Kl~~Il~mFl~~eid~e~~y~l~~~ 62 (122)
T PF06648_consen 35 FLDKLIKILKMFLNDEIDVEDMYNLFGA 62 (122)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHhc
Confidence 3478999999999999999999999854
No 95
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=27.70 E-value=83 Score=18.79 Aligned_cols=37 Identities=8% Similarity=0.082 Sum_probs=27.6
Q ss_pred CCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhc
Q 039296 64 HEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLT 100 (116)
Q Consensus 64 k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls 100 (116)
+|.|-.++-+.+.+|..+......+.+++.=+++++.
T Consensus 9 ~GLs~~~v~~r~~~~G~N~l~~~~~~s~~~~~l~~~~ 45 (64)
T smart00831 9 SGLSSEEAARRLERYGPNELPPPKKRSPLLRFLRQFH 45 (64)
T ss_pred cCCCHHHHHHHHHHhCCCCCCCCCCCCHHHHHHHHHH
Confidence 4788888888888888776655566777777777664
No 96
>PRK10304 ferritin; Provisional
Probab=27.62 E-value=62 Score=23.91 Aligned_cols=45 Identities=18% Similarity=0.339 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhCCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhh
Q 039296 53 NLDQITQWILSHEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPS 98 (116)
Q Consensus 53 ~l~~v~~~l~~k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ 98 (116)
.+.++.+...+....|.+.++-+.+.|... .+.....|++|+++.
T Consensus 82 s~~e~~~~~l~~E~~vt~~i~~l~~~A~~~-~D~~t~~fl~~fl~E 126 (165)
T PRK10304 82 SLDELFQETYKHEQLITQKINELAHAAMTN-QDYPTFNFLQWYVSE 126 (165)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-CCHhHHHHHHHHHHH
Confidence 345555555555556666666666666553 233446666666643
No 97
>PF02446 Glyco_hydro_77: 4-alpha-glucanotransferase; InterPro: IPR003385 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The enzymes in this entry (2.4.1.25 from EC) belong to the glycoside hydrolase family 77 GH77 from CAZY, and transfer a segment of a (1,4)-alpha-D-glucan to a new 4-position in an acceptor, which may be glucose or (1,4)-alpha-D-glucan []. They belong to the disproportionating family of enzymes.; GO: 0004134 4-alpha-glucanotransferase activity, 0005975 carbohydrate metabolic process; PDB: 1TZ7_A 2X1I_A 2OWX_A 2OWW_A 1FP9_A 1CWY_A 1ESW_A 1FP8_A 2OWC_A 1X1N_A.
Probab=27.54 E-value=49 Score=28.59 Aligned_cols=23 Identities=39% Similarity=0.947 Sum_probs=14.4
Q ss_pred cccCCccCCCCHHHHHHHHHHHHHh
Q 039296 11 GNWGCGAFGGDPELKAIIQWLAASQ 35 (116)
Q Consensus 11 GnWGCGaFgGD~qLK~lIQwiAAS~ 35 (116)
.+||||-||. .++.++.|++.+=
T Consensus 10 ~~~GIGDfg~--dl~~~~d~~~~~G 32 (496)
T PF02446_consen 10 RSWGIGDFGD--DLYQFIDWAAEAG 32 (496)
T ss_dssp S--SS--SSH--HHHHHHHHHHHCT
T ss_pred CCCceecHHH--HHHHHHHHHHHcC
Confidence 5799999985 5778888888654
No 98
>PRK06756 flavodoxin; Provisional
Probab=27.53 E-value=60 Score=22.67 Aligned_cols=63 Identities=10% Similarity=0.132 Sum_probs=34.2
Q ss_pred CCCceeccccCCccCCCCHHHHHHHHHHH-HHhcCCCeEeeeccChh--HH-HHHHHHHHHHHhCCccH
Q 039296 4 DLPGIATGNWGCGAFGGDPELKAIIQWLA-ASQASRPFVLYYTFGID--AL-QNLDQITQWILSHEWTV 68 (116)
Q Consensus 4 ~~~~I~TGnWGCGaFgGD~qLK~lIQwiA-AS~Agr~~l~Y~tf~d~--~l-~~l~~v~~~l~~k~~tV 68 (116)
+.+.+.|--||=|.+- +..+..++-+. ..+.|++...|-+.+.. -. .-+.++.+.+.+++.++
T Consensus 51 d~vi~gspt~~~g~~p--~~~~~fl~~l~~~~l~~k~~~~fgt~~~~y~~~~~a~~~l~~~l~~~g~~~ 117 (148)
T PRK06756 51 DGIILGAYTWGDGDLP--DDFLDFYDAMDSIDLTGKKAAVFGSCDSAYPKYGVAVDILIEKLQERGAAV 117 (148)
T ss_pred CeEEEEeCCCCCCCCc--HHHHHHHHHHhcCCCCCCEEEEEeCCCCchHHHHHHHHHHHHHHHHCCCEE
Confidence 4455666667666663 24666666553 35678886555442221 11 23455556666666554
No 99
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=27.42 E-value=1.6e+02 Score=19.48 Aligned_cols=57 Identities=21% Similarity=0.320 Sum_probs=38.3
Q ss_pred CCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHH--HHHHHhhhcCCCcchhHHhhhh
Q 039296 38 RPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMM--VEYSSQRLNGRTNLGFFAWLLP 97 (116)
Q Consensus 38 r~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L--~~y~~~~~~~~~~~~lf~wLl~ 97 (116)
.| +.-||-+.---.+.++..+.+ +++.+-++.++.| .+||-++- =.++.+|+|=|++
T Consensus 3 iP-VRCFTCGkvig~~we~y~~~~-~~g~~~~~~LD~LG~~RYCCRRM-llsHvdlid~ll~ 61 (71)
T PLN00032 3 IP-VRCFTCGKVIGNKWDTYLDLL-QADYSEGDALDALGLVRYCCRRM-LMTHVDLIEKLLN 61 (71)
T ss_pred Cc-eeecCCCCCcHHHHHHHHHHH-hcCCCHHHHHHHhCchhhhhhhH-HHHHHHHHHHHHc
Confidence 46 346677764445566666666 5689999999988 69986641 1246777777763
No 100
>PF08642 Rxt3: Histone deacetylation protein Rxt3; InterPro: IPR013951 Rxt3 has been shown in yeast to be required for histone deacetylation [].
Probab=27.06 E-value=42 Score=23.86 Aligned_cols=19 Identities=21% Similarity=0.595 Sum_probs=14.8
Q ss_pred ccccCCccCCCCHHHHHHH
Q 039296 10 TGNWGCGAFGGDPELKAII 28 (116)
Q Consensus 10 TGnWGCGaFgGD~qLK~lI 28 (116)
-=-|||+++..|..+-+++
T Consensus 25 r~lWGtdvYTdDSDiva~l 43 (115)
T PF08642_consen 25 RELWGTDVYTDDSDIVAAL 43 (115)
T ss_pred cccccCcccCCCcHHHHHH
Confidence 3469999999999985443
No 101
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=26.91 E-value=3e+02 Score=21.31 Aligned_cols=36 Identities=19% Similarity=0.159 Sum_probs=24.4
Q ss_pred CceeccccCCccCCCCHHHHHHHHHHHHH-hcCCCeEeeeccCh
Q 039296 6 PGIATGNWGCGAFGGDPELKAIIQWLAAS-QASRPFVLYYTFGI 48 (116)
Q Consensus 6 ~~I~TGnWGCGaFgGD~qLK~lIQwiAAS-~Agr~~l~Y~tf~d 48 (116)
+.+.+|.-|||= --+.+|.++.. ..|-+. .|++++.
T Consensus 38 ~~lI~G~pGtGK------T~l~~qf~~~~a~~Ge~v-lyis~Ee 74 (259)
T TIGR03878 38 VINITGVSDTGK------SLMVEQFAVTQASRGNPV-LFVTVES 74 (259)
T ss_pred EEEEEcCCCCCH------HHHHHHHHHHHHhCCCcE-EEEEecC
Confidence 457899999994 34556765533 446675 4999985
No 102
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=26.84 E-value=1.1e+02 Score=16.40 Aligned_cols=23 Identities=9% Similarity=0.136 Sum_probs=18.3
Q ss_pred HHHHhCCccHHHHHHHHHHHHHh
Q 039296 59 QWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 59 ~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
+...+++.|..++.+.|.++|..
T Consensus 15 ~~~l~~~~t~~~I~~~l~~~C~~ 37 (39)
T PF05184_consen 15 EKLLKNNKTEEEIKKALEKACNK 37 (39)
T ss_dssp HHHHHSTCHHHHHHHHHHHHHTT
T ss_pred HHHHHcCccHHHHHHHHHHHHhh
Confidence 33346899999999999999854
No 103
>TIGR03581 EF_0839 conserved hypothetical protein EF_0839/AHA_3917. Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.
Probab=26.72 E-value=1.8e+02 Score=23.35 Aligned_cols=60 Identities=15% Similarity=0.197 Sum_probs=47.5
Q ss_pred CceeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccCh-hHHHHHHHHHHHHHhCCcc
Q 039296 6 PGIATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGI-DALQNLDQITQWILSHEWT 67 (116)
Q Consensus 6 ~~I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d-~~l~~l~~v~~~l~~k~~t 67 (116)
+.|+||.-.|..=-+--.+...|.++.. .|.+-+.||+.+- +.+++++.+.+.+.+++..
T Consensus 119 VkISTGp~Ss~~~~~iV~vetAiaml~d--mG~~SiKffPM~Gl~~leE~~avA~aca~~g~~ 179 (236)
T TIGR03581 119 VNISTGPLSSQGKEAIVPIETAIAMLKD--MGGSSVKFFPMGGLKHLEEYAAVAKACAKHGFY 179 (236)
T ss_pred EEeccCcccccCCCceeeHHHHHHHHHH--cCCCeeeEeecCCcccHHHHHHHHHHHHHcCCc
Confidence 4589999888887788889999998874 3666689998874 6678888888888777643
No 104
>cd08796 Death_IRAK-M Death domain of Interleukin 1 Receptor Associated Kinase-M. Death Domain (DD) of Interleukin-1 Receptor-Associated Kinase M (IRAK-M). IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. They are involved in signal transduction pathways involving IL-1 and IL-18 receptors, Toll-like receptors(TLRs), nuclear factor-kappaB (NF-kB), and mitogen-activated protein kinases (MAPKs). IRAKs contain an N-terminal DD domain and a C-terminal kinase domain. IRAK-M, also called IRAK-3, is an inactive kinase present only in macrophages in an inducible manner. It is a negative regulator of TLR signaling and it contributes to the attenuation of NF-kB activation. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitme
Probab=26.65 E-value=1e+02 Score=20.96 Aligned_cols=17 Identities=29% Similarity=0.306 Sum_probs=14.5
Q ss_pred HhCCccHHHHHHHHHHH
Q 039296 62 LSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 62 ~~k~~tVgdL~~~L~~y 78 (116)
..+|-||++|+++|.+-
T Consensus 63 g~~n~TV~eL~~~L~~~ 79 (89)
T cd08796 63 AQKNKTVGDLLQVLDEM 79 (89)
T ss_pred HccCCCHHHHHHHHHHc
Confidence 57889999999999764
No 105
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=26.55 E-value=1.5e+02 Score=20.41 Aligned_cols=33 Identities=18% Similarity=0.300 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+++|++||+.|....+++.+.+.+. .++|...
T Consensus 13 al~~LEeIV~~LEsgdl~LEesl~lyeeGv~L~k~C~~~ 51 (95)
T PRK14069 13 ALRELEQIAEKLERQDFSLEESLKAYERGMELKKICSGI 51 (95)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999999988764 5777653
No 106
>TIGR01926 peroxid_rel uncharacterized peroxidase-related enzyme. This protein family with length of about 200 amino acids. One member, from Myxococcus xanthus, is a selenoprotein, with an otherwise conserved Cys replaced by Sec. This family is drawn narrowly enough to suggest that These proteins contain a domain described by TIGR00778, with a CxxCxxxHxxxxxxxG motif. Some members of that family are known to act as peroxidases or correlate with resistance to oxidative stress.
Probab=26.51 E-value=2.4e+02 Score=20.05 Aligned_cols=51 Identities=12% Similarity=0.218 Sum_probs=29.9
Q ss_pred ccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHHH
Q 039296 12 NWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMMV 76 (116)
Q Consensus 12 nWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~ 76 (116)
+|++.. -|+++++++++..+-... |. ...++.+. .+++.++|..++.+++.
T Consensus 105 ~~~~~~--~~~~e~a~l~~a~~~~~~-~~----~v~~~~~~-------~l~~~g~s~~eivel~~ 155 (177)
T TIGR01926 105 NFRDAD--LSPRERAMLDFAVKLTAT-PA----KVNEADFA-------ALRAAGFSDLDILDLIH 155 (177)
T ss_pred CcccCC--CCHHHHHHHHHHHHHhhC-cc----cCCHHHHH-------HHHHcCCCHHHHHHHHH
Confidence 344543 378888888887654422 31 13343333 34457778888877764
No 107
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=26.28 E-value=59 Score=27.95 Aligned_cols=52 Identities=17% Similarity=0.155 Sum_probs=30.3
Q ss_pred ceeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHH
Q 039296 7 GIATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWIL 62 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~ 62 (116)
.+.|+-|+||+- ..+...++-+-+.++. ++.+.+...++++++++++.+.+.
T Consensus 342 vFGSygw~g~a~---~~~~~~l~~~g~~~~~-~l~~~~~P~ee~~~~~~~~g~~la 393 (479)
T PRK05452 342 AFGSHGWSGGAV---DRLSTRLQDAGFEMSL-SLKAKWRPDQDALELCREHGREIA 393 (479)
T ss_pred EEECCCcCcHHH---HHHHHHHHHCCCEEec-cEEEEecCCHHHHHHHHHHHHHHH
Confidence 456788888852 2333333333334433 444566677777887777766554
No 108
>PF06535 RGM_N: Repulsive guidance molecule (RGM) N-terminus; InterPro: IPR010536 This entry represents the N-terminal region of several mammalian and one bird sequence from Gallus gallus (Chicken). All of the mammalian proteins are hypothetical and have no known function but Q8JG54 from SWISSPROT from the chicken is annotated as being a repulsive guidance molecule (RGM). RGM is a GPI-linked axon guidance molecule of the retinotectal system. RGM is repulsive for a subset of axons, those from the temporal half of the retina. Temporal retinal axons invade the anterior optic tectum in a superficial layer, and encounter RGM expressed in a gradient with increasing concentration along the anterior-posterior axis. Temporal axons are able to receive posterior-dependent information by sensing gradients or concentrations of guidance cues. Thus, RGM is likely to provide positional information for temporal axons invading the optic tectum in the stratum opticum [].
Probab=26.16 E-value=32 Score=26.06 Aligned_cols=13 Identities=54% Similarity=1.283 Sum_probs=9.7
Q ss_pred CCccCCCCHHHHHH
Q 039296 14 GCGAFGGDPELKAI 27 (116)
Q Consensus 14 GCGaFgGD~qLK~l 27 (116)
=||.| |||.|+..
T Consensus 101 hCglF-GDPHLRTF 113 (161)
T PF06535_consen 101 HCGLF-GDPHLRTF 113 (161)
T ss_pred eeccc-CChhHhhc
Confidence 38888 58888764
No 109
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=26.13 E-value=1.4e+02 Score=19.49 Aligned_cols=14 Identities=14% Similarity=0.544 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHh
Q 039296 22 PELKAIIQWLAASQ 35 (116)
Q Consensus 22 ~qLK~lIQwiAAS~ 35 (116)
.-++.++++|....
T Consensus 5 ~~~~~~~~~i~~~~ 18 (107)
T PRK10219 5 KIIQTLIAWIDEHI 18 (107)
T ss_pred HHHHHHHHHHHHhc
Confidence 44555666666543
No 110
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=26.06 E-value=1.7e+02 Score=19.19 Aligned_cols=33 Identities=15% Similarity=0.217 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+++|++||+.|.+..++.-+.+... .++|...
T Consensus 11 al~~Le~IV~~LE~gdl~Leesl~lyeeG~~L~k~C~~~ 49 (76)
T PRK14068 11 MMQELEQIVQKLDNETVSLEESLDLYQRGMKLSAACDTT 49 (76)
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999999888764 5667653
No 111
>cd04780 HTH_MerR-like_sg5 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 5), N-terminal domain. Based on sequence similarity, 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 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.
Probab=26.03 E-value=1.8e+02 Score=19.38 Aligned_cols=35 Identities=6% Similarity=0.059 Sum_probs=26.1
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
|.-|++.+++.++.+...-++-+.++.++-.++..
T Consensus 36 ~r~Y~~~dv~~l~~I~~L~~~~G~~l~~I~~~l~~ 70 (95)
T cd04780 36 QAEYSEAHVERLRLIRALQQEGGLPISQIKEVLDA 70 (95)
T ss_pred CeecCHHHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 55678888887776644444579999999988866
No 112
>cd08795 Death_IRAK2 Death domain of Interleukin 1 Receptor Associated Kinase-2. Death Domain (DD) of Interleukin-1 Receptor-Associated Kinase 1 (IRAK1). IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. They are involved in signal transduction pathways involving IL-1 and IL-18 receptors, Toll-like receptors (TLRs), nuclear factor-kappaB (NF-kB), and mitogen-activated protein kinases (MAPKs). IRAKs contain an N-terminal DD domain and a C-terminal kinase domain. IRAK2 is an essential component of several signaling pathways, including NF-kappaB and the IL-1 signaling pathways. It is an inactive kinase that participates in septic shock mediated by TLR4 and TLR9. It plays a redundant role with IRAK1 in early NF-kB and MAPK responses, and remains present at later stages whereas IRAK1 disappears. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-as
Probab=25.97 E-value=1.1e+02 Score=20.94 Aligned_cols=17 Identities=18% Similarity=0.096 Sum_probs=14.3
Q ss_pred HhCCccHHHHHHHHHHH
Q 039296 62 LSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 62 ~~k~~tVgdL~~~L~~y 78 (116)
-.+|-||++|+++|.+-
T Consensus 62 g~~N~TV~~L~~lL~~~ 78 (88)
T cd08795 62 GMRLATVQQLVDLLQRL 78 (88)
T ss_pred HcCCCCHHHHHHHHHHC
Confidence 47889999999999754
No 113
>PF09357 RteC: RteC protein; InterPro: IPR018534 Human colonic Bacteroides species harbour a family of large conjugative transposons, called tetracycline resistance (Tcr) elements. Activities of these elements are enhanced by pregrowth of bacteria in medium containing tetracycline, indicating that at least some Tcr element genes are regulated by tetracycline. An insertional disruption in the rteC gene abolished self-transfer of the Tcr element to Bacteroides recipients, indicating that the gene was essential for self-transfer [].
Probab=25.80 E-value=2.6e+02 Score=21.71 Aligned_cols=68 Identities=16% Similarity=0.236 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhhhcc
Q 039296 25 KAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPSLTS 101 (116)
Q Consensus 25 K~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ls~ 101 (116)
-.|++++-|-.+..- + ..++..++++-+..+.+ =++.+|+.|+...+...+ +..+..++|=|.++|-.
T Consensus 145 ~~LiELiYaL~~~g~-i---n~G~~~i~~i~~~fe~~--F~i~l~~~y~~~~~ik~R---K~~rT~FLd~L~~~L~~ 212 (218)
T PF09357_consen 145 TDLIELIYALYASGC-I---NNGNADIKEIARFFEKL--FNIDLGDYYRTFHEIKNR---KKSRTKFLDKLKESLNK 212 (218)
T ss_pred HHHHHHHHHHHHcCC-c---CCCccCHHHHHHHHHHH--hCCCcchHHHHHHHHHhc---CCChhHHHHHHHHHHHH
Confidence 466777766666554 3 24455555555555554 678889988887775333 44678888888777644
No 114
>PF07071 DUF1341: Protein of unknown function (DUF1341); InterPro: IPR010763 Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.; PDB: 3NZR_D 3LM7_A 3M0Z_B 3M6Y_A 3N73_A 3MUX_A.
Probab=25.48 E-value=76 Score=25.17 Aligned_cols=61 Identities=15% Similarity=0.253 Sum_probs=38.9
Q ss_pred CceeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccC-hhHHHHHHHHHHHHHhCCccH
Q 039296 6 PGIATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFG-IDALQNLDQITQWILSHEWTV 68 (116)
Q Consensus 6 ~~I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~-d~~l~~l~~v~~~l~~k~~tV 68 (116)
+.|+||.-.+...-+--...+.|.+++. .|.+-+.||+.+ .+.+++++.|.+.+.+++.++
T Consensus 119 VkIsTGp~Ss~~~~~~V~vetAiaml~d--mG~~SiKffPm~Gl~~leE~~avAkA~a~~g~~l 180 (218)
T PF07071_consen 119 VKISTGPLSSQGPDAIVPVETAIAMLKD--MGGSSIKFFPMGGLKHLEELKAVAKACARNGFTL 180 (218)
T ss_dssp EE---STTHHGSS--EEEHHHHHHHHHH--TT--EEEE---TTTTTHHHHHHHHHHHHHCT-EE
T ss_pred EEeccCCccccCCCccccHHHHHHHHHH--cCCCeeeEeecCCcccHHHHHHHHHHHHHcCcee
Confidence 3588888877777777778888888864 477778999887 467888999999998887653
No 115
>PRK14507 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional
Probab=25.32 E-value=35 Score=34.33 Aligned_cols=22 Identities=41% Similarity=0.788 Sum_probs=19.7
Q ss_pred ccccCCccCCCCHHHHHHHHHHHHH
Q 039296 10 TGNWGCGAFGGDPELKAIIQWLAAS 34 (116)
Q Consensus 10 TGnWGCGaFgGD~qLK~lIQwiAAS 34 (116)
.++||+|-|| | |+.++-|+|++
T Consensus 185 ~~~~GIGDfg-d--L~~~~d~la~~ 206 (1693)
T PRK14507 185 ARNWGIGDFG-D--LGRLVRDAALR 206 (1693)
T ss_pred CCCCCcccHH-H--HHHHHHHHHHc
Confidence 4899999997 4 99999999976
No 116
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=25.26 E-value=1.2e+02 Score=22.52 Aligned_cols=57 Identities=9% Similarity=0.126 Sum_probs=39.9
Q ss_pred CCccCCCC--HHHHHHHHHHH-----HHhcCCCeEeeeccCh--hHH-HHHHHHHHHHHhCCccHHH
Q 039296 14 GCGAFGGD--PELKAIIQWLA-----ASQASRPFVLYYTFGI--DAL-QNLDQITQWILSHEWTVRD 70 (116)
Q Consensus 14 GCGaFgGD--~qLK~lIQwiA-----AS~Agr~~l~Y~tf~d--~~l-~~l~~v~~~l~~k~~tVgd 70 (116)
|+..+.|+ +++|.++.++. ..+.|++.-.+.+.+- ... .-+.++...+..+++.|=.
T Consensus 75 GSPty~g~~~~~lk~fld~~~~~~~~~~l~gK~~~~f~s~g~~~Gg~~~~l~~l~~~l~~~Gm~vv~ 141 (197)
T TIGR01755 75 GTPTRFGNMASQMRNFLDQTGGLWASGALVGKVGSVFTSTGTQHGGQESTILSTWTTLLHHGMIIVP 141 (197)
T ss_pred EecccccCccHHHHHHHHhccccccccccCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEeC
Confidence 66666665 68999999985 3577899665666653 223 4577788888888887544
No 117
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=25.15 E-value=1.8e+02 Score=19.00 Aligned_cols=33 Identities=6% Similarity=0.223 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHhCCccHHHHHHHH------HHHHHhh
Q 039296 50 ALQNLDQITQWILSHEWTVRDLWNMM------VEYSSQR 82 (116)
Q Consensus 50 ~l~~l~~v~~~l~~k~~tVgdL~~~L------~~y~~~~ 82 (116)
.+.+|++|+..+.+..+++-+.+... .++|...
T Consensus 10 al~~LE~Iv~~LE~~~l~Leesl~lyeeG~~L~k~C~~~ 48 (76)
T PRK14063 10 AISQLEHLVSKLEQGDVPLEEAISYFKEGMELSKLCDEK 48 (76)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999988764 5667654
No 118
>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=25.11 E-value=1.9e+02 Score=19.56 Aligned_cols=35 Identities=3% Similarity=0.172 Sum_probs=26.2
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
|-.|++.++..+.. +..+++-++++.++-++|..+
T Consensus 36 ~R~Y~~~dl~~l~~-I~~lr~~G~~l~~I~~~l~~~ 70 (108)
T cd04773 36 YRVYDPSDVRDARL-IHLLRRGGYLLEQIATVVEQL 70 (108)
T ss_pred ceeeCHHHHHHHHH-HHHHHHCCCCHHHHHHHHHHh
Confidence 44466667776655 466788999999999998765
No 119
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=24.89 E-value=1.4e+02 Score=21.28 Aligned_cols=29 Identities=10% Similarity=0.170 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhCCccHHHHHHHHHHHH
Q 039296 51 LQNLDQITQWILSHEWTVRDLWNMMVEYS 79 (116)
Q Consensus 51 l~~l~~v~~~l~~k~~tVgdL~~~L~~y~ 79 (116)
-++|..|+..+...++||+...+-|++.+
T Consensus 90 h~~l~~Iv~~ig~~~~si~~yidNIL~~H 118 (136)
T PF11888_consen 90 HERLSRIVRVIGERKMSISGYIDNILRHH 118 (136)
T ss_pred HHHHHHHHHHHCCCCCcHHHHHHHHHHHH
Confidence 36899999999999999999998777654
No 120
>cd06906 M14_Nna1 Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the mouse Nna1/CCP-1, and -4 proteins, and the human Nna1/AGTPBP-1 protein. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induced in axotomized motor neurons. Mutations in Nna
Probab=24.43 E-value=1.1e+02 Score=24.86 Aligned_cols=39 Identities=33% Similarity=0.618 Sum_probs=25.0
Q ss_pred ceeccccCCccCCCCH----------------HHHHHHHHHHHHhcCCCeEeeeccC
Q 039296 7 GIATGNWGCGAFGGDP----------------ELKAIIQWLAASQASRPFVLYYTFG 47 (116)
Q Consensus 7 ~I~TGnWGCGaFgGD~----------------qLK~lIQwiAAS~Agr~~l~Y~tf~ 47 (116)
.++.||+-|.+.|-|. .+|.+++.|+.. ++..+.|..|.
T Consensus 105 Gvv~Gn~Rc~~~G~DLNR~w~~p~~~~~P~i~~~k~l~~~l~~~--~~~~~~yiDlH 159 (278)
T cd06906 105 GVINGNHRCSLSGEDLNRQWQSPNPELHPTIYHTKGLLQYLAAI--KRSPLVYCDYH 159 (278)
T ss_pred cceecccccCCCCCCCCCCCCCCCcccChHHHHHHHHHHHHHHh--CCCceEEEeec
Confidence 4678999997766553 388888888643 33323355444
No 121
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=24.40 E-value=3.3e+02 Score=20.96 Aligned_cols=63 Identities=17% Similarity=0.328 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHHHH-HHhcCCCeEee-eccChhHH--HHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Q 039296 19 GGDPELKAIIQWLA-ASQASRPFVLY-YTFGIDAL--QNLDQITQWILSHEWTVRDLWNMMVEYSSQ 81 (116)
Q Consensus 19 gGD~qLK~lIQwiA-AS~Agr~~l~Y-~tf~d~~l--~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~ 81 (116)
.|+|.+...++.+- .-.+|.+.|.+ .+|+|.-. .-++...+...+++.++.+.++.+.+..+.
T Consensus 8 ~G~P~~~~~~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~ 74 (242)
T cd04724 8 AGDPDLETTLEILKALVEAGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKK 74 (242)
T ss_pred CCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhc
Confidence 47888887777544 44468885533 26777554 356777777778999999999988877543
No 122
>PF11140 DUF2913: Protein of unknown function (DUF2913); InterPro: IPR021316 This family of proteins with unknown function appear to be restricted to Gammaproteobacteria.
Probab=24.37 E-value=3.2e+02 Score=20.85 Aligned_cols=51 Identities=10% Similarity=0.130 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHH--hCCccHHHHHHHHHHHH
Q 039296 23 ELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWIL--SHEWTVRDLWNMMVEYS 79 (116)
Q Consensus 23 qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~--~k~~tVgdL~~~L~~y~ 79 (116)
+=.+|+.||+-++-.+. |...-.+++..+++.-| ..+-....++..|.+.+
T Consensus 33 ~n~fL~~WL~~alK~kr------F~k~v~~dlk~ll~~gRs~g~~a~L~~~L~~i~~~~ 85 (207)
T PF11140_consen 33 RNHFLVRWLKPALKQKR------FSKLVKKDLKWLLQQGRSKGKNADLEQKLEYIWRLY 85 (207)
T ss_pred HHHHHHHHHHHHHcCcc------cchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHH
Confidence 34688999998875544 32222345666666665 33345555555555554
No 123
>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=24.32 E-value=1.8e+02 Score=18.83 Aligned_cols=34 Identities=6% Similarity=0.096 Sum_probs=26.1
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMV 76 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~ 76 (116)
|.-|++.++..+..+.....+.+++..++-.+|.
T Consensus 36 ~R~y~~~dv~~l~~i~~L~~d~g~~l~~i~~~l~ 69 (91)
T cd04766 36 TRRYSERDIERLRRIQRLTQELGVNLAGVKRILE 69 (91)
T ss_pred CeeECHHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 4447777788888877777669999999887774
No 124
>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity []. ; PDB: 2QBY_A 2V1U_A 1W5T_A 1W5S_B 1FNN_B.
Probab=24.18 E-value=2e+02 Score=18.26 Aligned_cols=31 Identities=16% Similarity=0.244 Sum_probs=16.2
Q ss_pred CccHHHHHHHHHHHHHhh-hcCCCcchhHHhh
Q 039296 65 EWTVRDLWNMMVEYSSQR-LNGRTNLGFFAWL 95 (116)
Q Consensus 65 ~~tVgdL~~~L~~y~~~~-~~~~~~~~lf~wL 95 (116)
.++.+++|+.-...|+.. ....+...+.+.|
T Consensus 15 ~~~~~~vy~~Y~~lc~~~~~~pls~~r~~~~l 46 (85)
T PF09079_consen 15 EVTTGEVYEVYEELCESLGVDPLSYRRFSDYL 46 (85)
T ss_dssp SEEHHHHHHHHHHHHHHTTS----HHHHHHHH
T ss_pred ceeHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence 367777777777777653 2233444444444
No 125
>PLN02469 hydroxyacylglutathione hydrolase
Probab=23.91 E-value=3.5e+02 Score=21.17 Aligned_cols=40 Identities=28% Similarity=0.472 Sum_probs=20.8
Q ss_pred ceeccc----cCCcc-CCCCHH-HHHHHHHHHHHhcCCCeEeeeccC
Q 039296 7 GIATGN----WGCGA-FGGDPE-LKAIIQWLAASQASRPFVLYYTFG 47 (116)
Q Consensus 7 ~I~TGn----WGCGa-FgGD~q-LK~lIQwiAAS~Agr~~l~Y~tf~ 47 (116)
.+.||. -|||- |+||++ +..-|+-+-+++-. +.++|+..+
T Consensus 130 ~lFtGDtLf~~g~Gr~~~g~~~~~~~Sl~~~l~~Lp~-~t~vypGH~ 175 (258)
T PLN02469 130 AVFTGDTLFIAGCGKFFEGTAEQMYQSLCVTLGSLPK-PTQVYCGHE 175 (258)
T ss_pred EEEecCcccCCCcCCCCCCCHHHHHHHHHHHHHcCCC-CeEEEcCCC
Confidence 466665 39995 888853 33333322223322 335586555
No 126
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They 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 HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. 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=23.84 E-value=2e+02 Score=18.97 Aligned_cols=34 Identities=9% Similarity=0.247 Sum_probs=25.6
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
|--|+++++..+.. +..+++-|+++.++-.++..
T Consensus 36 yR~Y~~~~l~~l~~-I~~lr~~G~~l~~I~~~l~~ 69 (96)
T cd04768 36 YRYYSYAQLYQLQF-ILFLRELGFSLAEIKELLDT 69 (96)
T ss_pred eeeCCHHHHHHHHH-HHHHHHcCCCHHHHHHHHhc
Confidence 44577777777665 44678999999999888854
No 127
>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]
Probab=23.70 E-value=2.5e+02 Score=23.67 Aligned_cols=84 Identities=18% Similarity=0.310 Sum_probs=51.5
Q ss_pred CCCH--HHHHHHHHHHHHhcCCCeEeeeccC--hhH-HHHHHHHH-----------HHHHhCCccHHHHHHHHHHHHHhh
Q 039296 19 GGDP--ELKAIIQWLAASQASRPFVLYYTFG--IDA-LQNLDQIT-----------QWILSHEWTVRDLWNMMVEYSSQR 82 (116)
Q Consensus 19 gGD~--qLK~lIQwiAAS~Agr~~l~Y~tf~--d~~-l~~l~~v~-----------~~l~~k~~tVgdL~~~L~~y~~~~ 82 (116)
|||| .|-+||..+--....+|. +|-+-. ..+ ++-|.-++ +.+..|--.|.+-|+.+.+-....
T Consensus 173 gg~Ptp~lp~Ile~l~~~~~~iPv-vwNSnmY~s~E~l~lL~gvVDiyL~DfKYgNdeca~kySkvp~Y~eVv~rn~~~~ 251 (335)
T COG1313 173 GGDPTPHLPFILEALRYASENIPV-VWNSNMYMSEETLKLLDGVVDIYLPDFKYGNDECAEKYSKVPNYWEVVTRNILEA 251 (335)
T ss_pred CCCCCCchHHHHHHHHHHhcCCCE-EEecCCccCHHHHHHhhccceeeecccccCCHHHHHHhhcCCchHHHHHHHHHHH
Confidence 5666 999999988776667994 487554 333 34344443 344556667777777765433221
Q ss_pred hcC---------------CC-cchhHHhhhhhhccCC
Q 039296 83 LNG---------------RT-NLGFFAWLLPSLTSHN 103 (116)
Q Consensus 83 ~~~---------------~~-~~~lf~wLl~~ls~~~ 103 (116)
... .. ...+++||.+++..+.
T Consensus 252 ~~~~g~~iiRHLVlPghlecCTkpI~~wiae~~g~~~ 288 (335)
T COG1313 252 KEQVGGLIIRHLVLPGHLECCTKPILRWIAENLGNDV 288 (335)
T ss_pred HHhcCceEEEEEecCCchhhccHHHHHHHHHhCCCCe
Confidence 110 11 4689999999986443
No 128
>PF04084 ORC2: Origin recognition complex subunit 2 ; InterPro: IPR007220 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 []. ORC is a central component for eukaryotic DNA replication, and binds chromatin at replication origins throughout the cell cycle []. ORC directs DNA replication throughout the genome and is required for its initiation [, , ]. ORC bound at replication origins serves as the foundation for assembly of the pre-replicative complex (pre-RC), which includes Cdc6, Tah11 (aka Cdt1), and the Mcm2-7 complex [, , ]. Pre-RC assembly during G1 is required for replication licensing of chromosomes prior to DNA synthesis during S phase [, , ]. Cell cycle-regulated phosphorylation of Orc2, Orc6, Cdc6, and MCM by the cyclin-dependent protein kinase Cdc28 regulates initiation of DNA replication, including blocking reinitiation in G2/M phase [, , , ]. In yeast, ORC also plays a role in the establishment of silencing at the mating-type loci Hidden MAT Left (HML) and Hidden MAT Right (HMR) [, , ]. ORC participates in the assembly of transcriptionally silent chromatin at HML and HMR by recruiting the Sir1 silencing protein to the HML and HMR silencers [, , ]. Both Orc1 and Orc5 bind ATP, though only Orc1 has ATPase activity []. The binding of ATP by Orc1 is required for ORC binding to DNA and is essential for cell viability []. The ATPase activity of Orc1 is involved in formation of the pre-RC [, , ]. ATP binding by Orc5 is crucial for the stability of ORC as a whole. Only the Orc1-5 subunits are required for origin binding; Orc6 is essential for maintenance of pre-RCs once formed []. Interactions within ORC suggest that Orc2-3-6 may form a core complex []. ORC homologues have been found in various eukaryotes, including fission yeast, insects, amphibians, and humans []. This entry represents subunit 2, which binds the origin of replication. It plays a role in chromosome replication and mating type transcriptional silencing.; GO: 0006260 DNA replication, 0000808 origin recognition complex, 0005634 nucleus
Probab=23.68 E-value=4.1e+02 Score=21.78 Aligned_cols=78 Identities=17% Similarity=0.289 Sum_probs=52.5
Q ss_pred HHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhC--------------CccHHHHHHHHHHHHHhh--hcCCCc
Q 039296 25 KAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSH--------------EWTVRDLWNMMVEYSSQR--LNGRTN 88 (116)
Q Consensus 25 K~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k--------------~~tVgdL~~~L~~y~~~~--~~~~~~ 88 (116)
+..-||+.--..|=+++ +|.+|-++- -|+++.+.+... ++++.+++..+.+..... ......
T Consensus 42 ~~F~qW~~eL~~GFnlL-~YG~GSKr~-lL~~Fa~~~l~~~~~~~~vvvnGy~p~~~~k~il~~I~~~l~~~~~~~~~~~ 119 (326)
T PF04084_consen 42 KLFPQWMFELSQGFNLL-FYGYGSKRK-LLNDFAEKYLSDWGDGPVVVVNGYFPSLSIKDILNTIEEALLPEPSKKPKSP 119 (326)
T ss_pred HHHHHHHHHHhCCCeEE-EEecChHHH-HHHHHHHHHhhccCCCcEEEEEccCCCCcHHHHHHHHHHHHhhhcccccCCH
Confidence 45679999999999955 889997431 144444443333 789999999887765443 223345
Q ss_pred chhHHhhhhhhccCCC
Q 039296 89 LGFFAWLLPSLTSHNF 104 (116)
Q Consensus 89 ~~lf~wLl~~ls~~~~ 104 (116)
....+.|.+.++++..
T Consensus 120 ~~~~~~i~~~l~~~~~ 135 (326)
T PF04084_consen 120 SEQLDFIISYLESRPS 135 (326)
T ss_pred HHHHHHHHHHHhccCC
Confidence 6677777777777653
No 129
>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=23.63 E-value=1.8e+02 Score=19.27 Aligned_cols=34 Identities=9% Similarity=0.285 Sum_probs=25.7
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
|-.|+++++..+.. +..+++-|.++.++-+++..
T Consensus 36 yR~Y~~~~~~~l~~-I~~lr~~G~~l~eI~~~l~~ 69 (97)
T cd04782 36 YRYYTLEQFEQLDI-ILLLKELGISLKEIKDYLDN 69 (97)
T ss_pred CccCCHHHHHHHHH-HHHHHHcCCCHHHHHHHHhc
Confidence 55577777777766 44688999999999988753
No 130
>PRK12452 cardiolipin synthetase; Reviewed
Probab=23.57 E-value=81 Score=27.39 Aligned_cols=57 Identities=18% Similarity=0.272 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHH-HHHHHHHHHHHhCCccHHHHHHHH
Q 039296 18 FGGDPELKAIIQWLAASQASRPFVLYYTFGIDAL-QNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 18 FgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l-~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
..|+.-...+++-|.++.-.+- |.||-|.+.+. +++.+.+..-.++|+.|.=|++.+
T Consensus 146 ~~g~~~~~~l~~~I~~Ak~~I~-i~~yi~~~d~~g~~i~~aL~~aa~rGV~VRiL~D~~ 203 (509)
T PRK12452 146 TNGDQTFSEILQAIEQAKHHIH-IQYYIYKSDEIGTKVRDALIKKAKDGVIVRFLYDGL 203 (509)
T ss_pred CCHHHHHHHHHHHHHHhCCEEE-EEEEEEeCCcHHHHHHHHHHHHHHCCCEEEEEEECC
Confidence 4677788889999988887777 56888876444 555555544456888887666655
No 131
>smart00400 ZnF_CHCC zinc finger.
Probab=23.17 E-value=41 Score=20.09 Aligned_cols=9 Identities=67% Similarity=1.638 Sum_probs=6.6
Q ss_pred cCCccCCCCH
Q 039296 13 WGCGAFGGDP 22 (116)
Q Consensus 13 WGCGaFgGD~ 22 (116)
||||. +||.
T Consensus 27 f~cg~-gGd~ 35 (55)
T smart00400 27 FGCGA-GGNV 35 (55)
T ss_pred eCCCC-CCCH
Confidence 69997 6664
No 132
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=22.90 E-value=2e+02 Score=24.39 Aligned_cols=51 Identities=16% Similarity=0.257 Sum_probs=0.0
Q ss_pred ceeccccCCccCCC-CHHHHHHHHHHHHHhcCCCeEeee-------ccChhHH-HHHHHHHHHH
Q 039296 7 GIATGNWGCGAFGG-DPELKAIIQWLAASQASRPFVLYY-------TFGIDAL-QNLDQITQWI 61 (116)
Q Consensus 7 ~I~TGnWGCGaFgG-D~qLK~lIQwiAAS~Agr~~l~Y~-------tf~d~~l-~~l~~v~~~l 61 (116)
.|.-.+|||=.+.+ +..+|--++ ..+|+|.|..- -|+.+++ .+++.+++.|
T Consensus 354 VI~~~~~~C~~~~~e~~~~~~~l~----e~~GIP~L~iE~D~~d~r~~d~gQ~~TRiEAFlEml 413 (413)
T TIGR02260 354 LLINSIKSCNSFSAGQLLMMREIE----KRTGKPAAFIETDLVDPRYFSAANVKNRLESYFQMI 413 (413)
T ss_pred EEEeccCCCCcchhhhHHHHHHHH----HHcCCCEEEEEcCCCCcccCCHHHHHHHHHHHHHhC
No 133
>PF04533 Herpes_U44: Herpes virus U44 protein; InterPro: IPR007619 This entry represents proteins from dsDNA beta-herpesvirinae and gamma-herpesvirinae viruses. The function is not known, and the proteins are named variously as U44, BSRF1, UL71, and M71. The entry also includes BSRF1.
Probab=22.90 E-value=51 Score=26.00 Aligned_cols=49 Identities=18% Similarity=0.131 Sum_probs=32.3
Q ss_pred HHHHHHH--HhcCCCeEeeeccChh---HHHHHHHHHHHHHhCCccHHHHHHHH
Q 039296 27 IIQWLAA--SQASRPFVLYYTFGID---ALQNLDQITQWILSHEWTVRDLWNMM 75 (116)
Q Consensus 27 lIQwiAA--S~Agr~~l~Y~tf~d~---~l~~l~~v~~~l~~k~~tVgdL~~~L 75 (116)
.+||+-| +..|+|--.|-.-.+. ..++++.+++.--..|+++|||.+.-
T Consensus 5 ~~~w~~Cg~~~fg~~~~~Y~~L~~~~~~~~~~l~~ei~~~~ppGV~~gDl~~~~ 58 (210)
T PF04533_consen 5 WWQWTCCGLWPFGKPRADYVLLQDSEDVCPERLQAEIEMGFPPGVTVGDLLQNE 58 (210)
T ss_pred cccceeccccccCCCCCCeeecCCccccCHHHHHHHHHccCCCCCCHHHHHHhc
Confidence 4577766 5577764455544443 44677777766666799999998754
No 134
>PF00869 Flavi_glycoprot: Flavivirus glycoprotein, central and dimerisation domains; InterPro: IPR011999 Flaviviruses are small, enveloped RNA viruses that use arthropods such as mosquitoes for transmission to their vertebrate hosts, and include Yellow fever virus (YFV), West Nile virus (WNV), Tick-borne encephalitis virus, Japanese encephalitis virus and Dengue virus 2 viruses []. Flaviviruses consist of three structural proteins: the core nucleocapsid protein C (IPR001122 from INTERPRO), and the envelope glycoproteins M (IPR000069 from INTERPRO) and E. Glycoprotein E is a class II viral fusion protein that mediates both receptor binding and fusion. Class II viral fusion proteins are found in flaviviruses and alphaviruses, and are structurally distinct from class I fusion proteins from influenza virus and HIV. Glycoprotein E is comprised of three domains: domain I (dimerisation domain) is an 8-stranded beta barrel, domain II (central domain) is an elongated domain composed of twelve beta strands and two alpha helices, and domain III (immunoglobulin-like domain) is an IgC-like module with ten beta strands. This entry represents domains I and II, which are intertwined []. The glycoprotein E dimers on the viral surface re-cluster irreversibly into fusion-competent trimers upon exposure to low pH, as found in the acidic environment of the endosome. The formation of trimers results in a conformational change in the hinge region of domain II, a key structural element that opens a ligand-binding hydrophobic pocket at the interface between domains I and II. The conformational change results in the exposure of a fusion peptide loop at the tip of domain II, which is required in the fusion step to drive the cellular and viral membranes together by inserting into the membrane [].; GO: 0016021 integral to membrane, 0019031 viral envelope; PDB: 3P54_A 1OK8_A 1OAN_A 1OKE_B 3C5X_A 3C6E_A 2JSF_A 1URZ_B 3IYW_A 2JV6_A ....
Probab=22.85 E-value=31 Score=28.47 Aligned_cols=6 Identities=83% Similarity=2.057 Sum_probs=1.9
Q ss_pred CCccCC
Q 039296 14 GCGAFG 19 (116)
Q Consensus 14 GCGaFg 19 (116)
|||-||
T Consensus 104 GCgLFG 109 (293)
T PF00869_consen 104 GCGLFG 109 (293)
T ss_dssp T-SS-E
T ss_pred ccEEEe
Confidence 455443
No 135
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=22.73 E-value=53 Score=22.10 Aligned_cols=34 Identities=12% Similarity=0.037 Sum_probs=20.0
Q ss_pred HhcCCCeEeeeccCh-----hHHHHHHHHHHHHHhCCcc
Q 039296 34 SQASRPFVLYYTFGI-----DALQNLDQITQWILSHEWT 67 (116)
Q Consensus 34 S~Agr~~l~Y~tf~d-----~~l~~l~~v~~~l~~k~~t 67 (116)
+..|++++.||.-.. .++..|+++.+...++++.
T Consensus 20 ~~~gk~vvl~F~a~~C~~C~~~~p~l~~l~~~~~~~~~~ 58 (126)
T cd03012 20 QLRGKVVLLDFWTYCCINCLHTLPYLTDLEQKYKDDGLV 58 (126)
T ss_pred HhCCCEEEEEEECCCCccHHHHHHHHHHHHHHcCcCCeE
Confidence 446777655653222 3456777777777665543
No 136
>PRK06012 flhA flagellar biosynthesis protein FlhA; Validated
Probab=22.72 E-value=1.4e+02 Score=27.41 Aligned_cols=27 Identities=22% Similarity=0.398 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhCCccHHHHHHHHHHH
Q 039296 52 QNLDQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 52 ~~l~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
.++++|.+.+.+.++++.|+-.++...
T Consensus 535 ~~Iq~VLq~LL~E~VSIRdL~tIlEaL 561 (697)
T PRK06012 535 GTLQKVLQNLLKERVSIRDLRTILETL 561 (697)
T ss_pred HHHHHHHHHHHhCCCccccHHHHHHHH
Confidence 357777888888888888877766544
No 137
>COG3645 Uncharacterized phage-encoded protein [Function unknown]
Probab=22.63 E-value=1e+02 Score=22.70 Aligned_cols=24 Identities=25% Similarity=0.427 Sum_probs=17.2
Q ss_pred ccHHHHHHHHHHHHHhhhcCCCcchhHHhhhhh
Q 039296 66 WTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLPS 98 (116)
Q Consensus 66 ~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~~ 98 (116)
++|+|+-.+|. .....||+||+++
T Consensus 48 i~~re~AK~lk---------ige~~l~~~L~e~ 71 (135)
T COG3645 48 ILFRELAKLLK---------IGENRLFAWLREN 71 (135)
T ss_pred eeHHHHHHHHc---------cCHHHHHHHHHHC
Confidence 67777777764 2346789999875
No 138
>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=22.36 E-value=1.9e+02 Score=19.29 Aligned_cols=33 Identities=12% Similarity=0.274 Sum_probs=24.3
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMV 76 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~ 76 (116)
|--|+++++..+..+.. +++.|.++.++-.++.
T Consensus 36 ~R~Y~~~dl~~l~~I~~-l~~~G~~l~ei~~~~~ 68 (102)
T cd04775 36 YRLYSEADLSRLEKIVF-LQAGGLPLEEIAGCLA 68 (102)
T ss_pred CeeeCHHHHHHHHHHHH-HHHCCCCHHHHHHHHc
Confidence 44567777777766555 5889999999988764
No 139
>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=22.21 E-value=2e+02 Score=19.07 Aligned_cols=36 Identities=11% Similarity=0.269 Sum_probs=26.7
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
|--|++.++..+..+...-.+.++++.++-.++..+
T Consensus 35 ~R~Y~~~dv~~l~~I~~L~~~~G~~l~ei~~~l~~~ 70 (96)
T cd04774 35 YRLYSEEDLKRLERILRLREVLGFSLQEVTHFLERP 70 (96)
T ss_pred CEEECHHHHHHHHHHHHHHHHcCCCHHHHHHHHhcc
Confidence 445777788877776665544899999998888554
No 140
>KOG1982 consensus Nuclear 5'-3' exoribonuclease-interacting protein, Rai1p [Replication, recombination and repair]
Probab=21.88 E-value=1.3e+02 Score=25.46 Aligned_cols=54 Identities=19% Similarity=0.298 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHhcCCCeEeeeccChhHH--HHHH--HHHHHHHhCC-ccHHHHHHHHHH
Q 039296 23 ELKAIIQWLAASQASRPFVLYYTFGIDAL--QNLD--QITQWILSHE-WTVRDLWNMMVE 77 (116)
Q Consensus 23 qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l--~~l~--~v~~~l~~k~-~tVgdL~~~L~~ 77 (116)
++|++==|+=+.++|+|-| |+.|.|... +++. ++.+..+.+. |+....+..+..
T Consensus 251 r~K~~KwW~QsFL~Gi~~I-iiG~Rddng~v~~i~~~~v~~l~k~~~kW~~~~~~~~l~~ 309 (359)
T KOG1982|consen 251 RLKLLKWWLQSFLVGIPRI-IIGFRDDNGHVEEIDTIEVRDLPKNKFKWNPSVCLNFLFT 309 (359)
T ss_pred hhHHHHHHHHHHhcCCCeE-EEEEecCCCceeeeeeeehhhccccCCCCCHHHHHHHHHH
Confidence 3566666999999999976 779987433 3332 4455555554 888877766543
No 141
>PLN02629 powdery mildew resistance 5
Probab=21.88 E-value=80 Score=26.92 Aligned_cols=34 Identities=24% Similarity=0.528 Sum_probs=24.0
Q ss_pred CCCCCceecccc--------CCccCC-CCH-------------HHHHHHHHHHHHh
Q 039296 2 GKDLPGIATGNW--------GCGAFG-GDP-------------ELKAIIQWLAASQ 35 (116)
Q Consensus 2 ~~~~~~I~TGnW--------GCGaFg-GD~-------------qLK~lIQwiAAS~ 35 (116)
|.|-+.+.||.| ||+.|. |++ -|++...|+....
T Consensus 205 ~~DvlVfntghWw~~~~~~~~~~~~~~g~~~~~~~~~~~A~r~al~T~~~wv~~~~ 260 (387)
T PLN02629 205 DADVLIFNTGHWWSHQGSLQGWDYIESGGTYYQDMDRLVALEKALRTWAYWVDTNV 260 (387)
T ss_pred cCCEEEEeCccccCCCCeeEEeeeeccCCccccCccHHHHHHHHHHHHHHHHHhcC
Confidence 456678999999 787762 332 2778888887654
No 142
>PRK09816 thrL thr operon leader peptide; Provisional
Probab=21.63 E-value=39 Score=17.94 Aligned_cols=12 Identities=50% Similarity=0.756 Sum_probs=8.4
Q ss_pred CceeccccCCccC
Q 039296 6 PGIATGNWGCGAF 18 (116)
Q Consensus 6 ~~I~TGnWGCGaF 18 (116)
+.|.||| |.|..
T Consensus 12 itittgn-gag~~ 23 (26)
T PRK09816 12 ITITTGN-GAGXX 23 (26)
T ss_pred EEEEeCC-ccccc
Confidence 4688998 66653
No 143
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=21.52 E-value=2.4e+02 Score=20.83 Aligned_cols=57 Identities=11% Similarity=0.186 Sum_probs=27.8
Q ss_pred eeccccCCccCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCC
Q 039296 8 IATGNWGCGAFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHE 65 (116)
Q Consensus 8 I~TGnWGCGaFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~ 65 (116)
+.++.||+...+.-..++.+++.+... .+.|+.+-...+...-++..++++.+.+.+
T Consensus 95 ~~~~~~G~~l~~~~~~~~eii~~v~~~-~~~~v~vk~r~~~~~~~~~~~~~~~l~~~G 151 (231)
T cd02801 95 VTKGGAGAALLKDPELVAEIVRAVREA-VPIPVTVKIRLGWDDEEETLELAKALEDAG 151 (231)
T ss_pred HhCCCeeehhcCCHHHHHHHHHHHHHh-cCCCEEEEEeeccCCchHHHHHHHHHHHhC
Confidence 345667754444334477778777643 346643222322211124455555555444
No 144
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=21.50 E-value=2.1e+02 Score=22.15 Aligned_cols=55 Identities=20% Similarity=0.154 Sum_probs=33.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhc---CCCeEeeeccChh--HHHHHHHHHHHHHhCCccH
Q 039296 14 GCGAFGGDPELKAIIQWLAASQA---SRPFVLYYTFGID--ALQNLDQITQWILSHEWTV 68 (116)
Q Consensus 14 GCGaFgGD~qLK~lIQwiAAS~A---gr~~l~Y~tf~d~--~l~~l~~v~~~l~~k~~tV 68 (116)
|.|.--.|.-..+.+|.++.... ++..|++.|-+.. ....++++++.+.+.+++|
T Consensus 138 ~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~~~~~~~~~~~~~~~~v~v 197 (296)
T TIGR03436 138 GGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNRSRDTLERAIDAAQRADVAI 197 (296)
T ss_pred CCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcchHHHHHHHHHHHHHcCCEE
Confidence 34443344434555777776664 5666677776642 2346788888887777543
No 145
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=21.16 E-value=1.8e+02 Score=21.52 Aligned_cols=55 Identities=9% Similarity=0.169 Sum_probs=35.7
Q ss_pred CCccCCCC--HHHHHHHHHHHH-----HhcCCCeEeeeccCh---hHHHHHHHHHHHHHhCCccH
Q 039296 14 GCGAFGGD--PELKAIIQWLAA-----SQASRPFVLYYTFGI---DALQNLDQITQWILSHEWTV 68 (116)
Q Consensus 14 GCGaFgGD--~qLK~lIQwiAA-----S~Agr~~l~Y~tf~d---~~l~~l~~v~~~l~~k~~tV 68 (116)
|+..+.|+ +++|..+.++.. .+.+++.-.+.+.+- ....-+..+...+..+++.|
T Consensus 76 gsPty~g~~~~~lk~fld~~~~~~~~~~l~gK~~~~f~s~g~~~Gg~~~~l~~l~~~~~~~gm~v 140 (200)
T PRK03767 76 GTPTRFGNMAGQMRNFLDQTGGLWAKGALVGKVGSVFTSTGTQHGGQETTITSTHTTLLHHGMVI 140 (200)
T ss_pred EecccCCCchHHHHHHHHHhccccccCCccCCEEEEEEeCCCCCCChHHHHHHHHHHHHHcCCEE
Confidence 34444443 789999999852 466888655666653 22345777777777788765
No 146
>PF02542 YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C-methyl-D-erythritol 2,4-cyclodiphosphate) synthetase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis, isoprenoids being essential in all organisms. Isoprenoids can also be synthesized through the mevalonate pathway. The non-mevolante route is used by many bacteria and human pathogens, including Mycobacterium tuberculosis and Plasmodium falciparum. This route appears to involve seven enzymes. MECDP synthetase catalyses the intramolecular attack by a phosphate group on a diphosphate, with cytidine monophosphate (CMP) acting as the leaving group to give the cyclic diphosphate product MEDCP. The enzyme is a trimer with three active sites shared between adjacent copies of the protein. The enzyme also has two metal binding sites, the metals playing key roles in catalysis[]. A number of proteins from eukaryotes and prokaryotes share this common N-terminal signature and appear to be involved in terpenoid biosynthesis. The YgbB protein is a putative enzyme of this type [].; GO: 0008685 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity, 0016114 terpenoid biosynthetic process; PDB: 3T80_B 3GHZ_A 2PMP_A 3F6M_A 3FPI_A 3RE3_A 1T0A_C 1W57_A 1W55_A 3B6N_A ....
Probab=21.16 E-value=86 Score=23.54 Aligned_cols=54 Identities=15% Similarity=0.137 Sum_probs=38.0
Q ss_pred cCCCCHHHHHHHHHHHHHhcCCCeEeeeccChhHHH------HHHHHHHHHHhCCccHHH
Q 039296 17 AFGGDPELKAIIQWLAASQASRPFVLYYTFGIDALQ------NLDQITQWILSHEWTVRD 70 (116)
Q Consensus 17 aFgGD~qLK~lIQwiAAS~Agr~~l~Y~tf~d~~l~------~l~~v~~~l~~k~~tVgd 70 (116)
.--||.-+-+++--|..+.+--+.=.+|+-.|++.+ -|+++++.+++++|++..
T Consensus 34 HSDgDVl~HAi~DAlLGA~glgDIG~~Fpd~d~~~k~~~S~~lL~~~~~~~~~~g~~i~n 93 (157)
T PF02542_consen 34 HSDGDVLLHAIIDALLGAAGLGDIGTHFPDTDPKYKGADSRILLKEVVELLREKGYRIVN 93 (157)
T ss_dssp SSS--HHHHHHHHHHHHHTTS-THHHHSTTTSGGGTTCSHHHHHHHHHHHHHHTTEEEEE
T ss_pred cChHHHHHHHHHHHHHHhccCCcccccCCCCChhhCCCCHHHHHHHHHHHHHHcCcEEEE
Confidence 467999999999988877766664456666665543 388999999999986643
No 147
>PRK14866 hypothetical protein; Provisional
Probab=21.13 E-value=61 Score=28.24 Aligned_cols=26 Identities=42% Similarity=0.828 Sum_probs=21.8
Q ss_pred eccccCCccCCCCHH---------HHHHHHHHHHH
Q 039296 9 ATGNWGCGAFGGDPE---------LKAIIQWLAAS 34 (116)
Q Consensus 9 ~TGnWGCGaFgGD~q---------LK~lIQwiAAS 34 (116)
.|||||=..|||+|. +|.+++-|+..
T Consensus 92 ~tGN~~~a~~GG~p~~la~a~P~~~~~lL~~l~~~ 126 (451)
T PRK14866 92 FTGNFGPAEYGGEPGSLAPAAPNAMKAVLEALAEH 126 (451)
T ss_pred CCCCCChhhcCCCCCccccCCHHHHHHHHHHHHHh
Confidence 589999988999986 78889988654
No 148
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=21.02 E-value=2e+02 Score=19.93 Aligned_cols=34 Identities=6% Similarity=0.211 Sum_probs=23.4
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVE 77 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~ 77 (116)
|-.|++++++.++ ++..+++-|+++.++-.++..
T Consensus 35 ~R~Y~~~~l~~l~-~I~~l~~~G~sl~eI~~~l~~ 68 (124)
T TIGR02051 35 YRRYPEETVKRLR-FIKRAQELGFSLEEIGGLLGL 68 (124)
T ss_pred CEeECHHHHHHHH-HHHHHHHCCCCHHHHHHHHhc
Confidence 4456666676664 455677888888888887753
No 149
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=20.81 E-value=2.2e+02 Score=18.82 Aligned_cols=35 Identities=14% Similarity=0.406 Sum_probs=25.9
Q ss_pred eeccChhHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Q 039296 43 YYTFGIDALQNLDQITQWILSHEWTVRDLWNMMVEY 78 (116)
Q Consensus 43 Y~tf~d~~l~~l~~v~~~l~~k~~tVgdL~~~L~~y 78 (116)
|..|+++++..+..+. .+++.|+++.++-.++...
T Consensus 36 ~R~y~~~di~~l~~i~-~lr~~g~~l~~i~~~~~~~ 70 (103)
T cd01106 36 YRLYTEEDLERLQQIL-FLKELGFSLKEIKELLKDP 70 (103)
T ss_pred ceeeCHHHHHHHHHHH-HHHHcCCCHHHHHHHHHcC
Confidence 4456777777776654 5778999999999888654
No 150
>PRK13503 transcriptional activator RhaS; Provisional
Probab=20.50 E-value=2.2e+02 Score=21.46 Aligned_cols=44 Identities=20% Similarity=0.264 Sum_probs=28.7
Q ss_pred HHHHHHHHH---hCCccHHHHHHHHH---HHHHhhhcCCCcchhHHhhhh
Q 039296 54 LDQITQWIL---SHEWTVRDLWNMMV---EYSSQRLNGRTNLGFFAWLLP 97 (116)
Q Consensus 54 l~~v~~~l~---~k~~tVgdL~~~L~---~y~~~~~~~~~~~~lf~wLl~ 97 (116)
+.++.+.|. .+.+||.++-+.+. .|..+...+....++.+||.+
T Consensus 173 i~~~~~~I~~~~~~~~tl~~lA~~~~lS~~~l~r~Fk~~~G~S~~~yi~~ 222 (278)
T PRK13503 173 LNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNR 222 (278)
T ss_pred HHHHHHHHHHhhcCCCCHHHHHHHHCCCHHHHHHHHHHHhCcCHHHHHHH
Confidence 445555554 34788888888872 444455555667888888864
No 151
>PF00771 FHIPEP: FHIPEP family; InterPro: IPR001712 The Flagellar/Hr/Invasion Proteins Export Pore (FHIPEP) family [, ] consists of a number of proteins that constitute the type III secretion (or signal peptide-independent) pathway apparatus [, ]. This mechanism translocates proteins lacking an N-terminal signal peptide across the cell membrane in one step, as it does not require an intermediate periplasmic process to cleave the signal peptide. It is a common pathway amongst Gram-negative bacteria for secreting toxic and flagellar proteins. The pathway apparatus comprises three components: two within the inner membrane and one within the outer []. An FHIPEP protein is located within the inner membrane, although it is unknown which component it constitutes. FHIPEP proteins have all about 700 amino-acid residues. Within the sequence, the N terminus is highly conserved and hydrophobic, suggesting that this terminus is embedded within the membrane, with 6-8 transmembrane (TM) domains, while the C terminus is less conserved and appears to be devoid of TM regions. It is possible that members of the FHIPEP family serve as pores for the export of specific proteins.; GO: 0009306 protein secretion, 0016020 membrane; PDB: 3MIX_A 2X4A_A 3LW9_A 2X49_A 3MYD_A 3A5I_A.
Probab=20.46 E-value=1.7e+02 Score=26.56 Aligned_cols=46 Identities=11% Similarity=0.177 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhCCccHHHHHHHHHHHHHhhhcCCCcchhHHhhhh
Q 039296 52 QNLDQITQWILSHEWTVRDLWNMMVEYSSQRLNGRTNLGFFAWLLP 97 (116)
Q Consensus 52 ~~l~~v~~~l~~k~~tVgdL~~~L~~y~~~~~~~~~~~~lf~wLl~ 97 (116)
.++++|.+.+.+.++++.|+-.+|....+....+++...|-+++..
T Consensus 505 ~~l~~VLq~LL~E~VsIRnl~~ILEaLae~a~~~kD~~~LtE~VR~ 550 (658)
T PF00771_consen 505 GRLQEVLQRLLRERVSIRNLRTILEALAEWAPREKDPDMLTEYVRQ 550 (658)
T ss_dssp HHHHHHHHHHHHTT-----HHHHHHHHHHHCCCGTSHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCcccHHHHHHHHHHHhhccCChHHHHHHHHH
Confidence 4677888888888888888877776554333223333333343333
No 152
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=20.36 E-value=2.7e+02 Score=21.06 Aligned_cols=45 Identities=13% Similarity=0.135 Sum_probs=26.6
Q ss_pred HHHHHHHH-HHHhcCCCeEeeeccCh-------hHH----HHHHHHHHHHHhCCccH
Q 039296 24 LKAIIQWL-AASQASRPFVLYYTFGI-------DAL----QNLDQITQWILSHEWTV 68 (116)
Q Consensus 24 LK~lIQwi-AAS~Agr~~l~Y~tf~d-------~~l----~~l~~v~~~l~~k~~tV 68 (116)
++.+-++| .|+..|.+.|..++... +.. +.++++.+..+++++++
T Consensus 89 ~~~~~~~i~~a~~lGa~~i~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~l 145 (275)
T PRK09856 89 LDMIKLAMDMAKEMNAGYTLISAAHAGYLTPPNVIWGRLAENLSELCEYAENIGMDL 145 (275)
T ss_pred HHHHHHHHHHHHHhCCCEEEEcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEE
Confidence 34444454 78888999776654321 111 34677777777777643
No 153
>KOG2649 consensus Zinc carboxypeptidase [General function prediction only]
Probab=20.31 E-value=70 Score=28.31 Aligned_cols=31 Identities=29% Similarity=0.518 Sum_probs=26.1
Q ss_pred CHHHHHHHHHH-------HHHhcCCCeEeeeccChhHH
Q 039296 21 DPELKAIIQWL-------AASQASRPFVLYYTFGIDAL 51 (116)
Q Consensus 21 D~qLK~lIQwi-------AAS~Agr~~l~Y~tf~d~~l 51 (116)
-|+.+++++|| .|.+.|=.+++-|+|++..-
T Consensus 234 ~pEt~Avm~W~~~~pFvLSAnLHGG~lvanYPfD~~~~ 271 (500)
T KOG2649|consen 234 QPETIAVMKWLRDIPFVLSANLHGGALVANYPFDDTED 271 (500)
T ss_pred CccHHHHHHHHhhcceeeeccccCCceEEEccccCCcc
Confidence 48999999996 78899988888889998544
No 154
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=20.30 E-value=1.4e+02 Score=22.69 Aligned_cols=44 Identities=14% Similarity=0.165 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhcCCCeEeeeccChhHHHHHHHHHHHHHhCCccH
Q 039296 25 KAIIQWLAASQASRPFVLYYTFGIDALQNLDQITQWILSHEWTV 68 (116)
Q Consensus 25 K~lIQwiAAS~Agr~~l~Y~tf~d~~l~~l~~v~~~l~~k~~tV 68 (116)
..+++.+....-.-.+|..|.-.....+-|.++++.++++|++.
T Consensus 174 ~~~~~~v~~~~~~g~IiLlHd~~~~t~~aL~~ii~~lk~~Gy~f 217 (224)
T TIGR02884 174 QYAYKQIMKKIHPGAILLLHAVSKDNAEALDKIIKDLKEQGYTF 217 (224)
T ss_pred HHHHHHHHhcCCCCcEEEEECCCCCHHHHHHHHHHHHHHCCCEE
Confidence 34555554443333455555433334567999999999999654
No 155
>PF10036 RLL: Putative carnitine deficiency-associated protein; InterPro: IPR019265 This family of proteins conserved from nematodes to humans is of approximately 250 amino acids. It is purported to be carnitine deficiency-associated protein but this could not be confirmed. It carries a characteristic RLL sequence-motif. The function is unknown.
Probab=20.25 E-value=1.8e+02 Score=23.01 Aligned_cols=53 Identities=17% Similarity=0.361 Sum_probs=31.7
Q ss_pred cChhHHHHHHHHHHHHHh--------------CCccHHHHHHHHHHHHHhh---hcCCCcchhHHhhhhh
Q 039296 46 FGIDALQNLDQITQWILS--------------HEWTVRDLWNMMVEYSSQR---LNGRTNLGFFAWLLPS 98 (116)
Q Consensus 46 f~d~~l~~l~~v~~~l~~--------------k~~tVgdL~~~L~~y~~~~---~~~~~~~~lf~wLl~~ 98 (116)
|+..+-++|..+|-.|++ ++++..+--..+.+|++.. .+...+....+|||..
T Consensus 17 ~n~~d~~~fr~lVvWLEDqKIR~Y~iedR~~LR~i~s~~W~~~~~kYl~dl~cP~~~~~~~~~ldWLL~~ 86 (249)
T PF10036_consen 17 FNIDDEEEFRSLVVWLEDQKIRHYKIEDREKLRNIDSSDWPKAFEKYLKDLGCPFSSESRQEQLDWLLGL 86 (249)
T ss_pred CCCCCHHHHHHHHHHHhhhhhccCCHhhHHHHhcCCcchHHHHHHHHHHhcCCCCcchhHHHHHHHHHHH
Confidence 443344455666655554 2333344344678898773 2456788999999864
No 156
>PF08763 Ca_chan_IQ: Voltage gated calcium channel IQ domain; InterPro: IPR014873 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. The voltage-gated calcium channel alpha 1 subunit contains an IQ domain, named for its isoleucine-glutamine (IQ) motif, which interacts with hydrophobic pockets of Ca2+/calmodulin []. The interaction regulates two self-regulatory calcium dependent feedback mechanisms, calcium dependent inactivation (CDI), and calcium-dependent facilitation (CDF). ; PDB: 3OXQ_F 2F3Z_B 3G43_E 2F3Y_B 2BE6_D 3DVM_B 3BXK_D 2VAY_B 3DVK_B 3BXL_B ....
Probab=20.19 E-value=59 Score=18.67 Aligned_cols=18 Identities=28% Similarity=0.497 Sum_probs=11.9
Q ss_pred CCccHHHHHHHHH--HHHHh
Q 039296 64 HEWTVRDLWNMMV--EYSSQ 81 (116)
Q Consensus 64 k~~tVgdL~~~L~--~y~~~ 81 (116)
..+|||.+|-.++ +|.++
T Consensus 2 d~~TVGK~YAt~lI~dyfr~ 21 (35)
T PF08763_consen 2 DEVTVGKFYATLLIQDYFRQ 21 (35)
T ss_dssp --CCCHHHHHHHHHHHHHHH
T ss_pred CcchhHHHHHHHHHHHHHHH
Confidence 4689999999775 55443
Done!