Query 016791
Match_columns 382
No_of_seqs 180 out of 980
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 02:51:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016791.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016791hhsearch_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 4.2E-43 9.1E-48 302.0 5.5 128 16-144 1-129 (129)
2 PHA00692 hypothetical protein 17.1 53 0.0012 26.0 0.4 10 14-23 35-44 (74)
3 PF11386 VERL: Vitelline envel 16.8 40 0.00086 27.8 -0.4 32 336-377 7-38 (78)
4 COG3060 MetJ Transcriptional r 15.4 88 0.0019 26.5 1.3 39 23-65 51-89 (105)
5 cd00490 Met_repressor_MetJ Met 15.4 1.3E+02 0.0029 25.6 2.4 39 23-65 50-88 (103)
6 PRK05264 transcriptional repre 14.0 1.4E+02 0.003 25.6 2.2 39 23-65 51-89 (105)
7 smart00265 BH4 BH4 Bcl-2 homol 13.6 1.9E+02 0.0041 19.4 2.2 17 25-41 4-20 (27)
8 PF09174 Maf1: Maf1 regulator; 13.5 48 0.001 30.7 -0.8 12 48-59 137-148 (179)
9 PF07960 CBP4: CBP4; InterPro 13.5 97 0.0021 27.8 1.2 11 23-33 30-40 (128)
10 KOG1334 WD40 repeat protein [G 13.1 2.4E+02 0.0051 30.9 4.1 51 24-77 301-365 (559)
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=4.2e-43 Score=301.97 Aligned_cols=128 Identities=59% Similarity=1.202 Sum_probs=97.1
Q ss_pred CCCCceeCCChHHHHHHHHHHhHcCCCCCc-cceeecCCCCCCCCCcCccccCCceeEEEeccCCCCCCCCCCCccccCC
Q 016791 16 LPPGFRFHPTDEELVVHYLKKKASSAPLPV-SIIAEVDLYKFDPWELPAKATFGEQEWYFFSPRDRKYPNGARPNRAATS 94 (382)
Q Consensus 16 LPPGfRF~PTDEELI~~YLrpKi~G~plp~-~iI~evDVY~~ePweLP~~~~~Ge~eWYFFspr~rK~~nG~R~~Ratgg 94 (382)
|||||||+|||||||.+||++|+.|.+++. .+|+++|||++|||+|++....++++||||+++++++.+|.|++|++++
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 899999999999999999999999999988 7999999999999999964444677999999999999999999999999
Q ss_pred CeeeecCCCccEEcCCCCeEEEEEEEEEEecCCCCCCCCcCeEEEEEEeC
Q 016791 95 GYWKATGTDKPVMSSGSNQKVGVKKALVFYGGKPPKGIKTNWIMHEYRLT 144 (382)
Q Consensus 95 GyWKatG~~K~I~~~~G~~vVG~KKtLvFY~gk~pkg~KT~WvMhEYrL~ 144 (382)
|+||.+|++++|.+. ++++||+||+|+||.++.+++.+|+|+||||+|.
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 999999999999876 5689999999999998888899999999999984
No 2
>PHA00692 hypothetical protein
Probab=17.14 E-value=53 Score=25.99 Aligned_cols=10 Identities=60% Similarity=1.271 Sum_probs=8.0
Q ss_pred CCCCCCceeC
Q 016791 14 PNLPPGFRFH 23 (382)
Q Consensus 14 ~~LPPGfRF~ 23 (382)
...||||||-
T Consensus 35 veyppgfrfg 44 (74)
T PHA00692 35 VEYPPGFRFG 44 (74)
T ss_pred EecCCCcccc
Confidence 4679999995
No 3
>PF11386 VERL: Vitelline envelope receptor for lysin; InterPro: IPR021526 VERL, the egg vitelline envelope (VE) receptor for lysin, is a giant unbranched glycoprotein comprising 30% of the vitelline envelope. Lysin binds to VERL and creates a hole as VERL molecules lose cohesion and splay apart. These proteins are important in the mediation of fertilisation [].
Probab=16.77 E-value=40 Score=27.75 Aligned_cols=32 Identities=28% Similarity=0.496 Sum_probs=24.7
Q ss_pred chHHHHhhcCCCCCCCCCcccchhcccCCCCccCCccCCCCC
Q 016791 336 SSIATLLSQLPQTPPPPSIHQQAILGSLGDGIFRQPYHQLPG 377 (382)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 377 (382)
++|-.|+=|+|++ .++-++|-|||+-|| -+|+
T Consensus 7 sgfnmmrI~yp~n---------~~~~~pg~CVf~GPY-~Vp~ 38 (78)
T PF11386_consen 7 SGFNMMRIYYPSN---------KLLDSPGMCVFWGPY-SVPK 38 (78)
T ss_pred cceEEEEEEccCc---------ccCCCCccEEEecCc-ccCC
Confidence 4566677787776 256788999999999 8776
No 4
>COG3060 MetJ Transcriptional regulator of met regulon [Transcription / Amino acid transport and metabolism]
Probab=15.40 E-value=88 Score=26.51 Aligned_cols=39 Identities=33% Similarity=0.491 Sum_probs=31.7
Q ss_pred CCChHHHHHHHHHHhHcCCCCCccceeecCCCCCCCCCcCccc
Q 016791 23 HPTDEELVVHYLKKKASSAPLPVSIIAEVDLYKFDPWELPAKA 65 (382)
Q Consensus 23 ~PTDEELI~~YLrpKi~G~plp~~iI~evDVY~~ePweLP~~~ 65 (382)
|.|.-||++.-...-..|.|+|. +.|+.+.-|.++|+.+
T Consensus 51 hatnsellceaflhaftgqplpt----d~dl~ker~deipe~a 89 (105)
T COG3060 51 HATNSELLCEAFLHAFTGQPLPT----DADLRKERSDEIPEAA 89 (105)
T ss_pred hhhhHHHHHHHHHHHHcCCCCCC----cHHHHHhccccchHHH
Confidence 56778888776667889999995 5789999999999865
No 5
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=15.36 E-value=1.3e+02 Score=25.61 Aligned_cols=39 Identities=33% Similarity=0.467 Sum_probs=31.9
Q ss_pred CCChHHHHHHHHHHhHcCCCCCccceeecCCCCCCCCCcCccc
Q 016791 23 HPTDEELVVHYLKKKASSAPLPVSIIAEVDLYKFDPWELPAKA 65 (382)
Q Consensus 23 ~PTDEELI~~YLrpKi~G~plp~~iI~evDVY~~ePweLP~~~ 65 (382)
|-|.-||++.-...-..|+|||. +.|+-+..|.++|+.+
T Consensus 50 HATNSELLCEAFLHAfTGQPLP~----D~Dl~K~~~d~iP~~a 88 (103)
T cd00490 50 HATNSELLCEAFLHAFTGQPLPD----DADLRKERSDEIPEAA 88 (103)
T ss_pred hcccHHHHHHHHHHHhcCCCCCC----hhhhhhcCcccccHHH
Confidence 56778888876667889999996 4689999999999764
No 6
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=13.97 E-value=1.4e+02 Score=25.62 Aligned_cols=39 Identities=33% Similarity=0.450 Sum_probs=31.8
Q ss_pred CCChHHHHHHHHHHhHcCCCCCccceeecCCCCCCCCCcCccc
Q 016791 23 HPTDEELVVHYLKKKASSAPLPVSIIAEVDLYKFDPWELPAKA 65 (382)
Q Consensus 23 ~PTDEELI~~YLrpKi~G~plp~~iI~evDVY~~ePweLP~~~ 65 (382)
|-|.-||++.-...-..|+|||. +.|+-+..|.++|+.+
T Consensus 51 HATNSELLCEAFLHA~TGQPLP~----D~Dl~Kd~~d~ip~~a 89 (105)
T PRK05264 51 HATNSELLCEAFLHAFTGQPLPD----DEDLRKERSDEIPEAA 89 (105)
T ss_pred hcccHHHHHHHHHHHHcCCCCCC----hhhhhhcCcccchHHH
Confidence 56778888876667889999996 4689999999999754
No 7
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=13.60 E-value=1.9e+02 Score=19.42 Aligned_cols=17 Identities=41% Similarity=0.571 Sum_probs=13.9
Q ss_pred ChHHHHHHHHHHhHcCC
Q 016791 25 TDEELVVHYLKKKASSA 41 (382)
Q Consensus 25 TDEELI~~YLrpKi~G~ 41 (382)
+-.|||++|+.-|+.-.
T Consensus 4 ~nRelV~~yv~yKLsQr 20 (27)
T smart00265 4 DNRELVVDYVTYKLSQN 20 (27)
T ss_pred chHHHHHHHHHHHHhhc
Confidence 46899999999998643
No 8
>PF09174 Maf1: Maf1 regulator; InterPro: IPR015257 Maf1 is a negative regulator of RNA polymerase III [, ]. It targets the initiation factor TFIIIB []. ; PDB: 3NR5_A.
Probab=13.55 E-value=48 Score=30.74 Aligned_cols=12 Identities=25% Similarity=0.839 Sum_probs=6.9
Q ss_pred eeecCCCCCCCC
Q 016791 48 IAEVDLYKFDPW 59 (382)
Q Consensus 48 I~evDVY~~ePw 59 (382)
+.+||||.+.|.
T Consensus 137 l~~C~iYsy~pd 148 (179)
T PF09174_consen 137 LKDCDIYSYNPD 148 (179)
T ss_dssp GGG-EEEEE---
T ss_pred ccCceEEEEccC
Confidence 577999999984
No 9
>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=13.49 E-value=97 Score=27.84 Aligned_cols=11 Identities=55% Similarity=0.924 Sum_probs=9.7
Q ss_pred CCChHHHHHHH
Q 016791 23 HPTDEELVVHY 33 (382)
Q Consensus 23 ~PTDEELI~~Y 33 (382)
.||||||+..|
T Consensus 30 tPTeEeL~~r~ 40 (128)
T PF07960_consen 30 TPTEEELFKRY 40 (128)
T ss_pred CCCHHHHHHhc
Confidence 69999999876
No 10
>KOG1334 consensus WD40 repeat protein [General function prediction only]
Probab=13.13 E-value=2.4e+02 Score=30.86 Aligned_cols=51 Identities=20% Similarity=0.414 Sum_probs=27.8
Q ss_pred CChHHHHHHHHHHhHcCCCC--------Cccceee------cCCCCCCCCCcCccccCCceeEEEecc
Q 016791 24 PTDEELVVHYLKKKASSAPL--------PVSIIAE------VDLYKFDPWELPAKATFGEQEWYFFSP 77 (382)
Q Consensus 24 PTDEELI~~YLrpKi~G~pl--------p~~iI~e------vDVY~~ePweLP~~~~~Ge~eWYFFsp 77 (382)
+.| |.+.-|=.|++...+. |...+.+ +=+|.++|-||.+. +.+...|||.+
T Consensus 301 G~d-qf~RvYD~R~~~~e~~n~~~~~f~p~hl~~d~~v~ITgl~Ysh~~sElLaS--YnDe~IYLF~~ 365 (559)
T KOG1334|consen 301 GSD-QFARVYDQRRIDKEENNGVLDKFCPHHLVEDDPVNITGLVYSHDGSELLAS--YNDEDIYLFNK 365 (559)
T ss_pred Chh-hhhhhhcccchhhccccchhhhcCCccccccCcccceeEEecCCccceeee--ecccceEEecc
Confidence 444 4455677777765532 2222221 12567777777654 34566788853
Done!