Query 016181
Match_columns 394
No_of_seqs 166 out of 922
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 04:32:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016181.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016181hhsearch_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 4.1E-42 8.9E-47 296.4 8.4 127 28-161 1-129 (129)
2 KOG4286 Dystrophin-like protei 15.7 44 0.00095 38.2 -0.4 63 124-193 612-687 (966)
3 smart00265 BH4 BH4 Bcl-2 homol 15.0 1.7E+02 0.0036 19.8 2.3 19 37-55 4-22 (27)
4 PHA00692 hypothetical protein 14.7 63 0.0014 25.8 0.3 10 26-35 35-44 (74)
5 PHA00724 hypothetical protein 14.1 65 0.0014 26.6 0.2 14 266-279 43-56 (83)
6 PF07960 CBP4: CBP4; InterPro 11.6 1.2E+02 0.0025 27.5 1.1 11 35-45 30-40 (128)
7 cd00265 MADS_MEF2_like MEF2 (m 10.7 1.8E+02 0.0039 23.5 1.8 22 355-376 49-70 (77)
8 PRK11560 phosphoethanolamine t 10.0 1.7E+02 0.0036 32.2 1.8 30 307-339 525-554 (558)
9 KOG3238 Chloride ion current i 9.9 3.4E+02 0.0073 26.6 3.5 52 25-78 106-157 (216)
10 PLN02417 dihydrodipicolinate s 9.2 1.8E+02 0.0038 28.6 1.5 19 27-46 102-120 (280)
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=4.1e-42 Score=296.37 Aligned_cols=127 Identities=38% Similarity=0.649 Sum_probs=94.6
Q ss_pred CCCCceecCChHHHHHHHHHHhhcCCCCCCCCCceeeccCCCCCccccccccccCCCceEEEEEcccccccCCCcceeec
Q 016181 28 KVDGIKFKPTAEVLIFVYLAGMVSGSTDGPIFPLIQEVDVYQYEPSKLKSKAHDFGDGNMYFFSRVQKKYKKGSIRERKA 107 (394)
Q Consensus 28 LPPGFRF~PTDEELV~~YLr~Ki~G~pl~~~~~~I~evDVY~~ePWdLP~~~~~~gd~eWYFFspR~rKy~nG~R~nR~t 107 (394)
|||||||+|||||||.+||++|+.|.+++ ...+|+++|||++|||+|+.... .++++||||+++++++.++.|.+|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~-~~~~i~~~Diy~~~P~~L~~~~~-~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLP-CEDVIHDVDIYSAHPWELPAKFK-GGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHC-S-CHSEE--GGGS-GGGCHHHSS-S-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCC-cccceeecccCccChHHhhhhcc-CCCceEEEEEecccccCCcccccccc
Confidence 89999999999999999999999999982 34889999999999999995333 35689999999999999999999999
Q ss_pred cCceEe-cCCceeeec-CCCeEEEEEEEeeeeccCCCCCCCCCCCcCeEEEEEEeC
Q 016181 108 KGGFWK-TGKCNTVRG-KDGGTGTERSLTYYSYRHDPKPGEKPIKTHWLMREYMLK 161 (394)
Q Consensus 108 ggGyWK-TG~~K~I~s-~g~vIG~KKtLvFY~gr~~pkkG~~~~KT~WvMhEYrL~ 161 (394)
++|+|| +|+++.|.+ +|.+||+|++|+||.++. + ++ .+|+|+||||+|.
T Consensus 79 ~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~-~-~~---~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 79 GGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKS-P-NG---KKTGWVMHEYSLE 129 (129)
T ss_dssp TTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESST-T-S----EEEEEEEEEEEE-
T ss_pred cceEEeecccccccccccceeeeeEEEEEEEeccC-C-CC---CcCCeEEEEEEeC
Confidence 999999 999999999 999999999999998766 4 67 8999999999984
No 2
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=15.75 E-value=44 Score=38.19 Aligned_cols=63 Identities=21% Similarity=0.186 Sum_probs=43.2
Q ss_pred CCeEEEE-EEEe----------eeeccCCCCCCCCCCCcCeEEEEEEeCCCCCccccCcce--EEEEEEEeCCCCCcccc
Q 016181 124 DGGTGTE-RSLT----------YYSYRHDPKPGEKPIKTHWLMREYMLKRPKNDKESMLMQ--ALCVVYFHGQRDNEDKQ 190 (394)
Q Consensus 124 g~vIG~K-KtLv----------FY~gr~~pkkG~~~~KT~WvMhEYrL~~~~~~~~~~~~~--VLCRIykK~~~~~~~k~ 190 (394)
--+||+| |+|+ |..|++ . +| .|++.-|.||......... ..++ |||--|+.+++-.+..+
T Consensus 612 ~pIvG~RyR~l~~fn~dlCq~CF~sgra-a-k~---hk~~~pM~Ey~~~tts~~d--~rdfak~L~nkfr~~~~~a~~~r 684 (966)
T KOG4286|consen 612 CPIIGFRYRSLKHFNYDICQSCFFSGRA-A-KG---HKMHYPMVEYCTPTTSGED--VRDFAKVLKNKFRTKRYFAKHPR 684 (966)
T ss_pred CccceeeeeehhhcChhHHhhHhhhccc-c-cC---CCCCCCceeeeCCCCChhh--HHHHHHHHHhhhccchhhhcccc
Confidence 3688988 4454 356888 5 88 9999999999998775422 1222 89988887766555544
Q ss_pred CCC
Q 016181 191 NSH 193 (394)
Q Consensus 191 ~~~ 193 (394)
..+
T Consensus 685 rGy 687 (966)
T KOG4286|consen 685 RGY 687 (966)
T ss_pred cCC
Confidence 443
No 3
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=15.02 E-value=1.7e+02 Score=19.85 Aligned_cols=19 Identities=16% Similarity=0.130 Sum_probs=15.7
Q ss_pred ChHHHHHHHHHHhhcCCCC
Q 016181 37 TAEVLIFVYLAGMVSGSTD 55 (394)
Q Consensus 37 TDEELV~~YLr~Ki~G~pl 55 (394)
+-.|||.+|+.-|+.-+..
T Consensus 4 ~nRelV~~yv~yKLsQrgy 22 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGY 22 (27)
T ss_pred chHHHHHHHHHHHHhhcCC
Confidence 4579999999999987655
No 4
>PHA00692 hypothetical protein
Probab=14.69 E-value=63 Score=25.81 Aligned_cols=10 Identities=20% Similarity=0.341 Sum_probs=8.2
Q ss_pred CCCCCCceec
Q 016181 26 WKKVDGIKFK 35 (394)
Q Consensus 26 ~~LPPGFRF~ 35 (394)
+..||||||-
T Consensus 35 veyppgfrfg 44 (74)
T PHA00692 35 VEYPPGFRFG 44 (74)
T ss_pred EecCCCcccc
Confidence 4679999995
No 5
>PHA00724 hypothetical protein
Probab=14.05 E-value=65 Score=26.58 Aligned_cols=14 Identities=50% Similarity=0.486 Sum_probs=11.6
Q ss_pred CCCCCCcccccCCc
Q 016181 266 SFQNTTDITFASWG 279 (394)
Q Consensus 266 ~~~~~~~~~~~~~~ 279 (394)
+-||-|||+||.++
T Consensus 43 fv~~~tditfsast 56 (83)
T PHA00724 43 FVQNYTDITFSAST 56 (83)
T ss_pred EEecCceeEEecch
Confidence 45899999999876
No 6
>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=11.64 E-value=1.2e+02 Score=27.50 Aligned_cols=11 Identities=45% Similarity=0.588 Sum_probs=9.2
Q ss_pred cCChHHHHHHH
Q 016181 35 KPTAEVLIFVY 45 (394)
Q Consensus 35 ~PTDEELV~~Y 45 (394)
.||||||+..|
T Consensus 30 tPTeEeL~~r~ 40 (128)
T PF07960_consen 30 TPTEEELFKRY 40 (128)
T ss_pred CCCHHHHHHhc
Confidence 49999999765
No 7
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=10.66 E-value=1.8e+02 Score=23.50 Aligned_cols=22 Identities=27% Similarity=0.516 Sum_probs=18.5
Q ss_pred cCCCCccccCchhHHHHHHHhh
Q 016181 355 ADGSPYQYSSNDDIQLLEQYLF 376 (394)
Q Consensus 355 ~~~~~~~~~~~~~~~~~~~~~~ 376 (394)
.+|.+|.|++...-+.|+.|+=
T Consensus 49 p~gk~~~f~s~s~~~vl~ry~~ 70 (77)
T cd00265 49 SSGKLYEFSSPSMEKIIERYQK 70 (77)
T ss_pred CCCceEEecCCCHHHHHHHHHh
Confidence 3589999999888889999873
No 8
>PRK11560 phosphoethanolamine transferase; Provisional
Probab=9.98 E-value=1.7e+02 Score=32.20 Aligned_cols=30 Identities=30% Similarity=0.680 Sum_probs=24.4
Q ss_pred CChhhhhhhhhcCCCCCCccccccCCCCccccc
Q 016181 307 SSNSFQNMINMMGVSSAAPADSIINTPNNWCST 339 (394)
Q Consensus 307 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 339 (394)
.-+=|.-++.++||. ..|.++|--||||+.
T Consensus 525 ~~dlf~TlL~~~gv~---~p~~~~~~~~~~~~~ 554 (558)
T PRK11560 525 HVELFDTILGCLGYT---SPDGGINENNNWCHI 554 (558)
T ss_pred ehhHHHHHHHHcCCC---CChhhccccCCcccC
Confidence 446688899999997 567888877999974
No 9
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=9.86 E-value=3.4e+02 Score=26.58 Aligned_cols=52 Identities=12% Similarity=0.174 Sum_probs=29.8
Q ss_pred cCCCCCCceecCChHHHHHHHHHHhhcCCCCCCCCCceeeccCCCCCccccccc
Q 016181 25 TWKKVDGIKFKPTAEVLIFVYLAGMVSGSTDGPIFPLIQEVDVYQYEPSKLKSK 78 (394)
Q Consensus 25 ~~~LPPGFRF~PTDEELV~~YLr~Ki~G~pl~~~~~~I~evDVY~~ePWdLP~~ 78 (394)
.+..--+|||+|+|.--+.-----......+- +.+ ..+.|-|.-+=|+.-..
T Consensus 106 dve~i~e~rfvpsDk~~l~a~f~qfcecqel~-p~P-~ED~~~~dgee~~mea~ 157 (216)
T KOG3238|consen 106 DVEPITEFRFVPSDKSALEAMFTQFCECQELN-PDP-DEDEDDYDGEEYDMEAH 157 (216)
T ss_pred cccccccceecCCchhHHHHHHHHHHhhhhcC-CCc-cccccccccchhhhhhh
Confidence 45677899999999876554222233333331 112 45556666666666543
No 10
>PLN02417 dihydrodipicolinate synthase
Probab=9.22 E-value=1.8e+02 Score=28.58 Aligned_cols=19 Identities=21% Similarity=-0.041 Sum_probs=14.8
Q ss_pred CCCCCceecCChHHHHHHHH
Q 016181 27 KKVDGIKFKPTAEVLIFVYL 46 (394)
Q Consensus 27 ~LPPGFRF~PTDEELV~~YL 46 (394)
.+|| +.|.||++||+.||-
T Consensus 102 ~~~P-~y~~~~~~~i~~~f~ 120 (280)
T PLN02417 102 HINP-YYGKTSQEGLIKHFE 120 (280)
T ss_pred EcCC-ccCCCCHHHHHHHHH
Confidence 3455 668999999999874
Done!