Query         gi|254780224|ref|YP_003064637.1| hypothetical protein CLIBASIA_00545 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 382
No_of_seqs    178 out of 252
Neff          6.5 
Searched_HMMs 13730
Date          Mon May 23 21:23:05 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780224.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1lrva_ a.118.1.5 (A:) Leucine  98.4 2.2E-08 1.6E-12   66.8   1.5  117   44-176    69-185 (233)
  2 d1lrva_ a.118.1.5 (A:) Leucine  98.3 1.5E-07 1.1E-11   61.6   2.4   89   48-146    49-137 (233)
  3 d1te4a_ a.118.1.16 (A:) MTH187  85.8    0.73 5.3E-05   20.4   7.0   55    4-67     25-79  (111)
  4 d1oyza_ a.118.1.16 (A:) Hypoth  57.9     3.8 0.00028   16.0  10.6   58    3-69     21-78  (276)
  5 d2vglb_ a.118.1.10 (B:) Adapti  56.3     4.1  0.0003   15.8   6.4   83    1-88     83-175 (579)
  6 d1b3ua_ a.118.1.2 (A:) Constan  46.6     5.8 0.00042   14.9   8.5  111    6-118   131-263 (588)
  7 d1nera_ a.35.1.2 (A:) Ner {Bac  31.2      10 0.00074   13.4   4.9   55  249-305    10-64  (74)
  8 d1xm9a1 a.118.1.24 (A:244-700)  27.6      12 0.00086   13.0  11.8   66    2-67      3-70  (457)
  9 d1mkma1 a.4.5.33 (A:1-75) Tran  27.1      12 0.00087   12.9   2.2   40  283-322    14-53  (75)
 10 d2axtu1 a.60.12.2 (U:37-134) P  23.7     6.6 0.00048   14.5  -0.4   47  267-313    27-73  (98)

No 1  
>d1lrva_ a.118.1.5 (A:) Leucine-rich repeat variant {Azotobacter vinelandii [TaxId: 354]}
Probab=98.44  E-value=2.2e-08  Score=66.76  Aligned_cols=117  Identities=15%  Similarity=0.137  Sum_probs=88.5

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHCCCCC
Q ss_conf             99999851969899999999821487898899998708977899999973858998999999954999999998629999
Q gi|254780224|r   44 LAMMHLLDDPSSRVRLSLARAIALSDTAPKHVVLALSEDHPDVSGTIILHSPVLKDNDLVDLIGRGNKLTSIFVASRHKL  123 (382)
Q Consensus        44 ~iL~~L~~d~~~~vR~alA~~La~~~~aP~~vi~~LA~D~~~vA~pvL~~Sp~L~d~dLv~ia~~~~~~~~~AIA~R~~l  123 (382)
                      ..|..|++|+++.||...+.+|      |.+.+..|..|++..++..+..+  |+...|..++.+++..+|.+++++  +
T Consensus        69 ~~L~~Ll~D~d~~VR~~AA~~L------p~~~L~~L~~D~d~~VR~~aa~~--l~~~~L~~Ll~D~d~~VR~~aa~~--~  138 (233)
T d1lrva_          69 EALTPLIRDSDEVVRRAVAYRL------PREQLSALMFDEDREVRITVADR--LPLEQLEQMAADRDYLVRAYVVQR--I  138 (233)
T ss_dssp             GGGGGGTTCSSHHHHHHHHTTS------CSGGGGGTTTCSCHHHHHHHHHH--SCTGGGGGGTTCSSHHHHHHHHHH--S
T ss_pred             HHHHHHHCCCCHHHHHHHHHHC------CHHHHHHHHCCCCHHHHHHHHHC--CCHHHHHHHHCCCCHHHHHHHHHC--C
T ss_conf             9999882698989999999974------89999998449974689988742--688999998559987899999861--1


Q ss_pred             CHHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHC
Q ss_conf             98999999843989999998608998469467999999817898999998624
Q gi|254780224|r  124 SHVVVENLIETGCVDNIVALLGNKSVFLSNSLLMQIVERFCHDASIRNLLSLR  176 (382)
Q Consensus       124 s~~V~~aLae~gd~~v~~~Ll~N~~A~is~~~l~~lv~ra~~~~~l~~~L~~R  176 (382)
                      +..+...++.+++..|...++.|.+..    .+..++  ...++.++...+.+
T Consensus       139 ~~~~L~~L~~D~d~~VR~~aA~~~~~~----~L~~l~--~D~d~~VR~~aa~~  185 (233)
T d1lrva_         139 PPGRLFRFMRDEDRQVRKLVAKRLPEE----SLGLMT--QDPEPEVRRIVASR  185 (233)
T ss_dssp             CGGGGGGTTTCSCHHHHHHHHHHSCGG----GGGGST--TCSSHHHHHHHHHH
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHCCHH----HHHHHC--CCCCHHHHHHHHHH
T ss_conf             066899883489789999999845999----999870--59988999999984


No 2  
>d1lrva_ a.118.1.5 (A:) Leucine-rich repeat variant {Azotobacter vinelandii [TaxId: 354]}
Probab=98.26  E-value=1.5e-07  Score=61.58  Aligned_cols=89  Identities=19%  Similarity=0.159  Sum_probs=60.7

Q ss_pred             HHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHCCCCCCHHH
Q ss_conf             98519698999999998214878988999987089778999999738589989999999549999999986299999899
Q gi|254780224|r   48 HLLDDPSSRVRLSLARAIALSDTAPKHVVLALSEDHPDVSGTIILHSPVLKDNDLVDLIGRGNKLTSIFVASRHKLSHVV  127 (382)
Q Consensus        48 ~L~~d~~~~vR~alA~~La~~~~aP~~vi~~LA~D~~~vA~pvL~~Sp~L~d~dLv~ia~~~~~~~~~AIA~R~~ls~~V  127 (382)
                      .++.||...||...+      .++|..++..|..|+++.++-.....  |+..-|..+..+.+..+|.+++.+  ++..+
T Consensus        49 ~~l~~p~~e~Ra~Aa------~~a~~~~L~~Ll~D~d~~VR~~AA~~--Lp~~~L~~L~~D~d~~VR~~aa~~--l~~~~  118 (233)
T d1lrva_          49 QYLADPFWERRAIAV------RYSPVEALTPLIRDSDEVVRRAVAYR--LPREQLSALMFDEDREVRITVADR--LPLEQ  118 (233)
T ss_dssp             GGTTCSSHHHHHHHH------TTSCGGGGGGGTTCSSHHHHHHHHTT--SCSGGGGGTTTCSCHHHHHHHHHH--SCTGG
T ss_pred             HHHCCCCHHHHHHHH------HCCCHHHHHHHHCCCCHHHHHHHHHH--CCHHHHHHHHCCCCHHHHHHHHHC--CCHHH
T ss_conf             885499699999987------01999999988269898999999997--489999998449974689988742--68899


Q ss_pred             HHHHHHCCCHHHHHHHHHC
Q ss_conf             9999843989999998608
Q gi|254780224|r  128 VENLIETGCVDNIVALLGN  146 (382)
Q Consensus       128 ~~aLae~gd~~v~~~Ll~N  146 (382)
                      ...+..+.+..|....+.|
T Consensus       119 L~~Ll~D~d~~VR~~aa~~  137 (233)
T d1lrva_         119 LEQMAADRDYLVRAYVVQR  137 (233)
T ss_dssp             GGGGTTCSSHHHHHHHHHH
T ss_pred             HHHHHCCCCHHHHHHHHHC
T ss_conf             9998559987899999861


No 3  
>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=85.83  E-value=0.73  Score=20.40  Aligned_cols=55  Identities=27%  Similarity=0.351  Sum_probs=22.9

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             9999984179978999999999999635789989999999999998519698999999998214
Q gi|254780224|r    4 QSFIKWAKNAKLQERISIARILGRTWCMEELLDQEKDSLVLAMMHLLDDPSSRVRLSLARAIAL   67 (382)
Q Consensus         4 ~~fl~~~~~a~~~~Ra~~a~~l~r~~~~~~l~~~er~~a~~iL~~L~~d~~~~vR~alA~~La~   67 (382)
                      ..+++..++..+..|..++..|+...      .   ..+...|..++.|.++.||...++.|..
T Consensus        25 ~~L~~~l~d~~~~vR~~a~~~L~~~~------~---~~~~~~L~~~l~d~~~~VR~~a~~aL~~   79 (111)
T d1te4a_          25 EPLLESLSNEDWRIRGAAAWIIGNFQ------D---ERAVEPLIKLLEDDSGFVRSGAARSLEQ   79 (111)
T ss_dssp             HHHHHGGGCSCHHHHHHHHHHHGGGC------S---HHHHHHHHHHHHHCCTHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHCC------H---HHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             99999974998789999999987610------1---2327998733023033799999999998


No 4  
>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}
Probab=57.89  E-value=3.8  Score=15.98  Aligned_cols=58  Identities=17%  Similarity=0.094  Sum_probs=39.6

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCC
Q ss_conf             8999998417997899999999999963578998999999999999851969899999999821487
Q gi|254780224|r    3 VQSFIKWAKNAKLQERISIARILGRTWCMEELLDQEKDSLVLAMMHLLDDPSSRVRLSLARAIALSD   69 (382)
Q Consensus         3 v~~fl~~~~~a~~~~Ra~~a~~l~r~~~~~~l~~~er~~a~~iL~~L~~d~~~~vR~alA~~La~~~   69 (382)
                      ..++++..++..+..|..++..|...   +.      ..+-.+|..++.|+++.||...+..|....
T Consensus        21 ~~~L~~~L~d~~~~vR~~A~~~L~~~---~~------~~~~~~l~~~l~d~~~~vr~~a~~aL~~l~   78 (276)
T d1oyza_          21 DDELFRLLDDHNSLKRISSARVLQLR---GG------QDAVRLAIEFCSDKNYIRRDIGAFILGQIK   78 (276)
T ss_dssp             HHHHHHHTTCSSHHHHHHHHHHHHHH---CC------HHHHHHHHHHHTCSSHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHH---CC------HHHHHHHHHHHCCCCHHHHHHHHHHHHHHC
T ss_conf             99999884699999999999999861---88------739999999980999899999999998720


No 5  
>d2vglb_ a.118.1.10 (B:) Adaptin beta subunit N-terminal fragment {Human (Homo sapiens) [TaxId: 9606]}
Probab=56.29  E-value=4.1  Score=15.82  Aligned_cols=83  Identities=23%  Similarity=0.211  Sum_probs=49.9

Q ss_pred             CHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC----CCCC----
Q ss_conf             95899999841799789999999999996357899899999999999985196989999999982148----7898----
Q gi|254780224|r    1 MSVQSFIKWAKNAKLQERISIARILGRTWCMEELLDQEKDSLVLAMMHLLDDPSSRVRLSLARAIALS----DTAP----   72 (382)
Q Consensus         1 miv~~fl~~~~~a~~~~Ra~~a~~l~r~~~~~~l~~~er~~a~~iL~~L~~d~~~~vR~alA~~La~~----~~aP----   72 (382)
                      |+|+.|.+-.++..+..|+.+.+.++...     .++-.......+..++.|+++.||+..+..+...    |..-    
T Consensus        83 l~intl~kDl~d~n~~iR~lALr~L~~i~-----~~~i~~~l~~~l~~~L~D~~p~VRk~Aa~~l~kl~~~~p~~~~~~~  157 (579)
T d2vglb_          83 MAVNSFVKDCEDPNPLIRALAVRTMGCIR-----VDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG  157 (579)
T ss_dssp             TTHHHHGGGSSSSSHHHHHHHHHHHHTCC-----SGGGHHHHHHHHHHHSSCSCHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHCCC-----CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             99999998869999999999999987489-----8889999999999987057689999999999988632814445665


Q ss_pred             -HHHHHHHCCCCH-HHHH
Q ss_conf             -899998708977-8999
Q gi|254780224|r   73 -KHVVLALSEDHP-DVSG   88 (382)
Q Consensus        73 -~~vi~~LA~D~~-~vA~   88 (382)
                       .+.+..+-.|.. .|..
T Consensus       158 ~~~~L~~lL~D~n~~V~~  175 (579)
T d2vglb_         158 FLDSLRDLIADSNPMVVA  175 (579)
T ss_dssp             HHHHHHHTTSCSCHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHH
T ss_conf             789999987399928999


No 6  
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}
Probab=46.55  E-value=5.8  Score=14.86  Aligned_cols=111  Identities=16%  Similarity=0.119  Sum_probs=56.1

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCC-CCCH--------HHH
Q ss_conf             9998417997899999999999963578998999999999999851969899999999821487-8988--------999
Q gi|254780224|r    6 FIKWAKNAKLQERISIARILGRTWCMEELLDQEKDSLVLAMMHLLDDPSSRVRLSLARAIALSD-TAPK--------HVV   76 (382)
Q Consensus         6 fl~~~~~a~~~~Ra~~a~~l~r~~~~~~l~~~er~~a~~iL~~L~~d~~~~vR~alA~~La~~~-~aP~--------~vi   76 (382)
                      +.++.+......|..+..-+...+  ...++.........+..|..|.++.||+..+..+...- ..+.        .++
T Consensus       131 i~~L~~~~~~~~r~~a~~ll~~~~--~~~~~~~~~~l~~~~~~l~~D~~~~VR~~a~~~l~~~~~~~~~~~~~~~l~~~l  208 (588)
T d1b3ua_         131 VKRLAGGDWFTSRTSACGLFSVCY--PRVSSAVKAELRQYFRNLCSDDTPMVRRAAASKLGEFAKVLELDNVKSEIIPMF  208 (588)
T ss_dssp             HHHHHTCSSHHHHHHHGGGHHHHT--TTSCHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHHTSCHHHHHHTHHHHH
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_conf             999864631479999999999999--986189999999999998516998999999999998998715787799999999


Q ss_pred             HHHCCCCHH-HH---HHH-HHHCCCCCHH--------HHHHHHHCCCHHHHHHHH
Q ss_conf             987089778-99---999-9738589989--------999999549999999986
Q gi|254780224|r   77 LALSEDHPD-VS---GTI-ILHSPVLKDN--------DLVDLIGRGNKLTSIFVA  118 (382)
Q Consensus        77 ~~LA~D~~~-vA---~pv-L~~Sp~L~d~--------dLv~ia~~~~~~~~~AIA  118 (382)
                      ..+..|+.+ |-   ... ..-...+++.        .+..+..+.+..+|.+++
T Consensus       209 ~~l~~d~~~~vr~~a~~~l~~i~~~~~~~~~~~~i~~~l~~~~~D~~~~Vr~~~~  263 (588)
T d1b3ua_         209 SNLASDEQDSVRLLAVEACVNIAQLLPQEDLEALVMPTLRQAAEDKSWRVRYMVA  263 (588)
T ss_dssp             HHHHTCSCHHHHTTHHHHHHHHHHHSCHHHHHHHTHHHHHHHHTCSSHHHHHHHH
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             9974488524678999888776305888999999999999720235688889999


No 7  
>d1nera_ a.35.1.2 (A:) Ner {Bacteriophage mu [TaxId: 10677]}
Probab=31.22  E-value=10  Score=13.37  Aligned_cols=55  Identities=13%  Similarity=0.042  Sum_probs=42.6

Q ss_pred             CHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHHCCCCHHH
Q ss_conf             989999989819947999999998299989999997179917999999962999889
Q gi|254780224|r  249 TPALLIYAIMIGAIDFVSVILANIAEYSTDRVYSILSTGGFHVICALYELVGLSPEI  305 (382)
Q Consensus       249 t~~lllral~~G~~~~f~~aLA~lsgi~~~~v~~ll~d~~~~~l~aL~~aaGLp~~~  305 (382)
                      .++-|.-+++-..+  ....|++-.|++..++...+..+-+.+=.++..+.|++...
T Consensus        10 h~adI~AaL~krG~--sLa~lsr~~gls~stl~naL~rp~pKgEriIA~aLg~~P~e   64 (74)
T d1nera_          10 HRADVIAGLKKRKL--SLSALSRQFGYAPTTLANALERHWPKGEQIIANALETKPEV   64 (74)
T ss_dssp             CHHHHHHHHTTSSC--CHHHHHHHHSCCHHHHHHTTTSSCHHHHHHHHHHTTSCHHH
T ss_pred             CHHHHHHHHHHCCC--CHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHHCCCHHH
T ss_conf             99999999999688--79999999099878999998377858999999997859889


No 8  
>d1xm9a1 a.118.1.24 (A:244-700) Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=27.62  E-value=12  Score=12.98  Aligned_cols=66  Identities=17%  Similarity=0.206  Sum_probs=48.6

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHH--HHHHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             58999998417997899999999999963578998999999--9999998519698999999998214
Q gi|254780224|r    2 SVQSFIKWAKNAKLQERISIARILGRTWCMEELLDQEKDSL--VLAMMHLLDDPSSRVRLSLARAIAL   67 (382)
Q Consensus         2 iv~~fl~~~~~a~~~~Ra~~a~~l~r~~~~~~l~~~er~~a--~~iL~~L~~d~~~~vR~alA~~La~   67 (382)
                      .|..++++.+..+++.+..++..|.......+..-......  -..|..|+.++++.+|...+..|..
T Consensus         3 ~ip~lv~~L~~~~~~~~~~a~~~l~~l~~~~~~~~~~i~~~g~i~~Lv~lL~~~~~~v~~~a~~aL~~   70 (457)
T d1xm9a1           3 TIPKAVQYLSSQDEKYQAIGAYYIQHTCFQDESAKQQVYQLGGICKLVDLLRSPNQNVQQAAAGALRN   70 (457)
T ss_dssp             CHHHHHHHHHSSCTHHHHHHHHHHHHHTSSCSSHHHHHHHTTHHHHHHHHTTSSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             78999998579999999999999999984999999999988859999998779998999999999999


No 9  
>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}
Probab=27.07  E-value=12  Score=12.92  Aligned_cols=40  Identities=10%  Similarity=-0.042  Sum_probs=25.5

Q ss_pred             HHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9717991799999996299988999999999999840266
Q gi|254780224|r  283 ILSTGGFHVICALYELVGLSPEISEIFVEATMIWRELAVG  322 (382)
Q Consensus       283 ll~d~~~~~l~aL~~aaGLp~~~~~af~~A~~~~r~~~~~  322 (382)
                      +-..+++-.+.-+.+..|+|..+.--+...+..+.=...+
T Consensus        14 ~a~~~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~   53 (75)
T d1mkma1          14 IVKNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRK   53 (75)
T ss_dssp             HHHCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEC
T ss_pred             HHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEC
T ss_conf             9857999899999999791999999999999988998889


No 10 
>d2axtu1 a.60.12.2 (U:37-134) Photosystem II 12 kDa extrinsic protein PsbU {Thermosynechococcus elongatus [TaxId: 146786]}
Probab=23.71  E-value=6.6  Score=14.51  Aligned_cols=47  Identities=11%  Similarity=0.159  Sum_probs=39.4

Q ss_pred             HHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             99999829998999999717991799999996299988999999999
Q gi|254780224|r  267 VILANIAEYSTDRVYSILSTGGFHVICALYELVGLSPEISEIFVEAT  313 (382)
Q Consensus       267 ~aLA~lsgi~~~~v~~ll~d~~~~~l~aL~~aaGLp~~~~~af~~A~  313 (382)
                      ..|..+.|+.+..+.+|+..+....+.-|.+--|+...++..|+.-+
T Consensus        27 ~eL~~lpGIg~~~A~~Iv~~gpf~s~edL~~V~GIg~~~~e~lk~yl   73 (98)
T d2axtu1          27 AAFIQYRGLYPTLAKLIVKNAPYESVEDVLNIPGLTERQKQILRENL   73 (98)
T ss_dssp             GGGTTSTTCTHHHHHHHHHSCCCSSGGGGGGCTTCCTTHHHHHHHHG
T ss_pred             HHHHHHHHHCHHHHHHHHHCCCCCCHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             99987321269999999971882889999638899989999999987


Done!