Query 021913
Match_columns 305
No_of_seqs 155 out of 1062
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 06:36:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021913.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021913hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1697 Mitochondrial/chloropl 99.9 3.1E-27 6.7E-32 219.1 7.2 103 181-305 118-224 (275)
2 COG0103 RpsI Ribosomal protein 99.9 1.2E-25 2.6E-30 191.0 6.2 75 231-305 5-79 (130)
3 PRK00132 rpsI 30S ribosomal pr 99.9 1.6E-25 3.4E-30 189.7 6.2 75 231-305 5-79 (130)
4 CHL00079 rps9 ribosomal protei 99.9 3.1E-25 6.6E-30 188.0 6.2 76 230-305 3-79 (130)
5 PTZ00086 40S ribosomal protein 99.9 1.9E-24 4.2E-29 186.4 5.7 74 231-305 10-85 (147)
6 TIGR03627 arch_S9P archaeal ri 99.9 3E-24 6.5E-29 181.9 6.2 73 232-305 2-75 (130)
7 PRK00474 rps9p 30S ribosomal p 99.9 3.5E-24 7.7E-29 182.2 6.2 73 232-305 5-79 (134)
8 PF00380 Ribosomal_S9: Ribosom 99.9 1.2E-24 2.5E-29 182.1 1.7 70 236-305 1-70 (121)
9 PLN00210 40S ribosomal protein 99.9 8.7E-24 1.9E-28 181.2 6.0 73 232-305 5-79 (141)
10 KOG1753 40S ribosomal protein 99.4 1.1E-13 2.5E-18 119.1 5.3 74 231-305 8-83 (145)
11 PF02601 Exonuc_VII_L: Exonucl 50.7 15 0.00033 34.5 3.1 31 269-299 55-88 (319)
12 PRK04081 hypothetical protein; 46.1 22 0.00048 33.5 3.3 81 94-178 50-142 (207)
13 COG1750 Archaeal serine protea 44.9 39 0.00085 36.0 5.3 53 242-295 53-107 (579)
14 PRK00286 xseA exodeoxyribonucl 36.5 34 0.00074 33.8 3.2 29 269-298 176-204 (438)
15 PF03755 YicC_N: YicC-like fam 35.8 1E+02 0.0023 26.6 5.7 58 242-299 7-73 (159)
16 PRK10787 DNA-binding ATP-depen 30.8 86 0.0019 34.2 5.3 50 244-299 614-674 (784)
17 TIGR00237 xseA exodeoxyribonuc 27.2 54 0.0012 32.9 2.9 30 270-299 171-200 (432)
18 COG3526 Uncharacterized protei 23.9 92 0.002 26.2 3.2 30 242-271 37-74 (99)
19 PF04181 RPAP2_Rtr1: Rtr1/RPAP 21.9 92 0.002 24.1 2.7 25 167-191 5-29 (79)
No 1
>KOG1697 consensus Mitochondrial/chloroplast ribosomal protein S9 [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=3.1e-27 Score=219.14 Aligned_cols=103 Identities=45% Similarity=0.751 Sum_probs=95.0
Q ss_pred cccccCCCCCCHHHHHHHhhhhcccchHHHHHHHHHHhhhhhccccccCC----cccccCcccceEEEEEEEccceEEEE
Q 021913 181 LEGVEGLPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVRQVDEKG----RAYGTGRRKCSIARVWIQPGDGKFIV 256 (305)
Q Consensus 181 LerL~~lpPls~~eee~i~kyrrks~r~~iqs~kq~ei~k~~~~qlDe~G----rayatGRRKTAiArV~L~pGsGkItV 256 (305)
++.+... ||+..++.|+++|+|+ +|+.| +++++||||||+|+|+|.||+|+|.|
T Consensus 118 ~~~l~s~-p~~~~e~~f~~~~~k~---------------------~~~~g~~~~~~~~~g~rK~a~A~V~v~~GtGk~~v 175 (275)
T KOG1697|consen 118 IEHLLSS-PYSAIEEKFLKRFRKP---------------------LDESGKPEVRIIAVGRRKCARATVKVQPGTGKFDV 175 (275)
T ss_pred HHHHhhC-chhHHHHHHHHHHHhc---------------------ccccCCCceeeeeccceecceeEEEEecCceeEEe
Confidence 4556664 9999999999999864 45556 89999999999999999999999999
Q ss_pred cCcchhhhCCchHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 257 NDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 257 NGkpl~~YFp~~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
||++++.||+.+++|+++++||.+++.+|+|||+|||+|||+||||+||
T Consensus 176 Ng~~~~~yF~~~~~Re~ll~Pl~~~~~lg~~dv~atv~GGG~sgqagAI 224 (275)
T KOG1697|consen 176 NGRDLDVYFQHLQHREQLLYPLAVSESLGKYDVTATVSGGGPSGQAGAI 224 (275)
T ss_pred cchhHHhHhccchhHHHHhhhHHHhccccceeEEEEecCCCccchhHHH
Confidence 9999999999999999999999999999999999999999999999997
No 2
>COG0103 RpsI Ribosomal protein S9 [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=1.2e-25 Score=191.04 Aligned_cols=75 Identities=43% Similarity=0.813 Sum_probs=73.3
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
.+|++||||+|+|+|+|.||+|+|+|||+|+++||+....|.+|++||.+++..++|||.|+|+|||.||||+||
T Consensus 5 ~~~~tGkRK~AvArv~l~~g~G~i~vNg~~~e~yf~~e~~r~~i~~Pl~l~~~~~~~Di~v~V~GGG~~GQA~Ai 79 (130)
T COG0103 5 QVYTTGKRKSAVARVRLVPGKGKITVNGRPLELYFPRETLRMKIMQPLLLTGTVGKFDIDVTVKGGGISGQAGAI 79 (130)
T ss_pred eeeeeccccceEEEEEEEcCCcEEEECCcCHHHhcchHHHHHHHhhhHHHhCccccccEEEEEecCCchHHHHHH
Confidence 688999999999999999999999999999999999889999999999999999999999999999999999996
No 3
>PRK00132 rpsI 30S ribosomal protein S9; Reviewed
Probab=99.92 E-value=1.6e-25 Score=189.68 Aligned_cols=75 Identities=45% Similarity=0.798 Sum_probs=72.6
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
..|++||||||+|+|||.||+|+|+|||+|+++||+...+|++|++||.+++..++|||+|+|+|||+||||+||
T Consensus 5 ~~~~~GrRK~a~A~v~l~~G~G~i~INg~~~~~yf~~~~~r~~i~~Pl~~~~~~~~~Di~i~V~GGG~sgQa~Ai 79 (130)
T PRK00132 5 QYYGTGRRKTAVARVRLKPGSGKITVNGRDLEEYFPRETLRMVVRQPLELTETEGKFDVYVTVKGGGISGQAGAI 79 (130)
T ss_pred eEEEEeeCCCeEEEEEEEcCccEEEECCEeHHHHcCCHHHHHHHHHHHHHhCccCceeEEEEEEcCCHHHHHHHH
Confidence 457999999999999999999999999999999999889999999999999999999999999999999999997
No 4
>CHL00079 rps9 ribosomal protein S9
Probab=99.91 E-value=3.1e-25 Score=188.01 Aligned_cols=76 Identities=32% Similarity=0.517 Sum_probs=71.5
Q ss_pred CcccccCcccceEEEEEEEccceEEEEcCcchhhhCCc-hHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 230 GRAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPM-LDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 230 GrayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~-~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
.+++++||||||+|+|||.||+|+|+|||+++++||+. ...+++|++||.++++.++|||.|+|+|||.||||+||
T Consensus 3 ~~~~~~GrRKta~Arv~l~~G~G~i~INg~~~~~yf~~~~~~~~~v~~Pl~~~~~~~~~Di~i~V~GGG~sgQa~Ai 79 (130)
T CHL00079 3 ILYIGTGRRKTAVAQVRLVPGSGEIIINGKPAEEYLQYNPNYLNAIKAPLKLLGLENKYDIIVKVKGGGLTGQAEAI 79 (130)
T ss_pred eEEEEEeeCCCeEEEEEEEcCCcEEEECCCcHHHHCCcCHHHHHHHHHHHHHhCcCCceeEEEEEEcCChhHHHHHH
Confidence 35689999999999999999999999999999999996 45689999999999999999999999999999999997
No 5
>PTZ00086 40S ribosomal protein S16; Provisional
Probab=99.90 E-value=1.9e-24 Score=186.43 Aligned_cols=74 Identities=23% Similarity=0.390 Sum_probs=70.9
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcc--cCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKT--LGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~--lgkyDI~itVkGGGlSGQAgAI 305 (305)
.++++||||||+|+|+|.+|+|+|+|||+|+++||+ ..+|++|++||.+++. +++|||+|+|+|||.||||+||
T Consensus 10 ~v~~~GrRKtAiArv~l~~G~G~i~INg~~l~~y~~-~~~r~~i~~Pl~~~~~~~~~~~Di~i~V~GGG~sgQA~Ai 85 (147)
T PTZ00086 10 QVQTFGKKKTAVAVALVTKGKGLIRVNGVPLDLINP-ETLRAKVFEPLLLVGKERFSRLDIRVRVRGGGQVAQAYAI 85 (147)
T ss_pred ceEEeeecCCceEEEEEEcCCceEEECCcCHHHhCc-HHHHHHHHHHHHHhCcCccCceeEEEEEEcCCHHHHHHHH
Confidence 588999999999999999999999999999999998 6789999999999976 8999999999999999999997
No 6
>TIGR03627 arch_S9P archaeal ribosomal protein S9P. This model describes exclusively the archaeal ribosomal protein S9P. Homologous eukaryotic and bacterial ribosomal proteins are excluded from this model.
Probab=99.90 E-value=3e-24 Score=181.87 Aligned_cols=73 Identities=27% Similarity=0.438 Sum_probs=69.2
Q ss_pred ccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhc-ccCccceEEEeeecCcccccccC
Q 021913 232 AYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETK-TLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 232 ayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~-~lgkyDI~itVkGGGlSGQAgAI 305 (305)
++++||||||+|+|+|.||+|+|+|||++++.|| ...+|++|++||.+++ ..++|||+|+|+|||+||||+||
T Consensus 2 ~~~~GrRKta~A~v~l~~G~G~i~VNg~~~~~y~-~~~~r~~i~~Pl~~~~~~~~~~Dv~i~V~GGG~sgQa~Ai 75 (130)
T TIGR03627 2 VITSGKRKTAIARATIREGKGRVRINGVPVELYP-PELARLKIMEPLILAGDIAKEVDIDVKVSGGGIMGQADAA 75 (130)
T ss_pred eEEEeeCCCeEEEEEEEcCceEEEECCEeHHHhC-CHHHHHHHHHHHHHHhccccCccEEEEEEcCChhHHHHHH
Confidence 5789999999999999999999999999999887 5788999999999997 89999999999999999999997
No 7
>PRK00474 rps9p 30S ribosomal protein S9P; Reviewed
Probab=99.90 E-value=3.5e-24 Score=182.24 Aligned_cols=73 Identities=26% Similarity=0.417 Sum_probs=69.4
Q ss_pred ccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhc--ccCccceEEEeeecCcccccccC
Q 021913 232 AYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETK--TLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 232 ayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~--~lgkyDI~itVkGGGlSGQAgAI 305 (305)
++++||||||+|+|+|.||+|+|+|||+|++.|| ...+|++|++||.+++ +.++|||+|+|+|||+||||+||
T Consensus 5 ~~~~GrRKta~A~v~l~~G~G~i~VNg~~~~~y~-~~~~r~~i~~Pl~~~~~~~~~~~di~i~V~GGG~sgQa~Ai 79 (134)
T PRK00474 5 VITSGKRKTAIARATIREGKGRVRINGVPLELIE-PELARLKIMEPLILAGEDLRSKVDIDVNVEGGGIMGQADAA 79 (134)
T ss_pred EEEEeeCCCeEEEEEEEcCceEEEECCEeHHHHC-CHHHHHHHHHHHHHhCccccCCccEEEEEEcCChhHHHHHH
Confidence 5789999999999999999999999999999887 4788999999999999 89999999999999999999997
No 8
>PF00380 Ribosomal_S9: Ribosomal protein S9/S16; InterPro: IPR000754 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 [, ]. Ribosomal protein S9 is one of the proteins from the small ribosomal subunit. It belongs to the S9P family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacterial; algal chloroplast; cyanelle and archaeal S9 proteins; and mammalian; plant; and yeast mitochondrial ribosomal S9 proteins. These proteins adopt a beta-alpha-beta fold similar to that found in numerous RNA/DNA-binding proteins, as well as in kinases from the GHMP kinase family [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V46_I 3T1H_I 3MR8_I 3F1G_I 3D5C_I 3D5A_I 2WDG_I 3MS0_I 2WDM_I 2J02_I ....
Probab=99.89 E-value=1.2e-24 Score=182.07 Aligned_cols=70 Identities=46% Similarity=0.846 Sum_probs=68.6
Q ss_pred CcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcccCccceEEEeeecCcccccccC
Q 021913 236 GRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 236 GRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~lgkyDI~itVkGGGlSGQAgAI 305 (305)
||||||+|+|||.+|+|+|+|||+|+.+||+...+|++|++||.+++..++|||+|+|+|||.||||+||
T Consensus 1 GkRK~a~A~v~l~~G~G~i~INg~~l~~yf~~~~~r~~il~Pl~~~~~~~~~di~~~V~GGG~~gQa~Ai 70 (121)
T PF00380_consen 1 GKRKTAIARVWLKPGSGKIRINGKPLEEYFPNPYLREKILEPLELTGTLGKFDIFANVKGGGISGQAGAI 70 (121)
T ss_dssp EEETTEEEEEEEEESSSEEEETTSEHHHHSSSTTTGCCTTHHHHCTTTSTSEEEEEEEESSSHHHHHHHH
T ss_pred CCCceEEEEEEEEeCceEEEECCEEHHHhcCcHhHHHHHHHHHHHhCcCCeeeEEEEEecCcEeeehHHH
Confidence 8999999999999999999999999999999889999999999999999999999999999999999996
No 9
>PLN00210 40S ribosomal protein S16; Provisional
Probab=99.89 E-value=8.7e-24 Score=181.24 Aligned_cols=73 Identities=22% Similarity=0.314 Sum_probs=69.1
Q ss_pred ccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcc--cCccceEEEeeecCcccccccC
Q 021913 232 AYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKT--LGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 232 ayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~--lgkyDI~itVkGGGlSGQAgAI 305 (305)
+.++||||||+|+|+|+||+|+|+|||+|++.||+ ..+|++|++||.+++. +++|||+|+|+|||.||||+||
T Consensus 5 ~~~~GrRKta~Arv~~~~G~G~i~INg~~~~~y~~-~~~r~~i~~Pl~~~~~~~~~~~Di~~~V~GGG~sgQa~Ai 79 (141)
T PLN00210 5 VQCFGRKKTAVAVTYCKRGRGLIKINGCPIELVQP-EILRFKAFEPILLLGRHRFAGVDMRIRVKGGGHTSQIYAI 79 (141)
T ss_pred eeeeccCCCceEEEEEECCCceEEECCCcHHHHCC-HHHHHHHHHHHHHhCccccCceeEEEEEEcCCHhHHHHHH
Confidence 56899999999999999999999999999999988 7789999999999985 6999999999999999999997
No 10
>KOG1753 consensus 40S ribosomal protein S16 [Translation, ribosomal structure and biogenesis]
Probab=99.43 E-value=1.1e-13 Score=119.07 Aligned_cols=74 Identities=26% Similarity=0.324 Sum_probs=67.4
Q ss_pred cccccCcccceEEEEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHhcc--cCccceEEEeeecCcccccccC
Q 021913 231 RAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKT--LGLWDVDCTVKGGGVSGELRCF 305 (305)
Q Consensus 231 rayatGRRKTAiArV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt~~--lgkyDI~itVkGGGlSGQAgAI 305 (305)
.+...||+|||+|.+.|+.|+|.|.|||+|++.+-+ ..+|.++++|+.+++. ...+||.|+|+|||.++|.+||
T Consensus 8 Svq~fG~KK~AtAva~ck~G~glikvNg~ple~ie~-~~L~~Kl~Epvlllgk~rfa~vdi~v~~~ggghvsqiyai 83 (145)
T KOG1753|consen 8 SVQVFGRKKTATAVAHCKHGSGLIKVNGRPLELIEP-EILRYKLLEPVLLLGKERFAGVDIRVRVKGGGHVSQIYAI 83 (145)
T ss_pred ceeeeccccceEEEEEeecCceEEEECCcchHhccH-HHHHHHHhhhHhhhhhhhhCCCceEEEEecCchHHHHHHH
Confidence 355789999999999999999999999999997766 6789999999999976 6789999999999999999986
No 11
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=50.73 E-value=15 Score=34.46 Aligned_cols=31 Identities=23% Similarity=0.491 Sum_probs=24.3
Q ss_pred HHHHHHhhhHHHhcccC---ccceEEEeeecCcc
Q 021913 269 DHRAALLRPFSETKTLG---LWDVDCTVKGGGVS 299 (305)
Q Consensus 269 ~~Re~Il~PL~vt~~lg---kyDI~itVkGGGlS 299 (305)
..-..|..-|...+..+ .|||.|.+||||-.
T Consensus 55 ~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~ 88 (319)
T PF02601_consen 55 GAAASIVSALRKANEMGQADDFDVIIIIRGGGSI 88 (319)
T ss_pred chHHHHHHHHHHHHhccccccccEEEEecCCCCh
Confidence 45566777777777665 89999999999953
No 12
>PRK04081 hypothetical protein; Provisional
Probab=46.08 E-value=22 Score=33.45 Aligned_cols=81 Identities=31% Similarity=0.340 Sum_probs=47.8
Q ss_pred ccccccccCCceeeecccccccccCCCCCccccchhhhccHHHHHHHHHHHHH-----HHHHhcCCC-------CchhhH
Q 021913 94 WSFEEGVKDGSFEIGESAGTFDETGRESGEADEESKEELSEEELRMLQLEEKQ-----LTAELQGPS-------RAFGDL 161 (305)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~-------r~f~~l 161 (305)
...-|+..||.|+++||... |++.-- --+-|+.+.+|++||+..|-+||.. -.. |--|+ =-.|..
T Consensus 50 fviIeE~a~G~YKI~eE~Ps-~~Trvi-lr~~dG~ER~LS~eE~dkLi~eE~~KId~gTS~-Ltnpn~~~ss~G~gLg~~ 126 (207)
T PRK04081 50 FVIIEEQADGSYKILEEYPS-SETRVV-LRDLDGTERVLSQEEIDKLIKEEEAKIDNGTSN-LTNPNNSNSSGGMGLGGT 126 (207)
T ss_pred EEEEEecCCCceEeeeecCC-CcceEE-EecCCCcccccCHHHHHHHHHHHHHhhccCCCc-cCCCCcccccccccHHHH
Confidence 44556677888888888742 221111 1122367889999999999888876 222 33333 233444
Q ss_pred HHhcCCCHHHHHHHHHh
Q 021913 162 IAASGITDAMLESLIAL 178 (305)
Q Consensus 162 ~~~~~itd~~y~~LI~L 178 (305)
|-++. --+++.+||--
T Consensus 127 lLasa-AGaiLGswIGn 142 (207)
T PRK04081 127 ILASA-AGAILGSWIGN 142 (207)
T ss_pred HHHHH-HHHHHhhhhhH
Confidence 43332 23677888876
No 13
>COG1750 Archaeal serine proteases [General function prediction only]
Probab=44.87 E-value=39 Score=36.04 Aligned_cols=53 Identities=21% Similarity=0.248 Sum_probs=42.3
Q ss_pred EEEEEEEccceEEEEcCcchhhh-CCchHHHHHHhhhHHHhcc-cCccceEEEeee
Q 021913 242 IARVWIQPGDGKFIVNDKEFDVY-FPMLDHRAALLRPFSETKT-LGLWDVDCTVKG 295 (305)
Q Consensus 242 iArV~L~pGsGkItVNGkpl~~Y-Fp~~~~Re~Il~PL~vt~~-lgkyDI~itVkG 295 (305)
.-.|.+.||.|.+.|-+-|+... ++ ...|.....-+.+++. ..+||+++.|+-
T Consensus 53 ~~~vtv~pG~G~v~v~t~P~t~~d~~-~SArvAa~~A~~~~Gvd~ssyd~~i~v~a 107 (579)
T COG1750 53 NISVTVTPGDGRVYVATFPYTQIDMQ-GSARVAAGVALRLAGVDMSSYDVYIAVEA 107 (579)
T ss_pred eeeeeecCCCceEEeecCCCchhccc-hhhHHHHHHHHHhhCCCccceeEEEEEec
Confidence 34556689999999999999876 44 4567777777888876 779999999965
No 14
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=36.53 E-value=34 Score=33.80 Aligned_cols=29 Identities=24% Similarity=0.401 Sum_probs=21.5
Q ss_pred HHHHHHhhhHHHhcccCccceEEEeeecCc
Q 021913 269 DHRAALLRPFSETKTLGLWDVDCTVKGGGV 298 (305)
Q Consensus 269 ~~Re~Il~PL~vt~~lgkyDI~itVkGGGl 298 (305)
..-..|..-|...+..+ |||.|.+||||-
T Consensus 176 ~A~~~i~~al~~~~~~~-~Dviii~RGGGS 204 (438)
T PRK00286 176 GAAASIVAAIERANARG-EDVLIVARGGGS 204 (438)
T ss_pred cHHHHHHHHHHHhcCCC-CCEEEEecCCCC
Confidence 34455666666666665 999999999994
No 15
>PF03755 YicC_N: YicC-like family, N-terminal region ; InterPro: IPR013527 Proteins in this entry are homologues of YicC (P23839 from SWISSPROT) from Escherichia coli. Although it is relatively poorly characterised YicC has been shown to be important for cells in the stationary phase, and essential for growth at high temperatures []. This domain is found at the N-terminal region of these proteins.
Probab=35.83 E-value=1e+02 Score=26.63 Aligned_cols=58 Identities=17% Similarity=0.204 Sum_probs=33.2
Q ss_pred EEEEEEEccceEEE-----EcCcchhhhCCchHHHHHHhhhH----HHhcccCccceEEEeeecCcc
Q 021913 242 IARVWIQPGDGKFI-----VNDKEFDVYFPMLDHRAALLRPF----SETKTLGLWDVDCTVKGGGVS 299 (305)
Q Consensus 242 iArV~L~pGsGkIt-----VNGkpl~~YFp~~~~Re~Il~PL----~vt~~lgkyDI~itVkGGGlS 299 (305)
.+++...-+.+.|+ ||+|-++..+..+.....+-..+ .-.=.-|++||.|+++..+.+
T Consensus 7 fgr~~~~~~~~~~~vEikSvN~R~Ldi~~rlP~~l~~lE~~ir~~i~~~l~RGkV~v~i~~~~~~~~ 73 (159)
T PF03755_consen 7 FGRAEAETDGGSISVEIKSVNHRFLDISIRLPRELSSLEPEIRKLIRKKLSRGKVEVSIRVERSSES 73 (159)
T ss_pred CceeEEecCCeEEEEEEEecccCceeeEEeCCHHHHHHHHHHHHHHHHhcccceEEEEEEEEECccc
Confidence 44555554555555 59998877665433221111111 111238999999999887643
No 16
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=30.82 E-value=86 Score=34.16 Aligned_cols=50 Identities=14% Similarity=0.227 Sum_probs=31.4
Q ss_pred EEEEEccceEEEEcCcchhhhCCchHHHHHHhhhHHHh-----------cccCccceEEEeeecCcc
Q 021913 244 RVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSET-----------KTLGLWDVDCTVKGGGVS 299 (305)
Q Consensus 244 rV~L~pGsGkItVNGkpl~~YFp~~~~Re~Il~PL~vt-----------~~lgkyDI~itVkGGGlS 299 (305)
.|.+.||+|+++++|. +... .++.+..-+..+ +...++||++.|-||...
T Consensus 614 E~~~~~g~g~~~~tG~-lg~v-----mkes~~~A~~~~~~~~~~~~~~~~~~~~~Di~i~v~~g~~~ 674 (784)
T PRK10787 614 ETACVPGKGKLTYTGS-LGEV-----MQESIQAALTVVRARAEKLGINPDFYEKRDIHVHVPEGATP 674 (784)
T ss_pred EEEEecCCceEEEecC-cHHH-----HHHHHHHHHHHHHHHHHHcCCCcccccCceEEEEecCCCCC
Confidence 4455799999999994 4433 333333333332 124578999999887543
No 17
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=27.19 E-value=54 Score=32.92 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=22.5
Q ss_pred HHHHHhhhHHHhcccCccceEEEeeecCcc
Q 021913 270 HRAALLRPFSETKTLGLWDVDCTVKGGGVS 299 (305)
Q Consensus 270 ~Re~Il~PL~vt~~lgkyDI~itVkGGGlS 299 (305)
.-..|..-|...+..+.+||.|.+||||-.
T Consensus 171 a~~~i~~al~~~~~~~~~dviii~RGGGs~ 200 (432)
T TIGR00237 171 AVQSIVESIELANTKNECDVLIVGRGGGSL 200 (432)
T ss_pred HHHHHHHHHHHhhcCCCCCEEEEecCCCCH
Confidence 345566666666766679999999999953
No 18
>COG3526 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]
Probab=23.90 E-value=92 Score=26.19 Aligned_cols=30 Identities=20% Similarity=0.273 Sum_probs=21.9
Q ss_pred EEEEEEEccce---EEEEcCcchhhh-----CCchHHH
Q 021913 242 IARVWIQPGDG---KFIVNDKEFDVY-----FPMLDHR 271 (305)
Q Consensus 242 iArV~L~pGsG---kItVNGkpl~~Y-----Fp~~~~R 271 (305)
.+.|.+.||+| +|++||.-+-+- ||.....
T Consensus 37 lgeV~L~PgTGG~FeI~~dg~~iWeRKrdGGFP~ak~L 74 (99)
T COG3526 37 LGEVALIPGTGGVFEITCDGVLIWERKRDGGFPEAKVL 74 (99)
T ss_pred hheEEEecCCCceEEEEECCEEEEEeeccCCCCchHHH
Confidence 56789999998 888999866432 7765443
No 19
>PF04181 RPAP2_Rtr1: Rtr1/RPAP2 family; InterPro: IPR007308 This entry represents a domain found in PAP2 (RNAP II associated polypeptide) protein and the yeast Rtr1 proteins. Its function is not known however it is thought to be a zinc finger.
Probab=21.93 E-value=92 Score=24.06 Aligned_cols=25 Identities=16% Similarity=0.429 Sum_probs=21.9
Q ss_pred CCHHHHHHHHHhhccccccCCCCCC
Q 021913 167 ITDAMLESLIALKDLEGVEGLPPLS 191 (305)
Q Consensus 167 itd~~y~~LI~L~~LerL~~lpPls 191 (305)
++...|+.+|.=+.+.++||+|.|+
T Consensus 5 l~~~~y~dvv~ER~~~~~CGYplC~ 29 (79)
T PF04181_consen 5 LQPSDYDDVVEERNINGLCGYPLCS 29 (79)
T ss_pred CCHHHHHHHHHHHHhCCCCCCccCC
Confidence 5678999999999999999997666
Done!