Query 041662
Match_columns 70
No_of_seqs 104 out of 235
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 09:24:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041662.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041662hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06394 PBP1_iGluR_Kainate_KA1 99.1 2.9E-10 6.3E-15 83.0 6.1 60 10-69 1-63 (333)
2 cd06391 PBP1_iGluR_delta_2 N-t 98.7 1.9E-08 4.2E-13 74.7 5.7 57 10-70 1-61 (400)
3 cd06366 PBP1_GABAb_receptor Li 98.7 6.5E-08 1.4E-12 68.2 7.4 61 10-70 1-64 (350)
4 cd06382 PBP1_iGluR_Kainate N-t 98.7 4.7E-08 1E-12 68.5 5.9 58 10-69 1-61 (327)
5 cd06392 PBP1_iGluR_delta_1 N-t 98.7 6.3E-08 1.4E-12 72.6 6.4 58 10-70 1-61 (400)
6 cd06358 PBP1_NHase Type I peri 98.7 1.2E-07 2.6E-12 66.7 7.3 61 10-70 1-65 (333)
7 cd06346 PBP1_ABC_ligand_bindin 98.6 8.5E-08 1.8E-12 67.1 6.2 61 10-70 1-65 (312)
8 cd06370 PBP1_Speract_GC_like L 98.6 1.5E-07 3.2E-12 68.6 6.7 62 9-70 1-68 (404)
9 PRK15404 leucine ABC transport 98.6 3.7E-07 8.1E-12 66.2 8.1 66 5-70 22-91 (369)
10 cd06357 PBP1_AmiC Periplasmic 98.6 3.2E-07 7E-12 65.8 7.4 60 10-69 1-64 (360)
11 cd06348 PBP1_ABC_ligand_bindin 98.5 3.4E-07 7.4E-12 64.4 7.2 61 10-70 1-65 (344)
12 cd06344 PBP1_ABC_ligand_bindin 98.5 4.4E-07 9.4E-12 63.8 7.6 61 10-70 1-64 (332)
13 cd06331 PBP1_AmiC_like Type I 98.5 5.5E-07 1.2E-11 63.2 7.6 61 10-70 1-65 (333)
14 cd06355 PBP1_FmdD_like Peripla 98.5 5.3E-07 1.2E-11 64.3 7.4 61 10-70 1-65 (348)
15 TIGR03407 urea_ABC_UrtA urea A 98.5 6.4E-07 1.4E-11 64.3 7.6 61 9-69 1-65 (359)
16 cd06356 PBP1_Amide_Urea_BP_lik 98.5 6.9E-07 1.5E-11 63.3 7.2 61 10-70 1-65 (334)
17 PF13458 Peripla_BP_6: Peripla 98.5 9.5E-07 2.1E-11 61.3 7.7 62 8-69 1-66 (343)
18 cd06380 PBP1_iGluR_AMPA N-term 98.5 3.4E-07 7.4E-12 65.6 5.6 58 10-70 1-61 (382)
19 cd06347 PBP1_ABC_ligand_bindin 98.4 1E-06 2.2E-11 61.0 7.2 61 10-70 1-65 (334)
20 COG0683 LivK ABC-type branched 98.4 1.2E-06 2.5E-11 63.6 7.6 63 7-69 9-75 (366)
21 cd06330 PBP1_Arsenic_SBP_like 98.4 1.3E-06 2.8E-11 61.4 7.6 60 10-69 1-64 (346)
22 cd06343 PBP1_ABC_ligand_bindin 98.4 1.2E-06 2.7E-11 61.9 7.4 64 6-69 4-71 (362)
23 cd06349 PBP1_ABC_ligand_bindin 98.4 1.1E-06 2.4E-11 61.7 6.7 61 10-70 1-65 (340)
24 TIGR03669 urea_ABC_arch urea A 98.4 1.4E-06 3.1E-11 63.8 7.5 61 9-69 1-65 (374)
25 cd06368 PBP1_iGluR_non_NMDA_li 98.4 1E-06 2.2E-11 61.2 6.4 57 10-69 1-60 (324)
26 cd06345 PBP1_ABC_ligand_bindin 98.4 1.8E-06 3.9E-11 60.9 7.3 60 10-69 1-64 (344)
27 cd06342 PBP1_ABC_LIVBP_like Ty 98.4 2.1E-06 4.5E-11 59.5 7.2 61 10-70 1-65 (334)
28 cd06329 PBP1_SBP_like_3 Peripl 98.3 2.1E-06 4.6E-11 60.7 6.9 61 10-70 1-65 (342)
29 cd06328 PBP1_SBP_like_2 Peripl 98.3 3.8E-06 8.2E-11 59.5 7.5 61 10-70 1-66 (333)
30 cd06335 PBP1_ABC_ligand_bindin 98.3 2.5E-06 5.5E-11 60.6 6.5 61 10-70 1-65 (347)
31 cd06338 PBP1_ABC_ligand_bindin 98.3 3.9E-06 8.5E-11 58.8 7.3 60 10-69 1-68 (345)
32 cd06352 PBP1_NPR_GC_like Ligan 98.3 2.7E-06 5.9E-11 60.7 6.4 60 10-69 1-65 (389)
33 cd06334 PBP1_ABC_ligand_bindin 98.2 2.6E-06 5.6E-11 61.4 5.7 61 10-70 1-65 (351)
34 cd06333 PBP1_ABC-type_HAAT_lik 98.2 6.6E-06 1.4E-10 57.0 7.2 59 10-69 1-63 (312)
35 cd04509 PBP1_ABC_transporter_G 98.2 8.6E-06 1.9E-10 54.0 7.2 60 10-69 1-64 (299)
36 cd06327 PBP1_SBP_like_1 Peripl 98.2 3.5E-06 7.5E-11 59.2 5.5 58 10-69 1-63 (334)
37 cd06340 PBP1_ABC_ligand_bindin 98.2 7.2E-06 1.6E-10 58.2 6.9 61 10-70 1-68 (347)
38 cd06326 PBP1_STKc_like Type I 98.2 1.2E-05 2.6E-10 55.9 7.6 61 9-69 1-65 (336)
39 cd06336 PBP1_ABC_ligand_bindin 98.2 6.8E-06 1.5E-10 58.4 6.2 61 10-70 1-69 (347)
40 cd06350 PBP1_GPCR_family_C_lik 98.1 1.7E-05 3.7E-10 55.5 7.3 60 10-69 1-75 (348)
41 cd06268 PBP1_ABC_transporter_L 98.1 2E-05 4.4E-10 52.2 7.0 61 10-70 1-65 (298)
42 cd06372 PBP1_GC_G_like Ligand- 98.0 1.6E-05 3.4E-10 57.3 6.5 60 10-69 1-65 (391)
43 cd06393 PBP1_iGluR_Kainate_Glu 98.0 1.4E-05 3.1E-10 57.9 6.1 61 8-68 2-69 (384)
44 cd06362 PBP1_mGluR Ligand bind 98.0 2.7E-05 5.9E-10 57.2 6.8 62 8-69 2-78 (452)
45 cd06341 PBP1_ABC_ligand_bindin 98.0 3.5E-05 7.6E-10 54.0 7.0 60 10-69 1-64 (341)
46 cd06361 PBP1_GPC6A_like Ligand 98.0 4E-05 8.8E-10 56.6 7.6 49 20-69 32-82 (403)
47 cd06359 PBP1_Nba_like Type I p 98.0 4.4E-05 9.5E-10 53.7 7.2 59 10-70 1-63 (333)
48 cd06374 PBP1_mGluR_groupI Liga 97.9 4.4E-05 9.5E-10 57.0 7.3 65 5-69 6-89 (472)
49 cd06373 PBP1_NPR_like Ligand b 97.9 4.5E-05 9.8E-10 55.1 6.5 59 10-68 1-69 (396)
50 cd06363 PBP1_Taste_receptor Li 97.8 0.00011 2.5E-09 53.6 7.7 64 5-69 3-89 (410)
51 cd06364 PBP1_CaSR Ligand-bindi 97.8 0.00013 2.8E-09 55.7 8.3 65 5-69 9-97 (510)
52 PF13433 Peripla_BP_5: Peripla 97.8 9.9E-05 2.1E-09 55.7 6.9 61 9-69 1-65 (363)
53 cd06367 PBP1_iGluR_NMDA N-term 97.8 8.1E-05 1.8E-09 53.0 5.8 58 8-69 2-60 (362)
54 cd06385 PBP1_NPR_A Ligand-bind 97.7 7.2E-05 1.6E-09 54.3 5.6 49 10-58 1-54 (405)
55 cd06339 PBP1_YraM_LppC_lipopro 97.7 0.00011 2.3E-09 52.5 5.2 53 10-69 1-57 (336)
56 cd06371 PBP1_sensory_GC_DEF_li 97.6 0.0002 4.4E-09 52.1 6.2 55 10-64 1-59 (382)
57 cd06337 PBP1_ABC_ligand_bindin 97.6 0.00022 4.8E-09 51.0 5.7 61 10-70 1-67 (357)
58 cd06383 PBP1_iGluR_AMPA_Like N 97.6 0.00022 4.7E-09 52.5 5.7 50 17-69 6-63 (368)
59 cd06376 PBP1_mGluR_groupIII Li 97.5 0.00044 9.5E-09 51.5 7.0 56 8-63 2-71 (463)
60 cd06360 PBP1_alkylbenzenes_lik 97.5 0.00055 1.2E-08 47.6 7.0 58 10-69 1-62 (336)
61 cd06375 PBP1_mGluR_groupII Lig 97.5 0.00046 1E-08 51.8 6.9 61 8-68 2-77 (458)
62 cd06365 PBP1_Pheromone_recepto 97.5 0.00054 1.2E-08 51.5 7.2 50 20-69 36-87 (469)
63 cd06332 PBP1_aromatic_compound 97.4 0.00081 1.8E-08 46.4 7.2 58 10-69 1-62 (333)
64 cd06381 PBP1_iGluR_delta_like 97.4 0.00039 8.5E-09 51.0 5.9 58 10-70 1-61 (363)
65 cd06351 PBP1_iGluR_N_LIVBP_lik 97.4 0.00059 1.3E-08 46.8 6.3 56 10-68 1-59 (328)
66 KOG1055 GABA-B ion channel rec 97.3 0.00051 1.1E-08 56.5 5.5 61 8-68 41-108 (865)
67 cd06269 PBP1_glutamate_recepto 97.1 0.0028 6E-08 42.1 6.6 58 10-69 1-64 (298)
68 cd06379 PBP1_iGluR_NMDA_NR1 N- 97.1 0.0023 5E-08 46.0 6.5 57 4-70 15-79 (377)
69 cd06386 PBP1_NPR_C_like Ligand 96.8 0.0053 1.1E-07 44.7 6.4 40 20-59 14-54 (387)
70 cd06384 PBP1_NPR_B Ligand-bind 96.0 0.016 3.4E-07 42.2 5.1 50 10-60 1-56 (399)
71 TIGR03863 PQQ_ABC_bind ABC tra 95.9 0.026 5.7E-07 41.3 5.9 51 19-70 7-58 (347)
72 cd01391 Periplasmic_Binding_Pr 94.0 0.4 8.7E-06 30.5 6.6 52 10-68 1-55 (269)
73 cd06387 PBP1_iGluR_AMPA_GluR3 93.2 0.33 7.2E-06 36.1 6.0 57 10-69 1-61 (372)
74 cd06377 PBP1_iGluR_NMDA_NR3 N- 92.8 0.43 9.3E-06 36.2 6.1 54 6-63 16-71 (382)
75 cd06388 PBP1_iGluR_AMPA_GluR4 91.7 0.74 1.6E-05 33.8 6.1 57 10-69 1-61 (371)
76 PF01094 ANF_receptor: Recepto 90.7 1 2.2E-05 30.8 5.7 34 25-58 2-36 (348)
77 cd06389 PBP1_iGluR_AMPA_GluR2 84.7 3.1 6.7E-05 30.4 5.4 53 10-69 1-55 (370)
78 cd06390 PBP1_iGluR_AMPA_GluR1 82.8 2.6 5.7E-05 31.0 4.4 52 10-69 1-54 (364)
79 cd06325 PBP1_ABC_uncharacteriz 81.5 12 0.00025 25.0 6.8 56 10-68 1-57 (281)
80 PF04348 LppC: LppC putative l 80.4 4.2 9.1E-05 31.9 5.0 51 7-63 218-271 (536)
81 cd01536 PBP1_ABC_sugar_binding 75.1 19 0.00042 23.4 6.3 45 10-63 1-46 (267)
82 cd01537 PBP1_Repressors_Sugar_ 61.0 41 0.00089 21.5 6.1 40 10-58 1-41 (264)
83 cd06267 PBP1_LacI_sugar_bindin 53.7 57 0.0012 20.9 6.1 50 10-68 1-52 (264)
84 cd06300 PBP1_ABC_sugar_binding 50.1 73 0.0016 21.1 6.6 50 10-63 1-51 (272)
85 KOG1056 Glutamate-gated metabo 47.0 51 0.0011 28.2 5.1 63 6-69 29-106 (878)
86 PLN00055 photosystem II reacti 36.8 12 0.00027 22.7 0.1 23 3-25 11-34 (73)
87 COG1512 Beta-propeller domains 36.7 1.4E+02 0.003 21.9 5.6 54 13-69 35-88 (271)
88 cd01480 vWA_collagen_alpha_1-V 33.5 1.4E+02 0.003 19.5 6.4 31 8-38 2-36 (186)
89 CHL00066 psbH photosystem II p 32.8 16 0.00035 22.2 0.2 23 3-25 11-34 (73)
90 PF05688 DUF824: Salmonella re 31.6 40 0.00088 18.6 1.7 16 45-60 15-30 (47)
91 PF04722 Ssu72: Ssu72-like pro 29.5 78 0.0017 22.4 3.2 51 11-68 103-157 (195)
92 PF06117 DUF957: Enterobacteri 29.1 87 0.0019 18.6 2.9 27 12-38 26-54 (65)
93 PF15583 Imm41: Immunity prote 27.2 45 0.00098 22.9 1.6 23 21-43 111-133 (158)
94 cd06301 PBP1_rhizopine_binding 26.5 1.9E+02 0.0042 19.0 6.2 42 10-59 1-43 (272)
95 COG5211 SSU72 RNA polymerase I 25.9 2.4E+02 0.0052 19.9 5.1 43 26-68 114-160 (197)
96 COG2984 ABC-type uncharacteriz 24.9 3.1E+02 0.0068 20.8 7.1 59 5-69 27-86 (322)
97 KOG1759 Macrophage migration i 24.6 1.3E+02 0.0028 19.6 3.4 40 20-59 67-107 (115)
98 PF02746 MR_MLE_N: Mandelate r 24.2 69 0.0015 19.4 2.0 18 22-39 89-106 (117)
99 PF11236 DUF3037: Protein of u 24.1 62 0.0013 20.4 1.8 13 5-17 12-24 (118)
100 cd01470 vWA_complement_factors 23.6 2.2E+02 0.0047 18.5 5.3 30 9-38 1-30 (198)
101 PF08947 BPS: BPS (Between PH 21.0 74 0.0016 17.9 1.5 26 13-38 9-37 (49)
102 cd06320 PBP1_allose_binding Pe 20.9 2.6E+02 0.0057 18.4 6.6 42 10-58 1-43 (275)
103 PF12388 Peptidase_M57: Dual-a 20.8 3.2E+02 0.0069 19.4 5.0 30 10-39 40-71 (211)
104 cd01539 PBP1_GGBP Periplasmic 20.5 3E+02 0.0064 18.9 6.4 43 10-59 1-44 (303)
105 cd06317 PBP1_ABC_sugar_binding 20.3 2.6E+02 0.0057 18.2 6.3 40 11-59 2-43 (275)
No 1
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=99.07 E-value=2.9e-10 Score=82.96 Aligned_cols=60 Identities=12% Similarity=0.115 Sum_probs=50.2
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHH-HHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVV-AAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~-~aa~-A~~Li~ 69 (70)
+||+|||++|.+|+.++.|++||++|||++...+ +++|++++.|.++++. .++. +.++++
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~ 63 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILP 63 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHh
Confidence 6999999999999999999999999999876554 4799999999998774 4444 455554
No 2
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=98.74 E-value=1.9e-08 Score=74.65 Aligned_cols=57 Identities=18% Similarity=0.293 Sum_probs=47.4
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ce--EEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KT--RLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t--~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||+|||.+|..|++ |++||++|||+++..+ ++ ++.+++.|+ +|+|.|.. +-+||++
T Consensus 1 ~IGaif~~~s~~~~~---Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~~ 61 (400)
T cd06391 1 HIGAIFDESAKKDDE---VFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMNQ 61 (400)
T ss_pred CcceeeccCCchHHH---HHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHhC
Confidence 489999999988864 9999999999887655 35 566699999 59999998 7888863
No 3
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=98.72 E-value=6.5e-08 Score=68.17 Aligned_cols=61 Identities=41% Similarity=0.527 Sum_probs=54.2
Q ss_pred EEEEEEeCC-CchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDIN-GEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~-S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++ +..|+..+.++++|++++|+....+ +.+|++.++|++|++..|+. +.+|+++
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~ 64 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLEN 64 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhcc
Confidence 699999999 9999999999999999999976333 57899999999999999988 7888863
No 4
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=98.69 E-value=4.7e-08 Score=68.46 Aligned_cols=58 Identities=14% Similarity=0.198 Sum_probs=51.9
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCC-CCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSK-GDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~-~d~~~aa~-A~~Li~ 69 (70)
+||+||++ ..|+..+.|+++|++++|++...+ +.+|++.++|.. +++..+.. +.+|++
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~ 61 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQ 61 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhh
Confidence 69999999 889999999999999999987766 589999999999 89999888 677775
No 5
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=98.66 E-value=6.3e-08 Score=72.63 Aligned_cols=58 Identities=14% Similarity=0.194 Sum_probs=50.5
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEe-ecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNT-RDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~-~DS~~d~~~aa~-A~~Li~~ 70 (70)
.||+|||-++. ....|.++|++|||.+...+ +|+|.+++ +++.+|+|+++. |.+||++
T Consensus 1 ~iG~if~~~~~---~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~ 61 (400)
T cd06392 1 HIGAIFEENAA---KDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQ 61 (400)
T ss_pred CeeeccCCCch---HHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhc
Confidence 38999998773 36799999999999877666 59999999 999999999999 7889874
No 6
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=98.65 E-value=1.2e-07 Score=66.68 Aligned_cols=61 Identities=20% Similarity=0.294 Sum_probs=54.5
Q ss_pred EEEEEEeCCCc---hhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDINGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S~---iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++++ .|+..+.++++|++++|......+.+++|.++|++|+|-.+.. +.+|+++
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~ 65 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDE 65 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHh
Confidence 59999999875 8999999999999999987766678999999999999999888 7888863
No 7
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=98.64 E-value=8.5e-08 Score=67.08 Aligned_cols=61 Identities=20% Similarity=0.330 Sum_probs=54.0
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|+..-..+.+|+|.++|++++|-.++. +.+|+++
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~ 65 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNV 65 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 6999999996 56888999999999999987665678999999999999999988 7899863
No 8
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=98.60 E-value=1.5e-07 Score=68.60 Aligned_cols=62 Identities=15% Similarity=0.193 Sum_probs=54.3
Q ss_pred eEEEEEEeCCC----chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 9 VNVGLVLDING----EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 9 v~IG~i~d~~S----~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
++||++++++. ..|+..+.|+++|++++|+....+ +.+|++.++|++|++..|+. +.+|+++
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~ 68 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKR 68 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhc
Confidence 58999999965 669999999999999999987654 68999999999999999988 7888753
No 9
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=98.57 E-value=3.7e-07 Score=66.16 Aligned_cols=66 Identities=15% Similarity=0.198 Sum_probs=57.3
Q ss_pred CceeeEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 5 TTIPVNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 5 ~~~~v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
...+++||++.+++. ..|+..+.++++|++++|+..-..+.+++|.++|++++|-.|.. +.+|+++
T Consensus 22 ~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li~~ 91 (369)
T PRK15404 22 LADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVVND 91 (369)
T ss_pred cCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHHhC
Confidence 345799999999995 57999999999999999987766678999999999999988887 6778753
No 10
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=98.56 E-value=3.2e-07 Score=65.82 Aligned_cols=60 Identities=18% Similarity=0.165 Sum_probs=54.8
Q ss_pred EEEEEEeCC---CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDIN---GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~---S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++ +..|+..+.+++||++++|...-..+.+++|..+|++++|-.+.. +.+||+
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~ 64 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLR 64 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHh
Confidence 699999999 579999999999999999987666678999999999999999888 799986
No 11
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=98.55 E-value=3.4e-07 Score=64.38 Aligned_cols=61 Identities=23% Similarity=0.343 Sum_probs=54.3
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|+..-..+.+++|.++|++++|..+.. +.+|+++
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~ 65 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINK 65 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhh
Confidence 6999999996 57999999999999999987766678999999999999988888 7888863
No 12
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=98.54 E-value=4.4e-07 Score=63.85 Aligned_cols=61 Identities=13% Similarity=0.119 Sum_probs=54.5
Q ss_pred EEEEEEeCC--CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDIN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~--S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++.+++ ...|+..+.++++|++++|+..-..+.+++|.++|++++|-.+.. +.+|+++
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~ 64 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKD 64 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcc
Confidence 599999999 689999999999999999987666678999999999999988887 7899864
No 13
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=98.52 E-value=5.5e-07 Score=63.21 Aligned_cols=61 Identities=20% Similarity=0.258 Sum_probs=53.9
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|...-..+.+++|.++|+++||..+.. +.+|+++
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~ 65 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRD 65 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhc
Confidence 5999999985 58999999999999999987655578999999999999999888 7888864
No 14
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=98.51 E-value=5.3e-07 Score=64.30 Aligned_cols=61 Identities=15% Similarity=0.200 Sum_probs=54.2
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++.+++. ..|+..+.+++||++++|...-..+.+|+|..+|++++|-.|+. +.+|+++
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~ 65 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQ 65 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 6999999985 67999999999999999987666678999999999999998888 7899863
No 15
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=98.50 E-value=6.4e-07 Score=64.26 Aligned_cols=61 Identities=18% Similarity=0.219 Sum_probs=54.6
Q ss_pred eEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 9 VNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 9 v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
|+||++.+++. ..|+..+.++++|++++|...-..+.+++|..+|++++|-.|.. +.+|++
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~ 65 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLIT 65 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHh
Confidence 68999999984 78888999999999999987666678999999999999999888 788986
No 16
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=98.48 E-value=6.9e-07 Score=63.29 Aligned_cols=61 Identities=20% Similarity=0.188 Sum_probs=54.0
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|+..-..+.+++|.++|++++|-.+.. +.+|+++
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~ 65 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQ 65 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHh
Confidence 6999999995 67999999999999999987666678999999999999988887 7899863
No 17
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=98.47 E-value=9.5e-07 Score=61.26 Aligned_cols=62 Identities=23% Similarity=0.399 Sum_probs=52.3
Q ss_pred eeEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 8 PVNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 8 ~v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+++||++++++. ..|+....++++|++++|......+.+|+|.++|+++++-.+.. +.+|++
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~ 66 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLID 66 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhh
Confidence 489999999987 78999999999999999997555578999999999999999988 788876
No 18
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=98.47 E-value=3.4e-07 Score=65.62 Aligned_cols=58 Identities=14% Similarity=0.213 Sum_probs=49.8
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCC-CCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSK-GDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~-~d~~~aa~-A~~Li~~ 70 (70)
+||+|||.+ |+..+.|+++|++++|....++ +.+|.+++++.+ +|+|.++. +-+||++
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~ 61 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSR 61 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhc
Confidence 589999999 6899999999999999876553 578988999887 69999998 6888864
No 19
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=98.44 E-value=1e-06 Score=60.96 Aligned_cols=61 Identities=25% Similarity=0.358 Sum_probs=53.3
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|++.-..+.+|++.+.|+++++..+.. +.+|+++
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~ 65 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQ 65 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcc
Confidence 6999999997 56788899999999999997655568999999999999999888 7888863
No 20
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=98.43 E-value=1.2e-06 Score=63.63 Aligned_cols=63 Identities=22% Similarity=0.335 Sum_probs=56.9
Q ss_pred eeeEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 7 IPVNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 7 ~~v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
.+|+||++++++. ..|+..+.++++|++++|....+++.+|+|...|..+||-+++. |.+|+.
T Consensus 9 ~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~ 75 (366)
T COG0683 9 DTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLIT 75 (366)
T ss_pred CceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHh
Confidence 3699999999975 78999999999999999998887665699999999999999998 888886
No 21
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=98.43 E-value=1.3e-06 Score=61.41 Aligned_cols=60 Identities=18% Similarity=0.277 Sum_probs=52.6
Q ss_pred EEEEEEeCCCc---hhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~---iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++++ .|+....++++|++++|...-..+.++++.++|+++++..+.. +.+|++
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~ 64 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVE 64 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHh
Confidence 59999999874 5899999999999999987655568999999999999988877 788886
No 22
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=98.42 E-value=1.2e-06 Score=61.94 Aligned_cols=64 Identities=11% Similarity=0.120 Sum_probs=56.7
Q ss_pred ceeeEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 6 TIPVNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 6 ~~~v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+.+|+||++++++. ..|+..+.++++|++++|+..-..+.+|+|.++|+++++-.++. +.+|++
T Consensus 4 ~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~ 71 (362)
T cd06343 4 DTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVE 71 (362)
T ss_pred CceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHh
Confidence 46799999999985 68999999999999999987666678999999999999988887 788886
No 23
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=98.40 E-value=1.1e-06 Score=61.68 Aligned_cols=61 Identities=18% Similarity=0.225 Sum_probs=54.5
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++.+++. ..|+..+.++++|++++|+.....+.+|+++++|+++++-.+.. +.+|+++
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~ 65 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVAD 65 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhcc
Confidence 5999999985 67999999999999999987766678999999999999988888 7889864
No 24
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=98.40 E-value=1.4e-06 Score=63.77 Aligned_cols=61 Identities=15% Similarity=0.236 Sum_probs=55.0
Q ss_pred eEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 9 VNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 9 v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
|+||++.+++. ..|+..+.++++|++.+|+..-..+.+|+|..+|++++|-.|.. +.+|++
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~ 65 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLN 65 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 68999999985 78999999999999999987666678999999999999998888 788986
No 25
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=98.40 E-value=1e-06 Score=61.24 Aligned_cols=57 Identities=12% Similarity=0.203 Sum_probs=49.3
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecC-CCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDS-KGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS-~~d~~~aa~-A~~Li~ 69 (70)
+||+||+.++ +..+.|+++|++++|+....+ +.+|.+.+.|. .+++..+.. +.+|++
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~ 60 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS 60 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh
Confidence 5999999999 999999999999999987665 35888888997 699999888 777774
No 26
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=98.38 E-value=1.8e-06 Score=60.86 Aligned_cols=60 Identities=15% Similarity=0.284 Sum_probs=52.8
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++. ..|+..+.++++|++++|...-..+.+++|.++|++++|-.+.. +.+|++
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~ 64 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVS 64 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhc
Confidence 5999999984 78999999999999999987654567899999999999988887 788885
No 27
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=98.36 E-value=2.1e-06 Score=59.49 Aligned_cols=61 Identities=23% Similarity=0.303 Sum_probs=53.4
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+....++++|++++|+..-..+.++++.+.|++|++..++. +.+|+++
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~ 65 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD 65 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC
Confidence 5999999985 78899999999999999997554568999999999999999887 7888864
No 28
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=98.33 E-value=2.1e-06 Score=60.72 Aligned_cols=61 Identities=18% Similarity=0.285 Sum_probs=54.0
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|...-..+.+|+|.++|++++|-.+.. +.+|+++
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~~ 65 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD 65 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh
Confidence 5899999986 68999999999999999987666678999999999999999888 7888864
No 29
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=98.30 E-value=3.8e-06 Score=59.49 Aligned_cols=61 Identities=23% Similarity=0.330 Sum_probs=52.2
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCC-cceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~-~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++.+++. ..|+..+.+++||++++|+.+.. .+.+|+|...|++++|-.++. +.+|+++
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~ 66 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGD 66 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHh
Confidence 6999999995 68999999999999999764433 357999999999999999988 7888864
No 30
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=98.30 E-value=2.5e-06 Score=60.57 Aligned_cols=61 Identities=18% Similarity=0.305 Sum_probs=54.6
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|...-+.+.+++|.++|.+++|-.+.. +.+|+++
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~ 65 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAAD 65 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhcc
Confidence 6999999997 88999999999999999997656678999999999999988888 8999864
No 31
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=98.29 E-value=3.9e-06 Score=58.79 Aligned_cols=60 Identities=18% Similarity=0.208 Sum_probs=51.4
Q ss_pred EEEEEEeCC---CchhHHHHHHHHHHHhhhhcCCC----CcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDIN---GEDGKIALSCINMSLSDFYNSNS----HYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~---S~iGk~~~~aiemAv~Dfn~~~~----~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++ +..|+..+.++++|++++|...- ..+.+++|..+|+++|+-.+.. +.+|++
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~ 68 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLIT 68 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHh
Confidence 699999999 47799999999999999998532 2357899999999999988887 788885
No 32
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=98.28 E-value=2.7e-06 Score=60.74 Aligned_cols=60 Identities=15% Similarity=-0.000 Sum_probs=52.5
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCC-cceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~-~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++. ..|+..+.++++|++++|+.... .+.+|++.++|++|++-.++. +.+|+.
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~ 65 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYW 65 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHh
Confidence 5999999974 79999999999999999997743 357899999999999988887 788875
No 33
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=98.24 E-value=2.6e-06 Score=61.41 Aligned_cols=61 Identities=16% Similarity=0.066 Sum_probs=54.1
Q ss_pred EEEEEEeCC---CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDIN---GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~---S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++.+++ +..|+..+.++++|++++|+..-+.+.+|+|.++|++++|-.+.. +.+|+++
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~ 65 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGE 65 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhcc
Confidence 689999998 488999999999999999987666678999999999999999888 7888864
No 34
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=98.22 E-value=6.6e-06 Score=57.05 Aligned_cols=59 Identities=17% Similarity=0.208 Sum_probs=50.8
Q ss_pred EEEEEEeCC---CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDIN---GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~---S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++ +..|+..+.++++|++++|. .-..+.+++|.+.|+++++-.+.. +.+|++
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~ 63 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIE 63 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHh
Confidence 599999999 57889999999999999998 544468899999999999988766 666775
No 35
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=98.21 E-value=8.6e-06 Score=54.03 Aligned_cols=60 Identities=22% Similarity=0.329 Sum_probs=51.2
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||+|+++++ ..|+....++++|++++|...-..+.++++.+.|+.+++-.+.. +.+|++
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~ 64 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQ 64 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhc
Confidence 5999999995 68899999999999999987644468999999999999988776 677765
No 36
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=98.20 E-value=3.5e-06 Score=59.20 Aligned_cols=58 Identities=26% Similarity=0.362 Sum_probs=50.3
Q ss_pred EEEEEEeCCCch----hHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGED----GKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~i----Gk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++.+. |+..+.++++|++++| .-..+.+|+|..+|++++|-.+.. +.+|++
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~ 63 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGVLGRPIELVVADHQNKADVAAAKAREWID 63 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCccCeEEEEEEecCCCCchHHHHHHHHHHh
Confidence 589999998655 8999999999999999 334468999999999999988888 788885
No 37
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=98.19 E-value=7.2e-06 Score=58.23 Aligned_cols=61 Identities=23% Similarity=0.341 Sum_probs=52.1
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCC---CcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNS---HYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~---~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|...+.++++|++++|...- ..+.+|+|.++|+++++..+.. +.+|+++
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~ 68 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITE 68 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhcc
Confidence 5999999985 7889999999999999998652 2357999999999999998887 6788753
No 38
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=98.17 E-value=1.2e-05 Score=55.91 Aligned_cols=61 Identities=15% Similarity=0.141 Sum_probs=52.2
Q ss_pred eEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 9 VNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 9 v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
++||++.+++. ..|+..+-++++|++++|......+.++.|...|+++|+-.+.. +.+|++
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~ 65 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIE 65 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHh
Confidence 68999999986 56888999999999999987655567999999999999988766 677765
No 39
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=98.15 E-value=6.8e-06 Score=58.36 Aligned_cols=61 Identities=21% Similarity=0.257 Sum_probs=51.9
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCc--c--eEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHY--K--TRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~--~--t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|...-.. + .+++|.++|++++|-.+.. +.+|+++
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~ 69 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQ 69 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhh
Confidence 5999999995 578999999999999999865433 2 4899999999999999988 7888853
No 40
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=98.10 E-value=1.7e-05 Score=55.47 Aligned_cols=60 Identities=17% Similarity=0.132 Sum_probs=50.7
Q ss_pred EEEEEEeCCC-------------chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S-------------~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
.||++|++.+ ..|.....++.+|++++|++...+ +.+|.+.++|+.|++..|+. +.+|++
T Consensus 1 ~ig~lf~~~~~~~~~~~~c~~~~~~~~~~~~~~~~Av~~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~ 75 (348)
T cd06350 1 IIGGLFPLHSGSESVSLKCGRFGKKGLQAAEAMLFAVEEINNDPDLLPNITLGYHIYDSCCSPAVALRAALDLLL 75 (348)
T ss_pred CeEEEEeCcccccCCCcccceechHHHHHHHHHHHHHHHHcCCCccCCCCceeEEEEecCCcchHHHHHHHHHHh
Confidence 3799999887 467777789999999999876555 58999999999999999988 788875
No 41
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=98.08 E-value=2e-05 Score=52.20 Aligned_cols=61 Identities=23% Similarity=0.376 Sum_probs=51.4
Q ss_pred EEEEEEeCC---CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDIN---GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~---S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++ +..|+....++++|++++|...-..+.++++.++|+++++-.+.. +.+|+++
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~~~ 65 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELVDD 65 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHHhC
Confidence 599999998 589999999999999999986543467999999999999987766 6777653
No 42
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=98.05 E-value=1.6e-05 Score=57.34 Aligned_cols=60 Identities=8% Similarity=0.022 Sum_probs=47.9
Q ss_pred EEEEEEeCCC--c-hhHHHHHHHHHHHhhhhcCCCCcc-eEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING--E-DGKIALSCINMSLSDFYNSNSHYK-TRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S--~-iGk~~~~aiemAv~Dfn~~~~~~~-t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++..++. . -|...+.|+++|++++|++...++ .+|++.++|++|++..|+. +.+|+.
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~ 65 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQ 65 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHH
Confidence 4788886543 3 555556899999999999876654 7999999999999999888 677764
No 43
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=98.04 E-value=1.4e-05 Score=57.88 Aligned_cols=61 Identities=11% Similarity=0.078 Sum_probs=48.2
Q ss_pred eeEEEEEEeC-C---CchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCC-CHHHHHH-HHHhh
Q 041662 8 PVNVGLVLDI-N---GEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKG-DVVAAAA-AEILI 68 (70)
Q Consensus 8 ~v~IG~i~d~-~---S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~-d~~~aa~-A~~Li 68 (70)
.++||+|++. + +..|+..+.||++|++++|++...+ ..+|...+++..+ +++.++. +.+++
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l 69 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQL 69 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhccc
Confidence 5899999994 3 4678999999999999999988765 4788888998765 7776665 44443
No 44
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=97.99 E-value=2.7e-05 Score=57.20 Aligned_cols=62 Identities=13% Similarity=0.144 Sum_probs=52.1
Q ss_pred eeEEEEEEeCCC-------------chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 8 PVNVGLVLDING-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 8 ~v~IG~i~d~~S-------------~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
.+-||.+|++.. ..|...+.||++|++++|++...+ +.+|.+.++|+.+++-.|.. +.+|+.
T Consensus 2 d~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~ 78 (452)
T cd06362 2 DIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVR 78 (452)
T ss_pred CeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHh
Confidence 367888888864 478888999999999999988665 68999999999999988877 777774
No 45
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=97.98 E-value=3.5e-05 Score=54.01 Aligned_cols=60 Identities=18% Similarity=0.088 Sum_probs=51.7
Q ss_pred EEEEEEeCC---CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDIN---GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~---S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++ +..|+....++++|++++|...-..+.+++|.+.|+++++-.+.. +.+|++
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~ 64 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVE 64 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHH
Confidence 699999997 389999999999999999986555467899999999999988877 677875
No 46
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=97.97 E-value=4e-05 Score=56.64 Aligned_cols=49 Identities=16% Similarity=0.112 Sum_probs=42.5
Q ss_pred chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 20 EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 20 ~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
..|=....||++|+|++|++. .+ +.+|.+.++|+.+++..|.. +.+|++
T Consensus 32 ~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~ 82 (403)
T cd06361 32 IKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRFLS 82 (403)
T ss_pred hhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHHHh
Confidence 357778889999999999987 44 58999999999999999988 788875
No 47
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=97.96 E-value=4.4e-05 Score=53.72 Aligned_cols=59 Identities=17% Similarity=0.174 Sum_probs=49.7
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++++++. ..|+..+.++++|++++|.. ..+.+++|..+|++++|-.+.. +.+|+++
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~ingg--i~G~~i~l~~~D~~~~p~~a~~~~~~lv~~ 63 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLGGK--LGGLPVEVVVEDDGLKPDVAKQAAERLIKR 63 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhCCc--cCCEEEEEEecCCCCChHHHHHHHHHHHhh
Confidence 5999999986 56888999999999999842 3357899999999999988877 7888853
No 48
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=97.94 E-value=4.4e-05 Score=57.02 Aligned_cols=65 Identities=14% Similarity=0.086 Sum_probs=55.9
Q ss_pred CceeeEEEEEEeCCC-----------------chhHHHHHHHHHHHhhhhcCCCCcc-eEEEEEeecCCCCHHHHHH-HH
Q 041662 5 TTIPVNVGLVLDING-----------------EDGKIALSCINMSLSDFYNSNSHYK-TRLLLNTRDSKGDVVAAAA-AE 65 (70)
Q Consensus 5 ~~~~v~IG~i~d~~S-----------------~iGk~~~~aiemAv~Dfn~~~~~~~-t~l~l~~~DS~~d~~~aa~-A~ 65 (70)
.++-+-||.+|+.-+ ..|-....||.+|+|++|+++..|+ .+|.+.++|+.+++..|.- +.
T Consensus 6 ~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~ 85 (472)
T cd06374 6 MDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSI 85 (472)
T ss_pred ecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHH
Confidence 366788999998874 3677888999999999999988875 8999999999999999887 78
Q ss_pred Hhhh
Q 041662 66 ILID 69 (70)
Q Consensus 66 ~Li~ 69 (70)
+|+.
T Consensus 86 ~~i~ 89 (472)
T cd06374 86 EFIR 89 (472)
T ss_pred HHHh
Confidence 8874
No 49
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=97.90 E-value=4.5e-05 Score=55.06 Aligned_cols=59 Identities=15% Similarity=0.063 Sum_probs=49.4
Q ss_pred EEEEEEeCCC----chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCC----CHHHHHH-HHHhh
Q 041662 10 NVGLVLDING----EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKG----DVVAAAA-AEILI 68 (70)
Q Consensus 10 ~IG~i~d~~S----~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~----d~~~aa~-A~~Li 68 (70)
+||+++..+. ..|+-.+.++++|++++|+....+ +.+|++..+|++| ++..++. |.+|+
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~ 69 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLY 69 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHH
Confidence 5899998873 577888899999999999977554 5899999999999 7878777 77776
No 50
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=97.83 E-value=0.00011 Score=53.60 Aligned_cols=64 Identities=14% Similarity=0.062 Sum_probs=51.6
Q ss_pred CceeeEEEEEEeCCC---------------------chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHH
Q 041662 5 TTIPVNVGLVLDING---------------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAA 62 (70)
Q Consensus 5 ~~~~v~IG~i~d~~S---------------------~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa 62 (70)
.|+.+-||++|.+.- ..|...+.|++||++++|++...+ +.+|.+.+.|+.+ +-.|.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~ 81 (410)
T cd06363 3 LPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANF 81 (410)
T ss_pred CCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHH
Confidence 466788888887654 678899999999999999988776 6899999999844 65666
Q ss_pred H-HHHhhh
Q 041662 63 A-AEILID 69 (70)
Q Consensus 63 ~-A~~Li~ 69 (70)
. +.+|++
T Consensus 82 ~~~~~li~ 89 (410)
T cd06363 82 PPTLSLLS 89 (410)
T ss_pred HHHHHHHh
Confidence 5 688774
No 51
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=97.83 E-value=0.00013 Score=55.71 Aligned_cols=65 Identities=15% Similarity=0.080 Sum_probs=55.5
Q ss_pred CceeeEEEEEEeCCC----------------------chhHHHHHHHHHHHhhhhcCCCCcc-eEEEEEeecCCCCHHHH
Q 041662 5 TTIPVNVGLVLDING----------------------EDGKIALSCINMSLSDFYNSNSHYK-TRLLLNTRDSKGDVVAA 61 (70)
Q Consensus 5 ~~~~v~IG~i~d~~S----------------------~iGk~~~~aiemAv~Dfn~~~~~~~-t~l~l~~~DS~~d~~~a 61 (70)
.++-+-||.+|++-+ ..|.....||.+|++++|+++..++ .+|.+.++|+.+++-.|
T Consensus 9 ~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a 88 (510)
T cd06364 9 KKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKA 88 (510)
T ss_pred ecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHH
Confidence 356789999999975 6788899999999999999887764 68999999999999888
Q ss_pred HH-HHHhhh
Q 041662 62 AA-AEILID 69 (70)
Q Consensus 62 a~-A~~Li~ 69 (70)
.. +.+|+.
T Consensus 89 ~~~a~~li~ 97 (510)
T cd06364 89 LEATLSFVA 97 (510)
T ss_pred HHHHHHHHh
Confidence 77 788875
No 52
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=97.78 E-value=9.9e-05 Score=55.70 Aligned_cols=61 Identities=20% Similarity=0.248 Sum_probs=46.2
Q ss_pred eEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 9 VNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 9 v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
++||+++.+++ ..++..+-+..||++.+|++.-.++.+|+..+.|..+|+-.-+- |.+||.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~ 65 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIR 65 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHH
Confidence 68999999998 56677788999999999998887889999999999999988888 899985
No 53
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=97.75 E-value=8.1e-05 Score=53.05 Aligned_cols=58 Identities=16% Similarity=0.116 Sum_probs=48.0
Q ss_pred eeEEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 8 PVNVGLVLDINGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 8 ~v~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
.++||+|+|.++.. +..+.|+.+|..|++ -+ ++.++++...|+++||+.++. +.++|.
T Consensus 2 ~~~ig~~~~~~~~~-~~~~~a~~~~~~~~~-~~--~~~~~~l~~~d~~~d~~~~~~~~~~~l~ 60 (362)
T cd06367 2 TVNIGVVLSGSSSE-PAFRDAVTAANFRHN-LP--YNLSLEAVAVSNDTDPISLLLSVCDLLV 60 (362)
T ss_pred ceEEEEEecCCcch-hhHHHHhhhcccccc-CC--cccceEEEEEecCCCHHHHHHHHHHHhc
Confidence 58999999999766 888888888888888 22 457899999999999999886 566653
No 54
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=97.75 E-value=7.2e-05 Score=54.28 Aligned_cols=49 Identities=6% Similarity=0.038 Sum_probs=41.6
Q ss_pred EEEEEEeCCCc---hh-HHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCH
Q 041662 10 NVGLVLDINGE---DG-KIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDV 58 (70)
Q Consensus 10 ~IG~i~d~~S~---iG-k~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~ 58 (70)
+||++++++.+ .| +....|+++|++++|++...+ +.+|++...|+++++
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~ 54 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKE 54 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccC
Confidence 59999998765 66 888999999999999987666 689999999996554
No 55
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=97.65 E-value=0.00011 Score=52.48 Aligned_cols=53 Identities=25% Similarity=0.338 Sum_probs=45.5
Q ss_pred EEEEEEeCCCc---hhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~---iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++.. .|+..+.++++|++++| +.+++|.++|+++ +-.+.. +.+|++
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in------G~~i~l~~~D~~~-~~~a~~~~~~li~ 57 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN------GASIELRVYDTAG-AAGAAAAARQAVA 57 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc------CCCceEEEEeCCC-cccHHHHHHHHHH
Confidence 59999999885 89999999999999999 3578899999999 877776 666764
No 56
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=97.61 E-value=0.0002 Score=52.15 Aligned_cols=55 Identities=13% Similarity=-0.005 Sum_probs=46.2
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCC-cceEEEEEeecCCCCHHHHHHH
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRDSKGDVVAAAAA 64 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~-~~t~l~l~~~DS~~d~~~aa~A 64 (70)
+||++.+++. -.|...+.++++|++++|++... .+.+|++.+.|++|++..++.+
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~ 59 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAA 59 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHH
Confidence 5899998854 56788999999999999998765 3679999999999998777653
No 57
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=97.56 E-value=0.00022 Score=51.04 Aligned_cols=61 Identities=20% Similarity=0.137 Sum_probs=49.7
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCC--CcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNS--HYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~--~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||++.+++. ..|...+.+.+++++.+|.--- +-+.+|+|..+|++++|-.|.. +.+|+++
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~ 67 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILT 67 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhc
Confidence 5999999984 6688888999999999985321 1124799999999999999998 7889864
No 58
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=97.55 E-value=0.00022 Score=52.47 Aligned_cols=50 Identities=18% Similarity=0.106 Sum_probs=41.9
Q ss_pred CCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecC------CCCHHHHHH--HHHhhh
Q 041662 17 INGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDS------KGDVVAAAA--AEILID 69 (70)
Q Consensus 17 ~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS------~~d~~~aa~--A~~Li~ 69 (70)
.+...|++++.|+++|++|||.+. +++|.++++++ +++++.++. +-+||+
T Consensus 6 ~~~~~~~~~~~A~~~Av~~~N~~~---~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~ 63 (368)
T cd06383 6 MTEDDNDVYKQIIDDALSYINRNI---GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKAD 63 (368)
T ss_pred ecccchHHHHHHHHHHHHHHhcCC---CCceEEEEecccccccccCCcHHHHHHHHHHHHH
Confidence 445689999999999999999875 57999999999 987777776 577774
No 59
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=97.52 E-value=0.00044 Score=51.49 Aligned_cols=56 Identities=14% Similarity=0.166 Sum_probs=45.9
Q ss_pred eeEEEEEEeCCC-------------chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH
Q 041662 8 PVNVGLVLDING-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA 63 (70)
Q Consensus 8 ~v~IG~i~d~~S-------------~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~ 63 (70)
.+.||.+|++.. ..|.....||.+|++++|+++..+ +.+|.+.++|+.+++-.+..
T Consensus 2 di~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~ 71 (463)
T cd06376 2 DITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALE 71 (463)
T ss_pred CeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHH
Confidence 478999998872 267778999999999999988776 48999999999987754444
No 60
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=97.51 E-value=0.00055 Score=47.56 Aligned_cols=58 Identities=21% Similarity=0.223 Sum_probs=47.6
Q ss_pred EEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++. ..|.....++++|+++.+.. .-+.+++|.++|+++++-.+.. +.+|++
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~~~--i~G~~i~l~~~D~~~~~~~~~~~~~~lv~ 62 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAGGK--LGGREVEFVVEDDEAKPDVAVEKARKLIE 62 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhCCC--cCCEEEEEEEcCCCCChHHHHHHHHHHHH
Confidence 5999999986 45588999999999998642 2257999999999999988877 677764
No 61
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=97.49 E-value=0.00046 Score=51.83 Aligned_cols=61 Identities=11% Similarity=0.141 Sum_probs=52.2
Q ss_pred eeEEEEEEeCCC-------------chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhh
Q 041662 8 PVNVGLVLDING-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILI 68 (70)
Q Consensus 8 ~v~IG~i~d~~S-------------~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li 68 (70)
.+-||.+|++.+ .-|-....||.+|++++|+++..+ +.+|.++++|+.+++-.|.. +++|+
T Consensus 2 d~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i 77 (458)
T cd06375 2 DLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFV 77 (458)
T ss_pred CEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHH
Confidence 367899998863 468889999999999999988665 58999999999999988887 77777
No 62
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=97.48 E-value=0.00054 Score=51.53 Aligned_cols=50 Identities=4% Similarity=-0.011 Sum_probs=43.2
Q ss_pred chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 20 EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 20 ~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
.-|-....||.+|++++|+++..+ +.+|.++++|+.|++-.|+. +.+|+.
T Consensus 36 ~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~~~~~~~~ 87 (469)
T cd06365 36 LKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALESSLMWLS 87 (469)
T ss_pred chhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHHHHHHHHh
Confidence 467778889999999999988766 48999999999999998887 788873
No 63
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=97.45 E-value=0.00081 Score=46.42 Aligned_cols=58 Identities=17% Similarity=0.188 Sum_probs=47.7
Q ss_pred EEEEEEeCCCc---hhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~---iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++++.+ .|+....++++|++++|.. ..+.+++|.+.|+++++-.+.. +.+|++
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~~~--i~G~~i~l~~~d~~~~~~~~~~~~~~l~~ 62 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLGGK--LGGRPVEVVVEDDELKPDVAVQAARKLIE 62 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhCCC--cCCeEEEEEEecCCCCHHHHHHHHHHHHH
Confidence 59999999975 6778999999999999742 2357899999999999987776 677764
No 64
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=97.44 E-value=0.00039 Score=51.02 Aligned_cols=58 Identities=12% Similarity=0.083 Sum_probs=41.1
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCC-cc-eEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSH-YK-TRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~-~~-t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+||+||+.++..+++ |+.+|+.++|.+..+ .. ..+.+...|..+||+.|+. +.+||++
T Consensus 1 ~IG~if~~~~~~~~~---af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~ 61 (363)
T cd06381 1 HIGAIFSESALEDDE---VFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ 61 (363)
T ss_pred CeeeeccCCcchHHH---HHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc
Confidence 599999999876544 566666655543322 22 3466677899999999998 6888874
No 65
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=97.43 E-value=0.00059 Score=46.77 Aligned_cols=56 Identities=14% Similarity=0.220 Sum_probs=45.4
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCC-CCHHHHHH-HHHhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSK-GDVVAAAA-AEILI 68 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~-~d~~~aa~-A~~Li 68 (70)
+||+|++.++ +..+.++++|++.+|.....+ ++++.+.+.+.. +|++.++. +.+|+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~ 59 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLL 59 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHH
Confidence 5999999998 999999999999999977653 356666666555 89999888 67776
No 66
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=97.30 E-value=0.00051 Score=56.49 Aligned_cols=61 Identities=21% Similarity=0.224 Sum_probs=50.7
Q ss_pred eeEEEEEEeCC-----CchhHHHHHHHHHHHhhhhcCCCCcc-eEEEEEeecCCCCHHHHHHH-HHhh
Q 041662 8 PVNVGLVLDIN-----GEDGKIALSCINMSLSDFYNSNSHYK-TRLLLNTRDSKGDVVAAAAA-EILI 68 (70)
Q Consensus 8 ~v~IG~i~d~~-----S~iGk~~~~aiemAv~Dfn~~~~~~~-t~l~l~~~DS~~d~~~aa~A-~~Li 68 (70)
...|+.++.+. ...|+-.+.|+|||++|+|+.+.++. .+|.|+.+||+|++-+|..+ .++|
T Consensus 41 ~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll 108 (865)
T KOG1055|consen 41 PRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLL 108 (865)
T ss_pred CceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHH
Confidence 36677777765 48899999999999999999887774 89999999999999888774 4544
No 67
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=97.10 E-value=0.0028 Score=42.07 Aligned_cols=58 Identities=17% Similarity=0.109 Sum_probs=41.7
Q ss_pred EEEEEEeCCC--chhHHHH---HHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDING--EDGKIAL---SCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S--~iGk~~~---~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
+||++++..+ ..+.... .++..|++..|.. ..+.+|.+.++|+.|++-.+.. +.+|++
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~--~~~~~l~~~~~d~~~~~~~~~~~~~~~~~ 64 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND--LPNTTLGYEIYDSCCSPSDAFSAALDLCS 64 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc--CCCCeeeeEEEecCCChHHHHHHHHHHHh
Confidence 4899999987 4555544 4455555555554 2357999999999999988887 677765
No 68
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=97.08 E-value=0.0023 Score=46.01 Aligned_cols=57 Identities=19% Similarity=0.170 Sum_probs=36.2
Q ss_pred CCceeeEEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCC-----c-ceEEEEEeecCCCCHHHHHH--HHHhhhC
Q 041662 4 NTTIPVNVGLVLDINGEDGKIALSCINMSLSDFYNSNSH-----Y-KTRLLLNTRDSKGDVVAAAA--AEILIDQ 70 (70)
Q Consensus 4 ~~~~~v~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~-----~-~t~l~l~~~DS~~d~~~aa~--A~~Li~~ 70 (70)
..|.+|+||+|++ ++ ..+.+.++|++.+|++... + ..++++ .++++..+. +.+|+++
T Consensus 15 ~~~~~i~IG~i~~-~~----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~-----~~~~~~~a~~~~~~Li~~ 79 (377)
T cd06379 15 CSPKTVNIGAVLS-NK----KHEQEFKEAVNAANVERHGSRKIKLNATTITH-----DPNPIQTALSVCEQLISN 79 (377)
T ss_pred CCCcEEEEeEEec-ch----hHHHHHHHHHHHHhhhhcCCcceeeccceEee-----cCChhhHHHHHHHHHhhc
Confidence 3477899999997 33 4566777777777774321 2 245555 357777654 4567753
No 69
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=96.79 E-value=0.0053 Score=44.75 Aligned_cols=40 Identities=10% Similarity=0.022 Sum_probs=33.7
Q ss_pred chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHH
Q 041662 20 EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVV 59 (70)
Q Consensus 20 ~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~ 59 (70)
..+...+.|+++|++++|++...+ +.+|++++.|++|++-
T Consensus 14 ~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~ 54 (387)
T cd06386 14 FSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNE 54 (387)
T ss_pred eehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCch
Confidence 456778899999999999976543 6899999999999984
No 70
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=96.03 E-value=0.016 Score=42.20 Aligned_cols=50 Identities=16% Similarity=0.066 Sum_probs=35.5
Q ss_pred EEEEEEeCCC-----chhHHHHHHHHHHHhhhhcCCCC-cceEEEEEeecCCCCHHH
Q 041662 10 NVGLVLDING-----EDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRDSKGDVVA 60 (70)
Q Consensus 10 ~IG~i~d~~S-----~iGk~~~~aiemAv~Dfn~~~~~-~~t~l~l~~~DS~~d~~~ 60 (70)
+||+++.-+- .. +....|+++|+|++|+.... .+.+|++.+.|+++++..
T Consensus 1 ~~~~~~~~~~~~~~~~~-~~~~~a~~lAieeiN~~g~il~g~~l~~~~~D~~~~~~~ 56 (399)
T cd06384 1 TLAVVLPDNNLKYAWAW-PRVGPAIRMAVERIQNKGKLLRGYTITLLNKSSELNGGC 56 (399)
T ss_pred CeEEECCCCCCCCeeeh-hhhHHHHHHHHHHHhccCCcCCCceEEEEEeccCCcccc
Confidence 4788884222 22 33447999999999997754 367999999998766433
No 71
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=95.92 E-value=0.026 Score=41.27 Aligned_cols=51 Identities=12% Similarity=0.088 Sum_probs=41.0
Q ss_pred CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhhC
Q 041662 19 GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILIDQ 70 (70)
Q Consensus 19 S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~~ 70 (70)
+.-+...+.+++||++++|+..-.++.+++|...|. ++|-.+.. +.+|+++
T Consensus 7 ~~~~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li~~ 58 (347)
T TIGR03863 7 PPPEDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALLAQ 58 (347)
T ss_pred CCCcchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHHHC
Confidence 455677888999999999987666677899998985 78888877 7888753
No 72
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=93.98 E-value=0.4 Score=30.52 Aligned_cols=52 Identities=23% Similarity=0.284 Sum_probs=39.4
Q ss_pred EEEEEEeCC--CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhh
Q 041662 10 NVGLVLDIN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILI 68 (70)
Q Consensus 10 ~IG~i~d~~--S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li 68 (70)
+||+|++.. ...+.....+++.+++++ +..+++.+.|+.+++-.... ..+++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~~~~~~ 55 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-------GRGLEVILADSQSDPERALEALRDLI 55 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-------CCceEEEEecCCCCHHHHHHHHHHHH
Confidence 589999987 788888889999999997 13567788899998744443 34444
No 73
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=93.22 E-value=0.33 Score=36.06 Aligned_cols=57 Identities=7% Similarity=0.045 Sum_probs=40.8
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcc--eEEEEEeecCC-CCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHYK--TRLLLNTRDSK-GDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~--t~l~l~~~DS~-~d~~~aa~-A~~Li~ 69 (70)
+||+||+-++ .....|...|++.+|.....+. ++|+-++..-+ .|.|.+.- +=+||+
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~ 61 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFS 61 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhh
Confidence 5899999665 3467999999999998764432 57777665444 68888776 445554
No 74
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=92.81 E-value=0.43 Score=36.19 Aligned_cols=54 Identities=11% Similarity=-0.008 Sum_probs=42.6
Q ss_pred ceeeEEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCC-CCHHHHHH
Q 041662 6 TIPVNVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSK-GDVVAAAA 63 (70)
Q Consensus 6 ~~~v~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~-~d~~~aa~ 63 (70)
+..++||+|||-. ..++.|+..|++-+|...... +++|+..+..-+ +|+|..+-
T Consensus 16 ~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~ 71 (382)
T cd06377 16 GHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLR 71 (382)
T ss_pred CCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHH
Confidence 4469999999976 447999999999999865333 478888888776 68887765
No 75
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=91.75 E-value=0.74 Score=33.83 Aligned_cols=57 Identities=9% Similarity=0.036 Sum_probs=39.9
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCc--ceEEEEEeecCC-CCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHY--KTRLLLNTRDSK-GDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~--~t~l~l~~~DS~-~d~~~aa~-A~~Li~ 69 (70)
+||+|||-++ .....|.+.|++.+|.+.... .++|.-+++.-+ .|.|.+.- +=+||+
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~ 61 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYS 61 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHh
Confidence 5899999666 346799999999999865222 267777666544 57777766 445554
No 76
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=90.69 E-value=1 Score=30.81 Aligned_cols=34 Identities=15% Similarity=0.271 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCH
Q 041662 25 ALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDV 58 (70)
Q Consensus 25 ~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~ 58 (70)
.+.|+++|++++|+++..+ +.+|.+++.|+.++.
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~ 36 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDD 36 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTT
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCC
Confidence 3678999999999987633 579999999998433
No 77
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=84.74 E-value=3.1 Score=30.39 Aligned_cols=53 Identities=13% Similarity=0.162 Sum_probs=37.9
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCC-CCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSK-GDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~-~d~~~aa~-A~~Li~ 69 (70)
+||.|||-++ ..+..|.+.|++-+|... ++|+-++..-+ .|.|.+.- +=+||+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~~----~~l~~~~~~~~~~dsf~~~~~~C~~~~ 55 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTSE----FRLTPHIDNLEVANSFAVTNAFCSQFS 55 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhcccC----ceeeeeeEEecccchHHHHHHHHHHhh
Confidence 5899999877 346799999999999852 57766555443 57777665 344554
No 78
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=82.79 E-value=2.6 Score=30.96 Aligned_cols=52 Identities=8% Similarity=0.008 Sum_probs=33.5
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeec-CCCCHHHHHH-HHHhhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRD-SKGDVVAAAA-AEILID 69 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~D-S~~d~~~aa~-A~~Li~ 69 (70)
+||+||+-++ .....|...|++.+|.....+ -+++. ...|.|.+.- +=+||+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~-----~~~~~~~~~dsf~~~~~~C~~~~ 54 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLL-----PQIDIVNISDSFEMTYTFCSQFS 54 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccc-----cceEEeccccHHHHHHHHHHHhh
Confidence 5899998875 456799999999999865222 12221 2356666655 344554
No 79
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=81.45 E-value=12 Score=25.00 Aligned_cols=56 Identities=13% Similarity=0.141 Sum_probs=37.5
Q ss_pred EEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhh
Q 041662 10 NVGLVLDINGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILI 68 (70)
Q Consensus 10 ~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li 68 (70)
+||++++++...-.....+++..+....-. .+.++++.+.|+..++-.... ..+|+
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~~~~~~~g~~---~g~~v~l~~~~~~~~~~~~~~~~~~l~ 57 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFKDGLKEAGYK---EGKNVKIDYQNAQGDQSNLPTIARKFV 57 (281)
T ss_pred CeEEecCCCCcchHHHHHHHHHHHHHhCcc---CCceEEEEEecCCCCHHHHHHHHHHHH
Confidence 589999987776666666666666554321 235788889999888865544 34444
No 80
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=80.42 E-value=4.2 Score=31.93 Aligned_cols=51 Identities=20% Similarity=0.299 Sum_probs=29.4
Q ss_pred eeeEEEEEEeCCC---chhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH
Q 041662 7 IPVNVGLVLDING---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA 63 (70)
Q Consensus 7 ~~v~IG~i~d~~S---~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~ 63 (70)
.+-+|+++|.++. ..|+..+-.|..|. +.... .+..|+|-||+.+++.++.
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~~---~~~~l~~~Dt~~~~~~~~~ 271 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADAD---SRPELRFYDTNADSADALY 271 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH------TT-----S-EEEEETTTS-HHHHH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccccc---CCCceEEecCCCCCHHHHH
Confidence 3568999999998 56667777777777 22222 4677899999988776665
No 81
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=75.07 E-value=19 Score=23.37 Aligned_cols=45 Identities=18% Similarity=0.163 Sum_probs=31.6
Q ss_pred EEEEEEeC-CCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH
Q 041662 10 NVGLVLDI-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA 63 (70)
Q Consensus 10 ~IG~i~d~-~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~ 63 (70)
+||+|+.. .+........+++.+.+.. .+.+.+.++.+++-....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~---------g~~~~~~~~~~~~~~~~~ 46 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL---------GVELIVLDAQNDVSKQIQ 46 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc---------CceEEEECCCCCHHHHHH
Confidence 58999954 5788888899999988872 234455677766644433
No 82
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=61.03 E-value=41 Score=21.54 Aligned_cols=40 Identities=13% Similarity=0.010 Sum_probs=30.5
Q ss_pred EEEEEEeCC-CchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCH
Q 041662 10 NVGLVLDIN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDV 58 (70)
Q Consensus 10 ~IG~i~d~~-S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~ 58 (70)
+||+++... ++.....+.+++.+++... +++.+.|.++++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g---------~~l~~~~~~~~~ 41 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAG---------YQVLLANSQNDA 41 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcC---------CeEEEEeCCCCH
Confidence 589999874 7788889999999988832 345667777776
No 83
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=53.68 E-value=57 Score=20.92 Aligned_cols=50 Identities=14% Similarity=0.064 Sum_probs=33.7
Q ss_pred EEEEEEeC-CCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhh
Q 041662 10 NVGLVLDI-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILI 68 (70)
Q Consensus 10 ~IG~i~d~-~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li 68 (70)
+||+|++. +++..+....+++.+.++.+ +.+.+.+.+.++-.... ..+++
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~g---------~~~~~~~~~~~~~~~~~~~~~~~ 52 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREAG---------YSVLLCNSDEDPEKEREALELLL 52 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHcC---------CEEEEEcCCCCHHHHHHHHHHHH
Confidence 48999976 57888888888888888732 23455677877644333 34444
No 84
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=50.07 E-value=73 Score=21.09 Aligned_cols=50 Identities=14% Similarity=0.104 Sum_probs=28.5
Q ss_pred EEEEEEe-CCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH
Q 041662 10 NVGLVLD-INGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA 63 (70)
Q Consensus 10 ~IG~i~d-~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~ 63 (70)
|||+|+. +.++.=....-+++.+.++.-. - +..+.+.+.|++.++-....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~--~--g~~~~l~i~~~~~~~~~~~~ 51 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKK--A--GLISEFIVTSADGDVAQQIA 51 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhc--c--CCeeEEEEecCCCCHHHHHH
Confidence 6899984 3333333444566666665410 1 12556777888887654443
No 85
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=46.95 E-value=51 Score=28.17 Aligned_cols=63 Identities=13% Similarity=0.128 Sum_probs=48.5
Q ss_pred ceeeEEEEEEeCCC-------------chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 6 TIPVNVGLVLDING-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 6 ~~~v~IG~i~d~~S-------------~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
++.+-||.+|..-- ..|=....||-.|++-+|+ +..+ +.||-.+++|+-..+-.|.. +++|..
T Consensus 29 ~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~ 106 (878)
T KOG1056|consen 29 PGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSFVR 106 (878)
T ss_pred CCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHHHH
Confidence 56678888887642 3455677899999999999 5444 49999999999988877766 676653
No 86
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=36.79 E-value=12 Score=22.67 Aligned_cols=23 Identities=35% Similarity=0.446 Sum_probs=18.1
Q ss_pred CCCceeeEEEEEE-eCCCchhHHH
Q 041662 3 KNTTIPVNVGLVL-DINGEDGKIA 25 (70)
Q Consensus 3 ~~~~~~v~IG~i~-d~~S~iGk~~ 25 (70)
+..|....+|-+| .+||..||++
T Consensus 11 r~~~~~T~lG~lLKPLNSeyGkva 34 (73)
T PLN00055 11 RSGPRRTIVGDLLKPLNSEYGKVA 34 (73)
T ss_pred cCCCccccccccccccccccCccc
Confidence 4557778899887 5799999976
No 87
>COG1512 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]
Probab=36.66 E-value=1.4e+02 Score=21.93 Aligned_cols=54 Identities=20% Similarity=0.240 Sum_probs=40.5
Q ss_pred EEEeCCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHHHHHhhh
Q 041662 13 LVLDINGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAAAEILID 69 (70)
Q Consensus 13 ~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~A~~Li~ 69 (70)
-|.|...++.+..+.++|.=++|+-+... .++.+.+-+|.++.-.-..|-+|.+
T Consensus 35 ~V~D~t~~Ls~~e~~~Leq~l~~L~~kt~---~QiaVv~vpSt~g~~IE~ya~rlfd 88 (271)
T COG1512 35 RVTDLTGTLSAAERGALEQQLADLEQKTG---AQIAVVTVPSTGGETIEQYATRLFD 88 (271)
T ss_pred eeeeccccCChhhHHHHHHHHHHHHhccC---CeEEEEEecCCCCCCHHHHHHHHHH
Confidence 37899999999999999999999998665 5777777777663333344656654
No 88
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=33.48 E-value=1.4e+02 Score=19.46 Aligned_cols=31 Identities=26% Similarity=0.456 Sum_probs=24.4
Q ss_pred eeEEEEEEeCCCchh----HHHHHHHHHHHhhhhc
Q 041662 8 PVNVGLVLDINGEDG----KIALSCINMSLSDFYN 38 (70)
Q Consensus 8 ~v~IG~i~d~~S~iG----k~~~~aiemAv~Dfn~ 38 (70)
++.|..+||.++.+| ..+|..++..++.+..
T Consensus 2 ~~dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~ 36 (186)
T cd01480 2 PVDITFVLDSSESVGLQNFDITKNFVKRVAERFLK 36 (186)
T ss_pred CeeEEEEEeCCCccchhhHHHHHHHHHHHHHHHhh
Confidence 357889999999999 5567777788888854
No 89
>CHL00066 psbH photosystem II protein H
Probab=32.82 E-value=16 Score=22.15 Aligned_cols=23 Identities=35% Similarity=0.508 Sum_probs=17.7
Q ss_pred CCCceeeEEEEEE-eCCCchhHHH
Q 041662 3 KNTTIPVNVGLVL-DINGEDGKIA 25 (70)
Q Consensus 3 ~~~~~~v~IG~i~-d~~S~iGk~~ 25 (70)
.++|....+|-++ .+||..||++
T Consensus 11 ~~~~~~T~lG~lLKPLNSeyGkva 34 (73)
T CHL00066 11 RSGPRRTTVGNLLKPLNSEYGKVA 34 (73)
T ss_pred ccCCccccccccccccccccCccc
Confidence 3456778888877 5799999976
No 90
>PF05688 DUF824: Salmonella repeat of unknown function (DUF824); InterPro: IPR008542 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with this entry. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=31.60 E-value=40 Score=18.57 Aligned_cols=16 Identities=25% Similarity=0.491 Sum_probs=13.5
Q ss_pred eEEEEEeecCCCCHHH
Q 041662 45 TRLLLNTRDSKGDVVA 60 (70)
Q Consensus 45 t~l~l~~~DS~~d~~~ 60 (70)
-.|.++++|++|.|+-
T Consensus 15 I~ltVt~kda~G~pv~ 30 (47)
T PF05688_consen 15 IPLTVTVKDANGNPVP 30 (47)
T ss_pred EEEEEEEECCCCCCcC
Confidence 5788999999998864
No 91
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=29.46 E-value=78 Score=22.42 Aligned_cols=51 Identities=8% Similarity=0.162 Sum_probs=31.4
Q ss_pred EEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcc---eEEEEEeecCCCCHHHHHH-HHHhh
Q 041662 11 VGLVLDINGEDGKIALSCINMSLSDFYNSNSHYK---TRLLLNTRDSKGDVVAAAA-AEILI 68 (70)
Q Consensus 11 IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~---t~l~l~~~DS~~d~~~aa~-A~~Li 68 (70)
.=+|+.+.- .+...-+||+++....+. +-+.+.++|+.-+...||. +++|.
T Consensus 103 fDvIiTcEE-------RvfD~Vvedl~~R~~~~~~pvHVINvDIkDnhEeA~~Ga~~ileLc 157 (195)
T PF04722_consen 103 FDVIITCEE-------RVFDQVVEDLNSREQETNQPVHVINVDIKDNHEEATIGAFLILELC 157 (195)
T ss_dssp -SEEEESSH-------HHHHHHHHHHHCS--SS-EEEEEEEE---SSHHHHHHHHHHHHHHH
T ss_pred eeEEEEech-------HHHHHHHHHHHhccccCCceEEEEEeeccCCHHHHHHHHHHHHHHH
Confidence 446666643 358888999998765543 4567777888888777777 66664
No 92
>PF06117 DUF957: Enterobacterial protein of unknown function (DUF957); InterPro: IPR009301 This family consists of several hypothetical proteins from Escherichia coli, Salmonella typhi, Shigella flexneri and Proteus vulgaris. The function of this family is unknown.
Probab=29.08 E-value=87 Score=18.59 Aligned_cols=27 Identities=19% Similarity=0.308 Sum_probs=20.9
Q ss_pred EEEEeCCC--chhHHHHHHHHHHHhhhhc
Q 041662 12 GLVLDING--EDGKIALSCINMSLSDFYN 38 (70)
Q Consensus 12 G~i~d~~S--~iGk~~~~aiemAv~Dfn~ 38 (70)
|.|||-+. +-..+-..|+|+|.+|+-.
T Consensus 26 ~iiFDNded~tdSa~llp~ie~a~~~~r~ 54 (65)
T PF06117_consen 26 DIIFDNDEDKTDSAALLPAIEQARADVRP 54 (65)
T ss_pred CeeecCCCcccchHHHHHHHHHHHHHHHH
Confidence 67887754 5566778999999999864
No 93
>PF15583 Imm41: Immunity protein 41
Probab=27.21 E-value=45 Score=22.92 Aligned_cols=23 Identities=26% Similarity=0.327 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHhhhhcCCCCc
Q 041662 21 DGKIALSCINMSLSDFYNSNSHY 43 (70)
Q Consensus 21 iGk~~~~aiemAv~Dfn~~~~~~ 43 (70)
.-++.+..|..|++||..++-.|
T Consensus 111 at~EE~~~~~~aL~dF~~~p~~Y 133 (158)
T PF15583_consen 111 ATSEENTAINKALKDFARNPLEY 133 (158)
T ss_pred cCHHHHHHHHHHHHHHHhCHHhh
Confidence 45789999999999999877544
No 94
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=26.47 E-value=1.9e+02 Score=18.96 Aligned_cols=42 Identities=14% Similarity=0.184 Sum_probs=25.3
Q ss_pred EEEEEEe-CCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHH
Q 041662 10 NVGLVLD-INGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVV 59 (70)
Q Consensus 10 ~IG~i~d-~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~ 59 (70)
+||+|++ .+.+.-.....+|+.+.++ +. .+.+.+.++.+++-
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~----~~----~~~~~~~~~~~~~~ 43 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKV----LG----GVELQFEDAKNDVA 43 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHH----cC----CcEEEEeCCCCCHH
Confidence 5899995 4556666666667777766 11 23344456666653
No 95
>COG5211 SSU72 RNA polymerase II-interacting protein involved in transcription start site selection [Transcription]
Probab=25.92 E-value=2.4e+02 Score=19.88 Aligned_cols=43 Identities=21% Similarity=0.378 Sum_probs=28.4
Q ss_pred HHHHHHHHhhhhcCCCCcceE---EEEEeecCCCCHHHHHHH-HHhh
Q 041662 26 LSCINMSLSDFYNSNSHYKTR---LLLNTRDSKGDVVAAAAA-EILI 68 (70)
Q Consensus 26 ~~aiemAv~Dfn~~~~~~~t~---l~l~~~DS~~d~~~aa~A-~~Li 68 (70)
..|...--||+|+..+.+... +.+-++|...+...|+-| ++|.
T Consensus 114 ERcfdaicEdly~rg~~ln~~v~~iNvDIkD~~e~A~~G~kaILelv 160 (197)
T COG5211 114 ERCFDAICEDLYARGPSLNQCVFMINVDIKDTPEDAIAGAKAILELV 160 (197)
T ss_pred HHHHHHHHHHHHhcCccccccEEEEEeeccCChhhhhhhHHHHHHHH
Confidence 456777789999999988633 445556666666555543 5543
No 96
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=24.88 E-value=3.1e+02 Score=20.81 Aligned_cols=59 Identities=17% Similarity=0.192 Sum_probs=45.9
Q ss_pred CceeeEEEEEEeCCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHHHHHH-HHHhhh
Q 041662 5 TTIPVNVGLVLDINGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVVAAAA-AEILID 69 (70)
Q Consensus 5 ~~~~v~IG~i~d~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~~aa~-A~~Li~ 69 (70)
.+...+||+..-+.-+-=.+.+..++-|+.|+=.. .+++...+.+||+..++- |.+|..
T Consensus 27 ~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~G~~------n~~i~~~na~~~~~~a~~iarql~~ 86 (322)
T COG2984 27 AADQITVAITQFVEHPALDAAREGVKEALKDAGYK------NVKIDYQNAQGDLGTAAQIARQLVG 86 (322)
T ss_pred cccceeEEEEEeecchhHHHHHHHHHHHHHhcCcc------CeEEEeecCCCChHHHHHHHHHhhc
Confidence 35566788888887777778888889999998653 456677899999998887 777753
No 97
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=24.57 E-value=1.3e+02 Score=19.64 Aligned_cols=40 Identities=13% Similarity=0.212 Sum_probs=32.9
Q ss_pred chhHHHHHHHHHHHhhhhcCCCCc-ceEEEEEeecCCCCHH
Q 041662 20 EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRDSKGDVV 59 (70)
Q Consensus 20 ~iGk~~~~aiemAv~Dfn~~~~~~-~t~l~l~~~DS~~d~~ 59 (70)
.+|++.......++..|-..+=.+ +.|+-+.+.|.+...|
T Consensus 67 ~v~~~~N~~~sa~l~~il~~~L~l~~~rv~I~f~dl~~~~i 107 (115)
T KOG1759|consen 67 GVGAIVNRSYSAALTEILEKELSLDPDRVYIKFYDLNAAFI 107 (115)
T ss_pred ccChhHhHHHHHHHHHHHHHHhCCCCCeEEEEEecCChhHc
Confidence 678999999999999999866555 4899999999876543
No 98
>PF02746 MR_MLE_N: Mandelate racemase / muconate lactonizing enzyme, N-terminal domain; InterPro: IPR013341 Mandelate racemase 5.1.2.2 from EC (MR) and muconate lactonizing enzyme 5.5.1.1 from EC (MLE) are two bacterial enzymes involved in aromatic acid catabolism. They catalyse mechanistically distinct reactions yet they are related at the level of their primary, quaternary (homooctamer) and tertiary structures [, ]. A number of other proteins also seem to be evolutionary related to these two enzymes. These include, various plasmid-encoded chloromuconate cycloisomerases 5.5.1.7 from EC, Escherichia coli protein rspA [], E. coli bifunctional DGOA protein, E. coli hypothetical proteins ycjG, yfaW and yidU and a hypothetical protein from Streptomyces ambofaciens []. This entry represents the N-terminal region of these proteins.; PDB: 2OX4_F 3T9P_A 2QQ6_A 3CYJ_C 3GY1_A 3S47_B 3RRA_B 3RR1_A 3STP_A 3T8Q_A ....
Probab=24.15 E-value=69 Score=19.42 Aligned_cols=18 Identities=28% Similarity=0.379 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHhhhhcC
Q 041662 22 GKIALSCINMSLSDFYNS 39 (70)
Q Consensus 22 Gk~~~~aiemAv~Dfn~~ 39 (70)
...++.|+|||+=|.++.
T Consensus 89 ~~~a~aaid~AlwDl~gK 106 (117)
T PF02746_consen 89 NPAAKAAIDMALWDLLGK 106 (117)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 567889999999999874
No 99
>PF11236 DUF3037: Protein of unknown function (DUF3037); InterPro: IPR021398 This bacterial family of proteins has no known function.
Probab=24.09 E-value=62 Score=20.41 Aligned_cols=13 Identities=46% Similarity=0.360 Sum_probs=10.0
Q ss_pred CceeeEEEEEEeC
Q 041662 5 TTIPVNVGLVLDI 17 (70)
Q Consensus 5 ~~~~v~IG~i~d~ 17 (70)
+-..+|||+|+-.
T Consensus 12 r~EfvNVGVvl~~ 24 (118)
T PF11236_consen 12 REEFVNVGVVLFC 24 (118)
T ss_pred cccEEEEEEEEEe
Confidence 3456999999975
No 100
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=23.60 E-value=2.2e+02 Score=18.54 Aligned_cols=30 Identities=13% Similarity=0.237 Sum_probs=22.8
Q ss_pred eEEEEEEeCCCchhHHHHHHHHHHHhhhhc
Q 041662 9 VNVGLVLDINGEDGKIALSCINMSLSDFYN 38 (70)
Q Consensus 9 v~IG~i~d~~S~iGk~~~~aiemAv~Dfn~ 38 (70)
.+|..++|.+..++......+.-|+.+|..
T Consensus 1 ~di~~vlD~SgSM~~~~~~~~k~~~~~l~~ 30 (198)
T cd01470 1 LNIYIALDASDSIGEEDFDEAKNAIKTLIE 30 (198)
T ss_pred CcEEEEEECCCCccHHHHHHHHHHHHHHHH
Confidence 368899999999987666666677776664
No 101
>PF08947 BPS: BPS (Between PH and SH2) ; InterPro: IPR015042 The BPS (Between PH and SH2) domain, comprised of 2 beta strands and a C-terminal helix, is an approximately 45 residue region found in the adaptor proteins Grb7/10/14 that mediates inhibition of the tyrosine kinase domain of the insulin receptor by binding of the N-terminal portion of the BPS domain to the substrate peptide groove of the kinase, acting as a pseudosubstrate inhibitor []. ; PDB: 2AUH_B.
Probab=20.99 E-value=74 Score=17.91 Aligned_cols=26 Identities=15% Similarity=0.387 Sum_probs=15.9
Q ss_pred EEEeCCCchhHHH---HHHHHHHHhhhhc
Q 041662 13 LVLDINGEDGKIA---LSCINMSLSDFYN 38 (70)
Q Consensus 13 ~i~d~~S~iGk~~---~~aiemAv~Dfn~ 38 (70)
|-+||+...|++. +-|...|++...+
T Consensus 9 VaMDFsG~~GRvIenP~EA~s~a~eEg~~ 37 (49)
T PF08947_consen 9 VAMDFSGQTGRVIENPKEAQSAALEEGQS 37 (49)
T ss_dssp EEEE-SSSS--B---HHHHHHHHHHHHHH
T ss_pred EEeeecCCcccccCCHHHHHHHHHHHHHH
Confidence 5689998888875 4566777777765
No 102
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=20.88 E-value=2.6e+02 Score=18.42 Aligned_cols=42 Identities=17% Similarity=0.162 Sum_probs=25.6
Q ss_pred EEEEEEe-CCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCH
Q 041662 10 NVGLVLD-INGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDV 58 (70)
Q Consensus 10 ~IG~i~d-~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~ 58 (70)
+||+|+. +....=.....+++.+.++.. ..+.+...|+..++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g-------~~~~~~~~~~~~~~ 43 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLG-------VSVDIQAAPSEGDQ 43 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhC-------CeEEEEccCCCCCH
Confidence 5899996 566665666667777777621 24444444555555
No 103
>PF12388 Peptidase_M57: Dual-action HEIGH metallo-peptidase; InterPro: IPR024653 This entry represents the metallopeptidases M10, M27 and M57. The catalytic triad for proteases in this entry is HE-H-H, which in many members is in the sequence motif HEIGH [].
Probab=20.79 E-value=3.2e+02 Score=19.43 Aligned_cols=30 Identities=0% Similarity=0.046 Sum_probs=23.4
Q ss_pred EEEEEEeC--CCchhHHHHHHHHHHHhhhhcC
Q 041662 10 NVGLVLDI--NGEDGKIALSCINMSLSDFYNS 39 (70)
Q Consensus 10 ~IG~i~d~--~S~iGk~~~~aiemAv~Dfn~~ 39 (70)
.|.++++- ....+-....|+..|+..+|+-
T Consensus 40 ~I~i~~~~~~~~~l~s~~~~al~~AI~~yNal 71 (211)
T PF12388_consen 40 TITIIGYTGGSQSLNSAWRTALDEAINNYNAL 71 (211)
T ss_pred EEEEEeCCCccccccHHHHHHHHHHHHHHHhh
Confidence 46666666 3466677899999999999986
No 104
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=20.51 E-value=3e+02 Score=18.92 Aligned_cols=43 Identities=9% Similarity=0.077 Sum_probs=26.8
Q ss_pred EEEEEEe-CCCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHH
Q 041662 10 NVGLVLD-INGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVV 59 (70)
Q Consensus 10 ~IG~i~d-~~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~ 59 (70)
+||+|++ ++...=.....+++-+.+++. . .+.+.+.+++.++-
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~---~----g~~~~~~~~~~~~~ 44 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG---G----KVEFTFYDAKNNQS 44 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC---C----CeeEEEecCCCCHH
Confidence 5899996 444555556667777777752 1 23455567776663
No 105
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.25 E-value=2.6e+02 Score=18.23 Aligned_cols=40 Identities=13% Similarity=0.092 Sum_probs=28.0
Q ss_pred EEEEEeC--CCchhHHHHHHHHHHHhhhhcCCCCcceEEEEEeecCCCCHH
Q 041662 11 VGLVLDI--NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRDSKGDVV 59 (70)
Q Consensus 11 IG~i~d~--~S~iGk~~~~aiemAv~Dfn~~~~~~~t~l~l~~~DS~~d~~ 59 (70)
||+|++. +++.......+++.+.+..+ +.+.+.++..++-
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g---------~~~~~~~~~~~~~ 43 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDG---------VEVIVLDANGDVA 43 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcC---------CEEEEEcCCcCHH
Confidence 7888864 67888888889998888732 2334456666654
Done!