Query 043998
Match_columns 101
No_of_seqs 103 out of 317
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 10:26:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043998.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043998hhsearch_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 6.8E-34 1.5E-38 220.4 7.7 85 14-99 109-193 (213)
2 KOG0857 60s ribosomal protein 100.0 1.2E-33 2.7E-38 218.8 6.9 86 13-99 109-194 (212)
3 TIGR00279 L10e ribosomal prote 99.8 1.6E-21 3.5E-26 147.4 6.0 64 15-79 107-170 (172)
4 PRK04199 rpl10e 50S ribosomal 99.8 4.9E-20 1.1E-24 139.3 5.6 63 15-78 107-169 (172)
5 COG0197 RplP Ribosomal protein 99.6 2.9E-16 6.2E-21 116.5 3.9 59 15-81 85-145 (146)
6 cd01433 Ribosomal_L16_L10e Rib 99.5 6.5E-14 1.4E-18 97.4 4.5 57 14-72 56-112 (112)
7 PRK09203 rplP 50S ribosomal pr 99.4 3.4E-13 7.3E-18 98.1 5.2 59 13-74 76-134 (138)
8 TIGR01164 rplP_bact ribosomal 99.1 4.4E-11 9.4E-16 85.9 4.0 51 14-67 76-126 (126)
9 CHL00044 rpl16 ribosomal prote 99.1 1.6E-10 3.4E-15 84.1 4.5 53 19-74 82-134 (135)
10 PF00252 Ribosomal_L16: Riboso 98.8 3.2E-09 6.9E-14 76.3 2.7 58 14-73 76-133 (133)
11 KOG3422 Mitochondrial ribosoma 97.3 0.00032 6.9E-09 55.6 4.5 48 25-74 129-176 (221)
12 PF07831 PYNP_C: Pyrimidine nu 93.0 0.23 4.9E-06 32.7 4.3 35 24-61 36-71 (75)
13 cd04906 ACT_ThrD-I_1 First of 73.2 4.2 9.1E-05 26.3 2.7 30 36-65 38-69 (85)
14 cd04883 ACT_AcuB C-terminal AC 70.4 8.6 0.00019 23.0 3.5 32 37-68 40-71 (72)
15 cd04885 ACT_ThrD-I Tandem C-te 68.0 7.6 0.00017 23.9 3.0 30 36-65 36-66 (68)
16 PF02391 MoaE: MoaE protein; 60.8 11 0.00025 26.2 3.1 51 10-61 55-109 (117)
17 cd04909 ACT_PDH-BS C-terminal 58.5 6.9 0.00015 23.5 1.5 27 38-65 43-69 (69)
18 cd00756 MoaE MoaE family. Memb 57.5 16 0.00035 26.0 3.4 50 10-60 47-100 (124)
19 cd04882 ACT_Bt0572_2 C-termina 54.7 22 0.00047 20.5 3.2 27 37-65 38-64 (65)
20 PRK06078 pyrimidine-nucleoside 50.7 18 0.00039 31.2 3.2 28 34-61 387-414 (434)
21 PRK06770 hypothetical protein; 48.4 9.2 0.0002 29.7 1.1 38 50-92 68-105 (180)
22 COG0347 GlnK Nitrogen regulato 46.0 44 0.00096 24.1 4.2 39 42-82 4-45 (112)
23 PRK05820 deoA thymidine phosph 44.9 21 0.00046 30.8 2.8 28 34-61 392-420 (440)
24 PRK13203 ureB urease subunit b 43.8 15 0.00032 26.3 1.4 20 19-41 58-77 (102)
25 PRK13202 ureB urease subunit b 43.5 15 0.00032 26.4 1.4 20 19-41 59-78 (104)
26 cd00407 Urease_beta Urease bet 43.0 15 0.00032 26.2 1.4 20 19-41 58-77 (101)
27 PLN02390 molybdopterin synthas 42.4 39 0.00085 23.8 3.4 50 10-60 36-89 (111)
28 PF13580 SIS_2: SIS domain; PD 42.3 12 0.00026 26.0 0.8 40 23-64 90-129 (138)
29 TIGR00192 urease_beta urease, 41.7 16 0.00036 26.0 1.4 21 18-41 57-77 (101)
30 TIGR02643 T_phosphoryl thymidi 41.5 25 0.00053 30.5 2.7 28 34-61 391-419 (437)
31 PF00543 P-II: Nitrogen regula 40.2 61 0.0013 21.5 4.0 37 39-75 55-92 (102)
32 cd00992 PDZ_signaling PDZ doma 39.5 40 0.00086 20.3 2.8 28 34-61 43-73 (82)
33 PF03460 NIR_SIR_ferr: Nitrite 39.4 43 0.00094 20.3 2.9 28 34-61 42-69 (69)
34 COG0832 UreB Urea amidohydrola 38.9 16 0.00035 26.3 1.0 24 14-40 53-76 (106)
35 PF00699 Urease_beta: Urease b 38.5 18 0.00038 25.8 1.2 22 19-43 57-78 (100)
36 PRK04350 thymidine phosphoryla 38.3 30 0.00065 30.4 2.8 28 34-61 450-478 (490)
37 TIGR02645 ARCH_P_rylase putati 38.2 28 0.00061 30.6 2.6 27 34-60 458-485 (493)
38 PRK10678 moaE molybdopterin gu 36.8 53 0.0011 24.4 3.5 52 15-67 65-124 (150)
39 PRK13201 ureB urease subunit b 36.1 22 0.00049 26.6 1.4 20 19-41 58-77 (136)
40 PRK13605 endoribonuclease SymE 36.0 35 0.00077 24.8 2.4 34 34-68 61-94 (113)
41 PF03166 MH2: MH2 domain; Int 36.0 27 0.00059 25.9 1.9 58 24-84 99-164 (181)
42 PF13533 Biotin_lipoyl_2: Biot 35.4 30 0.00066 20.5 1.7 15 34-48 23-37 (50)
43 COG0217 Uncharacterized conser 34.0 94 0.002 25.2 4.8 35 40-74 169-203 (241)
44 PF06819 Arc_PepC: Archaeal Pe 33.2 1.5E+02 0.0033 21.3 5.3 53 48-100 56-108 (110)
45 PRK13198 ureB urease subunit b 31.6 29 0.00062 26.6 1.4 21 18-41 85-105 (158)
46 cd04886 ACT_ThrD-II-like C-ter 31.1 56 0.0012 18.6 2.4 29 37-65 40-71 (73)
47 PRK06559 nicotinate-nucleotide 30.2 46 0.001 27.2 2.5 39 34-75 163-204 (290)
48 PF13840 ACT_7: ACT domain ; P 30.2 48 0.001 20.5 2.0 21 40-60 45-65 (65)
49 PRK01827 thyA thymidylate synt 30.0 80 0.0017 25.4 3.8 45 40-87 202-247 (264)
50 cd04908 ACT_Bt0572_1 N-termina 29.6 79 0.0017 18.9 2.9 25 39-65 40-64 (66)
51 PRK15052 D-tagatose-1,6-bispho 29.5 74 0.0016 27.7 3.7 48 41-93 16-70 (421)
52 PRK14493 putative bifunctional 29.1 73 0.0016 25.3 3.4 51 10-61 193-247 (274)
53 COG0213 DeoA Thymidine phospho 28.8 71 0.0015 28.0 3.5 33 26-61 383-416 (435)
54 PF11132 SplA: Transcriptional 28.8 41 0.00089 23.0 1.7 38 34-71 5-44 (75)
55 PRK13205 ureB urease subunit b 28.8 35 0.00076 26.3 1.4 21 19-42 58-78 (162)
56 cd01570 NAPRTase_A Nicotinate 28.7 1.8E+02 0.004 23.6 5.7 45 49-101 262-306 (327)
57 COG0347 GlnK Nitrogen regulato 28.4 1E+02 0.0022 22.3 3.7 37 39-75 58-95 (112)
58 PF10662 PduV-EutP: Ethanolami 28.3 1.2E+02 0.0027 22.2 4.2 68 9-92 73-142 (143)
59 COG0279 GmhA Phosphoheptose is 28.1 66 0.0014 25.1 2.9 36 36-74 108-143 (176)
60 PHA02517 putative transposase 28.0 1.5E+02 0.0033 22.3 4.9 51 47-100 147-199 (277)
61 TIGR00999 8a0102 Membrane Fusi 28.0 35 0.00075 25.2 1.3 15 34-48 3-17 (265)
62 TIGR03327 AMP_phos AMP phospho 27.4 54 0.0012 28.9 2.6 27 34-60 459-486 (500)
63 PRK13204 ureB urease subunit b 27.2 38 0.00083 26.0 1.4 21 18-41 80-100 (159)
64 PRK13192 bifunctional urease s 26.6 41 0.00088 26.8 1.5 20 21-41 163-186 (208)
65 COG0314 MoaE Molybdopterin con 25.7 87 0.0019 23.3 3.1 28 34-61 87-114 (149)
66 PF06897 DUF1269: Protein of u 25.6 98 0.0021 21.4 3.2 29 34-62 51-79 (102)
67 cd04907 ACT_ThrD-I_2 Second of 25.5 86 0.0019 20.5 2.7 29 36-64 39-67 (81)
68 COG0504 PyrG CTP synthase (UTP 25.1 69 0.0015 28.8 2.8 47 52-99 305-351 (533)
69 PRK06543 nicotinate-nucleotide 25.1 55 0.0012 26.6 2.1 38 34-74 155-199 (281)
70 PLN02303 urease 24.7 1.6E+02 0.0035 27.8 5.2 20 21-41 184-207 (837)
71 PRK13986 urease subunit alpha; 24.6 44 0.00096 26.9 1.4 20 21-41 159-182 (225)
72 PF11823 DUF3343: Protein of u 24.6 98 0.0021 19.4 2.8 24 42-65 43-66 (73)
73 PF00665 rve: Integrase core d 24.0 64 0.0014 20.5 1.9 48 40-87 37-87 (120)
74 PF02775 TPP_enzyme_C: Thiamin 23.2 91 0.002 21.5 2.7 29 44-73 125-153 (153)
75 cd04913 ACT_AKii-LysC-BS-like_ 23.2 61 0.0013 18.7 1.5 28 39-66 42-69 (75)
76 PF00825 Ribonuclease_P: Ribon 23.1 2.1E+02 0.0046 19.1 4.4 37 53-89 65-101 (111)
77 PF00479 G6PD_N: Glucose-6-pho 22.5 1.5E+02 0.0033 22.1 3.9 44 37-80 104-149 (183)
78 PLN02790 transketolase 22.4 2.6E+02 0.0056 24.9 5.8 50 44-93 204-268 (654)
79 COG0810 TonB Periplasmic prote 22.2 1.9E+02 0.0041 22.1 4.5 28 52-79 210-241 (244)
80 PRK10665 nitrogen regulatory p 21.8 1.8E+02 0.004 20.2 4.0 38 39-76 58-96 (112)
81 PTZ00488 Proteasome subunit be 21.7 1.9E+02 0.0041 22.5 4.4 43 51-93 192-237 (247)
82 PF13541 ChlI: Subunit ChlI of 21.6 82 0.0018 22.3 2.2 25 49-74 24-48 (121)
83 PF03992 ABM: Antibiotic biosy 21.3 1.8E+02 0.004 16.8 3.7 36 40-75 4-43 (78)
84 PF02749 QRPTase_N: Quinolinat 20.9 70 0.0015 20.9 1.6 29 24-55 49-77 (88)
85 PRK12311 rpsB 30S ribosomal pr 20.6 1.5E+02 0.0033 24.6 3.8 41 36-83 57-100 (326)
86 PRK08639 threonine dehydratase 20.6 90 0.002 25.9 2.5 30 36-65 376-406 (420)
87 PRK09243 nicotinate phosphorib 20.4 1.6E+02 0.0036 25.3 4.1 43 51-101 272-314 (464)
88 PF00976 ACTH_domain: Corticot 20.0 44 0.00094 20.3 0.4 9 23-31 8-16 (39)
No 1
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=100.00 E-value=6.8e-34 Score=220.42 Aligned_cols=85 Identities=33% Similarity=0.569 Sum_probs=83.2
Q ss_pred CcchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHHc
Q 043998 14 RPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSE 93 (101)
Q Consensus 14 ~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~e 93 (101)
.|||+|||++||||.|+|| ||++||+||+|+++++|.++|+|||++|++|||++|+|+++++||||+|+++||++|+++
T Consensus 109 drlq~gMr~gfGkp~g~vA-rVk~Gqiifei~~~~~~~~~AkeALrrA~~KlP~~~kIv~~~~wgft~~~~~~~~~~~~~ 187 (213)
T PTZ00173 109 DRLQTGMRGAFGKPNGTCA-RVRIGQILLSIRTKEAYVPQAIEALRRAKYKFPGRQKIVVSNKWGFTNYTREEYQKLRAE 187 (213)
T ss_pred chhhhhcccCCCCccEEEE-EECcCCEEEEEecccCCHHHHHHHHHHhcccCCCeEEEEEecccCccccCHHHHHHHHHC
Confidence 5799999999999999999 999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccccC
Q 043998 94 NRMSWS 99 (101)
Q Consensus 94 ~~l~~~ 99 (101)
|+|++.
T Consensus 188 ~~~~~~ 193 (213)
T PTZ00173 188 GKLIQD 193 (213)
T ss_pred CeEecC
Confidence 999874
No 2
>KOG0857 consensus 60s ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-33 Score=218.84 Aligned_cols=86 Identities=36% Similarity=0.523 Sum_probs=83.0
Q ss_pred cCcchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHH
Q 043998 13 QRPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKS 92 (101)
Q Consensus 13 ~~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~ 92 (101)
+--||.|||.|||||.|++| ||.+||+||||+++++|.+|++|||+||+|||||+|+|+||++||||+|+++||+.+..
T Consensus 109 ~~RLQtgmrga~gkp~G~va-rV~iGqvi~Svrtk~~nkeh~ieal~rak~kfpG~qki~vs~kwgftk~~~def~~~~~ 187 (212)
T KOG0857|consen 109 ADRLQTGMRGAFGKPQGTVA-RVHIGQVIMSVRTKLQNKEHVIEALRRAKFKFPGRQKIVVSKKWGFTKFDRDEFEDLRA 187 (212)
T ss_pred hhhhhhcccccccCccceEE-EEEcCceEEEeecCcccHHHHHHHHHhccccCCCceeEEeeeecCccccchhHHHHHHh
Confidence 44699999999999999999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccccC
Q 043998 93 ENRMSWS 99 (101)
Q Consensus 93 e~~l~~~ 99 (101)
++++++.
T Consensus 188 ~~~~~~~ 194 (212)
T KOG0857|consen 188 RKRLEPD 194 (212)
T ss_pred hcceecc
Confidence 9999763
No 3
>TIGR00279 L10e ribosomal protein L10.e. L10.e is distantly related to eubacterial ribosomal protein L16.
Probab=99.84 E-value=1.6e-21 Score=147.42 Aligned_cols=64 Identities=33% Similarity=0.472 Sum_probs=62.2
Q ss_pred cchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEecCCCc
Q 043998 15 PSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGF 79 (101)
Q Consensus 15 ~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is~k~GF 79 (101)
-||+|||++||+|.|.|| ||++||+||+|++.+++.++|+|||++|++|||.+++|+++++|+.
T Consensus 107 Rlq~GMr~gkG~p~~wvA-rVk~Gqiifei~~~~~~~~~AkeAlr~A~~KLP~~~kiv~~~~~~~ 170 (172)
T TIGR00279 107 RIQQGMRGAFGKPVGTAA-RVKIGQKIFSVWTKPSNFDVAKEALRRAAMKFPVPCKIVIEKGWEL 170 (172)
T ss_pred hhhcccccCCCCccEEEE-EECcCCEEEEEEeecCCHHHHHHHHHHHhccCCCcEEEEEecCccc
Confidence 489999999999999999 9999999999999999999999999999999999999999999985
No 4
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=99.80 E-value=4.9e-20 Score=139.27 Aligned_cols=63 Identities=24% Similarity=0.255 Sum_probs=60.1
Q ss_pred cchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEecCCC
Q 043998 15 PSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWG 78 (101)
Q Consensus 15 ~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is~k~G 78 (101)
-||+|||+|||+|.|.|| ||++||+||+|++..++.++|+|||++|++|||.+|+|+++++.+
T Consensus 107 Rmg~GMr~akG~p~~wva-~Vk~G~ilfei~~~~~~~~~akeAlr~a~~KLP~k~kiv~~~~~~ 169 (172)
T PRK04199 107 RVSDGMRLAFGKPVGTAA-RVEKGQKIFTVRVNPEHLEAAKEALRRAAMKLPTPCRIVVEKGKE 169 (172)
T ss_pred hhccCcccCCCCccEEEE-EECcCCEEEEEEecCCCHHHHHHHHHHhhccCCCcEEEEEecccc
Confidence 478999999999999999 999999999999999999999999999999999999999998754
No 5
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=99.62 E-value=2.9e-16 Score=116.48 Aligned_cols=59 Identities=25% Similarity=0.260 Sum_probs=53.2
Q ss_pred cchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCc--cEEEEecCCCccc
Q 043998 15 PSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVR--QKIIVSRKWGFTK 81 (101)
Q Consensus 15 ~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgr--qkI~is~k~GFT~ 81 (101)
-+++|| |+|.|+|| ||++||+||+|.+.+++. |+||||+|.+|||++ ++|.++. +.++.
T Consensus 85 Rmg~Gk----G~pegwaA-rVkpG~vlfei~g~~e~~--A~EAlr~Aa~KLP~~~~~v~~~~~-~~~~~ 145 (146)
T COG0197 85 RMGKGK----GKPEGWAA-RVKPGRVLFEIAGVPEEL--AREALRRAAAKLPVKTKFVIRIEK-REGTE 145 (146)
T ss_pred cccCCC----CCccEEEE-EecCCcEEEEEecCcHHH--HHHHHHHHhhcCCCceEEEEEEec-chhcc
Confidence 478999 99999999 999999999999999988 999999999999999 6667777 76653
No 6
>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=99.46 E-value=6.5e-14 Score=97.38 Aligned_cols=57 Identities=28% Similarity=0.391 Sum_probs=54.3
Q ss_pred CcchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEE
Q 043998 14 RPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKII 72 (101)
Q Consensus 14 ~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~ 72 (101)
.|++++|+..+|+|.+.+| ||++||+||++.+.++ .+.|++||++|++|||.+++|+
T Consensus 56 k~~~~rMGkGKG~~~~~~a-~v~~G~iifEi~~~~~-~~~~~~alk~a~~Klp~~~k~i 112 (112)
T cd01433 56 KPLETRMGKGKGKPEGWVA-RVKPGQILFEVRGVPE-EEVAKEALRRAAKKLPIKTKIV 112 (112)
T ss_pred CccccccCCCCCCccEEEE-EECCCCEEEEEeCcCc-HHHHHHHHHHhhccCCCcEEEC
Confidence 5789999999999999999 9999999999999987 9999999999999999999874
No 7
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=99.40 E-value=3.4e-13 Score=98.07 Aligned_cols=59 Identities=20% Similarity=0.295 Sum_probs=55.2
Q ss_pred cCcchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEe
Q 043998 13 QRPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 13 ~~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is 74 (101)
..|+...|..-||+|.+.|| ||++||+||++++ .+.++|+|||++|++|||++|+|++.
T Consensus 76 ~k~~~~RMGkGKG~~~~~va-rVk~G~iifEi~~--~~~~~a~~al~~a~~KLP~~~kii~~ 134 (138)
T PRK09203 76 KKPAEVRMGKGKGSPEYWVA-VVKPGRILFEIAG--VSEELAREALRLAAAKLPIKTKFVKR 134 (138)
T ss_pred cChhhccccCCCCCCcEEEE-EECCCCEEEEEeC--CCHHHHHHHHHHHhccCCCcEEEEEe
Confidence 35778899999999999999 9999999999999 78999999999999999999999875
No 8
>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=99.13 E-value=4.4e-11 Score=85.91 Aligned_cols=51 Identities=18% Similarity=0.197 Sum_probs=48.0
Q ss_pred CcchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCC
Q 043998 14 RPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPV 67 (101)
Q Consensus 14 ~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPg 67 (101)
.|+...|..-||+|.+.|| ||.+||+||++.+ .+.++|+|||++|++|||.
T Consensus 76 k~~~~RMGkGKG~~~~~va-rV~~G~ilfEi~~--~~~~~a~~al~~a~~KLP~ 126 (126)
T TIGR01164 76 KPLETRMGKGKGNPEYWVA-VVKPGKILFEIAG--VPEEVAREAFRLAASKLPI 126 (126)
T ss_pred CchhccccCCCCCCCEEEE-EECCCCEEEEEeC--CCHHHHHHHHHHHHhcCCC
Confidence 4777899999999999999 9999999999999 8899999999999999995
No 9
>CHL00044 rpl16 ribosomal protein L16
Probab=99.07 E-value=1.6e-10 Score=84.05 Aligned_cols=53 Identities=17% Similarity=0.241 Sum_probs=47.0
Q ss_pred HHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEe
Q 043998 19 QRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is 74 (101)
=|=.=+|+|.+.|| ||.+||+||++...++ +.|+|||++|++|||.+++|+..
T Consensus 82 RMGkGKG~~~~~va-~V~~G~ilfEi~g~~~--~~ak~al~~a~~KLP~k~~~v~~ 134 (135)
T CHL00044 82 RMGSGKGSPEYWVA-VVKPGRILYEMGGVSE--TIARAAIKIAAYKMPIKTQFIIS 134 (135)
T ss_pred cccCCCCCccEEEE-EECCCcEEEEEeCCCH--HHHHHHHHHHhhcCCCcEEEEec
Confidence 34444999999999 9999999999999765 79999999999999999999863
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=98.79 E-value=3.2e-09 Score=76.26 Aligned_cols=58 Identities=28% Similarity=0.327 Sum_probs=50.7
Q ss_pred CcchHHHhhhcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEE
Q 043998 14 RPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIV 73 (101)
Q Consensus 14 ~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~i 73 (101)
.|+...|=.--|+|.+.|| ||.+||+||++..+- +.+.|++||++|++|||.+++|+.
T Consensus 76 k~~~~RMG~GKG~~~~~~a-~V~~G~iifEi~~~v-~~~~a~~alk~a~~KLP~~~~~v~ 133 (133)
T PF00252_consen 76 KPLETRMGKGKGKIDHWVA-RVKPGQIIFEIGGKV-NEEEAKEALKRAAKKLPIKTKFVS 133 (133)
T ss_dssp -SSSSSSSSSSCEEEEEEE-EESTTEEEEEEESGS-CHHHHHHHHHHHHHTSSSCEEEE-
T ss_pred ehhhhhhccCCCCccEEEE-EECCCcEEEEECCcC-CHHHHHHHHHHHHhhCCCCEEEeC
Confidence 4677788888899999999 999999999994433 889999999999999999999973
No 11
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=97.33 E-value=0.00032 Score=55.56 Aligned_cols=48 Identities=21% Similarity=0.266 Sum_probs=43.9
Q ss_pred CCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEe
Q 043998 25 QSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 25 GKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is 74 (101)
|-|..=+| ||.+|++|+.|--+ -..+.|++||..|++|||+..+++++
T Consensus 129 Ga~d~wva-~V~~GrIl~EmgG~-~~~~~Ar~al~~aa~klp~~~efVs~ 176 (221)
T KOG3422|consen 129 GAIDHWVA-RVKAGRILFEMGGD-VEEEEARQALLQAAHKLPFKYEFVSE 176 (221)
T ss_pred CCcceeEE-EecCCcEEEEeCCc-ccHHHHHHHHHHHHhcCCccEEEeeH
Confidence 44777899 99999999999887 78899999999999999999999887
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=92.98 E-value=0.23 Score=32.71 Aligned_cols=35 Identities=20% Similarity=0.244 Sum_probs=28.1
Q ss_pred cCCccccceeeecCCCeEEEEeeCCCC-hHHHHHHHhhc
Q 043998 24 NQSSMGICQSRFKALQTIFKLFHPDSN-SHHAQEALHRA 61 (101)
Q Consensus 24 FGKP~G~aA~RV~~GQvI~svr~k~~~-~~~akEALrRA 61 (101)
+-|.+|- +|+.||+|++|.++++. .+.|.+.|+.|
T Consensus 36 l~~k~Gd---~V~~Gd~l~~i~~~~~~~~~~a~~~~~~a 71 (75)
T PF07831_consen 36 LHKKVGD---RVEKGDPLATIYANDEARLEEAVERLRAA 71 (75)
T ss_dssp ESS-TTS---EEBTTSEEEEEEESSSSHHHHHHHHHHHH
T ss_pred ecCcCcC---EECCCCeEEEEEcCChHHHHHHHHHHHhC
Confidence 3455665 89999999999999887 78888888765
No 13
>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=73.18 E-value=4.2 Score=26.33 Aligned_cols=30 Identities=13% Similarity=0.147 Sum_probs=25.4
Q ss_pred cCCCeEEEEeeCC--CChHHHHHHHhhcccCC
Q 043998 36 KALQTIFKLFHPD--SNSHHAQEALHRAKFKF 65 (101)
Q Consensus 36 ~~GQvI~svr~k~--~~~~~akEALrRAk~Kf 65 (101)
..+.+++.+.+++ +|.+.++++|+.+++++
T Consensus 38 ~~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~ 69 (85)
T cd04906 38 KDAHIFVGVSVANGAEELAELLEDLKSAGYEV 69 (85)
T ss_pred CeeEEEEEEEeCCcHHHHHHHHHHHHHCCCCe
Confidence 3566888899988 88999999999998865
No 14
>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=70.41 E-value=8.6 Score=23.01 Aligned_cols=32 Identities=19% Similarity=0.125 Sum_probs=25.7
Q ss_pred CCCeEEEEeeCCCChHHHHHHHhhcccCCCCc
Q 043998 37 ALQTIFKLFHPDSNSHHAQEALHRAKFKFPVR 68 (101)
Q Consensus 37 ~GQvI~svr~k~~~~~~akEALrRAk~KfPgr 68 (101)
.|..++.+++...+.+.++++|+.+.|++=++
T Consensus 40 ~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~~~ 71 (72)
T cd04883 40 EDNKILVFRVQTMNPRPIIEDLRRAGYEVLWP 71 (72)
T ss_pred CCeEEEEEEEecCCHHHHHHHHHHCCCeeeCC
Confidence 56777888888777789999999998886543
No 15
>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=68.03 E-value=7.6 Score=23.87 Aligned_cols=30 Identities=13% Similarity=0.306 Sum_probs=25.2
Q ss_pred cCCCeEEEEeeCC-CChHHHHHHHhhcccCC
Q 043998 36 KALQTIFKLFHPD-SNSHHAQEALHRAKFKF 65 (101)
Q Consensus 36 ~~GQvI~svr~k~-~~~~~akEALrRAk~Kf 65 (101)
..+.+.+++.+++ +|.+..+++|+.+.|++
T Consensus 36 ~~~~v~v~ie~~~~~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 36 DEARVLVGIQVPDREDLAELKERLEALGYPY 66 (68)
T ss_pred CceEEEEEEEeCCHHHHHHHHHHHHHcCCCc
Confidence 4567888899886 89999999999998874
No 16
>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=60.82 E-value=11 Score=26.22 Aligned_cols=51 Identities=12% Similarity=-0.020 Sum_probs=35.9
Q ss_pred hhhcCcchHHHhhhcCCccc----cceeeecCCCeEEEEeeCCCChHHHHHHHhhc
Q 043998 10 KEKQRPSVIQRQQSNQSSMG----ICQSRFKALQTIFKLFHPDSNSHHAQEALHRA 61 (101)
Q Consensus 10 ~~~~~~lq~GMR~AFGKP~G----~aA~RV~~GQvI~svr~k~~~~~~akEALrRA 61 (101)
.++..-+.+-.+.-||-=.- +.. ++.+|+.++.|-+-..|.+.|.+|++-+
T Consensus 55 ~~~l~~I~~e~~~~~~~~~v~i~HR~G-~l~vGe~~v~V~vsa~hR~eaf~A~~~~ 109 (117)
T PF02391_consen 55 EKELEEIAEEARERFGIVDVAIVHRVG-RLKVGEPIVLVAVSAPHRKEAFEACEYI 109 (117)
T ss_dssp HHHHHHHHHHHHHHSTTCEEEEEEEEE-EEETTSEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCeEEEEEEeeC-CCCCCCeEEEEEEecCCHHHHHHHHHHH
Confidence 33444455555556653211 344 7899999999999999999999998753
No 17
>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=58.53 E-value=6.9 Score=23.47 Aligned_cols=27 Identities=15% Similarity=0.149 Sum_probs=20.2
Q ss_pred CCeEEEEeeCCCChHHHHHHHhhcccCC
Q 043998 38 LQTIFKLFHPDSNSHHAQEALHRAKFKF 65 (101)
Q Consensus 38 GQvI~svr~k~~~~~~akEALrRAk~Kf 65 (101)
+..++.+++. .|.+.++++|+.+.|++
T Consensus 43 ~~~~i~v~~~-~~~~~~~~~L~~~G~~v 69 (69)
T cd04909 43 GILRISFKTQ-EDRERAKEILKEAGYEV 69 (69)
T ss_pred EEEEEEECCH-HHHHHHHHHHHHcCCcC
Confidence 4456666654 48899999999998763
No 18
>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=57.55 E-value=16 Score=25.98 Aligned_cols=50 Identities=10% Similarity=-0.044 Sum_probs=34.9
Q ss_pred hhhcCcchHHHhhhcCCccc----cceeeecCCCeEEEEeeCCCChHHHHHHHhh
Q 043998 10 KEKQRPSVIQRQQSNQSSMG----ICQSRFKALQTIFKLFHPDSNSHHAQEALHR 60 (101)
Q Consensus 10 ~~~~~~lq~GMR~AFGKP~G----~aA~RV~~GQvI~svr~k~~~~~~akEALrR 60 (101)
.+..+-+.+-++.-||-=.- +.. ++.+|+.++-|-+-..|.+.|.+|++-
T Consensus 47 ~~~l~~I~~e~~~k~~~~~v~v~HR~G-~l~vGe~~v~i~v~a~hR~~af~A~~~ 100 (124)
T cd00756 47 EKELEEIAEEARERWGLLRVAIIHRVG-RLPPGEAIVLVAVSSPHRKEAFEACEF 100 (124)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEEEEc-ccCCCCEEEEEEEecCCHHHHHHHHHH
Confidence 34444455566666653211 233 678999999999999999999888764
No 19
>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=54.73 E-value=22 Score=20.53 Aligned_cols=27 Identities=15% Similarity=0.177 Sum_probs=21.4
Q ss_pred CCCeEEEEeeCCCChHHHHHHHhhcccCC
Q 043998 37 ALQTIFKLFHPDSNSHHAQEALHRAKFKF 65 (101)
Q Consensus 37 ~GQvI~svr~k~~~~~~akEALrRAk~Kf 65 (101)
.|..++.++++. .+.+.++|+.+.|++
T Consensus 38 ~~~~~v~~~ve~--~~~~~~~L~~~G~~v 64 (65)
T cd04882 38 GGKALLIFRTED--IEKAIEVLQERGVEL 64 (65)
T ss_pred CCeEEEEEEeCC--HHHHHHHHHHCCceE
Confidence 466777888876 889999999987753
No 20
>PRK06078 pyrimidine-nucleoside phosphorylase; Reviewed
Probab=50.69 E-value=18 Score=31.17 Aligned_cols=28 Identities=7% Similarity=0.183 Sum_probs=24.4
Q ss_pred eecCCCeEEEEeeCCCChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHPDSNSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~akEALrRA 61 (101)
+|+.||+|++|+.+++..+.+.+.|+.|
T Consensus 387 ~V~~g~~l~~i~~~~~~~~~~~~~~~~a 414 (434)
T PRK06078 387 SVKKGESLATIYANRENVEDVKAKFYKN 414 (434)
T ss_pred EeCCCCeEEEEeCChHHHHHHHHHHHhh
Confidence 8999999999997777788888888776
No 21
>PRK06770 hypothetical protein; Provisional
Probab=48.43 E-value=9.2 Score=29.73 Aligned_cols=38 Identities=24% Similarity=0.536 Sum_probs=31.2
Q ss_pred ChHHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHH
Q 043998 50 NSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKS 92 (101)
Q Consensus 50 ~~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~ 92 (101)
.-+.++.|++.- .+|||.-+++|||+..+.+.-..++.
T Consensus 68 tE~~ii~~MH~M-----tHQKV~A~~KwG~~~mT~enI~~l~~ 105 (180)
T PRK06770 68 TEEEIITAMHKM-----THQKVKADEKWGFIEMTQENIEKLKD 105 (180)
T ss_pred CHHHHHHHHHHH-----HhhhhhhhcccceEecCHHHHHHHHH
Confidence 456777777765 47999999999999999999888864
No 22
>COG0347 GlnK Nitrogen regulatory protein PII [Amino acid transport and metabolism]
Probab=46.04 E-value=44 Score=24.08 Aligned_cols=39 Identities=23% Similarity=0.233 Sum_probs=30.8
Q ss_pred EEEeeCCCChHHHHHHHhhcccCCCCccEEEEe---cCCCcccc
Q 043998 42 FKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS---RKWGFTKF 82 (101)
Q Consensus 42 ~svr~k~~~~~~akEALrRAk~KfPgrqkI~is---~k~GFT~~ 82 (101)
+.+=++++.++.++|||.-|. ||+-....|+ +.-|+|.+
T Consensus 4 I~aIiRP~kl~~vkeaL~~~G--~~gmTv~~V~G~G~Qkg~~e~ 45 (112)
T COG0347 4 IEAIIRPFKLDDVKEALEKAG--VPGMTVTEVKGRGRQKGHTEL 45 (112)
T ss_pred EEEEeCHHHhHHHHHHHHHcC--CCceEEEeeeeecccCCcccc
Confidence 456688999999999999999 8998888777 33366644
No 23
>PRK05820 deoA thymidine phosphorylase; Reviewed
Probab=44.86 E-value=21 Score=30.81 Aligned_cols=28 Identities=29% Similarity=0.277 Sum_probs=23.2
Q ss_pred eecCCCeEEEEeeCC-CChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHPD-SNSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k~-~~~~~akEALrRA 61 (101)
+|+.||+|++|++.+ ..++.|.+.|+.|
T Consensus 392 ~V~~Gd~l~~i~~~~~~~~~~a~~~~~~a 420 (440)
T PRK05820 392 RVDAGEPLATLHADDEERFQEAAAALKAA 420 (440)
T ss_pred EECCCCeEEEEeCCCHHHHHHHHHHHHhc
Confidence 899999999999665 4558888888776
No 24
>PRK13203 ureB urease subunit beta; Reviewed
Probab=43.76 E-value=15 Score=26.35 Aligned_cols=20 Identities=25% Similarity=0.212 Sum_probs=15.5
Q ss_pred HHhhhcCCccccceeeecCCCeE
Q 043998 19 QRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
|||+. -|.|||. |..+|+.-
T Consensus 58 G~RLd--IpaGTav-RFEPG~~k 77 (102)
T PRK13203 58 GMRLN--IPAGTAV-RFEPGQTR 77 (102)
T ss_pred Ccccc--cCCCCeE-eECCCCeE
Confidence 45443 3999999 99999864
No 25
>PRK13202 ureB urease subunit beta; Reviewed
Probab=43.46 E-value=15 Score=26.38 Aligned_cols=20 Identities=10% Similarity=-0.006 Sum_probs=15.5
Q ss_pred HHhhhcCCccccceeeecCCCeE
Q 043998 19 QRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
|||+. -|.|||. |..+||.-
T Consensus 59 G~RLd--IpaGTav-RFEPG~~k 78 (104)
T PRK13202 59 GYRLD--IPAATAV-RFEPGIPQ 78 (104)
T ss_pred Ccccc--cCCCCeE-EECCCCeE
Confidence 44443 3999999 99999874
No 26
>cd00407 Urease_beta Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of external and internally-generated urea as a nitrogen source. The enzyme consists of three subunits, alpha, beta and gamma, which can exist as separate proteins or can be fused on a single protein chain. The alpha-beta-gamma heterotrimer forms multimers, mainly trimers. The large alpha subunit is the catalytic domain containing an active site with a bi-nickel center complexed by a carbamylated lysine. The beta and gamma subunits play a role in subunit association to form the higher order trimers.
Probab=43.05 E-value=15 Score=26.23 Aligned_cols=20 Identities=15% Similarity=0.150 Sum_probs=15.4
Q ss_pred HHhhhcCCccccceeeecCCCeE
Q 043998 19 QRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
|||+. -|.||+. |..+||.-
T Consensus 58 G~RLd--IpaGTav-RFEPG~~k 77 (101)
T cd00407 58 GMRLD--IPAGTAV-RFEPGEEK 77 (101)
T ss_pred cceec--ccCCCeE-EECCCCeE
Confidence 44443 3999999 99999864
No 27
>PLN02390 molybdopterin synthase catalytic subunit
Probab=42.38 E-value=39 Score=23.83 Aligned_cols=50 Identities=8% Similarity=-0.158 Sum_probs=34.4
Q ss_pred hhhcCcchHHHhhhcCCccc----cceeeecCCCeEEEEeeCCCChHHHHHHHhh
Q 043998 10 KEKQRPSVIQRQQSNQSSMG----ICQSRFKALQTIFKLFHPDSNSHHAQEALHR 60 (101)
Q Consensus 10 ~~~~~~lq~GMR~AFGKP~G----~aA~RV~~GQvI~svr~k~~~~~~akEALrR 60 (101)
....+.+.+-.+.-||--.- +.. +|.+|+.++.|-+-..|...|-+|++-
T Consensus 36 ~~~l~~I~~e~~~~~~~~~v~i~HR~G-~l~vge~~v~v~v~s~HR~~Af~A~~~ 89 (111)
T PLN02390 36 LRELRKICDEARSRWSLHKIAVAHRLG-PVPVGETSVFVAVSSVHRADALDACKF 89 (111)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEEeee-cccCCCEEEEEEEECCCHHHHHHHHHH
Confidence 33444455555666642111 334 678999999999999999999888764
No 28
>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=42.28 E-value=12 Score=26.05 Aligned_cols=40 Identities=10% Similarity=0.049 Sum_probs=25.3
Q ss_pred hcCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhcccC
Q 043998 23 SNQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRAKFK 64 (101)
Q Consensus 23 AFGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRAk~K 64 (101)
.|+++.-... ++.+|++++.+.+.-.+ +.+.||++.|+-+
T Consensus 90 ~~~~~~~~~~-~~~~gDvli~iS~SG~s-~~vi~a~~~Ak~~ 129 (138)
T PF13580_consen 90 GFARQLLALY-DIRPGDVLIVISNSGNS-PNVIEAAEEAKER 129 (138)
T ss_dssp THHHHHHHHT-T--TT-EEEEEESSS-S-HHHHHHHHHHHHT
T ss_pred HHHHHHHHHc-CCCCCCEEEEECCCCCC-HHHHHHHHHHHHC
Confidence 3444444444 58999999999876554 7888899888755
No 29
>TIGR00192 urease_beta urease, beta subunit. In a number of species, including B.subtilis, Synechocystis, and Haemophilus influenzae, urease subunits beta and gamma are encoded as separate polypeptides. In Helicobacter pylori UreA and in the fission yeast Schizosaccharomyces pombe, beta subunit-like sequence follows gamma subunit-like sequence in a single chain; the fission yeast protein contains additional C-terminal regions.
Probab=41.65 E-value=16 Score=26.04 Aligned_cols=21 Identities=14% Similarity=0.148 Sum_probs=16.2
Q ss_pred HHHhhhcCCccccceeeecCCCeE
Q 043998 18 IQRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 18 ~GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
-|||+. -|.|||. |..+||.-
T Consensus 57 ~G~RLd--IpaGTav-RFEPG~~k 77 (101)
T TIGR00192 57 FGMRLD--IPSGTAV-RFEPGEEK 77 (101)
T ss_pred cCcccc--cCCCCeE-eECCCCeE
Confidence 355543 4999999 99999974
No 30
>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=41.53 E-value=25 Score=30.48 Aligned_cols=28 Identities=14% Similarity=0.228 Sum_probs=23.7
Q ss_pred eecCCCeEEEEeeC-CCChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHP-DSNSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k-~~~~~~akEALrRA 61 (101)
+|+.||+|++|+.. +..++.|.|.|+.|
T Consensus 391 ~V~~Gd~l~~i~~~~~~~~~~a~~~~~~a 419 (437)
T TIGR02643 391 RVEKGEPLAVVHAADESDAEEAAKRVKAA 419 (437)
T ss_pred EeCCCCeEEEEECCCHHHHHHHHHHHHhh
Confidence 89999999999965 45678888888876
No 31
>PF00543 P-II: Nitrogen regulatory protein P-II members of this family.; InterPro: IPR002187 In Gram-negative bacteria, the activity and concentration of glutamine synthetase (GS) is regulated in response to nitrogen source availability. PII, a tetrameric protein encoded by the glnB gene, is a component of the adenylation cascade involved in the regulation of GS activity []. In nitrogen-limiting conditions, when the ratio of glutamine to 2-ketoglutarate decreases, P-II is uridylylated on a tyrosine residue to form P-II-UMP. P-II-UMP allows the deadenylation of GS, thus activating the enzyme. Conversely, in nitrogen excess, P-II-UMP is deuridylated and then promotes the adenylation of GS. P-II also indirectly controls the transcription of the GS gene (glnA) by preventing NR-II (ntrB) to phosphorylate NR-I (ntrC) which is the transcriptional activator of glnA. Once P-II is uridylylated, these events are reversed. P-II is a protein of about 110 amino acid residues extremely well conserved. The tyrosine which is uridylated is located in the central part of the protein. In cyanobacteria, P-II seems to be phosphorylated on a serine residue rather than being uridylated. In methanogenic archaebacteria, the nitrogenase iron protein gene (nifH) is followed by two open reading frames highly similar to the eubacterial P-II protein []. These proteins could be involved in the regulation of nitrogen fixation. In the red alga, Porphyra purpurea, there is a glnB homologue encoded in the chloroplast genome. Other proteins highly similar to glnB are: Bacillus subtilis protein nrgB []. Escherichia coli hypothetical protein ybaI []. ; GO: 0030234 enzyme regulator activity, 0006808 regulation of nitrogen utilization; PDB: 1V3S_B 1V3R_C 2XZW_A 2XUL_A 2V5H_J 2XG8_C 2JJ4_F 1QY7_C 4AFF_A 2XBP_A ....
Probab=40.19 E-value=61 Score=21.50 Aligned_cols=37 Identities=27% Similarity=0.339 Sum_probs=30.3
Q ss_pred CeEEEEeeCCCChHHHHHHHhh-cccCCCCccEEEEec
Q 043998 39 QTIFKLFHPDSNSHHAQEALHR-AKFKFPVRQKIIVSR 75 (101)
Q Consensus 39 QvI~svr~k~~~~~~akEALrR-Ak~KfPgrqkI~is~ 75 (101)
.+.+.+-|.++..+.+.||+.. |..-=||.-+|.|+.
T Consensus 55 k~~i~ivv~d~~v~~iv~~I~~~~~tg~~GdGkIfV~~ 92 (102)
T PF00543_consen 55 KVKIEIVVPDEDVEEIVEAISEAARTGEPGDGKIFVSP 92 (102)
T ss_dssp EEEEEEEEEGGGHHHHHHHHHHHH-SSSTTSEEEEEEE
T ss_pred cEEEEEEECHHhHHHHHHHHHHhccCCCCCCEEEEEEE
Confidence 3568888999999999999976 566679999999885
No 32
>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=39.52 E-value=40 Score=20.26 Aligned_cols=28 Identities=14% Similarity=0.153 Sum_probs=19.7
Q ss_pred eecCCCeEEEEeeCCC---ChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHPDS---NSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k~~---~~~~akEALrRA 61 (101)
.+.+|++|++|--.+- +.+.+.++|+.+
T Consensus 43 gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~ 73 (82)
T cd00992 43 GLRVGDRILEVNGVSVEGLTHEEAVELLKNS 73 (82)
T ss_pred CCCCCCEEEEECCEEcCccCHHHHHHHHHhC
Confidence 6888999988855532 567777777753
No 33
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=39.36 E-value=43 Score=20.35 Aligned_cols=28 Identities=25% Similarity=0.181 Sum_probs=25.8
Q ss_pred eecCCCeEEEEeeCCCChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHPDSNSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~akEALrRA 61 (101)
|+...|-|+-..+++++++.+.+.|..|
T Consensus 42 rlT~~Q~l~l~~v~~~~~~~i~~~L~~~ 69 (69)
T PF03460_consen 42 RLTTRQNLQLRGVPEENLPAIFEELKEA 69 (69)
T ss_dssp EEETTSCEEEEEEEGGGHHHHHHHHHHT
T ss_pred EECCCCeEEEeCCCHHHHHHHHHHHHcC
Confidence 9999999999999999999999998764
No 34
>COG0832 UreB Urea amidohydrolase (urease) beta subunit [Amino acid transport and metabolism]
Probab=38.90 E-value=16 Score=26.34 Aligned_cols=24 Identities=17% Similarity=0.195 Sum_probs=17.5
Q ss_pred CcchHHHhhhcCCccccceeeecCCCe
Q 043998 14 RPSVIQRQQSNQSSMGICQSRFKALQT 40 (101)
Q Consensus 14 ~~lq~GMR~AFGKP~G~aA~RV~~GQv 40 (101)
|...-|||+- -|.|||. |..|||.
T Consensus 53 R~~a~G~RLd--IpagTAV-RFEPG~~ 76 (106)
T COG0832 53 REKAYGMRLD--IPAGTAV-RFEPGDE 76 (106)
T ss_pred hhhhcceEec--ccCCceE-eeCCCCc
Confidence 3344466643 4999999 9999985
No 35
>PF00699 Urease_beta: Urease beta subunit CAUTION: The Prosite patterns do not match this subunit of the enzyme; InterPro: IPR002019 Urease 3.5.1.5 from EC is a nickel-binding enzyme that catalyzes the hydrolysis of urea to carbon dioxide and ammonia []: Urea + H2O = CO2 + 2 NH3 Historically, it was the first enzyme to be crystallized (in 1926). It is mainly found in plant seeds and microorganisms. In plants, urease is a hexamer of identical chains. In bacteria [], it consists of either two or three different subunits (alpha IPR005847 from INTERPRO, beta, described in this entry, and gamma IPR002026 from INTERPRO). The structure of the urease complex is known []. This subunit does not appear to take part in the catalytic mechanism. This subunit is known (confusingly) as alpha in Helicobacter.; GO: 0009039 urease activity, 0016151 nickel ion binding, 0006807 nitrogen compound metabolic process; PDB: 1EJS_B 1EJW_B 1A5N_B 1A5K_B 1A5M_B 1EJR_B 1EJX_B 1A5L_B 1KRB_B 1FWA_B ....
Probab=38.53 E-value=18 Score=25.84 Aligned_cols=22 Identities=18% Similarity=0.080 Sum_probs=13.1
Q ss_pred HHhhhcCCccccceeeecCCCeEEE
Q 043998 19 QRQQSNQSSMGICQSRFKALQTIFK 43 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI~s 43 (101)
|||+. -|.|||. |..+||.--.
T Consensus 57 G~RLd--IPaGTav-RFEPG~~k~V 78 (100)
T PF00699_consen 57 GMRLD--IPAGTAV-RFEPGDTKEV 78 (100)
T ss_dssp TEEE---SSTT-EE-EE-TT-EEEE
T ss_pred CcccC--cCCCCeE-EECCCCcEEE
Confidence 45443 4999999 9999996433
No 36
>PRK04350 thymidine phosphorylase; Provisional
Probab=38.27 E-value=30 Score=30.37 Aligned_cols=28 Identities=14% Similarity=0.215 Sum_probs=22.2
Q ss_pred eecCCCeEEEEeeC-CCChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHP-DSNSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k-~~~~~~akEALrRA 61 (101)
+|+.||+|++|+.. +..++.|.+.++.|
T Consensus 450 ~V~~G~~l~~i~a~~~~~l~~a~~~~~~~ 478 (490)
T PRK04350 450 KVKKGDPLYTIHAESEGELDYAIELARRH 478 (490)
T ss_pred EecCCCeEEEEecCCHHHHHHHHHHHHhC
Confidence 89999999999955 45677777777664
No 37
>TIGR02645 ARCH_P_rylase putative thymidine phosphorylase. Members of this family are closely related to characterized examples of thymidine phosphorylase (EC 2.4.2.4) and pyrimidine nucleoside phosphorylase (RC 2.4.2.2). Most examples are found in the archaea, but other examples in Legionella pneumophila str. Paris and Rhodopseudomonas palustris CGA009.
Probab=38.21 E-value=28 Score=30.62 Aligned_cols=27 Identities=11% Similarity=0.238 Sum_probs=22.4
Q ss_pred eecCCCeEEEEeeC-CCChHHHHHHHhh
Q 043998 34 RFKALQTIFKLFHP-DSNSHHAQEALHR 60 (101)
Q Consensus 34 RV~~GQvI~svr~k-~~~~~~akEALrR 60 (101)
+|+.||+|++|+.. +..++.|.+++++
T Consensus 458 ~V~~Gd~l~~i~a~~~~~l~~a~~~~~~ 485 (493)
T TIGR02645 458 QVKKGDPLYTIYAESEGELDYAIALARR 485 (493)
T ss_pred EecCCCeEEEEECCCHHHHHHHHHHHhc
Confidence 89999999999955 4567888887776
No 38
>PRK10678 moaE molybdopterin guanine dinucleotide biosynthesis protein MoaE; Provisional
Probab=36.76 E-value=53 Score=24.43 Aligned_cols=52 Identities=13% Similarity=-0.074 Sum_probs=35.4
Q ss_pred cchHHHhhhcCCccc----cceeeecCCCeEEEEeeCCCChHHHHHHHh----hcccCCCC
Q 043998 15 PSVIQRQQSNQSSMG----ICQSRFKALQTIFKLFHPDSNSHHAQEALH----RAKFKFPV 67 (101)
Q Consensus 15 ~lq~GMR~AFGKP~G----~aA~RV~~GQvI~svr~k~~~~~~akEALr----RAk~KfPg 67 (101)
-+.+-.+.-||---= +.. +|.+|+.++-|-+-..|...|-+|++ +=|...|-
T Consensus 65 ~I~~ea~~~~~~~~v~i~HR~G-~l~~Ge~~v~Vav~s~HR~~Af~A~~~~id~lK~~vPI 124 (150)
T PRK10678 65 EIVDEARSRWPLGRVTVIHRVG-ELWPGDEIVFVGVTSAHRSSAFEAGQFIMDYLKTRAPF 124 (150)
T ss_pred HHHHHHHHhCCCCcEEEEEeEe-cccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhcCCe
Confidence 344445555653111 334 78999999999999999999988854 45555664
No 39
>PRK13201 ureB urease subunit beta; Reviewed
Probab=36.06 E-value=22 Score=26.61 Aligned_cols=20 Identities=15% Similarity=0.205 Sum_probs=15.7
Q ss_pred HHhhhcCCccccceeeecCCCeE
Q 043998 19 QRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
|||+. -|.|||. |..||+.-
T Consensus 58 G~RLd--IPAGTAV-RFEPG~~k 77 (136)
T PRK13201 58 GKHLD--IPAGAAV-RFEPGDKK 77 (136)
T ss_pred Ccccc--cCCCCeE-eECCCCeE
Confidence 55543 4999999 99999864
No 40
>PRK13605 endoribonuclease SymE; Provisional
Probab=36.05 E-value=35 Score=24.79 Aligned_cols=34 Identities=15% Similarity=0.202 Sum_probs=27.9
Q ss_pred eecCCCeEEEEeeCCCChHHHHHHHhhcccCCCCc
Q 043998 34 RFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVR 68 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~akEALrRAk~KfPgr 68 (101)
+|..|+.|+++--.........+.|+.++ |+..+
T Consensus 61 ~V~~G~LVIt~~~~~~~~~el~~~l~~v~-~~s~~ 94 (113)
T PRK13605 61 RVMEGCIVLTAQPPAAEESELMQSLRQVC-KLSAR 94 (113)
T ss_pred EEeCCEEEEEeCCCCcccHHHHHHHHHHH-HhhhH
Confidence 77889999999887666788899999987 76654
No 41
>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=35.98 E-value=27 Score=25.92 Aligned_cols=58 Identities=17% Similarity=0.276 Sum_probs=28.3
Q ss_pred cCCccccceeeecCCCeEEEEeeCCCChHHHHHHHhhc------ccCCCCccEEEEe--cCCCccccCH
Q 043998 24 NQSSMGICQSRFKALQTIFKLFHPDSNSHHAQEALHRA------KFKFPVRQKIIVS--RKWGFTKFSR 84 (101)
Q Consensus 24 FGKP~G~aA~RV~~GQvI~svr~k~~~~~~akEALrRA------k~KfPgrqkI~is--~k~GFT~~~~ 84 (101)
-|.+.+++- +|.+|. -+.|+-..........+++++ -..+-..|-|.|| ++|| -.|.|
T Consensus 99 ~~~~~~~V~-Kv~pg~-~~kvFd~~~f~~~l~~~~~~~~~~~~~~~~l~~~c~iriSFvKGWG-~~Y~R 164 (181)
T PF03166_consen 99 HGFHPGTVC-KVPPGY-SLKVFDMEKFAQLLRQAVRRGYEAEEDVDELRKMCTIRISFVKGWG-PEYRR 164 (181)
T ss_dssp TTSTTTSEE-EE-TT--EEEEEEHHHHHHHHHHHHTTHHHHTTTHHGGGGGGEEEEEESSB-S-TTSSS
T ss_pred cCcCCCCcE-EeCCCc-eeeccCHHHHHHHHHhhhccccccccchhhhhhcceEEEEEEcccC-Ccccc
Confidence 345667888 888884 334443222222222233221 2344456666666 8998 55544
No 42
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=35.42 E-value=30 Score=20.50 Aligned_cols=15 Identities=27% Similarity=0.348 Sum_probs=12.7
Q ss_pred eecCCCeEEEEeeCC
Q 043998 34 RFKALQTIFKLFHPD 48 (101)
Q Consensus 34 RV~~GQvI~svr~k~ 48 (101)
.|+.||+|+.+...+
T Consensus 23 ~VkkGd~L~~ld~~~ 37 (50)
T PF13533_consen 23 QVKKGDVLLVLDSPD 37 (50)
T ss_pred EEcCCCEEEEECcHH
Confidence 789999999997654
No 43
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=33.97 E-value=94 Score=25.20 Aligned_cols=35 Identities=11% Similarity=0.278 Sum_probs=26.9
Q ss_pred eEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEe
Q 043998 40 TIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 40 vI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is 74 (101)
-.+.|.|.+.++..+++||+-+.+.+-...-+.|-
T Consensus 169 ~~~~V~t~p~~~~~V~~~L~~~g~~~~~ael~~iP 203 (241)
T COG0217 169 GSIEVYTEPEDFNKVKEALEAAGYEIESAELTMIP 203 (241)
T ss_pred CeEEEEEChHHHHHHHHHHHHcCCceeeeeEEEec
Confidence 45888999999999999999998777664444443
No 44
>PF06819 Arc_PepC: Archaeal Peptidase A24 C-terminal Domain; InterPro: IPR009639 This region is of unknown function found at the C terminus of some archael proteins that have multiple transmembrane domains and are predicted to be aspartic peptidases belonging to the MEROPS peptidase subfamily A24A (type 4 prepilin peptidase 1.
Probab=33.22 E-value=1.5e+02 Score=21.30 Aligned_cols=53 Identities=19% Similarity=0.114 Sum_probs=42.3
Q ss_pred CCChHHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHHcCccccCC
Q 043998 48 DSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSENRMSWSF 100 (101)
Q Consensus 48 ~~~~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~e~~l~~~~ 100 (101)
..-.+..+.||+-+..+--.--.|.....-|+|+=+=+...+|.+||+|-++|
T Consensus 56 ~~~~~r~k~~l~~~~~~~l~g~~i~~~~~EGLs~E~IE~Lk~Lv~eGKi~nef 108 (110)
T PF06819_consen 56 SSFFKRFKFALKTEDGSALTGEKIISTDAEGLSKEDIEKLKKLVEEGKIENEF 108 (110)
T ss_pred ccHHHHHHHHHHhcccccccCCeEEeccccCCCHHHHHHHHHHHHcCCCcccc
Confidence 34468899999988776644556666688899888888888999999998877
No 45
>PRK13198 ureB urease subunit beta; Reviewed
Probab=31.56 E-value=29 Score=26.63 Aligned_cols=21 Identities=14% Similarity=0.109 Sum_probs=16.1
Q ss_pred HHHhhhcCCccccceeeecCCCeE
Q 043998 18 IQRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 18 ~GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
-|||+- -|.|||. |..+||.-
T Consensus 85 ~G~RLd--IPAGTAV-RFEPG~~k 105 (158)
T PRK13198 85 YGKRLN--ISSTTAI-RFEPGDET 105 (158)
T ss_pred cCcccc--cCCCCeE-eeCCCCee
Confidence 355543 4999999 99999974
No 46
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.12 E-value=56 Score=18.60 Aligned_cols=29 Identities=14% Similarity=0.075 Sum_probs=18.8
Q ss_pred CCCeEEEEeeC--C-CChHHHHHHHhhcccCC
Q 043998 37 ALQTIFKLFHP--D-SNSHHAQEALHRAKFKF 65 (101)
Q Consensus 37 ~GQvI~svr~k--~-~~~~~akEALrRAk~Kf 65 (101)
.|...+.+++. + ++++.+.++|+...+++
T Consensus 40 ~~~~~~~i~v~~~~~~~l~~l~~~l~~~g~~~ 71 (73)
T cd04886 40 LGEVEVELTLETRGAEHIEEIIAALREAGYDV 71 (73)
T ss_pred CceEEEEEEEEeCCHHHHHHHHHHHHHcCCEE
Confidence 35555555554 3 55668888998877653
No 47
>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=30.20 E-value=46 Score=27.24 Aligned_cols=39 Identities=21% Similarity=0.267 Sum_probs=29.4
Q ss_pred eecCCCeEEEEeeCCCChHHH---HHHHhhcccCCCCccEEEEec
Q 043998 34 RFKALQTIFKLFHPDSNSHHA---QEALHRAKFKFPVRQKIIVSR 75 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~a---kEALrRAk~KfPgrqkI~is~ 75 (101)
|..--+ +|-++++|+..+ .+|+++++.+.|...||.|+-
T Consensus 163 R~gLsD---~iLIkdNHi~~~g~i~~av~~~r~~~~~~~kIeVEv 204 (290)
T PRK06559 163 RFNLSD---AIMLKDNHIAAVGSVQKAIAQARAYAPFVKMVEVEV 204 (290)
T ss_pred CCCCcc---eEEEcHHHHHhhccHHHHHHHHHHhCCCCCeEEEEC
Confidence 444445 456789987655 689999999999778888874
No 48
>PF13840 ACT_7: ACT domain ; PDB: 3S1T_A 1ZHV_A 3AB4_K 3AB2_O 2DTJ_A 3AAW_A 2RE1_B 3MAH_A 1ZVP_D.
Probab=30.17 E-value=48 Score=20.47 Aligned_cols=21 Identities=24% Similarity=0.354 Sum_probs=17.3
Q ss_pred eEEEEeeCCCChHHHHHHHhh
Q 043998 40 TIFKLFHPDSNSHHAQEALHR 60 (101)
Q Consensus 40 vI~svr~k~~~~~~akEALrR 60 (101)
.=.++-++.++.+.|.+||+.
T Consensus 45 ~~~~ilV~~~~~~~A~~~L~~ 65 (65)
T PF13840_consen 45 ISISILVKEEDLEKAVEALHE 65 (65)
T ss_dssp SEEEEEEEGGGHHHHHHHHHH
T ss_pred eeEEEEEeHHHHHHHHHHhcC
Confidence 335788899999999999974
No 49
>PRK01827 thyA thymidylate synthase; Reviewed
Probab=30.03 E-value=80 Score=25.42 Aligned_cols=45 Identities=22% Similarity=0.290 Sum_probs=34.6
Q ss_pred eEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEe-cCCCccccCHHHH
Q 043998 40 TIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS-RKWGFTKFSRADY 87 (101)
Q Consensus 40 vI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is-~k~GFT~~~~~e~ 87 (101)
.+-++.+-+.|.+.|+|=|.|--+++| ++.|. +...|-.|+.+||
T Consensus 202 ~~g~~HIY~~h~~~~~~ql~r~p~~~P---~l~i~~~~~~~~~~~~~Df 247 (264)
T PRK01827 202 TIGDAHIYSNHLEQAREQLSREPRPLP---KLVINPDIKSIFDFEFEDF 247 (264)
T ss_pred EEeeEEEEhhHhhHHHHHhcCCCCCCC---EEEECCCCCCcccCCHhHE
Confidence 455677889999999999999988886 45554 4457777777776
No 50
>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=29.57 E-value=79 Score=18.91 Aligned_cols=25 Identities=36% Similarity=0.490 Sum_probs=18.6
Q ss_pred CeEEEEeeCCCChHHHHHHHhhcccCC
Q 043998 39 QTIFKLFHPDSNSHHAQEALHRAKFKF 65 (101)
Q Consensus 39 QvI~svr~k~~~~~~akEALrRAk~Kf 65 (101)
..++.+.+ .+.+.|.++|+.+.|++
T Consensus 40 ~~~~rl~~--~~~~~~~~~L~~~G~~v 64 (66)
T cd04908 40 FGILRLIV--SDPDKAKEALKEAGFAV 64 (66)
T ss_pred CCEEEEEE--CCHHHHHHHHHHCCCEE
Confidence 46666666 44679999999988764
No 51
>PRK15052 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional
Probab=29.51 E-value=74 Score=27.70 Aligned_cols=48 Identities=21% Similarity=0.126 Sum_probs=32.0
Q ss_pred EEEEeeCCCChHHHHHH-HhhcccC-CCCccEEE-----EecCCCccccCHHHHHHHHHc
Q 043998 41 IFKLFHPDSNSHHAQEA-LHRAKFK-FPVRQKII-----VSRKWGFTKFSRADYLRWKSE 93 (101)
Q Consensus 41 I~svr~k~~~~~~akEA-LrRAk~K-fPgrqkI~-----is~k~GFT~~~~~e~~~~~~e 93 (101)
|+||+.-. +.++|| |++|+-+ +| --|. |....|||+++..+|.++..+
T Consensus 16 i~SVCsah---p~VieAAl~~a~~~~~p--vLiEAT~NQVdq~GGYTGmtP~dF~~~V~~ 70 (421)
T PRK15052 16 ICSVCSAH---PLVIEAALAFDLNSTRK--VLIEATSNQVNQFGGYTGMTPADFREFVYG 70 (421)
T ss_pred eeeECCCC---HHHHHHHHHHHhhcCCc--EEEEeccccccccCCcCCCCHHHHHHHHHH
Confidence 55665533 456666 8888763 33 2232 334579999999999988765
No 52
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=29.07 E-value=73 Score=25.32 Aligned_cols=51 Identities=12% Similarity=-0.023 Sum_probs=35.5
Q ss_pred hhhcCcchHHHhhhcCCccc----cceeeecCCCeEEEEeeCCCChHHHHHHHhhc
Q 043998 10 KEKQRPSVIQRQQSNQSSMG----ICQSRFKALQTIFKLFHPDSNSHHAQEALHRA 61 (101)
Q Consensus 10 ~~~~~~lq~GMR~AFGKP~G----~aA~RV~~GQvI~svr~k~~~~~~akEALrRA 61 (101)
.+..+.+.+-.+.-||--.- +.. +|.+|+.++-|-+-..|...|.+|++-+
T Consensus 193 ~~~l~~I~~e~~~~~~~~~v~v~Hr~G-~l~vge~~v~v~v~a~hR~~af~a~~~~ 247 (274)
T PRK14493 193 DERMAAIREELKQRDGVFEVLLHHRTG-VIEAGEDIVFVVVLAGHRQEAFRAVSDG 247 (274)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEEeec-cccCCCeEEEEEEecCCHHHHHHHHHHH
Confidence 34444555555666653211 334 6789999999999999999998887743
No 53
>COG0213 DeoA Thymidine phosphorylase [Nucleotide transport and metabolism]
Probab=28.85 E-value=71 Score=27.98 Aligned_cols=33 Identities=15% Similarity=0.256 Sum_probs=26.8
Q ss_pred CccccceeeecCCCeEEEEee-CCCChHHHHHHHhhc
Q 043998 26 SSMGICQSRFKALQTIFKLFH-PDSNSHHAQEALHRA 61 (101)
Q Consensus 26 KP~G~aA~RV~~GQvI~svr~-k~~~~~~akEALrRA 61 (101)
|+.|- .|+.|++|++|+. +++..+.|++.++.+
T Consensus 383 kk~ge---~Vk~Gd~l~tiya~~~~~~~~ai~~~~~~ 416 (435)
T COG0213 383 KKLGE---KVKKGDPLATIYAESEEILDEAIKAAQKA 416 (435)
T ss_pred ecCCC---eeccCCeEEEEecCCccchHHHHHHHHhc
Confidence 45555 7899999999999 778888888877764
No 54
>PF11132 SplA: Transcriptional regulator protein (SplA); InterPro: IPR022608 The SplA protein functions in trans as a negative regulator of the level of splB-lacZ expression in the developing forespore [].
Probab=28.80 E-value=41 Score=22.96 Aligned_cols=38 Identities=13% Similarity=0.177 Sum_probs=26.7
Q ss_pred eecCCCeEEEEeeCC--CChHHHHHHHhhcccCCCCccEE
Q 043998 34 RFKALQTIFKLFHPD--SNSHHAQEALHRAKFKFPVRQKI 71 (101)
Q Consensus 34 RV~~GQvI~svr~k~--~~~~~akEALrRAk~KfPgrqkI 71 (101)
-++.||+|+.|.-++ ++..+++||-=.---+=||.--.
T Consensus 5 ~~~~GD~VyViYrNPHt~~VanIqeAeiV~hP~~pgelAL 44 (75)
T PF11132_consen 5 PYHAGDIVYVIYRNPHTQDVANIQEAEIVPHPENPGELAL 44 (75)
T ss_pred ccCCCCEEEEEEcCCCCccccccchhheeCCCCCcceeee
Confidence 468899999999996 77788888754444444444443
No 55
>PRK13205 ureB urease subunit beta; Reviewed
Probab=28.75 E-value=35 Score=26.28 Aligned_cols=21 Identities=10% Similarity=-0.012 Sum_probs=16.0
Q ss_pred HHhhhcCCccccceeeecCCCeEE
Q 043998 19 QRQQSNQSSMGICQSRFKALQTIF 42 (101)
Q Consensus 19 GMR~AFGKP~G~aA~RV~~GQvI~ 42 (101)
|||+. -|.|||. |..||+.--
T Consensus 58 G~RLd--IPAGTAV-RFEPGe~kt 78 (162)
T PRK13205 58 GFRLD--IPSGTAV-RLEPGDART 78 (162)
T ss_pred Ccccc--cCCCCeE-eECCCCeEE
Confidence 55543 4999999 999998743
No 56
>cd01570 NAPRTase_A Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis. This salvage pathway serves to recycle NAD degradation products. This subgroup is present in bacteria and eukaryota (except funghi).
Probab=28.67 E-value=1.8e+02 Score=23.61 Aligned_cols=45 Identities=20% Similarity=0.184 Sum_probs=32.6
Q ss_pred CChHHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHHcCccccCCC
Q 043998 49 SNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSENRMSWSFG 101 (101)
Q Consensus 49 ~~~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~e~~l~~~~~ 101 (101)
.....+++.|..+.+ +. .+|+.|.+- +.+.-.++.++|..+-+||
T Consensus 262 ~~~~~~r~~l~~~G~--~~-~~Iv~Sdgl-----d~~~i~~l~~~g~~~d~fG 306 (327)
T cd01570 262 YLSKEARKMLDEAGL--TK-VKIVASNDL-----DEYTIAALNAQGAPIDAFG 306 (327)
T ss_pred HHHHHHHHHHHHCCC--CC-cEEEEeCCC-----CHHHHHHHHHCCCeeEEEe
Confidence 345778889998887 33 589888764 4466666777888887776
No 57
>COG0347 GlnK Nitrogen regulatory protein PII [Amino acid transport and metabolism]
Probab=28.37 E-value=1e+02 Score=22.26 Aligned_cols=37 Identities=22% Similarity=0.184 Sum_probs=31.2
Q ss_pred CeEEEEeeCCCChHHHHHHHhhccc-CCCCccEEEEec
Q 043998 39 QTIFKLFHPDSNSHHAQEALHRAKF-KFPVRQKIIVSR 75 (101)
Q Consensus 39 QvI~svr~k~~~~~~akEALrRAk~-KfPgrqkI~is~ 75 (101)
.+.+.|-+.+++.+.+.||+..+.. .=+|.-||.|+.
T Consensus 58 K~~ieIvV~de~ve~vie~I~~~a~tG~~GDGkIFV~~ 95 (112)
T COG0347 58 KVKIEIVVSDEDVDEVIEAIKKAARTGKIGDGKIFVSP 95 (112)
T ss_pred ceEEEEEEChHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Confidence 4667788889999999999988877 778888998875
No 58
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=28.27 E-value=1.2e+02 Score=22.21 Aligned_cols=68 Identities=18% Similarity=0.062 Sum_probs=42.1
Q ss_pred hhhhcCcchHHHhhhcCCccccceeeecCCCeEEEEeeC--CCChHHHHHHHhhcccCCCCccEEEEecCCCccccCHHH
Q 043998 9 AKEKQRPSVIQRQQSNQSSMGICQSRFKALQTIFKLFHP--DSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRAD 86 (101)
Q Consensus 9 ~~~~~~~lq~GMR~AFGKP~G~aA~RV~~GQvI~svr~k--~~~~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e 86 (101)
|.+.+-...-|.-.+|.+|+= . ||-.+-.. +++.+.|++-|+.|..+-| ..|-...+.|. ++
T Consensus 73 at~~~~~~pP~fa~~f~~pvI--G-------VITK~Dl~~~~~~i~~a~~~L~~aG~~~i--f~vS~~~~eGi-----~e 136 (143)
T PF10662_consen 73 ATEPRSVFPPGFASMFNKPVI--G-------VITKIDLPSDDANIERAKKWLKNAGVKEI--FEVSAVTGEGI-----EE 136 (143)
T ss_pred CCCCCccCCchhhcccCCCEE--E-------EEECccCccchhhHHHHHHHHHHcCCCCe--EEEECCCCcCH-----HH
Confidence 445566667788888988841 1 22223333 6888999999999988743 44433345554 44
Q ss_pred HHHHHH
Q 043998 87 YLRWKS 92 (101)
Q Consensus 87 ~~~~~~ 92 (101)
..++.+
T Consensus 137 L~~~L~ 142 (143)
T PF10662_consen 137 LKDYLE 142 (143)
T ss_pred HHHHHh
Confidence 444443
No 59
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=28.05 E-value=66 Score=25.06 Aligned_cols=36 Identities=19% Similarity=0.172 Sum_probs=27.8
Q ss_pred cCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEe
Q 043998 36 KALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 36 ~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is 74 (101)
++|++++-|.+.. |.+.+.+|+..|+-| +-.-|..+
T Consensus 108 ~~GDvLigISTSG-NS~nVl~Ai~~Ak~~--gm~vI~lt 143 (176)
T COG0279 108 QPGDVLIGISTSG-NSKNVLKAIEAAKEK--GMTVIALT 143 (176)
T ss_pred CCCCEEEEEeCCC-CCHHHHHHHHHHHHc--CCEEEEEe
Confidence 5699999998876 888999999999876 34444443
No 60
>PHA02517 putative transposase OrfB; Reviewed
Probab=28.04 E-value=1.5e+02 Score=22.31 Aligned_cols=51 Identities=12% Similarity=0.035 Sum_probs=33.5
Q ss_pred CCCChHHHHHHHhhcccCCC--CccEEEEecCCCccccCHHHHHHHHHcCccccCC
Q 043998 47 PDSNSHHAQEALHRAKFKFP--VRQKIIVSRKWGFTKFSRADYLRWKSENRMSWSF 100 (101)
Q Consensus 47 k~~~~~~akEALrRAk~KfP--grqkI~is~k~GFT~~~~~e~~~~~~e~~l~~~~ 100 (101)
...+.+.+.++|..|--+.+ ...-|+..++..|| ..+|..+.++-.+..++
T Consensus 147 ~~~~~~~~~~~l~~a~~~~~~~~~~i~~sD~G~~y~---s~~~~~~~~~~gi~~~~ 199 (277)
T PHA02517 147 SSMDTDFVLDALEQALWARGRPGGLIHHSDKGSQYV---SLAYTQRLKEAGIRAST 199 (277)
T ss_pred CCCChHHHHHHHHHHHHhcCCCcCcEeecccccccc---hHHHHHHHHHcCccccc
Confidence 34677888999998865554 33444555666664 46777777776666554
No 61
>TIGR00999 8a0102 Membrane Fusion Protein cluster 2 (function with RND porters).
Probab=28.04 E-value=35 Score=25.23 Aligned_cols=15 Identities=20% Similarity=0.146 Sum_probs=13.2
Q ss_pred eecCCCeEEEEeeCC
Q 043998 34 RFKALQTIFKLFHPD 48 (101)
Q Consensus 34 RV~~GQvI~svr~k~ 48 (101)
+|+.||+|+.+...+
T Consensus 3 ~VkkG~~L~~ld~~~ 17 (265)
T TIGR00999 3 PVKKGQVLAVVDSPE 17 (265)
T ss_pred cccCCCEEEEEccHH
Confidence 899999999998753
No 62
>TIGR03327 AMP_phos AMP phosphorylase. This enzyme family is found, so far, strictly in the Archaea, and only in those with a type III Rubisco enzyme. Most of the members previously were annotated as thymidine phosphorylase, or DeoA. The AMP metabolized by this enzyme may be produced by ADP-dependent sugar kinases.
Probab=27.36 E-value=54 Score=28.95 Aligned_cols=27 Identities=15% Similarity=0.285 Sum_probs=21.4
Q ss_pred eecCCCeEEEEeeC-CCChHHHHHHHhh
Q 043998 34 RFKALQTIFKLFHP-DSNSHHAQEALHR 60 (101)
Q Consensus 34 RV~~GQvI~svr~k-~~~~~~akEALrR 60 (101)
+|+.||+|++|+.. +..++.|.+.++.
T Consensus 459 ~V~~G~pl~~i~a~~~~~l~~a~~~~~~ 486 (500)
T TIGR03327 459 KVKKGDPLYTIYAESEWRLENAIELARR 486 (500)
T ss_pred EeCCCCeEEEEECCCHHHHHHHHHHHhc
Confidence 89999999999955 4567777776665
No 63
>PRK13204 ureB urease subunit beta; Reviewed
Probab=27.19 E-value=38 Score=26.00 Aligned_cols=21 Identities=10% Similarity=0.041 Sum_probs=16.4
Q ss_pred HHHhhhcCCccccceeeecCCCeE
Q 043998 18 IQRQQSNQSSMGICQSRFKALQTI 41 (101)
Q Consensus 18 ~GMR~AFGKP~G~aA~RV~~GQvI 41 (101)
-|||+. -|.||+. |..+||.-
T Consensus 80 ~G~RLd--IPAGTAV-RFEPG~~k 100 (159)
T PRK13204 80 FGLRLD--IPANTAV-RFEPGDEK 100 (159)
T ss_pred cCcccc--cCCCCeE-eECCCCee
Confidence 455553 4999999 99999974
No 64
>PRK13192 bifunctional urease subunit gamma/beta; Reviewed
Probab=26.62 E-value=41 Score=26.81 Aligned_cols=20 Identities=20% Similarity=0.210 Sum_probs=15.8
Q ss_pred hhhcCC----ccccceeeecCCCeE
Q 043998 21 QQSNQS----SMGICQSRFKALQTI 41 (101)
Q Consensus 21 R~AFGK----P~G~aA~RV~~GQvI 41 (101)
..|||+ |.||+. |..|||.-
T Consensus 163 ~~A~G~RLdIpAGTav-RFEPG~~k 186 (208)
T PRK13192 163 AAAYGMRLDIPAGTAV-RFEPGETK 186 (208)
T ss_pred HHhcCcccccCCCCeE-eECCCCee
Confidence 345554 999999 99999974
No 65
>COG0314 MoaE Molybdopterin converting factor, large subunit [Coenzyme metabolism]
Probab=25.74 E-value=87 Score=23.29 Aligned_cols=28 Identities=18% Similarity=0.065 Sum_probs=24.7
Q ss_pred eecCCCeEEEEeeCCCChHHHHHHHhhc
Q 043998 34 RFKALQTIFKLFHPDSNSHHAQEALHRA 61 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~akEALrRA 61 (101)
++.+|+.++.|-+-..|...|-||++-+
T Consensus 87 ~l~~Ge~~v~v~v~s~HR~~Af~a~~~~ 114 (149)
T COG0314 87 ELKIGEAIVLVGVASAHRKEAFEACEYI 114 (149)
T ss_pred cccCCCcEEEEEEecccHHHHHHHHHHH
Confidence 6789999999999999999998888753
No 66
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=25.64 E-value=98 Score=21.41 Aligned_cols=29 Identities=14% Similarity=0.188 Sum_probs=26.5
Q ss_pred eecCCCeEEEEeeCCCChHHHHHHHhhcc
Q 043998 34 RFKALQTIFKLFHPDSNSHHAQEALHRAK 62 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~akEALrRAk 62 (101)
.+.+|..-+.+.+++...+.+.++|++..
T Consensus 51 ~L~~GssAl~~lv~~~~~d~v~~~l~~~g 79 (102)
T PF06897_consen 51 ALKPGSSALFLLVDEATEDKVDAALRKFG 79 (102)
T ss_pred hcCCCceEEEEEeccCCHHHHHHHHHhcC
Confidence 77889999999999999999999999865
No 67
>cd04907 ACT_ThrD-I_2 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the second 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=25.50 E-value=86 Score=20.45 Aligned_cols=29 Identities=14% Similarity=0.220 Sum_probs=23.1
Q ss_pred cCCCeEEEEeeCCCChHHHHHHHhhcccC
Q 043998 36 KALQTIFKLFHPDSNSHHAQEALHRAKFK 64 (101)
Q Consensus 36 ~~GQvI~svr~k~~~~~~akEALrRAk~K 64 (101)
..|++++.|.+++.+.+..++.|+.+.+.
T Consensus 39 ~~a~vlvGi~~~~~~~~~l~~~l~~~g~~ 67 (81)
T cd04907 39 DYGRVLVGIQVPDADLDELKERLDALGYP 67 (81)
T ss_pred CceeEEEEEEeChHHHHHHHHHHHHcCCC
Confidence 46889999999877778888888876554
No 68
>COG0504 PyrG CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=25.13 E-value=69 Score=28.77 Aligned_cols=47 Identities=15% Similarity=0.083 Sum_probs=39.9
Q ss_pred HHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHHcCccccC
Q 043998 52 HHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSENRMSWS 99 (101)
Q Consensus 52 ~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~e~~l~~~ 99 (101)
.-+.|||+.|....-..-.|.--....++.-+.+++..+ -+|-|+|.
T Consensus 305 ~Sv~EAL~hag~~~~~~v~i~wIdse~le~~~~~~~~~~-~dgIlVPG 351 (533)
T COG0504 305 KSVIEALKHAGIALGVKVNIKWIDSEDLEEENAAELEKL-VDGILVPG 351 (533)
T ss_pred HHHHHHHHhhhhhcCCceeeEEEccccccccchhhhhhc-CCEEEeCC
Confidence 568999999999999999998888888888777777765 78888884
No 69
>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=25.12 E-value=55 Score=26.62 Aligned_cols=38 Identities=16% Similarity=0.247 Sum_probs=27.5
Q ss_pred eecCCCeEEEEeeCCCChHH-------HHHHHhhcccCCCCccEEEEe
Q 043998 34 RFKALQTIFKLFHPDSNSHH-------AQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 34 RV~~GQvI~svr~k~~~~~~-------akEALrRAk~KfPgrqkI~is 74 (101)
|..-.+. |-++++|+.. ..+|+++++-+.|...+|.|+
T Consensus 155 R~gLsd~---vLikdNHi~~~~~g~~~i~~av~~~r~~~~~~~kIeVE 199 (281)
T PRK06543 155 RYSLSDA---VMAKDNHLAALAAQGLDLTEALRHVRAQLGHTTHVEVE 199 (281)
T ss_pred CCCCCce---EEEeHHHHHHHhCCchHHHHHHHHHHHhCCCCCcEEEE
Confidence 4444444 4467888774 578999999999977778775
No 70
>PLN02303 urease
Probab=24.65 E-value=1.6e+02 Score=27.77 Aligned_cols=20 Identities=20% Similarity=0.267 Sum_probs=15.8
Q ss_pred hhhcCC----ccccceeeecCCCeE
Q 043998 21 QQSNQS----SMGICQSRFKALQTI 41 (101)
Q Consensus 21 R~AFGK----P~G~aA~RV~~GQvI 41 (101)
..|||+ |.||+. |..+||.-
T Consensus 184 ~~a~G~rLdipaGtav-RfePG~~~ 207 (837)
T PLN02303 184 RKAYGMRLNIPAGTAV-RFEPGETK 207 (837)
T ss_pred HHhcCccccCCCCCeE-eECCCCee
Confidence 345554 999999 99999974
No 71
>PRK13986 urease subunit alpha; Provisional
Probab=24.61 E-value=44 Score=26.89 Aligned_cols=20 Identities=15% Similarity=0.224 Sum_probs=15.9
Q ss_pred hhhcCC----ccccceeeecCCCeE
Q 043998 21 QQSNQS----SMGICQSRFKALQTI 41 (101)
Q Consensus 21 R~AFGK----P~G~aA~RV~~GQvI 41 (101)
..|||+ |.|||. |..||+.-
T Consensus 159 ~~A~G~RLdIpAGTav-RFEPG~~k 182 (225)
T PRK13986 159 EKAFGKRLDIASGTAV-RFEPGEEK 182 (225)
T ss_pred HHhcCcccccCCCCeE-eECCCCee
Confidence 345554 999999 99999974
No 72
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=24.57 E-value=98 Score=19.40 Aligned_cols=24 Identities=13% Similarity=0.232 Sum_probs=20.8
Q ss_pred EEEeeCCCChHHHHHHHhhcccCC
Q 043998 42 FKLFHPDSNSHHAQEALHRAKFKF 65 (101)
Q Consensus 42 ~svr~k~~~~~~akEALrRAk~Kf 65 (101)
+++++++++.+.+++.|+.+..++
T Consensus 43 ~al~~~~~d~~~i~~~l~~~~i~~ 66 (73)
T PF11823_consen 43 LALRFEPEDLEKIKEILEENGIEY 66 (73)
T ss_pred EEEEEChhhHHHHHHHHHHCCCCe
Confidence 678899999999999999987654
No 73
>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known. However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....
Probab=23.98 E-value=64 Score=20.50 Aligned_cols=48 Identities=21% Similarity=0.117 Sum_probs=33.3
Q ss_pred eEEEEeeCCC-ChHHHHHHHhhcccCCCC--ccEEEEecCCCccccCHHHH
Q 043998 40 TIFKLFHPDS-NSHHAQEALHRAKFKFPV--RQKIIVSRKWGFTKFSRADY 87 (101)
Q Consensus 40 vI~svr~k~~-~~~~akEALrRAk~KfPg--rqkI~is~k~GFT~~~~~e~ 87 (101)
.++...+... ....+..+|.++-.++.+ +..|+..++..|+.-.-+++
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~~i~tD~g~~f~~~~~~~~ 87 (120)
T PF00665_consen 37 FIYAFPVSSKETAEAALRALKRAIEKRGGRPPRVIRTDNGSEFTSHAFEAW 87 (120)
T ss_dssp EEEEEEESSSSHHHHHHHHHHHHHHHHS-SE-SEEEEESCHHHHSHHHHHH
T ss_pred cEEEEEeecccccccccccccccccccccccceecccccccccccchhhhH
Confidence 3444455554 889999999999999999 67777777878875544444
No 74
>PF02775 TPP_enzyme_C: Thiamine pyrophosphate enzyme, C-terminal TPP binding domain; InterPro: IPR011766 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the C-terminal TPP binding domain of TPP enzymes.; GO: 0003824 catalytic activity, 0030976 thiamine pyrophosphate binding; PDB: 2WVA_V 1ZPD_F 2WVG_B 2WVH_B 3OE1_D 2NXW_A 2Q5L_B 2Q5Q_B 2Q5J_A 2Q5O_A ....
Probab=23.25 E-value=91 Score=21.48 Aligned_cols=29 Identities=21% Similarity=0.056 Sum_probs=22.6
Q ss_pred EeeCCCChHHHHHHHhhcccCCCCccEEEE
Q 043998 44 LFHPDSNSHHAQEALHRAKFKFPVRQKIIV 73 (101)
Q Consensus 44 vr~k~~~~~~akEALrRAk~KfPgrqkI~i 73 (101)
.++++.+.++..+||++|. +-+++.-|.|
T Consensus 125 ~~v~~~~~~el~~al~~a~-~~~gp~vIeV 153 (153)
T PF02775_consen 125 ARVTTPDPEELEEALREAL-ESGGPAVIEV 153 (153)
T ss_dssp EEESCHSHHHHHHHHHHHH-HSSSEEEEEE
T ss_pred EEEccCCHHHHHHHHHHHH-hCCCcEEEEc
Confidence 4666777889999999988 7777777765
No 75
>cd04913 ACT_AKii-LysC-BS-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins. This CD includes the N-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive aspartokinase isoenzymes. The B. subtilis 168 AKII is induced by methionine and repressed and inhibited by lysine. Although Corynebacterium glutamicum is known to contain a single aspartokinase, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is fee
Probab=23.22 E-value=61 Score=18.69 Aligned_cols=28 Identities=21% Similarity=0.210 Sum_probs=22.0
Q ss_pred CeEEEEeeCCCChHHHHHHHhhcccCCC
Q 043998 39 QTIFKLFHPDSNSHHAQEALHRAKFKFP 66 (101)
Q Consensus 39 QvI~svr~k~~~~~~akEALrRAk~KfP 66 (101)
...+++.++.++.+.|.++|...+-+++
T Consensus 42 ~~~is~~v~~~d~~~~~~~l~~~~~~~~ 69 (75)
T cd04913 42 TTDISFTVPKSDLKKALAVLEKLKKELG 69 (75)
T ss_pred cEEEEEEecHHHHHHHHHHHHHHHHHcC
Confidence 3567888888999999999988665554
No 76
>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=23.13 E-value=2.1e+02 Score=19.13 Aligned_cols=37 Identities=19% Similarity=0.213 Sum_probs=25.8
Q ss_pred HHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHH
Q 043998 53 HAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLR 89 (101)
Q Consensus 53 ~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~ 89 (101)
-.+||+|.....+|...-|++.-+-|+...+-++..+
T Consensus 65 ~lRe~~R~~~~~l~~~~d~v~~~r~~~~~~~~~~l~~ 101 (111)
T PF00825_consen 65 RLREAFRLNKPELPPGYDIVFIARPGALELSFEELEK 101 (111)
T ss_dssp HHHHHHHHCTTTS-SSSEEEEEE-CGGGGS-HHHHHH
T ss_pred HHHHHHHHHHhhccCCcEEEEEEcCCcCcCCHHHHHH
Confidence 4579999999999977777777777776666655543
No 77
>PF00479 G6PD_N: Glucose-6-phosphate dehydrogenase, NAD binding domain; InterPro: IPR022674 Glucose-6-phosphate dehydrogenase (1.1.1.49 from EC) (G6PDH) is a ubiquitous protein, present in bacteria and all eukaryotic cell types []. The enzyme catalyses the the first step in the pentose pathway, i.e. the conversion of glucose-6-phosphate to gluconolactone 6-phosphate in the presence of NADP, producing NADPH. The ubiquitous expression of the enzyme gives it a major role in the production of NADPH for the many NADPH-mediated reductive processes in all cells []. Deficiency of G6PDH is a common genetic abnormality affecting millions of people worldwide. Many sequence variants, most caused by single point mutations, are known, exhibiting a wide variety of phenotypes []. This entry represents the NAD-binding domain of glucose-6-phosphate dehydrogenase.; GO: 0004345 glucose-6-phosphate dehydrogenase activity, 0050661 NADP binding, 0006006 glucose metabolic process, 0055114 oxidation-reduction process; PDB: 4EM5_C 4E9I_A 2DPG_A 1E77_A 1E7M_A 1H9B_A 1E7Y_A 1DPG_B 1H93_A 1H9A_A ....
Probab=22.51 E-value=1.5e+02 Score=22.08 Aligned_cols=44 Identities=23% Similarity=0.225 Sum_probs=34.2
Q ss_pred CCCeEEEEeeCCCChHHHHHHHhhcccCCC--CccEEEEecCCCcc
Q 043998 37 ALQTIFKLFHPDSNSHHAQEALHRAKFKFP--VRQKIIVSRKWGFT 80 (101)
Q Consensus 37 ~GQvI~svr~k~~~~~~akEALrRAk~KfP--grqkI~is~k~GFT 80 (101)
.+..||-+-+.|.-...+.+.|..++.--+ |..||+|+|=.|..
T Consensus 104 ~~~rifYLAvPP~~f~~i~~~L~~~~l~~~~~g~~RiVvEKPFG~D 149 (183)
T PF00479_consen 104 EANRIFYLAVPPSLFGPIARNLSEAGLNEEPNGWSRIVVEKPFGRD 149 (183)
T ss_dssp TSEEEEEE-S-GGGHHHHHHHHHHHT-S-TSSS-EEEEESSTSTSS
T ss_pred CcceEEEeccCHHHHHHHHHHHHHHhcccccCCceEEEEeCCCCCC
Confidence 356899999999999999999999988766 57999999999964
No 78
>PLN02790 transketolase
Probab=22.38 E-value=2.6e+02 Score=24.91 Aligned_cols=50 Identities=12% Similarity=0.135 Sum_probs=32.6
Q ss_pred EeeCC--CChHHHHHHHhhcccCCCCccEEEEe--cCCCcc-----------ccCHHHHHHHHHc
Q 043998 44 LFHPD--SNSHHAQEALHRAKFKFPVRQKIIVS--RKWGFT-----------KFSRADYLRWKSE 93 (101)
Q Consensus 44 vr~k~--~~~~~akEALrRAk~KfPgrqkI~is--~k~GFT-----------~~~~~e~~~~~~e 93 (101)
+.+.. .+.+...+||+.|+-.-.+|.-|++. +++|+. .++.+++.+.+++
T Consensus 204 ~~vdgg~hd~~~l~~a~~~a~~~~~~P~lI~~~T~kG~G~~~~e~~~~~H~~~~~~~~~~~~~~~ 268 (654)
T PLN02790 204 IWVKNGNTDYDEIRAAIKEAKAVTDKPTLIKVTTTIGYGSPNKANSYSVHGAALGEKEVDATRKN 268 (654)
T ss_pred EEECCCCCCHHHHHHHHHHHHhcCCCeEEEEEEEeecCCCccccCCCCcCCCCCCHHHHHHHHHH
Confidence 44555 57899999999987534556665544 567764 3456666666654
No 79
>COG0810 TonB Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]
Probab=22.20 E-value=1.9e+02 Score=22.10 Aligned_cols=28 Identities=29% Similarity=0.407 Sum_probs=20.6
Q ss_pred HHHHHHHhhcccCCCCcc----EEEEecCCCc
Q 043998 52 HHAQEALHRAKFKFPVRQ----KIIVSRKWGF 79 (101)
Q Consensus 52 ~~akEALrRAk~KfPgrq----kI~is~k~GF 79 (101)
..|.+|.|+++++.|-+- .|.|..-|-|
T Consensus 210 ~aal~air~~~~~p~~p~~~~~~~~i~~~f~f 241 (244)
T COG0810 210 RAALEAIRKWRFKPPKPGGKKVGIKITIPFKF 241 (244)
T ss_pred HHHHHHHHHhccCCCCCCCCccceeEEEEEec
Confidence 568889999999988766 4555555554
No 80
>PRK10665 nitrogen regulatory protein P-II 2; Provisional
Probab=21.82 E-value=1.8e+02 Score=20.23 Aligned_cols=38 Identities=13% Similarity=0.134 Sum_probs=31.1
Q ss_pred CeEEEEeeCCCChHHHHHHHhhccc-CCCCccEEEEecC
Q 043998 39 QTIFKLFHPDSNSHHAQEALHRAKF-KFPVRQKIIVSRK 76 (101)
Q Consensus 39 QvI~svr~k~~~~~~akEALrRAk~-KfPgrqkI~is~k 76 (101)
.+.+++.|.+++.+.+.+++..|.. =-+|.-||.|+.=
T Consensus 58 k~~ieivv~de~ve~vv~~I~~~a~TG~~GDGkIfV~pV 96 (112)
T PRK10665 58 KVKIDVAIADDQLDEVIDIISKAAYTGKIGDGKIFVAEL 96 (112)
T ss_pred eEEEEEEEChHhHHHHHHHHHHHhccCCCCCcEEEEEEh
Confidence 5778999999999999999888754 3577788988753
No 81
>PTZ00488 Proteasome subunit beta type-5; Provisional
Probab=21.73 E-value=1.9e+02 Score=22.48 Aligned_cols=43 Identities=19% Similarity=0.277 Sum_probs=29.6
Q ss_pred hHHHHHHHhhccc--CCC-CccEEEEecCCCccccCHHHHHHHHHc
Q 043998 51 SHHAQEALHRAKF--KFP-VRQKIIVSRKWGFTKFSRADYLRWKSE 93 (101)
Q Consensus 51 ~~~akEALrRAk~--KfP-grqkI~is~k~GFT~~~~~e~~~~~~e 93 (101)
.+.+++||+-|.. .+- ..-.|.|-.+.||+.++.+|-+++.++
T Consensus 192 i~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei~~~l~~ 237 (247)
T PTZ00488 192 QDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDCFDLHQK 237 (247)
T ss_pred HHHHHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHHHHHHHH
Confidence 4556666766655 233 344666667899999999998888753
No 82
>PF13541 ChlI: Subunit ChlI of Mg-chelatase
Probab=21.64 E-value=82 Score=22.30 Aligned_cols=25 Identities=32% Similarity=0.577 Sum_probs=19.9
Q ss_pred CChHHHHHHHhhcccCCCCccEEEEe
Q 043998 49 SNSHHAQEALHRAKFKFPVRQKIIVS 74 (101)
Q Consensus 49 ~~~~~akEALrRAk~KfPgrqkI~is 74 (101)
+..+.++-||+...++|| .++|.|.
T Consensus 24 esr~Rv~~al~~~g~~~p-~~~i~VN 48 (121)
T PF13541_consen 24 ESRERVRSALKNSGFPFP-NQDITVN 48 (121)
T ss_pred HHHHHHHHHHHhcCCCCC-cceeeeE
Confidence 455778889999999999 5777765
No 83
>PF03992 ABM: Antibiotic biosynthesis monooxygenase; InterPro: IPR007138 This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species, which can carry out oxygenation without the assistance of any of the prosthetic groups, metal ions or cofactors normally associated with activation of molecular oxygen. The structure of ActVA-Orf6 monooxygenase from Streptomyces coelicolor (Q53908 from SWISSPROT), which is involved in actinorhodin biosynthesis, reveals a dimeric alpha+beta barrel topology []. There is also a conserved histidine that is likely to be an active site residue. In S. coelicolor SCO1909 (Q9X9W3 from SWISSPROT) this domain occurs as a repeat. This domain is also found in protein LsrG, involved in the degradation of quorum-sensing molecule autoinducer-2 [], and in several uncharacterised proteins.; PDB: 1X7V_A 3F44_A 4DN9_B 1N5T_B 1LQ9_A 1N5Q_B 1N5V_A 1N5S_A 2GFF_B 3BM7_A ....
Probab=21.25 E-value=1.8e+02 Score=16.84 Aligned_cols=36 Identities=17% Similarity=0.038 Sum_probs=25.6
Q ss_pred eEEEEeeCCCChHHHHHHHhhc---c-cCCCCccEEEEec
Q 043998 40 TIFKLFHPDSNSHHAQEALHRA---K-FKFPVRQKIIVSR 75 (101)
Q Consensus 40 vI~svr~k~~~~~~akEALrRA---k-~KfPgrqkI~is~ 75 (101)
+|+.+.+++.+.+...++++.. - -+.||..-..+.+
T Consensus 4 v~~~~~v~~~~~~~f~~~~~~~~~~~~~~~~G~~~~~~~~ 43 (78)
T PF03992_consen 4 VIVKFKVKPGKEEEFLAAFQELAEATLRKEPGCLSYELYR 43 (78)
T ss_dssp EEEEEEEETTGHHHHHHHHHHHHHHHHHTSTTEEEEEEEE
T ss_pred EEEEEEeCcchHHHHHHHHHHHHHHHHhcCCCcEEEEEEE
Confidence 5778888988887777666554 3 4888877665554
No 84
>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=20.89 E-value=70 Score=20.86 Aligned_cols=29 Identities=17% Similarity=0.092 Sum_probs=20.3
Q ss_pred cCCccccceeeecCCCeEEEEeeCCCChHHHH
Q 043998 24 NQSSMGICQSRFKALQTIFKLFHPDSNSHHAQ 55 (101)
Q Consensus 24 FGKP~G~aA~RV~~GQvI~svr~k~~~~~~ak 55 (101)
+=++-|. +|.+|++|++++-+..++..+.
T Consensus 49 ~~~~dG~---~v~~g~~i~~i~G~a~~ll~~E 77 (88)
T PF02749_consen 49 WLVKDGD---RVEPGDVILEIEGPARALLTAE 77 (88)
T ss_dssp ESS-TT----EEETTCEEEEEEEEHHHHHHHH
T ss_pred EEeCCCC---CccCCcEEEEEEeCHHHHHHHH
Confidence 3345555 7899999999998877665554
No 85
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=20.59 E-value=1.5e+02 Score=24.64 Aligned_cols=41 Identities=12% Similarity=0.209 Sum_probs=31.4
Q ss_pred cCCCeEEEEeeCCCChHHHHHHHhhcccCCCCccEEEEecCC---CccccC
Q 043998 36 KALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKW---GFTKFS 83 (101)
Q Consensus 36 ~~GQvI~svr~k~~~~~~akEALrRAk~KfPgrqkI~is~k~---GFT~~~ 83 (101)
..|..|+-|-++.+..+.++++..++... .|..+| -||||.
T Consensus 57 ~~gg~iLfVgTk~~~~~~V~~~A~~~g~~-------yV~~RWlgG~LTN~~ 100 (326)
T PRK12311 57 AKGGRVLFVGTKRQAQDAVADAAKRSAQY-------FVNSRWLGGTLTNWK 100 (326)
T ss_pred hCCCEEEEEeCcHHHHHHHHHHHHHhCCe-------eeCCeecCcccCCHH
Confidence 56788888999999889999988887543 345556 588876
No 86
>PRK08639 threonine dehydratase; Validated
Probab=20.57 E-value=90 Score=25.86 Aligned_cols=30 Identities=7% Similarity=0.004 Sum_probs=24.9
Q ss_pred cCCCeEEEEeeCC-CChHHHHHHHhhcccCC
Q 043998 36 KALQTIFKLFHPD-SNSHHAQEALHRAKFKF 65 (101)
Q Consensus 36 ~~GQvI~svr~k~-~~~~~akEALrRAk~Kf 65 (101)
..+.+.+.+.+++ +|.+...++|+.+.|++
T Consensus 376 ~~~~v~v~iE~~~~~h~~~i~~~L~~~Gy~~ 406 (420)
T PRK08639 376 ETGPVLVGIELKDAEDYDGLIERMEAFGPSY 406 (420)
T ss_pred CceEEEEEEEeCCHHHHHHHHHHHHHCCCce
Confidence 4457889999997 69999999999988764
No 87
>PRK09243 nicotinate phosphoribosyltransferase; Validated
Probab=20.37 E-value=1.6e+02 Score=25.29 Aligned_cols=43 Identities=23% Similarity=0.288 Sum_probs=31.2
Q ss_pred hHHHHHHHhhcccCCCCccEEEEecCCCccccCHHHHHHHHHcCccccCCC
Q 043998 51 SHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSENRMSWSFG 101 (101)
Q Consensus 51 ~~~akEALrRAk~KfPgrqkI~is~k~GFT~~~~~e~~~~~~e~~l~~~~~ 101 (101)
...+++.|..+.+ | +.||++|.+ ++.+.-.++..+|..+-+||
T Consensus 272 ~~~vr~~ld~~G~--~-~~kIi~S~g-----Lde~~i~~l~~~g~~id~fG 314 (464)
T PRK09243 272 SKKVRKMLDEAGF--T-DTKIVASND-----LDEYTIASLKLQGAPIDGFG 314 (464)
T ss_pred HHHHHHHHHHCCC--C-CcEEEEeCC-----CCHHHHHHHHhCCCCceEEE
Confidence 4678889998874 4 488998876 34455566678888777776
No 88
>PF00976 ACTH_domain: Corticotropin ACTH domain; InterPro: IPR013531 Pro-opiomelanocortin is present in high levels in the pituitary and is processed into 3 major peptide families: adrenocorticotrophin (ACTH); alpha-, beta- and gamma-melanocyte- stimulating hormones (MSH); and beta-endorphin []. ACTH regulates the synthesis and release of glucocorticoids and, to some extent, aldosterone in the adrenal cortex. It is synthesised and released in response to corticotrophin-releasing factor at times of stress (i.e. heat, cold, infection, etc.), its release leading to increased metabolism. The action of MSH in man is poorly understood, but it may be involved in temperature regulation []. Full activity of ACTH resides in the first 20 N-terminal amino acids, the first 13 of which are identical to alpha-MSH [, ]. The function of this region is not known, though it is found near the centre of these proteins.
Probab=20.04 E-value=44 Score=20.29 Aligned_cols=9 Identities=11% Similarity=-0.045 Sum_probs=6.9
Q ss_pred hcCCccccc
Q 043998 23 SNQSSMGIC 31 (101)
Q Consensus 23 AFGKP~G~a 31 (101)
-||||+|.-
T Consensus 8 rwgkp~g~K 16 (39)
T PF00976_consen 8 RWGKPVGRK 16 (39)
T ss_pred eccCCCCcc
Confidence 389999853
Done!