Query         gi|254780854|ref|YP_003065267.1| NADH dehydrogenase subunit C [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 202
No_of_seqs    224 out of 1237
Neff          5.9 
Searched_HMMs 23785
Date          Tue May 31 22:44:09 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780854.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3i9v_5 NADH-quinone oxidoreduc 100.0       0       0  406.3   7.5  177    8-192     3-203 (207)
  2 3mcr_A NADH dehydrogenase, sub 100.0       0       0  304.8   9.1  129    4-132    83-213 (213)
  3 3ech_C 25-MER fragent of prote  21.5      11 0.00047   17.8  -0.8   12  113-124    13-24  (26)
  4 2fhm_A Probable acylphosphatas  20.2      45  0.0019   14.1   4.9   57   16-76     30-90  (91)
  5 1kr7_A Neural globin, mini-hem  13.6      19  0.0008   16.4  -1.2   23  118-143    10-32  (110)
  6 2a0m_A Arginase superfamily pr  13.5      65  0.0027   13.1   1.7   29  119-147   139-169 (316)
  7 2zjr_I 50S ribosomal protein L  13.3      40  0.0017   14.4   0.4   33  136-175    46-80  (156)
  8 1bl1_A Parathyroid hormone rec  13.2      13 0.00054   17.4  -2.1   15  110-124    10-24  (31)
  9 3d33_A Domain of unknown funct  13.2      38  0.0016   14.5   0.3   18  158-175    18-36  (108)
 10 3m1r_A Formimidoylglutamase; s  12.4      71   0.003   12.9   1.8   30  117-146   144-174 (322)

No 1  
>3i9v_5 NADH-quinone oxidoreductase subunit 5; electron transport, respiratory chain, 4Fe- 4S, cell membrane, flavoprotein, FMN, iron; HET: FMN; 3.10A {Thermus thermophilus HB8} PDB: 2fug_5* 3iam_5* 3ias_5* 3m9s_5*
Probab=100.00  E-value=0  Score=406.29  Aligned_cols=177  Identities=32%  Similarity=0.554  Sum_probs=157.4

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCC----CCCCEEEEEEEEECC-
Q ss_conf             999999861531145798479599998689899999998718789801475132568877----778579999966157-
Q gi|254780854|r    8 LGDYIVNSFSGSVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLS----RSNRFDVVYHFLSPK-   82 (202)
Q Consensus         8 L~~~L~~~l~~~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~----~~~RFeVvY~LlS~~-   82 (202)
                      |.+.|++.+...+.......|+++|.|+++++.+++++||+   ++|++|+|||||||++    +++||+|||||+|++ 
T Consensus         3 le~~l~e~~~~~~~~e~~~~g~l~i~V~~e~l~~v~~~Lk~---~gf~~L~dit~vD~~~~~~~~~~rf~vvY~l~S~~~   79 (207)
T 3i9v_5            3 LERVLEEARAKGYPIEDNGLGNLWVVLPRERFKEEMAHYKA---MGFNFLADIVGLDYLTYPDPRPERFAVVYELVSLPG   79 (207)
T ss_dssp             THHHHHHHHHTTCCCCBCTTSCBEEECCHHHHHHHHHHHHH---TTCCCEEEEEEEECTTCSSCCSSSEEEEEEECCCTT
T ss_pred             HHHHHHHHHHCCCCEEECCCCCEEEEECHHHHHHHHHHHHH---CCCCCEEEEEEEECCCCCCCCCCEEEEEEEEECCCC
T ss_conf             89999986643672002458838999839999999999986---899928788848278776787875899999744655


Q ss_pred             ----CCCEEEEEEEECCC-CEEECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCC----CCC
Q ss_conf             ----52059982120578-501012233025531011210113827356798767788998987871133778----984
Q gi|254780854|r   83 ----YNRRLRVKIAVAEG-KSVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPV----TGF  153 (202)
Q Consensus        83 ----~n~ri~Vk~~v~e~-~~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPl----tG~  153 (202)
                          .|.||+||+.++++ +.||||++|||||||+|||+||||||.|+|||||||||+|++|+||||||||||    |||
T Consensus        80 ~~~~~~~rv~vk~~v~~~~p~ipSi~~i~p~A~w~ERE~~DmfGi~f~ghpdlrril~~~~~~g~PLRKDfpl~~~~~~~  159 (207)
T 3i9v_5           80 WKDGDGSRFFVRVYVPEEDPRLPTVTDLWGSANFLEREVYDLFGIVFEGHPDLRKILTPEDLEGHPLRKDYPLGETPTLF  159 (207)
T ss_dssp             SSSCCCCCEEEEEEECSSCCBCCCCTTTCSTHHHHHHHHHHTSCCBCTTCSCCCCCSSCTTCCSCTTSTTSCCCCCCEEC
T ss_pred             CCCCCCEEEEEEEECCCCCCCCCCEECCCCCCCCCCEEEEEECCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             66677608999984676567667710305799812322026127676799998454588899989877674688866652


Q ss_pred             EEEEE----------CHHHCEEECCCCEEEEHHHCCCCCCCCCCCCCCC
Q ss_conf             47887----------6211513126642202221276656323453345
Q gi|254780854|r  154 VELHY----------DDKVKKVVYRPVELMQEHRDYDFLSPWEGVNSLF  192 (202)
Q Consensus       154 ~evry----------d~~~k~v~~epv~l~q~~r~f~~~spwe~~~~~~  192 (202)
                      +|+||          +..+++|+|+|+.+.|+||+     +|+|++++.
T Consensus       160 ~e~~~~~p~~~r~~~~~~~~~~~~~~~~~~~~~r~-----~~~~~~~~~  203 (207)
T 3i9v_5          160 REGRYIIPAEFRAALTGKDPGLTFYKGGSRKGYRS-----LWADLKKAR  203 (207)
T ss_dssp             TTSCEECGGGTCCSCCSSCCCSSSCCCGGGSCCCC-----CC-------
T ss_pred             EEEEECCCCCCCCCCCCCCCCCEEECCCCCCCCCC-----HHCCCHHHH
T ss_conf             46675586424444456565411301553635304-----111601320


No 2  
>3mcr_A NADH dehydrogenase, subunit C; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.65A {Thermobifida fusca}
Probab=100.00  E-value=0  Score=304.75  Aligned_cols=129  Identities=33%  Similarity=0.641  Sum_probs=117.8

Q ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCC-CCEEEEEEEEECC
Q ss_conf             799999999986153114579847959999868989999999871878980147513256887777-8579999966157
Q gi|254780854|r    4 KIEDLGDYIVNSFSGSVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRS-NRFDVVYHFLSPK   82 (202)
Q Consensus         4 ~L~~L~~~L~~~l~~~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~-~RFeVvY~LlS~~   82 (202)
                      .|+++.+.+...|+++|+++++.+|+++|.|++++|.++|++||+++.|+|++|+||||||||++. .||++||||+|++
T Consensus        83 ~L~~~~~~~~~~~~~aI~~vvv~rGeltl~V~~e~L~~V~~~LKdd~~l~Fe~L~dltgVDype~~~~rf~vVYhL~S~~  162 (213)
T 3mcr_A           83 ALERSLKEIGTPYDTAISRVVVDRGEITFHVQREHLLDVATRLRDDPALRFELCLGVTGVHYPEDEGNELHAVYALRSIT  162 (213)
T ss_dssp             HHHHHHHHTTCCHHHHEEEEEEETTEEEEEECGGGHHHHHHHHHHCTTTCCCEEEEEEEEECTTSTTCCEEEEEEEEETT
T ss_pred             HHHHHHHHHHCHHHHHHEEEEEECCEEEEEECHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCEEEEEEEECCC
T ss_conf             99999987301032130389998998999985999999999996288999763100200716765688358999830366


Q ss_pred             CCCEEEEEEEECCCC-EEECCCCCEECCCCEECCCHHHCCCEECCCCCCCC
Q ss_conf             520599821205785-01012233025531011210113827356798767
Q gi|254780854|r   83 YNRRLRVKIAVAEGK-SVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRR  132 (202)
Q Consensus        83 ~n~ri~Vk~~v~e~~-~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRR  132 (202)
                      +|.||+||+.++++. .||||++|||+|||||||+||||||.|+|||||||
T Consensus       163 ~n~rIrlkv~v~~~dP~IPSI~~I~psAnW~ERE~yDMFGI~F~GHPdLrR  213 (213)
T 3mcr_A          163 HNYEIRLEVSCPDSDPHIPSIVSVYPTNDWHEREAWDFFGIIFDGHPALTR  213 (213)
T ss_dssp             TTEEEEEEEEECTTSCEEECCTTTCTTHHHHHHHHHHHHCCEEETCGGGC-
T ss_pred             CCCEEEEEECCCCCCCCCCEEHHHCCCCCHHHHHHHHCCCEEECCCCCCCC
T ss_conf             661368860346688968704210257677688776136801788998889


No 3  
>3ech_C 25-MER fragent of protein ARMR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa}
Probab=21.49  E-value=11  Score=17.79  Aligned_cols=12  Identities=50%  Similarity=1.287  Sum_probs=9.4

Q ss_pred             ECCCHHHCCCEE
Q ss_conf             112101138273
Q gi|254780854|r  113 EREVWDMYGIFF  124 (202)
Q Consensus       113 ERE~~DmfGI~F  124 (202)
                      -|.+||+||-.|
T Consensus        13 rrnawdlygehf   24 (26)
T 3ech_C           13 RRNAWDLYGEHF   24 (26)
T ss_dssp             HHTHHHHHHSCC
T ss_pred             HHHHHHHHHHHC
T ss_conf             860898725231


No 4  
>2fhm_A Probable acylphosphatase; hydrolase; NMR {Bacillus subtilis} PDB: 2hlt_A 2hlu_A 3br8_A
Probab=20.18  E-value=45  Score=14.10  Aligned_cols=57  Identities=23%  Similarity=0.337  Sum_probs=34.1

Q ss_pred             CCCCEEEEEEECC--CEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCC--CCCCCCCCCEEEEE
Q ss_conf             1531145798479--5999986898999999987187898014751325--68877778579999
Q gi|254780854|r   16 FSGSVRFAVNSVG--ELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCG--VDFLSRSNRFDVVY   76 (202)
Q Consensus        16 l~~~I~~~~~~~~--el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDIta--VDyp~~~~RFeVvY   76 (202)
                      +.+.+.+..  .|  ++.+.-+.+.+..++..|+..+  .......++.  .+.......|++.|
T Consensus        30 l~G~V~N~~--dG~Vei~~~G~~~~i~~f~~~l~~gp--~~a~V~~v~~~~~~~~~~~~~F~I~~   90 (91)
T 2fhm_A           30 LAGWVKNRD--DGRVEILAEGPENALQSFVEAVKNGS--PFSKVTDISVTESRSLEGHHRFSIVY   90 (91)
T ss_dssp             CEEEEEECT--TSCEEEEEEECHHHHHHHHHHHHTTC--SSSEEEEEEEEEECCCCCCCSEEECC
T ss_pred             CEEEEEECC--CCCEEEEEECCHHHHHHHHHHHHHCC--CCCEEEEEEEEECCCCCCCCCEEEEE
T ss_conf             889999999--99899999859999999999997699--98889999999858888999859936


No 5  
>1kr7_A Neural globin, mini-hemoglobin; nerve tissue, protein cavities, oxygen transport, oxygen storage/transport complex; HET: HEM; 1.50A {Cerebratulus lacteus} SCOP: a.1.1.4 PDB: 1v07_A* 2vyz_A* 2vyy_A*
Probab=13.63  E-value=19  Score=16.36  Aligned_cols=23  Identities=30%  Similarity=0.741  Sum_probs=18.0

Q ss_pred             HHCCCEECCCCCCCCCCCCCCCCCCC
Q ss_conf             11382735679876778899898787
Q gi|254780854|r  118 DMYGIFFEGHPDLRRILTDYGFEGHP  143 (202)
Q Consensus       118 DmfGI~F~gHPdlRRiL~d~~feGhP  143 (202)
                      |||.-.|+-||+.|++..   |.|.+
T Consensus        10 ~ff~~LF~~~P~~~~~F~---f~~~~   32 (110)
T 1kr7_A           10 DFYQELFKAHPEYQNKFG---FKGVA   32 (110)
T ss_dssp             HHHHHHHHHCGGGGGGST---TTTCC
T ss_pred             HHHHHHHHHCHHHHHHCC---CCCCC
T ss_conf             999999998957897678---87885


No 6  
>2a0m_A Arginase superfamily protein; structural genomics, PSI, protein structure initiative, structural genomics of pathogenic protozoa consortium; 1.60A {Trypanosoma cruzi} SCOP: c.42.1.1
Probab=13.48  E-value=65  Score=13.09  Aligned_cols=29  Identities=34%  Similarity=0.462  Sum_probs=19.6

Q ss_pred             HCC-CEECCCCCCCCCCCCCCC-CCCCCCCC
Q ss_conf             138-273567987677889989-87871133
Q gi|254780854|r  119 MYG-IFFEGHPDLRRILTDYGF-EGHPLRKD  147 (202)
Q Consensus       119 mfG-I~F~gHPdlRRiL~d~~f-eGhPLRKD  147 (202)
                      .+| |.|+.|+|+|.-..+..+ .|-|+|+=
T Consensus       139 ~i~vI~~DAH~D~~~~~~~~~~~~g~~~~~~  169 (316)
T 2a0m_A          139 DVGVINVDSHLDVRPPLQDGRVHSGTPFRQL  169 (316)
T ss_dssp             CCEEEEECSSCCCCCCCTTSCCCTTCHHHHH
T ss_pred             CEEEEEECCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             5479983466354666779888899751211


No 7  
>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J* 1sm1_J* 1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M 1voy_M 1vp0_M
Probab=13.28  E-value=40  Score=14.39  Aligned_cols=33  Identities=33%  Similarity=0.444  Sum_probs=24.8

Q ss_pred             CCCCCC--CCCCCCCCCCCCEEEEECHHHCEEECCCCEEEEH
Q ss_conf             998987--8711337789844788762115131266422022
Q gi|254780854|r  136 DYGFEG--HPLRKDFPVTGFVELHYDDKVKKVVYRPVELMQE  175 (202)
Q Consensus       136 d~~feG--hPLRKDFPltG~~evryd~~~k~v~~epv~l~q~  175 (202)
                      .-+|||  .||-+=+|--||.-.       +..|++|+|.+=
T Consensus        46 ~~~feGGq~Pl~rr~PKrGF~~~-------~~~~~~vnl~~L   80 (156)
T 2zjr_I           46 GAFFEGGRSRLIARLPKRGFNNV-------GTTYEVVKLSQL   80 (156)
T ss_dssp             CCSCSCCSSSSTTTSCCCCCCCC-------CCCCCEECHHHH
T ss_pred             CCCCCCCCCCCEEECCCCCCCCC-------CCEEEEEEHHHH
T ss_conf             88524686561330674588876-------641678887883


No 8  
>1bl1_A Parathyroid hormone receptor; micelle structures, calciotropic hormones, structures; NMR {Homo sapiens} SCOP: j.15.1.1
Probab=13.20  E-value=13  Score=17.38  Aligned_cols=15  Identities=40%  Similarity=0.736  Sum_probs=10.3

Q ss_pred             CCEECCCHHHCCCEE
Q ss_conf             310112101138273
Q gi|254780854|r  110 DWFEREVWDMYGIFF  124 (202)
Q Consensus       110 ~W~ERE~~DmfGI~F  124 (202)
                      .--|||+||-.|..+
T Consensus        10 et~erevfdrl~liy   24 (31)
T 1bl1_A           10 ETREREVFDRLGMIY   24 (31)
T ss_dssp             SCCHHHHHHSSHHHH
T ss_pred             CCHHHHHHHHHHEEE
T ss_conf             415888887601156


No 9  
>3d33_A Domain of unknown function with AN immunoglobulin-like beta-sandwich fold; YP_001297618.1; HET: MSE; 1.70A {Bacteroides vulgatus atcc 8482}
Probab=13.15  E-value=38  Score=14.52  Aligned_cols=18  Identities=17%  Similarity=0.595  Sum_probs=6.5

Q ss_pred             ECHHHCEEE-CCCCEEEEH
Q ss_conf             762115131-266422022
Q gi|254780854|r  158 YDDKVKKVV-YRPVELMQE  175 (202)
Q Consensus       158 yd~~~k~v~-~epv~l~q~  175 (202)
                      .|+.+++++ .-|+....+
T Consensus        18 w~~~~rs~~~~~Pi~a~Id   36 (108)
T 3d33_A           18 WDDPIRSAATNCPITVFTD   36 (108)
T ss_dssp             CCC-------CCSEEEEEE
T ss_pred             CCCCCEECCCCCCCEEEEE
T ss_conf             2688163388999599997


No 10 
>3m1r_A Formimidoylglutamase; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: CAC; 2.20A {Bacillus subtilis}
Probab=12.35  E-value=71  Score=12.89  Aligned_cols=30  Identities=23%  Similarity=0.428  Sum_probs=18.1

Q ss_pred             HHHCCCE-ECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             0113827-35679876778899898787113
Q gi|254780854|r  117 WDMYGIF-FEGHPDLRRILTDYGFEGHPLRK  146 (202)
Q Consensus       117 ~DmfGI~-F~gHPdlRRiL~d~~feGhPLRK  146 (202)
                      +.-+||. |+.|+|+|.--...-..|.|++.
T Consensus       144 ~~~i~vI~~DAH~Dl~~~~~~~~~~~~~~~~  174 (322)
T 3m1r_A          144 KGTTAVIQFDAHHDVRNTEDGGPTNGTPFRR  174 (322)
T ss_dssp             HCSEEEEEECSSCCCCCSSCC--CTTCHHHH
T ss_pred             CCCEEEEEEECCCCCCCCCCCCCCCCHHHHH
T ss_conf             7973699954675545476898576027899


Done!