Query 034383
Match_columns 96
No_of_seqs 119 out of 1046
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 12:52:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034383.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034383hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1603 Copper chaperone [Inor 99.7 2.1E-17 4.5E-22 102.5 8.2 64 2-65 8-71 (73)
2 PF00403 HMA: Heavy-metal-asso 99.7 2.4E-16 5.3E-21 93.6 7.9 58 2-60 1-62 (62)
3 COG2608 CopZ Copper chaperone 99.5 2.6E-14 5.5E-19 88.3 7.4 62 2-64 5-70 (71)
4 KOG4656 Copper chaperone for s 99.4 3.8E-13 8.2E-18 98.8 7.6 66 2-68 10-75 (247)
5 PLN02957 copper, zinc superoxi 98.9 1.6E-08 3.4E-13 74.9 9.1 69 1-70 8-76 (238)
6 PRK10671 copA copper exporting 98.8 1.5E-08 3.1E-13 85.7 7.9 63 2-67 6-69 (834)
7 COG2217 ZntA Cation transport 98.0 2.3E-05 4.9E-10 66.2 7.1 60 2-63 5-69 (713)
8 TIGR00003 copper ion binding p 97.8 0.00023 5.1E-09 38.4 7.6 58 3-61 6-67 (68)
9 PRK10671 copA copper exporting 97.7 0.00014 3.1E-09 61.8 6.9 62 2-64 102-164 (834)
10 KOG0207 Cation transport ATPas 97.6 0.00015 3.2E-09 62.6 6.4 64 6-70 2-67 (951)
11 KOG0207 Cation transport ATPas 97.2 0.0011 2.4E-08 57.4 7.0 64 2-66 149-216 (951)
12 PRK11033 zntA zinc/cadmium/mer 97.0 0.002 4.3E-08 54.5 6.6 62 2-64 56-119 (741)
13 TIGR02052 MerP mercuric transp 93.3 0.94 2E-05 26.5 7.6 57 6-63 31-90 (92)
14 PF02680 DUF211: Uncharacteriz 91.2 1 2.2E-05 29.5 5.7 47 14-61 20-74 (95)
15 PRK13748 putative mercuric red 90.9 1.4 3E-05 35.6 7.4 64 3-67 4-70 (561)
16 COG1888 Uncharacterized protei 89.9 1.1 2.4E-05 29.3 5.0 46 15-61 23-76 (97)
17 cd00371 HMA Heavy-metal-associ 87.6 1.9 4.2E-05 20.3 6.6 49 6-54 6-56 (63)
18 PF13732 DUF4162: Domain of un 84.9 4.8 0.0001 24.2 5.6 45 20-66 26-71 (84)
19 PF14437 MafB19-deam: MafB19-l 83.5 3 6.6E-05 29.2 4.7 40 1-41 102-143 (146)
20 PF01883 DUF59: Domain of unkn 83.4 1.9 4.2E-05 25.6 3.3 29 3-31 38-72 (72)
21 PF04972 BON: BON domain; Int 79.1 2 4.2E-05 24.7 2.2 38 14-52 2-42 (64)
22 PRK11023 outer membrane lipopr 70.4 21 0.00045 25.5 6.1 42 12-53 128-171 (191)
23 COG4004 Uncharacterized protei 68.3 5.8 0.00013 25.9 2.5 22 21-42 37-58 (96)
24 cd06167 LabA_like LabA_like pr 67.9 9.9 0.00021 25.1 3.8 32 35-67 101-132 (149)
25 PRK11198 LysM domain/BON super 66.6 19 0.0004 24.7 5.0 46 13-58 28-74 (147)
26 PRK10555 aminoglycoside/multid 66.6 12 0.00026 33.2 4.9 43 13-55 159-209 (1037)
27 PF01206 TusA: Sulfurtransfera 63.9 27 0.00058 20.3 5.1 51 6-66 7-59 (70)
28 PRK10553 assembly protein for 63.7 35 0.00077 21.7 6.0 29 13-41 19-47 (87)
29 COG2151 PaaD Predicted metal-s 63.3 29 0.00063 23.1 5.3 50 4-58 54-109 (111)
30 PRK15127 multidrug efflux syst 63.1 15 0.00033 32.7 4.9 42 13-54 159-208 (1049)
31 PF08821 CGGC: CGGC domain; I 62.9 4 8.7E-05 26.9 1.1 19 45-63 86-104 (107)
32 PF08002 DUF1697: Protein of u 61.6 48 0.001 22.4 6.9 50 14-64 22-75 (137)
33 TIGR02945 SUF_assoc FeS assemb 61.3 25 0.00055 22.0 4.6 40 14-58 58-97 (99)
34 TIGR00915 2A0602 The (Largely 61.1 18 0.00038 32.2 4.9 43 13-55 159-209 (1044)
35 TIGR03406 FeS_long_SufT probab 61.1 23 0.00051 25.2 4.8 51 3-58 117-173 (174)
36 PRK09577 multidrug efflux prot 60.4 19 0.00042 31.9 5.0 43 13-55 158-208 (1032)
37 PRK11023 outer membrane lipopr 60.2 30 0.00064 24.7 5.2 42 13-54 51-95 (191)
38 TIGR00288 conserved hypothetic 60.2 16 0.00034 25.9 3.7 33 35-68 107-139 (160)
39 cd04888 ACT_PheB-BS C-terminal 60.2 11 0.00025 21.7 2.7 20 12-31 55-74 (76)
40 COG3643 Glutamate formiminotra 59.8 17 0.00036 28.1 4.0 60 13-72 20-81 (302)
41 COG1094 Predicted RNA-binding 58.1 24 0.00051 25.9 4.4 38 14-52 27-67 (194)
42 PF14492 EFG_II: Elongation Fa 54.8 44 0.00096 20.1 4.7 51 13-63 18-73 (75)
43 TIGR00489 aEF-1_beta translati 54.1 15 0.00032 23.5 2.5 23 11-33 62-84 (88)
44 PRK06418 transcription elongat 53.6 79 0.0017 22.5 6.9 65 4-68 11-100 (166)
45 COG0841 AcrB Cation/multidrug 52.4 29 0.00062 31.1 4.8 42 13-54 157-207 (1009)
46 PF08712 Nfu_N: Scaffold prote 51.6 36 0.00077 21.4 4.0 40 14-55 37-78 (87)
47 PF01936 NYN: NYN domain; Int 51.2 17 0.00036 23.5 2.5 31 35-66 97-127 (146)
48 COG2177 FtsX Cell division pro 51.1 46 0.001 25.6 5.3 44 4-60 66-109 (297)
49 PRK10509 bacterioferritin-asso 51.0 8.4 0.00018 23.0 1.0 20 3-22 33-52 (64)
50 PF09580 Spore_YhcN_YlaJ: Spor 50.8 76 0.0016 21.7 6.0 29 13-41 77-105 (177)
51 TIGR01676 GLDHase galactonolac 49.0 32 0.0007 28.8 4.4 39 20-61 110-148 (541)
52 COG3062 NapD Uncharacterized p 48.8 73 0.0016 20.8 5.1 42 12-54 19-61 (94)
53 PF03927 NapD: NapD protein; 48.1 64 0.0014 19.8 6.0 41 13-54 17-58 (79)
54 PRK09579 multidrug efflux prot 47.5 38 0.00082 30.1 4.8 43 13-55 158-209 (1017)
55 PF04312 DUF460: Protein of un 47.4 78 0.0017 22.0 5.4 38 29-67 46-85 (138)
56 PRK10568 periplasmic protein; 46.9 61 0.0013 23.3 5.1 33 13-45 62-96 (203)
57 TIGR02189 GlrX-like_plant Glut 46.7 72 0.0016 20.1 5.5 46 5-59 14-59 (99)
58 PRK00435 ef1B elongation facto 44.6 25 0.00053 22.5 2.5 24 10-33 61-84 (88)
59 cd02410 archeal_CPSF_KH The ar 43.9 1.1E+02 0.0024 21.4 6.0 55 14-68 56-116 (145)
60 PRK10503 multidrug efflux syst 43.6 47 0.001 29.6 4.8 41 14-54 169-218 (1040)
61 COG1432 Uncharacterized conser 43.0 42 0.00092 23.7 3.7 36 33-69 110-145 (181)
62 COG2092 EFB1 Translation elong 43.0 25 0.00055 22.7 2.3 22 11-32 62-83 (88)
63 PF12242 Eno-Rase_NADH_b: NAD( 42.5 62 0.0013 20.4 4.0 57 8-67 15-71 (78)
64 PRK10614 multidrug efflux syst 42.2 53 0.0012 29.2 4.9 43 13-55 159-210 (1025)
65 cd03421 SirA_like_N SirA_like_ 40.5 73 0.0016 18.3 6.5 48 6-64 6-55 (67)
66 PF05046 Img2: Mitochondrial l 40.1 93 0.002 19.5 5.5 47 10-58 39-86 (87)
67 PRK11670 antiporter inner memb 39.8 90 0.002 24.5 5.4 53 13-66 67-144 (369)
68 PF10934 DUF2634: Protein of u 39.8 62 0.0013 21.2 3.9 31 12-42 70-103 (112)
69 smart00749 BON bacterial OsmY 39.4 64 0.0014 17.3 4.8 36 14-49 2-39 (62)
70 TIGR00914 2A0601 heavy metal e 39.4 50 0.0011 29.4 4.3 43 13-55 700-752 (1051)
71 PF13291 ACT_4: ACT domain; PD 38.8 34 0.00073 20.2 2.3 18 13-30 62-79 (80)
72 PF02983 Pro_Al_protease: Alph 38.6 83 0.0018 18.4 4.6 21 23-43 22-42 (62)
73 PF13192 Thioredoxin_3: Thiore 38.4 47 0.001 19.7 2.9 11 5-15 6-16 (76)
74 cd06482 ACD_HspB10 Alpha cryst 38.3 31 0.00068 21.7 2.2 24 22-45 15-40 (87)
75 cd06475 ACD_HspB1_like Alpha c 38.1 37 0.00079 21.1 2.5 24 22-45 17-42 (86)
76 PF01565 FAD_binding_4: FAD bi 38.0 58 0.0013 21.0 3.6 30 29-59 57-86 (139)
77 PF07338 DUF1471: Protein of u 37.5 54 0.0012 18.9 3.0 22 36-57 6-28 (56)
78 COG0277 GlcD FAD/FMN-containin 37.2 38 0.00083 26.3 3.0 35 22-59 83-117 (459)
79 PRK06719 precorrin-2 dehydroge 36.6 85 0.0018 21.5 4.4 38 29-67 7-45 (157)
80 PHA01634 hypothetical protein 36.1 14 0.0003 26.0 0.3 13 6-18 97-109 (156)
81 PRK10743 heat shock protein Ib 35.9 34 0.00073 23.3 2.2 24 22-45 52-77 (137)
82 PF00873 ACR_tran: AcrB/AcrD/A 35.5 39 0.00084 29.7 3.0 43 12-54 157-208 (1021)
83 cd04877 ACT_TyrR N-terminal AC 35.2 42 0.00092 19.6 2.4 17 14-30 52-68 (74)
84 cd06471 ACD_LpsHSP_like Group 34.6 41 0.00089 20.6 2.3 24 22-45 17-42 (93)
85 PRK11597 heat shock chaperone 34.4 36 0.00077 23.5 2.2 23 22-44 50-74 (142)
86 PF01514 YscJ_FliF: Secretory 34.2 53 0.0011 23.7 3.1 21 13-33 117-137 (206)
87 cd06477 ACD_HspB3_Like Alpha c 34.1 41 0.00089 20.9 2.2 25 22-46 14-40 (83)
88 PF03948 Ribosomal_L9_C: Ribos 33.8 36 0.00079 21.3 2.0 42 19-61 7-49 (87)
89 PF00352 TBP: Transcription fa 33.8 90 0.002 19.1 3.8 21 34-54 56-76 (86)
90 COG0071 IbpA Molecular chapero 33.6 41 0.00089 22.7 2.3 26 21-46 56-83 (146)
91 KOG3411 40S ribosomal protein 33.4 46 0.001 23.2 2.5 42 10-54 97-139 (143)
92 cd06497 ACD_alphaA-crystallin_ 33.4 44 0.00096 20.7 2.3 23 22-44 17-41 (86)
93 PF07837 FTCD_N: Formiminotran 33.1 77 0.0017 22.9 3.7 53 13-65 18-72 (178)
94 PF11873 DUF3393: Domain of un 33.0 93 0.002 22.8 4.3 28 27-54 88-118 (204)
95 PF00013 KH_1: KH domain syndr 33.0 87 0.0019 17.4 3.4 34 18-54 23-58 (60)
96 PF00679 EFG_C: Elongation fac 32.8 1.2E+02 0.0026 18.5 4.9 47 10-57 15-65 (89)
97 TIGR00334 5S_RNA_mat_M5 ribonu 32.8 88 0.0019 22.5 4.0 48 9-58 56-109 (174)
98 cd06478 ACD_HspB4-5-6 Alpha-cr 32.5 52 0.0011 20.1 2.5 23 22-44 14-38 (83)
99 TIGR02830 spore_III_AG stage I 32.1 45 0.00097 24.2 2.4 29 12-40 62-92 (186)
100 PF08478 POTRA_1: POTRA domain 32.0 81 0.0018 17.9 3.2 29 13-41 36-65 (69)
101 PF14847 Ras_bdg_2: Ras-bindin 32.0 24 0.00052 23.2 0.9 26 36-61 13-38 (105)
102 CHL00160 rpl9 ribosomal protei 31.9 1.7E+02 0.0036 20.4 5.2 40 21-62 75-117 (153)
103 cd00292 EF1B Elongation factor 31.1 56 0.0012 20.7 2.5 23 11-33 62-84 (88)
104 cd06470 ACD_IbpA-B_like Alpha- 31.0 51 0.0011 20.3 2.3 26 22-47 18-45 (90)
105 cd04879 ACT_3PGDH-like ACT_3PG 30.5 68 0.0015 17.4 2.6 18 13-30 52-69 (71)
106 TIGR01679 bact_FAD_ox FAD-link 30.2 95 0.0021 24.7 4.2 31 30-61 65-95 (419)
107 cd06481 ACD_HspB9_like Alpha c 30.2 52 0.0011 20.4 2.2 23 22-44 14-38 (87)
108 cd06476 ACD_HspB2_like Alpha c 30.2 52 0.0011 20.3 2.2 24 22-45 14-39 (83)
109 PRK11152 ilvM acetolactate syn 30.0 90 0.002 19.2 3.3 23 9-31 53-75 (76)
110 cd06464 ACD_sHsps-like Alpha-c 29.9 49 0.0011 19.3 2.0 25 22-46 14-40 (88)
111 PF03958 Secretin_N: Bacterial 29.7 1E+02 0.0023 18.0 3.5 27 28-54 47-74 (82)
112 PRK08343 secD preprotein trans 29.7 1E+02 0.0022 24.9 4.3 42 14-58 70-114 (417)
113 PF00736 EF1_GNE: EF-1 guanine 29.5 68 0.0015 20.3 2.7 22 11-32 62-84 (89)
114 cd06479 ACD_HspB7_like Alpha c 29.3 57 0.0012 20.2 2.3 23 22-44 15-39 (81)
115 PRK04435 hypothetical protein; 29.2 1.2E+02 0.0026 20.7 4.1 20 12-31 124-143 (147)
116 TIGR01678 FAD_lactone_ox sugar 29.2 1E+02 0.0022 24.8 4.3 31 30-61 71-101 (438)
117 PF15643 Tox-PL-2: Papain fold 29.2 39 0.00084 22.3 1.5 17 6-22 18-34 (100)
118 PF02662 FlpD: Methyl-viologen 29.0 81 0.0017 21.0 3.1 53 6-64 4-58 (124)
119 cd06498 ACD_alphaB-crystallin_ 29.0 58 0.0013 20.1 2.3 23 22-44 14-38 (84)
120 PF00873 ACR_tran: AcrB/AcrD/A 29.0 1.2E+02 0.0026 26.8 4.9 45 11-55 687-741 (1021)
121 PRK10329 glutaredoxin-like pro 28.9 98 0.0021 18.7 3.3 27 7-35 9-35 (81)
122 TIGR00914 2A0601 heavy metal e 28.4 1.1E+02 0.0023 27.4 4.5 41 15-55 170-219 (1051)
123 PF05309 TraE: TraE protein; 28.4 67 0.0015 22.6 2.8 19 26-44 130-148 (187)
124 PF02107 FlgH: Flagellar L-rin 27.8 36 0.00079 24.1 1.3 28 23-50 111-138 (179)
125 PF04468 PSP1: PSP1 C-terminal 27.6 1.6E+02 0.0034 18.3 6.1 39 26-64 44-86 (88)
126 PF12685 SpoIIIAH: SpoIIIAH-li 27.6 1.4E+02 0.0029 21.3 4.3 49 14-63 138-192 (196)
127 KOG4730 D-arabinono-1, 4-lacto 27.1 75 0.0016 26.6 3.1 32 29-61 105-136 (518)
128 PRK10614 multidrug efflux syst 27.0 96 0.0021 27.6 4.0 45 12-56 676-730 (1025)
129 cd06472 ACD_ScHsp26_like Alpha 26.8 80 0.0017 19.3 2.7 24 22-45 16-42 (92)
130 PF08210 APOBEC_N: APOBEC-like 26.6 62 0.0013 23.1 2.4 63 2-68 77-149 (188)
131 cd06526 metazoan_ACD Alpha-cry 26.4 61 0.0013 19.5 2.0 24 22-45 14-39 (83)
132 smart00653 eIF2B_5 domain pres 25.9 1.2E+02 0.0027 19.9 3.6 24 30-54 51-74 (110)
133 PF03434 DUF276: DUF276 ; Int 25.8 1.1E+02 0.0023 23.6 3.6 29 13-41 89-117 (291)
134 TIGR03527 selenium_YedF seleni 25.8 2.6E+02 0.0055 20.1 6.7 51 6-66 5-57 (194)
135 PF13241 NAD_binding_7: Putati 25.7 1.3E+02 0.0027 18.9 3.5 38 30-68 2-40 (103)
136 KOG2874 rRNA processing protei 25.7 61 0.0013 25.5 2.3 39 11-51 73-114 (356)
137 TIGR02761 TraE_TIGR type IV co 25.5 73 0.0016 22.5 2.6 19 26-44 130-148 (181)
138 cd02973 TRX_GRX_like Thioredox 25.5 71 0.0015 17.8 2.1 27 6-33 8-38 (67)
139 PF05922 Inhibitor_I9: Peptida 25.5 76 0.0016 18.4 2.3 17 17-33 61-77 (82)
140 COG0092 RpsC Ribosomal protein 25.0 2.9E+02 0.0062 20.9 5.7 42 18-60 34-87 (233)
141 PRK11282 glcE glycolate oxidas 25.0 1.2E+02 0.0027 23.8 3.9 36 21-59 44-79 (352)
142 PF09840 DUF2067: Uncharacteri 25.0 61 0.0013 23.4 2.1 41 23-66 67-107 (190)
143 COG4669 EscJ Type III secretor 24.6 79 0.0017 24.1 2.7 22 13-34 111-134 (246)
144 PRK10503 multidrug efflux syst 24.5 1.2E+02 0.0027 27.1 4.2 44 12-55 690-743 (1040)
145 TIGR03665 arCOG04150 arCOG0415 24.4 2.1E+02 0.0046 19.9 4.7 36 16-52 19-55 (172)
146 COG2433 Uncharacterized conser 24.4 2.5E+02 0.0053 24.3 5.7 42 24-66 251-296 (652)
147 cd00298 ACD_sHsps_p23-like Thi 24.1 74 0.0016 17.5 2.0 23 22-44 13-37 (80)
148 PF01849 NAC: NAC domain; Int 23.8 95 0.0021 17.8 2.4 28 14-41 2-34 (58)
149 PRK10568 periplasmic protein; 23.7 2.8E+02 0.006 19.8 5.7 37 13-49 141-180 (203)
150 cd04903 ACT_LSD C-terminal ACT 23.7 1E+02 0.0023 16.7 2.6 17 14-30 53-69 (71)
151 PRK06718 precorrin-2 dehydroge 23.6 1.9E+02 0.004 20.6 4.4 39 29-68 4-43 (202)
152 PF04459 DUF512: Protein of un 23.1 2.8E+02 0.0061 20.1 5.3 34 33-66 136-169 (204)
153 TIGR02544 III_secr_YscJ type I 22.9 1E+02 0.0022 22.2 2.9 21 13-33 109-129 (193)
154 PF13193 AMP-binding_C: AMP-bi 22.5 1E+02 0.0022 17.8 2.4 41 16-58 2-49 (73)
155 PRK13726 conjugal transfer pil 22.4 92 0.002 22.4 2.6 19 26-44 130-148 (188)
156 TIGR02898 spore_YhcN_YlaJ spor 22.3 1.7E+02 0.0037 20.5 3.9 31 11-41 54-84 (158)
157 TIGR02024 FtcD glutamate formi 22.2 1.2E+02 0.0026 23.7 3.3 57 13-69 20-78 (298)
158 TIGR01470 cysG_Nterm siroheme 22.1 2.1E+02 0.0044 20.5 4.4 40 29-69 3-43 (205)
159 TIGR02571 ComEB ComE operon pr 22.0 2.8E+02 0.006 19.1 6.1 50 2-65 89-139 (151)
160 TIGR01394 TypA_BipA GTP-bindin 21.8 2.4E+02 0.0052 23.8 5.2 53 14-67 325-382 (594)
161 PRK13023 bifunctional preprote 21.7 2.9E+02 0.0063 24.2 5.9 43 14-58 74-119 (758)
162 PF09358 UBA_e1_C: Ubiquitin-a 21.6 2E+02 0.0044 19.1 4.0 32 36-67 35-66 (125)
163 PRK15348 type III secretion sy 21.6 1.1E+02 0.0024 23.1 3.0 21 13-33 109-129 (249)
164 PF13362 Toprim_3: Toprim doma 21.5 1.7E+02 0.0037 17.8 3.5 34 32-66 38-79 (96)
165 TIGR00915 2A0602 The (Largely 21.4 1.5E+02 0.0033 26.5 4.2 44 12-55 698-751 (1044)
166 PRK07334 threonine dehydratase 21.4 2.5E+02 0.0054 22.0 5.1 51 13-64 340-402 (403)
167 cd04874 ACT_Af1403 N-terminal 21.2 1.2E+02 0.0027 16.5 2.6 19 13-31 53-71 (72)
168 PF05193 Peptidase_M16_C: Pept 21.2 1.3E+02 0.0028 19.2 3.0 25 35-59 19-43 (184)
169 KOG3476 Microtubule-associated 21.0 42 0.0009 21.9 0.5 14 7-20 1-14 (100)
170 PF07660 STN: Secretin and Ton 21.0 1.2E+02 0.0027 16.3 2.5 28 36-63 14-42 (52)
171 TIGR00311 aIF-2beta translatio 20.9 1.7E+02 0.0037 19.9 3.6 20 35-54 72-91 (133)
172 PRK10555 aminoglycoside/multid 20.9 1.6E+02 0.0034 26.4 4.2 45 12-56 697-751 (1037)
173 cd04901 ACT_3PGDH C-terminal A 20.9 1.3E+02 0.0028 16.7 2.6 17 15-31 52-68 (69)
174 PRK03988 translation initiatio 20.8 1.7E+02 0.0036 20.1 3.5 21 34-54 76-96 (138)
175 TIGR00365 monothiol glutaredox 20.8 2.3E+02 0.0049 17.7 4.9 41 8-60 26-66 (97)
176 TIGR03675 arCOG00543 arCOG0054 20.7 3.1E+02 0.0068 23.3 5.8 56 12-67 71-132 (630)
177 TIGR01677 pln_FAD_oxido plant- 20.7 1.7E+02 0.0036 24.6 4.1 38 23-61 85-123 (557)
178 PRK11026 ftsX cell division AB 20.7 2.2E+02 0.0047 21.8 4.5 34 13-58 81-114 (309)
179 PRK09579 multidrug efflux prot 20.6 1.6E+02 0.0035 26.3 4.2 45 11-55 672-726 (1017)
180 cd04883 ACT_AcuB C-terminal AC 20.5 1.8E+02 0.0038 16.3 7.7 58 3-61 4-68 (72)
181 PF00011 HSP20: Hsp20/alpha cr 20.5 1E+02 0.0022 18.9 2.2 24 22-45 14-39 (102)
182 COG1941 FrhG Coenzyme F420-red 20.4 1.7E+02 0.0037 22.3 3.7 57 7-64 12-80 (247)
183 PF14535 AMP-binding_C_2: AMP- 20.3 2.3E+02 0.0049 17.5 5.1 56 14-69 7-82 (96)
184 PRK05812 secD preprotein trans 20.2 2E+02 0.0043 23.8 4.4 43 14-58 129-174 (498)
185 PF09941 DUF2173: Uncharacteri 20.1 2.6E+02 0.0056 18.5 4.2 32 18-49 4-36 (108)
No 1
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.73 E-value=2.1e-17 Score=102.49 Aligned_cols=64 Identities=31% Similarity=0.674 Sum_probs=60.0
Q ss_pred EEEEeccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEee
Q 034383 2 VMRINLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILE 65 (96)
Q Consensus 2 vlkV~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~ 65 (96)
+++|+|||++|+++|++.|+.++||.++.+|..+++|||.|.+||..|++.|++.+++++.+|.
T Consensus 8 v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 8 VLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred EEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEec
Confidence 6899999999999999999999999999999999999999999999999999964448888884
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=99.68 E-value=2.4e-16 Score=93.56 Aligned_cols=58 Identities=16% Similarity=0.358 Sum_probs=54.1
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeC---CHHHHHHHHHHhcCCc
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRF---RPSDVAIKIRKKMNRR 60 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~---dp~~l~~~l~kk~Gk~ 60 (96)
+|+| +|+|++|+++|+++|.+++||.++.+|+.+++++|.++. +++.|.++|+ ++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~-~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIE-KAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHH-HTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHH-HhCcC
Confidence 6888 899999999999999999999999999999999999874 4599999999 89984
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.55 E-value=2.6e-14 Score=88.29 Aligned_cols=62 Identities=11% Similarity=0.328 Sum_probs=55.1
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEE--Ee-eCCHHHHHHHHHHhcCCcEEEe
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSV--CG-RFRPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV--~g-~~dp~~l~~~l~kk~Gk~a~i~ 64 (96)
.|+| +|+|+||+++|+++|.+++||.++++|++.+.++| .+ .++...|.++|. ++||.+..+
T Consensus 5 ~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~-~aGy~~~~~ 70 (71)
T COG2608 5 TLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIE-DAGYKVEEI 70 (71)
T ss_pred EEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHH-HcCCCeeec
Confidence 5777 89999999999999999999999999999955555 45 589999999999 999998765
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.44 E-value=3.8e-13 Score=98.76 Aligned_cols=66 Identities=17% Similarity=0.314 Sum_probs=62.9
Q ss_pred EEEEeccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeeccC
Q 034383 2 VMRINLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQE 68 (96)
Q Consensus 2 vlkV~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~~ 68 (96)
.|.|.|||++|++.|+..|..++||.+|++|+++|.|.|.++++|+.|.++|+ .+|++|.+.....
T Consensus 10 efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le-~tGr~Avl~G~G~ 75 (247)
T KOG4656|consen 10 EFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLE-NTGRDAVLRGAGK 75 (247)
T ss_pred EEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHH-hhChheEEecCCc
Confidence 58899999999999999999999999999999999999999999999999999 9999999987643
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.88 E-value=1.6e-08 Score=74.89 Aligned_cols=69 Identities=13% Similarity=0.334 Sum_probs=62.6
Q ss_pred CEEEEeccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeeccCCC
Q 034383 1 MVMRINLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQEHN 70 (96)
Q Consensus 1 ~vlkV~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~~~~ 70 (96)
+.|.|+|+|++|+.+|++.|.+++||.++.+|+..++++|.+..++..+.++|+ ++||.+++++..+.+
T Consensus 8 ~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe-~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 8 TEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALE-QTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHH-HcCCcEEEecCCCcc
Confidence 357889999999999999999999999999999999999998888999999999 999999988775443
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.82 E-value=1.5e-08 Score=85.68 Aligned_cols=63 Identities=13% Similarity=0.294 Sum_probs=56.3
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeecc
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
+|+| +|+|++|+.+|+++|.+++||.++.+|+. +.+|.+..++..+.++++ ..||++++..+.
T Consensus 6 ~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~-~~Gy~~~~~~~~ 69 (834)
T PRK10671 6 DLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIK-QAGYDASVSHPK 69 (834)
T ss_pred EEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHH-hcCCcccccccc
Confidence 5777 89999999999999999999999999994 566777789999999999 999999987643
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.98 E-value=2.3e-05 Score=66.23 Aligned_cols=60 Identities=15% Similarity=0.392 Sum_probs=53.7
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEee---CC-HHHHHHHHHHhcCCcEEE
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGR---FR-PSDVAIKIRKKMNRRVEI 63 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~---~d-p~~l~~~l~kk~Gk~a~i 63 (96)
.|.| +|||..|+.+|+ +|.+++||.++.+++.+.++.|..+ .+ ++.+..+++ ..||.+..
T Consensus 5 ~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~-~~gy~~~~ 69 (713)
T COG2217 5 SLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVE-KAGYSARL 69 (713)
T ss_pred EEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHH-hcCccccc
Confidence 4666 899999999999 9999999999999999999999853 45 788999999 99998876
No 8
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.85 E-value=0.00023 Score=38.43 Aligned_cols=58 Identities=14% Similarity=0.272 Sum_probs=47.6
Q ss_pred EEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe---eCCHHHHHHHHHHhcCCcE
Q 034383 3 MRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG---RFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 3 lkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g---~~dp~~l~~~l~kk~Gk~a 61 (96)
+.| +|+|..|+..+.+.+..++++.+..+++....+.+.. ..+...+...+. ..|+.+
T Consensus 6 ~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~ 67 (68)
T TIGR00003 6 VQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAIL-DAGYEV 67 (68)
T ss_pred EEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHH-HcCCCc
Confidence 456 7899999999999999999999999999999988873 246777777776 777643
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.66 E-value=0.00014 Score=61.79 Aligned_cols=62 Identities=15% Similarity=0.346 Sum_probs=54.9
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEe
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~ 64 (96)
.|.+ +|+|.+|+..|++.+..++||.++.+++..+++.+.+..++..+.+.++ ..||.+.++
T Consensus 102 ~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~-~~Gy~a~~~ 164 (834)
T PRK10671 102 QLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVE-KAGYGAEAI 164 (834)
T ss_pred EEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHH-hcCCCcccc
Confidence 3555 8999999999999999999999999999999998887778888988888 899987654
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.62 E-value=0.00015 Score=62.60 Aligned_cols=64 Identities=16% Similarity=0.289 Sum_probs=57.9
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe--eCCHHHHHHHHHHhcCCcEEEeeccCCC
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG--RFRPSDVAIKIRKKMNRRVEILEIQEHN 70 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g--~~dp~~l~~~l~kk~Gk~a~i~~~~~~~ 70 (96)
+|+|..|.+.|.+++++.+||.++++++.+++.+|.- .++++.+.++|+ ..|+++.+.......
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ie-d~gf~~~~~~~~~~~ 67 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIE-DMGFEASLLSDSEIT 67 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhh-cccceeeecccCccc
Confidence 7999999999999999999999999999998888764 489999999999 999999999776553
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.23 E-value=0.0011 Score=57.40 Aligned_cols=64 Identities=14% Similarity=0.296 Sum_probs=56.8
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEee---CCHHHHHHHHHHhcCCcEEEeec
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGR---FRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~---~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
+|.| +|.|.+|..+|++.|.+++||.++++|+..+++.|.-+ ..|-.+.+.|. .+|+.+.+..-
T Consensus 149 ~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie-~~~~~~~~~~~ 216 (951)
T KOG0207|consen 149 YLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIE-ETGFEASVRPY 216 (951)
T ss_pred EEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHH-hhcccceeeec
Confidence 5676 89999999999999999999999999999999999743 56888999999 99998887763
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.02 E-value=0.002 Score=54.52 Aligned_cols=62 Identities=13% Similarity=0.220 Sum_probs=49.3
Q ss_pred EEEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeC-CHHHHHHHHHHhcCCcEEEe
Q 034383 2 VMRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRF-RPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 2 vlkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~-dp~~l~~~l~kk~Gk~a~i~ 64 (96)
.+.+ +|+|.+|+..+++.+.+++||.++.+++..+++.+..+. ....+...++ ..||.+..+
T Consensus 56 ~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~-~~Gy~a~~~ 119 (741)
T PRK11033 56 SWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQ-KAGFSLRDE 119 (741)
T ss_pred EEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHH-hcccccccc
Confidence 3556 799999999999999999999999999999998876321 1256667777 789877543
No 13
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=93.34 E-value=0.94 Score=26.50 Aligned_cols=57 Identities=7% Similarity=0.084 Sum_probs=42.4
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe---eCCHHHHHHHHHHhcCCcEEE
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG---RFRPSDVAIKIRKKMNRRVEI 63 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g---~~dp~~l~~~l~kk~Gk~a~i 63 (96)
+|+|.+|...++..+...+|+.....+.....+.+.- ..+...+...+. ..|+.+++
T Consensus 31 ~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~~ 90 (92)
T TIGR02052 31 GMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATT-DAGYPSSL 90 (92)
T ss_pred CeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHH-hcCCCeEe
Confidence 6789999999999999999988888888777765541 245555555555 67776543
No 14
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=91.20 E-value=1 Score=29.48 Aligned_cols=47 Identities=9% Similarity=0.263 Sum_probs=32.8
Q ss_pred HHHHHHHhcCCCceEEE-----EEcCCC--EEEEEee-CCHHHHHHHHHHhcCCcE
Q 034383 14 RKLRRILLNMKEIEAHL-----IEKQQC--RVSVCGR-FRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~-----vD~~~~--~VtV~g~-~dp~~l~~~l~kk~Gk~a 61 (96)
-.+-++|++++||..|. +|.+.. ++||+|. +|.+.|.++|+ +.|--+
T Consensus 20 ~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie-~~Gg~I 74 (95)
T PF02680_consen 20 VELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIE-ELGGVI 74 (95)
T ss_dssp HHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHH-HTT-EE
T ss_pred HHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHH-HcCCeE
Confidence 34667899999988654 444433 3677886 99999999999 887544
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=90.87 E-value=1.4 Score=35.64 Aligned_cols=64 Identities=9% Similarity=0.316 Sum_probs=50.1
Q ss_pred EEE-eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe--eCCHHHHHHHHHHhcCCcEEEeecc
Q 034383 3 MRI-NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG--RFRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 3 lkV-~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g--~~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
+.+ +|+|.+|..+++..+..++|+....+++..+.+.+.. ..+...+...+. ..|+.++.....
T Consensus 4 i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~-~~g~~~~~~~~~ 70 (561)
T PRK13748 4 LKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVA-GLGYRATLADAP 70 (561)
T ss_pred EEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHH-HcCCeeeccCcc
Confidence 344 7899999999999999999999999999888877763 245666666666 788887766653
No 16
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.93 E-value=1.1 Score=29.31 Aligned_cols=46 Identities=13% Similarity=0.279 Sum_probs=33.5
Q ss_pred HHHHHHhcCCCceEEE-----EEc--CCCEEEEEee-CCHHHHHHHHHHhcCCcE
Q 034383 15 KLRRILLNMKEIEAHL-----IEK--QQCRVSVCGR-FRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 15 kI~k~L~~l~GV~~v~-----vD~--~~~~VtV~g~-~dp~~l~~~l~kk~Gk~a 61 (96)
.+-+.|++++||+-|. +|. .+=++||.|. +|.+.|.+.|+ +.|--+
T Consensus 23 e~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE-~~Gg~I 76 (97)
T COG1888 23 ELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIE-ELGGAI 76 (97)
T ss_pred HHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHH-HcCCee
Confidence 3456788888877543 333 4456788885 99999999999 888644
No 17
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=87.64 E-value=1.9 Score=20.31 Aligned_cols=49 Identities=18% Similarity=0.430 Sum_probs=34.8
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEee--CCHHHHHHHHH
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGR--FRPSDVAIKIR 54 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~--~dp~~l~~~l~ 54 (96)
+++|..|...+...+....|+.....++......+... .+...+...+.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (63)
T cd00371 6 GMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIE 56 (63)
T ss_pred CeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHH
Confidence 68899999999999988899877777777666655532 24444433333
No 18
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=84.95 E-value=4.8 Score=24.24 Aligned_cols=45 Identities=9% Similarity=0.108 Sum_probs=33.2
Q ss_pred HhcCCCceEEEEEcCC-CEEEEEeeCCHHHHHHHHHHhcCCcEEEeec
Q 034383 20 LLNMKEIEAHLIEKQQ-CRVSVCGRFRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 20 L~~l~GV~~v~vD~~~-~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
|..++||.++..+-.. =++.+....+...|++.|. ..|. +.-+..
T Consensus 26 l~~~~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~-~~g~-I~~f~~ 71 (84)
T PF13732_consen 26 LEELPGVESVEQDGDGKLRIKLEDEETANELLQELI-EKGI-IRSFEE 71 (84)
T ss_pred HhhCCCeEEEEEeCCcEEEEEECCcccHHHHHHHHH-hCCC-eeEEEE
Confidence 7888999999865433 3566666778899999999 7787 555544
No 19
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=83.52 E-value=3 Score=29.24 Aligned_cols=40 Identities=15% Similarity=0.274 Sum_probs=32.0
Q ss_pred CEEEEe-ccchhhHHHHHHHHhcCCCceEEEEEcC-CCEEEEE
Q 034383 1 MVMRIN-LDCNGCCRKLRRILLNMKEIEAHLIEKQ-QCRVSVC 41 (96)
Q Consensus 1 ~vlkV~-M~C~~C~~kI~k~L~~l~GV~~v~vD~~-~~~VtV~ 41 (96)
|+|.|+ -.|..|...|.....++ |+.++.|-.. ++++...
T Consensus 102 ~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~~~ 143 (146)
T PF14437_consen 102 MTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVYYW 143 (146)
T ss_pred EEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEEEe
Confidence 567775 34999999999988887 9999998887 7766553
No 20
>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=83.35 E-value=1.9 Score=25.59 Aligned_cols=29 Identities=14% Similarity=0.369 Sum_probs=19.3
Q ss_pred EEEeccchhhH------HHHHHHHhcCCCceEEEE
Q 034383 3 MRINLDCNGCC------RKLRRILLNMKEIEAHLI 31 (96)
Q Consensus 3 lkV~M~C~~C~------~kI~k~L~~l~GV~~v~v 31 (96)
|.+.+...+|. ..|+.+|..++||.+|+|
T Consensus 38 v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 38 VSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 44445555554 778889999999999875
No 21
>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=79.07 E-value=2 Score=24.75 Aligned_cols=38 Identities=13% Similarity=0.161 Sum_probs=20.2
Q ss_pred HHHHHHHhc---CCCceEEEEEcCCCEEEEEeeCCHHHHHHH
Q 034383 14 RKLRRILLN---MKEIEAHLIEKQQCRVSVCGRFRPSDVAIK 52 (96)
Q Consensus 14 ~kI~k~L~~---l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~ 52 (96)
.+|+.+|.. +++- ++.+...++.|++.|.++.....++
T Consensus 2 ~~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v~s~~~~~~ 42 (64)
T PF04972_consen 2 TKVRAALRADPWLPDS-NISVSVENGVVTLSGEVPSQEQRDA 42 (64)
T ss_dssp -----------CTT-T-TEEEEEECTEEEEEEEESSCHHHHH
T ss_pred cccccccccccccCCC-eEEEEEECCEEEEEeeCcHHHHHHh
Confidence 467777776 4444 7889999999999999854333333
No 22
>PRK11023 outer membrane lipoprotein; Provisional
Probab=70.38 E-value=21 Score=25.46 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=32.0
Q ss_pred hHHHHHHHHhcCCCce--EEEEEcCCCEEEEEeeCCHHHHHHHH
Q 034383 12 CCRKLRRILLNMKEIE--AHLIEKQQCRVSVCGRFRPSDVAIKI 53 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~--~v~vD~~~~~VtV~g~~dp~~l~~~l 53 (96)
=..+|+.+|..-+++. ++.+...++.|++.|.+++++.-.++
T Consensus 128 It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e~~~a~ 171 (191)
T PRK11023 128 ITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQREAKAAA 171 (191)
T ss_pred HHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHHHHHHH
Confidence 3568889998777765 57777789999999999876654443
No 23
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=68.35 E-value=5.8 Score=25.93 Aligned_cols=22 Identities=14% Similarity=0.042 Sum_probs=19.5
Q ss_pred hcCCCceEEEEEcCCCEEEEEe
Q 034383 21 LNMKEIEAHLIEKQQCRVSVCG 42 (96)
Q Consensus 21 ~~l~GV~~v~vD~~~~~VtV~g 42 (96)
..++|++.+++.++++++-|.|
T Consensus 37 as~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 37 ASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EecCCceEEEEecccceEEEec
Confidence 3468999999999999999987
No 24
>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=67.92 E-value=9.9 Score=25.08 Aligned_cols=32 Identities=19% Similarity=0.306 Sum_probs=27.4
Q ss_pred CCEEEEEeeCCHHHHHHHHHHhcCCcEEEeecc
Q 034383 35 QCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 35 ~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
..-|.|+|+-|-.-+++.|+ +.|+++.++.++
T Consensus 101 d~ivLvSgD~Df~~~i~~lr-~~G~~V~v~~~~ 132 (149)
T cd06167 101 DTIVLVSGDSDFVPLVERLR-ELGKRVIVVGFE 132 (149)
T ss_pred CEEEEEECCccHHHHHHHHH-HcCCEEEEEccC
Confidence 34467789999999999999 789999999886
No 25
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=66.64 E-value=19 Score=24.69 Aligned_cols=46 Identities=11% Similarity=0.103 Sum_probs=32.3
Q ss_pred HHHHHHHHhcCC-CceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcC
Q 034383 13 CRKLRRILLNMK-EIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 13 ~~kI~k~L~~l~-GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
+++|.++|.+.. +...+.|...++.|++.|.++......++...+|
T Consensus 28 ~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~~~~aa~ 74 (147)
T PRK11198 28 ADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEKILLAVG 74 (147)
T ss_pred HHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHHHHHHhc
Confidence 456777776521 2445677778999999999887776666664555
No 26
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=66.62 E-value=12 Score=33.19 Aligned_cols=43 Identities=12% Similarity=0.081 Sum_probs=34.1
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE--------eeCCHHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~--------g~~dp~~l~~~l~k 55 (96)
++.++..|.+++||.+|+++-....+.|. -.+++.++..+|+.
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~ 209 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIES 209 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 46799999999999999998766667775 13567888889883
No 27
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=63.86 E-value=27 Score=20.31 Aligned_cols=51 Identities=16% Similarity=0.026 Sum_probs=35.7
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEee--CCHHHHHHHHHHhcCCcEEEeec
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGR--FRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~--~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
++.|....-+++++|.+++.= +.+.|..+ .....|...++ ..|+.+.-+..
T Consensus 7 g~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~-~~g~~~~~~~~ 59 (70)
T PF01206_consen 7 GLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCE-ENGYEVVEVEE 59 (70)
T ss_dssp S-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHH-HHTEEEEEEEE
T ss_pred CCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHH-HCCCEEEEEEE
Confidence 788999999999999998532 34445443 34567888888 99997555543
No 28
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=63.70 E-value=35 Score=21.66 Aligned_cols=29 Identities=10% Similarity=0.090 Sum_probs=23.8
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC 41 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~ 41 (96)
...|.++|..++|++=...|.+++|+.|+
T Consensus 19 ~~~V~~~l~~ipg~Evh~~d~~~GKiVVt 47 (87)
T PRK10553 19 ISDISTQLNAFPGCEVAVSDAPSGQLIVV 47 (87)
T ss_pred HHHHHHHHHcCCCcEEEeecCCCCeEEEE
Confidence 57899999999999766677888887665
No 29
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=63.33 E-value=29 Score=23.10 Aligned_cols=50 Identities=16% Similarity=0.412 Sum_probs=31.7
Q ss_pred EEeccchhh------HHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcC
Q 034383 4 RINLDCNGC------CRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 4 kV~M~C~~C------~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
++.++=.+| ...|+.+|..++||+++++++ +......+..+..--+...|
T Consensus 54 ~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~l-----~~~p~Wt~~~ms~ear~~~g 109 (111)
T COG2151 54 KMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVEL-----TLSPPWTPDRMSEEARRALG 109 (111)
T ss_pred EEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEEE-----EEcCCCchhhcCHHHHHhhC
Confidence 334445555 678999999999999998843 34433455555444443444
No 30
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=63.09 E-value=15 Score=32.67 Aligned_cols=42 Identities=12% Similarity=0.161 Sum_probs=33.0
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE--------eeCCHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC--------GRFRPSDVAIKIR 54 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~--------g~~dp~~l~~~l~ 54 (96)
++.++..|.+++||.+|++.-....+.|. -.+++.+|.++|+
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vDp~kl~~~gls~~~V~~~l~ 208 (1049)
T PRK15127 159 AANMKDPISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVINAIK 208 (1049)
T ss_pred HHHHHHHHhcCCCceEEEEcCCceEEEEEeCHHHHHHcCCCHHHHHHHHH
Confidence 36799999999999999998765557775 1356677788888
No 31
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=62.94 E-value=4 Score=26.92 Aligned_cols=19 Identities=16% Similarity=0.130 Sum_probs=14.8
Q ss_pred CHHHHHHHHHHhcCCcEEE
Q 034383 45 RPSDVAIKIRKKMNRRVEI 63 (96)
Q Consensus 45 dp~~l~~~l~kk~Gk~a~i 63 (96)
..+.+.+.|++++|.++..
T Consensus 86 ~~~~~~~~I~~~~gi~VV~ 104 (107)
T PF08821_consen 86 HIDEIKKIIEEKFGIEVVE 104 (107)
T ss_pred CHHHHHHHHHHHhCCCEee
Confidence 4688999999777886654
No 32
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=61.59 E-value=48 Score=22.44 Aligned_cols=50 Identities=20% Similarity=0.243 Sum_probs=35.4
Q ss_pred HHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHH----HhcCCcEEEe
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIR----KKMNRRVEIL 64 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~----kk~Gk~a~i~ 64 (96)
..++..|..+ |-.+|.+=+.+|-|.++...++..|..+|+ +..|+.+.++
T Consensus 22 aeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~v~ 75 (137)
T PF08002_consen 22 AELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGFDVPVI 75 (137)
T ss_dssp HHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT---EE
T ss_pred HHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCCCeEEE
Confidence 4577788887 899999999999999998888877765554 5778877555
No 33
>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=61.31 E-value=25 Score=21.97 Aligned_cols=40 Identities=8% Similarity=0.124 Sum_probs=26.6
Q ss_pred HHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcC
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
..++.+|..++|+.++++++. ..-...++.+-+.-|++.|
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~-----~~~~~~~~~~~~~~~~~~~ 97 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELV-----WDPPWTPERMSEEARLELG 97 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEE-----eeCCCChHHCCHHHHHHcC
Confidence 457888989999999988653 3334556666555554444
No 34
>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=61.09 E-value=18 Score=32.21 Aligned_cols=43 Identities=12% Similarity=0.179 Sum_probs=34.4
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE--------eeCCHHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~--------g~~dp~~l~~~l~k 55 (96)
++.++..|.+++||.+|++......+.|. -.+++.++.++|+.
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~dV~~~i~~ 209 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFGSQYAMRIWLDPAKLNSYQLTPADVISAIQA 209 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 36799999999999999998885567776 13677888889984
No 35
>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=61.07 E-value=23 Score=25.21 Aligned_cols=51 Identities=10% Similarity=0.235 Sum_probs=32.5
Q ss_pred EEEeccchhhH------HHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcC
Q 034383 3 MRINLDCNGCC------RKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 3 lkV~M~C~~C~------~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
+.+.++-.+|. ..|+.+|..++||.++++++. ..-..+++.+-+.-|.++|
T Consensus 117 I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l~-----~dp~W~~~~~s~~ar~~lg 173 (174)
T TIGR03406 117 IEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVELV-----FDPPWSREMMSEAAKLELG 173 (174)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEEE-----ecCCCChHHCCHHHHHHcC
Confidence 33444555554 558899999999999888542 3333666666665554444
No 36
>PRK09577 multidrug efflux protein; Reviewed
Probab=60.42 E-value=19 Score=31.94 Aligned_cols=43 Identities=12% Similarity=0.132 Sum_probs=34.3
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE--------eeCCHHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~--------g~~dp~~l~~~l~k 55 (96)
++.++..|.+++||.+|+++-...++.|. -.+++.+|.++|+.
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~ 208 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRA 208 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHH
Confidence 46799999999999999998866667664 23667788889983
No 37
>PRK11023 outer membrane lipoprotein; Provisional
Probab=60.23 E-value=30 Score=24.67 Aligned_cols=42 Identities=12% Similarity=0.162 Sum_probs=31.9
Q ss_pred HHHHHHHHhcCCCce---EEEEEcCCCEEEEEeeCCHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIE---AHLIEKQQCRVSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~---~v~vD~~~~~VtV~g~~dp~~l~~~l~ 54 (96)
+.+|+.+|..-+++. ++.++..++.|++.|.++.+.......
T Consensus 51 ~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~ 95 (191)
T PRK11023 51 ELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAK 95 (191)
T ss_pred HHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHH
Confidence 467888887766663 688999999999999988665544444
No 38
>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=60.23 E-value=16 Score=25.90 Aligned_cols=33 Identities=9% Similarity=0.003 Sum_probs=27.6
Q ss_pred CCEEEEEeeCCHHHHHHHHHHhcCCcEEEeeccC
Q 034383 35 QCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQE 68 (96)
Q Consensus 35 ~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~~ 68 (96)
..-+.|+|+-|-.-|+.+|+ +.|+.|..++.+.
T Consensus 107 D~~vLvSgD~DF~~Lv~~lr-e~G~~V~v~g~~~ 139 (160)
T TIGR00288 107 DAVALVTRDADFLPVINKAK-ENGKETIVIGAEP 139 (160)
T ss_pred CEEEEEeccHhHHHHHHHHH-HCCCEEEEEeCCC
Confidence 33577889999999999999 7799999998643
No 39
>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=60.16 E-value=11 Score=21.72 Aligned_cols=20 Identities=15% Similarity=0.091 Sum_probs=16.9
Q ss_pred hHHHHHHHHhcCCCceEEEE
Q 034383 12 CCRKLRRILLNMKEIEAHLI 31 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~v 31 (96)
=-..+.+.|.+++||.+|.+
T Consensus 55 ~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 55 DIDELLEELREIDGVEKVEL 74 (76)
T ss_pred HHHHHHHHHhcCCCeEEEEE
Confidence 45788899999999999875
No 40
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=59.80 E-value=17 Score=28.09 Aligned_cols=60 Identities=12% Similarity=0.176 Sum_probs=43.6
Q ss_pred HHHHHHHHhcCCCce--EEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeeccCCCCC
Q 034383 13 CRKLRRILLNMKEIE--AHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQEHNES 72 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~--~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~~~~~~ 72 (96)
..+|..+....++|. +++-|..-++-.++---||+.++++.-.-.++-++++.-..+..+
T Consensus 20 ie~i~a~~~~~~~v~ildve~danhNRsViT~vgdp~~~~~A~f~~ik~AaelIDM~~H~Ge 81 (302)
T COG3643 20 IEKIVAAAKSIPTVKILDVEMDANHNRSVITLVGDPSKVVNAAFALIKKAAELIDMRNHKGE 81 (302)
T ss_pred HHHHHHHHhcCCceEEEEeccCCCCCceEEEEecChHHHHHHHHHHHHHHHHhhchhccCCC
Confidence 457777888889976 556666677766665678999988877677888888876555433
No 41
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=58.10 E-value=24 Score=25.90 Aligned_cols=38 Identities=8% Similarity=0.122 Sum_probs=28.7
Q ss_pred HHHHHHHhcCCCceEEEEEcCCCEEEEEee---CCHHHHHHH
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQCRVSVCGR---FRPSDVAIK 52 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~---~dp~~l~~~ 52 (96)
..+++.|....|+ .+.+|..++.|+|... .||..+.++
T Consensus 27 g~v~k~ie~~~~~-~~~iD~~~~~V~i~~~~~t~Dp~~~~ka 67 (194)
T COG1094 27 GEVKKAIEEKTGV-KLRIDSKTGSVTIRTTRKTEDPLALLKA 67 (194)
T ss_pred ccchHHHHhhcCe-EEEEECCCCeEEEEecCCCCChHHHHHH
Confidence 4567788777776 7899999999999865 577655443
No 42
>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=54.76 E-value=44 Score=20.08 Aligned_cols=51 Identities=12% Similarity=0.174 Sum_probs=37.7
Q ss_pred HHHHHHHHhcCC---CceEEEEEcCCCEEEEEe--eCCHHHHHHHHHHhcCCcEEE
Q 034383 13 CRKLRRILLNMK---EIEAHLIEKQQCRVSVCG--RFRPSDVAIKIRKKMNRRVEI 63 (96)
Q Consensus 13 ~~kI~k~L~~l~---GV~~v~vD~~~~~VtV~g--~~dp~~l~~~l~kk~Gk~a~i 63 (96)
..++..+|.++. ---.+..|.+++...|.| .+--+.++++|+++.|-.+++
T Consensus 18 ~~kl~~aL~~l~~eDP~l~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~v~~ 73 (75)
T PF14492_consen 18 EPKLSEALQKLSEEDPSLRVERDEETGELILSGMGELHLEVLLERLKRRFGVEVEF 73 (75)
T ss_dssp HHHHHHHHHHHHHH-TTSEEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEBEEE
T ss_pred HHHHHHHHHHHHhcCCeEEEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCeeEe
Confidence 345556665542 234889999999999985 577889999999888877664
No 43
>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=54.13 E-value=15 Score=23.53 Aligned_cols=23 Identities=13% Similarity=0.199 Sum_probs=19.3
Q ss_pred hhHHHHHHHHhcCCCceEEEEEc
Q 034383 11 GCCRKLRRILLNMKEIEAHLIEK 33 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD~ 33 (96)
+=...+..++++++||+++++..
T Consensus 62 g~td~lee~i~~ve~V~svev~~ 84 (88)
T TIGR00489 62 GGTEAAEESLSGIEGVESVEVTD 84 (88)
T ss_pred cChHHHHHHHhcCCCccEEEEEE
Confidence 33589999999999999998753
No 44
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=53.63 E-value=79 Score=22.50 Aligned_cols=65 Identities=22% Similarity=0.400 Sum_probs=40.8
Q ss_pred EEeccchhhHHHH------------HHHHhcC------CCceEEEEEcCCCEEEEE---ee--C--CHHHHHHHHHHhcC
Q 034383 4 RINLDCNGCCRKL------------RRILLNM------KEIEAHLIEKQQCRVSVC---GR--F--RPSDVAIKIRKKMN 58 (96)
Q Consensus 4 kV~M~C~~C~~kI------------~k~L~~l------~GV~~v~vD~~~~~VtV~---g~--~--dp~~l~~~l~kk~G 58 (96)
|=++-|++|.+++ .++|.+| .+++-...=...++|++. |+ + ..-..+++|++..|
T Consensus 11 kt~ilC~~c~~~~~~G~v~~~dv~i~~~l~~l~~~~~l~~~~~~k~~~~ddrvIfvV~~gdg~aIGk~G~~ik~l~~~lg 90 (166)
T PRK06418 11 KTGLLCPRCQSLLDSGEVTELDVEVSKVLLKLEEDKELKDVEYKKAYEVDDLVILLVTSGPRIPIGKGGKIAKALSRKLG 90 (166)
T ss_pred ccCccChhHHhHhhcCceEEeehHHHHHHHHhhccccccCceEEEEEEeCCEEEEEEeCCCcccccccchHHHHHHHHhC
Confidence 3367799999875 5677776 344433222224666553 33 0 12356888898999
Q ss_pred CcEEEeeccC
Q 034383 59 RRVEILEIQE 68 (96)
Q Consensus 59 k~a~i~~~~~ 68 (96)
++++++.-.+
T Consensus 91 k~VevVE~s~ 100 (166)
T PRK06418 91 KKVRVVEKTN 100 (166)
T ss_pred CcEEEEEcCC
Confidence 9999997433
No 45
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=52.36 E-value=29 Score=31.14 Aligned_cols=42 Identities=19% Similarity=0.236 Sum_probs=33.4
Q ss_pred HHHHHHHHhcCCCceEEEEEcC-CCEEEEE--------eeCCHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQ-QCRVSVC--------GRFRPSDVAIKIR 54 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~-~~~VtV~--------g~~dp~~l~~~l~ 54 (96)
++.|+..|++++||.+|++--. +..+.|+ =.+++.++..+|+
T Consensus 157 ~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~~ai~ 207 (1009)
T COG0841 157 ASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQSAIR 207 (1009)
T ss_pred HHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHHHHHH
Confidence 5679999999999999999886 5557776 1356777888888
No 46
>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=51.60 E-value=36 Score=21.38 Aligned_cols=40 Identities=18% Similarity=0.249 Sum_probs=29.3
Q ss_pred HHHHHHHhcCCCceEEEEEcCCCEEEEE--eeCCHHHHHHHHHH
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQCRVSVC--GRFRPSDVAIKIRK 55 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~~~VtV~--g~~dp~~l~~~l~k 55 (96)
.-+-+.|-.++||.+|-+... -|+|+ ..++++.|...|..
T Consensus 37 spLA~~Lf~i~gV~~Vf~~~d--fItVtK~~~~~W~~l~~~I~~ 78 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIGDD--FITVTKNPDADWEDLKPEIRE 78 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEETT--EEEEEE-TTS-HHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEECC--EEEEeeCCCCCHHHHHHHHHH
Confidence 345566779999999887654 77776 56899999888873
No 47
>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=51.16 E-value=17 Score=23.54 Aligned_cols=31 Identities=23% Similarity=0.261 Sum_probs=21.6
Q ss_pred CCEEEEEeeCCHHHHHHHHHHhcCCcEEEeec
Q 034383 35 QCRVSVCGRFRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 35 ~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
..-+.|+|+-|-.-+++.|+ ..|+++.++..
T Consensus 97 d~ivLvSgD~Df~~~v~~l~-~~g~~V~v~~~ 127 (146)
T PF01936_consen 97 DTIVLVSGDSDFAPLVRKLR-ERGKRVIVVGA 127 (146)
T ss_dssp SEEEEE---GGGHHHHHHHH-HH--EEEEEE-
T ss_pred CEEEEEECcHHHHHHHHHHH-HcCCEEEEEEe
Confidence 44577789999999999999 99999999984
No 48
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=51.08 E-value=46 Score=25.64 Aligned_cols=44 Identities=7% Similarity=0.117 Sum_probs=36.2
Q ss_pred EEeccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCc
Q 034383 4 RINLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRR 60 (96)
Q Consensus 4 kV~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~ 60 (96)
..+.+ +.|...+++.+..++||.++.+ .+.++-.+.|++..|..
T Consensus 66 ~~~~~-~~~~~~v~~~i~~~~gV~~v~~------------~sre~~l~~L~~~lg~~ 109 (297)
T COG2177 66 QIDAD-QDDAALVREKIEGIPGVKSVRF------------ISREEALKELQPWLGFG 109 (297)
T ss_pred ecCCC-hHHHHHHHHHHhcCCCcceEEE------------eCHHHHHHHHHHHcCch
Confidence 33444 7899999999999999999877 67888888888888864
No 49
>PRK10509 bacterioferritin-associated ferredoxin; Provisional
Probab=50.96 E-value=8.4 Score=23.03 Aligned_cols=20 Identities=20% Similarity=0.634 Sum_probs=17.0
Q ss_pred EEEeccchhhHHHHHHHHhc
Q 034383 3 MRINLDCNGCCRKLRRILLN 22 (96)
Q Consensus 3 lkV~M~C~~C~~kI~k~L~~ 22 (96)
++++-.|+.|...|++.|..
T Consensus 33 ~~~g~~CG~C~~~i~~il~~ 52 (64)
T PRK10509 33 VPVGNQCGKCIRAAREVMQD 52 (64)
T ss_pred cCCCCCccchHHHHHHHHHH
Confidence 46788999999999998864
No 50
>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=50.80 E-value=76 Score=21.75 Aligned_cols=29 Identities=7% Similarity=0.090 Sum_probs=24.9
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC 41 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~ 41 (96)
+.+|.+.+.+++||+++.+=.....+.|-
T Consensus 77 a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 77 ADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 67899999999999999888878887764
No 51
>TIGR01676 GLDHase galactonolactone dehydrogenase. This model represents L-Galactono-gamma-lactone dehydrogenase (EC 1.3.2.3). This enzyme catalyzes the final step in ascorbic acid biosynthesis in higher plants. This protein is homologous to ascorbic acid biosynthesis enzymes of other species: L-gulono-gamma-lactone oxidase in rat and L-galactono-gamma-lactone oxidase in yeast. All three covalently bind the cofactor FAD.
Probab=49.01 E-value=32 Score=28.79 Aligned_cols=39 Identities=18% Similarity=0.258 Sum_probs=31.2
Q ss_pred HhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 20 LLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 20 L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
|++|.+| +++|.++++|||.+.+....|.++|. ..|.-.
T Consensus 110 L~~ln~V--l~vD~~~~tVtV~AG~~l~~L~~~L~-~~Glal 148 (541)
T TIGR01676 110 LALMDKV--LEVDEEKKRVRVQAGIRVQQLVDAIK-EYGITL 148 (541)
T ss_pred hhhCCCC--EEEcCCCCEEEEcCCCCHHHHHHHHH-HcCCEe
Confidence 3445554 37888999999999999999999999 888643
No 52
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=48.84 E-value=73 Score=20.80 Aligned_cols=42 Identities=12% Similarity=0.054 Sum_probs=31.2
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCCCEEEE-EeeCCHHHHHHHHH
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQCRVSV-CGRFRPSDVAIKIR 54 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~~~VtV-~g~~dp~~l~~~l~ 54 (96)
=-.+|+.+|..|+|++=..-|.+ +++.| .-.-+...|.+.|.
T Consensus 19 ~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie 61 (94)
T COG3062 19 RLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIE 61 (94)
T ss_pred HHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHH
Confidence 35789999999999977677777 56555 44456777888777
No 53
>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=48.10 E-value=64 Score=19.83 Aligned_cols=41 Identities=12% Similarity=0.163 Sum_probs=28.1
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEEe-eCCHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVCG-RFRPSDVAIKIR 54 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g-~~dp~~l~~~l~ 54 (96)
...++++|..++|++=...|.+ +++.|+= .-+...+.+.|.
T Consensus 17 ~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~ 58 (79)
T PF03927_consen 17 LEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLID 58 (79)
T ss_dssp HHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHH
T ss_pred HHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHH
Confidence 5678999999999954455555 7766653 345566666655
No 54
>PRK09579 multidrug efflux protein; Reviewed
Probab=47.47 E-value=38 Score=30.14 Aligned_cols=43 Identities=16% Similarity=0.206 Sum_probs=32.1
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCC-EEEEE--------eeCCHHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQC-RVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~-~VtV~--------g~~dp~~l~~~l~k 55 (96)
++.|+..|++++||.+|++.-... ++.|. -.+++.+|.++|+.
T Consensus 158 ~~~i~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~ 209 (1017)
T PRK09579 158 SRVIQPKLATLPGMAEAEILGNQVFAMRLWLDPVKLAGFGLSAGDVTQAVRR 209 (1017)
T ss_pred HHHHHHHhhcCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHH
Confidence 467999999999999998776443 45554 13567888999983
No 55
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=47.37 E-value=78 Score=22.01 Aligned_cols=38 Identities=11% Similarity=0.069 Sum_probs=31.8
Q ss_pred EEEEcCCCEEEEEee--CCHHHHHHHHHHhcCCcEEEeecc
Q 034383 29 HLIEKQQCRVSVCGR--FRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 29 v~vD~~~~~VtV~g~--~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
.-+|++.+-+.+.+. ++...+++.|. +.|+.+.+.+--
T Consensus 46 AildL~G~~l~l~S~R~~~~~evi~~I~-~~G~PviVAtDV 85 (138)
T PF04312_consen 46 AILDLDGELLDLKSSRNMSRSEVIEWIS-EYGKPVIVATDV 85 (138)
T ss_pred EEEecCCcEEEEEeecCCCHHHHHHHHH-HcCCEEEEEecC
Confidence 468888888888764 89999999999 999999887643
No 56
>PRK10568 periplasmic protein; Provisional
Probab=46.91 E-value=61 Score=23.28 Aligned_cols=33 Identities=18% Similarity=0.285 Sum_probs=26.9
Q ss_pred HHHHHHHHhcCCCce--EEEEEcCCCEEEEEeeCC
Q 034383 13 CRKLRRILLNMKEIE--AHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~--~v~vD~~~~~VtV~g~~d 45 (96)
..+|+.+|..-+++. ++.+...++.|++.|.++
T Consensus 62 ~~~v~~~L~~~~~i~~~~I~V~v~~G~V~L~G~V~ 96 (203)
T PRK10568 62 TAKVKAALVDHDNIKSTDISVKTHQKVVTLSGFVE 96 (203)
T ss_pred HHHHHHHHHhCCCCCCCceEEEEECCEEEEEEEeC
Confidence 567888887766664 688888999999999987
No 57
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=46.75 E-value=72 Score=20.07 Aligned_cols=46 Identities=15% Similarity=0.276 Sum_probs=28.8
Q ss_pred EeccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCC
Q 034383 5 INLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNR 59 (96)
Q Consensus 5 V~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk 59 (96)
-.-.|..|. ++++.|.++ ||.-..+|.+. .-+...+.+++.+.+|.
T Consensus 14 sk~~Cp~C~-~ak~~L~~~-~i~~~~vdid~-------~~~~~~~~~~l~~~tg~ 59 (99)
T TIGR02189 14 SRSSCCMCH-VVKRLLLTL-GVNPAVHEIDK-------EPAGKDIENALSRLGCS 59 (99)
T ss_pred ECCCCHHHH-HHHHHHHHc-CCCCEEEEcCC-------CccHHHHHHHHHHhcCC
Confidence 346799998 667788876 67544455442 22335567777755665
No 58
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=44.63 E-value=25 Score=22.49 Aligned_cols=24 Identities=17% Similarity=0.336 Sum_probs=20.0
Q ss_pred hhhHHHHHHHHhcCCCceEEEEEc
Q 034383 10 NGCCRKLRRILLNMKEIEAHLIEK 33 (96)
Q Consensus 10 ~~C~~kI~k~L~~l~GV~~v~vD~ 33 (96)
.+=...+..++++++||+|+++..
T Consensus 61 ~~~td~lee~i~~~e~Vqsvei~~ 84 (88)
T PRK00435 61 EGGTEPVEEAFANVEGVESVEVEE 84 (88)
T ss_pred CcCcHHHHHHHhccCCCcEEEEEE
Confidence 355688999999999999998753
No 59
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=43.93 E-value=1.1e+02 Score=21.41 Aligned_cols=55 Identities=7% Similarity=0.095 Sum_probs=37.0
Q ss_pred HHHHHHHhcCCCceEEEEEcCCCEEEEEeeC------CHHHHHHHHHHhcCCcEEEeeccC
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQCRVSVCGRF------RPSDVAIKIRKKMNRRVEILEIQE 68 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~------dp~~l~~~l~kk~Gk~a~i~~~~~ 68 (96)
..|++.+-.=.||.++.+|.+.+.|++.-.- -....++.|.+++|-...++...+
T Consensus 56 ~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 56 KIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred HHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 3444444333589999999999999997321 234455666669998777775433
No 60
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=43.55 E-value=47 Score=29.61 Aligned_cols=41 Identities=12% Similarity=0.079 Sum_probs=31.7
Q ss_pred HHHHHHHhcCCCceEEEEEcCC-CEEEEE--------eeCCHHHHHHHHH
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQ-CRVSVC--------GRFRPSDVAIKIR 54 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~-~~VtV~--------g~~dp~~l~~~l~ 54 (96)
+.|+..|.+++||.+|+++-.. ..+.|. -.+++.++.++|+
T Consensus 169 ~~l~~~L~~i~gV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~~v~~ai~ 218 (1040)
T PRK10503 169 TRVAQKISQVSGVGLVTLSGGQRPAVRVKLNAQAIAALGLTSETVRTAIT 218 (1040)
T ss_pred HHHHHHhcCCCCceEEEecCCCceEEEEEECHHHHHHcCCCHHHHHHHHH
Confidence 5799999999999999988753 456665 2356677888887
No 61
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=43.04 E-value=42 Score=23.66 Aligned_cols=36 Identities=19% Similarity=0.140 Sum_probs=29.7
Q ss_pred cCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeeccCC
Q 034383 33 KQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQEH 69 (96)
Q Consensus 33 ~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~~~ 69 (96)
.-...|.++|+.|-.-++++++ ..|+++++++..+.
T Consensus 110 ~~D~ivl~SgD~DF~p~v~~~~-~~G~rv~v~~~~~~ 145 (181)
T COG1432 110 NVDTIVLFSGDGDFIPLVEAAR-DKGKRVEVAGIEPM 145 (181)
T ss_pred CCCEEEEEcCCccHHHHHHHHH-HcCCEEEEEecCCc
Confidence 4455677889999888899999 89999999988763
No 62
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=43.00 E-value=25 Score=22.68 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=18.6
Q ss_pred hhHHHHHHHHhcCCCceEEEEE
Q 034383 11 GCCRKLRRILLNMKEIEAHLIE 32 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD 32 (96)
|=-..+..+|+.++||+++++-
T Consensus 62 g~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 62 GGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred cCcHHHHHHHhhccCcceEEEE
Confidence 3467899999999999999874
No 63
>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=42.49 E-value=62 Score=20.43 Aligned_cols=57 Identities=18% Similarity=0.241 Sum_probs=37.7
Q ss_pred cchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeecc
Q 034383 8 DCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 8 ~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
|=.||++.|++.+..++-=. .+ ...++|.|.|.-.-.=|..+|.-..|..|..+..-
T Consensus 15 HP~GC~~~V~~qI~yvk~~~--~~-~GpK~VLViGaStGyGLAsRIa~aFg~gA~TiGV~ 71 (78)
T PF12242_consen 15 HPVGCARNVENQIEYVKSQG--KI-NGPKKVLVIGASTGYGLASRIAAAFGAGADTIGVS 71 (78)
T ss_dssp -HHHHHHHHHHHHHHHHHC------TS-SEEEEES-SSHHHHHHHHHHHHCC--EEEEEE
T ss_pred CcHHHHHHHHHHHHHHHhcC--CC-CCCceEEEEecCCcccHHHHHHHHhcCCCCEEEEe
Confidence 34799999999887654311 22 34578999999998888888885668888777653
No 64
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=42.16 E-value=53 Score=29.18 Aligned_cols=43 Identities=14% Similarity=0.108 Sum_probs=31.8
Q ss_pred HHHHHHHHhcCCCceEEEEEcCC-CEEEEE--------eeCCHHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQ-CRVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~-~~VtV~--------g~~dp~~l~~~l~k 55 (96)
++.++..|.+++||.+|++.-.. ..+.|. -.+++.++.++|+.
T Consensus 159 ~~~l~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~ 210 (1025)
T PRK10614 159 STQLAQTISQIDGVGDVDVGGSSLPAVRVGLNPQALFNQGVSLDDVRQAISN 210 (1025)
T ss_pred HHHHHHHhcCCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHH
Confidence 36799999999999999987643 345665 13566777888883
No 65
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=40.52 E-value=73 Score=18.33 Aligned_cols=48 Identities=15% Similarity=0.166 Sum_probs=33.2
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEee--CCHHHHHHHHHHhcCCcEEEe
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGR--FRPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~--~dp~~l~~~l~kk~Gk~a~i~ 64 (96)
|+.|..=.-+++++| ++.. .+.+.|..+ .....|...++ +.|+.+.+.
T Consensus 6 G~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~-~~G~~~~~~ 55 (67)
T cd03421 6 GLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAE-SRGYEVSVE 55 (67)
T ss_pred CCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHH-HcCCEEEEE
Confidence 688999889999999 6543 223444433 33467888887 999988544
No 66
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=40.14 E-value=93 Score=19.46 Aligned_cols=47 Identities=11% Similarity=0.073 Sum_probs=33.5
Q ss_pred hhhHHHHHHHHhcCCC-ceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcC
Q 034383 10 NGCCRKLRRILLNMKE-IEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 10 ~~C~~kI~k~L~~l~G-V~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
..+.+.++..|....+ -..+.++...+.|.|.|.. ...|.+.|. +.|
T Consensus 39 ~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~-~~~Vk~wL~-~~G 86 (87)
T PF05046_consen 39 WALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDH-VEEVKKWLL-EKG 86 (87)
T ss_pred HHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCcc-HHHHHHHHH-HCc
Confidence 4456667777755443 2367899999999999997 566777777 555
No 67
>PRK11670 antiporter inner membrane protein; Provisional
Probab=39.78 E-value=90 Score=24.47 Aligned_cols=53 Identities=17% Similarity=0.181 Sum_probs=36.6
Q ss_pred HHHHHHHHhcCCCceEEEEEcCC------------------CEEEEE---ee----CCHHHHHHHHHHhcCCcEEEeec
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQ------------------CRVSVC---GR----FRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~------------------~~VtV~---g~----~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
.+.++.+|..++|+.++.+++.. ..+.|. |. .-...|..+|. +.|+++-++.-
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA-~~G~rVlLID~ 144 (369)
T PRK11670 67 KEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNLALALA-AEGAKVGILDA 144 (369)
T ss_pred HHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHHHHHHHH-HCCCcEEEEeC
Confidence 35688899999999887765533 223343 22 34566788888 88999988864
No 68
>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=39.77 E-value=62 Score=21.20 Aligned_cols=31 Identities=19% Similarity=0.179 Sum_probs=24.5
Q ss_pred hHHHHHHHHh---cCCCceEEEEEcCCCEEEEEe
Q 034383 12 CCRKLRRILL---NMKEIEAHLIEKQQCRVSVCG 42 (96)
Q Consensus 12 C~~kI~k~L~---~l~GV~~v~vD~~~~~VtV~g 42 (96)
-.+.|+.+|. .+.+|+++++..+.+.+.|.-
T Consensus 70 i~r~I~EaL~~d~rI~~V~~f~f~~~~~~l~v~f 103 (112)
T PF10934_consen 70 IEREIEEALLQDPRITSVENFSFEWEGDSLYVSF 103 (112)
T ss_pred HHHHHHHHHhcCCCcceEEEEEEEEECCEEEEEE
Confidence 4678888885 567788889999999987763
No 69
>smart00749 BON bacterial OsmY and nodulation domain.
Probab=39.42 E-value=64 Score=17.33 Aligned_cols=36 Identities=17% Similarity=0.146 Sum_probs=26.5
Q ss_pred HHHHHHHhcCCCceE--EEEEcCCCEEEEEeeCCHHHH
Q 034383 14 RKLRRILLNMKEIEA--HLIEKQQCRVSVCGRFRPSDV 49 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~--v~vD~~~~~VtV~g~~dp~~l 49 (96)
.+|+.+|...+.+.. +.+.-..+.+++.|...+..-
T Consensus 2 ~~v~~~l~~~~~~~~~~~~v~~~~~~vvL~g~~~~~~~ 39 (62)
T smart00749 2 EKVKKALAKDGLIKADSIVVVTDGGVVVLLGGVVDNAE 39 (62)
T ss_pred hhHHHHHhhCCCCCcCceEEEEECCEEEEeeecCCHHH
Confidence 468888887776654 777778889999887655443
No 70
>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=39.37 E-value=50 Score=29.37 Aligned_cols=43 Identities=14% Similarity=0.124 Sum_probs=32.7
Q ss_pred HHHHHHHHhcCCCceEEEEEcCC--CEEEEE--------eeCCHHHHHHHHHH
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQ--CRVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~--~~VtV~--------g~~dp~~l~~~l~k 55 (96)
+++|+..|..++||.++..|... ..+.|. -.+++..|.+.|+.
T Consensus 700 a~~v~~~l~~~pgv~~v~~~~~~~~~e~~i~id~~~~~~~Glt~~~v~~~l~~ 752 (1051)
T TIGR00914 700 AEKISAVLKGVPGAADVKVEQTTGLPYLTVEIDREKAARYGLTVGDVQDTVAT 752 (1051)
T ss_pred HHHHHHHHhcCCCceeeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 67899999999999999998754 345554 13677888888873
No 71
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=38.76 E-value=34 Score=20.23 Aligned_cols=18 Identities=11% Similarity=0.069 Sum_probs=14.9
Q ss_pred HHHHHHHHhcCCCceEEE
Q 034383 13 CRKLRRILLNMKEIEAHL 30 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~ 30 (96)
-..|.+.|.+++||.+|.
T Consensus 62 L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 62 LNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp HHHHHHHHCTSTTEEEEE
T ss_pred HHHHHHHHHCCCCeeEEE
Confidence 457888899999998874
No 72
>PF02983 Pro_Al_protease: Alpha-lytic protease prodomain; InterPro: IPR004236 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. The alpha-lytic protease prodomain is associated with serine peptidases, specifically the alpha-lytic endopeptidases and streptogrisin A, B, C, D and E, which are bacterial enzymes and which belong to MEROPS peptidase subfamily S1A (IPR001316 from INTERPRO). The protease precursor in Gram-negative bacterial proteases may be a general property of extracellular bacterial proteases []. The proteases are encoded with a large (166 amino acid) N-terminal pro region that is required transiently both in vivo and in vitro for the correct folding of the protease domain [, ]. The pro region also acts as a potent inhibitor of the mature enzyme []. ; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis, 0005576 extracellular region; PDB: 3PRO_C 2PRO_B 4PRO_C.
Probab=38.58 E-value=83 Score=18.41 Aligned_cols=21 Identities=10% Similarity=0.197 Sum_probs=17.9
Q ss_pred CCCceEEEEEcCCCEEEEEee
Q 034383 23 MKEIEAHLIEKQQCRVSVCGR 43 (96)
Q Consensus 23 l~GV~~v~vD~~~~~VtV~g~ 43 (96)
-.++.+..+|..+++|.|+..
T Consensus 22 ~~~~~~WyvD~~tn~VVV~a~ 42 (62)
T PF02983_consen 22 PVAVTSWYVDPRTNKVVVTAD 42 (62)
T ss_dssp GGCEEEEEEECCCTEEEEEEE
T ss_pred CCCcceEEEeCCCCeEEEEEC
Confidence 457899999999999999854
No 73
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=38.44 E-value=47 Score=19.65 Aligned_cols=11 Identities=18% Similarity=0.395 Sum_probs=8.0
Q ss_pred EeccchhhHHH
Q 034383 5 INLDCNGCCRK 15 (96)
Q Consensus 5 V~M~C~~C~~k 15 (96)
++-.|..|...
T Consensus 6 ~~~~C~~C~~~ 16 (76)
T PF13192_consen 6 FSPGCPYCPEL 16 (76)
T ss_dssp ECSSCTTHHHH
T ss_pred eCCCCCCcHHH
Confidence 46679999843
No 74
>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=38.32 E-value=31 Score=21.71 Aligned_cols=24 Identities=13% Similarity=0.160 Sum_probs=20.2
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~d 45 (96)
.|+|+. ++++++..+.++|.|.-.
T Consensus 15 dlPG~~kedI~V~v~~~~L~I~ger~ 40 (87)
T cd06482 15 DVCGFEPDQVKVKVKDGKVQVSAERE 40 (87)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEe
Confidence 578985 689999999999999754
No 75
>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=38.12 E-value=37 Score=21.06 Aligned_cols=24 Identities=8% Similarity=0.342 Sum_probs=19.7
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~d 45 (96)
.++|+. +++++...+.++|.|.-.
T Consensus 17 dlPG~~~edi~V~v~~~~L~I~g~~~ 42 (86)
T cd06475 17 DVNHFAPEELVVKTKDGVVEITGKHE 42 (86)
T ss_pred ECCCCCHHHEEEEEECCEEEEEEEEC
Confidence 478885 789999999999999743
No 76
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=37.98 E-value=58 Score=21.01 Aligned_cols=30 Identities=13% Similarity=0.021 Sum_probs=26.5
Q ss_pred EEEEcCCCEEEEEeeCCHHHHHHHHHHhcCC
Q 034383 29 HLIEKQQCRVSVCGRFRPSDVAIKIRKKMNR 59 (96)
Q Consensus 29 v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk 59 (96)
+++|.+.+.++|.+.+...+|.++|. ..|+
T Consensus 57 ~~id~~~~~v~v~aG~~~~~l~~~l~-~~g~ 86 (139)
T PF01565_consen 57 IEIDPENGTVTVGAGVTWGDLYEALA-PRGL 86 (139)
T ss_dssp EEEETTTTEEEEETTSBHHHHHHHHH-HHTE
T ss_pred ccccccceeEEEeccccchhcccccc-cccc
Confidence 68888999999999999999999998 5564
No 77
>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=37.53 E-value=54 Score=18.91 Aligned_cols=22 Identities=32% Similarity=0.392 Sum_probs=17.6
Q ss_pred CEEEEEee-CCHHHHHHHHHHhc
Q 034383 36 CRVSVCGR-FRPSDVAIKIRKKM 57 (96)
Q Consensus 36 ~~VtV~g~-~dp~~l~~~l~kk~ 57 (96)
+.|+|.|. -+|..+.++|.+++
T Consensus 6 G~Isvs~~~~s~~d~~~~la~kA 28 (56)
T PF07338_consen 6 GTISVSGNFGSPDDAEEALAKKA 28 (56)
T ss_dssp EEEEEEEECSSHHHHHHHHHHHH
T ss_pred EEEEEccccCCHHHHHHHHHHHH
Confidence 46888887 78999999888654
No 78
>COG0277 GlcD FAD/FMN-containing dehydrogenases [Energy production and conversion]
Probab=37.22 E-value=38 Score=26.28 Aligned_cols=35 Identities=11% Similarity=0.113 Sum_probs=28.9
Q ss_pred cCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCC
Q 034383 22 NMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNR 59 (96)
Q Consensus 22 ~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk 59 (96)
+|.+|. ++|.+++.++|...+.-..|.++|+ ..|+
T Consensus 83 ~mn~i~--~id~~~~~~~v~aGv~l~~l~~~l~-~~G~ 117 (459)
T COG0277 83 RLNRIL--EIDPEDGTATVQAGVTLEDLEKALA-PHGL 117 (459)
T ss_pred hhcchh--ccCcCCCEEEEcCCccHHHHHHHHH-HcCC
Confidence 344443 7999999999999999999999999 6676
No 79
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=36.62 E-value=85 Score=21.52 Aligned_cols=38 Identities=11% Similarity=0.096 Sum_probs=29.7
Q ss_pred EEEEcCCCEEEEEeeCC-HHHHHHHHHHhcCCcEEEeecc
Q 034383 29 HLIEKQQCRVSVCGRFR-PSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 29 v~vD~~~~~VtV~g~~d-p~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
+-+|++..+|.|.|.=. ....++.|. +.|..+.+++++
T Consensus 7 ~~l~l~~~~vlVvGGG~va~rka~~Ll-~~ga~V~VIsp~ 45 (157)
T PRK06719 7 LMFNLHNKVVVIIGGGKIAYRKASGLK-DTGAFVTVVSPE 45 (157)
T ss_pred eEEEcCCCEEEEECCCHHHHHHHHHHH-hCCCEEEEEcCc
Confidence 57899999999997643 455677777 789999999754
No 80
>PHA01634 hypothetical protein
Probab=36.10 E-value=14 Score=26.04 Aligned_cols=13 Identities=46% Similarity=0.991 Sum_probs=10.8
Q ss_pred eccchhhHHHHHH
Q 034383 6 NLDCNGCCRKLRR 18 (96)
Q Consensus 6 ~M~C~~C~~kI~k 18 (96)
-|.|+||++.+.-
T Consensus 97 ~iDCeGCE~~l~v 109 (156)
T PHA01634 97 VMDCEGCEEKLNV 109 (156)
T ss_pred EEEccchHHhcCH
Confidence 5899999998753
No 81
>PRK10743 heat shock protein IbpA; Provisional
Probab=35.86 E-value=34 Score=23.32 Aligned_cols=24 Identities=17% Similarity=0.088 Sum_probs=19.9
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~d 45 (96)
.|+||. +++|+++.+.++|.|.-.
T Consensus 52 elPGv~kedi~V~v~~~~LtI~ge~~ 77 (137)
T PRK10743 52 AVAGFAESELEITAQDNLLVVKGAHA 77 (137)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEC
Confidence 578984 789999999999999743
No 82
>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=35.52 E-value=39 Score=29.75 Aligned_cols=43 Identities=16% Similarity=0.128 Sum_probs=30.8
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCC-CEEEEE--------eeCCHHHHHHHHH
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQ-CRVSVC--------GRFRPSDVAIKIR 54 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~-~~VtV~--------g~~dp~~l~~~l~ 54 (96)
-...++..|++++||.+|++.-.. ..+.|. -.+++.++.++|+
T Consensus 157 ~~~~l~~~L~~i~gV~~v~~~G~~~~ei~i~~d~~kl~~~gls~~~v~~~l~ 208 (1021)
T PF00873_consen 157 AEEQLKPRLERIPGVARVDISGGREREIQIELDPEKLAAYGLSLSDVAQALQ 208 (1021)
T ss_dssp HHHCTHHHHHTSTTEEEEEESSS--EEEEEEE-HHHHHHTT--HHHHHHHHH
T ss_pred HHHHHHHhccceeEEEEEEeccchhhhhhheechhhhhhhCCCHHHHHHHHH
Confidence 346799999999999999988743 445665 1356677888888
No 83
>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=35.17 E-value=42 Score=19.65 Aligned_cols=17 Identities=12% Similarity=0.114 Sum_probs=14.6
Q ss_pred HHHHHHHhcCCCceEEE
Q 034383 14 RKLRRILLNMKEIEAHL 30 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~ 30 (96)
..+.+.|.+++||.+|.
T Consensus 52 ~~li~~L~~i~gV~~V~ 68 (74)
T cd04877 52 QTLMPEIRRIDGVEDVK 68 (74)
T ss_pred HHHHHHHhCCCCceEEE
Confidence 67888899999999885
No 84
>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=34.63 E-value=41 Score=20.58 Aligned_cols=24 Identities=4% Similarity=0.166 Sum_probs=19.9
Q ss_pred cCCCc--eEEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEI--EAHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV--~~v~vD~~~~~VtV~g~~d 45 (96)
.|+|| ++++++...+.++|.|...
T Consensus 17 ~lPGv~~edi~v~~~~~~L~I~g~~~ 42 (93)
T cd06471 17 DLPGFKKEDIKLDYKDGYLTISAKRD 42 (93)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEc
Confidence 57888 4789999999999998754
No 85
>PRK11597 heat shock chaperone IbpB; Provisional
Probab=34.44 E-value=36 Score=23.46 Aligned_cols=23 Identities=17% Similarity=0.169 Sum_probs=19.7
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~ 44 (96)
.|+||. +++|+.+.+.++|.|.-
T Consensus 50 dlPGv~kedi~V~v~~~~LtI~ge~ 74 (142)
T PRK11597 50 ALAGFRQEDLDIQLEGTRLTVKGTP 74 (142)
T ss_pred EeCCCCHHHeEEEEECCEEEEEEEE
Confidence 578984 69999999999999974
No 86
>PF01514 YscJ_FliF: Secretory protein of YscJ/FliF family; InterPro: IPR006182 This domain is found in proteins that are related to the YscJ lipoprotein, where it covers most of the sequence, and the flagellar M-ring protein FliF, where it covers the N-terminal region. The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flagellar proteins, based on the similarity to YscJ proteins [].; PDB: 1YJ7_A 2Y9J_d.
Probab=34.15 E-value=53 Score=23.74 Aligned_cols=21 Identities=14% Similarity=0.240 Sum_probs=16.8
Q ss_pred HHHHHHHHhcCCCceEEEEEc
Q 034383 13 CRKLRRILLNMKEIEAHLIEK 33 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~ 33 (96)
.+.+.+.|+.++||.++.|.+
T Consensus 117 e~eL~~tI~~i~gV~~A~V~l 137 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVHL 137 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEEE
T ss_pred HHHHHHHHHcCCCeeEEEEEE
Confidence 457888999999999876653
No 87
>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=34.06 E-value=41 Score=20.93 Aligned_cols=25 Identities=8% Similarity=0.138 Sum_probs=20.5
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCCH
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFRP 46 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~dp 46 (96)
.++|+. +++|++..+.++|.|....
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~ge~~~ 40 (83)
T cd06477 14 DVVQFRPEDIIIQVFEGWLLIKGQHGV 40 (83)
T ss_pred EcCCCCHHHeEEEEECCEEEEEEEEcc
Confidence 478874 7999999999999997543
No 88
>PF03948 Ribosomal_L9_C: Ribosomal protein L9, C-terminal domain; InterPro: IPR020069 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L9 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [, ]. The crystal structure of Bacillus stearothermophilus L9 shows the 149-residue protein comprises two globular domains connected by a rigid linker []. Each domain contains an rRNA binding site, and the protein functions as a structural protein in the large subunit of the ribosome. The C-terminal domain consists of two loops, an alpha-helix and a three-stranded mixed parallel, anti-parallel beta-sheet packed against the central alpha-helix. The long central alpha-helix is exposed to solvent in the middle and participates in the hydrophobic cores of the two domains at both ends. ; PDB: 3D5B_I 3PYV_H 3F1H_I 3PYR_H 3MRZ_H 1VSP_G 3MS1_H 1VSA_G 3PYT_H 2WH4_I ....
Probab=33.81 E-value=36 Score=21.29 Aligned_cols=42 Identities=12% Similarity=0.260 Sum_probs=27.4
Q ss_pred HHhcCCCceEEEEEcCCCE-EEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 19 ILLNMKEIEAHLIEKQQCR-VSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 19 ~L~~l~GV~~v~vD~~~~~-VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
...+|+|.. +.+....+. =.+-|++.+.+|.++|.+.+|..+
T Consensus 7 l~~~l~~~~-l~i~~k~g~~gklfGSVt~~dIa~~l~~~~g~~I 49 (87)
T PF03948_consen 7 LAEKLEGIT-LTIKRKAGENGKLFGSVTSKDIAKALKEQTGIEI 49 (87)
T ss_dssp HHHHHCSSE-EEEEECBSSCSSBSSEBSHHHHHHHHHHCCSSSS
T ss_pred HHHHhcCCE-EEEEEEecCCcceecCcCHHHHHHHHHHhhCCeE
Confidence 334455654 555553332 234689999999999996668753
No 89
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=33.78 E-value=90 Score=19.12 Aligned_cols=21 Identities=10% Similarity=0.197 Sum_probs=18.4
Q ss_pred CCCEEEEEeeCCHHHHHHHHH
Q 034383 34 QQCRVSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 34 ~~~~VtV~g~~dp~~l~~~l~ 54 (96)
.+|+++++|.-+++.+..+++
T Consensus 56 ~sGki~itGaks~~~~~~a~~ 76 (86)
T PF00352_consen 56 SSGKIVITGAKSEEEAKKAIE 76 (86)
T ss_dssp TTSEEEEEEESSHHHHHHHHH
T ss_pred cCCEEEEEecCCHHHHHHHHH
Confidence 789999999999988888776
No 90
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=33.61 E-value=41 Score=22.66 Aligned_cols=26 Identities=8% Similarity=0.135 Sum_probs=21.4
Q ss_pred hcCCCce--EEEEEcCCCEEEEEeeCCH
Q 034383 21 LNMKEIE--AHLIEKQQCRVSVCGRFRP 46 (96)
Q Consensus 21 ~~l~GV~--~v~vD~~~~~VtV~g~~dp 46 (96)
..|+|+. +++|.+..+.++|.|....
T Consensus 56 ~elPG~~kedI~I~~~~~~l~I~g~~~~ 83 (146)
T COG0071 56 AELPGVDKEDIEITVEGNTLTIRGEREE 83 (146)
T ss_pred EEcCCCChHHeEEEEECCEEEEEEEecc
Confidence 4578985 7999999999999997654
No 91
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=33.38 E-value=46 Score=23.22 Aligned_cols=42 Identities=24% Similarity=0.225 Sum_probs=29.8
Q ss_pred hhhHHHHHHHHhcCCCceEEEEEcCCCE-EEEEeeCCHHHHHHHHH
Q 034383 10 NGCCRKLRRILLNMKEIEAHLIEKQQCR-VSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 10 ~~C~~kI~k~L~~l~GV~~v~vD~~~~~-VtV~g~~dp~~l~~~l~ 54 (96)
++|.++|..+|.++ .=|+-+.+.++ +|=.|.-|-+.|+..|+
T Consensus 97 ~~i~rkvlQ~Le~~---~~ve~hp~gGR~lt~~GqrdldrIa~~i~ 139 (143)
T KOG3411|consen 97 GGIARKVLQALEKM---GIVEKHPKGGRRLTEQGQRDLDRIAGQIR 139 (143)
T ss_pred cHHHHHHHHHHHhC---CceeeCCCCcceeCcccchhHHHHHHHHH
Confidence 45666666666555 45666766554 66679999999999888
No 92
>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=33.37 E-value=44 Score=20.68 Aligned_cols=23 Identities=13% Similarity=0.242 Sum_probs=19.3
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~ 44 (96)
.++|+. +++++...+.++|.|.-
T Consensus 17 dlpG~~~edi~V~v~~~~L~I~g~~ 41 (86)
T cd06497 17 DVKHFSPEDLTVKVLDDYVEIHGKH 41 (86)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 478874 78999999999999974
No 93
>PF07837 FTCD_N: Formiminotransferase domain, N-terminal subdomain; InterPro: IPR012886 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. This entry represents the N-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 2PFD_C 1QD1_B.
Probab=33.06 E-value=77 Score=22.88 Aligned_cols=53 Identities=11% Similarity=0.150 Sum_probs=33.1
Q ss_pred HHHHHHHHhcCCCce--EEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEee
Q 034383 13 CRKLRRILLNMKEIE--AHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILE 65 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~--~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~ 65 (96)
..+|.+++...+||. ++..|.+-++..++=--+|+.|.++.-....+-.+++.
T Consensus 18 ie~I~~a~~~~~gv~ll~~~~D~~~NRsv~T~vG~p~~v~~a~~~~~~~A~~~ID 72 (178)
T PF07837_consen 18 IEAIAKAARNVPGVKLLDVFSDADYNRSVITLVGEPEAVAEAAFAAIRKALELID 72 (178)
T ss_dssp HHHHHHHCCTSTTEEEEEEEEETTTTEEEEEEEE-HHHHHHHHHHHHHHHHCC--
T ss_pred HHHHHHHHHcCCCCEEEecCCCCCCCCCeEEEeeChHHHHHHHHHHHHHHHHhcc
Confidence 467888888899975 67778888886665333466666665534443344443
No 94
>PF11873 DUF3393: Domain of unknown function (DUF3393); InterPro: IPR024570 Membrane-bound lytic murein transglycosylase C (also known as murein hydrolase C), is a murein-degrading enzyme that may play a role in the recycling of muropeptides during cell elongation and/or cell division. This entry represents the N-terminal domain, whose function is currently not known.
Probab=33.02 E-value=93 Score=22.82 Aligned_cols=28 Identities=7% Similarity=0.026 Sum_probs=21.5
Q ss_pred eEEEEEcCCCEEEEEeeCC---HHHHHHHHH
Q 034383 27 EAHLIEKQQCRVSVCGRFR---PSDVAIKIR 54 (96)
Q Consensus 27 ~~v~vD~~~~~VtV~g~~d---p~~l~~~l~ 54 (96)
.+..||.++|.++|++-.+ -..|.+||-
T Consensus 88 tRa~VdFd~G~I~VETi~~~~p~~~Lk~AIv 118 (204)
T PF11873_consen 88 TRAHVDFDKGTITVETIAQTDPKAHLKQAIV 118 (204)
T ss_pred eEEEEEeeCCeEEEEecCCcCHHHHHHHHHH
Confidence 4678999999999996443 456777777
No 95
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=32.96 E-value=87 Score=17.38 Aligned_cols=34 Identities=15% Similarity=0.239 Sum_probs=21.6
Q ss_pred HHHhcCCCceEEEEEcC--CCEEEEEeeCCHHHHHHHHH
Q 034383 18 RILLNMKEIEAHLIEKQ--QCRVSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 18 k~L~~l~GV~~v~vD~~--~~~VtV~g~~dp~~l~~~l~ 54 (96)
+.|...-|+. +.++.. ...++|.| +++.+.++++
T Consensus 23 ~~I~~~t~~~-I~i~~~~~~~~v~I~G--~~~~v~~A~~ 58 (60)
T PF00013_consen 23 KEIEEETGVK-IQIPDDDERDIVTISG--SPEQVEKAKK 58 (60)
T ss_dssp HHHHHHHTSE-EEEESTTEEEEEEEEE--SHHHHHHHHH
T ss_pred HHhhhhcCeE-EEEcCCCCcEEEEEEe--CHHHHHHHHh
Confidence 3344444664 666543 35788898 8888877765
No 96
>PF00679 EFG_C: Elongation factor G C-terminus; InterPro: IPR000640 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 EF2 (EF-G) is a G-protein. It brings about the translocation of peptidyl-tRNA and mRNA through a ratchet-like mechanism: the binding of GTP-EF2 to the ribosome causes a counter-clockwise rotation in the small ribosomal subunit; the hydrolysis of GTP to GDP by EF2 and the subsequent release of EF2 causes a clockwise rotation of the small subunit back to the starting position [, ]. This twisting action destabilises tRNA-ribosome interactions, freeing the tRNA to translocate along the ribosome upon GTP-hydrolysis by EF2. EF2 binding also affects the entry and exit channel openings for the mRNA, widening it when bound to enable the mRNA to translocate along the ribosome. This entry represents the C-terminal domain found in EF2 (or EF-G) of both prokaryotes and eukaryotes (also known as eEF2), as well as in some tetracycline-resistance proteins. This domain adopts a ferredoxin-like fold consisting of an alpha/beta sandwich with anti-parallel beta-sheets. It resembles the topology of domain III found in these elongation factors, with which it forms the C-terminal block, but these two domains cannot be superimposed []. This domain is often found associated with (IPR000795 from INTERPRO), which contains the signatures for the N terminus of the proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1WDT_A 2DY1_A 3CB4_F 3DEG_C 2EFG_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y ....
Probab=32.80 E-value=1.2e+02 Score=18.50 Aligned_cols=47 Identities=13% Similarity=-0.001 Sum_probs=32.5
Q ss_pred hhhHHHHHHHHhcCCC-ceEEEEEcCCCEEEEEeeCCHHHH---HHHHHHhc
Q 034383 10 NGCCRKLRRILLNMKE-IEAHLIEKQQCRVSVCGRFRPSDV---AIKIRKKM 57 (96)
Q Consensus 10 ~~C~~kI~k~L~~l~G-V~~v~vD~~~~~VtV~g~~dp~~l---~~~l~kk~ 57 (96)
..+..+|...|++..| |.+...+ .++...|.|.++...+ ...|+.-+
T Consensus 15 ~~~~g~v~~~l~~r~g~i~~~~~~-~~~~~~i~~~iP~~~~~gf~~~Lr~~T 65 (89)
T PF00679_consen 15 EEYLGKVISDLSKRRGEILSMDPI-GGDRVVIEAEIPVRELFGFRSELRSLT 65 (89)
T ss_dssp GGGHHHHHHHHHHTT-EEEEEEEE-STTEEEEEEEEEGGGHTTHHHHHHHHT
T ss_pred HHHHHHHHHHhcccccEEEechhh-hhhheeEEEEEChhhhhhHHHHhhccC
Confidence 6778999999999888 3455555 6889999988765443 44455333
No 97
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=32.79 E-value=88 Score=22.51 Aligned_cols=48 Identities=13% Similarity=0.140 Sum_probs=35.6
Q ss_pred chhhHHHHHHHHhc-CCCceEEEEEcCC-----CEEEEEeeCCHHHHHHHHHHhcC
Q 034383 9 CNGCCRKLRRILLN-MKEIEAHLIEKQQ-----CRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 9 C~~C~~kI~k~L~~-l~GV~~v~vD~~~-----~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
-+..-.+|++.|.+ +||+..+-++... +.+=|+ .++|+.|.++|. ...
T Consensus 56 pD~~GekIRk~i~~~vp~~khafi~~~~a~~~~~~iGVE-~As~e~I~~AL~-~~~ 109 (174)
T TIGR00334 56 PDFPGEKIRKKIEQHLPGYENCFIPKHLAKPNKKKIGVE-EASVEAIIAALE-NVH 109 (174)
T ss_pred CCCchHHHHHHHHHHCCCCeEEeeeHHhcCcCCCCcccC-CCCHHHHHHHHH-Hhc
Confidence 34556789999987 9999988888543 334444 478999999999 544
No 98
>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=32.47 E-value=52 Score=20.15 Aligned_cols=23 Identities=13% Similarity=0.187 Sum_probs=18.9
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~ 44 (96)
.++|+. +++++...+.++|.|.-
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~g~~ 38 (83)
T cd06478 14 DVKHFSPEELSVKVLGDFVEIHGKH 38 (83)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 467874 78899999999999964
No 99
>TIGR02830 spore_III_AG stage III sporulation protein AG. CC A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is found in a spore formation operon and is designated stage III sporulation protein AG.
Probab=32.12 E-value=45 Score=24.17 Aligned_cols=29 Identities=14% Similarity=0.253 Sum_probs=21.3
Q ss_pred hHHHHHHHHhcCCCceEE--EEEcCCCEEEE
Q 034383 12 CCRKLRRILLNMKEIEAH--LIEKQQCRVSV 40 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v--~vD~~~~~VtV 40 (96)
=+++++..|+++.||.+| .+.++++.-.|
T Consensus 62 lE~~L~~iL~~I~GvG~V~VmItl~s~~e~v 92 (186)
T TIGR02830 62 YENELKEILEKIEGVGDVTVMVNLDSSEEKV 92 (186)
T ss_pred HHHHHHHHHHhccCcceeEEEEEECCCceEE
Confidence 367889999999999865 45666555444
No 100
>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=32.03 E-value=81 Score=17.86 Aligned_cols=29 Identities=7% Similarity=0.133 Sum_probs=21.8
Q ss_pred HHHHHHHHhcCCCceEEEEEc-CCCEEEEE
Q 034383 13 CRKLRRILLNMKEIEAHLIEK-QQCRVSVC 41 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~-~~~~VtV~ 41 (96)
...+++.|.+++.|.++.+.. -.+++.|.
T Consensus 36 ~~~~~~~l~~~p~V~~v~V~r~~P~~l~I~ 65 (69)
T PF08478_consen 36 LKKIEQRLEKLPWVKSVSVSRRFPNTLEIK 65 (69)
T ss_dssp HHHHHHCCCCTTTEEEEEEEEETTTEEEEE
T ss_pred HHHHHHHHHcCCCEEEEEEEEeCCCEEEEE
Confidence 357788898999999999875 45566553
No 101
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=31.97 E-value=24 Score=23.21 Aligned_cols=26 Identities=23% Similarity=0.347 Sum_probs=16.3
Q ss_pred CEEEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 36 CRVSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 36 ~~VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
.+|-|.|..++..|+.++-||.|+.-
T Consensus 13 k~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 13 KTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 34677888999888777777999754
No 102
>CHL00160 rpl9 ribosomal protein L9; Provisional
Probab=31.85 E-value=1.7e+02 Score=20.41 Aligned_cols=40 Identities=20% Similarity=0.363 Sum_probs=27.4
Q ss_pred hcCCCceEEEEEc---CCCEEEEEeeCCHHHHHHHHHHhcCCcEE
Q 034383 21 LNMKEIEAHLIEK---QQCRVSVCGRFRPSDVAIKIRKKMNRRVE 62 (96)
Q Consensus 21 ~~l~GV~~v~vD~---~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~ 62 (96)
..|+++.++.+-. ++++ +-|++.+..|.++|.+..|..++
T Consensus 75 ~~l~~~~~~~i~~k~ge~gk--lfGSVt~~dIa~~l~~~~g~~id 117 (153)
T CHL00160 75 QLLEEIQKFSVKKKVGENNQ--IFGSVTEKEISQIIKNKTNIDLE 117 (153)
T ss_pred HHhhCCceEEEEEEeCCCCe--EEcccCHHHHHHHHHHhhCCccc
Confidence 3566664455543 3444 58999999999999756687554
No 103
>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=31.13 E-value=56 Score=20.72 Aligned_cols=23 Identities=13% Similarity=0.212 Sum_probs=19.0
Q ss_pred hhHHHHHHHHhcCCCceEEEEEc
Q 034383 11 GCCRKLRRILLNMKEIEAHLIEK 33 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD~ 33 (96)
+=...+..++++++||+++++..
T Consensus 62 ~~td~lee~i~~~d~VqsveI~~ 84 (88)
T cd00292 62 GGTDELEEAISEEDGVQSVDVEA 84 (88)
T ss_pred cCcHHHHHHHhccCCceEEEEEE
Confidence 33588999999999999998754
No 104
>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=31.00 E-value=51 Score=20.33 Aligned_cols=26 Identities=15% Similarity=0.199 Sum_probs=20.6
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCCHH
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFRPS 47 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~dp~ 47 (96)
.|+|+. ++++....+.++|.|.....
T Consensus 18 ~lPG~~kedi~v~~~~~~L~I~g~~~~~ 45 (90)
T cd06470 18 AVAGFSEDDLEIEVENNQLTVTGKKADE 45 (90)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEccc
Confidence 578885 68888899999999975443
No 105
>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=30.48 E-value=68 Score=17.38 Aligned_cols=18 Identities=11% Similarity=-0.084 Sum_probs=14.8
Q ss_pred HHHHHHHHhcCCCceEEE
Q 034383 13 CRKLRRILLNMKEIEAHL 30 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~ 30 (96)
...+.+.|..++||.+|.
T Consensus 52 ~~~l~~~l~~~~~V~~v~ 69 (71)
T cd04879 52 PEEVLEELKALPGIIRVR 69 (71)
T ss_pred CHHHHHHHHcCCCeEEEE
Confidence 347888899999998875
No 106
>TIGR01679 bact_FAD_ox FAD-linked oxidoreductase. This model represents a family of bacterial oxidoreductases with covalently linked FAD, closely related to two different eukaryotic oxidases, L-gulonolactone oxidase (EC 1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase (EC 1.1.3.37) from Saccharomyces cerevisiae.
Probab=30.24 E-value=95 Score=24.65 Aligned_cols=31 Identities=6% Similarity=0.034 Sum_probs=27.3
Q ss_pred EEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 30 LIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 30 ~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
++|.++++|+|.+.+....|.+.|. +-|+-.
T Consensus 65 ~~d~~~~~v~v~aG~~l~~l~~~L~-~~G~~l 95 (419)
T TIGR01679 65 DVDQPTGLATVEAGTRLGALGPQLA-QRGLGL 95 (419)
T ss_pred eecCCCCEEEEcCCCCHHHHHHHHH-HcCCcc
Confidence 6888899999999999999999999 888643
No 107
>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=30.20 E-value=52 Score=20.39 Aligned_cols=23 Identities=9% Similarity=0.213 Sum_probs=19.0
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~ 44 (96)
.++|+. +++|++..+.++|.|.-
T Consensus 14 dlpG~~~edI~V~v~~~~L~I~g~~ 38 (87)
T cd06481 14 DVRGFSPEDLSVRVDGRKLVVTGKR 38 (87)
T ss_pred ECCCCChHHeEEEEECCEEEEEEEE
Confidence 478874 78999999999999864
No 108
>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=30.17 E-value=52 Score=20.32 Aligned_cols=24 Identities=8% Similarity=0.106 Sum_probs=19.6
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~d 45 (96)
.++|+. +++++...+.++|.|.-.
T Consensus 14 dlpG~~~edi~V~v~~~~L~I~g~~~ 39 (83)
T cd06476 14 DVCHFTPDEITVRTVDNLLEVSARHP 39 (83)
T ss_pred EcCCCCHHHeEEEEECCEEEEEEEEc
Confidence 467874 789999999999999754
No 109
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=30.05 E-value=90 Score=19.21 Aligned_cols=23 Identities=13% Similarity=0.034 Sum_probs=15.9
Q ss_pred chhhHHHHHHHHhcCCCceEEEE
Q 034383 9 CNGCCRKLRRILLNMKEIEAHLI 31 (96)
Q Consensus 9 C~~C~~kI~k~L~~l~GV~~v~v 31 (96)
-+.....|.+.|.++.+|..|++
T Consensus 53 ~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 53 SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred CCchHHHHHHHHhcCcCeEEEEE
Confidence 36666777777777777776665
No 110
>cd06464 ACD_sHsps-like Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps.
Probab=29.94 E-value=49 Score=19.30 Aligned_cols=25 Identities=12% Similarity=0.234 Sum_probs=20.1
Q ss_pred cCCCc--eEEEEEcCCCEEEEEeeCCH
Q 034383 22 NMKEI--EAHLIEKQQCRVSVCGRFRP 46 (96)
Q Consensus 22 ~l~GV--~~v~vD~~~~~VtV~g~~dp 46 (96)
.++|+ +++++....+.+.|.|....
T Consensus 14 ~lpg~~~~~i~V~v~~~~l~I~g~~~~ 40 (88)
T cd06464 14 DLPGFKKEDIKVEVEDGVLTISGEREE 40 (88)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEEec
Confidence 57888 57888888999999987553
No 111
>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=29.74 E-value=1e+02 Score=18.00 Aligned_cols=27 Identities=11% Similarity=0.105 Sum_probs=20.8
Q ss_pred EEEEEcCCCEEEEEeeC-CHHHHHHHHH
Q 034383 28 AHLIEKQQCRVSVCGRF-RPSDVAIKIR 54 (96)
Q Consensus 28 ~v~vD~~~~~VtV~g~~-dp~~l~~~l~ 54 (96)
++.+|..++.+.|.|.- +...|.+.|+
T Consensus 47 ~i~~d~~tNsliv~g~~~~~~~i~~li~ 74 (82)
T PF03958_consen 47 RIVADERTNSLIVRGTPEDLEQIRELIK 74 (82)
T ss_dssp EEEEECTTTEEEEEEEHHHHHHHHHHHH
T ss_pred EEEEECCCCEEEEEeCHHHHHHHHHHHH
Confidence 89999999999999874 4455555554
No 112
>PRK08343 secD preprotein translocase subunit SecD; Reviewed
Probab=29.69 E-value=1e+02 Score=24.89 Aligned_cols=42 Identities=14% Similarity=0.076 Sum_probs=30.5
Q ss_pred HHHHHHHhcCCCceEEEEEc-CCCEEEEE--eeCCHHHHHHHHHHhcC
Q 034383 14 RKLRRILLNMKEIEAHLIEK-QQCRVSVC--GRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~-~~~~VtV~--g~~dp~~l~~~l~kk~G 58 (96)
..+++.+..+ |+....+-. .++++.|+ | .|++.+.+.|. ++|
T Consensus 70 ~vi~~Ri~~~-G~~e~~v~~~g~~~I~Ve~Pg-~d~~~~~~~i~-~~~ 114 (417)
T PRK08343 70 EILESRLNAL-GLKDIKVYPVGDQYIVVEVPG-VDADTAKEIIE-KQG 114 (417)
T ss_pred HHHHHHHhhc-CCCCCEEEEEcCceEEEEcCC-CCHHHHHHHhc-Cce
Confidence 4556666654 787766654 46688886 8 89999998888 666
No 113
>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=29.48 E-value=68 Score=20.32 Aligned_cols=22 Identities=18% Similarity=0.231 Sum_probs=18.8
Q ss_pred hhHHHHHHHH-hcCCCceEEEEE
Q 034383 11 GCCRKLRRIL-LNMKEIEAHLIE 32 (96)
Q Consensus 11 ~C~~kI~k~L-~~l~GV~~v~vD 32 (96)
+=...|..++ +.++||+++++.
T Consensus 62 ~~~d~lee~i~~~~e~Vqsvei~ 84 (89)
T PF00736_consen 62 GSTDDLEEAIESFEEGVQSVEIE 84 (89)
T ss_dssp CGHHHHHHHHTTCTTTEEEEEEE
T ss_pred cChHHHHHHHHhcCCCccEEEEE
Confidence 4568899999 999999999875
No 114
>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB7 is a 25-kDa protein, preferentially expressed in heart and skeletal muscle. It binds the cytoskeleton protein alpha-filamin (also known as actin-binding protein 280). The expression of HspB7 is increased during rat muscle aging. Its expression is also modulated in obesity implicating this protein in this and related metabolic disorders. As the human gene encoding HspB7 is mapped to chromosome 1p36.23-p34.3 it is a positional candidate for several dystrophies and myopathies.
Probab=29.32 E-value=57 Score=20.16 Aligned_cols=23 Identities=4% Similarity=0.216 Sum_probs=19.1
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~ 44 (96)
.++|+. +++|....+.++|.|.-
T Consensus 15 dlpG~~pedi~V~v~~~~L~I~ger 39 (81)
T cd06479 15 DVSDFSPEDIIVTTSNNQIEVHAEK 39 (81)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 468874 78999999999999864
No 115
>PRK04435 hypothetical protein; Provisional
Probab=29.25 E-value=1.2e+02 Score=20.70 Aligned_cols=20 Identities=20% Similarity=0.154 Sum_probs=12.1
Q ss_pred hHHHHHHHHhcCCCceEEEE
Q 034383 12 CCRKLRRILLNMKEIEAHLI 31 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~v 31 (96)
--..+...|.+++||.+|++
T Consensus 124 ~L~~Li~~L~~i~gV~~V~i 143 (147)
T PRK04435 124 DIDELLEKLRNLDGVEKVEL 143 (147)
T ss_pred HHHHHHHHHHcCCCcEEEEE
Confidence 34556666666666666654
No 116
>TIGR01678 FAD_lactone_ox sugar 1,4-lactone oxidases. This model represents a family of at least two different sugar 1,4 lactone oxidases, both involved in synthesizing ascorbic acid or a derivative. These include L-gulonolactone oxidase (EC 1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase (EC 1.1.3.37) from Saccharomyces cerevisiae. Members are proposed to have the cofactor FAD covalently bound at a site specified by Prosite motif PS00862; OX2_COVAL_FAD; 1.
Probab=29.24 E-value=1e+02 Score=24.78 Aligned_cols=31 Identities=10% Similarity=0.177 Sum_probs=27.3
Q ss_pred EEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 30 LIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 30 ~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
++|.+++.|+|.+.+.-..|.+.|. +.|+..
T Consensus 71 ~id~~~~~vtV~aG~~l~~L~~~L~-~~Gl~l 101 (438)
T TIGR01678 71 QFDKEKKQITVEAGIRLYQLHEQLD-EHGYSM 101 (438)
T ss_pred EEcCCCCEEEEcCCCCHHHHHHHHH-HcCCEe
Confidence 6788889999999999999999999 788754
No 117
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=29.20 E-value=39 Score=22.33 Aligned_cols=17 Identities=24% Similarity=0.624 Sum_probs=15.0
Q ss_pred eccchhhHHHHHHHHhc
Q 034383 6 NLDCNGCCRKLRRILLN 22 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~ 22 (96)
...|..|+.++++.|.+
T Consensus 18 ~~qC~~cA~Al~~~L~~ 34 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQ 34 (100)
T ss_pred ceehHHHHHHHHHHHHH
Confidence 46799999999999976
No 118
>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=28.99 E-value=81 Score=20.96 Aligned_cols=53 Identities=15% Similarity=0.214 Sum_probs=33.1
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEE--EeeCCHHHHHHHHHHhcCCcEEEe
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSV--CGRFRPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV--~g~~dp~~l~~~l~kk~Gk~a~i~ 64 (96)
...|..|+-..-... |+........-..+.| .|.+||.-|+.+|++ |-+-.++
T Consensus 4 ~F~C~~~ay~aad~a----g~~~~~~p~~vriIrvpC~Grv~~~~il~Af~~--GADGV~V 58 (124)
T PF02662_consen 4 AFCCNWCAYAAADLA----GVSRLQYPPNVRIIRVPCSGRVDPEFILRAFEK--GADGVLV 58 (124)
T ss_pred EEEeCCCcHHHHHHH----hhccCCCCCCeEEEEccCCCccCHHHHHHHHHc--CCCEEEE
Confidence 456788877655433 4434333333233444 488999999999984 6666666
No 119
>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. HspB4 does not belong to this group. HspB5 shows increased synthesis in response to stress. HspB5 is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. Its functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its oligomerization and anti-apoptotic activ
Probab=28.97 E-value=58 Score=20.06 Aligned_cols=23 Identities=9% Similarity=0.183 Sum_probs=19.0
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~ 44 (96)
.++|+. +++|+...+.++|.|.-
T Consensus 14 dlpG~~~edi~V~v~~~~L~I~g~~ 38 (84)
T cd06498 14 DVKHFSPEELKVKVLGDFIEIHGKH 38 (84)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 468874 78899999999999963
No 120
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=28.95 E-value=1.2e+02 Score=26.76 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=35.1
Q ss_pred hhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe----------eCCHHHHHHHHHH
Q 034383 11 GCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG----------RFRPSDVAIKIRK 55 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g----------~~dp~~l~~~l~k 55 (96)
.=+++|++.|++++|+.++..|...++-.+.= .++++.|...|+-
T Consensus 687 ~~a~~v~~~l~~~pgv~dv~~~~~~~~~el~i~~dreka~~~Gls~~~va~~l~~ 741 (1021)
T PF00873_consen 687 KAAEKVKAKLAEIPGVTDVRDDWEDGQPELRIDPDREKAARLGLSPADVARTLRT 741 (1021)
T ss_dssp HHHHHHHHHHHHSTTEEEEEESSSSBEEEEEEEE-HHHHHHTTB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCcccccccccccCcceEEEecHHHHHHcCCCHHHHHHHHHH
Confidence 34788999999999999999999888866642 3566778888873
No 121
>PRK10329 glutaredoxin-like protein; Provisional
Probab=28.85 E-value=98 Score=18.74 Aligned_cols=27 Identities=19% Similarity=0.415 Sum_probs=19.8
Q ss_pred ccchhhHHHHHHHHhcCCCceEEEEEcCC
Q 034383 7 LDCNGCCRKLRRILLNMKEIEAHLIEKQQ 35 (96)
Q Consensus 7 M~C~~C~~kI~k~L~~l~GV~~v~vD~~~ 35 (96)
=.|..|.+ +++.|.+. ||.--.+|..+
T Consensus 9 ~~Cp~C~~-ak~~L~~~-gI~~~~idi~~ 35 (81)
T PRK10329 9 NDCVQCHA-TKRAMESR-GFDFEMINVDR 35 (81)
T ss_pred CCCHhHHH-HHHHHHHC-CCceEEEECCC
Confidence 45999987 78888774 88766666653
No 122
>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=28.44 E-value=1.1e+02 Score=27.38 Aligned_cols=41 Identities=12% Similarity=0.041 Sum_probs=30.1
Q ss_pred HHHHHHhcCCCceEEEEEcCCC-EEEEE--------eeCCHHHHHHHHHH
Q 034383 15 KLRRILLNMKEIEAHLIEKQQC-RVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 15 kI~k~L~~l~GV~~v~vD~~~~-~VtV~--------g~~dp~~l~~~l~k 55 (96)
.++..|.+++||.+|++....+ .+.|. -.+++.+|.++|+.
T Consensus 170 ~l~~~L~~i~GV~~V~~~G~~~~ei~V~iD~~kl~~~glt~~dV~~~l~~ 219 (1051)
T TIGR00914 170 IIRPQLRTVPGVAEVNSIGGYVKQFLVAPDPEKLAAYGLSLADVVNALER 219 (1051)
T ss_pred HHHHHHhcCCCceEeeecCCceEEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 4788999999999999876543 35554 23566777888883
No 123
>PF05309 TraE: TraE protein; InterPro: IPR007973 This family consists of several bacterial sex pilus assembly and synthesis proteins (TraE). Conjugal transfer of plasmids from donor to recipient cells is a complex process in which a cell-to-cell contact plays a key role. Many genes encoded by self-transmissible plasmids are required for various processes of conjugation, including pilus formation, stabilisation of mating pairs, conjugative DNA metabolism, surface exclusion and regulation of transfer gene expression []. The exact function of the TraE protein is unknown.; GO: 0000746 conjugation
Probab=28.41 E-value=67 Score=22.56 Aligned_cols=19 Identities=16% Similarity=0.209 Sum_probs=16.3
Q ss_pred ceEEEEEcCCCEEEEEeeC
Q 034383 26 IEAHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 26 V~~v~vD~~~~~VtV~g~~ 44 (96)
+.++.+|..+++|.|.|.+
T Consensus 130 ~~~i~~d~~~~~V~V~G~l 148 (187)
T PF05309_consen 130 PKSIEVDPETLTVFVTGTL 148 (187)
T ss_pred EeEEEEecCCCEEEEEEEE
Confidence 4578999999999999974
No 124
>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=27.79 E-value=36 Score=24.13 Aligned_cols=28 Identities=14% Similarity=0.335 Sum_probs=24.7
Q ss_pred CCCceEEEEEcCCCEEEEEeeCCHHHHH
Q 034383 23 MKEIEAHLIEKQQCRVSVCGRFRPSDVA 50 (96)
Q Consensus 23 l~GV~~v~vD~~~~~VtV~g~~dp~~l~ 50 (96)
+.|=..+.++-+.+.+++.|-+.|+.|-
T Consensus 111 I~G~k~i~vn~e~~~i~lsGiVRp~DI~ 138 (179)
T PF02107_consen 111 IEGEKQIRVNGEEQYIRLSGIVRPEDID 138 (179)
T ss_pred EEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 5677889999999999999999998874
No 125
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=27.58 E-value=1.6e+02 Score=18.32 Aligned_cols=39 Identities=8% Similarity=0.196 Sum_probs=31.7
Q ss_pred ceEEEEEcCCCEEEEE----eeCCHHHHHHHHHHhcCCcEEEe
Q 034383 26 IEAHLIEKQQCRVSVC----GRFRPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 26 V~~v~vD~~~~~VtV~----g~~dp~~l~~~l~kk~Gk~a~i~ 64 (96)
+.+++..++.+++++- +.+|--.|++.|.+..+-++++.
T Consensus 44 lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~f~~RIem~ 86 (88)
T PF04468_consen 44 LVDVEYQFDGSKLTFYYTAESRVDFRELVRDLAREFKTRIEMR 86 (88)
T ss_pred EEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHHhCceEEEE
Confidence 5688888999999995 56899999999998777666654
No 126
>PF12685 SpoIIIAH: SpoIIIAH-like protein; InterPro: IPR024232 Stage III sporulation protein AH (SpoIIIAH) is a protein that is involved in forespore engulfment. It forms a channel with SpoIIIAH that is open on the forespore end and closed (or gated) on the mother cell end. This allows sigma-E-directed gene expression in the mother-cell compartment of the sporangium to trigger the activation of sigma-G forespore-specific gene expression by a pathway of intercellular signaling. This family of proteins is found in bacteria, archaea and eukaryotes and so must have a wider function than in sporulation. Proteins in this family are typically between 174 and 223 amino acids in length.; PDB: 3UZ0_A 3TUF_A.
Probab=27.57 E-value=1.4e+02 Score=21.27 Aligned_cols=49 Identities=12% Similarity=0.154 Sum_probs=31.3
Q ss_pred HHHHHHHhcCCCceEEEEEcCCCEEEEEe---eC---CHHHHHHHHHHhcCCcEEE
Q 034383 14 RKLRRILLNMKEIEAHLIEKQQCRVSVCG---RF---RPSDVAIKIRKKMNRRVEI 63 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~~~~~VtV~g---~~---dp~~l~~~l~kk~Gk~a~i 63 (96)
..|+..|.. .|-.++-+.++.+++.|.- .+ +...|...+.+.+|..++-
T Consensus 138 ~~iE~llka-kGf~davv~~~~~~v~VvV~~~~L~~~~~~~I~diV~~~~~v~~~~ 192 (196)
T PF12685_consen 138 MEIENLLKA-KGFEDAVVFIEDDSVDVVVKADKLSDAEAAQIIDIVMRETGVPAEN 192 (196)
T ss_dssp HHHHHHHHT-TS-SEEEEE-SSSEEEEEEE-S---HHHHHHHHHHHHHHHC-STSE
T ss_pred HHHHHHHHh-CCCCceEEEeeCCEEEEEEeCCCCCHHHHHHHHHHHHHHhCCCcCe
Confidence 345555544 6999999999999988862 23 4566788888888865443
No 127
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=27.10 E-value=75 Score=26.57 Aligned_cols=32 Identities=13% Similarity=0.131 Sum_probs=28.2
Q ss_pred EEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 29 HLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 29 v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
+++|.+..+|||...+.-.+|.+.+. +.|+..
T Consensus 105 v~~dpe~~tvTV~aGirlrQLie~~~-~~GlsL 136 (518)
T KOG4730|consen 105 VEFDPELKTVTVQAGIRLRQLIEELA-KLGLSL 136 (518)
T ss_pred eeeCchhceEEeccCcCHHHHHHHHH-hcCccc
Confidence 46688999999999999999999999 888754
No 128
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=26.98 E-value=96 Score=27.62 Aligned_cols=45 Identities=11% Similarity=0.105 Sum_probs=34.1
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCCC--EEEEE--------eeCCHHHHHHHHHHh
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQC--RVSVC--------GRFRPSDVAIKIRKK 56 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~~--~VtV~--------g~~dp~~l~~~l~kk 56 (96)
=+++|++.|.+++|+.++..|...+ ++.|. -.+++..+.+.|+-.
T Consensus 676 ~a~~i~~~L~~~pgv~~v~~~~~~~~~el~i~id~~ka~~~Gls~~~v~~~l~~~ 730 (1025)
T PRK10614 676 WEPKIRKALAALPELADVNSDQQDKGAEMALTYDRDTMARLGIDVQAANSLLNNA 730 (1025)
T ss_pred HHHHHHHHHhcCCCeEEeecCCCCCCceEEEEECHHHHHHcCCCHHHHHHHHHHH
Confidence 3678999999999999999887654 55554 236777888888844
No 129
>cd06472 ACD_ScHsp26_like Alpha crystallin domain (ACD) found in Saccharomyces cerevisiae (Sc) small heat shock protein (Hsp)26 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. ScHsp26 is temperature-regulated, it switches from an inactive to a chaperone-active form upon elevation in temperature. It associates into large 24-mers storage forms which upon heat shock disassociate into dimers. These dimers initiate the interaction with non-native substrate proteins and re-assemble into large globular assemblies having one monomer of substrate bound per dimer. This group also contains Arabidopsis thaliana (Ath) Hsp15.7, a peroxisomal matrix protein which can complement the morphological phenotype of S. cerevisiae mutants deficient in Hsps26. AthHsp15.7 is minimally expressed under normal conditions and is strongly induced by heat and oxidative st
Probab=26.77 E-value=80 Score=19.34 Aligned_cols=24 Identities=8% Similarity=0.241 Sum_probs=18.4
Q ss_pred cCCCce--EEEEEcCCC-EEEEEeeCC
Q 034383 22 NMKEIE--AHLIEKQQC-RVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~-~VtV~g~~d 45 (96)
.|+|+. ++++++..+ .++|.|...
T Consensus 16 ~lPGv~~edi~i~v~~~~~L~I~g~~~ 42 (92)
T cd06472 16 DVPGVKKEDVKVEVEDGRVLRISGERK 42 (92)
T ss_pred ECCCCChHhEEEEEeCCCEEEEEEEec
Confidence 578985 688888764 899999754
No 130
>PF08210 APOBEC_N: APOBEC-like N-terminal domain; InterPro: IPR013158 This domain is found at the N terminus of the Apolipoprotein B mRNA editing enzyme. Apobec-1 catalyzes C to U editing of apolipoprotein B (apoB) mRNA in the mammalian intestine. The N-terminal domain of APOBEC-1 like proteins is the catalytic domain, while the C-terminal domain is a pseudocatalyitc domain. More specifically, the catalytic domain is a zinc dependent deaminases domain and is essential for cytidine deamination. APOBEC-3 like members contain two copies of this domain. This family also includes the functionally homologous activation induced deaminase, which is essential for the development of antibody diversity in B lymphocytes. RNA editing by APOBEC-1 requires homodimerisation and this complex interacts with RNA binding proteins to from the editosome [] (and references therein).; GO: 0008270 zinc ion binding, 0016814 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; PDB: 3IQS_A 3IR2_A 3V4J_B 2KEM_A 2KBO_A 3V4K_A 3E1U_A 2JYW_A 2RPZ_A.
Probab=26.58 E-value=62 Score=23.12 Aligned_cols=63 Identities=14% Similarity=0.225 Sum_probs=35.3
Q ss_pred EEEEecc-chh----hHHHHHHHHhcC--CCceEEEEEcCCCEEEEEeeCC---HHHHHHHHHHhcCCcEEEeeccC
Q 034383 2 VMRINLD-CNG----CCRKLRRILLNM--KEIEAHLIEKQQCRVSVCGRFR---PSDVAIKIRKKMNRRVEILEIQE 68 (96)
Q Consensus 2 vlkV~M~-C~~----C~~kI~k~L~~l--~GV~~v~vD~~~~~VtV~g~~d---p~~l~~~l~kk~Gk~a~i~~~~~ 68 (96)
++-+..+ |.. |+.+|-..|.+. ++|. +.|-.. ++=-...-. -..=+..|. .+|-.+++.+..+
T Consensus 77 Twy~SwSPC~~~~~~Ca~~i~~FL~~~~~~~v~-L~I~~a--rLY~~~~~~~~~~~eGLr~L~-~aGv~v~iM~~~d 149 (188)
T PF08210_consen 77 TWYLSWSPCPESDHCCAEKIAEFLKKHLKPNVS-LSIFAA--RLYYHWEPEPLWNQEGLRRLA-SAGVQVEIMSYKD 149 (188)
T ss_dssp EEEESSS--CC----HHHHHHHHHCCC--TTEE-EEEEES--S--STTSTT---HHHHHHHHH-HCTEEEEE-SHHH
T ss_pred EEEEecCCCcchhhHHHHHHHHHHHHhCCCCCe-EEEEEE--eeeeecCCcchhHHHHHHHHH-HcCCEEEEcCHHH
Confidence 3445555 999 999999999998 7762 222111 111111122 234455566 6798999887654
No 131
>cd06526 metazoan_ACD Alpha-crystallin domain (ACD) of metazoan alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps.
Probab=26.38 E-value=61 Score=19.52 Aligned_cols=24 Identities=13% Similarity=0.277 Sum_probs=19.0
Q ss_pred cCCCce--EEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEIE--AHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV~--~v~vD~~~~~VtV~g~~d 45 (96)
.++|+. ++.+.+..+.++|.|...
T Consensus 14 dlpG~~~edI~v~v~~~~L~I~g~~~ 39 (83)
T cd06526 14 DVKGFKPEELKVKVSDNKLVVEGKHE 39 (83)
T ss_pred ECCCCCHHHcEEEEECCEEEEEEEEe
Confidence 467874 688888899999999744
No 132
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=25.90 E-value=1.2e+02 Score=19.93 Aligned_cols=24 Identities=33% Similarity=0.540 Sum_probs=20.7
Q ss_pred EEEcCCCEEEEEeeCCHHHHHHHHH
Q 034383 30 LIEKQQCRVSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 30 ~vD~~~~~VtV~g~~dp~~l~~~l~ 54 (96)
.+|-. +++++.|.+++..|.+.|+
T Consensus 51 ~id~~-~rlii~G~~~~~~i~~~l~ 74 (110)
T smart00653 51 SIDGK-GRLIVNGRFTPKKLQDLLR 74 (110)
T ss_pred eECCC-CeEEEEEeeCHHHHHHHHH
Confidence 45544 9999999999999999998
No 133
>PF03434 DUF276: DUF276 ; InterPro: IPR005096 This family is specific to Borrelia burgdorferi (Lyme disease spirochete). The protein is encoded on extrachromosomal DNA and is of unknown function.
Probab=25.80 E-value=1.1e+02 Score=23.63 Aligned_cols=29 Identities=17% Similarity=0.339 Sum_probs=25.6
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEE
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVC 41 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~ 41 (96)
-.+|+.+|..++||+.+.+--..|++-+-
T Consensus 89 y~Avk~aLL~~~gv~haNI~SsaGtiniY 117 (291)
T PF03434_consen 89 YEAVKSALLNLNGVEHANIKSSAGTINIY 117 (291)
T ss_pred HHHHHHHhcCCCCceeeeeecCCCeeEEE
Confidence 46899999999999999999999987664
No 134
>TIGR03527 selenium_YedF selenium metabolism protein YedF. Members of this protein family are about 200 amino acids in size, and include the uncharacterized YedF protein of Escherichia coli. This family shares an N-terminal domain, modeled by pfam01206, with the sulfurtransferase TusA (also called SirA). The C-terminal domain includes a typical redox-active disulfide motif, CGXC. This protein family found only among those genomes that also carry the selenium donor protein SelD, and its connection to selenium metabolism is indicated by the method of partial phylogenetic profiling vs. SelD. Its gene typically is found next to selD. Members of this family are found even when selenocysteine and selenouridine biosynthesis pathways are, except for SelD, completely absent, as in Enterococcus faecalis. Its role in selenium metabolism is unclear, but may include either detoxification or a role in labile selenoprotein biosynthesis.
Probab=25.75 E-value=2.6e+02 Score=20.09 Aligned_cols=51 Identities=18% Similarity=0.157 Sum_probs=35.8
Q ss_pred eccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe--eCCHHHHHHHHHHhcCCcEEEeec
Q 034383 6 NLDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG--RFRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g--~~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
++.|+.=.-+.+++|.+++. .+.++|.. ......|.+.++ ..|+.+.....
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~-~~G~~v~~~e~ 57 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFAT-SLGYEVEVEEK 57 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHH-HcCCEEEEEEe
Confidence 67899999999999998863 12333333 345567888877 99998865543
No 135
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=25.74 E-value=1.3e+02 Score=18.87 Aligned_cols=38 Identities=16% Similarity=0.166 Sum_probs=25.4
Q ss_pred EEEcCCCEEEEEeeCC-HHHHHHHHHHhcCCcEEEeeccC
Q 034383 30 LIEKQQCRVSVCGRFR-PSDVAIKIRKKMNRRVEILEIQE 68 (96)
Q Consensus 30 ~vD~~~~~VtV~g~~d-p~~l~~~l~kk~Gk~a~i~~~~~ 68 (96)
-+|++..+|.|.|.=+ ...-++.|. +.|-++.++++..
T Consensus 2 ~l~l~~~~vlVvGgG~va~~k~~~Ll-~~gA~v~vis~~~ 40 (103)
T PF13241_consen 2 FLDLKGKRVLVVGGGPVAARKARLLL-EAGAKVTVISPEI 40 (103)
T ss_dssp EE--TT-EEEEEEESHHHHHHHHHHC-CCTBEEEEEESSE
T ss_pred EEEcCCCEEEEECCCHHHHHHHHHHH-hCCCEEEEECCch
Confidence 5788999999998743 333455556 7888999998873
No 136
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning]
Probab=25.70 E-value=61 Score=25.54 Aligned_cols=39 Identities=15% Similarity=0.167 Sum_probs=29.6
Q ss_pred hhHHHHHHHHhcCCCceEEEEEcCCCEEEEEe---eCCHHHHHH
Q 034383 11 GCCRKLRRILLNMKEIEAHLIEKQQCRVSVCG---RFRPSDVAI 51 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g---~~dp~~l~~ 51 (96)
.|-..|.++|... +| +..+||..+.++|.+ +.||.-|+.
T Consensus 73 e~wp~v~raL~e~-~i-~c~lDL~egsm~V~TtRkT~DPyIiik 114 (356)
T KOG2874|consen 73 ECWPLVERALDEH-HI-KCVLDLVEGSMTVKTTRKTRDPYIIIK 114 (356)
T ss_pred HHHHHHHHHHHhc-Cc-ceEEeeccceeEEeecccccCceeeee
Confidence 4777899999875 44 679999999999975 477765433
No 137
>TIGR02761 TraE_TIGR type IV conjugative transfer system protein TraE. TraE is a component of type IV secretion systems involved in conjugative transfer of plasmid DNA. The function of the TraE protein is unknown.
Probab=25.52 E-value=73 Score=22.47 Aligned_cols=19 Identities=21% Similarity=0.169 Sum_probs=16.1
Q ss_pred ceEEEEEcCCCEEEEEeeC
Q 034383 26 IEAHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 26 V~~v~vD~~~~~VtV~g~~ 44 (96)
+.++++|.++++|.|.|.+
T Consensus 130 ~~~i~v~~~~~~V~V~G~l 148 (181)
T TIGR02761 130 PKSVEWNPQEGTVKVRGHL 148 (181)
T ss_pred eeeEEEccCCCEEEEEEEE
Confidence 4578999999999999963
No 138
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=25.48 E-value=71 Score=17.79 Aligned_cols=27 Identities=19% Similarity=0.330 Sum_probs=14.5
Q ss_pred eccchhhHHHHHHHHhcC----CCceEEEEEc
Q 034383 6 NLDCNGCCRKLRRILLNM----KEIEAHLIEK 33 (96)
Q Consensus 6 ~M~C~~C~~kI~k~L~~l----~GV~~v~vD~ 33 (96)
.-.|..|. .++..|..+ +++.-..+|.
T Consensus 8 ~~~C~~C~-~~~~~l~~l~~~~~~i~~~~id~ 38 (67)
T cd02973 8 SPTCPYCP-DAVQAANRIAALNPNISAEMIDA 38 (67)
T ss_pred CCCCCCcH-HHHHHHHHHHHhCCceEEEEEEc
Confidence 34699994 445555544 3454444443
No 139
>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=25.47 E-value=76 Score=18.42 Aligned_cols=17 Identities=6% Similarity=-0.070 Sum_probs=14.2
Q ss_pred HHHHhcCCCceEEEEEc
Q 034383 17 RRILLNMKEIEAHLIEK 33 (96)
Q Consensus 17 ~k~L~~l~GV~~v~vD~ 33 (96)
-+.|.+.+||.+|+-|.
T Consensus 61 i~~L~~~p~V~~Ve~D~ 77 (82)
T PF05922_consen 61 IEKLRKDPGVKSVEPDQ 77 (82)
T ss_dssp HHHHHTSTTEEEEEEEC
T ss_pred HHHHHcCCCeEEEEeCc
Confidence 36789999999998874
No 140
>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]
Probab=25.04 E-value=2.9e+02 Score=20.88 Aligned_cols=42 Identities=19% Similarity=0.195 Sum_probs=31.6
Q ss_pred HHHhcCCCceEEEEEcCCCEEEEE----------e--eCCHHHHHHHHHHhcCCc
Q 034383 18 RILLNMKEIEAHLIEKQQCRVSVC----------G--RFRPSDVAIKIRKKMNRR 60 (96)
Q Consensus 18 k~L~~l~GV~~v~vD~~~~~VtV~----------g--~~dp~~l~~~l~kk~Gk~ 60 (96)
+.|++ .|+..|++....+++.|+ | ..+-..|.+.|++.+|+.
T Consensus 34 k~l~~-Ag~s~veIeR~~~~~~V~I~aarPg~VIGk~G~~I~~L~~~l~k~~g~~ 87 (233)
T COG0092 34 KELSN-AGISGVEIERTPKGTRVTIHAARPGLVIGKKGSNIEKLRKELEKLFGKE 87 (233)
T ss_pred HHHHh-CCcceEEEEecCCceEEEEEeCCCcceEcCCCccHHHHHHHHHHHhCCC
Confidence 34433 589999998887676653 2 468899999999999984
No 141
>PRK11282 glcE glycolate oxidase FAD binding subunit; Provisional
Probab=25.04 E-value=1.2e+02 Score=23.79 Aligned_cols=36 Identities=3% Similarity=0.033 Sum_probs=29.2
Q ss_pred hcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCC
Q 034383 21 LNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNR 59 (96)
Q Consensus 21 ~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk 59 (96)
++|.+|. ++|.++..|||...+.-.+|.++|. +.|.
T Consensus 44 ~~ln~Il--e~d~~~~~vtV~AG~~l~el~~~L~-~~G~ 79 (352)
T PRK11282 44 RAHRGIV--SYDPTELVITARAGTPLAELEAALA-EAGQ 79 (352)
T ss_pred ccCCCcE--EEcCCCCEEEECCCCCHHHHHHHHH-HcCC
Confidence 3444443 6788899999999999999999999 7775
No 142
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=25.00 E-value=61 Score=23.43 Aligned_cols=41 Identities=7% Similarity=0.003 Sum_probs=27.4
Q ss_pred CCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeec
Q 034383 23 MKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 23 l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
..|..++.+|.=....- ..++|+.|..+|+ ..|++|++-..
T Consensus 67 ~~g~~~y~l~~i~r~a~--~~vp~d~L~~~L~-~~G~~ae~~~~ 107 (190)
T PF09840_consen 67 KRGLYRYSLDDIFREAG--YPVPPDLLVDALK-LLGYKAEYRED 107 (190)
T ss_pred cCCceEEcHHHHHHHcC--CCCCHHHHHHHHH-hCCCeeEEeCC
Confidence 34555555544221111 4689999999999 89999988754
No 143
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=24.62 E-value=79 Score=24.06 Aligned_cols=22 Identities=18% Similarity=0.151 Sum_probs=17.2
Q ss_pred HHHHHHHHhcCCCce--EEEEEcC
Q 034383 13 CRKLRRILLNMKEIE--AHLIEKQ 34 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~--~v~vD~~ 34 (96)
+..+.+.|++|+||- +|++.+.
T Consensus 111 eQ~le~tLs~mDGVi~ArV~I~lp 134 (246)
T COG4669 111 EQQLEQTLSKMDGVISARVHISLP 134 (246)
T ss_pred HHHHHHHHHhcCceEEEEEEEEcC
Confidence 578899999999986 4566654
No 144
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=24.54 E-value=1.2e+02 Score=27.07 Aligned_cols=44 Identities=16% Similarity=0.033 Sum_probs=32.5
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCCC--EEEEE--------eeCCHHHHHHHHHH
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQC--RVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~~--~VtV~--------g~~dp~~l~~~l~k 55 (96)
-+++++..|.+++|+.++..+...+ .+.|. -.+++..+.+.|+.
T Consensus 690 ~a~~l~~~l~~~pgv~~v~~~~~~~~~e~~v~id~~k~~~~Gls~~~v~~~l~~ 743 (1040)
T PRK10503 690 WVPKLMEKLQQLPQLSDVSSDWQDKGLVAYVNVDRDSASRLGISMADVDNALYN 743 (1040)
T ss_pred HHHHHHHHHhcCCCeEEEEccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 3567999999999999998766554 45554 13677888888884
No 145
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=24.44 E-value=2.1e+02 Score=19.93 Aligned_cols=36 Identities=11% Similarity=0.070 Sum_probs=23.9
Q ss_pred HHHHHhcCCCceEEEEEcCCCEEEEE-eeCCHHHHHHH
Q 034383 16 LRRILLNMKEIEAHLIEKQQCRVSVC-GRFRPSDVAIK 52 (96)
Q Consensus 16 I~k~L~~l~GV~~v~vD~~~~~VtV~-g~~dp~~l~~~ 52 (96)
.-+.|...-|+ ++++|.+++.|.|. .+.||+.+.++
T Consensus 19 ~Ik~I~~~tgv-~I~Id~~~g~V~I~~~t~d~~~i~kA 55 (172)
T TIGR03665 19 TKKEIEERTGV-KLDIDSETGEVKIEEEDEDPLAVMKA 55 (172)
T ss_pred HHHHHHHHhCc-EEEEEcCCceEEEecCCCCHHHHHHH
Confidence 34445555576 48888888999994 34667666555
No 146
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=24.36 E-value=2.5e+02 Score=24.35 Aligned_cols=42 Identities=12% Similarity=0.118 Sum_probs=32.4
Q ss_pred CCceE--EEEEcCCCEEEEEe--eCCHHHHHHHHHHhcCCcEEEeec
Q 034383 24 KEIEA--HLIEKQQCRVSVCG--RFRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 24 ~GV~~--v~vD~~~~~VtV~g--~~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
||+.. .-+|++..-+-+.+ .++++.+++.|. +.|++|.+.+.
T Consensus 251 PGiTtgiAvldldGevl~~~S~r~~~~~eVve~I~-~lG~PvvVAtD 296 (652)
T COG2433 251 PGITTGIAVLDLDGEVLDLESRRGIDRSEVVEFIS-ELGKPVVVATD 296 (652)
T ss_pred CCceeeEEEEecCCcEEeeeccccCCHHHHHHHHH-HcCCceEEEcc
Confidence 45543 35777777777776 489999999999 99999888753
No 147
>cd00298 ACD_sHsps_p23-like This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is this ACD. sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps. p23 is a cochaperone of the Hsp90 chaperoning pathway. It binds Hsp90 and participates in the folding of a number of Hsp90 clients including the progesterone receptor. p23 also has a passive chaperoning activity. p23 in addition may act as the cytosolic prostaglandin E2 synthase. Included in this family is the p23-like C-terminal CHORD-SGT1 (CS) domain of suppressor of G2 allele of Skp1 (Sgt1) and the p23-like domains of human butyrate-induced transcript 1 (hB-ind
Probab=24.10 E-value=74 Score=17.45 Aligned_cols=23 Identities=13% Similarity=0.322 Sum_probs=17.6
Q ss_pred cCCCc--eEEEEEcCCCEEEEEeeC
Q 034383 22 NMKEI--EAHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 22 ~l~GV--~~v~vD~~~~~VtV~g~~ 44 (96)
.++|+ +++.++...+.++|.|..
T Consensus 13 ~~~~~~~~~i~v~~~~~~l~v~~~~ 37 (80)
T cd00298 13 DLPGVKKEDIKVEVEDNVLTISGKR 37 (80)
T ss_pred ECCCCCHHHeEEEEECCEEEEEEEE
Confidence 35666 678888888999998764
No 148
>PF01849 NAC: NAC domain; InterPro: IPR002715 Nascent polypeptide-associated complex (NAC) is among the first ribosome-associated entities to bind the nascent polypeptide after peptide bond formation. The nascent polypeptide-associated complex (NAC) of yeast functions in the targeting process of ribosomes to the ER membrane []. NAC may prevent binding of ribosome nascent chains (RNCs) without a signal sequence to yeast membranes.; PDB: 3MCE_D 3MCB_A 3LKX_B 1TR8_B.
Probab=23.78 E-value=95 Score=17.76 Aligned_cols=28 Identities=32% Similarity=0.419 Sum_probs=17.3
Q ss_pred HHHHHHHhc-----CCCceEEEEEcCCCEEEEE
Q 034383 14 RKLRRILLN-----MKEIEAHLIEKQQCRVSVC 41 (96)
Q Consensus 14 ~kI~k~L~~-----l~GV~~v~vD~~~~~VtV~ 41 (96)
+++++.|.+ ++||..|.+-..++++.+-
T Consensus 2 kk~~~~l~klgl~~i~~i~eV~i~~~dg~~~~~ 34 (58)
T PF01849_consen 2 KKLQKMLKKLGLKEIPGIEEVTIRKDDGTVFVF 34 (58)
T ss_dssp ------GHHCT-EEETTEEEEEEEETTTEEEEE
T ss_pred HHHHHHHHHcCCcccCCcEEEEEEECCceEEEE
Confidence 345555554 5789999999999887765
No 149
>PRK10568 periplasmic protein; Provisional
Probab=23.75 E-value=2.8e+02 Score=19.82 Aligned_cols=37 Identities=14% Similarity=0.191 Sum_probs=27.2
Q ss_pred HHHHHHHHhcCCCc--eEEEEEcCCCEEEEEeeCC-HHHH
Q 034383 13 CRKLRRILLNMKEI--EAHLIEKQQCRVSVCGRFR-PSDV 49 (96)
Q Consensus 13 ~~kI~k~L~~l~GV--~~v~vD~~~~~VtV~g~~d-p~~l 49 (96)
..+|+..|..-+.+ .++.++..++.|++.|.++ +...
T Consensus 141 t~~vk~~L~~~~~v~~~~I~V~v~~G~V~L~G~V~s~~e~ 180 (203)
T PRK10568 141 TSEIKAKLLADDIVPSRKVKVETTDGVVQLSGTVDSQAQS 180 (203)
T ss_pred HHHHHHHHhhCCCCCcceeEEEEeCcEEEEEEEECCHHHH
Confidence 56677777655555 4688888999999999984 4443
No 150
>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=23.67 E-value=1e+02 Score=16.70 Aligned_cols=17 Identities=6% Similarity=0.159 Sum_probs=13.2
Q ss_pred HHHHHHHhcCCCceEEE
Q 034383 14 RKLRRILLNMKEIEAHL 30 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~ 30 (96)
..+.+.|.+++||.++.
T Consensus 53 ~~~i~~l~~~~~v~~v~ 69 (71)
T cd04903 53 EEVIEEIKKIPNIHQVI 69 (71)
T ss_pred HHHHHHHHcCCCceEEE
Confidence 46777788888988875
No 151
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=23.65 E-value=1.9e+02 Score=20.63 Aligned_cols=39 Identities=18% Similarity=0.235 Sum_probs=29.4
Q ss_pred EEEEcCCCEEEEEeeCCH-HHHHHHHHHhcCCcEEEeeccC
Q 034383 29 HLIEKQQCRVSVCGRFRP-SDVAIKIRKKMNRRVEILEIQE 68 (96)
Q Consensus 29 v~vD~~~~~VtV~g~~dp-~~l~~~l~kk~Gk~a~i~~~~~ 68 (96)
+-+|+...++.|.|.=+. ...++.|. +.|.++.+++++.
T Consensus 4 l~l~l~~k~vLVIGgG~va~~ka~~Ll-~~ga~V~VIs~~~ 43 (202)
T PRK06718 4 LMIDLSNKRVVIVGGGKVAGRRAITLL-KYGAHIVVISPEL 43 (202)
T ss_pred eEEEcCCCEEEEECCCHHHHHHHHHHH-HCCCeEEEEcCCC
Confidence 457899999999986543 44566777 7888999998643
No 152
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=23.11 E-value=2.8e+02 Score=20.15 Aligned_cols=34 Identities=15% Similarity=0.128 Sum_probs=24.8
Q ss_pred cCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeec
Q 034383 33 KQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 33 ~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~ 66 (96)
.=.+.|||.|=+.-..|+++|+.+...+..+++.
T Consensus 136 fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~ 169 (204)
T PF04459_consen 136 FFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPD 169 (204)
T ss_pred CCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECH
Confidence 3456799999999999999998422225666654
No 153
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=22.93 E-value=1e+02 Score=22.16 Aligned_cols=21 Identities=10% Similarity=0.186 Sum_probs=16.0
Q ss_pred HHHHHHHHhcCCCceEEEEEc
Q 034383 13 CRKLRRILLNMKEIEAHLIEK 33 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~ 33 (96)
++.+.+.|+.++||.+..|.+
T Consensus 109 e~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 109 EQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHhcCCeeeeEEEE
Confidence 456788999999999665544
No 154
>PF13193 AMP-binding_C: AMP-binding enzyme C-terminal domain; PDB: 3L8C_B 2VSQ_A 3R44_A 3RG2_B 3A9U_A 3A9V_A 3NI2_A 1V26_B 1ULT_B 1V25_B ....
Probab=22.49 E-value=1e+02 Score=17.75 Aligned_cols=41 Identities=10% Similarity=0.152 Sum_probs=25.3
Q ss_pred HHHHHhcCCCceEEEE-Ec---CCCE-EE--EEeeCCHHHHHHHHHHhcC
Q 034383 16 LRRILLNMKEIEAHLI-EK---QQCR-VS--VCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 16 I~k~L~~l~GV~~v~v-D~---~~~~-Vt--V~g~~dp~~l~~~l~kk~G 58 (96)
|+.+|.+++||.++-+ .. ..+. +. |.. +...|.+.++++..
T Consensus 2 IE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~--~~~~i~~~~~~~l~ 49 (73)
T PF13193_consen 2 IESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVL--DEEEIRDHLRDKLP 49 (73)
T ss_dssp HHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEE--HHHHHHHHHHHHS-
T ss_pred HHHHHhcCCCccEEEEEEEEcccccccceeEEEe--eecccccchhhhCC
Confidence 7889999999987643 22 2222 21 123 66788888886554
No 155
>PRK13726 conjugal transfer pilus assembly protein TraE; Provisional
Probab=22.39 E-value=92 Score=22.42 Aligned_cols=19 Identities=21% Similarity=0.146 Sum_probs=16.1
Q ss_pred ceEEEEEcCCCEEEEEeeC
Q 034383 26 IEAHLIEKQQCRVSVCGRF 44 (96)
Q Consensus 26 V~~v~vD~~~~~VtV~g~~ 44 (96)
+.++.+|+++++|.|.|.+
T Consensus 130 ~~~i~v~~~~~~V~V~Gtl 148 (188)
T PRK13726 130 QTSVRVWPQYGRVDIRGVL 148 (188)
T ss_pred eeeEEEccCCCEEEEEEEE
Confidence 4578999999999999864
No 156
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic 40-residue C-terminal domain that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=22.32 E-value=1.7e+02 Score=20.53 Aligned_cols=31 Identities=6% Similarity=-0.006 Sum_probs=25.2
Q ss_pred hhHHHHHHHHhcCCCceEEEEEcCCCEEEEE
Q 034383 11 GCCRKLRRILLNMKEIEAHLIEKQQCRVSVC 41 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~ 41 (96)
.=+.+|.+.+.+++||.++.+=.....+.|-
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vg 84 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVG 84 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEE
Confidence 3477899999999999999887777777664
No 157
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=22.24 E-value=1.2e+02 Score=23.71 Aligned_cols=57 Identities=12% Similarity=0.199 Sum_probs=34.9
Q ss_pred HHHHHHHHhcCCCce--EEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEeeccCC
Q 034383 13 CRKLRRILLNMKEIE--AHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQEH 69 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~--~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~~~ 69 (96)
..+|.+++...+||. ++.-|.+-++..++=--+|+.|.+++-.-.++-++++.-..+
T Consensus 20 ie~I~~a~~~~~gv~lld~~~D~d~NRsv~Tlvg~pe~v~eaa~~~~~~A~elIDm~~H 78 (298)
T TIGR02024 20 IEKIVDAIIKTDNVKLLDVDMDPDHNRSVITFVGEPECVVNAALKLAKKAAELIDMRNH 78 (298)
T ss_pred HHHHHHHHhcCCCcEEEeCCCCCCCCceEEEEecChHHHHHHHHHHHHHHHHhcCcccc
Confidence 467888888999986 445555667755543334777766665444444455544333
No 158
>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=22.06 E-value=2.1e+02 Score=20.48 Aligned_cols=40 Identities=13% Similarity=0.027 Sum_probs=28.9
Q ss_pred EEEEcCCCEEEEEee-CCHHHHHHHHHHhcCCcEEEeeccCC
Q 034383 29 HLIEKQQCRVSVCGR-FRPSDVAIKIRKKMNRRVEILEIQEH 69 (96)
Q Consensus 29 v~vD~~~~~VtV~g~-~dp~~l~~~l~kk~Gk~a~i~~~~~~ 69 (96)
+-+|+...+|.|.|. --...-++.|. +.|-++.+++++..
T Consensus 3 ~~l~l~gk~vlVvGgG~va~rk~~~Ll-~~ga~VtVvsp~~~ 43 (205)
T TIGR01470 3 VFANLEGRAVLVVGGGDVALRKARLLL-KAGAQLRVIAEELE 43 (205)
T ss_pred eEEEcCCCeEEEECcCHHHHHHHHHHH-HCCCEEEEEcCCCC
Confidence 457888899999875 33444566777 78889999987543
No 159
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=21.95 E-value=2.8e+02 Score=19.10 Aligned_cols=50 Identities=6% Similarity=0.145 Sum_probs=31.7
Q ss_pred EEEEe-ccchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcEEEee
Q 034383 2 VMRIN-LDCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRVEILE 65 (96)
Q Consensus 2 vlkV~-M~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~ 65 (96)
+|-+. ..|..|+..|..+ ||..|-+-. ..-++..-.+.|+ +.|..++-++
T Consensus 89 tlYvT~ePC~~Ca~ai~~a-----gI~~Vvy~~--------~~~~~~~~~~~l~-~~gi~v~~~~ 139 (151)
T TIGR02571 89 EIYVTHFPCLQCTKSIIQA-----GIKKIYYAQ--------DYHNHPYAIELFE-QAGVELKKVP 139 (151)
T ss_pred EEEEeCCCcHHHHHHHHHh-----CCCEEEEcc--------CCCCcHHHHHHHH-HCCCEEEEeC
Confidence 34454 3499999998864 787775521 1122234456777 9998888775
No 160
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=21.77 E-value=2.4e+02 Score=23.75 Aligned_cols=53 Identities=15% Similarity=0.159 Sum_probs=37.8
Q ss_pred HHHHHHHhcCC--Cc-eEEEEEcCCCEEEEE--eeCCHHHHHHHHHHhcCCcEEEeecc
Q 034383 14 RKLRRILLNMK--EI-EAHLIEKQQCRVSVC--GRFRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 14 ~kI~k~L~~l~--GV-~~v~vD~~~~~VtV~--g~~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
+++..+|.++- .+ -.++-+.+.+...|. |.+--+-+++.|+++ |+.+.+-.|+
T Consensus 325 ~~l~~~L~k~~~~d~sl~v~~~~~~~~~~v~g~GelHL~il~e~lrre-g~e~~~~~P~ 382 (594)
T TIGR01394 325 RHIRDRLMRELETNVALRVEDTESADKFEVSGRGELHLSILIETMRRE-GFELQVGRPQ 382 (594)
T ss_pred HHHHHHHHHhhccCCeEEEEEecCCCeEEEEEECHHHHHHHHHHHhcc-CceEEEeCCE
Confidence 34888887752 22 245556677777776 467788999999977 9998877664
No 161
>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=21.72 E-value=2.9e+02 Score=24.24 Aligned_cols=43 Identities=12% Similarity=0.136 Sum_probs=30.1
Q ss_pred HHHHHHHhcCCCceEEEEEc-CCCEEEEE--eeCCHHHHHHHHHHhcC
Q 034383 14 RKLRRILLNMKEIEAHLIEK-QQCRVSVC--GRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~-~~~~VtV~--g~~dp~~l~~~l~kk~G 58 (96)
.-|++.+..+ ||....+-. .++++.|+ |--||+.+.+.|. +++
T Consensus 74 ~ii~~Ri~~~-Gv~E~~i~~~G~~rI~VelPG~~d~~~a~~~ig-~ta 119 (758)
T PRK13023 74 NIMRQRLEEL-GYGNPVVEGEGRNQIRVEVPGLYDAQLLKDILT-IRG 119 (758)
T ss_pred HHHHHHHhhc-CCCCCeEEEECCceEEEECCCCCCHHHHHHHhC-Cce
Confidence 3456666665 887766665 56688887 7789998777776 555
No 162
>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=21.65 E-value=2e+02 Score=19.12 Aligned_cols=32 Identities=19% Similarity=0.245 Sum_probs=23.3
Q ss_pred CEEEEEeeCCHHHHHHHHHHhcCCcEEEeecc
Q 034383 36 CRVSVCGRFRPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 36 ~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
.+..|.|.+.-..+++.|+++.|-.+..++..
T Consensus 35 Dr~~v~~~~Tl~~li~~~~~~~~lev~ml~~g 66 (125)
T PF09358_consen 35 DRIEVNGDMTLQELIDYFKEKYGLEVTMLSQG 66 (125)
T ss_dssp -EEEEES--BHHHHHHHHHHTTS-EEEEEEET
T ss_pred eEEEEcCCCCHHHHHHHHHHHhCceEEEEEeC
Confidence 36778888889999999998888888777654
No 163
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=21.58 E-value=1.1e+02 Score=23.13 Aligned_cols=21 Identities=10% Similarity=0.181 Sum_probs=16.9
Q ss_pred HHHHHHHHhcCCCceEEEEEc
Q 034383 13 CRKLRRILLNMKEIEAHLIEK 33 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~ 33 (96)
+..+.+.|+.++||.+..|.+
T Consensus 109 egELarTI~~idgV~~ArVhL 129 (249)
T PRK15348 109 EQRIEGMLSQMEGVINAKVTI 129 (249)
T ss_pred HHHHHHHHHhCCCeeEeEEEE
Confidence 567889999999998766644
No 164
>PF13362 Toprim_3: Toprim domain
Probab=21.54 E-value=1.7e+02 Score=17.78 Aligned_cols=34 Identities=18% Similarity=0.173 Sum_probs=23.9
Q ss_pred EcCCCEEEEEeeCC--------HHHHHHHHHHhcCCcEEEeec
Q 034383 32 EKQQCRVSVCGRFR--------PSDVAIKIRKKMNRRVEILEI 66 (96)
Q Consensus 32 D~~~~~VtV~g~~d--------p~~l~~~l~kk~Gk~a~i~~~ 66 (96)
.....+|.|-++-| ...+.++++ ..|..+.++.|
T Consensus 38 ~~~~~~vii~~D~D~~~~G~~~a~~~~~~~~-~~g~~~~~~~p 79 (96)
T PF13362_consen 38 PEPGRRVIIAADNDKANEGQKAAEKAAERLE-AAGIAVSIVEP 79 (96)
T ss_pred CCCCCeEEEEECCCCchhhHHHHHHHHHHHH-hCCCeEEEECC
Confidence 33455666665544 346778888 78999999988
No 165
>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=21.42 E-value=1.5e+02 Score=26.47 Aligned_cols=44 Identities=5% Similarity=-0.030 Sum_probs=33.4
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCC--CEEEEE--------eeCCHHHHHHHHHH
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQ--CRVSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~--~~VtV~--------g~~dp~~l~~~l~k 55 (96)
=+++++..|.+++|+.++..|... .++.+. -.+++..|.+.|+.
T Consensus 698 ~a~~l~~~l~~~pg~~~v~~~~~~~~~~~~i~~d~~k~~~~Gls~~~v~~~l~~ 751 (1044)
T TIGR00915 698 ARNQLLGLAAQNPALTRVRPNGLEDEPQFKLNIDDEKAQALGVSIADINTTLST 751 (1044)
T ss_pred HHHHHHHHHhcCCCeEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 356889999999999999888754 456665 13677888888874
No 166
>PRK07334 threonine dehydratase; Provisional
Probab=21.40 E-value=2.5e+02 Score=22.05 Aligned_cols=51 Identities=6% Similarity=0.014 Sum_probs=32.6
Q ss_pred HHHHHHHHhcCC-CceEEEEEcC-----CCEEEEE--ee-CCH---HHHHHHHHHhcCCcEEEe
Q 034383 13 CRKLRRILLNMK-EIEAHLIEKQ-----QCRVSVC--GR-FRP---SDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 13 ~~kI~k~L~~l~-GV~~v~vD~~-----~~~VtV~--g~-~dp---~~l~~~l~kk~Gk~a~i~ 64 (96)
-.+|...|++.. .|.++..... .+...+. =. -|. ..|+++|+ +.|+.++++
T Consensus 340 L~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr-~~g~~~~~~ 402 (403)
T PRK07334 340 LARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALR-AAGFEARLV 402 (403)
T ss_pred HHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHH-HcCCeeEeC
Confidence 567777887653 2566666533 4454332 11 244 47888998 999999886
No 167
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.23 E-value=1.2e+02 Score=16.49 Aligned_cols=19 Identities=16% Similarity=0.092 Sum_probs=14.5
Q ss_pred HHHHHHHHhcCCCceEEEE
Q 034383 13 CRKLRRILLNMKEIEAHLI 31 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~v 31 (96)
...+.+.|.+++||..+.+
T Consensus 53 ~~~~~~~L~~~~~v~~v~~ 71 (72)
T cd04874 53 IEELVEELRSLPIVREVEI 71 (72)
T ss_pred HHHHHHHHhCCCCeEEEEe
Confidence 4477788889999887764
No 168
>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=21.20 E-value=1.3e+02 Score=19.17 Aligned_cols=25 Identities=16% Similarity=0.351 Sum_probs=20.3
Q ss_pred CCEEEEEeeCCHHHHHHHHHHhcCC
Q 034383 35 QCRVSVCGRFRPSDVAIKIRKKMNR 59 (96)
Q Consensus 35 ~~~VtV~g~~dp~~l~~~l~kk~Gk 59 (96)
+-.+.|.|+++++.+.+.|++..|.
T Consensus 19 n~~l~i~Gd~~~~~~~~~i~~~~~~ 43 (184)
T PF05193_consen 19 NMTLVIVGDIDPDELEKLIEKYFGS 43 (184)
T ss_dssp GEEEEEEESSGHHHHHHHHHHHHTT
T ss_pred ceEEEEEcCccHHHHHHHHHhhhhh
Confidence 4467889999999999999966654
No 169
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=21.01 E-value=42 Score=21.88 Aligned_cols=14 Identities=29% Similarity=0.904 Sum_probs=11.3
Q ss_pred ccchhhHHHHHHHH
Q 034383 7 LDCNGCCRKLRRIL 20 (96)
Q Consensus 7 M~C~~C~~kI~k~L 20 (96)
|-|+.|+.++.+.+
T Consensus 1 MVC~kCEkKLskvi 14 (100)
T KOG3476|consen 1 MVCEKCEKKLSKVI 14 (100)
T ss_pred CchhHHHHHhcccc
Confidence 78999998876655
No 170
>PF07660 STN: Secretin and TonB N terminus short domain; InterPro: IPR011662 This is a conserved region found at the N-terminal region of bacterial proteins involved in either protein secretion or the uptake of selective substrates, including: Bundle-forming pilus protein B, an outer-membrane protein absolutely required for pilus biogenesis, and for enteropathogenic Escherichia coli localized adherence and autoaggregation []. PilQ, which is required for type IV pilus biogenesis and competence and is thought to function both as a pore for exit of the pilus and as a channel for entry of haem and antimicrobial agents and uptake of transforming DNA []. PupB, a specific receptor for the siderophores ferric pseudobactin BN8 and ferric pseudobactin BN7, iron chelating molecules that allow the organism to extract iron from the environment, especially under iron-restricted conditions []. TonB, which couples the electrochemical potential of the cytoplasmic membrane to the active transport of iron-siderophores and vitamin B12 across the outer membrane []. ; GO: 0019867 outer membrane; PDB: 2D1U_A 1ZZV_A 2W75_B 2O5P_A 2W77_A 2W16_A 2W6U_B 2W6T_A 2W76_B 2W78_B ....
Probab=20.96 E-value=1.2e+02 Score=16.26 Aligned_cols=28 Identities=14% Similarity=0.075 Sum_probs=20.1
Q ss_pred CEEEEE-eeCCHHHHHHHHHHhcCCcEEE
Q 034383 36 CRVSVC-GRFRPSDVAIKIRKKMNRRVEI 63 (96)
Q Consensus 36 ~~VtV~-g~~dp~~l~~~l~kk~Gk~a~i 63 (96)
.++++. +.++.+.+++.|-+.+|...++
T Consensus 14 ~~vsl~~~~~~~~~~L~~ll~~t~l~y~~ 42 (52)
T PF07660_consen 14 KKVSLDVKNMSLEEALDQLLKGTGLTYKI 42 (52)
T ss_dssp BE--EE-EEE-HHHHHHHHTTTSTEEEEE
T ss_pred cceeEEcCCcCHHHHHHHHHccCCcEEEE
Confidence 477887 8899999998888788877665
No 171
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=20.92 E-value=1.7e+02 Score=19.94 Aligned_cols=20 Identities=20% Similarity=0.255 Sum_probs=18.6
Q ss_pred CCEEEEEeeCCHHHHHHHHH
Q 034383 35 QCRVSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 35 ~~~VtV~g~~dp~~l~~~l~ 54 (96)
++++++.|.+++..|.+.|+
T Consensus 72 ~~rlii~G~~~~~~i~~~L~ 91 (133)
T TIGR00311 72 GGRLILQGKFTHFLLNERIE 91 (133)
T ss_pred CCEEEEEeecCHHHHHHHHH
Confidence 68999999999999999988
No 172
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=20.91 E-value=1.6e+02 Score=26.37 Aligned_cols=45 Identities=7% Similarity=-0.008 Sum_probs=34.3
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCC--CEEEEE--------eeCCHHHHHHHHHHh
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQ--CRVSVC--------GRFRPSDVAIKIRKK 56 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~--~~VtV~--------g~~dp~~l~~~l~kk 56 (96)
=+..+++.|.+++|+.++..+... ..+.|. -.+++..|.+.|+-.
T Consensus 697 ~a~~l~~~l~~~~gv~~v~~~~~~~~~~l~i~id~~k~~~~Gls~~~v~~~l~~~ 751 (1037)
T PRK10555 697 ARNQLLALAAKNPELTRVRHNGLDDSPQLQIDIDQRKAQALGVSIDDINDTLQTA 751 (1037)
T ss_pred HHHHHHHHHhcCCCeEEEecCCcCCCceEEEEECHHHHHHcCCCHHHHHHHHHHH
Confidence 356789999999999999988765 455554 236778889998843
No 173
>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=20.86 E-value=1.3e+02 Score=16.65 Aligned_cols=17 Identities=12% Similarity=0.000 Sum_probs=12.7
Q ss_pred HHHHHHhcCCCceEEEE
Q 034383 15 KLRRILLNMKEIEAHLI 31 (96)
Q Consensus 15 kI~k~L~~l~GV~~v~v 31 (96)
.+.+.|.+++||.+|..
T Consensus 52 ~li~~l~~~~~V~~v~~ 68 (69)
T cd04901 52 ELLEALRAIPGTIRVRL 68 (69)
T ss_pred HHHHHHHcCCCeEEEEE
Confidence 56667888899888753
No 174
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=20.85 E-value=1.7e+02 Score=20.13 Aligned_cols=21 Identities=29% Similarity=0.483 Sum_probs=19.4
Q ss_pred CCCEEEEEeeCCHHHHHHHHH
Q 034383 34 QQCRVSVCGRFRPSDVAIKIR 54 (96)
Q Consensus 34 ~~~~VtV~g~~dp~~l~~~l~ 54 (96)
+++++++.|.+++..|.+.|+
T Consensus 76 ~~~~lii~G~~~~~~i~~~L~ 96 (138)
T PRK03988 76 EGGRLILQGKFSPRVINEKID 96 (138)
T ss_pred cCCEEEEEEeeCHHHHHHHHH
Confidence 569999999999999999988
No 175
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=20.82 E-value=2.3e+02 Score=17.67 Aligned_cols=41 Identities=15% Similarity=0.205 Sum_probs=26.5
Q ss_pred cchhhHHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCc
Q 034383 8 DCNGCCRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRR 60 (96)
Q Consensus 8 ~C~~C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~ 60 (96)
+|..|.+ +++.|... ||.-..+|..+ + ..+.++|.+.+|.+
T Consensus 26 ~Cp~C~~-ak~lL~~~-~i~~~~~di~~---------~-~~~~~~l~~~tg~~ 66 (97)
T TIGR00365 26 QCGFSAR-AVQILKAC-GVPFAYVNVLE---------D-PEIRQGIKEYSNWP 66 (97)
T ss_pred CCchHHH-HHHHHHHc-CCCEEEEECCC---------C-HHHHHHHHHHhCCC
Confidence 4988865 66777765 77666666642 2 35666777667753
No 176
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=20.72 E-value=3.1e+02 Score=23.30 Aligned_cols=56 Identities=9% Similarity=0.130 Sum_probs=37.8
Q ss_pred hHHHHHHHHhcCCCceEEEEEcCCCEEEEEee----C--CHHHHHHHHHHhcCCcEEEeecc
Q 034383 12 CCRKLRRILLNMKEIEAHLIEKQQCRVSVCGR----F--RPSDVAIKIRKKMNRRVEILEIQ 67 (96)
Q Consensus 12 C~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~----~--dp~~l~~~l~kk~Gk~a~i~~~~ 67 (96)
-...|++.+-.-.||.++.+|...+.|.++.. + .....++.|.+++|-...++..+
T Consensus 71 ~~~~i~~~~~~~~~~~~~~f~~~~~~v~i~~~~p~~~~~~~~~~~~~i~~~~~w~~~~~~~~ 132 (630)
T TIGR03675 71 AIEKIKEIVPEEAGITDIYFDDVTGEVIIEAEKPGLVIGKGGSTLREITAETGWTPKVVRTP 132 (630)
T ss_pred HHHHHHHhCCCcCCceeEEecCCCceEEEEEcCCeEEEecCcchHHHHHHHhCCeeeEEecC
Confidence 34555665554469999999999999999732 1 12334455555999877776543
No 177
>TIGR01677 pln_FAD_oxido plant-specific FAD-dependent oxidoreductase. This model represents an uncharacterized plant-specific family of FAD-dependent oxidoreductases. At least seven distinct members are found in Arabidopsis thaliana. The family shows considerable sequence similarity to three different enzymes of ascorbic acid biosynthesis: L-galactono-1,4-lactone dehydrogenase (EC 1.3.2.3) from higher plants, D-arabinono-1,4-lactone oxidase (EC 1.1.3.37 from Saccharomyces cerevisiae, and L-gulonolactone oxidase (EC 1.1.3.8) from mouse, as well as to a bacterial sorbitol oxidase. The class of compound acted on by members of this family is unknown.
Probab=20.68 E-value=1.7e+02 Score=24.57 Aligned_cols=38 Identities=11% Similarity=0.176 Sum_probs=30.1
Q ss_pred CCCceE-EEEEcCCCEEEEEeeCCHHHHHHHHHHhcCCcE
Q 034383 23 MKEIEA-HLIEKQQCRVSVCGRFRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 23 l~GV~~-v~vD~~~~~VtV~g~~dp~~l~~~l~kk~Gk~a 61 (96)
+..... +++|.++++|||.+.+....|.+.|. +.|+-.
T Consensus 85 L~~Ln~il~iD~~~~tVtV~AG~~l~~L~~~L~-~~Glal 123 (557)
T TIGR01677 85 TKRLNHVVAVDATAMTVTVESGMSLRELIVEAE-KAGLAL 123 (557)
T ss_pred cccCCCCEEEeCCCCEEEECCCCcHHHHHHHHH-HcCCEe
Confidence 333344 57788889999999999999999999 788643
No 178
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=20.67 E-value=2.2e+02 Score=21.78 Aligned_cols=34 Identities=9% Similarity=0.003 Sum_probs=25.1
Q ss_pred HHHHHHHHhcCCCceEEEEEcCCCEEEEEeeCCHHHHHHHHHHhcC
Q 034383 13 CRKLRRILLNMKEIEAHLIEKQQCRVSVCGRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 13 ~~kI~k~L~~l~GV~~v~vD~~~~~VtV~g~~dp~~l~~~l~kk~G 58 (96)
.+++.+.|.+++||.+++. +++++..+.+++..|
T Consensus 81 ~~~l~~~L~~~~~V~~v~~------------vskeeal~~l~~~~g 114 (309)
T PRK11026 81 ANAVVEQLKAEDGVEKVNY------------LSREEALGEFRNWSG 114 (309)
T ss_pred HHHHHHHHhCCCCcceEEE------------ECHHHHHHHHHHhhC
Confidence 3577778888888888765 578888888775445
No 179
>PRK09579 multidrug efflux protein; Reviewed
Probab=20.57 E-value=1.6e+02 Score=26.28 Aligned_cols=45 Identities=9% Similarity=-0.006 Sum_probs=33.7
Q ss_pred hhHHHHHHHHhcCCCceEEEEEcCCCE--EEEE--------eeCCHHHHHHHHHH
Q 034383 11 GCCRKLRRILLNMKEIEAHLIEKQQCR--VSVC--------GRFRPSDVAIKIRK 55 (96)
Q Consensus 11 ~C~~kI~k~L~~l~GV~~v~vD~~~~~--VtV~--------g~~dp~~l~~~l~k 55 (96)
.=+++++..|++.+|+.++..|...++ +.+. -.+++..|.+.|+-
T Consensus 672 ~~a~~l~~~l~~~~g~~~v~~~~~~~~~el~i~vd~~ka~~~Gls~~~i~~~l~~ 726 (1017)
T PRK09579 672 QVAQRVKQRAQESGKFAFLDIDLAFDKPEVVVDIDRAKAAQMGVSMQDLGGTLAT 726 (1017)
T ss_pred HHHHHHHHHHHcCCCcEEeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 347889999999999999998875444 4444 13677888888884
No 180
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.54 E-value=1.8e+02 Score=16.30 Aligned_cols=58 Identities=12% Similarity=0.179 Sum_probs=35.8
Q ss_pred EEEecc-chhhHHHHHHHHhcCC-CceEEEEEcC----CCEEEEEee-CCHHHHHHHHHHhcCCcE
Q 034383 3 MRINLD-CNGCCRKLRRILLNMK-EIEAHLIEKQ----QCRVSVCGR-FRPSDVAIKIRKKMNRRV 61 (96)
Q Consensus 3 lkV~M~-C~~C~~kI~k~L~~l~-GV~~v~vD~~----~~~VtV~g~-~dp~~l~~~l~kk~Gk~a 61 (96)
|.+.|. -.|--.++...|++.. .|.++..... ...+++.-. .+++.+.+.|+ +.|+++
T Consensus 4 ~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~-~~G~~v 68 (72)
T cd04883 4 IEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLR-RAGYEV 68 (72)
T ss_pred EEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHH-HCCCee
Confidence 445444 3466778888887653 2555544332 223455432 57789999999 889854
No 181
>PF00011 HSP20: Hsp20/alpha crystallin family This prints entry is a subset of the Pfam entry.; InterPro: IPR002068 Prokaryotic and eukaryotic organisms respond to heat shock or other environmental stress by inducing the synthesis of proteins collectively known as heat-shock proteins (hsp) []. Amongst them is a family of proteins with an average molecular weight of 20 Kd, known as the hsp20 proteins []. These seem to act as chaperones that can protect other proteins against heat-induced denaturation and aggregation. Hsp20 proteins seem to form large heterooligomeric aggregates. Structurally, this family is characterised by the presence of a conserved C-terminal domain of about 100 residues.; PDB: 2BOL_B 3N3E_B 2H50_P 2H53_F 2BYU_L 1GME_D 3VQM_J 3VQK_E 3VQL_A 3AAC_A ....
Probab=20.50 E-value=1e+02 Score=18.89 Aligned_cols=24 Identities=13% Similarity=0.315 Sum_probs=18.4
Q ss_pred cCCCc--eEEEEEcCCCEEEEEeeCC
Q 034383 22 NMKEI--EAHLIEKQQCRVSVCGRFR 45 (96)
Q Consensus 22 ~l~GV--~~v~vD~~~~~VtV~g~~d 45 (96)
.++|+ +++.+....+.++|.|...
T Consensus 14 ~lpG~~~edi~I~~~~~~L~I~g~~~ 39 (102)
T PF00011_consen 14 DLPGFDKEDIKIKVDDNKLVISGKRK 39 (102)
T ss_dssp E-TTS-GGGEEEEEETTEEEEEEEEE
T ss_pred ECCCCChHHEEEEEecCccceeceee
Confidence 45676 4788999999999998755
No 182
>COG1941 FrhG Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]
Probab=20.38 E-value=1.7e+02 Score=22.31 Aligned_cols=57 Identities=19% Similarity=0.376 Sum_probs=28.3
Q ss_pred ccchhhHHHHHH---HHhcCCC----ceE-EEEEcC----CCEEEEEeeCCHHHHHHHHHHhcCCcEEEe
Q 034383 7 LDCNGCCRKLRR---ILLNMKE----IEA-HLIEKQ----QCRVSVCGRFRPSDVAIKIRKKMNRRVEIL 64 (96)
Q Consensus 7 M~C~~C~~kI~k---~L~~l~G----V~~-v~vD~~----~~~VtV~g~~dp~~l~~~l~kk~Gk~a~i~ 64 (96)
+.|.||...+.. .|..+-. |.+ +-+|.. =.-+.|+|.+.-+.=++.++ ++..+++++
T Consensus 12 ~gC~GC~~slldl~E~L~dll~~~div~~~~l~D~keiPEvDValVEGsV~~ee~lE~v~-ElRekakiv 80 (247)
T COG1941 12 TGCSGCHMSLLDLYEKLLDLLEDADIVYCPTLVDEKEIPEVDVALVEGSVCDEEELELVK-ELREKAKIV 80 (247)
T ss_pred ccccchHHHHHhHHHHHHHhhhhhcEEEeecccccccCCcccEEEEecccCcHHHHHHHH-HHHHhCcEE
Confidence 459999995543 3333322 111 112221 24578889876544444444 444444333
No 183
>PF14535 AMP-binding_C_2: AMP-binding enzyme C-terminal domain; PDB: 2Y27_A 2Y4N_A 3QOV_B 3S89_D 3LAX_A 2Y4O_B.
Probab=20.30 E-value=2.3e+02 Score=17.50 Aligned_cols=56 Identities=14% Similarity=0.326 Sum_probs=31.5
Q ss_pred HHHHHHHhcCCCce-EE--EEEcCC--CEEEEE--ee--C-C--------HHHHHHHHHHhcCCcE--EEeeccCC
Q 034383 14 RKLRRILLNMKEIE-AH--LIEKQQ--CRVSVC--GR--F-R--------PSDVAIKIRKKMNRRV--EILEIQEH 69 (96)
Q Consensus 14 ~kI~k~L~~l~GV~-~v--~vD~~~--~~VtV~--g~--~-d--------p~~l~~~l~kk~Gk~a--~i~~~~~~ 69 (96)
..|..+|.+++|+. .+ .++-.. ..++|. .. . + ...|.++|+..+|-.+ +++++..-
T Consensus 7 ~~Ie~vl~~~~~~~~~y~i~v~~~~~~D~l~v~vE~~~~~~~~~~~~~~l~~~i~~~lk~~lgv~~~V~lv~~gtL 82 (96)
T PF14535_consen 7 SQIEEVLREFPEVSPEYQIVVTREGGLDELTVRVELRPGFSDDAEDLEALAERIAERLKERLGVRPEVELVPPGTL 82 (96)
T ss_dssp HHHHHHHCTSTTEEEEEEEEEEEETTEEEEEEEEEESTTCCTTHHHHHHHHHHHHHHHHHHHSS-EEEEEE-TT-S
T ss_pred HHHHHHHHhCcCCCCcEEEEEEcCCCCcEEEEEEEECCccCcchHHHHHHHHHHHHHHHhhcCceEEEEEECCCCc
Confidence 46889999999987 33 344333 334443 21 2 1 2456777777888755 44555443
No 184
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=20.25 E-value=2e+02 Score=23.85 Aligned_cols=43 Identities=14% Similarity=0.172 Sum_probs=31.0
Q ss_pred HHHHHHHhcCCCceEEEEEc-CCCEEEEE--eeCCHHHHHHHHHHhcC
Q 034383 14 RKLRRILLNMKEIEAHLIEK-QQCRVSVC--GRFRPSDVAIKIRKKMN 58 (96)
Q Consensus 14 ~kI~k~L~~l~GV~~v~vD~-~~~~VtV~--g~~dp~~l~~~l~kk~G 58 (96)
.-|++.+..+ ||....+-. .++++.|+ |.-||+.+.+.|. +++
T Consensus 129 ~ii~~Rvd~~-Gv~e~~i~~~G~~rI~V~lPG~~d~~~~~~~ig-~ta 174 (498)
T PRK05812 129 EIIRNRVNEL-GVAEPVIQRQGADRIVVELPGVQDTARAKEILG-KTA 174 (498)
T ss_pred HHHHHHhhhc-CCcCceEEEeCCCeEEEECCCCCCHHHHHHHhc-Cce
Confidence 3456666665 888777666 46688886 7789999888887 565
No 185
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=20.12 E-value=2.6e+02 Score=18.55 Aligned_cols=32 Identities=13% Similarity=0.084 Sum_probs=24.8
Q ss_pred HHHhcCCCceE-EEEEcCCCEEEEEeeCCHHHH
Q 034383 18 RILLNMKEIEA-HLIEKQQCRVSVCGRFRPSDV 49 (96)
Q Consensus 18 k~L~~l~GV~~-v~vD~~~~~VtV~g~~dp~~l 49 (96)
+.|.+++||.- .++..+.+.+...|.++++.+
T Consensus 4 ~~Lm~lpGv~AAg~Fs~~G~l~e~~G~l~~~~a 36 (108)
T PF09941_consen 4 DKLMKLPGVVAAGEFSDDGKLVEYKGELDEEMA 36 (108)
T ss_pred HHhhcCCCeEEEEEECCCCeEEeeecCCCHHHH
Confidence 46889999865 477777778889999887653
Done!