Query gi|254781190|ref|YP_003065603.1| hypothetical protein CLIBASIA_05485 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 233
No_of_seqs 140 out of 347
Neff 7.7
Searched_HMMs 23785
Date Wed Jun 1 04:09:30 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254781190.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1ro2_A Hypothetical protein OR 99.7 1.5E-17 6.2E-22 119.0 4.3 105 3-112 47-163 (216)
2 3m1m_A ORF904; primase, polyme 99.6 6.7E-15 2.8E-19 103.7 7.5 100 3-106 51-160 (335)
3 3h20_A Replication protein B; 96.2 0.012 5.1E-07 33.0 6.7 59 170-232 228-287 (323)
4 2kn2_A Calmodulin; S MAPK phos 14.1 50 0.0021 12.2 4.9 49 166-215 43-92 (92)
5 2fao_A Probable ATP-dependent 8.8 76 0.0032 11.2 6.0 45 24-69 133-185 (309)
6 2ia9_A Putative septation prot 7.9 83 0.0035 10.9 2.2 21 90-110 42-62 (100)
7 1bax_A M-PMV MA, M-PMV matrix 7.5 87 0.0037 10.8 3.3 36 179-214 46-84 (94)
8 2iru_A Putative DNA ligase-lik 7.4 88 0.0037 10.8 6.0 40 26-65 137-183 (303)
9 2i9x_A Putative septation prot 6.7 96 0.004 10.6 2.2 22 88-109 40-61 (87)
10 2odr_D Phosphoseryl-tRNA synth 6.1 1E+02 0.0044 10.4 3.1 80 98-177 1-81 (685)
No 1
>1ro2_A Hypothetical protein ORF904; DNA polymerase, primase, replication, polymerization, evolution of nucleic acid polymerizing enzymes; 1.60A {Sulfolobus islandicus} SCOP: d.264.1.2 PDB: 1ro0_A 1rni_A
Probab=99.68 E-value=1.5e-17 Score=119.01 Aligned_cols=105 Identities=9% Similarity=0.080 Sum_probs=68.7
Q ss_pred HHHHHCCCCC-CEEEEECCCCCCEEEEEEECCCHHHHHHH---HHHHHHHCCCCEEEECCCCCEEEEEECCCCCCCCCCC
Q ss_conf 3787518616-88997078848889999548984678999---9977640898629867889539998447431243357
Q gi|254781190|r 3 ATDVDHYVYN-GFGILCGIGTHPVYAFDVDVLDEQVVDRF---NNEFQSCCGKPISRVGQAPKTLMLFRMQETNLKKQKS 78 (233)
Q Consensus 3 a~~~~~~p~~-giGi~~G~~s~~l~~iDiD~~d~~~~~~~---~~~~~~~~~~~~~~~g~~~~~~~lfr~~~~~~~~~~~ 78 (233)
..+++++|.+ ||||+||+ + ++++||||.. .....+ ..+.+.+..+++++++ .++.|+||+.++.+..+...
T Consensus 47 ~~w~~~~p~~~NiGI~tG~-s-glvViDiD~~--~~~~~~~~~~~l~~~~~~T~~v~Tp-sGG~HlYf~~~~~p~~~~~~ 121 (216)
T 1ro2_A 47 QRFLKMIEEGYNYAIPGGQ-K-GMVIMDFESK--EKLKAWIGESALEELCRKTLCTNTV-HGGIHIYVLSNDIPPHKINP 121 (216)
T ss_dssp HHHHHHHHHTCEEEEESSG-G-GEEEEEESCH--HHHHHHHCHHHHHHHHHHSCEEECT-TSCEEEEEECSCCCSSCCCC
T ss_pred HHHHHHCCCCCEEEEECCC-C-CEEEEECCCC--CHHHHHHHHHHHHHCCCCCEEEECC-CCEEEEEEECCCCCCCCCCC
T ss_conf 9999859975559998178-8-8899978885--2066665556666208886699889-98589999778878554365
Q ss_pred C--CCCCCCEEEEECCCEEEECCC-----C-CCCCCCEEEEC
Q ss_conf 7--767663589845832895366-----8-88888457421
Q gi|254781190|r 79 E--EKIQGHLEFLAYGQQFVAYNI-----H-PKTQRAYTWSI 112 (233)
Q Consensus 79 ~--~~~~~~iEi~~~g~q~V~~g~-----h-p~Tg~~Y~W~~ 112 (233)
. ......||||+.|+|||+||| | +.++.+|+|.+
T Consensus 122 ~~~~~g~~~iDir~~ggYVVaPgS~i~h~~~~~~~~~~~~~~ 163 (216)
T 1ro2_A 122 LFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQN 163 (216)
T ss_dssp SEESSSSEEEEEECTTCEEECTTCEEEGGGCCSTTCTTTTCS
T ss_pred CEECCCCCEEEEEECCCEEEECCEECCCCCCCCCCCCCCCCC
T ss_conf 332389844899716988995581035666787777745787
No 2
>3m1m_A ORF904; primase, polymerase, plasmid, replication; 1.85A {Sulfolobus islandicus}
Probab=99.56 E-value=6.7e-15 Score=103.69 Aligned_cols=100 Identities=11% Similarity=0.143 Sum_probs=62.0
Q ss_pred HHHHHCCCCC-CEEEEECCCCCCEEEEEEECCCHHHHHHHH--HHHHHHCCCCEEEECCCCCEEEEEECCCCCC-CCCCC
Q ss_conf 3787518616-889970788488899995489846789999--9776408986298678895399984474312-43357
Q gi|254781190|r 3 ATDVDHYVYN-GFGILCGIGTHPVYAFDVDVLDEQVVDRFN--NEFQSCCGKPISRVGQAPKTLMLFRMQETNL-KKQKS 78 (233)
Q Consensus 3 a~~~~~~p~~-giGi~~G~~s~~l~~iDiD~~d~~~~~~~~--~~~~~~~~~~~~~~g~~~~~~~lfr~~~~~~-~~~~~ 78 (233)
..+++.+|.+ ||||+||+ +|+++||||.. .....+. .-+..++..+....+..||.|+||+.++.+. +.+..
T Consensus 51 ~~Ww~~~P~a~NIGI~TG~--sGLVVLDiD~k--eg~~~~~~~~~L~~li~~T~~VkTPSGG~HLYfr~~e~Pp~k~~p~ 126 (335)
T 3m1m_A 51 QRFLKMIEEGYNYAIPGGQ--KGLVILDFESK--EKLKAWIGESALEELCRKTLCTNTVHGGIHIYVLSNDIPPHKINPL 126 (335)
T ss_dssp HHHHHHHHTTCEEEEESSG--GGEEEEEESCH--HHHHHHHCHHHHHHHHHHSCEEECTTSCEEEEEECSSCCSSCEEEE
T ss_pred HHHHHHCCCCCEEEEECCC--CCEEEEECCCC--CCHHHHHHHHHHHHCCCCCEEEECCCCCEEEEEECCCCCHHHCCCC
T ss_conf 9999749875548997288--88899989786--4224554345666317787699899991899997899882322654
Q ss_pred CCC-CCCCEEEEECCCEEEECCC-----CCCCCC
Q ss_conf 776-7663589845832895366-----888888
Q gi|254781190|r 79 EEK-IQGHLEFLAYGQQFVAYNI-----HPKTQR 106 (233)
Q Consensus 79 ~~~-~~~~iEi~~~g~q~V~~g~-----hp~Tg~ 106 (233)
... ....+||++.|+|||+||| |++|.+
T Consensus 127 ~~~~G~gviDirs~ggYVVaPGS~inh~~~~~~k 160 (335)
T 3m1m_A 127 FEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDK 160 (335)
T ss_dssp EEETTEEEEEEECTTCEEECTTCEEEGGGCCSTT
T ss_pred CCCCCCCEEEEECCCCEEECCCCCCCCCCCCCCC
T ss_conf 2247874277854897898882020455666667
No 3
>3h20_A Replication protein B; primase, nucleotidyltransferase, helix-bundle-domain; 1.99A {Plasmid RSF1010} PDB: 3h25_A
Probab=96.22 E-value=0.012 Score=33.03 Aligned_cols=59 Identities=12% Similarity=0.088 Sum_probs=37.9
Q ss_pred HHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCHH-HHHHHHHHC
Q ss_conf 999997358001356745799999876302788622679999986138899867-899986207
Q gi|254781190|r 170 IRAFLSCFGEEFYNGSHDEWIPVVMAIHYETRGSAEGKEIVREWCKLGRTYDEK-SFNAKWDSF 232 (233)
Q Consensus 170 a~~~L~~i~~~~~~~dyd~W~~vg~AL~~~~~~~~~~l~lw~~WS~~~~~y~~~-~~~~~W~sF 232 (233)
....+..... +.+|.+|.-+ ++|.+.-.+.+....+..++|...+++++. ...+.|.+|
T Consensus 228 ~~~l~~r~~g---d~S~~D~~~a-~~l~~~G~t~d~ia~Ai~~~sp~~~~~~~~~~~dya~rt~ 287 (323)
T 3h20_A 228 MAGLVKRFGD---DLSKCDFIAA-QKLASRGRSAEEIGKAMAEASPALAERKPGHEADYIERTV 287 (323)
T ss_dssp HHHHHHHCTT---CHHHHHHHHH-HHHHHTTCCHHHHHHHHHHHCHHHHTCC--CHHHHHHHHH
T ss_pred HHCCHHHHCC---CCHHHHHHHH-HHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
T ss_conf 4310222058---8218799999-9999947999999999986281334357553247999999
No 4
>2kn2_A Calmodulin; S MAPK phosphatase 1, NTMKP1, tobacco MKP1, metal binding Pro; NMR {Glycine max}
Probab=14.13 E-value=50 Score=12.20 Aligned_cols=49 Identities=10% Similarity=0.137 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHCCCCCC-CCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHC
Q ss_conf 69999999973580013-567457999998763027886226799999861
Q gi|254781190|r 166 TNIEIRAFLSCFGEEFY-NGSHDEWIPVVMAIHYETRGSAEGKEIVREWCK 215 (233)
Q Consensus 166 ~~~~a~~~L~~i~~~~~-~~dyd~W~~vg~AL~~~~~~~~~~l~lw~~WS~ 215 (233)
+..++..++..++++.- ..+|++++++.++.+.... ......+...||+
T Consensus 43 t~~e~~~l~~~~D~d~~G~I~~~eF~~~~~s~~~~~~-~~~~~~~~r~f~~ 92 (92)
T 2kn2_A 43 TDEEVEQMIKEADLDGDGQVNYEEFVKMMMTVRGGGG-GNGWSRLRRKFSS 92 (92)
T ss_dssp CHHHHHHHHHHHCSSCCSSEEHHHHHHHHHHHTTTCC-CHHHHHHHHHHTC
T ss_pred CHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHCCCCCC-CHHHHHHHHHHCC
T ss_conf 9999999999809899995939999999997664422-0159999987079
No 5
>2fao_A Probable ATP-dependent DNA ligase; polymerase, primase, NHEJ, hydrolase/transferase complex; 1.50A {Pseudomonas aeruginosa} PDB: 2faq_A* 2far_A*
Probab=8.80 E-value=76 Score=11.15 Aligned_cols=45 Identities=9% Similarity=0.075 Sum_probs=27.9
Q ss_pred CEEEEEEECCCH-------HHHHHHHHHHHHHC-CCCEEEECCCCCEEEEEECC
Q ss_conf 889999548984-------67899999776408-98629867889539998447
Q gi|254781190|r 24 PVYAFDVDVLDE-------QVVDRFNNEFQSCC-GKPISRVGQAPKTLMLFRMQ 69 (233)
Q Consensus 24 ~l~~iDiD~~d~-------~~~~~~~~~~~~~~-~~~~~~~g~~~~~~~lfr~~ 69 (233)
..++||.|..+. .++..+.++++++. ...+.|||.. |.|.+-.+.
T Consensus 133 D~lvfDLDP~~~~~f~~v~~~A~~~r~~L~~lGL~sf~KTSG~k-GlHV~vPl~ 185 (309)
T 2fao_A 133 DRFVLDLDPDPALPWKRMLEATQLSLTLLDELGLRAFLKTSGGK-GMHLLVPLE 185 (309)
T ss_dssp SEEEEEEEECTTSCHHHHHHHHHHHHHHHHHHTCCCEEEECSSS-SEEEEEECC
T ss_pred CEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEECCCCC-EEEEEEECC
T ss_conf 86999579998989899999999999999975996420536998-579999668
No 6
>2ia9_A Putative septation protein spovg; APC85465, bacillus subtilis subsp. subtilis STR. 168, structural genomics, PSI-2; 3.00A {Bacillus subtilis} SCOP: d.366.1.1
Probab=7.92 E-value=83 Score=10.93 Aligned_cols=21 Identities=14% Similarity=0.102 Sum_probs=15.6
Q ss_pred ECCCEEEECCCCCCCCCCEEE
Q ss_conf 458328953668888884574
Q gi|254781190|r 90 AYGQQFVAYNIHPKTQRAYTW 110 (233)
Q Consensus 90 ~~g~q~V~~g~hp~Tg~~Y~W 110 (233)
+..|.+|++|++....+.|+=
T Consensus 42 g~~GlFVaMPs~k~~~g~y~D 62 (100)
T 2ia9_A 42 GNNGLFVAMPSKRTPDGEFRD 62 (100)
T ss_dssp ETTEEEEECCEEECTTSCEEE
T ss_pred CCCCCEEECCCCCCCCCCEEE
T ss_conf 898769989775999998989
No 7
>1bax_A M-PMV MA, M-PMV matrix protein; core protein, polyprotein, myristylation; NMR {Mason-pfizer monkey virus} SCOP: a.61.1.3 PDB: 2f76_X 2f77_X
Probab=7.46 E-value=87 Score=10.80 Aligned_cols=36 Identities=8% Similarity=-0.064 Sum_probs=0.0
Q ss_pred CCCCCCCHHHHHHHHHHH---HHCCCCCHHHHHHHHHHH
Q ss_conf 001356745799999876---302788622679999986
Q gi|254781190|r 179 EEFYNGSHDEWIPVVMAI---HYETRGSAEGKEIVREWC 214 (233)
Q Consensus 179 ~~~~~~dyd~W~~vg~AL---~~~~~~~~~~l~lw~~WS 214 (233)
|.....+-.+|.+||..| +.+..+...-...|..|+
T Consensus 46 p~~GtL~~~~W~kvG~~Lk~~~~~~~~~~ip~~~~~~W~ 84 (94)
T 1bax_A 46 PQEGTIDIKRWRRVGDCFQDYYNTFGPEKVPVTAFSYWN 84 (94)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH
T ss_conf 667966699999999999999997399757867987999
No 8
>2iru_A Putative DNA ligase-like protein RV0938/MT0965; polymerase, primase, NHEJ, transferase; 1.65A {Mycobacterium tuberculosis H37RV} PDB: 2irx_A* 2iry_A* 2r9l_A*
Probab=7.44 E-value=88 Score=10.79 Aligned_cols=40 Identities=10% Similarity=0.078 Sum_probs=0.0
Q ss_pred EEEEEECCCH-------HHHHHHHHHHHHHCCCCEEEECCCCCEEEE
Q ss_conf 9999548984-------678999997764089862986788953999
Q gi|254781190|r 26 YAFDVDVLDE-------QVVDRFNNEFQSCCGKPISRVGQAPKTLML 65 (233)
Q Consensus 26 ~~iDiD~~d~-------~~~~~~~~~~~~~~~~~~~~~g~~~~~~~l 65 (233)
++||.|..+. .++..+.++++++.=...+.+....|.|.+
T Consensus 137 lvfDLDP~~~~~f~~v~~~A~~vr~~L~~lgL~sf~KTSG~kGlHV~ 183 (303)
T 2iru_A 137 LVFDLDPGEGVMMAQLAEVARAVRDLLADIGLVTFPVTSGSKGLHLY 183 (303)
T ss_dssp EEEEEEECTTCCHHHHHHHHHHHHHHHHTTTCCCEEEECSSSCEEEE
T ss_pred EEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEE
T ss_conf 99848988689999999999999999997699623054799857999
No 9
>2i9x_A Putative septation protein spovg; APC86317.1, structural genomics, PSI-2, protein structure initiative; 1.80A {Staphylococcus epidermidis atcc 12228} SCOP: d.366.1.1
Probab=6.70 E-value=96 Score=10.58 Aligned_cols=22 Identities=14% Similarity=0.149 Sum_probs=0.0
Q ss_pred EEECCCEEEECCCCCCCCCCEE
Q ss_conf 9845832895366888888457
Q gi|254781190|r 88 FLAYGQQFVAYNIHPKTQRAYT 109 (233)
Q Consensus 88 i~~~g~q~V~~g~hp~Tg~~Y~ 109 (233)
+-+..|.+|++||+....+.|+
T Consensus 40 ieg~~GlfVamPs~k~~dg~y~ 61 (87)
T 2i9x_A 40 IEGNSGLFVAMPSKRTPDGEFR 61 (87)
T ss_dssp EEETTEEEEECCEEECTTSCEE
T ss_pred EECCCCCEEECCCCCCCCCCEE
T ss_conf 9889864998988688999898
No 10
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis S2}
Probab=6.09 E-value=1e+02 Score=10.38 Aligned_cols=80 Identities=13% Similarity=0.154 Sum_probs=0.0
Q ss_pred CCCCCCCCCCEEE-ECCCCCCCHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 3668888884574-216776882236768999999999754420134445656554666667653014569999999973
Q gi|254781190|r 98 YNIHPKTQRAYTW-SIAPHALKVEELPLLTPDEVEYFFEFFDTITTPRDKEKSYRKLSKIWKSHNNRRYTNIEIRAFLSC 176 (233)
Q Consensus 98 ~g~hp~Tg~~Y~W-~~~~~~~~~~~lP~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~L~~ 176 (233)
+||||.--..|-- +.+..-++....++.....++.-...............+..+..............+.+++..+..
T Consensus 1 ~~~~~~~~~s~GL~~~~ShrFer~~~~Ela~ka~ErAw~~~~~il~~~~id~~~Pr~~~~~Gk~HPI~~~IeeIreIL~s 80 (685)
T 2odr_D 1 MGSHHHHHHSSGLVPRGSHMFKREEIIEMANKDFEKAWIETKDLIKAKKINESYPRIKPVFGKTHPVNDTIENLRQAYLR 80 (685)
T ss_dssp ----------------------CHHHHHHHHHCHHHHHHHHGGGSCCCCGGGSTTTCCCCCCBCCHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 98755444357878605641113355777799999999975555067766645899888876607589999999999998
Q ss_pred C
Q ss_conf 5
Q gi|254781190|r 177 F 177 (233)
Q Consensus 177 i 177 (233)
+
T Consensus 81 L 81 (685)
T 2odr_D 81 M 81 (685)
T ss_dssp T
T ss_pred C
T ss_conf 7
Done!