Query 047104
Match_columns 80
No_of_seqs 27 out of 29
Neff 2.7
Searched_HMMs 29240
Date Mon Mar 25 13:12:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047104.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/047104hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1v54_D Cytochrome C oxidase su 96.8 0.0013 4.6E-08 46.3 4.3 47 4-53 79-125 (147)
2 2y69_D Cytochrome C oxidase su 96.6 0.002 6.9E-08 46.4 4.3 47 4-53 101-147 (169)
3 3arc_B Photosystem II core lig 50.8 2.9 9.9E-05 34.6 -0.3 12 63-74 50-61 (504)
4 1t5j_A Hypothetical protein MJ 49.5 15 0.00052 26.0 3.4 43 7-60 259-307 (313)
5 2kkx_A Uncharacterized protein 37.8 12 0.00039 25.2 1.1 9 68-76 93-101 (102)
6 3j21_B 50S ribosomal protein L 34.0 11 0.00037 28.2 0.6 25 42-68 171-201 (239)
7 1giy_D 50S ribosomal protein L 31.2 14 0.00048 26.4 0.7 14 53-68 161-174 (178)
8 3mbh_A Putative phosphomethylp 29.5 54 0.0018 23.0 3.5 45 26-71 74-118 (291)
9 2y69_K Cytochrome C oxidase po 24.9 69 0.0024 20.7 3.1 43 4-46 36-80 (80)
10 3jyw_B 60S ribosomal protein L 24.8 15 0.00052 27.5 -0.1 16 51-68 192-207 (243)
11 3dzv_A 4-methyl-5-(beta-hydrox 23.4 35 0.0012 24.8 1.7 32 35-68 66-97 (273)
12 4a17_A RPL8; eukaryotic riboso 23.0 23 0.00078 26.9 0.6 15 52-68 195-209 (264)
13 3iz5_B 60S ribosomal protein L 22.6 23 0.0008 26.8 0.6 15 52-68 194-208 (261)
14 2ks1_B Epidermal growth factor 22.5 92 0.0031 17.5 3.0 23 6-28 17-39 (44)
15 3cx5_I Cytochrome B-C1 complex 22.2 88 0.003 18.9 3.1 22 3-24 14-35 (65)
16 2knc_B Integrin beta-3; transm 21.3 1.5E+02 0.0051 18.1 5.0 27 41-68 42-69 (79)
17 1kaf_A Transcription regulator 20.9 29 0.001 23.4 0.8 9 67-75 30-38 (108)
No 1
>1v54_D Cytochrome C oxidase subunit IV isoform 1; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.1.1 PDB: 1oco_D* 1occ_D* 1ocz_D* 1ocr_D* 1v55_D* 2dyr_D* 2dys_D* 2eij_D* 2eik_D* 2eil_D* 2eim_D* 2ein_D* 2occ_D* 2ybb_O* 2zxw_D* 3abk_D* 3abl_D* 3abm_D* 3ag1_D* 3ag2_D* ...
Probab=96.80 E-value=0.0013 Score=46.32 Aligned_cols=47 Identities=26% Similarity=0.381 Sum_probs=33.4
Q ss_pred chhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104 4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA 53 (80)
Q Consensus 4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa 53 (80)
|-|++.++..++++.+ .|+..+....|-+|||+++ ||.++..+++..
T Consensus 79 K~v~g~v~~~i~~s~~--~f~~~r~~v~~p~P~T~~~-Ewqeaq~erm~~ 125 (147)
T 1v54_D 79 KTVVGAAMFFIGFTAL--LLIWEKHYVYGPIPHTFEE-EWVAKQTKRMLD 125 (147)
T ss_dssp HHHHHHHHHHHHHHHH--HHHHHHHHTCCCCCGGGSH-HHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHH--HHHHHHHHccCCCCCCCCH-HHHHHHHHHHHH
Confidence 4466666666666554 4444454457889999975 999999999955
No 2
>2y69_D Cytochrome C oxidase subunit 4 isoform 1; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=96.64 E-value=0.002 Score=46.40 Aligned_cols=47 Identities=26% Similarity=0.362 Sum_probs=33.4
Q ss_pred chhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104 4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA 53 (80)
Q Consensus 4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa 53 (80)
|-|++.+...++++. ..|+..+....+-+|||+++ ||.++..+++..
T Consensus 101 K~V~ggv~~~i~~s~--~~f~~~r~~v~~p~P~T~~~-Ewqeaq~erml~ 147 (169)
T 2y69_D 101 KTVVGAAMFFIGFTA--LLLIWEKHYVYGPIPHTFEE-EWVAKQTKRMLD 147 (169)
T ss_dssp HHHHHHHHHHHHHHH--HHHHHHHHHTCCCCCGGGSH-HHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHH--HHHHHHHHHccCCCCCCCCH-HHHHHHHHHHHH
Confidence 446666666566555 44444455457889999975 999999999955
No 3
>3arc_B Photosystem II core light harvesting protein CP47; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_B* 1s5l_B* 1w5c_B* 2axt_B* 3bz2_B* 3kzi_B* 3prq_B* 3prr_B* 3a0b_B* 3a0h_B* 1izl_B*
Probab=50.75 E-value=2.9 Score=34.61 Aligned_cols=12 Identities=50% Similarity=0.849 Sum_probs=11.1
Q ss_pred eecccccceeee
Q 047104 63 VMNPISRQNFIV 74 (80)
Q Consensus 63 vmNPisrqnfiv 74 (80)
|||||-||++|+
T Consensus 50 vl~PM~eQGlIl 61 (504)
T 3arc_B 50 VLNPMWRQGMFV 61 (504)
T ss_dssp TTSCGGGTTCSS
T ss_pred ccCChhhcccee
Confidence 699999999996
No 4
>1t5j_A Hypothetical protein MJ1187; putative hydrolase, structural genomics, PSI, protein structure initiative; 2.70A {Methanocaldococcus jannaschii} SCOP: a.209.1.1
Probab=49.49 E-value=15 Score=26.01 Aligned_cols=43 Identities=28% Similarity=0.434 Sum_probs=23.0
Q ss_pred hhhHHHHHHHHHHHHHHHhcccccc-CCCCcc----cCchhhHHHHHHHh-hhCCCccCC
Q 047104 7 VGSLIGSCALAYAFDQIIAEKKIFG-GTTPKT----VSDKEWWEETDKKF-QAWPRVAGP 60 (80)
Q Consensus 7 v~s~~~sfa~Ay~c~~~vs~~k~fG-Gt~P~T----vtnkeW~~aT~~k~-qaWPR~agp 60 (80)
+++++|+++.|| +| ..+|.- +.+.++-++-.++| +.|+||+|.
T Consensus 259 ~aai~Gal~GA~-----------~G~~~IP~~w~~~l~~~~~i~~la~~l~~~~~~~~~~ 307 (313)
T 1t5j_A 259 LASMYGAMAGAY-----------YGFKNIPKEWIDGLKNKEVIFELAERLYHLATEEGGS 307 (313)
T ss_dssp HHHHHHHHHHHH-----------HCGGGSCHHHHHTSSCHHHHHHHHHHHHHHHTC----
T ss_pred HHHHHHHHHHHh-----------hCcccCCHHHHHHHhhHHHHHHHHHHHHHHHHhcCCC
Confidence 466777777776 33 235642 33444555555555 899999984
No 5
>2kkx_A Uncharacterized protein ECS2156; methods development, U-box domain, structural genomics, PSI- protein structure initiative; NMR {Escherichia coli} PDB: 2kky_A
Probab=37.83 E-value=12 Score=25.22 Aligned_cols=9 Identities=56% Similarity=0.988 Sum_probs=8.0
Q ss_pred ccceeeeec
Q 047104 68 SRQNFIVKS 76 (80)
Q Consensus 68 srqnfivk~ 76 (80)
.||||++|+
T Consensus 93 ~~~~F~i~~ 101 (102)
T 2kkx_A 93 TRGNFIIKG 101 (102)
T ss_dssp TTTEEEECC
T ss_pred CcCeEEecC
Confidence 499999997
No 6
>3j21_B 50S ribosomal protein L2P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=33.95 E-value=11 Score=28.19 Aligned_cols=25 Identities=24% Similarity=0.514 Sum_probs=18.0
Q ss_pred hhHHHHHHHhh------hCCCccCCCeeecccc
Q 047104 42 EWWEETDKKFQ------AWPRVAGPPVVMNPIS 68 (80)
Q Consensus 42 eW~~aT~~k~q------aWPR~agpPVvmNPis 68 (80)
.+-+|-...+. -||+.-| |+|||++
T Consensus 171 ~lgKAGr~r~~~k~k~g~rP~VRG--VAMNPVD 201 (239)
T 3j21_B 171 PLVKAGKAYYKYKARNKFWPTPRG--VKMNAVN 201 (239)
T ss_dssp CCCSHHHHHHHHTSSCCCCSCCCS--TTSCTTT
T ss_pred eeeecChhhccchhhcCCCceecc--eeecccc
Confidence 34455555554 6999987 9999986
No 7
>1giy_D 50S ribosomal protein L2; ribosome assembly, protein synthesis, LIFE; 5.50A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1ml5_d* 1yl3_D 2b66_D 2b9n_D 2b9p_D
Probab=31.19 E-value=14 Score=26.35 Aligned_cols=14 Identities=50% Similarity=1.108 Sum_probs=11.6
Q ss_pred hCCCccCCCeeecccc
Q 047104 53 AWPRVAGPPVVMNPIS 68 (80)
Q Consensus 53 aWPR~agpPVvmNPis 68 (80)
-||+.-| |+|||++
T Consensus 161 ~rP~VRG--vAMNpvD 174 (178)
T 1giy_D 161 KWPNVRG--VAMNAVD 174 (178)
T ss_pred cCCccce--eeeCCcc
Confidence 5888876 8999985
No 8
>3mbh_A Putative phosphomethylpyrimidine kinase; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE PXL; 2.00A {Bacteroides thetaiotaomicron} PDB: 3mbj_A*
Probab=29.51 E-value=54 Score=23.03 Aligned_cols=45 Identities=9% Similarity=0.127 Sum_probs=31.3
Q ss_pred ccccccCCCCcccCchhhHHHHHHHhhhCCCccCCCeeecccccce
Q 047104 26 EKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQN 71 (80)
Q Consensus 26 ~~k~fGGt~P~TvtnkeW~~aT~~k~qaWPR~agpPVvmNPisrqn 71 (80)
++.-|.+-.-..+.+.|--+...+.++...+ .+.|||+||.-|.+
T Consensus 74 ~d~~~~aik~G~l~s~~~i~~v~~~l~~~~~-~~~~vv~DPv~~~~ 118 (291)
T 3mbh_A 74 LEVQFDAIYTGYLGSPRQIQIVSDFIKDFRQ-PDSLIVADPVLGDN 118 (291)
T ss_dssp TTCCCSEEEECCCSSTTHHHHHHHHHHHHCC-TTCEEEECCCCEET
T ss_pred cCCccCEEEECCCCCHHHHHHHHHHHHHhcC-CCCcEEECceeeeC
Confidence 4444555555667777888888887766543 56799999987754
No 9
>2y69_K Cytochrome C oxidase polypeptide 7B; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=24.87 E-value=69 Score=20.68 Aligned_cols=43 Identities=23% Similarity=0.286 Sum_probs=24.8
Q ss_pred chhhhhHHHHHHHHHHHHHHHhcc--ccccCCCCcccCchhhHHH
Q 047104 4 KYIVGSLIGSCALAYAFDQIIAEK--KIFGGTTPKTVSDKEWWEE 46 (80)
Q Consensus 4 kyIv~s~~~sfa~Ay~c~~~vs~~--k~fGGt~P~TvtnkeW~~a 46 (80)
||=-+-|+++.++.-+.|.|+.-. --.+=+-=+-|+.|||.++
T Consensus 36 KYGn~~L~~Ga~FC~a~W~y~~TQ~GIeWnlSPVGrVtPKeWr~q 80 (80)
T 2y69_K 36 KYGNAVLASGATFCVAVWVYMATQIGIEWNPSPVGRVTPKEWREQ 80 (80)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHSCCCCCCCCTTTCCCCCCC--
T ss_pred hcCceeeecchhHHHhhHHHhheecceeecCCcccccCccccccC
Confidence 666666777777776667665432 1122233356788899763
No 10
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 4b6a_A 1s1i_B
Probab=24.79 E-value=15 Score=27.53 Aligned_cols=16 Identities=44% Similarity=1.080 Sum_probs=12.5
Q ss_pred hhhCCCccCCCeeecccc
Q 047104 51 FQAWPRVAGPPVVMNPIS 68 (80)
Q Consensus 51 ~qaWPR~agpPVvmNPis 68 (80)
..-||+.-| |+|||++
T Consensus 192 ~~~rP~VRG--VAMNpVD 207 (243)
T 3jyw_B 192 RNSWPKTRG--VAMNPVD 207 (243)
T ss_dssp CSCCSCCCT--TTSCTTT
T ss_pred CCCCCccCc--eeeCCcc
Confidence 356888776 8999986
No 11
>3dzv_A 4-methyl-5-(beta-hydroxyethyl)thiazole kinase; NP_816404.1, structural genomics, joint center for structural genomics, JCSG; HET: ADP; 2.57A {Enterococcus faecalis}
Probab=23.44 E-value=35 Score=24.81 Aligned_cols=32 Identities=13% Similarity=-0.037 Sum_probs=19.2
Q ss_pred CcccCchhhHHHHHHHhhhCCCccCCCeeecccc
Q 047104 35 PKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPIS 68 (80)
Q Consensus 35 P~TvtnkeW~~aT~~k~qaWPR~agpPVvmNPis 68 (80)
|.|+++ +|.+.-.+-.+.- ++.+.|||+||.-
T Consensus 66 ~G~l~~-~~~~~~~~a~~~a-~~~~~PvVlDPVg 97 (273)
T 3dzv_A 66 LGHLSQ-EREQSLLAASDYA-RQVNKLTVVDLVG 97 (273)
T ss_dssp CCSCCH-HHHHHHHHHHHHH-HHTTCCEEEECTT
T ss_pred cCCCCh-HHHHHHHHHHHHH-HHcCCcEEEchhh
Confidence 566655 7766554433221 3346799999963
No 12
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A
Probab=23.00 E-value=23 Score=26.93 Aligned_cols=15 Identities=60% Similarity=1.360 Sum_probs=12.3
Q ss_pred hhCCCccCCCeeecccc
Q 047104 52 QAWPRVAGPPVVMNPIS 68 (80)
Q Consensus 52 qaWPR~agpPVvmNPis 68 (80)
.-||+.-| |+|||++
T Consensus 195 ~~rP~VRG--VAMNPVD 209 (264)
T 4a17_A 195 KSWPRVRG--VAMNPVD 209 (264)
T ss_dssp CCCSCCCT--TTSCTTT
T ss_pred CCCCCccc--eeeCCcc
Confidence 57988876 8999986
No 13
>3iz5_B 60S ribosomal protein L2 (L2P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_B 2zkr_a
Probab=22.57 E-value=23 Score=26.78 Aligned_cols=15 Identities=53% Similarity=1.278 Sum_probs=12.2
Q ss_pred hhCCCccCCCeeecccc
Q 047104 52 QAWPRVAGPPVVMNPIS 68 (80)
Q Consensus 52 qaWPR~agpPVvmNPis 68 (80)
.-||+.-| |+|||++
T Consensus 194 g~rP~VRG--VAMNPVD 208 (261)
T 3iz5_B 194 NCWPKVRG--VAMNPVE 208 (261)
T ss_dssp CCCSCCCT--TTSCTTT
T ss_pred CCCCccce--eeeCCcc
Confidence 46888876 8999985
No 14
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=22.48 E-value=92 Score=17.55 Aligned_cols=23 Identities=17% Similarity=0.339 Sum_probs=13.3
Q ss_pred hhhhHHHHHHHHHHHHHHHhccc
Q 047104 6 IVGSLIGSCALAYAFDQIIAEKK 28 (80)
Q Consensus 6 Iv~s~~~sfa~Ay~c~~~vs~~k 28 (80)
+++++++.++++.+.+.|+.-++
T Consensus 17 VVgGv~~~~ii~~~~~~~~RRr~ 39 (44)
T 2ks1_B 17 MVGALLLLLVVALGIGLFMRRRH 39 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTT
T ss_pred hhHHHHHHHHHHHHHHHHhhhhH
Confidence 34455555566666666666554
No 15
>3cx5_I Cytochrome B-C1 complex subunit 9; complex III, electron transfer complex, cytochrome BC1 complex, mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces cerevisiae} SCOP: f.23.14.1 PDB: 3cxh_I* 2ibz_I* 1kyo_I* 1ezv_I* 1kb9_I* 1p84_I*
Probab=22.24 E-value=88 Score=18.92 Aligned_cols=22 Identities=18% Similarity=0.365 Sum_probs=16.1
Q ss_pred cchhhhhHHHHHHHHHHHHHHH
Q 047104 3 TKYIVGSLIGSCALAYAFDQII 24 (80)
Q Consensus 3 ~kyIv~s~~~sfa~Ay~c~~~v 24 (80)
+-|+...++|+|++-+++|+..
T Consensus 14 Sty~~~I~~gaf~fE~~fd~~~ 35 (65)
T 3cx5_I 14 AVFVGTIFAGAFVFQTVFDTAI 35 (65)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHhHHH
Confidence 5577778888888887776543
No 16
>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=21.27 E-value=1.5e+02 Score=18.10 Aligned_cols=27 Identities=19% Similarity=0.367 Sum_probs=14.5
Q ss_pred hhhHHHHHHHh-hhCCCccCCCeeecccc
Q 047104 41 KEWWEETDKKF-QAWPRVAGPPVVMNPIS 68 (80)
Q Consensus 41 keW~~aT~~k~-qaWPR~agpPVvmNPis 68 (80)
+|+.+--.++. +-|.... .|+.-+|.+
T Consensus 42 rE~~kFEkE~~~~~w~~~~-NPlyk~~tt 69 (79)
T 2knc_B 42 KEFAKFEEERARAKWDTAN-NPLYKEATS 69 (79)
T ss_dssp HHHHHHHHHHHHHHHTTTT-CCHHHHCSC
T ss_pred HHHHHHHHHHHhcccccCC-CCCccCCcc
Confidence 47777666666 4465433 344444444
No 17
>1kaf_A Transcription regulatory protein MOTA; escherichia coli, X-RAY crystallography, protein-DNA interactions, structural genomics; 1.60A {Enterobacteria phage T4} SCOP: d.199.1.1
Probab=20.91 E-value=29 Score=23.41 Aligned_cols=9 Identities=33% Similarity=0.619 Sum_probs=7.2
Q ss_pred cccceeeee
Q 047104 67 ISRQNFIVK 75 (80)
Q Consensus 67 isrqnfivk 75 (80)
+.||||+|+
T Consensus 30 ~~RSN~~i~ 38 (108)
T 1kaf_A 30 IYRSNYLAI 38 (108)
T ss_dssp EETTEEEEE
T ss_pred eeccceEEe
Confidence 459999986
Done!