Query         537021.9.peg.905_1
Match_columns 56
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Wed May 25 04:53:18 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_905.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 KOG0892 consensus               72.5     3.8 9.8E-05   22.3   3.0   31    3-33   2675-2705(2806)
  2 KOG3133 consensus               66.2     9.5 0.00024   20.1   3.9   38   15-52    143-183 (267)
  3 KOG1606 consensus               58.1      19 0.00048   18.5   5.2   52    1-53    148-206 (296)
  4 pfam04614 Pex19 Pex19 protein   52.9      23 0.00059   18.0   4.1   44    6-49    113-158 (245)
  5 cd05170 PIKKc_SMG1 Suppressor   37.5      17 0.00042   18.8   1.3   31    3-33    259-289 (307)
  6 cd05169 PIKKc_TOR TOR (Target   37.4      20 0.00052   18.3   1.7   30    3-32    232-261 (280)
  7 pfam01680 SOR_SNZ SOR/SNZ fami  30.1      55  0.0014   15.9   4.5   52    1-53    142-200 (209)
  8 TIGR01108 oadA oxaloacetate de  27.0      34 0.00086   17.1   1.4   15   33-47    265-279 (616)
  9 cd05163 TRRAP TRansformation/t  23.8      40   0.001   16.7   1.3   31    3-33    205-235 (253)
 10 PHA02152 hypothetical protein   22.5      56  0.0014   15.9   1.8   27   27-53     67-93  (96)
 11 pfam00846 Hanta_nucleocap Hant  22.4      78   0.002   15.1   3.0   35   21-55    339-374 (428)
 12 COG3643 Glutamate formiminotra  20.5      60  0.0015   15.7   1.7   19   22-40    136-154 (302)

No 1  
>KOG0892 consensus
Probab=72.55  E-value=3.8  Score=22.25  Aligned_cols=31  Identities=32%  Similarity=0.616  Sum_probs=27.8

Q ss_pred             EECCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7712232431389999999999998599999
Q 537021.9.peg.9    3 IIDGLGVHGVDVEYVKHIESIMASLRKEEYE   33 (56)
Q Consensus         3 iidglgvhgvdveyvkhiesimaslrkeeye   33 (56)
                      |+||.|+.||+--+-+--|-.|+-||+++-.
T Consensus      2675 iVdgmGItGveGvFrRccE~t~~vlR~~~~~ 2705 (2806)
T KOG0892        2675 IVDGMGITGVEGVFRRCCEFTLEVLRREKES 2705 (2806)
T ss_pred             HCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             0155576671689999999999999860588


No 2  
>KOG3133 consensus
Probab=66.20  E-value=9.5  Score=20.11  Aligned_cols=38  Identities=37%  Similarity=0.572  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH-HHHHC
Q ss_conf             99999999999985999--9999999998999975-55521
Q 537021.9.peg.9   15 EYVKHIESIMASLRKEE--YEKMKEVRKSYNSFLK-HKASL   52 (56)
Q Consensus        15 eyvkhiesimaslrkee--yekmkevrksynsflk-hkasl   52 (56)
                      ..---+++||-+|--.|  |+-|||.+-.|--||+ |+++|
T Consensus       143 ~le~~m~~iMqqllSKEILyeplKEl~~~YPkwLeen~e~l  183 (267)
T KOG3133         143 DLEPIMESIMQQLLSKEILYEPLKELGANYPKWLEENGESL  183 (267)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             37999999999998887740169999987359998553556


No 3  
>KOG1606 consensus
Probab=58.11  E-value=19  Score=18.46  Aligned_cols=52  Identities=35%  Similarity=0.482  Sum_probs=37.5

Q ss_pred             CEEECCCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             96771223243138999999999999859-------999999999998999975555216
Q 537021.9.peg.9    1 MIIIDGLGVHGVDVEYVKHIESIMASLRK-------EEYEKMKEVRKSYNSFLKHKASLG   53 (56)
Q Consensus         1 miiidglgvhgvdveyvkhiesimaslrk-------eeyekmkevrksynsflkhkaslg   53 (56)
                      ||-+.|-.-.|--+|-|||+.|++..+|.       |-|..-||.+-.|. .++...++|
T Consensus       148 MIRtkGeagTG~v~EaVkhvr~i~geir~~~~m~~dev~t~Ak~i~aP~d-Lv~~t~q~G  206 (296)
T KOG1606         148 MIRTKGEAGTGDVSEAVKHVRSINGEIRVLKNMDDDEVFTFAKEIAAPYD-LVKQTKQLG  206 (296)
T ss_pred             HHEECCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHH-HHHHHHHCC
T ss_conf             40204646777499999999998899999872887899999998647089-999999708


No 4  
>pfam04614 Pex19 Pex19 protein family.
Probab=52.94  E-value=23  Score=17.98  Aligned_cols=44  Identities=32%  Similarity=0.551  Sum_probs=34.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q ss_conf             22324313899999999999985999--999999999899997555
Q 537021.9.peg.9    6 GLGVHGVDVEYVKHIESIMASLRKEE--YEKMKEVRKSYNSFLKHK   49 (56)
Q Consensus         6 glgvhgvdveyvkhiesimaslrkee--yekmkevrksynsflkhk   49 (56)
                      |.|--|-+-..-+-+.++|-.|--.|  |+-|||....|-.+|...
T Consensus       113 ~~g~~~~~~~~~~~l~~mm~qL~sKevLYepmKel~~kyp~wL~~n  158 (245)
T pfam04614       113 GDGGGGGDGDMSKLLQGMMEQLSSKEVLYEPLKELNDKYPKWLEEN  158 (245)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHC
T ss_conf             8878886110999999999997237663400999987661988847


No 5  
>cd05170 PIKKc_SMG1 Suppressor of morphogenetic effect on genitalia-1 (SMG-1), catalytic domain; The SMG-1 catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. SMG-1 is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). In addition to its catalytic domain, SMG-1 contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain at the C-terminus. SMG-1 plays a critical role in the mRNA surveillance mechanism known as non-sense mediated mRNA decay (NMD). NMD protects the cells from the accumulation of aberrant mRNAs with premature termination codons (PTCs) generated by geno
Probab=37.46  E-value=17  Score=18.77  Aligned_cols=31  Identities=23%  Similarity=0.380  Sum_probs=21.6

Q ss_pred             EECCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7712232431389999999999998599999
Q 537021.9.peg.9    3 IIDGLGVHGVDVEYVKHIESIMASLRKEEYE   33 (56)
Q Consensus         3 iidglgvhgvdveyvkhiesimaslrkeeye   33 (56)
                      ++|++|+.|++-.+-...|.+|..||+.+..
T Consensus       259 iv~~~g~~g~eG~fr~~~~~~l~~Lr~~~~~  289 (307)
T cd05170         259 IETALGLTGVEGVFRLSCEQVLHIMRRGRET  289 (307)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHCCHHH
T ss_conf             9998476577740799999999999729688


No 6  
>cd05169 PIKKc_TOR TOR (Target of rapamycin), catalytic domain; The TOR catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. TOR is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). TOR contains a rapamycin binding domain, a catalytic domain, and a FATC (FRAP, ATM and TRRAP, C-terminal) domain at the C-terminus. It is also called FRAP (FK506 binding protein 12-rapamycin associated protein). TOR is a central component of the eukaryotic growth regulatory network. It controls the expression of many genes transcribed by all three RNA polymerases. It associates with 
Probab=37.41  E-value=20  Score=18.28  Aligned_cols=30  Identities=27%  Similarity=0.586  Sum_probs=24.6

Q ss_pred             EECCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             771223243138999999999999859999
Q 537021.9.peg.9    3 IIDGLGVHGVDVEYVKHIESIMASLRKEEY   32 (56)
Q Consensus         3 iidglgvhgvdveyvkhiesimaslrkeey   32 (56)
                      ++|++|+.|++--+..-.+++|..||+...
T Consensus       232 ~v~~mg~~g~eG~F~~~~~~~l~~Lr~~~~  261 (280)
T cd05169         232 LVNALGVSGIEGTFRTTCEDVMNVLRENKE  261 (280)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHHCHH
T ss_conf             999848878760589999999999984968


No 7  
>pfam01680 SOR_SNZ SOR/SNZ family. Members of this family are enzymes involved in a new pathway of pyridoxine/pyridoxal 5-phosphate biosynthesis. This family was formerly known as UPF0019.
Probab=30.07  E-value=55  Score=15.90  Aligned_cols=52  Identities=35%  Similarity=0.510  Sum_probs=34.4

Q ss_pred             CEEECCCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             96771223243138999999999999859-------999999999998999975555216
Q 537021.9.peg.9    1 MIIIDGLGVHGVDVEYVKHIESIMASLRK-------EEYEKMKEVRKSYNSFLKHKASLG   53 (56)
Q Consensus         1 miiidglgvhgvdveyvkhiesimaslrk-------eeyekmkevrksynsflkhkaslg   53 (56)
                      ||-..|-.-.|--+|-|+|+..|+...|.       |-|..-|+.+-+|. .++.-+.+|
T Consensus       142 MIRTKGEaGTGnVvEAVrH~R~i~~eI~~l~~~~~~el~~~Ak~~~ap~e-Lv~~~~~~g  200 (209)
T pfam01680       142 MIRTKGEAGTGNVVEAVRHMRLMNGEIRRLQNMSEDELYTVAKELAAPYE-LVKQVAELG  200 (209)
T ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHH-HHHHHHHHC
T ss_conf             13467878987599999999999999999976999999999998798999-999999978


No 8  
>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit; InterPro: IPR005776    This family describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea . The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane.; GO: 0008948 oxaloacetate decarboxylase activity, 0006814 sodium ion transport.
Probab=26.98  E-value=34  Score=17.07  Aligned_cols=15  Identities=40%  Similarity=0.857  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             999999998999975
Q 537021.9.peg.9   33 EKMKEVRKSYNSFLK   47 (56)
Q Consensus        33 ekmkevrksynsflk   47 (56)
                      +-+++|||-|..||.
T Consensus       265 ~YFr~VRkKY~~fle  279 (616)
T TIGR01108       265 DYFRKVRKKYSQFLE  279 (616)
T ss_pred             HHHHHHHHHHHHHCC
T ss_conf             999999999988607


No 9  
>cd05163 TRRAP TRansformation/tRanscription domain-Associated Protein (TRRAP), pseudokinase domain; The TRRAP catalytic domain is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. TRRAP shows some similarity to members of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily in that it contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain and has a large molecular weight. Unlike PIKK proteins, however, it contains an inactive PI3K-like pseudokinase domain, which lacks the conserved residues necessary for ATP binding and catalytic activity. TRRAP also contains many motifs that may be critical for protein-protein interactions. TRRAP is a common component of many histone acetyltransferase (HAT) complexes, and is responsible for the recruitment of these complexes to chromatin during transcription, replicat
Probab=23.81  E-value=40  Score=16.65  Aligned_cols=31  Identities=19%  Similarity=0.311  Sum_probs=26.4

Q ss_pred             EECCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7712232431389999999999998599999
Q 537021.9.peg.9    3 IIDGLGVHGVDVEYVKHIESIMASLRKEEYE   33 (56)
Q Consensus         3 iidglgvhgvdveyvkhiesimaslrkeeye   33 (56)
                      |++++|+-|++-.+-...+++|..||+.+.-
T Consensus       205 i~~~lg~~g~~G~f~~~~~~~~~~Lr~~~~~  235 (253)
T cd05163         205 IQHLIGPIGLEGILTSSMMAIARCLTEPEFD  235 (253)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHCCHHH
T ss_conf             9998577677732899999999999739788


No 10 
>PHA02152 hypothetical protein
Probab=22.54  E-value=56  Score=15.87  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             859999999999998999975555216
Q 537021.9.peg.9   27 LRKEEYEKMKEVRKSYNSFLKHKASLG   53 (56)
Q Consensus        27 lrkeeyekmkevrksynsflkhkaslg   53 (56)
                      .-++.|+||+..----.+|---.-|+.
T Consensus        67 ~~~~dy~km~~ii~li~sfd~~~fs~~   93 (96)
T PHA02152         67 YFKEDYDKMATIVGLIKTFDPYEFSME   93 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             677658999888754230587772134


No 11 
>pfam00846 Hanta_nucleocap Hantavirus nucleocapsid protein.
Probab=22.36  E-value=78  Score=15.09  Aligned_cols=35  Identities=37%  Similarity=0.554  Sum_probs=26.4

Q ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             99999985-999999999999899997555521642
Q 537021.9.peg.9   21 ESIMASLR-KEEYEKMKEVRKSYNSFLKHKASLGIK   55 (56)
Q Consensus        21 esimaslr-keeyekmkevrksynsflkhkaslgik   55 (56)
                      ..||||-. -..-||+|.--.-|.|+|....|.||.
T Consensus       339 ntImASktvGTaEEKlkkKSsFYQSYlRRTQSMGiq  374 (428)
T pfam00846       339 NTIMASKTVGTAEEKLKKKSAFYQSYLRRTQSMGIQ  374 (428)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             778775134608888864518999999887751344


No 12 
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=20.54  E-value=60  Score=15.71  Aligned_cols=19  Identities=42%  Similarity=0.592  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             9999985999999999999
Q 537021.9.peg.9   22 SIMASLRKEEYEKMKEVRK   40 (56)
Q Consensus        22 simaslrkeeyekmkevrk   40 (56)
                      +-.|+.||.+||.|+|--|
T Consensus       136 ~~La~IRkgqyE~l~ekik  154 (302)
T COG3643         136 QNLADIRKGQYEGLKEKIK  154 (302)
T ss_pred             CCHHHHHHHHHHHHHHHHC
T ss_conf             4477775223666788742


Done!