Query psy4659
Match_columns 132
No_of_seqs 106 out of 231
Neff 4.1
Searched_HMMs 29240
Date Fri Aug 16 22:29:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4659.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/4659hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1kcm_A PITP alpha, phosphatidy 100.0 9.4E-45 3.2E-49 299.5 8.0 101 10-126 139-239 (270)
2 2h88_D Succinate dehydrogenase 34.4 10 0.00035 26.4 0.5 15 82-96 48-62 (103)
3 1wr3_A Ubiquitin-protein ligas 16.1 44 0.0015 18.3 0.7 11 40-50 1-11 (36)
4 4dkp_A Clade A/E 93TH057 HIV-1 12.2 86 0.0029 26.7 1.6 22 40-79 332-353 (353)
5 3r8s_N 50S ribosomal protein L 11.2 1.1E+02 0.0037 22.1 1.8 29 85-121 44-72 (120)
6 1wq6_A AML1-ETO; NHR2, oncopro 10.9 41 0.0014 22.7 -0.6 14 117-130 18-31 (72)
7 1gd8_A 50S ribosomal protein L 10.9 1.3E+02 0.0044 21.6 2.0 29 85-121 44-72 (118)
8 3vr8_D Succinate dehydrogenase 10.8 1E+02 0.0034 23.3 1.5 15 81-95 96-110 (156)
9 2zjr_K 50S ribosomal protein L 10.1 1.2E+02 0.0042 21.7 1.7 30 84-121 43-72 (116)
10 2djy_A SMAD ubiquitination reg 8.9 1.1E+02 0.0037 17.7 0.8 12 39-50 3-14 (42)
No 1
>1kcm_A PITP alpha, phosphatidylinositol transfer protein alpha; phospholipid binding protein, phospholipid transport, binding protein; 2.00A {Mus musculus} SCOP: d.129.3.4 PDB: 1t27_A* 1uw5_A* 2a1l_A*
Probab=100.00 E-value=9.4e-45 Score=299.48 Aligned_cols=101 Identities=35% Similarity=0.560 Sum_probs=91.3
Q ss_pred eeccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHHHH
Q psy4659 10 VGNTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQSKV 89 (132)
Q Consensus 10 ~~~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~kV 89 (132)
+-++|+++++|+++||+++|||++|+|+|||||||.+||++++.. +...| ||||||||+|+|+|||||++|
T Consensus 139 ~~IDIa~~~~~~~~dY~~eeDp~~f~S~ktgRGPL~~~W~~~~~~---~~~~P------iMc~YKLv~v~f~~wGlq~rv 209 (270)
T 1kcm_A 139 IYIDIADRSQVLSKDYKAEEDPAKFKSVKTGRGPLGPNWKQELVN---QKDCP------YMCAYKLVTVKFKWWGLQNKV 209 (270)
T ss_dssp EEECTTCGGGSCGGGCCGGGCTTTCCCTTTCCCCCCTTHHHHHTT---STTCC------CEEEEEEEEEEECCSSCHHHH
T ss_pred EEEecccCcccccccCCcccCcchheecccCCCCCCcchhhhccc---cCCCc------eEEEEEEEEEEEeecCchHHH
Confidence 356787778899999999999999999999999999999987631 23357 999999999999999999999
Q ss_pred HHHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 90 ERFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 90 E~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
|+|||++ +|++|+++|||||||+|||++|.
T Consensus 210 E~fI~~~-------~r~i~~~~HRq~fcW~DeW~glT 239 (270)
T 1kcm_A 210 ENFIHKQ-------EKRLFTNFHRQLFCWLDKWVDLT 239 (270)
T ss_dssp HHHHHHH-------HHHHHHHHHHHHHHTHHHHTTCC
T ss_pred HHHHHHH-------HHHHHHHHHHHHhccHHHHcCCC
Confidence 9999997 69999999999999999999984
No 2
>2h88_D Succinate dehydrogenase cytochrome B, small subun; complex II, membrane protein, heme protein, iron sulfur PROT cytochrome B, oxidoreductase; HET: FAD BHG HEM UNL; 1.74A {Gallus gallus} PDB: 1yq4_D* 1yq3_D* 2fbw_D* 2h89_D* 2wqy_D* 1zoy_D* 1zp0_D* 3abv_D* 3ae1_D* 3ae2_D* 3ae3_D* 3ae4_D* 3ae5_D* 3ae6_D* 3ae7_D* 3ae8_D* 3ae9_D* 3aea_D* 3aeb_D* 3aec_D* ...
Probab=34.38 E-value=10 Score=26.44 Aligned_cols=15 Identities=13% Similarity=0.647 Sum_probs=13.3
Q ss_pred ccchHHHHHHHHHHh
Q psy4659 82 YWGIQSKVERFIADT 96 (132)
Q Consensus 82 ~wGlQ~kVE~fI~k~ 96 (132)
.||||.-+|++||+-
T Consensus 48 ~~G~q~vI~DYv~~~ 62 (103)
T 2h88_D 48 HWGLGQVITDYVHGD 62 (103)
T ss_dssp HHHHHHHHHHHCCSH
T ss_pred HHhcCeeeecccccc
Confidence 589999999999963
No 3
>1wr3_A Ubiquitin-protein ligase NEDD4-2; all-beta; NMR {Mus musculus}
Probab=16.10 E-value=44 Score=18.33 Aligned_cols=11 Identities=36% Similarity=0.860 Sum_probs=8.9
Q ss_pred CCCCCCcchHH
Q psy4659 40 GRGPLSENWIS 50 (132)
Q Consensus 40 GRGPL~~~W~~ 50 (132)
|-+||.++|.+
T Consensus 1 g~~~LP~GWe~ 11 (36)
T 1wr3_A 1 GSPPLPPGWEE 11 (36)
T ss_dssp CCSCSCTTEEE
T ss_pred CCCCCCCCCEE
Confidence 56899999964
No 4
>4dkp_A Clade A/E 93TH057 HIV-1 GP120 core; CD4 mimic, AWS-I-50, viral protein-I complex; HET: NAG EPE 0LL; 1.80A {Human immunodeficiency virus type 1} PDB: 4dko_A* 4dkq_A* 4dkr_A* 3se8_G* 3ngb_G* 3se9_G* 3tgt_A* 3u7y_G* 3rjq_A* 3tgs_A* 3tgr_A* 3tih_A 3tgq_A* 3jwo_A* 2qad_A* 3hi1_G* 3dnl_B 3dnn_B 3dno_B 3dnl_C ...
Probab=12.16 E-value=86 Score=26.70 Aligned_cols=22 Identities=41% Similarity=0.939 Sum_probs=17.1
Q ss_pred CCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEE
Q psy4659 40 GRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQ 79 (132)
Q Consensus 40 GRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~Ve 79 (132)
|.|-..++|+.++- -||+|+|+
T Consensus 332 gGGdmrdnWRsELy------------------kYKvV~Ie 353 (353)
T 4dkp_A 332 GGGNIKDNWRSELY------------------KYKVVQIE 353 (353)
T ss_dssp CCCCTHHHHHHHHT------------------TEEEEEEC
T ss_pred CCCchhhhhhhhhc------------------CceEEEEC
Confidence 67888889998752 39999875
No 5
>3r8s_N 50S ribosomal protein L17; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_N 3j19_N 2wwq_N 3oat_N* 3oas_N* 3ofd_N 3ofc_N 3ofr_N* 3ofz_N* 3og0_N 3ofq_N 3r8t_N 3i1n_N 1p85_L 1p86_L 1vs8_N 1vs6_N 2aw4_N 2awb_N 1vt2_N ...
Probab=11.25 E-value=1.1e+02 Score=22.11 Aligned_cols=29 Identities=17% Similarity=0.141 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhhhhccc
Q psy4659 85 IQSKVERFIADTGKPSGRALPRHFRRALRFAVTLDKP 121 (132)
Q Consensus 85 lQ~kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~De 121 (132)
++.-+|+.|..+- +. =+...|||+.|+.+
T Consensus 44 lr~~aEklITlaK-------~~-~l~~rR~a~~~l~~ 72 (120)
T 3r8s_N 44 LRRVVEPLITLAK-------TD-SVANRRLAFARTRD 72 (120)
T ss_dssp HHHHHHHHHHHTT-------SC-CHHHHHHHHHSSCC
T ss_pred HHHHHHHHHHHHh-------cC-cHHHHHHHHHHcCC
Confidence 6788999999852 22 34567999999864
No 6
>1wq6_A AML1-ETO; NHR2, oncoprotein; 2.00A {Homo sapiens}
Probab=10.93 E-value=41 Score=22.65 Aligned_cols=14 Identities=14% Similarity=0.311 Sum_probs=12.0
Q ss_pred hhcccccchhhhhh
Q psy4659 117 TLDKPCRCLESMLA 130 (132)
Q Consensus 117 cW~Dew~~l~~~~~ 130 (132)
.|.|||.-+..||.
T Consensus 18 ~~~eeWkhi~~mLn 31 (72)
T 1wq6_A 18 EWAEEWKHLDHLLN 31 (72)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred cHHHHHHhHHHHHH
Confidence 69999999998873
No 7
>1gd8_A 50S ribosomal protein L17; two domains, ribosomal protein S8-like domain, Trp repressor-like domain, helix-turn-helix motif; 2.30A {Thermus thermophilus} SCOP: d.188.1.1 PDB: 1vsa_L 1vsp_L 1yl3_0 2b66_R 2b9n_R 2b9p_R 2hgj_Q 2hgq_Q 2hgu_Q 2j01_R 2j03_R 2jl6_R 2jl8_R 2v47_R 2v49_R 2wdi_R 2wdj_R 2wdl_R 2wdn_R 2wh2_R ...
Probab=10.91 E-value=1.3e+02 Score=21.61 Aligned_cols=29 Identities=17% Similarity=0.093 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhhhhccc
Q psy4659 85 IQSKVERFIADTGKPSGRALPRHFRRALRFAVTLDKP 121 (132)
Q Consensus 85 lQ~kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~De 121 (132)
++.-+|+.|... .+-=+...|||+.|+-.
T Consensus 44 lr~~aEklITla--------K~g~l~~rR~a~~~l~~ 72 (118)
T 1gd8_A 44 LRGFVDHLIHLA--------KRGDLHARRLVLRDLQD 72 (118)
T ss_dssp HHHHHHHHHHHH--------HHCSHHHHHHHHHHSCC
T ss_pred HHHHHHHHHhhh--------hcCCHHHHHHHHHHhCC
Confidence 678899999985 33345679999999854
No 8
>3vr8_D Succinate dehydrogenase [ubiquinone] cytochrome B subunit, mitochondrial; membrane protein, reductase, mitochondria MEMB oxidoreductase; HET: FAD HEM RQX EPH; 2.81A {Ascaris suum} PDB: 3vrb_D*
Probab=10.84 E-value=1e+02 Score=23.33 Aligned_cols=15 Identities=20% Similarity=0.419 Sum_probs=12.9
Q ss_pred eccchHHHHHHHHHH
Q psy4659 81 NYWGIQSKVERFIAD 95 (132)
Q Consensus 81 ~~wGlQ~kVE~fI~k 95 (132)
-+||||.-|+++|.+
T Consensus 96 ~h~GfqsvI~DYVp~ 110 (156)
T 3vr8_D 96 VHWGVWGVVNDYGRP 110 (156)
T ss_dssp HHHHHHHHHHHHSCH
T ss_pred HHHhhhhhhheecch
Confidence 479999999999954
No 9
>2zjr_K 50S ribosomal protein L17; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.188.1.1 PDB: 1nwx_L* 1nwy_L* 1sm1_L* 1xbp_L* 2zjp_K* 2zjq_K 1nkw_L 3cf5_K* 3dll_K* 3pio_K* 3pip_K* 1pnu_L 1pny_L 1vor_O 1vou_O 1vow_O 1voy_O 1vp0_O
Probab=10.08 E-value=1.2e+02 Score=21.69 Aligned_cols=30 Identities=13% Similarity=0.047 Sum_probs=22.4
Q ss_pred chHHHHHHHHHHhCCCCCCcccHHHHHHHHHhhhhccc
Q psy4659 84 GIQSKVERFIADTGKPSGRALPRHFRRALRFAVTLDKP 121 (132)
Q Consensus 84 GlQ~kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~De 121 (132)
-++.-+|+.|...- + -=+...|||+.|+-+
T Consensus 43 elr~~aEklITlaK-------~-~~l~~rR~a~~~l~~ 72 (116)
T 2zjr_K 43 ELRPFVEQLITTAK-------G-GDLHSRRLVAQDIHD 72 (116)
T ss_dssp HHHHHHHHHHHHHT-------T-CSHHHHHHHTTSCCC
T ss_pred HHHHHHHHHhhHHh-------c-CCHHHHHHHHHHhCC
Confidence 37888999999852 3 235668999999854
No 10
>2djy_A SMAD ubiquitination regulatory factor 2; beta sheet, polyproline type II helix, PPII, ligase/signaling protein complex; NMR {Homo sapiens} PDB: 2lb1_A
Probab=8.86 E-value=1.1e+02 Score=17.66 Aligned_cols=12 Identities=42% Similarity=0.925 Sum_probs=9.3
Q ss_pred cCCCCCCcchHH
Q psy4659 39 TGRGPLSENWIS 50 (132)
Q Consensus 39 TGRGPL~~~W~~ 50 (132)
.+.+||.++|..
T Consensus 3 ~~~~~LP~GWe~ 14 (42)
T 2djy_A 3 LGSGPLPPGWEI 14 (42)
T ss_dssp CCCSCCCSSEEE
T ss_pred CCcCCCCcCcEE
Confidence 356899999954
Done!