Query 008921
Match_columns 548
No_of_seqs 203 out of 978
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 18:14:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008921.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008921hhsearch_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 2.8E-41 6E-46 304.0 5.4 127 10-138 1-129 (129)
2 KOG3238 Chloride ion current i 18.3 1.2E+02 0.0025 30.9 3.1 66 7-72 106-171 (216)
3 PF05865 Cypo_polyhedrin: Cypo 15.4 1.3E+02 0.0028 29.8 2.7 28 90-117 140-168 (248)
4 smart00265 BH4 BH4 Bcl-2 homol 14.3 1.8E+02 0.0038 20.6 2.4 21 19-39 4-24 (27)
5 PF11669 WBP-1: WW domain-bind 11.6 1.4E+02 0.0031 26.7 1.7 14 526-539 23-36 (102)
6 PF10856 DUF2678: Protein of u 10.3 2.5E+02 0.0055 26.3 2.8 19 521-539 91-109 (118)
7 PF10954 DUF2755: Protein of u 10.3 2.1E+02 0.0046 25.8 2.2 20 516-535 20-39 (100)
8 TIGR03510 XapX XapX domain. Th 9.5 1.2E+02 0.0025 24.3 0.3 9 426-434 22-30 (49)
9 PF15281 Consortin_C: Consorti 9.1 3.8E+02 0.0083 24.9 3.4 41 502-546 34-75 (113)
10 cd06228 Peptidase_M14-like_3 A 9.1 2.4E+02 0.0052 30.4 2.6 39 470-508 274-316 (332)
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=2.8e-41 Score=303.99 Aligned_cols=127 Identities=53% Similarity=1.026 Sum_probs=97.5
Q ss_pred CCCCceeCCChHHHHHHHHHHHhcCCCCCC-CCeeecCCCCCCCCCCCcccccCCCCcceeeeeccccccCCCCcccccc
Q 008921 10 LAPGFRFHPTDEELVRYYLKRKVCHRSLRF-NPICVTDIYKSEPWDLPDKSSLKTRDKEWYFFSMLDKKYGNGSRTNRAT 88 (548)
Q Consensus 10 LPPGfRF~PTDEELV~~YLkrKi~G~pl~~-d~I~evDVY~~ePWdLP~~~~~~~~d~eWYFFs~r~kK~~nG~R~nRat 88 (548)
|||||||+|||+|||.+||++|+.|.+++. ++|+++|||.+|||+|+... +.++++||||+++++++.+|.|.+|++
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 68999999999999999532 345779999999999999999999999
Q ss_pred ccceeeecCCCceeec-CCeeEEEEEEEEeecCCCCCCCccCeEEEEEEeC
Q 008921 89 EKGYWKTTGKDRPVHH-NTRTVGMKKTLVYHMGRAPHGERTNWVMHEYRLT 138 (548)
Q Consensus 89 ggGyWKatGk~r~I~~-~g~vVG~KKtLvFy~Grap~G~kT~WvMhEYrL~ 138 (548)
++|+||.+|+.++|.. ++++||+||+|+||.++.+++.+|+|+||||+|.
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 9999999999999997 9999999999999999888999999999999984
No 2
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=18.26 E-value=1.2e+02 Score=30.91 Aligned_cols=66 Identities=18% Similarity=0.283 Sum_probs=42.0
Q ss_pred CCCCCCCceeCCChHHHHHHHHHHHhcCCCCCCCCeeecCCCCCCCCCCCcccccCCCCcceeeee
Q 008921 7 STSLAPGFRFHPTDEELVRYYLKRKVCHRSLRFNPICVTDIYKSEPWDLPDKSSLKTRDKEWYFFS 72 (548)
Q Consensus 7 ~~~LPPGfRF~PTDEELV~~YLkrKi~G~pl~~d~I~evDVY~~ePWdLP~~~~~~~~d~eWYFFs 72 (548)
....--+|||+|+|.--+..--......+.+.++...+.+-|.-+=|+.-......+....||=+.
T Consensus 106 dve~i~e~rfvpsDk~~l~a~f~qfcecqel~p~P~ED~~~~dgee~~mea~d~~~gDs~~~~t~d 171 (216)
T KOG3238|consen 106 DVEPITEFRFVPSDKSALEAMFTQFCECQELNPDPDEDEDDYDGEEYDMEAHDAGQGDSPNSYTYD 171 (216)
T ss_pred cccccccceecCCchhHHHHHHHHHHhhhhcCCCccccccccccchhhhhhhhccCCCCccccccc
Confidence 345667899999998777764444455666655556667777777777655544444455555443
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=15.40 E-value=1.3e+02 Score=29.80 Aligned_cols=28 Identities=29% Similarity=0.530 Sum_probs=18.5
Q ss_pred cceeeecC-CCceeecCCeeEEEEEEEEe
Q 008921 90 KGYWKTTG-KDRPVHHNTRTVGMKKTLVY 117 (548)
Q Consensus 90 gGyWKatG-k~r~I~~~g~vVG~KKtLvF 117 (548)
.--|.+|| +-|.|..+|++||+...|..
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 34699999 67888899999999988865
No 4
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=14.30 E-value=1.8e+02 Score=20.64 Aligned_cols=21 Identities=24% Similarity=0.441 Sum_probs=16.4
Q ss_pred ChHHHHHHHHHHHhcCCCCCC
Q 008921 19 TDEELVRYYLKRKVCHRSLRF 39 (548)
Q Consensus 19 TDEELV~~YLkrKi~G~pl~~ 39 (548)
+-.|||.+|+.-|+.-+..++
T Consensus 4 ~nRelV~~yv~yKLsQrgy~w 24 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYEW 24 (27)
T ss_pred chHHHHHHHHHHHHhhcCCCC
Confidence 457999999999998665543
No 5
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=11.64 E-value=1.4e+02 Score=26.69 Aligned_cols=14 Identities=14% Similarity=0.745 Sum_probs=9.4
Q ss_pred HHHHHHHHHHhhee
Q 008921 526 LLLFLWIIILSVGF 539 (548)
Q Consensus 526 ~~~f~~~~~l~~s~ 539 (548)
+|.++|+||+++|+
T Consensus 23 ~FWlv~~liill~c 36 (102)
T PF11669_consen 23 YFWLVWVLIILLSC 36 (102)
T ss_pred HHHHHHHHHHHHHH
Confidence 45557888877664
No 6
>PF10856 DUF2678: Protein of unknown function (DUF2678); InterPro: IPR022564 This family of proteins has no known function.
Probab=10.34 E-value=2.5e+02 Score=26.26 Aligned_cols=19 Identities=26% Similarity=0.347 Sum_probs=16.3
Q ss_pred hhHHHHHHHHHHHHHhhee
Q 008921 521 FRSLWLLLFLWIIILSVGF 539 (548)
Q Consensus 521 ~r~~~~~~f~~~~~l~~s~ 539 (548)
.|-.+|++++++++|.++-
T Consensus 91 fr~li~~~~~~ivllci~a 109 (118)
T PF10856_consen 91 FRYLIYYNCFSIVLLCICA 109 (118)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 7999999999999887763
No 7
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=10.30 E-value=2.1e+02 Score=25.75 Aligned_cols=20 Identities=20% Similarity=0.373 Sum_probs=14.5
Q ss_pred ccchhhhHHHHHHHHHHHHH
Q 008921 516 TGSVVFRSLWLLLFLWIIIL 535 (548)
Q Consensus 516 t~~~v~r~~~~~~f~~~~~l 535 (548)
|..-+.-+.|.||||||=--
T Consensus 20 t~gNiAYAlFVLfcfWaGaQ 39 (100)
T PF10954_consen 20 TPGNIAYALFVLFCFWAGAQ 39 (100)
T ss_pred CcchhHHHHHHHHHHHhhHH
Confidence 33346678999999998543
No 8
>TIGR03510 XapX XapX domain. This model describes an uncharacterized small, hydrophobic protein of about 50 amino acids, found between the xapB and xapR genes of the E. coli xanthosine utilization system, and homologous regions in other small proteins, such as the N-terminal region of DUF1427 (Pfam model pfam07235). We name this domain XapX, as it comprises the full length of the protein encoded between the genes for the well-studied XapB and XapR proteins.
Probab=9.53 E-value=1.2e+02 Score=24.28 Aligned_cols=9 Identities=33% Similarity=0.490 Sum_probs=7.1
Q ss_pred CCCCCcccc
Q 008921 426 NVAAAPAFA 434 (548)
Q Consensus 426 ~ipappa~a 434 (548)
-|||||..|
T Consensus 22 p~PAPP~la 30 (49)
T TIGR03510 22 PSPAPPVLA 30 (49)
T ss_pred CCCCCchHH
Confidence 479999876
No 9
>PF15281 Consortin_C: Consortin C-terminus
Probab=9.13 E-value=3.8e+02 Score=24.91 Aligned_cols=41 Identities=29% Similarity=0.283 Sum_probs=23.7
Q ss_pred CCCC-CCCcccccCcccchhhhHHHHHHHHHHHHHhheeeeeeEEe
Q 008921 502 PTSF-EPAGNIFSGKTGSVVFRSLWLLLFLWIIILSVGFKIGACVS 546 (548)
Q Consensus 502 ~~~~-~~~~~~~~~~t~~~v~r~~~~~~f~~~~~l~~s~k~g~~i~ 546 (548)
-|-| ||+....- --+...+|..|+|+|+--++||+ .|+.+|
T Consensus 34 rVRF~eped~~dq-d~~~g~Scl~L~LlclvTv~lS~---gGTALY 75 (113)
T PF15281_consen 34 RVRFQEPEDTLDQ-DEVGGDSCLLLLLLCLVTVVLSV---GGTALY 75 (113)
T ss_pred eeeeeCccccccc-cccCCCccHHHHHHHHHHHHHhc---cceEEE
Confidence 5666 66654330 11223467777887776666655 677776
No 10
>cd06228 Peptidase_M14-like_3 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=9.11 E-value=2.4e+02 Score=30.45 Aligned_cols=39 Identities=21% Similarity=0.378 Sum_probs=31.1
Q ss_pred ecCCCccccccc---CCCeeEEEEEeeccCCCCCC-CCCCCCC
Q 008921 470 LSGSGLDWSVGK---NGDMNIVFSFDLSQNVISPS-PTSFEPA 508 (548)
Q Consensus 470 ~~~~~~~w~~~k---ng~~~~~~s~~~~~~~~~~~-~~~~~~~ 508 (548)
.+|+++||.++. +|...+.+||++|=++..+. ..||.|.
T Consensus 274 ~sG~s~D~ay~~~~~~~~~~~~~s~t~El~~~~~~~~~gF~~p 316 (332)
T cd06228 274 TSGASDDYAFSRHFADAVKRKVFSYTIEFGETNSEAECPFYPT 316 (332)
T ss_pred CCCChhhhhhhccccccccCceEEEEEEeCCCCCCCCcCCCCC
Confidence 469999999984 78888999999998877643 5578664
Done!