Query 025888
Match_columns 246
No_of_seqs 158 out of 355
Neff 7.1
Searched_HMMs 29240
Date Mon Mar 25 19:53:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025888.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025888hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2knc_A Integrin alpha-IIB; tra 50.0 49 0.0017 21.3 5.8 13 198-210 5-17 (54)
2 2l8s_A Integrin alpha-1; trans 27.9 1.2E+02 0.0042 19.4 5.4 10 201-210 5-14 (54)
3 2k1a_A Integrin alpha-IIB; sin 14.5 2.1E+02 0.0073 17.2 3.6 13 198-210 3-15 (42)
4 3s8f_C Cytochrome C oxidase po 12.3 2.3E+02 0.008 16.3 3.1 30 1-30 1-30 (34)
5 2jwa_A Receptor tyrosine-prote 7.0 4.7E+02 0.016 15.9 4.3 8 237-244 37-44 (44)
6 3arc_J Photosystem II reaction 4.0 7.4E+02 0.025 14.7 3.6 9 199-207 4-12 (40)
7 3kda_A CFTR inhibitory factor 3.8 4.3E+02 0.015 20.5 1.9 21 224-244 281-301 (301)
8 3jqo_C TRAN protein; helical o 3.4 2.2E+02 0.0075 16.4 -0.1 11 34-44 7-17 (34)
9 1cn3_F Fragment of coat protei 3.4 3.4E+02 0.011 14.6 0.6 10 6-15 16-25 (29)
10 3pp5_A BRK1, protein brick1; t 3.4 3.3E+02 0.011 18.5 0.7 20 34-53 10-30 (73)
No 1
>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=49.97 E-value=49 Score=21.33 Aligned_cols=13 Identities=38% Similarity=0.756 Sum_probs=7.6
Q ss_pred CCCCcchhHHHHH
Q 025888 198 AADNLIPIWAWLS 210 (246)
Q Consensus 198 ~~~~~ip~~~~~~ 210 (246)
+.+..+|.|+-..
T Consensus 5 ~~~~~vp~wiIi~ 17 (54)
T 2knc_A 5 SEERAIPIWWVLV 17 (54)
T ss_dssp CTTTTCCHHHHHH
T ss_pred ccCCCcchHHHHH
Confidence 4455688776443
No 2
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=27.89 E-value=1.2e+02 Score=19.43 Aligned_cols=10 Identities=30% Similarity=0.870 Sum_probs=5.7
Q ss_pred CcchhHHHHH
Q 025888 201 NLIPIWAWLS 210 (246)
Q Consensus 201 ~~ip~~~~~~ 210 (246)
..+|.|+-..
T Consensus 5 ~~vp~WiIi~ 14 (54)
T 2l8s_A 5 GRVPLWVILL 14 (54)
T ss_dssp CCCCTHHHHH
T ss_pred ccCchHHHHH
Confidence 3578766433
No 3
>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=14.49 E-value=2.1e+02 Score=17.22 Aligned_cols=13 Identities=38% Similarity=0.698 Sum_probs=7.7
Q ss_pred CCCCcchhHHHHH
Q 025888 198 AADNLIPIWAWLS 210 (246)
Q Consensus 198 ~~~~~ip~~~~~~ 210 (246)
+.+..+|.|+-..
T Consensus 3 ~~~~~vp~wiIi~ 15 (42)
T 2k1a_A 3 LEERAIPIWWVLV 15 (42)
T ss_dssp SSCCCCCHHHHHH
T ss_pred CCcCCcchHHHHH
Confidence 4455788776433
No 4
>3s8f_C Cytochrome C oxidase polypeptide 2A; complex IV, respiratory chain, lipid cubic phase, monoolein, peroxide, electron transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus thermophilus} PDB: 2qpd_C* 2qpe_C* 3bvd_C* 3qjq_C* 3qjr_C* 3qjs_C* 3qjt_C* 3qju_C* 3qjv_C* 1xme_C* 3s8g_C* 4esl_C* 4ev3_C* 4f05_C* 4fa7_C* 4faa_C* 1ehk_C* 3eh3_C* 3eh4_C* 3eh5_C* ...
Probab=12.31 E-value=2.3e+02 Score=16.33 Aligned_cols=30 Identities=13% Similarity=0.284 Sum_probs=18.4
Q ss_pred CCcccccchhHHHHHHHHHHHHHHHHHHHH
Q 025888 1 MDPFRSNSLNFSTFFLMFYALYVFAYFVVF 30 (246)
Q Consensus 1 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 30 (246)
|+|--.-+|.....+..+..+.|.+-|.+|
T Consensus 1 ~E~~l~GTl~~V~ilg~~I~i~W~~vf~lF 30 (34)
T 3s8f_C 1 MEEKPKGALAVILVLTLTILVFWLGVYAVF 30 (34)
T ss_dssp ---CCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCccceehHHHHHHHHHHHHHHHHHeee
Confidence 345555567777677777777787766554
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=6.98 E-value=4.7e+02 Score=15.87 Aligned_cols=8 Identities=13% Similarity=-0.151 Sum_probs=3.4
Q ss_pred cCCccCcC
Q 025888 237 LGYSAGKK 244 (246)
Q Consensus 237 ~~~~~~~~ 244 (246)
|++.++||
T Consensus 37 RR~~~~kK 44 (44)
T 2jwa_A 37 RRQQKIRK 44 (44)
T ss_dssp HHCSCCCC
T ss_pred hhhhhccC
Confidence 33333554
No 6
>3arc_J Photosystem II reaction center protein J; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_J* 3a0b_J* 3a0h_J* 2axt_J* 3bz1_J* 3bz2_J* 3kzi_J* 3prq_J* 3prr_J*
Probab=4.02 E-value=7.4e+02 Score=14.68 Aligned_cols=9 Identities=33% Similarity=0.966 Sum_probs=6.4
Q ss_pred CCCcchhHH
Q 025888 199 ADNLIPIWA 207 (246)
Q Consensus 199 ~~~~ip~~~ 207 (246)
..+++|.|+
T Consensus 4 ~tGRiPLWl 12 (40)
T 3arc_J 4 EGGRIPLWI 12 (40)
T ss_dssp CTTSSCHHH
T ss_pred CcCcccEEe
Confidence 347999765
No 7
>3kda_A CFTR inhibitory factor (CIF); alpha/beta hydrolase, hydrolase; 1.50A {Pseudomonas aeruginosa ucbpp-pa14} PDB: 3kd2_A 3pi6_A
Probab=3.80 E-value=4.3e+02 Score=20.49 Aligned_cols=21 Identities=5% Similarity=-0.225 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHhhcCCccCcC
Q 025888 224 LWVLSNWIGWYRNLGYSAGKK 244 (246)
Q Consensus 224 ~Wf~ki~~g~~k~~~~~~~~~ 244 (246)
=-+.+..+.++|+.+++.+||
T Consensus 281 ~~~~~~i~~~l~~~~~~~~~~ 301 (301)
T 3kda_A 281 APMNRLVIDFLSRGRHHHHHH 301 (301)
T ss_dssp HHHHHHHHHHHTTSCCCC---
T ss_pred HHHHHHHHHHHhhCchhhccC
Confidence 456778888888877776665
No 8
>3jqo_C TRAN protein; helical outer membrane TM, outer membrane protein complex, plasmid, transport protein; HET: LDA; 2.60A {Escherichia coli} PDB: 2ofq_B
Probab=3.45 E-value=2.2e+02 Score=16.37 Aligned_cols=11 Identities=18% Similarity=0.256 Sum_probs=7.0
Q ss_pred CccccCchhHH
Q 025888 34 PKHRAEASSCF 44 (246)
Q Consensus 34 ~~~~~ew~nr~ 44 (246)
+++..||+||+
T Consensus 7 p~pepd~~n~V 17 (34)
T 3jqo_C 7 PPPEPDWSNTV 17 (34)
T ss_dssp CCCCCCCSSEE
T ss_pred CCCCCcccccc
Confidence 46667776663
No 9
>1cn3_F Fragment of coat protein VP2; viral coat protein VP1, viral coat protein VP2, viral entry, viral protein; 2.20A {Polyomavirus}
Probab=3.43 E-value=3.4e+02 Score=14.59 Aligned_cols=10 Identities=0% Similarity=0.079 Sum_probs=7.2
Q ss_pred ccchhHHHHH
Q 025888 6 SNSLNFSTFF 15 (246)
Q Consensus 6 ~~~~~~~~~~ 15 (246)
++.|.+|.-+
T Consensus 16 tpdwmlplil 25 (29)
T 1cn3_F 16 TPDWMLPLIL 25 (29)
T ss_dssp EEGGGHHHHH
T ss_pred CchhhHHHHH
Confidence 5789999544
No 10
>3pp5_A BRK1, protein brick1; triple coiled-coil, precursor of the SCAR-WAVE complex, ABI, structural protein; 1.50A {Dictyostelium discoideum}
Probab=3.39 E-value=3.3e+02 Score=18.45 Aligned_cols=20 Identities=10% Similarity=-0.054 Sum_probs=12.6
Q ss_pred CccccCchhH-HHHHhhHHHH
Q 025888 34 PKHRAEASSC-FISLAHGTPA 53 (246)
Q Consensus 34 ~~~~~ew~nr-~vS~~Ha~v~ 53 (246)
..-|.||.|| .++.+..-+.
T Consensus 10 ~~iq~DW~nRe~ie~is~~I~ 30 (73)
T 3pp5_A 10 TNIQKDWEQREFIEDMSINIQ 30 (73)
T ss_dssp CHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHHHHHHHHHHHHH
Confidence 3457789998 6666654433
Done!