Query         gi|255764469|ref|YP_003064807.2| putative permease protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 361
No_of_seqs    133 out of 2399
Neff          9.6 
Searched_HMMs 23785
Date          Mon May 30 10:31:53 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 255764469.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3my2_A Lipopolysaccharide expo  33.0     9.4  0.0004   15.2   0.5   37  174-210    60-97  (175)
  2 2iub_A CORA, divalent cation t  24.0      25  0.0011   12.9   2.6   71  285-359   283-360 (363)
  3 2rdc_A Uncharacterized protein  18.0      35  0.0015   12.2   1.7   16  316-331   102-117 (153)
  4 1wpg_A Sarcoplasmic/endoplasmi   9.4      64  0.0027   10.8   3.0   40   49-88    293-332 (994)
  5 2knc_B Integrin beta-3; transm   6.6      86  0.0036   10.1   2.0   32   90-121     2-33  (79)
  6 3ixz_A Potassium-transporting    4.5 1.4E+02  0.0059    9.0   8.9   43   46-88    325-367 (1034)
  7 1ufg_A Lamin A, nuclear lamin;   3.9 1.3E+02  0.0055    9.1  -0.5   34  177-210    38-71  (151)
  8 1oed_C Acetylcholine receptor    3.4 1.9E+02  0.0082    8.2   5.5   21    8-28      4-24  (260)
  9 3hn9_A Lamin-B1; structural ge   3.4 1.5E+02  0.0065    8.7  -0.5   33  178-210    14-46  (123)
 10 2zxe_A Na, K-ATPase alpha subu   3.2 2.1E+02  0.0088    8.0   8.1   68   10-86    293-360 (1028)

No 1  
>3my2_A Lipopolysaccharide export system protein LPTC; lipopolysaccharide export pathway, structural genomics scottish structural proteomics facility; 2.20A {Escherichia coli}
Probab=32.97  E-value=9.4  Score=15.16  Aligned_cols=37  Identities=24%  Similarity=0.136  Sum_probs=21.8

Q ss_pred             HHHCCCCCCCCCCCCCHHHHHHHCCCCCCCC-CCCCCC
Q ss_conf             2200000121111220244442011114578-511116
Q gi|255764469|r  174 HIWEDFTSITIDKKNKIIHRKDADLAIIYND-KVKLKK  210 (361)
Q Consensus       174 ~~~~~v~i~~~~~~~~~~~~i~A~~~~~~~~-~~~l~~  210 (361)
                      ..+.+..+..+++++...+.+.|++|.++++ .+.|.+
T Consensus        60 ~~l~~P~~~~~~~~~~~~w~itA~~g~~~~~~~l~L~g   97 (175)
T 3my2_A           60 SWFTQPVLTTFDKDKIPTWSVKADKAKLTNDRMLYLYG   97 (175)
T ss_dssp             EEEESCEEEEECTTCCEEEEEECSEEEECTTSEEEEEE
T ss_pred             EEEECCEEEEECCCCCCEEEEEECEEEECCCCEEEEEC
T ss_conf             48825599997489982299993858987996899964


No 2  
>2iub_A CORA, divalent cation transport-related protein; membrane protein, ION transporter; 2.9A {Thermotoga maritima} SCOP: d.328.1.1 f.17.3.1 PDB: 2hn2_A 2bbj_A
Probab=23.97  E-value=25  Score=12.88  Aligned_cols=71  Identities=14%  Similarity=0.162  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CC----H--HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999997504122431379999999999999999999999975078-37----9--699999999999999999987
Q gi|255764469|r  285 VAMTLIAASVSLEFSRSNQPRIIVAYGIFSGFMLYTIITIMKSFGKSGI-LL----P--VAAALIPVILTISLSILILLQ  357 (361)
Q Consensus       285 ~~l~lla~~l~~~~~R~~~~~~~i~~~i~~~~~~y~l~~~~~~l~~~g~-l~----p--~~a~w~P~~~~~~~~~~ll~~  357 (361)
                      .+-.+.....+....|... ...+.+.+.  .++.-+..++...|-|-. +|    |  +..+|.. ++.+.++.++++|
T Consensus       283 ~l~~l~d~~~s~~s~~~N~-~mk~LTiis--~IFlPlTfIaGiyGMNf~~mPel~~~~gy~~~l~~-m~~~~~~~~~~fk  358 (363)
T 2iub_A          283 IVSGLLDVYLSSVSNKTNE-VMKVLTIIA--TIFMPLTFIAGIYGMNFEYMPELRWKWGYPVVLAV-MGVIAVIMVVYFK  358 (363)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-HHHHHHHHH--HHHHHHHHHTTSCC--------------CHHHHHH-HHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHHHHHH--HHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHH-HHHHHHHHHHHHH
T ss_conf             9999999999999999999-999999999--99999999981655646999854576799999999-9999999999999


Q ss_pred             HH
Q ss_conf             50
Q gi|255764469|r  358 KE  359 (361)
Q Consensus       358 ~e  359 (361)
                      |.
T Consensus       359 rk  360 (363)
T 2iub_A          359 KK  360 (363)
T ss_dssp             SC
T ss_pred             HC
T ss_conf             82


No 3  
>2rdc_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.80A {Geobacter sulfurreducens pca}
Probab=17.96  E-value=35  Score=12.17  Aligned_cols=16  Identities=13%  Similarity=0.233  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999999999999750
Q gi|255764469|r  316 FMLYTIITIMKSFGKS  331 (361)
Q Consensus       316 ~~~y~l~~~~~~l~~~  331 (361)
                      |-=|++-..++-+.+.
T Consensus       102 iNRy~vkeyge~l~ea  117 (153)
T 2rdc_A          102 FNRYIVKEYGEELKEA  117 (153)
T ss_dssp             HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHC
T ss_conf             9999999985888873


No 4  
>1wpg_A Sarcoplasmic/endoplasmic reticulum calcium ATPase 1; membrane protein, P-type ATPase, HAD fold, hydrolase; HET: ADP TG1; 2.30A {Oryctolagus cuniculus} SCOP: b.82.7.1 c.108.1.7 d.220.1.1 f.33.1.1 PDB: 1kju_A 1iwo_A 1t5s_A* 1t5t_A* 1vfp_A* 1su4_A* 1xp5_A* 2agv_A* 2by4_A* 2c88_A* 2c8k_A* 2c8l_A* 2c9m_A 2o9j_A* 2oa0_A* 3b9b_A 3b9r_A* 3fgo_A* 3fpb_A* 3fps_A* ...
Probab=9.36  E-value=64  Score=10.76  Aligned_cols=40  Identities=8%  Similarity=-0.020  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             9999999998689999999999999999999998740102
Q gi|255764469|r   49 SRGAVLAATRVPLIIQQIIPFITLVVNIVVFFNLNRTSEL   88 (361)
Q Consensus        49 ~~~~~~~~~~lP~~l~~~lP~a~lla~i~~~~~l~~~~El   88 (361)
                      ...+......+...++..+|+++-++..+...||.+++-+
T Consensus       293 ~~~~~~~~~l~v~~iP~~L~~~~~~~~~~~~~~l~~~~i~  332 (994)
T 1wpg_A          293 IYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAI  332 (994)
T ss_dssp             GGHHHHHHHHHHHHSCTTHHHHHHHHHHHHHHHHHTTTEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCE
T ss_conf             9999999999998714423457789999999998642254


No 5  
>2knc_B Integrin beta-3; transmembrane signaling, coiled coil, protein structure, alternative splicing, calcium, cell adhesion; NMR {Homo sapiens}
Probab=6.64  E-value=86  Score=10.07  Aligned_cols=32  Identities=19%  Similarity=0.289  Sum_probs=22.7

Q ss_pred             HHHHHCCCHHHHHHHCCHHHHHHHHHHHHHCC
Q ss_conf             77661635012332101135899999986414
Q gi|255764469|r   90 ISRAIGISIWQLLNPFVVGSILLGIFTVLVIN  121 (361)
Q Consensus        90 al~a~GiS~~~i~~p~l~~~~~i~~~~~~~~~  121 (361)
                      ||-|-|-...-++.+++...+++|++.++..-
T Consensus         2 ~~~~~~pni~~Ivlgvi~~IvliGl~~LliwK   33 (79)
T 2knc_B            2 AMGSKGPDILVVLLSVMGAILLIGLAALLIWK   33 (79)
T ss_dssp             CSSCSSSCSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             88889989433999999999999999999999


No 6  
>3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase, P-type ATPase, membrane protein, hydrolase, aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 1iwc_A 1iwf_A
Probab=4.47  E-value=1.4e+02  Score=8.96  Aligned_cols=43  Identities=14%  Similarity=0.063  Sum_probs=21.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             9989999999998689999999999999999999998740102
Q gi|255764469|r   46 YSISRGAVLAATRVPLIIQQIIPFITLVVNIVVFFNLNRTSEL   88 (361)
Q Consensus        46 ~~~~~~~~~~~~~lP~~l~~~lP~a~lla~i~~~~~l~~~~El   88 (361)
                      .+....+...+-.+...++..+|+++-++..+...+|.+++=+
T Consensus       325 ~~~~~~~~~~i~ilv~~iP~~L~~~v~~~l~~~~~~l~~~~il  367 (1034)
T 3ixz_A          325 YTFLRAMVFFMAIVVAYVPEGLLATVTVCLSLTAKRLASKNCV  367 (1034)
T ss_pred             CCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCEEE
T ss_conf             5288999999999999753778889999999987776431046


No 7  
>1ufg_A Lamin A, nuclear lamin; immunoglobulin like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, structural protein; NMR {Mus musculus} SCOP: b.1.16.1
Probab=3.95  E-value=1.3e+02  Score=9.12  Aligned_cols=34  Identities=6%  Similarity=0.123  Sum_probs=19.5

Q ss_pred             CCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             0000121111220244442011114578511116
Q gi|255764469|r  177 EDFTSITIDKKNKIIHRKDADLAIIYNDKVKLKK  210 (361)
Q Consensus       177 ~~v~i~~~~~~~~~~~~i~A~~~~~~~~~~~l~~  210 (361)
                      .+|.|.+.|.+++..+......-..+-+.|.+++
T Consensus        38 G~V~I~E~d~~Ge~VeL~N~~~~~vdL~GW~l~~   71 (151)
T 1ufg_A           38 GRVAVEEVDEEGKFVRLRNKSNEDQSMGNWQIRR   71 (151)
T ss_dssp             SSEEEEEECTTSSEEEEEECSSSCEECSSCEEEE
T ss_pred             CCEEEEEECCCCCEEEEEECCCCCEECCCCEEEE
T ss_conf             9878999769998999993999947137848985


No 8  
>1oed_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 1a11_A 1cek_A 1eq8_A
Probab=3.43  E-value=1.9e+02  Score=8.21  Aligned_cols=21  Identities=14%  Similarity=0.361  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999999
Q gi|255764469|r    8 YFFKYYLKTTLYFLLGAMILV   28 (361)
Q Consensus         8 Yi~k~~l~~f~~~~~~~~~l~   28 (361)
                      |++--++..++.+++.+++.+
T Consensus         4 Y~~nli~Pc~li~~ls~l~F~   24 (260)
T 1oed_C            4 YVINFITPCVLISFLASLAFY   24 (260)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEHHHHHHHHHHHHHHHHHC
T ss_conf             987199999999999999705


No 9  
>3hn9_A Lamin-B1; structural genomics, structural genomics consortium, SGC, acetylation, chromosomal rearrangement, coiled coil, intermediate filament; 2.00A {Homo sapiens} PDB: 2kpw_A
Probab=3.41  E-value=1.5e+02  Score=8.74  Aligned_cols=33  Identities=15%  Similarity=0.055  Sum_probs=0.0

Q ss_pred             CCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             000121111220244442011114578511116
Q gi|255764469|r  178 DFTSITIDKKNKIIHRKDADLAIIYNDKVKLKK  210 (361)
Q Consensus       178 ~v~i~~~~~~~~~~~~i~A~~~~~~~~~~~l~~  210 (361)
                      +|.|.+.+.+++..+.........+-+.|.+++
T Consensus        14 ~V~I~e~~~~ge~VeL~N~~~~~vdL~GW~l~d   46 (123)
T 3hn9_A           14 NVCIEEIDVDGKFIRLKNTSEQDQPMGGWEMIR   46 (123)
T ss_dssp             SEEEEEECTTSSEEEEEECSSSCEECTTCEEEE
T ss_pred             CEEEEEECCCCCEEEEECCCCCCEECCCEEEEE
T ss_conf             989999769998999991999868628839996


No 10 
>2zxe_A Na, K-ATPase alpha subunit; membrane protein, ION pump, ATPase, K+ binding, haloacid dehydrogenease superfamily, phosphate analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias} PDB: 3a3y_A* 3b8e_A* 3kdp_A* 1mo7_A 1mo8_A* 1q3i_A
Probab=3.21  E-value=2.1e+02  Score=8.03  Aligned_cols=68  Identities=9%  Similarity=0.056  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99999999999999999999999999999873037999899999999986899999999999999999999987401
Q gi|255764469|r   10 FKYYLKTTLYFLLGAMILVFVIDLNEIQNQMGELPNYSISRGAVLAATRVPLIIQQIIPFITLVVNIVVFFNLNRTS   86 (361)
Q Consensus        10 ~k~~l~~f~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~lP~~l~~~lP~a~lla~i~~~~~l~~~~   86 (361)
                      ...+...+..+.+.....+++.....         +.+....+....-.+...++..+|+++-++......+|.+++
T Consensus       293 ~~~~~~~~~~i~~~~~~~~~i~~~~~---------~~~~~~~i~~~i~ilv~~iP~~L~~~~~~~~~~~~~~l~~~~  360 (1028)
T 2zxe_A          293 IEHFIHIITGVAVFLGVSFFILSLIL---------GYSWLEAVIFLIGIIVANVPEGLLATVTVCLTLTAKRMARKN  360 (1028)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---------TCCHHHHHHHHHHHHHHHSCTTHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999999999988875---------118999999998887247754899999999999999997569


Done!