Query 040762
Match_columns 195
No_of_seqs 117 out of 221
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 11:34:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040762.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040762hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4689 Adc Acetoacetate decar 99.9 1.8E-24 3.9E-29 183.7 9.3 105 8-118 16-123 (247)
2 PRK02265 acetoacetate decarbox 99.9 3.7E-22 8.1E-27 173.6 11.9 107 8-119 16-124 (246)
3 PF06314 ADC: Acetoacetate dec 99.8 7.9E-20 1.7E-24 154.6 9.6 95 20-118 18-114 (236)
4 PF09844 DUF2071: Uncharacteri 97.1 0.0046 1E-07 52.9 10.0 97 24-121 9-115 (217)
5 COG3361 Uncharacterized conser 90.4 2.4 5.2E-05 37.2 9.0 116 2-118 2-129 (240)
6 PF07809 RTP801_C: RTP801 C-te 13.1 6.4E+02 0.014 20.2 5.6 46 79-140 48-93 (116)
7 PF04774 HABP4_PAI-RBP1: Hyalu 13.1 81 0.0018 23.5 0.5 12 102-113 23-34 (106)
8 PF12529 Xylo_C: Xylosyltransf 12.0 2.6E+02 0.0056 23.7 3.2 31 64-97 142-172 (178)
9 PF01922 SRP19: SRP19 protein; 10.7 68 0.0015 24.3 -0.6 24 92-118 6-29 (95)
10 COG1400 SEC65 Signal recogniti 10.2 86 0.0019 24.2 -0.2 24 92-118 9-32 (93)
No 1
>COG4689 Adc Acetoacetate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.91 E-value=1.8e-24 Score=183.68 Aligned_cols=105 Identities=19% Similarity=0.305 Sum_probs=97.5
Q ss_pred CCCCCCCCCcEEEEeEEEE-EEeeChhhHhhcCCCCceehhhcCcceEEEEEEEc-CCCCCcccce-eeEEeEEEeCCCc
Q 040762 8 CTSGYGKPPWIFKGRALYQ-LHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLASY-EDSPAGVFDE-LVVIAGIVWNPPT 84 (195)
Q Consensus 8 ~~p~YppaPW~l~G~a~~~-l~~v~~~~ara~iP~~Le~~~~~G~~Lg~~~lvrY-~dSpVGpYdE-Llvipg~V~~~~~ 84 (195)
-+|+||++||+|.+|+|+. .||++++++|+++|++||+.+ +|+.+.|+|+ +++++|.|.| .++|| |.+.|+
T Consensus 16 tsPa~P~GPYrF~nREy~iItYRTd~~~Lr~~VPePLei~E----PlVkfEfirM~DstGfGdYTEsGQvIP--Vsf~G~ 89 (247)
T COG4689 16 TSPAYPPGPYRFRNREYFIITYRTDPDALRAVVPEPLEIDE----PLVKFEFIRMPDSTGFGDYTESGQVIP--VSFNGR 89 (247)
T ss_pred CCCCCCCCCceeccceEEEEEEecCHHHHHhhCCCccccCC----cceeEEEEeccCCCCccccccCCcEEE--EEeccc
Confidence 4699999999999999988 679999999999999999765 6799999999 8889999999 57888 677799
Q ss_pred cceeEEEEEcCChhhHHhhhhccCCCCcceeeeE
Q 040762 85 SCAWAARVLVNSDQACDHGRKHVGLPSQVARFSK 118 (195)
Q Consensus 85 ~~~~It~IyVDse~Sv~~GRe~WGiPK~LA~F~~ 118 (195)
++.|.+.||+|++.+++||||+|||||+||...+
T Consensus 90 ~G~Y~h~MyLdd~ppiAgGRElwgfPKKLa~P~l 123 (247)
T COG4689 90 KGSYTHCMYLDDHPPIAGGRELWGFPKKLATPKL 123 (247)
T ss_pred cCceEEEEEecCCCccccchhhccCchhhCCcee
Confidence 9999999999999999999999999999999988
No 2
>PRK02265 acetoacetate decarboxylase; Provisional
Probab=99.88 E-value=3.7e-22 Score=173.59 Aligned_cols=107 Identities=16% Similarity=0.229 Sum_probs=95.5
Q ss_pred CCCCCCCCCcEEEEeEEEE-EEeeChhhHhhcCCCCceehhhcCcceEEEEEEEcC-CCCCcccceeeEEeEEEeCCCcc
Q 040762 8 CTSGYGKPPWIFKGRALYQ-LHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLASYE-DSPAGVFDELVVIAGIVWNPPTS 85 (195)
Q Consensus 8 ~~p~YppaPW~l~G~a~~~-l~~v~~~~ara~iP~~Le~~~~~G~~Lg~~~lvrY~-dSpVGpYdELlvipg~V~~~~~~ 85 (195)
.+|.||++||+|.+++++. .|++|++++++++|++|++.. +++.+.|++|. .+..|+|+|..+. ..|+++++.
T Consensus 16 ~~p~~p~~p~~~~~~e~l~i~y~Td~~~l~~~lP~pl~~~~----p~v~~~~~~~~~~~~~g~Y~E~~i~-i~v~y~G~~ 90 (246)
T PRK02265 16 TSPAYPPGPYRFVNREYLIITYRTDPDALRAVVPEPLEVDE----PLVKYEFIRMPDSTGFGDYTESGQV-IPVRYEGEP 90 (246)
T ss_pred CCCCCCCCCceEecccEEEEEEEECHHHHHhhCCCCcccCC----CEEEEEEEECCCCCCccCccEEEEE-EEEEECCEE
Confidence 3489999999999888885 779999999999999998642 78999999996 6678999998653 568999999
Q ss_pred ceeEEEEEcCChhhHHhhhhccCCCCcceeeeEE
Q 040762 86 CAWAARVLVNSDQACDHGRKHVGLPSQVARFSKR 119 (195)
Q Consensus 86 ~~~It~IyVDse~Sv~~GRe~WGiPK~LA~F~~~ 119 (195)
+.+.+.||||++.++++|||+||+||++|+++++
T Consensus 91 g~y~~~m~vd~~~ai~~GRE~~G~PKk~a~~~l~ 124 (246)
T PRK02265 91 GGYTHAMYLDDHPPIAGGRELWGFPKKLASPKLE 124 (246)
T ss_pred eeEEEEEEecCchHHhhhhhhcCCchhcCCceEE
Confidence 9999999999999999999999999999999884
No 3
>PF06314 ADC: Acetoacetate decarboxylase (ADC); InterPro: IPR010451 Acetoacetate decarboxylase (ADC) is involved in solventogenesis in certain bacteria, which occurs at the end of the exponential growth phase when there is a metabolic switch from classical sugar fermentation with the production of acetate and butyrate to the re-internalisation and oxidation of these acids to acetate and butanol []. In Clostridium, SpoOA controls the switch from acid to solvent production. A SpoAO-binding motif occurs in the gene encoding ADC []. This family also contains the fungal decarboxylase DEC1 encoded by the Tox1B locus, which along with the Tox1A gene product is required for the production of the polyketide T-toxin. The pathogenic fungus Cochliobolus heterostrophus (Drechslera maydis) requires the T-toxin for high virulence to maize with T-cytoplasm [].; GO: 0016831 carboxy-lyase activity; PDB: 3BH2_D 3BH3_C 3BGT_C 3C8W_D 3CMB_A.
Probab=99.81 E-value=7.9e-20 Score=154.60 Aligned_cols=95 Identities=22% Similarity=0.295 Sum_probs=81.5
Q ss_pred EEeEEEEEEeeChhhHhhcCCCCceehhhcCcceEEEEEEEcCCCCCc--ccceeeEEeEEEeCCCccceeEEEEEcCCh
Q 040762 20 KGRALYQLHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLASYEDSPAG--VFDELVVIAGIVWNPPTSCAWAARVLVNSD 97 (195)
Q Consensus 20 ~G~a~~~l~~v~~~~ara~iP~~Le~~~~~G~~Lg~~~lvrY~dSpVG--pYdELlvipg~V~~~~~~~~~It~IyVDse 97 (195)
..+.+...|++|++++++++|++|++.. ++++.+++++|.++++| +|+|+.+. ..|++.++.+.|+..||||++
T Consensus 18 ~~~~~~v~~~td~~~l~~lLP~~l~~~~---~~~v~~~~~~~~~~~~~~~~Y~e~~v~-v~v~~~g~~g~y~~~l~vd~~ 93 (236)
T PF06314_consen 18 DATALSVVYRTDPEALAALLPPPLEPAD---PPLVTVYFAEYRDTSWGGGPYNEAGVA-VPVRYGGKPGSYVPVLWVDSD 93 (236)
T ss_dssp EEEEEEEEEE--HHHHHCCSBTTEEESS----SEEEEEEEEEEEETGTTEEEEEEEEE-EEEEETTEEEEEEEEEEESSH
T ss_pred CceEEEEEEEECHHHHHhhCCcccccCC---CCEEEEEEEEEeCCCCCCCCccEEEEE-EEEEECCeEEEEEEEEECCCH
Confidence 7777777999999999999999999877 78999999999999999 99998765 458889999999999999999
Q ss_pred hhHHhhhhccCCCCcceeeeE
Q 040762 98 QACDHGRKHVGLPSQVARFSK 118 (195)
Q Consensus 98 ~Sv~~GRe~WGiPK~LA~F~~ 118 (195)
.++.+|||+||+||++|++++
T Consensus 94 ~~i~~GRE~~G~PK~~a~i~~ 114 (236)
T PF06314_consen 94 DAIIAGREIWGFPKKLADIDF 114 (236)
T ss_dssp HHHHHHHHTT---EEE-EEEE
T ss_pred HHHHhhHHhhCCCccccceEE
Confidence 999999999999999999999
No 4
>PF09844 DUF2071: Uncharacterized conserved protein (COG2071); InterPro: IPR018644 This conserved protein, similar to YgjF, has no known function.
Probab=97.13 E-value=0.0046 Score=52.88 Aligned_cols=97 Identities=18% Similarity=0.166 Sum_probs=73.5
Q ss_pred EEEEEeeChhhHhhcCCCCceehhhcCcceEEEEEEEc---CCC-----CC-cccceeeEEeEEEeCCC-ccceeEEEEE
Q 040762 24 LYQLHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLASY---EDS-----PA-GVFDELVVIAGIVWNPP-TSCAWAARVL 93 (195)
Q Consensus 24 ~~~l~~v~~~~ara~iP~~Le~~~~~G~~Lg~~~lvrY---~dS-----pV-GpYdELlvipg~V~~~~-~~~~~It~Iy 93 (195)
++.-|.||++.+++++|++|++...-|++.+++.-.++ ..- |. ..+.|+-+ ---|++++ +.+.|+-++-
T Consensus 9 lf~hw~Vdp~~l~~~lP~gl~lD~~dG~a~vsvV~F~~~~~r~~g~P~~p~~~~F~eiNv-RtYV~~~~~~~GV~F~sld 87 (217)
T PF09844_consen 9 LFLHWPVDPEVLRPLLPAGLELDTFDGKAWVSVVPFRMKDVRPRGLPPIPLGSTFPEINV-RTYVRDDGGKRGVYFFSLD 87 (217)
T ss_pred EEEeccCCHHHHHhhCCCCCCCeEECCEEEEEEEEEEEeccccccCCCccccCCCCceEE-EEEEEeCCCCCEEEEEEEe
Confidence 34456899999999999998865544887665543333 211 22 25777754 34577777 8999999999
Q ss_pred cCChhhHHhhhhccCCCCcceeeeEEee
Q 040762 94 VNSDQACDHGRKHVGLPSQVARFSKRIT 121 (195)
Q Consensus 94 VDse~Sv~~GRe~WGiPK~LA~F~~~i~ 121 (195)
+|+.-++..+|..+|+|=+.|+++.+.+
T Consensus 88 ~~~~l~~~~ar~~~~lpY~~a~m~~~~~ 115 (217)
T PF09844_consen 88 ADSRLSVFVARRLFGLPYYHADMRVERD 115 (217)
T ss_pred cCchHhhHhhHhhcCCcEEEeeeEEEEc
Confidence 9999999999999999999999988443
No 5
>COG3361 Uncharacterized conserved protein [Function unknown]
Probab=90.42 E-value=2.4 Score=37.20 Aligned_cols=116 Identities=18% Similarity=0.092 Sum_probs=83.7
Q ss_pred CCCCCCCCCCCCCCCcEEEEeE---EEEEEeeChhhHhhcCCCCceehhhcCcceEEEEEEEc--------CCC-CCccc
Q 040762 2 EIEGPKCTSGYGKPPWIFKGRA---LYQLHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLASY--------EDS-PAGVF 69 (195)
Q Consensus 2 ~~~~~~~~p~YppaPW~l~G~a---~~~l~~v~~~~ara~iP~~Le~~~~~G~~Lg~~~lvrY--------~dS-pVGpY 69 (195)
..+--..+++-++.||.|+-+- .++-+-|+++.++..+|+.+++...-|-+-+++.=.++ ..+ -++.|
T Consensus 2 ~~~~~~~~~~~~~~~~i~~qrW~DvlfahWPVdpe~va~~~P~g~~~Dt~dG~ayvs~vPF~m~n~r~~~~lpip~~rtF 81 (240)
T COG3361 2 ALAGYPVTPPALPRPVIFDQRWTDVLFAHWPVDPESVAGSYPPGTRPDTADGMAYVSLVPFRMSNTRLGTALPIPYVRTF 81 (240)
T ss_pred cccccCCCCCCCCcceeeeceeceeeEEeccCCHHHHhccCCCCCCccccCCeeEEEEeeeeeecccccccCCCcccccc
Confidence 3445567788999999998773 33334689999999999998876544555333322222 122 34688
Q ss_pred ceeeEEeEEEeCCCccceeEEEEEcCChhhHHhhhhccCCCCcceeeeE
Q 040762 70 DELVVIAGIVWNPPTSCAWAARVLVNSDQACDHGRKHVGLPSQVARFSK 118 (195)
Q Consensus 70 dELlvipg~V~~~~~~~~~It~IyVDse~Sv~~GRe~WGiPK~LA~F~~ 118 (195)
-|+-+ --.|.+.|+.+.+.-.+--+..-.+-.-|...|+|-..|+...
T Consensus 82 pElNl-RtYVt~~GrpGIyFfsLda~~~l~V~~aR~~fglPY~~adMr~ 129 (240)
T COG3361 82 PELNL-RTYVTNAGRPGIYFFSLDAARLLVVPLARIGFGLPYAWADMRM 129 (240)
T ss_pred cccce-EEEEeeCCCceeEEEeccchhhheeeeeheecCCchhhhhhhh
Confidence 89755 2447888999888888777777888899999999999998887
No 6
>PF07809 RTP801_C: RTP801 C-terminal region; InterPro: IPR012918 The members of this family are sequences similar to the C-terminal region of RTP801, the protein product of a hypoxia-inducible factor 1 (HIF-1)- responsive gene []. Two members of this family expressed by Drosophila melanogaster, Scylla (Q9NHN4 from SWISSPROT) and Charybde (Q9NHN5 from SWISSPROT), are designated as Hox targets []. RTP801 is thought to be involved in various cellular processes []. Over expression of the gene caused the apoptosis-resistant phenotype in cycling cells, and apoptosis sensitivity in growth arrested cells []. Moreover, the protein product of the mouse homologue of RTP801 (dig2 (Q9D3F7 from SWISSPROT)) is thought to be induced by diverse apoptotic signals, and also by dexamethasone treatment []. ; GO: 0009968 negative regulation of signal transduction, 0005737 cytoplasm; PDB: 3LQ9_A.
Probab=13.14 E-value=6.4e+02 Score=20.17 Aligned_cols=46 Identities=17% Similarity=0.320 Sum_probs=22.9
Q ss_pred EeCCCccceeEEEEEcCChhhHHhhhhccCCCCcceeeeEEeeeecccccCccCCcccccCC
Q 040762 79 VWNPPTSCAWAARVLVNSDQACDHGRKHVGLPSQVARFSKRITAVQGQPKGKFNGFLSMMGL 140 (195)
Q Consensus 79 V~~~~~~~~~It~IyVDse~Sv~~GRe~WGiPK~LA~F~~~i~~~~~~~~~~~~~~~~~~~~ 140 (195)
|..+++.+..|.+|-|| |--.-.|++.++..|+.+ .|+++++.+..
T Consensus 48 ~E~~~~~~~~l~~i~~D--------------p~~vpTFEL~Lvlr~d~~--~W~~l~~~F~~ 93 (116)
T PF07809_consen 48 FEDEPDNCRRLGQIKVD--------------PSTVPTFELTLVLRQDSS--GWPSLRPLFLK 93 (116)
T ss_dssp EEET-TEEEEEEEEES---------------TTS---EEEEEEEE--TT---------S--T
T ss_pred EccccchheeeccEecC--------------CCCCCcEEEEEEEeeCCC--CCHhHHHHhcc
Confidence 44444667888999998 566788998888888877 78888888774
No 7
>PF04774 HABP4_PAI-RBP1: Hyaluronan / mRNA binding family; InterPro: IPR006861 This entry includes the HABP4 protein family of hyaluronan-binding proteins, and the PAI-1 mRNA-binding protein, PAI-RBP1. HABP4 has been observed to bind hyaluronan (a glucosaminoglycan), but it is not known whether this is its primary role in vivo. It has also been observed to bind RNA, but with a lower affinity than that for hyaluronan []. PAI-1 mRNA-binding protein specifically binds the mRNA of type-1 plasminogen activator inhibitor (PAI-1), and is thought to be involved in regulation of mRNA stability []. However, in both cases, the sequence motifs predicted to be important for ligand binding are not conserved throughout the family, so it is not known whether members of this family share a common function. Hyaluronan/mRNA-binding protein may be involved in nuclear functions such as the remodeling of chromatin and the regulation of transcription [, ].
Probab=13.07 E-value=81 Score=23.45 Aligned_cols=12 Identities=25% Similarity=0.418 Sum_probs=10.2
Q ss_pred hhhhccCCCCcc
Q 040762 102 HGRKHVGLPSQV 113 (195)
Q Consensus 102 ~GRe~WGiPK~L 113 (195)
+|+.|||-|+.-
T Consensus 23 ~G~~NWG~~~de 34 (106)
T PF04774_consen 23 GGAHNWGSPKDE 34 (106)
T ss_pred ccccCCCCccch
Confidence 689999999764
No 8
>PF12529 Xylo_C: Xylosyltransferase C terminal ; InterPro: IPR024448 This entry represents a family of metazoan xylosyltransferases, which includes xylosyltransferase 1 and xylosyltransferase 2. These enzymes initiate the biosynthesis of glycosaminoglycan chains in proteoglycans by transferring xylose from UDP-xylose to specific serine residues of the core protein [].; GO: 0030158 protein xylosyltransferase activity, 0006024 glycosaminoglycan biosynthetic process
Probab=12.04 E-value=2.6e+02 Score=23.65 Aligned_cols=31 Identities=16% Similarity=0.049 Sum_probs=21.8
Q ss_pred CCCcccceeeEEeEEEeCCCccceeEEEEEcCCh
Q 040762 64 SPAGVFDELVVIAGIVWNPPTSCAWAARVLVNSD 97 (195)
Q Consensus 64 SpVGpYdELlvipg~V~~~~~~~~~It~IyVDse 97 (195)
+=+||++|+..+ .+..+.....++-+|+|=-
T Consensus 142 gllgp~dep~~~---~~w~~~~~~~~tv~WiDP~ 172 (178)
T PF12529_consen 142 GLLGPNDEPVLV---QRWARGPNFNVTVVWIDPT 172 (178)
T ss_pred cccCCCCceEEE---EEEcCCCCceEEEEEECCC
Confidence 457999999764 4444444778888888743
No 9
>PF01922 SRP19: SRP19 protein; InterPro: IPR002778 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the SRP19 subunit. The SRP19 protein is unstructured but forms a compact core domain and two extended RNA-binding loops upon binding the signal recognition particle (SRP) RNA [].; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle; PDB: 3DLU_A 3DLV_B 2J37_B 1MFQ_B 3KTV_D 1RY1_B 1JID_A 1KVV_A 1KVN_A 3KTW_B ....
Probab=10.66 E-value=68 Score=24.29 Aligned_cols=24 Identities=21% Similarity=0.421 Sum_probs=18.1
Q ss_pred EEcCChhhHHhhhhccCCCCcceeeeE
Q 040762 92 VLVNSDQACDHGRKHVGLPSQVARFSK 118 (195)
Q Consensus 92 IyVDse~Sv~~GRe~WGiPK~LA~F~~ 118 (195)
.|.|+.-|..-||+ +||.+|.-+-
T Consensus 6 ~Y~Ds~~sr~~GRr---v~k~~aV~~P 29 (95)
T PF01922_consen 6 AYFDSKKSRSEGRR---VPKELAVENP 29 (95)
T ss_dssp GGGBTTSSTTTT-----SSTTTSBSS-
T ss_pred chhcCCCChhhccc---cChhhcCCCC
Confidence 47899999999999 5999988654
No 10
>COG1400 SEC65 Signal recognition particle 19 kDa protein [Intracellular trafficking and secretion]
Probab=10.16 E-value=86 Score=24.17 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=20.8
Q ss_pred EEcCChhhHHhhhhccCCCCcceeeeE
Q 040762 92 VLVNSDQACDHGRKHVGLPSQVARFSK 118 (195)
Q Consensus 92 IyVDse~Sv~~GRe~WGiPK~LA~F~~ 118 (195)
.|.|+.-|..-||. +||+||.-+.
T Consensus 9 ~YfDs~~srs~GRr---vpk~laV~~P 32 (93)
T COG1400 9 AYFDSDLSRSEGRR---VPKELAVENP 32 (93)
T ss_pred hhhcCccChhhccc---cchhhcccCC
Confidence 68999999999998 5999887665
Done!