Query 043596
Match_columns 96
No_of_seqs 105 out of 226
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 06:31:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043596.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043596hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0857 60s ribosomal protein 100.0 1.1E-32 2.5E-37 211.5 7.1 78 9-86 134-211 (212)
2 PTZ00173 60S ribosomal protein 100.0 1.3E-30 2.8E-35 200.3 8.2 80 8-87 132-211 (213)
3 TIGR00279 L10e ribosomal prote 98.5 2E-07 4.4E-12 70.2 4.4 42 8-49 129-170 (172)
4 PRK04199 rpl10e 50S ribosomal 98.0 6.4E-06 1.4E-10 62.1 4.3 39 8-46 129-167 (172)
5 COG0197 RplP Ribosomal protein 97.8 1.9E-05 4.1E-10 58.4 3.2 41 8-51 103-145 (146)
6 PRK09203 rplP 50S ribosomal pr 97.3 0.00027 5.8E-09 51.1 3.9 35 8-44 100-134 (138)
7 cd01433 Ribosomal_L16_L10e Rib 95.2 0.026 5.5E-07 38.8 3.4 33 9-42 80-112 (112)
8 TIGR01164 rplP_bact ribosomal 93.9 0.055 1.2E-06 38.6 2.7 28 8-37 99-126 (126)
9 PF00252 Ribosomal_L16: Riboso 93.1 0.11 2.4E-06 36.9 3.1 32 10-42 101-132 (133)
10 CHL00044 rpl16 ribosomal prote 92.9 0.17 3.6E-06 36.6 3.9 33 9-43 101-133 (135)
11 PRK06770 hypothetical protein; 76.6 1.2 2.5E-05 34.3 0.9 40 19-63 67-106 (180)
12 cd04906 ACT_ThrD-I_1 First of 59.3 9.6 0.00021 24.4 2.3 27 9-35 41-69 (85)
13 cd04885 ACT_ThrD-I Tandem C-te 56.8 12 0.00026 22.8 2.4 27 9-35 39-66 (68)
14 PRK15458 tagatose 6-phosphate 45.1 36 0.00078 29.3 4.2 49 10-63 18-73 (426)
15 PHA01632 hypothetical protein 44.2 12 0.00027 24.4 1.0 18 32-49 46-63 (64)
16 TIGR02810 agaZ_gatZ D-tagatose 43.7 40 0.00086 29.0 4.2 73 10-87 14-95 (420)
17 PRK15052 D-tagatose-1,6-bispho 43.3 41 0.00088 29.0 4.2 72 11-87 16-96 (421)
18 PF14270 DUF4358: Domain of un 42.3 24 0.00052 23.5 2.2 56 10-76 47-103 (106)
19 PF12434 Malate_DH: Malate deh 40.7 21 0.00046 20.0 1.5 19 15-33 4-22 (28)
20 KOG0226 RNA-binding proteins [ 40.3 22 0.00047 29.3 2.1 61 10-74 189-258 (290)
21 PF11504 Colicin_Ia: Colicin I 36.4 19 0.00041 23.8 1.0 16 32-47 12-31 (72)
22 PF13541 ChlI: Subunit ChlI of 36.0 29 0.00062 24.4 1.9 28 18-46 23-50 (121)
23 PF04166 PdxA: Pyridoxal phosp 35.8 20 0.00043 29.0 1.2 49 25-84 99-147 (298)
24 cd03773 MATH_TRIM37 Tripartite 34.5 26 0.00056 23.3 1.4 29 44-74 96-126 (132)
25 cd03775 MATH_Ubp21p Ubiquitin- 34.4 27 0.00059 23.7 1.6 31 44-74 96-130 (134)
26 COG3195 Uncharacterized protei 34.3 39 0.00084 26.1 2.5 20 9-30 123-142 (176)
27 PRK03946 pdxA 4-hydroxythreoni 33.2 21 0.00046 29.2 1.0 48 25-84 107-154 (307)
28 cd04909 ACT_PDH-BS C-terminal 32.6 36 0.00079 20.0 1.8 23 11-34 46-68 (69)
29 cd03772 MATH_HAUSP Herpesvirus 32.5 28 0.00061 23.6 1.4 30 45-74 98-127 (137)
30 cd03774 MATH_SPOP Speckle-type 31.7 33 0.00071 23.3 1.6 26 45-70 102-127 (139)
31 PF13353 Fer4_12: 4Fe-4S singl 31.2 46 0.001 21.9 2.3 50 20-70 68-117 (139)
32 COG2193 Bfr Bacterioferritin ( 31.0 20 0.00043 27.2 0.5 19 45-63 33-51 (157)
33 TIGR00557 pdxA 4-hydroxythreon 30.8 23 0.0005 29.0 0.8 48 25-84 118-166 (320)
34 cd04883 ACT_AcuB C-terminal AC 30.3 62 0.0013 19.0 2.5 28 9-36 42-69 (72)
35 KOG3422 Mitochondrial ribosoma 30.0 51 0.0011 26.2 2.6 27 19-45 151-177 (221)
36 KOG2367 Alpha-isopropylmalate 29.4 34 0.00073 30.5 1.6 26 7-32 120-146 (560)
37 cd07491 Peptidases_S8_7 Peptid 29.0 1.2E+02 0.0027 22.9 4.5 40 9-52 66-115 (247)
38 PRK00232 pdxA 4-hydroxythreoni 28.9 24 0.00052 29.1 0.6 49 25-84 126-174 (332)
39 PF13282 DUF4070: Domain of un 28.9 28 0.00061 25.0 1.0 12 57-68 4-15 (146)
40 cd07895 Adenylation_mRNA_cappi 28.4 80 0.0017 23.1 3.3 38 30-76 17-57 (215)
41 KOG4603 TBP-1 interacting prot 26.9 61 0.0013 25.4 2.5 42 21-62 39-86 (201)
42 PF09288 UBA_3: Fungal ubiquit 25.9 49 0.0011 21.0 1.5 15 21-35 23-37 (55)
43 PRK03743 pdxA 4-hydroxythreoni 25.4 31 0.00067 28.4 0.7 48 26-84 127-174 (332)
44 PRK13677 hypothetical protein; 24.2 47 0.001 24.4 1.4 16 32-47 47-62 (125)
45 PHA02957 hypothetical protein; 24.1 41 0.00089 26.1 1.1 30 37-66 118-147 (206)
46 PF03720 UDPG_MGDP_dh_C: UDP-g 23.7 69 0.0015 21.1 2.0 37 37-73 66-103 (106)
47 COG4208 CysW ABC-type sulfate 23.6 41 0.0009 27.6 1.1 16 26-41 88-103 (287)
48 PF11823 DUF3343: Protein of u 23.6 71 0.0015 19.9 2.0 27 11-37 42-68 (73)
49 PF09419 PGP_phosphatase: Mito 23.4 68 0.0015 23.8 2.1 34 18-51 58-91 (168)
50 PRK03371 pdxA 4-hydroxythreoni 23.4 38 0.00083 27.9 0.9 48 26-84 126-173 (326)
51 PF07747 MTH865: MTH865-like f 23.0 56 0.0012 21.8 1.5 16 20-37 3-18 (75)
52 COG5226 CEG1 mRNA capping enzy 22.8 1E+02 0.0022 26.4 3.3 46 33-87 41-89 (404)
53 PF14306 PUA_2: PUA-like domai 22.5 56 0.0012 24.0 1.5 19 52-71 57-75 (160)
54 PF06969 HemN_C: HemN C-termin 22.2 78 0.0017 18.8 1.9 57 19-80 6-64 (66)
55 PF13388 DUF4106: Protein of u 22.1 21 0.00046 30.3 -0.8 48 10-77 29-77 (422)
56 cd07473 Peptidases_S8_Subtilis 20.8 2.2E+02 0.0048 20.7 4.4 55 9-67 90-151 (259)
57 PRK05312 pdxA 4-hydroxythreoni 20.8 44 0.00096 27.6 0.7 54 25-84 125-178 (336)
No 1
>KOG0857 consensus 60s ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.1e-32 Score=211.50 Aligned_cols=78 Identities=45% Similarity=0.714 Sum_probs=76.3
Q ss_pred CceEEeeCCCCChhHHHHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCCCC
Q 043596 9 PTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLANRQ 86 (96)
Q Consensus 9 ~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~~~ 86 (96)
-++||||||++|++|+|||||||||||||+|||+||+|||||+|++|||++|..++++++|||+|+|++.+|||++|.
T Consensus 134 qvi~Svrtk~~nkeh~ieal~rak~kfpG~qki~vs~kwgftk~~~def~~~~~~~~~~~~g~~vk~~~~~gp~~~~~ 211 (212)
T KOG0857|consen 134 QVIMSVRTKLQNKEHVIEALRRAKFKFPGRQKIVVSKKWGFTKFDRDEFEDLRARKRLEPDGCGVKFIPVCGPLQAII 211 (212)
T ss_pred ceEEEeecCcccHHHHHHHHHhccccCCCceeEEeeeecCccccchhHHHHHHhhcceeccCCceeeecccCchhhcc
Confidence 478999999999999999999999999999999999999999999999999999999999999999999999999985
No 2
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=99.97 E-value=1.3e-30 Score=200.28 Aligned_cols=80 Identities=43% Similarity=0.741 Sum_probs=77.6
Q ss_pred CCceEEeeCCCCChhHHHHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCCCCC
Q 043596 8 DPTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLANRQP 87 (96)
Q Consensus 8 ~~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~~~~ 87 (96)
.-++|+||++++|.++|+||||||++|||++|||++|++||||+|+++||++|+++|+|++|||+|+++++||||++|..
T Consensus 132 Gqiifei~~~~~~~~~AkeALrrA~~KlP~~~kIv~~~~wgft~~~~~~~~~~~~~~~~~~~g~~~~~~~~~g~l~~~~~ 211 (213)
T PTZ00173 132 GQILLSIRTKEAYVPQAIEALRRAKYKFPGRQKIVVSNKWGFTNYTREEYQKLRAEGKLIQDGVHVKLISPKGPLTKVNP 211 (213)
T ss_pred CCEEEEEecccCCHHHHHHHHHHhcccCCCeEEEEEecccCccccCHHHHHHHHHCCeEecCCceEEEeCCCCChhhhhc
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999964
No 3
>TIGR00279 L10e ribosomal protein L10.e. L10.e is distantly related to eubacterial ribosomal protein L16.
Probab=98.46 E-value=2e-07 Score=70.23 Aligned_cols=42 Identities=38% Similarity=0.493 Sum_probs=39.7
Q ss_pred CCceEEeeCCCCChhHHHHHHHhcCccCCCceeEEecccccc
Q 043596 8 DPTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIVSRKWGF 49 (96)
Q Consensus 8 ~~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~vSkkWGF 49 (96)
.-++++|++..++.++|.||||+|.+|+|++++|+++++|+.
T Consensus 129 Gqiifei~~~~~~~~~AkeAlr~A~~KLP~~~kiv~~~~~~~ 170 (172)
T TIGR00279 129 GQKIFSVWTKPSNFDVAKEALRRAAMKFPVPCKIVIEKGWEL 170 (172)
T ss_pred CCEEEEEEeecCCHHHHHHHHHHHhccCCCcEEEEEecCccc
Confidence 457999999999999999999999999999999999999985
No 4
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=98.03 E-value=6.4e-06 Score=62.15 Aligned_cols=39 Identities=28% Similarity=0.325 Sum_probs=36.4
Q ss_pred CCceEEeeCCCCChhHHHHHHHhcCccCCCceeEEeccc
Q 043596 8 DPTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIVSRK 46 (96)
Q Consensus 8 ~~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~vSkk 46 (96)
.-++++|++..++.++|.||||+|.+|+|++++|+++++
T Consensus 129 G~ilfei~~~~~~~~~akeAlr~a~~KLP~k~kiv~~~~ 167 (172)
T PRK04199 129 GQKIFTVRVNPEHLEAAKEALRRAAMKLPTPCRIVVEKG 167 (172)
T ss_pred CCEEEEEEecCCCHHHHHHHHHHhhccCCCcEEEEEecc
Confidence 457999999999999999999999999999999998875
No 5
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=97.79 E-value=1.9e-05 Score=58.41 Aligned_cols=41 Identities=32% Similarity=0.269 Sum_probs=36.6
Q ss_pred CCceEEeeCCCCChhHHHHHHHhcCccCCCc--eeEEecccccccc
Q 043596 8 DPTAGCNDGTDSNSHHAQEALRRAKFKFPVR--QKIIVSRKWGFTK 51 (96)
Q Consensus 8 ~~~~~~vRtKd~~~~~viEALRRAKfKFPGR--QKI~vSkkWGFTk 51 (96)
.-++++|++.+.+. |.||||||.+|||++ ++|.++. |.++.
T Consensus 103 G~vlfei~g~~e~~--A~EAlr~Aa~KLP~~~~~v~~~~~-~~~~~ 145 (146)
T COG0197 103 GRVLFEIAGVPEEL--AREALRRAAAKLPVKTKFVIRIEK-REGTE 145 (146)
T ss_pred CcEEEEEecCcHHH--HHHHHHHHhhcCCCceEEEEEEec-chhcc
Confidence 44789999999988 999999999999999 9999998 87764
No 6
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=97.34 E-value=0.00027 Score=51.09 Aligned_cols=35 Identities=29% Similarity=0.301 Sum_probs=31.5
Q ss_pred CCceEEeeCCCCChhHHHHHHHhcCccCCCceeEEec
Q 043596 8 DPTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIVS 44 (96)
Q Consensus 8 ~~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~vS 44 (96)
.-+++.|++ .+.++|.|||++|.+|+|++++|+..
T Consensus 100 G~iifEi~~--~~~~~a~~al~~a~~KLP~~~kii~~ 134 (138)
T PRK09203 100 GRILFEIAG--VSEELAREALRLAAAKLPIKTKFVKR 134 (138)
T ss_pred CCEEEEEeC--CCHHHHHHHHHHHhccCCCcEEEEEe
Confidence 457899999 79999999999999999999999864
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=95.19 E-value=0.026 Score=38.85 Aligned_cols=33 Identities=36% Similarity=0.434 Sum_probs=28.3
Q ss_pred CceEEeeCCCCChhHHHHHHHhcCccCCCceeEE
Q 043596 9 PTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKII 42 (96)
Q Consensus 9 ~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~ 42 (96)
-+++.+.+... .+.+.+||++|.+|+|.+++++
T Consensus 80 ~iifEi~~~~~-~~~~~~alk~a~~Klp~~~k~i 112 (112)
T cd01433 80 QILFEVRGVPE-EEVAKEALRRAAKKLPIKTKIV 112 (112)
T ss_pred CEEEEEeCcCc-HHHHHHHHHHhhccCCCcEEEC
Confidence 35777887776 9999999999999999998874
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=93.92 E-value=0.055 Score=38.58 Aligned_cols=28 Identities=29% Similarity=0.230 Sum_probs=24.8
Q ss_pred CCceEEeeCCCCChhHHHHHHHhcCccCCC
Q 043596 8 DPTAGCNDGTDSNSHHAQEALRRAKFKFPV 37 (96)
Q Consensus 8 ~~~~~~vRtKd~~~~~viEALRRAKfKFPG 37 (96)
.-+++.|++ .+.++|.|||++|.+|+|.
T Consensus 99 G~ilfEi~~--~~~~~a~~al~~a~~KLP~ 126 (126)
T TIGR01164 99 GKILFEIAG--VPEEVAREAFRLAASKLPI 126 (126)
T ss_pred CCEEEEEeC--CCHHHHHHHHHHHHhcCCC
Confidence 447888988 8999999999999999994
No 9
>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=93.06 E-value=0.11 Score=36.93 Aligned_cols=32 Identities=34% Similarity=0.460 Sum_probs=26.6
Q ss_pred ceEEeeCCCCChhHHHHHHHhcCccCCCceeEE
Q 043596 10 TAGCNDGTDSNSHHAQEALRRAKFKFPVRQKII 42 (96)
Q Consensus 10 ~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~ 42 (96)
+++.+.++ -+...|.|||++|.+|+|++.+|+
T Consensus 101 iifEi~~~-v~~~~a~~alk~a~~KLP~~~~~v 132 (133)
T PF00252_consen 101 IIFEIGGK-VNEEEAKEALKRAAKKLPIKTKFV 132 (133)
T ss_dssp EEEEEESG-SCHHHHHHHHHHHHHTSSSCEEEE
T ss_pred EEEEECCc-CCHHHHHHHHHHHHhhCCCCEEEe
Confidence 56677332 388999999999999999999986
No 10
>CHL00044 rpl16 ribosomal protein L16
Probab=92.88 E-value=0.17 Score=36.60 Aligned_cols=33 Identities=21% Similarity=0.378 Sum_probs=27.1
Q ss_pred CceEEeeCCCCChhHHHHHHHhcCccCCCceeEEe
Q 043596 9 PTAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIV 43 (96)
Q Consensus 9 ~~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~v 43 (96)
-+++.|..-+ ..+|.|||++|.+|+|++-+|+.
T Consensus 101 ~ilfEi~g~~--~~~ak~al~~a~~KLP~k~~~v~ 133 (135)
T CHL00044 101 RILYEMGGVS--ETIARAAIKIAAYKMPIKTQFII 133 (135)
T ss_pred cEEEEEeCCC--HHHHHHHHHHHhhcCCCcEEEEe
Confidence 3567777743 47999999999999999998875
No 11
>PRK06770 hypothetical protein; Provisional
Probab=76.60 E-value=1.2 Score=34.29 Aligned_cols=40 Identities=25% Similarity=0.467 Sum_probs=32.9
Q ss_pred CChhHHHHHHHhcCccCCCceeEEecccccccccChHHHHhhhhc
Q 043596 19 SNSHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSE 63 (96)
Q Consensus 19 ~~~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~e 63 (96)
.....++.|+..- -+||+.-++||||+..+.+.-..|++.
T Consensus 67 ~tE~~ii~~MH~M-----tHQKV~A~~KwG~~~mT~enI~~l~~~ 106 (180)
T PRK06770 67 STEEEIITAMHKM-----THQKVKADEKWGFIEMTQENIEKLKDI 106 (180)
T ss_pred cCHHHHHHHHHHH-----HhhhhhhhcccceEecCHHHHHHHHHH
Confidence 4567778777754 369999999999999999999888664
No 12
>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=59.34 E-value=9.6 Score=24.38 Aligned_cols=27 Identities=11% Similarity=0.025 Sum_probs=23.0
Q ss_pred CceEEeeCCC--CChhHHHHHHHhcCccC
Q 043596 9 PTAGCNDGTD--SNSHHAQEALRRAKFKF 35 (96)
Q Consensus 9 ~~~~~vRtKd--~~~~~viEALRRAKfKF 35 (96)
.+.+.+.+++ +|.+.++++|+.+.|+|
T Consensus 41 ~v~i~ie~~~~~~~~~~i~~~L~~~G~~~ 69 (85)
T cd04906 41 HIFVGVSVANGAEELAELLEDLKSAGYEV 69 (85)
T ss_pred EEEEEEEeCCcHHHHHHHHHHHHHCCCCe
Confidence 4667788888 88999999999999876
No 13
>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=56.83 E-value=12 Score=22.76 Aligned_cols=27 Identities=11% Similarity=0.083 Sum_probs=22.2
Q ss_pred CceEEeeCCC-CChhHHHHHHHhcCccC
Q 043596 9 PTAGCNDGTD-SNSHHAQEALRRAKFKF 35 (96)
Q Consensus 9 ~~~~~vRtKd-~~~~~viEALRRAKfKF 35 (96)
++-+.+-+++ .|...++++|+.+.|+|
T Consensus 39 ~v~v~ie~~~~~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 39 RVLVGIQVPDREDLAELKERLEALGYPY 66 (68)
T ss_pred EEEEEEEeCCHHHHHHHHHHHHHcCCCc
Confidence 4556778886 78999999999999875
No 14
>PRK15458 tagatose 6-phosphate aldolase subunit KbaZ; Provisional
Probab=45.13 E-value=36 Score=29.32 Aligned_cols=49 Identities=18% Similarity=0.093 Sum_probs=33.2
Q ss_pred ceEEeeCCCCChhHHHHH-HHhcCc-cCCCceeEEecc-----cccccccChHHHHhhhhc
Q 043596 10 TAGCNDGTDSNSHHAQEA-LRRAKF-KFPVRQKIIVSR-----KWGFTKFSRANYLRCKSE 63 (96)
Q Consensus 10 ~~~~vRtKd~~~~~viEA-LRRAKf-KFPGRQKI~vSk-----kWGFTk~~r~ey~~~~~e 63 (96)
.+.||.+- -..|||| |++|+= .+| --|.-|. .-|+|.++..+|.+...+
T Consensus 18 gI~sVCsa---hp~VieAAl~~a~~~~~p--vLiEAT~NQVnq~GGYTGmtP~dF~~~V~~ 73 (426)
T PRK15458 18 GIYAVCSA---HPLVLEAAIRYALANDSP--LLIEATSNQVDQFGGYTGMTPADFRGFVCQ 73 (426)
T ss_pred eEEEecCC---CHHHHHHHHHHHhhcCCc--EEEEeccccccccCCcCCCCHHHHHHHHHH
Confidence 56677653 3467777 999975 333 2233232 249999999999988877
No 15
>PHA01632 hypothetical protein
Probab=44.24 E-value=12 Score=24.40 Aligned_cols=18 Identities=28% Similarity=0.519 Sum_probs=14.4
Q ss_pred CccCCCceeEEecccccc
Q 043596 32 KFKFPVRQKIIVSRKWGF 49 (96)
Q Consensus 32 KfKFPGRQKI~vSkkWGF 49 (96)
++-=-|.-||.-|+.||.
T Consensus 46 nmie~gk~ki~ds~ewgi 63 (64)
T PHA01632 46 NMIENGKIKILDSKEWGI 63 (64)
T ss_pred HHHhcCceEEeccccccc
Confidence 334468999999999995
No 16
>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=43.72 E-value=40 Score=29.03 Aligned_cols=73 Identities=21% Similarity=0.047 Sum_probs=42.8
Q ss_pred ceEEeeCCCCChhHHHHH-HHhcCc-cCCCceeEEecc-----cccccccChHHHHhhhhc--CeeeccCceEEEeCCCC
Q 043596 10 TAGCNDGTDSNSHHAQEA-LRRAKF-KFPVRQKIIVSR-----KWGFTKFSRANYLRCKSE--NRIVPDGVNAKLFECHG 80 (96)
Q Consensus 10 ~~~~vRtKd~~~~~viEA-LRRAKf-KFPGRQKI~vSk-----kWGFTk~~r~ey~~~~~e--g~Lv~DG~~vk~~~~~G 80 (96)
.+.||.+- -..|||| |++||= .+| .-|.-|. .-|+|.++..+|.+...+ .++=-++.-+-+-.+|+
T Consensus 14 gI~sVCsa---hp~VieAAl~~a~~~~~p--vLiEAT~NQVnq~GGYTGmtP~dF~~~V~~iA~~~gf~~~~iiLggDHl 88 (420)
T TIGR02810 14 GIYSVCSA---HPLVLEAAIRRARASGTP--VLIEATSNQVNQFGGYTGMTPADFRDFVETIADRIGFPRDRLILGGDHL 88 (420)
T ss_pred eEEEECCC---CHHHHHHHHHHHhhcCCc--EEEEeccccccccCCcCCCCHHHHHHHHHHHHHHcCCChhcEEeecCCC
Confidence 56677653 3467777 999975 333 2233332 249999999999988877 11112223334445664
Q ss_pred CCCCCCC
Q 043596 81 PLANRQP 87 (96)
Q Consensus 81 pL~~~~~ 87 (96)
=-..|+.
T Consensus 89 GPn~Wq~ 95 (420)
T TIGR02810 89 GPNPWQH 95 (420)
T ss_pred CCccccC
Confidence 4445653
No 17
>PRK15052 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional
Probab=43.29 E-value=41 Score=28.97 Aligned_cols=72 Identities=14% Similarity=-0.087 Sum_probs=42.2
Q ss_pred eEEeeCCCCChhHHHHH-HHhcCc-cCCCceeEEecc-----cccccccChHHHHhhhhc--CeeeccCceEEEeCCCCC
Q 043596 11 AGCNDGTDSNSHHAQEA-LRRAKF-KFPVRQKIIVSR-----KWGFTKFSRANYLRCKSE--NRIVPDGVNAKLFECHGP 81 (96)
Q Consensus 11 ~~~vRtKd~~~~~viEA-LRRAKf-KFPGRQKI~vSk-----kWGFTk~~r~ey~~~~~e--g~Lv~DG~~vk~~~~~Gp 81 (96)
|.||.+- -..|||| |++||= .+| .-|.-|. .-|+|.++..+|.+...+ .++=-++.-+-+-.+|+=
T Consensus 16 i~SVCsa---hp~VieAAl~~a~~~~~p--vLiEAT~NQVdq~GGYTGmtP~dF~~~V~~iA~~~gf~~~~iiLggDHlG 90 (421)
T PRK15052 16 ICSVCSA---HPLVIEAALAFDLNSTRK--VLIEATSNQVNQFGGYTGMTPADFREFVYGIADKVGFPRERIILGGDHLG 90 (421)
T ss_pred eeeECCC---CHHHHHHHHHHHhhcCCc--EEEEeccccccccCCcCCCCHHHHHHHHHHHHHHcCCChhcEEeecCCCC
Confidence 5566553 3467777 999975 343 2333333 249999999999988877 111122233444556644
Q ss_pred CCCCCC
Q 043596 82 LANRQP 87 (96)
Q Consensus 82 L~~~~~ 87 (96)
-..|+.
T Consensus 91 Pn~Wq~ 96 (421)
T PRK15052 91 PNCWQQ 96 (421)
T ss_pred CccccC
Confidence 445654
No 18
>PF14270 DUF4358: Domain of unknown function (DUF4358)
Probab=42.25 E-value=24 Score=23.48 Aligned_cols=56 Identities=14% Similarity=0.254 Sum_probs=42.3
Q ss_pred ceEEeeCCCCC-hhHHHHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEe
Q 043596 10 TAGCNDGTDSN-SHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLF 76 (96)
Q Consensus 10 ~~~~vRtKd~~-~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~ 76 (96)
.+..+..+|.. .+.|.+||..- .-+.+=-|..|..++| .+.++..|...|.+|-|+
T Consensus 47 ei~v~k~kd~~~~e~Vk~~l~~r----------~~~q~~~f~~Y~p~q~-~~l~~a~v~~~G~yv~~v 103 (106)
T PF14270_consen 47 EIAVFKAKDGKQAEDVKKALEKR----------LESQKKSFEGYLPEQY-ELLENAKVKTKGNYVFFV 103 (106)
T ss_pred EEEEEEECCcCcHHHHHHHHHHH----------HHHHHHHHhccCHHHH-HHHhcCEEEeeCCEEEEE
Confidence 35568889988 88888888632 2344445888999999 566888999999998875
No 19
>PF12434 Malate_DH: Malate dehydrogenase enzyme
Probab=40.68 E-value=21 Score=20.03 Aligned_cols=19 Identities=32% Similarity=0.485 Sum_probs=15.6
Q ss_pred eCCCCChhHHHHHHHhcCc
Q 043596 15 DGTDSNSHHAQEALRRAKF 33 (96)
Q Consensus 15 RtKd~~~~~viEALRRAKf 33 (96)
+++..+++...++||+|-.
T Consensus 4 ~s~~d~~~~~r~~lR~AAL 22 (28)
T PF12434_consen 4 DSTADNKEDKRAQLRQAAL 22 (28)
T ss_pred cccccchHHHHHHHHHHHH
Confidence 4677888999999999954
No 20
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=40.29 E-value=22 Score=29.29 Aligned_cols=61 Identities=31% Similarity=0.344 Sum_probs=48.4
Q ss_pred ceEEeeCCCCChhHHHHHHHhcCccCCCceeEEe--------cccccccccC-hHHHHhhhhcCeeeccCceEE
Q 043596 10 TAGCNDGTDSNSHHAQEALRRAKFKFPVRQKIIV--------SRKWGFTKFS-RANYLRCKSENRIVPDGVNAK 74 (96)
Q Consensus 10 ~~~~vRtKd~~~~~viEALRRAKfKFPGRQKI~v--------SkkWGFTk~~-r~ey~~~~~eg~Lv~DG~~vk 74 (96)
.-.-|+|-|=-.+.-+|-|-||--|||--|+--| |+-+||-.|. -++|.....| .||.+|-
T Consensus 189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmre----m~gkyVg 258 (290)
T KOG0226|consen 189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMRE----MNGKYVG 258 (290)
T ss_pred ccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHh----hcccccc
Confidence 3467999998888889999999999999998665 4568998874 5788877777 5666553
No 21
>PF11504 Colicin_Ia: Colicin Ia; InterPro: IPR014740 Colicins are plasmid-encoded polypeptide toxins produced by and active against Escherichia coli and closely related bacteria. Colicins are released into the environment to reduce competition from other bacterial strains. Colicins bind to outer membrane receptors, using them to translocate to the cytoplasm or cytoplasmic membrane, where they exert their cytotoxic effect, including depolarisation of the cytoplasmic membrane, DNase activity, RNase activity, or inhibition of murein synthesis. Channel-forming colicins (colicins A, B, E1, Ia, Ib, and N) are transmembrane proteins that depolarize the cytoplasmic membrane, leading to dissipation of cellular energy []. These colicins contain at least three domains: an N-terminal translocation domain responsible for movement across the outer membrane and periplasmic space; a central domain responsible for receptor recognition; and a C-terminal cytotoxic domain responsible for channel formation in the cytoplasmic membrane []. This entry represents the central receptor recognition domain, which has an alpha/beta two-layer sandwich structure.; GO: 0019835 cytolysis, 0050829 defense response to Gram-negative bacterium, 0016021 integral to membrane; PDB: 2HDI_B 1CII_A.
Probab=36.42 E-value=19 Score=23.83 Aligned_cols=16 Identities=44% Similarity=0.420 Sum_probs=9.6
Q ss_pred CccCCCce----eEEecccc
Q 043596 32 KFKFPVRQ----KIIVSRKW 47 (96)
Q Consensus 32 KfKFPGRQ----KI~vSkkW 47 (96)
--|||||. +|+||--=
T Consensus 12 pekfpgrsstn~~i~vsg~~ 31 (72)
T PF11504_consen 12 PEKFPGRSSTNHSIFVSGDP 31 (72)
T ss_dssp TTTS-EEEEEEEEEEE-S-T
T ss_pred cccCCCCCCCCceEEEcCCC
Confidence 45899995 68888643
No 22
>PF13541 ChlI: Subunit ChlI of Mg-chelatase
Probab=35.96 E-value=29 Score=24.40 Aligned_cols=28 Identities=29% Similarity=0.485 Sum_probs=23.0
Q ss_pred CCChhHHHHHHHhcCccCCCceeEEeccc
Q 043596 18 DSNSHHAQEALRRAKFKFPVRQKIIVSRK 46 (96)
Q Consensus 18 d~~~~~viEALRRAKfKFPGRQKI~vSkk 46 (96)
++.++.+.-||+.+.|+||. |+|+|.=.
T Consensus 23 ~esr~Rv~~al~~~g~~~p~-~~i~VNla 50 (121)
T PF13541_consen 23 KESRERVRSALKNSGFPFPN-QDITVNLA 50 (121)
T ss_pred HHHHHHHHHHHHhcCCCCCc-ceeeeEEE
Confidence 44678899999999999995 88887653
No 23
>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=35.80 E-value=20 Score=29.05 Aligned_cols=49 Identities=27% Similarity=0.301 Sum_probs=26.8
Q ss_pred HHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCC
Q 043596 25 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 25 iEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
-|||..|.|+|||+ |.|-.+.+..-..---|+.++-.|-+...|=||.+
T Consensus 99 K~a~~~aG~~~~Gh-----------Te~la~~~g~~~~~mml~~~~lrv~~vT~HipL~~ 147 (298)
T PF04166_consen 99 KEALKLAGFPFPGH-----------TEYLAELTGTKDVLMMLVSGKLRVALVTTHIPLKD 147 (298)
T ss_dssp HHHHHHTT---SSH-----------HHHHHHHTT-S--EEEEEETTEEEEESS-SS-GGG
T ss_pred HHHHHhCCCCCCCh-----------HHHHHHHhCCCCeEEEEEcCCcEEEEeccCccHHH
Confidence 46777889999984 44444433211111234678888999999999876
No 24
>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=34.53 E-value=26 Score=23.30 Aligned_cols=29 Identities=24% Similarity=0.607 Sum_probs=19.9
Q ss_pred cccccccccChHHHHhhhhcCeeec--cCceEE
Q 043596 44 SRKWGFTKFSRANYLRCKSENRIVP--DGVNAK 74 (96)
Q Consensus 44 SkkWGFTk~~r~ey~~~~~eg~Lv~--DG~~vk 74 (96)
+..|||.+|-+-+. |.++|.|.. |-..++
T Consensus 96 ~~~wG~~~Fi~~~~--L~~~gfl~~~~D~l~i~ 126 (132)
T cd03773 96 GECWGYNRFFRLDL--LINEGYLLPENDTLILR 126 (132)
T ss_pred CCCcCHHHhccHHH--HhhCCCcCCCCCEEEEE
Confidence 35699999877554 456888887 654443
No 25
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=34.42 E-value=27 Score=23.72 Aligned_cols=31 Identities=26% Similarity=0.468 Sum_probs=20.3
Q ss_pred cccccccccChHHHHh----hhhcCeeeccCceEE
Q 043596 44 SRKWGFTKFSRANYLR----CKSENRIVPDGVNAK 74 (96)
Q Consensus 44 SkkWGFTk~~r~ey~~----~~~eg~Lv~DG~~vk 74 (96)
+..|||.+|-+-+.++ -.+.|.|+.|-..+.
T Consensus 96 ~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~ 130 (134)
T cd03775 96 DKDWGFTRFIELRKLAHRTPDKPSPFLENGELNIT 130 (134)
T ss_pred CCCCChhHcccHHHHcccccCCCCceeECCEEEEE
Confidence 3679999996544433 235788887755544
No 26
>COG3195 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.32 E-value=39 Score=26.07 Aligned_cols=20 Identities=20% Similarity=0.223 Sum_probs=17.5
Q ss_pred CceEEeeCCCCChhHHHHHHHh
Q 043596 9 PTAGCNDGTDSNSHHAQEALRR 30 (96)
Q Consensus 9 ~~~~~vRtKd~~~~~viEALRR 30 (96)
|.|+|||.++ ++.+.+|++|
T Consensus 123 PfI~aVkg~~--k~~Il~a~~~ 142 (176)
T COG3195 123 PFIIAVKGNT--KDTILAAFER 142 (176)
T ss_pred ceEEeecCCC--HHHHHHHHHH
Confidence 8899999988 8888888875
No 27
>PRK03946 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=33.21 E-value=21 Score=29.16 Aligned_cols=48 Identities=19% Similarity=0.243 Sum_probs=29.7
Q ss_pred HHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCC
Q 043596 25 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 25 iEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
-|+|..|.|+|||+ |.|-.+.+-. ..---+..++-.|-+...|=||.+
T Consensus 107 K~~l~~aG~~~~Gh-----------Te~la~~~g~-~~~mml~~~~LrV~~vT~HipL~~ 154 (307)
T PRK03946 107 KKAWQKAGIPYKGH-----------TDALRDRFKK-EAIMMLGCEELFVALFTDHIPLKK 154 (307)
T ss_pred HHHHHhCCCCCCCH-----------HHHHHHHHCC-CeEEEEecCCeEEEEecccccHHH
Confidence 46777788999984 4343333321 111223457788888999988865
No 28
>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=32.55 E-value=36 Score=20.03 Aligned_cols=23 Identities=17% Similarity=0.268 Sum_probs=17.2
Q ss_pred eEEeeCCCCChhHHHHHHHhcCcc
Q 043596 11 AGCNDGTDSNSHHAQEALRRAKFK 34 (96)
Q Consensus 11 ~~~vRtKd~~~~~viEALRRAKfK 34 (96)
.+.+|..+ +.+.++++|+.+.|+
T Consensus 46 ~i~v~~~~-~~~~~~~~L~~~G~~ 68 (69)
T cd04909 46 RISFKTQE-DRERAKEILKEAGYE 68 (69)
T ss_pred EEEECCHH-HHHHHHHHHHHcCCc
Confidence 44555444 888999999998775
No 29
>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway. It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1
Probab=32.51 E-value=28 Score=23.62 Aligned_cols=30 Identities=20% Similarity=0.400 Sum_probs=20.2
Q ss_pred ccccccccChHHHHhhhhcCeeeccCceEE
Q 043596 45 RKWGFTKFSRANYLRCKSENRIVPDGVNAK 74 (96)
Q Consensus 45 kkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk 74 (96)
..|||.+|-+-+.+.-.+.|.|+.|.+.+.
T Consensus 98 ~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie 127 (137)
T cd03772 98 NDWGFSNFMTWSEVTDPEKGFIEDDTITLE 127 (137)
T ss_pred CCccchheeEHHHhcCCCCCcEECCEEEEE
Confidence 589999987754433245788888865443
No 30
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=31.65 E-value=33 Score=23.28 Aligned_cols=26 Identities=31% Similarity=0.703 Sum_probs=17.1
Q ss_pred ccccccccChHHHHhhhhcCeeeccC
Q 043596 45 RKWGFTKFSRANYLRCKSENRIVPDG 70 (96)
Q Consensus 45 kkWGFTk~~r~ey~~~~~eg~Lv~DG 70 (96)
..|||.+|-+.+.+.=..+|.|+.|.
T Consensus 102 ~~wG~~~fi~~~~L~~~~~g~l~dD~ 127 (139)
T cd03774 102 KDWGFKKFIRRDFLLDEANGLLPDDK 127 (139)
T ss_pred CccCHHHeeeHHHhhhhhcccccCCE
Confidence 56999998766644324457776554
No 31
>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A.
Probab=31.24 E-value=46 Score=21.90 Aligned_cols=50 Identities=24% Similarity=0.303 Sum_probs=33.6
Q ss_pred ChhHHHHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccC
Q 043596 20 NSHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDG 70 (96)
Q Consensus 20 ~~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG 70 (96)
+.+.+.+.++.+|=+++ ...++.|+-..+......+..++...-.+.-||
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 56888999999999999 667888887777776655566666654444444
No 32
>COG2193 Bfr Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]
Probab=30.96 E-value=20 Score=27.19 Aligned_cols=19 Identities=32% Similarity=0.749 Sum_probs=16.1
Q ss_pred ccccccccChHHHHhhhhc
Q 043596 45 RKWGFTKFSRANYLRCKSE 63 (96)
Q Consensus 45 kkWGFTk~~r~ey~~~~~e 63 (96)
+.||||+....+|.+...|
T Consensus 33 ~~WG~~~L~~~~~~esi~E 51 (157)
T COG2193 33 KNWGLTKLAAHEYHESIEE 51 (157)
T ss_pred hCcChHHHHHHHHHHHHHH
Confidence 6899999999999877655
No 33
>TIGR00557 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis.
Probab=30.76 E-value=23 Score=28.97 Aligned_cols=48 Identities=27% Similarity=0.341 Sum_probs=28.0
Q ss_pred HHHHHhcCccCCCceeEEecccccccccChHHHHhhhh-cCeeeccCceEEEeCCCCCCCC
Q 043596 25 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKS-ENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 25 iEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~-eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
-|||..|.|+|||+ |.|-.+.+. ..+ ---|..++-.|-+...|=||.+
T Consensus 118 K~a~~~aG~~f~Gh-----------Te~La~~~g-~~~~~Mml~~~~LrV~lvT~HipL~~ 166 (320)
T TIGR00557 118 KGAINQAGFPFPGH-----------TEFLAELTG-VKDVVMMLAGPGLRVALATTHIPLKD 166 (320)
T ss_pred HHHHHhCCCCCCCh-----------HHHHHHHhC-CCCeEEEEecCCeEEEEEeccccHHH
Confidence 35677779999984 333332221 000 0113456677888999988865
No 34
>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=30.29 E-value=62 Score=18.96 Aligned_cols=28 Identities=21% Similarity=0.109 Sum_probs=21.1
Q ss_pred CceEEeeCCCCChhHHHHHHHhcCccCC
Q 043596 9 PTAGCNDGTDSNSHHAQEALRRAKFKFP 36 (96)
Q Consensus 9 ~~~~~vRtKd~~~~~viEALRRAKfKFP 36 (96)
...+.+|......+.++++|+.+.|++=
T Consensus 42 ~~~v~i~v~~~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 42 NKILVFRVQTMNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred eEEEEEEEecCCHHHHHHHHHHCCCeee
Confidence 3456778765666799999999988763
No 35
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=29.98 E-value=51 Score=26.24 Aligned_cols=27 Identities=22% Similarity=0.407 Sum_probs=24.0
Q ss_pred CChhHHHHHHHhcCccCCCceeEEecc
Q 043596 19 SNSHHAQEALRRAKFKFPVRQKIIVSR 45 (96)
Q Consensus 19 ~~~~~viEALRRAKfKFPGRQKI~vSk 45 (96)
.+.+.|.+||.-|-+|+|+.-+++++.
T Consensus 151 ~~~~~Ar~al~~aa~klp~~~efVs~~ 177 (221)
T KOG3422|consen 151 VEEEEARQALLQAAHKLPFKYEFVSEE 177 (221)
T ss_pred ccHHHHHHHHHHHHhcCCccEEEeeHh
Confidence 678899999999999999998887764
No 36
>KOG2367 consensus Alpha-isopropylmalate synthase/homocitrate synthase [Amino acid transport and metabolism]
Probab=29.43 E-value=34 Score=30.48 Aligned_cols=26 Identities=23% Similarity=0.123 Sum_probs=22.1
Q ss_pred cCCceEE-eeCCCCChhHHHHHHHhcC
Q 043596 7 VDPTAGC-NDGTDSNSHHAQEALRRAK 32 (96)
Q Consensus 7 ~~~~~~~-vRtKd~~~~~viEALRRAK 32 (96)
.||+|-| +||+......++|||+-||
T Consensus 120 ~~~~I~~l~rc~~~di~~tvEAl~~aK 146 (560)
T KOG2367|consen 120 YVPVICTLIRCHMDDIERTVEALKYAK 146 (560)
T ss_pred CCceEEEeeccchHHHHHHHHHhhccC
Confidence 4666655 7999999999999999985
No 37
>cd07491 Peptidases_S8_7 Peptidase S8 family domain, uncharacterized subfamily 7. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=29.00 E-value=1.2e+02 Score=22.89 Aligned_cols=40 Identities=23% Similarity=0.140 Sum_probs=26.7
Q ss_pred CceEEeeCCCCC----------hhHHHHHHHhcCccCCCceeEEeccccccccc
Q 043596 9 PTAGCNDGTDSN----------SHHAQEALRRAKFKFPVRQKIIVSRKWGFTKF 52 (96)
Q Consensus 9 ~~~~~vRtKd~~----------~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~ 52 (96)
-.+|++|.-+.+ ...+.+||+.|--+ |-+.|-+| |||...
T Consensus 66 a~i~~~kv~~~~~~~~~~~~~~~~~i~~Ai~~Ai~~--gadIIn~S--~g~~~~ 115 (247)
T cd07491 66 AKLYVIKLEDRPSPDSNKRSITPQSAAKAIEAAVEK--KVDIISMS--WTIKKP 115 (247)
T ss_pred CeEEEEEecccCCCCCcccccCHHHHHHHHHHHHHC--CCcEEEee--eecccc
Confidence 357788876543 35788999988543 55555555 998764
No 38
>PRK00232 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed
Probab=28.90 E-value=24 Score=29.07 Aligned_cols=49 Identities=20% Similarity=0.234 Sum_probs=28.9
Q ss_pred HHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCC
Q 043596 25 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 25 iEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
-|||..|.|+|||+ |.|-.+.+..-..---|..++-.|-+...|=||.+
T Consensus 126 K~al~~aG~~~~Gh-----------Te~La~~~~~~~~~Mml~~~~LrV~lvT~HipL~~ 174 (332)
T PRK00232 126 KGAINDAGIPFSGH-----------TEFFAELSGTTGVVMMLATEGLRVALVTTHLPLRD 174 (332)
T ss_pred HHHHHhCCCCCCCH-----------HHHHHHHhCCCCeEEEEecCCeEEEEeccchhHHH
Confidence 35677778999984 44443333210001123456677888888988865
No 39
>PF13282 DUF4070: Domain of unknown function (DUF4070)
Probab=28.88 E-value=28 Score=25.03 Aligned_cols=12 Identities=25% Similarity=0.445 Sum_probs=10.7
Q ss_pred HHhhhhcCeeec
Q 043596 57 YLRCKSENRIVP 68 (96)
Q Consensus 57 y~~~~~eg~Lv~ 68 (96)
|.+|.+||+|+.
T Consensus 4 ~~RL~~EGRLl~ 15 (146)
T PF13282_consen 4 WDRLEREGRLLG 15 (146)
T ss_pred HHHHHHhcCCCC
Confidence 789999999984
No 40
>cd07895 Adenylation_mRNA_capping Adenylation domain of GTP-dependent mRNA capping enzymes. RNA capping enzymes transfer GMP from GTP to the 5'-diphosphate end of nascent mRNAs to form a G(5')ppp(5')RNA cap structure. The RNA cap is found only in eukarya. RNA capping is chemically analogous to the first two steps of polynucleotide ligation. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation of nicked nucleic acid substrates using the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. Structural studies reveal a shared structure for DNA ligases and capping enzymes, with a common catalytic core composed of an adenylation or nucleotidyltransferase domain and a C-terminal OB-fold domain containing conserved sequence motifs. The adenylation domain binds ATP and contains many active site residues.
Probab=28.42 E-value=80 Score=23.12 Aligned_cols=38 Identities=32% Similarity=0.347 Sum_probs=24.5
Q ss_pred hcCccCCCceeEEecccccccccChHHHHhhhhcCeee---ccCceEEEe
Q 043596 30 RAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIV---PDGVNAKLF 76 (96)
Q Consensus 30 RAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv---~DG~~vk~~ 76 (96)
.-.--|||-|-+-+|+ +.+..+..++.++ .||.-+..+
T Consensus 17 ~~~~~FpG~~pvs~~~---------~~~~~~~~~~y~ve~K~DG~R~~l~ 57 (215)
T cd07895 17 WERGGFPGSQPVSFSR---------KNLELLKQNDYFVCEKSDGVRYLLL 57 (215)
T ss_pred cCCCCCCCCCccCccH---------HHHHHHhhCCeEEEEeEcCeEEEEE
Confidence 3456799999986554 4555666677664 566554433
No 41
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=26.90 E-value=61 Score=25.42 Aligned_cols=42 Identities=21% Similarity=0.146 Sum_probs=32.1
Q ss_pred hhHHHHHHHh------cCccCCCceeEEecccccccccChHHHHhhhh
Q 043596 21 SHHAQEALRR------AKFKFPVRQKIIVSRKWGFTKFSRANYLRCKS 62 (96)
Q Consensus 21 ~~~viEALRR------AKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~ 62 (96)
+..|+++|-. -++|-=|.|||++-+.--|...+-+|...|..
T Consensus 39 ktavqk~Ld~La~~Gki~~K~YGKqKIY~a~QDqF~~~~~eel~~ld~ 86 (201)
T KOG4603|consen 39 KTAVQKTLDQLAQQGKIKEKMYGKQKIYFADQDQFDMVSDEELQVLDG 86 (201)
T ss_pred chHHHHHHHHHHHcCchhHHhccceeeEeecHHhhcCCChHHHHHHhH
Confidence 3456666642 37888999999999999998888888776643
No 42
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=25.91 E-value=49 Score=20.99 Aligned_cols=15 Identities=33% Similarity=0.348 Sum_probs=10.5
Q ss_pred hhHHHHHHHhcCccC
Q 043596 21 SHHAQEALRRAKFKF 35 (96)
Q Consensus 21 ~~~viEALRRAKfKF 35 (96)
++.|||||||-.+|=
T Consensus 23 ~dkVvevlrrlgik~ 37 (55)
T PF09288_consen 23 RDKVVEVLRRLGIKS 37 (55)
T ss_dssp HHHHHHHHHHS--SS
T ss_pred HHHHHHHHHHhCCCC
Confidence 567999999887763
No 43
>PRK03743 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=25.43 E-value=31 Score=28.43 Aligned_cols=48 Identities=17% Similarity=0.059 Sum_probs=27.1
Q ss_pred HHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCC
Q 043596 26 EALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 26 EALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
|||..|.|+|||+ |.|-.+.+..-..---|..++-.|-+...|=||.+
T Consensus 127 ~a~~~aG~~f~Gh-----------Te~La~~~g~~~~~Mml~~~~LrV~lvT~HipL~~ 174 (332)
T PRK03743 127 EALKAAGVKYIGH-----------TEILADLTGTEDPLTMFEVRNLRVFFLTRHVSLKK 174 (332)
T ss_pred HHHHhCCCCCCCh-----------HHHHHHHhCCCCeEEEEecCCcEEEEeccchhHHH
Confidence 5566678888874 33333332100001123456677888888888865
No 44
>PRK13677 hypothetical protein; Provisional
Probab=24.20 E-value=47 Score=24.37 Aligned_cols=16 Identities=38% Similarity=0.665 Sum_probs=12.9
Q ss_pred CccCCCceeEEecccc
Q 043596 32 KFKFPVRQKIIVSRKW 47 (96)
Q Consensus 32 KfKFPGRQKI~vSkkW 47 (96)
|||||-.+|.+.+..-
T Consensus 47 KFKypRq~K~V~~d~g 62 (125)
T PRK13677 47 KFKYPRQRKTVVADGG 62 (125)
T ss_pred ceeccccceeEEecCC
Confidence 9999999998776543
No 45
>PHA02957 hypothetical protein; Provisional
Probab=24.12 E-value=41 Score=26.07 Aligned_cols=30 Identities=20% Similarity=0.228 Sum_probs=22.0
Q ss_pred CceeEEecccccccccChHHHHhhhhcCee
Q 043596 37 VRQKIIVSRKWGFTKFSRANYLRCKSENRI 66 (96)
Q Consensus 37 GRQKI~vSkkWGFTk~~r~ey~~~~~eg~L 66 (96)
|+|||-+---+=-...+||+|-+.-+|--|
T Consensus 118 gkqki~liyf~fieavtrddytkitqeitl 147 (206)
T PHA02957 118 GKQKIELIYFFFIEAVTRDDYTKITQEITL 147 (206)
T ss_pred ccEEEEEEEEEEEEEeeccchhhHhhhhhh
Confidence 899997765544456788888888777655
No 46
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=23.71 E-value=69 Score=21.12 Aligned_cols=37 Identities=11% Similarity=0.247 Sum_probs=27.5
Q ss_pred CceeEEecccc-cccccChHHHHhhhhcCeeeccCceE
Q 043596 37 VRQKIIVSRKW-GFTKFSRANYLRCKSENRIVPDGVNA 73 (96)
Q Consensus 37 GRQKI~vSkkW-GFTk~~r~ey~~~~~eg~Lv~DG~~v 73 (96)
|---|++...| .|...+-+++..+...+.+|-|+.++
T Consensus 66 ~~D~vvl~t~h~~f~~l~~~~~~~~~~~~~~iiD~~~~ 103 (106)
T PF03720_consen 66 GADAVVLATDHDEFRELDWEEIAKLMRKPPVIIDGRNI 103 (106)
T ss_dssp TESEEEESS--GGGGCCGHHHHHHHSCSSEEEEESSST
T ss_pred CCCEEEEEecCHHHhccCHHHHHHhcCCCCEEEECccc
Confidence 44567888888 88888888888877888999888664
No 47
>COG4208 CysW ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism]
Probab=23.61 E-value=41 Score=27.64 Aligned_cols=16 Identities=31% Similarity=0.553 Sum_probs=12.6
Q ss_pred HHHHhcCccCCCceeE
Q 043596 26 EALRRAKFKFPVRQKI 41 (96)
Q Consensus 26 EALRRAKfKFPGRQKI 41 (96)
-|.--|||.||||+-.
T Consensus 88 aAW~iakf~F~Gk~lL 103 (287)
T COG4208 88 AAWAIARFEFPGKALL 103 (287)
T ss_pred HHHHHHHccCCchhhh
Confidence 4566689999999864
No 48
>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=23.57 E-value=71 Score=19.87 Aligned_cols=27 Identities=7% Similarity=-0.010 Sum_probs=22.9
Q ss_pred eEEeeCCCCChhHHHHHHHhcCccCCC
Q 043596 11 AGCNDGTDSNSHHAQEALRRAKFKFPV 37 (96)
Q Consensus 11 ~~~vRtKd~~~~~viEALRRAKfKFPG 37 (96)
-+|+|..+.+.+.+.+.|+.++.++-|
T Consensus 42 G~al~~~~~d~~~i~~~l~~~~i~~~~ 68 (73)
T PF11823_consen 42 GLALRFEPEDLEKIKEILEENGIEYEG 68 (73)
T ss_pred CEEEEEChhhHHHHHHHHHHCCCCeeE
Confidence 478999999999999999998876643
No 49
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=23.38 E-value=68 Score=23.84 Aligned_cols=34 Identities=26% Similarity=0.222 Sum_probs=28.3
Q ss_pred CCChhHHHHHHHhcCccCCCceeEEecccccccc
Q 043596 18 DSNSHHAQEALRRAKFKFPVRQKIIVSRKWGFTK 51 (96)
Q Consensus 18 d~~~~~viEALRRAKfKFPGRQKI~vSkkWGFTk 51 (96)
+.--+.+.++|++.+--|+..+-++||+.-|=..
T Consensus 58 ~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~ 91 (168)
T PF09419_consen 58 DEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSD 91 (168)
T ss_pred CcCCHHHHHHHHHHHHHCCCCeEEEEECCCCccc
Confidence 3444678889999998999999999999998665
No 50
>PRK03371 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional
Probab=23.37 E-value=38 Score=27.87 Aligned_cols=48 Identities=19% Similarity=0.135 Sum_probs=26.4
Q ss_pred HHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCC
Q 043596 26 EALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 26 EALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
|||..|.|+|||+ |.|-.+.+..-..---|..++-.|-+...|=||.+
T Consensus 126 ~al~~aG~~f~Gh-----------Te~La~~~g~~~~~Mml~~~~LrV~lvT~HipLk~ 173 (326)
T PRK03371 126 EALHLAGHNYPGH-----------TELLATLTHSRDYAMVLYTDKLKVIHVSTHIALRK 173 (326)
T ss_pred HHHHhCCCCCCCH-----------HHHHHHHhCCCCeEEEEecCCeEEEEeeccccHHH
Confidence 4566668888874 33322222100000113456677888889988865
No 51
>PF07747 MTH865: MTH865-like family; InterPro: IPR024093 This entry represents a group of uncharacterised hypothetical proteins from archaea, including the 8.4 kDa protein MTH865 from Methanobacterium thermoautotrophicum. The NMR structure of MTH865 reveals an EF-Hand-like fold consisting of four helices in two hairpins [].; PDB: 1IIO_A.
Probab=22.97 E-value=56 Score=21.82 Aligned_cols=16 Identities=31% Similarity=0.532 Sum_probs=13.2
Q ss_pred ChhHHHHHHHhcCccCCC
Q 043596 20 NSHHAQEALRRAKFKFPV 37 (96)
Q Consensus 20 ~~~~viEALRRAKfKFPG 37 (96)
-+.+.+|||+-|+ ||=
T Consensus 3 lk~qi~~a~~~a~--FPI 18 (75)
T PF07747_consen 3 LKAQIVEAFKGAD--FPI 18 (75)
T ss_dssp HHHHHHHHHTTSS--STT
T ss_pred HHHHHHHHHhcCC--CCC
Confidence 3678999999998 885
No 52
>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=22.78 E-value=1e+02 Score=26.36 Aligned_cols=46 Identities=26% Similarity=0.314 Sum_probs=33.9
Q ss_pred ccCCCceeEEecccccccccChHHHHhhhhcCeee---ccCceEEEeCCCCCCCCCCC
Q 043596 33 FKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIV---PDGVNAKLFECHGPLANRQP 87 (96)
Q Consensus 33 fKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv---~DG~~vk~~~~~GpL~~~~~ 87 (96)
=.|||.|-+. |+.++-..|++...+| +||+-|-.+-.-.|....+.
T Consensus 41 ~tFpGsqPVs---------f~~~~i~~Ll~~dy~VCEKsDGvR~Ll~vte~p~tg~~~ 89 (404)
T COG5226 41 ETFPGSQPVS---------FTLDNIGLLLNNDYLVCEKSDGVRALLLVTEEPVTGAFR 89 (404)
T ss_pred ccCCCCccee---------eehhhHHHHHhCCeEEEEccCCeEEEEEEEecccCCCcc
Confidence 4699999985 3446677799999997 89988877666666555443
No 53
>PF14306 PUA_2: PUA-like domain; PDB: 1M8P_C 1I2D_B 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2QJF_A 2OFX_B 1J70_B 1G8F_A ....
Probab=22.53 E-value=56 Score=24.03 Aligned_cols=19 Identities=26% Similarity=0.564 Sum_probs=15.2
Q ss_pred cChHHHHhhhhcCeeeccCc
Q 043596 52 FSRANYLRCKSENRIVPDGV 71 (96)
Q Consensus 52 ~~r~ey~~~~~eg~Lv~DG~ 71 (96)
.+++||+....+++| +||.
T Consensus 57 M~~~dy~~V~~~~rL-~~G~ 75 (160)
T PF14306_consen 57 MNEEDYESVLETMRL-PDGT 75 (160)
T ss_dssp --HHHHHHHHHHSBE-TTSS
T ss_pred cCHHHHHHHHhhCCc-CCCC
Confidence 569999999999999 6764
No 54
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=22.17 E-value=78 Score=18.75 Aligned_cols=57 Identities=12% Similarity=0.110 Sum_probs=32.5
Q ss_pred CChhHHHHHHHhcCccCCCceeEEeccccc--ccccChHHHHhhhhcCeeeccCceEEEeCCCC
Q 043596 19 SNSHHAQEALRRAKFKFPVRQKIIVSRKWG--FTKFSRANYLRCKSENRIVPDGVNAKLFECHG 80 (96)
Q Consensus 19 ~~~~~viEALRRAKfKFPGRQKI~vSkkWG--FTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~G 80 (96)
.-.+.++.+||... |=..-.+..++| |...-......+.++|.+.-++..+. ++.+|
T Consensus 6 ~~~e~i~~~LR~~~----Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~~~~l~-lT~~G 64 (66)
T PF06969_consen 6 RLREYIMLGLRCNE----GIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEIDGGRLR-LTEKG 64 (66)
T ss_dssp HHHHHHHHHHHHHS----EEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE-SSEEE-E-TTT
T ss_pred HHHHHHHHHHHhHC----CcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEeCCEEE-ECccc
Confidence 34566777777541 111112234445 33444667888999999999988877 55555
No 55
>PF13388 DUF4106: Protein of unknown function (DUF4106)
Probab=22.09 E-value=21 Score=30.26 Aligned_cols=48 Identities=23% Similarity=0.295 Sum_probs=32.3
Q ss_pred ceEEeeCC-CCChhHHHHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeC
Q 043596 10 TAGCNDGT-DSNSHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFE 77 (96)
Q Consensus 10 ~~~~vRtK-d~~~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~ 77 (96)
.|+||||| ...++..-|||--|-|| .-|+.|-+.-+||.|=+.-|-+.
T Consensus 29 ligsirtkiqadedssnealmnadfk--------------------nafealhskvklvndfssgkklk 77 (422)
T PF13388_consen 29 LIGSIRTKIQADEDSSNEALMNADFK--------------------NAFEALHSKVKLVNDFSSGKKLK 77 (422)
T ss_pred HHHHHHhhhhcccccchhhhhcchHH--------------------HHHHHHHhhhhhhcccccccccc
Confidence 57899999 45566777888888776 34666666666666644444333
No 56
>cd07473 Peptidases_S8_Subtilisin_like Peptidase S8 family domain in Subtilisin-like proteins. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=20.83 E-value=2.2e+02 Score=20.73 Aligned_cols=55 Identities=16% Similarity=0.035 Sum_probs=35.7
Q ss_pred CceEEeeCCCCC----hhHHHHHHHhcCccCCCceeEEecccccccccChHHH---HhhhhcCeee
Q 043596 9 PTAGCNDGTDSN----SHHAQEALRRAKFKFPVRQKIIVSRKWGFTKFSRANY---LRCKSENRIV 67 (96)
Q Consensus 9 ~~~~~vRtKd~~----~~~viEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey---~~~~~eg~Lv 67 (96)
-.+.++|.-+.. ...+++||+.|-- +.-.+|+..||........+ .++.++|-|+
T Consensus 90 a~l~~~~~~~~~~~~~~~~~~~a~~~a~~----~~~~vin~S~G~~~~~~~~~~~~~~~~~~g~iv 151 (259)
T cd07473 90 VKIMPLKFLGADGSGTTSDAIKAIDYAVD----MGAKIINNSWGGGGPSQALRDAIARAIDAGILF 151 (259)
T ss_pred CEEEEEEEeCCCCCcCHHHHHHHHHHHHH----CCCeEEEeCCCCCCCCHHHHHHHHHHHhCCCEE
Confidence 345666655443 5678899988754 56678888999987765443 4444455553
No 57
>PRK05312 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=20.76 E-value=44 Score=27.62 Aligned_cols=54 Identities=17% Similarity=0.207 Sum_probs=28.2
Q ss_pred HHHHHhcCccCCCceeEEecccccccccChHHHHhhhhcCeeeccCceEEEeCCCCCCCC
Q 043596 25 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRANYLRCKSENRIVPDGVNAKLFECHGPLAN 84 (96)
Q Consensus 25 iEALRRAKfKFPGRQKI~vSkkWGFTk~~r~ey~~~~~eg~Lv~DG~~vk~~~~~GpL~~ 84 (96)
-|||..|.|+|||+=.. .....|.+....+++.- -|..++-.|-+...|=||.+
T Consensus 125 K~a~~~aG~~f~GhTe~-La~~~g~~~~~~~~~~M-----ml~~~~LrV~lvT~HipL~~ 178 (336)
T PRK05312 125 KKVLYDAGFAFPGHTEF-LAELAGVATGKPVQPVM-----MLAGPQLRVVPVTIHIPLRD 178 (336)
T ss_pred HHHHHhCCCCCCChHHH-HHHHhCCCccCCCceEE-----EEecCCcEEEEeccchhHHH
Confidence 35677778999984222 11111211111112211 12346677888888888865
Done!