Query 029147
Match_columns 198
No_of_seqs 165 out of 359
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 13:17:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029147.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/029147hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5c_G RP9, S10, YS4, 40S ribo 100.0 4.5E-88 1.5E-92 582.9 13.0 183 1-188 53-235 (236)
2 2xzm_Y RPS6E; ribosome, transl 100.0 1.1E-80 3.7E-85 548.7 15.5 173 1-178 53-229 (293)
3 3j20_G 30S ribosomal protein S 100.0 8.9E-33 3.1E-37 219.8 4.6 61 1-64 64-124 (125)
4 2oxg_Z SOXZ protein; immunoglo 14.5 1.4E+02 0.0049 22.1 3.3 40 19-70 20-59 (108)
5 3e1k_B Lactose regulatory prot 14.4 47 0.0016 19.0 0.5 15 93-107 3-17 (22)
6 1v8h_A Sulfur oxidation protei 11.3 2E+02 0.0069 21.1 3.3 40 19-70 19-58 (107)
7 3gmi_A UPF0348 protein MJ0951; 10.5 81 0.0028 28.1 1.0 35 72-107 214-248 (357)
8 3bts_E Regulatory protein GAL4 10.3 71 0.0024 18.9 0.4 14 94-107 2-15 (26)
9 2pp6_A Gifsy-2 prophage ATP-bi 9.9 1.5E+02 0.005 22.6 2.1 26 10-40 43-68 (102)
10 4bbk_A Kindlin-1, fermitin fam 8.7 1E+02 0.0035 25.3 0.9 15 44-58 73-87 (165)
No 1
>3u5c_G RP9, S10, YS4, 40S ribosomal protein S6-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3j16_C 3u5g_G
Probab=100.00 E-value=4.5e-88 Score=582.89 Aligned_cols=183 Identities=59% Similarity=0.885 Sum_probs=172.4
Q ss_pred CCCCCCCCCCcCCCCCCCCeEEEeecCCCccccCCCCCCCcceeeeecceeecCCcceEEEEEEeeCCcCCCCCCCCCCC
Q 029147 1 MGGCDKQGFPMKQGVLTPGRVRLLLHRGTPCFRGYGRRDGERRRKSVRGCIVSPDLSVLNLVIVKKGEHDLPGLTDTEKP 80 (198)
Q Consensus 1 tGGnDkqGFPMkqgVl~~gRv~lLLskG~s~yrg~prr~GeRkRKSVRGciV~~~is~LNlvIvkkGek~I~gLTd~~~p 80 (198)
|||||+|||||+|||+|++||+||||+|||||| |+++|||+||||||||||+||||||++||++||+|||||||+++|
T Consensus 53 tGGnDkqGFPMkqgVl~~~rvrlLLskG~~~yr--prr~GERkRKsVRGciV~~~is~lNlvIVkkGek~IpgLtd~~~p 130 (236)
T 3u5c_G 53 SGGNDKQGFPMKQGVLLPTRIKLLLTKNVSCYR--PRRDGERKRKSVRGAIVGPDLAVLALVIVKKGEQELEGLTDTTVP 130 (236)
T ss_dssp EEEEEGGGCBBCTTCCCSSEEEEEECSSBTTBC--CSSTTCCEEEEEECSBCCTTEEEEEEEEEECCSSCCHHHHTCCCC
T ss_pred ecccCCCCccccCCcCCCceEEEEecCCCCccC--CCCCCceeeeeeeeeEecCCceeEEEEEEecCCccCccccCcccc
Confidence 699999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred CcCCCCchhhHHHHhCCCCcchHhHhhhhhhccccccCCcccccCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029147 81 RMRGPKRASKIRKLFNLSKEDDVRKYVNTYRRTFTTKTGKKVSKAPKIQRLVTPLTLQRKRARIAEKKQRIAKAKAEAAE 160 (198)
Q Consensus 81 ~~lgPKRaskIrKlFnLsk~ddV~kyV~~~irr~~k~~kk~~~KaPKIQrLvTp~~lqrK~~~~a~kk~~~~k~keeaae 160 (198)
++|||||||+|||||||||+|||++|| |+++|.+|+|+++|||||||||||++||||++++|+|++++++++|||+|
T Consensus 131 ~~lgPKRas~irklfnlsk~ddVr~yv---vrr~l~~gkk~~~kapKIQrlvtp~~lqrk~~~~a~kk~r~~k~keea~e 207 (236)
T 3u5c_G 131 KRLGPKRANNIRKFFGLSKEDDVRDFV---IRREVTKGEKTYTKAPKIQRLVTPQRLQRKRHQRALKVRNAQAQREAAAE 207 (236)
T ss_dssp CSCCCCBHHHHHHHHTCTTTSCSSSSS---CCEEEECSSCEEEECCCCBSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccCCchhhhhHHHhCCCcccchhhee---eeeecccCCCCCCCCCCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999 99999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHhhhhhh
Q 029147 161 YQKLLATRLKEQRERRSESLAKKRSRLS 188 (198)
Q Consensus 161 Y~kllakr~ke~k~~~~~~~~~~~~s~~ 188 (198)
|++|||+||+|+++++++..+++++|++
T Consensus 208 Y~klla~r~ke~k~~~~~~~~~r~~~~~ 235 (236)
T 3u5c_G 208 YAQLLAKRLSERKAEKAEIRKRRASSLK 235 (236)
T ss_dssp HHHHHHHHHHHHHHHHHHC---------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999886666666653
No 2
>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Y
Probab=100.00 E-value=1.1e-80 Score=548.69 Aligned_cols=173 Identities=54% Similarity=0.841 Sum_probs=170.5
Q ss_pred CCCCCCCCCCcCCCCCCCCeEEEeecCCCccccCCCCCCCcceeeeecceeecCCcceEEEEEEeeCCcCCCCCCCCCCC
Q 029147 1 MGGCDKQGFPMKQGVLTPGRVRLLLHRGTPCFRGYGRRDGERRRKSVRGCIVSPDLSVLNLVIVKKGEHDLPGLTDTEKP 80 (198)
Q Consensus 1 tGGnDkqGFPMkqgVl~~gRv~lLLskG~s~yrg~prr~GeRkRKSVRGciV~~~is~LNlvIvkkGek~I~gLTd~~~p 80 (198)
|||||+|||||+|||+|++||+|||++||+||| |+++|||+||||||||||+|||||||+||++||+|||||||+++|
T Consensus 53 TGGnDkqGFPMkqgVl~~~RvrLLLskG~sgYR--Prr~GERKRKSVRGciVs~disqLNlvIVkkGek~IpgLTD~~~P 130 (293)
T 2xzm_Y 53 AGGNDKDGFPMKQGVMVRGRVRLLLSEGHSCFT--SRRSGFRKRKSVRGCIVGPDMRVLALQIVKKGVAEIDGLTTVTLP 130 (293)
T ss_dssp EEEEETTSCBBCTTCCCSSEEEEEECTTCSSCC--CSSSCCCEEEEEECSSCCTTEEEEEEEEEECCSSCCHHHHTCCCC
T ss_pred ecccCCCCccccCCccCCceEEEEecCCCCCCC--CCCCCceeeeeeeeeeecCCceeEEEEEEecCCccCccccCCcCC
Confidence 699999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred CcCCCCchhhHHHHhCCCCcch---HhHhhhhhhcccc-ccCCcccccCCCcccCcchHHHHHHHHHHHHHHHHHHHHHH
Q 029147 81 RMRGPKRASKIRKLFNLSKEDD---VRKYVNTYRRTFT-TKTGKKVSKAPKIQRLVTPLTLQRKRARIAEKKQRIAKAKA 156 (198)
Q Consensus 81 ~~lgPKRaskIrKlFnLsk~dd---V~kyV~~~irr~~-k~~kk~~~KaPKIQrLvTp~~lqrK~~~~a~kk~~~~k~ke 156 (198)
++|||||||+||||||||++|| ||+|| |++++ ++|+|+++|+|||||||||.+||||++++++|++++++++|
T Consensus 131 rrlGPKRAskIRKlFnLsKeDD~~~VrkyV---irr~~~kegkk~~~KaPKIQRLVTp~~lqrKr~~~a~Kk~r~~k~ke 207 (293)
T 2xzm_Y 131 RKLGPKRANNIKKLFGLKKEDDPILIKKSV---IRRTFKTAKGKDRTKCPKIQRLITPERILRKKVYKAEKTQRYVKTNA 207 (293)
T ss_dssp CCCCCCSHHHHHHHHCCCTTCCHHHHHHTS---CCEEEECTTSCEEEECCCCTTCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCchhhhhHHHhCCCcccchhhhhhhh---eeccccccCCcccccCCCccccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999 99999 99999 89999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhHH
Q 029147 157 EAAEYQKLLATRLKEQRERRSE 178 (198)
Q Consensus 157 eaaeY~kllakr~ke~k~~~~~ 178 (198)
|++||++||++|++|+++++++
T Consensus 208 ea~eY~klla~r~~e~k~~~~~ 229 (293)
T 2xzm_Y 208 AKEEYEKFLSEWKKQRAAKAHA 229 (293)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999998755
No 3
>3j20_G 30S ribosomal protein S6E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.97 E-value=8.9e-33 Score=219.81 Aligned_cols=61 Identities=49% Similarity=0.943 Sum_probs=60.1
Q ss_pred CCCCCCCCCCcCCCCCCCCeEEEeecCCCccccCCCCCCCcceeeeecceeecCCcceEEEEEE
Q 029147 1 MGGCDKQGFPMKQGVLTPGRVRLLLHRGTPCFRGYGRRDGERRRKSVRGCIVSPDLSVLNLVIV 64 (198)
Q Consensus 1 tGGnDkqGFPMkqgVl~~gRv~lLLskG~s~yrg~prr~GeRkRKSVRGciV~~~is~LNlvIv 64 (198)
|||||+|||||+|||+|++||+|||++| +||| |+++||||||||||||||+||||||++||
T Consensus 64 tGG~DkqGFPMkqgV~~~~rvrlLLskG-~gyr--prr~GeRkRKsVRG~~V~~~i~~lNlviv 124 (125)
T 3j20_G 64 RGGTDKDGFPMRPDIHGPRRVRVLLSKG-PGFR--PKEKGERRKKTVRGNTISPEIVQVNVKLV 124 (125)
T ss_dssp EEEEETTCCBBCTTCCSSSEEEEECCSS-CSSC--CCCSSCCCEEEEECSSCCTTEEEEEEEEC
T ss_pred ccCcCCCCccccCCcCCCceEEEEecCC-CccC--CCCCCcEeeEEeeceEEcCCeEEEEEEEe
Confidence 6999999999999999999999999999 9999 99999999999999999999999999997
No 4
>2oxg_Z SOXZ protein; immunoglobulin-like beta-sandwich fold, transport protein; 1.40A {Paracoccus denitrificans} PDB: 2ox5_Z 2oxh_Z*
Probab=14.48 E-value=1.4e+02 Score=22.07 Aligned_cols=40 Identities=15% Similarity=0.293 Sum_probs=28.8
Q ss_pred CeEEEeecCCCccccCCCCCCCcceeeeecceeecCCcceEEEEEEeeCCcC
Q 029147 19 GRVRLLLHRGTPCFRGYGRRDGERRRKSVRGCIVSPDLSVLNLVIVKKGEHD 70 (198)
Q Consensus 19 gRv~lLLskG~s~yrg~prr~GeRkRKSVRGciV~~~is~LNlvIvkkGek~ 70 (198)
-+|++|++ ||..+|.|+-.+ |..|.++ -|+-+.+..|.+.
T Consensus 20 ~~vk~~I~--------HPMetGl~~d~~--g~~IPa~--~I~~v~~~~ng~~ 59 (108)
T 2oxg_Z 20 VTVKALIS--------HKMESGQRKDAD--GKLIPRS--IINRFTCELNGVN 59 (108)
T ss_dssp EEEEEEEC--------CCCBCSCCBCTT--SCBCCCB--CEEEEEEEETTEE
T ss_pred EEEEEEeE--------CCCccccccCcC--CCccchH--heEEEEEEECCEE
Confidence 35777766 299999998874 8888887 4666666666554
No 5
>3e1k_B Lactose regulatory protein LAC9; transctiption, repressor, trans-activation, carbohydrate metabolism, DNA-binding, galactose metabolism; 3.00A {Kluyveromyces lactis}
Probab=14.35 E-value=47 Score=18.96 Aligned_cols=15 Identities=47% Similarity=0.829 Sum_probs=13.4
Q ss_pred HHhCCCCcchHhHhh
Q 029147 93 KLFNLSKEDDVRKYV 107 (198)
Q Consensus 93 KlFnLsk~ddV~kyV 107 (198)
-|||-+--|||..|+
T Consensus 3 ~mfntttmddvynyl 17 (22)
T 3e1k_B 3 QLFNTTTMDDVYNYI 17 (26)
T ss_pred cccccccHHHHHHHh
Confidence 389999999999998
No 6
>1v8h_A Sulfur oxidation protein SOXZ; lithotrophic sulfur oxidation, unknown function, structural genomics; 1.20A {Thermus thermophilus HB8} SCOP: b.1.18.19
Probab=11.33 E-value=2e+02 Score=21.14 Aligned_cols=40 Identities=23% Similarity=0.306 Sum_probs=28.4
Q ss_pred CeEEEeecCCCccccCCCCCCCcceeeeecceeecCCcceEEEEEEeeCCcC
Q 029147 19 GRVRLLLHRGTPCFRGYGRRDGERRRKSVRGCIVSPDLSVLNLVIVKKGEHD 70 (198)
Q Consensus 19 gRv~lLLskG~s~yrg~prr~GeRkRKSVRGciV~~~is~LNlvIvkkGek~ 70 (198)
-+|++|++ ||..+|.|+-. -|..|.++ -|+-+.+..|.+.
T Consensus 19 ~~vk~~I~--------HPmetGl~~D~--~g~~iPa~--~I~~v~~~~ng~~ 58 (107)
T 1v8h_A 19 FRLQVVAQ--------HPNEPGTRRDA--EGKLIPAK--YINLVEVYFEGEK 58 (107)
T ss_dssp EEEEEEEC--------CCCBCSCCBCT--TSCBCCCB--CEEEEEEEETTEE
T ss_pred EEEEEEeE--------CCCCccccccc--cCCcCchH--heEEEEEEECCEE
Confidence 35778766 29999999877 38888887 4666666666654
No 7
>3gmi_A UPF0348 protein MJ0951; protein with unknown function, structural genomics, PSI, MCS protein structure initiative; 1.91A {Methanocaldococcus jannaschii}
Probab=10.55 E-value=81 Score=28.13 Aligned_cols=35 Identities=17% Similarity=0.064 Sum_probs=26.1
Q ss_pred CCCCCCCCCCcCCCCchhhHHHHhCCCCcchHhHhh
Q 029147 72 PGLTDTEKPRMRGPKRASKIRKLFNLSKEDDVRKYV 107 (198)
Q Consensus 72 ~gLTd~~~p~~lgPKRaskIrKlFnLsk~ddV~kyV 107 (198)
+++...++|| ++|=-||.||+++.-...|++.+||
T Consensus 214 ~~i~~~~i~R-~~~~SAS~IR~~i~~g~~~~~~~lV 248 (357)
T 3gmi_A 214 FNPKFVFVKR-LEGISGTKIREAIFSGKFEDIKNML 248 (357)
T ss_dssp CCCEEEEEEC-SCCCCHHHHHHHHHTTCGGGTGGGS
T ss_pred CCCeEEEecC-CCcccHHHHHHHHHcCChhHHHhcC
Confidence 4556667777 4589999999999755546788777
No 8
>3bts_E Regulatory protein GAL4; eukaryotic transcription complex, NAD, rossmann fold, acetylation, carbohydrate metabolism, DNA-binding; HET: NAD; 2.70A {Saccharomyces cerevisiae}
Probab=10.27 E-value=71 Score=18.87 Aligned_cols=14 Identities=43% Similarity=0.793 Sum_probs=12.9
Q ss_pred HhCCCCcchHhHhh
Q 029147 94 LFNLSKEDDVRKYV 107 (198)
Q Consensus 94 lFnLsk~ddV~kyV 107 (198)
|||-+--|||-.||
T Consensus 2 mFNTTTMDDvyNyl 15 (26)
T 3bts_E 2 MFNTTTMDDVYNYL 15 (26)
T ss_pred ccccccHHHHHHHh
Confidence 79999999999998
No 9
>2pp6_A Gifsy-2 prophage ATP-binding sugar transporter-LI protein; beta barrel, 4 helix bundle, structural genomics, PSI-2; 2.70A {Salmonella typhimurium LT2} SCOP: b.106.1.2
Probab=9.86 E-value=1.5e+02 Score=22.61 Aligned_cols=26 Identities=15% Similarity=0.066 Sum_probs=14.0
Q ss_pred CcCCCCCCCCeEEEeecCCCccccCCCCCCC
Q 029147 10 PMKQGVLTPGRVRLLLHRGTPCFRGYGRRDG 40 (198)
Q Consensus 10 PMkqgVl~~gRv~lLLskG~s~yrg~prr~G 40 (198)
|+-.+|-|.+|--+|.| ++|+ |++.-
T Consensus 43 ~emg~lsG~~rsLvvFS---sgYr--P~r~D 68 (102)
T 2pp6_A 43 AELGPVEGNGKNVVVFS---GNVI--PRRGD 68 (102)
T ss_dssp C--------CEEEEECC---SSCC--CCTTC
T ss_pred HHhCCccCCceEEEEec---CCcc--cCCCC
Confidence 45567888888888884 6999 98753
No 10
>4bbk_A Kindlin-1, fermitin family homolog 1; PH domain, cell adhesion; 2.10A {Mus musculus}
Probab=8.74 E-value=1e+02 Score=25.26 Aligned_cols=15 Identities=40% Similarity=0.975 Sum_probs=12.8
Q ss_pred eeeecceeecCCcce
Q 029147 44 RKSVRGCIVSPDLSV 58 (198)
Q Consensus 44 RKSVRGciV~~~is~ 58 (198)
.-.++||+|.+|+++
T Consensus 73 ~inLrGCEVtPDVnv 87 (165)
T 4bbk_A 73 KLNLRGCEIVPDVNV 87 (165)
T ss_dssp EEECTTCEEEEEEET
T ss_pred EEecCccEEeccccc
Confidence 458999999999876
Done!