Query 537021.9.peg.1083_1 Match_columns 40 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 39220 Date Wed May 25 06:22:00 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i peg_1083.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 pfam02992 Transposase_21 Trans 25.9 10 0.00026 19.8 -1.4 29 1-29 79-107 (226) 2 COG1889 NOP1 Fibrillarin-like 18.5 24 0.00062 17.9 -0.7 18 13-30 150-167 (231) 3 KOG0037 consensus 17.0 1.1E+02 0.0028 14.7 2.4 33 7-39 161-196 (221) 4 KOG2350 consensus 14.5 76 0.0019 15.5 1.0 20 1-23 149-168 (221) 5 pfam00292 PAX 'Paired box' dom 14.3 1.1E+02 0.0027 14.7 1.7 24 10-35 20-43 (125) 6 pfam06637 PV-1 PV-1 protein (P 11.7 1.1E+02 0.0028 14.7 1.1 28 1-28 25-52 (442) 7 pfam04017 DUF366 Domain of unk 11.6 50 0.0013 16.4 -0.6 17 17-33 28-44 (183) 8 COG2029 Uncharacterized conser 11.5 54 0.0014 16.2 -0.5 16 17-32 31-46 (189) 9 PRK05841 flgE flagellar hook p 10.5 1.5E+02 0.0039 13.9 1.6 19 3-21 569-587 (605) 10 COG1347 NqrD Na+-transporting 10.4 1.6E+02 0.004 13.9 1.6 12 3-14 54-65 (208) No 1 >pfam02992 Transposase_21 Transposase family tnp2. Probab=25.87 E-value=10 Score=19.84 Aligned_cols=29 Identities=41% Similarity=0.589 Sum_probs=24.4 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCHHHHCHH Q ss_conf 91899999999999750110310001864 Q 537021.9.peg.1 1 MKLYNFFVSLIVRQRVSQKNQIDVFKNPC 29 (40) Q Consensus 1 mklynffvslivrqrvsqknqidvfknpc 29 (40) ||--++|.|+++--.-.-.|.||||-.|- T Consensus 79 mk~~~~~lsllIpGP~~Pg~diDVyl~PL 107 (226) T pfam02992 79 MKRENIFLSLLIPGPKQPGNDIDVFLQPL 107 (226) T ss_pred HHHHHHHEEEECCCCCCCCCCCCHHHHHH T ss_conf 31344320241337888886632367889 No 2 >COG1889 NOP1 Fibrillarin-like rRNA methylase [Translation, ribosomal structure and biogenesis] Probab=18.46 E-value=24 Score=17.95 Aligned_cols=18 Identities=28% Similarity=0.460 Sum_probs=13.9 Q ss_pred HHHHHHHHCCHHHHCHHH Q ss_conf 997501103100018645 Q 537021.9.peg.1 13 RQRVSQKNQIDVFKNPCD 30 (40) Q Consensus 13 rqrvsqknqidvfknpcd 30 (40) -|-|+|.||+++++.-.+ T Consensus 150 y~DVAQp~Qa~I~~~Na~ 167 (231) T COG1889 150 YQDVAQPNQAEILADNAE 167 (231) T ss_pred EEECCCCHHHHHHHHHHH T ss_conf 983688107899998899 No 3 >KOG0037 consensus Probab=16.96 E-value=1.1e+02 Score=14.67 Aligned_cols=33 Identities=36% Similarity=0.559 Sum_probs=25.9 Q ss_pred HHHHHHHHHH---HHHHCCHHHHCHHHHHHHHHHHC Q ss_conf 9999999975---01103100018645788888740 Q 537021.9.peg.1 7 FVSLIVRQRV---SQKNQIDVFKNPCDVSKKLTEVF 39 (40) Q Consensus 7 fvslivrqrv---sqknqidvfknpcdvskkltevf 39 (40) |..+|||+-- +-....|-|-+-|-+...||+.| T Consensus 161 ~~~~lv~kyd~~~~g~i~FD~FI~ccv~L~~lt~~F 196 (221) T KOG0037 161 FYNLLVRKYDRFGGGRIDFDDFIQCCVVLQRLTEAF 196 (221) T ss_pred HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH T ss_conf 999999986604688400999999999999999999 No 4 >KOG2350 consensus Probab=14.48 E-value=76 Score=15.47 Aligned_cols=20 Identities=50% Similarity=0.728 Sum_probs=15.9 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 91899999999999750110310 Q 537021.9.peg.1 1 MKLYNFFVSLIVRQRVSQKNQID 23 (40) Q Consensus 1 mklynffvslivrqrvsqknqid 23 (40) |||+|-||- .|||-..++|. T Consensus 149 mkLWNsfVr---kqrviAD~hip 168 (221) T KOG2350 149 MKLWNSFVR---KQRVIADGHIP 168 (221) T ss_pred HHHHHHHHH---HHHEECCCCCC T ss_conf 999999988---74301168784 No 5 >pfam00292 PAX 'Paired box' domain. Probab=14.32 E-value=1.1e+02 Score=14.73 Aligned_cols=24 Identities=33% Similarity=0.693 Sum_probs=15.5 Q ss_pred HHHHHHHHHHHCCHHHHCHHHHHHHH Q ss_conf 99999750110310001864578888 Q 537021.9.peg.1 10 LIVRQRVSQKNQIDVFKNPCDVSKKL 35 (40) Q Consensus 10 livrqrvsqknqidvfknpcdvskkl 35 (40) .-+||+.-+-.+-.+ -|||.|+.| T Consensus 20 ~~~R~kIVeLa~~G~--RpCdISR~L 43 (125) T pfam00292 20 NHIRQKIVELAHSGV--RPCDISRQL 43 (125) T ss_pred HHHHHHHHHHHHCCC--CHHHHHHHH T ss_conf 889999999998499--788887762 No 6 >pfam06637 PV-1 PV-1 protein (PLVAP). This family consists of several PV-1 (PLVAP) proteins which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms. The function of this family is unknown. Probab=11.71 E-value=1.1e+02 Score=14.68 Aligned_cols=28 Identities=21% Similarity=0.271 Sum_probs=13.7 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCHHHHCH Q ss_conf 9189999999999975011031000186 Q 537021.9.peg.1 1 MKLYNFFVSLIVRQRVSQKNQIDVFKNP 28 (40) Q Consensus 1 mklynffvslivrqrvsqknqidvfknp 28 (40) |+.+-||||||----.-.---.-|+.|| T Consensus 25 LryfFlFvSLIQfLIIlgLVLFmVYGnv 52 (442) T pfam06637 25 LRYFFLFVSLIQFLIILGLVLFMIYGNV 52 (442) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 9999999999999999999999640774 No 7 >pfam04017 DUF366 Domain of unknown function (DUF366). Archaeal domain of unknown function. Probab=11.58 E-value=50 Score=16.37 Aligned_cols=17 Identities=47% Similarity=0.823 Sum_probs=13.8 Q ss_pred HHHHCCHHHHCHHHHHH Q ss_conf 01103100018645788 Q 537021.9.peg.1 17 SQKNQIDVFKNPCDVSK 33 (40) Q Consensus 17 sqknqidvfknpcdvsk 33 (40) -|+..|-+|..||+|+- T Consensus 28 ~~~dsIV~Frgp~~V~~ 44 (183) T pfam04017 28 IQGDSIVVFRGPCDVKI 44 (183) T ss_pred CCCCCEEEEECCCCCCH T ss_conf 67685899966615168 No 8 >COG2029 Uncharacterized conserved protein [Function unknown] Probab=11.46 E-value=54 Score=16.21 Aligned_cols=16 Identities=38% Similarity=0.636 Sum_probs=13.0 Q ss_pred HHHHCCHHHHCHHHHH Q ss_conf 0110310001864578 Q 537021.9.peg.1 17 SQKNQIDVFKNPCDVS 32 (40) Q Consensus 17 sqknqidvfknpcdvs 32 (40) -|+..|-||..||||. T Consensus 31 I~gdSiVvfrG~mdVk 46 (189) T COG2029 31 IKGDSIVVFRGPMDVK 46 (189) T ss_pred CCCCEEEEEECCCCCC T ss_conf 6776289996453211 No 9 >PRK05841 flgE flagellar hook protein FlgE; Validated Probab=10.54 E-value=1.5e+02 Score=13.94 Aligned_cols=19 Identities=32% Similarity=0.210 Sum_probs=14.8 Q ss_pred HHHHHHHHHHHHHHHHHHC Q ss_conf 8999999999997501103 Q 537021.9.peg.1 3 LYNFFVSLIVRQRVSQKNQ 21 (40) Q Consensus 3 lynffvslivrqrvsqknq 21 (40) |-.=|+.||+-||--|-|- T Consensus 569 La~Eft~mIvtQR~yQANs 587 (605) T PRK05841 569 AGNALTNLILMQRGYSMNA 587 (605) T ss_pred HHHHHHHHHHHHHHCHHHC T ss_conf 8999999999876520541 No 10 >COG1347 NqrD Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrD [Energy production and conversion] Probab=10.44 E-value=1.6e+02 Score=13.87 Aligned_cols=12 Identities=50% Similarity=0.700 Sum_probs=9.0 Q ss_pred HHHHHHHHHHHH Q ss_conf 899999999999 Q 537021.9.peg.1 3 LYNFFVSLIVRQ 14 (40) Q Consensus 3 lynffvslivrq 14 (40) .-|||+|||-++ T Consensus 54 ~SsffvSliR~~ 65 (208) T COG1347 54 FSSFFVSLIRNY 65 (208) T ss_pred HHHHHHHHHHHH T ss_conf 789999999985 Done!