Query 034782
Match_columns 83
No_of_seqs 106 out of 1175
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 06:23:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034782.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034782hhsearch_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 99.6 5.4E-15 1.2E-19 85.4 8.4 57 9-66 1-58 (62)
2 COG2608 CopZ Copper chaperone 99.5 1.3E-13 2.8E-18 82.9 8.0 59 6-65 2-61 (71)
3 KOG1603 Copper chaperone [Inor 99.3 6.9E-12 1.5E-16 75.6 6.6 61 3-63 2-62 (73)
4 KOG4656 Copper chaperone for s 99.0 5.6E-10 1.2E-14 80.2 6.4 62 6-67 7-68 (247)
5 PRK10671 copA copper exporting 98.6 1.1E-07 2.4E-12 77.9 6.7 55 4-60 1-56 (834)
6 COG2217 ZntA Cation transport 98.5 6.5E-07 1.4E-11 73.2 7.4 47 6-53 2-49 (713)
7 PLN02957 copper, zinc superoxi 98.4 1.9E-06 4.1E-11 62.0 8.0 51 4-54 4-54 (238)
8 TIGR00003 copper ion binding p 98.1 7.7E-05 1.7E-09 39.2 8.2 45 7-51 3-48 (68)
9 KOG0207 Cation transport ATPas 97.8 6.1E-05 1.3E-09 63.2 6.5 58 6-64 146-204 (951)
10 KOG0207 Cation transport ATPas 97.5 0.0002 4.3E-09 60.2 5.0 51 13-65 2-52 (951)
11 PRK11033 zntA zinc/cadmium/mer 97.5 0.00041 8.8E-09 56.8 6.7 48 5-52 52-100 (741)
12 PRK10671 copA copper exporting 97.3 0.00061 1.3E-08 56.2 6.6 44 7-50 100-144 (834)
13 TIGR02052 MerP mercuric transp 94.4 0.5 1.1E-05 26.9 7.2 44 7-50 24-68 (92)
14 PF01883 DUF59: Domain of unkn 92.2 0.31 6.6E-06 28.4 3.8 32 7-38 35-72 (72)
15 PRK13748 putative mercuric red 90.4 1.2 2.6E-05 34.9 6.5 41 10-50 4-45 (561)
16 cd00371 HMA Heavy-metal-associ 90.0 1.1 2.4E-05 20.6 5.6 38 13-50 6-43 (63)
17 COG4669 EscJ Type III secretor 85.6 3.3 7.1E-05 30.6 5.8 51 20-70 111-177 (246)
18 PRK14054 methionine sulfoxide 84.9 4.3 9.4E-05 28.2 5.9 53 5-63 3-74 (172)
19 PF09580 Spore_YhcN_YlaJ: Spor 84.6 4.6 9.9E-05 27.1 5.9 51 18-68 75-130 (177)
20 PF04972 BON: BON domain; Int 81.4 2.2 4.8E-05 23.8 2.9 47 21-68 2-51 (64)
21 COG1888 Uncharacterized protei 81.2 9 0.0002 24.5 5.8 62 1-62 1-71 (97)
22 TIGR03406 FeS_long_SufT probab 80.2 2.7 5.9E-05 29.2 3.5 51 7-66 114-170 (174)
23 TIGR02945 SUF_assoc FeS assemb 79.8 2.4 5.3E-05 26.0 2.9 21 21-41 58-78 (99)
24 PRK10553 assembly protein for 77.9 11 0.00023 23.4 5.4 46 17-62 16-62 (87)
25 PRK15348 type III secretion sy 76.6 11 0.00023 27.8 5.9 50 20-69 109-173 (249)
26 PF03927 NapD: NapD protein; 76.4 13 0.00028 22.4 5.4 35 19-54 16-50 (79)
27 cd04888 ACT_PheB-BS C-terminal 76.1 12 0.00025 21.1 5.3 33 6-38 41-74 (76)
28 PRK11023 outer membrane lipopr 75.7 8.4 0.00018 26.7 4.9 53 14-66 45-100 (191)
29 PF04468 PSP1: PSP1 C-terminal 74.7 15 0.00032 22.5 5.4 55 17-72 29-83 (88)
30 PRK13014 methionine sulfoxide 72.5 12 0.00027 26.3 5.1 53 5-63 8-79 (186)
31 PRK11018 hypothetical protein; 72.0 11 0.00025 22.4 4.3 28 4-31 5-33 (78)
32 PF08712 Nfu_N: Scaffold prote 71.4 8.9 0.00019 23.5 3.8 46 21-68 37-84 (87)
33 TIGR02544 III_secr_YscJ type I 70.9 21 0.00046 25.0 6.1 21 20-40 109-129 (193)
34 PRK05528 methionine sulfoxide 70.8 21 0.00046 24.4 5.9 46 17-63 8-67 (156)
35 PF01514 YscJ_FliF: Secretory 70.7 15 0.00033 25.8 5.3 49 20-68 117-181 (206)
36 COG2151 PaaD Predicted metal-s 67.7 11 0.00023 24.5 3.7 21 20-40 69-89 (111)
37 PF01206 TusA: Sulfurtransfera 67.2 15 0.00033 20.8 4.0 23 9-31 2-25 (70)
38 PRK00058 methionine sulfoxide 65.5 29 0.00063 25.0 5.9 52 6-63 46-116 (213)
39 PRK10555 aminoglycoside/multid 65.3 14 0.00031 31.8 4.9 48 20-67 159-210 (1037)
40 TIGR02898 spore_YhcN_YlaJ spor 64.4 26 0.00056 24.0 5.3 36 18-53 54-89 (158)
41 COG4004 Uncharacterized protei 62.8 17 0.00037 23.2 3.8 39 28-66 37-76 (96)
42 PF08002 DUF1697: Protein of u 61.5 35 0.00076 22.5 5.4 48 20-68 21-68 (137)
43 PRK09577 multidrug efflux prot 61.4 16 0.00035 31.4 4.6 48 20-67 158-209 (1032)
44 TIGR02159 PA_CoA_Oxy4 phenylac 60.2 13 0.00029 25.0 3.2 51 8-68 27-83 (146)
45 PF13291 ACT_4: ACT domain; PD 59.0 33 0.0007 19.7 5.0 32 6-37 48-79 (80)
46 PRK11198 LysM domain/BON super 58.4 25 0.00055 23.3 4.3 47 20-66 28-75 (147)
47 TIGR00489 aEF-1_beta translati 57.7 12 0.00026 23.4 2.5 23 18-40 62-84 (88)
48 PRK10568 periplasmic protein; 56.3 36 0.00077 23.8 5.0 52 14-65 56-109 (203)
49 TIGR00915 2A0602 The (Largely 56.2 22 0.00048 30.7 4.6 47 20-66 159-209 (1044)
50 PRK05550 bifunctional methioni 55.6 48 0.001 24.9 5.8 46 17-63 134-198 (283)
51 PF02680 DUF211: Uncharacteriz 54.2 55 0.0012 20.9 6.7 47 3-50 2-56 (95)
52 PF01625 PMSR: Peptide methion 53.3 69 0.0015 21.7 7.3 47 17-64 7-72 (155)
53 PF00873 ACR_tran: AcrB/AcrD/A 51.9 34 0.00075 29.2 5.0 56 17-72 686-747 (1021)
54 COG0225 MsrA Peptide methionin 51.9 76 0.0016 22.3 6.0 54 4-63 5-77 (174)
55 PRK11670 antiporter inner memb 51.8 8.9 0.00019 29.2 1.4 36 8-43 49-90 (369)
56 PF08777 RRM_3: RNA binding mo 50.7 61 0.0013 20.4 6.2 44 9-52 3-47 (105)
57 COG0425 SirA Predicted redox p 50.7 43 0.00093 20.1 4.1 25 7-31 5-30 (78)
58 PRK04435 hypothetical protein; 50.3 61 0.0013 21.5 5.2 33 6-38 110-143 (147)
59 COG2092 EFB1 Translation elong 49.1 17 0.00038 22.9 2.2 24 17-40 61-84 (88)
60 smart00362 RRM_2 RNA recogniti 49.0 38 0.00082 17.5 5.5 39 13-51 6-48 (72)
61 PRK00299 sulfur transfer prote 48.2 42 0.0009 20.0 3.8 28 4-31 6-34 (81)
62 PF14437 MafB19-deam: MafB19-l 47.8 61 0.0013 22.1 4.9 41 5-46 99-141 (146)
63 PRK00435 ef1B elongation facto 47.7 20 0.00044 22.3 2.4 24 17-40 61-84 (88)
64 PRK15127 multidrug efflux syst 47.6 37 0.00081 29.4 4.6 45 21-65 160-208 (1049)
65 COG2177 FtsX Cell division pro 46.9 33 0.00071 25.7 3.8 31 8-39 63-93 (297)
66 TIGR00914 2A0601 heavy metal e 46.2 40 0.00087 29.1 4.6 52 19-70 699-756 (1051)
67 PF10934 DUF2634: Protein of u 46.2 56 0.0012 20.9 4.3 35 17-51 68-105 (112)
68 PF13193 AMP-binding_C: AMP-bi 45.2 31 0.00066 19.5 2.8 46 22-70 1-50 (73)
69 COG3696 Putative silver efflux 43.6 33 0.00071 30.1 3.6 63 18-80 686-758 (1027)
70 PF15643 Tox-PL-2: Papain fold 43.5 21 0.00045 23.0 2.0 20 13-32 18-39 (100)
71 PRK05934 type III secretion sy 43.4 72 0.0016 24.7 5.2 45 19-63 72-127 (341)
72 PRK03839 putative kinase; Prov 42.9 19 0.00041 23.8 1.8 39 44-82 130-178 (180)
73 PRK09579 multidrug efflux prot 42.7 46 0.00099 28.7 4.4 54 18-71 672-731 (1017)
74 cd00292 EF1B Elongation factor 41.6 31 0.00067 21.4 2.5 23 18-40 62-84 (88)
75 PF13740 ACT_6: ACT domain; PD 40.2 74 0.0016 18.3 6.6 60 7-66 2-64 (76)
76 PRK10614 multidrug efflux syst 40.1 54 0.0012 28.3 4.5 53 19-71 676-734 (1025)
77 PF00736 EF1_GNE: EF-1 guanine 39.0 50 0.0011 20.4 3.2 24 17-40 61-85 (89)
78 PF14535 AMP-binding_C_2: AMP- 39.0 82 0.0018 19.0 4.2 14 21-34 7-20 (96)
79 TIGR02830 spore_III_AG stage I 38.4 30 0.00065 24.4 2.3 29 19-47 62-92 (186)
80 PHA02096 hypothetical protein 38.4 17 0.00036 23.0 0.9 27 54-80 39-65 (103)
81 PF02983 Pro_Al_protease: Alph 37.3 82 0.0018 18.0 4.7 22 31-52 23-44 (62)
82 PRK15324 type III secretion sy 36.4 39 0.00084 24.8 2.7 22 20-41 110-131 (252)
83 PF08478 POTRA_1: POTRA domain 35.1 44 0.00096 18.5 2.3 21 20-40 36-56 (69)
84 cd02973 TRX_GRX_like Thioredox 34.3 44 0.00095 18.2 2.2 26 13-39 8-37 (67)
85 PRK11152 ilvM acetolactate syn 34.2 1.1E+02 0.0023 18.4 4.6 32 5-38 44-75 (76)
86 cd03420 SirA_RHOD_Pry_redox Si 33.9 70 0.0015 18.3 3.1 22 10-31 2-24 (69)
87 cd04879 ACT_3PGDH-like ACT_3PG 33.3 62 0.0014 17.0 2.7 19 20-38 52-70 (71)
88 PF00873 ACR_tran: AcrB/AcrD/A 33.1 1.2E+02 0.0027 25.9 5.5 33 20-52 62-96 (1021)
89 PRK10555 aminoglycoside/multid 33.1 84 0.0018 27.2 4.5 53 19-71 697-755 (1037)
90 cd06482 ACD_HspB10 Alpha cryst 32.8 40 0.00087 20.6 2.0 25 29-53 15-41 (87)
91 cd03421 SirA_like_N SirA_like_ 32.7 63 0.0014 18.1 2.7 20 11-31 3-23 (67)
92 PRK10509 bacterioferritin-asso 32.6 26 0.00056 20.4 1.0 20 10-29 33-52 (64)
93 TIGR00915 2A0602 The (Largely 32.5 91 0.002 27.0 4.7 53 19-71 698-756 (1044)
94 PF11111 CENP-M: Centromere pr 32.3 72 0.0016 22.4 3.4 40 2-47 62-101 (176)
95 PRK06007 fliF flagellar MS-rin 32.2 1.4E+02 0.0031 24.1 5.5 43 20-62 137-193 (542)
96 PRK10503 multidrug efflux syst 32.0 91 0.002 27.0 4.6 52 20-71 691-748 (1040)
97 cd02410 archeal_CPSF_KH The ar 31.9 1.1E+02 0.0024 20.9 4.2 38 17-54 52-89 (145)
98 PRK11023 outer membrane lipopr 31.8 1.7E+02 0.0037 20.1 5.3 62 15-79 124-187 (191)
99 PF13192 Thioredoxin_3: Thiore 31.5 66 0.0014 18.4 2.7 11 12-22 6-16 (76)
100 PF05922 Inhibitor_I9: Peptida 30.4 62 0.0013 18.3 2.5 17 24-40 61-77 (82)
101 PF13893 RRM_5: RNA recognitio 30.0 93 0.002 16.4 3.0 27 24-50 2-29 (56)
102 COG3553 Uncharacterized protei 29.3 1.4E+02 0.0031 19.0 4.1 36 33-68 44-79 (96)
103 KOG3782 Predicted membrane pro 29.1 1.8E+02 0.004 20.6 4.9 36 13-48 24-67 (189)
104 cd04877 ACT_TyrR N-terminal AC 29.0 1.2E+02 0.0025 17.2 4.3 28 10-37 41-68 (74)
105 PF01849 NAC: NAC domain; Int 28.9 78 0.0017 17.6 2.6 25 28-52 14-38 (58)
106 PF11873 DUF3393: Domain of un 28.9 1.2E+02 0.0026 21.6 4.2 33 34-67 88-120 (204)
107 PF12693 GspL_C: GspL periplas 28.5 1.7E+02 0.0037 18.9 5.3 47 22-68 86-134 (157)
108 TIGR02372 4_coum_CoA_lig 4-cou 28.3 1.9E+02 0.0042 21.8 5.4 51 20-70 310-364 (386)
109 cd06471 ACD_LpsHSP_like Group 28.0 51 0.0011 19.6 1.9 25 29-53 17-43 (93)
110 COG4190 Predicted transcriptio 27.9 65 0.0014 22.0 2.5 38 44-82 16-55 (144)
111 PRK10568 periplasmic protein; 27.9 1.9E+02 0.0041 20.1 5.0 48 18-65 139-188 (203)
112 PF01941 AdoMet_Synthase: S-ad 27.8 74 0.0016 25.1 3.1 56 21-77 320-389 (396)
113 KOG1626 Inorganic pyrophosphat 27.5 13 0.00029 27.8 -1.0 39 43-82 155-193 (279)
114 PF14960 ATP_synth_reg: ATP sy 27.4 17 0.00036 20.6 -0.4 13 71-83 9-21 (49)
115 PRK10743 heat shock protein Ib 27.2 54 0.0012 21.7 2.0 23 29-51 52-76 (137)
116 cd06475 ACD_HspB1_like Alpha c 26.9 67 0.0015 19.3 2.3 24 29-52 17-42 (86)
117 cd00291 SirA_YedF_YeeD SirA, Y 26.7 1.2E+02 0.0025 16.7 3.2 19 13-31 6-24 (69)
118 PRK14018 trifunctional thiored 26.5 2.1E+02 0.0045 23.3 5.5 46 17-63 205-268 (521)
119 cd06464 ACD_sHsps-like Alpha-c 26.3 56 0.0012 18.5 1.8 25 29-53 14-40 (88)
120 cd04874 ACT_Af1403 N-terminal 26.2 99 0.0022 16.4 2.8 19 20-38 53-71 (72)
121 cd04903 ACT_LSD C-terminal ACT 26.0 89 0.0019 16.5 2.5 19 20-38 52-70 (71)
122 TIGR00206 fliF flagellar basal 25.5 2.2E+02 0.0049 23.1 5.6 44 20-63 137-194 (555)
123 COG1094 Predicted RNA-binding 25.5 1.9E+02 0.0042 20.6 4.7 30 21-51 27-56 (194)
124 COG2823 OsmY Predicted peripla 25.3 2.2E+02 0.0048 20.2 4.9 51 16-66 129-181 (196)
125 cd04901 ACT_3PGDH C-terminal A 25.2 1E+02 0.0023 16.6 2.8 18 21-38 51-68 (69)
126 PHA01634 hypothetical protein 25.0 28 0.00061 23.9 0.3 13 13-25 97-109 (156)
127 cd00298 ACD_sHsps_p23-like Thi 24.8 65 0.0014 17.2 1.8 23 30-52 14-38 (80)
128 PRK12800 fliF flagellar MS-rin 24.4 2.3E+02 0.0051 23.2 5.5 43 20-62 146-202 (574)
129 PRK10614 multidrug efflux syst 24.4 2.1E+02 0.0046 24.8 5.5 33 21-53 65-99 (1025)
130 PRK11597 heat shock chaperone 24.1 63 0.0014 21.6 1.9 23 29-51 50-74 (142)
131 PRK11200 grxA glutaredoxin 1; 24.0 1.4E+02 0.003 17.2 3.2 28 14-42 9-40 (85)
132 COG0071 IbpA Molecular chapero 23.9 69 0.0015 20.9 2.1 26 28-53 56-83 (146)
133 PF08210 APOBEC_N: APOBEC-like 23.8 1.2E+02 0.0026 21.1 3.3 31 7-38 75-112 (188)
134 COG4492 PheB ACT domain-contai 23.5 2.2E+02 0.0048 19.5 4.4 33 6-38 113-146 (150)
135 PRK08279 long-chain-acyl-CoA s 23.4 2.7E+02 0.0058 21.6 5.5 51 19-69 473-531 (600)
136 cd03423 SirA SirA (also known 23.4 1.5E+02 0.0034 16.7 3.3 19 13-31 6-24 (69)
137 TIGR02189 GlrX-like_plant Glut 23.2 1.2E+02 0.0025 18.6 2.9 20 13-34 15-34 (99)
138 cd06477 ACD_HspB3_Like Alpha c 23.2 78 0.0017 19.1 2.0 25 29-53 14-40 (83)
139 smart00360 RRM RNA recognition 23.2 1.2E+02 0.0026 15.3 4.9 38 13-50 3-46 (71)
140 PF11210 DUF2996: Protein of u 23.1 34 0.00074 22.7 0.4 29 21-50 17-45 (119)
141 COG0841 AcrB Cation/multidrug 23.0 1.7E+02 0.0037 25.7 4.7 34 20-53 157-191 (1009)
142 PRK15127 multidrug efflux syst 22.9 1.6E+02 0.0034 25.7 4.4 54 19-72 698-758 (1049)
143 PF09122 DUF1930: Domain of un 22.8 1.4E+02 0.0031 17.8 3.0 42 7-48 20-62 (68)
144 PF04324 Fer2_BFD: BFD-like [2 22.7 34 0.00074 18.6 0.3 17 12-28 36-52 (55)
145 TIGR02024 FtcD glutamate formi 22.7 3.5E+02 0.0076 20.6 7.2 58 8-65 183-249 (298)
146 COG4545 Glutaredoxin-related p 22.7 46 0.001 20.7 0.9 14 13-26 9-22 (85)
147 PF03434 DUF276: DUF276 ; Int 22.4 1.4E+02 0.0031 22.4 3.6 28 20-47 89-116 (291)
148 PF13721 SecD-TM1: SecD export 22.3 2.1E+02 0.0045 17.9 4.9 47 21-70 49-95 (101)
149 PRK09577 multidrug efflux prot 22.1 2.1E+02 0.0045 24.9 5.0 34 20-53 62-97 (1032)
150 cd06497 ACD_alphaA-crystallin_ 22.1 85 0.0019 18.8 2.1 23 29-51 17-41 (86)
151 PF02682 AHS1: Allophanate hyd 21.9 2.9E+02 0.0062 19.3 5.1 48 16-66 23-72 (202)
152 cd06470 ACD_IbpA-B_like Alpha- 21.5 88 0.0019 18.7 2.1 26 29-54 18-45 (90)
153 PF00712 DNA_pol3_beta: DNA po 21.0 2.1E+02 0.0045 17.8 3.8 31 20-50 72-102 (120)
154 COG0841 AcrB Cation/multidrug 21.0 1.5E+02 0.0033 26.0 4.0 38 19-56 62-101 (1009)
155 KOG1960 Predicted RNA-binding 21.0 1.7E+02 0.0037 23.7 4.0 36 18-53 155-191 (531)
156 cd06476 ACD_HspB2_like Alpha c 20.9 90 0.002 18.7 2.0 24 29-52 14-39 (83)
157 PRK10329 glutaredoxin-like pro 20.9 1.7E+02 0.0037 17.1 3.2 27 13-41 8-34 (81)
158 TIGR00401 msrA methionine-S-su 20.8 2.8E+02 0.006 18.7 5.9 46 17-63 7-71 (149)
159 cd06478 ACD_HspB4-5-6 Alpha-cr 20.7 1E+02 0.0023 18.2 2.2 23 29-51 14-38 (83)
160 TIGR03527 selenium_YedF seleni 20.7 1.5E+02 0.0033 20.7 3.3 19 13-31 5-23 (194)
161 PF11113 Phage_head_chap: Head 20.6 1.9E+02 0.0041 16.7 4.2 31 37-67 21-51 (56)
162 cd06479 ACD_HspB7_like Alpha c 20.5 97 0.0021 18.6 2.1 23 29-51 15-39 (81)
163 PRK09579 multidrug efflux prot 20.4 2.7E+02 0.0059 24.2 5.3 34 20-53 64-99 (1017)
164 cd03482 MutL_Trans_MutL MutL_T 20.0 1.1E+02 0.0023 19.5 2.3 32 36-68 91-122 (123)
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=99.62 E-value=5.4e-15 Score=85.37 Aligned_cols=57 Identities=23% Similarity=0.475 Sum_probs=50.4
Q ss_pred EEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhh
Q 034782 9 ILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKN 66 (83)
Q Consensus 9 ~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~ 66 (83)
+|.| ||+|++|+++|+++|.++|||.++.+|+.+++++|.++.+. ...++|.+.+.+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~-~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDK-TSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTT-SCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCC-CCHHHHHHHHHH
Confidence 5788 99999999999999999999999999999999999999666 555677666654
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.51 E-value=1.3e-13 Score=82.94 Aligned_cols=59 Identities=15% Similarity=0.368 Sum_probs=49.9
Q ss_pred EEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhh
Q 034782 6 QEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVK 65 (83)
Q Consensus 6 ~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~ 65 (83)
....|.+ ||+|+||+.+|+++|.+++||.+|++|+..+++.|+++ +...+.++|.+.+.
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d-~~~~~~~~i~~ai~ 61 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFD-SNKVDIEAIIEAIE 61 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEc-CCcCCHHHHHHHHH
Confidence 4567888 99999999999999999999999999999999999998 54455555555543
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.32 E-value=6.9e-12 Score=75.57 Aligned_cols=61 Identities=16% Similarity=0.367 Sum_probs=53.5
Q ss_pred CceEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHh
Q 034782 3 SLSQEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 3 ~~~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~ 63 (83)
+..+..++.++|||++|+.+|++.|..++||.++++|..+++++|.++.++....+++.+.
T Consensus 2 ~~~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~ 62 (73)
T KOG1603|consen 2 PPIKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKT 62 (73)
T ss_pred CCccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhc
Confidence 4566788999999999999999999999999999999999999999998887555555553
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.04 E-value=5.6e-10 Score=80.20 Aligned_cols=62 Identities=16% Similarity=0.297 Sum_probs=56.2
Q ss_pred EEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhhc
Q 034782 6 QEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKNN 67 (83)
Q Consensus 6 ~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~ 67 (83)
-+++|.|.|+|++|+..|+.+|..++||++|+||+.++.|.|.+..|+.+.+..++...+..
T Consensus 7 ~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~A 68 (247)
T KOG4656|consen 7 YEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDA 68 (247)
T ss_pred eeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChhe
Confidence 46889999999999999999999999999999999999999999999998888887665443
No 5
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.60 E-value=1.1e-07 Score=77.86 Aligned_cols=55 Identities=24% Similarity=0.418 Sum_probs=43.9
Q ss_pred ceEEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHH
Q 034782 4 LSQEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKA 60 (83)
Q Consensus 4 ~~~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i 60 (83)
|+++++|+| ||+|++|+.+|+++|.++|||.++++|+. +.+|+++.+.+.....+
T Consensus 1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i 56 (834)
T PRK10671 1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETI 56 (834)
T ss_pred CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHH
Confidence 346889999 99999999999999999999999999994 56666654444333333
No 6
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.45 E-value=6.5e-07 Score=73.19 Aligned_cols=47 Identities=23% Similarity=0.542 Sum_probs=43.2
Q ss_pred EEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc
Q 034782 6 QEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 6 ~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~ 53 (83)
.+..|.+ ||+|..|+.+|| +|.++|||.++.||+.++++.|.++...
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~ 49 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEE 49 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccc
Confidence 4577899 999999999999 9999999999999999999999998543
No 7
>PLN02957 copper, zinc superoxide dismutase
Probab=98.40 E-value=1.9e-06 Score=61.97 Aligned_cols=51 Identities=20% Similarity=0.339 Sum_probs=45.0
Q ss_pred ceEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc
Q 034782 4 LSQEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE 54 (83)
Q Consensus 4 ~~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~ 54 (83)
..+++.|.++|+|++|+.+|++.|.+++||..+.+|+.+++++|.++.+..
T Consensus 4 ~~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~ 54 (238)
T PLN02957 4 PELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVK 54 (238)
T ss_pred CcEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHH
Confidence 356778889999999999999999999999999999999999999854333
No 8
>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=98.08 E-value=7.7e-05 Score=39.19 Aligned_cols=45 Identities=16% Similarity=0.490 Sum_probs=41.0
Q ss_pred EEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecC
Q 034782 7 EVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKS 51 (83)
Q Consensus 7 ~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~ 51 (83)
+..+.+ +|+|..|+..+++.+...+++....+++..+.+.+.++.
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDA 48 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCC
Confidence 346888 999999999999999999999999999999999999873
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.79 E-value=6.1e-05 Score=63.16 Aligned_cols=58 Identities=19% Similarity=0.442 Sum_probs=50.0
Q ss_pred EEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhh
Q 034782 6 QEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGV 64 (83)
Q Consensus 6 ~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~ 64 (83)
+.+.|.| ||.|.+|..+|++.|.+++||.++.+++.++++.|.++ +.....+++.+.+
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~-~~~~~pr~i~k~i 204 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYD-PEITGPRDIIKAI 204 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEec-ccccChHHHHHHH
Confidence 5788999 99999999999999999999999999999999999998 5555555554443
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.46 E-value=0.0002 Score=60.20 Aligned_cols=51 Identities=25% Similarity=0.483 Sum_probs=44.2
Q ss_pred eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhh
Q 034782 13 DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVK 65 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~ 65 (83)
||+|..|...+++++...+|+.+++|++.+++.+|.|+ ...+.+.+++.+.
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~--~~~~~~~i~~~ie 52 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYD--NIVSPESIKETIE 52 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEe--eccCHHHHHHHhh
Confidence 89999999999999999999999999999999999998 5555555555543
No 11
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.45 E-value=0.00041 Score=56.83 Aligned_cols=48 Identities=17% Similarity=0.455 Sum_probs=43.0
Q ss_pred eEEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCC
Q 034782 5 SQEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 5 ~~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~ 52 (83)
.++..+.+ ||+|++|+..+++.+.+++||.++.+++.++++.+.++.+
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~ 100 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADND 100 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEeccc
Confidence 34567888 9999999999999999999999999999999999988643
No 12
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.35 E-value=0.00061 Score=56.16 Aligned_cols=44 Identities=23% Similarity=0.417 Sum_probs=40.2
Q ss_pred EEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEec
Q 034782 7 EVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYK 50 (83)
Q Consensus 7 ~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~ 50 (83)
++.+.+ ||+|.+|+..+++.+.+++||.++.+|+..+++.+.+.
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~ 144 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGS 144 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEcc
Confidence 467888 99999999999999999999999999999999888753
No 13
>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=94.36 E-value=0.5 Score=26.88 Aligned_cols=44 Identities=25% Similarity=0.495 Sum_probs=37.4
Q ss_pred EEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEec
Q 034782 7 EVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYK 50 (83)
Q Consensus 7 ~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~ 50 (83)
...+.+ +++|.+|...++..+...+|+....++.......+.++
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFD 68 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEEC
Confidence 345667 89999999999999999999988899999888777754
No 14
>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=92.19 E-value=0.31 Score=28.36 Aligned_cols=32 Identities=25% Similarity=0.479 Sum_probs=22.8
Q ss_pred EEEEEeeccChhHH------HHHHHHhhcCCCeeEEEE
Q 034782 7 EVILAADLRCDRCQ------DRIANAISRVNDVESMEV 38 (83)
Q Consensus 7 ~~~l~V~M~C~~C~------~~V~~aL~~i~GV~~V~v 38 (83)
++.|.+.+..++|. ..|+++|..++||.+|+|
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 45666667777775 778899999999999876
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=90.40 E-value=1.2 Score=34.88 Aligned_cols=41 Identities=24% Similarity=0.506 Sum_probs=36.9
Q ss_pred EEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEec
Q 034782 10 LAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYK 50 (83)
Q Consensus 10 l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~ 50 (83)
+.+ +|+|.+|...++..+...+++....+++..+.+.+.++
T Consensus 4 i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~ 45 (561)
T PRK13748 4 LKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIE 45 (561)
T ss_pred EEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEEC
Confidence 456 89999999999999999999999999999999888865
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=90.05 E-value=1.1 Score=20.58 Aligned_cols=38 Identities=29% Similarity=0.591 Sum_probs=32.3
Q ss_pred eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEec
Q 034782 13 DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYK 50 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~ 50 (83)
++.|..|...++..+...+|+.....++......+.++
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 43 (63)
T cd00371 6 GMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYD 43 (63)
T ss_pred CeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEEC
Confidence 78999999999999988899887788888777777664
No 17
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=85.61 E-value=3.3 Score=30.58 Aligned_cols=51 Identities=14% Similarity=0.235 Sum_probs=36.1
Q ss_pred HHHHHHHhhcCCCeeEE--EEEcc------------CCEEEEEecCCc--ccchHHHHHhhhhcccc
Q 034782 20 QDRIANAISRVNDVESM--EVLVS------------EKKVILTYKSAS--EESSGKAAVGVKNNQSN 70 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V--~vdl~------------~~~V~V~~~~~~--~~~~~~i~~~~~~~~~~ 70 (83)
++.+++.|++||||-++ .|.++ +..|-+.++++. +.-..+|+..++++..|
T Consensus 111 eQ~le~tLs~mDGVi~ArV~I~lp~~~~~g~~~~P~saSVfIky~~~~nl~~~v~~IK~LV~nSv~g 177 (246)
T COG4669 111 EQQLEQTLSKMDGVISARVHISLPEDDDEGKNALPSSASVFIKYSPDVNLSIYVSQIKRLVANSVPG 177 (246)
T ss_pred HHHHHHHHHhcCceEEEEEEEEcCCCCccCCCCCCceeEEEEEecCCCChhHhHHHHHHHHHhccCC
Confidence 67899999999997755 55544 236777777555 45556778888887755
No 18
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=84.87 E-value=4.3 Score=28.20 Aligned_cols=53 Identities=23% Similarity=0.180 Sum_probs=38.8
Q ss_pred eEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCCE-------------------EEEEecCCcccchHHHHHh
Q 034782 5 SQEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEKK-------------------VILTYKSASEESSGKAAVG 63 (83)
Q Consensus 5 ~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~-------------------V~V~~~~~~~~~~~~i~~~ 63 (83)
++++.|. ++|==-++....+++||.++.+=...+. |.|.+| |..++.+.|-..
T Consensus 3 ~~~a~fa-----gGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yD-p~~isy~~Ll~~ 74 (172)
T PRK14054 3 METAVLA-----GGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYD-PAVISYRELLEL 74 (172)
T ss_pred ceEEEEE-----cCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEEC-CCcCCHHHHHHH
Confidence 3556665 5566667777888999999998777665 899998 666666666554
No 19
>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=84.61 E-value=4.6 Score=27.15 Aligned_cols=51 Identities=25% Similarity=0.354 Sum_probs=38.0
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc-----ccchHHHHHhhhhcc
Q 034782 18 RCQDRIANAISRVNDVESMEVLVSEKKVILTYKSAS-----EESSGKAAVGVKNNQ 68 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~-----~~~~~~i~~~~~~~~ 68 (83)
.=+.+|.+.+.+++||+++.|=...+.+.|-...+. +....+|++.+++..
T Consensus 75 ~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Vav~~~~~~~~~~~i~~~V~~~v~~~~ 130 (177)
T PF09580_consen 75 QLADRIANRVKKVPGVEDATVVVTDDNAYVAVDLDFNRFNTKKIKKKVEKAVKSAD 130 (177)
T ss_pred HHHHHHHHHHhcCCCceEEEEEEECCEEEEEEEecccccchhHHHHHHHHHHHHhC
Confidence 447889999999999999999999999988777662 233344555555544
No 20
>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=81.44 E-value=2.2 Score=23.83 Aligned_cols=47 Identities=19% Similarity=0.213 Sum_probs=29.3
Q ss_pred HHHHHHhhc---CCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhhcc
Q 034782 21 DRIANAISR---VNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQ 68 (83)
Q Consensus 21 ~~V~~aL~~---i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~ 68 (83)
.+|.+.|.. +++- .+.+....+.|++.|..+.......+..+.++..
T Consensus 2 ~~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v~s~~~~~~a~~~a~~v~ 51 (64)
T PF04972_consen 2 TKVRAALRADPWLPDS-NISVSVENGVVTLSGEVPSQEQRDAAERLARSVA 51 (64)
T ss_dssp -----------CTT-T-TEEEEEECTEEEEEEEESSCHHHHHHHHHHHCC-
T ss_pred cccccccccccccCCC-eEEEEEECCEEEEEeeCcHHHHHHhHHhhhccCC
Confidence 356666665 4554 6889999999999999998888887777766443
No 21
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=81.21 E-value=9 Score=24.49 Aligned_cols=62 Identities=15% Similarity=0.170 Sum_probs=37.7
Q ss_pred CCCceEEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEcc-------CCEEEEEecCCc-ccchHHHHH
Q 034782 1 MASLSQEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVS-------EKKVILTYKSAS-EESSGKAAV 62 (83)
Q Consensus 1 ~~~~~~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~-------~~~V~V~~~~~~-~~~~~~i~~ 62 (83)
||+-...++|.+ .-+-+--.-.+.+.|++++||+.|.+.+. .=+++|+++.-. +...+.|++
T Consensus 1 ~~~~iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~ 71 (97)
T COG1888 1 MMKGIRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEE 71 (97)
T ss_pred CCccceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHH
Confidence 566677777877 33333446677888899999887755433 336777776322 433344443
No 22
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=80.22 E-value=2.7 Score=29.21 Aligned_cols=51 Identities=20% Similarity=0.294 Sum_probs=32.4
Q ss_pred EEEEEeeccChhHH------HHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhh
Q 034782 7 EVILAADLRCDRCQ------DRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKN 66 (83)
Q Consensus 7 ~~~l~V~M~C~~C~------~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~ 66 (83)
.+.+.+.+..++|. ..|+++|..++||.+|+|+ +.++++ |+..++.+..+.
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~-------l~~dp~--W~~~~~s~~ar~ 170 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVE-------LVFDPP--WSREMMSEAAKL 170 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEE-------EEecCC--CChHHCCHHHHH
Confidence 45566666666665 4589999999999988664 445544 445555444443
No 23
>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=79.78 E-value=2.4 Score=26.00 Aligned_cols=21 Identities=29% Similarity=0.357 Sum_probs=16.9
Q ss_pred HHHHHHhhcCCCeeEEEEEcc
Q 034782 21 DRIANAISRVNDVESMEVLVS 41 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~ 41 (83)
..++++|..++|+++|++++.
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEE
Confidence 457888999999998888754
No 24
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=77.91 E-value=11 Score=23.44 Aligned_cols=46 Identities=7% Similarity=0.027 Sum_probs=32.8
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc-cchHHHHH
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE-ESSGKAAV 62 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~-~~~~~i~~ 62 (83)
+.=...|.+.|..+||++--..|..++++.|+-+.+.. .....+..
T Consensus 16 Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~ 62 (87)
T PRK10553 16 SERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIES 62 (87)
T ss_pred hHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHH
Confidence 34478899999999999755566778898888876663 33344443
No 25
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=76.59 E-value=11 Score=27.77 Aligned_cols=50 Identities=16% Similarity=0.217 Sum_probs=31.8
Q ss_pred HHHHHHHhhcCCCeeEEEEEcc-------------CCEEEEEecCCcccchH--HHHHhhhhccc
Q 034782 20 QDRIANAISRVNDVESMEVLVS-------------EKKVILTYKSASEESSG--KAAVGVKNNQS 69 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~-------------~~~V~V~~~~~~~~~~~--~i~~~~~~~~~ 69 (83)
+..+++.|..++||.+++|++. +..|.|++.+....... .|...+.++..
T Consensus 109 egELarTI~~idgV~~ArVhL~lP~~~~~~~~~~asASV~I~~~~~~~~~~~~v~I~~LVA~SV~ 173 (249)
T PRK15348 109 EQRIEGMLSQMEGVINAKVTIALPTYDEGSNASPSSVAVFIKYSPQVNMEAFRVKIKDLIEMSIP 173 (249)
T ss_pred HHHHHHHHHhCCCeeEeEEEEECCCCCcccCCCCccEEEEEEeCCCCChHHHHHHHHHHHHHhcC
Confidence 5789999999999998888654 34566666543322222 34555555543
No 26
>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=76.35 E-value=13 Score=22.37 Aligned_cols=35 Identities=23% Similarity=0.316 Sum_probs=26.6
Q ss_pred HHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc
Q 034782 19 CQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE 54 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~ 54 (83)
=...|.++|.++||++--..+.. +++.|+-+.+..
T Consensus 16 ~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~ 50 (79)
T PF03927_consen 16 RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESS 50 (79)
T ss_dssp CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSH
T ss_pred hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCCh
Confidence 35789999999999964455555 888888887664
No 27
>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=76.12 E-value=12 Score=21.08 Aligned_cols=33 Identities=18% Similarity=0.321 Sum_probs=24.6
Q ss_pred EEEEEEeeccChh-HHHHHHHHhhcCCCeeEEEE
Q 034782 6 QEVILAADLRCDR-CQDRIANAISRVNDVESMEV 38 (83)
Q Consensus 6 ~~~~l~V~M~C~~-C~~~V~~aL~~i~GV~~V~v 38 (83)
..+.|.+..+-.. --..+-+.|+++|||.+|++
T Consensus 41 ~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 41 ANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 3455555555554 77889999999999999875
No 28
>PRK11023 outer membrane lipoprotein; Provisional
Probab=75.70 E-value=8.4 Score=26.74 Aligned_cols=53 Identities=25% Similarity=0.257 Sum_probs=40.8
Q ss_pred ccChhHHHHHHHHhhcCCCee---EEEEEccCCEEEEEecCCcccchHHHHHhhhh
Q 034782 14 LRCDRCQDRIANAISRVNDVE---SMEVLVSEKKVILTYKSASEESSGKAAVGVKN 66 (83)
Q Consensus 14 M~C~~C~~~V~~aL~~i~GV~---~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~ 66 (83)
+....=..+|+.+|..-+++. .+.|+...+.|++.|..+.+....++.++.++
T Consensus 45 ~dD~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~~ia~~ 100 (191)
T PRK11023 45 VDDGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAKQIAMG 100 (191)
T ss_pred ehhHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHHHHHhc
Confidence 445556788999998777663 68999999999999999998766666665544
No 29
>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=74.67 E-value=15 Score=22.52 Aligned_cols=55 Identities=9% Similarity=0.138 Sum_probs=41.7
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhhcccccc
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQSNKA 72 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~~~~~ 72 (83)
.-|...+...=..+. +.+++..+..+++++-|..+..+.-+.+.+-+...++..|
T Consensus 29 ~~c~~~~~~~~L~m~-lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~f~~RI 83 (88)
T PF04468_consen 29 KFCRELVKELGLPMK-LVDVEYQFDGSKLTFYYTAESRVDFRELVRDLAREFKTRI 83 (88)
T ss_pred HHHHHHHHHcCCCeE-EEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHHhCceE
Confidence 356666666433333 6689999999999999998888888888888888775543
No 30
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=72.48 E-value=12 Score=26.34 Aligned_cols=53 Identities=19% Similarity=0.104 Sum_probs=35.6
Q ss_pred eEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCCE-------------------EEEEecCCcccchHHHHHh
Q 034782 5 SQEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEKK-------------------VILTYKSASEESSGKAAVG 63 (83)
Q Consensus 5 ~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~-------------------V~V~~~~~~~~~~~~i~~~ 63 (83)
++++.|. +-|== -++....+++||.++++=...+. |.|.+| |..++.+.|-..
T Consensus 8 ~~~a~~a--gGCFW---g~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yD-p~~iSy~~LL~~ 79 (186)
T PRK13014 8 METATFA--GGCFW---GVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYD-PKQVSYENLLQI 79 (186)
T ss_pred ccEEEEe--cCCce---eeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEEC-CCcCCHHHHHHH
Confidence 4555554 44444 45666678899999998776664 889998 555666665544
No 31
>PRK11018 hypothetical protein; Provisional
Probab=72.03 E-value=11 Score=22.41 Aligned_cols=28 Identities=11% Similarity=0.135 Sum_probs=23.8
Q ss_pred ceEEEEEEe-eccChhHHHHHHHHhhcCC
Q 034782 4 LSQEVILAA-DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 4 ~~~~~~l~V-~M~C~~C~~~V~~aL~~i~ 31 (83)
+....++.+ |+.|+.-.-+.+++|.+++
T Consensus 5 ~~~~~~lD~rG~~CP~Pvl~~kk~l~~l~ 33 (78)
T PRK11018 5 IVPDYRLDMVGEPCPYPAVATLEALPQLK 33 (78)
T ss_pred CCCCeeEECCCCcCCHHHHHHHHHHHhCC
Confidence 344567888 9999999999999999886
No 32
>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=71.43 E-value=8.9 Score=23.55 Aligned_cols=46 Identities=13% Similarity=0.143 Sum_probs=28.8
Q ss_pred HHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc--ccchHHHHHhhhhcc
Q 034782 21 DRIANAISRVNDVESMEVLVSEKKVILTYKSAS--EESSGKAAVGVKNNQ 68 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~--~~~~~~i~~~~~~~~ 68 (83)
.-+.+.|-+++||.+|- +..+=|+|+-+.+. +.....|...+.+.+
T Consensus 37 spLA~~Lf~i~gV~~Vf--~~~dfItVtK~~~~~W~~l~~~I~~~I~~~l 84 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVF--IGDDFITVTKNPDADWEDLKPEIREVIMEFL 84 (87)
T ss_dssp -HHHHHHHTSTTEEEEE--EETTEEEEEE-TTS-HHHHHHHHHHHTH---
T ss_pred CHHHHHhcCCCCEeEEE--EECCEEEEeeCCCCCHHHHHHHHHHHHhhhc
Confidence 45667777999999664 45667888766544 555666777777665
No 33
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=70.94 E-value=21 Score=24.96 Aligned_cols=21 Identities=29% Similarity=0.490 Sum_probs=17.7
Q ss_pred HHHHHHHhhcCCCeeEEEEEc
Q 034782 20 QDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl 40 (83)
...+++.|..++||++++|++
T Consensus 109 e~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 109 EQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHhcCCeeeeEEEE
Confidence 467889999999999888765
No 34
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=70.80 E-value=21 Score=24.40 Aligned_cols=46 Identities=11% Similarity=-0.052 Sum_probs=31.9
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCC--------------EEEEEecCCcccchHHHHHh
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEK--------------KVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~--------------~V~V~~~~~~~~~~~~i~~~ 63 (83)
++|==-++....+++||.++++=...+ .|.|.+| |..++.++|-++
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yD-p~~isy~~LL~~ 67 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFD-PRMVSITDLMGY 67 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEEC-CCcCCHHHHHHH
Confidence 455555677778889999998865543 3888998 566666666554
No 35
>PF01514 YscJ_FliF: Secretory protein of YscJ/FliF family; InterPro: IPR006182 This domain is found in proteins that are related to the YscJ lipoprotein, where it covers most of the sequence, and the flagellar M-ring protein FliF, where it covers the N-terminal region. The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flagellar proteins, based on the similarity to YscJ proteins [].; PDB: 1YJ7_A 2Y9J_d.
Probab=70.67 E-value=15 Score=25.82 Aligned_cols=49 Identities=24% Similarity=0.276 Sum_probs=30.1
Q ss_pred HHHHHHHhhcCCCeeEEEEEc--------------cCCEEEEEecCCcccc--hHHHHHhhhhcc
Q 034782 20 QDRIANAISRVNDVESMEVLV--------------SEKKVILTYKSASEES--SGKAAVGVKNNQ 68 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl--------------~~~~V~V~~~~~~~~~--~~~i~~~~~~~~ 68 (83)
...+++.|+.++||++++|++ .+..|.++........ ...|..++..+-
T Consensus 117 e~eL~~tI~~i~gV~~A~V~l~~Pe~~~f~~~~~~~sASV~l~~~~g~~l~~qv~~I~~LVa~sV 181 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVHLVLPERSVFGENQQPPSASVVLKLKPGSELSEQVQGIQNLVASSV 181 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEEEEE----BTTB----EEEEEEEEE-TTS--GGGHHHHHHHHHHHS
T ss_pred HHHHHHHHHcCCCeeEEEEEEecCCccccccCCCCCeEEEEEEECCCCChHHHHHHHHHHHHHhc
Confidence 467899999999999998873 2335677776555444 222344444444
No 36
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=67.70 E-value=11 Score=24.54 Aligned_cols=21 Identities=29% Similarity=0.509 Sum_probs=17.5
Q ss_pred HHHHHHHhhcCCCeeEEEEEc
Q 034782 20 QDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl 40 (83)
...++.++..++||++++|++
T Consensus 69 ~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 69 ADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred HHHHHHHHHhcCCcceEEEEE
Confidence 568999999999999887643
No 37
>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=67.15 E-value=15 Score=20.83 Aligned_cols=23 Identities=17% Similarity=0.221 Sum_probs=19.3
Q ss_pred EEEe-eccChhHHHHHHHHhhcCC
Q 034782 9 ILAA-DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 9 ~l~V-~M~C~~C~~~V~~aL~~i~ 31 (83)
++.+ |+.|+...-++.++|.+++
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~ 25 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELP 25 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSG
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcC
Confidence 4566 9999999999999999875
No 38
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=65.49 E-value=29 Score=25.04 Aligned_cols=52 Identities=15% Similarity=0.045 Sum_probs=36.0
Q ss_pred EEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCC-------------------EEEEEecCCcccchHHHHHh
Q 034782 6 QEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEK-------------------KVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 6 ~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~-------------------~V~V~~~~~~~~~~~~i~~~ 63 (83)
+.+.|. ++|==-++....+++||.++.+=...+ -|.|+|| +..++.+.|-.+
T Consensus 46 ~~a~fa-----gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YD-p~~ISy~~LL~~ 116 (213)
T PRK00058 46 EQAIFG-----MGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYD-PAVISYEQLLQV 116 (213)
T ss_pred cEEEEE-----ccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEEC-CccCCHHHHHHH
Confidence 455554 555556677778889999999877733 3889998 555666666544
No 39
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=65.29 E-value=14 Score=31.78 Aligned_cols=48 Identities=17% Similarity=0.273 Sum_probs=36.9
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc----ccchHHHHHhhhhc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVILTYKSAS----EESSGKAAVGVKNN 67 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~----~~~~~~i~~~~~~~ 67 (83)
+..++..|+++|||.+|+++-...++.|..|.+. -.+..++...++..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 4678999999999999999876677888887544 35666777776654
No 40
>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=64.38 E-value=26 Score=24.02 Aligned_cols=36 Identities=17% Similarity=0.280 Sum_probs=31.5
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc
Q 034782 18 RCQDRIANAISRVNDVESMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~ 53 (83)
.=+.+|.+.+.++|||.++.+=.....+.|-.+.+.
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vgv~~~~ 89 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVGVDLTN 89 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEEEEcCC
Confidence 457889999999999999999999999999887664
No 41
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=62.76 E-value=17 Score=23.20 Aligned_cols=39 Identities=13% Similarity=0.227 Sum_probs=27.0
Q ss_pred hcCCCeeEEEEEccCCEEEEEec-CCcccchHHHHHhhhh
Q 034782 28 SRVNDVESMEVLVSEKKVILTYK-SASEESSGKAAVGVKN 66 (83)
Q Consensus 28 ~~i~GV~~V~vdl~~~~V~V~~~-~~~~~~~~~i~~~~~~ 66 (83)
...||++.+++++.++++.|++. ...+...-++.+.+..
T Consensus 37 as~pgis~ieik~E~kkL~v~t~~~~~d~~~l~~~ktynd 76 (96)
T COG4004 37 ASSPGISRIEIKPENKKLLVNTTDYTDDETKLQTAKTYND 76 (96)
T ss_pred EecCCceEEEEecccceEEEecccccCchhHHHHHHHHHH
Confidence 45799999999999999999883 2223444445544433
No 42
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=61.54 E-value=35 Score=22.46 Aligned_cols=48 Identities=8% Similarity=0.197 Sum_probs=38.5
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhhcc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQ 68 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~ 68 (83)
-..+++.+.++ |-.+|+.-+.++-|..+.+.+.+....+|++.+.+.+
T Consensus 21 MaeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~f 68 (137)
T PF08002_consen 21 MAELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERF 68 (137)
T ss_dssp HHHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhc
Confidence 45677777777 7899999999999999988777888889999988887
No 43
>PRK09577 multidrug efflux protein; Reviewed
Probab=61.38 E-value=16 Score=31.44 Aligned_cols=48 Identities=15% Similarity=0.181 Sum_probs=34.6
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc----ccchHHHHHhhhhc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVILTYKSAS----EESSGKAAVGVKNN 67 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~----~~~~~~i~~~~~~~ 67 (83)
+..++..|.++|||.+|+++-.+.++.|..|... -.+..++...++..
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~ 209 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAH 209 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 4679999999999999999887777777655333 24555666665553
No 44
>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=60.23 E-value=13 Score=25.04 Aligned_cols=51 Identities=16% Similarity=0.229 Sum_probs=28.9
Q ss_pred EEEEeeccChhHH------HHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhhcc
Q 034782 8 VILAADLRCDRCQ------DRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQ 68 (83)
Q Consensus 8 ~~l~V~M~C~~C~------~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~ 68 (83)
+.+.+.++-.+|. ..|+++|..+ |+.+|+|+ +.+ ++.+++..|.+..++.|
T Consensus 27 V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~-------i~~--~p~Wt~d~it~~gr~~l 83 (146)
T TIGR02159 27 VVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVS-------TSL--DPPWTTDWITEDAREKL 83 (146)
T ss_pred EEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEe-------Eee--CCCCChHHCCHHHHHHH
Confidence 4445555555554 3477888776 77766553 333 45555556655555554
No 45
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=59.05 E-value=33 Score=19.72 Aligned_cols=32 Identities=16% Similarity=0.275 Sum_probs=24.3
Q ss_pred EEEEEEeeccChhHHHHHHHHhhcCCCeeEEE
Q 034782 6 QEVILAADLRCDRCQDRIANAISRVNDVESME 37 (83)
Q Consensus 6 ~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~ 37 (83)
..+.|.+...-..=-..+-+.|+++|||.+|+
T Consensus 48 ~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 48 ARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 35556666666666778888999999998874
No 46
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=58.38 E-value=25 Score=23.35 Aligned_cols=47 Identities=26% Similarity=0.320 Sum_probs=31.8
Q ss_pred HHHHHHHhhcCC-CeeEEEEEccCCEEEEEecCCcccchHHHHHhhhh
Q 034782 20 QDRIANAISRVN-DVESMEVLVSEKKVILTYKSASEESSGKAAVGVKN 66 (83)
Q Consensus 20 ~~~V~~aL~~i~-GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~ 66 (83)
...|.++|.+.. +...+.|....+.|++.+..+.+....++.....+
T Consensus 28 ~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~~~~aa~~ 75 (147)
T PRK11198 28 ADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEKILLAVGN 75 (147)
T ss_pred HHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHHHHHHhcc
Confidence 456666675432 35556777789999999998877666666555443
No 47
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=57.68 E-value=12 Score=23.37 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=19.7
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEc
Q 034782 18 RCQDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl 40 (83)
+-...++.++++++||+++++.-
T Consensus 62 g~td~lee~i~~ve~V~svev~~ 84 (88)
T TIGR00489 62 GGTEAAEESLSGIEGVESVEVTD 84 (88)
T ss_pred cChHHHHHHHhcCCCccEEEEEE
Confidence 44689999999999999998753
No 48
>PRK10568 periplasmic protein; Provisional
Probab=56.33 E-value=36 Score=23.81 Aligned_cols=52 Identities=15% Similarity=0.178 Sum_probs=36.2
Q ss_pred ccChhHHHHHHHHhhcCCCee--EEEEEccCCEEEEEecCCcccchHHHHHhhh
Q 034782 14 LRCDRCQDRIANAISRVNDVE--SMEVLVSEKKVILTYKSASEESSGKAAVGVK 65 (83)
Q Consensus 14 M~C~~C~~~V~~aL~~i~GV~--~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~ 65 (83)
++...=..+|+.+|..-+++. .+.|....+.|++.|..+.+...+++..+.+
T Consensus 56 ~~D~~I~~~v~~~L~~~~~i~~~~I~V~v~~G~V~L~G~V~s~~~~~~a~~ia~ 109 (203)
T PRK10568 56 MDDSAITAKVKAALVDHDNIKSTDISVKTHQKVVTLSGFVESQAQAEEAVKVAK 109 (203)
T ss_pred ccHHHHHHHHHHHHHhCCCCCCCceEEEEECCEEEEEEEeCCHHHHHHHHHHHH
Confidence 455556777888877655543 6778888889999998887666555555443
No 49
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=56.23 E-value=22 Score=30.67 Aligned_cols=47 Identities=13% Similarity=0.246 Sum_probs=36.5
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc----ccchHHHHHhhhh
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVILTYKSAS----EESSGKAAVGVKN 66 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~----~~~~~~i~~~~~~ 66 (83)
...++..|+++|||.+|++.-...++.|+.|.+. -.+..++...++.
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~dV~~~i~~ 209 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFGSQYAMRIWLDPAKLNSYQLTPADVISAIQA 209 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 3569999999999999999888777888887544 3566667666665
No 50
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=55.63 E-value=48 Score=24.86 Aligned_cols=46 Identities=13% Similarity=0.055 Sum_probs=31.7
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCC-------------------EEEEEecCCcccchHHHHHh
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEK-------------------KVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~-------------------~V~V~~~~~~~~~~~~i~~~ 63 (83)
++|==-++....+++||.++.+=...+ -|.|++| +..++.++|-++
T Consensus 134 gGCFWg~E~~F~~~~GV~~t~vGYagG~~~nPtY~~VcsG~tgH~EaV~V~yD-p~~isy~~LL~~ 198 (283)
T PRK05550 134 GGCFWGVEYYFKKLPGVLSVESGYTGGDTKNPTYEQVCSGTTGHAEAVRVEFD-PAKISYETLLKV 198 (283)
T ss_pred cCCchhhhhhHhhCcCEEEEEEeeCCCCCCCCChhhcccCCCCCeEEEEEEEC-CccCCHHHHHHH
Confidence 455555666677889999998866544 3889998 555666666554
No 51
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=54.15 E-value=55 Score=20.87 Aligned_cols=47 Identities=15% Similarity=0.236 Sum_probs=30.2
Q ss_pred CceEEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEc-----cCC--EEEEEec
Q 034782 3 SLSQEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLV-----SEK--KVILTYK 50 (83)
Q Consensus 3 ~~~~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl-----~~~--~V~V~~~ 50 (83)
....+++|-| --|-++ .-.+...|.+++||..|.+.+ ... +++|+|+
T Consensus 2 ~~irRlVLDVlKP~~p~-i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~ 56 (95)
T PF02680_consen 2 AGIRRLVLDVLKPHEPS-IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGD 56 (95)
T ss_dssp -SEEEEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEES
T ss_pred CceeEEEEEeecCCCCC-HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeC
Confidence 3456677777 335444 677889999999998876543 333 4556665
No 52
>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=53.32 E-value=69 Score=21.72 Aligned_cols=47 Identities=23% Similarity=0.120 Sum_probs=33.0
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCC-------------------EEEEEecCCcccchHHHHHhh
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEK-------------------KVILTYKSASEESSGKAAVGV 64 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~-------------------~V~V~~~~~~~~~~~~i~~~~ 64 (83)
++|==-++....+++||.++.+=...+ -|.|++| +..++.+.|.+..
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG~~~~PtY~~v~~g~tgh~E~V~V~yD-~~~is~~~Ll~~f 72 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGGTTPNPTYRQVCSGRTGHAEAVRVTYD-PSVISYEELLDVF 72 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESSSSSS--HHHHHTTTTT-EEEEEEEEE-TTTS-HHHHHHHH
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCCCCCCCcceeeecCCCCCeEEEEEEEC-CCcccHHHHHHHH
Confidence 455556677788889999999876655 5888998 5556666665553
No 53
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=51.91 E-value=34 Score=29.16 Aligned_cols=56 Identities=11% Similarity=0.145 Sum_probs=42.7
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc------cchHHHHHhhhhcccccc
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE------ESSGKAAVGVKNNQSNKA 72 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~------~~~~~i~~~~~~~~~~~~ 72 (83)
..=+.++++.|+++||+.++..|...++-+++.+.+.+ .+.+++...++..+.|..
T Consensus 686 ~~~a~~v~~~l~~~pgv~dv~~~~~~~~~el~i~~dreka~~~Gls~~~va~~l~~a~~G~~ 747 (1021)
T PF00873_consen 686 RKAAEKVKAKLAEIPGVTDVRDDWEDGQPELRIDPDREKAARLGLSPADVARTLRTAFSGSV 747 (1021)
T ss_dssp HHHHHHHHHHHHHSTTEEEEEESSSSBEEEEEEEE-HHHHHHTTB-HHHHHHHHHHHHS-EE
T ss_pred HHHHHHHHHHHHhCCCcccccccccccCcceEEEecHHHHHHcCCCHHHHHHHHHHHhcccc
Confidence 34578899999999999999999999988888777652 566778888887776643
No 54
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=51.88 E-value=76 Score=22.31 Aligned_cols=54 Identities=15% Similarity=-0.002 Sum_probs=36.1
Q ss_pred ceEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCC-------------------EEEEEecCCcccchHHHHHh
Q 034782 4 LSQEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEK-------------------KVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 4 ~~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~-------------------~V~V~~~~~~~~~~~~i~~~ 63 (83)
.++++.|. +-|==| +++...++|||.++.+=...+ .|.|.+| +..++.++|-++
T Consensus 5 ~~~~a~fa--gGCFWg---~E~~f~~i~GV~~t~~GYagG~~~nptY~~Vcsg~TgHaE~V~V~yD-p~~isy~~LL~~ 77 (174)
T COG0225 5 GMEKAYFA--GGCFWG---VEAYFEQIPGVLSTVSGYAGGHTPNPTYEEVCSGTTGHAEAVEVTYD-PKVISYEELLEV 77 (174)
T ss_pred CcEEEEEe--ccCccc---hHHHHhhCCCeEEEeeeEcCCCCCCCChhhccCCCCCceEEEEEEeC-CccccHHHHHHH
Confidence 45667675 445444 566677789999998755443 4788887 666666666444
No 55
>PRK11670 antiporter inner membrane protein; Provisional
Probab=51.80 E-value=8.9 Score=29.23 Aligned_cols=36 Identities=6% Similarity=0.136 Sum_probs=24.7
Q ss_pred EEEEeeccChhHH------HHHHHHhhcCCCeeEEEEEccCC
Q 034782 8 VILAADLRCDRCQ------DRIANAISRVNDVESMEVLVSEK 43 (83)
Q Consensus 8 ~~l~V~M~C~~C~------~~V~~aL~~i~GV~~V~vdl~~~ 43 (83)
+.|.+.+.-+.|. ..++++|..++|+.++++++.++
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (369)
T PRK11670 49 LHIELVMPFVWNSAFEELKEQCSAELLRITGAKAIDWKLSHN 90 (369)
T ss_pred EEEEEEECCCCchHHHHHHHHHHHHHHhcCCCceEEEEEeee
Confidence 4455544444443 46899999999999888876653
No 56
>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=50.70 E-value=61 Score=20.38 Aligned_cols=44 Identities=18% Similarity=0.283 Sum_probs=28.6
Q ss_pred EEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCC
Q 034782 9 ILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 9 ~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~ 52 (83)
.+++ |++-+-+...|+..+.....|.-|++........|.+..+
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~ 47 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTP 47 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS-
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCc
Confidence 3555 6777777999999999999999999999999999999854
No 57
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=50.66 E-value=43 Score=20.08 Aligned_cols=25 Identities=20% Similarity=0.395 Sum_probs=22.4
Q ss_pred EEEEEe-eccChhHHHHHHHHhhcCC
Q 034782 7 EVILAA-DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 7 ~~~l~V-~M~C~~C~~~V~~aL~~i~ 31 (83)
..+|.+ |++|+.=...+.++|.+++
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~ 30 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLK 30 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCC
Confidence 557788 9999999999999999886
No 58
>PRK04435 hypothetical protein; Provisional
Probab=50.27 E-value=61 Score=21.54 Aligned_cols=33 Identities=18% Similarity=0.295 Sum_probs=24.3
Q ss_pred EEEEEEeeccCh-hHHHHHHHHhhcCCCeeEEEE
Q 034782 6 QEVILAADLRCD-RCQDRIANAISRVNDVESMEV 38 (83)
Q Consensus 6 ~~~~l~V~M~C~-~C~~~V~~aL~~i~GV~~V~v 38 (83)
..+.|.+...-. .....+-+.|++++||.+|++
T Consensus 110 a~vs~tVevs~~~~~L~~Li~~L~~i~gV~~V~i 143 (147)
T PRK04435 110 ANVTISIDTSSMEGDIDELLEKLRNLDGVEKVEL 143 (147)
T ss_pred EEEEEEEEeCChHHHHHHHHHHHHcCCCcEEEEE
Confidence 345566644433 378899999999999998875
No 59
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=49.08 E-value=17 Score=22.86 Aligned_cols=24 Identities=33% Similarity=0.425 Sum_probs=19.9
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEc
Q 034782 17 DRCQDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl 40 (83)
.+-..+++++|+.++||+++++.-
T Consensus 61 Eg~td~~ee~l~~vegV~sveve~ 84 (88)
T COG2092 61 EGGTDALEEALEEVEGVESVEVEN 84 (88)
T ss_pred ccCcHHHHHHHhhccCcceEEEEE
Confidence 344789999999999999998753
No 60
>smart00362 RRM_2 RNA recognition motif.
Probab=49.03 E-value=38 Score=17.49 Aligned_cols=39 Identities=15% Similarity=0.296 Sum_probs=32.8
Q ss_pred eccChhHHHHHHHHhhcCCCeeEEEEEccC----CEEEEEecC
Q 034782 13 DLRCDRCQDRIANAISRVNDVESMEVLVSE----KKVILTYKS 51 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~----~~V~V~~~~ 51 (83)
|+........|.+.+.....+..+.+.... +.+.|++..
T Consensus 6 ~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~ 48 (72)
T smart00362 6 NLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFES 48 (72)
T ss_pred CCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCC
Confidence 677777788999999998889988888776 788999974
No 61
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=48.19 E-value=42 Score=20.05 Aligned_cols=28 Identities=21% Similarity=0.313 Sum_probs=23.2
Q ss_pred ceEEEEEEe-eccChhHHHHHHHHhhcCC
Q 034782 4 LSQEVILAA-DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 4 ~~~~~~l~V-~M~C~~C~~~V~~aL~~i~ 31 (83)
+....++.+ |+.|+.=.-+++++|.+++
T Consensus 6 ~~~~~~lD~~Gl~CP~Pll~~kk~l~~l~ 34 (81)
T PRK00299 6 SSPDHTLDALGLRCPEPVMMVRKTVRNMQ 34 (81)
T ss_pred cCcCeEEecCCCCCCHHHHHHHHHHHcCC
Confidence 344566777 9999999999999999885
No 62
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=47.81 E-value=61 Score=22.14 Aligned_cols=41 Identities=15% Similarity=0.316 Sum_probs=31.3
Q ss_pred eEEEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEcc-CCEEE
Q 034782 5 SQEVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVS-EKKVI 46 (83)
Q Consensus 5 ~~~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~-~~~V~ 46 (83)
-..+++.| --.|+.|...|.....++ |+.++.|... ++++.
T Consensus 99 g~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~ 141 (146)
T PF14437_consen 99 GRSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVY 141 (146)
T ss_pred CCeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEE
Confidence 34677778 467999999998887765 6888888877 77544
No 63
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=47.65 E-value=20 Score=22.29 Aligned_cols=24 Identities=29% Similarity=0.387 Sum_probs=20.4
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEc
Q 034782 17 DRCQDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl 40 (83)
.+-...++.++++++||+++++.-
T Consensus 61 ~~~td~lee~i~~~e~Vqsvei~~ 84 (88)
T PRK00435 61 EGGTEPVEEAFANVEGVESVEVEE 84 (88)
T ss_pred CcCcHHHHHHHhccCCCcEEEEEE
Confidence 366789999999999999998753
No 64
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=47.55 E-value=37 Score=29.38 Aligned_cols=45 Identities=13% Similarity=0.195 Sum_probs=33.6
Q ss_pred HHHHHHhhcCCCeeEEEEEccCCEEEEEecCCc----ccchHHHHHhhh
Q 034782 21 DRIANAISRVNDVESMEVLVSEKKVILTYKSAS----EESSGKAAVGVK 65 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~----~~~~~~i~~~~~ 65 (83)
..++..|+++|||.+|++.-....+.|..|+.. -.+..++...++
T Consensus 160 ~~l~~~L~~v~GV~~V~~~G~~~ei~V~vDp~kl~~~gls~~~V~~~l~ 208 (1049)
T PRK15127 160 ANMKDPISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVINAIK 208 (1049)
T ss_pred HHHHHHHhcCCCceEEEEcCCceEEEEEeCHHHHHHcCCCHHHHHHHHH
Confidence 569999999999999998866667888877444 345556666655
No 65
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=46.89 E-value=33 Score=25.73 Aligned_cols=31 Identities=19% Similarity=0.258 Sum_probs=25.5
Q ss_pred EEEEeeccChhHHHHHHHHhhcCCCeeEEEEE
Q 034782 8 VILAADLRCDRCQDRIANAISRVNDVESMEVL 39 (83)
Q Consensus 8 ~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vd 39 (83)
+.+..+.+ ..|++.+++.+..+|||.++++-
T Consensus 63 vyL~~~~~-~~~~~~v~~~i~~~~gV~~v~~~ 93 (297)
T COG2177 63 VYLQIDAD-QDDAALVREKIEGIPGVKSVRFI 93 (297)
T ss_pred EEEecCCC-hHHHHHHHHHHhcCCCcceEEEe
Confidence 44555666 99999999999999999998873
No 66
>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium). This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=46.18 E-value=40 Score=29.06 Aligned_cols=52 Identities=10% Similarity=0.129 Sum_probs=35.6
Q ss_pred HHHHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc----ccchHHHHHhhhhcccc
Q 034782 19 CQDRIANAISRVNDVESMEVLVSEK--KVILTYKSAS----EESSGKAAVGVKNNQSN 70 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~----~~~~~~i~~~~~~~~~~ 70 (83)
=++++++.|..+||+.+|+.|...+ ++.|+.|.+. -.+..++...++..+.|
T Consensus 699 ~a~~v~~~l~~~pgv~~v~~~~~~~~~e~~i~id~~~~~~~Glt~~~v~~~l~~~~~g 756 (1051)
T TIGR00914 699 TAEKISAVLKGVPGAADVKVEQTTGLPYLTVEIDREKAARYGLTVGDVQDTVATAVGG 756 (1051)
T ss_pred HHHHHHHHHhcCCCceeeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhCC
Confidence 3678999999999999999987654 4555554322 25556666666666544
No 67
>PF10934 DUF2634: Protein of unknown function (DUF2634); InterPro: IPR020288 This entry is represented by the Bacteriophage EJ-1, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Bacteriophage EJ-1, Orf60 function has not been characterised. It has been shown to be simialr to XkdS (P54331 from SWISSPROT), which is encoded on a phage-like element (prophage) of PSBX found in Bacillus subtilis.
Probab=46.16 E-value=56 Score=20.85 Aligned_cols=35 Identities=14% Similarity=0.324 Sum_probs=28.1
Q ss_pred hhHHHHHHHHh---hcCCCeeEEEEEccCCEEEEEecC
Q 034782 17 DRCQDRIANAI---SRVNDVESMEVLVSEKKVILTYKS 51 (83)
Q Consensus 17 ~~C~~~V~~aL---~~i~GV~~V~vdl~~~~V~V~~~~ 51 (83)
..-.+.|++|| ..+.+|+++.++....++.|+++.
T Consensus 68 sEi~r~I~EaL~~d~rI~~V~~f~f~~~~~~l~v~f~V 105 (112)
T PF10934_consen 68 SEIEREIEEALLQDPRITSVENFSFEWEGDSLYVSFTV 105 (112)
T ss_pred HHHHHHHHHHHhcCCCcceEEEEEEEEECCEEEEEEEE
Confidence 34567889999 466678888999999999998875
No 68
>PF13193 AMP-binding_C: AMP-binding enzyme C-terminal domain; PDB: 3L8C_B 2VSQ_A 3R44_A 3RG2_B 3A9U_A 3A9V_A 3NI2_A 1V26_B 1ULT_B 1V25_B ....
Probab=45.22 E-value=31 Score=19.51 Aligned_cols=46 Identities=7% Similarity=0.086 Sum_probs=25.8
Q ss_pred HHHHHhhcCCCeeEEEEEcc----CCEEEEEecCCcccchHHHHHhhhhcccc
Q 034782 22 RIANAISRVNDVESMEVLVS----EKKVILTYKSASEESSGKAAVGVKNNQSN 70 (83)
Q Consensus 22 ~V~~aL~~i~GV~~V~vdl~----~~~V~V~~~~~~~~~~~~i~~~~~~~~~~ 70 (83)
.|+.+|.++|||.++-|=.. .+...+-+-.. ....|...+++.+.+
T Consensus 1 EIE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~---~~~~i~~~~~~~l~~ 50 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVL---DEEEIRDHLRDKLPP 50 (73)
T ss_dssp HHHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEE---HHHHHHHHHHHHS-G
T ss_pred CHHHHHhcCCCccEEEEEEEEcccccccceeEEEe---eecccccchhhhCCC
Confidence 38899999999988754222 22222222212 226666666666643
No 69
>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]
Probab=43.63 E-value=33 Score=30.11 Aligned_cols=63 Identities=17% Similarity=0.202 Sum_probs=42.9
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc------cchHHHHHhhhhccc----ccccccccccc
Q 034782 18 RCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE------ESSGKAAVGVKNNQS----NKAVKGTAWFP 80 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~------~~~~~i~~~~~~~~~----~~~~~~~~~~~ 80 (83)
.-+..|++.+..+||..+|.++..++.-.++-+.+.+ .....+.++++..+- |.+-.|.|.|+
T Consensus 686 ~la~qI~~~lk~v~Ga~dv~~E~~~g~~~l~I~~dReaaaRyGl~v~dv~~~v~tAlgG~~v~~v~~g~~rf~ 758 (1027)
T COG3696 686 ELAEQIEEVLKTVPGAVDVLAERQEGGPYLQIDPDREAAARYGLTVGDVQDVVKTALGGAVVGEVFEGIRRFP 758 (1027)
T ss_pred HHHHHHHHHHhcCcchhhheeeecCCceeEEEecCHHHHHHhCCCHHHHHHHHHHHhCCceeeeeeccceecc
Confidence 3467899999999999999999988866666655443 222334555555554 44556777775
No 70
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=43.52 E-value=21 Score=23.00 Aligned_cols=20 Identities=10% Similarity=0.416 Sum_probs=16.9
Q ss_pred eccChhHHHHHHHHhh--cCCC
Q 034782 13 DLRCDRCQDRIANAIS--RVND 32 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~--~i~G 32 (83)
...|..|+..+++.|. .++|
T Consensus 18 ~~qC~~cA~Al~~~L~~~gI~G 39 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQAGIPG 39 (100)
T ss_pred ceehHHHHHHHHHHHHHCCCCc
Confidence 5789999999999995 5565
No 71
>PRK05934 type III secretion system protein; Validated
Probab=43.44 E-value=72 Score=24.69 Aligned_cols=45 Identities=20% Similarity=0.191 Sum_probs=30.5
Q ss_pred HHHHHHHHhhcCCCeeEEEEEcc-----------CCEEEEEecCCcccchHHHHHh
Q 034782 19 CQDRIANAISRVNDVESMEVLVS-----------EKKVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl~-----------~~~V~V~~~~~~~~~~~~i~~~ 63 (83)
=...+++.|..++||++++|.+. +..|.++.......+..|+..+
T Consensus 72 LEGELaRTIesld~VesARVHLAlPe~s~~~~~pTASVvLtL~~G~tLs~~QV~gI 127 (341)
T PRK05934 72 KKEQLEKDLTMFHPVAQATVALSLETEDDPMSPAEISVILSLPKAETLSPSLLHSI 127 (341)
T ss_pred HHHHHHHHHHcccCcceeEEEEeCCCCCccCCCCceEEEEecCCCCcCCHHHHHHH
Confidence 35678889999999999998653 3346666664445566665443
No 72
>PRK03839 putative kinase; Provisional
Probab=42.92 E-value=19 Score=23.83 Aligned_cols=39 Identities=10% Similarity=0.012 Sum_probs=26.7
Q ss_pred EEEEEec-CCcccchHHHHHhhhhccccc---cccc------cccccCC
Q 034782 44 KVILTYK-SASEESSGKAAVGVKNNQSNK---AVKG------TAWFPSY 82 (83)
Q Consensus 44 ~V~V~~~-~~~~~~~~~i~~~~~~~~~~~---~~~~------~~~~~~~ 82 (83)
-.+|+.+ .+.+....+|...+++.+..+ +--. ++||.||
T Consensus 130 ~~~Id~~~~s~eev~~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (180)
T PRK03839 130 VIEVDTTGKTPEEVVEEILELIKSGKKRKVGIVDWSEVYDEIFPYLRLG 178 (180)
T ss_pred EEEEECCCCCHHHHHHHHHHHHhcCCCCCCCeecchhhccchhHHHHhc
Confidence 3566664 356777788888888877666 3333 7788887
No 73
>PRK09579 multidrug efflux protein; Reviewed
Probab=42.66 E-value=46 Score=28.74 Aligned_cols=54 Identities=6% Similarity=-0.002 Sum_probs=39.5
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc------cchHHHHHhhhhccccc
Q 034782 18 RCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE------ESSGKAAVGVKNNQSNK 71 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~------~~~~~i~~~~~~~~~~~ 71 (83)
.=+.++++.|++.||+.+++.|...++-.++-+.+++ .+...+...++..+.|.
T Consensus 672 ~~a~~l~~~l~~~~g~~~v~~~~~~~~~el~i~vd~~ka~~~Gls~~~i~~~l~~~~~G~ 731 (1017)
T PRK09579 672 QVAQRVKQRAQESGKFAFLDIDLAFDKPEVVVDIDRAKAAQMGVSMQDLGGTLATLLGEG 731 (1017)
T ss_pred HHHHHHHHHHHcCCCcEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhCCc
Confidence 3478899999999999999988876655555554442 56667777777777664
No 74
>cd00292 EF1B Elongation factor 1 beta (EF1B) guanine nucleotide exchange domain. EF1B catalyzes the exchange of GDP bound to the G-protein, EF1A, for GTP, an important step in the elongation cycle of the protein biosynthesis. EF1A binds to and delivers the aminoacyl tRNA to the ribosome. The guanine nucleotide exchange domain of EF1B, which is the alpha subunit in yeast, is responsible for the catalysis of this exchange reaction.
Probab=41.65 E-value=31 Score=21.36 Aligned_cols=23 Identities=30% Similarity=0.400 Sum_probs=19.3
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEc
Q 034782 18 RCQDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl 40 (83)
+-...++.++.+++||+++++.-
T Consensus 62 ~~td~lee~i~~~d~VqsveI~~ 84 (88)
T cd00292 62 GGTDELEEAISEEDGVQSVDVEA 84 (88)
T ss_pred cCcHHHHHHHhccCCceEEEEEE
Confidence 44589999999999999998854
No 75
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=40.18 E-value=74 Score=18.32 Aligned_cols=60 Identities=8% Similarity=0.107 Sum_probs=38.9
Q ss_pred EEEEEe-eccChhHHHHHHHHhhcCCC-eeEEEEEccCCEEEEEecCCc-ccchHHHHHhhhh
Q 034782 7 EVILAA-DLRCDRCQDRIANAISRVND-VESMEVLVSEKKVILTYKSAS-EESSGKAAVGVKN 66 (83)
Q Consensus 7 ~~~l~V-~M~C~~C~~~V~~aL~~i~G-V~~V~vdl~~~~V~V~~~~~~-~~~~~~i~~~~~~ 66 (83)
.+.+.+ |.+.++-...|.+.|.+..+ +.+++.....+..+...-.+. .....+++..+.+
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~ 64 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEE 64 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHH
Confidence 466777 99999999999999999876 778888777775544332222 2344555555444
No 76
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=40.14 E-value=54 Score=28.30 Aligned_cols=53 Identities=15% Similarity=0.234 Sum_probs=38.9
Q ss_pred HHHHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc----ccchHHHHHhhhhccccc
Q 034782 19 CQDRIANAISRVNDVESMEVLVSEK--KVILTYKSAS----EESSGKAAVGVKNNQSNK 71 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~----~~~~~~i~~~~~~~~~~~ 71 (83)
=+.++++.|.++||+.+|+.|...+ ++.|+.|.+. -.+..++...++..+.|.
T Consensus 676 ~a~~i~~~L~~~pgv~~v~~~~~~~~~el~i~id~~ka~~~Gls~~~v~~~l~~~~~G~ 734 (1025)
T PRK10614 676 WEPKIRKALAALPELADVNSDQQDKGAEMALTYDRDTMARLGIDVQAANSLLNNAFGQR 734 (1025)
T ss_pred HHHHHHHHHhcCCCeEEeecCCCCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhCCc
Confidence 3678999999999999999887766 5555554332 356677777888777664
No 77
>PF00736 EF1_GNE: EF-1 guanine nucleotide exchange domain; InterPro: IPR014038 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents the guanine nucleotide exchange domain of the beta (EF-1beta, also known as EF1B-alpha) and delta (EF-1delta, also known as EF1B-beta) chains of EF1B proteins from eukaryotes and archaea. The beta and delta chains have exchange activity, which mainly resides in their homologous guanine nucleotide exchange domains, found in the C-terminal region of the peptides. Their N-terminal regions may be involved in interactions with the gamma chain (EF-1gamma). More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 2YY3_B 1GH8_A 1B64_A 1IJE_B 1IJF_B 1F60_B 1G7C_B 2B7B_B 2B7C_B.
Probab=38.97 E-value=50 Score=20.39 Aligned_cols=24 Identities=29% Similarity=0.365 Sum_probs=20.0
Q ss_pred hhHHHHHHHHh-hcCCCeeEEEEEc
Q 034782 17 DRCQDRIANAI-SRVNDVESMEVLV 40 (83)
Q Consensus 17 ~~C~~~V~~aL-~~i~GV~~V~vdl 40 (83)
.+-...+++++ +.++||+++++.-
T Consensus 61 ~~~~d~lee~i~~~~e~Vqsvei~~ 85 (89)
T PF00736_consen 61 EGSTDDLEEAIESFEEGVQSVEIES 85 (89)
T ss_dssp TCGHHHHHHHHTTCTTTEEEEEEEE
T ss_pred ccChHHHHHHHHhcCCCccEEEEEE
Confidence 35678899999 9999999998853
No 78
>PF14535 AMP-binding_C_2: AMP-binding enzyme C-terminal domain; PDB: 2Y27_A 2Y4N_A 3QOV_B 3S89_D 3LAX_A 2Y4O_B.
Probab=38.96 E-value=82 Score=19.02 Aligned_cols=14 Identities=14% Similarity=0.370 Sum_probs=12.3
Q ss_pred HHHHHHhhcCCCee
Q 034782 21 DRIANAISRVNDVE 34 (83)
Q Consensus 21 ~~V~~aL~~i~GV~ 34 (83)
..|+.+|.++||+.
T Consensus 7 ~~Ie~vl~~~~~~~ 20 (96)
T PF14535_consen 7 SQIEEVLREFPEVS 20 (96)
T ss_dssp HHHHHHHCTSTTEE
T ss_pred HHHHHHHHhCcCCC
Confidence 46899999999987
No 79
>TIGR02830 spore_III_AG stage III sporulation protein AG. CC A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is found in a spore formation operon and is designated stage III sporulation protein AG.
Probab=38.42 E-value=30 Score=24.42 Aligned_cols=29 Identities=7% Similarity=0.263 Sum_probs=20.5
Q ss_pred HHHHHHHHhhcCCCeeEEE--EEccCCEEEE
Q 034782 19 CQDRIANAISRVNDVESME--VLVSEKKVIL 47 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~--vdl~~~~V~V 47 (83)
-.++++..|++++||-+|+ |++.+..-.|
T Consensus 62 lE~~L~~iL~~I~GvG~V~VmItl~s~~e~v 92 (186)
T TIGR02830 62 YENELKEILEKIEGVGDVTVMVNLDSSEEKV 92 (186)
T ss_pred HHHHHHHHHHhccCcceeEEEEEECCCceEE
Confidence 4678999999999988664 4555554333
No 80
>PHA02096 hypothetical protein
Probab=38.41 E-value=17 Score=22.99 Aligned_cols=27 Identities=15% Similarity=0.115 Sum_probs=23.9
Q ss_pred ccchHHHHHhhhhcccccccccccccc
Q 034782 54 EESSGKAAVGVKNNQSNKAVKGTAWFP 80 (83)
Q Consensus 54 ~~~~~~i~~~~~~~~~~~~~~~~~~~~ 80 (83)
+.+.....+.+.+-|+|.-..-||||-
T Consensus 39 ~~~~~~ak~~i~eylkgt~vikkrlfg 65 (103)
T PHA02096 39 DVSLKNAKKSIEEYLKGTTVIKKRLFG 65 (103)
T ss_pred hhHHHHHHHHHHHHhcccchhhhhhcC
Confidence 567778899999999999999999995
No 81
>PF02983 Pro_Al_protease: Alpha-lytic protease prodomain; InterPro: IPR004236 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. The alpha-lytic protease prodomain is associated with serine peptidases, specifically the alpha-lytic endopeptidases and streptogrisin A, B, C, D and E, which are bacterial enzymes and which belong to MEROPS peptidase subfamily S1A (IPR001316 from INTERPRO). The protease precursor in Gram-negative bacterial proteases may be a general property of extracellular bacterial proteases []. The proteases are encoded with a large (166 amino acid) N-terminal pro region that is required transiently both in vivo and in vitro for the correct folding of the protease domain [, ]. The pro region also acts as a potent inhibitor of the mature enzyme []. ; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis, 0005576 extracellular region; PDB: 3PRO_C 2PRO_B 4PRO_C.
Probab=37.27 E-value=82 Score=17.96 Aligned_cols=22 Identities=32% Similarity=0.191 Sum_probs=19.4
Q ss_pred CCeeEEEEEccCCEEEEEecCC
Q 034782 31 NDVESMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 31 ~GV~~V~vdl~~~~V~V~~~~~ 52 (83)
.++....||+.+++|.|+.+..
T Consensus 23 ~~~~~WyvD~~tn~VVV~a~~~ 44 (62)
T PF02983_consen 23 VAVTSWYVDPRTNKVVVTADST 44 (62)
T ss_dssp GCEEEEEEECCCTEEEEEEECT
T ss_pred CCcceEEEeCCCCeEEEEECCC
Confidence 4788999999999999998854
No 82
>PRK15324 type III secretion system lipoprotein PrgK; Provisional
Probab=36.42 E-value=39 Score=24.83 Aligned_cols=22 Identities=23% Similarity=0.404 Sum_probs=18.0
Q ss_pred HHHHHHHhhcCCCeeEEEEEcc
Q 034782 20 QDRIANAISRVNDVESMEVLVS 41 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~ 41 (83)
...+++.|+.|+||.+++|.+.
T Consensus 110 e~ELarTI~~IdgV~~ARVHl~ 131 (252)
T PRK15324 110 EQRLEQSLQTMEGVLSARVHIS 131 (252)
T ss_pred HHHHHHHHHhcCCcceEEEEEE
Confidence 5678999999999998877543
No 83
>PF08478 POTRA_1: POTRA domain, FtsQ-type; InterPro: IPR013685 FtsQ/DivIB bacterial division proteins (IPR005548 from INTERPRO) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts []. ; PDB: 2ALJ_A 2VH1_B 3J00_Z 2VH2_B.
Probab=35.13 E-value=44 Score=18.49 Aligned_cols=21 Identities=19% Similarity=0.240 Sum_probs=17.5
Q ss_pred HHHHHHHhhcCCCeeEEEEEc
Q 034782 20 QDRIANAISRVNDVESMEVLV 40 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl 40 (83)
...+++.|.++|.|.+|.|..
T Consensus 36 ~~~~~~~l~~~p~V~~v~V~r 56 (69)
T PF08478_consen 36 LKKIEQRLEKLPWVKSVSVSR 56 (69)
T ss_dssp HHHHHHCCCCTTTEEEEEEEE
T ss_pred HHHHHHHHHcCCCEEEEEEEE
Confidence 467888899999999998863
No 84
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=34.34 E-value=44 Score=18.19 Aligned_cols=26 Identities=15% Similarity=0.374 Sum_probs=13.8
Q ss_pred eccChhHHHHHHHHhhcC----CCeeEEEEE
Q 034782 13 DLRCDRCQDRIANAISRV----NDVESMEVL 39 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i----~GV~~V~vd 39 (83)
.-.|+.|. .++..|..+ +++.-..+|
T Consensus 8 ~~~C~~C~-~~~~~l~~l~~~~~~i~~~~id 37 (67)
T cd02973 8 SPTCPYCP-DAVQAANRIAALNPNISAEMID 37 (67)
T ss_pred CCCCCCcH-HHHHHHHHHHHhCCceEEEEEE
Confidence 34699994 344455443 345444444
No 85
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=34.25 E-value=1.1e+02 Score=18.39 Aligned_cols=32 Identities=19% Similarity=0.381 Sum_probs=22.8
Q ss_pred eEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEE
Q 034782 5 SQEVILAADLRCDRCQDRIANAISRVNDVESMEV 38 (83)
Q Consensus 5 ~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~v 38 (83)
...+++.++ -+.....+.+-|.++..|-+|++
T Consensus 44 ~sriti~v~--~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 44 NINIELTVA--SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred EEEEEEEEC--CCchHHHHHHHHhcCcCeEEEEE
Confidence 345555554 57778888888888888877765
No 86
>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=33.89 E-value=70 Score=18.27 Aligned_cols=22 Identities=18% Similarity=0.394 Sum_probs=19.1
Q ss_pred EEe-eccChhHHHHHHHHhhcCC
Q 034782 10 LAA-DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 10 l~V-~M~C~~C~~~V~~aL~~i~ 31 (83)
+.+ |+.|+.=.-+.+++|.+++
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~ 24 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQ 24 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCC
Confidence 345 8999999999999999886
No 87
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=33.32 E-value=62 Score=17.03 Aligned_cols=19 Identities=0% Similarity=0.230 Sum_probs=15.7
Q ss_pred HHHHHHHhhcCCCeeEEEE
Q 034782 20 QDRIANAISRVNDVESMEV 38 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~v 38 (83)
...+.+.|++++||.+|..
T Consensus 52 ~~~l~~~l~~~~~V~~v~~ 70 (71)
T cd04879 52 PEEVLEELKALPGIIRVRL 70 (71)
T ss_pred CHHHHHHHHcCCCeEEEEE
Confidence 4588889999999998753
No 88
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=33.10 E-value=1.2e+02 Score=25.92 Aligned_cols=33 Identities=15% Similarity=0.287 Sum_probs=25.5
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEE--EecCC
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVIL--TYKSA 52 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V--~~~~~ 52 (83)
...+|++|..++|+++++-.-.++...| +++..
T Consensus 62 t~plE~~l~~v~gv~~i~S~s~~g~s~i~v~f~~~ 96 (1021)
T PF00873_consen 62 TKPLEEALSSVEGVKEIRSTSREGSSSITVEFDDG 96 (1021)
T ss_dssp HHHHHHTHCSSTTEEEEEEEETTSEEEEEEEESTT
T ss_pred HHHHHHHHcCCCCeEEEEEEecCCcEEEEEEeccc
Confidence 4578999999999999988888885555 55443
No 89
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=33.05 E-value=84 Score=27.21 Aligned_cols=53 Identities=2% Similarity=0.026 Sum_probs=37.7
Q ss_pred HHHHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc----ccchHHHHHhhhhccccc
Q 034782 19 CQDRIANAISRVNDVESMEVLVSEK--KVILTYKSAS----EESSGKAAVGVKNNQSNK 71 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~----~~~~~~i~~~~~~~~~~~ 71 (83)
=+..+++.|.++||+.+|..+...+ .+.|+-|.+. -.+..++...++..+.|.
T Consensus 697 ~a~~l~~~l~~~~gv~~v~~~~~~~~~~l~i~id~~k~~~~Gls~~~v~~~l~~~~~G~ 755 (1037)
T PRK10555 697 ARNQLLALAAKNPELTRVRHNGLDDSPQLQIDIDQRKAQALGVSIDDINDTLQTAWGSS 755 (1037)
T ss_pred HHHHHHHHHhcCCCeEEEecCCcCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhcCc
Confidence 3567899999999999999887774 5555554322 356667777777776553
No 90
>cd06482 ACD_HspB10 Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB10, also known as sperm outer dense fiber protein (ODFP), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB10 occurs exclusively in the axoneme of sperm cells and may have a cytoskeletal role.
Probab=32.81 E-value=40 Score=20.64 Aligned_cols=25 Identities=24% Similarity=0.298 Sum_probs=20.2
Q ss_pred cCCCee--EEEEEccCCEEEEEecCCc
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~~~ 53 (83)
.+||+. +++|++..+.++|.+....
T Consensus 15 dlPG~~kedI~V~v~~~~L~I~ger~~ 41 (87)
T cd06482 15 DVCGFEPDQVKVKVKDGKVQVSAEREN 41 (87)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEec
Confidence 467865 7899999999999998543
No 91
>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=32.69 E-value=63 Score=18.10 Aligned_cols=20 Identities=20% Similarity=0.340 Sum_probs=16.8
Q ss_pred Ee-eccChhHHHHHHHHhhcCC
Q 034782 11 AA-DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 11 ~V-~M~C~~C~~~V~~aL~~i~ 31 (83)
.+ |+.|+.-.-+.+++| ++.
T Consensus 3 D~rG~~CP~P~l~~k~al-~~~ 23 (67)
T cd03421 3 DARGLACPQPVIKTKKAL-ELE 23 (67)
T ss_pred ccCCCCCCHHHHHHHHHH-hcC
Confidence 45 899999999999999 554
No 92
>PRK10509 bacterioferritin-associated ferredoxin; Provisional
Probab=32.56 E-value=26 Score=20.35 Aligned_cols=20 Identities=10% Similarity=0.431 Sum_probs=16.2
Q ss_pred EEeeccChhHHHHHHHHhhc
Q 034782 10 LAADLRCDRCQDRIANAISR 29 (83)
Q Consensus 10 l~V~M~C~~C~~~V~~aL~~ 29 (83)
+.++-.|+.|...+++.|..
T Consensus 33 ~~~g~~CG~C~~~i~~il~~ 52 (64)
T PRK10509 33 VPVGNQCGKCIRAAREVMQD 52 (64)
T ss_pred cCCCCCccchHHHHHHHHHH
Confidence 35678999999999998853
No 93
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=32.49 E-value=91 Score=27.03 Aligned_cols=53 Identities=6% Similarity=0.028 Sum_probs=36.9
Q ss_pred HHHHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc----ccchHHHHHhhhhccccc
Q 034782 19 CQDRIANAISRVNDVESMEVLVSEK--KVILTYKSAS----EESSGKAAVGVKNNQSNK 71 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~----~~~~~~i~~~~~~~~~~~ 71 (83)
=+.++++.|.++||+.+|+.|...+ +++++.|.+. -.+..++...++..+.|.
T Consensus 698 ~a~~l~~~l~~~pg~~~v~~~~~~~~~~~~i~~d~~k~~~~Gls~~~v~~~l~~~~~g~ 756 (1044)
T TIGR00915 698 ARNQLLGLAAQNPALTRVRPNGLEDEPQFKLNIDDEKAQALGVSIADINTTLSTAWGSS 756 (1044)
T ss_pred HHHHHHHHHhcCCCeEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhCCc
Confidence 3567899999999999998887665 5555554332 255667777777666553
No 94
>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=32.30 E-value=72 Score=22.45 Aligned_cols=40 Identities=13% Similarity=0.155 Sum_probs=30.6
Q ss_pred CCceEEEEEEeeccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEE
Q 034782 2 ASLSQEVILAADLRCDRCQDRIANAISRVNDVESMEVLVSEKKVIL 47 (83)
Q Consensus 2 ~~~~~~~~l~V~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V 47 (83)
+|-..=++|-+++++..|-+.++.+|..+| .++--++|-.
T Consensus 62 RprIDlIVFvinl~sk~SL~~ve~SL~~vd------~~fflGKVCf 101 (176)
T PF11111_consen 62 RPRIDLIVFVINLHSKYSLQSVEASLSHVD------PSFFLGKVCF 101 (176)
T ss_pred CceeEEEEEEEecCCcccHHHHHHHHhhCC------hhhhccceEE
Confidence 466667889999999999999999998765 3444455544
No 95
>PRK06007 fliF flagellar MS-ring protein; Reviewed
Probab=32.17 E-value=1.4e+02 Score=24.09 Aligned_cols=43 Identities=19% Similarity=0.324 Sum_probs=29.4
Q ss_pred HHHHHHHhhcCCCeeEEEEEcc--------------CCEEEEEecCCcccchHHHHH
Q 034782 20 QDRIANAISRVNDVESMEVLVS--------------EKKVILTYKSASEESSGKAAV 62 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~--------------~~~V~V~~~~~~~~~~~~i~~ 62 (83)
...+.+.|..++||+++.|.+. +..|.|+..+....+..++..
T Consensus 137 egELartI~~i~~V~~ArVhl~lP~~s~F~~~~~~~tASV~l~l~~g~~L~~~qV~a 193 (542)
T PRK06007 137 EGELARTIESLDGVKAARVHLALPKESVFVREQQPPSASVVLTLKPGRALDPEQVKA 193 (542)
T ss_pred HHHHHHHHHhcCCcceeEEEEECCCCccccccCCCCcEEEEEeccCCCCCCHHHHHH
Confidence 4567889999999999988653 334666666544555555543
No 96
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=31.98 E-value=91 Score=27.04 Aligned_cols=52 Identities=8% Similarity=0.093 Sum_probs=35.9
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc----ccchHHHHHhhhhccccc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEK--KVILTYKSAS----EESSGKAAVGVKNNQSNK 71 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~----~~~~~~i~~~~~~~~~~~ 71 (83)
++++++.|.++||+.+|+.+...+ .+.|+.|.+. -.+..++...++..+.|.
T Consensus 691 a~~l~~~l~~~pgv~~v~~~~~~~~~e~~v~id~~k~~~~Gls~~~v~~~l~~~~~g~ 748 (1040)
T PRK10503 691 VPKLMEKLQQLPQLSDVSSDWQDKGLVAYVNVDRDSASRLGISMADVDNALYNAFGQR 748 (1040)
T ss_pred HHHHHHHHhcCCCeEEEEccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhCCc
Confidence 467899999999999998766654 5555554332 356667777777766553
No 97
>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=31.89 E-value=1.1e+02 Score=20.85 Aligned_cols=38 Identities=8% Similarity=0.078 Sum_probs=29.8
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcc
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEKKVILTYKSASE 54 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~ 54 (83)
..-...|.+.+..-.|+.++.+|..++.|.+..+-|.-
T Consensus 52 e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ 89 (145)
T cd02410 52 EEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGL 89 (145)
T ss_pred HHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeE
Confidence 44455666666666799999999999999999987653
No 98
>PRK11023 outer membrane lipoprotein; Provisional
Probab=31.81 E-value=1.7e+02 Score=20.13 Aligned_cols=62 Identities=13% Similarity=0.103 Sum_probs=38.8
Q ss_pred cChhHHHHHHHHhhcCCCee--EEEEEccCCEEEEEecCCcccchHHHHHhhhhccccccccccccc
Q 034782 15 RCDRCQDRIANAISRVNDVE--SMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQSNKAVKGTAWF 79 (83)
Q Consensus 15 ~C~~C~~~V~~aL~~i~GV~--~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 79 (83)
....=..+|+.+|..-+++. .++|....+.|++.|..++ ....++..+. ... ..+++...+|
T Consensus 124 ~D~~It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~-~e~~~a~~iA-~~v-~GVk~Vv~~~ 187 (191)
T PRK11023 124 KDTWITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQ-REAKAAADIA-SRV-SGVKRVTTAF 187 (191)
T ss_pred CcHHHHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCH-HHHHHHHHHH-hcC-CCeeEEeeee
Confidence 34446678889987666654 5677777999999999864 3334444433 333 3444444444
No 99
>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=31.51 E-value=66 Score=18.44 Aligned_cols=11 Identities=18% Similarity=0.477 Sum_probs=8.3
Q ss_pred eeccChhHHHH
Q 034782 12 ADLRCDRCQDR 22 (83)
Q Consensus 12 V~M~C~~C~~~ 22 (83)
++-+|+.|...
T Consensus 6 ~~~~C~~C~~~ 16 (76)
T PF13192_consen 6 FSPGCPYCPEL 16 (76)
T ss_dssp ECSSCTTHHHH
T ss_pred eCCCCCCcHHH
Confidence 47779999943
No 100
>PF05922 Inhibitor_I9: Peptidase inhibitor I9; InterPro: IPR010259 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. Limited proteolysis of most large protein precursors is carried out in vivo by the subtilisin-like pro-protein convertases. Many important biological processes such as peptide hormone synthesis, viral protein processing and receptor maturation involve proteolytic processing by these enzymes []. The subtilisin-serine protease (SRSP) family hormone and pro-protein convertases (furin, PC1/3, PC2, PC4, PACE4, PC5/6, and PC7/7/LPC) act within the secretory pathway to cleave polypeptide precursors at specific basic sites, generating their biologically active forms. Serum proteins, pro-hormones, receptors, zymogens, viral surface glycoproteins, bacterial toxins, amongst others, are activated by this route []. The SRSPs share the same domain structure, including a signal peptide, the pro-peptide, the catalytic domain, the P/middle or homo B domain, and the C terminus. Proteinase propeptide inhibitors (sometimes refered to as activation peptides) are responsible for the modulation of folding and activity of the pro-enzyme or zymogen. The pro-segment docks into the enzyme moiety shielding the substrate binding site, thereby promoting inhibition of the enzyme. Several such propeptides share a similar topology [], despite often low sequence identities []. The propeptide region has an open-sandwich antiparallel-alpha/antiparallel-beta fold, with two alpha-helices and four beta-strands with a (beta/alpha/beta)x2 topology. This group of sequences contain the propeptide domain at the N terminus of peptidases belonging to MEROPS family S8A, subtilisins. A number of the members of this group of sequences belong to MEROPS inhibitor family I9, clan I-. The propeptide is removed by proteolytic cleavage; removal activating the enzyme.; GO: 0004252 serine-type endopeptidase activity, 0042802 identical protein binding, 0043086 negative regulation of catalytic activity; PDB: 3CNQ_P 1SPB_P 3CO0_P 1ITP_A 1V5I_B 1SCJ_B 3P5B_P 2XTJ_P 2W2M_P 2P4E_P ....
Probab=30.37 E-value=62 Score=18.28 Aligned_cols=17 Identities=18% Similarity=0.120 Sum_probs=13.9
Q ss_pred HHHhhcCCCeeEEEEEc
Q 034782 24 ANAISRVNDVESMEVLV 40 (83)
Q Consensus 24 ~~aL~~i~GV~~V~vdl 40 (83)
-+.|++.|+|..|+-|.
T Consensus 61 i~~L~~~p~V~~Ve~D~ 77 (82)
T PF05922_consen 61 IEKLRKDPGVKSVEPDQ 77 (82)
T ss_dssp HHHHHTSTTEEEEEEEC
T ss_pred HHHHHcCCCeEEEEeCc
Confidence 36788999999998774
No 101
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=29.97 E-value=93 Score=16.39 Aligned_cols=27 Identities=7% Similarity=0.282 Sum_probs=21.2
Q ss_pred HHHhhcCCCeeEEEEEccC-CEEEEEec
Q 034782 24 ANAISRVNDVESMEVLVSE-KKVILTYK 50 (83)
Q Consensus 24 ~~aL~~i~GV~~V~vdl~~-~~V~V~~~ 50 (83)
.+.+++-..|.++.+.... +.+-|++.
T Consensus 2 ~~~f~~fG~V~~i~~~~~~~~~a~V~f~ 29 (56)
T PF13893_consen 2 YKLFSKFGEVKKIKIFKKKRGFAFVEFA 29 (56)
T ss_dssp HHHHTTTS-EEEEEEETTSTTEEEEEES
T ss_pred hHHhCCcccEEEEEEEeCCCCEEEEEEC
Confidence 3455666779999999988 99999997
No 102
>COG3553 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.25 E-value=1.4e+02 Score=19.01 Aligned_cols=36 Identities=6% Similarity=0.126 Sum_probs=29.5
Q ss_pred eeEEEEEccCCEEEEEecCCcccchHHHHHhhhhcc
Q 034782 33 VESMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQ 68 (83)
Q Consensus 33 V~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~ 68 (83)
+.-..++.+.++.++....+.+.+..+++.++..++
T Consensus 44 ~~~~~l~a~a~~L~i~v~~d~e~~lA~le~VVa~Hi 79 (96)
T COG3553 44 LGTLTLDADAQTLTIVVEADEEQNLARLEDVVASHI 79 (96)
T ss_pred cceEEeecCCCEEEEEeccchhhhHHHHHHHHHHHH
Confidence 445677888889999988777889999999988876
No 103
>KOG3782 consensus Predicted membrane protein, contains type II SA sequence [General function prediction only]
Probab=29.12 E-value=1.8e+02 Score=20.60 Aligned_cols=36 Identities=19% Similarity=0.484 Sum_probs=25.6
Q ss_pred eccChhHHHHHH---HHhhcCCC-----eeEEEEEccCCEEEEE
Q 034782 13 DLRCDRCQDRIA---NAISRVND-----VESMEVLVSEKKVILT 48 (83)
Q Consensus 13 ~M~C~~C~~~V~---~aL~~i~G-----V~~V~vdl~~~~V~V~ 48 (83)
..+|+.|..-|. .++.+.+. |.+.++|+...+..++
T Consensus 24 ~~~CgaC~alVtelE~~IA~vDPkK~i~vgsFR~~p~G~q~~~k 67 (189)
T KOG3782|consen 24 EVKCGACKALVTELEEAIAKVDPKKMIDVGSFRLDPQGNQISKK 67 (189)
T ss_pred ccccchHHHHHHHHHHHHHhcCchheeeecceEECCCCCeeeee
Confidence 579999987765 45555554 6677888888776665
No 104
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=29.04 E-value=1.2e+02 Score=17.20 Aligned_cols=28 Identities=18% Similarity=0.140 Sum_probs=18.7
Q ss_pred EEeeccChhHHHHHHHHhhcCCCeeEEE
Q 034782 10 LAADLRCDRCQDRIANAISRVNDVESME 37 (83)
Q Consensus 10 l~V~M~C~~C~~~V~~aL~~i~GV~~V~ 37 (83)
|.+...-..=-..+-+.|++++||.+|+
T Consensus 41 l~i~v~~~~~L~~li~~L~~i~gV~~V~ 68 (74)
T cd04877 41 LNFPTIEFEKLQTLMPEIRRIDGVEDVK 68 (74)
T ss_pred EEeEecCHHHHHHHHHHHhCCCCceEEE
Confidence 3343333333577888899999998874
No 105
>PF01849 NAC: NAC domain; InterPro: IPR002715 Nascent polypeptide-associated complex (NAC) is among the first ribosome-associated entities to bind the nascent polypeptide after peptide bond formation. The nascent polypeptide-associated complex (NAC) of yeast functions in the targeting process of ribosomes to the ER membrane []. NAC may prevent binding of ribosome nascent chains (RNCs) without a signal sequence to yeast membranes.; PDB: 3MCE_D 3MCB_A 3LKX_B 1TR8_B.
Probab=28.87 E-value=78 Score=17.64 Aligned_cols=25 Identities=8% Similarity=0.221 Sum_probs=19.8
Q ss_pred hcCCCeeEEEEEccCCEEEEEecCC
Q 034782 28 SRVNDVESMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 28 ~~i~GV~~V~vdl~~~~V~V~~~~~ 52 (83)
..++||+.|.+-...+++.+-.++.
T Consensus 14 ~~i~~i~eV~i~~~dg~~~~~~~P~ 38 (58)
T PF01849_consen 14 KEIPGIEEVTIRKDDGTVFVFNNPE 38 (58)
T ss_dssp EEETTEEEEEEEETTTEEEEEESEE
T ss_pred cccCCcEEEEEEECCceEEEEcCCe
Confidence 4568999999999988888877643
No 106
>PF11873 DUF3393: Domain of unknown function (DUF3393); InterPro: IPR024570 Membrane-bound lytic murein transglycosylase C (also known as murein hydrolase C), is a murein-degrading enzyme that may play a role in the recycling of muropeptides during cell elongation and/or cell division. This entry represents the N-terminal domain, whose function is currently not known.
Probab=28.86 E-value=1.2e+02 Score=21.62 Aligned_cols=33 Identities=6% Similarity=0.067 Sum_probs=24.7
Q ss_pred eEEEEEccCCEEEEEecCCcccchHHHHHhhhhc
Q 034782 34 ESMEVLVSEKKVILTYKSASEESSGKAAVGVKNN 67 (83)
Q Consensus 34 ~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~ 67 (83)
....|||.++.++|+.- +...+...++.++-..
T Consensus 88 tRa~VdFd~G~I~VETi-~~~~p~~~Lk~AIv~T 120 (204)
T PF11873_consen 88 TRAHVDFDKGTITVETI-AQTDPKAHLKQAIVTT 120 (204)
T ss_pred eEEEEEeeCCeEEEEec-CCcCHHHHHHHHHHHH
Confidence 35679999999999997 4466677777775543
No 107
>PF12693 GspL_C: GspL periplasmic domain; PDB: 2W7V_A.
Probab=28.47 E-value=1.7e+02 Score=18.94 Aligned_cols=47 Identities=13% Similarity=0.172 Sum_probs=33.4
Q ss_pred HHHHHhhcCCCee--EEEEEccCCEEEEEecCCcccchHHHHHhhhhcc
Q 034782 22 RIANAISRVNDVE--SMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQ 68 (83)
Q Consensus 22 ~V~~aL~~i~GV~--~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~ 68 (83)
.+..++...+|+. +++.|...+.++++...+.....+++...+.+.+
T Consensus 86 ~l~~~~~~~~~~~l~~l~y~~~~~~L~l~~~a~~~~~le~l~~~l~~~~ 134 (157)
T PF12693_consen 86 ALAPALQQVPGIQLQSLRYDAGRGELRLQLEAPSFQALEQLRAALAAQL 134 (157)
T ss_dssp GHHHHHHTSTT-EEEEEEEETTTTEEEEEEEESSSHHHHHHHHHHHTTE
T ss_pred HHHHHhccCCCCceEEEEEcCCCcEEEEEeccCCHHHHHHHHHHHHhhc
Confidence 4556667777754 5666667777999988888777788877776654
No 108
>TIGR02372 4_coum_CoA_lig 4-coumarate--CoA ligase, photoactive yellow protein activation family. Ectothiorhodospira halophila. This enzyme is designated 6.2.1.12 and therefore joins a number of plant enzymes linked to lignin biosynthesis and given similar names.
Probab=28.27 E-value=1.9e+02 Score=21.85 Aligned_cols=51 Identities=8% Similarity=0.122 Sum_probs=29.0
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEE--EEecCCc--ccchHHHHHhhhhcccc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVI--LTYKSAS--EESSGKAAVGVKNNQSN 70 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~--V~~~~~~--~~~~~~i~~~~~~~~~~ 70 (83)
-..||+.|...|+|.++-+.....++. |..+... ....+++...++++++.
T Consensus 310 p~eIE~~l~~~p~V~~~~v~~~g~~~~a~vv~~~~~~~~~~~~~l~~~~~~~L~~ 364 (386)
T TIGR02372 310 PGHVRDILERNPRVRAAAVRLDGRRLKAFIVVAEDADEAELEIELRATAARHLPA 364 (386)
T ss_pred HHHHHHHHHcCCCceEEEEEcCCceEEEEEEECCCCChHHHHHHHHHHHHHhCCC
Confidence 357899999999999887754443332 2222111 11133555555666543
No 109
>cd06471 ACD_LpsHSP_like Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Transcription of the genes encoding Lp HSP 18.5, 18.55 and 19.3 is regulated by a variety of stresses including heat, cold and ethanol. Early growing L. plantarum cells contain elevated levels of these mRNAs which rapidly fall of as the cells enter stationary phase. Also belonging to this group is Bifidobacterium breve (Bb) HSP20 and Oenococcus oenis (syn. Leuconostoc oenos) (Oo) HSP18. Transcription of the gene encoding BbHSP20 is strongly induced following heat or osmotic shock, and that of the gene encoding OoHSP18 following heat, ethanol or acid shock. OoHSP18 is peripherally associated with the cytoplasmic me
Probab=28.04 E-value=51 Score=19.58 Aligned_cols=25 Identities=8% Similarity=0.150 Sum_probs=19.8
Q ss_pred cCCCe--eEEEEEccCCEEEEEecCCc
Q 034782 29 RVNDV--ESMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 29 ~i~GV--~~V~vdl~~~~V~V~~~~~~ 53 (83)
.+||+ ++++|++..+.++|.+....
T Consensus 17 ~lPGv~~edi~v~~~~~~L~I~g~~~~ 43 (93)
T cd06471 17 DLPGFKKEDIKLDYKDGYLTISAKRDE 43 (93)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEcc
Confidence 46787 58889999999999887543
No 110
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=27.93 E-value=65 Score=22.00 Aligned_cols=38 Identities=21% Similarity=0.501 Sum_probs=27.3
Q ss_pred EEEEEecCCcccchHHHHHhhhhcccc--ccccccccccCC
Q 034782 44 KVILTYKSASEESSGKAAVGVKNNQSN--KAVKGTAWFPSY 82 (83)
Q Consensus 44 ~V~V~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~~~~~ 82 (83)
+..|+-. +.++...++...++....| --.+-+=||.||
T Consensus 16 TLvV~l~-~~ddi~kR~~~~ir~~~~g~~~~~~Ptl~F~Sy 55 (144)
T COG4190 16 TLVVTLA-PSDDIHKRITVSIRAAEEGDAMDATPTLWFTSY 55 (144)
T ss_pred eeEEEec-cHHHHHHHHHHHHhhhhcCCCccCCceeccccH
Confidence 4455553 5677778888888888777 445677899998
No 111
>PRK10568 periplasmic protein; Provisional
Probab=27.87 E-value=1.9e+02 Score=20.15 Aligned_cols=48 Identities=19% Similarity=0.128 Sum_probs=33.5
Q ss_pred hHHHHHHHHhhcCCCe--eEEEEEccCCEEEEEecCCcccchHHHHHhhh
Q 034782 18 RCQDRIANAISRVNDV--ESMEVLVSEKKVILTYKSASEESSGKAAVGVK 65 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV--~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~ 65 (83)
.=..+|+..|..-+.+ ..++|....+.|++.|..+.....+++..+.+
T Consensus 139 ~It~~vk~~L~~~~~v~~~~I~V~v~~G~V~L~G~V~s~~e~~~A~~~A~ 188 (203)
T PRK10568 139 ATTSEIKAKLLADDIVPSRKVKVETTDGVVQLSGTVDSQAQSDRAESIAK 188 (203)
T ss_pred HHHHHHHHHHhhCCCCCcceeEEEEeCcEEEEEEEECCHHHHHHHHHHHh
Confidence 3366777777654443 46888899999999999877655555554433
No 112
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=27.78 E-value=74 Score=25.14 Aligned_cols=56 Identities=18% Similarity=0.162 Sum_probs=36.1
Q ss_pred HHHHHHh-hcCCCeeEEEEEccCC---------E--EEEEecCC--cccchHHHHHhhhhccccccccccc
Q 034782 21 DRIANAI-SRVNDVESMEVLVSEK---------K--VILTYKSA--SEESSGKAAVGVKNNQSNKAVKGTA 77 (83)
Q Consensus 21 ~~V~~aL-~~i~GV~~V~vdl~~~---------~--V~V~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~ 77 (83)
..|.+.+ ..++||.++.|-+-++ . +.+..+.. ......+++.++.+.| ..+..+.+
T Consensus 320 ~~iA~~I~~~v~gv~ev~V~llSqIG~PId~P~~~~v~i~~~~~~~~~~~~~~v~~Ii~~~L-~~i~~~t~ 389 (396)
T PF01941_consen 320 NEIAQRIYEEVDGVEEVYVRLLSQIGKPIDEPQIASVQIIPEDGVLLEDVEKEVEEIIDEEL-ANIPEITE 389 (396)
T ss_pred HHHHHHHHHhcCCcceEEEEEccccCCCCCCCeEEEEEEecCCCCchHHHHHHHHHHHHHHH-hhhHHHHH
Confidence 3444444 4589999999998887 2 34433333 3566778888888887 55555444
No 113
>KOG1626 consensus Inorganic pyrophosphatase/Nucleosome remodeling factor, subunit NURF38 [Energy production and conversion]
Probab=27.53 E-value=13 Score=27.84 Aligned_cols=39 Identities=13% Similarity=0.190 Sum_probs=25.4
Q ss_pred CEEEEEecCCcccchHHHHHhhhhccccccccccccccCC
Q 034782 43 KKVILTYKSASEESSGKAAVGVKNNQSNKAVKGTAWFPSY 82 (83)
Q Consensus 43 ~~V~V~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 82 (83)
+-+-|.-+++......-|.. +++..+|.+....|||+-|
T Consensus 155 KiIAIdvnDP~A~~~ndi~D-V~~~~Pg~L~~tr~wFr~Y 193 (279)
T KOG1626|consen 155 KIIAIDVNDPLASEYNDIED-VEKLFPGLLEATRRWFRDY 193 (279)
T ss_pred eEEEEECCCcchhhhccHHH-HHHhCcchHHHHHHHHHHc
Confidence 34556666443322222222 5788999999999999988
No 114
>PF14960 ATP_synth_reg: ATP synthase regulation
Probab=27.43 E-value=17 Score=20.57 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=9.9
Q ss_pred ccccccccccCCC
Q 034782 71 KAVKGTAWFPSYS 83 (83)
Q Consensus 71 ~~~~~~~~~~~~~ 83 (83)
+..+++++||||.
T Consensus 9 ~~~G~~k~FNs~T 21 (49)
T PF14960_consen 9 QFTGFKKYFNSYT 21 (49)
T ss_pred hhhcHHHHhcccc
Confidence 3567889999983
No 115
>PRK10743 heat shock protein IbpA; Provisional
Probab=27.17 E-value=54 Score=21.70 Aligned_cols=23 Identities=9% Similarity=0.219 Sum_probs=18.5
Q ss_pred cCCCee--EEEEEccCCEEEEEecC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKS 51 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~ 51 (83)
.+||+. +++|++..+.++|.++.
T Consensus 52 elPGv~kedi~V~v~~~~LtI~ge~ 76 (137)
T PRK10743 52 AVAGFAESELEITAQDNLLVVKGAH 76 (137)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 567864 78888889999999874
No 116
>cd06475 ACD_HspB1_like Alpha crystallin domain (ACD) found in mammalian small (s)heat shock protein (Hsp)-27 (also denoted HspB1 in human) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Hsp27 shows enhanced synthesis in response to stress. It is a molecular chaperone which interacts with a large number of different proteins. It is found in many types of human cells including breast, uterus, cervix, platelets and cancer cells. Hsp27 has diverse cellular functions including, chaperoning, regulation of actin polymerization, keratinocyte differentiation, regulation of inflammatory pathways in keratinocytes, and protection from oxidative stress through modulating glutathione levels. It is also a subunit of AUF1-containing protein complexes. It has been linked to several transduction pathways regulating cellular functions including differentiat
Probab=26.93 E-value=67 Score=19.30 Aligned_cols=24 Identities=25% Similarity=0.207 Sum_probs=19.3
Q ss_pred cCCCee--EEEEEccCCEEEEEecCC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~~ 52 (83)
.+||+. +++|++..+.++|++...
T Consensus 17 dlPG~~~edi~V~v~~~~L~I~g~~~ 42 (86)
T cd06475 17 DVNHFAPEELVVKTKDGVVEITGKHE 42 (86)
T ss_pred ECCCCCHHHEEEEEECCEEEEEEEEC
Confidence 467765 788999999999999753
No 117
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=26.74 E-value=1.2e+02 Score=16.74 Aligned_cols=19 Identities=16% Similarity=0.289 Sum_probs=17.0
Q ss_pred eccChhHHHHHHHHhhcCC
Q 034782 13 DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~ 31 (83)
|+.|+.=.-++.++|.+++
T Consensus 6 g~~CP~Pl~~~~~~l~~l~ 24 (69)
T cd00291 6 GLPCPLPVLKTKKALEKLK 24 (69)
T ss_pred CCcCCHHHHHHHHHHhcCC
Confidence 8999999999999998865
No 118
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=26.51 E-value=2.1e+02 Score=23.26 Aligned_cols=46 Identities=17% Similarity=0.113 Sum_probs=31.6
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCC------------------EEEEEecCCcccchHHHHHh
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEK------------------KVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~------------------~V~V~~~~~~~~~~~~i~~~ 63 (83)
++|==-++....+++||.++.+=...+ .|.|+|| +..++.++|-+.
T Consensus 205 gGCFWg~e~~f~~~~GV~~t~~GYagG~~~~PtY~~Vc~gtgH~E~V~V~yD-p~~is~~~Ll~~ 268 (521)
T PRK14018 205 GGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVYRHSGHAETVKVTYD-ADKLSLDTILQY 268 (521)
T ss_pred cCCchhhHHHHccCCCEEEEEEeeCCCCCCCCChhhccCCCCcEEEEEEEEC-CCcCcHHHHHHH
Confidence 445555666777889999998866554 3788888 556666665544
No 119
>cd06464 ACD_sHsps-like Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps.
Probab=26.30 E-value=56 Score=18.48 Aligned_cols=25 Identities=12% Similarity=0.207 Sum_probs=20.0
Q ss_pred cCCCe--eEEEEEccCCEEEEEecCCc
Q 034782 29 RVNDV--ESMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 29 ~i~GV--~~V~vdl~~~~V~V~~~~~~ 53 (83)
.+||+ ++++|+...+.+.|.+....
T Consensus 14 ~lpg~~~~~i~V~v~~~~l~I~g~~~~ 40 (88)
T cd06464 14 DLPGFKKEDIKVEVEDGVLTISGEREE 40 (88)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEec
Confidence 56786 58889999999999987554
No 120
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.16 E-value=99 Score=16.41 Aligned_cols=19 Identities=11% Similarity=0.296 Sum_probs=15.3
Q ss_pred HHHHHHHhhcCCCeeEEEE
Q 034782 20 QDRIANAISRVNDVESMEV 38 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~v 38 (83)
...+.+.|.+++||..+.+
T Consensus 53 ~~~~~~~L~~~~~v~~v~~ 71 (72)
T cd04874 53 IEELVEELRSLPIVREVEI 71 (72)
T ss_pred HHHHHHHHhCCCCeEEEEe
Confidence 4577888999999988765
No 121
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.98 E-value=89 Score=16.50 Aligned_cols=19 Identities=5% Similarity=0.401 Sum_probs=15.0
Q ss_pred HHHHHHHhhcCCCeeEEEE
Q 034782 20 QDRIANAISRVNDVESMEV 38 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~v 38 (83)
...+-+.|.+++||.+|..
T Consensus 52 ~~~~i~~l~~~~~v~~v~~ 70 (71)
T cd04903 52 DEEVIEEIKKIPNIHQVIL 70 (71)
T ss_pred CHHHHHHHHcCCCceEEEE
Confidence 4577788999999988753
No 122
>TIGR00206 fliF flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF). Component of the M (cytoplasmic associated) ring, one of four rings (L,P,S,M) which make up the flagellar hook-basal body which is a major portion of the flagellar organelle. Although the basic structure of the flagella appears to be similar for all bacteria, additional rings and structures surrounding the basal body have been observed for some bacteria (eg Vibrio cholerae and Treponema pallidum).
Probab=25.50 E-value=2.2e+02 Score=23.11 Aligned_cols=44 Identities=16% Similarity=0.244 Sum_probs=29.8
Q ss_pred HHHHHHHhhcCCCeeEEEEEcc--------------CCEEEEEecCCcccchHHHHHh
Q 034782 20 QDRIANAISRVNDVESMEVLVS--------------EKKVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~--------------~~~V~V~~~~~~~~~~~~i~~~ 63 (83)
...+.+.|..++||++++|.+. +..|.|+..+....+..|+..+
T Consensus 137 egELartI~~l~~V~~ArVhLalPe~s~F~~~~~~~tASV~l~l~~g~~L~~~QV~aI 194 (555)
T TIGR00206 137 EGELSRTIEALDPVKAASVHLAMPKDALFVEEQEPPSASVRLTLRPGSDLDTNQIEGL 194 (555)
T ss_pred HHHHHHHHHhcCCeeeEEEEEECCCCCccccCCCCCCEEEEEecCCCCCCCHHHHHHH
Confidence 3567889999999999988653 3356666664445666665433
No 123
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=25.46 E-value=1.9e+02 Score=20.61 Aligned_cols=30 Identities=13% Similarity=0.192 Sum_probs=24.8
Q ss_pred HHHHHHhhcCCCeeEEEEEccCCEEEEEecC
Q 034782 21 DRIANAISRVNDVESMEVLVSEKKVILTYKS 51 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~ 51 (83)
..+.+.|....|+ .+++|..++.|+|..+.
T Consensus 27 g~v~k~ie~~~~~-~~~iD~~~~~V~i~~~~ 56 (194)
T COG1094 27 GEVKKAIEEKTGV-KLRIDSKTGSVTIRTTR 56 (194)
T ss_pred ccchHHHHhhcCe-EEEEECCCCeEEEEecC
Confidence 4567777777788 59999999999999883
No 124
>COG2823 OsmY Predicted periplasmic or secreted lipoprotein [General function prediction only]
Probab=25.26 E-value=2.2e+02 Score=20.17 Aligned_cols=51 Identities=16% Similarity=0.148 Sum_probs=38.3
Q ss_pred ChhHHHHHHHHhhcCCCee--EEEEEccCCEEEEEecCCcccchHHHHHhhhh
Q 034782 16 CDRCQDRIANAISRVNDVE--SMEVLVSEKKVILTYKSASEESSGKAAVGVKN 66 (83)
Q Consensus 16 C~~C~~~V~~aL~~i~GV~--~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~ 66 (83)
..-=..+|+.+|..-+.+. .++|....+.|.+.+..+.+...++++.+..+
T Consensus 129 Dt~iTt~Vka~Ll~~~~v~s~~IkV~t~~g~V~L~G~V~s~~e~~~A~~~A~~ 181 (196)
T COG2823 129 DTWITTKVKAALLGDDNVKSSNIKVETENGEVYLSGLVDSQEEAERAEEIASK 181 (196)
T ss_pred hHHHHHHHHHHhccCCCCCcceEEEEEECCEEEEEEEeCCHHHHHHHHHHHhc
Confidence 4444678888887766654 57888899999999999887777777665443
No 125
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=25.25 E-value=1e+02 Score=16.59 Aligned_cols=18 Identities=6% Similarity=0.246 Sum_probs=13.5
Q ss_pred HHHHHHhhcCCCeeEEEE
Q 034782 21 DRIANAISRVNDVESMEV 38 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~v 38 (83)
..+-+.|++++||.+|..
T Consensus 51 ~~li~~l~~~~~V~~v~~ 68 (69)
T cd04901 51 EELLEALRAIPGTIRVRL 68 (69)
T ss_pred HHHHHHHHcCCCeEEEEE
Confidence 356667788999988764
No 126
>PHA01634 hypothetical protein
Probab=25.00 E-value=28 Score=23.92 Aligned_cols=13 Identities=15% Similarity=0.813 Sum_probs=10.8
Q ss_pred eccChhHHHHHHH
Q 034782 13 DLRCDRCQDRIAN 25 (83)
Q Consensus 13 ~M~C~~C~~~V~~ 25 (83)
-|+|++|...+.-
T Consensus 97 ~iDCeGCE~~l~v 109 (156)
T PHA01634 97 VMDCEGCEEKLNV 109 (156)
T ss_pred EEEccchHHhcCH
Confidence 6999999988753
No 127
>cd00298 ACD_sHsps_p23-like This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is this ACD. sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps. p23 is a cochaperone of the Hsp90 chaperoning pathway. It binds Hsp90 and participates in the folding of a number of Hsp90 clients including the progesterone receptor. p23 also has a passive chaperoning activity. p23 in addition may act as the cytosolic prostaglandin E2 synthase. Included in this family is the p23-like C-terminal CHORD-SGT1 (CS) domain of suppressor of G2 allele of Skp1 (Sgt1) and the p23-like domains of human butyrate-induced transcript 1 (hB-ind
Probab=24.85 E-value=65 Score=17.18 Aligned_cols=23 Identities=22% Similarity=0.330 Sum_probs=17.3
Q ss_pred CCCe--eEEEEEccCCEEEEEecCC
Q 034782 30 VNDV--ESMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 30 i~GV--~~V~vdl~~~~V~V~~~~~ 52 (83)
+||+ +++.|++..+.+.|.+...
T Consensus 14 ~~~~~~~~i~v~~~~~~l~v~~~~~ 38 (80)
T cd00298 14 LPGVKKEDIKVEVEDNVLTISGKRE 38 (80)
T ss_pred CCCCCHHHeEEEEECCEEEEEEEEc
Confidence 4555 6788888888999987654
No 128
>PRK12800 fliF flagellar MS-ring protein; Reviewed
Probab=24.43 E-value=2.3e+02 Score=23.24 Aligned_cols=43 Identities=12% Similarity=0.257 Sum_probs=29.2
Q ss_pred HHHHHHHhhcCCCeeEEEEEcc--------------CCEEEEEecCCcccchHHHHH
Q 034782 20 QDRIANAISRVNDVESMEVLVS--------------EKKVILTYKSASEESSGKAAV 62 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~--------------~~~V~V~~~~~~~~~~~~i~~ 62 (83)
...+.+.|..++||++++|.+. +..|.++.......+..|+..
T Consensus 146 EgELaRTI~~l~~V~~ArVhLalPe~s~F~~~~~~~tASV~l~l~~g~~L~~~QV~a 202 (574)
T PRK12800 146 ETELSRTIGTLRPVREARVHLAIPKPSAFTRQRDVASASVVLELRGGQGLERNQVDA 202 (574)
T ss_pred HHHHHHHHHhcCCcceEEEEEECCCCCccccCCCCCCEEEEEecCCCCCCCHHHHHH
Confidence 3567888999999999988753 345666665444555566543
No 129
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=24.37 E-value=2.1e+02 Score=24.79 Aligned_cols=33 Identities=18% Similarity=0.336 Sum_probs=24.3
Q ss_pred HHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc
Q 034782 21 DRIANAISRVNDVESMEVLVSEK--KVILTYKSAS 53 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~ 53 (83)
+.+|++|+.++||++++-....+ .+.++++.+.
T Consensus 65 ~piE~~l~~i~gv~~i~S~s~~G~s~i~l~f~~~~ 99 (1025)
T PRK10614 65 TPLERSLGRIAGVNEMTSSSSLGSTRIILQFDFDR 99 (1025)
T ss_pred HHHHHHhcCCCCceEEEEEecCCeEEEEEEEECCC
Confidence 67799999999999996555555 5666666554
No 130
>PRK11597 heat shock chaperone IbpB; Provisional
Probab=24.13 E-value=63 Score=21.62 Aligned_cols=23 Identities=0% Similarity=0.185 Sum_probs=18.8
Q ss_pred cCCCee--EEEEEccCCEEEEEecC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKS 51 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~ 51 (83)
.+||+. +++|++..+.++|.++.
T Consensus 50 dlPGv~kedi~V~v~~~~LtI~ge~ 74 (142)
T PRK11597 50 ALAGFRQEDLDIQLEGTRLTVKGTP 74 (142)
T ss_pred EeCCCCHHHeEEEEECCEEEEEEEE
Confidence 567864 78899999999999974
No 131
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=24.03 E-value=1.4e+02 Score=17.23 Aligned_cols=28 Identities=14% Similarity=0.264 Sum_probs=17.9
Q ss_pred ccChhHHHHHHHHhhcC----CCeeEEEEEccC
Q 034782 14 LRCDRCQDRIANAISRV----NDVESMEVLVSE 42 (83)
Q Consensus 14 M~C~~C~~~V~~aL~~i----~GV~~V~vdl~~ 42 (83)
-.|+.|.+.. +.|..+ +|+.-..+|..+
T Consensus 9 ~~C~~C~~a~-~~L~~l~~~~~~i~~~~idi~~ 40 (85)
T PRK11200 9 PGCPYCVRAK-ELAEKLSEERDDFDYRYVDIHA 40 (85)
T ss_pred CCChhHHHHH-HHHHhhcccccCCcEEEEECCC
Confidence 4699998654 455554 576666666654
No 132
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=23.93 E-value=69 Score=20.91 Aligned_cols=26 Identities=12% Similarity=0.280 Sum_probs=20.9
Q ss_pred hcCCCee--EEEEEccCCEEEEEecCCc
Q 034782 28 SRVNDVE--SMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 28 ~~i~GV~--~V~vdl~~~~V~V~~~~~~ 53 (83)
..+||+. +++|.+..+.++|++....
T Consensus 56 ~elPG~~kedI~I~~~~~~l~I~g~~~~ 83 (146)
T COG0071 56 AELPGVDKEDIEITVEGNTLTIRGEREE 83 (146)
T ss_pred EEcCCCChHHeEEEEECCEEEEEEEecc
Confidence 3568865 7899999999999998654
No 133
>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=23.76 E-value=1.2e+02 Score=21.06 Aligned_cols=31 Identities=16% Similarity=0.494 Sum_probs=22.3
Q ss_pred EEEEEeecc-Chh----HHHHHHHHhhcC--CCeeEEEE
Q 034782 7 EVILAADLR-CDR----CQDRIANAISRV--NDVESMEV 38 (83)
Q Consensus 7 ~~~l~V~M~-C~~----C~~~V~~aL~~i--~GV~~V~v 38 (83)
++++=+.++ |.. |+.+|.+-|.+. ++|. +.+
T Consensus 75 ~ITwy~SwSPC~~~~~~Ca~~i~~FL~~~~~~~v~-L~I 112 (188)
T PF08210_consen 75 RITWYLSWSPCPESDHCCAEKIAEFLKKHLKPNVS-LSI 112 (188)
T ss_dssp EEEEEESSS--CC----HHHHHHHHHCCC--TTEE-EEE
T ss_pred EEEEEEecCCCcchhhHHHHHHHHHHHHhCCCCCe-EEE
Confidence 445555444 999 999999999999 8884 444
No 134
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=23.47 E-value=2.2e+02 Score=19.51 Aligned_cols=33 Identities=27% Similarity=0.476 Sum_probs=20.4
Q ss_pred EEEEEEeecc-ChhHHHHHHHHhhcCCCeeEEEE
Q 034782 6 QEVILAADLR-CDRCQDRIANAISRVNDVESMEV 38 (83)
Q Consensus 6 ~~~~l~V~M~-C~~C~~~V~~aL~~i~GV~~V~v 38 (83)
+.+++.++.+ =+.-...|-+.|++++||+.|++
T Consensus 113 Anvtlsi~~ssm~~~V~~ii~kl~k~e~V~kVei 146 (150)
T COG4492 113 ANVTLSIDTSSMEKDVDKIIEKLRKVEGVEKVEI 146 (150)
T ss_pred eeEEEEEEchhhhhhHHHHHHHHhcccceeEEEE
Confidence 3445555322 23445566677788899998876
No 135
>PRK08279 long-chain-acyl-CoA synthetase; Validated
Probab=23.38 E-value=2.7e+02 Score=21.64 Aligned_cols=51 Identities=18% Similarity=0.158 Sum_probs=30.5
Q ss_pred HHHHHHHHhhcCCCeeEEEEE---c-----cCCEEEEEecCCcccchHHHHHhhhhccc
Q 034782 19 CQDRIANAISRVNDVESMEVL---V-----SEKKVILTYKSASEESSGKAAVGVKNNQS 69 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vd---l-----~~~~V~V~~~~~~~~~~~~i~~~~~~~~~ 69 (83)
....||+.|.++|+|.++.|- . ....+-|............+...+++.|+
T Consensus 473 ~p~eIE~~l~~~p~V~~a~v~gv~~~~~~~~~~~~~vv~~~~~~~~~~~l~~~l~~~L~ 531 (600)
T PRK08279 473 ATTEVENALSGFPGVEEAVVYGVEVPGTDGRAGMAAIVLADGAEFDLAALAAHLYERLP 531 (600)
T ss_pred CHHHHHHHHhcCCCcceEEEEEeecCCCCCccceeEEEecCCccCCHHHHHHHHHhhCc
Confidence 357899999999999887651 1 11223333332233445667677766664
No 136
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=23.36 E-value=1.5e+02 Score=16.73 Aligned_cols=19 Identities=16% Similarity=0.371 Sum_probs=17.5
Q ss_pred eccChhHHHHHHHHhhcCC
Q 034782 13 DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~ 31 (83)
|..|+.=.-+.+++|.+++
T Consensus 6 G~~CP~P~i~~k~~l~~l~ 24 (69)
T cd03423 6 GLRCPEPVMMLHKKVRKMK 24 (69)
T ss_pred CCcCCHHHHHHHHHHHcCC
Confidence 8999999999999999886
No 137
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=23.19 E-value=1.2e+02 Score=18.58 Aligned_cols=20 Identities=15% Similarity=0.388 Sum_probs=13.9
Q ss_pred eccChhHHHHHHHHhhcCCCee
Q 034782 13 DLRCDRCQDRIANAISRVNDVE 34 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~GV~ 34 (83)
--.|+.|. ++++.|.+. |+.
T Consensus 15 k~~Cp~C~-~ak~~L~~~-~i~ 34 (99)
T TIGR02189 15 RSSCCMCH-VVKRLLLTL-GVN 34 (99)
T ss_pred CCCCHHHH-HHHHHHHHc-CCC
Confidence 47799998 566677665 453
No 138
>cd06477 ACD_HspB3_Like Alpha crystallin domain (ACD) found in mammalian HspB3, also known as heat-shock protein 27-like protein (HSPL27, 17-kDa) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB3 is expressed in adult skeletal muscle, smooth muscle, and heart, and in several other fetal tissues. In muscle cells HspB3 forms an oligomeric 150 kDa complex with myotonic dystrophy protein kinase-binding protein (MKBP/ HspB2), this complex may comprise one of two independent muscle-cell specific chaperone systems. The expression of HspB3 is induced during muscle differentiation controlled by the myogenic factor MyoD. HspB3 may also interact with Hsp22 (HspB8).
Probab=23.17 E-value=78 Score=19.13 Aligned_cols=25 Identities=12% Similarity=0.109 Sum_probs=20.1
Q ss_pred cCCCee--EEEEEccCCEEEEEecCCc
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKSAS 53 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~~~ 53 (83)
.+||+. +++|++..+.++|++....
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~ge~~~ 40 (83)
T cd06477 14 DVVQFRPEDIIIQVFEGWLLIKGQHGV 40 (83)
T ss_pred EcCCCCHHHeEEEEECCEEEEEEEEcc
Confidence 467754 8999999999999998544
No 139
>smart00360 RRM RNA recognition motif.
Probab=23.16 E-value=1.2e+02 Score=15.32 Aligned_cols=38 Identities=13% Similarity=0.325 Sum_probs=28.1
Q ss_pred eccChhHHHHHHHHhhcCCCeeEEEEEccC------CEEEEEec
Q 034782 13 DLRCDRCQDRIANAISRVNDVESMEVLVSE------KKVILTYK 50 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~------~~V~V~~~ 50 (83)
+++.......|.+.+.....|..+.+.... +.+.|++.
T Consensus 3 ~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~ 46 (71)
T smart00360 3 NLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFE 46 (71)
T ss_pred CCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeC
Confidence 344555667888888888778888887664 38888886
No 140
>PF11210 DUF2996: Protein of unknown function (DUF2996); InterPro: IPR021374 This family of proteins has no known function.
Probab=23.08 E-value=34 Score=22.67 Aligned_cols=29 Identities=10% Similarity=0.180 Sum_probs=22.8
Q ss_pred HHHHHHhhcCCCeeEEEEEccCCEEEEEec
Q 034782 21 DRIANAISRVNDVESMEVLVSEKKVILTYK 50 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~ 50 (83)
=.++++|.+- |+.++++++.++..-|.++
T Consensus 17 PaL~~~l~~~-Gi~d~~L~f~~~~~pi~g~ 45 (119)
T PF11210_consen 17 PALKKALEKE-GISDVELSFEKNKRPIVGG 45 (119)
T ss_pred HHHHHHHHHc-CCCcceEEeccCCccccCC
Confidence 3567777776 9999999999997666663
No 141
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=23.01 E-value=1.7e+02 Score=25.66 Aligned_cols=34 Identities=21% Similarity=0.299 Sum_probs=27.5
Q ss_pred HHHHHHHhhcCCCeeEEEEEcc-CCEEEEEecCCc
Q 034782 20 QDRIANAISRVNDVESMEVLVS-EKKVILTYKSAS 53 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~-~~~V~V~~~~~~ 53 (83)
+..+.+.|+++|||.+|++.=. +..+.|..|++.
T Consensus 157 ~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~k 191 (1009)
T COG0841 157 ASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAK 191 (1009)
T ss_pred HHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHH
Confidence 4668999999999999998665 668888887544
No 142
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=22.89 E-value=1.6e+02 Score=25.69 Aligned_cols=54 Identities=6% Similarity=-0.012 Sum_probs=38.6
Q ss_pred HHHHHHHHhhcCCC-eeEEEEEccCCEEEEEecCCc------ccchHHHHHhhhhcccccc
Q 034782 19 CQDRIANAISRVND-VESMEVLVSEKKVILTYKSAS------EESSGKAAVGVKNNQSNKA 72 (83)
Q Consensus 19 C~~~V~~aL~~i~G-V~~V~vdl~~~~V~V~~~~~~------~~~~~~i~~~~~~~~~~~~ 72 (83)
=+.++++.+.++|| +.+++.|...++=.++.+.++ -.+..++...++..+.|..
T Consensus 698 ~a~~l~~~l~~~~g~~~~v~~~~~~~~~~i~i~vd~~~~~~~Gls~~~v~~~l~~~~~G~~ 758 (1049)
T PRK15127 698 ARNQLLGEAAKHPDMLVGVRPNGLEDTPQFKIDIDQEKAQALGVSISDINTTLGAAWGGSY 758 (1049)
T ss_pred HHHHHHHHHHhCCCceeeeecCccCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhCCce
Confidence 47889999999999 899988876664444443332 3667778888877776644
No 143
>PF09122 DUF1930: Domain of unknown function (DUF1930); InterPro: IPR015206 This entry represents a domain found in 3-mercaptopyruvate sulphurtransferase which has no known function. This domain adopts a structure consisting of a four-stranded antiparallel beta-sheet and an alpha-helix, arranged in a beta(2)-alpha-beta(2) fashion, and bearing a remarkable structural similarity to the FK506-binding protein class of peptidylprolyl cis/trans-isomerase []. ; PDB: 1OKG_A.
Probab=22.76 E-value=1.4e+02 Score=17.82 Aligned_cols=42 Identities=12% Similarity=0.177 Sum_probs=26.4
Q ss_pred EEEEEe-eccChhHHHHHHHHhhcCCCeeEEEEEccCCEEEEE
Q 034782 7 EVILAA-DLRCDRCQDRIANAISRVNDVESMEVLVSEKKVILT 48 (83)
Q Consensus 7 ~~~l~V-~M~C~~C~~~V~~aL~~i~GV~~V~vdl~~~~V~V~ 48 (83)
.+++.| |--|.+-...+..++..+--=+...|-|+++++.+.
T Consensus 20 ~~tl~vDg~~v~~PD~El~sA~~HlH~GEkA~V~FkS~Rv~~i 62 (68)
T PF09122_consen 20 NATLIVDGEIVENPDAELKSALVHLHIGEKAQVFFKSQRVAVI 62 (68)
T ss_dssp T--EEETTEEESS--HHHHHHHTT-BTT-EEEEEETTS-EEEE
T ss_pred ceEEEEcCeEcCCCCHHHHHHHHHhhcCceeEEEEecCcEEEE
Confidence 356777 777888888888888776544577888888887654
No 144
>PF04324 Fer2_BFD: BFD-like [2Fe-2S] binding domain; InterPro: IPR007419 The two Fe ions are each coordinated by two conserved cysteine residues. This domain occurs alone in small proteins such as bacterioferritin-associated ferredoxin (BFD, P13655 from SWISSPROT). The function of BFD is not known, but it may be a general redox and/or regulatory component involved in the iron storage or mobilisation functions of bacterioferritin in bacteria []. This domain is also found in nitrate reductase proteins in association with the nitrite and sulphite reductase 4Fe-4S domain (IPR006067 from INTERPRO), nitrite/sulphite reductase ferredoxin-like half domain (IPR005117 from INTERPRO) and pyridine nucleotide-disulphide oxidoreductase (IPR001327 from INTERPRO). It is also found in NifU nitrogen fixation proteins, in association with NifU-like N-terminal domain (IPR002871 from INTERPRO) and C-terminal domain (IPR001075 from INTERPRO).; PDB: 2HU9_A.
Probab=22.73 E-value=34 Score=18.64 Aligned_cols=17 Identities=18% Similarity=0.567 Sum_probs=3.8
Q ss_pred eeccChhHHHHHHHHhh
Q 034782 12 ADLRCDRCQDRIANAIS 28 (83)
Q Consensus 12 V~M~C~~C~~~V~~aL~ 28 (83)
+|..|++|...|++.|.
T Consensus 36 ~g~~Cg~C~~~v~~ll~ 52 (55)
T PF04324_consen 36 AGTGCGSCVPEVKDLLA 52 (55)
T ss_dssp TSS-TH-----------
T ss_pred CCCCCCCcccccccccc
Confidence 36789999998887764
No 145
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=22.71 E-value=3.5e+02 Score=20.57 Aligned_cols=58 Identities=14% Similarity=0.191 Sum_probs=39.8
Q ss_pred EEEEeeccChhH--HHHHHHHhh----cCCCeeEEEEEcc-CCEEEEEecCCc--ccchHHHHHhhh
Q 034782 8 VILAADLRCDRC--QDRIANAIS----RVNDVESMEVLVS-EKKVILTYKSAS--EESSGKAAVGVK 65 (83)
Q Consensus 8 ~~l~V~M~C~~C--~~~V~~aL~----~i~GV~~V~vdl~-~~~V~V~~~~~~--~~~~~~i~~~~~ 65 (83)
+.|+|++.|... +++|.+.++ .+++|+.+-+.+. .+.+.|..+... ..+..++.+.++
T Consensus 183 iayNV~L~t~d~~~a~~IAk~vR~~gGGL~~VqAmgl~~~~~~~vqVsmNl~d~~~t~~~~v~e~v~ 249 (298)
T TIGR02024 183 IAFNVNLGTSNLEIAKKIAKAIRFQGGGLRFVKAIGLYLEEKNLVQVSMNLTNYEKTPLYRVFELIK 249 (298)
T ss_pred EEEEEeecCCCHHHHHHHHHHhhhcCCCccceEEeeEeecCCCeEEEEeeccCCccCCHHHHHHHHH
Confidence 457777755543 688999888 7778999998887 477888765433 455555544443
No 146
>COG4545 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=22.67 E-value=46 Score=20.71 Aligned_cols=14 Identities=14% Similarity=0.389 Sum_probs=12.2
Q ss_pred eccChhHHHHHHHH
Q 034782 13 DLRCDRCQDRIANA 26 (83)
Q Consensus 13 ~M~C~~C~~~V~~a 26 (83)
.++|+.|+..++..
T Consensus 9 sn~Cpdca~a~eyl 22 (85)
T COG4545 9 SNLCPDCAPAVEYL 22 (85)
T ss_pred cccCcchHHHHHHH
Confidence 59999999998874
No 147
>PF03434 DUF276: DUF276 ; InterPro: IPR005096 This family is specific to Borrelia burgdorferi (Lyme disease spirochete). The protein is encoded on extrachromosomal DNA and is of unknown function.
Probab=22.45 E-value=1.4e+02 Score=22.39 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=23.8
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEE
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVIL 47 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V 47 (83)
-..|+.+|..++||+-+.+--..+++.+
T Consensus 89 y~Avk~aLL~~~gv~haNI~SsaGtini 116 (291)
T PF03434_consen 89 YEAVKSALLNLNGVEHANIKSSAGTINI 116 (291)
T ss_pred HHHHHHHhcCCCCceeeeeecCCCeeEE
Confidence 4679999999999998888888887765
No 148
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=22.25 E-value=2.1e+02 Score=17.85 Aligned_cols=47 Identities=9% Similarity=0.151 Sum_probs=34.0
Q ss_pred HHHHHHhhcCCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhhcccc
Q 034782 21 DRIANAISRVNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKNNQSN 70 (83)
Q Consensus 21 ~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~~~ 70 (83)
.+|+..|.+ .|+.--.+....+++.|.++. .+.+-+.++++++.+..
T Consensus 49 ~~v~~~L~~-~~I~~k~i~~~~~~llirf~~--~~~Ql~Ak~~L~~~L~~ 95 (101)
T PF13721_consen 49 FQVEQALKA-AGIAVKSIEQEGDSLLIRFDS--TDQQLKAKDVLSKALGD 95 (101)
T ss_pred HHHHHHHHH-CCCCcceEEeeCCEEEEEECC--HHHHHHHHHHHHHHcCC
Confidence 588888865 456655777899999999973 33455667778887743
No 149
>PRK09577 multidrug efflux protein; Reviewed
Probab=22.14 E-value=2.1e+02 Score=24.90 Aligned_cols=34 Identities=15% Similarity=0.136 Sum_probs=24.8
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCC--EEEEEecCCc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEK--KVILTYKSAS 53 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~--~V~V~~~~~~ 53 (83)
.+.+|++|+.++|++.++-.-..+ .+.|+++.+.
T Consensus 62 t~plE~~L~~v~gv~~i~S~S~~G~s~I~v~f~~g~ 97 (1032)
T PRK09577 62 TALIEREMNGAPGLLYTSATSSAGQASLSLTFKQGV 97 (1032)
T ss_pred HHHHHHHhcCCCCceEEEEEecCCeEEEEEEEECCC
Confidence 456889999999999887666666 5555666544
No 150
>cd06497 ACD_alphaA-crystallin_HspB4 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaA-crystallin (HspB4, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 does not belong to this group. Mutations inHspB4 have been associated with Autosomal Dominant Congenital Cataract (ADCC). The chaperone-like functions of HspB4 are considered important for maintaining lens transparency and preventing cataract.
Probab=22.09 E-value=85 Score=18.83 Aligned_cols=23 Identities=22% Similarity=0.200 Sum_probs=18.5
Q ss_pred cCCCee--EEEEEccCCEEEEEecC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKS 51 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~ 51 (83)
.+||+. +++|++..+.++|.+..
T Consensus 17 dlpG~~~edi~V~v~~~~L~I~g~~ 41 (86)
T cd06497 17 DVKHFSPEDLTVKVLDDYVEIHGKH 41 (86)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 457754 78999999999999974
No 151
>PF02682 AHS1: Allophanate hydrolase subunit 1; InterPro: IPR003833 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 1 of allophanate hydrolase (AHS1), which is found in urea carboxylase.; PDB: 3VA7_A 3MML_H 3OEP_A 3OPF_C 3ORE_A 2ZP2_A 2KWA_A 2PHC_B.
Probab=21.94 E-value=2.9e+02 Score=19.32 Aligned_cols=48 Identities=4% Similarity=0.127 Sum_probs=30.0
Q ss_pred ChhHHHHHHHHhhc--CCCeeEEEEEccCCEEEEEecCCcccchHHHHHhhhh
Q 034782 16 CDRCQDRIANAISR--VNDVESMEVLVSEKKVILTYKSASEESSGKAAVGVKN 66 (83)
Q Consensus 16 C~~C~~~V~~aL~~--i~GV~~V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~ 66 (83)
.......+.++|.+ ++||.++ -..-.++.|.|+ +...+...+...+.+
T Consensus 23 ~~~~v~al~~~l~~~~~~gi~e~--vp~~~sllV~fd-p~~~~~~~l~~~l~~ 72 (202)
T PF02682_consen 23 INARVLALARALRAAPLPGIVEV--VPAYRSLLVHFD-PLRIDRAALRAALEE 72 (202)
T ss_dssp HHHHHHHHHHHHHHHT-TTEEEE--EEESSEEEEEES-TTTSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCCCCeEEe--eccccEEEEEEc-CCcCCHHHHHHHHHH
Confidence 44556677777876 8898755 455568999998 444444444444443
No 152
>cd06470 ACD_IbpA-B_like Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. IbpA and IbpB are produced during high-level production of various heterologous proteins, specifically human prorenin, renin and bovine insulin-like growth factor 2 (bIGF-2), and are strongly associated with inclusion bodies containing these heterologous proteins. IbpA and IbpB work as an integrated system to stabilize thermally aggregated proteins in a disaggregation competent state. The chaperone activity of IbpB is also significantly elevated as the temperature increases from normal to heat shock. The high temperature results in the disassociation of 2-3-MDa IbpB oligomers into smaller approximately 6
Probab=21.50 E-value=88 Score=18.70 Aligned_cols=26 Identities=27% Similarity=0.363 Sum_probs=19.8
Q ss_pred cCCCee--EEEEEccCCEEEEEecCCcc
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKSASE 54 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~~~~ 54 (83)
.+||+. +++|.+..+.++|.+....+
T Consensus 18 ~lPG~~kedi~v~~~~~~L~I~g~~~~~ 45 (90)
T cd06470 18 AVAGFSEDDLEIEVENNQLTVTGKKADE 45 (90)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEccc
Confidence 467754 78888899999999875443
No 153
>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....
Probab=21.04 E-value=2.1e+02 Score=17.79 Aligned_cols=31 Identities=16% Similarity=0.349 Sum_probs=26.6
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEEEEec
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVILTYK 50 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~V~~~ 50 (83)
++.+.+.++++|+=..|.+...++.+.|.++
T Consensus 72 ak~l~~ivk~lp~~~~I~i~~~~~~l~I~~~ 102 (120)
T PF00712_consen 72 AKKLFDIVKKLPDDEEITIEVEENKLTIKSG 102 (120)
T ss_dssp HHHHHHHHHHSSSTSEEEEEEETTEEEEEET
T ss_pred hHHHHHHHHhCCCCCeEEEEEeCCEEEEEEC
Confidence 6888999999998557888889999999865
No 154
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=20.98 E-value=1.5e+02 Score=25.98 Aligned_cols=38 Identities=8% Similarity=0.279 Sum_probs=26.3
Q ss_pred HHHHHHHHhhcCCCeeEEEEEc--cCCEEEEEecCCcccc
Q 034782 19 CQDRIANAISRVNDVESMEVLV--SEKKVILTYKSASEES 56 (83)
Q Consensus 19 C~~~V~~aL~~i~GV~~V~vdl--~~~~V~V~~~~~~~~~ 56 (83)
=...||++|+.++|+..++=.- ..-.++|+++...+..
T Consensus 62 Vt~piE~~l~~i~gi~~i~S~S~~G~s~itv~F~~~~d~d 101 (1009)
T COG0841 62 VTQPIEQQLNGLDGLDYMSSTSSSGSSSITVTFELGTDPD 101 (1009)
T ss_pred HhHHHHHHHhcCCCccEEEEEEcCCcEEEEEEEeCCCChH
Confidence 3567899999999988774433 3446777777666544
No 155
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification]
Probab=20.97 E-value=1.7e+02 Score=23.66 Aligned_cols=36 Identities=17% Similarity=0.268 Sum_probs=25.2
Q ss_pred hHHHHHHHHhhcCCCeeEEEEEccCC-EEEEEecCCc
Q 034782 18 RCQDRIANAISRVNDVESMEVLVSEK-KVILTYKSAS 53 (83)
Q Consensus 18 ~C~~~V~~aL~~i~GV~~V~vdl~~~-~V~V~~~~~~ 53 (83)
.-..-+.+++++|+||...++...+. +|+|.+...+
T Consensus 155 ~T~Ei~~~Ai~RIkgv~~~~~~~~n~~~V~i~~~~sP 191 (531)
T KOG1960|consen 155 STAEITSKAIERIKGVFMQDVEINNVRNVYILVRASP 191 (531)
T ss_pred ccHHHHHHHHhhCccceeecccccccceEEEeecCCc
Confidence 34667889999999988666654443 6777766544
No 156
>cd06476 ACD_HspB2_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB2/heat shock 27kDa protein 2 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB2 is preferentially and constitutively expressed in skeletal muscle and heart. HspB2 shows homooligomeric activity and forms aggregates in muscle cytosol. Although its expression is not induced by heat shock, it redistributes to the insoluble fraction in response to heat shock. In the mouse heart, HspB2 plays a role in maintaining energetic balance, by protecting cardiac energetics during ischemia/reperfusion, and allowing for increased work during acute inotropic challenge. hHspB2 [previously also known as myotonic dystrophy protein kinase (DMPK) binding protein (MKBP)] is selectively up-regulated in skeletal muscles from myotonic dystrophy patients.
Probab=20.92 E-value=90 Score=18.71 Aligned_cols=24 Identities=8% Similarity=0.126 Sum_probs=18.9
Q ss_pred cCCCee--EEEEEccCCEEEEEecCC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKSA 52 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~~ 52 (83)
.+||+. +++|++..++++|.+...
T Consensus 14 dlpG~~~edi~V~v~~~~L~I~g~~~ 39 (83)
T cd06476 14 DVCHFTPDEITVRTVDNLLEVSARHP 39 (83)
T ss_pred EcCCCCHHHeEEEEECCEEEEEEEEc
Confidence 456654 789999999999999853
No 157
>PRK10329 glutaredoxin-like protein; Provisional
Probab=20.89 E-value=1.7e+02 Score=17.13 Aligned_cols=27 Identities=15% Similarity=0.292 Sum_probs=17.8
Q ss_pred eccChhHHHHHHHHhhcCCCeeEEEEEcc
Q 034782 13 DLRCDRCQDRIANAISRVNDVESMEVLVS 41 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~GV~~V~vdl~ 41 (83)
.=.|+.|.+ +++.|.+ .||.--.+|..
T Consensus 8 ~~~Cp~C~~-ak~~L~~-~gI~~~~idi~ 34 (81)
T PRK10329 8 RNDCVQCHA-TKRAMES-RGFDFEMINVD 34 (81)
T ss_pred CCCCHhHHH-HHHHHHH-CCCceEEEECC
Confidence 457999988 6666655 46665555554
No 158
>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=20.76 E-value=2.8e+02 Score=18.67 Aligned_cols=46 Identities=17% Similarity=0.022 Sum_probs=30.1
Q ss_pred hhHHHHHHHHhhcCCCeeEEEEEccCC-------------------EEEEEecCCcccchHHHHHh
Q 034782 17 DRCQDRIANAISRVNDVESMEVLVSEK-------------------KVILTYKSASEESSGKAAVG 63 (83)
Q Consensus 17 ~~C~~~V~~aL~~i~GV~~V~vdl~~~-------------------~V~V~~~~~~~~~~~~i~~~ 63 (83)
++|==-++....+++||.++.+=...+ -|.|.+| |..++.++|-+.
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG~~~~PtY~~Vc~g~tgh~E~V~V~yD-p~~is~~~Ll~~ 71 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGGYTPNPTYEEVCSGDTGHAEAVQVTYD-PKVISYEELLDV 71 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCCCCCCCChhhcccCCCCceEEEEEEEC-CCcCcHHHHHHH
Confidence 344445566667889999988744332 5778887 556666666554
No 159
>cd06478 ACD_HspB4-5-6 Alpha-crystallin domain found in alphaA-crystallin (HspB4), alphaB-crystallin (HspB5), and the small heat shock protein (sHsp) HspB6, also known as Hsp20. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 on the other hand is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. HspB5's functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its ol
Probab=20.71 E-value=1e+02 Score=18.23 Aligned_cols=23 Identities=22% Similarity=0.133 Sum_probs=18.0
Q ss_pred cCCCee--EEEEEccCCEEEEEecC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKS 51 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~ 51 (83)
.+||+. +++|++..+.++|.+..
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~g~~ 38 (83)
T cd06478 14 DVKHFSPEELSVKVLGDFVEIHGKH 38 (83)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 456654 78888999999999974
No 160
>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=20.70 E-value=1.5e+02 Score=20.71 Aligned_cols=19 Identities=16% Similarity=0.235 Sum_probs=16.8
Q ss_pred eccChhHHHHHHHHhhcCC
Q 034782 13 DLRCDRCQDRIANAISRVN 31 (83)
Q Consensus 13 ~M~C~~C~~~V~~aL~~i~ 31 (83)
|+.||.-.-+.+++|.+++
T Consensus 5 Gl~CP~Pvi~tKkal~~l~ 23 (194)
T TIGR03527 5 GLACPQPVILTKKALDELG 23 (194)
T ss_pred CCCCCHHHHHHHHHHHcCC
Confidence 7889999999999998886
No 161
>PF11113 Phage_head_chap: Head assembly gene product; InterPro: IPR021049 This head assembly protein is also refereed to as gene product 40 (Gp40). A specific gp20-gp40 membrane insertion structure constitutes the T4 prohead assembly initiation complex [].
Probab=20.65 E-value=1.9e+02 Score=16.71 Aligned_cols=31 Identities=19% Similarity=0.288 Sum_probs=21.7
Q ss_pred EEEccCCEEEEEecCCcccchHHHHHhhhhc
Q 034782 37 EVLVSEKKVILTYKSASEESSGKAAVGVKNN 67 (83)
Q Consensus 37 ~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~ 67 (83)
++...++++.+.|..+.++....+.+.+.+-
T Consensus 21 ~~~~~~G~l~vdfsT~~e~~k~el~phVe~c 51 (56)
T PF11113_consen 21 ELHYDDGKLKVDFSTPSEDRKEELAPHVEKC 51 (56)
T ss_pred EEEEcCCeEEEEEeCCCcchhhHHHHHHHHH
Confidence 3444599999999988776666666655443
No 162
>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB7 is a 25-kDa protein, preferentially expressed in heart and skeletal muscle. It binds the cytoskeleton protein alpha-filamin (also known as actin-binding protein 280). The expression of HspB7 is increased during rat muscle aging. Its expression is also modulated in obesity implicating this protein in this and related metabolic disorders. As the human gene encoding HspB7 is mapped to chromosome 1p36.23-p34.3 it is a positional candidate for several dystrophies and myopathies.
Probab=20.47 E-value=97 Score=18.58 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=18.5
Q ss_pred cCCCee--EEEEEccCCEEEEEecC
Q 034782 29 RVNDVE--SMEVLVSEKKVILTYKS 51 (83)
Q Consensus 29 ~i~GV~--~V~vdl~~~~V~V~~~~ 51 (83)
.+||+. +++|+...+.++|.++.
T Consensus 15 dlpG~~pedi~V~v~~~~L~I~ger 39 (81)
T cd06479 15 DVSDFSPEDIIVTTSNNQIEVHAEK 39 (81)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 457754 78899999999999874
No 163
>PRK09579 multidrug efflux protein; Reviewed
Probab=20.40 E-value=2.7e+02 Score=24.19 Aligned_cols=34 Identities=6% Similarity=0.201 Sum_probs=25.2
Q ss_pred HHHHHHHhhcCCCeeEEEEEccCCEEE--EEecCCc
Q 034782 20 QDRIANAISRVNDVESMEVLVSEKKVI--LTYKSAS 53 (83)
Q Consensus 20 ~~~V~~aL~~i~GV~~V~vdl~~~~V~--V~~~~~~ 53 (83)
.+.+|++|+.++|+++++=.-.++... |+++.+.
T Consensus 64 t~plE~~L~~v~gi~~i~S~S~~G~s~I~v~f~~g~ 99 (1017)
T PRK09579 64 TQPLQQSLASAEGIDYMTSVSRQNFSIISIYARIGA 99 (1017)
T ss_pred HHHHHHHhcCCCCceEEEEEecCCeEEEEEEEECCC
Confidence 467899999999999998766777444 4665444
No 164
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=20.03 E-value=1.1e+02 Score=19.49 Aligned_cols=32 Identities=19% Similarity=0.117 Sum_probs=17.1
Q ss_pred EEEEccCCEEEEEecCCcccchHHHHHhhhhcc
Q 034782 36 MEVLVSEKKVILTYKSASEESSGKAAVGVKNNQ 68 (83)
Q Consensus 36 V~vdl~~~~V~V~~~~~~~~~~~~i~~~~~~~~ 68 (83)
|+||..-.+-.|.+. ..+.....|..++++.|
T Consensus 91 vDvNVhP~K~eV~f~-~e~~i~~~i~~~i~~~L 122 (123)
T cd03482 91 VDVNVHPAKHEVRFR-DSRLVHDFIYHAVKKAL 122 (123)
T ss_pred eeeccCCCccEEEEC-CHHHHHHHHHHHHHHHh
Confidence 444555555555554 34445555666666554
Done!