Query gi|254780584|ref|YP_003064997.1| 50S ribosomal protein L28 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 97
No_of_seqs 107 out of 724
Neff 5.3
Searched_HMMs 13730
Date Wed Jun 1 09:17:48 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780584.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 d2qamz1 d.325.1.1 (Z:2-78) Rib 99.9 2.7E-29 2E-33 193.3 3.1 74 2-76 1-74 (77)
2 d2jz6a1 d.325.1.1 (A:6-75) Rib 99.9 3.2E-26 2.3E-30 175.0 3.6 69 1-74 1-69 (70)
3 d2j0111 d.325.1.1 (1:8-96) Rib 99.8 1.8E-21 1.3E-25 146.5 -2.9 81 1-88 7-87 (89)
4 d2zjru1 d.325.1.1 (U:8-79) Rib 99.8 5.9E-21 4.3E-25 143.5 -2.0 64 1-66 7-72 (72)
5 d2j0111 d.325.1.1 (1:8-96) Rib 82.5 0.17 1.2E-05 27.1 0.8 42 8-50 1-45 (89)
6 d2cu8a1 g.39.1.3 (A:8-37) Cyst 25.7 13 0.00091 15.9 1.3 19 1-19 1-19 (30)
7 d1vqoo1 c.12.1.1 (O:1-115) Rib 25.2 20 0.0014 14.8 2.3 39 36-74 63-107 (115)
8 d2zjri1 c.12.1.1 (I:4-144) Rib 20.3 19 0.0014 14.9 1.4 15 50-64 121-135 (141)
9 d1vqol1 c.12.1.1 (L:1-150) Rib 12.4 38 0.0028 13.1 1.3 25 40-64 111-138 (150)
10 d2epra1 g.37.1.1 (A:350-384) P 10.8 25 0.0018 14.1 -0.0 6 5-10 8-13 (35)
No 1
>d2qamz1 d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {Escherichia coli [TaxId: 562]}
Probab=99.95 E-value=2.7e-29 Score=193.33 Aligned_cols=74 Identities=36% Similarity=0.590 Sum_probs=71.4
Q ss_pred CCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHH
Q ss_conf 854101178553677223323023742555248999985577868999997245302364188779997298445
Q gi|254780584|r 2 SRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKEN 76 (97)
Q Consensus 2 sr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~ 76 (97)
||+||||||+|++||+||||+++|+|+|.||||++++|||+++++|+|+|||+|||||+| ||||+||++++++.
T Consensus 1 Sr~C~itGK~~~~Gn~vShs~~kTkR~~~pNlq~kr~~~~~~~~~v~lkvstk~LRtI~K-~Gld~~l~k~~~~g 74 (77)
T d2qamz1 1 SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDK-KGIDTVLAELRARG 74 (77)
T ss_dssp CCCCSSSCCCCCCCBCCBGGGBCCBCCCCCCCCCEECCCSTTCCCCEECCCTTHHHHHTT-SCHHHHHHTTTTTT
T ss_pred CCCCCCCCCCCCCCCEEEECCCCCCCEECCCEEEEEEEECCCCEEEEEEEEHHHEEEEHH-CCHHHHHHHHHHCC
T ss_conf 988601898545686220036644756646438999998578979999998053324113-79999999999735
No 2
>d2jz6a1 d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {Thermotoga maritima [TaxId: 2336]}
Probab=99.91 E-value=3.2e-26 Score=174.98 Aligned_cols=69 Identities=29% Similarity=0.559 Sum_probs=66.6
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCH
Q ss_conf 98541011785536772233230237425552489999855778689999972453023641887799972984
Q gi|254780584|r 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKK 74 (97)
Q Consensus 1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~ 74 (97)
|||+||||||+|++||+||||+++|+|+|+||||++++|+|+ |++++++|||+|||| ||||.|++++++
T Consensus 1 Mar~C~itGK~~~~Gn~vShs~~kTkR~f~PNlq~~r~~~~~-g~~v~~kvst~~lrt----g~v~k~~~~~~~ 69 (70)
T d2jz6a1 1 MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS----GKVKKYVGQVSE 69 (70)
T ss_dssp CCCCCTTTCCCCCCCCCCCCSCCCCSSSCBTTEEEEEEEETT-TEEEEEEEEHHHHHH----CCSCCCCCCCCS
T ss_pred CCCEEEECCCCCCCCCEEEECCCCCCCEECCCEEEEEEEECC-CCEEEEEEEHHHHHH----CCHHHHHHHHCC
T ss_conf 986700068856658717765862475264770899999239-988999999799544----478787675545
No 3
>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]}
Probab=99.78 E-value=1.8e-21 Score=146.50 Aligned_cols=81 Identities=19% Similarity=0.259 Sum_probs=70.6
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHHHHHH
Q ss_conf 98541011785536772233230237425552489999855778689999972453023641887799972984455399
Q gi|254780584|r 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKENLSAR 80 (97)
Q Consensus 1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~Ls~~ 80 (97)
|...|...|+.+++||++|||+++|+|+|.||||.+++|++ +++++++|||+|||||+|.||+|+|| +...|++.
T Consensus 7 ~Gn~v~~~Gk~~~~G~~vshs~~kTkRrf~PNLq~vr~~v~--g~~~~lrVst~alRti~k~~g~~~~l---k~~~l~~~ 81 (89)
T d2j0111 7 VANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVYELVERAKGL---KLEGLSPK 81 (89)
T ss_dssp CCCCCCCCCEECSCCSSSSCCCEEECCCCCCCCCCCCEEET--TTTEEECCCSSSHHHHHHHHSCCCCC---CCCSCCHH
T ss_pred CCCEEEECCCCCCCCCCEEECCCCCCCEECCCCEEEEEEEC--CEEEEEEEEHHHHHHHHHHHHHHHHH---HHCCCCHH
T ss_conf 27648734853203873420266225056477368999989--99999999979977688640077899---87379988
Q ss_pred HHHHHHHH
Q ss_conf 99999999
Q gi|254780584|r 81 MRTLRSQI 88 (97)
Q Consensus 81 ~~klk~~i 88 (97)
.+++.+
T Consensus 82 --~~k~~~ 87 (89)
T d2j0111 82 --EIKKEL 87 (89)
T ss_dssp --HHHHHC
T ss_pred --HHHHHH
T ss_conf --998886
No 4
>d2zjru1 d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {Deinococcus radiodurans [TaxId: 1299]}
Probab=99.76 E-value=5.9e-21 Score=143.48 Aligned_cols=64 Identities=19% Similarity=0.204 Sum_probs=60.4
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHH--CCCHH
Q ss_conf 9854101178553677223323023742555248999985577868999997245302364--18877
Q gi|254780584|r 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVER--QGGLD 66 (97)
Q Consensus 1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K--~GGlD 66 (97)
|+..|+++||.+++||+||||+++|+|+|.||||.+++|+| +++++++|||+||||||| .+|+|
T Consensus 7 ~~~~~~~~GK~~~~Gn~vsh~~~~TkR~f~PNLq~~ri~~~--g~~~klkVst~~lRtI~K~~~~~~~ 72 (72)
T d2zjru1 7 VVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSANALRTLSKGPYKGIE 72 (72)
T ss_dssp CCCCCCCCCEESCCCTTTCSCCEECCCCCCCCCCCCCCCCS--SSCCCCCCCHHHHHHHHSSCCSSCC
T ss_pred ECCEEEEECCCCCCCCCEEECCCCCCCEECCCCEEEEEEEC--CEEEEEEEEHHHEEEECCCCCCCCC
T ss_conf 33789972554023886602288557466353089999978--8759999993753245103344579
No 5
>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]}
Probab=82.47 E-value=0.17 Score=27.11 Aligned_cols=42 Identities=7% Similarity=-0.016 Sum_probs=30.7
Q ss_pred CCCCCCCCCCCCHHHCCC---CCEECCCEEEEEEEECCCCCEEEEE
Q ss_conf 178553677223323023---7425552489999855778689999
Q gi|254780584|r 8 TKKTVMSGNKVSHANNKT---RRRFLPNLCRITLISDIMEQKYQLR 50 (97)
Q Consensus 8 tGk~~~~Gn~vshs~~kT---kR~~~PNlq~~~~~s~~l~~~v~l~ 50 (97)
|||+|++||+|+|+.... ...-+.+-..++-|-|-|..- ++-
T Consensus 1 TGKkp~~Gn~v~~~Gk~~~~G~~vshs~~kTkRrf~PNLq~v-r~~ 45 (89)
T d2j0111 1 SGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKV-RVR 45 (89)
T ss_dssp CCCSSSCCCCCCCCCEECSCCSSSSCCCEEECCCCCCCCCCC-CEE
T ss_pred CCCCCCCCCEEEECCCCCCCCCCEEECCCCCCCEECCCCEEE-EEE
T ss_conf 998752276487348532038734202662250564773689-999
No 6
>d2cu8a1 g.39.1.3 (A:8-37) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]}
Probab=25.68 E-value=13 Score=15.95 Aligned_cols=19 Identities=42% Similarity=0.504 Sum_probs=16.6
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q ss_conf 9854101178553677223
Q gi|254780584|r 1 MSRVCELTKKTVMSGNKVS 19 (97)
Q Consensus 1 Msr~C~itGk~~~~Gn~vs 19 (97)
|+..|.-|||.+-+.-.++
T Consensus 1 M~~~CprC~K~VYfaEk~~ 19 (30)
T d2cu8a1 1 MASKCPKCDKTVYFAEKVS 19 (30)
T ss_dssp CCCBCTTTCCBCCTTTEEE
T ss_pred CCCCCCCCCCCEEEHHHHC
T ss_conf 9875778888154377630
No 7
>d1vqoo1 c.12.1.1 (O:1-115) Ribosomal protein L18e {Archaeon Haloarcula marismortui [TaxId: 2238]}
Probab=25.19 E-value=20 Score=14.77 Aligned_cols=39 Identities=18% Similarity=0.314 Sum_probs=27.5
Q ss_pred EEEEECCCCCEEE---EEEEHHHHHHHHHCCC---HHHHHHHCCH
Q ss_conf 9998557786899---9997245302364188---7799972984
Q gi|254780584|r 36 ITLISDIMEQKYQ---LRISKCALRSVERQGG---LDRFLSNSKK 74 (97)
Q Consensus 36 ~~~~s~~l~~~v~---l~vst~~lrtI~K~GG---lD~yLl~~~~ 74 (97)
+-+....+.+.++ +++|.+|..-|+++|| ||+++.+.|.
T Consensus 63 KVLg~G~l~~k~~V~A~~fS~sA~~kI~~aGg~iti~el~~~nP~ 107 (115)
T d1vqoo1 63 KVLGSGVLQKDVTVAAVDFSGTAETKIDQVGEAVSLEQAIENNPE 107 (115)
T ss_dssp EEECCSCCCSCCEEEEEEECHHHHHHHHHHSEEEEHHHHHHHCTT
T ss_pred EEECCCEECCCEEEEEEECCHHHHHHHHHCCCEEEHHHHHHHCCC
T ss_conf 896365875788999851178999999980988988999987899
No 8
>d2zjri1 c.12.1.1 (I:4-144) Ribosomal protein L15 (L15p) {Deinococcus radiodurans [TaxId: 1299]}
Probab=20.33 E-value=19 Score=14.87 Aligned_cols=15 Identities=40% Similarity=0.651 Sum_probs=8.8
Q ss_pred EEEHHHHHHHHHCCC
Q ss_conf 997245302364188
Q gi|254780584|r 50 RISKCALRSVERQGG 64 (97)
Q Consensus 50 ~vst~~lrtI~K~GG 64 (97)
.+|.+|+..|+++||
T Consensus 121 ~~S~sA~~~IE~aGG 135 (141)
T d2zjri1 121 AASAAAIKAVEAAGG 135 (141)
T ss_dssp EECHHHHHHHGGGSC
T ss_pred EECHHHHHHHHHCCC
T ss_conf 849999999998799
No 9
>d1vqol1 c.12.1.1 (L:1-150) Ribosomal protein L15 (L15p) {Archaeon Haloarcula marismortui [TaxId: 2238]}
Probab=12.35 E-value=38 Score=13.06 Aligned_cols=25 Identities=28% Similarity=0.367 Sum_probs=15.7
Q ss_pred ECCCCCEEEEE---EEHHHHHHHHHCCC
Q ss_conf 55778689999---97245302364188
Q gi|254780584|r 40 SDIMEQKYQLR---ISKCALRSVERQGG 64 (97)
Q Consensus 40 s~~l~~~v~l~---vst~~lrtI~K~GG 64 (97)
..++...+.|. +|.+|+..|+++||
T Consensus 111 ~G~l~~~l~Ika~~~S~sA~ekIe~aGG 138 (150)
T d1vqol1 111 AGQVRHELTLIADDFSEGAREKVEGAGG 138 (150)
T ss_dssp CSCCCSCCEEEESEECHHHHHHHHHTTC
T ss_pred CCCCCCCEEEEEEECCHHHHHHHHHCCC
T ss_conf 7831767799999819999999998599
No 10
>d2epra1 g.37.1.1 (A:350-384) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=10.84 E-value=25 Score=14.15 Aligned_cols=6 Identities=50% Similarity=1.082 Sum_probs=0.0
Q ss_pred CCCCCC
Q ss_conf 101178
Q gi|254780584|r 5 CELTKK 10 (97)
Q Consensus 5 C~itGk 10 (97)
|++|||
T Consensus 8 ce~cgk 13 (35)
T d2epra1 8 CEICGK 13 (35)
T ss_dssp ETTTTE
T ss_pred HHHHHH
T ss_conf 899989
Done!