Query 033433
Match_columns 119
No_of_seqs 156 out of 460
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 13:49:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033433.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033433hhsearch_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 1.2E-50 2.6E-55 320.6 11.4 110 1-110 102-211 (213)
2 KOG0857 60s ribosomal protein 100.0 2.6E-48 5.6E-53 306.5 9.6 109 1-109 103-211 (212)
3 TIGR00279 L10e ribosomal prote 100.0 8.8E-30 1.9E-34 196.6 7.7 72 1-72 99-170 (172)
4 PRK04199 rpl10e 50S ribosomal 99.9 4.5E-28 9.8E-33 187.0 7.5 70 1-70 99-168 (172)
5 COG0197 RplP Ribosomal protein 99.8 1.1E-20 2.4E-25 143.0 5.8 61 6-73 82-144 (146)
6 PRK09203 rplP 50S ribosomal pr 99.6 4.1E-16 8.9E-21 116.2 7.1 59 7-67 76-134 (138)
7 cd01433 Ribosomal_L16_L10e Rib 99.6 3.7E-16 8E-21 111.7 6.3 55 10-65 58-112 (112)
8 CHL00044 rpl16 ribosomal prote 99.6 3.7E-15 7.9E-20 111.0 6.6 56 6-67 79-134 (135)
9 TIGR01164 rplP_bact ribosomal 99.5 1E-13 2.2E-18 102.0 5.7 51 8-60 76-126 (126)
10 PF00252 Ribosomal_L16: Riboso 99.4 5E-13 1.1E-17 98.5 5.7 56 10-66 78-133 (133)
11 KOG3422 Mitochondrial ribosoma 99.0 5.7E-10 1.2E-14 89.4 5.7 56 12-68 122-177 (221)
12 PF07831 PYNP_C: Pyrimidine nu 86.4 1.7 3.6E-05 29.2 4.4 28 27-54 43-71 (75)
13 PRK15052 D-tagatose-1,6-bispho 57.9 25 0.00053 31.2 5.3 74 33-111 15-97 (421)
14 smart00380 AP2 DNA-binding dom 56.8 13 0.00029 23.5 2.7 50 23-81 12-63 (64)
15 cd04906 ACT_ThrD-I_1 First of 56.1 13 0.00029 24.6 2.7 30 29-58 38-69 (85)
16 PRK15458 tagatose 6-phosphate 54.8 31 0.00067 30.7 5.4 50 33-86 18-73 (426)
17 TIGR02810 agaZ_gatZ D-tagatose 54.6 31 0.00068 30.6 5.4 73 33-110 14-95 (420)
18 PRK06770 hypothetical protein; 53.3 12 0.00026 29.7 2.4 39 43-86 68-106 (180)
19 COG0504 PyrG CTP synthase (UTP 52.3 17 0.00038 33.1 3.5 52 45-97 305-356 (533)
20 cd04885 ACT_ThrD-I Tandem C-te 51.4 21 0.00045 22.5 2.9 30 29-58 36-66 (68)
21 PF13533 Biotin_lipoyl_2: Biot 51.2 19 0.00041 21.9 2.6 14 27-40 23-36 (50)
22 PF02391 MoaE: MoaE protein; 51.1 44 0.00095 23.9 4.9 33 22-54 77-109 (117)
23 cd04883 ACT_AcuB C-terminal AC 51.1 29 0.00064 21.2 3.6 30 30-59 40-69 (72)
24 cd04909 ACT_PDH-BS C-terminal 45.4 14 0.00031 22.7 1.5 28 30-58 42-69 (69)
25 cd00756 MoaE MoaE family. Memb 43.7 48 0.001 24.1 4.2 39 22-60 69-111 (124)
26 PF06572 DUF1131: Protein of u 43.5 17 0.00038 28.5 1.9 36 6-41 45-80 (171)
27 PF08013 Tagatose_6_P_K: Tagat 42.0 66 0.0014 28.6 5.4 50 34-86 19-73 (424)
28 cd00992 PDZ_signaling PDZ doma 40.6 46 0.00099 20.6 3.3 28 26-53 42-72 (82)
29 cd04882 ACT_Bt0572_2 C-termina 37.7 59 0.0013 19.2 3.3 27 30-58 38-64 (65)
30 PLN02390 molybdopterin synthas 32.9 99 0.0021 22.3 4.3 39 22-60 58-100 (111)
31 PRK10718 RpoE-regulated lipopr 32.7 53 0.0012 26.3 3.2 35 6-40 66-100 (191)
32 PF14270 DUF4358: Domain of un 32.1 1.2E+02 0.0026 20.8 4.6 55 34-99 48-103 (106)
33 PRK10678 moaE molybdopterin gu 30.7 1.1E+02 0.0024 23.2 4.5 39 22-60 82-124 (150)
34 PRK13605 endoribonuclease SymE 28.5 80 0.0017 23.4 3.3 37 24-61 58-94 (113)
35 PF02749 QRPTase_N: Quinolinat 28.2 56 0.0012 21.9 2.3 15 27-41 56-70 (88)
36 PF13580 SIS_2: SIS domain; PD 27.7 60 0.0013 23.2 2.5 30 27-57 100-129 (138)
37 cd04908 ACT_Bt0572_1 N-termina 27.5 1.5E+02 0.0033 18.1 4.5 25 32-58 40-64 (66)
38 PF04166 PdxA: Pyridoxal phosp 27.4 41 0.00088 28.2 1.8 52 45-107 96-147 (298)
39 COG0279 GmhA Phosphoheptose is 26.0 71 0.0015 25.3 2.8 28 29-57 108-135 (176)
40 COG0347 GlnK Nitrogen regulato 25.9 1.3E+02 0.0028 22.2 3.9 38 31-68 57-95 (112)
41 COG1208 GCD1 Nucleoside-diphos 25.8 1.8E+02 0.004 24.3 5.4 64 30-106 22-85 (358)
42 smart00072 GuKc Guanylate kina 25.6 1.4E+02 0.0029 22.0 4.2 59 33-94 4-73 (184)
43 cd03773 MATH_TRIM37 Tripartite 25.4 49 0.0011 22.8 1.6 28 68-97 97-126 (132)
44 PF03166 MH2: MH2 domain; Int 25.3 1E+02 0.0022 23.5 3.5 53 20-78 101-165 (181)
45 PRK06078 pyrimidine-nucleoside 24.6 79 0.0017 28.0 3.1 28 27-54 387-414 (434)
46 PF13353 Fer4_12: 4Fe-4S singl 24.3 1.2E+02 0.0025 20.8 3.4 50 43-93 68-117 (139)
47 PF15380 DUF4607: Domain of un 23.1 43 0.00093 27.9 1.1 28 1-28 154-184 (265)
48 COG0328 RnhA Ribonuclease HI [ 22.6 84 0.0018 24.1 2.6 49 21-69 18-73 (154)
49 PF09106 SelB-wing_2: Elongati 22.2 1.8E+02 0.0039 17.9 3.7 21 77-97 38-58 (59)
50 PRK14424 acylphosphatase; Prov 22.1 2.6E+02 0.0056 19.4 4.8 39 22-64 36-74 (94)
51 KOG0226 RNA-binding proteins [ 21.7 75 0.0016 27.0 2.3 63 34-100 190-261 (290)
52 TIGR02643 T_phosphoryl thymidi 21.6 88 0.0019 27.8 2.8 28 27-54 391-419 (437)
53 COG2153 ElaA Predicted acyltra 21.5 89 0.0019 24.3 2.5 53 27-81 76-139 (155)
54 PF00825 Ribonuclease_P: Ribon 21.4 1.9E+02 0.004 20.0 4.0 50 32-81 43-100 (111)
55 PRK05820 deoA thymidine phosph 20.9 96 0.0021 27.5 2.9 28 27-54 392-420 (440)
56 PRK03946 pdxA 4-hydroxythreoni 20.9 59 0.0013 27.5 1.5 50 46-107 105-154 (307)
57 PRK14439 acylphosphatase; Prov 20.7 1.2E+02 0.0027 23.6 3.1 46 51-97 67-116 (163)
58 COG0594 RnpA RNase P protein c 20.7 2E+02 0.0044 20.5 4.1 35 45-80 63-97 (117)
59 COG0314 MoaE Molybdopterin con 20.5 1.7E+02 0.0037 22.2 3.9 39 22-60 82-124 (149)
60 PF09857 DUF2084: Uncharacteri 20.3 78 0.0017 22.4 1.8 39 65-103 36-74 (85)
No 1
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=100.00 E-value=1.2e-50 Score=320.58 Aligned_cols=110 Identities=64% Similarity=1.128 Sum_probs=108.5
Q ss_pred CccccccchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeCccccccccHHHH
Q 033433 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADY 80 (119)
Q Consensus 1 mls~AGADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~ 80 (119)
|||||||||||+|||++||||+||||||++||+||||+++++|.++|+|||++|++|||++|+|+++++||||+|+++||
T Consensus 102 m~T~AgAdrlq~gMr~gfGkp~g~vArVk~Gqiifei~~~~~~~~~AkeALrrA~~KlP~~~kIv~~~~wgft~~~~~~~ 181 (213)
T PTZ00173 102 MLSCAGADRLQTGMRGAFGKPNGTCARVRIGQILLSIRTKEAYVPQAIEALRRAKYKFPGRQKIVVSNKWGFTNYTREEY 181 (213)
T ss_pred ccccccCchhhhhcccCCCCccEEEEEECcCCEEEEEecccCCHHHHHHHHHHhcccCCCeEEEEEecccCccccCHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhcCeEecCcceEEEeCCCCCCCCCCC
Q 033433 81 LRWKSENRIVPDGVNAKLLGCHGPLAQRQP 110 (119)
Q Consensus 81 ~~~~~~~~l~~dG~~vk~~~~~Gpl~~~~~ 110 (119)
++|+++|+|++|||+||++++||||++|..
T Consensus 182 ~~~~~~~~~~~~g~~~~~~~~~g~l~~~~~ 211 (213)
T PTZ00173 182 QKLRAEGKLIQDGVHVKLISPKGPLTKVNP 211 (213)
T ss_pred HHHHHCCeEecCCceEEEeCCCCChhhhhc
Confidence 999999999999999999999999999964
No 2
>KOG0857 consensus 60s ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.6e-48 Score=306.46 Aligned_cols=109 Identities=65% Similarity=1.057 Sum_probs=108.1
Q ss_pred CccccccchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeCccccccccHHHH
Q 033433 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADY 80 (119)
Q Consensus 1 mls~AGADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~ 80 (119)
|||||||||||||||+|||||+|+||||++||+||||+++++|.||++|||+||+|||||+|+|++|++||||+|++|||
T Consensus 103 ~ls~~~~~RLQtgmrga~gkp~G~varV~iGqvi~Svrtk~~nkeh~ieal~rak~kfpG~qki~vs~kwgftk~~~def 182 (212)
T KOG0857|consen 103 MLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSVRTKLQNKEHVIEALRRAKFKFPGRQKIVVSKKWGFTKFDRDEF 182 (212)
T ss_pred hhcccchhhhhhcccccccCccceEEEEEcCceEEEeecCcccHHHHHHHHHhccccCCCceeEEeeeecCccccchhHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhcCeEecCcceEEEeCCCCCCCCCC
Q 033433 81 LRWKSENRIVPDGVNAKLLGCHGPLAQRQ 109 (119)
Q Consensus 81 ~~~~~~~~l~~dG~~vk~~~~~Gpl~~~~ 109 (119)
++|+.++++++|||+|+|++.+|||++|.
T Consensus 183 ~~~~~~~~~~~~g~~vk~~~~~gp~~~~~ 211 (212)
T KOG0857|consen 183 EDLRARKRLEPDGCGVKFIPVCGPLQAII 211 (212)
T ss_pred HHHHhhcceeccCCceeeecccCchhhcc
Confidence 99999999999999999999999999986
No 3
>TIGR00279 L10e ribosomal protein L10.e. L10.e is distantly related to eubacterial ribosomal protein L16.
Probab=99.96 E-value=8.8e-30 Score=196.55 Aligned_cols=72 Identities=58% Similarity=0.874 Sum_probs=70.1
Q ss_pred CccccccchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeCcccc
Q 033433 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGF 72 (119)
Q Consensus 1 mls~AGADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~kwGF 72 (119)
|+++|||||||+|||++||+|++|||||++||+||||+++++++++|+|||++|++|||++++|+++++|+.
T Consensus 99 ~~trmGaDRlq~GMr~gkG~p~~wvArVk~Gqiifei~~~~~~~~~AkeAlr~A~~KLP~~~kiv~~~~~~~ 170 (172)
T TIGR00279 99 MATGAGADRIQQGMRGAFGKPVGTAARVKIGQKIFSVWTKPSNFDVAKEALRRAAMKFPVPCKIVIEKGWEL 170 (172)
T ss_pred hhhhcCchhhhcccccCCCCccEEEEEECcCCEEEEEEeecCCHHHHHHHHHHHhccCCCcEEEEEecCccc
Confidence 679999999999999999999999999999999999999999999999999999999999999999999985
No 4
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=99.95 E-value=4.5e-28 Score=187.03 Aligned_cols=70 Identities=49% Similarity=0.704 Sum_probs=67.2
Q ss_pred CccccccchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeCcc
Q 033433 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKW 70 (119)
Q Consensus 1 mls~AGADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~kw 70 (119)
|+++|||||||+|||+|||+|++|||||++||+||||+++.+++++|+|||++|++|||++|+|+++++-
T Consensus 99 ~~~rmGAdRmg~GMr~akG~p~~wva~Vk~G~ilfei~~~~~~~~~akeAlr~a~~KLP~k~kiv~~~~~ 168 (172)
T PRK04199 99 MATGAGADRVSDGMRLAFGKPVGTAARVEKGQKIFTVRVNPEHLEAAKEALRRAAMKLPTPCRIVVEKGK 168 (172)
T ss_pred hHhhcchhhhccCcccCCCCccEEEEEECcCCEEEEEEecCCCHHHHHHHHHHhhccCCCcEEEEEeccc
Confidence 6799999999999999999999999999999999999999999999999999999999999999988754
No 5
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=99.82 E-value=1.1e-20 Score=142.96 Aligned_cols=61 Identities=41% Similarity=0.578 Sum_probs=53.1
Q ss_pred ccchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEE--EEeCccccc
Q 033433 6 GADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKI--IVSRKWGFT 73 (119)
Q Consensus 6 GADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkI--vis~kwGFT 73 (119)
||||+++|| |+|+||||||++||+||||.++++ +.|+||||+|++|||+++++ .+++ +.++
T Consensus 82 ~e~Rmg~Gk----G~pegwaArVkpG~vlfei~g~~e--~~A~EAlr~Aa~KLP~~~~~v~~~~~-~~~~ 144 (146)
T COG0197 82 GEDRMGKGK----GKPEGWAARVKPGRVLFEIAGVPE--ELAREALRRAAAKLPVKTKFVIRIEK-REGT 144 (146)
T ss_pred CcccccCCC----CCccEEEEEecCCcEEEEEecCcH--HHHHHHHHHHhhcCCCceEEEEEEec-chhc
Confidence 899999999 999999999999999999999965 44999999999999999555 4445 5543
No 6
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=99.64 E-value=4.1e-16 Score=116.23 Aligned_cols=59 Identities=27% Similarity=0.320 Sum_probs=55.1
Q ss_pred cchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEe
Q 033433 7 ADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVS 67 (119)
Q Consensus 7 ADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis 67 (119)
.+.+.+.|...||+|++|||||++||+||||++ .+.++|+|||++|++|||++++|+..
T Consensus 76 ~k~~~~RMGkGKG~~~~~varVk~G~iifEi~~--~~~~~a~~al~~a~~KLP~~~kii~~ 134 (138)
T PRK09203 76 KKPAEVRMGKGKGSPEYWVAVVKPGRILFEIAG--VSEELAREALRLAAAKLPIKTKFVKR 134 (138)
T ss_pred cChhhccccCCCCCCcEEEEEECCCCEEEEEeC--CCHHHHHHHHHHHhccCCCcEEEEEe
Confidence 456788999999999999999999999999999 58999999999999999999999865
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=99.64 E-value=3.7e-16 Score=111.68 Aligned_cols=55 Identities=47% Similarity=0.611 Sum_probs=52.2
Q ss_pred hccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEE
Q 033433 10 LQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKII 65 (119)
Q Consensus 10 lq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIv 65 (119)
++++|+++||+|++|||||++||+|||+.+.++ .+.|++||++|++|||.+++|+
T Consensus 58 ~~~rMGkGKG~~~~~~a~v~~G~iifEi~~~~~-~~~~~~alk~a~~Klp~~~k~i 112 (112)
T cd01433 58 LETRMGKGKGKPEGWVARVKPGQILFEVRGVPE-EEVAKEALRRAAKKLPIKTKIV 112 (112)
T ss_pred cccccCCCCCCccEEEEEECCCCEEEEEeCcCc-HHHHHHHHHHhhccCCCcEEEC
Confidence 689999999999999999999999999999854 9999999999999999999884
No 8
>CHL00044 rpl16 ribosomal protein L16
Probab=99.58 E-value=3.7e-15 Score=110.97 Aligned_cols=56 Identities=27% Similarity=0.423 Sum_probs=52.2
Q ss_pred ccchhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEe
Q 033433 6 GADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVS 67 (119)
Q Consensus 6 GADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis 67 (119)
++||+..| ||+|++|||||++||+||||.+. +.++|+|||++|++|||++++|+..
T Consensus 79 ~e~RMGkG----KG~~~~~va~V~~G~ilfEi~g~--~~~~ak~al~~a~~KLP~k~~~v~~ 134 (135)
T CHL00044 79 AETRMGSG----KGSPEYWVAVVKPGRILYEMGGV--SETIARAAIKIAAYKMPIKTQFIIS 134 (135)
T ss_pred ccccccCC----CCCccEEEEEECCCcEEEEEeCC--CHHHHHHHHHHHhhcCCCcEEEEec
Confidence 67899988 99999999999999999999997 5689999999999999999999864
No 9
>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=99.46 E-value=1e-13 Score=102.01 Aligned_cols=51 Identities=31% Similarity=0.346 Sum_probs=47.2
Q ss_pred chhccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCC
Q 033433 8 DRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60 (119)
Q Consensus 8 DRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg 60 (119)
+.+.+.|...||+|++|||||++||+||||.+ .+.++|+|||++|++|||.
T Consensus 76 k~~~~RMGkGKG~~~~~varV~~G~ilfEi~~--~~~~~a~~al~~a~~KLP~ 126 (126)
T TIGR01164 76 KPLETRMGKGKGNPEYWVAVVKPGKILFEIAG--VPEEVAREAFRLAASKLPI 126 (126)
T ss_pred CchhccccCCCCCCCEEEEEECCCCEEEEEeC--CCHHHHHHHHHHHHhcCCC
Confidence 34677899999999999999999999999999 5899999999999999995
No 10
>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=99.39 E-value=5e-13 Score=98.51 Aligned_cols=56 Identities=38% Similarity=0.461 Sum_probs=49.8
Q ss_pred hccccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEE
Q 033433 10 LQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIV 66 (119)
Q Consensus 10 lq~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvi 66 (119)
+.+.|-+.+|+|++|||+|++||+|||+.++. +.+.|++||++|++|||++++|+.
T Consensus 78 ~~~RMG~GKG~~~~~~a~V~~G~iifEi~~~v-~~~~a~~alk~a~~KLP~~~~~v~ 133 (133)
T PF00252_consen 78 LETRMGKGKGKIDHWVARVKPGQIIFEIGGKV-NEEEAKEALKRAAKKLPIKTKFVS 133 (133)
T ss_dssp SSSSSSSSSCEEEEEEEEESTTEEEEEEESGS-CHHHHHHHHHHHHHTSSSCEEEE-
T ss_pred hhhhhccCCCCccEEEEEECCCcEEEEECCcC-CHHHHHHHHHHHHhhCCCCEEEeC
Confidence 45677777899999999999999999997633 899999999999999999999973
No 11
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=99.00 E-value=5.7e-10 Score=89.35 Aligned_cols=56 Identities=27% Similarity=0.368 Sum_probs=52.0
Q ss_pred cccCCCCCCceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeC
Q 033433 12 TGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSR 68 (119)
Q Consensus 12 ~GMr~afGKP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~ 68 (119)
|=|-+.+|.|++|||||++|+|||||.++ -+++.|++||..|++|||+..++|++.
T Consensus 122 tRMG~GKGa~d~wva~V~~GrIl~EmgG~-~~~~~Ar~al~~aa~klp~~~efVs~~ 177 (221)
T KOG3422|consen 122 TRMGGGKGAIDHWVARVKAGRILFEMGGD-VEEEEARQALLQAAHKLPFKYEFVSEE 177 (221)
T ss_pred eeccCCCCCcceeEEEecCCcEEEEeCCc-ccHHHHHHHHHHHHhcCCccEEEeeHh
Confidence 45778899999999999999999999996 789999999999999999999999874
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=86.43 E-value=1.7 Score=29.23 Aligned_cols=28 Identities=36% Similarity=0.433 Sum_probs=22.9
Q ss_pred EeeCCCEEEEEEecCCC-HHHHHHHHHhc
Q 033433 27 RVAIGQVLLSVRCKDSN-SHHAQEALRRA 54 (119)
Q Consensus 27 RV~~GqvI~sir~~~~~-~~~a~EALrrA 54 (119)
+|+.|++|++|..+++. .+.+.+.|+.|
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 78999999999999776 57777766654
No 13
>PRK15052 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional
Probab=57.92 E-value=25 Score=31.24 Aligned_cols=74 Identities=19% Similarity=0.023 Sum_probs=44.4
Q ss_pred EEEEEEecCCCHHHHHHH-HHhcccc-CCCceEEEEe-C----ccccccccHHHHHhhhhc--CeEecCcceEEEeCCCC
Q 033433 33 VLLSVRCKDSNSHHAQEA-LRRAKFK-FPGRQKIIVS-R----KWGFTKFSRADYLRWKSE--NRIVPDGVNAKLLGCHG 103 (119)
Q Consensus 33 vI~sir~~~~~~~~a~EA-LrrAk~K-lPg~qkIvis-~----kwGFT~~~~~e~~~~~~~--~~l~~dG~~vk~~~~~G 103 (119)
-|+||+.- | +.++|| |++|+-+ .| .-|.-+ + .-|||.++..+|.+.+.+ .++=-|+.-+-+-.+|+
T Consensus 15 Gi~SVCsa--h-p~VieAAl~~a~~~~~p--vLiEAT~NQVdq~GGYTGmtP~dF~~~V~~iA~~~gf~~~~iiLggDHl 89 (421)
T PRK15052 15 GICSVCSA--H-PLVIEAALAFDLNSTRK--VLIEATSNQVNQFGGYTGMTPADFREFVYGIADKVGFPRERIILGGDHL 89 (421)
T ss_pred ceeeECCC--C-HHHHHHHHHHHhhcCCc--EEEEeccccccccCCcCCCCHHHHHHHHHHHHHHcCCChhcEEeecCCC
Confidence 47899874 4 455665 9999874 33 233322 2 459999999999998877 11112222333344565
Q ss_pred CCCCCCCC
Q 033433 104 PLAQRQPG 111 (119)
Q Consensus 104 pl~~~~~~ 111 (119)
=...|...
T Consensus 90 GPn~Wq~~ 97 (421)
T PRK15052 90 GPNCWQQE 97 (421)
T ss_pred CCccccCC
Confidence 55567543
No 14
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=56.83 E-value=13 Score=23.55 Aligned_cols=50 Identities=22% Similarity=0.183 Sum_probs=35.3
Q ss_pred eeEEEeeC--CCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeCccccccccHHHHH
Q 033433 23 GTCARVAI--GQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYL 81 (119)
Q Consensus 23 G~vARV~~--GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~ 81 (119)
-|.|+|.. +..-..+.. -...+.|..|..+|..++=| ....+||+.++|+
T Consensus 12 kw~A~I~~~~~~k~~~lG~-f~t~eeAa~Ayd~a~~~~~g--------~~a~~Nf~~~~y~ 63 (64)
T smart00380 12 KWVAEIRDPSKGKRVWLGT-FDTAEEAARAYDRAAFKFRG--------RSARLNFPNSLYD 63 (64)
T ss_pred eEEEEEEecCCCcEEecCC-CCCHHHHHHHHHHHHHHhcC--------CccccCCCCccCC
Confidence 38998887 665555544 34688999999999888755 3345678777764
No 15
>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=56.13 E-value=13 Score=24.58 Aligned_cols=30 Identities=13% Similarity=0.258 Sum_probs=23.5
Q ss_pred eCCCEEEEEEecC--CCHHHHHHHHHhccccC
Q 033433 29 AIGQVLLSVRCKD--SNSHHAQEALRRAKFKF 58 (119)
Q Consensus 29 ~~GqvI~sir~~~--~~~~~a~EALrrAk~Kl 58 (119)
..+++++.+.+.+ +|.+.++++|+.+++++
T Consensus 38 ~~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~ 69 (85)
T cd04906 38 KDAHIFVGVSVANGAEELAELLEDLKSAGYEV 69 (85)
T ss_pred CeeEEEEEEEeCCcHHHHHHHHHHHHHCCCCe
Confidence 3566888888765 67899999999988854
No 16
>PRK15458 tagatose 6-phosphate aldolase subunit KbaZ; Provisional
Probab=54.80 E-value=31 Score=30.67 Aligned_cols=50 Identities=20% Similarity=0.161 Sum_probs=34.3
Q ss_pred EEEEEEecCCCHHHHHHH-HHhccccCCCceEEEEe-C----ccccccccHHHHHhhhhc
Q 033433 33 VLLSVRCKDSNSHHAQEA-LRRAKFKFPGRQKIIVS-R----KWGFTKFSRADYLRWKSE 86 (119)
Q Consensus 33 vI~sir~~~~~~~~a~EA-LrrAk~KlPg~qkIvis-~----kwGFT~~~~~e~~~~~~~ 86 (119)
-|+||+.- | +.++|| |++|+-+= .+.-|.-+ + .-|||.++..+|.+.+.+
T Consensus 18 gI~sVCsa--h-p~VieAAl~~a~~~~-~pvLiEAT~NQVnq~GGYTGmtP~dF~~~V~~ 73 (426)
T PRK15458 18 GIYAVCSA--H-PLVLEAAIRYALAND-SPLLIEATSNQVDQFGGYTGMTPADFRGFVCQ 73 (426)
T ss_pred eEEEecCC--C-HHHHHHHHHHHhhcC-CcEEEEeccccccccCCcCCCCHHHHHHHHHH
Confidence 47899774 4 455665 99998742 22233222 2 459999999999998877
No 17
>TIGR02810 agaZ_gatZ D-tagatose-bisphosphate aldolase, class II, non-catalytic subunit. Aldolases specific for D-tagatose-bisphosphate occur in distinct pathways in Escherichia coli and other bacteria, one for the degradation of galactitol (formerly dulcitol) and one for degradation of N-acetyl-galactosamine and D-galactosamine. This family represents a protein of both systems that behaves as a non-catalytic subunit of D-tagatose-bisphosphate aldolase, required both for full activity and for good stability of the aldolase. Note that members of this protein family appear in public databases annotated as putative tagatose 6-phosphate kinases, possibly in error.
Probab=54.60 E-value=31 Score=30.58 Aligned_cols=73 Identities=26% Similarity=0.191 Sum_probs=43.6
Q ss_pred EEEEEEecCCCHHHHHHH-HHhcccc-CCCceEEEEe-C----ccccccccHHHHHhhhhc--CeEecCcceEEEeCCCC
Q 033433 33 VLLSVRCKDSNSHHAQEA-LRRAKFK-FPGRQKIIVS-R----KWGFTKFSRADYLRWKSE--NRIVPDGVNAKLLGCHG 103 (119)
Q Consensus 33 vI~sir~~~~~~~~a~EA-LrrAk~K-lPg~qkIvis-~----kwGFT~~~~~e~~~~~~~--~~l~~dG~~vk~~~~~G 103 (119)
-|+||+.- | +.++|| |++|+-+ .| .-|.-+ + .-|||.++..+|.+.+.+ .++=-|..-+-+-.+|+
T Consensus 14 gI~sVCsa--h-p~VieAAl~~a~~~~~p--vLiEAT~NQVnq~GGYTGmtP~dF~~~V~~iA~~~gf~~~~iiLggDHl 88 (420)
T TIGR02810 14 GIYSVCSA--H-PLVLEAAIRRARASGTP--VLIEATSNQVNQFGGYTGMTPADFRDFVETIADRIGFPRDRLILGGDHL 88 (420)
T ss_pred eEEEECCC--C-HHHHHHHHHHHhhcCCc--EEEEeccccccccCCcCCCCHHHHHHHHHHHHHHcCCChhcEEeecCCC
Confidence 47899774 4 455665 9999874 33 233322 2 459999999999998877 11112222333344555
Q ss_pred CCCCCCC
Q 033433 104 PLAQRQP 110 (119)
Q Consensus 104 pl~~~~~ 110 (119)
=...|..
T Consensus 89 GPn~Wq~ 95 (420)
T TIGR02810 89 GPNPWQH 95 (420)
T ss_pred CCccccC
Confidence 5555653
No 18
>PRK06770 hypothetical protein; Provisional
Probab=53.34 E-value=12 Score=29.71 Aligned_cols=39 Identities=21% Similarity=0.454 Sum_probs=32.4
Q ss_pred CHHHHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhc
Q 033433 43 NSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSE 86 (119)
Q Consensus 43 ~~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~ 86 (119)
.++.++.|++.-. +||+.-+++|||+..+.+.-+.++.-
T Consensus 68 tE~~ii~~MH~Mt-----HQKV~A~~KwG~~~mT~enI~~l~~~ 106 (180)
T PRK06770 68 TEEEIITAMHKMT-----HQKVKADEKWGFIEMTQENIEKLKDI 106 (180)
T ss_pred CHHHHHHHHHHHH-----hhhhhhhcccceEecCHHHHHHHHHH
Confidence 5678888888755 59999999999999999999888643
No 19
>COG0504 PyrG CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=52.32 E-value=17 Score=33.08 Aligned_cols=52 Identities=17% Similarity=0.201 Sum_probs=42.9
Q ss_pred HHHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhcCeEecCcceEE
Q 033433 45 HHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAK 97 (119)
Q Consensus 45 ~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~~~l~~dG~~vk 97 (119)
.-++|||+.|+..+-.+.+|.--..-.+++-+.++++++ -+|-|||-|-+.+
T Consensus 305 ~Sv~EAL~hag~~~~~~v~i~wIdse~le~~~~~~~~~~-~dgIlVPGGFG~R 356 (533)
T COG0504 305 KSVIEALKHAGIALGVKVNIKWIDSEDLEEENAAELEKL-VDGILVPGGFGYR 356 (533)
T ss_pred HHHHHHHHhhhhhcCCceeeEEEccccccccchhhhhhc-CCEEEeCCCCCcC
Confidence 567999999999999999997777777877776777765 7999999997753
No 20
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=51.35 E-value=21 Score=22.48 Aligned_cols=30 Identities=17% Similarity=0.352 Sum_probs=23.2
Q ss_pred eCCCEEEEEEecC-CCHHHHHHHHHhccccC
Q 033433 29 AIGQVLLSVRCKD-SNSHHAQEALRRAKFKF 58 (119)
Q Consensus 29 ~~GqvI~sir~~~-~~~~~a~EALrrAk~Kl 58 (119)
+.+.+.+++.+.+ .|.+..+++|+.++|++
T Consensus 36 ~~~~v~v~ie~~~~~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 36 DEARVLVGIQVPDREDLAELKERLEALGYPY 66 (68)
T ss_pred CceEEEEEEEeCCHHHHHHHHHHHHHcCCCc
Confidence 4566777777765 67888999999988864
No 21
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=51.22 E-value=19 Score=21.90 Aligned_cols=14 Identities=36% Similarity=0.508 Sum_probs=12.3
Q ss_pred EeeCCCEEEEEEec
Q 033433 27 RVAIGQVLLSVRCK 40 (119)
Q Consensus 27 RV~~GqvI~sir~~ 40 (119)
.|+.||+|+.+...
T Consensus 23 ~VkkGd~L~~ld~~ 36 (50)
T PF13533_consen 23 QVKKGDVLLVLDSP 36 (50)
T ss_pred EEcCCCEEEEECcH
Confidence 68999999999765
No 22
>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=51.14 E-value=44 Score=23.87 Aligned_cols=33 Identities=18% Similarity=0.231 Sum_probs=28.4
Q ss_pred eeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhc
Q 033433 22 QGTCARVAIGQVLLSVRCKDSNSHHAQEALRRA 54 (119)
Q Consensus 22 ~G~vARV~~GqvI~sir~~~~~~~~a~EALrrA 54 (119)
....-++++|+.++-|-+-..|.+.|-+|++-+
T Consensus 77 ~HR~G~l~vGe~~v~V~vsa~hR~eaf~A~~~~ 109 (117)
T PF02391_consen 77 VHRVGRLKVGEPIVLVAVSAPHRKEAFEACEYI 109 (117)
T ss_dssp EEEEEEEETTSEEEEEEEEESSHHHHHHHHHHH
T ss_pred EEeeCCCCCCCeEEEEEEecCCHHHHHHHHHHH
Confidence 456778999999999999888999999998753
No 23
>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=51.06 E-value=29 Score=21.22 Aligned_cols=30 Identities=27% Similarity=0.337 Sum_probs=21.8
Q ss_pred CCCEEEEEEecCCCHHHHHHHHHhccccCC
Q 033433 30 IGQVLLSVRCKDSNSHHAQEALRRAKFKFP 59 (119)
Q Consensus 30 ~GqvI~sir~~~~~~~~a~EALrrAk~KlP 59 (119)
.|..++.++....+.+.++++|+.+.|++=
T Consensus 40 ~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 40 EDNKILVFRVQTMNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred CCeEEEEEEEecCCHHHHHHHHHHCCCeee
Confidence 456666666654567799999999888753
No 24
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=45.42 E-value=14 Score=22.69 Aligned_cols=28 Identities=21% Similarity=0.398 Sum_probs=20.8
Q ss_pred CCCEEEEEEecCCCHHHHHHHHHhccccC
Q 033433 30 IGQVLLSVRCKDSNSHHAQEALRRAKFKF 58 (119)
Q Consensus 30 ~GqvI~sir~~~~~~~~a~EALrrAk~Kl 58 (119)
.+.++++++.. .|.+.++++|+.+++++
T Consensus 42 ~~~~~i~v~~~-~~~~~~~~~L~~~G~~v 69 (69)
T cd04909 42 GGILRISFKTQ-EDRERAKEILKEAGYEV 69 (69)
T ss_pred cEEEEEEECCH-HHHHHHHHHHHHcCCcC
Confidence 34556777754 37899999999988763
No 25
>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=43.72 E-value=48 Score=24.13 Aligned_cols=39 Identities=21% Similarity=0.214 Sum_probs=31.3
Q ss_pred eeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhc----cccCCC
Q 033433 22 QGTCARVAIGQVLLSVRCKDSNSHHAQEALRRA----KFKFPG 60 (119)
Q Consensus 22 ~G~vARV~~GqvI~sir~~~~~~~~a~EALrrA----k~KlPg 60 (119)
....-++++|+.++-|-+-..|.+.|-+|++-. |...|.
T Consensus 69 ~HR~G~l~vGe~~v~i~v~a~hR~~af~A~~~~id~lK~~~Pi 111 (124)
T cd00756 69 IHRVGRLPPGEAIVLVAVSSPHRKEAFEACEFLIDRLKHRAPI 111 (124)
T ss_pred EEEEcccCCCCEEEEEEEecCCHHHHHHHHHHHHHHHHhhCCE
Confidence 345667899999999999888999998888755 666666
No 26
>PF06572 DUF1131: Protein of unknown function (DUF1131); InterPro: IPR010938 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2QZB_B.
Probab=43.48 E-value=17 Score=28.52 Aligned_cols=36 Identities=28% Similarity=0.288 Sum_probs=30.8
Q ss_pred ccchhccccCCCCCCceeeEEEeeCCCEEEEEEecC
Q 033433 6 GADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKD 41 (119)
Q Consensus 6 GADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~~ 41 (119)
|.=||++||+-+=|+.+-+..-.+-+||.++|.+.+
T Consensus 45 g~y~lrsGm~t~nG~~v~~~qA~~~d~v~lvI~G~~ 80 (171)
T PF06572_consen 45 GDYRLRSGMQTANGNIVSFFQAMKDDQVKLVISGDP 80 (171)
T ss_dssp SS-EEEEEEEEETTEEEEEEEEEETTEEEEEEEE--
T ss_pred CCcEEecceecCCCCeEEeeeeecCCeEEEEEecCC
Confidence 445899999999999999999999999999999863
No 27
>PF08013 Tagatose_6_P_K: Tagatose 6 phosphate kinase; InterPro: IPR012062 Escherichia coli and other enteric bacteria contain two closely related D-tagatose 1,6-bisphosphate (TagBP)-specific aldolases involved in catabolism of galactitol (genes gatY gatZ) and of N-acetyl-galactosamine and D-galactosamine (genes kbaY, kbaZ, also called agaY, agaZ). The catalytic subunits GatY/KbaY alone are sufficient to show aldolase activity and contain most or all of the residues that have been identified as essential in substrate/product recognition and catalysis for class II aldolases [, ]. However, these aldolases differ from other Class II aldolases (which are homodimeric enzymes) in that they require subunits GatZ/KbaZ for full activity and for good in vivo and in vitro stability. The Z subunits alone do not show any aldolase activity []. It should be noted that the previous suggestion of a tagatose 6P-kinase function for AgaZ [] and other members of this family turned out to be erroneous [, ].; GO: 0019402 galactitol metabolic process; PDB: 2FIQ_A 3TXV_A.
Probab=41.96 E-value=66 Score=28.65 Aligned_cols=50 Identities=28% Similarity=0.245 Sum_probs=30.5
Q ss_pred EEEEEecCCCHHHHHHHHHhccccCCCceEEEE-eC----ccccccccHHHHHhhhhc
Q 033433 34 LLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIV-SR----KWGFTKFSRADYLRWKSE 86 (119)
Q Consensus 34 I~sir~~~~~~~~a~EALrrAk~KlPg~qkIvi-s~----kwGFT~~~~~e~~~~~~~ 86 (119)
|+||+.- |.-+..-||++|+.+=- +.-|.- ++ .-|||.++..+|.+++.+
T Consensus 19 I~SVCsa--hp~VieAAl~~a~~~~~-pvLiEAT~NQVnq~GGYTGmtP~dF~~~V~~ 73 (424)
T PF08013_consen 19 IYSVCSA--HPLVIEAALERAKEDDS-PVLIEATSNQVNQFGGYTGMTPADFRDFVRE 73 (424)
T ss_dssp EEEE------HHHHHHHHHHCCCS-S--EEEEEETTTCSTT-TTTTB-HHHHHHHHHH
T ss_pred eEEecCC--CHHHHHHHHHHHHhcCC-eEEEEeccccccccCCcCCCCHHHHHHHHHH
Confidence 7899885 77777778999987632 223322 23 449999999999988754
No 28
>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=40.65 E-value=46 Score=20.60 Aligned_cols=28 Identities=21% Similarity=0.325 Sum_probs=18.8
Q ss_pred EEeeCCCEEEEEEecCC---CHHHHHHHHHh
Q 033433 26 ARVAIGQVLLSVRCKDS---NSHHAQEALRR 53 (119)
Q Consensus 26 ARV~~GqvI~sir~~~~---~~~~a~EALrr 53 (119)
|.+++|++|++|-+.+- +.+.+.++|+.
T Consensus 42 ~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~ 72 (82)
T cd00992 42 GGLRVGDRILEVNGVSVEGLTHEEAVELLKN 72 (82)
T ss_pred CCCCCCCEEEEECCEEcCccCHHHHHHHHHh
Confidence 45778888888876642 45666666664
No 29
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.74 E-value=59 Score=19.19 Aligned_cols=27 Identities=26% Similarity=0.353 Sum_probs=20.6
Q ss_pred CCCEEEEEEecCCCHHHHHHHHHhccccC
Q 033433 30 IGQVLLSVRCKDSNSHHAQEALRRAKFKF 58 (119)
Q Consensus 30 ~GqvI~sir~~~~~~~~a~EALrrAk~Kl 58 (119)
.|..+++++.. ..+.+.+.|+.+.|++
T Consensus 38 ~~~~~v~~~ve--~~~~~~~~L~~~G~~v 64 (65)
T cd04882 38 GGKALLIFRTE--DIEKAIEVLQERGVEL 64 (65)
T ss_pred CCeEEEEEEeC--CHHHHHHHHHHCCceE
Confidence 36677777775 3889999999988753
No 30
>PLN02390 molybdopterin synthase catalytic subunit
Probab=32.94 E-value=99 Score=22.30 Aligned_cols=39 Identities=18% Similarity=0.158 Sum_probs=30.7
Q ss_pred eeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhc----cccCCC
Q 033433 22 QGTCARVAIGQVLLSVRCKDSNSHHAQEALRRA----KFKFPG 60 (119)
Q Consensus 22 ~G~vARV~~GqvI~sir~~~~~~~~a~EALrrA----k~KlPg 60 (119)
.+..-+|.+|++++-|-+-..|...|-+|++-. |...|.
T Consensus 58 ~HR~G~l~vge~~v~v~v~s~HR~~Af~A~~~~id~lK~~vPI 100 (111)
T PLN02390 58 AHRLGPVPVGETSVFVAVSSVHRADALDACKFLIDELKASVPI 100 (111)
T ss_pred EEeeecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhcCCE
Confidence 456678899999999999888999888887754 555554
No 31
>PRK10718 RpoE-regulated lipoprotein; Provisional
Probab=32.69 E-value=53 Score=26.30 Aligned_cols=35 Identities=26% Similarity=0.313 Sum_probs=30.6
Q ss_pred ccchhccccCCCCCCceeeEEEeeCCCEEEEEEec
Q 033433 6 GADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCK 40 (119)
Q Consensus 6 GADRlq~GMr~afGKP~G~vARV~~GqvI~sir~~ 40 (119)
|--||.+||+-+=|+-+-+..-++-+||.++|.++
T Consensus 66 g~y~lrsGm~t~~G~iv~~~qa~~~d~v~lvi~G~ 100 (191)
T PRK10718 66 GDYRLRSGMKTANGNVVRFFQAMKGDQVAMVINGQ 100 (191)
T ss_pred CCceEeccccCCCCCEEEeeeeecCCceEEEEECC
Confidence 34589999999999988888889999999999995
No 32
>PF14270 DUF4358: Domain of unknown function (DUF4358)
Probab=32.13 E-value=1.2e+02 Score=20.82 Aligned_cols=55 Identities=16% Similarity=0.283 Sum_probs=39.0
Q ss_pred EEEEEecCCC-HHHHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhcCeEecCcceEEEe
Q 033433 34 LLSVRCKDSN-SHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLL 99 (119)
Q Consensus 34 I~sir~~~~~-~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~~~l~~dG~~vk~~ 99 (119)
|+-+..++.. .+.+++||..-. .+.+--|..|..+||. +.++-.+...|.+|-++
T Consensus 48 i~v~k~kd~~~~e~Vk~~l~~r~----------~~q~~~f~~Y~p~q~~-~l~~a~v~~~G~yv~~v 103 (106)
T PF14270_consen 48 IAVFKAKDGKQAEDVKKALEKRL----------ESQKKSFEGYLPEQYE-LLENAKVKTKGNYVFFV 103 (106)
T ss_pred EEEEEECCcCcHHHHHHHHHHHH----------HHHHHHHhccCHHHHH-HHhcCEEEeeCCEEEEE
Confidence 4445555555 889999987421 1234458889999995 55788888999998775
No 33
>PRK10678 moaE molybdopterin guanine dinucleotide biosynthesis protein MoaE; Provisional
Probab=30.70 E-value=1.1e+02 Score=23.21 Aligned_cols=39 Identities=18% Similarity=0.066 Sum_probs=31.3
Q ss_pred eeeEEEeeCCCEEEEEEecCCCHHHHHHHHHh----ccccCCC
Q 033433 22 QGTCARVAIGQVLLSVRCKDSNSHHAQEALRR----AKFKFPG 60 (119)
Q Consensus 22 ~G~vARV~~GqvI~sir~~~~~~~~a~EALrr----Ak~KlPg 60 (119)
.+.+-+|.+|+.++-|-+-..|...|-+|++- -|...|.
T Consensus 82 ~HR~G~l~~Ge~~v~Vav~s~HR~~Af~A~~~~id~lK~~vPI 124 (150)
T PRK10678 82 IHRVGELWPGDEIVFVGVTSAHRSSAFEAGQFIMDYLKTRAPF 124 (150)
T ss_pred EEeEecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhcCCe
Confidence 46677899999999999988899999888654 3666665
No 34
>PRK13605 endoribonuclease SymE; Provisional
Probab=28.48 E-value=80 Score=23.39 Aligned_cols=37 Identities=22% Similarity=0.318 Sum_probs=28.6
Q ss_pred eEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCc
Q 033433 24 TCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGR 61 (119)
Q Consensus 24 ~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~ 61 (119)
.-.+|..|++|++..........-.+.|+.++ ||..+
T Consensus 58 V~V~V~~G~LVIt~~~~~~~~~el~~~l~~v~-~~s~~ 94 (113)
T PRK13605 58 VDVRVMEGCIVLTAQPPAAEESELMQSLRQVC-KLSAR 94 (113)
T ss_pred EEEEEeCCEEEEEeCCCCcccHHHHHHHHHHH-HhhhH
Confidence 45689999999999775444677888999988 77653
No 35
>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=28.23 E-value=56 Score=21.90 Aligned_cols=15 Identities=33% Similarity=0.534 Sum_probs=13.7
Q ss_pred EeeCCCEEEEEEecC
Q 033433 27 RVAIGQVLLSVRCKD 41 (119)
Q Consensus 27 RV~~GqvI~sir~~~ 41 (119)
+|.+|++|+++++..
T Consensus 56 ~v~~g~~i~~i~G~a 70 (88)
T PF02749_consen 56 RVEPGDVILEIEGPA 70 (88)
T ss_dssp EEETTCEEEEEEEEH
T ss_pred CccCCcEEEEEEeCH
Confidence 899999999999973
No 36
>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=27.75 E-value=60 Score=23.19 Aligned_cols=30 Identities=30% Similarity=0.356 Sum_probs=21.3
Q ss_pred EeeCCCEEEEEEecCCCHHHHHHHHHhcccc
Q 033433 27 RVAIGQVLLSVRCKDSNSHHAQEALRRAKFK 57 (119)
Q Consensus 27 RV~~GqvI~sir~~~~~~~~a~EALrrAk~K 57 (119)
++++|++++-|.+.- +-+.++||++.|+-+
T Consensus 100 ~~~~gDvli~iS~SG-~s~~vi~a~~~Ak~~ 129 (138)
T PF13580_consen 100 DIRPGDVLIVISNSG-NSPNVIEAAEEAKER 129 (138)
T ss_dssp T--TT-EEEEEESSS--SHHHHHHHHHHHHT
T ss_pred CCCCCCEEEEECCCC-CCHHHHHHHHHHHHC
Confidence 379999999998754 568889999998765
No 37
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=27.51 E-value=1.5e+02 Score=18.10 Aligned_cols=25 Identities=28% Similarity=0.385 Sum_probs=18.8
Q ss_pred CEEEEEEecCCCHHHHHHHHHhccccC
Q 033433 32 QVLLSVRCKDSNSHHAQEALRRAKFKF 58 (119)
Q Consensus 32 qvI~sir~~~~~~~~a~EALrrAk~Kl 58 (119)
+.++.+.+. +.+.|.++|+.++|++
T Consensus 40 ~~~~rl~~~--~~~~~~~~L~~~G~~v 64 (66)
T cd04908 40 FGILRLIVS--DPDKAKEALKEAGFAV 64 (66)
T ss_pred CCEEEEEEC--CHHHHHHHHHHCCCEE
Confidence 567777773 5679999999888763
No 38
>PF04166 PdxA: Pyridoxal phosphate biosynthetic protein PdxA; InterPro: IPR005255 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents 4-hydroxythreonine-4-phosphate dehydrogenase (PdxA, 1.1.1.262 from EC). PdxA takes part in vitamin B6 biosynthesis, forming pyridoxine 5'-phosphate from 4-(phosphohydroxy)-L-threonine and 1-deoxy-D-xylulose-5-phosphate.; GO: 0050570 4-hydroxythreonine-4-phosphate dehydrogenase activity, 0051287 NAD binding, 0008615 pyridoxine biosynthetic process, 0055114 oxidation-reduction process; PDB: 1YXO_A 1PS6_A 1PS7_C 1PTM_B 1R8K_B 2HI1_A 3LXY_A 3TSN_B.
Probab=27.45 E-value=41 Score=28.22 Aligned_cols=52 Identities=25% Similarity=0.288 Sum_probs=27.7
Q ss_pred HHHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhcCeEecCcceEEEeCCCCCCCC
Q 033433 45 HHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPLAQ 107 (119)
Q Consensus 45 ~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~~~l~~dG~~vk~~~~~Gpl~~ 107 (119)
..-|+||..|+++|||++.+. .+.+..-..---|+.++-.|-....|=||.+
T Consensus 96 PinK~a~~~aG~~~~GhTe~l-----------a~~~g~~~~~mml~~~~lrv~~vT~HipL~~ 147 (298)
T PF04166_consen 96 PINKEALKLAGFPFPGHTEYL-----------AELTGTKDVLMMLVSGKLRVALVTTHIPLKD 147 (298)
T ss_dssp ---HHHHHHTT---SSHHHHH-----------HHHTT-S--EEEEEETTEEEEESS-SS-GGG
T ss_pred CcCHHHHHhCCCCCCChHHHH-----------HHHhCCCCeEEEEEcCCcEEEEeccCccHHH
Confidence 355788999999999976653 2222211111234677788999999999875
No 39
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=26.04 E-value=71 Score=25.34 Aligned_cols=28 Identities=32% Similarity=0.421 Sum_probs=24.5
Q ss_pred eCCCEEEEEEecCCCHHHHHHHHHhcccc
Q 033433 29 AIGQVLLSVRCKDSNSHHAQEALRRAKFK 57 (119)
Q Consensus 29 ~~GqvI~sir~~~~~~~~a~EALrrAk~K 57 (119)
++|+|++=|.+.. |.+.+.+|+..|+.|
T Consensus 108 ~~GDvLigISTSG-NS~nVl~Ai~~Ak~~ 135 (176)
T COG0279 108 QPGDVLIGISTSG-NSKNVLKAIEAAKEK 135 (176)
T ss_pred CCCCEEEEEeCCC-CCHHHHHHHHHHHHc
Confidence 5699999999965 889999999999875
No 40
>COG0347 GlnK Nitrogen regulatory protein PII [Amino acid transport and metabolism]
Probab=25.93 E-value=1.3e+02 Score=22.15 Aligned_cols=38 Identities=26% Similarity=0.306 Sum_probs=31.0
Q ss_pred CCEEEEEEecCCCHHHHHHHHHhccc-cCCCceEEEEeC
Q 033433 31 GQVLLSVRCKDSNSHHAQEALRRAKF-KFPGRQKIIVSR 68 (119)
Q Consensus 31 GqvI~sir~~~~~~~~a~EALrrAk~-KlPg~qkIvis~ 68 (119)
-++.++|-..+++.+.+.||+..+.. .=+|--||+++.
T Consensus 57 pK~~ieIvV~de~ve~vie~I~~~a~tG~~GDGkIFV~~ 95 (112)
T COG0347 57 PKVKIEIVVSDEDVDEVIEAIKKAARTGKIGDGKIFVSP 95 (112)
T ss_pred cceEEEEEEChHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Confidence 35677888888899999999998877 678888888774
No 41
>COG1208 GCD1 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure and biogenesis]
Probab=25.82 E-value=1.8e+02 Score=24.28 Aligned_cols=64 Identities=19% Similarity=0.171 Sum_probs=48.8
Q ss_pred CCCEEEEEEecCCCHHHHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhcCeEecCcceEEEeCCCCCCC
Q 033433 30 IGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPLA 106 (119)
Q Consensus 30 ~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~~~l~~dG~~vk~~~~~Gpl~ 106 (119)
.=+.|+.|-+++ -.+++.++|+.+++ ..|++. +.|..++.++...++ ...|..+.|+.+..||-
T Consensus 22 ~PKPllpI~gkP-ii~~~l~~L~~~Gv-----~eivi~-----~~y~~~~i~~~~~d~--~~~~~~I~y~~e~~~lG 85 (358)
T COG1208 22 RPKPLLPIAGKP-LIEYVLEALAAAGV-----EEIVLV-----VGYLGEQIEEYFGDG--EGLGVRITYVVEKEPLG 85 (358)
T ss_pred CCcccceeCCcc-HHHHHHHHHHHCCC-----cEEEEE-----eccchHHHHHHHhcc--cccCCceEEEecCCcCc
Confidence 346788888775 68999999999776 566665 567778787777776 44578899998888775
No 42
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=25.62 E-value=1.4e+02 Score=22.04 Aligned_cols=59 Identities=12% Similarity=0.058 Sum_probs=34.2
Q ss_pred EEEEEEecCCCHHHHHHHHHhccccCCCceEEEEe-----------CccccccccHHHHHhhhhcCeEecCcc
Q 033433 33 VLLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVS-----------RKWGFTKFSRADYLRWKSENRIVPDGV 94 (119)
Q Consensus 33 vI~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis-----------~kwGFT~~~~~e~~~~~~~~~l~~dG~ 94 (119)
+|+-+...-..+....+.|..- +|.....+++ .+.-|.-.++++|+++.++|.++..+.
T Consensus 4 ~ivl~Gpsg~GK~tl~~~L~~~---~~~~~~~~~~~TtR~~r~~e~~g~dy~fvs~~ef~~~i~~g~fve~~~ 73 (184)
T smart00072 4 PIVLSGPSGVGKGTLLAELIQE---IPDAFERVVSHTTRPPRPGEVNGVDYHFVSREEFEDDIKSGLFLEWGE 73 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHhc---CCcceEeeeeecCCCCCCCCcCCceEEECCHHHHHHHHHcCCeEEEEE
Confidence 3333333333567777777544 2433333332 122233368999999999999987654
No 43
>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins. Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i
Probab=25.42 E-value=49 Score=22.84 Aligned_cols=28 Identities=29% Similarity=0.637 Sum_probs=19.6
Q ss_pred CccccccccHHHHHhhhhcCeEec--CcceEE
Q 033433 68 RKWGFTKFSRADYLRWKSENRIVP--DGVNAK 97 (119)
Q Consensus 68 ~kwGFT~~~~~e~~~~~~~~~l~~--dG~~vk 97 (119)
..|||.+|-+-+ +|.++|.|.. |-..++
T Consensus 97 ~~wG~~~Fi~~~--~L~~~gfl~~~~D~l~i~ 126 (132)
T cd03773 97 ECWGYNRFFRLD--LLINEGYLLPENDTLILR 126 (132)
T ss_pred CCcCHHHhccHH--HHhhCCCcCCCCCEEEEE
Confidence 569999987643 3556888887 754444
No 44
>PF03166 MH2: MH2 domain; InterPro: IPR001132 Mammalian dwarfins are phosphorylated in response to transforming growth factor beta and are implicated in control of cell growth []. The dwarfin family also includes the Drosophila protein MAD that is required for the function of decapentaplegic (DPP) and may play a role in DPP signalling. Drosophila Mad binds to DNA and directly mediates activation of vestigial by Dpp []. This domain is also found in nuclear factor I (NF-I) or CCAAT box-binding transcription factor (CTF). This entry represents the SMAD (Mothers against decapentaplegic (MAD) homologue) (also called MH2 for MAD homology 2) domain found at the carboxy terminus of MAD related proteins such as Smads. This domain is separated from the MH1 domain by a non-conserved linker region. The MH2 domain mediates interaction with a wide variety of proteins and provides specificity and selectivity to Smad function and also is critical for mediating interactions in Smad oligomers. Unlike MH1, MH2 does not bind DNA. The well-studied MH2 domain of Smad4 is composed of five alpha helices and three loops enclosing a beta sandwich. Smads are involved in the propagation of TGF-beta signals by direct association with the TGF-beta receptor kinase which phosphorylates the last two Ser of a conserved 'SSXS' motif located at the C terminus of MH2 [, , ].; GO: 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1MK2_A 1U7F_A 1MJS_A 1KHU_A 1DD1_C 1G88_A 1U7V_B 1MR1_B 1YGS_A 3DIT_B ....
Probab=25.26 E-value=1e+02 Score=23.50 Aligned_cols=53 Identities=26% Similarity=0.347 Sum_probs=27.9
Q ss_pred CceeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhc----------cccCCCceEEEEe--CccccccccHH
Q 033433 20 KPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRA----------KFKFPGRQKIIVS--RKWGFTKFSRA 78 (119)
Q Consensus 20 KP~G~vARV~~GqvI~sir~~~~~~~~a~EALrrA----------k~KlPg~qkIvis--~kwGFT~~~~~ 78 (119)
.+.++|-+|.+|..| .|.. .+...+.|+++ -..|--.+-|.|| |.|| -.|.|.
T Consensus 101 ~~~~~V~Kv~pg~~~-kvFd----~~~f~~~l~~~~~~~~~~~~~~~~l~~~c~iriSFvKGWG-~~Y~R~ 165 (181)
T PF03166_consen 101 FHPGTVCKVPPGYSL-KVFD----MEKFAQLLRQAVRRGYEAEEDVDELRKMCTIRISFVKGWG-PEYRRQ 165 (181)
T ss_dssp STTTSEEEE-TT-EE-EEEE----HHHHHHHHHHHHTTHHHHTTTHHGGGGGGEEEEEESSB-S-TTSSSS
T ss_pred cCCCCcEEeCCCcee-eccC----HHHHHHHHHhhhccccccccchhhhhhcceEEEEEEcccC-Cccccc
Confidence 455589999999543 3322 34444444443 2344456666666 8999 455443
No 45
>PRK06078 pyrimidine-nucleoside phosphorylase; Reviewed
Probab=24.63 E-value=79 Score=28.00 Aligned_cols=28 Identities=14% Similarity=0.266 Sum_probs=21.7
Q ss_pred EeeCCCEEEEEEecCCCHHHHHHHHHhc
Q 033433 27 RVAIGQVLLSVRCKDSNSHHAQEALRRA 54 (119)
Q Consensus 27 RV~~GqvI~sir~~~~~~~~a~EALrrA 54 (119)
+|+.|++|+.|....+..+.+.+.|+.|
T Consensus 387 ~V~~g~~l~~i~~~~~~~~~~~~~~~~a 414 (434)
T PRK06078 387 SVKKGESLATIYANRENVEDVKAKFYKN 414 (434)
T ss_pred EeCCCCeEEEEeCChHHHHHHHHHHHhh
Confidence 8999999999996555566666666665
No 46
>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A.
Probab=24.29 E-value=1.2e+02 Score=20.76 Aligned_cols=50 Identities=24% Similarity=0.301 Sum_probs=33.9
Q ss_pred CHHHHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhcCeEecCc
Q 033433 43 NSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPDG 93 (119)
Q Consensus 43 ~~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~~~l~~dG 93 (119)
+.+.+.+.++.++-+++ ...++.+....+..+...++.++..+-.+.-||
T Consensus 68 ~~~~l~~i~~~~k~~~~-~~~~~~tng~~~~~~~~~~~~~~~~~~~vsvd~ 117 (139)
T PF13353_consen 68 NYDELLEILKYIKEKFP-KKIIILTNGYTLDELLDELIEELLDEIDVSVDG 117 (139)
T ss_dssp SHHHHHHHHHHHHHTT--SEEEEEETT--HHHHHHHHHHHHHHTESEEEE-
T ss_pred cHhHHHHHHHHHHHhCC-CCeEEEECCCchhHHHhHHHHhccCccEEEEEE
Confidence 57899999999999999 667788888888777665566666554444443
No 47
>PF15380 DUF4607: Domain of unknown function (DUF4607)
Probab=23.14 E-value=43 Score=27.94 Aligned_cols=28 Identities=36% Similarity=0.478 Sum_probs=21.9
Q ss_pred Cccccccch---hccccCCCCCCceeeEEEe
Q 033433 1 MLSCAGADR---LQTGMRGAFGKPQGTCARV 28 (119)
Q Consensus 1 mls~AGADR---lq~GMr~afGKP~G~vARV 28 (119)
|++-|||-- +|++.+++-|+|.|..|+-
T Consensus 154 ~aa~ag~~a~pD~qs~llga~GnpvgrgaVA 184 (265)
T PF15380_consen 154 MAAPAGSPAHPDVQSRLLGASGNPVGRGAVA 184 (265)
T ss_pred ccccCCCcCCccccccccccccCccccceee
Confidence 455566653 8999999999999987754
No 48
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=22.60 E-value=84 Score=24.07 Aligned_cols=49 Identities=20% Similarity=0.066 Sum_probs=29.9
Q ss_pred ceeeEEEeeCCCEEEEEEec----CCC---HHHHHHHHHhccccCCCceEEEEeCc
Q 033433 21 PQGTCARVAIGQVLLSVRCK----DSN---SHHAQEALRRAKFKFPGRQKIIVSRK 69 (119)
Q Consensus 21 P~G~vARV~~GqvI~sir~~----~~~---~~~a~EALrrAk~KlPg~qkIvis~k 69 (119)
|-||++.+.-|+-=.++.+. ..| ...+++||+.++-.=|....|..-.+
T Consensus 18 ~gG~g~vl~~~~~~~~~s~~~~~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~ 73 (154)
T COG0328 18 PGGWGAVLRYGDGEKELSGGEGRTTNNRAELRALIEALEALKELGACEVTLYTDSK 73 (154)
T ss_pred CceEEEEEEcCCceEEEeeeeecccChHHHHHHHHHHHHHHHhcCCceEEEEecHH
Confidence 88999999855443332221 122 36789999999874455555544443
No 49
>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 2". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.
Probab=22.18 E-value=1.8e+02 Score=17.92 Aligned_cols=21 Identities=19% Similarity=0.123 Sum_probs=16.2
Q ss_pred HHHHHhhhhcCeEecCcceEE
Q 033433 77 RADYLRWKSENRIVPDGVNAK 97 (119)
Q Consensus 77 ~~e~~~~~~~~~l~~dG~~vk 97 (119)
..=.+.+.++|.|+.+|..|.
T Consensus 38 ~~ll~~l~~~g~l~~~g~~v~ 58 (59)
T PF09106_consen 38 NALLEALVAEGRLKVEGDWVR 58 (59)
T ss_dssp HHHHHHHHHTTSEEEESSEEE
T ss_pred HHHHHHHHHCCCeeeECCEee
Confidence 334567889999999998775
No 50
>PRK14424 acylphosphatase; Provisional
Probab=22.12 E-value=2.6e+02 Score=19.38 Aligned_cols=39 Identities=18% Similarity=0.188 Sum_probs=29.1
Q ss_pred eeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhccccCCCceEE
Q 033433 22 QGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKI 64 (119)
Q Consensus 22 ~G~vARV~~GqvI~sir~~~~~~~~a~EALrrAk~KlPg~qkI 64 (119)
.|||.-..-|+|-+.+.+.++..+.-+++|+ .-|...+|
T Consensus 36 ~G~V~N~~dG~Vei~~qG~~~~v~~f~~~l~----~gp~~a~V 74 (94)
T PRK14424 36 RGWVANLEDGTVEAMIQGPAAQIDRMLAWLR----HGPPAARV 74 (94)
T ss_pred eEEEEECCCCCEEEEEEECHHHHHHHHHHHH----hCCCCcEE
Confidence 6899999999999999997665666666665 34555444
No 51
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=21.71 E-value=75 Score=26.99 Aligned_cols=63 Identities=32% Similarity=0.418 Sum_probs=43.9
Q ss_pred EEEEEecCCCHHHHHHHHHhccccCCCceEEEEe--------Ccccccccc-HHHHHhhhhcCeEecCcceEEEeC
Q 033433 34 LLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVS--------RKWGFTKFS-RADYLRWKSENRIVPDGVNAKLLG 100 (119)
Q Consensus 34 I~sir~~~~~~~~a~EALrrAk~KlPg~qkIvis--------~kwGFT~~~-~~e~~~~~~~~~l~~dG~~vk~~~ 100 (119)
=|.|+|-+-.-|+-.|-|-||-.|||..++--++ +.+||-+|. ..+|..-..| .||.+|---+
T Consensus 190 DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmre----m~gkyVgsrp 261 (290)
T KOG0226|consen 190 DFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMRE----MNGKYVGSRP 261 (290)
T ss_pred cceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHh----hcccccccch
Confidence 4667776544467788899999999999865443 489998875 4667666655 4676664333
No 52
>TIGR02643 T_phosphoryl thymidine phosphorylase. Thymidine phosphorylase (alternate name: pyrimidine phosphorylase), EC 2.4.2.4, is the designation for the enzyme of E. coli and other Proteobacteria involved in (deoxy)nucleotide degradation. It often occurs in an operon with a deoxyribose-phosphate aldolase, phosphopentomutase and a purine nucleoside phosphorylase. In many other lineages, the corresponding enzyme is designated pyrimidine-nucleoside phosphorylase (EC 2.4.2.2); the naming convention imposed by this model represents standard literature practice.
Probab=21.63 E-value=88 Score=27.80 Aligned_cols=28 Identities=29% Similarity=0.436 Sum_probs=21.0
Q ss_pred EeeCCCEEEEEEec-CCCHHHHHHHHHhc
Q 033433 27 RVAIGQVLLSVRCK-DSNSHHAQEALRRA 54 (119)
Q Consensus 27 RV~~GqvI~sir~~-~~~~~~a~EALrrA 54 (119)
+|+.|++|+.|... +...+.|.|.++.|
T Consensus 391 ~V~~Gd~l~~i~~~~~~~~~~a~~~~~~a 419 (437)
T TIGR02643 391 RVEKGEPLAVVHAADESDAEEAAKRVKAA 419 (437)
T ss_pred EeCCCCeEEEEECCCHHHHHHHHHHHHhh
Confidence 78999999999954 33456777766665
No 53
>COG2153 ElaA Predicted acyltransferase [General function prediction only]
Probab=21.53 E-value=89 Score=24.34 Aligned_cols=53 Identities=26% Similarity=0.566 Sum_probs=38.1
Q ss_pred EeeCCCEEEE--EEecCCCHHHHHHHHHhccccCCCceEEEEeC---------ccccccccHHHHH
Q 033433 27 RVAIGQVLLS--VRCKDSNSHHAQEALRRAKFKFPGRQKIIVSR---------KWGFTKFSRADYL 81 (119)
Q Consensus 27 RV~~GqvI~s--ir~~~~~~~~a~EALrrAk~KlPg~qkIvis~---------kwGFT~~~~~e~~ 81 (119)
.|.+|+|+.+ .|+..-..+...+||+.|..-+|.+ -+.++- .+||++.+ |+|.
T Consensus 76 ~~~iGRV~v~~~~RG~glG~~Lm~~AL~~~~~~~p~~-~v~l~AQahLq~fYa~~GFv~~~-e~yl 139 (155)
T COG2153 76 EVSIGRVIVSPAARGQGLGQQLMEKALETAGREWPDK-PVYLGAQAHLQDFYASFGFVRVG-EEYL 139 (155)
T ss_pred ceeeeeEEECHhhhccchhHHHHHHHHHHHHhhCCCC-CeEEehHHHHHHHHHHhCcEEcC-chhh
Confidence 4678998886 4555444578889999999999954 455552 78998887 4454
No 54
>PF00825 Ribonuclease_P: Ribonuclease P; InterPro: IPR000100 Ribonuclease P (3.1.26.5 from EC) (RNase P) [, , ] is a site specific endonuclease that generates mature tRNAs by catalysing the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. In bacteria RNase P is known to be composed of two components: a large RNA (about 400 base pairs) encoded by rnpB, and a small protein (119 to 133 amino acids) encoded by rnpA. The RNA moiety of RNase P carries the catalytic activity; the protein component plays an auxiliary, but essential, role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. The sequence of rnpA is not highly conserved, however there is, in the central part of the protein, a conserved basic region.; GO: 0000049 tRNA binding, 0004526 ribonuclease P activity, 0008033 tRNA processing; PDB: 1D6T_A 1A6F_A 2LJP_A 1NZ0_C 3Q1Q_A 3Q1R_A.
Probab=21.44 E-value=1.9e+02 Score=19.95 Aligned_cols=50 Identities=24% Similarity=0.218 Sum_probs=31.6
Q ss_pred CEEEEEEecCCC--------HHHHHHHHHhccccCCCceEEEEeCccccccccHHHHH
Q 033433 32 QVLLSVRCKDSN--------SHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYL 81 (119)
Q Consensus 32 qvI~sir~~~~~--------~~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~ 81 (119)
++-++|.-+-.+ +-..+||+|.....+|...-|++.-+-|+...+-++.+
T Consensus 43 r~g~~vsKK~gk~AV~RNriKR~lRe~~R~~~~~l~~~~d~v~~~r~~~~~~~~~~l~ 100 (111)
T PF00825_consen 43 RVGFSVSKKVGKRAVKRNRIKRRLREAFRLNKPELPPGYDIVFIARPGALELSFEELE 100 (111)
T ss_dssp EEEEEE-STTSS-HHHHHHHHHHHHHHHHHCTTTS-SSSEEEEEE-CGGGGS-HHHHH
T ss_pred EEEEEecCccccchhHHHHHHHHHHHHHHHHHhhccCCcEEEEEEcCCcCcCCHHHHH
Confidence 566666555444 23567999999999997777777766777666655444
No 55
>PRK05820 deoA thymidine phosphorylase; Reviewed
Probab=20.94 E-value=96 Score=27.52 Aligned_cols=28 Identities=32% Similarity=0.457 Sum_probs=20.8
Q ss_pred EeeCCCEEEEEEecCC-CHHHHHHHHHhc
Q 033433 27 RVAIGQVLLSVRCKDS-NSHHAQEALRRA 54 (119)
Q Consensus 27 RV~~GqvI~sir~~~~-~~~~a~EALrrA 54 (119)
+|+.|++|++|...++ ..+.+.+.|+.|
T Consensus 392 ~V~~Gd~l~~i~~~~~~~~~~a~~~~~~a 420 (440)
T PRK05820 392 RVDAGEPLATLHADDEERFQEAAAALKAA 420 (440)
T ss_pred EECCCCeEEEEeCCCHHHHHHHHHHHHhc
Confidence 7899999999996533 346777766665
No 56
>PRK03946 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=20.92 E-value=59 Score=27.54 Aligned_cols=50 Identities=16% Similarity=0.269 Sum_probs=31.7
Q ss_pred HHHHHHHhccccCCCceEEEEeCccccccccHHHHHhhhhcCeEecCcceEEEeCCCCCCCC
Q 033433 46 HAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPLAQ 107 (119)
Q Consensus 46 ~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~~~~~~~~~l~~dG~~vk~~~~~Gpl~~ 107 (119)
.-|++|..|.++|||++.+. .+.+.. ..---+..++-.|-....|=||.+
T Consensus 105 inK~~l~~aG~~~~GhTe~l-----------a~~~g~-~~~mml~~~~LrV~~vT~HipL~~ 154 (307)
T PRK03946 105 INKKAWQKAGIPYKGHTDAL-----------RDRFKK-EAIMMLGCEELFVALFTDHIPLKK 154 (307)
T ss_pred cCHHHHHhCCCCCCCHHHHH-----------HHHHCC-CeEEEEecCCeEEEEecccccHHH
Confidence 34778888999999876654 222211 111123456678888899988864
No 57
>PRK14439 acylphosphatase; Provisional
Probab=20.69 E-value=1.2e+02 Score=23.65 Aligned_cols=46 Identities=13% Similarity=-0.020 Sum_probs=33.4
Q ss_pred HHhccccCCCceEEEEe---CccccccccHHHHHhhhhcCeEecCcce-EE
Q 033433 51 LRRAKFKFPGRQKIIVS---RKWGFTKFSRADYLRWKSENRIVPDGVN-AK 97 (119)
Q Consensus 51 LrrAk~KlPg~qkIvis---~kwGFT~~~~~e~~~~~~~~~l~~dG~~-vk 97 (119)
+|||.++- .+.+|.|+ .++||..|....=.++-=.|++.+...+ |.
T Consensus 67 ~~~~~M~~-~r~~i~VsGrVQGVGFR~fv~~~A~qlGLtGwVrNl~DGsVE 116 (163)
T PRK14439 67 IRRAAMSK-VCIIAWVYGRVQGVGFRYTTQYEAKKLGLTGYAKNLDDGSVE 116 (163)
T ss_pred HHHHHhhh-eeEEEEEEEeeCCcCchHHHHHHHHHhCCEEEEEECCCCCEE
Confidence 56777752 55677777 5899999998888887777888764444 44
No 58
>COG0594 RnpA RNase P protein component [Translation, ribosomal structure and biogenesis]
Probab=20.68 E-value=2e+02 Score=20.54 Aligned_cols=35 Identities=23% Similarity=0.432 Sum_probs=22.8
Q ss_pred HHHHHHHHhccccCCCceEEEEeCccccccccHHHH
Q 033433 45 HHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADY 80 (119)
Q Consensus 45 ~~a~EALrrAk~KlPg~qkIvis~kwGFT~~~~~e~ 80 (119)
-..+|++|.+...+|+..-|+| -+-||...+-.|.
T Consensus 63 R~iRe~~r~~~~~~~~~d~Vii-ar~~~~~~~~~~l 97 (117)
T COG0594 63 RLIREAFRLLQHLLPGFDIVII-ARKGFLELDFSEL 97 (117)
T ss_pred HHHHHHHHhhhhhCCCceEEEE-ECCCCCCCCHHHH
Confidence 3567899998888888655544 4446655555543
No 59
>COG0314 MoaE Molybdopterin converting factor, large subunit [Coenzyme metabolism]
Probab=20.46 E-value=1.7e+02 Score=22.20 Aligned_cols=39 Identities=21% Similarity=0.232 Sum_probs=30.8
Q ss_pred eeeEEEeeCCCEEEEEEecCCCHHHHHHHHHhc----cccCCC
Q 033433 22 QGTCARVAIGQVLLSVRCKDSNSHHAQEALRRA----KFKFPG 60 (119)
Q Consensus 22 ~G~vARV~~GqvI~sir~~~~~~~~a~EALrrA----k~KlPg 60 (119)
.+..-++.||+.++-|-+-..|...|-||++-+ |...|.
T Consensus 82 ~HriG~l~~Ge~~v~v~v~s~HR~~Af~a~~~~id~lK~~aPi 124 (149)
T COG0314 82 IHRIGELKIGEAIVLVGVASAHRKEAFEACEYIIDRLKHRAPI 124 (149)
T ss_pred EEeeccccCCCcEEEEEEecccHHHHHHHHHHHHHHHHhhCCc
Confidence 355667899999999999888999998888755 555555
No 60
>PF09857 DUF2084: Uncharacterized protein conserved in bacteria (DUF2084); InterPro: IPR018654 This domain is found in various hypothetical bacterial proteins that have no known function.
Probab=20.29 E-value=78 Score=22.42 Aligned_cols=39 Identities=13% Similarity=0.174 Sum_probs=30.4
Q ss_pred EEeCccccccccHHHHHhhhhcCeEecCcceEEEeCCCC
Q 033433 65 IVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHG 103 (119)
Q Consensus 65 vis~kwGFT~~~~~e~~~~~~~~~l~~dG~~vk~~~~~G 103 (119)
+..+.|-++.++-+-|.+|+..+-|-+.+-+-.-|+..|
T Consensus 36 ~TReG~~l~dctl~vF~kLK~krlI~S~~g~PYrIt~~G 74 (85)
T PF09857_consen 36 YTREGWLLSDCTLAVFRKLKRKRLIASKNGGPYRITRLG 74 (85)
T ss_pred EccCCeeeCCCCHHHHHHHhhccceeccCCCCeEEcHHH
Confidence 445799999999999999999887777766555555544
Done!