Query         537021.9.peg.1078_1
Match_columns 62
No_of_seqs    36 out of 38
Neff          2.2 
Searched_HMMs 39220
Date          Wed May 25 07:23:17 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_1078.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam03237 Terminase_6 Terminas  97.1 0.00038 9.7E-09   44.4   2.8   37    6-42    341-380 (380)
  2 pfam04466 Terminase_3 Phage te  94.4   0.016 4.2E-07   35.5   1.3   36    5-40    344-386 (387)
  3 COG3656 Predicted periplasmic   75.7     1.1 2.9E-05   25.4   0.9   32    6-37     70-102 (172)
  4 pfam11360 DUF3110 Protein of u  47.2      15 0.00037   19.3   2.2   23   20-42     21-43  (86)
  5 COG3058 FdhE Uncharacterized p  40.7      35 0.00089   17.2   3.3   47    2-50    253-300 (308)
  6 pfam01383 CpcD CpcD/allophycoc  39.6      24 0.00061   18.1   2.4   23    6-28     33-55  (57)
  7 pfam11731 Cdd1 Pathogenicity l  33.4      28 0.00072   17.7   1.9   25   36-60     64-89  (92)
  8 PRK03564 formate dehydrogenase  32.9      25 0.00063   18.0   1.6   45    2-48    253-298 (307)
  9 pfam04848 Pox_A22 Poxvirus A22  20.3      75  0.0019   15.4   2.1   37    2-38    102-140 (143)
 10 COG4927 Predicted choloylglyci  18.6      57  0.0015   16.0   1.2   34    6-43    236-269 (336)

No 1  
>pfam03237 Terminase_6 Terminase-like family. This family represents a group of terminase proteins.
Probab=97.09  E-value=0.00038  Score=44.44  Aligned_cols=37  Identities=32%  Similarity=0.437  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHCC---CEEECHHHHHHHHHHHHHHH
Q ss_conf             28999999998752158---16010001678999999999
Q 537021.9.peg.1    6 ECQEWLDEFHQYHRCEG---RVIKEKDDLICASRYALMMK   42 (62)
Q Consensus         6 ~C~~Wf~Efr~YHRkdG---KIVk~~DDlmsAtRYA~m~~   42 (62)
                      .|.++|+|++.|+.+.|   +.++.+||.++|.|||++++
T Consensus       341 ~~~~~i~el~~~~~~~~~~~~~~~~hdd~~DAl~yAi~~l  380 (380)
T pfam03237       341 WCPASFEELEAYHTDGGNERSDVDGHDDAADALRYALNSL  380 (380)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf             2699999997503038998999999988999999998609


No 2  
>pfam04466 Terminase_3 Phage terminase large subunit. Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possess an endonuclease and ATPase activity that require Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences.
Probab=94.45  E-value=0.016  Score=35.48  Aligned_cols=36  Identities=28%  Similarity=0.502  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHH---CC----CEEECHHHHHHHHHHHHH
Q ss_conf             5289999999987521---58----160100016789999999
Q 537021.9.peg.1    5 LECQEWLDEFHQYHRC---EG----RVIKEKDDLICASRYALM   40 (62)
Q Consensus         5 ~~C~~Wf~Efr~YHRk---dG----KIVk~~DDlmsAtRYA~m   40 (62)
                      -.|.+-.+||+.|--+   +|    +.++.+|..|+|.|||+.
T Consensus       344 ~~C~~~i~E~~~Y~w~~d~~g~~~~~p~d~~dH~~DAlRYav~  386 (387)
T pfam04466       344 PRCENTIEELNKYQYKKDKNGALIPDEMKKDPHTIDAIRYAVE  386 (387)
T ss_pred             CCCHHHHHHHHCCEECCCCCCCCCCCCCCCCCCHHHHHHHHHC
T ss_conf             7898999999778136689999888888998725776776026


No 3  
>COG3656 Predicted periplasmic protein [Function unknown]
Probab=75.66  E-value=1.1  Score=25.39  Aligned_cols=32  Identities=31%  Similarity=0.625  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEC-HHHHHHHHHH
Q ss_conf             2899999999875215816010-0016789999
Q 537021.9.peg.1    6 ECQEWLDEFHQYHRCEGRVIKE-KDDLICASRY   37 (62)
Q Consensus         6 ~C~~Wf~Efr~YHRkdGKIVk~-~DDlmsAtRY   37 (62)
                      .-.-|++|.|..-||+|+.|-. -|..-+|||-
T Consensus        70 ng~kWL~elRqWwRk~Gr~vs~p~dgVsgaTR~  102 (172)
T COG3656          70 NGPKWLEELRQWWRKNGRLVSTPIDGVSGATRN  102 (172)
T ss_pred             CCCHHHHHHHHHHHHCCEEEECCCCCCCCCCCC
T ss_conf             630667999999986690873135555557679


No 4  
>pfam11360 DUF3110 Protein of unknown function (DUF3110). This family of proteins has no known function.
Probab=47.18  E-value=15  Score=19.27  Aligned_cols=23  Identities=22%  Similarity=0.151  Sum_probs=19.1

Q ss_pred             HCCCEEECHHHHHHHHHHHHHHH
Q ss_conf             15816010001678999999999
Q 537021.9.peg.1   20 CEGRVIKEKDDLICASRYALMMK   42 (62)
Q Consensus        20 kdGKIVk~~DDlmsAtRYA~m~~   42 (62)
                      ++.++|-..-+-=+|+|||.|..
T Consensus        21 ~g~~vv~~FeeeDDA~RYa~lLe   43 (86)
T pfam11360        21 KGRNVVLMFEEEDDAERYAGLLE   43 (86)
T ss_pred             CCCEEEEEEECHHHHHHHHHHHH
T ss_conf             99869999804788999999886


No 5  
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=40.65  E-value=35  Score=17.19  Aligned_cols=47  Identities=21%  Similarity=0.235  Sum_probs=33.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHH-HHHHHCCCC
Q ss_conf             1345289999999987521581601000167899999999-987305777
Q 537021.9.peg.1    2 ESILECQEWLDEFHQYHRCEGRVIKEKDDLICASRYALMM-KIFSISKPG   50 (62)
Q Consensus         2 ~~~~~C~~Wf~Efr~YHRkdGKIVk~~DDlmsAtRYA~m~-~R~a~~~~~   50 (62)
                      |+--.|.-|+.  -+|-+||++++...|||-|-.-=.-|- .-|++++..
T Consensus       253 EtC~~C~sYlK--ilyqekdp~veavADDlASl~LDl~mee~G~~Rs~~N  300 (308)
T COG3058         253 ETCGDCNSYLK--ILYQEKDPKVEAVADDLASLVLDLRMEEEGYARSSIN  300 (308)
T ss_pred             HCCCCHHHHHH--HHHHHCCCCCCCCHHHHHHHHHHHHHHHCCCHHCCCC
T ss_conf             40775889999--9987108764410688888887887752331223788


No 6  
>pfam01383 CpcD CpcD/allophycocyanin linker domain.
Probab=39.61  E-value=24  Score=18.11  Aligned_cols=23  Identities=17%  Similarity=0.365  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHCCCEEECH
Q ss_conf             28999999998752158160100
Q 537021.9.peg.1    6 ECQEWLDEFHQYHRCEGRVIKEK   28 (62)
Q Consensus         6 ~C~~Wf~Efr~YHRkdGKIVk~~   28 (62)
                      .-..|.+|++.-||.-|||+.+.
T Consensus        33 Py~~ms~~~qrI~r~GGkIvsIt   55 (57)
T pfam01383        33 PYSRLSAEMQRIHRLGGKIVSIT   55 (57)
T ss_pred             EHHHHHHHHHHHHHCCCEEEEEE
T ss_conf             18996699999986688388887


No 7  
>pfam11731 Cdd1 Pathogenicity locus. Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=33.44  E-value=28  Score=17.71  Aligned_cols=25  Identities=12%  Similarity=0.194  Sum_probs=16.5

Q ss_pred             HHHHHH-HHHHHCCCCCCCCCCCCCC
Q ss_conf             999999-9873057775434667840
Q 537021.9.peg.1   36 RYALMM-KIFSISKPGYSSWKYTPRK   60 (62)
Q Consensus        36 RYA~m~-~R~a~~~~~~s~w~~~~rk   60 (62)
                      -|.|+| .+||.+++.-.||+|++..
T Consensus        64 ldvfr~~v~~a~~~~~~~WW~~tdeR   89 (92)
T pfam11731        64 LDVFRSAVRFMEGEEARPWWDFTDER   89 (92)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCHHHH
T ss_conf             99999999998079999875671775


No 8  
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=32.94  E-value=25  Score=18.02  Aligned_cols=45  Identities=29%  Similarity=0.316  Sum_probs=31.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHH-HHHHHCC
Q ss_conf             1345289999999987521581601000167899999999-9873057
Q 537021.9.peg.1    2 ESILECQEWLDEFHQYHRCEGRVIKEKDDLICASRYALMM-KIFSISK   48 (62)
Q Consensus         2 ~~~~~C~~Wf~Efr~YHRkdGKIVk~~DDlmsAtRYA~m~-~R~a~~~   48 (62)
                      |+--+|.-+..-+  |.+||+.++++-|||-|-.==..|- .-|.+++
T Consensus       253 e~C~~C~~YlK~l--~~~kd~~~~p~aDDLAsl~LDl~~~e~Gf~Rsg  298 (307)
T PRK03564        253 ESCGDCGTYLKIL--YQEKDPKVEAVADDLASLVLDARMEQEGFARSS  298 (307)
T ss_pred             EECCCHHHHHHHH--HHHCCCCCCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             6464066578787--450088888533446556767998755764478


No 9  
>pfam04848 Pox_A22 Poxvirus A22 protein.
Probab=20.31  E-value=75  Score=15.37  Aligned_cols=37  Identities=19%  Similarity=0.192  Sum_probs=21.7

Q ss_pred             CHHHHHHHHHHHHHH--HHHHCCCEEECHHHHHHHHHHH
Q ss_conf             134528999999998--7521581601000167899999
Q 537021.9.peg.1    2 ESILECQEWLDEFHQ--YHRCEGRVIKEKDDLICASRYA   38 (62)
Q Consensus         2 ~~~~~C~~Wf~Efr~--YHRkdGKIVk~~DDlmsAtRYA   38 (62)
                      -||-.|..|.+.|..  +-.+.-|.-.+.|-+|-|.+|.
T Consensus       102 ~SI~~~~~~l~~~~~~~~~~k~kKkDDlADs~~~Al~Y~  140 (143)
T pfam04848       102 RSVNIFLNWMSVFGINDILPKYKKLDDVADSFNLALRYL  140 (143)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             999999999997599321211122135899999999987


No 10 
>COG4927 Predicted choloylglycine hydrolase [General function prediction only]
Probab=18.60  E-value=57  Score=16.01  Aligned_cols=34  Identities=9%  Similarity=0.006  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHH
Q ss_conf             28999999998752158160100016789999999998
Q 537021.9.peg.1    6 ECQEWLDEFHQYHRCEGRVIKEKDDLICASRYALMMKI   43 (62)
Q Consensus         6 ~C~~Wf~Efr~YHRkdGKIVk~~DDlmsAtRYA~m~~R   43 (62)
                      -|++-|++-++-.++-    ...|+.+||++|-.||+.
T Consensus       236 ~ctNHf~~~t~~~~~y----~~~~~i~s~l~d~~~~~~  269 (336)
T COG4927         236 ACTNHFRAATPSSFSY----ARQQFILSALEDPSMSLE  269 (336)
T ss_pred             HHHHHHHHHCHHHHHH----HHHHHHHHHHCCCHHHHH
T ss_conf             5557788747243301----102558887327413467


Done!