Query 032170
Match_columns 146
No_of_seqs 295 out of 1609
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 10:32:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032170.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032170hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00403 HMA: Heavy-metal-asso 99.6 3.4E-14 7.3E-19 84.9 8.4 58 27-84 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.5 5.7E-13 1.2E-17 81.8 9.1 66 23-88 1-70 (71)
3 KOG4656 Copper chaperone for s 99.4 4.3E-13 9.4E-18 96.2 6.4 95 23-117 6-101 (247)
4 KOG1603 Copper chaperone [Inor 99.4 6.1E-12 1.3E-16 77.7 8.9 68 22-89 3-71 (73)
5 PLN02957 copper, zinc superoxi 98.7 2.7E-07 5.9E-12 69.1 10.6 72 23-94 5-76 (238)
6 PRK10671 copA copper exporting 98.6 2.6E-07 5.7E-12 80.1 8.4 65 23-89 2-67 (834)
7 COG2217 ZntA Cation transport 98.3 1.9E-06 4.2E-11 73.3 8.0 63 24-87 2-69 (713)
8 TIGR00003 copper ion binding p 98.1 7.4E-05 1.6E-09 42.3 8.8 61 24-84 2-66 (68)
9 KOG0207 Cation transport ATPas 98.0 2.9E-05 6.4E-10 66.8 7.5 68 24-91 146-217 (951)
10 KOG0207 Cation transport ATPas 97.7 0.00014 3.1E-09 62.7 7.1 67 24-90 69-139 (951)
11 PRK10671 copA copper exporting 97.6 0.00033 7.1E-09 61.2 8.2 64 25-88 100-164 (834)
12 PRK11033 zntA zinc/cadmium/mer 97.3 0.0015 3.2E-08 56.5 8.7 66 23-88 52-119 (741)
13 TIGR02052 MerP mercuric transp 95.2 0.36 7.7E-06 29.3 9.2 63 25-87 24-90 (92)
14 COG1888 Uncharacterized protei 93.9 0.99 2.2E-05 28.7 8.0 66 22-88 4-79 (97)
15 PF01206 TusA: Sulfurtransfera 91.6 1.3 2.8E-05 26.3 6.3 53 27-88 2-57 (70)
16 PRK13748 putative mercuric red 90.9 2 4.3E-05 35.9 8.7 64 27-90 3-69 (561)
17 cd00371 HMA Heavy-metal-associ 89.1 1.8 3.8E-05 21.6 7.4 55 28-82 2-59 (63)
18 PF02680 DUF211: Uncharacteriz 89.1 4.4 9.5E-05 26.1 7.7 66 22-88 3-77 (95)
19 PRK11018 hypothetical protein; 85.9 5.8 0.00013 24.3 6.3 55 25-88 8-65 (78)
20 cd03421 SirA_like_N SirA_like_ 84.9 5.6 0.00012 23.3 5.8 52 28-89 2-56 (67)
21 PF01883 DUF59: Domain of unkn 82.5 3.1 6.7E-05 24.8 4.0 33 24-56 34-72 (72)
22 cd03420 SirA_RHOD_Pry_redox Si 80.4 9.3 0.0002 22.7 5.5 53 28-89 2-57 (69)
23 PRK10553 assembly protein for 79.1 13 0.00029 23.4 6.1 46 35-80 16-62 (87)
24 PRK11152 ilvM acetolactate syn 78.0 8.2 0.00018 23.7 4.8 53 2-56 15-75 (76)
25 cd03422 YedF YedF is a bacteri 75.3 15 0.00032 21.8 5.5 52 28-88 2-56 (69)
26 PRK14054 methionine sulfoxide 72.5 20 0.00043 25.6 6.2 46 35-80 10-77 (172)
27 cd03423 SirA SirA (also known 72.3 18 0.00038 21.4 5.9 53 28-89 2-57 (69)
28 cd00291 SirA_YedF_YeeD SirA, Y 71.0 18 0.00039 21.0 6.0 53 28-89 2-57 (69)
29 PF03927 NapD: NapD protein; 69.5 23 0.00051 21.7 6.2 44 37-81 16-60 (79)
30 PRK11198 LysM domain/BON super 69.2 19 0.00041 24.8 5.5 67 1-79 1-70 (147)
31 PF14437 MafB19-deam: MafB19-l 66.4 21 0.00046 24.8 5.1 40 23-63 99-140 (146)
32 PRK00299 sulfur transfer prote 63.5 32 0.0007 21.1 6.7 55 25-88 9-66 (81)
33 PF13291 ACT_4: ACT domain; PD 62.0 16 0.00035 21.9 3.7 35 21-55 45-79 (80)
34 cd04888 ACT_PheB-BS C-terminal 61.9 30 0.00064 20.2 5.3 34 23-56 40-74 (76)
35 PRK13562 acetolactate synthase 60.3 40 0.00087 21.2 5.7 58 2-59 14-80 (84)
36 PF09580 Spore_YhcN_YlaJ: Spor 59.4 37 0.00081 23.8 5.6 33 34-66 73-105 (177)
37 COG0425 SirA Predicted redox p 59.3 39 0.00084 20.7 6.4 49 25-82 5-56 (78)
38 PF13732 DUF4162: Domain of un 57.5 40 0.00087 20.3 5.5 42 45-88 26-69 (84)
39 TIGR03406 FeS_long_SufT probab 57.5 16 0.00036 26.1 3.5 33 26-58 115-153 (174)
40 PRK13014 methionine sulfoxide 57.4 38 0.00083 24.5 5.4 46 35-80 15-82 (186)
41 PRK00058 methionine sulfoxide 56.4 59 0.0013 24.1 6.3 46 35-80 52-119 (213)
42 COG2151 PaaD Predicted metal-s 55.4 24 0.00053 23.3 3.8 20 38-57 69-88 (111)
43 TIGR03527 selenium_YedF seleni 53.0 58 0.0013 23.6 5.8 50 31-89 5-56 (194)
44 PRK05550 bifunctional methioni 52.1 78 0.0017 24.6 6.6 27 35-61 134-160 (283)
45 PF08712 Nfu_N: Scaffold prote 49.0 58 0.0013 20.3 4.7 41 39-81 37-79 (87)
46 TIGR02945 SUF_assoc FeS assemb 47.7 28 0.00062 21.9 3.2 36 24-59 39-78 (99)
47 PRK08178 acetolactate synthase 47.4 70 0.0015 20.6 4.8 52 2-55 20-79 (96)
48 PF13740 ACT_6: ACT domain; PD 46.8 61 0.0013 19.3 5.3 56 25-80 2-64 (76)
49 PF04972 BON: BON domain; Int 46.8 15 0.00033 21.0 1.6 29 40-69 3-34 (64)
50 cd04887 ACT_MalLac-Enz ACT_Mal 46.5 56 0.0012 18.9 4.2 34 23-56 39-72 (74)
51 cd04877 ACT_TyrR N-terminal AC 45.3 35 0.00076 20.1 3.1 17 38-54 51-67 (74)
52 PRK05528 methionine sulfoxide 44.4 33 0.00071 24.1 3.2 46 35-80 8-70 (156)
53 PRK09577 multidrug efflux prot 42.1 90 0.002 28.6 6.4 46 38-83 158-211 (1032)
54 KOG4730 D-arabinono-1, 4-lacto 41.3 9.7 0.00021 31.5 0.2 52 31-87 87-138 (518)
55 COG3062 NapD Uncharacterized p 40.3 99 0.0022 19.8 5.3 46 35-81 17-63 (94)
56 TIGR02898 spore_YhcN_YlaJ spor 39.6 1.3E+02 0.0029 21.1 5.8 31 36-66 54-84 (158)
57 PF04805 Pox_E10: E10-like pro 38.8 27 0.00059 21.0 1.8 21 31-51 15-35 (70)
58 KOG3411 40S ribosomal protein 38.3 32 0.0007 23.5 2.3 45 34-81 96-141 (143)
59 TIGR00489 aEF-1_beta translati 38.1 39 0.00085 21.3 2.6 22 36-57 62-83 (88)
60 PRK10555 aminoglycoside/multid 37.4 1.1E+02 0.0024 28.1 6.2 44 38-81 159-210 (1037)
61 PF05046 Img2: Mitochondrial l 36.6 1.1E+02 0.0023 19.1 5.5 58 25-83 29-87 (87)
62 PF02672 CP12: CP12 domain; I 36.0 9.1 0.0002 23.2 -0.5 15 131-145 52-68 (71)
63 PRK11023 outer membrane lipopr 35.4 1.1E+02 0.0024 22.0 4.9 47 33-79 46-95 (191)
64 COG2092 EFB1 Translation elong 34.9 78 0.0017 20.1 3.5 34 24-57 49-83 (88)
65 TIGR00119 acolac_sm acetolacta 34.3 1.6E+02 0.0036 20.6 5.6 87 2-92 13-116 (157)
66 COG4004 Uncharacterized protei 33.4 75 0.0016 20.3 3.3 23 45-67 36-58 (96)
67 PRK07334 threonine dehydratase 33.0 2.6E+02 0.0056 22.5 7.4 64 25-88 326-402 (403)
68 PF13710 ACT_5: ACT domain; PD 32.4 1E+02 0.0023 17.8 3.7 52 2-54 4-63 (63)
69 PF08002 DUF1697: Protein of u 32.3 1.6E+02 0.0035 19.9 5.9 48 39-87 22-74 (137)
70 PF13192 Thioredoxin_3: Thiore 32.2 65 0.0014 19.1 2.9 11 30-40 6-16 (76)
71 PF08821 CGGC: CGGC domain; I 31.9 1.2E+02 0.0026 19.8 4.3 57 28-86 38-103 (107)
72 cd06167 LabA_like LabA_like pr 31.7 87 0.0019 20.9 3.8 29 63-91 104-132 (149)
73 PF09158 MotCF: Bacteriophage 30.9 1.6E+02 0.0034 19.3 5.0 40 47-87 39-78 (103)
74 COG2761 FrnE Predicted dithiol 30.3 1.4E+02 0.0031 22.3 4.9 38 23-60 3-45 (225)
75 PRK11023 outer membrane lipopr 30.2 1.7E+02 0.0038 21.0 5.3 39 37-75 128-168 (191)
76 PRK15127 multidrug efflux syst 30.1 1.7E+02 0.0037 27.0 6.2 43 39-81 160-210 (1049)
77 TIGR00915 2A0602 The (Largely 30.0 1.7E+02 0.0037 26.9 6.2 43 38-80 159-209 (1044)
78 PF01625 PMSR: Peptide methion 29.0 63 0.0014 22.6 2.7 27 35-61 7-33 (155)
79 PHA03005 sulfhydryl oxidase; P 29.0 47 0.001 21.3 1.8 21 31-51 40-60 (96)
80 PF04461 DUF520: Protein of un 28.5 2E+02 0.0044 20.3 5.1 59 23-84 89-151 (160)
81 PF13193 AMP-binding_C: AMP-bi 28.2 69 0.0015 18.7 2.5 41 40-80 1-46 (73)
82 cd04902 ACT_3PGDH-xct C-termin 28.0 1.2E+02 0.0026 17.1 4.3 31 22-56 39-70 (73)
83 TIGR01676 GLDHase galactonolac 27.9 1.2E+02 0.0026 25.8 4.6 39 45-85 110-148 (541)
84 COG0225 MsrA Peptide methionin 27.9 87 0.0019 22.5 3.2 34 23-61 6-39 (174)
85 cd04878 ACT_AHAS N-terminal AC 27.9 1.2E+02 0.0025 16.8 4.5 31 22-54 40-71 (72)
86 PF01514 YscJ_FliF: Secretory 27.8 74 0.0016 23.3 3.0 20 38-57 117-136 (206)
87 PRK00435 ef1B elongation facto 27.3 74 0.0016 20.1 2.5 23 35-57 61-83 (88)
88 TIGR00401 msrA methionine-S-su 27.3 51 0.0011 22.9 2.0 26 35-60 7-32 (149)
89 TIGR03027 pepcterm_export puta 27.2 1.9E+02 0.0042 20.0 5.0 56 27-82 38-109 (165)
90 COG2177 FtsX Cell division pro 27.2 1.2E+02 0.0027 23.6 4.3 31 26-57 63-93 (297)
91 PRK05412 putative nucleotide-b 27.1 2.3E+02 0.005 20.1 7.4 59 23-84 89-151 (161)
92 PRK09019 translation initiatio 27.0 84 0.0018 20.7 2.8 28 60-88 79-106 (108)
93 PRK04435 hypothetical protein; 26.8 2.1E+02 0.0046 19.6 5.3 34 23-56 109-143 (147)
94 PF03434 DUF276: DUF276 ; Int 26.3 1.1E+02 0.0024 23.3 3.6 30 36-65 87-116 (291)
95 COG1432 Uncharacterized conser 25.5 1.2E+02 0.0025 21.6 3.7 30 63-92 115-144 (181)
96 TIGR02830 spore_III_AG stage I 24.7 73 0.0016 23.1 2.4 29 37-65 62-92 (186)
97 PRK11670 antiporter inner memb 24.7 3.2E+02 0.0069 21.9 6.3 53 38-90 67-144 (369)
98 PF08777 RRM_3: RNA binding mo 24.3 2.1E+02 0.0045 18.5 6.6 55 27-81 3-60 (105)
99 cd02410 archeal_CPSF_KH The ar 24.2 2.5E+02 0.0055 19.5 6.3 58 35-92 52-116 (145)
100 PF11491 DUF3213: Protein of u 23.9 1.4E+02 0.003 18.8 3.2 48 38-85 13-63 (88)
101 PRK07451 translation initiatio 23.8 91 0.002 20.8 2.6 29 59-88 85-113 (115)
102 PRK06824 translation initiatio 23.6 1.1E+02 0.0024 20.4 3.0 54 31-88 62-116 (118)
103 TIGR02159 PA_CoA_Oxy4 phenylac 23.6 1.1E+02 0.0025 21.1 3.2 18 39-57 46-63 (146)
104 COG0602 NrdG Organic radical a 23.6 2.3E+02 0.0049 20.8 4.9 68 20-92 19-109 (212)
105 TIGR00288 conserved hypothetic 23.5 1.4E+02 0.0031 21.0 3.7 27 64-90 111-137 (160)
106 PRK08577 hypothetical protein; 22.9 2.2E+02 0.0048 19.0 4.5 21 36-56 111-131 (136)
107 PF00352 TBP: Transcription fa 22.8 1.5E+02 0.0032 18.2 3.3 23 58-80 55-77 (86)
108 TIGR03028 EpsE polysaccharide 22.6 3.2E+02 0.007 20.2 5.8 56 27-83 39-110 (239)
109 TIGR02544 III_secr_YscJ type I 22.4 94 0.002 22.5 2.7 22 37-58 108-129 (193)
110 PRK10509 bacterioferritin-asso 22.2 53 0.0012 19.3 1.1 21 27-47 32-52 (64)
111 PRK15078 polysaccharide export 22.2 2.3E+02 0.0051 22.8 5.1 57 27-83 133-203 (379)
112 COG4669 EscJ Type III secretor 21.9 1E+02 0.0022 23.4 2.7 22 36-57 109-130 (246)
113 COG2331 Uncharacterized protei 21.8 52 0.0011 20.3 1.0 16 33-48 35-50 (82)
114 PF09122 DUF1930: Domain of un 21.6 1.2E+02 0.0026 18.0 2.5 44 23-66 18-62 (68)
115 COG0841 AcrB Cation/multidrug 21.6 3.2E+02 0.0068 25.3 6.2 46 37-82 156-210 (1009)
116 TIGR00914 2A0601 heavy metal e 21.2 1.6E+02 0.0035 27.1 4.4 57 25-81 683-753 (1051)
117 KOG3782 Predicted membrane pro 21.1 3.2E+02 0.007 19.6 5.1 35 32-66 25-67 (189)
118 cd04885 ACT_ThrD-I Tandem C-te 20.9 96 0.0021 17.9 2.1 17 69-85 50-66 (68)
119 COG0217 Uncharacterized conser 20.8 2E+02 0.0043 21.8 4.1 44 39-86 151-195 (241)
120 PRK11282 glcE glycolate oxidas 20.6 1.9E+02 0.0041 23.1 4.2 38 45-84 43-80 (352)
121 TIGR02194 GlrX_NrdH Glutaredox 20.4 1.9E+02 0.0041 16.7 3.3 26 31-58 6-31 (72)
122 PF15643 Tox-PL-2: Papain fold 20.3 73 0.0016 20.7 1.5 20 31-51 18-37 (100)
123 PRK15348 type III secretion sy 20.2 1.2E+02 0.0025 23.1 2.8 21 38-58 109-129 (249)
No 1
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.56 E-value=3.4e-14 Score=84.88 Aligned_cols=58 Identities=36% Similarity=0.614 Sum_probs=54.2
Q ss_pred EEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhcCCc
Q 032170 27 DIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY---VDPNKVLKKVKSTGKR 84 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~ 84 (146)
+|+| ||+|++|+++|+++|.+++||.++.+|+.+++++|.++ +++++|.++|+++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 5889 99999999999999999999999999999999999976 4669999999999985
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.48 E-value=5.7e-13 Score=81.83 Aligned_cols=66 Identities=29% Similarity=0.514 Sum_probs=58.4
Q ss_pred ceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--e-cCCHHHHHHHHHhcCCceEEe
Q 032170 23 MQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVT--G-YVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 23 ~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~--~-~~~~~~i~~~i~~~G~~~~~~ 88 (146)
|.+..|+| ||+|.+|+.+|+++|.+++||.++++++..+++.|. + .++.++|.++|+.+||.+..+
T Consensus 1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 34678999 999999999999999999999999999999777666 4 379999999999999987653
No 3
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.42 E-value=4.3e-13 Score=96.20 Aligned_cols=95 Identities=26% Similarity=0.399 Sum_probs=79.5
Q ss_pred ceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEeccCCCcccccCCcc
Q 032170 23 MQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEFWPYVPYNLVAYPYVA 102 (146)
Q Consensus 23 ~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~~~~~~~~~~~~~~ 102 (146)
.-+.+|.|.|+|++|+..|++.|..++||.++++|+.++.+.|.+...+.+|...|+.+|.+|.+.+.+..+++.-...-
T Consensus 6 ~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~psaval~at~ 85 (247)
T KOG4656|consen 6 TYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGKPSAVALLATV 85 (247)
T ss_pred ceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCchhHHHHHHHH
Confidence 44678999999999999999999999999999999999999999999999999999999999999998766554443333
Q ss_pred ccc-CCCCCCCCcCCC
Q 032170 103 QAY-DKKAPSGYVKNV 117 (146)
Q Consensus 103 ~~~-~~~~~~~~~r~~ 117 (146)
+.| ...+.+|++|+.
T Consensus 86 a~~~~~~~v~GvvRf~ 101 (247)
T KOG4656|consen 86 AKYTGPQAVQGVVRFV 101 (247)
T ss_pred HHhcCCccceeEEEEE
Confidence 333 233677777774
No 4
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.38 E-value=6.1e-12 Score=77.66 Aligned_cols=68 Identities=51% Similarity=0.968 Sum_probs=61.8
Q ss_pred CceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcC-CceEEec
Q 032170 22 PMQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTG-KRAEFWP 89 (146)
Q Consensus 22 ~~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G-~~~~~~~ 89 (146)
.+.+.++++.|+|.+|..+|++.|+.++||.++.+|...++++|.|.+++..|++.|++.| .++.+|.
T Consensus 3 ~~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 3 PIKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred CccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEec
Confidence 3566788889999999999999999999999999999999999999999999999999988 6666653
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.69 E-value=2.7e-07 Score=69.11 Aligned_cols=72 Identities=25% Similarity=0.416 Sum_probs=64.0
Q ss_pred ceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEeccCCCc
Q 032170 23 MQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEFWPYVPYN 94 (146)
Q Consensus 23 ~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~~~~~~ 94 (146)
.+++++.++|+|..|+.+|+++|.+++||..+.+++..+++.|.+.....++.+.|++.||.+++++....+
T Consensus 5 ~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 5 ELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred cEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 456678889999999999999999999999999999999999987778889999999999999888765443
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.56 E-value=2.6e-07 Score=80.15 Aligned_cols=65 Identities=20% Similarity=0.436 Sum_probs=57.6
Q ss_pred ceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEec
Q 032170 23 MQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEFWP 89 (146)
Q Consensus 23 ~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~ 89 (146)
++++++.| ||+|.+|+.+|+++|++++||.++++++. +.+|.+..+.+.+.+.+++.||++++..
T Consensus 2 ~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 2 SQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 35689999 99999999999999999999999999994 5566666789999999999999998754
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.34 E-value=1.9e-06 Score=73.31 Aligned_cols=63 Identities=27% Similarity=0.527 Sum_probs=56.6
Q ss_pred eEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CC-HHHHHHHHHhcCCceEE
Q 032170 24 QTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY---VD-PNKVLKKVKSTGKRAEF 87 (146)
Q Consensus 24 ~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~---~~-~~~i~~~i~~~G~~~~~ 87 (146)
.+..|.+ ||+|..|+.+|| +|++++||.++.+++.++++.|..+ .+ .+++...++..||.+..
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 3568999 999999999999 9999999999999999999998854 45 68999999999998765
No 8
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=98.08 E-value=7.4e-05 Score=42.32 Aligned_cols=61 Identities=21% Similarity=0.373 Sum_probs=50.5
Q ss_pred eEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhcCCc
Q 032170 24 QTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY---VDPNKVLKKVKSTGKR 84 (146)
Q Consensus 24 ~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~ 84 (146)
.+..+.+ ++.|..|...+++.+...+++....+++....+.+... .+...+...+...|+.
T Consensus 2 ~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 66 (68)
T TIGR00003 2 QKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYE 66 (68)
T ss_pred cEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCC
Confidence 3457999 99999999999999999999999999999998887642 4667777777777764
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.97 E-value=2.9e-05 Score=66.80 Aligned_cols=68 Identities=28% Similarity=0.499 Sum_probs=62.2
Q ss_pred eEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhcCCceEEeccC
Q 032170 24 QTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY---VDPNKVLKKVKSTGKRAEFWPYV 91 (146)
Q Consensus 24 ~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~~~~~~~~ 91 (146)
.++.|.| ||.|.+|+.+|++.|.+++||.+++++...+++.|..+ ..+.++.+.|+..|+.+......
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~~ 217 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRPYG 217 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeeecc
Confidence 6789999 99999999999999999999999999999999998754 78999999999999998877643
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.68 E-value=0.00014 Score=62.70 Aligned_cols=67 Identities=21% Similarity=0.356 Sum_probs=60.2
Q ss_pred eEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhcCCceEEecc
Q 032170 24 QTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY---VDPNKVLKKVKSTGKRAEFWPY 90 (146)
Q Consensus 24 ~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~~~~~~~ 90 (146)
.+-.|.+ ||+|.+|++.|++.|++++||.++.+.+...+..+..+ .+++.+.+.+++.|+.+++...
T Consensus 69 ~~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~ 139 (951)
T KOG0207|consen 69 SKCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIES 139 (951)
T ss_pred ceeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhc
Confidence 3668999 99999999999999999999999999999999988743 7889999999999999987653
No 11
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.58 E-value=0.00033 Score=61.16 Aligned_cols=64 Identities=27% Similarity=0.484 Sum_probs=56.5
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~ 88 (146)
++.+.+ ||+|..|...+++.+.+++||.++.+++..+++.+.+..+.+++.+.+++.|+.+.+.
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~ 164 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAI 164 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcccc
Confidence 567889 9999999999999999999999999999999888876567888888899999987643
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.31 E-value=0.0015 Score=56.51 Aligned_cols=66 Identities=29% Similarity=0.320 Sum_probs=54.0
Q ss_pred ceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec-CCHHHHHHHHHhcCCceEEe
Q 032170 23 MQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY-VDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 23 ~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~-~~~~~i~~~i~~~G~~~~~~ 88 (146)
..+..+.+ ||+|.+|..++++.+.+++||.++.+++...++.+..+ ...+++.+.+++.||.+...
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 45677899 99999999999999999999999999999998877633 12266777888889876543
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=95.23 E-value=0.36 Score=29.28 Aligned_cols=63 Identities=24% Similarity=0.357 Sum_probs=46.9
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe---cCCHHHHHHHHHhcCCceEE
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTG---YVDPNKVLKKVKSTGKRAEF 87 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~---~~~~~~i~~~i~~~G~~~~~ 87 (146)
+..+.+ ++.|..|...++..+...+|+....++.......+.. ..+...+...+++.|+.+++
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 456778 9999999999999999999988888887777655542 23555555666677776544
No 14
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=93.89 E-value=0.99 Score=28.72 Aligned_cols=66 Identities=14% Similarity=0.247 Sum_probs=44.1
Q ss_pred CceEEEEEE-cCc-CHhHHHHHHHHHhCCCCceEEEEe-----cC--CCEEEEEec-CCHHHHHHHHHhcCCceEEe
Q 032170 22 PMQTVDIKV-KMD-CDGCERKVRNAVSSIRGAKSVEVN-----RK--QSRVTVTGY-VDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 22 ~~~~~~l~V-~m~-C~~C~~~i~~~L~~~~GV~~v~vd-----~~--~~~v~V~~~-~~~~~i~~~i~~~G~~~~~~ 88 (146)
..+++.|.+ --+ -+.- --+-+.|.+++||+.|++. .+ +-+++|.|. ++-++|.+.|++.|.-....
T Consensus 4 ~iRRlVLDvlKP~~~p~i-ve~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSi 79 (97)
T COG1888 4 GIRRLVLDVLKPHRGPTI-VELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSI 79 (97)
T ss_pred cceeeeeeecCCcCCCcH-HHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeeh
Confidence 345667776 333 3333 3456668888998877754 33 334566675 89999999999999765543
No 15
>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=91.62 E-value=1.3 Score=26.26 Aligned_cols=53 Identities=9% Similarity=0.071 Sum_probs=39.4
Q ss_pred EEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCceEEe
Q 032170 27 DIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~ 88 (146)
++.+ |+.|+...-+++++|.+++. .+.+.|..+ .....|...++..|+...-+
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~---------G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPP---------GEVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGT---------T-EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCC---------CCEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 5788 99999999999999999743 234555533 45688999999999975544
No 16
>PRK13748 putative mercuric reductase; Provisional
Probab=90.91 E-value=2 Score=35.91 Aligned_cols=64 Identities=23% Similarity=0.443 Sum_probs=48.9
Q ss_pred EEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEecc
Q 032170 27 DIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTG--YVDPNKVLKKVKSTGKRAEFWPY 90 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~~~ 90 (146)
.+.+ ++.|..|..+++..+...+++....+++......+.. ..+...+...++..|+..++...
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADA 69 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCc
Confidence 4668 9999999999999999999998888888888766653 23556666666777777655443
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=89.11 E-value=1.8 Score=21.59 Aligned_cols=55 Identities=33% Similarity=0.647 Sum_probs=36.1
Q ss_pred EEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcC
Q 032170 28 IKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTG 82 (146)
Q Consensus 28 l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G 82 (146)
+.+ ++.|..|...++..+...+++.....++......+... .+...+...+...+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (63)
T cd00371 2 LSVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAG 59 (63)
T ss_pred eeECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcC
Confidence 345 78899999999998888888877777766666555432 24444433344433
No 18
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=89.06 E-value=4.4 Score=26.05 Aligned_cols=66 Identities=15% Similarity=0.275 Sum_probs=44.3
Q ss_pred CceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEe-----cCCCE--EEEEec-CCHHHHHHHHHhcCCceEEe
Q 032170 22 PMQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVN-----RKQSR--VTVTGY-VDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 22 ~~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd-----~~~~~--v~V~~~-~~~~~i~~~i~~~G~~~~~~ 88 (146)
..+++.|.| --+-++- -.+-++|.+++||..+++. ..+.. ++|+|. ++.++|.++|++.|....-.
T Consensus 3 ~irRlVLDVlKP~~p~i-~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSI 77 (95)
T PF02680_consen 3 GIRRLVLDVLKPHEPSI-VELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSI 77 (95)
T ss_dssp SEEEEEEEEEEESSS-H-HHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEE
T ss_pred ceeEEEEEeecCCCCCH-HHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEee
Confidence 356777777 4454544 3566779999999988764 33333 355576 89999999999999765443
No 19
>PRK11018 hypothetical protein; Provisional
Probab=85.86 E-value=5.8 Score=24.30 Aligned_cols=55 Identities=9% Similarity=0.047 Sum_probs=41.4
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCceEEe
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~ 88 (146)
..++.+ |+.|+.-.-+.+++|.+++. .+.+.|..+ .....|...+++.|+.+...
T Consensus 8 ~~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~~~G~~v~~~ 65 (78)
T PRK11018 8 DYRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDARNHGYTVLDI 65 (78)
T ss_pred CeeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 357889 99999999999999998852 233444432 56678888999999987543
No 20
>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=84.87 E-value=5.6 Score=23.32 Aligned_cols=52 Identities=17% Similarity=0.199 Sum_probs=37.4
Q ss_pred EEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCceEEec
Q 032170 28 IKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKRAEFWP 89 (146)
Q Consensus 28 l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~~ 89 (146)
+.+ |+.|+.-.-+++++| ++.. .+.+.|..+ .....|...+++.|+......
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEEe
Confidence 457 899999999999999 5532 234444433 455789999999999886443
No 21
>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=82.53 E-value=3.1 Score=24.77 Aligned_cols=33 Identities=27% Similarity=0.609 Sum_probs=21.4
Q ss_pred eEEEEEEcCcCHhH------HHHHHHHHhCCCCceEEEE
Q 032170 24 QTVDIKVKMDCDGC------ERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 24 ~~~~l~V~m~C~~C------~~~i~~~L~~~~GV~~v~v 56 (146)
.++.+.+.+..++| ...|+++|..++||.+++|
T Consensus 34 ~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 34 GKVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp CEEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred CEEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 34555554555554 4778899999999998875
No 22
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=80.35 E-value=9.3 Score=22.66 Aligned_cols=53 Identities=15% Similarity=0.203 Sum_probs=39.6
Q ss_pred EEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCceEEec
Q 032170 28 IKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKRAEFWP 89 (146)
Q Consensus 28 l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~~ 89 (146)
+.+ |+.|+.=.-+.+++|.+++. .+.+.|..+ .....|....+..|+......
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 567 89999999999999998852 234444432 566888999999999876443
No 23
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=79.06 E-value=13 Score=23.43 Aligned_cols=46 Identities=11% Similarity=0.198 Sum_probs=32.6
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe-cCCHHHHHHHHHh
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTG-YVDPNKVLKKVKS 80 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~-~~~~~~i~~~i~~ 80 (146)
+.=...+.++|..++|++-...|...+|+.|+- ..+...+.+.+..
T Consensus 16 Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~ 62 (87)
T PRK10553 16 SERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIES 62 (87)
T ss_pred hHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHH
Confidence 444678999999999998777777788877662 2455555555543
No 24
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=77.97 E-value=8.2 Score=23.69 Aligned_cols=53 Identities=9% Similarity=0.179 Sum_probs=37.7
Q ss_pred cchhhhhcccccC----cC----CCCCCCceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEEE
Q 032170 2 GVLDHLFDLFETT----PR----GKKRKPMQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 2 ~~~~~~~~~~~~~----~~----~~~~~~~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~v 56 (146)
|+|..++++|.-. .+ ....+...++++.|+ -+.....+.+.|+++..|..+++
T Consensus 15 GVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v~--~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 15 EVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTVA--SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred cHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEEC--CCchHHHHHHHHhcCcCeEEEEE
Confidence 6777777777431 11 223445677777774 48889999999999999988876
No 25
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=75.29 E-value=15 Score=21.82 Aligned_cols=52 Identities=12% Similarity=0.093 Sum_probs=38.5
Q ss_pred EEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEe
Q 032170 28 IKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTG--YVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 28 l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~ 88 (146)
+.+ |..|+.=.-+.+++|++++- .+.+.|.. ......|...++..|+++...
T Consensus 2 lD~rG~~CP~Pvi~~kkal~~l~~---------G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 2 LDLRGEPCPYPAIATLEALPSLKP---------GEILEVISDCPQSINNIPIDARNHGYKVLAI 56 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEecCchHHHHHHHHHHHcCCEEEEE
Confidence 446 88999999999999998852 23344443 356788888999999988644
No 26
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=72.54 E-value=20 Score=25.64 Aligned_cols=46 Identities=17% Similarity=0.256 Sum_probs=34.1
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCE-------------------EEEEec---CCHHHHHHHHHh
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSR-------------------VTVTGY---VDPNKVLKKVKS 80 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~i~~~i~~ 80 (146)
.+|-.-++..+.+++||.++.+-...+. |.|..+ ++.++|++..-+
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~~ 77 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFFQ 77 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHHH
Confidence 5788888999999999999998765553 445533 677888876643
No 27
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=72.33 E-value=18 Score=21.41 Aligned_cols=53 Identities=9% Similarity=0.067 Sum_probs=38.9
Q ss_pred EEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEec
Q 032170 28 IKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTG--YVDPNKVLKKVKSTGKRAEFWP 89 (146)
Q Consensus 28 l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~~ 89 (146)
+.+ |..|+.=.-+++++|.+++- .+.+.|.. ......|...+++.|++.....
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~ 57 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEEE
Confidence 456 88999999999999998742 23344442 3567889999999999876543
No 28
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=71.04 E-value=18 Score=20.98 Aligned_cols=53 Identities=13% Similarity=0.084 Sum_probs=38.7
Q ss_pred EEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCceEEec
Q 032170 28 IKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKRAEFWP 89 (146)
Q Consensus 28 l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~~ 89 (146)
+.+ |+.|+.=.-++.++|.+++. .+.+.|..+ .....|...++..|+......
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~~ 57 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHEVLEVE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCEEEEEE
Confidence 456 89999999999999988643 334444433 457889999999999865443
No 29
>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=69.49 E-value=23 Score=21.71 Aligned_cols=44 Identities=16% Similarity=0.258 Sum_probs=31.1
Q ss_pred HHHHHHHHHhCCCCceEEEEecCCCEEEEE-ecCCHHHHHHHHHhc
Q 032170 37 CERKVRNAVSSIRGAKSVEVNRKQSRVTVT-GYVDPNKVLKKVKST 81 (146)
Q Consensus 37 C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~-~~~~~~~i~~~i~~~ 81 (146)
=...+.++|.+++|++-...+.. +++.|+ -..+..++.+.+...
T Consensus 16 ~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 16 RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 45688999999999976666655 777666 335666666666644
No 30
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=69.19 E-value=19 Score=24.84 Aligned_cols=67 Identities=18% Similarity=0.284 Sum_probs=39.7
Q ss_pred Ccchhhhhccccc--CcCCCCCCCceEEEEEEcCcCHhHHHHHHHHHhCC-CCceEEEEecCCCEEEEEecCCHHHHHHH
Q 032170 1 MGVLDHLFDLFET--TPRGKKRKPMQTVDIKVKMDCDGCERKVRNAVSSI-RGAKSVEVNRKQSRVTVTGYVDPNKVLKK 77 (146)
Q Consensus 1 ~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~V~m~C~~C~~~i~~~L~~~-~GV~~v~vd~~~~~v~V~~~~~~~~i~~~ 77 (146)
||+|++..+.... + +.+.+. .-..=...|.++|.+. -+...++|....+.|++.|.+........
T Consensus 1 ~~~~~~~~~~~~~~~~-~~~~~~-----------~~~~~~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~ 68 (147)
T PRK11198 1 MGLFSFVKEAGEKLFD-AVTAQA-----------DNEDAADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEK 68 (147)
T ss_pred CcHHHHHHHHHHHhcC-CCCccc-----------chHHHHHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHH
Confidence 8999998665431 1 111111 1144567777777653 23445667777999999998654444444
Q ss_pred HH
Q 032170 78 VK 79 (146)
Q Consensus 78 i~ 79 (146)
+.
T Consensus 69 ~~ 70 (147)
T PRK11198 69 IL 70 (147)
T ss_pred HH
Confidence 44
No 31
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=66.41 E-value=21 Score=24.84 Aligned_cols=40 Identities=18% Similarity=0.404 Sum_probs=30.7
Q ss_pred ceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecC-CCEE
Q 032170 23 MQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRK-QSRV 63 (146)
Q Consensus 23 ~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~-~~~v 63 (146)
-..+++.| .-.|..|..-|.....++ |+.++.|... ++++
T Consensus 99 g~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~ 140 (146)
T PF14437_consen 99 GRSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKV 140 (146)
T ss_pred CCeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcE
Confidence 34578888 888999998888877765 8888887765 5544
No 32
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=63.47 E-value=32 Score=21.10 Aligned_cols=55 Identities=7% Similarity=0.063 Sum_probs=40.5
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEe
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTG--YVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~ 88 (146)
..++.. |+.|+.=.-+++++|.+++. .+.+.|.. ....+.|....+..|++....
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 356888 99999999999999998842 23344442 256677888888999887543
No 33
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=62.01 E-value=16 Score=21.89 Aligned_cols=35 Identities=17% Similarity=0.189 Sum_probs=25.4
Q ss_pred CCceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEE
Q 032170 21 KPMQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVE 55 (146)
Q Consensus 21 ~~~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~ 55 (146)
.....+.|.+...-..--..+-+.|++++||.+|.
T Consensus 45 ~~~~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 45 DGTARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp TTEEEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred CCEEEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 44555666665566667778888899999998764
No 34
>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=61.89 E-value=30 Score=20.18 Aligned_cols=34 Identities=18% Similarity=0.240 Sum_probs=23.8
Q ss_pred ceEEEEEEcCcCHh-HHHHHHHHHhCCCCceEEEE
Q 032170 23 MQTVDIKVKMDCDG-CERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 23 ~~~~~l~V~m~C~~-C~~~i~~~L~~~~GV~~v~v 56 (146)
...+.|.+...-.. --..+.+.|++++||.+|.+
T Consensus 40 ~~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 40 RANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred eEEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 34455556444444 77888889999999988765
No 35
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=60.35 E-value=40 Score=21.17 Aligned_cols=58 Identities=12% Similarity=0.152 Sum_probs=39.3
Q ss_pred cchhhhhcccccC--------cCCCCCCCceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEE-EecC
Q 032170 2 GVLDHLFDLFETT--------PRGKKRKPMQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVE-VNRK 59 (146)
Q Consensus 2 ~~~~~~~~~~~~~--------~~~~~~~~~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~-vd~~ 59 (146)
|+|..++++|.-. -..+..+...++++-+.-..+.-..+|.+.|+++-.|..+. +|+.
T Consensus 14 GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~~~d~~~ieqI~kQL~KlidVikV~~~~~~ 80 (84)
T PRK13562 14 STLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVDIQDDTSLHILIKKLKQQINVLTVECYDLV 80 (84)
T ss_pred CHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEeCCCHHHHHHHHHHHhCCccEEEEEEeecc
Confidence 7788888888542 12334556677777774356777788999999998887765 4443
No 36
>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=59.40 E-value=37 Score=23.80 Aligned_cols=33 Identities=15% Similarity=0.221 Sum_probs=27.9
Q ss_pred CHhHHHHHHHHHhCCCCceEEEEecCCCEEEEE
Q 032170 34 CDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVT 66 (146)
Q Consensus 34 C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~ 66 (146)
-..=+..|.+.+.+++||.++.+-.....+.|.
T Consensus 73 ~~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 73 RQQLADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 355688999999999999999998888887765
No 37
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=59.30 E-value=39 Score=20.70 Aligned_cols=49 Identities=12% Similarity=0.231 Sum_probs=36.6
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcC
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTG 82 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G 82 (146)
..+|.+ |+.|+.=.-.++++|.+++ ..+.+.|..+ .....|....++.|
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~---------~Ge~LeV~~ddp~~~~dIp~~~~~~~ 56 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLK---------PGEILEVIADDPAAKEDIPAWAKKEG 56 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCC---------CCCEEEEEecCcchHHHHHHHHHHcC
Confidence 457899 9999999999999999884 2344555533 45577888887566
No 38
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=57.51 E-value=40 Score=20.27 Aligned_cols=42 Identities=17% Similarity=0.338 Sum_probs=30.2
Q ss_pred HhCCCCceEEEEecCCCEEE--EEecCCHHHHHHHHHhcCCceEEe
Q 032170 45 VSSIRGAKSVEVNRKQSRVT--VTGYVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 45 L~~~~GV~~v~vd~~~~~v~--V~~~~~~~~i~~~i~~~G~~~~~~ 88 (146)
|..++||..+...- .+.+. +.......+|++.|...|. ..-.
T Consensus 26 l~~~~~v~~v~~~~-~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f 69 (84)
T PF13732_consen 26 LEELPGVESVEQDG-DGKLRIKLEDEETANELLQELIEKGI-IRSF 69 (84)
T ss_pred HhhCCCeEEEEEeC-CcEEEEEECCcccHHHHHHHHHhCCC-eeEE
Confidence 77889999887643 44344 4455678899999999988 5543
No 39
>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=57.49 E-value=16 Score=26.09 Aligned_cols=33 Identities=30% Similarity=0.558 Sum_probs=22.1
Q ss_pred EEEEEcCcCHhH------HHHHHHHHhCCCCceEEEEec
Q 032170 26 VDIKVKMDCDGC------ERKVRNAVSSIRGAKSVEVNR 58 (146)
Q Consensus 26 ~~l~V~m~C~~C------~~~i~~~L~~~~GV~~v~vd~ 58 (146)
+.+.+.+..++| ...|+.+|.+++||.++++++
T Consensus 115 V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 115 VDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 444444444444 345888999999999887764
No 40
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=57.44 E-value=38 Score=24.53 Aligned_cols=46 Identities=24% Similarity=0.244 Sum_probs=33.0
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCE-------------------EEEEec---CCHHHHHHHHHh
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSR-------------------VTVTGY---VDPNKVLKKVKS 80 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~i~~~i~~ 80 (146)
.+|-.-++..+.+++||.++.+-...+. |.|..+ ++.++|++..-+
T Consensus 15 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff~ 82 (186)
T PRK13014 15 GGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFFS 82 (186)
T ss_pred cCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHHH
Confidence 5677778888999999999998665543 444433 677888876643
No 41
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=56.41 E-value=59 Score=24.13 Aligned_cols=46 Identities=17% Similarity=0.133 Sum_probs=33.6
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCE-------------------EEEEec---CCHHHHHHHHHh
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSR-------------------VTVTGY---VDPNKVLKKVKS 80 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~i~~~i~~ 80 (146)
.+|-.-+|..+.+++||.++.+-...+. |.|..+ ++.++|++..-+
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff~ 119 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFWE 119 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHH
Confidence 6788888889999999999998766331 344433 677888877643
No 42
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=55.40 E-value=24 Score=23.33 Aligned_cols=20 Identities=35% Similarity=0.536 Sum_probs=17.3
Q ss_pred HHHHHHHHhCCCCceEEEEe
Q 032170 38 ERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd 57 (146)
...++.+|..++||.+++++
T Consensus 69 ~~~v~~al~~~~~v~~v~V~ 88 (111)
T COG2151 69 ADQVEAALEEIPGVEDVEVE 88 (111)
T ss_pred HHHHHHHHHhcCCcceEEEE
Confidence 67889999999999888775
No 43
>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=52.96 E-value=58 Score=23.63 Aligned_cols=50 Identities=18% Similarity=0.156 Sum_probs=37.4
Q ss_pred cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEEec
Q 032170 31 KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVT--GYVDPNKVLKKVKSTGKRAEFWP 89 (146)
Q Consensus 31 ~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~~ 89 (146)
|+.|+.-.-+.+++|.+++. .+.++|. .....+.|.+.++..|+++....
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~~~G~~v~~~e 56 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFATSLGYEVEVEE 56 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 88999999999999998852 2233443 23566789999999999887543
No 44
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=52.13 E-value=78 Score=24.55 Aligned_cols=27 Identities=26% Similarity=0.309 Sum_probs=21.9
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCC
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQS 61 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~ 61 (146)
.+|-.-++..+.+++||.++.+-...+
T Consensus 134 gGCFWg~E~~F~~~~GV~~t~vGYagG 160 (283)
T PRK05550 134 GGCFWGVEYYFKKLPGVLSVESGYTGG 160 (283)
T ss_pred cCCchhhhhhHhhCcCEEEEEEeeCCC
Confidence 577888888999999999999865443
No 45
>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=48.99 E-value=58 Score=20.33 Aligned_cols=41 Identities=24% Similarity=0.283 Sum_probs=28.5
Q ss_pred HHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHhc
Q 032170 39 RKVRNAVSSIRGAKSVEVNRKQSRVTVT--GYVDPNKVLKKVKST 81 (146)
Q Consensus 39 ~~i~~~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~~ 81 (146)
.-+-+.|-+++||.+|-+. .+=++|+ ...+++.|...|...
T Consensus 37 spLA~~Lf~i~gV~~Vf~~--~dfItVtK~~~~~W~~l~~~I~~~ 79 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIG--DDFITVTKNPDADWEDLKPEIREV 79 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEE--TTEEEEEE-TTS-HHHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEE--CCEEEEeeCCCCCHHHHHHHHHHH
Confidence 4455556699999987664 6677776 458999998888643
No 46
>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=47.68 E-value=28 Score=21.94 Aligned_cols=36 Identities=25% Similarity=0.390 Sum_probs=23.0
Q ss_pred eEEEEEE-cCcCHhH---HHHHHHHHhCCCCceEEEEecC
Q 032170 24 QTVDIKV-KMDCDGC---ERKVRNAVSSIRGAKSVEVNRK 59 (146)
Q Consensus 24 ~~~~l~V-~m~C~~C---~~~i~~~L~~~~GV~~v~vd~~ 59 (146)
-.+.+.+ .-.|... ...++.+|..++|+.++++++.
T Consensus 39 v~i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 39 VDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred EEEEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEEEE
Confidence 3344555 3344433 3457888989999998888754
No 47
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=47.42 E-value=70 Score=20.61 Aligned_cols=52 Identities=17% Similarity=0.258 Sum_probs=35.3
Q ss_pred cchhhhhcccccCc--------CCCCCCCceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEE
Q 032170 2 GVLDHLFDLFETTP--------RGKKRKPMQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVE 55 (146)
Q Consensus 2 ~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~ 55 (146)
|+|..++++|.-.. .....+...++++-+. . +.-..+|.+.|+++..|..+.
T Consensus 20 GVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~-~-~~~i~Qi~kQL~KLidVikV~ 79 (96)
T PRK08178 20 GVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVN-D-DQRLEQMISQIEKLEDVLKVR 79 (96)
T ss_pred CHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEc-C-chHHHHHHHHHhCCcCEEEEE
Confidence 78888888885421 1234555677777664 2 567788888899988876654
No 48
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=46.84 E-value=61 Score=19.28 Aligned_cols=56 Identities=13% Similarity=0.029 Sum_probs=36.5
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCC-ceEEEEecCCCEEEEE----ec-CCHHHHHHHHHh
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRG-AKSVEVNRKQSRVTVT----GY-VDPNKVLKKVKS 80 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~G-V~~v~vd~~~~~v~V~----~~-~~~~~i~~~i~~ 80 (146)
.+.+.+ |.+.++-...+.+.|....+ +.+++.....+..+.. +. .+.+++.+.|++
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~ 64 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEE 64 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHH
Confidence 467888 99999999999999999866 5566666666665432 22 244556666654
No 49
>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=46.79 E-value=15 Score=20.97 Aligned_cols=29 Identities=31% Similarity=0.414 Sum_probs=13.9
Q ss_pred HHHHHHhCC---CCceEEEEecCCCEEEEEecC
Q 032170 40 KVRNAVSSI---RGAKSVEVNRKQSRVTVTGYV 69 (146)
Q Consensus 40 ~i~~~L~~~---~GV~~v~vd~~~~~v~V~~~~ 69 (146)
+|+.+|... ++- .+.+....+.+++.|.+
T Consensus 3 ~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v 34 (64)
T PF04972_consen 3 KVRAALRADPWLPDS-NISVSVENGVVTLSGEV 34 (64)
T ss_dssp ----------CTT-T-TEEEEEECTEEEEEEEE
T ss_pred ccccccccccccCCC-eEEEEEECCEEEEEeeC
Confidence 556666653 333 56777788888888874
No 50
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=46.50 E-value=56 Score=18.88 Aligned_cols=34 Identities=21% Similarity=0.263 Sum_probs=20.4
Q ss_pred ceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEEE
Q 032170 23 MQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 23 ~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~v 56 (146)
...+.|.+...-..-...+.+.|++++||...++
T Consensus 39 ~~~~~~~vev~~~~~l~~i~~~L~~i~gV~~~~~ 72 (74)
T cd04887 39 YTVRDITVDAPSEEHAETIVAAVRALPEVKVLSV 72 (74)
T ss_pred EEEEEEEEEcCCHHHHHHHHHHHhcCCCeEEEEe
Confidence 3344455544445555667777888888765443
No 51
>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=45.30 E-value=35 Score=20.14 Aligned_cols=17 Identities=18% Similarity=0.319 Sum_probs=9.2
Q ss_pred HHHHHHHHhCCCCceEE
Q 032170 38 ERKVRNAVSSIRGAKSV 54 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v 54 (146)
-..+-+.|++++||.+|
T Consensus 51 L~~li~~L~~i~gV~~V 67 (74)
T cd04877 51 LQTLMPEIRRIDGVEDV 67 (74)
T ss_pred HHHHHHHHhCCCCceEE
Confidence 34555555666665554
No 52
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=44.37 E-value=33 Score=24.13 Aligned_cols=46 Identities=20% Similarity=0.254 Sum_probs=32.8
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCE--------------EEEEec---CCHHHHHHHHHh
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSR--------------VTVTGY---VDPNKVLKKVKS 80 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~--------------v~V~~~---~~~~~i~~~i~~ 80 (146)
.+|-.-+|..+.+++||.++.+-...+. |.|..+ ++.++|++..-+
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f~~ 70 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYLFE 70 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHHHH
Confidence 5788888999999999999998654432 334432 677888876643
No 53
>PRK09577 multidrug efflux protein; Reviewed
Probab=42.09 E-value=90 Score=28.60 Aligned_cols=46 Identities=11% Similarity=0.142 Sum_probs=35.6
Q ss_pred HHHHHHHHhCCCCceEEEEecCCCEEEEE--------ecCCHHHHHHHHHhcCC
Q 032170 38 ERKVRNAVSSIRGAKSVEVNRKQSRVTVT--------GYVDPNKVLKKVKSTGK 83 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd~~~~~v~V~--------~~~~~~~i~~~i~~~G~ 83 (146)
...++..|.+++||.+|+++-....+.|. ..++..+|.++|+....
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n~ 211 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHNA 211 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhCC
Confidence 46789999999999999998765556664 12788889999986543
No 54
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=41.28 E-value=9.7 Score=31.50 Aligned_cols=52 Identities=15% Similarity=0.244 Sum_probs=37.1
Q ss_pred cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEE
Q 032170 31 KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEF 87 (146)
Q Consensus 31 ~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~ 87 (146)
+|.|..- ..-.|..++-| +++|.+..+++|+.-+...+|++.+.+.|+....
T Consensus 87 ~l~ctdg---~lisl~~lnkV--v~~dpe~~tvTV~aGirlrQLie~~~~~GlsL~~ 138 (518)
T KOG4730|consen 87 KLVCTDG---LLISLDKLNKV--VEFDPELKTVTVQAGIRLRQLIEELAKLGLSLPN 138 (518)
T ss_pred cceeccc---cEEEhhhhccc--eeeCchhceEEeccCcCHHHHHHHHHhcCccccC
Confidence 6677665 22223334444 4568888899999888999999999999987544
No 55
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=40.31 E-value=99 Score=19.81 Aligned_cols=46 Identities=17% Similarity=0.252 Sum_probs=31.9
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCEEEEE-ecCCHHHHHHHHHhc
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSRVTVT-GYVDPNKVLKKVKST 81 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~-~~~~~~~i~~~i~~~ 81 (146)
+.=...|+.+|..++|++--.-|.. +++.|. -..+...+.+.++..
T Consensus 17 pe~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie~i 63 (94)
T COG3062 17 PERLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIESI 63 (94)
T ss_pred HHHHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHHHH
Confidence 4456789999999999976666655 666554 335666777777643
No 56
>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=39.63 E-value=1.3e+02 Score=21.11 Aligned_cols=31 Identities=13% Similarity=0.210 Sum_probs=26.7
Q ss_pred hHHHHHHHHHhCCCCceEEEEecCCCEEEEE
Q 032170 36 GCERKVRNAVSSIRGAKSVEVNRKQSRVTVT 66 (146)
Q Consensus 36 ~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~ 66 (146)
.=+.+|.+.+.+++||.++.+-.....+.|-
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 5688999999999999999988888887664
No 57
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=38.82 E-value=27 Score=20.96 Aligned_cols=21 Identities=14% Similarity=0.384 Sum_probs=17.1
Q ss_pred cCcCHhHHHHHHHHHhCCCCc
Q 032170 31 KMDCDGCERKVRNAVSSIRGA 51 (146)
Q Consensus 31 ~m~C~~C~~~i~~~L~~~~GV 51 (146)
-|.|+.|..+..+++++-.=.
T Consensus 15 tLPC~~Cr~HA~~ai~kNNiM 35 (70)
T PF04805_consen 15 TLPCPECRIHAKEAIQKNNIM 35 (70)
T ss_pred cCCCHHHHHHHHHHHHhcCcc
Confidence 578999999999999875433
No 58
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=38.34 E-value=32 Score=23.53 Aligned_cols=45 Identities=27% Similarity=0.396 Sum_probs=29.3
Q ss_pred CHhHHHHHHHHHhCCCCceEEEEecCCC-EEEEEecCCHHHHHHHHHhc
Q 032170 34 CDGCERKVRNAVSSIRGAKSVEVNRKQS-RVTVTGYVDPNKVLKKVKST 81 (146)
Q Consensus 34 C~~C~~~i~~~L~~~~GV~~v~vd~~~~-~v~V~~~~~~~~i~~~i~~~ 81 (146)
..+|.+++-++|.++ .-|+.+...+ +++-.|..+.++|...|...
T Consensus 96 s~~i~rkvlQ~Le~~---~~ve~hp~gGR~lt~~GqrdldrIa~~i~~~ 141 (143)
T KOG3411|consen 96 SGGIARKVLQALEKM---GIVEKHPKGGRRLTEQGQRDLDRIAGQIREE 141 (143)
T ss_pred ccHHHHHHHHHHHhC---CceeeCCCCcceeCcccchhHHHHHHHHHhc
Confidence 356777776666655 3455565554 45555888999998887643
No 59
>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=38.12 E-value=39 Score=21.34 Aligned_cols=22 Identities=36% Similarity=0.558 Sum_probs=19.2
Q ss_pred hHHHHHHHHHhCCCCceEEEEe
Q 032170 36 GCERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 36 ~C~~~i~~~L~~~~GV~~v~vd 57 (146)
+-...++.++++++||.++++.
T Consensus 62 g~td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 62 GGTEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred cChHHHHHHHhcCCCccEEEEE
Confidence 5568999999999999998875
No 60
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=37.43 E-value=1.1e+02 Score=28.11 Aligned_cols=44 Identities=11% Similarity=0.243 Sum_probs=33.9
Q ss_pred HHHHHHHHhCCCCceEEEEecCCCEEEEEe--------cCCHHHHHHHHHhc
Q 032170 38 ERKVRNAVSSIRGAKSVEVNRKQSRVTVTG--------YVDPNKVLKKVKST 81 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--------~~~~~~i~~~i~~~ 81 (146)
+..++..|++++||.++++......+.|.- .++..+|..+|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 466889999999999999986555566652 27888899999853
No 61
>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=36.57 E-value=1.1e+02 Score=19.13 Aligned_cols=58 Identities=21% Similarity=0.173 Sum_probs=39.2
Q ss_pred EEEEEEcCcCHhHHHHHHHHHhCCCC-ceEEEEecCCCEEEEEecCCHHHHHHHHHhcCC
Q 032170 25 TVDIKVKMDCDGCERKVRNAVSSIRG-AKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGK 83 (146)
Q Consensus 25 ~~~l~V~m~C~~C~~~i~~~L~~~~G-V~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~ 83 (146)
|+.=+|.-+=..+...+.+.|....+ -..+.++..++.+.|.|+. ..+|.+.|...||
T Consensus 29 T~IrkI~GD~~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~-~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 29 TVIRKIEGDIWALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDH-VEEVKKWLLEKGF 87 (87)
T ss_pred EEEEeecCCHHHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCcc-HHHHHHHHHHCcC
Confidence 33334533445566667776654433 2367888899999999984 6778888888776
No 62
>PF02672 CP12: CP12 domain; InterPro: IPR003823 This entry represents an uncharacterised domain in proteins of unknown function. This domain is found associated with CBS domains in some proteins IPR000644 from INTERPRO.; PDB: 3B1K_I 3B1J_D 3RVD_N 3QV1_I 2LJ9_A.
Probab=35.97 E-value=9.1 Score=23.21 Aligned_cols=15 Identities=47% Similarity=0.953 Sum_probs=11.6
Q ss_pred cccCCccCCCCC--ccc
Q 032170 131 LTTLFSDENPNA--CSI 145 (146)
Q Consensus 131 ~~~~fsdeNPna--CsI 145 (146)
..-.|+|+||.| |-|
T Consensus 52 ~lE~yC~~nPea~Ecrv 68 (71)
T PF02672_consen 52 PLELYCDENPEADECRV 68 (71)
T ss_dssp CHHHHHHHSTTSTTTTT
T ss_pred HHHHHHHHCCCcHHhhh
Confidence 355899999997 765
No 63
>PRK11023 outer membrane lipoprotein; Provisional
Probab=35.39 E-value=1.1e+02 Score=22.00 Aligned_cols=47 Identities=28% Similarity=0.302 Sum_probs=34.1
Q ss_pred cCHhHHHHHHHHHhCCCCce---EEEEecCCCEEEEEecCCHHHHHHHHH
Q 032170 33 DCDGCERKVRNAVSSIRGAK---SVEVNRKQSRVTVTGYVDPNKVLKKVK 79 (146)
Q Consensus 33 ~C~~C~~~i~~~L~~~~GV~---~v~vd~~~~~v~V~~~~~~~~i~~~i~ 79 (146)
.-..=..+|+.+|..-+++. .+++....+.|++.|.++.+.......
T Consensus 46 dD~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~ 95 (191)
T PRK11023 46 DDGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAK 95 (191)
T ss_pred hhHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHH
Confidence 44566789999998877664 577778899999999865554444443
No 64
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=34.94 E-value=78 Score=20.06 Aligned_cols=34 Identities=26% Similarity=0.450 Sum_probs=24.2
Q ss_pred eEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEe
Q 032170 24 QTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 24 ~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd 57 (146)
..+.+.+ --.-.+-...++.+|+.++||.++++-
T Consensus 49 kal~l~vvv~D~Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 49 KALKLYVVVEDKEGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred eeEEEEEEEcccccCcHHHHHHHhhccCcceEEEE
Confidence 3344555 333455678999999999999988764
No 65
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=34.26 E-value=1.6e+02 Score=20.57 Aligned_cols=87 Identities=14% Similarity=0.172 Sum_probs=51.6
Q ss_pred cchhhhhcccccCc--------CCCCCCCceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCE-----EEEE-
Q 032170 2 GVLDHLFDLFETTP--------RGKKRKPMQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSR-----VTVT- 66 (146)
Q Consensus 2 ~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~-----v~V~- 66 (146)
|.|..++++|.--. ..........+++.| + .+.-...+.+.|+++-.|..|..--.... +.+.
T Consensus 13 GvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~--d~~~i~qi~kQl~Kli~V~~V~~~~~~~~v~rEl~LiKv 90 (157)
T TIGR00119 13 GVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVG--DDKVLEQITKQLNKLVDVIKVSDLTESAIVERELCLVKV 90 (157)
T ss_pred cHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEEC--CHHHHHHHHHHHhcCccEEEEEecCCCcceeeEEEEEEE
Confidence 66777777764321 122334566788888 6 47889999999999999988764222221 2222
Q ss_pred -ec-CCHHHHHHHHHhcCCceEEeccCC
Q 032170 67 -GY-VDPNKVLKKVKSTGKRAEFWPYVP 92 (146)
Q Consensus 67 -~~-~~~~~i~~~i~~~G~~~~~~~~~~ 92 (146)
.. .+..++.+.++.. ++.++..++
T Consensus 91 ~~~~~~r~~i~~i~~~f--~a~ivdv~~ 116 (157)
T TIGR00119 91 SAPGEGRDEIIRLTNIF--RGRIVDVSP 116 (157)
T ss_pred ECCccCHHHHHHHHHHh--CCEEEEecC
Confidence 22 3455666666544 455544433
No 66
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=33.45 E-value=75 Score=20.32 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=19.6
Q ss_pred HhCCCCceEEEEecCCCEEEEEe
Q 032170 45 VSSIRGAKSVEVNRKQSRVTVTG 67 (146)
Q Consensus 45 L~~~~GV~~v~vd~~~~~v~V~~ 67 (146)
+...+|++.+++..+++++.|.+
T Consensus 36 vas~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 36 VASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EEecCCceEEEEecccceEEEec
Confidence 34568999999999999999985
No 67
>PRK07334 threonine dehydratase; Provisional
Probab=33.01 E-value=2.6e+02 Score=22.50 Aligned_cols=64 Identities=14% Similarity=0.156 Sum_probs=41.4
Q ss_pred EEEEEE-cCcCHhHHHHHHHHHhCCCC-ceEEEEecC-----CCEEEEE--e----cCCHHHHHHHHHhcCCceEEe
Q 032170 25 TVDIKV-KMDCDGCERKVRNAVSSIRG-AKSVEVNRK-----QSRVTVT--G----YVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 25 ~~~l~V-~m~C~~C~~~i~~~L~~~~G-V~~v~vd~~-----~~~v~V~--~----~~~~~~i~~~i~~~G~~~~~~ 88 (146)
.+.|.| ..+-.+=-..|-+.|+..+. |.+++.... .+...+. - ....+.|++.|++.||.+.++
T Consensus 326 ~v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~ 402 (403)
T PRK07334 326 LARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLV 402 (403)
T ss_pred EEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeC
Confidence 357777 66667777888888876522 455554422 3443333 1 134568999999999998875
No 68
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=32.39 E-value=1e+02 Score=17.77 Aligned_cols=52 Identities=17% Similarity=0.247 Sum_probs=31.2
Q ss_pred cchhhhhcccccCc--------CCCCCCCceEEEEEEcCcCHhHHHHHHHHHhCCCCceEE
Q 032170 2 GVLDHLFDLFETTP--------RGKKRKPMQTVDIKVKMDCDGCERKVRNAVSSIRGAKSV 54 (146)
Q Consensus 2 ~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v 54 (146)
|+|..++++|.-.. .....+...++++.+.-+ +.....+.+.|+++-.|.+|
T Consensus 4 GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~~-~~~i~~l~~Ql~KlidV~~V 63 (63)
T PF13710_consen 4 GVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVSGD-DREIEQLVKQLEKLIDVVKV 63 (63)
T ss_dssp THHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEES--CCHHHHHHHHHHCSTTEEEE
T ss_pred HHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEeeC-chhHHHHHHHHhccCCeEeC
Confidence 67777777774320 112344556666666212 55667788889988887654
No 69
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=32.32 E-value=1.6e+02 Score=19.93 Aligned_cols=48 Identities=19% Similarity=0.304 Sum_probs=32.2
Q ss_pred HHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHH-----hcCCceEE
Q 032170 39 RKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVK-----STGKRAEF 87 (146)
Q Consensus 39 ~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~-----~~G~~~~~ 87 (146)
..++..|.++ |-.+|+.-+..+.+.+....+.+++...|+ ..|+.+.+
T Consensus 22 aeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~v 74 (137)
T PF08002_consen 22 AELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGFDVPV 74 (137)
T ss_dssp HHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT---E
T ss_pred HHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCCCeEE
Confidence 4556666666 889999999999999997677777776665 55777654
No 70
>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=32.25 E-value=65 Score=19.10 Aligned_cols=11 Identities=18% Similarity=0.425 Sum_probs=8.3
Q ss_pred EcCcCHhHHHH
Q 032170 30 VKMDCDGCERK 40 (146)
Q Consensus 30 V~m~C~~C~~~ 40 (146)
++..|+.|...
T Consensus 6 ~~~~C~~C~~~ 16 (76)
T PF13192_consen 6 FSPGCPYCPEL 16 (76)
T ss_dssp ECSSCTTHHHH
T ss_pred eCCCCCCcHHH
Confidence 47789999743
No 71
>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=31.93 E-value=1.2e+02 Score=19.76 Aligned_cols=57 Identities=19% Similarity=0.419 Sum_probs=29.0
Q ss_pred EEE-cC-cCHhHH-HHHHHHHhC--CCCceEEEEecCCCEEEEE--ec-CCHHHHHHHHHhc-CCceE
Q 032170 28 IKV-KM-DCDGCE-RKVRNAVSS--IRGAKSVEVNRKQSRVTVT--GY-VDPNKVLKKVKST-GKRAE 86 (146)
Q Consensus 28 l~V-~m-~C~~C~-~~i~~~L~~--~~GV~~v~vd~~~~~v~V~--~~-~~~~~i~~~i~~~-G~~~~ 86 (146)
+.+ +| +|.+|- .++...+.. ..|++.+-+. +-...=. +. -..+++.+.|++. |.++.
T Consensus 38 ~elvgf~~CgGCpg~~~~~~~~~l~~~~~d~IHls--sC~~~~~~~~~CP~~~~~~~~I~~~~gi~VV 103 (107)
T PF08821_consen 38 VELVGFFTCGGCPGRKLVRRIKKLKKNGADVIHLS--SCMVKGNPHGPCPHIDEIKKIIEEKFGIEVV 103 (107)
T ss_pred eEEEEEeeCCCCChhHHHHHHHHHHHCCCCEEEEc--CCEecCCCCCCCCCHHHHHHHHHHHhCCCEe
Confidence 566 77 899873 223222222 2455533222 2111100 11 3578899999877 87554
No 72
>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=31.72 E-value=87 Score=20.90 Aligned_cols=29 Identities=24% Similarity=0.344 Sum_probs=24.0
Q ss_pred EEEEecCCHHHHHHHHHhcCCceEEeccC
Q 032170 63 VTVTGYVDPNKVLKKVKSTGKRAEFWPYV 91 (146)
Q Consensus 63 v~V~~~~~~~~i~~~i~~~G~~~~~~~~~ 91 (146)
+.|+|+.+...+++.+++.|+++.+++..
T Consensus 104 vLvSgD~Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 104 VLVSGDSDFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred EEEECCccHHHHHHHHHHcCCEEEEEccC
Confidence 34567888999999999999999998854
No 73
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=30.92 E-value=1.6e+02 Score=19.29 Aligned_cols=40 Identities=20% Similarity=0.430 Sum_probs=30.2
Q ss_pred CCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEE
Q 032170 47 SIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEF 87 (146)
Q Consensus 47 ~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~ 87 (146)
+..|+..+++. ..+..+|-|.--.+++++.+.+.|..+..
T Consensus 39 Rt~GirqfEi~-n~G~~RI~gYk~se~~~~~f~slG~~~K~ 78 (103)
T PF09158_consen 39 RTKGIRQFEIR-NKGEFRIFGYKMSEEIIKKFTSLGMEVKQ 78 (103)
T ss_dssp EETTEEEEEEE-TTSEEEEEEES--HHHHHHHHHTT-EEEE
T ss_pred ccCceeEEEEe-cCCcEEEEEEcCCHHHHHHHHhcCcEEEE
Confidence 34788888875 67788888887788999999999988776
No 74
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.31 E-value=1.4e+02 Score=22.30 Aligned_cols=38 Identities=21% Similarity=0.455 Sum_probs=27.6
Q ss_pred ceEEEEEE--cCcCHhH---HHHHHHHHhCCCCceEEEEecCC
Q 032170 23 MQTVDIKV--KMDCDGC---ERKVRNAVSSIRGAKSVEVNRKQ 60 (146)
Q Consensus 23 ~~~~~l~V--~m~C~~C---~~~i~~~L~~~~GV~~v~vd~~~ 60 (146)
+.++++.| ..-|+-| .+.+++++...++-..+++....
T Consensus 3 ~~~i~I~v~sD~vCPwC~ig~~rL~ka~~~~~~~~~v~i~w~p 45 (225)
T COG2761 3 PMKIEIDVFSDVVCPWCYIGKRRLEKALAEYPQEVRVEIRWRP 45 (225)
T ss_pred CceEEEEEEeCCcCchhhcCHHHHHHHHHhcCcceeEEEEecc
Confidence 44566666 8999999 68899999988864466665433
No 75
>PRK11023 outer membrane lipoprotein; Provisional
Probab=30.19 E-value=1.7e+02 Score=20.97 Aligned_cols=39 Identities=26% Similarity=0.323 Sum_probs=25.2
Q ss_pred HHHHHHHHHhCCCCceE--EEEecCCCEEEEEecCCHHHHH
Q 032170 37 CERKVRNAVSSIRGAKS--VEVNRKQSRVTVTGYVDPNKVL 75 (146)
Q Consensus 37 C~~~i~~~L~~~~GV~~--v~vd~~~~~v~V~~~~~~~~i~ 75 (146)
=..+|+.+|..-+++.. +++.-.++.|++.|.++.++..
T Consensus 128 It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e~~ 168 (191)
T PRK11023 128 ITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQREAK 168 (191)
T ss_pred HHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHHHH
Confidence 56677777777666654 4444557777777776655443
No 76
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=30.13 E-value=1.7e+02 Score=26.96 Aligned_cols=43 Identities=16% Similarity=0.296 Sum_probs=33.3
Q ss_pred HHHHHHHhCCCCceEEEEecCCCEEEEEe--------cCCHHHHHHHHHhc
Q 032170 39 RKVRNAVSSIRGAKSVEVNRKQSRVTVTG--------YVDPNKVLKKVKST 81 (146)
Q Consensus 39 ~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--------~~~~~~i~~~i~~~ 81 (146)
..++..|.+++||.++++.-....+.|.- .++..+|..+|+..
T Consensus 160 ~~l~~~L~~v~GV~~V~~~G~~~ei~V~vDp~kl~~~gls~~~V~~~l~~~ 210 (1049)
T PRK15127 160 ANMKDPISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVINAIKAQ 210 (1049)
T ss_pred HHHHHHHhcCCCceEEEEcCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 56889999999999999876655566651 27888889998844
No 77
>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=29.96 E-value=1.7e+02 Score=26.94 Aligned_cols=43 Identities=14% Similarity=0.283 Sum_probs=33.9
Q ss_pred HHHHHHHHhCCCCceEEEEecCCCEEEEEe--------cCCHHHHHHHHHh
Q 032170 38 ERKVRNAVSSIRGAKSVEVNRKQSRVTVTG--------YVDPNKVLKKVKS 80 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~--------~~~~~~i~~~i~~ 80 (146)
...++..|.+++||.++++......+.|.- .++..+|.+.|+.
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 356899999999999999987755566652 2788889999986
No 78
>PF01625 PMSR: Peptide methionine sulfoxide reductase; InterPro: IPR002569 Peptide methionine sulphoxide reductase (Msr) reverses the inactivation of many proteins due to the oxidation of critical methionine residues by reducing methionine sulphoxide, Met(O), to methionine []. It is present in most living organisms, and the cognate structural gene belongs to the so-called minimum gene set [, ]. The domains: MsrA and MsrB, reduce different epimeric forms of methionine sulphoxide. This group represent MsrA, the crystal structure of which has been determined in a number of organisms. In Mycobacterium tuberculosis, the MsrA structure has been determined to 1.5 Angstrom resolution []. In contrast to the three catalytic cysteine residues found in previously characterised MsrA structures, M. tuberculosis MsrA represents a class containing only two functional cysteine residues. The overall structure shows no resemblance to the structures of MsrB (IPR002579 from INTERPRO) from other organisms; though the active sites show approximate mirror symmetry. In each case, conserved amino acid motifs mediate the stereo-specific recognition and reduction of the substrate. In a number of pathogenic bacteria including Neisseria gonorrhoeae, the MsrA and MsrB domains are fused; the MsrA being N-terminal to MsrB. This arrangement is reversed in Treponema pallidum. In N. gonorrhoeae and Neisseria meningitidis a thioredoxin domain is fused to the N terminus. This may function to reduce the active sites of the downstream MsrA and MsrB domains. ; GO: 0016671 oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor, 0019538 protein metabolic process, 0055114 oxidation-reduction process; PDB: 2GT3_A 1FF3_B 2IEM_A 3E0M_D 2J89_A 3PIN_B 3PIM_B 3PIL_B 2L90_A 3BQF_A ....
Probab=29.01 E-value=63 Score=22.60 Aligned_cols=27 Identities=26% Similarity=0.339 Sum_probs=22.3
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCC
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQS 61 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~ 61 (146)
.+|-..++..+.+++||.++.+-...+
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG 33 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGG 33 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESS
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCC
Confidence 468888899999999999999865444
No 79
>PHA03005 sulfhydryl oxidase; Provisional
Probab=28.97 E-value=47 Score=21.27 Aligned_cols=21 Identities=19% Similarity=0.517 Sum_probs=17.4
Q ss_pred cCcCHhHHHHHHHHHhCCCCc
Q 032170 31 KMDCDGCERKVRNAVSSIRGA 51 (146)
Q Consensus 31 ~m~C~~C~~~i~~~L~~~~GV 51 (146)
-+.|+.|..+..+++++-.=.
T Consensus 40 tLPC~~Cr~HA~~ai~knnim 60 (96)
T PHA03005 40 TLPCPACRRHAKEAIEKNNIM 60 (96)
T ss_pred cCCCHHHHHHHHHHHhhcCcc
Confidence 789999999999999874433
No 80
>PF04461 DUF520: Protein of unknown function (DUF520); InterPro: IPR007551 This entry represents the UPF0234 family of uncharacterised proteins.; PDB: 1IN0_A.
Probab=28.51 E-value=2e+02 Score=20.34 Aligned_cols=59 Identities=22% Similarity=0.244 Sum_probs=35.8
Q ss_pred ceEEEEEE--cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCc
Q 032170 23 MQTVDIKV--KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKR 84 (146)
Q Consensus 23 ~~~~~l~V--~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~ 84 (146)
..+..+++ |+.-+. +.+|-+.+... +. .|........++|+|. -+..+++..|+...+.
T Consensus 89 ~vrq~i~lk~GI~~d~-AKkIvK~IKd~-kl-KVqa~IQgd~vRVtgKkrDDLQ~viallk~~d~~ 151 (160)
T PF04461_consen 89 TVRQVIKLKQGIDQDT-AKKIVKLIKDS-KL-KVQAQIQGDQVRVTGKKRDDLQEVIALLKEQDLG 151 (160)
T ss_dssp EEEEEEEE--S--HHH-HHHHHHHHHHH----SEEEEEETTEEEEEES-HHHHHHHHHHHHHS--S
T ss_pred EEEEEEEeecccCHHH-HHHHHHHHHhc-CC-ceeEEecCcEEEEecCCHHHHHHHHHHHHcccCC
Confidence 33444555 666544 46777766543 22 2777788999999986 5777888888866543
No 81
>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=28.24 E-value=69 Score=18.65 Aligned_cols=41 Identities=10% Similarity=0.159 Sum_probs=23.9
Q ss_pred HHHHHHhCCCCceEEEEec----CCCEEEEEe-cCCHHHHHHHHHh
Q 032170 40 KVRNAVSSIRGAKSVEVNR----KQSRVTVTG-YVDPNKVLKKVKS 80 (146)
Q Consensus 40 ~i~~~L~~~~GV~~v~vd~----~~~~v~V~~-~~~~~~i~~~i~~ 80 (146)
.||.+|.+.+||.++.+-. ..+...+.. ..+.++|.+.+++
T Consensus 1 EIE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~~~~~i~~~~~~ 46 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVLDEEEIRDHLRD 46 (73)
T ss_dssp HHHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEEHHHHHHHHHHH
T ss_pred CHHHHHhcCCCccEEEEEEEEcccccccceeEEEeeecccccchhh
Confidence 3789999999998876532 122221111 1144667777764
No 82
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=28.04 E-value=1.2e+02 Score=17.14 Aligned_cols=31 Identities=16% Similarity=0.147 Sum_probs=20.3
Q ss_pred CceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEE
Q 032170 22 PMQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 22 ~~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~v 56 (146)
....+.+++ +.. ...+.+.|++++||..+.+
T Consensus 39 ~~~~~~i~v~~~~----~~~~~~~l~~~~~v~~v~~ 70 (73)
T cd04902 39 GEALMVLSVDEPV----PDEVLEELRALPGILSAKV 70 (73)
T ss_pred CEEEEEEEeCCCC----CHHHHHHHHcCCCccEEEE
Confidence 344566777 432 3377777888899877654
No 83
>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=27.94 E-value=1.2e+02 Score=25.82 Aligned_cols=39 Identities=18% Similarity=0.331 Sum_probs=30.4
Q ss_pred HhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCce
Q 032170 45 VSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRA 85 (146)
Q Consensus 45 L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~ 85 (146)
|..+.+| +.+|..+++++|.+-+...+|.+.|.+.|+..
T Consensus 110 L~~ln~V--l~vD~~~~tVtV~AG~~l~~L~~~L~~~Glal 148 (541)
T TIGR01676 110 LALMDKV--LEVDEEKKRVRVQAGIRVQQLVDAIKEYGITL 148 (541)
T ss_pred hhhCCCC--EEEcCCCCEEEEcCCCCHHHHHHHHHHcCCEe
Confidence 3445555 36677888999998789999999999999754
No 84
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=27.85 E-value=87 Score=22.50 Aligned_cols=34 Identities=21% Similarity=0.218 Sum_probs=24.5
Q ss_pred ceEEEEEEcCcCHhHHHHHHHHHhCCCCceEEEEecCCC
Q 032170 23 MQTVDIKVKMDCDGCERKVRNAVSSIRGAKSVEVNRKQS 61 (146)
Q Consensus 23 ~~~~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~ 61 (146)
++++.|. .+|-.=+++.+.+++||.++.+-...+
T Consensus 6 ~~~a~fa-----gGCFWg~E~~f~~i~GV~~t~~GYagG 39 (174)
T COG0225 6 MEKAYFA-----GGCFWGVEAYFEQIPGVLSTVSGYAGG 39 (174)
T ss_pred cEEEEEe-----ccCccchHHHHhhCCCeEEEeeeEcCC
Confidence 4444444 567777888899999999998754433
No 85
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=27.85 E-value=1.2e+02 Score=16.83 Aligned_cols=31 Identities=13% Similarity=0.179 Sum_probs=19.3
Q ss_pred CceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEE
Q 032170 22 PMQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSV 54 (146)
Q Consensus 22 ~~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v 54 (146)
....+.+.+ ... .=...+.+.|++++||.+|
T Consensus 40 ~~~~~~~~~~~~~--~~~~~l~~~l~~~~~v~~v 71 (72)
T cd04878 40 GISRITIVVEGDD--DVIEQIVKQLNKLVDVLKV 71 (72)
T ss_pred CeEEEEEEEECCH--HHHHHHHHHHhCCccEEEe
Confidence 344566666 333 3345666778888888765
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=27.77 E-value=74 Score=23.25 Aligned_cols=20 Identities=30% Similarity=0.523 Sum_probs=17.4
Q ss_pred HHHHHHHHhCCCCceEEEEe
Q 032170 38 ERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd 57 (146)
...+++.|+.++||.+++|.
T Consensus 117 e~eL~~tI~~i~gV~~A~V~ 136 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVH 136 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEE
T ss_pred HHHHHHHHHcCCCeeEEEEE
Confidence 56788999999999998886
No 87
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=27.32 E-value=74 Score=20.10 Aligned_cols=23 Identities=35% Similarity=0.596 Sum_probs=20.0
Q ss_pred HhHHHHHHHHHhCCCCceEEEEe
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd 57 (146)
..-...++.++++++||.++++.
T Consensus 61 ~~~td~lee~i~~~e~Vqsvei~ 83 (88)
T PRK00435 61 EGGTEPVEEAFANVEGVESVEVE 83 (88)
T ss_pred CcCcHHHHHHHhccCCCcEEEEE
Confidence 46778999999999999998875
No 88
>TIGR00401 msrA methionine-S-sulfoxide reductase. This model describes peptide methionine sulfoxide reductase (MsrA), a repair enzyme for proteins that have been inactivated by oxidation. The enzyme from E. coli is coextensive with this model and has enzymatic activity. However, in all completed genomes in which this module is present, a second protein module, described in TIGR00357, is also found, and in several cases as part of the same polypeptide chain: N-terminal to this module in Helicobacter pylori and Haemophilus influenzae (as in PilB of Neisseria gonorrhoeae) but C-terminal to it in Treponema pallidum. PilB, containing both domains, has been shown to be important for the expression of adhesins in certain pathogens.
Probab=27.26 E-value=51 Score=22.93 Aligned_cols=26 Identities=27% Similarity=0.254 Sum_probs=21.0
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCC
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQ 60 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~ 60 (146)
.+|-.-++..+.+++||.++.+-...
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYag 32 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTG 32 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCC
Confidence 56778888889999999999885443
No 89
>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated. This protein family belongs to the larger set of polysaccharide biosynthesis/export proteins described by Pfam model pfam02563. Members of this family are variable in either containing of lacking a 78-residue insert, but appear to fall within a single clade, nevertheless, where the regions in which the gene is found encode components of the PEP-CTERM/EpsH proposed exosortase protein sorting system.
Probab=27.19 E-value=1.9e+02 Score=20.01 Aligned_cols=56 Identities=16% Similarity=0.216 Sum_probs=37.4
Q ss_pred EEEE-cCcCHhHHHHHHHHHhCC-CC-ceEEEEec----CCCEEEEEec---------CCHHHHHHHHHhcC
Q 032170 27 DIKV-KMDCDGCERKVRNAVSSI-RG-AKSVEVNR----KQSRVTVTGY---------VDPNKVLKKVKSTG 82 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~~-~G-V~~v~vd~----~~~~v~V~~~---------~~~~~i~~~i~~~G 82 (146)
.+++ |++-+.=...|++.|.+. .. ...+.+.- ...++.|.|. .....+.++|..+|
T Consensus 38 ~v~v~G~T~~e~~~~I~~~l~~~~~~p~v~V~v~~~~~~~~~~V~V~GeV~~PG~y~~~~~~tl~~ai~~AG 109 (165)
T TIGR03027 38 DLVASGKTPTQLARDIEEKLAKYVRNPVVTVIVTGFIGPFSEQIRVVGAAANPQALPYREGMTLLDVMIAVG 109 (165)
T ss_pred eEEECCCCHHHHHHHHHHHHHHhccCCeEEEEEeecccCCCcEEEEEEEeCCCceeeeCCCCcHHHHHHHcC
Confidence 5889 999999999999999874 11 11233321 2467888754 23356888888776
No 90
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=27.16 E-value=1.2e+02 Score=23.55 Aligned_cols=31 Identities=29% Similarity=0.391 Sum_probs=24.6
Q ss_pred EEEEEcCcCHhHHHHHHHHHhCCCCceEEEEe
Q 032170 26 VDIKVKMDCDGCERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 26 ~~l~V~m~C~~C~~~i~~~L~~~~GV~~v~vd 57 (146)
+.++.+.+ ..|...+++.+.+++||.++++-
T Consensus 63 vyL~~~~~-~~~~~~v~~~i~~~~gV~~v~~~ 93 (297)
T COG2177 63 VYLQIDAD-QDDAALVREKIEGIPGVKSVRFI 93 (297)
T ss_pred EEEecCCC-hHHHHHHHHHHhcCCCcceEEEe
Confidence 44444555 89999999999999999987764
No 91
>PRK05412 putative nucleotide-binding protein; Reviewed
Probab=27.10 E-value=2.3e+02 Score=20.07 Aligned_cols=59 Identities=17% Similarity=0.233 Sum_probs=39.8
Q ss_pred ceEEEEEE--cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhcCCc
Q 032170 23 MQTVDIKV--KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKSTGKR 84 (146)
Q Consensus 23 ~~~~~l~V--~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~ 84 (146)
..+.++++ |+.-+. +.+|-+.+... +. .|........++|+|. -+..+++..|+...+.
T Consensus 89 ~vrq~i~lk~GI~~e~-AKkIvK~IKd~-kl-KVqa~IQGd~vRVtgKkrDDLQ~viallk~~d~~ 151 (161)
T PRK05412 89 TVKQEVKLKQGIDQEL-AKKIVKLIKDS-KL-KVQAQIQGDQVRVTGKKRDDLQAVIALLRKADLG 151 (161)
T ss_pred EEEEEEehhhccCHHH-HHHHHHHHHhc-CC-ceeEEecCcEEEEecCCHhHHHHHHHHHHhccCC
Confidence 34445555 666544 56777777643 22 3778888999999985 5777888888765543
No 92
>PRK09019 translation initiation factor Sui1; Validated
Probab=26.96 E-value=84 Score=20.71 Aligned_cols=28 Identities=7% Similarity=0.221 Sum_probs=18.9
Q ss_pred CCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 032170 60 QSRVTVTGYVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 60 ~~~v~V~~~~~~~~i~~~i~~~G~~~~~~ 88 (146)
.+.+.|.|+ ..+.|.+.|.+.||++.+.
T Consensus 79 ~~~IelQGD-~r~~v~~~L~~~Gf~~k~~ 106 (108)
T PRK09019 79 DGVIEIQGD-KRDLLKSLLEAKGMKVKLA 106 (108)
T ss_pred cCEEEEcCc-HHHHHHHHHHHCCCeEEec
Confidence 455666675 3466778888888877643
No 93
>PRK04435 hypothetical protein; Provisional
Probab=26.84 E-value=2.1e+02 Score=19.57 Aligned_cols=34 Identities=18% Similarity=0.344 Sum_probs=23.5
Q ss_pred ceEEEEEEcC-cCHhHHHHHHHHHhCCCCceEEEE
Q 032170 23 MQTVDIKVKM-DCDGCERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 23 ~~~~~l~V~m-~C~~C~~~i~~~L~~~~GV~~v~v 56 (146)
...+.|.+.. .-......+-..|++++||.++++
T Consensus 109 ~a~vs~tVevs~~~~~L~~Li~~L~~i~gV~~V~i 143 (147)
T PRK04435 109 RANVTISIDTSSMEGDIDELLEKLRNLDGVEKVEL 143 (147)
T ss_pred EEEEEEEEEeCChHHHHHHHHHHHHcCCCcEEEEE
Confidence 3445566632 333477888889999999998875
No 94
>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=26.28 E-value=1.1e+02 Score=23.27 Aligned_cols=30 Identities=10% Similarity=0.313 Sum_probs=25.6
Q ss_pred hHHHHHHHHHhCCCCceEEEEecCCCEEEE
Q 032170 36 GCERKVRNAVSSIRGAKSVEVNRKQSRVTV 65 (146)
Q Consensus 36 ~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V 65 (146)
.-...|+++|.+++||+.+++--..+++.+
T Consensus 87 tTy~Avk~aLL~~~gv~haNI~SsaGtini 116 (291)
T PF03434_consen 87 TTYEAVKSALLNLNGVEHANIKSSAGTINI 116 (291)
T ss_pred chHHHHHHHhcCCCCceeeeeecCCCeeEE
Confidence 345789999999999999999888888755
No 95
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=25.55 E-value=1.2e+02 Score=21.65 Aligned_cols=30 Identities=27% Similarity=0.308 Sum_probs=25.9
Q ss_pred EEEEecCCHHHHHHHHHhcCCceEEeccCC
Q 032170 63 VTVTGYVDPNKVLKKVKSTGKRAEFWPYVP 92 (146)
Q Consensus 63 v~V~~~~~~~~i~~~i~~~G~~~~~~~~~~ 92 (146)
+.+.|+.+...+++.++..|.++++.+.++
T Consensus 115 vl~SgD~DF~p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 115 VLFSGDGDFIPLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred EEEcCCccHHHHHHHHHHcCCEEEEEecCC
Confidence 445688899999999999999999998766
No 96
>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=24.71 E-value=73 Score=23.10 Aligned_cols=29 Identities=28% Similarity=0.404 Sum_probs=21.1
Q ss_pred HHHHHHHHHhCCCCceEEEE--ecCCCEEEE
Q 032170 37 CERKVRNAVSSIRGAKSVEV--NRKQSRVTV 65 (146)
Q Consensus 37 C~~~i~~~L~~~~GV~~v~v--d~~~~~v~V 65 (146)
-..+++..|.++.||.+|+| .+..+.-.|
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 57788899999999998765 455544443
No 97
>PRK11670 antiporter inner membrane protein; Provisional
Probab=24.71 E-value=3.2e+02 Score=21.87 Aligned_cols=53 Identities=13% Similarity=0.240 Sum_probs=34.7
Q ss_pred HHHHHHHHhCCCCceEEEEecCC------------------CEEEEE------ec-CCHHHHHHHHHhcCCceEEecc
Q 032170 38 ERKVRNAVSSIRGAKSVEVNRKQ------------------SRVTVT------GY-VDPNKVLKKVKSTGKRAEFWPY 90 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd~~~------------------~~v~V~------~~-~~~~~i~~~i~~~G~~~~~~~~ 90 (146)
...++.+|+.++|+.++.+.+.. ..+.|. |. .....|...+.+.|+++-++.-
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA~~G~rVlLID~ 144 (369)
T PRK11670 67 KEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDA 144 (369)
T ss_pred HHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHCCCcEEEEeC
Confidence 45688999999999877754322 112333 22 3345577778889999888754
No 98
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=24.26 E-value=2.1e+02 Score=18.47 Aligned_cols=55 Identities=18% Similarity=0.183 Sum_probs=32.7
Q ss_pred EEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhc
Q 032170 27 DIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY--VDPNKVLKKVKST 81 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~ 81 (146)
.+++ |+.-+.+...|+..+.....|.-|++........|... -....+++.+...
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhc
Confidence 4666 66666668899999999888888888777777777744 3467777777765
No 99
>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=24.20 E-value=2.5e+02 Score=19.51 Aligned_cols=58 Identities=10% Similarity=0.129 Sum_probs=39.0
Q ss_pred HhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec-------CCHHHHHHHHHhcCCceEEeccCC
Q 032170 35 DGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY-------VDPNKVLKKVKSTGKRAEFWPYVP 92 (146)
Q Consensus 35 ~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~-------~~~~~i~~~i~~~G~~~~~~~~~~ 92 (146)
+.-...|++.+-.-.||.++.+|..++.|.|... -.-..+.+...++|....+....|
T Consensus 52 e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 52 EEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred HHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 3344555555555569999999999999988732 223344566678999888776444
No 100
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=23.92 E-value=1.4e+02 Score=18.79 Aligned_cols=48 Identities=10% Similarity=-0.020 Sum_probs=25.4
Q ss_pred HHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhcCCce
Q 032170 38 ERKVRNAVSSIRGAKSVEVNRKQSRVTVTGY---VDPNKVLKKVKSTGKRA 85 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~~ 85 (146)
+..++=.|.+.++|-.+-+|.-.....|..+ ...++|++.+++.+..+
T Consensus 13 A~~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kpEV 63 (88)
T PF11491_consen 13 AMVKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKPEV 63 (88)
T ss_dssp THHHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HHHTTT-S
T ss_pred HHHHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHHhcChhh
Confidence 4556667889999999999987777666532 78899999998877543
No 101
>PRK07451 translation initiation factor Sui1; Validated
Probab=23.76 E-value=91 Score=20.78 Aligned_cols=29 Identities=21% Similarity=0.361 Sum_probs=20.2
Q ss_pred CCCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 032170 59 KQSRVTVTGYVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 59 ~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~ 88 (146)
..+.+.|.|+ ..+.|.+.|.+.||++.+.
T Consensus 85 kd~~IelQGD-~r~~v~~~L~~~Gf~~k~~ 113 (115)
T PRK07451 85 KDNTIEIQGD-HRQKILEILIKLGYKAKIS 113 (115)
T ss_pred cCCEEEEcCc-HHHHHHHHHHHCCCeEeec
Confidence 4555677776 4467888888888877654
No 102
>PRK06824 translation initiation factor Sui1; Validated
Probab=23.65 E-value=1.1e+02 Score=20.43 Aligned_cols=54 Identities=11% Similarity=0.167 Sum_probs=31.5
Q ss_pred cCc-CHhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 032170 31 KMD-CDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKRAEFW 88 (146)
Q Consensus 31 ~m~-C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~ 88 (146)
|+. -..-..++-+.|.+--|.... ...+.+.|.|+ ..+.|.+.|.+.||++.+.
T Consensus 62 Gl~~~~~dlk~l~K~LKkk~gcGGt---vkd~~IeiQGD-~r~~v~~~L~~~G~~~k~~ 116 (118)
T PRK06824 62 GVPLAEDALKELAKELKRRCGTGGT---LKDGVIEIQGD-HVELLLAELLKRGFKAKKA 116 (118)
T ss_pred CCcCCHHHHHHHHHHHHHHhcCCce---EecCEEEEcCc-HHHHHHHHHHHCCCeEeec
Confidence 664 233344555555554343221 13456677776 4567888888999987643
No 103
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=23.64 E-value=1.1e+02 Score=21.10 Aligned_cols=18 Identities=39% Similarity=0.735 Sum_probs=13.2
Q ss_pred HHHHHHHhCCCCceEEEEe
Q 032170 39 RKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 39 ~~i~~~L~~~~GV~~v~vd 57 (146)
..|+.+|..+ |+.+++|+
T Consensus 46 ~~I~~aL~~~-Gv~~V~V~ 63 (146)
T TIGR02159 46 QDIRDAVRAL-GVEVVEVS 63 (146)
T ss_pred HHHHHHHHhc-CCCeEEEe
Confidence 4578888876 88877765
No 104
>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=23.57 E-value=2.3e+02 Score=20.78 Aligned_cols=68 Identities=21% Similarity=0.321 Sum_probs=41.0
Q ss_pred CCCceEEEEE--E-cCcCHhHHHHHH---------------HHHhCCCCceEEEEecCCCEEEEEe-c----CCHHHHHH
Q 032170 20 RKPMQTVDIK--V-KMDCDGCERKVR---------------NAVSSIRGAKSVEVNRKQSRVTVTG-Y----VDPNKVLK 76 (146)
Q Consensus 20 ~~~~~~~~l~--V-~m~C~~C~~~i~---------------~~L~~~~GV~~v~vd~~~~~v~V~~-~----~~~~~i~~ 76 (146)
......+-++ - ++.|..|-.+-. +.++.+.. .......|+++| + .....+++
T Consensus 19 ~~Gr~~vFVR~~GC~l~C~~Cdt~~t~~~~~~~~~~~~~~~~I~~~i~~-----~~~~~~~V~lTGGEP~~~~~l~~Ll~ 93 (212)
T COG0602 19 NIGRPSVFVRFAGCNLRCPGCDTKYTWDFNYGKPGTPMSADEILADIKS-----LGYKARGVSLTGGEPLLQPNLLELLE 93 (212)
T ss_pred cccceeEEEEcCCCCCCCCCCCChhhhcccccCCCCccCHHHHHHHHHh-----cCCCcceEEEeCCcCCCcccHHHHHH
Confidence 3355566666 5 889999975422 22222111 012334577774 3 25788999
Q ss_pred HHHhcCCceEEeccCC
Q 032170 77 KVKSTGKRAEFWPYVP 92 (146)
Q Consensus 77 ~i~~~G~~~~~~~~~~ 92 (146)
.+++.|++..+-..+.
T Consensus 94 ~l~~~g~~~~lETngt 109 (212)
T COG0602 94 LLKRLGFRIALETNGT 109 (212)
T ss_pred HHHhCCceEEecCCCC
Confidence 9999999988765443
No 105
>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=23.52 E-value=1.4e+02 Score=21.03 Aligned_cols=27 Identities=30% Similarity=0.187 Sum_probs=20.5
Q ss_pred EEEecCCHHHHHHHHHhcCCceEEecc
Q 032170 64 TVTGYVDPNKVLKKVKSTGKRAEFWPY 90 (146)
Q Consensus 64 ~V~~~~~~~~i~~~i~~~G~~~~~~~~ 90 (146)
.|.|+-|...++..|++.|.++...+.
T Consensus 111 LvSgD~DF~~Lv~~lre~G~~V~v~g~ 137 (160)
T TIGR00288 111 LVTRDADFLPVINKAKENGKETIVIGA 137 (160)
T ss_pred EEeccHhHHHHHHHHHHCCCEEEEEeC
Confidence 345677778888888888888887774
No 106
>PRK08577 hypothetical protein; Provisional
Probab=22.85 E-value=2.2e+02 Score=18.99 Aligned_cols=21 Identities=14% Similarity=0.196 Sum_probs=15.9
Q ss_pred hHHHHHHHHHhCCCCceEEEE
Q 032170 36 GCERKVRNAVSSIRGAKSVEV 56 (146)
Q Consensus 36 ~C~~~i~~~L~~~~GV~~v~v 56 (146)
.-...+.+.|++++||.++.+
T Consensus 111 ~~l~~l~~~L~~l~~V~~V~~ 131 (136)
T PRK08577 111 IDLEELEEELKKLEEVKEVEI 131 (136)
T ss_pred hhHHHHHHHHHcCCCEEEEEE
Confidence 345678888888999887764
No 107
>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=22.77 E-value=1.5e+02 Score=18.18 Aligned_cols=23 Identities=13% Similarity=0.276 Sum_probs=17.4
Q ss_pred cCCCEEEEEecCCHHHHHHHHHh
Q 032170 58 RKQSRVTVTGYVDPNKVLKKVKS 80 (146)
Q Consensus 58 ~~~~~v~V~~~~~~~~i~~~i~~ 80 (146)
+.++++.++|..+.+++.+++++
T Consensus 55 F~sGki~itGaks~~~~~~a~~~ 77 (86)
T PF00352_consen 55 FSSGKIVITGAKSEEEAKKAIEK 77 (86)
T ss_dssp ETTSEEEEEEESSHHHHHHHHHH
T ss_pred EcCCEEEEEecCCHHHHHHHHHH
Confidence 57889999988777777666653
No 108
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=22.64 E-value=3.2e+02 Score=20.18 Aligned_cols=56 Identities=21% Similarity=0.357 Sum_probs=38.4
Q ss_pred EEEE-cCcCHhHHHHHHHHHhC---CCCceEEEEe---cCCCEEEEEec---------CCHHHHHHHHHhcCC
Q 032170 27 DIKV-KMDCDGCERKVRNAVSS---IRGAKSVEVN---RKQSRVTVTGY---------VDPNKVLKKVKSTGK 83 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~---~~GV~~v~vd---~~~~~v~V~~~---------~~~~~i~~~i~~~G~ 83 (146)
.+++ |++-+.=...|++.|.+ +... .+.+. +...++.|.|. .....|.++|..+|.
T Consensus 39 ~v~v~G~T~~e~~~~I~~~l~~~~~~~~p-~V~V~v~~~~~~~V~V~GeV~~PG~~~l~~~~tl~~ai~~AGG 110 (239)
T TIGR03028 39 EVKLGGETPAAAERKIASRLSKGGFVKQP-QVTINVLQYRGQQVSVLGQVNRPGRYPLETAGRVSDVLALAGG 110 (239)
T ss_pred eEEECCCCHHHHHHHHHHHHhhcCcccCC-EEEEEEEeccceEEEEEEEecCCceEEcCCCCcHHHHHHHcCC
Confidence 5889 99999999999999975 2221 23333 34567888754 122568888887773
No 109
>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=22.41 E-value=94 Score=22.51 Aligned_cols=22 Identities=27% Similarity=0.425 Sum_probs=17.6
Q ss_pred HHHHHHHHHhCCCCceEEEEec
Q 032170 37 CERKVRNAVSSIRGAKSVEVNR 58 (146)
Q Consensus 37 C~~~i~~~L~~~~GV~~v~vd~ 58 (146)
=...+++.|..++||.+++|.+
T Consensus 108 le~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 108 IEQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHHhcCCeeeeEEEE
Confidence 3567788899999999888753
No 110
>PRK10509 bacterioferritin-associated ferredoxin; Provisional
Probab=22.21 E-value=53 Score=19.28 Aligned_cols=21 Identities=24% Similarity=0.488 Sum_probs=17.1
Q ss_pred EEEEcCcCHhHHHHHHHHHhC
Q 032170 27 DIKVKMDCDGCERKVRNAVSS 47 (146)
Q Consensus 27 ~l~V~m~C~~C~~~i~~~L~~ 47 (146)
.+.++-.|.+|...+++.|..
T Consensus 32 ~~~~g~~CG~C~~~i~~il~~ 52 (64)
T PRK10509 32 FVPVGNQCGKCIRAAREVMQD 52 (64)
T ss_pred hcCCCCCccchHHHHHHHHHH
Confidence 356688999999999988764
No 111
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=22.17 E-value=2.3e+02 Score=22.78 Aligned_cols=57 Identities=18% Similarity=0.344 Sum_probs=39.5
Q ss_pred EEEE-cCcCHhHHHHHHHHHhCCCCceEEEEe---cCCCEEEEEec--------C-C-HHHHHHHHHhcCC
Q 032170 27 DIKV-KMDCDGCERKVRNAVSSIRGAKSVEVN---RKQSRVTVTGY--------V-D-PNKVLKKVKSTGK 83 (146)
Q Consensus 27 ~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd---~~~~~v~V~~~--------~-~-~~~i~~~i~~~G~ 83 (146)
.++| |++-..=...|++.|.+.----.|.|. +...++.|.|+ + + ...|.++|..+|.
T Consensus 133 ~V~vaG~T~~e~~~~I~~~L~~~~~~PqV~V~v~~~~s~~V~V~GeV~~PG~~~l~~~~~tlldaIa~AGG 203 (379)
T PRK15078 133 KVHVAGKTVTEIRSDITGRLAKYIESPQVDVNIAAFRSQKAYVTGEVNKSGQQAITNVPLTILDAINAAGG 203 (379)
T ss_pred eEEECCCCHHHHHHHHHHHHHHhccCCeEEEEEccCCceEEEEEceecCCeEEEecCCCccHHHHHHHccC
Confidence 5889 999999999999999864211134443 34567888753 2 2 4678899988764
No 112
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=21.88 E-value=1e+02 Score=23.39 Aligned_cols=22 Identities=23% Similarity=0.395 Sum_probs=17.5
Q ss_pred hHHHHHHHHHhCCCCceEEEEe
Q 032170 36 GCERKVRNAVSSIRGAKSVEVN 57 (146)
Q Consensus 36 ~C~~~i~~~L~~~~GV~~v~vd 57 (146)
.=+..+++.|++++||.+++|.
T Consensus 109 ~~eQ~le~tLs~mDGVi~ArV~ 130 (246)
T COG4669 109 AKEQQLEQTLSKMDGVISARVH 130 (246)
T ss_pred HHHHHHHHHHHhcCceEEEEEE
Confidence 3467899999999999876654
No 113
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.75 E-value=52 Score=20.31 Aligned_cols=16 Identities=13% Similarity=0.775 Sum_probs=13.8
Q ss_pred cCHhHHHHHHHHHhCC
Q 032170 33 DCDGCERKVRNAVSSI 48 (146)
Q Consensus 33 ~C~~C~~~i~~~L~~~ 48 (146)
.|+.|..++++.|++.
T Consensus 35 ~ce~c~a~~kk~l~~v 50 (82)
T COG2331 35 TCEECGARLKKLLNAV 50 (82)
T ss_pred cChhhChHHHHhhccc
Confidence 6999999999988754
No 114
>PF09122 DUF1930: Domain of unknown function (DUF1930); InterPro: IPR015206 This entry represents a domain found in 3-mercaptopyruvate sulphurtransferase which has no known function. This domain adopts a structure consisting of a four-stranded antiparallel beta-sheet and an alpha-helix, arranged in a beta(2)-alpha-beta(2) fashion, and bearing a remarkable structural similarity to the FK506-binding protein class of peptidylprolyl cis/trans-isomerase []. ; PDB: 1OKG_A.
Probab=21.57 E-value=1.2e+02 Score=18.00 Aligned_cols=44 Identities=16% Similarity=0.213 Sum_probs=29.7
Q ss_pred ceEEEEEE-cCcCHhHHHHHHHHHhCCCCceEEEEecCCCEEEEE
Q 032170 23 MQTVDIKV-KMDCDGCERKVRNAVSSIRGAKSVEVNRKQSRVTVT 66 (146)
Q Consensus 23 ~~~~~l~V-~m~C~~C~~~i~~~L~~~~GV~~v~vd~~~~~v~V~ 66 (146)
....+|.| |--|.+=-..+..++.-+---+.+.+-+..+++.+.
T Consensus 18 ~~~~tl~vDg~~v~~PD~El~sA~~HlH~GEkA~V~FkS~Rv~~i 62 (68)
T PF09122_consen 18 LDNATLIVDGEIVENPDAELKSALVHLHIGEKAQVFFKSQRVAVI 62 (68)
T ss_dssp TTT--EEETTEEESS--HHHHHHHTT-BTT-EEEEEETTS-EEEE
T ss_pred ccceEEEEcCeEcCCCCHHHHHHHHHhhcCceeEEEEecCcEEEE
Confidence 35568999 999999888999998887666788888888887653
No 115
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=21.57 E-value=3.2e+02 Score=25.32 Aligned_cols=46 Identities=17% Similarity=0.284 Sum_probs=35.1
Q ss_pred HHHHHHHHHhCCCCceEEEEecC-CCEEEEEe--------cCCHHHHHHHHHhcC
Q 032170 37 CERKVRNAVSSIRGAKSVEVNRK-QSRVTVTG--------YVDPNKVLKKVKSTG 82 (146)
Q Consensus 37 C~~~i~~~L~~~~GV~~v~vd~~-~~~v~V~~--------~~~~~~i~~~i~~~G 82 (146)
-...++..|.+++||.++++.-. ...++|.- .+++.+|..+|+...
T Consensus 156 ~~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~~ai~~qN 210 (1009)
T COG0841 156 AASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQSAIRAQN 210 (1009)
T ss_pred HHHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 46678999999999999999765 44456652 278889999998644
No 116
>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium). This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=21.21 E-value=1.6e+02 Score=27.06 Aligned_cols=57 Identities=25% Similarity=0.312 Sum_probs=39.9
Q ss_pred EEEEEE-cCcCH---hHHHHHHHHHhCCCCceEEEEecCC--CEEEEEe--------cCCHHHHHHHHHhc
Q 032170 25 TVDIKV-KMDCD---GCERKVRNAVSSIRGAKSVEVNRKQ--SRVTVTG--------YVDPNKVLKKVKST 81 (146)
Q Consensus 25 ~~~l~V-~m~C~---~C~~~i~~~L~~~~GV~~v~vd~~~--~~v~V~~--------~~~~~~i~~~i~~~ 81 (146)
.+++.+ |-+=. .-+.+++..|.+++||.+++.+... ..+.|.- .+++++|.+.++..
T Consensus 683 ~i~i~l~G~d~~~L~~~a~~v~~~l~~~pgv~~v~~~~~~~~~e~~i~id~~~~~~~Glt~~~v~~~l~~~ 753 (1051)
T TIGR00914 683 DVAVKVFGDDLDDLDATAEKISAVLKGVPGAADVKVEQTTGLPYLTVEIDREKAARYGLTVGDVQDTVATA 753 (1051)
T ss_pred CeEEEEECCCHHHHHHHHHHHHHHHhcCCCceeeeccccCCCceEEEEECHHHHHHcCCCHHHHHHHHHHH
Confidence 477888 74432 2467789999999999999988654 3344441 26788888888743
No 117
>KOG3782 consensus Predicted membrane protein, contains type II SA sequence [General function prediction only]
Probab=21.06 E-value=3.2e+02 Score=19.57 Aligned_cols=35 Identities=14% Similarity=0.470 Sum_probs=23.5
Q ss_pred CcCHhHHHHH---HHHHhCCC-----CceEEEEecCCCEEEEE
Q 032170 32 MDCDGCERKV---RNAVSSIR-----GAKSVEVNRKQSRVTVT 66 (146)
Q Consensus 32 m~C~~C~~~i---~~~L~~~~-----GV~~v~vd~~~~~v~V~ 66 (146)
+.|..|...| |.++.+.+ .|.+.++|...+...+.
T Consensus 25 ~~CgaC~alVtelE~~IA~vDPkK~i~vgsFR~~p~G~q~~~k 67 (189)
T KOG3782|consen 25 VKCGACKALVTELEEAIAKVDPKKMIDVGSFRLDPQGNQISKK 67 (189)
T ss_pred cccchHHHHHHHHHHHHHhcCchheeeecceEECCCCCeeeee
Confidence 4799997665 55566553 47788888877665443
No 118
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.86 E-value=96 Score=17.88 Aligned_cols=17 Identities=12% Similarity=0.182 Sum_probs=13.7
Q ss_pred CCHHHHHHHHHhcCCce
Q 032170 69 VDPNKVLKKVKSTGKRA 85 (146)
Q Consensus 69 ~~~~~i~~~i~~~G~~~ 85 (146)
...++|.+.|++.||.+
T Consensus 50 ~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 50 EDLAELKERLEALGYPY 66 (68)
T ss_pred HHHHHHHHHHHHcCCCc
Confidence 46678899999999864
No 119
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=20.83 E-value=2e+02 Score=21.81 Aligned_cols=44 Identities=27% Similarity=0.366 Sum_probs=23.8
Q ss_pred HHHHHHHhCCCCceEEEEecCCCEEEEEec-CCHHHHHHHHHhcCCceE
Q 032170 39 RKVRNAVSSIRGAKSVEVNRKQSRVTVTGY-VDPNKVLKKVKSTGKRAE 86 (146)
Q Consensus 39 ~~i~~~L~~~~GV~~v~vd~~~~~v~V~~~-~~~~~i~~~i~~~G~~~~ 86 (146)
..++.+|.. |.+++..+ .+..+|... .+...+.++|+.+|+...
T Consensus 151 ~l~e~~iea--gaeDv~~~--~~~~~V~t~p~~~~~V~~~L~~~g~~~~ 195 (241)
T COG0217 151 ELLEAAIEA--GAEDVEED--EGSIEVYTEPEDFNKVKEALEAAGYEIE 195 (241)
T ss_pred HHHHHHHHC--CchhhhcC--CCeEEEEEChHHHHHHHHHHHHcCCcee
Confidence 334444443 66655555 444555433 456666667776665443
No 120
>PRK11282 glcE glycolate oxidase FAD binding subunit; Provisional
Probab=20.62 E-value=1.9e+02 Score=23.10 Aligned_cols=38 Identities=11% Similarity=0.110 Sum_probs=29.3
Q ss_pred HhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhcCCc
Q 032170 45 VSSIRGAKSVEVNRKQSRVTVTGYVDPNKVLKKVKSTGKR 84 (146)
Q Consensus 45 L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~ 84 (146)
+.++.+|. ++|..+..++|..-+...+|.+.|.+.|..
T Consensus 43 l~~ln~Il--e~d~~~~~vtV~AG~~l~el~~~L~~~G~~ 80 (352)
T PRK11282 43 TRAHRGIV--SYDPTELVITARAGTPLAELEAALAEAGQM 80 (352)
T ss_pred cccCCCcE--EEcCCCCEEEECCCCCHHHHHHHHHHcCCe
Confidence 34455553 567778889998778999999999998864
No 121
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=20.39 E-value=1.9e+02 Score=16.67 Aligned_cols=26 Identities=27% Similarity=0.473 Sum_probs=16.6
Q ss_pred cCcCHhHHHHHHHHHhCCCCceEEEEec
Q 032170 31 KMDCDGCERKVRNAVSSIRGAKSVEVNR 58 (146)
Q Consensus 31 ~m~C~~C~~~i~~~L~~~~GV~~v~vd~ 58 (146)
.-.|+.|. ++++.|... ||.-..+|.
T Consensus 6 ~~~Cp~C~-~ak~~L~~~-~i~~~~~di 31 (72)
T TIGR02194 6 KNNCVQCK-MTKKALEEH-GIAFEEINI 31 (72)
T ss_pred CCCCHHHH-HHHHHHHHC-CCceEEEEC
Confidence 45799995 677777753 665444443
No 122
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=20.29 E-value=73 Score=20.68 Aligned_cols=20 Identities=15% Similarity=0.486 Sum_probs=16.2
Q ss_pred cCcCHhHHHHHHHHHhCCCCc
Q 032170 31 KMDCDGCERKVRNAVSSIRGA 51 (146)
Q Consensus 31 ~m~C~~C~~~i~~~L~~~~GV 51 (146)
-..|..|+..+++.|.+. ||
T Consensus 18 ~~qC~~cA~Al~~~L~~~-gI 37 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQA-GI 37 (100)
T ss_pred ceehHHHHHHHHHHHHHC-CC
Confidence 467999999999999863 44
No 123
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=20.19 E-value=1.2e+02 Score=23.12 Aligned_cols=21 Identities=19% Similarity=0.420 Sum_probs=17.9
Q ss_pred HHHHHHHHhCCCCceEEEEec
Q 032170 38 ERKVRNAVSSIRGAKSVEVNR 58 (146)
Q Consensus 38 ~~~i~~~L~~~~GV~~v~vd~ 58 (146)
+..+++.|..++||.+++|.+
T Consensus 109 egELarTI~~idgV~~ArVhL 129 (249)
T PRK15348 109 EQRIEGMLSQMEGVINAKVTI 129 (249)
T ss_pred HHHHHHHHHhCCCeeEeEEEE
Confidence 567899999999999988753
Done!