Query 032780
Match_columns 134
No_of_seqs 136 out of 1464
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 05:52:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032780.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032780hhsearch_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 99.5 2E-13 4.3E-18 86.6 8.4 58 19-76 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.3 9.3E-12 2E-16 82.1 9.1 65 16-80 2-70 (71)
3 KOG1603 Copper chaperone [Inor 99.3 1.3E-11 2.7E-16 81.7 9.1 68 14-81 3-71 (73)
4 KOG4656 Copper chaperone for s 99.0 1.9E-09 4.2E-14 84.7 8.9 70 15-84 6-75 (247)
5 PLN02957 copper, zinc superoxi 98.6 6.2E-07 1.3E-11 71.4 10.6 70 15-84 5-74 (238)
6 PRK10671 copA copper exporting 98.4 8E-07 1.7E-11 81.3 8.0 64 16-81 3-67 (834)
7 COG2217 ZntA Cation transport 98.2 4.3E-06 9.3E-11 75.9 7.7 63 16-79 2-69 (713)
8 TIGR00003 copper ion binding p 97.9 0.00018 3.8E-09 41.8 8.8 60 17-76 3-66 (68)
9 PRK10671 copA copper exporting 97.5 0.00046 9.9E-09 63.4 8.2 64 17-80 100-164 (834)
10 KOG0207 Cation transport ATPas 97.3 0.00057 1.2E-08 63.4 6.5 63 23-85 2-66 (951)
11 KOG0207 Cation transport ATPas 97.3 0.00086 1.9E-08 62.3 7.3 66 16-81 146-215 (951)
12 PRK11033 zntA zinc/cadmium/mer 97.1 0.0018 3.9E-08 59.1 7.6 65 16-80 53-119 (741)
13 TIGR02052 MerP mercuric transp 94.0 0.94 2E-05 28.5 9.4 62 17-78 24-89 (92)
14 PRK13748 putative mercuric red 90.6 2 4.2E-05 37.5 8.7 63 20-82 4-69 (561)
15 cd00371 HMA Heavy-metal-associ 87.8 2.4 5.2E-05 21.5 7.4 53 23-75 6-60 (63)
16 PF01883 DUF59: Domain of unkn 83.4 2.2 4.8E-05 27.1 3.8 33 16-48 34-72 (72)
17 PF01206 TusA: Sulfurtransfera 77.9 8.6 0.00019 24.1 5.2 53 19-80 2-57 (70)
18 PRK14054 methionine sulfoxide 76.4 6.2 0.00013 30.2 4.8 46 27-72 10-77 (172)
19 COG1888 Uncharacterized protei 76.1 12 0.00027 26.1 5.7 65 16-81 6-80 (97)
20 PF02680 DUF211: Uncharacteriz 67.1 12 0.00027 26.1 4.2 65 16-81 5-78 (95)
21 PRK13014 methionine sulfoxide 62.5 13 0.00027 28.9 3.9 44 27-70 15-80 (186)
22 PRK00058 methionine sulfoxide 62.5 17 0.00037 28.8 4.7 47 26-72 51-119 (213)
23 PRK10553 assembly protein for 62.4 39 0.00085 23.0 5.9 43 30-72 19-65 (87)
24 PF14437 MafB19-deam: MafB19-l 62.0 23 0.00049 26.6 5.0 42 16-58 100-143 (146)
25 TIGR03406 FeS_long_SufT probab 59.7 14 0.0003 28.3 3.7 34 17-50 114-153 (174)
26 PF13732 DUF4162: Domain of un 58.6 35 0.00076 21.8 5.1 43 37-81 26-70 (84)
27 TIGR02945 SUF_assoc FeS assemb 56.4 15 0.00032 24.8 3.0 21 31-51 58-78 (99)
28 PF03927 NapD: NapD protein; 51.9 67 0.0014 21.2 6.8 43 29-72 16-59 (79)
29 cd03421 SirA_like_N SirA_like_ 51.5 52 0.0011 20.4 4.9 50 20-79 2-54 (67)
30 PRK05528 methionine sulfoxide 49.6 14 0.0003 27.9 2.2 46 27-72 8-70 (156)
31 cd04888 ACT_PheB-BS C-terminal 46.1 69 0.0015 19.6 5.0 33 16-48 41-74 (76)
32 PRK11018 hypothetical protein; 45.7 83 0.0018 20.5 5.9 53 18-79 9-64 (78)
33 PRK05550 bifunctional methioni 44.5 45 0.00097 27.6 4.6 30 25-54 132-161 (283)
34 PRK09577 multidrug efflux prot 40.3 81 0.0017 30.3 6.2 46 30-75 158-211 (1032)
35 PF09580 Spore_YhcN_YlaJ: Spor 40.1 1.1E+02 0.0024 22.4 5.9 34 25-58 72-105 (177)
36 PF01625 PMSR: Peptide methion 39.7 29 0.00064 25.9 2.6 27 27-53 7-33 (155)
37 TIGR00401 msrA methionine-S-su 38.8 25 0.00055 26.2 2.1 28 27-54 7-34 (149)
38 TIGR02159 PA_CoA_Oxy4 phenylac 37.3 37 0.0008 25.2 2.8 54 17-76 26-89 (146)
39 PRK10555 aminoglycoside/multid 36.1 95 0.0021 29.8 6.0 45 29-73 158-210 (1037)
40 PF04972 BON: BON domain; Int 35.8 34 0.00073 20.8 2.1 29 32-61 3-34 (64)
41 COG0225 MsrA Peptide methionin 34.0 27 0.00059 26.9 1.7 28 27-54 13-40 (174)
42 PRK11670 antiporter inner memb 33.5 1.7E+02 0.0036 24.7 6.5 68 17-84 48-146 (369)
43 COG2151 PaaD Predicted metal-s 32.1 84 0.0018 22.4 3.8 33 18-50 51-89 (111)
44 PRK15127 multidrug efflux syst 30.4 1.3E+02 0.0029 28.9 5.9 43 31-73 160-210 (1049)
45 TIGR01676 GLDHase galactonolac 30.2 87 0.0019 28.2 4.4 39 37-77 110-148 (541)
46 PRK11023 outer membrane lipopr 29.0 1.6E+02 0.0034 22.5 5.1 47 24-70 45-94 (191)
47 TIGR00915 2A0602 The (Largely 28.9 1.4E+02 0.0031 28.7 5.8 44 30-73 159-210 (1044)
48 cd03420 SirA_RHOD_Pry_redox Si 28.9 1.5E+02 0.0033 18.5 5.5 53 20-81 2-57 (69)
49 PF01514 YscJ_FliF: Secretory 28.6 66 0.0014 24.9 3.1 24 28-51 115-138 (206)
50 PF13291 ACT_4: ACT domain; PD 28.5 1.6E+02 0.0034 18.5 5.1 33 15-47 47-79 (80)
51 PRK11200 grxA glutaredoxin 1; 28.4 1.6E+02 0.0035 18.7 4.6 28 23-51 8-39 (85)
52 PF04891 NifQ: NifQ; InterPro 27.9 20 0.00044 27.3 0.1 9 123-131 133-141 (167)
53 PF00352 TBP: Transcription fa 27.4 1.1E+02 0.0025 20.0 3.7 23 50-72 55-77 (86)
54 TIGR02190 GlrX-dom Glutaredoxi 27.3 1.4E+02 0.003 18.9 4.0 33 16-50 8-40 (79)
55 PRK11152 ilvM acetolactate syn 27.2 1.7E+02 0.0036 19.3 4.4 30 17-48 46-75 (76)
56 COG4004 Uncharacterized protei 27.0 1.1E+02 0.0023 21.5 3.5 22 38-59 37-58 (96)
57 PF13193 AMP-binding_C: AMP-bi 26.8 74 0.0016 19.7 2.6 40 33-72 2-46 (73)
58 PRK00435 ef1B elongation facto 26.7 1.1E+02 0.0024 20.8 3.6 24 27-50 61-84 (88)
59 KOG3411 40S ribosomal protein 26.4 59 0.0013 24.2 2.3 50 24-73 91-141 (143)
60 COG4669 EscJ Type III secretor 26.4 66 0.0014 26.2 2.7 24 27-50 108-131 (246)
61 TIGR00489 aEF-1_beta translati 25.9 72 0.0016 21.8 2.5 23 28-50 62-84 (88)
62 TIGR02898 spore_YhcN_YlaJ spor 24.9 3E+02 0.0066 20.7 6.0 31 28-58 54-84 (158)
63 PF00434 VP7: Glycoprotein VP7 24.4 24 0.00051 29.7 -0.1 18 112-129 280-297 (326)
64 PF14424 Toxin-deaminase: The 24.3 1.6E+02 0.0036 21.3 4.3 29 17-45 98-127 (133)
65 PRK11282 glcE glycolate oxidas 23.6 1.3E+02 0.0029 25.3 4.2 38 37-76 43-80 (352)
66 PRK11023 outer membrane lipopr 23.4 2.4E+02 0.0052 21.5 5.3 44 27-70 126-171 (191)
67 PRK10638 glutaredoxin 3; Provi 23.2 1.8E+02 0.0039 18.4 4.0 32 17-50 3-34 (83)
68 PF11491 DUF3213: Protein of u 22.8 1.5E+02 0.0032 20.4 3.5 46 32-77 15-63 (88)
69 COG0841 AcrB Cation/multidrug 22.7 2.5E+02 0.0054 27.3 6.2 47 29-75 156-211 (1009)
70 COG0277 GlcD FAD/FMN-containin 22.7 93 0.002 26.0 3.1 39 39-79 83-121 (459)
71 PHA01634 hypothetical protein 22.4 34 0.00073 25.7 0.3 17 19-35 92-109 (156)
72 PRK04435 hypothetical protein; 22.2 2.4E+02 0.0052 20.6 4.9 33 16-48 110-143 (147)
73 TIGR03527 selenium_YedF seleni 21.9 3.5E+02 0.0077 20.8 6.0 49 23-80 5-55 (194)
74 TIGR02544 III_secr_YscJ type I 21.6 95 0.0021 23.9 2.7 23 28-50 107-129 (193)
75 TIGR01679 bact_FAD_ox FAD-link 21.1 1.6E+02 0.0035 25.1 4.3 38 38-77 58-95 (419)
76 PRK15348 type III secretion sy 20.7 1E+02 0.0022 25.0 2.8 22 30-51 109-130 (249)
77 PF05046 Img2: Mitochondrial l 20.7 2.7E+02 0.0059 18.6 6.7 54 21-75 33-87 (87)
78 PF03434 DUF276: DUF276 ; Int 20.2 1.6E+02 0.0035 24.3 3.8 31 28-58 87-117 (291)
79 cd02410 archeal_CPSF_KH The ar 20.2 3.8E+02 0.0083 20.1 6.3 69 16-84 37-116 (145)
80 PF08478 POTRA_1: POTRA domain 20.1 1.9E+02 0.0041 17.5 3.5 29 30-58 36-65 (69)
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=99.49 E-value=2e-13 Score=86.56 Aligned_cols=58 Identities=33% Similarity=0.500 Sum_probs=53.5
Q ss_pred EEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEee---CCHHHHHHHHHhCCCc
Q 032780 19 ELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGI---CNKYDVLETIRSKRKE 76 (134)
Q Consensus 19 ~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~---~~~~eI~~~I~k~G~~ 76 (134)
+|+|+ |+|++|+++|+++|.+++||.++.+|+.+++++|.++ +++++|.++|+++||+
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 47894 9999999999999999999999999999999999975 4569999999999994
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.35 E-value=9.3e-12 Score=82.09 Aligned_cols=65 Identities=22% Similarity=0.293 Sum_probs=57.6
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEE--e-eCCHHHHHHHHHhCCCceEEc
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVW--G-ICNKYDVLETIRSKRKEARFW 80 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~--~-~~~~~eI~~~I~k~G~~a~~~ 80 (134)
.+..|+|. |+|.+|+..|+++|.+++||.++++|+..+.+.|. + .++.++|+.+|.++||.+..+
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 45789995 99999999999999999999999999999777776 3 478999999999999987653
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.33 E-value=1.3e-11 Score=81.72 Aligned_cols=68 Identities=37% Similarity=0.616 Sum_probs=62.4
Q ss_pred cceEEEEEEeccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCC-CceEEcC
Q 032780 14 EAQYVELMVPLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKR-KEARFWN 81 (134)
Q Consensus 14 ~~~~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G-~~a~~~~ 81 (134)
.++..+++|.|+|.+|..+|++.|+.++||.++.+|...++++|.+..++..|++.|++.| .+...|.
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 3567889999999999999999999999999999999999999999999999999999988 6666653
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.01 E-value=1.9e-09 Score=84.69 Aligned_cols=70 Identities=26% Similarity=0.310 Sum_probs=64.8
Q ss_pred ceEEEEEEeccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCceEEcCCCC
Q 032780 15 AQYVELMVPLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEARFWNQEG 84 (134)
Q Consensus 15 ~~~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a~~~~~~~ 84 (134)
.-+.+|.|+|+|++|++.|+..|..++||.+++||+.++.|.|.+...+.+|...|+..|.++.+.....
T Consensus 6 ~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~ 75 (247)
T KOG4656|consen 6 TYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGK 75 (247)
T ss_pred ceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCc
Confidence 3568899999999999999999999999999999999999999999999999999999999988776543
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.59 E-value=6.2e-07 Score=71.37 Aligned_cols=70 Identities=29% Similarity=0.418 Sum_probs=63.0
Q ss_pred ceEEEEEEeccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCceEEcCCCC
Q 032780 15 AQYVELMVPLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEARFWNQEG 84 (134)
Q Consensus 15 ~~~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a~~~~~~~ 84 (134)
.++++|.++|+|++|+.+|++.|.+++||..+.+|+..++++|.......++...|++.||.++++....
T Consensus 5 ~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~ 74 (238)
T PLN02957 5 ELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGD 74 (238)
T ss_pred cEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCC
Confidence 3677788899999999999999999999999999999999999887788899999999999988776533
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.42 E-value=8e-07 Score=81.25 Aligned_cols=64 Identities=22% Similarity=0.331 Sum_probs=56.8
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCceEEcC
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEARFWN 81 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a~~~~ 81 (134)
++++|.|+ |+|.+|+.+|+++|++++||..+.||+ ++.+|.+..+.+.+...+++.||.++...
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~--~~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSI--TEAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEee--eEEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 56889996 999999999999999999999999998 45666677889999999999999987653
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.21 E-value=4.3e-06 Score=75.89 Aligned_cols=63 Identities=17% Similarity=0.326 Sum_probs=56.3
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEee---CC-HHHHHHHHHhCCCceEE
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGI---CN-KYDVLETIRSKRKEARF 79 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~---~~-~~eI~~~I~k~G~~a~~ 79 (134)
.+.+|.|+ |+|..|+.+|| +|++++||.++.||+.++++.|..+ .+ .+++...+++.||.+..
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 45678996 99999999999 9999999999999999999999753 44 78999999999998765
No 8
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.95 E-value=0.00018 Score=41.76 Aligned_cols=60 Identities=22% Similarity=0.239 Sum_probs=50.0
Q ss_pred EEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEee---CCHHHHHHHHHhCCCc
Q 032780 17 YVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGI---CNKYDVLETIRSKRKE 76 (134)
Q Consensus 17 ~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~---~~~~eI~~~I~k~G~~ 76 (134)
+..+.|. ++|..|...+++.+...+++..+.+++...++.+... .+...+...+...||.
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 66 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYE 66 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCC
Confidence 4568885 9999999999999999999999999999999888742 4666776777777774
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.48 E-value=0.00046 Score=63.39 Aligned_cols=64 Identities=16% Similarity=0.346 Sum_probs=56.5
Q ss_pred EEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCceEEc
Q 032780 17 YVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEARFW 80 (134)
Q Consensus 17 ~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a~~~ 80 (134)
++++.+. |+|.+|+..|++.+..++||..+.+++.++++.+.+..+..++.+.+++.||.+.++
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 5668885 999999999999999999999999999999988876677888888999999987654
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.30 E-value=0.00057 Score=63.41 Aligned_cols=63 Identities=19% Similarity=0.277 Sum_probs=57.0
Q ss_pred eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe--eCCHHHHHHHHHhCCCceEEcCCCCC
Q 032780 23 PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG--ICNKYDVLETIRSKRKEARFWNQEGN 85 (134)
Q Consensus 23 ~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~--~~~~~eI~~~I~k~G~~a~~~~~~~~ 85 (134)
+|+|..|.+.|++++...+||.++.|+..+++.+|.. ..+++.+.+.|...|+++........
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~~~~ 66 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSDSEI 66 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeecccCcc
Confidence 6999999999999999999999999999999999875 37899999999999999988766553
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.27 E-value=0.00086 Score=62.27 Aligned_cols=66 Identities=26% Similarity=0.331 Sum_probs=59.7
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe---eCCHHHHHHHHHhCCCceEEcC
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG---ICNKYDVLETIRSKRKEARFWN 81 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~---~~~~~eI~~~I~k~G~~a~~~~ 81 (134)
+++.|.|. |+|.+|..+|++.|.+++||.++.++..++++.|.. .+.+-++.+.|...|+.+....
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~ 215 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRP 215 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeee
Confidence 68889995 999999999999999999999999999999999875 3688999999999999876554
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.10 E-value=0.0018 Score=59.08 Aligned_cols=65 Identities=20% Similarity=0.232 Sum_probs=53.8
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeC-CHHHHHHHHHhCCCceEEc
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGIC-NKYDVLETIRSKRKEARFW 80 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~-~~~eI~~~I~k~G~~a~~~ 80 (134)
.++.+.+. |+|.+|..++++.+.+++||..+.+++.++++.+..+. ..+++...+++.||.+...
T Consensus 53 ~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 53 TRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred ceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 46678885 99999999999999999999999999999998886431 2267778889999976543
No 13
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=93.96 E-value=0.94 Score=28.49 Aligned_cols=62 Identities=19% Similarity=0.262 Sum_probs=46.5
Q ss_pred EEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe---eCCHHHHHHHHHhCCCceE
Q 032780 17 YVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG---ICNKYDVLETIRSKRKEAR 78 (134)
Q Consensus 17 ~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~---~~~~~eI~~~I~k~G~~a~ 78 (134)
.+.+.+. +.|..|...++..+...+|+....++....++.+.. ..+...+...+...|+..+
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 89 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSS 89 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeE
Confidence 4456675 999999999999999999998888888888766652 2355555566677777643
No 14
>PRK13748 putative mercuric reductase; Provisional
Probab=90.57 E-value=2 Score=37.48 Aligned_cols=63 Identities=16% Similarity=0.227 Sum_probs=50.0
Q ss_pred EEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe--eCCHHHHHHHHHhCCCceEEcCC
Q 032780 20 LMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG--ICNKYDVLETIRSKRKEARFWNQ 82 (134)
Q Consensus 20 l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~--~~~~~eI~~~I~k~G~~a~~~~~ 82 (134)
+.+. ++|.+|..+++..+...+++....+++..+.+.+.. ..+...+...+...|+..+....
T Consensus 4 i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (561)
T PRK13748 4 LKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADA 69 (561)
T ss_pred EEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCc
Confidence 5564 999999999999999999999999999998877763 23556666677888887766555
No 15
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=87.80 E-value=2.4 Score=21.51 Aligned_cols=53 Identities=30% Similarity=0.377 Sum_probs=36.0
Q ss_pred eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEeeC--CHHHHHHHHHhCCC
Q 032780 23 PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGIC--NKYDVLETIRSKRK 75 (134)
Q Consensus 23 ~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~~--~~~eI~~~I~k~G~ 75 (134)
++.|..|...++..+...+|+.....++......+.... ....+...++..++
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (63)
T cd00371 6 GMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAGY 60 (63)
T ss_pred CeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcCC
Confidence 388999999999999889998877777777765555322 33433333444443
No 16
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=83.43 E-value=2.2 Score=27.15 Aligned_cols=33 Identities=27% Similarity=0.489 Sum_probs=22.7
Q ss_pred eEEEEEEeccCHhhH------HHHHHHhhCCCCeeEEEE
Q 032780 16 QYVELMVPLYSHGCE------RKVKKTLTHLKGIYSVNV 48 (134)
Q Consensus 16 ~~v~l~V~M~C~~C~------~kIek~L~~l~GV~~v~V 48 (134)
.++.+.+.+..++|. ..|+++|+.++||.+|+|
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 456666666665554 778889999999998875
No 17
>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=77.87 E-value=8.6 Score=24.14 Aligned_cols=53 Identities=19% Similarity=-0.065 Sum_probs=38.4
Q ss_pred EEEE-eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe--eCCHHHHHHHHHhCCCceEEc
Q 032780 19 ELMV-PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG--ICNKYDVLETIRSKRKEARFW 80 (134)
Q Consensus 19 ~l~V-~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~--~~~~~eI~~~I~k~G~~a~~~ 80 (134)
++.+ ++.|+...-++.++|.+++.- +.+.|.. .....+|.+.+++.||+...+
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 4666 599999999999999997332 4455543 355688999999999975444
No 18
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=76.45 E-value=6.2 Score=30.23 Aligned_cols=46 Identities=22% Similarity=0.333 Sum_probs=35.9
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEecCCCE-------------------EEEEe---eCCHHHHHHHHHh
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDYDQQK-------------------VIVWG---ICNKYDVLETIRS 72 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~~~~k-------------------VtV~~---~~~~~eI~~~I~k 72 (134)
.||-+.+|..+.+++||.++.+-+.++. |.|.. .++.++|++..=+
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 5778888999999999999999998875 44553 3677888876543
No 19
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=76.09 E-value=12 Score=26.10 Aligned_cols=65 Identities=20% Similarity=0.236 Sum_probs=40.7
Q ss_pred eEEEEEE--eccCHhhHHHHHHHhhCCCCeeEEE-----EecCC--CEEEEEe-eCCHHHHHHHHHhCCCceEEcC
Q 032780 16 QYVELMV--PLYSHGCERKVKKTLTHLKGIYSVN-----VDYDQ--QKVIVWG-ICNKYDVLETIRSKRKEARFWN 81 (134)
Q Consensus 16 ~~v~l~V--~M~C~~C~~kIek~L~~l~GV~~v~-----Vd~~~--~kVtV~~-~~~~~eI~~~I~k~G~~a~~~~ 81 (134)
.++.|.| ++.-+.-. -+-..|++++||.-|+ +|..+ -+++|.| +++-++|.+.|.+.|...+.++
T Consensus 6 RRlVLDvlKP~~~p~iv-e~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSiD 80 (97)
T COG1888 6 RRLVLDVLKPHRGPTIV-ELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSID 80 (97)
T ss_pred eeeeeeecCCcCCCcHH-HHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeehh
Confidence 3455555 23233222 3445677888866543 33333 4555665 5899999999999999877654
No 20
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=67.11 E-value=12 Score=26.10 Aligned_cols=65 Identities=20% Similarity=0.204 Sum_probs=40.9
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEE-----EecCCCEE--EEEee-CCHHHHHHHHHhCCCceEEcC
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVN-----VDYDQQKV--IVWGI-CNKYDVLETIRSKRKEARFWN 81 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~-----Vd~~~~kV--tV~~~-~~~~eI~~~I~k~G~~a~~~~ 81 (134)
.++.|.|- -+-+.-. .+-+.|..++||..++ +|..+..+ +|.|. ++.++|.++|.+.|-..+.++
T Consensus 5 rRlVLDVlKP~~p~i~-e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSID 78 (95)
T PF02680_consen 5 RRLVLDVLKPHEPSIV-ELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSID 78 (95)
T ss_dssp EEEEEEEEEESSS-HH-HHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEEE
T ss_pred eEEEEEeecCCCCCHH-HHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEeee
Confidence 45667663 2433333 5667789999987664 44444444 44564 899999999999998776553
No 21
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=62.46 E-value=13 Score=28.93 Aligned_cols=44 Identities=23% Similarity=0.321 Sum_probs=33.4
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEecCCCE-------------------EEEEe---eCCHHHHHHHH
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDYDQQK-------------------VIVWG---ICNKYDVLETI 70 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~~~~k-------------------VtV~~---~~~~~eI~~~I 70 (134)
.||-+.+|..+.+++||.++.+-+.++. |.|.. .++.++|++..
T Consensus 15 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~F 80 (186)
T PRK13014 15 GGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIF 80 (186)
T ss_pred cCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHH
Confidence 4666777888999999999999998875 44443 36778887755
No 22
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=62.46 E-value=17 Score=28.85 Aligned_cols=47 Identities=23% Similarity=0.332 Sum_probs=35.3
Q ss_pred CHhhHHHHHHHhhCCCCeeEEEEecCCCE-------------------EEEEe---eCCHHHHHHHHHh
Q 032780 26 SHGCERKVKKTLTHLKGIYSVNVDYDQQK-------------------VIVWG---ICNKYDVLETIRS 72 (134)
Q Consensus 26 C~~C~~kIek~L~~l~GV~~v~Vd~~~~k-------------------VtV~~---~~~~~eI~~~I~k 72 (134)
-.||-+.+|..+.+++||.++.+-+.++. |.|.. .++.++|++..=+
T Consensus 51 agGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff~ 119 (213)
T PRK00058 51 GMGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFWE 119 (213)
T ss_pred EccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHH
Confidence 46778888899999999999999998552 34443 3677888876643
No 23
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=62.42 E-value=39 Score=22.97 Aligned_cols=43 Identities=16% Similarity=0.193 Sum_probs=30.8
Q ss_pred HHHHHHHhhCCCCeeEEEEecCCCEEEEEe-eCCHHHH---HHHHHh
Q 032780 30 ERKVKKTLTHLKGIYSVNVDYDQQKVIVWG-ICNKYDV---LETIRS 72 (134)
Q Consensus 30 ~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~-~~~~~eI---~~~I~k 72 (134)
...+.+.|..++|++-...|-..+|+.|+- ..+..++ +..|+.
T Consensus 19 ~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~I~~ 65 (87)
T PRK10553 19 ISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIESVRN 65 (87)
T ss_pred HHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHHHHc
Confidence 668899999999998777777788888773 2344444 445554
No 24
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=61.97 E-value=23 Score=26.62 Aligned_cols=42 Identities=19% Similarity=0.332 Sum_probs=33.0
Q ss_pred eEEEEEEe-ccCHhhHHHHHHHhhCCCCeeEEEEecC-CCEEEEE
Q 032780 16 QYVELMVP-LYSHGCERKVKKTLTHLKGIYSVNVDYD-QQKVIVW 58 (134)
Q Consensus 16 ~~v~l~V~-M~C~~C~~kIek~L~~l~GV~~v~Vd~~-~~kVtV~ 58 (134)
...++.|. -.|..|..-|....+++ |+.++.|... ++++.++
T Consensus 100 ~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~~~ 143 (146)
T PF14437_consen 100 RSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVYYW 143 (146)
T ss_pred CeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEEEe
Confidence 56788897 89999999998887775 8888887777 6665543
No 25
>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=59.69 E-value=14 Score=28.29 Aligned_cols=34 Identities=21% Similarity=0.437 Sum_probs=24.2
Q ss_pred EEEEEEeccCHhhH------HHHHHHhhCCCCeeEEEEec
Q 032780 17 YVELMVPLYSHGCE------RKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 17 ~v~l~V~M~C~~C~------~kIek~L~~l~GV~~v~Vd~ 50 (134)
++.+.+.+..++|. ..|+.+|..++||.+++|++
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 45555655555554 44888999999999888874
No 26
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=58.62 E-value=35 Score=21.80 Aligned_cols=43 Identities=23% Similarity=0.244 Sum_probs=31.6
Q ss_pred hhCCCCeeEEEEecCCCEEEE--EeeCCHHHHHHHHHhCCCceEEcC
Q 032780 37 LTHLKGIYSVNVDYDQQKVIV--WGICNKYDVLETIRSKRKEARFWN 81 (134)
Q Consensus 37 L~~l~GV~~v~Vd~~~~kVtV--~~~~~~~eI~~~I~k~G~~a~~~~ 81 (134)
|..++||..+..+- ++.+.+ ....+..+|++.+...|. ..-+.
T Consensus 26 l~~~~~v~~v~~~~-~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f~ 70 (84)
T PF13732_consen 26 LEELPGVESVEQDG-DGKLRIKLEDEETANELLQELIEKGI-IRSFE 70 (84)
T ss_pred HhhCCCeEEEEEeC-CcEEEEEECCcccHHHHHHHHHhCCC-eeEEE
Confidence 88889999987643 443544 455678999999999998 65443
No 27
>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=56.43 E-value=15 Score=24.79 Aligned_cols=21 Identities=24% Similarity=0.370 Sum_probs=17.0
Q ss_pred HHHHHHhhCCCCeeEEEEecC
Q 032780 31 RKVKKTLTHLKGIYSVNVDYD 51 (134)
Q Consensus 31 ~kIek~L~~l~GV~~v~Vd~~ 51 (134)
..++.+|..++|+.++.|++.
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEE
Confidence 457888889999999988854
No 28
>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=51.87 E-value=67 Score=21.16 Aligned_cols=43 Identities=21% Similarity=0.250 Sum_probs=30.7
Q ss_pred hHHHHHHHhhCCCCeeEEEEecCCCEEEEE-eeCCHHHHHHHHHh
Q 032780 29 CERKVKKTLTHLKGIYSVNVDYDQQKVIVW-GICNKYDVLETIRS 72 (134)
Q Consensus 29 C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~-~~~~~~eI~~~I~k 72 (134)
=...+.+.|..++|++-...+-. +|+.|+ ...+..++.+.+..
T Consensus 16 ~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~ 59 (79)
T PF03927_consen 16 RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDA 59 (79)
T ss_dssp CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHH
Confidence 34578899999999986667766 888776 34566666665554
No 29
>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=51.47 E-value=52 Score=20.36 Aligned_cols=50 Identities=22% Similarity=0.097 Sum_probs=35.7
Q ss_pred EEE-eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe--eCCHHHHHHHHHhCCCceEE
Q 032780 20 LMV-PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG--ICNKYDVLETIRSKRKEARF 79 (134)
Q Consensus 20 l~V-~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~--~~~~~eI~~~I~k~G~~a~~ 79 (134)
+.+ ++.|+.-.-+++++| ++.. ++.+.|.. ..+...|.+.+++.||+...
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~ 54 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSV 54 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEE
Confidence 345 489999999999998 5432 23444443 35568999999999998753
No 30
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=49.57 E-value=14 Score=27.86 Aligned_cols=46 Identities=15% Similarity=0.219 Sum_probs=34.4
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEecCCCE--------------EEEEe---eCCHHHHHHHHHh
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDYDQQK--------------VIVWG---ICNKYDVLETIRS 72 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~~~~k--------------VtV~~---~~~~~eI~~~I~k 72 (134)
.||=+.+|..+.+++||.++.+-+.++. |.|.. .++.++|++..=+
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 5788888999999999999999888754 33332 3677888776543
No 31
>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=46.09 E-value=69 Score=19.63 Aligned_cols=33 Identities=12% Similarity=0.198 Sum_probs=24.0
Q ss_pred eEEEEEEeccCHh-hHHHHHHHhhCCCCeeEEEE
Q 032780 16 QYVELMVPLYSHG-CERKVKKTLTHLKGIYSVNV 48 (134)
Q Consensus 16 ~~v~l~V~M~C~~-C~~kIek~L~~l~GV~~v~V 48 (134)
..+.|.+...-.. --..|-+.|++++||.+|.+
T Consensus 41 ~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 41 ANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 3455556544444 77889999999999998864
No 32
>PRK11018 hypothetical protein; Provisional
Probab=45.73 E-value=83 Score=20.47 Aligned_cols=53 Identities=11% Similarity=-0.125 Sum_probs=40.3
Q ss_pred EEEEE-eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEE--eeCCHHHHHHHHHhCCCceEE
Q 032780 18 VELMV-PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVW--GICNKYDVLETIRSKRKEARF 79 (134)
Q Consensus 18 v~l~V-~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~--~~~~~~eI~~~I~k~G~~a~~ 79 (134)
.++.+ ++.|+.-.-+.+++|.+++. ++.+.|. ...+...|.+.+++.||+...
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 56777 59999999999999988742 2334443 345678899999999998754
No 33
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=44.52 E-value=45 Score=27.59 Aligned_cols=30 Identities=27% Similarity=0.496 Sum_probs=25.2
Q ss_pred cCHhhHHHHHHHhhCCCCeeEEEEecCCCE
Q 032780 25 YSHGCERKVKKTLTHLKGIYSVNVDYDQQK 54 (134)
Q Consensus 25 ~C~~C~~kIek~L~~l~GV~~v~Vd~~~~k 54 (134)
--.+|-+.+|..+.+++||.++.+-+.++.
T Consensus 132 fagGCFWg~E~~F~~~~GV~~t~vGYagG~ 161 (283)
T PRK05550 132 FAGGCFWGVEYYFKKLPGVLSVESGYTGGD 161 (283)
T ss_pred EecCCchhhhhhHhhCcCEEEEEEeeCCCC
Confidence 346778888999999999999999888764
No 34
>PRK09577 multidrug efflux protein; Reviewed
Probab=40.31 E-value=81 Score=30.27 Aligned_cols=46 Identities=15% Similarity=0.237 Sum_probs=36.2
Q ss_pred HHHHHHHhhCCCCeeEEEEecCCCEEEEE--------eeCCHHHHHHHHHhCCC
Q 032780 30 ERKVKKTLTHLKGIYSVNVDYDQQKVIVW--------GICNKYDVLETIRSKRK 75 (134)
Q Consensus 30 ~~kIek~L~~l~GV~~v~Vd~~~~kVtV~--------~~~~~~eI~~~I~k~G~ 75 (134)
.+.|+..|++++||.+|+++-....+.|. ..++..+|.++|+..+.
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 46799999999999999998755556653 24788999999987553
No 35
>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=40.14 E-value=1.1e+02 Score=22.45 Aligned_cols=34 Identities=9% Similarity=0.143 Sum_probs=28.8
Q ss_pred cCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEE
Q 032780 25 YSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVW 58 (134)
Q Consensus 25 ~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~ 58 (134)
.=..=+..|.+.+.+++||..+.|=.....+-|.
T Consensus 72 ~~~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 72 DRQQLADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred hHHHHHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 3455678999999999999999998889988775
No 36
>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=39.65 E-value=29 Score=25.95 Aligned_cols=27 Identities=30% Similarity=0.509 Sum_probs=23.7
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEecCCC
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDYDQQ 53 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~~~~ 53 (134)
.||-+.++..+.+++||.++.+-+.++
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 468888899999999999999988876
No 37
>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=38.79 E-value=25 Score=26.20 Aligned_cols=28 Identities=32% Similarity=0.494 Sum_probs=24.0
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEecCCCE
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDYDQQK 54 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~~~~k 54 (134)
.||-+.+|....+++||.++.+-+.++.
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG~ 34 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGGY 34 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCCC
Confidence 5788888999999999999999887763
No 38
>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=37.31 E-value=37 Score=25.20 Aligned_cols=54 Identities=19% Similarity=0.160 Sum_probs=32.7
Q ss_pred EEEEEEeccCHhhHH------HHHHHhhCCCCeeEEEEecCCCEEEEE---e-eCCHHHHHHHHHhCCCc
Q 032780 17 YVELMVPLYSHGCER------KVKKTLTHLKGIYSVNVDYDQQKVIVW---G-ICNKYDVLETIRSKRKE 76 (134)
Q Consensus 17 ~v~l~V~M~C~~C~~------kIek~L~~l~GV~~v~Vd~~~~kVtV~---~-~~~~~eI~~~I~k~G~~ 76 (134)
.+.+.|.++-.+|.. .|+.+|..+ |+.+++|++ +.. + +-=.++-.+.++..|..
T Consensus 26 ~V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~i-----~~~p~Wt~d~it~~gr~~l~~~gia 89 (146)
T TIGR02159 26 GVVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVST-----SLDPPWTTDWITEDAREKLREYGIA 89 (146)
T ss_pred EEEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEeE-----eeCCCCChHHCCHHHHHHHHhcCcc
Confidence 455666566555553 477888876 888777762 222 1 21234557788888863
No 39
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=36.14 E-value=95 Score=29.80 Aligned_cols=45 Identities=18% Similarity=0.343 Sum_probs=34.7
Q ss_pred hHHHHHHHhhCCCCeeEEEEecCCCEEEEE--------eeCCHHHHHHHHHhC
Q 032780 29 CERKVKKTLTHLKGIYSVNVDYDQQKVIVW--------GICNKYDVLETIRSK 73 (134)
Q Consensus 29 C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~--------~~~~~~eI~~~I~k~ 73 (134)
=+..++..|++++||.+|+++-....+.|. ..++..+|..+|+..
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 158 VASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 346788999999999999988655556564 247889999999853
No 40
>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=35.83 E-value=34 Score=20.76 Aligned_cols=29 Identities=24% Similarity=0.321 Sum_probs=14.2
Q ss_pred HHHHHhhC---CCCeeEEEEecCCCEEEEEeeC
Q 032780 32 KVKKTLTH---LKGIYSVNVDYDQQKVIVWGIC 61 (134)
Q Consensus 32 kIek~L~~---l~GV~~v~Vd~~~~kVtV~~~~ 61 (134)
+|+..|.. +++- .+.|...++.|.+.|.+
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 45566655 3333 56777778888888875
No 41
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=33.99 E-value=27 Score=26.93 Aligned_cols=28 Identities=21% Similarity=0.389 Sum_probs=24.1
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEecCCCE
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDYDQQK 54 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~~~~k 54 (134)
.||=+-+|+...+++||.++.+-++++.
T Consensus 13 gGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 13 GGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred ccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 5677778899999999999999888775
No 42
>PRK11670 antiporter inner membrane protein; Provisional
Probab=33.54 E-value=1.7e+02 Score=24.73 Aligned_cols=68 Identities=6% Similarity=0.078 Sum_probs=41.7
Q ss_pred EEEEEEeccCHhh------HHHHHHHhhCCCCeeEEEEecCC------------------CEEEEE---ee----CCHHH
Q 032780 17 YVELMVPLYSHGC------ERKVKKTLTHLKGIYSVNVDYDQ------------------QKVIVW---GI----CNKYD 65 (134)
Q Consensus 17 ~v~l~V~M~C~~C------~~kIek~L~~l~GV~~v~Vd~~~------------------~kVtV~---~~----~~~~e 65 (134)
++.+.+.+.-..| ...++.+|+.++||..+.+.+.. +.+.|. |. ....-
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avN 127 (369)
T PRK11670 48 TLHIELVMPFVWNSAFEELKEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVN 127 (369)
T ss_pred EEEEEEEECCCCchHHHHHHHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHH
Confidence 4455554433333 35688999999999877765433 122333 22 22345
Q ss_pred HHHHHHhCCCceEEcCCCC
Q 032780 66 VLETIRSKRKEARFWNQEG 84 (134)
Q Consensus 66 I~~~I~k~G~~a~~~~~~~ 84 (134)
|...+.+.|+++-+++.+.
T Consensus 128 LA~aLA~~G~rVlLID~D~ 146 (369)
T PRK11670 128 LALALAAEGAKVGILDADI 146 (369)
T ss_pred HHHHHHHCCCcEEEEeCCC
Confidence 6668889999988776654
No 43
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=32.08 E-value=84 Score=22.37 Aligned_cols=33 Identities=30% Similarity=0.590 Sum_probs=24.1
Q ss_pred EEEEEeccCHhh------HHHHHHHhhCCCCeeEEEEec
Q 032780 18 VELMVPLYSHGC------ERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 18 v~l~V~M~C~~C------~~kIek~L~~l~GV~~v~Vd~ 50 (134)
+.+.+.++-.+| ...++.+|..++||..++|++
T Consensus 51 v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 51 VKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred EEEEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEEE
Confidence 444454555666 567899999999999888773
No 44
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=30.41 E-value=1.3e+02 Score=28.91 Aligned_cols=43 Identities=19% Similarity=0.330 Sum_probs=34.0
Q ss_pred HHHHHHhhCCCCeeEEEEecCCCEEEEE--------eeCCHHHHHHHHHhC
Q 032780 31 RKVKKTLTHLKGIYSVNVDYDQQKVIVW--------GICNKYDVLETIRSK 73 (134)
Q Consensus 31 ~kIek~L~~l~GV~~v~Vd~~~~kVtV~--------~~~~~~eI~~~I~k~ 73 (134)
+.++..|++++||.++++.-....+.|. ..++..+|..+|+..
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 5689999999999999987665556665 247889999999854
No 45
>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=30.20 E-value=87 Score=28.21 Aligned_cols=39 Identities=15% Similarity=0.226 Sum_probs=31.9
Q ss_pred hhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCce
Q 032780 37 LTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEA 77 (134)
Q Consensus 37 L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a 77 (134)
|..+.+| +.+|..+++|+|.+.+...+|.+.+.+.|+..
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 4455666 46677789999999999999999999999864
No 46
>PRK11023 outer membrane lipoprotein; Provisional
Probab=28.96 E-value=1.6e+02 Score=22.50 Aligned_cols=47 Identities=23% Similarity=0.224 Sum_probs=34.2
Q ss_pred ccCHhhHHHHHHHhhCCCCee---EEEEecCCCEEEEEeeCCHHHHHHHH
Q 032780 24 LYSHGCERKVKKTLTHLKGIY---SVNVDYDQQKVIVWGICNKYDVLETI 70 (134)
Q Consensus 24 M~C~~C~~kIek~L~~l~GV~---~v~Vd~~~~kVtV~~~~~~~eI~~~I 70 (134)
+.-..=..+|+.+|..-+++. .+.|...++.|++.|.++.++.....
T Consensus 45 ~dD~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A 94 (191)
T PRK11023 45 VDDGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERA 94 (191)
T ss_pred ehhHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHH
Confidence 455566788889988777663 57888889999999987655444433
No 47
>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=28.94 E-value=1.4e+02 Score=28.69 Aligned_cols=44 Identities=18% Similarity=0.323 Sum_probs=34.9
Q ss_pred HHHHHHHhhCCCCeeEEEEecCCCEEEEE--------eeCCHHHHHHHHHhC
Q 032780 30 ERKVKKTLTHLKGIYSVNVDYDQQKVIVW--------GICNKYDVLETIRSK 73 (134)
Q Consensus 30 ~~kIek~L~~l~GV~~v~Vd~~~~kVtV~--------~~~~~~eI~~~I~k~ 73 (134)
...++..|++++||.+|++.-....+.|. ..++..+|..+|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~dV~~~i~~~ 210 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFGSQYAMRIWLDPAKLNSYQLTPADVISAIQAQ 210 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 35789999999999999998774456665 247889999999873
No 48
>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=28.89 E-value=1.5e+02 Score=18.54 Aligned_cols=53 Identities=17% Similarity=0.043 Sum_probs=38.6
Q ss_pred EEE-eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEe--eCCHHHHHHHHHhCCCceEEcC
Q 032780 20 LMV-PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWG--ICNKYDVLETIRSKRKEARFWN 81 (134)
Q Consensus 20 l~V-~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~--~~~~~eI~~~I~k~G~~a~~~~ 81 (134)
+.+ ++.|+.=.-+.+++|.+++. ++.+.|.. .....+|.+..++.||+.....
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 344 48899988899999988742 34455543 3677899999999999876443
No 49
>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=28.57 E-value=66 Score=24.94 Aligned_cols=24 Identities=21% Similarity=0.380 Sum_probs=19.8
Q ss_pred hhHHHHHHHhhCCCCeeEEEEecC
Q 032780 28 GCERKVKKTLTHLKGIYSVNVDYD 51 (134)
Q Consensus 28 ~C~~kIek~L~~l~GV~~v~Vd~~ 51 (134)
.=...+++.|+.++||.+++|++.
T Consensus 115 ale~eL~~tI~~i~gV~~A~V~l~ 138 (206)
T PF01514_consen 115 ALEGELERTIESIDGVESARVHLV 138 (206)
T ss_dssp HHHHHHHHHHTTSTTEEEEEEEEE
T ss_pred HHHHHHHHHHHcCCCeeEEEEEEe
Confidence 345678999999999999998854
No 50
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=28.54 E-value=1.6e+02 Score=18.51 Aligned_cols=33 Identities=18% Similarity=0.300 Sum_probs=23.7
Q ss_pred ceEEEEEEeccCHhhHHHHHHHhhCCCCeeEEE
Q 032780 15 AQYVELMVPLYSHGCERKVKKTLTHLKGIYSVN 47 (134)
Q Consensus 15 ~~~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~ 47 (134)
...+.|.|...-..=-..|-..|++++||.+|.
T Consensus 47 ~~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 47 TARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 345566666555555667888899999998774
No 51
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=28.43 E-value=1.6e+02 Score=18.70 Aligned_cols=28 Identities=18% Similarity=0.096 Sum_probs=19.6
Q ss_pred eccCHhhHHHHHHHhhCC----CCeeEEEEecC
Q 032780 23 PLYSHGCERKVKKTLTHL----KGIYSVNVDYD 51 (134)
Q Consensus 23 ~M~C~~C~~kIek~L~~l----~GV~~v~Vd~~ 51 (134)
.-.|+.|. ++.+.|..+ .||.-..+|..
T Consensus 8 ~~~C~~C~-~a~~~L~~l~~~~~~i~~~~idi~ 39 (85)
T PRK11200 8 RPGCPYCV-RAKELAEKLSEERDDFDYRYVDIH 39 (85)
T ss_pred CCCChhHH-HHHHHHHhhcccccCCcEEEEECC
Confidence 36899999 667777775 57766666654
No 52
>PF04891 NifQ: NifQ; InterPro: IPR006975 NifQ is involved in early stages of the biosynthesis of the iron-molybdenum cofactor (FeMo-co) [], which is an integral part of the active site of dinitrogenase []. The conserved C-terminal cysteine residues may be involved in metal binding [].; GO: 0030151 molybdenum ion binding, 0009399 nitrogen fixation
Probab=27.88 E-value=20 Score=27.34 Aligned_cols=9 Identities=44% Similarity=0.563 Sum_probs=7.4
Q ss_pred HHHHhhccC
Q 032780 123 ALKKVFSRS 131 (134)
Q Consensus 123 ~~~~~~~~~ 131 (134)
.|||-|||.
T Consensus 133 rWKKFfYrq 141 (167)
T PF04891_consen 133 RWKKFFYRQ 141 (167)
T ss_pred cHHHHHHHH
Confidence 499999975
No 53
>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=27.42 E-value=1.1e+02 Score=20.03 Aligned_cols=23 Identities=13% Similarity=0.338 Sum_probs=17.2
Q ss_pred cCCCEEEEEeeCCHHHHHHHHHh
Q 032780 50 YDQQKVIVWGICNKYDVLETIRS 72 (134)
Q Consensus 50 ~~~~kVtV~~~~~~~eI~~~I~k 72 (134)
+.+|+++|+|.-+.+++..++++
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 56789999988787777666554
No 54
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=27.27 E-value=1.4e+02 Score=18.92 Aligned_cols=33 Identities=21% Similarity=0.162 Sum_probs=21.7
Q ss_pred eEEEEEEeccCHhhHHHHHHHhhCCCCeeEEEEec
Q 032780 16 QYVELMVPLYSHGCERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 16 ~~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~Vd~ 50 (134)
..+++-..-.|+.|. ++++.|... ||.-..+|.
T Consensus 8 ~~V~ly~~~~Cp~C~-~ak~~L~~~-gi~y~~idi 40 (79)
T TIGR02190 8 ESVVVFTKPGCPFCA-KAKATLKEK-GYDFEEIPL 40 (79)
T ss_pred CCEEEEECCCCHhHH-HHHHHHHHc-CCCcEEEEC
Confidence 345555568999999 677777654 665444443
No 55
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=27.17 E-value=1.7e+02 Score=19.27 Aligned_cols=30 Identities=23% Similarity=0.262 Sum_probs=19.3
Q ss_pred EEEEEEeccCHhhHHHHHHHhhCCCCeeEEEE
Q 032780 17 YVELMVPLYSHGCERKVKKTLTHLKGIYSVNV 48 (134)
Q Consensus 17 ~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~V 48 (134)
++++-|+ -+.....|.+.|.++.+|..+++
T Consensus 46 riti~v~--~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 46 NIELTVA--SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred EEEEEEC--CCchHHHHHHHHhcCcCeEEEEE
Confidence 4444443 46677777777777777776654
No 56
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.00 E-value=1.1e+02 Score=21.47 Aligned_cols=22 Identities=18% Similarity=0.336 Sum_probs=19.3
Q ss_pred hCCCCeeEEEEecCCCEEEEEe
Q 032780 38 THLKGIYSVNVDYDQQKVIVWG 59 (134)
Q Consensus 38 ~~l~GV~~v~Vd~~~~kVtV~~ 59 (134)
...+|++.++++..++++-|++
T Consensus 37 as~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 37 ASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EecCCceEEEEecccceEEEec
Confidence 4568999999999999999985
No 57
>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=26.78 E-value=74 Score=19.73 Aligned_cols=40 Identities=10% Similarity=0.240 Sum_probs=24.2
Q ss_pred HHHHhhCCCCeeEEEEecC----CC-EEEEEeeCCHHHHHHHHHh
Q 032780 33 VKKTLTHLKGIYSVNVDYD----QQ-KVIVWGICNKYDVLETIRS 72 (134)
Q Consensus 33 Iek~L~~l~GV~~v~Vd~~----~~-kVtV~~~~~~~eI~~~I~k 72 (134)
||.+|.+++||.++.|=.. .+ ++...-..+.++|.+.+++
T Consensus 2 IE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~~~~~i~~~~~~ 46 (73)
T PF13193_consen 2 IESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVLDEEEIRDHLRD 46 (73)
T ss_dssp HHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEEHHHHHHHHHHH
T ss_pred HHHHHhcCCCccEEEEEEEEcccccccceeEEEeeecccccchhh
Confidence 7899999999988754222 12 3321111144778777775
No 58
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=26.67 E-value=1.1e+02 Score=20.82 Aligned_cols=24 Identities=25% Similarity=0.484 Sum_probs=20.2
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEec
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~ 50 (134)
.+-...++.++++++||+++++-.
T Consensus 61 ~~~td~lee~i~~~e~Vqsvei~~ 84 (88)
T PRK00435 61 EGGTEPVEEAFANVEGVESVEVEE 84 (88)
T ss_pred CcCcHHHHHHHhccCCCcEEEEEE
Confidence 466789999999999999998753
No 59
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=26.44 E-value=59 Score=24.23 Aligned_cols=50 Identities=14% Similarity=0.127 Sum_probs=32.3
Q ss_pred ccCHhhHHHHHHHhhCCCCeeEEEEecCCC-EEEEEeeCCHHHHHHHHHhC
Q 032780 24 LYSHGCERKVKKTLTHLKGIYSVNVDYDQQ-KVIVWGICNKYDVLETIRSK 73 (134)
Q Consensus 24 M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~-kVtV~~~~~~~eI~~~I~k~ 73 (134)
-+|.+--...+++|++|+.+.-|+-+...+ +++-.+..+.++|...|+..
T Consensus 91 h~~~as~~i~rkvlQ~Le~~~~ve~hp~gGR~lt~~GqrdldrIa~~i~~~ 141 (143)
T KOG3411|consen 91 HFCDASGGIARKVLQALEKMGIVEKHPKGGRRLTEQGQRDLDRIAGQIREE 141 (143)
T ss_pred hhhccccHHHHHHHHHHHhCCceeeCCCCcceeCcccchhHHHHHHHHHhc
Confidence 356544445555555666666666777765 44556888899998887753
No 60
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=26.36 E-value=66 Score=26.18 Aligned_cols=24 Identities=25% Similarity=0.462 Sum_probs=19.1
Q ss_pred HhhHHHHHHHhhCCCCeeEEEEec
Q 032780 27 HGCERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~v~Vd~ 50 (134)
.+=+..+++.|++++||.+++|..
T Consensus 108 ~~~eQ~le~tLs~mDGVi~ArV~I 131 (246)
T COG4669 108 YAKEQQLEQTLSKMDGVISARVHI 131 (246)
T ss_pred HHHHHHHHHHHHhcCceEEEEEEE
Confidence 455788999999999998776543
No 61
>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=25.92 E-value=72 Score=21.77 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=19.7
Q ss_pred hhHHHHHHHhhCCCCeeEEEEec
Q 032780 28 GCERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 28 ~C~~kIek~L~~l~GV~~v~Vd~ 50 (134)
+-...|+.++++++||+++++-.
T Consensus 62 g~td~lee~i~~ve~V~svev~~ 84 (88)
T TIGR00489 62 GGTEAAEESLSGIEGVESVEVTD 84 (88)
T ss_pred cChHHHHHHHhcCCCccEEEEEE
Confidence 55689999999999999998753
No 62
>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=24.93 E-value=3e+02 Score=20.66 Aligned_cols=31 Identities=13% Similarity=0.148 Sum_probs=27.5
Q ss_pred hhHHHHHHHhhCCCCeeEEEEecCCCEEEEE
Q 032780 28 GCERKVKKTLTHLKGIYSVNVDYDQQKVIVW 58 (134)
Q Consensus 28 ~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~ 58 (134)
.=+.+|.+.+.+++||.++.+=...+.+.|-
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 6688999999999999999998888888875
No 63
>PF00434 VP7: Glycoprotein VP7; InterPro: IPR001963 Glycoprotein VP7, also known as outer shell glycoprotein, is a serotype-specific antigen, and is the major neutralisation antigen. It is found in the dsRNA rotaviruses.; GO: 0019028 viral capsid; PDB: 2KVL_A 3IYU_I 3GZT_L 3FMG_A.
Probab=24.40 E-value=24 Score=29.73 Aligned_cols=18 Identities=28% Similarity=0.399 Sum_probs=16.1
Q ss_pred HHhhhhhccHHHHHHhhc
Q 032780 112 ILIRAQSFKWKALKKVFS 129 (134)
Q Consensus 112 ~~~~~~~~~~~~~~~~~~ 129 (134)
..-|.++.|||.|=.+|+
T Consensus 280 q~~R~mriNwKkWWqvFY 297 (326)
T PF00434_consen 280 QTERMMRINWKKWWQVFY 297 (326)
T ss_dssp HHTTEEEEHHSHHHHHHH
T ss_pred ccccceeecHHhhhhhhh
Confidence 467889999999999998
No 64
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=24.28 E-value=1.6e+02 Score=21.33 Aligned_cols=29 Identities=10% Similarity=0.226 Sum_probs=23.5
Q ss_pred EEEEEEe-ccCHhhHHHHHHHhhCCCCeeE
Q 032780 17 YVELMVP-LYSHGCERKVKKTLTHLKGIYS 45 (134)
Q Consensus 17 ~v~l~V~-M~C~~C~~kIek~L~~l~GV~~ 45 (134)
++.+-.+ -.|.+|..-|++-...-+.|.-
T Consensus 98 ~i~l~te~~pC~SC~~vi~qF~~~~pni~~ 127 (133)
T PF14424_consen 98 TIDLFTELPPCESCSNVIEQFKKDFPNIKV 127 (133)
T ss_pred eEEEEecCCcChhHHHHHHHHHHHCCCcEE
Confidence 4555556 6899999999999999888863
No 65
>PRK11282 glcE glycolate oxidase FAD binding subunit; Provisional
Probab=23.59 E-value=1.3e+02 Score=25.31 Aligned_cols=38 Identities=8% Similarity=0.019 Sum_probs=30.6
Q ss_pred hhCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCc
Q 032780 37 LTHLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKE 76 (134)
Q Consensus 37 L~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~ 76 (134)
++++.+|. ++|.....++|...+...+|.+.+.+.|+.
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 34556663 567778899999889999999999999974
No 66
>PRK11023 outer membrane lipoprotein; Provisional
Probab=23.36 E-value=2.4e+02 Score=21.46 Aligned_cols=44 Identities=18% Similarity=0.252 Sum_probs=30.9
Q ss_pred HhhHHHHHHHhhCCCCeeE--EEEecCCCEEEEEeeCCHHHHHHHH
Q 032780 27 HGCERKVKKTLTHLKGIYS--VNVDYDQQKVIVWGICNKYDVLETI 70 (134)
Q Consensus 27 ~~C~~kIek~L~~l~GV~~--v~Vd~~~~kVtV~~~~~~~eI~~~I 70 (134)
..=..+|+.+|...+++.. ++|...++.|.+.|.++.++..+++
T Consensus 126 ~~It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e~~~a~ 171 (191)
T PRK11023 126 TWITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQREAKAAA 171 (191)
T ss_pred HHHHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHHHHHHH
Confidence 3467788888887777664 4555568999999887766654443
No 67
>PRK10638 glutaredoxin 3; Provisional
Probab=23.20 E-value=1.8e+02 Score=18.43 Aligned_cols=32 Identities=19% Similarity=0.239 Sum_probs=19.7
Q ss_pred EEEEEEeccCHhhHHHHHHHhhCCCCeeEEEEec
Q 032780 17 YVELMVPLYSHGCERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 17 ~v~l~V~M~C~~C~~kIek~L~~l~GV~~v~Vd~ 50 (134)
++++-..-.|+.|. +++..|... ||.-..+|.
T Consensus 3 ~v~ly~~~~Cp~C~-~a~~~L~~~-gi~y~~~dv 34 (83)
T PRK10638 3 NVEIYTKATCPFCH-RAKALLNSK-GVSFQEIPI 34 (83)
T ss_pred cEEEEECCCChhHH-HHHHHHHHc-CCCcEEEEC
Confidence 34444457899998 666677654 665444443
No 68
>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=22.81 E-value=1.5e+02 Score=20.40 Aligned_cols=46 Identities=17% Similarity=0.158 Sum_probs=24.6
Q ss_pred HHHHHhhCCCCeeEEEEecCCCEEEEEe---eCCHHHHHHHHHhCCCce
Q 032780 32 KVKKTLTHLKGIYSVNVDYDQQKVIVWG---ICNKYDVLETIRSKRKEA 77 (134)
Q Consensus 32 kIek~L~~l~GV~~v~Vd~~~~kVtV~~---~~~~~eI~~~I~k~G~~a 77 (134)
.+.=.|+..++|-++-+|.-++...|.. ..+.++|++.+.+.+..+
T Consensus 15 ~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kpEV 63 (88)
T PF11491_consen 15 VKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKPEV 63 (88)
T ss_dssp HHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HHHTTT-S
T ss_pred HHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHHhcChhh
Confidence 4445588999999999998877666653 478999999999987643
No 69
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=22.67 E-value=2.5e+02 Score=27.30 Aligned_cols=47 Identities=21% Similarity=0.294 Sum_probs=36.0
Q ss_pred hHHHHHHHhhCCCCeeEEEEecC-CCEEEEE--------eeCCHHHHHHHHHhCCC
Q 032780 29 CERKVKKTLTHLKGIYSVNVDYD-QQKVIVW--------GICNKYDVLETIRSKRK 75 (134)
Q Consensus 29 C~~kIek~L~~l~GV~~v~Vd~~-~~kVtV~--------~~~~~~eI~~~I~k~G~ 75 (134)
-...|+..|+.++||.+|++.-. ...+.|+ ..+++.+|..+|+....
T Consensus 156 ~~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~~ai~~qN~ 211 (1009)
T COG0841 156 AASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQSAIRAQNV 211 (1009)
T ss_pred HHHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHHHHHHHhCc
Confidence 45678999999999999998866 3455665 24789999999986443
No 70
>COG0277 GlcD FAD/FMN-containing dehydrogenases [Energy production and conversion]
Probab=22.66 E-value=93 Score=26.01 Aligned_cols=39 Identities=13% Similarity=0.073 Sum_probs=31.2
Q ss_pred CCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCceEE
Q 032780 39 HLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEARF 79 (134)
Q Consensus 39 ~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a~~ 79 (134)
++.+|. ++|..+++++|...+...+|.+.++..|+..-+
T Consensus 83 ~mn~i~--~id~~~~~~~v~aGv~l~~l~~~l~~~G~~~p~ 121 (459)
T COG0277 83 RLNRIL--EIDPEDGTATVQAGVTLEDLEKALAPHGLFLPV 121 (459)
T ss_pred hhcchh--ccCcCCCEEEEcCCccHHHHHHHHHHcCCccCC
Confidence 344443 678889999999989999999999999985543
No 71
>PHA01634 hypothetical protein
Probab=22.37 E-value=34 Score=25.72 Aligned_cols=17 Identities=24% Similarity=0.540 Sum_probs=13.0
Q ss_pred EEEEe-ccCHhhHHHHHH
Q 032780 19 ELMVP-LYSHGCERKVKK 35 (134)
Q Consensus 19 ~l~V~-M~C~~C~~kIek 35 (134)
-+.|- |+|++|+.+|.-
T Consensus 92 ~~Di~~iDCeGCE~~l~v 109 (156)
T PHA01634 92 DVDIFVMDCEGCEEKLNV 109 (156)
T ss_pred CcceEEEEccchHHhcCH
Confidence 35665 999999988753
No 72
>PRK04435 hypothetical protein; Provisional
Probab=22.19 E-value=2.4e+02 Score=20.57 Aligned_cols=33 Identities=18% Similarity=0.270 Sum_probs=24.2
Q ss_pred eEEEEEEec-cCHhhHHHHHHHhhCCCCeeEEEE
Q 032780 16 QYVELMVPL-YSHGCERKVKKTLTHLKGIYSVNV 48 (134)
Q Consensus 16 ~~v~l~V~M-~C~~C~~kIek~L~~l~GV~~v~V 48 (134)
..+.|.|.. +-......+-..|++++||.+|++
T Consensus 110 a~vs~tVevs~~~~~L~~Li~~L~~i~gV~~V~i 143 (147)
T PRK04435 110 ANVTISIDTSSMEGDIDELLEKLRNLDGVEKVEL 143 (147)
T ss_pred EEEEEEEEeCChHHHHHHHHHHHHcCCCcEEEEE
Confidence 345566653 344578889999999999998865
No 73
>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=21.90 E-value=3.5e+02 Score=20.78 Aligned_cols=49 Identities=20% Similarity=0.008 Sum_probs=36.8
Q ss_pred eccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEE--eeCCHHHHHHHHHhCCCceEEc
Q 032780 23 PLYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVW--GICNKYDVLETIRSKRKEARFW 80 (134)
Q Consensus 23 ~M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~--~~~~~~eI~~~I~k~G~~a~~~ 80 (134)
++.|+.=.-+.+++|.+++. .+.++|. .....+.|.+.+++.||+....
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~~~G~~v~~~ 55 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFATSLGYEVEVE 55 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 47899999999999998752 2233333 4467789999999999987643
No 74
>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=21.56 E-value=95 Score=23.92 Aligned_cols=23 Identities=26% Similarity=0.559 Sum_probs=19.1
Q ss_pred hhHHHHHHHhhCCCCeeEEEEec
Q 032780 28 GCERKVKKTLTHLKGIYSVNVDY 50 (134)
Q Consensus 28 ~C~~kIek~L~~l~GV~~v~Vd~ 50 (134)
+=...+++.|+.++||..++|++
T Consensus 107 ale~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 107 AIEQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHHHhcCCeeeeEEEE
Confidence 45667889999999999888865
No 75
>TIGR01679 bact_FAD_ox FAD-linked oxidoreductase. This model represents a family of bacterial oxidoreductases with covalently linked FAD, closely related to two different eukaryotic oxidases, L-gulonolactone oxidase (EC 1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase (EC 1.1.3.37) from Saccharomyces cerevisiae.
Probab=21.13 E-value=1.6e+02 Score=25.13 Aligned_cols=38 Identities=16% Similarity=0.045 Sum_probs=30.2
Q ss_pred hCCCCeeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCCce
Q 032780 38 THLKGIYSVNVDYDQQKVIVWGICNKYDVLETIRSKRKEA 77 (134)
Q Consensus 38 ~~l~GV~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~~a 77 (134)
.++.+|. .+|..+++|+|.+.+...+|.+.+.+.|+..
T Consensus 58 ~~l~~i~--~~d~~~~~v~v~aG~~l~~l~~~L~~~G~~l 95 (419)
T TIGR01679 58 TGLQGVV--DVDQPTGLATVEAGTRLGALGPQLAQRGLGL 95 (419)
T ss_pred hHcCCce--eecCCCCEEEEcCCCCHHHHHHHHHHcCCcc
Confidence 3444552 5677789999999999999999999999854
No 76
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=20.72 E-value=1e+02 Score=24.99 Aligned_cols=22 Identities=18% Similarity=0.520 Sum_probs=19.3
Q ss_pred HHHHHHHhhCCCCeeEEEEecC
Q 032780 30 ERKVKKTLTHLKGIYSVNVDYD 51 (134)
Q Consensus 30 ~~kIek~L~~l~GV~~v~Vd~~ 51 (134)
...+++.|+.++||.+++|++.
T Consensus 109 egELarTI~~idgV~~ArVhL~ 130 (249)
T PRK15348 109 EQRIEGMLSQMEGVINAKVTIA 130 (249)
T ss_pred HHHHHHHHHhCCCeeEeEEEEE
Confidence 6789999999999999988765
No 77
>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=20.71 E-value=2.7e+02 Score=18.56 Aligned_cols=54 Identities=13% Similarity=-0.008 Sum_probs=41.3
Q ss_pred EEeccCHhhHHHHHHHhhCCCC-eeEEEEecCCCEEEEEeeCCHHHHHHHHHhCCC
Q 032780 21 MVPLYSHGCERKVKKTLTHLKG-IYSVNVDYDQQKVIVWGICNKYDVLETIRSKRK 75 (134)
Q Consensus 21 ~V~M~C~~C~~kIek~L~~l~G-V~~v~Vd~~~~kVtV~~~~~~~eI~~~I~k~G~ 75 (134)
+|.-+=..+..-+.+.|....+ -..+.|+..++.+.|.|+. ..+|.+.+...|+
T Consensus 33 kI~GD~~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~-~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 33 KIEGDIWALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDH-VEEVKKWLLEKGF 87 (87)
T ss_pred eecCCHHHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCcc-HHHHHHHHHHCcC
Confidence 4555667788888888866554 2357788999999999974 7888888888885
No 78
>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=20.23 E-value=1.6e+02 Score=24.25 Aligned_cols=31 Identities=19% Similarity=0.335 Sum_probs=26.8
Q ss_pred hhHHHHHHHhhCCCCeeEEEEecCCCEEEEE
Q 032780 28 GCERKVKKTLTHLKGIYSVNVDYDQQKVIVW 58 (134)
Q Consensus 28 ~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~ 58 (134)
.-...|+++|.+++||+.+.+--..+++.+.
T Consensus 87 tTy~Avk~aLL~~~gv~haNI~SsaGtiniY 117 (291)
T PF03434_consen 87 TTYEAVKSALLNLNGVEHANIKSSAGTINIY 117 (291)
T ss_pred chHHHHHHHhcCCCCceeeeeecCCCeeEEE
Confidence 3456899999999999999999889998864
No 79
>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=20.19 E-value=3.8e+02 Score=20.05 Aligned_cols=69 Identities=12% Similarity=0.056 Sum_probs=48.5
Q ss_pred eEEEEEEe----ccCHhhHHHHHHHhhCCCCeeEEEEecCCCEEEEEee-------CCHHHHHHHHHhCCCceEEcCCCC
Q 032780 16 QYVELMVP----LYSHGCERKVKKTLTHLKGIYSVNVDYDQQKVIVWGI-------CNKYDVLETIRSKRKEARFWNQEG 84 (134)
Q Consensus 16 ~~v~l~V~----M~C~~C~~kIek~L~~l~GV~~v~Vd~~~~kVtV~~~-------~~~~eI~~~I~k~G~~a~~~~~~~ 84 (134)
+++.++.+ +.-..-...|++.+-.-.||.++.+|..++.|.|... -...-+.+...+.|..+......+
T Consensus 37 KRIvvR~dps~l~~~e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 37 KRIVIRPDPSVLKPPEEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred ceEEEcCChhhcCCHHHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 45555552 4456666677777776789999999999999999732 233445666678999888765544
No 80
>PF08478 POTRA_1: POTRA domain, FtsQ-type; InterPro: IPR013685 FtsQ/DivIB bacterial division proteins (IPR005548 from INTERPRO) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts []. ; PDB: 2ALJ_A 2VH1_B 3J00_Z 2VH2_B.
Probab=20.12 E-value=1.9e+02 Score=17.47 Aligned_cols=29 Identities=21% Similarity=0.245 Sum_probs=21.8
Q ss_pred HHHHHHHhhCCCCeeEEEEecC-CCEEEEE
Q 032780 30 ERKVKKTLTHLKGIYSVNVDYD-QQKVIVW 58 (134)
Q Consensus 30 ~~kIek~L~~l~GV~~v~Vd~~-~~kVtV~ 58 (134)
...+++.|.+++.|.++.|... -+++.|.
T Consensus 36 ~~~~~~~l~~~p~V~~v~V~r~~P~~l~I~ 65 (69)
T PF08478_consen 36 LKKIEQRLEKLPWVKSVSVSRRFPNTLEIK 65 (69)
T ss_dssp HHHHHHCCCCTTTEEEEEEEEETTTEEEEE
T ss_pred HHHHHHHHHcCCCEEEEEEEEeCCCEEEEE
Confidence 4578889999999999988744 2555553
Done!