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!