Query 537021.9.peg.671_1
Match_columns 38
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 39220
Date Tue May 24 23:32:15 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i peg_671.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04092 mtEFG2_II_like mtEFG2_ 27.8 29 0.00075 17.8 1.2 22 9-30 13-34 (83)
2 cd03690 Tet_II Tet_II: This su 24.9 49 0.0013 16.7 1.9 25 8-32 15-39 (85)
3 TIGR02903 spore_lon_C ATP-depe 24.1 25 0.00065 18.1 0.3 20 11-30 544-563 (616)
4 PRK13916 plasmid segregation p 16.2 65 0.0016 16.1 1.0 13 26-38 46-58 (97)
5 cd04091 mtEFG1_II_like mtEFG1_ 14.1 95 0.0024 15.2 1.4 21 11-31 14-34 (81)
6 pfam11409 SARA Smad anchor for 9.4 91 0.0023 15.3 0.1 26 10-35 7-32 (39)
7 cd04088 EFG_mtEFG_II EFG_mtEFG 8.7 1.6E+02 0.0041 14.1 1.1 22 8-29 12-33 (83)
8 PRK13698 plasmid-partitioning 8.1 1E+02 0.0026 15.1 -0.1 10 20-29 213-222 (323)
9 KOG3550 consensus 7.8 2.4E+02 0.0061 13.3 1.6 28 2-29 106-133 (207)
10 KOG3774 consensus 7.0 1.8E+02 0.0046 13.8 0.7 25 9-33 455-484 (563)
No 1
>cd04092 mtEFG2_II_like mtEFG2_C: C-terminus of mitochondrial Elongation factor G2 (mtEFG2)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. No clear phenotype has been found for mutants in the yeast homologue of mtEFG2, MEF2. There are two forms of mtEFG present in mammals (designated mtEFG1s and mtEFG2s) mtEFG1s are n
Probab=27.78 E-value=29 Score=17.76 Aligned_cols=22 Identities=18% Similarity=0.576 Sum_probs=17.8
Q ss_pred CCCCEEEEEEEEECCCCCCCCC
Q ss_conf 2585014555420100002667
Q 537021.9.peg.6 9 KSAPISYCRLITGEISARSGIN 30 (38)
Q Consensus 9 ksapisycrlitgeisarsgin 30 (38)
....++|+|+..|+|...+-+.
T Consensus 13 ~~G~ls~vRVysG~l~~g~~v~ 34 (83)
T cd04092 13 QRGPLTFVRVYSGTLKRGSALY 34 (83)
T ss_pred CCCCEEEEEEEECEECCCCEEE
T ss_conf 8440999999707897899999
No 2
>cd03690 Tet_II Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=24.86 E-value=49 Score=16.66 Aligned_cols=25 Identities=24% Similarity=0.505 Sum_probs=19.9
Q ss_pred CCCCCEEEEEEEEECCCCCCCCCCC
Q ss_conf 2258501455542010000266788
Q 537021.9.peg.6 8 QKSAPISYCRLITGEISARSGINQP 32 (38)
Q Consensus 8 qksapisycrlitgeisarsginqp 32 (38)
.....++|.|+..|++..+.-++-+
T Consensus 15 ~~~grl~yvRv~sG~l~~~~~v~~~ 39 (85)
T cd03690 15 DKGERLAYLRLYSGTLRLRDSVRVN 39 (85)
T ss_pred CCCCEEEEEEEEEEEECCCCEEECC
T ss_conf 9998599999834098289889658
No 3
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family; InterPro: IPR014252 This entry shows some relation to the widely distributed ATP-dependent protease La, also called Lon or LonA (IPR004815 from INTERPRO), but is more closely related to LonB (IPR014251 from INTERPRO), a LonA paralog found only in endospore-forming bacteria. Proteins in this entry are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ). They are restricted to a subset of endospore-forming species, and probably participate in the program of endospore formation. We propose the designation LonC..
Probab=24.12 E-value=25 Score=18.09 Aligned_cols=20 Identities=50% Similarity=0.557 Sum_probs=14.3
Q ss_pred CCEEEEEEEEECCCCCCCCC
Q ss_conf 85014555420100002667
Q 537021.9.peg.6 11 APISYCRLITGEISARSGIN 30 (38)
Q Consensus 11 apisycrlitgeisarsgin 30 (38)
.||-----||||||-|.+|.
T Consensus 544 ~p~rQDvAiTGEiS~~G~ik 563 (616)
T TIGR02903 544 KPIRQDVAITGEISLRGKIK 563 (616)
T ss_pred CCCEEEEEEEEEEEEECEEE
T ss_conf 98302256510388602165
No 4
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=16.16 E-value=65 Score=16.07 Aligned_cols=13 Identities=46% Similarity=0.795 Sum_probs=10.3
Q ss_pred CCCCCCCCCCCCC
Q ss_conf 0266788865679
Q 537021.9.peg.6 26 RSGINQPLPSKNK 38 (38)
Q Consensus 26 rsginqplpsknk 38 (38)
..|.|.|+||+|.
T Consensus 46 ~~G~~~PiP~~~~ 58 (97)
T PRK13916 46 EIGENPPIPSKEH 58 (97)
T ss_pred HCCCCCCCCCCCC
T ss_conf 5578999986345
No 5
>cd04091 mtEFG1_II_like mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects and a tendency to lose mitochondrial DNA. There are two forms of mtEFG present in mammals
Probab=14.10 E-value=95 Score=15.23 Aligned_cols=21 Identities=19% Similarity=0.482 Sum_probs=16.7
Q ss_pred CCEEEEEEEEECCCCCCCCCC
Q ss_conf 850145554201000026678
Q 537021.9.peg.6 11 APISYCRLITGEISARSGINQ 31 (38)
Q Consensus 11 apisycrlitgeisarsginq 31 (38)
..++|+|+..|.+...+-+..
T Consensus 14 G~lsf~RVysG~l~~g~~v~n 34 (81)
T cd04091 14 GQLTYMRIYQGKLKKGDTIYN 34 (81)
T ss_pred CCEEEEEEEEEEECCCCEEEE
T ss_conf 889999996728879999997
No 6
>pfam11409 SARA Smad anchor for receptor activation (SARA). Smad proteins mediate transforming growth factor-beta (TGF-beta) signaling from the transmembrane serine-threonine receptor kinases to the nucleus. SARA recruits Smad2 to the TGF-beta receptors for phosphorylation.
Probab=9.39 E-value=91 Score=15.33 Aligned_cols=26 Identities=31% Similarity=0.599 Sum_probs=19.0
Q ss_pred CCCEEEEEEEEECCCCCCCCCCCCCC
Q ss_conf 58501455542010000266788865
Q 537021.9.peg.6 10 SAPISYCRLITGEISARSGINQPLPS 35 (38)
Q Consensus 10 sapisycrlitgeisarsginqplps 35 (38)
..|..||..|----.+.+.-++|-||
T Consensus 7 NnPmEYCStiPP~qqa~~~~~~ppps 32 (39)
T pfam11409 7 NNPMEYCSTIPPHQQAATSPGSPPPS 32 (39)
T ss_pred CCCCHHHCCCCCHHHHHHCCCCCCCE
T ss_conf 98104431588388886367899985
No 7
>cd04088 EFG_mtEFG_II EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more compl
Probab=8.72 E-value=1.6e+02 Score=14.09 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=17.1
Q ss_pred CCCCCEEEEEEEEECCCCCCCC
Q ss_conf 2258501455542010000266
Q 537021.9.peg.6 8 QKSAPISYCRLITGEISARSGI 29 (38)
Q Consensus 8 qksapisycrlitgeisarsgi 29 (38)
+..-.|+|+|+..|.+..+.-+
T Consensus 12 ~~~Gri~~~RV~~G~l~~g~~v 33 (83)
T cd04088 12 PFVGKLSFVRVYSGTLKAGSTL 33 (83)
T ss_pred CCCCEEEEEEEECCEECCCCEE
T ss_conf 9888699999958998679758
No 8
>PRK13698 plasmid-partitioning protein; Provisional
Probab=8.09 E-value=1e+02 Score=15.10 Aligned_cols=10 Identities=70% Similarity=0.949 Sum_probs=5.5
Q ss_pred EECCCCCCCC
Q ss_conf 2010000266
Q 537021.9.peg.6 20 TGEISARSGI 29 (38)
Q Consensus 20 tgeisarsgi 29 (38)
.||+|||+|-
T Consensus 213 p~eLsAR~Ge 222 (323)
T PRK13698 213 PGELSARSGE 222 (323)
T ss_pred HHHHHHHHHH
T ss_conf 1232033038
No 9
>KOG3550 consensus
Probab=7.76 E-value=2.4e+02 Score=13.26 Aligned_cols=28 Identities=32% Similarity=0.624 Sum_probs=22.5
Q ss_pred CCCCCCCCCCCEEEEEEEEECCCCCCCC
Q ss_conf 6212432258501455542010000266
Q 537021.9.peg.6 2 NRYAGQQKSAPISYCRLITGEISARSGI 29 (38)
Q Consensus 2 nryagqqksapisycrlitgeisarsgi 29 (38)
|-..|.....||-..|.|.|.+..|.|-
T Consensus 106 nvmggkeqnspiyisriipggvadrhgg 133 (207)
T KOG3550 106 NVMGGKEQNSPIYISRIIPGGVADRHGG 133 (207)
T ss_pred EECCCCCCCCCEEEEEECCCCCCCCCCC
T ss_conf 2015755589647886247752001376
No 10
>KOG3774 consensus
Probab=6.96 E-value=1.8e+02 Score=13.85 Aligned_cols=25 Identities=40% Similarity=0.619 Sum_probs=18.4
Q ss_pred CCCCEEEEEEEE-----ECCCCCCCCCCCC
Q ss_conf 258501455542-----0100002667888
Q 537021.9.peg.6 9 KSAPISYCRLIT-----GEISARSGINQPL 33 (38)
Q Consensus 9 ksapisycrlit-----geisarsginqpl 33 (38)
|..|.|-|.--+ +.||||+..|.|-
T Consensus 455 ~~Dp~SrckCnppys~E~~IsaR~DLNp~n 484 (563)
T KOG3774 455 KKDPFSRCKCNPPYSAENGISARGDLNPPN 484 (563)
T ss_pred CCCCCCCCCCCCCCCCCCCEEECCCCCCCC
T ss_conf 568431356899977556644425568999
Done!