Query 028059
Match_columns 214
No_of_seqs 116 out of 357
Neff 5.2
Searched_HMMs 29240
Date Mon Mar 25 08:42:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028059.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028059hhsearch_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 61.6 3.6 0.00012 32.5 1.9 27 49-82 49-75 (130)
2 3u5c_R RP51A, 40S ribosomal pr 23.8 51 0.0018 26.0 2.8 27 49-82 49-75 (136)
3 1v54_B Cytochrome C oxidase po 19.5 80 0.0027 26.4 3.4 38 117-154 42-79 (227)
4 3iz6_Q 40S ribosomal protein S 13.7 65 0.0022 25.6 1.3 27 49-82 49-75 (141)
5 2gsm_B Cytochrome C oxidase su 10.6 1.6E+02 0.0056 25.0 3.0 16 139-154 78-93 (262)
6 2ckc_A Chromodomain-helicase-D 10.0 1.8E+02 0.0063 20.8 2.5 15 6-20 44-58 (80)
7 2fm8_C Cell invasion protein S 8.4 1.3E+02 0.0044 25.5 1.4 14 169-182 219-232 (240)
8 2k37_A Chlorosome protein A; b 8.3 1.3E+02 0.0043 20.5 1.0 11 166-176 27-37 (59)
9 3hb3_B Cytochrome C oxidase su 8.0 2.3E+02 0.0079 24.7 2.9 14 140-153 110-123 (298)
10 2fm9_A Cell invasion protein S 7.9 1.1E+02 0.0039 25.5 0.8 12 171-182 195-206 (215)
No 1
>2xzm_V RPS17E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_V
Probab=61.61 E-value=3.6 Score=32.50 Aligned_cols=27 Identities=37% Similarity=0.476 Sum_probs=21.6
Q ss_pred HHHhhHHHHHHHHHHHHHHhhccccccccchhhH
Q 028059 49 FVAAEAVHSIGISVLIYKLMKEKTCAGLSLKSQE 82 (214)
Q Consensus 49 ~llgdl~hl~s~~iLl~KI~~~kS~~GlSlkTQ~ 82 (214)
+++|...| +.|-.+...+.|||+|.|+
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 45777777 4566677889999999998
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=23.79 E-value=51 Score=26.04 Aligned_cols=27 Identities=30% Similarity=0.370 Sum_probs=19.9
Q ss_pred HHHhhHHHHHHHHHHHHHHhhccccccccchhhH
Q 028059 49 FVAAEAVHSIGISVLIYKLMKEKTCAGLSLKSQE 82 (214)
Q Consensus 49 ~llgdl~hl~s~~iLl~KI~~~kS~~GlSlkTQ~ 82 (214)
+++|...|+ .|-.+.-.+.|||+|.|+
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 446666664 555666779999999998
No 3
>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=19.48 E-value=80 Score=26.41 Aligned_cols=38 Identities=18% Similarity=0.410 Sum_probs=18.6
Q ss_pred HHHHHhcccccccccccccccchhhhHHHHHHHHHhCC
Q 028059 117 VIYMIRFNLRSSYMEDKDNFAIYYVVVPCAVLALLIHP 154 (214)
Q Consensus 117 iiyli~~~~k~Tyd~~~Dtf~~~~liip~~vLali~~p 154 (214)
+++.+..++.+.+..+..+.-..+.++|++++..+.-|
T Consensus 42 l~~~~~~~~~~~~~~~~~~lEiiWTiiP~iil~~la~p 79 (227)
T 1v54_B 42 ISLMLTTKLTHTSTMDAQEVETIWTILPAIILILIALP 79 (227)
T ss_dssp HHHHHSCSCCCCSCCCCTTHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhcccccccccCceeEEeeehHHHHHHHHHHHH
Confidence 33443334333333333333445677777777665433
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=13.72 E-value=65 Score=25.61 Aligned_cols=27 Identities=33% Similarity=0.368 Sum_probs=20.0
Q ss_pred HHHhhHHHHHHHHHHHHHHhhccccccccchhhH
Q 028059 49 FVAAEAVHSIGISVLIYKLMKEKTCAGLSLKSQE 82 (214)
Q Consensus 49 ~llgdl~hl~s~~iLl~KI~~~kS~~GlSlkTQ~ 82 (214)
+++|...|+ .|-.+.-.+.|||+|.|+
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 456666664 455566678999999998
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=10.56 E-value=1.6e+02 Score=25.00 Aligned_cols=16 Identities=19% Similarity=0.308 Sum_probs=9.6
Q ss_pred hhhhHHHHHHHHHhCC
Q 028059 139 YYVVVPCAVLALLIHP 154 (214)
Q Consensus 139 ~~liip~~vLali~~p 154 (214)
.+.++|+++|..+.-|
T Consensus 78 iWTiiP~iILi~la~p 93 (262)
T 2gsm_B 78 AWTIVPIVILVAIGAF 93 (262)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred ehhHHHHHHHHHHHHH
Confidence 3566776666655443
No 6
>2ckc_A Chromodomain-helicase-DNA-binding protein 7; protein-protein interaction, phosphorylation, disease mutation, nucleotide-binding; NMR {Homo sapiens} SCOP: d.76.2.1 PDB: 2v0e_A
Probab=9.95 E-value=1.8e+02 Score=20.84 Aligned_cols=15 Identities=13% Similarity=0.492 Sum_probs=11.7
Q ss_pred ChHHHHHHHHHhCCC
Q 028059 6 RPIHAVSTWVRRQPP 20 (214)
Q Consensus 6 ~~~~~~~~~~~~~~~ 20 (214)
++...+.+|||+|+.
T Consensus 44 P~~KdL~dWLrqhP~ 58 (80)
T 2ckc_A 44 PKNKDLVEWLKLHPT 58 (80)
T ss_dssp CBHHHHHHHHHHCTT
T ss_pred ccccCHHHHHHHCCC
Confidence 355568999999975
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=8.36 E-value=1.3e+02 Score=25.50 Aligned_cols=14 Identities=29% Similarity=0.373 Sum_probs=11.4
Q ss_pred HHHHHHhhhhhHHH
Q 028059 169 CVYLEAVSVLPQLR 182 (214)
Q Consensus 169 SiyLEsvAILPQL~ 182 (214)
+==||.+|++|||.
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 8
>2k37_A Chlorosome protein A; bacteriochlorophyll, chlorophyll, chromophore, electron transport, magnesium, metal-binding, photosynthesis, transport; NMR {Chlorobium tepidum}
Probab=8.29 E-value=1.3e+02 Score=20.55 Aligned_cols=11 Identities=0% Similarity=0.124 Sum_probs=10.0
Q ss_pred HHHHHHHHHhh
Q 028059 166 WAFCVYLEAVS 176 (214)
Q Consensus 166 WtFSiyLEsvA 176 (214)
|++|.++|+++
T Consensus 27 ~~vg~~le~~g 37 (59)
T 2k37_A 27 ETVGMLFDSLG 37 (59)
T ss_dssp HHHHHHTGGGT
T ss_pred HHHHHHHHHHH
Confidence 88999999986
No 9
>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=8.00 E-value=2.3e+02 Score=24.69 Aligned_cols=14 Identities=21% Similarity=0.458 Sum_probs=7.8
Q ss_pred hhhHHHHHHHHHhC
Q 028059 140 YVVVPCAVLALLIH 153 (214)
Q Consensus 140 ~liip~~vLali~~ 153 (214)
+.++|+++|..+.-
T Consensus 110 WTiiP~iILi~La~ 123 (298)
T 3hb3_B 110 WTLVPVLILVAIGA 123 (298)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH
Confidence 55566665555543
No 10
>2fm9_A Cell invasion protein SIPA; type II secretion, virulence, bacterial, C invasion; 2.00A {Salmonella typhimurium} SCOP: a.257.1.1
Probab=7.92 E-value=1.1e+02 Score=25.49 Aligned_cols=12 Identities=33% Similarity=0.476 Sum_probs=10.2
Q ss_pred HHHHhhhhhHHH
Q 028059 171 YLEAVSVLPQLR 182 (214)
Q Consensus 171 yLEsvAILPQL~ 182 (214)
=||.+|++|||.
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
Done!