Query 044476
Match_columns 376
No_of_seqs 78 out of 80
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 05:44:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044476.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/044476hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2pag_A Hypothetical protein; n 97.2 0.00032 1.1E-08 60.0 5.5 43 33-76 3-49 (135)
2 2icg_A LIN2918 protein; hypoth 97.0 0.0011 3.7E-08 56.7 6.2 46 30-75 6-53 (160)
3 2prv_A Uncharacterized protein 96.8 0.0014 4.7E-08 56.0 5.0 43 32-75 8-50 (153)
4 3d5p_A Putative glucan synthes 96.4 0.0023 7.8E-08 54.3 3.7 33 43-75 9-41 (144)
5 1neq_A DNA-binding protein NER 36.0 20 0.00069 27.1 2.4 28 298-325 9-36 (74)
6 3oq9_A Tumor necrosis factor r 35.0 32 0.0011 27.4 3.5 28 48-75 23-50 (86)
7 1ich_A TNF-1, tumor necrosis f 32.2 24 0.00082 29.7 2.4 28 48-75 36-63 (112)
8 2amw_A Hypothetical protein NE 28.3 26 0.00089 26.0 1.9 16 54-69 46-61 (83)
9 2kci_A Putative acyl carrier p 28.0 23 0.00078 27.8 1.5 15 54-68 43-57 (87)
10 1dv5_A APO-DCP, APO-D-alanyl c 23.9 22 0.00076 26.5 0.7 15 54-68 45-59 (80)
11 2lki_A Putative uncharacterize 23.8 34 0.0012 27.5 1.8 16 54-69 68-83 (105)
12 3r8n_M 30S ribosomal protein S 23.1 1.2E+02 0.0042 25.3 5.2 38 37-74 32-73 (114)
13 3mva_O Transcription terminati 22.8 88 0.003 29.5 4.8 59 246-319 236-294 (343)
14 2r1j_L Repressor protein C2; p 21.7 69 0.0023 21.7 2.9 25 301-325 8-32 (68)
15 1y7y_A C.AHDI; helix-turn-heli 21.3 73 0.0025 22.0 3.0 26 300-325 15-40 (74)
16 3gzm_A Acyl carrier protein; h 21.0 38 0.0013 24.9 1.5 16 54-69 46-61 (81)
No 1
>2pag_A Hypothetical protein; nysgx, target 10412I, novel fold, structural genomics, PSI-2 structure initiative; 1.60A {Pseudomonas syringae PV} SCOP: d.369.1.1
Probab=97.25 E-value=0.00032 Score=59.98 Aligned_cols=43 Identities=16% Similarity=0.350 Sum_probs=36.4
Q ss_pred HHHHHHHh--CC--cccCCCCCHHHHHHHHHHcCccCCchHHHHHHhc
Q 044476 33 NLIDHLKS--LN--IPILPGLNDAEFSDIESTFNFTFPPDLRSILREG 76 (376)
Q Consensus 33 ~ii~~L~~--~G--v~i~pGLSd~Ef~~IEa~fgF~FPpDlRa~L~~G 76 (376)
.||+.|++ .. +.+.+- |+++|..+|+.+|++||+|+|.||..+
T Consensus 3 ~~ie~L~~~~~~~~~~~~~~-t~e~I~~~E~~Lgi~fP~dYk~fl~~~ 49 (135)
T 2pag_A 3 EVIEQLREANEPVPVPLELP-DEDQLVEIEEQLFINIPFVFKEFLLTV 49 (135)
T ss_dssp HHHHHHHHHCCCCSSCCCCC-CHHHHHHHHHHHTCCCCHHHHHHHHHH
T ss_pred HHHHHHHHhhccCCCCCCCC-CHHHHHHHHHHHCCCCCHHHHHHHHHC
Confidence 67888888 33 444444 999999999999999999999999997
No 2
>2icg_A LIN2918 protein; hypothetical protein, structural genomics, PSI- protein structure initiative, joint center for structural G JCSG; 1.65A {Listeria innocua} SCOP: d.369.1.1
Probab=96.99 E-value=0.0011 Score=56.72 Aligned_cols=46 Identities=7% Similarity=0.058 Sum_probs=40.0
Q ss_pred hHHHHHHHHHhCC--cccCCCCCHHHHHHHHHHcCccCCchHHHHHHh
Q 044476 30 YAKNLIDHLKSLN--IPILPGLNDAEFSDIESTFNFTFPPDLRSILRE 75 (376)
Q Consensus 30 ya~~ii~~L~~~G--v~i~pGLSd~Ef~~IEa~fgF~FPpDlRa~L~~ 75 (376)
+-.+|.+.+.+.. +...+++|+++|..+|+.+|++||.|+|.||..
T Consensus 6 ~~~~i~~~i~~~~~~~~~~~~~s~~~I~~~E~~Lgi~lP~~Yk~fL~~ 53 (160)
T 2icg_A 6 FLEEVDRLITLSGITFHASGTGTPELIKIYQDALGNEFPETYKLFLEK 53 (160)
T ss_dssp HHHHHHHHHHHCCSCCBCCCCCCHHHHHHHHHHHTCCCCHHHHHHHHH
T ss_pred HHHHHHHHHHHcccccccCCCCCHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 4556777776665 677889999999999999999999999999998
No 3
>2prv_A Uncharacterized protein YOBK; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.30A {Bacillus subtilis} SCOP: d.369.1.1
Probab=96.76 E-value=0.0014 Score=55.98 Aligned_cols=43 Identities=19% Similarity=0.322 Sum_probs=36.4
Q ss_pred HHHHHHHHhCCcccCCCCCHHHHHHHHHHcCccCCchHHHHHHh
Q 044476 32 KNLIDHLKSLNIPILPGLNDAEFSDIESTFNFTFPPDLRSILRE 75 (376)
Q Consensus 32 ~~ii~~L~~~Gv~i~pGLSd~Ef~~IEa~fgF~FPpDlRa~L~~ 75 (376)
+++|+.+++.+ ...++.|+++|..+|+.+|++||.|+|.||..
T Consensus 8 ~~li~~~~~~~-~~~~~~see~I~~~E~~Lgi~lP~dYk~fLk~ 50 (153)
T 2prv_A 8 ENFINENKQNA-IFTEGASHENIGRIEENLQCDLPNSYKWFLEK 50 (153)
T ss_dssp HHHHHHHGGGC-EECCCCCHHHHHHHHHHHTSCCCHHHHHHHHH
T ss_pred HHHHHHhhhhc-ccCCCCCHHHHHHHHHHHCCCCCHHHHHHHHH
Confidence 45666666654 45679999999999999999999999999997
No 4
>3d5p_A Putative glucan synthesis regulator of SMI1/KNR4; STR genomics, joint center for structural genomics, JCSG; HET: MSE; 1.45A {Bacteroides fragilis nctc 9343}
Probab=96.35 E-value=0.0023 Score=54.31 Aligned_cols=33 Identities=27% Similarity=0.312 Sum_probs=31.2
Q ss_pred cccCCCCCHHHHHHHHHHcCccCCchHHHHHHh
Q 044476 43 IPILPGLNDAEFSDIESTFNFTFPPDLRSILRE 75 (376)
Q Consensus 43 v~i~pGLSd~Ef~~IEa~fgF~FPpDlRa~L~~ 75 (376)
....+++|++||..+|+.+|++||.|+|.||..
T Consensus 9 ~~~~~~~s~~~I~~~E~~lgi~lP~~Yk~fl~~ 41 (144)
T 3d5p_A 9 WYKKDGASSASIDDVEKLLNTTLPKQYKSFLLW 41 (144)
T ss_dssp EEECCCCCHHHHHHHHHHHTSCCCHHHHHHHHH
T ss_pred cccCCCCCHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 367899999999999999999999999999998
No 5
>1neq_A DNA-binding protein NER; NMR {Enterobacteria phage MU} SCOP: a.35.1.2 PDB: 1ner_A
Probab=36.04 E-value=20 Score=27.08 Aligned_cols=28 Identities=11% Similarity=-0.042 Sum_probs=24.6
Q ss_pred hhhhHHHHHHHhcCCChHHHHHHhccCC
Q 044476 298 RHVRLLSLVLLRAGWSKEDVVYSLNLQD 325 (376)
Q Consensus 298 ~~vd~~S~sL~rAGWS~eDV~eal~~~~ 325 (376)
+|-.++-..|++.|||..++++.+|+.-
T Consensus 9 ~~~~ri~~~l~~~glT~~~LA~~~Gvs~ 36 (74)
T 1neq_A 9 WHRADVIAGLKKRKLSLSALSRQFGYAP 36 (74)
T ss_dssp CCHHHHHHHHHTTSCCHHHHHHHHSSCH
T ss_pred CCHHHHHHHHHHcCCCHHHHHHHHCcCH
Confidence 5778888889999999999999999864
No 6
>3oq9_A Tumor necrosis factor receptor superfamily member; apoptosis, DISC, FAS; 6.80A {Mus musculus}
Probab=34.96 E-value=32 Score=27.42 Aligned_cols=28 Identities=7% Similarity=0.031 Sum_probs=23.6
Q ss_pred CCCHHHHHHHHHHcCccCCchHHHHHHh
Q 044476 48 GLNDAEFSDIESTFNFTFPPDLRSILRE 75 (376)
Q Consensus 48 GLSd~Ef~~IEa~fgF~FPpDlRa~L~~ 75 (376)
||||.+|+.||..+.-..-.-.+.+|..
T Consensus 23 Glse~~Id~I~~~~~~d~~Eq~~qmL~~ 50 (86)
T 3oq9_A 23 NIKEGKIDEIMHDSIQDTAEQKVQLLLC 50 (86)
T ss_dssp TSCHHHHHHHHHTCTTCCTTHHHHHHHH
T ss_pred CCCHhHHHHHHHhCCCChHHHHHHHHHH
Confidence 7999999999999977666777777764
No 7
>1ich_A TNF-1, tumor necrosis factor receptor-1; death domain, apoptosis; NMR {Homo sapiens} SCOP: a.77.1.2
Probab=32.17 E-value=24 Score=29.70 Aligned_cols=28 Identities=25% Similarity=0.275 Sum_probs=20.1
Q ss_pred CCCHHHHHHHHHHcCccCCchHHHHHHh
Q 044476 48 GLNDAEFSDIESTFNFTFPPDLRSILRE 75 (376)
Q Consensus 48 GLSd~Ef~~IEa~fgF~FPpDlRa~L~~ 75 (376)
||||.+|+.||..++=.+-.-...+|..
T Consensus 36 GLse~~Id~Ie~~~~r~l~Eq~yqmLr~ 63 (112)
T 1ich_A 36 GLSDHEIDRLELQNGRCLREAQYSMLAT 63 (112)
T ss_dssp TCCHHHHHHHHHHCCSCHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHCcCChHHHHHHHHHH
Confidence 8999999999999854444444445543
No 8
>2amw_A Hypothetical protein NE2163; all helical protein, structural genomics, PSI, protein structure initiative; NMR {Nitrosomonas europaea}
Probab=28.33 E-value=26 Score=25.99 Aligned_cols=16 Identities=25% Similarity=0.526 Sum_probs=13.4
Q ss_pred HHHHHHHcCccCCchH
Q 044476 54 FSDIESTFNFTFPPDL 69 (376)
Q Consensus 54 f~~IEa~fgF~FPpDl 69 (376)
+..||++||+++|++-
T Consensus 46 v~~lE~~fgi~i~~~~ 61 (83)
T 2amw_A 46 ITALEEYFDFSVDDDE 61 (83)
T ss_dssp HHHHHHHTTCCCCTTT
T ss_pred HHHHHHHhCCeeCHHh
Confidence 4569999999999874
No 9
>2kci_A Putative acyl carrier protein; alpha, ACP, PCP, structural genomics, unknown function, PSI- 2, protein structure initiative; NMR {Geobacter metallireducens gs-15} PDB: 2kjs_A* 2lml_A* 2kwm_A*
Probab=28.02 E-value=23 Score=27.79 Aligned_cols=15 Identities=13% Similarity=0.394 Sum_probs=13.5
Q ss_pred HHHHHHHcCccCCch
Q 044476 54 FSDIESTFNFTFPPD 68 (376)
Q Consensus 54 f~~IEa~fgF~FPpD 68 (376)
+..||.+||++||++
T Consensus 43 i~~lE~eF~I~i~~e 57 (87)
T 2kci_A 43 IVSLEVHYKIKFALG 57 (87)
T ss_dssp HHHHHHHHTCCCCHH
T ss_pred HHHHHHHHCCccCHH
Confidence 578999999999986
No 10
>1dv5_A APO-DCP, APO-D-alanyl carrier protein; 3-helix bundle, transport protein; NMR {Lactobacillus casei} SCOP: a.28.1.3 PDB: 1hqb_A
Probab=23.86 E-value=22 Score=26.48 Aligned_cols=15 Identities=20% Similarity=0.463 Sum_probs=13.3
Q ss_pred HHHHHHHcCccCCch
Q 044476 54 FSDIESTFNFTFPPD 68 (376)
Q Consensus 54 f~~IEa~fgF~FPpD 68 (376)
+..||.+||++||++
T Consensus 45 v~~lE~~fgi~i~~~ 59 (80)
T 1dv5_A 45 LLELQSQFGVDAPVS 59 (80)
T ss_dssp HHHHTTTSCCCCCCS
T ss_pred HHHHHHHhCCcCCHH
Confidence 678999999999975
No 11
>2lki_A Putative uncharacterized protein; helical bundle, acyl carrier, phosphopantetheine, fatty acid biosynthesis, lipid synthesis, PSI-biology; HET: PNS; NMR {Nitrosomonas europaea}
Probab=23.78 E-value=34 Score=27.50 Aligned_cols=16 Identities=25% Similarity=0.526 Sum_probs=13.6
Q ss_pred HHHHHHHcCccCCchH
Q 044476 54 FSDIESTFNFTFPPDL 69 (376)
Q Consensus 54 f~~IEa~fgF~FPpDl 69 (376)
+..||.+||++||++-
T Consensus 68 i~~lE~~FgI~I~~ee 83 (105)
T 2lki_A 68 ITALEEYFDFSVDDDE 83 (105)
T ss_dssp HHHHHHHHTSCCCGGG
T ss_pred HHHHHHHhCCCcCHHH
Confidence 4569999999999874
No 12
>3r8n_M 30S ribosomal protein S13; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_M* 3j18_M 3oaq_M 3ofa_M 3ofx_M 3ofo_M 3r8o_M 4a2i_M 4gd1_M 4gd2_M 3i1m_M 1vs7_M* 3e1a_F 3e1c_F 1vs5_M 3i1o_M 3i1q_M 3i1s_M 3i1z_M 3i21_M ...
Probab=23.05 E-value=1.2e+02 Score=25.34 Aligned_cols=38 Identities=18% Similarity=0.339 Sum_probs=28.2
Q ss_pred HHHhCCccc---CCCCCHHHHHHHHHHcC-ccCCchHHHHHH
Q 044476 37 HLKSLNIPI---LPGLNDAEFSDIESTFN-FTFPPDLRSILR 74 (376)
Q Consensus 37 ~L~~~Gv~i---~pGLSd~Ef~~IEa~fg-F~FPpDlRa~L~ 74 (376)
.|++.||.. .-=|||+|+++|.+... |..+-|||..+.
T Consensus 32 I~~~~gid~~~r~~~Lt~~ei~~l~~~i~~~~ie~dLr~~~~ 73 (114)
T 3r8n_M 32 ILAAAGIAEDVKISELSEGQIDTLRDEVAKFVVEGDLRREIS 73 (114)
T ss_dssp HHHHTTCCTTCCSTTCCHHHHHHHHHHHSSSCTTHHHHHHHH
T ss_pred HHHHcCcCcccCcccCCHHHHHHHHHHHHHhcchHHHHHHHH
Confidence 366777643 23489999999999875 778888877654
No 13
>3mva_O Transcription termination factor, mitochondrial; all alpha-helix, protein-DNA, transcription factor, terminat mitochondria; 2.20A {Homo sapiens} PDB: 3n6s_A* 3mvb_O 3n7q_A*
Probab=22.84 E-value=88 Score=29.47 Aligned_cols=59 Identities=14% Similarity=0.086 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHhCCCCchhhhhhhhcccCCCCCcccccccCCccccchhhhhhhHHHHHHHhcCCChHHHHH
Q 044476 246 LECCMDEVFWRLRDGGWREEEVREMMMVVDCHDDPTSEVQLVGDRTGRGSVERHVRLLSLVLLRAGWSKEDVVY 319 (376)
Q Consensus 246 l~~yld~~~~~LR~GGW~E~ev~EM~~~~~~~~~e~~~~~~~~d~~~~~~l~~~vd~~S~sL~rAGWS~eDV~e 319 (376)
+..-++.+-..++.=||+++||..|+.-.. ..+ ...++.|..|++.+-. + ||+.++|++
T Consensus 236 l~~~~~~l~e~~~~lG~s~~ev~~~v~~~P--------~il---~~s~~~l~~k~~fl~~-m---g~~~~~i~~ 294 (343)
T 3mva_O 236 ARRSYANIKEKLFSLGCTEEEVQKFVLSYP--------DVI---FLAEKKFNDKIDCLME-E---NISISQIIE 294 (343)
T ss_dssp HHHHHHHHHHHHHTTTCCHHHHHHHHHTCG--------GGG---GSCHHHHHHHHHHHHT-T---TCCHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHhCC--------chh---cccHHHHHHHHHHHHH-c---CCCHHHHHh
No 14
>2r1j_L Repressor protein C2; protein-DNA complex, helix-turn-helix, DNA-binding, transcription, transcription regulation; 1.53A {Enterobacteria phage P22} SCOP: a.35.1.2 PDB: 3jxb_C 3jxc_L 3jxd_L
Probab=21.66 E-value=69 Score=21.73 Aligned_cols=25 Identities=0% Similarity=-0.073 Sum_probs=20.5
Q ss_pred hHHHHHHHhcCCChHHHHHHhccCC
Q 044476 301 RLLSLVLLRAGWSKEDVVYSLNLQD 325 (376)
Q Consensus 301 d~~S~sL~rAGWS~eDV~eal~~~~ 325 (376)
+++-....+.|+|.+|+++.+|..-
T Consensus 8 ~~l~~~r~~~g~s~~~lA~~~gis~ 32 (68)
T 2r1j_L 8 ERIRARRKKLKIRQAALGKMVGVSN 32 (68)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHTSCH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCCCH
Confidence 4556667788999999999999765
No 15
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=21.33 E-value=73 Score=22.04 Aligned_cols=26 Identities=19% Similarity=0.198 Sum_probs=21.2
Q ss_pred hhHHHHHHHhcCCChHHHHHHhccCC
Q 044476 300 VRLLSLVLLRAGWSKEDVVYSLNLQD 325 (376)
Q Consensus 300 vd~~S~sL~rAGWS~eDV~eal~~~~ 325 (376)
.+++-....+.|||.+|+++.+|..-
T Consensus 15 ~~~l~~~r~~~g~s~~~lA~~~gis~ 40 (74)
T 1y7y_A 15 GQRLRELRTAKGLSQETLAFLSGLDR 40 (74)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCH
Confidence 45666667789999999999999764
No 16
>3gzm_A Acyl carrier protein; helix bundle, phosphopantetheine, fatty acid biosynthesis, L synthesis, transit peptide, biosynthetic protein; HET: PNS; 1.80A {Plasmodium falciparum} SCOP: a.28.1.0 PDB: 3gzl_A* 2fq0_A* 2fq2_A*
Probab=21.04 E-value=38 Score=24.85 Aligned_cols=16 Identities=25% Similarity=0.356 Sum_probs=13.8
Q ss_pred HHHHHHHcCccCCchH
Q 044476 54 FSDIESTFNFTFPPDL 69 (376)
Q Consensus 54 f~~IEa~fgF~FPpDl 69 (376)
+.+||++||+++|++-
T Consensus 46 ~~~le~~fgi~i~~~~ 61 (81)
T 3gzm_A 46 IMALEEKFNVTISDQD 61 (81)
T ss_dssp HHHHHHHHTCCCCHHH
T ss_pred HHHHHHHHCCCcCHHH
Confidence 4679999999999865
Done!