Query 029107
Match_columns 199
No_of_seqs 118 out of 175
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 07:37:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029107.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029107hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04729 ASF1_hist_chap: ASF1 100.0 6.3E-82 1.4E-86 518.2 14.2 154 6-159 1-154 (154)
2 KOG3265 Histone chaperone invo 100.0 6.4E-82 1.4E-86 545.9 13.4 157 6-162 1-157 (250)
3 COG5137 Histone chaperone invo 100.0 5.4E-67 1.2E-71 453.6 12.5 172 6-178 1-177 (279)
4 cd00917 PG-PI_TP The phosphati 67.6 56 0.0012 25.3 10.2 83 8-93 11-100 (122)
5 PF02221 E1_DerP2_DerF2: ML do 67.2 24 0.00051 26.7 6.2 81 8-90 14-107 (134)
6 PF14524 Wzt_C: Wzt C-terminal 65.1 6.6 0.00014 29.3 2.7 72 7-84 11-95 (142)
7 smart00737 ML Domain involved 42.5 91 0.002 23.4 5.7 41 8-49 8-48 (118)
8 PF00845 Gemini_BL1: Geminivir 32.1 58 0.0013 29.9 3.7 97 8-116 61-166 (276)
9 PF04809 HupH_C: HupH hydrogen 31.2 64 0.0014 25.7 3.4 25 44-72 72-96 (120)
10 PF11033 ComJ: Competence prot 29.8 73 0.0016 26.1 3.6 34 47-88 79-112 (125)
11 PHA02766 hypothetical protein; 29.7 63 0.0014 23.8 2.9 23 26-48 12-50 (73)
12 PF07495 Y_Y_Y: Y_Y_Y domain; 28.9 99 0.0021 20.5 3.6 27 64-90 30-56 (66)
13 cd00258 GM2-AP GM2 activator p 22.5 2.6E+02 0.0056 23.9 5.7 41 7-47 13-53 (162)
14 PRK00523 hypothetical protein; 20.8 5.1 0.00011 30.0 -4.3 22 114-135 21-42 (72)
15 PRK01844 hypothetical protein; 20.1 5.3 0.00012 29.9 -4.3 22 114-135 20-41 (72)
No 1
>PF04729 ASF1_hist_chap: ASF1 like histone chaperone; InterPro: IPR006818 This family includes the yeast and human ASF1 protein. These proteins have histone chaperone activity []. ASF1 participates in both the replication-dependent and replication-independent pathways. The structure three-dimensional has been determined as a compact immunoglobulin-like beta sandwich fold topped by three helical linkers [].; GO: 0006333 chromatin assembly or disassembly, 0005634 nucleus; PDB: 2YGV_C 1WG3_A 2HUE_A 2IDC_A 4EO5_A 1ROC_A 1TEY_A 2IO5_A 3AAD_D 2IIJ_A ....
Probab=100.00 E-value=6.3e-82 Score=518.20 Aligned_cols=154 Identities=70% Similarity=1.225 Sum_probs=137.7
Q ss_pred cceEEEeeEEEecCCCCCCCCeeEEEEEEEeCCCCCCceEEEEEEecCCCCCCCeeEeeEEecceeceeEEEEEEeCCCC
Q 029107 6 MSTVNIANVTVLDNPAPFLSPFQFEISYECVTPLKDDLEWKLIYVGSAEDETYDQLLESVLVGPVNVGNYRFVLQADPPD 85 (199)
Q Consensus 6 Ms~V~i~~V~VlnNp~~f~~pf~FeItFEcle~L~~dlEWKiiYVGSa~s~~~DQ~Ldsv~VGPi~~G~~kFvfeadpPd 85 (199)
||+|+|+||+|+|||++|.+||+|||+|||+++|++|||||+||||||+|++|||+||+++|||+++|+|||+|+|+|||
T Consensus 1 Ms~V~l~~V~vl~np~~f~~p~~feI~fE~~e~L~~dleWkiiYVgSa~~~~~DQ~Ld~v~vGPi~~G~~kF~~~adpPd 80 (154)
T PF04729_consen 1 MSRVNLTNVEVLNNPAPFTDPFQFEITFECLEPLEDDLEWKIIYVGSAESEEYDQELDSVLVGPIPVGVNKFVFEADPPD 80 (154)
T ss_dssp --SEEEEEEEESSTSEETTS-EEEEEEEEESSE-SS-EEEEEEEESSSSSGGGEEEEEEEEECS-ESEEEEEEEEE----
T ss_pred CCeEEEEEEEEeCCccccCCCEEEEEEEEECccccCCcEEEEEEEecccccCCcEEEeeEEECCCcceeEEEEEEccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCeeeeEEEEEEEEECCeEEEEEEEEeeeccCCcccccCCCCccccceEEEeecCCCCeeeeeeecCC
Q 029107 86 PSKIREEDIIGVTVLLLTCSYLGQEFVRVGYYVNNDYGDEQLREEPPQKVLIDTVQRNILSDKPRVTKFPINFH 159 (199)
Q Consensus 86 ~~kIP~~dilGVTviLlt~sY~~qEFiRVGYYVnneY~d~el~enpP~~p~~dkl~R~Il~~kPRVTrF~I~Wd 159 (199)
+++||.+||+|||||||||||++|||+||||||||+|.|++|+||||.+|+++||+|+||++|||||||+|+||
T Consensus 81 ~~~Ip~~dllGvTvillt~sY~~~EFiRVGYYVnney~d~el~e~pp~~~~~~~l~R~Il~~~PRVTrf~I~Wd 154 (154)
T PF04729_consen 81 PSKIPPEDLLGVTVILLTCSYRGQEFIRVGYYVNNEYPDPELRENPPEKPDIDKLQRNILADKPRVTRFPIKWD 154 (154)
T ss_dssp GGGSSCCHHSEEEEEEEEEEETTEEEEEEEEEEEEEESSHHHHHS-HSS--GGGEEEEEETTSEEEEE-S--TS
T ss_pred hhhCChhhccccEEEEEEEEECCeEEEEEeeEEEeeeCCHHHhhCcCCCcCHHHEEEeeccCCCeEEeeccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998
No 2
>KOG3265 consensus Histone chaperone involved in gene silencing [Transcription; Chromatin structure and dynamics]
Probab=100.00 E-value=6.4e-82 Score=545.92 Aligned_cols=157 Identities=71% Similarity=1.212 Sum_probs=155.4
Q ss_pred cceEEEeeEEEecCCCCCCCCeeEEEEEEEeCCCCCCceEEEEEEecCCCCCCCeeEeeEEecceeceeEEEEEEeCCCC
Q 029107 6 MSTVNIANVTVLDNPAPFLSPFQFEISYECVTPLKDDLEWKLIYVGSAEDETYDQLLESVLVGPVNVGNYRFVLQADPPD 85 (199)
Q Consensus 6 Ms~V~i~~V~VlnNp~~f~~pf~FeItFEcle~L~~dlEWKiiYVGSa~s~~~DQ~Ldsv~VGPi~~G~~kFvfeadpPd 85 (199)
||+|+|+||+||+||++|.+||+|+|||||++.|++||||||||||||+|++|||+|||++|||||+|+|||+|+|||||
T Consensus 1 Ms~v~i~~V~Vl~Npa~F~dPfkFEItFEC~E~Lk~DLEWkliYVGSa~See~DQvLdsilVGPVP~G~~~FVf~AD~Pd 80 (250)
T KOG3265|consen 1 MSKVNILNVEVLDNPAKFVDPFKFEITFECLEELKHDLEWKLIYVGSAESEEYDQVLDSILVGPVPVGRHKFVFQADAPD 80 (250)
T ss_pred CceeeeeeEEEccCccccCCceeEEEEEEEhhhcCCCceEEEEEeeccccchhhhhhhheeeccccccceEEEEecCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCeeeeEEEEEEEEECCeEEEEEEEEeeeccCCcccccCCCCccccceEEEeecCCCCeeeeeeecCCCCC
Q 029107 86 PSKIREEDIIGVTVLLLTCSYLGQEFVRVGYYVNNDYGDEQLREEPPQKVLIDTVQRNILSDKPRVTKFPINFHPEH 162 (199)
Q Consensus 86 ~~kIP~~dilGVTviLlt~sY~~qEFiRVGYYVnneY~d~el~enpP~~p~~dkl~R~Il~~kPRVTrF~I~Wd~~~ 162 (199)
++|||.+|++|||||||||+|++||||||||||||+|++++||||||.+++++||+|+||++|||||||+|.||++.
T Consensus 81 ~~kIP~~d~vGVTviLltC~Y~gQEFIRvGYyVnNeY~~~elrEnpP~k~~idKv~RnIlaekpRvTrF~I~wd~~~ 157 (250)
T KOG3265|consen 81 PSKIPEDDIVGVTVILLTCSYRGQEFIRVGYYVNNEYTEEELRENPPSKPLIDKLQRNILAEKPRVTRFPINWDDED 157 (250)
T ss_pred cccCcccceeeeEEEEEEEEEcCceeEEEEEEecCCCCchhhccCCCCchhHHHHHHHhhccCCceeEeeeeccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999843
No 3
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=100.00 E-value=5.4e-67 Score=453.55 Aligned_cols=172 Identities=50% Similarity=0.914 Sum_probs=163.7
Q ss_pred cceEEEeeEEEecCCCCCCCCeeEEEEEEEeCCCCCCceEEEEEEecCCCCCCCeeEeeEEecceeceeEEEEEEeCCCC
Q 029107 6 MSTVNIANVTVLDNPAPFLSPFQFEISYECVTPLKDDLEWKLIYVGSAEDETYDQLLESVLVGPVNVGNYRFVLQADPPD 85 (199)
Q Consensus 6 Ms~V~i~~V~VlnNp~~f~~pf~FeItFEcle~L~~dlEWKiiYVGSa~s~~~DQ~Ldsv~VGPi~~G~~kFvfeadpPd 85 (199)
||+|+|++|+|||||++|.+||.|+|||||+++|+.|||||++||||+.|.++||+||+++|||||+|++||+|.||||+
T Consensus 1 Msiv~llsi~VlnnpaKf~DPykFeitFeClE~lK~dlEwkltYvgs~~S~~~DQvLd~ilVgPiP~G~nkFvf~ADpP~ 80 (279)
T COG5137 1 MSIVKLLSIEVLNNPAKFGDPYKFEITFECLEELKCDLEWKLTYVGSVHSDENDQVLDEILVGPIPKGKNKFVFDADPPD 80 (279)
T ss_pred CceeeeEEEEeecChhhcCCCeeeEEEEEEhhhhcCCceEEEEEeeccccccchhhhhheeeccccccceeEEeecCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCeeeeEEEEEEEEECCeEEEEEEEEeeeccC-----CcccccCCCCccccceEEEeecCCCCeeeeeeecCCC
Q 029107 86 PSKIREEDIIGVTVLLLTCSYLGQEFVRVGYYVNNDYG-----DEQLREEPPQKVLIDTVQRNILSDKPRVTKFPINFHP 160 (199)
Q Consensus 86 ~~kIP~~dilGVTviLlt~sY~~qEFiRVGYYVnneY~-----d~el~enpP~~p~~dkl~R~Il~~kPRVTrF~I~Wd~ 160 (199)
..+||.++++|||+|||+|+|++|||+||||||||+|. ..+++|+|+.+.+.+++.|+||++|||||||.|-||+
T Consensus 81 v~liPlse~~gvTvILlsc~Y~g~eFvRvGYyVnney~gi~~~e~~d~E~p~~kvd~~~v~r~ilaEkprvtrfnIvwDn 160 (279)
T COG5137 81 VNLIPLSEMFGVTVILLSCRYKGQEFVRVGYYVNNEYPGITKLEKSDVEEPSEKVDEEDVEREILAEKPRVTRFNIVWDN 160 (279)
T ss_pred ccccchhhhhceeEEEEEEeecCceeEEEEEEeccCCcchhhhhhhhhcCCchhcCHHHHHHHHhccCCcceeeeeEecC
Confidence 99999999999999999999999999999999999999 6778899999999999999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 029107 161 EHAESGEEPPPPPHHPAE 178 (199)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~ 178 (199)
+.. ...+||.||.++-.
T Consensus 161 ~~d-~d~apP~qpdvd~E 177 (279)
T COG5137 161 DED-NDEAPPAQPDVDNE 177 (279)
T ss_pred Ccc-cccCCCCCCCCCch
Confidence 664 34566777776644
No 4
>cd00917 PG-PI_TP The phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP) has been shown to bind phosphatidylglycerol and phosphatidylinositol, but the biological significance of this is still obscure. These proteins belong to the ML domain family.
Probab=67.62 E-value=56 Score=25.32 Aligned_cols=83 Identities=23% Similarity=0.237 Sum_probs=54.6
Q ss_pred eEEEeeEEEecCCCCCCCCeeEEEEEEEeCCCCCCceEEE--EEEe--cCCCCCCCe--eEeeE-EecceeceeEEEEEE
Q 029107 8 TVNIANVTVLDNPAPFLSPFQFEISYECVTPLKDDLEWKL--IYVG--SAEDETYDQ--LLESV-LVGPVNVGNYRFVLQ 80 (199)
Q Consensus 8 ~V~i~~V~VlnNp~~f~~pf~FeItFEcle~L~~dlEWKi--iYVG--Sa~s~~~DQ--~Ldsv-~VGPi~~G~~kFvfe 80 (199)
.++|.+|.|-.+|-.=..++.|++.|...+++++-+...| .|-| -. ...+|= .+... +==|+..|.+.+..+
T Consensus 11 ~~~i~~V~isP~p~~~G~~~ti~~~~~~~~~v~~g~~~~v~~~~~~i~~~-~~~~DlC~~~~~~g~~CPi~~G~~~~~~~ 89 (122)
T cd00917 11 IVKVTSVEISPNPPAAGQNLTIEASGSVGKEIEDGAYVVVEVKYGFIRLL-SETYDLCDETKNVDLSCPIEPGDKFLTKL 89 (122)
T ss_pred eEEEEEEEEECCCcCCCCcEEEEEEEEECcCcCCCCEEEEEEEECCEEee-cccCCcccccccCCCcCCcCCCcEEEEEE
Confidence 6889999999999888899999999999999998544442 2211 11 112221 11000 124899999888877
Q ss_pred eCCCCCCCCCCCC
Q 029107 81 ADPPDPSKIREED 93 (199)
Q Consensus 81 adpPd~~kIP~~d 93 (199)
..-| +.+|...
T Consensus 90 ~~ip--~~~P~g~ 100 (122)
T cd00917 90 VDLP--GEIPPGK 100 (122)
T ss_pred eeCC--CCCCCce
Confidence 7766 4456543
No 5
>PF02221 E1_DerP2_DerF2: ML domain; InterPro: IPR003172 The MD-2-related lipid-recognition (ML) domain is implicated in lipid recognition, particularly in the recognition of pathogen related products. It has an immunoglobulin-like beta-sandwich fold similar to that of E-set Ig domains. This domain is present in the following proteins: Epididymal secretory protein E1 (also known as Niemann-Pick C2 protein), which is known to bind cholesterol. Niemann-Pick disease type C2 is a fatal hereditary disease characterised by accumulation of low-density lipoprotein-derived cholesterol in lysosomes []. House-dust mite allergen proteins such as Der f 2 from Dermatophagoides farinae and Der p 2 from Dermatophagoides pteronyssinus []. ; PDB: 2AG9_B 1G13_B 2AG2_B 2AG4_A 1TJJ_C 1PU5_C 1PUB_A 2AF9_A 3T6Q_D 3M7O_B ....
Probab=67.18 E-value=24 Score=26.66 Aligned_cols=81 Identities=15% Similarity=0.177 Sum_probs=52.9
Q ss_pred eEEEeeEEEecC-CCCCCCCeeEEEEEEEeCCCCCCceEEEEEEecC-CC--C-CCCeeEeeEE----ec---ceeceeE
Q 029107 8 TVNIANVTVLDN-PAPFLSPFQFEISYECVTPLKDDLEWKLIYVGSA-ED--E-TYDQLLESVL----VG---PVNVGNY 75 (199)
Q Consensus 8 ~V~i~~V~VlnN-p~~f~~pf~FeItFEcle~L~~dlEWKiiYVGSa-~s--~-~~DQ~Ldsv~----VG---Pi~~G~~ 75 (199)
..+|.+|.|-.+ +-....++.++++|.......+.+..++...-.. -. . ..++..|-+. .| |+..|..
T Consensus 14 ~~~v~~v~i~~pC~~~~g~~~~i~~~f~~~~~~~~~~~~~v~~~~~g~~~ip~~g~~~~~d~C~~~~~~~~~CPi~~G~~ 93 (134)
T PF02221_consen 14 PGTVTSVDISPPCPLKRGQPVTITIDFNTSKKDSDGLKVKVEAKVGGWIPIPFPGLCEYYDLCDNLFGNGLSCPIKAGEY 93 (134)
T ss_dssp CECEEEEEEESSEEEETTSEEEEEEEEEECSSBBSSEEEEEEEEETTEEEEEEESSSCEEEEEGTSCCSSTTSTBTTTEE
T ss_pred CceeEEEEECCCCcccCCCEEEEEEEEEEccccccCCEEEEEEEECCcEEEccccccCccchhhhcccccccCccCCCcE
Confidence 467888888734 6777889999999988888888887654433221 00 0 1233334444 56 9999977
Q ss_pred -EEEEEeCCCCCCCCC
Q 029107 76 -RFVLQADPPDPSKIR 90 (199)
Q Consensus 76 -kFvfeadpPd~~kIP 90 (199)
.|.++..-| ..+|
T Consensus 94 ~~~~~~~~i~--~~~p 107 (134)
T PF02221_consen 94 YTYTYTIPIP--KIYP 107 (134)
T ss_dssp EEEEEEEEES--TTSS
T ss_pred EEEEEEEEcc--ccee
Confidence 777777544 4455
No 6
>PF14524 Wzt_C: Wzt C-terminal domain; PDB: 2R5O_B.
Probab=65.08 E-value=6.6 Score=29.29 Aligned_cols=72 Identities=19% Similarity=0.265 Sum_probs=40.9
Q ss_pred ceEEEeeEEEecC------CCCCCCCeeEEEEEEEeCCCCCCceEEEEEEecCCCCCCCeeEe-------eEEecceece
Q 029107 7 STVNIANVTVLDN------PAPFLSPFQFEISYECVTPLKDDLEWKLIYVGSAEDETYDQLLE-------SVLVGPVNVG 73 (199)
Q Consensus 7 s~V~i~~V~VlnN------p~~f~~pf~FeItFEcle~L~~dlEWKiiYVGSa~s~~~DQ~Ld-------sv~VGPi~~G 73 (199)
..+.|++|++++. --...+++.|+|+|+|.+++++ +..-+.--.+ ..|.+- ...+.....|
T Consensus 11 ~~~~I~~v~i~~~~g~~~~~~~~ge~~~i~i~~~~~~~i~~-~~~~~~i~~~-----~g~~v~~~~t~~~~~~~~~~~~g 84 (142)
T PF14524_consen 11 GEARITSVRILDSDGEPTSSFESGEPIRIRIDYEVNEDIDD-PVFGFAIRDS-----DGQRVFGTNTYDSGFPIPLSEGG 84 (142)
T ss_dssp SSEEEEEEEEEETTEES-SSEETTSEEEEEEEEEESS-EEE-EEEEEEEEET-----T--EEEEEEHHHHT--EEE-TT-
T ss_pred CCEEEEEEEEEeCCCCEeeEEeCCCEEEEEEEEEECCCCCc-cEEEEEEEcC-----CCCEEEEECccccCccccccCCC
Confidence 4688999999973 2467899999999999888887 3322222111 112221 1122222378
Q ss_pred eEEEEEEeCCC
Q 029107 74 NYRFVLQADPP 84 (199)
Q Consensus 74 ~~kFvfeadpP 84 (199)
++++.++.+.+
T Consensus 85 ~~~~~~~i~~~ 95 (142)
T PF14524_consen 85 TYEVTFTIPKP 95 (142)
T ss_dssp EEEEEEEEE--
T ss_pred EEEEEEEEcCc
Confidence 88888887665
No 7
>smart00737 ML Domain involved in innate immunity and lipid metabolism. ML (MD-2-related lipid-recognition) is a novel domain identified in MD-1, MD-2, GM2A, Npc2 and multiple proteins of unknown function in plants, animals and fungi. These single-domain proteins were predicted to form a beta-rich fold containing multiple strands, and to mediate diverse biological functions through interacting with specific lipids.
Probab=42.48 E-value=91 Score=23.35 Aligned_cols=41 Identities=15% Similarity=0.151 Sum_probs=32.9
Q ss_pred eEEEeeEEEecCCCCCCCCeeEEEEEEEeCCCCCCceEEEEE
Q 029107 8 TVNIANVTVLDNPAPFLSPFQFEISYECVTPLKDDLEWKLIY 49 (199)
Q Consensus 8 ~V~i~~V~VlnNp~~f~~pf~FeItFEcle~L~~dlEWKiiY 49 (199)
..+|.+|.|...|-....++.++|.|+..+++++ +.-++.+
T Consensus 8 ~~~i~~v~v~Pc~~~~g~~~~i~i~f~~~~~~~~-~~~~v~~ 48 (118)
T smart00737 8 PGQISSVSISPCPPVRGKTLTISISFTLNEDISK-LKVVVHV 48 (118)
T ss_pred CceEEEEEecCCCCCCCCEEEEEEEEEEcccceE-EEEEEEE
Confidence 4588999999888888899999999999988865 5444433
No 8
>PF00845 Gemini_BL1: Geminivirus BL1 movement protein; InterPro: IPR000211 The movement of bipartite Geminiviruses such as squash leaf curl virus (SqLCV) requires the cooperative interaction of two essential virus-encoded movement proteins, BR1 and BL1. Recent studies of SqLCV and bean dwarf mosaic virus have shown that BR1 and BL1 act in a cooperative manner to move the viral genome intracellularly from the nucleus to the cytoplasm and across the wall cell to cell. BR1 is a nuclear shuttle protein, and it has been proposed to bind newly replicated viral ssDNA genomes and move these between the nucleus and cytoplasm. These BR1-genome complexes are then directed to the cell periphery through interactions between BR1 and BL1, where, as the result of BL1 action, the complexes are moved to adjacent uninfected cells. The precise mechanism by which BL1 acts to transport these genome complexes across the cell wall, and whether this may differ in different cell types, remains at issue [].; GO: 0003677 DNA binding, 0046740 spread of virus in host, cell to cell, 0033644 host cell membrane
Probab=32.10 E-value=58 Score=29.90 Aligned_cols=97 Identities=25% Similarity=0.355 Sum_probs=56.2
Q ss_pred eEEEeeEEEecCC---CCCCCCeeEEEEEEEeC----CCCCCceEEEEEEecCCCCCCCeeEeeEEecceeceeEEEEEE
Q 029107 8 TVNIANVTVLDNP---APFLSPFQFEISYECVT----PLKDDLEWKLIYVGSAEDETYDQLLESVLVGPVNVGNYRFVLQ 80 (199)
Q Consensus 8 ~V~i~~V~VlnNp---~~f~~pf~FeItFEcle----~L~~dlEWKiiYVGSa~s~~~DQ~Ldsv~VGPi~~G~~kFvfe 80 (199)
+|.|..=.+-+|- |.|+-|+...|-++-.. .|+|.+-|||.|=-+.. +.-|----+- =+|+.|..=-
T Consensus 61 IVEIhD~Rmtd~es~QA~~TfPI~CNidLHYfSSSfFSlKDp~PWkl~YrV~Dt--NV~~~thFak----~kgKLKLStA 134 (276)
T PF00845_consen 61 IVEIHDKRMTDNESLQASFTFPIRCNIDLHYFSSSFFSLKDPIPWKLYYRVEDT--NVHQGTHFAK----FKGKLKLSTA 134 (276)
T ss_pred EEEEeccccccChhheeEEEeeeeeeeeeEEeeecceecCCCCCeEEEEEeecC--ccccceeeee----eeceeeeccc
Confidence 3455555555665 67999999998887665 79999999999966633 3222221111 1344443211
Q ss_pred eCCCCCCCCCCCCeeeeEEEEEEEEE--CCeEEEEEEE
Q 029107 81 ADPPDPSKIREEDIIGVTVLLLTCSY--LGQEFVRVGY 116 (199)
Q Consensus 81 adpPd~~kIP~~dilGVTviLlt~sY--~~qEFiRVGY 116 (199)
=....||. -.-|+=+|+=.| +.-.|+.|||
T Consensus 135 ---KHS~DI~F---r~PtikILSK~ft~~~vDF~~V~~ 166 (276)
T PF00845_consen 135 ---KHSVDIPF---RAPTIKILSKQFTEKDVDFWHVGY 166 (276)
T ss_pred ---cccccccc---CCCceEeeecccCcCCCceeecCC
Confidence 11112331 123455566555 5568999987
No 9
>PF04809 HupH_C: HupH hydrogenase expression protein, C-terminal conserved region; InterPro: IPR006894 This entry represents the C-terminal conserved domain found in bacterial hydrogenase expression proteins (HupH), which are necessary for hydrogenase synthesis. The precise function of HupH is unknown [].; PDB: 3SB1_A.
Probab=31.24 E-value=64 Score=25.74 Aligned_cols=25 Identities=28% Similarity=0.575 Sum_probs=18.4
Q ss_pred eEEEEEEecCCCCCCCeeEeeEEecceec
Q 029107 44 EWKLIYVGSAEDETYDQLLESVLVGPVNV 72 (199)
Q Consensus 44 EWKiiYVGSa~s~~~DQ~Ldsv~VGPi~~ 72 (199)
-|.+.|.++.. .-+||+++||++|.
T Consensus 72 VWrV~~~n~~~----~~i~d~iEV~~vP~ 96 (120)
T PF04809_consen 72 VWRVRYFNSDG----RLILDTIEVGDVPE 96 (120)
T ss_dssp EEEEEEE-TTS-----EEEEEEEESSS-G
T ss_pred EEEEEEECCCC----CEeeeeEEEeCCcH
Confidence 49999987743 46899999999985
No 10
>PF11033 ComJ: Competence protein J (ComJ); InterPro: IPR020354 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. The proteins in this entry play a role in the competence of cells to be transformed. They inhibit the activity of the DNA-entry nuclease. DNA-entry nuclease inhibitor is a subunit of a 75 kDa protein complex, which governs binding and entry of donor DNA. The complex is a tetramer of two subunits of the DNA-entry nuclease and two subunits of a competence-specific protein ComJ. Only the complex is able to bind ds- and ss-DNA []. It is found in the plasma membrane.
Probab=29.79 E-value=73 Score=26.09 Aligned_cols=34 Identities=32% Similarity=0.430 Sum_probs=24.7
Q ss_pred EEEEecCCCCCCCeeEeeEEecceeceeEEEEEEeCCCCCCC
Q 029107 47 LIYVGSAEDETYDQLLESVLVGPVNVGNYRFVLQADPPDPSK 88 (199)
Q Consensus 47 iiYVGSa~s~~~DQ~Ldsv~VGPi~~G~~kFvfeadpPd~~k 88 (199)
-|+|+|.-|+ -+-=|||.|.+..+|++-||+-+.
T Consensus 79 ~i~V~Svls~--------~~~~~ip~G~Y~Lv~~~ip~~~~~ 112 (125)
T PF11033_consen 79 GIEVSSVLSE--------KLSFDIPKGDYQLVFQTIPPEDEE 112 (125)
T ss_pred CEEEEEeecC--------cEEEecCCCcEEEEEEEeCCCccc
Confidence 3677775444 345588999999999999965443
No 11
>PHA02766 hypothetical protein; Provisional
Probab=29.74 E-value=63 Score=23.84 Aligned_cols=23 Identities=39% Similarity=0.735 Sum_probs=18.6
Q ss_pred CeeEEEEEEEeC----------------CCCCCceEEEE
Q 029107 26 PFQFEISYECVT----------------PLKDDLEWKLI 48 (199)
Q Consensus 26 pf~FeItFEcle----------------~L~~dlEWKii 48 (199)
.+.|+|.||..+ +|.+.+|.|+-
T Consensus 12 slkfkisfeineedyqqlielafsqfiyplndnieikin 50 (73)
T PHA02766 12 SLKFKISFEINEEDYQQLIELAFSQFIYPLNDNIEIKIN 50 (73)
T ss_pred heeEEEEEEECHHHHHHHHHHHHHhheeeCCCceEEEec
Confidence 367899999865 88999998874
No 12
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=28.90 E-value=99 Score=20.50 Aligned_cols=27 Identities=15% Similarity=0.176 Sum_probs=19.5
Q ss_pred eEEecceeceeEEEEEEeCCCCCCCCC
Q 029107 64 SVLVGPVNVGNYRFVLQADPPDPSKIR 90 (199)
Q Consensus 64 sv~VGPi~~G~~kFvfeadpPd~~kIP 90 (199)
++..-+++.|++.|.+.|--.+-..-.
T Consensus 30 ~~~~~~L~~G~Y~l~V~a~~~~~~~~~ 56 (66)
T PF07495_consen 30 SISYTNLPPGKYTLEVRAKDNNGKWSS 56 (66)
T ss_dssp EEEEES--SEEEEEEEEEEETTS-B-S
T ss_pred EEEEEeCCCEEEEEEEEEECCCCCcCc
Confidence 889999999999999999776655444
No 13
>cd00258 GM2-AP GM2 activator protein (GM2-AP) is a non-enzymatic lysosomal protein that acts as cofactor in the sequential degradation of gangliosides. GM2A is an essential cofactor for beta-hexosaminidase A (Hex A) in the enzymatic hydrolysis of GM2 ganglioside to GM3. Mutation of the gene results in the AB variant of Tay-Sachs disease. GM2-AP and similar proteins belong to the ML domain family.
Probab=22.45 E-value=2.6e+02 Score=23.91 Aligned_cols=41 Identities=20% Similarity=0.183 Sum_probs=35.6
Q ss_pred ceEEEeeEEEecCCCCCCCCeeEEEEEEEeCCCCCCceEEE
Q 029107 7 STVNIANVTVLDNPAPFLSPFQFEISYECVTPLKDDLEWKL 47 (199)
Q Consensus 7 s~V~i~~V~VlnNp~~f~~pf~FeItFEcle~L~~dlEWKi 47 (199)
..+.|+++.+--||-.+...+.+.+.++..++|...+.-++
T Consensus 13 dp~~i~sl~l~PdPi~ipg~~tvs~~~~~~~~lsSp~~~~l 53 (162)
T cd00258 13 LPAVIKSLTVNPDPINIPGDLTVSTVGSTSVPLSSPLKVIL 53 (162)
T ss_pred CceEEeeeEEcCCCcccCCcEEEEEEEEEeeEcCCCcEEEE
Confidence 35789999999999999999999999999999999754443
No 14
>PRK00523 hypothetical protein; Provisional
Probab=20.80 E-value=5.1 Score=30.04 Aligned_cols=22 Identities=36% Similarity=0.768 Sum_probs=18.7
Q ss_pred EEEEeeeccCCcccccCCCCcc
Q 029107 114 VGYYVNNDYGDEQLREEPPQKV 135 (199)
Q Consensus 114 VGYYVnneY~d~el~enpP~~p 135 (199)
+|||+.--|...+|+||||...
T Consensus 21 ~Gffiark~~~k~l~~NPpine 42 (72)
T PRK00523 21 IGYFVSKKMFKKQIRENPPITE 42 (72)
T ss_pred HHHHHHHHHHHHHHHHCcCCCH
Confidence 4788888899999999999654
No 15
>PRK01844 hypothetical protein; Provisional
Probab=20.14 E-value=5.3 Score=29.94 Aligned_cols=22 Identities=23% Similarity=0.644 Sum_probs=18.7
Q ss_pred EEEEeeeccCCcccccCCCCcc
Q 029107 114 VGYYVNNDYGDEQLREEPPQKV 135 (199)
Q Consensus 114 VGYYVnneY~d~el~enpP~~p 135 (199)
+|||+.--|...+|++|||...
T Consensus 20 ~Gff~ark~~~k~lk~NPpine 41 (72)
T PRK01844 20 LGFFIARKYMMNYLQKNPPINE 41 (72)
T ss_pred HHHHHHHHHHHHHHHHCCCCCH
Confidence 4788888899999999999654
Done!