Query psy11205
Match_columns 315
No_of_seqs 37 out of 39
Neff 3.2
Searched_HMMs 46136
Date Fri Aug 16 20:50:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11205.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11205hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1819|consensus 100.0 1E-101 3E-106 768.0 23.0 283 8-290 2-289 (990)
2 PF14819 QueF_N: Nitrile reduc 43.3 7.3 0.00016 33.5 -0.2 29 214-242 2-30 (110)
3 COG0544 Tig FKBP-type peptidyl 43.3 29 0.00063 35.4 4.0 135 70-216 210-363 (441)
4 PF11663 Toxin_YhaV: Toxin wit 42.3 45 0.00099 29.8 4.5 64 17-95 10-76 (140)
5 COG2904 Uncharacterized protei 38.3 10 0.00022 33.7 -0.1 27 213-239 20-46 (137)
6 PF05713 MobC: Bacterial mobil 36.8 1E+02 0.0022 21.8 4.9 35 18-54 11-45 (48)
7 PF10237 N6-adenineMlase: Prob 31.5 23 0.00051 31.5 1.1 20 9-28 2-21 (162)
8 TIGR02444 conserved hypothetic 30.0 1.6E+02 0.0035 25.0 5.8 71 82-162 24-100 (116)
9 PF08389 Xpo1: Exportin 1-like 29.7 1.5E+02 0.0033 23.5 5.4 49 19-67 49-98 (148)
10 smart00511 ORANGE Orange domai 28.2 1.6E+02 0.0034 20.5 4.6 32 20-52 12-43 (45)
11 PF07527 Hairy_orange: Hairy O 28.1 1.3E+02 0.0028 20.9 4.2 31 19-50 11-41 (43)
12 PF00512 HisKA: His Kinase A ( 27.6 2E+02 0.0044 20.2 5.3 33 30-62 30-62 (68)
13 PF08653 DASH_Dam1: DASH compl 26.3 2.1E+02 0.0046 22.0 5.3 41 112-170 2-42 (58)
14 PF12720 DUF3807: Protein of u 25.9 1.9E+02 0.0041 26.4 5.8 39 233-282 38-77 (172)
15 KOG0534|consensus 25.3 20 0.00044 34.9 -0.4 58 155-233 202-260 (286)
16 TIGR03474 incFII_RepA incFII f 24.7 38 0.00083 33.1 1.3 80 151-247 22-109 (275)
17 smart00595 MADF subfamily of S 23.3 2.6E+02 0.0055 21.2 5.4 40 15-59 26-65 (89)
18 PHA03047 IMV membrane receptor 22.9 41 0.00088 25.8 0.9 27 213-239 1-27 (53)
19 PF06269 DUF1029: Protein of u 21.9 45 0.00098 25.6 0.9 28 213-240 1-28 (53)
20 PHA02724 hydrophobic IMV membr 21.9 44 0.00095 25.7 0.9 27 213-239 1-27 (53)
21 cd06845 Bcl-2_like Apoptosis r 21.6 1.1E+02 0.0024 25.8 3.3 46 17-66 37-82 (144)
22 PHA02679 ORF091 IMV membrane p 21.3 46 0.001 25.5 0.9 28 213-240 1-28 (53)
No 1
>KOG1819|consensus
Probab=100.00 E-value=1.5e-101 Score=767.98 Aligned_cols=283 Identities=54% Similarity=0.904 Sum_probs=278.1
Q ss_pred HHHHHhhhhHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhcC--CCcccccccccCChhhhhhc
Q psy11205 8 LLAQFFYADEALTFVAAELDSFDGREDPERCTALVNHLRQCQDNVLNICNKIMDVWIP--DDRANRDFRVKFPDDVMQDN 85 (315)
Q Consensus 8 lLAqFy~ADe~l~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd~vL~i~~~im~e~ip--~~Ra~RdfrvKFPeev~~dn 85 (315)
.||.|||||..||.++.||+++|||.||+||..||.+||..||+||+||..|+-.++| ++||+|+||+||||+|+|||
T Consensus 2 elarfyyadsalndiasel~gedgrrdpdrcnalvtrlrvaqdrvlhiitemlihlypreqdracrafrakfpdeil~dn 81 (990)
T KOG1819|consen 2 ELARFYYADSALNDIASELDGEDGRRDPDRCNALVTRLRVAQDRVLHIITEMLIHLYPREQDRACRAFRAKFPDEILHDN 81 (990)
T ss_pred cchhhhhhhhhhhhHHHHhcccccccCchhhhhHHHHhhhhhhhHHHHHHHHHhhcCchhhhhHHHHHHhcCcHHHhhhc
Confidence 5899999999999999999999999999999999999999999999999999999999 79999999999999999999
Q ss_pred cccchHHHHHHhhccCcccchhhhhhhccHHHHHHHHHHHHHHHHHHHHhhhCCCCCCC---cccccccHHHHHHHHHHH
Q psy11205 86 LAGQLWFGAECLAAGSSIMNREAESAAMRPLAKALTKSLENVRNLLREYSLRSTHPSDI---FFTDDLYIDRIFESLKVF 162 (315)
Q Consensus 86 l~g~lwFgAEcLaAGs~I~n~E~es~~lRPLA~~L~~SLe~vR~~Lr~qsL~~p~~~~~---~~~~~~y~~~l~~~L~~F 162 (315)
|+||||||||||+|||+|++||.||..|||||+++||+|+.||.+||+|||+++.|++. ++.++.+.+.|++.|++|
T Consensus 82 lagqlwfgaeclaags~i~~~etes~e~rplakavtk~l~~~r~llkdqclknnvpnsktlhldlndat~eqi~e~lkif 161 (990)
T KOG1819|consen 82 LAGQLWFGAECLAAGSNIIDHETESDEIRPLAKAVTKQLDFLRDLLKDQCLKNNVPNSKTLHLDLNDATNEQIKENLKIF 161 (990)
T ss_pred cccchhhhhHHHhcccccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCCcccccccCchhhccHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999877755 788899999999999999
Q ss_pred HhhhhhhhhcceeeccccCChHhHHHHHHHHHHHHHHHHHHHHcCCccHHhhhhcCCcchhhhhhHHHHhhcccCCCCCC
Q psy11205 163 DRLLAEFELGYVTAMVPVKTAKEYEMQQLVMVLFSETLQRALRVGLLSQEMIEAYEPSLMFTIPRLAIVTGLLVYPSGPL 242 (315)
Q Consensus 163 D~lfaEFElsYvsamv~vKs~~e~~~Qq~v~VLf~ETl~RAl~~glltqe~Id~ydP~lMftIPRLAIv~GLli~pdGpl 242 (315)
|+||||||++|||+||||||..||++|++|+|||+||+++||+.|+|+|+|||.|||++||+|||||||+||++|..|||
T Consensus 162 dklfaefel~yvsamv~vksrhe~dmq~~i~vlfsetlq~alki~lidqdlida~dpglmfaiprlaivagl~vyakg~l 241 (990)
T KOG1819|consen 162 DKLFAEFELQYVSAMVPVKSRHEHDMQLDIAVLFSETLQLALKIDLIDQDLIDACDPGLMFAIPRLAIVAGLLVYAKGAL 241 (990)
T ss_pred HHHHHHHHHHhhhhcccccchhhhhhhhHHHHHHHHHHHHHHHhhhhhHHHHhhcCccceeechhHHHhhhhheeecCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCchhhhhhchhhHHHHHHHHHHHhhcCHHHHHHHHHHhccCCCC
Q psy11205 243 SLDKEPSEMSEMFRPFRTLLGKIREVLWRLNEDEIARLERLLCSVDEP 290 (315)
Q Consensus 243 n~d~~~~~~s~mFrpf~~lL~kIr~lL~~Ls~~EL~~LEr~LC~~e~~ 290 (315)
|+|.|++++|+||||||++|.|||+||+.|+..||++|||+||.+|+.
T Consensus 242 nmdmp~d~lsemfrpfrsilikirdllr~lnnqel~klekllc~~edi 289 (990)
T KOG1819|consen 242 NMDMPADNLSEMFRPFRSILIKIRDLLRILNNQELTKLEKLLCKGEDI 289 (990)
T ss_pred cCCCchHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHhhcCccc
Confidence 999999999999999999999999999999999999999999999885
No 2
>PF14819 QueF_N: Nitrile reductase, 7-cyano-7-deazaguanine-reductase N-term; PDB: 3UXV_C 3RJB_A 3BP1_D 3RZP_B 3RJ4_A 3UXJ_C 3S19_D 3RZQ_B.
Probab=43.34 E-value=7.3 Score=33.49 Aligned_cols=29 Identities=34% Similarity=0.566 Sum_probs=12.4
Q ss_pred hhhcCCcchhhhhhHHHHhhcccCCCCCC
Q psy11205 214 IEAYEPSLMFTIPRLAIVTGLLVYPSGPL 242 (315)
Q Consensus 214 Id~ydP~lMftIPRLAIv~GLli~pdGpl 242 (315)
.+.|||.++|.|||-.-=.-+-+.+.-|+
T Consensus 2 ~~~Ydp~lL~pIpR~~~R~~lg~~~~lpF 30 (110)
T PF14819_consen 2 PDQYDPSLLFPIPRSLNRDELGINANLPF 30 (110)
T ss_dssp -----GGG--EEETHHHHHHTT--SS-S-
T ss_pred CCccChhhccccccccCHhhcCCCCCCCc
Confidence 36899999999999765444444434443
No 3
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=43.31 E-value=29 Score=35.43 Aligned_cols=135 Identities=21% Similarity=0.309 Sum_probs=75.7
Q ss_pred cccccccCChhhhhhcccc-chHHHHHHhhccCcccchhhhhhhccH----HHHHHH-H-HHHHHHHHHHHHhhhCCCC-
Q psy11205 70 NRDFRVKFPDDVMQDNLAG-QLWFGAECLAAGSSIMNREAESAAMRP----LAKALT-K-SLENVRNLLREYSLRSTHP- 141 (315)
Q Consensus 70 ~RdfrvKFPeev~~dnl~g-~lwFgAEcLaAGs~I~n~E~es~~lRP----LA~~L~-~-SLe~vR~~Lr~qsL~~p~~- 141 (315)
.+++-|+||++-+.++|+| ..-|- |-.+|.....+-. .|+.+. . ||+.+|..+|.|--+.-.-
T Consensus 210 ~k~i~vtFP~dy~a~~LaGK~a~F~---------V~vkeVk~~elpEldDEfAk~~~~~~tL~~Lk~~~r~~le~~~~~~ 280 (441)
T COG0544 210 EKDIKVTFPEDYHAEELAGKEATFK---------VKVKEVKKRELPELDDEFAKKLGEEDTLEELKEKLRKNLERELKEA 280 (441)
T ss_pred eeEEEEEcccccchhHhCCCceEEE---------EEEEEEeecCCCCCCHHHHHhcCccccHHHHHHHHHHHHHHHHHHH
Confidence 3577799999999999999 33332 3333333333332 456652 3 6889999888873321100
Q ss_pred --C----CCcccc-----cccHHHHHHHHHHHHhhhhhhhhcceeeccccCChHhHHHHHHHHHHHHHHHHHHHHcCCcc
Q psy11205 142 --S----DIFFTD-----DLYIDRIFESLKVFDRLLAEFELGYVTAMVPVKTAKEYEMQQLVMVLFSETLQRALRVGLLS 210 (315)
Q Consensus 142 --~----~~~~~~-----~~y~~~l~~~L~~FD~lfaEFElsYvsamv~vKs~~e~~~Qq~v~VLf~ETl~RAl~~gllt 210 (315)
. -.++.+ ...|+.|.+ .++|++|.++...+-....+. -.......+.+.--|-+-..+.++.|++.
T Consensus 281 ~~~~~~~~~~~~L~e~~~~dlP~sli~--~E~~~l~~~~~~~l~~~~~~~-~~~~~~~~~~~~e~~~~~A~krVk~~Lil 357 (441)
T COG0544 281 TLEKRKEQLLDALVEANDFDLPESLVE--AEIDNLLKQALQQLQQQGIDS-LEASGESEEELREEFKEEAEKRVKLGLLL 357 (441)
T ss_pred HHHHHHHHHHHHHHhhcCCCCCHHHHH--HHHHHHHHHHHHHHHhcccch-hhhccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 000000 022333322 367888888776653333322 11111135666777788888888888887
Q ss_pred HHhhhh
Q psy11205 211 QEMIEA 216 (315)
Q Consensus 211 qe~Id~ 216 (315)
.+..+.
T Consensus 358 ~~ia~~ 363 (441)
T COG0544 358 EEIAKE 363 (441)
T ss_pred HHHHHH
Confidence 766554
No 4
>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF. The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].
Probab=42.31 E-value=45 Score=29.84 Aligned_cols=64 Identities=28% Similarity=0.514 Sum_probs=48.4
Q ss_pred HHHHHHHHHhhhcCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccccccCChhhhhhcccc---chHHH
Q psy11205 17 EALTFVAAELDSFDGREDPERCTALVNHLRQCQDNVLNICNKIMDVWIPDDRANRDFRVKFPDDVMQDNLAG---QLWFG 93 (315)
Q Consensus 17 e~l~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd~vL~i~~~im~e~ip~~Ra~RdfrvKFPeev~~dnl~g---~lwFg 93 (315)
++|.+.+++...+-. +||+.+. +...-++|.-|.++|-+.||.|=..-+|| |.|-.| -=||-
T Consensus 10 ~ql~~L~~~Ve~l~~-~dP~~y~------~~~~~KlLaai~~li~e~IP~DP~~~~yr--------qG~TLG~~~khW~R 74 (140)
T PF11663_consen 10 EQLEALIAAVERLRA-KDPEGYR------KKPNTKLLAAISKLIFEVIPADPTRPEYR--------QGNTLGDEYKHWFR 74 (140)
T ss_pred HHHHHHHHHHHHHHh-cChHhhh------hchHHHHHHHHHHHHHhhccCCCCchHhh--------CCCCCcccccchhh
Confidence 566666666666555 6998775 34567899999999999999999988888 777665 35776
Q ss_pred HH
Q psy11205 94 AE 95 (315)
Q Consensus 94 AE 95 (315)
|-
T Consensus 75 aK 76 (140)
T PF11663_consen 75 AK 76 (140)
T ss_pred hc
Confidence 64
No 5
>COG2904 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.26 E-value=10 Score=33.67 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=20.3
Q ss_pred hhhhcCCcchhhhhhHHHHhhcccCCC
Q psy11205 213 MIEAYEPSLMFTIPRLAIVTGLLVYPS 239 (315)
Q Consensus 213 ~Id~ydP~lMftIPRLAIv~GLli~pd 239 (315)
=-+.|||+++|.|||-+=--+|-+.++
T Consensus 20 Y~~~YD~sLL~pvpR~~nR~~LGl~~~ 46 (137)
T COG2904 20 YADQYDPSLLQPVPRSLNRDPLGLTAN 46 (137)
T ss_pred cccccChhHhccCccccCccccccccC
Confidence 357899999999999765555555555
No 6
>PF05713 MobC: Bacterial mobilisation protein (MobC); InterPro: IPR008687 This family consists of several bacterial MobC-like, mobilisation proteins. MobC proteins belong to the group of relaxases. Together with MobA and MobB they bind to a single cis-active site of a mobilising plasmid, the origin of transfer (oriT) region []. The absence of MobC has several different effects on oriT DNA. Site- and strand-specific nicking by MobA protein is severely reduced, accounting for the lower frequency of mobilisation. The localised DNA strand separation required for this nicking is less affected, but becomes more sensitive to the level of active DNA gyrase in the cell. In addition, strand separation is not efficiently extended through the region containing the nick site. These effects suggest a model in which MobC acts as a molecular wedge for the relaxosome-induced melting of oriT DNA. The effect of MobC on strand separation may be partially complemented by the helical distortion induced by supercoiling. However, MobC extends the melted region through the nick site, thus providing the single-stranded substrate required for cleavage by MobA [].
Probab=36.78 E-value=1e+02 Score=21.80 Aligned_cols=35 Identities=23% Similarity=0.413 Sum_probs=28.4
Q ss_pred HHHHHHHHhhhcCCCCChhHHHHHHHHHHHHHHHHHH
Q psy11205 18 ALTFVAAELDSFDGREDPERCTALVNHLRQCQDNVLN 54 (315)
Q Consensus 18 ~l~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd~vL~ 54 (315)
-+||+|+=+.+ |..+++.+..++.+|+..++.+-.
T Consensus 11 NlNQiAk~~N~--~~~~~~~~~~~~~~L~~i~~~L~~ 45 (48)
T PF05713_consen 11 NLNQIAKHANS--GQVDEQEYEKLIEELREIEKELKE 45 (48)
T ss_pred cHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999 888999999888888876665533
No 7
>PF10237 N6-adenineMlase: Probable N6-adenine methyltransferase; InterPro: IPR019369 This family of proteins, which are of approximately 200 residues in length, contain a highly conserved Glu-Phe-Trp (QFW) motif close to the N terminus and an Asp/Asn-Pro-Pro-Tyr/Phe motif in the centre. This latter motif is characteristic of N-6 adenine-specific DNA methylases and could be involved in substrate binding or in the catalytic activity (, ).
Probab=31.54 E-value=23 Score=31.50 Aligned_cols=20 Identities=50% Similarity=0.826 Sum_probs=19.2
Q ss_pred HHHHhhhhHHHHHHHHHhhh
Q psy11205 9 LAQFFYADEALTFVAAELDS 28 (315)
Q Consensus 9 LAqFy~ADe~l~~v~~ELds 28 (315)
||||+|.|+..+.+++|+..
T Consensus 2 lsQfwYs~~T~~~l~~~l~~ 21 (162)
T PF10237_consen 2 LSQFWYSDETAEFLARELLD 21 (162)
T ss_pred ccccccCHHHHHHHHHHHHH
Confidence 79999999999999999988
No 8
>TIGR02444 conserved hypothetical protein TIGR02444. Members of this family are bacterial hypothetical proteins, about 160 amino acids in length, found in various Proteobacteria, including members of the genera Pseudomonas and Vibrio. The C-terminal region is poorly conserved and is not included in the model.
Probab=29.97 E-value=1.6e+02 Score=25.04 Aligned_cols=71 Identities=17% Similarity=0.230 Sum_probs=46.0
Q ss_pred hhhccccc---hHHHHHHhhccCcccchhh-h--hhhccHHHHHHHHHHHHHHHHHHHHhhhCCCCCCCcccccccHHHH
Q psy11205 82 MQDNLAGQ---LWFGAECLAAGSSIMNREA-E--SAAMRPLAKALTKSLENVRNLLREYSLRSTHPSDIFFTDDLYIDRI 155 (315)
Q Consensus 82 ~~dnl~g~---lwFgAEcLaAGs~I~n~E~-e--s~~lRPLA~~L~~SLe~vR~~Lr~qsL~~p~~~~~~~~~~~y~~~l 155 (315)
+||++++- ++|++=+=..|-.+ +.+. . ...+.|--..++..|-.+|..+|.+.-.+|. .-.+.+
T Consensus 24 LQd~~g~nVnlLL~~~Wl~~~g~~l-~~~~~~~l~~~~~~w~~~vv~PlR~lRr~~K~~~~~~~~---------~~~~~l 93 (116)
T TIGR02444 24 LQDNFGGNVNLLLLFLWLAERGLAF-DEQEIAQVQACAGTWSEDVVRPLRAVRRQLKQHLPDTPE---------EINAAL 93 (116)
T ss_pred HHHHHCcCHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcc---------hhHHHH
Confidence 68887772 34444444445443 3333 2 2456777889999999999999877444444 456778
Q ss_pred HHHHHHH
Q psy11205 156 FESLKVF 162 (315)
Q Consensus 156 ~~~L~~F 162 (315)
++.+|.+
T Consensus 94 r~~lk~~ 100 (116)
T TIGR02444 94 RAAVKAL 100 (116)
T ss_pred HHHHHHH
Confidence 8888765
No 9
>PF08389 Xpo1: Exportin 1-like protein; InterPro: IPR013598 The exchange of macromolecules between the nucleus and cytoplasm takes place through nuclear pore complexes within the nuclear membrane. Active transport of large molecules through these pore complexes require carrier proteins, called karyopherins (importins and exportins), which shuttle between the two compartments. This domain is found close to the N terminus of yeast exportin 1 (Xpo1, Crm1, P14068 from SWISSPROT), as well as adjacent to the N-terminal domain of importin-beta (IPR001494 from INTERPRO). Exportin 1 is a nuclear export receptor that translocates proteins out of the nucleus; it interacts with leucine-rich nuclear export signal (NES) sequences in proteins to be transported, as well as with RanGTP [, ]. Importin-beta is a nuclear import receptor that translocates proteins into the nucleus; it interacts with RanGTP and importin-alpha, the latter binding with the nuclear localisation signal (NLS) sequences in proteins to be transported []. More information about these proteins can be found at Protein of the Month: Importins [].; PDB: 3IBV_A 3ICQ_U 3M1I_C 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 2XWU_B 2X19_B ....
Probab=29.68 E-value=1.5e+02 Score=23.49 Aligned_cols=49 Identities=22% Similarity=0.362 Sum_probs=38.6
Q ss_pred HHHHHHHhhhc-CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q psy11205 19 LTFVAAELDSF-DGREDPERCTALVNHLRQCQDNVLNICNKIMDVWIPDD 67 (315)
Q Consensus 19 l~~v~~ELds~-Dgr~dp~rc~~LvnqLr~~Qd~vL~i~~~im~e~ip~~ 67 (315)
+..+..|+.++ ......+|...+.+.++.+-..+++++.++++......
T Consensus 49 L~~l~eEi~~~~~~~~~~~r~~~l~~~l~~~~~~i~~~l~~~l~~~~~~~ 98 (148)
T PF08389_consen 49 LRILPEEITDFRRSSLSQERRRELKDALRSNSPDILEILSQILSQSSSEA 98 (148)
T ss_dssp HHHHHHHHHTSHCCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHCC
T ss_pred HHHHHHHHHhhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 35566777664 35567899999999999999999999999988776544
No 10
>smart00511 ORANGE Orange domain. This domain confers specificity among members of the Hairy/E(SPL) family.
Probab=28.25 E-value=1.6e+02 Score=20.54 Aligned_cols=32 Identities=25% Similarity=0.417 Sum_probs=21.7
Q ss_pred HHHHHHhhhcCCCCChhHHHHHHHHHHHHHHHH
Q psy11205 20 TFVAAELDSFDGREDPERCTALVNHLRQCQDNV 52 (315)
Q Consensus 20 ~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd~v 52 (315)
+.|++=|.+.++ .|++.+..|+++|..+...+
T Consensus 12 ~Ev~~fLs~~~~-~~~~~~~~Ll~HL~~~~~~~ 43 (45)
T smart00511 12 NEVSRFLSQLPG-TDPDVRARLLSHLQTHLNQL 43 (45)
T ss_pred HHHHHHHhcCCC-CChHHHHHHHHHHHHHHHhh
Confidence 334444444455 57899999999998876543
No 11
>PF07527 Hairy_orange: Hairy Orange; InterPro: IPR003650 This domain confers specificity among members of the Hairy/E(SPL) family. HES-2 (hairy and enhancer of split 2) is a transcription factor, and the hairy protein is a pair-rule protein that regulates embryonic segmentation and adult bristle patterning. These proteins are transcriptional repressors of genes that require the BHLH protein for their transcription.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DB7_A.
Probab=28.14 E-value=1.3e+02 Score=20.92 Aligned_cols=31 Identities=35% Similarity=0.566 Sum_probs=19.6
Q ss_pred HHHHHHHhhhcCCCCChhHHHHHHHHHHHHHH
Q psy11205 19 LTFVAAELDSFDGREDPERCTALVNHLRQCQD 50 (315)
Q Consensus 19 l~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd 50 (315)
++.|++=|...+| .||+.+..|+++|..+-.
T Consensus 11 ~~Ev~~fL~~~~~-~~~~~~~rLl~HL~~~~~ 41 (43)
T PF07527_consen 11 LNEVSRFLSSVEG-VDPGVRARLLSHLQSCLN 41 (43)
T ss_dssp HHHHHHHHHHTS----THHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCC-CChHHHHHHHHHHHHHhc
Confidence 3444444444455 478999999999988754
No 12
>PF00512 HisKA: His Kinase A (phospho-acceptor) domain; InterPro: IPR003661 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the dimerisation and phosphoacceptor domain found in histidine kinases. It has been found in bacterial sensor protein/histidine kinases. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms []. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and the phosphotransfer from aspartyl phosphate back to ADP or to water []. The homodimeric domain includes the site of histidine autophosphorylation and phosphate transfer reactions. The structure of the homodimeric domain comprises a closed, four-helical bundle with a left-handed twist, formed by two identical alpha-hairpin subunits.; GO: 0000155 two-component sensor activity, 0007165 signal transduction, 0016020 membrane; PDB: 3DGE_A 2C2A_A 3A0R_A 4EW8_A 2LFS_B 2LFR_B 3JZ3_A 1JOY_B 3ZRW_C 3ZRV_A ....
Probab=27.63 E-value=2e+02 Score=20.23 Aligned_cols=33 Identities=24% Similarity=0.520 Sum_probs=27.6
Q ss_pred CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy11205 30 DGREDPERCTALVNHLRQCQDNVLNICNKIMDV 62 (315)
Q Consensus 30 Dgr~dp~rc~~LvnqLr~~Qd~vL~i~~~im~e 62 (315)
++..+++.....+..++.+-+++..+++.+.+-
T Consensus 30 ~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~ 62 (68)
T PF00512_consen 30 DSDLDPEQLREYLDRIRSAADRLNELINDLLDF 62 (68)
T ss_dssp SSCC-HHHCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777778999999999999999999999763
No 13
>PF08653 DASH_Dam1: DASH complex subunit Dam1; InterPro: IPR013962 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=26.26 E-value=2.1e+02 Score=22.02 Aligned_cols=41 Identities=27% Similarity=0.438 Sum_probs=31.7
Q ss_pred hccHHHHHHHHHHHHHHHHHHHHhhhCCCCCCCcccccccHHHHHHHHHHHHhhhhhhh
Q psy11205 112 AMRPLAKALTKSLENVRNLLREYSLRSTHPSDIFFTDDLYIDRIFESLKVFDRLLAEFE 170 (315)
Q Consensus 112 ~lRPLA~~L~~SLe~vR~~Lr~qsL~~p~~~~~~~~~~~y~~~l~~~L~~FD~lfaEFE 170 (315)
.|.|.-++|+.|++.+..-+. ....|+++|..|-..||-|=
T Consensus 2 ~l~~~f~eL~D~~~~L~~n~~------------------~L~~ihesL~~FNESFasfL 42 (58)
T PF08653_consen 2 FLEPQFAELSDSMETLDKNME------------------QLNQIHESLSDFNESFASFL 42 (58)
T ss_pred chHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHHH
Confidence 466777888888888766553 35678999999999998773
No 14
>PF12720 DUF3807: Protein of unknown function (DUF3807); InterPro: IPR024526 This is a family of conserved fungal proteins of unknown function.
Probab=25.92 E-value=1.9e+02 Score=26.44 Aligned_cols=39 Identities=31% Similarity=0.539 Sum_probs=27.1
Q ss_pred hcccCCCCCCCCCCCc-hhhhhhchhhHHHHHHHHHHHhhcCHHHHHHHHH
Q psy11205 233 GLLVYPSGPLSLDKEP-SEMSEMFRPFRTLLGKIREVLWRLNEDEIARLER 282 (315)
Q Consensus 233 GLli~pdGpln~d~~~-~~~s~mFrpf~~lL~kIr~lL~~Ls~~EL~~LEr 282 (315)
||-+|||| +-|-. ++==+||| ||.|+.|+ + ++|+...++
T Consensus 38 gLGYYpDG---VKRTLTDEQI~IFR--HSEI~aL~---R---ere~~~e~~ 77 (172)
T PF12720_consen 38 GLGYYPDG---VKRTLTDEQIEIFR--HSEIQALR---R---ERELREEAE 77 (172)
T ss_pred CcccCCCC---CcccccHHHHHHHH--HHHHHHHH---H---HHHHHHHhh
Confidence 89999999 77666 55668999 56665443 3 566665555
No 15
>KOG0534|consensus
Probab=25.33 E-value=20 Score=34.86 Aligned_cols=58 Identities=22% Similarity=0.352 Sum_probs=40.8
Q ss_pred HHHHHHHHHhhhh-hhhhcceeeccccCChHhHHHHHHHHHHHHHHHHHHHHcCCccHHhhhhcCCcchhhhhhHHHHhh
Q psy11205 155 IFESLKVFDRLLA-EFELGYVTAMVPVKTAKEYEMQQLVMVLFSETLQRALRVGLLSQEMIEAYEPSLMFTIPRLAIVTG 233 (315)
Q Consensus 155 l~~~L~~FD~lfa-EFElsYvsamv~vKs~~e~~~Qq~v~VLf~ETl~RAl~~glltqe~Id~ydP~lMftIPRLAIv~G 233 (315)
+|+-|..+-.-+- .|...|+ |..+.+ .|+...|+||.+||..+-|.---. +++++|||
T Consensus 202 lr~eL~~la~~~p~rf~~~y~-----v~~~~~---------------~w~~~~g~It~~~i~~~l~~~~~~-~~~~liCG 260 (286)
T KOG0534|consen 202 LREELEELASKYPERFKVWYV-----VDQPPE---------------IWDGSVGFITKDLIKEHLPPPKEG-ETLVLICG 260 (286)
T ss_pred hHHHHHHHHhhCcceEEEEEE-----EcCCcc---------------cccCccCccCHHHHHhhCCCCCCC-CeEEEEEC
Confidence 4444544444444 6677775 333332 378999999999999999887666 79999998
No 16
>TIGR03474 incFII_RepA incFII family plasmid replication initiator RepA. Members of this protein are the plasmid replication initiator RepA of incFII (plasmid incompatibility group F-II) plasmids. R1 and R100 are plasmids in this group. Immediately upstream of repA is found tap, a leader peptide of about 24 amino acids, often not assigned as a gene in annotated plasmid sequences. Note that other, non-homologous plasmid replication proteins share the gene symbol (repA) and similar names (plasmid replication protein RepA).
Probab=24.71 E-value=38 Score=33.09 Aligned_cols=80 Identities=23% Similarity=0.264 Sum_probs=57.0
Q ss_pred cHHHHHHHHH----HHHhhhhhhhhcceeeccccCChHhHHHHHHHHHHHHHHHHHHHHcCCccHHhhhhcCCc---chh
Q psy11205 151 YIDRIFESLK----VFDRLLAEFELGYVTAMVPVKTAKEYEMQQLVMVLFSETLQRALRVGLLSQEMIEAYEPS---LMF 223 (315)
Q Consensus 151 y~~~l~~~L~----~FD~lfaEFElsYvsamv~vKs~~e~~~Qq~v~VLf~ETl~RAl~~glltqe~Id~ydP~---lMf 223 (315)
+..++-..-. +|| ||-.|+.|.+...--+.+-++ ||-..+-+.|.|...|||. +.-
T Consensus 22 Fi~~~MkkA~gft~~~d--var~el~y~~~~~R~R~ln~h---------------RarAi~A~lqAMlyh~Ni~S~~V~a 84 (275)
T TIGR03474 22 FCRKLMAKAEGFTSRFD--FSIHVAFARSLGLRHRMPPLL---------------RRRAIDALLQGMCFHYDPLANRVQR 84 (275)
T ss_pred HHHHHHHHhhcccccch--HHHHHHHHhhcccccccccHH---------------HHHHHHHHHHHHHHHcCchhhHHHH
Confidence 4455544445 555 677889998844444555555 5666677899999999996 788
Q ss_pred hhhhHHHHhhcccCC-CCCCCCCCC
Q psy11205 224 TIPRLAIVTGLLVYP-SGPLSLDKE 247 (315)
Q Consensus 224 tIPRLAIv~GLli~p-dGpln~d~~ 247 (315)
+|--||+-|||...+ .|=.++.+-
T Consensus 85 SIeqLadeCGLST~S~aGnkSITRA 109 (275)
T TIGR03474 85 SITNLAIECGLATESKSGNLSITRA 109 (275)
T ss_pred HHHHHHHHhCCcccCcCCCchhHHH
Confidence 999999999998755 665555533
No 17
>smart00595 MADF subfamily of SANT domain.
Probab=23.29 E-value=2.6e+02 Score=21.17 Aligned_cols=40 Identities=23% Similarity=0.186 Sum_probs=32.4
Q ss_pred hhHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11205 15 ADEALTFVAAELDSFDGREDPERCTALVNHLRQCQDNVLNICNKI 59 (315)
Q Consensus 15 ADe~l~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd~vL~i~~~i 59 (315)
.++.|.+|+.+|.. +++.|..-.+.||.+=.+.+.-++.-
T Consensus 26 r~~aW~~Ia~~l~~-----~~~~~~~kw~~LR~~y~~e~~r~~~~ 65 (89)
T smart00595 26 KRKAWEEIAEELGL-----SVEECKKRWKNLRDRYRRELKRLQNG 65 (89)
T ss_pred HHHHHHHHHHHHCc-----CHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47799999999977 88999999999998766666555443
No 18
>PHA03047 IMV membrane receptor-like protein; Provisional
Probab=22.94 E-value=41 Score=25.83 Aligned_cols=27 Identities=26% Similarity=0.524 Sum_probs=21.3
Q ss_pred hhhhcCCcchhhhhhHHHHhhcccCCC
Q psy11205 213 MIEAYEPSLMFTIPRLAIVTGLLVYPS 239 (315)
Q Consensus 213 ~Id~ydP~lMftIPRLAIv~GLli~pd 239 (315)
||.+|||.+++.|==.|.+........
T Consensus 1 MItnYeP~iL~~i~~~al~~N~~~S~~ 27 (53)
T PHA03047 1 MITNYEPLILLGIICIALLANIKLSSK 27 (53)
T ss_pred CCcccccHHHHHHHHHHHHHHeeeccc
Confidence 789999999999887777776655444
No 19
>PF06269 DUF1029: Protein of unknown function (DUF1029); InterPro: IPR009372 This entry is represented by Vaccinia virus, A14.5L; it is a family of uncharacterised viral proteins.
Probab=21.93 E-value=45 Score=25.58 Aligned_cols=28 Identities=25% Similarity=0.433 Sum_probs=22.1
Q ss_pred hhhhcCCcchhhhhhHHHHhhcccCCCC
Q psy11205 213 MIEAYEPSLMFTIPRLAIVTGLLVYPSG 240 (315)
Q Consensus 213 ~Id~ydP~lMftIPRLAIv~GLli~pdG 240 (315)
||.+|||.+++.|==.|.+.......+-
T Consensus 1 MItnYeP~iL~~i~~~al~~N~~~S~~~ 28 (53)
T PF06269_consen 1 MITNYEPLILLGIICAALLANFKMSSKT 28 (53)
T ss_pred CCcccccHHHHHHHHHHHHHHeeecccc
Confidence 7899999999998888877766655443
No 20
>PHA02724 hydrophobic IMV membrane protein; Provisional
Probab=21.91 E-value=44 Score=25.66 Aligned_cols=27 Identities=26% Similarity=0.490 Sum_probs=21.3
Q ss_pred hhhhcCCcchhhhhhHHHHhhcccCCC
Q psy11205 213 MIEAYEPSLMFTIPRLAIVTGLLVYPS 239 (315)
Q Consensus 213 ~Id~ydP~lMftIPRLAIv~GLli~pd 239 (315)
||.+|||.+++.|==.|.+........
T Consensus 1 MItnYeP~iL~~i~~~al~~N~~~S~~ 27 (53)
T PHA02724 1 MISNYEPLLLLVITCCVLLFNFTISSK 27 (53)
T ss_pred CCcccccHHHHHHHHHHHHHHeeeccc
Confidence 789999999999887777776655444
No 21
>cd06845 Bcl-2_like Apoptosis regulator proteins of the Bcl-2 family, named after B-cell lymphoma 2. This alignment model spans what have been described as Bcl-2 homology regions BH1, BH2, BH3, and BH4. Many members of this family have an additional C-terminal transmembrane segment. Some homologous proteins, which are not included in this model, may miss either the BH4 (Bax, Bak) or the BH2 (Bcl-X(S)) region, and some appear to only share the BH3 region (Bik, Bim, Bad, Bid, Egl-1). This family is involved in the regulation of the outer mitochondrial membrane's permeability and in promoting or preventing the release of apoptogenic factors, which in turn may trigger apoptosis by activating caspases. Bcl-2 and the closely related Bcl-X(L) are anti-apoptotic key regulators of programmed cell death. They are assumed to function via heterodimeric protein-protein interactions, binding pro-apoptotic proteins such as Bad (BCL2-antagonist of cell death), Bid, and Bim, by specifically interacting
Probab=21.58 E-value=1.1e+02 Score=25.80 Aligned_cols=46 Identities=20% Similarity=0.303 Sum_probs=36.8
Q ss_pred HHHHHHHHHhhhcCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q psy11205 17 EALTFVAAELDSFDGREDPERCTALVNHLRQCQDNVLNICNKIMDVWIPD 66 (315)
Q Consensus 17 e~l~~v~~ELds~Dgr~dp~rc~~LvnqLr~~Qd~vL~i~~~im~e~ip~ 66 (315)
+.|.+++.|+.. +.|.....+.+||+.+.+.....+.+++++.+-+
T Consensus 37 ~~Lr~~~dele~----~~~~~f~~~~~~l~~~~~~~~~~f~~v~~~lf~d 82 (144)
T cd06845 37 ETLRRVGDELEE----KHRRLFENMCRQLNISPDNAYEVFQEVARELFED 82 (144)
T ss_pred HHHHHHHHHHHH----HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHhcc
Confidence 456677777776 7788888999999888888888888888877765
No 22
>PHA02679 ORF091 IMV membrane protein; Provisional
Probab=21.33 E-value=46 Score=25.53 Aligned_cols=28 Identities=21% Similarity=0.479 Sum_probs=22.5
Q ss_pred hhhhcCCcchhhhhhHHHHhhcccCCCC
Q psy11205 213 MIEAYEPSLMFTIPRLAIVTGLLVYPSG 240 (315)
Q Consensus 213 ~Id~ydP~lMftIPRLAIv~GLli~pdG 240 (315)
||..|||.+++.|==.|.+......++-
T Consensus 1 MItnYeP~iL~~i~~~al~~N~~lS~~~ 28 (53)
T PHA02679 1 MVSDYDPAVLVLIFCAALAANFYMPPQT 28 (53)
T ss_pred CCcccccHHHHHHHHHHHHHHeeeCccc
Confidence 7899999999998888877776665544
Done!