Query 036240
Match_columns 434
No_of_seqs 181 out of 968
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 10:48:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036240.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036240hhsearch_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 4E-42 8.7E-47 301.2 5.5 127 6-134 1-129 (129)
2 PHA00692 hypothetical protein 13.5 75 0.0016 25.5 0.4 8 6-13 37-44 (74)
3 PF05865 Cypo_polyhedrin: Cypo 12.8 1.8E+02 0.0039 28.0 2.8 28 86-113 140-168 (248)
4 KOG3238 Chloride ion current i 11.1 2.4E+02 0.0051 27.8 3.0 48 7-54 110-157 (216)
5 smart00265 BH4 BH4 Bcl-2 homol 10.9 2.8E+02 0.0061 18.9 2.5 20 15-34 4-23 (27)
6 PF11395 DUF2873: Protein of u 10.7 74 0.0016 23.4 -0.4 9 341-349 32-40 (43)
7 PF04700 Baculo_gp41: Structur 9.3 2.9E+02 0.0062 26.8 2.8 20 15-34 6-27 (186)
8 PF08338 DUF1731: Domain of un 8.2 2.4E+02 0.0053 21.1 1.6 16 7-22 30-46 (48)
9 PLN02417 dihydrodipicolinate s 8.1 2.4E+02 0.0052 28.1 2.0 18 6-24 103-120 (280)
10 smart00707 RPEL Repeat in Dros 8.0 2.5E+02 0.0053 19.0 1.3 14 9-22 6-19 (26)
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=4e-42 Score=301.21 Aligned_cols=127 Identities=55% Similarity=1.111 Sum_probs=97.4
Q ss_pred CCCCceeCCChHHHHHHHHHHHHcCCCCCC-CCeEeccCCCCCCCCCCcccccCCCCceEEEeccccccccCCCcccccc
Q 036240 6 LPPGFRFHPTDVELIKYYLKRKVMGRKFGF-EAIAEVDIYKHAPWDLPDKSSLRSGDLKWYFFCPREKKYANGARMNRAT 84 (434)
Q Consensus 6 LPpGfRF~PTDEELV~~YL~rKv~G~plp~-~~I~evDVY~~ePWdLP~~~~~~~ge~eWYFFs~r~rKy~~G~R~~Rat 84 (434)
|||||||+|||+|||.+||++|+.|.+++. .+|+++|||++|||+|+... +.++.+||||+++++++.+|.|++|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~~--~~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAKF--KGGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHHS--SS-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhhc--cCCCceEEEEEecccccCCcccccccc
Confidence 899999999999999999999999999887 79999999999999999532 346679999999999999999999999
Q ss_pred ccceeeecCCCceeec-CCeeEEEEEEEEeecCCCCCCCCcCeEEEEEEeC
Q 036240 85 EFGYWKTTGKDRPVQY-NNEVVGMIKTLVFHRGKAPRGDRTDWVMHEYRID 134 (434)
Q Consensus 85 ggGyWK~tGkdk~I~~-~G~vVG~KKtLvFy~Gk~p~g~KT~WvMhEYrL~ 134 (434)
++|+||.+|+.+.|.. +|++||+||+|+||.++.+++.+|+|+||||+|.
T Consensus 79 ~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 79 GGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp TTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred cceEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 9999999999999998 8999999999999998888899999999999984
No 2
>PHA00692 hypothetical protein
Probab=13.53 E-value=75 Score=25.53 Aligned_cols=8 Identities=75% Similarity=1.626 Sum_probs=6.7
Q ss_pred CCCCceeC
Q 036240 6 LPPGFRFH 13 (434)
Q Consensus 6 LPpGfRF~ 13 (434)
.||||||-
T Consensus 37 yppgfrfg 44 (74)
T PHA00692 37 YPPGFRFG 44 (74)
T ss_pred cCCCcccc
Confidence 68999995
No 3
>PF05865 Cypo_polyhedrin: Cypovirus polyhedrin protein; InterPro: IPR008464 This family consists of several Cypovirus polyhedrin proteins. Polyhedrin is known to form a crystalline matrix (polyhedra) in infected insect cells [].; PDB: 2OH7_A 2OH5_A 2OH6_A.
Probab=12.75 E-value=1.8e+02 Score=27.98 Aligned_cols=28 Identities=29% Similarity=0.511 Sum_probs=18.2
Q ss_pred cceeeecC-CCceeecCCeeEEEEEEEEe
Q 036240 86 FGYWKTTG-KDRPVQYNNEVVGMIKTLVF 113 (434)
Q Consensus 86 gGyWK~tG-kdk~I~~~G~vVG~KKtLvF 113 (434)
.--|.+|| +-|.|..+|++||+...|..
T Consensus 140 shpweatgikyrki~~dgeivgyshyfel 168 (248)
T PF05865_consen 140 SHPWEATGIKYRKIHRDGEIVGYSHYFEL 168 (248)
T ss_dssp --S-B--GGG-EEEEETTEEEEEEEEEE-
T ss_pred cCCccccCceEEEeeccceEeeeeeeeec
Confidence 45799998 45888889999999988864
No 4
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=11.10 E-value=2.4e+02 Score=27.84 Aligned_cols=48 Identities=17% Similarity=0.296 Sum_probs=29.0
Q ss_pred CCCceeCCChHHHHHHHHHHHHcCCCCCCCCeEeccCCCCCCCCCCcc
Q 036240 7 PPGFRFHPTDVELIKYYLKRKVMGRKFGFEAIAEVDIYKHAPWDLPDK 54 (434)
Q Consensus 7 PpGfRF~PTDEELV~~YL~rKv~G~plp~~~I~evDVY~~ePWdLP~~ 54 (434)
--+|||+|+|.--+.----.....+.+-+....+.+-|.-+=|+.-..
T Consensus 110 i~e~rfvpsDk~~l~a~f~qfcecqel~p~P~ED~~~~dgee~~mea~ 157 (216)
T KOG3238|consen 110 ITEFRFVPSDKSALEAMFTQFCECQELNPDPDEDEDDYDGEEYDMEAH 157 (216)
T ss_pred cccceecCCchhHHHHHHHHHHhhhhcCCCccccccccccchhhhhhh
Confidence 358999999987776544444445444333355556666665655433
No 5
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=10.93 E-value=2.8e+02 Score=18.91 Aligned_cols=20 Identities=20% Similarity=0.341 Sum_probs=15.6
Q ss_pred ChHHHHHHHHHHHHcCCCCC
Q 036240 15 TDVELIKYYLKRKVMGRKFG 34 (434)
Q Consensus 15 TDEELV~~YL~rKv~G~plp 34 (434)
+-.|||.+|+.-|+.-+..+
T Consensus 4 ~nRelV~~yv~yKLsQrgy~ 23 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYE 23 (27)
T ss_pred chHHHHHHHHHHHHhhcCCC
Confidence 45799999999998765543
No 6
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=10.67 E-value=74 Score=23.40 Aligned_cols=9 Identities=44% Similarity=1.069 Sum_probs=6.7
Q ss_pred eeecCCCCC
Q 036240 341 IELHDLDAP 349 (434)
Q Consensus 341 lEL~DL~~P 349 (434)
|||+||+.|
T Consensus 32 le~qdl~ep 40 (43)
T PF11395_consen 32 LEIQDLNEP 40 (43)
T ss_pred Hhhhhhccc
Confidence 577777776
No 7
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=9.26 E-value=2.9e+02 Score=26.84 Aligned_cols=20 Identities=45% Similarity=0.743 Sum_probs=13.8
Q ss_pred ChHHHHHHH--HHHHHcCCCCC
Q 036240 15 TDVELIKYY--LKRKVMGRKFG 34 (434)
Q Consensus 15 TDEELV~~Y--L~rKv~G~plp 34 (434)
+|||||.|| |.+|..|...+
T Consensus 6 sDe~Li~yY~~L~K~~g~~~~~ 27 (186)
T PF04700_consen 6 SDEELIEYYANLEKKYGGSDVP 27 (186)
T ss_pred cHHHHHHHHHHHHHHhCCCCCC
Confidence 789999988 44555555444
No 8
>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=8.22 E-value=2.4e+02 Score=21.12 Aligned_cols=16 Identities=38% Similarity=0.663 Sum_probs=9.7
Q ss_pred CCCceeC-CChHHHHHH
Q 036240 7 PPGFRFH-PTDVELIKY 22 (434)
Q Consensus 7 PpGfRF~-PTDEELV~~ 22 (434)
--||+|+ |+=++-+.+
T Consensus 30 ~~GF~F~~p~l~~AL~~ 46 (48)
T PF08338_consen 30 EAGFQFRYPTLEEALRD 46 (48)
T ss_dssp HTT---S-SSHHHHHHH
T ss_pred HCCCcccCCCHHHHHhc
Confidence 3599998 888887765
No 9
>PLN02417 dihydrodipicolinate synthase
Probab=8.14 E-value=2.4e+02 Score=28.09 Aligned_cols=18 Identities=22% Similarity=0.359 Sum_probs=14.6
Q ss_pred CCCCceeCCChHHHHHHHH
Q 036240 6 LPPGFRFHPTDVELIKYYL 24 (434)
Q Consensus 6 LPpGfRF~PTDEELV~~YL 24 (434)
+|| +.|.||++||+.||-
T Consensus 103 ~~P-~y~~~~~~~i~~~f~ 120 (280)
T PLN02417 103 INP-YYGKTSQEGLIKHFE 120 (280)
T ss_pred cCC-ccCCCCHHHHHHHHH
Confidence 556 568999999999874
No 10
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=7.97 E-value=2.5e+02 Score=18.98 Aligned_cols=14 Identities=29% Similarity=0.261 Sum_probs=11.4
Q ss_pred CceeCCChHHHHHH
Q 036240 9 GFRFHPTDVELIKY 22 (434)
Q Consensus 9 GfRF~PTDEELV~~ 22 (434)
...++||-+|||..
T Consensus 6 kl~~RP~~eeLv~r 19 (26)
T smart00707 6 KLSQRPTREELEER 19 (26)
T ss_pred HHHcCCCHHHHHHc
Confidence 45689999999973
Done!