Query 031540
Match_columns 158
No_of_seqs 159 out of 1278
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 15:33:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031540.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031540hhsearch_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 1.3E-45 2.9E-50 279.3 13.4 136 4-156 20-157 (187)
2 PLN03210 Resistant to P. syrin 100.0 2.3E-45 4.9E-50 341.8 15.5 156 1-158 1-158 (1153)
3 PF01582 TIR: TIR domain; Int 99.9 1.3E-28 2.8E-33 180.2 2.1 132 13-144 1-140 (141)
4 smart00255 TIR Toll - interleu 99.9 4.1E-26 8.9E-31 165.3 13.4 137 10-148 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 6.9E-20 1.5E-24 126.5 3.6 87 13-105 1-87 (102)
6 KOG3678 SARM protein (with ste 99.2 8.4E-11 1.8E-15 100.4 8.3 106 9-116 611-730 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.7 4.3E-08 9.2E-13 70.8 5.9 89 11-104 1-107 (130)
8 PF08357 SEFIR: SEFIR domain; 98.0 4E-05 8.8E-10 56.1 8.4 64 12-75 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.2 0.0011 2.3E-08 47.8 6.1 96 12-112 1-112 (125)
10 PF13271 DUF4062: Domain of un 94.6 0.14 3.1E-06 33.8 5.7 66 12-78 1-67 (83)
11 PF05014 Nuc_deoxyrib_tr: Nucl 93.4 0.84 1.8E-05 31.6 8.1 67 24-91 13-88 (113)
12 COG4271 Predicted nucleotide-b 90.7 1.6 3.4E-05 34.1 7.2 96 12-113 84-199 (233)
13 COG4916 Uncharacterized protei 90.6 0.27 5.8E-06 39.8 3.1 96 10-111 177-281 (329)
14 PF14258 DUF4350: Domain of un 84.9 6.1 0.00013 24.7 6.4 61 28-100 8-68 (70)
15 cd00860 ThrRS_anticodon ThrRS 79.6 8.7 0.00019 24.7 5.8 60 11-74 2-61 (91)
16 cd00738 HGTP_anticodon HGTP an 74.3 14 0.0003 23.8 5.6 60 11-74 2-64 (94)
17 PF03129 HGTP_anticodon: Antic 71.0 11 0.00024 24.6 4.6 46 24-72 15-60 (94)
18 PF14359 DUF4406: Domain of un 69.3 32 0.00069 23.2 6.7 76 13-90 1-84 (92)
19 cd00858 GlyRS_anticodon GlyRS 65.9 21 0.00046 24.8 5.3 61 10-75 26-88 (121)
20 KOG2792 Putative cytochrome C 63.0 8.4 0.00018 31.3 3.1 30 80-109 154-187 (280)
21 PF03720 UDPG_MGDP_dh_C: UDP-g 61.1 13 0.00028 25.4 3.4 56 19-74 11-77 (106)
22 cd02426 Pol_gamma_b_Cterm C-te 56.2 7.1 0.00015 27.9 1.5 46 10-55 27-78 (128)
23 KOG1136 Predicted cleavage and 52.3 22 0.00047 30.3 3.9 45 60-104 191-241 (501)
24 COG0400 Predicted esterase [Ge 48.3 38 0.00083 26.3 4.5 52 10-62 146-199 (207)
25 PF09441 Abp2: ARS binding pro 45.4 8.6 0.00019 28.9 0.5 58 78-144 54-111 (175)
26 TIGR00418 thrS threonyl-tRNA s 43.6 62 0.0013 28.6 5.7 60 10-73 470-529 (563)
27 cd00861 ProRS_anticodon_short 43.0 65 0.0014 20.7 4.5 48 25-75 18-65 (94)
28 PRK09194 prolyl-tRNA synthetas 42.2 39 0.00084 30.2 4.2 63 10-76 468-533 (565)
29 cd01424 MGS_CPS_II Methylglyox 42.0 1E+02 0.0022 20.8 5.5 61 12-74 2-76 (110)
30 cd04142 RRP22 RRP22 subfamily. 41.3 1.5E+02 0.0033 22.2 7.1 54 57-113 74-130 (198)
31 COG4916 Uncharacterized protei 40.2 41 0.00088 27.5 3.6 96 10-108 6-107 (329)
32 PF09837 DUF2064: Uncharacteri 39.8 1.3E+02 0.0029 21.1 8.5 83 9-101 9-94 (122)
33 cd02042 ParA ParA and ParB of 39.7 1.1E+02 0.0023 20.0 5.8 64 13-76 3-74 (104)
34 COG0710 AroD 3-dehydroquinate 38.4 1.2E+02 0.0026 24.1 6.0 67 25-96 79-146 (231)
35 PF09419 PGP_phosphatase: Mito 37.9 83 0.0018 23.7 4.8 47 33-79 35-91 (168)
36 PRK12325 prolyl-tRNA synthetas 37.2 53 0.0011 28.3 4.1 63 10-76 345-410 (439)
37 cd03364 TOPRIM_DnaG_primases T 37.1 37 0.00081 21.6 2.5 32 37-69 44-75 (79)
38 PF10087 DUF2325: Uncharacteri 36.9 1.2E+02 0.0025 20.1 5.1 58 26-84 11-69 (97)
39 cd07363 45_DOPA_Dioxygenase Th 36.5 1.5E+02 0.0032 23.5 6.4 68 24-93 80-149 (253)
40 cd00862 ProRS_anticodon_zinc P 36.4 77 0.0017 24.2 4.6 47 10-56 10-63 (202)
41 PRK14938 Ser-tRNA(Thr) hydrola 35.0 1.1E+02 0.0023 26.4 5.5 59 10-72 274-332 (387)
42 cd06342 PBP1_ABC_LIVBP_like Ty 34.2 2E+02 0.0044 22.6 6.9 58 13-71 138-196 (334)
43 cd01423 MGS_CPS_I_III Methylgl 33.1 59 0.0013 22.3 3.2 29 13-43 3-31 (116)
44 COG1168 MalY Bifunctional PLP- 33.1 1.2E+02 0.0025 26.1 5.4 46 55-100 148-195 (388)
45 cd00859 HisRS_anticodon HisRS 32.8 1.2E+02 0.0026 18.6 5.3 59 11-73 2-60 (91)
46 cd07373 2A5CPDO_A The alpha su 32.5 2.6E+02 0.0056 22.3 8.0 76 24-102 90-172 (271)
47 PF08902 DUF1848: Domain of un 31.9 2.8E+02 0.0061 22.5 8.0 133 10-154 47-198 (266)
48 PF01990 ATP-synt_F: ATP synth 31.9 1.5E+02 0.0033 19.5 5.0 48 29-78 8-55 (95)
49 cd01241 PH_Akt Akt pleckstrin 31.8 43 0.00093 22.6 2.2 17 131-147 86-102 (102)
50 CHL00201 syh histidine-tRNA sy 31.5 1.3E+02 0.0027 25.9 5.5 60 10-73 325-384 (430)
51 cd06340 PBP1_ABC_ligand_bindin 31.5 1.9E+02 0.0041 23.4 6.4 62 13-75 147-209 (347)
52 cd00138 PLDc Phospholipase D. 31.4 1E+02 0.0022 22.1 4.4 21 53-73 22-42 (176)
53 PF01113 DapB_N: Dihydrodipico 31.3 93 0.002 21.7 4.0 9 11-19 68-76 (124)
54 COG1658 Small primase-like pro 31.2 1.1E+02 0.0024 22.1 4.3 57 10-67 29-85 (127)
55 COG0683 LivK ABC-type branched 30.4 3E+02 0.0064 22.7 7.5 74 12-85 150-223 (366)
56 PF13289 SIR2_2: SIR2-like dom 30.0 1.4E+02 0.0029 20.6 4.7 9 26-34 76-84 (143)
57 PRK03991 threonyl-tRNA synthet 29.2 71 0.0015 29.0 3.8 59 10-73 499-558 (613)
58 cd06371 PBP1_sensory_GC_DEF_li 29.1 3E+02 0.0066 22.8 7.4 52 25-76 147-201 (382)
59 PF08477 Miro: Miro-like prote 28.8 1.4E+02 0.003 19.7 4.4 46 58-104 68-113 (119)
60 PRK08661 prolyl-tRNA synthetas 28.4 78 0.0017 27.7 3.8 45 10-54 287-338 (477)
61 PF02310 B12-binding: B12 bind 28.1 1.9E+02 0.0041 19.3 6.5 62 26-95 16-78 (121)
62 PF00875 DNA_photolyase: DNA p 28.1 2.3E+02 0.005 20.4 6.8 92 27-125 55-148 (165)
63 PRK08350 hypothetical protein; 27.9 60 0.0013 27.4 2.8 31 10-40 281-311 (341)
64 cd06335 PBP1_ABC_ligand_bindin 27.0 2.6E+02 0.0057 22.5 6.5 42 24-66 152-194 (347)
65 PF01976 DUF116: Protein of un 26.7 2.3E+02 0.0049 21.0 5.5 66 26-105 74-139 (158)
66 PRK14799 thrS threonyl-tRNA sy 26.6 1.6E+02 0.0035 26.4 5.5 60 10-73 438-497 (545)
67 cd08584 PI-PLCc_GDPD_SF_unchar 26.5 1.5E+02 0.0033 22.8 4.7 60 12-78 103-162 (192)
68 PRK15057 UDP-glucose 6-dehydro 26.2 1.2E+02 0.0027 25.7 4.5 51 19-69 310-365 (388)
69 PF11074 DUF2779: Domain of un 26.1 54 0.0012 23.5 2.0 36 51-88 58-93 (130)
70 COG0576 GrpE Molecular chapero 26.0 1.3E+02 0.0028 23.1 4.2 48 26-77 123-177 (193)
71 cd01251 PH_centaurin_alpha Cen 26.0 76 0.0016 21.4 2.7 19 131-149 84-102 (103)
72 cd06379 PBP1_iGluR_NMDA_NR1 N- 25.8 2.6E+02 0.0056 22.9 6.3 46 25-71 169-219 (377)
73 cd06366 PBP1_GABAb_receptor Li 25.4 3.5E+02 0.0077 21.6 7.1 53 13-66 138-193 (350)
74 COG0415 PhrB Deoxyribodipyrimi 25.2 3.5E+02 0.0076 23.9 7.1 87 28-123 58-148 (461)
75 PRK13364 protocatechuate 4,5-d 25.0 3.8E+02 0.0082 21.8 7.3 75 25-102 99-185 (278)
76 cd00532 MGS-like MGS-like doma 24.8 2.3E+02 0.005 19.2 5.4 60 13-74 2-77 (112)
77 smart00646 Ami_3 Ami_3. 24.7 1E+02 0.0022 20.8 3.2 45 10-63 8-55 (113)
78 TIGR00334 5S_RNA_mat_M5 ribonu 24.7 1.2E+02 0.0026 23.1 3.7 45 24-69 35-79 (174)
79 PLN03194 putative disease resi 24.6 3.3E+02 0.0071 21.0 6.7 64 36-103 24-88 (187)
80 PRK12305 thrS threonyl-tRNA sy 24.6 1.9E+02 0.0041 25.7 5.6 60 10-73 476-535 (575)
81 TIGR00409 proS_fam_II prolyl-t 24.5 44 0.00096 30.0 1.6 46 10-55 473-521 (568)
82 PF15409 PH_8: Pleckstrin homo 24.3 70 0.0015 21.5 2.2 16 131-146 73-88 (89)
83 PRK00413 thrS threonyl-tRNA sy 24.1 1.8E+02 0.0039 26.2 5.4 60 10-73 539-598 (638)
84 TIGR00640 acid_CoA_mut_C methy 23.0 2.8E+02 0.0062 19.7 8.7 86 13-105 5-90 (132)
85 PF07429 Glyco_transf_56: 4-al 22.9 1.1E+02 0.0023 26.1 3.4 49 30-81 300-350 (360)
86 PF00350 Dynamin_N: Dynamin fa 22.9 2.7E+02 0.0058 19.6 5.3 46 55-103 120-165 (168)
87 cd01252 PH_cytohesin Cytohesin 22.8 85 0.0019 21.8 2.5 18 131-148 97-114 (125)
88 cd01219 PH_FGD FGD (faciogenit 22.6 87 0.0019 21.0 2.4 18 131-148 83-100 (101)
89 smart00233 PH Pleckstrin homol 22.4 93 0.002 19.0 2.5 17 131-147 85-101 (102)
90 PF12146 Hydrolase_4: Putative 22.2 1E+02 0.0022 19.8 2.6 36 9-45 15-50 (79)
91 PRK07933 thymidylate kinase; V 22.1 1.9E+02 0.0041 22.2 4.5 30 14-43 2-33 (213)
92 PF12515 CaATP_NAI: Ca2+-ATPas 22.1 66 0.0014 19.1 1.5 13 132-144 14-26 (47)
93 cd01238 PH_Tec Tec pleckstrin 21.9 76 0.0016 21.6 2.1 16 131-146 91-106 (106)
94 COG2130 Putative NADP-dependen 21.4 2.2E+02 0.0049 23.9 4.9 60 10-77 196-256 (340)
95 PF13662 Toprim_4: Toprim doma 21.3 64 0.0014 20.5 1.5 26 37-63 47-72 (81)
96 PLN02530 histidine-tRNA ligase 20.9 2.5E+02 0.0054 24.5 5.5 60 10-73 401-460 (487)
97 PF09413 DUF2007: Domain of un 20.8 85 0.0019 19.1 2.0 21 26-46 11-31 (67)
98 PF00113 Enolase_C: Enolase, C 20.7 91 0.002 25.7 2.6 32 10-41 228-259 (295)
99 smart00052 EAL Putative diguan 20.5 3.7E+02 0.0079 20.0 6.5 13 25-37 100-112 (241)
100 cd06361 PBP1_GPC6A_like Ligand 20.5 3.2E+02 0.007 23.0 6.0 26 24-49 186-211 (403)
101 PRK12444 threonyl-tRNA synthet 20.4 2.6E+02 0.0057 25.3 5.6 61 10-73 541-601 (639)
102 cd01260 PH_CNK Connector enhan 20.3 89 0.0019 20.4 2.1 15 131-145 81-95 (96)
103 cd06327 PBP1_SBP_like_1 Peripl 20.2 4.5E+02 0.0097 20.9 6.6 42 24-66 149-191 (334)
104 COG0125 Tmk Thymidylate kinase 20.2 2.1E+02 0.0045 22.2 4.4 97 13-110 4-140 (208)
105 COG1058 CinA Predicted nucleot 20.1 1.6E+02 0.0035 23.8 3.8 42 25-68 21-65 (255)
106 COG0512 PabA Anthranilate/para 20.1 1.7E+02 0.0037 22.6 3.8 47 21-76 8-56 (191)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1.3e-45 Score=279.35 Aligned_cols=136 Identities=35% Similarity=0.566 Sum_probs=124.2
Q ss_pred CCCCCCCccEEEecccCcCcccHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCccChhhH
Q 031540 4 SSRNDKKYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYASSRWCL 82 (158)
Q Consensus 4 ~~~~~~~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~ 82 (158)
||++...|||||||+|+|+|++|++||+.+|+++||++|+|+. +.+|+.|.+.|.+||++|+++|+||||+|++|.||+
T Consensus 20 ~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCL 99 (187)
T PLN03194 20 SSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCL 99 (187)
T ss_pred CCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHH
Confidence 3444469999999999999999999999999999999999998 999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhccceeeeEEeecCccccccc-CCchHHHHHHHHHHhcCChHHHHHHHHHHHHhhcccCccccC
Q 031540 83 DELVKILECKKEYAQIVIPVFYLVDPSDARNQ-TGPFGISFSKLEERFKENPEKLQTWRKALKEAASLSGFHSLN 156 (158)
Q Consensus 83 ~El~~~~~~~~~~~~~iiPVf~~v~p~dvr~~-~~~f~~~f~~~~~~~~~~~e~~~~W~~al~~v~~~~G~~~~~ 156 (158)
+||..|+++. ..||||||+|+|+|||+| .|. .+.+++++||.||++|++++|++++.
T Consensus 100 dEL~~I~e~~----~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~~ 157 (187)
T PLN03194 100 HELALIMESK----KRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFDS 157 (187)
T ss_pred HHHHHHHHcC----CEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCCC
Confidence 9999999863 479999999999999997 332 24799999999999999999998753
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=2.3e-45 Score=341.75 Aligned_cols=156 Identities=46% Similarity=0.780 Sum_probs=147.9
Q ss_pred CCCCCCCCC--CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccC
Q 031540 1 MASSSRNDK--KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASS 78 (158)
Q Consensus 1 m~~~~~~~~--~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S 78 (158)
||+|||+++ +|||||||||+|+|++|++||+.+|.++||.+|.|+++++|+.|.+++.+||++|+++|||||++|++|
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 888877664 899999999999999999999999999999999998899999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHhhhccceeeeEEeecCcccccccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHhhcccCccccCCC
Q 031540 79 RWCLDELVKILECKKEYAQIVIPVFYLVDPSDARNQTGPFGISFSKLEERFKENPEKLQTWRKALKEAASLSGFHSLNIR 158 (158)
Q Consensus 79 ~wc~~El~~~~~~~~~~~~~iiPVf~~v~p~dvr~~~~~f~~~f~~~~~~~~~~~e~~~~W~~al~~v~~~~G~~~~~~~ 158 (158)
.||++||++|++|.++.+++|+||||+|+|+|||+|+|.||++|.+++++. ++|++++||.||++|++++|+++.+++
T Consensus 81 ~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~~~~ 158 (1153)
T PLN03210 81 SWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQNWP 158 (1153)
T ss_pred hHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecCCCC
Confidence 999999999999999999999999999999999999999999999988753 478999999999999999999987653
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=99.94 E-value=1.3e-28 Score=180.16 Aligned_cols=132 Identities=34% Similarity=0.584 Sum_probs=115.6
Q ss_pred EEEecccCcCcccHHHHHHHHHhcC--CceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHH
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQ--NIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKIL 89 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~--gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~ 89 (158)
|||||++.+.+..|+++|..+|+++ |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|+||+.||..|+
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 8999999333568999999999999 999999998 9999999999999999999999999999999999999999999
Q ss_pred HHhhhcc--ceeeeEEeecCccccc-ccCCchHHHHHHHHHHhcCC--hHHHHHHHHHHH
Q 031540 90 ECKKEYA--QIVIPVFYLVDPSDAR-NQTGPFGISFSKLEERFKEN--PEKLQTWRKALK 144 (158)
Q Consensus 90 ~~~~~~~--~~iiPVf~~v~p~dvr-~~~~~f~~~f~~~~~~~~~~--~e~~~~W~~al~ 144 (158)
++..+.+ .+|+|||+++.+++++ .+.+.|+..|.........+ .+....|+.++.
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 9987644 7999999999999999 68889999998877765543 578999999875
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.94 E-value=4.1e-26 Score=165.34 Aligned_cols=137 Identities=43% Similarity=0.692 Sum_probs=115.1
Q ss_pred CccEEEeccc-CcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHH
Q 031540 10 KYDVFVSFRG-EDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKI 88 (158)
Q Consensus 10 ~ydVFISy~~-~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~ 88 (158)
.|||||||++ ++....|+.+|...|...|+.+|.|+....|.... +|.++|++|+++|+|+||+|..|+||..|+..+
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 5999999998 34456899999999999999999998633333333 999999999999999999999999999999999
Q ss_pred HHHhhh-ccceeeeEEeecCcccccccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHhhc
Q 031540 89 LECKKE-YAQIVIPVFYLVDPSDARNQTGPFGISFSKLEERFKENPEKLQTWRKALKEAAS 148 (158)
Q Consensus 89 ~~~~~~-~~~~iiPVf~~v~p~dvr~~~~~f~~~f~~~~~~~~~~~e~~~~W~~al~~v~~ 148 (158)
+++..+ ...+||||+++..|+++.++.+.++..+.........+..+ +.|+.++..+.+
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 987654 56799999999889999999999999998875555433333 799999988764
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.78 E-value=6.9e-20 Score=126.51 Aligned_cols=87 Identities=31% Similarity=0.539 Sum_probs=74.9
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHh
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECK 92 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~ 92 (158)
|||||+++|. .++..|...|++.|+++|+|.++.+|+.+.+.|.++|++|+..|+++|++|..|+||..|+..+.+
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 699999999999999999997689999999999999999999999999999999999999999843
Q ss_pred hhccceeeeEEee
Q 031540 93 KEYAQIVIPVFYL 105 (158)
Q Consensus 93 ~~~~~~iiPVf~~ 105 (158)
.+..||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 45589999854
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.18 E-value=8.4e-11 Score=100.40 Aligned_cols=106 Identities=29% Similarity=0.423 Sum_probs=80.9
Q ss_pred CCccEEEecccCcCcccHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCc----cChhhHH
Q 031540 9 KKYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYA----SSRWCLD 83 (158)
Q Consensus 9 ~~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~----~S~wc~~ 83 (158)
.+.||||||++.- ....++-|...|+-+|++||+|-+ +..|+ +.+.+.+.|...+.+|+|++||.. +...|.+
T Consensus 611 kq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nCeD 688 (832)
T KOG3678|consen 611 KQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCED 688 (832)
T ss_pred CCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccHHH
Confidence 3799999998764 467999999999999999999998 98887 456899999999999999999976 3444544
Q ss_pred HHHHHHHHhhhccceeeeEEee---------cCcccccccCC
Q 031540 84 ELVKILECKKEYAQIVIPVFYL---------VDPSDARNQTG 116 (158)
Q Consensus 84 El~~~~~~~~~~~~~iiPVf~~---------v~p~dvr~~~~ 116 (158)
...+-+.|.-+.+..|||||-. +-|.|++..+.
T Consensus 689 WVHKEl~~Afe~~KNIiPI~D~aFE~Pt~ed~iPnDirmi~k 730 (832)
T KOG3678|consen 689 WVHKELKCAFEHQKNIIPIFDTAFEFPTKEDQIPNDIRMITK 730 (832)
T ss_pred HHHHHHHHHHHhcCCeeeeecccccCCCchhcCcHHHHHHHh
Confidence 4444444444445589999843 45666665443
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=98.68 E-value=4.3e-08 Score=70.76 Aligned_cols=89 Identities=21% Similarity=0.378 Sum_probs=47.8
Q ss_pred ccEEEecccCcCcccHHHHHHHHHhcC-------Ccee-ee---------cCC-cCCccchhHHHHHHHHhcCeEEEEee
Q 031540 11 YDVFVSFRGEDTRDNFTSHLCSALCRQ-------NIQT-FI---------DDQ-LNRGDEISESLVNAIEASAISVIVFS 72 (158)
Q Consensus 11 ydVFISy~~~D~~~~f~~~L~~~L~~~-------gi~~-f~---------d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS 72 (158)
|.|||||++.|.. ..+..|...+... .+.. |. +.. ....+.|...|.+.|.+|.++||+++
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 6799999999853 3777777777663 1211 11 111 22334788899999999999999999
Q ss_pred cCCccChhhHHHHHHHHHHhhhccceeeeEEe
Q 031540 73 EGYASSRWCLDELVKILECKKEYAQIVIPVFY 104 (158)
Q Consensus 73 ~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf~ 104 (158)
++...|.|+..|+..+++ .+..||.|.+
T Consensus 80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~~ 107 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK----KGKPIIGVYL 107 (130)
T ss_dssp TT----HHHHHHHHHHTT----T---EEEEET
T ss_pred CCcccCcHHHHHHHHHHH----CCCCEEEEEC
Confidence 999999999999998876 4557887765
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=98.02 E-value=4e-05 Score=56.06 Aligned_cols=64 Identities=23% Similarity=0.379 Sum_probs=51.6
Q ss_pred cEEEecccCcCc-ccHHHHHHHHHhcC-CceeeecCC-cC--CccchhHHHHHHHHhcCeEEEEeecCC
Q 031540 12 DVFVSFRGEDTR-DNFTSHLCSALCRQ-NIQTFIDDQ-LN--RGDEISESLVNAIEASAISVIVFSEGY 75 (158)
Q Consensus 12 dVFISy~~~D~~-~~f~~~L~~~L~~~-gi~~f~d~~-~~--~G~~i~~~i~~aI~~S~~~IvvlS~~y 75 (158)
-|||||+++... ...|..|...|++. |+.|.+|.. .. ++..+..=+.+.+++++..|+|+||.+
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 499999985443 36799999999999 999999986 53 355666667788999999999999554
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=97.23 E-value=0.0011 Score=47.83 Aligned_cols=96 Identities=20% Similarity=0.191 Sum_probs=69.0
Q ss_pred cEEEecccCcCcccHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCc-------------c
Q 031540 12 DVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYA-------------S 77 (158)
Q Consensus 12 dVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~-------------~ 77 (158)
.|||.|+ .|. ..+..+...|+..|+.+.+-.+ ...|..+.+.+.+.+.+|+.+|++++|+=. .
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 4899997 553 5888999999988887666555 789999999999999999999999998522 2
Q ss_pred ChhhHHHHHHHHHHhhhccceeeeEEe-ec-Cccccc
Q 031540 78 SRWCLDELVKILECKKEYAQIVIPVFY-LV-DPSDAR 112 (158)
Q Consensus 78 S~wc~~El~~~~~~~~~~~~~iiPVf~-~v-~p~dvr 112 (158)
....+.|+..++... +..+++-+.- ++ -|||+.
T Consensus 78 R~NVifE~G~f~g~L--Gr~rv~~l~~~~v~~PSDl~ 112 (125)
T PF10137_consen 78 RQNVIFELGLFIGKL--GRERVFILVKGGVELPSDLS 112 (125)
T ss_pred ccceeehhhHHHhhc--CcceEEEEEcCCccCCcccC
Confidence 345677888877643 2234444432 22 356654
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=94.57 E-value=0.14 Score=33.79 Aligned_cols=66 Identities=17% Similarity=0.212 Sum_probs=48.1
Q ss_pred cEEEecccCcCcccHHHHHHHHHhcCCceeeecCCc-CCccchhHHHHHHHHhcCeEEEEeecCCccC
Q 031540 12 DVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQL-NRGDEISESLVNAIEASAISVIVFSEGYASS 78 (158)
Q Consensus 12 dVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~-~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S 78 (158)
.||||-.-.|-. .--..|...|.+.|.....-+.+ ..+....+.+.+.|++|+++|.++-..|-..
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 389998767753 34567778887777655443332 3456667788999999999999999998754
No 11
>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=93.41 E-value=0.84 Score=31.58 Aligned_cols=67 Identities=16% Similarity=0.069 Sum_probs=49.9
Q ss_pred ccHHHHHHHHHhcCCceeeecCC--cC-------CccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHH
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQ--LN-------RGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILEC 91 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~--~~-------~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~ 91 (158)
..+...+.+.|+.+|+.++...+ .. ....+.+.-.++|++|++.|+++...- .+.-+..|+..+...
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~al 88 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYAL 88 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHC
Confidence 46889999999999999988764 21 123445555678999999999998766 556678899988763
No 12
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=90.67 E-value=1.6 Score=34.10 Aligned_cols=96 Identities=21% Similarity=0.191 Sum_probs=67.1
Q ss_pred cEEEecccCcCcccHHHHHHHHHhcC--CceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCc-------------
Q 031540 12 DVFVSFRGEDTRDNFTSHLCSALCRQ--NIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYA------------- 76 (158)
Q Consensus 12 dVFISy~~~D~~~~f~~~L~~~L~~~--gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~------------- 76 (158)
.|||-|+++ ..+.....+|.+. -..+|.|.-+..|..+.+.+.+-|.++..+|++.+|+=.
T Consensus 84 kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~p 159 (233)
T COG4271 84 KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAFP 159 (233)
T ss_pred eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhccc
Confidence 899999654 3676777777644 346777776889999999999999999999999999844
Q ss_pred -cChhhHHHHHHHHHHhhhccceeeeEEee---c-Ccccccc
Q 031540 77 -SSRWCLDELVKILECKKEYAQIVIPVFYL---V-DPSDARN 113 (158)
Q Consensus 77 -~S~wc~~El~~~~~~~~~~~~~iiPVf~~---v-~p~dvr~ 113 (158)
.......||..++.+. +..+|+-+.-+ | -|||+..
T Consensus 160 raRqNVifELGm~mgrL--gRkrv~Il~k~~envelPSDi~G 199 (233)
T COG4271 160 RARQNVIFELGMFMGRL--GRKRVMILMKRDENVELPSDIAG 199 (233)
T ss_pred cccccchhhHhhHHhhc--ccceEEEEecccccccCccccCc
Confidence 1233667888777643 22344333321 2 3777654
No 13
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=90.61 E-value=0.27 Score=39.75 Aligned_cols=96 Identities=18% Similarity=0.172 Sum_probs=66.8
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhc--CCceeeecCC----cCCccchhHHHHHHHH--hcCeEEEEeecCCccChhh
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCR--QNIQTFIDDQ----LNRGDEISESLVNAIE--ASAISVIVFSEGYASSRWC 81 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~--~gi~~f~d~~----~~~G~~i~~~i~~aI~--~S~~~IvvlS~~y~~S~wc 81 (158)
.||+=|||.|+- | ..++....+++. ..+..|+|.. +.+|+ +. .++.-+. .|+..+|.+..+|..-.||
T Consensus 177 ~~DiG~SFaGEA-R-~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~-~~L~~~Y~~rC~~~~VF~~~~Y~~K~~c 252 (329)
T COG4916 177 PVDSGISFAGEA-R-NLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LV-STLDPGYDIRCVVTTVFNTGSYICKSTC 252 (329)
T ss_pred ccceeeEeehhh-h-hHHHHHHHhhhcccCCceeeeechhhccccCcc-HH-HhcccccCceEEEEEEEeCCceEEeeee
Confidence 799999999985 4 699999999994 4567888864 34443 22 3333333 6888999999999999999
Q ss_pred HHHHHHHHHHhhhccceeeeEEe-ecCcccc
Q 031540 82 LDELVKILECKKEYAQIVIPVFY-LVDPSDA 111 (158)
Q Consensus 82 ~~El~~~~~~~~~~~~~iiPVf~-~v~p~dv 111 (158)
..|...+.+.. .-..+.||.| +++-+-+
T Consensus 253 ~~E~~~~r~~~--~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 253 HIEGLEGRLNP--ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred ccchhhccccc--cccccceEEEEecCCccc
Confidence 99987764421 1234566665 4444443
No 14
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=84.90 E-value=6.1 Score=24.72 Aligned_cols=61 Identities=20% Similarity=0.152 Sum_probs=38.1
Q ss_pred HHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhccceee
Q 031540 28 SHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYAQIVI 100 (158)
Q Consensus 28 ~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~ii 100 (158)
.-|+.-|++.|+++-.... ..+++...+-++++++|.+.-+. ..++..+.+..+.++..||
T Consensus 8 ~a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 4577788888988843332 12344558889999999966553 3455555555555555443
No 15
>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=79.56 E-value=8.7 Score=24.67 Aligned_cols=60 Identities=12% Similarity=0.194 Sum_probs=37.9
Q ss_pred ccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecC
Q 031540 11 YDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEG 74 (158)
Q Consensus 11 ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 74 (158)
++|+|...+++. ...+-.+...|++.|+++-+|.. +..+...+..|-+.---.++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~---~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR---NEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 677777655443 35788999999999999988764 2344445555543333344444443
No 16
>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=74.28 E-value=14 Score=23.81 Aligned_cols=60 Identities=20% Similarity=0.266 Sum_probs=38.6
Q ss_pred ccEEEecccC---cCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecC
Q 031540 11 YDVFVSFRGE---DTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEG 74 (158)
Q Consensus 11 ydVFISy~~~---D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 74 (158)
++|+|-..+. .. ...+..+...|++.|+.+-+|.. +..+...+..+-+.---+++++.++
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 5676665443 22 35788899999999999988763 3445545555544444567777663
No 17
>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=71.04 E-value=11 Score=24.58 Aligned_cols=46 Identities=15% Similarity=0.267 Sum_probs=30.6
Q ss_pred ccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEee
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFS 72 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS 72 (158)
..++.+|...|.+.|+.+.+|.. +..+...+..|-..---+++|+.
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~---~~~~~k~~~~a~~~g~p~~iiiG 60 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS---DKSLGKQIKYADKLGIPFIIIIG 60 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS---SSTHHHHHHHHHHTTESEEEEEE
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCchhHHHHHHhhcCCeEEEEEC
Confidence 36889999999999999999874 33444455555443233444444
No 18
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=69.29 E-value=32 Score=23.17 Aligned_cols=76 Identities=13% Similarity=0.102 Sum_probs=47.2
Q ss_pred EEEec--ccC-cCcccHHHHHHHHHhcCCceeeecCCc--CCccchhHHH---HHHHHhcCeEEEEeecCCccChhhHHH
Q 031540 13 VFVSF--RGE-DTRDNFTSHLCSALCRQNIQTFIDDQL--NRGDEISESL---VNAIEASAISVIVFSEGYASSRWCLDE 84 (158)
Q Consensus 13 VFISy--~~~-D~~~~f~~~L~~~L~~~gi~~f~d~~~--~~G~~i~~~i---~~aI~~S~~~IvvlS~~y~~S~wc~~E 84 (158)
||||. +|. |.-+.-.......|+..|..|.---.+ ..|.++.+-+ ...|..|+..++ =|+.-.|.=|.-|
T Consensus 1 iYIaGPmtG~~~~N~~~f~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E 78 (92)
T PF14359_consen 1 IYIAGPMTGLPDYNRPAFNAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLE 78 (92)
T ss_pred CeEeCCcCCCcchHHHHHHHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHH
Confidence 46664 442 221223355778889999776543333 4555544433 345667774433 4999999999999
Q ss_pred HHHHHH
Q 031540 85 LVKILE 90 (158)
Q Consensus 85 l~~~~~ 90 (158)
+..+..
T Consensus 79 ~~~A~~ 84 (92)
T PF14359_consen 79 HELAKK 84 (92)
T ss_pred HHHHHH
Confidence 988765
No 19
>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=65.92 E-value=21 Score=24.81 Aligned_cols=61 Identities=11% Similarity=0.030 Sum_probs=41.5
Q ss_pred CccEEEeccc--CcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCC
Q 031540 10 KYDVFVSFRG--EDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGY 75 (158)
Q Consensus 10 ~ydVFISy~~--~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y 75 (158)
.+||||-.-+ ++. ...+..|...|++.|+++-+|.. ..+...+..|-+.---.++++.++-
T Consensus 26 p~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 26 PIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred CcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCc
Confidence 6888887765 332 35778899999999999988763 3555566666554444566666553
No 20
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=62.99 E-value=8.4 Score=31.27 Aligned_cols=30 Identities=33% Similarity=0.505 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHhh----hccceeeeEEeecCcc
Q 031540 80 WCLDELVKILECKK----EYAQIVIPVFYLVDPS 109 (158)
Q Consensus 80 wc~~El~~~~~~~~----~~~~~iiPVf~~v~p~ 109 (158)
=|.+||.++....+ ..+..++|||+-|+|.
T Consensus 154 ICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 154 ICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred cChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 48899988765432 3456777999999995
No 21
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=61.09 E-value=13 Score=25.37 Aligned_cols=56 Identities=18% Similarity=0.303 Sum_probs=35.1
Q ss_pred cCcCcccHHHHHHHHHhcCCceeeecCC-cCC----------ccchhHHHHHHHHhcCeEEEEeecC
Q 031540 19 GEDTRDNFTSHLCSALCRQNIQTFIDDQ-LNR----------GDEISESLVNAIEASAISVIVFSEG 74 (158)
Q Consensus 19 ~~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~----------G~~i~~~i~~aI~~S~~~IvvlS~~ 74 (158)
..|.|.+=+-.|.+.|.++|+.+...+- +.. |-...+.+.++++.++..|+.-..+
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~ 77 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHD 77 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--G
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCH
Confidence 3578889999999999999999877664 221 2223345678888888877755544
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=56.17 E-value=7.1 Score=27.88 Aligned_cols=46 Identities=11% Similarity=0.148 Sum_probs=31.1
Q ss_pred CccEEEecc-c-CcCcccHHHHHHHHHhcCCceeeecCC-c---CCccchhH
Q 031540 10 KYDVFVSFR-G-EDTRDNFTSHLCSALCRQNIQTFIDDQ-L---NRGDEISE 55 (158)
Q Consensus 10 ~ydVFISy~-~-~D~~~~f~~~L~~~L~~~gi~~f~d~~-~---~~G~~i~~ 55 (158)
.|+|=|--- . .+.-...+..|+..|+..|+.++.|++ - .+|..+.+
T Consensus 27 P~qV~Iipi~~~~~~~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~ 78 (128)
T cd02426 27 PYKVAIDCGKGDTAELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDK 78 (128)
T ss_pred CeEEEEEeccCChHHHHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHh
Confidence 466644322 1 222246889999999999999999887 3 46766644
No 23
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=52.34 E-value=22 Score=30.27 Aligned_cols=45 Identities=27% Similarity=0.535 Sum_probs=34.9
Q ss_pred HHHhcCeEEEEeecCCc----cChhhHH-HHHHH-HHHhhhccceeeeEEe
Q 031540 60 AIEASAISVIVFSEGYA----SSRWCLD-ELVKI-LECKKEYAQIVIPVFY 104 (158)
Q Consensus 60 aI~~S~~~IvvlS~~y~----~S~wc~~-El~~~-~~~~~~~~~~iiPVf~ 104 (158)
.|..++--++|--..|+ .|..|.+ |+.+. .+|...++.++||||-
T Consensus 191 ~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 191 WIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred hhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeee
Confidence 46778888777777777 4888976 66555 5688889999999994
No 24
>COG0400 Predicted esterase [General function prediction only]
Probab=48.30 E-value=38 Score=26.29 Aligned_cols=52 Identities=17% Similarity=0.148 Sum_probs=39.5
Q ss_pred CccEEEecccCcC--cccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHH
Q 031540 10 KYDVFVSFRGEDT--RDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIE 62 (158)
Q Consensus 10 ~ydVFISy~~~D~--~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~ 62 (158)
..-|||+|-..|. ......+|.+.|+..|..|.... ...|-.+.++-.++++
T Consensus 146 ~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 146 GTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAAR 199 (207)
T ss_pred CCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHH
Confidence 6789999987776 34678999999999999987765 4467677665555544
No 25
>PF09441 Abp2: ARS binding protein 2; InterPro: IPR018562 This DNA-binding protein binds to the autonomously replicating sequence (ARS) binding element. It may play a role in regulating the cell cycle response to stress signals [].
Probab=45.39 E-value=8.6 Score=28.92 Aligned_cols=58 Identities=22% Similarity=0.396 Sum_probs=31.7
Q ss_pred ChhhHHHHHHHHHHhhhccceeeeEEeecCcccccccCCchHHHHHHHHHHhcCChHHHHHHHHHHH
Q 031540 78 SRWCLDELVKILECKKEYAQIVIPVFYLVDPSDARNQTGPFGISFSKLEERFKENPEKLQTWRKALK 144 (158)
Q Consensus 78 S~wc~~El~~~~~~~~~~~~~iiPVf~~v~p~dvr~~~~~f~~~f~~~~~~~~~~~e~~~~W~~al~ 144 (158)
|.|.+.||..-++..+-+.=.=+-+.++|+|-++..... .++...+.-+.++|+.|+.
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS---------tQKvqQYaVRLKRWM~aMH 111 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS---------TQKVQQYAVRLKRWMRAMH 111 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc---------hHHHHHHHHHHHHHHHHhh
Confidence 457777776655543222212233456788877654311 2222334567789999865
No 26
>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=43.59 E-value=62 Score=28.63 Aligned_cols=60 Identities=15% Similarity=0.250 Sum_probs=41.5
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
..+|+|-.-+++. ...+..|...|++.|++|-+|.. +..+...+..|-+.---.++|+.+
T Consensus 470 p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 470 PVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred CceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEch
Confidence 5788887755543 46889999999999999999864 445555666665444445555554
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=43.03 E-value=65 Score=20.67 Aligned_cols=48 Identities=15% Similarity=0.195 Sum_probs=30.6
Q ss_pred cHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCC
Q 031540 25 NFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGY 75 (158)
Q Consensus 25 ~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y 75 (158)
..+..|...|+..|+++.+|.+ +..+...+..|-+.---+++++.++-
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCch
Confidence 5788999999999999999875 22333344445443333555555443
No 28
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=42.20 E-value=39 Score=30.16 Aligned_cols=63 Identities=16% Similarity=0.262 Sum_probs=40.9
Q ss_pred CccEEEeccc--CcCcccHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCc
Q 031540 10 KYDVFVSFRG--EDTRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYA 76 (158)
Q Consensus 10 ~ydVFISy~~--~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 76 (158)
.++|+|---+ .+.....+..|+..|+..|+.+.+|++ -.+|..+.+.- ..+.. .++++.++..
T Consensus 468 P~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad---~~GiP-~~iiiG~~e~ 533 (565)
T PRK09194 468 PFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADAD---LIGIP-HRIVVGDRGL 533 (565)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHH---hcCCC-EEEEEcCccc
Confidence 6899887643 122246889999999999999999987 55666554321 22333 4455555533
No 29
>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=41.97 E-value=1e+02 Score=20.79 Aligned_cols=61 Identities=18% Similarity=0.296 Sum_probs=35.3
Q ss_pred cEEEecccCcCcccHHHHHHHHHhcCCceeeecCC----c-CCcc---------chhHHHHHHHHhcCeEEEEeecC
Q 031540 12 DVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ----L-NRGD---------EISESLVNAIEASAISVIVFSEG 74 (158)
Q Consensus 12 dVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~----~-~~G~---------~i~~~i~~aI~~S~~~IvvlS~~ 74 (158)
.||+|.+..|. .-...+...|.+.|++++--.. + ..|- .-.+++.+.|++-.+.++|-.|+
T Consensus 2 ~vl~s~~~~~k--~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDK--PEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcH--hHHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 38899987764 3445677777778888865321 0 0010 01145666666666666666554
No 30
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=41.31 E-value=1.5e+02 Score=22.21 Aligned_cols=54 Identities=9% Similarity=0.049 Sum_probs=32.5
Q ss_pred HHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhc---cceeeeEEeecCcccccc
Q 031540 57 LVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEY---AQIVIPVFYLVDPSDARN 113 (158)
Q Consensus 57 i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~---~~~iiPVf~~v~p~dvr~ 113 (158)
...+++.++.+|+|++.+- +.-++++....+..... ...-+|+++-....|+..
T Consensus 74 ~~~~~~~ad~iilv~D~~~---~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~ 130 (198)
T cd04142 74 RFRGLRNSRAFILVYDICS---PDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR 130 (198)
T ss_pred HHhhhccCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence 4456889999999999763 44444444443332211 123367777667777744
No 31
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=40.15 E-value=41 Score=27.51 Aligned_cols=96 Identities=19% Similarity=0.375 Sum_probs=68.5
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCC---cCCccchhHHHHHHHH--hcCeEEEEeecCCccChhhHHH
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ---LNRGDEISESLVNAIE--ASAISVIVFSEGYASSRWCLDE 84 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~---~~~G~~i~~~i~~aI~--~S~~~IvvlS~~y~~S~wc~~E 84 (158)
++.+=+||.++|. .+++..-.-|...|+.+|+|-. =.-|.++.+ .+.-|. ..-+++...|.+|-.-.|...|
T Consensus 6 ~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~~~~~~ 82 (329)
T COG4916 6 QFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKMWTNHE 82 (329)
T ss_pred heeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcCCCcHH
Confidence 5667789999985 6888888889999999988742 233455442 223333 3556788889999999999999
Q ss_pred HHHHHHHhh-hccceeeeEEeecCc
Q 031540 85 LVKILECKK-EYAQIVIPVFYLVDP 108 (158)
Q Consensus 85 l~~~~~~~~-~~~~~iiPVf~~v~p 108 (158)
+..++...+ +....++|-.++..|
T Consensus 83 ~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 83 RQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred HHHHHHHHhhhccEEehhhhhccCC
Confidence 988766443 445578888776433
No 32
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=39.82 E-value=1.3e+02 Score=21.09 Aligned_cols=83 Identities=16% Similarity=0.280 Sum_probs=43.3
Q ss_pred CCccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhc---CeEEEEeecCCccChhhHHHH
Q 031540 9 KKYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEAS---AISVIVFSEGYASSRWCLDEL 85 (158)
Q Consensus 9 ~~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S---~~~IvvlS~~y~~S~wc~~El 85 (158)
..+|++|.|.+...+ .....+ ....++.++. +.|..+.+.+..+++.. .-.|+++-.+-.. -+...|
T Consensus 9 ~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~~----Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~~~l 78 (122)
T PF09837_consen 9 DGADVVLAYTPDGDH-AAFRQL---WLPSGFSFFP----QQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTPDDL 78 (122)
T ss_dssp SSSEEEEEE----TT-HHHHHH---HH-TTSEEEE------SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----HHHH
T ss_pred CCcCEEEEEcCCccH-HHHhcc---ccCCCCEEee----cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCHHHH
Confidence 479999999877643 333333 3334454433 56777777777776655 3367777666554 245567
Q ss_pred HHHHHHhhhccceeee
Q 031540 86 VKILECKKEYAQIVIP 101 (158)
Q Consensus 86 ~~~~~~~~~~~~~iiP 101 (158)
..+.+..+....++-|
T Consensus 79 ~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 79 EQAFEALQRHDVVLGP 94 (122)
T ss_dssp HHHHHHTTT-SEEEEE
T ss_pred HHHHHHhccCCEEEee
Confidence 7777766655556666
No 33
>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=39.70 E-value=1.1e+02 Score=20.02 Aligned_cols=64 Identities=16% Similarity=0.184 Sum_probs=39.8
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecC-CcC-------CccchhHHHHHHHHhcCeEEEEeecCCc
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDD-QLN-------RGDEISESLVNAIEASAISVIVFSEGYA 76 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~-------~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 76 (158)
+|.|..|--.+..++.+|...|.++|.++.+-+ +.. -+-.+.+....++..|+..|+++.++..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~ 74 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPL 74 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHH
Confidence 456665544444678999999998888776532 111 1112233445677888888888877644
No 34
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=38.35 E-value=1.2e+02 Score=24.07 Aligned_cols=67 Identities=12% Similarity=0.173 Sum_probs=44.2
Q ss_pred cHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhcc
Q 031540 25 NFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYA 96 (158)
Q Consensus 25 ~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~ 96 (158)
..+..|....+.+| .-|+|-+ ..+++.. .++.+.-.+.. +|+|-+...+.+..+|+..++..+...+
T Consensus 79 ~~i~ll~~la~~~~-~d~iDiEl~~~~~~~-~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 79 EYIELLKKLAELNG-PDYIDIELSSPEDDV-KEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHhhcC-CCEEEEEccCcchhH-HHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 46666766666666 5678877 4443332 23333222223 8889999999999999999988776544
No 35
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=37.92 E-value=83 Score=23.68 Aligned_cols=47 Identities=26% Similarity=0.323 Sum_probs=33.5
Q ss_pred HHhcCCceeee-cCC--c-CCc-cchhHHHHHHHHhcCe-----EEEEeecCCccCh
Q 031540 33 ALCRQNIQTFI-DDQ--L-NRG-DEISESLVNAIEASAI-----SVIVFSEGYASSR 79 (158)
Q Consensus 33 ~L~~~gi~~f~-d~~--~-~~G-~~i~~~i~~aI~~S~~-----~IvvlS~~y~~S~ 79 (158)
.|.+.||+..+ |.+ + .++ +.+.+++.+.+++++. .|+|+|.+--++.
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~ 91 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSD 91 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCccc
Confidence 48899998654 555 5 344 5677888888877663 4899998876554
No 36
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=37.16 E-value=53 Score=28.34 Aligned_cols=63 Identities=16% Similarity=0.118 Sum_probs=39.9
Q ss_pred CccEEEeccc--CcCcccHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCc
Q 031540 10 KYDVFVSFRG--EDTRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYA 76 (158)
Q Consensus 10 ~ydVFISy~~--~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 76 (158)
.++|+|---+ .+.....+..|...|.+.|+.|.+|.+ -..|.. +..+-..---.++|+.++-.
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~k----i~~a~~~giP~~iiVG~~e~ 410 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAK----FATMDLIGLPWQIIVGPKGL 410 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHH----HHHHHHcCCCEEEEECCccc
Confidence 4788776532 222346889999999999999999886 444554 33443322335566665544
No 37
>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=37.09 E-value=37 Score=21.57 Aligned_cols=32 Identities=9% Similarity=0.169 Sum_probs=18.3
Q ss_pred CCceeeecCCcCCccchhHHHHHHHHhcCeEEE
Q 031540 37 QNIQTFIDDQLNRGDEISESLVNAIEASAISVI 69 (158)
Q Consensus 37 ~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~Iv 69 (158)
+.+-+|+|.+ .+|......+.+.+..-...+-
T Consensus 44 ~~vii~~D~D-~aG~~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 44 KEVILAFDGD-EAGQKAALRALELLLKLGLNVR 75 (79)
T ss_pred CeEEEEECCC-HHHHHHHHHHHHHHHHCCCeEE
Confidence 4666777765 5566655566655555444333
No 38
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.88 E-value=1.2e+02 Score=20.14 Aligned_cols=58 Identities=10% Similarity=0.125 Sum_probs=37.2
Q ss_pred HHHHHHHHHhcCCceeeecCCcCCcc-chhHHHHHHHHhcCeEEEEeecCCccChhhHHH
Q 031540 26 FTSHLCSALCRQNIQTFIDDQLNRGD-EISESLVNAIEASAISVIVFSEGYASSRWCLDE 84 (158)
Q Consensus 26 f~~~L~~~L~~~gi~~f~d~~~~~G~-~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~E 84 (158)
....+...+++.|...-.. .-..|. .-...+...|.+++..|++.+--.-...|...+
T Consensus 11 ~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~ 69 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKK 69 (97)
T ss_pred cHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHH
Confidence 5678888899999876554 111121 112247778999999998876665565554443
No 39
>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=36.45 E-value=1.5e+02 Score=23.47 Aligned_cols=68 Identities=16% Similarity=0.120 Sum_probs=47.3
Q ss_pred ccHHHHHHHHHhcCCceeeecCC--cCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhh
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQ--LNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKK 93 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~--~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~ 93 (158)
..++.+|.+.|..+|+.+-.+.+ +--|--+. +.-.-.+.++-||.+|-+...+..-..+|.++++..+
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 36999999999999998765443 44443222 1112234578899999888867777778999888654
No 40
>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=36.37 E-value=77 Score=24.24 Aligned_cols=47 Identities=17% Similarity=0.160 Sum_probs=33.5
Q ss_pred CccEEEecccCcC-----cccHHHHHHHHHhcCCceeeecCC-c-CCccchhHH
Q 031540 10 KYDVFVSFRGEDT-----RDNFTSHLCSALCRQNIQTFIDDQ-L-NRGDEISES 56 (158)
Q Consensus 10 ~ydVFISy~~~D~-----~~~f~~~L~~~L~~~gi~~f~d~~-~-~~G~~i~~~ 56 (158)
.++|+|---+.+. -...+..|...|...|+++-+|.+ - .+|..+...
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~a 63 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDW 63 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHH
Confidence 4677776533220 135789999999999999999886 4 788766543
No 41
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=35.01 E-value=1.1e+02 Score=26.40 Aligned_cols=59 Identities=19% Similarity=0.205 Sum_probs=39.3
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEee
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFS 72 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS 72 (158)
.++|+|-.-+++. ...+..|...|++.|+++.+|.. +..+...+..|-+.---.++++-
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~---srSLgKQiK~AdK~GaPfvIIIG 332 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL---DDSLGNKIRRAGTEWIPFVIIIG 332 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEC
Confidence 5787776655543 35788999999999999999764 34555566666544333444444
No 42
>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=34.18 E-value=2e+02 Score=22.62 Aligned_cols=58 Identities=14% Similarity=0.186 Sum_probs=32.0
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCc-cchhHHHHHHHHhcCeEEEEe
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRG-DEISESLVNAIEASAISVIVF 71 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G-~~i~~~i~~aI~~S~~~Ivvl 71 (158)
|.+-|...+-....+..|...|+..|+++-....+.+| ..+. .+...|+++..-+|++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~-~~l~~i~~~~~~~vi~ 196 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFS-AILTKIKAANPDAVFF 196 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHH-HHHHHHHhcCCCEEEE
Confidence 44444333323356777888888888877554445555 3444 4445566554444443
No 43
>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=33.11 E-value=59 Score=22.27 Aligned_cols=29 Identities=7% Similarity=0.092 Sum_probs=22.0
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeee
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFI 43 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~ 43 (158)
||||....|. .-...+...|...|++++-
T Consensus 3 vlisv~~~dk--~~~~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSK--PELLPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCcccc--hhHHHHHHHHHHCCCEEEE
Confidence 8999987764 3455777888888888865
No 44
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=33.07 E-value=1.2e+02 Score=26.12 Aligned_cols=46 Identities=24% Similarity=0.218 Sum_probs=35.3
Q ss_pred HHHHHHHHhcC-eEEEEeecCCc-cChhhHHHHHHHHHHhhhccceee
Q 031540 55 ESLVNAIEASA-ISVIVFSEGYA-SSRWCLDELVKILECKKEYAQIVI 100 (158)
Q Consensus 55 ~~i~~aI~~S~-~~IvvlS~~y~-~S~wc~~El~~~~~~~~~~~~~ii 100 (158)
+.+.+++.+.+ +..++.+|+=. ..-|..+||.++.+..++.+-+||
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 46777888887 67777787654 688999999999997666666655
No 45
>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=32.80 E-value=1.2e+02 Score=18.63 Aligned_cols=59 Identities=24% Similarity=0.258 Sum_probs=33.1
Q ss_pred ccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 11 YDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 11 ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
.||+|-..+++. ..-+-.+...|++.|+++.++.. +..+...+..+-...-..++++.+
T Consensus 2 ~~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 2 VDVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred CcEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 367776544432 24577888999999999987653 122333343443322234455544
No 46
>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=32.52 E-value=2.6e+02 Score=22.35 Aligned_cols=76 Identities=16% Similarity=0.160 Sum_probs=50.9
Q ss_pred ccHHHHHHHHHhcCCceee-ecCC---cCCccchhHHHHHHH-H-hcCeEEEEeecCCccChhhHHHHHHHHHH-hhhcc
Q 031540 24 DNFTSHLCSALCRQNIQTF-IDDQ---LNRGDEISESLVNAI-E-ASAISVIVFSEGYASSRWCLDELVKILEC-KKEYA 96 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f-~d~~---~~~G~~i~~~i~~aI-~-~S~~~IvvlS~~y~~S~wc~~El~~~~~~-~~~~~ 96 (158)
..++..|.+.|.+.|+.+- .+.. +--|--.. +.-+ . ..++-||.+|.+...+.....+|.+++.. .++.+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vP---L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~ 166 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITA---CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQN 166 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHH---HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 3699999999999999885 5552 33333221 1223 2 46677888998886677777899998884 45545
Q ss_pred ceeeeE
Q 031540 97 QIVIPV 102 (158)
Q Consensus 97 ~~iiPV 102 (158)
.+|+-|
T Consensus 167 ~rV~iI 172 (271)
T cd07373 167 KRVAVV 172 (271)
T ss_pred CeEEEE
Confidence 566644
No 47
>PF08902 DUF1848: Domain of unknown function (DUF1848); InterPro: IPR014998 This group of proteins are functionally uncharacterised. The C terminus contains a cluster of cysteines that are similar to the iron-sulphur cluster found at the N terminus of IPR007197 from INTERPRO.
Probab=31.89 E-value=2.8e+02 Score=22.55 Aligned_cols=133 Identities=17% Similarity=0.255 Sum_probs=73.1
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecC-------CcCCccchhHHHHHHH-------HhcCeEE----EEe
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDD-------QLNRGDEISESLVNAI-------EASAISV----IVF 71 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~-------~~~~G~~i~~~i~~aI-------~~S~~~I----vvl 71 (158)
..|.++ |-.++.. .|..+| ..|.+.|++.++.- +++|+-+-.+++.+.. ..-++.. +++
T Consensus 47 ~Vd~iV-FWTKnp~-P~l~~L-~~l~~~gy~~yfq~Tit~Y~~~lEp~vP~~~~~i~~f~~Ls~~iG~~rViWRYDPIil 123 (266)
T PF08902_consen 47 DVDCIV-FWTKNPA-PFLPYL-DELDERGYPYYFQFTITGYGKDLEPNVPPKDERIETFRELSERIGPERVIWRYDPIIL 123 (266)
T ss_pred cceEEE-EecCCcH-HHHhhH-HHHHhCCCceEEEEEeCCCCccccCCCCCHHHHHHHHHHHHHHHCCCcEEEecCCEeE
Confidence 344444 5556543 577777 77888898877652 2666653333333332 2222221 466
Q ss_pred ecCCccChhhHHHHHHHHHHhhhccceeeeEEeecCcccccccCCchHHHHHHHHHHh-cCChHHHHHHHHHHHHhhccc
Q 031540 72 SEGYASSRWCLDELVKILECKKEYAQIVIPVFYLVDPSDARNQTGPFGISFSKLEERF-KENPEKLQTWRKALKEAASLS 150 (158)
Q Consensus 72 S~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf~~v~p~dvr~~~~~f~~~f~~~~~~~-~~~~e~~~~W~~al~~v~~~~ 150 (158)
+..|.- .|-++.+..+.+.......+++-=|++..+.--+ .|..+.-.. .-+++...+--..|.+++.-.
T Consensus 124 ~~~~~~-~~h~~~F~~la~~L~g~t~~~viSF~D~Y~k~~~--------~l~~~~~~~~~~~~~~~~~l~~~l~~ia~~~ 194 (266)
T PF08902_consen 124 TDKYTV-DYHLEAFERLAEALAGYTDRCVISFLDLYRKVRR--------NLARLGFRIREPSEEEKRELAKRLAEIAKKY 194 (266)
T ss_pred CCCCCH-HHHHHHHHHHHHHHhccCCEEEEEeeeccHHHHH--------HHHhhcCCCCCCCHHHHHHHHHHHHHHHHHc
Confidence 776554 5777777777776665556666556665333221 111111001 123566666667788888777
Q ss_pred Cccc
Q 031540 151 GFHS 154 (158)
Q Consensus 151 G~~~ 154 (158)
|..+
T Consensus 195 g~~l 198 (266)
T PF08902_consen 195 GMTL 198 (266)
T ss_pred CCEE
Confidence 7654
No 48
>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=31.85 E-value=1.5e+02 Score=19.55 Aligned_cols=48 Identities=13% Similarity=0.244 Sum_probs=34.0
Q ss_pred HHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccC
Q 031540 29 HLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASS 78 (158)
Q Consensus 29 ~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S 78 (158)
.+...|+-.|+..+... ...+.....+.+.++...+.|++++.++...
T Consensus 8 ~~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~ 55 (95)
T PF01990_consen 8 DTVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK 55 (95)
T ss_dssp HHHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT
T ss_pred HHHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH
Confidence 34556677898887754 1234455566667778999999999998874
No 49
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=31.82 E-value=43 Score=22.61 Aligned_cols=17 Identities=35% Similarity=0.741 Sum_probs=14.3
Q ss_pred CChHHHHHHHHHHHHhh
Q 031540 131 ENPEKLQTWRKALKEAA 147 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v~ 147 (158)
++++..++|..||..|+
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 46889999999998874
No 50
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=31.49 E-value=1.3e+02 Score=25.91 Aligned_cols=60 Identities=18% Similarity=0.258 Sum_probs=39.5
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
..||+|.+-+.+. ...+-.+...|+++|+++-+|.. +..+...+..|-+..-..++|+.+
T Consensus 325 ~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~~---~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 325 SIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDLS---SSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEeeC---CCCHHHHHHHHHHcCCCEEEEEec
Confidence 4789998754433 35677899999999999877542 344555666665544445666655
No 51
>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=31.48 E-value=1.9e+02 Score=23.37 Aligned_cols=62 Identities=10% Similarity=0.040 Sum_probs=34.9
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCcc-chhHHHHHHHHhcCeEEEEeecCC
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGD-EISESLVNAIEASAISVIVFSEGY 75 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~-~i~~~i~~aI~~S~~~IvvlS~~y 75 (158)
|.+-|...+-....+..+...+++.|+.+-....+.++. ++. .....|+.++.-+|++.-..
T Consensus 147 v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~-~~i~~l~~~~~d~v~~~~~~ 209 (347)
T cd06340 147 VALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLT-SEVLKLKAANPDAILPASYT 209 (347)
T ss_pred EEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchH-HHHHHHHhcCCCEEEEcccc
Confidence 555453222223567777778888888876544455554 444 44555666555555554433
No 52
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=31.37 E-value=1e+02 Score=22.13 Aligned_cols=21 Identities=24% Similarity=0.211 Sum_probs=8.2
Q ss_pred hhHHHHHHHHhcCeEEEEeec
Q 031540 53 ISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 53 i~~~i~~aI~~S~~~IvvlS~ 73 (158)
+.+.+.+.|.+++..|.+.++
T Consensus 22 ~~~~i~~~I~~A~~~I~i~~~ 42 (176)
T cd00138 22 DLDALLEAISNAKKSIYIASF 42 (176)
T ss_pred HHHHHHHHHHhhheEEEEEEe
Confidence 333333444444444433333
No 53
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=31.30 E-value=93 Score=21.67 Aligned_cols=9 Identities=33% Similarity=0.623 Sum_probs=3.6
Q ss_pred ccEEEeccc
Q 031540 11 YDVFVSFRG 19 (158)
Q Consensus 11 ydVFISy~~ 19 (158)
.||-|=|+.
T Consensus 68 ~DVvIDfT~ 76 (124)
T PF01113_consen 68 ADVVIDFTN 76 (124)
T ss_dssp -SEEEEES-
T ss_pred CCEEEEcCC
Confidence 455555543
No 54
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=31.22 E-value=1.1e+02 Score=22.06 Aligned_cols=57 Identities=11% Similarity=0.099 Sum_probs=39.0
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeE
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAIS 67 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~ 67 (158)
..++|+-..+.=....++..|..++..+|+-++.|-+ .+|+.|...|.+.+.++..+
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~~~ 85 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAKGA 85 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccccc
Confidence 3556666544311135788888888888888888874 57888887777777764443
No 55
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=30.41 E-value=3e+02 Score=22.71 Aligned_cols=74 Identities=14% Similarity=0.100 Sum_probs=46.3
Q ss_pred cEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHH
Q 031540 12 DVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDEL 85 (158)
Q Consensus 12 dVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El 85 (158)
.|+|-|....-.+++...+...|+.+|.++-.+....+++.-...+...|..+..-+|++........-..+++
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~ 223 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQA 223 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHH
Confidence 45665654443467889999999999997433333555553344666677777666666666666554444443
No 56
>PF13289 SIR2_2: SIR2-like domain
Probab=29.96 E-value=1.4e+02 Score=20.58 Aligned_cols=9 Identities=44% Similarity=0.545 Sum_probs=4.1
Q ss_pred HHHHHHHHH
Q 031540 26 FTSHLCSAL 34 (158)
Q Consensus 26 f~~~L~~~L 34 (158)
+-..|...|
T Consensus 76 ~~~~l~~~l 84 (143)
T PF13289_consen 76 FPNFLRSLL 84 (143)
T ss_pred HHHHHHHHH
Confidence 334444444
No 57
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=29.23 E-value=71 Score=29.01 Aligned_cols=59 Identities=19% Similarity=0.182 Sum_probs=38.0
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
.++|+|---+++ ....+..|...|+..|++|.+|++ -..|. .+.+|-..---.++|+-+
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgk----Kir~A~~~GiP~iIVIG~ 558 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGK----KIRDAGKEWIPYVVVIGD 558 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHH----HHHHHHHcCCCEEEEECc
Confidence 578877654443 346899999999999999999886 44444 444443322234444443
No 58
>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=29.12 E-value=3e+02 Score=22.76 Aligned_cols=52 Identities=8% Similarity=0.158 Sum_probs=29.5
Q ss_pred cHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhc---CeEEEEeecCCc
Q 031540 25 NFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEAS---AISVIVFSEGYA 76 (158)
Q Consensus 25 ~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S---~~~IvvlS~~y~ 76 (158)
.....|.+.|+..|+.+-....+.+++.-...+.+.|+.. ++.|+.....+.
T Consensus 147 ~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~ 201 (382)
T cd06371 147 ETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLI 201 (382)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeecccc
Confidence 4577788888888886644434555543333556666653 344443344444
No 59
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=28.83 E-value=1.4e+02 Score=19.71 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=25.2
Q ss_pred HHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhccceeeeEEe
Q 031540 58 VNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYAQIVIPVFY 104 (158)
Q Consensus 58 ~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf~ 104 (158)
...+..++.+|+|++..-..|-.=+.++...+...+..... +||++
T Consensus 68 ~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~-~piil 113 (119)
T PF08477_consen 68 QFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKN-IPIIL 113 (119)
T ss_dssp HHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSC-SEEEE
T ss_pred cchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCC-CCEEE
Confidence 33489999999999866444322222333333333322233 77665
No 60
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=28.40 E-value=78 Score=27.66 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=32.1
Q ss_pred CccEEEeccc-----CcCcccHHHHHHHHHhcCCceeeecC-C-cCCccchh
Q 031540 10 KYDVFVSFRG-----EDTRDNFTSHLCSALCRQNIQTFIDD-Q-LNRGDEIS 54 (158)
Q Consensus 10 ~ydVFISy~~-----~D~~~~f~~~L~~~L~~~gi~~f~d~-~-~~~G~~i~ 54 (158)
.++|+|---. .+.-...+..|...|+..|++|-+|. + -.+|..+.
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~ 338 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFN 338 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHH
Confidence 5888876531 11123578999999999999999998 4 56666544
No 61
>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=28.06 E-value=1.9e+02 Score=19.34 Aligned_cols=62 Identities=23% Similarity=0.184 Sum_probs=39.3
Q ss_pred HHHHHHHHHhcCCceee-ecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhc
Q 031540 26 FTSHLCSALCRQNIQTF-IDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEY 95 (158)
Q Consensus 26 f~~~L~~~L~~~gi~~f-~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~ 95 (158)
=+..|...|++.|+.+- +|-...+ +++.+.+.+.+--++.+|-.+.. ...++..+.+..++.
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~k~~ 78 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTP---NLPEAKRLARAIKER 78 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHHHhc
Confidence 35778899999999884 4433221 57778888888777888765443 444454544444433
No 62
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=28.06 E-value=2.3e+02 Score=20.37 Aligned_cols=92 Identities=21% Similarity=0.229 Sum_probs=46.6
Q ss_pred HHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhccceeeeEE--e
Q 031540 27 TSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYAQIVIPVF--Y 104 (158)
Q Consensus 27 ~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf--~ 104 (158)
+..|...|...|+.+.+- .|+ ..+.+.+-+++..+.-|++...|....- ..-..+.+...+.+..+.-+- +
T Consensus 55 L~~L~~~L~~~g~~L~v~----~g~-~~~~l~~l~~~~~~~~V~~~~~~~~~~~--~rd~~v~~~l~~~~i~~~~~~~~~ 127 (165)
T PF00875_consen 55 LADLQESLRKLGIPLLVL----RGD-PEEVLPELAKEYGATAVYFNEEYTPYER--RRDERVRKALKKHGIKVHTFDDHT 127 (165)
T ss_dssp HHHHHHHHHHTTS-EEEE----ESS-HHHHHHHHHHHHTESEEEEE---SHHHH--HHHHHHHHHHHHTTSEEEEE--SS
T ss_pred HHHHHHHHHhcCcceEEE----ecc-hHHHHHHHHHhcCcCeeEeccccCHHHH--HHHHHHHHHHHhcceEEEEECCcE
Confidence 367788888899887652 344 2335556677888999999988876322 111122222222222221111 1
Q ss_pred ecCcccccccCCchHHHHHHH
Q 031540 105 LVDPSDARNQTGPFGISFSKL 125 (158)
Q Consensus 105 ~v~p~dvr~~~~~f~~~f~~~ 125 (158)
=+.|.++....|..-..|...
T Consensus 128 L~~~~~i~~~~~~~~~vFtpf 148 (165)
T PF00875_consen 128 LVPPDDIPKKDGEPYKVFTPF 148 (165)
T ss_dssp SS-HHHCHSTTSSSHSSHHHH
T ss_pred EEeccccccCCCCCcccHHHH
Confidence 156888876666555555433
No 63
>PRK08350 hypothetical protein; Provisional
Probab=27.93 E-value=60 Score=27.36 Aligned_cols=31 Identities=13% Similarity=0.129 Sum_probs=27.9
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCce
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQ 40 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~ 40 (158)
.|-+.+|||+-++.+.|+.+|..+|...-|+
T Consensus 281 g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 281 RITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred CCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 6889999998888899999999999887776
No 64
>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=26.99 E-value=2.6e+02 Score=22.53 Aligned_cols=42 Identities=14% Similarity=0.251 Sum_probs=22.9
Q ss_pred ccHHHHHHHHHhcCCceeeecCCcCCc-cchhHHHHHHHHhcCe
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQLNRG-DEISESLVNAIEASAI 66 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~~~~G-~~i~~~i~~aI~~S~~ 66 (158)
...+..+...|++.|+.+-....+.++ ..+.+. ...|+.+..
T Consensus 152 ~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~s~~-i~~i~~~~~ 194 (347)
T cd06335 152 RSNRKDLTAALAARGLKPVAVEWFNWGDKDMTAQ-LLRAKAAGA 194 (347)
T ss_pred hhHHHHHHHHHHHcCCeeEEEeeecCCCccHHHH-HHHHHhCCC
Confidence 356677777777778776433334444 344433 344444443
No 65
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=26.69 E-value=2.3e+02 Score=21.01 Aligned_cols=66 Identities=14% Similarity=0.153 Sum_probs=41.6
Q ss_pred HHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhccceeeeEEee
Q 031540 26 FTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYAQIVIPVFYL 105 (158)
Q Consensus 26 f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf~~ 105 (158)
=+..|.+.-++.|+++++ -+|..+...+.+..+ -+..|.|- |..+|...++.....+..++-|+.+
T Consensus 74 ~Ig~l~~lae~~g~~v~i----~~Ggt~ar~~ik~~~-p~~iigVA---------C~~dL~~g~~~~~~~~ip~~gV~l~ 139 (158)
T PF01976_consen 74 DIGDLKKLAEKYGYKVYI----ATGGTLARKIIKEYR-PKAIIGVA---------CERDLISGIQDLKPLGIPVQGVLLD 139 (158)
T ss_pred chhHHHHHHHHcCCEEEE----EcChHHHHHHHHHhC-CCEEEEEe---------chHHHHHHHHHHhhcCCCeeEEEeC
Confidence 467788888899999987 345444433333222 12233332 9999999888766556677777654
No 66
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=26.62 E-value=1.6e+02 Score=26.38 Aligned_cols=60 Identities=15% Similarity=0.302 Sum_probs=38.7
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
..+|+|-.-+++. ...+..+...|+++|++|-+|.+ +..+...+..|-..---.++|+-+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~---~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA---GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECh
Confidence 4678776654433 35888999999999999999874 344555555554333334455543
No 67
>cd08584 PI-PLCc_GDPD_SF_unchar2 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=26.46 E-value=1.5e+02 Score=22.82 Aligned_cols=60 Identities=8% Similarity=0.045 Sum_probs=37.6
Q ss_pred cEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccC
Q 031540 12 DVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASS 78 (158)
Q Consensus 12 dVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S 78 (158)
.+|++.|..+.. .++-.|+.. ..| ||+|. + -+..+..++...+.+..+-|+++||.-..-
T Consensus 103 ~i~tr~Se~E~~-~~~~~~~~~--~~~--VW~D~-f-~~~~~~~~~~~~~~~~~~~~c~VSpELh~~ 162 (192)
T cd08584 103 RTATRVSEYEPI-PTALSLYEK--ADW--VWIDS-F-TSLWLDNDLILKLLKAGKKICLVSPELHGR 162 (192)
T ss_pred eeEEeecccccc-hHHHHhhcc--ccE--EEEec-c-cccCCCHHHHHHHHHCCcEEEEECHHHcCC
Confidence 477777654432 222222222 122 78887 3 346677788888888999999999986653
No 68
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=26.22 E-value=1.2e+02 Score=25.68 Aligned_cols=51 Identities=6% Similarity=0.200 Sum_probs=37.2
Q ss_pred cCcCcccHHHHHHHHHhcCCceeeecCC-cCC----ccchhHHHHHHHHhcCeEEE
Q 031540 19 GEDTRDNFTSHLCSALCRQNIQTFIDDQ-LNR----GDEISESLVNAIEASAISVI 69 (158)
Q Consensus 19 ~~D~~~~f~~~L~~~L~~~gi~~f~d~~-~~~----G~~i~~~i~~aI~~S~~~Iv 69 (158)
..|.|.+=+-.|...|..+|..|-..+- +.. |-.+.++..+++++++..|+
T Consensus 310 t~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 310 SDNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CCccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 3477888888999999999988766554 322 34456677788888887766
No 69
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=26.07 E-value=54 Score=23.53 Aligned_cols=36 Identities=28% Similarity=0.512 Sum_probs=23.0
Q ss_pred cchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHH
Q 031540 51 DEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKI 88 (158)
Q Consensus 51 ~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~ 88 (158)
..+...+.++|..-.-.|++.+..|-++ |+.||...
T Consensus 58 ~~~~~~L~~~i~~~~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 58 RELIEALIKAIGSIYGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHHHHHHHHHhhhhcCeEEEechHHHHH--HHHHHHHH
Confidence 3344555666655546777777776654 77777665
No 70
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=25.98 E-value=1.3e+02 Score=23.10 Aligned_cols=48 Identities=21% Similarity=0.325 Sum_probs=34.7
Q ss_pred HHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHh-------cCeEEEEeecCCcc
Q 031540 26 FTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEA-------SAISVIVFSEGYAS 77 (158)
Q Consensus 26 f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~-------S~~~IvvlS~~y~~ 77 (158)
..+.|...|.+.|+..+- ..|+.+.+++-+|+.. ....+-|+.+.|.-
T Consensus 123 ~~~~l~~~L~k~Gv~~i~----~~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l 177 (193)
T COG0576 123 TLDQLLDALEKLGVEEIG----PEGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKL 177 (193)
T ss_pred HHHHHHHHHHHCCCEEeC----CCCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeee
Confidence 346778888899997733 2499999999998853 33566677777754
No 71
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=25.97 E-value=76 Score=21.44 Aligned_cols=19 Identities=21% Similarity=0.389 Sum_probs=15.8
Q ss_pred CChHHHHHHHHHHHHhhcc
Q 031540 131 ENPEKLQTWRKALKEAASL 149 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v~~~ 149 (158)
.+++..++|.+||..|-+.
T Consensus 84 ~s~~e~~~Wi~ai~~v~~~ 102 (103)
T cd01251 84 ETEQDRREWIAAFQNVLSR 102 (103)
T ss_pred CCHHHHHHHHHHHHHHhcC
Confidence 4678899999999998654
No 72
>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=25.76 E-value=2.6e+02 Score=22.89 Aligned_cols=46 Identities=15% Similarity=0.221 Sum_probs=23.0
Q ss_pred cHHHHHHHHHhcCCc----eeeecCCcCCcc-chhHHHHHHHHhcCeEEEEe
Q 031540 25 NFTSHLCSALCRQNI----QTFIDDQLNRGD-EISESLVNAIEASAISVIVF 71 (158)
Q Consensus 25 ~f~~~L~~~L~~~gi----~~f~d~~~~~G~-~i~~~i~~aI~~S~~~Ivvl 71 (158)
..+..+.+.|+..|+ .+-....+.+|+ .+. .+.+.|+.++.-++|+
T Consensus 169 ~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d~~-~~l~~ik~~~~~vIvl 219 (377)
T cd06379 169 AAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVT-SLLQEAKELTSRVILL 219 (377)
T ss_pred HHHHHHHHHHHhcCCccceeeeEEEecCCchhhHH-HHHHHHhhcCCeEEEE
Confidence 366677777777777 332222244443 333 3444555544433333
No 73
>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=25.42 E-value=3.5e+02 Score=21.61 Aligned_cols=53 Identities=15% Similarity=0.214 Sum_probs=30.2
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCc---cchhHHHHHHHHhcCe
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRG---DEISESLVNAIEASAI 66 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G---~~i~~~i~~aI~~S~~ 66 (158)
|.+-|...+-....+..+...|++.|+.+-....+.+| ..+.+ +...|+.++-
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~-~l~~i~~~~~ 193 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITD-ALKKLKEKDS 193 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHH-HHHHHhcCCC
Confidence 44444433323456788888888888887555445565 34443 4445554433
No 74
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=25.18 E-value=3.5e+02 Score=23.86 Aligned_cols=87 Identities=20% Similarity=0.302 Sum_probs=50.7
Q ss_pred HHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHH-hhhccceeeeEEee-
Q 031540 28 SHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILEC-KKEYAQIVIPVFYL- 105 (158)
Q Consensus 28 ~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~-~~~~~~~iiPVf~~- 105 (158)
..|.++|...|+.+++-. |+... .+.+-+++..+..|+....|. .| ..+-..++.. ..+.+..+ -.|.+
T Consensus 58 ~~L~~~L~~~gi~L~v~~----~~~~~-~l~~~~~~~~~~~v~~n~~~~--~~-~~~rD~al~~~l~~~gi~~-~~~~d~ 128 (461)
T COG0415 58 QALQQSLAELGIPLLVRE----GDPEQ-VLPELAKQLAATTVFWNRDYE--EW-ERQRDAALAQPLTEVGIAV-HSFWDA 128 (461)
T ss_pred HHHHHHHHHcCCceEEEe----CCHHH-HHHHHHHHhCcceEEeeeeec--hh-HHHHHHHHHHHHHhcCceE-EEeccc
Confidence 457888899999998744 44332 455556666677777777883 33 3333333332 22233332 33433
Q ss_pred --cCcccccccCCchHHHHH
Q 031540 106 --VDPSDARNQTGPFGISFS 123 (158)
Q Consensus 106 --v~p~dvr~~~~~f~~~f~ 123 (158)
..|.+|+.+.|..-..|.
T Consensus 129 ~l~~p~~~~t~~~~~y~vfT 148 (461)
T COG0415 129 LLHEPGEVRTGSGEPYKVFT 148 (461)
T ss_pred cccCHhhccCCCCCCccccc
Confidence 678899887765444443
No 75
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=24.98 E-value=3.8e+02 Score=21.76 Aligned_cols=75 Identities=8% Similarity=0.090 Sum_probs=44.3
Q ss_pred cHHHHHHHHHhcCCceeeecCC--cCCccchhHHHHHHHHh-c--CeEEEEeecCCcc----ChhhHHHHHHHHHHhhh-
Q 031540 25 NFTSHLCSALCRQNIQTFIDDQ--LNRGDEISESLVNAIEA-S--AISVIVFSEGYAS----SRWCLDELVKILECKKE- 94 (158)
Q Consensus 25 ~f~~~L~~~L~~~gi~~f~d~~--~~~G~~i~~~i~~aI~~-S--~~~IvvlS~~y~~----S~wc~~El~~~~~~~~~- 94 (158)
.++.+|.+.|...|+.+-...+ +--|--+. +.-+.. . .+-||-+|-|... +..-..+|.+++....+
T Consensus 99 ~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vP---L~~l~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~~ 175 (278)
T PRK13364 99 ELSWHIIESLVEEEFDITTCQEMLVDHAFTLP---LELFWPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRAIAS 175 (278)
T ss_pred HHHHHHHHHHHHcCCCeecccCCCCCcchhhh---HHHhCcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHHHHh
Confidence 6999999999999998765443 44444332 122322 2 2335555544443 56666788888876532
Q ss_pred --ccceeeeE
Q 031540 95 --YAQIVIPV 102 (158)
Q Consensus 95 --~~~~iiPV 102 (158)
.+++|+-|
T Consensus 176 ~~~d~rV~iI 185 (278)
T PRK13364 176 WPSDERVVVI 185 (278)
T ss_pred cCCCCCEEEE
Confidence 34555544
No 76
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=24.78 E-value=2.3e+02 Score=19.22 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=36.4
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecCC--------------cCCccc-hhHHHHHHHHh-cCeEEEEeecC
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQ--------------LNRGDE-ISESLVNAIEA-SAISVIVFSEG 74 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~--------------~~~G~~-i~~~i~~aI~~-S~~~IvvlS~~ 74 (158)
||||-+..|. .-+..+...|...|++++--.. +.++.. -.+++.+.|++ -.+-+||..|+
T Consensus 2 i~isv~d~~K--~~~~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHVK--AMLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccH--HHHHHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 7888876664 3344666777777777654321 111100 12567888888 88888877765
No 77
>smart00646 Ami_3 Ami_3.
Probab=24.72 E-value=1e+02 Score=20.76 Aligned_cols=45 Identities=11% Similarity=0.250 Sum_probs=26.8
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCc---CCccchhHHHHHHHHh
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQL---NRGDEISESLVNAIEA 63 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~---~~G~~i~~~i~~aI~~ 63 (158)
..|+|||.+..-.... ..+|+.+|+...- ..+..+...|...+..
T Consensus 8 ~ad~~iSiH~Ns~~~~---------~~~G~~v~~~~~~~~~~~~~~la~~i~~~l~~ 55 (113)
T smart00646 8 KADLFVSIHANAGGAS---------AARGFEVYYYSDKGAIRESRALASIIQKSLVK 55 (113)
T ss_pred CCCEEEEEeeCCCCCC---------CCCEEEEEEECCCCCchHHHHHHHHHHHHHHH
Confidence 6899999853322111 2459999996652 3455566555555543
No 78
>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=24.65 E-value=1.2e+02 Score=23.09 Aligned_cols=45 Identities=16% Similarity=0.204 Sum_probs=36.4
Q ss_pred ccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEE
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVI 69 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~Iv 69 (158)
..-+..|..+.+.+|+-+|.|.+ .+|+.|...|.+.+.++..+-+
T Consensus 35 ~~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~khafi 79 (174)
T TIGR00334 35 DETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENCFI 79 (174)
T ss_pred HHHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEEee
Confidence 35677888888899999999985 5899999888888887776544
No 79
>PLN03194 putative disease resistance protein; Provisional
Probab=24.64 E-value=3.3e+02 Score=20.97 Aligned_cols=64 Identities=11% Similarity=0.245 Sum_probs=43.1
Q ss_pred cCCceeeecCC-cCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhccceeeeEE
Q 031540 36 RQNIQTFIDDQ-LNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYAQIVIPVF 103 (158)
Q Consensus 36 ~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf 103 (158)
++.+.||+.-+ -.-...+...+.++++...+.+++-........--..+|..+++. ....|.||
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIee----Sri~IvVf 88 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRN----CKVGVAVF 88 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHh----CeEEEEEE
Confidence 45788999775 333446788899999999888877555555444444566666553 34777777
No 80
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=24.62 E-value=1.9e+02 Score=25.71 Aligned_cols=60 Identities=12% Similarity=0.244 Sum_probs=39.1
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
.+||+|---+++. ...+..|...|++.|++|-+|.+ +..+...+..|-..---.++|+.+
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~ 535 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGD 535 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEec
Confidence 4688886644432 35788999999999999999875 334444555554443334555544
No 81
>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=24.53 E-value=44 Score=29.98 Aligned_cols=46 Identities=24% Similarity=0.447 Sum_probs=33.6
Q ss_pred CccEEEecc-cCc-CcccHHHHHHHHHhcCCceeeecCC-cCCccchhH
Q 031540 10 KYDVFVSFR-GED-TRDNFTSHLCSALCRQNIQTFIDDQ-LNRGDEISE 55 (158)
Q Consensus 10 ~ydVFISy~-~~D-~~~~f~~~L~~~L~~~gi~~f~d~~-~~~G~~i~~ 55 (158)
.|+|=|--- ..| .....+..|+..|+..|+.+.+|++ -.+|..+.+
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~d 521 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFAD 521 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHh
Confidence 577765432 222 2346889999999999999999998 677876654
No 82
>PF15409 PH_8: Pleckstrin homology domain
Probab=24.25 E-value=70 Score=21.53 Aligned_cols=16 Identities=38% Similarity=0.715 Sum_probs=13.2
Q ss_pred CChHHHHHHHHHHHHh
Q 031540 131 ENPEKLQTWRKALKEA 146 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v 146 (158)
.+++..+.|..||..+
T Consensus 73 ~s~~~f~~Wv~aL~~a 88 (89)
T PF15409_consen 73 KSQEDFQRWVSALQKA 88 (89)
T ss_pred CCHHHHHHHHHHHHhc
Confidence 3578999999999864
No 83
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=24.06 E-value=1.8e+02 Score=26.18 Aligned_cols=60 Identities=13% Similarity=0.165 Sum_probs=39.4
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
..||+|-.-++.. ...+..|...|+++|++|-+|.. +..+...+..|-+.---.++|+.+
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kki~~A~~~g~~~~iiiG~ 598 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDLR---NEKIGYKIREAQLQKVPYMLVVGD 598 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEECC---CCCHhHHHHHhhccCCCEEEEEcc
Confidence 4678877654433 35788999999999999988874 344444555554433345566654
No 84
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=23.03 E-value=2.8e+02 Score=19.67 Aligned_cols=86 Identities=13% Similarity=0.069 Sum_probs=50.7
Q ss_pred EEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHh
Q 031540 13 VFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECK 92 (158)
Q Consensus 13 VFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~ 92 (158)
|++.=-+.|..+-=++-+...|+..|+.|-.-. ++.-.+++.++..+.+.-++++|.-.... +..+..+.+..
T Consensus 5 v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~lg----~~~s~e~~v~aa~e~~adii~iSsl~~~~---~~~~~~~~~~L 77 (132)
T TIGR00640 5 ILVAKMGQDGHDRGAKVIATAYADLGFDVDVGP----LFQTPEEIARQAVEADVHVVGVSSLAGGH---LTLVPALRKEL 77 (132)
T ss_pred EEEEeeCCCccHHHHHHHHHHHHhCCcEEEECC----CCCCHHHHHHHHHHcCCCEEEEcCchhhh---HHHHHHHHHHH
Confidence 455444555543333445666888999984422 23333467778888888888888776553 33344444444
Q ss_pred hhccceeeeEEee
Q 031540 93 KEYAQIVIPVFYL 105 (158)
Q Consensus 93 ~~~~~~iiPVf~~ 105 (158)
++.+..-+||+..
T Consensus 78 ~~~g~~~i~vivG 90 (132)
T TIGR00640 78 DKLGRPDILVVVG 90 (132)
T ss_pred HhcCCCCCEEEEe
Confidence 4444445778775
No 85
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=22.90 E-value=1.1e+02 Score=26.11 Aligned_cols=49 Identities=14% Similarity=0.288 Sum_probs=29.2
Q ss_pred HHHHHhcCCceeeecCC-cCCccchhHHHHHHHHhcCe-EEEEeecCCccChhh
Q 031540 30 LCSALCRQNIQTFIDDQ-LNRGDEISESLVNAIEASAI-SVIVFSEGYASSRWC 81 (158)
Q Consensus 30 L~~~L~~~gi~~f~d~~-~~~G~~i~~~i~~aI~~S~~-~IvvlS~~y~~S~wc 81 (158)
+.+.|...|+.|++..+ +.. ..+. +..+.+...+. .|..++|||.+ .|.
T Consensus 300 ~~~~l~~~~ipVlf~~d~L~~-~~v~-ea~rql~~~dk~~iaFf~pny~~-~w~ 350 (360)
T PF07429_consen 300 FWQDLKEQGIPVLFYGDELDE-ALVR-EAQRQLANVDKQQIAFFAPNYLQ-GWR 350 (360)
T ss_pred HHHHHHhCCCeEEeccccCCH-HHHH-HHHHHHhhCcccceeeeCCchHH-HHH
Confidence 45677778888877654 422 2222 33344445544 47789999988 453
No 86
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=22.89 E-value=2.7e+02 Score=19.59 Aligned_cols=46 Identities=9% Similarity=0.039 Sum_probs=28.7
Q ss_pred HHHHHHHHhcCeEEEEeecCCccChhhHHHHHHHHHHhhhccceeeeEE
Q 031540 55 ESLVNAIEASAISVIVFSEGYASSRWCLDELVKILECKKEYAQIVIPVF 103 (158)
Q Consensus 55 ~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPVf 103 (158)
.-+.+.+..++..|+|++.+-. |...+...+.+..+....+.+-|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~~---~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQD---LTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTST---GGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCcc---cchHHHHHHHHHhcCCCCeEEEEE
Confidence 4566778899999999977663 444455555554444444555443
No 87
>cd01252 PH_cytohesin Cytohesin Pleckstrin homology (PH) domain. Cytohesin Pleckstrin homology (PH) domain. Cytohesin is an ARF-Guanine nucleotide Exchange Factor (GEF), which has a Sec7-type Arf-GEFdomain and a pleckstrin homology domain. It specifically binds phosphatidylinositol-3,4,5-trisphosphate (PtdIns(3,4, 5)P3) via its PH domain and it acts as a PI 3-kinase effector mediating biological responses such as cell adhesion and membrane trafficking. PH domains are only found in eukaryotes. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=22.80 E-value=85 Score=21.79 Aligned_cols=18 Identities=33% Similarity=0.669 Sum_probs=15.2
Q ss_pred CChHHHHHHHHHHHHhhc
Q 031540 131 ENPEKLQTWRKALKEAAS 148 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v~~ 148 (158)
.+++..++|..||..+..
T Consensus 97 ~s~~e~~~Wi~al~~~~~ 114 (125)
T cd01252 97 ANDEEMDEWIKSIKASIS 114 (125)
T ss_pred CCHHHHHHHHHHHHHHHh
Confidence 468999999999998764
No 88
>cd01219 PH_FGD FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD has a RhoGEF (DH) domain, followed by a PH domain, a FYVE domain and a C-terminal PH domain. FGD is a guanine nucleotide exchange factor that activates the Rho GTPase Cdc42. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=22.60 E-value=87 Score=21.03 Aligned_cols=18 Identities=11% Similarity=0.305 Sum_probs=15.0
Q ss_pred CChHHHHHHHHHHHHhhc
Q 031540 131 ENPEKLQTWRKALKEAAS 148 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v~~ 148 (158)
.+++...+|.+||..+.+
T Consensus 83 ~s~eEk~~W~~ai~~~i~ 100 (101)
T cd01219 83 RTQKEKNDWVQAIFSIID 100 (101)
T ss_pred CCHHHHHHHHHHHHHHhh
Confidence 468899999999998754
No 89
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=22.38 E-value=93 Score=19.02 Aligned_cols=17 Identities=35% Similarity=0.644 Sum_probs=14.1
Q ss_pred CChHHHHHHHHHHHHhh
Q 031540 131 ENPEKLQTWRKALKEAA 147 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v~ 147 (158)
.+++..++|..+|..+.
T Consensus 85 ~s~~~~~~W~~~i~~~~ 101 (102)
T smart00233 85 ESEEEREEWVDALRKAI 101 (102)
T ss_pred CCHHHHHHHHHHHHHhh
Confidence 35789999999998765
No 90
>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=22.24 E-value=1e+02 Score=19.83 Aligned_cols=36 Identities=22% Similarity=0.177 Sum_probs=26.8
Q ss_pred CCccEEEecccCcCcccHHHHHHHHHhcCCceeeecC
Q 031540 9 KKYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDD 45 (158)
Q Consensus 9 ~~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~ 45 (158)
++-=|+|+|--.+- ...-.+|...|.++|+.|+.-+
T Consensus 15 ~k~~v~i~HG~~eh-~~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEH-SGRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHH-HHHHHHHHHHHHhCCCEEEEEC
Confidence 36678999854432 2466789999999999998754
No 91
>PRK07933 thymidylate kinase; Validated
Probab=22.12 E-value=1.9e+02 Score=22.16 Aligned_cols=30 Identities=20% Similarity=0.245 Sum_probs=22.6
Q ss_pred EEecccCcCc--ccHHHHHHHHHhcCCceeee
Q 031540 14 FVSFRGEDTR--DNFTSHLCSALCRQNIQTFI 43 (158)
Q Consensus 14 FISy~~~D~~--~~f~~~L~~~L~~~gi~~f~ 43 (158)
||.+-|-|.. .+.+..|.+.|+.+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 7777666642 46889999999998887654
No 92
>PF12515 CaATP_NAI: Ca2+-ATPase N terminal autoinhibitory domain; InterPro: IPR024750 This entry represents the N-terminal autoinhibitory calmodulin-binding domain characteristic of certain calcium-transporting ATPases []. This domain binds calmodulin in a calcium-dependent fashion and has a conserved RRFR sequence motif. There are two completely conserved residues (F and W) that may be functionally important.; GO: 0005516 calmodulin binding
Probab=22.10 E-value=66 Score=19.11 Aligned_cols=13 Identities=38% Similarity=0.831 Sum_probs=10.9
Q ss_pred ChHHHHHHHHHHH
Q 031540 132 NPEKLQTWRKALK 144 (158)
Q Consensus 132 ~~e~~~~W~~al~ 144 (158)
.+|..++|+.|..
T Consensus 14 s~e~l~rWR~a~~ 26 (47)
T PF12515_consen 14 SEEALRRWRQAVG 26 (47)
T ss_pred CHHHHHHHHHHhH
Confidence 4789999999964
No 93
>cd01238 PH_Tec Tec pleckstrin homology (PH) domain. Tec pleckstrin homology (PH) domain. Proteins in the Tec family of cytoplasmic protein tyrosine kinases that includes Bruton's tyrosine kinase (BTK), BMX, IL2-inducible T-cell kinase (Itk) and Tec. These proteins generally have an N-terminal PH domain, followed by a Tek homology (TH) domain, a SH3 domain, a SH2 domain and a kinase domain. Tec PH domains tether these proteins to membranes following the activation of PI3K and its subsequent phosphorylation of phosphoinositides. The importance of PH domain membrane anchoring is confirmed by the discovery of a mutation of a critical arginine residue in the BTK PH domain, which causes X-linked agammaglobulinemia (XLA) in humans and a related disorder is mice. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few dis
Probab=21.93 E-value=76 Score=21.56 Aligned_cols=16 Identities=38% Similarity=0.553 Sum_probs=13.3
Q ss_pred CChHHHHHHHHHHHHh
Q 031540 131 ENPEKLQTWRKALKEA 146 (158)
Q Consensus 131 ~~~e~~~~W~~al~~v 146 (158)
.++++.++|..||.+|
T Consensus 91 ~s~~er~~WI~ai~~~ 106 (106)
T cd01238 91 PTEELRKRWIKALKQV 106 (106)
T ss_pred CCHHHHHHHHHHHHhC
Confidence 4578899999999875
No 94
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=21.45 E-value=2.2e+02 Score=23.92 Aligned_cols=60 Identities=20% Similarity=0.398 Sum_probs=39.8
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHH-hcCeEEEEeecCCcc
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIE-ASAISVIVFSEGYAS 77 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~-~S~~~IvvlS~~y~~ 77 (158)
-+|+-|.|+.+| |...|.++-- +||.+++|. .|..+.+.....+. ..|+.++=.=..|..
T Consensus 196 GfD~~idyk~~d----~~~~L~~a~P-~GIDvyfeN---VGg~v~DAv~~~ln~~aRi~~CG~IS~YN~ 256 (340)
T COG2130 196 GFDAGIDYKAED----FAQALKEACP-KGIDVYFEN---VGGEVLDAVLPLLNLFARIPVCGAISQYNA 256 (340)
T ss_pred CCceeeecCccc----HHHHHHHHCC-CCeEEEEEc---CCchHHHHHHHhhccccceeeeeehhhcCC
Confidence 689999997654 6666654443 799999987 46666666666665 456665544445554
No 95
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=21.35 E-value=64 Score=20.54 Aligned_cols=26 Identities=8% Similarity=0.334 Sum_probs=16.9
Q ss_pred CCceeeecCCcCCccchhHHHHHHHHh
Q 031540 37 QNIQTFIDDQLNRGDEISESLVNAIEA 63 (158)
Q Consensus 37 ~gi~~f~d~~~~~G~~i~~~i~~aI~~ 63 (158)
+.+-+++|.+ .+|+.....+.+.+..
T Consensus 47 ~~Vii~~D~D-~~G~~~a~~i~~~l~~ 72 (81)
T PF13662_consen 47 KEVIIAFDND-KAGEKAAQKIAKKLLP 72 (81)
T ss_dssp SEEEEEEESS-HHHHHHHHHHHHHHG-
T ss_pred ceEEEEeCcC-HHHHHHHHHHHHHHHh
Confidence 5677777775 4677777677665543
No 96
>PLN02530 histidine-tRNA ligase
Probab=20.93 E-value=2.5e+02 Score=24.55 Aligned_cols=60 Identities=13% Similarity=0.057 Sum_probs=39.8
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
..||+|.+-+++. ...+-.+...|+++|+++-++.. +..+...+..|-+.--..|+++.+
T Consensus 401 ~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~~---~~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 401 QVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVLE---PKKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEecC---CCCHHHHHHHHHHCCCCEEEEEch
Confidence 4689988755543 35778899999999999977643 234555565665544445666654
No 97
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=20.81 E-value=85 Score=19.11 Aligned_cols=21 Identities=14% Similarity=0.249 Sum_probs=13.7
Q ss_pred HHHHHHHHHhcCCceeeecCC
Q 031540 26 FTSHLCSALCRQNIQTFIDDQ 46 (158)
Q Consensus 26 f~~~L~~~L~~~gi~~f~d~~ 46 (158)
=+..+...|+.+||.+++.++
T Consensus 11 ea~~i~~~L~~~gI~~~v~~~ 31 (67)
T PF09413_consen 11 EAELIKGLLEENGIPAFVKNE 31 (67)
T ss_dssp HHHHHHHHHHHTT--EE--S-
T ss_pred HHHHHHHHHHhCCCcEEEECC
Confidence 467888999999999999776
No 98
>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=20.74 E-value=91 Score=25.68 Aligned_cols=32 Identities=34% Similarity=0.503 Sum_probs=20.5
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCcee
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQT 41 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~ 41 (158)
.|-+.+|||+-++.+.|+.+|...|...-|++
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 57899999988888899999999998776665
No 99
>smart00052 EAL Putative diguanylate phosphodiesterase. Putative diguanylate phosphodiesterase, present in a variety of bacteria.
Probab=20.52 E-value=3.7e+02 Score=19.98 Aligned_cols=13 Identities=8% Similarity=0.153 Sum_probs=6.4
Q ss_pred cHHHHHHHHHhcC
Q 031540 25 NFTSHLCSALCRQ 37 (158)
Q Consensus 25 ~f~~~L~~~L~~~ 37 (158)
.|...|...|.+.
T Consensus 100 ~~~~~l~~~l~~~ 112 (241)
T smart00052 100 DLVPRVLELLEET 112 (241)
T ss_pred hHHHHHHHHHHHc
Confidence 3555555555443
No 100
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=20.48 E-value=3.2e+02 Score=22.96 Aligned_cols=26 Identities=4% Similarity=-0.065 Sum_probs=15.4
Q ss_pred ccHHHHHHHHHhcCCceeeecCCcCC
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQLNR 49 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~~~~ 49 (158)
...+..|.++|++.|+.+-....+.+
T Consensus 186 ~~~~~~f~~~~~~~GicIa~~e~~~~ 211 (403)
T cd06361 186 RSALETFIIQAEANGVCIAFKEILPA 211 (403)
T ss_pred HHHHHHHHHHHHHCCeEEEEEEEecC
Confidence 34667777777777875533332433
No 101
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=20.36 E-value=2.6e+02 Score=25.30 Aligned_cols=61 Identities=13% Similarity=0.171 Sum_probs=40.1
Q ss_pred CccEEEecccCcCcccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHhcCeEEEEeec
Q 031540 10 KYDVFVSFRGEDTRDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEASAISVIVFSE 73 (158)
Q Consensus 10 ~ydVFISy~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 73 (158)
..+|+|-.-+++.....+..|...|++.|++|-+|.. +..+...+..|-+.---.++|+.+
T Consensus 541 p~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~~---~~sl~kq~k~A~k~g~~~~iiiG~ 601 (639)
T PRK12444 541 PVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDER---DEKLGYKIREAQMQKIPYVLVIGD 601 (639)
T ss_pred CceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEcc
Confidence 5778776655411236788999999999999998764 345555666665444445555554
No 102
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=20.34 E-value=89 Score=20.39 Aligned_cols=15 Identities=27% Similarity=0.516 Sum_probs=12.7
Q ss_pred CChHHHHHHHHHHHH
Q 031540 131 ENPEKLQTWRKALKE 145 (158)
Q Consensus 131 ~~~e~~~~W~~al~~ 145 (158)
.+++..++|..||..
T Consensus 81 ~s~~e~~~Wi~ai~~ 95 (96)
T cd01260 81 ETLDDLSQWVNHLIT 95 (96)
T ss_pred CCHHHHHHHHHHHHh
Confidence 468899999999975
No 103
>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=20.19 E-value=4.5e+02 Score=20.87 Aligned_cols=42 Identities=12% Similarity=0.070 Sum_probs=25.0
Q ss_pred ccHHHHHHHHHhcCCceeeecCCcCCc-cchhHHHHHHHHhcCe
Q 031540 24 DNFTSHLCSALCRQNIQTFIDDQLNRG-DEISESLVNAIEASAI 66 (158)
Q Consensus 24 ~~f~~~L~~~L~~~gi~~f~d~~~~~G-~~i~~~i~~aI~~S~~ 66 (158)
..++..+...|++.|+.+-.......+ ..+.+.+. .|..++.
T Consensus 149 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~~~ 191 (334)
T cd06327 149 HSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLL-QAQASGA 191 (334)
T ss_pred HHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHH-HHHhCCC
Confidence 357777888888888887554444444 35554444 4444433
No 104
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=20.15 E-value=2.1e+02 Score=22.20 Aligned_cols=97 Identities=16% Similarity=0.196 Sum_probs=56.1
Q ss_pred EEEecccCcC--cccHHHHHHHHHhcCCceeeecCCcCCccchhHHHHHHHHh---------------------------
Q 031540 13 VFVSFRGEDT--RDNFTSHLCSALCRQNIQTFIDDQLNRGDEISESLVNAIEA--------------------------- 63 (158)
Q Consensus 13 VFISy~~~D~--~~~f~~~L~~~L~~~gi~~f~d~~~~~G~~i~~~i~~aI~~--------------------------- 63 (158)
.||.+-|-|. +.+.+..|.+.|+.+|++|.+-.+ ..|.++...|.+.+.+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~trE-P~~~~ige~iR~~ll~~~~~~~~~~e~lLfaadR~~h~~~~i~ 82 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTRE-PGGTPIGEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEVIK 82 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC-CCCChHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 5888876664 246889999999999998877553 2222222222221111
Q ss_pred --cCeEEEEeecCCccChhhHHHH--------HHHHHHhhh-ccceeeeEEeecCccc
Q 031540 64 --SAISVIVFSEGYASSRWCLDEL--------VKILECKKE-YAQIVIPVFYLVDPSD 110 (158)
Q Consensus 64 --S~~~IvvlS~~y~~S~wc~~El--------~~~~~~~~~-~~~~iiPVf~~v~p~d 110 (158)
..-.-+|++..|..|.-+.+-. ...++.... .-..=+-+|++|+|..
T Consensus 83 pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~ 140 (208)
T COG0125 83 PALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEV 140 (208)
T ss_pred HhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHH
Confidence 1123478899999888877632 222221111 1123455777999875
No 105
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=20.14 E-value=1.6e+02 Score=23.76 Aligned_cols=42 Identities=21% Similarity=0.254 Sum_probs=26.4
Q ss_pred cHHHHHHHHHhcCCceeeecCCcCCccc---hhHHHHHHHHhcCeEE
Q 031540 25 NFTSHLCSALCRQNIQTFIDDQLNRGDE---ISESLVNAIEASAISV 68 (158)
Q Consensus 25 ~f~~~L~~~L~~~gi~~f~d~~~~~G~~---i~~~i~~aI~~S~~~I 68 (158)
+=+.+|.+.|...|+.+..-. .-||+ |.+.+..+++.+++.|
T Consensus 21 tNa~~la~~L~~~G~~v~~~~--~VgD~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 21 TNAAFLADELTELGVDLARIT--TVGDNPDRIVEALREASERADVVI 65 (255)
T ss_pred chHHHHHHHHHhcCceEEEEE--ecCCCHHHHHHHHHHHHhCCCEEE
Confidence 346789999999999886543 34544 4445555555544443
No 106
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=20.12 E-value=1.7e+02 Score=22.62 Aligned_cols=47 Identities=34% Similarity=0.371 Sum_probs=31.6
Q ss_pred cCcccHHHHHHHHHhcCC--ceeeecCCcCCccchhHHHHHHHHhcCeEEEEeecCCc
Q 031540 21 DTRDNFTSHLCSALCRQN--IQTFIDDQLNRGDEISESLVNAIEASAISVIVFSEGYA 76 (158)
Q Consensus 21 D~~~~f~~~L~~~L~~~g--i~~f~d~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 76 (158)
|..++|+-.|.+.|...| +.|+..+. +.. ..++..+--.+|+||.=-
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd~------~~~---~~~~~~~pd~iviSPGPG 56 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRNDD------ISL---ELIEALKPDAIVISPGPG 56 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECCc------cCH---HHHhhcCCCEEEEcCCCC
Confidence 444589999999999977 56665542 111 145666667888997643
Done!