Query 020208
Match_columns 329
No_of_seqs 121 out of 1154
Neff 7.2
Searched_HMMs 29240
Date Mon Mar 25 13:26:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020208.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020208hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2k1a_A Integrin alpha-IIB; sin 54.5 23 0.00077 22.7 4.5 20 3-22 4-23 (42)
2 2l8s_A Integrin alpha-1; trans 45.8 29 0.00099 23.5 4.1 22 1-22 1-22 (54)
3 2knc_A Integrin alpha-IIB; tra 30.9 65 0.0022 21.7 4.0 19 4-22 7-25 (54)
4 3s0x_A Peptidase A24B, FLAK do 24.3 1.4E+02 0.0049 26.2 6.2 23 3-25 27-49 (237)
5 2jwa_A Receptor tyrosine-prote 22.9 55 0.0019 21.1 2.4 18 248-265 24-41 (44)
6 2l2t_A Receptor tyrosine-prote 18.2 95 0.0033 20.0 2.8 16 250-265 25-40 (44)
7 2ks1_B Epidermal growth factor 18.1 94 0.0032 20.0 2.7 16 250-265 26-41 (44)
8 1waz_A MERF; protein structure 16.0 1.3E+02 0.0046 19.4 3.0 16 248-263 29-44 (46)
9 1v54_K IHQ, cytochrome C oxida 15.6 1.9E+02 0.0067 19.4 3.8 35 260-297 3-37 (56)
10 1iij_A ERBB-2 receptor protein 15.3 29 0.00099 21.4 -0.3 16 248-263 20-35 (35)
No 1
>2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A
Probab=54.55 E-value=23 Score=22.74 Aligned_cols=20 Identities=25% Similarity=0.680 Sum_probs=12.9
Q ss_pred CCCCCchHHHHHHHHHHHHH
Q 020208 3 RYEDIPHWWFYLMLVVTLVV 22 (329)
Q Consensus 3 ~y~~vP~ww~~~~~v~~~~~ 22 (329)
.+.++|.|.++.+.+..+.+
T Consensus 4 ~~~~vp~wiIi~s~l~GLll 23 (42)
T 2k1a_A 4 EERAIPIWWVLVGVLGGLLL 23 (42)
T ss_dssp SCCCCCHHHHHHHHHHHHHH
T ss_pred CcCCcchHHHHHHHHHHHHH
Confidence 45678888776666655544
No 2
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=45.77 E-value=29 Score=23.50 Aligned_cols=22 Identities=23% Similarity=0.401 Sum_probs=14.1
Q ss_pred CCCCCCCchHHHHHHHHHHHHH
Q 020208 1 MRRYEDIPHWWFYLMLVVTLVV 22 (329)
Q Consensus 1 m~~y~~vP~ww~~~~~v~~~~~ 22 (329)
|-.+.++|.|.++.+.+..+.+
T Consensus 1 ~~~~~~vp~WiIi~svl~GLLL 22 (54)
T 2l8s_A 1 MGLPGRVPLWVILLSAFAGLLL 22 (54)
T ss_dssp CCCCCCCCTHHHHHHHHHHHHH
T ss_pred CCCCccCchHHHHHHHHHHHHH
Confidence 4456678888776666555544
No 3
>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=30.95 E-value=65 Score=21.75 Aligned_cols=19 Identities=26% Similarity=0.709 Sum_probs=11.0
Q ss_pred CCCCchHHHHHHHHHHHHH
Q 020208 4 YEDIPHWWFYLMLVVTLVV 22 (329)
Q Consensus 4 y~~vP~ww~~~~~v~~~~~ 22 (329)
..++|.|.++.+.+..+.+
T Consensus 7 ~~~vp~wiIi~svl~GLll 25 (54)
T 2knc_A 7 ERAIPIWWVLVGVLGGLLL 25 (54)
T ss_dssp TTTCCHHHHHHHHHHHHHH
T ss_pred CCCcchHHHHHHHHHHHHH
Confidence 4457777666555544443
No 4
>3s0x_A Peptidase A24B, FLAK domain protein; preflagellin peptidase, GXGD protease, aspartyl protease, intramembrane proteolysis; 3.60A {Methanococcus maripaludis}
Probab=24.29 E-value=1.4e+02 Score=26.17 Aligned_cols=23 Identities=13% Similarity=0.400 Sum_probs=16.6
Q ss_pred CCCCCchHHHHHHHHHHHHHHHH
Q 020208 3 RYEDIPHWWFYLMLVVTLVVSLV 25 (329)
Q Consensus 3 ~y~~vP~ww~~~~~v~~~~~~~~ 25 (329)
|++++|+|.+...++.++.+++.
T Consensus 27 k~R~IpN~l~~~ll~~gi~l~~~ 49 (237)
T 3s0x_A 27 RSREIEDYIWIFLAVFGVLFAIY 49 (237)
T ss_dssp ---CTHHHHHHHHHHHHHHHHHH
T ss_pred hhcEeCchhHHHHHHHHHHHHHH
Confidence 68999999999988888877553
No 5
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=22.87 E-value=55 Score=21.13 Aligned_cols=18 Identities=22% Similarity=0.622 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHhcChh
Q 020208 248 WIIVGTIFNFFIFRYRKQ 265 (329)
Q Consensus 248 ~~~vG~~~~~~~rr~~~~ 265 (329)
.++++..+..|+|||+.+
T Consensus 24 ~vi~~l~~~~~~RRR~~~ 41 (44)
T 2jwa_A 24 VVVLGVVFGILIKRRQQK 41 (44)
T ss_dssp HHHHHHHHHHHHHHHCSC
T ss_pred HHHHHHHHHhheehhhhh
Confidence 566777777889998754
No 6
>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}
Probab=18.23 E-value=95 Score=19.98 Aligned_cols=16 Identities=31% Similarity=0.536 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHhcChh
Q 020208 250 IVGTIFNFFIFRYRKQ 265 (329)
Q Consensus 250 ~vG~~~~~~~rr~~~~ 265 (329)
+++....+|+|||+.+
T Consensus 25 ii~~~~~~~~RRRr~~ 40 (44)
T 2l2t_A 25 IVGLTFAVYVRRKSIK 40 (44)
T ss_dssp HHHHHHHHHHHTTCSS
T ss_pred HHHHHHHHHhhhhhhh
Confidence 4445556788887654
No 7
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=18.08 E-value=94 Score=19.97 Aligned_cols=16 Identities=19% Similarity=0.227 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHhcChh
Q 020208 250 IVGTIFNFFIFRYRKQ 265 (329)
Q Consensus 250 ~vG~~~~~~~rr~~~~ 265 (329)
+++....+|+|||+.+
T Consensus 26 ii~~~~~~~~RRr~~~ 41 (44)
T 2ks1_B 26 VVALGIGLFMRRRHIV 41 (44)
T ss_dssp HHHHHHHHHHHTTTCC
T ss_pred HHHHHHHHHhhhhHhh
Confidence 4445556788887654
No 8
>1waz_A MERF; protein structure, residual dipolar coupling, polytopic membrane protein, transport protein, antibiotic resistance; NMR {Morganella morganii}
Probab=16.03 E-value=1.3e+02 Score=19.40 Aligned_cols=16 Identities=13% Similarity=0.102 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHhcC
Q 020208 248 WIIVGTIFNFFIFRYR 263 (329)
Q Consensus 248 ~~~vG~~~~~~~rr~~ 263 (329)
.+++|..+..+|||++
T Consensus 29 a~Fi~lt~ya~~r~~~ 44 (46)
T 1waz_A 29 AIFIGLTIYAIQRKRQ 44 (46)
T ss_dssp HHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHc
Confidence 6778888888888875
No 9
>1v54_K IHQ, cytochrome C oxidase polypeptide VIIB; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.5.1 PDB: 1oco_K* 1occ_K* 1ocz_K* 1ocr_K* 1v55_K* 2dyr_K* 2dys_K* 2eij_K* 2eik_K* 2eil_K* 2eim_K* 2ein_K* 2occ_K* 2ybb_V* 2zxw_K* 3abk_K* 3abl_K* 3abm_K* 3ag1_K* 3ag2_K* ...
Probab=15.60 E-value=1.9e+02 Score=19.36 Aligned_cols=35 Identities=9% Similarity=0.285 Sum_probs=19.4
Q ss_pred HhcChhhhhhhhhhhhhhhHhhHHHHHHHHHHHHhcCC
Q 020208 260 FRYRKQWWQRYNYILSAAMDAGVAFMAVILYFSVGMED 297 (329)
Q Consensus 260 rr~~~~w~~ky~~~laagL~aG~~i~~vi~~fa~~~~g 297 (329)
+|+.|...+||...+ |.+|......+-.+.+.-.|
T Consensus 3 ~k~~p~FHdKYGn~~---L~~Ga~FC~a~W~y~~TQ~G 37 (56)
T 1v54_K 3 QKRAPDFHDKYGNAV---LASGATFCVAVWVYMATQIG 37 (56)
T ss_dssp ---CCCHHHHHHHHH---HHHHHHHHHHHHHHHHHHSC
T ss_pred cccCcchhhhcCcee---eecchhhhHhhHhhhheeec
Confidence 456677889997543 44555665555555554434
No 10
>1iij_A ERBB-2 receptor protein-tyrosine kinase; alpha-helix-PI-bulge-alpha-helix, signaling protein; NMR {Synthetic} SCOP: j.35.1.1
Probab=15.27 E-value=29 Score=21.35 Aligned_cols=16 Identities=25% Similarity=0.497 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHhcC
Q 020208 248 WIIVGTIFNFFIFRYR 263 (329)
Q Consensus 248 ~~~vG~~~~~~~rr~~ 263 (329)
.++++..+..|+||||
T Consensus 20 ~vii~l~~~~~iRRr~ 35 (35)
T 1iij_A 20 FLILVVVVGILIKRRR 35 (35)
T ss_dssp HHHHTTTTTHHHHHCC
T ss_pred HHHHHHHhheEEeecC
Confidence 4555666667888875
Done!