Query 028035
Match_columns 215
No_of_seqs 109 out of 356
Neff 5.7
Searched_HMMs 29240
Date Mon Mar 25 08:02:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028035.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028035hhsearch_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 66.9 2.6 8.7E-05 33.0 1.9 27 5-38 49-75 (130)
2 3iz6_Q 40S ribosomal protein S 35.4 14 0.00048 29.1 1.4 27 5-38 49-75 (141)
3 3u5c_R RP51A, 40S ribosomal pr 23.4 57 0.002 25.5 3.0 27 5-38 49-75 (136)
4 1v54_B Cytochrome C oxidase po 11.6 1.9E+02 0.0064 23.9 3.6 16 98-113 64-79 (227)
5 2gsm_B Cytochrome C oxidase su 10.8 2.5E+02 0.0084 23.7 4.2 15 99-113 79-93 (262)
6 2fm8_C Cell invasion protein S 8.8 1.3E+02 0.0043 25.3 1.5 14 125-138 219-232 (240)
7 2exn_A Hypothetical protein BO 8.1 96 0.0033 23.4 0.5 11 26-36 9-19 (136)
8 3hb3_B Cytochrome C oxidase su 8.1 3.5E+02 0.012 23.3 4.2 15 99-113 110-124 (298)
9 2fm9_A Cell invasion protein S 7.7 1.1E+02 0.0038 25.3 0.7 13 126-138 194-206 (215)
10 2k37_A Chlorosome protein A; b 7.7 1E+02 0.0035 20.7 0.4 11 122-132 27-37 (59)
No 1
>2xzm_V RPS17E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_V
Probab=66.93 E-value=2.6 Score=33.01 Aligned_cols=27 Identities=48% Similarity=0.596 Sum_probs=21.3
Q ss_pred hhhhhhHHHHHHHHHHHHHhhccccccccchhhH
Q 028035 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (215)
Q Consensus 5 r~~gd~~hl~s~~iLl~Ki~~~kS~~GiSlkTQ~ 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 57777777 3566667789999999997
No 2
>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=35.35 E-value=14 Score=29.14 Aligned_cols=27 Identities=44% Similarity=0.560 Sum_probs=19.4
Q ss_pred hhhhhhHHHHHHHHHHHHHhhccccccccchhhH
Q 028035 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (215)
Q Consensus 5 r~~gd~~hl~s~~iLl~Ki~~~kS~~GiSlkTQ~ 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 456666664 455556678999999996
No 3
>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=23.36 E-value=57 Score=25.49 Aligned_cols=27 Identities=44% Similarity=0.577 Sum_probs=19.6
Q ss_pred hhhhhhHHHHHHHHHHHHHhhccccccccchhhH
Q 028035 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (215)
Q Consensus 5 r~~gd~~hl~s~~iLl~Ki~~~kS~~GiSlkTQ~ 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 456666664 455566679999999997
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=11.63 E-value=1.9e+02 Score=23.95 Aligned_cols=16 Identities=25% Similarity=0.310 Sum_probs=9.6
Q ss_pred hhhHHHHHHHHHhhcC
Q 028035 98 YFLIAACFVLSLILNE 113 (215)
Q Consensus 98 ~~li~p~~vLa~l~~~ 113 (215)
.+-++|+++|..+.-|
T Consensus 64 iWTiiP~iil~~la~p 79 (227)
T 1v54_B 64 IWTILPAIILILIALP 79 (227)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred eeehHHHHHHHHHHHH
Confidence 4566777776655433
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=10.84 E-value=2.5e+02 Score=23.73 Aligned_cols=15 Identities=20% Similarity=0.135 Sum_probs=8.5
Q ss_pred hhHHHHHHHHHhhcC
Q 028035 99 FLIAACFVLSLILNE 113 (215)
Q Consensus 99 ~li~p~~vLa~l~~~ 113 (215)
+-++|+++|..+.-|
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 456666666555433
No 6
>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=8.77 E-value=1.3e+02 Score=25.26 Aligned_cols=14 Identities=29% Similarity=0.475 Sum_probs=11.3
Q ss_pred HHHHHHHHhhhHHH
Q 028035 125 SIYLEAVAILPQLV 138 (215)
Q Consensus 125 Si~LEsvAiLPQL~ 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 34589999999974
No 7
>2exn_A Hypothetical protein BOR11; beta barrel containing fold, autostructure, autoassign, structure, structural genomics, PSI; NMR {Bordetella bronchiseptica} SCOP: b.165.1.1
Probab=8.12 E-value=96 Score=23.37 Aligned_cols=11 Identities=9% Similarity=0.332 Sum_probs=9.2
Q ss_pred ccccccccchh
Q 028035 26 TKSCSGISLKT 36 (215)
Q Consensus 26 ~kS~~GiSlkT 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 48999999887
No 8
>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=8.07 E-value=3.5e+02 Score=23.33 Aligned_cols=15 Identities=13% Similarity=0.175 Sum_probs=7.9
Q ss_pred hhHHHHHHHHHhhcC
Q 028035 99 FLIAACFVLSLILNE 113 (215)
Q Consensus 99 ~li~p~~vLa~l~~~ 113 (215)
+-++|+++|.++.-|
T Consensus 110 WTiiP~iILi~La~p 124 (298)
T 3hb3_B 110 WTLVPVLILVAIGAF 124 (298)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHH
Confidence 445666665554433
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=7.75 E-value=1.1e+02 Score=25.25 Aligned_cols=13 Identities=31% Similarity=0.483 Sum_probs=10.0
Q ss_pred HHHHHHHhhhHHH
Q 028035 126 IYLEAVAILPQLV 138 (215)
Q Consensus 126 i~LEsvAiLPQL~ 138 (215)
==||.+|++|||.
T Consensus 194 R~L~~~av~P~LL 206 (215)
T 2fm9_A 194 RHLEMQTLIPLLL 206 (215)
T ss_dssp -CCHHHHHHHHHH
T ss_pred hhhhHHHHHHHHH
Confidence 3478999999974
No 10
>2k37_A Chlorosome protein A; bacteriochlorophyll, chlorophyll, chromophore, electron transport, magnesium, metal-binding, photosynthesis, transport; NMR {Chlorobium tepidum}
Probab=7.71 E-value=1e+02 Score=20.69 Aligned_cols=11 Identities=0% Similarity=0.226 Sum_probs=9.6
Q ss_pred HHHHHHHHHHH
Q 028035 122 WAFSIYLEAVA 132 (215)
Q Consensus 122 WtfSi~LEsvA 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 69999999886
Done!