Query 029052
Match_columns 200
No_of_seqs 121 out of 1061
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 06:43:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029052.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029052hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK05518 rpl6p 50S ribosomal p 100.0 1.4E-52 3E-57 348.2 20.5 159 1-170 1-159 (180)
2 PTZ00027 60S ribosomal protein 100.0 1.6E-52 3.5E-57 350.4 20.9 166 1-170 1-166 (190)
3 PTZ00179 60S ribosomal protein 100.0 1.9E-52 4.1E-57 349.7 20.1 160 5-170 4-165 (189)
4 TIGR03653 arch_L6P archaeal ri 100.0 9.9E-52 2.1E-56 340.4 20.8 153 7-170 1-153 (170)
5 COG0097 RplF Ribosomal protein 100.0 4.1E-50 8.9E-55 331.8 18.4 154 2-170 1-154 (178)
6 CHL00140 rpl6 ribosomal protei 100.0 7.1E-50 1.5E-54 331.3 19.6 153 2-169 1-153 (178)
7 TIGR03654 L6_bact ribosomal pr 100.0 1.6E-48 3.4E-53 322.5 20.0 152 3-169 1-152 (175)
8 PRK05498 rplF 50S ribosomal pr 100.0 4.8E-48 1E-52 320.2 19.9 154 2-170 1-154 (178)
9 KOG3254 Mitochondrial/chloropl 100.0 2.9E-38 6.2E-43 260.6 11.7 154 3-168 32-185 (211)
10 KOG3255 60S ribosomal protein 99.9 1.1E-24 2.3E-29 180.7 2.3 165 1-169 1-165 (179)
11 PF00347 Ribosomal_L6: Ribosom 99.8 1.9E-18 4.2E-23 123.5 6.8 74 12-90 1-77 (77)
12 PF00347 Ribosomal_L6: Ribosom 97.7 5.7E-05 1.2E-09 53.5 4.9 63 100-171 3-67 (77)
13 PF12970 DUF3858: Domain of Un 59.1 25 0.00055 27.6 5.1 33 8-40 41-73 (116)
14 TIGR03653 arch_L6P archaeal ri 55.7 13 0.00027 30.9 3.1 23 9-31 114-136 (170)
15 cd06479 ACD_HspB7_like Alpha c 54.3 12 0.00026 27.1 2.5 27 13-39 21-55 (81)
16 COG0097 RplF Ribosomal protein 51.8 18 0.0004 30.4 3.5 31 9-39 114-145 (178)
17 CHL00140 rpl6 ribosomal protei 47.9 1.4E+02 0.003 24.7 8.1 58 106-171 17-79 (178)
18 TIGR03654 L6_bact ribosomal pr 47.3 1.2E+02 0.0025 25.1 7.6 58 106-171 16-78 (175)
19 PRK05518 rpl6p 50S ribosomal p 47.2 21 0.00046 29.8 3.2 30 9-38 120-149 (180)
20 cd02393 PNPase_KH Polynucleoti 42.8 58 0.0013 22.0 4.3 30 133-164 31-60 (61)
21 PTZ00179 60S ribosomal protein 41.2 29 0.00063 29.2 3.1 21 129-152 9-29 (189)
22 PRK14434 acylphosphatase; Prov 38.5 18 0.00039 26.8 1.3 53 96-167 11-65 (92)
23 cd06477 ACD_HspB3_Like Alpha c 37.3 21 0.00046 26.0 1.5 19 13-31 20-38 (83)
24 PRK05498 rplF 50S ribosomal pr 36.1 2.5E+02 0.0054 23.2 7.9 58 106-171 17-79 (178)
25 cd06478 ACD_HspB4-5-6 Alpha-cr 35.7 28 0.0006 25.0 1.9 18 13-30 20-37 (83)
26 cd06476 ACD_HspB2_like Alpha c 35.3 24 0.00052 25.5 1.5 19 13-31 20-38 (83)
27 cd06498 ACD_alphaB-crystallin_ 34.9 25 0.00053 25.5 1.5 18 13-30 20-37 (84)
28 PRK14420 acylphosphatase; Prov 33.1 15 0.00032 26.9 0.1 21 146-167 43-63 (91)
29 cd06480 ACD_HspB8_like Alpha-c 32.8 28 0.0006 25.9 1.5 20 13-32 28-47 (91)
30 cd06471 ACD_LpsHSP_like Group 32.3 1.1E+02 0.0024 21.8 4.6 18 14-31 24-41 (93)
31 cd06497 ACD_alphaA-crystallin_ 31.8 29 0.00064 25.1 1.5 19 13-31 23-41 (86)
32 cd06481 ACD_HspB9_like Alpha c 31.6 33 0.00071 24.9 1.7 19 13-31 20-38 (87)
33 cd06482 ACD_HspB10 Alpha cryst 30.8 31 0.00068 25.3 1.5 19 13-31 21-39 (87)
34 cd06472 ACD_ScHsp26_like Alpha 30.7 1.8E+02 0.0039 20.7 5.6 19 13-31 22-41 (92)
35 cd00298 ACD_sHsps_p23-like Thi 30.1 46 0.00099 21.6 2.1 20 13-32 19-38 (80)
36 cd06526 metazoan_ACD Alpha-cry 30.0 34 0.00073 24.2 1.5 20 13-32 20-39 (83)
37 cd06470 ACD_IbpA-B_like Alpha- 29.8 60 0.0013 23.4 2.9 19 13-31 24-42 (90)
38 PRK14424 acylphosphatase; Prov 29.1 26 0.00057 26.1 0.8 53 95-167 15-68 (94)
39 cd06475 ACD_HspB1_like Alpha c 26.5 44 0.00095 24.2 1.6 19 13-31 23-41 (86)
40 PRK14435 acylphosphatase; Prov 26.2 28 0.0006 25.6 0.5 53 96-167 11-63 (90)
41 cd06469 p23_DYX1C1_like p23_li 26.1 1.2E+02 0.0026 20.5 3.8 28 13-40 19-46 (78)
42 PRK14433 acylphosphatase; Prov 25.7 29 0.00062 25.4 0.5 52 96-167 10-62 (87)
43 PRK14423 acylphosphatase; Prov 24.5 39 0.00085 24.9 1.1 52 96-167 14-66 (92)
44 PF05137 PilN: Fimbrial assemb 24.5 1.5E+02 0.0032 20.1 4.0 39 130-168 9-49 (78)
45 PRK14445 acylphosphatase; Prov 23.8 46 0.001 24.4 1.3 56 92-167 9-65 (91)
46 PRK14441 acylphosphatase; Prov 23.8 44 0.00095 24.7 1.2 52 96-167 14-66 (93)
47 COG0071 IbpA Molecular chapero 23.8 1.5E+02 0.0033 23.2 4.4 20 13-32 63-82 (146)
48 PRK14427 acylphosphatase; Prov 21.9 40 0.00087 25.0 0.7 52 96-167 15-67 (94)
49 PRK14421 acylphosphatase; Prov 20.7 38 0.00082 25.6 0.3 56 92-167 9-65 (99)
50 PF00338 Ribosomal_S10: Riboso 20.5 1.5E+02 0.0033 21.4 3.6 49 146-195 2-51 (97)
51 PTZ00027 60S ribosomal protein 20.4 5.2E+02 0.011 21.7 7.9 57 106-170 18-82 (190)
No 1
>PRK05518 rpl6p 50S ribosomal protein L6P; Reviewed
Probab=100.00 E-value=1.4e-52 Score=348.17 Aligned_cols=159 Identities=36% Similarity=0.659 Sum_probs=148.7
Q ss_pred CcccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHh
Q 029052 1 MKTILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHV 80 (200)
Q Consensus 1 mks~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI 80 (200)
|-..+.++||.||+||+|+++++.++|+||+|+|+++|+++.+++.+ ++ +.+.++.|++++++||+|||+||||
T Consensus 1 ~~~~~~~~pI~IP~~V~v~i~~~~v~VkGp~G~L~~~~~~~~v~i~~--~~----~~i~v~~~~~~kk~ra~~gt~rslI 74 (180)
T PRK05518 1 MVAAYIREEIEIPEGVTVEIEGLVVTVKGPKGELTRDFWYPGVTISV--ED----GKVVIETEFARKKTKAMVGTFASHI 74 (180)
T ss_pred CccccccccEEcCCCCEEEEECCEEEEECCCeEEEEEecCCcEEEEE--EC----CEEEEEECCCCHHHHHHHHHHHHHH
Confidence 55567889999999999999999999999999999999876788875 44 6899999999999999999999999
Q ss_pred hheeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHH
Q 029052 81 GNLITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRS 160 (200)
Q Consensus 81 ~NmI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~ 160 (200)
+|||+||++||+++|+++|+||||||++ +|+.|.|+|+||||||+.++||+||++++++ + +|+|+|+|||+||||
T Consensus 75 ~NmI~GVt~Gf~~~LelvGvGypira~~--~g~~l~l~n~LG~Sh~v~~~iP~gV~v~~~~-t--~I~i~GiDKq~Vgq~ 149 (180)
T PRK05518 75 KNMIKGVTEGFEYKLKIVYSHFPMQVKV--QGNEVVIENFLGEKSPRRAKILGGVKVKVKG-E--DVIVEGIDKEDVGQT 149 (180)
T ss_pred HhhheecccceEEEEEEEecCccEEEEE--cCCEEEEEeccccceeEEEeCCCCeEEEecC-C--EEEEEeCCHHHHHHH
Confidence 9999999999999999999999999999 7889999999999999999999999999987 4 999999999999999
Q ss_pred HHHHHhhcce
Q 029052 161 AALINQVGLC 170 (200)
Q Consensus 161 AA~Ir~~~~~ 170 (200)
||+||+.+++
T Consensus 150 AA~Ir~~~~~ 159 (180)
T PRK05518 150 AANIEQATKI 159 (180)
T ss_pred HHHHHHhhcc
Confidence 9999998764
No 2
>PTZ00027 60S ribosomal protein L6; Provisional
Probab=100.00 E-value=1.6e-52 Score=350.37 Aligned_cols=166 Identities=55% Similarity=0.912 Sum_probs=151.4
Q ss_pred CcccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHh
Q 029052 1 MKTILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHV 80 (200)
Q Consensus 1 mks~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI 80 (200)
|+...-..||+||+||+|+++++.|+|+||+|+|+++|+++++.+.+..++ +++.++.|.++++.+|+|||+||||
T Consensus 1 ~~~~~~~~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~~~~~~~~i~i~~~~----~~i~v~~~~~~~k~~a~~Gt~rslI 76 (190)
T PTZ00027 1 MKTIFSSEKIRIPEGVTVTVKSRKVTVTGKYGELTRSFRHLPVDIKLSKDG----KYIKVEMWFGTPSHLACIRTVCSHI 76 (190)
T ss_pred CcccccCCCEecCCCCEEEEECCEEEEECCCceEEEEecCCCceEEEEeCC----CEEEEEeCCCCHHHHHHHHHHHHHH
Confidence 778888999999999999999999999999999999999766666654455 6899999999999999999999999
Q ss_pred hheeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHH
Q 029052 81 GNLITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRS 160 (200)
Q Consensus 81 ~NmI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~ 160 (200)
+|||+||++||+|+|+++|+|||+++.++++|+.|.|+|+||||||+.++||+|++++++++.+++|+|+|+|||+||||
T Consensus 77 ~NmI~GVt~Gf~~~LeivGvGyra~~~v~~~g~~L~l~N~LG~Sh~i~~~iP~gv~v~~~~~~~t~I~i~G~DKq~Vgq~ 156 (190)
T PTZ00027 77 KNMMTGVTKKFQYKMRLVYAHFPINSNITDNGKTIEIRNFLGEKRVRTVKMLPGVVVEKSESVKDEIIVTGADLELVSRS 156 (190)
T ss_pred HHHhhhhcCCEEEEEEEEEeeeeEEEEEcCCCCEEEEEccCCCceeEEEECCCCeEEEeCCCCCCEEEEEeCCHHHHHHH
Confidence 99999999999999999999997443365578999999999999999999999999999986457999999999999999
Q ss_pred HHHHHhhcce
Q 029052 161 AALINQVGLC 170 (200)
Q Consensus 161 AA~Ir~~~~~ 170 (200)
||+||+.|++
T Consensus 157 AA~I~~~~~~ 166 (190)
T PTZ00027 157 AALIHQSTLV 166 (190)
T ss_pred HHHHHHHhcc
Confidence 9999999875
No 3
>PTZ00179 60S ribosomal protein L9; Provisional
Probab=100.00 E-value=1.9e-52 Score=349.72 Aligned_cols=160 Identities=51% Similarity=0.891 Sum_probs=147.9
Q ss_pred ccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhhhee
Q 029052 5 LSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGNLI 84 (200)
Q Consensus 5 igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~NmI 84 (200)
...+||+||+||+|+++++.|+|+||+|+|+++|++.++.+.++.++ ++|.+++|+++++.+|+|||+||||+|||
T Consensus 4 ~~~~pI~IP~~V~V~i~~~~ItVkGpkG~Ls~~~~~~~~~i~i~~~~----~~I~v~~~~~~kk~~al~Gt~rslI~NMI 79 (189)
T PTZ00179 4 KSQDTITIPEDVTVSVKDRIVTVKGKRGTLTKDLRHLQLDFRVNKKN----RTFTAVRWFGSKIPNSTINTALSHVRNMI 79 (189)
T ss_pred cccccEeCCCCCEEEEeCCEEEEECCCcEEEEEcCCCCcEEEEEecC----CEEEEEeCCCCHHHHHHHHHHHHHHHHHh
Confidence 34779999999999999999999999999999999875666654455 68999999999999999999999999999
Q ss_pred eeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCC--ccCEEEEEecCHhHHHHHHH
Q 029052 85 TGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEK--VKDELILDGNDIELVSRSAA 162 (200)
Q Consensus 85 ~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~--~k~~Iii~G~DKe~Vgq~AA 162 (200)
+||++||+|+|+++|+||||||++ +|+.|.|+|+||||||+.++||+|+++++++| .|++|+|+|+|||+||||||
T Consensus 80 ~GVt~GF~k~L~ivgvgyp~ra~v--~g~~l~l~N~LG~sh~~~~~ip~gv~v~~~~~~~~k~~i~i~G~DKq~Vgq~AA 157 (189)
T PTZ00179 80 TGVTKGFRFKVRFAYAHFPISVSV--ENQLVEIRNFLGEKRVRRQVVADTVKVYRTDPSKVKDELVLEGNDLEQVSREAA 157 (189)
T ss_pred hhhcCCEEEEEEEEEeCcceEEEE--cCCEEEEEecCCCCccEEEECCCCEEEEecCCcccCCEEEEEeCCHHHHHHHHH
Confidence 999999999999999999999999 79999999999999999999999999999875 24699999999999999999
Q ss_pred HHHhhcce
Q 029052 163 LINQVGLC 170 (200)
Q Consensus 163 ~Ir~~~~~ 170 (200)
+|++.|++
T Consensus 158 ~i~~~~~~ 165 (189)
T PTZ00179 158 VMHQLCLV 165 (189)
T ss_pred HHHHhhcc
Confidence 99998875
No 4
>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=100.00 E-value=9.9e-52 Score=340.38 Aligned_cols=153 Identities=36% Similarity=0.661 Sum_probs=142.9
Q ss_pred ceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhhheeee
Q 029052 7 SETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGNLITG 86 (200)
Q Consensus 7 k~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~NmI~G 86 (200)
++||.||+||+|+++++.|+|+||+|+|+++|+++.+++.+ ++ +++.++.|+++++++|+|||+||||+|||+|
T Consensus 1 ~~pI~IP~~V~v~i~~~~i~vkGp~G~L~~~~~~~~v~i~~--~~----~~i~v~~~~~~k~~~a~~gt~rsli~NmI~G 74 (170)
T TIGR03653 1 REEIEIPEGVSVTIEGNIVTVKGPKGEVTRELWYPGIEISV--ED----GKVVIETDFARKKDKAMVGTYRSHIKNMIKG 74 (170)
T ss_pred CceEecCCCCEEEEeCCEEEEECCCeEEEEEEeCCcEEEEE--eC----CEEEEEeCCCCHHHHHHHHHHHHHHHhheee
Confidence 47999999999999999999999999999999545788875 44 6899999999999999999999999999999
Q ss_pred eccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHHHHHHh
Q 029052 87 VTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSAALINQ 166 (200)
Q Consensus 87 Vt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~ 166 (200)
||+||+++|+++|+|||+||++ +|+.|.|+|+||||||+.++||+||++++++ ++|+|+|+|||+||||||+||+
T Consensus 75 Vt~Gf~~~LeivGvGy~~ra~~--~g~~L~l~n~LG~Sh~i~~~iP~gI~v~~~~---~~I~i~G~DKq~Vgq~AA~Ir~ 149 (170)
T TIGR03653 75 VTEGFEYKMKVVYSHFPMQVKV--EGNKVVIENFLGEKAPRRAKIPGGVKVKVKG---EEVIVTGIDKEDVGQTAANIEQ 149 (170)
T ss_pred cccCeEEEEEEEeccccEEEEE--cCCeEEEeeccccceeEEEECCCCeEEEecC---CEEEEEeCCHHHHHHHHHHHHH
Confidence 9999999999999999999999 7889999999999999999999999999987 3899999999999999999999
Q ss_pred hcce
Q 029052 167 VGLC 170 (200)
Q Consensus 167 ~~~~ 170 (200)
.+++
T Consensus 150 ~~~~ 153 (170)
T TIGR03653 150 ATRI 153 (170)
T ss_pred hhcc
Confidence 8764
No 5
>COG0097 RplF Ribosomal protein L6P/L9E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.1e-50 Score=331.76 Aligned_cols=154 Identities=26% Similarity=0.480 Sum_probs=137.8
Q ss_pred cccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhh
Q 029052 2 KTILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVG 81 (200)
Q Consensus 2 ks~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~ 81 (200)
+|++|++|+.+|+||+|+++++.++++||+|+|+++|++..+.+. .++ +.+.+..++. ++.+|+|||+||||+
T Consensus 1 Msri~k~~i~~P~gV~V~i~~~~v~vkGpkGeL~~~~~~~~v~v~--~~~----~~~vv~~~~~-k~~~a~~Gt~rali~ 73 (178)
T COG0097 1 MSRIGKRPIVIPAGVTVSIEGQVVTVKGPKGELTREFHDNVVKVE--VED----NILVVRPVDG-KRKRALHGTVRALIN 73 (178)
T ss_pred CCceeeccEecCCCeEEEEeccEEEEECCCcEEEEEecCcceEEE--ecC----CEEEEeeccc-chhHHHHHHHHHHHH
Confidence 489999999999999999999999999999999999998443555 444 5677776666 666799999999999
Q ss_pred heeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHH
Q 029052 82 NLITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSA 161 (200)
Q Consensus 82 NmI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~A 161 (200)
||++|||+||+|+|+++|+||| |++ .|+.|.+ |||||||+.++||+|++++++++ |+|+|+|+|||+|||||
T Consensus 74 Nmv~GVteGf~~kL~ivgvgyr--a~v--~g~~l~l--~LG~shp~~~~ip~gi~v~v~~~--t~I~v~GidKe~VGQ~A 145 (178)
T COG0097 74 NMVKGVTEGFEKKLEIVGVGYR--AQV--VGGNLEL--FLGYSHPVVIEIPEGITVEVPGP--TEIVVEGIDKELVGQVA 145 (178)
T ss_pred HHheecccceEEEEEEEEecce--eEE--eccEEEE--eecccCCeEEECCCCeEEEecCC--CEEEEEcCCHHHHhHHH
Confidence 9999999999999999999996 777 4666776 99999999999999999999996 69999999999999999
Q ss_pred HHHHhhcce
Q 029052 162 ALINQVGLC 170 (200)
Q Consensus 162 A~Ir~~~~~ 170 (200)
|+||++++.
T Consensus 146 A~Ir~~r~p 154 (178)
T COG0097 146 ANIRAARKP 154 (178)
T ss_pred HHHHhccCC
Confidence 999999864
No 6
>CHL00140 rpl6 ribosomal protein L6; Validated
Probab=100.00 E-value=7.1e-50 Score=331.32 Aligned_cols=153 Identities=25% Similarity=0.418 Sum_probs=144.7
Q ss_pred cccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhh
Q 029052 2 KTILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVG 81 (200)
Q Consensus 2 ks~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~ 81 (200)
+||+|++||+||+||+|+++++.|+|+||+|+|+++|++ ++++.. ++ +++.++.|+++++++|+|||+||||+
T Consensus 1 msrig~~~I~IP~~V~v~i~~~~v~vkGp~G~l~~~~~~-~v~i~~--~~----~~i~v~~~~~~k~~~a~~gt~~slI~ 73 (178)
T CHL00140 1 MSRIGKLPIKIPDNVNVSIDDQIIKVKGPKGTLSRKIPD-LITIEI--QD----NSLFVSKKDESKKARALHGLYRTLIN 73 (178)
T ss_pred CCcccceeeecCCCCEEEEECCEEEEECCCEEEEEECCC-CeEEEE--eC----CEEEEEcCCCCHHHHHHHHHHHHHHH
Confidence 389999999999999999999999999999999999998 788875 54 68999999999999999999999999
Q ss_pred heeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHH
Q 029052 82 NLITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSA 161 (200)
Q Consensus 82 NmI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~A 161 (200)
|||+||++||+++|+++|+|| ||++ +|+.|.| +||||||+.++||+|++|+++++ |+|+|+|+|||+|||||
T Consensus 74 Nmi~GVt~Gf~~~L~lvGvGy--r~~~--~g~~l~l--~LG~sh~i~~~IP~gv~v~~~~~--t~I~i~G~dke~Vgq~A 145 (178)
T CHL00140 74 NMVIGVSEGFEKKLELQGVGY--RAQV--QGKDLIL--NLGYSHPVKIKIPPGISVEVENN--TNITIKGIDKELVGQFA 145 (178)
T ss_pred HHHhhcccCceEEEEEEEEEE--EEEE--eCCcEEE--EecCCeeEEEECCCCeEEEeCCC--CEEEEEECCHHHHHHHH
Confidence 999999999999999999999 6999 6888999 99999999999999999999986 59999999999999999
Q ss_pred HHHHhhcc
Q 029052 162 ALINQVGL 169 (200)
Q Consensus 162 A~Ir~~~~ 169 (200)
|+||+++.
T Consensus 146 A~Ir~~r~ 153 (178)
T CHL00140 146 AKIRSVRP 153 (178)
T ss_pred HHHhccCC
Confidence 99999875
No 7
>TIGR03654 L6_bact ribosomal protein L6, bacterial type.
Probab=100.00 E-value=1.6e-48 Score=322.47 Aligned_cols=152 Identities=24% Similarity=0.469 Sum_probs=143.4
Q ss_pred ccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhhh
Q 029052 3 TILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGN 82 (200)
Q Consensus 3 s~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~N 82 (200)
|++|+.+|+||++|+|+++++.|+|+||+|+|+++|+ +.+++.+ ++ +.+.++.|+++++++|+|||+||||+|
T Consensus 1 s~ig~~~I~IP~~V~v~~~~~~v~v~Gp~G~l~~~l~-~~i~i~~--~~----~~i~v~~~~~~kk~~a~~gt~~s~i~N 73 (175)
T TIGR03654 1 SRIGKKPIAIPAGVEVTIDGNVVTVKGPKGELSRTLH-PGVTVKV--ED----GQLTVSRPNDSKEARALHGTTRALINN 73 (175)
T ss_pred CcccccceecCCCcEEEEeCCEEEEEcCCeEEEEEcC-CCeEEEE--EC----CEEEEEecCCCHHHHHHHHHHHHHHHH
Confidence 7899999999999999999999999999999999996 4888875 44 689999999999999999999999999
Q ss_pred eeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHHH
Q 029052 83 LITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSAA 162 (200)
Q Consensus 83 mI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~AA 162 (200)
||+||++||+++|+++|+|| ||++ +|+.|.| +||||||+.++||+|++++++++ ++|+|+|+|||+||||||
T Consensus 74 mi~GVt~Gf~~~L~lvGvgy--rv~~--~g~~l~l--~LG~sh~i~~~Ip~~v~v~~~~~--t~I~i~G~dke~Vgq~AA 145 (175)
T TIGR03654 74 MVIGVSEGFEKKLEIVGVGY--RAQL--QGKKLNL--SLGYSHPVEYEIPEGITVEVPKP--TEIVVKGIDKQLVGQVAA 145 (175)
T ss_pred HhheeccCcEEEEEEEEEEE--EEEE--eCCeEEE--EecCceeEEEECCCCeEEEeCCC--CEEEEEECCHHHHHHHHH
Confidence 99999999999999999999 6999 7889999 99999999999999999999986 599999999999999999
Q ss_pred HHHhhcc
Q 029052 163 LINQVGL 169 (200)
Q Consensus 163 ~Ir~~~~ 169 (200)
+||+++.
T Consensus 146 ~Ir~~r~ 152 (175)
T TIGR03654 146 EIRAFRK 152 (175)
T ss_pred HHhccCC
Confidence 9999875
No 8
>PRK05498 rplF 50S ribosomal protein L6; Validated
Probab=100.00 E-value=4.8e-48 Score=320.25 Aligned_cols=154 Identities=25% Similarity=0.465 Sum_probs=144.2
Q ss_pred cccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhh
Q 029052 2 KTILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVG 81 (200)
Q Consensus 2 ks~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~ 81 (200)
+|++|+.+|+||++|+|+++++.|+|+||+|+|+++|++ .+++.+ ++ +.+.++.|.++++++|+|||+||||+
T Consensus 1 ms~ig~~~I~IP~~V~v~~~~~~v~vkGp~G~l~~~~~~-~v~i~~--~~----~~i~v~~~~~~k~~~a~~gt~~s~I~ 73 (178)
T PRK05498 1 MSRIGKKPIAIPAGVEVTINGNVVTVKGPKGELSRTLNP-DVTVKV--ED----NEITVTRPDDSKKARALHGTTRALIN 73 (178)
T ss_pred CCcccccceecCCCCEEEEECCEEEEECCCEEEEEEcCC-CeEEEE--EC----CEEEEEcCCCCHHHHHHHHHHHHHHH
Confidence 489999999999999999999999999999999999964 788875 44 68999999999999999999999999
Q ss_pred heeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHH
Q 029052 82 NLITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSA 161 (200)
Q Consensus 82 NmI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~A 161 (200)
|||+||++||+++|+++|+|| ||++ +|+.|.| +||||||+.++||+|++|+++++ ++|+|+|+|||+|||||
T Consensus 74 Nmi~GVt~Gf~~~L~lvGvgy--rv~~--~g~~l~l--~LG~sh~i~~~Ip~gv~v~~~~~--t~I~i~G~dke~Vg~~A 145 (178)
T PRK05498 74 NMVVGVTEGFEKKLEIVGVGY--RAQV--KGKKLNL--SLGYSHPVEYEIPEGITVEVPKP--TEIVVKGIDKQLVGQVA 145 (178)
T ss_pred HHhhhcCCCeEEEEEEEeEEE--EEEE--eCCeEEE--EecCCEEEEEECCCCeEEEeCCC--CEEEEEECCHHHHHHHH
Confidence 999999999999999999999 6999 6889999 99999999999999999999886 59999999999999999
Q ss_pred HHHHhhcce
Q 029052 162 ALINQVGLC 170 (200)
Q Consensus 162 A~Ir~~~~~ 170 (200)
|+||+++.-
T Consensus 146 A~Ir~~r~p 154 (178)
T PRK05498 146 AEIRSYRPP 154 (178)
T ss_pred HHHhccCCC
Confidence 999998763
No 9
>KOG3254 consensus Mitochondrial/chloroplast ribosomal protein L6 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-38 Score=260.60 Aligned_cols=154 Identities=19% Similarity=0.251 Sum_probs=135.6
Q ss_pred ccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHhhh
Q 029052 3 TILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGN 82 (200)
Q Consensus 3 s~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI~N 82 (200)
+.++++.|..|++-.-++++..++|+||+|+|.+++|+ +++++-.... ++........+.|++++||||+|||++|
T Consensus 32 v~~~~k~i~~~e~k~~~lege~l~vkGP~gel~l~~P~-~l~L~~dkk~---~g~~~~~k~~etkkqr~mwgt~R~l~~N 107 (211)
T KOG3254|consen 32 VYVGKKEIIVKENKQRDLEGEQLQVKGPHGELNLRFPN-YLNLSNDKKK---SGMDANIKKQETKKQRAMWGTFRALLAN 107 (211)
T ss_pred eeecceeEEeehhhccccccCceEeeCCcceeeccCCc-cccccchhhh---cceeeeecchhhHHHHHHHHHHHHHHhc
Confidence 45788899999998888999999999999999999997 7777521111 1333333446789999999999999999
Q ss_pred eeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHHH
Q 029052 83 LITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSAA 162 (200)
Q Consensus 83 mI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~AA 162 (200)
|+.|||.||.+.|++||+|| ||++ +|+.|++ +|||||++...||+++.|+++.| |.++++|+|||+|+||||
T Consensus 108 ~v~GVt~g~~k~l~lVGvGY--Ra~l--egk~l~l--klG~S~~v~l~iP~~v~Vk~p~p--tsl~~~G~dKq~V~qFAA 179 (211)
T KOG3254|consen 108 NVKGVTMGFLKILKLVGVGY--RASL--EGKFLHL--KLGYSHDVLLSIPTDVQVKNPTP--TSLVLRGIDKQKVTQFAA 179 (211)
T ss_pred cchhhhhhhhheeeEEeeee--EEEe--cCceEEE--EeccccceeecCCCceEEecCCC--CEEEEecccHHHHHHHHH
Confidence 99999999999999999999 6999 7999999 89999999999999999999997 699999999999999999
Q ss_pred HHHhhc
Q 029052 163 LINQVG 168 (200)
Q Consensus 163 ~Ir~~~ 168 (200)
.+|+|.
T Consensus 180 kvRsfk 185 (211)
T KOG3254|consen 180 KVRSFK 185 (211)
T ss_pred HHhccC
Confidence 999986
No 10
>KOG3255 consensus 60S ribosomal protein L9 [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.1e-24 Score=180.71 Aligned_cols=165 Identities=58% Similarity=0.941 Sum_probs=149.5
Q ss_pred CcccccceeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhhhhHhHHHHh
Q 029052 1 MKTILSSETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHV 80 (200)
Q Consensus 1 mks~igk~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra~~GT~rslI 80 (200)
||.++.++.+.||+||+++++++.++++||+|+|.++|.|.++++....+. .+.+.+..|...++..|..-|..|++
T Consensus 1 mk~Ilsn~tv~iPe~v~it~k~~v~~v~gprgtl~~d~~hi~~~~~~~~~~---~~~ik~~~~~~~Rk~va~l~t~~s~i 77 (179)
T KOG3255|consen 1 MKTILSNQTVHIPENVDITLKGHVVIVKGPRGTLWRDFNHINVELSLLGKK---KKRLKIDKWWGTRKGVACLRTVVSHI 77 (179)
T ss_pred CceEEeceEEecCCCceEEEeeEEEEEeCCCcceeccccccchhhhhhcch---hhhhhhhhhhccchhHHHHHHHHHHH
Confidence 899999999999999999999999999999999999999977777753322 13588899999999999999999999
Q ss_pred hheeeeeccceEEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHH
Q 029052 81 GNLITGVTKGYRYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRS 160 (200)
Q Consensus 81 ~NmI~GVt~Gf~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~ 160 (200)
+||++||+.||.|++..++.|||+...+.++++..++.||||.+.+..++..+|+........|++|+++|+|.+.|+|.
T Consensus 78 en~i~gvt~~~i~k~~av~a~f~in~~~~~~~~s~~i~n~l~~k~~~~~~~~~Gv~~~~~~~~~~~i~~~~~~~~~vs~~ 157 (179)
T KOG3255|consen 78 ENCIKGVTIGFIYKMRAVYAHFPINTVIQENGKSEEIRNFLGEKLVRRVEMRPGVTIVRSSKVKDEIVLEGNDLELVSQS 157 (179)
T ss_pred HHHHhcchHHHHHHhhhHHhhccccceecCCCcchhhhhhhhhhccceEecCCCeEEeeehhcchhheecccchhhhhhH
Confidence 99999999999999999999999999998778889999999999999999999999988766678999999999999999
Q ss_pred HHHHHhhcc
Q 029052 161 AALINQVGL 169 (200)
Q Consensus 161 AA~Ir~~~~ 169 (200)
||. ++.+.
T Consensus 158 ~a~-~~~~~ 165 (179)
T KOG3255|consen 158 AAL-QQICT 165 (179)
T ss_pred hHh-hccce
Confidence 888 55433
No 11
>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=99.75 E-value=1.9e-18 Score=123.52 Aligned_cols=74 Identities=38% Similarity=0.681 Sum_probs=66.9
Q ss_pred cCCCcEEEEeCcEEEEEcCCcEEEEEeeCCcEEEEEeecCcCCccEEEEEecCCChhhhh---hhHhHHHHhhheeeeec
Q 029052 12 IPDGVKIKINAKIIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSA---AIRTALSHVGNLITGVT 88 (200)
Q Consensus 12 IP~~V~V~i~~~~v~VkGp~G~L~~~l~~~~v~i~~~~~~~~~~~~l~i~~~~~~kk~ra---~~GT~rslI~NmI~GVt 88 (200)
||+||+|+++++.++++||+|+|+++|++ .+++++..++ +.+.+..+.+++++++ +|||+||+++||++||+
T Consensus 1 IP~gV~v~~~~~~i~v~G~~g~l~~~~~~-~v~v~~~~~~----~~~~~~~~~~~~k~~~~~a~~gt~rsli~n~i~GV~ 75 (77)
T PF00347_consen 1 IPEGVKVTIKGNIITVKGPKGELSRPIPP-GVKVEIKVED----NKITVSVLSGNKKQKAFAAMIGTYRSLINNMIKGVT 75 (77)
T ss_dssp SSTTCEEEEETTEEEEESSSSEEEEEETT-TEEEEEEEET----TSEEEEEEEESHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcEEEEEeCcEEEEECCCEeEEEECCC-CeeEEEEcCC----CceEEEECcccHhHhhhHHhhccccccccCceeEEC
Confidence 79999999999999999999999999997 6888754345 6788888888899998 99999999999999999
Q ss_pred cc
Q 029052 89 KG 90 (200)
Q Consensus 89 ~G 90 (200)
+|
T Consensus 76 ~G 77 (77)
T PF00347_consen 76 EG 77 (77)
T ss_dssp TE
T ss_pred CC
Confidence 87
No 12
>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=97.74 E-value=5.7e-05 Score=53.54 Aligned_cols=63 Identities=21% Similarity=0.186 Sum_probs=49.5
Q ss_pred EeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEec--CCccCEEEEEecCHhHHHHHHHHHHhhccee
Q 029052 100 AHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRS--EKVKDELILDGNDIELVSRSAALINQVGLCV 171 (200)
Q Consensus 100 vGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~--~~~k~~Iii~G~DKe~Vgq~AA~Ir~~~~~~ 171 (200)
.|| ++.+ +++.+. ..|+++...+++|+++++++. +...+....++.|+++. +||.++.++...
T Consensus 3 ~gV--~v~~--~~~~i~---v~G~~g~l~~~~~~~v~v~~~~~~~~~~~~~~~~~~k~~~--~~a~~gt~rsli 67 (77)
T PF00347_consen 3 EGV--KVTI--KGNIIT---VKGPKGELSRPIPPGVKVEIKVEDNKITVSVLSGNKKQKA--FAAMIGTYRSLI 67 (77)
T ss_dssp TTC--EEEE--ETTEEE---EESSSSEEEEEETTTEEEEEEEETTSEEEEEEEESHHHHH--HHHHHHHHHHHH
T ss_pred CcE--EEEE--eCcEEE---EECCCEeEEEECCCCeeEEEEcCCCceEEEECcccHhHhh--hHHhhccccccc
Confidence 456 5777 565555 599999999999999999965 43335677899999999 999999887653
No 13
>PF12970 DUF3858: Domain of Unknown Function with PDB structure (DUF3858); InterPro: IPR024544 This domain of unknown function is structurally similar to part of neuropilin-2. The proteins it occurs in have not yet been functionally characterised.; PDB: 3KD4_A.
Probab=59.14 E-value=25 Score=27.63 Aligned_cols=33 Identities=27% Similarity=0.509 Sum_probs=23.1
Q ss_pred eeeEcCCCcEEEEeCcEEEEEcCCcEEEEEeeC
Q 029052 8 ETMDIPDGVKIKINAKIIEVEGPRGKLSRDFKH 40 (200)
Q Consensus 8 ~~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l~~ 40 (200)
-.|.+|+|-++....-.-.++.|-|++++.+..
T Consensus 41 yti~~pegm~l~t~~~~K~I~N~~Gk~~isv~~ 73 (116)
T PF12970_consen 41 YTIELPEGMKLVTPPMEKKIDNPVGKVSISVKP 73 (116)
T ss_dssp EEEEE-TT-EE-S--S-EEEEETTEEEEEEEEE
T ss_pred EEEEcCCCCeeecCccceeccCCcceEEEEEEe
Confidence 357899999988888888999999999988875
No 14
>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=55.71 E-value=13 Score=30.87 Aligned_cols=23 Identities=35% Similarity=0.596 Sum_probs=14.0
Q ss_pred eeEcCCCcEEEEeCcEEEEEcCC
Q 029052 9 TMDIPDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 9 ~I~IP~~V~V~i~~~~v~VkGp~ 31 (200)
.++||+||+++..+..|+++|-.
T Consensus 114 ~~~iP~gI~v~~~~~~I~i~G~D 136 (170)
T TIGR03653 114 RAKIPGGVKVKVKGEEVIVTGID 136 (170)
T ss_pred EEECCCCeEEEecCCEEEEEeCC
Confidence 35677887776655455555543
No 15
>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB7 is a 25-kDa protein, preferentially expressed in heart and skeletal muscle. It binds the cytoskeleton protein alpha-filamin (also known as actin-binding protein 280). The expression of HspB7 is increased during rat muscle aging. Its expression is also modulated in obesity implicating this protein in this and related metabolic disorders. As the human gene encoding HspB7 is mapped to chromosome 1p36.23-p34.3 it is a positional candidate for several dystrophies and myopathies.
Probab=54.29 E-value=12 Score=27.10 Aligned_cols=27 Identities=15% Similarity=0.413 Sum_probs=21.7
Q ss_pred CCCcEEEEeCcEEEEEcCC--------cEEEEEee
Q 029052 13 PDGVKIKINAKIIEVEGPR--------GKLSRDFK 39 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~--------G~L~~~l~ 39 (200)
|+.++|++.++.|+|+|-+ |+.++.|.
T Consensus 21 pedi~V~v~~~~L~I~ger~~~~~~~~g~F~R~~~ 55 (81)
T cd06479 21 PEDIIVTTSNNQIEVHAEKLASDGTVMNTFTHKCQ 55 (81)
T ss_pred HHHeEEEEECCEEEEEEEEeccCCCEEEEEEEEEE
Confidence 6799999999999999965 56665555
No 16
>COG0097 RplF Ribosomal protein L6P/L9E [Translation, ribosomal structure and biogenesis]
Probab=51.76 E-value=18 Score=30.36 Aligned_cols=31 Identities=26% Similarity=0.530 Sum_probs=23.3
Q ss_pred eeEcCCCcEEEEeC-cEEEEEcCCcEEEEEee
Q 029052 9 TMDIPDGVKIKINA-KIIEVEGPRGKLSRDFK 39 (200)
Q Consensus 9 ~I~IP~~V~V~i~~-~~v~VkGp~G~L~~~l~ 39 (200)
.++||+|+++++.+ ..|.|+|+.-++.=.+.
T Consensus 114 ~~~ip~gi~v~v~~~t~I~v~GidKe~VGQ~A 145 (178)
T COG0097 114 VIEIPEGITVEVPGPTEIVVEGIDKELVGQVA 145 (178)
T ss_pred EEECCCCeEEEecCCCEEEEEcCCHHHHhHHH
Confidence 46889999999988 67999998755543333
No 17
>CHL00140 rpl6 ribosomal protein L6; Validated
Probab=47.92 E-value=1.4e+02 Score=24.71 Aligned_cols=58 Identities=22% Similarity=0.293 Sum_probs=41.0
Q ss_pred eEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecC--Hh---HHHHHHHHHHhhccee
Q 029052 106 ASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGND--IE---LVSRSAALINQVGLCV 171 (200)
Q Consensus 106 a~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~D--Ke---~Vgq~AA~Ir~~~~~~ 171 (200)
+++ +++.|.++.-+| -....+|.++++...+ +.|.++-.+ ++ ..|.++|.|++.-.=|
T Consensus 17 v~i--~~~~v~vkGp~G---~l~~~~~~~v~i~~~~---~~i~v~~~~~~k~~~a~~gt~~slI~Nmi~GV 79 (178)
T CHL00140 17 VSI--DDQIIKVKGPKG---TLSRKIPDLITIEIQD---NSLFVSKKDESKKARALHGLYRTLINNMVIGV 79 (178)
T ss_pred EEE--ECCEEEEECCCE---EEEEECCCCeEEEEeC---CEEEEEcCCCCHHHHHHHHHHHHHHHHHHhhc
Confidence 455 678888866666 5667888899888755 468877443 33 4789999999855443
No 18
>TIGR03654 L6_bact ribosomal protein L6, bacterial type.
Probab=47.33 E-value=1.2e+02 Score=25.08 Aligned_cols=58 Identities=22% Similarity=0.294 Sum_probs=40.6
Q ss_pred eEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecC--H---hHHHHHHHHHHhhccee
Q 029052 106 ASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGND--I---ELVSRSAALINQVGLCV 171 (200)
Q Consensus 106 a~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~D--K---e~Vgq~AA~Ir~~~~~~ 171 (200)
+++ +++.|.++.-+| -....+|+++.+...+ +.|.++-.+ + ...|-++|.|++.-.=|
T Consensus 16 v~~--~~~~v~v~Gp~G---~l~~~l~~~i~i~~~~---~~i~v~~~~~~kk~~a~~gt~~s~i~Nmi~GV 78 (175)
T TIGR03654 16 VTI--DGNVVTVKGPKG---ELSRTLHPGVTVKVED---GQLTVSRPNDSKEARALHGTTRALINNMVIGV 78 (175)
T ss_pred EEE--eCCEEEEEcCCe---EEEEEcCCCeEEEEEC---CEEEEEecCCCHHHHHHHHHHHHHHHHHhhee
Confidence 455 678889877777 4456668999998865 478876444 3 36788888888755444
No 19
>PRK05518 rpl6p 50S ribosomal protein L6P; Reviewed
Probab=47.18 E-value=21 Score=29.81 Aligned_cols=30 Identities=27% Similarity=0.297 Sum_probs=18.4
Q ss_pred eeEcCCCcEEEEeCcEEEEEcCCcEEEEEe
Q 029052 9 TMDIPDGVKIKINAKIIEVEGPRGKLSRDF 38 (200)
Q Consensus 9 ~I~IP~~V~V~i~~~~v~VkGp~G~L~~~l 38 (200)
.++||+||+++..+..|.++|..=++.-.|
T Consensus 120 ~~~iP~gV~v~~~~t~I~i~GiDKq~Vgq~ 149 (180)
T PRK05518 120 RAKILGGVKVKVKGEDVIVEGIDKEDVGQT 149 (180)
T ss_pred EEeCCCCeEEEecCCEEEEEeCCHHHHHHH
Confidence 457788888876654566666654443333
No 20
>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=42.81 E-value=58 Score=21.95 Aligned_cols=30 Identities=17% Similarity=0.350 Sum_probs=22.3
Q ss_pred CCeEEEecCCccCEEEEEecCHhHHHHHHHHH
Q 029052 133 DGVTVVRSEKVKDELILDGNDIELVSRSAALI 164 (200)
Q Consensus 133 ~gV~v~~~~~~k~~Iii~G~DKe~Vgq~AA~I 164 (200)
.|+++.+++. ..+.|+|.|++.+....+.|
T Consensus 31 tg~~I~i~~~--g~v~I~G~~~~~v~~A~~~I 60 (61)
T cd02393 31 TGVKIDIEDD--GTVYIAASDKEAAEKAKKMI 60 (61)
T ss_pred HCCEEEeCCC--CEEEEEeCCHHHHHHHHHHh
Confidence 3666666653 48999999999988766655
No 21
>PTZ00179 60S ribosomal protein L9; Provisional
Probab=41.16 E-value=29 Score=29.22 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=11.8
Q ss_pred EeCCCCeEEEecCCccCEEEEEec
Q 029052 129 VDMLDGVTVVRSEKVKDELILDGN 152 (200)
Q Consensus 129 ~~IP~gV~v~~~~~~k~~Iii~G~ 152 (200)
+.||+||+|++.+ +.|+++|+
T Consensus 9 I~IP~~V~V~i~~---~~ItVkGp 29 (189)
T PTZ00179 9 ITIPEDVTVSVKD---RIVTVKGK 29 (189)
T ss_pred EeCCCCCEEEEeC---CEEEEECC
Confidence 5567777776654 23445544
No 22
>PRK14434 acylphosphatase; Provisional
Probab=38.52 E-value=18 Score=26.80 Aligned_cols=53 Identities=23% Similarity=0.223 Sum_probs=33.5
Q ss_pred EEEEEeecceeEeccCCceEE-EecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 96 RFVYAHFPINASIGNANKSIE-IRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 96 ~lvGvGypira~v~~~g~~L~-l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
+..||||| ..+....+.+. | -||- -..++| | +|.++|.+.+.|.+|.+.+++-
T Consensus 11 ~VQGVGFR--~fv~~~A~~lg~l---~G~V----~N~~dGsV----------ei~~qG~~~~~l~~f~~~l~~g 65 (92)
T PRK14434 11 RVQGVGFR--YSVYSLALEIGDI---YGRV----WNNDDGTV----------EILAQSDDSAKLAKFIQEIRKG 65 (92)
T ss_pred eecceeEh--HHHHHHHHHcCCc---EEEE----EECCCCCE----------EEEEEcCCHHHHHHHHHHHhcC
Confidence 56789995 66643444455 4 2321 222333 2 6778887777899999998873
No 23
>cd06477 ACD_HspB3_Like Alpha crystallin domain (ACD) found in mammalian HspB3, also known as heat-shock protein 27-like protein (HSPL27, 17-kDa) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB3 is expressed in adult skeletal muscle, smooth muscle, and heart, and in several other fetal tissues. In muscle cells HspB3 forms an oligomeric 150 kDa complex with myotonic dystrophy protein kinase-binding protein (MKBP/ HspB2), this complex may comprise one of two independent muscle-cell specific chaperone systems. The expression of HspB3 is induced during muscle differentiation controlled by the myogenic factor MyoD. HspB3 may also interact with Hsp22 (HspB8).
Probab=37.30 E-value=21 Score=25.96 Aligned_cols=19 Identities=16% Similarity=0.445 Sum_probs=15.6
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|+.++|++.++.|+|+|-+
T Consensus 20 ~edI~V~v~~~~L~I~ge~ 38 (83)
T cd06477 20 PEDIIIQVFEGWLLIKGQH 38 (83)
T ss_pred HHHeEEEEECCEEEEEEEE
Confidence 5788888888888888854
No 24
>PRK05498 rplF 50S ribosomal protein L6; Validated
Probab=36.08 E-value=2.5e+02 Score=23.15 Aligned_cols=58 Identities=22% Similarity=0.304 Sum_probs=39.7
Q ss_pred eEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEe--cCHh---HHHHHHHHHHhhccee
Q 029052 106 ASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDG--NDIE---LVSRSAALINQVGLCV 171 (200)
Q Consensus 106 a~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G--~DKe---~Vgq~AA~Ir~~~~~~ 171 (200)
+++ +++.|.++.-+|. ...++|.++++...+ +.|.++- .++. .+|-++|.|++.-.=|
T Consensus 17 v~~--~~~~v~vkGp~G~---l~~~~~~~v~i~~~~---~~i~v~~~~~~k~~~a~~gt~~s~I~Nmi~GV 79 (178)
T PRK05498 17 VTI--NGNVVTVKGPKGE---LSRTLNPDVTVKVED---NEITVTRPDDSKKARALHGTTRALINNMVVGV 79 (178)
T ss_pred EEE--ECCEEEEECCCEE---EEEEcCCCeEEEEEC---CEEEEEcCCCCHHHHHHHHHHHHHHHHHhhhc
Confidence 444 6788888878883 345568889988755 4677763 3344 6788888888855444
No 25
>cd06478 ACD_HspB4-5-6 Alpha-crystallin domain found in alphaA-crystallin (HspB4), alphaB-crystallin (HspB5), and the small heat shock protein (sHsp) HspB6, also known as Hsp20. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 on the other hand is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. HspB5's functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its ol
Probab=35.72 E-value=28 Score=25.00 Aligned_cols=18 Identities=22% Similarity=0.667 Sum_probs=15.2
Q ss_pred CCCcEEEEeCcEEEEEcC
Q 029052 13 PDGVKIKINAKIIEVEGP 30 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp 30 (200)
|++++|++.++.++|+|.
T Consensus 20 ~edI~V~v~~~~L~I~g~ 37 (83)
T cd06478 20 PEELSVKVLGDFVEIHGK 37 (83)
T ss_pred HHHeEEEEECCEEEEEEE
Confidence 578889999999999884
No 26
>cd06476 ACD_HspB2_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB2/heat shock 27kDa protein 2 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB2 is preferentially and constitutively expressed in skeletal muscle and heart. HspB2 shows homooligomeric activity and forms aggregates in muscle cytosol. Although its expression is not induced by heat shock, it redistributes to the insoluble fraction in response to heat shock. In the mouse heart, HspB2 plays a role in maintaining energetic balance, by protecting cardiac energetics during ischemia/reperfusion, and allowing for increased work during acute inotropic challenge. hHspB2 [previously also known as myotonic dystrophy protein kinase (DMPK) binding protein (MKBP)] is selectively up-regulated in skeletal muscles from myotonic dystrophy patients.
Probab=35.28 E-value=24 Score=25.53 Aligned_cols=19 Identities=21% Similarity=0.548 Sum_probs=16.1
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|+.++|++.++.++|+|.+
T Consensus 20 ~edi~V~v~~~~L~I~g~~ 38 (83)
T cd06476 20 PDEITVRTVDNLLEVSARH 38 (83)
T ss_pred HHHeEEEEECCEEEEEEEE
Confidence 6788999999999998854
No 27
>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. HspB4 does not belong to this group. HspB5 shows increased synthesis in response to stress. HspB5 is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. Its functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its oligomerization and anti-apoptotic activ
Probab=34.87 E-value=25 Score=25.46 Aligned_cols=18 Identities=33% Similarity=0.741 Sum_probs=15.9
Q ss_pred CCCcEEEEeCcEEEEEcC
Q 029052 13 PDGVKIKINAKIIEVEGP 30 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp 30 (200)
|+.++|++.++.++|+|-
T Consensus 20 ~edi~V~v~~~~L~I~g~ 37 (84)
T cd06498 20 PEELKVKVLGDFIEIHGK 37 (84)
T ss_pred HHHeEEEEECCEEEEEEE
Confidence 678999999999999984
No 28
>PRK14420 acylphosphatase; Provisional
Probab=33.13 E-value=15 Score=26.93 Aligned_cols=21 Identities=19% Similarity=0.215 Sum_probs=17.4
Q ss_pred EEEEEecCHhHHHHHHHHHHhh
Q 029052 146 ELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 146 ~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
+|.++|.+ +.|.+|...|++-
T Consensus 43 ei~~qG~~-~~i~~f~~~l~~~ 63 (91)
T PRK14420 43 EIEAEGPE-EALQLFLDAIEKG 63 (91)
T ss_pred EEEEEECH-HHHHHHHHHHHhC
Confidence 67888865 8899999999865
No 29
>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=32.75 E-value=28 Score=25.92 Aligned_cols=20 Identities=25% Similarity=0.561 Sum_probs=16.9
Q ss_pred CCCcEEEEeCcEEEEEcCCc
Q 029052 13 PDGVKIKINAKIIEVEGPRG 32 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~G 32 (200)
|+.++|++.++.|+|+|...
T Consensus 28 pEDL~Vkv~~~~L~V~Gkh~ 47 (91)
T cd06480 28 PEELTVKTKDGFVEVSGKHE 47 (91)
T ss_pred HHHcEEEEECCEEEEEEEEC
Confidence 78899999999999988643
No 30
>cd06471 ACD_LpsHSP_like Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Transcription of the genes encoding Lp HSP 18.5, 18.55 and 19.3 is regulated by a variety of stresses including heat, cold and ethanol. Early growing L. plantarum cells contain elevated levels of these mRNAs which rapidly fall of as the cells enter stationary phase. Also belonging to this group is Bifidobacterium breve (Bb) HSP20 and Oenococcus oenis (syn. Leuconostoc oenos) (Oo) HSP18. Transcription of the gene encoding BbHSP20 is strongly induced following heat or osmotic shock, and that of the gene encoding OoHSP18 following heat, ethanol or acid shock. OoHSP18 is peripherally associated with the cytoplasmic me
Probab=32.33 E-value=1.1e+02 Score=21.80 Aligned_cols=18 Identities=11% Similarity=0.390 Sum_probs=15.9
Q ss_pred CCcEEEEeCcEEEEEcCC
Q 029052 14 DGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 14 ~~V~V~i~~~~v~VkGp~ 31 (200)
++++|++.++.++|+|-+
T Consensus 24 edi~v~~~~~~L~I~g~~ 41 (93)
T cd06471 24 EDIKLDYKDGYLTISAKR 41 (93)
T ss_pred HHeEEEEECCEEEEEEEE
Confidence 789999999999998855
No 31
>cd06497 ACD_alphaA-crystallin_HspB4 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaA-crystallin (HspB4, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 does not belong to this group. Mutations inHspB4 have been associated with Autosomal Dominant Congenital Cataract (ADCC). The chaperone-like functions of HspB4 are considered important for maintaining lens transparency and preventing cataract.
Probab=31.76 E-value=29 Score=25.11 Aligned_cols=19 Identities=21% Similarity=0.614 Sum_probs=15.9
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|+.++|++.++.|+|+|.+
T Consensus 23 ~edi~V~v~~~~L~I~g~~ 41 (86)
T cd06497 23 PEDLTVKVLDDYVEIHGKH 41 (86)
T ss_pred HHHeEEEEECCEEEEEEEE
Confidence 5788999999999999854
No 32
>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB9 is expressed exclusively in the normal testis and in various tumor samples and is a cancer/testis antigen. hHspB9 interacts with TCTEL1 (T-complex testis expressed protein -1), a subunit of dynein. hHspB9 and TCTEL1 are co-expressed in similar cells within the testis and in tumor cells. Included in this group is Xenopus Hsp30, a developmentally-regulated heat-inducible molecular chaperone.
Probab=31.62 E-value=33 Score=24.93 Aligned_cols=19 Identities=21% Similarity=0.691 Sum_probs=16.2
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|+.++|++.++.|+|+|-.
T Consensus 20 ~edI~V~v~~~~L~I~g~~ 38 (87)
T cd06481 20 PEDLSVRVDGRKLVVTGKR 38 (87)
T ss_pred hHHeEEEEECCEEEEEEEE
Confidence 6789999999999998854
No 33
>cd06482 ACD_HspB10 Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB10, also known as sperm outer dense fiber protein (ODFP), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB10 occurs exclusively in the axoneme of sperm cells and may have a cytoskeletal role.
Probab=30.80 E-value=31 Score=25.32 Aligned_cols=19 Identities=37% Similarity=0.662 Sum_probs=15.0
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|++++|++.++.|+|+|-+
T Consensus 21 kedI~V~v~~~~L~I~ger 39 (87)
T cd06482 21 PDQVKVKVKDGKVQVSAER 39 (87)
T ss_pred HHHeEEEEECCEEEEEEEE
Confidence 4678888888888888853
No 34
>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=30.68 E-value=1.8e+02 Score=20.75 Aligned_cols=19 Identities=21% Similarity=0.700 Sum_probs=15.5
Q ss_pred CCCcEEEEeC-cEEEEEcCC
Q 029052 13 PDGVKIKINA-KIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~-~~v~VkGp~ 31 (200)
|++++|++.+ +.++|+|.+
T Consensus 22 ~edi~i~v~~~~~L~I~g~~ 41 (92)
T cd06472 22 KEDVKVEVEDGRVLRISGER 41 (92)
T ss_pred hHhEEEEEeCCCEEEEEEEe
Confidence 4899999986 489999954
No 35
>cd00298 ACD_sHsps_p23-like This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is this ACD. sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps. p23 is a cochaperone of the Hsp90 chaperoning pathway. It binds Hsp90 and participates in the folding of a number of Hsp90 clients including the progesterone receptor. p23 also has a passive chaperoning activity. p23 in addition may act as the cytosolic prostaglandin E2 synthase. Included in this family is the p23-like C-terminal CHORD-SGT1 (CS) domain of suppressor of G2 allele of Skp1 (Sgt1) and the p23-like domains of human butyrate-induced transcript 1 (hB-ind
Probab=30.14 E-value=46 Score=21.55 Aligned_cols=20 Identities=15% Similarity=0.606 Sum_probs=16.8
Q ss_pred CCCcEEEEeCcEEEEEcCCc
Q 029052 13 PDGVKIKINAKIIEVEGPRG 32 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~G 32 (200)
|+.+.|+++++.+.|+|...
T Consensus 19 ~~~i~v~~~~~~l~v~~~~~ 38 (80)
T cd00298 19 KEDIKVEVEDNVLTISGKRE 38 (80)
T ss_pred HHHeEEEEECCEEEEEEEEc
Confidence 46799999999999998764
No 36
>cd06526 metazoan_ACD Alpha-crystallin domain (ACD) of metazoan alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps.
Probab=29.98 E-value=34 Score=24.22 Aligned_cols=20 Identities=30% Similarity=0.615 Sum_probs=16.8
Q ss_pred CCCcEEEEeCcEEEEEcCCc
Q 029052 13 PDGVKIKINAKIIEVEGPRG 32 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~G 32 (200)
|+.++|+++++.|+|+|.+.
T Consensus 20 ~edI~v~v~~~~L~I~g~~~ 39 (83)
T cd06526 20 PEELKVKVSDNKLVVEGKHE 39 (83)
T ss_pred HHHcEEEEECCEEEEEEEEe
Confidence 57889999999999998754
No 37
>cd06470 ACD_IbpA-B_like Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. IbpA and IbpB are produced during high-level production of various heterologous proteins, specifically human prorenin, renin and bovine insulin-like growth factor 2 (bIGF-2), and are strongly associated with inclusion bodies containing these heterologous proteins. IbpA and IbpB work as an integrated system to stabilize thermally aggregated proteins in a disaggregation competent state. The chaperone activity of IbpB is also significantly elevated as the temperature increases from normal to heat shock. The high temperature results in the disassociation of 2-3-MDa IbpB oligomers into smaller approximately 6
Probab=29.83 E-value=60 Score=23.41 Aligned_cols=19 Identities=21% Similarity=0.524 Sum_probs=16.5
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|++++|+++++.|+|+|..
T Consensus 24 kedi~v~~~~~~L~I~g~~ 42 (90)
T cd06470 24 EDDLEIEVENNQLTVTGKK 42 (90)
T ss_pred HHHeEEEEECCEEEEEEEE
Confidence 4689999999999999864
No 38
>PRK14424 acylphosphatase; Provisional
Probab=29.06 E-value=26 Score=26.15 Aligned_cols=53 Identities=17% Similarity=0.209 Sum_probs=33.0
Q ss_pred EEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 95 MRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 95 L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
=++.||||| ..+......+ |-+--+. .+|+| | +|.++|.+ +.|-+|.+.|++.
T Consensus 15 G~VQGVGFR--~~v~~~A~~~------gl~G~V~-N~~dG~V----------ei~~qG~~-~~v~~f~~~l~~g 68 (94)
T PRK14424 15 GVVQGVGFR--HATVREAHAL------GLRGWVA-NLEDGTV----------EAMIQGPA-AQIDRMLAWLRHG 68 (94)
T ss_pred EeecCCchH--HHHHHHHHHc------CCeEEEE-ECCCCCE----------EEEEEECH-HHHHHHHHHHHhC
Confidence 356689995 5553333333 3343333 56666 3 67788866 5599999998864
No 39
>cd06475 ACD_HspB1_like Alpha crystallin domain (ACD) found in mammalian small (s)heat shock protein (Hsp)-27 (also denoted HspB1 in human) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Hsp27 shows enhanced synthesis in response to stress. It is a molecular chaperone which interacts with a large number of different proteins. It is found in many types of human cells including breast, uterus, cervix, platelets and cancer cells. Hsp27 has diverse cellular functions including, chaperoning, regulation of actin polymerization, keratinocyte differentiation, regulation of inflammatory pathways in keratinocytes, and protection from oxidative stress through modulating glutathione levels. It is also a subunit of AUF1-containing protein complexes. It has been linked to several transduction pathways regulating cellular functions including differentiat
Probab=26.51 E-value=44 Score=24.17 Aligned_cols=19 Identities=21% Similarity=0.599 Sum_probs=14.9
Q ss_pred CCCcEEEEeCcEEEEEcCC
Q 029052 13 PDGVKIKINAKIIEVEGPR 31 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~ 31 (200)
|++++|++.++.++|+|-+
T Consensus 23 ~edi~V~v~~~~L~I~g~~ 41 (86)
T cd06475 23 PEELVVKTKDGVVEITGKH 41 (86)
T ss_pred HHHEEEEEECCEEEEEEEE
Confidence 4678888888888888853
No 40
>PRK14435 acylphosphatase; Provisional
Probab=26.17 E-value=28 Score=25.62 Aligned_cols=53 Identities=17% Similarity=0.149 Sum_probs=31.4
Q ss_pred EEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCCeEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 96 RFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDGVTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 96 ~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~gV~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
+..||||| ..+......+.| -||- -..|+| . =+|.++|.+ +.|.+|.+.+++.
T Consensus 11 ~VQGVGFR--~~v~~~A~~~gl---~G~V----~N~~dG-------~--Vei~~~G~~-~~i~~f~~~l~~g 63 (90)
T PRK14435 11 IVQGVGFR--YFTRRVAKSLGV---KGYV----MNMDDG-------S--VFIHAEGDE-NALRRFLNEVAKG 63 (90)
T ss_pred EeCCcCCh--HHHHHHHHHhCC---EEEE----EECCCC-------C--EEEEEEECH-HHHHHHHHHHhhC
Confidence 46689994 666433444444 2332 233333 0 267788854 6699999999853
No 41
>cd06469 p23_DYX1C1_like p23_like domain found in proteins similar to dyslexia susceptibility 1 (DYX1) candidate 1 (C1) protein, DYX1C1. The human gene encoding this protein is a positional candidate gene for developmental dyslexia (DD), it is located on 15q21.3 by the DYX1 DD susceptibility locus (15q15-21). Independent association studies have reported conflicting results. However, association of short-term memory, which plays a role in DD, with a variant within the DYX1C1 gene has been reported. Most proteins belonging to this group contain a C-terminal tetratricopeptide repeat (TPR) protein binding region.
Probab=26.14 E-value=1.2e+02 Score=20.52 Aligned_cols=28 Identities=18% Similarity=0.121 Sum_probs=21.9
Q ss_pred CCCcEEEEeCcEEEEEcCCcEEEEEeeC
Q 029052 13 PDGVKIKINAKIIEVEGPRGKLSRDFKH 40 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~G~L~~~l~~ 40 (200)
+++++++++++.+++.|+.=.++.+|++
T Consensus 19 ~~~v~v~~~~~~l~i~~~~~~~~~~l~~ 46 (78)
T cd06469 19 TSKVDIFCSDLYLKVNFPPYLFELDLAA 46 (78)
T ss_pred cccceEEEecCEEEEcCCCEEEEEeCcc
Confidence 6788999999999999955455666665
No 42
>PRK14433 acylphosphatase; Provisional
Probab=25.72 E-value=29 Score=25.41 Aligned_cols=52 Identities=19% Similarity=0.326 Sum_probs=32.4
Q ss_pred EEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 96 RFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 96 ~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
+..||||| ..+.+....+.| -|| .-.+|+| | +|.++|.+ +.|-+|...+++.
T Consensus 10 ~VQGVGFR--~~v~~~A~~~~l---~G~----V~N~~dG~V----------ei~~~G~~-~~i~~f~~~l~~g 62 (87)
T PRK14433 10 RVQGVGYR--AFVQKKARELGL---SGY----AENLSDGRV----------EVVAEGPK-EALERLLHWLRRG 62 (87)
T ss_pred eeeCcCch--HHHHHHHHHcCC---EEE----EEECCCCCE----------EEEEEECH-HHHHHHHHHHhhC
Confidence 56789995 666433444444 233 1344555 2 67778866 5789999988754
No 43
>PRK14423 acylphosphatase; Provisional
Probab=24.55 E-value=39 Score=24.87 Aligned_cols=52 Identities=19% Similarity=0.270 Sum_probs=31.1
Q ss_pred EEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 96 RFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 96 ~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
+..||||| ..+.+....+.| -||- -.+++| | +|.++|.+ +.+.+|.+.+++-
T Consensus 14 ~VQGVGFR--~~v~~~A~~lgl---~G~V----~N~~dG~V----------ei~~~G~~-~~i~~f~~~l~~g 66 (92)
T PRK14423 14 RVQGVYYR--ASTRDTARELGV---DGWV----RNLDDGRV----------EAVFEGPR-DAVEAMVEWCHEG 66 (92)
T ss_pred ecCCeeeh--HHHHHHHHHcCC---EEEE----EECCCCeE----------EEEEEECH-HHHHHHHHHHHhC
Confidence 45689995 666433444444 3332 222333 2 67778854 5799999999853
No 44
>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=24.51 E-value=1.5e+02 Score=20.05 Aligned_cols=39 Identities=15% Similarity=0.139 Sum_probs=28.3
Q ss_pred eCCCCeEEEecCCccCEEEEEec--CHhHHHHHHHHHHhhc
Q 029052 130 DMLDGVTVVRSEKVKDELILDGN--DIELVSRSAALINQVG 168 (200)
Q Consensus 130 ~IP~gV~v~~~~~~k~~Iii~G~--DKe~Vgq~AA~Ir~~~ 168 (200)
.+|+|+.++--.-+.+.+.|+|. |.+.|.+|..++++..
T Consensus 9 ~~P~~v~l~~l~~~~~~l~i~G~a~~~~~v~~f~~~L~~~~ 49 (78)
T PF05137_consen 9 ALPEGVWLTSLSINGNTLSISGYADSYQSVAAFLRNLEQSP 49 (78)
T ss_pred hCCCCEEEEEEEEeCCEEEEEEEECCHHHHHHHHHHHhhCC
Confidence 57899988764433357888885 5788888888887643
No 45
>PRK14445 acylphosphatase; Provisional
Probab=23.84 E-value=46 Score=24.40 Aligned_cols=56 Identities=16% Similarity=0.134 Sum_probs=32.6
Q ss_pred EEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 92 RYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 92 ~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
...=+..||||| ..+.+....+.| -|| + -..++| | +|.++|. .+.|-+|-+.+++.
T Consensus 9 ~v~G~VQGVGFR--~~v~~~A~~~gl---~G~---V-~N~~dG~V----------ei~~qG~-~~~l~~f~~~l~~g 65 (91)
T PRK14445 9 IVSGLVQGVGFR--MFIDRAASELNL---SGW---V-RNLPDGTV----------EIEAQGS-SGMIDELIKQAERG 65 (91)
T ss_pred EEEEEEcCcCCh--HHHHHHHhhCCC---EEE---E-EECCCCeE----------EEEEEEC-HHHHHHHHHHHHhC
Confidence 333456789995 666433444444 222 1 222333 2 6777884 46699999999864
No 46
>PRK14441 acylphosphatase; Provisional
Probab=23.83 E-value=44 Score=24.72 Aligned_cols=52 Identities=19% Similarity=0.210 Sum_probs=31.3
Q ss_pred EEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 96 RFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 96 ~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
+..||||| ..+......+.| -||- -..|+| | +|.++| |.+.+-.|...+++.
T Consensus 14 ~VQGVGFR--~~v~~~A~~lgL---~G~V----~N~~dG~V----------ei~~qG-~~~~i~~f~~~l~~g 66 (93)
T PRK14441 14 RVQGVAFR--QSAADEARRLGV---EGWV----RNLPDGRV----------EAEAEG-ERAAVGALVRWCHAG 66 (93)
T ss_pred ecCCccch--HHHHHHHhhcCc---EEEE----EECCCCEE----------EEEEEE-CHHHHHHHHHHHhhC
Confidence 45689995 666434455555 3332 223344 3 577778 456888888888754
No 47
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=23.75 E-value=1.5e+02 Score=23.20 Aligned_cols=20 Identities=15% Similarity=0.526 Sum_probs=17.5
Q ss_pred CCCcEEEEeCcEEEEEcCCc
Q 029052 13 PDGVKIKINAKIIEVEGPRG 32 (200)
Q Consensus 13 P~~V~V~i~~~~v~VkGp~G 32 (200)
+++++|++.++.|+|+|-..
T Consensus 63 kedI~I~~~~~~l~I~g~~~ 82 (146)
T COG0071 63 KEDIEITVEGNTLTIRGERE 82 (146)
T ss_pred hHHeEEEEECCEEEEEEEec
Confidence 47899999999999999873
No 48
>PRK14427 acylphosphatase; Provisional
Probab=21.95 E-value=40 Score=25.00 Aligned_cols=52 Identities=19% Similarity=0.223 Sum_probs=31.3
Q ss_pred EEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 96 RFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 96 ~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
++.||||| ..+......+.| -||- -..++| | +|.++|.+ +.|.+|-+.+++-
T Consensus 15 ~VQGVGFR--~fv~~~A~~lgl---~G~V----~N~~dGsV----------ei~~qG~~-~~i~~f~~~l~~~ 67 (94)
T PRK14427 15 VVQGVGFR--YWTMRKAEELGL---TGTV----RNLDDGSV----------ALVAEGTG-EQVEKLLDWLNSD 67 (94)
T ss_pred EeCCcCCh--HHHHHHHHHcCC---EEEE----EECCCCeE----------EEEEEECH-HHHHHHHHHHhhC
Confidence 45689995 666433444444 2332 222333 2 67778844 6699999999874
No 49
>PRK14421 acylphosphatase; Provisional
Probab=20.66 E-value=38 Score=25.60 Aligned_cols=56 Identities=18% Similarity=0.203 Sum_probs=33.1
Q ss_pred EEEEEEEEEeecceeEeccCCceEEEecccCceeeEEEeCCCC-eEEEecCCccCEEEEEecCHhHHHHHHHHHHhh
Q 029052 92 RYKMRFVYAHFPINASIGNANKSIEIRNFLGEKKVRKVDMLDG-VTVVRSEKVKDELILDGNDIELVSRSAALINQV 167 (200)
Q Consensus 92 ~~~L~lvGvGypira~v~~~g~~L~l~n~LG~Shpi~~~IP~g-V~v~~~~~~k~~Iii~G~DKe~Vgq~AA~Ir~~ 167 (200)
...=+..||||| ..+......+.| -||- -..++| | +|.++|.+ +.|.+|.+.+++.
T Consensus 9 ~v~G~VQGVGFR--~fv~~~A~~lgL---~G~V----~N~~dG~V----------ei~~~G~~-~~i~~f~~~l~~g 65 (99)
T PRK14421 9 TIRGRVQGVGYR--AWVARTAEALGL---EGWV----RNRRDGSV----------EALFAGPA-DAVAEMIARCRRG 65 (99)
T ss_pred EEEEeEcCccch--HHHHHHHHHhCC---EEEE----EECCCCEE----------EEEEeCCH-HHHHHHHHHHHhC
Confidence 333456789995 666433444444 2332 335555 3 56667744 5589999988753
No 50
>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=20.55 E-value=1.5e+02 Score=21.42 Aligned_cols=49 Identities=16% Similarity=0.226 Sum_probs=32.1
Q ss_pred EEEEEecCHhHHHHHHHHHHhhcceee-eeeeeeccceeeeeeeeeecccc
Q 029052 146 ELILDGNDIELVSRSAALINQVGLCVC-LCVCVRNLPVLTARSFILTEMPC 195 (200)
Q Consensus 146 ~Iii~G~DKe~Vgq~AA~Ir~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 195 (200)
+|.|+|-|+..|..++..|.++.+-.- -+...-.||.-. +.|-+---||
T Consensus 2 ~I~l~s~d~~~l~~~~~~i~~~~~~~~~~~~~~~~lPtk~-~~~tvlrSPh 51 (97)
T PF00338_consen 2 RIKLKSYDKKLLESYVKFIHKLAKNLGIKVSGPIPLPTKK-KRFTVLRSPH 51 (97)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHHHCTSSCEEEEEEEEEEE-EEEEEESSSS
T ss_pred EEEEEECCHHHHHHHHHHHHHHHHHhCCcccccccCCccE-EEEEEeecCc
Confidence 588999999999999999999886431 122334555443 2333334454
No 51
>PTZ00027 60S ribosomal protein L6; Provisional
Probab=20.36 E-value=5.2e+02 Score=21.67 Aligned_cols=57 Identities=5% Similarity=0.078 Sum_probs=36.9
Q ss_pred eEeccCCceEEEecccCceeeEEEeCCC---CeEEEecCCccCEEEEEecC--H---hHHHHHHHHHHhhcce
Q 029052 106 ASIGNANKSIEIRNFLGEKKVRKVDMLD---GVTVVRSEKVKDELILDGND--I---ELVSRSAALINQVGLC 170 (200)
Q Consensus 106 a~v~~~g~~L~l~n~LG~Shpi~~~IP~---gV~v~~~~~~k~~Iii~G~D--K---e~Vgq~AA~Ir~~~~~ 170 (200)
+++ +++.+.++.-+|.-. .++|+ ++.+...+ +.|.++-.+ + ...|.++|.|+..-.=
T Consensus 18 V~i--~~~~v~VkGp~G~L~---~~~~~~~~~i~i~~~~---~~i~v~~~~~~~k~~a~~Gt~rslI~NmI~G 82 (190)
T PTZ00027 18 VTV--KSRKVTVTGKYGELT---RSFRHLPVDIKLSKDG---KYIKVEMWFGTPSHLACIRTVCSHIKNMMTG 82 (190)
T ss_pred EEE--ECCEEEEECCCceEE---EEecCCCceEEEEeCC---CEEEEEeCCCCHHHHHHHHHHHHHHHHHhhh
Confidence 445 678888887788433 45544 77776655 468887444 2 3668888888875443
Done!