Query 018539
Match_columns 354
No_of_seqs 115 out of 136
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 16:50:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018539.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/018539hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2pk2_A Cyclin-T1, protein TAT; 93.7 0.012 4E-07 57.0 0.0 10 122-131 317-326 (358)
2 3ng9_A Capsid protein; beta ba 36.8 11 0.00039 40.3 1.5 9 85-93 222-230 (736)
3 3ntt_A Capsid protein; gene th 36.3 11 0.00037 40.4 1.2 8 86-93 213-220 (724)
4 1p4b_L Antibody variable light 34.6 8.3 0.00028 31.2 0.0 7 6-12 24-30 (135)
5 3u6r_H Antibody 1:7 (heavy cha 27.7 13 0.00046 30.9 0.2 8 6-13 22-29 (149)
6 3n44_F E1 envelope glycoprotei 20.0 22 0.00076 35.9 0.0 19 72-90 3-21 (473)
7 4dpv_Z Protein (parvovirus coa 19.3 35 0.0012 35.5 1.3 33 57-94 16-48 (584)
8 3pgw_S U1-70K; protein-RNA com 18.4 63 0.0022 31.6 2.8 41 50-90 172-212 (437)
9 2i9o_A MHB8A peptide; beta-hai 17.0 1E+02 0.0034 21.0 2.7 20 69-88 2-21 (37)
10 3nwm_A Peptide/beta-2microglob 16.2 46 0.0016 33.0 1.2 33 48-87 105-142 (443)
No 1
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C
Probab=93.72 E-value=0.012 Score=56.98 Aligned_cols=10 Identities=0% Similarity=0.202 Sum_probs=0.0
Q ss_pred CchhHHHHHH
Q 018539 122 QFPFKVLMEQ 131 (354)
Q Consensus 122 ~FlfKL~~E~ 131 (354)
-|=--+++..
T Consensus 317 ~~~~~~~~~~ 326 (358)
T 2pk2_A 317 NYHCQLCFLR 326 (358)
T ss_dssp ----------
T ss_pred ceecHHHhcc
Confidence 3444444443
No 2
>3ng9_A Capsid protein; beta barrel, single-stranded DNA V parvovirus, icosahedral virus; HET: ADE; 2.50A {Adeno-associated virus - 1} PDB: 3kic_A* 3kie_A* 3j1q_A 3oah_A* 1vu0_U 1vu1_o 3tsx_A 3shm_A 1lp3_A 3j1s_A 2qa0_A 3ra2_A 3ra4_A* 3ra8_A* 3ra9_A* 3raa_A* 3ux1_A
Probab=36.80 E-value=11 Score=40.27 Aligned_cols=9 Identities=33% Similarity=0.737 Sum_probs=4.2
Q ss_pred CCCCCCCCC
Q 018539 85 GDGSGGFSG 93 (354)
Q Consensus 85 g~~~gg~~~ 93 (354)
|-+.|+|-+
T Consensus 222 G~stG~W~~ 230 (736)
T 3ng9_A 222 GNASGNWHC 230 (736)
T ss_dssp TSCSCCBCC
T ss_pred ccccccccC
Confidence 444555544
No 3
>3ntt_A Capsid protein; gene therapy vector, cystic fibros sialic acid receptor, icosahedral virus; 3.45A {Adeno-associated virus - 5}
Probab=36.25 E-value=11 Score=40.37 Aligned_cols=8 Identities=25% Similarity=0.543 Sum_probs=3.7
Q ss_pred CCCCCCCC
Q 018539 86 DGSGGFSG 93 (354)
Q Consensus 86 ~~~gg~~~ 93 (354)
-+.|+|-+
T Consensus 213 ~stG~W~~ 220 (724)
T 3ntt_A 213 NASGDWHC 220 (724)
T ss_dssp SCSCCCCC
T ss_pred cccccccC
Confidence 34555543
No 4
>1p4b_L Antibody variable light chain; FV antibody, antigen peptide binder, SCFV, picomolar binder, immune system; 2.35A {Mus musculus} SCOP: b.1.1.1 PDB: 1p4i_L
Probab=34.56 E-value=8.3 Score=31.24 Aligned_cols=7 Identities=14% Similarity=0.012 Sum_probs=3.3
Q ss_pred hhheeee
Q 018539 6 RLRYHLM 12 (354)
Q Consensus 6 ~~~~~~~ 12 (354)
.|.|++.
T Consensus 24 tL~C~~~ 30 (135)
T 1p4b_L 24 TLTCRSS 30 (135)
T ss_dssp EEEEEET
T ss_pred EEEEEec
Confidence 3455543
No 5
>3u6r_H Antibody 1:7 (heavy chain); IG-like domain, neutralizing single chain FV, immune system; 2.67A {Homo sapiens}
Probab=27.75 E-value=13 Score=30.92 Aligned_cols=8 Identities=0% Similarity=0.372 Sum_probs=4.3
Q ss_pred hhheeeee
Q 018539 6 RLRYHLMA 13 (354)
Q Consensus 6 ~~~~~~~~ 13 (354)
.|.|+++.
T Consensus 22 tL~C~~s~ 29 (149)
T 3u6r_H 22 KVSCQVFG 29 (149)
T ss_dssp EEEEEEEE
T ss_pred EEEeEeeC
Confidence 45666543
No 6
>3n44_F E1 envelope glycoprotein; viral protein, immature heterodimer, alphavirus, receptor BI membrane fusion; HET: NAG; 2.35A {Chikungunya virus} PDB: 3n41_F* 3n42_F* 3n43_F* 2xfc_A
Probab=19.99 E-value=22 Score=35.90 Aligned_cols=19 Identities=58% Similarity=1.260 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 018539 72 YGTGHGKGGGGGGGDGSGG 90 (354)
Q Consensus 72 ~g~~gg~~gggggg~~~gg 90 (354)
+|+||.||||.|||++..+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~ 21 (473)
T 3n44_F 3 YGGGGSGGGGSGGGGSGGG 21 (473)
T ss_dssp -------------------
T ss_pred ccCCCCCCCCCCCCCCccc
No 7
>4dpv_Z Protein (parvovirus coat protein); complex (virus/DNA), FULL capsid, single-stranded DNA, icosahedral virus; HET: DNA; 2.90A {Canine parvovirus} SCOP: b.121.5.2 PDB: 1c8h_A* 1c8d_A 1ijs_P* 1fpv_A 2cas_A 1p5w_A* 1p5y_A 1c8e_A 1c8f_A 1c8g_A
Probab=19.26 E-value=35 Score=35.49 Aligned_cols=33 Identities=39% Similarity=0.673 Sum_probs=0.0
Q ss_pred CCCceeeccCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 018539 57 SPPRFELSSTGGGGSYGTGHGKGGGGGGGDGSGGFSGD 94 (354)
Q Consensus 57 ~~~~~~~~~~g~~g~~g~~gg~~gggggg~~~gg~~~d 94 (354)
+.-+.+-+|||.+ |+||+|+||=|-++|.|-.+
T Consensus 16 ~~ar~~~~g~G~~-----g~gg~G~gGVG~STG~W~~g 48 (584)
T 4dpv_Z 16 RNERATGSGNGSG-----GGGGGGSGGVGISTGTFNNQ 48 (584)
T ss_dssp ------CCCCCCC-----CCCEETTEETTBCCCCCCCC
T ss_pred ccchhhccCCCCC-----CCCCCCCCCcccccccccCC
No 8
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Probab=18.41 E-value=63 Score=31.60 Aligned_cols=41 Identities=17% Similarity=0.049 Sum_probs=0.0
Q ss_pred ceecccCCCCceeeccCCCCCCCCCCCCCCCCCCCCCCCCC
Q 018539 50 SILHSKVSPPRFELSSTGGGGSYGTGHGKGGGGGGGDGSGG 90 (354)
Q Consensus 50 ~~~~~~~~~~~~~~~~~g~~g~~g~~gg~~gggggg~~~gg 90 (354)
+.|+-+++.+.-.-+..+..+.+|.||+++||+++++.++|
T Consensus 172 r~i~V~~a~~~~~~~~~~~~~ggG~gg~~~gg~~~~~~~~g 212 (437)
T 3pgw_S 172 RRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIRHSG 212 (437)
T ss_pred EEEEEEEeCCCCCCCCCCCCcCCCCCCCCCCCCcccccccc
No 9
>2i9o_A MHB8A peptide; beta-hairpin, alpha-helix, de novo protein; NMR {Synthetic}
Probab=17.02 E-value=1e+02 Score=20.99 Aligned_cols=20 Identities=50% Similarity=0.762 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 018539 69 GGSYGTGHGKGGGGGGGDGS 88 (354)
Q Consensus 69 ~g~~g~~gg~~gggggg~~~ 88 (354)
+-++-+|=-.-||||||+++
T Consensus 2 gkwtyngityeggggggggs 21 (37)
T 2i9o_A 2 GKWTYNGITYEGGGGGGGGS 21 (37)
T ss_dssp CCCCSSSCCCCCSCCCCSCS
T ss_pred CceeECCEEeecCCCCCcch
No 10
>3nwm_A Peptide/beta-2microglobulin/MHC class I H-2KD CHI protein; peptide-MHC complex, immunoglobulin fold system; 2.70A {Synthetic}
Probab=16.20 E-value=46 Score=32.98 Aligned_cols=33 Identities=30% Similarity=0.708 Sum_probs=0.0
Q ss_pred ccceecccCCCCcee-----eccCCCCCCCCCCCCCCCCCCCCCC
Q 018539 48 SLSILHSKVSPPRFE-----LSSTGGGGSYGTGHGKGGGGGGGDG 87 (354)
Q Consensus 48 ~~~~~~~~~~~~~~~-----~~~~g~~g~~g~~gg~~gggggg~~ 87 (354)
+|+.-|..+..|-+. .++|| .++|||||||-.+
T Consensus 105 tC~V~H~sl~~pl~~~w~~~~~~~~-------~~~~~~~~~~~~~ 142 (443)
T 3nwm_A 105 ACRVKHASMAEPKTVYWDRDMGGGG-------SGGGGSGGGGSGG 142 (443)
T ss_dssp EEEEEETTCSSCEEEECCTTCCC----------------------
T ss_pred EEEEEeCCCCCcEEEEecccccccc-------ccccccCCCcccc
Done!