Query 024612
Match_columns 265
No_of_seqs 114 out of 436
Neff 6.7
Searched_HMMs 29240
Date Mon Mar 25 11:18:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024612.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024612hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1bde_A VPR protein; AIDS, HIV, 12.4 53 0.0018 19.8 0.3 19 17-35 2-20 (35)
2 2z2q_B Coat protein gamma; wil 12.2 1.6E+02 0.0056 18.4 2.5 40 207-249 3-42 (44)
3 1nov_D Nodamura virus coat pro 9.3 2.3E+02 0.008 17.7 2.5 40 207-249 3-42 (44)
4 3bpo_A Interleukin 13; IL4, IL 9.2 1.7E+02 0.006 22.4 2.3 54 20-73 57-121 (127)
5 1kbh_A ACTR, nuclear receptor 8.0 3.5E+02 0.012 17.2 3.0 25 8-32 7-33 (47)
6 2kxa_A Haemagglutinin HA2 chai 5.2 2.9E+02 0.01 15.8 1.3 10 241-250 1-10 (30)
7 3d8l_A ORF12; lactococcal phag 5.0 4E+02 0.014 18.4 2.2 25 51-75 3-28 (91)
8 3bu8_A Telomeric repeat-bindin 4.4 4.5E+02 0.015 22.4 2.6 34 8-41 39-73 (235)
9 2fyz_B Fusion protein, fusion 3.8 5.9E+02 0.02 16.2 2.2 25 3-27 22-46 (48)
10 2bgc_A PRFA; bacterial infecti 3.6 1.1E+03 0.039 18.2 4.6 57 12-68 129-196 (238)
No 1
>1bde_A VPR protein; AIDS, HIV, viral protein, VPR fragment, helix; NMR {Synthetic} SCOP: j.11.1.1 PDB: 1dsj_A
Probab=12.44 E-value=53 Score=19.79 Aligned_cols=19 Identities=21% Similarity=0.125 Sum_probs=15.1
Q ss_pred HhcccchHHHHHHHHHHHH
Q 024612 17 YLNKAEARDKICRAIQYGS 35 (265)
Q Consensus 17 ~l~t~~GRDKllr~lQY~~ 35 (265)
|-+|.+|-+.+.|++|-..
T Consensus 2 yGDTw~GveaiiriLQq~L 20 (35)
T 1bde_A 2 YGDTWAGVEAIIRILQQLL 20 (35)
T ss_dssp CCHHHHHHHHHHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHH
Confidence 4578889999999998653
No 2
>2z2q_B Coat protein gamma; wild type, icosahedral virus, virus/RNA complex; 2.70A {Flock house virus} PDB: 2q26_B 3lob_D 2bbv_D
Probab=12.20 E-value=1.6e+02 Score=18.39 Aligned_cols=40 Identities=13% Similarity=0.154 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHHHHHHHHhhhccCCCCccCcchhhHHHHHHhH
Q 024612 207 SNERSLALVKSAMDIVVAVGLLQLAPKKVTPRVTGAFGFVTSL 249 (265)
Q Consensus 207 ~~~~~l~lv~~~~D~~i~~~~l~~~~~~~~~~~vg~~G~iSsl 249 (265)
.|++...+++..+-. .+.++-+-+....|+-|+.++++++
T Consensus 3 ~WErVk~ilks~l~a---~S~iPGPVG~~asGi~~l~~l~~~l 42 (44)
T 2z2q_B 3 MWERVKSIIKSSLAA---ASNIPGPIGVAASGISGLSALFEGF 42 (44)
T ss_pred HHHHHHHHHHHHHHH---HhcCCCchhHHHHhHHHHHHHHHHh
Confidence 466666777765543 3334322244566777777777764
No 3
>1nov_D Nodamura virus coat proteins; insect virus, icosahedral VIRU; 3.50A {Nodamura virus}
Probab=9.27 E-value=2.3e+02 Score=17.71 Aligned_cols=40 Identities=18% Similarity=0.205 Sum_probs=21.8
Q ss_pred hhHHHHHHHHHHHHHHHHhhhccCCCCccCcchhhHHHHHHhH
Q 024612 207 SNERSLALVKSAMDIVVAVGLLQLAPKKVTPRVTGAFGFVTSL 249 (265)
Q Consensus 207 ~~~~~l~lv~~~~D~~i~~~~l~~~~~~~~~~~vg~~G~iSsl 249 (265)
.|++...+++..+-.. +.++-+-+....|+-|+.++++++
T Consensus 3 mWErVk~ilks~l~~a---S~iPGPVG~~asGi~gl~~l~~~~ 42 (44)
T 1nov_D 3 FWERVRSILKSGLNFA---STIPGPVGVAATGIKGIIETIGSL 42 (44)
T ss_pred HHHHHHHHHHHHHHHH---hcCCCchhHHHHhHHHHHHHHHHh
Confidence 4666677777655433 333321133556666666666653
No 4
>3bpo_A Interleukin 13; IL4, IL13, IL4R, IL13R, cytokine, glycoprotein, IM response, membrane, phosphoprotein, secreted; HET: NAG; 3.00A {Homo sapiens} PDB: 1ijz_A 1ik0_A 3g6d_A 3l5w_I 3l5x_A* 3l5y_A 1ga3_A
Probab=9.20 E-value=1.7e+02 Score=22.42 Aligned_cols=54 Identities=20% Similarity=0.141 Sum_probs=28.7
Q ss_pred ccchHHHHHHHHHHHHHHc--cc-----CCc----chHhhHHhhhhhhhHHHHhhcchHHHHHhh
Q 024612 20 KAEARDKICRAIQYGSKFL--SD-----GQP----GTAQNVDKSTSLARKVFRLFKFVNDLHALI 73 (265)
Q Consensus 20 t~~GRDKllr~lQY~~kl~--~~-----~~~----~~~~~l~~~ls~aRk~~Rl~k~l~~~~~~~ 73 (265)
+...-.|..|+++-.|-=- +. +.+ +.++=++.-+.-.|++||-++|-+.|..++
T Consensus 57 ~C~~IqktqRiL~~lc~~k~~a~qv~~~~~~DTkIEv~qfik~LL~~~r~~fR~g~f~~~~~~~~ 121 (127)
T 3bpo_A 57 GCSAIEKTQRMLSGFCPHKVSAGQFSSLHVRDTKIEVAQFVKDLLLHLKKLFREGQFNRNFESII 121 (127)
T ss_dssp SCGGGHHHHHHHTTSSCC--------CCSCCCCEECHHHHHHHHHHHHHHHHHHTCC--------
T ss_pred hhHHHHHHHHHhcccCCCCCccccceeeeccchHHHHHHHHHHHHHHHHHHHccCchhcccceeE
Confidence 3455666777765443111 11 112 235678888999999999999988887664
No 5
>1kbh_A ACTR, nuclear receptor coactivator; nuclear hormone receptors, ACTR, CBP, transcription; NMR {Homo sapiens} SCOP: a.153.1.1
Probab=8.03 E-value=3.5e+02 Score=17.20 Aligned_cols=25 Identities=28% Similarity=0.345 Sum_probs=20.4
Q ss_pred HHHHHHHHHHhcccc--hHHHHHHHHH
Q 024612 8 RAELALVVLYLNKAE--ARDKICRAIQ 32 (265)
Q Consensus 8 ~~~l~~~~~~l~t~~--GRDKllr~lQ 32 (265)
...+++++.+|+.++ |.+-+-|.+.
T Consensus 7 ~aLl~QL~~~L~~~d~~~LeEiDrALG 33 (47)
T 1kbh_A 7 RALLDQLHTLLSNTDATGLEEIDRALG 33 (47)
T ss_dssp HHHHHHHHHHTTSSCCTTHHHHHHHTT
T ss_pred HHHHHHHHHHHhccchhhHHHHHHhcC
Confidence 567899999999888 8887777665
No 6
>2kxa_A Haemagglutinin HA2 chain peptide; fusion peptide, viral protein, immune system; NMR {Influenza a virus}
Probab=5.18 E-value=2.9e+02 Score=15.76 Aligned_cols=10 Identities=40% Similarity=0.893 Sum_probs=5.9
Q ss_pred hHHHHHHhHH
Q 024612 241 GAFGFVTSLI 250 (265)
Q Consensus 241 g~~G~iSsli 250 (265)
|++|.|++.|
T Consensus 1 GlFGAIAGfi 10 (30)
T 2kxa_A 1 GLFGAIAGFI 10 (30)
T ss_dssp CHHHHHHHHH
T ss_pred Ccchhhhhhh
Confidence 4566666554
No 7
>3d8l_A ORF12; lactococcal phage P2, viral protein; 2.90A {Lactococcus phage SK1}
Probab=4.96 E-value=4e+02 Score=18.42 Aligned_cols=25 Identities=24% Similarity=0.076 Sum_probs=16.9
Q ss_pred hhhhhhhHH-HHhhcchHHHHHhhcc
Q 024612 51 KSTSLARKV-FRLFKFVNDLHALISP 75 (265)
Q Consensus 51 ~~ls~aRk~-~Rl~k~l~~~~~~~~~ 75 (265)
.++|.+||+ +--||.+-.-+.+++.
T Consensus 3 kqlstarkfkmitgkdlfqqqkamdt 28 (91)
T 3d8l_A 3 KQLSTARKFKMITGKDLFQQQKAMDT 28 (91)
T ss_dssp CCCCHHHHHHHHHSSCHHHHHHHHHH
T ss_pred chhhhhhhhhhhccHHHHHHHHHHhh
Confidence 468888886 3446777776777653
No 8
>3bu8_A Telomeric repeat-binding factor 2; TRF2 TRFH domain TRF2 dimerization domain TIN2 peptide, alternative splicing, cell cycle, chromosomal protein; 2.15A {Homo sapiens} SCOP: a.146.1.1 PDB: 3bua_A* 1h6p_A
Probab=4.44 E-value=4.5e+02 Score=22.36 Aligned_cols=34 Identities=18% Similarity=0.200 Sum_probs=24.8
Q ss_pred HHHHHHHH-HHhcccchHHHHHHHHHHHHHHcccC
Q 024612 8 RAELALVV-LYLNKAEARDKICRAIQYGSKFLSDG 41 (265)
Q Consensus 8 ~~~l~~~~-~~l~t~~GRDKllr~lQY~~kl~~~~ 41 (265)
++.++-++ .=++....-+|.+|++|+.+|+..+-
T Consensus 39 rdi~eall~~~l~~~~~~~k~iri~QfLsRI~eG~ 73 (235)
T 3bu8_A 39 RDIMQALLVRPLGKEHTVSRLLRVMQCLSRIEEGE 73 (235)
T ss_dssp HHHHHHHTTSCCCCCHHHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHhCcccccccchhHHHHHHHHHHHHcCC
Confidence 44455444 55566666789999999999998773
No 9
>2fyz_B Fusion protein, fusion glycoprotein F0; mumps virus fusion protein core, protein binding; 2.20A {Mumps virus} SCOP: h.3.2.1
Probab=3.79 E-value=5.9e+02 Score=16.17 Aligned_cols=25 Identities=20% Similarity=0.090 Sum_probs=16.4
Q ss_pred chHHHHHHHHHHHHHhcccchHHHH
Q 024612 3 TLDATRAELALVVLYLNKAEARDKI 27 (265)
Q Consensus 3 ~~~~~~~~l~~~~~~l~t~~GRDKl 27 (265)
+|+.+.+.+++--++|++..++-|+
T Consensus 22 sL~~A~~~I~eSn~~L~~V~~~~~~ 46 (48)
T 2fyz_B 22 SLQNTVKYIKESNHQLQSVIVNSKI 46 (48)
T ss_dssp HHHHHHHHHHHHHHHHTTTTC----
T ss_pred HHHHHHHHHHHHHHHHHHhcccccc
Confidence 5677777888888888887776554
No 10
>2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulat transcription; HET: PR3; 2.3A {Listeria monocytogenes} SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A
Probab=3.64 E-value=1.1e+03 Score=18.23 Aligned_cols=57 Identities=14% Similarity=0.093 Sum_probs=36.4
Q ss_pred HHHHHHhcccchHHHHHHHHHHHHHHcccC--------C-cchHhhHHhhhhhhh--HHHHhhcchHH
Q 024612 12 ALVVLYLNKAEARDKICRAIQYGSKFLSDG--------Q-PGTAQNVDKSTSLAR--KVFRLFKFVND 68 (265)
Q Consensus 12 ~~~~~~l~t~~GRDKllr~lQY~~kl~~~~--------~-~~~~~~l~~~ls~aR--k~~Rl~k~l~~ 68 (265)
.+.+.-+...+.++|+.+++...+.-.... . +-+-+.+.+.++.+| .+-|.++-+..
T Consensus 129 ~~~~~~~~~~~~~~Rla~~L~~l~~~~g~~~~~~~~i~~~~~t~~~lA~~lG~sr~etvsR~l~~l~~ 196 (238)
T 2bgc_A 129 LAKFNDFSINGKLGSICSQLLILTYVYGKETPDGIKITLDNLTMQELGYSSGIAHSSAVSRIISKLKQ 196 (238)
T ss_dssp HHHHHHHHTTHHHHHHHHHHHHHHHHHEEEETTEEEECCSCCCHHHHHHHTTCCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHhCCCCCCceEEEeccCCHHHHHHHhCCChHHHHHHHHHHHHH
Confidence 333444556667788877777655443211 1 233468899999998 68888876654
Done!