Query 009870
Match_columns 523
No_of_seqs 370 out of 1601
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 18:19:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009870.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009870hhsearch_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 3.4E-11 7.3E-16 94.9 8.7 58 5-62 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.2 8.8E-11 1.9E-15 96.4 9.4 66 1-66 1-70 (71)
3 KOG1603 Copper chaperone [Inor 99.0 2.5E-09 5.5E-14 88.1 8.6 67 1-67 4-71 (73)
4 KOG4656 Copper chaperone for s 98.6 1.4E-07 3.1E-12 91.8 8.3 67 3-69 8-74 (247)
5 PLN02957 copper, zinc superoxi 98.2 6E-06 1.3E-10 82.6 10.1 70 2-71 6-75 (238)
6 PRK10671 copA copper exporting 98.1 8.6E-06 1.9E-10 94.4 8.1 65 1-67 2-67 (834)
7 TIGR00003 copper ion binding p 98.0 4.9E-05 1.1E-09 55.3 8.9 63 1-63 1-67 (68)
8 COG2217 ZntA Cation transport 97.9 2.2E-05 4.7E-10 89.6 7.9 63 2-65 2-69 (713)
9 KOG0207 Cation transport ATPas 97.5 0.00029 6.2E-09 81.2 8.1 67 3-69 70-140 (951)
10 KOG0207 Cation transport ATPas 97.4 0.00018 3.9E-09 82.8 6.0 65 3-67 147-215 (951)
11 PRK10671 copA copper exporting 96.9 0.0022 4.8E-08 74.7 8.1 64 3-66 100-164 (834)
12 PRK11033 zntA zinc/cadmium/mer 96.5 0.0061 1.3E-07 70.4 7.6 64 3-66 54-119 (741)
13 PF06524 NOA36: NOA36 protein; 95.8 0.0059 1.3E-07 61.9 2.6 10 10-19 39-48 (314)
14 PF06524 NOA36: NOA36 protein; 95.3 0.011 2.4E-07 60.0 2.5 9 11-19 99-107 (314)
15 TIGR02052 MerP mercuric transp 94.8 0.36 7.7E-06 38.7 9.7 63 3-65 24-90 (92)
16 cd00371 HMA Heavy-metal-associ 93.8 0.57 1.2E-05 30.6 7.6 56 6-61 2-60 (63)
17 KOG1832 HIV-1 Vpr-binding prot 93.2 0.044 9.6E-07 63.6 1.8 13 22-34 1295-1307(1516)
18 PRK13748 putative mercuric red 92.2 0.56 1.2E-05 52.0 8.8 65 5-69 3-70 (561)
19 COG1888 Uncharacterized protei 91.7 0.78 1.7E-05 40.1 7.1 65 2-66 6-79 (97)
20 PF05764 YL1: YL1 nuclear prot 91.4 0.15 3.2E-06 51.5 2.9 8 170-177 39-46 (240)
21 PF05764 YL1: YL1 nuclear prot 89.2 0.3 6.4E-06 49.3 3.0 10 175-184 35-44 (240)
22 KOG1991 Nuclear transport rece 89.0 0.22 4.7E-06 58.6 2.1 17 48-64 802-818 (1010)
23 PF15243 ANAPC15: Anaphase-pro 88.4 0.81 1.8E-05 40.0 4.7 6 147-152 47-52 (92)
24 PF02680 DUF211: Uncharacteriz 88.0 2.6 5.7E-05 37.1 7.6 64 2-66 5-77 (95)
25 KOG3241 Uncharacterized conser 86.4 0.54 1.2E-05 45.7 2.7 14 11-24 44-57 (227)
26 PF04889 Cwf_Cwc_15: Cwf15/Cwc 86.3 0.31 6.6E-06 49.6 1.1 16 29-44 29-44 (244)
27 KOG3241 Uncharacterized conser 83.0 0.8 1.7E-05 44.6 2.2 6 11-16 69-74 (227)
28 PF01206 TusA: Sulfurtransfera 81.9 3.7 8.1E-05 32.9 5.5 53 5-66 2-57 (70)
29 PRK14054 methionine sulfoxide 81.2 4 8.8E-05 39.5 6.3 28 13-40 10-37 (172)
30 KOG1991 Nuclear transport rece 80.0 0.97 2.1E-05 53.4 1.9 9 20-28 753-761 (1010)
31 PRK00058 methionine sulfoxide 77.9 5.2 0.00011 40.1 6.0 28 12-39 51-78 (213)
32 KOG2023 Nuclear transport rece 77.0 1.1 2.4E-05 51.3 1.2 7 22-28 105-111 (885)
33 PRK05528 methionine sulfoxide 76.7 7.5 0.00016 37.1 6.5 27 13-39 8-34 (156)
34 PF09849 DUF2076: Uncharacteri 74.8 2.7 5.8E-05 43.0 3.2 17 16-32 6-22 (247)
35 PTZ00248 eukaryotic translatio 73.7 23 0.0005 37.6 9.8 23 4-26 185-209 (319)
36 KOG2038 CAATT-binding transcri 73.5 1.9 4.2E-05 50.0 2.0 20 13-32 594-613 (988)
37 PF01883 DUF59: Domain of unkn 72.7 5.3 0.00011 32.3 3.9 32 3-34 35-72 (72)
38 KOG2038 CAATT-binding transcri 72.0 2.2 4.9E-05 49.5 2.0 6 267-272 960-965 (988)
39 PF14283 DUF4366: Domain of un 71.8 2.4 5.2E-05 42.5 2.0 17 45-61 103-119 (218)
40 PRK13014 methionine sulfoxide 70.4 8.3 0.00018 37.9 5.3 29 12-40 14-42 (186)
41 PTZ00329 eukaryotic translatio 69.9 3 6.5E-05 39.8 2.1 9 135-143 98-106 (155)
42 PRK10553 assembly protein for 67.9 17 0.00037 31.5 6.1 50 10-59 12-63 (87)
43 COG0225 MsrA Peptide methionin 66.5 25 0.00054 34.3 7.6 29 12-40 12-40 (174)
44 cd04883 ACT_AcuB C-terminal AC 66.3 37 0.00079 26.6 7.4 60 5-64 3-69 (72)
45 PRK11018 hypothetical protein; 65.4 21 0.00046 29.8 6.1 53 4-65 9-64 (78)
46 PF14492 EFG_II: Elongation Fa 62.8 29 0.00063 28.6 6.4 61 4-64 6-72 (75)
47 PF04050 Upf2: Up-frameshift s 62.4 2.5 5.4E-05 40.5 0.0 7 269-275 93-99 (170)
48 KOG0772 Uncharacterized conser 61.9 5.8 0.00012 44.4 2.6 8 55-62 43-50 (641)
49 PF03927 NapD: NapD protein; 61.4 33 0.00071 28.9 6.5 45 14-59 15-60 (79)
50 PF11702 DUF3295: Protein of u 60.2 4.9 0.00011 44.9 1.7 12 506-518 489-500 (507)
51 PF12253 CAF1A: Chromatin asse 59.3 9.6 0.00021 32.4 3.0 11 172-182 38-48 (77)
52 PRK12766 50S ribosomal protein 58.5 3.6 7.7E-05 41.7 0.3 9 54-62 17-25 (232)
53 PF09849 DUF2076: Uncharacteri 58.5 9 0.0002 39.2 3.2 14 15-28 28-41 (247)
54 PF02724 CDC45: CDC45-like pro 58.4 7.7 0.00017 44.5 3.0 26 4-29 2-28 (622)
55 PF02724 CDC45: CDC45-like pro 57.6 7.4 0.00016 44.7 2.7 19 5-23 29-48 (622)
56 PF09580 Spore_YhcN_YlaJ: Spor 57.3 24 0.00051 33.4 5.7 32 13-44 74-105 (177)
57 cd03421 SirA_like_N SirA_like_ 56.7 27 0.00058 27.8 5.1 51 6-66 2-55 (67)
58 PF01625 PMSR: Peptide methion 56.1 29 0.00063 33.0 6.0 47 13-59 7-75 (155)
59 KOG1924 RhoA GTPase effector D 56.0 14 0.00031 43.3 4.5 9 410-418 526-534 (1102)
60 PRK05550 bifunctional methioni 55.2 27 0.00058 36.6 6.0 30 10-39 131-160 (283)
61 cd04908 ACT_Bt0572_1 N-termina 52.5 89 0.0019 24.5 7.4 59 6-64 4-65 (66)
62 PF13732 DUF4162: Domain of un 51.6 43 0.00093 27.4 5.7 45 23-68 26-71 (84)
63 cd04906 ACT_ThrD-I_1 First of 50.1 1.2E+02 0.0027 25.3 8.3 63 5-68 3-74 (85)
64 KOG0127 Nucleolar protein fibr 49.4 8.5 0.00018 43.4 1.4 31 5-35 7-38 (678)
65 PHA03346 US22 family homolog; 48.4 11 0.00024 42.5 2.0 10 13-22 235-244 (520)
66 PF11702 DUF3295: Protein of u 48.3 11 0.00025 42.1 2.2 6 459-464 446-451 (507)
67 PTZ00329 eukaryotic translatio 47.8 10 0.00022 36.3 1.5 9 36-44 42-50 (155)
68 PRK14440 acylphosphatase; Prov 46.8 1.1E+02 0.0024 26.3 7.6 57 1-58 2-63 (90)
69 COG1254 AcyP Acylphosphatases 46.5 1.3E+02 0.0029 26.3 8.0 58 1-59 3-65 (92)
70 PF08777 RRM_3: RNA binding mo 44.7 74 0.0016 28.2 6.4 56 4-59 2-60 (105)
71 cd02966 TlpA_like_family TlpA- 44.3 1.5E+02 0.0032 24.0 7.9 58 6-67 24-83 (116)
72 TIGR02945 SUF_assoc FeS assemb 43.9 21 0.00045 30.7 2.7 21 17-37 58-78 (99)
73 cd04909 ACT_PDH-BS C-terminal 43.6 1E+02 0.0022 24.0 6.5 59 5-63 3-69 (69)
74 KOG0127 Nucleolar protein fibr 43.6 12 0.00026 42.2 1.4 9 18-26 59-67 (678)
75 PHA03283 envelope glycoprotein 42.3 16 0.00035 41.0 2.1 9 81-89 353-361 (542)
76 TIGR00401 msrA methionine-S-su 41.5 60 0.0013 30.7 5.6 27 13-39 7-33 (149)
77 cd00291 SirA_YedF_YeeD SirA, Y 41.5 73 0.0016 25.0 5.4 52 6-66 2-56 (69)
78 PF10873 DUF2668: Protein of u 40.3 33 0.00071 32.6 3.5 9 487-495 129-137 (155)
79 TIGR00993 3a0901s04IAP86 chlor 40.0 17 0.00037 42.4 2.0 6 270-275 553-558 (763)
80 cd04888 ACT_PheB-BS C-terminal 39.5 75 0.0016 25.0 5.2 20 15-34 55-74 (76)
81 cd03420 SirA_RHOD_Pry_redox Si 39.2 78 0.0017 25.6 5.3 52 6-66 2-56 (69)
82 PTZ00482 membrane-attack compl 38.7 17 0.00036 43.2 1.7 22 17-38 10-31 (844)
83 COG4530 Uncharacterized protei 38.6 21 0.00045 32.5 1.9 9 11-19 11-19 (129)
84 cd02410 archeal_CPSF_KH The ar 38.6 1.1E+02 0.0023 29.2 6.7 57 13-69 52-115 (145)
85 TIGR02300 FYDLN_acid conserved 38.5 24 0.00053 32.8 2.4 10 10-19 10-19 (129)
86 PRK11670 antiporter inner memb 38.3 71 0.0015 34.3 6.2 54 16-69 67-145 (369)
87 PF10628 CotE: Outer spore coa 38.1 18 0.0004 35.4 1.6 11 14-24 3-13 (182)
88 PRK10026 arsenate reductase; P 38.0 1.3E+02 0.0028 28.3 7.1 54 1-62 1-54 (141)
89 PRK02363 DNA-directed RNA poly 37.9 19 0.00041 33.4 1.6 12 47-58 20-31 (129)
90 PRK14448 acylphosphatase; Prov 37.7 2E+02 0.0043 24.7 7.8 57 1-58 1-62 (90)
91 smart00362 RRM_2 RNA recogniti 37.3 1.6E+02 0.0034 21.5 6.5 53 6-59 2-59 (72)
92 cd03423 SirA SirA (also known 37.2 93 0.002 25.1 5.4 52 6-66 2-56 (69)
93 PRK00299 sulfur transfer prote 36.7 1.3E+02 0.0028 25.2 6.4 54 4-66 10-66 (81)
94 PRK07334 threonine dehydratase 36.2 1.2E+02 0.0025 32.8 7.5 63 4-66 327-402 (403)
95 TIGR01659 sex-lethal sex-letha 35.8 4.7E+02 0.01 27.9 11.9 53 6-59 196-255 (346)
96 PRK14424 acylphosphatase; Prov 35.2 2.1E+02 0.0045 25.0 7.6 57 1-58 6-67 (94)
97 KOG0699 Serine/threonine prote 34.9 22 0.00048 38.5 1.7 10 14-23 67-76 (542)
98 TIGR02159 PA_CoA_Oxy4 phenylac 34.7 46 0.001 31.4 3.7 57 4-62 27-89 (146)
99 KOG4364 Chromatin assembly fac 34.3 27 0.00058 40.4 2.3 18 10-27 366-383 (811)
100 COG3062 NapD Uncharacterized p 34.3 1.7E+02 0.0036 26.0 6.7 49 10-59 13-63 (94)
101 PF10991 DUF2815: Protein of u 33.9 16 0.00035 35.7 0.5 9 49-57 44-52 (181)
102 TIGR02898 spore_YhcN_YlaJ spor 33.9 97 0.0021 29.7 5.7 31 14-44 54-84 (158)
103 KOG1924 RhoA GTPase effector D 33.9 53 0.0011 38.9 4.6 8 172-179 353-360 (1102)
104 PF03958 Secretin_N: Bacterial 33.8 1.1E+02 0.0023 24.8 5.4 54 5-59 3-76 (82)
105 cd03012 TlpA_like_DipZ_like Tl 33.5 1.8E+02 0.0039 25.5 7.1 58 5-66 27-90 (126)
106 KOG2236 Uncharacterized conser 33.4 34 0.00073 38.0 2.9 20 493-512 456-475 (483)
107 PF00578 AhpC-TSA: AhpC/TSA fa 33.3 1.6E+02 0.0036 25.0 6.7 47 11-67 37-88 (124)
108 TIGR00503 prfC peptide chain r 32.8 1.1E+02 0.0024 34.6 6.8 68 5-72 396-468 (527)
109 PF14442 Bd3614_N: Bd3614-like 32.8 26 0.00057 32.4 1.6 7 50-56 40-46 (138)
110 PRK14429 acylphosphatase; Prov 32.6 2.5E+02 0.0054 24.1 7.6 57 1-58 1-62 (90)
111 KOG2548 SWAP mRNA splicing reg 32.5 25 0.00053 39.6 1.7 16 47-62 77-92 (653)
112 COG0425 SirA Predicted redox p 32.2 1.3E+02 0.0028 25.3 5.6 52 4-64 6-61 (78)
113 KOG4032 Uncharacterized conser 31.9 32 0.00068 33.8 2.1 16 46-61 60-75 (184)
114 COG3076 Uncharacterized protei 31.7 24 0.00051 32.2 1.1 8 58-65 52-59 (135)
115 PF05046 Img2: Mitochondrial l 31.3 1.9E+02 0.0041 24.8 6.6 49 12-61 38-87 (87)
116 PF11491 DUF3213: Protein of u 31.3 47 0.001 28.8 2.8 49 16-64 13-64 (88)
117 KOG2236 Uncharacterized conser 31.2 67 0.0015 35.8 4.6 6 26-31 16-21 (483)
118 KOG4032 Uncharacterized conser 31.1 30 0.00065 34.0 1.8 8 19-26 17-24 (184)
119 PF08534 Redoxin: Redoxin; In 30.9 1.3E+02 0.0027 26.8 5.8 46 11-67 40-91 (146)
120 cd03422 YedF YedF is a bacteri 30.6 1.3E+02 0.0028 24.3 5.3 51 7-66 3-56 (69)
121 PRK14018 trifunctional thiored 30.6 99 0.0022 35.0 6.0 28 12-39 204-231 (521)
122 PF00708 Acylphosphatase: Acyl 30.1 2.4E+02 0.0053 23.7 7.1 63 2-65 4-71 (91)
123 cd04885 ACT_ThrD-I Tandem C-te 30.1 1.8E+02 0.004 23.0 6.0 54 11-64 7-67 (68)
124 PRK00741 prfC peptide chain re 29.8 1.2E+02 0.0027 34.1 6.7 68 5-72 395-467 (526)
125 PRK14420 acylphosphatase; Prov 29.5 2.9E+02 0.0063 23.6 7.5 58 1-59 1-63 (91)
126 PRK14426 acylphosphatase; Prov 29.5 3.2E+02 0.007 23.5 7.8 56 2-58 4-64 (92)
127 PF04468 PSP1: PSP1 C-terminal 29.5 1.3E+02 0.0028 25.7 5.3 47 12-59 28-78 (88)
128 KOG4364 Chromatin assembly fac 29.2 33 0.00071 39.7 1.9 11 453-464 740-750 (811)
129 KOG4730 D-arabinono-1, 4-lacto 28.9 34 0.00073 38.2 1.9 49 10-63 88-136 (518)
130 PRK14449 acylphosphatase; Prov 28.7 3.6E+02 0.0079 23.0 7.9 55 3-58 4-63 (90)
131 TIGR01659 sex-lethal sex-letha 28.7 2E+02 0.0043 30.8 7.6 54 4-58 108-168 (346)
132 KOG0699 Serine/threonine prote 28.1 32 0.0007 37.4 1.6 10 47-56 144-153 (542)
133 cd01514 Elongation_Factor_C El 28.0 2.8E+02 0.0061 22.4 6.9 47 6-52 4-51 (79)
134 KOG2874 rRNA processing protei 27.9 58 0.0013 34.2 3.3 43 13-57 72-123 (356)
135 PF08712 Nfu_N: Scaffold prote 27.6 1.3E+02 0.0029 25.7 5.0 41 17-59 37-79 (87)
136 smart00838 EFG_C Elongation fa 27.3 2.3E+02 0.005 23.5 6.3 47 6-53 6-53 (85)
137 PRK02048 4-hydroxy-3-methylbut 27.3 52 0.0011 37.8 3.1 25 6-30 514-549 (611)
138 PF08002 DUF1697: Protein of u 27.2 1.7E+02 0.0037 27.0 6.1 50 16-66 21-75 (137)
139 PRK14435 acylphosphatase; Prov 27.0 3E+02 0.0065 23.6 7.1 57 1-58 1-62 (90)
140 PF13291 ACT_4: ACT domain; PD 27.0 1.5E+02 0.0033 23.9 5.1 31 3-33 49-79 (80)
141 KOG3671 Actin regulatory prote 26.9 30 0.00065 38.8 1.1 15 11-25 36-50 (569)
142 PRK14422 acylphosphatase; Prov 26.8 3.7E+02 0.0081 23.2 7.7 56 2-58 6-66 (93)
143 KOG3411 40S ribosomal protein 26.6 48 0.001 31.1 2.2 48 11-58 92-140 (143)
144 PF13192 Thioredoxin_3: Thiore 26.2 70 0.0015 26.0 3.0 11 8-18 6-16 (76)
145 COG2761 FrnE Predicted dithiol 26.0 1.2E+02 0.0027 30.8 5.2 39 3-41 5-48 (225)
146 cd03011 TlpA_like_ScsD_MtbDsbE 26.0 2.7E+02 0.0058 23.8 6.8 46 10-65 30-77 (123)
147 PF04972 BON: BON domain; Int 25.8 49 0.0011 25.7 1.9 33 17-49 2-36 (64)
148 PRK14441 acylphosphatase; Prov 24.7 4.5E+02 0.0097 22.7 7.8 57 1-58 4-65 (93)
149 PRK11198 LysM domain/BON super 24.7 1.8E+02 0.0039 27.1 5.8 46 13-58 25-71 (147)
150 cd02951 SoxW SoxW family; SoxW 24.3 2.9E+02 0.0063 24.0 6.8 16 4-19 17-33 (125)
151 PRK14450 acylphosphatase; Prov 24.3 4.3E+02 0.0092 22.6 7.6 57 1-58 1-63 (91)
152 TIGR03527 selenium_YedF seleni 23.8 1.3E+02 0.0028 29.6 4.9 48 10-66 6-55 (194)
153 cd08593 PI-PLCc_delta Catalyti 23.8 70 0.0015 33.1 3.0 53 10-64 26-87 (257)
154 PRK12596 putative monovalent c 23.8 3.9E+02 0.0084 25.7 8.0 52 6-57 95-148 (171)
155 TIGR00119 acolac_sm acetolacta 23.8 5.3E+02 0.011 24.6 8.8 59 4-63 45-111 (157)
156 COG2151 PaaD Predicted metal-s 23.6 1E+02 0.0023 27.9 3.8 31 6-36 53-89 (111)
157 COG3343 RpoE DNA-directed RNA 23.5 40 0.00087 32.8 1.2 13 47-59 31-43 (175)
158 cd02969 PRX_like1 Peroxiredoxi 23.5 1.8E+02 0.004 26.8 5.6 20 48-67 76-95 (171)
159 PRK14431 acylphosphatase; Prov 23.4 3.7E+02 0.008 23.1 7.0 56 1-58 1-61 (89)
160 PHA03283 envelope glycoprotein 23.2 53 0.0011 37.1 2.2 8 50-57 352-359 (542)
161 TIGR03675 arCOG00543 arCOG0054 23.0 2E+02 0.0043 33.4 6.8 56 13-68 69-131 (630)
162 cd02975 PfPDO_like_N Pyrococcu 23.0 4.1E+02 0.0088 23.2 7.4 7 10-16 32-38 (113)
163 KOG2140 Uncharacterized conser 22.9 55 0.0012 37.3 2.2 15 48-62 291-305 (739)
164 KOG3360 Acylphosphatase [Energ 22.8 3.3E+02 0.0071 24.4 6.5 63 3-65 9-75 (98)
165 cd04884 ACT_CBS C-terminal ACT 22.7 2.7E+02 0.0059 21.9 5.8 60 6-66 2-72 (72)
166 KOG3648 Golgi apparatus protei 22.6 59 0.0013 37.7 2.4 6 125-130 60-65 (1179)
167 cd08626 PI-PLCc_beta4 Catalyti 22.4 1.1E+02 0.0024 31.6 4.2 53 10-64 26-89 (257)
168 KOG3782 Predicted membrane pro 22.3 1.3E+02 0.0027 29.5 4.2 34 10-43 25-66 (189)
169 PF13740 ACT_6: ACT domain; PD 22.3 3.5E+02 0.0076 21.9 6.5 57 3-59 2-65 (76)
170 PF13905 Thioredoxin_8: Thiore 22.3 2E+02 0.0043 23.5 5.1 48 6-62 6-60 (95)
171 TIGR03759 conj_TIGR03759 integ 22.3 2.4E+02 0.0052 28.3 6.3 55 4-67 112-166 (200)
172 PRK14434 acylphosphatase; Prov 22.2 4.3E+02 0.0094 22.8 7.2 58 1-58 1-64 (92)
173 cd00590 RRM RRM (RNA recogniti 22.1 3.2E+02 0.0069 19.9 6.6 53 6-59 2-60 (74)
174 PRK11152 ilvM acetolactate syn 22.0 1.4E+02 0.0031 25.1 4.1 23 12-34 53-75 (76)
175 KOG4434 Molecular chaperone SE 21.8 73 0.0016 34.7 2.8 11 19-29 202-212 (520)
176 PF08210 APOBEC_N: APOBEC-like 21.8 1.3E+02 0.0027 29.5 4.3 63 3-68 75-147 (188)
177 PF11111 CENP-M: Centromere pr 21.8 79 0.0017 31.0 2.8 54 4-63 68-130 (176)
178 cd03010 TlpA_like_DsbE TlpA-li 21.6 5.3E+02 0.011 22.2 8.9 51 5-62 29-80 (127)
179 TIGR02886 spore_II_AA anti-sig 21.6 1.8E+02 0.004 24.5 4.8 65 4-70 10-81 (106)
180 TIGR02300 FYDLN_acid conserved 21.5 63 0.0014 30.1 2.0 10 10-19 27-36 (129)
181 cd08597 PI-PLCc_PRIP_metazoa C 21.3 1E+02 0.0022 31.9 3.7 53 10-64 26-87 (260)
182 PF10505 NARG2_C: NMDA recepto 21.1 2.1E+02 0.0046 28.9 5.8 46 13-58 75-120 (220)
183 cd04886 ACT_ThrD-II-like C-ter 21.0 3.2E+02 0.007 20.5 5.7 17 48-64 56-72 (73)
184 cd02967 mauD Methylamine utili 20.9 2.2E+02 0.0048 24.0 5.2 46 10-61 31-76 (114)
185 PRK03147 thiol-disulfide oxido 20.9 3.1E+02 0.0067 25.0 6.5 51 6-65 66-122 (173)
186 PF01037 AsnC_trans_reg: AsnC 20.7 4.1E+02 0.0088 20.6 7.8 45 14-58 10-55 (74)
187 PRK09577 multidrug efflux prot 20.6 1.9E+02 0.0042 35.3 6.3 46 16-61 158-211 (1032)
188 PRK10555 aminoglycoside/multid 20.6 1.8E+02 0.0039 35.5 6.1 45 15-59 158-210 (1037)
189 PF00085 Thioredoxin: Thioredo 20.6 4.6E+02 0.0099 21.1 8.5 34 4-37 20-58 (103)
190 PF14026 DUF4242: Protein of u 20.6 5E+02 0.011 21.7 7.1 50 16-65 21-73 (77)
191 TIGR02661 MauD methylamine deh 20.5 4E+02 0.0086 25.4 7.4 46 10-63 84-129 (189)
192 PF02831 gpW: gpW; InterPro: 20.4 2.5E+02 0.0055 23.3 5.1 48 10-58 1-49 (68)
193 cd03711 Tet_C Tet_C: C-terminu 20.3 4.3E+02 0.0094 21.4 6.6 46 6-52 4-50 (78)
194 PRK14444 acylphosphatase; Prov 20.3 5.6E+02 0.012 22.0 7.7 58 1-59 3-65 (92)
195 PF03927 NapD: NapD protein; 20.3 2.6E+02 0.0057 23.5 5.3 34 3-36 40-73 (79)
196 PHA02588 cd deoxycytidylate de 20.0 2.6E+02 0.0056 26.8 5.9 52 4-67 102-154 (168)
197 KOG0333 U5 snRNP-like RNA heli 20.0 1.2E+02 0.0026 34.8 4.0 56 4-67 492-548 (673)
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=99.24 E-value=3.4e-11 Score=94.86 Aligned_cols=58 Identities=34% Similarity=0.596 Sum_probs=54.3
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHHcCCc
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAKSGKH 62 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~kaGy~ 62 (523)
||+|. |+|.+|+++|+++|++++||.+++||+.+++|+|+.+ +++++|+++|+++||+
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 68998 9999999999999999999999999999999999964 5679999999999995
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.20 E-value=8.8e-11 Score=96.42 Aligned_cols=66 Identities=33% Similarity=0.584 Sum_probs=59.5
Q ss_pred CeEEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--e-cCCHHHHHHHHHHcCCceEEc
Q 009870 1 MQTYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--G-NVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 1 Mqkv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g-~vd~~eIikaI~kaGy~a~l~ 66 (523)
|.+++|+|+ |+|.+|+.+|+++|++++||.+|+|+++.++++|+ . .++.++|+++|+++||.+..+
T Consensus 1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 567899999 99999999999999999999999999999777766 3 479999999999999988754
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.97 E-value=2.5e-09 Score=88.12 Aligned_cols=67 Identities=60% Similarity=0.998 Sum_probs=61.5
Q ss_pred CeEEEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcC-CceEEcC
Q 009870 1 MQTYVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSG-KHAELWG 67 (523)
Q Consensus 1 Mqkv~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaG-y~a~l~~ 67 (523)
+++++++|.|+|..|+.+|++.|+.++||+++++|....+|+|.+.+++..|++.|++.+ .++++|.
T Consensus 4 ~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 4 IKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred ccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEec
Confidence 356888999999999999999999999999999999999999999999999999999987 7776664
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.59 E-value=1.4e-07 Score=91.78 Aligned_cols=67 Identities=31% Similarity=0.526 Sum_probs=62.7
Q ss_pred EEEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcCcc
Q 009870 3 TYVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWGAQ 69 (523)
Q Consensus 3 kv~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~~~ 69 (523)
+++|.|.|+|++|+..|++.|..++||.+|+|+++...|.|.+.+.+.+|+.+|+.+|.++.+....
T Consensus 8 ~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G 74 (247)
T KOG4656|consen 8 EAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAG 74 (247)
T ss_pred eEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCC
Confidence 4688899999999999999999999999999999999999999999999999999999999887643
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.23 E-value=6e-06 Score=82.59 Aligned_cols=70 Identities=26% Similarity=0.469 Sum_probs=61.9
Q ss_pred eEEEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcCcccc
Q 009870 2 QTYVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWGAQKA 71 (523)
Q Consensus 2 qkv~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~~~~~ 71 (523)
++++|.|.|+|.+|+.+|+++|+++++|.++.+++...+++|+..+..++|+++|++++|.++++.....
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~ 75 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDP 75 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCc
Confidence 3566777799999999999999999999999999999999998777889999999999999988765443
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.05 E-value=8.6e-06 Score=94.41 Aligned_cols=65 Identities=23% Similarity=0.410 Sum_probs=57.8
Q ss_pred CeEEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 009870 1 MQTYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 1 Mqkv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~ 67 (523)
+++++|+|+ |+|.+|+.+|+++|++++||.+|+|++. +++|+..++.+.|.++|+++||++++..
T Consensus 2 ~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 2 SQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 357899999 9999999999999999999999999995 5566666799999999999999988753
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=98.02 E-value=4.9e-05 Score=55.32 Aligned_cols=63 Identities=19% Similarity=0.423 Sum_probs=53.5
Q ss_pred CeEEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHHcCCce
Q 009870 1 MQTYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG---NVDPSVLIKKLAKSGKHA 63 (523)
Q Consensus 1 Mqkv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g---~vd~~eIikaI~kaGy~a 63 (523)
|.+++|.|. ++|..|+.+|++.|..+++|..+.+++...++.|+. .++...|...|+..+|.+
T Consensus 1 ~~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 67 (68)
T TIGR00003 1 KQKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYEV 67 (68)
T ss_pred CcEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCCc
Confidence 456789999 999999999999999999999999999999988874 246777777788888754
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.91 E-value=2.2e-05 Score=89.62 Aligned_cols=63 Identities=27% Similarity=0.524 Sum_probs=57.0
Q ss_pred eEEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CC-HHHHHHHHHHcCCceEE
Q 009870 2 QTYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VD-PSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 2 qkv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd-~~eIikaI~kaGy~a~l 65 (523)
.+++|.|+ |+|..|+++|| +|++++||.+++|++.+++++|..+ ++ .++++.+|+++||.++.
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 56889999 99999999999 9999999999999999999999843 45 78999999999998764
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.46 E-value=0.00029 Score=81.24 Aligned_cols=67 Identities=25% Similarity=0.428 Sum_probs=61.0
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHHcCCceEEcCcc
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAKSGKHAELWGAQ 69 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~kaGy~a~l~~~~ 69 (523)
++.|+|. |+|.+|++.||+.|++++||.++.|.+..++.+|..+ ++++.|.+.|+++||.+++....
T Consensus 70 ~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~~ 140 (951)
T KOG0207|consen 70 KCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIESV 140 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhcc
Confidence 5789999 9999999999999999999999999999999999853 79999999999999998876543
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.43 E-value=0.00018 Score=82.84 Aligned_cols=65 Identities=25% Similarity=0.405 Sum_probs=59.7
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHHcCCceEEcC
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG---NVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g---~vd~~eIikaI~kaGy~a~l~~ 67 (523)
+++|.|. |+|.+|+.+||+.|.+++||.+++|++.+++++|.. .+.+.+|++.|++++|.+.+..
T Consensus 147 ~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~ 215 (951)
T KOG0207|consen 147 KIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRP 215 (951)
T ss_pred cEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeee
Confidence 6789999 999999999999999999999999999999999884 3799999999999999877654
No 11
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.91 E-value=0.0022 Score=74.68 Aligned_cols=64 Identities=25% Similarity=0.468 Sum_probs=56.9
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEc
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~ 66 (523)
+++|.|. |+|..|+.+|++.|.++++|.++++++.+.++.|....+.++|.+.|++++|.++++
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~ 164 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAI 164 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcccc
Confidence 4568899 999999999999999999999999999999988876678888999999999987654
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.48 E-value=0.0061 Score=70.37 Aligned_cols=64 Identities=20% Similarity=0.310 Sum_probs=54.0
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec-CCHHHHHHHHHHcCCceEEc
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN-VDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~-vd~~eIikaI~kaGy~a~l~ 66 (523)
+++|+|. |+|.+|+++|++.|.++++|.++++++.+.++.|..+ ...++|.++|+++||++..+
T Consensus 54 r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 54 RYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred eEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 5678899 9999999999999999999999999999999888743 12367788889999987654
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=95.78 E-value=0.0059 Score=61.94 Aligned_cols=10 Identities=40% Similarity=1.109 Sum_probs=4.9
Q ss_pred ecCHHHHHHH
Q 009870 10 IHCDGCKHKV 19 (523)
Q Consensus 10 M~C~~Ca~kI 19 (523)
|.|..|..+-
T Consensus 39 MeCdkC~r~Q 48 (314)
T PF06524_consen 39 MECDKCQRKQ 48 (314)
T ss_pred ccchhhhhhc
Confidence 4555554443
No 14
>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=95.27 E-value=0.011 Score=60.03 Aligned_cols=9 Identities=44% Similarity=0.763 Sum_probs=4.7
Q ss_pred cCHHHHHHH
Q 009870 11 HCDGCKHKV 19 (523)
Q Consensus 11 ~C~~Ca~kI 19 (523)
.|..|.+.|
T Consensus 99 iCDfCEawv 107 (314)
T PF06524_consen 99 ICDFCEAWV 107 (314)
T ss_pred hhccchhhe
Confidence 455555544
No 15
>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=94.78 E-value=0.36 Score=38.69 Aligned_cols=63 Identities=25% Similarity=0.383 Sum_probs=47.7
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHHcCCceEE
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG---NVDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g---~vd~~eIikaI~kaGy~a~l 65 (523)
++.+.+. ++|..|..+++..+...++|..+.+.+...++.+.. ..+...+...+++.+|.+++
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 3556677 899999999999999999988888888877766652 24556666667777877543
No 16
>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=93.78 E-value=0.57 Score=30.56 Aligned_cols=56 Identities=38% Similarity=0.694 Sum_probs=38.0
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec--CCHHHHHHHHHHcCC
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN--VDPSVLIKKLAKSGK 61 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~--vd~~eIikaI~kaGy 61 (523)
+.+. +.|..|...++..+....+|....+.+....+.+... .....+...++..++
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (63)
T cd00371 2 LSVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAGY 60 (63)
T ss_pred eeECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcCC
Confidence 3456 8899999999999988888877777777666555532 244444444444443
No 17
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.15 E-value=0.044 Score=63.56 Aligned_cols=13 Identities=8% Similarity=0.307 Sum_probs=5.3
Q ss_pred HHhcCCCeeEEEE
Q 009870 22 ILQKIDGVFTTSI 34 (523)
Q Consensus 22 aL~kl~GV~sV~V 34 (523)
.|+.++-...+.|
T Consensus 1295 lLh~VP~Ldqc~V 1307 (1516)
T KOG1832|consen 1295 LLHSVPSLDQCAV 1307 (1516)
T ss_pred HHhcCccccceEE
Confidence 3444444433333
No 18
>PRK13748 putative mercuric reductase; Provisional
Probab=92.17 E-value=0.56 Score=51.95 Aligned_cols=65 Identities=29% Similarity=0.508 Sum_probs=52.3
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHHcCCceEEcCcc
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG--NVDPSVLIKKLAKSGKHAELWGAQ 69 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g--~vd~~eIikaI~kaGy~a~l~~~~ 69 (523)
.+.+. ++|.+|..++++.+..+++|..+.+++...++.+.. ..+.+.+...+++.++.++++...
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~~ 70 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADAP 70 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCcc
Confidence 46678 999999999999999999999999998888877663 245667777788889887766553
No 19
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=91.65 E-value=0.78 Score=40.07 Aligned_cols=65 Identities=26% Similarity=0.300 Sum_probs=41.3
Q ss_pred eEEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEE-----EecCCC--EEEEEe-cCCHHHHHHHHHHcCCceEEc
Q 009870 2 QTYVLKVN-IHCDGCKHKVKKILQKIDGVFTTS-----IDSEQG--KVTVSG-NVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 2 qkv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~-----VDl~sg--kVtV~g-~vd~~eIikaI~kaGy~a~l~ 66 (523)
++++|.|. -+-.--..-+.+.|++++||.-|+ +|.++. +++|++ +++.++|.+.|++.|..++.+
T Consensus 6 RRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSi 79 (97)
T COG1888 6 RRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSI 79 (97)
T ss_pred eeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeeh
Confidence 55666666 342333344556677787775443 333443 445554 599999999999999876654
No 20
>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=91.41 E-value=0.15 Score=51.53 Aligned_cols=8 Identities=13% Similarity=0.306 Sum_probs=3.1
Q ss_pred cccccCCC
Q 009870 170 QKAVKFNI 177 (523)
Q Consensus 170 ~k~~k~~~ 177 (523)
..|..|..
T Consensus 39 e~D~ef~~ 46 (240)
T PF05764_consen 39 EDDEEFES 46 (240)
T ss_pred CCCccccC
Confidence 33444433
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=89.22 E-value=0.3 Score=49.35 Aligned_cols=10 Identities=50% Similarity=0.996 Sum_probs=5.0
Q ss_pred CCCCCCCCCC
Q 009870 175 FNIPDDDEDF 184 (523)
Q Consensus 175 ~~~~~dddd~ 184 (523)
|..+++|+||
T Consensus 35 f~Eee~D~ef 44 (240)
T PF05764_consen 35 FQEEEDDEEF 44 (240)
T ss_pred ccccCCCccc
Confidence 4554555544
No 22
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=89.02 E-value=0.22 Score=58.58 Aligned_cols=17 Identities=18% Similarity=0.335 Sum_probs=10.4
Q ss_pred CHHHHHHHHHHcCCceE
Q 009870 48 DPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 48 d~~eIikaI~kaGy~a~ 64 (523)
.+...+..|++.+|...
T Consensus 802 nP~ltL~iLe~~~~~~~ 818 (1010)
T KOG1991|consen 802 NPKLTLGILENQGFLNN 818 (1010)
T ss_pred CcHHHHHHHHHcCCccc
Confidence 45555666777777543
No 23
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=88.40 E-value=0.81 Score=40.05 Aligned_cols=6 Identities=33% Similarity=0.346 Sum_probs=2.5
Q ss_pred CCCCCC
Q 009870 147 QDLKLP 152 (523)
Q Consensus 147 ~~mk~p 152 (523)
++..|.
T Consensus 47 kd~nlv 52 (92)
T PF15243_consen 47 KDNNLV 52 (92)
T ss_pred hccCcC
Confidence 344443
No 24
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=87.96 E-value=2.6 Score=37.10 Aligned_cols=64 Identities=22% Similarity=0.300 Sum_probs=41.8
Q ss_pred eEEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEE-----ecCCCEEE--EEe-cCCHHHHHHHHHHcCCceEEc
Q 009870 2 QTYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSI-----DSEQGKVT--VSG-NVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 2 qkv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~V-----Dl~sgkVt--V~g-~vd~~eIikaI~kaGy~a~l~ 66 (523)
++++|.|. -|-.+ .-.+.++|++++||..|++ |.++..+. |++ .++.++|.++|++.|-.++.+
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 RRLVLDVLKPHEPS-IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSI 77 (95)
T ss_dssp EEEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEE
T ss_pred eEEEEEeecCCCCC-HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEee
Confidence 56777777 54444 4456677899999876654 34444444 444 499999999999999766543
No 25
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.41 E-value=0.54 Score=45.69 Aligned_cols=14 Identities=21% Similarity=0.572 Sum_probs=11.0
Q ss_pred cCHHHHHHHHHHHh
Q 009870 11 HCDGCKHKVKKILQ 24 (523)
Q Consensus 11 ~C~~Ca~kIEKaL~ 24 (523)
.|..|...|+..+.
T Consensus 44 VCqRCkEqieWk~K 57 (227)
T KOG3241|consen 44 VCQRCKEQIEWKRK 57 (227)
T ss_pred HHHHHHHHHHHHHH
Confidence 58889888887754
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=86.30 E-value=0.31 Score=49.56 Aligned_cols=16 Identities=6% Similarity=0.067 Sum_probs=6.6
Q ss_pred eeEEEEecCCCEEEEE
Q 009870 29 VFTTSIDSEQGKVTVS 44 (523)
Q Consensus 29 V~sV~VDl~sgkVtV~ 44 (523)
+++++.....-+|.+.
T Consensus 29 ~~ssRdLPsHTkLK~R 44 (244)
T PF04889_consen 29 QYSSRDLPSHTKLKYR 44 (244)
T ss_pred ccccccCCcCCeeeee
Confidence 3344433344444444
No 27
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.96 E-value=0.8 Score=44.57 Aligned_cols=6 Identities=33% Similarity=1.304 Sum_probs=2.8
Q ss_pred cCHHHH
Q 009870 11 HCDGCK 16 (523)
Q Consensus 11 ~C~~Ca 16 (523)
.|.+|.
T Consensus 69 kC~kC~ 74 (227)
T KOG3241|consen 69 KCQKCT 74 (227)
T ss_pred HHHHHH
Confidence 355553
No 28
>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=81.93 E-value=3.7 Score=32.91 Aligned_cols=53 Identities=15% Similarity=0.110 Sum_probs=38.6
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~ 66 (523)
+|.+. +.|+...-++.++|.+++- ...++|. ...+.++|.+.+++.||++..+
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~---------G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPP---------GEVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGT---------T-EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCC---------CCEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 56677 8999999999999998732 2234444 3356788999999999975544
No 29
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=81.18 E-value=4 Score=39.49 Aligned_cols=28 Identities=21% Similarity=0.527 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCCE
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQGK 40 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sgk 40 (523)
..|-|.+|+.+.+++||.+++|-++.+.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 6889999999999999999999877654
No 30
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=79.95 E-value=0.97 Score=53.43 Aligned_cols=9 Identities=22% Similarity=0.427 Sum_probs=3.3
Q ss_pred HHHHhcCCC
Q 009870 20 KKILQKIDG 28 (523)
Q Consensus 20 EKaL~kl~G 28 (523)
|-++....|
T Consensus 753 e~iiL~~kg 761 (1010)
T KOG1991|consen 753 EVIILNCKG 761 (1010)
T ss_pred HHHHHHhcC
Confidence 333333333
No 31
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=77.89 E-value=5.2 Score=40.07 Aligned_cols=28 Identities=21% Similarity=0.533 Sum_probs=24.4
Q ss_pred CHHHHHHHHHHHhcCCCeeEEEEecCCC
Q 009870 12 CDGCKHKVKKILQKIDGVFTTSIDSEQG 39 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~GV~sV~VDl~sg 39 (523)
-..|-|.+|..+.+|+||.+++|=+..+
T Consensus 51 agGCFWg~E~~F~~l~GV~~t~vGYagG 78 (213)
T PRK00058 51 GMGCFWGAERLFWQLPGVYSTAVGYAGG 78 (213)
T ss_pred EccCcchhHHHHhcCCCEEEEEeeecCC
Confidence 4689999999999999999999987743
No 32
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=77.03 E-value=1.1 Score=51.27 Aligned_cols=7 Identities=14% Similarity=0.468 Sum_probs=2.6
Q ss_pred HHhcCCC
Q 009870 22 ILQKIDG 28 (523)
Q Consensus 22 aL~kl~G 28 (523)
.++.+-|
T Consensus 105 lIr~tvG 111 (885)
T KOG2023|consen 105 LIRATVG 111 (885)
T ss_pred HHHhhhh
Confidence 3333333
No 33
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=76.66 E-value=7.5 Score=37.10 Aligned_cols=27 Identities=26% Similarity=0.559 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCC
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQG 39 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sg 39 (523)
..|-|.+|..+.+++||.+++|-+..+
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG 34 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANG 34 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCC
Confidence 789999999999999999999876543
No 34
>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=74.82 E-value=2.7 Score=42.96 Aligned_cols=17 Identities=0% Similarity=0.251 Sum_probs=10.9
Q ss_pred HHHHHHHHhcCCCeeEE
Q 009870 16 KHKVKKILQKIDGVFTT 32 (523)
Q Consensus 16 a~kIEKaL~kl~GV~sV 32 (523)
...|+..|.+|..|+..
T Consensus 6 ~qLI~~lf~RL~~ae~~ 22 (247)
T PF09849_consen 6 RQLIDDLFSRLKQAEAQ 22 (247)
T ss_pred HHHHHHHHHHHHhccCC
Confidence 45677777777665443
No 35
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=73.70 E-value=23 Score=37.60 Aligned_cols=23 Identities=17% Similarity=0.189 Sum_probs=16.6
Q ss_pred EEEEEeecCHHH--HHHHHHHHhcC
Q 009870 4 YVLKVNIHCDGC--KHKVKKILQKI 26 (523)
Q Consensus 4 v~LkVeM~C~~C--a~kIEKaL~kl 26 (523)
++..|+++|..| +.+|+++|.+-
T Consensus 185 I~a~iel~c~~~dGIe~IK~aL~~~ 209 (319)
T PTZ00248 185 LRADIEVSCFDYEGIDAVKEALIAG 209 (319)
T ss_pred EEEEEEEEeCCCchHHHHHHHHHHH
Confidence 444455888666 88999998764
No 36
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=73.54 E-value=1.9 Score=50.01 Aligned_cols=20 Identities=10% Similarity=0.039 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHhcCCCeeEE
Q 009870 13 DGCKHKVKKILQKIDGVFTT 32 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV 32 (523)
+.|.-.|.++|...+.+++.
T Consensus 594 ~G~l~Llsel~Karp~l~~l 613 (988)
T KOG2038|consen 594 CGILFLLSELLKARPTLRKL 613 (988)
T ss_pred HhHHHHHHHHHHhcchHHHH
Confidence 35666667776666665443
No 37
>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=72.66 E-value=5.3 Score=32.27 Aligned_cols=32 Identities=13% Similarity=0.461 Sum_probs=21.8
Q ss_pred EEEEEEeecCHHH------HHHHHHHHhcCCCeeEEEE
Q 009870 3 TYVLKVNIHCDGC------KHKVKKILQKIDGVFTTSI 34 (523)
Q Consensus 3 kv~LkVeM~C~~C------a~kIEKaL~kl~GV~sV~V 34 (523)
+++|.|.+.+..| ...|+++|+.+++|.+|+|
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 3556666666666 4778889999999998876
No 38
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=71.97 E-value=2.2 Score=49.49 Aligned_cols=6 Identities=33% Similarity=0.274 Sum_probs=2.7
Q ss_pred CCCCCe
Q 009870 267 GGPMPV 272 (523)
Q Consensus 267 ~~~~p~ 272 (523)
..+.||
T Consensus 960 ~~d~pv 965 (988)
T KOG2038|consen 960 LNDSPV 965 (988)
T ss_pred cccchh
Confidence 344444
No 39
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=71.76 E-value=2.4 Score=42.50 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=12.3
Q ss_pred ecCCHHHHHHHHHHcCC
Q 009870 45 GNVDPSVLIKKLAKSGK 61 (523)
Q Consensus 45 g~vd~~eIikaI~kaGy 61 (523)
..|+..+|+..+++..-
T Consensus 103 n~VdE~DLl~l~e~~~~ 119 (218)
T PF14283_consen 103 NQVDEADLLALMEEEEE 119 (218)
T ss_pred ccCCHHHHHHHHhccCC
Confidence 45888888888876543
No 40
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=70.40 E-value=8.3 Score=37.85 Aligned_cols=29 Identities=24% Similarity=0.475 Sum_probs=24.7
Q ss_pred CHHHHHHHHHHHhcCCCeeEEEEecCCCE
Q 009870 12 CDGCKHKVKKILQKIDGVFTTSIDSEQGK 40 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~GV~sV~VDl~sgk 40 (523)
-..|-|.+|..+.+++||.+++|-+..+.
T Consensus 14 agGCFWg~E~~f~~l~GV~~t~vGYagG~ 42 (186)
T PRK13014 14 AGGCFWGVEGVFQHVPGVVSVVSGYSGGH 42 (186)
T ss_pred ecCCceeeHHHHccCCCEEEEEeeecCCC
Confidence 36789999999999999999999877653
No 41
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=69.90 E-value=3 Score=39.82 Aligned_cols=9 Identities=22% Similarity=0.302 Sum_probs=4.3
Q ss_pred HHHHHHHhh
Q 009870 135 QQLQHLQQI 143 (523)
Q Consensus 135 qq~qq~qq~ 143 (523)
.|...|...
T Consensus 98 devr~Lk~~ 106 (155)
T PTZ00329 98 DEARALKQH 106 (155)
T ss_pred HHHHHHHHc
Confidence 345555444
No 42
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=67.89 E-value=17 Score=31.46 Aligned_cols=50 Identities=14% Similarity=0.247 Sum_probs=36.2
Q ss_pred ecC-HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE-ecCCHHHHHHHHHHc
Q 009870 10 IHC-DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS-GNVDPSVLIKKLAKS 59 (523)
Q Consensus 10 M~C-~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~-g~vd~~eIikaI~ka 59 (523)
++| +.-...|.+.|..++++.-...+.+.+|++|+ ...+.+++++.|+++
T Consensus 12 V~~~Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~I 63 (87)
T PRK10553 12 VQAKSERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIESV 63 (87)
T ss_pred EEeChHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHHH
Confidence 344 34478899999999999877777778888877 335666666666554
No 43
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=66.51 E-value=25 Score=34.28 Aligned_cols=29 Identities=28% Similarity=0.496 Sum_probs=24.0
Q ss_pred CHHHHHHHHHHHhcCCCeeEEEEecCCCE
Q 009870 12 CDGCKHKVKKILQKIDGVFTTSIDSEQGK 40 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~GV~sV~VDl~sgk 40 (523)
-..|-|-+|+.+.+++||.++.+-++.+.
T Consensus 12 agGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 12 AGGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred eccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 36889999999999999999988665543
No 44
>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=66.25 E-value=37 Score=26.63 Aligned_cols=60 Identities=12% Similarity=0.200 Sum_probs=34.4
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcC-CCeeEEEEecC----CCEEEEEec-CCHHHHHHHHHHcCCceE
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKI-DGVFTTSIDSE----QGKVTVSGN-VDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl-~GV~sV~VDl~----sgkVtV~g~-vd~~eIikaI~kaGy~a~ 64 (523)
+|.|. -.......+|..+|.+. -.|.++.+... ...++|..+ .+.++|+++|++.||++.
T Consensus 3 ~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 3 QIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHHCCCeee
Confidence 34454 33445666777777654 23444443332 222344432 466799999999999653
No 45
>PRK11018 hypothetical protein; Provisional
Probab=65.39 E-value=21 Score=29.78 Aligned_cols=53 Identities=11% Similarity=0.002 Sum_probs=39.6
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEE
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l 65 (523)
++|.+. +.|+.-+-+.+++|.++.- ...++|. ...+...|.+.+++.||++..
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 466677 9999999999999998842 1223333 336778899999999998754
No 46
>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=62.82 E-value=29 Score=28.65 Aligned_cols=61 Identities=25% Similarity=0.399 Sum_probs=41.0
Q ss_pred EEEEEeecCHHHHHHHHHHHhcC---CCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHH-cCCceE
Q 009870 4 YVLKVNIHCDGCKHKVKKILQKI---DGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAK-SGKHAE 64 (523)
Q Consensus 4 v~LkVeM~C~~Ca~kIEKaL~kl---~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~k-aGy~a~ 64 (523)
+.+.|+-.-..-..++.++|.++ +=..++.+|.+++.++|. +++.++.+++.|++ .+.+++
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 34555544455566676666665 223488999999999888 56888888888874 355444
No 47
>PF04050 Upf2: Up-frameshift suppressor 2 ; InterPro: IPR007193 This entry represents Up-frameshift suppressor 2 (also known as Nonsense-mediated mRNA decay protein 2). Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay [].; PDB: 2WJV_D.
Probab=62.44 E-value=2.5 Score=40.46 Aligned_cols=7 Identities=43% Similarity=1.151 Sum_probs=0.0
Q ss_pred CCCeeec
Q 009870 269 PMPVQVN 275 (523)
Q Consensus 269 ~~p~~~~ 275 (523)
+||+.++
T Consensus 93 ~iP~~~~ 99 (170)
T PF04050_consen 93 PIPMNVK 99 (170)
T ss_dssp -------
T ss_pred ccCcccc
Confidence 3444444
No 48
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=61.89 E-value=5.8 Score=44.40 Aligned_cols=8 Identities=0% Similarity=-0.089 Sum_probs=3.7
Q ss_pred HHHHcCCc
Q 009870 55 KLAKSGKH 62 (523)
Q Consensus 55 aI~kaGy~ 62 (523)
.|+++-+.
T Consensus 43 ti~~~~~~ 50 (641)
T KOG0772|consen 43 TISDLQFT 50 (641)
T ss_pred hhhhcccc
Confidence 35555443
No 49
>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=61.42 E-value=33 Score=28.94 Aligned_cols=45 Identities=20% Similarity=0.277 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhcCCCeeEEEEecCCCEEEEE-ecCCHHHHHHHHHHc
Q 009870 14 GCKHKVKKILQKIDGVFTTSIDSEQGKVTVS-GNVDPSVLIKKLAKS 59 (523)
Q Consensus 14 ~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~-g~vd~~eIikaI~ka 59 (523)
.-...|.++|..++||.-..++.. ++++|+ ...+.+++.+.|+++
T Consensus 15 ~~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 15 ERLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp CCHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred hhHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 346788999999999966666666 777776 446777777777765
No 50
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=60.18 E-value=4.9 Score=44.86 Aligned_cols=12 Identities=17% Similarity=0.498 Sum_probs=7.9
Q ss_pred CCCCCCCCCCCCC
Q 009870 506 PGYTHFFSDENTS 518 (523)
Q Consensus 506 ~~~~~~f~den~~ 518 (523)
.+++||| |+.++
T Consensus 489 ~swn~yf-~~~~~ 500 (507)
T PF11702_consen 489 SSWNQYF-DYGPW 500 (507)
T ss_pred cchhhhh-ccCCc
Confidence 4678899 65443
No 51
>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=59.33 E-value=9.6 Score=32.39 Aligned_cols=11 Identities=27% Similarity=0.649 Sum_probs=4.2
Q ss_pred cccCCCCCCCC
Q 009870 172 AVKFNIPDDDE 182 (523)
Q Consensus 172 ~~k~~~~~ddd 182 (523)
...-+.+.|++
T Consensus 38 ~lDYdyDSd~E 48 (77)
T PF12253_consen 38 NLDYDYDSDDE 48 (77)
T ss_pred ccceecCCccc
Confidence 33333334433
No 52
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=58.54 E-value=3.6 Score=41.69 Aligned_cols=9 Identities=22% Similarity=0.379 Sum_probs=4.7
Q ss_pred HHHHHcCCc
Q 009870 54 KKLAKSGKH 62 (523)
Q Consensus 54 kaI~kaGy~ 62 (523)
++|.++||.
T Consensus 17 kkLl~~GF~ 25 (232)
T PRK12766 17 EALREAGFE 25 (232)
T ss_pred HHHHHcCCC
Confidence 345555654
No 53
>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=58.53 E-value=9 Score=39.19 Aligned_cols=14 Identities=7% Similarity=0.150 Sum_probs=7.7
Q ss_pred HHHHHHHHHhcCCC
Q 009870 15 CKHKVKKILQKIDG 28 (523)
Q Consensus 15 Ca~kIEKaL~kl~G 28 (523)
....|...|.+.+.
T Consensus 28 Ae~lI~~~~~~qP~ 41 (247)
T PF09849_consen 28 AEALIAQALARQPD 41 (247)
T ss_pred HHHHHHHHHHhCCc
Confidence 34556666665543
No 54
>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=58.35 E-value=7.7 Score=44.51 Aligned_cols=26 Identities=23% Similarity=0.351 Sum_probs=19.0
Q ss_pred EEEEEeecC-HHHHHHHHHHHhcCCCe
Q 009870 4 YVLKVNIHC-DGCKHKVKKILQKIDGV 29 (523)
Q Consensus 4 v~LkVeM~C-~~Ca~kIEKaL~kl~GV 29 (523)
|.|-|.+.| +-|+.+|-..|.+-+.|
T Consensus 2 Vli~v~~dvDalcA~kiL~~Llk~d~I 28 (622)
T PF02724_consen 2 VLILVALDVDALCACKILTSLLKSDNI 28 (622)
T ss_pred EEEEEcCChHHHHHHHHHHHHHHhcCC
Confidence 344455555 67999999998888777
No 55
>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=57.61 E-value=7.4 Score=44.65 Aligned_cols=19 Identities=5% Similarity=-0.081 Sum_probs=9.9
Q ss_pred EEEEe-ecCHHHHHHHHHHH
Q 009870 5 VLKVN-IHCDGCKHKVKKIL 23 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL 23 (523)
.|+|. +.+..+..++-+.|
T Consensus 29 ~~~l~PV~gy~el~~~~~~~ 48 (622)
T PF02724_consen 29 QYSLVPVSGYSELERAYEEL 48 (622)
T ss_pred CeeEEEeCCHHHHHHHHHHH
Confidence 34555 55555555554444
No 56
>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=57.31 E-value=24 Score=33.38 Aligned_cols=32 Identities=13% Similarity=0.240 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS 44 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~ 44 (523)
..-+.+|++.|.++++|.++.|-.....|.|.
T Consensus 74 ~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 74 QQLADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 34578899999999999999999888888775
No 57
>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=56.74 E-value=27 Score=27.81 Aligned_cols=51 Identities=18% Similarity=0.277 Sum_probs=35.9
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~ 66 (523)
|.+. +.|..-.-+++++| ++.. ...++|. ...+.+.|.+.+++.||+++..
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~ 55 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVE 55 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEE
Confidence 4556 89999999999999 5521 1233333 3356788999999999988543
No 58
>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=56.13 E-value=29 Score=33.02 Aligned_cols=47 Identities=21% Similarity=0.376 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCC-------------------EEEEEe---cCCHHHHHHHHHHc
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQG-------------------KVTVSG---NVDPSVLIKKLAKS 59 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sg-------------------kVtV~g---~vd~~eIikaI~ka 59 (523)
..|-|.+|..+.+++||.+++|-+..+ .|.|+. .++.++|++..-++
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG~~~~PtY~~v~~g~tgh~E~V~V~yD~~~is~~~Ll~~f~~~ 75 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGGTTPNPTYRQVCSGRTGHAEAVRVTYDPSVISYEELLDVFFRI 75 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESSSSSS--HHHHHTTTTT-EEEEEEEEETTTS-HHHHHHHHHHH
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCCCCCCCcceeeecCCCCCeEEEEEEECCCcccHHHHHHHHHHh
Confidence 578999999999999999999876543 233432 36777777766443
No 59
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=55.96 E-value=14 Score=43.32 Aligned_cols=9 Identities=33% Similarity=0.719 Sum_probs=3.5
Q ss_pred CCCCccCCC
Q 009870 410 NVPAVQGLP 418 (523)
Q Consensus 410 ~~pa~~~~~ 418 (523)
++|..-++|
T Consensus 526 ~iP~PP~~p 534 (1102)
T KOG1924|consen 526 GIPPPPPLP 534 (1102)
T ss_pred CCCCCCCCC
Confidence 344333333
No 60
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=55.22 E-value=27 Score=36.55 Aligned_cols=30 Identities=27% Similarity=0.485 Sum_probs=25.4
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCC
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQG 39 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sg 39 (523)
.--..|-|.+|+.+.+++||.+++|=+..+
T Consensus 131 ~fagGCFWg~E~~F~~~~GV~~t~vGYagG 160 (283)
T PRK05550 131 IFAGGCFWGVEYYFKKLPGVLSVESGYTGG 160 (283)
T ss_pred EEecCCchhhhhhHhhCcCEEEEEEeeCCC
Confidence 345789999999999999999999876655
No 61
>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=52.45 E-value=89 Score=24.49 Aligned_cols=59 Identities=20% Similarity=0.139 Sum_probs=34.7
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCC-CeeEEEEecCCCEEEEE-ecCCHHHHHHHHHHcCCceE
Q 009870 6 LKVN-IHCDGCKHKVKKILQKID-GVFTTSIDSEQGKVTVS-GNVDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~-GV~sV~VDl~sgkVtV~-g~vd~~eIikaI~kaGy~a~ 64 (523)
|.|. -....-..+|.++|.+.. -|.++-+.....++++. ...+.+.+++.|++.||++.
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 4445 445556677777776542 23444443332234433 22467799999999999865
No 62
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=51.57 E-value=43 Score=27.40 Aligned_cols=45 Identities=16% Similarity=0.316 Sum_probs=32.2
Q ss_pred HhcCCCeeEEEEecCC-CEEEEEecCCHHHHHHHHHHcCCceEEcCc
Q 009870 23 LQKIDGVFTTSIDSEQ-GKVTVSGNVDPSVLIKKLAKSGKHAELWGA 68 (523)
Q Consensus 23 L~kl~GV~sV~VDl~s-gkVtV~g~vd~~eIikaI~kaGy~a~l~~~ 68 (523)
|..+++|.++...... -++.|....+..+|++.|...++ ++....
T Consensus 26 l~~~~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f~~ 71 (84)
T PF13732_consen 26 LEELPGVESVEQDGDGKLRIKLEDEETANELLQELIEKGI-IRSFEE 71 (84)
T ss_pred HhhCCCeEEEEEeCCcEEEEEECCcccHHHHHHHHHhCCC-eeEEEE
Confidence 7888999988764433 33444455788999999999998 665443
No 63
>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=50.05 E-value=1.2e+02 Score=25.26 Aligned_cols=63 Identities=14% Similarity=0.175 Sum_probs=37.0
Q ss_pred EEEEee-cCHHHHHHHHHHHhcCCCeeEEEEec---CCCEEEEE-e----cCCHHHHHHHHHHcCCceEEcCc
Q 009870 5 VLKVNI-HCDGCKHKVKKILQKIDGVFTTSIDS---EQGKVTVS-G----NVDPSVLIKKLAKSGKHAELWGA 68 (523)
Q Consensus 5 ~LkVeM-~C~~Ca~kIEKaL~kl~GV~sV~VDl---~sgkVtV~-g----~vd~~eIikaI~kaGy~a~l~~~ 68 (523)
+|.|.+ .-+.-..++-++|. -..|..+..+. ...+|.|. . ....++|+++|++.||+++....
T Consensus 3 vl~v~ipD~PG~L~~ll~~l~-~anI~~~~y~~~~~~~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~~~~~~ 74 (85)
T cd04906 3 LLAVTIPERPGSFKKFCELIG-PRNITEFNYRYADEKDAHIFVGVSVANGAEELAELLEDLKSAGYEVVDLSD 74 (85)
T ss_pred EEEEecCCCCcHHHHHHHHhC-CCceeEEEEEccCCCeeEEEEEEEeCCcHHHHHHHHHHHHHCCCCeEECCC
Confidence 456663 44444556666666 33455554443 23334433 2 23478899999999999876544
No 64
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=49.36 E-value=8.5 Score=43.36 Aligned_cols=31 Identities=6% Similarity=0.145 Sum_probs=16.9
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEe
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKIDGVFTTSID 35 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VD 35 (523)
||-|. +--..--..++...+.+-.|..+.|-
T Consensus 7 TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vV 38 (678)
T KOG0127|consen 7 TLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVV 38 (678)
T ss_pred eEEEecCCCccchhHHHHhhhcccCcceeEEe
Confidence 44455 44444455666666666666554443
No 65
>PHA03346 US22 family homolog; Provisional
Probab=48.37 E-value=11 Score=42.49 Aligned_cols=10 Identities=10% Similarity=0.281 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 009870 13 DGCKHKVKKI 22 (523)
Q Consensus 13 ~~Ca~kIEKa 22 (523)
..|...|...
T Consensus 235 ~~~~~~i~~R 244 (520)
T PHA03346 235 AECRMYITLR 244 (520)
T ss_pred HHHHHHHHhh
Confidence 3344444443
No 66
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=48.34 E-value=11 Score=42.05 Aligned_cols=6 Identities=33% Similarity=0.302 Sum_probs=3.4
Q ss_pred HHHHHH
Q 009870 459 MMNQQR 464 (523)
Q Consensus 459 mm~~q~ 464 (523)
..+||.
T Consensus 446 werqqk 451 (507)
T PF11702_consen 446 WERQQK 451 (507)
T ss_pred HHHHhh
Confidence 556664
No 67
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=47.84 E-value=10 Score=36.27 Aligned_cols=9 Identities=11% Similarity=0.261 Sum_probs=4.0
Q ss_pred cCCCEEEEE
Q 009870 36 SEQGKVTVS 44 (523)
Q Consensus 36 l~sgkVtV~ 44 (523)
+....+.|.
T Consensus 42 LGn~~f~V~ 50 (155)
T PTZ00329 42 LGNGRLEAY 50 (155)
T ss_pred cCCCEEEEE
Confidence 344444444
No 68
>PRK14440 acylphosphatase; Provisional
Probab=46.82 E-value=1.1e+02 Score=26.32 Aligned_cols=57 Identities=16% Similarity=0.246 Sum_probs=38.1
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
|++++|.|. ..+-.+...+.+...++ +|.-..-|+..++|+|... ...+++++.|++
T Consensus 2 m~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~~G~~~~v~~f~~~l~~ 63 (90)
T PRK14440 2 LKRMYARVYGLVQGVGFRKFVQIHAIRL-GIKGYAKNLPDGSVEVVAEGYEEALSKLLERIKQ 63 (90)
T ss_pred cEEEEEEEEEeEeccCchHHHHHHHHHc-CCEEEEEECCCCCEEEEEEcCHHHHHHHHHHHhh
Confidence 567778888 67777777777765554 4655566788887777632 345666777764
No 69
>COG1254 AcyP Acylphosphatases [Energy production and conversion]
Probab=46.50 E-value=1.3e+02 Score=26.27 Aligned_cols=58 Identities=16% Similarity=0.163 Sum_probs=39.8
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHHc
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAKS 59 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~ka 59 (523)
+.++++.|. .-|-.-...+++...++ +|.-..-|+.+++|+|... ...+++++.|++-
T Consensus 3 ~~~~~~~V~GrVQGVGFR~~~~~~A~~l-gl~G~V~N~~DGsVeiva~G~~~~v~~~~~~l~~g 65 (92)
T COG1254 3 MVRARARVYGRVQGVGFRYFTRSEALRL-GLTGWVKNLDDGSVEIVAEGPDEAVEKFIEWLRKG 65 (92)
T ss_pred cEEEEEEEEEEeccccHHHHHHHHHHHC-CCEEEEEECCCCeEEEEEEcCHHHHHHHHHHHHhC
Confidence 356677787 67777777777766655 4777778899998988743 3355666666644
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=44.66 E-value=74 Score=28.16 Aligned_cols=56 Identities=13% Similarity=0.141 Sum_probs=33.4
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHHc
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG--NVDPSVLIKKLAKS 59 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g--~vd~~eIikaI~ka 59 (523)
++|+|. ++-..|...|+.+|+.+..|.-|++..-..+..|.- ..+...+++++..+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhc
Confidence 457777 666666999999999999998888887777777873 34567777777766
No 71
>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=44.30 E-value=1.5e+02 Score=23.95 Aligned_cols=58 Identities=17% Similarity=0.231 Sum_probs=28.5
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecC-CHHHHHHHHHHcCCceEEcC
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNV-DPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~v-d~~eIikaI~kaGy~a~l~~ 67 (523)
|.+. ..|..|...+... .++.-- .. ...-..+.|..+. +.+++.+.+++......++.
T Consensus 24 l~f~~~~C~~C~~~~~~l-~~~~~~--~~-~~~~~~~~v~~d~~~~~~~~~~~~~~~~~~~~~~ 83 (116)
T cd02966 24 VNFWASWCPPCRAEMPEL-EALAKE--YK-DDGVEVVGVNVDDDDPAAVKAFLKKYGITFPVLL 83 (116)
T ss_pred EEeecccChhHHHHhHHH-HHHHHH--hC-CCCeEEEEEECCCCCHHHHHHHHHHcCCCcceEE
Confidence 3344 7899997655333 322100 00 0001112233232 37888888888776554443
No 72
>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=43.93 E-value=21 Score=30.69 Aligned_cols=21 Identities=14% Similarity=0.308 Sum_probs=16.6
Q ss_pred HHHHHHHhcCCCeeEEEEecC
Q 009870 17 HKVKKILQKIDGVFTTSIDSE 37 (523)
Q Consensus 17 ~kIEKaL~kl~GV~sV~VDl~ 37 (523)
..|+.+|..+++|.+|+|++.
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEE
Confidence 457788888899988888764
No 73
>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=43.62 E-value=1e+02 Score=23.98 Aligned_cols=59 Identities=20% Similarity=0.148 Sum_probs=32.9
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcCC-CeeEEEEecC----CCEEEEEe--cCCHHHHHHHHHHcCCce
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKID-GVFTTSIDSE----QGKVTVSG--NVDPSVLIKKLAKSGKHA 63 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl~-GV~sV~VDl~----sgkVtV~g--~vd~~eIikaI~kaGy~a 63 (523)
.|.|. -.-.....+|.++|.+.. .|.++.+... ...++|+- ..+.++|++.|+++||++
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 34454 233446677777776542 2334433221 23333332 236788999999999964
No 74
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=43.58 E-value=12 Score=42.23 Aligned_cols=9 Identities=22% Similarity=0.434 Sum_probs=3.7
Q ss_pred HHHHHHhcC
Q 009870 18 KVKKILQKI 26 (523)
Q Consensus 18 kIEKaL~kl 26 (523)
-++++|..+
T Consensus 59 D~qrA~~e~ 67 (678)
T KOG0127|consen 59 DVQRALAET 67 (678)
T ss_pred HHHHHHHHh
Confidence 334444433
No 75
>PHA03283 envelope glycoprotein E; Provisional
Probab=42.34 E-value=16 Score=41.04 Aligned_cols=9 Identities=33% Similarity=0.397 Sum_probs=3.7
Q ss_pred cccceeecc
Q 009870 81 QFKNMQLDN 89 (523)
Q Consensus 81 ~~k~l~Id~ 89 (523)
++.+++++.
T Consensus 353 ~~~Nvv~d~ 361 (542)
T PHA03283 353 HFMNVITDL 361 (542)
T ss_pred hccceEeec
Confidence 344444443
No 76
>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=41.52 E-value=60 Score=30.73 Aligned_cols=27 Identities=33% Similarity=0.588 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCC
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQG 39 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sg 39 (523)
..|-|.+|..+.+++||.+++|=+..+
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG 33 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGG 33 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCC
Confidence 678999999999999999999876554
No 77
>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=41.52 E-value=73 Score=25.03 Aligned_cols=52 Identities=17% Similarity=0.081 Sum_probs=36.3
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHHcCCceEEc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG--NVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g--~vd~~eIikaI~kaGy~a~l~ 66 (523)
|.+. +.|..=..++.++|.++. ....++|.. ..+...|.+.+++.||.+..+
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~---------~g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~ 56 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLK---------SGEVLEVLLDDPGAVEDIPAWAKETGHEVLEV 56 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCC---------CCCEEEEEecCCcHHHHHHHHHHHcCCEEEEE
Confidence 3455 788888888888888763 223344442 356889999999999986544
No 78
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=40.26 E-value=33 Score=32.64 Aligned_cols=9 Identities=44% Similarity=0.944 Sum_probs=5.5
Q ss_pred CCCCCCCCC
Q 009870 487 PQHPYPPYP 495 (523)
Q Consensus 487 ~p~Py~~y~ 495 (523)
.|+||+++.
T Consensus 129 ~PPpYsp~~ 137 (155)
T PF10873_consen 129 LPPPYSPTP 137 (155)
T ss_pred CCcCCCCcc
Confidence 356677764
No 79
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=40.04 E-value=17 Score=42.42 Aligned_cols=6 Identities=50% Similarity=0.650 Sum_probs=3.0
Q ss_pred CCeeec
Q 009870 270 MPVQVN 275 (523)
Q Consensus 270 ~p~~~~ 275 (523)
+-|||.
T Consensus 553 ~~~q~~ 558 (763)
T TIGR00993 553 VTVQVT 558 (763)
T ss_pred EEEEEe
Confidence 345555
No 80
>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=39.48 E-value=75 Score=25.02 Aligned_cols=20 Identities=25% Similarity=0.320 Sum_probs=14.3
Q ss_pred HHHHHHHHHhcCCCeeEEEE
Q 009870 15 CKHKVKKILQKIDGVFTTSI 34 (523)
Q Consensus 15 Ca~kIEKaL~kl~GV~sV~V 34 (523)
...+|-+.|+++++|.+|.+
T Consensus 55 ~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 55 DIDELLEELREIDGVEKVEL 74 (76)
T ss_pred HHHHHHHHHhcCCCeEEEEE
Confidence 56677777777778777664
No 81
>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=39.17 E-value=78 Score=25.56 Aligned_cols=52 Identities=15% Similarity=0.136 Sum_probs=38.0
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~ 66 (523)
|.+. +.|..=+-+++++|.++.- ...++|. ...+.+.|.+.+++.||++...
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~ 56 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLISL 56 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 4556 8899989999999998741 2234443 3367888999999999987643
No 82
>PTZ00482 membrane-attack complex/perforin (MACPF) Superfamily; Provisional
Probab=38.71 E-value=17 Score=43.24 Aligned_cols=22 Identities=14% Similarity=-0.028 Sum_probs=11.9
Q ss_pred HHHHHHHhcCCCeeEEEEecCC
Q 009870 17 HKVKKILQKIDGVFTTSIDSEQ 38 (523)
Q Consensus 17 ~kIEKaL~kl~GV~sV~VDl~s 38 (523)
+.|...|..++-|..+++.+..
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~ 31 (844)
T PTZ00482 10 WCILSYLYEIPFVGSLRLGLRS 31 (844)
T ss_pred hhhhhhhhccccceeeeechhh
Confidence 3445555566666555555543
No 83
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.64 E-value=21 Score=32.52 Aligned_cols=9 Identities=11% Similarity=-0.167 Sum_probs=4.2
Q ss_pred cCHHHHHHH
Q 009870 11 HCDGCKHKV 19 (523)
Q Consensus 11 ~C~~Ca~kI 19 (523)
.|..|-+|.
T Consensus 11 idPetg~KF 19 (129)
T COG4530 11 IDPETGKKF 19 (129)
T ss_pred cCccccchh
Confidence 355554443
No 84
>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=38.56 E-value=1.1e+02 Score=29.17 Aligned_cols=57 Identities=14% Similarity=0.218 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec-------CCHHHHHHHHHHcCCceEEcCcc
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN-------VDPSVLIKKLAKSGKHAELWGAQ 69 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~-------vd~~eIikaI~kaGy~a~l~~~~ 69 (523)
......|++++-+-.+|.++.++..++.|+|+.+ ..-..|.+...++|+..+++...
T Consensus 52 e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtp 115 (145)
T cd02410 52 EEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTP 115 (145)
T ss_pred HHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecC
Confidence 4444555666555579999999999999999732 23344456667999988876543
No 85
>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=38.46 E-value=24 Score=32.77 Aligned_cols=10 Identities=20% Similarity=0.272 Sum_probs=5.8
Q ss_pred ecCHHHHHHH
Q 009870 10 IHCDGCKHKV 19 (523)
Q Consensus 10 M~C~~Ca~kI 19 (523)
-.|.+|.+|.
T Consensus 10 r~Cp~cg~kF 19 (129)
T TIGR02300 10 RICPNTGSKF 19 (129)
T ss_pred ccCCCcCccc
Confidence 4566666554
No 86
>PRK11670 antiporter inner membrane protein; Provisional
Probab=38.29 E-value=71 Score=34.30 Aligned_cols=54 Identities=22% Similarity=0.265 Sum_probs=34.7
Q ss_pred HHHHHHHHhcCCCeeEEEEecCC------------------CEEEEE------ec-CCHHHHHHHHHHcCCceEEcCcc
Q 009870 16 KHKVKKILQKIDGVFTTSIDSEQ------------------GKVTVS------GN-VDPSVLIKKLAKSGKHAELWGAQ 69 (523)
Q Consensus 16 a~kIEKaL~kl~GV~sV~VDl~s------------------gkVtV~------g~-vd~~eIikaI~kaGy~a~l~~~~ 69 (523)
...|+++|+.+++|.+|+|.+.. ..+.|. +. +...-|..+|.+.|+++-++...
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA~~G~rVlLID~D 145 (369)
T PRK11670 67 KEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDAD 145 (369)
T ss_pred HHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence 45688999999999877665432 122233 11 33445666788899998877654
No 87
>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=38.07 E-value=18 Score=35.39 Aligned_cols=11 Identities=9% Similarity=0.144 Sum_probs=6.4
Q ss_pred HHHHHHHHHHh
Q 009870 14 GCKHKVKKILQ 24 (523)
Q Consensus 14 ~Ca~kIEKaL~ 24 (523)
.|+..|.||+.
T Consensus 3 ~~REIITKAVc 13 (182)
T PF10628_consen 3 EYREIITKAVC 13 (182)
T ss_pred hHHHhhhhhee
Confidence 45666666654
No 88
>PRK10026 arsenate reductase; Provisional
Probab=37.98 E-value=1.3e+02 Score=28.29 Aligned_cols=54 Identities=20% Similarity=0.252 Sum_probs=32.6
Q ss_pred CeEEEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCc
Q 009870 1 MQTYVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKH 62 (523)
Q Consensus 1 Mqkv~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~ 62 (523)
|+.++|...-+|..|...++-. .. .+|.-..+++. +...+.++|...|++++..
T Consensus 1 m~~i~iY~~p~Cst~RKA~~wL-~~-~gi~~~~~d~~------~~ppt~~eL~~~l~~~g~~ 54 (141)
T PRK10026 1 MSNITIYHNPACGTSRNTLEMI-RN-SGTEPTIIHYL------ETPPTRDELVKLIADMGIS 54 (141)
T ss_pred CCEEEEEeCCCCHHHHHHHHHH-HH-CCCCcEEEeee------CCCcCHHHHHHHHHhCCCC
Confidence 4455555558999998777653 32 24432222222 2346888888888888753
No 89
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=37.92 E-value=19 Score=33.40 Aligned_cols=12 Identities=17% Similarity=0.235 Sum_probs=6.7
Q ss_pred CCHHHHHHHHHH
Q 009870 47 VDPSVLIKKLAK 58 (523)
Q Consensus 47 vd~~eIikaI~k 58 (523)
++..+|+..|.+
T Consensus 20 m~f~dL~~ev~~ 31 (129)
T PRK02363 20 MSFYDLVNEIQK 31 (129)
T ss_pred ccHHHHHHHHHH
Confidence 455666665543
No 90
>PRK14448 acylphosphatase; Provisional
Probab=37.73 E-value=2e+02 Score=24.75 Aligned_cols=57 Identities=18% Similarity=0.112 Sum_probs=37.2
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
|.+++|.|. ..+-.-...|.+...++ +|.-..-|+..++|+|... ..++++++.|++
T Consensus 1 m~~~~~~v~G~VQGVGFR~~v~~~A~~l-gl~G~V~N~~dG~Vei~~~G~~~~v~~f~~~l~~ 62 (90)
T PRK14448 1 MLKKQFIVYGHVQGVGFRYFTWQEATKI-GIKGYVKNRPDGSVEVVAVGSDAQIAAFRDWLQH 62 (90)
T ss_pred CeEEEEEEEEeecCcchHHHHHHHHHHh-CCEEEEEECCCCCEEEEEEeCHHHHHHHHHHHHh
Confidence 567788888 66666666666655544 4655667888887877632 346666777764
No 91
>smart00362 RRM_2 RNA recognition motif.
Probab=37.33 E-value=1.6e+02 Score=21.50 Aligned_cols=53 Identities=17% Similarity=0.152 Sum_probs=35.6
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCC----CEEEEEecCCHHHHHHHHHHc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQ----GKVTVSGNVDPSVLIKKLAKS 59 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~s----gkVtV~g~vd~~eIikaI~ka 59 (523)
+.|. +.+......|++.|+..-.|..+.+.... ..+.|+.. +.++..++|+..
T Consensus 2 v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~-~~~~a~~a~~~~ 59 (72)
T smart00362 2 LFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFE-SEEDAEKAIEAL 59 (72)
T ss_pred EEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeC-CHHHHHHHHHHh
Confidence 4566 77777788999999988888888777654 55555543 455555555543
No 92
>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=37.22 E-value=93 Score=25.08 Aligned_cols=52 Identities=13% Similarity=0.078 Sum_probs=37.2
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~ 66 (523)
|.+. ..|..=.-+++++|.+++- ..+++|. ...+.+.|.+.+++.||++...
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEE
Confidence 3445 7898888899999988741 1233333 3467889999999999987644
No 93
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=36.68 E-value=1.3e+02 Score=25.23 Aligned_cols=54 Identities=7% Similarity=0.001 Sum_probs=38.7
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~ 66 (523)
++|.+. +.|..=.-+++++|++++- ..+++|. ...+.+.|....++.|+++..+
T Consensus 10 ~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 10 HTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred eEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 456666 8999989999999998742 1233333 3367788888899999987643
No 94
>PRK07334 threonine dehydratase; Provisional
Probab=36.22 E-value=1.2e+02 Score=32.83 Aligned_cols=63 Identities=16% Similarity=0.177 Sum_probs=39.4
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcC-CCeeEEEEecC-----CCEEEEE------ecCCHHHHHHHHHHcCCceEEc
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKI-DGVFTTSIDSE-----QGKVTVS------GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl-~GV~sV~VDl~-----sgkVtV~------g~vd~~eIikaI~kaGy~a~l~ 66 (523)
++|.|+ ..-..-...|.++|+.. -.|.++++... ..+++|. ....++.|++.|+++||.++++
T Consensus 327 v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~ 402 (403)
T PRK07334 327 ARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLV 402 (403)
T ss_pred EEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeC
Confidence 567777 55555577777777655 23455554422 3443333 1235568899999999998875
No 95
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=35.76 E-value=4.7e+02 Score=27.94 Aligned_cols=53 Identities=13% Similarity=0.100 Sum_probs=27.4
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCC------CEEEEEecCCHHHHHHHHHHc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQ------GKVTVSGNVDPSVLIKKLAKS 59 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~s------gkVtV~g~vd~~eIikaI~ka 59 (523)
|-|. |.-......|++++++.-.|.+|+|-... ..+.|+- .+.++..++|+++
T Consensus 196 lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F-~~~e~A~~Ai~~l 255 (346)
T TIGR01659 196 LYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRF-NKREEAQEAISAL 255 (346)
T ss_pred eEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEE-CCHHHHHHHHHHh
Confidence 4444 44333455677777766666666654321 1223332 3555666666543
No 96
>PRK14424 acylphosphatase; Provisional
Probab=35.19 E-value=2.1e+02 Score=25.00 Aligned_cols=57 Identities=19% Similarity=0.330 Sum_probs=34.0
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ec-CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GN-VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~-vd~~eIikaI~k 58 (523)
|++++|.|. ..+-.-...+.+...++ +|.-..-|+..++|+|. ++ ..++++++.|+.
T Consensus 6 m~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~qG~~~~v~~f~~~l~~ 67 (94)
T PRK14424 6 IETYYVRVRGVVQGVGFRHATVREAHAL-GLRGWVANLEDGTVEAMIQGPAAQIDRMLAWLRH 67 (94)
T ss_pred cEEEEEEEEEeecCCchHHHHHHHHHHc-CCeEEEEECCCCCEEEEEEECHHHHHHHHHHHHh
Confidence 456777777 55555555555444433 45444458888877766 32 346677777764
No 97
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=34.93 E-value=22 Score=38.54 Aligned_cols=10 Identities=30% Similarity=0.541 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 009870 14 GCKHKVKKIL 23 (523)
Q Consensus 14 ~Ca~kIEKaL 23 (523)
.|+.++-..|
T Consensus 67 yca~kLPdfl 76 (542)
T KOG0699|consen 67 YCAAKLPDFL 76 (542)
T ss_pred HHHHhhhHHH
Confidence 3444443333
No 98
>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=34.75 E-value=46 Score=31.36 Aligned_cols=57 Identities=16% Similarity=0.229 Sum_probs=29.3
Q ss_pred EEEEEeecCHHHH------HHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCc
Q 009870 4 YVLKVNIHCDGCK------HKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKH 62 (523)
Q Consensus 4 v~LkVeM~C~~Ca------~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~ 62 (523)
+++.|.++...|. ..|+++|+.+ ||.+|+|++.-.-+.- .+--.++-.++|+..|..
T Consensus 27 V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~i~~~p~Wt-~d~it~~gr~~l~~~gia 89 (146)
T TIGR02159 27 VVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVSTSLDPPWT-TDWITEDAREKLREYGIA 89 (146)
T ss_pred EEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEeEeeCCCCC-hHHCCHHHHHHHHhcCcc
Confidence 4455555545443 3477777776 7877777533211111 111123345667777753
No 99
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=34.33 E-value=27 Score=40.40 Aligned_cols=18 Identities=28% Similarity=0.431 Sum_probs=9.4
Q ss_pred ecCHHHHHHHHHHHhcCC
Q 009870 10 IHCDGCKHKVKKILQKID 27 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~ 27 (523)
..|..-++.|.+.+.++.
T Consensus 366 ~rkkr~~aei~Kffqk~~ 383 (811)
T KOG4364|consen 366 LRKKRHEAEIGKFFQKID 383 (811)
T ss_pred HHHHHHHHHHHhhhcccc
Confidence 345555555555555543
No 100
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=34.27 E-value=1.7e+02 Score=26.00 Aligned_cols=49 Identities=24% Similarity=0.294 Sum_probs=35.2
Q ss_pred ecC-HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE-ecCCHHHHHHHHHHc
Q 009870 10 IHC-DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS-GNVDPSVLIKKLAKS 59 (523)
Q Consensus 10 M~C-~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~-g~vd~~eIikaI~ka 59 (523)
+.| +.-...|..+|+.+++++-...+.+ ++++|. ...+.+.|++.|+.+
T Consensus 13 v~~~pe~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie~i 63 (94)
T COG3062 13 VQAKPERLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIESI 63 (94)
T ss_pred eecCHHHHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHHHH
Confidence 344 5567889999999999976666665 666655 445777788877765
No 101
>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=33.94 E-value=16 Score=35.70 Aligned_cols=9 Identities=0% Similarity=0.051 Sum_probs=4.3
Q ss_pred HHHHHHHHH
Q 009870 49 PSVLIKKLA 57 (523)
Q Consensus 49 ~~eIikaI~ 57 (523)
...|.++|+
T Consensus 44 ~~~I~~Ai~ 52 (181)
T PF10991_consen 44 IAAIKAAIE 52 (181)
T ss_pred HHHHHHHHH
Confidence 344555554
No 102
>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=33.92 E-value=97 Score=29.72 Aligned_cols=31 Identities=13% Similarity=0.144 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhcCCCeeEEEEecCCCEEEEE
Q 009870 14 GCKHKVKKILQKIDGVFTTSIDSEQGKVTVS 44 (523)
Q Consensus 14 ~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~ 44 (523)
.-+.+|.+.+.++++|.++.+-.....+.|-
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 5678999999999999999998888888765
No 103
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=33.91 E-value=53 Score=38.91 Aligned_cols=8 Identities=25% Similarity=0.476 Sum_probs=3.0
Q ss_pred cccCCCCC
Q 009870 172 AVKFNIPD 179 (523)
Q Consensus 172 ~~k~~~~~ 179 (523)
++.++..+
T Consensus 353 dvqlkvfd 360 (1102)
T KOG1924|consen 353 DVQLKVFD 360 (1102)
T ss_pred HHHHHHHh
Confidence 33333333
No 104
>PF03958 Secretin_N: Bacterial type II/III secretion system short domain; InterPro: IPR005644 This is a group of NolW-like proteins, which are closely related to bacterial type II and III secretion system protein (IPR004846 from INTERPRO).; PDB: 3EZJ_C 2Y3M_A 3OSS_D.
Probab=33.82 E-value=1.1e+02 Score=24.80 Aligned_cols=54 Identities=11% Similarity=0.140 Sum_probs=32.4
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcC------------------CCeeEEEEecCCCEEEEEec-CCHHHHHHHHHHc
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKI------------------DGVFTTSIDSEQGKVTVSGN-VDPSVLIKKLAKS 59 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl------------------~GV~sV~VDl~sgkVtV~g~-vd~~eIikaI~ka 59 (523)
+|.|. ..-..-+..|+..+... ..+ +|.++..+..|+|.+. ...+.|.+.|+++
T Consensus 3 v~~L~~~~A~~v~~~L~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~i~~d~~tNsliv~g~~~~~~~i~~li~~L 76 (82)
T PF03958_consen 3 VYPLKYASAEEVASVLQQLLGGGSGSSSGSGGSSGSGSSGSSSG-RIVADERTNSLIVRGTPEDLEQIRELIKQL 76 (82)
T ss_dssp EEE-SSS-HHHHHHHHHHHH----------------S-HHHTTT-EEEEECTTTEEEEEEEHHHHHHHHHHHHHH
T ss_pred EEEEeCCcHHHHHHHHHHHhhhhcccccccccccccccCCCCCe-EEEEECCCCEEEEEeCHHHHHHHHHHHHHH
Confidence 45555 45555556666666321 233 8899999999999854 4566666666654
No 105
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=33.48 E-value=1.8e+02 Score=25.46 Aligned_cols=58 Identities=19% Similarity=0.262 Sum_probs=29.8
Q ss_pred EEEEe-ecCHHHHHHHHH---HHhcC--CCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEc
Q 009870 5 VLKVN-IHCDGCKHKVKK---ILQKI--DGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEK---aL~kl--~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~ 66 (523)
.|.+- ..|..|...+.. ..+++ .+|.-+.|+... ...+.+.+++.+.+++.++...++
T Consensus 27 vl~F~a~~C~~C~~~~p~l~~l~~~~~~~~~~vi~i~~~~----~~~~~~~~~~~~~~~~~~~~~p~~ 90 (126)
T cd03012 27 LLDFWTYCCINCLHTLPYLTDLEQKYKDDGLVVIGVHSPE----FAFERDLANVKSAVLRYGITYPVA 90 (126)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHcCcCCeEEEEeccCc----cccccCHHHHHHHHHHcCCCCCEE
Confidence 34444 789999866533 22222 233333332110 011246778888888877654443
No 106
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.41 E-value=34 Score=37.98 Aligned_cols=20 Identities=25% Similarity=0.416 Sum_probs=8.5
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 009870 493 PYPYPQHPYPPQDPGYTHFF 512 (523)
Q Consensus 493 ~y~y~~p~~~p~~~~~~~~f 512 (523)
||.|++|||+++..+.+-+|
T Consensus 456 P~~~~pppP~~pp~p~~~~~ 475 (483)
T KOG2236|consen 456 PHQQSPPPPPPPPPPNSPMN 475 (483)
T ss_pred ccccCCCCCCCCCCCCChhh
Confidence 44444443333334444444
No 107
>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=33.27 E-value=1.6e+02 Score=24.97 Aligned_cols=47 Identities=19% Similarity=0.353 Sum_probs=26.6
Q ss_pred cCHHHHHHHHHH---HhcCC--CeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 009870 11 HCDGCKHKVKKI---LQKID--GVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 11 ~C~~Ca~kIEKa---L~kl~--GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~ 67 (523)
.|..|...+... +.+++ +|.-+ .| ..-+.+++.+.+++..+...++.
T Consensus 37 ~c~~c~~~l~~l~~~~~~~~~~~~~vi---------~i-s~d~~~~~~~~~~~~~~~~~~~~ 88 (124)
T PF00578_consen 37 WCPFCQAELPELNELYKKYKDKGVQVI---------GI-STDDPEEIKQFLEEYGLPFPVLS 88 (124)
T ss_dssp TSHHHHHHHHHHHHHHHHHHTTTEEEE---------EE-ESSSHHHHHHHHHHHTCSSEEEE
T ss_pred CccccccchhHHHHHhhhhccceEEee---------ec-ccccccchhhhhhhhcccccccc
Confidence 899998777443 33322 33221 22 22356677878887776655443
No 108
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=32.83 E-value=1.1e+02 Score=34.59 Aligned_cols=68 Identities=13% Similarity=0.147 Sum_probs=47.8
Q ss_pred EEEEeecCHHHHHHHHHHHhcC--CCeeEEEEecCCCEEEEE--ecCCHHHHHHHHH-HcCCceEEcCccccc
Q 009870 5 VLKVNIHCDGCKHKVKKILQKI--DGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLA-KSGKHAELWGAQKAN 72 (523)
Q Consensus 5 ~LkVeM~C~~Ca~kIEKaL~kl--~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~-kaGy~a~l~~~~~~~ 72 (523)
.+.|...-.....++.++|.+| ++...+..+..++..+|. +++.++.|+++|+ +.+.++++.......
T Consensus 396 ~~~v~~~~~~d~~kl~~aL~~L~eED~l~v~~~~~t~e~il~g~GelhleV~~~RL~~ey~v~v~~~~~~v~~ 468 (527)
T TIGR00503 396 FRRIRLKDPLKQKQLLKGLVQLSEEGAVQVFRPLDNNDLIVGAVGVLQFDVVVYRLKEEYNVEARYEPVNVAT 468 (527)
T ss_pred EEEEEECChhhHHHHHHHHHHHHhhCCeEEEEcCCCCCEEEEEEeHHHHHHHHHHHHHHhCCeEEEeCCCceE
Confidence 3445545566778888888877 566677777777777766 6788899999887 467777665544443
No 109
>PF14442 Bd3614_N: Bd3614-like deaminase N-terminal
Probab=32.82 E-value=26 Score=32.41 Aligned_cols=7 Identities=14% Similarity=0.458 Sum_probs=3.2
Q ss_pred HHHHHHH
Q 009870 50 SVLIKKL 56 (523)
Q Consensus 50 ~eIikaI 56 (523)
+.|++.|
T Consensus 40 Savv~Lv 46 (138)
T PF14442_consen 40 SAVVRLV 46 (138)
T ss_pred hHHHHHH
Confidence 4444444
No 110
>PRK14429 acylphosphatase; Provisional
Probab=32.64 E-value=2.5e+02 Score=24.05 Aligned_cols=57 Identities=19% Similarity=0.300 Sum_probs=36.4
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
|+++++.|. ..+-.....+.+...++ +|.=..-|+.+++|+|... ..++++++.|++
T Consensus 1 m~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~ 62 (90)
T PRK14429 1 MKRVLIKLTGKVQGVGCRRATLTKARAL-GVTGYVTNCEDGSVEILAQGSDPAVDNLIAWCEV 62 (90)
T ss_pred CeEEEEEEEEeecCeeeHHHHHHHHHHh-CCEEEEEECCCCeEEEEEEeCHHHHHHHHHHHhh
Confidence 556777777 55656666665554444 4655667888888877632 346667777764
No 111
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=32.48 E-value=25 Score=39.64 Aligned_cols=16 Identities=6% Similarity=0.171 Sum_probs=9.1
Q ss_pred CCHHHHHHHHHHcCCc
Q 009870 47 VDPSVLIKKLAKSGKH 62 (523)
Q Consensus 47 vd~~eIikaI~kaGy~ 62 (523)
++...+++.|..+.++
T Consensus 77 FDvRAhLdhi~~vd~t 92 (653)
T KOG2548|consen 77 FDVRAHLDHIPEVDST 92 (653)
T ss_pred hhhHhhhccCCccCCC
Confidence 4555556666655554
No 112
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=32.22 E-value=1.3e+02 Score=25.30 Aligned_cols=52 Identities=21% Similarity=0.231 Sum_probs=37.1
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHHcC-CceE
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG--NVDPSVLIKKLAKSG-KHAE 64 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g--~vd~~eIikaI~kaG-y~a~ 64 (523)
.+|.+. ++|..=+-+++++|++++ ....++|.. ..+.++|...+++.+ +.+.
T Consensus 6 ~~LD~rG~~CP~Pv~~~kk~l~~m~---------~Ge~LeV~~ddp~~~~dIp~~~~~~~~~~ll 61 (78)
T COG0425 6 KVLDLRGLRCPGPVVETKKALAKLK---------PGEILEVIADDPAAKEDIPAWAKKEGGHELL 61 (78)
T ss_pred eEEeccCCcCCccHHHHHHHHHcCC---------CCCEEEEEecCcchHHHHHHHHHHcCCcEEE
Confidence 578888 999999999999999884 233444542 356678888888565 5433
No 113
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.93 E-value=32 Score=33.84 Aligned_cols=16 Identities=13% Similarity=0.001 Sum_probs=10.4
Q ss_pred cCCHHHHHHHHHHcCC
Q 009870 46 NVDPSVLIKKLAKSGK 61 (523)
Q Consensus 46 ~vd~~eIikaI~kaGy 61 (523)
.+...+|.+.|.++.+
T Consensus 60 dV~~~eieE~L~~~l~ 75 (184)
T KOG4032|consen 60 DVKAREIEELLLELLG 75 (184)
T ss_pred chhHHHHHHHHHHHHH
Confidence 3666777777776654
No 114
>COG3076 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.68 E-value=24 Score=32.21 Aligned_cols=8 Identities=25% Similarity=0.136 Sum_probs=5.5
Q ss_pred HcCCceEE
Q 009870 58 KSGKHAEL 65 (523)
Q Consensus 58 kaGy~a~l 65 (523)
++||.++.
T Consensus 52 K~GyEV~e 59 (135)
T COG3076 52 KLGYEVTE 59 (135)
T ss_pred hhcceecc
Confidence 67887653
No 115
>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=31.34 E-value=1.9e+02 Score=24.81 Aligned_cols=49 Identities=16% Similarity=0.231 Sum_probs=34.2
Q ss_pred CHHHHHHHHHHHhcCCC-eeEEEEecCCCEEEEEecCCHHHHHHHHHHcCC
Q 009870 12 CDGCKHKVKKILQKIDG-VFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGK 61 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~G-V~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy 61 (523)
-..|+.-+.+.|..... -..+.|+..+++|.|.+. ..++|.+.|.+.||
T Consensus 38 ~~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~-~~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 38 IWALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGD-HVEEVKKWLLEKGF 87 (87)
T ss_pred HHHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCc-cHHHHHHHHHHCcC
Confidence 34556666666654332 236788889999999987 47788888888776
No 116
>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=31.25 E-value=47 Score=28.83 Aligned_cols=49 Identities=14% Similarity=0.076 Sum_probs=26.2
Q ss_pred HHHHHHHHhcCCCeeEEEEecCCCEEEEE---ecCCHHHHHHHHHHcCCceE
Q 009870 16 KHKVKKILQKIDGVFTTSIDSEQGKVTVS---GNVDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 16 a~kIEKaL~kl~GV~sV~VDl~sgkVtV~---g~vd~~eIikaI~kaGy~a~ 64 (523)
+..+.=.|++.+.|++|-||--.....|. ..++.++|++.+++....+.
T Consensus 13 A~~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kpEVi 64 (88)
T PF11491_consen 13 AMVKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKPEVI 64 (88)
T ss_dssp THHHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HHHTTT-SS
T ss_pred HHHHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHHhcChhhe
Confidence 34455568899999999999766666655 45899999999999987654
No 117
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.22 E-value=67 Score=35.77 Aligned_cols=6 Identities=33% Similarity=0.390 Sum_probs=2.4
Q ss_pred CCCeeE
Q 009870 26 IDGVFT 31 (523)
Q Consensus 26 l~GV~s 31 (523)
.-||..
T Consensus 16 ~~g~~~ 21 (483)
T KOG2236|consen 16 SNGVKE 21 (483)
T ss_pred hccccc
Confidence 334433
No 118
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.09 E-value=30 Score=33.98 Aligned_cols=8 Identities=50% Similarity=0.522 Sum_probs=3.3
Q ss_pred HHHHHhcC
Q 009870 19 VKKILQKI 26 (523)
Q Consensus 19 IEKaL~kl 26 (523)
|.++|.+.
T Consensus 17 vg~il~~W 24 (184)
T KOG4032|consen 17 VGKILNSW 24 (184)
T ss_pred HHHHHHcc
Confidence 34444433
No 119
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=30.91 E-value=1.3e+02 Score=26.83 Aligned_cols=46 Identities=26% Similarity=0.469 Sum_probs=26.0
Q ss_pred cCHHHHHHHHHHHhcC------CCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 009870 11 HCDGCKHKVKKILQKI------DGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 11 ~C~~Ca~kIEKaL~kl------~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~ 67 (523)
.|..|...+. .|.++ .+|.-+- |....+.. +.+.+++.++...+..
T Consensus 40 ~Cp~C~~~~p-~l~~l~~~~~~~~v~~v~---------v~~~~~~~-~~~~~~~~~~~~~~~~ 91 (146)
T PF08534_consen 40 WCPPCRKELP-YLNELQEKYKDKGVDVVG---------VSSDDDPP-VREFLKKYGINFPVLS 91 (146)
T ss_dssp TSHHHHHHHH-HHHHHHHHHHTTTCEEEE---------EEESSSHH-HHHHHHHTTTTSEEEE
T ss_pred CCCcchhhhh-hHHhhhhhhccCceEEEE---------ecccCCHH-HHHHHHhhCCCceEEe
Confidence 8999998875 33333 3343222 22332333 7778888776655433
No 120
>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=30.61 E-value=1.3e+02 Score=24.30 Aligned_cols=51 Identities=8% Similarity=-0.051 Sum_probs=36.8
Q ss_pred EEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 009870 7 KVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 7 kVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~ 66 (523)
.+. ..|..=+-+++++|+++.- ...++|. ...+.+.|.+.++..||++...
T Consensus 3 D~rG~~CP~Pvi~~kkal~~l~~---------G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 3 DLRGEPCPYPAIATLEALPSLKP---------GEILEVISDCPQSINNIPIDARNHGYKVLAI 56 (69)
T ss_pred ccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEecCchHHHHHHHHHHHcCCEEEEE
Confidence 345 7888889999999998742 2223333 3467888999999999987643
No 121
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=30.56 E-value=99 Score=35.04 Aligned_cols=28 Identities=29% Similarity=0.535 Sum_probs=24.2
Q ss_pred CHHHHHHHHHHHhcCCCeeEEEEecCCC
Q 009870 12 CDGCKHKVKKILQKIDGVFTTSIDSEQG 39 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~GV~sV~VDl~sg 39 (523)
-..|-|.+|..+.+++||.+++|-++.+
T Consensus 204 agGCFWg~e~~f~~~~GV~~t~~GYagG 231 (521)
T PRK14018 204 AGGCFWGLEAYFQRIDGVVDAVSGYANG 231 (521)
T ss_pred ecCCchhhHHHHccCCCEEEEEEeeCCC
Confidence 4788999999999999999999876655
No 122
>PF00708 Acylphosphatase: Acylphosphatase; InterPro: IPR001792 Acylphosphatase (3.6.1.7 from EC) is an enzyme of approximately 98 amino acid residues that specifically catalyses the hydrolysis of the carboxyl-phosphate bond of acylphosphates [], its substrates including 1,3-diphosphoglycerate and carbamyl phosphate []. The enzyme has a mainly beta-sheet structure with 2 short alpha-helical segments. It is distributed in a tissue-specific manner in a wide variety of species, although its physiological role is as yet unknown []: it may, however, play a part in the regulation of the glycolytic pathway and pyrimidine biosynthesis []. There are two known isozymes. One seems to be specific to muscular tissues, the other, called 'organ-common type', is found in many different tissues. While bacterial and archebacterial hypothetical proteins that are highly similar to that enzyme and that probably possess the same activity. These proteins include: Escherichia coli putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yccX). Bacillus subtilis putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yflL). Archaeoglobus fulgidus putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (O29440 from SWISSPROT). An acylphosphatase-like domain is also found in some prokaryotic hydrogenase maturation HypF carbamoyltransferases [, ].; PDB: 1APS_A 1GXT_A 1GXU_A 2HLT_A 2FHM_A 2HLU_A 3BR8_A 1ULR_A 3TRG_A 2BJD_A ....
Probab=30.09 E-value=2.4e+02 Score=23.75 Aligned_cols=63 Identities=24% Similarity=0.307 Sum_probs=35.5
Q ss_pred eEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHHcCCceEE
Q 009870 2 QTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG---NVDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 2 qkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g---~vd~~eIikaI~kaGy~a~l 65 (523)
.++++.|. +.--.-...|.+...++ +|.-..-|+..++|.|.. +..++++++.|++--..+.+
T Consensus 4 ~~~~i~v~G~VQGVgFR~~v~~~A~~~-gl~G~V~N~~dg~V~i~~~G~~~~l~~f~~~l~~g~p~a~V 71 (91)
T PF00708_consen 4 KRYRIIVSGRVQGVGFRPFVKRIARKL-GLTGWVRNLPDGSVEIEAEGEEEQLEEFIKWLKKGPPPARV 71 (91)
T ss_dssp EEEEEEEEEETSSSSHHHHHHHHHHHT-T-EEEEEE-TTSEEEEEEEEEHHHHHHHHHHHHHSSTTSEE
T ss_pred EEEEEEEEEEECcCChhHHHHHHHHHh-CCceEEEECCCCEEEEEEEeCHHHHHHHHHHHHhCCCCcEE
Confidence 45666666 44444445554444444 466666778888887763 24567777777764333443
No 123
>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=30.06 E-value=1.8e+02 Score=22.98 Aligned_cols=54 Identities=17% Similarity=0.146 Sum_probs=29.3
Q ss_pred cCHHHHHHHHHHHhcCCCeeEEEEec---CCCEEEEE--e--cCCHHHHHHHHHHcCCceE
Q 009870 11 HCDGCKHKVKKILQKIDGVFTTSIDS---EQGKVTVS--G--NVDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 11 ~C~~Ca~kIEKaL~kl~GV~sV~VDl---~sgkVtV~--g--~vd~~eIikaI~kaGy~a~ 64 (523)
..+.-..++-++|..-.-|..+..+. ....|.|. . ....++|+++|++.||.++
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 34444555656666412344444332 22233333 2 2467789999999999753
No 124
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=29.84 E-value=1.2e+02 Score=34.14 Aligned_cols=68 Identities=13% Similarity=0.148 Sum_probs=47.4
Q ss_pred EEEEeecCHHHHHHHHHHHhcC--CCeeEEEEecCCCEEEEE--ecCCHHHHHHHHH-HcCCceEEcCccccc
Q 009870 5 VLKVNIHCDGCKHKVKKILQKI--DGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLA-KSGKHAELWGAQKAN 72 (523)
Q Consensus 5 ~LkVeM~C~~Ca~kIEKaL~kl--~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~-kaGy~a~l~~~~~~~ 72 (523)
.+.|...-.....++.++|.+| ++...+..+..++..+|. +.+.++.|+++|+ +.+.++++.....+.
T Consensus 395 ~~~v~p~~~~d~~kl~~aL~~L~eED~l~~~~~~~t~e~il~g~G~lhleV~~~RL~~ey~v~v~~~~~~v~~ 467 (526)
T PRK00741 395 FRRVRLKNPLKQKQLQKGLVQLSEEGAVQVFRPLDNNDLILGAVGQLQFEVVAHRLKNEYNVEAIYEPVGVAT 467 (526)
T ss_pred EEEEEECCchhHHHHHHHHHHHhhcCCeEEEECCCCCCEEEEEEeHHHHHHHHHHHHHHhCCEEEEecCCccE
Confidence 3444444556678888888877 566677777777777776 6788899999887 467777665544433
No 125
>PRK14420 acylphosphatase; Provisional
Probab=29.54 E-value=2.9e+02 Score=23.57 Aligned_cols=58 Identities=16% Similarity=0.222 Sum_probs=34.3
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHHc
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAKS 59 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~ka 59 (523)
|++++|.|. ...-.-...|.+...++ +|.-..-|+..++|+|... ..++++++.|++-
T Consensus 1 m~~~~~~v~G~VQGVGFR~~~~~~A~~~-gl~G~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~~ 63 (91)
T PRK14420 1 MLQYHIIVDGRVQGVGFRYFVQMEADKR-KLTGWVKNRDDGTVEIEAEGPEEALQLFLDAIEKG 63 (91)
T ss_pred CeEEEEEEEEeeCCcCChHHHHHHHHHc-CCEEEEEECCCCcEEEEEEECHHHHHHHHHHHHhC
Confidence 556777777 44444444554443433 4655567788887877632 4566667777653
No 126
>PRK14426 acylphosphatase; Provisional
Probab=29.52 E-value=3.2e+02 Score=23.50 Aligned_cols=56 Identities=16% Similarity=0.171 Sum_probs=35.5
Q ss_pred eEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 2 QTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 2 qkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
.++++.|. ...-.+...|.+...++ +|.-..-|+..++|+|... ..++++++.|++
T Consensus 4 ~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~~G~~~~i~~f~~~l~~ 64 (92)
T PRK14426 4 VCIIAWVYGRVQGVGFRYHTQHEALKL-GLTGYAKNLDDGSVEVVACGEEEQVEKLMEWLKE 64 (92)
T ss_pred EEEEEEEEEeeCCcCchHHHHHHHHHh-CCEEEEEECCCCcEEEEEEeCHHHHHHHHHHHhc
Confidence 34566666 56667777776665554 5655667788887777633 345666666654
No 127
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=29.46 E-value=1.3e+02 Score=25.73 Aligned_cols=47 Identities=21% Similarity=0.265 Sum_probs=32.5
Q ss_pred CHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe----cCCHHHHHHHHHHc
Q 009870 12 CDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG----NVDPSVLIKKLAKS 59 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g----~vd~~eIikaI~ka 59 (523)
...|..+|+..-..+ -|..|...+..++++|.. .++..+|++.|.+.
T Consensus 28 l~~c~~~~~~~~L~m-~lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~ 78 (88)
T PF04468_consen 28 LKFCRELVKELGLPM-KLVDVEYQFDGSKLTFYYTAESRVDFRELVRDLARE 78 (88)
T ss_pred HHHHHHHHHHcCCCe-EEEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHH
Confidence 455666666643322 255777778899999862 38999999988754
No 128
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=29.20 E-value=33 Score=39.74 Aligned_cols=11 Identities=9% Similarity=-0.009 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHH
Q 009870 453 QYMAAAMMNQQR 464 (523)
Q Consensus 453 q~~~~~mm~~q~ 464 (523)
+|. +++.-||.
T Consensus 740 w~V-~~l~~Fq~ 750 (811)
T KOG4364|consen 740 WKV-RELSDFQD 750 (811)
T ss_pred HHH-HHHHhccc
Confidence 344 35555554
No 129
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=28.89 E-value=34 Score=38.15 Aligned_cols=49 Identities=31% Similarity=0.413 Sum_probs=35.0
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCce
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHA 63 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a 63 (523)
|.|..- ..| .|.++.-| |+++.+..+|||+.-+.+.+|+++|.+.||..
T Consensus 88 l~ctdg-~li--sl~~lnkV--v~~dpe~~tvTV~aGirlrQLie~~~~~GlsL 136 (518)
T KOG4730|consen 88 LVCTDG-LLI--SLDKLNKV--VEFDPELKTVTVQAGIRLRQLIEELAKLGLSL 136 (518)
T ss_pred ceeccc-cEE--Ehhhhccc--eeeCchhceEEeccCcCHHHHHHHHHhcCccc
Confidence 666655 222 23344444 45577778899998899999999999999864
No 130
>PRK14449 acylphosphatase; Provisional
Probab=28.72 E-value=3.6e+02 Score=23.03 Aligned_cols=55 Identities=18% Similarity=0.212 Sum_probs=35.1
Q ss_pred EEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 3 TYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 3 kv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
++++.|. ...-.....|.+...++ +|.=..-|+..++|+|... ..++++++.|++
T Consensus 4 ~~~i~v~G~VQGVGFR~fv~~~A~~l-gl~G~V~N~~dG~Vei~~~G~~~~v~~f~~~l~~ 63 (90)
T PRK14449 4 TVHLRITGHVQGVGLRYSVYQKAVSL-GITGYAENLYDGSVEVVAEGDEENIKELINFIKT 63 (90)
T ss_pred EEEEEEEEeecCcChHHHHHHHHHHc-CCEEEEEECCCCeEEEEEEeCHHHHHHHHHHHhh
Confidence 4566666 56666677776665554 4655667788888877633 345666666665
No 131
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=28.66 E-value=2e+02 Score=30.78 Aligned_cols=54 Identities=17% Similarity=0.115 Sum_probs=37.7
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecC--C----CEEEEEecCCHHHHHHHHHH
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSE--Q----GKVTVSGNVDPSVLIKKLAK 58 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~--s----gkVtV~g~vd~~eIikaI~k 58 (523)
++|-|. |........|+++++..--|++|+|-.. + .-+.|+- .++++..++|++
T Consensus 108 ~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF-~~~e~A~~Ai~~ 168 (346)
T TIGR01659 108 TNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDF-GSEADSQRAIKN 168 (346)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEE-ccHHHHHHHHHH
Confidence 467777 8877788899999998878888877433 2 2245553 366666777764
No 132
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=28.14 E-value=32 Score=37.36 Aligned_cols=10 Identities=30% Similarity=0.411 Sum_probs=4.6
Q ss_pred CCHHHHHHHH
Q 009870 47 VDPSVLIKKL 56 (523)
Q Consensus 47 vd~~eIikaI 56 (523)
+.+++|+++-
T Consensus 144 ~pl~ElL~rY 153 (542)
T KOG0699|consen 144 VPLAELLKRY 153 (542)
T ss_pred CcHHHHHHHh
Confidence 4445544433
No 133
>cd01514 Elongation_Factor_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the ribosomal protection proteins Tet(M) and Tet(O), BipA, LepA and, spliceosomal proteins: human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and yeast counterpart Snu114p. This domain adopts a ferredoxin-like fold consisting of an alpha-beta sandwich with anti-parallel beta-sheets, resembling the topology of domain III found in the elongation factors EF-G and eukaryotic EF-2, with which it forms the C-terminal block. The two domains however are not superimposable and domain III lacks some of the characteristics of this domain. EF-2/EF-G in complex with GTP, promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the
Probab=28.05 E-value=2.8e+02 Score=22.42 Aligned_cols=47 Identities=19% Similarity=0.202 Sum_probs=29.7
Q ss_pred EEEeecC-HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHH
Q 009870 6 LKVNIHC-DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVL 52 (523)
Q Consensus 6 LkVeM~C-~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eI 52 (523)
++|+++| ..+..+|...|.+..|...-.....+..++|+..+...++
T Consensus 4 ~~~~I~~p~~~~g~v~~~l~~rrg~v~~~~~~~~~~~~i~~~iP~~e~ 51 (79)
T cd01514 4 MKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGTGRVVIKAELPLAEM 51 (79)
T ss_pred EEEEEEcCHHHHHHHHHHHHhcCCeeEeeEecCCCeEEEEEECCHHHH
Confidence 4555444 5677888888888877644333344466777776555554
No 134
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning]
Probab=27.87 E-value=58 Score=34.22 Aligned_cols=43 Identities=28% Similarity=0.376 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---------CCHHHHHHHHH
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---------VDPSVLIKKLA 57 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---------vd~~eIikaI~ 57 (523)
.-|...|+++|.+. . .++++|+..+.++|.+. +...+|++.|.
T Consensus 72 ke~wp~v~raL~e~-~-i~c~lDL~egsm~V~TtRkT~DPyIiikArdlIKLla 123 (356)
T KOG2874|consen 72 KECWPLVERALDEH-H-IKCVLDLVEGSMTVKTTRKTRDPYIIIKARDLIKLLA 123 (356)
T ss_pred HHHHHHHHHHHHhc-C-cceEEeeccceeEEeecccccCceeeeeHHHHHHHHH
Confidence 46889999999864 2 37888999998888621 45566666554
No 135
>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.
Probab=27.59 E-value=1.3e+02 Score=25.72 Aligned_cols=41 Identities=22% Similarity=0.230 Sum_probs=27.9
Q ss_pred HHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHc
Q 009870 17 HKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKS 59 (523)
Q Consensus 17 ~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~ka 59 (523)
.-+-+.|-.++||.+|-+... -|+|+ ..++.++|...|..+
T Consensus 37 spLA~~Lf~i~gV~~Vf~~~d--fItVtK~~~~~W~~l~~~I~~~ 79 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIGDD--FITVTKNPDADWEDLKPEIREV 79 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEETT--EEEEEE-TTS-HHHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEECC--EEEEeeCCCCCHHHHHHHHHHH
Confidence 344455569999988776544 67776 458899998888754
No 136
>smart00838 EFG_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Probab=27.28 E-value=2.3e+02 Score=23.46 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=30.6
Q ss_pred EEEeecC-HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHH
Q 009870 6 LKVNIHC-DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLI 53 (523)
Q Consensus 6 LkVeM~C-~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIi 53 (523)
++|++.| ..|..+|-..|.+..|... +++..+..++|...+..+++.
T Consensus 6 ~~~~I~~p~~~~g~v~~~l~~rrG~i~-~~~~~~~~~~i~~~iP~~~~~ 53 (85)
T smart00838 6 MKVEVTVPEEYMGDVIGDLNSRRGKIE-GMEQRGGAQVIKAKVPLSEMF 53 (85)
T ss_pred EEEEEEeCHHHHHHHHHHHHHcCCEEE-CeeccCCcEEEEEECCHHHHh
Confidence 5566455 6788889888888888642 333334567777766665553
No 137
>PRK02048 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional
Probab=27.26 E-value=52 Score=37.83 Aligned_cols=25 Identities=28% Similarity=0.655 Sum_probs=19.3
Q ss_pred EEEe-ecCHHH----------HHHHHHHHhcCCCee
Q 009870 6 LKVN-IHCDGC----------KHKVKKILQKIDGVF 30 (523)
Q Consensus 6 LkVe-M~C~~C----------a~kIEKaL~kl~GV~ 30 (523)
.+.+ ++|++| ..+|+++...|+||.
T Consensus 514 sKTEyISCPsCGRTLfDLq~tta~Ik~~t~HLkGlk 549 (611)
T PRK02048 514 SKTEYISCPGCGRTLYDLQSTIARIKEATSHLKGLK 549 (611)
T ss_pred ccceEEECCCCCcchhhHHHHHHHHHHHhCCCCCce
Confidence 4677 999999 456777777888864
No 138
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=27.19 E-value=1.7e+02 Score=27.02 Aligned_cols=50 Identities=18% Similarity=0.332 Sum_probs=33.2
Q ss_pred HHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHH-----HcCCceEEc
Q 009870 16 KHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLA-----KSGKHAELW 66 (523)
Q Consensus 16 a~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~-----kaGy~a~l~ 66 (523)
-..++.+|.++ |...|+.-+.++-|+++...+.++|..+|+ +.||++.++
T Consensus 21 MaeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~v~ 75 (137)
T PF08002_consen 21 MAELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGFDVPVI 75 (137)
T ss_dssp HHHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT---EE
T ss_pred HHHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCCCeEEE
Confidence 34566667666 889999999999999997777777776665 468876543
No 139
>PRK14435 acylphosphatase; Provisional
Probab=27.04 E-value=3e+02 Score=23.61 Aligned_cols=57 Identities=16% Similarity=0.338 Sum_probs=36.6
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
|++++|.|. ..+-.....+.+...++ +|.-..-|+..++|+|... ...+++++.|++
T Consensus 1 m~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~~G~~~~i~~f~~~l~~ 62 (90)
T PRK14435 1 MKALKIRVEGIVQGVGFRYFTRRVAKSL-GVKGYVMNMDDGSVFIHAEGDENALRRFLNEVAK 62 (90)
T ss_pred CeEEEEEEEEEeCCcCChHHHHHHHHHh-CCEEEEEECCCCCEEEEEEECHHHHHHHHHHHhh
Confidence 567778887 66666666666655544 4555557777787777632 345666666764
No 140
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=26.97 E-value=1.5e+02 Score=23.93 Aligned_cols=31 Identities=19% Similarity=0.293 Sum_probs=20.4
Q ss_pred EEEEEEeecCHHHHHHHHHHHhcCCCeeEEE
Q 009870 3 TYVLKVNIHCDGCKHKVKKILQKIDGVFTTS 33 (523)
Q Consensus 3 kv~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~ 33 (523)
+++|.|++.-..-...|-+.|+++++|.+|+
T Consensus 49 ~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 49 RITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 3455555555555566667788888887764
No 141
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=26.94 E-value=30 Score=38.79 Aligned_cols=15 Identities=13% Similarity=0.346 Sum_probs=6.0
Q ss_pred cCHHHHHHHHHHHhc
Q 009870 11 HCDGCKHKVKKILQK 25 (523)
Q Consensus 11 ~C~~Ca~kIEKaL~k 25 (523)
+|.--...|-+++..
T Consensus 36 ~~~~l~aAVVqLY~a 50 (569)
T KOG3671|consen 36 KCKTLAAAVVQLYKA 50 (569)
T ss_pred chhhHHHHHHHHHhh
Confidence 343333444444433
No 142
>PRK14422 acylphosphatase; Provisional
Probab=26.78 E-value=3.7e+02 Score=23.21 Aligned_cols=56 Identities=14% Similarity=0.169 Sum_probs=35.1
Q ss_pred eEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 2 QTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 2 qkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
+++++.|. ...-.....|.+...++ +|.-..-|+..++|+|... ..++++++.|++
T Consensus 6 ~~~~~~v~G~VQGVGFR~~v~~~A~~~-gl~G~V~N~~dG~Vei~~~G~~~~i~~f~~~l~~ 66 (93)
T PRK14422 6 VRLTAWVHGHVQGVGFRWWTRSRALEL-GLTGYAANLADGRVQVVAEGPRAACEKLLQLLRG 66 (93)
T ss_pred EEEEEEEEEeeCCcCcHHHHHHHHHHc-CCEEEEEECCCCCEEEEEEcCHHHHHHHHHHHHh
Confidence 45566666 55556666666655544 5655667788887777633 345666777765
No 143
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=26.60 E-value=48 Score=31.09 Aligned_cols=48 Identities=19% Similarity=0.353 Sum_probs=26.7
Q ss_pred cCHHHHHHHHHHHhcCCCeeEEEEecCCCE-EEEEecCCHHHHHHHHHH
Q 009870 11 HCDGCKHKVKKILQKIDGVFTTSIDSEQGK-VTVSGNVDPSVLIKKLAK 58 (523)
Q Consensus 11 ~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgk-VtV~g~vd~~eIikaI~k 58 (523)
+|.+.-..++++|+.|+.+..|+.+...++ ++-.+..++++|+..|+.
T Consensus 92 ~~~as~~i~rkvlQ~Le~~~~ve~hp~gGR~lt~~GqrdldrIa~~i~~ 140 (143)
T KOG3411|consen 92 FCDASGGIARKVLQALEKMGIVEKHPKGGRRLTEQGQRDLDRIAGQIRE 140 (143)
T ss_pred hhccccHHHHHHHHHHHhCCceeeCCCCcceeCcccchhHHHHHHHHHh
Confidence 454444444444554544555555555443 334466788888887764
No 144
>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=26.17 E-value=70 Score=25.98 Aligned_cols=11 Identities=18% Similarity=0.395 Sum_probs=7.8
Q ss_pred EeecCHHHHHH
Q 009870 8 VNIHCDGCKHK 18 (523)
Q Consensus 8 VeM~C~~Ca~k 18 (523)
+...|..|...
T Consensus 6 ~~~~C~~C~~~ 16 (76)
T PF13192_consen 6 FSPGCPYCPEL 16 (76)
T ss_dssp ECSSCTTHHHH
T ss_pred eCCCCCCcHHH
Confidence 44679999743
No 145
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.05 E-value=1.2e+02 Score=30.75 Aligned_cols=39 Identities=18% Similarity=0.272 Sum_probs=27.0
Q ss_pred EEEEEEe--ecCHHH---HHHHHHHHhcCCCeeEEEEecCCCEE
Q 009870 3 TYVLKVN--IHCDGC---KHKVKKILQKIDGVFTTSIDSEQGKV 41 (523)
Q Consensus 3 kv~LkVe--M~C~~C---a~kIEKaL~kl~GV~sV~VDl~sgkV 41 (523)
++++.|- +.|+-| ..+++++|...+.-.+|+|......+
T Consensus 5 ~i~I~v~sD~vCPwC~ig~~rL~ka~~~~~~~~~v~i~w~pf~l 48 (225)
T COG2761 5 KIEIDVFSDVVCPWCYIGKRRLEKALAEYPQEVRVEIRWRPFEL 48 (225)
T ss_pred eEEEEEEeCCcCchhhcCHHHHHHHHHhcCcceeEEEEeccccc
Confidence 4455544 899999 68899999988754466666554433
No 146
>cd03011 TlpA_like_ScsD_MtbDsbE TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif. The Salmonella typhimurium ScsD is a thioredoxin-like protein which confers copper tolerance to copper-sensitive mutants of E. coli. MtbDsbE has been characterized as an oxidase in vitro, catalyzing the disulfide bond formation of substrates like hirudin. The reduced form of MtbDsbE is more stable than its oxidized form, consistent with an oxidase function. This is in contrast to the function of DsbE from gram-negative bacteria which is a specific reductase of apocytochrome c.
Probab=26.01 E-value=2.7e+02 Score=23.76 Aligned_cols=46 Identities=15% Similarity=0.271 Sum_probs=24.6
Q ss_pred ecCHHHHHHHHHHHhcC-CCeeEEEEecCCCEEEEEec-CCHHHHHHHHHHcCCceEE
Q 009870 10 IHCDGCKHKVKKILQKI-DGVFTTSIDSEQGKVTVSGN-VDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl-~GV~sV~VDl~sgkVtV~g~-vd~~eIikaI~kaGy~a~l 65 (523)
-.|..|...+... .++ +.+ ..+.|..+ .+.+++.+.+++......+
T Consensus 30 ~~C~~C~~~~~~l-~~~~~~~---------~~i~i~~~~~~~~~~~~~~~~~~~~~~~ 77 (123)
T cd03011 30 TWCPVCRFTSPTV-NQLAADY---------PVVSVALRSGDDGAVARFMQKKGYGFPV 77 (123)
T ss_pred CcChhhhhhChHH-HHHHhhC---------CEEEEEccCCCHHHHHHHHHHcCCCccE
Confidence 6799998765433 222 111 12233322 2577788778776655443
No 147
>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=25.77 E-value=49 Score=25.72 Aligned_cols=33 Identities=33% Similarity=0.383 Sum_probs=15.6
Q ss_pred HHHHHHHhcCCCe--eEEEEecCCCEEEEEecCCH
Q 009870 17 HKVKKILQKIDGV--FTTSIDSEQGKVTVSGNVDP 49 (523)
Q Consensus 17 ~kIEKaL~kl~GV--~sV~VDl~sgkVtV~g~vd~ 49 (523)
.+|+++|.....+ ..++|....+.|+|++.+..
T Consensus 2 ~~v~~~L~~~~~~~~~~i~v~v~~g~v~L~G~v~s 36 (64)
T PF04972_consen 2 TKVRAALRADPWLPDSNISVSVENGVVTLSGEVPS 36 (64)
T ss_dssp -----------CTT-TTEEEEEECTEEEEEEEESS
T ss_pred cccccccccccccCCCeEEEEEECCEEEEEeeCcH
Confidence 3566677663322 26788888999999977533
No 148
>PRK14441 acylphosphatase; Provisional
Probab=24.70 E-value=4.5e+02 Score=22.69 Aligned_cols=57 Identities=12% Similarity=0.150 Sum_probs=32.1
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ec-CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GN-VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~-vd~~eIikaI~k 58 (523)
|+++++.|. ..--.....+.+...++ +|.-..-|...++|+|. ++ ..++.+++.|++
T Consensus 4 ~~~~~i~v~G~VQGVGFR~~v~~~A~~l-gL~G~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~ 65 (93)
T PRK14441 4 RVRARIVVSGRVQGVAFRQSAADEARRL-GVEGWVRNLPDGRVEAEAEGERAAVGALVRWCHA 65 (93)
T ss_pred cEEEEEEEEEecCCccchHHHHHHHhhc-CcEEEEEECCCCEEEEEEEECHHHHHHHHHHHhh
Confidence 456666666 22233344444433333 55555677888877766 32 355667777764
No 149
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=24.67 E-value=1.8e+02 Score=27.13 Aligned_cols=46 Identities=24% Similarity=0.312 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhcC-CCeeEEEEecCCCEEEEEecCCHHHHHHHHHH
Q 009870 13 DGCKHKVKKILQKI-DGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAK 58 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl-~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~k 58 (523)
..-+.+|+++|.+. -.+..++|....++|+|.+.+...+..+++..
T Consensus 25 ~~~~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~~~~ 71 (147)
T PRK11198 25 EDAADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEKILL 71 (147)
T ss_pred HHHHHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHHHHH
Confidence 34456777777653 23445667777999999987644444444443
No 150
>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=24.35 E-value=2.9e+02 Score=23.98 Aligned_cols=16 Identities=19% Similarity=0.341 Sum_probs=10.9
Q ss_pred EEEEEe-ecCHHHHHHH
Q 009870 4 YVLKVN-IHCDGCKHKV 19 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kI 19 (523)
+.+.+. -.|..|....
T Consensus 17 vlv~f~a~wC~~C~~~~ 33 (125)
T cd02951 17 LLLLFSQPGCPYCDKLK 33 (125)
T ss_pred EEEEEeCCCCHHHHHHH
Confidence 445555 7899998643
No 151
>PRK14450 acylphosphatase; Provisional
Probab=24.30 E-value=4.3e+02 Score=22.61 Aligned_cols=57 Identities=14% Similarity=0.166 Sum_probs=33.9
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCE-EEEE--ec-CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGK-VTVS--GN-VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgk-VtV~--g~-vd~~eIikaI~k 58 (523)
|.++++.|. ...-.....+.+...++ +|.-..-|+.+++ |+|. ++ .+++++++.|++
T Consensus 1 ~~~~~~~v~G~VQGVGFR~~v~~~A~~~-~l~G~V~N~~dG~~Vei~~~G~~~~v~~f~~~l~~ 63 (91)
T PRK14450 1 MHCLKAIVKGKVQGVYFRDFTRTQATRL-GLCGYAKNLANGNEVEVVAEGDKDSLLEFLDLLRS 63 (91)
T ss_pred CEEEEEEEEEEecCcCcHHHHHHHHHHc-CCEEEEEECCCCCEEEEEEEeCHHHHHHHHHHHhh
Confidence 556677777 45555555555544433 4555556777774 7665 32 456777777764
No 152
>TIGR03527 selenium_YedF selenium metabolism protein YedF. Members of this protein family are about 200 amino acids in size, and include the uncharacterized YedF protein of Escherichia coli. This family shares an N-terminal domain, modeled by pfam01206, with the sulfurtransferase TusA (also called SirA). The C-terminal domain includes a typical redox-active disulfide motif, CGXC. This protein family found only among those genomes that also carry the selenium donor protein SelD, and its connection to selenium metabolism is indicated by the method of partial phylogenetic profiling vs. SelD. Its gene typically is found next to selD. Members of this family are found even when selenocysteine and selenouridine biosynthesis pathways are, except for SelD, completely absent, as in Enterococcus faecalis. Its role in selenium metabolism is unclear, but may include either detoxification or a role in labile selenoprotein biosynthesis.
Probab=23.84 E-value=1.3e+02 Score=29.58 Aligned_cols=48 Identities=23% Similarity=0.231 Sum_probs=35.8
Q ss_pred ecCHHHHHHHHHHHhcCC-C-eeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEc
Q 009870 10 IHCDGCKHKVKKILQKID-G-VFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~-G-V~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~ 66 (523)
+.|+.-+-+.+++|.+++ + +.. |+|+...+.+.|.+.+++.||+++..
T Consensus 6 l~CP~Pvi~tKkal~~l~~g~~L~---------VlvD~~~a~~nV~~~~~~~G~~v~~~ 55 (194)
T TIGR03527 6 LACPQPVILTKKALDELGEEGVLT---------VIVDNEAAKENVSKFATSLGYEVEVE 55 (194)
T ss_pred CCCCHHHHHHHHHHHcCCCCCEEE---------EEECCccHHHHHHHHHHHcCCEEEEE
Confidence 789999999999999885 2 221 22234467888999999999987643
No 153
>cd08593 PI-PLCc_delta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-delta. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-delta isozymes. 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. PLC-delta 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, and a C-terminal C2 domain. This CD corresponds to the catalytic domain which is
Probab=23.79 E-value=70 Score=33.05 Aligned_cols=53 Identities=9% Similarity=0.129 Sum_probs=38.7
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCC---EEEEE------ecCCHHHHHHHHHHcCCceE
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQG---KVTVS------GNVDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sg---kVtV~------g~vd~~eIikaI~kaGy~a~ 64 (523)
+.-.+.+..+.++|+ .|++-|++|.-.+ .-+|. ..+..++++++|++..|.+.
T Consensus 26 l~~~ss~~~y~~aL~--~GcRcvElD~wdg~~~eP~v~HG~t~t~~i~f~~v~~~I~~~aF~~s 87 (257)
T cd08593 26 LKGPSSTEAYIRALK--KGCRCVELDCWDGPDGEPIIYHGHTLTSKILFKDVIQAIREYAFKVS 87 (257)
T ss_pred ccCCccHHHHHHHHH--hCCcEEEEEeecCCCCCcEEeeCCccccCcCHHHHHHHHHHHhccCC
Confidence 556667788888887 5888888885543 23443 34899999999999887643
No 154
>PRK12596 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=23.78 E-value=3.9e+02 Score=25.71 Aligned_cols=52 Identities=8% Similarity=0.095 Sum_probs=37.2
Q ss_pred EEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHH
Q 009870 6 LKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSG--NVDPSVLIKKLA 57 (523)
Q Consensus 6 LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g--~vd~~eIikaI~ 57 (523)
+.++++.+.....+-..+.-++|-.+++|+.+.+++.|.. ..+++++.+.|+
T Consensus 95 vpl~l~sd~~~t~lAn~ITLTPGTltvdv~~d~~~L~VH~Ld~~~~e~~~~~i~ 148 (171)
T PRK12596 95 IPLELQNRTALAVLACMITASPGTAWVDYNAARGILTIHVLDLEDAETWRHLIK 148 (171)
T ss_pred EeccCCCHHHHHHHHHHHccCCCEEEEEEECCCCEEEEEEeeCCCHHHHHHHHH
Confidence 3333677777777788888889999999998888898872 235555555443
No 155
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=23.77 E-value=5.3e+02 Score=24.61 Aligned_cols=59 Identities=19% Similarity=0.104 Sum_probs=36.6
Q ss_pred EEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEE-----EE--e-cCCHHHHHHHHHHcCCce
Q 009870 4 YVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVT-----VS--G-NVDPSVLIKKLAKSGKHA 63 (523)
Q Consensus 4 v~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVt-----V~--g-~vd~~eIikaI~kaGy~a 63 (523)
++|.|+ ........|.+.|+++-.|.+|..-.....+. |. . ..+..+|.+.++...-++
T Consensus 45 iti~V~-~d~~~i~qi~kQl~Kli~V~~V~~~~~~~~v~rEl~LiKv~~~~~~r~~i~~i~~~f~a~i 111 (157)
T TIGR00119 45 MTIVVV-GDDKVLEQITKQLNKLVDVIKVSDLTESAIVERELCLVKVSAPGEGRDEIIRLTNIFRGRI 111 (157)
T ss_pred EEEEEE-CCHHHHHHHHHHHhcCccEEEEEecCCCcceeeEEEEEEEECCccCHHHHHHHHHHhCCEE
Confidence 444444 25888999999999999998886633332221 21 1 235667777776654443
No 156
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=23.55 E-value=1e+02 Score=27.89 Aligned_cols=31 Identities=26% Similarity=0.562 Sum_probs=22.0
Q ss_pred EEEeecCHHH------HHHHHHHHhcCCCeeEEEEec
Q 009870 6 LKVNIHCDGC------KHKVKKILQKIDGVFTTSIDS 36 (523)
Q Consensus 6 LkVeM~C~~C------a~kIEKaL~kl~GV~sV~VDl 36 (523)
+++.++...| ...|+.+|..+++|..++|++
T Consensus 53 v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 53 VKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred EEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEEE
Confidence 3333444555 677899999999998887754
No 157
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=23.53 E-value=40 Score=32.85 Aligned_cols=13 Identities=23% Similarity=0.266 Sum_probs=8.4
Q ss_pred CCHHHHHHHHHHc
Q 009870 47 VDPSVLIKKLAKS 59 (523)
Q Consensus 47 vd~~eIikaI~ka 59 (523)
++..+|++.|.+.
T Consensus 31 ~~F~dii~EI~~~ 43 (175)
T COG3343 31 FNFSDIINEIQKL 43 (175)
T ss_pred ccHHHHHHHHHHH
Confidence 5667777776654
No 158
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=23.50 E-value=1.8e+02 Score=26.84 Aligned_cols=20 Identities=15% Similarity=0.077 Sum_probs=14.0
Q ss_pred CHHHHHHHHHHcCCceEEcC
Q 009870 48 DPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 48 d~~eIikaI~kaGy~a~l~~ 67 (523)
+++++.+.+++.++...++.
T Consensus 76 ~~~~~~~~~~~~~~~~~~l~ 95 (171)
T cd02969 76 SPENMKAKAKEHGYPFPYLL 95 (171)
T ss_pred CHHHHHHHHHHCCCCceEEE
Confidence 56788888888877654443
No 159
>PRK14431 acylphosphatase; Provisional
Probab=23.39 E-value=3.7e+02 Score=23.10 Aligned_cols=56 Identities=16% Similarity=0.210 Sum_probs=30.6
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN---VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~---vd~~eIikaI~k 58 (523)
|+++++.|. .-.-.....+.+...++ +|.=..-|+..+ |+|... ..++++++.|++
T Consensus 1 m~~~~~~v~G~VQGVGFR~~~~~~A~~~-gl~G~V~N~~dg-Vei~~qG~~~~l~~f~~~l~~ 61 (89)
T PRK14431 1 MRHIHLQVFGRVQGVGFRYFTQRIAMNY-NIVGTVQNVDDY-VEIYAQGDDADLERFIQGVIE 61 (89)
T ss_pred CeEEEEEEEEecCCeeEhHHHHHHHhhc-CCEEEEEECCCc-EEEEEEcCHHHHHHHHHHHhc
Confidence 456677777 33344444444443333 455455566654 766632 456666667765
No 160
>PHA03283 envelope glycoprotein E; Provisional
Probab=23.24 E-value=53 Score=37.11 Aligned_cols=8 Identities=0% Similarity=0.256 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 009870 50 SVLIKKLA 57 (523)
Q Consensus 50 ~eIikaI~ 57 (523)
+.++.+|+
T Consensus 352 ~~~~Nvv~ 359 (542)
T PHA03283 352 AHFMNVIT 359 (542)
T ss_pred hhccceEe
Confidence 34444443
No 161
>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=22.97 E-value=2e+02 Score=33.39 Aligned_cols=56 Identities=20% Similarity=0.278 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEec-------CCHHHHHHHHHHcCCceEEcCc
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGN-------VDPSVLIKKLAKSGKHAELWGA 68 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~-------vd~~eIikaI~kaGy~a~l~~~ 68 (523)
......|++++-+..+|.++.++..++.|.|+.+ ..-..+.+..+++|+..+++..
T Consensus 69 ~~~~~~i~~~~~~~~~~~~~~f~~~~~~v~i~~~~p~~~~~~~~~~~~~i~~~~~w~~~~~~~ 131 (630)
T TIGR03675 69 EEAIEKIKEIVPEEAGITDIYFDDVTGEVIIEAEKPGLVIGKGGSTLREITAETGWTPKVVRT 131 (630)
T ss_pred HHHHHHHHHhCCCcCCceeEEecCCCceEEEEEcCCeEEEecCcchHHHHHHHhCCeeeEEec
Confidence 4455666666666679999999999999999832 1445556667789998776543
No 162
>cd02975 PfPDO_like_N Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO)-like family, N-terminal TRX-fold subdomain; composed of proteins with similarity to PfPDO, a redox active thermostable protein believed to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI), which are both involved in oxidative protein folding. PfPDO contains two redox active CXXC motifs in two contiguous TRX-fold subdomains. The active site in the N-terminal TRX-fold subdomain is required for isomerase but not for reductase activity of PfPDO. The exclusive presence of PfPDO-like proteins in extremophiles may suggest that they have a special role in adaptation to extreme conditions.
Probab=22.96 E-value=4.1e+02 Score=23.18 Aligned_cols=7 Identities=29% Similarity=0.809 Sum_probs=5.9
Q ss_pred ecCHHHH
Q 009870 10 IHCDGCK 16 (523)
Q Consensus 10 M~C~~Ca 16 (523)
-+|..|.
T Consensus 32 ~wC~~C~ 38 (113)
T cd02975 32 EGCQYCE 38 (113)
T ss_pred CCCCChH
Confidence 5899996
No 163
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=22.89 E-value=55 Score=37.26 Aligned_cols=15 Identities=27% Similarity=0.293 Sum_probs=7.3
Q ss_pred CHHHHHHHHHHcCCc
Q 009870 48 DPSVLIKKLAKSGKH 62 (523)
Q Consensus 48 d~~eIikaI~kaGy~ 62 (523)
+++.++..|+.+|..
T Consensus 291 SvevaI~flkecGak 305 (739)
T KOG2140|consen 291 SVEVAIAFLKECGAK 305 (739)
T ss_pred hHHHHHHHHHHHHHH
Confidence 344444455555544
No 164
>KOG3360 consensus Acylphosphatase [Energy production and conversion]
Probab=22.81 E-value=3.3e+02 Score=24.39 Aligned_cols=63 Identities=16% Similarity=0.091 Sum_probs=41.4
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEE--EEec-CCHHHHHHHHHHcCCceEE
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVT--VSGN-VDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVt--V~g~-vd~~eIikaI~kaGy~a~l 65 (523)
+|.|.|. -.=.-|-.+-.....+.-||.-...+...++|+ +++. ...+++.+.|+..|-.+..
T Consensus 9 s~dfEvfGRVQGv~fr~~t~~~a~~lGlrGWv~Nt~~GtvkG~leGp~~~vd~mk~wl~~~gsP~s~ 75 (98)
T KOG3360|consen 9 SCDFEVFGRVQGVCFRKHTLDEAKKLGLRGWVMNTSEGTVKGQLEGPPEKVDEMKEWLLTRGSPVSA 75 (98)
T ss_pred EEeEEEEeeeccchhhHHHHHHHHhhcceEEEEecCCceEEEEEeCCHHHHHHHHHHHHhcCChhHh
Confidence 4556666 455667666666666666888777777777775 4443 3567778888877765443
No 165
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.74 E-value=2.7e+02 Score=21.95 Aligned_cols=60 Identities=13% Similarity=0.154 Sum_probs=33.8
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCC-eeEEEEec-----CCCEEEEE--ecC--CHHHHHHHHHHcCCceEEc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDG-VFTTSIDS-----EQGKVTVS--GNV--DPSVLIKKLAKSGKHAELW 66 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~G-V~sV~VDl-----~sgkVtV~--g~v--d~~eIikaI~kaGy~a~l~ 66 (523)
|.|. -.+..-..+|..+|.+... |.++.+.. ....++|+ .++ ..++|+++|++. |++..|
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~g~nI~~i~~~~~~~~~~~~~~~v~v~~e~~~~~~~i~~~L~~~-~~~~~~ 72 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREFNARIISILTAFEDAPDGMRRVFIRVTPMDRSKENELIEELKAK-FTVVYW 72 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHCCCeEEEEEeccccCCCCccEEEEEEEEecchHHHHHHHHHhCc-ccEEeC
Confidence 4455 4566667777788777643 33443332 22233443 211 235888889777 887654
No 166
>KOG3648 consensus Golgi apparatus protein (cysteine-rich fibroblast growth factor receptor) [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.65 E-value=59 Score=37.72 Aligned_cols=6 Identities=33% Similarity=0.086 Sum_probs=2.3
Q ss_pred CCcchH
Q 009870 125 QQPNAQ 130 (523)
Q Consensus 125 ~~~~~~ 130 (523)
+++.+|
T Consensus 60 ~~~~~~ 65 (1179)
T KOG3648|consen 60 GQQLPQ 65 (1179)
T ss_pred hhhhHH
Confidence 343333
No 167
>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=22.44 E-value=1.1e+02 Score=31.63 Aligned_cols=53 Identities=9% Similarity=0.139 Sum_probs=39.6
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCC-----EEEEE------ecCCHHHHHHHHHHcCCceE
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQG-----KVTVS------GNVDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sg-----kVtV~------g~vd~~eIikaI~kaGy~a~ 64 (523)
+.-.+.+..+.++|. .|++-|++|.-.+ ..+|. ..|..++++++|++..|.+.
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 555667888888886 6888888886654 24454 35899999999999887643
No 168
>KOG3782 consensus Predicted membrane protein, contains type II SA sequence [General function prediction only]
Probab=22.33 E-value=1.3e+02 Score=29.50 Aligned_cols=34 Identities=24% Similarity=0.549 Sum_probs=22.1
Q ss_pred ecCHHHHHHHH---HHHhcCC-----CeeEEEEecCCCEEEE
Q 009870 10 IHCDGCKHKVK---KILQKID-----GVFTTSIDSEQGKVTV 43 (523)
Q Consensus 10 M~C~~Ca~kIE---KaL~kl~-----GV~sV~VDl~sgkVtV 43 (523)
++|..|+..|. .++.+++ .|.+++|+.......+
T Consensus 25 ~~CgaC~alVtelE~~IA~vDPkK~i~vgsFR~~p~G~q~~~ 66 (189)
T KOG3782|consen 25 VKCGACKALVTELEEAIAKVDPKKMIDVGSFRLDPQGNQISK 66 (189)
T ss_pred cccchHHHHHHHHHHHHHhcCchheeeecceEECCCCCeeee
Confidence 68999977764 4454443 4667788876555544
No 169
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=22.28 E-value=3.5e+02 Score=21.90 Aligned_cols=57 Identities=16% Similarity=0.066 Sum_probs=34.4
Q ss_pred EEEEEEe-ecCHHHHHHHHHHHhcCCC-eeEEEEecCCCEEEEE----e-cCCHHHHHHHHHHc
Q 009870 3 TYVLKVN-IHCDGCKHKVKKILQKIDG-VFTTSIDSEQGKVTVS----G-NVDPSVLIKKLAKS 59 (523)
Q Consensus 3 kv~LkVe-M~C~~Ca~kIEKaL~kl~G-V~sV~VDl~sgkVtV~----g-~vd~~eIikaI~ka 59 (523)
.+.+.|. ..+...+..|.++|.+..+ |.+++........+.. . ..+.++|.++|+++
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~l 65 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEEL 65 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHHH
Confidence 4667777 8899999999999998854 4455555555555433 1 12445566666543
No 170
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=22.28 E-value=2e+02 Score=23.50 Aligned_cols=48 Identities=27% Similarity=0.219 Sum_probs=28.0
Q ss_pred EEEe-ecCHHHHHHHHHHHh---cCC---CeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCc
Q 009870 6 LKVN-IHCDGCKHKVKKILQ---KID---GVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKH 62 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~---kl~---GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~ 62 (523)
|.+- -.|..|...++...+ ++. .|.-| .|..+.+.++..+.+++..+.
T Consensus 6 l~fwa~~c~~c~~~~~~l~~l~~~~~~~~~v~~v---------~Vs~d~~~~~~~~~~~~~~~~ 60 (95)
T PF13905_consen 6 LYFWASWCPPCKKELPKLKELYKKYKKKDDVEFV---------FVSLDEDEEEWKKFLKKNNFP 60 (95)
T ss_dssp EEEE-TTSHHHHHHHHHHHHHHHHHTTTTTEEEE---------EEE-SSSHHHHHHHHHTCTTS
T ss_pred EEEECCCCHHHHHHHHHHHHHHHHhCCCCCEEEE---------EEEeCCCHHHHHHHHHhcCCC
Confidence 3344 689999877655432 223 33222 233345678888889888554
No 171
>TIGR03759 conj_TIGR03759 integrating conjugative element protein, PFL_4693 family. Members of this protein family, such as model protein PFL_4693 from Pseudomonas fluorescens Pf-5, belong to extended genomic regions that appear to be spread by conjugative transfer. Most members have a predicted N-terminal signal sequence. The function is unknown.
Probab=22.26 E-value=2.4e+02 Score=28.26 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=35.2
Q ss_pred EEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 009870 4 YVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 4 v~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~ 67 (523)
+.|-|.-.|..|...+.+.|..... ++| ..|-+..+.+.|..-..+.+.+++.+.
T Consensus 112 lalFvkd~C~~C~~~~~~l~a~~~~---~Di------ylvgs~~dD~~Ir~WA~~~~Idp~~V~ 166 (200)
T TIGR03759 112 LALFVKDDCVACDARVQRLLADNAP---LDL------YLVGSQGDDERIRQWANRHQIDPAKVR 166 (200)
T ss_pred EEEEeCCCChHHHHHHHHHhcCCCc---eeE------EEecCCCCHHHHHHHHHHcCCCHHHee
Confidence 3445557899999999998764221 111 123345678888887778877655443
No 172
>PRK14434 acylphosphatase; Provisional
Probab=22.19 E-value=4.3e+02 Score=22.81 Aligned_cols=58 Identities=17% Similarity=0.334 Sum_probs=37.0
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ec--CCHHHHHHHHHH
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GN--VDPSVLIKKLAK 58 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~--vd~~eIikaI~k 58 (523)
|+++++.|. ..+-.....+.+...++..|.=..-|+..++|+|. ++ ..++.+++.|++
T Consensus 1 m~~~~i~v~G~VQGVGFR~fv~~~A~~lg~l~G~V~N~~dGsVei~~qG~~~~~l~~f~~~l~~ 64 (92)
T PRK14434 1 MQKVRMIVSGRVQGVGFRYSVYSLALEIGDIYGRVWNNDDGTVEILAQSDDSAKLAKFIQEIRK 64 (92)
T ss_pred CeEEEEEEEEeecceeEhHHHHHHHHHcCCcEEEEEECCCCCEEEEEEcCCHHHHHHHHHHHhc
Confidence 556777777 55666666666665555426556677888877766 43 245667777765
No 173
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=22.07 E-value=3.2e+02 Score=19.90 Aligned_cols=53 Identities=21% Similarity=0.162 Sum_probs=34.7
Q ss_pred EEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCC-----CEEEEEecCCHHHHHHHHHHc
Q 009870 6 LKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQ-----GKVTVSGNVDPSVLIKKLAKS 59 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~s-----gkVtV~g~vd~~eIikaI~ka 59 (523)
+.|. +....+...|++.|+....|..+.+.... ..+.|+- .+.++...++++.
T Consensus 2 i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f-~s~~~a~~a~~~~ 60 (74)
T cd00590 2 LFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEF-EDEEDAEKALEAL 60 (74)
T ss_pred EEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEE-CCHHHHHHHHHHh
Confidence 4466 77777788999999988778887777543 3344443 2555656666543
No 174
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=22.02 E-value=1.4e+02 Score=25.09 Aligned_cols=23 Identities=17% Similarity=0.117 Sum_probs=14.7
Q ss_pred CHHHHHHHHHHHhcCCCeeEEEE
Q 009870 12 CDGCKHKVKKILQKIDGVFTTSI 34 (523)
Q Consensus 12 C~~Ca~kIEKaL~kl~GV~sV~V 34 (523)
-+.+...|.+.|.|+..|.+|++
T Consensus 53 ~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 53 SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred CCchHHHHHHHHhcCcCeEEEEE
Confidence 45666666666666666666654
No 175
>KOG4434 consensus Molecular chaperone SEC63, endoplasmic reticulum translocon component [Intracellular trafficking, secretion, and vesicular transport; Posttranslational modification, protein turnover, chaperones]
Probab=21.84 E-value=73 Score=34.74 Aligned_cols=11 Identities=18% Similarity=0.232 Sum_probs=5.3
Q ss_pred HHHHHhcCCCe
Q 009870 19 VKKILQKIDGV 29 (523)
Q Consensus 19 IEKaL~kl~GV 29 (523)
|-.+|..++-|
T Consensus 202 vM~VLg~mP~~ 212 (520)
T KOG4434|consen 202 VMVVLGMMPRL 212 (520)
T ss_pred HHHHHccCcce
Confidence 33445555544
No 176
>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=21.81 E-value=1.3e+02 Score=29.46 Aligned_cols=63 Identities=19% Similarity=0.298 Sum_probs=36.5
Q ss_pred EEEEEEe-ecCHH----HHHHHHHHHhcC--CCeeEEEEecCCCEEEEEecCC---HHHHHHHHHHcCCceEEcCc
Q 009870 3 TYVLKVN-IHCDG----CKHKVKKILQKI--DGVFTTSIDSEQGKVTVSGNVD---PSVLIKKLAKSGKHAELWGA 68 (523)
Q Consensus 3 kv~LkVe-M~C~~----Ca~kIEKaL~kl--~GV~sV~VDl~sgkVtV~g~vd---~~eIikaI~kaGy~a~l~~~ 68 (523)
+||+-|. --|.. |+.+|-+-|.+. +.| +++|-.+ ++--...-. ..+=++.|.++|..+++...
T Consensus 75 ~ITwy~SwSPC~~~~~~Ca~~i~~FL~~~~~~~v-~L~I~~a--rLY~~~~~~~~~~~eGLr~L~~aGv~v~iM~~ 147 (188)
T PF08210_consen 75 RITWYLSWSPCPESDHCCAEKIAEFLKKHLKPNV-SLSIFAA--RLYYHWEPEPLWNQEGLRRLASAGVQVEIMSY 147 (188)
T ss_dssp EEEEEESSS--CC----HHHHHHHHHCCC--TTE-EEEEEES--S--STTSTT---HHHHHHHHHHCTEEEEE-SH
T ss_pred EEEEEEecCCCcchhhHHHHHHHHHHHHhCCCCC-eEEEEEE--eeeeecCCcchhHHHHHHHHHHcCCEEEEcCH
Confidence 3556666 45999 999999999998 777 2333222 111011122 45666677788887776643
No 177
>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=21.77 E-value=79 Score=30.98 Aligned_cols=54 Identities=22% Similarity=0.206 Sum_probs=36.6
Q ss_pred EEEEEeecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE---------ecCCHHHHHHHHHHcCCce
Q 009870 4 YVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS---------GNVDPSVLIKKLAKSGKHA 63 (523)
Q Consensus 4 v~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~---------g~vd~~eIikaI~kaGy~a 63 (523)
++|-|+++|..|-..+|+.|..+ ++++--++|-+. ..++.++|.+.-...-.++
T Consensus 68 IVFvinl~sk~SL~~ve~SL~~v------d~~fflGKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~pl 130 (176)
T PF11111_consen 68 IVFVINLHSKYSLQSVEASLSHV------DPSFFLGKVCFLATNAGRESHCSVHPNEVRKLAATYNSPL 130 (176)
T ss_pred EEEEEecCCcccHHHHHHHHhhC------ChhhhccceEEEEcCCCcccccccCHHHHHHHHHHhCCCE
Confidence 56777899999999999998854 455555666432 1256777766555555443
No 178
>cd03010 TlpA_like_DsbE TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c maturation (Ccm) factor with a redox active CXXC motif. Assembly of cytochrome c requires the ligation of heme to reduced thiols of the apocytochrome. In bacteria, this assembly occurs in the periplasm. The reductase activity of DsbE in the oxidizing environment of the periplasm is crucial in the maturation of cytochrome c.
Probab=21.65 E-value=5.3e+02 Score=22.23 Aligned_cols=51 Identities=18% Similarity=0.291 Sum_probs=26.7
Q ss_pred EEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCc
Q 009870 5 VLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKH 62 (523)
Q Consensus 5 ~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~ 62 (523)
.|.+- ..|..|...+. .|.++.-- ..-..|.|..+.+.+++.+.+++.++.
T Consensus 29 vv~F~a~~C~~C~~~~~-~l~~l~~~------~~~~vv~v~~~~~~~~~~~~~~~~~~~ 80 (127)
T cd03010 29 LLNVWASWCAPCREEHP-VLMALARQ------GRVPIYGINYKDNPENALAWLARHGNP 80 (127)
T ss_pred EEEEEcCcCHHHHHHHH-HHHHHHHh------cCcEEEEEECCCCHHHHHHHHHhcCCC
Confidence 34444 78999987653 44443100 011112233334667777777776664
No 179
>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=21.57 E-value=1.8e+02 Score=24.53 Aligned_cols=65 Identities=8% Similarity=0.160 Sum_probs=35.6
Q ss_pred EEEEEe--e---cCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHHcCCceEEcCccc
Q 009870 4 YVLKVN--I---HCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GNVDPSVLIKKLAKSGKHAELWGAQK 70 (523)
Q Consensus 4 v~LkVe--M---~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~vd~~eIikaI~kaGy~a~l~~~~~ 70 (523)
++++|. + ++......+.+++.. ..+..+.+|++.-+. |. +...+..+++.+++.+.++.++....
T Consensus 10 ~vi~l~G~L~f~~~~~~~~~l~~~~~~-~~~~~vilDls~v~~-iDssgi~~L~~~~~~~~~~g~~l~l~~~~~ 81 (106)
T TIGR02886 10 LIVRLSGELDHHTAERVRRKIDDAIER-RPIKHLILNLKNVTF-MDSSGLGVILGRYKKIKNEGGEVIVCNVSP 81 (106)
T ss_pred EEEEEecccchhhHHHHHHHHHHHHHh-CCCCEEEEECCCCcE-ecchHHHHHHHHHHHHHHcCCEEEEEeCCH
Confidence 455666 3 333444444444432 346667777764322 22 22345566777778888888776544
No 180
>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=21.51 E-value=63 Score=30.10 Aligned_cols=10 Identities=0% Similarity=-0.230 Sum_probs=5.1
Q ss_pred ecCHHHHHHH
Q 009870 10 IHCDGCKHKV 19 (523)
Q Consensus 10 M~C~~Ca~kI 19 (523)
++|..|-..+
T Consensus 27 ~vcP~cg~~~ 36 (129)
T TIGR02300 27 AVSPYTGEQF 36 (129)
T ss_pred ccCCCcCCcc
Confidence 5555554433
No 181
>cd08597 PI-PLCc_PRIP_metazoa Catalytic domain of metazoan phospholipase C related, but catalytically inactive protein. This family corresponds to the catalytic domain present in metazoan phospholipase C related, but catalytically inactive proteins (PRIP), which belong to a group of novel Inositol 1,4,5-trisphosphate (InsP3) binding protein. PRIP has a primary structure and domain architecture, incorporating a pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain with highly conserved X- and Y-regions split by a linker sequence, and a C-terminal C2 domain, similar to phosphoinositide-specific phospholipases C (PI-PLC, EC 3.1.4.11)-delta isoforms. Due to replacement of critical catalytic residues, PRIP do not have PLC enzymatic activity. PRIP consists of two subfamilies, PRIP-1(previously known as p130 or PLC-1), which is predominantly expressed in the brain, and PRIP-2 (previously known as PLC-2), which exhibits a relatively ubiquitous expression. Experiment
Probab=21.34 E-value=1e+02 Score=31.91 Aligned_cols=53 Identities=13% Similarity=0.158 Sum_probs=37.1
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCC---EEEEE------ecCCHHHHHHHHHHcCCceE
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQG---KVTVS------GNVDPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sg---kVtV~------g~vd~~eIikaI~kaGy~a~ 64 (523)
+...+.+..++++|. .|++-|++|.... +.+|. ..+..++++++|++..|.+.
T Consensus 26 l~~~ss~~~y~~aL~--~GcR~vElD~w~g~~gepvV~Hg~tlts~i~f~dv~~~I~~~aF~~s 87 (260)
T cd08597 26 LRGPSSVEGYVRALQ--RGCRCVELDCWDGPNGEPVIYHGHTLTSKISFRSVIEAINEYAFVAS 87 (260)
T ss_pred ecCccCHHHHHHHHH--hCCCEEEEEeEcCCCCCEEEEeCCccccceEHHHHHHHHHHHhccCC
Confidence 566667788888887 5776666664433 34443 34788999999998877643
No 182
>PF10505 NARG2_C: NMDA receptor-regulated gene protein 2 C-terminus; InterPro: IPR019535 The transition of neuronal cells from pre-cursor to mature state is regulated by the N-methyl-d-aspartate (NMDA) receptor, a glutamate-gated ion channel that is permeable to Ca2+. NMDA receptors probably mediate this activity by permitting expression of NARG2. NARG2 (NMDA receptor-regulated gene protein 2) is transiently expressed, being a regulatory protein that is present in the nucleus of dividing cells and then down-regulated as progenitors exit the cell cycle and begin to differentiate. NARG2 contains repeats of (S/T)PXX, (11 in mouse, 6 in human), a putative DNA-binding motif that is found in many gene-regulatory proteins including Kruppel, Hunchback and Antennapedi [].
Probab=21.11 E-value=2.1e+02 Score=28.87 Aligned_cols=46 Identities=15% Similarity=0.203 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHH
Q 009870 13 DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAK 58 (523)
Q Consensus 13 ~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~k 58 (523)
+.|..-++..|+.-.-+..++|+..+++|.....++.+.|.+.+.+
T Consensus 75 El~~~W~~~~Lr~~s~~~~~RI~~~t~~vl~~Ek~~~~~l~~~~~~ 120 (220)
T PF10505_consen 75 ELCKLWTESKLRPNSSLLRARINAWTSEVLSIEKLSMESLEEELCR 120 (220)
T ss_pred HHHHHHHHHhhCCCCeeEEEEEccccCceeEEEecCHHHHHHHhhh
Confidence 5567777777887788899999999999988877778877766543
No 183
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.00 E-value=3.2e+02 Score=20.46 Aligned_cols=17 Identities=18% Similarity=0.261 Sum_probs=13.4
Q ss_pred CHHHHHHHHHHcCCceE
Q 009870 48 DPSVLIKKLAKSGKHAE 64 (523)
Q Consensus 48 d~~eIikaI~kaGy~a~ 64 (523)
..++|+++|++.||++.
T Consensus 56 ~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 56 HIEEIIAALREAGYDVR 72 (73)
T ss_pred HHHHHHHHHHHcCCEEe
Confidence 44689999999999764
No 184
>cd02967 mauD Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for the biosynthesis of methylamine dehydrogenase (MADH), the enzyme that catalyzes the oxidation of methylamine and other primary amines. MADH possesses an alpha2beta2 subunit structure; the alpha subunit is also referred to as the large subunit. Each beta (small) subunit contains a tryptophan tryptophylquinone (TTQ) prosthetic group. Accessory proteins are essential for the proper transport of MADH to the periplasm, TTQ synthesis and the formation of several structural disulfide bonds. Bacterial mutants containing an insertion on the mauD gene were unable to grow on methylamine as a sole carbon source, were found to lack the MADH small subunit and had decreased amounts of the MADH large subunit.
Probab=20.90 E-value=2.2e+02 Score=23.96 Aligned_cols=46 Identities=17% Similarity=0.226 Sum_probs=24.1
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCC
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGK 61 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy 61 (523)
-.|..|...+.. |+++..... ..-.+.+..+.+.+++.+.+++..+
T Consensus 31 ~wC~~C~~~~p~-l~~~~~~~~-----~~~~vi~v~~~~~~~~~~~~~~~~~ 76 (114)
T cd02967 31 PTCPVCKKLLPV-IRSIARAEA-----DWLDVVLASDGEKAEHQRFLKKHGL 76 (114)
T ss_pred CCCcchHhHhHH-HHHHHHHhc-----CCcEEEEEeCCCHHHHHHHHHHhCC
Confidence 679999876544 444321110 0111111234567777777777765
No 185
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=20.90 E-value=3.1e+02 Score=24.96 Aligned_cols=51 Identities=16% Similarity=0.251 Sum_probs=27.1
Q ss_pred EEEe-ecCHHHHHHHHHH---HhcCC--CeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEE
Q 009870 6 LKVN-IHCDGCKHKVKKI---LQKID--GVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 6 LkVe-M~C~~Ca~kIEKa---L~kl~--GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l 65 (523)
|.+- ..|..|...+... ..+.. +|. .+.|..+.+.+++.+.+++.++...+
T Consensus 66 l~f~a~~C~~C~~~~~~l~~~~~~~~~~~~~---------vi~i~~d~~~~~~~~~~~~~~~~~~~ 122 (173)
T PRK03147 66 LNFWGTWCKPCEKEMPYMNELYPKYKEKGVE---------IIAVNVDETELAVKNFVNRYGLTFPV 122 (173)
T ss_pred EEEECCcCHHHHHHHHHHHHHHHHhhcCCeE---------EEEEEcCCCHHHHHHHHHHhCCCceE
Confidence 3344 7899997654332 22221 121 22333344567777778777765443
No 186
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=20.72 E-value=4.1e+02 Score=20.59 Aligned_cols=45 Identities=11% Similarity=0.046 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhcCCCeeEEEEecCCCEEEEE-ecCCHHHHHHHHHH
Q 009870 14 GCKHKVKKILQKIDGVFTTSIDSEQGKVTVS-GNVDPSVLIKKLAK 58 (523)
Q Consensus 14 ~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~-g~vd~~eIikaI~k 58 (523)
.+...+.+.|.+++.|..+..-.-.--+.+. ...+.++|.+.|.+
T Consensus 10 ~~~~~~~~~l~~~p~V~~~~~vtG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 10 DAYDEFAEALAEIPEVVECYSVTGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp THHHHHHHHHHTSTTEEEEEEESSSSSEEEEEEESSHHHHHHHHHH
T ss_pred chHHHHHHHHHcCCCEEEEEEEeCCCCEEEEEEECCHHHHHHHHHH
Confidence 3677888999999999887665555555554 23466666665443
No 187
>PRK09577 multidrug efflux protein; Reviewed
Probab=20.60 E-value=1.9e+02 Score=35.29 Aligned_cols=46 Identities=11% Similarity=0.115 Sum_probs=36.6
Q ss_pred HHHHHHHHhcCCCeeEEEEecCCCEEEEE--------ecCCHHHHHHHHHHcCC
Q 009870 16 KHKVKKILQKIDGVFTTSIDSEQGKVTVS--------GNVDPSVLIKKLAKSGK 61 (523)
Q Consensus 16 a~kIEKaL~kl~GV~sV~VDl~sgkVtV~--------g~vd~~eIikaI~kaGy 61 (523)
+++|+..|++++||.+|++.-...++.|+ .-+++++|.++|+....
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n~ 211 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHNA 211 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhCC
Confidence 46799999999999999998765556664 23889999999987644
No 188
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=20.59 E-value=1.8e+02 Score=35.51 Aligned_cols=45 Identities=9% Similarity=0.116 Sum_probs=35.4
Q ss_pred HHHHHHHHHhcCCCeeEEEEecCCCEEEEE--------ecCCHHHHHHHHHHc
Q 009870 15 CKHKVKKILQKIDGVFTTSIDSEQGKVTVS--------GNVDPSVLIKKLAKS 59 (523)
Q Consensus 15 Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--------g~vd~~eIikaI~ka 59 (523)
-++.|+..|++++||.+|++.-...++.|+ .-+++++|..+|+..
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 158 VASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 346789999999999999998655556665 237999999999854
No 189
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=20.59 E-value=4.6e+02 Score=21.13 Aligned_cols=34 Identities=21% Similarity=0.330 Sum_probs=19.1
Q ss_pred EEEEEe-ecCHHHHHHH---HHHHhcCC-CeeEEEEecC
Q 009870 4 YVLKVN-IHCDGCKHKV---KKILQKID-GVFTTSIDSE 37 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kI---EKaL~kl~-GV~sV~VDl~ 37 (523)
+.+.+. -.|..|.... +++.+... .|.-+.||..
T Consensus 20 vvv~f~~~~C~~C~~~~~~~~~~~~~~~~~v~~~~vd~~ 58 (103)
T PF00085_consen 20 VVVYFYAPWCPPCKAFKPILEKLAKEYKDNVKFAKVDCD 58 (103)
T ss_dssp EEEEEESTTSHHHHHHHHHHHHHHHHTTTTSEEEEEETT
T ss_pred EEEEEeCCCCCccccccceecccccccccccccchhhhh
Confidence 445555 7899997533 44444444 4555555543
No 190
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=20.55 E-value=5e+02 Score=21.67 Aligned_cols=50 Identities=16% Similarity=0.153 Sum_probs=32.9
Q ss_pred HHHHHHHHhcCCCeeEEEEecC--CCEEE-EEecCCHHHHHHHHHHcCCceEE
Q 009870 16 KHKVKKILQKIDGVFTTSIDSE--QGKVT-VSGNVDPSVLIKKLAKSGKHAEL 65 (523)
Q Consensus 16 a~kIEKaL~kl~GV~sV~VDl~--sgkVt-V~g~vd~~eIikaI~kaGy~a~l 65 (523)
..+...++.++++|.-++.-+. ..++. |...-+.+.|.+.-+++|+.+..
T Consensus 21 ~~~~~~~~~~~~~V~w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~aG~p~d~ 73 (77)
T PF14026_consen 21 HAKSCAVQAEMPGVQWLRSYVSEDDGKIFCLYEAPDEEAVREHARRAGLPADR 73 (77)
T ss_pred HHHhHHHHhhcCCeEEEEEEEecCCCeEEEEEECCCHHHHHHHHHHcCCCcce
Confidence 3444555666678876655444 55544 33456888899888999987654
No 191
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD. This protein, MauD, appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulfide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulfide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded.
Probab=20.48 E-value=4e+02 Score=25.44 Aligned_cols=46 Identities=17% Similarity=0.213 Sum_probs=25.7
Q ss_pred ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCce
Q 009870 10 IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHA 63 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a 63 (523)
-+|..|...+... .++.. + .. -.+++...-+.+++.+.+++.+++.
T Consensus 84 twCp~C~~~lp~l-~~~~~--~----~~-~~vv~Is~~~~~~~~~~~~~~~~~~ 129 (189)
T TIGR02661 84 PSCPVCDKLFPII-KSIAR--A----EE-TDVVMISDGTPAEHRRFLKDHELGG 129 (189)
T ss_pred CCChhHHHHHHHH-HHHHH--h----cC-CcEEEEeCCCHHHHHHHHHhcCCCc
Confidence 6899998775543 22210 0 11 1222223346778888888888754
No 192
>PF02831 gpW: gpW; InterPro: IPR004174 GpW is a 68 residue protein known to be present in phage particles. Extracts of phage-infected cells lacking GpW contain DNA-filled heads, and active tails, but no infectious virions. GpW is required for the addition of GpFII to the head, which is, in turn, required for the attachment of tails. Since GpFII and tails are known to be attached at the connector, GpW is also likely to assemble at this site. The addition of GpW to filled heads increases the DNase resistance of the packaged DNA, suggesting that GpW either forms a plug at the connector to prevent ejection of the DNA, or binds directly to the DNA. The large number of positively charged residues in GpW (its calculated pI is 10.8) is consistent with a role in DNA interaction [].; GO: 0019067 viral assembly, maturation, egress, and release; PDB: 2L6Q_A 2L6R_A 1HYW_A.
Probab=20.42 E-value=2.5e+02 Score=23.33 Aligned_cols=48 Identities=10% Similarity=0.144 Sum_probs=27.3
Q ss_pred ecCHHHHHHHHHHHhcC-CCeeEEEEecCCCEEEEEecCCHHHHHHHHHH
Q 009870 10 IHCDGCKHKVKKILQKI-DGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAK 58 (523)
Q Consensus 10 M~C~~Ca~kIEKaL~kl-~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~k 58 (523)
|+|..-...++.+|.+| .|-..|+|.....+|+.+ ..+..+|...|++
T Consensus 1 Mt~~~~L~~a~~A~h~L~tG~~vvsv~~dgrsV~Yt-~a~i~~L~~yI~~ 49 (68)
T PF02831_consen 1 MTTQEQLAEARAAYHDLLTGQRVVSVQGDGRSVTYT-QANIGDLRAYIQQ 49 (68)
T ss_dssp --CHHHHHHHHHHHHHHHCS-SEEEEEETTEEEEEE-GGGHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHhCCceeEeecCCeEEEEe-cCCHHHHHHHHHH
Confidence 45666666777777776 454456666666444433 3566666666654
No 193
>cd03711 Tet_C Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=20.30 E-value=4.3e+02 Score=21.44 Aligned_cols=46 Identities=15% Similarity=0.268 Sum_probs=29.6
Q ss_pred EEEeecC-HHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHH
Q 009870 6 LKVNIHC-DGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVL 52 (523)
Q Consensus 6 LkVeM~C-~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eI 52 (523)
+++++.| ..+..+|...|.+..|... +.+..+..++|+..+...++
T Consensus 4 ~~~~i~~p~~~~g~v~~~l~~rrg~i~-~~~~~~~~~~i~~~~P~~~~ 50 (78)
T cd03711 4 LRFELEVPQDALGRAMSDLAKMGATFE-DPQIKGDEVTLEGTIPVATS 50 (78)
T ss_pred EEEEEEcCHHHHHHHHHHHHHcCCEee-CcEecCCEEEEEEEECHHHH
Confidence 4455444 5678888888888887644 33334467777776655554
No 194
>PRK14444 acylphosphatase; Provisional
Probab=20.29 E-value=5.6e+02 Score=22.03 Aligned_cols=58 Identities=12% Similarity=0.089 Sum_probs=33.5
Q ss_pred CeEEEEEEe--ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEE--ec-CCHHHHHHHHHHc
Q 009870 1 MQTYVLKVN--IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVS--GN-VDPSVLIKKLAKS 59 (523)
Q Consensus 1 Mqkv~LkVe--M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~--g~-vd~~eIikaI~ka 59 (523)
|.++++.|. ...-.....+.+...++ +|.=..-|+..++|+|. ++ ..++++++.|++.
T Consensus 3 m~~~~i~v~G~VQGVGFR~~v~~~A~~l-gl~G~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~g 65 (92)
T PRK14444 3 MVRAHVFISGRVQGVNFRAYTRDRAREA-GVKGWVRNLSDGRVEAVFEGSRPAVQKMISWCYSG 65 (92)
T ss_pred cEEEEEEEEEeeCCcCcHHHHHHHHHHh-CCEEEEEECCCCcEEEEEEcCHHHHHHHHHHHHhC
Confidence 345566666 44555555555544443 45555567888877766 32 3456677777643
No 195
>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=20.28 E-value=2.6e+02 Score=23.48 Aligned_cols=34 Identities=12% Similarity=0.234 Sum_probs=24.6
Q ss_pred EEEEEEeecCHHHHHHHHHHHhcCCCeeEEEEec
Q 009870 3 TYVLKVNIHCDGCKHKVKKILQKIDGVFTTSIDS 36 (523)
Q Consensus 3 kv~LkVeM~C~~Ca~kIEKaL~kl~GV~sV~VDl 36 (523)
++++.|+-.+......+-+.|+.++||.++..-+
T Consensus 40 KiVVtiE~~~~~~~~~~~~~i~~l~GVlsa~lvY 73 (79)
T PF03927_consen 40 KIVVTIEAESSEEEVDLIDAINALPGVLSASLVY 73 (79)
T ss_dssp EEEEEEEESSHHHHHHHHHHHCCSTTEEEEEESS
T ss_pred eEEEEEEeCChHHHHHHHHHHHcCCCceEEEEEE
Confidence 3555666566666777777799999999887644
No 196
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=20.04 E-value=2.6e+02 Score=26.85 Aligned_cols=52 Identities=15% Similarity=0.128 Sum_probs=32.9
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~ 67 (523)
.+|-|. --|..|+..|..+ +|.+|.+... .+.+....++.|+++|.+++.+.
T Consensus 102 ~tLYvTlePC~~Ca~aI~~~-----gI~rVvy~~~-------~~~~~~~~~~~L~~~Gi~v~~~~ 154 (168)
T PHA02588 102 ATMYVTASPCPDCAKAIAQS-----GIKKLVYCEK-------YDRNGPGWDDILRKSGIEVIQIP 154 (168)
T ss_pred cEEEEeCCCcHHHHHHHHHh-----CCCEEEEeec-------cCCCcHHHHHHHHHCCCEEEEeC
Confidence 567777 6799999988653 5554433211 11223345778899999877553
No 197
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=20.02 E-value=1.2e+02 Score=34.76 Aligned_cols=56 Identities=21% Similarity=0.154 Sum_probs=36.4
Q ss_pred EEEEEe-ecCHHHHHHHHHHHhcCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHHcCCceEEcC
Q 009870 4 YVLKVN-IHCDGCKHKVKKILQKIDGVFTTSIDSEQGKVTVSGNVDPSVLIKKLAKSGKHAELWG 67 (523)
Q Consensus 4 v~LkVe-M~C~~Ca~kIEKaL~kl~GV~sV~VDl~sgkVtV~g~vd~~eIikaI~kaGy~a~l~~ 67 (523)
++-+|. |+-..-..++.++|.+. ....-.|.|...-..+.|.+.|++++|.++.+.
T Consensus 492 veQ~v~m~~ed~k~kkL~eil~~~--------~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlH 548 (673)
T KOG0333|consen 492 VEQKVEMVSEDEKRKKLIEILESN--------FDPPIIIFVNTKKGADALAKILEKAGYKVTTLH 548 (673)
T ss_pred hheEEEEecchHHHHHHHHHHHhC--------CCCCEEEEEechhhHHHHHHHHhhccceEEEee
Confidence 344566 66666678888887765 011112234455678889999999999987543
Done!