Query gi|254780490|ref|YP_003064903.1| site-specific tyrosine recombinase XerC [Candidatus Liberibacter asiaticus str. psy62] Match_columns 67 No_of_seqs 106 out of 4897 Neff 6.3 Searched_HMMs 13730 Date Wed Jun 1 06:30:29 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780490.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 d1aiha_ d.163.1.1 (A:) Integra 99.6 3.6E-16 2.6E-20 101.7 2.7 60 2-62 109-168 (170) 2 d1a0pa2 d.163.1.1 (A:111-292) 99.6 1.2E-16 8.5E-21 104.2 -0.6 53 2-54 130-182 (182) 3 d1f44a2 d.163.1.1 (A:130-343) 99.4 1.6E-14 1.2E-18 93.2 3.4 53 2-54 156-208 (214) 4 d1ae9a_ d.163.1.1 (A:) Integra 98.8 9E-10 6.5E-14 68.8 2.3 43 2-45 128-170 (179) 5 d1ijwc_ a.4.1.2 (C:) HIN recom 15.3 39 0.0028 14.1 4.0 32 11-43 12-43 (47) 6 d1k78a1 a.4.1.5 (A:19-81) Pax- 7.1 79 0.0057 12.5 3.0 30 4-34 15-44 (63) 7 d1a9xa1 a.92.1.1 (A:403-555) C 6.4 86 0.0062 12.3 3.7 31 4-34 28-58 (153) 8 d2odgc1 a.140.1.1 (C:2-47) Inn 6.0 91 0.0067 12.2 1.9 18 40-57 2-19 (46) 9 d1bl0a2 a.4.1.8 (A:63-124) Mar 4.8 1.1E+02 0.008 11.8 3.8 42 11-52 4-50 (62) 10 d1d5ya2 a.4.1.8 (A:57-121) Rob 4.2 1.2E+02 0.0089 11.5 6.3 44 10-53 3-51 (65) No 1 >d1aiha_ d.163.1.1 (A:) Integrase {Bacteriophage HP1 [TaxId: 10690]} Probab=99.56 E-value=3.6e-16 Score=101.69 Aligned_cols=60 Identities=30% Similarity=0.577 Sum_probs=55.9 Q ss_pred CCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHCHHHHH Q ss_conf 2160363899999999808999999998488888999999863999999999995821133 Q gi|254780490|r 2 STTAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIYDQTHPSITQ 62 (67) Q Consensus 2 ~~tpH~lRHt~at~l~~~G~~~~~vq~lLGH~~i~tT~~Y~~~~~~~~~~~~~~~~p~~~~ 62 (67) .++||+|||||||.++++|+|+..|+++|||+++.+|++|++++.+++++++ +++|+.+. T Consensus 109 ~~~~H~lRht~at~l~~~g~~~~~i~~~lGH~~~~~t~~Y~~~~~~~~~~a~-~~~p~~~~ 168 (170) T d1aiha_ 109 GQLTHVLRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHFAPSHLESAV-KFNPLSNP 168 (170) T ss_dssp TCTTTHHHHHHHHHHHHTTCCHHHHHHHHTCSSHHHHGGGGGGSCCCTTHHH-HHSTTTSC T ss_pred CCEEEECHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHH-HHCCCCCC T ss_conf 6101110465514552169899999998089998999988767999999999-86857687 No 2 >d1a0pa2 d.163.1.1 (A:111-292) Recombinase XerD {Escherichia coli [TaxId: 562]} Probab=99.55 E-value=1.2e-16 Score=104.21 Aligned_cols=53 Identities=55% Similarity=0.879 Sum_probs=50.4 Q ss_pred CCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHH Q ss_conf 21603638999999998089999999984888889999998639999999999 Q gi|254780490|r 2 STTAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIYD 54 (67) Q Consensus 2 ~~tpH~lRHt~at~l~~~G~~~~~vq~lLGH~~i~tT~~Y~~~~~~~~~~~~~ 54 (67) ++|||+|||||||.++++|+|+..|+++|||++++||++|++++.++++++++ T Consensus 130 ~~t~H~~Rht~at~l~~~G~~~~~I~~~lGH~s~~tt~~Y~~~~~e~~re~~~ 182 (182) T d1a0pa2 130 KLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQ 182 (182) T ss_dssp GCCHHHHHHHHHHHHHHHCSSCGGGSSCC--CCCCHHHHHHHHHHHHHHHHHC T ss_pred CCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHC T ss_conf 83614146589996556499999999995899889999876879999998609 No 3 >d1f44a2 d.163.1.1 (A:130-343) Cre recombinase {Bacteriophage P1 [TaxId: 10678]} Probab=99.45 E-value=1.6e-14 Score=93.24 Aligned_cols=53 Identities=11% Similarity=0.114 Sum_probs=47.2 Q ss_pred CCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHH Q ss_conf 21603638999999998089999999984888889999998639999999999 Q gi|254780490|r 2 STTAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIYD 54 (67) Q Consensus 2 ~~tpH~lRHt~at~l~~~G~~~~~vq~lLGH~~i~tT~~Y~~~~~~~~~~~~~ 54 (67) ++|||+|||||||.|+++|+|+..||++|||++++||++|++..+.+..++.+ T Consensus 156 ~~t~HslRht~at~l~~~G~~~~~i~~~~GH~s~~~~~~Y~~~~~~~~~~~~~ 208 (214) T d1f44a2 156 AWSGHSARVGAARDMARAGVSIPEIMQAGGWTNVNIVMNFIRNLDSETGAMVR 208 (214) T ss_dssp SCCTTHHHHHHHHHHHHTTCCHHHHHHHHTCCCHHHHHHHTTTCCSCCCHHHH T ss_pred CCCHHHHHCCCCHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHH T ss_conf 78666641330027977799999999996899989999986033477999999 No 4 >d1ae9a_ d.163.1.1 (A:) Integrase (Int) {Bacteriophage lambda [TaxId: 10710]} Probab=98.78 E-value=9e-10 Score=68.79 Aligned_cols=43 Identities=21% Similarity=0.285 Sum_probs=38.3 Q ss_pred CCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHCC Q ss_conf 21603638999999998089999999984888889999998639 Q gi|254780490|r 2 STTAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVN 45 (67) Q Consensus 2 ~~tpH~lRHt~at~l~~~G~~~~~vq~lLGH~~i~tT~~Y~~~~ 45 (67) ..++|+||| ||+.++++|+|+..||.+|||+|++||++|.... T Consensus 128 ~~~~h~lR~-~~t~~~~~g~~~~~i~~~lGH~s~~~t~~Y~~~~ 170 (179) T d1ae9a_ 128 PPTFHELRS-LSARLYEKQISDKFAQHLLGHKSDTMASQFRDDR 170 (179) T ss_dssp CCCTTHHHH-HHHHHHHHHTCHHHHHHHHTC--------CEECS T ss_pred CCHHHHHHH-HHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCC T ss_conf 103778888-8889998499999999995899999999987367 No 5 >d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} Probab=15.28 E-value=39 Score=14.06 Aligned_cols=32 Identities=25% Similarity=0.307 Sum_probs=24.6 Q ss_pred HHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHH Q ss_conf 999999980899999999848888899999986 Q gi|254780490|r 11 SFATHLLSNGGDLRSIQSILGHSRLSTTQIYTN 43 (67) Q Consensus 11 t~at~l~~~G~~~~~vq~lLGH~~i~tT~~Y~~ 43 (67) .-|-.|+.+|.++..|.+.+|=+ ..|.-+|.- T Consensus 12 ~~a~~l~~~G~s~~~iA~~~gVS-r~TiYry~p 43 (47) T d1ijwc_ 12 EQISRLLEKGHPRQQLAIIFGIG-VSTLYRYFP 43 (47) T ss_dssp HHHHHHHHTTCCHHHHHHHHTCC-HHHHHHHSC T ss_pred HHHHHHHHCCCCHHHHHHHHCCC-HHHHHHHCC T ss_conf 99999998899799999997969-999985577 No 6 >d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]} Probab=7.09 E-value=79 Score=12.49 Aligned_cols=30 Identities=20% Similarity=0.186 Sum_probs=24.2 Q ss_pred CCCCHHHHHHHHHHHHCCCHHHHHHHHCCCC Q ss_conf 6036389999999980899999999848888 Q gi|254780490|r 4 TAHTLRHSFATHLLSNGGDLRSIQSILGHSR 34 (67) Q Consensus 4 tpH~lRHt~at~l~~~G~~~~~vq~lLGH~~ 34 (67) -|.+||.-.. .+++.|.+...+++.++=+- T Consensus 15 ls~DLR~Riv-~~~~~G~s~r~aA~rf~VS~ 44 (63) T d1k78a1 15 LPDVVRQRIV-ELAHQGVRPCDISRQLRVSH 44 (63) T ss_dssp CCHHHHHHHH-HHHHTTCCHHHHHHHHTCCH T ss_pred CCHHHHHHHH-HHHHCCCCHHHHHHHHCCCH T ss_conf 9999999999-99995998999999959779 No 7 >d1a9xa1 a.92.1.1 (A:403-555) Carbamoyl phosphate synthetase, large subunit connection domain {Escherichia coli [TaxId: 562]} Probab=6.42 E-value=86 Score=12.30 Aligned_cols=31 Identities=13% Similarity=0.145 Sum_probs=26.2 Q ss_pred CCCCHHHHHHHHHHHHCCCHHHHHHHHCCCC Q ss_conf 6036389999999980899999999848888 Q gi|254780490|r 4 TAHTLRHSFATHLLSNGGDLRSIQSILGHSR 34 (67) Q Consensus 4 tpH~lRHt~at~l~~~G~~~~~vq~lLGH~~ 34 (67) .|..-|=.+....++.|.++..|.++-|=-- T Consensus 28 ~Pt~~Ri~~i~eAlr~G~sveeI~elTkID~ 58 (153) T d1a9xa1 28 DAGADRIWYIADAFRAGLSVDGVFNLTNIDR 58 (153) T ss_dssp TCBTTHHHHHHHHHHTTBCHHHHHHHHCCCH T ss_pred CCCCHHHHHHHHHHHCCCCHHHHHHHHCEEE T ss_conf 6995499999999982999999988618200 No 8 >d2odgc1 a.140.1.1 (C:2-47) Inner nuclear membrane protein emerin {Human (Homo sapiens) [TaxId: 9606]} Probab=5.96 E-value=91 Score=12.16 Aligned_cols=18 Identities=6% Similarity=0.314 Sum_probs=12.6 Q ss_pred HHHHCCHHHHHHHHHHHC Q ss_conf 998639999999999958 Q gi|254780490|r 40 IYTNVNSKRMMEIYDQTH 57 (67) Q Consensus 40 ~Y~~~~~~~~~~~~~~~~ 57 (67) -|..+|++++.+..+++. T Consensus 2 ~y~~lSd~El~~lL~~y~ 19 (46) T d2odgc1 2 NYADLSDTELTTLLRRYN 19 (46) T ss_dssp GGGGSCHHHHHHHHHHTT T ss_pred CHHHHCHHHHHHHHHHHC T ss_conf 265606899999999928 No 9 >d1bl0a2 a.4.1.8 (A:63-124) MarA {Escherichia coli [TaxId: 562]} Probab=4.80 E-value=1.1e+02 Score=11.75 Aligned_cols=42 Identities=12% Similarity=0.113 Sum_probs=30.4 Q ss_pred HHHHHHHH-HCCCHHHHHHHHCCCCHHHH----HHHHHCCHHHHHHH Q ss_conf 99999998-08999999998488888999----99986399999999 Q gi|254780490|r 11 SFATHLLS-NGGDLRSIQSILGHSRLSTT----QIYTNVNSKRMMEI 52 (67) Q Consensus 11 t~at~l~~-~G~~~~~vq~lLGH~~i~tT----~~Y~~~~~~~~~~~ 52 (67) ..|..++. ...+|..|...+|-+|.+.- ..+..+++.+.++. T Consensus 4 ~~a~~lL~~t~~~i~~IA~~~Gf~~~~~F~r~Fk~~~g~tP~~~R~~ 50 (62) T d1bl0a2 4 TEIAQKLKESNEPILYLAERYGFESQQTLTRTFKNYFDVPPHKYRMT 50 (62) T ss_dssp HHHHHHHHHCCCCHHHHHHHTTCSCHHHHHHHHHHHHSSCHHHHHTC T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHH T ss_conf 99999988369999999999879988999999998889099999976 No 10 >d1d5ya2 a.4.1.8 (A:57-121) Rob transcription factor, N-terminal domain {Escherichia coli [TaxId: 562]} Probab=4.23 E-value=1.2e+02 Score=11.52 Aligned_cols=44 Identities=9% Similarity=-0.151 Sum_probs=32.9 Q ss_pred HHHHHHHHHH-CCCHHHHHHHHCCCCHHHH----HHHHHCCHHHHHHHH Q ss_conf 9999999980-8999999998488888999----999863999999999 Q gi|254780490|r 10 HSFATHLLSN-GGDLRSIQSILGHSRLSTT----QIYTNVNSKRMMEIY 53 (67) Q Consensus 10 Ht~at~l~~~-G~~~~~vq~lLGH~~i~tT----~~Y~~~~~~~~~~~~ 53 (67) =..|..++.. ..++..|...+|-+|.+.- ..+..++..+.++.. T Consensus 3 l~~A~~lL~~t~~~i~~IA~~~Gf~~~~~F~r~Fk~~~G~tP~~yRk~~ 51 (65) T d1d5ya2 3 LSKSAVALRLTARPILDIALQYRFDSQQTFTRAFKKQFAQTPALYRRSP 51 (65) T ss_dssp HHHHHHHHHHCCCCHHHHHHHTTCSCHHHHHHHHHHHHSSCHHHHHHCS T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHCC T ss_conf 9999999886899999999997899879999999988890999998582 Done!