Query gi|254780514|ref|YP_003064927.1| type II restriction endonuclease [Candidatus Liberibacter asiaticus str. psy62] Match_columns 110 No_of_seqs 7 out of 9 Neff 1.7 Searched_HMMs 13730 Date Wed Jun 1 10:01:53 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780514.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 d1na6a2 c.52.1.22 (A:179-398) 97.5 1.2E-05 8.7E-10 51.4 1.7 31 61-91 75-105 (220) 2 d1xsza1 a.118.3.1 (A:1-197) Ra 25.8 16 0.0012 15.5 1.9 79 11-91 58-145 (197) 3 d1r8se_ a.118.3.1 (E:) Exchang 23.0 19 0.0014 15.1 1.9 79 11-91 50-137 (187) 4 d1gg2g_ a.137.3.1 (G:) Transdu 14.0 38 0.0028 13.4 2.8 35 18-53 5-39 (54) 5 d1hyua3 c.47.1.2 (A:1-102) Alk 11.0 47 0.0034 12.8 2.1 16 73-88 82-97 (102) 6 d1v54e_ a.118.11.1 (E:) Cytoch 10.8 48 0.0035 12.8 1.5 50 8-59 29-81 (105) 7 d1rq6a_ a.4.15.1 (A:) ribosoma 10.8 48 0.0035 12.8 1.7 35 41-100 28-62 (62) 8 d1a6sa_ a.61.1.4 (A:) GAG poly 10.0 51 0.0037 12.6 1.9 24 38-61 2-25 (87) 9 d1dqna_ c.61.1.1 (A:) Guanine 9.3 22 0.0016 14.7 -0.8 22 54-75 193-216 (230) 10 d1d0xa2 c.37.1.9 (A:2-33,A:80- 9.1 49 0.0036 12.7 0.9 38 42-79 91-141 (712) No 1 >d1na6a2 c.52.1.22 (A:179-398) Restriction endonuclease EcoRII, C-terminal domain {Escherichia coli [TaxId: 562]} Probab=97.54 E-value=1.2e-05 Score=51.43 Aligned_cols=31 Identities=23% Similarity=0.321 Sum_probs=28.2 Q ss_pred HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6310322355433045799999999739999 Q gi|254780514|r 61 EWVLSNTQSRRSRDGQEFEYIIYSLYNINTF 91 (110) Q Consensus 61 ~l~lsntqsrrsrag~~fe~iiY~~Yn~~t~ 91 (110) .+.||++|+|+||||+.||.+++.|++-+.. T Consensus 75 ~~slSv~nrRKSRAG~sfE~hl~~if~~~gi 105 (220) T d1na6a2 75 ALANSVSNRRKSRAGKSLELHLEHLFIEHGL 105 (220) T ss_dssp HHHHHHHHHHHHHSSSHHHHHHHHHHHTSSC T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC T ss_conf 9999998877503305699999999996699 No 2 >d1xsza1 a.118.3.1 (A:1-197) RalF, N-terminal domain {Legionella pneumophila [TaxId: 446]} Probab=25.79 E-value=16 Score=15.51 Aligned_cols=79 Identities=11% Similarity=0.129 Sum_probs=43.3 Q ss_pred HHHHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH--HCC---CC----HHHHHHHHCCCHHHHHHHHHHHHHH Q ss_conf 77641036999999999637964200157999999996321--201---10----4457631032235543304579999 Q gi|254780514|r 11 ISNNYEVPKMLITELSTELFNLKTANQNFFHNTLTKKFGDY--MSK---IT----PYLYEWVLSNTQSRRSRDGQEFEYI 81 (110) Q Consensus 11 i~k~~EtPK~ll~~llselin~~t~K~~e~~etir~~~gdY--~~~---i~----P~iy~l~lsntqsrrsrag~~fe~i 81 (110) ||..+-.|+.+-..++.+.++.-+++++.+-+++|.+|+.. ||+ |- -+--.|+..|...-.|.+ .--.+ T Consensus 58 iGeyLg~~~~~n~~vl~~y~~~f~f~~~~id~ALR~~l~~f~LpgE~Q~IdRile~Fa~~y~~~Np~~~~~~d--~v~~L 135 (197) T d1xsza1 58 VGDYLSSPEAENQQVLKAFTSQMNFNGQSFVEGLRTFLKTFKLPGEAQKIDRLVQSFSGAYFQQNPDVVSNAD--AAYLL 135 (197) T ss_dssp HHHHHTCCSHHHHHHHHHHHHTSCCTTSCHHHHHHHHHHTSCBCSSHHHHHHHHHHHHHHHHHHCTTTSSSHH--HHHHH T ss_pred HHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCC--HHHHH T ss_conf 9999818966789999999984785799789999999984208860899999999999999985929999965--88999 Q ss_pred HHHHHHHHHH Q ss_conf 9999739999 Q gi|254780514|r 82 IYSLYNINTF 91 (110) Q Consensus 82 iY~~Yn~~t~ 91 (110) .||+-=|||= T Consensus 136 ~~siimLnTD 145 (197) T d1xsza1 136 AFQTIMLNTD 145 (197) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHCC T ss_conf 9999998112 No 3 >d1r8se_ a.118.3.1 (E:) Exchange factor ARNO {Human (Homo sapiens) [TaxId: 9606]} Probab=22.99 E-value=19 Score=15.09 Aligned_cols=79 Identities=16% Similarity=0.161 Sum_probs=42.1 Q ss_pred HHHHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH--C---CCC----HHHHHHHHCCCHHHHHHHHHHHHHH Q ss_conf 776410369999999996379642001579999999963212--0---110----4457631032235543304579999 Q gi|254780514|r 11 ISNNYEVPKMLITELSTELFNLKTANQNFFHNTLTKKFGDYM--S---KIT----PYLYEWVLSNTQSRRSRDGQEFEYI 81 (110) Q Consensus 11 i~k~~EtPK~ll~~llselin~~t~K~~e~~etir~~~gdY~--~---~i~----P~iy~l~lsntqsrrsrag~~fe~i 81 (110) ||..+.-|+.+-.+++.+.++.-.++++.+-+++|.+|+... | .|- -+--.|+..|...-.| -..--.+ T Consensus 50 ige~Lg~~~~~~~~vl~~y~~~f~f~~~~i~~ALR~~l~~f~lpgE~Q~Idrile~Fs~~y~~~Np~~~~~--~d~v~~l 127 (187) T d1r8se_ 50 IGDYLGEREELNLAVLHAFVDLHEFTDLNLVQALRQFLWSFRLPGKAQKIDRMMEAFAQRYCLCNPGVFQS--TDTCYVL 127 (187) T ss_dssp HHHHHTCCSHHHHHHHHHHHHTCCCTTCCHHHHHHHHHHSSCCCSSHHHHHHHHHHHHHHHHHHSTTSSSC--HHHHHHH T ss_pred HHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC--HHHHHHH T ss_conf 99997156678999999998724768994999999999846189718999999999999999869886788--7799999 Q ss_pred HHHHHHHHHH Q ss_conf 9999739999 Q gi|254780514|r 82 IYSLYNINTF 91 (110) Q Consensus 82 iY~~Yn~~t~ 91 (110) .||+-=+||= T Consensus 128 ~~siimLnTd 137 (187) T d1r8se_ 128 SYSVIMLNTD 137 (187) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999999765 No 4 >d1gg2g_ a.137.3.1 (G:) Transducin (heterotrimeric G protein), gamma chain {Cow (Bos taurus) [TaxId: 9913]} Probab=14.02 E-value=38 Score=13.35 Aligned_cols=35 Identities=9% Similarity=-0.057 Sum_probs=27.1 Q ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 699999999963796420015799999999632120 Q gi|254780514|r 18 PKMLITELSTELFNLKTANQNFFHNTLTKKFGDYMS 53 (110) Q Consensus 18 PK~ll~~llselin~~t~K~~e~~etir~~~gdY~~ 53 (110) -|+..+ .|..-.+.++.|-+...+.+.++|.+|+. T Consensus 5 ~rk~Ve-qLr~e~~~~RikvS~aa~~l~~y~e~~~~ 39 (54) T d1gg2g_ 5 ARKLVE-QLKMEANIDRIKVSKAAADLMAYCEAHAK 39 (54) T ss_dssp HHHHHH-HHHHHHSSCCCCHHHHHHHHHHHHHHHGG T ss_pred HHHHHH-HHHHHHCCCHHHHHHHHHHHHHHHHHCCC T ss_conf 999999-99999687420499999999999996276 No 5 >d1hyua3 c.47.1.2 (A:1-102) Alkyl hydroperoxide reductase subunit F (AhpF), N-terminal domain {Salmonella typhimurium [TaxId: 90371]} Probab=11.01 E-value=47 Score=12.80 Aligned_cols=16 Identities=25% Similarity=0.382 Sum_probs=14.2 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 3045799999999739 Q gi|254780514|r 73 RDGQEFEYIIYSLYNI 88 (110) Q Consensus 73 rag~~fe~iiY~~Yn~ 88 (110) -+|.||-+.|-+|||. T Consensus 82 P~GhEF~Slilail~v 97 (102) T d1hyua3 82 PLGHEFTSLVLALLWT 97 (102) T ss_dssp CCGGGHHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHC T ss_conf 8851088999999841 No 6 >d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]} Probab=10.79 E-value=48 Score=12.75 Aligned_cols=50 Identities=20% Similarity=0.299 Sum_probs=26.3 Q ss_pred HHHHHH--HHCCHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHH Q ss_conf 999776--41036999999999-63796420015799999999632120110445 Q gi|254780514|r 8 LKNISN--NYEVPKMLITELST-ELFNLKTANQNFFHNTLTKKFGDYMSKITPYL 59 (110) Q Consensus 8 ~~~i~k--~~EtPK~ll~~lls-elin~~t~K~~e~~etir~~~gdY~~~i~P~i 59 (110) ||++.- ++--||-+.-++-- -++| --+--.-+.|+||.+||+- ..|.||| T Consensus 29 mN~l~~~DlVPeP~Ii~aALrAcRRvN-D~alAVR~lE~vK~K~~~~-k~~y~yi 81 (105) T d1v54e_ 29 MNTLVGYDLVPEPKIIDAALRACRRLN-DFASAVRILEVVKDKAGPH-KEIYPYV 81 (105) T ss_dssp HHHHTTSSBCCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHTTTC-TTHHHHH T ss_pred HHHHHCCCCCCCCHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCC-HHHHHHH T ss_conf 999851566899099999999998840-0799999999999873470-8899999 No 7 >d1rq6a_ a.4.15.1 (A:) ribosomal protein S17e {Methanobacterium thermoautotrophicum [TaxId: 145262]} Probab=10.78 E-value=48 Score=12.75 Aligned_cols=35 Identities=17% Similarity=0.437 Sum_probs=21.9 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999963212011044576310322355433045799999999739999999974220 Q gi|254780514|r 41 HNTLTKKFGDYMSKITPYLYEWVLSNTQSRRSRDGQEFEYIIYSLYNINTFVTHLMHKKK 100 (110) Q Consensus 41 ~etir~~~gdY~~~i~P~iy~l~lsntqsrrsrag~~fe~iiY~~Yn~~t~~~~~~~~~~ 100 (110) .++=++.|.|++- .+|.+-|. .|-.||||||...| T Consensus 28 F~~NK~~v~e~a~-------------i~SKklRN------------~IAGYvTrl~k~~k 62 (62) T d1rq6a_ 28 FDTNKKLVEEFST-------------VSTKHLRN------------KIAGYITRIISQQK 62 (62) T ss_dssp HHHHHHHHHTTCC-------------CSSTTHHH------------HHHHHHHHHHHHHC T ss_pred HHHHHHHHHHHHC-------------CCCHHHHH------------HHHHHHHHHHHHCC T ss_conf 8887899999813-------------88665767------------99989999998229 No 8 >d1a6sa_ a.61.1.4 (A:) GAG polyprotein M-domain {Rous sarcoma virus [TaxId: 11886]} Probab=10.02 E-value=51 Score=12.59 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=16.0 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHH Q ss_conf 579999999963212011044576 Q gi|254780514|r 38 NFFHNTLTKKFGDYMSKITPYLYE 61 (110) Q Consensus 38 ~e~~etir~~~gdY~~~i~P~iy~ 61 (110) .-+..-+..+|-+|-|+.+|---+ T Consensus 2 e~VikVl~~~ck~~~gk~spskKe 25 (87) T d1a6sa_ 2 EAVIKVISSACKTYCGKTSPSKKE 25 (87) T ss_dssp HHHHHHHHHHHHHHHTTTSSCSSH T ss_pred CHHHHHHHHHHHHHCCCCCCCHHH T ss_conf 069999999999874778983889 No 9 >d1dqna_ c.61.1.1 (A:) Guanine PRTase {Giardia lamblia [TaxId: 5741]} Probab=9.34 E-value=22 Score=14.69 Aligned_cols=22 Identities=23% Similarity=0.158 Sum_probs=13.7 Q ss_pred CCCHHHHHHHHCCC--HHHHHHHH Q ss_conf 11044576310322--35543304 Q gi|254780514|r 54 KITPYLYEWVLSNT--QSRRSRDG 75 (110) Q Consensus 54 ~i~P~iy~l~lsnt--qsrrsrag 75 (110) |=.|+||.+..|+. +++|+|+- T Consensus 193 RnLp~Iy~l~~~~~~~~~~~~~~~ 216 (230) T d1dqna_ 193 RGWAHLFDINLSESEVTEFRRRLT 216 (230) T ss_dssp TTCCSEEESSSCHHHHHHHHHHHH T ss_pred CCCCCEEEECCCCCCCHHHHHHCH T ss_conf 898916997520123424442053 No 10 >d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]} Probab=9.10 E-value=49 Score=12.69 Aligned_cols=38 Identities=11% Similarity=0.097 Sum_probs=20.9 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHCC-------------CHHHHHHHHHHHH Q ss_conf 9999996321201104457631032-------------2355433045799 Q gi|254780514|r 42 NTLTKKFGDYMSKITPYLYEWVLSN-------------TQSRRSRDGQEFE 79 (110) Q Consensus 42 etir~~~gdY~~~i~P~iy~l~lsn-------------tqsrrsrag~~fe 79 (110) +.++.+.+.-.+...||||.++.+- --|-.|-|||+.- T Consensus 91 ~~~~~y~~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~ 141 (712) T d1d0xa2 91 EMVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTEN 141 (712) T ss_dssp HHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHH T ss_pred HHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHH T ss_conf 999997188768899859999999999999738991699967998888999 Done!