Query         537021.9.peg.21_1
Match_columns 44
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Sun May 22 08:16:47 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_21.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PTZ00013 plasmepsin 4 (PM4); P  39.1      28 0.00072   17.0   2.6   23    4-26     91-113 (450)
  2 PTZ00147 histoaspartic proteas  37.3      31 0.00078   16.8   2.6   23    4-26     92-114 (453)
  3 PHA01750 hypothetical protein   30.6      33 0.00084   16.7   1.9   21    1-21     31-51  (75)
  4 pfam06239 ECSIT Evolutionarily  29.2      54  0.0014   15.6   3.1   26    4-29    121-149 (229)
  5 COG4670 Acyl CoA:acetate/3-ket  23.4      29 0.00074   16.9   0.5   14    3-16    482-495 (527)
  6 pfam09274 ParG ParG. Members o  11.6 1.3E+02  0.0033   13.8   1.5   16    6-21     60-75  (76)
  7 pfam09188 DUF1951 Domain of un  10.2 1.6E+02  0.0042   13.3   2.0   22   13-34      1-22  (137)
  8 pfam01763 Herpes_UL6 Herpesvir   9.6 1.4E+02  0.0037   13.5   1.2   15    4-18    271-285 (551)
  9 pfam07599 DUF1563 Protein of u   9.2 1.4E+02  0.0036   13.6   0.9   10   34-43     25-34  (46)
 10 TIGR02982 heterocyst_DevA ABC    8.6 1.1E+02  0.0029   14.1   0.3   15    3-18    205-219 (220)

No 1  
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=39.06  E-value=28  Score=16.99  Aligned_cols=23  Identities=43%  Similarity=0.686  Sum_probs=19.2

Q ss_conf             68999997644434556589999
Q 537021.9.peg.2    4 DVAKDILNHMEDNYLKESYIYFF   26 (44)
Q Consensus         4 dvakdilnhmednylkesyiyff   26 (44)
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~  113 (450)
T PTZ00013         91 KVLKSILKKKLKNYIKESFKFFK  113 (450)
T ss_conf             99999998768899999999876

No 2  
>PTZ00147 histoaspartic protease (plasmepsin I or II); Provisional
Probab=37.31  E-value=31  Score=16.81  Aligned_cols=23  Identities=39%  Similarity=0.574  Sum_probs=19.2

Q ss_conf             68999997644434556589999
Q 537021.9.peg.2    4 DVAKDILNHMEDNYLKESYIYFF   26 (44)
Q Consensus         4 dvakdilnhmednylkesyiyff   26 (44)
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~  114 (453)
T PTZ00147         92 RIMKTIKEHKLKNYIKESVKFFN  114 (453)
T ss_conf             99999988667899999999876

No 3  
>PHA01750 hypothetical protein
Probab=30.59  E-value=33  Score=16.67  Aligned_cols=21  Identities=33%  Similarity=0.365  Sum_probs=18.2

Q ss_conf             944689999976444345565
Q 537021.9.peg.2    1 MFYDVAKDILNHMEDNYLKES   21 (44)
Q Consensus         1 mfydvakdilnhmednylkes   21 (44)
T Consensus        31 ~~~davk~iv~~eldnl~~ei   51 (75)
T PHA01750         31 ALKDAVKEIVNSELDNLKTEI   51 (75)
T ss_conf             999999999999898899999

No 4  
>pfam06239 ECSIT Evolutionarily conserved signalling intermediate in Toll pathway. Activation of NF-kappaB as a consequence of signaling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signaling pathways between TRAF-6 and MEKK-1.
Probab=29.19  E-value=54  Score=15.59  Aligned_cols=26  Identities=27%  Similarity=0.480  Sum_probs=17.3

Q ss_conf             68999997644434556---589999998
Q 537021.9.peg.2    4 DVAKDILNHMEDNYLKE---SYIYFFDIF   29 (44)
Q Consensus         4 dvakdilnhmednylke---syiyffdif   29 (44)
                      ++|-|+|+.||+|-..-   ..--..+||
T Consensus       121 ~cai~vLeqME~~gV~Pd~E~~~ll~~iF  149 (229)
T pfam06239       121 QCAIDVLEQMENHGVMPDKETEFLLVNIF  149 (229)
T ss_conf             99999999999838889589999999996

No 5  
>COG4670 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]
Probab=23.40  E-value=29  Score=16.93  Aligned_cols=14  Identities=50%  Similarity=0.691  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             46899999764443
Q 537021.9.peg.2    3 YDVAKDILNHMEDN   16 (44)
Q Consensus         3 ydvakdilnhmedn   16 (44)
T Consensus       482 vDlekDIL~qmef~  495 (527)
T COG4670         482 VDLEKDILDQMEFE  495 (527)
T ss_pred             CCHHHHHHHCCCCC
T ss_conf             77417678506787

No 6  
>pfam09274 ParG ParG. Members of this family of plasmid partition proteins adopt a ribbon-helix-helix fold, with a core of four alpha-helices. They are an essential component of the DNA partition complex of the multidrug resistance plasmid TP228.
Probab=11.57  E-value=1.3e+02  Score=13.78  Aligned_cols=16  Identities=44%  Similarity=0.835  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999976444345565
Q 537021.9.peg.2    6 AKDILNHMEDNYLKES   21 (44)
Q Consensus         6 akdilnhmednylkes   21 (44)
T Consensus        60 itdVi~~LvD~WL~eN   75 (76)
T pfam09274        60 ITDVINQLVDNWLKEN   75 (76)
T ss_pred             HHHHHHHHHHHHHHCC
T ss_conf             9999999999988626

No 7  
>pfam09188 DUF1951 Domain of unknown function (DUF1951). Members of this family of Mycoplasma hypothetical proteins adopt a helical structure, with a buried central helix. Their function has not, as yet, been determined.
Probab=10.23  E-value=1.6e+02  Score=13.26  Aligned_cols=22  Identities=41%  Similarity=0.532  Sum_probs=9.4

Q ss_conf             4443455658999999888952
Q 537021.9.peg.2   13 MEDNYLKESYIYFFDIFLIYHD   34 (44)
Q Consensus        13 mednylkesyiyffdifliyhd   34 (44)
T Consensus         1 me~nnikeelis~f~kacsshk   22 (137)
T pfam09188         1 MEPNNIKEELISFFEKACSSHK   22 (137)
T ss_conf             9975078999999999875146

No 8  
>pfam01763 Herpes_UL6 Herpesvirus UL6 like. This family consists of various proteins from the herpesviridae that are similar to herpes simplex virus type I UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome.
Probab=9.61  E-value=1.4e+02  Score=13.53  Aligned_cols=15  Identities=27%  Similarity=0.295  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             689999976444345
Q 537021.9.peg.2    4 DVAKDILNHMEDNYL   18 (44)
Q Consensus         4 dvakdilnhmednyl   18 (44)
T Consensus       271 ~~~k~ive~le~~~~  285 (551)
T pfam01763       271 DGYKRIVEKLEKESK  285 (551)
T ss_pred             CCHHHHHHHHHHHCC
T ss_conf             438999999865224

No 9  
>pfam07599 DUF1563 Protein of unknown function (DUF1563). A small family of short hypothetical proteins in Leptospira interrogans.
Probab=9.19  E-value=1.4e+02  Score=13.61  Aligned_cols=10  Identities=60%  Similarity=0.949  Sum_probs=7.7

Q ss_pred             HHHHHHHHHC
Q ss_conf             2778875540
Q 537021.9.peg.2   34 DEYFLHEIFL   43 (44)
Q Consensus        34 deyflheifl   43 (44)
T Consensus        25 ve~flkq~fl   34 (46)
T pfam07599        25 VECFLKQIFL   34 (46)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999999

No 10 
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family; InterPro: IPR014324   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    This entry represents the ATP-binding subunit DevA, found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The ABC transporter encoded by the devBCA operon is induced by nitrogen deficiency and is necessary for the formation of the laminated layer which envelops heterocysts , . It is thought to be involved in the export of either the heterocyst-specific glycolipids found in the laminated layer, or an enzyme essential for their formation..
Probab=8.55  E-value=1.1e+02  Score=14.06  Aligned_cols=15  Identities=53%  Similarity=0.725  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             4689999976444345
Q 537021.9.peg.2    3 YDVAKDILNHMEDNYL   18 (44)
Q Consensus         3 ydvakdilnhmednyl   18 (44)
                      .|||.-|+ +|||..|
T Consensus       205 lDvADRI~-~MEdG~L  219 (220)
T TIGR02982       205 LDVADRIV-QMEDGKL  219 (220)
T ss_pred             HHHHHHHH-HCCCCCC
T ss_conf             00654442-1168635