Query psy3738
Match_columns 136
No_of_seqs 111 out of 176
Neff 3.5
Searched_HMMs 29240
Date Sat Aug 17 00:16:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3738.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/3738hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ys8_A RAB-related GTP-binding 22.5 29 0.00099 22.9 1.0 24 30-53 8-31 (90)
2 3jyw_O 60S ribosomal protein L 17.7 77 0.0026 23.0 2.5 39 48-93 1-47 (121)
3 3izc_R 60S ribosomal protein R 17.0 68 0.0023 25.1 2.2 40 47-93 20-67 (186)
4 4a17_N RPL18, 60S ribosomal pr 17.0 68 0.0023 25.1 2.2 39 48-93 22-68 (181)
5 3j21_P 50S ribosomal protein L 15.5 80 0.0027 22.6 2.1 27 48-81 6-32 (120)
6 1nkz_B Light-harvesting protei 14.3 75 0.0026 19.4 1.4 30 33-65 2-31 (41)
7 3iz5_R 60S ribosomal protein L 13.8 1E+02 0.0035 24.1 2.5 40 47-93 20-67 (188)
8 1lgh_B LH II, B800/850, light 11.8 95 0.0033 19.3 1.4 32 31-65 5-36 (45)
9 3isu_A RAS GTPase-activating-l 11.4 1.1E+02 0.0038 22.3 1.9 49 2-52 46-96 (121)
10 2fj6_A Hypothetical UPF0346 pr 11.1 1.8E+02 0.0062 20.0 2.8 29 31-59 32-60 (82)
No 1
>2ys8_A RAB-related GTP-binding protein RABJ; DNAJ domain, RAS-associated protein RAP1, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=22.50 E-value=29 Score=22.92 Aligned_cols=24 Identities=13% Similarity=0.202 Sum_probs=21.0
Q ss_pred CCCCCCCCChHHHHHHHhccChhH
Q psy3738 30 PSCPFVFPDQDSLKEALLETSPYL 53 (136)
Q Consensus 30 ~~~~f~~~d~DeiK~~~leTNpyl 53 (136)
+.+|+++++.++++++..+.|+|=
T Consensus 8 ~~~~~s~~~~~~~~~~~~~~~~y~ 31 (90)
T 2ys8_A 8 SSASFTKEQADAIRRIRNSKDSWD 31 (90)
T ss_dssp CCCCCCHHHHHHHHHHHTCSSHHH
T ss_pred cccCCCHHHHHHHHHHhcCCCHHH
Confidence 467899999999999999999983
No 2
>3jyw_O 60S ribosomal protein L18(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_O
Probab=17.65 E-value=77 Score=22.97 Aligned_cols=39 Identities=23% Similarity=0.363 Sum_probs=27.7
Q ss_pred ccChhHHHHHHHHHHHHHHHHHhhccchhhhhhc--------CCCcccchhhHH
Q psy3738 48 ETSPYLLAATVIVSILHSVFELLAFKNDIQFWNN--------RQSLEGLSVRSV 93 (136)
Q Consensus 48 eTNpylL~~T~~VS~LHsvFefLAFKNDI~FWr~--------kksm~GLS~rtv 93 (136)
.||||+- .|.-...|+|=++|-.|||. +++.+-+|..-+
T Consensus 1 s~n~~l~-------~lvkl~~~lar~t~apl~rrvpKRgF~sr~~~~~VnLs~L 47 (121)
T 3jyw_O 1 SDNVYLK-------LLVKLYTFLARRTDAPFNKVVLKALFLSKINRPPVSVSRI 47 (121)
T ss_dssp CCCHHHH-------HHHHHHHHHHTTSCCHHHHHHHHTTTSCSTTSCCBCHHHH
T ss_pred CCCHHHH-------HHHHHHHHHHhhcCChHHHHHHHHHCCCCCccceEEHHHH
Confidence 3789984 45667789999999999973 345556665554
No 3
>3izc_R 60S ribosomal protein RPL18 (L18E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_R 3o58_R 3o5h_R 3u5e_Q 3u5i_Q 4b6a_Q
Probab=17.02 E-value=68 Score=25.15 Aligned_cols=40 Identities=23% Similarity=0.336 Sum_probs=28.8
Q ss_pred hccChhHHHHHHHHHHHHHHHHHhhccchhhhhhc--------CCCcccchhhHH
Q psy3738 47 LETSPYLLAATVIVSILHSVFELLAFKNDIQFWNN--------RQSLEGLSVRSV 93 (136)
Q Consensus 47 leTNpylL~~T~~VS~LHsvFefLAFKNDI~FWr~--------kksm~GLS~rtv 93 (136)
-.|||||- .|.-+..|||=++|-.||+. +.+.+-+|+.-+
T Consensus 20 kstN~yL~-------~Lvklyr~larrt~apf~r~V~KRLf~sr~~r~~VnLsrI 67 (186)
T 3izc_R 20 KSDNVYLK-------LLVKLYTFLARRTDAPFNKVVLKALFLSKINRPPVSVSRI 67 (186)
T ss_dssp CCSSHHHH-------HHHHHHHHHHHHSCCHHHHHHHHHHHSCTTTCCEEEHHHH
T ss_pred CCCCHHHH-------HHHHHHHHHHhhhCChHHHHHHHHHhCCCcccCcccHHHH
Confidence 35899984 34566789999999999973 345566666555
No 4
>4a17_N RPL18, 60S ribosomal protein L5; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_N 4a1c_N 4a1e_N
Probab=17.00 E-value=68 Score=25.06 Aligned_cols=39 Identities=26% Similarity=0.376 Sum_probs=27.9
Q ss_pred ccChhHHHHHHHHHHHHHHHHHhhccchhhhhhc--------CCCcccchhhHH
Q psy3738 48 ETSPYLLAATVIVSILHSVFELLAFKNDIQFWNN--------RQSLEGLSVRSV 93 (136)
Q Consensus 48 eTNpylL~~T~~VS~LHsvFefLAFKNDI~FWr~--------kksm~GLS~rtv 93 (136)
.|||||- .|.-+..|+|=++|-.|||. +.+.+-+|+.-+
T Consensus 22 stN~yL~-------~Lvklyr~larrt~apf~r~V~KRLf~sr~nr~pVnLsrI 68 (181)
T 4a17_N 22 STNVYHK-------LLIKLYKFLVRRTDSKFNQNILKRLSSSRLNKFPLSLSRI 68 (181)
T ss_dssp CCCHHHH-------HHHHHHHHHHHHCCCHHHHHHHHHHSCCGGGSCCEEHHHH
T ss_pred CCCHHHH-------HHHHHHHHHHhhcCChHHHHHHHHHcCCccccCcccHHHH
Confidence 5899984 34566789999999999973 234555665555
No 5
>3j21_P 50S ribosomal protein L18E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=15.50 E-value=80 Score=22.63 Aligned_cols=27 Identities=19% Similarity=0.341 Sum_probs=21.5
Q ss_pred ccChhHHHHHHHHHHHHHHHHHhhccchhhhhhc
Q psy3738 48 ETSPYLLAATVIVSILHSVFELLAFKNDIQFWNN 81 (136)
Q Consensus 48 eTNpylL~~T~~VS~LHsvFefLAFKNDI~FWr~ 81 (136)
.||||+- .|.-...|+|=++|.-|||.
T Consensus 6 ~~n~~l~-------~li~~~~~~~r~~~~Pl~rr 32 (120)
T 3j21_P 6 PTDPNLR-------RLIRYLRKKSNEYGVKIWKD 32 (120)
T ss_dssp CCCHHHH-------HHHHHHHHHHHHSCCSHHHH
T ss_pred CCCHHHH-------HHHHHHHHHHhccCCcHHHH
Confidence 5899984 45677889999999988873
No 6
>1nkz_B Light-harvesting protein B-800/850, beta chain; light harvesting complex II, trans-membrane helices, rhodopi glucoside; HET: CXM RG1 BOG BCL; 2.00A {Rhodoblastus acidophilus} SCOP: f.3.1.1 PDB: 1kzu_B* 2fkw_B* 1ijd_B*
Probab=14.28 E-value=75 Score=19.38 Aligned_cols=30 Identities=7% Similarity=0.179 Sum_probs=21.0
Q ss_pred CCCCCChHHHHHHHhccChhHHHHHHHHHHHHH
Q psy3738 33 PFVFPDQDSLKEALLETSPYLLAATVIVSILHS 65 (136)
Q Consensus 33 ~f~~~d~DeiK~~~leTNpylL~~T~~VS~LHs 65 (136)
|.+|+|..|+-+++.++=.-+ +.+..+-|.
T Consensus 2 gLT~~EA~EfH~~~~~~~~~F---~~iA~vAH~ 31 (41)
T 1nkz_B 2 TLTAEQSEELHKYVIDGTRVF---LGLALVAHF 31 (41)
T ss_dssp CCCHHHHHHHHHHHHHHHHHH---HHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHH---HHHHHHHHH
Confidence 788999999999999864433 344444454
No 7
>3iz5_R 60S ribosomal protein L18 (L18E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_R
Probab=13.83 E-value=1e+02 Score=24.14 Aligned_cols=40 Identities=20% Similarity=0.329 Sum_probs=28.9
Q ss_pred hccChhHHHHHHHHHHHHHHHHHhhccchhhhhhc--------CCCcccchhhHH
Q psy3738 47 LETSPYLLAATVIVSILHSVFELLAFKNDIQFWNN--------RQSLEGLSVRSV 93 (136)
Q Consensus 47 leTNpylL~~T~~VS~LHsvFefLAFKNDI~FWr~--------kksm~GLS~rtv 93 (136)
-.|||||- .|.-+..|+|=++|-.||+. +.+.+-+|+.-+
T Consensus 20 kstN~yL~-------~Liklyr~larrt~apf~r~V~KRLf~sr~~r~pVnLsrL 67 (188)
T 3iz5_R 20 KSDDVYLK-------LLVKLYRFLVRRTKSKFNAVILKRLFMSKTNRPPLSMRRL 67 (188)
T ss_dssp CCCCHHHH-------HHHHHHHHHHTTSSCHHHHHHHHHHHSCTTTCCEEEHHHH
T ss_pred CCCCHHHH-------HHHHHHHHHHhccCChHHHHHHHHHcCCccccCcccHHHH
Confidence 35899984 34566789999999999973 445666666555
No 8
>1lgh_B LH II, B800/850, light harvesting complex II; bacteriochlorophyll, dexter energy transfer, foerster exciton transfer mechanism; HET: BCL LYC DET HTO; 2.40A {Phaeospirillum molischianum} SCOP: f.3.1.1
Probab=11.79 E-value=95 Score=19.29 Aligned_cols=32 Identities=6% Similarity=0.160 Sum_probs=22.4
Q ss_pred CCCCCCCChHHHHHHHhccChhHHHHHHHHHHHHH
Q psy3738 31 SCPFVFPDQDSLKEALLETSPYLLAATVIVSILHS 65 (136)
Q Consensus 31 ~~~f~~~d~DeiK~~~leTNpylL~~T~~VS~LHs 65 (136)
.-|.+|+|..|+-+++.++=.-+. .+..+-|.
T Consensus 5 ~tGLT~~EA~EfH~~~~~~~~~F~---~iA~vAH~ 36 (45)
T 1lgh_B 5 LSGLTEEEAIAVHDQFKTTFSAFI---ILAAVAHV 36 (45)
T ss_dssp SSSCCHHHHHHHHHHHHHHHHHHH---HHHHHHHH
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHH
Confidence 458899999999999998644443 34444454
No 9
>3isu_A RAS GTPase-activating-like protein iqgap3; structural genomics, structural genomics consortium (SGC), RGC domain, calmodulin-binding; 1.88A {Homo sapiens}
Probab=11.45 E-value=1.1e+02 Score=22.28 Aligned_cols=49 Identities=14% Similarity=0.164 Sum_probs=31.7
Q ss_pred CccceeEEEEEecccccccceeeehhcCC--CCCCCCCChHHHHHHHhccChh
Q psy3738 2 NNKWKNVLFVISSATAEATTTFLLSCLTP--SCPFVFPDQDSLKEALLETSPY 52 (136)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~f~~~d~DeiK~~~leTNpy 52 (136)
.+.|+|+-|.|||. +..|.|.+.+... +.+-.+=.+||+=++=-|..+.
T Consensus 46 ~~~~~~v~f~Isss--~e~GvF~I~~~~~gi~~~~~~L~ldDLLq~Qye~~~~ 96 (121)
T 3isu_A 46 ASHFRNVIFDITPG--DEAGKFEVNAKFLGVDMERFQLHYQDLLQLQYEGVAV 96 (121)
T ss_dssp GGGGGGEEEEEEEC--SSTTEEEEEEEETTEECCCEEEEHHHHHHHHHTTCCE
T ss_pred hhccccEEEEEEeC--CCCeEEEEEEEeCCceeeEEEeeHHHHHHHHHcCCce
Confidence 36799999999832 3458888776543 3344455568877776665554
No 10
>2fj6_A Hypothetical UPF0346 protein YOZE; SR391, structure, autostructure, northeast structural genomics, PSI, protein structure initiative; NMR {Bacillus subtilis} SCOP: a.60.15.1
Probab=11.07 E-value=1.8e+02 Score=19.98 Aligned_cols=29 Identities=21% Similarity=0.211 Sum_probs=25.0
Q ss_pred CCCCCCCChHHHHHHHhccChhHHHHHHH
Q psy3738 31 SCPFVFPDQDSLKEALLETSPYLLAATVI 59 (136)
Q Consensus 31 ~~~f~~~d~DeiK~~~leTNpylL~~T~~ 59 (136)
++|=.++|.|+|.+-+-+...|+-.++++
T Consensus 32 ~FPK~s~d~~eIs~Yle~n~~y~~sm~iF 60 (82)
T 2fj6_A 32 SFPKTSTDYHEISSYLELNADYLHTMATF 60 (82)
T ss_dssp TSCTTCCCHHHHHHHHHTSHHHHTTHHHH
T ss_pred CCCCCcccHHHHHHHHHHcCCccchHHHH
Confidence 77888999999999999988898888654
Done!