Query 018950
Match_columns 348
No_of_seqs 236 out of 1021
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:26:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018950.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018950hhsearch_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-44 3.3E-49 307.9 7.3 127 12-138 1-129 (129)
2 PF02083 Urotensin_II: Urotens 29.9 17 0.00036 19.6 -0.1 7 342-348 4-10 (12)
3 PHA00692 hypothetical protein 27.1 23 0.0005 27.4 0.2 10 10-19 35-44 (74)
4 COG3060 MetJ Transcriptional r 17.0 69 0.0015 26.6 1.1 40 19-62 51-90 (105)
5 smart00265 BH4 BH4 Bcl-2 homol 16.8 1.1E+02 0.0024 20.0 1.8 20 21-40 4-23 (27)
6 cd00490 Met_repressor_MetJ Met 15.5 1.1E+02 0.0024 25.5 2.0 40 19-62 50-89 (103)
7 PF07960 CBP4: CBP4; InterPro 15.1 87 0.0019 27.6 1.3 11 19-29 30-40 (128)
8 PRK05264 transcriptional repre 13.5 1.3E+02 0.0027 25.3 1.8 40 19-62 51-90 (105)
9 PF13822 ACC_epsilon: Acyl-CoA 11.7 1.2E+02 0.0025 23.1 1.0 9 19-27 10-18 (62)
10 COG3670 Lignostilbene-alpha,be 11.5 1.8E+02 0.0039 31.0 2.5 29 6-34 286-320 (490)
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-44 Score=307.93 Aligned_cols=127 Identities=57% Similarity=1.124 Sum_probs=97.9
Q ss_pred CCCceeeCCCHHHHHHHHhhhhhcCCCCcc-cceeeccCCCCCCCCcccccccCCceEEEEEeccccCCCCCcccccccC
Q 018950 12 LPPGFRFHPTDEELITHYLTPKVFDGCFSA-RAIGEVDLNKCEPWDLPRRAKMGEKEWYFFCVRDRKYPTGLRTNRATEA 90 (348)
Q Consensus 12 LPpGfRF~PTDEELI~~YL~~Kv~g~~~~~-~~I~evDly~~ePwdLP~~~~~ge~eWYFFs~r~rky~~G~R~nRat~~ 90 (348)
|||||||+|||||||.+||++|+.+.+++. .+|.++|||.+|||+||.....++++||||+++++++.+|.|.+|++++
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 899999999999999999999999998876 7899999999999999964445677999999999999999999999999
Q ss_pred ceeeecCCCeeeee-CCceeeeEEEEEEeeccCCCCCCcCeEEEEEEeC
Q 018950 91 GYWKATGKDKEIYK-AKALVGMKKTLVFYKGRAPKGQKTNWVMHEYRLE 138 (348)
Q Consensus 91 GyWKatGk~k~I~~-~g~~VG~KKtLvFY~Grapkg~KT~WvMhEYrL~ 138 (348)
|+||++|++++|.. ++.+||+|++|+||.++.+++.||+|+||||+|+
T Consensus 81 G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 81 GYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp EEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred eEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 99999999999998 8899999999999999889999999999999985
No 2
>PF02083 Urotensin_II: Urotensin II; InterPro: IPR001483 Urotensin II, a small peptide that contains a disulphide bridge, was originally isolated from the caudal portion of the spinal cord of teleost and elasmobranch fish []. The peptide has also been found in the brain of frogs []. Urotensin II seems to be involved in smooth muscle stimulation.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=29.88 E-value=17 Score=19.59 Aligned_cols=7 Identities=43% Similarity=1.754 Sum_probs=5.3
Q ss_pred CcccCCC
Q 018950 342 LDCLWNY 348 (348)
Q Consensus 342 ~~~~w~~ 348 (348)
.+|||.|
T Consensus 4 ~~CFWKY 10 (12)
T PF02083_consen 4 SECFWKY 10 (12)
T ss_pred cchhhhh
Confidence 4788976
No 3
>PHA00692 hypothetical protein
Probab=27.06 E-value=23 Score=27.37 Aligned_cols=10 Identities=70% Similarity=1.524 Sum_probs=8.3
Q ss_pred CCCCCceeeC
Q 018950 10 IELPPGFRFH 19 (348)
Q Consensus 10 ~~LPpGfRF~ 19 (348)
++.||||||-
T Consensus 35 veyppgfrfg 44 (74)
T PHA00692 35 VEYPPGFRFG 44 (74)
T ss_pred EecCCCcccc
Confidence 5689999995
No 4
>COG3060 MetJ Transcriptional regulator of met regulon [Transcription / Amino acid transport and metabolism]
Probab=16.99 E-value=69 Score=26.58 Aligned_cols=40 Identities=25% Similarity=0.347 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHhhhhhcCCCCcccceeeccCCCCCCCCcccccc
Q 018950 19 HPTDEELITHYLTPKVFDGCFSARAIGEVDLNKCEPWDLPRRAK 62 (348)
Q Consensus 19 ~PTDEELI~~YL~~Kv~g~~~~~~~I~evDly~~ePwdLP~~~~ 62 (348)
|-|..||++.-...-..|+|++. +.|+.+.-|.++|+.++
T Consensus 51 hatnsellceaflhaftgqplpt----d~dl~ker~deipe~ak 90 (105)
T COG3060 51 HATNSELLCEAFLHAFTGQPLPT----DADLRKERSDEIPEAAK 90 (105)
T ss_pred hhhhHHHHHHHHHHHHcCCCCCC----cHHHHHhccccchHHHH
Confidence 56788888877777788998885 57999999999998775
No 5
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=16.82 E-value=1.1e+02 Score=20.02 Aligned_cols=20 Identities=25% Similarity=0.493 Sum_probs=15.8
Q ss_pred CHHHHHHHHhhhhhcCCCCc
Q 018950 21 TDEELITHYLTPKVFDGCFS 40 (348)
Q Consensus 21 TDEELI~~YL~~Kv~g~~~~ 40 (348)
.-.|||.+|+.-|+.-...+
T Consensus 4 ~nRelV~~yv~yKLsQrgy~ 23 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYE 23 (27)
T ss_pred chHHHHHHHHHHHHhhcCCC
Confidence 45799999999999765443
No 6
>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=15.53 E-value=1.1e+02 Score=25.51 Aligned_cols=40 Identities=25% Similarity=0.340 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHhhhhhcCCCCcccceeeccCCCCCCCCcccccc
Q 018950 19 HPTDEELITHYLTPKVFDGCFSARAIGEVDLNKCEPWDLPRRAK 62 (348)
Q Consensus 19 ~PTDEELI~~YL~~Kv~g~~~~~~~I~evDly~~ePwdLP~~~~ 62 (348)
|-|.-||++.-...-..|+|+|. +.||-+..|.++|+.++
T Consensus 50 HATNSELLCEAFLHAfTGQPLP~----D~Dl~K~~~d~iP~~ak 89 (103)
T cd00490 50 HATNSELLCEAFLHAFTGQPLPD----DADLRKERSDEIPEAAK 89 (103)
T ss_pred hcccHHHHHHHHHHHhcCCCCCC----hhhhhhcCcccccHHHH
Confidence 67888999887777888999986 47899999999998754
No 7
>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=15.09 E-value=87 Score=27.62 Aligned_cols=11 Identities=55% Similarity=1.005 Sum_probs=9.7
Q ss_pred CCCHHHHHHHH
Q 018950 19 HPTDEELITHY 29 (348)
Q Consensus 19 ~PTDEELI~~Y 29 (348)
.||||||+..|
T Consensus 30 tPTeEeL~~r~ 40 (128)
T PF07960_consen 30 TPTEEELFKRY 40 (128)
T ss_pred CCCHHHHHHhc
Confidence 49999999876
No 8
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=13.51 E-value=1.3e+02 Score=25.34 Aligned_cols=40 Identities=25% Similarity=0.323 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHhhhhhcCCCCcccceeeccCCCCCCCCcccccc
Q 018950 19 HPTDEELITHYLTPKVFDGCFSARAIGEVDLNKCEPWDLPRRAK 62 (348)
Q Consensus 19 ~PTDEELI~~YL~~Kv~g~~~~~~~I~evDly~~ePwdLP~~~~ 62 (348)
|-|.-||++.-...-..|+|+|. +-||-+..|.++|+.++
T Consensus 51 HATNSELLCEAFLHA~TGQPLP~----D~Dl~Kd~~d~ip~~ak 90 (105)
T PRK05264 51 HATNSELLCEAFLHAFTGQPLPD----DEDLRKERSDEIPEAAK 90 (105)
T ss_pred hcccHHHHHHHHHHHHcCCCCCC----hhhhhhcCcccchHHHH
Confidence 67888999887777888999986 47899999999997654
No 9
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=11.71 E-value=1.2e+02 Score=23.11 Aligned_cols=9 Identities=67% Similarity=0.999 Sum_probs=7.7
Q ss_pred CCCHHHHHH
Q 018950 19 HPTDEELIT 27 (348)
Q Consensus 19 ~PTDEELI~ 27 (348)
+||||||-.
T Consensus 10 nPt~eElAA 18 (62)
T PF13822_consen 10 NPTDEELAA 18 (62)
T ss_pred CCCHHHHHH
Confidence 799999865
No 10
>COG3670 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=11.47 E-value=1.8e+02 Score=30.99 Aligned_cols=29 Identities=31% Similarity=0.498 Sum_probs=20.3
Q ss_pred cccCCCCCCceeeCCC------HHHHHHHHhhhhh
Q 018950 6 DQEQIELPPGFRFHPT------DEELITHYLTPKV 34 (348)
Q Consensus 6 ~~~~~~LPpGfRF~PT------DEELI~~YL~~Kv 34 (348)
+-.+++++|||-||.. ||.++..|++-+-
T Consensus 286 ~irwfE~~p~fvfH~~NAye~~d~~v~~d~~~~~~ 320 (490)
T COG3670 286 EIRWFEAEPGFVFHFLNAYEEGDEVVLVDFLRYDD 320 (490)
T ss_pred ceeEEecCCeEEEEecceeecCCCcEEEEEEeecc
Confidence 4568899999999985 4555555555553
Done!