Query 028757
Match_columns 204
No_of_seqs 121 out of 266
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 16:30:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028757.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028757hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00026 60S ribosomal protein 100.0 3E-119 7E-124 766.6 18.6 204 1-204 1-204 (204)
2 KOG1678 60s ribosomal protein 100.0 1E-117 2E-122 746.4 13.3 203 1-204 1-204 (204)
3 PF00827 Ribosomal_L15e: Ribos 100.0 6E-114 1E-118 729.4 16.7 192 2-193 1-192 (192)
4 PRK04243 50S ribosomal protein 100.0 1E-111 3E-116 716.3 16.6 192 1-194 3-194 (196)
5 COG1632 RPL15A Ribosomal prote 100.0 4.6E-91 1E-95 589.6 15.2 193 1-195 2-194 (195)
6 COG1632 RPL15A Ribosomal prote 65.3 2.9 6.3E-05 36.7 0.9 64 140-204 130-194 (195)
7 PF01161 PBP: Phosphatidyletha 54.2 24 0.00051 27.6 4.2 36 120-155 26-64 (146)
8 COG2932 Predicted transcriptio 43.2 14 0.0003 31.0 1.4 27 119-145 126-155 (214)
9 cd00457 PEBP PhosphatidylEthan 41.2 31 0.00067 28.1 3.2 34 120-155 31-64 (159)
10 cd00866 PEBP_euk PhosphatidylE 41.0 40 0.00086 26.6 3.7 43 108-155 25-70 (154)
11 COG0810 TonB Periplasmic prote 40.1 29 0.00064 30.0 3.0 50 44-108 169-218 (244)
12 PHA02110 hypothetical protein 39.1 29 0.00064 27.3 2.6 32 102-138 16-47 (98)
13 COG0144 Sun tRNA and rRNA cyto 36.7 21 0.00047 32.8 1.7 25 129-153 229-256 (355)
14 PRK08351 DNA-directed RNA poly 35.7 20 0.00043 26.2 1.1 25 109-140 17-42 (61)
15 COG0463 WcaA Glycosyltransfera 35.0 23 0.0005 24.7 1.3 13 127-139 30-42 (291)
16 PF05063 MT-A70: MT-A70 ; Int 32.7 18 0.00039 29.6 0.5 11 130-140 1-11 (176)
17 PF11396 DUF2874: Protein of u 32.0 68 0.0015 21.4 3.2 28 107-135 17-44 (61)
18 cd07998 WGR_DNA_ligase WGR dom 30.9 44 0.00096 25.3 2.3 19 118-136 4-22 (77)
19 KOG3346 Phosphatidylethanolami 30.3 44 0.00095 29.0 2.5 28 125-153 61-92 (185)
20 cd00272 Chemokine_CC Chemokine 29.5 33 0.00071 23.5 1.3 40 114-154 13-52 (57)
21 PRK14688 hypothetical protein; 28.3 41 0.00089 26.9 1.9 21 130-154 97-117 (121)
22 PRK11933 yebU rRNA (cytosine-C 28.0 30 0.00064 33.5 1.2 37 110-151 163-208 (470)
23 COG2876 AroA 3-deoxy-D-arabino 27.9 27 0.00059 32.4 0.9 15 133-147 217-231 (286)
24 KOG3351 Predicted nucleotidylt 26.8 37 0.0008 31.5 1.5 33 132-165 218-259 (293)
25 PLN00169 CETS family protein; 26.0 80 0.0017 26.7 3.3 29 127-155 62-93 (175)
26 PF00836 Stathmin: Stathmin fa 25.6 37 0.0008 28.3 1.2 12 129-140 16-27 (140)
27 PF04915 DltD_N: DltD N-termin 24.3 24 0.00053 25.8 -0.1 13 131-143 38-50 (62)
28 cd05468 pVHL von Hippel-Landau 24.3 67 0.0014 26.1 2.4 33 114-146 19-59 (141)
29 cd06433 GT_2_WfgS_like WfgS an 24.1 43 0.00093 25.3 1.2 13 127-139 25-37 (202)
30 cd00865 PEBP_bact_arch Phospha 23.7 83 0.0018 25.2 2.9 27 127-155 39-65 (150)
31 PF07450 HycH: Formate hydroge 21.7 41 0.00089 28.0 0.7 26 103-142 63-88 (131)
32 cd00169 Chemokine Chemokine: s 20.9 92 0.002 21.3 2.3 41 113-153 12-53 (59)
33 PF10515 APP_amyloid: beta-amy 20.6 22 0.00048 25.4 -0.9 37 84-131 16-52 (52)
34 PRK15084 formate hydrogenlyase 20.3 46 0.00099 27.8 0.8 26 103-142 65-90 (133)
35 TIGR00446 nop2p NOL1/NOP2/sun 20.3 47 0.001 28.9 0.8 56 92-152 102-166 (264)
No 1
>PTZ00026 60S ribosomal protein L15; Provisional
Probab=100.00 E-value=3.4e-119 Score=766.58 Aligned_cols=204 Identities=76% Similarity=1.287 Sum_probs=203.4
Q ss_pred CchhHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEeCCCCCchHHHhhccccccceEEEEEEeeecCCCCCccCCcc
Q 028757 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVPKGIV 80 (204)
Q Consensus 1 mg~y~yi~e~wkk~~sd~~~~l~r~R~~e~Rq~~~i~Rv~rPTR~dkAR~LGYKAKQG~Vi~RvRVrrGgrkr~~pkg~~ 80 (204)
||||+||+|+|++||||+|+||+|+|||||||+|+|||+++||||||||+||||||||||||||||++||+++|+|+|+|
T Consensus 1 Mg~Y~yi~e~wkkkqsd~~r~l~r~R~we~Rq~~~i~R~~rPTR~DkAR~LGYKAKQG~vv~RvrVRrGgrkr~~~kg~~ 80 (204)
T PTZ00026 1 MGAYKYLNELWKKKQSDVMRFLLRVRTWEYRQLPVIHRVSRPTRPDKARRLGYKAKQGFVIYRVRVRRGGRKRPVRKGIV 80 (204)
T ss_pred CcHHHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEcCCCCChhHHHHcCCcccceEEEEEEEEeeCCCCCCccCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcccccccccccccchhHHHHHHhhhccCCceeeeeeecccCCCceeEEEEEeeccccccccCCCCceeccCCcccch
Q 028757 81 YGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRE 160 (204)
Q Consensus 81 ~~KPk~~Gv~~~k~~kslq~iAEeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~~hk~Re 160 (204)
||||++||||+||+++|||+|||||||++||||||||||||+|||+|||||||||||+||+|++||+|||||+|+|||||
T Consensus 81 ~gkpk~~Gv~~lk~~kslq~iAEeRv~rk~~nLrVLNSYWV~qDg~yK~yEVILvDp~H~aIr~Dp~~nWI~~~~hk~Re 160 (204)
T PTZ00026 81 YGKPKTQGVNKLKSTRNLRAVAEERVGKRCGNLRVLNSYWVGQDSTYKFYEVILVDPFHNAIRNDPRINWICNPVHKHRE 160 (204)
T ss_pred CCCccccCccccCcchhHHHHHHHHhhccCCCcEEecceeEcCCCCcccEEEEEecCCCccceeCcccceecccccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCcccccccccCcCCCCCcccccCCCchhhhcccceeEeeecC
Q 028757 161 LRGLTSAGKKYRGLRGKGHLHHKARPSRRATWKRNQTLSLRRYR 204 (204)
Q Consensus 161 ~RGLTsagkk~RGLr~kG~~~~k~~~S~ra~w~r~n~~~l~r~r 204 (204)
||||||||+|+|||++|||+++|++||++|+|+++|||+|+|||
T Consensus 161 ~RGLTsAGkK~RGL~~kG~~~~k~r~s~ra~~~r~n~~~l~r~r 204 (204)
T PTZ00026 161 LRGLTSAGRKSRGLRVKGHRASKLRPSRRANWKRRNRIVLRRYR 204 (204)
T ss_pred hccccccccccCCcCCCCCCcccCCcchhhhhhhccceeeEecC
Confidence 99999999999999999999999999999999999999999997
No 2
>KOG1678 consensus 60s ribosomal protein L15 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-117 Score=746.42 Aligned_cols=203 Identities=82% Similarity=1.341 Sum_probs=202.1
Q ss_pred CchhHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEeCCCCCchHHHhhccccccceEEEEEEeeecCCCCCccCCcc
Q 028757 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVPKGIV 80 (204)
Q Consensus 1 mg~y~yi~e~wkk~~sd~~~~l~r~R~~e~Rq~~~i~Rv~rPTR~dkAR~LGYKAKQG~Vi~RvRVrrGgrkr~~pkg~~ 80 (204)
||||+||+|+|++||||+|+||+++|||||||+++|||+++||||||||+||||||||||||||||++||+|+|+|||.|
T Consensus 1 MgAykY~~El~rkKQSDvmrfLlRvr~weYrQ~~~~hr~~rPtrpdkARrLGYkAKQG~viYrirVrrG~rKrpvpkG~t 80 (204)
T KOG1678|consen 1 MGAYKYLQELWRKKQSDVMRFLLRVRCWEYRQLSAIHRAPRPTRPDKARRLGYKAKQGYVIYRIRVRRGGRKRPVPKGAT 80 (204)
T ss_pred CcHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhhhhhcCCCCCCchHHHhccccccceeEEEEEEEecCCccCCCCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcccccccccccccchhHHHHHHhhhccCCceeeeeeecccCCCceeEEEEEeeccccccccCCCCceeccCCcccch
Q 028757 81 YGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRE 160 (204)
Q Consensus 81 ~~KPk~~Gv~~~k~~kslq~iAEeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~~hk~Re 160 (204)
||||+++|||||||++|+|++||||||++|+||+|||||||+||++|||||||||||+|.||++||+|||||+|||||||
T Consensus 81 yGKp~~~GvnqlK~~rs~qs~AEer~Gr~~g~LrVlNSYWv~qDstYk~fEVIlvDp~h~aIRrdp~~nwI~kpvhKhRE 160 (204)
T KOG1678|consen 81 YGKPVNQGVNQLKFQRSLQSVAEERAGRRCGNLRVLNSYWVNQDSTYKYFEVILVDPFHKAIRRDPRINWICKPVHKHRE 160 (204)
T ss_pred cCCccccchhhhhhhHHHHHHHHHHhhccccceeeeehhhccCccceeeEEEEEECcHHHHHhcCCCcccccchhhhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCcccccccccCcCCCCCcccccC-CCchhhhcccceeEeeecC
Q 028757 161 LRGLTSAGKKYRGLRGKGHLHHKAR-PSRRATWKRNQTLSLRRYR 204 (204)
Q Consensus 161 ~RGLTsagkk~RGLr~kG~~~~k~~-~S~ra~w~r~n~~~l~r~r 204 (204)
+|||||||+||||| ||||+|++|+ +|++|+|+|+|||+|+|||
T Consensus 161 ~rGLTsagkksrGl-gKg~kf~~t~~gs~ra~Wkr~ntl~l~ryr 204 (204)
T KOG1678|consen 161 LRGLTSAGKKSRGL-GKGHKFNKTIGGSRRATWKRRNTLSLHRYR 204 (204)
T ss_pred hcccccccccccCc-ccccccccCCCchhHHHHhhcccceeeecC
Confidence 99999999999999 9999999999 8899999999999999997
No 3
>PF00827 Ribosomal_L15e: Ribosomal L15; InterPro: IPR000439 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 [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities []. One of these families consists of: Mammalian L15. Insect L15. Plant L15. Yeast YL10 (L13) (Rp15r). Archaebacterial L15e. These proteins have about 200 amino acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_P 4A1E_L 4A17_L 4A1A_L 4A1C_L 2ZKR_m 3IZS_P 1S1I_L 3O58_O 3O5H_O ....
Probab=100.00 E-value=6.4e-114 Score=729.37 Aligned_cols=192 Identities=77% Similarity=1.275 Sum_probs=179.4
Q ss_pred chhHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEeCCCCCchHHHhhccccccceEEEEEEeeecCCCCCccCCccc
Q 028757 2 GAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVPKGIVY 81 (204)
Q Consensus 2 g~y~yi~e~wkk~~sd~~~~l~r~R~~e~Rq~~~i~Rv~rPTR~dkAR~LGYKAKQG~Vi~RvRVrrGgrkr~~pkg~~~ 81 (204)
|||+||+|+|++||||+|+||+++|||||||+|+|+||++||||||||+||||||||||||||||++||+++|+|+|++|
T Consensus 1 g~Ykyi~e~wk~k~~d~~~~l~r~R~~e~R~~~av~Ri~rPtR~dkAR~LGYKAKQG~vv~RvrVrrGgrkr~~~kg~~~ 80 (192)
T PF00827_consen 1 GAYKYIRELWKKKQSDVMRFLLRIRLWEWRQLPAVHRIERPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPRPKGGRY 80 (192)
T ss_dssp -SHHHHHHHHHTTTSHHHHHHHHHHHHHHHHS-SEEEESS-SSHHHHHHTT-SSSTTEEEEEEEEESSS---SSSSSSST
T ss_pred CHHHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEECCCCCCccHHHHcCCccCCeEEEEEEEEecCCCCCcccCCccc
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccccccccccchhHHHHHHhhhccCCceeeeeeecccCCCceeEEEEEeeccccccccCCCCceeccCCcccchh
Q 028757 82 GKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHREL 161 (204)
Q Consensus 82 ~KPk~~Gv~~~k~~kslq~iAEeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~~hk~Re~ 161 (204)
|||++||||+||+++|||+|||||||++||||||||||||+|||+|||||||||||+||+|++||+|||||+|+||||||
T Consensus 81 gKPk~~Gv~~~k~~kslq~iAEeRagrk~~nLrVLnSYwV~eDg~yK~fEVIlVDp~h~~Ir~D~~~nWI~~~~hk~R~~ 160 (192)
T PF00827_consen 81 GKPKHQGVNQLKPAKSLQSIAEERAGRKYPNLRVLNSYWVGEDGTYKWFEVILVDPNHPAIRNDPDINWICNPVHKHREF 160 (192)
T ss_dssp SSCGGSSSTSS--SS-HHHHHHHHHHHHSTTSEEEEEEEEEEESSEEEEEEEEE-TTSHHHHTTTTTGGGGSGGGTTTTT
T ss_pred cccccceeeccCccccHHHHhhhhhccccCCceEEeeEEeCCCCcceeEEEEEecCCcHHHhcCCccceecccccCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcccccccccCcCCCCCcccccCCCchhhhc
Q 028757 162 RGLTSAGKKYRGLRGKGHLHHKARPSRRATWK 193 (204)
Q Consensus 162 RGLTsagkk~RGLr~kG~~~~k~~~S~ra~w~ 193 (204)
|||||||+|+|||++|||+++||+||++|+|+
T Consensus 161 RGLTsAgkk~RGL~~kG~~~~k~rpS~ra~wk 192 (192)
T PF00827_consen 161 RGLTSAGKKSRGLRGKGHGAEKTRPSRRANWK 192 (192)
T ss_dssp TTTSHHHHHHTTTT-SSTTCGGTSSTTTTTCC
T ss_pred ccccchhhhhcccccCccccccCCcccccccC
Confidence 99999999999999999999999999999996
No 4
>PRK04243 50S ribosomal protein L15e; Validated
Probab=100.00 E-value=1.5e-111 Score=716.30 Aligned_cols=192 Identities=54% Similarity=0.900 Sum_probs=190.1
Q ss_pred CchhHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEeCCCCCchHHHhhccccccceEEEEEEeeecCCCCCccCCcc
Q 028757 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVPKGIV 80 (204)
Q Consensus 1 mg~y~yi~e~wkk~~sd~~~~l~r~R~~e~Rq~~~i~Rv~rPTR~dkAR~LGYKAKQG~Vi~RvRVrrGgrkr~~pkg~~ 80 (204)
||||+||+|+|++||||+|+||+|+|||||||+|+||||++||||||||+|||||||||||||||||+||+++|+|+|+
T Consensus 3 m~~Y~yi~e~wkk~~~~~~~~L~r~R~~e~R~~~~i~Rv~rPTR~DrAR~LGYKAKQG~vv~RvrVRrGgrkr~~~kg~- 81 (196)
T PRK04243 3 MSMYSYIREAWKRPKESYVGELMWQRLQEWRREPAVVRIERPTRLDRARALGYKAKQGIVVVRVRVRRGGLRKPRPKGG- 81 (196)
T ss_pred ccHHHHHHHHHhccchHHHHHHHHHHHHHHhccCceEEcCCCCChhHHHHcCccccceEEEEEEEeccCCCCCCCcCCC-
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcccccccccccccchhHHHHHHhhhccCCceeeeeeecccCCCceeEEEEEeeccccccccCCCCceeccCCcccch
Q 028757 81 YGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRE 160 (204)
Q Consensus 81 ~~KPk~~Gv~~~k~~kslq~iAEeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~~hk~Re 160 (204)
|||++||||+|||++|||+|||||||++||||||||||||+|||+|||||||||||+||+|++||+|||||+|+|||||
T Consensus 82 -~kPk~~Gv~~lk~~kslq~iAEERa~rk~~nlrVLNSYwV~qDg~yK~fEVIlVDp~H~aIr~Dp~~nWI~~~~~k~R~ 160 (196)
T PRK04243 82 -RRPKRMGVNKITPAKSIQRIAEERAARKYPNLEVLNSYWVGEDGKYKWYEVILVDPHHPAIKNDPDLNWICDKSHRGRV 160 (196)
T ss_pred -CCccccCccccchhhhHHHHHHHHhhccCCCcEeeeeeEeccCCCcccEEEEEecCCCcchhcCcccceecccccchhh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCcccccccccCcCCCCCcccccCCCchhhhcc
Q 028757 161 LRGLTSAGKKYRGLRGKGHLHHKARPSRRATWKR 194 (204)
Q Consensus 161 ~RGLTsagkk~RGLr~kG~~~~k~~~S~ra~w~r 194 (204)
||||||||+|+|||++|||+++|++||.+|+-++
T Consensus 161 ~RGLTSAGkK~RGl~~kg~~~~k~rps~ra~~~~ 194 (196)
T PRK04243 161 FRGLTSAGKKGRGLRKKGKGTEKVRPSIRANERR 194 (196)
T ss_pred hhcccccccccccccccCCCceecCccccccccc
Confidence 9999999999999999999999999999998764
No 5
>COG1632 RPL15A Ribosomal protein L15E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.6e-91 Score=589.57 Aligned_cols=193 Identities=61% Similarity=0.969 Sum_probs=189.1
Q ss_pred CchhHHHHHHHhcccchHHHHHHHHHHHHHhcCCceEEeCCCCCchHHHhhccccccceEEEEEEeeecCCCCCccCCcc
Q 028757 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVPKGIV 80 (204)
Q Consensus 1 mg~y~yi~e~wkk~~sd~~~~l~r~R~~e~Rq~~~i~Rv~rPTR~dkAR~LGYKAKQG~Vi~RvRVrrGgrkr~~pkg~~ 80 (204)
||||+||.|+|++++++++.+|+++|+|+||++|+|+||++|||+|+||.||||||||||||||||++||+.+++|++|
T Consensus 2 ~~~y~yv~e~wkk~~~~~~~~l~~~r~~~wR~~~~i~R~erPTrldrAR~LGykaKqG~vvvrvrVrrG~~~~~r~~~g- 80 (195)
T COG1632 2 RSAYKYIREAWKKPKESVVRELLRQRLIEWRKEPSIVRIERPTRLDRARALGYKAKQGYVVVRVRVRRGGRNRKRPKKG- 80 (195)
T ss_pred ccHHHHHHHHHhCchHHHHhHHHhHHHHhhccCCceEEecCCCHHHHHHhcCCcccCceEEEEEeeecccccCcCccCC-
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cCCcccccccccccccchhHHHHHHhhhccCCceeeeeeecccCCCceeEEEEEeeccccccccCCCCceeccCCcccch
Q 028757 81 YGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRE 160 (204)
Q Consensus 81 ~~KPk~~Gv~~~k~~kslq~iAEeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~~hk~Re 160 (204)
++|++||||++++++|+|.|||||||++||||+|||||||+|||.|||||||||||+||||++||+|||||+++|+||+
T Consensus 81 -rrp~~mgvnki~~~ks~~~iAEerA~RK~pNL~vLnSYwVgeDg~yK~fEvIlvDp~H~aIk~Dp~l~wI~~~~~kgR~ 159 (195)
T COG1632 81 -RRPTRMGVNKIKRKKSLQFIAEERAGRKYPNLEVLNSYWVGEDGYYKYFEVILVDPRHPAIKNDPNLNWICRPVHKGRV 159 (195)
T ss_pred -CCcCcccccccChhhhHHHHHHHHhhccCCCcEeeeeEEeccccceeeEEEEEecCCChhhcCCCceeeecccccCCce
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCcccccccccCcCCCCCcccccCCCchhhhccc
Q 028757 161 LRGLTSAGKKYRGLRGKGHLHHKARPSRRATWKRN 195 (204)
Q Consensus 161 ~RGLTsagkk~RGLr~kG~~~~k~~~S~ra~w~r~ 195 (204)
||||||||+|+|||+.+|.++++.+||.+|+++.+
T Consensus 160 ~RgltsagkK~rgl~k~~k~~~~~R~~~~~~~~~~ 194 (195)
T COG1632 160 FRGLTSAGKKSRGLRKGGKGAEKKRPSTRALQRYR 194 (195)
T ss_pred eccccccchhhhhhhccCCcccccCcchhhhhhhc
Confidence 99999999999999888899999999999988754
No 6
>COG1632 RPL15A Ribosomal protein L15E [Translation, ribosomal structure and biogenesis]
Probab=65.32 E-value=2.9 Score=36.71 Aligned_cols=64 Identities=31% Similarity=0.382 Sum_probs=51.7
Q ss_pred cccccCCCCceeccCCcccchhcCcccccccccCcCCCCCcccccC-CCchhhhcccceeEeeecC
Q 028757 140 NAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHHKAR-PSRRATWKRNQTLSLRRYR 204 (204)
Q Consensus 140 ~aIr~Dp~~~WI~~~~hk~Re~RGLTsagkk~RGLr~kG~~~~k~~-~S~ra~w~r~n~~~l~r~r 204 (204)
.+|.=||+-.=|-+.-+=...|+ -+.-|+.+|||..-|.+.--.+ +..++.|.|.||+.+.+|+
T Consensus 130 EvIlvDp~H~aIk~Dp~l~wI~~-~~~kgR~~RgltsagkK~rgl~k~~k~~~~~R~~~~~~~~~~ 194 (195)
T COG1632 130 EVILVDPRHPAIKNDPNLNWICR-PVHKGRVFRGLTSAGKKSRGLRKGGKGAEKKRPSTRALQRYR 194 (195)
T ss_pred EEEEecCCChhhcCCCceeeecc-cccCCceeccccccchhhhhhhccCCcccccCcchhhhhhhc
Confidence 47888888887777777777777 5679999999987777666655 5679999999999998875
No 7
>PF01161 PBP: Phosphatidylethanolamine-binding protein; InterPro: IPR008914 The PEBP (PhosphatidylEthanolamine-Binding Protein) family is a highly conserved group of proteins that have been identified in numerous tissues in a wide variety of organisms, including bacteria, yeast, nematodes, plants, drosophila and mammals. The various functions described for members of this family include lipid binding, neuronal development [], serine protease inhibition [], the control of the morphological switch between shoot growth and flower structures [], and the regulation of several signalling pathways such as the MAP kinase pathway [], and the NF-kappaB pathway []. The control of the latter two pathways involves the PEBP protein RKIP, which interacts with MEK and Raf-1 to inhibit the MAP kinase pathway, and with TAK1, NIK, IKKalpha and IKKbeta to inhibit the NF-kappaB pathway. Other PEBP-like proteins that show strong structural homology to PEBP include Escherichia coli YBHB and YBCL, the Rattus norvegicus (Rat) neuropeptide HCNP, and Antirrhinum majus (Garden snapdragon) protein centroradialis (CEN). Structures have been determined for several members of the PEBP-like family, all of which show extensive fold conservation. The structure consists of a large central beta-sheet flanked by a smaller beta-sheet on one side, and an alpha helix on the other. Sequence alignments show two conserved central regions, CR1 and CR2, that form a consensus signature for the PEBP family. These two regions form part of the ligand-binding site, which can accommodate various anionic groups. The N- and C-terminal regions are the least conserved, and may be involved in interactions with different protein partners. The N-terminal residues 2-12 form the natural cleavage peptide HCNP involved in neuronal development. The C-terminal region is deleted in plant and bacterial PEBP homologues, and may help control accessibility to the active site. ; PDB: 1BD9_A 1BEH_A 2QYQ_A 2L7W_A 3AXY_A 2IQX_C 2IQY_A 1KN3_A 1FUX_A 1B7A_A ....
Probab=54.24 E-value=24 Score=27.55 Aligned_cols=36 Identities=25% Similarity=0.611 Sum_probs=25.5
Q ss_pred ecccCCCceeEEEEEeecccccccc---CCCCceeccCC
Q 028757 120 WINEDSTYKYFEVILVDAAHNAIRN---DPRINWICKPV 155 (204)
Q Consensus 120 wV~eDg~yK~fEVILVDp~H~aIr~---Dp~~~WI~~~~ 155 (204)
|...-..-+.|=|||+||+.|.-.+ .+-+.||.-..
T Consensus 26 ~~~~P~~~~~y~lim~D~D~P~~~~~~~~~~~Hwl~~ni 64 (146)
T PF01161_consen 26 WQNAPTGTKSYTLIMVDPDAPSRENPSFGPFLHWLVTNI 64 (146)
T ss_dssp CSS-TCTTSEEEEEEEETTSSBTTSCTTTSEEEEEEEEE
T ss_pred cccCCCCCcEEEEEEECCCCCccccCCCCcEEEEEEcCC
Confidence 5555446678999999999988433 35678887655
No 8
>COG2932 Predicted transcriptional regulator [Transcription]
Probab=43.17 E-value=14 Score=31.04 Aligned_cols=27 Identities=33% Similarity=0.454 Sum_probs=22.8
Q ss_pred eecccCCC---ceeEEEEEeeccccccccC
Q 028757 119 YWINEDST---YKYFEVILVDAAHNAIRND 145 (204)
Q Consensus 119 YwV~eDg~---yK~fEVILVDp~H~aIr~D 145 (204)
-+|.-||+ |.=.|+|||||+.++++.|
T Consensus 126 i~V~GDSMeP~~~~Gd~ilVd~~~~~~~gd 155 (214)
T COG2932 126 LRVTGDSMEPTYEDGDTLLVDPGVNTRRGD 155 (214)
T ss_pred EEEeCCcccccccCCCEEEECCCCceeeCC
Confidence 47888886 5566899999999999988
No 9
>cd00457 PEBP PhosphatidylEthanolamine-Binding Protein (PEBP) domain. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). A number of biological roles for members of the PEBP family include serine protease inhibition, membrane biogenesis, regulation of flowering plant stem architecture, and Raf-1 kinase inhibition. Although their overall structures are similar, the members of the PEBP family bind very different substrates including phospholipids, opioids, and hydrophobic odorant molecules as well as having different oligomerization states (monomer/dimer/tetramer).
Probab=41.20 E-value=31 Score=28.15 Aligned_cols=34 Identities=12% Similarity=0.266 Sum_probs=25.9
Q ss_pred ecccCCCceeEEEEEeeccccccccCCCCceeccCC
Q 028757 120 WINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPV 155 (204)
Q Consensus 120 wV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~~ 155 (204)
|-+.+.--+.|=|||+||+.| ...+-+-||.-..
T Consensus 31 w~~~p~~t~s~ali~~DpDap--~~~~~~HWvv~nI 64 (159)
T cd00457 31 WDGPPPDVKEYVLVMEDPDAP--LGRPIVHGLVYGI 64 (159)
T ss_pred ecCCCCCCeEEEEEEECCCCC--CCCCceEEEEecc
Confidence 766665669999999999999 2336688887544
No 10
>cd00866 PEBP_euk PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in eukaryotes. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). The members in this subgroup are present in eukaryotes. Members here include those in plants such as Arabidopsis thaliana FLOWERING LOCUS (FT) and TERMINAL FLOWER1 (FT1) which function as a promoter and a repressor of the floral transitions, respectively as well as the mammalian Raf kinase inhibitory protein (RKIP) which inhibits MAP kinase (Raf-MEK-ERK), G protein-coupled receptor (GPCR) kinase and NFkappaB signaling cascades. Although their overall structures are similar, the members of the PEBP family have very different substrates and oligomerization states (monomer/dimer/tetramer).
Probab=40.95 E-value=40 Score=26.60 Aligned_cols=43 Identities=16% Similarity=0.400 Sum_probs=28.3
Q ss_pred hccCCceeeeeeecccCCCceeEEEEEeecccccccc---CCCCceeccCC
Q 028757 108 RKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAIRN---DPRINWICKPV 155 (204)
Q Consensus 108 rk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aIr~---Dp~~~WI~~~~ 155 (204)
...|-+++- +.+..-+.|=|||+||+-|.-.+ -+-+.||....
T Consensus 25 ~~~P~i~~~-----~~~~~~~~y~lvm~DpD~p~~~~~~~~~~lHwl~~ni 70 (154)
T cd00866 25 QKAPTVSFS-----SEDPPDKLYTLVMVDPDAPSRDDPKFREWLHWLVTNI 70 (154)
T ss_pred CcCCeEEEe-----cCCCCCCeEEEEEECCCCCCCCCCCCCCEEEEEEeCc
Confidence 456666443 33446789999999999877542 24567877544
No 11
>COG0810 TonB Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]
Probab=40.11 E-value=29 Score=29.98 Aligned_cols=50 Identities=24% Similarity=0.238 Sum_probs=36.8
Q ss_pred CchHHHhhccccccceEEEEEEeeecCCCCCccCCcccCCcccccccccccccchhHHHHHHhhh
Q 028757 44 RPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVPKGIVYGKPTNQGVTQLKFQRSKRSVAEERAGR 108 (204)
Q Consensus 44 R~dkAR~LGYKAKQG~Vi~RvRVrrGgrkr~~pkg~~~~KPk~~Gv~~~k~~kslq~iAEeRvgr 108 (204)
=|+.|+++|+ ||-|++.+-|..+|. ..+.-|-+-+...-|-.-|.+-+.+
T Consensus 169 YP~~A~~~g~---~G~V~V~f~i~~~G~------------v~~v~v~~SSg~~~lD~aal~air~ 218 (244)
T COG0810 169 YPAQARARGI---EGTVKVKFTIDPDGN------------VTNVRVLKSSGSPALDRAALEAIRK 218 (244)
T ss_pred CcHHHHhcCC---CceEEEEEEECCCCC------------EeeeEEeecCCcHHHHHHHHHHHHH
Confidence 5899999998 999999999998865 3444455555556666666665544
No 12
>PHA02110 hypothetical protein
Probab=39.13 E-value=29 Score=27.30 Aligned_cols=32 Identities=25% Similarity=0.501 Sum_probs=25.5
Q ss_pred HHHHhhhccCCceeeeeeecccCCCceeEEEEEeecc
Q 028757 102 AEERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAA 138 (204)
Q Consensus 102 AEeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~ 138 (204)
.|--.|.+.+.+++.-|||.-.||- |-|-||-
T Consensus 16 ~esl~gn~vge~eifk~~w~i~dgf-----vf~~d~~ 47 (98)
T PHA02110 16 LESLFGNSVGEVEIFKSHWMIRDGF-----VFIGDPP 47 (98)
T ss_pred hHhHhCCccceEeeeeeeeEeecCE-----EEeCCCC
Confidence 3556799999999999999999994 4455664
No 13
>COG0144 Sun tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]
Probab=36.70 E-value=21 Score=32.81 Aligned_cols=25 Identities=40% Similarity=0.761 Sum_probs=21.2
Q ss_pred eEEEEEeecccc---ccccCCCCceecc
Q 028757 129 YFEVILVDAAHN---AIRNDPRINWICK 153 (204)
Q Consensus 129 ~fEVILVDp~H~---aIr~Dp~~~WI~~ 153 (204)
.|.-||||+-+. .|++||++.|--.
T Consensus 229 ~fD~iLlDaPCSg~G~irr~Pd~~~~~~ 256 (355)
T COG0144 229 KFDRILLDAPCSGTGVIRRDPDVKWRRT 256 (355)
T ss_pred cCcEEEECCCCCCCcccccCccccccCC
Confidence 489999999876 6999999999544
No 14
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=35.67 E-value=20 Score=26.16 Aligned_cols=25 Identities=16% Similarity=0.375 Sum_probs=16.8
Q ss_pred ccCCceeeeeeecccCCCceeEEE-EEeecccc
Q 028757 109 KLGGLKVLNSYWINEDSTYKYFEV-ILVDAAHN 140 (204)
Q Consensus 109 k~~nLrVLnSYwV~eDg~yK~fEV-ILVDp~H~ 140 (204)
.|||..- .|-+..||+. |++||...
T Consensus 17 ~CP~Cgs-------~~~T~~W~G~viI~dPe~S 42 (61)
T PRK08351 17 RCPVCGS-------RDLSDEWFDLVIIIDVENS 42 (61)
T ss_pred cCCCCcC-------CccccccccEEEEeCCcHh
Confidence 4776653 5668899995 46677554
No 15
>COG0463 WcaA Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]
Probab=35.03 E-value=23 Score=24.66 Aligned_cols=13 Identities=54% Similarity=0.917 Sum_probs=9.6
Q ss_pred ceeEEEEEeeccc
Q 028757 127 YKYFEVILVDAAH 139 (204)
Q Consensus 127 yK~fEVILVDp~H 139 (204)
+..||||+||-..
T Consensus 30 ~~~~eiivvddgs 42 (291)
T COG0463 30 YKDFEIIVVDDGS 42 (291)
T ss_pred hcceEEEEEeCCC
Confidence 3349999999754
No 16
>PF05063 MT-A70: MT-A70 ; InterPro: IPR007757 N6-methyladenosine (m6A) is present at internal sites in eukaryotic mRNA. It is present only within a defined sequence context that has been shown to be conserved across species from plants to man. Despite its ubiquity and conserved sequence specificity, the functional significance of this modification remains a mystery [], []. MT-A70 is the S-adenosylmethionine-binding subunit of human mRNA N6-adenosine-methyltransferase (MTase), an enzyme that sequence-specifically methylates adenines in pre-mRNAs. Proteins with sequence similarity to MT-A70 have been identified in eukaryotes and prokaryotes. The resulting family is defined by sequence similarity in the carboxyl-proximal regions of the respective proteins. The amino-proximal regions of the eukaryotic proteins are highly diverse, often Pro-rich, and are conserved only within individual subfamilies []. Corresponding regions are not present in prokaryotic members of the family. MT-A70-like proteins contain examples of some of the consensus methyltransferase motifs that have been derived from mutational and structural studies of bacterial DNA methyltransferases, including the universally conserved motif IV catalytic residues and a proposed motif I (AdoMet binding) element []. The MT-A70-like family comprises four subfamilies with varying degrees of interrelatedness. One subfamily is a small group of bacterial DNA: m6A MTases. The other three are paralogous eukaryotic lineages, two of which have not been associated with MTase activity but include proteins that regulate mRNA levels via unknown mechanisms apparently not involving methylation []. Some proteins known to belong to the MT-A70-like family are listed below: Human N6-adenosine-methyltransferase 70 kDa subunit (MT-A70) (2.1.1.62 from EC). Yeast N6-adenosine-methyltransferase IME4 (2.1.1.62 from EC), which is important for induction of sporulation. Yeast karyogamy protein KAR4, a phosphoprotein required for expression of karyogamy-specific genes during mating and that it also acts during mitosis and meiosis. It has been suggested that KAR4 is inactive for methyltransfer and may not even bind AdoMet. ; GO: 0008168 methyltransferase activity, 0006139 nucleobase-containing compound metabolic process
Probab=32.68 E-value=18 Score=29.61 Aligned_cols=11 Identities=36% Similarity=0.631 Sum_probs=8.1
Q ss_pred EEEEEeecccc
Q 028757 130 FEVILVDAAHN 140 (204)
Q Consensus 130 fEVILVDp~H~ 140 (204)
|.||++||=-+
T Consensus 1 fdvI~~DPPW~ 11 (176)
T PF05063_consen 1 FDVIYADPPWP 11 (176)
T ss_pred CCEEEEeCCCC
Confidence 77899998433
No 17
>PF11396 DUF2874: Protein of unknown function (DUF2874); InterPro: IPR021533 This bacterial family of proteins are probable periplasmic proteins with unknown function. There are between one and four copies of this domain per sequence. ; PDB: 3DUE_A 3U1W_B 3DB7_A 4DSD_A 3ELG_A.
Probab=32.00 E-value=68 Score=21.38 Aligned_cols=28 Identities=25% Similarity=0.310 Sum_probs=24.0
Q ss_pred hhccCCceeeeeeecccCCCceeEEEEEe
Q 028757 107 GRKLGGLKVLNSYWINEDSTYKYFEVILV 135 (204)
Q Consensus 107 grk~~nLrVLnSYwV~eDg~yK~fEVILV 135 (204)
-..||+..|..-+.....+. .+|||-|.
T Consensus 17 ~~~yp~~~i~~v~~~~~~~~-~~Y~v~l~ 44 (61)
T PF11396_consen 17 KKNYPGAKIKEVEKETDPGG-KYYEVELK 44 (61)
T ss_dssp HHHSTTSEEEEEEEEEETTE-EEEEEEET
T ss_pred HHHCCCCeEEEEEEEEcCCC-CEEEEEEE
Confidence 44599999999888887777 99999987
No 18
>cd07998 WGR_DNA_ligase WGR domain of bacterial DNA ligases. The WGR domain is found in a small family of predicted bacterial DNA ligases. It has been called WGR after the most conserved central motif of the domain. The domain typically occurs in together with an ATP-dependent DNA ligase domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=30.89 E-value=44 Score=25.27 Aligned_cols=19 Identities=32% Similarity=0.501 Sum_probs=16.0
Q ss_pred eeecccCCCceeEEEEEee
Q 028757 118 SYWINEDSTYKYFEVILVD 136 (204)
Q Consensus 118 SYwV~eDg~yK~fEVILVD 136 (204)
+++.-+++..|||||.|..
T Consensus 4 ~l~~~dg~S~Kfyev~~~~ 22 (77)
T cd07998 4 SLYFQEGNSDKVYEVDLFE 22 (77)
T ss_pred EEEEecCCCceEEEEEEEe
Confidence 5777888999999998874
No 19
>KOG3346 consensus Phosphatidylethanolamine binding protein [General function prediction only]
Probab=30.27 E-value=44 Score=29.00 Aligned_cols=28 Identities=18% Similarity=0.636 Sum_probs=20.4
Q ss_pred CCceeEEEEEeeccccccccCCCC----ceecc
Q 028757 125 STYKYFEVILVDAAHNAIRNDPRI----NWICK 153 (204)
Q Consensus 125 g~yK~fEVILVDp~H~aIr~Dp~~----~WI~~ 153 (204)
..-.||-|||+||+-|+ ++||++ .||.-
T Consensus 61 ~~~~~yTLvm~DPDaPs-r~~p~~rE~lHWlV~ 92 (185)
T KOG3346|consen 61 DPGSLYTLVMTDPDAPS-RSDPKFREWLHWLVT 92 (185)
T ss_pred CCCCeEEEEEeCCCCCC-CCCCcceeEEEEEEE
Confidence 34579999999999998 455554 46543
No 20
>cd00272 Chemokine_CC Chemokine_CC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; some members (e.g. 2HCC) contain an additional disulfide bond which is thought to compensate for the highly conserved Trp missing in these; chemotatic for monocytes, macrophages, eosinophils, basophils, and T cells, but not neutrophils; exist as monomers and dimers, but are believed to be functional as monomers; found only in vertebrates and a few viruses; a subgroup of CC, identified by an N-terminal DCCL motif (Exodus-1, Exodus-2, and Exodus-3), has been shown to inhibit specific types of human cancer cell growth in a mouse model. See CDs: Chemokine (cd00169) for the general alignment of chemokines, or Chemokine_CXC (cd00273), Chemokine_C (cd00271), and Chemokine_CX3C (cd00274) for the additional chemokine subgroups, and Chemokine_C
Probab=29.48 E-value=33 Score=23.49 Aligned_cols=40 Identities=25% Similarity=0.412 Sum_probs=30.8
Q ss_pred eeeeeeecccCCCceeEEEEEeeccccccccCCCCceeccC
Q 028757 114 KVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKP 154 (204)
Q Consensus 114 rVLnSYwV~eDg~yK~fEVILVDp~H~aIr~Dp~~~WI~~~ 154 (204)
.++-+|.+ +++.=.-=|||+.-.+...|-.||+-.|+-+-
T Consensus 13 ~~i~~y~~-~~~~C~~~aVIf~tk~g~~iC~dP~~~WVk~~ 52 (57)
T cd00272 13 RVLKSYRR-TSSSCSKPAVIFKTKRGREVCADPKQKWVQRY 52 (57)
T ss_pred hHeeEEEE-CCCCCCCcEEEEEeCCCCEEeCCCChHHHHHH
Confidence 44557765 44455577999999999999999999998653
No 21
>PRK14688 hypothetical protein; Provisional
Probab=28.28 E-value=41 Score=26.93 Aligned_cols=21 Identities=24% Similarity=0.531 Sum_probs=16.5
Q ss_pred EEEEEeeccccccccCCCCceeccC
Q 028757 130 FEVILVDAAHNAIRNDPRINWICKP 154 (204)
Q Consensus 130 fEVILVDp~H~aIr~Dp~~~WI~~~ 154 (204)
|.||.|++.+ .++.++||-+.
T Consensus 97 FDvi~v~~~~----~~~~i~~i~nA 117 (121)
T PRK14688 97 IDFVSVDLSQ----PEPRLELIKNA 117 (121)
T ss_pred EEEEEEEccC----CCCCEEEehHh
Confidence 9999998765 23579999874
No 22
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=27.98 E-value=30 Score=33.52 Aligned_cols=37 Identities=24% Similarity=0.385 Sum_probs=27.3
Q ss_pred cCCceeeeeeecccCCCc------eeEEEEEeecccc---ccccCCCCcee
Q 028757 110 LGGLKVLNSYWINEDSTY------KYFEVILVDAAHN---AIRNDPRINWI 151 (204)
Q Consensus 110 ~~nLrVLnSYwV~eDg~y------K~fEVILVDp~H~---aIr~Dp~~~WI 151 (204)
+.|..|+| +|++. .+|..||||+-+. .+++||++.|-
T Consensus 163 ~~nv~v~~-----~D~~~~~~~~~~~fD~ILvDaPCSG~G~~rk~p~~~~~ 208 (470)
T PRK11933 163 VSNVALTH-----FDGRVFGAALPETFDAILLDAPCSGEGTVRKDPDALKN 208 (470)
T ss_pred CCeEEEEe-----CchhhhhhhchhhcCeEEEcCCCCCCcccccCHHHhhh
Confidence 35555554 56542 4699999999887 68999998874
No 23
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=27.89 E-value=27 Score=32.41 Aligned_cols=15 Identities=33% Similarity=0.503 Sum_probs=12.9
Q ss_pred EEeeccccccccCCC
Q 028757 133 ILVDAAHNAIRNDPR 147 (204)
Q Consensus 133 ILVDp~H~aIr~Dp~ 147 (204)
|+|||+|++=|+|+-
T Consensus 217 VivDpSH~~Grr~lv 231 (286)
T COG2876 217 VIVDPSHATGRRDLV 231 (286)
T ss_pred EEECCCCcccchhhH
Confidence 689999999888864
No 24
>KOG3351 consensus Predicted nucleotidyltransferase [General function prediction only]
Probab=26.82 E-value=37 Score=31.55 Aligned_cols=33 Identities=30% Similarity=0.477 Sum_probs=26.8
Q ss_pred EEEeeccccccccCCCCceec---------cCCcccchhcCcc
Q 028757 132 VILVDAAHNAIRNDPRINWIC---------KPVHKHRELRGLT 165 (204)
Q Consensus 132 VILVDp~H~aIr~Dp~~~WI~---------~~~hk~Re~RGLT 165 (204)
|=+.||+-|+|. ||+|.-|. ..|+|-|..|||.
T Consensus 218 vpi~Dp~GPt~~-d~elE~lVVS~ET~~Ga~aVNr~R~E~gls 259 (293)
T KOG3351|consen 218 VPIHDPFGPTIT-DPELEALVVSEETKTGATAVNRKRVERGLS 259 (293)
T ss_pred EecccCCCCCcc-CCcceEEEEeeccccchhhhhHHHHHcCCc
Confidence 348999999995 99999885 4578888888885
No 25
>PLN00169 CETS family protein; Provisional
Probab=26.04 E-value=80 Score=26.73 Aligned_cols=29 Identities=14% Similarity=0.519 Sum_probs=21.6
Q ss_pred ceeEEEEEeeccccccccC---CCCceeccCC
Q 028757 127 YKYFEVILVDAAHNAIRND---PRINWICKPV 155 (204)
Q Consensus 127 yK~fEVILVDp~H~aIr~D---p~~~WI~~~~ 155 (204)
-++|=|||+||+-|.-.+. +-+-|+....
T Consensus 62 ~~~ytlim~DpDaP~~~~~~~~~~~HW~v~ni 93 (175)
T PLN00169 62 RTFYTLVMVDPDAPSPSNPNLREYLHWLVTDI 93 (175)
T ss_pred CceeEEEEECCCCCCCCCCCcccEEEEEEeCC
Confidence 4899999999999985432 2477887654
No 26
>PF00836 Stathmin: Stathmin family; InterPro: IPR000956 Stathmin is a ubiquitous phosphorylated protein thought to act as an intracellular relay for diverse regulatory pathways [], functioning through a variety of secondary messengers. Its phosphorylation and gene expression are regulated throughout development [] and in response to extracellular signals regulating cell proliferation, differentiation and function []. Stathmin, and the related proteins SCG10 and XB3, contain a N-terminal domain (XB3 contains an additional N-terminal hydrophobic region), a 78 amino acid coiled-coil region, and a short C-terminal domain.; GO: 0035556 intracellular signal transduction; PDB: 3RYC_E 3RYH_E 3N2K_E 1Z2B_E 1SA1_E 3HKD_E 3DU7_E 3HKC_E 3HKB_E 3HKE_E ....
Probab=25.57 E-value=37 Score=28.33 Aligned_cols=12 Identities=42% Similarity=0.553 Sum_probs=8.2
Q ss_pred eEEEEEeecccc
Q 028757 129 YFEVILVDAAHN 140 (204)
Q Consensus 129 ~fEVILVDp~H~ 140 (204)
=|||||-+|+-+
T Consensus 16 aFEVIL~pps~~ 27 (140)
T PF00836_consen 16 AFEVILKPPSPD 27 (140)
T ss_dssp EEEEEES--SSS
T ss_pred ceEeeeCCCCCC
Confidence 599999999854
No 27
>PF04915 DltD_N: DltD N-terminal region; InterPro: IPR006999 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the N-terminal region of DltD.; PDB: 3BMA_C.
Probab=24.35 E-value=24 Score=25.77 Aligned_cols=13 Identities=23% Similarity=0.291 Sum_probs=8.2
Q ss_pred EEEEeeccccccc
Q 028757 131 EVILVDAAHNAIR 143 (204)
Q Consensus 131 EVILVDp~H~aIr 143 (204)
|..-+||+||+|-
T Consensus 38 El~r~D~~HPsvl 50 (62)
T PF04915_consen 38 ELSRFDPFHPSVL 50 (62)
T ss_dssp TTTS--TTSHHHH
T ss_pred HHhccCCcCHHHH
Confidence 4446899999985
No 28
>cd05468 pVHL von Hippel-Landau (pVHL) tumor suppressor protein. von Hippel-Landau (pVHL) protein, the gene product of VHL, is a critical regulator of the ubiquitous oxygen-sensing pathway. It is conserved throughout evolution, as its homologs are found in organisms ranging from mammals to the Drosophila melanogaster, Anopheles gambiae insects and the Caenorhabditis elegans nematode. pVHL acts as the substrate recognition component of an E3 ubiquitin ligase complex. Several proteins have been identified as pVHL-binding proteins that are subject to ubiquitin-mediated proteolysis; the best characterized putative substrates are the alpha subunits of the hypoxia-inducible factor (HIF1alpha, HIF2alpha, and HIF3alpha). In addition to HIF degradation, pVHL has been implicated to be involved in HIF independent cellular processes. Germline VHL mutations cause renal cell carcinomas, hemangioblastomas and pheochromocytomas in humans. pVHL can bind to and direct the proper deposition of fibronecti
Probab=24.29 E-value=67 Score=26.09 Aligned_cols=33 Identities=18% Similarity=0.357 Sum_probs=24.8
Q ss_pred eeeeeeecccCCCceeEEEEE--------eeccccccccCC
Q 028757 114 KVLNSYWINEDSTYKYFEVIL--------VDAAHNAIRNDP 146 (204)
Q Consensus 114 rVLnSYwV~eDg~yK~fEVIL--------VDp~H~aIr~Dp 146 (204)
+.+.-|||+.+|...+|..|- -=..||-|-.|.
T Consensus 19 ~~v~~~Wid~~G~~~~Y~~l~pg~~~~~~Ty~~H~W~~rd~ 59 (141)
T cd05468 19 RPVELYWIDYDGKPVSYGTLQPGETVRQNTYVGHPWLFRDA 59 (141)
T ss_pred CeEEEEEECCCCCEEEeeeeCCCCEEeecccCCCcEEEEec
Confidence 567889999999999999762 113566666666
No 29
>cd06433 GT_2_WfgS_like WfgS and WfeV are involved in O-antigen biosynthesis. Escherichia coli WfgS and Shigella dysenteriae WfeV are glycosyltransferase 2 family enzymes involved in O-antigen biosynthesis. GT-2 enzymes have GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=24.13 E-value=43 Score=25.33 Aligned_cols=13 Identities=31% Similarity=0.608 Sum_probs=9.9
Q ss_pred ceeEEEEEeeccc
Q 028757 127 YKYFEVILVDAAH 139 (204)
Q Consensus 127 yK~fEVILVDp~H 139 (204)
+..||||+||-..
T Consensus 25 ~~~~evivvDd~s 37 (202)
T cd06433 25 YPNIEYIVIDGGS 37 (202)
T ss_pred CCCceEEEEeCCC
Confidence 4559999998654
No 30
>cd00865 PEBP_bact_arch PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). The members in this subgroup are present in bacterial and archaea. Members here include Escherichia coli YBHB and YBCL which are thought to regulate protein phosphorylation as well as Sulfolobus solfataricus SsCEI which inhibits serine proteases alpha-chymotrypsin and elastase. Although their overall structures are similar, the members of the PEBP family have very different substrates and oligomerization states (monomer/dimer/tetramer). In a few of the bacterial members present here the dimerization interface is proposed to form the ligand binding site, unlike in other PEBP members.
Probab=23.73 E-value=83 Score=25.23 Aligned_cols=27 Identities=15% Similarity=0.321 Sum_probs=21.8
Q ss_pred ceeEEEEEeeccccccccCCCCceeccCC
Q 028757 127 YKYFEVILVDAAHNAIRNDPRINWICKPV 155 (204)
Q Consensus 127 yK~fEVILVDp~H~aIr~Dp~~~WI~~~~ 155 (204)
-+.|=|+|+||+.| ...+-+-||.-..
T Consensus 39 t~s~al~m~D~Dap--~~~~~~HW~~~nI 65 (150)
T cd00865 39 TKSLALIVEDPDAP--TGGGFVHWVVWNI 65 (150)
T ss_pred CeEEEEEEEcCCCC--CCCCEEEEEEecc
Confidence 49999999999999 4567788887544
No 31
>PF07450 HycH: Formate hydrogenlyase maturation protein HycH; InterPro: IPR010005 This family contains the bacterial formate hydrogenlyase maturation protein HycH, which is approximately 140 residues long. This may be required for the conversion of a precursor form of the large subunit of hydrogenlyase 3 into a mature form [].
Probab=21.71 E-value=41 Score=28.00 Aligned_cols=26 Identities=50% Similarity=0.668 Sum_probs=18.4
Q ss_pred HHHhhhccCCceeeeeeecccCCCceeEEEEEeecccccc
Q 028757 103 EERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAI 142 (204)
Q Consensus 103 EeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aI 142 (204)
|+-|-+|+.|| .||+| |-|||+|-+.
T Consensus 63 ~~eArrKl~gl-------------~kfGE-I~Id~~H~~~ 88 (131)
T PF07450_consen 63 EGEARRKLEGL-------------LKFGE-IEIDSEHVAL 88 (131)
T ss_pred cHHHHHHHhCC-------------CceeE-EEECHHHHHH
Confidence 45566666654 59999 5689999654
No 32
>cd00169 Chemokine Chemokine: small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 subfamilies based on the arrangement of the two N-terminal cysteines; some members can bind multiple receptors and many chemokine receptors can bind more than one chemokine; this redundancy allows precise control in stimulating the immune system and in contributing to the homeostasis of a cell; when expressed inappropriately, chemokines play a role in autoimmune diseases, vascular irregularities, graft rejection, neoplasia, and allergies; exist as monomers, dimers and multimers, but are believed to function as monomers; found only in vertebrates and a few viruses. See CDs: Chemokine_CXC (cd00273), Chemokine_CC (cd00272), Chemokine_C (cd00271), and Chemokine_CX3C (cd00274) for chemokine subgroups.
Probab=20.87 E-value=92 Score=21.26 Aligned_cols=41 Identities=22% Similarity=0.378 Sum_probs=32.1
Q ss_pred ceeeeeeecccCCC-ceeEEEEEeeccccccccCCCCceecc
Q 028757 113 LKVLNSYWINEDST-YKYFEVILVDAAHNAIRNDPRINWICK 153 (204)
Q Consensus 113 LrVLnSYwV~eDg~-yK~fEVILVDp~H~aIr~Dp~~~WI~~ 153 (204)
++.+.||.+-+-+. =.--|||+.--+-..|--||+-.|+-+
T Consensus 12 ~~~I~~y~~~~~~~~C~~~aIIf~tk~g~~iC~dP~~~WV~~ 53 (59)
T cd00169 12 PKNIKSYRVQEAGGHCSIPAVIFTTKKGRKVCADPKEPWVKD 53 (59)
T ss_pred chheEEEEEeCCCCCCCCceEEEEEcCCCEEECCCCcHHHHH
Confidence 45577888755442 568899999988889999999999754
No 33
>PF10515 APP_amyloid: beta-amyloid precursor protein C-terminus; InterPro: IPR019543 This is the amyloid, C-terminal, protein of the beta-Amyloid precursor protein (APP) which is a conserved and ubiquitous transmembrane glycoprotein strongly implicated in the pathogenesis of Alzheimer's disease but whose normal biological function is unknown. The C-terminal 100 residues are released and aggregate into amyloid deposits which are strongly implicated in the pathology of Alzheimer's disease plaque-formation. The domain is associated with IPR008154 from INTERPRO, further towards the N terminus. ; PDB: 2ROZ_A 3DXD_D 1X11_D 2LP1_A 2LOH_A 3MXC_L 3MXY_L 3DXC_B 3DXE_D 3L81_B ....
Probab=20.65 E-value=22 Score=25.39 Aligned_cols=37 Identities=38% Similarity=0.676 Sum_probs=14.6
Q ss_pred cccccccccccccchhHHHHHHhhhccCCceeeeeeecccCCCceeEE
Q 028757 84 PTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWINEDSTYKYFE 131 (204)
Q Consensus 84 Pk~~Gv~~~k~~kslq~iAEeRvgrk~~nLrVLnSYwV~eDg~yK~fE 131 (204)
|.++|+-.+-+.-+. ||| ++.||..= -| |.-||||||
T Consensus 16 ~~~~g~veVD~~~tp----Ee~---h~~~mQ~n-GY---ENPTYkyfE 52 (52)
T PF10515_consen 16 PISHGFVEVDPCLTP----EER---HLSNMQNN-GY---ENPTYKYFE 52 (52)
T ss_dssp --------------H----HHH---HHHHHHCT-EE---ESCTCHHCC
T ss_pred ccccceEEecCCCCh----HHH---HHHHHHhc-CC---cCCceeccC
Confidence 567888777766333 544 45566543 33 788999998
No 34
>PRK15084 formate hydrogenlyase maturation protein HycH; Provisional
Probab=20.33 E-value=46 Score=27.82 Aligned_cols=26 Identities=42% Similarity=0.658 Sum_probs=18.4
Q ss_pred HHHhhhccCCceeeeeeecccCCCceeEEEEEeecccccc
Q 028757 103 EERAGRKLGGLKVLNSYWINEDSTYKYFEVILVDAAHNAI 142 (204)
Q Consensus 103 EeRvgrk~~nLrVLnSYwV~eDg~yK~fEVILVDp~H~aI 142 (204)
|+-|-+|+.|| .||+| |-|||+|-+.
T Consensus 65 ~~eArrKl~gl-------------~kfgE-I~I~~~H~~~ 90 (133)
T PRK15084 65 EGEARRKMEGV-------------PKFGE-IVIDSSHVAL 90 (133)
T ss_pred hHHHHHHHhCc-------------CceeE-EEECHHHHHH
Confidence 55666676654 69999 4689998654
No 35
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=20.27 E-value=47 Score=28.89 Aligned_cols=56 Identities=29% Similarity=0.334 Sum_probs=32.9
Q ss_pred cccccchhHHHHHHhhhc-cCCceeeeeeecccCCCc-----eeEEEEEeecccc---ccccCCCCceec
Q 028757 92 LKFQRSKRSVAEERAGRK-LGGLKVLNSYWINEDSTY-----KYFEVILVDAAHN---AIRNDPRINWIC 152 (204)
Q Consensus 92 ~k~~kslq~iAEeRvgrk-~~nLrVLnSYwV~eDg~y-----K~fEVILVDp~H~---aIr~Dp~~~WI~ 152 (204)
+-.....=.++++.+.+. ..|+.+++ .|+.. .-|.+||+||-.. .++.||++.|-.
T Consensus 102 ~D~~~~~l~~~~~n~~~~g~~~v~~~~-----~D~~~~~~~~~~fD~Vl~D~Pcsg~G~~~~~p~~~~~~ 166 (264)
T TIGR00446 102 NEFSKSRTKVLIANINRCGVLNVAVTN-----FDGRVFGAAVPKFDAILLDAPCSGEGVIRKDPSRKKNW 166 (264)
T ss_pred EcCCHHHHHHHHHHHHHcCCCcEEEec-----CCHHHhhhhccCCCEEEEcCCCCCCcccccChhhhhcC
Confidence 333344444556665443 24555543 33321 2299999999665 568999998743
Done!