Query 030434
Match_columns 177
No_of_seqs 181 out of 725
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 13:40:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030434.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030434hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00173 60S ribosomal protein 100.0 2.8E-89 6E-94 573.1 18.4 176 1-177 1-176 (213)
2 TIGR00279 L10e ribosomal prote 100.0 1E-79 2.2E-84 502.3 18.3 170 1-174 1-170 (172)
3 PRK04199 rpl10e 50S ribosomal 100.0 5.1E-77 1.1E-81 486.5 18.0 167 1-170 1-167 (172)
4 KOG0857 60s ribosomal protein 100.0 5.1E-65 1.1E-69 424.5 4.6 176 1-177 1-177 (212)
5 COG0197 RplP Ribosomal protein 100.0 5.2E-52 1.1E-56 331.7 14.5 141 12-175 2-144 (146)
6 PF00252 Ribosomal_L16: Riboso 100.0 7.5E-38 1.6E-42 245.5 11.7 132 5-167 1-133 (133)
7 cd01433 Ribosomal_L16_L10e Rib 100.0 2.3E-37 5.1E-42 235.7 12.7 109 44-166 4-112 (112)
8 PRK09203 rplP 50S ribosomal pr 100.0 1.7E-35 3.7E-40 234.3 12.8 104 49-168 31-134 (138)
9 CHL00044 rpl16 ribosomal prote 100.0 4.2E-35 9E-40 231.6 12.5 105 48-168 30-134 (135)
10 TIGR01164 rplP_bact ribosomal 100.0 9.9E-35 2.2E-39 226.9 11.7 97 49-161 30-126 (126)
11 KOG3422 Mitochondrial ribosoma 99.9 3.3E-22 7.3E-27 168.2 10.1 107 50-169 71-177 (221)
12 PF07831 PYNP_C: Pyrimidine nu 82.4 2.8 6.2E-05 29.9 4.4 28 128-155 43-71 (75)
13 PF13533 Biotin_lipoyl_2: Biot 65.5 7.3 0.00016 25.3 2.7 22 128-151 23-44 (50)
14 PRK10380 hypothetical protein; 54.3 12 0.00026 26.4 2.3 38 13-56 3-44 (63)
15 cd00992 PDZ_signaling PDZ doma 47.3 33 0.00071 22.9 3.6 29 127-155 42-73 (82)
16 PF04019 DUF359: Protein of un 40.8 86 0.0019 24.5 5.5 46 28-73 11-59 (121)
17 PRK10597 DNA damage-inducible 39.8 1.4E+02 0.0031 21.9 6.2 47 50-112 3-51 (81)
18 PF04895 DUF651: Archaeal prot 31.9 57 0.0012 25.3 3.2 74 62-162 13-87 (110)
19 PF02391 MoaE: MoaE protein; 31.5 1.3E+02 0.0028 22.9 5.1 29 127-155 81-109 (117)
20 PF10726 DUF2518: Protein of f 31.1 1.5E+02 0.0032 24.3 5.5 48 32-91 74-125 (145)
21 KOG3016 Acyl-CoA thioesterase 30.9 1.2E+02 0.0025 27.5 5.3 73 50-141 35-113 (294)
22 COG1242 Predicted Fe-S oxidore 30.8 52 0.0011 29.9 3.1 48 45-102 181-228 (312)
23 PRK10718 RpoE-regulated lipopr 28.1 63 0.0014 27.5 3.0 32 110-141 69-100 (191)
24 PF02749 QRPTase_N: Quinolinat 27.8 54 0.0012 23.5 2.3 57 45-143 15-71 (88)
25 PF06572 DUF1131: Protein of u 27.8 39 0.00085 28.2 1.7 32 110-141 48-79 (171)
26 PF13872 AAA_34: P-loop contai 26.2 55 0.0012 29.6 2.5 23 55-77 33-55 (303)
27 PRK14445 acylphosphatase; Prov 25.5 1.8E+02 0.004 21.0 4.8 41 122-166 32-72 (91)
28 COG3129 Predicted SAM-dependen 25.5 1.3E+02 0.0028 27.0 4.6 50 24-78 73-130 (292)
29 cd00756 MoaE MoaE family. Memb 24.0 1.5E+02 0.0032 23.0 4.3 39 128-166 74-117 (124)
30 KOG4630 NADH:ubiquinone oxidor 23.7 29 0.00062 28.1 0.2 21 154-176 120-140 (142)
31 COG0279 GmhA Phosphoheptose is 23.2 94 0.002 26.2 3.1 59 90-158 72-135 (176)
32 PF13580 SIS_2: SIS domain; PD 21.6 1E+02 0.0023 23.5 3.0 39 119-158 91-129 (138)
33 cd04883 ACT_AcuB C-terminal AC 21.4 1.7E+02 0.0036 19.0 3.6 28 132-159 41-68 (72)
34 PRK14433 acylphosphatase; Prov 21.3 2.8E+02 0.006 20.0 5.0 41 122-166 29-69 (87)
35 KOG3701 TGFbeta receptor signa 21.2 2.8E+02 0.0061 26.2 6.2 94 61-173 273-374 (411)
36 TIGR03073 release_rtcB release 21.2 1.9E+02 0.0041 26.5 5.0 56 50-135 1-56 (356)
37 cd04906 ACT_ThrD-I_1 First of 21.1 1E+02 0.0022 21.7 2.6 29 131-159 39-69 (85)
38 cd04275 ZnMc_pappalysin_like Z 21.1 2.5E+02 0.0054 23.9 5.4 34 45-78 3-40 (225)
39 PRK10678 moaE molybdopterin gu 20.4 2.3E+02 0.005 22.9 4.8 41 124-164 83-127 (150)
40 PRK14452 acylphosphatase; Prov 20.1 2.9E+02 0.0063 21.0 5.1 41 122-166 48-88 (107)
41 PF06183 DinI: DinI-like famil 20.0 1.2E+02 0.0027 21.1 2.8 30 61-102 2-31 (65)
42 cd00136 PDZ PDZ domain, also c 20.0 1.4E+02 0.0031 19.2 3.0 29 127-155 29-60 (70)
No 1
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=100.00 E-value=2.8e-89 Score=573.12 Aligned_cols=176 Identities=80% Similarity=1.294 Sum_probs=174.3
Q ss_pred CCCCccccccccCCCCCCCCCCcCCCCCCceeEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhh
Q 030434 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFA 80 (177)
Q Consensus 1 m~~rpa~cyr~~~~~py~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~ 80 (177)
|+||||||||+++|||||||+||+|||||||++|||||++++|||||+|+||+|+|.+||||+||||||+++||||.|.+
T Consensus 1 M~~rParcYr~~~~~pY~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~v~Lvs~E~~qIss~aLEAaRia~nr~l~K~~ 80 (213)
T PTZ00173 1 MGRRPARCYRYCKNKPYPKSRFCRGVPDPKIRIYDIGRKKATVDEFPVCVHIVSDEYEQISSEALEAARISANKYMVKRA 80 (213)
T ss_pred CCCCchhhhhcccCCCCchhhccCCCCCCcEEEEecCCCcCCcccCCeEEEEEEcccccccHHHHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998889
Q ss_pred CCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCC
Q 030434 81 GKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFP 160 (177)
Q Consensus 81 Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP 160 (177)
|+++||||||+|||||||||||||||||||||+|||+|||+|+||||||++||+||||+++++++++|+|||++|++|||
T Consensus 81 Gk~~fhl~IRv~P~hvlR~nKm~T~AgAdrlq~gMr~gfGkp~g~vArVk~Gqiifei~~~~~~~~~AkeALrrA~~KlP 160 (213)
T PTZ00173 81 GKDGFHLRIRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPNGTCARVRIGQILLSIRTKEAYVPQAIEALRRAKYKFP 160 (213)
T ss_pred CCccceEEEEEcCCcccccccccccccCchhhhhcccCCCCccEEEEEECcCCEEEEEecccCCHHHHHHHHHHhcccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceEEEEeCcccCcccC
Q 030434 161 GRQKIIVSRKWYGFHQV 177 (177)
Q Consensus 161 ~~~kiv~~~~~~g~~~~ 177 (177)
++|+|+++++| |||+|
T Consensus 161 ~~~kIv~~~~w-gft~~ 176 (213)
T PTZ00173 161 GRQKIVVSNKW-GFTNY 176 (213)
T ss_pred CeEEEEEeccc-Ccccc
Confidence 99999999999 99986
No 2
>TIGR00279 L10e ribosomal protein L10.e. L10.e is distantly related to eubacterial ribosomal protein L16.
Probab=100.00 E-value=1e-79 Score=502.35 Aligned_cols=170 Identities=59% Similarity=0.965 Sum_probs=166.9
Q ss_pred CCCCccccccccCCCCCCCCCCcCCCCCCceeEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhh
Q 030434 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFA 80 (177)
Q Consensus 1 m~~rpa~cyr~~~~~py~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~ 80 (177)
|++|||||||++++|||||++||+|||++||++|||||++ +|||+|++|+++|++||||+||||||+++||||++..
T Consensus 1 m~~rp~r~Yr~~~~~~Ytr~~y~~g~P~~kI~~f~~G~~~---~~fp~~~~L~a~E~~~I~~~qiEAaR~a~~r~lkk~~ 77 (172)
T TIGR00279 1 MARRPARCYRYQKNRPYTRSEYIKGVPGSKIRIYDMGNKS---AEFPVCVHLVAKEPEQIRHNALEAARIAANKYMTRRA 77 (172)
T ss_pred CCCCchhhhcccCCCCCchhhccCCCCCCcEEEEECCCcc---CCCCEEEEEEECccceecHHHHHHHHHHHHHHHHhhc
Confidence 8999999999999999999999999999999999999986 5899999999999999999999999999999999999
Q ss_pred CCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCC
Q 030434 81 GKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFP 160 (177)
Q Consensus 81 Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP 160 (177)
|+++||+|||+|||||||+|||+++|||||||+|||+|||+|++|||+|++|||||||+++++++++|+|||++|++|||
T Consensus 78 g~~~~k~wIRvfP~~~lt~kp~~trmGaDRlq~GMr~gkG~p~~wvArVk~Gqiifei~~~~~~~~~AkeAlr~A~~KLP 157 (172)
T TIGR00279 78 GRMGYHLKIRVYPHHILRENKMATGAGADRIQQGMRGAFGKPVGTAARVKIGQKIFSVWTKPSNFDVAKEALRRAAMKFP 157 (172)
T ss_pred CccceEEEEEECCCCceecCchhhhcCchhhhcccccCCCCccEEEEEECcCCEEEEEEeecCCHHHHHHHHHHHhccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceEEEEeCcccCc
Q 030434 161 GRQKIIVSRKWYGF 174 (177)
Q Consensus 161 ~~~kiv~~~~~~g~ 174 (177)
++|+|+++++| +.
T Consensus 158 ~~~kiv~~~~~-~~ 170 (172)
T TIGR00279 158 VPCKIVIEKGW-EL 170 (172)
T ss_pred CcEEEEEecCc-cc
Confidence 99999999999 54
No 3
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=100.00 E-value=5.1e-77 Score=486.55 Aligned_cols=167 Identities=49% Similarity=0.778 Sum_probs=163.6
Q ss_pred CCCCccccccccCCCCCCCCCCcCCCCCCceeEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhh
Q 030434 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFA 80 (177)
Q Consensus 1 m~~rpa~cyr~~~~~py~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~ 80 (177)
|++|||||||++++|||||++||+|||++||++|||||++ +|||+|++|+|+|++||||+||||||+++||||++.+
T Consensus 1 m~~rp~~~Yr~~~~~~ytr~~yi~g~P~~kI~~f~~G~~~---~~~~~~~~L~a~E~~~I~~~qiEAaR~ai~r~lkk~~ 77 (172)
T PRK04199 1 MPLRPARCYRHISKPAYTRREYIGGVPGPKIVKFDMGNLS---GDFPVEVSLVVEEPCQIRHNALEAARIAANKYLTKTV 77 (172)
T ss_pred CCCCchhhhcccCCCCCchhcccCCCCCCeEEEEecCCcC---CCCCEEEEEEEcccccccHHHHHHHHHHHHHHHHhcc
Confidence 8999999999999999999999999999999999999977 6999999999999999999999999999999999888
Q ss_pred CCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCC
Q 030434 81 GKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFP 160 (177)
Q Consensus 81 Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP 160 (177)
|++|||||||+|||||||+|||+++|||||||+|||+|||+|++|||+|++|||||||+++.+++++|+|||++|++|||
T Consensus 78 G~~~~k~wIrvfP~~~lt~kp~~~rmGAdRmg~GMr~akG~p~~wva~Vk~G~ilfei~~~~~~~~~akeAlr~a~~KLP 157 (172)
T PRK04199 78 GRSNYHLKIRVYPHHVLRENKMATGAGADRVSDGMRLAFGKPVGTAARVEKGQKIFTVRVNPEHLEAAKEALRRAAMKLP 157 (172)
T ss_pred CCcccEEEEEeCCCcceecChhHhhcchhhhccCcccCCCCccEEEEEECcCCEEEEEEecCCCHHHHHHHHHHhhccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceEEEEeCc
Q 030434 161 GRQKIIVSRK 170 (177)
Q Consensus 161 ~~~kiv~~~~ 170 (177)
++|+|+++++
T Consensus 158 ~k~kiv~~~~ 167 (172)
T PRK04199 158 TPCRIVVEKG 167 (172)
T ss_pred CcEEEEEecc
Confidence 9999998865
No 4
>KOG0857 consensus 60s ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.1e-65 Score=424.49 Aligned_cols=176 Identities=81% Similarity=1.260 Sum_probs=174.9
Q ss_pred CCCCccccccccCCCCCCCCCCcCCCCCCceeEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhh
Q 030434 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFA 80 (177)
Q Consensus 1 m~~rpa~cyr~~~~~py~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~ 80 (177)
|||||+|||||++++||++++||+||||+||+|||+|.+++.++|||+|+|+++.|.++|+++|+||+|+++|+|+.++.
T Consensus 1 ~~~~~~~~yr~~~~~~~~ksr~~r~~p~~~~ri~d~~~~k~~~~e~~l~v~~~~~~~~~l~~~~~eA~ri~~~~~~~~~~ 80 (212)
T KOG0857|consen 1 MGRRPARCYRYSKRKPYPKSRFCRGVPDTKIRIYDLGRKKAGVDEFPLCVHLVSNEIEQLSSEALEAARICANKPMVKSK 80 (212)
T ss_pred CCCChhhhhhHHhcCCCcccccccCCCCCceeHHHhcCcCCCCcccchhhhhhhHHHHhHHHHHHHHhhhcccCcccccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceeEEEEecC-CceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccC
Q 030434 81 GKDAFHLRVRVHP-FHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKF 159 (177)
Q Consensus 81 Gk~~f~l~Irv~P-~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~Kl 159 (177)
|+|+||+++|+|| +||++.||||||||||||||||+++||||.|+||||..||+||||+++++|.|+++|||++|.+|+
T Consensus 81 ~~d~~~~r~~~~~~fhv~~i~k~ls~~~~~RLQtgmrga~gkp~G~varV~iGqvi~Svrtk~~nkeh~ieal~rak~kf 160 (212)
T KOG0857|consen 81 GKDAFHLRVRVHPNFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSVRTKLQNKEHVIEALRRAKFKF 160 (212)
T ss_pred cccchhhhhhcccchhHHHHhhhhcccchhhhhhcccccccCccceEEEEEcCceEEEeecCcccHHHHHHHHHhccccC
Confidence 9999999999999 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceEEEEeCcccCcccC
Q 030434 160 PGRQKIIVSRKWYGFHQV 177 (177)
Q Consensus 160 P~~~kiv~~~~~~g~~~~ 177 (177)
|+.++|+++++| |||++
T Consensus 161 pG~qki~vs~kw-gftk~ 177 (212)
T KOG0857|consen 161 PGRQKIVVSKKW-GFTKF 177 (212)
T ss_pred CCceeEEeeeec-Ccccc
Confidence 999999999999 99986
No 5
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.2e-52 Score=331.70 Aligned_cols=141 Identities=35% Similarity=0.444 Sum_probs=128.8
Q ss_pred cCCCCCCCCCCcCCCCCCceeEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEe
Q 030434 12 IKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRV 91 (177)
Q Consensus 12 ~~~~py~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv 91 (177)
...|+|||.+|++|+|+++|++||+||+ +|+.+++|++.|++|||++||||||+|+||||++ .| .+|||+
T Consensus 2 ml~Pk~tk~rk~~~g~~~~~~~~~~G~~-----~~fg~~gL~a~e~~~It~~qiEAARia~~R~lkr-~g----~~wIRv 71 (146)
T COG0197 2 MLQPKRTKYRKQHKGRGPGITIAKGGNK-----VFFGEYGLVALEPGQITARQIEAARIAANRYLKR-GG----GLWIRV 71 (146)
T ss_pred CcCCCcceeecccCCCCCCceeccCCcc-----ccceEEEEEEcccceecHHHHHHHHHHHHHHhhh-cC----CEEEEE
Confidence 4678999999999999999999999986 6899999999999999999999999999999986 55 399999
Q ss_pred cCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEEEe--C
Q 030434 92 HPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVS--R 169 (177)
Q Consensus 92 ~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv~~--~ 169 (177)
|||||||+|| ||||||+|| |+|+||||+|+|||+||||+++++ +.|+|||++|++|||++|++++. +
T Consensus 72 fP~~~~~~kp-----~e~Rmg~Gk----G~pegwaArVkpG~vlfei~g~~e--~~A~EAlr~Aa~KLP~~~~~v~~~~~ 140 (146)
T COG0197 72 FPDKPLTEKP-----GEDRMGKGK----GKPEGWAARVKPGRVLFEIAGVPE--ELAREALRRAAAKLPVKTKFVIRIEK 140 (146)
T ss_pred cCCceeeeCC-----CcccccCCC----CCccEEEEEecCCcEEEEEecCcH--HHHHHHHHHHhhcCCCceEEEEEEec
Confidence 9999999999 889999996 999999999999999999999866 56999999999999999665554 4
Q ss_pred cccCcc
Q 030434 170 KWYGFH 175 (177)
Q Consensus 170 ~~~g~~ 175 (177)
| .++
T Consensus 141 -~-~~~ 144 (146)
T COG0197 141 -R-EGT 144 (146)
T ss_pred -c-hhc
Confidence 6 454
No 6
>PF00252 Ribosomal_L16: Ribosomal protein L16p/L10e; InterPro: IPR016180 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a structural domain with an alpha/beta-hammerhead fold, where the beta-hammerhead motif is similar to that in barrel-sandwich hybrids. Domains of this structure can be found in ribosomal proteins L10e and L16. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 2ZJR_J 1Y69_K 3DLL_J 2ZJQ_J 2ZJP_J 3PIO_J 3CF5_J 3PIP_J 2ZKR_h 3J11_O ....
Probab=100.00 E-value=7.5e-38 Score=245.52 Aligned_cols=132 Identities=38% Similarity=0.585 Sum_probs=116.2
Q ss_pred cccc-ccccCCCCCCCCCCcCCCCCCceeEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCc
Q 030434 5 PARC-YRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKD 83 (177)
Q Consensus 5 pa~c-yr~~~~~py~r~~y~~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~ 83 (177)
|.+| ||. ..+ |+|.+|+.++|+.++. | |+ ++|+++|+++||++||||||+++||+|++ .|
T Consensus 1 Pk~~kyrk-~~k-~~r~~~~~~~~~~~l~-~--g~-----------~gl~a~~~g~l~~~qlEa~R~~i~r~lkk-~~-- 61 (133)
T PF00252_consen 1 PKRTKYRK-YQK-YPRINYGKSKPGNKLK-F--GD-----------YGLKALEPGRLTSNQLEAARIAINRYLKK-NG-- 61 (133)
T ss_dssp TSCCSTSS-SSS--SSTTTSTTSSCSSSS-S--SS-----------EEEEESS-EEEEHHHHHHHHHHHHHHHHH-TS--
T ss_pred CCCCccCC-CCC-CCCCCcccccCccEEE-e--ee-----------eeEEEeeeeeechhhhHHHHHHHHHHhhh-he--
Confidence 7899 988 445 9999999999988877 4 21 89999999999999999999999999987 44
Q ss_pred ceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCce
Q 030434 84 AFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQ 163 (177)
Q Consensus 84 ~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~ 163 (177)
++|||+|||+++|+|+ ++++||+|+|+|++|||+|++||||||+.+. .+++.|++||++|++|||+++
T Consensus 62 --~~~i~v~p~~~vTkk~---------~~~RMG~GKG~~~~~~a~V~~G~iifEi~~~-v~~~~a~~alk~a~~KLP~~~ 129 (133)
T PF00252_consen 62 --KLWIRVFPHHPVTKKP---------LETRMGKGKGKIDHWVARVKPGQIIFEIGGK-VNEEEAKEALKRAAKKLPIKT 129 (133)
T ss_dssp --TEEESSSCEEEEEE-S---------SSSSSSSSSCEEEEEEEEESTTEEEEEEESG-SCHHHHHHHHHHHHHTSSSCE
T ss_pred --eEEEEeeeeeeeeeeh---------hhhhhccCCCCccEEEEEECCCcEEEEECCc-CCHHHHHHHHHHHHhhCCCCE
Confidence 6999999999999999 4789999999999999999999999999762 388999999999999999999
Q ss_pred EEEE
Q 030434 164 KIIV 167 (177)
Q Consensus 164 kiv~ 167 (177)
+||.
T Consensus 130 ~~v~ 133 (133)
T PF00252_consen 130 KFVS 133 (133)
T ss_dssp EEE-
T ss_pred EEeC
Confidence 9983
No 7
>cd01433 Ribosomal_L16_L10e Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.
Probab=100.00 E-value=2.3e-37 Score=235.71 Aligned_cols=109 Identities=42% Similarity=0.498 Sum_probs=102.9
Q ss_pred CCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcc
Q 030434 44 DEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQ 123 (177)
Q Consensus 44 ~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~ 123 (177)
..++.+++|+++|++|||++||||||+++||+|++. +|++|||+|||+|+|+|| +++|||+|||+|+
T Consensus 4 ~~~~g~~gL~a~e~~~i~~~~lEa~R~~i~r~l~k~----~~~~~ir~~p~~~vt~k~---------~~~rMGkGKG~~~ 70 (112)
T cd01433 4 KLFFGEYGLVALEPGRITAEQLEAARIAINRYLKKK----GGKLWIRVFPDHPVTKKP---------LETRMGKGKGKPE 70 (112)
T ss_pred eeccceEEEEECcCCeECHHHHHHHHHHHHHHhhhc----CceEEEEecCCccEEECc---------cccccCCCCCCcc
Confidence 468899999999999999999999999999999874 579999999999999998 6899999999999
Q ss_pred eEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEE
Q 030434 124 GTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKII 166 (177)
Q Consensus 124 g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv 166 (177)
+|||+|++||+|||+.++++ ++.|++||++|++|||++|+|+
T Consensus 71 ~~~a~v~~G~iifEi~~~~~-~~~~~~alk~a~~Klp~~~k~i 112 (112)
T cd01433 71 GWVARVKPGQILFEVRGVPE-EEVAKEALRRAAKKLPIKTKIV 112 (112)
T ss_pred EEEEEECCCCEEEEEeCcCc-HHHHHHHHHHhhccCCCcEEEC
Confidence 99999999999999999864 8999999999999999999985
No 8
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=100.00 E-value=1.7e-35 Score=234.34 Aligned_cols=104 Identities=26% Similarity=0.336 Sum_probs=97.7
Q ss_pred EEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEE
Q 030434 49 CVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCAR 128 (177)
Q Consensus 49 ~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vAr 128 (177)
...|+++|++|||++||||||+++||+|++ .| ++|||+|||||||+++ ++++||+|||+|++|||+
T Consensus 31 ~~gL~a~e~g~i~~~qlEaaR~~i~r~Lkk-~g----~~~irv~P~~~vt~k~---------~~~RMGkGKG~~~~~var 96 (138)
T PRK09203 31 EFGLKALEPGWITARQIEAARIAMTRHIKR-GG----KVWIRIFPDKPVTKKP---------AEVRMGKGKGSPEYWVAV 96 (138)
T ss_pred cEEEEECcCCeEcHHHHHHHHHHHHHHhhc-Cc----eEEEEeCCCccEEcCh---------hhccccCCCCCCcEEEEE
Confidence 468999999999999999999999999965 56 8999999999999998 578999999999999999
Q ss_pred eeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEEEe
Q 030434 129 VAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVS 168 (177)
Q Consensus 129 V~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv~~ 168 (177)
|++||+|||+++ .++++|++||++|++|||++|+|+..
T Consensus 97 Vk~G~iifEi~~--~~~~~a~~al~~a~~KLP~~~kii~~ 134 (138)
T PRK09203 97 VKPGRILFEIAG--VSEELAREALRLAAAKLPIKTKFVKR 134 (138)
T ss_pred ECCCCEEEEEeC--CCHHHHHHHHHHHhccCCCcEEEEEe
Confidence 999999999998 58899999999999999999999975
No 9
>CHL00044 rpl16 ribosomal protein L16
Probab=100.00 E-value=4.2e-35 Score=231.61 Aligned_cols=105 Identities=24% Similarity=0.324 Sum_probs=95.3
Q ss_pred eEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEE
Q 030434 48 FCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCA 127 (177)
Q Consensus 48 ~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vA 127 (177)
-+..|+++|++|||++||||||+++||+|++ +|++|||+|||+|||+|| + +++||+|||+|++|||
T Consensus 30 G~~GL~a~e~~~i~~~qiEaaR~~i~r~lkk-----~~~i~irv~P~~pvtkkp-----~----e~RMGkGKG~~~~~va 95 (135)
T CHL00044 30 GRYALQALEPAWITSRQIEAGRRAITRYARR-----GGKIWIRIFPDKPVTMRP-----A----ETRMGSGKGSPEYWVA 95 (135)
T ss_pred ccEEEEEccCcEECHHHHHHHHHHHHHhhhc-----CcEEEEEECCCcceEeCc-----c----cccccCCCCCccEEEE
Confidence 3568999999999999999999999999975 669999999999999998 3 4555556999999999
Q ss_pred EeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEEEe
Q 030434 128 RVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVS 168 (177)
Q Consensus 128 rV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv~~ 168 (177)
+|++||||||+.++ ++++|++||++|++|||++|+|+..
T Consensus 96 ~V~~G~ilfEi~g~--~~~~ak~al~~a~~KLP~k~~~v~~ 134 (135)
T CHL00044 96 VVKPGRILYEMGGV--SETIARAAIKIAAYKMPIKTQFIIS 134 (135)
T ss_pred EECCCcEEEEEeCC--CHHHHHHHHHHHhhcCCCcEEEEec
Confidence 99999999999987 4589999999999999999999875
No 10
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=100.00 E-value=9.9e-35 Score=226.94 Aligned_cols=97 Identities=28% Similarity=0.332 Sum_probs=91.4
Q ss_pred EEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEE
Q 030434 49 CVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCAR 128 (177)
Q Consensus 49 ~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vAr 128 (177)
+..|+++|.+|||++||||||+++||+|.+ +|++|||+|||+|||+|+ ++++||+|||+|++|||+
T Consensus 30 ~~gL~a~e~~~i~~~qlEaaR~~i~r~l~~-----~~~~~irv~P~~~vt~k~---------~~~RMGkGKG~~~~~var 95 (126)
T TIGR01164 30 EYGLQALEPGWITARQIEAARVAMTRYVKR-----GGKLWIRIFPDKPYTKKP---------LETRMGKGKGNPEYWVAV 95 (126)
T ss_pred cEeeEECcCCeEcHHHHHHHHHHHHHHHhh-----CceEEEEECCCcCEEeCc---------hhccccCCCCCCCEEEEE
Confidence 568999999999999999999999999974 679999999999999998 467999999999999999
Q ss_pred eeCCcEEEEEeeeCCChHHHHHHHHHhcccCCC
Q 030434 129 VAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPG 161 (177)
Q Consensus 129 V~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~ 161 (177)
|++||||||+++ .++++|++||++|++|||+
T Consensus 96 V~~G~ilfEi~~--~~~~~a~~al~~a~~KLP~ 126 (126)
T TIGR01164 96 VKPGKILFEIAG--VPEEVAREAFRLAASKLPI 126 (126)
T ss_pred ECCCCEEEEEeC--CCHHHHHHHHHHHHhcCCC
Confidence 999999999998 5889999999999999996
No 11
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=3.3e-22 Score=168.18 Aligned_cols=107 Identities=21% Similarity=0.243 Sum_probs=97.3
Q ss_pred EEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEe
Q 030434 50 VHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARV 129 (177)
Q Consensus 50 ~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV 129 (177)
..|++.+.+.|+|.++|++|..+++++.- +.+|++|.|++|+.|+|.+. -+++||+|||+|++|||+|
T Consensus 71 Ygl~a~~~g~l~~~~~e~~r~~~~r~~~~---~~~~~iWrr~~p~~Pvt~K~---------~etRMG~GKGa~d~wva~V 138 (221)
T KOG3422|consen 71 YGLRAKSGGILDSAQFEAMRLTRARKMNP---RNNGKIWRRPAPNLPVTVKG---------NETRMGGGKGAIDHWVARV 138 (221)
T ss_pred hhheeccCceeeHHHHHHHHHHHHHhcCc---ccCccEEEEecCCCceeecC---------cceeccCCCCCcceeEEEe
Confidence 46999999999999999999878877742 35789999999999999986 3799999999999999999
Q ss_pred eCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEEEeC
Q 030434 130 AIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSR 169 (177)
Q Consensus 130 ~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv~~~ 169 (177)
++|+|||||.|. ..++.|++||..|++|||++++||++.
T Consensus 139 ~~GrIl~EmgG~-~~~~~Ar~al~~aa~klp~~~efVs~~ 177 (221)
T KOG3422|consen 139 KAGRILFEMGGD-VEEEEARQALLQAAHKLPFKYEFVSEE 177 (221)
T ss_pred cCCcEEEEeCCc-ccHHHHHHHHHHHHhcCCccEEEeeHh
Confidence 999999999996 688999999999999999999999763
No 12
>PF07831 PYNP_C: Pyrimidine nucleoside phosphorylase C-terminal domain; InterPro: IPR013102 This domain is found at the C-terminal end of the large alpha/beta domain making up various pyrimidine nucleoside phosphorylases [, ]. It has slightly different conformations in different members of this family. For example, in pyrimidine nucleoside phosphorylase (PYNP, P77826 from SWISSPROT) there is an added three-stranded anti-parallel beta sheet as compared to other members of the family, such as Escherichia coli thymidine phosphorylase (TP, P07650 from SWISSPROT) []. The domain contains an alpha/ beta hammerhead fold and residues in this domain seem to be important in formation of the homodimer []. ; GO: 0016763 transferase activity, transferring pentosyl groups, 0006213 pyrimidine nucleoside metabolic process; PDB: 1AZY_A 1OTP_A 2TPT_A 3H5Q_A 1BRW_A 2WK5_C 2J0F_C 2WK6_B 1UOU_A 2DSJ_B ....
Probab=82.42 E-value=2.8 Score=29.94 Aligned_cols=28 Identities=36% Similarity=0.395 Sum_probs=21.7
Q ss_pred EeeCCcEEEEEeeeCCC-hHHHHHHHHHh
Q 030434 128 RVAIGQVLLSVRCKDSN-SLHAQEALRRA 155 (177)
Q Consensus 128 rV~~Gqiifev~~~~~~-~~~a~eAL~rA 155 (177)
+|+.||+|++|..+.+. .+.|.+.|+.|
T Consensus 43 ~V~~Gd~l~~i~~~~~~~~~~a~~~~~~a 71 (75)
T PF07831_consen 43 RVEKGDPLATIYANDEARLEEAVERLRAA 71 (75)
T ss_dssp EEBTTSEEEEEEESSSSHHHHHHHHHHHH
T ss_pred EECCCCeEEEEEcCChHHHHHHHHHHHhC
Confidence 78999999999998776 56666665544
No 13
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=65.46 E-value=7.3 Score=25.35 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=15.6
Q ss_pred EeeCCcEEEEEeeeCCChHHHHHH
Q 030434 128 RVAIGQVLLSVRCKDSNSLHAQEA 151 (177)
Q Consensus 128 rV~~Gqiifev~~~~~~~~~a~eA 151 (177)
.|+.||+|++++.. +.+...+.
T Consensus 23 ~VkkGd~L~~ld~~--~~~~~~~~ 44 (50)
T PF13533_consen 23 QVKKGDVLLVLDSP--DLQAQLQQ 44 (50)
T ss_pred EEcCCCEEEEECcH--HHHHHHHH
Confidence 79999999999853 33444433
No 14
>PRK10380 hypothetical protein; Provisional
Probab=54.25 E-value=12 Score=26.43 Aligned_cols=38 Identities=24% Similarity=0.537 Sum_probs=29.3
Q ss_pred CCCCCCCCCCc----CCCCCCceeEEecCCCCCCCCCCCeEEEEEecc
Q 030434 13 KNKPYPKSRFC----RGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWE 56 (177)
Q Consensus 13 ~~~py~r~~y~----~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e 56 (177)
.+|||||.-+| +|.|+-.|+-|.+- | |+|--=+|+|+-
T Consensus 3 ~rPpYPReA~iV~vekG~~g~~vtwyelR---a---Dhp~P~sliSEH 44 (63)
T PRK10380 3 TKPPYPREAYIVTIEKGKPGQTVTWYQLR---A---DHPKPDSLISEH 44 (63)
T ss_pred CCCCCCcceEEEEeecCCCCceEEEEEee---c---CCCCCCcccccC
Confidence 46899998887 89999999999885 4 566555666654
No 15
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=47.30 E-value=33 Score=22.86 Aligned_cols=29 Identities=21% Similarity=0.290 Sum_probs=22.4
Q ss_pred EEeeCCcEEEEEeeeCC---ChHHHHHHHHHh
Q 030434 127 ARVAIGQVLLSVRCKDS---NSLHAQEALRRA 155 (177)
Q Consensus 127 ArV~~Gqiifev~~~~~---~~~~a~eAL~rA 155 (177)
+.+++|++|.+|.+.+. +.+.+.++|+.+
T Consensus 42 ~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~ 73 (82)
T cd00992 42 GGLRVGDRILEVNGVSVEGLTHEEAVELLKNS 73 (82)
T ss_pred CCCCCCCEEEEECCEEcCccCHHHHHHHHHhC
Confidence 57899999999998864 566667777653
No 16
>PF04019 DUF359: Protein of unknown function (DUF359); InterPro: IPR007164 This is family of archaebacterial proteins, which are about 170 amino acids in length. They have no known function. The most conserved portion of the protein contains the sequence GEEDL that may be important for its function.
Probab=40.80 E-value=86 Score=24.49 Aligned_cols=46 Identities=26% Similarity=0.222 Sum_probs=33.8
Q ss_pred CCceeEEecCCCCCCCCCCC---eEEEEEeccccccChhHHHHHHHHHH
Q 030434 28 DPKIRIYDVGMKKKGVDEFP---FCVHLVSWEKENVSSEALEAARIACN 73 (177)
Q Consensus 28 ~~kI~~fd~G~~~a~~~~fp---~~~~Lvs~e~~qIss~aLEAaRi~~n 73 (177)
-|.|.++|.=-+.....+-. ..+.-+.+.++.||.+++||-+.++.
T Consensus 11 ~P~laIvD~kTkR~~~~~~~~~~~~~i~v~NPpG~It~el~~ai~~a~~ 59 (121)
T PF04019_consen 11 IPDLAIVDGKTKREPVVEEVRKFYRVIEVKNPPGTITEELIEAIKKALE 59 (121)
T ss_pred CCCEEEEeCcccccCCcccccCCceEEEEECCCCcccHHHHHHHHHHHh
Confidence 36788888765554443322 46777899999999999999998853
No 17
>PRK10597 DNA damage-inducible protein I; Provisional
Probab=39.83 E-value=1.4e+02 Score=21.92 Aligned_cols=47 Identities=11% Similarity=0.156 Sum_probs=34.1
Q ss_pred EEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCce--eeecccccccccchhh
Q 030434 50 VHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHV--LRINKMLSCAGADRLQ 112 (177)
Q Consensus 50 ~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~v--ir~nkm~s~AgAdRl~ 112 (177)
|.|.-.....+...+++|-+.=++|.+.+ .||+-. ++.+++ +++-|+
T Consensus 3 VEi~~dK~~~lp~ga~~AL~~EL~kRl~~------------~fPd~~~~v~Vr~~----s~n~ls 51 (81)
T PRK10597 3 IEVTIAKTSPLPAGAIDALAGELSRRIQY------------AFPDNEGHVSVRYA----AANNLS 51 (81)
T ss_pred EEEEEecCCCCChhHHHHHHHHHHHHHHh------------hCCCCCccEEEeec----CCCceE
Confidence 34444455588889999999888888854 589887 888874 445555
No 18
>PF04895 DUF651: Archaeal protein of unknown function (DUF651); InterPro: IPR006979 This conserved region is found in the C-terminal region of a number of conserved archaeal proteins of unknown function.
Probab=31.94 E-value=57 Score=25.30 Aligned_cols=74 Identities=20% Similarity=0.210 Sum_probs=48.2
Q ss_pred hhHHHHHHHHHHHHhHHhhCCcceeEEEE-ecCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEee
Q 030434 62 SEALEAARIACNKYMAKFAGKDAFHLRVR-VHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRC 140 (177)
Q Consensus 62 s~aLEAaRi~~nkyl~k~~Gk~~f~l~Ir-v~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~ 140 (177)
.-+--|||.++.-||.+ .+++.--|-+| |+|+--+ |. |.=-+.+++|.++.++
T Consensus 13 ~G~YYAaRLaVlE~L~~-~~RQA~viv~REI~p~Y~~---Pl----GvW~VRE~vR~A~~~~------------------ 66 (110)
T PF04895_consen 13 GGAYYAARLAVLEYLRR-RRRQAGVIVLREITPEYYA---PL----GVWQVRENVRKAMKGK------------------ 66 (110)
T ss_pred chHHHHHHHHHHHHHHH-cCccceEEEEEEecCCcee---ee----eeehHHHHHHHHHhCC------------------
Confidence 45678999999999975 77765555555 7887622 11 2323456666666544
Q ss_pred eCCChHHHHHHHHHhcccCCCc
Q 030434 141 KDSNSLHAQEALRRAKFKFPGR 162 (177)
Q Consensus 141 ~~~~~~~a~eAL~rA~~KlP~~ 162 (177)
+...+...|||..++.+|..+
T Consensus 67 -p~~f~~l~eAl~~~~~~l~~~ 87 (110)
T PF04895_consen 67 -PEKFETLEEALEYVSSRLKLP 87 (110)
T ss_pred -CcccCCHHHHHHHHHHHhCCC
Confidence 223355678888888887765
No 19
>PF02391 MoaE: MoaE protein; InterPro: IPR003448 This family contains the MoaE protein that is involved in biosynthesis of molybdopterin []. Molybdopterin, the universal component of the pterin molybdenum cofactors, contains a dithiolene group serving to bind Mo. Addition of the dithiolene sulphurs to a molybdopterin precursor requires the activity of the converting factor. Converting factor contains the MoaE and MoaD proteins.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 2WP4_B 2OMD_B 1NVJ_E 1FM0_E 3BII_E 1NVI_E 1FMA_E 2QIE_K 2Q5W_E 3RPF_A ....
Probab=31.46 E-value=1.3e+02 Score=22.88 Aligned_cols=29 Identities=21% Similarity=0.267 Sum_probs=25.7
Q ss_pred EEeeCCcEEEEEeeeCCChHHHHHHHHHh
Q 030434 127 ARVAIGQVLLSVRCKDSNSLHAQEALRRA 155 (177)
Q Consensus 127 ArV~~Gqiifev~~~~~~~~~a~eAL~rA 155 (177)
-++++|+.++-|-+-..|...|.+|++.+
T Consensus 81 G~l~vGe~~v~V~vsa~hR~eaf~A~~~~ 109 (117)
T PF02391_consen 81 GRLKVGEPIVLVAVSAPHRKEAFEACEYI 109 (117)
T ss_dssp EEEETTSEEEEEEEEESSHHHHHHHHHHH
T ss_pred CCCCCCCeEEEEEEecCCHHHHHHHHHHH
Confidence 38999999999999999999999998754
No 20
>PF10726 DUF2518: Protein of function (DUF2518); InterPro: IPR019664 This entry contains the Ycf51 protein family, which is conserved in Cyanobacteria. The function is not known.
Probab=31.14 E-value=1.5e+02 Score=24.30 Aligned_cols=48 Identities=25% Similarity=0.371 Sum_probs=31.5
Q ss_pred eEEecCCCCCCCCCCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCc----ceeEEEEe
Q 030434 32 RIYDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKD----AFHLRVRV 91 (177)
Q Consensus 32 ~~fd~G~~~a~~~~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~----~f~l~Irv 91 (177)
..||-|..- .|..-+-.|+.+||||.-.-+...|. +.|+. .+++++|.
T Consensus 74 ~VyDnG~~~-----------vVi~v~~~i~~~~leaTL~QaA~nL~-s~GR~~~~~~~~IR~R~ 125 (145)
T PF10726_consen 74 IVYDNGADQ-----------VVIAVPPDITPEALEATLEQAASNLF-SGGRSGRDNQVTIRART 125 (145)
T ss_pred EEEECCCcE-----------EEEEcCCCCCHHHHHHHHHHHHHhcc-ccCccCCCCeEEEEEEE
Confidence 469988532 34444558999999999777777774 46642 35555554
No 21
>KOG3016 consensus Acyl-CoA thioesterase [Lipid transport and metabolism]
Probab=30.90 E-value=1.2e+02 Score=27.53 Aligned_cols=73 Identities=15% Similarity=0.158 Sum_probs=47.4
Q ss_pred EEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEE------ecCCceeeecccccccccchhhcccCCCCCCcc
Q 030434 50 VHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVR------VHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQ 123 (177)
Q Consensus 50 ~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Ir------v~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~ 123 (177)
+.....=.|||=+++|+|| .++.+.+.+=--+. .=|..+|..+ -+|+.+| .-=-.
T Consensus 35 ~~~~~~fGG~i~sQaLaAA--------~~TV~e~f~p~SlH~YFI~~gd~~~pI~Y~-------V~rirdG----r~F~~ 95 (294)
T KOG3016|consen 35 IPSNHAYGGQIASQALAAA--------SKTVEEMFIPHSLHCYFILVGDPNIPIIYD-------VKRIRDG----RNFAT 95 (294)
T ss_pred ccCcccccceehHHHHHHH--------HhccccccccceeeeeeeecCCCCCceEEE-------eeeecCC----ceeEE
Confidence 3344556789999999999 23344322111111 2366777666 3677776 55567
Q ss_pred eEEEEeeCCcEEEEEeee
Q 030434 124 GTCARVAIGQVLLSVRCK 141 (177)
Q Consensus 124 g~vArV~~Gqiifev~~~ 141 (177)
-.|--|+.|.+||+.-..
T Consensus 96 R~V~AvQ~~k~If~~qiS 113 (294)
T KOG3016|consen 96 RSVDAVQKGKTIFTLQIS 113 (294)
T ss_pred EEEEEEECCeEEEEEEEE
Confidence 888999999999987654
No 22
>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=30.79 E-value=52 Score=29.93 Aligned_cols=48 Identities=29% Similarity=0.546 Sum_probs=38.8
Q ss_pred CCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeeccc
Q 030434 45 EFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKM 102 (177)
Q Consensus 45 ~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm 102 (177)
.-.+|.||+.-=++.=+.+-||.|++.++-=+ -| |.+||-|++.-.+|
T Consensus 181 gIkvc~HiI~GLPgE~~~~mleTak~v~~~~v---~G-------IKlH~LhvvkgT~m 228 (312)
T COG1242 181 GIKVCTHLINGLPGETRDEMLETAKIVAELGV---DG-------IKLHPLHVVKGTPM 228 (312)
T ss_pred CCeEEEEEeeCCCCCCHHHHHHHHHHHHhcCC---ce-------EEEEEEEEecCChH
Confidence 45699999999999999999999997665322 23 78899999987776
No 23
>PRK10718 RpoE-regulated lipoprotein; Provisional
Probab=28.05 E-value=63 Score=27.53 Aligned_cols=32 Identities=25% Similarity=0.306 Sum_probs=29.5
Q ss_pred hhhcccCCCCCCcceEEEEeeCCcEEEEEeee
Q 030434 110 RLQTGMRGAFGKPQGTCARVAIGQVLLSVRCK 141 (177)
Q Consensus 110 Rl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~ 141 (177)
||.+||+-.-|+.+.+..-++-+||.++|.+.
T Consensus 69 ~lrsGm~t~~G~iv~~~qa~~~d~v~lvi~G~ 100 (191)
T PRK10718 69 RLRSGMKTANGNVVRFFQAMKGDQVAMVINGQ 100 (191)
T ss_pred eEeccccCCCCCEEEeeeeecCCceEEEEECC
Confidence 56799999999999999999999999999985
No 24
>PF02749 QRPTase_N: Quinolinate phosphoribosyl transferase, N-terminal domain; InterPro: IPR022412 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0016763 transferase activity, transferring pentosyl groups; PDB: 3L0G_B 1QAP_A 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 2I14_C 1X1O_B 2B7Q_B ....
Probab=27.83 E-value=54 Score=23.51 Aligned_cols=57 Identities=25% Similarity=0.337 Sum_probs=37.1
Q ss_pred CCCeEEEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcce
Q 030434 45 EFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQG 124 (177)
Q Consensus 45 ~fp~~~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g 124 (177)
+-+....+++.|.+-+.- +|-+....+.. | +.+..+ ..+|
T Consensus 15 ~~~~~a~i~are~gV~aG--~~~~~~i~~~l-----~-----~~v~~~------------------~~dG---------- 54 (88)
T PF02749_consen 15 DKTGTATIIAREDGVLAG--LEEAEEIFEKL-----G-----LEVEWL------------------VKDG---------- 54 (88)
T ss_dssp TSEEEEEEEESSSEEE-S--HHHHHHHHHHC-----T-----EEEEES------------------S-TT----------
T ss_pred CCEEEEEEEeCCCEEEEC--HHHHHHHHhhc-----c-----EEEEEE------------------eCCC----------
Confidence 456788999999988863 55555544433 3 334322 3467
Q ss_pred EEEEeeCCcEEEEEeeeCC
Q 030434 125 TCARVAIGQVLLSVRCKDS 143 (177)
Q Consensus 125 ~vArV~~Gqiifev~~~~~ 143 (177)
.+|++|++|+++.|...
T Consensus 55 --~~v~~g~~i~~i~G~a~ 71 (88)
T PF02749_consen 55 --DRVEPGDVILEIEGPAR 71 (88)
T ss_dssp ---EEETTCEEEEEEEEHH
T ss_pred --CCccCCcEEEEEEeCHH
Confidence 48999999999999643
No 25
>PF06572 DUF1131: Protein of unknown function (DUF1131); InterPro: IPR010938 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2QZB_B.
Probab=27.82 E-value=39 Score=28.23 Aligned_cols=32 Identities=28% Similarity=0.294 Sum_probs=28.9
Q ss_pred hhhcccCCCCCCcceEEEEeeCCcEEEEEeee
Q 030434 110 RLQTGMRGAFGKPQGTCARVAIGQVLLSVRCK 141 (177)
Q Consensus 110 Rl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~ 141 (177)
||.+||.-+-|++..+..-.+-+|+.++|.+.
T Consensus 48 ~lrsGm~t~nG~~v~~~qA~~~d~v~lvI~G~ 79 (171)
T PF06572_consen 48 RLRSGMQTANGNIVSFFQAMKDDQVKLVISGD 79 (171)
T ss_dssp EEEEEEEEETTEEEEEEEEEETTEEEEEEEE-
T ss_pred EEecceecCCCCeEEeeeeecCCeEEEEEecC
Confidence 67799999999999999999999999999986
No 26
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=26.17 E-value=55 Score=29.59 Aligned_cols=23 Identities=26% Similarity=0.280 Sum_probs=20.3
Q ss_pred ccccccChhHHHHHHHHHHHHhH
Q 030434 55 WEKENVSSEALEAARIACNKYMA 77 (177)
Q Consensus 55 ~e~~qIss~aLEAaRi~~nkyl~ 77 (177)
.+.+.||+.||||.--|..+.-.
T Consensus 33 ~~~g~LS~~QLEaV~yA~q~h~~ 55 (303)
T PF13872_consen 33 IDSGLLSALQLEAVIYACQRHEQ 55 (303)
T ss_pred HhcccccHHHHHHHHHHHHHHHh
Confidence 57899999999999999888764
No 27
>PRK14445 acylphosphatase; Provisional
Probab=25.51 E-value=1.8e+02 Score=21.05 Aligned_cols=41 Identities=12% Similarity=0.067 Sum_probs=29.3
Q ss_pred cceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEE
Q 030434 122 PQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKII 166 (177)
Q Consensus 122 p~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv 166 (177)
..|||--...|+|-.++.+.++..+.-+++| .+-|...+|.
T Consensus 32 l~G~V~N~~dG~Vei~~qG~~~~l~~f~~~l----~~gP~~a~V~ 72 (91)
T PRK14445 32 LSGWVRNLPDGTVEIEAQGSSGMIDELIKQA----ERGPSRSSVT 72 (91)
T ss_pred CEEEEEECCCCeEEEEEEECHHHHHHHHHHH----HhCCCCcEEE
Confidence 4799999999999999998655444444444 4667665553
No 28
>COG3129 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=25.50 E-value=1.3e+02 Score=27.02 Aligned_cols=50 Identities=24% Similarity=0.413 Sum_probs=34.9
Q ss_pred CCCCCCceeEEecCCCCCCCCCCCeEEEEEecccc------ccChhHHHHHHHHH--HHHhHH
Q 030434 24 RGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKE------NVSSEALEAARIAC--NKYMAK 78 (177)
Q Consensus 24 ~gvP~~kI~~fd~G~~~a~~~~fp~~~~Lvs~e~~------qIss~aLEAaRi~~--nkyl~k 78 (177)
.++|.+.|++-|.|- .|+ .-||+-+ ..|++ -|++.+||+|.-.+ |-.|..
T Consensus 73 g~~~~~~i~~LDIGv-GAn-CIYPliG---~~eYgwrfvGseid~~sl~sA~~ii~~N~~l~~ 130 (292)
T COG3129 73 GQIPGKNIRILDIGV-GAN-CIYPLIG---VHEYGWRFVGSEIDSQSLSSAKAIISANPGLER 130 (292)
T ss_pred CCCCcCceEEEeecc-Ccc-ccccccc---ceeecceeecCccCHHHHHHHHHHHHcCcchhh
Confidence 478889999999995 454 4588754 33444 38999999987544 444544
No 29
>cd00756 MoaE MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), which carries the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase in the second major step in Moco biosynthesis. MPT synthase is a heterotetramer consisting of two large (MoaE) and two small (MoaD) subunits.
Probab=23.99 E-value=1.5e+02 Score=22.99 Aligned_cols=39 Identities=23% Similarity=0.305 Sum_probs=31.1
Q ss_pred EeeCCcEEEEEeeeCCChHHHHHHHHHh----cccCCC-ceEEE
Q 030434 128 RVAIGQVLLSVRCKDSNSLHAQEALRRA----KFKFPG-RQKII 166 (177)
Q Consensus 128 rV~~Gqiifev~~~~~~~~~a~eAL~rA----~~KlP~-~~kiv 166 (177)
++++|+.++-|-+-..|.+.|.+|++.. +...|+ +..+.
T Consensus 74 ~l~vGe~~v~i~v~a~hR~~af~A~~~~id~lK~~~PiWKkE~~ 117 (124)
T cd00756 74 RLPPGEAIVLVAVSSPHRKEAFEACEFLIDRLKHRAPIWKKEIF 117 (124)
T ss_pred ccCCCCEEEEEEEecCCHHHHHHHHHHHHHHHHhhCCEEEEEEe
Confidence 7899999999999999999998887755 777777 44443
No 30
>KOG4630 consensus NADH:ubiquinone oxidoreductase, NDUFA7/B14.5A subunit [Energy production and conversion]
Probab=23.66 E-value=29 Score=28.07 Aligned_cols=21 Identities=29% Similarity=0.558 Sum_probs=17.7
Q ss_pred HhcccCCCceEEEEeCcccCccc
Q 030434 154 RAKFKFPGRQKIIVSRKWYGFHQ 176 (177)
Q Consensus 154 rA~~KlP~~~kiv~~~~~~g~~~ 176 (177)
+|+.|||.+-+-+ ..|++||+
T Consensus 120 ~~skk~~Tp~k~v--~rwd~~t~ 140 (142)
T KOG4630|consen 120 LASKKLPTPGKYV--QRWDKFTK 140 (142)
T ss_pred hhhhcCCCCcchh--hhhhcccc
Confidence 6789999999865 78999986
No 31
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=23.21 E-value=94 Score=26.19 Aligned_cols=59 Identities=25% Similarity=0.295 Sum_probs=37.5
Q ss_pred EecCCceee-ecccccccccc----hhhcccCCCCCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhccc
Q 030434 90 RVHPFHVLR-INKMLSCAGAD----RLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFK 158 (177)
Q Consensus 90 rv~P~~vir-~nkm~s~AgAd----Rl~~GMr~a~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~K 158 (177)
.-+|-..|+ ..-.+|+-+=| -+=++-=.|+| ++|+||+=+++.. |-+.+.+|++.|+.|
T Consensus 72 ~~lpaIaLt~dsS~lTai~NDy~yd~vFsRqveA~g---------~~GDvLigISTSG-NS~nVl~Ai~~Ak~~ 135 (176)
T COG0279 72 PSLPAIALSTDSSVLTAIANDYGYDEVFSRQVEALG---------QPGDVLIGISTSG-NSKNVLKAIEAAKEK 135 (176)
T ss_pred CCCCeeEeecccHHHhhhhccccHHHHHHHHHHhcC---------CCCCEEEEEeCCC-CCHHHHHHHHHHHHc
Confidence 447777776 33334444444 22222222233 6799999999855 778999999999875
No 32
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=21.63 E-value=1e+02 Score=23.48 Aligned_cols=39 Identities=21% Similarity=0.236 Sum_probs=24.5
Q ss_pred CCCcceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhccc
Q 030434 119 FGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFK 158 (177)
Q Consensus 119 ~Gkp~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~K 158 (177)
|+...--...+++|++|+-+++...+ ....+|++.|+.+
T Consensus 91 ~~~~~~~~~~~~~gDvli~iS~SG~s-~~vi~a~~~Ak~~ 129 (138)
T PF13580_consen 91 FARQLLALYDIRPGDVLIVISNSGNS-PNVIEAAEEAKER 129 (138)
T ss_dssp HHHHHHHHTT--TT-EEEEEESSS-S-HHHHHHHHHHHHT
T ss_pred HHHHHHHHcCCCCCCEEEEECCCCCC-HHHHHHHHHHHHC
Confidence 44443333348999999999986544 7888999988764
No 33
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.43 E-value=1.7e+02 Score=19.01 Aligned_cols=28 Identities=29% Similarity=0.387 Sum_probs=18.0
Q ss_pred CcEEEEEeeeCCChHHHHHHHHHhcccC
Q 030434 132 GQVLLSVRCKDSNSLHAQEALRRAKFKF 159 (177)
Q Consensus 132 Gqiifev~~~~~~~~~a~eAL~rA~~Kl 159 (177)
|..+++++....+.+.++++|+.+.+++
T Consensus 41 ~~~~v~i~v~~~~~~~~~~~L~~~G~~v 68 (72)
T cd04883 41 DNKILVFRVQTMNPRPIIEDLRRAGYEV 68 (72)
T ss_pred CeEEEEEEEecCCHHHHHHHHHHCCCee
Confidence 3433444433345679999999988765
No 34
>PRK14433 acylphosphatase; Provisional
Probab=21.27 E-value=2.8e+02 Score=20.05 Aligned_cols=41 Identities=17% Similarity=0.128 Sum_probs=29.4
Q ss_pred cceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEE
Q 030434 122 PQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKII 166 (177)
Q Consensus 122 p~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv 166 (177)
..|||--...|+|-.++.+.++ +.++|..+-.+-|...+|.
T Consensus 29 l~G~V~N~~dG~Vei~~~G~~~----~i~~f~~~l~~gP~~a~V~ 69 (87)
T PRK14433 29 LSGYAENLSDGRVEVVAEGPKE----ALERLLHWLRRGPRHARVE 69 (87)
T ss_pred CEEEEEECCCCCEEEEEEECHH----HHHHHHHHHhhCCCCcEEE
Confidence 4699999999999999998643 4555555555667665544
No 35
>KOG3701 consensus TGFbeta receptor signaling protein SMAD and related proteins [Signal transduction mechanisms; Transcription]
Probab=21.20 E-value=2.8e+02 Score=26.24 Aligned_cols=94 Identities=16% Similarity=0.136 Sum_probs=56.9
Q ss_pred ChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEeeCCcEEEEEee
Q 030434 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRC 140 (177)
Q Consensus 61 ss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV~~Gqiifev~~ 140 (177)
+++++|-+|..|-+=+. .+..+..+||..-=+++|= ..+...| ... |.+-..|.+|-||--|=.++.
T Consensus 273 Rn~~~e~~R~~IG~GV~--L~~~~gdVw~~n~sd~pIF----VqS~~ln-~~~------g~~~~~v~ki~Pg~~iKvFd~ 339 (411)
T KOG3701|consen 273 RNEKVEKTRAHIGKGVQ--LSYENGDVWLYNLSDYPIF----VQSPNLN-YPN------GRTLDTVHKVPPGYSIKVFDF 339 (411)
T ss_pred ccchhHHHHhhccCcee--eeEecCcEEEEecCCCcee----eeCCCCc-CCC------CCcccceEeeCCCceeEeech
Confidence 56788999998888221 2222337999998888772 2233344 222 233378889999994443332
Q ss_pred eCCChHHHHHHHHHh------cccCCCceEEEEe--CcccC
Q 030434 141 KDSNSLHAQEALRRA------KFKFPGRQKIIVS--RKWYG 173 (177)
Q Consensus 141 ~~~~~~~a~eAL~rA------~~KlP~~~kiv~~--~~~~g 173 (177)
+.+.++...+ .+-|..-|.|.++ |+| |
T Consensus 340 -----~~~~~l~~s~~~g~~~~~~l~~~ctIriSFvKGW-G 374 (411)
T KOG3701|consen 340 -----EFAQQLPTSADPGFESVDQLRKMCTIRISFVKGW-G 374 (411)
T ss_pred -----HHHhhhhhcccCCCccccccccceeEEEEEeccc-c
Confidence 4444433333 3446666777777 999 7
No 36
>TIGR03073 release_rtcB release factor H-coupled RctB family protein. Members of this family are related to RctB. RctB a protein of known structure but unknown function that often is encoded near RNA cyclase and therefore is suggested to be a tRNA or mRNA processing enzyme. This family of RctB-like proteins in encoded upstream of, and apparently is translationally coupled to, the putative peptide chain release factor RF-H (TIGR03072), product of the prfH gene. Note that a large deletion at the junction between this gene and the prfH gene in Escherichia coli K-12 marks both as probable pseudogenes.
Probab=21.19 E-value=1.9e+02 Score=26.46 Aligned_cols=56 Identities=23% Similarity=0.409 Sum_probs=38.3
Q ss_pred EEEEeccccccChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeecccccccccchhhcccCCCCCCcceEEEEe
Q 030434 50 VHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARV 129 (177)
Q Consensus 50 ~~Lvs~e~~qIss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm~s~AgAdRl~~GMr~a~Gkp~g~vArV 129 (177)
+++.+.+..||-++++|-...+++ + -| -.++.+.|| +-.| +|-|+|.|. .
T Consensus 1 ~~~~~~~~~~ie~~a~~Ql~~~a~--l---p~----v~~v~~MPD----------------~H~G----~G~pIG~v~-~ 50 (356)
T TIGR03073 1 VSLIASDNTWIEGKAIQQLQTTAQ--L---PG----MRRVVGMPD----------------LHPG----RGYPIGAAF-F 50 (356)
T ss_pred CEEEcCCCCcccHHHHHHHHHHhc--C---CC----ccEEEECCC----------------cCCC----CCcceEEEE-e
Confidence 357788889999988887666653 2 11 346888888 3356 789999997 3
Q ss_pred eCCcEE
Q 030434 130 AIGQVL 135 (177)
Q Consensus 130 ~~Gqii 135 (177)
..|.|+
T Consensus 51 ~~~~I~ 56 (356)
T TIGR03073 51 SVGRFY 56 (356)
T ss_pred cCCEEe
Confidence 445543
No 37
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.14 E-value=1e+02 Score=21.68 Aligned_cols=29 Identities=14% Similarity=0.267 Sum_probs=21.9
Q ss_pred CCcEEEEEeeeC--CChHHHHHHHHHhcccC
Q 030434 131 IGQVLLSVRCKD--SNSLHAQEALRRAKFKF 159 (177)
Q Consensus 131 ~Gqiifev~~~~--~~~~~a~eAL~rA~~Kl 159 (177)
.+++++.+.+.+ ++.+.++++|+.+.+++
T Consensus 39 ~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~ 69 (85)
T cd04906 39 DAHIFVGVSVANGAEELAELLEDLKSAGYEV 69 (85)
T ss_pred eeEEEEEEEeCCcHHHHHHHHHHHHHCCCCe
Confidence 456777777654 66889999999988853
No 38
>cd04275 ZnMc_pappalysin_like Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor. This model includes pappalysins and related metalloprotease domains from all three kingdoms of life. The three-dimensional structure of an archaeal representative, ulilysin, has been solved.
Probab=21.07 E-value=2.5e+02 Score=23.92 Aligned_cols=34 Identities=15% Similarity=0.160 Sum_probs=29.5
Q ss_pred CCCeEEEEEecc----ccccChhHHHHHHHHHHHHhHH
Q 030434 45 EFPFCVHLVSWE----KENVSSEALEAARIACNKYMAK 78 (177)
Q Consensus 45 ~fp~~~~Lvs~e----~~qIss~aLEAaRi~~nkyl~k 78 (177)
..|+.+|++... .+.|+..+|++.=..+|+....
T Consensus 3 ~ipVvfHVi~~~~~~~~~~i~d~~i~~qi~vlN~~y~~ 40 (225)
T cd04275 3 VIPVYFHVIYNNSAVSGGNISDAQITDQIDVLNDDYSG 40 (225)
T ss_pred EeCeEEEEEeCCCCccCCccCHHHHHHHHHHHHHHhhc
Confidence 468999999766 5899999999999999999865
No 39
>PRK10678 moaE molybdopterin guanine dinucleotide biosynthesis protein MoaE; Provisional
Probab=20.37 E-value=2.3e+02 Score=22.92 Aligned_cols=41 Identities=17% Similarity=0.095 Sum_probs=31.5
Q ss_pred eEEEEeeCCcEEEEEeeeCCChHHHHHHHH----HhcccCCCceE
Q 030434 124 GTCARVAIGQVLLSVRCKDSNSLHAQEALR----RAKFKFPGRQK 164 (177)
Q Consensus 124 g~vArV~~Gqiifev~~~~~~~~~a~eAL~----rA~~KlP~~~k 164 (177)
+.+-+|.+|+.++-|-.-..|...|.+|.+ +-+...|+==+
T Consensus 83 HR~G~l~~Ge~~v~Vav~s~HR~~Af~A~~~~id~lK~~vPIWKk 127 (150)
T PRK10678 83 HRVGELWPGDEIVFVGVTSAHRSSAFEAGQFIMDYLKTRAPFWKR 127 (150)
T ss_pred EeEecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhcCCeEEe
Confidence 334488999999999999999999998854 45777776433
No 40
>PRK14452 acylphosphatase; Provisional
Probab=20.12 E-value=2.9e+02 Score=20.99 Aligned_cols=41 Identities=17% Similarity=0.065 Sum_probs=32.6
Q ss_pred cceEEEEeeCCcEEEEEeeeCCChHHHHHHHHHhcccCCCceEEE
Q 030434 122 PQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKII 166 (177)
Q Consensus 122 p~g~vArV~~Gqiifev~~~~~~~~~a~eAL~rA~~KlP~~~kiv 166 (177)
..|||.-..-|+|-.++.+. +.+.++|.....+-|...+|.
T Consensus 48 L~G~V~N~~dGsVeI~~qG~----~~~ve~F~~~l~~gP~~A~V~ 88 (107)
T PRK14452 48 LSGWVRNLSDGSVEVQAEGP----PLALSELRAWCERGPPGARVK 88 (107)
T ss_pred CEEEEEECCCCCEEEEEEcC----HHHHHHHHHHHhcCCCCcEEE
Confidence 57999999999999999985 446777876667777776665
No 41
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=20.01 E-value=1.2e+02 Score=21.14 Aligned_cols=30 Identities=23% Similarity=0.203 Sum_probs=21.3
Q ss_pred ChhHHHHHHHHHHHHhHHhhCCcceeEEEEecCCceeeeccc
Q 030434 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKM 102 (177)
Q Consensus 61 ss~aLEAaRi~~nkyl~k~~Gk~~f~l~Irv~P~~vir~nkm 102 (177)
...++||-..-+.|.+.+ +||+..++.++|
T Consensus 2 p~ga~~AL~~EL~kRl~~------------~yPd~~v~Vr~~ 31 (65)
T PF06183_consen 2 PAGALEALESELTKRLHR------------QYPDAEVRVRPG 31 (65)
T ss_dssp -TTHHHHHHHHHHHHHHH------------H-SS-EEEEEEE
T ss_pred CccHHHHHHHHHHHHHHH------------HCCCceEeeeec
Confidence 456788888888888865 589988888875
No 42
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=20.00 E-value=1.4e+02 Score=19.20 Aligned_cols=29 Identities=28% Similarity=0.398 Sum_probs=20.3
Q ss_pred EEeeCCcEEEEEeeeCCC-h--HHHHHHHHHh
Q 030434 127 ARVAIGQVLLSVRCKDSN-S--LHAQEALRRA 155 (177)
Q Consensus 127 ArV~~Gqiifev~~~~~~-~--~~a~eAL~rA 155 (177)
|.+++|++|.+|.+.+.. . +.+.+.|+..
T Consensus 29 ~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~ 60 (70)
T cd00136 29 AGLQAGDVILAVNGTDVKNLTLEDVAELLKKE 60 (70)
T ss_pred cCCCCCCEEEEECCEECCCCCHHHHHHHHhhC
Confidence 468999999999887542 2 5566666543
Done!