Query 036889
Match_columns 86
No_of_seqs 145 out of 1036
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 06:26:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036889.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036889hhsearch_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 99.8 4.3E-18 9.4E-23 98.3 8.1 58 6-63 1-61 (62)
2 KOG1603 Copper chaperone [Inor 99.7 2.5E-17 5.4E-22 99.2 8.9 65 2-67 4-69 (73)
3 COG2608 CopZ Copper chaperone 99.7 5.2E-17 1.1E-21 97.5 8.7 62 3-64 2-66 (71)
4 KOG4656 Copper chaperone for s 99.2 4.5E-11 9.8E-16 85.2 8.1 65 4-69 8-73 (247)
5 PRK10671 copA copper exporting 99.2 3.8E-11 8.3E-16 97.9 8.3 66 1-68 1-67 (834)
6 PLN02957 copper, zinc superoxi 98.9 1.3E-08 2.7E-13 73.1 9.9 70 3-73 6-76 (238)
7 COG2217 ZntA Cation transport 98.6 2.5E-07 5.5E-12 75.3 7.6 60 3-63 2-65 (713)
8 TIGR00003 copper ion binding p 98.5 1.9E-06 4.1E-11 45.8 8.4 62 1-63 1-65 (68)
9 KOG0207 Cation transport ATPas 98.1 9.8E-06 2.1E-10 67.5 7.7 66 3-68 146-215 (951)
10 PRK10671 copA copper exporting 98.1 1.7E-05 3.8E-10 65.1 7.8 61 4-64 100-160 (834)
11 KOG0207 Cation transport ATPas 98.0 1E-05 2.2E-10 67.3 5.9 59 11-69 2-63 (951)
12 PRK11033 zntA zinc/cadmium/mer 97.8 9E-05 1.9E-09 60.5 7.6 61 3-63 53-114 (741)
13 PF02680 DUF211: Uncharacteriz 96.1 0.016 3.5E-07 36.8 4.8 65 3-69 5-77 (95)
14 COG1888 Uncharacterized protei 96.1 0.032 6.9E-07 35.3 5.9 68 3-71 6-81 (97)
15 TIGR02052 MerP mercuric transp 96.0 0.13 2.8E-06 29.5 9.0 60 4-63 24-86 (92)
16 PRK13748 putative mercuric red 94.4 0.31 6.8E-06 38.1 8.0 59 5-63 2-62 (561)
17 cd00371 HMA Heavy-metal-associ 91.8 0.72 1.6E-05 21.4 7.6 55 8-62 3-59 (63)
18 PF01883 DUF59: Domain of unkn 91.8 0.4 8.7E-06 27.8 3.9 32 4-36 35-72 (72)
19 PF13732 DUF4162: Domain of un 90.9 0.72 1.6E-05 27.2 4.6 44 25-70 26-70 (84)
20 PRK10553 assembly protein for 86.8 5 0.00011 24.8 6.3 45 15-59 16-61 (87)
21 PF01206 TusA: Sulfurtransfera 85.9 3.3 7.1E-05 23.6 5.0 54 6-69 2-57 (70)
22 PF14437 MafB19-deam: MafB19-l 85.9 2.8 6E-05 28.5 5.2 41 3-44 100-141 (146)
23 PRK11200 grxA glutaredoxin 1; 85.4 2.7 5.9E-05 24.7 4.6 35 3-40 2-40 (85)
24 PF03927 NapD: NapD protein; 85.4 6 0.00013 23.8 6.4 44 17-61 16-60 (79)
25 PF04972 BON: BON domain; Int 81.9 1.5 3.2E-05 24.5 2.2 32 19-50 2-35 (64)
26 COG4004 Uncharacterized protei 78.3 3.7 8E-05 26.0 3.3 24 24-47 35-58 (96)
27 cd04888 ACT_PheB-BS C-terminal 76.8 9.8 0.00021 21.4 4.7 31 5-36 43-74 (76)
28 COG3062 NapD Uncharacterized p 75.4 17 0.00037 23.0 5.7 46 15-61 17-63 (94)
29 TIGR02945 SUF_assoc FeS assemb 75.0 7 0.00015 23.8 4.0 35 5-39 41-78 (99)
30 PRK10638 glutaredoxin 3; Provi 73.0 11 0.00024 22.0 4.4 35 1-39 1-35 (83)
31 PRK10026 arsenate reductase; P 72.9 20 0.00043 24.0 6.0 52 1-62 1-52 (141)
32 PRK11023 outer membrane lipopr 72.9 16 0.00035 25.3 5.8 47 13-59 124-172 (191)
33 TIGR03406 FeS_long_SufT probab 71.2 7.1 0.00015 27.0 3.6 34 4-38 114-153 (174)
34 PF08002 DUF1697: Protein of u 71.1 27 0.00057 23.0 6.3 45 18-63 21-70 (137)
35 PRK11018 hypothetical protein; 71.1 18 0.00039 21.4 5.0 51 5-64 9-61 (78)
36 PF04312 DUF460: Protein of un 70.7 30 0.00064 23.4 7.0 46 29-74 39-88 (138)
37 PF08777 RRM_3: RNA binding mo 70.3 24 0.00052 22.2 6.4 57 5-61 2-60 (105)
38 PRK12759 bifunctional gluaredo 70.2 9.5 0.00021 29.4 4.5 35 1-39 1-35 (410)
39 TIGR02190 GlrX-dom Glutaredoxi 68.4 16 0.00034 21.2 4.3 32 5-39 10-41 (79)
40 PRK10555 aminoglycoside/multid 68.2 16 0.00035 31.4 5.8 44 17-60 158-209 (1037)
41 COG0695 GrxC Glutaredoxin and 68.1 13 0.00028 22.1 3.9 48 4-63 3-51 (80)
42 PRK11023 outer membrane lipopr 67.9 20 0.00043 24.8 5.3 46 14-59 47-95 (191)
43 PRK09577 multidrug efflux prot 67.3 19 0.00041 31.0 6.1 45 18-62 158-210 (1032)
44 PF09580 Spore_YhcN_YlaJ: Spor 66.5 30 0.00064 23.1 5.9 34 17-50 76-109 (177)
45 PF13291 ACT_4: ACT domain; PD 65.6 20 0.00043 20.6 4.4 30 5-35 50-79 (80)
46 COG2151 PaaD Predicted metal-s 65.4 14 0.00031 23.9 3.9 21 18-38 69-89 (111)
47 PF13192 Thioredoxin_3: Thiore 64.9 13 0.00028 21.5 3.4 12 5-18 3-14 (76)
48 PRK11198 LysM domain/BON super 64.7 21 0.00047 23.6 4.9 49 15-63 25-75 (147)
49 TIGR00489 aEF-1_beta translati 64.5 7.8 0.00017 24.0 2.5 22 16-37 62-83 (88)
50 TIGR02194 GlrX_NrdH Glutaredox 64.3 14 0.0003 21.0 3.4 40 12-63 7-46 (72)
51 cd03029 GRX_hybridPRX5 Glutare 64.0 24 0.00052 19.8 4.5 33 5-40 3-35 (72)
52 PRK10329 glutaredoxin-like pro 63.8 24 0.00052 20.9 4.5 27 12-40 9-35 (81)
53 PRK15127 multidrug efflux syst 62.9 24 0.00052 30.5 5.9 44 18-61 159-210 (1049)
54 TIGR00915 2A0602 The (Largely 62.0 25 0.00055 30.3 5.9 43 18-60 159-209 (1044)
55 TIGR01676 GLDHase galactonolac 61.9 16 0.00035 29.6 4.4 38 27-64 109-147 (541)
56 PF10934 DUF2634: Protein of u 61.7 17 0.00037 23.2 3.8 34 16-49 69-105 (112)
57 cd04883 ACT_AcuB C-terminal AC 61.2 26 0.00057 19.3 7.5 60 5-66 4-69 (72)
58 PRK04435 hypothetical protein; 61.0 27 0.00059 23.2 4.8 32 5-36 112-143 (147)
59 cd06482 ACD_HspB10 Alpha cryst 60.7 9.8 0.00021 23.3 2.5 23 27-49 15-39 (87)
60 cd03027 GRX_DEP Glutaredoxin ( 60.4 29 0.00062 19.5 4.7 27 12-40 9-35 (73)
61 COG2092 EFB1 Translation elong 55.5 13 0.00028 23.3 2.3 24 14-37 60-83 (88)
62 PRK00435 ef1B elongation facto 54.5 15 0.00031 22.8 2.5 23 15-37 61-83 (88)
63 PRK14054 methionine sulfoxide 54.0 35 0.00075 23.6 4.5 47 11-60 9-77 (172)
64 cd06470 ACD_IbpA-B_like Alpha- 54.0 16 0.00034 22.0 2.6 23 27-49 18-42 (90)
65 cd06471 ACD_LpsHSP_like Group 53.1 17 0.00036 21.7 2.6 23 27-49 17-41 (93)
66 TIGR01617 arsC_related transcr 53.0 32 0.00068 21.6 4.0 50 12-69 7-58 (117)
67 KOG3411 40S ribosomal protein 52.6 15 0.00032 24.8 2.4 49 12-60 91-140 (143)
68 TIGR00365 monothiol glutaredox 52.5 24 0.00052 21.6 3.3 40 12-63 25-65 (97)
69 cd06475 ACD_HspB1_like Alpha c 52.5 18 0.00038 21.8 2.6 23 27-49 17-41 (86)
70 PRK10568 periplasmic protein; 52.2 61 0.0013 22.6 5.6 48 12-59 56-106 (203)
71 PRK10743 heat shock protein Ib 51.9 16 0.00034 24.2 2.5 22 27-48 52-75 (137)
72 smart00653 eIF2B_5 domain pres 51.8 33 0.00072 22.0 3.9 26 34-60 50-75 (110)
73 cd06477 ACD_HspB3_Like Alpha c 51.5 18 0.00039 21.9 2.5 23 27-49 14-38 (83)
74 TIGR02183 GRXA Glutaredoxin, G 51.4 25 0.00053 20.8 3.1 27 12-39 8-38 (86)
75 COG2433 Uncharacterized conser 51.2 59 0.0013 27.1 6.0 46 29-74 251-300 (652)
76 TIGR00914 2A0601 heavy metal e 51.1 28 0.00061 29.9 4.4 44 17-60 699-752 (1051)
77 PRK11597 heat shock chaperone 50.4 17 0.00036 24.3 2.5 22 27-48 50-73 (142)
78 cd03036 ArsC_like Arsenate Red 49.8 57 0.0012 20.3 4.8 43 12-62 7-49 (111)
79 COG0071 IbpA Molecular chapero 49.8 18 0.00039 23.7 2.5 25 26-50 56-82 (146)
80 TIGR03027 pepcterm_export puta 49.7 61 0.0013 21.6 5.1 57 6-62 38-109 (165)
81 cd03421 SirA_like_N SirA_like_ 49.4 47 0.001 18.6 5.2 48 7-64 2-51 (67)
82 TIGR01709 typeII_sec_gspL gene 49.2 69 0.0015 24.1 5.9 49 20-69 314-369 (384)
83 COG4130 Predicted sugar epimer 48.7 32 0.0007 25.4 3.8 64 7-71 7-70 (272)
84 PF13740 ACT_6: ACT domain; PD 47.8 54 0.0012 18.9 6.3 59 3-61 1-65 (76)
85 TIGR02196 GlrX_YruB Glutaredox 47.8 36 0.00079 18.2 3.3 25 12-38 8-32 (74)
86 COG0841 AcrB Cation/multidrug 47.7 67 0.0015 28.0 6.1 46 17-62 156-210 (1009)
87 KOG4730 D-arabinono-1, 4-lacto 47.7 23 0.0005 28.6 3.1 31 34-64 105-135 (518)
88 cd04877 ACT_TyrR N-terminal AC 46.8 21 0.00046 20.4 2.2 19 17-35 50-68 (74)
89 PF00352 TBP: Transcription fa 46.8 44 0.00096 19.9 3.8 23 38-60 55-77 (86)
90 PRK15078 polysaccharide export 46.4 56 0.0012 25.1 5.1 57 6-62 133-202 (379)
91 cd06478 ACD_HspB4-5-6 Alpha-cr 46.2 26 0.00055 20.9 2.6 22 27-48 14-37 (83)
92 PF03958 Secretin_N: Bacterial 45.9 51 0.0011 18.8 3.8 28 33-60 47-75 (82)
93 PF05046 Img2: Mitochondrial l 45.7 68 0.0015 19.5 5.4 58 4-63 29-87 (87)
94 cd06476 ACD_HspB2_like Alpha c 45.5 25 0.00054 21.1 2.5 23 27-49 14-38 (83)
95 PRK10503 multidrug efflux syst 45.1 65 0.0014 27.9 5.7 42 19-60 169-219 (1040)
96 TIGR02189 GlrX-like_plant Glut 45.0 59 0.0013 19.9 4.2 49 5-63 10-59 (99)
97 cd06497 ACD_alphaA-crystallin_ 44.8 27 0.00058 21.0 2.6 23 27-49 17-41 (86)
98 PF00462 Glutaredoxin: Glutare 44.6 51 0.0011 17.7 4.3 40 12-63 7-47 (60)
99 COG0277 GlcD FAD/FMN-containin 44.5 26 0.00056 26.4 3.0 37 27-63 80-117 (459)
100 cd03418 GRX_GRXb_1_3_like Glut 43.6 57 0.0012 18.0 4.5 26 12-39 8-33 (75)
101 PF03434 DUF276: DUF276 ; Int 43.5 37 0.0008 25.3 3.5 29 18-46 89-117 (291)
102 cd03035 ArsC_Yffb Arsenate Red 43.5 79 0.0017 19.6 5.0 44 12-63 7-50 (105)
103 cd04902 ACT_3PGDH-xct C-termin 43.4 47 0.001 18.2 3.3 16 20-35 54-69 (73)
104 COG2823 OsmY Predicted peripla 43.1 93 0.002 22.0 5.4 46 14-59 129-177 (196)
105 cd06481 ACD_HspB9_like Alpha c 43.0 29 0.00064 20.9 2.5 22 27-48 14-37 (87)
106 cd02977 ArsC_family Arsenate R 42.9 76 0.0016 19.2 4.5 43 12-62 7-49 (105)
107 PF00013 KH_1: KH domain syndr 42.8 56 0.0012 17.7 3.5 35 22-59 22-58 (60)
108 KOG3308 Uncharacterized protei 42.7 33 0.00072 24.9 3.1 59 1-59 1-63 (225)
109 cd04908 ACT_Bt0572_1 N-termina 42.6 59 0.0013 17.9 7.5 60 3-64 2-63 (66)
110 cd06464 ACD_sHsps-like Alpha-c 42.4 25 0.00054 20.0 2.1 23 27-49 14-38 (88)
111 TIGR01678 FAD_lactone_ox sugar 42.3 51 0.0011 25.7 4.3 30 35-64 71-100 (438)
112 PF00873 ACR_tran: AcrB/AcrD/A 42.2 60 0.0013 27.7 5.0 45 16-60 687-741 (1021)
113 TIGR02898 spore_YhcN_YlaJ spor 42.2 1.1E+02 0.0024 20.9 7.2 45 16-60 54-109 (158)
114 cd06479 ACD_HspB7_like Alpha c 42.1 31 0.00068 20.7 2.5 22 27-48 15-38 (81)
115 cd04879 ACT_3PGDH-like ACT_3PG 42.1 33 0.00072 18.2 2.5 19 18-36 52-70 (71)
116 TIGR02181 GRX_bact Glutaredoxi 42.0 62 0.0013 18.3 3.8 25 12-38 7-31 (79)
117 PF02107 FlgH: Flagellar L-rin 41.9 17 0.00037 25.1 1.5 29 27-55 110-138 (179)
118 PF01565 FAD_binding_4: FAD bi 41.4 49 0.0011 20.7 3.5 30 34-63 57-86 (139)
119 cd06472 ACD_ScHsp26_like Alpha 40.9 36 0.00079 20.3 2.7 23 27-49 16-41 (92)
120 PF04273 DUF442: Putative phos 40.9 44 0.00096 21.2 3.2 33 41-74 7-39 (110)
121 TIGR02200 GlrX_actino Glutared 40.7 63 0.0014 17.7 4.4 25 12-38 8-32 (77)
122 PRK08343 secD preprotein trans 40.3 79 0.0017 24.7 5.1 51 18-70 69-122 (417)
123 COG3643 Glutamate formiminotra 40.2 81 0.0018 23.7 4.8 58 1-59 1-63 (302)
124 TIGR00334 5S_RNA_mat_M5 ribonu 40.2 53 0.0011 22.9 3.7 48 14-62 56-109 (174)
125 cd00292 EF1B Elongation factor 40.1 33 0.00072 21.1 2.5 22 16-37 62-83 (88)
126 cd06498 ACD_alphaB-crystallin_ 39.9 36 0.00078 20.4 2.6 22 27-48 14-37 (84)
127 PF08478 POTRA_1: POTRA domain 39.6 46 0.001 18.4 2.9 29 18-46 36-65 (69)
128 cd02973 TRX_GRX_like Thioredox 39.2 64 0.0014 17.5 3.4 16 12-28 9-24 (67)
129 TIGR03665 arCOG04150 arCOG0415 39.0 87 0.0019 21.2 4.6 39 20-59 18-57 (172)
130 PRK10614 multidrug efflux syst 39.0 73 0.0016 27.5 5.1 43 18-60 159-210 (1025)
131 COG1432 Uncharacterized conser 38.7 56 0.0012 22.3 3.7 34 38-71 110-144 (181)
132 PHA03050 glutaredoxin; Provisi 38.4 74 0.0016 19.9 4.0 23 5-31 16-38 (108)
133 PRK10509 bacterioferritin-asso 38.3 17 0.00036 21.0 0.9 21 7-28 33-53 (64)
134 PRK09579 multidrug efflux prot 38.0 85 0.0018 27.1 5.3 43 18-60 158-209 (1017)
135 PF08712 Nfu_N: Scaffold prote 37.9 73 0.0016 19.3 3.8 40 19-60 37-78 (87)
136 cd06526 metazoan_ACD Alpha-cry 37.6 36 0.00078 20.0 2.3 22 27-48 14-37 (83)
137 PF07837 FTCD_N: Formiminotran 37.4 1.4E+02 0.003 20.9 5.5 43 16-58 16-60 (178)
138 cd03028 GRX_PICOT_like Glutare 37.2 59 0.0013 19.3 3.2 39 13-63 22-61 (90)
139 PF08271 TF_Zn_Ribbon: TFIIB z 37.2 46 0.001 17.3 2.5 21 12-44 1-21 (43)
140 PF09158 MotCF: Bacteriophage 36.6 1.2E+02 0.0025 19.5 5.1 36 27-63 39-74 (103)
141 cd00291 SirA_YedF_YeeD SirA, Y 36.5 77 0.0017 17.5 3.8 49 7-64 2-52 (69)
142 cd04878 ACT_AHAS N-terminal AC 36.4 70 0.0015 16.9 3.5 17 18-34 55-71 (72)
143 cd06167 LabA_like LabA_like pr 36.4 69 0.0015 20.3 3.7 29 42-70 103-132 (149)
144 cd00298 ACD_sHsps_p23-like Thi 35.9 38 0.00081 18.2 2.1 22 27-48 13-36 (80)
145 PRK01655 spxA transcriptional 35.1 1.1E+02 0.0023 19.8 4.4 48 5-61 2-49 (131)
146 PRK05528 methionine sulfoxide 34.7 1.2E+02 0.0027 20.5 4.8 47 11-60 7-70 (156)
147 PF01873 eIF-5_eIF-2B: Domain 34.5 49 0.0011 21.7 2.7 29 30-60 60-88 (125)
148 PHA03075 glutaredoxin-like pro 34.4 1.4E+02 0.003 19.8 6.7 64 7-71 6-78 (123)
149 TIGR01679 bact_FAD_ox FAD-link 34.4 50 0.0011 25.4 3.2 34 31-64 60-94 (419)
150 COG4492 PheB ACT domain-contai 34.3 98 0.0021 21.1 4.2 32 28-63 109-140 (150)
151 PRK10614 multidrug efflux syst 34.3 70 0.0015 27.6 4.2 44 17-60 676-729 (1025)
152 cd02410 archeal_CPSF_KH The ar 33.7 1.5E+02 0.0033 20.1 6.5 53 19-71 56-116 (145)
153 smart00749 BON bacterial OsmY 33.6 76 0.0016 16.5 4.9 41 19-59 2-45 (62)
154 PF00736 EF1_GNE: EF-1 guanine 33.6 54 0.0012 20.1 2.7 23 15-37 61-84 (89)
155 TIGR00311 aIF-2beta translatio 33.5 81 0.0018 20.9 3.7 21 40-60 72-92 (133)
156 PRK11589 gcvR glycine cleavage 33.2 1.4E+02 0.0029 20.8 4.9 62 1-62 5-72 (190)
157 cd02066 GRX_family Glutaredoxi 33.1 79 0.0017 16.6 4.7 25 12-38 8-32 (72)
158 KOG4034 Uncharacterized conser 33.0 1.1E+02 0.0023 21.4 4.2 57 4-63 111-169 (169)
159 cd04901 ACT_3PGDH C-terminal A 32.9 56 0.0012 17.7 2.5 18 19-36 51-68 (69)
160 PF07338 DUF1471: Protein of u 32.8 80 0.0017 17.6 3.1 30 41-70 6-42 (56)
161 cd03420 SirA_RHOD_Pry_redox Si 32.5 1E+02 0.0022 17.5 5.8 49 7-64 2-52 (69)
162 TIGR01677 pln_FAD_oxido plant- 32.4 82 0.0018 25.6 4.2 40 25-64 82-122 (557)
163 PRK00299 sulfur transfer prote 32.2 1.1E+02 0.0024 18.0 6.0 54 2-64 7-62 (81)
164 PLN02465 L-galactono-1,4-lacto 32.2 81 0.0018 25.8 4.1 37 28-64 145-182 (573)
165 COG2177 FtsX Cell division pro 32.2 87 0.0019 23.4 4.0 45 5-63 63-108 (297)
166 PF11491 DUF3213: Protein of u 32.2 88 0.0019 19.5 3.4 46 18-63 13-61 (88)
167 PRK03988 translation initiatio 32.2 83 0.0018 21.0 3.6 22 39-60 76-97 (138)
168 TIGR00735 hisF imidazoleglycer 32.1 1.4E+02 0.0031 21.2 5.0 35 34-69 8-50 (254)
169 cd04903 ACT_LSD C-terminal ACT 32.0 60 0.0013 17.2 2.5 19 18-36 52-70 (71)
170 PRK13344 spxA transcriptional 31.9 1.5E+02 0.0032 19.3 6.4 43 12-62 8-50 (132)
171 PRK07334 threonine dehydratase 31.8 2.3E+02 0.005 21.6 8.7 63 5-67 327-402 (403)
172 PF01514 YscJ_FliF: Secretory 31.7 55 0.0012 22.9 2.8 20 18-37 117-136 (206)
173 cd03032 ArsC_Spx Arsenate Redu 31.5 1.3E+02 0.0029 18.6 4.5 42 12-61 8-49 (115)
174 TIGR00915 2A0602 The (Largely 31.5 88 0.0019 27.1 4.4 44 17-60 698-751 (1044)
175 COG2100 Predicted Fe-S oxidore 31.4 1.2E+02 0.0027 23.8 4.7 48 19-73 178-226 (414)
176 PRK10568 periplasmic protein; 31.3 1.8E+02 0.0039 20.2 5.5 45 14-58 137-184 (203)
177 COG1393 ArsC Arsenate reductas 31.2 1.5E+02 0.0032 19.0 5.7 47 6-62 5-51 (117)
178 PF01849 NAC: NAC domain; Int 31.1 59 0.0013 18.1 2.4 22 26-47 14-35 (58)
179 PRK12559 transcriptional regul 31.0 1.5E+02 0.0033 19.1 6.4 43 12-62 8-50 (131)
180 TIGR03527 selenium_YedF seleni 30.8 1.9E+02 0.0041 20.2 6.5 45 10-63 4-50 (194)
181 TIGR03028 EpsE polysaccharide 30.7 1.9E+02 0.0042 20.3 5.6 56 6-62 39-109 (239)
182 COG0425 SirA Predicted redox p 30.6 1.2E+02 0.0027 18.0 6.9 56 4-69 5-63 (78)
183 PRK12788 flgH flagellar basal 30.5 34 0.00073 24.9 1.6 28 28-55 165-192 (234)
184 cd03031 GRX_GRX_like Glutaredo 30.5 1.4E+02 0.003 20.0 4.4 25 13-39 15-39 (147)
185 TIGR02180 GRX_euk Glutaredoxin 30.3 93 0.002 17.3 3.2 17 12-29 7-23 (84)
186 PRK10503 multidrug efflux syst 29.9 97 0.0021 26.9 4.4 43 18-60 691-743 (1040)
187 PF05309 TraE: TraE protein; 29.8 72 0.0016 21.7 3.1 18 31-48 130-147 (187)
188 PF05922 Inhibitor_I9: Peptida 29.8 54 0.0012 18.5 2.1 19 20-38 59-77 (82)
189 TIGR02830 spore_III_AG stage I 29.6 55 0.0012 23.0 2.5 29 17-45 62-92 (186)
190 PF11360 DUF3110: Protein of u 29.5 91 0.002 19.1 3.2 22 49-70 55-77 (86)
191 PF05193 Peptidase_M16_C: Pept 29.4 74 0.0016 19.8 2.9 23 40-62 19-42 (184)
192 PRK10555 aminoglycoside/multid 29.3 1E+02 0.0022 26.8 4.4 46 16-61 696-751 (1037)
193 PRK12698 flgH flagellar basal 29.3 37 0.0008 24.4 1.6 29 27-55 153-181 (224)
194 TIGR00288 conserved hypothetic 29.1 1E+02 0.0022 21.1 3.7 29 41-69 108-137 (160)
195 PRK13763 putative RNA-processi 29.0 1.9E+02 0.0042 19.7 6.4 54 3-58 3-62 (180)
196 PRK00058 methionine sulfoxide 28.7 1.4E+02 0.003 21.4 4.5 47 11-60 51-119 (213)
197 cd04876 ACT_RelA-SpoT ACT dom 28.7 65 0.0014 16.3 2.2 19 17-35 52-70 (71)
198 PF00873 ACR_tran: AcrB/AcrD/A 28.5 2.1E+02 0.0045 24.6 6.1 42 18-59 62-107 (1021)
199 PRK14719 bifunctional RNAse/5- 27.9 1.5E+02 0.0033 22.7 4.8 48 6-63 47-96 (360)
200 PHA02125 thioredoxin-like prot 27.8 82 0.0018 17.8 2.7 16 12-28 8-23 (75)
201 TIGR02761 TraE_TIGR type IV co 27.5 76 0.0017 21.7 2.9 36 13-48 100-147 (181)
202 PRK13014 methionine sulfoxide 27.3 1.1E+02 0.0023 21.5 3.6 47 11-60 14-82 (186)
203 PRK06027 purU formyltetrahydro 27.2 2.6E+02 0.0055 20.6 7.3 62 1-62 3-74 (286)
204 PF00011 HSP20: Hsp20/alpha cr 27.1 66 0.0014 19.2 2.3 24 27-50 14-39 (102)
205 cd00652 TBP_TLF TATA box bindi 26.7 1.1E+02 0.0023 21.0 3.5 25 37-61 144-168 (174)
206 COG3453 Uncharacterized protei 26.6 1.1E+02 0.0023 20.5 3.2 33 40-73 7-39 (130)
207 PF07582 AP_endonuc_2_N: AP en 26.5 72 0.0016 18.0 2.2 21 52-72 3-23 (55)
208 cd03309 CmuC_like CmuC_like. P 26.4 93 0.002 23.2 3.4 39 12-51 217-266 (321)
209 PRK12407 flgH flagellar basal 26.4 43 0.00094 24.1 1.5 29 27-55 150-178 (221)
210 PRK01641 leuD isopropylmalate 26.3 86 0.0019 22.2 3.0 42 21-63 129-173 (200)
211 PRK11152 ilvM acetolactate syn 26.2 1.5E+02 0.0033 17.6 3.7 23 14-36 53-75 (76)
212 PF15643 Tox-PL-2: Papain fold 26.2 80 0.0017 20.2 2.5 22 11-33 18-39 (100)
213 cd04874 ACT_Af1403 N-terminal 26.1 83 0.0018 16.7 2.4 29 5-36 43-71 (72)
214 PRK12701 flgH flagellar basal 26.1 45 0.00098 24.1 1.6 28 28-55 160-187 (230)
215 PF01936 NYN: NYN domain; Int 25.9 89 0.0019 19.4 2.8 28 41-68 98-126 (146)
216 PF13476 AAA_23: AAA domain; P 25.8 1.3E+02 0.0028 19.4 3.6 36 25-60 4-41 (202)
217 PF13193 AMP-binding_C: AMP-bi 25.7 76 0.0017 17.7 2.3 40 21-60 2-46 (73)
218 COG0106 HisA Phosphoribosylfor 25.7 2.5E+02 0.0055 20.6 5.4 48 20-67 113-165 (241)
219 PRK00249 flgH flagellar basal 25.7 46 0.001 23.8 1.6 29 27-55 152-180 (222)
220 COG0054 RibH Riboflavin syntha 25.7 2.2E+02 0.0049 19.4 5.0 52 14-70 27-79 (152)
221 PRK12696 flgH flagellar basal 25.6 45 0.00097 24.2 1.5 28 28-55 167-194 (236)
222 PRK10824 glutaredoxin-4; Provi 25.2 94 0.002 20.0 2.8 40 12-63 28-68 (115)
223 PRK12697 flgH flagellar basal 25.1 48 0.001 24.0 1.5 28 28-55 157-184 (226)
224 cd04909 ACT_PDH-BS C-terminal 25.1 1.3E+02 0.0028 16.4 6.3 51 13-63 10-67 (69)
225 TIGR00914 2A0601 heavy metal e 25.1 1.6E+02 0.0036 25.4 4.9 42 20-61 170-220 (1051)
226 PRK09579 multidrug efflux prot 25.0 1.3E+02 0.0029 26.0 4.4 45 16-60 672-726 (1017)
227 TIGR02159 PA_CoA_Oxy4 phenylac 24.9 1.3E+02 0.0027 20.2 3.5 20 18-38 45-64 (146)
228 cd04516 TBP_eukaryotes eukaryo 24.8 1.2E+02 0.0026 20.8 3.5 25 36-60 142-166 (174)
229 PRK11670 antiporter inner memb 24.8 1.6E+02 0.0035 22.4 4.4 21 18-38 67-87 (369)
230 PRK11282 glcE glycolate oxidas 24.8 1.1E+02 0.0024 23.3 3.5 37 27-63 42-79 (352)
231 PF04324 Fer2_BFD: BFD-like [2 24.7 28 0.00061 18.9 0.2 17 11-27 37-53 (55)
232 PF04461 DUF520: Protein of un 24.6 2.4E+02 0.0053 19.4 4.9 56 3-62 92-149 (160)
233 cd04518 TBP_archaea archaeal T 24.6 1.2E+02 0.0026 20.8 3.4 26 36-61 142-167 (174)
234 PRK03359 putative electron tra 24.5 1.6E+02 0.0034 21.5 4.2 48 27-74 9-67 (256)
235 COG5494 Predicted thioredoxin/ 24.5 2.6E+02 0.0056 20.6 5.2 51 7-59 15-85 (265)
236 PF09122 DUF1930: Domain of un 24.5 1.2E+02 0.0027 17.9 3.0 38 6-43 22-59 (68)
237 TIGR00014 arsC arsenate reduct 24.5 1.9E+02 0.004 18.1 5.0 44 12-63 7-50 (114)
238 cd04517 TLF TBP-like factors ( 24.4 1.3E+02 0.0028 20.7 3.5 24 37-60 144-167 (174)
239 smart00362 RRM_2 RNA recogniti 24.3 1.1E+02 0.0025 15.5 5.1 53 7-60 2-58 (72)
240 PRK09989 hypothetical protein; 24.3 61 0.0013 22.7 1.9 27 47-73 217-243 (258)
241 PRK10853 putative reductase; P 24.2 2E+02 0.0043 18.3 5.6 48 6-63 4-51 (118)
242 PF01106 NifU: NifU-like domai 24.1 1.5E+02 0.0033 17.0 3.5 30 4-34 28-65 (68)
243 PRK12336 translation initiatio 24.0 1.3E+02 0.0028 21.1 3.6 22 39-60 72-93 (201)
244 PF03960 ArsC: ArsC family; I 23.9 1.8E+02 0.004 17.7 5.2 48 12-67 4-53 (110)
245 PRK14114 1-(5-phosphoribosyl)- 23.6 1.8E+02 0.004 20.8 4.4 33 33-65 123-160 (241)
246 cd03423 SirA SirA (also known 23.6 1.5E+02 0.0033 16.7 5.2 48 8-64 3-52 (69)
247 PF04459 DUF512: Protein of un 23.5 2E+02 0.0043 20.3 4.4 41 20-60 114-158 (204)
248 PF02983 Pro_Al_protease: Alph 23.4 1.5E+02 0.0033 16.7 4.6 21 28-48 22-42 (62)
249 PRK12699 flgH flagellar basal 23.2 55 0.0012 24.0 1.6 28 28-55 178-205 (246)
250 cd02976 NrdH NrdH-redoxin (Nrd 23.1 1.3E+02 0.0028 15.8 3.4 25 12-38 8-32 (73)
251 COG3870 Uncharacterized protei 23.0 1.8E+02 0.004 18.8 3.8 26 45-70 7-34 (109)
252 PF13405 EF-hand_6: EF-hand do 23.0 55 0.0012 15.4 1.1 16 47-62 15-31 (31)
253 KOG3476 Microtubule-associated 22.8 39 0.00085 21.3 0.7 14 12-25 1-14 (100)
254 PRK12700 flgH flagellar basal 22.8 58 0.0013 23.6 1.6 28 28-55 161-188 (230)
255 PRK15127 multidrug efflux syst 22.6 1.5E+02 0.0032 25.8 4.2 45 16-60 697-752 (1049)
256 COG0841 AcrB Cation/multidrug 22.6 3.2E+02 0.0069 24.0 6.1 44 17-60 62-113 (1009)
257 PRK13726 conjugal transfer pil 22.5 1.1E+02 0.0023 21.4 2.9 18 31-48 130-147 (188)
258 PF12156 ATPase-cat_bd: Putati 22.3 68 0.0015 19.5 1.7 21 11-33 26-46 (88)
259 TIGR02571 ComEB ComE operon pr 22.0 2.5E+02 0.0055 18.7 6.2 51 5-69 88-138 (151)
260 PF06727 DUF1207: Protein of u 21.9 84 0.0018 24.2 2.4 22 19-40 30-51 (338)
261 PF04805 Pox_E10: E10-like pro 21.9 83 0.0018 18.8 1.9 20 10-29 14-33 (70)
262 COG1094 Predicted RNA-binding 21.9 2.3E+02 0.005 20.1 4.5 40 19-59 27-69 (194)
263 cd04920 ACT_AKiii-DAPDC_2 ACT 21.9 1.6E+02 0.0034 16.2 5.6 47 11-60 9-56 (63)
264 COG4545 Glutaredoxin-related p 21.8 70 0.0015 19.8 1.6 25 1-28 1-25 (85)
265 cd03034 ArsC_ArsC Arsenate Red 21.4 2.2E+02 0.0047 17.7 5.0 43 12-62 7-49 (112)
266 PRK11230 glycolate oxidase sub 21.3 1.4E+02 0.0031 23.6 3.7 36 28-63 106-142 (499)
267 PF15169 DUF4564: Domain of un 21.2 2.9E+02 0.0063 19.6 4.8 43 24-67 59-101 (187)
268 PRK05812 secD preprotein trans 21.2 3.1E+02 0.0066 22.1 5.5 52 18-70 128-182 (498)
269 TIGR01129 secD protein-export 21.1 3.1E+02 0.0067 21.2 5.4 51 18-69 42-95 (397)
270 PRK09997 hydroxypyruvate isome 21.0 89 0.0019 21.9 2.3 25 47-71 217-241 (258)
271 PRK13674 putative GTP cyclohyd 21.0 1.1E+02 0.0024 22.6 2.9 29 11-39 221-249 (271)
272 PF09883 DUF2110: Uncharacteri 21.0 1.4E+02 0.003 21.8 3.2 29 40-69 160-189 (225)
273 TIGR03234 OH-pyruv-isom hydrox 21.0 88 0.0019 21.7 2.2 25 47-71 216-240 (254)
274 cd04887 ACT_MalLac-Enz ACT_Mal 20.8 1.6E+02 0.0036 16.1 4.6 19 18-36 54-72 (74)
275 PF12182 DUF3642: Bacterial li 20.8 1.3E+02 0.0027 18.4 2.6 15 31-45 42-56 (79)
276 PRK07896 nicotinate-nucleotide 20.7 3.6E+02 0.0078 20.1 5.5 27 42-70 248-274 (289)
277 PF06998 DUF1307: Protein of u 20.7 1.2E+02 0.0027 19.3 2.7 37 17-54 50-91 (123)
278 PRK09577 multidrug efflux prot 20.7 1.8E+02 0.0039 25.2 4.4 44 17-60 693-746 (1032)
279 PF11210 DUF2996: Protein of u 20.5 69 0.0015 21.1 1.5 27 20-47 18-44 (119)
280 cd04915 ACT_AK-Ectoine_2 ACT d 20.4 1.8E+02 0.0038 16.2 5.9 49 11-60 11-59 (66)
281 PRK00394 transcription factor; 20.3 1.6E+02 0.0035 20.2 3.4 24 37-60 144-167 (179)
282 COG2086 FixA Electron transfer 20.3 2.1E+02 0.0046 21.0 4.2 46 28-73 11-67 (260)
283 TIGR02500 type_III_yscD type I 20.3 4.1E+02 0.0088 20.4 6.5 35 16-51 216-252 (410)
284 TIGR02544 III_secr_YscJ type I 20.3 1.2E+02 0.0026 21.1 2.7 21 18-38 109-129 (193)
285 TIGR01616 nitro_assoc nitrogen 20.2 2.6E+02 0.0055 18.1 6.1 50 4-62 2-51 (126)
286 PF14424 Toxin-deaminase: The 20.2 2.7E+02 0.0058 18.3 4.5 33 4-36 98-130 (133)
287 PF11873 DUF3393: Domain of un 20.1 2.3E+02 0.0049 20.2 4.2 29 32-60 88-119 (204)
288 PF12693 GspL_C: GspL periplas 20.0 2.3E+02 0.005 18.2 4.0 43 20-63 86-134 (157)
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=99.76 E-value=4.3e-18 Score=98.30 Aligned_cols=58 Identities=24% Similarity=0.322 Sum_probs=55.4
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHHhhCC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLKKIGK 63 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~k~G~ 63 (86)
+|+|+||+|++|+++|+++|.+++||.++.+|+.+++++|.++ +++.+|.++|+++||
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy 61 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGY 61 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTS
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCc
Confidence 6899999999999999999999999999999999999999997 456999999999998
No 2
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.74 E-value=2.5e-17 Score=99.15 Aligned_cols=65 Identities=37% Similarity=0.535 Sum_probs=59.9
Q ss_pred ceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC-CeEEE
Q 036889 2 ARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG-KIEIV 67 (86)
Q Consensus 2 ~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G-~a~iv 67 (86)
+++.++++ .|||++|..+|++.|..++||.++.+|.+++++||.|++||..|++.|++.| +...+
T Consensus 4 ~~~~v~kv-~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~ 69 (73)
T KOG1603|consen 4 IKTVVLKV-NMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAEL 69 (73)
T ss_pred ccEEEEEE-CcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEE
Confidence 57899999 6999999999999999999999999999999999999999999999999877 54333
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.72 E-value=5.2e-17 Score=97.45 Aligned_cols=62 Identities=23% Similarity=0.259 Sum_probs=56.7
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHHhhCCe
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~k~G~a 64 (86)
++..|+|+||+|+||+++|+++|.+++||.++++|++.+.++|..+ ++..+|.++|.++||.
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~ 66 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYK 66 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCC
Confidence 3479999999999999999999999999999999999977777654 8999999999999994
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.24 E-value=4.5e-11 Score=85.18 Aligned_cols=65 Identities=15% Similarity=0.244 Sum_probs=59.9
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC-eEEEEc
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK-IEIVSV 69 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~-a~ivsv 69 (86)
+++|.| .|+|++|++.|+.+|..++||.+|++|++.+.|.|.+.+.+..+.++|+-+|+ |.+.-.
T Consensus 8 ~~efaV-~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~ 73 (247)
T KOG4656|consen 8 EAEFAV-QMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGA 73 (247)
T ss_pred eEEEEE-echhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecC
Confidence 678999 59999999999999999999999999999999999999999999999999997 554433
No 5
>PRK10671 copA copper exporting ATPase; Provisional
Probab=99.23 E-value=3.8e-11 Score=97.86 Aligned_cols=66 Identities=14% Similarity=0.219 Sum_probs=60.2
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC-eEEEE
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK-IEIVS 68 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~-a~ivs 68 (86)
||++++|+|+||+|.+|..+|+++|.+++||.++.+|++ +.+|.+..++..+.+++++.|| +.+.+
T Consensus 1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 889999999999999999999999999999999999994 6677788999999999999999 66554
No 6
>PLN02957 copper, zinc superoxide dismutase
Probab=98.93 E-value=1.3e-08 Score=73.07 Aligned_cols=70 Identities=17% Similarity=0.315 Sum_probs=62.7
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC-eEEEEcCCCC
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK-IEIVSVGPAK 73 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~-a~ivsv~~~~ 73 (86)
+.+.|.+ +|+|++|..+|+++|.+++||.++.+++..++++|.+..++..+..+|++.|| +.+++.+++.
T Consensus 6 ~~~~~~V-gMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 6 LLTEFMV-DMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEEEE-CccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 5678999 79999999999999999999999999999999999998899999999999999 6666665443
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.56 E-value=2.5e-07 Score=75.32 Aligned_cols=60 Identities=20% Similarity=0.290 Sum_probs=55.9
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe---CC-HHHHHHHHHhhCC
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD---MD-AVAIAKKLKKIGK 63 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd-~~~l~~~l~k~G~ 63 (86)
.+..|.|+||||..|..+|+ +|.+++||.++.+++.+.++.|.++ .+ ++.+..++++.||
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy 65 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGY 65 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCc
Confidence 45789999999999999999 9999999999999999999999975 56 7899999999998
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=98.53 E-value=1.9e-06 Score=45.80 Aligned_cols=62 Identities=16% Similarity=0.280 Sum_probs=53.7
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHHhhCC
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLKKIGK 63 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~k~G~ 63 (86)
||+ ..+.+++|+|..|...+.+.+...+|+....+++..+.+.+..+ .+...+...+...||
T Consensus 1 ~~~-~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 65 (68)
T TIGR00003 1 KQK-FTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGY 65 (68)
T ss_pred CcE-EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCC
Confidence 455 57999999999999999999999999999999999999998863 577778777777776
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.14 E-value=9.8e-06 Score=67.47 Aligned_cols=66 Identities=18% Similarity=0.257 Sum_probs=60.5
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHHhhCC-eEEEE
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLKKIGK-IEIVS 68 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~k~G~-a~ivs 68 (86)
++++|.|.||+|.+|..+|.+.|.+++||.++.+++.++++.|..+ ..|-++.+.|...|+ +.+..
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~ 215 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRP 215 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeee
Confidence 4789999999999999999999999999999999999999999986 899999999999997 54444
No 10
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.06 E-value=1.7e-05 Score=65.09 Aligned_cols=61 Identities=16% Similarity=0.239 Sum_probs=56.1
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
++.|.++||+|.+|...+++.+..++||.++.+++..+++.+.+..++..+...++..||.
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~ 160 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYG 160 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCC
Confidence 4678999999999999999999999999999999999999988778899998999999983
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.03 E-value=1e-05 Score=67.35 Aligned_cols=59 Identities=17% Similarity=0.220 Sum_probs=54.6
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCC-eEEEEc
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGK-IEIVSV 69 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~-a~ivsv 69 (86)
||+|..|.+.|.+++++.+||.++++++..+..+|.++ ++++.+.++|+..|| +.+.+-
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~ 63 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSD 63 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeeccc
Confidence 89999999999999999999999999999999999987 999999999999998 655543
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.81 E-value=9e-05 Score=60.53 Aligned_cols=61 Identities=18% Similarity=0.224 Sum_probs=52.3
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeC-CHHHHHHHHHhhCC
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDM-DAVAIAKKLKKIGK 63 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~v-d~~~l~~~l~k~G~ 63 (86)
+++.|.+++|+|.+|...+++++.+++||.++.+++..+++.+..+. ....+...++..||
T Consensus 53 ~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy 114 (741)
T PRK11033 53 TRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGF 114 (741)
T ss_pred ceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhccc
Confidence 45779999999999999999999999999999999999998887542 12667777888898
No 13
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=96.12 E-value=0.016 Score=36.77 Aligned_cols=65 Identities=26% Similarity=0.449 Sum_probs=43.7
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEE-----ecCCC--EEEEEEe-CCHHHHHHHHHhhCCeEEEEc
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITA-----DLKEQ--KLIIIGD-MDAVAIAKKLKKIGKIEIVSV 69 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~v-----d~~~~--~vtV~g~-vd~~~l~~~l~k~G~a~ivsv 69 (86)
+.++|-|--.|-+. .-.+-++|++++||..|.+ |.++. ++||.|+ +|.+.|.++|++.| +.|.|+
T Consensus 5 rRlVLDVlKP~~p~-i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~G-g~IHSI 77 (95)
T PF02680_consen 5 RRLVLDVLKPHEPS-IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELG-GVIHSI 77 (95)
T ss_dssp EEEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT--EEEEE
T ss_pred eEEEEEeecCCCCC-HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcC-CeEEee
Confidence 45667764333333 3567789999999987654 44443 4667786 99999999999998 345554
No 14
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=96.07 E-value=0.032 Score=35.35 Aligned_cols=68 Identities=22% Similarity=0.353 Sum_probs=46.0
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEE-----ec--CCCEEEEEEe-CCHHHHHHHHHhhCCeEEEEcCC
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITA-----DL--KEQKLIIIGD-MDAVAIAKKLKKIGKIEIVSVGP 71 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~v-----d~--~~~~vtV~g~-vd~~~l~~~l~k~G~a~ivsv~~ 71 (86)
+.++|.|---|-+----.+-+.|++++||+.|.+ |. .+=++||.|+ +|-++|.+.|++.|-+ |.|+..
T Consensus 6 RRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~-IHSiDe 81 (97)
T COG1888 6 RRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGA-IHSIDE 81 (97)
T ss_pred eeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCe-eeehhh
Confidence 3455555333323344566788999999887543 33 3456888896 9999999999999853 566643
No 15
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=95.99 E-value=0.13 Score=29.46 Aligned_cols=60 Identities=15% Similarity=0.142 Sum_probs=47.0
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEE---eCCHHHHHHHHHhhCC
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIG---DMDAVAIAKKLKKIGK 63 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g---~vd~~~l~~~l~k~G~ 63 (86)
++.+.+++++|..|...+...+...+|+.....+.......+.. ..+...+...++..|+
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 86 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGY 86 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCC
Confidence 45677889999999999999999999988888888777766653 2466666666666776
No 16
>PRK13748 putative mercuric reductase; Provisional
Probab=94.39 E-value=0.31 Score=38.08 Aligned_cols=59 Identities=15% Similarity=0.193 Sum_probs=48.7
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCC
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGK 63 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~ 63 (86)
+.+.+++|+|.+|..++...+...+|+....+++..+...+... .+...+...+...|+
T Consensus 2 ~~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~ 62 (561)
T PRK13748 2 TTLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGY 62 (561)
T ss_pred EEEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCC
Confidence 45778899999999999999999999999999998888777642 566677677777777
No 17
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=91.76 E-value=0.72 Score=21.38 Aligned_cols=55 Identities=20% Similarity=0.256 Sum_probs=38.8
Q ss_pred EEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhC
Q 036889 8 KMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIG 62 (86)
Q Consensus 8 kV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G 62 (86)
.+.+++|..|...+...+...+|+.....++......+... .+...+...++..|
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAG 59 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcC
Confidence 35578999999999999999999887777777666666543 35555544444444
No 18
>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=91.76 E-value=0.4 Score=27.77 Aligned_cols=32 Identities=19% Similarity=0.296 Sum_probs=21.7
Q ss_pred EEEEEEeecccHhH------HHHHHHHHhccCCccEEEE
Q 036889 4 MVVLKMMTMNDEKT------KQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 4 ~vvlkV~~m~C~~C------~~kI~kal~~l~GV~~v~v 36 (86)
++.|.+ .+...+| ...|+.+|..++||.+|+|
T Consensus 35 ~V~v~l-~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 35 KVSVSL-ELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEEE---SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEE-EECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 345555 3555555 4789999999999999876
No 19
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=90.95 E-value=0.72 Score=27.15 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=32.4
Q ss_pred HhccCCccEEEEecCC-CEEEEEEeCCHHHHHHHHHhhCCeEEEEcC
Q 036889 25 AADIYGVDSITADLKE-QKLIIIGDMDAVAIAKKLKKIGKIEIVSVG 70 (86)
Q Consensus 25 l~~l~GV~~v~vd~~~-~~vtV~g~vd~~~l~~~l~k~G~a~ivsv~ 70 (86)
|.+++||.++..+... =.+.+....++.+|++.|...|. |.++.
T Consensus 26 l~~~~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~~~g~--I~~f~ 70 (84)
T PF13732_consen 26 LEELPGVESVEQDGDGKLRIKLEDEETANELLQELIEKGI--IRSFE 70 (84)
T ss_pred HhhCCCeEEEEEeCCcEEEEEECCcccHHHHHHHHHhCCC--eeEEE
Confidence 8888999999875433 34555556888999999998886 44443
No 20
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=86.82 E-value=5 Score=24.85 Aligned_cols=45 Identities=11% Similarity=0.213 Sum_probs=33.4
Q ss_pred HhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe-CCHHHHHHHHH
Q 036889 15 EKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD-MDAVAIAKKLK 59 (86)
Q Consensus 15 ~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~-vd~~~l~~~l~ 59 (86)
+.=...+..+|..++|++---.|.+.|++.|+-+ -+...+.+.|.
T Consensus 16 Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 16 SERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred hHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 3446889999999999998888888899888754 44454545444
No 21
>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=85.95 E-value=3.3 Score=23.62 Aligned_cols=54 Identities=20% Similarity=0.174 Sum_probs=38.8
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCCeEEEEc
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGKIEIVSV 69 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a~ivsv 69 (86)
+|.+-|+.|+...-.++++|.+++.= +.+.|..+ ....+|...++..|| ++++.
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~g~-~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEENGY-EVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHHTE-EEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHCCC-EEEEE
Confidence 56777999999999999999998532 34555554 456788888899998 34444
No 22
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=85.85 E-value=2.8 Score=28.53 Aligned_cols=41 Identities=15% Similarity=0.071 Sum_probs=33.5
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecC-CCEEE
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLK-EQKLI 44 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~-~~~vt 44 (86)
+.+++.|+--.|+.|...|.....++ |+.++.|... ++++.
T Consensus 100 ~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~ 141 (146)
T PF14437_consen 100 RSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVY 141 (146)
T ss_pred CeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEE
Confidence 46788888788999999888888886 9999998766 67544
No 23
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=85.38 E-value=2.7 Score=24.74 Aligned_cols=35 Identities=17% Similarity=0.093 Sum_probs=25.5
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhcc----CCccEEEEecCC
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADI----YGVDSITADLKE 40 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l----~GV~~v~vd~~~ 40 (86)
.-++|.. -.|+.| .++++.|.++ .|+.-..+|...
T Consensus 2 ~v~iy~~--~~C~~C-~~a~~~L~~l~~~~~~i~~~~idi~~ 40 (85)
T PRK11200 2 FVVIFGR--PGCPYC-VRAKELAEKLSEERDDFDYRYVDIHA 40 (85)
T ss_pred EEEEEeC--CCChhH-HHHHHHHHhhcccccCCcEEEEECCC
Confidence 4344555 489999 8888999987 688777777654
No 24
>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=85.37 E-value=6 Score=23.77 Aligned_cols=44 Identities=20% Similarity=0.225 Sum_probs=33.0
Q ss_pred HHHHHHHHHhccCCccEEEEecCCCEEEEEEe-CCHHHHHHHHHhh
Q 036889 17 TKQKAIEAAADIYGVDSITADLKEQKLIIIGD-MDAVAIAKKLKKI 61 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~-vd~~~l~~~l~k~ 61 (86)
=...+..+|..++|++=--.+.+ |++.|+-+ -+...+.+.+...
T Consensus 16 ~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 16 RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 35789999999999965566666 88888865 6666777766654
No 25
>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=81.94 E-value=1.5 Score=24.53 Aligned_cols=32 Identities=13% Similarity=0.127 Sum_probs=16.6
Q ss_pred HHHHHHHhccCCcc--EEEEecCCCEEEEEEeCC
Q 036889 19 QKAIEAAADIYGVD--SITADLKEQKLIIIGDMD 50 (86)
Q Consensus 19 ~kI~kal~~l~GV~--~v~vd~~~~~vtV~g~vd 50 (86)
.+|+.+|..-+++. .+.+...++.|++.|.++
T Consensus 2 ~~v~~~L~~~~~~~~~~i~v~v~~g~v~L~G~v~ 35 (64)
T PF04972_consen 2 TKVRAALRADPWLPDSNISVSVENGVVTLSGEVP 35 (64)
T ss_dssp -----------CTT-TTEEEEEECTEEEEEEEES
T ss_pred cccccccccccccCCCeEEEEEECCEEEEEeeCc
Confidence 45677777633322 688888999999999863
No 26
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=78.35 E-value=3.7 Score=26.04 Aligned_cols=24 Identities=21% Similarity=0.299 Sum_probs=21.7
Q ss_pred HHhccCCccEEEEecCCCEEEEEE
Q 036889 24 AAADIYGVDSITADLKEQKLIIIG 47 (86)
Q Consensus 24 al~~l~GV~~v~vd~~~~~vtV~g 47 (86)
.+.+++|+..|++.++++++-|++
T Consensus 35 ivas~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 35 IVASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EEEecCCceEEEEecccceEEEec
Confidence 456789999999999999999998
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=76.75 E-value=9.8 Score=21.37 Aligned_cols=31 Identities=16% Similarity=0.290 Sum_probs=21.3
Q ss_pred EEEEEeecccHh-HHHHHHHHHhccCCccEEEE
Q 036889 5 VVLKMMTMNDEK-TKQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 5 vvlkV~~m~C~~-C~~kI~kal~~l~GV~~v~v 36 (86)
+.|.++ .+-.. --..+.+.|.+++||.+|.+
T Consensus 43 i~~~v~-v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 43 VTISID-TSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEE-cCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 445552 34443 66888888999999988875
No 28
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=75.38 E-value=17 Score=23.04 Aligned_cols=46 Identities=17% Similarity=0.256 Sum_probs=35.2
Q ss_pred HhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe-CCHHHHHHHHHhh
Q 036889 15 EKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD-MDAVAIAKKLKKI 61 (86)
Q Consensus 15 ~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~-vd~~~l~~~l~k~ 61 (86)
+.=...|+.+|..|||++--.-|.+ |++.|.-+ -+...|++.|...
T Consensus 17 pe~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie~i 63 (94)
T COG3062 17 PERLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIESI 63 (94)
T ss_pred HHHHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHHHH
Confidence 4455789999999999987777777 77777654 6777788887753
No 29
>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=74.95 E-value=7 Score=23.84 Aligned_cols=35 Identities=20% Similarity=0.253 Sum_probs=23.7
Q ss_pred EEEEEeecccHhH---HHHHHHHHhccCCccEEEEecC
Q 036889 5 VVLKMMTMNDEKT---KQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 5 vvlkV~~m~C~~C---~~kI~kal~~l~GV~~v~vd~~ 39 (86)
+.|.++.-.|.-. ...+..+|..++|+++|++++.
T Consensus 41 i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 41 IQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEEEE
Confidence 4455543344433 3568889999999999988764
No 30
>PRK10638 glutaredoxin 3; Provisional
Probab=72.97 E-value=11 Score=22.01 Aligned_cols=35 Identities=17% Similarity=0.082 Sum_probs=24.7
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecC
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~ 39 (86)
|.+ ++|-- --.|+.| .+++..|... |+.-..+|..
T Consensus 1 m~~-v~ly~-~~~Cp~C-~~a~~~L~~~-gi~y~~~dv~ 35 (83)
T PRK10638 1 MAN-VEIYT-KATCPFC-HRAKALLNSK-GVSFQEIPID 35 (83)
T ss_pred CCc-EEEEE-CCCChhH-HHHHHHHHHc-CCCcEEEECC
Confidence 554 55555 3689999 8889999875 7876666654
No 31
>PRK10026 arsenate reductase; Provisional
Probab=72.94 E-value=20 Score=23.99 Aligned_cols=52 Identities=12% Similarity=0.202 Sum_probs=34.9
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
|++..+|-. -+|..| ++..+.|.+. |+.--.+|....- .+.++|..-+.+.|
T Consensus 1 m~~i~iY~~--p~Cst~-RKA~~wL~~~-gi~~~~~d~~~~p------pt~~eL~~~l~~~g 52 (141)
T PRK10026 1 MSNITIYHN--PACGTS-RNTLEMIRNS-GTEPTIIHYLETP------PTRDELVKLIADMG 52 (141)
T ss_pred CCEEEEEeC--CCCHHH-HHHHHHHHHC-CCCcEEEeeeCCC------cCHHHHHHHHHhCC
Confidence 544334444 599999 6777777764 8887777764432 56677777777766
No 32
>PRK11023 outer membrane lipoprotein; Provisional
Probab=72.87 E-value=16 Score=25.25 Aligned_cols=47 Identities=11% Similarity=0.100 Sum_probs=36.5
Q ss_pred ccHhHHHHHHHHHhccCCccE--EEEecCCCEEEEEEeCCHHHHHHHHH
Q 036889 13 NDEKTKQKAIEAAADIYGVDS--ITADLKEQKLIIIGDMDAVAIAKKLK 59 (86)
Q Consensus 13 ~C~~C~~kI~kal~~l~GV~~--v~vd~~~~~vtV~g~vd~~~l~~~l~ 59 (86)
....-..+|+.+|..-+++.. |+|.-.+|.|++.|.++..+.-.+.+
T Consensus 124 ~D~~It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e~~~a~~ 172 (191)
T PRK11023 124 KDTWITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQREAKAAAD 172 (191)
T ss_pred CcHHHHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHHHHHHHH
Confidence 344578899999998888775 67777899999999988776655444
No 33
>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=71.15 E-value=7.1 Score=27.02 Aligned_cols=34 Identities=18% Similarity=0.280 Sum_probs=24.5
Q ss_pred EEEEEEeecccHhHH------HHHHHHHhccCCccEEEEec
Q 036889 4 MVVLKMMTMNDEKTK------QKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~------~kI~kal~~l~GV~~v~vd~ 38 (86)
++.+.+ .++..+|. ..|+.+|..++||.+|++++
T Consensus 114 ~V~I~m-tLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEM-TLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEE-EeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 355555 35555554 56999999999999988764
No 34
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=71.11 E-value=27 Score=22.98 Aligned_cols=45 Identities=22% Similarity=0.387 Sum_probs=35.2
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh-----hCC
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK-----IGK 63 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k-----~G~ 63 (86)
...++.+|..+ |-..|..=+++|.|.+..+.++..|..+|++ .|+
T Consensus 21 MaeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~ 70 (137)
T PF08002_consen 21 MAELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGF 70 (137)
T ss_dssp HHHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT
T ss_pred HHHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCC
Confidence 45677888887 9999999999999999987999888877763 476
No 35
>PRK11018 hypothetical protein; Provisional
Probab=71.06 E-value=18 Score=21.44 Aligned_cols=51 Identities=16% Similarity=0.114 Sum_probs=38.4
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCCe
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a 64 (86)
.+|.+.|..|+.-.-+.+++|.+++.=+ .+.|..+ .....|...+++.||.
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~G~---------~L~V~~d~~~a~~di~~~~~~~G~~ 61 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKKGE---------ILEVVSDCPQSINNIPLDARNHGYT 61 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCCCC---------EEEEEeCCccHHHHHHHHHHHcCCE
Confidence 5788999999999999999999986322 2333332 5567788888889983
No 36
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=70.70 E-value=30 Score=23.37 Aligned_cols=46 Identities=20% Similarity=0.232 Sum_probs=34.7
Q ss_pred CCccE--EEEecCCCEEEEEEe--CCHHHHHHHHHhhCCeEEEEcCCCCC
Q 036889 29 YGVDS--ITADLKEQKLIIIGD--MDAVAIAKKLKKIGKIEIVSVGPAKA 74 (86)
Q Consensus 29 ~GV~~--v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a~ivsv~~~~~ 74 (86)
||.+. .-+|++.+-+.+... +|..++++.|...|+.-|+.-...++
T Consensus 39 PG~ttgiAildL~G~~l~l~S~R~~~~~evi~~I~~~G~PviVAtDV~p~ 88 (138)
T PF04312_consen 39 PGTTTGIAILDLDGELLDLKSSRNMSRSEVIEWISEYGKPVIVATDVSPP 88 (138)
T ss_pred CCceeEEEEEecCCcEEEEEeecCCCHHHHHHHHHHcCCEEEEEecCCCC
Confidence 45443 356888888888774 99999999999999976776654443
No 37
>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=70.32 E-value=24 Score=22.18 Aligned_cols=57 Identities=16% Similarity=0.134 Sum_probs=36.2
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhh
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKI 61 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~ 61 (86)
++|++.|++-+-+...|+.+++.+..|.-|++..-...-.|... -++..++.++...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhc
Confidence 47888888888889999999999988998888877777777764 4577888888765
No 38
>PRK12759 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional
Probab=70.21 E-value=9.5 Score=29.43 Aligned_cols=35 Identities=11% Similarity=-0.035 Sum_probs=25.5
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecC
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~ 39 (86)
|.+.+++.- -+|+.| .++++.|.+. ||.--.+|.+
T Consensus 1 m~~V~vys~--~~Cp~C-~~aK~~L~~~-gi~~~~idi~ 35 (410)
T PRK12759 1 MVEVRIYTK--TNCPFC-DLAKSWFGAN-DIPFTQISLD 35 (410)
T ss_pred CCcEEEEeC--CCCHHH-HHHHHHHHHC-CCCeEEEECC
Confidence 555444544 599999 7899999885 8887666664
No 39
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=68.36 E-value=16 Score=21.22 Aligned_cols=32 Identities=22% Similarity=0.046 Sum_probs=24.3
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecC
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~ 39 (86)
++|-. .-.|..| .++++.|.+. ||.-..+|..
T Consensus 10 V~ly~-~~~Cp~C-~~ak~~L~~~-gi~y~~idi~ 41 (79)
T TIGR02190 10 VVVFT-KPGCPFC-AKAKATLKEK-GYDFEEIPLG 41 (79)
T ss_pred EEEEE-CCCCHhH-HHHHHHHHHc-CCCcEEEECC
Confidence 45555 4689999 8899999875 8887777664
No 40
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=68.20 E-value=16 Score=31.43 Aligned_cols=44 Identities=14% Similarity=0.169 Sum_probs=36.3
Q ss_pred HHHHHHHHHhccCCccEEEEecCCCEEEEEE--------eCCHHHHHHHHHh
Q 036889 17 TKQKAIEAAADIYGVDSITADLKEQKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g--------~vd~~~l~~~l~k 60 (86)
=...++..|.+++||.+|++.....++.|.- .+++.++.++|+.
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~ 209 (1037)
T PRK10555 158 VASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIES 209 (1037)
T ss_pred HHHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 3467999999999999999987666677763 2888999999985
No 41
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=68.08 E-value=13 Score=22.07 Aligned_cols=48 Identities=15% Similarity=0.152 Sum_probs=31.8
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhh-CC
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKI-GK 63 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~-G~ 63 (86)
.++|.-+ .|+.| .++++.|.+ .|+.-..++... -++......+++. |+
T Consensus 3 v~iyt~~--~CPyC-~~ak~~L~~-~g~~~~~i~~~~--------~~~~~~~~~~~~~~g~ 51 (80)
T COG0695 3 VTIYTKP--GCPYC-KRAKRLLDR-KGVDYEEIDVDD--------DEPEEAREMVKRGKGQ 51 (80)
T ss_pred EEEEECC--CCchH-HHHHHHHHH-cCCCcEEEEecC--------CcHHHHHHHHHHhCCC
Confidence 3455554 69999 788888887 488877766544 2334566666655 54
No 42
>PRK11023 outer membrane lipoprotein; Provisional
Probab=67.91 E-value=20 Score=24.81 Aligned_cols=46 Identities=13% Similarity=0.211 Sum_probs=34.9
Q ss_pred cHhHHHHHHHHHhccCCcc---EEEEecCCCEEEEEEeCCHHHHHHHHH
Q 036889 14 DEKTKQKAIEAAADIYGVD---SITADLKEQKLIIIGDMDAVAIAKKLK 59 (86)
Q Consensus 14 C~~C~~kI~kal~~l~GV~---~v~vd~~~~~vtV~g~vd~~~l~~~l~ 59 (86)
...-..+|+.+|..-+++. .+.+...+|.|+++|.++.........
T Consensus 47 D~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~ 95 (191)
T PRK11023 47 DGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAK 95 (191)
T ss_pred hHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHH
Confidence 4456788999998877774 588999999999999976655544443
No 43
>PRK09577 multidrug efflux protein; Reviewed
Probab=67.29 E-value=19 Score=30.98 Aligned_cols=45 Identities=18% Similarity=0.144 Sum_probs=36.8
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEE--------EeCCHHHHHHHHHhhC
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIII--------GDMDAVAIAKKLKKIG 62 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~--------g~vd~~~l~~~l~k~G 62 (86)
.+.++..|.+++||.+|+++....++.|. ..+++.++.++|+..+
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n 210 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHN 210 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 46799999999999999998866677775 2388889999998643
No 44
>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=66.51 E-value=30 Score=23.10 Aligned_cols=34 Identities=15% Similarity=0.281 Sum_probs=28.3
Q ss_pred HHHHHHHHHhccCCccEEEEecCCCEEEEEEeCC
Q 036889 17 TKQKAIEAAADIYGVDSITADLKEQKLIIIGDMD 50 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd 50 (86)
=+..|.+.+.+++||..+.+-...+.+-|.-.++
T Consensus 76 ~a~~i~~~v~~~~~V~~A~vvv~~~~a~Vav~~~ 109 (177)
T PF09580_consen 76 LADRIANRVKKVPGVEDATVVVTDDNAYVAVDLD 109 (177)
T ss_pred HHHHHHHHHhcCCCceEEEEEEECCEEEEEEEec
Confidence 4678999999999999999888888888876544
No 45
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=65.62 E-value=20 Score=20.64 Aligned_cols=30 Identities=23% Similarity=0.319 Sum_probs=21.3
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEE
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSIT 35 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~ 35 (86)
+.|.+ ...--.=-..+...|.+++||.+|.
T Consensus 50 ~~l~v-~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 50 ITLTV-EVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEE-EESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEE-EECCHHHHHHHHHHHHCCCCeeEEE
Confidence 44555 2455555588899999999998874
No 46
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=65.36 E-value=14 Score=23.88 Aligned_cols=21 Identities=24% Similarity=0.433 Sum_probs=18.4
Q ss_pred HHHHHHHHhccCCccEEEEec
Q 036889 18 KQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~ 38 (86)
...++.+|..++||+++++++
T Consensus 69 ~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 69 ADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred HHHHHHHHHhcCCcceEEEEE
Confidence 678999999999999988763
No 47
>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=64.94 E-value=13 Score=21.51 Aligned_cols=12 Identities=0% Similarity=-0.070 Sum_probs=8.8
Q ss_pred EEEEEeecccHhHH
Q 036889 5 VVLKMMTMNDEKTK 18 (86)
Q Consensus 5 vvlkV~~m~C~~C~ 18 (86)
+.+ + +..|..|.
T Consensus 3 I~v-~-~~~C~~C~ 14 (76)
T PF13192_consen 3 IKV-F-SPGCPYCP 14 (76)
T ss_dssp EEE-E-CSSCTTHH
T ss_pred EEE-e-CCCCCCcH
Confidence 445 5 67899997
No 48
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=64.65 E-value=21 Score=23.63 Aligned_cols=49 Identities=16% Similarity=0.267 Sum_probs=33.3
Q ss_pred HhHHHHHHHHHhccC-CccEEEEecCCCEEEEEEeCCHHHHHHHHH-hhCC
Q 036889 15 EKTKQKAIEAAADIY-GVDSITADLKEQKLIIIGDMDAVAIAKKLK-KIGK 63 (86)
Q Consensus 15 ~~C~~kI~kal~~l~-GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~-k~G~ 63 (86)
+.-..+|..+|.+.. +...+.|...++.|++.|.+.......++. -+|.
T Consensus 25 ~~~~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~~~~aa~~ 75 (147)
T PRK11198 25 EDAADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEKILLAVGN 75 (147)
T ss_pred HHHHHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHHHHHHhcc
Confidence 344577888887632 244567777799999999976666666665 4553
No 49
>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=64.48 E-value=7.8 Score=24.05 Aligned_cols=22 Identities=27% Similarity=0.348 Sum_probs=19.4
Q ss_pred hHHHHHHHHHhccCCccEEEEe
Q 036889 16 KTKQKAIEAAADIYGVDSITAD 37 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd 37 (86)
+-...+..++++++||.|+++.
T Consensus 62 g~td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 62 GGTEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred cChHHHHHHHhcCCCccEEEEE
Confidence 4569999999999999999875
No 50
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=64.27 E-value=14 Score=20.97 Aligned_cols=40 Identities=18% Similarity=0.143 Sum_probs=27.3
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
-.|+.| .++++.|.+. ||.--.+|...+ + ...+.++..|+
T Consensus 7 ~~Cp~C-~~ak~~L~~~-~i~~~~~di~~~---------~-~~~~~~~~~g~ 46 (72)
T TIGR02194 7 NNCVQC-KMTKKALEEH-GIAFEEINIDEQ---------P-EAIDYVKAQGF 46 (72)
T ss_pred CCCHHH-HHHHHHHHHC-CCceEEEECCCC---------H-HHHHHHHHcCC
Confidence 489999 8899999875 787766665532 2 34455555674
No 51
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=63.99 E-value=24 Score=19.78 Aligned_cols=33 Identities=18% Similarity=0.052 Sum_probs=23.3
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCC
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKE 40 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~ 40 (86)
++|-. --.|+.| .++++.|.+. ||.-..+|...
T Consensus 3 v~lys-~~~Cp~C-~~ak~~L~~~-~i~~~~~~v~~ 35 (72)
T cd03029 3 VSLFT-KPGCPFC-ARAKAALQEN-GISYEEIPLGK 35 (72)
T ss_pred EEEEE-CCCCHHH-HHHHHHHHHc-CCCcEEEECCC
Confidence 34444 3589999 7779999875 78776666553
No 52
>PRK10329 glutaredoxin-like protein; Provisional
Probab=63.84 E-value=24 Score=20.89 Aligned_cols=27 Identities=11% Similarity=0.069 Sum_probs=20.5
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKE 40 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~ 40 (86)
-.|..| ..+++.|.+ .||.--.+|...
T Consensus 9 ~~Cp~C-~~ak~~L~~-~gI~~~~idi~~ 35 (81)
T PRK10329 9 NDCVQC-HATKRAMES-RGFDFEMINVDR 35 (81)
T ss_pred CCCHhH-HHHHHHHHH-CCCceEEEECCC
Confidence 589999 569999987 488876666653
No 53
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=62.88 E-value=24 Score=30.46 Aligned_cols=44 Identities=11% Similarity=0.107 Sum_probs=35.7
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEEE--------eCCHHHHHHHHHhh
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIIIG--------DMDAVAIAKKLKKI 61 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~g--------~vd~~~l~~~l~k~ 61 (86)
.+.++..|.+++||.+|++.....++.|.- .+++.++.++|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vDp~kl~~~gls~~~V~~~l~~~ 210 (1049)
T PRK15127 159 AANMKDPISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVINAIKAQ 210 (1049)
T ss_pred HHHHHHHHhcCCCceEEEEcCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 356999999999999999987656677763 38888999999854
No 54
>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=62.03 E-value=25 Score=30.30 Aligned_cols=43 Identities=7% Similarity=0.136 Sum_probs=36.4
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEEE--------eCCHHHHHHHHHh
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~g--------~vd~~~l~~~l~k 60 (86)
...++..|.+++||.+|++.....++.|.- .+++.++.++|+.
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 467999999999999999988866677774 3888999999986
No 55
>TIGR01676 GLDHase galactonolactone dehydrogenase. This model represents L-Galactono-gamma-lactone dehydrogenase (EC 1.3.2.3). This enzyme catalyzes the final step in ascorbic acid biosynthesis in higher plants. This protein is homologous to ascorbic acid biosynthesis enzymes of other species: L-gulono-gamma-lactone oxidase in rat and L-galactono-gamma-lactone oxidase in yeast. All three covalently bind the cofactor FAD.
Probab=61.88 E-value=16 Score=29.61 Aligned_cols=38 Identities=11% Similarity=0.276 Sum_probs=30.8
Q ss_pred ccCCccE-EEEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 27 DIYGVDS-ITADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 27 ~l~GV~~-v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
++..... +++|.++++|+|.+-+.-.+|..+|...|++
T Consensus 109 dL~~ln~Vl~vD~~~~tVtV~AG~~l~~L~~~L~~~Gla 147 (541)
T TIGR01676 109 NLALMDKVLEVDEEKKRVRVQAGIRVQQLVDAIKEYGIT 147 (541)
T ss_pred EhhhCCCCEEEcCCCCEEEEcCCCCHHHHHHHHHHcCCE
Confidence 3333443 3788899999999999999999999999974
No 56
>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=61.73 E-value=17 Score=23.18 Aligned_cols=34 Identities=15% Similarity=0.182 Sum_probs=26.8
Q ss_pred hHHHHHHHHHh---ccCCccEEEEecCCCEEEEEEeC
Q 036889 16 KTKQKAIEAAA---DIYGVDSITADLKEQKLIIIGDM 49 (86)
Q Consensus 16 ~C~~kI~kal~---~l~GV~~v~vd~~~~~vtV~g~v 49 (86)
--.+.|+.||. .+.+|+++++..+.+++.|+.++
T Consensus 69 Ei~r~I~EaL~~d~rI~~V~~f~f~~~~~~l~v~f~V 105 (112)
T PF10934_consen 69 EIEREIEEALLQDPRITSVENFSFEWEGDSLYVSFTV 105 (112)
T ss_pred HHHHHHHHHHhcCCCcceEEEEEEEEECCEEEEEEEE
Confidence 34678889994 56678888999999999988753
No 57
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=61.23 E-value=26 Score=19.35 Aligned_cols=60 Identities=13% Similarity=0.148 Sum_probs=37.6
Q ss_pred EEEEEeecccHhHHHHHHHHHhccC-CccEEEEecC--CCE--EEEEEe-CCHHHHHHHHHhhCCeEE
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIY-GVDSITADLK--EQK--LIIIGD-MDAVAIAKKLKKIGKIEI 66 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~-GV~~v~vd~~--~~~--vtV~g~-vd~~~l~~~l~k~G~a~i 66 (86)
+.+.++ .-++.-.++...|++.. .+.++..... .+. +.+.-+ .|++.+.+.|++.||.-+
T Consensus 4 ~~v~~~--d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 4 IEVRVP--DRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred EEEEEC--CCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHHCCCeee
Confidence 344443 45577888888888753 2555544332 223 444433 577899999999998433
No 58
>PRK04435 hypothetical protein; Provisional
Probab=61.01 E-value=27 Score=23.16 Aligned_cols=32 Identities=19% Similarity=0.284 Sum_probs=19.9
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEE
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~v 36 (86)
+.|.++.-.-..-...+...|.+++||.+|++
T Consensus 112 vs~tVevs~~~~~L~~Li~~L~~i~gV~~V~i 143 (147)
T PRK04435 112 VTISIDTSSMEGDIDELLEKLRNLDGVEKVEL 143 (147)
T ss_pred EEEEEEeCChHHHHHHHHHHHHcCCCcEEEEE
Confidence 44455322233467777788888888877765
No 59
>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=60.66 E-value=9.8 Score=23.31 Aligned_cols=23 Identities=17% Similarity=0.486 Sum_probs=19.8
Q ss_pred ccCCccE--EEEecCCCEEEEEEeC
Q 036889 27 DIYGVDS--ITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~~--v~vd~~~~~vtV~g~v 49 (86)
.+||+.. |+|++.++.++|.|.-
T Consensus 15 dlPG~~kedI~V~v~~~~L~I~ger 39 (87)
T cd06482 15 DVCGFEPDQVKVKVKDGKVQVSAER 39 (87)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 6889874 8999999999999973
No 60
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=60.44 E-value=29 Score=19.54 Aligned_cols=27 Identities=7% Similarity=0.069 Sum_probs=21.0
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKE 40 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~ 40 (86)
-.|+.| .++++.|... ||.-..+|...
T Consensus 9 ~~C~~C-~ka~~~L~~~-gi~~~~~di~~ 35 (73)
T cd03027 9 LGCEDC-TAVRLFLREK-GLPYVEINIDI 35 (73)
T ss_pred CCChhH-HHHHHHHHHC-CCceEEEECCC
Confidence 489999 8899999885 78776666653
No 61
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=55.47 E-value=13 Score=23.30 Aligned_cols=24 Identities=25% Similarity=0.379 Sum_probs=20.2
Q ss_pred cHhHHHHHHHHHhccCCccEEEEe
Q 036889 14 DEKTKQKAIEAAADIYGVDSITAD 37 (86)
Q Consensus 14 C~~C~~kI~kal~~l~GV~~v~vd 37 (86)
-++-...+..+|++++||.++++-
T Consensus 60 ~Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 60 KEGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred cccCcHHHHHHHhhccCcceEEEE
Confidence 345578999999999999999874
No 62
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=54.49 E-value=15 Score=22.84 Aligned_cols=23 Identities=30% Similarity=0.427 Sum_probs=20.2
Q ss_pred HhHHHHHHHHHhccCCccEEEEe
Q 036889 15 EKTKQKAIEAAADIYGVDSITAD 37 (86)
Q Consensus 15 ~~C~~kI~kal~~l~GV~~v~vd 37 (86)
.+-...+..++++++||.|+++.
T Consensus 61 ~~~td~lee~i~~~e~Vqsvei~ 83 (88)
T PRK00435 61 EGGTEPVEEAFANVEGVESVEVE 83 (88)
T ss_pred CcCcHHHHHHHhccCCCcEEEEE
Confidence 46679999999999999999875
No 63
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=53.99 E-value=35 Score=23.61 Aligned_cols=47 Identities=11% Similarity=-0.065 Sum_probs=33.0
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecCCCE-------------------EEEEEe---CCHHHHHHHHHh
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLKEQK-------------------LIIIGD---MDAVAIAKKLKK 60 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~-------------------vtV~g~---vd~~~l~~~l~k 60 (86)
++-|==| ++..+.+++||.++.+-..++. |.|..+ ++-++|++..-.
T Consensus 9 agGCFWg---~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~~ 77 (172)
T PRK14054 9 AGGCFWG---MEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFFQ 77 (172)
T ss_pred EcCChhh---hHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHHH
Confidence 3445555 5566678899999998666654 777776 777888876643
No 64
>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=53.96 E-value=16 Score=22.00 Aligned_cols=23 Identities=13% Similarity=0.440 Sum_probs=19.3
Q ss_pred ccCCccE--EEEecCCCEEEEEEeC
Q 036889 27 DIYGVDS--ITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~~--v~vd~~~~~vtV~g~v 49 (86)
.+||+.. ++|...++.++|.|.-
T Consensus 18 ~lPG~~kedi~v~~~~~~L~I~g~~ 42 (90)
T cd06470 18 AVAGFSEDDLEIEVENNQLTVTGKK 42 (90)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 5788874 8888899999999973
No 65
>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=53.09 E-value=17 Score=21.72 Aligned_cols=23 Identities=30% Similarity=0.398 Sum_probs=19.3
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~v 49 (86)
.||||. +++++...+.++|.|.-
T Consensus 17 ~lPGv~~edi~v~~~~~~L~I~g~~ 41 (93)
T cd06471 17 DLPGFKKEDIKLDYKDGYLTISAKR 41 (93)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 578986 58888999999999973
No 66
>TIGR01617 arsC_related transcriptional regulator, Spx/MgsR family. This model represents a portion of the proteins within the larger set covered by Pfam model pfam03960. That larger family includes a glutaredoxin-dependent arsenate reductase (TIGR00014). Characterized members of this family include Spx and MgsR from Bacillus subtili. Spx is a global regulator for response to thiol-specific oxidative stress. It interacts with RNA polymerase. MgsR (modulator of the general stress response, also called YqgZ) provides a second level of regulation for more than a third of the proteins in the B. subtilis general stress regulon controlled by Sigma-B.
Probab=53.00 E-value=32 Score=21.57 Aligned_cols=50 Identities=14% Similarity=0.068 Sum_probs=34.3
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC--CeEEEEc
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG--KIEIVSV 69 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G--~a~ivsv 69 (86)
-+|+.| .++++.|.+ .|+.-..+|..... .+..+|.+-+...| ..++++-
T Consensus 7 ~~C~~c-~ka~~~L~~-~~i~~~~idi~~~~------~~~~el~~l~~~~~~~~~~lin~ 58 (117)
T TIGR01617 7 PNCTTC-KKARRWLEA-NGIEYQFIDIGEDG------PTREELLDILSLLEDGIDPLLNT 58 (117)
T ss_pred CCCHHH-HHHHHHHHH-cCCceEEEecCCCh------hhHHHHHHHHHHcCCCHHHheeC
Confidence 489999 667788877 48877667764322 55677888888777 3455544
No 67
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=52.59 E-value=15 Score=24.83 Aligned_cols=49 Identities=14% Similarity=0.093 Sum_probs=36.0
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCC-EEEEEEeCCHHHHHHHHHh
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQ-KLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~-~vtV~g~vd~~~l~~~l~k 60 (86)
-+|..--.-.+++|++|+.+.-|+-+++.+ +++=.|.-|.+.|...|+.
T Consensus 91 h~~~as~~i~rkvlQ~Le~~~~ve~hp~gGR~lt~~GqrdldrIa~~i~~ 140 (143)
T KOG3411|consen 91 HFCDASGGIARKVLQALEKMGIVEKHPKGGRRLTEQGQRDLDRIAGQIRE 140 (143)
T ss_pred hhhccccHHHHHHHHHHHhCCceeeCCCCcceeCcccchhHHHHHHHHHh
Confidence 356655555666777777777788888774 5777888899999888874
No 68
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=52.55 E-value=24 Score=21.59 Aligned_cols=40 Identities=18% Similarity=0.142 Sum_probs=28.0
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh-hCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK-IGK 63 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k-~G~ 63 (86)
-.|+.| .++++.|..+ ||.-..+|... + ..+.++|.+ .|.
T Consensus 25 ~~Cp~C-~~ak~lL~~~-~i~~~~~di~~---------~-~~~~~~l~~~tg~ 65 (97)
T TIGR00365 25 PQCGFS-ARAVQILKAC-GVPFAYVNVLE---------D-PEIRQGIKEYSNW 65 (97)
T ss_pred CCCchH-HHHHHHHHHc-CCCEEEEECCC---------C-HHHHHHHHHHhCC
Confidence 469999 8899999885 88776666542 2 356667764 564
No 69
>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=52.50 E-value=18 Score=21.85 Aligned_cols=23 Identities=17% Similarity=0.271 Sum_probs=19.4
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~v 49 (86)
.+||+. +++|+...+.++|.|.-
T Consensus 17 dlPG~~~edi~V~v~~~~L~I~g~~ 41 (86)
T cd06475 17 DVNHFAPEELVVKTKDGVVEITGKH 41 (86)
T ss_pred ECCCCCHHHEEEEEECCEEEEEEEE
Confidence 578887 48899999999999974
No 70
>PRK10568 periplasmic protein; Provisional
Probab=52.18 E-value=61 Score=22.57 Aligned_cols=48 Identities=17% Similarity=0.260 Sum_probs=35.5
Q ss_pred cccHhHHHHHHHHHhccCCcc--EEEEecCCCEEEEEEeCC-HHHHHHHHH
Q 036889 12 MNDEKTKQKAIEAAADIYGVD--SITADLKEQKLIIIGDMD-AVAIAKKLK 59 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~--~v~vd~~~~~vtV~g~vd-~~~l~~~l~ 59 (86)
+....-..+|+.+|..-+++. .+.+...+|.|++.|.++ +.+...+.+
T Consensus 56 ~~D~~I~~~v~~~L~~~~~i~~~~I~V~v~~G~V~L~G~V~s~~~~~~a~~ 106 (203)
T PRK10568 56 MDDSAITAKVKAALVDHDNIKSTDISVKTHQKVVTLSGFVESQAQAEEAVK 106 (203)
T ss_pred ccHHHHHHHHHHHHHhCCCCCCCceEEEEECCEEEEEEEeCCHHHHHHHHH
Confidence 445667788999988777775 578888999999999975 444444443
No 71
>PRK10743 heat shock protein IbpA; Provisional
Probab=51.88 E-value=16 Score=24.22 Aligned_cols=22 Identities=14% Similarity=0.382 Sum_probs=19.1
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.+|||. +++|+.+++.++|.|.
T Consensus 52 elPGv~kedi~V~v~~~~LtI~ge 75 (137)
T PRK10743 52 AVAGFAESELEITAQDNLLVVKGA 75 (137)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEE
Confidence 688986 4888889999999997
No 72
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=51.81 E-value=33 Score=21.99 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=22.5
Q ss_pred EEEecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 34 ITADLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 34 v~vd~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
.++|.+ +++++.|.+++.+|.+.|++
T Consensus 50 g~id~~-~rlii~G~~~~~~i~~~l~~ 75 (110)
T smart00653 50 GSIDGK-GRLIVNGRFTPKKLQDLLRR 75 (110)
T ss_pred eeECCC-CeEEEEEeeCHHHHHHHHHH
Confidence 366655 99999999999999999987
No 73
>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=51.52 E-value=18 Score=21.92 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=19.8
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~v 49 (86)
.++|+. .++|+...+.++|.|.-
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~ge~ 38 (83)
T cd06477 14 DVVQFRPEDIIIQVFEGWLLIKGQH 38 (83)
T ss_pred EcCCCCHHHeEEEEECCEEEEEEEE
Confidence 578887 49999999999999974
No 74
>TIGR02183 GRXA Glutaredoxin, GrxA family. This model includes the E. coli glyutaredoxin GrxA which appears to have primary responsibility for the reduction of ribonucleotide reductase.
Probab=51.41 E-value=25 Score=20.82 Aligned_cols=27 Identities=11% Similarity=0.006 Sum_probs=19.8
Q ss_pred cccHhHHHHHHHHHhcc----CCccEEEEecC
Q 036889 12 MNDEKTKQKAIEAAADI----YGVDSITADLK 39 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l----~GV~~v~vd~~ 39 (86)
-.|+.| .++++.|.++ +|+.-..+|..
T Consensus 8 ~~Cp~C-~~ak~~L~~~~~~~~~i~~~~idi~ 38 (86)
T TIGR02183 8 PGCPYC-VRAKQLAEKLAIERADFEFRYIDIH 38 (86)
T ss_pred CCCccH-HHHHHHHHHhCcccCCCcEEEEECC
Confidence 489999 7788888887 36666566644
No 75
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=51.16 E-value=59 Score=27.13 Aligned_cols=46 Identities=20% Similarity=0.307 Sum_probs=34.1
Q ss_pred CCccE--EEEecCCCEEEEEEe--CCHHHHHHHHHhhCCeEEEEcCCCCC
Q 036889 29 YGVDS--ITADLKEQKLIIIGD--MDAVAIAKKLKKIGKIEIVSVGPAKA 74 (86)
Q Consensus 29 ~GV~~--v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a~ivsv~~~~~ 74 (86)
||++. .-+|++..-+-+.+. +|+.+++..|...|+..+++....|.
T Consensus 251 PGiTtgiAvldldGevl~~~S~r~~~~~eVve~I~~lG~PvvVAtDVtp~ 300 (652)
T COG2433 251 PGITTGIAVLDLDGEVLDLESRRGIDRSEVVEFISELGKPVVVATDVTPA 300 (652)
T ss_pred CCceeeEEEEecCCcEEeeeccccCCHHHHHHHHHHcCCceEEEccCCCC
Confidence 45543 346777777777764 99999999999999977777655443
No 76
>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=51.09 E-value=28 Score=29.94 Aligned_cols=44 Identities=9% Similarity=0.121 Sum_probs=34.5
Q ss_pred HHHHHHHHHhccCCccEEEEecCC--CEEEEEE--------eCCHHHHHHHHHh
Q 036889 17 TKQKAIEAAADIYGVDSITADLKE--QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~--~~vtV~g--------~vd~~~l~~~l~k 60 (86)
=+..++..|.+++||.+|..|... .++.|.- .+++.++.++|+.
T Consensus 699 ~a~~v~~~l~~~pgv~~v~~~~~~~~~e~~i~id~~~~~~~Glt~~~v~~~l~~ 752 (1051)
T TIGR00914 699 TAEKISAVLKGVPGAADVKVEQTTGLPYLTVEIDREKAARYGLTVGDVQDTVAT 752 (1051)
T ss_pred HHHHHHHHHhcCCCceeeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 457899999999999999998754 4455553 2788899999984
No 77
>PRK11597 heat shock chaperone IbpB; Provisional
Probab=50.39 E-value=17 Score=24.33 Aligned_cols=22 Identities=18% Similarity=0.428 Sum_probs=19.1
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.+|||. +++|+.+.+.++|.|.
T Consensus 50 dlPGv~kedi~V~v~~~~LtI~ge 73 (142)
T PRK11597 50 ALAGFRQEDLDIQLEGTRLTVKGT 73 (142)
T ss_pred EeCCCCHHHeEEEEECCEEEEEEE
Confidence 678986 4899999999999997
No 78
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=49.83 E-value=57 Score=20.29 Aligned_cols=43 Identities=26% Similarity=0.236 Sum_probs=28.9
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
-.|+.| +++++.|.+. |+.-..+|...+. .+..+|..-+.++|
T Consensus 7 ~~C~~c-~ka~~~L~~~-~i~~~~idi~~~~------~~~~el~~~~~~~~ 49 (111)
T cd03036 7 PKCSTC-RKAKKWLDEH-GVDYTAIDIVEEP------PSKEELKKWLEKSG 49 (111)
T ss_pred CCCHHH-HHHHHHHHHc-CCceEEecccCCc------ccHHHHHHHHHHcC
Confidence 489999 6777888774 8877777765433 34556666565554
No 79
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=49.76 E-value=18 Score=23.70 Aligned_cols=25 Identities=32% Similarity=0.547 Sum_probs=20.9
Q ss_pred hccCCccE--EEEecCCCEEEEEEeCC
Q 036889 26 ADIYGVDS--ITADLKEQKLIIIGDMD 50 (86)
Q Consensus 26 ~~l~GV~~--v~vd~~~~~vtV~g~vd 50 (86)
..++|+.. ++|....+.++|.|...
T Consensus 56 ~elPG~~kedI~I~~~~~~l~I~g~~~ 82 (146)
T COG0071 56 AELPGVDKEDIEITVEGNTLTIRGERE 82 (146)
T ss_pred EEcCCCChHHeEEEEECCEEEEEEEec
Confidence 36899884 89999999999999754
No 80
>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated. This protein family belongs to the larger set of polysaccharide biosynthesis/export proteins described by Pfam model pfam02563. Members of this family are variable in either containing of lacking a 78-residue insert, but appear to fall within a single clade, nevertheless, where the regions in which the gene is found encode components of the PEP-CTERM/EpsH proposed exosortase protein sorting system.
Probab=49.67 E-value=61 Score=21.56 Aligned_cols=57 Identities=11% Similarity=0.135 Sum_probs=40.7
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEec------CCCEEEEEEeC---------CHHHHHHHHHhhC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITADL------KEQKLIIIGDM---------DAVAIAKKLKKIG 62 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~------~~~~vtV~g~v---------d~~~l~~~l~k~G 62 (86)
.+++.|++-+-=.+.|+..|++.--=-.|.+.. .+++|.|.|.+ +...|.++|..+|
T Consensus 38 ~v~v~G~T~~e~~~~I~~~l~~~~~~p~v~V~v~~~~~~~~~~V~V~GeV~~PG~y~~~~~~tl~~ai~~AG 109 (165)
T TIGR03027 38 DLVASGKTPTQLARDIEEKLAKYVRNPVVTVIVTGFIGPFSEQIRVVGAAANPQALPYREGMTLLDVMIAVG 109 (165)
T ss_pred eEEECCCCHHHHHHHHHHHHHHhccCCeEEEEEeecccCCCcEEEEEEEeCCCceeeeCCCCcHHHHHHHcC
Confidence 367889999999999999998752111233333 25789999863 4567999998875
No 81
>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=49.35 E-value=47 Score=18.61 Aligned_cols=48 Identities=8% Similarity=0.072 Sum_probs=33.8
Q ss_pred EEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCCe
Q 036889 7 LKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a 64 (86)
|.+.|+.|+.=.-.++++| ++..= +.+.|..+ .....|...+++.||.
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~g---------~~l~v~~d~~~s~~~i~~~~~~~G~~ 51 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEAG---------GEIEVLVDNEVAKENVSRFAESRGYE 51 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCCC---------CEEEEEEcChhHHHHHHHHHHHcCCE
Confidence 3456899999999999999 66422 23444433 4557888888899983
No 82
>TIGR01709 typeII_sec_gspL general secretion pathway protein L. This model represents GspL, protein L of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=49.20 E-value=69 Score=24.11 Aligned_cols=49 Identities=16% Similarity=0.179 Sum_probs=32.6
Q ss_pred HHHHHHhccCC--ccEEEEecCCCEEEEEEe----CCHHHHHHHHHhhCC-eEEEEc
Q 036889 20 KAIEAAADIYG--VDSITADLKEQKLIIIGD----MDAVAIAKKLKKIGK-IEIVSV 69 (86)
Q Consensus 20 kI~kal~~l~G--V~~v~vd~~~~~vtV~g~----vd~~~l~~~l~k~G~-a~ivsv 69 (86)
.+-.++...+| +.++.+|...+.+++... -+.+.+..+|+ .|| +++-+.
T Consensus 314 ~l~~al~~~~~~~l~sL~y~~~~~~L~l~l~a~~~~~le~l~~~l~-~g~~v~~~~~ 369 (384)
T TIGR01709 314 ALATALGQLPGLQLQSLDFDGARGELRLKLEAPSDADLEQLRSRLA-RGFQVALGQA 369 (384)
T ss_pred HHHHHhccCCCCceeEEeEcCCCCEEEEEEecCChHHHHHHHHHHh-hhceeccccc
Confidence 44556666666 456778877899999876 34555666777 887 554443
No 83
>COG4130 Predicted sugar epimerase [Carbohydrate transport and metabolism]
Probab=48.72 E-value=32 Score=25.38 Aligned_cols=64 Identities=17% Similarity=0.150 Sum_probs=41.8
Q ss_pred EEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCCeEEEEcCC
Q 036889 7 LKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGKIEIVSVGP 71 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a~ivsv~~ 71 (86)
|-++.+.-++=.-...=++.+--|+..|++--+-....|.+.+++.++...-+|+|- .|+|+..
T Consensus 7 Fain~~~aP~l~v~affa~ak~lg~s~VeiRndl~~~~I~dg~p~a~vka~Aek~Gl-~IvSINA 70 (272)
T COG4130 7 FAINRIAAPGLSVEAFFALAKRLGLSKVEIRNDLPSNAIADGTPAAEVKALAEKAGL-TIVSINA 70 (272)
T ss_pred hhhhhccCCCCCHHHHHHHHHHcCcceeEEecCCCcccccCCCCHHHHHHHHHHcCc-EEEEeec
Confidence 333333333332223334445559999998655566677788999999888889994 6777744
No 84
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=47.80 E-value=54 Score=18.88 Aligned_cols=59 Identities=7% Similarity=0.070 Sum_probs=40.3
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCC-ccEEEEecCCCEEEEE----Ee-CCHHHHHHHHHhh
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYG-VDSITADLKEQKLIII----GD-MDAVAIAKKLKKI 61 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~G-V~~v~vd~~~~~vtV~----g~-vd~~~l~~~l~k~ 61 (86)
+.+++.|-|...++....+.++|....+ +..+....-.+..+.. +. -+...|.++|++.
T Consensus 1 ~~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~l 65 (76)
T PF13740_consen 1 EQLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEEL 65 (76)
T ss_dssp EEEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHHH
T ss_pred CEEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHHH
Confidence 4578899999999999999999999865 5566665555665443 33 3556677777754
No 85
>TIGR02196 GlrX_YruB Glutaredoxin-like protein, YruB-family. This glutaredoxin-like protein family contains the conserved CxxC motif and includes the Clostridium pasteurianum protein YruB which has been cloned from a rubredoxin operon. Somewhat related to NrdH, it is unknown whether this protein actually interacts with glutathione/glutathione reducatase, or, like NrdH, some other reductant system.
Probab=47.76 E-value=36 Score=18.19 Aligned_cols=25 Identities=20% Similarity=0.041 Sum_probs=16.6
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEec
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~ 38 (86)
-.|+.| .+++..|... |+.-..+|.
T Consensus 8 ~~C~~C-~~~~~~l~~~-~i~~~~vdi 32 (74)
T TIGR02196 8 PWCPPC-KKAKEYLTSK-GIAFEEIDV 32 (74)
T ss_pred CCChhH-HHHHHHHHHC-CCeEEEEec
Confidence 479999 5677788763 665544443
No 86
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=47.72 E-value=67 Score=28.00 Aligned_cols=46 Identities=11% Similarity=0.103 Sum_probs=37.3
Q ss_pred HHHHHHHHHhccCCccEEEEecC-CCEEEEEE--------eCCHHHHHHHHHhhC
Q 036889 17 TKQKAIEAAADIYGVDSITADLK-EQKLIIIG--------DMDAVAIAKKLKKIG 62 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~-~~~vtV~g--------~vd~~~l~~~l~k~G 62 (86)
=.+.++..|++++||.+|++-.. ...+.|.- .+++.++.++|+...
T Consensus 156 ~~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~~ai~~qN 210 (1009)
T COG0841 156 AASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQSAIRAQN 210 (1009)
T ss_pred HHHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 35679999999999999999876 56677763 388999999998644
No 87
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=47.70 E-value=23 Score=28.60 Aligned_cols=31 Identities=13% Similarity=0.234 Sum_probs=27.5
Q ss_pred EEEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 34 ITADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 34 v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
+++|++..+|||..-+...+|++.+.+.|++
T Consensus 105 v~~dpe~~tvTV~aGirlrQLie~~~~~Gls 135 (518)
T KOG4730|consen 105 VEFDPELKTVTVQAGIRLRQLIEELAKLGLS 135 (518)
T ss_pred eeeCchhceEEeccCcCHHHHHHHHHhcCcc
Confidence 4568888999999999999999999999963
No 88
>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=46.82 E-value=21 Score=20.36 Aligned_cols=19 Identities=21% Similarity=0.309 Sum_probs=16.6
Q ss_pred HHHHHHHHHhccCCccEEE
Q 036889 17 TKQKAIEAAADIYGVDSIT 35 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~ 35 (86)
=-..+.+.|.+++||.+|.
T Consensus 50 ~L~~li~~L~~i~gV~~V~ 68 (74)
T cd04877 50 KLQTLMPEIRRIDGVEDVK 68 (74)
T ss_pred HHHHHHHHHhCCCCceEEE
Confidence 3489999999999999986
No 89
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=46.81 E-value=44 Score=19.93 Aligned_cols=23 Identities=22% Similarity=0.380 Sum_probs=19.4
Q ss_pred cCCCEEEEEEeCCHHHHHHHHHh
Q 036889 38 LKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 38 ~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
+.+|+++++|.-+.+++..++++
T Consensus 55 F~sGki~itGaks~~~~~~a~~~ 77 (86)
T PF00352_consen 55 FSSGKIVITGAKSEEEAKKAIEK 77 (86)
T ss_dssp ETTSEEEEEEESSHHHHHHHHHH
T ss_pred EcCCEEEEEecCCHHHHHHHHHH
Confidence 46899999998888888888775
No 90
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=46.37 E-value=56 Score=25.06 Aligned_cols=57 Identities=11% Similarity=0.243 Sum_probs=41.7
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEe---cCCCEEEEEEe--------C-C-HHHHHHHHHhhC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITAD---LKEQKLIIIGD--------M-D-AVAIAKKLKKIG 62 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd---~~~~~vtV~g~--------v-d-~~~l~~~l~k~G 62 (86)
.++|.|++-+.=.+.|.+.|++.--==.|.|. ..+++|+|.|+ + + +..|+++|..+|
T Consensus 133 ~V~vaG~T~~e~~~~I~~~L~~~~~~PqV~V~v~~~~s~~V~V~GeV~~PG~~~l~~~~~tlldaIa~AG 202 (379)
T PRK15078 133 KVHVAGKTVTEIRSDITGRLAKYIESPQVDVNIAAFRSQKAYVTGEVNKSGQQAITNVPLTILDAINAAG 202 (379)
T ss_pred eEEECCCCHHHHHHHHHHHHHHhccCCeEEEEEccCCceEEEEEceecCCeEEEecCCCccHHHHHHHcc
Confidence 36788999999999999999875221134443 34578999985 2 2 578999999876
No 91
>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=46.25 E-value=26 Score=20.90 Aligned_cols=22 Identities=14% Similarity=0.222 Sum_probs=18.4
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.+||+. .++|+...+.++|.|.
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~g~ 37 (83)
T cd06478 14 DVKHFSPEELSVKVLGDFVEIHGK 37 (83)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEE
Confidence 567876 4888888999999996
No 92
>PF03958 Secretin_N: Bacterial type II/III secretion system short domain; InterPro: IPR005644 This is a group of NolW-like proteins, which are closely related to bacterial type II and III secretion system protein (IPR004846 from INTERPRO).; PDB: 3EZJ_C 2Y3M_A 3OSS_D.
Probab=45.86 E-value=51 Score=18.83 Aligned_cols=28 Identities=32% Similarity=0.432 Sum_probs=20.7
Q ss_pred EEEEecCCCEEEEEEe-CCHHHHHHHHHh
Q 036889 33 SITADLKEQKLIIIGD-MDAVAIAKKLKK 60 (86)
Q Consensus 33 ~v~vd~~~~~vtV~g~-vd~~~l~~~l~k 60 (86)
+|.+|..++.+.|.|+ -+...+.+.|++
T Consensus 47 ~i~~d~~tNsliv~g~~~~~~~i~~li~~ 75 (82)
T PF03958_consen 47 RIVADERTNSLIVRGTPEDLEQIRELIKQ 75 (82)
T ss_dssp EEEEECTTTEEEEEEEHHHHHHHHHHHHH
T ss_pred EEEEECCCCEEEEEeCHHHHHHHHHHHHH
Confidence 8999999999999997 444445444443
No 93
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=45.70 E-value=68 Score=19.48 Aligned_cols=58 Identities=16% Similarity=0.040 Sum_probs=39.5
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCC-ccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYG-VDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~G-V~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
|++=+|+| .=..+.+.+...|....+ -..+.|+..++.+.|.|+. ...|.+-|...||
T Consensus 29 T~IrkI~G-D~~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~-~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 29 TVIRKIEG-DIWALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDH-VEEVKKWLLEKGF 87 (87)
T ss_pred EEEEeecC-CHHHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCcc-HHHHHHHHHHCcC
Confidence 34445543 335567777778776554 2357889999999999986 4566677766664
No 94
>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=45.45 E-value=25 Score=21.12 Aligned_cols=23 Identities=17% Similarity=0.180 Sum_probs=19.2
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~v 49 (86)
.++|+. .++|+..++.++|.|.-
T Consensus 14 dlpG~~~edi~V~v~~~~L~I~g~~ 38 (83)
T cd06476 14 DVCHFTPDEITVRTVDNLLEVSARH 38 (83)
T ss_pred EcCCCCHHHeEEEEECCEEEEEEEE
Confidence 578876 48899999999999974
No 95
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=45.08 E-value=65 Score=27.89 Aligned_cols=42 Identities=7% Similarity=0.136 Sum_probs=34.1
Q ss_pred HHHHHHHhccCCccEEEEecCC-CEEEEEE--------eCCHHHHHHHHHh
Q 036889 19 QKAIEAAADIYGVDSITADLKE-QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~vd~~~-~~vtV~g--------~vd~~~l~~~l~k 60 (86)
..++..|.+++||.+|++.... .++.|.- .+++.++.++|+.
T Consensus 169 ~~l~~~L~~i~gV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~~v~~ai~~ 219 (1040)
T PRK10503 169 TRVAQKISQVSGVGLVTLSGGQRPAVRVKLNAQAIAALGLTSETVRTAITG 219 (1040)
T ss_pred HHHHHHhcCCCCceEEEecCCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 5799999999999999988653 5677763 3788899999985
No 96
>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=44.97 E-value=59 Score=19.87 Aligned_cols=49 Identities=12% Similarity=0.102 Sum_probs=30.2
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh-hCC
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK-IGK 63 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k-~G~ 63 (86)
+++-- -..|+.| .++++.|.++ |+.--.+|.+. +.+..++.+++.+ +|+
T Consensus 10 Vvvys-k~~Cp~C-~~ak~~L~~~-~i~~~~vdid~-------~~~~~~~~~~l~~~tg~ 59 (99)
T TIGR02189 10 VVIFS-RSSCCMC-HVVKRLLLTL-GVNPAVHEIDK-------EPAGKDIENALSRLGCS 59 (99)
T ss_pred EEEEE-CCCCHHH-HHHHHHHHHc-CCCCEEEEcCC-------CccHHHHHHHHHHhcCC
Confidence 34444 3689999 5888899886 77654444432 2334556667764 454
No 97
>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=44.83 E-value=27 Score=21.02 Aligned_cols=23 Identities=17% Similarity=0.280 Sum_probs=19.2
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~v 49 (86)
.++|+. +++|+...+.++|.|.-
T Consensus 17 dlpG~~~edi~V~v~~~~L~I~g~~ 41 (86)
T cd06497 17 DVKHFSPEDLTVKVLDDYVEIHGKH 41 (86)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 578877 58999999999999973
No 98
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=44.60 E-value=51 Score=17.69 Aligned_cols=40 Identities=23% Similarity=0.262 Sum_probs=27.7
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhh-CC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKI-GK 63 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~-G~ 63 (86)
-.|+.| .++++.|.+. |+.--.+|..... ...+.|++. |+
T Consensus 7 ~~C~~C-~~~~~~L~~~-~i~y~~~dv~~~~----------~~~~~l~~~~g~ 47 (60)
T PF00462_consen 7 PGCPYC-KKAKEFLDEK-GIPYEEVDVDEDE----------EAREELKELSGV 47 (60)
T ss_dssp TTSHHH-HHHHHHHHHT-TBEEEEEEGGGSH----------HHHHHHHHHHSS
T ss_pred CCCcCH-HHHHHHHHHc-CCeeeEcccccch----------hHHHHHHHHcCC
Confidence 589999 7888888774 7876666665432 666777653 63
No 99
>COG0277 GlcD FAD/FMN-containing dehydrogenases [Energy production and conversion]
Probab=44.51 E-value=26 Score=26.40 Aligned_cols=37 Identities=16% Similarity=0.236 Sum_probs=29.7
Q ss_pred ccCCccEE-EEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 27 DIYGVDSI-TADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 27 ~l~GV~~v-~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
++.....| ++|..+++++|..-+--.+|.++|+..|+
T Consensus 80 ~l~~mn~i~~id~~~~~~~v~aGv~l~~l~~~l~~~G~ 117 (459)
T COG0277 80 DLSRLNRILEIDPEDGTATVQAGVTLEDLEKALAPHGL 117 (459)
T ss_pred EchhhcchhccCcCCCEEEEcCCccHHHHHHHHHHcCC
Confidence 33333444 78999999999988999999999998886
No 100
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=43.58 E-value=57 Score=18.00 Aligned_cols=26 Identities=23% Similarity=0.111 Sum_probs=19.7
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~ 39 (86)
-.|+.| .+++..|.+. |+.--.+|..
T Consensus 8 ~~Cp~C-~~ak~~L~~~-~i~~~~i~i~ 33 (75)
T cd03418 8 PNCPYC-VRAKALLDKK-GVDYEEIDVD 33 (75)
T ss_pred CCChHH-HHHHHHHHHC-CCcEEEEECC
Confidence 589999 7888999885 7766555553
No 101
>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=43.52 E-value=37 Score=25.32 Aligned_cols=29 Identities=14% Similarity=0.155 Sum_probs=25.5
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEE
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIII 46 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~ 46 (86)
-.+|+++|.+++||+.+.+-...|++.+-
T Consensus 89 y~Avk~aLL~~~gv~haNI~SsaGtiniY 117 (291)
T PF03434_consen 89 YEAVKSALLNLNGVEHANIKSSAGTINIY 117 (291)
T ss_pred HHHHHHHhcCCCCceeeeeecCCCeeEEE
Confidence 46899999999999999998888887764
No 102
>cd03035 ArsC_Yffb Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine suggest that it is likely to function as a glutathione (GSH)-dependent thiol reductase. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from GSH via glutaredoxin, through a single catalytic cysteine.
Probab=43.50 E-value=79 Score=19.61 Aligned_cols=44 Identities=25% Similarity=0.303 Sum_probs=31.5
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
-+|..| +++++.|... |+.--.+|..+. ..+.++|...+++.|.
T Consensus 7 ~~C~~c-rka~~~L~~~-~i~~~~~di~~~------p~s~~eL~~~l~~~g~ 50 (105)
T cd03035 7 KNCDTV-KKARKWLEAR-GVAYTFHDYRKD------GLDAATLERWLAKVGW 50 (105)
T ss_pred CCCHHH-HHHHHHHHHc-CCCeEEEecccC------CCCHHHHHHHHHHhCh
Confidence 489999 7778888764 777766665432 2677788887777774
No 103
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from 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. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=43.44 E-value=47 Score=18.17 Aligned_cols=16 Identities=19% Similarity=0.262 Sum_probs=7.8
Q ss_pred HHHHHHhccCCccEEE
Q 036889 20 KAIEAAADIYGVDSIT 35 (86)
Q Consensus 20 kI~kal~~l~GV~~v~ 35 (86)
.+.+.|.+++||..+.
T Consensus 54 ~~~~~l~~~~~v~~v~ 69 (73)
T cd04902 54 EVLEELRALPGILSAK 69 (73)
T ss_pred HHHHHHHcCCCccEEE
Confidence 4444455555554443
No 104
>COG2823 OsmY Predicted periplasmic or secreted lipoprotein [General function prediction only]
Probab=43.07 E-value=93 Score=22.01 Aligned_cols=46 Identities=15% Similarity=0.106 Sum_probs=36.4
Q ss_pred cHhHHHHHHHHHhccCCccE--EEEecCCCEEEEEEeC-CHHHHHHHHH
Q 036889 14 DEKTKQKAIEAAADIYGVDS--ITADLKEQKLIIIGDM-DAVAIAKKLK 59 (86)
Q Consensus 14 C~~C~~kI~kal~~l~GV~~--v~vd~~~~~vtV~g~v-d~~~l~~~l~ 59 (86)
..--..+|+.+|..-+.+.+ |+|.-.++.|.+.|.+ ++++-..+.+
T Consensus 129 Dt~iTt~Vka~Ll~~~~v~s~~IkV~t~~g~V~L~G~V~s~~e~~~A~~ 177 (196)
T COG2823 129 DTWITTKVKAALLGDDNVKSSNIKVETENGEVYLSGLVDSQEEAERAEE 177 (196)
T ss_pred hHHHHHHHHHHhccCCCCCcceEEEEEECCEEEEEEEeCCHHHHHHHHH
Confidence 34456789999998888875 7778889999999998 7777666655
No 105
>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 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) HspB9 is expressed exclusively in the normal testis and in various tumor samples and is a cancer/testis antigen. hHspB9 interacts with TCTEL1 (T-complex testis expressed protein -1), a subunit of dynein. hHspB9 and TCTEL1 are co-expressed in similar cells within the testis and in tumor cells. Included in this group is Xenopus Hsp30, a developmentally-regulated heat-inducible molecular chaperone.
Probab=43.01 E-value=29 Score=20.90 Aligned_cols=22 Identities=23% Similarity=0.617 Sum_probs=18.8
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.++|+. +++|+...+.++|.|.
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~g~ 37 (87)
T cd06481 14 DVRGFSPEDLSVRVDGRKLVVTGK 37 (87)
T ss_pred ECCCCChHHeEEEEECCEEEEEEE
Confidence 578886 5889999999999996
No 106
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=42.91 E-value=76 Score=19.21 Aligned_cols=43 Identities=19% Similarity=0.220 Sum_probs=29.8
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
-+|+.| +++++.|.+. |+.--.+|...+ ..+..+|.+.+.+.|
T Consensus 7 ~~C~~c-~ka~~~L~~~-~i~~~~idi~~~------~~~~~~l~~~~~~~~ 49 (105)
T cd02977 7 PNCSTS-RKALAWLEEH-GIEYEFIDYLKE------PPTKEELKELLAKLG 49 (105)
T ss_pred CCCHHH-HHHHHHHHHc-CCCcEEEeeccC------CCCHHHHHHHHHhcC
Confidence 489999 6667888774 887666665432 255677777777766
No 107
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=42.79 E-value=56 Score=17.66 Aligned_cols=35 Identities=23% Similarity=0.258 Sum_probs=22.8
Q ss_pred HHHHhccCCccEEEEecC--CCEEEEEEeCCHHHHHHHHH
Q 036889 22 IEAAADIYGVDSITADLK--EQKLIIIGDMDAVAIAKKLK 59 (86)
Q Consensus 22 ~kal~~l~GV~~v~vd~~--~~~vtV~g~vd~~~l~~~l~ 59 (86)
.+.|...-|+. +.++.. ...++|.| +++.+..|.+
T Consensus 22 i~~I~~~t~~~-I~i~~~~~~~~v~I~G--~~~~v~~A~~ 58 (60)
T PF00013_consen 22 IKEIEEETGVK-IQIPDDDERDIVTISG--SPEQVEKAKK 58 (60)
T ss_dssp HHHHHHHHTSE-EEEESTTEEEEEEEEE--SHHHHHHHHH
T ss_pred HHHhhhhcCeE-EEEcCCCCcEEEEEEe--CHHHHHHHHh
Confidence 34444545776 666544 35888999 7778877765
No 108
>KOG3308 consensus Uncharacterized protein of the uridine kinase family [Nucleotide transport and metabolism]
Probab=42.73 E-value=33 Score=24.91 Aligned_cols=59 Identities=10% Similarity=0.068 Sum_probs=35.5
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCCccEE---EEecCCCEEEEEEe-CCHHHHHHHHH
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSI---TADLKEQKLIIIGD-MDAVAIAKKLK 59 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v---~vd~~~~~vtV~g~-vd~~~l~~~l~ 59 (86)
||+++++-|.|++|.|=..-.+.-..-++|-.-| +.=...+.+.|..+ ++..+++++|.
T Consensus 1 s~K~~ivgiSG~TnsGKTTLak~l~~~f~~~~lIhqDDFyKp~~Ei~v~~~n~~~wd~~esLd 63 (225)
T KOG3308|consen 1 SMKTLIVGISGCTNSGKTTLAKSLHRFFPGCSLIHQDDFYKPENEIEVDYNNIDNWDLLESLD 63 (225)
T ss_pred CceEEEEEeecccCCCHhHHHHHHHHHccCCeeeccccccCchhhhhcccCCcchhcchhhhh
Confidence 7899999999999999744444444455664322 22223355555543 55566666554
No 109
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=42.63 E-value=59 Score=17.92 Aligned_cols=60 Identities=12% Similarity=0.007 Sum_probs=38.7
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCC-ccEEEEecCCCEEEEEEe-CCHHHHHHHHHhhCCe
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYG-VDSITADLKEQKLIIIGD-MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~G-V~~v~vd~~~~~vtV~g~-vd~~~l~~~l~k~G~a 64 (86)
+.+.+.++ .-+|=-.+|...|.+-.. |.++-+....++..+.-. -|++.+.+.|++.||.
T Consensus 2 ~ri~v~v~--d~pG~La~v~~~l~~~~inI~~i~~~~~~~~~~~rl~~~~~~~~~~~L~~~G~~ 63 (66)
T cd04908 2 KQLSVFLE--NKPGRLAAVTEILSEAGINIRALSIADTSEFGILRLIVSDPDKAKEALKEAGFA 63 (66)
T ss_pred EEEEEEEc--CCCChHHHHHHHHHHCCCCEEEEEEEecCCCCEEEEEECCHHHHHHHHHHCCCE
Confidence 34555563 667888889999977532 466655333333444322 5677999999999984
No 110
>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=42.39 E-value=25 Score=19.99 Aligned_cols=23 Identities=26% Similarity=0.511 Sum_probs=19.0
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~v 49 (86)
.++|+. ++++....+.+.|.|..
T Consensus 14 ~lpg~~~~~i~V~v~~~~l~I~g~~ 38 (88)
T cd06464 14 DLPGFKKEDIKVEVEDGVLTISGER 38 (88)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 578984 68888888999999963
No 111
>TIGR01678 FAD_lactone_ox sugar 1,4-lactone oxidases. This model represents a family of at least two different sugar 1,4 lactone oxidases, both involved in synthesizing ascorbic acid or a derivative. These include L-gulonolactone oxidase (EC 1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase (EC 1.1.3.37) from Saccharomyces cerevisiae. Members are proposed to have the cofactor FAD covalently bound at a site specified by Prosite motif PS00862; OX2_COVAL_FAD; 1.
Probab=42.32 E-value=51 Score=25.72 Aligned_cols=30 Identities=10% Similarity=0.219 Sum_probs=27.2
Q ss_pred EEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 35 TADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 35 ~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
++|.++++++|.+-+.-.+|.+.|.+.|++
T Consensus 71 ~id~~~~~vtV~aG~~l~~L~~~L~~~Gl~ 100 (438)
T TIGR01678 71 QFDKEKKQITVEAGIRLYQLHEQLDEHGYS 100 (438)
T ss_pred EEcCCCCEEEEcCCCCHHHHHHHHHHcCCE
Confidence 678888999999999999999999999975
No 112
>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=42.21 E-value=60 Score=27.72 Aligned_cols=45 Identities=22% Similarity=0.344 Sum_probs=36.1
Q ss_pred hHHHHHHHHHhccCCccEEEEecCCCEEEEEEe----------CCHHHHHHHHHh
Q 036889 16 KTKQKAIEAAADIYGVDSITADLKEQKLIIIGD----------MDAVAIAKKLKK 60 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~----------vd~~~l~~~l~k 60 (86)
.=+.++++.|++++|+..+..|...++-.+.-. +++.+|.+.|+-
T Consensus 687 ~~a~~v~~~l~~~pgv~dv~~~~~~~~~el~i~~dreka~~~Gls~~~va~~l~~ 741 (1021)
T PF00873_consen 687 KAAEKVKAKLAEIPGVTDVRDDWEDGQPELRIDPDREKAARLGLSPADVARTLRT 741 (1021)
T ss_dssp HHHHHHHHHHHHSTTEEEEEESSSSBEEEEEEEE-HHHHHHTTB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCcccccccccccCcceEEEecHHHHHHcCCCHHHHHHHHHH
Confidence 356889999999999999999998877666532 677888899984
No 113
>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=42.20 E-value=1.1e+02 Score=20.85 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=34.4
Q ss_pred hHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCC----H-------HHHHHHHHh
Q 036889 16 KTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMD----A-------VAIAKKLKK 60 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd----~-------~~l~~~l~k 60 (86)
.=+.+|.+.+.+++||.++.+-...+.+.|-.+++ . ..+.+++++
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vgv~~~~~~~~~~~~~iK~~Va~~Vk~ 109 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVGVDLTNGLEGSVTDELKEKVAETVKS 109 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEEEEcCCCcchhhHHHHHHHHHHHHHh
Confidence 45788999999999999998888788888876543 2 256666666
No 114
>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=42.13 E-value=31 Score=20.70 Aligned_cols=22 Identities=9% Similarity=0.255 Sum_probs=18.8
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.+||+. +++|....+.++|.|.
T Consensus 15 dlpG~~pedi~V~v~~~~L~I~ge 38 (81)
T cd06479 15 DVSDFSPEDIIVTTSNNQIEVHAE 38 (81)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEE
Confidence 578877 4888999999999997
No 115
>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=42.09 E-value=33 Score=18.18 Aligned_cols=19 Identities=11% Similarity=0.247 Sum_probs=16.1
Q ss_pred HHHHHHHHhccCCccEEEE
Q 036889 18 KQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~v 36 (86)
...+.+.|.+++||.+|..
T Consensus 52 ~~~l~~~l~~~~~V~~v~~ 70 (71)
T cd04879 52 PEEVLEELKALPGIIRVRL 70 (71)
T ss_pred CHHHHHHHHcCCCeEEEEE
Confidence 4689999999999998863
No 116
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=42.04 E-value=62 Score=18.25 Aligned_cols=25 Identities=12% Similarity=-0.035 Sum_probs=18.7
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEec
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~ 38 (86)
-.|+.| .+++..|.+. |+.--.+|.
T Consensus 7 ~~Cp~C-~~a~~~L~~~-~i~~~~~di 31 (79)
T TIGR02181 7 PYCPYC-TRAKALLSSK-GVTFTEIRV 31 (79)
T ss_pred CCChhH-HHHHHHHHHc-CCCcEEEEe
Confidence 589999 7888888875 776555554
No 117
>PF02107 FlgH: Flagellar L-ring protein; InterPro: IPR000527 The flgH, flgI and fliF genes of Salmonella typhimurium encode the major proteins for the L, P and M rings of the flagellar basal body []. In fact, the basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament []. The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. FlgH and FlgI, which are exported across the cell membrane to their destinations in the outer membrane and periplasmic space, have typical N-terminal cleaved signal-peptide sequences. FlgH is predicted to have an extensive beta-sheet structure, in keeping with other outer membrane proteins [].; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0009427 bacterial-type flagellum basal body, distal rod, L ring
Probab=41.86 E-value=17 Score=25.05 Aligned_cols=29 Identities=24% Similarity=0.211 Sum_probs=25.5
Q ss_pred ccCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 27 DIYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 27 ~l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
-+.|=..+.++-+.+.+++.|-+.|++|-
T Consensus 110 ~I~G~k~i~vn~e~~~i~lsGiVRp~DI~ 138 (179)
T PF02107_consen 110 VIEGEKQIRVNGEEQYIRLSGIVRPEDID 138 (179)
T ss_pred EEEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 46688889999999999999999998885
No 118
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=41.40 E-value=49 Score=20.74 Aligned_cols=30 Identities=13% Similarity=0.091 Sum_probs=27.0
Q ss_pred EEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 34 ITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 34 v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
+++|.+.+.++|..-+.-.+|.+.|...|+
T Consensus 57 ~~id~~~~~v~v~aG~~~~~l~~~l~~~g~ 86 (139)
T PF01565_consen 57 IEIDPENGTVTVGAGVTWGDLYEALAPRGL 86 (139)
T ss_dssp EEEETTTTEEEEETTSBHHHHHHHHHHHTE
T ss_pred ccccccceeEEEeccccchhcccccccccc
Confidence 678889999999999999999999988775
No 119
>cd06472 ACD_ScHsp26_like Alpha crystallin domain (ACD) found in Saccharomyces cerevisiae (Sc) small heat shock protein (Hsp)26 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. ScHsp26 is temperature-regulated, it switches from an inactive to a chaperone-active form upon elevation in temperature. It associates into large 24-mers storage forms which upon heat shock disassociate into dimers. These dimers initiate the interaction with non-native substrate proteins and re-assemble into large globular assemblies having one monomer of substrate bound per dimer. This group also contains Arabidopsis thaliana (Ath) Hsp15.7, a peroxisomal matrix protein which can complement the morphological phenotype of S. cerevisiae mutants deficient in Hsps26. AthHsp15.7 is minimally expressed under normal conditions and is strongly induced by heat and oxidative st
Probab=40.91 E-value=36 Score=20.29 Aligned_cols=23 Identities=26% Similarity=0.560 Sum_probs=17.9
Q ss_pred ccCCcc--EEEEecCC-CEEEEEEeC
Q 036889 27 DIYGVD--SITADLKE-QKLIIIGDM 49 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~-~~vtV~g~v 49 (86)
.+|||. +++++..+ +.++|.|.-
T Consensus 16 ~lPGv~~edi~i~v~~~~~L~I~g~~ 41 (92)
T cd06472 16 DVPGVKKEDVKVEVEDGRVLRISGER 41 (92)
T ss_pred ECCCCChHhEEEEEeCCCEEEEEEEe
Confidence 578987 48888776 489999973
No 120
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=40.86 E-value=44 Score=21.20 Aligned_cols=33 Identities=18% Similarity=0.323 Sum_probs=21.2
Q ss_pred CEEEEEEeCCHHHHHHHHHhhCCeEEEEcCCCCC
Q 036889 41 QKLIIIGDMDAVAIAKKLKKIGKIEIVSVGPAKA 74 (86)
Q Consensus 41 ~~vtV~g~vd~~~l~~~l~k~G~a~ivsv~~~~~ 74 (86)
..+.|.|-+++++|. .|...||..|+-.-|..+
T Consensus 7 ~~~~vs~Q~~~~d~~-~la~~GfktVInlRpd~E 39 (110)
T PF04273_consen 7 DDLSVSGQPSPEDLA-QLAAQGFKTVINLRPDGE 39 (110)
T ss_dssp TTEEEECS--HHHHH-HHHHCT--EEEE-S-TTS
T ss_pred CCeEECCCCCHHHHH-HHHHCCCcEEEECCCCCC
Confidence 467888889999984 788899988888776543
No 121
>TIGR02200 GlrX_actino Glutaredoxin-like protein. This family of glutaredoxin-like proteins is limited to the Actinobacteria and contains the conserved CxxC motif.
Probab=40.68 E-value=63 Score=17.65 Aligned_cols=25 Identities=8% Similarity=0.009 Sum_probs=17.7
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEec
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~ 38 (86)
-.|+.| .+++..|..+ |+.--.+|.
T Consensus 8 ~~C~~C-~~~~~~L~~~-~~~~~~idi 32 (77)
T TIGR02200 8 TWCGYC-AQLMRTLDKL-GAAYEWVDI 32 (77)
T ss_pred CCChhH-HHHHHHHHHc-CCceEEEeC
Confidence 589999 6688888776 665444443
No 122
>PRK08343 secD preprotein translocase subunit SecD; Reviewed
Probab=40.29 E-value=79 Score=24.72 Aligned_cols=51 Identities=18% Similarity=0.195 Sum_probs=36.6
Q ss_pred HHHHHHHHhccCCccEEEEecC-CCEEEEE--EeCCHHHHHHHHHhhCCeEEEEcC
Q 036889 18 KQKAIEAAADIYGVDSITADLK-EQKLIII--GDMDAVAIAKKLKKIGKIEIVSVG 70 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~-~~~vtV~--g~vd~~~l~~~l~k~G~a~ivsv~ 70 (86)
...++++|..+ |+....+... ++++.|+ | .|++++.+.|.+.|.-++..+.
T Consensus 69 ~~vi~~Ri~~~-G~~e~~v~~~g~~~I~Ve~Pg-~d~~~~~~~i~~~~~l~f~~~~ 122 (417)
T PRK08343 69 VEILESRLNAL-GLKDIKVYPVGDQYIVVEVPG-VDADTAKEIIEKQGVFEARIQT 122 (417)
T ss_pred HHHHHHHHhhc-CCCCCEEEEEcCceEEEEcCC-CCHHHHHHHhcCceEEEEEEec
Confidence 35566777664 8988776544 4688887 6 9999999999998864444443
No 123
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=40.23 E-value=81 Score=23.66 Aligned_cols=58 Identities=17% Similarity=0.188 Sum_probs=36.8
Q ss_pred CceEEEEEEeecccHhHH---HHHHHHHhccCCccEEE--EecCCCEEEEEEeCCHHHHHHHHH
Q 036889 1 MARMVVLKMMTMNDEKTK---QKAIEAAADIYGVDSIT--ADLKEQKLIIIGDMDAVAIAKKLK 59 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~---~kI~kal~~l~GV~~v~--vd~~~~~vtV~g~vd~~~l~~~l~ 59 (86)
||+ ++--|++.+=+.=. .+|..+..++++|.-++ .|.+.++-.++.-=||+.+++|.-
T Consensus 1 m~k-ivecvpNfSEG~~~~~ie~i~a~~~~~~~v~ildve~danhNRsViT~vgdp~~~~~A~f 63 (302)
T COG3643 1 MMK-IVECVPNFSEGRDLEKIEKIVAAAKSIPTVKILDVEMDANHNRSVITLVGDPSKVVNAAF 63 (302)
T ss_pred Ccc-ceeeccCccccccHHHHHHHHHHHhcCCceEEEEeccCCCCCceEEEEecChHHHHHHHH
Confidence 444 44455556544443 45666677888887554 455667766666668888887764
No 124
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=40.22 E-value=53 Score=22.93 Aligned_cols=48 Identities=13% Similarity=0.117 Sum_probs=36.0
Q ss_pred cHhHHHHHHHHHhc-cCCccEEEEecCC-----CEEEEEEeCCHHHHHHHHHhhC
Q 036889 14 DEKTKQKAIEAAAD-IYGVDSITADLKE-----QKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 14 C~~C~~kI~kal~~-l~GV~~v~vd~~~-----~~vtV~g~vd~~~l~~~l~k~G 62 (86)
.+..-.+|++.|.+ +||+...-++... +.+=|+ .++|+.|.++|....
T Consensus 56 pD~~GekIRk~i~~~vp~~khafi~~~~a~~~~~~iGVE-~As~e~I~~AL~~~~ 109 (174)
T TIGR00334 56 PDFPGEKIRKKIEQHLPGYENCFIPKHLAKPNKKKIGVE-EASVEAIIAALENVH 109 (174)
T ss_pred CCCchHHHHHHHHHHCCCCeEEeeeHHhcCcCCCCcccC-CCCHHHHHHHHHHhc
Confidence 46667889999987 9999988887543 232222 389999999999866
No 125
>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=40.06 E-value=33 Score=21.12 Aligned_cols=22 Identities=23% Similarity=0.284 Sum_probs=19.0
Q ss_pred hHHHHHHHHHhccCCccEEEEe
Q 036889 16 KTKQKAIEAAADIYGVDSITAD 37 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd 37 (86)
+-...+..++++++||.|+++.
T Consensus 62 ~~td~lee~i~~~d~VqsveI~ 83 (88)
T cd00292 62 GGTDELEEAISEEDGVQSVDVE 83 (88)
T ss_pred cCcHHHHHHHhccCCceEEEEE
Confidence 4458999999999999999875
No 126
>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 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. HspB4 does not belong to this group. HspB5 shows increased synthesis in response to stress. HspB5 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. Its functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its oligomerization and anti-apoptotic activ
Probab=39.91 E-value=36 Score=20.40 Aligned_cols=22 Identities=14% Similarity=0.216 Sum_probs=18.5
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.++|+. +++|+...+.++|.|.
T Consensus 14 dlpG~~~edi~V~v~~~~L~I~g~ 37 (84)
T cd06498 14 DVKHFSPEELKVKVLGDFIEIHGK 37 (84)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEE
Confidence 578876 5888888999999996
No 127
>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=39.56 E-value=46 Score=18.38 Aligned_cols=29 Identities=17% Similarity=0.084 Sum_probs=21.4
Q ss_pred HHHHHHHHhccCCccEEEEecCC-CEEEEE
Q 036889 18 KQKAIEAAADIYGVDSITADLKE-QKLIII 46 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~-~~vtV~ 46 (86)
...+++.|.+++.|.++.+...- +++.|.
T Consensus 36 ~~~~~~~l~~~p~V~~v~V~r~~P~~l~I~ 65 (69)
T PF08478_consen 36 LKKIEQRLEKLPWVKSVSVSRRFPNTLEIK 65 (69)
T ss_dssp HHHHHHCCCCTTTEEEEEEEEETTTEEEEE
T ss_pred HHHHHHHHHcCCCEEEEEEEEeCCCEEEEE
Confidence 36788889999999999886432 566553
No 128
>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=39.21 E-value=64 Score=17.45 Aligned_cols=16 Identities=25% Similarity=0.158 Sum_probs=11.6
Q ss_pred cccHhHHHHHHHHHhcc
Q 036889 12 MNDEKTKQKAIEAAADI 28 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l 28 (86)
-.|+.| ..++..|+.+
T Consensus 9 ~~C~~C-~~~~~~l~~l 24 (67)
T cd02973 9 PTCPYC-PDAVQAANRI 24 (67)
T ss_pred CCCCCc-HHHHHHHHHH
Confidence 489999 6666677665
No 129
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=39.03 E-value=87 Score=21.24 Aligned_cols=39 Identities=21% Similarity=0.268 Sum_probs=26.7
Q ss_pred HHHHHHhccCCccEEEEecCCCEEEEE-EeCCHHHHHHHHH
Q 036889 20 KAIEAAADIYGVDSITADLKEQKLIII-GDMDAVAIAKKLK 59 (86)
Q Consensus 20 kI~kal~~l~GV~~v~vd~~~~~vtV~-g~vd~~~l~~~l~ 59 (86)
+..+.|...-|+. +++|.+++.|.|. ...||..+.+|..
T Consensus 18 ~~Ik~I~~~tgv~-I~Id~~~g~V~I~~~t~d~~~i~kA~~ 57 (172)
T TIGR03665 18 ETKKEIEERTGVK-LDIDSETGEVKIEEEDEDPLAVMKARE 57 (172)
T ss_pred hHHHHHHHHhCcE-EEEEcCCceEEEecCCCCHHHHHHHHH
Confidence 3455566666776 8999888999994 3367766666643
No 130
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=39.01 E-value=73 Score=27.50 Aligned_cols=43 Identities=7% Similarity=0.097 Sum_probs=33.8
Q ss_pred HHHHHHHHhccCCccEEEEecCC-CEEEEEE--------eCCHHHHHHHHHh
Q 036889 18 KQKAIEAAADIYGVDSITADLKE-QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~-~~vtV~g--------~vd~~~l~~~l~k 60 (86)
...++..|.+++||.+|.+.... .++.|.- .+++.++.++|+.
T Consensus 159 ~~~l~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~ 210 (1025)
T PRK10614 159 STQLAQTISQIDGVGDVDVGGSSLPAVRVGLNPQALFNQGVSLDDVRQAISN 210 (1025)
T ss_pred HHHHHHHhcCCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHH
Confidence 35799999999999999987643 4567763 3788888899985
No 131
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=38.66 E-value=56 Score=22.34 Aligned_cols=34 Identities=21% Similarity=0.461 Sum_probs=26.8
Q ss_pred cCCCEEEEEEeCCHHHHHHHHHhhCC-eEEEEcCC
Q 036889 38 LKEQKLIIIGDMDAVAIAKKLKKIGK-IEIVSVGP 71 (86)
Q Consensus 38 ~~~~~vtV~g~vd~~~l~~~l~k~G~-a~ivsv~~ 71 (86)
.-..-|.++|+.|-.-++++++..|. +.+++.++
T Consensus 110 ~~D~ivl~SgD~DF~p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 110 NVDTIVLFSGDGDFIPLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred CCCEEEEEcCCccHHHHHHHHHHcCCEEEEEecCC
Confidence 33445677899898888999998886 88888876
No 132
>PHA03050 glutaredoxin; Provisional
Probab=38.43 E-value=74 Score=19.93 Aligned_cols=23 Identities=4% Similarity=0.096 Sum_probs=17.3
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCc
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGV 31 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV 31 (86)
++|.- -+|+.| .++++.|.++ ||
T Consensus 16 ~vys~--~~CPyC-~~ak~~L~~~-~i 38 (108)
T PHA03050 16 TIFVK--FTCPFC-RNALDILNKF-SF 38 (108)
T ss_pred EEEEC--CCChHH-HHHHHHHHHc-CC
Confidence 34444 489999 8899999886 55
No 133
>PRK10509 bacterioferritin-associated ferredoxin; Provisional
Probab=38.34 E-value=17 Score=21.03 Aligned_cols=21 Identities=19% Similarity=0.045 Sum_probs=17.0
Q ss_pred EEEeecccHhHHHHHHHHHhcc
Q 036889 7 LKMMTMNDEKTKQKAIEAAADI 28 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l 28 (86)
+.+ +-.|++|...+++.|...
T Consensus 33 ~~~-g~~CG~C~~~i~~il~~~ 53 (64)
T PRK10509 33 VPV-GNQCGKCIRAAREVMQDE 53 (64)
T ss_pred cCC-CCCccchHHHHHHHHHHH
Confidence 456 678999999999988654
No 134
>PRK09579 multidrug efflux protein; Reviewed
Probab=37.95 E-value=85 Score=27.13 Aligned_cols=43 Identities=7% Similarity=0.048 Sum_probs=33.6
Q ss_pred HHHHHHHHhccCCccEEEEecCC-CEEEEEE--------eCCHHHHHHHHHh
Q 036889 18 KQKAIEAAADIYGVDSITADLKE-QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~-~~vtV~g--------~vd~~~l~~~l~k 60 (86)
.+.++..|.+++||.+|++.... .++.|.- .+++.++.++|+.
T Consensus 158 ~~~i~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~ 209 (1017)
T PRK09579 158 SRVIQPKLATLPGMAEAEILGNQVFAMRLWLDPVKLAGFGLSAGDVTQAVRR 209 (1017)
T ss_pred HHHHHHHhhcCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHH
Confidence 46699999999999999986544 4566652 3788999999985
No 135
>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.
Probab=37.85 E-value=73 Score=19.31 Aligned_cols=40 Identities=18% Similarity=0.181 Sum_probs=30.2
Q ss_pred HHHHHHHhccCCccEEEEecCCCEEEEEE--eCCHHHHHHHHHh
Q 036889 19 QKAIEAAADIYGVDSITADLKEQKLIIIG--DMDAVAIAKKLKK 60 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~vd~~~~~vtV~g--~vd~~~l~~~l~k 60 (86)
.-+-++|-+++||.+|-+.. +-++|+- ++|-+.|...|+.
T Consensus 37 spLA~~Lf~i~gV~~Vf~~~--dfItVtK~~~~~W~~l~~~I~~ 78 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIGD--DFITVTKNPDADWEDLKPEIRE 78 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEET--TEEEEEE-TTS-HHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEEC--CEEEEeeCCCCCHHHHHHHHHH
Confidence 45566777999999998875 5788875 4898888888875
No 136
>cd06526 metazoan_ACD Alpha-crystallin domain (ACD) of metazoan 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=37.65 E-value=36 Score=19.95 Aligned_cols=22 Identities=23% Similarity=0.602 Sum_probs=18.1
Q ss_pred ccCCcc--EEEEecCCCEEEEEEe
Q 036889 27 DIYGVD--SITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~ 48 (86)
.++|+. ++++....+.++|.|.
T Consensus 14 dlpG~~~edI~v~v~~~~L~I~g~ 37 (83)
T cd06526 14 DVKGFKPEELKVKVSDNKLVVEGK 37 (83)
T ss_pred ECCCCCHHHcEEEEECCEEEEEEE
Confidence 578876 4888888899999996
No 137
>PF07837 FTCD_N: Formiminotransferase domain, N-terminal subdomain; InterPro: IPR012886 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. This entry represents the N-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 2PFD_C 1QD1_B.
Probab=37.41 E-value=1.4e+02 Score=20.89 Aligned_cols=43 Identities=19% Similarity=0.183 Sum_probs=28.5
Q ss_pred hHHHHHHHHHhccCCccEE--EEecCCCEEEEEEeCCHHHHHHHH
Q 036889 16 KTKQKAIEAAADIYGVDSI--TADLKEQKLIIIGDMDAVAIAKKL 58 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v--~vd~~~~~vtV~g~vd~~~l~~~l 58 (86)
.=..+|.+++.+.+||.-+ ..|.+.++..++.--+|+.|.+++
T Consensus 16 ~~ie~I~~a~~~~~gv~ll~~~~D~~~NRsv~T~vG~p~~v~~a~ 60 (178)
T PF07837_consen 16 EVIEAIAKAARNVPGVKLLDVFSDADYNRSVITLVGEPEAVAEAA 60 (178)
T ss_dssp HHHHHHHHHCCTSTTEEEEEEEEETTTTEEEEEEEE-HHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCEEEecCCCCCCCCCeEEEeeChHHHHHHH
Confidence 3456788888888998754 457777886666444556666554
No 138
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=37.16 E-value=59 Score=19.31 Aligned_cols=39 Identities=26% Similarity=0.269 Sum_probs=27.7
Q ss_pred ccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh-hCC
Q 036889 13 NDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK-IGK 63 (86)
Q Consensus 13 ~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k-~G~ 63 (86)
.|+.| .++++.|.+. |+.--.+|... | .++.+.|.+ .|+
T Consensus 22 ~Cp~C-~~ak~~L~~~-~i~y~~idv~~---------~-~~~~~~l~~~~g~ 61 (90)
T cd03028 22 RCGFS-RKVVQILNQL-GVDFGTFDILE---------D-EEVRQGLKEYSNW 61 (90)
T ss_pred CCcHH-HHHHHHHHHc-CCCeEEEEcCC---------C-HHHHHHHHHHhCC
Confidence 79999 8889999886 78776677542 3 356777765 564
No 139
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=37.15 E-value=46 Score=17.30 Aligned_cols=21 Identities=24% Similarity=0.335 Sum_probs=14.7
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEE
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLI 44 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vt 44 (86)
|.|+.| |-..+..|...+.++
T Consensus 1 m~Cp~C------------g~~~~~~D~~~g~~v 21 (43)
T PF08271_consen 1 MKCPNC------------GSKEIVFDPERGELV 21 (43)
T ss_dssp ESBTTT------------SSSEEEEETTTTEEE
T ss_pred CCCcCC------------cCCceEEcCCCCeEE
Confidence 677777 555677787777764
No 140
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=36.61 E-value=1.2e+02 Score=19.55 Aligned_cols=36 Identities=19% Similarity=0.294 Sum_probs=28.3
Q ss_pred ccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 27 DIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 27 ~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
+..|+.++++. .+|.+.|.|.=-++.+++.+...|.
T Consensus 39 Rt~GirqfEi~-n~G~~RI~gYk~se~~~~~f~slG~ 74 (103)
T PF09158_consen 39 RTKGIRQFEIR-NKGEFRIFGYKMSEEIIKKFTSLGM 74 (103)
T ss_dssp EETTEEEEEEE-TTSEEEEEEES--HHHHHHHHHTT-
T ss_pred ccCceeEEEEe-cCCcEEEEEEcCCHHHHHHHHhcCc
Confidence 56799999997 4689999999666788899999995
No 141
>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=36.50 E-value=77 Score=17.46 Aligned_cols=49 Identities=16% Similarity=0.080 Sum_probs=34.5
Q ss_pred EEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCCe
Q 036889 7 LKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a 64 (86)
|.+.|+.|+.=.-+++++|.+++. .+.+.|..+ .....|...++..||.
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~ 52 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHE 52 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCE
Confidence 344578899888888888888653 234444443 4577888888999984
No 142
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=36.39 E-value=70 Score=16.93 Aligned_cols=17 Identities=6% Similarity=0.155 Sum_probs=11.0
Q ss_pred HHHHHHHHhccCCccEE
Q 036889 18 KQKAIEAAADIYGVDSI 34 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v 34 (86)
...+...|.+++||.+|
T Consensus 55 ~~~l~~~l~~~~~v~~v 71 (72)
T cd04878 55 IEQIVKQLNKLVDVLKV 71 (72)
T ss_pred HHHHHHHHhCCccEEEe
Confidence 45666666677776665
No 143
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=36.38 E-value=69 Score=20.29 Aligned_cols=29 Identities=28% Similarity=0.618 Sum_probs=22.1
Q ss_pred EEEEEEeCCHHHHHHHHHhhCC-eEEEEcC
Q 036889 42 KLIIIGDMDAVAIAKKLKKIGK-IEIVSVG 70 (86)
Q Consensus 42 ~vtV~g~vd~~~l~~~l~k~G~-a~ivsv~ 70 (86)
-+.|+|+-|-.-+++.|+..|+ ..++++.
T Consensus 103 ivLvSgD~Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 103 IVLVSGDSDFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred EEEEECCccHHHHHHHHHHcCCEEEEEccC
Confidence 4566788999999999999997 5555443
No 144
>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=35.89 E-value=38 Score=18.19 Aligned_cols=22 Identities=32% Similarity=0.635 Sum_probs=17.3
Q ss_pred ccCCc--cEEEEecCCCEEEEEEe
Q 036889 27 DIYGV--DSITADLKEQKLIIIGD 48 (86)
Q Consensus 27 ~l~GV--~~v~vd~~~~~vtV~g~ 48 (86)
.++|+ +.+.++...+.++|.|.
T Consensus 13 ~~~~~~~~~i~v~~~~~~l~v~~~ 36 (80)
T cd00298 13 DLPGVKKEDIKVEVEDNVLTISGK 36 (80)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEE
Confidence 35666 67888888899999986
No 145
>PRK01655 spxA transcriptional regulator Spx; Reviewed
Probab=35.09 E-value=1.1e+02 Score=19.79 Aligned_cols=48 Identities=13% Similarity=0.052 Sum_probs=32.0
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhh
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKI 61 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~ 61 (86)
++|-. .-.|+.| +++++.|.+. ||.--.+|...+. .+.+.|..-+..+
T Consensus 2 i~iY~-~~~C~~C-~ka~~~L~~~-gi~~~~idi~~~~------~~~~eL~~~l~~~ 49 (131)
T PRK01655 2 VTLFT-SPSCTSC-RKAKAWLEEH-DIPFTERNIFSSP------LTIDEIKQILRMT 49 (131)
T ss_pred EEEEe-CCCChHH-HHHHHHHHHc-CCCcEEeeccCCh------hhHHHHHHHHHHh
Confidence 33444 3599999 7788888774 8887677765432 4556676666666
No 146
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=34.66 E-value=1.2e+02 Score=20.53 Aligned_cols=47 Identities=11% Similarity=-0.098 Sum_probs=30.3
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecCCCE--------------EEEEEe---CCHHHHHHHHHh
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLKEQK--------------LIIIGD---MDAVAIAKKLKK 60 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~--------------vtV~g~---vd~~~l~~~l~k 60 (86)
++-|==| ++..+.+++||.++.+-...+. |.|..+ ++-++|++..-.
T Consensus 7 agGCFWg---~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f~~ 70 (156)
T PRK05528 7 AGGCLWG---VQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYLFE 70 (156)
T ss_pred ecCCchh---hHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHHHH
Confidence 3445555 5556677799999988544432 556665 677777776643
No 147
>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []. Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....
Probab=34.51 E-value=49 Score=21.65 Aligned_cols=29 Identities=34% Similarity=0.410 Sum_probs=23.8
Q ss_pred CccEEEEecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 30 GVDSITADLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 30 GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
|.. .++|.+ +++.+.|.+++.+|.+.|++
T Consensus 60 gt~-~~id~~-~~lii~G~~~~~~i~~~L~~ 88 (125)
T PF01873_consen 60 GTQ-GSIDGK-GRLIINGRFSSKQIQDLLDK 88 (125)
T ss_dssp SSE-EEEETT-TEEEEESSSSCCHHHHHHHH
T ss_pred CCc-eEECCC-CEEEEEEecCHHHHHHHHHH
Confidence 443 477776 99999999999999888876
No 148
>PHA03075 glutaredoxin-like protein; Provisional
Probab=34.45 E-value=1.4e+02 Score=19.79 Aligned_cols=64 Identities=11% Similarity=0.159 Sum_probs=43.3
Q ss_pred EEEeecccHhHHHHHHHHHhccCC------ccEEEEecCCCEEEEEEeCCHHHHHHHHH-hhC--CeEEEEcCC
Q 036889 7 LKMMTMNDEKTKQKAIEAAADIYG------VDSITADLKEQKLIIIGDMDAVAIAKKLK-KIG--KIEIVSVGP 71 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l~G------V~~v~vd~~~~~vtV~g~vd~~~l~~~l~-k~G--~a~ivsv~~ 71 (86)
+-..---|+-| ..+..+|..|++ |...+.-.+++.+.+-|.--.-.++..+- ..| |+-+.-..|
T Consensus 6 ILfGKP~C~vC-e~~s~~l~~ledeY~ilrVNIlSfFsK~g~v~~lg~d~~y~lInn~~~~lgne~v~lfKydp 78 (123)
T PHA03075 6 ILFGKPLCSVC-ESISEALKELEDEYDILRVNILSFFSKDGQVKVLGMDKGYTLINNFFKHLGNEYVSLFKYDP 78 (123)
T ss_pred EEeCCcccHHH-HHHHHHHHHhhccccEEEEEeeeeeccCCceEEEecccceehHHHHHHhhcccEEEEEEEcC
Confidence 33334679999 667777777776 44455566889999999766677777776 466 345554444
No 149
>TIGR01679 bact_FAD_ox FAD-linked oxidoreductase. This model represents a family of bacterial oxidoreductases with covalently linked FAD, closely related to two different eukaryotic oxidases, L-gulonolactone oxidase (EC 1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase (EC 1.1.3.37) from Saccharomyces cerevisiae.
Probab=34.43 E-value=50 Score=25.42 Aligned_cols=34 Identities=12% Similarity=0.088 Sum_probs=28.7
Q ss_pred ccEE-EEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 31 VDSI-TADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 31 V~~v-~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
...| ++|.++++|+|.+-+.-.+|.+.|.+.|++
T Consensus 60 l~~i~~~d~~~~~v~v~aG~~l~~l~~~L~~~G~~ 94 (419)
T TIGR01679 60 LQGVVDVDQPTGLATVEAGTRLGALGPQLAQRGLG 94 (419)
T ss_pred cCCceeecCCCCEEEEcCCCCHHHHHHHHHHcCCc
Confidence 3443 688889999999999999999999999863
No 150
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=34.33 E-value=98 Score=21.07 Aligned_cols=32 Identities=22% Similarity=0.385 Sum_probs=16.5
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
++|...+.+.++.. .. +-|.+.|+.+|++.-+
T Consensus 109 l~g~Anvtlsi~~s--sm--~~~V~~ii~kl~k~e~ 140 (150)
T COG4492 109 LQGRANVTLSIDTS--SM--EKDVDKIIEKLRKVEG 140 (150)
T ss_pred cCceeeEEEEEEch--hh--hhhHHHHHHHHhcccc
Confidence 34666655554433 11 2455666777776543
No 151
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=34.30 E-value=70 Score=27.60 Aligned_cols=44 Identities=16% Similarity=0.219 Sum_probs=35.3
Q ss_pred HHHHHHHHHhccCCccEEEEecCCC--EEEEEE--------eCCHHHHHHHHHh
Q 036889 17 TKQKAIEAAADIYGVDSITADLKEQ--KLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~~--~vtV~g--------~vd~~~l~~~l~k 60 (86)
=...++..|.+++|+.+|..|...+ ++.|.- .+++.++.++|+-
T Consensus 676 ~a~~i~~~L~~~pgv~~v~~~~~~~~~el~i~id~~ka~~~Gls~~~v~~~l~~ 729 (1025)
T PRK10614 676 WEPKIRKALAALPELADVNSDQQDKGAEMALTYDRDTMARLGIDVQAANSLLNN 729 (1025)
T ss_pred HHHHHHHHHhcCCCeEEeecCCCCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 3678999999999999999876654 666653 2888899999985
No 152
>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=33.74 E-value=1.5e+02 Score=20.07 Aligned_cols=53 Identities=17% Similarity=0.300 Sum_probs=34.2
Q ss_pred HHHHHHHhccCCccEEEEecCCCEEEEEEe-----C-CHHHHHHHH-HhhCC-eEEEEcCC
Q 036889 19 QKAIEAAADIYGVDSITADLKEQKLIIIGD-----M-DAVAIAKKL-KKIGK-IEIVSVGP 71 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~vd~~~~~vtV~g~-----v-d~~~l~~~l-~k~G~-a~ivsv~~ 71 (86)
..|++.+-.=.|++++.+|.+.|.|.+.-. + -....++.| .++|+ ..++.-.|
T Consensus 56 ~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 56 KIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred HHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 344444444459999999999999999843 1 223333444 58997 56655444
No 153
>smart00749 BON bacterial OsmY and nodulation domain.
Probab=33.60 E-value=76 Score=16.48 Aligned_cols=41 Identities=17% Similarity=0.105 Sum_probs=27.5
Q ss_pred HHHHHHHhccCCccE--EEEecCCCEEEEEEeCCHHH-HHHHHH
Q 036889 19 QKAIEAAADIYGVDS--ITADLKEQKLIIIGDMDAVA-IAKKLK 59 (86)
Q Consensus 19 ~kI~kal~~l~GV~~--v~vd~~~~~vtV~g~vd~~~-l~~~l~ 59 (86)
.+|+.+|...+.+.. +.+.-..+.+++.|...+.. ...+..
T Consensus 2 ~~v~~~l~~~~~~~~~~~~v~~~~~~vvL~g~~~~~~~~~~~~~ 45 (62)
T smart00749 2 EKVKKALAKDGLIKADSIVVVTDGGVVVLLGGVVDNAEAAAAAA 45 (62)
T ss_pred hhHHHHHhhCCCCCcCceEEEEECCEEEEeeecCCHHHHHHHHH
Confidence 467888887777664 66777778899888754444 443333
No 154
>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=33.56 E-value=54 Score=20.15 Aligned_cols=23 Identities=26% Similarity=0.234 Sum_probs=19.8
Q ss_pred HhHHHHHHHHH-hccCCccEEEEe
Q 036889 15 EKTKQKAIEAA-ADIYGVDSITAD 37 (86)
Q Consensus 15 ~~C~~kI~kal-~~l~GV~~v~vd 37 (86)
.+-...+..++ +.++||.|+++.
T Consensus 61 ~~~~d~lee~i~~~~e~Vqsvei~ 84 (89)
T PF00736_consen 61 EGSTDDLEEAIESFEEGVQSVEIE 84 (89)
T ss_dssp TCGHHHHHHHHTTCTTTEEEEEEE
T ss_pred ccChHHHHHHHHhcCCCccEEEEE
Confidence 45678999999 999999999875
No 155
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=33.54 E-value=81 Score=20.88 Aligned_cols=21 Identities=14% Similarity=0.438 Sum_probs=19.5
Q ss_pred CCEEEEEEeCCHHHHHHHHHh
Q 036889 40 EQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 40 ~~~vtV~g~vd~~~l~~~l~k 60 (86)
++++++.|.+++..|-+.|++
T Consensus 72 ~~rlii~G~~~~~~i~~~L~~ 92 (133)
T TIGR00311 72 GGRLILQGKFTHFLLNERIED 92 (133)
T ss_pred CCEEEEEeecCHHHHHHHHHH
Confidence 689999999999999999987
No 156
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=33.21 E-value=1.4e+02 Score=20.84 Aligned_cols=62 Identities=8% Similarity=0.129 Sum_probs=43.2
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCC-ccEEEEecCCCE----EEEEEe-CCHHHHHHHHHhhC
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYG-VDSITADLKEQK----LIIIGD-MDAVAIAKKLKKIG 62 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~G-V~~v~vd~~~~~----vtV~g~-vd~~~l~~~l~k~G 62 (86)
|++..++.+-|-..+|-...|.++|....+ +.......-.+. +.|.|. .....|..+|...+
T Consensus 5 m~~~lviTviG~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~Fa~i~lvs~~~~~~~~le~~L~~l~ 72 (190)
T PRK11589 5 SQHYLVITALGADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEFTFIMLLSGSWNAITLIESTLPLKG 72 (190)
T ss_pred cccEEEEEEEcCCCChHHHHHHHHHHHcCCCeeehhhHhhCCceEEEEEEeCChhHHHHHHHHHHhhh
Confidence 678899999999999999999999999754 444444333333 344554 45566777776544
No 157
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=33.15 E-value=79 Score=16.58 Aligned_cols=25 Identities=12% Similarity=0.163 Sum_probs=18.4
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEec
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~ 38 (86)
-.|+.| .+++..|.+. |+.-..+|.
T Consensus 8 ~~Cp~C-~~~~~~L~~~-~i~~~~~di 32 (72)
T cd02066 8 STCPYC-KRAKRLLESL-GIEFEEIDI 32 (72)
T ss_pred CCCHHH-HHHHHHHHHc-CCcEEEEEC
Confidence 479999 8889999887 465545554
No 158
>KOG4034 consensus Uncharacterized conserved protein NOF (Neighbor of FAU) [Function unknown]
Probab=33.02 E-value=1.1e+02 Score=21.35 Aligned_cols=57 Identities=11% Similarity=0.088 Sum_probs=41.4
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCcc-EEEEecCCCEEEEEEe-CCHHHHHHHHHhhCC
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVD-SITADLKEQKLIIIGD-MDAVAIAKKLKKIGK 63 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~-~v~vd~~~~~vtV~g~-vd~~~l~~~l~k~G~ 63 (86)
|++=+|+| .=-.|.+.++..|.-++|=. .-.||.-+|++.+.|+ +| .|.+-|.+-||
T Consensus 111 T~IRkVeG-Di~aLe~DL~s~L~~~~~~s~~t~VnelsgqI~~~g~~v~--~vr~~L~eKGF 169 (169)
T KOG4034|consen 111 TVIRKVEG-DIWALENDLRSTLEMSPKKSYATHVNELSGQIVLKGNHVD--TVREWLQEKGF 169 (169)
T ss_pred EEEEeecc-cHHHHHHHHHHHHhhccCCChhhhhhhhcceEEEeCChHH--HHHHHHHHccC
Confidence 34456643 45679999999999888732 3458888999998887 65 77777777664
No 159
>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=32.89 E-value=56 Score=17.70 Aligned_cols=18 Identities=22% Similarity=0.254 Sum_probs=14.6
Q ss_pred HHHHHHHhccCCccEEEE
Q 036889 19 QKAIEAAADIYGVDSITA 36 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~v 36 (86)
..+.+.|.+++||.+|.+
T Consensus 51 ~~li~~l~~~~~V~~v~~ 68 (69)
T cd04901 51 EELLEALRAIPGTIRVRL 68 (69)
T ss_pred HHHHHHHHcCCCeEEEEE
Confidence 477788889999998864
No 160
>PF07338 DUF1471: Protein of unknown function (DUF1471); InterPro: IPR010854 This entry consists of several hypothetical Enterobacterial proteins of around 90 residues in length. Some of the proteins are annotated as ydgH precursors and contain two copies of this region, one at the N terminus and the other at the C terminus. The function of this family is unknown.; PDB: 2NOC_A 2JNA_B 4EVU_B.
Probab=32.80 E-value=80 Score=17.63 Aligned_cols=30 Identities=20% Similarity=0.223 Sum_probs=22.2
Q ss_pred CEEEEEEe-CCHHHHHHHHH-h---hC--CeEEEEcC
Q 036889 41 QKLIIIGD-MDAVAIAKKLK-K---IG--KIEIVSVG 70 (86)
Q Consensus 41 ~~vtV~g~-vd~~~l~~~l~-k---~G--~a~ivsv~ 70 (86)
+.++|+|. -++.++.++|. | .| |-.|++..
T Consensus 6 G~Isvs~~~~s~~d~~~~la~kAd~~GA~~y~I~~~~ 42 (56)
T PF07338_consen 6 GTISVSGNFGSPDDAEEALAKKADEKGAKYYRITSAS 42 (56)
T ss_dssp EEEEEEEECSSHHHHHHHHHHHHHHTT-SEEEEEEEE
T ss_pred EEEEEccccCCHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 57899998 89999999996 3 36 34566553
No 161
>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=32.47 E-value=1e+02 Score=17.53 Aligned_cols=49 Identities=10% Similarity=-0.033 Sum_probs=35.6
Q ss_pred EEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCCe
Q 036889 7 LKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a 64 (86)
|.+.|+.|+.=.-+.+++|.+++.= +.+.|..+ ....+|....+..||.
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~G---------~~l~V~~d~~~a~~di~~~~~~~G~~ 52 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQDG---------EQLEVKASDPGFARDAQAWCKSTGNT 52 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCCC---------CEEEEEECCccHHHHHHHHHHHcCCE
Confidence 4456889999999999999998622 33444443 5667888888889984
No 162
>TIGR01677 pln_FAD_oxido plant-specific FAD-dependent oxidoreductase. This model represents an uncharacterized plant-specific family of FAD-dependent oxidoreductases. At least seven distinct members are found in Arabidopsis thaliana. The family shows considerable sequence similarity to three different enzymes of ascorbic acid biosynthesis: L-galactono-1,4-lactone dehydrogenase (EC 1.3.2.3) from higher plants, D-arabinono-1,4-lactone oxidase (EC 1.1.3.37 from Saccharomyces cerevisiae, and L-gulonolactone oxidase (EC 1.1.3.8) from mouse, as well as to a bacterial sorbitol oxidase. The class of compound acted on by members of this family is unknown.
Probab=32.38 E-value=82 Score=25.57 Aligned_cols=40 Identities=10% Similarity=0.139 Sum_probs=32.2
Q ss_pred HhccCCccE-EEEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 25 AADIYGVDS-ITADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 25 l~~l~GV~~-v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
+-.+.+... +++|.++++|+|.+-+--.+|...|.+.|++
T Consensus 82 vIdL~~Ln~il~iD~~~~tVtV~AG~~l~~L~~~L~~~Gla 122 (557)
T TIGR01677 82 LISTKRLNHVVAVDATAMTVTVESGMSLRELIVEAEKAGLA 122 (557)
T ss_pred EEEcccCCCCEEEeCCCCEEEECCCCcHHHHHHHHHHcCCE
Confidence 344444555 5788888999999999999999999999975
No 163
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=32.24 E-value=1.1e+02 Score=18.05 Aligned_cols=54 Identities=11% Similarity=0.084 Sum_probs=38.4
Q ss_pred ceEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhCCe
Q 036889 2 ARMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIGKI 64 (86)
Q Consensus 2 ~~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G~a 64 (86)
....+|.+.|+.|+.=.-.++++|.+++.= +.+.|..+ ....+|....+..|+.
T Consensus 7 ~~~~~lD~~Gl~CP~Pll~~kk~l~~l~~G---------~~l~V~~dd~~~~~di~~~~~~~G~~ 62 (81)
T PRK00299 7 SPDHTLDALGLRCPEPVMMVRKTVRNMQPG---------ETLLIIADDPATTRDIPSFCRFMDHE 62 (81)
T ss_pred CcCeEEecCCCCCCHHHHHHHHHHHcCCCC---------CEEEEEeCCccHHHHHHHHHHHcCCE
Confidence 345678888999999999999999998622 23333332 5566777777788973
No 164
>PLN02465 L-galactono-1,4-lactone dehydrogenase
Probab=32.19 E-value=81 Score=25.82 Aligned_cols=37 Identities=11% Similarity=0.246 Sum_probs=30.2
Q ss_pred cCCccEE-EEecCCCEEEEEEeCCHHHHHHHHHhhCCe
Q 036889 28 IYGVDSI-TADLKEQKLIIIGDMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 28 l~GV~~v-~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a 64 (86)
+.+...| ++|.++++|+|.+-+.-.+|...|.+.|++
T Consensus 145 L~~l~~Il~vD~e~~~VtV~AG~~l~~L~~~L~~~GLa 182 (573)
T PLN02465 145 LALMDKVLEVDKEKKRVTVQAGARVQQVVEALRPHGLT 182 (573)
T ss_pred CcCCCCcEEEeCCCCEEEEccCCCHHHHHHHHHHcCCE
Confidence 3334443 788888999999999999999999999975
No 165
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=32.19 E-value=87 Score=23.41 Aligned_cols=45 Identities=22% Similarity=0.248 Sum_probs=32.8
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh-hCC
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK-IGK 63 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k-~G~ 63 (86)
+.|+. +.+ +.|...+...+..++||.++.+- +.++-.+.|++ .|+
T Consensus 63 vyL~~-~~~-~~~~~~v~~~i~~~~gV~~v~~~------------sre~~l~~L~~~lg~ 108 (297)
T COG2177 63 VYLQI-DAD-QDDAALVREKIEGIPGVKSVRFI------------SREEALKELQPWLGF 108 (297)
T ss_pred EEEec-CCC-hHHHHHHHHHHhcCCCcceEEEe------------CHHHHHHHHHHHcCc
Confidence 44555 344 89999999999999999998874 44565666653 463
No 166
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=32.15 E-value=88 Score=19.53 Aligned_cols=46 Identities=9% Similarity=-0.018 Sum_probs=25.5
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHHhhCC
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLKKIGK 63 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~k~G~ 63 (86)
+..++=.|+.-++|..|-++.-.....|..+ +..+.|+++|++.+.
T Consensus 13 A~~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kp 61 (88)
T PF11491_consen 13 AMVKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKP 61 (88)
T ss_dssp THHHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HHHTTT
T ss_pred HHHHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHHhcCh
Confidence 4566777899999999999997766666654 899999999998764
No 167
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=32.15 E-value=83 Score=20.97 Aligned_cols=22 Identities=23% Similarity=0.496 Sum_probs=20.2
Q ss_pred CCCEEEEEEeCCHHHHHHHHHh
Q 036889 39 KEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 39 ~~~~vtV~g~vd~~~l~~~l~k 60 (86)
+++++++.|.+++.+|.+.|++
T Consensus 76 ~~~~lii~G~~~~~~i~~~L~~ 97 (138)
T PRK03988 76 EGGRLILQGKFSPRVINEKIDR 97 (138)
T ss_pred cCCEEEEEEeeCHHHHHHHHHH
Confidence 4699999999999999999987
No 168
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=32.08 E-value=1.4e+02 Score=21.16 Aligned_cols=35 Identities=23% Similarity=0.410 Sum_probs=25.3
Q ss_pred EEEecCCCEEEEEE--------eCCHHHHHHHHHhhCCeEEEEc
Q 036889 34 ITADLKEQKLIIIG--------DMDAVAIAKKLKKIGKIEIVSV 69 (86)
Q Consensus 34 v~vd~~~~~vtV~g--------~vd~~~l~~~l~k~G~a~ivsv 69 (86)
..+|+.++++ |.| ..||.++++++...|...++-+
T Consensus 8 p~iD~~~G~~-V~~~~~~~~~~~~dp~~~a~~~~~~G~~~l~v~ 50 (254)
T TIGR00735 8 PCLDVRDGRV-VKGVQFLNLRDAGDPVELAQRYDEEGADELVFL 50 (254)
T ss_pred EEEEeECCEE-EEeEeecCceECCCHHHHHHHHHHcCCCEEEEE
Confidence 3567777777 654 2599999999998886544444
No 169
>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=32.01 E-value=60 Score=17.21 Aligned_cols=19 Identities=16% Similarity=0.295 Sum_probs=15.2
Q ss_pred HHHHHHHHhccCCccEEEE
Q 036889 18 KQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~v 36 (86)
...+.+.|.+++||.+|..
T Consensus 52 ~~~~i~~l~~~~~v~~v~~ 70 (71)
T cd04903 52 DEEVIEEIKKIPNIHQVIL 70 (71)
T ss_pred CHHHHHHHHcCCCceEEEE
Confidence 4578888999999988763
No 170
>PRK13344 spxA transcriptional regulator Spx; Reviewed
Probab=31.93 E-value=1.5e+02 Score=19.25 Aligned_cols=43 Identities=14% Similarity=0.035 Sum_probs=31.9
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
-.|+.| +++++.|.+ .||.--.+|....- .+.++|..-+.++|
T Consensus 8 ~~C~~c-rkA~~~L~~-~~i~~~~~d~~~~~------~s~~eL~~~l~~~~ 50 (132)
T PRK13344 8 SSCTSC-KKAKTWLNA-HQLSYKEQNLGKEP------LTKEEILAILTKTE 50 (132)
T ss_pred CCCHHH-HHHHHHHHH-cCCCeEEEECCCCC------CCHHHHHHHHHHhC
Confidence 589999 667788877 48887777765432 66778888877765
No 171
>PRK07334 threonine dehydratase; Provisional
Probab=31.83 E-value=2.3e+02 Score=21.56 Aligned_cols=63 Identities=10% Similarity=0.080 Sum_probs=40.8
Q ss_pred EEEEEeecccHhHHHHHHHHHhccC-CccEEEEecC-----CCEEEEEE--eC-CH---HHHHHHHHhhCC-eEEE
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIY-GVDSITADLK-----EQKLIIIG--DM-DA---VAIAKKLKKIGK-IEIV 67 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~-GV~~v~vd~~-----~~~vtV~g--~v-d~---~~l~~~l~k~G~-a~iv 67 (86)
+.|.|....=.+=-.+|...|++.. .|.++..... .+...+.- ++ |. ..|+++|++.|| +.++
T Consensus 327 v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~ 402 (403)
T PRK07334 327 ARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLV 402 (403)
T ss_pred EEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeC
Confidence 5677765666677889999998753 2566665432 45654443 32 44 478888888998 5554
No 172
>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=31.67 E-value=55 Score=22.90 Aligned_cols=20 Identities=20% Similarity=0.232 Sum_probs=16.9
Q ss_pred HHHHHHHHhccCCccEEEEe
Q 036889 18 KQKAIEAAADIYGVDSITAD 37 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd 37 (86)
...+.+.|..++||.++.|.
T Consensus 117 e~eL~~tI~~i~gV~~A~V~ 136 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVH 136 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEE
T ss_pred HHHHHHHHHcCCCeeEEEEE
Confidence 45788999999999998775
No 173
>cd03032 ArsC_Spx Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex formation between RNAP and certain transcriptional activator proteins like ResD and ComA. In response to oxidative stress, Spx can also activate transcription, making it a general regulator that exerts both positive and negative control over transcription initiation. Spx has been shown to exert redox-sensitive transcriptional control over genes like trxA (TRX) and trxB (TRX reductase), genes that function in thiol homeostasis. This redox-sensitive activity is dependent on the presence of a CXXC motif, present in some members of the Spx subfamily, that acts as a thiol/disulfide switch. Spx has also been shown to repress genes in a sulfate-dependent manner independent of the presence of the CXXC motif.
Probab=31.54 E-value=1.3e+02 Score=18.64 Aligned_cols=42 Identities=12% Similarity=0.021 Sum_probs=29.6
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhh
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKI 61 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~ 61 (86)
-.|+.| +++++.|... |+.--.+|..... .+..+|.+.++..
T Consensus 8 ~~C~~c-~ka~~~L~~~-gi~~~~idi~~~~------~~~~el~~~~~~~ 49 (115)
T cd03032 8 PSCSSC-RKAKQWLEEH-QIPFEERNLFKQP------LTKEELKEILSLT 49 (115)
T ss_pred CCCHHH-HHHHHHHHHC-CCceEEEecCCCc------chHHHHHHHHHHh
Confidence 589999 6688888774 8877667765433 4566777777765
No 174
>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=31.47 E-value=88 Score=27.10 Aligned_cols=44 Identities=11% Similarity=0.120 Sum_probs=34.8
Q ss_pred HHHHHHHHHhccCCccEEEEecCC--CEEEEEE--------eCCHHHHHHHHHh
Q 036889 17 TKQKAIEAAADIYGVDSITADLKE--QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~--~~vtV~g--------~vd~~~l~~~l~k 60 (86)
=...++..|.+++|+.+|..+... .++.+.- .+++.+|.++|+-
T Consensus 698 ~a~~l~~~l~~~pg~~~v~~~~~~~~~~~~i~~d~~k~~~~Gls~~~v~~~l~~ 751 (1044)
T TIGR00915 698 ARNQLLGLAAQNPALTRVRPNGLEDEPQFKLNIDDEKAQALGVSIADINTTLST 751 (1044)
T ss_pred HHHHHHHHHhcCCCeEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 456789999999999999887654 4666663 2788999999985
No 175
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=31.37 E-value=1.2e+02 Score=23.76 Aligned_cols=48 Identities=15% Similarity=0.172 Sum_probs=32.0
Q ss_pred HHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCCe-EEEEcCCCC
Q 036889 19 QKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGKI-EIVSVGPAK 73 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a-~ivsv~~~~ 73 (86)
-.+-++|+.++||.-|++.... ..=..+++++|.++|-. -=+|+....
T Consensus 178 ~~lVqalk~~~~v~vVSmQTng-------~~L~~~lv~eLeeAGLdRiNlSv~aLD 226 (414)
T COG2100 178 VDLVQALKEHKGVEVVSMQTNG-------VLLSKKLVDELEEAGLDRINLSVDALD 226 (414)
T ss_pred HHHHHHHhcCCCceEEEEeeCc-------eeccHHHHHHHHHhCCceEEeecccCC
Confidence 3566788999999988776432 22236889999999953 224554433
No 176
>PRK10568 periplasmic protein; Provisional
Probab=31.30 E-value=1.8e+02 Score=20.17 Aligned_cols=45 Identities=9% Similarity=0.042 Sum_probs=31.8
Q ss_pred cHhHHHHHHHHHhccCCcc--EEEEecCCCEEEEEEeC-CHHHHHHHH
Q 036889 14 DEKTKQKAIEAAADIYGVD--SITADLKEQKLIIIGDM-DAVAIAKKL 58 (86)
Q Consensus 14 C~~C~~kI~kal~~l~GV~--~v~vd~~~~~vtV~g~v-d~~~l~~~l 58 (86)
+.--..+|+.+|..-+.+. .+.+.-.+|.|++.|.+ ++.+-..+.
T Consensus 137 D~~It~~vk~~L~~~~~v~~~~I~V~v~~G~V~L~G~V~s~~e~~~A~ 184 (203)
T PRK10568 137 DTATTSEIKAKLLADDIVPSRKVKVETTDGVVQLSGTVDSQAQSDRAE 184 (203)
T ss_pred cHHHHHHHHHHHhhCCCCCcceeEEEEeCcEEEEEEEECCHHHHHHHH
Confidence 3345678888887666654 57888899999999997 454444443
No 177
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=31.19 E-value=1.5e+02 Score=19.03 Aligned_cols=47 Identities=19% Similarity=0.209 Sum_probs=32.9
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
.|-. -+|+.| ++++.-|.+ .||.--.+|.... ..+.+.|.+-++..|
T Consensus 5 iy~~--p~C~t~-rka~~~L~~-~gi~~~~~~y~~~------~~s~~eL~~~l~~~g 51 (117)
T COG1393 5 IYGN--PNCSTC-RKALAWLEE-HGIEYTFIDYLKT------PPSREELKKILSKLG 51 (117)
T ss_pred EEeC--CCChHH-HHHHHHHHH-cCCCcEEEEeecC------CCCHHHHHHHHHHcC
Confidence 4555 489999 777777776 4887755554322 278888888888877
No 178
>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=31.07 E-value=59 Score=18.08 Aligned_cols=22 Identities=14% Similarity=0.422 Sum_probs=17.3
Q ss_pred hccCCccEEEEecCCCEEEEEE
Q 036889 26 ADIYGVDSITADLKEQKLIIIG 47 (86)
Q Consensus 26 ~~l~GV~~v~vd~~~~~vtV~g 47 (86)
..++||+.|.+-..++++.+.-
T Consensus 14 ~~i~~i~eV~i~~~dg~~~~~~ 35 (58)
T PF01849_consen 14 KEIPGIEEVTIRKDDGTVFVFN 35 (58)
T ss_dssp EEETTEEEEEEEETTTEEEEEE
T ss_pred cccCCcEEEEEEECCceEEEEc
Confidence 3567899999999888877764
No 179
>PRK12559 transcriptional regulator Spx; Provisional
Probab=30.98 E-value=1.5e+02 Score=19.15 Aligned_cols=43 Identities=12% Similarity=0.093 Sum_probs=30.2
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
-+|+.| +++.+.|.. .|+.--.+|...+ ..+.++|...|+.+|
T Consensus 8 ~~C~~c-rkA~~~L~~-~gi~~~~~di~~~------~~s~~el~~~l~~~~ 50 (131)
T PRK12559 8 ASCASC-RKAKAWLEE-NQIDYTEKNIVSN------SMTVDELKSILRLTE 50 (131)
T ss_pred CCChHH-HHHHHHHHH-cCCCeEEEEeeCC------cCCHHHHHHHHHHcC
Confidence 599999 667778876 4887766665432 266777877777753
No 180
>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=30.85 E-value=1.9e+02 Score=20.17 Aligned_cols=45 Identities=11% Similarity=0.042 Sum_probs=32.9
Q ss_pred eecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEE--eCCHHHHHHHHHhhCC
Q 036889 10 MTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIG--DMDAVAIAKKLKKIGK 63 (86)
Q Consensus 10 ~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g--~vd~~~l~~~l~k~G~ 63 (86)
.|+.|+.=.-+.+++|.+++.= +.++|.. ......|.+.++..||
T Consensus 4 rGl~CP~Pvi~tKkal~~l~~g---------~~L~VlvD~~~a~~nV~~~~~~~G~ 50 (194)
T TIGR03527 4 RGLACPQPVILTKKALDELGEE---------GVLTVIVDNEAAKENVSKFATSLGY 50 (194)
T ss_pred CCCCCCHHHHHHHHHHHcCCCC---------CEEEEEECCccHHHHHHHHHHHcCC
Confidence 4789999999999999998631 2333333 2566778888888887
No 181
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=30.72 E-value=1.9e+02 Score=20.34 Aligned_cols=56 Identities=14% Similarity=0.226 Sum_probs=40.6
Q ss_pred EEEEeecccHhHHHHHHHHHhc---cCCccEEEE---ecCCCEEEEEEeC---------CHHHHHHHHHhhC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAAD---IYGVDSITA---DLKEQKLIIIGDM---------DAVAIAKKLKKIG 62 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~---l~GV~~v~v---d~~~~~vtV~g~v---------d~~~l~~~l~k~G 62 (86)
.++|.|++-+.=...|++.|++ +... .|.+ .....+++|.|.+ ....|.++|..+|
T Consensus 39 ~v~v~G~T~~e~~~~I~~~l~~~~~~~~p-~V~V~v~~~~~~~V~V~GeV~~PG~~~l~~~~tl~~ai~~AG 109 (239)
T TIGR03028 39 EVKLGGETPAAAERKIASRLSKGGFVKQP-QVTINVLQYRGQQVSVLGQVNRPGRYPLETAGRVSDVLALAG 109 (239)
T ss_pred eEEECCCCHHHHHHHHHHHHhhcCcccCC-EEEEEEEeccceEEEEEEEecCCceEEcCCCCcHHHHHHHcC
Confidence 3678899999999999999985 2221 2333 3446899999863 2368999999876
No 182
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=30.60 E-value=1.2e+02 Score=17.98 Aligned_cols=56 Identities=23% Similarity=0.200 Sum_probs=39.9
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhC-CeEEEEc
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIG-KIEIVSV 69 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G-~a~ivsv 69 (86)
..+|.+.|++|+.=.-.++++|.+++- ...+.|..+ ....+|-...++.| | +++.+
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~~---------Ge~LeV~~ddp~~~~dIp~~~~~~~~~-~ll~~ 63 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLKP---------GEILEVIADDPAAKEDIPAWAKKEGGH-ELLEV 63 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCCC---------CCEEEEEecCcchHHHHHHHHHHcCCc-EEEEE
Confidence 468999999999999999999999873 334455443 45567777777554 5 34444
No 183
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=30.51 E-value=34 Score=24.91 Aligned_cols=28 Identities=18% Similarity=0.279 Sum_probs=24.3
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
+.|=..|.++.+.+.+.|.|-+.|++|-
T Consensus 165 I~G~kev~vN~e~~~i~vsGvVRP~DI~ 192 (234)
T PRK12788 165 ISGSQEVRVNYEMRVLNVGGIVRPLDIT 192 (234)
T ss_pred EEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 5677889999999999999999888874
No 184
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=30.49 E-value=1.4e+02 Score=19.97 Aligned_cols=25 Identities=12% Similarity=0.009 Sum_probs=20.3
Q ss_pred ccHhHHHHHHHHHhccCCccEEEEecC
Q 036889 13 NDEKTKQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 13 ~C~~C~~kI~kal~~l~GV~~v~vd~~ 39 (86)
+|+.| .+++..|.++ ||.--++|..
T Consensus 15 t~~~C-~~ak~iL~~~-~V~~~e~DVs 39 (147)
T cd03031 15 TFEDC-NNVRAILESF-RVKFDERDVS 39 (147)
T ss_pred cChhH-HHHHHHHHHC-CCcEEEEECC
Confidence 89999 8899999886 7876666654
No 185
>TIGR02180 GRX_euk Glutaredoxin. This model represents eukaryotic glutaredoxins and includes sequences from fungi, plants and metazoans as well as viruses.
Probab=30.28 E-value=93 Score=17.31 Aligned_cols=17 Identities=24% Similarity=0.038 Sum_probs=13.9
Q ss_pred cccHhHHHHHHHHHhccC
Q 036889 12 MNDEKTKQKAIEAAADIY 29 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~ 29 (86)
-.|+.| .+++..|.++.
T Consensus 7 ~~Cp~C-~~~~~~L~~~~ 23 (84)
T TIGR02180 7 SYCPYC-KKAKEILAKLN 23 (84)
T ss_pred CCChhH-HHHHHHHHHcC
Confidence 479999 77888888874
No 186
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=29.91 E-value=97 Score=26.87 Aligned_cols=43 Identities=9% Similarity=0.162 Sum_probs=33.3
Q ss_pred HHHHHHHHhccCCccEEEEecCC--CEEEEEE--------eCCHHHHHHHHHh
Q 036889 18 KQKAIEAAADIYGVDSITADLKE--QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~--~~vtV~g--------~vd~~~l~~~l~k 60 (86)
.++++..|.+++|+.+|..+... .++.|.- .+++.++.++|+-
T Consensus 691 a~~l~~~l~~~pgv~~v~~~~~~~~~e~~v~id~~k~~~~Gls~~~v~~~l~~ 743 (1040)
T PRK10503 691 VPKLMEKLQQLPQLSDVSSDWQDKGLVAYVNVDRDSASRLGISMADVDNALYN 743 (1040)
T ss_pred HHHHHHHHhcCCCeEEEEccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 45789999999999999876554 4555553 2888999999985
No 187
>PF05309 TraE: TraE protein; InterPro: IPR007973 This family consists of several bacterial sex pilus assembly and synthesis proteins (TraE). Conjugal transfer of plasmids from donor to recipient cells is a complex process in which a cell-to-cell contact plays a key role. Many genes encoded by self-transmissible plasmids are required for various processes of conjugation, including pilus formation, stabilisation of mating pairs, conjugative DNA metabolism, surface exclusion and regulation of transfer gene expression []. The exact function of the TraE protein is unknown.; GO: 0000746 conjugation
Probab=29.82 E-value=72 Score=21.73 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=15.7
Q ss_pred ccEEEEecCCCEEEEEEe
Q 036889 31 VDSITADLKEQKLIIIGD 48 (86)
Q Consensus 31 V~~v~vd~~~~~vtV~g~ 48 (86)
+.++.+|+.+++|.|.|.
T Consensus 130 ~~~i~~d~~~~~V~V~G~ 147 (187)
T PF05309_consen 130 PKSIEVDPETLTVFVTGT 147 (187)
T ss_pred EeEEEEecCCCEEEEEEE
Confidence 456889999999999996
No 188
>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=29.75 E-value=54 Score=18.52 Aligned_cols=19 Identities=32% Similarity=0.340 Sum_probs=15.5
Q ss_pred HHHHHHhccCCccEEEEec
Q 036889 20 KAIEAAADIYGVDSITADL 38 (86)
Q Consensus 20 kI~kal~~l~GV~~v~vd~ 38 (86)
.--+.|.+.|||.+|+-|.
T Consensus 59 ~~i~~L~~~p~V~~Ve~D~ 77 (82)
T PF05922_consen 59 EEIEKLRKDPGVKSVEPDQ 77 (82)
T ss_dssp HHHHHHHTSTTEEEEEEEC
T ss_pred HHHHHHHcCCCeEEEEeCc
Confidence 3457889999999999884
No 189
>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=29.60 E-value=55 Score=22.99 Aligned_cols=29 Identities=21% Similarity=0.279 Sum_probs=22.2
Q ss_pred HHHHHHHHHhccCCccEEEE--ecCCCEEEE
Q 036889 17 TKQKAIEAAADIYGVDSITA--DLKEQKLII 45 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~v--d~~~~~vtV 45 (86)
=.++++.+|++++||-.|+| .++++.-.|
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 45789999999999998764 666655544
No 190
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=29.49 E-value=91 Score=19.11 Aligned_cols=22 Identities=32% Similarity=0.425 Sum_probs=17.7
Q ss_pred CCHHHHHHHHHhhCC-eEEEEcC
Q 036889 49 MDAVAIAKKLKKIGK-IEIVSVG 70 (86)
Q Consensus 49 vd~~~l~~~l~k~G~-a~ivsv~ 70 (86)
+|++.|...=++.|| ..++..+
T Consensus 55 id~~~i~~fC~~~gy~~~iv~~g 77 (86)
T PF11360_consen 55 IDPEEIEEFCRSAGYEYEIVPPG 77 (86)
T ss_pred ECHHHHHHHHHHCCceEEEECCC
Confidence 788888888888888 7777777
No 191
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=29.40 E-value=74 Score=19.77 Aligned_cols=23 Identities=35% Similarity=0.707 Sum_probs=18.8
Q ss_pred CCEEEEEEeCCHHHHHHHHHh-hC
Q 036889 40 EQKLIIIGDMDAVAIAKKLKK-IG 62 (86)
Q Consensus 40 ~~~vtV~g~vd~~~l~~~l~k-~G 62 (86)
+-.+.|.|+++++.+.+.|++ .|
T Consensus 19 n~~l~i~Gd~~~~~~~~~i~~~~~ 42 (184)
T PF05193_consen 19 NMTLVIVGDIDPDELEKLIEKYFG 42 (184)
T ss_dssp GEEEEEEESSGHHHHHHHHHHHHT
T ss_pred ceEEEEEcCccHHHHHHHHHhhhh
Confidence 346788999999999999986 45
No 192
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=29.35 E-value=1e+02 Score=26.76 Aligned_cols=46 Identities=13% Similarity=0.094 Sum_probs=35.8
Q ss_pred hHHHHHHHHHhccCCccEEEEecCC--CEEEEEE--------eCCHHHHHHHHHhh
Q 036889 16 KTKQKAIEAAADIYGVDSITADLKE--QKLIIIG--------DMDAVAIAKKLKKI 61 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd~~~--~~vtV~g--------~vd~~~l~~~l~k~ 61 (86)
.=...++..|.+++|+.+|..+... .++.|.- .+++.+|.++|+-.
T Consensus 696 ~~a~~l~~~l~~~~gv~~v~~~~~~~~~~l~i~id~~k~~~~Gls~~~v~~~l~~~ 751 (1037)
T PRK10555 696 AARNQLLALAAKNPELTRVRHNGLDDSPQLQIDIDQRKAQALGVSIDDINDTLQTA 751 (1037)
T ss_pred HHHHHHHHHHhcCCCeEEEecCCcCCCceEEEEECHHHHHHcCCCHHHHHHHHHHH
Confidence 3456789999999999999988765 5566653 27888999999853
No 193
>PRK12698 flgH flagellar basal body L-ring protein; Reviewed
Probab=29.26 E-value=37 Score=24.42 Aligned_cols=29 Identities=17% Similarity=0.182 Sum_probs=24.6
Q ss_pred ccCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 27 DIYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 27 ~l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
-+.|-..+.++.+.+.+++.|-+.|.+|-
T Consensus 153 ~I~GeK~i~vN~~~e~I~lsGvVRP~DI~ 181 (224)
T PRK12698 153 VIRGEKWISINNGDEFIRLTGIVRSQDIT 181 (224)
T ss_pred EEEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 35678889999999999999998888773
No 194
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=29.14 E-value=1e+02 Score=21.11 Aligned_cols=29 Identities=21% Similarity=0.342 Sum_probs=22.1
Q ss_pred CEEEEEEeCCHHHHHHHHHhhCC-eEEEEc
Q 036889 41 QKLIIIGDMDAVAIAKKLKKIGK-IEIVSV 69 (86)
Q Consensus 41 ~~vtV~g~vd~~~l~~~l~k~G~-a~ivsv 69 (86)
.=+.|+|+-|-.-|+.+||..|. ...+++
T Consensus 108 ~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~ 137 (160)
T TIGR00288 108 AVALVTRDADFLPVINKAKENGKETIVIGA 137 (160)
T ss_pred EEEEEeccHhHHHHHHHHHHCCCEEEEEeC
Confidence 34677888999999999998896 444443
No 195
>PRK13763 putative RNA-processing protein; Provisional
Probab=28.98 E-value=1.9e+02 Score=19.71 Aligned_cols=54 Identities=20% Similarity=0.206 Sum_probs=32.5
Q ss_pred eEEEEEEeecccHhHH----HHHHHHHhccCCccEEEEecCCCEEEEEE-e-CCHHHHHHHH
Q 036889 3 RMVVLKMMTMNDEKTK----QKAIEAAADIYGVDSITADLKEQKLIIIG-D-MDAVAIAKKL 58 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~----~kI~kal~~l~GV~~v~vd~~~~~vtV~g-~-vd~~~l~~~l 58 (86)
-...+.|| -+--+=. .++.+.|...-|+. +++|.+++.|.|.. + .|+..+.+|.
T Consensus 3 ~~~~i~IP-~~kig~iIG~gGk~Ik~I~e~tg~~-I~i~~~~g~V~I~~~~~~d~~~i~kA~ 62 (180)
T PRK13763 3 MMEYVKIP-KDRIGVLIGKKGETKKEIEERTGVK-LEIDSETGEVIIEPTDGEDPLAVLKAR 62 (180)
T ss_pred ceEEEEcC-HHHhhhHhccchhHHHHHHHHHCcE-EEEECCCCeEEEEeCCCCCHHHHHHHH
Confidence 34455664 3333322 45566677767776 89998889999962 1 4555554443
No 196
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=28.70 E-value=1.4e+02 Score=21.43 Aligned_cols=47 Identities=13% Similarity=-0.017 Sum_probs=31.9
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecCCC-------------------EEEEEEe---CCHHHHHHHHHh
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLKEQ-------------------KLIIIGD---MDAVAIAKKLKK 60 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~-------------------~vtV~g~---vd~~~l~~~l~k 60 (86)
++-|==| ++..+.+++||.++.+-...+ -|.|.++ ++-++|++..-.
T Consensus 51 agGCFWg---~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff~ 119 (213)
T PRK00058 51 GMGCFWG---AERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFWE 119 (213)
T ss_pred EccCcch---hHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHH
Confidence 3445555 555667779999999866543 2666775 777888877654
No 197
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=28.69 E-value=65 Score=16.26 Aligned_cols=19 Identities=16% Similarity=0.202 Sum_probs=15.3
Q ss_pred HHHHHHHHHhccCCccEEE
Q 036889 17 TKQKAIEAAADIYGVDSIT 35 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~ 35 (86)
=...+...|..++||..+.
T Consensus 52 ~~~~~~~~l~~~~~v~~v~ 70 (71)
T cd04876 52 HLARIMRKLRQIPGVIDVR 70 (71)
T ss_pred HHHHHHHHHhCCCCcEEEE
Confidence 3678889999999988763
No 198
>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=28.49 E-value=2.1e+02 Score=24.59 Aligned_cols=42 Identities=21% Similarity=0.219 Sum_probs=29.7
Q ss_pred HHHHHHHHhccCCccEEEEecCCCEEEEE--Ee--CCHHHHHHHHH
Q 036889 18 KQKAIEAAADIYGVDSITADLKEQKLIII--GD--MDAVAIAKKLK 59 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~~~vtV~--g~--vd~~~l~~~l~ 59 (86)
...++++|++++||+.++-.-..|...++ .+ .|.+.....++
T Consensus 62 t~plE~~l~~v~gv~~i~S~s~~g~s~i~v~f~~~~d~~~a~~~v~ 107 (1021)
T PF00873_consen 62 TKPLEEALSSVEGVKEIRSTSREGSSSITVEFDDGTDIDEALQEVR 107 (1021)
T ss_dssp HHHHHHTHCSSTTEEEEEEEETTSEEEEEEEESTTS-HHHHHHHHH
T ss_pred HHHHHHHHcCCCCeEEEEEEecCCcEEEEEEeccccCHHHHHHHHH
Confidence 46789999999999999876666665554 43 66666555554
No 199
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=27.91 E-value=1.5e+02 Score=22.66 Aligned_cols=48 Identities=13% Similarity=0.205 Sum_probs=31.4
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEE--ecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITA--DLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~v--d~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
++.|..-.|.+|...|.++ |+..|-+ |++. .|..-...+.+.|+.+|.
T Consensus 47 ~i~~s~~p~~~cad~ii~~-----gi~rVVi~~D~d~-----~G~~~~~~~~~~L~~aGi 96 (360)
T PRK14719 47 FITVSNTPVFQIADDLIAE-----NISEVILLTDFDR-----AGRVYAKNIMEEFQSRGI 96 (360)
T ss_pred EEEEeCCchHHHHHHHHHc-----CCCEEEEEECCCC-----CCCccchHHHHHHHHCCC
Confidence 5666677899999888765 6665544 4332 554444566777777775
No 200
>PHA02125 thioredoxin-like protein
Probab=27.84 E-value=82 Score=17.84 Aligned_cols=16 Identities=6% Similarity=-0.103 Sum_probs=11.7
Q ss_pred cccHhHHHHHHHHHhcc
Q 036889 12 MNDEKTKQKAIEAAADI 28 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l 28 (86)
-.|+.| +.+...|.++
T Consensus 8 ~wC~~C-k~~~~~l~~~ 23 (75)
T PHA02125 8 EWCANC-KMVKPMLANV 23 (75)
T ss_pred CCCHhH-HHHHHHHHHH
Confidence 489999 5577777655
No 201
>TIGR02761 TraE_TIGR type IV conjugative transfer system protein TraE. TraE is a component of type IV secretion systems involved in conjugative transfer of plasmid DNA. The function of the TraE protein is unknown.
Probab=27.53 E-value=76 Score=21.70 Aligned_cols=36 Identities=11% Similarity=0.059 Sum_probs=24.6
Q ss_pred ccHhHHHHHHHHHhccC------C------ccEEEEecCCCEEEEEEe
Q 036889 13 NDEKTKQKAIEAAADIY------G------VDSITADLKEQKLIIIGD 48 (86)
Q Consensus 13 ~C~~C~~kI~kal~~l~------G------V~~v~vd~~~~~vtV~g~ 48 (86)
-++.....+++.|.... + +.++.+|+++++|.|.|.
T Consensus 100 v~p~~~~~~k~~L~~~a~~ik~~~vSs~F~~~~i~v~~~~~~V~V~G~ 147 (181)
T TIGR02761 100 VEPQNYGQIKSRLAKEAEEIKKANASSVFYPKSVEWNPQEGTVKVRGH 147 (181)
T ss_pred cChhhHHHHHHHHHHHHHHHHhcCceEEEEeeeEEEccCCCEEEEEEE
Confidence 44555556666554332 3 456889999999999995
No 202
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=27.25 E-value=1.1e+02 Score=21.49 Aligned_cols=47 Identities=11% Similarity=-0.019 Sum_probs=31.4
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecCCCE-------------------EEEEEe---CCHHHHHHHHHh
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLKEQK-------------------LIIIGD---MDAVAIAKKLKK 60 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~-------------------vtV~g~---vd~~~l~~~l~k 60 (86)
++-|==|.. ....+++||.++.+-..++. |.|..+ ++-.+|++..-.
T Consensus 14 agGCFWg~E---~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff~ 82 (186)
T PRK13014 14 AGGCFWGVE---GVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFFS 82 (186)
T ss_pred ecCCceeeH---HHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHHH
Confidence 455666654 45557899999998666553 566665 677777776543
No 203
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=27.19 E-value=2.6e+02 Score=20.57 Aligned_cols=62 Identities=6% Similarity=0.059 Sum_probs=43.4
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhccCC-ccEEEEec--CCCEEEE--EEe-----CCHHHHHHHHHhhC
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADIYG-VDSITADL--KEQKLII--IGD-----MDAVAIAKKLKKIG 62 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l~G-V~~v~vd~--~~~~vtV--~g~-----vd~~~l~~~l~k~G 62 (86)
||+..++.|-|-.=.|-...|.++|....+ +.+++... -.+.... ..+ .+...|.++|...+
T Consensus 3 ~~~~~vitv~G~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~~~~~~~~~~L~~~L~~l~ 74 (286)
T PRK06027 3 MMQRYVLTLSCPDRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGDGLIFNLETLRADFAALA 74 (286)
T ss_pred CCceEEEEEECCCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeCCCCCCHHHHHHHHHHHH
Confidence 467889999899999999999999999753 44444433 3333322 233 45678888888765
No 204
>PF00011 HSP20: Hsp20/alpha crystallin family This prints entry is a subset of the Pfam entry.; InterPro: IPR002068 Prokaryotic and eukaryotic organisms respond to heat shock or other environmental stress by inducing the synthesis of proteins collectively known as heat-shock proteins (hsp) []. Amongst them is a family of proteins with an average molecular weight of 20 Kd, known as the hsp20 proteins []. These seem to act as chaperones that can protect other proteins against heat-induced denaturation and aggregation. Hsp20 proteins seem to form large heterooligomeric aggregates. Structurally, this family is characterised by the presence of a conserved C-terminal domain of about 100 residues.; PDB: 2BOL_B 3N3E_B 2H50_P 2H53_F 2BYU_L 1GME_D 3VQM_J 3VQK_E 3VQL_A 3AAC_A ....
Probab=27.10 E-value=66 Score=19.16 Aligned_cols=24 Identities=33% Similarity=0.614 Sum_probs=17.2
Q ss_pred ccCCcc--EEEEecCCCEEEEEEeCC
Q 036889 27 DIYGVD--SITADLKEQKLIIIGDMD 50 (86)
Q Consensus 27 ~l~GV~--~v~vd~~~~~vtV~g~vd 50 (86)
.++|+. ++.+...++.++|.|...
T Consensus 14 ~lpG~~~edi~I~~~~~~L~I~g~~~ 39 (102)
T PF00011_consen 14 DLPGFDKEDIKIKVDDNKLVISGKRK 39 (102)
T ss_dssp E-TTS-GGGEEEEEETTEEEEEEEEE
T ss_pred ECCCCChHHEEEEEecCccceeceee
Confidence 456765 588888899999998644
No 205
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=26.69 E-value=1.1e+02 Score=20.98 Aligned_cols=25 Identities=24% Similarity=0.316 Sum_probs=21.0
Q ss_pred ecCCCEEEEEEeCCHHHHHHHHHhh
Q 036889 37 DLKEQKLIIIGDMDAVAIAKKLKKI 61 (86)
Q Consensus 37 d~~~~~vtV~g~vd~~~l~~~l~k~ 61 (86)
=+.+|+++++|.-+++++..++++.
T Consensus 144 IF~sGkvvitGaks~~~~~~a~~~i 168 (174)
T cd00652 144 IFVSGKIVITGAKSREDIYEAVEKI 168 (174)
T ss_pred EEcCCEEEEEecCCHHHHHHHHHHH
Confidence 4578999999998888888888764
No 206
>COG3453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.62 E-value=1.1e+02 Score=20.54 Aligned_cols=33 Identities=18% Similarity=0.392 Sum_probs=24.9
Q ss_pred CCEEEEEEeCCHHHHHHHHHhhCCeEEEEcCCCC
Q 036889 40 EQKLIIIGDMDAVAIAKKLKKIGKIEIVSVGPAK 73 (86)
Q Consensus 40 ~~~vtV~g~vd~~~l~~~l~k~G~a~ivsv~~~~ 73 (86)
+..+.|+|.++++++ ..|...||..|+---|..
T Consensus 7 ~d~lsVsgQi~~~D~-~~iaa~GFksiI~nRPDg 39 (130)
T COG3453 7 NDRLSVSGQISPADI-ASIAALGFKSIICNRPDG 39 (130)
T ss_pred ccceeecCCCCHHHH-HHHHHhccceecccCCCC
Confidence 357889999999988 567888987776655544
No 207
>PF07582 AP_endonuc_2_N: AP endonuclease family 2 C terminus; InterPro: IPR011418 DNA damaging agents such as the anti-tumour drugs bleomycin and neocarzinostatin or those that generate oxygen radicals produce a variety of lesions in DNA. Amongst these is base-loss which forms apurinic/apyrimidinic (AP) sites or strand breaks with atypical 3' termini. DNA repair at the AP sites is initiated by specific endonuclease cleavage of the phosphodiester backbone. Such endonucleases are also generally capable of removing blocking groups from the 3' terminus of DNA strand breaks. AP endonucleases can be classified into two families based on sequence similarity []. This entry represents a highly-conserved sequence found at the C terminus of several apurinic/apyrimidinic (AP) endonucleases in a range of Gram-positive and Gram-negative bacteria. ; PDB: 3LMZ_A 2ZDS_D.
Probab=26.51 E-value=72 Score=18.03 Aligned_cols=21 Identities=24% Similarity=0.229 Sum_probs=13.5
Q ss_pred HHHHHHHHhhCCeEEEEcCCC
Q 036889 52 VAIAKKLKKIGKIEIVSVGPA 72 (86)
Q Consensus 52 ~~l~~~l~k~G~a~ivsv~~~ 72 (86)
..++.+|+..||.-.+|++-+
T Consensus 3 ~~i~~~L~~~GYdG~~siE~E 23 (55)
T PF07582_consen 3 KRIFSALREIGYDGWLSIEHE 23 (55)
T ss_dssp HHHHHHHHHTT--SEEEE---
T ss_pred HHHHHHHHHcCCCceEEEEee
Confidence 578999999999767777543
No 208
>cd03309 CmuC_like CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in some step of chloromethane metabolism.
Probab=26.44 E-value=93 Score=23.25 Aligned_cols=39 Identities=21% Similarity=0.392 Sum_probs=27.6
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCC-----------CEEEEEEeCCH
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKE-----------QKLIIIGDMDA 51 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~-----------~~vtV~g~vd~ 51 (86)
+|+.+....+...+..+ |++.+.+|... +++.+.|++||
T Consensus 217 lH~cG~~~~~l~~~~e~-g~dvl~~d~~~~dl~eak~~~g~k~~l~GNlDp 266 (321)
T cd03309 217 HHSCGAAASLVPSMAEM-GVDSWNVVMTANNTAELRRLLGDKVVLAGAIDD 266 (321)
T ss_pred EEeCCCcHHHHHHHHHc-CCCEEEecCCCCCHHHHHHHhCCCeEEEcCCCh
Confidence 44444445666777776 88888887765 57899998777
No 209
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=26.36 E-value=43 Score=24.07 Aligned_cols=29 Identities=24% Similarity=0.226 Sum_probs=24.3
Q ss_pred ccCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 27 DIYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 27 ~l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
-+.|=..+.++.+.+.+.|.|-+.|.+|-
T Consensus 150 ~I~GeK~i~vN~e~e~i~~sGvVRP~DI~ 178 (221)
T PRK12407 150 VIRGEKWLTLNQGDEYMRVTGLVRADDIA 178 (221)
T ss_pred EEEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 35677889999999999999988888773
No 210
>PRK01641 leuD isopropylmalate isomerase small subunit; Provisional
Probab=26.35 E-value=86 Score=22.19 Aligned_cols=42 Identities=14% Similarity=0.139 Sum_probs=25.5
Q ss_pred HHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHHhhCC
Q 036889 21 AIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLKKIGK 63 (86)
Q Consensus 21 I~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~k~G~ 63 (86)
+...+..-+| ..++||+.+++|+..|. +........+-..|+
T Consensus 129 l~~~~~~~~g-~~i~vDl~~~~v~~~~~~~~f~i~~~~~~~l~~G~ 173 (200)
T PRK01641 129 LFKLVEANPG-AELTVDLEAQTVTAPDKTFPFEIDPFRRHCLLNGL 173 (200)
T ss_pred HHHHHhcCCC-CEEEEEcCCCEEecCCeEEEEEcCHHHHHHHHcCC
Confidence 3344433456 58999999999987552 344444444444554
No 211
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=26.23 E-value=1.5e+02 Score=17.62 Aligned_cols=23 Identities=9% Similarity=0.096 Sum_probs=15.5
Q ss_pred cHhHHHHHHHHHhccCCccEEEE
Q 036889 14 DEKTKQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 14 C~~C~~kI~kal~~l~GV~~v~v 36 (86)
-+.....+.+-|.++..|..|++
T Consensus 53 ~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 53 SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred CCchHHHHHHHHhcCcCeEEEEE
Confidence 46666677777777777766654
No 212
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=26.18 E-value=80 Score=20.20 Aligned_cols=22 Identities=5% Similarity=-0.008 Sum_probs=18.1
Q ss_pred ecccHhHHHHHHHHHhccCCccE
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDS 33 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~ 33 (86)
...|..|+..+++.|.+ .||..
T Consensus 18 ~~qC~~cA~Al~~~L~~-~gI~G 39 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQ-AGIPG 39 (100)
T ss_pred ceehHHHHHHHHHHHHH-CCCCc
Confidence 47999999999999976 46654
No 213
>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=26.15 E-value=83 Score=16.72 Aligned_cols=29 Identities=7% Similarity=0.087 Sum_probs=19.6
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEE
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~v 36 (86)
+.+.+.+ + .=...+.+.|.+++||..+.+
T Consensus 43 ~~i~~~~--~-~~~~~~~~~L~~~~~v~~v~~ 71 (72)
T cd04874 43 IYMELEG--V-GDIEELVEELRSLPIVREVEI 71 (72)
T ss_pred EEEEEec--c-ccHHHHHHHHhCCCCeEEEEe
Confidence 4455542 2 334578888999999988764
No 214
>PRK12701 flgH flagellar basal body L-ring protein; Reviewed
Probab=26.12 E-value=45 Score=24.13 Aligned_cols=28 Identities=11% Similarity=0.131 Sum_probs=23.9
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
+.|-..+.++.+.+.+++.|-+.|.+|-
T Consensus 160 I~GeK~v~vN~e~e~i~lsGvVRP~DI~ 187 (230)
T PRK12701 160 VQGEKWVRINQGNEFVRLSGIVRPQDIK 187 (230)
T ss_pred EEEEEEEEECCCeEEEEEEEEECHHHCC
Confidence 5677889999999999999988888773
No 215
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=25.90 E-value=89 Score=19.38 Aligned_cols=28 Identities=29% Similarity=0.571 Sum_probs=18.0
Q ss_pred CEEEEEEeCCHHHHHHHHHhhCC-eEEEE
Q 036889 41 QKLIIIGDMDAVAIAKKLKKIGK-IEIVS 68 (86)
Q Consensus 41 ~~vtV~g~vd~~~l~~~l~k~G~-a~ivs 68 (86)
.-+.|+|+-|-.-+++.|+..|+ ..++.
T Consensus 98 ~ivLvSgD~Df~~~v~~l~~~g~~V~v~~ 126 (146)
T PF01936_consen 98 TIVLVSGDSDFAPLVRKLRERGKRVIVVG 126 (146)
T ss_dssp EEEEE---GGGHHHHHHHHHH--EEEEEE
T ss_pred EEEEEECcHHHHHHHHHHHHcCCEEEEEE
Confidence 45667889999999999999997 55555
No 216
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=25.77 E-value=1.3e+02 Score=19.37 Aligned_cols=36 Identities=11% Similarity=0.196 Sum_probs=26.6
Q ss_pred HhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHh
Q 036889 25 AADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKK 60 (86)
Q Consensus 25 l~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k 60 (86)
|.++.+...+++++..+-..+.|. .--..|+++|+-
T Consensus 4 i~nf~~~~~~~i~f~~g~~vi~G~Ng~GKStil~ai~~ 41 (202)
T PF13476_consen 4 IKNFRSFKDLEIDFSPGLNVIYGPNGSGKSTILEAIRY 41 (202)
T ss_dssp EEEETTEEEEEEE--SEEEEEEESTTSSHHHHHHHHHH
T ss_pred EEEeCCCcceEEEcCCCcEEEECCCCCCHHHHHHHHHH
Confidence 345667788999998777777785 888889999984
No 217
>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=25.72 E-value=76 Score=17.75 Aligned_cols=40 Identities=15% Similarity=0.092 Sum_probs=25.8
Q ss_pred HHHHHhccCCccEEEE----ecCCCEEEEEE-eCCHHHHHHHHHh
Q 036889 21 AIEAAADIYGVDSITA----DLKEQKLIIIG-DMDAVAIAKKLKK 60 (86)
Q Consensus 21 I~kal~~l~GV~~v~v----d~~~~~vtV~g-~vd~~~l~~~l~k 60 (86)
|..+|.+++||.++-+ |...+...+-. ..+..+|.+.++.
T Consensus 2 IE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~~~~~i~~~~~~ 46 (73)
T PF13193_consen 2 IESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVLDEEEIRDHLRD 46 (73)
T ss_dssp HHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEEHHHHHHHHHHH
T ss_pred HHHHHhcCCCccEEEEEEEEcccccccceeEEEeeecccccchhh
Confidence 6789999999998554 33333322222 1366888888884
No 218
>COG0106 HisA Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]
Probab=25.66 E-value=2.5e+02 Score=20.56 Aligned_cols=48 Identities=19% Similarity=0.273 Sum_probs=33.3
Q ss_pred HHHHHHhccCCccEEEEecCCCEEEEEEe-----CCHHHHHHHHHhhCCeEEE
Q 036889 20 KAIEAAADIYGVDSITADLKEQKLIIIGD-----MDAVAIAKKLKKIGKIEIV 67 (86)
Q Consensus 20 kI~kal~~l~GV~~v~vd~~~~~vtV~g~-----vd~~~l~~~l~k~G~a~iv 67 (86)
-+++.+....+=--|.+|...+++-+.|. +++.++++.+...|...++
T Consensus 113 ~v~~~~~~~g~rivv~lD~r~g~vav~GW~e~s~~~~~~l~~~~~~~g~~~ii 165 (241)
T COG0106 113 LVKELCEEYGDRIVVALDARDGKVAVSGWQEDSGVELEELAKRLEEVGLAHIL 165 (241)
T ss_pred HHHHHHHHcCCcEEEEEEccCCccccccccccccCCHHHHHHHHHhcCCCeEE
Confidence 35555656543223567778888988883 7999999999988864443
No 219
>PRK00249 flgH flagellar basal body L-ring protein; Reviewed
Probab=25.66 E-value=46 Score=23.83 Aligned_cols=29 Identities=17% Similarity=0.192 Sum_probs=24.6
Q ss_pred ccCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 27 DIYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 27 ~l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
-+.|=..+.++.+.+.+.+.|-+.|.+|-
T Consensus 152 vI~G~K~i~vN~e~~~i~lsGiVRP~DI~ 180 (222)
T PRK00249 152 VIRGEKEVRVNQGTEFLRVSGVVRPRDIS 180 (222)
T ss_pred EEEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 35677889999999999999999988874
No 220
>COG0054 RibH Riboflavin synthase beta-chain [Coenzyme metabolism]
Probab=25.65 E-value=2.2e+02 Score=19.41 Aligned_cols=52 Identities=21% Similarity=0.239 Sum_probs=37.4
Q ss_pred cHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC-CeEEEEcC
Q 036889 14 DEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG-KIEIVSVG 70 (86)
Q Consensus 14 C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G-~a~ivsv~ 70 (86)
|+.+......+|..+-+..+ .++ .++|=|.++..-+.++|-+.| |+.++..+
T Consensus 27 ~d~ll~gA~~~l~~~G~~~~-~i~----vv~VPGa~EiPl~a~~La~~~~yDAvv~lG 79 (152)
T COG0054 27 TDALLEGAVDALKRHGADVD-NID----VVRVPGAFEIPLAAKKLARTGKYDAVVALG 79 (152)
T ss_pred HHHHHHHHHHHHHHcCCCcc-cce----EEEeCCcchhHHHHHHHHhcCCcceEEEEe
Confidence 67777778888887543333 333 678889888888999998877 66676654
No 221
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=25.64 E-value=45 Score=24.22 Aligned_cols=28 Identities=14% Similarity=0.238 Sum_probs=23.9
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
+.|=..|.++.+.+.+.|.|-+.|++|-
T Consensus 167 I~G~k~v~vN~e~~~i~lsGvVRP~DI~ 194 (236)
T PRK12696 167 VEGARETRVNDETQYIVVSGLVRPRDIG 194 (236)
T ss_pred EEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 5677889999999999999988888773
No 222
>PRK10824 glutaredoxin-4; Provisional
Probab=25.18 E-value=94 Score=19.96 Aligned_cols=40 Identities=18% Similarity=0.146 Sum_probs=26.1
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh-hCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK-IGK 63 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k-~G~ 63 (86)
-.|+.| .++++.|.++ |+.--.+|... |+ .+..+|.. +|+
T Consensus 28 p~Cpyc-~~ak~lL~~~-~i~~~~idi~~---------d~-~~~~~l~~~sg~ 68 (115)
T PRK10824 28 PSCGFS-AQAVQALSAC-GERFAYVDILQ---------NP-DIRAELPKYANW 68 (115)
T ss_pred CCCchH-HHHHHHHHHc-CCCceEEEecC---------CH-HHHHHHHHHhCC
Confidence 379999 7788888886 77654555432 22 46666764 463
No 223
>PRK12697 flgH flagellar basal body L-ring protein; Reviewed
Probab=25.12 E-value=48 Score=24.00 Aligned_cols=28 Identities=11% Similarity=0.189 Sum_probs=24.0
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
+.|=..+.++.+.+.++|.|-+.|.+|-
T Consensus 157 I~GeK~i~vN~e~e~IrlsGvVRP~DI~ 184 (226)
T PRK12697 157 VSGEKQMLINQGNEFVRFSGVVNPNTIS 184 (226)
T ss_pred EEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 5677789999999999999998888874
No 224
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.10 E-value=1.3e+02 Score=16.38 Aligned_cols=51 Identities=16% Similarity=0.008 Sum_probs=32.4
Q ss_pred ccHhHHHHHHHHHhccCC-ccEEEEecC----CCEEEEEEe--CCHHHHHHHHHhhCC
Q 036889 13 NDEKTKQKAIEAAADIYG-VDSITADLK----EQKLIIIGD--MDAVAIAKKLKKIGK 63 (86)
Q Consensus 13 ~C~~C~~kI~kal~~l~G-V~~v~vd~~----~~~vtV~g~--vd~~~l~~~l~k~G~ 63 (86)
.=+|.-.++.+.|+.... +.++..... .+.+.+.-+ -|.+.+.+.|++.||
T Consensus 10 d~~G~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~~L~~~G~ 67 (69)
T cd04909 10 DEPGVIAEVTQILGDAGISIKNIEILEIREGIGGILRISFKTQEDRERAKEILKEAGY 67 (69)
T ss_pred CCCCHHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEECCHHHHHHHHHHHHHcCC
Confidence 345677888888876532 445543332 344444442 367899999999997
No 225
>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=25.07 E-value=1.6e+02 Score=25.43 Aligned_cols=42 Identities=7% Similarity=0.113 Sum_probs=32.2
Q ss_pred HHHHHHhccCCccEEEEecCC-CEEEEEE--------eCCHHHHHHHHHhh
Q 036889 20 KAIEAAADIYGVDSITADLKE-QKLIIIG--------DMDAVAIAKKLKKI 61 (86)
Q Consensus 20 kI~kal~~l~GV~~v~vd~~~-~~vtV~g--------~vd~~~l~~~l~k~ 61 (86)
.++..|.+++||.+|.+.... .++.|.- .+++.++.++|+..
T Consensus 170 ~l~~~L~~i~GV~~V~~~G~~~~ei~V~iD~~kl~~~glt~~dV~~~l~~~ 220 (1051)
T TIGR00914 170 IIRPQLRTVPGVAEVNSIGGYVKQFLVAPDPEKLAAYGLSLADVVNALERN 220 (1051)
T ss_pred HHHHHHhcCCCceEeeecCCceEEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 478899999999999997654 4566653 27888888999853
No 226
>PRK09579 multidrug efflux protein; Reviewed
Probab=24.98 E-value=1.3e+02 Score=25.95 Aligned_cols=45 Identities=11% Similarity=0.110 Sum_probs=35.1
Q ss_pred hHHHHHHHHHhccCCccEEEEecCCC--EEEEEE--------eCCHHHHHHHHHh
Q 036889 16 KTKQKAIEAAADIYGVDSITADLKEQ--KLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd~~~~--~vtV~g--------~vd~~~l~~~l~k 60 (86)
.=..+++..|++.+|+.++..|...+ ++.+.- .+++.+|.++|+-
T Consensus 672 ~~a~~l~~~l~~~~g~~~v~~~~~~~~~el~i~vd~~ka~~~Gls~~~i~~~l~~ 726 (1017)
T PRK09579 672 QVAQRVKQRAQESGKFAFLDIDLAFDKPEVVVDIDRAKAAQMGVSMQDLGGTLAT 726 (1017)
T ss_pred HHHHHHHHHHHcCCCcEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 45788999999999999999887554 455552 2788899999985
No 227
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=24.95 E-value=1.3e+02 Score=20.19 Aligned_cols=20 Identities=20% Similarity=0.398 Sum_probs=15.4
Q ss_pred HHHHHHHHhccCCccEEEEec
Q 036889 18 KQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~ 38 (86)
...|+.+|..+ |+.+|+|++
T Consensus 45 ~~~I~~aL~~~-Gv~~V~V~i 64 (146)
T TIGR02159 45 RQDIRDAVRAL-GVEVVEVST 64 (146)
T ss_pred HHHHHHHHHhc-CCCeEEEeE
Confidence 35688899887 998887753
No 228
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=24.83 E-value=1.2e+02 Score=20.80 Aligned_cols=25 Identities=12% Similarity=0.210 Sum_probs=20.7
Q ss_pred EecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 36 ADLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 36 vd~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
.=+.+|+++|+|.=+++++.++++.
T Consensus 142 liF~sGkvvitGaks~~~~~~a~~~ 166 (174)
T cd04516 142 LIFVSGKIVLTGAKSREEIYQAFEN 166 (174)
T ss_pred EEeCCCEEEEEecCCHHHHHHHHHH
Confidence 3467899999999888888888865
No 229
>PRK11670 antiporter inner membrane protein; Provisional
Probab=24.83 E-value=1.6e+02 Score=22.39 Aligned_cols=21 Identities=24% Similarity=0.283 Sum_probs=17.3
Q ss_pred HHHHHHHHhccCCccEEEEec
Q 036889 18 KQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~ 38 (86)
.+.++.+|+.++||.++.+.+
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~ 87 (369)
T PRK11670 67 KEQCSAELLRITGAKAIDWKL 87 (369)
T ss_pred HHHHHHHHHhcCCCceEEEEE
Confidence 467899999999999877644
No 230
>PRK11282 glcE glycolate oxidase FAD binding subunit; Provisional
Probab=24.81 E-value=1.1e+02 Score=23.31 Aligned_cols=37 Identities=16% Similarity=0.167 Sum_probs=30.4
Q ss_pred ccCCccEE-EEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 27 DIYGVDSI-TADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 27 ~l~GV~~v-~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
++.+...| ++|.++..++|..-+.-.+|.++|.+.|+
T Consensus 42 dl~~ln~Ile~d~~~~~vtV~AG~~l~el~~~L~~~G~ 79 (352)
T PRK11282 42 DTRAHRGIVSYDPTELVITARAGTPLAELEAALAEAGQ 79 (352)
T ss_pred EcccCCCcEEEcCCCCEEEECCCCCHHHHHHHHHHcCC
Confidence 44444444 78888999999999999999999999886
No 231
>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=24.68 E-value=28 Score=18.91 Aligned_cols=17 Identities=6% Similarity=-0.056 Sum_probs=3.1
Q ss_pred ecccHhHHHHHHHHHhc
Q 036889 11 TMNDEKTKQKAIEAAAD 27 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~ 27 (86)
|..|++|...|+..|+.
T Consensus 37 g~~Cg~C~~~v~~ll~e 53 (55)
T PF04324_consen 37 GTGCGSCVPEVKDLLAE 53 (55)
T ss_dssp SS-TH------------
T ss_pred CCCCCCccccccccccc
Confidence 56799999988877653
No 232
>PF04461 DUF520: Protein of unknown function (DUF520); InterPro: IPR007551 This entry represents the UPF0234 family of uncharacterised proteins.; PDB: 1IN0_A.
Probab=24.61 E-value=2.4e+02 Score=19.44 Aligned_cols=56 Identities=16% Similarity=0.330 Sum_probs=34.8
Q ss_pred eEEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEe--CCHHHHHHHHHhhC
Q 036889 3 RMVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGD--MDAVAIAKKLKKIG 62 (86)
Q Consensus 3 ~~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~--vd~~~l~~~l~k~G 62 (86)
+++.|+= |+.-+.+ ++|.+.+... +.. |.......+|.|+|- =|...+...|+...
T Consensus 92 q~i~lk~-GI~~d~A-KkIvK~IKd~-klK-Vqa~IQgd~vRVtgKkrDDLQ~viallk~~d 149 (160)
T PF04461_consen 92 QVIKLKQ-GIDQDTA-KKIVKLIKDS-KLK-VQAQIQGDQVRVTGKKRDDLQEVIALLKEQD 149 (160)
T ss_dssp EEEEE---S--HHHH-HHHHHHHHHH---S-EEEEEETTEEEEEES-HHHHHHHHHHHHHS-
T ss_pred EEEEeec-ccCHHHH-HHHHHHHHhc-CCc-eeEEecCcEEEEecCCHHHHHHHHHHHHccc
Confidence 3455555 5554444 7777777653 444 788888899999995 56667777787543
No 233
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=24.61 E-value=1.2e+02 Score=20.80 Aligned_cols=26 Identities=15% Similarity=0.282 Sum_probs=21.1
Q ss_pred EecCCCEEEEEEeCCHHHHHHHHHhh
Q 036889 36 ADLKEQKLIIIGDMDAVAIAKKLKKI 61 (86)
Q Consensus 36 vd~~~~~vtV~g~vd~~~l~~~l~k~ 61 (86)
.=+.+|+++++|.-+.+++..++++.
T Consensus 142 lIF~SGKvvitGaks~~~~~~a~~~i 167 (174)
T cd04518 142 LLFSSGKMVITGAKSEEDAKRAVEKL 167 (174)
T ss_pred EEeCCCEEEEEecCCHHHHHHHHHHH
Confidence 34678999999998888888888763
No 234
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=24.55 E-value=1.6e+02 Score=21.53 Aligned_cols=48 Identities=19% Similarity=0.173 Sum_probs=33.0
Q ss_pred ccCCccEEEEecCCCEEEEEE------eCCHHHHHHHHH-h--hC--CeEEEEcCCCCC
Q 036889 27 DIYGVDSITADLKEQKLIIIG------DMDAVAIAKKLK-K--IG--KIEIVSVGPAKA 74 (86)
Q Consensus 27 ~l~GV~~v~vd~~~~~vtV~g------~vd~~~l~~~l~-k--~G--~a~ivsv~~~~~ 74 (86)
..+...++.+|..++++.-.| ..|...|-.+|| | .| ....+|+||+..
T Consensus 9 qVPD~~~~~~~~~~~~l~r~~~~~~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a 67 (256)
T PRK03359 9 CVPDEQDIAVNNADGSLDFSKADAKISQYDLNAIEAACQLKQQAAEAQVTALSVGGKAL 67 (256)
T ss_pred ECcCCcceEEeCCCCeEEcCCCccccChhhHHHHHHHHHHhhhcCCCEEEEEEECCcch
Confidence 345556778887777766333 478888888888 4 33 478889998763
No 235
>COG5494 Predicted thioredoxin/glutaredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=24.54 E-value=2.6e+02 Score=20.65 Aligned_cols=51 Identities=16% Similarity=0.138 Sum_probs=34.9
Q ss_pred EEEeecccHhHHHHHHHHHhc---cCCccEEEEe-----------------cCCCEEEEEEeCCHHHHHHHHH
Q 036889 7 LKMMTMNDEKTKQKAIEAAAD---IYGVDSITAD-----------------LKEQKLIIIGDMDAVAIAKKLK 59 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~---l~GV~~v~vd-----------------~~~~~vtV~g~vd~~~l~~~l~ 59 (86)
+-+ +-+|-.| ....+.|.+ ++||.-+... +.+|++.--+.+||+++-..|.
T Consensus 15 I~~-HktC~ss-y~Lf~~L~nkgll~~Vkii~a~~p~f~~~~~~V~SvP~Vf~DGel~~~dpVdp~~ies~~~ 85 (265)
T COG5494 15 IFT-HKTCVSS-YMLFEYLENKGLLGKVKIIDAELPPFLAFEKGVISVPSVFIDGELVYADPVDPEEIESILS 85 (265)
T ss_pred EEE-ecchHHH-HHHHHHHHhcCCCCCceEEEcCCChHHHhhcceeecceEEEcCeEEEcCCCCHHHHHHHHc
Confidence 344 5679999 778889988 7777655543 2334444445599999988876
No 236
>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=24.50 E-value=1.2e+02 Score=17.91 Aligned_cols=38 Identities=13% Similarity=-0.004 Sum_probs=13.5
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEE
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKL 43 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~v 43 (86)
+|.|+|--|..=-.-+..|+..+--=+...|-++++++
T Consensus 22 tl~vDg~~v~~PD~El~sA~~HlH~GEkA~V~FkS~Rv 59 (68)
T PF09122_consen 22 TLIVDGEIVENPDAELKSALVHLHIGEKAQVFFKSQRV 59 (68)
T ss_dssp -EEETTEEESS--HHHHHHHTT-BTT-EEEEEETTS-E
T ss_pred EEEEcCeEcCCCCHHHHHHHHHhhcCceeEEEEecCcE
Confidence 34444444444444444444444333344444444443
No 237
>TIGR00014 arsC arsenate reductase (glutaredoxin). composed of two polypeptides, the products of the arsA and arsB genes. The pump alone produces resistance to arsenite and antimonite. This protein, ArsC, catalyzes the reduction of arsenate to arsenite, and thus extends resistance to include arsenate.
Probab=24.47 E-value=1.9e+02 Score=18.06 Aligned_cols=44 Identities=11% Similarity=0.184 Sum_probs=31.6
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
-+|..| +++.+-|.. .|+.-..+|..... .+.++|..-++..|.
T Consensus 7 ~~C~t~-rkA~~~L~~-~~i~~~~~di~~~p------~t~~el~~~l~~~g~ 50 (114)
T TIGR00014 7 PRCSKS-RNTLALLED-KGIEPEVVKYLKNP------PTKSELEAIFAKLGL 50 (114)
T ss_pred CCCHHH-HHHHHHHHH-CCCCeEEEeccCCC------cCHHHHHHHHHHcCC
Confidence 489999 667777776 48887777765433 567788777777774
No 238
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=24.42 E-value=1.3e+02 Score=20.65 Aligned_cols=24 Identities=8% Similarity=0.178 Sum_probs=20.3
Q ss_pred ecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 37 DLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 37 d~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
=+.+|+++|+|.-+++++.+++++
T Consensus 144 IF~sGkivitGaks~~~~~~a~~~ 167 (174)
T cd04517 144 IFSTGSVTVTGARSMEDVREAVEK 167 (174)
T ss_pred EeCCCEEEEEecCCHHHHHHHHHH
Confidence 457899999999888888888875
No 239
>smart00362 RRM_2 RNA recognition motif.
Probab=24.29 E-value=1.1e+02 Score=15.51 Aligned_cols=53 Identities=9% Similarity=0.043 Sum_probs=37.8
Q ss_pred EEEeecccHhHHHHHHHHHhccCCccEEEEecCC----CEEEEEEeCCHHHHHHHHHh
Q 036889 7 LKMMTMNDEKTKQKAIEAAADIYGVDSITADLKE----QKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 7 lkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~----~~vtV~g~vd~~~l~~~l~k 60 (86)
+.|.++...-....|+..+...-.|..+.+-... +...|... ++.....+++.
T Consensus 2 v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~-~~~~a~~a~~~ 58 (72)
T smart00362 2 LFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFE-SEEDAEKAIEA 58 (72)
T ss_pred EEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeC-CHHHHHHHHHH
Confidence 3456777777888999999998889888887765 66666664 44555555554
No 240
>PRK09989 hypothetical protein; Provisional
Probab=24.25 E-value=61 Score=22.73 Aligned_cols=27 Identities=7% Similarity=0.161 Sum_probs=21.9
Q ss_pred EeCCHHHHHHHHHhhCCeEEEEcCCCC
Q 036889 47 GDMDAVAIAKKLKKIGKIEIVSVGPAK 73 (86)
Q Consensus 47 g~vd~~~l~~~l~k~G~a~ivsv~~~~ 73 (86)
|.+|-..++++|++.||.-.++++..+
T Consensus 217 G~id~~~i~~al~~~Gy~g~is~E~~~ 243 (258)
T PRK09989 217 GEINYPWLFRLFDEVGYQGWIGCEYKP 243 (258)
T ss_pred CCcCHHHHHHHHHHcCCCeEEEEEEee
Confidence 569999999999999986566776554
No 241
>PRK10853 putative reductase; Provisional
Probab=24.23 E-value=2e+02 Score=18.27 Aligned_cols=48 Identities=17% Similarity=0.206 Sum_probs=33.7
Q ss_pred EEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 6 VLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 6 vlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
+|-. -+|..| ++..+.|.. .|+.--.+|+.++- .+.++|..-+.+.|.
T Consensus 4 iy~~--~~C~t~-rkA~~~L~~-~~i~~~~~d~~k~p------~s~~eL~~~l~~~g~ 51 (118)
T PRK10853 4 LYGI--KNCDTI-KKARRWLEA-QGIDYRFHDYRVDG------LDSELLQGFIDELGW 51 (118)
T ss_pred EEcC--CCCHHH-HHHHHHHHH-cCCCcEEeehccCC------cCHHHHHHHHHHcCH
Confidence 4444 489999 677788876 48888777765433 567777777777663
No 242
>PF01106 NifU: NifU-like domain; InterPro: IPR001075 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 entry represents the C-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal (IPR002871 from INTERPRO) and a C-terminal domain []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 2JNV_A 2Z51_A 1TH5_A 1VEH_A 1XHJ_A.
Probab=24.12 E-value=1.5e+02 Score=16.98 Aligned_cols=30 Identities=13% Similarity=0.088 Sum_probs=15.7
Q ss_pred EEEEEEeecccHhHH-------HHHHHHHh-ccCCccEE
Q 036889 4 MVVLKMMTMNDEKTK-------QKAIEAAA-DIYGVDSI 34 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~-------~kI~kal~-~l~GV~~v 34 (86)
++.++.. =.|.+|. ..|++.|. .++.+..|
T Consensus 28 ~V~V~l~-GaC~gC~~s~~Tl~~~Ie~~L~~~~~~v~~V 65 (68)
T PF01106_consen 28 VVYVRLT-GACSGCPSSDMTLKQGIEQALREAVPEVKRV 65 (68)
T ss_dssp EEEEEEE-SSCCSSCCHHHHHHHHHHHHHHHHSTT-SEE
T ss_pred EEEEEEE-eCCCCCCCHHHHHHHHHHHHHHHHCCCCceE
Confidence 3556664 3688882 44455454 55555544
No 243
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=24.02 E-value=1.3e+02 Score=21.07 Aligned_cols=22 Identities=9% Similarity=0.223 Sum_probs=19.6
Q ss_pred CCCEEEEEEeCCHHHHHHHHHh
Q 036889 39 KEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 39 ~~~~vtV~g~vd~~~l~~~l~k 60 (86)
+++++++.|.+++.+|.+.|++
T Consensus 72 ~~~~~ii~G~~~~~~i~~~l~~ 93 (201)
T PRK12336 72 EGGRAVFNGKFTEEDIQAAIDA 93 (201)
T ss_pred cCCEEEEEeeeCHHHHHHHHHH
Confidence 3589999999999999999986
No 244
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=23.89 E-value=1.8e+02 Score=17.74 Aligned_cols=48 Identities=19% Similarity=0.304 Sum_probs=31.0
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC--CeEEE
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG--KIEIV 67 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G--~a~iv 67 (86)
-+|..| +++.+.|.. .|+.--.+|..+.. ++..+|..-+...| ..+++
T Consensus 4 ~~C~t~-rka~~~L~~-~gi~~~~~d~~k~p------~s~~el~~~l~~~~~~~~~li 53 (110)
T PF03960_consen 4 PNCSTC-RKALKWLEE-NGIEYEFIDYKKEP------LSREELRELLSKLGNGPDDLI 53 (110)
T ss_dssp TT-HHH-HHHHHHHHH-TT--EEEEETTTS---------HHHHHHHHHHHTSSGGGGB
T ss_pred CCCHHH-HHHHHHHHH-cCCCeEeehhhhCC------CCHHHHHHHHHHhcccHHHHh
Confidence 379999 777788877 48888788887654 56788888888877 34444
No 245
>PRK14114 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=23.64 E-value=1.8e+02 Score=20.77 Aligned_cols=33 Identities=30% Similarity=0.502 Sum_probs=25.4
Q ss_pred EEEEecCCCEEEEEE-----eCCHHHHHHHHHhhCCeE
Q 036889 33 SITADLKEQKLIIIG-----DMDAVAIAKKLKKIGKIE 65 (86)
Q Consensus 33 ~v~vd~~~~~vtV~g-----~vd~~~l~~~l~k~G~a~ 65 (86)
-+.+|...+++-+.| ..++.++++.+.+.|..+
T Consensus 123 vvslD~k~g~v~~~gw~~~~~~~~~e~~~~~~~~g~~~ 160 (241)
T PRK14114 123 VFSLDTRGGKVAFKGWLAEEEIDPVSLLKRLKEYGLEE 160 (241)
T ss_pred EEEEEccCCEEeeCCCeecCCCCHHHHHHHHHhcCCCE
Confidence 467788888888776 278999999999887533
No 246
>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=23.60 E-value=1.5e+02 Score=16.71 Aligned_cols=48 Identities=8% Similarity=0.029 Sum_probs=34.3
Q ss_pred EEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEE--eCCHHHHHHHHHhhCCe
Q 036889 8 KMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIG--DMDAVAIAKKLKKIGKI 64 (86)
Q Consensus 8 kV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g--~vd~~~l~~~l~k~G~a 64 (86)
.+.|..|+.=.-.++++|.+++-= +.+.|.. .....+|....++.||.
T Consensus 3 D~~G~~CP~P~i~~k~~l~~l~~G---------~~l~V~~dd~~s~~di~~~~~~~g~~ 52 (69)
T cd03423 3 DTRGLRCPEPVMMLHKKVRKMKPG---------DTLLVLATDPSTTRDIPKFCTFLGHE 52 (69)
T ss_pred cccCCcCCHHHHHHHHHHHcCCCC---------CEEEEEeCCCchHHHHHHHHHHcCCE
Confidence 345788999888999999988621 2333333 26677888888999984
No 247
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=23.46 E-value=2e+02 Score=20.33 Aligned_cols=41 Identities=17% Similarity=0.289 Sum_probs=28.0
Q ss_pred HHHHHHhccCCcc----EEEEecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 20 KAIEAAADIYGVD----SITADLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 20 kI~kal~~l~GV~----~v~vd~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
.+-..|++++|.. .|.=++=.+.|||.|=+.-.+|+++|+.
T Consensus 114 ~~~~~l~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~ 158 (204)
T PF04459_consen 114 PLVEKLNRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKG 158 (204)
T ss_pred HHHHHHhccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCc
Confidence 3344444556643 2222445689999999999999999985
No 248
>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=23.37 E-value=1.5e+02 Score=16.70 Aligned_cols=21 Identities=24% Similarity=0.324 Sum_probs=18.0
Q ss_pred cCCccEEEEecCCCEEEEEEe
Q 036889 28 IYGVDSITADLKEQKLIIIGD 48 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~ 48 (86)
-.++.+--+|+.+|+|+|+.+
T Consensus 22 ~~~~~~WyvD~~tn~VVV~a~ 42 (62)
T PF02983_consen 22 PVAVTSWYVDPRTNKVVVTAD 42 (62)
T ss_dssp GGCEEEEEEECCCTEEEEEEE
T ss_pred CCCcceEEEeCCCCeEEEEEC
Confidence 347888999999999999865
No 249
>PRK12699 flgH flagellar basal body L-ring protein; Reviewed
Probab=23.20 E-value=55 Score=23.99 Aligned_cols=28 Identities=11% Similarity=0.266 Sum_probs=24.6
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
+.|=..+.++.+.+.+.+.|-+.|.+|-
T Consensus 178 I~GeK~i~vN~~~e~IrlsGvVRP~DI~ 205 (246)
T PRK12699 178 VSGEKQIGINQGHEFIRLSGVINPINVI 205 (246)
T ss_pred EEEEEEEEECCCeEEEEEEEEEChhhcc
Confidence 5677889999999999999999999884
No 250
>cd02976 NrdH NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase activity that is dependent on TRX reductase, not glutathione (GSH). It is part of the NrdHIEF operon, where NrdEF codes for class Ib ribonucleotide reductase (RNR-Ib), an efficient enzyme at low oxygen levels. Under these conditions when GSH is mostly conjugated to spermidine, NrdH can still function and act as a hydrogen donor for RNR-Ib. It has been suggested that the NrdHEF system may be the oldest RNR reducing system, capable of functioning in a microaerophilic environment, where GSH was not yet available. NrdH from Corynebacterium ammoniagenes can form domain-swapped dimers, although it is unknown if this happens in vivo. Domain-swapped dimerization, which results in the blocking of the TRX reductase binding site, cou
Probab=23.10 E-value=1.3e+02 Score=15.82 Aligned_cols=25 Identities=8% Similarity=0.002 Sum_probs=16.3
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEec
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~ 38 (86)
-.|+.| .+++..|... |+.-..++.
T Consensus 8 ~~c~~c-~~~~~~l~~~-~i~~~~~~i 32 (73)
T cd02976 8 PDCPYC-KATKRFLDER-GIPFEEVDV 32 (73)
T ss_pred CCChhH-HHHHHHHHHC-CCCeEEEeC
Confidence 469999 5677888764 665444443
No 251
>COG3870 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.02 E-value=1.8e+02 Score=18.77 Aligned_cols=26 Identities=27% Similarity=0.379 Sum_probs=19.1
Q ss_pred EEEeCCHHHHHHHHHhhCC--eEEEEcC
Q 036889 45 IIGDMDAVAIAKKLKKIGK--IEIVSVG 70 (86)
Q Consensus 45 V~g~vd~~~l~~~l~k~G~--a~ivsv~ 70 (86)
|.-+.|...|.++|++.|| +++.|-|
T Consensus 7 ivqd~da~~l~~~L~d~~fraTkLAsTG 34 (109)
T COG3870 7 IVQDQDANELEDALTDKNFRATKLASTG 34 (109)
T ss_pred EEecccHHHHHHHHHhCCceeEEeeccC
Confidence 3446889999999998887 4665543
No 252
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=22.98 E-value=55 Score=15.43 Aligned_cols=16 Identities=25% Similarity=0.438 Sum_probs=11.7
Q ss_pred EeCCHHHHHHHHH-hhC
Q 036889 47 GDMDAVAIAKKLK-KIG 62 (86)
Q Consensus 47 g~vd~~~l~~~l~-k~G 62 (86)
|.++..++...|+ ..|
T Consensus 15 G~I~~~el~~~l~~~lG 31 (31)
T PF13405_consen 15 GFIDFEELRAILRKSLG 31 (31)
T ss_dssp SEEEHHHHHHHHHHHTT
T ss_pred CcCcHHHHHHHHHHhcC
Confidence 4577888888888 455
No 253
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=22.79 E-value=39 Score=21.32 Aligned_cols=14 Identities=29% Similarity=0.207 Sum_probs=10.6
Q ss_pred cccHhHHHHHHHHH
Q 036889 12 MNDEKTKQKAIEAA 25 (86)
Q Consensus 12 m~C~~C~~kI~kal 25 (86)
|-|+.|..++.+.+
T Consensus 1 MVC~kCEkKLskvi 14 (100)
T KOG3476|consen 1 MVCEKCEKKLSKVI 14 (100)
T ss_pred CchhHHHHHhcccc
Confidence 67999987766554
No 254
>PRK12700 flgH flagellar basal body L-ring protein; Reviewed
Probab=22.79 E-value=58 Score=23.57 Aligned_cols=28 Identities=21% Similarity=0.267 Sum_probs=24.0
Q ss_pred cCCccEEEEecCCCEEEEEEeCCHHHHH
Q 036889 28 IYGVDSITADLKEQKLIIIGDMDAVAIA 55 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g~vd~~~l~ 55 (86)
+.|=..|.++.+.+.+.+.|-+.|.+|-
T Consensus 161 I~GeK~i~vN~~~e~irlsGiVRP~DI~ 188 (230)
T PRK12700 161 IAGEKQIAINRGSEYVRFSGVVDPRSIT 188 (230)
T ss_pred EEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 5677789999999999999998888874
No 255
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=22.61 E-value=1.5e+02 Score=25.81 Aligned_cols=45 Identities=13% Similarity=0.099 Sum_probs=34.9
Q ss_pred hHHHHHHHHHhccCC-ccEEEEecCC--CEEEEEE--------eCCHHHHHHHHHh
Q 036889 16 KTKQKAIEAAADIYG-VDSITADLKE--QKLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 16 ~C~~kI~kal~~l~G-V~~v~vd~~~--~~vtV~g--------~vd~~~l~~~l~k 60 (86)
.=.+.++..|.+++| +.++..|... .++.|.- .+++.++.++|+-
T Consensus 697 ~~a~~l~~~l~~~~g~~~~v~~~~~~~~~~i~i~vd~~~~~~~Gls~~~v~~~l~~ 752 (1049)
T PRK15127 697 QARNQLLGEAAKHPDMLVGVRPNGLEDTPQFKIDIDQEKAQALGVSISDINTTLGA 752 (1049)
T ss_pred HHHHHHHHHHHhCCCceeeeecCccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 357889999999999 8999887755 4455542 3888999999984
No 256
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=22.57 E-value=3.2e+02 Score=24.04 Aligned_cols=44 Identities=11% Similarity=0.218 Sum_probs=29.8
Q ss_pred HHHHHHHHHhccCCccEEEEec--CCCEEEEEEe--CCHH----HHHHHHHh
Q 036889 17 TKQKAIEAAADIYGVDSITADL--KEQKLIIIGD--MDAV----AIAKKLKK 60 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~--~~~~vtV~g~--vd~~----~l~~~l~k 60 (86)
=.+.|+++|+.++|++.++=.- ....++|+.+ .|++ ++.+++..
T Consensus 62 Vt~piE~~l~~i~gi~~i~S~S~~G~s~itv~F~~~~d~d~A~~~V~~kv~~ 113 (1009)
T COG0841 62 VTQPIEQQLNGLDGLDYMSSTSSSGSSSITVTFELGTDPDTAAVQVQNKIQQ 113 (1009)
T ss_pred HhHHHHHHHhcCCCccEEEEEEcCCcEEEEEEEeCCCChHHHHHHHHHHHHH
Confidence 3467899999999998775433 3345666664 6666 56666654
No 257
>PRK13726 conjugal transfer pilus assembly protein TraE; Provisional
Probab=22.47 E-value=1.1e+02 Score=21.39 Aligned_cols=18 Identities=17% Similarity=0.003 Sum_probs=15.4
Q ss_pred ccEEEEecCCCEEEEEEe
Q 036889 31 VDSITADLKEQKLIIIGD 48 (86)
Q Consensus 31 V~~v~vd~~~~~vtV~g~ 48 (86)
+.++.+|++++++.|.|.
T Consensus 130 ~~~i~v~~~~~~V~V~Gt 147 (188)
T PRK13726 130 QTSVRVWPQYGRVDIRGV 147 (188)
T ss_pred eeeEEEccCCCEEEEEEE
Confidence 456889999999999995
No 258
>PF12156 ATPase-cat_bd: Putative metal-binding domain of cation transport ATPase; InterPro: IPR021993 This domain is found in bacteria, and is approximately 90 amino acids in length. It is found associated with PF00403 from PFAM, PF00122 from PFAM, PF00702 from PFAM. The cysteine-rich nature and composition suggest this might be a cation-binding domain; most members are annotated as being cation transport ATPases.
Probab=22.30 E-value=68 Score=19.51 Aligned_cols=21 Identities=14% Similarity=0.135 Sum_probs=14.5
Q ss_pred ecccHhHHHHHHHHHhccCCccE
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDS 33 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~ 33 (86)
.|+|.|| ..|-..|... |-.+
T Consensus 26 ~FCC~GC-~~V~~~i~~~-gL~~ 46 (88)
T PF12156_consen 26 PFCCPGC-QAVYQLIHEN-GLES 46 (88)
T ss_pred ccccHHH-HHHHHHHHHc-chHH
Confidence 3899999 6677777653 5443
No 259
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=21.96 E-value=2.5e+02 Score=18.69 Aligned_cols=51 Identities=14% Similarity=0.136 Sum_probs=32.6
Q ss_pred EEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCCeEEEEc
Q 036889 5 VVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGKIEIVSV 69 (86)
Q Consensus 5 vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a~ivsv 69 (86)
.+|-+....|.-|...|..+ ||..|-+.. .+-++..-.+.|++.|. ++..+
T Consensus 88 ~tlYvT~ePC~~Ca~ai~~a-----gI~~Vvy~~--------~~~~~~~~~~~l~~~gi-~v~~~ 138 (151)
T TIGR02571 88 AEIYVTHFPCLQCTKSIIQA-----GIKKIYYAQ--------DYHNHPYAIELFEQAGV-ELKKV 138 (151)
T ss_pred cEEEEeCCCcHHHHHHHHHh-----CCCEEEEcc--------CCCCcHHHHHHHHHCCC-EEEEe
Confidence 35666667899999988865 888875531 11222345678888994 34444
No 260
>PF06727 DUF1207: Protein of unknown function (DUF1207); InterPro: IPR009599 This family consists of a number of hypothetical bacterial proteins of around 410 residues in length, which seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=21.94 E-value=84 Score=24.16 Aligned_cols=22 Identities=23% Similarity=0.247 Sum_probs=19.3
Q ss_pred HHHHHHHhccCCccEEEEecCC
Q 036889 19 QKAIEAAADIYGVDSITADLKE 40 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~vd~~~ 40 (86)
.+|...|+.++||.+|++.-..
T Consensus 30 ~~~~~~~~~~p~~~~v~~~~~~ 51 (338)
T PF06727_consen 30 AKIVQFLKEIPGVTSVEICEET 51 (338)
T ss_pred HHHHHHHHhCCCcceEEeeecc
Confidence 7899999999999999987533
No 261
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=21.93 E-value=83 Score=18.84 Aligned_cols=20 Identities=20% Similarity=0.052 Sum_probs=16.6
Q ss_pred eecccHhHHHHHHHHHhccC
Q 036889 10 MTMNDEKTKQKAIEAAADIY 29 (86)
Q Consensus 10 ~~m~C~~C~~kI~kal~~l~ 29 (86)
+.|.|..|....++++++-.
T Consensus 14 ~tLPC~~Cr~HA~~ai~kNN 33 (70)
T PF04805_consen 14 STLPCPECRIHAKEAIQKNN 33 (70)
T ss_pred hcCCCHHHHHHHHHHHHhcC
Confidence 35789999999999998753
No 262
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=21.92 E-value=2.3e+02 Score=20.14 Aligned_cols=40 Identities=23% Similarity=0.235 Sum_probs=29.7
Q ss_pred HHHHHHHhccCCccEEEEecCCCEEEEEEe---CCHHHHHHHHH
Q 036889 19 QKAIEAAADIYGVDSITADLKEQKLIIIGD---MDAVAIAKKLK 59 (86)
Q Consensus 19 ~kI~kal~~l~GV~~v~vd~~~~~vtV~g~---vd~~~l~~~l~ 59 (86)
..+.+.|....|+ .+.+|.+++.|+|..+ .||..+.++..
T Consensus 27 g~v~k~ie~~~~~-~~~iD~~~~~V~i~~~~~t~Dp~~~~ka~d 69 (194)
T COG1094 27 GEVKKAIEEKTGV-KLRIDSKTGSVTIRTTRKTEDPLALLKARD 69 (194)
T ss_pred ccchHHHHhhcCe-EEEEECCCCeEEEEecCCCCChHHHHHHHH
Confidence 4566777776554 5799999999999875 68877766643
No 263
>cd04920 ACT_AKiii-DAPDC_2 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC). This CD includes the second of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.91 E-value=1.6e+02 Score=16.25 Aligned_cols=47 Identities=11% Similarity=0.080 Sum_probs=31.3
Q ss_pred ec-ccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 11 TM-NDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 11 ~m-~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
|| ...+...++.++|... ||.-+.....+-.+++. +|.++..++++.
T Consensus 9 g~~~~~gv~~~~~~~L~~~-~i~~i~~~~s~~~is~v--v~~~d~~~av~~ 56 (63)
T cd04920 9 GIRSLLHKLGPALEVFGKK-PVHLVSQAANDLNLTFV--VDEDQADGLCAR 56 (63)
T ss_pred CcccCccHHHHHHHHHhcC-CceEEEEeCCCCeEEEE--EeHHHHHHHHHH
Confidence 44 6788899999999884 78887777655555443 455555554443
No 264
>COG4545 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=21.78 E-value=70 Score=19.76 Aligned_cols=25 Identities=8% Similarity=-0.140 Sum_probs=15.7
Q ss_pred CceEEEEEEeecccHhHHHHHHHHHhcc
Q 036889 1 MARMVVLKMMTMNDEKTKQKAIEAAADI 28 (86)
Q Consensus 1 M~~~vvlkV~~m~C~~C~~kI~kal~~l 28 (86)
|+++ +|-- .++|+.|+-.+. -|.++
T Consensus 1 mskp-~lfg-sn~Cpdca~a~e-yl~rl 25 (85)
T COG4545 1 MSKP-KLFG-SNLCPDCAPAVE-YLERL 25 (85)
T ss_pred CCCc-eeec-cccCcchHHHHH-HHHHc
Confidence 5555 4444 489999976654 34454
No 265
>cd03034 ArsC_ArsC Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the detoxification of arsenic, using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX). ArsC contains a single catalytic cysteine, within a thioredoxin fold, that forms a covalent thiolate-As(V) intermediate, which is reduced by GRX through a mixed GSH-arsenate intermediate. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases.
Probab=21.42 E-value=2.2e+02 Score=17.67 Aligned_cols=43 Identities=16% Similarity=0.273 Sum_probs=30.1
Q ss_pred cccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 12 MNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 12 m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
-+|..| +++.+.|... |+.-..+|..+.. .+..+|..-+...|
T Consensus 7 ~~C~t~-rkA~~~L~~~-~i~~~~~di~~~~------~t~~el~~~l~~~~ 49 (112)
T cd03034 7 PRCSKS-RNALALLEEA-GIEPEIVEYLKTP------PTAAELRELLAKLG 49 (112)
T ss_pred CCCHHH-HHHHHHHHHC-CCCeEEEecccCC------cCHHHHHHHHHHcC
Confidence 489999 4556777664 7777777765433 56778877777776
No 266
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=21.34 E-value=1.4e+02 Score=23.64 Aligned_cols=36 Identities=11% Similarity=0.130 Sum_probs=29.7
Q ss_pred cCCccEE-EEecCCCEEEEEEeCCHHHHHHHHHhhCC
Q 036889 28 IYGVDSI-TADLKEQKLIIIGDMDAVAIAKKLKKIGK 63 (86)
Q Consensus 28 l~GV~~v-~vd~~~~~vtV~g~vd~~~l~~~l~k~G~ 63 (86)
+..-.++ ++|.+++.++|..-+.-.+|.++|.+.|+
T Consensus 106 l~~ln~I~~id~~~~~v~VeaGv~~~~L~~~l~~~Gl 142 (499)
T PRK11230 106 MARFNRILDINPVGRRARVQPGVRNLAISQAAAPHGL 142 (499)
T ss_pred cccCCCceEEcCCCCEEEEcCCccHHHHHHHHHHcCC
Confidence 3344554 78888999999988999999999999996
No 267
>PF15169 DUF4564: Domain of unknown function (DUF4564)
Probab=21.24 E-value=2.9e+02 Score=19.57 Aligned_cols=43 Identities=16% Similarity=0.117 Sum_probs=30.2
Q ss_pred HHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhCCeEEE
Q 036889 24 AAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIGKIEIV 67 (86)
Q Consensus 24 al~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G~a~iv 67 (86)
++++++-=+.+.+|..+++|++.+ .+.-+++..+.+.|+..+|
T Consensus 59 a~~n~edwee~iFdK~kg~V~lk~-~nl~~~il~~~~~g~~~vV 101 (187)
T PF15169_consen 59 ALQNMEDWEEAIFDKSKGKVTLKY-FNLYEKILTLWKQGHEQVV 101 (187)
T ss_pred HHhcchhhhheeEeccCCEEEEEe-eeHHHHHHHHhhcCCCeEE
Confidence 456666666789999999999987 4555666666667764443
No 268
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=21.19 E-value=3.1e+02 Score=22.05 Aligned_cols=52 Identities=15% Similarity=0.225 Sum_probs=37.0
Q ss_pred HHHHHHHHhccCCccEEEEecC-CCEEEEE--EeCCHHHHHHHHHhhCCeEEEEcC
Q 036889 18 KQKAIEAAADIYGVDSITADLK-EQKLIII--GDMDAVAIAKKLKKIGKIEIVSVG 70 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~-~~~vtV~--g~vd~~~l~~~l~k~G~a~ivsv~ 70 (86)
..-|++++..+ ||....+-.. ++++.|. |.-|++++.+.|-+++.-++..+.
T Consensus 128 ~~ii~~Rvd~~-Gv~e~~i~~~G~~rI~V~lPG~~d~~~~~~~ig~ta~L~f~~v~ 182 (498)
T PRK05812 128 IEIIRNRVNEL-GVAEPVIQRQGADRIVVELPGVQDTARAKEILGKTATLEFRLVD 182 (498)
T ss_pred HHHHHHHhhhc-CCcCceEEEeCCCeEEEECCCCCCHHHHHHHhcCceEEEEEEcc
Confidence 34566777665 8998777665 4688888 446999999888888864444443
No 269
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=21.07 E-value=3.1e+02 Score=21.21 Aligned_cols=51 Identities=14% Similarity=0.164 Sum_probs=36.4
Q ss_pred HHHHHHHHhccCCccEEEEecCC-CEEEEE--EeCCHHHHHHHHHhhCCeEEEEc
Q 036889 18 KQKAIEAAADIYGVDSITADLKE-QKLIII--GDMDAVAIAKKLKKIGKIEIVSV 69 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~~~-~~vtV~--g~vd~~~l~~~l~k~G~a~ivsv 69 (86)
..-+++++..+ ||....+-... +++.|. |--|++++.+-|-+++.-++..+
T Consensus 42 ~~ii~~Rv~~~-Gv~e~~i~~~G~~~I~V~lPg~~d~~~~~~~lg~~a~l~f~~~ 95 (397)
T TIGR01129 42 ITILRNRVNAL-GVSEPVVQRQGKDRIVVELPGVTDTSRAKDILGGTATLEFRLV 95 (397)
T ss_pred HHHHHHHHhhc-CCCCcEEEEeCCceEEEECCCCCCHHHHHHHhCCceEEEEEEe
Confidence 45566777765 89987775544 688888 44799999998888886444443
No 270
>PRK09997 hydroxypyruvate isomerase; Provisional
Probab=21.00 E-value=89 Score=21.87 Aligned_cols=25 Identities=12% Similarity=0.058 Sum_probs=19.6
Q ss_pred EeCCHHHHHHHHHhhCCeEEEEcCC
Q 036889 47 GDMDAVAIAKKLKKIGKIEIVSVGP 71 (86)
Q Consensus 47 g~vd~~~l~~~l~k~G~a~ivsv~~ 71 (86)
|.+|-..++++|++.||.-.++++-
T Consensus 217 G~id~~~i~~aL~~~Gy~G~~~~E~ 241 (258)
T PRK09997 217 GEINYDYLFKVIENSDYNGWVGCEY 241 (258)
T ss_pred CcCCHHHHHHHHHHhCCCeEEEEEE
Confidence 6699999999999999854455543
No 271
>PRK13674 putative GTP cyclohydrolase; Provisional
Probab=20.98 E-value=1.1e+02 Score=22.57 Aligned_cols=29 Identities=10% Similarity=0.123 Sum_probs=24.9
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecC
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLK 39 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~ 39 (86)
.|.|+.|++.|..+|...+++..+.|...
T Consensus 221 p~FVED~vR~ia~~L~~~~~~~~f~V~~e 249 (271)
T PRK13674 221 PMFVEDAARRVAAALEADPRISAFRVEVE 249 (271)
T ss_pred CccHHHHHHHHHHHHhcCCCcceEEEEEE
Confidence 48899999999999999999888776543
No 272
>PF09883 DUF2110: Uncharacterized protein conserved in archaea (DUF2110); InterPro: IPR016757 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.98 E-value=1.4e+02 Score=21.82 Aligned_cols=29 Identities=21% Similarity=0.363 Sum_probs=22.7
Q ss_pred CCEEEEEEeCCHHHHHHHHHhhCC-eEEEEc
Q 036889 40 EQKLIIIGDMDAVAIAKKLKKIGK-IEIVSV 69 (86)
Q Consensus 40 ~~~vtV~g~vd~~~l~~~l~k~G~-a~ivsv 69 (86)
.+++.|.| +...++.++|.++|| -+|+.+
T Consensus 160 ~drl~Vns-atr~ev~~alnrtGH~rDi~~v 189 (225)
T PF09883_consen 160 TDRLNVNS-ATRSEVRAALNRTGHARDIVTV 189 (225)
T ss_pred CCeEEEec-ccHHHHHHHHHhcccccceehh
Confidence 56777777 667799999999998 466655
No 273
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=20.97 E-value=88 Score=21.71 Aligned_cols=25 Identities=16% Similarity=0.211 Sum_probs=20.2
Q ss_pred EeCCHHHHHHHHHhhCCeEEEEcCC
Q 036889 47 GDMDAVAIAKKLKKIGKIEIVSVGP 71 (86)
Q Consensus 47 g~vd~~~l~~~l~k~G~a~ivsv~~ 71 (86)
|.+|-..++++|++.||.-.++++-
T Consensus 216 G~id~~~il~~L~~~gy~g~~~~E~ 240 (254)
T TIGR03234 216 GEINYRFLFAVLDRLGYDGWVGLEY 240 (254)
T ss_pred CccCHHHHHHHHHHCCCCceEEEEE
Confidence 6699999999999999865556653
No 274
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.81 E-value=1.6e+02 Score=16.07 Aligned_cols=19 Identities=11% Similarity=0.204 Sum_probs=12.5
Q ss_pred HHHHHHHHhccCCccEEEE
Q 036889 18 KQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~v 36 (86)
...|...|.+++||...++
T Consensus 54 l~~i~~~L~~i~gV~~~~~ 72 (74)
T cd04887 54 AETIVAAVRALPEVKVLSV 72 (74)
T ss_pred HHHHHHHHhcCCCeEEEEe
Confidence 3567777777777765544
No 275
>PF12182 DUF3642: Bacterial lipoprotein; InterPro: IPR020961 This region is found in proteins which are major virulence factors from Gram-negative bacteria and is approximately 60 amino acids in length. There is a single completely conserved Y residue that may be functionally important.; PDB: 3GE2_A.
Probab=20.76 E-value=1.3e+02 Score=18.39 Aligned_cols=15 Identities=40% Similarity=0.680 Sum_probs=13.1
Q ss_pred ccEEEEecCCCEEEE
Q 036889 31 VDSITADLKEQKLII 45 (86)
Q Consensus 31 V~~v~vd~~~~~vtV 45 (86)
+..|.+|+.+++++|
T Consensus 42 ~~~V~~d~~nq~l~I 56 (79)
T PF12182_consen 42 IKQVTIDLANQRLTI 56 (79)
T ss_dssp EEEEEEETTTTEEEE
T ss_pred eeEEEEeccCCEEEE
Confidence 456999999999998
No 276
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=20.72 E-value=3.6e+02 Score=20.11 Aligned_cols=27 Identities=22% Similarity=0.342 Sum_probs=17.7
Q ss_pred EEEEEEeCCHHHHHHHHHhhCCeEEEEcC
Q 036889 42 KLIIIGDMDAVAIAKKLKKIGKIEIVSVG 70 (86)
Q Consensus 42 ~vtV~g~vd~~~l~~~l~k~G~a~ivsv~ 70 (86)
.+.+.|.++++.+.+ +.++| ++++|++
T Consensus 248 ~ieaSGGI~~~ni~~-yA~tG-vD~Is~g 274 (289)
T PRK07896 248 LLESSGGLTLDTAAA-YAETG-VDYLAVG 274 (289)
T ss_pred EEEEECCCCHHHHHH-HHhcC-CCEEEeC
Confidence 466678888888754 46677 3455554
No 277
>PF06998 DUF1307: Protein of unknown function (DUF1307); InterPro: IPR009736 This entry is represented by Bacteriophage VT1-Sakai, YehR. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial proteins of around 150 residues in length. Some family members are described as putative lipoproteins but the function of the family is unknown.; PDB: 2JOE_A.
Probab=20.70 E-value=1.2e+02 Score=19.34 Aligned_cols=37 Identities=16% Similarity=0.173 Sum_probs=20.0
Q ss_pred HHHHHHHHHhccCCccEEEEecCCCEEEEEEe-----CCHHHH
Q 036889 17 TKQKAIEAAADIYGVDSITADLKEQKLIIIGD-----MDAVAI 54 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~-----vd~~~l 54 (86)
+.....+....+.||+. +++..+++++.+-+ +|.+.|
T Consensus 50 ~~~~~~~~yk~ikGv~~-~~e~kd~k~ve~i~IDy~k~D~~~l 91 (123)
T PF06998_consen 50 QIKPQSKKYKGIKGVTY-KVEYKDDKVVETIEIDYTKADFDKL 91 (123)
T ss_dssp HHHHHHTTTTTSSS-EE-EEEE-SSEEEEEEEEETTS--HHHH
T ss_pred HHHHHHHhhcCCCCeEE-EEEEeCCEEEEEEEEecccCCHHHH
Confidence 44445555667777764 66777777766543 566555
No 278
>PRK09577 multidrug efflux protein; Reviewed
Probab=20.69 E-value=1.8e+02 Score=25.21 Aligned_cols=44 Identities=9% Similarity=0.060 Sum_probs=34.3
Q ss_pred HHHHHHHHHhccCCccEEEEecCCC--EEEEEE--------eCCHHHHHHHHHh
Q 036889 17 TKQKAIEAAADIYGVDSITADLKEQ--KLIIIG--------DMDAVAIAKKLKK 60 (86)
Q Consensus 17 C~~kI~kal~~l~GV~~v~vd~~~~--~vtV~g--------~vd~~~l~~~l~k 60 (86)
=...++..|.+++|+.++..|...+ ++.|.- .+++.+|...|+-
T Consensus 693 ~a~~l~~~l~~~~g~~~v~~~~~~~~~~~~i~~d~~~a~~~Gls~~~i~~~l~~ 746 (1032)
T PRK09577 693 AREQLLAEGAKDPALTDLMFAGTQDAPQLKLDIDRAKASALGVSMDEINTTLAV 746 (1032)
T ss_pred HHHHHHHHHhcCCCeEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 4567889999999999998887665 455552 2888899999985
No 279
>PF11210 DUF2996: Protein of unknown function (DUF2996); InterPro: IPR021374 This family of proteins has no known function.
Probab=20.50 E-value=69 Score=21.12 Aligned_cols=27 Identities=19% Similarity=0.331 Sum_probs=21.4
Q ss_pred HHHHHHhccCCccEEEEecCCCEEEEEE
Q 036889 20 KAIEAAADIYGVDSITADLKEQKLIIIG 47 (86)
Q Consensus 20 kI~kal~~l~GV~~v~vd~~~~~vtV~g 47 (86)
.++++|.+- |+..+++++.++..-|.|
T Consensus 18 aL~~~l~~~-Gi~d~~L~f~~~~~pi~g 44 (119)
T PF11210_consen 18 ALKKALEKE-GISDVELSFEKNKRPIVG 44 (119)
T ss_pred HHHHHHHHc-CCCcceEEeccCCccccC
Confidence 577888875 999999999999654443
No 280
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=20.40 E-value=1.8e+02 Score=16.24 Aligned_cols=49 Identities=14% Similarity=0.189 Sum_probs=32.3
Q ss_pred ecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 11 TMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 11 ~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
+|...+...++..+|.. .|+.-.-+........+.--++..+..++++.
T Consensus 11 gm~~~gv~~ki~~~L~~-~~I~v~~i~~~~s~~~is~~V~~~~~~~av~~ 59 (66)
T cd04915 11 DLSTPGVLARGLAALAE-AGIEPIAAHQSMRNVDVQFVVDRDDYDNAIKA 59 (66)
T ss_pred CCCcchHHHHHHHHHHH-CCCCEEEEEecCCeeEEEEEEEHHHHHHHHHH
Confidence 56666788899999966 47777555555555666555555555555554
No 281
>PRK00394 transcription factor; Reviewed
Probab=20.35 E-value=1.6e+02 Score=20.23 Aligned_cols=24 Identities=25% Similarity=0.296 Sum_probs=18.5
Q ss_pred ecCCCEEEEEEeCCHHHHHHHHHh
Q 036889 37 DLKEQKLIIIGDMDAVAIAKKLKK 60 (86)
Q Consensus 37 d~~~~~vtV~g~vd~~~l~~~l~k 60 (86)
=+.+|+++++|--+.+++..++++
T Consensus 144 IF~SGKvvitGaks~~~~~~a~~~ 167 (179)
T PRK00394 144 LFGSGKLVITGAKSEEDAEKAVEK 167 (179)
T ss_pred EEcCCEEEEEecCCHHHHHHHHHH
Confidence 457899999998777777766654
No 282
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=20.34 E-value=2.1e+02 Score=21.03 Aligned_cols=46 Identities=24% Similarity=0.398 Sum_probs=33.2
Q ss_pred cCCccEEEEecCCCEEEEEE------eCCHHHHHHHHH-hh-CC---eEEEEcCCCC
Q 036889 28 IYGVDSITADLKEQKLIIIG------DMDAVAIAKKLK-KI-GK---IEIVSVGPAK 73 (86)
Q Consensus 28 l~GV~~v~vd~~~~~vtV~g------~vd~~~l~~~l~-k~-G~---a~ivsv~~~~ 73 (86)
.+....+.+|..++.+..+| .+|...|-.||| |- || ...+|.||+.
T Consensus 11 v~~~~~i~v~~~~~~~~~~gv~~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~~ 67 (260)
T COG2086 11 VDDESKIRVDPDTGTLDRSGVPLSINPFDLNAVEEALRLKEKGYGGEVTVLTMGPPQ 67 (260)
T ss_pred CCccceEEEecCCCccccCCCCcccChhhHHHHHHHHHhhccCCCceEEEEEecchh
Confidence 35566788888888888887 267777888887 53 55 4677778764
No 283
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=20.34 E-value=4.1e+02 Score=20.44 Aligned_cols=35 Identities=11% Similarity=0.274 Sum_probs=24.2
Q ss_pred hHHHHHHHHHhccCCccEEEEec--CCCEEEEEEeCCH
Q 036889 16 KTKQKAIEAAADIYGVDSITADL--KEQKLIIIGDMDA 51 (86)
Q Consensus 16 ~C~~kI~kal~~l~GV~~v~vd~--~~~~vtV~g~vd~ 51 (86)
.=.+.|+..|. ..|..++++.. ..+.+.|.|+++.
T Consensus 216 ~l~~~v~~iL~-~~G~~~v~v~~~~~pG~~~IsG~v~~ 252 (410)
T TIGR02500 216 ELRREVRDVLS-LMGYHDAEVSVGPEPGGLLISGYVAD 252 (410)
T ss_pred HHHHHHHHHHH-HcCccceEeecCCCCceEEEEEEecC
Confidence 34445666664 46888777764 6689999998654
No 284
>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=20.29 E-value=1.2e+02 Score=21.13 Aligned_cols=21 Identities=24% Similarity=0.267 Sum_probs=16.6
Q ss_pred HHHHHHHHhccCCccEEEEec
Q 036889 18 KQKAIEAAADIYGVDSITADL 38 (86)
Q Consensus 18 ~~kI~kal~~l~GV~~v~vd~ 38 (86)
...+.+.|.+++||.+..|.+
T Consensus 109 e~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 109 EQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHhcCCeeeeEEEE
Confidence 456788999999999877643
No 285
>TIGR01616 nitro_assoc nitrogenase-associated protein. This model describes a small family of uncharacterized proteins found so far in alpha and gamma proteobacteria and in Nostoc sp. PCC 7120, a cyanobacterium. The gene for this protein is associated with nitrogenase genes. This family shows sequence similarity to TIGR00014, a glutaredoxin-dependent arsenate reductase that converts arsentate to arsenite for disposal. This family is one of several included in Pfam model pfam03960.
Probab=20.24 E-value=2.6e+02 Score=18.06 Aligned_cols=50 Identities=10% Similarity=0.060 Sum_probs=33.7
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEEecCCCEEEEEEeCCHHHHHHHHHhhC
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITADLKEQKLIIIGDMDAVAIAKKLKKIG 62 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~vd~~~~~vtV~g~vd~~~l~~~l~k~G 62 (86)
+++|-- .-+|..| ++.++.|... ||.--.+|....- .+.++|..-+...|
T Consensus 2 ~i~iY~-~p~Cst~-RKA~~~L~~~-gi~~~~~d~~~~p------~t~~eL~~~l~~~g 51 (126)
T TIGR01616 2 TIIFYE-KPGCANN-ARQKAALKAS-GHDVEVQDILKEP------WHADTLRPYFGNKP 51 (126)
T ss_pred eEEEEe-CCCCHHH-HHHHHHHHHC-CCCcEEEeccCCC------cCHHHHHHHHHHcC
Confidence 344444 3589999 6777777764 8888777765433 56677777776665
No 286
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=20.22 E-value=2.7e+02 Score=18.26 Aligned_cols=33 Identities=9% Similarity=-0.096 Sum_probs=24.7
Q ss_pred EEEEEEeecccHhHHHHHHHHHhccCCccEEEE
Q 036889 4 MVVLKMMTMNDEKTKQKAIEAAADIYGVDSITA 36 (86)
Q Consensus 4 ~vvlkV~~m~C~~C~~kI~kal~~l~GV~~v~v 36 (86)
++.|-.+--.|+.|..-|..-....|+++--.+
T Consensus 98 ~i~l~te~~pC~SC~~vi~qF~~~~pni~~~v~ 130 (133)
T PF14424_consen 98 TIDLFTELPPCESCSNVIEQFKKDFPNIKVNVV 130 (133)
T ss_pred eEEEEecCCcChhHHHHHHHHHHHCCCcEEEEe
Confidence 345555556799999999999999988875443
No 287
>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=20.15 E-value=2.3e+02 Score=20.16 Aligned_cols=29 Identities=7% Similarity=0.137 Sum_probs=20.3
Q ss_pred cEEEEecCCCEEEEEEe--CC-HHHHHHHHHh
Q 036889 32 DSITADLKEQKLIIIGD--MD-AVAIAKKLKK 60 (86)
Q Consensus 32 ~~v~vd~~~~~vtV~g~--vd-~~~l~~~l~k 60 (86)
....||+++|.++|+.- -+ ...|.+||-.
T Consensus 88 tRa~VdFd~G~I~VETi~~~~p~~~Lk~AIv~ 119 (204)
T PF11873_consen 88 TRAHVDFDKGTITVETIAQTDPKAHLKQAIVT 119 (204)
T ss_pred eEEEEEeeCCeEEEEecCCcCHHHHHHHHHHH
Confidence 34689999999999974 33 4456666653
No 288
>PF12693 GspL_C: GspL periplasmic domain; PDB: 2W7V_A.
Probab=20.00 E-value=2.3e+02 Score=18.25 Aligned_cols=43 Identities=14% Similarity=0.098 Sum_probs=27.7
Q ss_pred HHHHHHhccCCc--cEEEEecCCCEEEEEEeC----CHHHHHHHHHhhCC
Q 036889 20 KAIEAAADIYGV--DSITADLKEQKLIIIGDM----DAVAIAKKLKKIGK 63 (86)
Q Consensus 20 kI~kal~~l~GV--~~v~vd~~~~~vtV~g~v----d~~~l~~~l~k~G~ 63 (86)
.+..++...+|+ .++.+|...+.+++.... +-+.+...|... +
T Consensus 86 ~l~~~~~~~~~~~l~~l~y~~~~~~L~l~~~a~~~~~le~l~~~l~~~-~ 134 (157)
T PF12693_consen 86 ALAPALQQVPGIQLQSLRYDAGRGELRLQLEAPSFQALEQLRAALAAQ-L 134 (157)
T ss_dssp GHHHHHHTSTT-EEEEEEEETTTTEEEEEEEESSSHHHHHHHHHHHTT-E
T ss_pred HHHHHhccCCCCceEEEEEcCCCcEEEEEeccCCHHHHHHHHHHHHhh-c
Confidence 345566677774 467778788889998652 334566666655 5
Done!