Query 028964
Match_columns 201
No_of_seqs 55 out of 57
Neff 3.6
Searched_HMMs 29240
Date Mon Mar 25 08:17:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028964.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028964hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3r9z_A WHY2 protein; stwhy2, s 100.0 4.9E-69 1.7E-73 449.7 14.3 152 50-201 2-155 (178)
2 1l3a_A PBF-2, P24: plant trans 100.0 1.4E-64 5E-69 435.3 16.4 150 52-201 31-182 (227)
3 1aoc_A Coagulogen; coagulation 85.1 0.44 1.5E-05 39.0 2.4 52 60-118 78-129 (175)
4 1vq8_1 50S ribosomal protein L 27.4 19 0.00065 25.0 0.8 14 103-116 42-55 (57)
5 1ylx_A Hypothetical protein AP 21.2 1.6E+02 0.0055 22.5 5.0 41 54-97 39-79 (103)
6 3j21_e 50S ribosomal protein L 19.9 30 0.001 24.4 0.7 14 103-116 42-55 (62)
7 2quo_A Heat-labIle enterotoxin 16.6 1E+02 0.0035 23.7 3.0 61 107-174 36-100 (126)
8 3iz5_l 60S ribosomal protein L 14.9 48 0.0016 25.1 0.8 14 103-116 40-53 (94)
9 2zkr_2 60S ribosomal protein L 11.2 75 0.0026 24.1 0.9 14 103-116 40-53 (97)
10 4ay0_A Chaperone protein CAF1M 10.6 3E+02 0.01 22.6 4.5 59 113-171 90-163 (218)
No 1
>3r9z_A WHY2 protein; stwhy2, single-stranded DNA binding protein, plant, potato, mitochondria, DNA binding protein; 1.75A {Solanum tuberosum} SCOP: d.18.1.0 PDB: 3r9y_A 3ra0_A* 3n1h_A 3n1i_A* 3n1j_A* 3n1k_A* 3n1l_A*
Probab=100.00 E-value=4.9e-69 Score=449.66 Aligned_cols=152 Identities=70% Similarity=1.109 Sum_probs=137.9
Q ss_pred ccCCCCCceeeeceeeeecceeEEEeecCCceeecCCCCeeEeeeceEEEEeeecccCcccccccceeEeeChhhhhhhh
Q 028964 50 SAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLL 129 (201)
Q Consensus 50 ~~~~~~~~rvy~~ysVYkgKaAls~~p~~PtF~~~~sG~~kv~r~G~vlLeFAPavG~RqYDW~kKq~FsLS~tEvG~Ll 129 (201)
+++|.+++|||++|+||||||||+|+|++|+|+.++||+++++|+|+||||||||+|+|||||+|||+|+|||+|||+||
T Consensus 2 ~~~~~~~~rvy~~~sVYkgkAAl~v~pi~Ptf~~~~sg~~~v~R~G~ilLefapa~g~rqYDW~kK~~FsLS~tEvG~Ll 81 (178)
T 3r9z_A 2 ADAGKREGRVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQLFALSATEVGSLI 81 (178)
T ss_dssp -----CTTCCCCCEEEECSSEEEEEEEECCCEEECTTSSEEECSCCEEEEEEEEEEETTEECGGGCEEEEECHHHHHHHH
T ss_pred CCCCCCCCccccCeeEECCceEEEEEecCCcceEcCCCCEEEeeCCEEEEEEeecccccccccccCeEEEeCHHHHHHHH
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCcceeeeCccCcCCCccccceeeEEEeCCCC--ceEEEEEeecccCCCceeeeccchhHHHHHHHhhcC
Q 028964 130 TMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACSV 201 (201)
Q Consensus 130 slg~~~s~effHDP~~g~S~~G~v~K~LkIep~~dG--~f~nLsV~n~~~~~~~~~~vPVt~aEfavlrs~~~f 201 (201)
+++++++|||||||+||+|++|+|+|+|+|||++|| +||||||+|++++.+++++||||+|||+|||++|+|
T Consensus 82 sl~~~~s~effHDP~~g~s~~g~v~K~Lkiep~~dgsG~f~~Lsv~n~~~~~~~~~~vpvt~gEfav~~~~~~~ 155 (178)
T 3r9z_A 82 SMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNNLKTNDRFTVPVTTAEFAVMRTAFSF 155 (178)
T ss_dssp TCCTTCCEEEEECC--------CEEEEEEEEECTTSSEEEEEEEEEETTTTEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred HhcccCcceeEeCcccCCCccCCceeEEEEEECCCCcceEEEEEEecccccccccEEEEecHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999998 999999999999999999999999999999999987
No 2
>1l3a_A PBF-2, P24: plant transcriptional regulator PBF-2; single strand DNA binding protein, whirly, transcriptionnal activator, cyclic C4 symmetry; 2.30A {Solanum tuberosum} SCOP: d.18.1.2
Probab=100.00 E-value=1.4e-64 Score=435.31 Aligned_cols=150 Identities=45% Similarity=0.855 Sum_probs=144.5
Q ss_pred CCCCCceeeeceeeeecceeEEEeecCCceeecCCCCeeEeeeceEEEEeeecccCcccccccceeEeeChhhhhhhhhc
Q 028964 52 KGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTM 131 (201)
Q Consensus 52 ~~~~~~rvy~~ysVYkgKaAls~~p~~PtF~~~~sG~~kv~r~G~vlLeFAPavG~RqYDW~kKq~FsLS~tEvG~Llsl 131 (201)
++.+++|||++|+||||||||+|+|++|+|+.++||+++++|+|+|||||||++|+|||||+|||+|+||++|||+||++
T Consensus 31 a~~~~~Rvf~~ysVYkgkAALsv~pi~PtF~~l~sG~~kv~R~G~ILLEFAPa~g~RqYDW~kKq~FsLS~tEvG~LLsl 110 (227)
T 1l3a_A 31 QGASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQVFSLSVTEIGSIISL 110 (227)
T ss_dssp ----CCCEECCEEEECSSEEEEEEEECCEEEECSTTEEEEEECCEEEEEEEEBCSTTCBCGGGCEEEEECHHHHHHHHTC
T ss_pred CCCCCCeeecceeEEccceEEEEEecCCcceEcCCCcEEEeeCCEEEEEEeeccCccccccccceEEEeCHHHHhHHHhc
Confidence 58889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcceeeeCccCcCCCccccceeeEEEeCCCC--ceEEEEEeecccCCCceeeeccchhHHHHHHHhhcC
Q 028964 132 GPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACSV 201 (201)
Q Consensus 132 g~~~s~effHDP~~g~S~~G~v~K~LkIep~~dG--~f~nLsV~n~~~~~~~~~~vPVt~aEfavlrs~~~f 201 (201)
+++++|||||||+||+|++|+++|+|+|||+||| +||||||+|++.+.+++++||||+|||+|||++|+|
T Consensus 111 ~~~~s~effHdP~~g~s~~g~v~K~LkIep~pdGsG~f~nLSV~nk~~~~de~~~VpVs~gEfaV~rsl~~f 182 (227)
T 1l3a_A 111 GTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNKLINLDENIYIPVTKAEFAVLVSAFNF 182 (227)
T ss_dssp CTTCCEEEEECSCCSSSCCCCCEEEEEEEECTTSSEEEEEEEEEEGGGTEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred ccccceEEEecCCcCCcccccceeEEEEeecCCCcccEEEEEeeecccCCcceEEEechHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999997 999999999999999999999999999999999987
No 3
>1aoc_A Coagulogen; coagulation factor, clottable protein, cystine knot superfamily; 2.00A {Tachypleus tridentatus} SCOP: g.17.1.5
Probab=85.07 E-value=0.44 Score=39.04 Aligned_cols=52 Identities=27% Similarity=0.577 Sum_probs=46.3
Q ss_pred eeceeeeecceeEEEeecCCceeecCCCCeeEeeeceEEEEeeecccCcccccccceeE
Q 028964 60 FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHF 118 (201)
Q Consensus 60 y~~ysVYkgKaAls~~p~~PtF~~~~sG~~kv~r~G~vlLeFAPavG~RqYDW~kKq~F 118 (201)
|+||+-|++.+-.+.+..-|.|.-.-+|.++ |++| ||.+|-||--|+.|-.|
T Consensus 78 f~pf~hf~secpvstrdcepvfgyt~a~efr------vivq-apragfrqcvwqhkcry 129 (175)
T 1aoc_A 78 FPPFTHFKSECPVSTRDCEPVFGYTVAGEFR------VIVQ-APRAGFRQCVWQHKCRF 129 (175)
T ss_dssp STTCCCCSSBCCEEEECCCCSEEEBTTCCEE------EECC-BTTTTBCBCCCEEEETT
T ss_pred CCCcccccccCCcccccccccccceecceEE------EEEe-CchhhhHHHHHhhhccc
Confidence 6999999999999999999999998888776 4555 99999999999999765
No 4
>1vq8_1 50S ribosomal protein L37E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.2 PDB: 1vq4_1* 1vq5_1* 1vq6_1* 1vq7_1* 1s72_1* 1vq9_1* 1vqk_1* 1vql_1* 1vqm_1* 1vqn_1* 1vqo_1* 1vqp_1* 1yhq_1* 1yi2_1* 1yij_1* 1yit_1* 1yj9_1* 1yjn_1* 1yjw_1* 2otj_1* ...
Probab=27.36 E-value=19 Score=25.04 Aligned_cols=14 Identities=29% Similarity=0.757 Sum_probs=11.7
Q ss_pred ecccCcccccccce
Q 028964 103 PAIGERKYDWAKKQ 116 (201)
Q Consensus 103 PavG~RqYDW~kKq 116 (201)
|+.--|+|+|+.|-
T Consensus 42 pa~r~R~ynWs~Ka 55 (57)
T 1vq8_1 42 KSAKRRDYEWQSKA 55 (57)
T ss_dssp TCSSCCCCGGGSCT
T ss_pred chhhhcCcchhhhh
Confidence 77778999999883
No 5
>1ylx_A Hypothetical protein APC35702; dimer, structural genomics, PSI, protein structure initiative; 1.60A {Geobacillus stearothermophilus} SCOP: d.82.5.1
Probab=21.23 E-value=1.6e+02 Score=22.52 Aligned_cols=41 Identities=22% Similarity=0.501 Sum_probs=30.1
Q ss_pred CCCceeeeceeeeecceeEEEeecCCceeecCCCCeeEeeeceE
Q 028964 54 SLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVI 97 (201)
Q Consensus 54 ~~~~rvy~~ysVYkgKaAls~~p~~PtF~~~~sG~~kv~r~G~v 97 (201)
.+..|.|.+|+|=|-.-++.+.- | |.+...|.+.+.+.+|-
T Consensus 39 Gegn~YY~GYTVkKdd~~~~ih~--P-fikdedG~La~ekqeWT 79 (103)
T 1ylx_A 39 GEGNRYYVGYTINKDDEMITIHM--P-FVKNERGELALEKQEWT 79 (103)
T ss_dssp CSTTEEEEEEEEEETTEEEEEEE--E-EEECTTSCEEECCSCEE
T ss_pred CCCceEEEEEEEccCCeEEEEec--c-ceecCCCceeeecceeE
Confidence 56789999999999887776653 2 66677777766665553
No 6
>3j21_e 50S ribosomal protein L37E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=19.86 E-value=30 Score=24.42 Aligned_cols=14 Identities=43% Similarity=0.677 Sum_probs=11.0
Q ss_pred ecccCcccccccce
Q 028964 103 PAIGERKYDWAKKQ 116 (201)
Q Consensus 103 PavG~RqYDW~kKq 116 (201)
|+.--|+|+|+.|-
T Consensus 42 ps~r~R~YnWs~Ka 55 (62)
T 3j21_e 42 RSRRLRKYRWSKKW 55 (62)
T ss_dssp TCSSCCCCTTCSHH
T ss_pred hhhhhccccHHHHh
Confidence 66667999999874
No 7
>2quo_A Heat-labIle enterotoxin B chain; beta sandwich, claudin-4 binding domain, therapeutic agent; 1.75A {Clostridium perfringens}
Probab=16.55 E-value=1e+02 Score=23.73 Aligned_cols=61 Identities=15% Similarity=0.363 Sum_probs=42.5
Q ss_pred CcccccccceeEeeChhhhhhhhhcCCCCcceeeeCccCcCCCccccceeeEEEe-CCCC---ceEEEEEee
Q 028964 107 ERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKA-NADG---FFISLNVAN 174 (201)
Q Consensus 107 ~RqYDW~kKq~FsLS~tEvG~Llslg~~~s~effHDP~~g~S~~G~v~K~LkIep-~~dG---~f~nLsV~n 174 (201)
...|-|.+|...-|+.+.-|.--.+.+.+-+.|-.- ..+.....|+|. ++|| +|+.+|...
T Consensus 36 snsypwtqklnlhltitatgqkyrilaskivdfniy-------snnfnnlvkleqslgdgvkdhyvdislda 100 (126)
T 2quo_A 36 SNSYPWTQKLNLHLTITATGQKYRILASKIVDFNIY-------SNNFNNLVKLEQSLGDGVKDHYVDISLDA 100 (126)
T ss_dssp SSCBCTTCCEEEEEEECSSSEEEEEEECTTEEEEEE-------ECTTSSCEEEEEECCCSSSCEEEEEEECS
T ss_pred cCCCcchheeeeEEEEEecCcEEeeeeeeeeeeEee-------ccchhHHHHHHHHhcccchhceEEEEecC
Confidence 457999999999999888888777666666665321 122234556666 6777 998888644
No 8
>3iz5_l 60S ribosomal protein L37 (L37E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_l 3izc_l 3izs_l 3o58_d 3o5h_d 3u5e_j 3u5i_j 4b6a_j 1s1i_Y 3jyw_Y
Probab=14.93 E-value=48 Score=25.12 Aligned_cols=14 Identities=50% Similarity=0.952 Sum_probs=11.7
Q ss_pred ecccCcccccccce
Q 028964 103 PAIGERKYDWAKKQ 116 (201)
Q Consensus 103 PavG~RqYDW~kKq 116 (201)
|+.--|+|+|+.|-
T Consensus 40 ps~r~R~YnWs~Ka 53 (94)
T 3iz5_l 40 PAARIRKYNWSVKA 53 (94)
T ss_dssp SCSSCCCCSSSCHH
T ss_pred chhhcccccHHHhh
Confidence 67778999999884
No 9
>2zkr_2 60S ribosomal protein L37E; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} SCOP: i.1.1.1
Probab=11.25 E-value=75 Score=24.09 Aligned_cols=14 Identities=50% Similarity=1.044 Sum_probs=11.4
Q ss_pred ecccCcccccccce
Q 028964 103 PAIGERKYDWAKKQ 116 (201)
Q Consensus 103 PavG~RqYDW~kKq 116 (201)
|+.--|+|+|+.|-
T Consensus 40 pa~k~R~ynWs~Ka 53 (97)
T 2zkr_2 40 PAKRKRKYNWSAKA 53 (97)
T ss_dssp TTSSCCCCSSSSCC
T ss_pred chHhccCcchhhhh
Confidence 56668999999984
No 10
>4ay0_A Chaperone protein CAF1M; amino acid motifs, bacterial capsules, bacterial proteins, gene expression regulation, molecular chaperones, binding; 1.52A {Yersinia pestis} PDB: 1p5v_A 1p5u_A 1z9s_A 2os7_A 3dos_A 3dpb_A 3dsn_A 4b0m_M 4az8_A 4ayf_A
Probab=10.60 E-value=3e+02 Score=22.56 Aligned_cols=59 Identities=15% Similarity=0.228 Sum_probs=36.3
Q ss_pred ccceeEeeChhhhhh-------hhhcCCCCcceeeeCccCcCCCccccceeeEEEeCCCC--------ceEEEE
Q 028964 113 AKKQHFALSPTEVGS-------LLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--------FFISLN 171 (201)
Q Consensus 113 ~kKq~FsLS~tEvG~-------Llslg~~~s~effHDP~~g~S~~G~v~K~LkIep~~dG--------~f~nLs 171 (201)
++-..|=|.+.||.- -|.++.+-.+-+|..|........+..+.|+....+++ ||++|+
T Consensus 90 DRESlf~lnv~eIPp~~~~~~n~lqia~r~rIKlFyRP~~L~~~~~~~~~~L~~~~~g~~l~v~NptPyyvtl~ 163 (218)
T 4ay0_A 90 DKESLKWLCVKGIPPKDEDIWVDVQFAINNCIKLLVRPNELKGTPIQFAENLSWKVDGGKLIAENPSPFYMNIG 163 (218)
T ss_dssp SSCEEEEEEEEEECC--------------CEEEEEEECTTCCSCGGGTGGGCEEEEETTEEEEEECSSSCEEEE
T ss_pred CcEEEEEEEEEecCCCCccccceeEEEEEEEEEEEEcCcccCCChhHhhhceEEEEeCCEEEEECCCCCEEEEE
Confidence 345567777766642 34567777899999998776665566666777665543 888886
Done!