Query 033325
Match_columns 122
No_of_seqs 121 out of 841
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 12:32:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033325.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033325hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00140 rpl6 ribosomal protei 100.0 2.1E-47 4.5E-52 291.5 14.6 108 12-121 71-178 (178)
2 TIGR03654 L6_bact ribosomal pr 100.0 3.1E-46 6.7E-51 284.3 14.6 107 11-119 69-175 (175)
3 PRK05498 rplF 50S ribosomal pr 100.0 4.1E-46 8.8E-51 284.1 14.9 109 11-121 70-178 (178)
4 COG0097 RplF Ribosomal protein 100.0 1.3E-45 2.8E-50 282.5 13.0 109 11-121 70-178 (178)
5 KOG3254 Mitochondrial/chloropl 100.0 4.9E-43 1.1E-47 269.5 10.7 108 12-121 104-211 (211)
6 PTZ00027 60S ribosomal protein 100.0 5.1E-31 1.1E-35 203.5 13.0 104 12-116 75-184 (190)
7 PRK05518 rpl6p 50S ribosomal p 100.0 5.3E-31 1.2E-35 202.0 12.3 103 12-118 73-179 (180)
8 TIGR03653 arch_L6P archaeal ri 100.0 2.6E-30 5.6E-35 196.6 12.1 100 12-115 67-170 (170)
9 PTZ00179 60S ribosomal protein 100.0 7.1E-30 1.5E-34 197.0 12.1 102 12-116 74-183 (189)
10 PF00347 Ribosomal_L6: Ribosom 98.6 4E-09 8.7E-14 69.1 -0.9 70 32-106 2-75 (77)
11 KOG3255 60S ribosomal protein 96.6 0.00018 3.9E-09 55.7 -2.4 86 5-90 69-160 (179)
12 cd02393 PNPase_KH Polynucleoti 68.4 14 0.00031 23.1 4.4 30 62-91 31-60 (61)
13 PF00347 Ribosomal_L6: Ribosom 63.3 7.6 0.00016 24.7 2.4 20 60-80 1-20 (77)
14 CHL00140 rpl6 ribosomal protei 60.8 9.6 0.00021 29.1 3.0 22 57-79 8-29 (178)
15 PF12646 DUF3783: Domain of un 60.5 13 0.00027 23.3 3.0 29 73-101 3-31 (58)
16 TIGR03654 L6_bact ribosomal pr 59.2 11 0.00023 28.7 3.0 21 58-79 8-28 (175)
17 PTZ00179 60S ribosomal protein 56.3 13 0.00028 28.8 3.0 25 57-82 8-32 (189)
18 PRK05498 rplF 50S ribosomal pr 55.7 13 0.00029 28.3 2.9 23 57-80 8-30 (178)
19 PRK14443 acylphosphatase; Prov 54.7 4.3 9.4E-05 28.0 0.1 56 29-97 13-68 (93)
20 PRK14420 acylphosphatase; Prov 53.7 2.8 6E-05 28.4 -1.0 55 29-97 11-65 (91)
21 PRK14434 acylphosphatase; Prov 53.6 5.2 0.00011 27.4 0.4 57 29-97 11-68 (92)
22 TIGR03653 arch_L6P archaeal ri 53.0 16 0.00034 27.9 3.0 21 58-79 4-24 (170)
23 PTZ00027 60S ribosomal protein 52.1 16 0.00035 28.3 3.0 24 57-81 9-32 (190)
24 PRK05518 rpl6p 50S ribosomal p 52.1 17 0.00036 28.0 3.0 22 57-79 9-30 (180)
25 PRK14431 acylphosphatase; Prov 49.6 9.8 0.00021 25.9 1.3 55 29-97 11-65 (89)
26 COG1072 CoaA Panthothenate kin 48.4 13 0.00029 30.8 2.0 37 44-81 161-197 (283)
27 smart00099 btg1 tob/btg1 famil 47.1 27 0.00059 25.0 3.2 26 79-104 22-56 (108)
28 PRK14424 acylphosphatase; Prov 45.7 6.2 0.00013 27.2 -0.2 53 28-93 15-67 (94)
29 PRK14446 acylphosphatase; Prov 44.5 12 0.00026 25.5 1.0 51 29-92 11-61 (88)
30 cd01231 PH_Lnk LNK-family Plec 42.0 61 0.0013 23.3 4.4 37 57-93 67-106 (107)
31 PRK14449 acylphosphatase; Prov 41.5 5.5 0.00012 27.0 -1.0 53 29-94 12-64 (90)
32 PRK14256 phosphate ABC transpo 41.0 1.4E+02 0.0031 22.8 6.8 54 59-114 18-75 (252)
33 cd02394 vigilin_like_KH K homo 38.1 73 0.0016 19.2 3.9 20 71-91 42-61 (62)
34 PRK14428 acylphosphatase; Prov 37.4 7.6 0.00016 27.0 -0.8 53 28-93 16-68 (97)
35 PRK14421 acylphosphatase; Prov 36.8 11 0.00023 26.4 -0.1 54 26-93 10-64 (99)
36 PF11280 DUF3081: Protein of u 36.6 27 0.00059 23.7 1.8 24 34-59 38-61 (79)
37 PRK14436 acylphosphatase; Prov 36.6 9.2 0.0002 26.1 -0.5 52 29-93 13-64 (91)
38 PRK14242 phosphate transporter 36.0 1.7E+02 0.0036 22.4 6.4 54 59-113 20-76 (253)
39 PF00013 KH_1: KH domain syndr 35.0 1E+02 0.0022 18.4 4.7 28 63-91 30-60 (60)
40 PRK03341 arginine repressor; P 34.2 1.1E+02 0.0024 23.2 5.1 57 40-99 104-167 (168)
41 PRK14245 phosphate ABC transpo 34.1 1.7E+02 0.0036 22.4 6.1 54 60-114 18-74 (250)
42 PRK14429 acylphosphatase; Prov 34.0 14 0.0003 25.0 0.0 55 29-97 11-65 (90)
43 PF14470 bPH_3: Bacterial PH d 33.0 1.2E+02 0.0026 19.4 4.5 31 62-93 66-96 (96)
44 PRK14423 acylphosphatase; Prov 32.3 16 0.00035 24.8 0.1 52 29-93 14-65 (92)
45 PRK14433 acylphosphatase; Prov 30.4 14 0.0003 24.9 -0.4 52 29-93 10-61 (87)
46 PF05137 PilN: Fimbrial assemb 29.5 1.3E+02 0.0029 18.5 4.2 36 58-93 8-47 (78)
47 COG4598 HisP ABC-type histidin 29.1 1.4E+02 0.0031 24.1 5.0 58 58-119 19-77 (256)
48 PRK14435 acylphosphatase; Prov 28.3 15 0.00032 24.9 -0.6 52 29-93 11-62 (90)
49 PRK14440 acylphosphatase; Prov 27.2 16 0.00035 24.8 -0.5 53 28-93 11-63 (90)
50 PRK14445 acylphosphatase; Prov 26.5 22 0.00048 24.0 0.0 55 26-93 10-64 (91)
51 PRK11176 lipid transporter ATP 26.3 2.3E+02 0.0049 24.6 6.2 61 46-112 342-407 (582)
52 PF08512 Rtt106: Histone chape 25.8 1.1E+02 0.0024 20.6 3.5 32 63-94 55-88 (95)
53 PF02837 Glyco_hydro_2_N: Glyc 25.8 1.7E+02 0.0037 20.6 4.7 54 22-77 83-136 (167)
54 cd03234 ABCG_White The White s 25.6 2.8E+02 0.0061 20.8 6.0 52 58-112 20-74 (226)
55 PRK14430 acylphosphatase; Prov 25.5 21 0.00046 24.3 -0.2 52 29-93 13-64 (92)
56 PRK14425 acylphosphatase; Prov 25.4 19 0.0004 24.7 -0.5 52 29-93 15-66 (94)
57 cd06472 ACD_ScHsp26_like Alpha 24.8 1.1E+02 0.0023 20.1 3.1 27 55-81 12-42 (92)
58 PF13629 T2SS-T3SS_pil_N: Pilu 24.3 2E+02 0.0043 18.3 5.0 15 45-59 4-18 (72)
59 PRK10744 pstB phosphate transp 23.9 3.4E+02 0.0073 20.9 6.3 54 59-113 27-83 (260)
60 PRK13781 paaB phenylacetate-Co 23.7 29 0.00063 24.5 0.2 15 51-65 79-93 (95)
61 cd06480 ACD_HspB8_like Alpha-c 23.5 50 0.0011 22.6 1.4 21 61-82 28-48 (91)
62 PRK14432 acylphosphatase; Prov 22.8 33 0.00071 23.4 0.3 54 29-94 11-64 (93)
63 PRK14265 phosphate ABC transpo 22.7 3.8E+02 0.0082 21.0 6.5 53 60-113 35-90 (274)
64 TIGR02868 CydC thiol reductant 22.6 2.5E+02 0.0054 24.1 5.7 62 46-113 335-400 (529)
65 PRK14248 phosphate ABC transpo 22.5 3E+02 0.0064 21.3 5.8 53 60-113 36-91 (268)
66 PRK14238 phosphate transporter 22.5 3.4E+02 0.0073 21.2 6.1 53 60-113 39-94 (271)
67 PRK14266 phosphate ABC transpo 22.5 3.1E+02 0.0066 20.9 5.8 53 60-113 18-73 (250)
68 PRK14275 phosphate ABC transpo 22.2 3.1E+02 0.0067 21.7 5.9 53 60-113 54-109 (286)
69 PRK14247 phosphate ABC transpo 21.7 3.3E+02 0.0071 20.7 5.8 50 60-113 18-73 (250)
70 PF13037 DUF3898: Domain of un 21.4 1.6E+02 0.0035 20.6 3.5 48 17-65 36-83 (91)
71 PRK14602 ruvA Holliday junctio 21.4 50 0.0011 25.7 1.1 25 16-40 8-32 (203)
72 TIGR02696 pppGpp_PNP guanosine 21.3 3.3E+02 0.0072 25.5 6.5 51 63-115 608-659 (719)
73 cd03249 ABC_MTABC3_MDL1_MDL2 M 21.3 3.5E+02 0.0076 20.3 5.8 47 60-112 18-67 (238)
74 PF00338 Ribosomal_S10: Riboso 21.1 1.3E+02 0.0028 20.0 3.0 23 73-95 2-24 (97)
75 cd03217 ABC_FeS_Assembly ABC-t 20.2 2.3E+02 0.0051 20.9 4.6 51 59-113 14-67 (200)
76 cd02413 40S_S3_KH K homology R 20.1 2.5E+02 0.0054 18.6 4.2 51 49-99 17-68 (81)
No 1
>CHL00140 rpl6 ribosomal protein L6; Validated
Probab=100.00 E-value=2.1e-47 Score=291.55 Aligned_cols=108 Identities=42% Similarity=0.727 Sum_probs=105.0
Q ss_pred ehhhHhhccccceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHh
Q 033325 12 CYKFTLTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASV 91 (122)
Q Consensus 12 ~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~I 91 (122)
+++||+.||++||+++|+++|+||||.+ +|+.|.|+||||||+.++||+||+|+|+++|+|+|+|+|||+|+||||+|
T Consensus 71 lI~Nmi~GVt~Gf~~~L~lvGvGyr~~~--~g~~l~l~LG~sh~i~~~IP~gv~v~~~~~t~I~i~G~dke~Vgq~AA~I 148 (178)
T CHL00140 71 LINNMVIGVSEGFEKKLELQGVGYRAQV--QGKDLILNLGYSHPVKIKIPPGISVEVENNTNITIKGIDKELVGQFAAKI 148 (178)
T ss_pred HHHHHHhhcccCceEEEEEEEEEEEEEE--eCCcEEEEecCCeeEEEECCCCeEEEeCCCCEEEEEECCHHHHHHHHHHH
Confidence 6899999999999999999999999998 77889999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCCCCceeecCeEEEecCCcccC
Q 033325 92 RSCKPPEPFKGKGIMYTDEVIKKKVGKKKS 121 (122)
Q Consensus 92 r~~r~pepYKGKGI~~~~E~I~~K~gKk~~ 121 (122)
|++|+|||||||||+|+||+|++|+||+++
T Consensus 149 r~~r~pepYKGKGI~y~~e~i~~K~gK~~~ 178 (178)
T CHL00140 149 RSVRPPEPYKGKGIRYKGEVIRRKAGKAGK 178 (178)
T ss_pred hccCCCCCcCCccEeECCEEEEEecccCCC
Confidence 999999999999999999999999999854
No 2
>TIGR03654 L6_bact ribosomal protein L6, bacterial type.
Probab=100.00 E-value=3.1e-46 Score=284.26 Aligned_cols=107 Identities=41% Similarity=0.677 Sum_probs=104.1
Q ss_pred eehhhHhhccccceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHH
Q 033325 11 LCYKFTLTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAAS 90 (122)
Q Consensus 11 ~~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~ 90 (122)
-+++||+.||++||.++|+++|+||||.+ +++.|.|+||||||+.++||++|+|+++++|+|+|+|+|||.|+||||+
T Consensus 69 s~i~Nmi~GVt~Gf~~~L~lvGvgyrv~~--~g~~l~l~LG~sh~i~~~Ip~~v~v~~~~~t~I~i~G~dke~Vgq~AA~ 146 (175)
T TIGR03654 69 ALINNMVIGVSEGFEKKLEIVGVGYRAQL--QGKKLNLSLGYSHPVEYEIPEGITVEVPKPTEIVVKGIDKQLVGQVAAE 146 (175)
T ss_pred HHHHHHhheeccCcEEEEEEEEEEEEEEE--eCCeEEEEecCceeEEEECCCCeEEEeCCCCEEEEEECCHHHHHHHHHH
Confidence 36899999999999999999999999998 7889999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCCCCCceeecCeEEEecCCcc
Q 033325 91 VRSCKPPEPFKGKGIMYTDEVIKKKVGKK 119 (122)
Q Consensus 91 Ir~~r~pepYKGKGI~~~~E~I~~K~gKk 119 (122)
||++|+|||||||||+|.||.|++|+|||
T Consensus 147 Ir~~r~pepYKgkGi~~~~e~I~~K~gKk 175 (175)
T TIGR03654 147 IRAFRKPEPYKGKGIRYAGEVVRRKEGKK 175 (175)
T ss_pred HhccCCCCCcCCCcEeECCEEEEEeCcCC
Confidence 99999999999999999999999999996
No 3
>PRK05498 rplF 50S ribosomal protein L6; Validated
Probab=100.00 E-value=4.1e-46 Score=284.08 Aligned_cols=109 Identities=43% Similarity=0.707 Sum_probs=105.6
Q ss_pred eehhhHhhccccceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHH
Q 033325 11 LCYKFTLTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAAS 90 (122)
Q Consensus 11 ~~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~ 90 (122)
-+++||+.||++||.++|+++|+||||.+ +++.|.|+||||||+.++||+||+|+++++|+|+|+|+|||+|+||||+
T Consensus 70 s~I~Nmi~GVt~Gf~~~L~lvGvgyrv~~--~g~~l~l~LG~sh~i~~~Ip~gv~v~~~~~t~I~i~G~dke~Vg~~AA~ 147 (178)
T PRK05498 70 ALINNMVVGVTEGFEKKLEIVGVGYRAQV--KGKKLNLSLGYSHPVEYEIPEGITVEVPKPTEIVVKGIDKQLVGQVAAE 147 (178)
T ss_pred HHHHHHhhhcCCCeEEEEEEEeEEEEEEE--eCCeEEEEecCCEEEEEECCCCeEEEeCCCCEEEEEECCHHHHHHHHHH
Confidence 36899999999999999999999999998 7889999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCCCCCceeecCeEEEecCCcccC
Q 033325 91 VRSCKPPEPFKGKGIMYTDEVIKKKVGKKKS 121 (122)
Q Consensus 91 Ir~~r~pepYKGKGI~~~~E~I~~K~gKk~~ 121 (122)
||++|+|||||||||+|.||+|++|+||+++
T Consensus 148 Ir~~r~pe~YkgkGi~~~~e~i~~K~gKk~~ 178 (178)
T PRK05498 148 IRSYRPPEPYKGKGIRYAGEVVRRKEGKKKK 178 (178)
T ss_pred HhccCCCCCccCCcEeECCEEEEEecccCCC
Confidence 9999999999999999999999999999874
No 4
>COG0097 RplF Ribosomal protein L6P/L9E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-45 Score=282.46 Aligned_cols=109 Identities=38% Similarity=0.586 Sum_probs=105.3
Q ss_pred eehhhHhhccccceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHH
Q 033325 11 LCYKFTLTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAAS 90 (122)
Q Consensus 11 ~~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~ 90 (122)
-+++||+.|||+||+++|+|+|+||||++ +|+.|.++||||||+.++||+||+|++++||+|+|+|+|||.||||||+
T Consensus 70 ali~Nmv~GVteGf~~kL~ivgvgyra~v--~g~~l~l~LG~shp~~~~ip~gi~v~v~~~t~I~v~GidKe~VGQ~AA~ 147 (178)
T COG0097 70 ALINNMVKGVTEGFEKKLEIVGVGYRAQV--VGGNLELFLGYSHPVVIEIPEGITVEVPGPTEIVVEGIDKELVGQVAAN 147 (178)
T ss_pred HHHHHHheecccceEEEEEEEEecceeEE--eccEEEEeecccCCeEEECCCCeEEEecCCCEEEEEcCCHHHHhHHHHH
Confidence 47899999999999999999999999998 7778999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCCCCCceeecCeEEEecCCcccC
Q 033325 91 VRSCKPPEPFKGKGIMYTDEVIKKKVGKKKS 121 (122)
Q Consensus 91 Ir~~r~pepYKGKGI~~~~E~I~~K~gKk~~ 121 (122)
||++|+|||||||||||+||+|++|+||+.+
T Consensus 148 Ir~~r~pepykgKgi~ydge~I~~K~gK~~k 178 (178)
T COG0097 148 IRAARKPEPYKGKGIRYDGEYIRRKEGKTGK 178 (178)
T ss_pred HHhccCCCCCCCcceEEcCEEEEEeccccCC
Confidence 9999999999999999999999999999653
No 5
>KOG3254 consensus Mitochondrial/chloroplast ribosomal protein L6 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.9e-43 Score=269.48 Aligned_cols=108 Identities=46% Similarity=0.729 Sum_probs=105.1
Q ss_pred ehhhHhhccccceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHh
Q 033325 12 CYKFTLTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASV 91 (122)
Q Consensus 12 ~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~I 91 (122)
++.||+.|||+||.+.|+|||+||||++ +|..|.|+|||||++.+.||++|.|+++.||.++++|+|||+|+||||.+
T Consensus 104 l~~N~v~GVt~g~~k~l~lVGvGYRa~l--egk~l~lklG~S~~v~l~iP~~v~Vk~p~ptsl~~~G~dKq~V~qFAAkv 181 (211)
T KOG3254|consen 104 LLANNVKGVTMGFLKILKLVGVGYRASL--EGKFLHLKLGYSHDVLLSIPTDVQVKNPTPTSLVLRGIDKQKVTQFAAKV 181 (211)
T ss_pred HHhccchhhhhhhhheeeEEeeeeEEEe--cCceEEEEeccccceeecCCCceEEecCCCCEEEEecccHHHHHHHHHHH
Confidence 6789999999999999999999999998 69999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCCCCceeecCeEEEecCCcccC
Q 033325 92 RSCKPPEPFKGKGIMYTDEVIKKKVGKKKS 121 (122)
Q Consensus 92 r~~r~pepYKGKGI~~~~E~I~~K~gKk~~ 121 (122)
|+||||||||||||.|+||.+++|+||..|
T Consensus 182 RsfkpPEPYKGKGIyv~dE~vklK~kK~~k 211 (211)
T KOG3254|consen 182 RSFKPPEPYKGKGIYVDDEKVKLKAKKSIK 211 (211)
T ss_pred hccCCCCCcCCCceEeccceeeecccccCC
Confidence 999999999999999999999999999754
No 6
>PTZ00027 60S ribosomal protein L6; Provisional
Probab=99.97 E-value=5.1e-31 Score=203.53 Aligned_cols=104 Identities=17% Similarity=0.155 Sum_probs=94.3
Q ss_pred ehhhHhhccccceEEEEEEEEEEeeEEEe--ccCCEEEE--EeccceeeeeeCCCCcEEEecCC--eEEEEEecCHHHHH
Q 033325 12 CYKFTLTRMEAKFFRFLKIVGVGYKARAE--AEGRLLYL--KLGYVHDVELTVPPAVRVFCLKN--NVVCCCGLDKHRVH 85 (122)
Q Consensus 12 ~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~--~~g~~L~l--~LGySH~i~~~IP~~v~v~~~~~--t~I~l~GidK~~Vg 85 (122)
+++||+.||++||.++|+++|+||||+++ .+|+.|.| +||||||+.++||+||+|+++++ |+|+|+|+|||+||
T Consensus 75 lI~NmI~GVt~Gf~~~LeivGvGyra~~~v~~~g~~L~l~N~LG~Sh~i~~~iP~gv~v~~~~~~~t~I~i~G~DKq~Vg 154 (190)
T PTZ00027 75 HIKNMMTGVTKKFQYKMRLVYAHFPINSNITDNGKTIEIRNFLGEKRVRTVKMLPGVVVEKSESVKDEIIVTGADLELVS 154 (190)
T ss_pred HHHHHhhhhcCCEEEEEEEEEeeeeEEEEEcCCCCEEEEEccCCCceeEEEECCCCeEEEeCCCCCCEEEEEeCCHHHHH
Confidence 68999999999999999999999999953 48899999 89999999999999999999986 89999999999999
Q ss_pred HHHHHhhccCCCCCCCCCceeecCeEEEecC
Q 033325 86 QFAASVRSCKPPEPFKGKGIMYTDEVIKKKV 116 (122)
Q Consensus 86 qfAa~Ir~~r~pepYKGKGI~~~~E~I~~K~ 116 (122)
||||+||+..+-.. |...+|.||.+|.-|+
T Consensus 155 q~AA~I~~~~~~~~-~d~r~f~dgiy~~~k~ 184 (190)
T PTZ00027 155 RSAALIHQSTLVRN-KDIRKFLDGIYVSEKG 184 (190)
T ss_pred HHHHHHHHHhcccC-CCccEeecCEEEEEee
Confidence 99999999866532 3336899999999887
No 7
>PRK05518 rpl6p 50S ribosomal protein L6P; Reviewed
Probab=99.97 E-value=5.3e-31 Score=202.03 Aligned_cols=103 Identities=21% Similarity=0.173 Sum_probs=93.6
Q ss_pred ehhhHhhccccceEEEEEEEEEEe--eEEEeccCCEEEE--EeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHH
Q 033325 12 CYKFTLTRMEAKFFRFLKIVGVGY--KARAEAEGRLLYL--KLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQF 87 (122)
Q Consensus 12 ~~kn~i~Gv~~gf~~~L~lvGvGY--r~~~~~~g~~L~l--~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~Vgqf 87 (122)
+++||+.||++||.++|+++|+|| ||++ +|+.|.| +||||||+.++||+||++++++ |+|+|+|+|||+||||
T Consensus 73 lI~NmI~GVt~Gf~~~LelvGvGypira~~--~g~~l~l~n~LG~Sh~v~~~iP~gV~v~~~~-t~I~i~GiDKq~Vgq~ 149 (180)
T PRK05518 73 HIKNMIKGVTEGFEYKLKIVYSHFPMQVKV--QGNEVVIENFLGEKSPRRAKILGGVKVKVKG-EDVIVEGIDKEDVGQT 149 (180)
T ss_pred HHHhhheecccceEEEEEEEecCccEEEEE--cCCEEEEEeccccceeEEEeCCCCeEEEecC-CEEEEEeCCHHHHHHH
Confidence 689999999999999999999999 6655 8889999 9999999999999999999999 9999999999999999
Q ss_pred HHHhhccCCCCCCCCCceeecCeEEEecCCc
Q 033325 88 AASVRSCKPPEPFKGKGIMYTDEVIKKKVGK 118 (122)
Q Consensus 88 Aa~Ir~~r~pepYKGKGI~~~~E~I~~K~gK 118 (122)
||+||+..+-.. |....|.||.++..|+-|
T Consensus 150 AA~Ir~~~~~~~-kd~r~f~dgiyv~~k~~~ 179 (180)
T PRK05518 150 AANIEQATKIKG-FDRRVFQDGIYIVEKEVK 179 (180)
T ss_pred HHHHHHhhcccC-CCCCEeecCEEEEEeccC
Confidence 999999877633 444689999999988744
No 8
>TIGR03653 arch_L6P archaeal ribosomal protein L6P. Members of this protein family are the archaeal ribosomal protein L6P. The top-scoring proteins not selected by this model are eukaryotic cytosolic ribosomal protein L9. Bacterial ribosomal protein L6 scores lower and is described by a distinct model.
Probab=99.97 E-value=2.6e-30 Score=196.59 Aligned_cols=100 Identities=21% Similarity=0.237 Sum_probs=87.0
Q ss_pred ehhhHhhccccceEEEEEEEEEEe--eEEEeccCCEEEE--EeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHH
Q 033325 12 CYKFTLTRMEAKFFRFLKIVGVGY--KARAEAEGRLLYL--KLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQF 87 (122)
Q Consensus 12 ~~kn~i~Gv~~gf~~~L~lvGvGY--r~~~~~~g~~L~l--~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~Vgqf 87 (122)
+++||+.||++||.++|+++|+|| ||++ +|+.|.| +||||||+.++||+||+|+++++ +|+|+|+|||.||||
T Consensus 67 li~NmI~GVt~Gf~~~LeivGvGy~~ra~~--~g~~L~l~n~LG~Sh~i~~~iP~gI~v~~~~~-~I~i~G~DKq~Vgq~ 143 (170)
T TIGR03653 67 HIKNMIKGVTEGFEYKMKVVYSHFPMQVKV--EGNKVVIENFLGEKAPRRAKIPGGVKVKVKGE-EVIVTGIDKEDVGQT 143 (170)
T ss_pred HHHhheeecccCeEEEEEEEeccccEEEEE--cCCeEEEeeccccceeEEEECCCCeEEEecCC-EEEEEeCCHHHHHHH
Confidence 689999999999999999999999 6665 8888999 89999999999999999999995 999999999999999
Q ss_pred HHHhhccCCCCCCCCCceeecCeEEEec
Q 033325 88 AASVRSCKPPEPFKGKGIMYTDEVIKKK 115 (122)
Q Consensus 88 Aa~Ir~~r~pepYKGKGI~~~~E~I~~K 115 (122)
||.||+.++..- |.-..|.||.++..|
T Consensus 144 AA~Ir~~~~~~~-~d~r~f~dgiy~~~~ 170 (170)
T TIGR03653 144 AANIEQATRIKG-RDPRVFQDGIYIVEK 170 (170)
T ss_pred HHHHHHhhcccC-CCccEeecCEEEEeC
Confidence 999999877622 222356678777543
No 9
>PTZ00179 60S ribosomal protein L9; Provisional
Probab=99.97 E-value=7.1e-30 Score=197.00 Aligned_cols=102 Identities=16% Similarity=0.118 Sum_probs=92.2
Q ss_pred ehhhHhhccccceEEEEEEEEEEe--eEEEeccCCEEEE--EeccceeeeeeCCCCcEEEecCC----eEEEEEecCHHH
Q 033325 12 CYKFTLTRMEAKFFRFLKIVGVGY--KARAEAEGRLLYL--KLGYVHDVELTVPPAVRVFCLKN----NVVCCCGLDKHR 83 (122)
Q Consensus 12 ~~kn~i~Gv~~gf~~~L~lvGvGY--r~~~~~~g~~L~l--~LGySH~i~~~IP~~v~v~~~~~----t~I~l~GidK~~ 83 (122)
+++||+.||++||.++|+++|+|| ||.+ +|+.|.| +||||||+.++||+||+|++++| |+|+|+|+|||.
T Consensus 74 lI~NMI~GVt~GF~k~L~ivgvgyp~ra~v--~g~~l~l~N~LG~sh~~~~~ip~gv~v~~~~~~~~k~~i~i~G~DKq~ 151 (189)
T PTZ00179 74 HVRNMITGVTKGFRFKVRFAYAHFPISVSV--ENQLVEIRNFLGEKRVRRQVVADTVKVYRTDPSKVKDELVLEGNDLEQ 151 (189)
T ss_pred HHHHHhhhhcCCEEEEEEEEEeCcceEEEE--cCCEEEEEecCCCCccEEEECCCCEEEEecCCcccCCEEEEEeCCHHH
Confidence 689999999999999999999999 7776 8999999 89999999999999999999998 899999999999
Q ss_pred HHHHHHHhhccCCCCCCCCCceeecCeEEEecC
Q 033325 84 VHQFAASVRSCKPPEPFKGKGIMYTDEVIKKKV 116 (122)
Q Consensus 84 VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~~K~ 116 (122)
||||||+|++..+--- |...+|.||.|+..|.
T Consensus 152 Vgq~AA~i~~~~~~~~-~d~r~f~dgiy~~~k~ 183 (189)
T PTZ00179 152 VSREAAVMHQLCLVKK-KDIRKFLDGIYVQTKT 183 (189)
T ss_pred HHHHHHHHHHhhcccC-CCccEeecCEEEEEee
Confidence 9999999999755411 2225899999999886
No 10
>PF00347 Ribosomal_L6: Ribosomal protein L6; InterPro: IPR020040 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 [, ]. L6 is a protein from the large (50S) subunit. In Escherichia coli, it is located in the aminoacyl-tRNA binding site of the peptidyltransferase centre, and is known to bind directly to 23S rRNA. It belongs to a family of ribosomal proteins, including L6 from bacteria, cyanelles (structures that perform similar functions to chloroplasts, but have structural and biochemical characteristics of Cyanobacteria) and mitochondria; and L9 from mammals, Drosophila, plants and yeast. L6 contains two domains with almost identical folds, suggesting that is was derived by the duplication of an ancient RNA-binding protein gene. Analysis reveals several sites on the protein surface where interactions with other ribosome components may occur, the N terminus being involved in protein-protein interactions and the C terminus containing possible RNA-binding sites []. This entry represents the alpha-beta domain found duplicated in ribosomal L6 proteins. This domain consists of two beta-sheets and one alpha-helix packed around single core [].; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 2HGJ_H 2HGQ_H 2HGU_H 1S1I_H 3O5H_I 3O58_I 3J16_F 3IZS_F 2V47_H 2WDJ_H ....
Probab=98.62 E-value=4e-09 Score=69.11 Aligned_cols=70 Identities=24% Similarity=0.275 Sum_probs=60.7
Q ss_pred EEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEec----CCeEEEEEecCHHHHHHHHHHhhccCCCCCCCCCcee
Q 033325 32 GVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCL----KNNVVCCCGLDKHRVHQFAASVRSCKPPEPFKGKGIM 106 (122)
Q Consensus 32 GvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~----~~t~I~l~GidK~~VgqfAa~Ir~~r~pepYKGKGI~ 106 (122)
+.|+++.+ ++ .+....|++|...+++|++|++++. +.+....++.|++.. |||.++.+|.+.+|+++|+.
T Consensus 2 P~gV~v~~--~~-~~i~v~G~~g~l~~~~~~~v~v~~~~~~~~~~~~~~~~~~k~~~--~~a~~gt~rsli~n~i~GV~ 75 (77)
T PF00347_consen 2 PEGVKVTI--KG-NIITVKGPKGELSRPIPPGVKVEIKVEDNKITVSVLSGNKKQKA--FAAMIGTYRSLINNMIKGVT 75 (77)
T ss_dssp STTCEEEE--ET-TEEEEESSSSEEEEEETTTEEEEEEEETTSEEEEEEEESHHHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred CCcEEEEE--eC-cEEEEECCCEeEEEECCCCeeEEEEcCCCceEEEECcccHhHhh--hHHhhccccccccCceeEEC
Confidence 45788887 44 6888999999999999999999976 456777888889888 99999999999999999975
No 11
>KOG3255 consensus 60S ribosomal protein L9 [Translation, ribosomal structure and biogenesis]
Probab=96.62 E-value=0.00018 Score=55.69 Aligned_cols=86 Identities=16% Similarity=0.083 Sum_probs=71.4
Q ss_pred cccccceehhhHhhccccceEEEEEEEEEEeeEEEeccCC---EEEE-EeccceeeeeeCCCCcEEEec--CCeEEEEEe
Q 033325 5 CLFSGNLCYKFTLTRMEAKFFRFLKIVGVGYKARAEAEGR---LLYL-KLGYVHDVELTVPPAVRVFCL--KNNVVCCCG 78 (122)
Q Consensus 5 ~~~~~~~~~kn~i~Gv~~gf~~~L~lvGvGYr~~~~~~g~---~L~l-~LGySH~i~~~IP~~v~v~~~--~~t~I~l~G 78 (122)
||-+---.++||++||+.||.+++..+.-+|.+..+.+.+ .... +||.+.+...+..+|+..... -+.++.++|
T Consensus 69 ~l~t~~s~ien~i~gvt~~~i~k~~av~a~f~in~~~~~~~~s~~i~n~l~~k~~~~~~~~~Gv~~~~~~~~~~~i~~~~ 148 (179)
T KOG3255|consen 69 CLRTVVSHIENCIKGVTIGFIYKMRAVYAHFPINTVIQENGKSEEIRNFLGEKLVRRVEMRPGVTIVRSSKVKDEIVLEG 148 (179)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHhhhHHhhccccceecCCCcchhhhhhhhhhccceEecCCCeEEeeehhcchhheecc
Confidence 4444445689999999999999999999999988876655 3333 999999999999999976553 356899999
Q ss_pred cCHHHHHHHHHH
Q 033325 79 LDKHRVHQFAAS 90 (122)
Q Consensus 79 idK~~VgqfAa~ 90 (122)
.|-+.|.|-||.
T Consensus 149 ~~~~~vs~~~a~ 160 (179)
T KOG3255|consen 149 NDLELVSQSAAL 160 (179)
T ss_pred cchhhhhhHhHh
Confidence 999999998877
No 12
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=68.40 E-value=14 Score=23.06 Aligned_cols=30 Identities=13% Similarity=0.152 Sum_probs=23.1
Q ss_pred CCcEEEecCCeEEEEEecCHHHHHHHHHHh
Q 033325 62 PAVRVFCLKNNVVCCCGLDKHRVHQFAASV 91 (122)
Q Consensus 62 ~~v~v~~~~~t~I~l~GidK~~VgqfAa~I 91 (122)
.++++.+++...+.|+|.|++.+.+-.+.|
T Consensus 31 tg~~I~i~~~g~v~I~G~~~~~v~~A~~~I 60 (61)
T cd02393 31 TGVKIDIEDDGTVYIAASDKEAAEKAKKMI 60 (61)
T ss_pred HCCEEEeCCCCEEEEEeCCHHHHHHHHHHh
Confidence 356677777789999999999887766554
No 13
>PF00347 Ribosomal_L6: Ribosomal protein L6; InterPro: IPR020040 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 [, ]. L6 is a protein from the large (50S) subunit. In Escherichia coli, it is located in the aminoacyl-tRNA binding site of the peptidyltransferase centre, and is known to bind directly to 23S rRNA. It belongs to a family of ribosomal proteins, including L6 from bacteria, cyanelles (structures that perform similar functions to chloroplasts, but have structural and biochemical characteristics of Cyanobacteria) and mitochondria; and L9 from mammals, Drosophila, plants and yeast. L6 contains two domains with almost identical folds, suggesting that is was derived by the duplication of an ancient RNA-binding protein gene. Analysis reveals several sites on the protein surface where interactions with other ribosome components may occur, the N terminus being involved in protein-protein interactions and the C terminus containing possible RNA-binding sites []. This entry represents the alpha-beta domain found duplicated in ribosomal L6 proteins. This domain consists of two beta-sheets and one alpha-helix packed around single core [].; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 2HGJ_H 2HGQ_H 2HGU_H 1S1I_H 3O5H_I 3O58_I 3J16_F 3IZS_F 2V47_H 2WDJ_H ....
Probab=63.34 E-value=7.6 Score=24.71 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=17.5
Q ss_pred CCCCcEEEecCCeEEEEEecC
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD 80 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid 80 (122)
||+|++|++.+ +.+++.|..
T Consensus 1 IP~gV~v~~~~-~~i~v~G~~ 20 (77)
T PF00347_consen 1 IPEGVKVTIKG-NIITVKGPK 20 (77)
T ss_dssp SSTTCEEEEET-TEEEEESSS
T ss_pred CCCcEEEEEeC-cEEEEECCC
Confidence 79999999998 788898864
No 14
>CHL00140 rpl6 ribosomal protein L6; Validated
Probab=60.78 E-value=9.6 Score=29.08 Aligned_cols=22 Identities=18% Similarity=0.265 Sum_probs=14.5
Q ss_pred eeeCCCCcEEEecCCeEEEEEec
Q 033325 57 ELTVPPAVRVFCLKNNVVCCCGL 79 (122)
Q Consensus 57 ~~~IP~~v~v~~~~~t~I~l~Gi 79 (122)
.++||++|+|++.+ +.|+++|.
T Consensus 8 ~I~IP~~V~v~i~~-~~v~vkGp 29 (178)
T CHL00140 8 PIKIPDNVNVSIDD-QIIKVKGP 29 (178)
T ss_pred eeecCCCCEEEEEC-CEEEEECC
Confidence 46778888887765 35556554
No 15
>PF12646 DUF3783: Domain of unknown function (DUF3783); InterPro: IPR016621 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=60.50 E-value=13 Score=23.31 Aligned_cols=29 Identities=21% Similarity=0.460 Sum_probs=26.1
Q ss_pred EEEEEecCHHHHHHHHHHhhccCCCCCCC
Q 033325 73 VVCCCGLDKHRVHQFAASVRSCKPPEPFK 101 (122)
Q Consensus 73 ~I~l~GidK~~VgqfAa~Ir~~r~pepYK 101 (122)
-+++.|.+.+.+.+|-..+|+..-+.|||
T Consensus 3 ~ll~~g~~~~el~~~l~~~r~~~~~~~~k 31 (58)
T PF12646_consen 3 FLLFSGFSGEELDKFLDALRKAGIPIPLK 31 (58)
T ss_pred EEEECCCCHHHHHHHHHHHHHcCCCcceE
Confidence 57899999999999999999997788876
No 16
>TIGR03654 L6_bact ribosomal protein L6, bacterial type.
Probab=59.19 E-value=11 Score=28.70 Aligned_cols=21 Identities=33% Similarity=0.403 Sum_probs=13.3
Q ss_pred eeCCCCcEEEecCCeEEEEEec
Q 033325 58 LTVPPAVRVFCLKNNVVCCCGL 79 (122)
Q Consensus 58 ~~IP~~v~v~~~~~t~I~l~Gi 79 (122)
+.||++|+|++.+ +.++++|.
T Consensus 8 I~IP~~V~v~~~~-~~v~v~Gp 28 (175)
T TIGR03654 8 IAIPAGVEVTIDG-NVVTVKGP 28 (175)
T ss_pred eecCCCcEEEEeC-CEEEEEcC
Confidence 5677777777654 35555554
No 17
>PTZ00179 60S ribosomal protein L9; Provisional
Probab=56.27 E-value=13 Score=28.84 Aligned_cols=25 Identities=24% Similarity=0.316 Sum_probs=18.8
Q ss_pred eeeCCCCcEEEecCCeEEEEEecCHH
Q 033325 57 ELTVPPAVRVFCLKNNVVCCCGLDKH 82 (122)
Q Consensus 57 ~~~IP~~v~v~~~~~t~I~l~GidK~ 82 (122)
.+.||++|+|++.+ +.|+++|.--+
T Consensus 8 pI~IP~~V~V~i~~-~~ItVkGpkG~ 32 (189)
T PTZ00179 8 TITIPEDVTVSVKD-RIVTVKGKRGT 32 (189)
T ss_pred cEeCCCCCEEEEeC-CEEEEECCCcE
Confidence 46789999999877 46778876543
No 18
>PRK05498 rplF 50S ribosomal protein L6; Validated
Probab=55.72 E-value=13 Score=28.25 Aligned_cols=23 Identities=30% Similarity=0.382 Sum_probs=15.3
Q ss_pred eeeCCCCcEEEecCCeEEEEEecC
Q 033325 57 ELTVPPAVRVFCLKNNVVCCCGLD 80 (122)
Q Consensus 57 ~~~IP~~v~v~~~~~t~I~l~Gid 80 (122)
.+.||++|+|++.+ +.++++|.-
T Consensus 8 ~I~IP~~V~v~~~~-~~v~vkGp~ 30 (178)
T PRK05498 8 PIAIPAGVEVTING-NVVTVKGPK 30 (178)
T ss_pred ceecCCCCEEEEEC-CEEEEECCC
Confidence 36778888887765 356666543
No 19
>PRK14443 acylphosphatase; Provisional
Probab=54.66 E-value=4.3 Score=28.04 Aligned_cols=56 Identities=13% Similarity=0.296 Sum_probs=32.8
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCC
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPP 97 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~p 97 (122)
.+-|||||..+......+.|. ||- -++|+| .-+|.+.| +.+.|.+|.+.++.-.||
T Consensus 13 ~VQGVGFR~~~~~~A~~~gl~-G~V----~N~~dG-------~Vei~~qG-~~~~l~~f~~~l~~g~p~ 68 (93)
T PRK14443 13 FVQGVGFRYTTKHVAYKYDIS-GTV----KNLDDG-------SVEIHAIA-EEENLNKFIDAIKKGPSP 68 (93)
T ss_pred eeCCccCcHHHHHHHHHcCCE-EEE----EECCCC-------EEEEEEEC-CHHHHHHHHHHHhcCCCC
Confidence 456899999874333333332 332 334444 12455565 556699999999885443
No 20
>PRK14420 acylphosphatase; Provisional
Probab=53.75 E-value=2.8 Score=28.39 Aligned_cols=55 Identities=16% Similarity=0.189 Sum_probs=32.3
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCC
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPP 97 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~p 97 (122)
.+-|||||..+... ...+|-+=-+ -+.|+| .-+|.+.|. .+.|.+|...|++- ||
T Consensus 11 ~VQGVGFR~~~~~~----A~~~gl~G~V-~N~~dG-------~Vei~~qG~-~~~i~~f~~~l~~~-p~ 65 (91)
T PRK14420 11 RVQGVGFRYFVQME----ADKRKLTGWV-KNRDDG-------TVEIEAEGP-EEALQLFLDAIEKG-SP 65 (91)
T ss_pred eeCCcCChHHHHHH----HHHcCCEEEE-EECCCC-------cEEEEEEEC-HHHHHHHHHHHHhC-CC
Confidence 45689999986322 2223222221 222222 236778885 48899999999975 44
No 21
>PRK14434 acylphosphatase; Provisional
Probab=53.64 E-value=5.2 Score=27.38 Aligned_cols=57 Identities=14% Similarity=0.239 Sum_probs=34.5
Q ss_pred EEEEEEeeEEEeccCCEEEEEec-cceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCC
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLG-YVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPP 97 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LG-ySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~p 97 (122)
.+-|||||..+..... .|| -+=-+ -..++| .-+|.+.|.+.+.|.+|...|++=.||
T Consensus 11 ~VQGVGFR~fv~~~A~----~lg~l~G~V-~N~~dG-------sVei~~qG~~~~~l~~f~~~l~~g~pp 68 (92)
T PRK14434 11 RVQGVGFRYSVYSLAL----EIGDIYGRV-WNNDDG-------TVEILAQSDDSAKLAKFIQEIRKGPSK 68 (92)
T ss_pred eecceeEhHHHHHHHH----HcCCcEEEE-EECCCC-------CEEEEEEcCCHHHHHHHHHHHhcCCCC
Confidence 4668999998743222 233 21111 223333 235678887777899999999984443
No 22
>TIGR03653 arch_L6P archaeal ribosomal protein L6P. Members of this protein family are the archaeal ribosomal protein L6P. The top-scoring proteins not selected by this model are eukaryotic cytosolic ribosomal protein L9. Bacterial ribosomal protein L6 scores lower and is described by a distinct model.
Probab=53.03 E-value=16 Score=27.86 Aligned_cols=21 Identities=29% Similarity=0.384 Sum_probs=11.2
Q ss_pred eeCCCCcEEEecCCeEEEEEec
Q 033325 58 LTVPPAVRVFCLKNNVVCCCGL 79 (122)
Q Consensus 58 ~~IP~~v~v~~~~~t~I~l~Gi 79 (122)
+.||++|+|++.++ .|+++|.
T Consensus 4 I~IP~~V~v~i~~~-~i~vkGp 24 (170)
T TIGR03653 4 IEIPEGVSVTIEGN-IVTVKGP 24 (170)
T ss_pred EecCCCCEEEEeCC-EEEEECC
Confidence 45666666665542 4445443
No 23
>PTZ00027 60S ribosomal protein L6; Provisional
Probab=52.13 E-value=16 Score=28.30 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=18.6
Q ss_pred eeeCCCCcEEEecCCeEEEEEecCH
Q 033325 57 ELTVPPAVRVFCLKNNVVCCCGLDK 81 (122)
Q Consensus 57 ~~~IP~~v~v~~~~~t~I~l~GidK 81 (122)
.+.||++|+|++.+ +.++++|.-=
T Consensus 9 ~I~IP~~V~V~i~~-~~v~VkGp~G 32 (190)
T PTZ00027 9 KIRIPEGVTVTVKS-RKVTVTGKYG 32 (190)
T ss_pred CEecCCCCEEEEEC-CEEEEECCCc
Confidence 46789999999877 4788887653
No 24
>PRK05518 rpl6p 50S ribosomal protein L6P; Reviewed
Probab=52.07 E-value=17 Score=28.02 Aligned_cols=22 Identities=32% Similarity=0.297 Sum_probs=15.0
Q ss_pred eeeCCCCcEEEecCCeEEEEEec
Q 033325 57 ELTVPPAVRVFCLKNNVVCCCGL 79 (122)
Q Consensus 57 ~~~IP~~v~v~~~~~t~I~l~Gi 79 (122)
.+.||++|+|++.+ +.++++|.
T Consensus 9 pI~IP~~V~v~i~~-~~v~VkGp 30 (180)
T PRK05518 9 EIEIPEGVTVEIEG-LVVTVKGP 30 (180)
T ss_pred cEEcCCCCEEEEEC-CEEEEECC
Confidence 35778888887766 35666665
No 25
>PRK14431 acylphosphatase; Provisional
Probab=49.55 E-value=9.8 Score=25.86 Aligned_cols=55 Identities=22% Similarity=0.349 Sum_probs=33.8
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCC
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPP 97 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~p 97 (122)
.+-|||||..+... ...+|-+=-+ -+.|++| +|.++| +.+.|-.|.+.++.=.||
T Consensus 11 ~VQGVGFR~~~~~~----A~~~gl~G~V-~N~~dgV--------ei~~qG-~~~~l~~f~~~l~~g~p~ 65 (89)
T PRK14431 11 RVQGVGFRYFTQRI----AMNYNIVGTV-QNVDDYV--------EIYAQG-DDADLERFIQGVIEGASP 65 (89)
T ss_pred ecCCeeEhHHHHHH----HhhcCCEEEE-EECCCcE--------EEEEEc-CHHHHHHHHHHHhcCCCC
Confidence 45689999987433 2333333322 2345553 345666 677899999999984434
No 26
>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]
Probab=48.39 E-value=13 Score=30.85 Aligned_cols=37 Identities=19% Similarity=0.179 Sum_probs=29.5
Q ss_pred CEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCH
Q 033325 44 RLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDK 81 (122)
Q Consensus 44 ~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK 81 (122)
..-+.-=.|||.++-.+|....| ++.+..++++|++-
T Consensus 161 ~~~v~aPvysh~~yD~vpd~~~v-~~~pdIlI~EG~nv 197 (283)
T COG1072 161 KPDVFAPVYSHLIYDPVPDAFQV-VPQPDILIVEGNNV 197 (283)
T ss_pred CCccccccccccccccCCCceee-cCCCCEEEEechhh
Confidence 33345568999999999999887 47777999999873
No 27
>smart00099 btg1 tob/btg1 family. The tob/btg1 is a family of proteins that inhibit cell proliferation.
Probab=47.12 E-value=27 Score=25.03 Aligned_cols=26 Identities=42% Similarity=0.772 Sum_probs=23.6
Q ss_pred cCHHHHHHHHHHhhc---------cCCCCCCCCCc
Q 033325 79 LDKHRVHQFAASVRS---------CKPPEPFKGKG 104 (122)
Q Consensus 79 idK~~VgqfAa~Ir~---------~r~pepYKGKG 104 (122)
++.+.|+.||+.+.. |-|.+|.||-|
T Consensus 22 l~~~~v~~F~~~L~~~L~~~y~~HWyP~~P~kGqa 56 (108)
T smart00099 22 LSKRRVEIFAEKLTRLLKEKYKNHWYPEKPYKGSG 56 (108)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCcc
Confidence 688999999999875 79999999999
No 28
>PRK14424 acylphosphatase; Provisional
Probab=45.73 E-value=6.2 Score=27.25 Aligned_cols=53 Identities=17% Similarity=0.152 Sum_probs=35.3
Q ss_pred EEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 28 LKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 28 L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
=.+-|||||..+.. +...+|-+--+. ++|+| .-+|.+.|.+ +.|.+|.+.|+.
T Consensus 15 G~VQGVGFR~~v~~----~A~~~gl~G~V~-N~~dG-------~Vei~~qG~~-~~v~~f~~~l~~ 67 (94)
T PRK14424 15 GVVQGVGFRHATVR----EAHALGLRGWVA-NLEDG-------TVEAMIQGPA-AQIDRMLAWLRH 67 (94)
T ss_pred EeecCCchHHHHHH----HHHHcCCeEEEE-ECCCC-------CEEEEEEECH-HHHHHHHHHHHh
Confidence 35668999998732 344555555554 66666 1356677755 559999999985
No 29
>PRK14446 acylphosphatase; Provisional
Probab=44.46 E-value=12 Score=25.52 Aligned_cols=51 Identities=20% Similarity=0.240 Sum_probs=30.8
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhh
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVR 92 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir 92 (122)
.+-|||||..+.. +.-++|-+=-+ -+.|+| .-+|.++| |.+.+.+|.+.++
T Consensus 11 ~VQGVGFR~fv~~----~A~~lgl~G~V-~N~~dG-------sVei~~qG-~~~~l~~f~~~l~ 61 (88)
T PRK14446 11 VVQGVWYRASTRE----RAVALGLVGHA-RNQADG-------SVEVVAAG-SAAALEALEAWLW 61 (88)
T ss_pred ecCCeeEhHHHHH----HHeeCCeEEEE-EECCCC-------CEEEEEEe-CHHHHHHHHHHHh
Confidence 4568999998733 23333332221 233444 13556777 5678999999998
No 30
>cd01231 PH_Lnk LNK-family Pleckstrin homology (PH) domain. LNK-family Pleckstrin homology (PH) domain. The Lnk family of proteins consists of Lnk, APS and SH2B. They are adaptor proteins consisting of a PH domain and an SH2 domain, which mediates signaling through growth factor receptors. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. The lnk family PH domain is likely involved in targeting of the adaptor proteins to the plasma membrane.
Probab=41.96 E-value=61 Score=23.31 Aligned_cols=37 Identities=19% Similarity=0.266 Sum_probs=29.4
Q ss_pred eeeCCCCcEEE---ecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 57 ELTVPPAVRVF---CLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 57 ~~~IP~~v~v~---~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
-++.|+..+.+ +.++++++++-.|-|++.+-.|.||-
T Consensus 67 ~LEmPD~~nTFvLK~~~~~eyI~Ea~d~~q~~SWla~Ir~ 106 (107)
T cd01231 67 RLEMPDNLYTFVLKVDDNTDIIFEVGDEQQLNSWLAELRY 106 (107)
T ss_pred cccccCcccEEEEEecCCceEEEEcCCHHHHHHHHHHHhc
Confidence 35567666544 45688999999999999999999984
No 31
>PRK14449 acylphosphatase; Provisional
Probab=41.48 E-value=5.5 Score=26.98 Aligned_cols=53 Identities=15% Similarity=0.246 Sum_probs=32.4
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhcc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSC 94 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~ 94 (122)
.+-|||||..+... ...+|-+=- .-+.++| .-+|.++| |.+.|.+|.+.|++-
T Consensus 12 ~VQGVGFR~fv~~~----A~~lgl~G~-V~N~~dG-------~Vei~~~G-~~~~v~~f~~~l~~~ 64 (90)
T PRK14449 12 HVQGVGLRYSVYQK----AVSLGITGY-AENLYDG-------SVEVVAEG-DEENIKELINFIKTG 64 (90)
T ss_pred eecCcChHHHHHHH----HHHcCCEEE-EEECCCC-------eEEEEEEe-CHHHHHHHHHHHhhC
Confidence 45689999987332 223333322 2344554 23566777 557799999999973
No 32
>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional
Probab=40.98 E-value=1.4e+02 Score=22.78 Aligned_cols=54 Identities=22% Similarity=0.222 Sum_probs=37.8
Q ss_pred eCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCC-CCCCCceeecCeEEEe
Q 033325 59 TVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPE-PFKGKGIMYTDEVIKK 114 (122)
Q Consensus 59 ~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pe-pYKGKGI~~~~E~I~~ 114 (122)
.+-.++++++.....+.|.|.+ |..+-+..+-+-.. +|+ |+.|. |.++|+.+..
T Consensus 18 ~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~-~~~~~~~G~-v~~~g~~i~~ 75 (252)
T PRK14256 18 HAVKDVSMDFPENSVTAIIGPSGCGKSTVLRSINRMHDL-VPSARVTGK-ILLDDTDIYD 75 (252)
T ss_pred eEEecceEEEcCCCEEEEECCCCCCHHHHHHHHHhcccC-CCCCCCceE-EEECCEEccc
Confidence 3677888888877788888877 87777776665322 143 56675 8999988753
No 33
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=38.08 E-value=73 Score=19.17 Aligned_cols=20 Identities=15% Similarity=0.305 Sum_probs=13.8
Q ss_pred CeEEEEEecCHHHHHHHHHHh
Q 033325 71 NNVVCCCGLDKHRVHQFAASV 91 (122)
Q Consensus 71 ~t~I~l~GidK~~VgqfAa~I 91 (122)
++.++|+|. .+.|....+.|
T Consensus 42 ~~~v~I~G~-~~~v~~A~~~i 61 (62)
T cd02394 42 SDTITITGP-KENVEKAKEEI 61 (62)
T ss_pred CCEEEEEcC-HHHHHHHHHHh
Confidence 679999998 56666554443
No 34
>PRK14428 acylphosphatase; Provisional
Probab=37.42 E-value=7.6 Score=27.02 Aligned_cols=53 Identities=15% Similarity=0.142 Sum_probs=31.0
Q ss_pred EEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 28 LKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 28 L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
=.+-|||||..+... ..++|-+=-+ -+.|+| .-+|.++| +.+.|.+|.+.+++
T Consensus 16 G~VQGVGFR~fv~~~----A~~lgL~G~V-~N~~dG-------sVei~~qG-~~~~i~~fi~~l~~ 68 (97)
T PRK14428 16 GLVQGVGFRYFTVTQ----ARRLGVQGWV-RNCRDG-------SVELEAQG-SSDAVQALVEQLAI 68 (97)
T ss_pred EecCCccchHHHHHH----HHHcCCEEEE-EECCCC-------EEEEEEEc-CHHHHHHHHHHHhh
Confidence 345689999987322 2233322221 233333 13556676 56889999999983
No 35
>PRK14421 acylphosphatase; Provisional
Probab=36.80 E-value=11 Score=26.36 Aligned_cols=54 Identities=24% Similarity=0.193 Sum_probs=33.5
Q ss_pred EEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCC-cEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 26 RFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPA-VRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 26 ~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~-v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
..=.+-|||||.++.. +...+|-+--+ -+.++| | +|.+.|. .+.|.+|.+.|++
T Consensus 10 v~G~VQGVGFR~fv~~----~A~~lgL~G~V-~N~~dG~V--------ei~~~G~-~~~i~~f~~~l~~ 64 (99)
T PRK14421 10 IRGRVQGVGYRAWVAR----TAEALGLEGWV-RNRRDGSV--------EALFAGP-ADAVAEMIARCRR 64 (99)
T ss_pred EEEeEcCccchHHHHH----HHHHhCCEEEE-EECCCCEE--------EEEEeCC-HHHHHHHHHHHHh
Confidence 3345678999998733 33344444333 345665 3 4456664 4669999999984
No 36
>PF11280 DUF3081: Protein of unknown function (DUF3081); InterPro: IPR021432 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=36.59 E-value=27 Score=23.68 Aligned_cols=24 Identities=29% Similarity=0.465 Sum_probs=19.0
Q ss_pred EeeEEEeccCCEEEEEeccceeeeee
Q 033325 34 GYKARAEAEGRLLYLKLGYVHDVELT 59 (122)
Q Consensus 34 GYr~~~~~~g~~L~l~LGySH~i~~~ 59 (122)
||.+++ .++.+.|.|||-+.-.+.
T Consensus 38 GYtv~L--~~~~VtLtl~FHnty~~d 61 (79)
T PF11280_consen 38 GYTVYL--EDNGVTLTLGFHNTYHLD 61 (79)
T ss_pred CcEEEE--eCCCEEEEEEeccceecC
Confidence 899998 778899999997655444
No 37
>PRK14436 acylphosphatase; Provisional
Probab=36.56 E-value=9.2 Score=26.06 Aligned_cols=52 Identities=25% Similarity=0.336 Sum_probs=30.4
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
.+-|||||..+... ...+|.+=-+ -+.++| .-+|.+.| +.+.|.+|-+.++.
T Consensus 13 ~VQGVGFR~~v~~~----A~~l~l~G~V-~N~~dG-------~Vei~~qG-~~~~i~~f~~~l~~ 64 (91)
T PRK14436 13 RVQGVGFRWSMQRE----ARKLGVNGWV-RNLPDG-------SVEAVLEG-DEERVEALIGWAHQ 64 (91)
T ss_pred eeCCcCcHHHHHHH----HHHcCCEEEE-EECCCC-------cEEEEEEc-CHHHHHHHHHHHhh
Confidence 45689999987322 2223322222 223333 23566777 56779999999984
No 38
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=36.03 E-value=1.7e+02 Score=22.36 Aligned_cols=54 Identities=17% Similarity=0.180 Sum_probs=39.5
Q ss_pred eCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 59 TVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 59 ~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
.+-.++++++.....+.|.|.+ |..+-+..+-+-..-+|.|..|. |.++|+.+.
T Consensus 20 ~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~-i~~~g~~i~ 76 (253)
T PRK14242 20 QALHDISLEFEQNQVTALIGPSGCGKSTFLRCLNRMNDLIPGARVEGE-ILLDGENIY 76 (253)
T ss_pred eeecceeEEEeCCCEEEEECCCCCCHHHHHHHHHhhcccCCCCCCceE-EEECCEEcc
Confidence 3668888888887888888887 88888887766443344566664 888888764
No 39
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=35.02 E-value=1e+02 Score=18.37 Aligned_cols=28 Identities=14% Similarity=0.287 Sum_probs=18.7
Q ss_pred CcEEEecC---CeEEEEEecCHHHHHHHHHHh
Q 033325 63 AVRVFCLK---NNVVCCCGLDKHRVHQFAASV 91 (122)
Q Consensus 63 ~v~v~~~~---~t~I~l~GidK~~VgqfAa~I 91 (122)
++.+.+++ +..+.|+| +.+.|.+-.+.|
T Consensus 30 ~~~I~i~~~~~~~~v~I~G-~~~~v~~A~~~I 60 (60)
T PF00013_consen 30 GVKIQIPDDDERDIVTISG-SPEQVEKAKKMI 60 (60)
T ss_dssp TSEEEEESTTEEEEEEEEE-SHHHHHHHHHHH
T ss_pred CeEEEEcCCCCcEEEEEEe-CHHHHHHHHhhC
Confidence 34455554 36899999 888887655543
No 40
>PRK03341 arginine repressor; Provisional
Probab=34.20 E-value=1.1e+02 Score=23.23 Aligned_cols=57 Identities=19% Similarity=0.172 Sum_probs=43.5
Q ss_pred eccCCEEEEEe--ccceeeee-----eCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCCCC
Q 033325 40 EAEGRLLYLKL--GYVHDVEL-----TVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPPEP 99 (122)
Q Consensus 40 ~~~g~~L~l~L--GySH~i~~-----~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~pep 99 (122)
...++.++++. |+.+.+-. .+|+ |-=++-+...|.|-..|.+...+++..|+++ |||
T Consensus 104 ~~~~~lvVIkT~pG~A~~va~~iD~~~~~e-IlGTIAGDDTIlvi~~~~~~a~~l~~~i~~~--~~~ 167 (168)
T PRK03341 104 DASANLAVLRTPPGAAQYLASAIDRAALPE-VVGTIAGDDTVLVIARDPMTGAELAARLLRL--AER 167 (168)
T ss_pred eeeCCEEEEEcCCChHHHHHHHHHhCCCCC-eEEEeecCCEEEEEeCCHHHHHHHHHHHHhh--ccC
Confidence 34567777766 88777655 5555 7666777778888889999999999999999 554
No 41
>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional
Probab=34.08 E-value=1.7e+02 Score=22.39 Aligned_cols=54 Identities=15% Similarity=0.176 Sum_probs=39.4
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEEe
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIKK 114 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~~ 114 (122)
+-.++++++.....+.|.|.+ |..+-+..+-+....+|+|+.|. |.++|+.+..
T Consensus 18 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~~~~~~~~~G~-i~~~g~~~~~ 74 (250)
T PRK14245 18 ALKGISMEIEEKSVVAFIGPSGCGKSTFLRLFNRMNDLIPATRLEGE-IRIDGRNIYD 74 (250)
T ss_pred EEeeeeEEEeCCCEEEEECCCCCCHHHHHHHHhhhhcccCCCCCceE-EEECCEeccc
Confidence 557777777777788888877 88888888766554566666664 7888887753
No 42
>PRK14429 acylphosphatase; Provisional
Probab=34.04 E-value=14 Score=25.02 Aligned_cols=55 Identities=20% Similarity=0.213 Sum_probs=32.1
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCC
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPP 97 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~p 97 (122)
.+-|||||..+... ...+|-+=-+ -+.++| .-+|.+.| +.+.|.+|-+.+++- ||
T Consensus 11 ~VQGVGFR~~v~~~----A~~~gl~G~V-~N~~dG-------~Vei~~qG-~~~~i~~f~~~l~~g-p~ 65 (90)
T PRK14429 11 KVQGVGCRRATLTK----ARALGVTGYV-TNCEDG-------SVEILAQG-SDPAVDNLIAWCEVG-VP 65 (90)
T ss_pred eecCeeeHHHHHHH----HHHhCCEEEE-EECCCC-------eEEEEEEe-CHHHHHHHHHHHhhC-CC
Confidence 45689999987332 2233332222 223333 13566776 566799999999863 44
No 43
>PF14470 bPH_3: Bacterial PH domain
Probab=32.95 E-value=1.2e+02 Score=19.42 Aligned_cols=31 Identities=10% Similarity=0.176 Sum_probs=25.2
Q ss_pred CCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 62 PAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 62 ~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
..+.+.+ +...+.+..+++..+..|...|++
T Consensus 66 ~~i~i~~-~~~~~~i~~i~k~~~~~~~~~i~~ 96 (96)
T PF14470_consen 66 GKITIET-NGEKIKIDNIQKGDVKEFYEYIKE 96 (96)
T ss_pred cEEEEEE-CCEEEEEEEcCHHHHHHHHHHHhC
Confidence 5566776 456888999999999999998874
No 44
>PRK14423 acylphosphatase; Provisional
Probab=32.27 E-value=16 Score=24.84 Aligned_cols=52 Identities=17% Similarity=0.155 Sum_probs=31.2
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
.+-|||||.++.. +..+||.+=-+ -++++| .-+|.+.|. .+.|.+|.+.+++
T Consensus 14 ~VQGVGFR~~v~~----~A~~lgl~G~V-~N~~dG-------~Vei~~~G~-~~~i~~f~~~l~~ 65 (92)
T PRK14423 14 RVQGVYYRASTRD----TARELGVDGWV-RNLDDG-------RVEAVFEGP-RDAVEAMVEWCHE 65 (92)
T ss_pred ecCCeeehHHHHH----HHHHcCCEEEE-EECCCC-------eEEEEEEEC-HHHHHHHHHHHHh
Confidence 4568999998732 22333333322 233333 125667774 5679999999984
No 45
>PRK14433 acylphosphatase; Provisional
Probab=30.37 E-value=14 Score=24.95 Aligned_cols=52 Identities=19% Similarity=0.260 Sum_probs=33.5
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
.+-|||||.++.. +...+|.+--+ -++|+| .-+|.+.|.+ +.|.+|...|++
T Consensus 10 ~VQGVGFR~~v~~----~A~~~~l~G~V-~N~~dG-------~Vei~~~G~~-~~i~~f~~~l~~ 61 (87)
T PRK14433 10 RVQGVGYRAFVQK----KARELGLSGYA-ENLSDG-------RVEVVAEGPK-EALERLLHWLRR 61 (87)
T ss_pred eeeCcCchHHHHH----HHHHcCCEEEE-EECCCC-------CEEEEEEECH-HHHHHHHHHHhh
Confidence 5678999998732 33344444443 455655 1346677765 589999999974
No 46
>PF05137 PilN: Fimbrial assembly protein (PilN); InterPro: IPR007813 PilN is a plasmid-encoded, lipoprotein which locates to the outer membrane of bacteria and are part of a thin pilus required only for liquid mating [].
Probab=29.52 E-value=1.3e+02 Score=18.51 Aligned_cols=36 Identities=19% Similarity=0.328 Sum_probs=24.8
Q ss_pred eeCCCCcEEEec--CCeEEEEEecC--HHHHHHHHHHhhc
Q 033325 58 LTVPPAVRVFCL--KNNVVCCCGLD--KHRVHQFAASVRS 93 (122)
Q Consensus 58 ~~IP~~v~v~~~--~~t~I~l~Gid--K~~VgqfAa~Ir~ 93 (122)
-.+|+|+.++-- +.+.+.|+|.- .+.|.+|..++++
T Consensus 8 ~~~P~~v~l~~l~~~~~~l~i~G~a~~~~~v~~f~~~L~~ 47 (78)
T PF05137_consen 8 RALPEGVWLTSLSINGNTLSISGYADSYQSVAAFLRNLEQ 47 (78)
T ss_pred hhCCCCEEEEEEEEeCCEEEEEEEECCHHHHHHHHHHHhh
Confidence 457999876542 34578888764 7777777777765
No 47
>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]
Probab=29.10 E-value=1.4e+02 Score=24.13 Aligned_cols=58 Identities=21% Similarity=0.227 Sum_probs=44.2
Q ss_pred eeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCCCCCCCCc-eeecCeEEEecCCcc
Q 033325 58 LTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPPEPFKGKG-IMYTDEVIKKKVGKK 119 (122)
Q Consensus 58 ~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~pepYKGKG-I~~~~E~I~~K~gKk 119 (122)
.++-.||.+...+-..|.|-|.+=.-=..|-.-|--+..|.. | |..+||.|++|.++-
T Consensus 19 ~eVLKGvSL~A~~GdVisIIGsSGSGKSTfLRCiN~LE~P~~----G~I~v~geei~~k~~~~ 77 (256)
T COG4598 19 HEVLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEKPSA----GSIRVNGEEIRLKRDKD 77 (256)
T ss_pred chhhcceeeecCCCCEEEEecCCCCchhHHHHHHHhhcCCCC----ceEEECCeEEEeeeCCC
Confidence 456678888888877888877774444567777777777754 5 999999999998764
No 48
>PRK14435 acylphosphatase; Provisional
Probab=28.31 E-value=15 Score=24.93 Aligned_cols=52 Identities=23% Similarity=0.441 Sum_probs=31.2
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
.+-|||||..+......+.|. ||- -+.|+| .-+|.+.| |.+.|.+|.+.+++
T Consensus 11 ~VQGVGFR~~v~~~A~~~gl~-G~V----~N~~dG-------~Vei~~~G-~~~~i~~f~~~l~~ 62 (90)
T PRK14435 11 IVQGVGFRYFTRRVAKSLGVK-GYV----MNMDDG-------SVFIHAEG-DENALRRFLNEVAK 62 (90)
T ss_pred EeCCcCChHHHHHHHHHhCCE-EEE----EECCCC-------CEEEEEEE-CHHHHHHHHHHHhh
Confidence 466899999874332222222 322 233333 24666777 44679999999984
No 49
>PRK14440 acylphosphatase; Provisional
Probab=27.23 E-value=16 Score=24.78 Aligned_cols=53 Identities=15% Similarity=0.292 Sum_probs=32.8
Q ss_pred EEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 28 LKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 28 L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
=.+-|||||..+..... .+|-+=- .-+.++| .-+|.+.|.+ +.|.+|.+.|++
T Consensus 11 G~VQGVGFR~~v~~~A~----~~gl~G~-V~N~~dG-------~Vei~~~G~~-~~v~~f~~~l~~ 63 (90)
T PRK14440 11 GLVQGVGFRKFVQIHAI----RLGIKGY-AKNLPDG-------SVEVVAEGYE-EALSKLLERIKQ 63 (90)
T ss_pred EeEeccCchHHHHHHHH----HcCCEEE-EEECCCC-------CEEEEEEcCH-HHHHHHHHHHhh
Confidence 35678999998743322 2332222 2344444 2357788855 889999999984
No 50
>PRK14445 acylphosphatase; Provisional
Probab=26.51 E-value=22 Score=24.04 Aligned_cols=55 Identities=13% Similarity=0.128 Sum_probs=33.1
Q ss_pred EEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 26 RFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 26 ~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
..=.+-|||||.++.. +...+|-+--+ -+.++| .-+|.+.| +.+.|.+|.+.+++
T Consensus 10 v~G~VQGVGFR~~v~~----~A~~~gl~G~V-~N~~dG-------~Vei~~qG-~~~~l~~f~~~l~~ 64 (91)
T PRK14445 10 VSGLVQGVGFRMFIDR----AASELNLSGWV-RNLPDG-------TVEIEAQG-SSGMIDELIKQAER 64 (91)
T ss_pred EEEEEcCcCChHHHHH----HHhhCCCEEEE-EECCCC-------eEEEEEEE-CHHHHHHHHHHHHh
Confidence 3345678999998733 33334444333 233443 12566777 55669999999984
No 51
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=26.32 E-value=2.3e+02 Score=24.58 Aligned_cols=61 Identities=10% Similarity=0.141 Sum_probs=41.7
Q ss_pred EEE-Eeccceee-eeeCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEE
Q 033325 46 LYL-KLGYVHDV-ELTVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVI 112 (122)
Q Consensus 46 L~l-~LGySH~i-~~~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I 112 (122)
+.+ .+.|+++- .-++-++++++++..+.+.|.|.+ |..+-+..+. +- +|++|. |+++|..+
T Consensus 342 i~~~~vsf~y~~~~~~il~~i~l~i~~G~~~aIvG~sGsGKSTLl~ll~g---l~--~p~~G~-I~i~g~~i 407 (582)
T PRK11176 342 IEFRNVTFTYPGKEVPALRNINFKIPAGKTVALVGRSGSGKSTIANLLTR---FY--DIDEGE-ILLDGHDL 407 (582)
T ss_pred EEEEEEEEecCCCCCccccCceEEeCCCCEEEEECCCCCCHHHHHHHHHh---cc--CCCCce-EEECCEEh
Confidence 555 55555543 245788999999988899999977 7776655543 22 445665 88888765
No 52
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=25.80 E-value=1.1e+02 Score=20.64 Aligned_cols=32 Identities=9% Similarity=0.071 Sum_probs=24.2
Q ss_pred CcEEEecC--CeEEEEEecCHHHHHHHHHHhhcc
Q 033325 63 AVRVFCLK--NNVVCCCGLDKHRVHQFAASVRSC 94 (122)
Q Consensus 63 ~v~v~~~~--~t~I~l~GidK~~VgqfAa~Ir~~ 94 (122)
++.+..++ .+.+.++++|++....+...+++.
T Consensus 55 Dl~v~~k~~~~~~~~fs~I~~~e~~~l~~~l~~~ 88 (95)
T PF08512_consen 55 DLVVILKDYEGPPHEFSSIDREEYDNLKDFLKSK 88 (95)
T ss_dssp EEEEEETT-TS-EEEEEEEEGGGHHHHHHHHHHC
T ss_pred EEEEEEecCCCCcEEEeeECHHHHHHHHHHHHHC
Confidence 34555555 679999999999999988887764
No 53
>PF02837 Glyco_hydro_2_N: Glycosyl hydrolases family 2, sugar binding domain; InterPro: IPR006104 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 2 GH2 from CAZY comprises enzymes with several known activities; beta-galactosidase (3.2.1.23 from EC); beta-mannosidase (3.2.1.25 from EC); beta-glucuronidase (3.2.1.31 from EC). These enzymes contain a conserved glutamic acid residue which has been shown [], in Escherichia coli lacZ (P00722 from SWISSPROT), to be the general acid/base catalyst in the active site of the enzyme. This domain has a jelly-roll fold [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3DEC_A 3OB8_A 3OBA_A 3CMG_A 3FN9_C 2VZU_A 2X09_A 2VZO_A 2X05_A 2VZV_B ....
Probab=25.79 E-value=1.7e+02 Score=20.65 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=38.5
Q ss_pred cceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEE
Q 033325 22 AKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCC 77 (122)
Q Consensus 22 ~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~ 77 (122)
++-...|.+-|+.+.+.+-.+|..+--.-|...|..+.|++-++--- .+.|.|.
T Consensus 83 ~~~~~~L~f~gv~~~a~v~vNG~~vg~~~~~~~~~~~dIt~~l~~g~--~N~l~V~ 136 (167)
T PF02837_consen 83 KGKRVFLRFEGVDYAAEVYVNGKLVGSHEGGYTPFEFDITDYLKPGE--ENTLAVR 136 (167)
T ss_dssp TTSEEEEEESEEESEEEEEETTEEEEEEESTTS-EEEECGGGSSSEE--EEEEEEE
T ss_pred cCceEEEEeccceEeeEEEeCCeEEeeeCCCcCCeEEeChhhccCCC--CEEEEEE
Confidence 46778899999999999988887776666666688899987643222 2455555
No 54
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in
Probab=25.60 E-value=2.8e+02 Score=20.75 Aligned_cols=52 Identities=12% Similarity=0.134 Sum_probs=34.5
Q ss_pred eeCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEE
Q 033325 58 LTVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVI 112 (122)
Q Consensus 58 ~~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I 112 (122)
..+-.++++++.....+.|.|.+ |..+-...+.+. +..+|+.|. |.++|+.+
T Consensus 20 ~~~l~~vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~--~~~~~~~G~-i~~~g~~~ 74 (226)
T cd03234 20 ARILNDVSLHVESGQVMAILGSSGSGKTTLLDAISGRV--EGGGTTSGQ-ILFNGQPR 74 (226)
T ss_pred cccccCceEEEcCCeEEEEECCCCCCHHHHHHHHhCcc--CCCCCCceE-EEECCEEC
Confidence 44567888888887788888887 776666665543 222345554 77787765
No 55
>PRK14430 acylphosphatase; Provisional
Probab=25.54 E-value=21 Score=24.35 Aligned_cols=52 Identities=21% Similarity=0.301 Sum_probs=30.5
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
.+-|||||.++..... .||-+=-+ -+.|+| .-+|.++| +.+.|.+|-..+++
T Consensus 13 ~VQGVGFR~~~~~~A~----~lgl~G~V-rN~~dG-------sVei~~qG-~~~~i~~f~~~l~~ 64 (92)
T PRK14430 13 RVQGVGYRAACADAAD----DLGLGGWV-RNRADG-------TVEVMASG-TVRQLEALRAWMEA 64 (92)
T ss_pred eecceeeHHHHHHHHH----HhCCEEEE-EECCCC-------cEEEEEEc-CHHHHHHHHHHHHh
Confidence 4668999998732222 22222111 233443 23556666 77899999999954
No 56
>PRK14425 acylphosphatase; Provisional
Probab=25.43 E-value=19 Score=24.69 Aligned_cols=52 Identities=19% Similarity=0.294 Sum_probs=29.6
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRS 93 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~ 93 (122)
.+-|||||.++... ...+|.+=-+ -+.++| .-+|.+.|.+ +.|.+|...|+.
T Consensus 15 ~VQGVGFR~~v~~~----A~~~gl~G~V-~N~~dG-------sVei~~qG~~-~~le~f~~~l~~ 66 (94)
T PRK14425 15 RVQGVGFRDWTRDE----AERLGLTGWV-RNESDG-------SVTALIAGPD-SAISAMIERFRR 66 (94)
T ss_pred eEecccchHHHHHH----HHHhCCEEEE-EECCCC-------eEEEEEEeCH-HHHHHHHHHHhh
Confidence 46689999987322 2233332222 233443 1345566544 459999999985
No 57
>cd06472 ACD_ScHsp26_like Alpha crystallin domain (ACD) found in Saccharomyces cerevisiae (Sc) small heat shock protein (Hsp)26 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. ScHsp26 is temperature-regulated, it switches from an inactive to a chaperone-active form upon elevation in temperature. It associates into large 24-mers storage forms which upon heat shock disassociate into dimers. These dimers initiate the interaction with non-native substrate proteins and re-assemble into large globular assemblies having one monomer of substrate bound per dimer. This group also contains Arabidopsis thaliana (Ath) Hsp15.7, a peroxisomal matrix protein which can complement the morphological phenotype of S. cerevisiae mutants deficient in Hsps26. AthHsp15.7 is minimally expressed under normal conditions and is strongly induced by heat and oxidative st
Probab=24.80 E-value=1.1e+02 Score=20.14 Aligned_cols=27 Identities=26% Similarity=0.250 Sum_probs=19.9
Q ss_pred eeeeeCC----CCcEEEecCCeEEEEEecCH
Q 033325 55 DVELTVP----PAVRVFCLKNNVVCCCGLDK 81 (122)
Q Consensus 55 ~i~~~IP----~~v~v~~~~~t~I~l~GidK 81 (122)
-+.+.+| ++|+|.+.+++.++|+|.-+
T Consensus 12 ~i~~~lPGv~~edi~i~v~~~~~L~I~g~~~ 42 (92)
T cd06472 12 VFKADVPGVKKEDVKVEVEDGRVLRISGERK 42 (92)
T ss_pred EEEEECCCCChHhEEEEEeCCCEEEEEEEec
Confidence 3455666 89999998666899999653
No 58
>PF13629 T2SS-T3SS_pil_N: Pilus formation protein N terminal region
Probab=24.27 E-value=2e+02 Score=18.26 Aligned_cols=15 Identities=27% Similarity=0.288 Sum_probs=10.3
Q ss_pred EEEEEeccceeeeee
Q 033325 45 LLYLKLGYVHDVELT 59 (122)
Q Consensus 45 ~L~l~LGySH~i~~~ 59 (122)
.|.|..|.|+.+.++
T Consensus 4 ~l~l~~g~s~~l~~~ 18 (72)
T PF13629_consen 4 SLTLTVGQSRILRLP 18 (72)
T ss_pred EEEEeCCCEEEEEcC
Confidence 577777777776663
No 59
>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional
Probab=23.85 E-value=3.4e+02 Score=20.92 Aligned_cols=54 Identities=19% Similarity=0.186 Sum_probs=36.9
Q ss_pred eCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 59 TVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 59 ~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
++-+++++++.....+.|.|.+ |..+-+..+-+-...|+.|..|. |.++|+.+.
T Consensus 27 ~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~p~~p~~G~-i~~~g~~~~ 83 (260)
T PRK10744 27 HALKNINLDIAKNQVTAFIGPSGCGKSTLLRTFNRMYELYPEQRAEGE-ILLDGENIL 83 (260)
T ss_pred EEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhcccccCCCCCcceE-EEECCEEcc
Confidence 3567888888887788888887 88777777655322122355554 888888764
No 60
>PRK13781 paaB phenylacetate-CoA oxygenase subunit PaaB; Provisional
Probab=23.71 E-value=29 Score=24.48 Aligned_cols=15 Identities=33% Similarity=0.390 Sum_probs=13.2
Q ss_pred ccceeeeeeCCCCcE
Q 033325 51 GYVHDVELTVPPAVR 65 (122)
Q Consensus 51 GySH~i~~~IP~~v~ 65 (122)
=|.||..+.||++|.
T Consensus 79 ~YRh~tfy~~p~~v~ 93 (95)
T PRK13781 79 VYRHPTFYTLPDEVG 93 (95)
T ss_pred cccCcccccCccccC
Confidence 389999999999974
No 61
>cd06480 ACD_HspB8_like Alpha-crystallin domain (ACD) found in mammalian 21.6 KDa small heat shock protein (sHsp) HspB8, also denoted as Hsp22 in humans, and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. A chaperone complex formed of HspB8 and Bag3 stimulates degradation of protein complexes by macroautophagy. HspB8 also forms complexes with Hsp27 (HspB1), MKBP (HspB2), HspB3, alphaB-crystallin (HspB5), Hsp20 (HspB6), and cvHsp (HspB7). These latter interactions may depend on phosphorylation of the respective partner sHsp. HspB8 may participate in the regulation of cell proliferation, cardiac hypertrophy, apoptosis, and carcinogenesis. Point mutations in HspB8 have been correlated with the development of several congenital neurological diseases, including Charcot Marie tooth disease and distal motor neuropathy type II.
Probab=23.51 E-value=50 Score=22.62 Aligned_cols=21 Identities=19% Similarity=0.227 Sum_probs=17.2
Q ss_pred CCCcEEEecCCeEEEEEecCHH
Q 033325 61 PPAVRVFCLKNNVVCCCGLDKH 82 (122)
Q Consensus 61 P~~v~v~~~~~t~I~l~GidK~ 82 (122)
|++|+|++.+ +.++|+|--.+
T Consensus 28 pEDL~Vkv~~-~~L~V~Gkh~~ 48 (91)
T cd06480 28 PEELTVKTKD-GFVEVSGKHEE 48 (91)
T ss_pred HHHcEEEEEC-CEEEEEEEECc
Confidence 8999999988 48999996543
No 62
>PRK14432 acylphosphatase; Provisional
Probab=22.82 E-value=33 Score=23.45 Aligned_cols=54 Identities=15% Similarity=0.191 Sum_probs=31.2
Q ss_pred EEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhcc
Q 033325 29 KIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSC 94 (122)
Q Consensus 29 ~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~ 94 (122)
.+-|||||..+..... .+|-+=-+ -+.|+| .-+|.+.+-|.+.|.+|...++.=
T Consensus 11 ~VQGVGFR~~v~~~A~----~lgl~G~V-~N~~dG-------~Vei~~~~G~~~~v~~f~~~l~~g 64 (93)
T PRK14432 11 KVQGVGFRFFTEQIAN----NMKLKGFV-KNLNDG-------RVEIVAFFNTKEQMKKFEKLLKNG 64 (93)
T ss_pred eecCeeehHHHHHHHH----HhCCEEEE-EECCCC-------CEEEEEEECCHHHHHHHHHHHHhC
Confidence 5668999998743222 22222111 233443 124445545788999999988874
No 63
>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional
Probab=22.73 E-value=3.8e+02 Score=20.98 Aligned_cols=53 Identities=15% Similarity=0.247 Sum_probs=35.7
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
+-.++++++.....+.|.|.+ |..+-+..+-+-...+.+|..|. |.++|+.+.
T Consensus 35 ~l~~vs~~i~~Ge~~~IiG~nGsGKSTLl~~l~Gl~~~~~~~~~~G~-i~~~g~~l~ 90 (274)
T PRK14265 35 ALVDVHLKIPAKKIIAFIGPSGCGKSTLLRCFNRMNDLIPGAKVEGR-LLYRDRNIY 90 (274)
T ss_pred EEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhcccccccCCCcCce-EEECCEecc
Confidence 557888888887788888877 87777766655332222245554 788887764
No 64
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=22.64 E-value=2.5e+02 Score=24.06 Aligned_cols=62 Identities=16% Similarity=0.165 Sum_probs=38.7
Q ss_pred EEE-EeccceeeeeeCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 46 LYL-KLGYVHDVELTVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 46 L~l-~LGySH~i~~~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
+.+ .+.|+++-.-++-++++++++..+.+-|.|.+ |..+-+..+ .+ -+|++|. |+++|..+.
T Consensus 335 I~~~~vsf~Y~~~~~vL~~isl~i~~G~~vaIvG~SGsGKSTLl~lL~---g~--~~p~~G~-I~i~g~~i~ 400 (529)
T TIGR02868 335 LELRDLSFGYPGSPPVLDGVSLDLPPGERVAILGPSGSGKSTLLMLLT---GL--LDPLQGE-VTLDGVSVS 400 (529)
T ss_pred EEEEEEEEecCCCCceeecceEEEcCCCEEEEECCCCCCHHHHHHHHh---cC--CCCCCcE-EEECCEEhh
Confidence 444 44444432223668888888888888888887 765544433 33 3455665 888886653
No 65
>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional
Probab=22.55 E-value=3e+02 Score=21.33 Aligned_cols=53 Identities=17% Similarity=0.162 Sum_probs=38.1
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
+-.++++++...+.+.|.|.+ |..+-+..+-+....++.|..|. |.++|+.+.
T Consensus 36 il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~-i~~~g~~i~ 91 (268)
T PRK14248 36 AVNDISMDIEKHAVTALIGPSGCGKSTFLRSINRMNDLIPSARSEGE-ILYEGLNIL 91 (268)
T ss_pred eeeceEEEEcCCCEEEEECCCCCCHHHHHHHHHhcccccCCCCCceE-EEECCEEcc
Confidence 557888888887788888876 88888877776543333456664 888888764
No 66
>PRK14238 phosphate transporter ATP-binding protein; Provisional
Probab=22.49 E-value=3.4e+02 Score=21.20 Aligned_cols=53 Identities=21% Similarity=0.211 Sum_probs=36.6
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
+-.++++++.....+.|.|.+ |..+-+..+-+-...+++|..|. |.++|+.+.
T Consensus 39 il~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~~~~~~~~~G~-i~~~g~~~~ 94 (271)
T PRK14238 39 ALKNINLDIHENEVTAIIGPSGCGKSTYIKTLNRMVELVPSVKTTGK-ILYRDQNIF 94 (271)
T ss_pred eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhccCCCCCCCcee-EEECCEEcc
Confidence 457777887777788888777 87777777765433243456665 888888764
No 67
>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional
Probab=22.48 E-value=3.1e+02 Score=20.85 Aligned_cols=53 Identities=19% Similarity=0.122 Sum_probs=36.4
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
+-.++++++.....+.|.|.+ |..+-+..+-+....++.|..|. |.++|+.+.
T Consensus 18 ~l~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~-v~~~g~~i~ 73 (250)
T PRK14266 18 ILKNVNLDIPKNSVTALIGPSGCGKSTFIRTLNRMNDLIPGFRHEGH-IYLDGVDIY 73 (250)
T ss_pred EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhhccCCCCCCccE-EEECCEEcc
Confidence 457777887777778888876 87777777655433343345665 889998764
No 68
>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional
Probab=22.22 E-value=3.1e+02 Score=21.68 Aligned_cols=53 Identities=19% Similarity=0.166 Sum_probs=36.1
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
+-.++++++.....+.|.|.+ |..+-+..+-+....|+.|..|. |.++|+.+.
T Consensus 54 il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~~~p~~~~~G~-I~~~g~~i~ 109 (286)
T PRK14275 54 AVKKVNADILSKYVTAIIGPSGCGKSTFLRAINRMNDLIPSCHTTGA-LMFDGEDIY 109 (286)
T ss_pred EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcccccCCCCCCceE-EEECCEEhh
Confidence 446777777777777788776 88888777765433343345664 888887663
No 69
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=21.69 E-value=3.3e+02 Score=20.68 Aligned_cols=50 Identities=14% Similarity=0.103 Sum_probs=35.2
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCC---CCCCCceeecCeEEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPE---PFKGKGIMYTDEVIK 113 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pe---pYKGKGI~~~~E~I~ 113 (122)
+-.++++++.....+.|.|.+ |..+-+..+-+ .+|+ |..|. |.++|+.+.
T Consensus 18 ~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~---~~~~~~~~~~G~-i~~~g~~i~ 73 (250)
T PRK14247 18 VLDGVNLEIPDNTITALMGPSGSGKSTLLRVFNRL---IELYPEARVSGE-VYLDGQDIF 73 (250)
T ss_pred eeecceeEEcCCCEEEEECCCCCCHHHHHHHHhcc---CCCCCCCCCceE-EEECCEECC
Confidence 567888888887788888877 77776666654 3433 45664 888887663
No 70
>PF13037 DUF3898: Domain of unknown function (DUF3898)
Probab=21.44 E-value=1.6e+02 Score=20.58 Aligned_cols=48 Identities=23% Similarity=0.295 Sum_probs=33.4
Q ss_pred hhccccceEEEEEEEEEEeeEEEeccCCEEEEEeccceeeeeeCCCCcE
Q 033325 17 LTRMEAKFFRFLKIVGVGYKARAEAEGRLLYLKLGYVHDVELTVPPAVR 65 (122)
Q Consensus 17 i~Gv~~gf~~~L~lvGvGYr~~~~~~g~~L~l~LGySH~i~~~IP~~v~ 65 (122)
++|+-..|=..+.+-=+|=|-.+-.+|+.+.|.=|+| |+.+--|+++.
T Consensus 36 Vk~lLaDfG~~iHiAKv~~RYv~liEgd~~~FEKG~S-PVEflkP~~l~ 83 (91)
T PF13037_consen 36 VKGLLADFGETIHIAKVNDRYVLLIEGDSLQFEKGFS-PVEFLKPEDLQ 83 (91)
T ss_pred hhHHHHhhccceeEEEECCEEEEEEEcceEEEccCCC-ceeeeCchhHH
Confidence 4455556666666666664444444888999999998 78888887653
No 71
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=21.37 E-value=50 Score=25.69 Aligned_cols=25 Identities=20% Similarity=0.210 Sum_probs=18.9
Q ss_pred HhhccccceEEEEEEEEEEeeEEEe
Q 033325 16 TLTRMEAKFFRFLKIVGVGYKARAE 40 (122)
Q Consensus 16 ~i~Gv~~gf~~~L~lvGvGYr~~~~ 40 (122)
.+..+.+.+...++..||||.+.+.
T Consensus 8 ~v~~~~~~~~vviev~GvGY~v~i~ 32 (203)
T PRK14602 8 RVAERRENSCVVLTPGGVGYEVFLP 32 (203)
T ss_pred EEEEEcCCcEEEEEeCCEEEEEEcC
Confidence 3445666666678999999999873
No 72
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=21.35 E-value=3.3e+02 Score=25.54 Aligned_cols=51 Identities=16% Similarity=0.171 Sum_probs=38.3
Q ss_pred CcEEEecCCeEEEEEecCHHHHHHHHHHhhccCCC-CCCCCCceeecCeEEEec
Q 033325 63 AVRVFCLKNNVVCCCGLDKHRVHQFAASVRSCKPP-EPFKGKGIMYTDEVIKKK 115 (122)
Q Consensus 63 ~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~r~p-epYKGKGI~~~~E~I~~K 115 (122)
|+++.+.+...+.|++.|.+.+..-.+.|+.+..+ +|=. |=.|.|+....+
T Consensus 608 g~~Idi~d~G~V~I~a~d~~~~~~A~~~I~~i~~~~~~~v--G~i~~GkV~~I~ 659 (719)
T TIGR02696 608 GAEISIEDDGTVYIGAADGPSAEAARAMINAIANPTMPEV--GERFLGTVVKTT 659 (719)
T ss_pred CCEEEEecCcEEEEEeCCHHHHHHHHHHHHHhhCcCcCCC--CCEEEEEEEEEE
Confidence 67788888889999999999999999999988774 3322 335566555444
No 73
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=21.26 E-value=3.5e+02 Score=20.29 Aligned_cols=47 Identities=17% Similarity=0.204 Sum_probs=34.6
Q ss_pred CCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEE
Q 033325 60 VPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVI 112 (122)
Q Consensus 60 IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I 112 (122)
+-.+++++++....+.|.|.+ |..+-+..+-+. + |+.|. |.++|+.+
T Consensus 18 ~l~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~---~--~~~G~-i~~~g~~~ 67 (238)
T cd03249 18 ILKGLSLTIPPGKTVALVGSSGCGKSTVVSLLERFY---D--PTSGE-ILLDGVDI 67 (238)
T ss_pred ceeceEEEecCCCEEEEEeCCCCCHHHHHHHHhccC---C--CCCCE-EEECCEeh
Confidence 557888888877888888887 888777777653 2 45666 78888765
No 74
>PF00338 Ribosomal_S10: Ribosomal protein S10p/S20e; InterPro: IPR001848 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 [, ]. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes. Most of the proteins lie close to, or on the surface of, the 30S subunit, arranged peripherally around the rRNA []. The small subunit ribosomal proteins can be categorised as primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins. The small ribosomal subunit protein S10 consists of about 100 amino acid residues. In Escherichia coli, S10 is involved in binding tRNA to the ribosome, and also operates as a transcriptional elongation factor []. Experimental evidence [] has revealed that S10 has virtually no groups exposed on the ribosomal surface, and is one of the "split proteins": these are a discrete group that are selectively removed from 30S subunits under low salt conditions and are required for the formation of activated 30S reconstitution intermediate (RI*) particles. S10 belongs to a family of proteins [] that includes: bacteria S10; algal chloroplast S10; cyanelle S10; archaebacterial S10; Marchantia polymorpha and Prototheca wickerhamii mitochondrial S10; Arabidopsis thaliana mitochondrial S10 (nuclear encoded); vertebrate S20; plant S20; and yeast URP2.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1S1H_J 3U5G_U 3O30_N 3O2Z_N 3IZB_J 3U5C_U 3R2C_J 3R2D_J 2ZKQ_j 2XQD_J ....
Probab=21.13 E-value=1.3e+02 Score=19.98 Aligned_cols=23 Identities=9% Similarity=0.104 Sum_probs=20.3
Q ss_pred EEEEEecCHHHHHHHHHHhhccC
Q 033325 73 VVCCCGLDKHRVHQFAASVRSCK 95 (122)
Q Consensus 73 ~I~l~GidK~~VgqfAa~Ir~~r 95 (122)
+|.++|-|...|..++..|..+=
T Consensus 2 ~I~l~s~d~~~l~~~~~~i~~~~ 24 (97)
T PF00338_consen 2 RIKLKSYDKKLLESYVKFIHKLA 24 (97)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHH
T ss_pred EEEEEECCHHHHHHHHHHHHHHH
Confidence 57899999999999999998763
No 75
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=20.23 E-value=2.3e+02 Score=20.91 Aligned_cols=51 Identities=20% Similarity=0.212 Sum_probs=36.9
Q ss_pred eCCCCcEEEecCCeEEEEEecC---HHHHHHHHHHhhccCCCCCCCCCceeecCeEEE
Q 033325 59 TVPPAVRVFCLKNNVVCCCGLD---KHRVHQFAASVRSCKPPEPFKGKGIMYTDEVIK 113 (122)
Q Consensus 59 ~IP~~v~v~~~~~t~I~l~Gid---K~~VgqfAa~Ir~~r~pepYKGKGI~~~~E~I~ 113 (122)
++-.++++++.....+.|.|.| |..+-+..+-+. ...|..|. |.++|+.+.
T Consensus 14 ~~l~~is~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~---~~~p~~G~-i~~~g~~~~ 67 (200)
T cd03217 14 EILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGHP---KYEVTEGE-ILFKGEDIT 67 (200)
T ss_pred EeeeccceEECCCcEEEEECCCCCCHHHHHHHHhCCC---cCCCCccE-EEECCEECC
Confidence 3567888888887888888887 888777766553 13466665 888888664
No 76
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. 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 binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=20.05 E-value=2.5e+02 Score=18.58 Aligned_cols=51 Identities=16% Similarity=0.192 Sum_probs=33.7
Q ss_pred EeccceeeeeeCCCCcEEEecCCeEEEEEecCHHHHHHHHHHhhcc-CCCCC
Q 033325 49 KLGYVHDVELTVPPAVRVFCLKNNVVCCCGLDKHRVHQFAASVRSC-KPPEP 99 (122)
Q Consensus 49 ~LGySH~i~~~IP~~v~v~~~~~t~I~l~GidK~~VgqfAa~Ir~~-r~pep 99 (122)
.-|+|+-..-.-|..++|.+-...-=.+-|-+-+.+.++...|++. +-+||
T Consensus 17 ~agis~IeI~Rt~~~i~I~I~tarPg~vIG~~G~~i~~L~~~L~k~~~~~~~ 68 (81)
T cd02413 17 EDGYSGVEVRVTPTRTEIIIRATRTQNVLGEKGRRIRELTSLVQKRFNFPEG 68 (81)
T ss_pred hCCeeeEEEEEcCCeEEEEEEeCCCceEECCCchhHHHHHHHHHHHhCCCCC
Confidence 4688887777778888777654333346677777777777777653 44444
Done!