Query 028504
Match_columns 208
No_of_seqs 170 out of 1728
Neff 7.8
Searched_HMMs 29240
Date Mon Mar 25 20:54:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028504.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028504hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2fcg_F Cationic, antibacterial 25.6 34 0.0011 17.6 1.4 18 2-19 6-23 (26)
2 2k6o_A Cathelicidin antimicrob 18.5 58 0.002 18.2 1.5 18 2-19 18-35 (37)
3 1co4_A AMT1, protein (activato 10.4 81 0.0028 18.2 0.6 15 71-85 27-41 (42)
4 3qkc_B Geranyl diphosphate syn 8.5 5.5E+02 0.019 20.4 5.3 51 54-108 72-122 (273)
5 3lqv_P Splicing factor 3B subu 8.0 92 0.0031 17.6 0.2 11 70-80 12-22 (39)
6 2xq2_A Sodium/glucose cotransp 6.9 1.2E+03 0.041 20.5 8.9 14 59-72 371-384 (593)
7 4gd3_A NI/Fe-hydrogenase 1 B-t 6.6 3.1E+02 0.01 21.1 2.8 23 51-73 189-211 (235)
8 2ls2_A High affinity copper up 8.3 1.2E+02 0.0041 15.4 0.0 16 118-133 8-23 (26)
9 3kra_B Geranyl diphosphate syn 5.8 9.4E+02 0.032 18.9 5.4 53 54-108 67-119 (274)
10 1v74_A Colicin D; colicin D - 5.2 2.8E+02 0.0094 19.2 1.5 12 82-93 3-14 (107)
No 1
>2fcg_F Cationic, antibacterial protein FALL-39, core peptide; HOST defense peptide, antimicrobial peptide, antimicrobial protein; NMR {Synthetic}
Probab=25.58 E-value=34 Score=17.60 Aligned_cols=18 Identities=17% Similarity=0.300 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHhhhchhh
Q 028504 2 QVLNKKCDAFYRLTRPYS 19 (208)
Q Consensus 2 ~~~~~~~~~~l~l~Rp~~ 19 (208)
++..+++++|+.=++|++
T Consensus 6 kkIgQkIkdFf~~l~prt 23 (26)
T 2fcg_F 6 KRIVQRIKDFLRNLVPRT 23 (26)
T ss_dssp HHHHHHHHHHHHHSCCSC
T ss_pred HHHHHHHHHHHHhcCccc
Confidence 345679999998888864
No 2
>2k6o_A Cathelicidin antimicrobial peptide; human HOST defense peptide, human cathelicidin, LL-37, bacterial membrane targeting, antibiotic; NMR {Homo sapiens} PDB: 2lmf_A
Probab=18.55 E-value=58 Score=18.15 Aligned_cols=18 Identities=17% Similarity=0.300 Sum_probs=14.3
Q ss_pred hhHHHHHHHHHhhhchhh
Q 028504 2 QVLNKKCDAFYRLTRPYS 19 (208)
Q Consensus 2 ~~~~~~~~~~l~l~Rp~~ 19 (208)
++..+++++++.=.+|++
T Consensus 18 kkIgQkIKdFf~~l~pr~ 35 (37)
T 2k6o_A 18 KRIVQRIKDFLRNLVPRT 35 (37)
T ss_dssp HHHHHHHHHHHHHHCSSC
T ss_pred HHHHHHHHHHHHhhCccc
Confidence 456688999999888874
No 3
>1co4_A AMT1, protein (activator of metallothionein 1); metal regulation, translation/regulation protein complex; NMR {Synthetic} SCOP: g.47.1.1
Probab=10.35 E-value=81 Score=18.16 Aligned_cols=15 Identities=13% Similarity=0.082 Sum_probs=9.1
Q ss_pred hhhccccCCCCCccc
Q 028504 71 DVHIDKVNKPYLPLA 85 (208)
Q Consensus 71 D~~~D~~~~~~RPl~ 85 (208)
|+....+++|-||..
T Consensus 27 drpL~~ir~kGRP~t 41 (42)
T 1co4_A 27 DRPLKILKPRGRPPT 41 (42)
T ss_dssp SSCEEEECSCCCCSC
T ss_pred CCcceecCCCCCCCC
Confidence 444555667777764
No 4
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus}
Probab=8.49 E-value=5.5e+02 Score=20.36 Aligned_cols=51 Identities=10% Similarity=-0.091 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHhhhhhhhhccccCCCCCcccCCccCHHHHHHHHHHHHHHHHHH
Q 028504 54 VPAIMMNNYANAINQLADVHIDKVNKPYLPLACGDFSMGEGLAITIASPLMAVAM 108 (208)
Q Consensus 54 l~~~l~~~a~~~iNd~~D~~~D~~~~~~RPl~sG~is~~~a~~~~~~l~~~~~~l 108 (208)
.+.=+++.++-+..|+.|.+. | +.||-+..+.....|...+=.++..++-+
T Consensus 72 ~aiEliH~aSLIHDDI~D~d~-R---RG~pt~h~~~G~~~AIlaGD~Ll~~Af~~ 122 (273)
T 3qkc_B 72 AAVHLMHVAAYTHENLPLTDG-P---MSKSEIQHKFDPNIELLTGDGIIPFGLEL 122 (273)
T ss_dssp HHHHHHHHHHHHHHSCCBTTB-C---SSSSCCCCSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCcccCcc-C---CCCCCchhhcCHHHHHHHHHHHHHHHHHH
Confidence 355688999999999998764 3 34677777788888888777777766533
No 5
>3lqv_P Splicing factor 3B subunit 1; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_P 2f9j_P
Probab=7.95 E-value=92 Score=17.60 Aligned_cols=11 Identities=36% Similarity=0.592 Sum_probs=7.5
Q ss_pred hhhhccccCCC
Q 028504 70 ADVHIDKVNKP 80 (208)
Q Consensus 70 ~D~~~D~~~~~ 80 (208)
+++|+|..|+|
T Consensus 12 ~~~ei~~RNrp 22 (39)
T 3lqv_P 12 WEREIDERNRP 22 (39)
T ss_dssp HHHHHHHTTCC
T ss_pred hhccchhhcCC
Confidence 56778876655
No 6
>2xq2_A Sodium/glucose cotransporter; transport protein, inverted repeats, LEUT-fold, galactose; 2.73A {Vibrio parahaemolyticus} PDB: 2xq2_B 2kpe_A
Probab=6.86 E-value=1.2e+03 Score=20.46 Aligned_cols=14 Identities=0% Similarity=-0.239 Sum_probs=7.8
Q ss_pred HHHHHHHhhhhhhh
Q 028504 59 MNNYANAINQLADV 72 (208)
Q Consensus 59 ~~~a~~~iNd~~D~ 72 (208)
...++..-||++.+
T Consensus 371 ~a~st~~~~Diy~~ 384 (593)
T 2xq2_A 371 NSTATIFTMDIYKE 384 (593)
T ss_dssp HHHHHHHHHHTHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 34445566777654
No 7
>4gd3_A NI/Fe-hydrogenase 1 B-type cytochrome subunit; O2-tolerant H2:quinone oxidoreductase, membrane-bound, NI-Fe hydrogenase-cytochrome B complex; HET: LMT HEM; 3.30A {Escherichia coli}
Probab=6.59 E-value=3.1e+02 Score=21.05 Aligned_cols=23 Identities=4% Similarity=-0.021 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhh
Q 028504 51 KCMVPAIMMNNYANAINQLADVH 73 (208)
Q Consensus 51 ~~~l~~~l~~~a~~~iNd~~D~~ 73 (208)
..+++.+..+.++-+.+++.|+|
T Consensus 189 ~~l~~~v~lHv~aal~h~~~~~~ 211 (235)
T 4gd3_A 189 WLIGAFVIGHVYMALREDIMSDD 211 (235)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCC-
T ss_pred HHHHHHHHHHHHHHHHHHhhcCC
Confidence 34567788999999999998886
No 8
>2ls2_A High affinity copper uptake protein 1; HCTR1 TMDS, oligomerization, metal transport; NMR {Homo sapiens}
Probab=8.29 E-value=1.2e+02 Score=15.41 Aligned_cols=16 Identities=13% Similarity=0.102 Sum_probs=8.6
Q ss_pred HHHHHHHHHHhHhccC
Q 028504 118 VIGFIIWCIVGGAYSI 133 (208)
Q Consensus 118 ~~~~~~~~~~~~~Ys~ 133 (208)
+.+.++.++++..|..
T Consensus 8 v~Sci~ifll~~~YE~ 23 (26)
T 2ls2_A 8 AGAFVAVFLLAMFYEG 23 (26)
Confidence 3444444456666765
No 9
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase, isoprene biosynthesis, isoprenyl pyrophosphate synthase, transferase; 1.90A {Mentha x piperita} PDB: 3krc_B* 3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B*
Probab=5.83 E-value=9.4e+02 Score=18.95 Aligned_cols=53 Identities=8% Similarity=-0.032 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHhhhhhhhhccccCCCCCcccCCccCHHHHHHHHHHHHHHHHHH
Q 028504 54 VPAIMMNNYANAINQLADVHIDKVNKPYLPLACGDFSMGEGLAITIASPLMAVAM 108 (208)
Q Consensus 54 l~~~l~~~a~~~iNd~~D~~~D~~~~~~RPl~sG~is~~~a~~~~~~l~~~~~~l 108 (208)
.+.=+++.++-+..|+.+-|-|. ++.||-...+.....|...+=.++..++-+
T Consensus 67 ~aiEliH~aSLIHDDI~~dD~d~--RRG~pt~h~~~G~~~AIlaGD~Ll~~Af~~ 119 (274)
T 3kra_B 67 AAIHLVHAAAYVHEHLPLTDGSR--PVSKPAIQHKYGPNVELLTGDGIVPFGFEL 119 (274)
T ss_dssp HHHHHHHHHHHHHHTCCCSSSSS--CCCSSCCCCSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCcccCCcc--CCCCCCchhhcChHHHHHHHHHHHHHHHHH
Confidence 35568899999999998222242 466777777788888888777777766543
No 10
>1v74_A Colicin D; colicin D - IMMD complex, cytotoxicity, transfer RNAse, protein-protein inhibition; HET: 1PE; 2.00A {Escherichia coli} SCOP: d.243.1.1 PDB: 1tfo_A 1tfk_A*
Probab=5.25 E-value=2.8e+02 Score=19.22 Aligned_cols=12 Identities=42% Similarity=0.606 Sum_probs=7.1
Q ss_pred CcccCCccCHHH
Q 028504 82 LPLACGDFSMGE 93 (208)
Q Consensus 82 RPl~sG~is~~~ 93 (208)
-|++||+.|.++
T Consensus 3 ~~l~~~~~t~~q 14 (107)
T 1v74_A 3 DPLDSGRFSRKQ 14 (107)
T ss_dssp CTTCBTTBCHHH
T ss_pred CCCcCCcccHHH
Confidence 456666666654
Done!