Query psy8885
Match_columns 148
No_of_seqs 128 out of 227
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 21:51:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8885.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8885hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06369 PBP1_GC_C_enterotoxin_ 99.7 7.4E-17 1.6E-21 141.5 7.8 63 32-95 285-365 (380)
2 cd06386 PBP1_NPR_C_like Ligand 99.6 1.3E-14 2.9E-19 123.6 9.4 90 5-95 271-379 (387)
3 cd06385 PBP1_NPR_A Ligand-bind 99.4 3.7E-12 8.1E-17 108.2 9.4 91 5-95 282-391 (405)
4 cd06372 PBP1_GC_G_like Ligand- 99.3 7E-12 1.5E-16 105.9 9.5 90 6-95 272-386 (391)
5 cd06384 PBP1_NPR_B Ligand-bind 99.3 8.2E-12 1.8E-16 106.3 8.9 89 6-94 284-391 (399)
6 cd06370 PBP1_Speract_GC_like L 99.2 1.3E-11 2.9E-16 105.4 6.7 72 5-76 283-359 (404)
7 cd06371 PBP1_sensory_GC_DEF_li 99.0 1.9E-09 4.1E-14 92.0 7.5 57 17-76 281-337 (382)
8 cd06373 PBP1_NPR_like Ligand b 98.9 4.6E-09 1E-13 88.9 8.7 89 6-94 281-388 (396)
9 cd06352 PBP1_NPR_GC_like Ligan 98.7 5.6E-08 1.2E-12 81.5 8.9 72 5-76 273-345 (389)
10 cd06362 PBP1_mGluR Ligand bind 98.3 1.4E-06 3E-11 75.3 6.2 47 30-76 351-407 (452)
11 PF01094 ANF_receptor: Recepto 98.1 4.1E-06 8.9E-11 67.5 4.9 59 26-84 267-335 (348)
12 cd06367 PBP1_iGluR_NMDA N-term 97.9 3.8E-05 8.3E-10 64.2 6.6 46 31-76 255-315 (362)
13 cd06365 PBP1_Pheromone_recepto 97.8 4.1E-05 8.8E-10 67.6 6.4 47 30-76 356-412 (469)
14 cd06379 PBP1_iGluR_NMDA_NR1 N- 97.6 0.00013 2.9E-09 61.5 6.7 46 31-76 270-328 (377)
15 cd06380 PBP1_iGluR_AMPA N-term 97.5 0.0005 1.1E-08 57.9 8.5 48 29-76 272-342 (382)
16 cd06390 PBP1_iGluR_AMPA_GluR1 97.2 0.0021 4.5E-08 55.5 8.9 49 28-76 259-324 (364)
17 cd06363 PBP1_Taste_receptor Li 96.9 0.0033 7.2E-08 54.0 6.9 44 33-76 308-357 (410)
18 cd06376 PBP1_mGluR_groupIII Li 96.8 0.0033 7.2E-08 55.0 6.6 45 32-76 358-412 (463)
19 cd06387 PBP1_iGluR_AMPA_GluR3 96.8 0.0094 2E-07 51.9 8.9 49 28-76 267-332 (372)
20 cd06392 PBP1_iGluR_delta_1 N-t 96.7 0.0034 7.3E-08 55.5 6.1 48 29-76 292-354 (400)
21 cd06374 PBP1_mGluR_groupI Liga 96.7 0.0021 4.5E-08 56.5 4.5 45 32-76 370-424 (472)
22 cd06389 PBP1_iGluR_AMPA_GluR2 96.5 0.0088 1.9E-07 51.3 6.6 49 28-76 264-329 (370)
23 cd06393 PBP1_iGluR_Kainate_Glu 96.4 0.014 3.1E-07 49.7 7.4 48 29-76 285-341 (384)
24 cd06391 PBP1_iGluR_delta_2 N-t 96.3 0.0079 1.7E-07 52.7 5.4 48 29-76 292-354 (400)
25 cd06388 PBP1_iGluR_AMPA_GluR4 95.9 0.024 5.2E-07 48.8 6.4 48 29-76 266-330 (371)
26 KOG1055|consensus 95.7 0.029 6.2E-07 54.2 6.6 102 7-113 319-462 (865)
27 cd06375 PBP1_mGluR_groupII Lig 95.2 0.057 1.2E-06 47.8 6.6 44 31-74 352-406 (458)
28 cd06378 PBP1_iGluR_NMDA_NR2 N- 94.9 0.086 1.9E-06 45.5 6.7 63 32-94 257-350 (362)
29 cd06364 PBP1_CaSR Ligand-bindi 94.5 0.14 3E-06 46.1 7.2 46 31-76 394-452 (510)
30 cd06360 PBP1_alkylbenzenes_lik 93.0 0.29 6.3E-06 39.8 6.0 51 29-82 271-324 (336)
31 cd06377 PBP1_iGluR_NMDA_NR3 N- 92.3 0.53 1.1E-05 41.8 7.1 45 32-76 267-329 (382)
32 cd06332 PBP1_aromatic_compound 92.1 0.59 1.3E-05 37.8 6.7 50 30-82 269-321 (333)
33 cd06366 PBP1_GABAb_receptor Li 91.6 0.16 3.4E-06 42.0 2.9 35 5-43 265-300 (350)
34 cd06345 PBP1_ABC_ligand_bindin 90.9 0.82 1.8E-05 37.8 6.4 48 30-82 283-333 (344)
35 cd06342 PBP1_ABC_LIVBP_like Ty 90.5 0.51 1.1E-05 38.2 4.8 42 30-76 271-312 (334)
36 cd06361 PBP1_GPC6A_like Ligand 88.6 0.76 1.7E-05 40.0 4.7 44 33-76 308-355 (403)
37 cd06359 PBP1_Nba_like Type I p 87.7 1.2 2.7E-05 36.6 5.2 51 29-82 268-321 (333)
38 TIGR03669 urea_ABC_arch urea A 87.0 3.7 8E-05 35.4 7.9 81 31-116 273-372 (374)
39 cd06348 PBP1_ABC_ligand_bindin 84.7 1.6 3.4E-05 36.0 4.4 52 30-82 273-333 (344)
40 cd06347 PBP1_ABC_ligand_bindin 83.0 1.8 3.8E-05 35.0 3.9 43 29-76 271-314 (334)
41 cd06330 PBP1_Arsenic_SBP_like 81.9 5.3 0.00012 32.8 6.4 51 30-81 279-332 (346)
42 PRK15404 leucine ABC transport 79.1 12 0.00026 31.9 7.8 60 31-96 297-363 (369)
43 TIGR03863 PQQ_ABC_bind ABC tra 74.3 6.2 0.00014 33.9 4.9 40 30-74 249-288 (347)
44 cd06357 PBP1_AmiC Periplasmic 70.3 14 0.00029 31.2 5.9 48 30-82 274-324 (360)
45 PF13433 Peripla_BP_5: Peripla 69.7 20 0.00044 31.9 7.1 74 6-91 257-348 (363)
46 cd06331 PBP1_AmiC_like Type I 68.6 8.9 0.00019 31.4 4.4 43 29-76 271-313 (333)
47 cd06355 PBP1_FmdD_like Peripla 65.7 20 0.00043 30.0 6.0 46 31-81 274-322 (348)
48 PF01754 zf-A20: A20-like zinc 64.9 2.8 6E-05 23.8 0.5 14 98-111 1-14 (25)
49 cd06335 PBP1_ABC_ligand_bindin 64.4 20 0.00043 29.8 5.7 63 5-76 259-324 (347)
50 cd06344 PBP1_ABC_ligand_bindin 63.4 26 0.00056 28.8 6.2 48 30-82 270-321 (332)
51 PF13458 Peripla_BP_6: Peripla 63.1 11 0.00024 30.5 3.9 43 29-76 274-316 (343)
52 cd06338 PBP1_ABC_ligand_bindin 61.2 14 0.00031 30.1 4.3 47 30-81 283-332 (345)
53 cd06341 PBP1_ABC_ligand_bindin 59.7 23 0.00049 29.0 5.2 40 29-72 272-312 (341)
54 smart00259 ZnF_A20 A20-like zi 58.7 5.6 0.00012 22.6 1.0 14 98-111 1-15 (26)
55 PF10458 Val_tRNA-synt_C: Valy 58.1 12 0.00025 25.0 2.7 23 123-145 7-29 (66)
56 cd06337 PBP1_ABC_ligand_bindin 56.6 38 0.00083 28.3 6.2 40 33-76 294-333 (357)
57 cd06382 PBP1_iGluR_Kainate N-t 55.4 6.7 0.00014 32.1 1.4 46 28-94 269-322 (327)
58 cd06340 PBP1_ABC_ligand_bindin 54.9 46 0.001 27.6 6.3 41 30-75 281-323 (347)
59 cd06328 PBP1_SBP_like_2 Peripl 51.5 33 0.00071 28.4 4.9 43 29-76 271-313 (333)
60 cd06356 PBP1_Amide_Urea_BP_lik 49.5 59 0.0013 26.9 6.1 41 31-76 273-314 (334)
61 cd06381 PBP1_iGluR_delta_like 47.7 18 0.00039 31.2 2.9 16 29-44 291-306 (363)
62 PF12841 YvrJ: YvrJ protein fa 47.5 21 0.00046 22.0 2.4 22 122-147 17-38 (38)
63 smart00004 NL Domain found in 46.8 9.9 0.00021 23.5 0.8 12 101-112 27-38 (38)
64 TIGR03407 urea_ABC_UrtA urea A 45.4 44 0.00095 28.1 4.8 44 33-81 277-323 (359)
65 cd06358 PBP1_NHase Type I peri 45.1 48 0.001 27.2 4.9 48 29-81 271-321 (333)
66 PF00066 Notch: LNR domain; I 44.8 5.9 0.00013 24.3 -0.4 15 98-112 23-37 (38)
67 KOG1056|consensus 41.9 36 0.00078 33.9 4.2 42 35-76 382-433 (878)
68 cd06343 PBP1_ABC_ligand_bindin 41.1 55 0.0012 27.0 4.7 41 29-73 288-328 (362)
69 cd00559 Cyanase_C Cyanase C-te 40.3 29 0.00063 24.2 2.5 20 36-55 10-29 (69)
70 cd06329 PBP1_SBP_like_3 Peripl 39.4 66 0.0014 26.5 4.9 43 29-76 280-322 (342)
71 cd06336 PBP1_ABC_ligand_bindin 38.7 1.2E+02 0.0025 25.2 6.3 34 30-68 278-311 (347)
72 PF13998 MgrB: MgrB protein 38.2 17 0.00037 21.4 0.9 19 43-61 1-19 (29)
73 COG0278 Glutaredoxin-related p 37.1 13 0.00028 27.9 0.3 10 101-110 26-35 (105)
74 PRK14890 putative Zn-ribbon RN 36.3 14 0.00031 25.0 0.4 14 96-109 45-58 (59)
75 PF02560 Cyanate_lyase: Cyanat 35.1 45 0.00097 23.6 2.7 24 32-55 10-33 (73)
76 COG0683 LivK ABC-type branched 32.4 83 0.0018 26.7 4.6 51 27-81 284-338 (366)
77 cd06383 PBP1_iGluR_AMPA_Like N 31.9 14 0.00031 31.8 -0.2 48 29-76 271-338 (368)
78 PF12661 hEGF: Human growth fa 31.1 22 0.00048 17.0 0.5 7 106-112 7-13 (13)
79 COG2888 Predicted Zn-ribbon RN 29.8 21 0.00046 24.4 0.4 13 97-109 48-60 (61)
80 PF07911 DUF1677: Protein of u 28.9 33 0.00072 25.1 1.3 18 105-123 10-27 (91)
81 PF09828 Chrome_Resist: Chroma 28.9 49 0.0011 25.8 2.3 23 95-117 43-67 (135)
82 PRK10299 PhoPQ regulatory prot 27.8 53 0.0012 21.3 2.0 22 40-61 16-37 (47)
83 PF14538 Raptor_N: Raptor N-te 24.7 58 0.0013 25.4 2.1 19 84-102 89-108 (154)
84 cd06326 PBP1_STKc_like Type I 23.9 97 0.0021 25.0 3.3 41 29-73 274-314 (336)
85 cd06334 PBP1_ABC_ligand_bindin 23.4 1.7E+02 0.0036 24.7 4.8 29 29-57 281-309 (351)
86 cd06327 PBP1_SBP_like_1 Peripl 23.0 1.7E+02 0.0036 23.9 4.6 38 30-72 272-309 (334)
87 PRK03113 putative disulfide ox 21.6 65 0.0014 24.8 1.8 20 99-120 93-112 (139)
No 1
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.68 E-value=7.4e-17 Score=141.46 Aligned_cols=63 Identities=13% Similarity=0.265 Sum_probs=58.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---------------cc---ccCCCCCcEEEEEee
Q psy8885 32 TFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---------------KS---ILPTTTPLRLVHKYI 93 (148)
Q Consensus 32 ~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---------------ys---LD~~~g~f~vV~~Y~ 93 (148)
.||++|||||+|||+||||+|++|+++.| ++|+++||||||+|+ |+ |++++++|+||++|+
T Consensus 285 ~~aa~fyDaVLLYa~AL~EtL~~G~~~~~-~~I~~~m~NrTF~GitG~V~IDeNGDRd~dfsLl~ms~~tg~y~vV~~y~ 363 (380)
T cd06369 285 DYVAAYHDGVLLFGHVLKKFLESQEGVQT-FSFINEFRNISFEGAGGPYTLDEYGDRDVNFTLLYTSTDTSKYKVLFEFD 363 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCc-HHHHHHHhCcceecCCCceEeCCCCCccCceEEEEeeCCCCCeEEEEEEE
Confidence 99999999999999999999999999655 999999999999999 66 378889999999999
Q ss_pred ec
Q psy8885 94 LY 95 (148)
Q Consensus 94 g~ 95 (148)
+.
T Consensus 364 t~ 365 (380)
T cd06369 364 TS 365 (380)
T ss_pred CC
Confidence 84
No 2
>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=99.56 E-value=1.3e-14 Score=123.57 Aligned_cols=90 Identities=31% Similarity=0.467 Sum_probs=75.4
Q ss_pred cchhHHHHHHHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc--------
Q psy8885 5 GNGYVRLMVKKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP-------- 76 (148)
Q Consensus 5 ~~~~F~~eVk~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv-------- 76 (148)
.+..|.++++++.+.+.+| .++..++.|++++||||+|||+||++++++|++.+||+.|.++|+|++|+|+
T Consensus 271 ~~~~f~~~~~~~~~~~~~~-~~~~~~~~~aa~~yDav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~ 349 (387)
T cd06386 271 EFEKFSMEVKSSVEKAGDL-NDCDYVNMFVEGFHDAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDA 349 (387)
T ss_pred HHHHHHHHHHHHHHhCCCC-cccccchHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECC
Confidence 3567899995444444455 3466799999999999999999999999999888999999999999999999
Q ss_pred -------cc---c-cCCCCCcEEEEEeeec
Q psy8885 77 -------KS---I-LPTTTPLRLVHKYILY 95 (148)
Q Consensus 77 -------ys---L-D~~~g~f~vV~~Y~g~ 95 (148)
|. | |+.+++|++|++|+++
T Consensus 350 ~g~r~~~~~v~~~~~~~~~~~~~~~~~~~~ 379 (387)
T cd06386 350 NGDRYGDFSVIAMTDVEAGTYEVVGNYFGK 379 (387)
T ss_pred CCCccccEEEEEccCCCCccEEEEeEEccc
Confidence 33 4 6788999999999974
No 3
>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=99.35 E-value=3.7e-12 Score=108.22 Aligned_cols=91 Identities=36% Similarity=0.526 Sum_probs=75.8
Q ss_pred cchhHHHHHHHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc--------
Q psy8885 5 GNGYVRLMVKKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP-------- 76 (148)
Q Consensus 5 ~~~~F~~eVk~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv-------- 76 (148)
.+..|.+++++..++||+++..+..++.|++++||||++||.||+++++++++.+||.+|.+.|++++|+|+
T Consensus 282 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~ 361 (405)
T cd06385 282 EYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDD 361 (405)
T ss_pred hHHHHHHHHHHHhhccCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcC
Confidence 356788888555678999876545689999999999999999999999999887899999999999999998
Q ss_pred -------cc---c-cCCCCCcEEEEEeeec
Q psy8885 77 -------KS---I-LPTTTPLRLVHKYILY 95 (148)
Q Consensus 77 -------ys---L-D~~~g~f~vV~~Y~g~ 95 (148)
|. | ..++|++++|++|++.
T Consensus 362 ~G~r~~~~~~~~~~~~~~g~~~~v~~~~~~ 391 (405)
T cd06385 362 NGDRETDFALWDMTDTESGDFQVVSVYNGT 391 (405)
T ss_pred CCCEeceeEEEEccCCCCCcEEEEEEEccc
Confidence 32 2 2356789999999963
No 4
>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=99.33 E-value=7e-12 Score=105.90 Aligned_cols=90 Identities=20% Similarity=0.274 Sum_probs=72.9
Q ss_pred chhHHHHH-HHHhcCCCCcccC-CcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhh---cCccccc----
Q psy8885 6 NGYVRLMV-KKVAKEGYNFTFG-NESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMW---NRTYQDP---- 76 (148)
Q Consensus 6 ~~~F~~eV-k~~a~~pFn~t~~-~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~---nrtF~Gv---- 76 (148)
+..|.+.+ ++..++||+++.. ...++.|++++||||++||+||+++++.|.+..||+++++.|+ +++|+|+
T Consensus 272 ~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v 351 (391)
T cd06372 272 GYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLV 351 (391)
T ss_pred hhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeE
Confidence 55788888 6667789998643 2368999999999999999999999998888889999999999 5799998
Q ss_pred -----------cc---c-cCCC-CCcEEEEEeeec
Q psy8885 77 -----------KS---I-LPTT-TPLRLVHKYILY 95 (148)
Q Consensus 77 -----------ys---L-D~~~-g~f~vV~~Y~g~ 95 (148)
|+ + +..+ +.+++|++|.+.
T Consensus 352 ~fd~~G~r~~~y~i~~~~~~~~~~~~~~vg~~~~~ 386 (391)
T cd06372 352 LLDEQGKRQMDYSVYALQKSGNSSLFLPFLHYDSH 386 (391)
T ss_pred EECCCCCcceeEEEEeccccCCccceeeEEEecch
Confidence 33 3 2223 458899999873
No 5
>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=99.31 E-value=8.2e-12 Score=106.34 Aligned_cols=89 Identities=33% Similarity=0.444 Sum_probs=73.6
Q ss_pred chhHHHHHHHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---------
Q psy8885 6 NGYVRLMVKKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP--------- 76 (148)
Q Consensus 6 ~~~F~~eVk~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv--------- 76 (148)
...|.+++++...++|++......++.+++++||||+|||.||+++++++++..||.+|.+.|++++|+|+
T Consensus 284 ~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~ 363 (399)
T cd06384 284 YKEFQRELHARAKEDFGVELEPSLMNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKN 363 (399)
T ss_pred HHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCC
Confidence 45688888554555688754445689999999999999999999999998877899999999999999998
Q ss_pred ------cc---c-cCCCCCcEEEEEeee
Q psy8885 77 ------KS---I-LPTTTPLRLVHKYIL 94 (148)
Q Consensus 77 ------ys---L-D~~~g~f~vV~~Y~g 94 (148)
|. | +.+.|++++|++|++
T Consensus 364 G~r~~~~~~~~~~~~~~g~~~~v~~~~~ 391 (399)
T cd06384 364 NDRDIDFDLWAMTDHETGKYEVVAHYNG 391 (399)
T ss_pred CCcccceEEEEeecCCCCeEEEEEEEcC
Confidence 22 3 557789999999987
No 6
>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=99.24 E-value=1.3e-11 Score=105.40 Aligned_cols=72 Identities=31% Similarity=0.420 Sum_probs=61.6
Q ss_pred cchhHHHHH-HHHhcCCCCccc----CCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 5 GNGYVRLMV-KKVAKEGYNFTF----GNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 5 ~~~~F~~eV-k~~a~~pFn~t~----~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
.+..|.+.+ ++...+||+++. ....++.|+++.||||++||+||+++++.+.+..||++|.+.|++++|+|+
T Consensus 283 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~Gv 359 (404)
T cd06370 283 DYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSI 359 (404)
T ss_pred hHHHHHHHHHHhccCCCCcccccccccccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccc
Confidence 456788888 445678888754 234688999999999999999999999998878899999999999999998
No 7
>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=98.96 E-value=1.9e-09 Score=92.05 Aligned_cols=57 Identities=21% Similarity=0.367 Sum_probs=49.8
Q ss_pred hcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 17 AKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 17 a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
+..||+.+ ...++.|++++||||++||+||++++++|++ .||++|.+.|++++|+|+
T Consensus 281 ~~~~~~~~--~~~~~~~~~~~YDav~~~a~Al~~a~~~g~~-~d~~~l~~~l~~~~f~Gv 337 (382)
T cd06371 281 GEIPSDLE--PEQVSPLFGTIYNSIYLLAHAVENARAAGGG-VSGANLAQHTRNLEFQGF 337 (382)
T ss_pred CCCCCCCC--ccccchhHHHHHHHHHHHHHHHHHHHHhCCC-ccHHHHHHHHhCcccccc
Confidence 45777743 3468889999999999999999999998876 799999999999999998
No 8
>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=98.92 E-value=4.6e-09 Score=88.90 Aligned_cols=89 Identities=45% Similarity=0.654 Sum_probs=70.5
Q ss_pred chhHHHHHHHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---------
Q psy8885 6 NGYVRLMVKKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP--------- 76 (148)
Q Consensus 6 ~~~F~~eVk~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv--------- 76 (148)
+..|.+..++...++|++..++..++.|+++.||||+++|+||+++++++++..||.+|.+.|.+.+|+|+
T Consensus 281 ~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~ 360 (396)
T cd06373 281 YKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDEN 360 (396)
T ss_pred HHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecC
Confidence 45677777555556787655555788999999999999999999999888877899999999999999998
Q ss_pred ------ccc---c-CCCCCcEEEEEeee
Q psy8885 77 ------KSI---L-PTTTPLRLVHKYIL 94 (148)
Q Consensus 77 ------ysL---D-~~~g~f~vV~~Y~g 94 (148)
|.+ . ...|.+++|+.|++
T Consensus 361 G~~~~~~~v~~~~~~~~g~~~~~~~~~~ 388 (396)
T cd06373 361 GDRESDFSLWDMTDTETGTFEVVANYNG 388 (396)
T ss_pred CcccceeeeeeccCCCCceEEEEeeccc
Confidence 221 1 13567888888876
No 9
>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=98.73 E-value=5.6e-08 Score=81.48 Aligned_cols=72 Identities=40% Similarity=0.585 Sum_probs=61.8
Q ss_pred cchhHHHHH-HHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 5 GNGYVRLMV-KKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 5 ~~~~F~~eV-k~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
.+..|.++. ++...+||+|......++.|+++.||||++||+||+++...+++..++..+.+.|++.+|.|+
T Consensus 273 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~ 345 (389)
T cd06352 273 EYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGI 345 (389)
T ss_pred hHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEee
Confidence 466788888 666678999874445678999999999999999999999988777799999999999999998
No 10
>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=98.29 E-value=1.4e-06 Score=75.26 Aligned_cols=47 Identities=19% Similarity=0.086 Sum_probs=41.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcC----------CCCCChHHHHHHhhcCccccc
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMG----------GSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g----------~~~~nGt~I~~~m~nrtF~Gv 76 (148)
.+.++++.||||+++|+||++++..+ ....+|..|++.|++.+|.|+
T Consensus 351 ~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~~~~~~~l~~~l~~v~f~g~ 407 (452)
T cd06362 351 QESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMKPIDGRKLLFYLRNVSFSGL 407 (452)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCccCCCHHHHHHHHHhCCcCCC
Confidence 46699999999999999999999764 134799999999999999997
No 11
>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=98.10 E-value=4.1e-06 Score=67.54 Aligned_cols=59 Identities=25% Similarity=0.394 Sum_probs=48.4
Q ss_pred CCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCC-------CChHHHHHHhhcCccccc---ccccCCCC
Q psy8885 26 GNESVSTFVTAFYDAVILYSIALNETIAMGGSQ-------SDGSAITRRMWNRTYQDP---KSILPTTT 84 (148)
Q Consensus 26 ~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~-------~nGt~I~~~m~nrtF~Gv---ysLD~~~g 84 (148)
....++.+++++||||++||+||+++++.+++. .+|..|.+.|++.+|.|+ ...|.++|
T Consensus 267 ~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G 335 (348)
T PF01094_consen 267 SDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDG 335 (348)
T ss_dssp TTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTS
T ss_pred cccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCccccccHHHHHHHHhheeeeCCCCCEEEeCCCC
Confidence 356899999999999999999999999886543 268899999999999997 33455333
No 12
>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=97.86 E-value=3.8e-05 Score=64.21 Aligned_cols=46 Identities=22% Similarity=0.295 Sum_probs=40.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCC---------------CCChHHHHHHhhcCccccc
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMGGS---------------QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g~~---------------~~nGt~I~~~m~nrtF~Gv 76 (148)
..++++.||||+++|+||++++..+.. ..+|..+.+.|++++|.|+
T Consensus 255 ~~~~~~~~Dav~~~a~Al~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~ 315 (362)
T cd06367 255 YSLEARVRDAVAIVARAAESLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGE 315 (362)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCC
Confidence 578999999999999999999875321 3789999999999999997
No 13
>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=97.82 E-value=4.1e-05 Score=67.62 Aligned_cols=47 Identities=19% Similarity=0.113 Sum_probs=40.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCC----------CCCChHHHHHHhhcCccccc
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGG----------SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~----------~~~nGt~I~~~m~nrtF~Gv 76 (148)
++.++.+.|||||.+|+||+++|..+. ...++.++.+.|+|.+|.|.
T Consensus 356 ~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~~~~~~~~~~~l~~~l~~v~F~~~ 412 (469)
T cd06365 356 MSEESYNVYNAVYAVAHALHEMLLQQVETQSENNGKRLIFLPWQLHSFLKNIQFKNP 412 (469)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCCCCCCCccHHHHHHHHHhccccCC
Confidence 466889999999999999999998643 12578899999999999987
No 14
>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=97.65 E-value=0.00013 Score=61.51 Aligned_cols=46 Identities=17% Similarity=0.221 Sum_probs=38.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCC-------------CCCChHHHHHHhhcCccccc
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMGG-------------SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g~-------------~~~nGt~I~~~m~nrtF~Gv 76 (148)
..++++.||||+++|+||+++++.+. +..+|..+.+.|++.+|.|+
T Consensus 270 ~~~~~~~yDAV~~~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~ 328 (377)
T cd06379 270 KNESSHIRDAVAVLASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGE 328 (377)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCc
Confidence 46899999999999999999986322 13479999999999999997
No 15
>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=97.53 E-value=0.0005 Score=57.94 Aligned_cols=48 Identities=17% Similarity=0.186 Sum_probs=41.0
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCC-----------------------CCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGG-----------------------SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~-----------------------~~~nGt~I~~~m~nrtF~Gv 76 (148)
.++.++++.||||++.|.||+++...++ ...+|..|.+.|.+.+|.|+
T Consensus 272 ~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~ 342 (382)
T cd06380 272 PIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGL 342 (382)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhccccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCc
Confidence 4778999999999999999999987552 12579999999999899997
No 16
>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=97.22 E-value=0.0021 Score=55.46 Aligned_cols=49 Identities=14% Similarity=0.109 Sum_probs=41.7
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHcCCC-----------------CCChHHHHHHhhcCccccc
Q psy8885 28 ESVSTFVTAFYDAVILYSIALNETIAMGGS-----------------QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 28 ~~v~~yaa~LyDAV~LYA~ALnetL~~g~~-----------------~~nGt~I~~~m~nrtF~Gv 76 (148)
..++.++++.||||++.|.|+.+...++.+ ...|..+++.|++.+|.|+
T Consensus 259 ~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~Gl 324 (364)
T cd06390 259 KRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGL 324 (364)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCCCCCCCCCCCCCCccHHHHHHHHHhhccccc
Confidence 367899999999999999999997664432 1469999999999999998
No 17
>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=96.87 E-value=0.0033 Score=53.98 Aligned_cols=44 Identities=16% Similarity=0.180 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCC------CCChHHHHHHhhcCccccc
Q psy8885 33 FVTAFYDAVILYSIALNETIAMGGS------QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 33 yaa~LyDAV~LYA~ALnetL~~g~~------~~nGt~I~~~m~nrtF~Gv 76 (148)
+++..||||+++|+||++++..|.. ..++..|.+.|++.+|.|+
T Consensus 308 ~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~ 357 (410)
T cd06363 308 FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLL 357 (410)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecC
Confidence 5678999999999999999887753 2468889999999889986
No 18
>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=96.81 E-value=0.0033 Score=55.01 Aligned_cols=45 Identities=18% Similarity=0.142 Sum_probs=38.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHcC--------C--CCCChHHHHHHhhcCccccc
Q psy8885 32 TFVTAFYDAVILYSIALNETIAMG--------G--SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 32 ~yaa~LyDAV~LYA~ALnetL~~g--------~--~~~nGt~I~~~m~nrtF~Gv 76 (148)
.++++.||||+.+|+||++++..+ . ...+|..+.+.|++.+|.|.
T Consensus 358 ~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C~~~~~~~~~~l~~~L~~v~F~g~ 412 (463)
T cd06376 358 GKVQFVIDAVYAMAHALHSMHKDLCPGYTGVCPEMEPADGKKLLKYIRAVNFNGS 412 (463)
T ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCccCCCCCHHHHHHHHHhCCccCC
Confidence 378999999999999999999543 1 23689999999999999986
No 19
>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=96.76 E-value=0.0094 Score=51.91 Aligned_cols=49 Identities=16% Similarity=0.054 Sum_probs=41.0
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHcCCC----------------C-CChHHHHHHhhcCccccc
Q psy8885 28 ESVSTFVTAFYDAVILYSIALNETIAMGGS----------------Q-SDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 28 ~~v~~yaa~LyDAV~LYA~ALnetL~~g~~----------------~-~nGt~I~~~m~nrtF~Gv 76 (148)
..++.++++.||||++.|.|+.+...++.+ + ..|..|++.|...+|.|.
T Consensus 267 ~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GL 332 (372)
T cd06387 267 SPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGM 332 (372)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCC
Confidence 357899999999999999999987654321 2 579999999999999998
No 20
>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=96.75 E-value=0.0034 Score=55.50 Aligned_cols=48 Identities=10% Similarity=0.162 Sum_probs=39.9
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHc--------------CCC-CCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAM--------------GGS-QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~--------------g~~-~~nGt~I~~~m~nrtF~Gv 76 (148)
.+++++++.||||++.|.||++.+.. ... ...|..|++.|+...|.|+
T Consensus 292 ~l~~~aalayDaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GL 354 (400)
T cd06392 292 MLQVSNLYLYDSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGL 354 (400)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccC
Confidence 58899999999999999999986531 111 2579999999999999998
No 21
>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=96.70 E-value=0.0021 Score=56.55 Aligned_cols=45 Identities=9% Similarity=0.085 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHcCC----------CCCChHHHHHHhhcCccccc
Q psy8885 32 TFVTAFYDAVILYSIALNETIAMGG----------SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 32 ~yaa~LyDAV~LYA~ALnetL~~g~----------~~~nGt~I~~~m~nrtF~Gv 76 (148)
.++++.||||+..|+||++++..+- +..+|..+.+.|++.+|.|+
T Consensus 370 ~~~~~vyDAVyaiA~ALh~~~~~~~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g~ 424 (472)
T cd06374 370 SKMGFVINAIYAMAHGLHNMHQDLCPGHVGLCDAMKPIDGRKLLEYLLKTSFSGV 424 (472)
T ss_pred ceeHHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCCCCCCHHHHHHHHHhCcccCC
Confidence 6788999999999999999985431 23679999999999999997
No 22
>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=96.45 E-value=0.0088 Score=51.26 Aligned_cols=49 Identities=16% Similarity=0.129 Sum_probs=41.1
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHcCCC-----------------CCChHHHHHHhhcCccccc
Q psy8885 28 ESVSTFVTAFYDAVILYSIALNETIAMGGS-----------------QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 28 ~~v~~yaa~LyDAV~LYA~ALnetL~~g~~-----------------~~nGt~I~~~m~nrtF~Gv 76 (148)
..++.++|..||||++.|.|+.+....+.+ ..+|..|.+.|...+|.|+
T Consensus 264 ~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~Gl 329 (370)
T cd06389 264 KTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGL 329 (370)
T ss_pred cCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCcc
Confidence 357889999999999999999998655321 1489999999999899998
No 23
>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=96.38 E-value=0.014 Score=49.65 Aligned_cols=48 Identities=17% Similarity=0.151 Sum_probs=38.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCC---------CCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGS---------QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~---------~~nGt~I~~~m~nrtF~Gv 76 (148)
.++.+++..||||++.|.|+.+.-..+.+ ...|..|.+.|....|+|+
T Consensus 285 ~~~~~aal~yDav~~~a~A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~Gl 341 (384)
T cd06393 285 VMMTDAALLYDAVHMVSVCYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGL 341 (384)
T ss_pred cccchhHHhhhhHHHHHHHHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeeccc
Confidence 35789999999999999999965433211 2468899999998899998
No 24
>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=96.28 E-value=0.0079 Score=52.66 Aligned_cols=48 Identities=13% Similarity=0.151 Sum_probs=39.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcC--------------C-CCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMG--------------G-SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g--------------~-~~~nGt~I~~~m~nrtF~Gv 76 (148)
.++.++++.||||++.|.|+++.+..+ . ....|..|++.|...+|+|+
T Consensus 292 ~~~~~~alayDaV~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~Gl 354 (400)
T cd06391 292 MMEISNLYIYDTVLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGL 354 (400)
T ss_pred cccchhhHHHHHHHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccc
Confidence 467999999999999999999875321 1 12579999999999999998
No 25
>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=95.86 E-value=0.024 Score=48.85 Aligned_cols=48 Identities=15% Similarity=0.090 Sum_probs=38.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCC-----------------CCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGG-----------------SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~-----------------~~~nGt~I~~~m~nrtF~Gv 76 (148)
.+..+++..||||++.|.|+.+....+. ....|..|.+.|...+|+|+
T Consensus 266 ~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~Gl 330 (371)
T cd06388 266 PPKYTSALTYDGVLVMAEAFRNLRRQKIDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGL 330 (371)
T ss_pred CccchHHHHHHHHHHHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCC
Confidence 4678999999999999999988642111 12567899999988889998
No 26
>KOG1055|consensus
Probab=95.67 E-value=0.029 Score=54.25 Aligned_cols=102 Identities=16% Similarity=0.048 Sum_probs=71.2
Q ss_pred hhHHHHH-HHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCC------------CCChHHHHHHhhcCcc
Q psy8885 7 GYVRLMV-KKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGS------------QSDGSAITRRMWNRTY 73 (148)
Q Consensus 7 ~~F~~eV-k~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~------------~~nGt~I~~~m~nrtF 73 (148)
..|..++ +++...+ +...-+..+++-||||+.-|+|+|+|+..++. ..=+.+|.+.|.+++|
T Consensus 319 ~~~l~~~~~~r~~~~-----~~~~~~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF 393 (865)
T KOG1055|consen 319 QEFLEELTKYRKRHP-----EETGGFQEAPLAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSF 393 (865)
T ss_pred HHHHHHHHhhhcccc-----ccccCcccCchHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccc
Confidence 3566666 4444332 23456778889999999999999999987521 1235678888989999
Q ss_pred ccc-----cc----c---c---CCCCCcEEEEEeeec--------------CCCCCCCCCceecCCCch
Q psy8885 74 QDP-----KS----I---L---PTTTPLRLVHKYILY--------------YVIPLCNHKCTIANSILS 113 (148)
Q Consensus 74 ~Gv-----ys----L---D---~~~g~f~vV~~Y~g~--------------g~~PLd~P~CGF~G~~C~ 113 (148)
+|+ |+ | + -+.|.++.++.|.+. |.||+|.=+=+=+-..-+
T Consensus 394 ~GvsG~V~F~~geR~a~t~ieQ~qdg~y~k~g~Yds~~D~ls~~n~~~w~~g~ppkd~Tv~~~~~~~~S 462 (865)
T KOG1055|consen 394 EGVSGHVVFSNGERMALTLIEQFQDGKYKKIGYYDSTKDDLSWINTEKWIGGSPPKDSTLIIKTFRFVS 462 (865)
T ss_pred cccccceEecchhhHHHHHHHHHhCCceEeecccccccchhhccccceEeccCCCcccceeehcccccC
Confidence 998 33 1 1 255889999999842 569999876665554443
No 27
>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=95.24 E-value=0.057 Score=47.76 Aligned_cols=44 Identities=16% Similarity=0.148 Sum_probs=36.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcC--------C--CCCChHHHH-HHhhcCccc
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMG--------G--SQSDGSAIT-RRMWNRTYQ 74 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g--------~--~~~nGt~I~-~~m~nrtF~ 74 (148)
..++.+.|||||..|+||++++..+ + ..-++.++. +.|++.+|.
T Consensus 352 ~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~~~~~~~~~l~~~~L~~v~F~ 406 (458)
T cd06375 352 ESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDAMKPLDGKKLYKEYLLNVSFT 406 (458)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCHHHHHHHHHHhcccc
Confidence 4578899999999999999999532 1 236889999 589999999
No 28
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 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=94.94 E-value=0.086 Score=45.53 Aligned_cols=63 Identities=14% Similarity=0.142 Sum_probs=46.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCC---------------CCChHHHHHHhhcCccccc------------ccc---cC
Q psy8885 32 TFVTAFYDAVILYSIALNETIAMGGS---------------QSDGSAITRRMWNRTYQDP------------KSI---LP 81 (148)
Q Consensus 32 ~yaa~LyDAV~LYA~ALnetL~~g~~---------------~~nGt~I~~~m~nrtF~Gv------------ysL---D~ 81 (148)
.+.+..||||.+.|.|+...++++.. -..|..+.+.|.+.+|+|. |.+ +.
T Consensus 257 ~~~a~~~DaV~vva~Al~~l~~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~~i~F~~~G~r~~~~ldIinl 336 (362)
T cd06378 257 SLRARVRDGVAIIATGASAMLRQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGRDLSFTEDGYLVNPKLVVISL 336 (362)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCCceeECCCCeEccceEEEEEe
Confidence 46889999999999999988764221 1369999999999999997 222 23
Q ss_pred CC-CCcEEEEEeee
Q psy8885 82 TT-TPLRLVHKYIL 94 (148)
Q Consensus 82 ~~-g~f~vV~~Y~g 94 (148)
.. ..++-||.++.
T Consensus 337 ~~~~g~~kVG~W~~ 350 (362)
T cd06378 337 NKERVWEEVGKWEN 350 (362)
T ss_pred cCCCCceEEEEEcC
Confidence 43 35777888763
No 29
>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=94.50 E-value=0.14 Score=46.13 Aligned_cols=46 Identities=13% Similarity=0.173 Sum_probs=37.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcC-----------CC--CCChHHHHHHhhcCccccc
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMG-----------GS--QSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g-----------~~--~~nGt~I~~~m~nrtF~Gv 76 (148)
..++.+.|||||..|+||++++.-. .. .-++.++.+.+++.+|.|.
T Consensus 394 ~~~~~~v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~ 452 (510)
T cd06364 394 LRISYNVYLAVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDN 452 (510)
T ss_pred hhhHHHHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecC
Confidence 4567889999999999999999532 11 2578899999999999976
No 30
>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=93.02 E-value=0.29 Score=39.80 Aligned_cols=51 Identities=27% Similarity=0.347 Sum_probs=41.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccCC
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~~ 82 (148)
.++.++.+-||++++++.|++++ |.+..++..|.+.|.+.+|.|. +++|++
T Consensus 271 ~~~~~~~~~yda~~~~~~A~~~a---~~~~~~~~~v~~al~~~~~~~~~g~~~f~~~ 324 (336)
T cd06360 271 TPSVYAVQGYDAGQALILALEAV---GGDLSDGQALIAAMAAAKIDSPRGPFTLDKA 324 (336)
T ss_pred CccHHHHHHHHHHHHHHHHHHHh---CCCCCCHHHHHHHHhcCCccCCCcceEECCC
Confidence 46789999999999999999986 4444578889999988888887 446544
No 31
>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=92.33 E-value=0.53 Score=41.85 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHH--------Hc--------CC--CCCChHHHHHHhhcCccccc
Q psy8885 32 TFVTAFYDAVILYSIALNETI--------AM--------GG--SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 32 ~yaa~LyDAV~LYA~ALnetL--------~~--------g~--~~~nGt~I~~~m~nrtF~Gv 76 (148)
..+++.||||.++|.|+.+.. .. +. ...+|..|.+.|.|.+|+|.
T Consensus 267 ~l~ali~DAV~lvA~a~~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGl 329 (382)
T cd06377 267 PLEAYVQDALELVARAVGSATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGR 329 (382)
T ss_pred cHHHHHHHHHHHHHHHHHHhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCccccc
Confidence 349999999999999999742 11 11 22589999999999999997
No 32
>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=92.13 E-value=0.59 Score=37.76 Aligned_cols=50 Identities=28% Similarity=0.426 Sum_probs=40.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccCC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~~ 82 (148)
++.|+..-||++++.+.|+.++ |.+..+...|.+.|.+..|+|+ +.+|++
T Consensus 269 ~~~~~~~~yda~~~~~~a~~~a---g~~~~~~~~v~~al~~~~~~~~~g~i~f~~~ 321 (333)
T cd06332 269 PSVYAAQGYDAAQLLDAALRAV---GGDLSDKDALRAALRAADFDSPRGPFKFNPN 321 (333)
T ss_pred CcHHHHHHHHHHHHHHHHHHHh---cCCCCCHHHHHHHHhcCceecCccceeECCC
Confidence 5678899999999999999885 5555678889999999899987 556554
No 33
>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=91.64 E-value=0.16 Score=42.01 Aligned_cols=35 Identities=20% Similarity=0.043 Sum_probs=23.6
Q ss_pred cchhHHHHHHHH-hcCCCCcccCCcchhhHHHHHHHHHHH
Q psy8885 5 GNGYVRLMVKKV-AKEGYNFTFGNESVSTFVTAFYDAVIL 43 (148)
Q Consensus 5 ~~~~F~~eVk~~-a~~pFn~t~~~~~v~~yaa~LyDAV~L 43 (148)
.+..|.++.++. ..+|++ ...++.|+++.|||+++
T Consensus 265 ~~~~f~~~~~~~~~~~~~~----~~~p~~~a~~~YDav~~ 300 (350)
T cd06366 265 TLQEFTSRWRKRFGNENPE----LTEPSIYALYAYDAVWA 300 (350)
T ss_pred cHHHHHHHHHHHhcccCcC----cCCCCcccchhhhheee
Confidence 456677777333 333333 23578899999999999
No 34
>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=90.90 E-value=0.82 Score=37.76 Aligned_cols=48 Identities=15% Similarity=0.314 Sum_probs=39.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccCC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~~ 82 (148)
++.+++.-||++++++.|+.+. |. .++..|.+.|.+.+|.|+ ..+|++
T Consensus 283 p~~~~~~~yda~~~l~~A~~~a---g~--~~~~~i~~al~~~~~~g~~G~i~f~~~ 333 (344)
T cd06345 283 PNYMGASTYDSIYILAEAIERA---GS--TDGDALVEALEKTDFVGTAGRIQFYGD 333 (344)
T ss_pred CcccchHHHHHHHHHHHHHHHh---cC--CCHHHHHHHHHhCCCcCCceeEEECCC
Confidence 6778889999999999999975 32 468889999999999998 335544
No 35
>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=90.50 E-value=0.51 Score=38.22 Aligned_cols=42 Identities=14% Similarity=0.314 Sum_probs=36.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
.+.++.+-||++++++.||.++ + ..++..|.+.|++.+|+|+
T Consensus 271 ~~~~~~~~yda~~~~~~al~~~---~--~~~~~~v~~~l~~~~~~g~ 312 (334)
T cd06342 271 PGAYAPYAYDAANVLAEAIKKA---G--STDPAKVADALRKVDFDGV 312 (334)
T ss_pred CchhHHHHHHHHHHHHHHHHHh---C--CCCHHHHHHHHHhCCCCCc
Confidence 3678999999999999999987 2 3578999999999999996
No 36
>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=88.59 E-value=0.76 Score=39.98 Aligned_cols=44 Identities=14% Similarity=0.129 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCC----CCCChHHHHHHhhcCccccc
Q psy8885 33 FVTAFYDAVILYSIALNETIAMGG----SQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 33 yaa~LyDAV~LYA~ALnetL~~g~----~~~nGt~I~~~m~nrtF~Gv 76 (148)
++-+.+|||++.|+||++.+..+. ...++.++.+.|++.+|.|.
T Consensus 308 ~~~~v~~AVyaiA~Al~~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~ 355 (403)
T cd06361 308 LIHSIQLAVFALAHAIRDLCQERQCQNPNAFQPWELLGQLKNVTFEDG 355 (403)
T ss_pred hHHHHHHHHHHHHHHHHHhccCCCCCCCCCcCHHHHHHHHheeEEecC
Confidence 345679999999999999764332 13689999999999999997
No 37
>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=87.73 E-value=1.2 Score=36.64 Aligned_cols=51 Identities=20% Similarity=0.283 Sum_probs=40.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccCC
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~~ 82 (148)
..+.++..-||++++.+.|+.+. |.+..+..+|.+.|.+..|.|+ +.+|++
T Consensus 268 ~~~~~~~~~yda~~~~~~A~~~a---g~~~~~~~~v~~al~~~~~~~~~G~~~~~~~ 321 (333)
T cd06359 268 LPTLYAAQAYDAAQLLDSAVRKV---GGNLSDKDALRAALRAADFKSVRGAFRFGTN 321 (333)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHh---cCCCCCHHHHHHHHhcCccccCccceEECCC
Confidence 46788899999999999999865 5455678899999988889887 445543
No 38
>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=86.96 E-value=3.7 Score=35.39 Aligned_cols=81 Identities=19% Similarity=0.213 Sum_probs=53.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhc-Cccccc---ccccCCC---------------CCcEEEEE
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWN-RTYQDP---KSILPTT---------------TPLRLVHK 91 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~n-rtF~Gv---ysLD~~~---------------g~f~vV~~ 91 (148)
+.+++.=||++++++.|++++ |. .|...|...|.+ ..|.|. +++|+.+ +.+.++.-
T Consensus 273 ~~~a~~~Yda~~~l~~Ai~~A---Gs--~d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~ 347 (374)
T TIGR03669 273 NQEAENNYFSVYMYKQAVEEA---GT--TDQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKE 347 (374)
T ss_pred ChHHHHHHHHHHHHHHHHHHh---CC--CCHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEe
Confidence 567788899999999999965 32 478889988975 557665 4454322 23344433
Q ss_pred eeecCCCCCCCCCceecCCCchHHH
Q psy8885 92 YILYYVIPLCNHKCTIANSILSQQY 116 (148)
Q Consensus 92 Y~g~g~~PLd~P~CGF~G~~C~~qy 116 (148)
+.....+|-++--|-.+-..-+-||
T Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~~~ 372 (374)
T TIGR03669 348 QEIIPYFLSETVGCDLTKKDDTTQY 372 (374)
T ss_pred cCCCCcchhhhhCCcCCCCCccccC
Confidence 3333467888888877765554444
No 39
>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=84.69 E-value=1.6 Score=35.98 Aligned_cols=52 Identities=21% Similarity=0.310 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCC------hHHHHHHhhcCccccc---ccccCC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSD------GSAITRRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~n------Gt~I~~~m~nrtF~Gv---ysLD~~ 82 (148)
.+.+++.-|||+++++.||.++...++ ..+ ...|...|.+.+|.|+ +.+|++
T Consensus 273 p~~~~~~~yda~~~~~~A~~~a~~~~~-~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~ 333 (344)
T cd06348 273 PPQFSAQAFDAVQVVAEALKRLNQKQK-LAELPLPELRTALNAALLSGQYDTPLGEISFTPD 333 (344)
T ss_pred ccHHHHHHHHHHHHHHHHHHHhcCCCc-cccchhhhHHHHHHHHHhccCCccceeeeEECCC
Confidence 467788899999999999999875443 111 4577788888899987 445554
No 40
>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=82.96 E-value=1.8 Score=35.01 Aligned_cols=43 Identities=23% Similarity=0.361 Sum_probs=34.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhc-Cccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWN-RTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~n-rtF~Gv 76 (148)
.++.+++.-||++++++.||.++ |. .++..|.+.|.+ .+|.|+
T Consensus 271 ~~~~~~~~~yda~~~~~~Al~~a---g~--~~~~~v~~~l~~~~~~~g~ 314 (334)
T cd06347 271 EPDAFAALGYDAYYLLADAIERA---GS--TDPEAIRDALAKTKDFDGV 314 (334)
T ss_pred CcchhHHHHHHHHHHHHHHHHHh---CC--CCHHHHHHHHHhCCCcccc
Confidence 46788899999999999999875 32 278899888764 468886
No 41
>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=81.95 E-value=5.3 Score=32.80 Aligned_cols=51 Identities=16% Similarity=0.210 Sum_probs=37.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILP 81 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~ 81 (148)
.+.++..-||++.+.+.||.++.......++ ..+.+.|.+.+|.|+ +++|+
T Consensus 279 p~~~~~~~y~a~~~l~~a~~~a~~~~~~~~~-~~v~~al~~~~~~~~~G~~~f~~ 332 (346)
T cd06330 279 PTYGAYGAYQAVMALAAAVEKAGATDGGAPP-EQIAAALEGLSFETPGGPITMRA 332 (346)
T ss_pred CChHHHHHHHHHHHHHHHHHHhcCCCCCCcH-HHHHHHHcCCCccCCCCceeeec
Confidence 4567888999999999999987654443333 568888888788886 44544
No 42
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=79.13 E-value=12 Score=31.87 Aligned_cols=60 Identities=18% Similarity=0.196 Sum_probs=42.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccCC----CCCcEEEEEeeecC
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILPT----TTPLRLVHKYILYY 96 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~~----~g~f~vV~~Y~g~g 96 (148)
+.++..=||++++++.||+++ |. .|+..|...|.+.+|+|+ +.+|++ ...|. |.-|.+.|
T Consensus 297 ~~~~~~~Y~~~~~l~~Al~~a---G~--~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~-i~~~~~~~ 363 (369)
T PRK15404 297 GPFVWTTYAAVQSLAAGINRA---GS--DDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFG-VFEWHADG 363 (369)
T ss_pred ccchHHHHHHHHHHHHHHHhh---CC--CCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEE-EEEEEcCC
Confidence 456778899999999999964 43 478889999999899987 446543 22333 44555544
No 43
>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=74.34 E-value=6.2 Score=33.86 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=32.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccc
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQ 74 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~ 74 (148)
++.+++.-||+|++||.|+.++ | ..|+..|...|.+..|.
T Consensus 249 p~~~~a~aY~av~~~a~Ai~~A---G--s~d~~aV~~aL~~~~~~ 288 (347)
T TIGR03863 249 MTELDYAAWLAVRAVGEAVTRT---R--SADPATLRDYLLSDEFE 288 (347)
T ss_pred CChHHHHHHHHHHHHHHHHHHh---c--CCCHHHHHHHHcCCCce
Confidence 3456788999999999999987 2 25899999999887664
No 44
>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=70.35 E-value=14 Score=31.15 Aligned_cols=48 Identities=27% Similarity=0.394 Sum_probs=37.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccCC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~~ 82 (148)
.+.+++.=||++++++.||.++ |. .+...|...|.+.+|.|. +.+|+.
T Consensus 274 ~~~~~~~~yda~~~l~~Al~~a---g~--~~~~~v~~aL~~~~~~~~~g~~~f~~~ 324 (360)
T cd06357 274 VSACAEAAYFQVHLFARALQRA---GS--DDPEDVLAALLGFSFDAPQGPVRIDPD 324 (360)
T ss_pred CCcHHHHHHHHHHHHHHHHHHc---CC--CCHHHHHHHhccCcccCCCcceEEeCC
Confidence 4667888899999999999974 43 367889999988888886 446553
No 45
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=69.74 E-value=20 Score=31.93 Aligned_cols=74 Identities=20% Similarity=0.315 Sum_probs=43.4
Q ss_pred chhHHHHHHHHhcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccC-
Q psy8885 6 NGYVRLMVKKVAKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILP- 81 (148)
Q Consensus 6 ~~~F~~eVk~~a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~- 81 (148)
|..|.++.+++ |. ++..++.....-|-+|+|+|.|+.++ |. .|=..|.+.+.+.+|.+- -.+|+
T Consensus 257 N~~Fv~~~~~~----~g---~~~v~s~~~eaaY~~v~l~a~Av~~a---gs--~d~~~vr~al~g~~~~aP~G~v~id~~ 324 (363)
T PF13433_consen 257 NQAFVARFRAR----YG---DDRVTSDPMEAAYFQVHLWAQAVEKA---GS--DDPEAVREALAGQSFDAPQGRVRIDPD 324 (363)
T ss_dssp HHHHHHHHHTT----S----TT----HHHHHHHHHHHHHHHHHHHH---TS----HHHHHHHHTT--EEETTEEEEE-TT
T ss_pred HHHHHHHHHHH----hC---CCCCCCcHHHHHHHHHHHHHHHHHHh---CC--CCHHHHHHHhcCCeecCCCcceEEcCC
Confidence 45566655332 22 23467778888899999999999998 32 256667788888888764 22343
Q ss_pred --------------CCCCcEEEEE
Q psy8885 82 --------------TTTPLRLVHK 91 (148)
Q Consensus 82 --------------~~g~f~vV~~ 91 (148)
..|.|++|+.
T Consensus 325 n~H~~l~~rIg~~~~dG~f~Iv~~ 348 (363)
T PF13433_consen 325 NHHTWLPPRIGRVNADGQFDIVWE 348 (363)
T ss_dssp TSBEEB--EEEEE-TTS-EEEEEE
T ss_pred CCeecccceEEEEcCCCCEEEEEe
Confidence 2478888876
No 46
>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=68.63 E-value=8.9 Score=31.44 Aligned_cols=43 Identities=23% Similarity=0.461 Sum_probs=36.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
..+.+++.-||++++.+.|+.+. |. .++..|.+.|.+.+|.|+
T Consensus 271 ~~~~~~~~~yda~~~~~~A~~~a---g~--~~~~~l~~al~~~~~~~~ 313 (333)
T cd06331 271 VINSPAEAAYEAVYLWAAAVEKA---GS--TDPEAVRAALEGVSFDAP 313 (333)
T ss_pred CCCchhHHHHHHHHHHHHHHHHc---CC--CCHHHHHHHhhcCcccCC
Confidence 46788999999999999999875 32 478899999988888886
No 47
>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=65.72 E-value=20 Score=29.95 Aligned_cols=46 Identities=22% Similarity=0.359 Sum_probs=35.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccC
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILP 81 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~ 81 (148)
+.+++.=||++++++.||.++ | + .++..|.+.|.+.+|.|. +++|+
T Consensus 274 ~~~a~~~Y~a~~~~~~Al~~a---g-~-~~~~~i~~aL~~~~~~~~~g~~~f~~ 322 (348)
T cd06355 274 NDPMEAAYIGVYLWKQAVEKA---G-S-FDVDKVRAALPGQSFDAPEGPVTVDP 322 (348)
T ss_pred CcHHHHHHHHHHHHHHHHHHh---C-C-CCHHHHHHHhccCcccCCCcceEeec
Confidence 445667799999999999976 3 3 478899999988888876 44554
No 48
>PF01754 zf-A20: A20-like zinc finger; InterPro: IPR002653 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in A20. A20 is an inhibitor of cell death that inhibits NF-kappaB activation via the tumour necrosis factor receptor associated factor pathway []. The zinc finger domains appear to mediate self-association in A20. These fingers also mediate IL-1-induced NF-kappa B activation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 2FIF_F 2FID_B 2C7N_C 2C7M_A 2L00_A 2KZY_A 2EQG_A 2EQE_A 3OJ3_J 3OJ4_C ....
Probab=64.91 E-value=2.8 Score=23.79 Aligned_cols=14 Identities=29% Similarity=0.532 Sum_probs=9.6
Q ss_pred CCCCCCCceecCCC
Q psy8885 98 IPLCNHKCTIANSI 111 (148)
Q Consensus 98 ~PLd~P~CGF~G~~ 111 (148)
|++..|-|||.|+.
T Consensus 1 ~~~C~~gCgf~Gs~ 14 (25)
T PF01754_consen 1 PSLCANGCGFYGSP 14 (25)
T ss_dssp SSB-TTTSSSB-BG
T ss_pred CCcccCCCCCcccc
Confidence 45678999999864
No 49
>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=64.43 E-value=20 Score=29.78 Aligned_cols=63 Identities=24% Similarity=0.219 Sum_probs=38.7
Q ss_pred cchhHHHHHHHH-hcCCCCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcC--ccccc
Q psy8885 5 GNGYVRLMVKKV-AKEGYNFTFGNESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNR--TYQDP 76 (148)
Q Consensus 5 ~~~~F~~eVk~~-a~~pFn~t~~~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nr--tF~Gv 76 (148)
....|.++.++. ..+|.+ ....+.++++=||++.+++.||.++ | +. ++..+...|.+. .+.|+
T Consensus 259 ~~~~f~~~~~~~~~~~~~~----~~~~~~~~~~aYd~~~~l~~A~~~a---g-~~-~~~~v~~al~~~~~~~~G~ 324 (347)
T cd06335 259 KAKAFLAAYHKKYPEKKPA----DIPAPVGAAHAYDAVHLLAAAIKQA---G-ST-DGRAIKRALENLKKPVEGL 324 (347)
T ss_pred HHHHHHHHHHHHhCCCccc----ccCcchhHHHHHHHHHHHHHHHHHh---c-CC-CHHHHHHHHHhccCCceee
Confidence 345666666332 222221 1134566778899999999999875 3 32 337788888765 35554
No 50
>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=63.41 E-value=26 Score=28.78 Aligned_cols=48 Identities=25% Similarity=0.231 Sum_probs=33.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHH-HHhhcCccccc---ccccCC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAIT-RRMWNRTYQDP---KSILPT 82 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~-~~m~nrtF~Gv---ysLD~~ 82 (148)
++.+++.=||++++++.|+.+. |. .++..+. ..+.++.|.|. +.+|++
T Consensus 270 ~~~~a~~~Yda~~~l~~A~~~a---g~--~~~~~~~~~~~~~~~~~g~~g~i~f~~~ 321 (332)
T cd06344 270 VSWRTATAYDATKALIAALSQG---PT--REGVQQVELSLRNFSVQGATGKIKFLPS 321 (332)
T ss_pred chHHHHhHHHHHHHHHHHHHhC---CC--hhhhhhhhhhcccccccCCCceeEeCCC
Confidence 5778999999999999999864 32 3455555 45656678875 445543
No 51
>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=63.10 E-value=11 Score=30.51 Aligned_cols=43 Identities=28% Similarity=0.339 Sum_probs=38.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
..+.++..=||++.+.+.||.++ | + .|+..|.+.|.+.+|.|.
T Consensus 274 ~~~~~~~~~yda~~~~~~al~~~---g-~-~~~~~v~~al~~~~~~g~ 316 (343)
T PF13458_consen 274 PPSLYAAQGYDAARLLAQALERA---G-S-LDREAVREALESLKYDGL 316 (343)
T ss_dssp GTCHHHHHHHHHHHHHHHHHHHH---T-S-HHHHHHHHHHHTSEEEET
T ss_pred CCchhHHHHHHHHHHHHHHHHHh---C-C-CCHHHHHHHHHhCCCccc
Confidence 47889999999999999999998 3 3 789999999998888886
No 52
>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=61.21 E-value=14 Score=30.15 Aligned_cols=47 Identities=13% Similarity=0.118 Sum_probs=36.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccC
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILP 81 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~ 81 (148)
.+.++..-||++.+.+.|+.+. |. .++..|...|.+.+|.|+ +.+|+
T Consensus 283 p~~~~~~~y~a~~~~~~a~~~a---g~--~~~~~v~~al~~~~~~~~~G~~~f~~ 332 (345)
T cd06338 283 PDYHAAGAYAAGQVLQEAVERA---GS--LDPAAVRDALASNDFDTFYGPIKFDE 332 (345)
T ss_pred CCcccHHHHHHHHHHHHHHHHh---CC--CCHHHHHHHHHhCCCcccccCeeECC
Confidence 3456778899999999999975 32 477889999988899987 44543
No 53
>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=59.72 E-value=23 Score=29.00 Aligned_cols=40 Identities=23% Similarity=0.231 Sum_probs=30.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHH-HHHHhhcCc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSA-ITRRMWNRT 72 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~-I~~~m~nrt 72 (148)
..+.++..=||++++++.||.++ |+ ..+... +...|...+
T Consensus 272 ~~~~~~~~~yda~~~~~~a~~~a---g~-~~~~~~~v~~al~~~~ 312 (341)
T cd06341 272 PEQGFALIGYIAADLFLRGLSGA---GG-CPTRASQFLRALRAVT 312 (341)
T ss_pred CcchHHHHHHHHHHHHHHHHHhc---CC-CCChHHHHHHHhhcCC
Confidence 57788999999999999999986 32 234455 888886553
No 54
>smart00259 ZnF_A20 A20-like zinc fingers. A20- (an inhibitor of cell death)-like zinc fingers. The zinc finger mediates self-association in A20. These fingers also mediate IL-1-induced NF-kappaB activation.
Probab=58.73 E-value=5.6 Score=22.63 Aligned_cols=14 Identities=14% Similarity=0.242 Sum_probs=10.7
Q ss_pred CCCCC-CCceecCCC
Q psy8885 98 IPLCN-HKCTIANSI 111 (148)
Q Consensus 98 ~PLd~-P~CGF~G~~ 111 (148)
|++.. +-|||.|+-
T Consensus 1 ~~~C~~~~CgF~G~~ 15 (26)
T smart00259 1 PIKCRRPGCGFFGNP 15 (26)
T ss_pred CCccccCCCCCcCCh
Confidence 45667 999999873
No 55
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=58.07 E-value=12 Score=25.01 Aligned_cols=23 Identities=43% Similarity=0.589 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhc
Q psy8885 123 LRLEKKLRRLFRQKEESTRRLSN 145 (148)
Q Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~ 145 (148)
-||+|+|..+-.+.+....+|+|
T Consensus 7 ~rL~Kel~kl~~~i~~~~~kL~n 29 (66)
T PF10458_consen 7 ERLEKELEKLEKEIERLEKKLSN 29 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC
Confidence 48999999999999999999987
No 56
>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=56.57 E-value=38 Score=28.32 Aligned_cols=40 Identities=10% Similarity=-0.058 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 33 FVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 33 yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
.+++=||++++++.|+.+. | +..|+..|.+.|.+.+|.+.
T Consensus 294 ~~~~~~~~~~~l~~Ai~~A---g-s~~d~~~v~~aL~~~~~~~~ 333 (357)
T cd06337 294 PLGYAHALFEVGVKALVRA---D-DPDDPAAVADAIATLKLDTV 333 (357)
T ss_pred cchHHHHHHHHHHHHHHHc---C-CCCCHHHHHHHHHcCCcccc
Confidence 4566789999999999864 3 33477789999988777764
No 57
>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=55.41 E-value=6.7 Score=32.10 Aligned_cols=46 Identities=35% Similarity=0.344 Sum_probs=31.0
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHcCC--CC---CChHHHHHHhhcCccccccc---ccCCCCCcEEEEEeee
Q psy8885 28 ESVSTFVTAFYDAVILYSIALNETIAMGG--SQ---SDGSAITRRMWNRTYQDPKS---ILPTTTPLRLVHKYIL 94 (148)
Q Consensus 28 ~~v~~yaa~LyDAV~LYA~ALnetL~~g~--~~---~nGt~I~~~m~nrtF~Gvys---LD~~~g~f~vV~~Y~g 94 (148)
..++.+++..||||+++ |- .+ .+|.. .+ |+ |+..+++++.|+.|+.
T Consensus 269 ~~p~~~~a~~yDav~~~----------g~tG~v~f~~~g~r-----~~------~~~~~~~~~~~~~~~vg~w~~ 322 (327)
T cd06382 269 TGVTTESALMYDAVYLF----------GLTGRIEFDSSGQR-----SN------FTLDVIELTESGLRKVGTWNS 322 (327)
T ss_pred CCcchhhhhhhceEEEe----------ecccceeeCCCCCE-----ee------eEEEEEeccccCceEEEEECC
Confidence 35788999999999999 21 10 22311 01 45 3567788999999985
No 58
>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=54.87 E-value=46 Score=27.58 Aligned_cols=41 Identities=24% Similarity=0.302 Sum_probs=32.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHH--HHhhcCcccc
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAIT--RRMWNRTYQD 75 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~--~~m~nrtF~G 75 (148)
++.++..-||++++++.|+.++ |. .|+..|. ..|.+.++.+
T Consensus 281 ~~~~~~~~Y~a~~~l~~A~~~a---g~--~~~~~v~~~~~~~~~~~~~ 323 (347)
T cd06340 281 LSGNSARAYTAVLVIADALERA---GS--ADPEKIRDLAALASTSGED 323 (347)
T ss_pred CChHHHHHHHHHHHHHHHHHHh---cC--CCHHHHHHHHHhccCCccc
Confidence 6788899999999999999986 22 4677777 4677777765
No 59
>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=51.46 E-value=33 Score=28.37 Aligned_cols=43 Identities=28% Similarity=0.356 Sum_probs=35.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
..+.+++.=||++++++.|+.++ | ..|...|...|.+..|.|+
T Consensus 271 ~p~~~~~~~y~a~~~l~~Ai~~a---g--~~~~~~v~~aL~~~~~~~~ 313 (333)
T cd06328 271 PPDLFTAGGMSAAIAVVEALEET---G--DTDTEALIAAMEGMSFETP 313 (333)
T ss_pred CcchhhHHHHHHHHHHHHHHHHh---C--CCCHHHHHHHHhCCeeecC
Confidence 35678999999999999999875 3 3678889999987778875
No 60
>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=49.53 E-value=59 Score=26.86 Aligned_cols=41 Identities=22% Similarity=0.376 Sum_probs=32.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhc-Cccccc
Q psy8885 31 STFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWN-RTYQDP 76 (148)
Q Consensus 31 ~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~n-rtF~Gv 76 (148)
+.+++.=||++++++.|+.++ |. .++..|.+.|.. ..|.|.
T Consensus 273 ~~~~~~~y~a~~~~~~A~~~a---g~--~~~~~v~~aL~~~~~~~~~ 314 (334)
T cd06356 273 NEEAENNYEAIYLYKEAVEKA---GT--TDRDAVIEALESGLVCDGP 314 (334)
T ss_pred CchhHHHHHHHHHHHHHHHHH---CC--CCHHHHHHHHHhCCceeCC
Confidence 567899999999999999975 32 577889999974 567765
No 61
>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=47.65 E-value=18 Score=31.16 Aligned_cols=16 Identities=25% Similarity=0.341 Sum_probs=14.6
Q ss_pred chhhHHHHHHHHHHHH
Q psy8885 29 SVSTFVTAFYDAVILY 44 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LY 44 (148)
.+...+++.||||++.
T Consensus 291 ~~~~~~al~yDaV~~~ 306 (363)
T cd06381 291 MLEISNLYIYDSVLLL 306 (363)
T ss_pred ChhHHHHHHHHHHHHH
Confidence 6788899999999998
No 62
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=47.46 E-value=21 Score=22.00 Aligned_cols=22 Identities=50% Similarity=0.608 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhccc
Q psy8885 122 TLRLEKKLRRLFRQKEESTRRLSNII 147 (148)
Q Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 (148)
-.|+||||..|- ++...|++.|
T Consensus 17 L~R~E~kld~L~----~~i~~L~~~I 38 (38)
T PF12841_consen 17 LVRIEKKLDELT----ESINELSEAI 38 (38)
T ss_pred HHHHHHHHHHHH----HHHHHHHhhC
Confidence 468999999885 4555555543
No 63
>smart00004 NL Domain found in Notch and Lin-12. The Notch protein is essential for the proper differentiation of the Drosophila ectoderm. This protein contains 3 NL domains.
Probab=46.83 E-value=9.9 Score=23.49 Aligned_cols=12 Identities=17% Similarity=0.169 Sum_probs=10.3
Q ss_pred CCCCceecCCCc
Q psy8885 101 CNHKCTIANSIL 112 (148)
Q Consensus 101 d~P~CGF~G~~C 112 (148)
.++.|+|+|-+|
T Consensus 27 N~~~C~~DG~DC 38 (38)
T smart00004 27 NNAECLWDGGDC 38 (38)
T ss_pred CcccCCCCCCCC
Confidence 578899999887
No 64
>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=45.40 E-value=44 Score=28.07 Aligned_cols=44 Identities=20% Similarity=0.261 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccC
Q psy8885 33 FVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILP 81 (148)
Q Consensus 33 yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~ 81 (148)
+++.=||++++++.|+.++ |. .+...|.+.|.+.+|.+. +++|.
T Consensus 277 ~~~~~y~a~~~~~~A~~~a---g~--~~~~~i~~al~~~~~~~~~G~i~f~~ 323 (359)
T TIGR03407 277 PMEAAYLGVYLWKAAVEKA---GS--FDVDAVRDAAIGIEFDAPEGKVKVDG 323 (359)
T ss_pred HHHHHHHHHHHHHHHHHHh---CC--CCHHHHHHHhcCCcccCCCccEEEeC
Confidence 3444599999999999976 43 378999999988888776 44554
No 65
>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=45.06 E-value=48 Score=27.18 Aligned_cols=48 Identities=21% Similarity=0.353 Sum_probs=36.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc---ccccC
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP---KSILP 81 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv---ysLD~ 81 (148)
..+.++..-||++.+.+.|+.++ | + .+...|.+.|.+.+|.|+ +.+|+
T Consensus 271 ~~~~~~~~~yda~~~~~~A~~~a---g-~-~~~~~v~~al~~~~~~~~~G~~~~~~ 321 (333)
T cd06358 271 PLNSLSESCYEAVHALAAAAERA---G-S-LDPEALIAALEDVSYDGPRGTVTMRG 321 (333)
T ss_pred CCChHHHHHHHHHHHHHHHHHHh---C-C-CCHHHHHHHhccCeeeCCCcceEEcc
Confidence 35668888999999999999853 3 3 467889989988778876 44544
No 66
>PF00066 Notch: LNR domain; InterPro: IPR000800 The Notch domain is also called the 'DSL' domain or the Lin-12/Notch repeat (LNR). The LNR region is present only in Notch related proteins C-terminal to EGF repeats. The lin-12/Notch proteins act as transmembrane receptors for intercellular signals that specify cell fates during animal development. In response to a ligand, proteolytic cleavages release the intracellular domain of Notch, which then gains access to the nucleus and acts as a transcriptional co-activator []. The LNR region is supposed to negatively regulate the Lin-12/Notch proteins activity. It is a triplication of an around 35-40 amino acids module present on the extracellular part of the protein [, ]. Each module contains six cysteine residues engaged in three disulphide bonds and three conserved aspartate and asparagine residues []. The biochemical characterisation of a recombinantly expressed LIN-12.1 module from the human Notch1 receptor indicate that the disulphide bonds are formed between the first and fifth, second and fourth, and third and sixth cysteines. The formation of this particular disulphide isomer is favored by the presence of Ca2+, which is also required to maintain the structural integrity of the rLIN-12.1 module. The conserved aspartate and asparagine residues are likely to be important for Ca2+ binding, and thereby contribute to the native fold.; GO: 0030154 cell differentiation, 0016020 membrane; PDB: 3ETO_A 3I08_A 1PB5_A 3L95_X 2OO4_A.
Probab=44.78 E-value=5.9 Score=24.25 Aligned_cols=15 Identities=13% Similarity=0.093 Sum_probs=11.5
Q ss_pred CCCCCCCceecCCCc
Q psy8885 98 IPLCNHKCTIANSIL 112 (148)
Q Consensus 98 ~PLd~P~CGF~G~~C 112 (148)
+--++|.|+|+|-+|
T Consensus 23 ~~Cn~~~C~~DGgDC 37 (38)
T PF00066_consen 23 PECNNPECGFDGGDC 37 (38)
T ss_dssp GGG-SCCCGHHHGTT
T ss_pred hhhCccccCCCCCcC
Confidence 345789999999888
No 67
>KOG1056|consensus
Probab=41.86 E-value=36 Score=33.87 Aligned_cols=42 Identities=24% Similarity=0.232 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHcC----------CCCCChHHHHHHhhcCccccc
Q psy8885 35 TAFYDAVILYSIALNETIAMG----------GSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 35 a~LyDAV~LYA~ALnetL~~g----------~~~~nGt~I~~~m~nrtF~Gv 76 (148)
..++||||.+|+||..+...- ....||+.+.+.+.+.+|.+.
T Consensus 382 ~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~~dg~~L~~~l~~vnF~~~ 433 (878)
T KOG1056|consen 382 QFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKAIDGSLLLKYLLNVNFTGP 433 (878)
T ss_pred ccHHHHHHHHHHHHHHHHHhhcCCccccCcCccccCHHHHHhhhheeEEecC
Confidence 467999999999999987752 124799999999989999987
No 68
>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=41.14 E-value=55 Score=27.02 Aligned_cols=41 Identities=15% Similarity=0.107 Sum_probs=33.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCcc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTY 73 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF 73 (148)
..+.++..=||++++++.||++. | ...+...|...|.+.++
T Consensus 288 ~~~~~~~~~y~a~~~~~~a~~~a---g-~~~~~~~v~~aL~~~~~ 328 (362)
T cd06343 288 PPDTYAVYGYAAAETLVKVLKQA---G-DDLTRENIMKQAESLKD 328 (362)
T ss_pred CCchhhhHHHHHHHHHHHHHHHh---C-CCCCHHHHHHHHHhCCC
Confidence 36788889999999999999876 3 33578889999988776
No 69
>cd00559 Cyanase_C Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the toxicity of environmental cyanate and to use cyanate as a source of nitrogen for growth. This enzyme is a homodecamer, formed by five dimers. Each monomer is composed of two domains, an N-terminal helix-turn-helix and this structurally unique C-terminal domain.
Probab=40.34 E-value=29 Score=24.24 Aligned_cols=20 Identities=30% Similarity=0.488 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHcC
Q psy8885 36 AFYDAVILYSIALNETIAMG 55 (148)
Q Consensus 36 ~LyDAV~LYA~ALnetL~~g 55 (148)
-||.+|+.|+.|+.+.+.+.
T Consensus 10 RlyE~v~vYG~~~K~li~E~ 29 (69)
T cd00559 10 RFYEIVQVYGPTLKALIHEK 29 (69)
T ss_pred ehHHHHHHhhHHHHHHHHHH
Confidence 48999999999999998864
No 70
>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=39.36 E-value=66 Score=26.54 Aligned_cols=43 Identities=14% Similarity=0.309 Sum_probs=34.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF~Gv 76 (148)
.++.++..-||++++.+.|+.+. |. .+...|.+.|.+.+|.|.
T Consensus 280 ~~~~~~~~~y~~~~~~~~a~~~a---g~--~~~~~v~~al~~~~~~~~ 322 (342)
T cd06329 280 VPDYYEGQAYNGIQMLADAIEKA---GS--TDPEAVAKALEGMEVDTP 322 (342)
T ss_pred CCCchHHHHHHHHHHHHHHHHHh---CC--CCHHHHHHHHhCCccccC
Confidence 35667888999999999999963 42 467788888988888876
No 71
>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=38.66 E-value=1.2e+02 Score=25.18 Aligned_cols=34 Identities=26% Similarity=0.373 Sum_probs=24.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHh
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRM 68 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m 68 (148)
.+.++.+-||++.+.+.||+++ | +. +...+.+.+
T Consensus 278 p~~~~~~~y~~~~~~~~Al~~a---g-~~-~~~~~~~~~ 311 (347)
T cd06336 278 PNSEAAVSYDAVYILKAAMEAA---G-SV-DDTAAVAAL 311 (347)
T ss_pred CcHHHHHHHHHHHHHHHHHHhc---C-CC-CcHHHHHHH
Confidence 5678889999999999999974 3 22 334455444
No 72
>PF13998 MgrB: MgrB protein
Probab=38.19 E-value=17 Score=21.40 Aligned_cols=19 Identities=32% Similarity=0.434 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHcCCCCCCh
Q psy8885 43 LYSIALNETIAMGGSQSDG 61 (148)
Q Consensus 43 LYA~ALnetL~~g~~~~nG 61 (148)
||+.|||..-.+|++...|
T Consensus 1 lyllald~~CDQg~~F~~G 19 (29)
T PF13998_consen 1 LYLLALDSYCDQGEQFFSG 19 (29)
T ss_pred ChHHHHHHHhcCCCCceee
Confidence 6999999999988765444
No 73
>COG0278 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=37.13 E-value=13 Score=27.91 Aligned_cols=10 Identities=10% Similarity=0.225 Sum_probs=8.4
Q ss_pred CCCCceecCC
Q psy8885 101 CNHKCTIANS 110 (148)
Q Consensus 101 d~P~CGF~G~ 110 (148)
..|.|||++.
T Consensus 26 ~~P~CGFS~~ 35 (105)
T COG0278 26 EFPQCGFSAQ 35 (105)
T ss_pred CCCCCCccHH
Confidence 6899999864
No 74
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=36.32 E-value=14 Score=25.00 Aligned_cols=14 Identities=21% Similarity=0.328 Sum_probs=11.8
Q ss_pred CCCCCCCCCceecC
Q psy8885 96 YVIPLCNHKCTIAN 109 (148)
Q Consensus 96 g~~PLd~P~CGF~G 109 (148)
-..|.-=|.|||.|
T Consensus 45 ~~~~Y~CP~CGF~G 58 (59)
T PRK14890 45 QSNPYTCPKCGFEG 58 (59)
T ss_pred cCCceECCCCCCcC
Confidence 46788889999988
No 75
>PF02560 Cyanate_lyase: Cyanate lyase C-terminal domain; InterPro: IPR003712 Some bacteria can overcome the toxicity of environmental cyanate by hydrolysis of cyanate. This reaction is catalyzed by cyanate lyase (also known as cyanase) []. Cyanate lyase is found in bacteria and plants and catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. The cyanate lyase monomer is composed of two domains. The N-terminal domain shows structural similarity to the DNA-binding alpha-helix bundle motif. The C-terminal domain has an 'open fold' with no structural homology to other proteins. The dimer structure reveals the C-terminal domains to be intertwined, and the decamer is formed by a pentamer of these dimers. The active site of the enzyme is located between dimers and is comprised of residues from four adjacent subunits of the homodecamer []. ; GO: 0008824 cyanate hydratase activity, 0009439 cyanate metabolic process; PDB: 2IV1_B 2IUO_A 2IVQ_B 1DW9_A 1DWK_E 2IVG_G 2IU7_J 2IVB_A.
Probab=35.07 E-value=45 Score=23.57 Aligned_cols=24 Identities=21% Similarity=0.391 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHcC
Q psy8885 32 TFVTAFYDAVILYSIALNETIAMG 55 (148)
Q Consensus 32 ~yaa~LyDAV~LYA~ALnetL~~g 55 (148)
+..--||.+|..|+.||.+.+.+.
T Consensus 10 P~iYR~yE~v~vYG~~~K~li~E~ 33 (73)
T PF02560_consen 10 PLIYRLYEIVQVYGPAIKALIHEK 33 (73)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CeEeeeehhhHhhCHHHHHHHHHh
Confidence 344479999999999999988764
No 76
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=32.42 E-value=83 Score=26.74 Aligned_cols=51 Identities=22% Similarity=0.268 Sum_probs=37.3
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCc-cccc---ccccC
Q psy8885 27 NESVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRT-YQDP---KSILP 81 (148)
Q Consensus 27 ~~~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrt-F~Gv---ysLD~ 81 (148)
....+.++..-||++++++.|++++-. +. |...+...+.+.+ |.+. +.+|+
T Consensus 284 ~~~~~~~~~~~y~a~~~~~~ai~~a~~-~~---d~~~v~~al~~~~~~~~~~G~v~~~~ 338 (366)
T COG0683 284 PAAPSYFAAAAYDAVKLLAKAIEKAGK-SS---DREAVAEALKGGKFFDTAGGPVTFDE 338 (366)
T ss_pred CCCcccchHHHHHHHHHHHHHHHHHhc-CC---CHHHHHHHHhhCCCCccCCcceeECC
Confidence 345677999999999999999999975 22 3666777777665 4544 34565
No 77
>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=31.87 E-value=14 Score=31.84 Aligned_cols=48 Identities=10% Similarity=-0.127 Sum_probs=32.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCC---------C-----------CChHHHHHHhhcCccccc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGS---------Q-----------SDGSAITRRMWNRTYQDP 76 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~---------~-----------~nGt~I~~~m~nrtF~Gv 76 (148)
.+..-+|..||||++.|.|+.+....-.+ . ..|..|.+.|...+|+|.
T Consensus 271 ~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gl 338 (368)
T cd06383 271 EWAFRLFLAYDAVLAVGEWPRRMRKKRVEDGSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEML 338 (368)
T ss_pred HHHHHHHHHHHHHHHhccccchhheeeccCCCcCccccCCCCCCcccchhhcccccccCccceeEeee
Confidence 46677999999999999999974221110 1 233367777777777774
No 78
>PF12661 hEGF: Human growth factor-like EGF; PDB: 2YGQ_A 2E26_A 3A7Q_A 2YGP_A 2YGO_A 1HRE_A 1HAE_A 1HAF_A 1HRF_A.
Probab=31.14 E-value=22 Score=16.99 Aligned_cols=7 Identities=0% Similarity=-0.273 Sum_probs=5.6
Q ss_pred eecCCCc
Q psy8885 106 TIANSIL 112 (148)
Q Consensus 106 GF~G~~C 112 (148)
||+|..|
T Consensus 7 G~~G~~C 13 (13)
T PF12661_consen 7 GWTGPNC 13 (13)
T ss_dssp TEETTTT
T ss_pred CCcCCCC
Confidence 7888877
No 79
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=29.84 E-value=21 Score=24.36 Aligned_cols=13 Identities=23% Similarity=0.294 Sum_probs=10.7
Q ss_pred CCCCCCCCceecC
Q psy8885 97 VIPLCNHKCTIAN 109 (148)
Q Consensus 97 ~~PLd~P~CGF~G 109 (148)
.-|.-=|.|||.|
T Consensus 48 g~~Y~Cp~CGF~G 60 (61)
T COG2888 48 GNPYRCPKCGFEG 60 (61)
T ss_pred CCceECCCcCccC
Confidence 4577789999987
No 80
>PF07911 DUF1677: Protein of unknown function (DUF1677); InterPro: IPR012876 The sequences found in this family are all derived from hypothetical plant proteins of unknown function. The region features a number of highly conserved cysteine residues.
Probab=28.94 E-value=33 Score=25.10 Aligned_cols=18 Identities=17% Similarity=0.422 Sum_probs=14.9
Q ss_pred ceecCCCchHHHHHHHHHH
Q psy8885 105 CTIANSILSQQYVAWSQTL 123 (148)
Q Consensus 105 CGF~G~~C~~qyl~~~~~~ 123 (148)
|||+ +.|+..|...||--
T Consensus 10 CG~~-EECT~~YI~~VR~r 27 (91)
T PF07911_consen 10 CGLT-EECTPEYIARVRER 27 (91)
T ss_pred CCCc-hhccHHHHHHHHHH
Confidence 7876 67999999999854
No 81
>PF09828 Chrome_Resist: Chromate resistance exported protein; InterPro: IPR018634 Members of this family of bacterial proteins are involved in the reduction of chromate accumulation and are essential for chromate resistance [, ].
Probab=28.88 E-value=49 Score=25.79 Aligned_cols=23 Identities=9% Similarity=0.119 Sum_probs=19.7
Q ss_pred cCCCCCCCCCceec--CCCchHHHH
Q psy8885 95 YYVIPLCNHKCTIA--NSILSQQYV 117 (148)
Q Consensus 95 ~g~~PLd~P~CGF~--G~~C~~qyl 117 (148)
.++.|.|.|-+.|+ |+.|+.+.+
T Consensus 43 ~~A~pFD~~ga~~tH~g~~cTFe~l 67 (135)
T PF09828_consen 43 FDAIPFDIPGAEFTHRGDRCTFEVL 67 (135)
T ss_pred CCCCcccCCCCeeeeeCCcccHHHH
Confidence 36889999999998 999987665
No 82
>PRK10299 PhoPQ regulatory protein; Provisional
Probab=27.85 E-value=53 Score=21.35 Aligned_cols=22 Identities=14% Similarity=0.184 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHcCCCCCCh
Q psy8885 40 AVILYSIALNETIAMGGSQSDG 61 (148)
Q Consensus 40 AV~LYA~ALnetL~~g~~~~nG 61 (148)
-+.||++|||..-.+|.+.-.|
T Consensus 16 Cl~lyl~ald~~CDQg~~F~~G 37 (47)
T PRK10299 16 CLLLWAQVFNMMCDQDVQFFSG 37 (47)
T ss_pred HHHHHHHHHHHHhcCCccceee
Confidence 4569999999999988765444
No 83
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=24.67 E-value=58 Score=25.42 Aligned_cols=19 Identities=26% Similarity=0.137 Sum_probs=14.8
Q ss_pred CCcEEEEEeeecCCC-CCCC
Q psy8885 84 TPLRLVHKYILYYVI-PLCN 102 (148)
Q Consensus 84 g~f~vV~~Y~g~g~~-PLd~ 102 (148)
+.=.++.||+|+|.| |-++
T Consensus 89 ~~~RvLFHYnGhGvP~Pt~~ 108 (154)
T PF14538_consen 89 KDERVLFHYNGHGVPRPTEN 108 (154)
T ss_pred CCceEEEEECCCCCCCCCCC
Confidence 445899999999998 4544
No 84
>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=23.88 E-value=97 Score=25.01 Aligned_cols=41 Identities=15% Similarity=0.015 Sum_probs=30.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCcc
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRTY 73 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrtF 73 (148)
..+.++..=||++++++.|+.++ |++ .+...|...|.+.++
T Consensus 274 ~~~~~~~~~y~~~~~~~~a~~~~---g~~-~~~~~v~~al~~~~~ 314 (336)
T cd06326 274 PPSYVSLEGYIAAKVLVEALRRA---GPD-PTRESLLAALEAMGK 314 (336)
T ss_pred CCCeeeehhHHHHHHHHHHHHHc---CCC-CCHHHHHHHHHhcCC
Confidence 34566777899999999999863 433 477888888876544
No 85
>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=23.40 E-value=1.7e+02 Score=24.70 Aligned_cols=29 Identities=14% Similarity=0.112 Sum_probs=25.0
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHcCCC
Q psy8885 29 SVSTFVTAFYDAVILYSIALNETIAMGGS 57 (148)
Q Consensus 29 ~v~~yaa~LyDAV~LYA~ALnetL~~g~~ 57 (148)
.++.++..=||++++.+.||.++-+..+.
T Consensus 281 ~~~~~~~~gy~a~~~l~~Al~~ag~~~~~ 309 (351)
T cd06334 281 IGSVYYNRGVVNAMIMVEAIRRAQEKGGE 309 (351)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 45678999999999999999999887763
No 86
>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=23.01 E-value=1.7e+02 Score=23.91 Aligned_cols=38 Identities=24% Similarity=0.349 Sum_probs=29.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHhhcCc
Q psy8885 30 VSTFVTAFYDAVILYSIALNETIAMGGSQSDGSAITRRMWNRT 72 (148)
Q Consensus 30 v~~yaa~LyDAV~LYA~ALnetL~~g~~~~nGt~I~~~m~nrt 72 (148)
.+.+++.=||++++.+.|+.++ |. .+..+|.+.|.+.+
T Consensus 272 p~~~~~~~Y~~~~~~~~A~~~a---g~--~~~~~v~~al~~~~ 309 (334)
T cd06327 272 PSMVQAGAYSAVLHYLKAVEAA---GT--DDADKVVAKMKETP 309 (334)
T ss_pred CCcHHHHHHHHHHHHHHHHHHH---CC--CChHHHHHhccccc
Confidence 5667889999999999999977 33 35667888887754
No 87
>PRK03113 putative disulfide oxidoreductase; Provisional
Probab=21.55 E-value=65 Score=24.82 Aligned_cols=20 Identities=15% Similarity=0.476 Sum_probs=16.0
Q ss_pred CCCCCCceecCCCchHHHHHHH
Q psy8885 99 PLCNHKCTIANSILSQQYVAWS 120 (148)
Q Consensus 99 PLd~P~CGF~G~~C~~qyl~~~ 120 (148)
|.-.|.|| +.+|.+.|..|.
T Consensus 93 ~~~~~~Cg--~~~Ca~~~~~~~ 112 (139)
T PRK03113 93 SAAAASCG--RVPCTGEYINWF 112 (139)
T ss_pred cccCCCCC--CCChhhhhHHHh
Confidence 45589999 569999998884
Done!