Query 045928
Match_columns 116
No_of_seqs 101 out of 1055
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 06:57:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045928.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045928hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 1.1E-34 2.4E-39 211.2 7.4 102 3-108 19-127 (187)
2 PLN03210 Resistant to P. syrin 100.0 1.2E-32 2.7E-37 242.2 9.4 111 1-111 1-119 (1153)
3 PF01582 TIR: TIR domain; Int 99.8 3.2E-22 7E-27 139.0 2.1 97 13-109 1-109 (141)
4 smart00255 TIR Toll - interleu 99.8 1.5E-20 3.2E-25 129.0 6.9 99 10-109 1-107 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 3E-19 6.4E-24 117.3 5.0 82 13-100 1-84 (102)
6 KOG3678 SARM protein (with ste 99.3 3.7E-12 7.9E-17 104.5 5.3 102 7-109 609-729 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.7 6.1E-09 1.3E-13 71.6 2.5 79 11-90 1-99 (130)
8 PF08357 SEFIR: SEFIR domain; 97.7 5E-05 1.1E-09 52.7 3.6 62 12-73 2-70 (150)
9 PF10137 TIR-like: Predicted n 96.4 0.007 1.5E-07 41.8 4.8 95 12-109 1-115 (125)
10 COG4916 Uncharacterized protei 91.9 0.21 4.6E-06 38.9 3.6 80 6-88 173-261 (329)
11 PF13271 DUF4062: Domain of un 91.6 0.37 8E-06 30.4 3.9 62 12-74 1-65 (83)
12 PF05014 Nuc_deoxyrib_tr: Nucl 86.1 3.3 7.1E-05 27.2 5.7 66 24-90 13-89 (113)
13 PF14258 DUF4350: Domain of un 80.9 8.6 0.00019 23.0 5.6 61 28-98 8-68 (70)
14 PRK13883 conjugal transfer pro 78.3 3.7 8.1E-05 29.3 3.8 33 11-46 53-85 (151)
15 COG4271 Predicted nucleotide-b 72.4 7.5 0.00016 29.3 4.2 92 12-107 84-199 (233)
16 cd00860 ThrRS_anticodon ThrRS 72.2 6.6 0.00014 24.0 3.4 35 11-46 2-36 (91)
17 cd07363 45_DOPA_Dioxygenase Th 70.9 16 0.00035 27.6 5.9 73 24-97 80-155 (253)
18 PF03129 HGTP_anticodon: Antic 70.7 3.9 8.4E-05 25.6 2.1 29 25-53 16-45 (94)
19 PF14359 DUF4406: Domain of un 65.0 18 0.0004 23.3 4.5 61 28-90 19-86 (92)
20 COG0809 QueA S-adenosylmethion 63.2 10 0.00022 30.5 3.5 73 25-107 186-262 (348)
21 cd00738 HGTP_anticodon HGTP an 56.9 27 0.00058 21.2 4.1 58 11-72 2-64 (94)
22 cd02426 Pol_gamma_b_Cterm C-te 53.8 10 0.00023 25.8 1.9 32 24-55 43-78 (128)
23 COG0710 AroD 3-dehydroquinate 53.3 48 0.001 25.2 5.6 66 26-94 80-146 (231)
24 PRK01424 S-adenosylmethionine: 52.8 21 0.00047 29.0 3.8 75 25-109 206-284 (366)
25 cd07373 2A5CPDO_A The alpha su 51.2 83 0.0018 24.0 6.7 65 24-89 90-160 (271)
26 PF02310 B12-binding: B12 bind 50.5 60 0.0013 20.8 5.2 58 27-92 17-77 (121)
27 cd00861 ProRS_anticodon_short 48.5 42 0.0009 20.6 4.0 22 25-46 18-39 (94)
28 cd06366 PBP1_GABAb_receptor Li 47.4 63 0.0014 24.6 5.6 57 13-69 138-198 (350)
29 TIGR01101 V_ATP_synt_F vacuola 46.7 21 0.00045 24.3 2.5 43 52-100 47-91 (115)
30 PRK01395 V-type ATP synthase s 45.8 31 0.00066 22.8 3.1 60 32-100 16-77 (104)
31 cd01423 MGS_CPS_I_III Methylgl 44.9 30 0.00066 22.6 3.1 30 13-44 3-32 (116)
32 cd00858 GlyRS_anticodon GlyRS 44.8 45 0.00097 22.0 3.9 36 9-45 25-62 (121)
33 COG3384 Aromatic ring-opening 43.9 1.2E+02 0.0025 23.8 6.4 74 24-98 92-167 (268)
34 cd06342 PBP1_ABC_LIVBP_like Ty 43.9 67 0.0014 24.0 5.2 57 13-69 138-196 (334)
35 cd06371 PBP1_sensory_GC_DEF_li 43.2 80 0.0017 24.8 5.7 61 14-74 136-201 (382)
36 PRK10628 LigB family dioxygena 41.8 1.2E+02 0.0027 23.1 6.3 82 15-99 62-146 (246)
37 PRK09194 prolyl-tRNA synthetas 41.6 27 0.0006 29.5 3.0 47 9-55 467-516 (565)
38 TIGR00113 queA S-adenosylmethi 41.0 39 0.00084 27.3 3.6 74 25-108 185-262 (344)
39 cd06340 PBP1_ABC_ligand_bindin 40.4 65 0.0014 24.7 4.7 63 12-74 146-210 (347)
40 PRK08350 hypothetical protein; 39.7 28 0.00061 28.1 2.6 32 9-40 280-311 (341)
41 TIGR00334 5S_RNA_mat_M5 ribonu 39.6 40 0.00088 24.6 3.2 39 25-64 36-76 (174)
42 PRK12325 prolyl-tRNA synthetas 39.5 34 0.00075 28.0 3.2 46 10-55 345-393 (439)
43 KOG0117 Heterogeneous nuclear 39.1 45 0.00099 28.0 3.7 83 4-104 120-203 (506)
44 cd07371 2A5CPDO_AB The alpha a 38.2 1.8E+02 0.0039 22.1 6.8 66 24-89 87-157 (268)
45 cd03028 GRX_PICOT_like Glutare 35.5 42 0.0009 21.0 2.5 27 64-90 8-36 (90)
46 cd03364 TOPRIM_DnaG_primases T 34.9 41 0.00089 20.4 2.3 10 37-46 44-53 (79)
47 PF12913 SH3_6: SH3 domain of 34.8 15 0.00032 21.7 0.3 17 11-27 27-43 (54)
48 COG1658 Small primase-like pro 34.4 54 0.0012 22.7 3.0 50 11-61 30-81 (127)
49 PRK00147 queA S-adenosylmethio 34.1 53 0.0012 26.5 3.4 74 25-108 184-261 (342)
50 cd06370 PBP1_Speract_GC_like L 32.8 1.4E+02 0.0031 23.5 5.7 31 20-50 146-176 (404)
51 PF12146 Hydrolase_4: Putative 32.5 72 0.0016 19.7 3.2 36 9-45 15-50 (79)
52 cd01424 MGS_CPS_II Methylglyox 32.0 65 0.0014 20.7 3.1 31 12-44 2-32 (110)
53 cd06335 PBP1_ABC_ligand_bindin 31.6 1.1E+02 0.0024 23.4 4.7 58 12-69 140-199 (347)
54 PF10159 MMtag: Kinase phospho 31.6 19 0.00042 22.9 0.4 12 105-116 33-44 (78)
55 KOG4520 Predicted coiled-coil 31.4 19 0.00042 26.9 0.5 20 93-116 31-51 (238)
56 PF00113 Enolase_C: Enolase, C 31.4 43 0.00094 26.3 2.4 32 10-41 228-259 (295)
57 COG0400 Predicted esterase [Ge 31.2 81 0.0018 23.3 3.8 48 8-56 144-193 (207)
58 cd00862 ProRS_anticodon_zinc P 31.0 64 0.0014 23.5 3.2 46 10-55 10-62 (202)
59 COG0683 LivK ABC-type branched 30.9 1.7E+02 0.0037 22.9 5.8 65 12-76 150-216 (366)
60 TIGR02298 HpaD_Fe 3,4-dihydrox 30.7 2.2E+02 0.0048 21.9 6.2 67 24-90 96-167 (282)
61 PRK03991 threonyl-tRNA synthet 30.4 48 0.001 28.7 2.7 45 10-55 499-544 (613)
62 TIGR00418 thrS threonyl-tRNA s 30.1 58 0.0013 27.3 3.2 45 9-57 469-513 (563)
63 cd06328 PBP1_SBP_like_2 Peripl 30.1 99 0.0022 23.5 4.3 58 12-69 138-197 (333)
64 PF01990 ATP-synt_F: ATP synth 30.0 53 0.0012 20.8 2.3 66 29-100 8-75 (95)
65 cd02042 ParA ParA and ParB of 29.5 1.4E+02 0.0031 18.4 6.4 72 13-88 3-84 (104)
66 cd06352 PBP1_NPR_GC_like Ligan 29.4 1.2E+02 0.0025 23.5 4.6 51 13-63 140-195 (389)
67 PRK08661 prolyl-tRNA synthetas 28.9 55 0.0012 27.2 2.8 46 10-55 287-339 (477)
68 PF13662 Toprim_4: Toprim doma 28.4 40 0.00086 20.6 1.5 17 25-41 61-77 (81)
69 cd06379 PBP1_iGluR_NMDA_NR1 N- 27.9 1.3E+02 0.0027 23.4 4.6 53 17-69 161-219 (377)
70 cd00859 HisRS_anticodon HisRS 27.0 61 0.0013 19.1 2.1 33 12-45 3-35 (91)
71 TIGR00409 proS_fam_II prolyl-t 26.8 40 0.00087 28.8 1.6 32 24-55 489-521 (568)
72 PF02337 Gag_p10: Retroviral G 26.4 55 0.0012 21.3 1.9 19 25-43 9-27 (90)
73 PF09886 DUF2113: Uncharacteri 25.5 2.8E+02 0.0061 20.5 6.0 56 20-90 127-185 (188)
74 cd06327 PBP1_SBP_like_1 Peripl 25.3 1.7E+02 0.0038 22.0 4.8 59 13-71 138-198 (334)
75 cd06338 PBP1_ABC_ligand_bindin 24.5 2.1E+02 0.0045 21.6 5.1 56 13-68 144-201 (345)
76 cd07367 CarBb CarBb is the B s 24.4 3.2E+02 0.007 20.8 6.6 67 24-90 90-162 (268)
77 cd06350 PBP1_GPCR_family_C_lik 24.2 1.2E+02 0.0026 22.9 3.7 52 13-64 163-218 (348)
78 PF13740 ACT_6: ACT domain; PD 24.2 1.3E+02 0.0029 18.0 3.3 28 13-41 3-30 (76)
79 COG4916 Uncharacterized protei 23.2 79 0.0017 24.9 2.5 90 8-99 4-100 (329)
80 cd06346 PBP1_ABC_ligand_bindin 23.0 2.3E+02 0.0049 21.2 5.0 57 13-69 140-198 (312)
81 PF09413 DUF2007: Domain of un 22.3 88 0.0019 18.2 2.2 20 27-46 12-31 (67)
82 PF12076 Wax2_C: WAX2 C-termin 22.2 49 0.0011 24.0 1.1 78 25-107 9-92 (164)
83 PF00308 Bac_DnaA: Bacterial d 22.0 1.4E+02 0.003 21.9 3.6 51 58-109 94-148 (219)
84 cd06363 PBP1_Taste_receptor Li 21.9 1.6E+02 0.0035 23.2 4.2 57 13-69 179-240 (410)
85 cd04893 ACT_GcvR_1 ACT domains 21.9 1.1E+02 0.0024 18.5 2.6 28 13-41 2-29 (77)
86 PRK14799 thrS threonyl-tRNA sy 21.6 87 0.0019 26.7 2.7 44 10-57 438-481 (545)
87 cd06365 PBP1_Pheromone_recepto 21.6 2.2E+02 0.0048 23.2 5.0 51 19-69 181-237 (469)
88 cd06334 PBP1_ABC_ligand_bindin 21.0 3.3E+02 0.0071 21.1 5.7 58 13-70 143-202 (351)
89 PF03618 Kinase-PPPase: Kinase 20.7 4E+02 0.0087 20.5 6.0 32 71-102 213-244 (255)
90 PRK14938 Ser-tRNA(Thr) hydrola 20.5 1E+02 0.0023 25.3 2.8 36 10-46 274-309 (387)
91 PF02547 Queuosine_synth: Queu 20.2 59 0.0013 26.2 1.3 74 24-107 183-260 (341)
92 PRK12305 thrS threonyl-tRNA sy 20.2 1E+02 0.0022 25.9 2.8 36 10-46 476-511 (575)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1.1e-34 Score=211.15 Aligned_cols=102 Identities=32% Similarity=0.613 Sum_probs=95.6
Q ss_pred CCCCCCceecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC-CCCCcccchhh--cccccceEEEEeecCCccchhh
Q 045928 3 SFSGNNKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISESL--AIKASAISVIIFSEDYASSRWC 79 (116)
Q Consensus 3 ~~~~~~~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc 79 (116)
++|+++.+|||||||+|.|++.+|++||+.+|+++||++|+|+. +++|+.+.+.| +|++|+++|+|||++|++|.||
T Consensus 19 ~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WC 98 (187)
T PLN03194 19 SSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFC 98 (187)
T ss_pred cCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhH
Confidence 45667799999999999999999999999999999999999997 99999999888 9999999999999999999999
Q ss_pred HHHHHHHHHhhhcCCCEEEe----cCCcccccc
Q 045928 80 LDELVEILECKKCCARNAES----SEPNNYRKI 108 (116)
Q Consensus 80 ~~El~~il~~~~~~~~~v~P----v~p~~vr~~ 108 (116)
++||.+|+++. ..|+| |+|+|||+|
T Consensus 99 LdEL~~I~e~~----~~ViPIFY~VdPsdVr~q 127 (187)
T PLN03194 99 LHELALIMESK----KRVIPIFCDVKPSQLRVV 127 (187)
T ss_pred HHHHHHHHHcC----CEEEEEEecCCHHHhhcc
Confidence 99999999874 46888 999999997
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.98 E-value=1.2e-32 Score=242.22 Aligned_cols=111 Identities=41% Similarity=0.681 Sum_probs=105.6
Q ss_pred CCCCCCC--CceecEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccccceEEEEeecCCccc
Q 045928 1 MASFSGN--NKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAISVIIFSEDYASS 76 (116)
Q Consensus 1 m~~~~~~--~~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S 76 (116)
||++||+ +++|||||||+|+|+|++|++||+.+|.++||++|.|+++++|+.+.+++ ||++|+++|+|||++|++|
T Consensus 1 ~~~~~~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s 80 (1153)
T PLN03210 1 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASS 80 (1153)
T ss_pred CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccc
Confidence 7777663 38999999999999999999999999999999999998899999999888 9999999999999999999
Q ss_pred hhhHHHHHHHHHhhhcCCCEEEe----cCCcccccccCC
Q 045928 77 RWCLDELVEILECKKCCARNAES----SEPNNYRKINDT 111 (116)
Q Consensus 77 ~wc~~El~~il~~~~~~~~~v~P----v~p~~vr~~~~~ 111 (116)
.||++||++|++|+++.+++|+| |+|+|||+|+|.
T Consensus 81 ~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~ 119 (1153)
T PLN03210 81 SWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGD 119 (1153)
T ss_pred hHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccch
Confidence 99999999999999999999999 999999999985
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.84 E-value=3.2e-22 Score=139.00 Aligned_cols=97 Identities=31% Similarity=0.523 Sum_probs=83.6
Q ss_pred EEEeceeccCccchHHHHHHHHhcC--CeeeeecCC-CCCCcccchhh--cccccceEEEEeecCCccchhhHHHHHHHH
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQ--NIQTFIDDQ-LNRGNEISESL--AIKASAISVIIFSEDYASSRWCLDELVEIL 87 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~--gi~vf~D~~-l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~il 87 (116)
|||||++.+.+..|+.+|.++|+++ |+++|++++ +.+|..+.+.+ +|++|++.|+|+|+||++|+||+.||..|+
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999333457999999999999 999999987 99999988888 999999999999999999999999999999
Q ss_pred HhhhcCC--CEEEe----cCCcccc-ccc
Q 045928 88 ECKKCCA--RNAES----SEPNNYR-KIN 109 (116)
Q Consensus 88 ~~~~~~~--~~v~P----v~p~~vr-~~~ 109 (116)
++..+.+ .+|+| |.+++++ .++
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~ 109 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQS 109 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhh
Confidence 9998754 89999 7788887 444
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.83 E-value=1.5e-20 Score=128.96 Aligned_cols=99 Identities=39% Similarity=0.647 Sum_probs=80.5
Q ss_pred eecEEEecee-ccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccccceEEEEeecCCccchhhHHHHHHH
Q 045928 10 KYDIFVSCSG-EDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAISVIIFSEDYASSRWCLDELVEI 86 (116)
Q Consensus 10 ~~dVFISy~~-~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~i 86 (116)
+|||||||++ ++....|+.+|...|...|+.+|.|+....|.... .| +|++|++.|+|+|++|+.|+||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 4899999999 44556899999999999999999997744443333 66 99999999999999999999999999999
Q ss_pred HHhhhc-CCCEEEec--C--Cccccccc
Q 045928 87 LECKKC-CARNAESS--E--PNNYRKIN 109 (116)
Q Consensus 87 l~~~~~-~~~~v~Pv--~--p~~vr~~~ 109 (116)
+++..+ ....|+|| + |.++.++.
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~ 107 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQP 107 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcc
Confidence 998765 56799993 2 44455443
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.77 E-value=3e-19 Score=117.29 Aligned_cols=82 Identities=28% Similarity=0.509 Sum_probs=69.4
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccccceEEEEeecCCccchhhHHHHHHHHHhh
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAISVIIFSEDYASSRWCLDELVEILECK 90 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~ 90 (116)
|||||+++|. .++..|...|+..|+++|+|.++.+|+.+.+.| +|++|+..|+++|++|..|+||..|+..+.+
T Consensus 1 VFIS~~~~D~--~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~-- 76 (102)
T PF13676_consen 1 VFISYSSEDR--EFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 8999999994 699999999999999999997799999999999 8999999999999999999999999998833
Q ss_pred hcCCCEEEec
Q 045928 91 KCCARNAESS 100 (116)
Q Consensus 91 ~~~~~~v~Pv 100 (116)
.+..|+||
T Consensus 77 --~~~~iipv 84 (102)
T PF13676_consen 77 --RGKPIIPV 84 (102)
T ss_dssp --TSESEEEE
T ss_pred --CCCEEEEE
Confidence 44578883
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.29 E-value=3.7e-12 Score=104.55 Aligned_cols=102 Identities=25% Similarity=0.305 Sum_probs=85.4
Q ss_pred CCceecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC-CCCCcccchhh-cccccceEEEEeecCCcc--------c
Q 045928 7 NNKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISESL-AIKASAISVIIFSEDYAS--------S 76 (116)
Q Consensus 7 ~~~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~--------S 76 (116)
+.++.||||||++. +...+++.|.-.|+.+|++||+|-+ +..|+.-...+ .|..++.+|+|++||... -
T Consensus 609 ~skq~DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGKFdssLlkni~aAkhFiLVLtP~sLDr~lnD~nCe 687 (832)
T KOG3678|consen 609 LSKQIDVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGKFDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCE 687 (832)
T ss_pred ccCCcceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhcccccHHHHHHHHhhheeEEEeCcchHHHHhccccHH
Confidence 34789999999877 4568999999999999999999998 99998877777 999999999999999742 5
Q ss_pred hhhHHHHHHHHHhhhcCCCEE-----Ee----cCCccccccc
Q 045928 77 RWCLDELVEILECKKCCARNA-----ES----SEPNNYRKIN 109 (116)
Q Consensus 77 ~wc~~El~~il~~~~~~~~~v-----~P----v~p~~vr~~~ 109 (116)
.|.+.||..+++++++..+++ +| +-|.|+|-++
T Consensus 688 DWVHKEl~~Afe~~KNIiPI~D~aFE~Pt~ed~iPnDirmi~ 729 (832)
T KOG3678|consen 688 DWVHKELKCAFEHQKNIIPIFDTAFEFPTKEDQIPNDIRMIT 729 (832)
T ss_pred HHHHHHHHHHHHhcCCeeeeecccccCCCchhcCcHHHHHHH
Confidence 788999999999998766554 45 5588887654
No 7
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=98.73 E-value=6.1e-09 Score=71.63 Aligned_cols=79 Identities=23% Similarity=0.367 Sum_probs=40.5
Q ss_pred ecEEEeceeccCccchHHHHHHHHhcC-------Ceee-ee---------cCC-CCCCcccchhh--cccccceEEEEee
Q 045928 11 YDIFVSCSGEDTCDSFTSHLYSALSRQ-------NIQT-FI---------DDQ-LNRGNEISESL--AIKASAISVIIFS 70 (116)
Q Consensus 11 ~dVFISy~~~D~~~~fv~~L~~~L~~~-------gi~v-f~---------D~~-l~~G~~~~~~i--~I~~s~~~Iiv~S 70 (116)
++|||||++.|.. .....|...+... ++.. |. +.. ....+.+...| +|..|.+.|++++
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5799999999854 3677777777653 2211 11 111 12233566777 8999999999999
Q ss_pred cCCccchhhHHHHHHHHHhh
Q 045928 71 EDYASSRWCLDELVEILECK 90 (116)
Q Consensus 71 ~~~~~S~wc~~El~~il~~~ 90 (116)
++...|.|+..|+..+++..
T Consensus 80 ~~T~~s~wV~~EI~~A~~~~ 99 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALKKG 99 (130)
T ss_dssp TT----HHHHHHHHHHTTT-
T ss_pred CCcccCcHHHHHHHHHHHCC
Confidence 99999999999999888743
No 8
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=97.66 E-value=5e-05 Score=52.74 Aligned_cols=62 Identities=21% Similarity=0.335 Sum_probs=47.1
Q ss_pred cEEEeceeccCc-cchHHHHHHHHhcC-CeeeeecCC-CCC--Ccccchhh--cccccceEEEEeecCC
Q 045928 12 DIFVSCSGEDTC-DSFTSHLYSALSRQ-NIQTFIDDQ-LNR--GNEISESL--AIKASAISVIIFSEDY 73 (116)
Q Consensus 12 dVFISy~~~D~~-~~fv~~L~~~L~~~-gi~vf~D~~-l~~--G~~~~~~i--~I~~s~~~Iiv~S~~~ 73 (116)
.|||||++.... ...|..|...|+.. |+.|.+|.- ... +.....=+ .++++...|+|.|+.+
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~ 70 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 599999985433 25588899999998 999999975 432 44444444 8999999999999544
No 9
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=96.44 E-value=0.007 Score=41.81 Aligned_cols=95 Identities=17% Similarity=0.202 Sum_probs=64.0
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecCC-CCCCcccchhh--cccccceEEEEeecCCc-------------c
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISESL--AIKASAISVIIFSEDYA-------------S 75 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~-------------~ 75 (116)
.|||.|+ +|. ..+..+...|+..|+.+-+=.+ ...|..+.+.+ ..+++..+|++++|+=. .
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 4899998 553 5788899999988887644333 68888888888 78899999999999621 1
Q ss_pred chhhHHHHHHHHHhh-hcCCCEEEe--c-CCccccccc
Q 045928 76 SRWCLDELVEILECK-KCCARNAES--S-EPNNYRKIN 109 (116)
Q Consensus 76 S~wc~~El~~il~~~-~~~~~~v~P--v-~p~~vr~~~ 109 (116)
-.-.+.|+.-.+... +++-..+.+ | .|+|+-.++
T Consensus 78 R~NVifE~G~f~g~LGr~rv~~l~~~~v~~PSDl~Gi~ 115 (125)
T PF10137_consen 78 RQNVIFELGLFIGKLGRERVFILVKGGVELPSDLSGIT 115 (125)
T ss_pred ccceeehhhHHHhhcCcceEEEEEcCCccCCcccCCeE
Confidence 234567887776653 222223333 2 277765443
No 10
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=91.91 E-value=0.21 Score=38.86 Aligned_cols=80 Identities=19% Similarity=0.198 Sum_probs=60.1
Q ss_pred CCCceecEEEeceeccCccchHHHHHHHHh--cCCeeeeecCC----CCCCcccchhh-c--ccccceEEEEeecCCccc
Q 045928 6 GNNKKYDIFVSCSGEDTCDSFTSHLYSALS--RQNIQTFIDDQ----LNRGNEISESL-A--IKASAISVIIFSEDYASS 76 (116)
Q Consensus 6 ~~~~~~dVFISy~~~D~~~~fv~~L~~~L~--~~gi~vf~D~~----l~~G~~~~~~i-~--I~~s~~~Iiv~S~~~~~S 76 (116)
++.+.||+=+||.|+- ++++.+....++ .-.+..|+|-. +-+| ++.+.+ . =..|++.++....+|..-
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~-sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPG-SLVSTLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCc-cHHHhcccccCceEEEEEEEeCCceEEe
Confidence 3568899999999985 479999999998 34467888854 3333 344444 2 257999999999999999
Q ss_pred hhhHHHHHHHHH
Q 045928 77 RWCLDELVEILE 88 (116)
Q Consensus 77 ~wc~~El~~il~ 88 (116)
.||.-|...+-+
T Consensus 250 ~~c~~E~~~~r~ 261 (329)
T COG4916 250 STCHIEGLEGRL 261 (329)
T ss_pred eeeccchhhccc
Confidence 999998876433
No 11
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=91.56 E-value=0.37 Score=30.41 Aligned_cols=62 Identities=16% Similarity=0.199 Sum_probs=41.5
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCC-Ccccchhh--cccccceEEEEeecCCc
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNR-GNEISESL--AIKASAISVIIFSEDYA 74 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~-G~~~~~~i--~I~~s~~~Iiv~S~~~~ 74 (116)
.||||-.-.|.. .--..|...+.+.|.....-+.+.. +..-.+.+ .|++|++.|.++-..|=
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG 65 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYG 65 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccC
Confidence 389998777764 3455788888877765533222322 23333333 89999999999999884
No 12
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=86.07 E-value=3.3 Score=27.20 Aligned_cols=66 Identities=14% Similarity=0.107 Sum_probs=47.4
Q ss_pred cchHHHHHHHHhcCCeeeeecCC--CC---CCcccchhh------cccccceEEEEeecCCccchhhHHHHHHHHHhh
Q 045928 24 DSFTSHLYSALSRQNIQTFIDDQ--LN---RGNEISESL------AIKASAISVIIFSEDYASSRWCLDELVEILECK 90 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~D~~--l~---~G~~~~~~i------~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~ 90 (116)
..+...+.+.|+++|+.+|...+ .. .+......| .|++|++.|+++...- .+.=+..|+..+....
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 46788999999999999988664 21 122233333 8999999999998755 5667888998876654
No 13
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=80.89 E-value=8.6 Score=22.96 Aligned_cols=61 Identities=20% Similarity=0.169 Sum_probs=37.5
Q ss_pred HHHHHHHhcCCeeeeecCCCCCCcccchhhcccccceEEEEeecCCccchhhHHHHHHHHHhhhcCCCEEE
Q 045928 28 SHLYSALSRQNIQTFIDDQLNRGNEISESLAIKASAISVIIFSEDYASSRWCLDELVEILECKKCCARNAE 98 (116)
Q Consensus 28 ~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~~~~~v~ 98 (116)
.-|+..|+++|+.|-.... ..+ +++...-.++++++.+.-+. ..++..+++..+..+.+|+
T Consensus 8 ~a~~~~L~~~g~~v~~~~~------~~~--~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK------PYE--ALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc------cHH--HhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 3477788888988843322 111 45557778999999966554 3455555555555555554
No 14
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=78.27 E-value=3.7 Score=29.29 Aligned_cols=33 Identities=18% Similarity=0.117 Sum_probs=24.3
Q ss_pred ecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC
Q 045928 11 YDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ 46 (116)
Q Consensus 11 ~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~ 46 (116)
.-+.|.. |+.+.|...|.++|+++|+-|--+..
T Consensus 53 Tt~~l~q---~~~D~Fg~aL~~aLR~~GYaV~e~~~ 85 (151)
T PRK13883 53 TRFELQQ---PTPDAFGQALVKALRDKGYALLEYNP 85 (151)
T ss_pred eEEEEec---CCCcHHHHHHHHHHHHcCeEEEecCC
Confidence 3455533 44558999999999999999865543
No 15
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=72.39 E-value=7.5 Score=29.30 Aligned_cols=92 Identities=17% Similarity=0.161 Sum_probs=60.5
Q ss_pred cEEEeceeccCccchHHHHHHHHh-cC-CeeeeecCCCCCCcccchhh--cccccceEEEEeecCCc-------------
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALS-RQ-NIQTFIDDQLNRGNEISESL--AIKASAISVIIFSEDYA------------- 74 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~-~~-gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~------------- 74 (116)
.|||-|+++. .+.-...+|. +- -..+|.|.-+..|+.+.+.+ .|++++.+|++.+|+=.
T Consensus 84 kvFvv~ghd~----iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~p 159 (233)
T COG4271 84 KVFVVSGHDA----IARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAFP 159 (233)
T ss_pred eEEEEeccHH----HHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhccc
Confidence 8999997653 4554445554 33 34578877688898888887 89999999999999843
Q ss_pred -cchhhHHHHHHHHHhhhcCCCEE-Ee----cC-Cccccc
Q 045928 75 -SSRWCLDELVEILECKKCCARNA-ES----SE-PNNYRK 107 (116)
Q Consensus 75 -~S~wc~~El~~il~~~~~~~~~v-~P----v~-p~~vr~ 107 (116)
.-.-...||.-.|.+.-+..-.+ .| |+ |||+-.
T Consensus 160 raRqNVifELGm~mgrLgRkrv~Il~k~~envelPSDi~G 199 (233)
T COG4271 160 RARQNVIFELGMFMGRLGRKRVMILMKRDENVELPSDIAG 199 (233)
T ss_pred cccccchhhHhhHHhhcccceEEEEecccccccCccccCc
Confidence 11225667777776654332222 23 32 776643
No 16
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=72.16 E-value=6.6 Score=24.01 Aligned_cols=35 Identities=14% Similarity=0.188 Sum_probs=25.8
Q ss_pred ecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC
Q 045928 11 YDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ 46 (116)
Q Consensus 11 ~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~ 46 (116)
++|+|...+.+. ...+..+...|++.|+++-+|..
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~ 36 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR 36 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC
Confidence 677776655433 35677899999999999988753
No 17
>cd07363 45_DOPA_Dioxygenase The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine. This subfamily is composed of plant 4,5-DOPA Dioxygenase, the uncharacterized Escherichia coli protein Jw3007, and similar proteins. 4,5-DOPA Dioxygenase catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine (4,5-DOPA). The reaction results in the opening of the cyclic ring between carbons 4 and 5 and producing an unstable seco-DOPA that rearranges to betalamic acid. 4,5-DOPA Dioxygenase is a key enzyme in the biosynthetic pathway of the plant pigment betalain. Homologs of DODA are present not only in betalain-producing plants but also in bacteria and archaea. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated ca
Probab=70.92 E-value=16 Score=27.58 Aligned_cols=73 Identities=14% Similarity=0.010 Sum_probs=51.5
Q ss_pred cchHHHHHHHHhcCCeeeeecCC--CCCCcccchhh-cccccceEEEEeecCCccchhhHHHHHHHHHhhhcCCCEE
Q 045928 24 DSFTSHLYSALSRQNIQTFIDDQ--LNRGNEISESL-AIKASAISVIIFSEDYASSRWCLDELVEILECKKCCARNA 97 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~D~~--l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~~~~~v 97 (116)
..++.+|.+.|.++|+.+-.+.+ +-.|-- .+.. ...+..+-|+.+|-|...+..-+.+|.+++...++.+-.|
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~-vPL~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~~~~v~i 155 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAW-VPLKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLRDEGVLI 155 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHH-HHHHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhhhCCEEE
Confidence 47999999999999998765442 444422 1221 3445688899999988877888889999998876543333
No 18
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=70.67 E-value=3.9 Score=25.57 Aligned_cols=29 Identities=24% Similarity=0.452 Sum_probs=22.1
Q ss_pred chHHHHHHHHhcCCeeeeecCC-CCCCccc
Q 045928 25 SFTSHLYSALSRQNIQTFIDDQ-LNRGNEI 53 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~ 53 (116)
.++.+|...|.++|+.+-+|.. ...|+.+
T Consensus 16 ~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~ 45 (94)
T PF03129_consen 16 EYAQELANKLRKAGIRVELDDSDKSLGKQI 45 (94)
T ss_dssp HHHHHHHHHHHHTTSEEEEESSSSTHHHHH
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCchhHHH
Confidence 5788999999999999988864 3333333
No 19
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=65.02 E-value=18 Score=23.34 Aligned_cols=61 Identities=11% Similarity=0.021 Sum_probs=41.0
Q ss_pred HHHHHHHhcCCeeeeecCCC--CCCcccchhh-----cccccceEEEEeecCCccchhhHHHHHHHHHhh
Q 045928 28 SHLYSALSRQNIQTFIDDQL--NRGNEISESL-----AIKASAISVIIFSEDYASSRWCLDELVEILECK 90 (116)
Q Consensus 28 ~~L~~~L~~~gi~vf~D~~l--~~G~~~~~~i-----~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~ 90 (116)
......|+.+|..|.---.+ ..|..+..-+ .+.+|+..++ =+++-.|.=|.-|...+....
T Consensus 19 ~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~lG 86 (92)
T PF14359_consen 19 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKKLG 86 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHHCC
Confidence 35778888999766432223 5555554433 6777775433 499999999999998776553
No 20
>COG0809 QueA S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (queuine synthetase) [Translation, ribosomal structure and biogenesis]
Probab=63.21 E-value=10 Score=30.54 Aligned_cols=73 Identities=15% Similarity=0.259 Sum_probs=49.8
Q ss_pred chHHHHHHHHhcCCee-eeecCCCCCCcccchhh-cccccceEEEEeecCCccchhh--HHHHHHHHHhhhcCCCEEEec
Q 045928 25 SFTSHLYSALSRQNIQ-TFIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWC--LDELVEILECKKCCARNAESS 100 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~-vf~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc--~~El~~il~~~~~~~~~v~Pv 100 (116)
.|...|.+.|.++|+. .|+.-+.-.|....-.. .|++-++. ++|+ .+|...+++..++.|.+|+-|
T Consensus 186 HFt~~LL~kLk~kGv~~afvTLHVGaGTF~pV~~~~i~eH~MH----------~E~~~v~~eta~~i~~~k~~GgRIiaV 255 (348)
T COG0809 186 HFTEELLEKLKAKGVEIAFVTLHVGAGTFRPVKVENIEEHKMH----------SEYYEVPQETADAINAAKARGGRIIAV 255 (348)
T ss_pred CCCHHHHHHHHHCCceEEEEEEEecccccccceeccccccccc----------hhheecCHHHHHHHHHHHHcCCeEEEE
Confidence 6888999999999987 45543333343333333 45555543 6666 468899999999999999987
Q ss_pred CCccccc
Q 045928 101 EPNNYRK 107 (116)
Q Consensus 101 ~p~~vr~ 107 (116)
...-+|.
T Consensus 256 GTTs~R~ 262 (348)
T COG0809 256 GTTSVRT 262 (348)
T ss_pred cchhHHH
Confidence 6666655
No 21
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=56.93 E-value=27 Score=21.24 Aligned_cols=58 Identities=19% Similarity=0.317 Sum_probs=34.4
Q ss_pred ecEEEeceec---cCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccccceEEEEeecC
Q 045928 11 YDIFVSCSGE---DTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAISVIIFSED 72 (116)
Q Consensus 11 ~dVFISy~~~---D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~ 72 (116)
++|+|-..+. .. ...+..+...|++.|+.+-+|.. +..+...+ +-..---.++++.++
T Consensus 2 ~~v~ii~~~~~~~~~-~~~a~~~~~~Lr~~g~~v~~~~~---~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVEA-REYAQKLLNALLANGIRVLYDDR---ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHHH-HHHHHHHHHHHHHCCCEEEecCC---CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 5666665433 22 35777899999999999988753 23444444 222222456666653
No 22
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=53.77 E-value=10 Score=25.82 Aligned_cols=32 Identities=6% Similarity=0.053 Sum_probs=25.7
Q ss_pred cchHHHHHHHHhcCCeeeeecCCC----CCCcccch
Q 045928 24 DSFTSHLYSALSRQNIQTFIDDQL----NRGNEISE 55 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~D~~l----~~G~~~~~ 55 (116)
...+.+|++.|...|+.|..|.+. .+|..+.+
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~ 78 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDK 78 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHh
Confidence 467889999999999999998763 57777643
No 23
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=53.31 E-value=48 Score=25.18 Aligned_cols=66 Identities=15% Similarity=0.143 Sum_probs=42.5
Q ss_pred hHHHHHHHHhcCCeeeeecCCCCCCcccchhh-cccccceEEEEeecCCccchhhHHHHHHHHHhhhcCC
Q 045928 26 FTSHLYSALSRQNIQTFIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWCLDELVEILECKKCCA 94 (116)
Q Consensus 26 fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~~~ 94 (116)
.+..|.+....+| .-|+|-++..++....++ .+..-.. +|+|-|...+.+.++|+..++......+
T Consensus 80 ~i~ll~~la~~~~-~d~iDiEl~~~~~~~~~~~~~~~~~~--vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 80 YIELLKKLAELNG-PDYIDIELSSPEDDVKEIIKFAKKHG--VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHhhcC-CCEEEEEccCcchhHHHHHhccccCC--EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 4445555555556 567887744443332333 3322222 8899999999999999999999887655
No 24
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=52.85 E-value=21 Score=28.96 Aligned_cols=75 Identities=21% Similarity=0.356 Sum_probs=47.3
Q ss_pred chHHHHHHHHhcCCeee-eecCCCCCCcccchhh-cccccceEEEEeecCCccchhh--HHHHHHHHHhhhcCCCEEEec
Q 045928 25 SFTSHLYSALSRQNIQT-FIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWC--LDELVEILECKKCCARNAESS 100 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~v-f~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc--~~El~~il~~~~~~~~~v~Pv 100 (116)
.|...|.+.|+++|+.+ ++--+.-.|....-.. .|++-+. .++|| -+|...+++..+..|.+|+.|
T Consensus 206 HFT~~ll~~L~~kGv~~a~vTLHVG~GTF~PV~~e~i~~H~M----------H~E~~~I~~eta~~In~ak~~G~RIiAV 275 (366)
T PRK01424 206 HFTKDILDKLKAKGIQTAFLTLHVGAGTFLPVKTENIHEHKM----------HTEYCSITPETAEIINKAKQEGRRIIAV 275 (366)
T ss_pred CCCHHHHHHHHHCCCeEEEEEEeecCCCCcCccccccccCCc----------cceEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 68889999999999975 3332233332221111 3333333 35555 368888888888888899987
Q ss_pred CCccccccc
Q 045928 101 EPNNYRKIN 109 (116)
Q Consensus 101 ~p~~vr~~~ 109 (116)
...-+|.+.
T Consensus 276 GTT~vRaLE 284 (366)
T PRK01424 276 GTTTLRTLE 284 (366)
T ss_pred ecceeeeeh
Confidence 666666543
No 25
>cd07373 2A5CPDO_A The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO) catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the alpha subunit, which does not contain a potential metal binding site and may not possess catalytic activity.
Probab=51.19 E-value=83 Score=24.00 Aligned_cols=65 Identities=14% Similarity=0.196 Sum_probs=45.8
Q ss_pred cchHHHHHHHHhcCCeeee-ecCC---CCCCcccchhhc--ccccceEEEEeecCCccchhhHHHHHHHHHh
Q 045928 24 DSFTSHLYSALSRQNIQTF-IDDQ---LNRGNEISESLA--IKASAISVIIFSEDYASSRWCLDELVEILEC 89 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf-~D~~---l~~G~~~~~~i~--I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~ 89 (116)
..++.++.+.+.+.|+.+- .|.+ +-.|-- .+..- -...++-|+.+|.+...+...+.+|.+++..
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~-vPL~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~ 160 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTI-TACTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAAD 160 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhH-HHHHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 4789999999999999885 5542 333421 11112 2356777888998887788888899998885
No 26
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=50.48 E-value=60 Score=20.80 Aligned_cols=58 Identities=21% Similarity=0.164 Sum_probs=34.6
Q ss_pred HHHHHHHHhcCCeee-eecCCCCCCcccchhh--cccccceEEEEeecCCccchhhHHHHHHHHHhhhc
Q 045928 27 TSHLYSALSRQNIQT-FIDDQLNRGNEISESL--AIKASAISVIIFSEDYASSRWCLDELVEILECKKC 92 (116)
Q Consensus 27 v~~L~~~L~~~gi~v-f~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~ 92 (116)
...|...|+++|+.| ++|-.... +.+ .+.+.+--++.+|-.+. |...++.++.+..++
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~---~~~~~~~~l~~~~k~ 77 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMT---PNLPEAKRLARAIKE 77 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSS---THHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCc---CcHHHHHHHHHHHHh
Confidence 457888999999987 44432221 333 56666766777776543 344555555555444
No 27
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=48.53 E-value=42 Score=20.56 Aligned_cols=22 Identities=23% Similarity=0.607 Sum_probs=18.7
Q ss_pred chHHHHHHHHhcCCeeeeecCC
Q 045928 25 SFTSHLYSALSRQNIQTFIDDQ 46 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~vf~D~~ 46 (116)
..+..|...|+..|+++.+|..
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~ 39 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDR 39 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECC
Confidence 5677899999999999988764
No 28
>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=47.36 E-value=63 Score=24.62 Aligned_cols=57 Identities=18% Similarity=0.246 Sum_probs=36.2
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC---cccchhh-cccccceEEEEe
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG---NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G---~~~~~~i-~I~~s~~~Iiv~ 69 (116)
|.+-|...+.....+..+.+.|+++|+.+-....+.+| ..+.+.+ .|.++.--++++
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~ 198 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVV 198 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEE
Confidence 55555544444567888999999999887554446665 4566666 776544434443
No 29
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=46.70 E-value=21 Score=24.28 Aligned_cols=43 Identities=14% Similarity=0.254 Sum_probs=30.5
Q ss_pred ccchhh--cccccceEEEEeecCCccchhhHHHHHHHHHhhhcCCCEEEec
Q 045928 52 EISESL--AIKASAISVIIFSEDYASSRWCLDELVEILECKKCCARNAESS 100 (116)
Q Consensus 52 ~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~~~~~v~Pv 100 (116)
.+.+.+ .+.+..+.|++++.+.++ ++...++..++..+.|+++
T Consensus 47 ei~~~~~~~l~~~digIIlIte~~a~------~i~~~I~~~~~~~PaIieI 91 (115)
T TIGR01101 47 EIEDCFNRFLKRDDIAIILINQHIAE------MIRHAVDAHTRSIPAVLEI 91 (115)
T ss_pred HHHHHHHHHhhcCCeEEEEEcHHHHH------HhHHHHHhcCCcCCEEEEE
Confidence 444555 377889999999998664 6666666666667777765
No 30
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=45.76 E-value=31 Score=22.83 Aligned_cols=60 Identities=15% Similarity=0.126 Sum_probs=36.2
Q ss_pred HHHhcCCeeeeecCCCCCCcccchhh-cccccceEEEEeecCCccchhhHHHHHHHHHhhh-cCCCEEEec
Q 045928 32 SALSRQNIQTFIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWCLDELVEILECKK-CCARNAESS 100 (116)
Q Consensus 32 ~~L~~~gi~vf~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~-~~~~~v~Pv 100 (116)
--|+..|+.+|.-. ..+.....+ .+.+-++.|++++++.+. ++...++..+ ...+.|+|+
T Consensus 16 ~GFrLaGi~~~~v~---~~ee~~~~i~~l~~~d~gII~Ite~~a~------~i~~~i~~~~~~~~P~Il~I 77 (104)
T PRK01395 16 LPFKALGIDVFPVI---DEQEAINTLRKLAMEDYGIIYITEQIAA------DIPETIERYDNQVLPAIILI 77 (104)
T ss_pred HHHHHcCCeeEEec---ChHHHHHHHHHHhcCCcEEEEEcHHHHH------HhHHHHHHhcCCCCCEEEEe
Confidence 34566788776532 223444455 455668999999998664 4444444333 356777774
No 31
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=44.90 E-value=30 Score=22.63 Aligned_cols=30 Identities=13% Similarity=0.060 Sum_probs=23.1
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeec
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFID 44 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D 44 (116)
||||....|.. -...+...|...|++++--
T Consensus 3 vlisv~~~dk~--~~~~~a~~l~~~G~~i~aT 32 (116)
T cd01423 3 ILISIGSYSKP--ELLPTAQKLSKLGYKLYAT 32 (116)
T ss_pred EEEecCcccch--hHHHHHHHHHHCCCEEEEc
Confidence 79999887743 3557888899999998653
No 32
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=44.84 E-value=45 Score=22.02 Aligned_cols=36 Identities=11% Similarity=0.063 Sum_probs=26.6
Q ss_pred ceecEEEecee--ccCccchHHHHHHHHhcCCeeeeecC
Q 045928 9 KKYDIFVSCSG--EDTCDSFTSHLYSALSRQNIQTFIDD 45 (116)
Q Consensus 9 ~~~dVFISy~~--~D~~~~fv~~L~~~L~~~gi~vf~D~ 45 (116)
..++|||-..+ .+. ...+..|...|++.|++|-+|.
T Consensus 25 ap~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~ 62 (121)
T cd00858 25 APIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDD 62 (121)
T ss_pred CCcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeC
Confidence 35788877755 322 3567789999999999998875
No 33
>COG3384 Aromatic ring-opening dioxygenase, catalytic LigB subunit related enzyme [Amino acid transport and metabolism]
Probab=43.90 E-value=1.2e+02 Score=23.79 Aligned_cols=74 Identities=15% Similarity=0.027 Sum_probs=57.1
Q ss_pred cchHHHHHHHHhcCCeeeeecCC-CCCCcccchhh-cccccceEEEEeecCCccchhhHHHHHHHHHhhhcCCCEEE
Q 045928 24 DSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISESL-AIKASAISVIIFSEDYASSRWCLDELVEILECKKCCARNAE 98 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~~~~~v~ 98 (116)
...+..|.+.|...|+..=-.+. +..| .|.+.. ...+.++-|+=+|-+-..|.-+..||.+++...++.+-.|+
T Consensus 92 peLa~~i~~~l~~~~v~a~~~~~gLDHG-twvpL~~M~PdadipVV~iSi~~~~~~~~h~~lG~al~~lree~vlil 167 (268)
T COG3384 92 PELAQRIVELLAKLGVPADAPSWGLDHG-TWVPLRYMFPDADIPVVQISIDCTLSPADHYELGRALRKLREEGVLIL 167 (268)
T ss_pred HHHHHHHHHHhcccCccccCCccCCCcc-ceeeehhhCCccCCcEEEEecCCCCCHHHHHHHHHHHHHHHhCCEEEE
Confidence 47899999999989987532233 7777 344444 77889999999999988899999999999998887664443
No 34
>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=43.85 E-value=67 Score=24.03 Aligned_cols=57 Identities=16% Similarity=0.211 Sum_probs=34.7
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEe
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~ 69 (116)
|.+-|...+.....+..|.+.|+++|+++-....+.+| ..+...+ .+.++..-++++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~l~~i~~~~~~~vi~ 196 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFSAILTKIKAANPDAVFF 196 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHHHHHHHHHhcCCCEEEE
Confidence 54445444444466778888888889887444335544 5566666 777655544444
No 35
>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=43.21 E-value=80 Score=24.84 Aligned_cols=61 Identities=13% Similarity=0.177 Sum_probs=33.6
Q ss_pred EEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-ccccc---ceEEEEeecCCc
Q 045928 14 FVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKAS---AISVIIFSEDYA 74 (116)
Q Consensus 14 FISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s---~~~Iiv~S~~~~ 74 (116)
.|-|...|........|.+.|+++|+.+-....+..+ ..+.+.+ .|+.. ++.|+.....+.
T Consensus 136 aii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~ 201 (382)
T cd06371 136 AIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLI 201 (382)
T ss_pred EEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeecccc
Confidence 3334433322345777888888888876443334434 4556666 67653 444444444443
No 36
>PRK10628 LigB family dioxygenase; Provisional
Probab=41.84 E-value=1.2e+02 Score=23.12 Aligned_cols=82 Identities=10% Similarity=0.046 Sum_probs=59.1
Q ss_pred EeceeccCccchHHHHHHHHhcCCeeeeecC-C-CCCCcccchhh-cccccceEEEEeecCCccchhhHHHHHHHHHhhh
Q 045928 15 VSCSGEDTCDSFTSHLYSALSRQNIQTFIDD-Q-LNRGNEISESL-AIKASAISVIIFSEDYASSRWCLDELVEILECKK 91 (116)
Q Consensus 15 ISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~-~-l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~ 91 (116)
+.|..... ..++..+.+.|++.|+.. .+. + +-.|. |.+.. .-.++++=|+-+|-+...+.-.+.+|.++|...+
T Consensus 62 ~~Ypa~G~-p~LA~~i~~ll~~~~~~~-~~~~rGlDHG~-WvpL~~m~P~adIPVvqlSl~~~~~~~~h~~lG~aL~~LR 138 (246)
T PRK10628 62 THYPAPGS-PALAQRLVELLAPVPVTL-DKEAWGFDHGS-WGVLIKMYPDADIPMVQLSIDSTKPAAWHFEMGRKLAALR 138 (246)
T ss_pred ecCCCCCC-HHHHHHHHHHhhhcCccc-CCcccCcccch-hhhhhhhCCCCCCCeEEeecCCCCCHHHHHHHHHHHHhhc
Confidence 56665544 478999999999888843 222 3 55662 33333 6667888899999888888888899999999888
Q ss_pred cCCCEEEe
Q 045928 92 CCARNAES 99 (116)
Q Consensus 92 ~~~~~v~P 99 (116)
+.+-.|+=
T Consensus 139 ~~gvLIig 146 (246)
T PRK10628 139 DEGIMLVA 146 (246)
T ss_pred cCCEEEEe
Confidence 76655553
No 37
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=41.61 E-value=27 Score=29.51 Aligned_cols=47 Identities=17% Similarity=0.460 Sum_probs=33.3
Q ss_pred ceecEEEecee--ccCccchHHHHHHHHhcCCeeeeecCC-CCCCcccch
Q 045928 9 KKYDIFVSCSG--EDTCDSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISE 55 (116)
Q Consensus 9 ~~~dVFISy~~--~D~~~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~ 55 (116)
..++|+|---. .+.....+..|++.|+..|+++.+|++ -..|..+.+
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ 516 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFAD 516 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHH
Confidence 45788876543 222346788999999999999999976 455655544
No 38
>TIGR00113 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase. This model describes the enzyme for S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA). QueA synthesizes Queuosine which is usually in the first position of the anticodon of tRNAs specific for asparagine, aspartate, histidine, and tyrosine.
Probab=41.00 E-value=39 Score=27.27 Aligned_cols=74 Identities=18% Similarity=0.240 Sum_probs=45.3
Q ss_pred chHHHHHHHHhcCCeee-eecCCCCCCcccchhh-cccccceEEEEeecCCccchhh--HHHHHHHHHhhhcCCCEEEec
Q 045928 25 SFTSHLYSALSRQNIQT-FIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWC--LDELVEILECKKCCARNAESS 100 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~v-f~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc--~~El~~il~~~~~~~~~v~Pv 100 (116)
.|...|.+.|.++|+.+ ++--+.-.|....-.. .|++-+. .++|| -+|...+++..+..|.+|+.|
T Consensus 185 HFt~~ll~~l~~kGv~~a~vTLHVG~GTF~PV~~e~i~~H~m----------H~E~~~v~~~ta~~i~~ak~~G~RIiAV 254 (344)
T TIGR00113 185 HFSEELLEKLKAKGVQYAFITLHVGAGTFRPVEADNIEDHVM----------HAEYYEVPQETVEALNKTRENGGRIIAV 254 (344)
T ss_pred CCCHHHHHHHHHCCCeEEEEEEeecCCCCcCccccccccCCc----------ccEEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 68889999999999875 3322222232211111 2333332 34444 368888888888888899997
Q ss_pred CCcccccc
Q 045928 101 EPNNYRKI 108 (116)
Q Consensus 101 ~p~~vr~~ 108 (116)
...-+|.+
T Consensus 255 GTT~vRaL 262 (344)
T TIGR00113 255 GTTSVRSL 262 (344)
T ss_pred ccceehhe
Confidence 66666654
No 39
>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=40.37 E-value=65 Score=24.70 Aligned_cols=63 Identities=8% Similarity=0.088 Sum_probs=39.8
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEeecCCc
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIFSEDYA 74 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~S~~~~ 74 (116)
.|.+-+...+-....+..+...+++.|+.|-....+..+ .++...+ .|.+++.-++++.-...
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~i~~l~~~~~d~v~~~~~~~ 210 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTSEVLKLKAANPDAILPASYTN 210 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHHHHHHHHhcCCCEEEEcccch
Confidence 455555433333467777888888999887544445544 5666667 78777776666655443
No 40
>PRK08350 hypothetical protein; Provisional
Probab=39.73 E-value=28 Score=28.06 Aligned_cols=32 Identities=13% Similarity=0.153 Sum_probs=28.3
Q ss_pred ceecEEEeceeccCccchHHHHHHHHhcCCee
Q 045928 9 KKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQ 40 (116)
Q Consensus 9 ~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~ 40 (116)
..|.+.+|||+-++.++|+.||.-+|...-|+
T Consensus 280 ~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 280 ERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred cCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 45789999999999999999999999877776
No 41
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=39.64 E-value=40 Score=24.59 Aligned_cols=39 Identities=13% Similarity=0.178 Sum_probs=30.6
Q ss_pred chHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccccce
Q 045928 25 SFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAI 64 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~ 64 (116)
.-...|..+...+|+-+|.|.+ .+|+.|...| .+.+++.
T Consensus 36 ~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~kh 76 (174)
T TIGR00334 36 ETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYEN 76 (174)
T ss_pred HHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeE
Confidence 4566777888899999999976 6788888887 6776664
No 42
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=39.55 E-value=34 Score=28.00 Aligned_cols=46 Identities=24% Similarity=0.460 Sum_probs=31.1
Q ss_pred eecEEEecee--ccCccchHHHHHHHHhcCCeeeeecCC-CCCCcccch
Q 045928 10 KYDIFVSCSG--EDTCDSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISE 55 (116)
Q Consensus 10 ~~dVFISy~~--~D~~~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~ 55 (116)
.++|+|---+ .+.....+..|+..|.+.|++|.+|.+ -..|..+..
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~ki~~ 393 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAKFAT 393 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHHHHH
Confidence 4678765432 222345788999999999999999876 445555443
No 43
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=39.05 E-value=45 Score=28.03 Aligned_cols=83 Identities=13% Similarity=0.209 Sum_probs=48.3
Q ss_pred CCCCCceecEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhhcccccceEEEEeecCCccchhhHHHH
Q 045928 4 FSGNNKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESLAIKASAISVIIFSEDYASSRWCLDEL 83 (116)
Q Consensus 4 ~~~~~~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i~I~~s~~~Iiv~S~~~~~S~wc~~El 83 (116)
.|+.++- -.|+-|+++|.....+ ..|+. .+|++|+.+.-.+.+.+||.+|-=+-++ |-.+|+
T Consensus 120 ~sG~nRG-YAFVtf~~Ke~Aq~Ai----k~lnn--------~Eir~GK~igvc~Svan~RLFiG~IPK~-----k~keeI 181 (506)
T KOG0117|consen 120 FSGDNRG-YAFVTFCTKEEAQEAI----KELNN--------YEIRPGKLLGVCVSVANCRLFIGNIPKT-----KKKEEI 181 (506)
T ss_pred cCCCCcc-eEEEEeecHHHHHHHH----HHhhC--------ccccCCCEeEEEEeeecceeEeccCCcc-----ccHHHH
Confidence 3444443 3789998887543322 22222 2356777766555778888888777775 555777
Q ss_pred HHHHHhhhcC-CCEEEecCCcc
Q 045928 84 VEILECKKCC-ARNAESSEPNN 104 (116)
Q Consensus 84 ~~il~~~~~~-~~~v~Pv~p~~ 104 (116)
.+.++.--+. -.++++-+|.|
T Consensus 182 lee~~kVteGVvdVivy~~p~d 203 (506)
T KOG0117|consen 182 LEEMKKVTEGVVDVIVYPSPDD 203 (506)
T ss_pred HHHHHhhCCCeeEEEEecCccc
Confidence 6655554332 23445545555
No 44
>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=38.18 E-value=1.8e+02 Score=22.13 Aligned_cols=66 Identities=9% Similarity=0.049 Sum_probs=41.6
Q ss_pred cchHHHHHHHHhcCCeeeee--cCC--CCCCcccchhhcccccceEEEEeecCC-ccchhhHHHHHHHHHh
Q 045928 24 DSFTSHLYSALSRQNIQTFI--DDQ--LNRGNEISESLAIKASAISVIIFSEDY-ASSRWCLDELVEILEC 89 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~--D~~--l~~G~~~~~~i~I~~s~~~Iiv~S~~~-~~S~wc~~El~~il~~ 89 (116)
..++.+|.+.|.+.|+.+-. +.+ +-.|.-+.-...-.+.++-++.+|-+. ..+..-+.+|.+++..
T Consensus 87 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ipvV~vs~~~~~~~~~~~~~lG~al~~ 157 (268)
T cd07371 87 VELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLMRPGTDIPPVVISANNLYLSGEETEGEMDLAGK 157 (268)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHhcCCCCCCeEEEEecCcCCCHHHHHHHHHHHHH
Confidence 47999999999999998764 222 344422211112234566667777444 3567777788888863
No 45
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=35.52 E-value=42 Score=21.00 Aligned_cols=27 Identities=22% Similarity=0.313 Sum_probs=17.2
Q ss_pred eEEEEeecCCccchhhHH--HHHHHHHhh
Q 045928 64 ISVIIFSEDYASSRWCLD--ELVEILECK 90 (116)
Q Consensus 64 ~~Iiv~S~~~~~S~wc~~--El~~il~~~ 90 (116)
.-|+|||+.+.+.+||.. .+.++|+..
T Consensus 8 ~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~ 36 (90)
T cd03028 8 NPVVLFMKGTPEEPRCGFSRKVVQILNQL 36 (90)
T ss_pred CCEEEEEcCCCCCCCCcHHHHHHHHHHHc
Confidence 346777887777777764 555555543
No 46
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=34.92 E-value=41 Score=20.41 Aligned_cols=10 Identities=10% Similarity=0.225 Sum_probs=5.0
Q ss_pred CCeeeeecCC
Q 045928 37 QNIQTFIDDQ 46 (116)
Q Consensus 37 ~gi~vf~D~~ 46 (116)
+.+.++.|.+
T Consensus 44 ~~vii~~D~D 53 (79)
T cd03364 44 KEVILAFDGD 53 (79)
T ss_pred CeEEEEECCC
Confidence 4455555544
No 47
>PF12913 SH3_6: SH3 domain of the SH3b1 type; PDB: 3M1U_B.
Probab=34.77 E-value=15 Score=21.72 Aligned_cols=17 Identities=12% Similarity=0.288 Sum_probs=12.4
Q ss_pred ecEEEeceeccCccchH
Q 045928 11 YDIFVSCSGEDTCDSFT 27 (116)
Q Consensus 11 ~dVFISy~~~D~~~~fv 27 (116)
.=|+|+|.++|.++.||
T Consensus 27 tPv~i~H~S~D~~W~fV 43 (54)
T PF12913_consen 27 TPVYILHTSRDGAWAFV 43 (54)
T ss_dssp -EEEEEEE-TTSSEEEE
T ss_pred CCEEEEEECCCCCEEEE
Confidence 34899999999887664
No 48
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=34.44 E-value=54 Score=22.67 Aligned_cols=50 Identities=10% Similarity=0.157 Sum_probs=34.0
Q ss_pred ecEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccc
Q 045928 11 YDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKA 61 (116)
Q Consensus 11 ~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~ 61 (116)
.++|+-..+.-....++..|..++..+|+-++.|.+ .+|+.+...+ .+..
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~ 81 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPG 81 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcc
Confidence 456665554322235778888888899998888865 5677777766 5554
No 49
>PRK00147 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=34.07 E-value=53 Score=26.46 Aligned_cols=74 Identities=16% Similarity=0.311 Sum_probs=44.0
Q ss_pred chHHHHHHHHhcCCeee-eecCCCCCCcccchhh-cccccceEEEEeecCCccchhh--HHHHHHHHHhhhcCCCEEEec
Q 045928 25 SFTSHLYSALSRQNIQT-FIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWC--LDELVEILECKKCCARNAESS 100 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~v-f~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc--~~El~~il~~~~~~~~~v~Pv 100 (116)
.|...|.+.|.++|+.+ ++--+.-.|....-.. -|++-+. .++|+ .+|...+++..+..|.+|+.|
T Consensus 184 HFt~~ll~~L~~kGv~~a~vTLHVG~GTF~PV~~edi~~H~m----------H~E~~~I~~~ta~~i~~ak~~G~rIiAV 253 (342)
T PRK00147 184 HFTEELLEKLKAKGVEIAFVTLHVGAGTFRPVRVEDIEEHKM----------HSEWYEVPQETADAINAAKARGGRVIAV 253 (342)
T ss_pred CCCHHHHHHHHHCCCcEEEEEEeecCCCCcCcccCccccCCc----------ccEEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 68889999999999875 3332222332211111 2232222 24444 367778888888778888887
Q ss_pred CCcccccc
Q 045928 101 EPNNYRKI 108 (116)
Q Consensus 101 ~p~~vr~~ 108 (116)
...-+|.+
T Consensus 254 GTT~vRaL 261 (342)
T PRK00147 254 GTTSVRTL 261 (342)
T ss_pred cccchhhH
Confidence 66656553
No 50
>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=32.84 E-value=1.4e+02 Score=23.47 Aligned_cols=31 Identities=13% Similarity=-0.017 Sum_probs=19.5
Q ss_pred ccCccchHHHHHHHHhcCCeeeeecCCCCCC
Q 045928 20 EDTCDSFTSHLYSALSRQNIQTFIDDQLNRG 50 (116)
Q Consensus 20 ~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G 50 (116)
.+-.......+.+.|+++|+.+-....+..+
T Consensus 146 ~~~g~~~~~~~~~~~~~~g~~iv~~~~~~~~ 176 (404)
T cd06370 146 DSKYSSVFETLKEEAELRNITISHVEYYADF 176 (404)
T ss_pred CcccHHHHHHHHHHHHHcCCEEEEEEEECCC
Confidence 3333456777888888888887444335554
No 51
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=32.51 E-value=72 Score=19.65 Aligned_cols=36 Identities=19% Similarity=0.153 Sum_probs=27.8
Q ss_pred ceecEEEeceeccCccchHHHHHHHHhcCCeeeeecC
Q 045928 9 KKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDD 45 (116)
Q Consensus 9 ~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~ 45 (116)
.+--|+|.|--.+.. ..-.+|.+.|.++|+.|+.-+
T Consensus 15 ~k~~v~i~HG~~eh~-~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEHS-GRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHHH-HHHHHHHHHHHhCCCEEEEEC
Confidence 477889998765543 456689999999999998754
No 52
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=32.02 E-value=65 Score=20.74 Aligned_cols=31 Identities=13% Similarity=0.214 Sum_probs=22.3
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeec
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFID 44 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D 44 (116)
.||+|.+..|.. -...+...|...|++++--
T Consensus 2 ~vl~s~~~~~k~--~~~~~~~~l~~~G~~l~aT 32 (110)
T cd01424 2 TVFISVADRDKP--EAVEIAKRLAELGFKLVAT 32 (110)
T ss_pred eEEEEEEcCcHh--HHHHHHHHHHHCCCEEEEc
Confidence 388999877643 3447777888888888654
No 53
>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=31.62 E-value=1.1e+02 Score=23.43 Aligned_cols=58 Identities=19% Similarity=0.254 Sum_probs=33.6
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEe
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~ 69 (116)
.|.|-|...+-....+..+.+.|++.|+.+-....+.++ .++.+.+ .|.++..-++++
T Consensus 140 ~v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~s~~i~~i~~~~~d~v~~ 199 (347)
T cd06335 140 KVALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWGDKDMTAQLLRAKAAGADAIII 199 (347)
T ss_pred eEEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCCCccHHHHHHHHHhCCCCEEEE
Confidence 455555444444567778888888888876433334444 4566666 666655433333
No 54
>PF10159 MMtag: Kinase phosphorylation protein; InterPro: IPR019315 This entry represents a glycine-rich domain that is the most highly conserved region of a family of proteins that, in vertebrates, are associated with tumours in multiple myelomas. The region may contain phosphorylation sites for several protein kinases, as well as N-myristoylation sites and nuclear localisation signals, so it might act as a signal molecule in the nucleus [].
Probab=31.61 E-value=19 Score=22.90 Aligned_cols=12 Identities=17% Similarity=0.496 Sum_probs=10.3
Q ss_pred cccccCCccccC
Q 045928 105 YRKINDTRITWF 116 (116)
Q Consensus 105 vr~~~~~~~~~~ 116 (116)
=|+|.+.+|+||
T Consensus 33 gRwqkgrdl~WY 44 (78)
T PF10159_consen 33 GRWQKGRDLDWY 44 (78)
T ss_pred hcccccccCcce
Confidence 378999999997
No 55
>KOG4520 consensus Predicted coiled-coil protein [General function prediction only]
Probab=31.44 E-value=19 Score=26.94 Aligned_cols=20 Identities=10% Similarity=0.302 Sum_probs=15.7
Q ss_pred CCCEE-EecCCcccccccCCccccC
Q 045928 93 CARNA-ESSEPNNYRKINDTRITWF 116 (116)
Q Consensus 93 ~~~~v-~Pv~p~~vr~~~~~~~~~~ 116 (116)
.++.| .|| =|+|.|.+|+||
T Consensus 31 LG~Si~Apv----GRWqkGkDL~Wy 51 (238)
T KOG4520|consen 31 LGQSIYAPV----GRWQKGKDLEWY 51 (238)
T ss_pred ccccccccc----cccccCCcceee
Confidence 45655 467 599999999997
No 56
>PF00113 Enolase_C: Enolase, C-terminal TIM barrel domain; InterPro: IPR020810 Enolase (2-phospho-D-glycerate hydrolase) is an essential glycolytic enzyme that catalyses the interconversion of 2-phosphoglycerate and phosphoenolpyruvate [, ]. In vertebrates, there are 3 different, tissue-specific isoenzymes, designated alpha, beta and gamma. Alpha is present in most tissues, beta is localised in muscle tissue, and gamma is found only in nervous tissue. The functional enzyme exists as a dimer of any 2 isoforms. In immature organs and in adult liver, it is usually an alpha homodimer, in adult skeletal muscle, a beta homodimer, and in adult neurons, a gamma homodimer. In developing muscle, it is usually an alpha/beta heterodimer, and in the developing nervous system, an alpha/gamma heterodimer []. The tissue specific forms display minor kinetic differences. Tau-crystallin, one of the major lens proteins in some fish, reptiles and birds, has been shown [] to be evolutionary related to enolase. Neuron-specific enolase is released in a variety of neurological diseases, such as multiple sclerosis and after seizures or acute stroke. Several tumour cells have also been found positive for neuron-specific enolase. Beta-enolase deficiency is associated with glycogenosis type XIII defect.; GO: 0000287 magnesium ion binding, 0004634 phosphopyruvate hydratase activity, 0006096 glycolysis, 0000015 phosphopyruvate hydratase complex; PDB: 2FYM_D 3H8A_C 1E9I_D 3TQP_B 2PU1_A 1OEP_A 2PA6_A 1PDY_A 1PDZ_A 3UJ2_E ....
Probab=31.41 E-value=43 Score=26.29 Aligned_cols=32 Identities=28% Similarity=0.408 Sum_probs=20.7
Q ss_pred eecEEEeceeccCccchHHHHHHHHhcCCeee
Q 045928 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQT 41 (116)
Q Consensus 10 ~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~v 41 (116)
.+.+.+|||+.++.+.|+.+|.-.|...-|++
T Consensus 228 g~~~vvS~rsgEteD~~iadLaVg~~a~~iK~ 259 (295)
T PF00113_consen 228 GWGVVVSHRSGETEDTFIADLAVGLGAGQIKT 259 (295)
T ss_dssp T-EEEEE--SS--S--HHHHHHHHTT-SEEEE
T ss_pred CceeeccCCCCCcCchhHHHHHhccCcCeEec
Confidence 47799999999999999999999998776665
No 57
>COG0400 Predicted esterase [General function prediction only]
Probab=31.20 E-value=81 Score=23.33 Aligned_cols=48 Identities=19% Similarity=0.126 Sum_probs=36.6
Q ss_pred CceecEEEeceeccC--ccchHHHHHHHHhcCCeeeeecCCCCCCcccchh
Q 045928 8 NKKYDIFVSCSGEDT--CDSFTSHLYSALSRQNIQTFIDDQLNRGNEISES 56 (116)
Q Consensus 8 ~~~~dVFISy~~~D~--~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~ 56 (116)
....-|||+|-..|. ......+|.+.|...|..|.... .+.|..+.++
T Consensus 144 ~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e 193 (207)
T COG0400 144 LAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPE 193 (207)
T ss_pred cCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHH
Confidence 377889999988886 34677899999999999986653 4466666554
No 58
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=30.97 E-value=64 Score=23.53 Aligned_cols=46 Identities=15% Similarity=0.239 Sum_probs=31.7
Q ss_pred eecEEEeceeccC-----ccchHHHHHHHHhcCCeeeeecCC--CCCCcccch
Q 045928 10 KYDIFVSCSGEDT-----CDSFTSHLYSALSRQNIQTFIDDQ--LNRGNEISE 55 (116)
Q Consensus 10 ~~dVFISy~~~D~-----~~~fv~~L~~~L~~~gi~vf~D~~--l~~G~~~~~ 55 (116)
.++|+|---+... ....+..|...|...|+++-+|.+ ..+|..+..
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHH
Confidence 4566665432220 135688899999999999999875 378877754
No 59
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=30.93 E-value=1.7e+02 Score=22.89 Aligned_cols=65 Identities=11% Similarity=0.155 Sum_probs=43.5
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEeecCCccc
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIFSEDYASS 76 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~S~~~~~S 76 (116)
.|+|-+....-...+...+.+.|+.+|.++-.++...++ ..+...+ .|..+..-+|++.......
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~ 216 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDA 216 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCccc
Confidence 566666666666788889999999999974333344444 3566666 7777776666666665544
No 60
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=30.65 E-value=2.2e+02 Score=21.91 Aligned_cols=67 Identities=9% Similarity=0.027 Sum_probs=44.0
Q ss_pred cchHHHHHHHHhcCCeeeee--cCC--CCCCcccchhhcccccceEEEEeecC-CccchhhHHHHHHHHHhh
Q 045928 24 DSFTSHLYSALSRQNIQTFI--DDQ--LNRGNEISESLAIKASAISVIIFSED-YASSRWCLDELVEILECK 90 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~--D~~--l~~G~~~~~~i~I~~s~~~Iiv~S~~-~~~S~wc~~El~~il~~~ 90 (116)
..++..|.+.+.+.|+.+-. +.+ +-.|.-+.-...-.+.++-||.+|-+ ...+..-+.+|.+++...
T Consensus 96 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~ 167 (282)
T TIGR02298 96 PALGQLIADEAQEHGVKTLAHQVPSLGLEYGTLVPMRYMNEDGHFKVVSIAAWCTVHDIEESRALGEAIRKA 167 (282)
T ss_pred HHHHHHHHHHHHHCCCceeeccCCCCCCCeehHhHHHHhCCCCCCcEEEEeecCCCCCHHHHHHHHHHHHHH
Confidence 47999999999999998642 222 44442221111224566778888887 444677777888888776
No 61
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=30.40 E-value=48 Score=28.66 Aligned_cols=45 Identities=18% Similarity=0.228 Sum_probs=31.6
Q ss_pred eecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC-CCCCcccch
Q 045928 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISE 55 (116)
Q Consensus 10 ~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~ 55 (116)
.++|+|---+++ ....+..|...|+.+|++|.+|.+ -..|..+..
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgkKir~ 544 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGKKIRD 544 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHH
Confidence 467766654443 346788999999999999999875 445554443
No 62
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=30.13 E-value=58 Score=27.28 Aligned_cols=45 Identities=13% Similarity=0.270 Sum_probs=32.4
Q ss_pred ceecEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh
Q 045928 9 KKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL 57 (116)
Q Consensus 9 ~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i 57 (116)
...+|+|-.-+++. ...+..|...|++.|++|-+|.. +.++...+
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~ 513 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR---NERLGKKI 513 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC---CCCHHHHH
Confidence 45778877655543 36788999999999999998853 34555555
No 63
>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=30.09 E-value=99 Score=23.55 Aligned_cols=58 Identities=7% Similarity=0.029 Sum_probs=38.7
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEe
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~ 69 (116)
.|.+-|...+-...+...+.+.|+++|+++=.+....+| ..+...+ .|.++..-+|++
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~pd~V~~ 197 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQRLLDALKKVLFV 197 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHHHHHhcCCCEEEE
Confidence 455556555544577888889999999988554446666 4577777 777766543333
No 64
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=30.02 E-value=53 Score=20.83 Aligned_cols=66 Identities=21% Similarity=0.206 Sum_probs=39.9
Q ss_pred HHHHHHhcCCeeeeecCCCCCCcccchhh--cccccceEEEEeecCCccchhhHHHHHHHHHhhhcCCCEEEec
Q 045928 29 HLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAISVIIFSEDYASSRWCLDELVEILECKKCCARNAESS 100 (116)
Q Consensus 29 ~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~~~~~~v~Pv 100 (116)
.+..-|+..|+..+... ...+.....+ -+++-.+.|++++++++.. -.+++.+..+. ...++|+++
T Consensus 8 ~~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~~~~~--~~~P~iv~I 75 (95)
T PF01990_consen 8 DTVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDEYREE--SSLPLIVEI 75 (95)
T ss_dssp HHHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHHHHHT--SSSSEEEEE
T ss_pred HHHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHHHHhc--cCCceEEEc
Confidence 34566777899887764 1123444445 4557889999999997762 23333333222 356777764
No 65
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=29.54 E-value=1.4e+02 Score=18.42 Aligned_cols=72 Identities=18% Similarity=0.157 Sum_probs=44.3
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeec-CCCC-------CCcccchh-h-cccccceEEEEeecCCccchhhHHH
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFID-DQLN-------RGNEISES-L-AIKASAISVIIFSEDYASSRWCLDE 82 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D-~~l~-------~G~~~~~~-i-~I~~s~~~Iiv~S~~~~~S~wc~~E 82 (116)
+|.|..+.-.+..++.+|...|.++|.++.+- -+.. .+-..... . .+..|+..|+++.++ ...+..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~----~~s~~~ 78 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPS----PLDLDG 78 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCC----HHHHHH
Confidence 46666655545567889999999888776542 2211 11111222 2 778899999988885 445566
Q ss_pred HHHHHH
Q 045928 83 LVEILE 88 (116)
Q Consensus 83 l~~il~ 88 (116)
+.++++
T Consensus 79 ~~~~~~ 84 (104)
T cd02042 79 LEKLLE 84 (104)
T ss_pred HHHHHH
Confidence 666555
No 66
>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=29.44 E-value=1.2e+02 Score=23.50 Aligned_cols=51 Identities=22% Similarity=0.185 Sum_probs=30.3
Q ss_pred EEEeceecc-CccchHHHHHHHHhcCCeeeeecCCCCCC---cccchhh-cccccc
Q 045928 13 IFVSCSGED-TCDSFTSHLYSALSRQNIQTFIDDQLNRG---NEISESL-AIKASA 63 (116)
Q Consensus 13 VFISy~~~D-~~~~fv~~L~~~L~~~gi~vf~D~~l~~G---~~~~~~i-~I~~s~ 63 (116)
|.|-+...+ -....+..+.+++++.|+.+-....+..+ ..+...+ .+.++.
T Consensus 140 v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~ 195 (389)
T cd06352 140 AVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS 195 (389)
T ss_pred EEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc
Confidence 444443333 13456778888888889877444335554 4556666 666555
No 67
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=28.90 E-value=55 Score=27.17 Aligned_cols=46 Identities=15% Similarity=0.232 Sum_probs=32.1
Q ss_pred eecEEEecee-----ccCccchHHHHHHHHhcCCeeeeecC-C-CCCCcccch
Q 045928 10 KYDIFVSCSG-----EDTCDSFTSHLYSALSRQNIQTFIDD-Q-LNRGNEISE 55 (116)
Q Consensus 10 ~~dVFISy~~-----~D~~~~fv~~L~~~L~~~gi~vf~D~-~-l~~G~~~~~ 55 (116)
.++|+|---. .+.....+..|...|+..|++|-+|. + -.+|..+..
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~~ 339 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFNE 339 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHH
Confidence 4777765431 11123568889999999999999987 4 667776654
No 68
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=28.36 E-value=40 Score=20.57 Aligned_cols=17 Identities=12% Similarity=0.096 Sum_probs=4.5
Q ss_pred chHHHHHHHHhcCCeee
Q 045928 25 SFTSHLYSALSRQNIQT 41 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~v 41 (116)
..+.++...|...|++|
T Consensus 61 ~~a~~i~~~l~~~gi~v 77 (81)
T PF13662_consen 61 KAAQKIAKKLLPLGIRV 77 (81)
T ss_dssp HHHHHHHHHHG------
T ss_pred HHHHHHHHHHHhhcccc
Confidence 33344444444444433
No 69
>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=27.88 E-value=1.3e+02 Score=23.41 Aligned_cols=53 Identities=15% Similarity=0.207 Sum_probs=25.3
Q ss_pred ceeccCccchHHHHHHHHhcCCe----eeeecCCCCCC-cccchhh-cccccceEEEEe
Q 045928 17 CSGEDTCDSFTSHLYSALSRQNI----QTFIDDQLNRG-NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 17 y~~~D~~~~fv~~L~~~L~~~gi----~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~ 69 (116)
|...|-....+..+.+.|+++|+ .+-....+.+| .++...+ .|+++..-++|+
T Consensus 161 ~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~vIvl 219 (377)
T cd06379 161 VSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVTSLLQEAKELTSRVILL 219 (377)
T ss_pred EEcCcchhHHHHHHHHHHHhcCCccceeeeEEEecCCchhhHHHHHHHHhhcCCeEEEE
Confidence 43333333456667777777776 33222224333 3444445 555544433333
No 70
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=27.00 E-value=61 Score=19.05 Aligned_cols=33 Identities=30% Similarity=0.307 Sum_probs=22.9
Q ss_pred cEEEeceeccCccchHHHHHHHHhcCCeeeeecC
Q 045928 12 DIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDD 45 (116)
Q Consensus 12 dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~ 45 (116)
||+|-..+.+.. .-+..+...|+..|++|.++.
T Consensus 3 ~v~i~~~~~~~~-~~a~~i~~~Lr~~g~~v~~~~ 35 (91)
T cd00859 3 DVYVVPLGEGAL-SEALELAEQLRDAGIKAEIDY 35 (91)
T ss_pred cEEEEEcChHHH-HHHHHHHHHHHHCCCEEEEec
Confidence 666665444322 346688999999999987764
No 71
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=26.77 E-value=40 Score=28.75 Aligned_cols=32 Identities=25% Similarity=0.519 Sum_probs=26.8
Q ss_pred cchHHHHHHHHhcCCeeeeecCC-CCCCcccch
Q 045928 24 DSFTSHLYSALSRQNIQTFIDDQ-LNRGNEISE 55 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~D~~-l~~G~~~~~ 55 (116)
...+.+|++.|...|+.|.+|++ -.+|..+.+
T Consensus 489 ~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~d 521 (568)
T TIGR00409 489 QQLAEELYSELLAQGVDVLLDDRNERAGVKFAD 521 (568)
T ss_pred HHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHh
Confidence 46788999999999999999987 677777654
No 72
>PF02337 Gag_p10: Retroviral GAG p10 protein; InterPro: IPR003322 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from beta-retroviruses such as Mason-Pfizer monkey virus (MPMV) (Simian Mason-Pfizer virus) and Mouse mammary tumor virus (MMTV) [, ]. This entry also identifies matrix proteins from several eukaryotic endogenous retroviruses, which arise when one or more copies of the retroviral genome becomes integrated into the host genome [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2F77_X 2F76_X.
Probab=26.37 E-value=55 Score=21.28 Aligned_cols=19 Identities=26% Similarity=0.254 Sum_probs=13.7
Q ss_pred chHHHHHHHHhcCCeeeee
Q 045928 25 SFTSHLYSALSRQNIQTFI 43 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~vf~ 43 (116)
-|+..|...|..+|+++-.
T Consensus 9 ~fv~~Lk~lLk~rGi~v~~ 27 (90)
T PF02337_consen 9 PFVSILKHLLKERGIRVKK 27 (90)
T ss_dssp HHHHHHHHHHHCCT----H
T ss_pred HHHHHHHHHHHHcCeeecH
Confidence 6999999999999999844
No 73
>PF09886 DUF2113: Uncharacterized protein conserved in archaea (DUF2113); InterPro: IPR016762 There is currently no experimental data for members of this group or their homologues. Based on distant sequence similarity, they may be tentatively predicted to be nucleic acid-binding proteins, they are also likely to be linked to methanogenesis or a process closely connected to it.
Probab=25.48 E-value=2.8e+02 Score=20.48 Aligned_cols=56 Identities=18% Similarity=0.287 Sum_probs=39.6
Q ss_pred ccCccchHHHHHHHHhc---CCeeeeecCCCCCCcccchhhcccccceEEEEeecCCccchhhHHHHHHHHHhh
Q 045928 20 EDTCDSFTSHLYSALSR---QNIQTFIDDQLNRGNEISESLAIKASAISVIIFSEDYASSRWCLDELVEILECK 90 (116)
Q Consensus 20 ~D~~~~fv~~L~~~L~~---~gi~vf~D~~l~~G~~~~~~i~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~ 90 (116)
.|.+.+|...|+.++.+ .|++|-.+. -.-..+++|-|++-..-+|- +|..++++..
T Consensus 127 ~Dp~~~l~~~v~da~~RI~PEGFRVr~~~--------------~~~~~f~~vASE~~i~~ewi-~~a~e~~~el 185 (188)
T PF09886_consen 127 YDPSEDLKKKVYDAMFRIAPEGFRVRRHY--------------YEGNSFAFVASEETIKDEWI-EEAKEMIEEL 185 (188)
T ss_pred ECcHHHHHHHHHHHHHHhCCCccEEeecc--------------ccCCeEEEEECCCCCCHHHH-HHHHHHHHHh
Confidence 35556888889888875 588874431 33456788899999999998 6666555543
No 74
>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=25.33 E-value=1.7e+02 Score=22.01 Aligned_cols=59 Identities=14% Similarity=0.126 Sum_probs=34.5
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEeec
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIFSE 71 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~S~ 71 (116)
|.+-+...+-...+...+...+++.|+.+-.......+ ..+...+ .+.+++.-++++..
T Consensus 138 v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~~d~v~~~~ 198 (334)
T cd06327 138 WFFLTADYAFGHSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLLQAQASGADVLVLAN 198 (334)
T ss_pred EEEEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHHHHHhCCCCEEEEec
Confidence 44444433333467778888888889887444434443 4666666 66665554444433
No 75
>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=24.46 E-value=2.1e+02 Score=21.56 Aligned_cols=56 Identities=9% Similarity=0.196 Sum_probs=32.6
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEE
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVII 68 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv 68 (116)
|.+-|...+.....+..+...|++.|+.+-....+.+| .++...+ .|.+...-+++
T Consensus 144 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~v~~l~~~~~d~i~ 201 (345)
T cd06338 144 VAILYADDPFSQDVAEGAREKAEAAGLEVVYDETYPPGTADLSPLISKAKAAGPDAVV 201 (345)
T ss_pred EEEEecCCcccHHHHHHHHHHHHHcCCEEEEEeccCCCccchHHHHHHHHhcCCCEEE
Confidence 33334333333456778888888899887543335555 5666666 66655443333
No 76
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=24.39 E-value=3.2e+02 Score=20.77 Aligned_cols=67 Identities=10% Similarity=0.045 Sum_probs=42.8
Q ss_pred cchHHHHHHHHhcCCeeeeecCC--CCCCcccchhhcccccceEEEEeecCCcc----chhhHHHHHHHHHhh
Q 045928 24 DSFTSHLYSALSRQNIQTFIDDQ--LNRGNEISESLAIKASAISVIIFSEDYAS----SRWCLDELVEILECK 90 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~vf~D~~--l~~G~~~~~~i~I~~s~~~Iiv~S~~~~~----S~wc~~El~~il~~~ 90 (116)
..++.+|.+.|.+.|+.+-.+.+ +-.|.-..-...-.+.++-||-+|-|... +..-..+|.+++...
T Consensus 90 ~~LA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~iPvV~isin~~~~p~~~~~~~~~lG~al~~~ 162 (268)
T cd07367 90 REFARAFVRQAAEDGFDLAQAEELRPDHGVMVPLLFMGPKLDIPVVPLIVNINTDPAPSPRRCWALGKVLAQY 162 (268)
T ss_pred HHHHHHHHHHHHHcCCCeeeecCccCCcchhchHHHhCCCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHH
Confidence 47899999999999997755443 44443322221122356666666666543 466777888888775
No 77
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=24.19 E-value=1.2e+02 Score=22.88 Aligned_cols=52 Identities=21% Similarity=0.202 Sum_probs=31.2
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC---cccchhh-cccccce
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG---NEISESL-AIKASAI 64 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G---~~~~~~i-~I~~s~~ 64 (116)
|.+-|...+-....+..+.+.+++.|+.+=....+..+ ..+...+ .|+++..
T Consensus 163 v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~ 218 (348)
T cd06350 163 VGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTA 218 (348)
T ss_pred EEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCC
Confidence 34444433333467778888888889876443335554 3555556 7776653
No 78
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=24.17 E-value=1.3e+02 Score=18.01 Aligned_cols=28 Identities=11% Similarity=0.294 Sum_probs=21.8
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeee
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQT 41 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~v 41 (116)
+-|+..|+|. .+.+..+...|.++|.++
T Consensus 3 ~vItv~G~Dr-pGiv~~v~~~l~~~g~ni 30 (76)
T PF13740_consen 3 LVITVVGPDR-PGIVAAVTGVLAEHGCNI 30 (76)
T ss_dssp EEEEEEEE---TTHHHHHHHHHHCTT-EE
T ss_pred EEEEEEecCC-CcHHHHHHHHHHHCCCcE
Confidence 4577889984 589999999999999987
No 79
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=23.23 E-value=79 Score=24.93 Aligned_cols=90 Identities=19% Similarity=0.298 Sum_probs=63.4
Q ss_pred CceecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC---CCCCcccchhh-ccc--ccceEEEEeecCCccchhhHH
Q 045928 8 NKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ---LNRGNEISESL-AIK--ASAISVIIFSEDYASSRWCLD 81 (116)
Q Consensus 8 ~~~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~---l~~G~~~~~~i-~I~--~s~~~Iiv~S~~~~~S~wc~~ 81 (116)
+.++.+=+||.++|. ..++...+-|...|+.+|+|-- ---|.++-+-+ .|- ..-+.+...|.+|-.-.|...
T Consensus 4 ~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~~~~e~~q~~~~~~~~f~~~~~~r~~~~~~ 81 (329)
T COG4916 4 NVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYDYLSEIYQDKALFTIMFISEHYSRKMWTNH 81 (329)
T ss_pred chheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHHHHHHHHhhhhHHHhhhhhccccCcCCCcH
Confidence 345677789999984 5788888899999999998742 22455554444 343 344577778999999999999
Q ss_pred HHHHHHHhhhcCCCE-EEe
Q 045928 82 ELVEILECKKCCARN-AES 99 (116)
Q Consensus 82 El~~il~~~~~~~~~-v~P 99 (116)
|++.++...+...+. ++|
T Consensus 82 ~~~~~~a~~~~~~~~~~~~ 100 (329)
T COG4916 82 ERQAMQARAFQEHQEYILP 100 (329)
T ss_pred HHHHHHHHHhhhccEEehh
Confidence 988777666554443 344
No 80
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=23.00 E-value=2.3e+02 Score=21.23 Aligned_cols=57 Identities=11% Similarity=0.053 Sum_probs=32.8
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEe
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~ 69 (116)
|.|-|...+-....+..+...+++.|+.+-....+.+| .++.+.+ .|.+++.-++++
T Consensus 140 vail~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~pd~v~~ 198 (312)
T cd06346 140 VATTYINNDYGVGLADAFTKAFEALGGTVTNVVAHEEGKSSYSSEVAAAAAGGPDALVV 198 (312)
T ss_pred EEEEEccCchhhHHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcCCCEEEE
Confidence 33334444333456667778888888876433335555 4566666 776666544433
No 81
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=22.27 E-value=88 Score=18.20 Aligned_cols=20 Identities=15% Similarity=0.391 Sum_probs=13.0
Q ss_pred HHHHHHHHhcCCeeeeecCC
Q 045928 27 TSHLYSALSRQNIQTFIDDQ 46 (116)
Q Consensus 27 v~~L~~~L~~~gi~vf~D~~ 46 (116)
+..+...|+.+||.+++..+
T Consensus 12 a~~i~~~L~~~gI~~~v~~~ 31 (67)
T PF09413_consen 12 AELIKGLLEENGIPAFVKNE 31 (67)
T ss_dssp HHHHHHHHHHTT--EE--S-
T ss_pred HHHHHHHHHhCCCcEEEECC
Confidence 66788999999999998765
No 82
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=22.17 E-value=49 Score=23.98 Aligned_cols=78 Identities=22% Similarity=0.226 Sum_probs=45.2
Q ss_pred chHHHHHHHHhcCCeeeeecCCCCCCcccchhh--cccccceEEEEeecCCccchhhHHHHHHHHHhhh-cCCCEEEe--
Q 045928 25 SFTSHLYSALSRQNIQTFIDDQLNRGNEISESL--AIKASAISVIIFSEDYASSRWCLDELVEILECKK-CCARNAES-- 99 (116)
Q Consensus 25 ~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i--~I~~s~~~Iiv~S~~~~~S~wc~~El~~il~~~~-~~~~~v~P-- 99 (116)
..+.-+..+|.++||+|-.-.+ ..-+.| .+....-.-+++|.+|..-.|-..+-....|+.+ ..|-.++|
T Consensus 9 KvaraiA~~LC~rgv~V~m~~~-----~~y~~lk~~~~~~~~~~Lv~~~~~~~K~WlVGd~l~~~EQ~~Ap~Gt~Fipfs 83 (164)
T PF12076_consen 9 KVARAIALALCRRGVQVVMLSK-----ERYESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPFS 83 (164)
T ss_pred HHHHHHHHHHHhcCCEEEEecH-----HHHHHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeecc
Confidence 4677788999999999866421 111122 3443334445667778777775543333334444 46778888
Q ss_pred -cCCccccc
Q 045928 100 -SEPNNYRK 107 (116)
Q Consensus 100 -v~p~~vr~ 107 (116)
-.|..+|+
T Consensus 84 qfP~~~~Rk 92 (164)
T PF12076_consen 84 QFPPKKVRK 92 (164)
T ss_pred CCCcHHHhC
Confidence 22445554
No 83
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=21.96 E-value=1.4e+02 Score=21.87 Aligned_cols=51 Identities=12% Similarity=0.171 Sum_probs=28.3
Q ss_pred cccccceEEEEeecCC-ccchhhHHHHHHHHHhhhcC-CCEEEe--cCCccccccc
Q 045928 58 AIKASAISVIIFSEDY-ASSRWCLDELVEILECKKCC-ARNAES--SEPNNYRKIN 109 (116)
Q Consensus 58 ~I~~s~~~Iiv~S~~~-~~S~wc~~El~~il~~~~~~-~~~v~P--v~p~~vr~~~ 109 (116)
.++.+++. +|=--+. ...++..+||..+++..... +++|+- ..|.++....
T Consensus 94 ~~~~~DlL-~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~ 148 (219)
T PF00308_consen 94 RLRSADLL-IIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLL 148 (219)
T ss_dssp HHCTSSEE-EEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-
T ss_pred hhhcCCEE-EEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccC
Confidence 34444443 3333333 33456678888888887654 455555 6677776543
No 84
>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=21.89 E-value=1.6e+02 Score=23.24 Aligned_cols=57 Identities=11% Similarity=0.110 Sum_probs=31.4
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCC---C-cccchhh-cccccceEEEEe
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNR---G-NEISESL-AIKASAISVIIF 69 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~---G-~~~~~~i-~I~~s~~~Iiv~ 69 (116)
|.+-|...+-....+..+.+.|+++|+.+-....+.. | .++.+.+ .|+.++.-++|+
T Consensus 179 vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil 240 (410)
T cd06363 179 VAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVV 240 (410)
T ss_pred EEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEE
Confidence 3333443433345667788888888887644333322 2 3455666 777665444444
No 85
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=21.87 E-value=1.1e+02 Score=18.46 Aligned_cols=28 Identities=21% Similarity=0.318 Sum_probs=23.8
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeee
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQT 41 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~v 41 (116)
+-|+..+.|. .+.+..+...|.++|.++
T Consensus 2 ~iltv~g~Dr-~GiVa~vs~~la~~g~nI 29 (77)
T cd04893 2 LVISALGTDR-PGILNELTRAVSESGCNI 29 (77)
T ss_pred EEEEEEeCCC-ChHHHHHHHHHHHcCCCE
Confidence 3467788885 599999999999999987
No 86
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=21.61 E-value=87 Score=26.70 Aligned_cols=44 Identities=14% Similarity=0.327 Sum_probs=30.6
Q ss_pred eecEEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCCcccchhh
Q 045928 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESL 57 (116)
Q Consensus 10 ~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~~~~~~i 57 (116)
..+|+|-.-+++. ...+..+...|+++|++|-+|.. +..+...+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~---~~~lgkki 481 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA---GETLSKRI 481 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC---CCCHHHHH
Confidence 4578776654433 35788999999999999998864 33444444
No 87
>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=21.59 E-value=2.2e+02 Score=23.18 Aligned_cols=51 Identities=22% Similarity=0.284 Sum_probs=29.4
Q ss_pred eccCccchHHHHHHHHhcCCeeeeecCCCCCCc-----ccchhh-cccccceEEEEe
Q 045928 19 GEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGN-----EISESL-AIKASAISVIIF 69 (116)
Q Consensus 19 ~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G~-----~~~~~i-~I~~s~~~Iiv~ 69 (116)
..|.....+..|.++++++|+.+-..+.+..+. .+...+ .|.+++.-|+|+
T Consensus 181 d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl 237 (469)
T cd06365 181 DDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIII 237 (469)
T ss_pred cChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEE
Confidence 333344677788888888898775444454443 223344 565555544444
No 88
>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=21.03 E-value=3.3e+02 Score=21.08 Aligned_cols=58 Identities=12% Similarity=0.113 Sum_probs=35.3
Q ss_pred EEEeceeccCccchHHHHHHHHhcCCeeeeecCCCCCC-cccchhh-cccccceEEEEee
Q 045928 13 IFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRG-NEISESL-AIKASAISVIIFS 70 (116)
Q Consensus 13 VFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~l~~G-~~~~~~i-~I~~s~~~Iiv~S 70 (116)
|.+-|...+-....+..+.+.|++.|+.+-.......| .++.+.+ .|..+..-++++.
T Consensus 143 vaiv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~~~~v~~i~~~~pd~V~~~ 202 (351)
T cd06334 143 IALVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPGPNDQKAQWLQIRRSGPDYVILW 202 (351)
T ss_pred EEEEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCCcccHHHHHHHHHHcCCCEEEEe
Confidence 44444333333456777888888889887544446666 5667777 7766655444443
No 89
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=20.66 E-value=4e+02 Score=20.51 Aligned_cols=32 Identities=13% Similarity=-0.064 Sum_probs=26.2
Q ss_pred cCCccchhhHHHHHHHHHhhhcCCCEEEecCC
Q 045928 71 EDYASSRWCLDELVEILECKKCCARNAESSEP 102 (116)
Q Consensus 71 ~~~~~S~wc~~El~~il~~~~~~~~~v~Pv~p 102 (116)
.+|++-+-|.+||..+-+-.++.+-.|+-|..
T Consensus 213 s~Ya~~~~i~~El~~A~~l~~~~~~pvIdvT~ 244 (255)
T PF03618_consen 213 SSYADLERIEEELEYAERLFRKLGCPVIDVTN 244 (255)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHcCCCEEECCC
Confidence 67999999999999988887777777776543
No 90
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=20.47 E-value=1e+02 Score=25.28 Aligned_cols=36 Identities=17% Similarity=0.229 Sum_probs=26.6
Q ss_pred eecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC
Q 045928 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ 46 (116)
Q Consensus 10 ~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~ 46 (116)
.++|+|-.-+++. ...+..|...|++.|+++.+|..
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~ 309 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL 309 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC
Confidence 4677666555543 35677899999999999988753
No 91
>PF02547 Queuosine_synth: Queuosine biosynthesis protein; InterPro: IPR003699 This entry represents the queuosine biosynthesis proteins QueA. Queuosine is a hypermodified nucleoside that usually occurs in the first position of the anticodon of tRNAs specifying the amino acids asparagine, aspartate, histidine, and tyrosine. The hypermodified nucleoside is found in bacteria and eukaryotes []. Queuosine is synthesized de novo exclusively in bacteria; for eukaryotes the compound is a nutrient factor. Queuosine biosynthesis protein, or S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (QueA) catalyses the formation of the 2,3-epoxy-4,5-dihydroxycyclopentane ring of the Q precursor epoxyqueuosine (oQ). S-adenosyl-L-methionine (AdoMet) reacts with 7-aminomethyl-7-deazaguanine of tRNA at position 34 to yield adenine, methionine, and a modified tRNA with oQ at position 34. QueA consists of two domains: domain 1 has 3 layers alpha/beta/alpha, while domain 2 is a closed beta-barrel with Greek-key topology [].; GO: 0016740 transferase activity, 0016853 isomerase activity, 0008616 queuosine biosynthetic process; PDB: 1WDI_A 1VKY_B 1YY3_A.
Probab=20.25 E-value=59 Score=26.19 Aligned_cols=74 Identities=16% Similarity=0.205 Sum_probs=35.8
Q ss_pred cchHHHHHHHHhcCCeee-eecCCCCCCcccchhh-cccccceEEEEeecCCccchhh--HHHHHHHHHhhhcCCCEEEe
Q 045928 24 DSFTSHLYSALSRQNIQT-FIDDQLNRGNEISESL-AIKASAISVIIFSEDYASSRWC--LDELVEILECKKCCARNAES 99 (116)
Q Consensus 24 ~~fv~~L~~~L~~~gi~v-f~D~~l~~G~~~~~~i-~I~~s~~~Iiv~S~~~~~S~wc--~~El~~il~~~~~~~~~v~P 99 (116)
-.|...|.+.|.++|+.+ ++.-+.-.|....-.. .|++-++ .++|+ .+|...+++..+..|.+|+-
T Consensus 183 LHFt~~ll~~l~~kGv~~a~vTLHVG~GTF~pV~~e~i~~H~m----------h~E~~~I~~~ta~~i~~ak~~G~RViA 252 (341)
T PF02547_consen 183 LHFTEELLERLKAKGVEIAFVTLHVGLGTFRPVRVEDIEEHKM----------HSEYYEIPEETAEAINKAKAEGGRVIA 252 (341)
T ss_dssp GG--HHHHHHHHHHTEEEEEEEEEECGGGG-------------------------EEEEE-HHHHHHHHHHHHTT--EEE
T ss_pred CCCCHHHHHHHHHCCCeEEEEEEEeccCcccccCcCcccCCCC----------cceEEEECHHHHHHHHHHHHhCCcEEE
Confidence 368889999999999875 3322222232211111 3333332 13333 36778888888888888888
Q ss_pred cCCccccc
Q 045928 100 SEPNNYRK 107 (116)
Q Consensus 100 v~p~~vr~ 107 (116)
|...-+|.
T Consensus 253 VGTT~vRa 260 (341)
T PF02547_consen 253 VGTTVVRA 260 (341)
T ss_dssp ESHHHHHH
T ss_pred EccHHHHH
Confidence 65444443
No 92
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=20.21 E-value=1e+02 Score=25.94 Aligned_cols=36 Identities=8% Similarity=0.217 Sum_probs=27.3
Q ss_pred eecEEEeceeccCccchHHHHHHHHhcCCeeeeecCC
Q 045928 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQ 46 (116)
Q Consensus 10 ~~dVFISy~~~D~~~~fv~~L~~~L~~~gi~vf~D~~ 46 (116)
..+|+|---+++. ...+..|...|.+.|++|-+|.+
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~ 511 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTS 511 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC
Confidence 4678887554432 35788999999999999988864
Done!