Query 028301
Match_columns 211
No_of_seqs 112 out of 360
Neff 5.1
Searched_HMMs 29240
Date Mon Mar 25 15:21:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028301.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028301hhsearch_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 57.0 5.3 0.00018 31.5 2.1 27 49-82 49-75 (130)
2 1v54_B Cytochrome C oxidase po 20.0 81 0.0028 26.3 3.5 38 118-155 43-80 (227)
3 3u5c_R RP51A, 40S ribosomal pr 20.0 69 0.0024 25.3 2.8 27 49-82 49-75 (136)
4 2ckc_A Chromodomain-helicase-D 16.9 93 0.0032 22.4 2.7 17 4-20 42-58 (80)
5 3iz6_Q 40S ribosomal protein S 12.8 85 0.0029 24.9 1.7 27 49-82 49-75 (141)
6 2gsm_B Cytochrome C oxidase su 11.3 1.6E+02 0.0055 25.0 3.2 18 138-155 77-94 (262)
7 2lat_A Dolichyl-diphosphooligo 8.8 2.4E+02 0.0083 17.3 2.5 18 24-43 12-29 (37)
8 1rkl_A Dolichyl-diphosphooligo 8.6 2.6E+02 0.0089 17.1 2.5 20 23-44 11-30 (36)
9 3hb3_B Cytochrome C oxidase su 8.3 2.4E+02 0.0081 24.6 3.1 17 139-155 109-125 (298)
10 2fm8_C Cell invasion protein S 7.5 1.4E+02 0.0049 25.2 1.2 13 170-182 220-232 (240)
No 1
>2xzm_V RPS17E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_V
Probab=57.04 E-value=5.3 Score=31.54 Aligned_cols=27 Identities=37% Similarity=0.476 Sum_probs=21.4
Q ss_pred HHHhhHHHHHHHHHHHHHhhccccccccccchhH
Q 028301 49 FVAAEAVHSIGISVLIYKLMKEKTCAGLSLKSQE 82 (211)
Q Consensus 49 ~llgdl~Hl~s~~iLl~KI~~~KS~~GiSlKTQ~ 82 (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 45777777 4566677788999999997
No 2
>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=19.99 E-value=81 Score=26.32 Aligned_cols=38 Identities=21% Similarity=0.402 Sum_probs=20.2
Q ss_pred HHHhhccccccccccccccchhhhHHHHHHHHHHhCCC
Q 028301 118 IYMIRFNLRSSYMEDKDNFAIYYVVVPCAVLALLIHPS 155 (211)
Q Consensus 118 iylm~~k~k~TYd~~~Dtf~~~~liip~~vLAli~hp~ 155 (211)
++.+..++...+..+..+.-+.+.++|++++..+.-|+
T Consensus 43 ~~~~~~~~~~~~~~~~~~lEiiWTiiP~iil~~la~ps 80 (227)
T 1v54_B 43 SLMLTTKLTHTSTMDAQEVETIWTILPAIILILIALPS 80 (227)
T ss_dssp HHHHSCSCCCCSCCCCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhcccccccccCceeEEeeehHHHHHHHHHHHHH
Confidence 33333344333333333444457888888887765443
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=19.96 E-value=69 Score=25.31 Aligned_cols=27 Identities=30% Similarity=0.370 Sum_probs=19.9
Q ss_pred HHHhhHHHHHHHHHHHHHhhccccccccccchhH
Q 028301 49 FVAAEAVHSIGISVLIYKLMKEKTCAGLSLKSQE 82 (211)
Q Consensus 49 ~llgdl~Hl~s~~iLl~KI~~~KS~~GiSlKTQ~ 82 (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 455666678899999998
No 4
>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=16.88 E-value=93 Score=22.44 Aligned_cols=17 Identities=12% Similarity=0.413 Sum_probs=14.1
Q ss_pred CCCcHHHHHHHHhhCCC
Q 028301 4 PKRPIHAVSTWVRRQPP 20 (211)
Q Consensus 4 ~~~~~~~~~~~l~~~~~ 20 (211)
.-.+++.+.+|||+|+.
T Consensus 42 ~AP~~KdL~dWLrqhP~ 58 (80)
T 2ckc_A 42 DAPKNKDLVEWLKLHPT 58 (80)
T ss_dssp SSCBHHHHHHHHHHCTT
T ss_pred cCccccCHHHHHHHCCC
Confidence 34678899999999986
No 5
>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=12.76 E-value=85 Score=24.91 Aligned_cols=27 Identities=33% Similarity=0.368 Sum_probs=20.1
Q ss_pred HHHhhHHHHHHHHHHHHHhhccccccccccchhH
Q 028301 49 FVAAEAVHSIGISVLIYKLMKEKTCAGLSLKSQE 82 (211)
Q Consensus 49 ~llgdl~Hl~s~~iLl~KI~~~KS~~GiSlKTQ~ 82 (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 557777775 455566678999999997
No 6
>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=11.31 E-value=1.6e+02 Score=25.00 Aligned_cols=18 Identities=28% Similarity=0.388 Sum_probs=12.4
Q ss_pred hhhhHHHHHHHHHHhCCC
Q 028301 138 IYYVVVPCAVLALLIHPS 155 (211)
Q Consensus 138 ~~~liip~~vLAli~hp~ 155 (211)
+.+.++|+++|..+.-|+
T Consensus 77 iiWTiiP~iILi~la~pS 94 (262)
T 2gsm_B 77 IAWTIVPIVILVAIGAFS 94 (262)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHHHHH
Confidence 347788888877776543
No 7
>2lat_A Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 4; membrane protein, oligosaccharyltransferase, integral membra protein; NMR {Homo sapiens}
Probab=8.84 E-value=2.4e+02 Score=17.34 Aligned_cols=18 Identities=28% Similarity=0.218 Sum_probs=11.8
Q ss_pred eHHHHHHHHHHHHHHHHHHh
Q 028301 24 AFLAVVSGMAALVLLRFIVH 43 (211)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~ 43 (211)
..+|.+..++ +++||+.+
T Consensus 12 n~lG~~~~~L--IVlYH~v~ 29 (37)
T 2lat_A 12 NMLGVSLFLL--VVLYHYVA 29 (37)
T ss_dssp HHHHHHHHHH--HHHHHHHH
T ss_pred HHHHHHHHHH--HHHHHHHh
Confidence 4566665555 58899875
No 8
>1rkl_A Dolichyl-diphosphooligosaccharide--protein glycosyltransferase 4 kDa subunit; membrane protein; NMR {Synthetic} SCOP: f.23.30.1
Probab=8.62 E-value=2.6e+02 Score=17.13 Aligned_cols=20 Identities=10% Similarity=0.139 Sum_probs=13.2
Q ss_pred eeHHHHHHHHHHHHHHHHHHhc
Q 028301 23 KAFLAVVSGMAALVLLRFIVHD 44 (211)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~d 44 (211)
..++|.+..++ +.+||+.+.
T Consensus 11 an~lG~~~~~L--IvlYH~v~~ 30 (36)
T 1rkl_A 11 AITFGIVMMTL--IVIYHAVDS 30 (36)
T ss_dssp HHHHHHHHHHH--HHHHHHHTS
T ss_pred HHHHHHHHHHH--HHHHHHHhc
Confidence 34566665555 589998764
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=8.30 E-value=2.4e+02 Score=24.62 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=11.4
Q ss_pred hhhHHHHHHHHHHhCCC
Q 028301 139 YYVVVPCAVLALLIHPS 155 (211)
Q Consensus 139 ~~liip~~vLAli~hp~ 155 (211)
.+.++|++++.++.-|+
T Consensus 109 iWTiiP~iILi~La~pS 125 (298)
T 3hb3_B 109 IWTLVPVLILVAIGAFS 125 (298)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 36778887777765443
No 10
>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=7.46 E-value=1.4e+02 Score=25.23 Aligned_cols=13 Identities=31% Similarity=0.388 Sum_probs=10.8
Q ss_pred HHHhhhhhhhHHH
Q 028301 170 VYLEAVSVLPQLR 182 (211)
Q Consensus 170 iyLEsVAILPQL~ 182 (211)
==||.+|++|||.
T Consensus 220 R~Le~~AviP~LL 232 (240)
T 2fm8_C 220 RHLEMQTLIPLLL 232 (240)
T ss_dssp HHHHHHHHHHHHH
T ss_pred hhhhHHHHHHHHH
Confidence 3589999999984
Done!