Query 016283
Match_columns 392
No_of_seqs 221 out of 979
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 05:27:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016283.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016283hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 100.0 1.5E-43 3.2E-48 304.8 6.5 128 18-146 1-129 (129)
2 PHA00692 hypothetical protein 23.7 28 0.00062 27.8 0.2 21 5-25 22-44 (74)
3 PF04902 Nab1: Conserved regio 20.0 38 0.00082 31.7 0.2 17 296-312 6-22 (166)
4 KOG4286 Dystrophin-like protei 17.1 36 0.00079 38.8 -0.7 59 115-174 613-682 (966)
5 smart00265 BH4 BH4 Bcl-2 homol 16.2 1.2E+02 0.0026 20.6 1.9 20 27-46 4-23 (27)
6 COG3670 Lignostilbene-alpha,be 11.5 1.4E+02 0.0031 32.4 1.8 28 12-39 286-319 (490)
7 PLN02417 dihydrodipicolinate s 10.0 1.8E+02 0.004 28.4 2.0 19 17-36 102-120 (280)
8 PF07960 CBP4: CBP4; InterPro 9.7 1.5E+02 0.0033 26.8 1.2 20 22-41 26-49 (128)
9 cd00954 NAL N-Acetylneuraminic 9.1 2.1E+02 0.0045 28.0 2.0 18 18-36 103-120 (288)
10 PF08338 DUF1731: Domain of un 9.0 2.2E+02 0.0048 21.1 1.6 17 19-35 30-47 (48)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=100.00 E-value=1.5e-43 Score=304.76 Aligned_cols=128 Identities=55% Similarity=1.078 Sum_probs=97.7
Q ss_pred CCCCceeCCChHHHHHHHHhhcccCCCCCC-CceeeccCCCCCCCCCCccccCCceeEEEEecCCccCCCCCcceeccCC
Q 016283 18 LPPGFRFHPTDEELITFYLASKVFNGTFCG-VEIAEVDLNRCEPWELPDVAKMGEKEWYFFSLRDRKYPTGLRTNRATGA 96 (392)
Q Consensus 18 LPPGFRF~PTDEELI~~YL~~KI~g~plp~-~~I~evDVY~~ePWdLP~~ak~GekeWYFFS~R~rKy~tG~RtnRatgg 96 (392)
|||||||+|||+|||.+||++|+.+.+++. .+|.++|||++|||+||...+.++++||||+++++++.+|.|.+|++++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~~~~~~~~~yFF~~~~~~~~~~~r~~R~~~~ 80 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAKFKGGDEEWYFFSPRKKKYPNGGRPNRVTGG 80 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHHSSS-SSEEEEEEE----------S-EEETT
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhhccCCCceEEEEEecccccCCcccccccccc
Confidence 899999999999999999999999999875 7899999999999999965455778999999999999999999999999
Q ss_pred ceeEeecCCceEEeCCCCceeeeeEEEEEeecCCCCCCCcCeEEEEEEeC
Q 016283 97 GYWKATGKDREVCSGSSGALLGMKKTLVFYKGRAPRGEKTKWVMHEYRLD 146 (392)
Q Consensus 97 GyWKatGkdK~I~~~~~G~lVG~KKtLvFY~GrapkG~KTgWVMhEYrL~ 146 (392)
|+||++|+.++|... +|.+||+||+|+||.++.+++.+|+|+||||+|+
T Consensus 81 G~Wk~~g~~~~i~~~-~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 81 GYWKSTGKEKPIKDP-GGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp EEEEEECEEEEEEE--TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred eEEeecccccccccc-cceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 999999999999986 6899999999999999889999999999999985
No 2
>PHA00692 hypothetical protein
Probab=23.70 E-value=28 Score=27.76 Aligned_cols=21 Identities=29% Similarity=0.593 Sum_probs=13.4
Q ss_pred cccccCCccCC--CCCCCCceeC
Q 016283 5 LSELNGDEVNE--QGLPPGFRFH 25 (392)
Q Consensus 5 ~~el~~~~~~~--~~LPPGFRF~ 25 (392)
+|.-+-++... ...||||||-
T Consensus 22 mcarfhedrthyfveyppgfrfg 44 (74)
T PHA00692 22 MCARFHEDRTHYFVEYPPGFRFG 44 (74)
T ss_pred hhhhhcccceeEeEecCCCcccc
Confidence 44444555333 3789999995
No 3
>PF04902 Nab1: Conserved region in Nab1; InterPro: IPR006986 Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of eukaryotic (metazoa) transcription factors []. This C-terminal region is found only in the Nab1 subfamily.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=19.96 E-value=38 Score=31.69 Aligned_cols=17 Identities=47% Similarity=0.556 Sum_probs=14.7
Q ss_pred CCCccccccccccccCC
Q 016283 296 PSPKHCKTEANFSHIQL 312 (392)
Q Consensus 296 ~~~~~~~~~~~~~~~~~ 312 (392)
++||--|||-+|++||-
T Consensus 6 lSPKRIKtEdgf~D~Qe 22 (166)
T PF04902_consen 6 LSPKRIKTEDGFPDFQE 22 (166)
T ss_pred CCccceecccCCccHHH
Confidence 56899999999999973
No 4
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=17.07 E-value=36 Score=38.81 Aligned_cols=59 Identities=22% Similarity=0.334 Sum_probs=37.8
Q ss_pred ceeeeeEE-E----------EEeecCCCCCCCcCeEEEEEEeCCCCCcCCCCCCceEEEEEEEcCcccCCc
Q 016283 115 ALLGMKKT-L----------VFYKGRAPRGEKTKWVMHEYRLDGDFSYRHTCKEEWVICRIFNKAVVSGEK 174 (392)
Q Consensus 115 ~lVG~KKt-L----------vFY~GrapkG~KTgWVMhEYrL~~~~~~~~~~~~e~VLCRIf~K~r~~g~K 174 (392)
-|||+|-+ | -|..||+.+|.|++.-|.||-.+...+.. ...---|||--|+.++...++
T Consensus 613 pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk~~~pM~Ey~~~tts~~d-~rdfak~L~nkfr~~~~~a~~ 682 (966)
T KOG4286|consen 613 PIIGFRYRSLKHFNYDICQSCFFSGRAAKGHKMHYPMVEYCTPTTSGED-VRDFAKVLKNKFRTKRYFAKH 682 (966)
T ss_pred ccceeeeeehhhcChhHHhhHhhhcccccCCCCCCCceeeeCCCCChhh-HHHHHHHHHhhhccchhhhcc
Confidence 47888743 3 25569999999999999999987643210 001112778777765533433
No 5
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=16.24 E-value=1.2e+02 Score=20.56 Aligned_cols=20 Identities=20% Similarity=0.358 Sum_probs=15.9
Q ss_pred ChHHHHHHHHhhcccCCCCC
Q 016283 27 TDEELITFYLASKVFNGTFC 46 (392)
Q Consensus 27 TDEELI~~YL~~KI~g~plp 46 (392)
+-.|||.+|+.-|+.....+
T Consensus 4 ~nRelV~~yv~yKLsQrgy~ 23 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYE 23 (27)
T ss_pred chHHHHHHHHHHHHhhcCCC
Confidence 45799999999999766543
No 6
>COG3670 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=11.54 E-value=1.4e+02 Score=32.45 Aligned_cols=28 Identities=32% Similarity=0.457 Sum_probs=19.3
Q ss_pred ccCCCCCCCCceeCCC------hHHHHHHHHhhc
Q 016283 12 EVNEQGLPPGFRFHPT------DEELITFYLASK 39 (392)
Q Consensus 12 ~~~~~~LPPGFRF~PT------DEELI~~YL~~K 39 (392)
++....+||||.||.. |+.++..|++-+
T Consensus 286 ~irwfE~~p~fvfH~~NAye~~d~~v~~d~~~~~ 319 (490)
T COG3670 286 EIRWFEAEPGFVFHFLNAYEEGDEVVLVDFLRYD 319 (490)
T ss_pred ceeEEecCCeEEEEecceeecCCCcEEEEEEeec
Confidence 4566799999999986 455555555444
No 7
>PLN02417 dihydrodipicolinate synthase
Probab=10.04 E-value=1.8e+02 Score=28.43 Aligned_cols=19 Identities=21% Similarity=0.394 Sum_probs=15.0
Q ss_pred CCCCCceeCCChHHHHHHHH
Q 016283 17 GLPPGFRFHPTDEELITFYL 36 (392)
Q Consensus 17 ~LPPGFRF~PTDEELI~~YL 36 (392)
-+|| +.|.|+++||+.||-
T Consensus 102 ~~~P-~y~~~~~~~i~~~f~ 120 (280)
T PLN02417 102 HINP-YYGKTSQEGLIKHFE 120 (280)
T ss_pred EcCC-ccCCCCHHHHHHHHH
Confidence 3455 568999999999984
No 8
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=9.74 E-value=1.5e+02 Score=26.79 Aligned_cols=20 Identities=35% Similarity=0.740 Sum_probs=14.4
Q ss_pred cee-CCChHHHHHHH---Hhhccc
Q 016283 22 FRF-HPTDEELITFY---LASKVF 41 (392)
Q Consensus 22 FRF-~PTDEELI~~Y---L~~KI~ 41 (392)
|++ .||||||+..| |+++..
T Consensus 26 ~~y~tPTeEeL~~r~sPELrkr~~ 49 (128)
T PF07960_consen 26 VKYTTPTEEELFKRYSPELRKRYL 49 (128)
T ss_pred heecCCCHHHHHHhcCHHHHHHHH
Confidence 444 59999999986 555554
No 9
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=9.11 E-value=2.1e+02 Score=28.01 Aligned_cols=18 Identities=22% Similarity=0.390 Sum_probs=14.0
Q ss_pred CCCCceeCCChHHHHHHHH
Q 016283 18 LPPGFRFHPTDEELITFYL 36 (392)
Q Consensus 18 LPPGFRF~PTDEELI~~YL 36 (392)
+||- .|.|+++||+.||.
T Consensus 103 ~~P~-y~~~~~~~i~~~~~ 120 (288)
T cd00954 103 ITPF-YYKFSFEEIKDYYR 120 (288)
T ss_pred eCCC-CCCCCHHHHHHHHH
Confidence 4554 47899999999975
No 10
>PF08338 DUF1731: Domain of unknown function (DUF1731); InterPro: IPR013549 This domain of unknown function appears towards the C terminus of proteins of the NAD dependent epimerase/dehydratase family (IPR001509 from INTERPRO) in bacteria, eukaryotes and archaea. Many of the proteins in which it is found are involved in cell-division inhibition. ; PDB: 3OH8_A.
Probab=8.95 E-value=2.2e+02 Score=21.11 Aligned_cols=17 Identities=41% Similarity=0.641 Sum_probs=9.6
Q ss_pred CCCceeC-CChHHHHHHH
Q 016283 19 PPGFRFH-PTDEELITFY 35 (392)
Q Consensus 19 PPGFRF~-PTDEELI~~Y 35 (392)
--||+|+ |+=++-+.+-
T Consensus 30 ~~GF~F~~p~l~~AL~~l 47 (48)
T PF08338_consen 30 EAGFQFRYPTLEEALRDL 47 (48)
T ss_dssp HTT---S-SSHHHHHHH-
T ss_pred HCCCcccCCCHHHHHhcc
Confidence 4699996 8888877653
Done!