Query 041207
Match_columns 126
No_of_seqs 122 out of 274
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 07:43:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041207.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041207hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4a18_U RPL13, 60S ribosomal pr 100.0 1.4E-54 4.7E-59 343.0 3.9 124 1-124 80-205 (206)
2 3u5e_L 60S ribosomal protein L 100.0 3.4E-49 1.2E-53 310.8 6.8 114 1-125 82-195 (199)
3 4dac_A Computationally designe 35.3 20 0.00068 19.6 1.6 16 27-42 5-20 (28)
4 3fbi_A Mediator of RNA polymer 26.1 31 0.0011 23.3 1.7 13 29-41 26-38 (84)
5 4hde_A SCO1/SENC family lipopr 25.8 26 0.00088 24.5 1.3 24 10-42 70-93 (170)
6 1f46_A Cell division protein Z 24.4 68 0.0023 22.9 3.4 29 13-41 110-138 (140)
7 2fcg_F Cationic, antibacterial 22.7 40 0.0014 18.4 1.4 18 26-43 3-20 (26)
8 3ivz_A Nitrilase; alpha-beta s 21.7 53 0.0018 24.4 2.5 23 26-48 14-43 (262)
9 3hkx_A Amidase; alpha-beta-BET 20.5 58 0.002 24.7 2.5 24 26-49 33-63 (283)
10 2e11_A Hydrolase; dimethylarse 17.7 74 0.0025 23.6 2.5 23 26-48 16-44 (266)
No 1
>4a18_U RPL13, 60S ribosomal protein L36; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_U 4a1b_U 4a1d_U
Probab=100.00 E-value=1.4e-54 Score=342.99 Aligned_cols=124 Identities=35% Similarity=0.526 Sum_probs=120.4
Q ss_pred CCCCCCCccCccCeeeccCCCCCchhhHHHHHHHHHhhhhcceeecCCccccccC--CCCHHHhhhhhhccCccCCCCCC
Q 041207 1 AAGIPKKLAPTIGVSVDHRRKNRSLEGLQSNVQRLKTYKAKLVVFPRRARKFKAG--DSAPEELATATQVQGPYMPIAPE 78 (126)
Q Consensus 1 aAGi~~k~ArtIGIaVD~RR~N~S~Esl~~NVqRLKeY~skLilfPrk~~kpkkG--Ds~~ee~~~a~q~~~~v~Pi~~~ 78 (126)
+|||++++|+||||+|||||+|+|+||||.||||||+|+|||||||++.++|||| ||++||++.|+|++|.+|||.++
T Consensus 80 ~aGi~~~~A~tiGI~VD~RR~nkS~Esl~~Nv~rLk~y~sklIlFPrk~~k~kkG~~Dss~ee~k~a~q~~g~vmPi~~~ 159 (206)
T 4a18_U 80 AAGISAAFAQSIGIKVDHRRKNRCQESLELNKKRLLAYVSKLVLFPRHQGKAKKGLVNDTADTSSAAQNALQTSVPLPSV 159 (206)
T ss_dssp HHTCCHHHHHHHTBCBCTTCCCCSHHHHHHHHHHHHHHHHTCCCCCSSSCCCTTTTCCCTTHHHHCCCCCHHHHSCCCCC
T ss_pred HcCCCHHHhcccCeeeccccccccHhHHHHHHHHHHHHHHheEEeeCcccccccCCCCCCHHHHHHHHHhcccccCccCc
Confidence 4899999999999999999999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCcccccccCcccccchHHHHHHHHHhhhhhhhhhhhHHHHHHHhh
Q 041207 79 RPTVELVKVTQDMKSFKAYDKLRIERVNERHFGARMKKAAEAEKEE 124 (126)
Q Consensus 79 ~~~~~~r~it~eek~~~ay~~LR~ar~~~r~~G~r~kra~~~ae~~ 124 (126)
.+.++++.||+||++|+||.+||+||+|+|++|+|+|+++++||+.
T Consensus 160 ~~~~~~r~it~eek~~~ay~~LR~ar~~~r~~G~R~Kra~e~ae~~ 205 (206)
T 4a18_U 160 SKREKAVSNIAELRKKKVYRIIRQEKTNQKWDGKRKAKAQAAAEPK 205 (206)
T ss_dssp CCCCCCHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred ccccccccCChhhhcccHHHHHHHHHHhhHHHHHHHHHHHHhhhcc
Confidence 9999999999999999999999999999999999999999998875
No 2
>3u5e_L 60S ribosomal protein L13-A, 60S ribosomal protein L11-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_L 4b6a_L
Probab=100.00 E-value=3.4e-49 Score=310.78 Aligned_cols=114 Identities=39% Similarity=0.582 Sum_probs=110.4
Q ss_pred CCCCCCCccCccCeeeccCCCCCchhhHHHHHHHHHhhhhcceeecCCccccccCCCCHHHhhhhhhccCccCCCCCCCC
Q 041207 1 AAGIPKKLAPTIGVSVDHRRKNRSLEGLQSNVQRLKTYKAKLVVFPRRARKFKAGDSAPEELATATQVQGPYMPIAPERP 80 (126)
Q Consensus 1 aAGi~~k~ArtIGIaVD~RR~N~S~Esl~~NVqRLKeY~skLilfPrk~~kpkkGDs~~ee~~~a~q~~~~v~Pi~~~~~ 80 (126)
+|||++++|+||||+|||||+|+|+||||.||||||+|+|||||||++.++|+|| ++|++|.+|||.++.+
T Consensus 82 ~aGi~~k~A~tiGI~VD~RR~nks~Esl~~NVqrLk~y~sklilFPrk~~~~kkG---------atq~~g~vmPi~~~~~ 152 (199)
T 3u5e_L 82 AAGLTAAYARTIGIAVDHRRQNRNQEIFDANVQRLKEYQSKIIVFPRNGKAPEAE---------QVLSAAATFPIAQPAT 152 (199)
T ss_dssp HTTCCHHHHHHTTBCCCTTCCCCBHHHHHHHHHHHHHHHHTEEECCSSSCCCCCC---------CCCCSTTTSCCCCCCC
T ss_pred HcCCCHHHhcccCeeeccccccccHHHHHHHHHHHHHHHhheeEecccccccccc---------cccccccccccccccc
Confidence 5899999999999999999999999999999999999999999999999999999 7999999999999999
Q ss_pred cccccccCcccccchHHHHHHHHHhhhhhhhhhhhHHHHHHHhhc
Q 041207 81 TVELVKVTQDMKSFKAYDKLRIERVNERHFGARMKKAAEAEKEEK 125 (126)
Q Consensus 81 ~~~~r~it~eek~~~ay~~LR~ar~~~r~~G~r~kra~~~ae~~~ 125 (126)
.++++.||+| +|+||.+||+||+|+|++|+|+|+++++||+++
T Consensus 153 ~~~~r~it~e--~~~ay~~LR~ar~~~r~~G~R~Kra~e~ae~~~ 195 (199)
T 3u5e_L 153 DVEARAVQDN--GESAFRTLRLARSEKKFRGIREKRAREKAEAEA 195 (199)
T ss_dssp SCSEECCCCC--CCCSHHHHHHHHHHHHTHHHHHHHHHHHHCCC-
T ss_pred cccccccChh--hhhHHHHHHHHHHHhHHHHHHHHHHHHHHHhhh
Confidence 9999999999 899999999999999999999999999998865
No 3
>4dac_A Computationally designed crystal forming protein; alpha-helix, three-helix bundle, coiled-coil protein, DE NOV computational protein design; 2.10A {Synthetic}
Probab=35.33 E-value=20 Score=19.58 Aligned_cols=16 Identities=44% Similarity=0.561 Sum_probs=11.9
Q ss_pred hHHHHHHHHHhhhhcc
Q 041207 27 GLQSNVQRLKTYKAKL 42 (126)
Q Consensus 27 sl~~NVqRLKeY~skL 42 (126)
-|++||.||..--.||
T Consensus 5 kldanvkrlekevgkl 20 (28)
T 4dac_A 5 KLDANVKRLEKEVGKL 20 (28)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred eccccHHHHHHHHhhh
Confidence 5889999998655444
No 4
>3fbi_A Mediator of RNA polymerase II transcription subunit 7; proline-rich stretches, right-handed four-helix bundle, protein-protein complex; 2.80A {Saccharomyces cerevisiae} PDB: 3fbn_A
Probab=26.06 E-value=31 Score=23.30 Aligned_cols=13 Identities=54% Similarity=0.836 Sum_probs=11.2
Q ss_pred HHHHHHHHhhhhc
Q 041207 29 QSNVQRLKTYKAK 41 (126)
Q Consensus 29 ~~NVqRLKeY~sk 41 (126)
..|++||.+|+..
T Consensus 26 ~eNl~kl~e~k~~ 38 (84)
T 3fbi_A 26 QSNLEKLPKYKEK 38 (84)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5799999999864
No 5
>4hde_A SCO1/SENC family lipoprotein; structural genomics, the center for structural genomics of I diseases, csgid, niaid; HET: MSE; 1.32A {Bacillus anthracis}
Probab=25.80 E-value=26 Score=24.49 Aligned_cols=24 Identities=25% Similarity=0.351 Sum_probs=17.8
Q ss_pred CccCeeeccCCCCCchhhHHHHHHHHHhhhhcc
Q 041207 10 PTIGVSVDHRRKNRSLEGLQSNVQRLKTYKAKL 42 (126)
Q Consensus 10 rtIGIaVD~RR~N~S~Esl~~NVqRLKeY~skL 42 (126)
..|+|+||+-|- ..++|++|..+.
T Consensus 70 ~~v~isvDp~~D---------tp~~l~~y~~~~ 93 (170)
T 4hde_A 70 QFVSFSVDPDLD---------KPENLKAFIQKF 93 (170)
T ss_dssp EEEEEESCTTTC---------CHHHHHHHHTTT
T ss_pred eeEeeecCcccc---------cHHHHHHHHHHc
Confidence 468999998763 356688888764
No 6
>1f46_A Cell division protein ZIPA; transmembrane, inner membrane, cell cycle; 1.50A {Escherichia coli} SCOP: d.129.4.1 PDB: 1f47_B 1s1j_A* 1s1s_A* 1y2g_A* 1f7w_A 1f7x_A 1y2f_A*
Probab=24.42 E-value=68 Score=22.86 Aligned_cols=29 Identities=21% Similarity=0.333 Sum_probs=25.3
Q ss_pred CeeeccCCCCCchhhHHHHHHHHHhhhhc
Q 041207 13 GVSVDHRRKNRSLEGLQSNVQRLKTYKAK 41 (126)
Q Consensus 13 GIaVD~RR~N~S~Esl~~NVqRLKeY~sk 41 (126)
|.=||..|+-.|.++++.=-+||.+|..+
T Consensus 110 g~llDd~r~~lt~~~~~~ir~~l~~~~~~ 138 (140)
T 1f46_A 110 GVVLDDQRRMMTPQKLREYQDIIREVKDA 138 (140)
T ss_dssp CEEECTTSCBCCHHHHHHHHHHHHHHHHH
T ss_pred CEEECCCCCCCCHHHHHHHHHHHHHHHHh
Confidence 56789999999999999988999988654
No 7
>2fcg_F Cationic, antibacterial protein FALL-39, core peptide; HOST defense peptide, antimicrobial peptide, antimicrobial protein; NMR {Synthetic}
Probab=22.65 E-value=40 Score=18.37 Aligned_cols=18 Identities=33% Similarity=0.525 Sum_probs=15.2
Q ss_pred hhHHHHHHHHHhhhhcce
Q 041207 26 EGLQSNVQRLKTYKAKLV 43 (126)
Q Consensus 26 Esl~~NVqRLKeY~skLi 43 (126)
++++.=+||||.+.++|+
T Consensus 3 ~~~kkIgQkIkdFf~~l~ 20 (26)
T 2fcg_F 3 KEFKRIVQRIKDFLRNLV 20 (26)
T ss_dssp CSHHHHHHHHHHHHHHSC
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 467777999999999986
No 8
>3ivz_A Nitrilase; alpha-beta sandwich, hydrolase; 1.57A {Pyrococcus abyssi} SCOP: d.160.1.2 PDB: 3iw3_A 3ki8_A 3klc_A 1j31_A
Probab=21.72 E-value=53 Score=24.43 Aligned_cols=23 Identities=26% Similarity=0.309 Sum_probs=18.0
Q ss_pred hhHHHHHHHHHhhh-------hcceeecCC
Q 041207 26 EGLQSNVQRLKTYK-------AKLVVFPRR 48 (126)
Q Consensus 26 Esl~~NVqRLKeY~-------skLilfPrk 48 (126)
..++.|++++.++. ..|||||--
T Consensus 14 ~d~~~N~~~~~~~i~~A~~~gadlvvfPE~ 43 (262)
T 3ivz_A 14 LEPDKNYSKAEKLIKEASKQGAQLVVLPEL 43 (262)
T ss_dssp TCHHHHHHHHHHHHHHHHHTTCSEEECCTT
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEEeCCC
Confidence 46788998888765 479999974
No 9
>3hkx_A Amidase; alpha-beta-BETA-alpha:alpha-beta-BETA-alpha dimeric sandwich hydrolase; 1.66A {Nesterenkonia SP}
Probab=20.47 E-value=58 Score=24.73 Aligned_cols=24 Identities=21% Similarity=0.214 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHhhh-------hcceeecCCc
Q 041207 26 EGLQSNVQRLKTYK-------AKLVVFPRRA 49 (126)
Q Consensus 26 Esl~~NVqRLKeY~-------skLilfPrk~ 49 (126)
..++.|++++.++. ..|||||--.
T Consensus 33 ~d~~~N~~~~~~~i~~A~~~gadlvvfPE~~ 63 (283)
T 3hkx_A 33 LDPQHNLDLIDDAAARASEQGAQLLLTPELF 63 (283)
T ss_dssp TCHHHHHHHHHHHHHHHHHTTCSEEECCTTG
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEEcCCCc
Confidence 35788999887764 4799999853
No 10
>2e11_A Hydrolase; dimethylarsenic inhibi complex, cacodylate; 1.73A {Xanthomonas campestris PV}
Probab=17.65 E-value=74 Score=23.55 Aligned_cols=23 Identities=17% Similarity=0.271 Sum_probs=17.4
Q ss_pred hhHHHHHHHHHhhh------hcceeecCC
Q 041207 26 EGLQSNVQRLKTYK------AKLVVFPRR 48 (126)
Q Consensus 26 Esl~~NVqRLKeY~------skLilfPrk 48 (126)
...+.|++++.++. ..|||||--
T Consensus 16 ~d~~~n~~~~~~~i~~a~~gadlvv~PE~ 44 (266)
T 2e11_A 16 HDPAGNRDYYGALLEPLAGQSDLVILPET 44 (266)
T ss_dssp TCHHHHHHHHHHHHGGGTTTCSEEECCTT
T ss_pred CCHHHHHHHHHHHHHHhcCCCCEEECCCC
Confidence 34678888888776 369999974
Done!