Query 048525
Match_columns 86
No_of_seqs 138 out of 752
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 10:16:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048525.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048525hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1603 Copper chaperone [Inor 99.8 5.1E-19 1.1E-23 107.1 8.0 67 1-69 4-71 (73)
2 PF00403 HMA: Heavy-metal-asso 99.5 3.4E-14 7.3E-19 82.3 7.1 58 5-64 1-62 (62)
3 COG2608 CopZ Copper chaperone 99.4 2.5E-12 5.4E-17 77.5 7.7 67 1-68 1-70 (71)
4 KOG4656 Copper chaperone for s 99.0 2.5E-09 5.5E-14 76.9 8.0 67 3-71 8-74 (247)
5 PLN02957 copper, zinc superoxi 98.6 2.9E-07 6.2E-12 66.4 8.9 71 2-74 6-76 (238)
6 PRK10671 copA copper exporting 98.5 3.5E-07 7.5E-12 75.3 7.5 65 1-69 2-67 (834)
7 TIGR00003 copper ion binding p 97.8 0.00046 1E-08 36.3 8.2 62 1-63 1-65 (68)
8 COG2217 ZntA Cation transport 97.6 0.00019 4.1E-09 59.2 7.0 65 1-67 1-69 (713)
9 PRK10671 copA copper exporting 97.1 0.0018 3.9E-08 53.7 7.2 64 3-68 100-164 (834)
10 KOG0207 Cation transport ATPas 96.7 0.0071 1.5E-07 51.3 7.0 68 2-70 146-216 (951)
11 KOG0207 Cation transport ATPas 96.2 0.0098 2.1E-07 50.5 5.3 63 9-72 2-65 (951)
12 PRK11033 zntA zinc/cadmium/mer 96.1 0.025 5.3E-07 46.7 7.1 62 3-66 54-117 (741)
13 PF01883 DUF59: Domain of unkn 90.1 0.62 1.3E-05 27.1 3.7 32 3-34 35-72 (72)
14 COG1888 Uncharacterized protei 89.8 1.2 2.6E-05 28.5 5.0 49 17-65 22-76 (97)
15 PF02680 DUF211: Uncharacteriz 89.2 0.88 1.9E-05 29.1 4.1 60 4-63 7-72 (95)
16 PF13732 DUF4162: Domain of un 87.5 3.7 8E-05 24.1 5.9 40 23-63 26-65 (84)
17 PRK13748 putative mercuric red 86.7 5.7 0.00012 31.2 8.1 66 4-70 2-69 (561)
18 TIGR02052 MerP mercuric transp 84.6 5.4 0.00012 22.5 8.5 62 3-65 24-88 (92)
19 cd04888 ACT_PheB-BS C-terminal 79.1 6.9 0.00015 22.1 4.6 30 5-34 44-74 (76)
20 PF03927 NapD: NapD protein; 76.9 10 0.00022 22.9 4.9 32 3-34 40-71 (79)
21 PF13291 ACT_4: ACT domain; PD 75.4 11 0.00023 21.9 4.8 31 3-33 49-79 (80)
22 COG1432 Uncharacterized conser 71.8 6.9 0.00015 27.0 3.7 34 38-72 111-144 (181)
23 cd06167 LabA_like LabA_like pr 71.0 7.8 0.00017 24.9 3.7 31 40-71 102-132 (149)
24 PF04972 BON: BON domain; Int 69.6 3.2 7E-05 23.2 1.4 39 18-59 3-44 (64)
25 PF14437 MafB19-deam: MafB19-l 68.3 12 0.00026 25.7 4.2 40 3-43 101-141 (146)
26 COG2177 FtsX Cell division pro 68.3 18 0.00038 27.2 5.5 44 5-63 64-107 (297)
27 PRK10553 assembly protein for 67.4 26 0.00056 21.8 5.3 53 16-69 19-76 (87)
28 TIGR00288 conserved hypothetic 66.2 10 0.00022 26.2 3.6 31 41-72 109-139 (160)
29 PRK00435 ef1B elongation facto 63.5 17 0.00037 22.6 3.9 31 6-36 53-84 (88)
30 TIGR00489 aEF-1_beta translati 63.4 19 0.00042 22.4 4.2 29 8-36 55-84 (88)
31 TIGR03406 FeS_long_SufT probab 62.0 13 0.00029 25.8 3.6 34 3-36 114-153 (174)
32 PRK10553 assembly protein for 61.7 26 0.00056 21.8 4.5 33 3-35 43-75 (87)
33 PF03927 NapD: NapD protein; 61.7 33 0.00071 20.6 5.5 46 14-61 15-60 (79)
34 TIGR02945 SUF_assoc FeS assemb 61.1 15 0.00033 22.4 3.4 20 17-36 58-77 (99)
35 cd04877 ACT_TyrR N-terminal AC 61.0 26 0.00055 20.1 4.2 28 6-33 41-68 (74)
36 PF01936 NYN: NYN domain; Int 59.6 12 0.00026 23.6 2.8 30 40-70 98-127 (146)
37 PRK10555 aminoglycoside/multid 59.4 24 0.00052 30.6 5.3 46 15-61 158-210 (1037)
38 PRK09577 multidrug efflux prot 58.6 31 0.00067 29.9 5.8 46 16-62 158-210 (1032)
39 PHA00514 dsDNA binding protein 57.2 19 0.00041 22.9 3.3 34 40-74 32-67 (98)
40 cd00371 HMA Heavy-metal-associ 55.8 19 0.00041 16.0 6.3 49 10-59 7-56 (63)
41 PRK15127 multidrug efflux syst 55.6 30 0.00065 30.1 5.3 45 16-61 159-210 (1049)
42 PRK11023 outer membrane lipopr 53.7 24 0.00052 24.5 3.8 50 12-63 47-99 (191)
43 cd04878 ACT_AHAS N-terminal AC 51.7 37 0.0008 18.2 3.7 28 4-32 44-71 (72)
44 COG2092 EFB1 Translation elong 51.5 32 0.00069 21.7 3.7 32 4-35 51-83 (88)
45 COG3062 NapD Uncharacterized p 51.0 56 0.0012 20.8 4.7 44 15-60 19-62 (94)
46 COG4004 Uncharacterized protei 50.7 4.4 9.5E-05 25.9 -0.3 24 22-46 35-58 (96)
47 PRK04435 hypothetical protein; 50.6 46 0.001 22.2 4.6 31 4-34 112-143 (147)
48 PF08712 Nfu_N: Scaffold prote 50.1 58 0.0012 19.9 5.1 42 17-61 37-79 (87)
49 PF08478 POTRA_1: POTRA domain 48.7 25 0.00054 19.6 2.7 28 17-44 37-64 (69)
50 cd00292 EF1B Elongation factor 48.5 41 0.00088 20.8 3.8 31 6-36 53-84 (88)
51 COG2151 PaaD Predicted metal-s 47.7 36 0.00077 22.1 3.6 33 4-36 51-89 (111)
52 PRK10503 multidrug efflux syst 47.4 51 0.0011 28.6 5.4 45 17-61 169-220 (1040)
53 cd04910 ACT_AK-Ectoine_1 ACT d 46.8 62 0.0013 19.3 4.4 54 12-67 14-69 (71)
54 TIGR00915 2A0602 The (Largely 46.7 51 0.0011 28.6 5.3 45 16-61 159-210 (1044)
55 PRK11023 outer membrane lipopr 46.2 55 0.0012 22.7 4.6 41 12-54 125-167 (191)
56 KOG3411 40S ribosomal protein 46.0 19 0.00041 24.5 2.1 43 14-60 98-140 (143)
57 COG0841 AcrB Cation/multidrug 44.7 60 0.0013 28.4 5.4 47 15-61 156-209 (1009)
58 PF00736 EF1_GNE: EF-1 guanine 44.3 76 0.0016 19.6 4.6 32 5-36 52-85 (89)
59 KOG4034 Uncharacterized conser 42.5 60 0.0013 22.7 4.2 58 3-63 111-169 (169)
60 PF05922 Inhibitor_I9: Peptida 41.6 35 0.00075 19.5 2.6 20 17-36 58-77 (82)
61 PRK09579 multidrug efflux prot 41.5 90 0.0019 27.1 6.0 46 16-61 158-210 (1017)
62 PF07683 CobW_C: Cobalamin syn 41.3 31 0.00067 20.4 2.5 23 38-60 70-92 (94)
63 PRK10614 multidrug efflux syst 41.2 71 0.0015 27.7 5.3 47 16-62 159-212 (1025)
64 cd04879 ACT_3PGDH-like ACT_3PG 40.9 34 0.00074 18.2 2.4 19 16-34 52-70 (71)
65 PF09358 UBA_e1_C: Ubiquitin-a 40.8 61 0.0013 21.1 4.0 33 39-72 34-67 (125)
66 PF00873 ACR_tran: AcrB/AcrD/A 40.5 41 0.00089 28.8 3.8 49 15-63 157-212 (1021)
67 PF05193 Peptidase_M16_C: Pept 40.1 34 0.00074 21.4 2.6 25 38-63 18-42 (184)
68 PF15643 Tox-PL-2: Papain fold 39.0 27 0.00059 22.5 2.0 19 10-28 19-39 (100)
69 PF14492 EFG_II: Elongation Fa 38.7 82 0.0018 18.4 4.2 41 22-63 27-68 (75)
70 smart00653 eIF2B_5 domain pres 37.6 53 0.0012 21.2 3.2 30 32-64 50-79 (110)
71 PF01981 PTH2: Peptidyl-tRNA h 37.6 1.1E+02 0.0023 19.4 4.8 58 1-61 50-112 (116)
72 cd06471 ACD_LpsHSP_like Group 37.2 19 0.0004 21.6 1.0 23 24-47 16-40 (93)
73 cd04901 ACT_3PGDH C-terminal A 36.8 44 0.00095 18.3 2.5 18 17-34 51-68 (69)
74 PF13241 NAD_binding_7: Putati 35.6 54 0.0012 20.1 3.0 39 33-72 2-40 (103)
75 PF00070 Pyr_redox: Pyridine n 35.6 75 0.0016 18.2 3.5 33 41-73 1-33 (80)
76 cd03309 CmuC_like CmuC_like. P 35.1 72 0.0016 24.0 4.1 44 8-54 215-269 (321)
77 PF08210 APOBEC_N: APOBEC-like 34.7 53 0.0012 22.9 3.1 62 3-69 75-146 (188)
78 cd04903 ACT_LSD C-terminal ACT 34.5 48 0.001 17.7 2.4 19 16-34 52-70 (71)
79 PRK11198 LysM domain/BON super 34.5 67 0.0015 21.3 3.5 50 14-66 26-77 (147)
80 TIGR00914 2A0601 heavy metal e 34.3 97 0.0021 26.9 5.1 45 18-62 170-221 (1051)
81 TIGR03853 matur_matur probable 34.1 46 0.001 20.4 2.4 24 42-65 38-61 (77)
82 PF13738 Pyr_redox_3: Pyridine 33.6 65 0.0014 21.2 3.3 35 38-72 166-200 (203)
83 COG1941 FrhG Coenzyme F420-red 33.6 2E+02 0.0043 21.4 6.0 58 10-68 12-80 (247)
84 PF02107 FlgH: Flagellar L-rin 33.6 26 0.00056 24.3 1.4 29 25-55 110-138 (179)
85 cd04887 ACT_MalLac-Enz ACT_Mal 33.5 89 0.0019 17.3 4.5 28 7-34 45-72 (74)
86 cd06482 ACD_HspB10 Alpha cryst 33.1 30 0.00064 21.3 1.4 24 23-47 13-38 (87)
87 PF15023 DUF4523: Protein of u 32.9 1.1E+02 0.0025 21.3 4.4 46 1-47 86-134 (166)
88 cd06475 ACD_HspB1_like Alpha c 32.7 32 0.0007 20.8 1.5 22 25-47 17-40 (86)
89 PRK06719 precorrin-2 dehydroge 32.2 80 0.0017 21.1 3.6 39 32-71 7-45 (157)
90 PRK04021 hypothetical protein; 32.1 1.3E+02 0.0028 18.8 4.9 47 10-59 42-91 (92)
91 cd02643 R3H_NF-X1 R3H domain o 31.5 1E+02 0.0022 18.2 3.6 29 16-44 44-72 (74)
92 PF01873 eIF-5_eIF-2B: Domain 31.1 74 0.0016 20.9 3.2 29 32-63 63-91 (125)
93 COG0071 IbpA Molecular chapero 30.6 24 0.00052 23.2 0.8 24 23-47 55-80 (146)
94 PF08002 DUF1697: Protein of u 30.3 1.6E+02 0.0035 19.3 5.3 43 16-61 21-63 (137)
95 PRK05528 methionine sulfoxide 30.0 78 0.0017 21.6 3.2 24 13-36 8-31 (156)
96 PRK10568 periplasmic protein; 29.7 1.1E+02 0.0024 21.4 4.1 42 10-53 56-99 (203)
97 cd06464 ACD_sHsps-like Alpha-c 29.6 29 0.00063 19.8 1.0 23 24-47 13-37 (88)
98 PF07338 DUF1471: Protein of u 29.5 78 0.0017 17.8 2.7 22 40-61 6-27 (56)
99 PHA01634 hypothetical protein 29.5 24 0.00051 24.3 0.6 11 10-20 98-108 (156)
100 TIGR01470 cysG_Nterm siroheme 29.3 90 0.0019 21.8 3.5 40 33-73 4-43 (205)
101 PF03958 Secretin_N: Bacterial 29.2 58 0.0013 18.7 2.2 28 31-59 47-74 (82)
102 PF02662 FlpD: Methyl-viologen 29.2 93 0.002 20.1 3.4 52 10-68 5-58 (124)
103 PRK10743 heat shock protein Ib 29.2 36 0.00078 22.6 1.4 23 24-47 51-75 (137)
104 smart00833 CobW_C Cobalamin sy 28.5 98 0.0021 17.9 3.2 22 39-60 69-90 (92)
105 cd04920 ACT_AKiii-DAPDC_2 ACT 28.5 1.1E+02 0.0025 16.9 4.6 49 11-62 12-61 (63)
106 cd04881 ACT_HSDH-Hom ACT_HSDH_ 28.4 94 0.002 16.8 3.0 21 12-32 52-72 (79)
107 cd06470 ACD_IbpA-B_like Alpha- 28.4 42 0.00091 20.2 1.5 23 24-47 17-41 (90)
108 PF15235 GRIN_C: G protein-reg 28.1 1E+02 0.0022 20.9 3.5 36 25-61 40-75 (137)
109 cd02407 PTH2_family Peptidyl-t 28.1 1.7E+02 0.0037 18.8 5.5 57 1-61 49-111 (115)
110 PRK06718 precorrin-2 dehydroge 27.9 1E+02 0.0022 21.4 3.6 38 33-71 5-42 (202)
111 PRK11597 heat shock chaperone 27.6 38 0.00083 22.7 1.3 23 24-47 49-73 (142)
112 KOG3476 Microtubule-associated 27.5 26 0.00056 22.3 0.5 15 10-24 1-15 (100)
113 PRK08577 hypothetical protein; 27.1 1.7E+02 0.0038 18.8 4.5 19 16-34 113-131 (136)
114 PF10678 DUF2492: Protein of u 25.5 72 0.0016 19.6 2.2 24 42-65 40-63 (78)
115 cd06477 ACD_HspB3_Like Alpha c 25.3 50 0.0011 20.0 1.5 22 25-47 14-37 (83)
116 PF06727 DUF1207: Protein of u 25.3 64 0.0014 24.9 2.3 20 17-36 30-49 (338)
117 COG1992 Uncharacterized conser 25.2 1.8E+02 0.0038 20.6 4.4 39 19-59 133-175 (181)
118 COG0612 PqqL Predicted Zn-depe 25.0 1.5E+02 0.0033 22.4 4.4 25 38-63 197-221 (438)
119 PF07293 DUF1450: Protein of u 24.9 64 0.0014 19.7 1.9 51 16-66 16-76 (78)
120 COG1058 CinA Predicted nucleot 24.9 92 0.002 23.0 3.0 28 40-69 38-65 (255)
121 PF06180 CbiK: Cobalt chelatas 24.8 58 0.0013 24.0 2.0 28 42-70 177-205 (262)
122 cd02393 PNPase_KH Polynucleoti 24.6 1.4E+02 0.003 16.7 3.9 35 19-58 23-57 (61)
123 cd04876 ACT_RelA-SpoT ACT dom 24.4 1.1E+02 0.0024 15.4 4.6 17 16-32 53-69 (71)
124 PRK14054 methionine sulfoxide 24.3 1.1E+02 0.0024 21.2 3.2 27 13-40 10-36 (172)
125 cd06497 ACD_alphaA-crystallin_ 24.3 55 0.0012 19.7 1.5 22 25-47 17-40 (86)
126 cd06481 ACD_HspB9_like Alpha c 24.2 54 0.0012 19.8 1.5 23 24-47 13-37 (87)
127 PLN02625 uroporphyrin-III C-me 24.1 97 0.0021 22.3 3.0 33 38-70 13-46 (263)
128 cd06478 ACD_HspB4-5-6 Alpha-cr 23.4 62 0.0013 19.3 1.6 22 25-47 14-37 (83)
129 cd06479 ACD_HspB7_like Alpha c 23.2 58 0.0013 19.6 1.5 22 25-47 15-38 (81)
130 COG2072 TrkA Predicted flavopr 22.9 2E+02 0.0043 22.5 4.7 34 38-71 174-207 (443)
131 PF09580 Spore_YhcN_YlaJ: Spor 22.6 1.4E+02 0.003 19.9 3.4 47 14-61 75-125 (177)
132 cd06476 ACD_HspB2_like Alpha c 22.5 60 0.0013 19.5 1.4 22 25-47 14-37 (83)
133 PRK10509 bacterioferritin-asso 22.4 40 0.00086 19.6 0.6 20 6-25 33-52 (64)
134 TIGR02159 PA_CoA_Oxy4 phenylac 22.3 1.4E+02 0.0029 20.1 3.3 32 4-36 27-64 (146)
135 PRK06136 uroporphyrin-III C-me 22.0 1.1E+02 0.0024 21.4 2.9 31 40-70 3-34 (249)
136 cd04902 ACT_3PGDH-xct C-termin 21.9 97 0.0021 16.9 2.2 18 17-34 53-70 (73)
137 PRK11152 ilvM acetolactate syn 21.8 1.9E+02 0.0042 17.3 4.0 23 12-34 53-75 (76)
138 PF12164 SporV_AA: Stage V spo 21.6 88 0.0019 19.4 2.1 54 10-74 29-82 (93)
139 PF14611 SLS: Mitochondrial in 21.5 1.3E+02 0.0028 20.7 3.2 33 30-63 57-89 (210)
140 TIGR00914 2A0601 heavy metal e 21.5 1.3E+02 0.0028 26.1 3.7 49 14-63 698-755 (1051)
141 cd02429 PTH2_like Peptidyl-tRN 21.3 2.4E+02 0.0053 18.3 6.0 28 32-60 84-111 (116)
142 TIGR01709 typeII_sec_gspL gene 21.2 3.6E+02 0.0078 20.3 5.7 50 19-70 315-369 (384)
143 PRK00378 nucleoid-associated p 21.1 1.2E+02 0.0027 22.5 3.2 28 30-61 303-330 (334)
144 PRK11657 dsbG disulfide isomer 21.1 3.1E+02 0.0067 19.7 5.1 47 12-60 198-250 (251)
145 PRK04322 peptidyl-tRNA hydrola 20.8 2.4E+02 0.0053 18.1 5.5 23 39-61 87-109 (113)
146 COG1908 FrhD Coenzyme F420-red 20.8 97 0.0021 20.9 2.2 47 8-60 4-52 (132)
147 PRK09977 putative Mg(2+) trans 20.7 2.4E+02 0.0051 20.2 4.4 12 49-60 194-205 (215)
148 PF12606 RELT: Tumour necrosis 20.7 80 0.0017 17.7 1.6 15 53-67 19-33 (50)
149 PF12242 Eno-Rase_NADH_b: NAD( 20.5 2E+02 0.0044 17.7 3.5 59 10-73 14-73 (78)
150 PF10934 DUF2634: Protein of u 20.5 1.9E+02 0.0041 18.4 3.5 31 15-46 70-103 (112)
151 PF11731 Cdd1: Pathogenicity l 20.3 83 0.0018 19.9 1.8 51 10-62 1-55 (93)
152 PF10120 Aldolase_2: Putative 20.1 2.9E+02 0.0063 19.0 4.6 40 19-60 127-169 (170)
153 PRK10026 arsenate reductase; P 20.0 1.1E+02 0.0024 20.4 2.5 52 1-62 1-52 (141)
154 PF01424 R3H: R3H domain; Int 20.0 1.7E+02 0.0038 16.0 3.5 34 12-45 28-61 (63)
No 1
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.79 E-value=5.1e-19 Score=107.12 Aligned_cols=67 Identities=33% Similarity=0.492 Sum_probs=62.8
Q ss_pred CeEEEEEEEeechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhc-CceeEEe
Q 048525 1 MQKIVIKVQVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKL-GHASLET 69 (86)
Q Consensus 1 m~~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~-~~aei~s 69 (86)
|++++++|+|||++|.++|.+.++.+.||+++.+|. .+++|||.|+ +||..|+++|++.+ +.+.+|.
T Consensus 4 ~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~-~~~kvtV~g~-~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 4 IKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDI-KKQKVTVKGN-VDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred ccEEEEEECcccccHHHHHHHHhhccCCeEEEEecC-CCCEEEEEEe-cCHHHHHHHHHhcCCCceEEec
Confidence 478999999999999999999999999999999999 9999999999 99999999999988 6777764
No 2
>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=99.54 E-value=3.4e-14 Score=82.27 Aligned_cols=58 Identities=28% Similarity=0.331 Sum_probs=53.1
Q ss_pred EEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCC---HHHHHHHHHhhcCc
Q 048525 5 VIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVD---SASLAKRLGKKLGH 64 (86)
Q Consensus 5 vlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vD---p~~l~~~l~kk~~~ 64 (86)
+|+|+ |+|++|+++|.++|.+++||.++.+|. .+++++|.++ .+ +.+|.++|++.|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~-~~~~v~v~~~-~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDL-ETKTVTVTYD-PDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEET-TTTEEEEEES-TTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEEC-CCCEEEEEEe-cCCCCHHHHHHHHHHhCcC
Confidence 58895 999999999999999999999999999 9999999998 44 59999999998863
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.39 E-value=2.5e-12 Score=77.48 Aligned_cols=67 Identities=24% Similarity=0.334 Sum_probs=58.7
Q ss_pred CeEEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCcc--ceEEEeccCCCHHHHHHHHHhhcCceeEE
Q 048525 1 MQKIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYK--DTVVVTGDGVDSASLAKRLGKKLGHASLE 68 (86)
Q Consensus 1 m~~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~--~~vtV~G~~vDp~~l~~~l~kk~~~aei~ 68 (86)
|.+..|++. |+|++|+..+.++|..++||.++.+|+ .. ..+++.+..++..++..++...|+.+..+
T Consensus 1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l-~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDL-EKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEc-ccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 678999999 999999999999999999999999999 88 44555663389999999999999877643
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.99 E-value=2.5e-09 Score=76.87 Aligned_cols=67 Identities=19% Similarity=0.264 Sum_probs=62.6
Q ss_pred EEEEEEEeechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEecc
Q 048525 3 KIVIKVQVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVE 71 (86)
Q Consensus 3 ~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~ 71 (86)
++.+-|+|+|+.|...+++.|..++||++|++|. +++.|.|.+. +-|..+.+.|+..++.|-|.-.+
T Consensus 8 ~~efaV~M~cescvnavk~~L~~V~Gi~~vevdl-e~q~v~v~ts-~p~s~i~~~le~tGr~Avl~G~G 74 (247)
T KOG4656|consen 8 EAEFAVQMTCESCVNAVKACLKGVPGINSVEVDL-EQQIVSVETS-VPPSEIQNTLENTGRDAVLRGAG 74 (247)
T ss_pred eEEEEEechhHHHHHHHHHHhccCCCcceEEEEh-hhcEEEEEcc-CChHHHHHHHHhhChheEEecCC
Confidence 4778999999999999999999999999999999 9999999999 99999999999999999887543
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.63 E-value=2.9e-07 Score=66.42 Aligned_cols=71 Identities=17% Similarity=0.229 Sum_probs=64.3
Q ss_pred eEEEEEEEeechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEeccCCC
Q 048525 2 QKIVIKVQVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVEEMK 74 (86)
Q Consensus 2 ~~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p~~ 74 (86)
+++.+.+.|+|+.|..++.++|.+++||.++.++. ..++++|.+. .++..++..|++.++.+++++..++.
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~-~~~~v~V~~~-~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDL-SNQVVRVLGS-SPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEc-CCCEEEEEec-CCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 45778889999999999999999999999999999 9999999997 89999999999999999988776554
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.52 E-value=3.5e-07 Score=75.31 Aligned_cols=65 Identities=18% Similarity=0.271 Sum_probs=59.1
Q ss_pred CeEEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEe
Q 048525 1 MQKIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLET 69 (86)
Q Consensus 1 m~~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s 69 (86)
|++++|+|+ |+|++|.+++.+++.+++||.++.+|. . +.+|.+. .++..+...++..|+.+++.+
T Consensus 2 ~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~-~--~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 2 SQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSI-T--EAHVTGT-ASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEee-e--EEEEEec-CCHHHHHHHHHhcCCcccccc
Confidence 578999999 999999999999999999999999998 4 4567787 899999999999999998865
No 7
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.81 E-value=0.00046 Score=36.29 Aligned_cols=62 Identities=23% Similarity=0.284 Sum_probs=50.0
Q ss_pred CeEEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEecc--CCCHHHHHHHHHhhcC
Q 048525 1 MQKIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGD--GVDSASLAKRLGKKLG 63 (86)
Q Consensus 1 m~~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~--~vDp~~l~~~l~kk~~ 63 (86)
|++..+.++ ++|..|...+.+.+...+|+.+..++. ..+.+.+..+ ..+...+...+...++
T Consensus 1 ~~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 65 (68)
T TIGR00003 1 KQKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKL-EKASVKVEFDAPQATEICIAEAILDAGY 65 (68)
T ss_pred CcEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEc-CCCEEEEEeCCCCCCHHHHHHHHHHcCC
Confidence 667889998 999999999999999999999999998 8888877642 2577777766655443
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.63 E-value=0.00019 Score=59.17 Aligned_cols=65 Identities=22% Similarity=0.298 Sum_probs=57.7
Q ss_pred CeEEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccC--CC-HHHHHHHHHhhcCceeE
Q 048525 1 MQKIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDG--VD-SASLAKRLGKKLGHASL 67 (86)
Q Consensus 1 m~~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~--vD-p~~l~~~l~kk~~~aei 67 (86)
+.+..|.++ |||..|.+++. ++.+++||.+..++. ...+++|..+. .+ +..+...+++.++.+..
T Consensus 1 ~~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~-~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 1 LRETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNL-ATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred CceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeec-ccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 356789998 99999999999 999999999999999 99999998652 56 79999999999997765
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.13 E-value=0.0018 Score=53.67 Aligned_cols=64 Identities=17% Similarity=0.237 Sum_probs=55.7
Q ss_pred EEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcCceeEE
Q 048525 3 KIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLE 68 (86)
Q Consensus 3 ~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~ 68 (86)
++.+.+. |+|..|...+.+.+..++||.++.++. ..++..+.+. .++..+...++..++.+.++
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl-~t~~~~V~~~-~s~~~I~~~I~~~Gy~a~~~ 164 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNL-AERTALVMGS-ASPQDLVQAVEKAGYGAEAI 164 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeec-CCCeEEEEcc-CCHHHHHHHHHhcCCCcccc
Confidence 3567787 999999999999999999999999999 8888888876 89999999998877776644
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.67 E-value=0.0071 Score=51.29 Aligned_cols=68 Identities=28% Similarity=0.286 Sum_probs=60.1
Q ss_pred eEEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEecc--CCCHHHHHHHHHhhcCceeEEec
Q 048525 2 QKIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGD--GVDSASLAKRLGKKLGHASLETV 70 (86)
Q Consensus 2 ~~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~--~vDp~~l~~~l~kk~~~aei~s~ 70 (86)
++++|.|. |.|+.|..++.+.+.+++||.++.++. ..+++.|.-+ ..-|.++++.|...+..+.+...
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~-~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~ 216 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSL-ATDTAIVVYDPEITGPRDIIKAIEETGFEASVRPY 216 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEec-cCCceEEEecccccChHHHHHHHHhhcccceeeec
Confidence 46889998 999999999999999999999999999 9999998665 36789999999998888876653
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.21 E-value=0.0098 Score=50.47 Aligned_cols=63 Identities=19% Similarity=0.216 Sum_probs=55.3
Q ss_pred EeechhhHHHHHHHhccCCCceEEEecCCccceEEEecc-CCCHHHHHHHHHhhcCceeEEeccC
Q 048525 9 QVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGD-GVDSASLAKRLGKKLGHASLETVEE 72 (86)
Q Consensus 9 ~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~-~vDp~~l~~~l~kk~~~aei~s~~p 72 (86)
.|+|..|...+.+++++.+||.++.++. .++..+|.-+ .++++.+.+.+..-++.+++++-..
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl-~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~~~ 65 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSL-AQKRANVSYDNIVSPESIKETIEDMGFEASLLSDSE 65 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEe-ccccceEEEeeccCHHHHHHHhhcccceeeecccCc
Confidence 4899999999999999999999999999 8887766444 4899999999999999999886543
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.11 E-value=0.025 Score=46.74 Aligned_cols=62 Identities=21% Similarity=0.273 Sum_probs=49.0
Q ss_pred EEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccC-CCHHHHHHHHHhhcCcee
Q 048525 3 KIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDG-VDSASLAKRLGKKLGHAS 66 (86)
Q Consensus 3 ~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~-vDp~~l~~~l~kk~~~ae 66 (86)
.+.+.++ |+|..|...+.+.+..++||.++.++. ...++.+..+. .+ ..+...++..++.+.
T Consensus 54 r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~-at~k~~V~~d~~~~-~~I~~aI~~~Gy~a~ 117 (741)
T PRK11033 54 RYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLF-ATEKLVVDADNDIR-AQVESAVQKAGFSLR 117 (741)
T ss_pred eEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEc-CCCeEEEEecccch-HHHHHHHHhcccccc
Confidence 4667787 999999999999999999999999998 77777775431 23 566677777676654
No 13
>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=90.09 E-value=0.62 Score=27.11 Aligned_cols=32 Identities=22% Similarity=0.382 Sum_probs=22.0
Q ss_pred EEEEEEEeechhhH------HHHHHHhccCCCceEEEe
Q 048525 3 KIVIKVQVRCDKCR------SKAMETAADTDGVISVSL 34 (86)
Q Consensus 3 ~vvlkV~m~C~~C~------~kv~k~l~~~~GV~sV~v 34 (86)
++.|.+.+...+|. ..+..+|..++||.+|++
T Consensus 35 ~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 35 KVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 45566666665554 778889999999999975
No 14
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.82 E-value=1.2 Score=28.47 Aligned_cols=49 Identities=12% Similarity=0.181 Sum_probs=36.2
Q ss_pred HHHHHHhccCCCceEEEe-----cCC-ccceEEEeccCCCHHHHHHHHHhhcCce
Q 048525 17 SKAMETAADTDGVISVSL-----QGK-YKDTVVVTGDGVDSASLAKRLGKKLGHA 65 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~v-----d~~-~~~~vtV~G~~vDp~~l~~~l~kk~~~a 65 (86)
-.+-+.|++++||+.|.+ |.+ .+=++|+.|+.+|-..+.+.|...|+-.
T Consensus 22 ve~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~I 76 (97)
T COG1888 22 VELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAI 76 (97)
T ss_pred HHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCee
Confidence 345567888888776543 331 3456999999999999999999987743
No 15
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=89.23 E-value=0.88 Score=29.11 Aligned_cols=60 Identities=15% Similarity=0.261 Sum_probs=39.1
Q ss_pred EEEEEEeechhhHHHHHHHhccCCCceEEEe-----cCC-ccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 4 IVIKVQVRCDKCRSKAMETAADTDGVISVSL-----QGK-YKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 4 vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~v-----d~~-~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
++|-|--.-+=---.+-..|++++||..|.+ |.+ .+=++|+.|+.+|...+.+.|.+.|.
T Consensus 7 lVLDVlKP~~p~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg 72 (95)
T PF02680_consen 7 LVLDVLKPHEPSIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGG 72 (95)
T ss_dssp EEEEEEEESSS-HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-
T ss_pred EEEEeecCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCC
Confidence 4454443322333456678899999887654 331 23358999999999999999999776
No 16
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=87.53 E-value=3.7 Score=24.14 Aligned_cols=40 Identities=23% Similarity=0.158 Sum_probs=32.3
Q ss_pred hccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 23 AADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 23 l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
|..++||.++..+.+..-.+.+... .++..|++.|...+.
T Consensus 26 l~~~~~v~~v~~~~~~~~~i~l~~~-~~~~~ll~~l~~~g~ 65 (84)
T PF13732_consen 26 LEELPGVESVEQDGDGKLRIKLEDE-ETANELLQELIEKGI 65 (84)
T ss_pred HhhCCCeEEEEEeCCcEEEEEECCc-ccHHHHHHHHHhCCC
Confidence 7788999999986512256888887 899999999998766
No 17
>PRK13748 putative mercuric reductase; Provisional
Probab=86.70 E-value=5.7 Score=31.23 Aligned_cols=66 Identities=18% Similarity=0.307 Sum_probs=47.8
Q ss_pred EEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEecc-CCCHHHHHHHHHhhcCceeEEec
Q 048525 4 IVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGD-GVDSASLAKRLGKKLGHASLETV 70 (86)
Q Consensus 4 vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~-~vDp~~l~~~l~kk~~~aei~s~ 70 (86)
+.+.++ ++|..|...+...+...+|+....++. ......+... ..++..+...+...+..+++...
T Consensus 2 ~~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~-~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (561)
T PRK13748 2 TTLKITGMTCDSCAAHVKDALEKVPGVQSADVSY-PKGSAQLAIEVGTSPDALTAAVAGLGYRATLADA 69 (561)
T ss_pred EEEEECCeecHHHHHHHHHHHhcCCCeeEEEEEc-CCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCc
Confidence 345565 889999999999999999999888887 7777666521 25677776666665555554444
No 18
>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=84.57 E-value=5.4 Score=22.52 Aligned_cols=62 Identities=16% Similarity=0.223 Sum_probs=41.4
Q ss_pred EEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEEEe--ccCCCHHHHHHHHHhhcCce
Q 048525 3 KIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVT--GDGVDSASLAKRLGKKLGHA 65 (86)
Q Consensus 3 ~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~--G~~vDp~~l~~~l~kk~~~a 65 (86)
++.+.++ ++|..|...+...+...+|+.....+. ......+. +...+...+...+...+..+
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 88 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTF-KTKLAVVTFDDEKTNVKALTEATTDAGYPS 88 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEe-cCCEEEEEECCCCCCHHHHHHHHHhcCCCe
Confidence 3445565 789999999999999999988877776 55554443 21146666655555544443
No 19
>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=79.09 E-value=6.9 Score=22.14 Aligned_cols=30 Identities=23% Similarity=0.295 Sum_probs=21.6
Q ss_pred EEEEEeechh-hHHHHHHHhccCCCceEEEe
Q 048525 5 VIKVQVRCDK-CRSKAMETAADTDGVISVSL 34 (86)
Q Consensus 5 vlkV~m~C~~-C~~kv~k~l~~~~GV~sV~v 34 (86)
.|-+..+... --..+.+.|.+++||.+|.+
T Consensus 44 ~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 44 TISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 3444444444 66888999999999999875
No 20
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=76.89 E-value=10 Score=22.93 Aligned_cols=32 Identities=25% Similarity=0.421 Sum_probs=23.8
Q ss_pred EEEEEEEeechhhHHHHHHHhccCCCceEEEe
Q 048525 3 KIVIKVQVRCDKCRSKAMETAADTDGVISVSL 34 (86)
Q Consensus 3 ~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~v 34 (86)
++++-+.-...+-......+|..++||-|+.+
T Consensus 40 KiVVtiE~~~~~~~~~~~~~i~~l~GVlsa~l 71 (79)
T PF03927_consen 40 KIVVTIEAESSEEEVDLIDAINALPGVLSASL 71 (79)
T ss_dssp EEEEEEEESSHHHHHHHHHHHCCSTTEEEEEE
T ss_pred eEEEEEEeCChHHHHHHHHHHHcCCCceEEEE
Confidence 45666666667777778888888888888765
No 21
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=75.39 E-value=11 Score=21.89 Aligned_cols=31 Identities=26% Similarity=0.362 Sum_probs=24.4
Q ss_pred EEEEEEEeechhhHHHHHHHhccCCCceEEE
Q 048525 3 KIVIKVQVRCDKCRSKAMETAADTDGVISVS 33 (86)
Q Consensus 3 ~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~ 33 (86)
.+.|.+....-.=-..++..|.+++||.+|.
T Consensus 49 ~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 49 RITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 3556666677777788999999999999885
No 22
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=71.80 E-value=6.9 Score=27.03 Aligned_cols=34 Identities=21% Similarity=0.233 Sum_probs=29.5
Q ss_pred ccceEEEeccCCCHHHHHHHHHhhcCceeEEeccC
Q 048525 38 YKDTVVVTGDGVDSASLAKRLGKKLGHASLETVEE 72 (86)
Q Consensus 38 ~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p 72 (86)
-..-+.++|+ -|-.-+++.++..|+++++++.+|
T Consensus 111 ~D~ivl~SgD-~DF~p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 111 VDTIVLFSGD-GDFIPLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred CCEEEEEcCC-ccHHHHHHHHHHcCCEEEEEecCC
Confidence 3445888999 899999999999999999999876
No 23
>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=71.02 E-value=7.8 Score=24.94 Aligned_cols=31 Identities=29% Similarity=0.326 Sum_probs=27.5
Q ss_pred ceEEEeccCCCHHHHHHHHHhhcCceeEEecc
Q 048525 40 DTVVVTGDGVDSASLAKRLGKKLGHASLETVE 71 (86)
Q Consensus 40 ~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~ 71 (86)
.-+.|+|+ -|-.-+++.|+..|+.+.++++.
T Consensus 102 ~ivLvSgD-~Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 102 TIVLVSGD-SDFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred EEEEEECC-ccHHHHHHHHHHcCCEEEEEccC
Confidence 34778999 89999999999999999999876
No 24
>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=69.59 E-value=3.2 Score=23.21 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=20.7
Q ss_pred HHHHHhcc---CCCceEEEecCCccceEEEeccCCCHHHHHHHHH
Q 048525 18 KAMETAAD---TDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLG 59 (86)
Q Consensus 18 kv~k~l~~---~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~ 59 (86)
+++.+|.. +++- +|.+.. ..+.|++.|. ++-....+++.
T Consensus 3 ~v~~~L~~~~~~~~~-~i~v~v-~~g~v~L~G~-v~s~~~~~~a~ 44 (64)
T PF04972_consen 3 KVRAALRADPWLPDS-NISVSV-ENGVVTLSGE-VPSQEQRDAAE 44 (64)
T ss_dssp ----------CTT-T-TEEEEE-ECTEEEEEEE-ESSCHHHHHHH
T ss_pred ccccccccccccCCC-eEEEEE-ECCEEEEEee-CcHHHHHHhHH
Confidence 45556655 4555 578888 8899999999 75444444443
No 25
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=68.28 E-value=12 Score=25.65 Aligned_cols=40 Identities=18% Similarity=0.297 Sum_probs=29.5
Q ss_pred EEEEEEE-eechhhHHHHHHHhccCCCceEEEecCCccceEE
Q 048525 3 KIVIKVQ-VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVV 43 (86)
Q Consensus 3 ~vvlkV~-m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vt 43 (86)
.+++.|+ -.|+.|..-+.....++ |+.+++|-....+++.
T Consensus 101 ~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~ 141 (146)
T PF14437_consen 101 SMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVY 141 (146)
T ss_pred eEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEE
Confidence 4678888 55999997777766665 9999999872255443
No 26
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=68.28 E-value=18 Score=27.22 Aligned_cols=44 Identities=20% Similarity=0.254 Sum_probs=32.7
Q ss_pred EEEEEeechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 5 VIKVQVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 5 vlkV~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
.|+.+.+ +.|...+...+.+++||.|+++ ++.++-++.|++..+
T Consensus 64 yL~~~~~-~~~~~~v~~~i~~~~gV~~v~~--------------~sre~~l~~L~~~lg 107 (297)
T COG2177 64 YLQIDAD-QDDAALVREKIEGIPGVKSVRF--------------ISREEALKELQPWLG 107 (297)
T ss_pred EEecCCC-hHHHHHHHHHHhcCCCcceEEE--------------eCHHHHHHHHHHHcC
Confidence 3444444 7899999999999999999998 455666666666544
No 27
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=67.36 E-value=26 Score=21.77 Aligned_cols=53 Identities=17% Similarity=0.105 Sum_probs=34.7
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhh---cC--ceeEEe
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKK---LG--HASLET 69 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk---~~--~aei~s 69 (86)
...+.+.|..++|++=-..|. +.+++.|+=++-+...+++.|... -+ .|.++-
T Consensus 19 ~~~V~~~l~~ipg~Evh~~d~-~~GKiVVtiE~~~~~~~~~~i~~I~~l~GVlsa~lVY 76 (87)
T PRK10553 19 ISDISTQLNAFPGCEVAVSDA-PSGQLIVVVEAEDSETLLQTIESVRNVEGVLAVSLVY 76 (87)
T ss_pred HHHHHHHHHcCCCcEEEeecC-CCCeEEEEEEeCChHHHHHHHHHHHcCCCceEEEEEE
Confidence 567889999999999888887 677755533323666555555443 22 555554
No 28
>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=66.20 E-value=10 Score=26.19 Aligned_cols=31 Identities=16% Similarity=0.129 Sum_probs=27.4
Q ss_pred eEEEeccCCCHHHHHHHHHhhcCceeEEeccC
Q 048525 41 TVVVTGDGVDSASLAKRLGKKLGHASLETVEE 72 (86)
Q Consensus 41 ~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p 72 (86)
-+.|+|+ -|-.-|+.+||..|..+..+++++
T Consensus 109 ~vLvSgD-~DF~~Lv~~lre~G~~V~v~g~~~ 139 (160)
T TIGR00288 109 VALVTRD-ADFLPVINKAKENGKETIVIGAEP 139 (160)
T ss_pred EEEEecc-HhHHHHHHHHHHCCCEEEEEeCCC
Confidence 4788999 899999999999999999998644
No 29
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=63.46 E-value=17 Score=22.65 Aligned_cols=31 Identities=23% Similarity=0.236 Sum_probs=23.9
Q ss_pred EEEEeech-hhHHHHHHHhccCCCceEEEecC
Q 048525 6 IKVQVRCD-KCRSKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 6 lkV~m~C~-~C~~kv~k~l~~~~GV~sV~vd~ 36 (86)
+.+-|.++ +--..+..+++.++||+|+++..
T Consensus 53 i~~vv~D~~~~td~lee~i~~~e~Vqsvei~~ 84 (88)
T PRK00435 53 LYVIMPDEEGGTEPVEEAFANVEGVESVEVEE 84 (88)
T ss_pred EEEEEEcCCcCcHHHHHHHhccCCCcEEEEEE
Confidence 33445443 77789999999999999999864
No 30
>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=63.40 E-value=19 Score=22.43 Aligned_cols=29 Identities=24% Similarity=0.210 Sum_probs=22.6
Q ss_pred EEeech-hhHHHHHHHhccCCCceEEEecC
Q 048525 8 VQVRCD-KCRSKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 8 V~m~C~-~C~~kv~k~l~~~~GV~sV~vd~ 36 (86)
+-|..+ +--..+..++++++||+|+++..
T Consensus 55 ~vv~D~~g~td~lee~i~~ve~V~svev~~ 84 (88)
T TIGR00489 55 VVMGDAEGGTEAAEESLSGIEGVESVEVTD 84 (88)
T ss_pred EEEecCCcChHHHHHHHhcCCCccEEEEEE
Confidence 334433 56789999999999999999864
No 31
>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=62.02 E-value=13 Score=25.79 Aligned_cols=34 Identities=12% Similarity=0.226 Sum_probs=25.9
Q ss_pred EEEEEEEeechhhH------HHHHHHhccCCCceEEEecC
Q 048525 3 KIVIKVQVRCDKCR------SKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 3 ~vvlkV~m~C~~C~------~kv~k~l~~~~GV~sV~vd~ 36 (86)
++.+.+.+...+|. ..+..+|..++||.+|.++.
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 46667776666655 45888999999999998875
No 32
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=61.71 E-value=26 Score=21.75 Aligned_cols=33 Identities=21% Similarity=0.447 Sum_probs=26.5
Q ss_pred EEEEEEEeechhhHHHHHHHhccCCCceEEEec
Q 048525 3 KIVIKVQVRCDKCRSKAMETAADTDGVISVSLQ 35 (86)
Q Consensus 3 ~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~vd 35 (86)
++++-+.-.+.+=.-.....|..++||-|+.+=
T Consensus 43 KiVVtiE~~~~~~~~~~i~~I~~l~GVlsa~lV 75 (87)
T PRK10553 43 QLIVVVEAEDSETLLQTIESVRNVEGVLAVSLV 75 (87)
T ss_pred eEEEEEEeCChHHHHHHHHHHHcCCCceEEEEE
Confidence 466667777777777888999999999998763
No 33
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=61.71 E-value=33 Score=20.63 Aligned_cols=46 Identities=17% Similarity=0.105 Sum_probs=32.2
Q ss_pred hhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhh
Q 048525 14 KCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 14 ~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
.=...+..+|..++|++=-..+. + +++.|+=+.-+...+.+.+...
T Consensus 15 ~~~~~v~~~l~~~~gvEVh~~~~-~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 15 ERLEEVAEALAAIPGVEVHAVDE-D-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp CCHHHHHHHHCCSTTEEEEEEET-T-TEEEEEEEESSHHHHHHHHHHH
T ss_pred hhHHHHHHHHHcCCCcEEEeeCC-C-CeEEEEEEeCChHHHHHHHHHH
Confidence 34578899999999997666765 4 7755544334777777777654
No 34
>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=61.14 E-value=15 Score=22.41 Aligned_cols=20 Identities=20% Similarity=0.192 Sum_probs=16.9
Q ss_pred HHHHHHhccCCCceEEEecC
Q 048525 17 SKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~vd~ 36 (86)
..+..+|..++|+++|.+..
T Consensus 58 ~~i~~al~~l~gv~~v~v~i 77 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVEL 77 (99)
T ss_pred HHHHHHHHhCCCCceEEEEE
Confidence 45788899999999999876
No 35
>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=60.97 E-value=26 Score=20.11 Aligned_cols=28 Identities=18% Similarity=0.077 Sum_probs=17.5
Q ss_pred EEEEeechhhHHHHHHHhccCCCceEEE
Q 048525 6 IKVQVRCDKCRSKAMETAADTDGVISVS 33 (86)
Q Consensus 6 lkV~m~C~~C~~kv~k~l~~~~GV~sV~ 33 (86)
|.+....-.=-..+.+.|.+++||.+|.
T Consensus 41 l~i~v~~~~~L~~li~~L~~i~gV~~V~ 68 (74)
T cd04877 41 LNFPTIEFEKLQTLMPEIRRIDGVEDVK 68 (74)
T ss_pred EEeEecCHHHHHHHHHHHhCCCCceEEE
Confidence 3344333333467777888888888775
No 36
>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=59.65 E-value=12 Score=23.63 Aligned_cols=30 Identities=27% Similarity=0.370 Sum_probs=21.4
Q ss_pred ceEEEeccCCCHHHHHHHHHhhcCceeEEec
Q 048525 40 DTVVVTGDGVDSASLAKRLGKKLGHASLETV 70 (86)
Q Consensus 40 ~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~ 70 (86)
.-+.|+|+ -|-.-++++|+..|+++.++..
T Consensus 98 ~ivLvSgD-~Df~~~v~~l~~~g~~V~v~~~ 127 (146)
T PF01936_consen 98 TIVLVSGD-SDFAPLVRKLRERGKRVIVVGA 127 (146)
T ss_dssp EEEEE----GGGHHHHHHHHHH--EEEEEE-
T ss_pred EEEEEECc-HHHHHHHHHHHHcCCEEEEEEe
Confidence 34788999 8999999999999999999974
No 37
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=59.43 E-value=24 Score=30.55 Aligned_cols=46 Identities=9% Similarity=0.176 Sum_probs=36.4
Q ss_pred hHHHHHHHhccCCCceEEEecCCccceEEE-------eccCCCHHHHHHHHHhh
Q 048525 15 CRSKAMETAADTDGVISVSLQGKYKDTVVV-------TGDGVDSASLAKRLGKK 61 (86)
Q Consensus 15 C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV-------~G~~vDp~~l~~~l~kk 61 (86)
-+..++..|.+++||.+|++.+ ...++.| ...|+++.++.+.|+..
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G-~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 158 VASNIQDPLSRVNGVGDIDAYG-SQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHHhhcCCCeEEEEEcC-CceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 3466888999999999999998 5555655 34468889999999864
No 38
>PRK09577 multidrug efflux protein; Reviewed
Probab=58.55 E-value=31 Score=29.87 Aligned_cols=46 Identities=13% Similarity=0.211 Sum_probs=37.5
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEEe-------ccCCCHHHHHHHHHhhc
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVVT-------GDGVDSASLAKRLGKKL 62 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~-------G~~vDp~~l~~~l~kk~ 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 SANVLQALRRVEGVGKVQFWG-AEYAMRIWPDPVKLAALGLTASDIASAVRAHN 210 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecC-CceEEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 467889999999999999998 66677762 34578899999998754
No 39
>PHA00514 dsDNA binding protein
Probab=57.17 E-value=19 Score=22.88 Aligned_cols=34 Identities=21% Similarity=0.306 Sum_probs=28.8
Q ss_pred ceEEEeccCCCHHHHHHHHHhh--cCceeEEeccCCC
Q 048525 40 DTVVVTGDGVDSASLAKRLGKK--LGHASLETVEEMK 74 (86)
Q Consensus 40 ~~vtV~G~~vDp~~l~~~l~kk--~~~aei~s~~p~~ 74 (86)
+..|..|+ +..+.--..|.|. ...++++|++|--
T Consensus 32 ~~~Tl~GN-LtiEqAQ~e~~k~~k~~pvqVvsVEpnt 67 (98)
T PHA00514 32 NEQTLLGN-LTIEQAQKELSKQYKHGPVQVVSVEPNT 67 (98)
T ss_pred Ccceeecc-eeHHHHHHHHhhcccCCCeeEEEecCCC
Confidence 45788999 9999999999987 5599999998854
No 40
>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=55.85 E-value=19 Score=16.03 Aligned_cols=49 Identities=24% Similarity=0.302 Sum_probs=32.8
Q ss_pred eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccC-CCHHHHHHHHH
Q 048525 10 VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDG-VDSASLAKRLG 59 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~-vDp~~l~~~l~ 59 (86)
++|..|...+...+...+|+....... ......+.... .++..+...++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 56 (63)
T cd00371 7 MTCAGCVSKIEKALEKLPGVESVEVDL-ETGKATVEYDPEVSPEELLEAIE 56 (63)
T ss_pred eEcHHHHHHHHHHHhcCCCEeEEEEEc-cCCEEEEEECCCCCHHHHHHHHH
Confidence 789999999998888889987776665 55555554320 35555444443
No 41
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=55.63 E-value=30 Score=30.05 Aligned_cols=45 Identities=13% Similarity=0.175 Sum_probs=35.3
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEE-------eccCCCHHHHHHHHHhh
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVV-------TGDGVDSASLAKRLGKK 61 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV-------~G~~vDp~~l~~~l~kk 61 (86)
...++..|.+++||.+|++.+ ...++.| ..+|+++.++.+.|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G-~~~ei~V~vDp~kl~~~gls~~~V~~~l~~~ 210 (1049)
T PRK15127 159 AANMKDPISRTSGVGDVQLFG-SQYAMRIWMNPNELNKFQLTPVDVINAIKAQ 210 (1049)
T ss_pred HHHHHHHHhcCCCceEEEEcC-CceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 356888999999999999998 5555666 34457888889999854
No 42
>PRK11023 outer membrane lipoprotein; Provisional
Probab=53.71 E-value=24 Score=24.52 Aligned_cols=50 Identities=14% Similarity=0.247 Sum_probs=36.5
Q ss_pred chhhHHHHHHHhccCCCce---EEEecCCccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 12 CDKCRSKAMETAADTDGVI---SVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 12 C~~C~~kv~k~l~~~~GV~---sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
...=..+|..+|..-+++. .|.+.. ..+.|+.+|. ++-.....+..+...
T Consensus 47 D~~i~~~V~~aL~~~~~l~~~~~I~V~v-~~G~V~L~G~-V~~~~~k~~A~~ia~ 99 (191)
T PRK11023 47 DGTLELRVNNALSKDEQIKKEARINVTA-YQGKVLLTGQ-SPNAELSERAKQIAM 99 (191)
T ss_pred hHHHHHHHHHHHhhCcccCcCceEEEEE-ECCEEEEEEE-eCCHHHHHHHHHHHh
Confidence 3445677888887777664 588888 8999999999 877766666655433
No 43
>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=51.67 E-value=37 Score=18.19 Aligned_cols=28 Identities=21% Similarity=0.227 Sum_probs=16.7
Q ss_pred EEEEEEeechhhHHHHHHHhccCCCceEE
Q 048525 4 IVIKVQVRCDKCRSKAMETAADTDGVISV 32 (86)
Q Consensus 4 vvlkV~m~C~~C~~kv~k~l~~~~GV~sV 32 (86)
+.+.++.. +.=-..+...|.+++||.+|
T Consensus 44 ~~~~~~~~-~~~~~~l~~~l~~~~~v~~v 71 (72)
T cd04878 44 ITIVVEGD-DDVIEQIVKQLNKLVDVLKV 71 (72)
T ss_pred EEEEEECC-HHHHHHHHHHHhCCccEEEe
Confidence 34444432 24455667777778887776
No 44
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=51.51 E-value=32 Score=21.69 Aligned_cols=32 Identities=22% Similarity=0.273 Sum_probs=24.5
Q ss_pred EEEEEEee-chhhHHHHHHHhccCCCceEEEec
Q 048525 4 IVIKVQVR-CDKCRSKAMETAADTDGVISVSLQ 35 (86)
Q Consensus 4 vvlkV~m~-C~~C~~kv~k~l~~~~GV~sV~vd 35 (86)
+.|.+-|. -+|--..+..+|..++||+|+++-
T Consensus 51 l~l~vvv~D~Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 51 LKLYVVVEDKEGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred EEEEEEEcccccCcHHHHHHHhhccCcceEEEE
Confidence 44555554 346678899999999999999885
No 45
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=51.00 E-value=56 Score=20.83 Aligned_cols=44 Identities=16% Similarity=0.083 Sum_probs=33.3
Q ss_pred hHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHh
Q 048525 15 CRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 15 C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~k 60 (86)
=...+..+|..+||++=-.-|. + +++.|.=++-+...|++.|.-
T Consensus 19 ~l~av~~~L~~ip~~EV~~~d~-~-GKlVVVie~~~~~~l~~tie~ 62 (94)
T COG3062 19 RLSAVKTALLAIPGCEVYGEDA-E-GKLVVVIEAEDSETLLETIES 62 (94)
T ss_pred HHHHHHHHHhcCCCcEeeccCC-C-ceEEEEEEcCchHHHHHHHHH
Confidence 3567889999999999888886 5 776664443588888887764
No 46
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=50.74 E-value=4.4 Score=25.89 Aligned_cols=24 Identities=13% Similarity=0.307 Sum_probs=21.5
Q ss_pred HhccCCCceEEEecCCccceEEEec
Q 048525 22 TAADTDGVISVSLQGKYKDTVVVTG 46 (86)
Q Consensus 22 ~l~~~~GV~sV~vd~~~~~~vtV~G 46 (86)
++..++|++.|++.. ++.++-|.+
T Consensus 35 ivas~pgis~ieik~-E~kkL~v~t 58 (96)
T COG4004 35 IVASSPGISRIEIKP-ENKKLLVNT 58 (96)
T ss_pred EEEecCCceEEEEec-ccceEEEec
Confidence 456899999999999 999999988
No 47
>PRK04435 hypothetical protein; Provisional
Probab=50.57 E-value=46 Score=22.17 Aligned_cols=31 Identities=23% Similarity=0.294 Sum_probs=19.6
Q ss_pred EEEEEEeech-hhHHHHHHHhccCCCceEEEe
Q 048525 4 IVIKVQVRCD-KCRSKAMETAADTDGVISVSL 34 (86)
Q Consensus 4 vvlkV~m~C~-~C~~kv~k~l~~~~GV~sV~v 34 (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 3444443322 366777778888888888775
No 48
>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=50.15 E-value=58 Score=19.90 Aligned_cols=42 Identities=24% Similarity=0.231 Sum_probs=30.1
Q ss_pred HHHHHHhccCCCceEEEecCCccceEEEecc-CCCHHHHHHHHHhh
Q 048525 17 SKAMETAADTDGVISVSLQGKYKDTVVVTGD-GVDSASLAKRLGKK 61 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~-~vDp~~l~~~l~kk 61 (86)
..+-+.|-.++||.+|-+.. +=+||+-. .+|-..|...++..
T Consensus 37 spLA~~Lf~i~gV~~Vf~~~---dfItVtK~~~~~W~~l~~~I~~~ 79 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIGD---DFITVTKNPDADWEDLKPEIREV 79 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEET---TEEEEEE-TTS-HHHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEEC---CEEEEeeCCCCCHHHHHHHHHHH
Confidence 44556677999999999965 67777544 28999998888764
No 49
>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=48.66 E-value=25 Score=19.63 Aligned_cols=28 Identities=21% Similarity=0.243 Sum_probs=21.9
Q ss_pred HHHHHHhccCCCceEEEecCCccceEEE
Q 048525 17 SKAMETAADTDGVISVSLQGKYKDTVVV 44 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~vd~~~~~~vtV 44 (86)
..+.+.|.++|.|.++.+...--+++.|
T Consensus 37 ~~~~~~l~~~p~V~~v~V~r~~P~~l~I 64 (69)
T PF08478_consen 37 KKIEQRLEKLPWVKSVSVSRRFPNTLEI 64 (69)
T ss_dssp HHHHHCCCCTTTEEEEEEEEETTTEEEE
T ss_pred HHHHHHHHcCCCEEEEEEEEeCCCEEEE
Confidence 5677888899999999998645666655
No 50
>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=48.46 E-value=41 Score=20.85 Aligned_cols=31 Identities=29% Similarity=0.334 Sum_probs=23.0
Q ss_pred EEEEeech-hhHHHHHHHhccCCCceEEEecC
Q 048525 6 IKVQVRCD-KCRSKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 6 lkV~m~C~-~C~~kv~k~l~~~~GV~sV~vd~ 36 (86)
+.+-+.++ +-...+..+++..+||+|+++..
T Consensus 53 i~~vv~D~~~~td~lee~i~~~d~VqsveI~~ 84 (88)
T cd00292 53 IYCVVEDDEGGTDELEEAISEEDGVQSVDVEA 84 (88)
T ss_pred EEEEEEeCCcCcHHHHHHHhccCCceEEEEEE
Confidence 33335444 55588899999999999999864
No 51
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=47.71 E-value=36 Score=22.15 Aligned_cols=33 Identities=15% Similarity=0.320 Sum_probs=26.0
Q ss_pred EEEEEEeechhh------HHHHHHHhccCCCceEEEecC
Q 048525 4 IVIKVQVRCDKC------RSKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 4 vvlkV~m~C~~C------~~kv~k~l~~~~GV~sV~vd~ 36 (86)
+.+++.++-.+| ...++.++..++||++++++.
T Consensus 51 v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 51 VKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred EEEEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEEE
Confidence 456666666677 567899999999999998875
No 52
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=47.37 E-value=51 Score=28.64 Aligned_cols=45 Identities=20% Similarity=0.305 Sum_probs=34.6
Q ss_pred HHHHHHhccCCCceEEEecCCccceEEE-------eccCCCHHHHHHHHHhh
Q 048525 17 SKAMETAADTDGVISVSLQGKYKDTVVV-------TGDGVDSASLAKRLGKK 61 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~vd~~~~~~vtV-------~G~~vDp~~l~~~l~kk 61 (86)
..++..|.+++||.+|++.+....++.| ...|+++.++.+.|+..
T Consensus 169 ~~l~~~L~~i~gV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~~v~~ai~~~ 220 (1040)
T PRK10503 169 TRVAQKISQVSGVGLVTLSGGQRPAVRVKLNAQAIAALGLTSETVRTAITGA 220 (1040)
T ss_pred HHHHHHhcCCCCceEEEecCCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 5688899999999999999833445666 33457888888888754
No 53
>cd04910 ACT_AK-Ectoine_1 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 first 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: aspartokinase
Probab=46.76 E-value=62 Score=19.27 Aligned_cols=54 Identities=13% Similarity=0.093 Sum_probs=40.0
Q ss_pred chhhHHHHHHHhccCCCceEEEecCCccceEEE--eccCCCHHHHHHHHHhhcCceeE
Q 048525 12 CDKCRSKAMETAADTDGVISVSLQGKYKDTVVV--TGDGVDSASLAKRLGKKLGHASL 67 (86)
Q Consensus 12 C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV--~G~~vDp~~l~~~l~kk~~~aei 67 (86)
..+=...++.+|.+. +|.=|..+. ..|.+|. .|..-+...++..|++.+..|++
T Consensus 14 ~~g~d~~i~~~l~~~-~v~ii~K~~-nANtit~yl~~~~k~~~r~~~~Le~~~p~a~i 69 (71)
T cd04910 14 EVGYDLEILELLQRF-KVSIIAKDT-NANTITHYLAGSLKTIKRLTEDLENRFPNAEI 69 (71)
T ss_pred ChhHHHHHHHHHHHc-CCeEEEEec-CCCeEEEEEEcCHHHHHHHHHHHHHhCccCcc
Confidence 556677888888876 777777788 7788776 45422668888888888877775
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=46.71 E-value=51 Score=28.65 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=36.3
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEEe-------ccCCCHHHHHHHHHhh
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVVT-------GDGVDSASLAKRLGKK 61 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~-------G~~vDp~~l~~~l~kk 61 (86)
...++..|.+++||.+|++.+ ...++.|. ..|+++.++.+.|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G-~~~ei~V~vD~~kl~~~gls~~dV~~~i~~~ 210 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFG-SQYAMRIWLDPAKLNSYQLTPADVISAIQAQ 210 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecC-CceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 456888999999999999999 56666663 4458889999999873
No 55
>PRK11023 outer membrane lipoprotein; Provisional
Probab=46.20 E-value=55 Score=22.68 Aligned_cols=41 Identities=20% Similarity=0.115 Sum_probs=30.8
Q ss_pred chhhHHHHHHHhccCCCceE--EEecCCccceEEEeccCCCHHHH
Q 048525 12 CDKCRSKAMETAADTDGVIS--VSLQGKYKDTVVVTGDGVDSASL 54 (86)
Q Consensus 12 C~~C~~kv~k~l~~~~GV~s--V~vd~~~~~~vtV~G~~vDp~~l 54 (86)
...=..+++.+|..-+++.+ |.+.. .++.|++.|. ++..+.
T Consensus 125 D~~It~kik~~L~~~~~v~~~~I~V~t-~~G~V~L~G~-v~~~e~ 167 (191)
T PRK11023 125 DTWITTKVRSQLLTSDSVKSSNVKVTT-ENGEVFLLGL-VTQREA 167 (191)
T ss_pred cHHHHHHHHHHHhcCCCCCcceEEEEE-ECcEEEEEEE-eCHHHH
Confidence 33467788888887777765 66666 6899999999 887654
No 56
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=46.00 E-value=19 Score=24.52 Aligned_cols=43 Identities=14% Similarity=0.105 Sum_probs=29.9
Q ss_pred hhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHh
Q 048525 14 KCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 14 ~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~k 60 (86)
+|.++++.+|. ...-|+.+.+...++|=.|. =|...++..|+.
T Consensus 98 ~i~rkvlQ~Le---~~~~ve~hp~gGR~lt~~Gq-rdldrIa~~i~~ 140 (143)
T KOG3411|consen 98 GIARKVLQALE---KMGIVEKHPKGGRRLTEQGQ-RDLDRIAGQIRE 140 (143)
T ss_pred HHHHHHHHHHH---hCCceeeCCCCcceeCcccc-hhHHHHHHHHHh
Confidence 45555555555 55556666634457999998 899999988875
No 57
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=44.65 E-value=60 Score=28.43 Aligned_cols=47 Identities=17% Similarity=0.246 Sum_probs=36.3
Q ss_pred hHHHHHHHhccCCCceEEEecCCccceEEE-------eccCCCHHHHHHHHHhh
Q 048525 15 CRSKAMETAADTDGVISVSLQGKYKDTVVV-------TGDGVDSASLAKRLGKK 61 (86)
Q Consensus 15 C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV-------~G~~vDp~~l~~~l~kk 61 (86)
-.+.++..|++++||.+|++-+.....+.| .+.|+++.+|.+.|+..
T Consensus 156 ~~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~~ai~~q 209 (1009)
T COG0841 156 AASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQSAIRAQ 209 (1009)
T ss_pred HHHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 356788899999999999999833555666 45567888888888863
No 58
>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=44.30 E-value=76 Score=19.60 Aligned_cols=32 Identities=22% Similarity=0.247 Sum_probs=24.0
Q ss_pred EEEEEeech-hhHHHHHHHh-ccCCCceEEEecC
Q 048525 5 VIKVQVRCD-KCRSKAMETA-ADTDGVISVSLQG 36 (86)
Q Consensus 5 vlkV~m~C~-~C~~kv~k~l-~~~~GV~sV~vd~ 36 (86)
.+.+-|..+ +--..+..++ +..+||+|+++..
T Consensus 52 ~v~~vv~D~~~~~d~lee~i~~~~e~Vqsvei~~ 85 (89)
T PF00736_consen 52 QVSCVVEDDEGSTDDLEEAIESFEEGVQSVEIES 85 (89)
T ss_dssp EEEEEECTTTCGHHHHHHHHTTCTTTEEEEEEEE
T ss_pred EEEEEEEcCccChHHHHHHHHhcCCCccEEEEEE
Confidence 334445544 6778888899 9999999999864
No 59
>KOG4034 consensus Uncharacterized conserved protein NOF (Neighbor of FAU) [Function unknown]
Probab=42.52 E-value=60 Score=22.75 Aligned_cols=58 Identities=16% Similarity=0.128 Sum_probs=42.6
Q ss_pred EEEEEEEeechhhHHHHHHHhccCCCc-eEEEecCCccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 3 KIVIKVQVRCDKCRSKAMETAADTDGV-ISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 3 ~vvlkV~m~C~~C~~kv~k~l~~~~GV-~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
+++=||+-.=..|...++..|.-++|= -+-.++. -.+++...|+.+| .|-+.|.++|+
T Consensus 111 T~IRkVeGDi~aLe~DL~s~L~~~~~~s~~t~Vne-lsgqI~~~g~~v~--~vr~~L~eKGF 169 (169)
T KOG4034|consen 111 TVIRKVEGDIWALENDLRSTLEMSPKKSYATHVNE-LSGQIVLKGNHVD--TVREWLQEKGF 169 (169)
T ss_pred EEEEeecccHHHHHHHHHHHHhhccCCChhhhhhh-hcceEEEeCChHH--HHHHHHHHccC
Confidence 344566666678999999999887773 2234776 7899999998666 77777777664
No 60
>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=41.60 E-value=35 Score=19.45 Aligned_cols=20 Identities=25% Similarity=0.283 Sum_probs=16.6
Q ss_pred HHHHHHhccCCCceEEEecC
Q 048525 17 SKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~vd~ 36 (86)
..-.+.|.+.|||.+|+-|.
T Consensus 58 ~~~i~~L~~~p~V~~Ve~D~ 77 (82)
T PF05922_consen 58 EEEIEKLRKDPGVKSVEPDQ 77 (82)
T ss_dssp HHHHHHHHTSTTEEEEEEEC
T ss_pred HHHHHHHHcCCCeEEEEeCc
Confidence 34557889999999999985
No 61
>PRK09579 multidrug efflux protein; Reviewed
Probab=41.46 E-value=90 Score=27.11 Aligned_cols=46 Identities=11% Similarity=0.146 Sum_probs=35.4
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEEe-------ccCCCHHHHHHHHHhh
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVVT-------GDGVDSASLAKRLGKK 61 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~-------G~~vDp~~l~~~l~kk 61 (86)
.+.++..|.+++||.+|++.+....++.|. ..|+.+.++.+.|+..
T Consensus 158 ~~~i~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~~ 210 (1017)
T PRK09579 158 SRVIQPKLATLPGMAEAEILGNQVFAMRLWLDPVKLAGFGLSAGDVTQAVRRY 210 (1017)
T ss_pred HHHHHHHhhcCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 456888999999999999998444456663 2357889999999874
No 62
>PF07683 CobW_C: Cobalamin synthesis protein cobW C-terminal domain; InterPro: IPR011629 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [].; PDB: 1NIJ_A.
Probab=41.29 E-value=31 Score=20.37 Aligned_cols=23 Identities=22% Similarity=0.387 Sum_probs=16.8
Q ss_pred ccceEEEeccCCCHHHHHHHHHh
Q 048525 38 YKDTVVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 38 ~~~~vtV~G~~vDp~~l~~~l~k 60 (86)
..++++++|.++|...|.+.|..
T Consensus 70 ~~~~lV~IG~~ld~~~l~~~l~~ 92 (94)
T PF07683_consen 70 RDSRLVFIGKNLDKEALREALDA 92 (94)
T ss_dssp --EEEEEEEES--HHHHHHHHHT
T ss_pred CCeEEEEEECCCCHHHHHHHHHc
Confidence 56889999999999999988865
No 63
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=41.19 E-value=71 Score=27.68 Aligned_cols=47 Identities=21% Similarity=0.285 Sum_probs=35.3
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEEe-------ccCCCHHHHHHHHHhhc
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVVT-------GDGVDSASLAKRLGKKL 62 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~-------G~~vDp~~l~~~l~kk~ 62 (86)
...++..|.+++||.+|.+.+....++.|. ..|+.+.++.+.|+...
T Consensus 159 ~~~l~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~~~ 212 (1025)
T PRK10614 159 STQLAQTISQIDGVGDVDVGGSSLPAVRVGLNPQALFNQGVSLDDVRQAISNAN 212 (1025)
T ss_pred HHHHHHHhcCCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 457889999999999999998334456663 33478888888888653
No 64
>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=40.86 E-value=34 Score=18.20 Aligned_cols=19 Identities=26% Similarity=0.417 Sum_probs=16.1
Q ss_pred HHHHHHHhccCCCceEEEe
Q 048525 16 RSKAMETAADTDGVISVSL 34 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~v 34 (86)
...+.+.|.+++||.+|..
T Consensus 52 ~~~l~~~l~~~~~V~~v~~ 70 (71)
T cd04879 52 PEEVLEELKALPGIIRVRL 70 (71)
T ss_pred CHHHHHHHHcCCCeEEEEE
Confidence 4588999999999999864
No 65
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=40.84 E-value=61 Score=21.13 Aligned_cols=33 Identities=21% Similarity=0.305 Sum_probs=25.1
Q ss_pred cceEEEeccCCCHHHHHHHHHhhcC-ceeEEeccC
Q 048525 39 KDTVVVTGDGVDSASLAKRLGKKLG-HASLETVEE 72 (86)
Q Consensus 39 ~~~vtV~G~~vDp~~l~~~l~kk~~-~aei~s~~p 72 (86)
=+++.|.|+ +...++++.+++..+ .+..++.+.
T Consensus 34 WDr~~v~~~-~Tl~~li~~~~~~~~lev~ml~~g~ 67 (125)
T PF09358_consen 34 WDRIEVNGD-MTLQELIDYFKEKYGLEVTMLSQGV 67 (125)
T ss_dssp T-EEEEES---BHHHHHHHHHHTTS-EEEEEEETT
T ss_pred eeEEEEcCC-CCHHHHHHHHHHHhCceEEEEEeCC
Confidence 357999997 999999999999866 888887653
No 66
>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=40.53 E-value=41 Score=28.82 Aligned_cols=49 Identities=14% Similarity=0.209 Sum_probs=34.6
Q ss_pred hHHHHHHHhccCCCceEEEecCCccceEEE-------eccCCCHHHHHHHHHhhcC
Q 048525 15 CRSKAMETAADTDGVISVSLQGKYKDTVVV-------TGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 15 C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV-------~G~~vDp~~l~~~l~kk~~ 63 (86)
....++..|.+++||.+|++.+....++.| ..+++++.++.+.|+....
T Consensus 157 ~~~~l~~~L~~i~gV~~v~~~G~~~~ei~i~~d~~kl~~~gls~~~v~~~l~~~n~ 212 (1021)
T PF00873_consen 157 AEEQLKPRLERIPGVARVDISGGREREIQIELDPEKLAAYGLSLSDVAQALQANNV 212 (1021)
T ss_dssp HHHCTHHHHHTSTTEEEEEESSS--EEEEEEE-HHHHHHTT--HHHHHHHHHHHSC
T ss_pred HHHHHHHhccceeEEEEEEeccchhhhhhheechhhhhhhCCCHHHHHHHHHHhhh
Confidence 445688899999999999999844555666 3445788888888887544
No 67
>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=40.06 E-value=34 Score=21.44 Aligned_cols=25 Identities=36% Similarity=0.571 Sum_probs=20.7
Q ss_pred ccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 38 YKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 38 ~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
.+-.+.+.|+ +|+..+.+.+.+.+.
T Consensus 18 ~n~~l~i~Gd-~~~~~~~~~i~~~~~ 42 (184)
T PF05193_consen 18 SNMTLVIVGD-IDPDELEKLIEKYFG 42 (184)
T ss_dssp GGEEEEEEES-SGHHHHHHHHHHHHT
T ss_pred cceEEEEEcC-ccHHHHHHHHHhhhh
Confidence 3456889999 999999999998654
No 68
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=39.00 E-value=27 Score=22.50 Aligned_cols=19 Identities=21% Similarity=0.436 Sum_probs=15.6
Q ss_pred eechhhHHHHHHHhc--cCCC
Q 048525 10 VRCDKCRSKAMETAA--DTDG 28 (86)
Q Consensus 10 m~C~~C~~kv~k~l~--~~~G 28 (86)
++|..|++.+++.|. +++|
T Consensus 19 ~qC~~cA~Al~~~L~~~gI~G 39 (100)
T PF15643_consen 19 FQCVECASALKQFLKQAGIPG 39 (100)
T ss_pred eehHHHHHHHHHHHHHCCCCc
Confidence 789999999999885 4444
No 69
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=38.67 E-value=82 Score=18.40 Aligned_cols=41 Identities=20% Similarity=0.402 Sum_probs=27.8
Q ss_pred HhccCCCceEEEecCCccceEEEeccC-CCHHHHHHHHHhhcC
Q 048525 22 TAADTDGVISVSLQGKYKDTVVVTGDG-VDSASLAKRLGKKLG 63 (86)
Q Consensus 22 ~l~~~~GV~sV~vd~~~~~~vtV~G~~-vDp~~l~~~l~kk~~ 63 (86)
.|..-+---.+..|. +.+.+.+.|-| +--+-++++|++.++
T Consensus 27 ~l~~eDP~l~~~~d~-et~e~~l~g~Gelhlev~~~~L~~~~~ 68 (75)
T PF14492_consen 27 KLSEEDPSLRVERDE-ETGELILSGMGELHLEVLLERLKRRFG 68 (75)
T ss_dssp HHHHH-TTSEEEEET-TTSEEEEEESSHHHHHHHHHHHHHTTC
T ss_pred HHHhcCCeEEEEEcc-hhceEEEEECCHHHHHHHHHHHHHHHC
Confidence 333334444678887 77887775554 788889999998664
No 70
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=37.63 E-value=53 Score=21.15 Aligned_cols=30 Identities=20% Similarity=0.336 Sum_probs=24.5
Q ss_pred EEecCCccceEEEeccCCCHHHHHHHHHhhcCc
Q 048525 32 VSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGH 64 (86)
Q Consensus 32 V~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~ 64 (86)
..+|. + +++++.|. +++..+-+.|++....
T Consensus 50 g~id~-~-~rlii~G~-~~~~~i~~~l~~yI~~ 79 (110)
T smart00653 50 GSIDG-K-GRLIVNGR-FTPKKLQDLLRRYIKE 79 (110)
T ss_pred eeECC-C-CeEEEEEe-eCHHHHHHHHHHHHHh
Confidence 45665 4 99999999 9999999999986554
No 71
>PF01981 PTH2: Peptidyl-tRNA hydrolase PTH2; InterPro: IPR002833 Peptidyl-tRNA hydrolases are enzymes that release tRNAs from peptidyl-tRNA during translation.; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 1RLK_A 1XTY_C 2ZV3_I 2D3K_A 1WN2_A 1Q7S_A 3ERJ_B 1RZW_A.
Probab=37.63 E-value=1.1e+02 Score=19.40 Aligned_cols=58 Identities=17% Similarity=0.176 Sum_probs=32.7
Q ss_pred CeEEEEEEEeechhhHHHHHHHhccCCCceE-EEecC----CccceEEEeccCCCHHHHHHHHHhh
Q 048525 1 MQKIVIKVQVRCDKCRSKAMETAADTDGVIS-VSLQG----KYKDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 1 m~~vvlkV~m~C~~C~~kv~k~l~~~~GV~s-V~vd~----~~~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
|.+|+|+++ .+.--..+.+.+.. .|+.. +-.|. ...+..||.|-|..|...++.+-+.
T Consensus 50 ~~Kivlkv~--~e~~L~~l~~~a~~-~gl~~~~i~Dag~Tei~pgs~TvlaigP~~~~~i~~it~~ 112 (116)
T PF01981_consen 50 QKKIVLKVP--SEEELLELAKKAKE-AGLPHYLIRDAGRTEIPPGSVTVLAIGPAPKEEIDKITGH 112 (116)
T ss_dssp TSEEEEEES--SHHHHHHHHHHHHH-TT-SEEEEEETSSSSSSTTCEEEEEEEEEEHHHHHHHHTT
T ss_pred CceEEEEeC--CHHHHHHHHHHHHH-CCCCEEEEEECCCCcCCCCCeEEEEECcCCHHHHHHHhCc
Confidence 467888876 22233334444432 34433 33342 0345678877777888888887653
No 72
>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=37.22 E-value=19 Score=21.63 Aligned_cols=23 Identities=17% Similarity=0.258 Sum_probs=18.5
Q ss_pred ccCCCc--eEEEecCCccceEEEecc
Q 048525 24 ADTDGV--ISVSLQGKYKDTVVVTGD 47 (86)
Q Consensus 24 ~~~~GV--~sV~vd~~~~~~vtV~G~ 47 (86)
..+||| +.|+++. ..+.++|.|.
T Consensus 16 ~~lPGv~~edi~v~~-~~~~L~I~g~ 40 (93)
T cd06471 16 ADLPGFKKEDIKLDY-KDGYLTISAK 40 (93)
T ss_pred EECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 357888 4588888 7889999998
No 73
>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=36.77 E-value=44 Score=18.26 Aligned_cols=18 Identities=28% Similarity=0.398 Sum_probs=14.7
Q ss_pred HHHHHHhccCCCceEEEe
Q 048525 17 SKAMETAADTDGVISVSL 34 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~v 34 (86)
..+.+.|.+++||.+|.+
T Consensus 51 ~~li~~l~~~~~V~~v~~ 68 (69)
T cd04901 51 EELLEALRAIPGTIRVRL 68 (69)
T ss_pred HHHHHHHHcCCCeEEEEE
Confidence 467788889999999864
No 74
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=35.61 E-value=54 Score=20.12 Aligned_cols=39 Identities=23% Similarity=0.126 Sum_probs=25.9
Q ss_pred EecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEeccC
Q 048525 33 SLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVEE 72 (86)
Q Consensus 33 ~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p 72 (86)
-+|. ...++.|.|.|--...-++.|-+.+.+..+++...
T Consensus 2 ~l~l-~~~~vlVvGgG~va~~k~~~Ll~~gA~v~vis~~~ 40 (103)
T PF13241_consen 2 FLDL-KGKRVLVVGGGPVAARKARLLLEAGAKVTVISPEI 40 (103)
T ss_dssp EE---TT-EEEEEEESHHHHHHHHHHCCCTBEEEEEESSE
T ss_pred EEEc-CCCEEEEECCCHHHHHHHHHHHhCCCEEEEECCch
Confidence 3566 77889999986555666666667677888887763
No 75
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=35.59 E-value=75 Score=18.18 Aligned_cols=33 Identities=27% Similarity=0.267 Sum_probs=21.3
Q ss_pred eEEEeccCCCHHHHHHHHHhhcCceeEEeccCC
Q 048525 41 TVVVTGDGVDSASLAKRLGKKLGHASLETVEEM 73 (86)
Q Consensus 41 ~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p~ 73 (86)
+++|.|-|+-.-.++..|...+.++.++...+.
T Consensus 1 ~vvViGgG~ig~E~A~~l~~~g~~vtli~~~~~ 33 (80)
T PF00070_consen 1 RVVVIGGGFIGIELAEALAELGKEVTLIERSDR 33 (80)
T ss_dssp EEEEESSSHHHHHHHHHHHHTTSEEEEEESSSS
T ss_pred CEEEECcCHHHHHHHHHHHHhCcEEEEEeccch
Confidence 356667666666777777776667776655443
No 76
>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=35.13 E-value=72 Score=23.97 Aligned_cols=44 Identities=23% Similarity=0.284 Sum_probs=30.8
Q ss_pred EEeechhhHHHHHHHhccCCCceEEEecCCcc-----------ceEEEeccCCCHHHH
Q 048525 8 VQVRCDKCRSKAMETAADTDGVISVSLQGKYK-----------DTVVVTGDGVDSASL 54 (86)
Q Consensus 8 V~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~-----------~~vtV~G~~vDp~~l 54 (86)
+-+|+.|....+...+..+ |+..+.+|. .. +++++.|+ +||.-|
T Consensus 215 iilH~cG~~~~~l~~~~e~-g~dvl~~d~-~~~dl~eak~~~g~k~~l~GN-lDp~~L 269 (321)
T cd03309 215 IVHHSCGAAASLVPSMAEM-GVDSWNVVM-TANNTAELRRLLGDKVVLAGA-IDDVAL 269 (321)
T ss_pred eEEEeCCCcHHHHHHHHHc-CCCEEEecC-CCCCHHHHHHHhCCCeEEEcC-CChHHh
Confidence 4466555555667777666 888888876 43 47999998 998544
No 77
>PF08210 APOBEC_N: APOBEC-like N-terminal domain; InterPro: IPR013158 This domain is found at the N terminus of the Apolipoprotein B mRNA editing enzyme. Apobec-1 catalyzes C to U editing of apolipoprotein B (apoB) mRNA in the mammalian intestine. The N-terminal domain of APOBEC-1 like proteins is the catalytic domain, while the C-terminal domain is a pseudocatalyitc domain. More specifically, the catalytic domain is a zinc dependent deaminases domain and is essential for cytidine deamination. APOBEC-3 like members contain two copies of this domain. This family also includes the functionally homologous activation induced deaminase, which is essential for the development of antibody diversity in B lymphocytes. RNA editing by APOBEC-1 requires homodimerisation and this complex interacts with RNA binding proteins to from the editosome [] (and references therein).; GO: 0008270 zinc ion binding, 0016814 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; PDB: 3IQS_A 3IR2_A 3V4J_B 2KEM_A 2KBO_A 3V4K_A 3E1U_A 2JYW_A 2RPZ_A.
Probab=34.67 E-value=53 Score=22.88 Aligned_cols=62 Identities=15% Similarity=0.186 Sum_probs=35.7
Q ss_pred EEEEEEEee-chh----hHHHHHHHhccC--CCceEEEecCCccceEEEeccCCC---HHHHHHHHHhhcCceeEEe
Q 048525 3 KIVIKVQVR-CDK----CRSKAMETAADT--DGVISVSLQGKYKDTVVVTGDGVD---SASLAKRLGKKLGHASLET 69 (86)
Q Consensus 3 ~vvlkV~m~-C~~----C~~kv~k~l~~~--~GV~sV~vd~~~~~~vtV~G~~vD---p~~l~~~l~kk~~~aei~s 69 (86)
+|++-++.+ |.. |++++...|.+. ++|. +.|-. .++==..+ -. -.+=+..|...|-..++.+
T Consensus 75 ~ITwy~SwSPC~~~~~~Ca~~i~~FL~~~~~~~v~-L~I~~---arLY~~~~-~~~~~~~eGLr~L~~aGv~v~iM~ 146 (188)
T PF08210_consen 75 RITWYLSWSPCPESDHCCAEKIAEFLKKHLKPNVS-LSIFA---ARLYYHWE-PEPLWNQEGLRRLASAGVQVEIMS 146 (188)
T ss_dssp EEEEEESSS--CC----HHHHHHHHHCCC--TTEE-EEEEE---SS--STTS-TT---HHHHHHHHHHCTEEEEE-S
T ss_pred EEEEEEecCCCcchhhHHHHHHHHHHHHhCCCCCe-EEEEE---EeeeeecC-CcchhHHHHHHHHHHcCCEEEEcC
Confidence 466777744 999 999999999999 8874 22221 22322333 22 3455666666555666553
No 78
>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=34.55 E-value=48 Score=17.69 Aligned_cols=19 Identities=16% Similarity=0.218 Sum_probs=15.7
Q ss_pred HHHHHHHhccCCCceEEEe
Q 048525 16 RSKAMETAADTDGVISVSL 34 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~v 34 (86)
...+.+.|.+++||.+|..
T Consensus 52 ~~~~i~~l~~~~~v~~v~~ 70 (71)
T cd04903 52 DEEVIEEIKKIPNIHQVIL 70 (71)
T ss_pred CHHHHHHHHcCCCceEEEE
Confidence 4578889999999998864
No 79
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=34.45 E-value=67 Score=21.34 Aligned_cols=50 Identities=18% Similarity=0.237 Sum_probs=33.2
Q ss_pred hhHHHHHHHhccCCC--ceEEEecCCccceEEEeccCCCHHHHHHHHHhhcCcee
Q 048525 14 KCRSKAMETAADTDG--VISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHAS 66 (86)
Q Consensus 14 ~C~~kv~k~l~~~~G--V~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~ae 66 (86)
.-+++|.++|.+ .| ...+.+.. ..+.|++.|. +.-.....++....+.+.
T Consensus 26 ~~~~~i~~~i~~-~~~~~~~i~V~v-~~G~v~l~G~-v~s~~~~~~~~~aa~~v~ 77 (147)
T PRK11198 26 DAADALKEHISK-QGLGDADVNVQV-EDGKATVSGD-AASQEAKEKILLAVGNIQ 77 (147)
T ss_pred HHHHHHHHHHHh-cCCCcCCceEEE-eCCEEEEEEE-eCCHHHHHHHHHHhccCC
Confidence 445677777754 23 33355555 6799999999 877777777766554443
No 80
>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=34.26 E-value=97 Score=26.89 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=33.3
Q ss_pred HHHHHhccCCCceEEEecCCccceEEE-------eccCCCHHHHHHHHHhhc
Q 048525 18 KAMETAADTDGVISVSLQGKYKDTVVV-------TGDGVDSASLAKRLGKKL 62 (86)
Q Consensus 18 kv~k~l~~~~GV~sV~vd~~~~~~vtV-------~G~~vDp~~l~~~l~kk~ 62 (86)
.++..|.+++||.+|.+.+....++.| ...|+++.++.+.|+...
T Consensus 170 ~l~~~L~~i~GV~~V~~~G~~~~ei~V~iD~~kl~~~glt~~dV~~~l~~~~ 221 (1051)
T TIGR00914 170 IIRPQLRTVPGVAEVNSIGGYVKQFLVAPDPEKLAAYGLSLADVVNALERNN 221 (1051)
T ss_pred HHHHHHhcCCCceEeeecCCceEEEEEEECHHHHHHcCCCHHHHHHHHHHhC
Confidence 366789999999999999844445666 233478888889888653
No 81
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=34.09 E-value=46 Score=20.42 Aligned_cols=24 Identities=21% Similarity=0.177 Sum_probs=19.4
Q ss_pred EEEeccCCCHHHHHHHHHhhcCce
Q 048525 42 VVVTGDGVDSASLAKRLGKKLGHA 65 (86)
Q Consensus 42 vtV~G~~vDp~~l~~~l~kk~~~a 65 (86)
=|...+++|+..|+..|.++++..
T Consensus 38 hTCSa~~m~a~~Li~FL~~kgKfi 61 (77)
T TIGR03853 38 HTCSAEGMTADELLQFLLKKGKFI 61 (77)
T ss_pred eecccccCCHHHHHHHHHHCCCEe
Confidence 355666799999999999988744
No 82
>PF13738 Pyr_redox_3: Pyridine nucleotide-disulphide oxidoreductase; PDB: 3D1C_A 4A9W_B 2YLX_A 2YM2_A 2YLW_A 2YLR_A 2YM1_A 2YLS_A 1W4X_A 2YLT_A ....
Probab=33.60 E-value=65 Score=21.17 Aligned_cols=35 Identities=29% Similarity=0.274 Sum_probs=26.9
Q ss_pred ccceEEEeccCCCHHHHHHHHHhhcCceeEEeccC
Q 048525 38 YKDTVVVTGDGVDSASLAKRLGKKLGHASLETVEE 72 (86)
Q Consensus 38 ~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p 72 (86)
...+|.|.|.|..+.+++..|.+.+.++.++.=.|
T Consensus 166 ~~k~V~VVG~G~SA~d~a~~l~~~g~~V~~~~R~~ 200 (203)
T PF13738_consen 166 KGKRVVVVGGGNSAVDIAYALAKAGKSVTLVTRSP 200 (203)
T ss_dssp TTSEEEEE--SHHHHHHHHHHTTTCSEEEEEESS-
T ss_pred CCCcEEEEcChHHHHHHHHHHHhhCCEEEEEecCC
Confidence 46789999999999999999999888888775444
No 83
>COG1941 FrhG Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]
Probab=33.60 E-value=2e+02 Score=21.40 Aligned_cols=58 Identities=17% Similarity=0.228 Sum_probs=33.2
Q ss_pred eechhhHHHHHH---HhccC----CCceEEE-ecC---CccceEEEeccCCCHHHHHHHHHhhcCceeEE
Q 048525 10 VRCDKCRSKAME---TAADT----DGVISVS-LQG---KYKDTVVVTGDGVDSASLAKRLGKKLGHASLE 68 (86)
Q Consensus 10 m~C~~C~~kv~k---~l~~~----~GV~sV~-vd~---~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~ 68 (86)
..|.||..++.. .|..+ +=|.+-. +|. .+-+-+.|.|. +.-+.=++.++....+|+++
T Consensus 12 ~gC~GC~~slldl~E~L~dll~~~div~~~~l~D~keiPEvDValVEGs-V~~ee~lE~v~ElRekakiv 80 (247)
T COG1941 12 TGCSGCHMSLLDLYEKLLDLLEDADIVYCPTLVDEKEIPEVDVALVEGS-VCDEEELELVKELREKAKIV 80 (247)
T ss_pred ccccchHHHHHhHHHHHHHhhhhhcEEEeecccccccCCcccEEEEecc-cCcHHHHHHHHHHHHhCcEE
Confidence 349999996543 23222 2244422 332 01267899998 76666666666655566654
No 84
>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=33.59 E-value=26 Score=24.26 Aligned_cols=29 Identities=14% Similarity=0.291 Sum_probs=25.9
Q ss_pred cCCCceEEEecCCccceEEEeccCCCHHHHH
Q 048525 25 DTDGVISVSLQGKYKDTVVVTGDGVDSASLA 55 (86)
Q Consensus 25 ~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~ 55 (86)
-+.|-..|.++. +...+++.|. +.|.+|-
T Consensus 110 ~I~G~k~i~vn~-e~~~i~lsGi-VRp~DI~ 138 (179)
T PF02107_consen 110 VIEGEKQIRVNG-EEQYIRLSGI-VRPEDID 138 (179)
T ss_pred EEEEEEEEEECC-CEEEEEEEEE-ECHHHCC
Confidence 467889999999 9999999999 9999885
No 85
>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=33.51 E-value=89 Score=17.30 Aligned_cols=28 Identities=11% Similarity=0.120 Sum_probs=16.8
Q ss_pred EEEeechhhHHHHHHHhccCCCceEEEe
Q 048525 7 KVQVRCDKCRSKAMETAADTDGVISVSL 34 (86)
Q Consensus 7 kV~m~C~~C~~kv~k~l~~~~GV~sV~v 34 (86)
.+......=-..++..|..++||...++
T Consensus 45 ~vev~~~~~l~~i~~~L~~i~gV~~~~~ 72 (74)
T cd04887 45 TVDAPSEEHAETIVAAVRALPEVKVLSV 72 (74)
T ss_pred EEEcCCHHHHHHHHHHHhcCCCeEEEEe
Confidence 3333444444567777777777766554
No 86
>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=33.13 E-value=30 Score=21.28 Aligned_cols=24 Identities=21% Similarity=0.268 Sum_probs=19.4
Q ss_pred hccCCCceE--EEecCCccceEEEecc
Q 048525 23 AADTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 23 l~~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
-..+||+.. |++.. ..+.|+|.|.
T Consensus 13 ~adlPG~~kedI~V~v-~~~~L~I~ge 38 (87)
T cd06482 13 SVDVCGFEPDQVKVKV-KDGKVQVSAE 38 (87)
T ss_pred EEECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 346888865 78887 7899999998
No 87
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=32.86 E-value=1.1e+02 Score=21.25 Aligned_cols=46 Identities=24% Similarity=0.278 Sum_probs=34.6
Q ss_pred CeEEEEEE---EeechhhHHHHHHHhccCCCceEEEecCCccceEEEecc
Q 048525 1 MQKIVIKV---QVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGD 47 (86)
Q Consensus 1 m~~vvlkV---~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~ 47 (86)
|.|||++= +|.=.-=-+.|...|+.+.-|+||+.-+ .++-++|-++
T Consensus 86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-rqsavVvF~d 134 (166)
T PF15023_consen 86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-RQSAVVVFKD 134 (166)
T ss_pred ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-CceEEEEehh
Confidence 66777554 4665555588999999999999999988 6666666666
No 88
>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=32.74 E-value=32 Score=20.80 Aligned_cols=22 Identities=18% Similarity=0.318 Sum_probs=17.8
Q ss_pred cCCCceE--EEecCCccceEEEecc
Q 048525 25 DTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 25 ~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
.+||+.. +.++. ..+.++|.|.
T Consensus 17 dlPG~~~edi~V~v-~~~~L~I~g~ 40 (86)
T cd06475 17 DVNHFAPEELVVKT-KDGVVEITGK 40 (86)
T ss_pred ECCCCCHHHEEEEE-ECCEEEEEEE
Confidence 5788764 77777 7789999998
No 89
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=32.20 E-value=80 Score=21.11 Aligned_cols=39 Identities=18% Similarity=0.150 Sum_probs=29.7
Q ss_pred EEecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEecc
Q 048525 32 VSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVE 71 (86)
Q Consensus 32 V~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~ 71 (86)
+-+|. ...++.|.|-|-=....++.|-+.+..+.++++.
T Consensus 7 ~~l~l-~~~~vlVvGGG~va~rka~~Ll~~ga~V~VIsp~ 45 (157)
T PRK06719 7 LMFNL-HNKVVVIIGGGKIAYRKASGLKDTGAFVTVVSPE 45 (157)
T ss_pred eEEEc-CCCEEEEECCCHHHHHHHHHHHhCCCEEEEEcCc
Confidence 45677 7788999998655666778888878888888644
No 90
>PRK04021 hypothetical protein; Reviewed
Probab=32.08 E-value=1.3e+02 Score=18.75 Aligned_cols=47 Identities=15% Similarity=0.187 Sum_probs=33.7
Q ss_pred eechhhHHHHHHHhccCCCceEEEecCCc---cceEEEeccCCCHHHHHHHHH
Q 048525 10 VRCDKCRSKAMETAADTDGVISVSLQGKY---KDTVVVTGDGVDSASLAKRLG 59 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~sV~vd~~~---~~~vtV~G~~vDp~~l~~~l~ 59 (86)
..-+++...+.+.|++.=|+ +|++-.-. ...+.+.| +|++.+..+|.
T Consensus 42 P~~GkAN~ali~~LAk~l~~-~I~I~~G~~sr~K~v~i~g--~~~e~l~~~L~ 91 (92)
T PRK04021 42 PVKGKANKELVKFFSKLLGA-EVEIIRGETSREKDLLVKG--ISLEEVKKKLK 91 (92)
T ss_pred CCCChHHHHHHHHHHHHhCC-CEEEEecCCcCceEEEEec--CCHHHHHHHhc
Confidence 45778888999999888887 67774212 22366666 69999988874
No 91
>cd02643 R3H_NF-X1 R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=31.45 E-value=1e+02 Score=18.20 Aligned_cols=29 Identities=28% Similarity=0.329 Sum_probs=21.4
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEE
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVV 44 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV 44 (86)
.+++.+.|....|+.|.+.|.+....|.|
T Consensus 44 eR~iIH~la~~~~l~S~S~G~ep~R~VvI 72 (74)
T cd02643 44 KRRIVHELAEHFGIESVSYDQEPKRNVVA 72 (74)
T ss_pred HHHHHHHHHhhCCCEEEecCCCCCceEEE
Confidence 56777778899999999999844333544
No 92
>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=31.12 E-value=74 Score=20.92 Aligned_cols=29 Identities=21% Similarity=0.358 Sum_probs=24.0
Q ss_pred EEecCCccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 32 VSLQGKYKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 32 V~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
..+|. . +++++.|. +++..|-+.|++...
T Consensus 63 ~~id~-~-~~lii~G~-~~~~~i~~~L~~fI~ 91 (125)
T PF01873_consen 63 GSIDG-K-GRLIINGR-FSSKQIQDLLDKFIK 91 (125)
T ss_dssp EEEET-T-TEEEEESS-SSCCHHHHHHHHHHC
T ss_pred eEECC-C-CEEEEEEe-cCHHHHHHHHHHHHH
Confidence 56675 4 99999998 999999999988643
No 93
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=30.60 E-value=24 Score=23.24 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=19.7
Q ss_pred hccCCCceE--EEecCCccceEEEecc
Q 048525 23 AADTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 23 l~~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
...+||+.. |+|.. ..+.|+|.|.
T Consensus 55 ~~elPG~~kedI~I~~-~~~~l~I~g~ 80 (146)
T COG0071 55 TAELPGVDKEDIEITV-EGNTLTIRGE 80 (146)
T ss_pred EEEcCCCChHHeEEEE-ECCEEEEEEE
Confidence 457889865 88888 8899999998
No 94
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=30.26 E-value=1.6e+02 Score=19.29 Aligned_cols=43 Identities=28% Similarity=0.288 Sum_probs=32.7
Q ss_pred HHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhh
Q 048525 16 RSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
...++.++..+ |-+.|..=. ..+.|....+ -|+..|..+|.+.
T Consensus 21 MaeLr~~l~~~-Gf~~V~Tyi-~SGNvvf~~~-~~~~~l~~~ie~~ 63 (137)
T PF08002_consen 21 MAELREALEDL-GFTNVRTYI-QSGNVVFESD-RDPAELAAKIEKA 63 (137)
T ss_dssp HHHHHHHHHHC-T-EEEEEET-TTTEEEEEES-S-HHHHHHHHHHH
T ss_pred HHHHHHHHHHc-CCCCceEEE-eeCCEEEecC-CChHHHHHHHHHH
Confidence 34556677766 999999999 9999999976 8999998877653
No 95
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=29.98 E-value=78 Score=21.65 Aligned_cols=24 Identities=17% Similarity=0.098 Sum_probs=19.2
Q ss_pred hhhHHHHHHHhccCCCceEEEecC
Q 048525 13 DKCRSKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 13 ~~C~~kv~k~l~~~~GV~sV~vd~ 36 (86)
.||-=-+.....+++||.++.+--
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGY 31 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGR 31 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEc
Confidence 567777777888899999998754
No 96
>PRK10568 periplasmic protein; Provisional
Probab=29.69 E-value=1.1e+02 Score=21.37 Aligned_cols=42 Identities=19% Similarity=0.285 Sum_probs=29.4
Q ss_pred eechhhHHHHHHHhccCCCce--EEEecCCccceEEEeccCCCHHH
Q 048525 10 VRCDKCRSKAMETAADTDGVI--SVSLQGKYKDTVVVTGDGVDSAS 53 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~--sV~vd~~~~~~vtV~G~~vDp~~ 53 (86)
+....=..++..+|..-+++. .|.+.. ..+.|++.|. ++-..
T Consensus 56 ~~D~~I~~~v~~~L~~~~~i~~~~I~V~v-~~G~V~L~G~-V~s~~ 99 (203)
T PRK10568 56 MDDSAITAKVKAALVDHDNIKSTDISVKT-HQKVVTLSGF-VESQA 99 (203)
T ss_pred ccHHHHHHHHHHHHHhCCCCCCCceEEEE-ECCEEEEEEE-eCCHH
Confidence 344556677877777666664 477777 7889999998 76333
No 97
>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=29.58 E-value=29 Score=19.78 Aligned_cols=23 Identities=17% Similarity=0.387 Sum_probs=18.7
Q ss_pred ccCCCc--eEEEecCCccceEEEecc
Q 048525 24 ADTDGV--ISVSLQGKYKDTVVVTGD 47 (86)
Q Consensus 24 ~~~~GV--~sV~vd~~~~~~vtV~G~ 47 (86)
..+||+ +++.+.. ..+.+.|.|.
T Consensus 13 ~~lpg~~~~~i~V~v-~~~~l~I~g~ 37 (88)
T cd06464 13 ADLPGFKKEDIKVEV-EDGVLTISGE 37 (88)
T ss_pred EECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 367888 5688888 7799999998
No 98
>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=29.55 E-value=78 Score=17.79 Aligned_cols=22 Identities=27% Similarity=0.324 Sum_probs=17.9
Q ss_pred ceEEEeccCCCHHHHHHHHHhh
Q 048525 40 DTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 40 ~~vtV~G~~vDp~~l~~~l~kk 61 (86)
+.++|.|..-.|.++.+.|.++
T Consensus 6 G~Isvs~~~~s~~d~~~~la~k 27 (56)
T PF07338_consen 6 GTISVSGNFGSPDDAEEALAKK 27 (56)
T ss_dssp EEEEEEEECSSHHHHHHHHHHH
T ss_pred EEEEEccccCCHHHHHHHHHHH
Confidence 5688988756899999999775
No 99
>PHA01634 hypothetical protein
Probab=29.48 E-value=24 Score=24.29 Aligned_cols=11 Identities=27% Similarity=0.797 Sum_probs=9.5
Q ss_pred eechhhHHHHH
Q 048525 10 VRCDKCRSKAM 20 (86)
Q Consensus 10 m~C~~C~~kv~ 20 (86)
|.|+||.+++.
T Consensus 98 iDCeGCE~~l~ 108 (156)
T PHA01634 98 MDCEGCEEKLN 108 (156)
T ss_pred EEccchHHhcC
Confidence 88999999874
No 100
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=29.32 E-value=90 Score=21.80 Aligned_cols=40 Identities=20% Similarity=0.005 Sum_probs=29.2
Q ss_pred EecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEeccCC
Q 048525 33 SLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVEEM 73 (86)
Q Consensus 33 ~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p~ 73 (86)
-++. ...++.|.|-|--...-++.|-+.+.++.++++.+.
T Consensus 4 ~l~l-~gk~vlVvGgG~va~rk~~~Ll~~ga~VtVvsp~~~ 43 (205)
T TIGR01470 4 FANL-EGRAVLVVGGGDVALRKARLLLKAGAQLRVIAEELE 43 (205)
T ss_pred EEEc-CCCeEEEECcCHHHHHHHHHHHHCCCEEEEEcCCCC
Confidence 3456 667899998875666667777777888888876554
No 101
>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=29.25 E-value=58 Score=18.66 Aligned_cols=28 Identities=11% Similarity=0.236 Sum_probs=19.8
Q ss_pred EEEecCCccceEEEeccCCCHHHHHHHHH
Q 048525 31 SVSLQGKYKDTVVVTGDGVDSASLAKRLG 59 (86)
Q Consensus 31 sV~vd~~~~~~vtV~G~~vDp~~l~~~l~ 59 (86)
+|..|. ..|.+.|.|+.-+-..+.+.|+
T Consensus 47 ~i~~d~-~tNsliv~g~~~~~~~i~~li~ 74 (82)
T PF03958_consen 47 RIVADE-RTNSLIVRGTPEDLEQIRELIK 74 (82)
T ss_dssp EEEEEC-TTTEEEEEEEHHHHHHHHHHHH
T ss_pred EEEEEC-CCCEEEEEeCHHHHHHHHHHHH
Confidence 899998 9999999998334444444333
No 102
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=29.24 E-value=93 Score=20.15 Aligned_cols=52 Identities=21% Similarity=0.305 Sum_probs=31.8
Q ss_pred eechhhHHHHHHHhccCCCceEEEecCCccceE--EEeccCCCHHHHHHHHHhhcCceeEE
Q 048525 10 VRCDKCRSKAMETAADTDGVISVSLQGKYKDTV--VVTGDGVDSASLAKRLGKKLGHASLE 68 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~v--tV~G~~vDp~~l~~~l~kk~~~aei~ 68 (86)
+.|..|.-...... |+..+.+.. .-..+ --+|. +||.-|++.|++ |-..-++
T Consensus 5 F~C~~~ay~aad~a----g~~~~~~p~-~vriIrvpC~Gr-v~~~~il~Af~~-GADGV~V 58 (124)
T PF02662_consen 5 FCCNWCAYAAADLA----GVSRLQYPP-NVRIIRVPCSGR-VDPEFILRAFEK-GADGVLV 58 (124)
T ss_pred EEeCCCcHHHHHHH----hhccCCCCC-CeEEEEccCCCc-cCHHHHHHHHHc-CCCEEEE
Confidence 66888877665433 444444433 22223 33788 999999999997 5433333
No 103
>PRK10743 heat shock protein IbpA; Provisional
Probab=29.18 E-value=36 Score=22.59 Aligned_cols=23 Identities=17% Similarity=0.359 Sum_probs=18.3
Q ss_pred ccCCCceE--EEecCCccceEEEecc
Q 048525 24 ADTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 24 ~~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
..+|||.. |+++. ..+.|||.|.
T Consensus 51 aelPGv~kedi~V~v-~~~~LtI~ge 75 (137)
T PRK10743 51 IAVAGFAESELEITA-QDNLLVVKGA 75 (137)
T ss_pred EECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 46888854 77777 7889999997
No 104
>smart00833 CobW_C Cobalamin synthesis protein cobW C-terminal domain. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis PUBMED:12869542. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression PUBMED:7765511.
Probab=28.54 E-value=98 Score=17.93 Aligned_cols=22 Identities=18% Similarity=0.400 Sum_probs=18.2
Q ss_pred cceEEEeccCCCHHHHHHHHHh
Q 048525 39 KDTVVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 39 ~~~vtV~G~~vDp~~l~~~l~k 60 (86)
.++++++|..+|...|-+.|..
T Consensus 69 ~~~lV~IG~~l~~~~l~~~l~~ 90 (92)
T smart00833 69 RTRLVFIGRDLDEEAIRAALDA 90 (92)
T ss_pred ceEEEEEeCCCCHHHHHHHHHH
Confidence 5679999998999988887764
No 105
>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=28.49 E-value=1.1e+02 Score=16.94 Aligned_cols=49 Identities=18% Similarity=0.085 Sum_probs=36.2
Q ss_pred echhhHHHHHHHhccCCCceEEEecCCccceEEE-eccCCCHHHHHHHHHhhc
Q 048525 11 RCDKCRSKAMETAADTDGVISVSLQGKYKDTVVV-TGDGVDSASLAKRLGKKL 62 (86)
Q Consensus 11 ~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV-~G~~vDp~~l~~~l~kk~ 62 (86)
...+...++.++|... ||.-+.... ....+++ .-+ -|...++++|.+.+
T Consensus 12 ~~~gv~~~~~~~L~~~-~i~~i~~~~-s~~~is~vv~~-~d~~~av~~LH~~f 61 (63)
T cd04920 12 SLLHKLGPALEVFGKK-PVHLVSQAA-NDLNLTFVVDE-DQADGLCARLHFQL 61 (63)
T ss_pred cCccHHHHHHHHHhcC-CceEEEEeC-CCCeEEEEEeH-HHHHHHHHHHHHHH
Confidence 4678899999999774 899988887 6556533 333 48888888887654
No 106
>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains. The ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) encoded by the hom gene of Bacillus subtilis and other related sequences. HSDH reduces aspartate semi-aldehyde to the amino acid homoserine, one that is required for the biosynthesis of Met, Thr, and Ile from Asp. Neither the enzyme nor the aspartate pathway is found in the animal kingdom. This mostly bacterial HSDH group has a C-terminal ACT domain and is believed to be involved in enzyme regulation. A C-terminal deletion in the Corynebacterium glutamicum HSDH abolished allosteric inhibition by L-threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.45 E-value=94 Score=16.81 Aligned_cols=21 Identities=19% Similarity=0.230 Sum_probs=11.7
Q ss_pred chhhHHHHHHHhccCCCceEE
Q 048525 12 CDKCRSKAMETAADTDGVISV 32 (86)
Q Consensus 12 C~~C~~kv~k~l~~~~GV~sV 32 (86)
-..--+.+...|.+++||.++
T Consensus 52 ~~~~l~~~i~~L~~~~~V~~~ 72 (79)
T cd04881 52 SEAALNAALAEIEALDAVQGV 72 (79)
T ss_pred CHHHHHHHHHHHHcCccccCC
Confidence 344455556666666666553
No 107
>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=28.40 E-value=42 Score=20.21 Aligned_cols=23 Identities=17% Similarity=0.315 Sum_probs=18.2
Q ss_pred ccCCCceE--EEecCCccceEEEecc
Q 048525 24 ADTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 24 ~~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
..+||+.. |++.. ..+.|+|.|.
T Consensus 17 ~~lPG~~kedi~v~~-~~~~L~I~g~ 41 (90)
T cd06470 17 LAVAGFSEDDLEIEV-ENNQLTVTGK 41 (90)
T ss_pred EECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 35788764 77777 7789999998
No 108
>PF15235 GRIN_C: G protein-regulated inducer of neurite outgrowth C-terminus
Probab=28.14 E-value=1e+02 Score=20.93 Aligned_cols=36 Identities=28% Similarity=0.198 Sum_probs=28.9
Q ss_pred cCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhh
Q 048525 25 DTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 25 ~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
.-.-|..|..|- ..=+--|.|-.+||+.|=-+|+|-
T Consensus 40 ~~spVrdV~WDe-~GMTWEVYGAs~DpEvLG~AIQkH 75 (137)
T PF15235_consen 40 AKSPVRDVSWDE-QGMTWEVYGASVDPEVLGMAIQKH 75 (137)
T ss_pred cCCccccceecC-CCceEEEeccccCHHHHHHHHHHH
Confidence 334588999997 666789999989999988777763
No 109
>cd02407 PTH2_family Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in bacteria and eukaryotes and Pth2 present in archaea and eukaryotes.
Probab=28.07 E-value=1.7e+02 Score=18.80 Aligned_cols=57 Identities=18% Similarity=0.115 Sum_probs=30.3
Q ss_pred CeEEEEEEEeechhhHHHHHHHhccCCCc-eEEEec-----CCccceEEEeccCCCHHHHHHHHHhh
Q 048525 1 MQKIVIKVQVRCDKCRSKAMETAADTDGV-ISVSLQ-----GKYKDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 1 m~~vvlkV~m~C~~C~~kv~k~l~~~~GV-~sV~vd-----~~~~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
|.+|+|+++-. .=-..+.+.+.. .|+ ..+-.| . ..+..||.|.+-.|..+++.+-+.
T Consensus 49 ~~KvVl~v~~~--~~l~~l~~~a~~-~gl~~~~v~DAG~Tqi-~~gt~TvlaigP~~~~~i~~itg~ 111 (115)
T cd02407 49 QKKVVLKVPSE--EELLELAKKAKE-LGLPHSLIQDAGRTQI-PPGTPTVLAIGPAPKEKVDKVTGH 111 (115)
T ss_pred CcEEEEECCCH--HHHHHHHHHHHH-cCCCeEEEEECCCccc-CCCCceEEEECCCCHHHHHHHcCc
Confidence 45677776621 111222222222 243 345555 3 456677777666777777776543
No 110
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=27.93 E-value=1e+02 Score=21.43 Aligned_cols=38 Identities=24% Similarity=0.163 Sum_probs=27.6
Q ss_pred EecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEecc
Q 048525 33 SLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVE 71 (86)
Q Consensus 33 ~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~ 71 (86)
-+|. ...++.|.|-|-=....++.|.+.+.+..+++..
T Consensus 5 ~l~l-~~k~vLVIGgG~va~~ka~~Ll~~ga~V~VIs~~ 42 (202)
T PRK06718 5 MIDL-SNKRVVIVGGGKVAGRRAITLLKYGAHIVVISPE 42 (202)
T ss_pred EEEc-CCCEEEEECCCHHHHHHHHHHHHCCCeEEEEcCC
Confidence 4566 7778999998644556677888878778888643
No 111
>PRK11597 heat shock chaperone IbpB; Provisional
Probab=27.55 E-value=38 Score=22.73 Aligned_cols=23 Identities=17% Similarity=0.186 Sum_probs=18.5
Q ss_pred ccCCCceE--EEecCCccceEEEecc
Q 048525 24 ADTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 24 ~~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
..+|||.. |+|+. ..+.|||.|.
T Consensus 49 adlPGv~kedi~V~v-~~~~LtI~ge 73 (142)
T PRK11597 49 LALAGFRQEDLDIQL-EGTRLTVKGT 73 (142)
T ss_pred EEeCCCCHHHeEEEE-ECCEEEEEEE
Confidence 46888854 88887 8899999998
No 112
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=27.45 E-value=26 Score=22.32 Aligned_cols=15 Identities=27% Similarity=0.678 Sum_probs=12.1
Q ss_pred eechhhHHHHHHHhc
Q 048525 10 VRCDKCRSKAMETAA 24 (86)
Q Consensus 10 m~C~~C~~kv~k~l~ 24 (86)
|-|++|.+++-+++.
T Consensus 1 MVC~kCEkKLskvi~ 15 (100)
T KOG3476|consen 1 MVCEKCEKKLSKVIG 15 (100)
T ss_pred CchhHHHHHhccccc
Confidence 679999999877653
No 113
>PRK08577 hypothetical protein; Provisional
Probab=27.13 E-value=1.7e+02 Score=18.78 Aligned_cols=19 Identities=16% Similarity=0.123 Sum_probs=13.5
Q ss_pred HHHHHHHhccCCCceEEEe
Q 048525 16 RSKAMETAADTDGVISVSL 34 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~v 34 (86)
-..+.+.|.+++||.+|.+
T Consensus 113 l~~l~~~L~~l~~V~~V~~ 131 (136)
T PRK08577 113 LEELEEELKKLEEVKEVEI 131 (136)
T ss_pred HHHHHHHHHcCCCEEEEEE
Confidence 4667777777777777765
No 114
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=25.51 E-value=72 Score=19.56 Aligned_cols=24 Identities=13% Similarity=0.196 Sum_probs=19.9
Q ss_pred EEEeccCCCHHHHHHHHHhhcCce
Q 048525 42 VVVTGDGVDSASLAKRLGKKLGHA 65 (86)
Q Consensus 42 vtV~G~~vDp~~l~~~l~kk~~~a 65 (86)
-|..++++|+..|+..|..+++-.
T Consensus 40 hTCSae~m~a~eLv~FL~~rgKfi 63 (78)
T PF10678_consen 40 HTCSAEGMTADELVDFLEERGKFI 63 (78)
T ss_pred EecCCCCCCHHHHHHHHHHcCCEe
Confidence 566777899999999999888743
No 115
>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=25.31 E-value=50 Score=20.03 Aligned_cols=22 Identities=14% Similarity=0.299 Sum_probs=18.0
Q ss_pred cCCCceE--EEecCCccceEEEecc
Q 048525 25 DTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 25 ~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
.+||+.. |.++. ..+.|+|.|.
T Consensus 14 dlpG~~~edI~V~v-~~~~L~I~ge 37 (83)
T cd06477 14 DVVQFRPEDIIIQV-FEGWLLIKGQ 37 (83)
T ss_pred EcCCCCHHHeEEEE-ECCEEEEEEE
Confidence 5778754 88888 8899999998
No 116
>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=25.29 E-value=64 Score=24.94 Aligned_cols=20 Identities=25% Similarity=0.322 Sum_probs=18.4
Q ss_pred HHHHHHhccCCCceEEEecC
Q 048525 17 SKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~vd~ 36 (86)
.+|...++.+|||++|++--
T Consensus 30 ~~~~~~~~~~p~~~~v~~~~ 49 (338)
T PF06727_consen 30 AKIVQFLKEIPGVTSVEICE 49 (338)
T ss_pred HHHHHHHHhCCCcceEEeee
Confidence 78999999999999999975
No 117
>COG1992 Uncharacterized conserved protein [Function unknown]
Probab=25.19 E-value=1.8e+02 Score=20.64 Aligned_cols=39 Identities=13% Similarity=0.121 Sum_probs=30.8
Q ss_pred HHHHhccCCCceEEEecCCccc---eEEEeccCCCHHHHHHH-HH
Q 048525 19 AMETAADTDGVISVSLQGKYKD---TVVVTGDGVDSASLAKR-LG 59 (86)
Q Consensus 19 v~k~l~~~~GV~sV~vd~~~~~---~vtV~G~~vDp~~l~~~-l~ 59 (86)
+..++....|+-.|-+|.-.-+ .+.|-|. ||.+++++ |+
T Consensus 133 i~~a~~~~~~~PDVIyd~G~~GkEpmi~v~gr--~a~evv~k~l~ 175 (181)
T COG1992 133 IESAFRELGGAPDVIYDLGGVGKEPMIRVLGR--NAVEVVEKALR 175 (181)
T ss_pred HHHHHHhcCCCCCEEEeCCCCCcccEEEEeCC--CHHHHHHHHHH
Confidence 5668888889999999973333 4889997 99999998 54
No 118
>COG0612 PqqL Predicted Zn-dependent peptidases [General function prediction only]
Probab=25.00 E-value=1.5e+02 Score=22.45 Aligned_cols=25 Identities=32% Similarity=0.493 Sum_probs=21.3
Q ss_pred ccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 38 YKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 38 ~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
++-.|.|.|+ +|+..+...+.+.+.
T Consensus 197 ~n~~l~vvGd-i~~~~v~~~~~~~f~ 221 (438)
T COG0612 197 DNMVLVVVGD-VDAEEVVELIEKYFG 221 (438)
T ss_pred CceEEEEecC-CCHHHHHHHHHHHHc
Confidence 3456889999 999999999999865
No 119
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=24.94 E-value=64 Score=19.67 Aligned_cols=51 Identities=12% Similarity=0.193 Sum_probs=31.8
Q ss_pred HHHHHHHhccCCCceEEEecCCc-------cceEEEecc---CCCHHHHHHHHHhhcCcee
Q 048525 16 RSKAMETAADTDGVISVSLQGKY-------KDTVVVTGD---GVDSASLAKRLGKKLGHAS 66 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV~vd~~~-------~~~vtV~G~---~vDp~~l~~~l~kk~~~ae 66 (86)
...+...|.+-|+++-++.+--. .-=..|.|+ +-+++.|+.+|.+......
T Consensus 16 ~~~~~~~Le~~p~~~Vie~gCl~~Cg~C~~~pFAlVnG~~V~A~t~eeL~~kI~~~i~e~~ 76 (78)
T PF07293_consen 16 TDQVYEKLEKDPDIDVIEYGCLSYCGPCAKKPFALVNGEIVAAETAEELLEKIKEKIEENP 76 (78)
T ss_pred hHHHHHHHhcCCCccEEEcChhhhCcCCCCCccEEECCEEEecCCHHHHHHHHHHHHhccc
Confidence 35578888888888766654300 011334443 1399999999998765443
No 120
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=24.86 E-value=92 Score=23.05 Aligned_cols=28 Identities=14% Similarity=0.278 Sum_probs=23.0
Q ss_pred ceEEEeccCCCHHHHHHHHHhhcCceeEEe
Q 048525 40 DTVVVTGDGVDSASLAKRLGKKLGHASLET 69 (86)
Q Consensus 40 ~~vtV~G~~vDp~~l~~~l~kk~~~aei~s 69 (86)
...++.|| |+..|.+.|+....+++++-
T Consensus 38 ~~~~~VgD--~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 38 ARITTVGD--NPDRIVEALREASERADVVI 65 (255)
T ss_pred EEEEecCC--CHHHHHHHHHHHHhCCCEEE
Confidence 45889999 99999999998877677653
No 121
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=24.80 E-value=58 Score=24.01 Aligned_cols=28 Identities=25% Similarity=0.165 Sum_probs=22.7
Q ss_pred EEEeccCCCHHHHHHHHHhhc-CceeEEec
Q 048525 42 VVVTGDGVDSASLAKRLGKKL-GHASLETV 70 (86)
Q Consensus 42 vtV~G~~vDp~~l~~~l~kk~-~~aei~s~ 70 (86)
-||.|. .+.++++.+|++.+ +++.|+++
T Consensus 177 gtvEG~-P~~~~vi~~L~~~g~k~V~L~Pl 205 (262)
T PF06180_consen 177 GTVEGY-PSLEDVIARLKKKGIKKVHLIPL 205 (262)
T ss_dssp EETTSS-SBHHHHHHHHHHHT-SEEEEEEE
T ss_pred EEeCCC-CCHHHHHHHHHhcCCCeEEEEec
Confidence 567888 89999999999876 47777764
No 122
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=24.63 E-value=1.4e+02 Score=16.67 Aligned_cols=35 Identities=17% Similarity=0.324 Sum_probs=22.1
Q ss_pred HHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHH
Q 048525 19 AMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRL 58 (86)
Q Consensus 19 v~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l 58 (86)
..+.|..--|+. +.++ +.+.+++.|. |+..+-.+.
T Consensus 23 ~ik~I~~~tg~~-I~i~--~~g~v~I~G~--~~~~v~~A~ 57 (61)
T cd02393 23 TIKKIIEETGVK-IDIE--DDGTVYIAAS--DKEAAEKAK 57 (61)
T ss_pred HHHHHHHHHCCE-EEeC--CCCEEEEEeC--CHHHHHHHH
Confidence 344455555665 6666 4678999997 666655544
No 123
>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=24.45 E-value=1.1e+02 Score=15.40 Aligned_cols=17 Identities=29% Similarity=0.419 Sum_probs=10.8
Q ss_pred HHHHHHHhccCCCceEE
Q 048525 16 RSKAMETAADTDGVISV 32 (86)
Q Consensus 16 ~~kv~k~l~~~~GV~sV 32 (86)
...+...|..++||..|
T Consensus 53 ~~~~~~~l~~~~~v~~v 69 (71)
T cd04876 53 LARIMRKLRQIPGVIDV 69 (71)
T ss_pred HHHHHHHHhCCCCcEEE
Confidence 45566666666666655
No 124
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=24.30 E-value=1.1e+02 Score=21.20 Aligned_cols=27 Identities=19% Similarity=0.098 Sum_probs=20.7
Q ss_pred hhhHHHHHHHhccCCCceEEEecCCccc
Q 048525 13 DKCRSKAMETAADTDGVISVSLQGKYKD 40 (86)
Q Consensus 13 ~~C~~kv~k~l~~~~GV~sV~vd~~~~~ 40 (86)
.||-=-+.....+++||.++.+-- ..+
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGY-agG 36 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGY-TGG 36 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeee-cCC
Confidence 567777777888999999998764 444
No 125
>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=24.30 E-value=55 Score=19.74 Aligned_cols=22 Identities=18% Similarity=0.312 Sum_probs=17.6
Q ss_pred cCCCceE--EEecCCccceEEEecc
Q 048525 25 DTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 25 ~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
.+||+.. ++++. ..+.|+|.|.
T Consensus 17 dlpG~~~edi~V~v-~~~~L~I~g~ 40 (86)
T cd06497 17 DVKHFSPEDLTVKV-LDDYVEIHGK 40 (86)
T ss_pred ECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 5778654 78887 7889999998
No 126
>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=24.18 E-value=54 Score=19.81 Aligned_cols=23 Identities=30% Similarity=0.388 Sum_probs=18.2
Q ss_pred ccCCCce--EEEecCCccceEEEecc
Q 048525 24 ADTDGVI--SVSLQGKYKDTVVVTGD 47 (86)
Q Consensus 24 ~~~~GV~--sV~vd~~~~~~vtV~G~ 47 (86)
..+||+. +|+|+. ..+.|+|.|.
T Consensus 13 ~dlpG~~~edI~V~v-~~~~L~I~g~ 37 (87)
T cd06481 13 LDVRGFSPEDLSVRV-DGRKLVVTGK 37 (87)
T ss_pred EECCCCChHHeEEEE-ECCEEEEEEE
Confidence 3578874 488888 7899999997
No 127
>PLN02625 uroporphyrin-III C-methyltransferase
Probab=24.08 E-value=97 Score=22.26 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=28.2
Q ss_pred ccceEEEeccCC-CHHHHHHHHHhhcCceeEEec
Q 048525 38 YKDTVVVTGDGV-DSASLAKRLGKKLGHASLETV 70 (86)
Q Consensus 38 ~~~~vtV~G~~v-Dp~~l~~~l~kk~~~aei~s~ 70 (86)
..++++++|.|. ||..|.-+..+...+|+++-.
T Consensus 13 ~~g~l~vVG~GpGdp~~LTl~a~~~l~~ADvI~~ 46 (263)
T PLN02625 13 GPGNVFLVGTGPGDPDLLTLKALRLLQTADVVLY 46 (263)
T ss_pred CCCEEEEEEeCCCChHHhHHHHHHHHhcCCEEEE
Confidence 357899999987 999999999888899998865
No 128
>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=23.38 E-value=62 Score=19.29 Aligned_cols=22 Identities=23% Similarity=0.291 Sum_probs=17.2
Q ss_pred cCCCce--EEEecCCccceEEEecc
Q 048525 25 DTDGVI--SVSLQGKYKDTVVVTGD 47 (86)
Q Consensus 25 ~~~GV~--sV~vd~~~~~~vtV~G~ 47 (86)
.+||+. .|+++. ..+.|+|.|.
T Consensus 14 dlpG~~~edI~V~v-~~~~L~I~g~ 37 (83)
T cd06478 14 DVKHFSPEELSVKV-LGDFVEIHGK 37 (83)
T ss_pred ECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 567765 477777 7789999997
No 129
>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=23.25 E-value=58 Score=19.61 Aligned_cols=22 Identities=9% Similarity=0.223 Sum_probs=17.4
Q ss_pred cCCCceE--EEecCCccceEEEecc
Q 048525 25 DTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 25 ~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
.+||+.. |++.. ..+.|+|.|+
T Consensus 15 dlpG~~pedi~V~v-~~~~L~I~ge 38 (81)
T cd06479 15 DVSDFSPEDIIVTT-SNNQIEVHAE 38 (81)
T ss_pred ECCCCCHHHeEEEE-ECCEEEEEEE
Confidence 5778754 77777 7789999998
No 130
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=22.85 E-value=2e+02 Score=22.46 Aligned_cols=34 Identities=21% Similarity=0.291 Sum_probs=28.7
Q ss_pred ccceEEEeccCCCHHHHHHHHHhhcCceeEEecc
Q 048525 38 YKDTVVVTGDGVDSASLAKRLGKKLGHASLETVE 71 (86)
Q Consensus 38 ~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~ 71 (86)
...+|.|+|.|....+++..|.+.+.++.+..=.
T Consensus 174 ~GKrV~VIG~GaSA~di~~~l~~~ga~vt~~qRs 207 (443)
T COG2072 174 RGKRVLVIGAGASAVDIAPELAEVGASVTLSQRS 207 (443)
T ss_pred CCCeEEEECCCccHHHHHHHHHhcCCeeEEEecC
Confidence 5678999999999999999999988777766433
No 131
>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=22.59 E-value=1.4e+02 Score=19.86 Aligned_cols=47 Identities=13% Similarity=0.183 Sum_probs=29.1
Q ss_pred hhHHHHHHHhccCCCceEEEecCCccceEEE----eccCCCHHHHHHHHHhh
Q 048525 14 KCRSKAMETAADTDGVISVSLQGKYKDTVVV----TGDGVDSASLAKRLGKK 61 (86)
Q Consensus 14 ~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV----~G~~vDp~~l~~~l~kk 61 (86)
.=+..|.+.+.+++||+++.+=. ..+.+.| .+.+.+...+.+.+++.
T Consensus 75 ~~a~~i~~~v~~~~~V~~A~vvv-~~~~a~Vav~~~~~~~~~~~i~~~V~~~ 125 (177)
T PF09580_consen 75 QLADRIANRVKKVPGVEDATVVV-TDDNAYVAVDLDFNRFNTKKIKKKVEKA 125 (177)
T ss_pred HHHHHHHHHHhcCCCceEEEEEE-ECCEEEEEEEecccccchhHHHHHHHHH
Confidence 34677888999999999977655 4455443 21123455555555544
No 132
>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=22.47 E-value=60 Score=19.55 Aligned_cols=22 Identities=9% Similarity=0.185 Sum_probs=17.4
Q ss_pred cCCCceE--EEecCCccceEEEecc
Q 048525 25 DTDGVIS--VSLQGKYKDTVVVTGD 47 (86)
Q Consensus 25 ~~~GV~s--V~vd~~~~~~vtV~G~ 47 (86)
.++|+.. ++++. ..+.|+|.|.
T Consensus 14 dlpG~~~edi~V~v-~~~~L~I~g~ 37 (83)
T cd06476 14 DVCHFTPDEITVRT-VDNLLEVSAR 37 (83)
T ss_pred EcCCCCHHHeEEEE-ECCEEEEEEE
Confidence 4677654 77777 7889999998
No 133
>PRK10509 bacterioferritin-associated ferredoxin; Provisional
Probab=22.43 E-value=40 Score=19.55 Aligned_cols=20 Identities=35% Similarity=0.594 Sum_probs=16.0
Q ss_pred EEEEeechhhHHHHHHHhcc
Q 048525 6 IKVQVRCDKCRSKAMETAAD 25 (86)
Q Consensus 6 lkV~m~C~~C~~kv~k~l~~ 25 (86)
+++.-.|++|...+++.|..
T Consensus 33 ~~~g~~CG~C~~~i~~il~~ 52 (64)
T PRK10509 33 VPVGNQCGKCIRAAREVMQD 52 (64)
T ss_pred cCCCCCccchHHHHHHHHHH
Confidence 45667899999999998753
No 134
>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=22.27 E-value=1.4e+02 Score=20.14 Aligned_cols=32 Identities=19% Similarity=0.320 Sum_probs=22.5
Q ss_pred EEEEEEeechhhH------HHHHHHhccCCCceEEEecC
Q 048525 4 IVIKVQVRCDKCR------SKAMETAADTDGVISVSLQG 36 (86)
Q Consensus 4 vvlkV~m~C~~C~------~kv~k~l~~~~GV~sV~vd~ 36 (86)
+.+.+.+.-.+|. ..+..+|..+ |+.+|.++.
T Consensus 27 V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~i 64 (146)
T TIGR02159 27 VVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVST 64 (146)
T ss_pred EEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEeE
Confidence 5566666655654 4477888887 999888865
No 135
>PRK06136 uroporphyrin-III C-methyltransferase; Reviewed
Probab=21.96 E-value=1.1e+02 Score=21.40 Aligned_cols=31 Identities=19% Similarity=0.215 Sum_probs=26.5
Q ss_pred ceEEEeccCC-CHHHHHHHHHhhcCceeEEec
Q 048525 40 DTVVVTGDGV-DSASLAKRLGKKLGHASLETV 70 (86)
Q Consensus 40 ~~vtV~G~~v-Dp~~l~~~l~kk~~~aei~s~ 70 (86)
+++.++|.|. ||.-|.-+-.+...+|+++-.
T Consensus 3 g~l~iVGvGpGdp~~lT~~A~~~L~~advI~~ 34 (249)
T PRK06136 3 GKVYLVGAGPGDPDLITLKGVRLLEQADVVLY 34 (249)
T ss_pred cEEEEEEECCCChHHHHHHHHHHHhcCCEEEE
Confidence 5788988887 999999999988888888865
No 136
>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=21.94 E-value=97 Score=16.88 Aligned_cols=18 Identities=17% Similarity=0.385 Sum_probs=15.4
Q ss_pred HHHHHHhccCCCceEEEe
Q 048525 17 SKAMETAADTDGVISVSL 34 (86)
Q Consensus 17 ~kv~k~l~~~~GV~sV~v 34 (86)
..+.+.|..++||.++.+
T Consensus 53 ~~~~~~l~~~~~v~~v~~ 70 (73)
T cd04902 53 DEVLEELRALPGILSAKV 70 (73)
T ss_pred HHHHHHHHcCCCccEEEE
Confidence 488899999999998875
No 137
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=21.82 E-value=1.9e+02 Score=17.27 Aligned_cols=23 Identities=9% Similarity=-0.002 Sum_probs=15.8
Q ss_pred chhhHHHHHHHhccCCCceEEEe
Q 048525 12 CDKCRSKAMETAADTDGVISVSL 34 (86)
Q Consensus 12 C~~C~~kv~k~l~~~~GV~sV~v 34 (86)
.+..-..+.+.|.++..|..|++
T Consensus 53 ~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 53 SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred CCchHHHHHHHHhcCcCeEEEEE
Confidence 56666677777777777776665
No 138
>PF12164 SporV_AA: Stage V sporulation protein AA; InterPro: IPR021997 This domain family is found in bacteria - primarily Firmicutes, and is approximately 90 amino acids in length. There is a single completely conserved residue G that may be functionally important. Most annotation associated with this domain suggests that it is involved in the fifth stage of sporulation, however there is little publication to back this up. ; PDB: 3G74_B.
Probab=21.62 E-value=88 Score=19.42 Aligned_cols=54 Identities=11% Similarity=0.303 Sum_probs=31.5
Q ss_pred eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhcCceeEEeccCCC
Q 048525 10 VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLGHASLETVEEMK 74 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~~aei~s~~p~~ 74 (86)
+.|+. .+...|..++ +.+ ++..+++++. +|.-++++.|++.+.++++-.++|..
T Consensus 29 i~~~~---~~~~klk~l~-i~~--~~~~d~~r~V-----isvm~II~~I~~~~p~l~I~~iGe~~ 82 (93)
T PF12164_consen 29 IYCDD---EIENKLKALP-IYK--IKKKDKNRYV-----ISVMKIIEKIQEEYPNLDIQNIGETD 82 (93)
T ss_dssp EEESS---HHHHHHHTSE-EEE---BTTT--EEE-----EEHHHHHHHHHHH-SSEEEEE-S-SE
T ss_pred EEeCH---HHHHHhhccE-eee--ecCCCCCEEE-----EEHHHHHHHHHHHCCCcEEEEcCCCc
Confidence 44554 5555565552 333 3441334333 47889999999999999999888764
No 139
>PF14611 SLS: Mitochondrial inner-membrane-bound regulator
Probab=21.47 E-value=1.3e+02 Score=20.65 Aligned_cols=33 Identities=9% Similarity=0.246 Sum_probs=27.8
Q ss_pred eEEEecCCccceEEEeccCCCHHHHHHHHHhhcC
Q 048525 30 ISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 30 ~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~~ 63 (86)
..|++.. ..+++.|+|...+..-+...|.....
T Consensus 57 ~~I~~~~-~~~~i~I~g~k~~~~~i~~~i~~~l~ 89 (210)
T PF14611_consen 57 AKIEVSR-SENRIRITGTKSTAEYIEASINEILS 89 (210)
T ss_pred ceEEEec-CCcEEEEEccHHHHHHHHHHHHHHHh
Confidence 4688888 88999999998888888888888765
No 140
>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=21.47 E-value=1.3e+02 Score=26.12 Aligned_cols=49 Identities=12% Similarity=0.194 Sum_probs=36.7
Q ss_pred hhHHHHHHHhccCCCceEEEecCCcc--ceEEE-------eccCCCHHHHHHHHHhhcC
Q 048525 14 KCRSKAMETAADTDGVISVSLQGKYK--DTVVV-------TGDGVDSASLAKRLGKKLG 63 (86)
Q Consensus 14 ~C~~kv~k~l~~~~GV~sV~vd~~~~--~~vtV-------~G~~vDp~~l~~~l~kk~~ 63 (86)
.-+.+++..|..++||.+|..|. .. .++.+ ...|+++.++.+.|+....
T Consensus 698 ~~a~~v~~~l~~~pgv~~v~~~~-~~~~~e~~i~id~~~~~~~Glt~~~v~~~l~~~~~ 755 (1051)
T TIGR00914 698 ATAEKISAVLKGVPGAADVKVEQ-TTGLPYLTVEIDREKAARYGLTVGDVQDTVATAVG 755 (1051)
T ss_pred HHHHHHHHHHhcCCCceeeeccc-cCCCceEEEEECHHHHHHcCCCHHHHHHHHHHHhC
Confidence 45678899999999999999976 33 34444 2335899999999987644
No 141
>cd02429 PTH2_like Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in bacteria and eukaryotes and Pth2 present in archaea and eukaryotes. There is no functional information for this eukaryote-specific subgroup.
Probab=21.33 E-value=2.4e+02 Score=18.27 Aligned_cols=28 Identities=4% Similarity=-0.148 Sum_probs=15.4
Q ss_pred EEecCCccceEEEeccCCCHHHHHHHHHh
Q 048525 32 VSLQGKYKDTVVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 32 V~vd~~~~~~vtV~G~~vDp~~l~~~l~k 60 (86)
+-+.. ..|..||.|-|-.|...++.+-+
T Consensus 84 l~te~-p~gt~T~LaigP~~~~~id~it~ 111 (116)
T cd02429 84 LWIEQ-PENIPTCIALKPYPKETVASYLK 111 (116)
T ss_pred EEEEc-CCCCceEEEeCCCCHHHHHHHhC
Confidence 34444 45566666655566666555543
No 142
>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=21.20 E-value=3.6e+02 Score=20.33 Aligned_cols=50 Identities=16% Similarity=0.207 Sum_probs=32.6
Q ss_pred HHHHhccCCC--ceEEEecCCccceEEEeccCC---CHHHHHHHHHhhcCceeEEec
Q 048525 19 AMETAADTDG--VISVSLQGKYKDTVVVTGDGV---DSASLAKRLGKKLGHASLETV 70 (86)
Q Consensus 19 v~k~l~~~~G--V~sV~vd~~~~~~vtV~G~~v---Dp~~l~~~l~kk~~~aei~s~ 70 (86)
+-.++...+| ++++.+|. ..+.+++.+..- +.+.+...|. .+..+++-+.
T Consensus 315 l~~al~~~~~~~l~sL~y~~-~~~~L~l~l~a~~~~~le~l~~~l~-~g~~v~~~~~ 369 (384)
T TIGR01709 315 LATALGQLPGLQLQSLDFDG-ARGELRLKLEAPSDADLEQLRSRLA-RGFQVALGQA 369 (384)
T ss_pred HHHHhccCCCCceeEEeEcC-CCCEEEEEEecCChHHHHHHHHHHh-hhceeccccc
Confidence 3345555555 67889998 788888877733 3445566677 6777776544
No 143
>PRK00378 nucleoid-associated protein NdpA; Validated
Probab=21.12 E-value=1.2e+02 Score=22.51 Aligned_cols=28 Identities=18% Similarity=0.344 Sum_probs=23.2
Q ss_pred eEEEecCCccceEEEeccCCCHHHHHHHHHhh
Q 048525 30 ISVSLQGKYKDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 30 ~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
+.|.+|. .++++|+.|- |..|.+.|.+.
T Consensus 303 ~~i~yd~-~~~~ltI~~~---p~~l~~ql~r~ 330 (334)
T PRK00378 303 ERIFYDP-ATDTLTIKGT---PPNLRDQLQRR 330 (334)
T ss_pred CceEEcC-CCCEEEEeCC---CHHHHHHHHHH
Confidence 4889998 9999999997 77788877653
No 144
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=21.06 E-value=3.1e+02 Score=19.72 Aligned_cols=47 Identities=19% Similarity=0.227 Sum_probs=32.0
Q ss_pred chhhHHHHHHHh-----ccCCCceEEEecCCccceE-EEeccCCCHHHHHHHHHh
Q 048525 12 CDKCRSKAMETA-----ADTDGVISVSLQGKYKDTV-VVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 12 C~~C~~kv~k~l-----~~~~GV~sV~vd~~~~~~v-tV~G~~vDp~~l~~~l~k 60 (86)
+..|...+.+-. .++.|.-.+-+.. .++.+ .+.|. .+++.|.+.|.+
T Consensus 198 ~~~~~~~i~~n~~l~~~lGv~GTPaiv~~d-~~G~~~~v~G~-~~~~~L~~~l~~ 250 (251)
T PRK11657 198 PAAVRKQLADNQKLMDDLGANATPAIYYMD-KDGTLQQVVGL-PDPAQLAEIMGP 250 (251)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCCCEEEEEC-CCCCEEEecCC-CCHHHHHHHhCC
Confidence 456776655422 2577877766643 45665 68898 899999988764
No 145
>PRK04322 peptidyl-tRNA hydrolase; Provisional
Probab=20.83 E-value=2.4e+02 Score=18.05 Aligned_cols=23 Identities=17% Similarity=0.198 Sum_probs=15.1
Q ss_pred cceEEEeccCCCHHHHHHHHHhh
Q 048525 39 KDTVVVTGDGVDSASLAKRLGKK 61 (86)
Q Consensus 39 ~~~vtV~G~~vDp~~l~~~l~kk 61 (86)
.+..||.+.+-.|..+++.+-+.
T Consensus 87 ~gs~TvlaigP~~~~~i~~itg~ 109 (113)
T PRK04322 87 PGTVTALGIGPAPEEKIDKITGD 109 (113)
T ss_pred CCCcEEEEeCCCCHHHHHHhhCC
Confidence 45567777666777777776543
No 146
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=20.76 E-value=97 Score=20.86 Aligned_cols=47 Identities=26% Similarity=0.390 Sum_probs=30.9
Q ss_pred EEeechhhHHHHHHHhccCCCceEEEecCCccce--EEEeccCCCHHHHHHHHHh
Q 048525 8 VQVRCDKCRSKAMETAADTDGVISVSLQGKYKDT--VVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 8 V~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~--vtV~G~~vDp~~l~~~l~k 60 (86)
|.+.|.-|+=-. ..+.|...+.... .-.- |.-.|. +||+-++++|++
T Consensus 4 i~F~C~wcsyga----aDlag~~rmqyp~-~vRiIrv~CsGr-vn~~fvl~Al~~ 52 (132)
T COG1908 4 IAFACNWCSYGA----ADLAGTSRMQYPP-NVRIIRVMCSGR-VNPEFVLKALRK 52 (132)
T ss_pred EEEEcccccccc----hhhhccccccCCC-ceEEEEeeccCc-cCHHHHHHHHHc
Confidence 346677776433 2455655555554 3322 556898 999999999997
No 147
>PRK09977 putative Mg(2+) transport ATPase; Provisional
Probab=20.72 E-value=2.4e+02 Score=20.24 Aligned_cols=12 Identities=17% Similarity=0.094 Sum_probs=6.0
Q ss_pred CCHHHHHHHHHh
Q 048525 49 VDSASLAKRLGK 60 (86)
Q Consensus 49 vDp~~l~~~l~k 60 (86)
.+..++++.|+.
T Consensus 194 ~~~~~l~~~L~~ 205 (215)
T PRK09977 194 TSIEDLYRLLKG 205 (215)
T ss_pred CCHHHHHHHHhc
Confidence 455555555543
No 148
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=20.67 E-value=80 Score=17.74 Aligned_cols=15 Identities=13% Similarity=0.014 Sum_probs=9.8
Q ss_pred HHHHHHHhhcCceeE
Q 048525 53 SLAKRLGKKLGHASL 67 (86)
Q Consensus 53 ~l~~~l~kk~~~aei 67 (86)
.++.-+++++++-+.
T Consensus 19 ~I~~~~K~ygYkht~ 33 (50)
T PF12606_consen 19 SICTTLKAYGYKHTV 33 (50)
T ss_pred HHHHHhhcccccccc
Confidence 456777777775543
No 149
>PF12242 Eno-Rase_NADH_b: NAD(P)H binding domain of trans-2-enoyl-CoA reductase; PDB: 3ZU5_A 3ZU3_A 3ZU4_A 3ZU2_A 3S8M_A.
Probab=20.52 E-value=2e+02 Score=17.66 Aligned_cols=59 Identities=15% Similarity=0.065 Sum_probs=35.7
Q ss_pred eechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhh-cCceeEEeccCC
Q 048525 10 VRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKK-LGHASLETVEEM 73 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk-~~~aei~s~~p~ 73 (86)
.|=.+|++.+...+..++--..+ + ...+|.|+|- -.=--|..+|--. +..|.-+.|.=.
T Consensus 14 aHP~GC~~~V~~qI~yvk~~~~~--~--GpK~VLViGa-StGyGLAsRIa~aFg~gA~TiGV~fE 73 (78)
T PF12242_consen 14 AHPVGCARNVENQIEYVKSQGKI--N--GPKKVLVIGA-STGYGLASRIAAAFGAGADTIGVSFE 73 (78)
T ss_dssp --HHHHHHHHHHHHHHHHHC-----T--S-SEEEEES--SSHHHHHHHHHHHHCC--EEEEEE--
T ss_pred CCcHHHHHHHHHHHHHHHhcCCC--C--CCceEEEEec-CCcccHHHHHHHHhcCCCCEEEEeec
Confidence 45569999999988765543333 3 3567999997 7888899998776 447776665433
No 150
>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=20.45 E-value=1.9e+02 Score=18.39 Aligned_cols=31 Identities=16% Similarity=0.074 Sum_probs=23.4
Q ss_pred hHHHHHHHh---ccCCCceEEEecCCccceEEEec
Q 048525 15 CRSKAMETA---ADTDGVISVSLQGKYKDTVVVTG 46 (86)
Q Consensus 15 C~~kv~k~l---~~~~GV~sV~vd~~~~~~vtV~G 46 (86)
-.+.|..+| .++.+|+++++.. ..+.+.|.=
T Consensus 70 i~r~I~EaL~~d~rI~~V~~f~f~~-~~~~l~v~f 103 (112)
T PF10934_consen 70 IEREIEEALLQDPRITSVENFSFEW-EGDSLYVSF 103 (112)
T ss_pred HHHHHHHHHhcCCCcceEEEEEEEE-ECCEEEEEE
Confidence 456677777 5788899999988 788877643
No 151
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=20.28 E-value=83 Score=19.86 Aligned_cols=51 Identities=14% Similarity=0.161 Sum_probs=32.3
Q ss_pred eechhhHHHHHHHhccCCCceEE-EecCC---ccceEEEeccCCCHHHHHHHHHhhc
Q 048525 10 VRCDKCRSKAMETAADTDGVISV-SLQGK---YKDTVVVTGDGVDSASLAKRLGKKL 62 (86)
Q Consensus 10 m~C~~C~~kv~k~l~~~~GV~sV-~vd~~---~~~~vtV~G~~vDp~~l~~~l~kk~ 62 (86)
||=.++.++..+.|..||||--- .-|+. -..---+.| -||..|-.+|....
T Consensus 1 m~p~k~~~~~~~~L~~iP~IG~a~a~DL~~LGi~s~~~L~g--~dP~~Ly~~lc~~~ 55 (93)
T PF11731_consen 1 MNPAKVKRAGLSDLTDIPNIGKATAEDLRLLGIRSPADLKG--RDPEELYERLCALT 55 (93)
T ss_pred CChHHHHHHHHHHHhcCCCccHHHHHHHHHcCCCCHHHHhC--CCHHHHHHHHHHHc
Confidence 56678888899999999987432 11110 011112245 49999999998753
No 152
>PF10120 Aldolase_2: Putative aldolase; InterPro: IPR019293 This family of proteins have no known function. In many cases they represent a domain C-terminal to a phosphomethylpyrimidine kinase domain or a HTH DNA-binding domain.; PDB: 2PHP_A 2PB9_A.
Probab=20.10 E-value=2.9e+02 Score=18.98 Aligned_cols=40 Identities=18% Similarity=0.169 Sum_probs=28.6
Q ss_pred HHHHhccCCCceEEEecCC---ccceEEEeccCCCHHHHHHHHHh
Q 048525 19 AMETAADTDGVISVSLQGK---YKDTVVVTGDGVDSASLAKRLGK 60 (86)
Q Consensus 19 v~k~l~~~~GV~sV~vd~~---~~~~vtV~G~~vDp~~l~~~l~k 60 (86)
+..++..+.++-.|-+|.- ..-.+.|-|. ||.++++++++
T Consensus 127 i~~a~~~~~~~PdvIyd~G~~GkEp~i~v~g~--~~~evv~kv~~ 169 (170)
T PF10120_consen 127 IEEAFRELGEVPDVIYDRGGWGKEPMIYVFGR--DPVEVVEKVLK 169 (170)
T ss_dssp HHHHHHCCTS-ECEEEE--BCTB--EEEEEES--SHHHHHHHHHH
T ss_pred HHHHHHhcCCCCeEEEECCCCCcCcEEEEECC--CHHHHHHHHHh
Confidence 5677888888888888862 2344788887 99999999875
No 153
>PRK10026 arsenate reductase; Provisional
Probab=20.05 E-value=1.1e+02 Score=20.44 Aligned_cols=52 Identities=17% Similarity=0.234 Sum_probs=33.3
Q ss_pred CeEEEEEEEeechhhHHHHHHHhccCCCceEEEecCCccceEEEeccCCCHHHHHHHHHhhc
Q 048525 1 MQKIVIKVQVRCDKCRSKAMETAADTDGVISVSLQGKYKDTVVVTGDGVDSASLAKRLGKKL 62 (86)
Q Consensus 1 m~~vvlkV~m~C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~G~~vDp~~l~~~l~kk~ 62 (86)
|+.+.|--.-+|+.|++. ++.|... |++--.+|. -+. ..+.+.|..-|.+.+
T Consensus 1 m~~i~iY~~p~Cst~RKA-~~wL~~~-gi~~~~~d~-~~~-------ppt~~eL~~~l~~~g 52 (141)
T PRK10026 1 MSNITIYHNPACGTSRNT-LEMIRNS-GTEPTIIHY-LET-------PPTRDELVKLIADMG 52 (141)
T ss_pred CCEEEEEeCCCCHHHHHH-HHHHHHC-CCCcEEEee-eCC-------CcCHHHHHHHHHhCC
Confidence 666777777889999754 4455433 777766665 332 256677777766654
No 154
>PF01424 R3H: R3H domain; InterPro: IPR001374 The R3H motif: a domain that binds single-stranded nucleic acids. The most prominent feature of the R3H motif is the presence of an invariant arginine residue and a highly conserved histidine residue that are separated by three residues. The motif also displays a conserved pattern of hydrophobic residues, prolines and glycines. The R3H motif is present in proteins from a diverse range of organisms that includes Eubacteria, green plants, fungi and various groups of metazoans. Intriguingly, it has not yet been identified in Archaea and Escherichia coli. The sequences that contain the R3H domain, many of which are hypothetical proteins predicted from genome sequencing projects, can be grouped into eight families on the basis of similarities outside the R3H region. Three of the families contain ATPase domains either upstream (families II and VII) or downstream of the R3H domain (family VIII). The N-terminal part of members of family VII contains an SF1 helicase domain5. The C-terminal part of family VIII contains an SF2 DEAH helicase domain5. The ATPase domain in the members of family II is similar to the stage-III sporulation protein AA (S3AA_BACSU), the proteasome ATPase, bacterial transcription-termination factor r and the mitochondrial F1-ATPase b subunit (the F5 helicase family5). Family VI contains Cys-rich repeats6, as well as a ring-type zinc finger upstream of the R3H domain. JAG bacterial proteins (family I) contain a KH domain N-terminal to the R3H domain. The functions of other domains in R3H proteins support the notion that the R3H domain might be involved in interactions with single-stranded nucleic acids [].; GO: 0003676 nucleic acid binding; PDB: 1WHR_A 1MSZ_A 1UG8_A 3GKU_B 2CPM_A.
Probab=20.03 E-value=1.7e+02 Score=16.03 Aligned_cols=34 Identities=24% Similarity=0.169 Sum_probs=23.2
Q ss_pred chhhHHHHHHHhccCCCceEEEecCCccceEEEe
Q 048525 12 CDKCRSKAMETAADTDGVISVSLQGKYKDTVVVT 45 (86)
Q Consensus 12 C~~C~~kv~k~l~~~~GV~sV~vd~~~~~~vtV~ 45 (86)
...=.+++...+....|+.|-+.+.+....|+|.
T Consensus 28 m~~~~R~~iH~~a~~~gL~s~S~g~~~~R~vvv~ 61 (63)
T PF01424_consen 28 MNSFERKLIHELAEYYGLKSKSEGEGPNRRVVVS 61 (63)
T ss_dssp --SHHHHHHHHHHHHCTEEEEEESSSSSSEEEEE
T ss_pred CCHHHHHHHHHHHHHCCCEEEEecCCCCeEEEEE
Confidence 3555677777777899999999987334446553
Done!