Query psy17953
Match_columns 234
No_of_seqs 184 out of 353
Neff 3.4
Searched_HMMs 29240
Date Fri Aug 16 18:36:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17953.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/17953hhsearch_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 7.8E-79 2.7E-83 536.6 15.0 171 4-182 61-231 (236)
2 2xzm_Y RPS6E; ribosome, transl 100.0 4.7E-74 1.6E-78 517.3 14.8 165 4-175 61-228 (293)
3 3j20_G 30S ribosomal protein S 99.9 1.7E-23 5.6E-28 170.3 5.3 52 5-57 73-124 (125)
4 2oxg_Z SOXZ protein; immunoglo 18.0 97 0.0033 23.6 3.2 41 14-64 20-60 (108)
5 3gmi_A UPF0348 protein MJ0951; 15.1 46 0.0016 30.5 0.9 35 65-100 214-248 (357)
6 2pp6_A Gifsy-2 prophage ATP-bi 15.0 78 0.0027 24.8 2.0 22 8-32 46-67 (102)
7 1v8h_A Sulfur oxidation protei 14.2 1.4E+02 0.0047 22.7 3.2 41 14-64 19-59 (107)
8 4bbk_A Kindlin-1, fermitin fam 9.1 97 0.0033 26.1 0.9 15 37-51 73-87 (165)
9 2out_A MU-like prophage flumu 8.8 1.2E+02 0.0042 24.6 1.4 15 18-34 11-25 (131)
10 4a1x_C CP5-46-A peptide; hydro 8.6 1.8E+02 0.006 17.6 1.6 14 14-29 4-17 (26)
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=7.8e-79 Score=536.55 Aligned_cols=171 Identities=61% Similarity=0.902 Sum_probs=162.2
Q ss_pred ecccccCCCCCeEEEeecCCCccccCCCCCccceeeecceeecCCcceEEEEEEeccCCCCCCCCCCCCCCccCCCchhh
Q psy17953 4 ITKWWLCPKDRRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEIPGLTDTTIPRRLGPKRASK 83 (234)
Q Consensus 4 ~~~~~gVlt~gRVrLLLskG~scYRPrr~GERKRKSVRGciV~~disvLNlvIVKkGek~IpgLTD~tvPrrLGPKRAsk 83 (234)
+-|+|||||++||+|||++||+||||+++|||+||||||||||+||||||++||++||+|||||||+++|++|||||||+
T Consensus 61 FPMkqgVl~~~rvrlLLskG~~~yrprr~GERkRKsVRGciV~~~is~lNlvIVkkGek~IpgLtd~~~p~~lgPKRas~ 140 (236)
T 3u5c_G 61 FPMKQGVLLPTRIKLLLTKNVSCYRPRRDGERKRKSVRGAIVGPDLAVLALVIVKKGEQELEGLTDTTVPKRLGPKRANN 140 (236)
T ss_dssp CBBCTTCCCSSEEEEEECSSBTTBCCSSTTCCEEEEEECSBCCTTEEEEEEEEEECCSSCCHHHHTCCCCCSCCCCBHHH
T ss_pred ccccCCcCCCceEEEEecCCCCccCCCCCCceeeeeeeeeEecCCceeEEEEEEecCCccCccccCcccccccCCchhhh
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhCCCCcCccccceecccCCCCCCCCCCccccccccCCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy17953 84 IRKLFNLSKEDDVRQYVIKRTLPPKPAKEGKKKVRKLYKAPKIQRLITPVTLQRKRHLLALKKRRCLKRKEQAAEYAKLL 163 (234)
Q Consensus 84 IRKLFnLSKeDDVrkyVirr~l~~~~~kegkK~~~~~tKaPKIQRLVTP~~LQrKr~~~alKk~r~~k~keeaaeYakLL 163 (234)
|||||||||+||||+||||++|+ ||+|++ +|||||||||||++||||++++++|++++++++||++||++||
T Consensus 141 irklfnlsk~ddVr~yvvrr~l~-----~gkk~~---~kapKIQrlvtp~~lqrk~~~~a~kk~r~~k~keea~eY~kll 212 (236)
T 3u5c_G 141 IRKFFGLSKEDDVRDFVIRREVT-----KGEKTY---TKAPKIQRLVTPQRLQRKRHQRALKVRNAQAQREAAAEYAQLL 212 (236)
T ss_dssp HHHHHTCTTTSCSSSSSCCEEEE-----CSSCEE---EECCCCBSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHhCCCcccchhheeeeeecc-----cCCCCC---CCCCCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999993 788998 9999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhHHHHHhhh
Q psy17953 164 AIRIKEKKKAKEDERKRRR 182 (234)
Q Consensus 164 akr~ke~k~~~~~~~krrr 182 (234)
++||+|++++++++..+++
T Consensus 213 a~r~ke~k~~~~~~~~~r~ 231 (236)
T 3u5c_G 213 AKRLSERKAEKAEIRKRRA 231 (236)
T ss_dssp HHHHHHHHHHHHHC-----
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999999999977643443
No 2
>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Y
Probab=100.00 E-value=4.7e-74 Score=517.28 Aligned_cols=165 Identities=49% Similarity=0.731 Sum_probs=161.1
Q ss_pred ecccccCCCCCeEEEeecCCCccccCCCCCccceeeecceeecCCcceEEEEEEeccCCCCCCCCCCCCCCccCCCchhh
Q psy17953 4 ITKWWLCPKDRRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEIPGLTDTTIPRRLGPKRASK 83 (234)
Q Consensus 4 ~~~~~gVlt~gRVrLLLskG~scYRPrr~GERKRKSVRGciV~~disvLNlvIVKkGek~IpgLTD~tvPrrLGPKRAsk 83 (234)
+-|+|||||++||+|||++||+||||+++|||+||||||||||+|||||||+||++||++||||||+++||+|||||||+
T Consensus 61 FPMkqgVl~~~RvrLLLskG~sgYRPrr~GERKRKSVRGciVs~disqLNlvIVkkGek~IpgLTD~~~PrrlGPKRAsk 140 (293)
T 2xzm_Y 61 FPMKQGVMVRGRVRLLLSEGHSCFTSRRSGFRKRKSVRGCIVGPDMRVLALQIVKKGVAEIDGLTTVTLPRKLGPKRANN 140 (293)
T ss_dssp CBBCTTCCCSSEEEEEECTTCSSCCCSSSCCCEEEEEECSSCCTTEEEEEEEEEECCSSCCHHHHTCCCCCCCCCCSHHH
T ss_pred ccccCCccCCceEEEEecCCCCCCCCCCCCceeeeeeeeeeecCCceeEEEEEEecCCccCccccCCcCCCCCCCchhhh
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhCCCCcCc---cccceecccCCCCCCCCCCccccccccCCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy17953 84 IRKLFNLSKEDD---VRQYVIKRTLPPKPAKEGKKKVRKLYKAPKIQRLITPVTLQRKRHLLALKKRRCLKRKEQAAEYA 160 (234)
Q Consensus 84 IRKLFnLSKeDD---VrkyVirr~l~~~~~kegkK~~~~~tKaPKIQRLVTP~~LQrKr~~~alKk~r~~k~keeaaeYa 160 (234)
||||||||++|| ||+||||++++ +||+|++ +|+|||||||||.+||||++++++|++++++++||++||+
T Consensus 141 IRKlFnLsKeDD~~~VrkyVirr~~~----kegkk~~---~KaPKIQRLVTp~~lqrKr~~~a~Kk~r~~k~keea~eY~ 213 (293)
T 2xzm_Y 141 IKKLFGLKKEDDPILIKKSVIRRTFK----TAKGKDR---TKCPKIQRLITPERILRKKVYKAEKTQRYVKTNAAKEEYE 213 (293)
T ss_dssp HHHHHCCCTTCCHHHHHHTSCCEEEE----CTTSCEE---EECCCCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHhCCCcccchhhhhhhheecccc----ccCCccc---ccCCCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999 99999999997 8899998 9999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhH
Q psy17953 161 KLLAIRIKEKKKAKE 175 (234)
Q Consensus 161 kLLakr~ke~k~~~~ 175 (234)
+||++|++|++++++
T Consensus 214 klla~r~~e~k~~~~ 228 (293)
T 2xzm_Y 214 KFLSEWKKQRAAKAH 228 (293)
T ss_dssp HHHHHHHHHHHHTHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999998763
No 3
>3j20_G 30S ribosomal protein S6E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.88 E-value=1.7e-23 Score=170.28 Aligned_cols=52 Identities=37% Similarity=0.588 Sum_probs=50.9
Q ss_pred cccccCCCCCeEEEeecCCCccccCCCCCccceeeecceeecCCcceEEEEEE
Q psy17953 5 TKWWLCPKDRRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVV 57 (234)
Q Consensus 5 ~~~~gVlt~gRVrLLLskG~scYRPrr~GERKRKSVRGciV~~disvLNlvIV 57 (234)
-|+|||+|++||+|||++| +||||+++||||||||||||||+||+|||++||
T Consensus 73 PMkqgV~~~~rvrlLLskG-~gyrprr~GeRkRKsVRG~~V~~~i~~lNlviv 124 (125)
T 3j20_G 73 PMRPDIHGPRRVRVLLSKG-PGFRPKEKGERRKKTVRGNTISPEIVQVNVKLV 124 (125)
T ss_dssp BBCTTCCSSSEEEEECCSS-CSSCCCCSSCCCEEEEECSSCCTTEEEEEEEEC
T ss_pred cccCCcCCCceEEEEecCC-CccCCCCCCcEeeEEeeceEEcCCeEEEEEEEe
Confidence 5899999999999999999 999999999999999999999999999999997
No 4
>2oxg_Z SOXZ protein; immunoglobulin-like beta-sandwich fold, transport protein; 1.40A {Paracoccus denitrificans} PDB: 2ox5_Z 2oxh_Z*
Probab=17.98 E-value=97 Score=23.63 Aligned_cols=41 Identities=17% Similarity=0.336 Sum_probs=29.7
Q ss_pred CeEEEeecCCCccccCCCCCccceeeecceeecCCcceEEEEEEeccCCCC
Q psy17953 14 RRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEI 64 (234)
Q Consensus 14 gRVrLLLskG~scYRPrr~GERKRKSVRGciV~~disvLNlvIVKkGek~I 64 (234)
-+|++|++ ||..+|.|+-.+ |..|-+++ |+-+.+..|++.+
T Consensus 20 ~~vk~~I~------HPMetGl~~d~~--g~~IPa~~--I~~v~~~~ng~~v 60 (108)
T 2oxg_Z 20 VTVKALIS------HKMESGQRKDAD--GKLIPRSI--INRFTCELNGVNV 60 (108)
T ss_dssp EEEEEEEC------CCCBCSCCBCTT--SCBCCCBC--EEEEEEEETTEEE
T ss_pred EEEEEEeE------CCCccccccCcC--CCccchHh--eEEEEEEECCEEE
Confidence 35888887 789999988874 88888874 5556666665543
No 5
>3gmi_A UPF0348 protein MJ0951; protein with unknown function, structural genomics, PSI, MCS protein structure initiative; 1.91A {Methanocaldococcus jannaschii}
Probab=15.05 E-value=46 Score=30.46 Aligned_cols=35 Identities=20% Similarity=0.184 Sum_probs=27.0
Q ss_pred CCCCCCCCCCccCCCchhhhhhhhCCCCcCccccce
Q psy17953 65 PGLTDTTIPRRLGPKRASKIRKLFNLSKEDDVRQYV 100 (234)
Q Consensus 65 pgLTD~tvPrrLGPKRAskIRKLFnLSKeDDVrkyV 100 (234)
+++...++|| +++=-||.||+++--...|++.+||
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 4566677887 4689999999999755556788887
No 6
>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=14.96 E-value=78 Score=24.82 Aligned_cols=22 Identities=18% Similarity=0.163 Sum_probs=12.4
Q ss_pred ccCCCCCeEEEeecCCCccccCCCC
Q psy17953 8 WLCPKDRRVRLLLSKGHSCYRPRRT 32 (234)
Q Consensus 8 ~gVlt~gRVrLLLskG~scYRPrr~ 32 (234)
.+|-+.+|--.|.| +||||+|.
T Consensus 46 g~lsG~~rsLvvFS---sgYrP~r~ 67 (102)
T 2pp6_A 46 GPVEGNGKNVVVFS---GNVIPRRG 67 (102)
T ss_dssp ------CEEEEECC---SSCCCCTT
T ss_pred CCccCCceEEEEec---CCcccCCC
Confidence 35667777777775 88999875
No 7
>1v8h_A Sulfur oxidation protein SOXZ; lithotrophic sulfur oxidation, unknown function, structural genomics; 1.20A {Thermus thermophilus HB8} SCOP: b.1.18.19
Probab=14.24 E-value=1.4e+02 Score=22.68 Aligned_cols=41 Identities=20% Similarity=0.419 Sum_probs=29.3
Q ss_pred CeEEEeecCCCccccCCCCCccceeeecceeecCCcceEEEEEEeccCCCC
Q psy17953 14 RRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEI 64 (234)
Q Consensus 14 gRVrLLLskG~scYRPrr~GERKRKSVRGciV~~disvLNlvIVKkGek~I 64 (234)
-+|++|++ ||..+|-|+-.+ |..|-+++ |+-+.+..|++.+
T Consensus 19 ~~vk~~I~------HPmetGl~~D~~--g~~iPa~~--I~~v~~~~ng~~v 59 (107)
T 1v8h_A 19 FRLQVVAQ------HPNEPGTRRDAE--GKLIPAKY--INLVEVYFEGEKV 59 (107)
T ss_dssp EEEEEEEC------CCCBCSCCBCTT--SCBCCCBC--EEEEEEEETTEEE
T ss_pred EEEEEEeE------CCCCcccccccc--CCcCchHh--eEEEEEEECCEEE
Confidence 35788887 789999988773 88887774 5556666665543
No 8
>4bbk_A Kindlin-1, fermitin family homolog 1; PH domain, cell adhesion; 2.10A {Mus musculus}
Probab=9.11 E-value=97 Score=26.12 Aligned_cols=15 Identities=27% Similarity=0.718 Sum_probs=12.8
Q ss_pred eeeecceeecCCcce
Q psy17953 37 RKSVRGCIVDSNLSV 51 (234)
Q Consensus 37 RKSVRGciV~~disv 51 (234)
.-.++||+|.+|+++
T Consensus 73 ~inLrGCEVtPDVnv 87 (165)
T 4bbk_A 73 KLNLRGCEIVPDVNV 87 (165)
T ss_dssp EEECTTCEEEEEEET
T ss_pred EEecCccEEeccccc
Confidence 458999999999876
No 9
>2out_A MU-like prophage flumu protein GP35, protein HI1507 in MU-like prophage flumu region...; structural genomics, hypothetical protein; NMR {Haemophilus influenzae} SCOP: a.140.3.2 d.344.1.1
Probab=8.82 E-value=1.2e+02 Score=24.64 Aligned_cols=15 Identities=27% Similarity=0.454 Sum_probs=10.4
Q ss_pred EeecCCCccccCCCCCc
Q psy17953 18 LLLSKGHSCYRPRRTGE 34 (234)
Q Consensus 18 LLLskG~scYRPrr~GE 34 (234)
++++.-|.||| |.|-
T Consensus 11 ~v~~~~~~GyR--RAG~ 25 (131)
T 2out_A 11 VVQNRIKEGYR--RAGF 25 (131)
T ss_dssp EEECCSCSCCC--CSSS
T ss_pred EEEecccCcce--ecce
Confidence 45567799998 5554
No 10
>4a1x_C CP5-46-A peptide; hydrolase-peptide complex, unmodified inhibitory peptides; 1.90A {Synthetic construct} PDB: 4a1t_C
Probab=8.59 E-value=1.8e+02 Score=17.58 Aligned_cols=14 Identities=43% Similarity=0.764 Sum_probs=9.7
Q ss_pred CeEEEeecCCCccccC
Q psy17953 14 RRVRLLLSKGHSCYRP 29 (234)
Q Consensus 14 gRVrLLLskG~scYRP 29 (234)
||.-.||. | +||-|
T Consensus 4 grlvylld-g-pgydp 17 (26)
T 4a1x_C 4 GRLVYLLD-G-PGYDP 17 (26)
T ss_pred ceEEEEec-C-CCCCc
Confidence 45556666 6 88987
Done!