Query 032302
Match_columns 143
No_of_seqs 226 out of 931
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 12:18:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032302.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032302hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3331 Mitochondrial/chloropl 100.0 2.8E-40 6.2E-45 265.6 8.3 142 1-142 1-149 (213)
2 PF06984 MRP-L47: Mitochondria 100.0 1.2E-35 2.6E-40 212.9 8.9 86 38-123 1-87 (87)
3 COG0255 RpmC Ribosomal protein 99.7 4.8E-18 1E-22 117.4 7.3 60 62-127 6-66 (69)
4 CHL00154 rpl29 ribosomal prote 99.7 8E-18 1.7E-22 115.5 7.4 61 59-125 4-65 (67)
5 PRK00306 50S ribosomal protein 99.7 1.3E-17 2.9E-22 113.3 7.9 64 59-128 1-65 (66)
6 PRK14549 50S ribosomal protein 99.7 9.3E-17 2E-21 110.5 7.8 62 59-126 4-67 (69)
7 PF00831 Ribosomal_L29: Riboso 99.7 2.3E-16 5E-21 104.9 6.4 57 61-123 1-58 (58)
8 PRK00461 rpmC 50S ribosomal pr 99.6 4.9E-16 1.1E-20 111.6 7.5 63 60-128 1-64 (87)
9 cd00427 Ribosomal_L29_HIP Ribo 99.6 4E-16 8.7E-21 103.3 6.0 56 62-123 1-57 (57)
10 TIGR00012 L29 ribosomal protei 99.6 2.1E-15 4.5E-20 99.4 5.8 54 63-122 1-55 (55)
11 KOG3436 60S ribosomal protein 98.5 2.2E-07 4.8E-12 70.5 5.6 60 60-125 5-66 (123)
12 PRK11546 zraP zinc resistance 65.5 14 0.0003 28.9 4.7 51 67-126 61-111 (143)
13 PF12949 HeH: HeH/LEM domain; 64.4 6.1 0.00013 24.0 2.0 30 112-141 5-34 (35)
14 PRK07248 hypothetical protein; 56.0 62 0.0013 22.3 6.2 55 59-114 1-56 (87)
15 PF10146 zf-C4H2: Zinc finger- 52.4 48 0.001 27.6 6.0 45 71-124 29-73 (230)
16 PRK07075 isochorismate-pyruvat 46.5 62 0.0013 23.3 5.1 52 60-112 9-60 (101)
17 PF11830 DUF3350: Domain of un 46.0 41 0.00089 22.6 3.7 30 63-92 22-51 (56)
18 smart00830 CM_2 Chorismate mut 44.2 90 0.002 20.4 5.8 47 68-114 3-50 (79)
19 TIGR01799 CM_T chorismate muta 37.9 1.3E+02 0.0029 20.5 5.8 51 63-114 3-54 (83)
20 TIGR01791 CM_archaeal chorisma 37.7 1.3E+02 0.0028 20.4 5.8 52 62-114 2-54 (83)
21 COG3678 CpxP P pilus assembly/ 34.9 2.3E+02 0.0049 22.4 10.2 95 25-123 22-119 (160)
22 PF06780 Erp_C: Erp protein C- 34.4 1.8E+02 0.0038 23.1 6.2 104 30-140 35-143 (146)
23 PRK06285 chorismate mutase; Pr 33.8 1.6E+02 0.0035 20.7 5.6 53 60-113 8-61 (96)
24 KOG0487 Transcription factor A 29.5 75 0.0016 27.8 3.8 32 108-140 263-294 (308)
25 PRK06443 chorismate mutase; Va 27.9 2.6E+02 0.0057 22.7 6.4 57 59-116 5-62 (177)
26 PRK09239 chorismate mutase; Pr 27.0 2.5E+02 0.0054 20.4 5.8 53 60-113 11-64 (104)
27 PRK11199 tyrA bifunctional cho 23.5 2.3E+02 0.0051 24.5 5.8 52 61-113 5-57 (374)
28 PF06528 Phage_P2_GpE: Phage P 22.3 70 0.0015 19.9 1.7 17 58-74 9-25 (39)
29 TIGR01803 CM-like chorismate m 21.3 2.8E+02 0.006 18.8 5.6 51 62-113 2-53 (82)
30 PF11498 Activator_LAG-3: Tran 21.0 1.7E+02 0.0037 26.7 4.5 54 28-87 8-63 (468)
No 1
>KOG3331 consensus Mitochondrial/chloroplast ribosomal protein L4/L29 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-40 Score=265.62 Aligned_cols=142 Identities=37% Similarity=0.612 Sum_probs=123.7
Q ss_pred ChHHHHHHHHHHHHHhhhcchHHH--H-HHhhccCCCCCcchhhcCCCC----CCCCCCCCCCCCCChHHHhcCCHHHHH
Q 032302 1 MFLTRFIGRAFLAAAAKSESSAAT--A-AAASMATSRHNPLEEFFENDR----GPDDQKPVYGRSWKASELRLKSWDDLN 73 (143)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~--~-a~~~~~~~~~~gL~eFF~~~~----~~~~~~~~~GRaWk~~ELR~KS~eDLh 73 (143)
||...+.++++|..|...+.++.+ . +..+..++.+|||||||++.. .+.+..+++||+|+++|||.||+.|||
T Consensus 1 ~F~k~f~~l~f~~ka~~Rs~~~lvp~p~~~sa~~~~dt~pL~qFFddk~~~~~~~~~p~~k~GR~W~aeELR~KS~nDLH 80 (213)
T KOG3331|consen 1 KFTKPFPKLPFLPKAKIRSPTQLVPIPPTTSALRVPDTHPLWQFFDDKKFDRSADEEPPVKHGRAWSAEELRLKSFNDLH 80 (213)
T ss_pred CCccccccchhhhHhhccCCccccCCccccccCCCCCCCcHHHHhhhhhccCChhhcCCcccCCccchHHHhcchhhHHH
Confidence 678889999999998888887766 2 223445566899999998543 344445669999999999999999999
Q ss_pred HHHHHHHHHHhhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHHhhCCChhhHHHHHHHhhh
Q 032302 74 KLWYVLLKEKNMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERAIEEPDPRRSAEMKRMINA 142 (143)
Q Consensus 74 kLw~~LlKErNlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~~a~~~~~~~~~~~~~in~ 142 (143)
+|||+|+||+|||+||+++++...+++|||+||.+|++||+||+|||+||+.++...+..++++++.++
T Consensus 81 ~LWYvcLkErNmL~T~~~~~k~~~~~~PnpERi~kV~~TM~~I~~Vl~ER~~Ay~~~~~~e~~~~~~k~ 149 (213)
T KOG3331|consen 81 KLWYVCLKERNMLATMRHELKNIVGSFPNPERIDKVRTTMWRIEHVLNERNLAYSASRTGEQDERERKK 149 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHH
Confidence 999999999999999999999999999999999999999999999999999999999999988776553
No 2
>PF06984 MRP-L47: Mitochondrial 39-S ribosomal protein L47 (MRP-L47); InterPro: IPR010729 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 the N-terminal region (approximately 8 residues) of the eukaryotic mitochondrial 39-S ribosomal protein L47 (MRP-L47). Mitochondrial ribosomal proteins (MRPs) are the counterparts of the cytoplasmic ribosomal proteins, in that they fulfil similar functions in protein biosynthesis. However, they are distinct in number, features and primary structure [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005761 mitochondrial ribosome
Probab=100.00 E-value=1.2e-35 Score=212.91 Aligned_cols=86 Identities=53% Similarity=0.859 Sum_probs=81.8
Q ss_pred chhhcCCCCCC-CCCCCCCCCCCChHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhCCCCCCcchHHHHHHHHHH
Q 032302 38 LEEFFENDRGP-DDQKPVYGRSWKASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRI 116 (143)
Q Consensus 38 L~eFF~~~~~~-~~~~~~~GRaWk~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~ql~np~rirkVRrtIARI 116 (143)
||+||+++.++ +++.+.+||+|++.|||.|||+|||+|||+|+||+|+++|+++++......+++|+|+++|++||+||
T Consensus 1 L~eFF~~~~~~~~~~~~~~GR~Wt~~ELR~KS~eDLHkLWyv~lKERN~L~T~~~e~~r~~~~~~~~~r~~kV~~sM~~I 80 (87)
T PF06984_consen 1 LWEFFDDKKNWPPEEEVKHGRAWTAEELRRKSFEDLHKLWYVCLKERNMLLTEEYEARRQGEGMPSPERLEKVRKSMARI 80 (87)
T ss_pred ChhhcCCCcCCCcccccCCCCcccHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHH
Confidence 89999998886 55667799999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHH
Q 032302 117 KQVLTER 123 (143)
Q Consensus 117 kTVL~ER 123 (143)
|+||+||
T Consensus 81 k~Vl~ER 87 (87)
T PF06984_consen 81 KHVLTER 87 (87)
T ss_pred HHHHhcC
Confidence 9999997
No 3
>COG0255 RpmC Ribosomal protein L29 [Translation, ribosomal structure and biogenesis]
Probab=99.74 E-value=4.8e-18 Score=117.44 Aligned_cols=60 Identities=37% Similarity=0.500 Sum_probs=57.7
Q ss_pred HHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHHhhC
Q 032302 62 SELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERAIEE 127 (143)
Q Consensus 62 ~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~~a~ 127 (143)
+|||.||.+||.+.+.+|++|+ |++| |.++|+++||++|+.||++||||+||++|+....
T Consensus 6 ~elR~~s~eeL~~~l~eLK~ELf~LR~------q~a~g~l~n~~~ir~vRr~IARi~Tv~~E~~~~~ 66 (69)
T COG0255 6 KELREKSVEELEEELRELKKELFNLRF------QLATGQLENPHRIREVRRDIARILTVLREKELEA 66 (69)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHH------HHHhCCCCCcHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4999999999999999999999 9999 9999999999999999999999999999998754
No 4
>CHL00154 rpl29 ribosomal protein L29; Validated
Probab=99.74 E-value=8e-18 Score=115.50 Aligned_cols=61 Identities=10% Similarity=0.092 Sum_probs=59.1
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHHh
Q 032302 59 WKASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERAI 125 (143)
Q Consensus 59 Wk~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~~ 125 (143)
++++|||.+|.+||.+...++++|+ |++| |+++||++||++|+.||++||||+||++||..
T Consensus 4 mk~~elr~ls~~eL~~~l~elk~elf~LRf------q~atgql~n~~~ir~~RrdIARikTil~ek~~ 65 (67)
T CHL00154 4 PKITDIIDLTDSEISEEIIKTKKELFDLRL------KKATRQNFKPHLFKHKKHRLAQLLTLLSSRLK 65 (67)
T ss_pred CCHHHHHhCCHHHHHHHHHHHHHHHHHHHH------HHHhCcccChHHHHHHHHHHHHHHHHHHHHhc
Confidence 7889999999999999999999999 9999 99999999999999999999999999999864
No 5
>PRK00306 50S ribosomal protein L29; Reviewed
Probab=99.73 E-value=1.3e-17 Score=113.28 Aligned_cols=64 Identities=36% Similarity=0.469 Sum_probs=60.9
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHHhhCC
Q 032302 59 WKASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERAIEEP 128 (143)
Q Consensus 59 Wk~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~~a~~ 128 (143)
|++.|||.+|.+||.+++.++++|+ +++| ++++|+++||++|+.+|++||||+||++||..+..
T Consensus 1 Mk~~elr~ls~~eL~~~l~~lkkeL~~lR~------~~~~~~~~n~~~i~~~rk~IARi~Tvl~er~~~~~ 65 (66)
T PRK00306 1 MKAKELRELSVEELNEKLLELKKELFNLRF------QKATGQLENTHRLREVRRDIARIKTVLRERELGAA 65 (66)
T ss_pred CCHHHHhhCCHHHHHHHHHHHHHHHHHHHH------HHHhCCCcCcHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 6789999999999999999999999 9999 99999999999999999999999999999987653
No 6
>PRK14549 50S ribosomal protein L29P; Provisional
Probab=99.69 E-value=9.3e-17 Score=110.50 Aligned_cols=62 Identities=27% Similarity=0.253 Sum_probs=59.7
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCC-CCCCcchHHHHHHHHHHHHHHHHHHhh
Q 032302 59 WKASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLK-FPNPERIPKVRKSMCRIKQVLTERAIE 126 (143)
Q Consensus 59 Wk~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~q-l~np~rirkVRrtIARIkTVL~ER~~a 126 (143)
+++.|||.+|.+||.+.+.++.+|+ |++| ++++|+ ++||++|+.||++||||+||++||...
T Consensus 4 mk~~elr~ls~~eL~~~l~elk~eLf~LR~------q~~~~~~l~n~~~ir~~Rk~IARi~Tvl~ek~~~ 67 (69)
T PRK14549 4 LRASEIREMSPEEREEKLEELKLELLKERA------QAAMGGAPENPGRIREIRRTIARILTIQREKKRE 67 (69)
T ss_pred CcHHHHHhCCHHHHHHHHHHHHHHHHHHHH------HHHhCcCccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 7899999999999999999999999 9999 999999 999999999999999999999999753
No 7
>PF00831 Ribosomal_L29: Ribosomal L29 protein; InterPro: IPR001854 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 L29 is one of the proteins from the large ribosomal subunit. L29 belongs to a family of ribosomal proteins of 63 to 138 amino-acid residues which, on the basis of sequence similarities [], groups: Red algal L29. Bacterial L29. Mammalian L35 Caenorhabditis elegans L35 (ZK652.4). Yeast L35. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1VSP_W 3MS1_Y 3MRZ_Y 3F1H_2 3PYT_Y 3PYO_Y 3D5D_2 3D5B_2 3PYR_Y 1VSA_W ....
Probab=99.66 E-value=2.3e-16 Score=104.86 Aligned_cols=57 Identities=37% Similarity=0.469 Sum_probs=55.6
Q ss_pred hHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHH
Q 032302 61 ASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTER 123 (143)
Q Consensus 61 ~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER 123 (143)
++|||.+|.+||.+.+.++++|+ +++| |+++|+++||++++.+|++||||+||++||
T Consensus 1 ~~elr~ls~~eL~~~l~elk~eL~~Lr~------q~~~~~l~n~~~ir~~Rr~IARi~Tvl~er 58 (58)
T PF00831_consen 1 AKELRELSDEELQEKLEELKKELFNLRF------QKATGQLENPHRIREIRRDIARILTVLRER 58 (58)
T ss_dssp CHHHCHSHHHHHHHHHHHHHHHHHHHHH------HHHHSSSSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHhCCHHHHHHHHHHHHHHHHHHHH------HHHhcccccccHHHHHHHHHHHHHHHHhcC
Confidence 57999999999999999999999 9999 999999999999999999999999999997
No 8
>PRK00461 rpmC 50S ribosomal protein L29; Reviewed
Probab=99.65 E-value=4.9e-16 Score=111.62 Aligned_cols=63 Identities=32% Similarity=0.420 Sum_probs=59.8
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHHhhCC
Q 032302 60 KASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERAIEEP 128 (143)
Q Consensus 60 k~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~~a~~ 128 (143)
++.|||.+|.+||.+.+.++++|+ +++| |+++|+++||++|+.+|++||||+||++||..+..
T Consensus 1 ~~~elR~lS~eEL~e~L~elkkELf~LR~------q~atgql~n~~~ir~iRR~IARilTvl~Ek~~~~~ 64 (87)
T PRK00461 1 LFKELRKKSVEELEKLVIELKAELFTLRF------KNATGSLDQTHKIKEIRKDIARILTILNERELEEK 64 (87)
T ss_pred ChHHHHhCCHHHHHHHHHHHHHHHHHHHH------HHHhCcccccHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 367999999999999999999999 9999 99999999999999999999999999999987654
No 9
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=99.64 E-value=4e-16 Score=103.30 Aligned_cols=56 Identities=43% Similarity=0.534 Sum_probs=54.2
Q ss_pred HHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHH
Q 032302 62 SELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTER 123 (143)
Q Consensus 62 ~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER 123 (143)
.|||.+|.+||.+.+.++++|+ +++| |+++|+++||++++.+|++||||+||++||
T Consensus 1 ~eir~ls~~eL~~~l~~l~~elf~Lr~------q~~~~~~~~~~~~~~~Rr~IARi~Til~er 57 (57)
T cd00427 1 KELREKSDEELQEKLDELKKELFNLRF------QKATGQLENPHRIRKVRKDIARIKTVLNEK 57 (57)
T ss_pred ChHHHCCHHHHHHHHHHHHHHHHHHHH------HHHHCCCcCcHHHHHHHHHHHHHHHHHHcC
Confidence 4899999999999999999999 9999 999999999999999999999999999986
No 10
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=99.59 E-value=2.1e-15 Score=99.42 Aligned_cols=54 Identities=35% Similarity=0.464 Sum_probs=52.5
Q ss_pred HHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHH
Q 032302 63 ELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTE 122 (143)
Q Consensus 63 ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~E 122 (143)
|||.+|.+||.+...++++|+ +++| |+++|++.||++++.+|++||||+||++|
T Consensus 1 elr~~s~~EL~~~l~~lr~eLf~Lr~------~~~~~~~~~~~~i~~~Rk~IARi~Tvl~e 55 (55)
T TIGR00012 1 ELREKSKEELAKKLDELKKELFELRF------QKATGQLAKPHRIRQVRRDIARLLTVLRE 55 (55)
T ss_pred CHhhCCHHHHHHHHHHHHHHHHHHHH------HHHhCCcccchHHHHHHHHHHHHHHHHhC
Confidence 699999999999999999999 9999 99999999999999999999999999985
No 11
>KOG3436 consensus 60S ribosomal protein L35 [Translation, ribosomal structure and biogenesis]
Probab=98.51 E-value=2.2e-07 Score=70.47 Aligned_cols=60 Identities=32% Similarity=0.257 Sum_probs=52.8
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHHhhCCCC-CCcchHHHHHHHHHHHHHHHHHHh
Q 032302 60 KASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHAQNLKFP-NPERIPKVRKSMCRIKQVLTERAI 125 (143)
Q Consensus 60 k~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~~~~ql~-np~rirkVRrtIARIkTVL~ER~~ 125 (143)
++.|||.+|-++|.+.+.+|..|+ .|+. +..+|.-+ +-+.|+.||++|||+.||++|++.
T Consensus 5 k~~eLr~~~ke~L~~ql~dLK~ELa~LRv------~K~tgg~~~klskik~vrKsiArvLTVine~~k 66 (123)
T KOG3436|consen 5 KARELRGKSKEQLLKQLDDLKVELAQLRV------AKVTGGAASKLSKIKVVRKSIARVLTVINEKQK 66 (123)
T ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHHHH------HHhhccchhhhHHHHHHHHHHHHHHHHhhhhhH
Confidence 567999999999999999999999 8887 77776533 457899999999999999999987
No 12
>PRK11546 zraP zinc resistance protein; Provisional
Probab=65.45 E-value=14 Score=28.91 Aligned_cols=51 Identities=24% Similarity=0.257 Sum_probs=38.9
Q ss_pred CCHHHHHHHHHHHHHHHhhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHHhh
Q 032302 67 KSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERAIE 126 (143)
Q Consensus 67 KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~~a 126 (143)
.+.++|++.++.-.-|+|-++ ...-|++.+|+++.+.|..+.+=|.|....
T Consensus 61 ~~t~~LRqqL~aKr~ELnALl---------~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~ 111 (143)
T PRK11546 61 AQTSALRQQLVSKRYEYNALL---------TANPPDSSKINAVAKEMENLRQSLDELRVK 111 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---------cCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677777777777776665 245577889999999999999999887553
No 13
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=64.44 E-value=6.1 Score=23.96 Aligned_cols=30 Identities=30% Similarity=0.574 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHhhCCChhhHHHHHHHhh
Q 032302 112 SMCRIKQVLTERAIEEPDPRRSAEMKRMIN 141 (143)
Q Consensus 112 tIARIkTVL~ER~~a~~~~~~~~~~~~~in 141 (143)
+++.|+.+|.|..+.+...-+.+++-+++|
T Consensus 5 tV~~Lk~iL~~~~I~~ps~AkKaeLv~L~~ 34 (35)
T PF12949_consen 5 TVAQLKRILDEHGIEFPSNAKKAELVALFN 34 (35)
T ss_dssp -SHHHHHHHHHHT---SSS--SHHHHHH--
T ss_pred cHHHHHHHHHHcCCCCCCCCCHHHHHHHHc
Confidence 578999999999999999888888877765
No 14
>PRK07248 hypothetical protein; Provisional
Probab=55.96 E-value=62 Score=22.27 Aligned_cols=55 Identities=15% Similarity=0.178 Sum_probs=39.6
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhC-CCCCCcchHHHHHHHH
Q 032302 59 WKASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNL-KFPNPERIPKVRKSMC 114 (143)
Q Consensus 59 Wk~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~-ql~np~rirkVRrtIA 114 (143)
|+..++|. ..+++...+..|+.+|.-+..+-...+...| ++-+|.|-++|-..+.
T Consensus 1 m~L~~lR~-~ID~iD~~i~~Ll~~R~~l~~~I~~~K~~~~~~v~d~~RE~~vl~~~~ 56 (87)
T PRK07248 1 MDLEEIRQ-EIDQIDDQLVALLEKRMALVEQVVAYKKATGKPVLDTKREQVILDKVS 56 (87)
T ss_pred CCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHHHHHH
Confidence 45677776 6888888899999999666666666666554 6778888766655443
No 15
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=52.38 E-value=48 Score=27.59 Aligned_cols=45 Identities=11% Similarity=0.236 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhhhchHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHHHHHH
Q 032302 71 DLNKLWYVLLKEKNMLMTQQQMLHAQNLKFPNPERIPKVRKSMCRIKQVLTERA 124 (143)
Q Consensus 71 DLhkLw~~LlKErNlr~Te~~~~q~~~~ql~np~rirkVRrtIARIkTVL~ER~ 124 (143)
+-.+.+.+|.+|.|.|.-|+.. .-+.|+.|.-||--+..|+.+-.
T Consensus 29 ~ee~~L~e~~kE~~~L~~Er~~---------h~eeLrqI~~DIn~lE~iIkqa~ 73 (230)
T PF10146_consen 29 NEEKCLEEYRKEMEELLQERMA---------HVEELRQINQDINTLENIIKQAE 73 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345666666677666644431 24678899999999999986543
No 16
>PRK07075 isochorismate-pyruvate lyase; Reviewed
Probab=46.48 E-value=62 Score=23.34 Aligned_cols=52 Identities=15% Similarity=0.273 Sum_probs=38.3
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhCCCCCCcchHHHHHH
Q 032302 60 KASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNLKFPNPERIPKVRKS 112 (143)
Q Consensus 60 k~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~ql~np~rirkVRrt 112 (143)
+..++|. ..|+|-..+-.|+.||--+..+-..++..+.++.+|.|...|-..
T Consensus 9 ~L~~lR~-~ID~ID~~iv~LL~eR~~~~~~ia~~K~~~~~i~d~~Re~~vl~~ 60 (101)
T PRK07075 9 GLDDIRE-AIDRLDRDIIAALGRRMQYVKAASRFKPSEASIPAPERVAAMLPE 60 (101)
T ss_pred hHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCChHHHHHHHHH
Confidence 4567776 788899999999999965565666666666777788887666443
No 17
>PF11830 DUF3350: Domain of unknown function (DUF3350); InterPro: IPR021785 This domain is functionally uncharacterised. This domain is found in eukaryotes. This presumed domain is typically between 50 to 64 amino acids in length.
Probab=45.98 E-value=41 Score=22.63 Aligned_cols=30 Identities=17% Similarity=0.473 Sum_probs=23.3
Q ss_pred HHhcCCHHHHHHHHHHHHHHHhhhchHHHH
Q 032302 63 ELRLKSWDDLNKLWYVLLKEKNMLMTQQQM 92 (143)
Q Consensus 63 ELR~KS~eDLhkLw~~LlKErNlr~Te~~~ 92 (143)
.=+..|-+||..||....+++=++.++..+
T Consensus 22 ~~~krt~eelR~LWrkAI~QqIlL~RMEKE 51 (56)
T PF11830_consen 22 EKKKRTREELRELWRKAIHQQILLLRMEKE 51 (56)
T ss_pred cccccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446788899999999999998666655543
No 18
>smart00830 CM_2 Chorismate mutase type II. Chorismate mutase, catalyses the conversion of chorismate to prephenate in the pathway of tyrosine and phenylalanine biosynthesis. This enzyme is negatively regulated by tyrosine, tryptophan and phenylalanine PUBMED:9642265, PUBMED:9497350.
Probab=44.18 E-value=90 Score=20.45 Aligned_cols=47 Identities=26% Similarity=0.350 Sum_probs=35.9
Q ss_pred CHHHHHHHHHHHHHHHhhhchHHHHHHHh-hCCCCCCcchHHHHHHHH
Q 032302 68 SWDDLNKLWYVLLKEKNMLMTQQQMLHAQ-NLKFPNPERIPKVRKSMC 114 (143)
Q Consensus 68 S~eDLhkLw~~LlKErNlr~Te~~~~q~~-~~ql~np~rirkVRrtIA 114 (143)
..+++...+..|+.||.-+.++-..++.. +.+..+|.|...|...+.
T Consensus 3 ~Id~iD~~ii~Ll~~R~~l~~~i~~~K~~~~~~i~d~~Re~~vl~~~~ 50 (79)
T smart00830 3 EIDAIDDQILALLAERAALAREVARLKAKNGLPIYDPEREAEVLERLR 50 (79)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCChHHHHHHHHHHH
Confidence 35777888888999998778777777765 467888988887766653
No 19
>TIGR01799 CM_T chorismate mutase domain of T-protein. This model represents the chorismate mutase domain of the gamma proteobacterial "T-protein" which consists of an N-terminal chorismate mutase domain and a C-terminal prephenate dehydrogenase domain.
Probab=37.85 E-value=1.3e+02 Score=20.52 Aligned_cols=51 Identities=20% Similarity=0.163 Sum_probs=37.9
Q ss_pred HHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhC-CCCCCcchHHHHHHHH
Q 032302 63 ELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNL-KFPNPERIPKVRKSMC 114 (143)
Q Consensus 63 ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~-ql~np~rirkVRrtIA 114 (143)
++|. ..+++...+..|+.+|.-+..+-...+...| ++-+|.|-..|-..+.
T Consensus 3 ~lR~-~ID~ID~~il~Ll~~R~~~~~~ia~~K~~~~~~v~d~~RE~~vl~~~~ 54 (83)
T TIGR01799 3 DLRG-EIDGVDQELLHLLAKRLELVAQVGKVKHAAGLPIYAPEREAAMLAARR 54 (83)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence 4554 6788889999999999766767777776655 7888988777765543
No 20
>TIGR01791 CM_archaeal chorismate mutase, archaeal type. This model represents a clade of archaeal chorismate mutases. Chorismate mutase catalyzes the conversion of chorismate into prephenate which is subsequently converted into either phenylalanine or tyrosine. In Sulfolobus this gene is found as a fusion with prephenate dehydrogenase (although the non-TIGR annotation contains a typographical error indicating it as a dehydratase) which is the next enzyme in the tyrosine biosynthesis pathway. The Archaeoglobus gene contains an N-terminal prephenate dehydrogenase domain and a C-terminal prephenate dehydratase domain followed by a regulatory amino acid-binding ACT domain. The Thermoplasma volcanium gene is adjacent to prephenate dehydratase.
Probab=37.70 E-value=1.3e+02 Score=20.37 Aligned_cols=52 Identities=19% Similarity=0.296 Sum_probs=37.3
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhh-CCCCCCcchHHHHHHHH
Q 032302 62 SELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQN-LKFPNPERIPKVRKSMC 114 (143)
Q Consensus 62 ~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~-~ql~np~rirkVRrtIA 114 (143)
.+||. ..+++...+..|+.+|.-+..+-...+... .++.+|.|-+.|...+.
T Consensus 2 ~~lR~-~Id~iD~~i~~Ll~~R~~l~~~i~~~K~~~g~~i~d~~RE~~v~~~~~ 54 (83)
T TIGR01791 2 EELRQ-EIEEIDKSILDLIEKRIKIARKIGEIKHNNGLPITDEEREERVIERLR 54 (83)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHHHHHH
Confidence 34554 578889999999999955555555556554 57889999887766554
No 21
>COG3678 CpxP P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]
Probab=34.92 E-value=2.3e+02 Score=22.36 Aligned_cols=95 Identities=18% Similarity=0.198 Sum_probs=56.0
Q ss_pred HHHhhccCCCCCcchhhcCCCCCCCCCCCC-CCCCCChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHH-HhhCCCC
Q 032302 25 AAAASMATSRHNPLEEFFENDRGPDDQKPV-YGRSWKASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLH-AQNLKFP 101 (143)
Q Consensus 25 ~a~~~~~~~~~~gL~eFF~~~~~~~~~~~~-~GRaWk~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q-~~~~ql~ 101 (143)
+.++++..++.-|+.+| .. ++...+. .|=.|+--+|=....+.++++-+...+++ ....+.+.+.. .......
T Consensus 22 a~~Aa~~~~~~~~~~~~-~~---~g~~~~~~~~~~~~~l~lT~~Qrqqi~~i~~~~~~a~~~~~~~~r~~l~~li~a~~~ 97 (160)
T COG3678 22 AHAAATAAAPPLPMADA-HH---GGQFGPRHQGGMFKGLDLTRAQRQQIRDLMQAQRRAQREQLRSKRRALHELIAADQF 97 (160)
T ss_pred HHHHHhccCCCCCcccc-cc---CCCCCccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 33445555666566666 31 1222222 44567777777788888888888888777 55444444332 2233344
Q ss_pred CCcchHHHHHHHHHHHHHHHHH
Q 032302 102 NPERIPKVRKSMCRIKQVLTER 123 (143)
Q Consensus 102 np~rirkVRrtIARIkTVL~ER 123 (143)
+...++.+...|.....-+.+-
T Consensus 98 D~aka~a~~~~m~~~~~~~~~~ 119 (160)
T COG3678 98 DEAKARAQAEKMENQRQALREL 119 (160)
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
Confidence 5556777777777776666553
No 22
>PF06780 Erp_C: Erp protein C-terminus; InterPro: IPR009618 This entry represents the C terminus of bacterial Erp proteins that seem to be specific to Borrelia burgdorferi (a causative agent of Lyme disease). Borrelia Erp proteins are particularly heterogeneous, which might enable them to interact with a wide variety of host components [].
Probab=34.38 E-value=1.8e+02 Score=23.10 Aligned_cols=104 Identities=15% Similarity=0.229 Sum_probs=64.3
Q ss_pred ccCCCCCcchhhcCCCCCCCCCCCCCCCCCChHHHhcCCHHHHHHHHHHHHHHH-hhhchHHHHHHH----hhCCCCCCc
Q 032302 30 MATSRHNPLEEFFENDRGPDDQKPVYGRSWKASELRLKSWDDLNKLWYVLLKEK-NMLMTQQQMLHA----QNLKFPNPE 104 (143)
Q Consensus 30 ~~~~~~~gL~eFF~~~~~~~~~~~~~GRaWk~~ELR~KS~eDLhkLw~~LlKEr-Nlr~Te~~~~q~----~~~ql~np~ 104 (143)
+.-...+|+|+-|-++.+ ..--..| .+|-.=-..+|.+|+.+|.+-| +||-.-..--|. ...++.+.-
T Consensus 35 V~DKVTgpIYDd~Td~~s-----nSIy~~W--~~le~ee~~~L~~Ll~eL~~~R~~LR~Ki~egn~~y~~~~~~~lK~~V 107 (146)
T PF06780_consen 35 VEDKVTGPIYDDFTDGNS-----NSIYSTW--EDLEEEEESGLGKLLKELSDTRSSLRTKINEGNQAYTKDNEPKLKENV 107 (146)
T ss_pred HHhhccccccccccCCCc-----chHHHHH--hccccchhhhHHHHHHHHHHHHHHHHHHHhccchhcccCCCcccccce
Confidence 344567899998876653 1122457 4554334567888888888888 776522111010 112344555
Q ss_pred chHHHHHHHHHHHHHHHHHHhhCCChhhHHHHHHHh
Q 032302 105 RIPKVRKSMCRIKQVLTERAIEEPDPRRSAEMKRMI 140 (143)
Q Consensus 105 rirkVRrtIARIkTVL~ER~~a~~~~~~~~~~~~~i 140 (143)
.+..++-++-.+|--|.+=..--++...-++.+..|
T Consensus 108 ~vseIk~DLekLKs~LekvK~YL~d~~nfEeIk~yI 143 (146)
T PF06780_consen 108 KVSEIKEDLEKLKSKLEKVKEYLKDSSNFEEIKEYI 143 (146)
T ss_pred ehHHHHhHHHHHHHHHHHHHHHHhccccHHHHHHHh
Confidence 778889999998888877555556666666666655
No 23
>PRK06285 chorismate mutase; Provisional
Probab=33.81 E-value=1.6e+02 Score=20.74 Aligned_cols=53 Identities=19% Similarity=0.314 Sum_probs=38.2
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhh-CCCCCCcchHHHHHHH
Q 032302 60 KASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQN-LKFPNPERIPKVRKSM 113 (143)
Q Consensus 60 k~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~-~ql~np~rirkVRrtI 113 (143)
+..|||. ..+++-..+..|+.||.-+..+--.++... .++.+|.|-..|-..+
T Consensus 8 ~L~elR~-~ID~ID~~iv~Ll~~R~~l~~~I~~~K~~~~~~v~dp~RE~~vl~~~ 61 (96)
T PRK06285 8 RLNEIRK-RIDEIDEQIIDLIAERTSLAKEIAELKKSLGMPIFDPEREDYIHEKI 61 (96)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHHHHH
Confidence 3567776 788888899999999966565555556554 4788888877765543
No 24
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=29.54 E-value=75 Score=27.82 Aligned_cols=32 Identities=25% Similarity=0.235 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHhhCCChhhHHHHHHHh
Q 032302 108 KVRKSMCRIKQVLTERAIEEPDPRRSAEMKRMI 140 (143)
Q Consensus 108 kVRrtIARIkTVL~ER~~a~~~~~~~~~~~~~i 140 (143)
+=|+.|+|... |+||+..+==--+|.++|+|+
T Consensus 263 eKR~ElSr~lN-LTeRQVKIWFQNRRMK~KK~~ 294 (308)
T KOG0487|consen 263 EKRLELSRTLN-LTERQVKIWFQNRRMKEKKVN 294 (308)
T ss_pred HHHHHHHHhcc-cchhheeeeehhhhhHHhhhh
Confidence 34667777765 888887765455677777776
No 25
>PRK06443 chorismate mutase; Validated
Probab=27.94 E-value=2.6e+02 Score=22.70 Aligned_cols=57 Identities=14% Similarity=0.102 Sum_probs=42.3
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhC-CCCCCcchHHHHHHHHHH
Q 032302 59 WKASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNL-KFPNPERIPKVRKSMCRI 116 (143)
Q Consensus 59 Wk~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~-ql~np~rirkVRrtIARI 116 (143)
++.++||. ..+++-..+..|+.+|--+..+--..+...+ +.-+|.|-+.|...++..
T Consensus 5 ~dLeeLR~-eID~ID~eIL~LL~kRm~la~eIg~~K~~~g~pI~Dp~RE~eVLerl~~~ 62 (177)
T PRK06443 5 IDMEDLRS-EILENTMDIIELIEKRRELARMIGIIKMRNGLSIRDSERENYVKNNLKSD 62 (177)
T ss_pred ccHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHh
Confidence 45678887 6888888888999999555656666666554 778899888887777663
No 26
>PRK09239 chorismate mutase; Provisional
Probab=26.96 E-value=2.5e+02 Score=20.37 Aligned_cols=53 Identities=19% Similarity=0.202 Sum_probs=37.7
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhC-CCCCCcchHHHHHHH
Q 032302 60 KASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNL-KFPNPERIPKVRKSM 113 (143)
Q Consensus 60 k~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~-ql~np~rirkVRrtI 113 (143)
+..+||. ..++|-..+..|+.+|--+..+-...+...+ ++-+|.|..+|-..+
T Consensus 11 ~L~~lR~-~ID~ID~eIv~LLa~R~~l~~~Ia~~K~~~~~~i~dp~RE~~vl~~~ 64 (104)
T PRK09239 11 ELAALRQ-SIDNIDAALIHMLAERFKCTQAVGVLKAEHGLPPADPAREAYQIERL 64 (104)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
Confidence 4677877 7888999999999999555555555565544 677888877665544
No 27
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=23.54 E-value=2.3e+02 Score=24.54 Aligned_cols=52 Identities=23% Similarity=0.221 Sum_probs=39.1
Q ss_pred hHHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHhhC-CCCCCcchHHHHHHH
Q 032302 61 ASELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQNL-KFPNPERIPKVRKSM 113 (143)
Q Consensus 61 ~~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~~~-ql~np~rirkVRrtI 113 (143)
..|||. ..|++...+..|+.||.-+..+--+.+...+ .+-+|.|-++|-..+
T Consensus 5 L~~lR~-~ID~iD~~iv~Ll~~R~~~~~~ia~~K~~~~~~v~d~~Re~~vl~~~ 57 (374)
T PRK11199 5 LTALRD-QIDEVDKQLLELLAKRLELVAQVGEVKSRHGLPIYVPEREAAMLASR 57 (374)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHH
Confidence 466776 7889999999999999777767767776655 778888877665443
No 28
>PF06528 Phage_P2_GpE: Phage P2 GpE; InterPro: IPR009493 This entry is represented by Burkholderia phage phiE202, Gp27. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins which are closely related to the GpE tail protein from Phage P2.
Probab=22.32 E-value=70 Score=19.89 Aligned_cols=17 Identities=35% Similarity=0.601 Sum_probs=15.3
Q ss_pred CCChHHHhcCCHHHHHH
Q 032302 58 SWKASELRLKSWDDLNK 74 (143)
Q Consensus 58 aWk~~ELR~KS~eDLhk 74 (143)
.|..+||-.+|.+||-.
T Consensus 9 hW~Pse~~~m~l~El~~ 25 (39)
T PF06528_consen 9 HWPPSEMDAMSLDELMD 25 (39)
T ss_pred CCCHHHHhcCCHHHHHH
Confidence 49999999999999965
No 29
>TIGR01803 CM-like chorismate mutase related enzymes. This subfamily includes two enzymes which are variants on the mechanism of chorismate mutase and are likely to have evolved from an ancestral chorismate mutase enzyme. 4-amino-4-deoxy-chorismate mutase produces amino-deoxy-prephenate which is subsequently converted to para-dimethylamino-phenylalanine, a component of the natural product pristinamycin. Isochorismate-pyruvate lyase presumably catalyzes the same type of 2+2+2 cyclo-rearrangement as chorismate mutase, but acting on isochorismate, this results in two broken bonds instead of one broken and one made. The product of this reaction is salicylate (2-hydroxy-benzoate) which is also incorporated into various natural products.
Probab=21.27 E-value=2.8e+02 Score=18.85 Aligned_cols=51 Identities=16% Similarity=0.269 Sum_probs=36.4
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHhhhchHHHHHHHh-hCCCCCCcchHHHHHHH
Q 032302 62 SELRLKSWDDLNKLWYVLLKEKNMLMTQQQMLHAQ-NLKFPNPERIPKVRKSM 113 (143)
Q Consensus 62 ~ELR~KS~eDLhkLw~~LlKErNlr~Te~~~~q~~-~~ql~np~rirkVRrtI 113 (143)
.+||. ..++|-..+-.|+.+|--...+--..+.. ..++-+|.|...|-..+
T Consensus 2 ~~lR~-~ID~ID~~lv~Ll~~R~~~~~~ia~~K~~~~~~v~d~~Re~~vl~~~ 53 (82)
T TIGR01803 2 ADIRE-AIDRIDLALVQALGRRMDYVKRASEFKRSHEAAIPAPERVAAVLPNA 53 (82)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH
Confidence 34554 57888888899999996656666666655 45788888877775544
No 30
>PF11498 Activator_LAG-3: Transcriptional activator LAG-3; InterPro: IPR021587 The C.elegans Notch pathway, involved in the control of growth, differentiation and patterning in animal development, relies on either of the receptors GLP-1 or LIN-12 []. Both these receptors promote signalling by the recruitment of LAG-3 to target promoters, where it then acts as a transcriptional activator. LAG-3 works as a ternary complex together with the DNA binding protein, LAG-1 []. ; PDB: 2FO1_D.
Probab=20.96 E-value=1.7e+02 Score=26.74 Aligned_cols=54 Identities=24% Similarity=0.391 Sum_probs=19.1
Q ss_pred hhccCCCCCcchhhcCCCCCCCCCCCCCCCCCChHHHhc-CCHHHHHHHHHHHHHHH-hhhc
Q 032302 28 ASMATSRHNPLEEFFENDRGPDDQKPVYGRSWKASELRL-KSWDDLNKLWYVLLKEK-NMLM 87 (143)
Q Consensus 28 ~~~~~~~~~gL~eFF~~~~~~~~~~~~~GRaWk~~ELR~-KS~eDLhkLw~~LlKEr-Nlr~ 87 (143)
++++..|..|+-+|..+.-.-+++++.+ +|+|. .+-||||..--.|.+|+ .+-+
T Consensus 8 ~s~sP~pEeP~~~yVN~nLPnPddEP~v------sdm~~~~~geElhrq~SqlA~e~y~~a~ 63 (468)
T PF11498_consen 8 VSVSPPPEEPSAEYVNNNLPNPDDEPYV------SDMRDYQAGEELHRQQSQLAKEKYAIAL 63 (468)
T ss_dssp --------------------------SS--------HHHHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred cCCCCCCCCccchhhccCCCCCCCCcch------hhhhhhhhhHHHHHHHHHHHHHHHHHhh
Confidence 5566778899999998654334445544 36765 46789999988898888 5544
Done!