Query 007432
Match_columns 604
No_of_seqs 198 out of 976
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 23:31:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007432.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007432hhsearch_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 6.7E-41 1.4E-45 304.8 6.7 127 9-137 1-129 (129)
2 PHA03054 IMV membrane protein; 34.1 51 0.0011 28.6 3.4 42 557-601 29-70 (72)
3 PHA00476 hypothetical protein 32.7 41 0.00088 31.1 2.8 22 576-598 39-60 (110)
4 PHA02692 hypothetical protein; 30.9 54 0.0012 28.4 3.1 23 557-582 29-51 (70)
5 PHA02844 putative transmembran 29.5 62 0.0013 28.3 3.2 20 557-576 29-48 (75)
6 PF15176 LRR19-TM: Leucine-ric 28.4 95 0.0021 28.7 4.4 24 581-604 24-50 (102)
7 PHA02650 hypothetical protein; 24.1 91 0.002 27.6 3.3 14 587-600 64-77 (81)
8 PHA02849 putative transmembran 21.9 1E+02 0.0023 27.3 3.2 35 566-601 10-44 (82)
9 PHA02819 hypothetical protein; 19.1 1.4E+02 0.003 26.0 3.4 41 557-602 29-69 (71)
10 PHA02975 hypothetical protein; 16.8 1.3E+02 0.0028 26.0 2.7 9 557-565 29-37 (69)
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=6.7e-41 Score=304.78 Aligned_cols=127 Identities=56% Similarity=1.086 Sum_probs=97.2
Q ss_pred CCCCceeCCChHHHHHHHHHHHHcCCCCCC-CceeeccCCCCCCCCCCcccccccCCceEEEeeccCCCCCCCCCccccc
Q 007432 9 LPLGFRFRPTDEELVDFYLRMKINGHNDEV-SVISEIDVCKREPWDLPDLSVIKTKDREWFFFCPQDRKYPNGHRLNRAT 87 (604)
Q Consensus 9 LPpGFRF~PTDEELI~~YLr~KI~G~plp~-~~I~evDVY~~ePWdLP~~s~~~~~d~eWYFFspr~rKypnGsR~nRat 87 (604)
|||||||+|||+|||.+||++|+.|.+++. .+|+++|||.+|||+||.. .+.++.+||||+++++++++|.|.+|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~--~~~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAK--FKGGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHH--SSS-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhh--ccCCCceEEEEEecccccCCcccccccc
Confidence 899999999999999999999999999887 8999999999999999942 2346679999999999999999999999
Q ss_pred ccceeeeeCCceeeec-CceeeeeEEEEEEeeCCCCCCCCcCeEEEEEEeC
Q 007432 88 AAGYWKATGKDRKIKS-GNHLIGMKKTLVFHMGRAPKGKRTNWVMHEYRAT 137 (604)
Q Consensus 88 g~GyWKatGk~k~I~s-gg~vVG~KKtLvFy~Grapkg~KT~WvMhEYrL~ 137 (604)
++|+||++|+.++|.. ++.+||+||+|+||.++.+++.+|+|+||||+|.
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 9999999999999987 8899999999999999889999999999999983
No 2
>PHA03054 IMV membrane protein; Provisional
Probab=34.10 E-value=51 Score=28.60 Aligned_cols=42 Identities=17% Similarity=0.189 Sum_probs=18.0
Q ss_pred eeeeccCCcccccCccccchhHHHHHHHHHHHHHHHHHhhhhhhh
Q 007432 557 TVLMDKDTSNTFRAGHSNRSFAVLFRAAAVVVMFAILVSTWRCLC 601 (604)
Q Consensus 557 ~~~~~kv~s~~~kas~s~~~s~~~~~~a~vlv~~~~l~~~w~~l~ 601 (604)
+++.+|-|....+-+++..|. .+..++++++++++.- +-||+
T Consensus 29 sVl~dk~~~~~~~~~~~~~~~--~~ii~l~~v~~~~l~~-flYLK 70 (72)
T PHA03054 29 SVLSDEKTVTSTNNTGCWGWY--WLIIIFFIVLILLLLI-YLYLK 70 (72)
T ss_pred HHHcCCCCcccccccCCchHH--HHHHHHHHHHHHHHHH-HHHHh
Confidence 567777554221223333342 2233344444444433 44554
No 3
>PHA00476 hypothetical protein
Probab=32.67 E-value=41 Score=31.06 Aligned_cols=22 Identities=27% Similarity=0.664 Sum_probs=19.3
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhh
Q 007432 576 SFAVLFRAAAVVVMFAILVSTWR 598 (604)
Q Consensus 576 ~s~~~~~~a~vlv~~~~l~~~w~ 598 (604)
||+++|.|+++||+++.| ++|-
T Consensus 39 lssfvfsSvallvil~~L-~TW~ 60 (110)
T PHA00476 39 LSSFVFSSVALLVILVLL-GTWS 60 (110)
T ss_pred HHHHHHHHHHHHHHHHHH-hccc
Confidence 788999999999988888 9994
No 4
>PHA02692 hypothetical protein; Provisional
Probab=30.86 E-value=54 Score=28.36 Aligned_cols=23 Identities=17% Similarity=0.168 Sum_probs=13.4
Q ss_pred eeeeccCCcccccCccccchhHHHHH
Q 007432 557 TVLMDKDTSNTFRAGHSNRSFAVLFR 582 (604)
Q Consensus 557 ~~~~~kv~s~~~kas~s~~~s~~~~~ 582 (604)
+++++|.++ +++++..|..+++.
T Consensus 29 sVLtDk~~~---~~~~~~~~~~~ii~ 51 (70)
T PHA02692 29 TVMTEKPAC---DRSKGVPWTTVFLI 51 (70)
T ss_pred HHHcCCCcc---cccCCcchHHHHHH
Confidence 568888655 55555556444433
No 5
>PHA02844 putative transmembrane protein; Provisional
Probab=29.50 E-value=62 Score=28.32 Aligned_cols=20 Identities=20% Similarity=0.087 Sum_probs=9.6
Q ss_pred eeeeccCCcccccCccccch
Q 007432 557 TVLMDKDTSNTFRAGHSNRS 576 (604)
Q Consensus 557 ~~~~~kv~s~~~kas~s~~~ 576 (604)
++|++|.++...+-+++..|
T Consensus 29 sVLtd~~~s~~~~~~~~~~~ 48 (75)
T PHA02844 29 SVLSDDYDGVNKNNVCSSST 48 (75)
T ss_pred HHHcCCCCCccccccCChhH
Confidence 56778744433233333334
No 6
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=28.35 E-value=95 Score=28.66 Aligned_cols=24 Identities=17% Similarity=0.319 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHH---hhhhhhhccC
Q 007432 581 FRAAAVVVMFAILV---STWRCLCLNF 604 (604)
Q Consensus 581 ~~~a~vlv~~~~l~---~~w~~l~~~~ 604 (604)
|+.|+++.++++|+ -+|+.+.++|
T Consensus 24 v~~al~~SlLIalaaKC~~~~k~~~SY 50 (102)
T PF15176_consen 24 VVTALVTSLLIALAAKCPVWYKYLASY 50 (102)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHhcc
Confidence 33444444444443 4688777654
No 7
>PHA02650 hypothetical protein; Provisional
Probab=24.08 E-value=91 Score=27.64 Aligned_cols=14 Identities=21% Similarity=0.252 Sum_probs=6.9
Q ss_pred HHHHHHHHhhhhhh
Q 007432 587 VVMFAILVSTWRCL 600 (604)
Q Consensus 587 lv~~~~l~~~w~~l 600 (604)
+++|+.|--+||.|
T Consensus 64 l~~flYLK~~~r~~ 77 (81)
T PHA02650 64 LFSFFVFKGYTRNL 77 (81)
T ss_pred HHHHHHHHHhcccc
Confidence 33444455556654
No 8
>PHA02849 putative transmembrane protein; Provisional
Probab=21.95 E-value=1e+02 Score=27.28 Aligned_cols=35 Identities=17% Similarity=0.358 Sum_probs=22.1
Q ss_pred ccccCccccchhHHHHHHHHHHHHHHHHHhhhhhhh
Q 007432 566 NTFRAGHSNRSFAVLFRAAAVVVMFAILVSTWRCLC 601 (604)
Q Consensus 566 ~~~kas~s~~~s~~~~~~a~vlv~~~~l~~~w~~l~ 601 (604)
+.+-+|..+-.+..++++.+.+.+++-|+. |-|++
T Consensus 10 ~~f~~g~v~vi~v~v~vI~i~~flLlyLvk-ws~v~ 44 (82)
T PHA02849 10 IEFDAGAVTVILVFVLVISFLAFMLLYLIK-WSYVI 44 (82)
T ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 345667666555556666666667776776 87764
No 9
>PHA02819 hypothetical protein; Provisional
Probab=19.06 E-value=1.4e+02 Score=25.95 Aligned_cols=41 Identities=17% Similarity=0.163 Sum_probs=16.5
Q ss_pred eeeeccCCcccccCccccchhHHHHHHHHHHHHHHHHHhhhhhhhc
Q 007432 557 TVLMDKDTSNTFRAGHSNRSFAVLFRAAAVVVMFAILVSTWRCLCL 602 (604)
Q Consensus 557 ~~~~~kv~s~~~kas~s~~~s~~~~~~a~vlv~~~~l~~~w~~l~~ 602 (604)
++|++ ++...+-+++..| ..+..++++++++++.- +-||++
T Consensus 29 sVLtd--~s~~~~~~~~~~~--~~~ii~l~~~~~~~~~~-flYLK~ 69 (71)
T PHA02819 29 SVLNN--ENYNKKTKKSFLR--YYLIIGLVTIVFVIIFI-IFYLKV 69 (71)
T ss_pred HHHcC--CCCcccccCChhH--HHHHHHHHHHHHHHHHH-HHHHHh
Confidence 45666 3322233333334 22333344444444433 445543
No 10
>PHA02975 hypothetical protein; Provisional
Probab=16.75 E-value=1.3e+02 Score=26.02 Aligned_cols=9 Identities=33% Similarity=0.394 Sum_probs=5.7
Q ss_pred eeeeccCCc
Q 007432 557 TVLMDKDTS 565 (604)
Q Consensus 557 ~~~~~kv~s 565 (604)
++|++|-++
T Consensus 29 sVLtdk~~~ 37 (69)
T PHA02975 29 HVLTGKKEP 37 (69)
T ss_pred HHHcCCCCC
Confidence 567887543
Done!