Query         gi|254780896|ref|YP_003065309.1| ABC transporter membrane spanning protein (branched chain amino acid) [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 351
No_of_seqs    156 out of 4108
Neff          8.1 
Searched_HMMs 23785
Date          Wed Jun  1 00:01:08 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780896.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2nq2_A Hypothetical ABC transp  95.3     0.1 4.4E-06   26.7  24.2  112  207-337   215-331 (337)
  2 2qi9_A Vitamin B12 import syst  93.3    0.29 1.2E-05   24.0  20.4  112  207-336   208-324 (326)
  3 2rdd_B UPF0092 membrane protei  17.7      31  0.0013   11.6   1.1   12  326-337    13-24  (37)
  4 1uhu_A Product of riken cDNA 3  13.3      41  0.0017   10.9   2.5   35  203-237     7-41  (105)
  5 1y6u_A XIS, excisionase from t  12.8      42  0.0018   10.8   1.2   18  217-234    20-37  (70)
  6 2r6g_F Maltose transport syste  11.2      48   0.002   10.5   6.3   13  204-216   311-323 (514)
  7 1wur_A GTP cyclohydrolase I; b  10.8      49  0.0021   10.4   2.0   33  207-239    43-75  (220)
  8 1mn8_A Core protein P15; helic  10.2      51  0.0022   10.3   2.5   35  203-237     7-41  (100)
  9 3few_X Colicin S4; cell lysis,  10.1      52  0.0022   10.3   0.7   27  225-251   425-451 (505)
 10 1rp1_A Pancreatic lipase relat   9.3      26  0.0011   12.1  -1.6   30  217-246   135-164 (450)

No 1  
>2nq2_A Hypothetical ABC transporter permease protein HI1471; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}
Probab=95.29  E-value=0.1  Score=26.69  Aligned_cols=112  Identities=13%  Similarity=0.063  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCC-CHHHHHHHHHHHHHCCCCC----H
Q ss_conf             9999996421222334202322367999998799999999999866440113543-1589999889887347422----3
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMF-KFSENIIVISIVILGGMTS----L  281 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~-~~~~~~~~~~~vvlGG~gs----~  281 (351)
                      .|++....-+||.|+.+|+|++|.|.....+++.+++.+=..    .|   |-.| ++.  ..-++--..| ...    +
T Consensus       215 ~~~l~~l~lG~~~A~sLGv~v~~~r~~~l~l~~llta~~vs~----~G---~I~FvGLi--~Phiar~l~g-~~~~~~l~  284 (337)
T 2nq2_A          215 SWRLNLLSLDEKEAKALGVKMAPLRWLVIFLSGSLVACQVAI----SG---SIGWVGLI--IPHLSRMLVG-ANHQSLLP  284 (337)
T ss_dssp             TTGGGGGGSCHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHH----HC---CCCSSTTH--HHHHHHHHHC-SCHHHHHH
T ss_pred             HCCCCHHCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHC----CC---CEEEHHHH--HHHHHHHHHC-CCCCHHHH
T ss_conf             300562107938898789979999999999999999999963----77---63038740--9999999818-88533999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             89999999999999999873122100001234442025899999999999998589
Q gi|254780896|r  282 SKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSH  337 (351)
Q Consensus       282 ~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~  337 (351)
                      ..++.|+.++...+...+...+.         +........+++...++.+++|.+
T Consensus       285 ~s~l~Ga~lll~aD~i~r~l~p~---------elPvG~vtaliG~p~fl~ll~r~~  331 (337)
T 2nq2_A          285 CTMLVGATYMLLVDNVARSLSDA---------EIPISILTALIGAPLFGVLVYKLK  331 (337)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCSS---------CCCHHHHHHHHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCC---------CEEHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999998665677---------731999999999999999999852


No 2  
>2qi9_A Vitamin B12 import system permease protein BTUC; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_A*
Probab=93.25  E-value=0.29  Score=23.98  Aligned_cols=112  Identities=13%  Similarity=0.020  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCC-CHHHHHHHHHHHHHCCCCC---HH
Q ss_conf             9999996421222334202322367999998799999999999866440113543-1589999889887347422---38
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMF-KFSENIIVISIVILGGMTS---LS  282 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~-~~~~~~~~~~~vvlGG~gs---~~  282 (351)
                      .|++....-+||.|+.+|+|++|.|.....+++.+++.+=..    .   .|-.| ++.  ..-++- .+.|...   ++
T Consensus       208 ~~~L~~l~lG~~~A~sLGv~v~~~r~~~l~~~~ll~a~~va~----~---G~I~FvGLi--~PhiaR-~~~g~~~~~~l~  277 (326)
T 2qi9_A          208 SRPMNMLALGEISARQLGLPLWFWRNVLVAATGWMVGVSVAL----A---GAIGFIGLV--IPHILR-LSGLTDHRVLLP  277 (326)
T ss_dssp             HHHHHHHHTCHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHH----H---CCCCSSTTH--HHHHHH-TTTCCSHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH----H---CHHHHHHHH--HHHHHH-HHCCCCCCHHHH
T ss_conf             988777636849888679858998899886889999999985----1---569999998--999999-862777436999


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             -999999999999999987312210000123444202589999999999999858
Q gi|254780896|r  283 -KIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRS  336 (351)
Q Consensus       283 -Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP  336 (351)
                       -++.|+.++...+...+....+        ..........+++....+.++.|-
T Consensus       278 ~s~l~Ga~lll~aD~i~r~i~~p--------~eiPvGvitaliG~P~fi~Ll~r~  324 (326)
T 2qi9_A          278 GCALAGASALLLADIVARLALAA--------AELPIGVVTATLGAPVFIWLLLKA  324 (326)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSTT--------CCCCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCC--------CCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             99999999999999999661466--------542199999999999999977204


No 3  
>2rdd_B UPF0092 membrane protein YAJC; drug resistance, multidrug efflux, transporter, antiporter, novel transmembrane helix, ACRB, inner membrane; HET: AIC; 3.50A {Escherichia coli}
Probab=17.65  E-value=31  Score=11.62  Aligned_cols=12  Identities=17%  Similarity=0.517  Sum_probs=5.2

Q ss_pred             HHHHHHHHHCCC
Q ss_conf             999999998589
Q gi|254780896|r  326 IALFLVILMRSH  337 (351)
Q Consensus       326 ~~lilvll~rP~  337 (351)
                      ++++.+++.|||
T Consensus        13 f~ifYFliIRPQ   24 (37)
T 2rdd_B           13 GLIFYFMILRPQ   24 (37)
T ss_dssp             HHHHHHHTHHHH
T ss_pred             HHHHHHHHHCCH
T ss_conf             999999995701


No 4  
>1uhu_A Product of riken cDNA 3110009E22; structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.61.1.6
Probab=13.26  E-value=41  Score=10.92  Aligned_cols=35  Identities=14%  Similarity=0.108  Sum_probs=29.0

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             30599999996421222334202322367999998
Q gi|254780896|r  203 RTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAV  237 (351)
Q Consensus       203 rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~i  237 (351)
                      .|+++.-+.--.|=+.+|...|++++|-|+..|+-
T Consensus         7 ~TPL~l~L~hw~dv~~rA~n~sv~vkKgkl~t~C~   41 (105)
T 1uhu_A            7 GTPLSLTLDHWSEIRSRAHNLSVEIKKGPWRTFCA   41 (105)
T ss_dssp             CCHHHHHHHTHHHHHHHHHHHTCCCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEC
T ss_conf             89789999888998888733773012460554421


No 5  
>1y6u_A XIS, excisionase from transposon TN916; structure, DNA architectural protein, tyrosine recombinase, winged-helix protein; NMR {Enterococcus faecalis}
Probab=12.76  E-value=42  Score=10.83  Aligned_cols=18  Identities=11%  Similarity=-0.206  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             222334202322367999
Q gi|254780896|r  217 QKAFFSLNTTIIFAKLSA  234 (351)
Q Consensus       217 ~~aA~~~Ginv~~~~~~a  234 (351)
                      +|||++.||..++.+-.+
T Consensus        20 ~EAa~Y~gIg~~klr~L~   37 (70)
T 1y6u_A           20 EEASKYFRIGENKLRRLA   37 (70)
T ss_dssp             HHHHHHTCSCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHH
T ss_conf             999999692799999999


No 6  
>2r6g_F Maltose transport system permease protein MALF; ABC transporter, catalytic intermediate, E. coli maltose transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} SCOP: e.70.1.1 f.58.1.1 PDB: 3fh6_F
Probab=11.17  E-value=48  Score=10.52  Aligned_cols=13  Identities=8%  Similarity=-0.097  Sum_probs=4.7

Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             0599999996421
Q gi|254780896|r  204 TAISNAWRTIRDN  216 (351)
Q Consensus       204 T~~G~~lrAv~~n  216 (351)
                      .|.-+..|.+-.-
T Consensus       311 ~r~~~~~~~l~~l  323 (514)
T 2r6g_F          311 LRGKAVYRVLLIL  323 (514)
T ss_dssp             STTHHHHHHHTTH
T ss_pred             CCCHHHHHHHEEH
T ss_conf             3511130251269


No 7  
>1wur_A GTP cyclohydrolase I; beta barrel, protein-inhibitor complex, pteridine, tetrahydrobiopterin, structural genomics; HET: 8DG; 1.82A {Thermus thermophilus} SCOP: d.96.1.1 PDB: 1wm9_A* 1wuq_A*
Probab=10.77  E-value=49  Score=10.43  Aligned_cols=33  Identities=21%  Similarity=0.062  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999642122233420232236799999879
Q gi|254780896|r  207 SNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSS  239 (351)
Q Consensus       207 G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~  239 (351)
                      -..+++++|||++..+.+.+-+-.|.+....+|
T Consensus        43 ~~iL~~lGeDp~regL~~TP~Rvak~~~e~~~G   75 (220)
T 1wur_A           43 AEWLQVIGEDPGREGLLKTPERVAKAWAFLTRG   75 (220)
T ss_dssp             HHHHHHTTCCTTSGGGTTHHHHHHHHHHHHTGG
T ss_pred             HHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             999999679998533202699999999999646


No 8  
>1mn8_A Core protein P15; helical bundle, viral protein; 1.00A {Moloney murine leukemia virus} SCOP: a.61.1.6
Probab=10.24  E-value=51  Score=10.32  Aligned_cols=35  Identities=11%  Similarity=0.128  Sum_probs=28.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             30599999996421222334202322367999998
Q gi|254780896|r  203 RTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAV  237 (351)
Q Consensus       203 rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~i  237 (351)
                      .|+++.-+.--+|=+.+|...|++++|-|...|+-
T Consensus         7 sTPL~l~L~hw~d~~~ra~n~sv~vkkgkl~tlC~   41 (100)
T 1mn8_A            7 TTPLSLTLGHWKDVERIAHNQSVDVKKRRWVTFCS   41 (100)
T ss_dssp             CCHHHHHHHTHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCEECCCCEEEEEC
T ss_conf             67789999879998777623772231351011211


No 9  
>3few_X Colicin S4; cell lysis, Y-RAY, cell killing, immune system; 2.45A {Escherichia coli}
Probab=10.15  E-value=52  Score=10.30  Aligned_cols=27  Identities=15%  Similarity=0.183  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             232236799999879999999999986
Q gi|254780896|r  225 TTIIFAKLSAFAVSSAFIGMAGAFFAA  251 (351)
Q Consensus       225 inv~~~~~~af~is~~lAgiaG~l~a~  251 (351)
                      ..|-.+++-+|+++++-++++..+++.
T Consensus       425 w~p~~~~~e~~~~~~~a~~~~~~~~~~  451 (505)
T 3few_X          425 WGPLMLEVESWVLSGIASAVALGVFSA  451 (505)
T ss_dssp             CHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             537999999999976899999999999


No 10 
>1rp1_A Pancreatic lipase related protein 1; hydrolase, lipid degradation; HET: NAG; 2.10A {Canis lupus familiaris} SCOP: b.12.1.2 c.69.1.19 PDB: 2ppl_A
Probab=9.31  E-value=26  Score=12.07  Aligned_cols=30  Identities=13%  Similarity=0.087  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             222334202322367999998799999999
Q gi|254780896|r  217 QKAFFSLNTTIIFAKLSAFAVSSAFIGMAG  246 (351)
Q Consensus       217 ~~aA~~~Ginv~~~~~~af~is~~lAgiaG  246 (351)
                      ....+..|++.+++.++.+.+++-+||.+|
T Consensus       135 ~~l~~~~g~~~~~vhLIGhSLGAhiAG~aG  164 (450)
T 1rp1_A          135 SMLSANYSYSPSQVQLIGHSLGAHVAGEAG  164 (450)
T ss_dssp             HHHHHHHCCCGGGEEEEEETHHHHHHHHHH
T ss_pred             HHHHHHCCCCHHHEEEEEECHHHHHHHHHH
T ss_conf             999984299866628986059999999998


Done!