Query 043633
Match_columns 128
No_of_seqs 103 out of 206
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 11:28:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043633.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043633hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2pyw_A Uncharacterized protein 99.9 1.6E-25 5.6E-30 182.1 14.5 124 2-125 295-418 (420)
2 2olc_A MTR kinase, methylthior 99.9 7.3E-24 2.5E-28 170.3 13.5 115 2-127 281-395 (397)
3 2jq3_A Apolipoprotein C-III; A 56.3 2.4 8.1E-05 26.9 0.0 24 7-30 47-70 (79)
4 1taf_A TFIID TBP associated fa 35.0 33 0.0011 21.0 2.9 21 47-67 27-47 (68)
5 1ku5_A HPHA, archaeal histon; 34.9 41 0.0014 20.1 3.3 21 47-67 32-52 (70)
6 2ket_A Cathelicidin-6; antimic 32.7 36 0.0012 16.8 2.2 16 14-29 3-18 (27)
7 1qp6_A Protein (alpha2D); de n 31.8 27 0.00091 18.3 1.7 15 15-29 4-18 (35)
8 2yfw_B Histone H4, H4; cell cy 29.2 50 0.0017 21.5 3.2 21 47-67 55-75 (103)
9 1tzy_D Histone H4-VI; histone- 28.1 50 0.0017 21.5 3.0 21 47-67 55-75 (103)
10 3iz5_k 60S ribosomal protein L 27.9 21 0.00073 24.2 1.2 28 52-81 40-67 (112)
11 2gia_B MRP1, mitochondrial RNA 27.6 27 0.00092 25.0 1.7 24 49-72 133-156 (187)
12 1taf_B TFIID TBP associated fa 26.1 67 0.0023 19.7 3.2 21 47-67 32-52 (70)
13 2hue_C Histone H4; mini beta s 25.9 60 0.0021 20.2 3.0 20 48-67 37-56 (84)
14 1id3_B Histone H4; nucleosome 23.1 70 0.0024 20.8 3.0 20 48-67 55-74 (102)
No 1
>2pyw_A Uncharacterized protein; 5-methylthioribose kinase, plant methionine recycling, refol transferase; HET: SR1 ADP; 1.90A {Arabidopsis thaliana}
Probab=99.93 E-value=1.6e-25 Score=182.14 Aligned_cols=124 Identities=69% Similarity=1.201 Sum_probs=107.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCchhhhhCChhhHHHHHHHHHHHHHHHHHhhhHHHHhhhhcCCcccc
Q 043633 2 YKEWILRTIEETWTLFHQKFTALWHQHKDGSGEAYLPEIYNKPELQQLVQEKFMKDLFHDTLGFGAAKMIRRIVGVAHVE 81 (128)
Q Consensus 2 ~~~~ll~~I~~~w~~F~~~F~~lw~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~il~D~~GfAG~e~iRRiiG~A~V~ 81 (128)
|++|++..+..+|+.|.++|.++|++...+.+..|...+|.++...++++++|++++|+|++||+||+||||++|+|||+
T Consensus 295 ~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~g~~~~~ 374 (420)
T 2pyw_A 295 YKQWILRTIEQTWNLFNKRFIALWDQNKDGPGEAYLADIYNNTEVLKFVQENYMRNLLHDSLGFGAAKMIRRIVGVAHVE 374 (420)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSCCTTCTTTSCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSCCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccc
Confidence 57899999999999999999999999875311134333332122245689999999999999999999999999999999
Q ss_pred CCcCCCChhHHHHHHHHHHHHHHHHHHcCcCCCCHHHHHHHHHH
Q 043633 82 DFESIKDDSKRATCERQALELAKLLLKERRNFQAITEVVSAIRK 125 (128)
Q Consensus 82 D~~~I~d~~~R~~aer~aL~ig~~li~~r~~~~~i~~~~~~~~~ 125 (128)
||++|+|.+.|..+++.+|++|+.||++|+++++++++++++++
T Consensus 375 ~~~~~~~~~~r~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 418 (420)
T 2pyw_A 375 DFESIEEDKRRAICERSALEFAKMLLKERRKFKSIGEVVSAIQQ 418 (420)
T ss_dssp HHHTCCSHHHHHHHHHHHHHHHHHHHHHGGGCCSHHHHHHHHHH
T ss_pred ccccCCCHHHHHHHHHHHHHHHHHHHhcchhcCCHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999884
No 2
>2olc_A MTR kinase, methylthioribose kinase; kinase ADP-2HO complex, transferase; HET: CPS ADP; 2.00A {Bacillus subtilis} SCOP: d.144.1.6 PDB: 2pu8_A* 2pui_A* 2pul_A* 2pun_A* 2pup_A*
Probab=99.91 E-value=7.3e-24 Score=170.35 Aligned_cols=115 Identities=27% Similarity=0.561 Sum_probs=104.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCchhhhhCChhhHHHHHHHHHHHHHHHHHhhhHHHHhhhhcCCcccc
Q 043633 2 YKEWILRTIEETWTLFHQKFTALWHQHKDGSGEAYLPEIYNKPELQQLVQEKFMKDLFHDTLGFGAAKMIRRIVGVAHVE 81 (128)
Q Consensus 2 ~~~~ll~~I~~~w~~F~~~F~~lw~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~il~D~~GfAG~e~iRRiiG~A~V~ 81 (128)
+++|+++++.++|+.|.++|.++|++... +.| ...++ ++++|+.++|.|++||+|++||||++|++||+
T Consensus 281 ~~~~~~~~~~~l~~~y~~~f~~~~~~~~~---~~~----~~~~~----~~~~~~~~~~~~~~~~~~~~~~~r~~g~~~~~ 349 (397)
T 2olc_A 281 DREPLYEHVNQVWETFEETFSEAWQKDSL---DVY----ANIDG----YLTDTLSHIFEEAIGFAGCELIRRTIGLAHVA 349 (397)
T ss_dssp GGHHHHHHHHHHHHHHHHHHHHHHHHHCC---CTT----TTSTT----HHHHHHHHHHHHHHHHHHHHHHHHHHSSSCCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC---cch----hccHH----HHHHHHHHHHHHHHHHHHHHHHHHhccccccc
Confidence 67899999999999999999999999874 222 12333 89999999999999999999999999999999
Q ss_pred CCcCCCChhHHHHHHHHHHHHHHHHHHcCcCCCCHHHHHHHHHHhc
Q 043633 82 DFESIKDDSKRATCERQALELAKLLLKERRNFQAITEVVSAIRKLH 127 (128)
Q Consensus 82 D~~~I~d~~~R~~aer~aL~ig~~li~~r~~~~~i~~~~~~~~~~~ 127 (128)
|+++|+|++.|..+++.+|.+|+.||++|++++++++++++++.+.
T Consensus 350 d~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~ 395 (397)
T 2olc_A 350 DLDTIVPFDKRIGRKRLALETGTAFIEKRSEFKTITDVIELFKLLV 395 (397)
T ss_dssp HHHTCSSHHHHHHHHHHHHHHHHHHHHHTTTCCSHHHHHHHHHHHT
T ss_pred hhccCCCHHHHHHHHHHHHHHHHHHHhChhhcCCHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999998753
No 3
>2jq3_A Apolipoprotein C-III; APOCIII, structure, dynamics, receptor, lipid binding protein; NMR {Homo sapiens}
Probab=56.30 E-value=2.4 Score=26.95 Aligned_cols=24 Identities=17% Similarity=0.740 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcC
Q 043633 7 LRTIEETWTLFHQKFTALWHQHKD 30 (128)
Q Consensus 7 l~~I~~~w~~F~~~F~~lw~~~~~ 30 (128)
++.++.-|.+|..+|+.+|+....
T Consensus 47 ~sSLkdYWSt~~gKfsgfwds~pe 70 (79)
T 2jq3_A 47 FSSLKDYWSTVKDKFSEFWDLDPE 70 (79)
T ss_dssp TTHHHHHHHHHHHHTTGGGSCSSC
T ss_pred hHHHHHHHHHHhhhhhhhhhcCCC
Confidence 357789999999999999998773
No 4
>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3
Probab=35.03 E-value=33 Score=20.97 Aligned_cols=21 Identities=5% Similarity=0.170 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhH
Q 043633 47 QQLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 47 ~~~~~e~~l~~il~D~~GfAG 67 (128)
+-.|...|..+|++|+..||.
T Consensus 27 L~e~~~ry~~~il~dA~~~a~ 47 (68)
T 1taf_A 27 LLEFTFRYVTSILDDAKVYAN 47 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456899999999999999985
No 5
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2
Probab=34.88 E-value=41 Score=20.08 Aligned_cols=21 Identities=10% Similarity=0.202 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhH
Q 043633 47 QQLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 47 ~~~~~e~~l~~il~D~~GfAG 67 (128)
...+.+.|+.++++|+.-||-
T Consensus 32 l~e~~~~~~~~v~~dA~~~a~ 52 (70)
T 1ku5_A 32 LAEYLEEYAIEIAKKAVEFAR 52 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 466899999999999999873
No 6
>2ket_A Cathelicidin-6; antimicrobial peptide, antibiotic, antimicrobial, fungicide, pyrrolidone carboxylic acid, secreted; NMR {Bos taurus}
Probab=32.70 E-value=36 Score=16.84 Aligned_cols=16 Identities=25% Similarity=0.592 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHhhhc
Q 043633 14 WTLFHQKFTALWHQHK 29 (128)
Q Consensus 14 w~~F~~~F~~lw~~~~ 29 (128)
+..|..+|.+++++-+
T Consensus 3 fkrfrkkfkklfkkls 18 (27)
T 2ket_A 3 FKRFRKKFKKLFKKLS 18 (27)
T ss_dssp HHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHhcC
Confidence 4578899999998866
No 7
>1qp6_A Protein (alpha2D); de novo design, protein design, protein folding, bisecting U motif, four-helix bundle, helix-turn-helix, de novo protein; NMR {Synthetic} SCOP: k.16.1.1
Probab=31.78 E-value=27 Score=18.35 Aligned_cols=15 Identities=27% Similarity=0.682 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHhhhc
Q 043633 15 TLFHQKFTALWHQHK 29 (128)
Q Consensus 15 ~~F~~~F~~lw~~~~ 29 (128)
+..+.+|.+||+...
T Consensus 4 eelekkfkelwkgpr 18 (35)
T 1qp6_A 4 EELEKKFKELWKGPR 18 (35)
T ss_dssp HHHHHHHHHHHSSSC
T ss_pred HHHHHHHHHHhcCCc
Confidence 356789999998766
No 8
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140}
Probab=29.16 E-value=50 Score=21.47 Aligned_cols=21 Identities=14% Similarity=0.398 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhH
Q 043633 47 QQLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 47 ~~~~~e~~l~~il~D~~GfAG 67 (128)
+...+++|+.+|.+|+.-||=
T Consensus 55 l~~vle~~~~~V~~dA~~~a~ 75 (103)
T 2yfw_B 55 VRNVLKTFLESVIRDAVTYTE 75 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356899999999999999974
No 9
>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ...
Probab=28.15 E-value=50 Score=21.45 Aligned_cols=21 Identities=14% Similarity=0.398 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhH
Q 043633 47 QQLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 47 ~~~~~e~~l~~il~D~~GfAG 67 (128)
+...+++|+.+|.+|+.-||=
T Consensus 55 l~~vle~~~~~V~~dA~~~a~ 75 (103)
T 1tzy_D 55 TRGVLKVFLENVIRDAVTYTE 75 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356799999999999999974
No 10
>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=27.86 E-value=21 Score=24.15 Aligned_cols=28 Identities=25% Similarity=0.561 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHhhhHHHHhhhhcCCcccc
Q 043633 52 EKFMKDLFHDTLGFGAAKMIRRIVGVAHVE 81 (128)
Q Consensus 52 e~~l~~il~D~~GfAG~e~iRRiiG~A~V~ 81 (128)
-.|..++.+|.+|||=.| ||++.+-+|.
T Consensus 40 tkfVrdiIrEV~GfAPYE--rR~mELLKvs 67 (112)
T 3iz5_k 40 VHFVRNLIREVAGFAPYE--KRITELLKVG 67 (112)
T ss_dssp SSCSHHHHHHHHHHHHHH--HHHHHTTCCS
T ss_pred hHHHHHHHHHHhcCchHH--HHHHHHHHhh
Confidence 457889999999999998 6999888873
No 11
>2gia_B MRP1, mitochondrial RNA-binding protein 1; T. brucei, guide RNA, matchmaking, RNA editing, translation; 1.89A {Trypanosoma brucei} SCOP: d.18.1.4 PDB: 2gid_B 2gje_D
Probab=27.64 E-value=27 Score=25.01 Aligned_cols=24 Identities=21% Similarity=0.504 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHhh
Q 043633 49 LVQEKFMKDLFHDTLGFGAAKMIR 72 (128)
Q Consensus 49 ~~~e~~l~~il~D~~GfAG~e~iR 72 (128)
--+|+||+.-|.++.||+----+|
T Consensus 133 VTlEHFLesALtESFGF~qH~~a~ 156 (187)
T 2gia_B 133 VTLEHFLESALDESFGFRQHYATR 156 (187)
T ss_dssp HHHHHHHHHHHHHTTCHHHHHC--
T ss_pred hhHHHHHHHHhhhhhchHHHHHHH
Confidence 357999999999999999766555
No 12
>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3
Probab=26.12 E-value=67 Score=19.65 Aligned_cols=21 Identities=14% Similarity=0.031 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhH
Q 043633 47 QQLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 47 ~~~~~e~~l~~il~D~~GfAG 67 (128)
+....++++.+|.+|++-|+-
T Consensus 32 LA~dvEyr~~eI~qeA~kfmr 52 (70)
T 1taf_B 32 LAEDVSIKLKRIVQDAAKFMN 52 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999999974
No 13
>2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B
Probab=25.93 E-value=60 Score=20.21 Aligned_cols=20 Identities=15% Similarity=0.418 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHhhhH
Q 043633 48 QLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 48 ~~~~e~~l~~il~D~~GfAG 67 (128)
...++.|+.+|.+|++-||-
T Consensus 37 ~~~l~~~~~~I~~dA~~~a~ 56 (84)
T 2hue_C 37 RGVLKVFLENVIRDAVTYTE 56 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55789999999999999973
No 14
>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1
Probab=23.05 E-value=70 Score=20.80 Aligned_cols=20 Identities=15% Similarity=0.488 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHhhhH
Q 043633 48 QLVQEKFMKDLFHDTLGFGA 67 (128)
Q Consensus 48 ~~~~e~~l~~il~D~~GfAG 67 (128)
...++.|+.+|.+|++-||=
T Consensus 55 ~~~le~fi~~I~~dA~~~a~ 74 (102)
T 1id3_B 55 RAVLKSFLESVIRDSVTYTE 74 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 56889999999999999983
Done!