Query 028001
Match_columns 215
No_of_seqs 107 out of 361
Neff 5.8
Searched_HMMs 29240
Date Mon Mar 25 07:07:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028001.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028001hhsearch_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 70.6 2.1 7.3E-05 33.4 2.2 27 5-38 49-75 (130)
2 3u5c_R RP51A, 40S ribosomal pr 23.5 56 0.0019 25.5 3.0 27 5-38 49-75 (136)
3 2gsm_B Cytochrome C oxidase su 16.5 1.3E+02 0.0045 25.4 4.1 15 98-112 78-92 (262)
4 3iz6_Q 40S ribosomal protein S 16.4 70 0.0024 25.1 2.1 27 5-38 49-75 (141)
5 3hb3_B Cytochrome C oxidase su 11.2 2.4E+02 0.0082 24.4 4.3 14 99-112 110-123 (298)
6 1v54_B Cytochrome C oxidase po 10.2 2.7E+02 0.0091 23.0 4.1 19 94-112 60-78 (227)
7 2fm8_C Cell invasion protein S 10.0 1.1E+02 0.0036 25.7 1.5 14 125-138 219-232 (240)
8 2fm9_A Cell invasion protein S 8.9 93 0.0032 25.7 0.7 12 127-138 195-206 (215)
9 2exn_A Hypothetical protein BO 8.2 92 0.0031 23.5 0.4 11 26-36 9-19 (136)
10 2k37_A Chlorosome protein A; b 7.9 1E+02 0.0035 20.6 0.4 11 122-132 27-37 (59)
No 1
>2xzm_V RPS17E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_V
Probab=70.59 E-value=2.1 Score=33.40 Aligned_cols=27 Identities=48% Similarity=0.570 Sum_probs=21.0
Q ss_pred hhhhhHHHHHHHHHHHHHHhhcccccccccchhH
Q 028001 5 RLAGDMTHLASVLVLLLKIHTIKSCAGISLKTQE 38 (215)
Q Consensus 5 r~~gd~~hl~s~~iLl~Ki~~~kS~~GlSlkTQ~ 38 (215)
|++|...| +.|-.+...+.|||+|.|+
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 57788887 4455666788999999997
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=23.47 E-value=56 Score=25.48 Aligned_cols=27 Identities=44% Similarity=0.551 Sum_probs=19.3
Q ss_pred hhhhhHHHHHHHHHHHHHHhhcccccccccchhH
Q 028001 5 RLAGDMTHLASVLVLLLKIHTIKSCAGISLKTQE 38 (215)
Q Consensus 5 r~~gd~~hl~s~~iLl~Ki~~~kS~~GlSlkTQ~ 38 (215)
|++|...|+ .|-.+...+.|||+|.|+
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 566666664 344555668999999997
No 3
>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=16.46 E-value=1.3e+02 Score=25.42 Aligned_cols=15 Identities=13% Similarity=0.370 Sum_probs=9.3
Q ss_pred HHhHHHHhhhhhhcc
Q 028001 98 WFIVLPCLVLALLIN 112 (215)
Q Consensus 98 ~~liip~~vla~l~~ 112 (215)
.+.++|+++|.++.-
T Consensus 78 iWTiiP~iILi~la~ 92 (262)
T 2gsm_B 78 AWTIVPIVILVAIGA 92 (262)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred ehhHHHHHHHHHHHH
Confidence 355777777665543
No 4
>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=16.37 E-value=70 Score=25.07 Aligned_cols=27 Identities=44% Similarity=0.533 Sum_probs=19.1
Q ss_pred hhhhhHHHHHHHHHHHHHHhhcccccccccchhH
Q 028001 5 RLAGDMTHLASVLVLLLKIHTIKSCAGISLKTQE 38 (215)
Q Consensus 5 r~~gd~~hl~s~~iLl~Ki~~~kS~~GlSlkTQ~ 38 (215)
|++|...|+ .|-.+.-.+.|||+|.|+
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 566666664 344455568999999996
No 5
>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=11.18 E-value=2.4e+02 Score=24.42 Aligned_cols=14 Identities=21% Similarity=0.529 Sum_probs=8.4
Q ss_pred HhHHHHhhhhhhcc
Q 028001 99 FIVLPCLVLALLIN 112 (215)
Q Consensus 99 ~liip~~vla~l~~ 112 (215)
+-++|++++.++.-
T Consensus 110 WTiiP~iILi~La~ 123 (298)
T 3hb3_B 110 WTLVPVLILVAIGA 123 (298)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH
Confidence 55667766665533
No 6
>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=10.24 E-value=2.7e+02 Score=22.96 Aligned_cols=19 Identities=21% Similarity=0.502 Sum_probs=11.5
Q ss_pred cchhHHhHHHHhhhhhhcc
Q 028001 94 TFRHWFIVLPCLVLALLIN 112 (215)
Q Consensus 94 ~f~~~~liip~~vla~l~~ 112 (215)
+.-..+-++|++++..+.-
T Consensus 60 ~lEiiWTiiP~iil~~la~ 78 (227)
T 1v54_B 60 EVETIWTILPAIILILIAL 78 (227)
T ss_dssp THHHHHHHHHHHHHHHHHH
T ss_pred eeEEeeehHHHHHHHHHHH
Confidence 3334466788877766533
No 7
>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=10.00 E-value=1.1e+02 Score=25.69 Aligned_cols=14 Identities=29% Similarity=0.479 Sum_probs=11.3
Q ss_pred HHHHHHHHhhhHHH
Q 028001 125 SLYLEAVAILPQLV 138 (215)
Q Consensus 125 SiyLEsvAILPQL~ 138 (215)
+==||.+|++|||.
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 34589999999984
No 8
>2fm9_A Cell invasion protein SIPA; type II secretion, virulence, bacterial, C invasion; 2.00A {Salmonella typhimurium} SCOP: a.257.1.1
Probab=8.87 E-value=93 Score=25.69 Aligned_cols=12 Identities=33% Similarity=0.589 Sum_probs=10.1
Q ss_pred HHHHHHhhhHHH
Q 028001 127 YLEAVAILPQLV 138 (215)
Q Consensus 127 yLEsvAILPQL~ 138 (215)
=||.+|++|||.
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 478999999984
No 9
>2exn_A Hypothetical protein BOR11; beta barrel containing fold, autostructure, autoassign, structure, structural genomics, PSI; NMR {Bordetella bronchiseptica} SCOP: b.165.1.1
Probab=8.24 E-value=92 Score=23.47 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=9.3
Q ss_pred cccccccccch
Q 028001 26 IKSCAGISLKT 36 (215)
Q Consensus 26 ~kS~~GlSlkT 36 (215)
=|||.|++++.
T Consensus 9 IKSc~g~~l~~ 19 (136)
T 2exn_A 9 IAECGATTQSE 19 (136)
T ss_dssp ETTTEEECCGG
T ss_pred cccCCceecCc
Confidence 48999999986
No 10
>2k37_A Chlorosome protein A; bacteriochlorophyll, chlorophyll, chromophore, electron transport, magnesium, metal-binding, photosynthesis, transport; NMR {Chlorobium tepidum}
Probab=7.85 E-value=1e+02 Score=20.61 Aligned_cols=11 Identities=9% Similarity=0.293 Sum_probs=9.7
Q ss_pred HHHHHHHHHHH
Q 028001 122 WTFSLYLEAVA 132 (215)
Q Consensus 122 WtFSiyLEsvA 132 (215)
|++|.++|+++
T Consensus 27 ~~vg~~le~~g 37 (59)
T 2k37_A 27 ETVGMLFDSLG 37 (59)
T ss_dssp HHHHHHTGGGT
T ss_pred HHHHHHHHHHH
Confidence 69999999986
Done!