Query 008791
Match_columns 553
No_of_seqs 360 out of 1629
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 16:37:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008791.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008791hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00403 HMA: Heavy-metal-asso 99.2 1.1E-10 2.3E-15 92.6 9.0 58 14-71 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.1 2.8E-10 6E-15 94.1 9.4 65 11-75 2-70 (71)
3 KOG1603 Copper chaperone [Inor 98.9 5.9E-09 1.3E-13 86.6 9.0 66 11-76 5-71 (73)
4 KOG4656 Copper chaperone for s 98.7 1.1E-07 2.3E-12 93.4 10.3 70 11-80 7-76 (247)
5 PLN02957 copper, zinc superoxi 98.2 9.9E-06 2.1E-10 81.5 10.6 71 11-81 6-76 (238)
6 PRK10671 copA copper exporting 98.0 1.3E-05 2.8E-10 93.4 8.5 64 11-76 3-67 (834)
7 TIGR00003 copper ion binding p 97.8 0.00016 3.5E-09 52.7 8.9 61 12-72 3-67 (68)
8 COG2217 ZntA Cation transport 97.8 4.9E-05 1.1E-09 87.3 8.0 63 11-74 2-69 (713)
9 KOG0207 Cation transport ATPas 97.6 0.00013 2.9E-09 84.5 8.2 67 11-77 146-216 (951)
10 KOG0207 Cation transport ATPas 97.2 0.00085 1.8E-08 78.0 7.5 71 11-81 69-143 (951)
11 PRK10671 copA copper exporting 96.9 0.0036 7.8E-08 73.3 9.5 65 12-76 100-165 (834)
12 PRK11033 zntA zinc/cadmium/mer 96.4 0.0079 1.7E-07 69.9 8.0 65 11-75 53-119 (741)
13 PF06524 NOA36: NOA36 protein; 94.5 0.023 5E-07 58.3 2.4 11 19-29 39-49 (314)
14 TIGR02052 MerP mercuric transp 94.4 0.45 9.8E-06 38.3 9.5 63 12-74 24-90 (92)
15 KOG1832 HIV-1 Vpr-binding prot 93.3 0.039 8.6E-07 64.4 1.8 6 20-25 1215-1220(1516)
16 PRK13748 putative mercuric red 92.9 0.57 1.2E-05 52.2 10.1 68 15-82 4-74 (561)
17 cd00371 HMA Heavy-metal-associ 91.7 1.6 3.4E-05 28.5 7.6 54 17-70 4-60 (63)
18 KOG1832 HIV-1 Vpr-binding prot 90.3 0.15 3.2E-06 59.9 2.0 14 32-45 1296-1309(1516)
19 COG1888 Uncharacterized protei 87.8 2.6 5.6E-05 37.3 7.4 67 8-75 4-79 (97)
20 PF02680 DUF211: Uncharacteriz 85.6 4.4 9.6E-05 36.1 7.8 64 11-75 5-77 (95)
21 PF05764 YL1: YL1 nuclear prot 85.4 0.74 1.6E-05 46.8 3.3 10 187-196 35-44 (240)
22 KOG1991 Nuclear transport rece 80.5 0.92 2E-05 54.0 2.0 18 20-37 744-761 (1010)
23 PF12253 CAF1A: Chromatin asse 78.9 2.3 4.9E-05 36.5 3.3 19 174-192 31-49 (77)
24 KOG3241 Uncharacterized conser 78.3 1.4 3.1E-05 43.3 2.2 15 19-33 43-57 (227)
25 PRK10553 assembly protein for 77.2 15 0.00034 32.0 8.1 46 22-67 16-62 (87)
26 PF04889 Cwf_Cwc_15: Cwf15/Cwc 76.3 1.3 2.8E-05 45.5 1.3 7 46-52 37-43 (244)
27 PF11705 RNA_pol_3_Rpc31: DNA- 75.7 2.1 4.5E-05 43.2 2.7 10 87-96 121-130 (233)
28 KOG1991 Nuclear transport rece 75.1 1.7 3.6E-05 51.9 2.0 15 57-71 802-816 (1010)
29 PF01206 TusA: Sulfurtransfera 74.4 7.4 0.00016 31.4 5.1 55 14-77 2-59 (70)
30 PTZ00415 transmission-blocking 73.4 2.1 4.7E-05 53.7 2.4 9 183-191 150-158 (2849)
31 PRK14054 methionine sulfoxide 71.5 9.8 0.00021 37.2 6.0 34 11-49 4-37 (172)
32 cd04883 ACT_AcuB C-terminal AC 71.4 26 0.00057 27.7 7.6 59 15-73 4-69 (72)
33 PF01883 DUF59: Domain of unkn 70.1 6.7 0.00014 31.9 3.9 32 12-43 35-72 (72)
34 KOG2023 Nuclear transport rece 69.0 2.5 5.5E-05 48.9 1.6 18 21-38 95-112 (885)
35 PF02724 CDC45: CDC45-like pro 68.6 3.6 7.8E-05 47.5 2.8 26 14-39 3-29 (622)
36 KOG4369 RTK signaling protein 65.3 5.5 0.00012 48.7 3.4 15 477-491 2067-2081(2131)
37 KOG0772 Uncharacterized conser 65.0 4.3 9.2E-05 45.8 2.3 12 62-73 41-52 (641)
38 PF03927 NapD: NapD protein; 63.4 29 0.00063 29.5 6.6 46 22-68 14-60 (79)
39 cd02410 archeal_CPSF_KH The ar 63.1 30 0.00066 33.1 7.3 84 11-96 37-131 (145)
40 KOG4364 Chromatin assembly fac 61.1 6.9 0.00015 45.3 3.1 18 19-36 366-383 (811)
41 PRK00058 methionine sulfoxide 60.4 23 0.00049 35.9 6.3 29 22-50 52-80 (213)
42 PF02724 CDC45: CDC45-like pro 59.6 6.4 0.00014 45.4 2.6 20 13-32 28-48 (622)
43 PF14437 MafB19-deam: MafB19-l 59.0 18 0.00039 34.7 5.0 41 11-52 100-142 (146)
44 KOG2038 CAATT-binding transcri 58.6 5.2 0.00011 47.0 1.6 18 22-39 594-611 (988)
45 PF13732 DUF4162: Domain of un 57.0 33 0.00072 28.3 5.9 48 32-80 26-74 (84)
46 cd04908 ACT_Bt0572_1 N-termina 56.5 73 0.0016 25.2 7.6 59 15-73 4-65 (66)
47 PRK05528 methionine sulfoxide 54.3 34 0.00074 33.0 6.2 29 22-50 8-36 (156)
48 cd04906 ACT_ThrD-I_1 First of 54.1 97 0.0021 26.1 8.3 62 14-76 3-73 (85)
49 KOG3241 Uncharacterized conser 53.8 8.5 0.00019 38.1 2.0 7 20-26 69-75 (227)
50 PF14283 DUF4366: Domain of un 53.0 8.5 0.00018 39.0 1.9 16 54-69 103-118 (218)
51 PF09580 Spore_YhcN_YlaJ: Spor 52.8 39 0.00086 32.1 6.4 33 21-53 73-105 (177)
52 PRK11018 hypothetical protein; 52.4 51 0.0011 27.8 6.3 56 12-76 8-66 (78)
53 PF10628 CotE: Outer spore coa 49.4 9.8 0.00021 37.6 1.7 11 23-33 3-13 (182)
54 PF11702 DUF3295: Protein of u 49.1 9.8 0.00021 42.9 1.9 12 536-548 489-500 (507)
55 KOG3648 Golgi apparatus protei 49.0 20 0.00043 41.7 4.2 17 143-159 68-84 (1179)
56 PRK13014 methionine sulfoxide 47.6 33 0.00071 34.1 5.0 34 11-49 9-42 (186)
57 COG3062 NapD Uncharacterized p 47.1 46 0.00099 29.7 5.2 46 22-68 17-63 (94)
58 PHA03346 US22 family homolog; 45.5 20 0.00044 40.7 3.6 9 30-38 189-197 (520)
59 PF11111 CENP-M: Centromere pr 45.4 90 0.002 30.9 7.6 79 11-98 66-153 (176)
60 PTZ00329 eukaryotic translatio 44.8 15 0.00033 35.4 2.2 6 47-52 44-49 (155)
61 TIGR03675 arCOG00543 arCOG0054 44.8 54 0.0012 38.1 7.0 72 11-82 54-136 (630)
62 KOG0296 Angio-associated migra 43.5 11 0.00024 40.9 1.1 8 263-270 98-105 (399)
63 PF09849 DUF2076: Uncharacteri 42.9 26 0.00056 36.3 3.6 14 26-39 7-20 (247)
64 PTZ00007 (NAP-L) nucleosome as 41.4 24 0.00053 38.0 3.3 7 32-38 125-131 (337)
65 PF01625 PMSR: Peptide methion 41.4 80 0.0017 30.3 6.5 27 22-48 7-33 (155)
66 cd04909 ACT_PDH-BS C-terminal 40.9 1E+02 0.0022 24.2 6.1 59 14-72 3-69 (69)
67 PRK12766 50S ribosomal protein 40.1 11 0.00023 38.7 0.3 7 64-70 18-24 (232)
68 cd03421 SirA_like_N SirA_like_ 39.7 70 0.0015 25.6 5.0 48 19-76 7-56 (67)
69 TIGR03406 FeS_long_SufT probab 39.7 34 0.00073 33.5 3.7 34 12-45 114-153 (174)
70 PF08777 RRM_3: RNA binding mo 38.7 1E+02 0.0023 27.5 6.4 55 14-68 3-60 (105)
71 TIGR02945 SUF_assoc FeS assemb 38.7 26 0.00057 30.3 2.6 27 20-46 49-78 (99)
72 PRK05550 bifunctional methioni 38.7 65 0.0014 34.0 5.8 30 21-50 133-162 (283)
73 COG4530 Uncharacterized protei 37.9 24 0.00052 32.5 2.2 7 21-27 12-18 (129)
74 PF14492 EFG_II: Elongation Fa 37.7 1.1E+02 0.0024 25.5 6.0 61 13-73 6-72 (75)
75 KOG2548 SWAP mRNA splicing reg 37.5 22 0.00048 40.4 2.3 16 56-71 77-92 (653)
76 COG3076 Uncharacterized protei 36.8 17 0.00038 33.4 1.1 8 67-74 52-59 (135)
77 PF09849 DUF2076: Uncharacteri 36.4 34 0.00075 35.3 3.4 18 20-37 24-41 (247)
78 PTZ00482 membrane-attack compl 36.4 21 0.00045 42.8 2.0 19 28-46 12-30 (844)
79 COG1782 Predicted metal-depend 35.8 88 0.0019 35.9 6.5 84 11-96 60-154 (637)
80 KOG3064 RNA-binding nuclear pr 35.8 14 0.0003 38.5 0.4 10 41-50 51-60 (303)
81 PRK11670 antiporter inner memb 35.6 85 0.0018 33.9 6.4 55 25-79 67-146 (369)
82 KOG4730 D-arabinono-1, 4-lacto 34.5 23 0.0005 39.7 1.8 60 8-73 75-137 (518)
83 PF11491 DUF3213: Protein of u 34.5 39 0.00084 29.7 2.8 50 24-73 12-64 (88)
84 PF05046 Img2: Mitochondrial l 32.9 1.9E+02 0.0042 25.0 6.9 58 12-70 29-87 (87)
85 PRK07334 threonine dehydratase 32.8 1.5E+02 0.0033 32.2 7.8 64 13-76 327-403 (403)
86 PF06752 E_Pc_C: Enhancer of P 32.8 48 0.001 34.0 3.6 16 143-158 13-28 (230)
87 cd04888 ACT_PheB-BS C-terminal 32.5 1.1E+02 0.0025 24.2 5.2 32 12-43 42-74 (76)
88 TIGR02300 FYDLN_acid conserved 32.2 33 0.00071 32.3 2.2 9 20-28 11-19 (129)
89 cd04885 ACT_ThrD-I Tandem C-te 31.6 1.7E+02 0.0038 23.3 6.2 54 20-73 7-67 (68)
90 TIGR00377 ant_ant_sig anti-ant 31.5 2.9E+02 0.0063 23.3 7.9 63 13-77 14-83 (108)
91 COG0225 MsrA Peptide methionin 30.5 1.2E+02 0.0026 30.0 5.7 35 11-50 7-41 (174)
92 KOG3064 RNA-binding nuclear pr 29.7 27 0.00058 36.5 1.3 6 44-49 44-49 (303)
93 KOG0127 Nucleolar protein fibr 29.3 25 0.00054 40.2 1.0 15 60-74 133-147 (678)
94 PF14424 Toxin-deaminase: The 29.2 88 0.0019 29.3 4.5 29 12-40 98-127 (133)
95 PF13192 Thioredoxin_3: Thiore 28.9 58 0.0013 26.7 3.0 13 13-26 3-15 (76)
96 PF08210 APOBEC_N: APOBEC-like 26.4 1.9E+02 0.0042 28.5 6.6 63 11-76 74-146 (188)
97 KOG3671 Actin regulatory prote 26.4 30 0.00065 39.1 1.1 16 37-52 64-79 (569)
98 cd00291 SirA_YedF_YeeD SirA, Y 26.2 1.9E+02 0.004 22.9 5.4 49 19-76 7-57 (69)
99 PRK02048 4-hydroxy-3-methylbut 26.2 59 0.0013 37.7 3.3 25 15-39 514-549 (611)
100 cd02966 TlpA_like_family TlpA- 26.0 3.5E+02 0.0077 21.8 7.3 20 57-76 64-83 (116)
101 PF00578 AhpC-TSA: AhpC/TSA fa 26.0 3E+02 0.0066 23.5 7.2 51 17-77 33-89 (124)
102 cd03420 SirA_RHOD_Pry_redox Si 25.8 1.9E+02 0.0041 23.5 5.4 49 19-76 7-57 (69)
103 KOG4364 Chromatin assembly fac 25.7 48 0.001 38.8 2.5 10 183-192 518-527 (811)
104 TIGR00401 msrA methionine-S-su 25.5 1.9E+02 0.0042 27.6 6.2 29 22-50 7-35 (149)
105 COG2177 FtsX Cell division pro 25.4 3.2E+02 0.007 29.0 8.4 22 22-43 71-92 (297)
106 KOG0699 Serine/threonine prote 25.0 41 0.0009 36.9 1.7 57 12-68 50-114 (542)
107 PRK14425 acylphosphatase; Prov 24.5 3.9E+02 0.0083 23.4 7.4 56 12-68 7-67 (94)
108 TIGR02159 PA_CoA_Oxy4 phenylac 24.5 85 0.0018 29.9 3.6 56 13-70 27-88 (146)
109 PF14257 DUF4349: Domain of un 24.4 3.4E+02 0.0074 27.6 8.2 59 11-69 50-118 (262)
110 PF13740 ACT_6: ACT domain; PD 24.3 3E+02 0.0065 22.5 6.5 56 12-67 2-64 (76)
111 PRK14437 acylphosphatase; Prov 24.1 3.5E+02 0.0075 24.6 7.2 56 11-67 23-83 (109)
112 PRK00299 sulfur transfer prote 23.9 3.1E+02 0.0068 23.2 6.6 55 12-75 9-66 (81)
113 cd03423 SirA SirA (also known 23.8 2.1E+02 0.0046 23.2 5.4 49 19-76 7-57 (69)
114 cd08626 PI-PLCc_beta4 Catalyti 23.8 1.7E+02 0.0036 30.6 5.8 53 19-73 26-89 (257)
115 KOG4032 Uncharacterized conser 23.8 58 0.0013 32.3 2.4 16 55-70 60-75 (184)
116 KOG2393 Transcription initiati 23.3 55 0.0012 37.3 2.4 33 190-223 278-310 (555)
117 PF14026 DUF4242: Protein of u 23.0 4.1E+02 0.0089 22.5 7.1 51 24-74 20-73 (77)
118 TIGR03143 AhpF_homolog putativ 22.8 1.2E+02 0.0025 34.4 4.9 17 12-28 477-495 (555)
119 TIGR02886 spore_II_AA anti-sig 22.8 4.2E+02 0.0091 22.5 7.4 66 12-78 9-80 (106)
120 COG0217 Uncharacterized conser 22.7 1.2E+02 0.0026 31.4 4.4 46 25-74 150-196 (241)
121 PRK11200 grxA glutaredoxin 1; 22.7 1.7E+02 0.0037 24.2 4.7 27 19-46 9-39 (85)
122 COG4747 ACT domain-containing 22.6 3.4E+02 0.0075 25.6 6.9 60 12-72 69-133 (142)
123 cd08623 PI-PLCc_beta1 Catalyti 22.5 1.8E+02 0.004 30.4 5.8 52 20-73 27-89 (258)
124 KOG3555 Ca2+-binding proteogly 22.4 64 0.0014 35.2 2.5 12 89-101 212-223 (434)
125 PF10991 DUF2815: Protein of u 22.1 34 0.00075 33.7 0.5 8 59-66 45-52 (181)
126 PF11080 DUF2622: Protein of u 21.7 6E+02 0.013 22.9 8.3 68 1-72 1-76 (96)
127 KOG0127 Nucleolar protein fibr 21.6 55 0.0012 37.6 1.9 27 25-51 57-87 (678)
128 PTZ00248 eukaryotic translatio 21.5 55 0.0012 35.1 1.9 23 13-35 185-209 (319)
129 cd02951 SoxW SoxW family; SoxW 21.2 3.7E+02 0.008 23.5 6.9 61 13-75 17-90 (125)
130 KOG1274 WD40 repeat protein [G 20.9 68 0.0015 38.6 2.6 47 176-222 319-388 (933)
131 KOG0339 ATP-dependent RNA heli 20.9 1.7E+02 0.0037 33.8 5.5 70 20-98 447-518 (731)
132 PRK14444 acylphosphatase; Prov 20.8 4.7E+02 0.01 22.7 7.2 62 11-73 4-70 (92)
133 PF04312 DUF460: Protein of un 20.7 4.8E+02 0.01 25.0 7.6 38 40-77 45-84 (138)
134 cd08633 PI-PLCc_eta2 Catalytic 20.6 2.4E+02 0.0053 29.5 6.2 53 19-73 26-87 (254)
135 PRK14440 acylphosphatase; Prov 20.5 4.1E+02 0.009 23.0 6.8 57 11-68 3-64 (90)
136 cd03422 YedF YedF is a bacteri 20.4 2.4E+02 0.0051 23.0 5.0 49 19-76 7-57 (69)
137 TIGR02898 spore_YhcN_YlaJ spor 20.3 2.4E+02 0.0052 27.3 5.7 31 23-53 54-84 (158)
138 PRK08198 threonine dehydratase 20.2 5.7E+02 0.012 27.6 9.3 65 11-75 326-403 (404)
139 PRK00694 4-hydroxy-3-methylbut 20.2 77 0.0017 36.7 2.7 25 15-39 506-541 (606)
140 TIGR02300 FYDLN_acid conserved 20.2 70 0.0015 30.1 2.0 12 19-30 27-38 (129)
141 PF04972 BON: BON domain; Int 20.2 65 0.0014 25.2 1.6 30 26-56 2-34 (64)
No 1
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.19 E-value=1.1e-10 Score=92.57 Aligned_cols=58 Identities=40% Similarity=0.647 Sum_probs=53.5
Q ss_pred EEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEec---CCHHHHHHHHHHcCCc
Q 008791 14 VLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGN---VDPAILIKKLEKLGKH 71 (553)
Q Consensus 14 ~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~---id~eeIikaI~kaGy~ 71 (553)
+|+|. |+|.+|+.+|+++|++++||.++.||+.+++|+|+.. +++++|+++|+++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 58897 9999999999999999999999999999999999843 5679999999999995
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.13 E-value=2.8e-10 Score=94.14 Aligned_cols=65 Identities=37% Similarity=0.615 Sum_probs=58.6
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--e-cCCHHHHHHHHHHcCCceEEc
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--G-NVDPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g-~id~eeIikaI~kaGy~Ael~ 75 (553)
.+++|+|+ |+|.+|+.+|+++|.+++||.+|+|++..++++|+ . .++.++|+++|+++||.+..+
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 46789999 99999999999999999999999999999777666 4 579999999999999998754
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.92 E-value=5.9e-09 Score=86.56 Aligned_cols=66 Identities=56% Similarity=1.001 Sum_probs=61.5
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcC-CceEEcC
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLG-KHAELWG 76 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaG-y~Ael~~ 76 (553)
++++++|.|+|..|+.+|++.|..++||+++.+|....+|||.+.+++..|++.|++.+ .++++|.
T Consensus 5 ~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 5 KTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred cEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEec
Confidence 68899999999999999999999999999999999999999998899999999999887 7777664
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.68 E-value=1.1e-07 Score=93.42 Aligned_cols=70 Identities=33% Similarity=0.540 Sum_probs=66.2
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEcCCCCC
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHAELWGPQKG 80 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~Ael~~~~~~ 80 (553)
-+++|.|.|+|++|+..|++.|..++||.+|+||++...|.|...+.+.+|+.+|+.+|.+|.+.....+
T Consensus 7 ~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~p 76 (247)
T KOG4656|consen 7 YEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGKP 76 (247)
T ss_pred eeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCch
Confidence 3678999999999999999999999999999999999999999999999999999999999999887766
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.18 E-value=9.9e-06 Score=81.54 Aligned_cols=71 Identities=28% Similarity=0.481 Sum_probs=63.2
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEcCCCCCC
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHAELWGPQKGS 81 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~Ael~~~~~~~ 81 (553)
++++|.|.|+|.+|+.+|+++|+++++|.++.+++...+++|+..+..++|+++|++++|.++++.....+
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 46678888999999999999999999999999999999999986678889999999999999888765544
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.01 E-value=1.3e-05 Score=93.37 Aligned_cols=64 Identities=25% Similarity=0.455 Sum_probs=57.4
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~Ael~~ 76 (553)
++++|+|+ |+|.+|+.+|+++|+++++|..+.|++. +++|+..++.+.|+++|+++||++++..
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 57889999 9999999999999999999999999994 5566666789999999999999998764
No 7
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.83 E-value=0.00016 Score=52.73 Aligned_cols=61 Identities=20% Similarity=0.399 Sum_probs=51.5
Q ss_pred EEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe---cCCHHHHHHHHHHcCCce
Q 008791 12 SCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG---NVDPAILIKKLEKLGKHA 72 (553)
Q Consensus 12 tv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g---~id~eeIikaI~kaGy~A 72 (553)
++.|.|. ++|..|+.+|++.|..+++|..+.+++...++.|+. .+....|+..|+..+|.+
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 67 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYEV 67 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCCc
Confidence 5678898 899999999999999999999999999999988873 346777777788888754
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.78 E-value=4.9e-05 Score=87.33 Aligned_cols=63 Identities=32% Similarity=0.573 Sum_probs=56.5
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe---cCC-HHHHHHHHHHcCCceEE
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG---NVD-PAILIKKLEKLGKHAEL 74 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g---~id-~eeIikaI~kaGy~Ael 74 (553)
.+++|.|+ |+|.+|+.+|| +|++++||.+++|++.+++++|.. .++ .++++.+|+++||.++.
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 46789999 99999999999 999999999999999999999872 345 78999999999998764
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.62 E-value=0.00013 Score=84.45 Aligned_cols=67 Identities=27% Similarity=0.415 Sum_probs=61.0
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE---ecCCHHHHHHHHHHcCCceEEcCC
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT---GNVDPAILIKKLEKLGKHAELWGP 77 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~---g~id~eeIikaI~kaGy~Ael~~~ 77 (553)
.+++|.|. |+|.+|+.+||+.|.+++||.+++|++.+++++|. ..+.+..|++.|+.++|.+.+...
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~ 216 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRPY 216 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeeec
Confidence 47889999 89999999999999999999999999999999987 458999999999999999876653
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.15 E-value=0.00085 Score=78.00 Aligned_cols=71 Identities=34% Similarity=0.580 Sum_probs=63.5
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE---ecCCHHHHHHHHHHcCCceEEcCCCCCC
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT---GNVDPAILIKKLEKLGKHAELWGPQKGS 81 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~---g~id~eeIikaI~kaGy~Ael~~~~~~~ 81 (553)
.++.|.|. |+|.+|+..||+.|++++||.++.|.+...+.+|. ..++++.|.+.|+++||.+++++.....
T Consensus 69 ~~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~~~~~ 143 (951)
T KOG0207|consen 69 SKCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIESVNGN 143 (951)
T ss_pred ceeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhcccCC
Confidence 47789999 99999999999999999999999999999999987 4579999999999999999987665433
No 11
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.86 E-value=0.0036 Score=73.33 Aligned_cols=65 Identities=28% Similarity=0.486 Sum_probs=57.2
Q ss_pred EEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 008791 12 SCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 12 tv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~Ael~~ 76 (553)
+++|.|. |+|.+|+.+|++.|.++++|.++.+++.+.+++|....++++|.+.|++++|.+.++.
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~~ 165 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAIE 165 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCccccc
Confidence 5668888 8999999999999999999999999999999888755678889999999999876543
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.40 E-value=0.0079 Score=69.88 Aligned_cols=65 Identities=25% Similarity=0.340 Sum_probs=54.4
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe-cCCHHHHHHHHHHcCCceEEc
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG-NVDPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g-~id~eeIikaI~kaGy~Ael~ 75 (553)
.+++|.|+ |+|.+|+.+|+++|.++++|.++.+++.+.++.|.. ....++|..++++++|++..+
T Consensus 53 ~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 53 TRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred ceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 46778898 899999999999999999999999999999988762 112367788889999987654
No 13
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=94.49 E-value=0.023 Score=58.29 Aligned_cols=11 Identities=45% Similarity=1.174 Sum_probs=6.6
Q ss_pred ccchhHHHHHH
Q 008791 19 VDCDGCKQKVK 29 (553)
Q Consensus 19 M~C~sCa~KIE 29 (553)
|.|..|.++-+
T Consensus 39 MeCdkC~r~QK 49 (314)
T PF06524_consen 39 MECDKCQRKQK 49 (314)
T ss_pred ccchhhhhhcc
Confidence 56777765543
No 14
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=94.40 E-value=0.45 Score=38.29 Aligned_cols=63 Identities=25% Similarity=0.384 Sum_probs=47.8
Q ss_pred EEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe---cCCHHHHHHHHHHcCCceEE
Q 008791 12 SCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG---NVDPAILIKKLEKLGKHAEL 74 (553)
Q Consensus 12 tv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g---~id~eeIikaI~kaGy~Ael 74 (553)
++.+.+. ++|..|...++..+...++|..+.+.+...++.+.. ......+...+++.+|.+++
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 4456666 789999999999999999998888888887766651 24556666667778887654
No 15
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.33 E-value=0.039 Score=64.41 Aligned_cols=6 Identities=17% Similarity=0.578 Sum_probs=2.3
Q ss_pred cchhHH
Q 008791 20 DCDGCK 25 (553)
Q Consensus 20 ~C~sCa 25 (553)
+|.-|.
T Consensus 1215 T~~~l~ 1220 (1516)
T KOG1832|consen 1215 TCSPLQ 1220 (1516)
T ss_pred cCcHHH
Confidence 343333
No 16
>PRK13748 putative mercuric reductase; Provisional
Probab=92.89 E-value=0.57 Score=52.18 Aligned_cols=68 Identities=28% Similarity=0.498 Sum_probs=53.1
Q ss_pred EEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe--cCCHHHHHHHHHHcCCceEEcCCCCCCC
Q 008791 15 LRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG--NVDPAILIKKLEKLGKHAELWGPQKGSS 82 (553)
Q Consensus 15 LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g--~id~eeIikaI~kaGy~Ael~~~~~~~s 82 (553)
+.+. ++|.+|..+++..+..+++|..+.+++...++.+.. ....+.+...++..++.++++...+.++
T Consensus 4 i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~~~~~~ 74 (561)
T PRK13748 4 LKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADAPPTDN 74 (561)
T ss_pred EEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCcccccc
Confidence 5566 799999999999999999999999999888877662 2456667777888899887776644333
No 17
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=91.74 E-value=1.6 Score=28.46 Aligned_cols=54 Identities=43% Similarity=0.732 Sum_probs=36.3
Q ss_pred Ee-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEec--CCHHHHHHHHHHcCC
Q 008791 17 VN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGN--VDPAILIKKLEKLGK 70 (553)
Q Consensus 17 Ve-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~--id~eeIikaI~kaGy 70 (553)
+. +.|..|...++..+....+|....+.+....+.+... .....+...+...++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (63)
T cd00371 4 VEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAGY 60 (63)
T ss_pred ECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcCC
Confidence 44 6899999999999998888887777777766555422 244444344444443
No 18
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=90.34 E-value=0.15 Score=59.94 Aligned_cols=14 Identities=14% Similarity=0.226 Sum_probs=5.6
Q ss_pred HhcCCCeeEEEEec
Q 008791 32 LRKIDGVYSTNVDV 45 (553)
Q Consensus 32 L~kl~GV~sV~VDl 45 (553)
|..++....+.|.|
T Consensus 1296 Lh~VP~Ldqc~VtF 1309 (1516)
T KOG1832|consen 1296 LHSVPSLDQCAVTF 1309 (1516)
T ss_pred HhcCccccceEEEe
Confidence 44444443333333
No 19
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=87.81 E-value=2.6 Score=37.32 Aligned_cols=67 Identities=25% Similarity=0.296 Sum_probs=44.2
Q ss_pred ccceEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEE-----ecCCcEE--EEE-ecCCHHHHHHHHHHcCCceEEc
Q 008791 8 KLQQSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNV-----DVEQGKV--TVT-GNVDPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 8 km~qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~V-----DlatgkV--tV~-g~id~eeIikaI~kaGy~Ael~ 75 (553)
.+ ++++|.|- -+-.--..-+.+.|.+++||.-|.+ |.++..+ ||. ..++.++|.+.|++.|-.++.+
T Consensus 4 ~i-RRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSi 79 (97)
T COG1888 4 GI-RRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSI 79 (97)
T ss_pred cc-eeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeeh
Confidence 45 77777776 3533334456667888888765543 3344434 455 4689999999999999766543
No 20
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=85.65 E-value=4.4 Score=36.08 Aligned_cols=64 Identities=23% Similarity=0.339 Sum_probs=43.5
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEe-----cCCcEEEE--Ee-cCCHHHHHHHHHHcCCceEEc
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVD-----VEQGKVTV--TG-NVDPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VD-----latgkVtV--~g-~id~eeIikaI~kaGy~Ael~ 75 (553)
++++|.|- -|-++- ..+.++|.+++||..|.+. ..+..+.| ++ .++.++|.++|++.|-.++.+
T Consensus 5 rRlVLDVlKP~~p~i-~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSI 77 (95)
T PF02680_consen 5 RRLVLDVLKPHEPSI-VELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSI 77 (95)
T ss_dssp EEEEEEEEEESSS-H-HHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEE
T ss_pred eEEEEEeecCCCCCH-HHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEee
Confidence 77788777 455544 3667789999998876654 44454444 44 589999999999999766543
No 21
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=85.36 E-value=0.74 Score=46.84 Aligned_cols=10 Identities=50% Similarity=0.926 Sum_probs=4.3
Q ss_pred CCCCCCCCCC
Q 008791 187 IEDDFDDEEF 196 (553)
Q Consensus 187 ~~~~~~dd~~ 196 (553)
|.++++|+||
T Consensus 35 f~Eee~D~ef 44 (240)
T PF05764_consen 35 FQEEEDDEEF 44 (240)
T ss_pred ccccCCCccc
Confidence 4444444444
No 22
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=80.47 E-value=0.92 Score=54.00 Aligned_cols=18 Identities=17% Similarity=0.523 Sum_probs=12.3
Q ss_pred cchhHHHHHHHHHhcCCC
Q 008791 20 DCDGCKQKVKKVLRKIDG 37 (553)
Q Consensus 20 ~C~sCa~KIEKaL~kl~G 37 (553)
.|.+-++.+|-.+..+.|
T Consensus 744 d~~~a~kLle~iiL~~kg 761 (1010)
T KOG1991|consen 744 DCESACKLLEVIILNCKG 761 (1010)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 566555677777777776
No 23
>PF12253 CAF1A: Chromatin assembly factor 1 subunit A; InterPro: IPR022043 The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A []. The A domain is uniquely required for the progression of S phase in mouse cells [], independent of its ability to promote histone deposition [] but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints [].
Probab=78.88 E-value=2.3 Score=36.51 Aligned_cols=19 Identities=21% Similarity=0.081 Sum_probs=9.2
Q ss_pred cCcccccCCCCCCCCCCCC
Q 008791 174 QHNKDQKHGKFNTIEDDFD 192 (553)
Q Consensus 174 ~~~~~~k~~k~~~~~~~~~ 192 (553)
|..++...+.+....++|.
T Consensus 31 P~~~d~~~lDYdyDSd~EW 49 (77)
T PF12253_consen 31 PFAKDLPNLDYDYDSDDEW 49 (77)
T ss_pred cccccccccceecCCcccc
Confidence 3344445555555554444
No 24
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.27 E-value=1.4 Score=43.33 Aligned_cols=15 Identities=20% Similarity=0.505 Sum_probs=12.4
Q ss_pred ccchhHHHHHHHHHh
Q 008791 19 VDCDGCKQKVKKVLR 33 (553)
Q Consensus 19 M~C~sCa~KIEKaL~ 33 (553)
..|..|...|+..+.
T Consensus 43 gVCqRCkEqieWk~K 57 (227)
T KOG3241|consen 43 GVCQRCKEQIEWKRK 57 (227)
T ss_pred hHHHHHHHHHHHHHH
Confidence 369999999988765
No 25
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=77.23 E-value=15 Score=32.04 Aligned_cols=46 Identities=17% Similarity=0.263 Sum_probs=34.8
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE-ecCCHHHHHHHHHH
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT-GNVDPAILIKKLEK 67 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~-g~id~eeIikaI~k 67 (553)
+.-...|.++|..+++++-...|...+|+.|+ ...+.++++++|+.
T Consensus 16 Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~ 62 (87)
T PRK10553 16 SERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIES 62 (87)
T ss_pred hHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHH
Confidence 44577899999999999888888888888877 44566666665554
No 26
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=76.26 E-value=1.3 Score=45.46 Aligned_cols=7 Identities=14% Similarity=0.207 Sum_probs=2.6
Q ss_pred CCcEEEE
Q 008791 46 EQGKVTV 52 (553)
Q Consensus 46 atgkVtV 52 (553)
..-+|.+
T Consensus 37 sHTkLK~ 43 (244)
T PF04889_consen 37 SHTKLKY 43 (244)
T ss_pred cCCeeee
Confidence 3333333
No 27
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=75.67 E-value=2.1 Score=43.18 Aligned_cols=10 Identities=10% Similarity=0.096 Sum_probs=4.4
Q ss_pred hHHHHHHHhh
Q 008791 87 QNLLNNQFKN 96 (553)
Q Consensus 87 ~~~~~~qfk~ 96 (553)
..+|...++.
T Consensus 121 P~EL~~~~~~ 130 (233)
T PF11705_consen 121 PKELWPTLRK 130 (233)
T ss_pred hHHHHhhccc
Confidence 4455444443
No 28
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=75.12 E-value=1.7 Score=51.92 Aligned_cols=15 Identities=27% Similarity=0.417 Sum_probs=7.3
Q ss_pred CHHHHHHHHHHcCCc
Q 008791 57 DPAILIKKLEKLGKH 71 (553)
Q Consensus 57 d~eeIikaI~kaGy~ 71 (553)
.|...+..|+..++.
T Consensus 802 nP~ltL~iLe~~~~~ 816 (1010)
T KOG1991|consen 802 NPKLTLGILENQGFL 816 (1010)
T ss_pred CcHHHHHHHHHcCCc
Confidence 344445555555543
No 29
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=74.39 E-value=7.4 Score=31.42 Aligned_cols=55 Identities=16% Similarity=0.089 Sum_probs=38.7
Q ss_pred EEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcCC
Q 008791 14 VLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWGP 77 (553)
Q Consensus 14 ~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~~ 77 (553)
+|.+. ..|+...-+++++|.+++-= ..++|. ...+.+.|.+.+++.||++..+..
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~g~~~~~~~~ 59 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEENGYEVVEVEE 59 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHHTEEEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHCCCEEEEEEE
Confidence 34555 59999999999999998421 233333 445678899999999998655533
No 30
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=73.38 E-value=2.1 Score=53.68 Aligned_cols=9 Identities=33% Similarity=0.350 Sum_probs=3.8
Q ss_pred CCCCCCCCC
Q 008791 183 KFNTIEDDF 191 (553)
Q Consensus 183 k~~~~~~~~ 191 (553)
.|+..+|||
T Consensus 150 ~~~~d~~~~ 158 (2849)
T PTZ00415 150 NFVIDDDDE 158 (2849)
T ss_pred ccccCCccc
Confidence 354443333
No 31
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=71.48 E-value=9.8 Score=37.19 Aligned_cols=34 Identities=29% Similarity=0.520 Sum_probs=28.2
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcE
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGK 49 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgk 49 (553)
++++|. ..|-+-+|..+.+++||.++.|=++.+.
T Consensus 4 ~~a~fa-----gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 4 ETAVLA-----GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred eEEEEE-----cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 455555 7888889999999999999999888874
No 32
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=71.39 E-value=26 Score=27.69 Aligned_cols=59 Identities=17% Similarity=0.295 Sum_probs=34.6
Q ss_pred EEEec-cchhHHHHHHHHHhcCC-CeeEEEEecC--CcE--EEEE-ecCCHHHHHHHHHHcCCceE
Q 008791 15 LRVNV-DCDGCKQKVKKVLRKID-GVYSTNVDVE--QGK--VTVT-GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 15 LkVeM-~C~sCa~KIEKaL~kl~-GV~sV~VDla--tgk--VtV~-g~id~eeIikaI~kaGy~Ae 73 (553)
|.|.+ ..+....+|...|.+.. .|.++.+... ... ++|. ...+.++++++|++.||++.
T Consensus 4 ~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 4 IEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred EEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHHCCCeee
Confidence 44443 44556667777776552 3445544332 122 3333 23467799999999999764
No 33
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=70.07 E-value=6.7 Score=31.95 Aligned_cols=32 Identities=19% Similarity=0.529 Sum_probs=21.4
Q ss_pred EEEEEEeccchhH------HHHHHHHHhcCCCeeEEEE
Q 008791 12 SCVLRVNVDCDGC------KQKVKKVLRKIDGVYSTNV 43 (553)
Q Consensus 12 tv~LkVeM~C~sC------a~KIEKaL~kl~GV~sV~V 43 (553)
++.|.|.+.+++| ...|+++|..+++|.+|+|
T Consensus 35 ~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 35 KVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 4556666555555 4778889999999998876
No 34
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=69.01 E-value=2.5 Score=48.91 Aligned_cols=18 Identities=17% Similarity=0.302 Sum_probs=7.9
Q ss_pred chhHHHHHHHHHhcCCCe
Q 008791 21 CDGCKQKVKKVLRKIDGV 38 (553)
Q Consensus 21 C~sCa~KIEKaL~kl~GV 38 (553)
|-.|.-.-+..++.+-||
T Consensus 95 ~l~~lgd~~~lIr~tvGi 112 (885)
T KOG2023|consen 95 CLHGLGDASPLIRATVGI 112 (885)
T ss_pred HHhhccCchHHHHhhhhh
Confidence 444443444444444444
No 35
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=68.64 E-value=3.6 Score=47.46 Aligned_cols=26 Identities=27% Similarity=0.373 Sum_probs=19.4
Q ss_pred EEEEeccc-hhHHHHHHHHHhcCCCee
Q 008791 14 VLRVNVDC-DGCKQKVKKVLRKIDGVY 39 (553)
Q Consensus 14 ~LkVeM~C-~sCa~KIEKaL~kl~GV~ 39 (553)
.|-|...| .-|+.+|-+.|.+-+.|.
T Consensus 3 li~v~~dvDalcA~kiL~~Llk~d~I~ 29 (622)
T PF02724_consen 3 LILVALDVDALCACKILTSLLKSDNIQ 29 (622)
T ss_pred EEEEcCChHHHHHHHHHHHHHHhcCCC
Confidence 34455655 679999999999888873
No 36
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=65.25 E-value=5.5 Score=48.71 Aligned_cols=15 Identities=40% Similarity=0.512 Sum_probs=6.9
Q ss_pred cCCCCCCCCchhhHH
Q 008791 477 YGAMGPGTNPYNQQQ 491 (553)
Q Consensus 477 ~~g~~~~~~p~~qq~ 491 (553)
|.-+..-.||-.+||
T Consensus 2067 ~~n~~s~~n~s~~qq 2081 (2131)
T KOG4369|consen 2067 LGNASSTTNPSRTQQ 2081 (2131)
T ss_pred hcccCCCCCccHHHH
Confidence 334443356555444
No 37
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=64.96 E-value=4.3 Score=45.77 Aligned_cols=12 Identities=25% Similarity=0.326 Sum_probs=5.7
Q ss_pred HHHHHHcCCceE
Q 008791 62 IKKLEKLGKHAE 73 (553)
Q Consensus 62 ikaI~kaGy~Ae 73 (553)
+..|+++-+..+
T Consensus 41 ~qti~~~~~~~e 52 (641)
T KOG0772|consen 41 IQTISDLQFTKE 52 (641)
T ss_pred hhhhhhcccccc
Confidence 334555555433
No 38
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=63.35 E-value=29 Score=29.52 Aligned_cols=46 Identities=24% Similarity=0.312 Sum_probs=34.2
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE-ecCCHHHHHHHHHHc
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT-GNVDPAILIKKLEKL 68 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~-g~id~eeIikaI~ka 68 (553)
+.=...|.++|..+++|+-..++.. +|+.|+ ...+..++++.|..+
T Consensus 14 p~~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 14 PERLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp CCCHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred chhHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 3446788999999999987777766 777766 556777777777654
No 39
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=63.08 E-value=30 Score=33.12 Aligned_cols=84 Identities=11% Similarity=0.135 Sum_probs=53.1
Q ss_pred eEEEEEEe----ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEec-------CCHHHHHHHHHHcCCceEEcCCCC
Q 008791 11 QSCVLRVN----VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGN-------VDPAILIKKLEKLGKHAELWGPQK 79 (553)
Q Consensus 11 qtv~LkVe----M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~-------id~eeIikaI~kaGy~Ael~~~~~ 79 (553)
++++++.+ +.-......|++.+-+-.+|..+.+|..++.|+|... ..-..+.+.+.++|+...++....
T Consensus 37 KRIvvR~dps~l~~~e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 37 KRIVIRPDPSVLKPPEEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred ceEEEcCChhhcCCHHHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 34555544 2334555566666655578999999999999998722 233445666678999998876655
Q ss_pred CCCchhhhHHHHHHHhh
Q 008791 80 GSSNSNYQNLLNNQFKN 96 (553)
Q Consensus 80 ~~s~~~~~~~~~~qfk~ 96 (553)
-.| ++...+++.+++
T Consensus 117 i~S--~ti~~ir~~l~~ 131 (145)
T cd02410 117 IQS--RTVKSIRRFLRR 131 (145)
T ss_pred CCc--HHHHHHHHHHHH
Confidence 444 234445544443
No 40
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=61.08 E-value=6.9 Score=45.27 Aligned_cols=18 Identities=22% Similarity=0.368 Sum_probs=10.5
Q ss_pred ccchhHHHHHHHHHhcCC
Q 008791 19 VDCDGCKQKVKKVLRKID 36 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~ 36 (553)
..|-.-+..|.+.+.++.
T Consensus 366 ~rkkr~~aei~Kffqk~~ 383 (811)
T KOG4364|consen 366 LRKKRHEAEIGKFFQKID 383 (811)
T ss_pred HHHHHHHHHHHhhhcccc
Confidence 355556666666666554
No 41
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=60.38 E-value=23 Score=35.93 Aligned_cols=29 Identities=31% Similarity=0.528 Sum_probs=25.0
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCcEE
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQGKV 50 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatgkV 50 (553)
..|-+-+|..+.+++||.+++|=++.+.+
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG~~ 80 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGGYT 80 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCCCC
Confidence 67888899999999999999998887643
No 42
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=59.56 E-value=6.4 Score=45.44 Aligned_cols=20 Identities=10% Similarity=-0.049 Sum_probs=10.4
Q ss_pred EEEEEe-ccchhHHHHHHHHH
Q 008791 13 CVLRVN-VDCDGCKQKVKKVL 32 (553)
Q Consensus 13 v~LkVe-M~C~sCa~KIEKaL 32 (553)
|.|+|- +.+..+..++-+.+
T Consensus 28 I~~~l~PV~gy~el~~~~~~~ 48 (622)
T PF02724_consen 28 IQYSLVPVSGYSELERAYEEL 48 (622)
T ss_pred CCeeEEEeCCHHHHHHHHHHH
Confidence 445544 55665555554444
No 43
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=59.02 E-value=18 Score=34.66 Aligned_cols=41 Identities=24% Similarity=0.405 Sum_probs=31.7
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecC-CcEEEE
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVE-QGKVTV 52 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDla-tgkVtV 52 (553)
..+++.|+ -.|..|..-|.+.++++ |+.+++|... ++++.+
T Consensus 100 ~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~~ 142 (146)
T PF14437_consen 100 RSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVYY 142 (146)
T ss_pred CeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEEE
Confidence 46677888 69999999998888776 7888887766 665544
No 44
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=58.57 E-value=5.2 Score=47.03 Aligned_cols=18 Identities=11% Similarity=0.049 Sum_probs=9.5
Q ss_pred hhHHHHHHHHHhcCCCee
Q 008791 22 DGCKQKVKKVLRKIDGVY 39 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~ 39 (553)
.+|--.|.++|...+.++
T Consensus 594 ~G~l~Llsel~Karp~l~ 611 (988)
T KOG2038|consen 594 CGILFLLSELLKARPTLR 611 (988)
T ss_pred HhHHHHHHHHHHhcchHH
Confidence 345555555555555443
No 45
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=57.03 E-value=33 Score=28.31 Aligned_cols=48 Identities=17% Similarity=0.243 Sum_probs=34.1
Q ss_pred HhcCCCeeEEEEecCC-cEEEEEecCCHHHHHHHHHHcCCceEEcCCCCC
Q 008791 32 LRKIDGVYSTNVDVEQ-GKVTVTGNVDPAILIKKLEKLGKHAELWGPQKG 80 (553)
Q Consensus 32 L~kl~GV~sV~VDlat-gkVtV~g~id~eeIikaI~kaGy~Ael~~~~~~ 80 (553)
|..+++|.++...-.. -+++|....+..+|++.|...++ +.-+....+
T Consensus 26 l~~~~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f~~~~P 74 (84)
T PF13732_consen 26 LEELPGVESVEQDGDGKLRIKLEDEETANELLQELIEKGI-IRSFEEEEP 74 (84)
T ss_pred HhhCCCeEEEEEeCCcEEEEEECCcccHHHHHHHHHhCCC-eeEEEEcCC
Confidence 8888999988765332 23344456788999999999998 766554443
No 46
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=56.48 E-value=73 Score=25.22 Aligned_cols=59 Identities=15% Similarity=0.084 Sum_probs=35.7
Q ss_pred EEEe-ccchhHHHHHHHHHhcCCC-eeEEEEecCCcEEEEE-ecCCHHHHHHHHHHcCCceE
Q 008791 15 LRVN-VDCDGCKQKVKKVLRKIDG-VYSTNVDVEQGKVTVT-GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 15 LkVe-M~C~sCa~KIEKaL~kl~G-V~sV~VDlatgkVtV~-g~id~eeIikaI~kaGy~Ae 73 (553)
|.|. -+.+.-..+|-++|.+-.- |.++-+.....++++. ...+++.+++.|++.||++.
T Consensus 4 i~v~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~~~~~rl~~~~~~~~~~~L~~~G~~v~ 65 (66)
T cd04908 4 LSVFLENKPGRLAAVTEILSEAGINIRALSIADTSEFGILRLIVSDPDKAKEALKEAGFAVK 65 (66)
T ss_pred EEEEEcCCCChHHHHHHHHHHCCCCEEEEEEEecCCCCEEEEEECCHHHHHHHHHHCCCEEE
Confidence 3344 2556666677777765432 4444443333334433 33567799999999999875
No 47
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=54.35 E-value=34 Score=33.00 Aligned_cols=29 Identities=24% Similarity=0.512 Sum_probs=25.3
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCcEE
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQGKV 50 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatgkV 50 (553)
..|-+-+|..+.+++||.+++|=++.+.+
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~~ 36 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGRT 36 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCCC
Confidence 67888889999999999999998888754
No 48
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=54.11 E-value=97 Score=26.13 Aligned_cols=62 Identities=16% Similarity=0.197 Sum_probs=36.5
Q ss_pred EEEEec-cchhHHHHHHHHHhcCCCeeEEEEec---CCcEEEEE-e----cCCHHHHHHHHHHcCCceEEcC
Q 008791 14 VLRVNV-DCDGCKQKVKKVLRKIDGVYSTNVDV---EQGKVTVT-G----NVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 14 ~LkVeM-~C~sCa~KIEKaL~kl~GV~sV~VDl---atgkVtV~-g----~id~eeIikaI~kaGy~Ael~~ 76 (553)
+|.|.+ .-+.--.++-++|. -..|..+..+. ....|.|. . ....++|+++|++.||+++...
T Consensus 3 vl~v~ipD~PG~L~~ll~~l~-~anI~~~~y~~~~~~~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~~~~~ 73 (85)
T cd04906 3 LLAVTIPERPGSFKKFCELIG-PRNITEFNYRYADEKDAHIFVGVSVANGAEELAELLEDLKSAGYEVVDLS 73 (85)
T ss_pred EEEEecCCCCcHHHHHHHHhC-CCceeEEEEEccCCCeeEEEEEEEeCCcHHHHHHHHHHHHHCCCCeEECC
Confidence 355554 44555556666666 23455555544 23334443 2 2347889999999999987643
No 49
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.80 E-value=8.5 Score=38.05 Aligned_cols=7 Identities=29% Similarity=1.184 Sum_probs=3.8
Q ss_pred cchhHHH
Q 008791 20 DCDGCKQ 26 (553)
Q Consensus 20 ~C~sCa~ 26 (553)
.|..|..
T Consensus 69 kC~kC~~ 75 (227)
T KOG3241|consen 69 KCQKCTK 75 (227)
T ss_pred HHHHHHH
Confidence 4666643
No 50
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=52.98 E-value=8.5 Score=38.99 Aligned_cols=16 Identities=31% Similarity=0.327 Sum_probs=11.4
Q ss_pred ecCCHHHHHHHHHHcC
Q 008791 54 GNVDPAILIKKLEKLG 69 (553)
Q Consensus 54 g~id~eeIikaI~kaG 69 (553)
..++..+|+..+.+..
T Consensus 103 n~VdE~DLl~l~e~~~ 118 (218)
T PF14283_consen 103 NQVDEADLLALMEEEE 118 (218)
T ss_pred ccCCHHHHHHHHhccC
Confidence 5578888888886544
No 51
>PF09580 Spore_YhcN_YlaJ: Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); InterPro: IPR019076 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain.
Probab=52.80 E-value=39 Score=32.10 Aligned_cols=33 Identities=18% Similarity=0.281 Sum_probs=28.7
Q ss_pred chhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE
Q 008791 21 CDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT 53 (553)
Q Consensus 21 C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~ 53 (553)
-..-+.+|++.|.++++|..+.|-.....|.|.
T Consensus 73 ~~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 73 RQQLADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 355688999999999999999999988888775
No 52
>PRK11018 hypothetical protein; Provisional
Probab=52.37 E-value=51 Score=27.75 Aligned_cols=56 Identities=9% Similarity=-0.077 Sum_probs=40.5
Q ss_pred EEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcC
Q 008791 12 SCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 12 tv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~ 76 (553)
.++|.+. ..|+.-.-+.+++|.++.-- ..++|. ...+.+.|.+.+++.||++....
T Consensus 8 ~~~lD~rG~~CP~Pvl~~kk~l~~l~~G---------~~L~V~~d~~~a~~di~~~~~~~G~~v~~~~ 66 (78)
T PRK11018 8 DYRLDMVGEPCPYPAVATLEALPQLKKG---------EILEVVSDCPQSINNIPLDARNHGYTVLDIQ 66 (78)
T ss_pred CeeEECCCCcCCHHHHHHHHHHHhCCCC---------CEEEEEeCCccHHHHHHHHHHHcCCEEEEEE
Confidence 4556666 69999999999999998522 223333 44567888999999999986543
No 53
>PF10628 CotE: Outer spore coat protein E (CotE); InterPro: IPR018901 CotE is a morphogenic protein that is required for the assembly of the outer coat of the endospore [] and spore resistance to lysozyme []. CotE also regulates the expression of cotA, cotB, cotC and other genes encoding spore outer coat proteins []. The timing of cotE expression has been shown in Bacillus subtilis to affect spore coat morphology but not lysozyme resistance [].
Probab=49.40 E-value=9.8 Score=37.58 Aligned_cols=11 Identities=9% Similarity=0.217 Sum_probs=6.1
Q ss_pred hHHHHHHHHHh
Q 008791 23 GCKQKVKKVLR 33 (553)
Q Consensus 23 sCa~KIEKaL~ 33 (553)
.|...|.||+.
T Consensus 3 ~~REIITKAVc 13 (182)
T PF10628_consen 3 EYREIITKAVC 13 (182)
T ss_pred hHHHhhhhhee
Confidence 35556666654
No 54
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=49.15 E-value=9.8 Score=42.89 Aligned_cols=12 Identities=25% Similarity=0.556 Sum_probs=8.2
Q ss_pred CCCCCCCCCCCCC
Q 008791 536 DHYTHYFSDENAN 548 (553)
Q Consensus 536 ~~~~~~FsdeN~~ 548 (553)
-++++|| |+-++
T Consensus 489 ~swn~yf-~~~~~ 500 (507)
T PF11702_consen 489 SSWNQYF-DYGPW 500 (507)
T ss_pred cchhhhh-ccCCc
Confidence 4778999 66443
No 55
>KOG3648 consensus Golgi apparatus protein (cysteine-rich fibroblast growth factor receptor) [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.97 E-value=20 Score=41.66 Aligned_cols=17 Identities=65% Similarity=0.497 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 008791 143 QLQQLQQLQAQQMMQQQ 159 (553)
Q Consensus 143 q~qq~qq~q~qQ~qQ~q 159 (553)
|.-|+||||+||+||++
T Consensus 68 ~~~~~~~~~~~~~~~~~ 84 (1179)
T KOG3648|consen 68 QSSQLQQQQQQQQQQQQ 84 (1179)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 44455555544444433
No 56
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=47.60 E-value=33 Score=34.07 Aligned_cols=34 Identities=24% Similarity=0.422 Sum_probs=27.3
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcE
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGK 49 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgk 49 (553)
++++|. ..|-+-+|..+.+++||.+++|=++.+.
T Consensus 9 ~~a~~a-----gGCFWg~E~~f~~l~GV~~t~vGYagG~ 42 (186)
T PRK13014 9 ETATFA-----GGCFWGVEGVFQHVPGVVSVVSGYSGGH 42 (186)
T ss_pred cEEEEe-----cCCceeeHHHHccCCCEEEEEeeecCCC
Confidence 455554 6788888999999999999998888774
No 57
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=47.06 E-value=46 Score=29.75 Aligned_cols=46 Identities=28% Similarity=0.344 Sum_probs=35.9
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE-ecCCHHHHHHHHHHc
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT-GNVDPAILIKKLEKL 68 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~-g~id~eeIikaI~ka 68 (553)
+.-...|.++|+.|++++-...+.. +|+.|. ...+.+.|++.|+.+
T Consensus 17 pe~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie~i 63 (94)
T COG3062 17 PERLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIESI 63 (94)
T ss_pred HHHHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHHHH
Confidence 6667899999999999987777776 677665 556778888877654
No 58
>PHA03346 US22 family homolog; Provisional
Probab=45.53 E-value=20 Score=40.71 Aligned_cols=9 Identities=11% Similarity=0.220 Sum_probs=3.6
Q ss_pred HHHhcCCCe
Q 008791 30 KVLRKIDGV 38 (553)
Q Consensus 30 KaL~kl~GV 38 (553)
+.+.+..++
T Consensus 189 ~~v~~~~G~ 197 (520)
T PHA03346 189 ACVGEYHGR 197 (520)
T ss_pred HHHHHhCCc
Confidence 333444443
No 59
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=45.43 E-value=90 Score=30.88 Aligned_cols=79 Identities=15% Similarity=0.144 Sum_probs=48.0
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE---------ecCCHHHHHHHHHHcCCceEEcCCCCCC
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT---------GNVDPAILIKKLEKLGKHAELWGPQKGS 81 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~---------g~id~eeIikaI~kaGy~Ael~~~~~~~ 81 (553)
.-++|-|+++|..|-..+|+.|..+ +++|--+||.+. ..+.+++|++.....-.++....-+.++
T Consensus 66 DlIVFvinl~sk~SL~~ve~SL~~v------d~~fflGKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~ 139 (176)
T PF11111_consen 66 DLIVFVINLHSKYSLQSVEASLSHV------DPSFFLGKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEE 139 (176)
T ss_pred EEEEEEEecCCcccHHHHHHHHhhC------ChhhhccceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccch
Confidence 4567778899999999999999865 455666777432 1356677776666655554433333333
Q ss_pred CchhhhHHHHHHHhhcc
Q 008791 82 SNSNYQNLLNNQFKNMM 98 (553)
Q Consensus 82 s~~~~~~~~~~qfk~l~ 98 (553)
.. ....++.++-++
T Consensus 140 ~~---~~lAqRLL~~lq 153 (176)
T PF11111_consen 140 GR---TSLAQRLLRMLQ 153 (176)
T ss_pred HH---HHHHHHHHHHHH
Confidence 32 222334455555
No 60
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=44.82 E-value=15 Score=35.42 Aligned_cols=6 Identities=17% Similarity=0.656 Sum_probs=2.2
Q ss_pred CcEEEE
Q 008791 47 QGKVTV 52 (553)
Q Consensus 47 tgkVtV 52 (553)
...++|
T Consensus 44 n~~f~V 49 (155)
T PTZ00329 44 NGRLEA 49 (155)
T ss_pred CCEEEE
Confidence 333333
No 61
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=44.78 E-value=54 Score=38.12 Aligned_cols=72 Identities=15% Similarity=0.196 Sum_probs=49.9
Q ss_pred eEEEEEEe----ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEec-------CCHHHHHHHHHHcCCceEEcCCCC
Q 008791 11 QSCVLRVN----VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGN-------VDPAILIKKLEKLGKHAELWGPQK 79 (553)
Q Consensus 11 qtv~LkVe----M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~-------id~eeIikaI~kaGy~Ael~~~~~ 79 (553)
++++++.+ +.-.....+|++++-+-.+|..+.++..++.|.|+.. ..-..+.+.++++|+..+++....
T Consensus 54 ~r~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~f~~~~~~v~i~~~~p~~~~~~~~~~~~~i~~~~~w~~~~~~~~~ 133 (630)
T TIGR03675 54 KRIVIRPDPSVLLPPEEAIEKIKEIVPEEAGITDIYFDDVTGEVIIEAEKPGLVIGKGGSTLREITAETGWTPKVVRTPP 133 (630)
T ss_pred ceEEEecChhhcCCHHHHHHHHHHhCCCcCCceeEEecCCCceEEEEEcCCeEEEecCcchHHHHHHHhCCeeeEEecCC
Confidence 45566544 2345556677777766679999999999999998722 134455666778999988876655
Q ss_pred CCC
Q 008791 80 GSS 82 (553)
Q Consensus 80 ~~s 82 (553)
-.|
T Consensus 134 ~~~ 136 (630)
T TIGR03675 134 IES 136 (630)
T ss_pred CCc
Confidence 444
No 62
>KOG0296 consensus Angio-associated migratory cell protein (contains WD40 repeats) [Function unknown]
Probab=43.50 E-value=11 Score=40.89 Aligned_cols=8 Identities=25% Similarity=0.322 Sum_probs=3.0
Q ss_pred CCccccCC
Q 008791 263 MPFEMMGG 270 (553)
Q Consensus 263 ~p~~m~g~ 270 (553)
.+....++
T Consensus 98 ~~~eltgH 105 (399)
T KOG0296|consen 98 FAGELTGH 105 (399)
T ss_pred ceeEecCC
Confidence 33333333
No 63
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=42.90 E-value=26 Score=36.26 Aligned_cols=14 Identities=7% Similarity=0.256 Sum_probs=7.4
Q ss_pred HHHHHHHhcCCCee
Q 008791 26 QKVKKVLRKIDGVY 39 (553)
Q Consensus 26 ~KIEKaL~kl~GV~ 39 (553)
..|+..|.+|..++
T Consensus 7 qLI~~lf~RL~~ae 20 (247)
T PF09849_consen 7 QLIDDLFSRLKQAE 20 (247)
T ss_pred HHHHHHHHHHHhcc
Confidence 45555555554443
No 64
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=41.43 E-value=24 Score=37.99 Aligned_cols=7 Identities=14% Similarity=0.392 Sum_probs=2.7
Q ss_pred HhcCCCe
Q 008791 32 LRKIDGV 38 (553)
Q Consensus 32 L~kl~GV 38 (553)
|.-|..|
T Consensus 125 L~~L~dI 131 (337)
T PTZ00007 125 LSYLSDI 131 (337)
T ss_pred HHhhCce
Confidence 3333333
No 65
>PF01625 PMSR: Peptide methionine sulfoxide reductase; InterPro: IPR002569 Peptide methionine sulphoxide reductase (Msr) reverses the inactivation of many proteins due to the oxidation of critical methionine residues by reducing methionine sulphoxide, Met(O), to methionine []. It is present in most living organisms, and the cognate structural gene belongs to the so-called minimum gene set [, ]. The domains: MsrA and MsrB, reduce different epimeric forms of methionine sulphoxide. This group represent MsrA, the crystal structure of which has been determined in a number of organisms. In Mycobacterium tuberculosis, the MsrA structure has been determined to 1.5 Angstrom resolution []. In contrast to the three catalytic cysteine residues found in previously characterised MsrA structures, M. tuberculosis MsrA represents a class containing only two functional cysteine residues. The overall structure shows no resemblance to the structures of MsrB (IPR002579 from INTERPRO) from other organisms; though the active sites show approximate mirror symmetry. In each case, conserved amino acid motifs mediate the stereo-specific recognition and reduction of the substrate. In a number of pathogenic bacteria including Neisseria gonorrhoeae, the MsrA and MsrB domains are fused; the MsrA being N-terminal to MsrB. This arrangement is reversed in Treponema pallidum. In N. gonorrhoeae and Neisseria meningitidis a thioredoxin domain is fused to the N terminus. This may function to reduce the active sites of the downstream MsrA and MsrB domains. ; GO: 0016671 oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor, 0019538 protein metabolic process, 0055114 oxidation-reduction process; PDB: 2GT3_A 1FF3_B 2IEM_A 3E0M_D 2J89_A 3PIN_B 3PIM_B 3PIL_B 2L90_A 3BQF_A ....
Probab=41.43 E-value=80 Score=30.34 Aligned_cols=27 Identities=37% Similarity=0.608 Sum_probs=23.5
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCc
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQG 48 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatg 48 (553)
..|-+.+|..+.+++||.++.|=++.+
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG 33 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGG 33 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESS
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCC
Confidence 578888999999999999998877766
No 66
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=40.87 E-value=1e+02 Score=24.24 Aligned_cols=59 Identities=19% Similarity=0.191 Sum_probs=33.7
Q ss_pred EEEEec-cchhHHHHHHHHHhcCC-CeeEEEEecC----CcEEEEEe--cCCHHHHHHHHHHcCCce
Q 008791 14 VLRVNV-DCDGCKQKVKKVLRKID-GVYSTNVDVE----QGKVTVTG--NVDPAILIKKLEKLGKHA 72 (553)
Q Consensus 14 ~LkVeM-~C~sCa~KIEKaL~kl~-GV~sV~VDla----tgkVtV~g--~id~eeIikaI~kaGy~A 72 (553)
.|.|.+ .-+....+|.+.|.+.. .|.++.+... ...++|.- ..+.+++++.|+++||++
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~~L~~~G~~v 69 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGISIKNIEILEIREGIGGILRISFKTQEDRERAKEILKEAGYEV 69 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEECCHHHHHHHHHHHHHcCCcC
Confidence 344543 44557777877776553 2333333221 23333332 236788999999999964
No 67
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=40.05 E-value=11 Score=38.74 Aligned_cols=7 Identities=29% Similarity=0.349 Sum_probs=2.9
Q ss_pred HHHHcCC
Q 008791 64 KLEKLGK 70 (553)
Q Consensus 64 aI~kaGy 70 (553)
+|.++||
T Consensus 18 kLl~~GF 24 (232)
T PRK12766 18 ALREAGF 24 (232)
T ss_pred HHHHcCC
Confidence 3334444
No 68
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=39.71 E-value=70 Score=25.65 Aligned_cols=48 Identities=21% Similarity=0.279 Sum_probs=34.1
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcC
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~ 76 (553)
..|+.-.-+++++| ++.. ...++|. ...+.+.|.+.+++.||++++..
T Consensus 7 ~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 7 LACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred CCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEEe
Confidence 58999999999999 6532 1223333 34566789999999999986443
No 69
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=39.66 E-value=34 Score=33.54 Aligned_cols=34 Identities=15% Similarity=0.368 Sum_probs=22.5
Q ss_pred EEEEEEeccchhH------HHHHHHHHhcCCCeeEEEEec
Q 008791 12 SCVLRVNVDCDGC------KQKVKKVLRKIDGVYSTNVDV 45 (553)
Q Consensus 12 tv~LkVeM~C~sC------a~KIEKaL~kl~GV~sV~VDl 45 (553)
++.+.|.++++.| +..|+.+|..+++|.+|+|++
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 3445555444443 355888999999998887754
No 70
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=38.75 E-value=1e+02 Score=27.49 Aligned_cols=55 Identities=11% Similarity=0.168 Sum_probs=32.3
Q ss_pred EEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHc
Q 008791 14 VLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKL 68 (553)
Q Consensus 14 ~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~ka 68 (553)
+|+|. ++-+.|...|+.+|.....|..|++..-.....|. ....+..+++++...
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhc
Confidence 46666 44444488999999999999888888777777776 344577788888776
No 71
>TIGR02945 SUF_assoc FeS assembly SUF system protein. Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.
Probab=38.72 E-value=26 Score=30.27 Aligned_cols=27 Identities=26% Similarity=0.476 Sum_probs=19.3
Q ss_pred cchhH---HHHHHHHHhcCCCeeEEEEecC
Q 008791 20 DCDGC---KQKVKKVLRKIDGVYSTNVDVE 46 (553)
Q Consensus 20 ~C~sC---a~KIEKaL~kl~GV~sV~VDla 46 (553)
.|..+ ...|+.+|..+++|.+|.|++.
T Consensus 49 ~~~~~~~l~~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 49 NCPVAGSMPGEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred CCChHHHHHHHHHHHHHhCCCCceEEEEEE
Confidence 45444 3457888888999998888654
No 72
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=38.67 E-value=65 Score=34.05 Aligned_cols=30 Identities=27% Similarity=0.447 Sum_probs=25.8
Q ss_pred chhHHHHHHHHHhcCCCeeEEEEecCCcEE
Q 008791 21 CDGCKQKVKKVLRKIDGVYSTNVDVEQGKV 50 (553)
Q Consensus 21 C~sCa~KIEKaL~kl~GV~sV~VDlatgkV 50 (553)
-..|-+-+|..+.+++||.+++|=++.+.+
T Consensus 133 agGCFWg~E~~F~~~~GV~~t~vGYagG~~ 162 (283)
T PRK05550 133 AGGCFWGVEYYFKKLPGVLSVESGYTGGDT 162 (283)
T ss_pred ecCCchhhhhhHhhCcCEEEEEEeeCCCCC
Confidence 378888999999999999999998887744
No 73
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.89 E-value=24 Score=32.48 Aligned_cols=7 Identities=14% Similarity=-0.073 Sum_probs=3.2
Q ss_pred chhHHHH
Q 008791 21 CDGCKQK 27 (553)
Q Consensus 21 C~sCa~K 27 (553)
|+.|-+|
T Consensus 12 dPetg~K 18 (129)
T COG4530 12 DPETGKK 18 (129)
T ss_pred Cccccch
Confidence 4444443
No 74
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=37.70 E-value=1.1e+02 Score=25.46 Aligned_cols=61 Identities=20% Similarity=0.409 Sum_probs=40.3
Q ss_pred EEEEEeccchhHHHHHHHHHhcC---CCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHH-cCCceE
Q 008791 13 CVLRVNVDCDGCKQKVKKVLRKI---DGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEK-LGKHAE 73 (553)
Q Consensus 13 v~LkVeM~C~sCa~KIEKaL~kl---~GV~sV~VDlatgkVtV~--g~id~eeIikaI~k-aGy~Ae 73 (553)
+.+.|+-.-..-..++.++|.+| +-...+.+|..++.+.|. +.+..+.+++.|++ .+.+++
T Consensus 6 ~~~~i~p~~~~d~~kl~~aL~~l~~eDP~l~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~v~ 72 (75)
T PF14492_consen 6 LSVAIEPKNKEDEPKLSEALQKLSEEDPSLRVERDEETGELILSGMGELHLEVLLERLKRRFGVEVE 72 (75)
T ss_dssp EEEEEEESSHHHHHHHHHHHHHHHHH-TTSEEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEBEE
T ss_pred EEEEEEECCHhHHHHHHHHHHHHHhcCCeEEEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCeeE
Confidence 44555544445556666666655 334478899999998887 67888889999865 344443
No 75
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=37.55 E-value=22 Score=40.36 Aligned_cols=16 Identities=6% Similarity=0.185 Sum_probs=7.5
Q ss_pred CCHHHHHHHHHHcCCc
Q 008791 56 VDPAILIKKLEKLGKH 71 (553)
Q Consensus 56 id~eeIikaI~kaGy~ 71 (553)
++...++..|..+.++
T Consensus 77 FDvRAhLdhi~~vd~t 92 (653)
T KOG2548|consen 77 FDVRAHLDHIPEVDST 92 (653)
T ss_pred hhhHhhhccCCccCCC
Confidence 3444445555444443
No 76
>COG3076 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.81 E-value=17 Score=33.43 Aligned_cols=8 Identities=38% Similarity=0.389 Sum_probs=5.5
Q ss_pred HcCCceEE
Q 008791 67 KLGKHAEL 74 (553)
Q Consensus 67 kaGy~Ael 74 (553)
++||.+.-
T Consensus 52 K~GyEV~e 59 (135)
T COG3076 52 KLGYEVTE 59 (135)
T ss_pred hhcceecc
Confidence 67887653
No 77
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=36.41 E-value=34 Score=35.34 Aligned_cols=18 Identities=6% Similarity=0.045 Sum_probs=12.6
Q ss_pred cchhHHHHHHHHHhcCCC
Q 008791 20 DCDGCKQKVKKVLRKIDG 37 (553)
Q Consensus 20 ~C~sCa~KIEKaL~kl~G 37 (553)
.-......|...|.+.+.
T Consensus 24 rD~eAe~lI~~~~~~qP~ 41 (247)
T PF09849_consen 24 RDPEAEALIAQALARQPD 41 (247)
T ss_pred CCHHHHHHHHHHHHhCCc
Confidence 455666778888887765
No 78
>PTZ00482 membrane-attack complex/perforin (MACPF) Superfamily; Provisional
Probab=36.36 E-value=21 Score=42.82 Aligned_cols=19 Identities=21% Similarity=0.111 Sum_probs=9.8
Q ss_pred HHHHHhcCCCeeEEEEecC
Q 008791 28 VKKVLRKIDGVYSTNVDVE 46 (553)
Q Consensus 28 IEKaL~kl~GV~sV~VDla 46 (553)
|.-.|.+++-|...++.+.
T Consensus 12 ~~~~~~~~~~~~~~~~~~~ 30 (844)
T PTZ00482 12 ILSYLYEIPFVGSLRLGLR 30 (844)
T ss_pred hhhhhhccccceeeeechh
Confidence 4444555555555555444
No 79
>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only]
Probab=35.81 E-value=88 Score=35.87 Aligned_cols=84 Identities=10% Similarity=0.175 Sum_probs=52.9
Q ss_pred eEEEEEEe---c-cchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEec-------CCHHHHHHHHHHcCCceEEcCCCC
Q 008791 11 QSCVLRVN---V-DCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGN-------VDPAILIKKLEKLGKHAELWGPQK 79 (553)
Q Consensus 11 qtv~LkVe---M-~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~-------id~eeIikaI~kaGy~Ael~~~~~ 79 (553)
+++.++.+ + .-....+.|++.+-+..+|.++.++..++.|.|+.. -.-+.+.+..+++++..+++....
T Consensus 60 KRI~iR~dPsvl~~~e~A~~~I~eivP~ea~i~~i~Fd~~tGEViIea~KPGlvigk~g~~~reI~~~tgW~p~ivR~PP 139 (637)
T COG1782 60 KRIIIRPDPSVLKPPEEARKIILEIVPEEAGITDIYFDDDTGEVIIEAKKPGLVIGKGGSTLREITAETGWAPKIVRTPP 139 (637)
T ss_pred hceEeccCchhcCCHHHHHHHHHHhCccccCceeEEecCCCceEEEEecCCceEEecCchHHHHHHHHhCCcceeeecCC
Confidence 45566655 2 334455666777767789999999999999988722 123445566678999988876554
Q ss_pred CCCchhhhHHHHHHHhh
Q 008791 80 GSSNSNYQNLLNNQFKN 96 (553)
Q Consensus 80 ~~s~~~~~~~~~~qfk~ 96 (553)
-.| ....++++.+++
T Consensus 140 i~S--~ti~~ir~~l~~ 154 (637)
T COG1782 140 IQS--RTIKSIREILRS 154 (637)
T ss_pred Cch--hhHHHHHHHHHH
Confidence 433 223344444433
No 80
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=35.81 E-value=14 Score=38.48 Aligned_cols=10 Identities=30% Similarity=0.444 Sum_probs=4.2
Q ss_pred EEEecCCcEE
Q 008791 41 TNVDVEQGKV 50 (553)
Q Consensus 41 V~VDlatgkV 50 (553)
++|--..+.+
T Consensus 51 ATVre~~g~~ 60 (303)
T KOG3064|consen 51 ATVREENGVL 60 (303)
T ss_pred eeEeecCCEE
Confidence 3444444444
No 81
>PRK11670 antiporter inner membrane protein; Provisional
Probab=35.63 E-value=85 Score=33.95 Aligned_cols=55 Identities=16% Similarity=0.250 Sum_probs=34.9
Q ss_pred HHHHHHHHhcCCCeeEEEEecCC------------------cEEEEE------ec-CCHHHHHHHHHHcCCceEEcCCCC
Q 008791 25 KQKVKKVLRKIDGVYSTNVDVEQ------------------GKVTVT------GN-VDPAILIKKLEKLGKHAELWGPQK 79 (553)
Q Consensus 25 a~KIEKaL~kl~GV~sV~VDlat------------------gkVtV~------g~-id~eeIikaI~kaGy~Ael~~~~~ 79 (553)
...|+++|..+++|.+++|.+.. ..+.|. +. +...-|..+|.+.|+++-++..+.
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA~~G~rVlLID~D~ 146 (369)
T PRK11670 67 KEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDADI 146 (369)
T ss_pred HHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence 45688999999998877765432 122333 11 233446667778899888776544
No 82
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=34.51 E-value=23 Score=39.73 Aligned_cols=60 Identities=27% Similarity=0.318 Sum_probs=40.5
Q ss_pred ccceEEEEEE--e-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceE
Q 008791 8 KLQQSCVLRV--N-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 8 km~qtv~LkV--e-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~Ae 73 (553)
+| +++.+-. + +.|..-. .| .|..+.-| +++|.+..+|||.+-+...+|+++|.+.||.+.
T Consensus 75 ki-rvVg~gHSp~~l~ctdg~-li--sl~~lnkV--v~~dpe~~tvTV~aGirlrQLie~~~~~GlsL~ 137 (518)
T KOG4730|consen 75 KI-RVVGSGHSPSKLVCTDGL-LI--SLDKLNKV--VEFDPELKTVTVQAGIRLRQLIEELAKLGLSLP 137 (518)
T ss_pred eE-EEecccCCCCcceecccc-EE--Ehhhhccc--eeeCchhceEEeccCcCHHHHHHHHHhcCcccc
Confidence 44 4554433 3 5776662 22 22333344 556888889999988999999999999998754
No 83
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=34.46 E-value=39 Score=29.69 Aligned_cols=50 Identities=16% Similarity=0.102 Sum_probs=27.8
Q ss_pred HHHHHHHHHhcCCCeeEEEEecCCcEEEEE---ecCCHHHHHHHHHHcCCceE
Q 008791 24 CKQKVKKVLRKIDGVYSTNVDVEQGKVTVT---GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 24 Ca~KIEKaL~kl~GV~sV~VDlatgkVtV~---g~id~eeIikaI~kaGy~Ae 73 (553)
-+..+.=.|++.+.|++|-||--.+...|. ..++.++|++.|++....+.
T Consensus 12 eA~~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kpEVi 64 (88)
T PF11491_consen 12 EAMVKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKPEVI 64 (88)
T ss_dssp TTHHHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HHHTTT-SS
T ss_pred HHHHHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHHhcChhhe
Confidence 345566678899999999999888777766 45789999999999887653
No 84
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=32.86 E-value=1.9e+02 Score=25.04 Aligned_cols=58 Identities=17% Similarity=0.200 Sum_probs=43.3
Q ss_pred EEEEEEeccchhHHHHHHHHHhcCCC-eeEEEEecCCcEEEEEecCCHHHHHHHHHHcCC
Q 008791 12 SCVLRVNVDCDGCKQKVKKVLRKIDG-VYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGK 70 (553)
Q Consensus 12 tv~LkVeM~C~sCa~KIEKaL~kl~G-V~sV~VDlatgkVtV~g~id~eeIikaI~kaGy 70 (553)
|+.=+|+.+-..|+.-+.+.|..... -..+.|+..++.|.|.+.. .++|.+-|.+.||
T Consensus 29 T~IrkI~GD~~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~-~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 29 TVIRKIEGDIWALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDH-VEEVKKWLLEKGF 87 (87)
T ss_pred EEEEeecCCHHHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCcc-HHHHHHHHHHCcC
Confidence 45556777778888888888876543 2367788899999998763 6777888877775
No 85
>PRK07334 threonine dehydratase; Provisional
Probab=32.80 E-value=1.5e+02 Score=32.16 Aligned_cols=64 Identities=17% Similarity=0.182 Sum_probs=38.7
Q ss_pred EEEEEe-ccchhHHHHHHHHHhcCC-CeeEEEEecC-----CcEEEEE------ecCCHHHHHHHHHHcCCceEEcC
Q 008791 13 CVLRVN-VDCDGCKQKVKKVLRKID-GVYSTNVDVE-----QGKVTVT------GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 13 v~LkVe-M~C~sCa~KIEKaL~kl~-GV~sV~VDla-----tgkVtV~------g~id~eeIikaI~kaGy~Ael~~ 76 (553)
++|.|. ..-..=...|-++|.+.. .|.++.+... ..+++|. .....+.|++.|+++||.+++++
T Consensus 327 v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~~ 403 (403)
T PRK07334 327 ARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLVE 403 (403)
T ss_pred EEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeCC
Confidence 566666 355555777777776552 3555554422 3443332 22345678889999999988763
No 86
>PF06752 E_Pc_C: Enhancer of Polycomb C-terminus; InterPro: IPR009607 This entry represents the C terminus of eukaryotic enhancer of polycomb proteins, which have roles in heterochromatin formation []. This family contains several conserved motifs.
Probab=32.79 E-value=48 Score=33.99 Aligned_cols=16 Identities=44% Similarity=0.416 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 008791 143 QLQQLQQLQAQQMMQQ 158 (553)
Q Consensus 143 q~qq~qq~q~qQ~qQ~ 158 (553)
|..++|.||+-|+||+
T Consensus 13 QL~~MQkQQLaqiqqq 28 (230)
T PF06752_consen 13 QLVLMQKQQLAQIQQQ 28 (230)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333443333344333
No 87
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=32.55 E-value=1.1e+02 Score=24.18 Aligned_cols=32 Identities=19% Similarity=0.321 Sum_probs=21.9
Q ss_pred EEEEEEeccchh-HHHHHHHHHhcCCCeeEEEE
Q 008791 12 SCVLRVNVDCDG-CKQKVKKVLRKIDGVYSTNV 43 (553)
Q Consensus 12 tv~LkVeM~C~s-Ca~KIEKaL~kl~GV~sV~V 43 (553)
++.|.|+.+-.. ....|-+.|+++++|.+|.+
T Consensus 42 ~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 42 NVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 344555543343 67788888899999988765
No 88
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=32.23 E-value=33 Score=32.28 Aligned_cols=9 Identities=22% Similarity=0.346 Sum_probs=4.4
Q ss_pred cchhHHHHH
Q 008791 20 DCDGCKQKV 28 (553)
Q Consensus 20 ~C~sCa~KI 28 (553)
.|++|.+|.
T Consensus 11 ~Cp~cg~kF 19 (129)
T TIGR02300 11 ICPNTGSKF 19 (129)
T ss_pred cCCCcCccc
Confidence 355555443
No 89
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.58 E-value=1.7e+02 Score=23.32 Aligned_cols=54 Identities=22% Similarity=0.225 Sum_probs=29.8
Q ss_pred cchhHHHHHHHHHhcCCCeeEEEEec---CCcEEEEE----ecCCHHHHHHHHHHcCCceE
Q 008791 20 DCDGCKQKVKKVLRKIDGVYSTNVDV---EQGKVTVT----GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 20 ~C~sCa~KIEKaL~kl~GV~sV~VDl---atgkVtV~----g~id~eeIikaI~kaGy~Ae 73 (553)
..+.--.++-++|..-.-|..+..+. ....|+|. .....++|+++|++.||.++
T Consensus 7 dkPG~l~~~~~~i~~~~nI~~~~~~~~~~~~~~v~v~ie~~~~~~~~~i~~~L~~~G~~~~ 67 (68)
T cd04885 7 ERPGALKKFLELLGPPRNITEFHYRNQGGDEARVLVGIQVPDREDLAELKERLEALGYPYV 67 (68)
T ss_pred CCCCHHHHHHHHhCCCCcEEEEEEEcCCCCceEEEEEEEeCCHHHHHHHHHHHHHcCCCcc
Confidence 44555556666666511244444332 22233333 22456788999999999753
No 90
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=31.47 E-value=2.9e+02 Score=23.35 Aligned_cols=63 Identities=16% Similarity=0.169 Sum_probs=36.2
Q ss_pred EEEEEe--c---cchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcCC
Q 008791 13 CVLRVN--V---DCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWGP 77 (553)
Q Consensus 13 v~LkVe--M---~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~~ 77 (553)
++|++. + .|..+...+..++.. +.+..+.+|+..-. .|. +......+++.+++.+.++.++..
T Consensus 14 ~vi~~~G~l~~~~~~~~~~~l~~~~~~-~~~~~vvidls~v~-~iDssgl~~L~~~~~~~~~~~~~~~l~~~ 83 (108)
T TIGR00377 14 VIVRLSGELDAHTAPLLREKVTPAAER-TGPRPIVLDLEDLE-FMDSSGLGVLLGRYKQVRRVGGQLVLVSV 83 (108)
T ss_pred EEEEEecccccccHHHHHHHHHHHHHh-cCCCeEEEECCCCe-EEccccHHHHHHHHHHHHhcCCEEEEEeC
Confidence 445555 3 566666666666554 46777888877422 222 222344555566677777777654
No 91
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=30.48 E-value=1.2e+02 Score=30.04 Aligned_cols=35 Identities=26% Similarity=0.389 Sum_probs=27.5
Q ss_pred eEEEEEEeccchhHHHHHHHHHhcCCCeeEEEEecCCcEE
Q 008791 11 QSCVLRVNVDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKV 50 (553)
Q Consensus 11 qtv~LkVeM~C~sCa~KIEKaL~kl~GV~sV~VDlatgkV 50 (553)
+++.|. ..|-+=+|+.+.+++||.++.+=++.+.+
T Consensus 7 ~~a~fa-----gGCFWg~E~~f~~i~GV~~t~~GYagG~~ 41 (174)
T COG0225 7 EKAYFA-----GGCFWGVEAYFEQIPGVLSTVSGYAGGHT 41 (174)
T ss_pred EEEEEe-----ccCccchHHHHhhCCCeEEEeeeEcCCCC
Confidence 455554 67788889999999999999888877653
No 92
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=29.72 E-value=27 Score=36.49 Aligned_cols=6 Identities=0% Similarity=0.274 Sum_probs=2.3
Q ss_pred ecCCcE
Q 008791 44 DVEQGK 49 (553)
Q Consensus 44 Dlatgk 49 (553)
-|++.+
T Consensus 44 PLANSr 49 (303)
T KOG3064|consen 44 PLANSR 49 (303)
T ss_pred cCcccc
Confidence 333333
No 93
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=29.28 E-value=25 Score=40.21 Aligned_cols=15 Identities=27% Similarity=0.368 Sum_probs=6.2
Q ss_pred HHHHHHHHcCCceEE
Q 008791 60 ILIKKLEKLGKHAEL 74 (553)
Q Consensus 60 eIikaI~kaGy~Ael 74 (553)
+|...+...|+-+++
T Consensus 133 dLk~vFs~~G~V~Ei 147 (678)
T KOG0127|consen 133 DLKNVFSNFGKVVEI 147 (678)
T ss_pred HHHHHHhhcceEEEE
Confidence 333334444444433
No 94
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=29.15 E-value=88 Score=29.29 Aligned_cols=29 Identities=10% Similarity=0.383 Sum_probs=23.0
Q ss_pred EEEEEEec-cchhHHHHHHHHHhcCCCeeE
Q 008791 12 SCVLRVNV-DCDGCKQKVKKVLRKIDGVYS 40 (553)
Q Consensus 12 tv~LkVeM-~C~sCa~KIEKaL~kl~GV~s 40 (553)
+++|-.++ .|.+|...|++-....+.|..
T Consensus 98 ~i~l~te~~pC~SC~~vi~qF~~~~pni~~ 127 (133)
T PF14424_consen 98 TIDLFTELPPCESCSNVIEQFKKDFPNIKV 127 (133)
T ss_pred eEEEEecCCcChhHHHHHHHHHHHCCCcEE
Confidence 45555564 899999999999999888753
No 95
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=28.87 E-value=58 Score=26.71 Aligned_cols=13 Identities=15% Similarity=0.455 Sum_probs=8.7
Q ss_pred EEEEEeccchhHHH
Q 008791 13 CVLRVNVDCDGCKQ 26 (553)
Q Consensus 13 v~LkVeM~C~sCa~ 26 (553)
+++ +.-.|+.|..
T Consensus 3 I~v-~~~~C~~C~~ 15 (76)
T PF13192_consen 3 IKV-FSPGCPYCPE 15 (76)
T ss_dssp EEE-ECSSCTTHHH
T ss_pred EEE-eCCCCCCcHH
Confidence 444 5557999973
No 96
>PF08210 APOBEC_N: APOBEC-like N-terminal domain; InterPro: IPR013158 This domain is found at the N terminus of the Apolipoprotein B mRNA editing enzyme. Apobec-1 catalyzes C to U editing of apolipoprotein B (apoB) mRNA in the mammalian intestine. The N-terminal domain of APOBEC-1 like proteins is the catalytic domain, while the C-terminal domain is a pseudocatalyitc domain. More specifically, the catalytic domain is a zinc dependent deaminases domain and is essential for cytidine deamination. APOBEC-3 like members contain two copies of this domain. This family also includes the functionally homologous activation induced deaminase, which is essential for the development of antibody diversity in B lymphocytes. RNA editing by APOBEC-1 requires homodimerisation and this complex interacts with RNA binding proteins to from the editosome [] (and references therein).; GO: 0008270 zinc ion binding, 0016814 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; PDB: 3IQS_A 3IR2_A 3V4J_B 2KEM_A 2KBO_A 3V4K_A 3E1U_A 2JYW_A 2RPZ_A.
Probab=26.43 E-value=1.9e+02 Score=28.48 Aligned_cols=63 Identities=14% Similarity=0.240 Sum_probs=37.1
Q ss_pred eEEEEEEec-cchh----HHHHHHHHHhcC--CCeeEEEEecCCcEEEEEecCC---HHHHHHHHHHcCCceEEcC
Q 008791 11 QSCVLRVNV-DCDG----CKQKVKKVLRKI--DGVYSTNVDVEQGKVTVTGNVD---PAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 11 qtv~LkVeM-~C~s----Ca~KIEKaL~kl--~GV~sV~VDlatgkVtV~g~id---~eeIikaI~kaGy~Ael~~ 76 (553)
-+|++-|+. -|.. |+.+|.+.|.+. +.|. ++|-++ ++--...-. ..+=++.|.++|.++++..
T Consensus 74 y~ITwy~SwSPC~~~~~~Ca~~i~~FL~~~~~~~v~-L~I~~a--rLY~~~~~~~~~~~eGLr~L~~aGv~v~iM~ 146 (188)
T PF08210_consen 74 YRITWYLSWSPCPESDHCCAEKIAEFLKKHLKPNVS-LSIFAA--RLYYHWEPEPLWNQEGLRRLASAGVQVEIMS 146 (188)
T ss_dssp EEEEEEESSS--CC----HHHHHHHHHCCC--TTEE-EEEEES--S--STTSTT---HHHHHHHHHHCTEEEEE-S
T ss_pred EEEEEEEecCCCcchhhHHHHHHHHHHHHhCCCCCe-EEEEEE--eeeeecCCcchhHHHHHHHHHHcCCEEEEcC
Confidence 355666664 7999 999999999998 8873 322222 111001122 4566777778888877753
No 97
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=26.38 E-value=30 Score=39.09 Aligned_cols=16 Identities=19% Similarity=0.094 Sum_probs=8.4
Q ss_pred CeeEEEEecCCcEEEE
Q 008791 37 GVYSTNVDVEQGKVTV 52 (553)
Q Consensus 37 GV~sV~VDlatgkVtV 52 (553)
||..+.-|...+...+
T Consensus 64 Gal~lVkD~~~rsyFl 79 (569)
T KOG3671|consen 64 GALCLVKDNAQRSYFL 79 (569)
T ss_pred eeEEEeeccccceeee
Confidence 5555555555555543
No 98
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=26.18 E-value=1.9e+02 Score=22.89 Aligned_cols=49 Identities=16% Similarity=0.052 Sum_probs=35.0
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcC
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~ 76 (553)
..|+.=.-++.++|.++.. ...++|. ...+...|.+.++..||.+..+.
T Consensus 7 ~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~~ 57 (69)
T cd00291 7 LPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHEVLEVE 57 (69)
T ss_pred CcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCEEEEEE
Confidence 5788888888999988642 2233333 33568889999999999976544
No 99
>PRK02048 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional
Probab=26.18 E-value=59 Score=37.70 Aligned_cols=25 Identities=20% Similarity=0.676 Sum_probs=17.9
Q ss_pred EEEe-ccchhH----------HHHHHHHHhcCCCee
Q 008791 15 LRVN-VDCDGC----------KQKVKKVLRKIDGVY 39 (553)
Q Consensus 15 LkVe-M~C~sC----------a~KIEKaL~kl~GV~ 39 (553)
.+.+ ++|++| ..+|+++...|+||+
T Consensus 514 sKTEyISCPsCGRTLfDLq~tta~Ik~~t~HLkGlk 549 (611)
T PRK02048 514 SKTEYISCPGCGRTLYDLQSTIARIKEATSHLKGLK 549 (611)
T ss_pred ccceEEECCCCCcchhhHHHHHHHHHHHhCCCCCce
Confidence 3455 799999 456777777778764
No 100
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=26.00 E-value=3.5e+02 Score=21.81 Aligned_cols=20 Identities=30% Similarity=0.275 Sum_probs=13.8
Q ss_pred CHHHHHHHHHHcCCceEEcC
Q 008791 57 DPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 57 d~eeIikaI~kaGy~Ael~~ 76 (553)
+.+++.+.+++......++.
T Consensus 64 ~~~~~~~~~~~~~~~~~~~~ 83 (116)
T cd02966 64 DPAAVKAFLKKYGITFPVLL 83 (116)
T ss_pred CHHHHHHHHHHcCCCcceEE
Confidence 37888888888776555443
No 101
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=26.00 E-value=3e+02 Score=23.47 Aligned_cols=51 Identities=20% Similarity=0.313 Sum_probs=29.5
Q ss_pred Eec-cchhHHHHHHHH---HhcCC--CeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEcCC
Q 008791 17 VNV-DCDGCKQKVKKV---LRKID--GVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHAELWGP 77 (553)
Q Consensus 17 VeM-~C~sCa~KIEKa---L~kl~--GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~Ael~~~ 77 (553)
... .|+.|...+... +.+++ +|.-+.| ...+++++.+.+++..+...++..
T Consensus 33 ~~~~~c~~c~~~l~~l~~~~~~~~~~~~~vi~i----------s~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 33 WPTAWCPFCQAELPELNELYKKYKDKGVQVIGI----------STDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp ESTTTSHHHHHHHHHHHHHHHHHHTTTEEEEEE----------ESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred eCccCccccccchhHHHHHhhhhccceEEeeec----------ccccccchhhhhhhhccccccccC
Confidence 345 899998777443 33322 4432222 334566788888877766655543
No 102
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=25.78 E-value=1.9e+02 Score=23.55 Aligned_cols=49 Identities=16% Similarity=0.108 Sum_probs=36.2
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcC
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~ 76 (553)
..|+.=+-+++++|.++.- ...++|. ...+.+.|.+.+++.||++..+.
T Consensus 7 ~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 7 LQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred CcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 5899989999999998852 2233333 44677889999999999987544
No 103
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=25.72 E-value=48 Score=38.81 Aligned_cols=10 Identities=10% Similarity=0.043 Sum_probs=4.1
Q ss_pred CCCCCCCCCC
Q 008791 183 KFNTIEDDFD 192 (553)
Q Consensus 183 k~~~~~~~~~ 192 (553)
++.+..|+|+
T Consensus 518 DYEVdSDeEW 527 (811)
T KOG4364|consen 518 DYEVDSDEEW 527 (811)
T ss_pred cccccCcccc
Confidence 3334444443
No 104
>TIGR00401 msrA methionine-S-sulfoxide reductase. This model describes peptide methionine sulfoxide reductase (MsrA), a repair enzyme for proteins that have been inactivated by oxidation. The enzyme from E. coli is coextensive with this model and has enzymatic activity. However, in all completed genomes in which this module is present, a second protein module, described in TIGR00357, is also found, and in several cases as part of the same polypeptide chain: N-terminal to this module in Helicobacter pylori and Haemophilus influenzae (as in PilB of Neisseria gonorrhoeae) but C-terminal to it in Treponema pallidum. PilB, containing both domains, has been shown to be important for the expression of adhesins in certain pathogens.
Probab=25.51 E-value=1.9e+02 Score=27.63 Aligned_cols=29 Identities=41% Similarity=0.546 Sum_probs=24.7
Q ss_pred hhHHHHHHHHHhcCCCeeEEEEecCCcEE
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNVDVEQGKV 50 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~VDlatgkV 50 (553)
..|-+-+|..+.+++||.++++=++.+.+
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG~~ 35 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGGYT 35 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCCCC
Confidence 67888889999999999999998887743
No 105
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=25.41 E-value=3.2e+02 Score=28.97 Aligned_cols=22 Identities=23% Similarity=0.253 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHhcCCCeeEEEE
Q 008791 22 DGCKQKVKKVLRKIDGVYSTNV 43 (553)
Q Consensus 22 ~sCa~KIEKaL~kl~GV~sV~V 43 (553)
..|...|++.|..++||.++++
T Consensus 71 ~~~~~~v~~~i~~~~gV~~v~~ 92 (297)
T COG2177 71 QDDAALVREKIEGIPGVKSVRF 92 (297)
T ss_pred hHHHHHHHHHHhcCCCcceEEE
Confidence 9999999999999999988876
No 106
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=25.00 E-value=41 Score=36.90 Aligned_cols=57 Identities=14% Similarity=0.151 Sum_probs=28.3
Q ss_pred EEEEEEe-cc-----chhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHc
Q 008791 12 SCVLRVN-VD-----CDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKL 68 (553)
Q Consensus 12 tv~LkVe-M~-----C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~ka 68 (553)
+.-|.|. .| .-.|+.++-..|..+.--..-.|-.+..++.|. ..+..++|++.|..+
T Consensus 50 t~mF~VYDGHGG~EVa~yca~kLPdflK~~k~yk~g~~~~aL~~AFl~fD~~l~~ee~~keLk~i 114 (542)
T KOG0699|consen 50 THMFGVYDGHGGTEVAKYCAAKLPDFLKERKFYKAGDVAEALQKAFLDFDDFLRAEESMKELKDI 114 (542)
T ss_pred ceEEEEecCCCcHHHHHHHHHhhhHHHHhHHhhhcccHHHHHHHHHhchhhhhcCHHHHHHHHHH
Confidence 4556666 33 356777777777665433222222222222222 334555666666544
No 107
>PRK14425 acylphosphatase; Provisional
Probab=24.51 E-value=3.9e+02 Score=23.42 Aligned_cols=56 Identities=14% Similarity=0.228 Sum_probs=35.3
Q ss_pred EEEEEEe--ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe---cCCHHHHHHHHHHc
Q 008791 12 SCVLRVN--VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG---NVDPAILIKKLEKL 68 (553)
Q Consensus 12 tv~LkVe--M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g---~id~eeIikaI~ka 68 (553)
++.+.|. ..+-.....+.+...++ ++.=..-|+..++|+|.. ....+.+++.|++.
T Consensus 7 ~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dGsVei~~qG~~~~le~f~~~l~~g 67 (94)
T PRK14425 7 AVRVRITGRVQGVGFRDWTRDEAERL-GLTGWVRNESDGSVTALIAGPDSAISAMIERFRRG 67 (94)
T ss_pred EEEEEEEEeEecccchHHHHHHHHHh-CCEEEEEECCCCeEEEEEEeCHHHHHHHHHHHhhC
Confidence 5566676 35555555555554444 455566788988888762 34567778888753
No 108
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=24.49 E-value=85 Score=29.89 Aligned_cols=56 Identities=20% Similarity=0.310 Sum_probs=28.1
Q ss_pred EEEEEeccchhH------HHHHHHHHhcCCCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCC
Q 008791 13 CVLRVNVDCDGC------KQKVKKVLRKIDGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGK 70 (553)
Q Consensus 13 v~LkVeM~C~sC------a~KIEKaL~kl~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy 70 (553)
+.+.|.++...| +..|+++|..+ ||.+|+|++.-.-+.- ..--.++-.++|+..|.
T Consensus 27 V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~i~~~p~Wt-~d~it~~gr~~l~~~gi 88 (146)
T TIGR02159 27 VVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVSTSLDPPWT-TDWITEDAREKLREYGI 88 (146)
T ss_pred EEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEeEeeCCCCC-hHHCCHHHHHHHHhcCc
Confidence 445555444444 34477788876 8877766432111110 11112344666766664
No 109
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=24.39 E-value=3.4e+02 Score=27.57 Aligned_cols=59 Identities=15% Similarity=0.292 Sum_probs=36.5
Q ss_pred eEEEEEEe-ccchhHHHHHHHHHhcCCC-eeEEEEe-----cCCcEEEEEec---CCHHHHHHHHHHcC
Q 008791 11 QSCVLRVN-VDCDGCKQKVKKVLRKIDG-VYSTNVD-----VEQGKVTVTGN---VDPAILIKKLEKLG 69 (553)
Q Consensus 11 qtv~LkVe-M~C~sCa~KIEKaL~kl~G-V~sV~VD-----latgkVtV~g~---id~eeIikaI~kaG 69 (553)
++..+.|+ -.-..-+.+|++.+.+..| |.+...+ -....+.|+-. ...+.++..|.++|
T Consensus 50 ~~~~l~lev~d~~~a~~~i~~~~~~~gG~i~~~~~~~~~~~~~~~~~~ltiRVP~~~~~~~l~~l~~~g 118 (262)
T PF14257_consen 50 KTADLSLEVKDVEKAVKKIENLVESYGGYIESSSSSSSGGSDDERSASLTIRVPADKFDSFLDELSELG 118 (262)
T ss_pred EEEEEEEEECCHHHHHHHHHHHHHHcCCEEEEEeeecccCCCCcceEEEEEEECHHHHHHHHHHHhccC
Confidence 45556666 4667788889999998876 4555553 11233334322 35566777777777
No 110
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=24.33 E-value=3e+02 Score=22.54 Aligned_cols=56 Identities=23% Similarity=0.186 Sum_probs=34.2
Q ss_pred EEEEEEe-ccchhHHHHHHHHHhcCCC-eeEEEEecCCcEEEEE-----ecCCHHHHHHHHHH
Q 008791 12 SCVLRVN-VDCDGCKQKVKKVLRKIDG-VYSTNVDVEQGKVTVT-----GNVDPAILIKKLEK 67 (553)
Q Consensus 12 tv~LkVe-M~C~sCa~KIEKaL~kl~G-V~sV~VDlatgkVtV~-----g~id~eeIikaI~k 67 (553)
.+.+.|. .+++..+..|.++|.+..+ |..++........+.. ...+.++|.++|++
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~ 64 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEE 64 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHH
Confidence 4455666 5899999999999998865 5566666555555433 11244556666654
No 111
>PRK14437 acylphosphatase; Provisional
Probab=24.06 E-value=3.5e+02 Score=24.56 Aligned_cols=56 Identities=14% Similarity=0.077 Sum_probs=33.8
Q ss_pred eEEEEEEec--cchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe---cCCHHHHHHHHHH
Q 008791 11 QSCVLRVNV--DCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG---NVDPAILIKKLEK 67 (553)
Q Consensus 11 qtv~LkVeM--~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g---~id~eeIikaI~k 67 (553)
.++.|.|.. ........+.+...++ +|.=..-|+..++|+|.. ....+++++.|++
T Consensus 23 ~~~~i~V~G~VQGVGFR~fv~~~A~~l-gL~G~V~N~~dG~Vei~~qG~~~~ie~f~~~L~~ 83 (109)
T PRK14437 23 TCIHATVSGKVQGVFFRESVRKKAEEL-QLTGWVKNLSHGDVELVACGERDSIMILTEWLWE 83 (109)
T ss_pred EEEEEEEEEecCCcCchHHHHHHHHHh-CCeEEEEECCCCCEEEEEEECHHHHHHHHHHHHh
Confidence 466777773 4444455554444443 455556788888888762 2355667777764
No 112
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=23.92 E-value=3.1e+02 Score=23.15 Aligned_cols=55 Identities=9% Similarity=0.048 Sum_probs=38.7
Q ss_pred EEEEEEe-ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 008791 12 SCVLRVN-VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 12 tv~LkVe-M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~ 75 (553)
.++|.+. ..|+.=.-+++++|.+++- ...++|. ...+.+.|....+..|+++..+
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 3455555 6999999999999998842 1223333 3456778888889999988654
No 113
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=23.82 E-value=2.1e+02 Score=23.19 Aligned_cols=49 Identities=16% Similarity=0.091 Sum_probs=35.9
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcC
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~ 76 (553)
..|+.=.-+++++|.+++- ...++|. ...+.+.|.+.+++.||++....
T Consensus 7 ~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~ 57 (69)
T cd03423 7 LRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQE 57 (69)
T ss_pred CcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEEE
Confidence 5798888999999998852 1223332 45677889999999999987544
No 114
>cd08626 PI-PLCc_beta4 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta4. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 4. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=23.81 E-value=1.7e+02 Score=30.64 Aligned_cols=53 Identities=15% Similarity=0.162 Sum_probs=39.1
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcE-----EEEE------ecCCHHHHHHHHHHcCCceE
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGK-----VTVT------GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgk-----VtV~------g~id~eeIikaI~kaGy~Ae 73 (553)
+.-.+.+..+.++|. .|++-|++|...+. -+|. ..+..++++++|++..|.+.
T Consensus 26 l~~~ss~~~y~~aL~--~GcRcvElD~wdg~~~~~eP~V~HG~tlts~i~f~dv~~aI~~~AF~~s 89 (257)
T cd08626 26 FGGKSSVEMYRQVLL--AGCRCIELDCWDGKGEDQEPIITHGKAMCTDILFKDVIQAIKDTAFVTS 89 (257)
T ss_pred ccCCccHHHHHHHHH--cCCcEEEEEecCCCCCCCCCEEeeCCCCccCcCHHHHHHHHHHHhcccC
Confidence 445566778888886 58999999976653 3443 56889999999998777643
No 115
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.78 E-value=58 Score=32.35 Aligned_cols=16 Identities=19% Similarity=0.069 Sum_probs=10.8
Q ss_pred cCCHHHHHHHHHHcCC
Q 008791 55 NVDPAILIKKLEKLGK 70 (553)
Q Consensus 55 ~id~eeIikaI~kaGy 70 (553)
.+...+|.+.|..+.+
T Consensus 60 dV~~~eieE~L~~~l~ 75 (184)
T KOG4032|consen 60 DVKAREIEELLLELLG 75 (184)
T ss_pred chhHHHHHHHHHHHHH
Confidence 3566777777776654
No 116
>KOG2393 consensus Transcription initiation factor IIF, large subunit (RAP74) [Transcription]
Probab=23.31 E-value=55 Score=37.33 Aligned_cols=33 Identities=33% Similarity=0.452 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCC
Q 008791 190 DFDDEEFDDDFDEDDFDDYDDEDDEEFGHGHHLP 223 (553)
Q Consensus 190 ~~~dd~~ddd~dddddddddd~ddd~~dd~~~dp 223 (553)
+-||+.+++++|.|+++.+-|+|++ |-|+...|
T Consensus 278 d~Dd~a~eesdd~d~e~~E~DYdee-~addEE~P 310 (555)
T KOG2393|consen 278 DVDDEAFEESDDGDNEGRELDYDEE-SADDEEAP 310 (555)
T ss_pred CCcccccccCCCccccccccccccc-cCCccccc
No 117
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=23.05 E-value=4.1e+02 Score=22.47 Aligned_cols=51 Identities=20% Similarity=0.186 Sum_probs=35.1
Q ss_pred HHHHHHHHHhcCCCeeEEEEecC--CcEEE-EEecCCHHHHHHHHHHcCCceEE
Q 008791 24 CKQKVKKVLRKIDGVYSTNVDVE--QGKVT-VTGNVDPAILIKKLEKLGKHAEL 74 (553)
Q Consensus 24 Ca~KIEKaL~kl~GV~sV~VDla--tgkVt-V~g~id~eeIikaI~kaGy~Ael 74 (553)
.+.+...++.++++|..++.-+. ..++. |...-+.+.|.++-+++|+.+..
T Consensus 20 ~~~~~~~~~~~~~~V~w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~aG~p~d~ 73 (77)
T PF14026_consen 20 AHAKSCAVQAEMPGVQWLRSYVSEDDGKIFCLYEAPDEEAVREHARRAGLPADR 73 (77)
T ss_pred HHHHhHHHHhhcCCeEEEEEEEecCCCeEEEEEECCCHHHHHHHHHHcCCCcce
Confidence 34455556666688887765554 55554 44556888899999999988754
No 118
>TIGR03143 AhpF_homolog putative alkyl hydroperoxide reductase F subunit. This family of thioredoxin reductase homologs is found adjacent to alkylhydroperoxide reductase C subunit predominantly in cases where there is only one C subunit in the genome and that genome is lacking the F subunit partner (also a thioredcxin reductase homolog) that is usually found (TIGR03140).
Probab=22.79 E-value=1.2e+02 Score=34.44 Aligned_cols=17 Identities=18% Similarity=0.600 Sum_probs=11.0
Q ss_pred EEEEEE--eccchhHHHHH
Q 008791 12 SCVLRV--NVDCDGCKQKV 28 (553)
Q Consensus 12 tv~LkV--eM~C~sCa~KI 28 (553)
.+.|+| ..+|+.|...+
T Consensus 477 ~~~i~v~~~~~C~~Cp~~~ 495 (555)
T TIGR03143 477 PVNIKIGVSLSCTLCPDVV 495 (555)
T ss_pred CeEEEEEECCCCCCcHHHH
Confidence 445665 36999997533
No 119
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=22.76 E-value=4.2e+02 Score=22.49 Aligned_cols=66 Identities=9% Similarity=0.134 Sum_probs=37.2
Q ss_pred EEEEEEe--c---cchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE-ecCCHHHHHHHHHHcCCceEEcCCC
Q 008791 12 SCVLRVN--V---DCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT-GNVDPAILIKKLEKLGKHAELWGPQ 78 (553)
Q Consensus 12 tv~LkVe--M---~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~-g~id~eeIikaI~kaGy~Ael~~~~ 78 (553)
.++++|. + ++......+.+++.. ..+..+.+|+..-+..=. +......+++.+++.+.++.++...
T Consensus 9 ~~vi~l~G~L~f~~~~~~~~~l~~~~~~-~~~~~vilDls~v~~iDssgi~~L~~~~~~~~~~g~~l~l~~~~ 80 (106)
T TIGR02886 9 VLIVRLSGELDHHTAERVRRKIDDAIER-RPIKHLILNLKNVTFMDSSGLGVILGRYKKIKNEGGEVIVCNVS 80 (106)
T ss_pred EEEEEEecccchhhHHHHHHHHHHHHHh-CCCCEEEEECCCCcEecchHHHHHHHHHHHHHHcCCEEEEEeCC
Confidence 4566666 2 445555555554432 356677777764322211 2234455677777888888877643
No 120
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=22.72 E-value=1.2e+02 Score=31.45 Aligned_cols=46 Identities=20% Similarity=0.246 Sum_probs=32.0
Q ss_pred HHHHHHHHhcCCCeeEEEEecCCcEEEEE-ecCCHHHHHHHHHHcCCceEE
Q 008791 25 KQKVKKVLRKIDGVYSTNVDVEQGKVTVT-GNVDPAILIKKLEKLGKHAEL 74 (553)
Q Consensus 25 a~KIEKaL~kl~GV~sV~VDlatgkVtV~-g~id~eeIikaI~kaGy~Ael 74 (553)
...++.+|.. |++.|..+ .+.++|. ...+...+.++|++++|+++.
T Consensus 150 d~l~e~~iea--gaeDv~~~--~~~~~V~t~p~~~~~V~~~L~~~g~~~~~ 196 (241)
T COG0217 150 DELLEAAIEA--GAEDVEED--EGSIEVYTEPEDFNKVKEALEAAGYEIES 196 (241)
T ss_pred HHHHHHHHHC--CchhhhcC--CCeEEEEEChHHHHHHHHHHHHcCCceee
Confidence 4444555554 77777776 5566665 556888999999999987543
No 121
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=22.65 E-value=1.7e+02 Score=24.18 Aligned_cols=27 Identities=26% Similarity=0.486 Sum_probs=16.9
Q ss_pred ccchhHHHHHHHHHhcC----CCeeEEEEecC
Q 008791 19 VDCDGCKQKVKKVLRKI----DGVYSTNVDVE 46 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl----~GV~sV~VDla 46 (553)
-.|+.|. ++++.|.++ .+|.-..+|..
T Consensus 9 ~~C~~C~-~a~~~L~~l~~~~~~i~~~~idi~ 39 (85)
T PRK11200 9 PGCPYCV-RAKELAEKLSEERDDFDYRYVDIH 39 (85)
T ss_pred CCChhHH-HHHHHHHhhcccccCCcEEEEECC
Confidence 5899997 556666665 45554444443
No 122
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=22.59 E-value=3.4e+02 Score=25.64 Aligned_cols=60 Identities=28% Similarity=0.322 Sum_probs=39.9
Q ss_pred EEEEEEec-cchhHHHHHHHHHhcC----CCeeEEEEecCCcEEEEEecCCHHHHHHHHHHcCCce
Q 008791 12 SCVLRVNV-DCDGCKQKVKKVLRKI----DGVYSTNVDVEQGKVTVTGNVDPAILIKKLEKLGKHA 72 (553)
Q Consensus 12 tv~LkVeM-~C~sCa~KIEKaL~kl----~GV~sV~VDlatgkVtV~g~id~eeIikaI~kaGy~A 72 (553)
+-++.|+| ..+....+|.++|... +-|+ +-|.-..+.+.|....+.++.+++|+++|...
T Consensus 69 ~dVlaVEmeD~PG~l~~I~~vl~d~diNldYiY-AFv~ek~KAlli~r~ed~d~~~~aLed~gi~~ 133 (142)
T COG4747 69 TDVLAVEMEDVPGGLSRIAEVLGDADINLDYIY-AFVTEKQKALLIVRVEDIDRAIKALEDAGIKL 133 (142)
T ss_pred eeEEEEEecCCCCcHHHHHHHHhhcCcCceeee-eeeecCceEEEEEEhhHHHHHHHHHHHcCCee
Confidence 45678886 7788888888888743 3343 22333333333446668889999999999654
No 123
>cd08623 PI-PLCc_beta1 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta1. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 1. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=22.46 E-value=1.8e+02 Score=30.37 Aligned_cols=52 Identities=13% Similarity=0.224 Sum_probs=36.5
Q ss_pred cchhHHHHHHHHHhcCCCeeEEEEecCCcE-----EEEE------ecCCHHHHHHHHHHcCCceE
Q 008791 20 DCDGCKQKVKKVLRKIDGVYSTNVDVEQGK-----VTVT------GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 20 ~C~sCa~KIEKaL~kl~GV~sV~VDlatgk-----VtV~------g~id~eeIikaI~kaGy~Ae 73 (553)
.-.+-+..+.++|. .|++-|++|...+. -+|. ..+..++++++|++..|.+.
T Consensus 27 ~g~ss~e~y~~aL~--~GcRcvElD~wdG~~~~~ePiV~HG~tlts~i~f~dv~~~I~~~AF~~S 89 (258)
T cd08623 27 AGNSSVEMYRQVLL--SGCRCVELDCWKGRTAEEEPVITHGFTMTTEISFKEVIEAIAECAFKTS 89 (258)
T ss_pred CCccCHHHHHHHHH--cCCCEEEEEeeCCCCCCCCCEEeeCCCcccCcCHHHHHHHHHHHhccCC
Confidence 33344567777776 48888888876653 2333 56889999999998887653
No 124
>KOG3555 consensus Ca2+-binding proteoglycan Testican [General function prediction only]
Probab=22.44 E-value=64 Score=35.18 Aligned_cols=12 Identities=25% Similarity=0.329 Sum_probs=9.4
Q ss_pred HHHHHHhhccccc
Q 008791 89 LLNNQFKNMMNFE 101 (553)
Q Consensus 89 ~~~~qfk~l~~~~ 101 (553)
+|+.||+-|+ -|
T Consensus 212 RL~dWF~~lh-e~ 223 (434)
T KOG3555|consen 212 RLRDWFKALH-ED 223 (434)
T ss_pred HHHHHHHHHH-hh
Confidence 5778899888 55
No 125
>PF10991 DUF2815: Protein of unknown function (DUF2815); InterPro: IPR022595 This entry is represented by Bacteriophage APSE-1, protein 50. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.12 E-value=34 Score=33.74 Aligned_cols=8 Identities=25% Similarity=0.331 Sum_probs=3.7
Q ss_pred HHHHHHHH
Q 008791 59 AILIKKLE 66 (553)
Q Consensus 59 eeIikaI~ 66 (553)
+.|.++|+
T Consensus 45 ~~I~~Ai~ 52 (181)
T PF10991_consen 45 AAIKAAIE 52 (181)
T ss_pred HHHHHHHH
Confidence 34444443
No 126
>PF11080 DUF2622: Protein of unknown function (DUF2622); InterPro: IPR022597 This family is conserved in the Enterobacteriaceae family. The function is not known.
Probab=21.67 E-value=6e+02 Score=22.90 Aligned_cols=68 Identities=9% Similarity=0.060 Sum_probs=39.3
Q ss_pred CCcccccccceEEEEEEe--ccchhHHHHHHHHHhcCCCeeEEE------EecCCcEEEEEecCCHHHHHHHHHHcCCce
Q 008791 1 MNKQDFMKLQQSCVLRVN--VDCDGCKQKVKKVLRKIDGVYSTN------VDVEQGKVTVTGNVDPAILIKKLEKLGKHA 72 (553)
Q Consensus 1 mskee~~km~qtv~LkVe--M~C~sCa~KIEKaL~kl~GV~sV~------VDlatgkVtV~g~id~eeIikaI~kaGy~A 72 (553)
||.-++. +++++|+ -.--.-..++...|....=...+. ..+.+.+..+++..+.++|.+.++.++-.+
T Consensus 1 ms~~~~~----~YVVt~~~~e~~l~d~~~L~~~lt~~GF~~tl~D~~G~~HeLgtntfgl~S~l~~~eV~~la~~lae~a 76 (96)
T PF11080_consen 1 MSSSDIT----RYVVTFEYQEAGLTDINELNNHLTRAGFSTTLTDEDGNPHELGTNTFGLISALSAEEVAQLARGLAESA 76 (96)
T ss_pred CCCCcce----EEEEEEEeccCChHHHHHHHHHHHhcCceeEEecCCCCEeecCCCeEEEEecCCHHHHHHHHHHHhhhh
Confidence 5655543 4455555 456666777777776653332222 123344445556678888888887766443
No 127
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=21.63 E-value=55 Score=37.55 Aligned_cols=27 Identities=19% Similarity=0.311 Sum_probs=12.7
Q ss_pred HHHHHHHHhcCCC--e--eEEEEecCCcEEE
Q 008791 25 KQKVKKVLRKIDG--V--YSTNVDVEQGKVT 51 (553)
Q Consensus 25 a~KIEKaL~kl~G--V--~sV~VDlatgkVt 51 (553)
..-++++|..+.. + ..++|+++..+.+
T Consensus 57 ~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r 87 (678)
T KOG0127|consen 57 EEDVQRALAETEQSKFEGRILNVDPAKKRAR 87 (678)
T ss_pred HhHHHHHHHHhhcCcccceeccccccccccc
Confidence 4445555555443 1 2444555555444
No 128
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=21.54 E-value=55 Score=35.09 Aligned_cols=23 Identities=22% Similarity=0.183 Sum_probs=13.4
Q ss_pred EEEEEeccchhH--HHHHHHHHhcC
Q 008791 13 CVLRVNVDCDGC--KQKVKKVLRKI 35 (553)
Q Consensus 13 v~LkVeM~C~sC--a~KIEKaL~kl 35 (553)
++..|+++|..| +.+|+++|.+.
T Consensus 185 I~a~iel~c~~~dGIe~IK~aL~~~ 209 (319)
T PTZ00248 185 LRADIEVSCFDYEGIDAVKEALIAG 209 (319)
T ss_pred EEEEEEEEeCCCchHHHHHHHHHHH
Confidence 334445667554 66777777653
No 129
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=21.24 E-value=3.7e+02 Score=23.53 Aligned_cols=61 Identities=11% Similarity=0.194 Sum_probs=29.0
Q ss_pred EEEEEe-ccchhHHHHHH---------HHHhcCCCeeEEEEecCCcEEEEE---ecCCHHHHHHHHHHcCCceEEc
Q 008791 13 CVLRVN-VDCDGCKQKVK---------KVLRKIDGVYSTNVDVEQGKVTVT---GNVDPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 13 v~LkVe-M~C~sCa~KIE---------KaL~kl~GV~sV~VDlatgkVtV~---g~id~eeIikaI~kaGy~Ael~ 75 (553)
+.+.+. -.|..|....+ +.+. ..+..+.||+...+.... ..+...+|..++.-.++++.++
T Consensus 17 vlv~f~a~wC~~C~~~~~~~~~~~~~~~~~~--~~~~~~~i~~d~~~~~~~~~~~~~~~~~l~~~~~v~~~Pt~~~ 90 (125)
T cd02951 17 LLLLFSQPGCPYCDKLKRDYLNDPAVQAYIR--AHFVVVYINIDGDKEVTDFDGEALSEKELARKYRVRFTPTVIF 90 (125)
T ss_pred EEEEEeCCCCHHHHHHHHHhcCcHHHHHHHH--hheEEEEEEccCCceeeccCCCCccHHHHHHHcCCccccEEEE
Confidence 334444 58999986432 2222 345556666544332111 1123345555554444554433
No 130
>KOG1274 consensus WD40 repeat protein [General function prediction only]
Probab=20.90 E-value=68 Score=38.65 Aligned_cols=47 Identities=30% Similarity=0.283 Sum_probs=0.0
Q ss_pred cccccCCCCCCCCCCCCCCC-----------CCCCCCCCCCCCCC------------CCCccccCCCCCC
Q 008791 176 NKDQKHGKFNTIEDDFDDEE-----------FDDDFDEDDFDDYD------------DEDDEEFGHGHHL 222 (553)
Q Consensus 176 ~~~~k~~k~~~~~~~~~dd~-----------~ddd~ddddddddd------------d~ddd~~dd~~~d 222 (553)
.+...+.++.+.+.+.+|++ ++|+-|+++|||++ ++|+++++|+..+
T Consensus 319 ~k~~~~~l~~Dd~~~~~d~~~~~~~~~s~~~~~~~~d~a~~Ed~~t~~~~lrk~~~~~eD~~d~~e~~~~ 388 (933)
T KOG1274|consen 319 EKKRNSGLDVDDEVDLEDDEGNDDINKSEKLDSDINDEANEEDEFTSHDGLRKRKYNFEDEEDFDEDDNG 388 (933)
T ss_pred ccCCCcCcccchhhcccccccccccccchhhccccccccccccccccccchhhhcccccCccchhhhccc
No 131
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=20.86 E-value=1.7e+02 Score=33.80 Aligned_cols=70 Identities=24% Similarity=0.321 Sum_probs=47.2
Q ss_pred cchhHHHHHHHHHhcCCCeeEEEEecCCcEEE--EEecCCHHHHHHHHHHcCCceEEcCCCCCCCchhhhHHHHHHHhhc
Q 008791 20 DCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVT--VTGNVDPAILIKKLEKLGKHAELWGPQKGSSNSNYQNLLNNQFKNM 97 (553)
Q Consensus 20 ~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVt--V~g~id~eeIikaI~kaGy~Ael~~~~~~~s~~~~~~~~~~qfk~l 97 (553)
.|.+-..|+.+.|+.|.... ..++|. |+..++.++|...|.-.+|.+.++......+. -+++...||+-
T Consensus 447 V~~s~~~Kl~wl~~~L~~f~------S~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~---rn~~ls~fKkk 517 (731)
T KOG0339|consen 447 VCPSEEKKLNWLLRHLVEFS------SEGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAE---RNEVLSKFKKK 517 (731)
T ss_pred eccCcHHHHHHHHHHhhhhc------cCCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHH---HHHHHHHHhhc
Confidence 48888899999998885532 223443 44678999999999999999887765543332 23455556554
Q ss_pred c
Q 008791 98 M 98 (553)
Q Consensus 98 ~ 98 (553)
+
T Consensus 518 ~ 518 (731)
T KOG0339|consen 518 R 518 (731)
T ss_pred C
Confidence 3
No 132
>PRK14444 acylphosphatase; Provisional
Probab=20.79 E-value=4.7e+02 Score=22.72 Aligned_cols=62 Identities=16% Similarity=0.138 Sum_probs=35.1
Q ss_pred eEEEEEEe--ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--e-cCCHHHHHHHHHHcCCceE
Q 008791 11 QSCVLRVN--VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--G-NVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 11 qtv~LkVe--M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g-~id~eeIikaI~kaGy~Ae 73 (553)
.++.+.|. ...-.....+.+...++ ++.=..-|+..++|+|. + ....+++++.|++.-..++
T Consensus 4 ~~~~i~v~G~VQGVGFR~~v~~~A~~l-gl~G~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~ 70 (92)
T PRK14444 4 VRAHVFISGRVQGVNFRAYTRDRAREA-GVKGWVRNLSDGRVEAVFEGSRPAVQKMISWCYSGPSHAR 70 (92)
T ss_pred EEEEEEEEEeeCCcCcHHHHHHHHHHh-CCEEEEEECCCCcEEEEEEcCHHHHHHHHHHHHhCCCCcE
Confidence 56667776 24444455554444443 34445577888888776 2 3346677777774333333
No 133
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=20.66 E-value=4.8e+02 Score=24.98 Aligned_cols=38 Identities=13% Similarity=0.184 Sum_probs=29.5
Q ss_pred EEEEecCCcEEEEEe--cCCHHHHHHHHHHcCCceEEcCC
Q 008791 40 STNVDVEQGKVTVTG--NVDPAILIKKLEKLGKHAELWGP 77 (553)
Q Consensus 40 sV~VDlatgkVtV~g--~id~eeIikaI~kaGy~Ael~~~ 77 (553)
-+.+|+....|.+.+ .++.++|++.|.+.|..+.+...
T Consensus 45 iAildL~G~~l~l~S~R~~~~~evi~~I~~~G~PviVAtD 84 (138)
T PF04312_consen 45 IAILDLDGELLDLKSSRNMSRSEVIEWISEYGKPVIVATD 84 (138)
T ss_pred EEEEecCCcEEEEEeecCCCHHHHHHHHHHcCCEEEEEec
Confidence 455777777777763 58999999999999998877544
No 134
>cd08633 PI-PLCc_eta2 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-eta2. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-eta isozyme 2. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-eta represents a class of neuron-speific PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal tail that terminates with a PDZ-binding m
Probab=20.61 E-value=2.4e+02 Score=29.46 Aligned_cols=53 Identities=17% Similarity=0.118 Sum_probs=38.6
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcE---EEEE------ecCCHHHHHHHHHHcCCceE
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGK---VTVT------GNVDPAILIKKLEKLGKHAE 73 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgk---VtV~------g~id~eeIikaI~kaGy~Ae 73 (553)
+.-.+.+..+.++|. .|++-|++|...+. -.|. ..+..++++++|++..|.+.
T Consensus 26 l~~~ss~e~y~~aL~--~GcRcvElD~Wdg~~~eP~V~HG~tlts~i~f~~v~~~I~~~AF~~s 87 (254)
T cd08633 26 LMSQSRVDMYAWVLQ--AGCRCVEVDCWDGPDGEPIVHHGYTLTSKILFKDVIETINKYAFIKN 87 (254)
T ss_pred cCCccCHHHHHHHHH--cCCcEEEEEeecCCCCCcEEeeCCCcccCcCHHHHHHHHHHHhccCC
Confidence 445566778888886 58888888876643 3443 45888999999998777653
No 135
>PRK14440 acylphosphatase; Provisional
Probab=20.55 E-value=4.1e+02 Score=23.03 Aligned_cols=57 Identities=18% Similarity=0.254 Sum_probs=36.0
Q ss_pred eEEEEEEe--ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEEe---cCCHHHHHHHHHHc
Q 008791 11 QSCVLRVN--VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVTG---NVDPAILIKKLEKL 68 (553)
Q Consensus 11 qtv~LkVe--M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~g---~id~eeIikaI~ka 68 (553)
+++.+.|. ..+..+...|.+...++ +|.-..-|+..++|+|.. ....+++++.|++.
T Consensus 3 ~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~~G~~~~v~~f~~~l~~g 64 (90)
T PRK14440 3 KRMYARVYGLVQGVGFRKFVQIHAIRL-GIKGYAKNLPDGSVEVVAEGYEEALSKLLERIKQG 64 (90)
T ss_pred EEEEEEEEEeEeccCchHHHHHHHHHc-CCEEEEEECCCCCEEEEEEcCHHHHHHHHHHHhhC
Confidence 46667777 35666666666665554 355555778888887762 23456677777643
No 136
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=20.40 E-value=2.4e+02 Score=23.01 Aligned_cols=49 Identities=8% Similarity=-0.089 Sum_probs=35.9
Q ss_pred ccchhHHHHHHHHHhcCCCeeEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEcC
Q 008791 19 VDCDGCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT--GNVDPAILIKKLEKLGKHAELWG 76 (553)
Q Consensus 19 M~C~sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~--g~id~eeIikaI~kaGy~Ael~~ 76 (553)
..|+-=.-+++++|+++.-- ..++|. ...+.+.|.+.++..||++....
T Consensus 7 ~~CP~Pvi~~kkal~~l~~G---------~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~~ 57 (69)
T cd03422 7 EPCPYPAIATLEALPSLKPG---------EILEVISDCPQSINNIPIDARNHGYKVLAIE 57 (69)
T ss_pred CcCCHHHHHHHHHHHcCCCC---------CEEEEEecCchHHHHHHHHHHHcCCEEEEEE
Confidence 47988899999999988522 223332 45677889999999999986543
No 137
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic 40-residue C-terminal domain that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=20.26 E-value=2.4e+02 Score=27.32 Aligned_cols=31 Identities=16% Similarity=0.201 Sum_probs=27.5
Q ss_pred hHHHHHHHHHhcCCCeeEEEEecCCcEEEEE
Q 008791 23 GCKQKVKKVLRKIDGVYSTNVDVEQGKVTVT 53 (553)
Q Consensus 23 sCa~KIEKaL~kl~GV~sV~VDlatgkVtV~ 53 (553)
.-+.+|.+.+.++++|.++.+-.....+.|.
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vg 84 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVG 84 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEE
Confidence 6789999999999999999998888888765
No 138
>PRK08198 threonine dehydratase; Provisional
Probab=20.22 E-value=5.7e+02 Score=27.63 Aligned_cols=65 Identities=20% Similarity=0.279 Sum_probs=38.9
Q ss_pred eEEEEEEec-cchhHHHHHHHHHhcCC-CeeEEEEec-----CCcEEEEE---ecC---CHHHHHHHHHHcCCceEEc
Q 008791 11 QSCVLRVNV-DCDGCKQKVKKVLRKID-GVYSTNVDV-----EQGKVTVT---GNV---DPAILIKKLEKLGKHAELW 75 (553)
Q Consensus 11 qtv~LkVeM-~C~sCa~KIEKaL~kl~-GV~sV~VDl-----atgkVtV~---g~i---d~eeIikaI~kaGy~Ael~ 75 (553)
++++|.|.+ +=+.--.+|-..|.+.. -|.++..+. ...++.|+ ... ..++|+++|++.||+++++
T Consensus 326 r~~~l~v~l~D~PG~L~~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~ie~~~~~~~~~l~~~L~~~G~~v~~~ 403 (404)
T PRK08198 326 RYLKLRVRLPDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLETRGPEHIEEILDALRDAGYEVKVV 403 (404)
T ss_pred CEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEeCCHHHHHHHHHHHHHCCCeEEEc
Confidence 345677774 55666666766777664 355555442 12344333 122 3567899999999987754
No 139
>PRK00694 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated
Probab=20.21 E-value=77 Score=36.68 Aligned_cols=25 Identities=20% Similarity=0.768 Sum_probs=17.8
Q ss_pred EEEe-ccchhH----------HHHHHHHHhcCCCee
Q 008791 15 LRVN-VDCDGC----------KQKVKKVLRKIDGVY 39 (553)
Q Consensus 15 LkVe-M~C~sC----------a~KIEKaL~kl~GV~ 39 (553)
.+.+ ++|++| ..+|++....++||.
T Consensus 506 sKte~isCP~CgRtlfdlq~t~~~i~~~t~Hl~g~k 541 (606)
T PRK00694 506 VKTEYISCPGCGRTLFDLLEVTQRIRERTQHLPGLK 541 (606)
T ss_pred ccceEEECCCCCceeehHHHHHHHHHHHhccCCCce
Confidence 3455 699999 566777777777764
No 140
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.20 E-value=70 Score=30.13 Aligned_cols=12 Identities=0% Similarity=-0.189 Sum_probs=8.0
Q ss_pred ccchhHHHHHHH
Q 008791 19 VDCDGCKQKVKK 30 (553)
Q Consensus 19 M~C~sCa~KIEK 30 (553)
+.|+.|-..+..
T Consensus 27 ~vcP~cg~~~~~ 38 (129)
T TIGR02300 27 AVSPYTGEQFPP 38 (129)
T ss_pred ccCCCcCCccCc
Confidence 588888765533
No 141
>PF04972 BON: BON domain; InterPro: IPR007055 The BON domain is typically ~60 residues long and has an alpha/beta predicted fold. There is a conserved glycine residue and several hydrophobic regions. This pattern of conservation is more suggestive of a binding or structural function rather than a catalytic function. Most proteobacteria seem to possess one or two BON-containing proteins, typically of the OsmY-type proteins; outside of this group the distribution is more disparate. The OsmY protein is an Escherichia coli 20 kDa outer membrane or periplasmic protein that is expressed in response to a variety of stress conditions, in particular, helping to provide protection against osmotic shock. One hypothesis is that OsmY prevents shrinkage of the cytoplasmic compartment by contacting the phospholipid interfaces surrounding the periplasmic space. The domain architecture of two BON domains alone suggests that these domains contact the surfaces of phospholipids, with each domain contacting a membrane [].; PDB: 2L26_A 2KGS_A 2KSM_A.
Probab=20.19 E-value=65 Score=25.23 Aligned_cols=30 Identities=40% Similarity=0.626 Sum_probs=13.7
Q ss_pred HHHHHHHhc---CCCeeEEEEecCCcEEEEEecC
Q 008791 26 QKVKKVLRK---IDGVYSTNVDVEQGKVTVTGNV 56 (553)
Q Consensus 26 ~KIEKaL~k---l~GV~sV~VDlatgkVtV~g~i 56 (553)
.+|+.+|.. ++.. .+.|....+.|+|++.+
T Consensus 2 ~~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v 34 (64)
T PF04972_consen 2 TKVRAALRADPWLPDS-NISVSVENGVVTLSGEV 34 (64)
T ss_dssp -----------CTT-T-TEEEEEECTEEEEEEEE
T ss_pred cccccccccccccCCC-eEEEEEECCEEEEEeeC
Confidence 356666665 3333 56777778888888654
Done!