Query         gi|254781080|ref|YP_003065493.1| hypothetical protein CLIBASIA_04910 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 85
No_of_seqs    100 out of 205
Neff          3.6 
Searched_HMMs 23785
Date          Wed Jun  1 00:35:08 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781080.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1gk7_A Vimentin; intermediate   62.0     5.1 0.00022   20.6   3.0   28    9-36     11-38  (39)
  2 2vkl_A RV0948C/MT0975; helical  58.1      11 0.00048   18.4   7.3   79    2-80      6-89  (90)
  3 2kna_A Baculoviral IAP repeat-  32.0      29  0.0012   15.8   3.4   24   36-59     29-52  (104)
  4 2f46_A Hypothetical protein; 7  23.0      26  0.0011   16.1   1.4   27   33-59    129-155 (156)
  5 2hv8_D RAB11 family-interactin  22.2      35  0.0015   15.3   1.9   13    9-21     38-50  (64)
  6 2g8y_A Malate/L-lactate dehydr  21.5      45  0.0019   14.6   2.7   51    3-53     24-74  (385)
  7 2z0r_A Putative uncharacterize  20.3      28  0.0012   15.9   1.1   17   68-84     58-74  (103)
  8 3gpv_A Transcriptional regulat  16.1      60  0.0025   13.8   4.1   24   39-62     67-90  (148)
  9 1wle_A Seryl-tRNA synthetase;   15.2      63  0.0026   13.7   9.1   38   10-47     76-113 (501)
 10 3i0p_A Malate dehydrogenase; a  15.2      63  0.0026   13.7   2.5   50    4-53      5-54  (365)

No 1  
>1gk7_A Vimentin; intermediate filament, heptad repeat; 1.4A {Homo sapiens} SCOP: h.1.20.1 PDB: 3g1e_A
Probab=62.01  E-value=5.1  Score=20.63  Aligned_cols=28  Identities=21%  Similarity=0.564  Sum_probs=24.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0899999999999999999999999999
Q gi|254781080|r    9 TQDQLRTFIERLERLEEEKKLLTENIKD   36 (85)
Q Consensus         9 a~~~Lr~~IERIErLeeEkk~i~~dikd   36 (85)
                      -.++|-+||+++-.||.+-+.+...|+.
T Consensus        11 LNdRlA~YidkVr~LE~~N~~Le~~i~~   38 (39)
T 1gk7_A           11 LNDRFANYIDKVRFLEQQNKILLAELEQ   38 (39)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9899999999999899989999999974


No 2  
>2vkl_A RV0948C/MT0975; helical, intracellular, chorismate mutase, isomerase; 1.65A {Mycobacterium tuberculosis} PDB: 2qbv_A 2w19_C 2w1a_C*
Probab=58.07  E-value=11  Score=18.43  Aligned_cols=79  Identities=16%  Similarity=0.082  Sum_probs=56.5

Q ss_pred             CCHHHHCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-CCHHHHHHHHHHHHHHH
Q ss_conf             4124310089999999999----999999999999999999998758987999999999961-89999999999999999
Q gi|254781080|r    2 IDNIQNVTQDQLRTFIERL----ERLEEEKKLLTENIKDIYGEAKATGFDVKAIKKILSLRK-KDEKQWMEEEQILDVYL   76 (85)
Q Consensus         2 ~~~~~~va~~~Lr~~IERI----ErLeeEkk~i~~dikdVyaEAK~~GfD~K~lr~IiklRk-~d~~er~E~e~iLd~Y~   76 (85)
                      +++.....=++||.-|..|    -.|-.+...++..|..+..+....-||+.=-.+|++-.+ ..+.--.=.++++.+|+
T Consensus         6 ~~~~~~~~L~~lR~~ID~iD~~i~~LL~~R~~l~~~Ig~~K~~~g~~i~dp~RE~~vl~r~~~~~~eg~~~a~~ll~i~R   85 (90)
T 2vkl_A            6 LESQPVPEIDTLREEIDRLDAEILALVKRRAEVSKAIGKARMASGGTRLVHSREMKVIERYSELGPDGKDLAILLLRLGR   85 (90)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCTTTHHHHHHHHHHTTCHHHHHHHHHHHHHTS
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             47986578999999999999999999999999999999999984999879599999999999876313069999999971


Q ss_pred             HHHC
Q ss_conf             9859
Q gi|254781080|r   77 RALG   80 (85)
Q Consensus        77 ~ALG   80 (85)
                      ..||
T Consensus        86 ~~~~   89 (90)
T 2vkl_A           86 GRLG   89 (90)
T ss_dssp             CCCC
T ss_pred             HCCC
T ss_conf             2238


No 3  
>2kna_A Baculoviral IAP repeat-containing protein 4; XIAP, UBA, apoptosis, ligase, metal-binding, phosphoprotein, inhibitor, thiol protease inhibitor; NMR {Homo sapiens}
Probab=32.03  E-value=29  Score=15.83  Aligned_cols=24  Identities=38%  Similarity=0.483  Sum_probs=19.8

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             999998758987999999999961
Q gi|254781080|r   36 DIYGEAKATGFDVKAIKKILSLRK   59 (85)
Q Consensus        36 dVyaEAK~~GfD~K~lr~IiklRk   59 (85)
                      .|-..|-..||++..+|++|+-|=
T Consensus        29 pvV~~AleMGF~~~~Ir~~v~rk~   52 (104)
T 2kna_A           29 PMVQEAIRMGFSFKDIKKIMEEKI   52 (104)
T ss_dssp             THHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             999999991898999999999999


No 4  
>2f46_A Hypothetical protein; 7380613, DUF442, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.41A {Neisseria meningitidis Z2491}
Probab=23.00  E-value=26  Score=16.11  Aligned_cols=27  Identities=19%  Similarity=0.405  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             999999998758987999999999961
Q gi|254781080|r   33 NIKDIYGEAKATGFDVKAIKKILSLRK   59 (85)
Q Consensus        33 dikdVyaEAK~~GfD~K~lr~IiklRk   59 (85)
                      ..-++.++++..|||.--+++-+.-||
T Consensus       129 ~~e~al~~~~~~G~~~~~~~~~l~~~~  155 (156)
T 2f46_A          129 PVDEIIRRAQAAGVNLENFRERLDNAR  155 (156)
T ss_dssp             CHHHHHHHHHHTTCCCGGGHHHHHHTC
T ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHHC
T ss_conf             999999999982999688899998702


No 5  
>2hv8_D RAB11 family-interacting protein 3; protein transport, RAB11A, FIP3, cytokinesis, recycling endosomes; HET: GTP MES; 1.86A {Homo sapiens} SCOP: h.1.31.1
Probab=22.24  E-value=35  Score=15.31  Aligned_cols=13  Identities=23%  Similarity=0.493  Sum_probs=8.6

Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             0899999999999
Q gi|254781080|r    9 TQDQLRTFIERLE   21 (85)
Q Consensus         9 a~~~Lr~~IERIE   21 (85)
                      ...+||+||++|-
T Consensus        38 ~N~rLR~YID~Il   50 (64)
T 2hv8_D           38 INFRLQDYIDRII   50 (64)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9999999999999


No 6  
>2g8y_A Malate/L-lactate dehydrogenases; NAD, E.coli, structural genomics, PSI, protein structure initiative, midwest center for structural genomics; HET: NAD 1PE; 2.15A {Escherichia coli K12}
Probab=21.54  E-value=45  Score=14.62  Aligned_cols=51  Identities=18%  Similarity=0.204  Sum_probs=35.5

Q ss_pred             CHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             124310089999999999999999999999999999998758987999999
Q gi|254781080|r    3 DNIQNVTQDQLRTFIERLERLEEEKKLLTENIKDIYGEAKATGFDVKAIKK   53 (85)
Q Consensus         3 ~~~~~va~~~Lr~~IERIErLeeEkk~i~~dikdVyaEAK~~GfD~K~lr~   53 (85)
                      +....+..+.|++|+..+=+=--=...-+..+-+++.+|--+|.+..=+..
T Consensus        24 ~~~~r~~~~~L~~~~~~~l~~~G~~~~~A~~vA~~Lv~Adl~G~~SHG~~r   74 (385)
T 2g8y_A           24 ESGHRFDAQTLHSFIQAVFRQMGSEEQEAKLVADHLIAANLAGHDSHGIGM   74 (385)
T ss_dssp             -CCEEECHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTCGGGTGGG
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCHHH
T ss_conf             635303899999999999998699999999999999999808986778989


No 7  
>2z0r_A Putative uncharacterized protein TTHA0547; alpha/beta protein, structural genomics, unknown function, NPPSFA; 2.30A {Thermus thermophilus HB8}
Probab=20.32  E-value=28  Score=15.91  Aligned_cols=17  Identities=47%  Similarity=0.790  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHCCCCC
Q ss_conf             99999999998598867
Q gi|254781080|r   68 EEQILDVYLRALGMLKD   84 (85)
Q Consensus        68 ~e~iLd~Y~~ALGm~~~   84 (85)
                      --++-+.|+.||||+.-
T Consensus        58 ~~ALKEayL~ALG~L~V   74 (103)
T 2z0r_A           58 SRALKEAYLRALGMLQV   74 (103)
T ss_dssp             SHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHCCE
T ss_conf             68889999999754043


No 8  
>3gpv_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.90A {Bacillus thuringiensis serovarkonkukian}
Probab=16.05  E-value=60  Score=13.84  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=18.4

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHCCH
Q ss_conf             998758987999999999961899
Q gi|254781080|r   39 GEAKATGFDVKAIKKILSLRKKDE   62 (85)
Q Consensus        39 aEAK~~GfD~K~lr~IiklRk~d~   62 (85)
                      ...+..||..+-+++++.+.....
T Consensus        67 ~~lr~~G~sL~eIk~ll~~~~~~~   90 (148)
T 3gpv_A           67 LCLKNTGMPIQKIKQFIDWSMEGD   90 (148)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHHCG
T ss_pred             HHHHHCCCCHHHHHHHHHHHHCCC
T ss_conf             999996999999999998886689


No 9  
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Probab=15.20  E-value=63  Score=13.70  Aligned_cols=38  Identities=26%  Similarity=0.424  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             89999999999999999999999999999998758987
Q gi|254781080|r   10 QDQLRTFIERLERLEEEKKLLTENIKDIYGEAKATGFD   47 (85)
Q Consensus        10 ~~~Lr~~IERIErLeeEkk~i~~dikdVyaEAK~~GfD   47 (85)
                      -+++|+....++.|..+++.++..|+......+..+-.
T Consensus        76 d~e~r~l~~e~e~Lr~erN~~sk~I~~l~~~~~~~~~~  113 (501)
T 1wle_A           76 WQELRQLREQIRSLEEEKEAVTEAVRALVVNQDNSQVQ  113 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTTGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHC
T ss_conf             99999999999999999999999999998567751000


No 10 
>3i0p_A Malate dehydrogenase; araerobic parasitic protozoan, amoebic dysentery, ssgcid, niaid, infectious disease, structural genomics; HET: NAD; 2.60A {Entamoeba histolytica}
Probab=15.18  E-value=63  Score=13.70  Aligned_cols=50  Identities=18%  Similarity=0.287  Sum_probs=35.2

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             24310089999999999999999999999999999998758987999999
Q gi|254781080|r    4 NIQNVTQDQLRTFIERLERLEEEKKLLTENIKDIYGEAKATGFDVKAIKK   53 (85)
Q Consensus         4 ~~~~va~~~Lr~~IERIErLeeEkk~i~~dikdVyaEAK~~GfD~K~lr~   53 (85)
                      .+-.++.++|++|+.++=.=--=...-++.+.+.+-+|--+|.|..=+..
T Consensus         5 ~~~~i~~~~l~~~~~~~l~~~G~~~~~A~~va~~Lv~adl~G~~SHG~~r   54 (365)
T 3i0p_A            5 QTKNVSIDTIKEFMYQVLLKVGSDEENARMVRDTLIAADLRGMDTHGIQR   54 (365)
T ss_dssp             CEEEECHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTCTTSSGGG
T ss_pred             CCEEECHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCHHH
T ss_conf             65254599999999999998699999999999999999808974659757


Done!