Query psy1718
Match_columns 142
No_of_seqs 101 out of 188
Neff 2.3
Searched_HMMs 29240
Date Fri Aug 16 23:54:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1718.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1718hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3izc_k 60S ribosomal protein R 100.0 7.3E-34 2.5E-38 209.1 0.1 60 1-60 24-83 (100)
2 4a18_Q RPL36, 60S ribosomal pr 100.0 4.8E-33 1.6E-37 206.0 4.1 60 1-60 25-87 (104)
3 3iz5_k 60S ribosomal protein L 100.0 1.8E-33 6E-38 210.5 -0.6 60 1-60 27-86 (112)
4 3qks_C DNA double-strand break 30.3 17 0.0006 22.2 0.9 13 27-39 4-16 (34)
5 3r0a_A Putative transcriptiona 21.6 64 0.0022 21.8 2.6 25 17-41 14-38 (123)
6 4b6i_A SMA2266; signaling prot 15.8 28 0.00096 25.1 -0.3 16 94-109 76-91 (102)
7 3c57_A Two component transcrip 15.7 1.3E+02 0.0044 19.4 3.0 43 24-66 25-82 (95)
8 3e5r_O PP38, glyceraldehyde-3- 15.5 53 0.0018 26.7 1.2 33 77-109 285-319 (337)
9 1gad_O D-glyceraldehyde-3-phos 15.2 55 0.0019 26.6 1.2 33 77-109 280-314 (330)
10 3cmc_O GAPDH, glyceraldehyde-3 14.9 59 0.002 26.5 1.4 34 76-109 280-315 (334)
No 1
>3izc_k 60S ribosomal protein RPL36 (L36E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_k 3u5e_i 3u5i_i 4b6a_i
Probab=99.97 E-value=7.3e-34 Score=209.08 Aligned_cols=60 Identities=40% Similarity=0.640 Sum_probs=59.1
Q ss_pred CCcCcccCCCCcchHHHHHHhhhhccccchhHhHHHHhhccchhhHHHHHHhhhhceeec
Q psy1718 1 MRPSRLKGIQTKNTKFTRDLVREVCGHAPYEKRAMELLKVSKDKRALKFLKRRVSLYVLR 60 (142)
Q Consensus 1 ~R~SrrKG~lTKrtKfVRdiIREV~GFAPYERRaMELLKVSKDKRALKFaKKRLGTHiRr 60 (142)
+|||+++|.+|||++||||||+|||||||||+|+|||||+|+|||||||+|||||||+||
T Consensus 24 ~r~s~~kg~~tK~tkfVrdiIrEV~GfaPYErr~mELLkvskdKrAlKf~KKRlGth~RA 83 (100)
T 3izc_k 24 PKISYKKGAASNRTKFVRSLVREIAGLSPYERRLIDLIRNSGEKRARKVAKKRLGSFTRA 83 (100)
T ss_dssp CCCCSSCSHHHHHHHHHHHHHHHHHHHTTSCCHHHHHHHHHTSCCSHHHHHHHHHHHSCS
T ss_pred CCcccccCCCCchhHHHHHHHHHHhcCchhHHHHHHHHHhcchHHHHHHHHHHhhHHHHH
Confidence 589999999999999999999999999999999999999999999999999999999998
No 2
>4a18_Q RPL36, 60S ribosomal protein L36; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_Q 4a1b_Q 4a1d_Q
Probab=99.97 E-value=4.8e-33 Score=205.96 Aligned_cols=60 Identities=35% Similarity=0.529 Sum_probs=58.9
Q ss_pred CCcCcccCCCCcchHHHHHHhhhhccccchhHhHHHHhhccc---hhhHHHHHHhhhhceeec
Q psy1718 1 MRPSRLKGIQTKNTKFTRDLVREVCGHAPYEKRAMELLKVSK---DKRALKFLKRRVSLYVLR 60 (142)
Q Consensus 1 ~R~SrrKG~lTKrtKfVRdiIREV~GFAPYERRaMELLKVSK---DKRALKFaKKRLGTHiRr 60 (142)
+|||+++|.+|||++||||||+|||||||||+|+|||||+|+ |||||||+|||||||+||
T Consensus 25 ~r~s~rkg~ltK~tkfVrdiIrEV~GfaPYErR~mELLKvsk~~~dKRAlKf~KKRlGth~RA 87 (104)
T 4a18_Q 25 HSAVQRKGKLGKRVALVRQVIREVTGFAPYEKRIIELIKAGSAKDSKKATKIARKRLGTHRRA 87 (104)
T ss_dssp CCSTTCCSCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCSHHHHHHHHHHHHHHHCSHHHH
T ss_pred CCcccccCCCcchHHHHHHHHHHHhcCchhHHHHHHHHHcccchhhHHHHHHHHHHhhhHHHH
Confidence 589999999999999999999999999999999999999999 999999999999999998
No 3
>3iz5_k 60S ribosomal protein L36 (L36E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_k
Probab=99.97 E-value=1.8e-33 Score=210.45 Aligned_cols=60 Identities=57% Similarity=0.768 Sum_probs=50.7
Q ss_pred CCcCcccCCCCcchHHHHHHhhhhccccchhHhHHHHhhccchhhHHHHHHhhhhceeec
Q psy1718 1 MRPSRLKGIQTKNTKFTRDLVREVCGHAPYEKRAMELLKVSKDKRALKFLKRRVSLYVLR 60 (142)
Q Consensus 1 ~R~SrrKG~lTKrtKfVRdiIREV~GFAPYERRaMELLKVSKDKRALKFaKKRLGTHiRr 60 (142)
+|||+++|.+|||++||||||+|||||||||+|+|||||+|+|||||||+|||||||+||
T Consensus 27 ~r~s~~kg~ltK~tkfVrdiIrEV~GfAPYErR~mELLKvskDKRALKf~KKRlGth~RA 86 (112)
T 3iz5_k 27 PRPSDRKGKGTKRVHFVRNLIREVAGFAPYEKRITELLKVGKDKRALKVAKRKLGTHKRA 86 (112)
T ss_dssp ---------CTTTSSCSHHHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHSSCCSHHHHH
T ss_pred CCcccccCCCcchhHHHHHHHHHHhcCchHHHHHHHHHHhhhhHHHHHHHHHHhhHHHHH
Confidence 589999999999999999999999999999999999999999999999999999999998
No 4
>3qks_C DNA double-strand break repair protein MRE11; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_C* 3qku_C*
Probab=30.25 E-value=17 Score=22.22 Aligned_cols=13 Identities=15% Similarity=0.498 Sum_probs=9.3
Q ss_pred ccchhHhHHHHhh
Q psy1718 27 HAPYEKRAMELLK 39 (142)
Q Consensus 27 FAPYERRaMELLK 39 (142)
|.|.|.+++||+-
T Consensus 4 Ft~~ElKiI~l~G 16 (34)
T 3qks_C 4 FTEFELKIIDILG 16 (34)
T ss_dssp --CHHHHHHHHC-
T ss_pred ccHHHHHHHHHHc
Confidence 7899999999964
No 5
>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}
Probab=21.55 E-value=64 Score=21.79 Aligned_cols=25 Identities=8% Similarity=0.094 Sum_probs=20.6
Q ss_pred HHHHhhhhccccchhHhHHHHhhcc
Q psy1718 17 TRDLVREVCGHAPYEKRAMELLKVS 41 (142)
Q Consensus 17 VRdiIREV~GFAPYERRaMELLKVS 41 (142)
+.++...+.|+.|.|.+++..|...
T Consensus 14 ~~~~l~~~~gLt~~e~~il~~L~~~ 38 (123)
T 3r0a_A 14 VEDVIKCALNLTKADLNVMKSFLNE 38 (123)
T ss_dssp HHHHHHHHHTCCHHHHHHHHHHHHS
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHC
Confidence 4667788899999999999988743
No 6
>4b6i_A SMA2266; signaling protein; 1.95A {Serratia marcescens}
Probab=15.78 E-value=28 Score=25.14 Aligned_cols=16 Identities=19% Similarity=0.195 Sum_probs=12.3
Q ss_pred ccCceeeeeccccccc
Q psy1718 94 KIPTTFVKCESFYHNS 109 (142)
Q Consensus 94 ~~~~~~~~~~~~~~~~ 109 (142)
..+.++.||-.|||..
T Consensus 76 g~~~~llKCldlyHS~ 91 (102)
T 4b6i_A 76 QGTYHTLDCLSLQNAS 91 (102)
T ss_dssp SSCCHHHHHHGGGTCH
T ss_pred CchhHHHHHHHhhchH
Confidence 3455689999999964
No 7
>3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A
Probab=15.68 E-value=1.3e+02 Score=19.37 Aligned_cols=43 Identities=19% Similarity=0.203 Sum_probs=22.9
Q ss_pred hccccchhHhHHHHh-------------hc--cchhhHHHHHHhhhhceeecceEEEe
Q psy1718 24 VCGHAPYEKRAMELL-------------KV--SKDKRALKFLKRRVSLYVLRSAVVLC 66 (142)
Q Consensus 24 V~GFAPYERRaMELL-------------KV--SKDKRALKFaKKRLGTHiRr~~~~~~ 66 (142)
+..+.|-|+.++.|+ .+ +.-+.-++=+.++||.+.+.-++.++
T Consensus 25 l~~Lt~~e~~vl~l~~~g~s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~l~~~a 82 (95)
T 3c57_A 25 LSGLTDQERTLLGLLSEGLTNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQAAVFA 82 (95)
T ss_dssp --CCCHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHHHHHHHHTCCCCCC-----
T ss_pred HhcCCHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 345566666666554 22 22355566778889988888777665
No 8
>3e5r_O PP38, glyceraldehyde-3-phosphate dehydrogenase, cytosolic; GAPDH, RICE, oxidoreductase, cytoplasm, glycolysis, NAD; HET: NAD; 2.30A {Oryza sativa subsp} PDB: 3e6a_O
Probab=15.50 E-value=53 Score=26.71 Aligned_cols=33 Identities=33% Similarity=0.542 Sum_probs=26.6
Q ss_pred hhhhhhcccccceeeccccC--ceeeeeccccccc
Q psy1718 77 TRDIIRDRESSHFQLSQKIP--TTFVKCESFYHNS 109 (142)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 109 (142)
..|++.|..||-|...+.+- ..|||--|+|.|-
T Consensus 285 s~d~~~~~~s~~~d~~~~~~~~~~~~k~~~wydne 319 (337)
T 3e5r_O 285 STDFVGDSRSSIFDAKAGIALNDNFVKLVAWYDNE 319 (337)
T ss_dssp GGGGTTCCCSEEEETTTCEEEETTEEEEEEEECTT
T ss_pred eeeecCCCCceEEecccCcEecCCEEEEEEEeCCC
Confidence 45888999999998887764 4699988888884
No 9
>1gad_O D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase (aldehyde(D)-NAD+(A)); HET: NAD; 1.80A {Escherichia coli} SCOP: c.2.1.3 d.81.1.1 PDB: 1dc4_A* 1dc3_A 1dc6_A* 1dc5_A* 1s7c_A* 1gae_O* 2vyn_A* 2vyv_A*
Probab=15.16 E-value=55 Score=26.62 Aligned_cols=33 Identities=30% Similarity=0.416 Sum_probs=26.4
Q ss_pred hhhhhhcccccceeeccccC--ceeeeeccccccc
Q psy1718 77 TRDIIRDRESSHFQLSQKIP--TTFVKCESFYHNS 109 (142)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 109 (142)
..|++.|..||-|...+.+- ..|||--|+|.|-
T Consensus 280 s~d~~~~~~s~~~d~~~~~~~~~~~~k~~~wydne 314 (330)
T 1gad_O 280 STDFNGEVCTSVFDAKAGIALNDNFVKLVSWYDNE 314 (330)
T ss_dssp GGGGTTCCSSEEEETTTCEEEETTEEEEEEEECTT
T ss_pred eeeECCCCcceEEecccCeEecCCEEEEEEEECCC
Confidence 45888899999998887764 4699988888874
No 10
>3cmc_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase; microspectrophotometry, reaction intermediate, dehydrogenase phosphate binding site; HET: G3H NAD; 1.77A {Bacillus stearothermophilus} SCOP: c.2.1.3 d.81.1.1 PDB: 2gd1_O 1gd1_O* 1npt_O* 1nqa_O* 1nqo_O* 1nq5_O* 2dbv_O* 1dbv_O* 3dbv_O* 4dbv_O*
Probab=14.90 E-value=59 Score=26.52 Aligned_cols=34 Identities=26% Similarity=0.314 Sum_probs=27.2
Q ss_pred hhhhhhhcccccceeeccccC--ceeeeeccccccc
Q psy1718 76 ATRDIIRDRESSHFQLSQKIP--TTFVKCESFYHNS 109 (142)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 109 (142)
...|++.|..||-|...+.+- ..|||--|+|.|-
T Consensus 280 vs~d~~~~~~s~~~d~~~~~~~~~~~~k~~~wydne 315 (334)
T 3cmc_O 280 VSRDYNGSTVSSTIDALSTMVIDGKMVKVVSWYDNE 315 (334)
T ss_dssp CGGGGTTCCSSEEEEGGGCEEETTTEEEEEEEECTT
T ss_pred eeeeeCCCCccceeccccCeEecCCEEEEEEEeCCC
Confidence 345888999999998887764 4699998888884
Done!