Query 028278
Match_columns 211
No_of_seqs 107 out of 353
Neff 4.9
Searched_HMMs 29240
Date Mon Mar 25 14:43:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028278.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028278hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2xzm_V RPS17E; ribosome, trans 66.3 2.4 8.3E-05 33.6 1.7 27 5-38 49-75 (130)
2 3u5c_R RP51A, 40S ribosomal pr 49.6 10 0.00034 30.2 2.7 27 5-38 49-75 (136)
3 3iz6_Q 40S ribosomal protein S 36.5 12 0.0004 30.1 1.1 27 5-38 49-75 (141)
4 1v54_B Cytochrome C oxidase po 13.5 1.6E+02 0.0055 24.5 3.8 17 97-113 63-79 (227)
5 2gsm_B Cytochrome C oxidase su 13.3 1.9E+02 0.0066 24.6 4.3 15 99-113 79-93 (262)
6 4g3o_A E3 ubiquitin-protein li 11.6 42 0.0014 22.9 -0.4 23 132-154 26-54 (58)
7 3hb3_B Cytochrome C oxidase su 9.9 2.8E+02 0.0096 24.2 4.3 14 99-112 110-123 (298)
8 2fm8_C Cell invasion protein S 8.4 1.4E+02 0.0047 25.5 1.5 14 125-138 219-232 (240)
9 2fm9_A Cell invasion protein S 7.9 1.2E+02 0.0041 25.5 1.0 12 127-138 195-206 (215)
10 2lx0_A Membrane fusion protein 7.8 3.7E+02 0.013 15.8 2.8 17 159-175 15-31 (32)
No 1
>2xzm_V RPS17E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_V
Probab=66.26 E-value=2.4 Score=33.61 Aligned_cols=27 Identities=48% Similarity=0.596 Sum_probs=21.5
Q ss_pred hhhhhhHHHHHHHHHHHHHHhhcccccccchhhH
Q 028278 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (211)
Q Consensus 5 r~~gd~~Hl~s~~lLl~Ki~~~KS~sGlSlKTQ~ 38 (211)
|++|...| +.|-.+...+.|||+|.|+
T Consensus 49 kIAGYVTh-------lmkriq~gpvrgis~klqE 75 (130)
T 2xzm_V 49 KIAGFATH-------LMKRIQKGPVRGISLKVQE 75 (130)
T ss_dssp HHHHHHHH-------HHHHTTTSCCTTCCCTTTT
T ss_pred cccchhhh-------HhhhcccCcccccccchhH
Confidence 57787777 3566677889999999996
No 2
>3u5c_R RP51A, 40S ribosomal protein S17-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_Q 3o30_K 3o2z_K 3u5g_R
Probab=49.62 E-value=10 Score=30.24 Aligned_cols=27 Identities=44% Similarity=0.577 Sum_probs=20.0
Q ss_pred hhhhhhHHHHHHHHHHHHHHhhcccccccchhhH
Q 028278 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (211)
Q Consensus 5 r~~gd~~Hl~s~~lLl~Ki~~~KS~sGlSlKTQ~ 38 (211)
|++|...|+ .|-.+.-.+.|||+|.|+
T Consensus 49 kIAGYVThL-------mKriq~GpvrgisiklqE 75 (136)
T 3u5c_R 49 KIAGYTTHL-------MKRIQKGPVRGISFKLQE 75 (136)
T ss_dssp HHHHHHHHH-------HHHHTTSCBTTBCCSHHH
T ss_pred ehhhhhhhh-------hcccccCCcccceeehhH
Confidence 456666664 456666789999999997
No 3
>3iz6_Q 40S ribosomal protein S17 (S17E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=36.51 E-value=12 Score=30.05 Aligned_cols=27 Identities=44% Similarity=0.560 Sum_probs=19.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHhhcccccccchhhH
Q 028278 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (211)
Q Consensus 5 r~~gd~~Hl~s~~lLl~Ki~~~KS~sGlSlKTQ~ 38 (211)
|++|...|+ .|-.+.-.+.|||+|.|+
T Consensus 49 kIAGYVThl-------mKriq~GpvrgisiklqE 75 (141)
T 3iz6_Q 49 KVAGFTTHL-------MRRIQRGPVRGISLKLQE 75 (141)
T ss_dssp HHHHHHHHH-------HHHHCSCCCCCSSCCSSC
T ss_pred hhhheeeeh-------hhccccCCccccceehhH
Confidence 466666665 455666678999999986
No 4
>1v54_B Cytochrome C oxidase polypeptide II; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: b.6.1.2 f.17.2.1 PDB: 1oco_B* 1occ_B* 1ocz_B* 1ocr_B* 1v55_B* 2dyr_B* 2dys_B* 2eij_B* 2eik_B* 2eil_B* 2eim_B* 2ein_B* 2occ_B* 2y69_B* 2ybb_M* 2zxw_B* 3abk_B* 3abl_B* 3abm_B* 3ag1_B* ...
Probab=13.54 E-value=1.6e+02 Score=24.54 Aligned_cols=17 Identities=24% Similarity=0.286 Sum_probs=10.0
Q ss_pred chhhhHHHHHHHHHhcC
Q 028278 97 HYFLIAACFVLSLILNE 113 (211)
Q Consensus 97 ~~~liip~~vLall~~~ 113 (211)
..+.++|++++..+.-|
T Consensus 63 iiWTiiP~iil~~la~p 79 (227)
T 1v54_B 63 TIWTILPAIILILIALP 79 (227)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred EeeehHHHHHHHHHHHH
Confidence 34666777766655433
No 5
>2gsm_B Cytochrome C oxidase subunit 2; transmembrane protein complex, oxidoreductase; HET: DMU HEA TRD; 2.00A {Rhodobacter sphaeroides} SCOP: b.6.1.2 f.17.2.1 PDB: 3dtu_B* 3fye_B* 3fyi_B* 3omi_B* 3om3_B* 3oma_B* 3omn_B* 1m56_B* 1m57_B*
Probab=13.30 E-value=1.9e+02 Score=24.57 Aligned_cols=15 Identities=20% Similarity=0.135 Sum_probs=8.4
Q ss_pred hhhHHHHHHHHHhcC
Q 028278 99 FLIAACFVLSLILNE 113 (211)
Q Consensus 99 ~liip~~vLall~~~ 113 (211)
+.++|.++|.++.-|
T Consensus 79 WTiiP~iILi~la~p 93 (262)
T 2gsm_B 79 WTIVPIVILVAIGAF 93 (262)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHH
Confidence 556666666555433
No 6
>4g3o_A E3 ubiquitin-protein ligase AMFR; all-helical structure, BAG6; 1.60A {Homo sapiens}
Probab=11.64 E-value=42 Score=22.95 Aligned_cols=23 Identities=26% Similarity=0.394 Sum_probs=16.7
Q ss_pred HHHHHHHH------HHhcCCccchHHHHH
Q 028278 132 AILPQLVL------LQRSGNVDNLTGQYV 154 (211)
Q Consensus 132 AILPQL~m------lqk~g~vE~lTshYv 154 (211)
.+.||+.. ++|+|.||.-+.+++
T Consensus 26 ~mFPqv~~~~I~~DL~rTgSVe~TienIL 54 (58)
T 4g3o_A 26 EMFPQVPYHLVLQDLQLTRSVEITTDNIL 54 (58)
T ss_dssp HHCTTSCHHHHHHHHHHHCCHHHHHHHHH
T ss_pred HHcCCCCHHHHHHHHHHhCCHHHHHHHHH
Confidence 45677644 678999998887764
No 7
>3hb3_B Cytochrome C oxidase subunit 2; electron transfer, proton transfer, proton pumping, membrane protein, cell inner membrane, cell membrane, copper; HET: HEA LDA LMT; 2.25A {Paracoccus denitrificans} PDB: 1ar1_B* 3ehb_B* 1qle_B*
Probab=9.91 E-value=2.8e+02 Score=24.18 Aligned_cols=14 Identities=14% Similarity=0.280 Sum_probs=7.2
Q ss_pred hhhHHHHHHHHHhc
Q 028278 99 FLIAACFVLSLILN 112 (211)
Q Consensus 99 ~liip~~vLall~~ 112 (211)
+.++|.+++.++.-
T Consensus 110 WTiiP~iILi~La~ 123 (298)
T 3hb3_B 110 WTLVPVLILVAIGA 123 (298)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH
Confidence 45555555554433
No 8
>2fm8_C Cell invasion protein SIPA; type III secretion, chaperone, translocation, protein foldin virulence, bacterial, chaperone-cell invasion C; 2.20A {Salmonella typhimurium} SCOP: a.257.1.1
Probab=8.36 E-value=1.4e+02 Score=25.46 Aligned_cols=14 Identities=29% Similarity=0.475 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHH
Q 028278 125 SIYLEAVAILPQLV 138 (211)
Q Consensus 125 SiyLEsvAILPQL~ 138 (211)
+==||.+|++|||.
T Consensus 219 aR~Le~~AviP~LL 232 (240)
T 2fm8_C 219 ARHLEMQTLIPLLL 232 (240)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hhhhhHHHHHHHHH
Confidence 34589999999985
No 9
>2fm9_A Cell invasion protein SIPA; type II secretion, virulence, bacterial, C invasion; 2.00A {Salmonella typhimurium} SCOP: a.257.1.1
Probab=7.91 E-value=1.2e+02 Score=25.45 Aligned_cols=12 Identities=33% Similarity=0.589 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHH
Q 028278 127 YLEAVAILPQLV 138 (211)
Q Consensus 127 yLEsvAILPQL~ 138 (211)
=||.+|++|||.
T Consensus 195 ~L~~~av~P~LL 206 (215)
T 2fm9_A 195 HLEMQTLIPLLL 206 (215)
T ss_dssp CCHHHHHHHHHH
T ss_pred hhhHHHHHHHHH
Confidence 478999999985
No 10
>2lx0_A Membrane fusion protein P14; membrane fusion protein transmembrane domain, P14 fast prote ARCH, micelle-peptide complex, membrane protein; NMR {Synthetic}
Probab=7.84 E-value=3.7e+02 Score=15.83 Aligned_cols=17 Identities=12% Similarity=0.514 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHhcC
Q 028278 159 AYRAFYILNWIYRYITE 175 (211)
Q Consensus 159 ~yR~lyl~~Wi~ry~~~ 175 (211)
+--++.+-+|..+|.+.
T Consensus 15 lltflafgfwlfkylqk 31 (32)
T 2lx0_A 15 LLTFLAFGFWLFKYLQK 31 (32)
T ss_dssp HHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 34567788999999753
Done!