Query psy3482
Match_columns 279
No_of_seqs 171 out of 402
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 17:51:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3482.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3482hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3279|consensus 100.0 3.2E-86 6.9E-91 594.2 9.6 268 6-279 4-281 (283)
2 KOG3278|consensus 100.0 4.3E-29 9.4E-34 220.0 4.2 121 80-201 41-167 (215)
3 COG0227 RpmB Ribosomal protein 99.9 7.2E-23 1.6E-27 158.7 5.2 73 81-155 1-73 (77)
4 PRK00359 rpmB 50S ribosomal pr 99.9 4.9E-22 1.1E-26 153.6 4.7 75 81-158 1-75 (76)
5 PF00830 Ribosomal_L28: Riboso 99.8 6.9E-21 1.5E-25 141.4 2.0 61 83-145 1-61 (61)
6 CHL00112 rpl28 ribosomal prote 99.6 1.4E-16 3E-21 119.5 4.6 62 81-144 1-62 (63)
7 TIGR00009 L28 ribosomal protei 99.6 1.3E-15 2.8E-20 111.6 4.2 56 81-140 1-56 (56)
8 PF13348 Y_phosphatase3C: Tyro 50.3 9.3 0.0002 27.9 1.3 19 135-153 32-51 (68)
9 PHA02726 hypothetical protein; 40.8 8.6 0.00019 31.3 -0.1 15 264-278 66-80 (94)
10 COG5112 UFD2 U1-like Zn-finger 38.0 14 0.00031 31.2 0.8 15 199-213 89-104 (126)
11 KOG2314|consensus 29.6 1.4E+02 0.0031 31.9 6.4 83 159-252 569-658 (698)
12 PF15581 Imm35: Immunity prote 26.8 69 0.0015 26.2 2.9 20 205-224 39-58 (93)
13 cd04763 HTH_MlrA-like Helix-Tu 25.8 72 0.0016 23.0 2.7 18 131-148 10-27 (68)
14 KOG2829|consensus 25.7 46 0.001 32.6 2.0 11 204-214 118-128 (326)
15 PHA02828 putative transmembran 24.6 24 0.00053 29.0 -0.1 13 266-278 64-76 (100)
16 PLN00180 NDF6 (NDH-dependent f 24.2 98 0.0021 27.9 3.6 32 218-256 141-174 (180)
No 1
>KOG3279|consensus
Probab=100.00 E-value=3.2e-86 Score=594.17 Aligned_cols=268 Identities=39% Similarity=0.736 Sum_probs=258.1
Q ss_pred hhhhhhhhhc-hhcccccchhhhhcCcHHHHHHHHHHhhcCCCCcccccCCcceeeCC-CCccccccccCCCCCCCcccc
Q psy3482 6 HLANGARIRY-VKKKTAFDTEIASKLPESYRKFYAEWKMEKPKPVHYVEEPGRYKKNA-QGVVVPVINYPIPSKYTLEQD 83 (279)
Q Consensus 6 ~~~~~~~~~~-~~~~~~~~~gi~~rLP~~Y~k~~~ew~~~~p~~Vhy~p~~~~~~~~~-tg~~~~v~~iPIp~~~pk~s~ 83 (279)
--+||.++++ +.++.||+.|+++|||+||++||+||+|++|+||||+|++.+|.+|+ +....+||++|||+|.+|+++
T Consensus 4 ~tp~~~~~~~~w~~~~rf~~~~~~~lpe~y~~~~~e~~ls~~~~vhy~p~~~~~~~d~~~~~~~~~~~~p~~~i~tpe~~ 83 (283)
T KOG3279|consen 4 ATPQGVKLLNGWKRPGRFDKGLGAQLPEAYRKFWREWKLTTPAAVHYIPKEQQWERDEVTHAIKPVQNIPLPLIDTPESH 83 (283)
T ss_pred CChhhHHHHHcccccchhhhhhhhhchHHHHHHHHHHhcCCCccccccChhhhhhhhhhhhhhhhhhcCCcccccCCccc
Confidence 3589999999 99999999999999999999999999999999999999999999999 999999999999999999999
Q ss_pred ccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhhhhhccChhHHhhcCCccccCCHH
Q psy3482 84 LGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDLIHEHYGFDEYLLQTRACNLNSLI 163 (279)
Q Consensus 84 ~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrtIdk~GGlD~YLLkT~~~~L~S~~ 163 (279)
+|||||++++.|+..|.. +++|++|+|.|||.+.++||++||++|+|+||+|||++||+++|||+|||+++.+||+|+|
T Consensus 84 ~g~wgge~vikg~~~~~~-tk~~~p~~wvp~l~~~v~~s~ild~y~~v~vteRtl~LIDE~~GLD~YILk~~~~DL~SKF 162 (283)
T KOG3279|consen 84 RGIWGGEAVIKGFQKREQ-TKRRVPHFWVPNLRRSVVHSHVLDCYMSVVVTERTLELIDECHGLDHYILKNRACDLRSKF 162 (283)
T ss_pred ccccccHHHHHHHHHHHH-HhhcCCcccccchhhHHHHHHHHhhhheeeehHHHHHHHHHhcCcceeeecCcchhHHHHH
Confidence 999999999999999884 5799999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcc-CCCCCChHhHHHHHHHhhhhccCCcchhhhhccCCHHHHHHHHHHHHHHHhhcCCCchHHHHHH
Q psy3482 164 ACKIKRKMLLALYDK-TLYPDDETKRETIYNKYKHYLENYSREDIEWYGWSLPEAQEKIILIEREAEARSKVPLKVLFRK 242 (279)
Q Consensus 164 g~~LKr~Il~~la~~-~l~p~d~~k~~~i~~kyk~f~~pyt~EEaeW~Gltl~EA~~Kq~~~e~~~~~~~p~Plk~~~~~ 242 (279)
|++|||.||++|++. ++||+||++|++|++||+.|+|| +||||||||||+||++||+++|++. +|+|||+.|+.
T Consensus 163 a~~LKReMLL~L~~~~p~~~E~pEr~A~I~~KY~~F~IP--EeEAEW~GLtL~EAirKQ~~lEe~~---~PvPLk~~f~~ 237 (283)
T KOG3279|consen 163 ALKLKREMLLALQNGVPALAEEPERQAEILKKYRRFLIP--EEEAEWYGLTLLEAIRKQKQLEEAE---KPVPLKLEFRG 237 (283)
T ss_pred HHHHHHHHHHHHhcCCCcccCChHHHHHHHHHHHHhcCC--HHHhhHhhhHHHHHHHHHHHHHhcc---CCccHHHHHHH
Confidence 999999999999999 59999999999999999999999 9999999999999999999999955 99999999999
Q ss_pred HHHHHHHHhhhhccccccc-------cCCCCCccccccCCCCCC
Q psy3482 243 EMIEDLKQKKLEGTLNLEE-------EKTKPTSLLGKLNPFAKS 279 (279)
Q Consensus 243 ~Li~~L~~~~~~e~~~~~~-------~~~~~~swl~k~npf~~~ 279 (279)
+||+||+++++++++..+. +|+.++||++|||||||+
T Consensus 238 ~LieqLrq~~~~~~Q~Le~Pea~~K~eS~~~~~~~~k~np~gkk 281 (283)
T KOG3279|consen 238 KLIEQLRQAGISEAQKLEKPEALTKLESSPSSSWLSKINPFGKK 281 (283)
T ss_pred HHHHHHHhhhhhHhhhhcCchhhhhcccCcchhhhhhcCCcccc
Confidence 9999999999988876653 788889999999999986
No 2
>KOG3278|consensus
Probab=99.95 E-value=4.3e-29 Score=220.04 Aligned_cols=121 Identities=21% Similarity=0.332 Sum_probs=111.0
Q ss_pred ccccccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhhhhhccChhHHhhcCCcccc
Q psy3482 80 LEQDLGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDLIHEHYGFDEYLLQTRACNL 159 (279)
Q Consensus 80 k~s~~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrtIdk~GGlD~YLLkT~~~~L 159 (279)
.++++|||||..+++|||++.. .++||||.|+||+|.+.|||++||++|.|.||+++||||||+||||+||++|+++++
T Consensus 41 ~q~~~gLYgGs~iq~GNn~i~~-~g~KTRr~W~PNv~~K~L~S~il~~ki~vkvTt~vLrtIdKeGGiDeYL~K~~sar~ 119 (215)
T KOG3278|consen 41 GQAKRGLYGGSHIQYGNNVIED-GGNKTRRCWKPNVQEKRLFSYILDSKIKVKVTTHVLRTIDKEGGIDEYLLKTPSARQ 119 (215)
T ss_pred hhcccccccccceecCcccccc-cCcccceeecCcchhhHHHHHHHhhheeeeeehHHHhhhccccChhHHHhcCcHHHH
Confidence 6999999999999999997554 369999999999999999999999999999999999999999999999999999999
Q ss_pred C--CHHHHHHHHHHHHHHhcc----CCCCCChHhHHHHHHHhhhhccC
Q psy3482 160 N--SLIACKIKRKMLLALYDK----TLYPDDETKRETIYNKYKHYLEN 201 (279)
Q Consensus 160 ~--S~~g~~LKr~Il~~la~~----~l~p~d~~k~~~i~~kyk~f~~p 201 (279)
+ +..|+.||..+|.+++.+ ...|.||+.+....+.|+..++.
T Consensus 120 K~lg~~G~~lr~~Vl~r~~ienp~~e~ap~~~~a~~k~~~~~kD~~i~ 167 (215)
T KOG3278|consen 120 KMLGEMGLYLRTKVLARYAIENPQMEVAPFNPEAEAKLEQGFKDLNIA 167 (215)
T ss_pred hhcccchHHHHHHHHHHhhccCCcccccCCCchhHHHHHHHHHHHHhc
Confidence 8 569999999999999844 55788899888888888888877
No 3
>COG0227 RpmB Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=7.2e-23 Score=158.75 Aligned_cols=73 Identities=14% Similarity=0.201 Sum_probs=70.5
Q ss_pred cccccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhhhhhccChhHHhhcCC
Q psy3482 81 EQDLGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDLIHEHYGFDEYLLQTR 155 (279)
Q Consensus 81 ~s~~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrtIdk~GGlD~YLLkT~ 155 (279)
+|++|.++|+++++|||+||++ ++|+|+|.||||.++|||++++++++|+||++|||+||+.||+|+|+.+..
T Consensus 1 Msr~C~lTGk~~~~GnnvShs~--~kTkRr~~pNlq~~~~~~~~~g~~~~l~Vsa~~Lrtidk~G~~~~~~~~~~ 73 (77)
T COG0227 1 MSRRCQLTGKGPMSGNNVSHSH--NKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTIDKKGKIDAVLAKAR 73 (77)
T ss_pred CCceeeeccccccccccccccc--cccceeecCccEEEEEEEccCCcEEEEEEEhHHhhccccccchhhhhhhhc
Confidence 5889999999999999999997 999999999999999999999999999999999999999999999999765
No 4
>PRK00359 rpmB 50S ribosomal protein L28; Reviewed
Probab=99.85 E-value=4.9e-22 Score=153.59 Aligned_cols=75 Identities=16% Similarity=0.247 Sum_probs=70.6
Q ss_pred cccccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhhhhhccChhHHhhcCCccc
Q psy3482 81 EQDLGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDLIHEHYGFDEYLLQTRACN 158 (279)
Q Consensus 81 ~s~~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrtIdk~GGlD~YLLkT~~~~ 158 (279)
+|+.|.++|+++++||+|||++ ++|+|.|.||||++++||++++++++++||+++||+|++.| ||+|++++....
T Consensus 1 Msr~C~i~GK~~~~Gn~vShs~--~kTkR~~~pNlq~~~~~~~~~g~~v~~~vst~~Lrti~k~G-l~~~~~~~~~~~ 75 (76)
T PRK00359 1 MSRVCEITGKGPMVGNNVSHSN--NKTKRRFLPNLQKVRFWVEEEGRFVRLRVSARALRTIDKKG-LDAVLKKARARG 75 (76)
T ss_pred CCCccccCCCCCccCCeeeecC--CccCceecccceEEEEEEccCCEEEEEEEEchheeeehhhh-HHHHHHhhhhcc
Confidence 4789999999999999999997 99999999999999999999999999999999999999995 999999876543
No 5
>PF00830 Ribosomal_L28: Ribosomal L28 family; InterPro: IPR001383 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 [, ]. The ribosomal L28 protein family include proteins from bacteria and chloroplasts. The L24 protein from yeast, found in the large subunit of the mitochodrial ribosome, contains a region similar to the bacterial L28 protein.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZJP_U 3CF5_U 2ZJR_U 3PIP_U 3PIO_U 2ZJQ_U 3DLL_U 2Y15_1 3KIY_1 3V2D_1 ....
Probab=99.81 E-value=6.9e-21 Score=141.39 Aligned_cols=61 Identities=23% Similarity=0.359 Sum_probs=56.7
Q ss_pred cccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhhhhhcc
Q psy3482 83 DLGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDLIHEHY 145 (279)
Q Consensus 83 ~~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrtIdk~G 145 (279)
+.|+|+|+++++||+|||++ ++|+|.|.||||++++||++||++++|+||++|||+||+.|
T Consensus 1 r~c~~~GK~~~~Gn~vshs~--~ktkR~~~pNlq~~~~~~~~lg~~~~v~vst~~Lrti~k~G 61 (61)
T PF00830_consen 1 RRCLITGKKPMFGNNVSHSN--NKTKRRWKPNLQKKRLWSEILGKKIRVRVSTRALRTIDKKG 61 (61)
T ss_dssp -S-TTT-CTTCEECEEEEEC--EEEEEEEBTTEEEEEEEESTTSSEEEEEEEHCHHHHHHCHT
T ss_pred CEeecCCCeecccceEeecC--CcCCcEEcCcCEEEEEEEcCCCeEEEEEEEhHHeeeeccCC
Confidence 57999999999999999986 99999999999999999999999999999999999999986
No 6
>CHL00112 rpl28 ribosomal protein L28; Provisional
Probab=99.64 E-value=1.4e-16 Score=119.53 Aligned_cols=62 Identities=8% Similarity=0.237 Sum_probs=59.4
Q ss_pred cccccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhhhhhc
Q psy3482 81 EQDLGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDLIHEH 144 (279)
Q Consensus 81 ~s~~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrtIdk~ 144 (279)
+|+.|...|+++++||+||||+ ++|+|+|.||||++++|++.++++++|+|+++|||+|++.
T Consensus 1 Msr~C~i~GK~~~~Gn~vSHs~--~kTkR~f~pNLq~vr~~~~~~~~~~kl~Vstr~Lrt~~k~ 62 (63)
T CHL00112 1 MSKKCQLTGKKANNGYTVSHSH--KRTKKLQKVNLQTKKIWSNTQNRWVKLKISTKAIKTLKKK 62 (63)
T ss_pred CCCeeccCCCcCccCceeEccC--cccCceecccccEEEEEECCCCeEEEEEEEHHHhhhcccc
Confidence 4788999999999999999997 9999999999999999999999999999999999999975
No 7
>TIGR00009 L28 ribosomal protein L28. This model describes bacterial and chloroplast forms of the 50S ribosomal protein L28, a polypeptide about 60 amino acids in length. Mitochondrial homologs differ substantially in architecture and are not included.
Probab=99.58 E-value=1.3e-15 Score=111.62 Aligned_cols=56 Identities=11% Similarity=0.225 Sum_probs=53.1
Q ss_pred cccccccccceeecccccCCCCCCCCCCcccccceeEEEEeEeccCcEeEEeeehhHHhh
Q psy3482 81 EQDLGIWGGESVIEGYRRPAHKYETQPPEYWVPHLLDHIVYSEILDKYLNVPVTQRTVDL 140 (279)
Q Consensus 81 ~s~~GL~gGk~i~~Gn~vS~s~~~~KtrR~w~PNL~~k~lySeiLdk~i~l~VTtraLrt 140 (279)
+|+.|.+.|+++++||+|||++ ++|+|.|.||||++++||+ +++++|+||++|||+
T Consensus 1 Ms~~C~i~GK~~~~Gn~vshs~--~ktkR~~~pNlq~~ri~~~--~~~~~~~vst~~Lkt 56 (56)
T TIGR00009 1 MSRKCQLTGKGPLSGNNVSHSH--RKTKRRFKPNLQKKRVWVD--GRFKRLRVSAKCLRT 56 (56)
T ss_pred CCCEeeeCCCcCccCCeeeecC--CccCceecccceEEEEEEC--CEEEEEEEEcHHhcC
Confidence 4788999999999999999997 9999999999999999999 599999999999985
No 8
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=50.32 E-value=9.3 Score=27.88 Aligned_cols=19 Identities=21% Similarity=0.370 Sum_probs=15.3
Q ss_pred hhHHhhhh-hccChhHHhhc
Q psy3482 135 QRTVDLIH-EHYGFDEYLLQ 153 (279)
Q Consensus 135 traLrtId-k~GGlD~YLLk 153 (279)
..++++|+ +.||+++||.+
T Consensus 32 ~~~l~~i~~~yGs~e~Yl~~ 51 (68)
T PF13348_consen 32 EAALDAIDERYGSVENYLRE 51 (68)
T ss_dssp HHHHHHHHHHHSSHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHH
Confidence 36788888 58999999964
No 9
>PHA02726 hypothetical protein; Provisional
Probab=40.78 E-value=8.6 Score=31.33 Aligned_cols=15 Identities=47% Similarity=0.769 Sum_probs=11.9
Q ss_pred CCCCccccccCCCCC
Q psy3482 264 TKPTSLLGKLNPFAK 278 (279)
Q Consensus 264 ~~~~swl~k~npf~~ 278 (279)
..+.|.||.+|||.|
T Consensus 66 ~k~~~Fls~~NPF~K 80 (94)
T PHA02726 66 PKTSGFLSYLNPFRK 80 (94)
T ss_pred cchHhHHHhcCcccc
Confidence 344569999999986
No 10
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=37.96 E-value=14 Score=31.23 Aligned_cols=15 Identities=33% Similarity=0.423 Sum_probs=12.9
Q ss_pred ccCCcchhhhh-ccCC
Q psy3482 199 LENYSREDIEW-YGWS 213 (279)
Q Consensus 199 ~~pyt~EEaeW-~Glt 213 (279)
-.|||.|++|| +|||
T Consensus 89 evpytQe~aeaAvg~~ 104 (126)
T COG5112 89 EVPYTQEDAEAAVGLT 104 (126)
T ss_pred cCcchhHHHHHHhccc
Confidence 46899999999 7877
No 11
>KOG2314|consensus
Probab=29.61 E-value=1.4e+02 Score=31.87 Aligned_cols=83 Identities=17% Similarity=0.167 Sum_probs=52.4
Q ss_pred cCCHHHHHHHHHHHHHHhcc-----CCCCCChHhHHHHHHHhhhhccCCcchhhhhccC--CHHHHHHHHHHHHHHHhhc
Q psy3482 159 LNSLIACKIKRKMLLALYDK-----TLYPDDETKRETIYNKYKHYLENYSREDIEWYGW--SLPEAQEKIILIEREAEAR 231 (279)
Q Consensus 159 L~S~~g~~LKr~Il~~la~~-----~l~p~d~~k~~~i~~kyk~f~~pyt~EEaeW~Gl--tl~EA~~Kq~~~e~~~~~~ 231 (279)
|..--|.-||+.|+.++..= +--+--.++|.+|.+..|+|-.. .||.+=.-. .-.|-++|++++.+
T Consensus 569 i~tfqGrll~~~~i~~f~qF~WRPRPps~LS~e~~KkIkKnLKky~a~--FeeqD~~e~~~AsrElvekrRqlm~----- 641 (698)
T KOG2314|consen 569 IFTFQGRLLKEDIIDRFKQFLWRPRPPSLLSEEKQKKIKKNLKKYSAQ--FEEQDRLEQSRASRELVEKRRQLME----- 641 (698)
T ss_pred EEEeecHHHHHHHHHHHHhhccCCCCCcccCHHHHHHHHHHHHHHHHH--HhhhhhHhhhhhHHHHHHHHHHHHH-----
Confidence 33456888999999987652 22223568888897777776655 344311111 12344455555544
Q ss_pred CCCchHHHHHHHHHHHHHHhh
Q psy3482 232 SKVPLKVLFRKEMIEDLKQKK 252 (279)
Q Consensus 232 ~p~Plk~~~~~~Li~~L~~~~ 252 (279)
-+..||++.++++.+++
T Consensus 642 ----~f~~yR~~~~~~~~eek 658 (698)
T KOG2314|consen 642 ----QFTEYREKIIEEMAEEK 658 (698)
T ss_pred ----HHHHHHHHHHHHHHHhh
Confidence 57899999999998765
No 12
>PF15581 Imm35: Immunity protein 35
Probab=26.80 E-value=69 Score=26.20 Aligned_cols=20 Identities=20% Similarity=0.327 Sum_probs=16.0
Q ss_pred hhhhhccCCHHHHHHHHHHH
Q psy3482 205 EDIEWYGWSLPEAQEKIILI 224 (279)
Q Consensus 205 EEaeW~Gltl~EA~~Kq~~~ 224 (279)
=|-||.||+-+|-..|....
T Consensus 39 Ie~eWRGl~~~qV~~kl~av 58 (93)
T PF15581_consen 39 IEHEWRGLPEEQVLYKLEAV 58 (93)
T ss_pred HHHHHcCCCHHHHHHHHHHH
Confidence 35699999999998887644
No 13
>cd04763 HTH_MlrA-like Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A) and related proteins, N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen
Probab=25.78 E-value=72 Score=23.00 Aligned_cols=18 Identities=6% Similarity=0.213 Sum_probs=13.2
Q ss_pred EeeehhHHhhhhhccChh
Q psy3482 131 VPVTQRTVDLIHEHYGFD 148 (279)
Q Consensus 131 l~VTtraLrtIdk~GGlD 148 (279)
+.||.++||--++.||+-
T Consensus 10 ~gVs~~tlr~ye~~~gl~ 27 (68)
T cd04763 10 TGIKPHVLRAWEREFGLL 27 (68)
T ss_pred HCcCHHHHHHHHHhcCCC
Confidence 357888888888776654
No 14
>KOG2829|consensus
Probab=25.66 E-value=46 Score=32.58 Aligned_cols=11 Identities=27% Similarity=0.897 Sum_probs=9.3
Q ss_pred chhhhhccCCH
Q psy3482 204 REDIEWYGWSL 214 (279)
Q Consensus 204 ~EEaeW~Gltl 214 (279)
..||.|+||.-
T Consensus 118 KKEIrW~GLP~ 128 (326)
T KOG2829|consen 118 KKEIRWIGLPA 128 (326)
T ss_pred cceeeeeccCc
Confidence 47999999983
No 15
>PHA02828 putative transmembrane protein; Provisional
Probab=24.60 E-value=24 Score=28.98 Aligned_cols=13 Identities=54% Similarity=0.991 Sum_probs=9.8
Q ss_pred CCccccccCCCCC
Q psy3482 266 PTSLLGKLNPFAK 278 (279)
Q Consensus 266 ~~swl~k~npf~~ 278 (279)
+-+.||+||||.|
T Consensus 64 ~~~fis~~NPF~K 76 (100)
T PHA02828 64 PLRLINKINPFYK 76 (100)
T ss_pred HHHHHHhcCcccc
Confidence 3458888888876
No 16
>PLN00180 NDF6 (NDH-dependent flow 6); Provisional
Probab=24.16 E-value=98 Score=27.89 Aligned_cols=32 Identities=38% Similarity=0.480 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHh--hhhcc
Q psy3482 218 QEKIILIEREAEARSKVPLKVLFRKEMIEDLKQK--KLEGT 256 (279)
Q Consensus 218 ~~Kq~~~e~~~~~~~p~Plk~~~~~~Li~~L~~~--~~~e~ 256 (279)
-+||.++|+++. -..+|+||||+..+. +|.|.
T Consensus 141 Yd~QEd~E~sAR-------eeL~REELiEEIEQkVGGLREL 174 (180)
T PLN00180 141 YERQEDIEESAR-------AELWREELIEEIEQKVGGLREL 174 (180)
T ss_pred eehHHHHHHHHH-------HHHHHHHHHHHHHHHhhhHHHH
Confidence 468888888763 357999999998764 55553
Done!