Query psy2804
Match_columns 94
No_of_seqs 115 out of 532
Neff 7.1
Searched_HMMs 29240
Date Fri Aug 16 17:22:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2804.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/2804hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3kg2_A Glutamate receptor 2; I 99.4 3.6E-13 1.2E-17 106.2 4.6 77 9-85 740-818 (823)
2 1yae_A Glutamate receptor, ion 94.3 0.0071 2.4E-07 42.3 -0.2 40 9-50 268-307 (312)
3 1pb7_A N-methyl-D-aspartate re 91.8 0.043 1.5E-06 38.2 0.7 26 9-35 267-292 (292)
4 1mqi_A Glutamate receptor 2; G 89.5 0.084 2.9E-06 35.3 0.5 26 9-34 237-262 (263)
5 2rc8_A Glutamate [NMDA] recept 89.1 0.076 2.6E-06 36.8 0.1 25 9-34 269-293 (294)
6 3g3k_A Glutamate receptor, ion 87.8 0.11 3.9E-06 34.6 0.2 26 9-35 234-259 (259)
7 2v3u_A Glutamate receptor delt 87.7 0.11 3.6E-06 34.6 0.1 26 9-34 239-264 (265)
8 3i6v_A Periplasmic His/Glu/Gln 80.9 0.39 1.3E-05 31.5 0.5 24 10-33 199-222 (232)
9 3kzg_A Arginine 3RD transport 77.7 0.43 1.5E-05 31.1 -0.1 25 9-33 211-235 (237)
10 2a5s_A N-methyl-D-aspartate re 77.5 0.46 1.6E-05 32.5 -0.0 24 9-34 260-283 (284)
11 2kv5_A FST, putative uncharact 72.5 5.2 0.00018 19.7 3.1 30 52-81 3-32 (33)
12 2jwa_A Receptor tyrosine-prote 71.9 5.6 0.00019 20.9 3.4 23 57-79 17-39 (44)
13 2k1k_A Ephrin type-A receptor 69.1 5.7 0.00019 20.0 2.9 33 42-76 5-37 (38)
14 3del_B Arginine binding protei 63.6 1.7 5.9E-05 28.1 0.4 21 10-30 214-234 (242)
15 2l2t_A Receptor tyrosine-prote 59.8 17 0.00057 18.9 4.2 14 61-74 20-33 (44)
16 4gvo_A LMO2349 protein; struct 59.3 1.7 5.9E-05 28.6 -0.3 19 10-28 217-235 (243)
17 3k4u_A Binding component of AB 58.3 1.9 6.5E-05 28.1 -0.2 26 9-34 209-234 (245)
18 2klu_A T-cell surface glycopro 54.8 27 0.00094 19.9 4.6 34 55-88 12-47 (70)
19 3hv1_A Polar amino acid ABC up 49.1 5.6 0.00019 26.2 1.0 21 9-29 229-249 (268)
20 4h5g_A Amino acid ABC superfam 48.3 2.9 0.0001 27.5 -0.5 19 10-28 219-237 (243)
21 4eq9_A ABC transporter substra 47.5 3.9 0.00013 26.2 0.0 21 9-29 216-236 (246)
22 4f3p_A Glutamine-binding perip 43.5 4.6 0.00016 26.3 -0.1 22 9-30 223-244 (249)
23 1lst_A Lysine, arginine, ornit 43.1 5.2 0.00018 25.6 0.1 20 10-29 214-233 (239)
24 1wdn_A GLNBP, glutamine bindin 43.0 5.1 0.00018 25.2 0.0 20 10-29 204-223 (226)
25 4b19_A PEPA1; toxin, toxin apo 42.7 10 0.00035 18.2 1.1 26 53-78 3-28 (30)
26 2pyy_A Ionotropic glutamate re 42.6 4.9 0.00017 25.3 -0.1 21 9-29 203-223 (228)
27 3rko_A NADH-quinone oxidoreduc 38.9 34 0.0012 22.1 3.5 42 47-89 10-51 (147)
28 3h7m_A Sensor protein; histidi 38.0 5.3 0.00018 25.3 -0.5 20 10-29 212-231 (234)
29 1ii5_A SLR1257 protein; membra 37.2 6.3 0.00021 24.9 -0.3 21 9-29 207-227 (233)
30 4i62_A Amino acid ABC transpor 29.2 9.7 0.00033 24.7 -0.4 20 10-29 246-265 (269)
31 3qax_A Probable ABC transporte 28.5 14 0.00047 23.9 0.3 20 10-29 235-254 (268)
32 1lq7_A Alpha3W; three helix bu 27.0 30 0.001 18.9 1.4 16 13-28 21-36 (67)
33 2yln_A Putative ABC transporte 26.4 17 0.0006 24.3 0.5 20 10-29 259-278 (283)
34 2pvu_A ARTJ; basic amino acid 25.6 14 0.00047 24.4 -0.1 21 9-29 243-263 (272)
35 2iee_A ORF2, probable ABC tran 24.2 13 0.00043 24.7 -0.5 20 9-28 227-246 (271)
36 1xt8_A Putative amino-acid tra 23.6 18 0.00061 24.1 0.1 21 9-29 246-266 (292)
37 2vha_A Periplasmic binding tra 21.9 18 0.00062 23.9 -0.1 22 9-30 229-250 (287)
38 2qjy_B Cytochrome C1; cytochro 20.2 1.2E+02 0.0041 21.5 3.9 29 51-79 229-257 (269)
No 1
>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell membrane, glycoprotein, transport, membrane, postsynaptic cell membrane, editing; HET: ZK1 NAG BMA; 3.60A {Rattus norvegicus}
Probab=99.36 E-value=3.6e-13 Score=106.19 Aligned_cols=77 Identities=48% Similarity=0.785 Sum_probs=59.7
Q ss_pred cccccccCCchhhHHHhhcCCCCCCCCCCc--cCccCcccccccchhHHHHHHHHHHHHHHHHHHHHHHhhcccccccc
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCKSSKS--QDTHSELALSNVAGVFYILGAGLLLAMAVALVEFCYNTHMEASNNKV 85 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~~~~~--~~~~~~L~l~~~~GvFiil~~g~~lal~i~i~e~~~~~~k~~~~~~~ 85 (94)
++++|+|+|.++++++|||.+.+.|..... ..+..+|+++++.|+|+++++|+++|++++++|++|++++.+++.+.
T Consensus 740 ~il~l~e~G~~~~~~~~w~~~~~~c~~~~~~~~~~~~~L~l~~l~g~f~il~~g~~la~~vf~~E~~~~~~~~~~~~~~ 818 (823)
T 3kg2_A 740 AVLKLSEQGLLDKLKNKWWYDKGECGAKDSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMKG 818 (823)
T ss_dssp HHHHHHHTTHHHHHHHHHHTTSCSCSSTTTSTTTCCCSCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHC----------
T ss_pred HHHHHHhCCcHHHHHHhhCcCCCCCCCCCccccccCCccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHcchhhhhccC
Confidence 578999999999999999987778987432 23567999999999999999999999999999999998888776543
No 2
>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor, membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus norvegicus} SCOP: c.94.1.1
Probab=94.26 E-value=0.0071 Score=42.28 Aligned_cols=40 Identities=25% Similarity=0.498 Sum_probs=20.4
Q ss_pred cccccccCCchhhHHHhhcCCCCCCCCCCccCccCccccccc
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCKSSKSQDTHSELALSNV 50 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~~~~~~~~~~~L~l~~~ 50 (94)
++.+|+++|.+++|.+||+.. ..|+....+ +++.++++|.
T Consensus 268 ~l~~l~~~G~~~~i~~kw~~~-~~c~~~~~~-~~~~~~~~~~ 307 (312)
T 1yae_A 268 AILQLQEEGKLHMMKEKWWRG-NGCPEEESK-EASALGVQNH 307 (312)
T ss_dssp HHHHHHHHTHHHHHHHHHHCC-SCC-----------------
T ss_pred HHHHHHHcCCHHHHHhhhcCC-CCCCCCCCc-cchhhhhhcc
Confidence 455789999999999999986 479875543 6778888775
No 3
>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor, NR1, ligand binding protein; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A* 1pb8_A 1pb9_A
Probab=91.77 E-value=0.043 Score=38.16 Aligned_cols=26 Identities=23% Similarity=0.353 Sum_probs=21.7
Q ss_pred cccccccCCchhhHHHhhcCCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCKS 35 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~~ 35 (94)
++++|+++|.+++|.+|||.. ++|+.
T Consensus 267 al~~l~~~G~~~~l~~kw~~~-~~c~~ 292 (292)
T 1pb7_A 267 SILKSHENGFMEDLDKTWVRY-QECDS 292 (292)
T ss_dssp HHHHHHHSSHHHHHHHHHTSS-SCCCC
T ss_pred HHHHHHhCCCHHHHHHhhCCC-CCCCC
Confidence 466899999999999999974 56863
No 4
>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A* 1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A* 1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A 1my0_A ...
Probab=89.50 E-value=0.084 Score=35.30 Aligned_cols=26 Identities=35% Similarity=0.750 Sum_probs=22.4
Q ss_pred cccccccCCchhhHHHhhcCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCK 34 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~ 34 (94)
++.+|.++|.+++|.+||+...+.|+
T Consensus 237 ~l~~l~~~g~~~~i~~k~~~~~~~C~ 262 (263)
T 1mqi_A 237 AVLKLNEQGLLDKLKNKWWYDKGECG 262 (263)
T ss_dssp HHHHHHHTTHHHHHHHHHHTTTCSCC
T ss_pred HHHHHHhcccHHHHHHHHcCCCCCCC
Confidence 34578899999999999998778896
No 5
>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell junction, glycoprotein, ION transport channel, magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A 2rca_A 2rcb_A
Probab=89.13 E-value=0.076 Score=36.76 Aligned_cols=25 Identities=20% Similarity=0.420 Sum_probs=18.6
Q ss_pred cccccccCCchhhHHHhhcCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCK 34 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~ 34 (94)
++.+|+++|.+++|.+|||.. +.|+
T Consensus 269 al~~l~~~G~~~~l~~kw~~~-~~c~ 293 (294)
T 2rc8_A 269 LISQYKSHGFMDVLHDKWYKV-VPCG 293 (294)
T ss_dssp HHHHHHHTTHHHHHHHHHCCC-----
T ss_pred HHHHHHhCCCHHHHHHhhcCC-CCCC
Confidence 466899999999999999974 5685
No 6
>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell junction, cell membrane, glycoprotein, ION transport, ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A* 3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A* 2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A* 2i0c_A* ...
Probab=87.81 E-value=0.11 Score=34.57 Aligned_cols=26 Identities=23% Similarity=0.570 Sum_probs=18.7
Q ss_pred cccccccCCchhhHHHhhcCCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCKS 35 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~~ 35 (94)
++.+|+++|.+++|.+||+.. ++|++
T Consensus 234 ~l~~l~~~G~~~~i~~kw~~~-~~c~~ 259 (259)
T 3g3k_A 234 AILKLQEQGKLHMMKEKWWRG-NGCPE 259 (259)
T ss_dssp HHHHHHHTC-CHHHHHHHHCC---CC-
T ss_pred HHHHHHhcChHHHHHHhhcCC-CCCCC
Confidence 345789999999999999984 56873
No 7
>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane, ionotropic glutamate receptors, transmembrane, membrane protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A
Probab=87.73 E-value=0.11 Score=34.60 Aligned_cols=26 Identities=27% Similarity=0.647 Sum_probs=20.6
Q ss_pred cccccccCCchhhHHHhhcCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCK 34 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~ 34 (94)
++.+|.++|.+++|.+||+.....|+
T Consensus 239 ~l~~l~~~g~~~~i~~kw~~~~~~c~ 264 (265)
T 2v3u_A 239 RILELQQSGDMDILKHKWWPKNGQCD 264 (265)
T ss_dssp HHHHHHHHTHHHHHHHHHCCCCCC--
T ss_pred HHHHHhhCChHHHHHhhcCCCcCcCC
Confidence 35578899999999999998777785
No 8
>3i6v_A Periplasmic His/Glu/Gln/Arg/opine family-binding; structural genomics, transporter, PSI-2, protein structure initiative; HET: LYS; 2.00A {Silicibacter pomeroyi} SCOP: c.94.1.0
Probab=80.92 E-value=0.39 Score=31.53 Aligned_cols=24 Identities=21% Similarity=0.429 Sum_probs=19.3
Q ss_pred ccccccCCchhhHHHhhcCCCCCC
Q psy2804 10 GNPPNNAGELSRLQKKWWIDTSQC 33 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~~~~C 33 (94)
+.++.++|.+++|.+||+.....|
T Consensus 199 l~~l~~~G~~~~i~~k~~~~~~~~ 222 (232)
T 3i6v_A 199 ITSMKEDGTLNTMIKKWFGEDAAV 222 (232)
T ss_dssp HHHHHHTSHHHHHHHHHHCTTSCC
T ss_pred HHHHHHCChHHHHHHHHcCCCCCc
Confidence 457889999999999999865433
No 9
>3kzg_A Arginine 3RD transport system periplasmic binding protein; arginine transport system, protein structure initiative II(PSI II); 2.06A {Legionella pneumophila subsp} SCOP: c.94.1.0
Probab=77.68 E-value=0.43 Score=31.12 Aligned_cols=25 Identities=12% Similarity=0.111 Sum_probs=16.7
Q ss_pred cccccccCCchhhHHHhhcCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQC 33 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C 33 (94)
++.++.++|.+++|.+||+..+..|
T Consensus 211 ~l~~l~~~G~~~~i~~k~~~~~~~~ 235 (237)
T 3kzg_A 211 ILLEMEADGTYLRLYSEYFEGHHHH 235 (237)
T ss_dssp HHHHHHHSSHHHHHHHHHC------
T ss_pred HHHHHHHCCcHHHHHHHHhCccccc
Confidence 3457899999999999999865433
No 10
>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor nmdar2A; protein-ligand complex, metal transport,membrane protein; HET: GLU; 1.70A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A* 3oem_A* 3oek_A*
Probab=77.49 E-value=0.46 Score=32.54 Aligned_cols=24 Identities=21% Similarity=0.345 Sum_probs=20.0
Q ss_pred cccccccCCchhhHHHhhcCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCK 34 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~ 34 (94)
++.+++++|.+++|.+||+.. .|.
T Consensus 260 ~l~~l~~~g~~~~i~~kw~~~--~c~ 283 (284)
T 2a5s_A 260 ALLQFVGDGEMEELETLWLTG--ICH 283 (284)
T ss_dssp HHHHHHHHTHHHHHHHHHTCC--CCC
T ss_pred HHHHHHhCChHHHHHHHhhhc--cCC
Confidence 456788999999999999964 685
No 11
>2kv5_A FST, putative uncharacterized protein RNAI; toxin-antitoxin, bacterial, toxin; NMR {Enterococcus faecalis}
Probab=72.48 E-value=5.2 Score=19.74 Aligned_cols=30 Identities=3% Similarity=0.227 Sum_probs=23.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q psy2804 52 GVFYILGAGLLLAMAVALVEFCYNTHMEAS 81 (94)
Q Consensus 52 GvFiil~~g~~lal~i~i~e~~~~~~k~~~ 81 (94)
-+|-.+.+.+++++++.+++.+...++.++
T Consensus 3 ~i~~~IIaPivVGvvl~L~d~WLn~r~~~~ 32 (33)
T 2kv5_A 3 DLMSLVIAPIFVGLVLEMISRVLDEEDDSR 32 (33)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHTTCCCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccccccC
Confidence 356778888999999999998877776543
No 12
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=71.86 E-value=5.6 Score=20.85 Aligned_cols=23 Identities=17% Similarity=0.147 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Q psy2804 57 LGAGLLLAMAVALVEFCYNTHME 79 (94)
Q Consensus 57 l~~g~~lal~i~i~e~~~~~~k~ 79 (94)
..+|+++.+++.+.-++|-+++.
T Consensus 17 ~vVGvll~vi~~l~~~~~~RRR~ 39 (44)
T 2jwa_A 17 AVVGILLVVVLGVVFGILIKRRQ 39 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHhheehhh
Confidence 34455566666666666655444
No 13
>2k1k_A Ephrin type-A receptor 1; EPHA1, receptor tyrosine kinase, dimeric transmembrane domain, ATP-binding, glycoprotein, nucleotide-binding; NMR {Homo sapiens} PDB: 2k1l_A
Probab=69.07 E-value=5.7 Score=20.02 Aligned_cols=33 Identities=18% Similarity=0.222 Sum_probs=14.4
Q ss_pred cCcccccccchhHHHHHHHHHHHHHHHHHHHHHHh
Q psy2804 42 HSELALSNVAGVFYILGAGLLLAMAVALVEFCYNT 76 (94)
Q Consensus 42 ~~~L~l~~~~GvFiil~~g~~lal~i~i~e~~~~~ 76 (94)
++.|+-...+|+= .+....++++..+.-|+|++
T Consensus 5 ~~~ls~GaIAGiV--vG~v~gv~li~~l~~~~~rr 37 (38)
T 2k1k_A 5 SRGLTGGEIVAVI--FGLLLGAALLLGILVFRSRR 37 (38)
T ss_dssp STTCCHHHHHHHH--HHHHHHHHHHHHHHHHHHCC
T ss_pred CCCCCCCceeeee--hHHHHHHHHHHHHHHHHeec
Confidence 3455544444432 22223344445555555543
No 14
>3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic protein, arginine protein binding, transport protein; 1.92A {Chlamydia trachomatis} SCOP: c.94.1.0
Probab=63.61 E-value=1.7 Score=28.09 Aligned_cols=21 Identities=24% Similarity=0.504 Sum_probs=18.0
Q ss_pred ccccccCCchhhHHHhhcCCC
Q psy2804 10 GNPPNNAGELSRLQKKWWIDT 30 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~~ 30 (94)
+.++.++|.+++|.+||....
T Consensus 214 l~~l~~~g~~~~i~~k~~~~~ 234 (242)
T 3del_B 214 VQEIRKEGVLAELEQKWGLNN 234 (242)
T ss_dssp HHHHHHTTHHHHHHHHTTGGG
T ss_pred HHHHHHcCCHHHHHHHHCCCC
Confidence 457889999999999999754
No 15
>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}
Probab=59.81 E-value=17 Score=18.93 Aligned_cols=14 Identities=29% Similarity=0.427 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q psy2804 61 LLLAMAVALVEFCY 74 (94)
Q Consensus 61 ~~lal~i~i~e~~~ 74 (94)
+++.+++.+.-++|
T Consensus 20 v~~v~ii~~~~~~~ 33 (44)
T 2l2t_A 20 LFILVIVGLTFAVY 33 (44)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444443
No 16
>4gvo_A LMO2349 protein; structural genomics, IDP05245, L-cystine, ABC transporter, periplasmic binding protein, niaid; HET: HIS; 1.45A {Listeria monocytogenes} PDB: 2o1m_A
Probab=59.30 E-value=1.7 Score=28.64 Aligned_cols=19 Identities=26% Similarity=0.424 Sum_probs=16.7
Q ss_pred ccccccCCchhhHHHhhcC
Q psy2804 10 GNPPNNAGELSRLQKKWWI 28 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~ 28 (94)
+-+|+++|++++|.+||+.
T Consensus 217 l~~l~~~G~~~~i~~kw~g 235 (243)
T 4gvo_A 217 LQSIIDDGTLKKLSEKWLG 235 (243)
T ss_dssp HHHHHHTTHHHHHHHHHHC
T ss_pred HHHHHhCcHHHHHHHHHCC
Confidence 4468899999999999995
No 17
>3k4u_A Binding component of ABC transporter; structural genomics, protein structure INI NEW YORK structural genomix research consortium, nysgxrc; HET: LYS; 2.62A {Wolinella succinogenes} SCOP: c.94.1.0
Probab=58.33 E-value=1.9 Score=28.09 Aligned_cols=26 Identities=23% Similarity=0.517 Sum_probs=20.2
Q ss_pred cccccccCCchhhHHHhhcCCCCCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDTSQCK 34 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~~~C~ 34 (94)
++.++.++|.+++|.+||+.....+.
T Consensus 209 ~l~~l~~~g~~~~i~~k~~~~~~~~~ 234 (245)
T 3k4u_A 209 FLAQIKHDGSYDELYERWFVDTKWLE 234 (245)
T ss_dssp HHHHHHHHSHHHHHHHHHHTCCSGGG
T ss_pred HHHHHHhCcHHHHHHHHhcCccccch
Confidence 34578899999999999998654343
No 18
>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}
Probab=54.85 E-value=27 Score=19.86 Aligned_cols=34 Identities=21% Similarity=0.256 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH-Hhhc-cccccccccc
Q psy2804 55 YILGAGLLLAMAVALVEFCY-NTHM-EASNNKVSTI 88 (94)
Q Consensus 55 iil~~g~~lal~i~i~e~~~-~~~k-~~~~~~~s~~ 88 (94)
++++.+..+-+++.+..|+. +.++ +.+.+++|..
T Consensus 12 ivlGg~~~lll~~glcI~ccvkcrhRrrqAeRMSQi 47 (70)
T 2klu_A 12 IVLGGVAGLLLFIGLGIFFSVRSRHRRRQAERMSQI 47 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHSSCCSSSCTTSSHH
T ss_pred HHHhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 46666666666666666633 2332 2333455543
No 19
>3hv1_A Polar amino acid ABC uptake transporter substrate binding protein; protein structure initiative II(PSI II), nysgxrc; 1.90A {Streptococcus thermophilus lmg 18311}
Probab=49.09 E-value=5.6 Score=26.18 Aligned_cols=21 Identities=19% Similarity=0.406 Sum_probs=17.8
Q ss_pred cccccccCCchhhHHHhhcCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~ 29 (94)
++.++.++|.+++|.+||+..
T Consensus 229 ~l~~l~~~g~~~~i~~k~~~~ 249 (268)
T 3hv1_A 229 GFETLYKNGEFQKISNKWFGE 249 (268)
T ss_dssp HHHHHHHHTHHHHHHHHHHSS
T ss_pred HHHHHHhCCHHHHHHHHhcCC
Confidence 345788999999999999975
No 20
>4h5g_A Amino acid ABC superfamily ATP binding cassette transporter, binding protein; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases; HET: ARG; 1.78A {Streptococcus pneumoniae} PDB: 4h5f_A*
Probab=48.31 E-value=2.9 Score=27.48 Aligned_cols=19 Identities=11% Similarity=-0.057 Sum_probs=16.4
Q ss_pred ccccccCCchhhHHHhhcC
Q psy2804 10 GNPPNNAGELSRLQKKWWI 28 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~ 28 (94)
+-+|+++|.+++|.+||+.
T Consensus 219 L~~l~~dG~~~~i~~Kw~~ 237 (243)
T 4h5g_A 219 IQKLKDEGTYQSYLEKAAS 237 (243)
T ss_dssp HHHHHHHTHHHHHHHHHTT
T ss_pred HHHHHHCCHHHHHHHHhcC
Confidence 3468899999999999985
No 21
>4eq9_A ABC transporter substrate-binding protein-amino A transport; structural genomics, niaid; HET: GSH; 1.40A {Streptococcus pneumoniae}
Probab=47.45 E-value=3.9 Score=26.24 Aligned_cols=21 Identities=24% Similarity=0.305 Sum_probs=17.7
Q ss_pred cccccccCCchhhHHHhhcCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~ 29 (94)
++.++.++|++++|.+||+..
T Consensus 216 ~l~~l~~~g~~~~i~~k~~~~ 236 (246)
T 4eq9_A 216 RIKELYKDGTLEKLSKQFFGD 236 (246)
T ss_dssp HHHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHhCCcHHHHHHHhcCC
Confidence 345788999999999999974
No 22
>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics, GLUT seattle structural genomics center for infectious disease; 2.40A {Burkholderia pseudomallei}
Probab=43.49 E-value=4.6 Score=26.29 Aligned_cols=22 Identities=18% Similarity=0.309 Sum_probs=18.2
Q ss_pred cccccccCCchhhHHHhhcCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDT 30 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~ 30 (94)
++.++.++|.+++|.+||+...
T Consensus 223 ~l~~l~~~g~~~~i~~k~~~~~ 244 (249)
T 4f3p_A 223 ELARMKADGRYAKIYKKWFGSE 244 (249)
T ss_dssp HHHHHHHHTHHHHHHHHHHSSC
T ss_pred HHHHHHhCCcHHHHHHHHcCCC
Confidence 3457889999999999999753
No 23
>1lst_A Lysine, arginine, ornithine-binding protein; amino-acid binding protein; HET: LYS; 1.80A {Salmonella typhimurium} SCOP: c.94.1.1 PDB: 2lao_A 1lag_E* 1lah_E 1laf_E 1hsl_A* 1hpb_P*
Probab=43.13 E-value=5.2 Score=25.59 Aligned_cols=20 Identities=15% Similarity=0.203 Sum_probs=17.0
Q ss_pred ccccccCCchhhHHHhhcCC
Q psy2804 10 GNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~ 29 (94)
+.+++++|.+++|.+||+..
T Consensus 214 l~~l~~~G~~~~i~~k~~~~ 233 (239)
T 1lst_A 214 LTELRQDGTYDKMAKKYFDF 233 (239)
T ss_dssp HHHHHHTTHHHHHHHTTCSS
T ss_pred HHHHHHCccHHHHHHHHcCC
Confidence 44788999999999999964
No 24
>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide, complex (binding protein/peptide); 1.94A {Escherichia coli} SCOP: c.94.1.1 PDB: 1ggg_A
Probab=42.98 E-value=5.1 Score=25.17 Aligned_cols=20 Identities=20% Similarity=0.396 Sum_probs=17.1
Q ss_pred ccccccCCchhhHHHhhcCC
Q psy2804 10 GNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~ 29 (94)
+.++.++|.+++|.+||+..
T Consensus 204 l~~l~~~g~~~~i~~k~~~~ 223 (226)
T 1wdn_A 204 LKTLRENGTYNEIYKKWFGT 223 (226)
T ss_dssp HHHHHHTSHHHHHHHHHHSS
T ss_pred HHHHHhCChHHHHHHHHcCC
Confidence 45788999999999999964
No 25
>4b19_A PEPA1; toxin, toxin apoptotic peptide, apoptosis; NMR {Staphylococcus aureus}
Probab=42.67 E-value=10 Score=18.23 Aligned_cols=26 Identities=15% Similarity=0.276 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy2804 53 VFYILGAGLLLAMAVALVEFCYNTHM 78 (94)
Q Consensus 53 vFiil~~g~~lal~i~i~e~~~~~~k 78 (94)
+|+-+.+..+.+++++++..+.++|+
T Consensus 3 ifv~iia~visGcivalF~hWL~~r~ 28 (30)
T 4b19_A 3 IFVHIIAPVISGCAIAFFSYWLSRRN 28 (30)
T ss_dssp GGTSSTTTTHHHHHHHHHHHHHHHHS
T ss_pred eehhhHHHHHHHHHHHHHHHHHHhcc
Confidence 34555666777888888888776654
No 26
>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand binding domain, transport protein; HET: GLU; 2.10A {Nostoc punctiforme}
Probab=42.60 E-value=4.9 Score=25.30 Aligned_cols=21 Identities=19% Similarity=0.229 Sum_probs=17.5
Q ss_pred cccccccCCchhhHHHhhcCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~ 29 (94)
++.+++++|.+++|.+||+..
T Consensus 203 ~l~~l~~~g~~~~i~~k~~~~ 223 (228)
T 2pyy_A 203 ALLNLKENGTYQSLYDKWFDP 223 (228)
T ss_dssp HHHHHHHTTHHHHHHHHHHCC
T ss_pred HHHHHHhCCcHHHHHHHHcCC
Confidence 345788999999999999964
No 27
>3rko_A NADH-quinone oxidoreductase subunit A; complex I, proton pump, membrane protein, Na ubiquinone, cytoplasmic membrane; HET: LFA CA7; 3.00A {Escherichia coli}
Probab=38.85 E-value=34 Score=22.07 Aligned_cols=42 Identities=7% Similarity=0.014 Sum_probs=21.2
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccc
Q psy2804 47 LSNVAGVFYILGAGLLLAMAVALVEFCYNTHMEASNNKVSTIP 89 (94)
Q Consensus 47 l~~~~GvFiil~~g~~lal~i~i~e~~~~~~k~~~~~~~s~~~ 89 (94)
+.+...+++.+.+++++++++.++-++...++ ..++|.|-.|
T Consensus 10 ~~~y~~i~i~~~~~~~l~~~l~~l~~~l~~~~-~~~eK~spyE 51 (147)
T 3rko_A 10 IAHHWAFAIFLIVAIGLCCLMLVGGWFLGGRA-RARSKNVPFE 51 (147)
T ss_dssp -----CCHHHHHHHHHHHHHHHHHHHHHHHHH-HCC-------
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCC-CCcccCCCcc
Confidence 34566777777888888888777777665443 4566665443
No 28
>3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} SCOP: c.94.1.0
Probab=38.01 E-value=5.3 Score=25.32 Aligned_cols=20 Identities=15% Similarity=0.222 Sum_probs=17.1
Q ss_pred ccccccCCchhhHHHhhcCC
Q psy2804 10 GNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~ 29 (94)
+.++.++|.+++|.+||+..
T Consensus 212 l~~l~~~g~~~~i~~k~~~~ 231 (234)
T 3h7m_A 212 LAILRKTGQYEAIRAKWLGV 231 (234)
T ss_dssp HHHHHHHTHHHHHHHHSTTC
T ss_pred HHHHHHcCcHHHHHHHhccc
Confidence 45788899999999999964
No 29
>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A
Probab=37.16 E-value=6.3 Score=24.95 Aligned_cols=21 Identities=5% Similarity=-0.018 Sum_probs=17.0
Q ss_pred cccccccCCchhhHHHhhcCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~ 29 (94)
++.++.++|.+++|.+||+..
T Consensus 207 ~l~~l~~~g~~~~i~~k~~~~ 227 (233)
T 1ii5_A 207 EMLNLLYSRVIAEFTERWLGP 227 (233)
T ss_dssp HHHHHHHTTHHHHHHHHHHC-
T ss_pred HHHHHHhCCcHHHHHHHHcCC
Confidence 345688899999999999964
No 30
>4i62_A Amino acid ABC transporter, periplasmic amino ACI protein, putative; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases (NIAI niaid; HET: ARG; 1.05A {Streptococcus pneumoniae}
Probab=29.24 E-value=9.7 Score=24.68 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=17.0
Q ss_pred ccccccCCchhhHHHhhcCC
Q psy2804 10 GNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~ 29 (94)
+.++.++|.+++|.+||+..
T Consensus 246 l~~l~~~g~~~~i~~k~~~~ 265 (269)
T 4i62_A 246 IQKLKESGELDKLIEDAFKA 265 (269)
T ss_dssp HHHHHHTTHHHHHHHHHHHH
T ss_pred HHHHHhCChHHHHHHHHhCC
Confidence 45788999999999999963
No 31
>3qax_A Probable ABC transporter arginine-binding protein; periplasmic, transport PR; HET: ARG; 2.00A {Chlamydophila pneumoniae} PDB: 3g41_A* 3n26_A*
Probab=28.49 E-value=14 Score=23.89 Aligned_cols=20 Identities=25% Similarity=0.458 Sum_probs=17.1
Q ss_pred ccccccCCchhhHHHhhcCC
Q psy2804 10 GNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~ 29 (94)
+.++.++|++++|.+||+..
T Consensus 235 l~~l~~~g~~~~i~~k~~~~ 254 (268)
T 3qax_A 235 ITDLKSEGVIQSLTKKWQLS 254 (268)
T ss_dssp HHHHHHTTHHHHHHHHTTCS
T ss_pred HHHHHHCCcHHHHHHHHcCC
Confidence 44688899999999999965
No 32
>1lq7_A Alpha3W; three helix bundle, de novo protein; NMR {} SCOP: k.9.1.1
Probab=26.99 E-value=30 Score=18.94 Aligned_cols=16 Identities=31% Similarity=0.595 Sum_probs=13.2
Q ss_pred cccCCchhhHHHhhcC
Q psy2804 13 PNNAGELSRLQKKWWI 28 (94)
Q Consensus 13 L~E~G~l~~L~~kW~~ 28 (94)
|-..|.++.|++||-.
T Consensus 21 lggggrieelkkkwee 36 (67)
T 1lq7_A 21 LGGGGRIEELKKKWEE 36 (67)
T ss_dssp SCCSSSHHHHHHHHHH
T ss_pred hcCCccHHHHHHHHHH
Confidence 4557999999999974
No 33
>2yln_A Putative ABC transporter, periplasmic binding Pro amino acid; transport protein, solute-BIND protein; HET: CYS GOL; 1.12A {Neisseria gonorrhoeae} PDB: 3zsf_A
Probab=26.39 E-value=17 Score=24.29 Aligned_cols=20 Identities=20% Similarity=0.317 Sum_probs=17.0
Q ss_pred ccccccCCchhhHHHhhcCC
Q psy2804 10 GNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 10 ~LkL~E~G~l~~L~~kW~~~ 29 (94)
+.+++++|.+++|.+||+..
T Consensus 259 l~~l~~~g~~~~i~~k~~~~ 278 (283)
T 2yln_A 259 INELKADGTLKKLGEQFFGK 278 (283)
T ss_dssp HHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHCCcHHHHHHHHcCC
Confidence 44688899999999999964
No 34
>2pvu_A ARTJ; basic amino acid binding protein, ABC transport system, THER bacterium, transport protein; HET: LYS; 1.79A {Geobacillus stearothermophilus} PDB: 2q2a_A* 2q2c_A*
Probab=25.60 E-value=14 Score=24.39 Aligned_cols=21 Identities=24% Similarity=0.390 Sum_probs=17.4
Q ss_pred cccccccCCchhhHHHhhcCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~ 29 (94)
++.++.++|.+++|.+||+..
T Consensus 243 ~l~~l~~~g~~~~i~~k~~~~ 263 (272)
T 2pvu_A 243 ALKNVINSGKYTEIYKKWFGK 263 (272)
T ss_dssp HHHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHhCChHHHHHHHHcCC
Confidence 345788999999999999964
No 35
>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB; SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A {Bacillus subtilis}
Probab=24.22 E-value=13 Score=24.67 Aligned_cols=20 Identities=20% Similarity=0.350 Sum_probs=17.1
Q ss_pred cccccccCCchhhHHHhhcC
Q psy2804 9 FGNPPNNAGELSRLQKKWWI 28 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~ 28 (94)
++.++.++|.+++|.+||+.
T Consensus 227 al~~l~~~G~~~~i~~k~~~ 246 (271)
T 2iee_A 227 ALKEMSKDGSLTKLSKQFFN 246 (271)
T ss_dssp HHHHHHHHTHHHHHHHHHTT
T ss_pred HHHHHHHCCCHHHHHHHhCC
Confidence 34478889999999999997
No 36
>1xt8_A Putative amino-acid transporter periplasmic solut protein; ABC transport, cysteine uptake; 2.00A {Campylobacter jejuni} SCOP: c.94.1.1
Probab=23.60 E-value=18 Score=24.14 Aligned_cols=21 Identities=0% Similarity=-0.239 Sum_probs=17.5
Q ss_pred cccccccCCchhhHHHhhcCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWID 29 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~ 29 (94)
++.++.++|++++|.+||+..
T Consensus 246 ~l~~l~~~g~~~~i~~k~~~~ 266 (292)
T 1xt8_A 246 LIIKLGQEQFFHKAYDETLKA 266 (292)
T ss_dssp HHHHHHTTTHHHHHHHHHTGG
T ss_pred HHHHHHhCcHHHHHHHHhcCC
Confidence 345788999999999999963
No 37
>2vha_A Periplasmic binding transport protein; periplasmic binding protein, ligand binding, ultrahigh resolution; HET: GLU; 1.00A {Shigella flexneri} PDB: 2ia4_A*
Probab=21.93 E-value=18 Score=23.92 Aligned_cols=22 Identities=18% Similarity=0.359 Sum_probs=18.0
Q ss_pred cccccccCCchhhHHHhhcCCC
Q psy2804 9 FGNPPNNAGELSRLQKKWWIDT 30 (94)
Q Consensus 9 ~~LkL~E~G~l~~L~~kW~~~~ 30 (94)
++.++.++|.+++|.+||+...
T Consensus 229 ~l~~l~~~g~~~~i~~k~~~~~ 250 (287)
T 2vha_A 229 TIAQVQTSGEAEKWFDKWFKNP 250 (287)
T ss_dssp HHHHHHHTTHHHHHHHHHHHSC
T ss_pred HHHHHHhCchHHHHHHHHcCCC
Confidence 3456888999999999999753
No 38
>2qjy_B Cytochrome C1; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM TM helix 1 N-TERM TM helix; HET: BGL HEM SMA LOP UQ2; 2.40A {Rhodobacter sphaeroides} PDB: 2fyn_B* 2qjp_B* 2qjk_B*
Probab=20.20 E-value=1.2e+02 Score=21.53 Aligned_cols=29 Identities=10% Similarity=-0.024 Sum_probs=20.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy2804 51 AGVFYILGAGLLLAMAVALVEFCYNTHME 79 (94)
Q Consensus 51 ~GvFiil~~g~~lal~i~i~e~~~~~~k~ 79 (94)
.|+.+++...++..++.++-..+|+.-|.
T Consensus 229 lG~~Vl~fL~il~~l~y~~kr~~W~~vk~ 257 (269)
T 2qjy_B 229 AGFTAVMFLTVLSVLLYLTNKRLWAGVKG 257 (269)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 38888888877777777777778876543
Done!