Query 040920
Match_columns 163
No_of_seqs 157 out of 1249
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 13:07:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040920.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040920hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03210 Resistant to P. syrin 100.0 6.8E-46 1.5E-50 349.8 15.1 158 1-163 1-158 (1153)
2 PLN03194 putative disease resi 100.0 1.7E-45 3.7E-50 282.6 12.6 130 14-160 25-156 (187)
3 smart00255 TIR Toll - interleu 99.9 1.4E-26 2.9E-31 169.8 12.7 137 15-153 1-139 (140)
4 PF01582 TIR: TIR domain; Int 99.9 2.4E-28 5.2E-33 180.9 1.9 132 18-149 1-140 (141)
5 PF13676 TIR_2: TIR domain; PD 99.8 7.4E-20 1.6E-24 127.9 4.8 87 18-110 1-87 (102)
6 KOG3678 SARM protein (with ste 99.2 2.4E-11 5.2E-16 105.1 7.4 104 12-121 609-730 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.7 2.6E-08 5.6E-13 72.8 5.6 90 16-110 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 98.0 3.8E-05 8.2E-10 56.9 8.2 64 17-80 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.2 0.0012 2.6E-08 48.2 5.9 96 17-117 1-112 (125)
10 PF13271 DUF4062: Domain of un 95.2 0.064 1.4E-06 36.0 5.4 67 17-84 1-68 (83)
11 PF05014 Nuc_deoxyrib_tr: Nucl 93.0 0.62 1.3E-05 32.7 7.0 67 29-96 13-88 (113)
12 COG4916 Uncharacterized protei 92.9 0.11 2.5E-06 42.4 3.3 98 12-115 174-280 (329)
13 COG4271 Predicted nucleotide-b 92.0 0.63 1.4E-05 36.8 6.3 101 12-119 80-200 (233)
14 PF14258 DUF4350: Domain of un 84.0 7.5 0.00016 24.6 6.5 61 33-105 8-68 (70)
15 cd00860 ThrRS_anticodon ThrRS 74.0 15 0.00032 23.9 5.7 61 16-80 2-62 (91)
16 cd00738 HGTP_anticodon HGTP an 70.1 20 0.00044 23.2 5.8 60 16-79 2-64 (94)
17 PF03129 HGTP_anticodon: Antic 67.9 13 0.00028 24.6 4.4 49 29-80 15-63 (94)
18 PF14359 DUF4406: Domain of un 61.8 40 0.00087 23.0 6.0 62 33-96 19-85 (92)
19 cd00858 GlyRS_anticodon GlyRS 60.8 30 0.00064 24.3 5.4 62 15-81 26-89 (121)
20 KOG2792 Putative cytochrome C 57.8 11 0.00023 31.1 2.8 31 84-114 153-187 (280)
21 COG4916 Uncharacterized protei 57.7 12 0.00027 30.8 3.2 100 11-113 2-107 (329)
22 PF09441 Abp2: ARS binding pro 54.6 6 0.00013 30.2 0.9 57 83-149 54-111 (175)
23 PF09419 PGP_phosphatase: Mito 52.8 34 0.00073 26.1 4.8 68 38-110 35-112 (168)
24 cd01424 MGS_CPS_II Methylglyox 47.6 75 0.0016 21.7 5.6 61 17-79 2-76 (110)
25 PF03720 UDPG_MGDP_dh_C: UDP-g 46.9 20 0.00043 24.7 2.5 57 24-80 11-78 (106)
26 KOG1136 Predicted cleavage and 46.7 30 0.00066 29.8 4.0 46 65-110 191-242 (501)
27 COG1658 Small primase-like pro 46.0 36 0.00079 24.8 3.8 55 16-71 30-84 (127)
28 cd07363 45_DOPA_Dioxygenase Th 45.8 1.1E+02 0.0023 24.6 7.0 68 29-98 80-149 (253)
29 cd02426 Pol_gamma_b_Cterm C-te 45.6 18 0.00039 26.1 2.2 31 29-59 43-77 (128)
30 PF02310 B12-binding: B12 bind 45.2 97 0.0021 21.1 6.8 69 32-108 17-86 (121)
31 cd00532 MGS-like MGS-like doma 45.0 67 0.0014 22.3 5.0 60 18-79 2-77 (112)
32 cd00861 ProRS_anticodon_short 43.8 60 0.0013 21.1 4.5 49 30-81 18-66 (94)
33 cd07373 2A5CPDO_A The alpha su 42.7 1.8E+02 0.004 23.5 8.0 76 29-107 90-172 (271)
34 COG0710 AroD 3-dehydroquinate 42.6 89 0.0019 25.1 5.9 68 30-101 79-146 (231)
35 cd02042 ParA ParA and ParB of 41.0 1.1E+02 0.0023 20.3 6.0 64 18-81 3-74 (104)
36 TIGR00418 thrS threonyl-tRNA s 39.1 73 0.0016 28.5 5.5 62 14-79 469-530 (563)
37 TIGR00334 5S_RNA_mat_M5 ribonu 39.0 47 0.001 25.6 3.7 49 30-81 36-84 (174)
38 COG0400 Predicted esterase [Ge 37.7 66 0.0014 25.3 4.4 55 12-67 143-199 (207)
39 COG0415 PhrB Deoxyribodipyrimi 37.3 1.2E+02 0.0026 27.0 6.4 91 33-132 58-152 (461)
40 PF01990 ATP-synt_F: ATP synth 36.4 1E+02 0.0022 20.7 4.7 47 35-83 9-55 (95)
41 PF09837 DUF2064: Uncharacteri 35.7 1.6E+02 0.0035 20.9 8.0 85 13-107 8-95 (122)
42 PF11074 DUF2779: Domain of un 34.3 30 0.00065 25.2 1.9 34 58-93 60-93 (130)
43 cd01423 MGS_CPS_I_III Methylgl 33.8 55 0.0012 22.7 3.1 29 18-48 3-31 (116)
44 cd06342 PBP1_ABC_LIVBP_like Ty 33.4 2.2E+02 0.0048 22.7 7.1 58 18-76 138-196 (334)
45 PF00875 DNA_photolyase: DNA p 32.0 1.9E+02 0.004 21.1 6.0 94 33-133 56-151 (165)
46 cd06340 PBP1_ABC_ligand_bindin 31.2 2E+02 0.0043 23.5 6.6 64 17-81 146-210 (347)
47 KOG3043 Predicted hydrolase re 30.8 1.2E+02 0.0026 24.6 4.9 76 69-146 38-114 (242)
48 COG0683 LivK ABC-type branched 30.5 2.7E+02 0.0058 23.3 7.3 74 17-90 150-223 (366)
49 cd00859 HisRS_anticodon HisRS 29.7 1.4E+02 0.0031 18.5 5.0 58 17-78 3-60 (91)
50 PF13289 SIR2_2: SIR2-like dom 29.6 1.2E+02 0.0027 21.1 4.5 11 31-41 76-86 (143)
51 CHL00201 syh histidine-tRNA sy 29.4 1.2E+02 0.0027 26.2 5.2 61 14-78 324-384 (430)
52 PRK14938 Ser-tRNA(Thr) hydrola 28.5 1.5E+02 0.0032 25.9 5.4 61 15-79 274-334 (387)
53 PF10087 DUF2325: Uncharacteri 28.3 1.9E+02 0.0041 19.4 5.4 58 31-89 11-69 (97)
54 cd02951 SoxW SoxW family; SoxW 28.1 2E+02 0.0044 19.7 5.6 30 59-90 3-33 (125)
55 cd00138 PLDc Phospholipase D. 27.8 1E+02 0.0022 22.4 3.9 11 57-67 54-64 (176)
56 COG2130 Putative NADP-dependen 27.5 1.3E+02 0.0029 25.6 4.8 59 15-81 196-255 (340)
57 PF03618 Kinase-PPPase: Kinase 27.4 2.2E+02 0.0048 23.3 6.0 48 58-105 192-240 (255)
58 cd01241 PH_Akt Akt pleckstrin 27.1 54 0.0012 22.4 2.1 17 136-152 86-102 (102)
59 PRK12325 prolyl-tRNA synthetas 27.1 1.9E+02 0.004 25.3 5.9 65 15-82 345-411 (439)
60 PF10579 Rapsyn_N: Rapsyn N-te 26.3 41 0.00089 22.6 1.3 21 136-156 21-41 (80)
61 cd03364 TOPRIM_DnaG_primases T 26.2 82 0.0018 20.2 2.8 31 42-73 44-74 (79)
62 cd06352 PBP1_NPR_GC_like Ligan 26.0 3.3E+02 0.0072 22.4 7.1 41 29-70 152-195 (389)
63 PF01113 DapB_N: Dihydrodipico 25.2 1.2E+02 0.0025 21.4 3.6 9 16-24 68-76 (124)
64 PRK13364 protocatechuate 4,5-d 25.1 3.9E+02 0.0084 22.0 8.1 76 29-107 98-185 (278)
65 PHA02456 zinc metallopeptidase 25.0 1.1E+02 0.0023 22.2 3.3 47 61-110 55-105 (141)
66 COG0576 GrpE Molecular chapero 25.0 1.5E+02 0.0032 23.0 4.5 47 32-82 124-177 (193)
67 cd03411 Ferrochelatase_N Ferro 24.9 2.9E+02 0.0062 20.3 6.3 64 30-95 72-142 (159)
68 cd06335 PBP1_ABC_ligand_bindin 24.3 3E+02 0.0066 22.4 6.5 40 30-70 153-193 (347)
69 cd04142 RRP22 RRP22 subfamily. 24.0 3.2E+02 0.007 20.6 6.2 54 62-118 74-130 (198)
70 cd06386 PBP1_NPR_C_like Ligand 24.0 4.3E+02 0.0093 22.1 7.8 39 32-70 157-195 (387)
71 PRK14799 thrS threonyl-tRNA sy 23.8 1.9E+02 0.004 26.3 5.4 61 15-79 438-498 (545)
72 PF07894 DUF1669: Protein of u 23.7 4.3E+02 0.0093 22.0 7.1 78 44-136 121-198 (284)
73 PRK02228 V-type ATP synthase s 23.5 1.5E+02 0.0032 20.3 3.8 42 38-82 14-56 (100)
74 cd06366 PBP1_GABAb_receptor Li 23.0 3.8E+02 0.0082 21.7 6.8 51 18-69 138-191 (350)
75 cd06379 PBP1_iGluR_NMDA_NR1 N- 22.9 2.6E+02 0.0056 23.2 5.9 15 30-44 169-183 (377)
76 PF14386 DUF4417: Domain of un 22.8 99 0.0022 24.2 3.1 67 39-115 42-124 (200)
77 PLN02449 ferrochelatase 22.5 5.5E+02 0.012 23.1 8.0 78 31-110 165-252 (485)
78 PRK00413 thrS threonyl-tRNA sy 22.4 2E+02 0.0043 26.2 5.4 61 15-79 539-599 (638)
79 cd06361 PBP1_GPC6A_like Ligand 22.2 2.4E+02 0.0052 24.0 5.6 26 29-54 186-211 (403)
80 PRK12305 thrS threonyl-tRNA sy 21.7 2.1E+02 0.0045 25.7 5.3 61 15-79 476-536 (575)
81 PRK03991 threonyl-tRNA synthet 21.6 2.1E+02 0.0046 26.3 5.4 60 16-79 500-559 (613)
82 cd03028 GRX_PICOT_like Glutare 21.5 56 0.0012 21.6 1.3 24 72-95 9-34 (90)
83 TIGR01101 V_ATP_synt_F vacuola 21.4 1E+02 0.0022 22.1 2.6 45 57-111 47-91 (115)
84 PF08477 Miro: Miro-like prote 21.3 2E+02 0.0043 19.1 4.2 43 63-109 68-113 (119)
85 PRK07933 thymidylate kinase; V 21.2 2E+02 0.0043 22.3 4.5 30 19-48 2-33 (213)
86 COG1168 MalY Bifunctional PLP- 20.9 2.4E+02 0.0053 24.5 5.2 46 60-105 148-195 (388)
87 PF00350 Dynamin_N: Dynamin fa 20.8 3.2E+02 0.0069 19.4 5.6 46 60-108 120-165 (168)
88 COG1058 CinA Predicted nucleot 20.8 1.1E+02 0.0025 24.9 3.1 40 32-73 23-65 (255)
89 cd01266 PH_Gab Gab (Grb2-assoc 20.7 86 0.0019 21.5 2.1 17 136-152 92-108 (108)
90 cd02986 DLP Dim1 family, Dim1- 20.6 1.8E+02 0.0038 20.8 3.7 55 62-123 5-64 (114)
91 COG0529 CysC Adenylylsulfate k 20.5 64 0.0014 25.3 1.5 34 19-53 28-63 (197)
92 TIGR00640 acid_CoA_mut_C methy 20.2 3.4E+02 0.0074 19.5 8.7 87 17-110 4-90 (132)
93 cd06328 PBP1_SBP_like_2 Peripl 20.2 3.5E+02 0.0076 21.9 6.1 53 17-70 138-191 (333)
94 PF00762 Ferrochelatase: Ferro 20.1 2.9E+02 0.0062 23.1 5.5 51 31-81 74-127 (316)
95 PF08902 DUF1848: Domain of un 20.1 5E+02 0.011 21.4 7.4 127 22-159 53-198 (266)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=6.8e-46 Score=349.79 Aligned_cols=158 Identities=47% Similarity=0.754 Sum_probs=148.1
Q ss_pred CCCCCCCCCCCCCceeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCC
Q 040920 1 MASSSSSINMIPHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGY 80 (163)
Q Consensus 1 m~~~~~~~~~~~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y 80 (163)
||||||++ +.++|||||||||+|+|++|++||+.+|.++||.+|+|+++++|+.|.+++.+||++|+++|||||++|
T Consensus 1 ~~~~~~~~---~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~y 77 (1153)
T PLN03210 1 MASSSSSS---RNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNY 77 (1153)
T ss_pred CCCCCCCC---CCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCc
Confidence 77776544 358999999999999999999999999999999999998899999999999999999999999999999
Q ss_pred cCchhhHHHHHHHHHhhhhcCceeEeEEEecCCcccccccCchHHHHHHHHHHhhhChHHHHHHHHHHHHhhcccCcccC
Q 040920 81 ASSRLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEKIDMLQTWRIAMREAANLSGFDSH 160 (163)
Q Consensus 81 ~~S~wC~~El~~~~~~~~~~~~~viPVfy~v~p~~v~~q~~~f~~~f~~~~~~~~~~~e~~~~W~~aL~~v~~~~G~~~~ 160 (163)
++|.||++||++|++|.++++++|+||||+|+|+|||+|+|.||++|.+++++. +.+++++||.||++||+++||++.
T Consensus 78 a~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~ 155 (1153)
T PLN03210 78 ASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQ 155 (1153)
T ss_pred ccchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecC
Confidence 999999999999999999999999999999999999999999999999988764 478999999999999999999987
Q ss_pred CCC
Q 040920 161 GIR 163 (163)
Q Consensus 161 ~~~ 163 (163)
+++
T Consensus 156 ~~~ 158 (1153)
T PLN03210 156 NWP 158 (1153)
T ss_pred CCC
Confidence 653
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1.7e-45 Score=282.62 Aligned_cols=130 Identities=32% Similarity=0.562 Sum_probs=121.3
Q ss_pred ceeeEEEeccccccccchHHHHHHHHhcCCeeeeecCC-CCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHH
Q 040920 14 IKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDK-LNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVK 92 (163)
Q Consensus 14 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~ 92 (163)
..|||||||+|+|+|++|++||+.+|+++||++|+|+. +.+|+.|.+.|.+||++|+++|+|||++|++|.||++||++
T Consensus 25 ~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~ 104 (187)
T PLN03194 25 KPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELAL 104 (187)
T ss_pred CCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHH
Confidence 57999999999999999999999999999999999997 99999999999999999999999999999999999999999
Q ss_pred HHHhhhhcCceeEeEEEecCCcccccc-cCchHHHHHHHHHHhhhChHHHHHHHHHHHHhhcccCcccC
Q 040920 93 ILESKNKYGQIVVPVFYLVDPSDVRNQ-TGTFGDSFSKLEERFKEKIDMLQTWRIAMREAANLSGFDSH 160 (163)
Q Consensus 93 ~~~~~~~~~~~viPVfy~v~p~~v~~q-~~~f~~~f~~~~~~~~~~~e~~~~W~~aL~~v~~~~G~~~~ 160 (163)
|+++. ..||||||+|+|+|||+| .|. .+.+++++||.||++|++++|+++.
T Consensus 105 I~e~~----~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~ 156 (187)
T PLN03194 105 IMESK----KRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFD 156 (187)
T ss_pred HHHcC----CEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCC
Confidence 99873 489999999999999997 432 2368999999999999999999875
No 3
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.94 E-value=1.4e-26 Score=169.78 Aligned_cols=137 Identities=40% Similarity=0.651 Sum_probs=115.7
Q ss_pred eeeEEEeccc-cccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHH
Q 040920 15 KYDVFLSFRG-KDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKI 93 (163)
Q Consensus 15 ~ydVFISy~~-~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~ 93 (163)
+|||||||++ ++....|+.+|...|...|+.+|.|+....|... .+|.++|++|+++|+|+||+|+.|+||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchH-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 4899999998 3445689999999999999999998763333333 3999999999999999999999999999999999
Q ss_pred HHhhhh-cCceeEeEEEecCCcccccccCchHHHHHHHHHHhhhChHHHHHHHHHHHHhhc
Q 040920 94 LESKNK-YGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEKIDMLQTWRIAMREAAN 153 (163)
Q Consensus 94 ~~~~~~-~~~~viPVfy~v~p~~v~~q~~~f~~~f~~~~~~~~~~~e~~~~W~~aL~~v~~ 153 (163)
+++..+ +..+||||+++..|+++.++.+.++..+......+..+..+ +.|+.++..+.+
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 987654 67899999999999999999999999998776666543333 799999988764
No 4
>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=2.4e-28 Score=180.88 Aligned_cols=132 Identities=36% Similarity=0.526 Sum_probs=114.7
Q ss_pred EEEeccccccccchHHHHHHHHhcC--CeeeeecCC-CCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHH
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRK--KIETFIDDK-LNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKIL 94 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~--gi~~f~D~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~ 94 (163)
|||||++.+.+..|+.+|.++|+++ |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|.||+.||..|+
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 999999886 9999999999999999999999999999999999999999999
Q ss_pred HhhhhcC--ceeEeEEEecCCcccc-cccCchHHHHHHHHHHhhhC--hHHHHHHHHHHH
Q 040920 95 ESKNKYG--QIVVPVFYLVDPSDVR-NQTGTFGDSFSKLEERFKEK--IDMLQTWRIAMR 149 (163)
Q Consensus 95 ~~~~~~~--~~viPVfy~v~p~~v~-~q~~~f~~~f~~~~~~~~~~--~e~~~~W~~aL~ 149 (163)
++....+ ..|+|||+++.+++++ .+.+.|+..|..+.+....+ .++...|++++.
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 9876544 8999999999999999 79999999888776665433 578999999875
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.79 E-value=7.4e-20 Score=127.86 Aligned_cols=87 Identities=30% Similarity=0.462 Sum_probs=75.4
Q ss_pred EEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhh
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESK 97 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~ 97 (163)
|||||+++|. .++..|...|++.|+++|+|.++.+|+.+.+.|.++|++|+.+|+++|++|..|+||..|+..+.+
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 699999999999999999997789999999999999999999999999999999999999999843
Q ss_pred hhcCceeEeEEEe
Q 040920 98 NKYGQIVVPVFYL 110 (163)
Q Consensus 98 ~~~~~~viPVfy~ 110 (163)
.+..||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 45589999964
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.22 E-value=2.4e-11 Score=105.09 Aligned_cols=104 Identities=25% Similarity=0.349 Sum_probs=83.4
Q ss_pred CCceeeEEEeccccccccchHHHHHHHHhcCCeeeeecCC-CCCCCcchHHHHHhhhhCceEEEEeecCCc----C----
Q 040920 12 PHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDK-LNRGNEISPSLSSAIEGSKISIVIFSKGYA----S---- 82 (163)
Q Consensus 12 ~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~----~---- 82 (163)
-+.+.||||||+..- ...+++-|...|+-+|++||+|-+ +..|. +...+.+.|...+.+|+|++||.+ +
T Consensus 609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 346799999998764 457999999999999999999988 98886 567899999999999999999976 3
Q ss_pred chhhHHHHHHHHHhhhhcCceeEeEEE---------ecCCcccccccC
Q 040920 83 SRLCLNELVKILESKNKYGQIVVPVFY---------LVDPSDVRNQTG 121 (163)
Q Consensus 83 S~wC~~El~~~~~~~~~~~~~viPVfy---------~v~p~~v~~q~~ 121 (163)
-.|..+||..+++| +..|||||- ++.|.|++..+.
T Consensus 687 eDWVHKEl~~Afe~----~KNIiPI~D~aFE~Pt~ed~iPnDirmi~k 730 (832)
T KOG3678|consen 687 EDWVHKELKCAFEH----QKNIIPIFDTAFEFPTKEDQIPNDIRMITK 730 (832)
T ss_pred HHHHHHHHHHHHHh----cCCeeeeecccccCCCchhcCcHHHHHHHh
Confidence 45666677777766 459999994 256777775543
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=98.72 E-value=2.6e-08 Score=72.83 Aligned_cols=90 Identities=21% Similarity=0.326 Sum_probs=48.0
Q ss_pred eeEEEeccccccccchHHHHHHHHhcC-------Ceee-ee---------cCC-CCCCCcchHHHHHhhhhCceEEEEee
Q 040920 16 YDVFLSFRGKDVRHNFISHLNAALCRK-------KIET-FI---------DDK-LNRGNEISPSLSSAIEGSKISIVIFS 77 (163)
Q Consensus 16 ydVFISy~~~D~~~~fv~~L~~~L~~~-------gi~~-f~---------D~~-~~~G~~i~~~i~~aI~~S~~~IvvlS 77 (163)
|+|||||++.|.. ..+..|...+... .+.. |. +.. ....+.|...|.++|..|.++||+++
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 5799999998853 3677777777652 2211 11 111 12334678899999999999999999
Q ss_pred cCCcCchhhHHHHHHHHHhhhhcCceeEeEEEe
Q 040920 78 KGYASSRLCLNELVKILESKNKYGQIVVPVFYL 110 (163)
Q Consensus 78 ~~y~~S~wC~~El~~~~~~~~~~~~~viPVfy~ 110 (163)
++...|.|+..|+..+++ .+..||.|.+.
T Consensus 80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~~~ 108 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK----KGKPIIGVYLP 108 (130)
T ss_dssp TT----HHHHHHHHHHTT----T---EEEEETT
T ss_pred CCcccCcHHHHHHHHHHH----CCCCEEEEECC
Confidence 999999999999999876 35578887653
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=98.01 E-value=3.8e-05 Score=56.89 Aligned_cols=64 Identities=20% Similarity=0.365 Sum_probs=52.0
Q ss_pred eEEEeccccccc-cchHHHHHHHHhcC-CeeeeecCC-CC--CCCcchHHHHHhhhhCceEEEEeecCC
Q 040920 17 DVFLSFRGKDVR-HNFISHLNAALCRK-KIETFIDDK-LN--RGNEISPSLSSAIEGSKISIVIFSKGY 80 (163)
Q Consensus 17 dVFISy~~~D~~-~~fv~~L~~~L~~~-gi~~f~D~~-~~--~G~~i~~~i~~aI~~S~~~IvvlS~~y 80 (163)
.|||||++.... ...|..|...|++. |+.|.+|.. .. ++.....=+.+.+++++.+|+|+||.+
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 599999985432 36789999999999 999999986 52 366677777888999999999999554
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=97.17 E-value=0.0012 Score=48.21 Aligned_cols=96 Identities=21% Similarity=0.221 Sum_probs=68.2
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCC-CCCCCcchHHHHHhhhhCceEEEEeecCC-c------------C
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDK-LNRGNEISPSLSSAIEGSKISIVIFSKGY-A------------S 82 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y-~------------~ 82 (163)
.|||.|+ +|. ..+..+...|+..|+.+.+-.+ ...|..+.+.+.+.+.+++..|++++|+= . .
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 4899998 553 6888899999988887765444 78899999999999999999999999962 1 2
Q ss_pred chhhHHHHHHHHHhhhhcCceeEeEEEe--cCCcccc
Q 040920 83 SRLCLNELVKILESKNKYGQIVVPVFYL--VDPSDVR 117 (163)
Q Consensus 83 S~wC~~El~~~~~~~~~~~~~viPVfy~--v~p~~v~ 117 (163)
-...+.|+..++... +..+++-+.-+ --|||+.
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 344677888877642 23344444321 2355554
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=95.23 E-value=0.064 Score=35.98 Aligned_cols=67 Identities=19% Similarity=0.165 Sum_probs=49.1
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCCC-CCCCcchHHHHHhhhhCceEEEEeecCCcCch
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKL-NRGNEISPSLSSAIEGSKISIVIFSKGYASSR 84 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~-~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~ 84 (163)
.||||-.-.|.. .--..|...|.+.|.....-+.+ ..+....+.+++.|++|+++|.++-..|-..+
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~ 68 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP 68 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence 389998777753 34567777887777766543333 33556667899999999999999999997643
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=93.04 E-value=0.62 Score=32.69 Aligned_cols=67 Identities=18% Similarity=0.069 Sum_probs=50.1
Q ss_pred cchHHHHHHHHhcCCeeeeecCC--CC---CC----CcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHh
Q 040920 29 HNFISHLNAALCRKKIETFIDDK--LN---RG----NEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILES 96 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~--~~---~G----~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~ 96 (163)
..+...+.+.|++.|+.+|...+ .. .+ ..|.+.-.++|++|+++|+++...- .+.-+..|+..+...
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 46889999999999999997553 21 12 2344555679999999999998766 567788899998764
No 12
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=92.89 E-value=0.11 Score=42.40 Aligned_cols=98 Identities=17% Similarity=0.155 Sum_probs=67.0
Q ss_pred CCceeeEEEeccccccccchHHHHHHHHh--cCCeeeeecCC----CCCCCcchHHHHHhhh--hCceEEEEeecCCcCc
Q 040920 12 PHIKYDVFLSFRGKDVRHNFISHLNAALC--RKKIETFIDDK----LNRGNEISPSLSSAIE--GSKISIVIFSKGYASS 83 (163)
Q Consensus 12 ~~~~ydVFISy~~~D~~~~fv~~L~~~L~--~~gi~~f~D~~----~~~G~~i~~~i~~aI~--~S~~~IvvlS~~y~~S 83 (163)
..+.||+=|||.|+- | +.|+....+++ ..-+..|+|.. +-+|+ +. .++.-+- .|+..+|.+..+|...
T Consensus 174 ~~~~~DiG~SFaGEA-R-~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~-~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 174 SEKPVDSGISFAGEA-R-NLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LV-STLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred cccccceeeEeehhh-h-hHHHHHHHhhhcccCCceeeeechhhccccCcc-HH-HhcccccCceEEEEEEEeCCceEEe
Confidence 567899999999975 3 79999999998 33456777754 33443 22 3333332 5888999999999999
Q ss_pred hhhHHHHHHHHHhhhhcCceeEeEEE-ecCCcc
Q 040920 84 RLCLNELVKILESKNKYGQIVVPVFY-LVDPSD 115 (163)
Q Consensus 84 ~wC~~El~~~~~~~~~~~~~viPVfy-~v~p~~ 115 (163)
.||.-|...+-+.. .-+.+.||-| +++-+-
T Consensus 250 ~~c~~E~~~~r~~~--~~d~~~rI~~~~~d~~a 280 (329)
T COG4916 250 STCHIEGLEGRLNP--ILDTGFRIKYLYADNIA 280 (329)
T ss_pred eeeccchhhccccc--cccccceEEEEecCCcc
Confidence 99999987764421 1245667766 344433
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=91.98 E-value=0.63 Score=36.76 Aligned_cols=101 Identities=23% Similarity=0.222 Sum_probs=68.7
Q ss_pred CCceeeEEEeccccccccchHHHHHHHHhc--CCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCc--------
Q 040920 12 PHIKYDVFLSFRGKDVRHNFISHLNAALCR--KKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYA-------- 81 (163)
Q Consensus 12 ~~~~ydVFISy~~~D~~~~fv~~L~~~L~~--~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~-------- 81 (163)
++.+ .|||-|+++ ..+.....+|.+ +-..+|.|.-+..|..+.+.+.+-|.+++..|++.+|+=.
T Consensus 80 p~~k-kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~ 154 (233)
T COG4271 80 PNLK-KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSR 154 (233)
T ss_pred CCce-eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccch
Confidence 3344 999999763 366666666653 3456777777889999999999999999999999999844
Q ss_pred ------CchhhHHHHHHHHHhhhhcCceeEeEEEe----cCCcccccc
Q 040920 82 ------SSRLCLNELVKILESKNKYGQIVVPVFYL----VDPSDVRNQ 119 (163)
Q Consensus 82 ------~S~wC~~El~~~~~~~~~~~~~viPVfy~----v~p~~v~~q 119 (163)
.......||...+... ++.+|+-+.-+ --|||+...
T Consensus 155 ~k~~praRqNVifELGm~mgrL--gRkrv~Il~k~~envelPSDi~Gv 200 (233)
T COG4271 155 EKAFPRARQNVIFELGMFMGRL--GRKRVMILMKRDENVELPSDIAGV 200 (233)
T ss_pred hhccccccccchhhHhhHHhhc--ccceEEEEecccccccCccccCce
Confidence 1223567888777643 23344433321 237776543
No 14
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=83.98 E-value=7.5 Score=24.64 Aligned_cols=61 Identities=16% Similarity=0.094 Sum_probs=37.6
Q ss_pred HHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeE
Q 040920 33 SHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVV 105 (163)
Q Consensus 33 ~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~vi 105 (163)
.-|+.-|++.|+++-..+. ..+++....-++++++|.+.-+. ..++..+.+..+.++..||
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 4567778888988844331 12344557889999999966553 3455555555555555544
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=73.98 E-value=15 Score=23.86 Aligned_cols=61 Identities=10% Similarity=0.095 Sum_probs=39.4
Q ss_pred eeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCC
Q 040920 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGY 80 (163)
Q Consensus 16 ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y 80 (163)
++|+|...+.+. ...+-.+...|++.|+.+-+|.. +..+...+..|-+.---.++++.++-
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~---~~~~~~~~~~a~~~g~~~~iiig~~e 62 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR---NEKLGKKIREAQLQKIPYILVVGDKE 62 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcch
Confidence 677776654433 35678899999999999988663 33555566666544434555555544
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=70.08 E-value=20 Score=23.25 Aligned_cols=60 Identities=18% Similarity=0.193 Sum_probs=39.5
Q ss_pred eeEEEecccc---ccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 16 YDVFLSFRGK---DVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 16 ydVFISy~~~---D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
++|+|-.-+. .. ...+-.+...|++.|+.+-+|.. +..+...+..|-..--.+++++.++
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 5776665443 22 35777889999999999988663 3455556666655444577777764
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=67.85 E-value=13 Score=24.56 Aligned_cols=49 Identities=16% Similarity=0.175 Sum_probs=34.7
Q ss_pred cchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCC
Q 040920 29 HNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGY 80 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y 80 (163)
..++.+|...|.+.|+.+.+|.. +..+...+..|-..=--+++|+.++-
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~---~~~~~k~~~~a~~~g~p~~iiiG~~e 63 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS---DKSLGKQIKYADKLGIPFIIIIGEKE 63 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS---SSTHHHHHHHHHHTTESEEEEEEHHH
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCchhHHHHHHhhcCCeEEEEECchh
Confidence 36789999999999999998873 44555566666655445666666543
No 18
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=61.81 E-value=40 Score=22.97 Aligned_cols=62 Identities=15% Similarity=0.051 Sum_probs=41.4
Q ss_pred HHHHHHHhcCCeeeeecCCC--CCCCcchH---HHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHh
Q 040920 33 SHLNAALCRKKIETFIDDKL--NRGNEISP---SLSSAIEGSKISIVIFSKGYASSRLCLNELVKILES 96 (163)
Q Consensus 33 ~~L~~~L~~~gi~~f~D~~~--~~G~~i~~---~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~ 96 (163)
......|+..|..|.---.+ ..|.++.. .-...|..|+. +++=|+.-+|.-|.-|...+.+.
T Consensus 19 ~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~--i~~l~gWe~S~GA~~E~~~A~~l 85 (92)
T PF14359_consen 19 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDA--IYMLPGWENSRGARLEHELAKKL 85 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCE--EEEcCCcccCcchHHHHHHHHHC
Confidence 45778888899877532222 45544443 33445567774 34459999999999999998764
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=60.84 E-value=30 Score=24.35 Aligned_cols=62 Identities=11% Similarity=-0.020 Sum_probs=42.2
Q ss_pred eeeEEEeccc--cccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCc
Q 040920 15 KYDVFLSFRG--KDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYA 81 (163)
Q Consensus 15 ~ydVFISy~~--~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 81 (163)
.+||||-.-+ .+. ...+..|...|++.|+.+-+|.. ..+...+..|-+.---.++|+.++-.
T Consensus 26 p~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e~ 89 (121)
T cd00858 26 PIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDTL 89 (121)
T ss_pred CcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCch
Confidence 4788887755 322 35677899999999999988653 35666666665555556777776643
No 20
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=57.79 E-value=11 Score=31.14 Aligned_cols=31 Identities=39% Similarity=0.592 Sum_probs=22.3
Q ss_pred hhhHHHHHHHHHhh---h-hcCceeEeEEEecCCc
Q 040920 84 RLCLNELVKILESK---N-KYGQIVVPVFYLVDPS 114 (163)
Q Consensus 84 ~wC~~El~~~~~~~---~-~~~~~viPVfy~v~p~ 114 (163)
.=|.+||.++.... + ..+..++|||.-++|.
T Consensus 153 DICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 153 DICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred CcChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 34999998875532 2 3456777999999994
No 21
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=57.72 E-value=12 Score=30.81 Aligned_cols=100 Identities=17% Similarity=0.302 Sum_probs=71.9
Q ss_pred CCCceeeEEEeccccccccchHHHHHHHHhcCCeeeeecC--C-CCCCCcchHHHHHhhhh--CceEEEEeecCCcCchh
Q 040920 11 IPHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDD--K-LNRGNEISPSLSSAIEG--SKISIVIFSKGYASSRL 85 (163)
Q Consensus 11 ~~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~--~-~~~G~~i~~~i~~aI~~--S~~~IvvlS~~y~~S~w 85 (163)
+.+-++.+=+||.++|. .+++....-|...|+.+|+|- + -..|.++. .++..|.+ .-+.+...|.+|-.-.|
T Consensus 2 ~~~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~-~~~~e~~q~~~~~~~~f~~~~~~r~~~ 78 (329)
T COG4916 2 TRNVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLY-DYLSEIYQDKALFTIMFISEHYSRKMW 78 (329)
T ss_pred ccchheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHH-HHHHHHHhhhhHHHhhhhhccccCcCC
Confidence 35567888899999985 688888888888899998863 2 33455554 23333333 33577788999999999
Q ss_pred hHHHHHHHHH-hhhhcCceeEeEEEecCC
Q 040920 86 CLNELVKILE-SKNKYGQIVVPVFYLVDP 113 (163)
Q Consensus 86 C~~El~~~~~-~~~~~~~~viPVfy~v~p 113 (163)
-..|+..++. |..+....++|-.++..|
T Consensus 79 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 79 TNHERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred CcHHHHHHHHHHhhhccEEehhhhhccCC
Confidence 9999887754 455566788888887554
No 22
>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=54.65 E-value=6 Score=30.15 Aligned_cols=57 Identities=28% Similarity=0.353 Sum_probs=35.4
Q ss_pred chhhHHHHHHHHHhhhhcCceeEeEEEecCCccccc-ccCchHHHHHHHHHHhhhChHHHHHHHHHHH
Q 040920 83 SRLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRN-QTGTFGDSFSKLEERFKEKIDMLQTWRIAMR 149 (163)
Q Consensus 83 S~wC~~El~~~~~~~~~~~~~viPVfy~v~p~~v~~-q~~~f~~~f~~~~~~~~~~~e~~~~W~~aL~ 149 (163)
|.|-+.||..-++..+-+.=.=+-+.+.|+|-++.. |+ .++...+.-++++|+.|+.
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 568888887766654333323344566788887764 33 2223334678899999875
No 23
>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=52.78 E-value=34 Score=26.14 Aligned_cols=68 Identities=29% Similarity=0.347 Sum_probs=44.0
Q ss_pred HHhcCCeeeee-cCC--C-CCC-CcchHHHHHhhhhCce-----EEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeE
Q 040920 38 ALCRKKIETFI-DDK--L-NRG-NEISPSLSSAIEGSKI-----SIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPV 107 (163)
Q Consensus 38 ~L~~~gi~~f~-D~~--~-~~G-~~i~~~i~~aI~~S~~-----~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPV 107 (163)
.|.+.||+..+ |.+ + .++ +.+.+++.+.+++++. .|+|+|.+--++.---.+-+..++.. .+ |||
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~~--lg---Ipv 109 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEKA--LG---IPV 109 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHHh--hC---CcE
Confidence 48899999765 655 4 455 4678899888888773 48999998766653223333434321 22 888
Q ss_pred EEe
Q 040920 108 FYL 110 (163)
Q Consensus 108 fy~ 110 (163)
|..
T Consensus 110 l~h 112 (168)
T PF09419_consen 110 LRH 112 (168)
T ss_pred EEe
Confidence 743
No 24
>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=47.64 E-value=75 Score=21.72 Aligned_cols=61 Identities=21% Similarity=0.307 Sum_probs=36.4
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCC----C-CCCC---------cchHHHHHhhhhCceEEEEeecC
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDK----L-NRGN---------EISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~----~-~~G~---------~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
.||+|.+..|. .-...+.+.|.+.|+++|--.. + ..|- .=.++|.+.|++-++.+||-.++
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 3444677777778888875321 0 0110 01256777777777766666554
No 25
>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=46.85 E-value=20 Score=24.75 Aligned_cols=57 Identities=19% Similarity=0.286 Sum_probs=35.2
Q ss_pred ccccccchHHHHHHHHhcCCeeeeecCC-CC----------CCCcchHHHHHhhhhCceEEEEeecCC
Q 040920 24 GKDVRHNFISHLNAALCRKKIETFIDDK-LN----------RGNEISPSLSSAIEGSKISIVIFSKGY 80 (163)
Q Consensus 24 ~~D~~~~fv~~L~~~L~~~gi~~f~D~~-~~----------~G~~i~~~i~~aI~~S~~~IvvlS~~y 80 (163)
..|.|.+=+-.|.+.|.++|+.+...+- +. .|-.+.+.+.++++.++..|+....+-
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~~ 78 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHDE 78 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--GG
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCHH
Confidence 3477888889999999999999887543 21 123334567888999998776554443
No 26
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=46.72 E-value=30 Score=29.83 Aligned_cols=46 Identities=28% Similarity=0.532 Sum_probs=33.3
Q ss_pred hhhhCceEEEEeecCCc----CchhhHH-HHHHH-HHhhhhcCceeEeEEEe
Q 040920 65 AIEGSKISIVIFSKGYA----SSRLCLN-ELVKI-LESKNKYGQIVVPVFYL 110 (163)
Q Consensus 65 aI~~S~~~IvvlS~~y~----~S~wC~~-El~~~-~~~~~~~~~~viPVfy~ 110 (163)
.|..++--++|--..|+ .|..|.+ |+.+. .+|...++.++||||--
T Consensus 191 ~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFAL 242 (501)
T KOG1136|consen 191 WIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFAL 242 (501)
T ss_pred hhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeeec
Confidence 45566666666555676 5888976 55554 67888899999999963
No 27
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=45.96 E-value=36 Score=24.85 Aligned_cols=55 Identities=18% Similarity=0.169 Sum_probs=38.3
Q ss_pred eeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCce
Q 040920 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKI 71 (163)
Q Consensus 16 ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~ 71 (163)
.++|+-..+.-....+++.|..++..+|+-++.|-+ .+|+.|...|.+.+.++..
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~~ 84 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAKG 84 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhccccc
Confidence 456665544322246788888888888888888775 5788888888887777544
No 28
>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=45.78 E-value=1.1e+02 Score=24.57 Aligned_cols=68 Identities=16% Similarity=0.138 Sum_probs=47.5
Q ss_pred cchHHHHHHHHhcCCeeeeecCC--CCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhh
Q 040920 29 HNFISHLNAALCRKKIETFIDDK--LNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKN 98 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~--~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~ 98 (163)
..++.+|.+.|.+.|+.+-.+.+ +--|--+. +.-...+.++-||.+|-+...+..-..+|.++++...
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 37999999999999998865442 33332221 2222234578899999988877777789999987654
No 29
>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=45.60 E-value=18 Score=26.11 Aligned_cols=31 Identities=6% Similarity=0.037 Sum_probs=23.8
Q ss_pred cchHHHHHHHHhcCCeeeeecCCC----CCCCcch
Q 040920 29 HNFISHLNAALCRKKIETFIDDKL----NRGNEIS 59 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~~----~~G~~i~ 59 (163)
...+..|+..|++.|+.++.|+.. .+|..+.
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~ 77 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLD 77 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHH
Confidence 467889999999999999988763 3555443
No 30
>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=45.23 E-value=97 Score=21.09 Aligned_cols=69 Identities=17% Similarity=0.135 Sum_probs=42.1
Q ss_pred HHHHHHHHhcCCeeee-ecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeEE
Q 040920 32 ISHLNAALCRKKIETF-IDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVF 108 (163)
Q Consensus 32 v~~L~~~L~~~gi~~f-~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPVf 108 (163)
...|...|++.|+.+- +|-.... +++.+.+.+.+--++.+|-.+. |...++..+.+..++....+.-|+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~---~~~~~~~~l~~~~k~~~p~~~iv~ 86 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMT---PNLPEAKRLARAIKERNPNIPIVV 86 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSS---THHHHHHHHHHHHHTTCTTSEEEE
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCc---CcHHHHHHHHHHHHhcCCCCEEEE
Confidence 4678888999999885 4443211 6788888888877788876543 344455555554443333333333
No 31
>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=44.97 E-value=67 Score=22.27 Aligned_cols=60 Identities=23% Similarity=0.360 Sum_probs=37.9
Q ss_pred EEEeccccccccchHHHHHHHHhcCCeeeeecCC---------C-----CCCCc-chHHHHHhhhh-CceEEEEeecC
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRKKIETFIDDK---------L-----NRGNE-ISPSLSSAIEG-SKISIVIFSKG 79 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~---------~-----~~G~~-i~~~i~~aI~~-S~~~IvvlS~~ 79 (163)
||||-+..|. .-...+...|.+.|++++--.. + ..+.. -.+++.+.|.+ -++-+||..|+
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 3344666777777888764211 1 11100 12678888888 88888888776
No 32
>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=43.82 E-value=60 Score=21.09 Aligned_cols=49 Identities=16% Similarity=0.162 Sum_probs=33.1
Q ss_pred chHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCc
Q 040920 30 NFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYA 81 (163)
Q Consensus 30 ~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 81 (163)
..+..|...|++.|+++.+|.. +..+...+..|-..---+++++.++-.
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e~ 66 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKSA 66 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCchh
Confidence 5778899999999999998764 234444555555544456666665543
No 33
>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=42.65 E-value=1.8e+02 Score=23.53 Aligned_cols=76 Identities=13% Similarity=0.122 Sum_probs=51.0
Q ss_pred cchHHHHHHHHhcCCeeee-ecCC---CCCCCcchHHHHHhh--hhCceEEEEeecCCcCchhhHHHHHHHHHh-hhhcC
Q 040920 29 HNFISHLNAALCRKKIETF-IDDK---LNRGNEISPSLSSAI--EGSKISIVIFSKGYASSRLCLNELVKILES-KNKYG 101 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f-~D~~---~~~G~~i~~~i~~aI--~~S~~~IvvlS~~y~~S~wC~~El~~~~~~-~~~~~ 101 (163)
..++..+.+.|.+.|+.+- .|.. +--|--+ + +.-+ ...++-||.+|.+...+.....+|.+++.. .++.+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~v-P--L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~ 166 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTIT-A--CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQN 166 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHH-H--HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 4789999999999999885 5552 2233222 1 2223 246777888999887778888899999884 44445
Q ss_pred ceeEeE
Q 040920 102 QIVVPV 107 (163)
Q Consensus 102 ~~viPV 107 (163)
++|+-|
T Consensus 167 ~rV~iI 172 (271)
T cd07373 167 KRVAVV 172 (271)
T ss_pred CeEEEE
Confidence 566644
No 34
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=42.61 E-value=89 Score=25.15 Aligned_cols=68 Identities=18% Similarity=0.177 Sum_probs=43.2
Q ss_pred chHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcC
Q 040920 30 NFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYG 101 (163)
Q Consensus 30 ~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~ 101 (163)
.....|...++.+| ..|+|=++..+.....++.+.-.+-+ +|+|-+.+.+.+..+|+..++..+...+
T Consensus 79 ~~i~ll~~la~~~~-~d~iDiEl~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 79 EYIELLKKLAELNG-PDYIDIELSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHhhcC-CCEEEEEccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 45566666666666 56778773333222223333222333 8899999999999999999988765444
No 35
>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=41.03 E-value=1.1e+02 Score=20.31 Aligned_cols=64 Identities=13% Similarity=0.142 Sum_probs=40.8
Q ss_pred EEEeccccccccchHHHHHHHHhcCCeeeee-cCCC-------CCCCcchHHHHHhhhhCceEEEEeecCCc
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRKKIETFI-DDKL-------NRGNEISPSLSSAIEGSKISIVIFSKGYA 81 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~gi~~f~-D~~~-------~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 81 (163)
+|.|..+--.+..++.+|...|.++|.++.. |-+. --+-.+.+....++..|+..|+++.++..
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 3555554333346778999999888887764 3221 11112344556788889999888887643
No 36
>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=39.12 E-value=73 Score=28.52 Aligned_cols=62 Identities=10% Similarity=0.152 Sum_probs=43.3
Q ss_pred ceeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 14 IKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 14 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
...+|+|-.-+++. ...+..|...|++.|+.|-+|.. +..+...+..|-+.---.++|+.++
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~~ 530 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGDK 530 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEchh
Confidence 35788877655443 46788999999999999998763 4556666767655544566666654
No 37
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=39.04 E-value=47 Score=25.63 Aligned_cols=49 Identities=16% Similarity=0.234 Sum_probs=37.9
Q ss_pred chHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCc
Q 040920 30 NFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYA 81 (163)
Q Consensus 30 ~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~ 81 (163)
.-...|..+.+.+|+-+|.|.+ .+|+.|...|.+.+-++...- +++.++
T Consensus 36 ~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~khaf--i~~~~a 84 (174)
T TIGR00334 36 ETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENCF--IPKHLA 84 (174)
T ss_pred HHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEEe--eeHHhc
Confidence 4677788888899999999886 579999989988888777543 354444
No 38
>COG0400 Predicted esterase [General function prediction only]
Probab=37.70 E-value=66 Score=25.29 Aligned_cols=55 Identities=18% Similarity=0.132 Sum_probs=40.5
Q ss_pred CCceeeEEEecccccc--ccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhh
Q 040920 12 PHIKYDVFLSFRGKDV--RHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIE 67 (163)
Q Consensus 12 ~~~~ydVFISy~~~D~--~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~ 67 (163)
.....-|||+|-..|. ......+|.+.|+..|..|.... ...|-.|.++-.+++.
T Consensus 143 ~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 143 DLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAAR 199 (207)
T ss_pred ccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHH
Confidence 4567889999988886 34567899999999999987644 3467677765555544
No 39
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=37.29 E-value=1.2e+02 Score=27.01 Aligned_cols=91 Identities=19% Similarity=0.309 Sum_probs=53.9
Q ss_pred HHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhh-hhcCceeEeEEE--
Q 040920 33 SHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESK-NKYGQIVVPVFY-- 109 (163)
Q Consensus 33 ~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~-~~~~~~viPVfy-- 109 (163)
..|..+|...|+.+++-. |+.. ..+.+-+++..+..|+...+| .. |..+-..++... .+.+..+. .|.
T Consensus 58 ~~L~~~L~~~gi~L~v~~----~~~~-~~l~~~~~~~~~~~v~~n~~~--~~-~~~~rD~al~~~l~~~gi~~~-~~~d~ 128 (461)
T COG0415 58 QALQQSLAELGIPLLVRE----GDPE-QVLPELAKQLAATTVFWNRDY--EE-WERQRDAALAQPLTEVGIAVH-SFWDA 128 (461)
T ss_pred HHHHHHHHHcCCceEEEe----CCHH-HHHHHHHHHhCcceEEeeeee--ch-hHHHHHHHHHHHHHhcCceEE-Eeccc
Confidence 358888899999998743 4433 255566666667788888888 33 333344333322 22233222 244
Q ss_pred -ecCCcccccccCchHHHHHHHHH
Q 040920 110 -LVDPSDVRNQTGTFGDSFSKLEE 132 (163)
Q Consensus 110 -~v~p~~v~~q~~~f~~~f~~~~~ 132 (163)
-..|.+|+.+.|..-+.|....+
T Consensus 129 ~l~~p~~~~t~~~~~y~vfT~F~k 152 (461)
T COG0415 129 LLHEPGEVRTGSGEPYKVFTPFYK 152 (461)
T ss_pred cccCHhhccCCCCCCccccchHHH
Confidence 36899999988855544544333
No 40
>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=36.39 E-value=1e+02 Score=20.72 Aligned_cols=47 Identities=13% Similarity=0.203 Sum_probs=33.2
Q ss_pred HHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCc
Q 040920 35 LNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASS 83 (163)
Q Consensus 35 L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S 83 (163)
+..-|+-.|+..+... ...+.....+.+.++..++.|++++++++..
T Consensus 9 ~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~ 55 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK 55 (95)
T ss_dssp HHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT
T ss_pred HHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH
Confidence 3445566798887754 0123455677777778999999999998873
No 41
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=35.68 E-value=1.6e+02 Score=20.90 Aligned_cols=85 Identities=14% Similarity=0.251 Sum_probs=44.7
Q ss_pred CceeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhC---ceEEEEeecCCcCchhhHHH
Q 040920 13 HIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGS---KISIVIFSKGYASSRLCLNE 89 (163)
Q Consensus 13 ~~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S---~~~IvvlS~~y~~S~wC~~E 89 (163)
...+|++|.|.+.+.+ .....+ ....++.++. +.|.++.+.+.+|++.. .-.|+++.-+... -+...
T Consensus 8 ~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~~----Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~~~ 77 (122)
T PF09837_consen 8 ADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFFP----QQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTPDD 77 (122)
T ss_dssp TSSSEEEEEE----TT-HHHHHH---HH-TTSEEEE------SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----HHH
T ss_pred CCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEee----cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCHHH
Confidence 3468999999876542 333333 3334555543 46777777777777765 3367777776654 35556
Q ss_pred HHHHHHhhhhcCceeEeE
Q 040920 90 LVKILESKNKYGQIVVPV 107 (163)
Q Consensus 90 l~~~~~~~~~~~~~viPV 107 (163)
|..+.+..+....++-|-
T Consensus 78 l~~A~~~L~~~d~VlgPa 95 (122)
T PF09837_consen 78 LEQAFEALQRHDVVLGPA 95 (122)
T ss_dssp HHHHHHHTTT-SEEEEEB
T ss_pred HHHHHHHhccCCEEEeec
Confidence 777776665555555553
No 42
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=34.30 E-value=30 Score=25.22 Aligned_cols=34 Identities=29% Similarity=0.440 Sum_probs=20.3
Q ss_pred chHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHH
Q 040920 58 ISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKI 93 (163)
Q Consensus 58 i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~ 93 (163)
+...+.++|..-...|++.+..|-++ |+.||..+
T Consensus 60 ~~~~L~~~i~~~~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 60 LIEALIKAIGSIYGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHHHHHHHhhhhcCeEEEechHHHHH--HHHHHHHH
Confidence 33455555555445677777766554 77777665
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=33.83 E-value=55 Score=22.71 Aligned_cols=29 Identities=7% Similarity=0.082 Sum_probs=21.9
Q ss_pred EEEeccccccccchHHHHHHHHhcCCeeeee
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRKKIETFI 48 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~gi~~f~ 48 (163)
||||.+..|. .-...+.+.|...|++++-
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 7999987764 3455777888888988864
No 44
>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=33.40 E-value=2.2e+02 Score=22.70 Aligned_cols=58 Identities=14% Similarity=0.173 Sum_probs=31.7
Q ss_pred EEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCC-CcchHHHHHhhhhCceEEEEe
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRG-NEISPSLSSAIEGSKISIVIF 76 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G-~~i~~~i~~aI~~S~~~Ivvl 76 (163)
|.+-|...+.....+..|...|+..|+++-....+.+| .++. .+...|.++..-+|++
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 44444433333456677888888888877544445555 3444 4445566554434433
No 45
>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=31.98 E-value=1.9e+02 Score=21.14 Aligned_cols=94 Identities=19% Similarity=0.261 Sum_probs=47.7
Q ss_pred HHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeEE--Ee
Q 040920 33 SHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVF--YL 110 (163)
Q Consensus 33 ~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPVf--y~ 110 (163)
..|...|.+.|+...+ ..|+ ..+.+.+-+++..+.-|++..+|..-.- ..-..+.+...+.+-.+.-+- +-
T Consensus 56 ~~L~~~L~~~g~~L~v----~~g~-~~~~l~~l~~~~~~~~V~~~~~~~~~~~--~rd~~v~~~l~~~~i~~~~~~~~~L 128 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLV----LRGD-PEEVLPELAKEYGATAVYFNEEYTPYER--RRDERVRKALKKHGIKVHTFDDHTL 128 (165)
T ss_dssp HHHHHHHHHTTS-EEE----EESS-HHHHHHHHHHHHTESEEEEE---SHHHH--HHHHHHHHHHHHTTSEEEEE--SSS
T ss_pred HHHHHHHHhcCcceEE----Eecc-hHHHHHHHHHhcCcCeeEeccccCHHHH--HHHHHHHHHHHhcceEEEEECCcEE
Confidence 4688888889998765 2344 3345556677788888989988875221 111111121111122221110 12
Q ss_pred cCCcccccccCchHHHHHHHHHH
Q 040920 111 VDPSDVRNQTGTFGDSFSKLEER 133 (163)
Q Consensus 111 v~p~~v~~q~~~f~~~f~~~~~~ 133 (163)
+.|.++....|..-..|....+.
T Consensus 129 ~~~~~i~~~~~~~~~vFtpf~k~ 151 (165)
T PF00875_consen 129 VPPDDIPKKDGEPYKVFTPFRKK 151 (165)
T ss_dssp S-HHHCHSTTSSSHSSHHHHHHH
T ss_pred EeccccccCCCCCcccHHHHHHH
Confidence 56888887777666666544443
No 46
>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=31.15 E-value=2e+02 Score=23.50 Aligned_cols=64 Identities=6% Similarity=0.040 Sum_probs=35.7
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCC-cchHHHHHhhhhCceEEEEeecCCc
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGN-EISPSLSSAIEGSKISIVIFSKGYA 81 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~-~i~~~i~~aI~~S~~~IvvlS~~y~ 81 (163)
.|.+-+...+-....+..+...+++.|+.+-....+.+++ ++.+ +...|..++.-+|++.-...
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~-~i~~l~~~~~d~v~~~~~~~ 210 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTS-EVLKLKAANPDAILPASYTN 210 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHH-HHHHHHhcCCCEEEEcccch
Confidence 3555453322224566777778888888876444455553 4544 44556666555555554443
No 47
>KOG3043 consensus Predicted hydrolase related to dienelactone hydrolase [General function prediction only]
Probab=30.84 E-value=1.2e+02 Score=24.62 Aligned_cols=76 Identities=14% Similarity=0.135 Sum_probs=51.1
Q ss_pred CceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeEEEecCCcccccccCchHHHHHHHHH-HhhhChHHHHHHHH
Q 040920 69 SKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEE-RFKEKIDMLQTWRI 146 (163)
Q Consensus 69 S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPVfy~v~p~~v~~q~~~f~~~f~~~~~-~~~~~~e~~~~W~~ 146 (163)
+...|++|+.=|-.+.--..|+...+.+. +=.+++|=||..+|-....|...+.+-+..+-- ....+-..+.+|.+
T Consensus 38 ~~~~li~i~DvfG~~~~n~r~~Adk~A~~--Gy~v~vPD~~~Gdp~~~~~~~~~~~~w~~~~~~~~~~~~i~~v~k~lk 114 (242)
T KOG3043|consen 38 SKKVLIVIQDVFGFQFPNTREGADKVALN--GYTVLVPDFFRGDPWSPSLQKSERPEWMKGHSPPKIWKDITAVVKWLK 114 (242)
T ss_pred CCeEEEEEEeeeccccHHHHHHHHHHhcC--CcEEEcchhhcCCCCCCCCChhhhHHHHhcCCcccchhHHHHHHHHHH
Confidence 45799999999988776666766665542 456899999999999988887666554443311 11123455666665
No 48
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=30.50 E-value=2.7e+02 Score=23.26 Aligned_cols=74 Identities=15% Similarity=0.094 Sum_probs=45.4
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHH
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNEL 90 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El 90 (163)
.|+|-++...-.+.+...+.+.|+..|.++-.+....+++.-...+...|..+..-+|++...+....-...++
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 45555654444467888888899988987433344555543244666666666666666666665554444444
No 49
>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=29.74 E-value=1.4e+02 Score=18.51 Aligned_cols=58 Identities=21% Similarity=0.197 Sum_probs=33.5
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeec
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSK 78 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 78 (163)
||+|...+.+. ..-+-.+...|++.|+.+.++.. +..+...+..|-..--..++++.+
T Consensus 3 ~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 3 DVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred cEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 67776544332 23467788999999999877543 123444444444333335555554
No 50
>PF13289 SIR2_2: SIR2-like domain
Probab=29.65 E-value=1.2e+02 Score=21.06 Aligned_cols=11 Identities=27% Similarity=0.335 Sum_probs=4.9
Q ss_pred hHHHHHHHHhc
Q 040920 31 FISHLNAALCR 41 (163)
Q Consensus 31 fv~~L~~~L~~ 41 (163)
+-..|...|..
T Consensus 76 ~~~~l~~~l~~ 86 (143)
T PF13289_consen 76 FPNFLRSLLRS 86 (143)
T ss_pred HHHHHHHHHcC
Confidence 33444444533
No 51
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=29.37 E-value=1.2e+02 Score=26.23 Aligned_cols=61 Identities=13% Similarity=0.152 Sum_probs=40.6
Q ss_pred ceeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeec
Q 040920 14 IKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSK 78 (163)
Q Consensus 14 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~ 78 (163)
...||+|.+-+.+. ...+-.+...|++.|+++-+|-. +..+...+..|-+.--..++|+.+
T Consensus 324 ~~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~~---~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 324 QSIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDLS---SSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEeeC---CCCHHHHHHHHHHcCCCEEEEEec
Confidence 34789998754432 35677889999999999877542 344566666666554456666665
No 52
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=28.50 E-value=1.5e+02 Score=25.86 Aligned_cols=61 Identities=16% Similarity=0.160 Sum_probs=40.7
Q ss_pred eeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 15 ~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
.++|+|-.-+++. ...+..|...|++.|+.+.+|.. +..+..++..|-+.---.++++.++
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~---srSLgKQiK~AdK~GaPfvIIIGed 334 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL---DDSLGNKIRRAGTEWIPFVIIIGER 334 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECch
Confidence 3677776655443 35678899999999999988763 3456667777665444455555543
No 53
>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=28.29 E-value=1.9e+02 Score=19.36 Aligned_cols=58 Identities=12% Similarity=0.054 Sum_probs=35.8
Q ss_pred hHHHHHHHHhcCCeeeeecCCCCCCC-cchHHHHHhhhhCceEEEEeecCCcCchhhHHH
Q 040920 31 FISHLNAALCRKKIETFIDDKLNRGN-EISPSLSSAIEGSKISIVIFSKGYASSRLCLNE 89 (163)
Q Consensus 31 fv~~L~~~L~~~gi~~f~D~~~~~G~-~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~E 89 (163)
....+...+++.|...-.. .-..|. .-...|...|.+++++|++..----+..|...+
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 5677888888899876554 111121 122247889999999888766544444554443
No 54
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=28.14 E-value=2e+02 Score=19.69 Aligned_cols=30 Identities=20% Similarity=0.218 Sum_probs=20.2
Q ss_pred hHHHHHhhhhC-ceEEEEeecCCcCchhhHHHH
Q 040920 59 SPSLSSAIEGS-KISIVIFSKGYASSRLCLNEL 90 (163)
Q Consensus 59 ~~~i~~aI~~S-~~~IvvlS~~y~~S~wC~~El 90 (163)
.+++.+|+++- +..++.|.-..+ ++|....
T Consensus 3 ~~~~~~a~~~~~k~vlv~f~a~wC--~~C~~~~ 33 (125)
T cd02951 3 YEDLAEAAADGKKPLLLLFSQPGC--PYCDKLK 33 (125)
T ss_pred HHHHHHHHHcCCCcEEEEEeCCCC--HHHHHHH
Confidence 35778888888 777777765543 5676543
No 55
>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=27.83 E-value=1e+02 Score=22.38 Aligned_cols=11 Identities=27% Similarity=0.166 Sum_probs=4.8
Q ss_pred cchHHHHHhhh
Q 040920 57 EISPSLSSAIE 67 (163)
Q Consensus 57 ~i~~~i~~aI~ 67 (163)
.+.+.|.++.+
T Consensus 54 ~l~~~L~~a~~ 64 (176)
T cd00138 54 VILDALLAAAR 64 (176)
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 56
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=27.51 E-value=1.3e+02 Score=25.56 Aligned_cols=59 Identities=17% Similarity=0.363 Sum_probs=39.7
Q ss_pred eeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhh-CceEEEEeecCCc
Q 040920 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEG-SKISIVIFSKGYA 81 (163)
Q Consensus 15 ~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~-S~~~IvvlS~~y~ 81 (163)
.||+-|.|+.+ .|...|.++-- +||.+|+|. .|-.+.+.....+.. .|+.+|=.=..|.
T Consensus 196 GfD~~idyk~~----d~~~~L~~a~P-~GIDvyfeN---VGg~v~DAv~~~ln~~aRi~~CG~IS~YN 255 (340)
T COG2130 196 GFDAGIDYKAE----DFAQALKEACP-KGIDVYFEN---VGGEVLDAVLPLLNLFARIPVCGAISQYN 255 (340)
T ss_pred CCceeeecCcc----cHHHHHHHHCC-CCeEEEEEc---CCchHHHHHHHhhccccceeeeeehhhcC
Confidence 48999999765 37777766665 699999987 566677777776664 4554443333344
No 57
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=27.45 E-value=2.2e+02 Score=23.26 Aligned_cols=48 Identities=21% Similarity=0.171 Sum_probs=30.2
Q ss_pred chHHHHHhhhhCceEEEEe-ecCCcCchhhHHHHHHHHHhhhhcCceeE
Q 040920 58 ISPSLSSAIEGSKISIVIF-SKGYASSRLCLNELVKILESKNKYGQIVV 105 (163)
Q Consensus 58 i~~~i~~aI~~S~~~Ivvl-S~~y~~S~wC~~El~~~~~~~~~~~~~vi 105 (163)
+.++-+..|++.|.--.=+ ..+|++-.-|.+||..+-+..+..+-.+|
T Consensus 192 idp~~L~~IR~~Rl~~lg~~~s~Ya~~~~i~~El~~A~~l~~~~~~pvI 240 (255)
T PF03618_consen 192 IDPERLIEIRRERLKSLGLDDSSYADLERIEEELEYAERLFRKLGCPVI 240 (255)
T ss_pred CCHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCEE
Confidence 4445555566555422111 35799999999999999886655444444
No 58
>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=27.06 E-value=54 Score=22.39 Aligned_cols=17 Identities=24% Similarity=0.386 Sum_probs=14.0
Q ss_pred hChHHHHHHHHHHHHhh
Q 040920 136 EKIDMLQTWRIAMREAA 152 (163)
Q Consensus 136 ~~~e~~~~W~~aL~~v~ 152 (163)
++++..+.|..||..|+
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 35788999999998874
No 59
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=27.05 E-value=1.9e+02 Score=25.28 Aligned_cols=65 Identities=14% Similarity=0.043 Sum_probs=41.1
Q ss_pred eeeEEEeccc--cccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcC
Q 040920 15 KYDVFLSFRG--KDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYAS 82 (163)
Q Consensus 15 ~ydVFISy~~--~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~ 82 (163)
.++|.|---. .+.....+..|...|.+.|+.|.+|+. +..+...+..|-..---.++|+.++-+.
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~---~~~lg~ki~~a~~~giP~~iiVG~~e~~ 411 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDT---DERPGAKFATMDLIGLPWQIIVGPKGLA 411 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECC---CCCHhHHHHHHHHcCCCEEEEECCcccc
Confidence 4788776432 122246788999999999999999875 2233334444444434466777766543
No 60
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=26.26 E-value=41 Score=22.64 Aligned_cols=21 Identities=29% Similarity=0.517 Sum_probs=17.2
Q ss_pred hChHHHHHHHHHHHHhhcccC
Q 040920 136 EKIDMLQTWRIAMREAANLSG 156 (163)
Q Consensus 136 ~~~e~~~~W~~aL~~v~~~~G 156 (163)
++.+-+.+|+.||.++.+-.+
T Consensus 21 ~~~~Al~~W~~aL~k~~~~~~ 41 (80)
T PF10579_consen 21 ETQQALQKWRKALEKITDRED 41 (80)
T ss_pred hHHHHHHHHHHHHhhcCChHH
Confidence 346779999999999988664
No 61
>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=26.18 E-value=82 Score=20.18 Aligned_cols=31 Identities=10% Similarity=0.134 Sum_probs=17.1
Q ss_pred CCeeeeecCCCCCCCcchHHHHHhhhhCceEE
Q 040920 42 KKIETFIDDKLNRGNEISPSLSSAIEGSKISI 73 (163)
Q Consensus 42 ~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~I 73 (163)
+.+-+++|.+ .+|......+.+.+..-...+
T Consensus 44 ~~vii~~D~D-~aG~~a~~~~~~~l~~~g~~~ 74 (79)
T cd03364 44 KEVILAFDGD-EAGQKAALRALELLLKLGLNV 74 (79)
T ss_pred CeEEEEECCC-HHHHHHHHHHHHHHHHCCCeE
Confidence 4666667765 456555555555555444333
No 62
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=26.05 E-value=3.3e+02 Score=22.43 Aligned_cols=41 Identities=15% Similarity=0.072 Sum_probs=23.4
Q ss_pred cchHHHHHHHHhcCCeeeeecCCCCCC---CcchHHHHHhhhhCc
Q 040920 29 HNFISHLNAALCRKKIETFIDDKLNRG---NEISPSLSSAIEGSK 70 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~~~~G---~~i~~~i~~aI~~S~ 70 (163)
...+..+.++|++.|+.+-....+.++ ..+...+ +.|..+.
T Consensus 152 ~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~ 195 (389)
T cd06352 152 FFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEIL-QDIKRRS 195 (389)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHH-HHhhhcc
Confidence 355677778887778776443334444 3454444 4455544
No 63
>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=25.18 E-value=1.2e+02 Score=21.45 Aligned_cols=9 Identities=33% Similarity=0.612 Sum_probs=4.0
Q ss_pred eeEEEeccc
Q 040920 16 YDVFLSFRG 24 (163)
Q Consensus 16 ydVFISy~~ 24 (163)
.||-|-|+.
T Consensus 68 ~DVvIDfT~ 76 (124)
T PF01113_consen 68 ADVVIDFTN 76 (124)
T ss_dssp -SEEEEES-
T ss_pred CCEEEEcCC
Confidence 555555553
No 64
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=25.12 E-value=3.9e+02 Score=21.95 Aligned_cols=76 Identities=11% Similarity=0.089 Sum_probs=44.5
Q ss_pred cchHHHHHHHHhcCCeeeeecCC--CCCCCcchHHHHHhhh-hC--ceEEEEeecCCcC----chhhHHHHHHHHHhhhh
Q 040920 29 HNFISHLNAALCRKKIETFIDDK--LNRGNEISPSLSSAIE-GS--KISIVIFSKGYAS----SRLCLNELVKILESKNK 99 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~--~~~G~~i~~~i~~aI~-~S--~~~IvvlS~~y~~----S~wC~~El~~~~~~~~~ 99 (163)
..++.+|.+.|.+.|+.+-...+ +--|--+. +.-+. +. .+-||-+|-|... +..-..+|.+++....+
T Consensus 98 ~~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vP---L~~l~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~ 174 (278)
T PRK13364 98 TELSWHIIESLVEEEFDITTCQEMLVDHAFTLP---LELFWPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRAIA 174 (278)
T ss_pred HHHHHHHHHHHHHcCCCeecccCCCCCcchhhh---HHHhCcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHHHH
Confidence 36899999999999998765433 33343222 12222 22 2335555555544 67777789888875422
Q ss_pred ---cCceeEeE
Q 040920 100 ---YGQIVVPV 107 (163)
Q Consensus 100 ---~~~~viPV 107 (163)
.+++|+-|
T Consensus 175 ~~~~d~rV~iI 185 (278)
T PRK13364 175 SWPSDERVVVI 185 (278)
T ss_pred hcCCCCCEEEE
Confidence 34555544
No 65
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=25.01 E-value=1.1e+02 Score=22.21 Aligned_cols=47 Identities=21% Similarity=0.368 Sum_probs=33.0
Q ss_pred HHHHhhhhCceEEEEeecCCcCchhhHH----HHHHHHHhhhhcCceeEeEEEe
Q 040920 61 SLSSAIEGSKISIVIFSKGYASSRLCLN----ELVKILESKNKYGQIVVPVFYL 110 (163)
Q Consensus 61 ~i~~aI~~S~~~IvvlS~~y~~S~wC~~----El~~~~~~~~~~~~~viPVfy~ 110 (163)
++-..+..+-...+++.|||.+ +-|.+ ||..+.+.+ .-..|.||-|-
T Consensus 55 ~L~~~LCG~~~~~i~IDP~~~~-KGC~~TL~HEL~H~WQ~R--sYG~i~PITY~ 105 (141)
T PHA02456 55 ALPQDLCGQFVGWIEIDPDYAN-KGCRDTLAHELNHAWQFR--TYGLVQPITYA 105 (141)
T ss_pred hcCcchhhcceeEEEECCcccc-cchHHHHHHHHHHHHhhh--ccceeeeeehh
Confidence 3444556788899999999998 45765 566666543 24579999873
No 66
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=24.98 E-value=1.5e+02 Score=23.04 Aligned_cols=47 Identities=23% Similarity=0.422 Sum_probs=35.2
Q ss_pred HHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhC-------ceEEEEeecCCcC
Q 040920 32 ISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGS-------KISIVIFSKGYAS 82 (163)
Q Consensus 32 v~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S-------~~~IvvlS~~y~~ 82 (163)
.+.|...|.+.|+..+- ..|+.+.|++.+|+... ...+-|+.+.|.-
T Consensus 124 ~~~l~~~L~k~Gv~~i~----~~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l 177 (193)
T COG0576 124 LDQLLDALEKLGVEEIG----PEGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKL 177 (193)
T ss_pred HHHHHHHHHHCCCEEeC----CCCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeee
Confidence 46788888999997743 25899999999998743 3567777777743
No 67
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=24.90 E-value=2.9e+02 Score=20.35 Aligned_cols=64 Identities=16% Similarity=0.281 Sum_probs=36.7
Q ss_pred chHHHHHHHHhcCC--eeeeecCCCCCCCcchHHHHHhhhh---CceEEEEeecCCcCc--hhhHHHHHHHHH
Q 040920 30 NFISHLNAALCRKK--IETFIDDKLNRGNEISPSLSSAIEG---SKISIVIFSKGYASS--RLCLNELVKILE 95 (163)
Q Consensus 30 ~fv~~L~~~L~~~g--i~~f~D~~~~~G~~i~~~i~~aI~~---S~~~IvvlS~~y~~S--~wC~~El~~~~~ 95 (163)
..+..|.+.|.+.+ +.++.- +.-|.+..++..+.+.+ .++.++.+.|.|..+ .-+.+++..++.
T Consensus 72 ~q~~~l~~~L~~~~~~~~v~~a--mry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~ 142 (159)
T cd03411 72 AQAEALEKALDERGIDVKVYLA--MRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALK 142 (159)
T ss_pred HHHHHHHHHHhccCCCcEEEeh--HhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHH
Confidence 45566777776643 333332 44455544444444433 556778888887743 346667766654
No 68
>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=24.31 E-value=3e+02 Score=22.40 Aligned_cols=40 Identities=18% Similarity=0.263 Sum_probs=19.5
Q ss_pred chHHHHHHHHhcCCeeeeecCCCCCC-CcchHHHHHhhhhCc
Q 040920 30 NFISHLNAALCRKKIETFIDDKLNRG-NEISPSLSSAIEGSK 70 (163)
Q Consensus 30 ~fv~~L~~~L~~~gi~~f~D~~~~~G-~~i~~~i~~aI~~S~ 70 (163)
..+..+.+.|++.|+.+-....+.++ .++.+.+ ..|.++.
T Consensus 153 ~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~s~~i-~~i~~~~ 193 (347)
T cd06335 153 SNRKDLTAALAARGLKPVAVEWFNWGDKDMTAQL-LRAKAAG 193 (347)
T ss_pred hHHHHHHHHHHHcCCeeEEEeeecCCCccHHHHH-HHHHhCC
Confidence 45566666666667665432224443 2344333 3344333
No 69
>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=24.02 E-value=3.2e+02 Score=20.64 Aligned_cols=54 Identities=11% Similarity=0.121 Sum_probs=32.9
Q ss_pred HHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhc---CceeEeEEEecCCccccc
Q 040920 62 LSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKY---GQIVVPVFYLVDPSDVRN 118 (163)
Q Consensus 62 i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~---~~~viPVfy~v~p~~v~~ 118 (163)
...+++.++.+|+|++.+ ++.-++++...++..... ...-+|++.-....|+..
T Consensus 74 ~~~~~~~ad~iilv~D~~---~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~ 130 (198)
T cd04142 74 RFRGLRNSRAFILVYDIC---SPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR 130 (198)
T ss_pred HHhhhccCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence 445788999999999975 444455554444322111 123368877666777644
No 70
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=24.01 E-value=4.3e+02 Score=22.10 Aligned_cols=39 Identities=10% Similarity=-0.007 Sum_probs=22.4
Q ss_pred HHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCc
Q 040920 32 ISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSK 70 (163)
Q Consensus 32 v~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~ 70 (163)
+..|...|+..|+.+-.......++.-..++.+.|+.+.
T Consensus 157 ~~~l~~~~~~~gi~v~~~~~~~~~~~d~~~~l~~ik~~~ 195 (387)
T cd06386 157 LEGVHHVFQEEGYHMSIYPFDETKDLDLDEIIRAIQASE 195 (387)
T ss_pred HHHHHHHHHhcCceEEEEecCCCCcccHHHHHHHHHhcC
Confidence 667788888888776543323334333335555565544
No 71
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=23.75 E-value=1.9e+02 Score=26.32 Aligned_cols=61 Identities=18% Similarity=0.249 Sum_probs=40.2
Q ss_pred eeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 15 ~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
..+|+|-.-+++. ...+..+...|++.|++|-+|.. +..+...+..|-..---.++|+.++
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~---~~~lgkkir~A~k~gip~viIIG~~ 498 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA---GETLSKRIKNAYDQGVPYILIVGKK 498 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEChh
Confidence 3688776654433 35788999999999999998764 4455556666654433455555543
No 72
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=23.67 E-value=4.3e+02 Score=22.01 Aligned_cols=78 Identities=15% Similarity=0.264 Sum_probs=47.0
Q ss_pred eeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeEEEecCCcccccccCch
Q 040920 44 IETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTF 123 (163)
Q Consensus 44 i~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPVfy~v~p~~v~~q~~~f 123 (163)
+.++..--....-+|.+.+.+.|++++.+|.|+-.-|..- --+.+|..|- ..+=+||++-.+-..+
T Consensus 121 ~~vy~qPp~~~~p~IKE~vR~~I~~A~kVIAIVMD~FTD~-dIf~DLleAa------~kR~VpVYiLLD~~~~------- 186 (284)
T PF07894_consen 121 ATVYFQPPKDGQPHIKEVVRRMIQQAQKVIAIVMDVFTDV-DIFCDLLEAA------NKRGVPVYILLDEQNL------- 186 (284)
T ss_pred EEEEeCCCCCCCCCHHHHHHHHHHHhcceeEEEeeccccH-HHHHHHHHHH------HhcCCcEEEEechhcC-------
Confidence 3454433122334688889999999999999887777652 2233344432 2244588765554444
Q ss_pred HHHHHHHHHHhhh
Q 040920 124 GDSFSKLEERFKE 136 (163)
Q Consensus 124 ~~~f~~~~~~~~~ 136 (163)
..|.+++++...
T Consensus 187 -~~Fl~Mc~~~~v 198 (284)
T PF07894_consen 187 -PHFLEMCEKLGV 198 (284)
T ss_pred -hHHHHHHHHCCC
Confidence 466777776643
No 73
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=23.53 E-value=1.5e+02 Score=20.34 Aligned_cols=42 Identities=7% Similarity=0.192 Sum_probs=26.0
Q ss_pred HHhcCCeeeee-cCCCCCCCcchHHHHHhhhhCceEEEEeecCCcC
Q 040920 38 ALCRKKIETFI-DDKLNRGNEISPSLSSAIEGSKISIVIFSKGYAS 82 (163)
Q Consensus 38 ~L~~~gi~~f~-D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~ 82 (163)
-++..|+..+. ..+ .+.+...+.+.+.+-++.|++++++++.
T Consensus 14 GFrLaGi~~~~~~~~---~ee~~~~l~~l~~~~d~gII~Ite~~~~ 56 (100)
T PRK02228 14 GFRLAGIRKVYEVPD---DEKLDEAVEEVLEDDDVGILVMHDDDLE 56 (100)
T ss_pred HHHHcCCceEEeeCC---HHHHHHHHHHHhhCCCEEEEEEehhHhH
Confidence 34455886443 111 1234455555666778999999999776
No 74
>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=23.01 E-value=3.8e+02 Score=21.67 Aligned_cols=51 Identities=16% Similarity=0.162 Sum_probs=27.6
Q ss_pred EEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCC---CcchHHHHHhhhhC
Q 040920 18 VFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRG---NEISPSLSSAIEGS 69 (163)
Q Consensus 18 VFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G---~~i~~~i~~aI~~S 69 (163)
|.+-|...+.....+..+...|++.|+.+-....+.+| ..+.+. ...|..+
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~-l~~i~~~ 191 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDA-LKKLKEK 191 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHH-HHHHhcC
Confidence 33434333323456777888888888876544445555 244433 3445443
No 75
>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=22.91 E-value=2.6e+02 Score=23.17 Aligned_cols=15 Identities=13% Similarity=0.175 Sum_probs=9.6
Q ss_pred chHHHHHHHHhcCCe
Q 040920 30 NFISHLNAALCRKKI 44 (163)
Q Consensus 30 ~fv~~L~~~L~~~gi 44 (163)
..+..|.+.|++.|+
T Consensus 169 ~~~~~~~~~~~~~g~ 183 (377)
T cd06379 169 AAQKRFETLLEEREI 183 (377)
T ss_pred HHHHHHHHHHHhcCC
Confidence 355666666666776
No 76
>PF14386 DUF4417: Domain of unknown function (DUF4417)
Probab=22.77 E-value=99 Score=24.18 Aligned_cols=67 Identities=21% Similarity=0.141 Sum_probs=38.5
Q ss_pred HhcCCeeeeecCC-CCCCCcchHHHHHhhhhCceEEEEeecCCc---------------CchhhHHHHHHHHHhhhhcCc
Q 040920 39 LCRKKIETFIDDK-LNRGNEISPSLSSAIEGSKISIVIFSKGYA---------------SSRLCLNELVKILESKNKYGQ 102 (163)
Q Consensus 39 L~~~gi~~f~D~~-~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~---------------~S~wC~~El~~~~~~~~~~~~ 102 (163)
..+.+++.|.|+. ++.=-.-.. +-|+.-+.+-.|+||||- .|.||..+++ +.|.
T Consensus 42 ~~~~~vhff~~D~~fe~~w~~p~---~~i~~l~~~~~v~tPDfSly~d~P~~~qi~n~yR~r~~g~~~q-------~~Gi 111 (200)
T PF14386_consen 42 KTNKIVHFFVDDYRFERFWNNPE---KYIERLKRFDGVITPDFSLYSDMPRAMQIWNIYRSRWLGAYWQ-------SNGI 111 (200)
T ss_pred ccCcEEEEeEECHHHHHHHhCHH---HHHHHHHhcCeEeCCCcccccCCCHHHHHHHHHHHHHHHHHHH-------HCCC
Confidence 3455777777775 543222222 333333337778999975 2333333332 4688
Q ss_pred eeEeEEEecCCcc
Q 040920 103 IVVPVFYLVDPSD 115 (163)
Q Consensus 103 ~viPVfy~v~p~~ 115 (163)
.|||-..-..+.+
T Consensus 112 ~VIP~v~W~~~~s 124 (200)
T PF14386_consen 112 KVIPNVSWSDKRS 124 (200)
T ss_pred eEcceEEecCcch
Confidence 9999987555554
No 77
>PLN02449 ferrochelatase
Probab=22.46 E-value=5.5e+02 Score=23.06 Aligned_cols=78 Identities=17% Similarity=0.261 Sum_probs=45.0
Q ss_pred hHHHHHHHHhcCC--eeeeecCCCCCCCcchHHHHHhhhh---CceEEEEeecCCcC--chhhHHHHHHHHHhhhh---c
Q 040920 31 FISHLNAALCRKK--IETFIDDKLNRGNEISPSLSSAIEG---SKISIVIFSKGYAS--SRLCLNELVKILESKNK---Y 100 (163)
Q Consensus 31 fv~~L~~~L~~~g--i~~f~D~~~~~G~~i~~~i~~aI~~---S~~~IvvlS~~y~~--S~wC~~El~~~~~~~~~---~ 100 (163)
.+..|.++|.+.| +.|++- +.-|.+..++..+.+.+ .+++++.+-|.|.. +.-+.+.+..++..... -
T Consensus 165 Qa~~Lq~~L~~~~~~~~V~~a--MRY~~P~iedal~~l~~~G~~~iVvLPLYPQyS~sTtgSs~~~l~~~~~~~~~~~~~ 242 (485)
T PLN02449 165 QAEALAKALEAKNLPAKVYVG--MRYWHPFTEEAIDQIKADGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVNM 242 (485)
T ss_pred HHHHHHHHHhccCCCeEEEEh--hhcCCCCHHHHHHHHHhcCCCeEEEEECCcccccccHHHHHHHHHHHHhhcccccCC
Confidence 4556777777665 455542 44555666666666654 44677788888764 34466677666543211 1
Q ss_pred CceeEeEEEe
Q 040920 101 GQIVVPVFYL 110 (163)
Q Consensus 101 ~~~viPVfy~ 110 (163)
.-++||=||+
T Consensus 243 ~~~~I~~~~~ 252 (485)
T PLN02449 243 QHTVIPSWYQ 252 (485)
T ss_pred eeEEeccccC
Confidence 2345665554
No 78
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=22.41 E-value=2e+02 Score=26.17 Aligned_cols=61 Identities=10% Similarity=0.066 Sum_probs=41.1
Q ss_pred eeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 15 ~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
..||+|-.-+... ...+..|...|++.|+.|-+|.. +..+...+..|-..---.++|+.++
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kki~~A~~~g~~~~iiiG~~ 599 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDLR---NEKIGYKIREAQLQKVPYMLVVGDK 599 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEECC---CCCHhHHHHHhhccCCCEEEEEcch
Confidence 3678877654332 35788999999999999988763 3455556666655444566666654
No 79
>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=22.17 E-value=2.4e+02 Score=24.03 Aligned_cols=26 Identities=4% Similarity=-0.038 Sum_probs=15.7
Q ss_pred cchHHHHHHHHhcCCeeeeecCCCCC
Q 040920 29 HNFISHLNAALCRKKIETFIDDKLNR 54 (163)
Q Consensus 29 ~~fv~~L~~~L~~~gi~~f~D~~~~~ 54 (163)
...+..|.++|+++|+.+-....+.+
T Consensus 186 ~~~~~~f~~~~~~~GicIa~~e~~~~ 211 (403)
T cd06361 186 RSALETFIIQAEANGVCIAFKEILPA 211 (403)
T ss_pred HHHHHHHHHHHHHCCeEEEEEEEecC
Confidence 45666777777777876543333444
No 80
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=21.67 E-value=2.1e+02 Score=25.74 Aligned_cols=61 Identities=8% Similarity=0.124 Sum_probs=40.3
Q ss_pred eeeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 15 ~ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
.++|+|---+++. ...+..|...|.+.|++|-+|.. +..+...+..|-..---.++|+.++
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEech
Confidence 3678876544432 35788999999999999988764 3445556666655444456666654
No 81
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=21.55 E-value=2.1e+02 Score=26.31 Aligned_cols=60 Identities=12% Similarity=0.119 Sum_probs=39.1
Q ss_pred eeEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecC
Q 040920 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKG 79 (163)
Q Consensus 16 ydVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~ 79 (163)
++|+|---+++ ....+..|...|++.|+.|.+|+. +..+...+.+|-..---.++|+-++
T Consensus 500 ~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr---~~slgkKir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 500 TQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDR---DESLGKKIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred ceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 78877654433 346889999999999999999875 2344445555544333455555544
No 82
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=21.52 E-value=56 Score=21.65 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=15.2
Q ss_pred EEEEeecCCcCchhhHH--HHHHHHH
Q 040920 72 SIVIFSKGYASSRLCLN--ELVKILE 95 (163)
Q Consensus 72 ~IvvlS~~y~~S~wC~~--El~~~~~ 95 (163)
-|+|||..+.+.+||.. .+..+++
T Consensus 9 ~vvvf~k~~~~~~~Cp~C~~ak~~L~ 34 (90)
T cd03028 9 PVVLFMKGTPEEPRCGFSRKVVQILN 34 (90)
T ss_pred CEEEEEcCCCCCCCCcHHHHHHHHHH
Confidence 45677888777777754 4444444
No 83
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=21.42 E-value=1e+02 Score=22.08 Aligned_cols=45 Identities=13% Similarity=0.324 Sum_probs=28.1
Q ss_pred cchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeEEEec
Q 040920 57 EISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVFYLV 111 (163)
Q Consensus 57 ~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPVfy~v 111 (163)
.+.+.+.+.+.+.++.|+++++++++ ++...++..+ .++|.+..+
T Consensus 47 ei~~~~~~~l~~~digIIlIte~~a~------~i~~~I~~~~----~~~PaIieI 91 (115)
T TIGR01101 47 EIEDCFNRFLKRDDIAIILINQHIAE------MIRHAVDAHT----RSIPAVLEI 91 (115)
T ss_pred HHHHHHHHHhhcCCeEEEEEcHHHHH------HhHHHHHhcC----CcCCEEEEE
Confidence 44555555577889999999998765 3333333322 566666543
No 84
>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=21.30 E-value=2e+02 Score=19.10 Aligned_cols=43 Identities=14% Similarity=0.267 Sum_probs=25.1
Q ss_pred HHhhhhCceEEEEeecCCcCchhhHHHHHHH---HHhhhhcCceeEeEEE
Q 040920 63 SSAIEGSKISIVIFSKGYASSRLCLNELVKI---LESKNKYGQIVVPVFY 109 (163)
Q Consensus 63 ~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~---~~~~~~~~~~viPVfy 109 (163)
...+..++.+|+|++..-. ..+.++..+ +...+..... +||.+
T Consensus 68 ~~~~~~~d~~ilv~D~s~~---~s~~~~~~~~~~l~~~~~~~~~-~piil 113 (119)
T PF08477_consen 68 QFFLKKADAVILVYDLSDP---ESLEYLSQLLKWLKNIRKRDKN-IPIIL 113 (119)
T ss_dssp HHHHHHSCEEEEEEECCGH---HHHHHHHHHHHHHHHHHHHSSC-SEEEE
T ss_pred cchhhcCcEEEEEEcCCCh---HHHHHHHHHHHHHHHHHccCCC-CCEEE
Confidence 3458999999999986543 444454333 3333322223 77665
No 85
>PRK07933 thymidylate kinase; Validated
Probab=21.18 E-value=2e+02 Score=22.34 Aligned_cols=30 Identities=20% Similarity=0.234 Sum_probs=22.3
Q ss_pred EEeccccccc--cchHHHHHHHHhcCCeeeee
Q 040920 19 FLSFRGKDVR--HNFISHLNAALCRKKIETFI 48 (163)
Q Consensus 19 FISy~~~D~~--~~fv~~L~~~L~~~gi~~f~ 48 (163)
||.+-|-|.. .+.+..|.+.|+.+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 6777666642 47888999999988887654
No 86
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=20.94 E-value=2.4e+02 Score=24.54 Aligned_cols=46 Identities=20% Similarity=0.159 Sum_probs=34.3
Q ss_pred HHHHHhhhhCc-eEEEEeecCCc-CchhhHHHHHHHHHhhhhcCceeE
Q 040920 60 PSLSSAIEGSK-ISIVIFSKGYA-SSRLCLNELVKILESKNKYGQIVV 105 (163)
Q Consensus 60 ~~i~~aI~~S~-~~IvvlS~~y~-~S~wC~~El~~~~~~~~~~~~~vi 105 (163)
+.+.+++.+.+ .+.++.+|+=. -.-|-.+||.++.+.-++.+-+||
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 57888888887 67777888755 578999999999885544554444
No 87
>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=20.81 E-value=3.2e+02 Score=19.41 Aligned_cols=46 Identities=7% Similarity=0.048 Sum_probs=29.6
Q ss_pred HHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHhhhhcCceeEeEE
Q 040920 60 PSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVF 108 (163)
Q Consensus 60 ~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~~~~~~~~viPVf 108 (163)
.-+.+.+..+++.|+|++.+- .|...+...+.+..+....+.+-|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~---~~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQ---DLTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTS---TGGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCc---ccchHHHHHHHHHhcCCCCeEEEEE
Confidence 457778889999999997665 4444455555554444445555543
No 88
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=20.80 E-value=1.1e+02 Score=24.95 Aligned_cols=40 Identities=20% Similarity=0.223 Sum_probs=26.9
Q ss_pred HHHHHHHHhcCCeeeeecCCCCCCC---cchHHHHHhhhhCceEE
Q 040920 32 ISHLNAALCRKKIETFIDDKLNRGN---EISPSLSSAIEGSKISI 73 (163)
Q Consensus 32 v~~L~~~L~~~gi~~f~D~~~~~G~---~i~~~i~~aI~~S~~~I 73 (163)
+.+|.+.|...|+.+..-. -.|| .|.+.+..++++++++|
T Consensus 23 a~~la~~L~~~G~~v~~~~--~VgD~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 23 AAFLADELTELGVDLARIT--TVGDNPDRIVEALREASERADVVI 65 (255)
T ss_pred HHHHHHHHHhcCceEEEEE--ecCCCHHHHHHHHHHHHhCCCEEE
Confidence 6788999999999886532 2344 35566666777765544
No 89
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. 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 str
Probab=20.69 E-value=86 Score=21.51 Aligned_cols=17 Identities=6% Similarity=0.241 Sum_probs=14.3
Q ss_pred hChHHHHHHHHHHHHhh
Q 040920 136 EKIDMLQTWRIAMREAA 152 (163)
Q Consensus 136 ~~~e~~~~W~~aL~~v~ 152 (163)
++++..+.|..|+.+|+
T Consensus 92 ~s~ee~~~Wi~~I~~~~ 108 (108)
T cd01266 92 KNEEEMTLWVNCICKLC 108 (108)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 46788999999998875
No 90
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=20.56 E-value=1.8e+02 Score=20.80 Aligned_cols=55 Identities=25% Similarity=0.365 Sum_probs=29.1
Q ss_pred HHHhhh--hCceEEEEeecCCcCchhhHH--HHHHHHHhhh-hcCceeEeEEEecCCcccccccCch
Q 040920 62 LSSAIE--GSKISIVIFSKGYASSRLCLN--ELVKILESKN-KYGQIVVPVFYLVDPSDVRNQTGTF 123 (163)
Q Consensus 62 i~~aI~--~S~~~IvvlS~~y~~S~wC~~--El~~~~~~~~-~~~~~viPVfy~v~p~~v~~q~~~f 123 (163)
..++|. +.+.+|+-|+. .||.- .+..+++... +-.+. -+||.|+.+++.+....|
T Consensus 5 ~d~~i~~~~~klVVVdF~a-----~WC~pCk~mdp~l~ela~~~~~~--~~f~kVDVDev~dva~~y 64 (114)
T cd02986 5 VDQAIKSTAEKVLVLRFGR-----DEDAVCLQLDDILSKTSHDLSKM--ASIYLVDVDKVPVYTQYF 64 (114)
T ss_pred HHHHHHhcCCCEEEEEEeC-----CCChhHHHHHHHHHHHHHHccCc--eEEEEEeccccHHHHHhc
Confidence 344555 44556665554 56633 4555554332 22222 568888888776544333
No 91
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=20.47 E-value=64 Score=25.34 Aligned_cols=34 Identities=18% Similarity=0.372 Sum_probs=24.6
Q ss_pred EEeccccccccchHHHHHHHHhcCCeeeee-cCC-CC
Q 040920 19 FLSFRGKDVRHNFISHLNAALCRKKIETFI-DDK-LN 53 (163)
Q Consensus 19 FISy~~~D~~~~fv~~L~~~L~~~gi~~f~-D~~-~~ 53 (163)
|=.-|+.-. .+.+..|.+.|..+|+++++ |.+ +.
T Consensus 28 ~TGLSGsGK-STiA~ale~~L~~~G~~~y~LDGDnvR 63 (197)
T COG0529 28 FTGLSGSGK-STIANALEEKLFAKGYHVYLLDGDNVR 63 (197)
T ss_pred eecCCCCCH-HHHHHHHHHHHHHcCCeEEEecChhHh
Confidence 333455443 37999999999999999996 655 43
No 92
>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=20.18 E-value=3.4e+02 Score=19.50 Aligned_cols=87 Identities=13% Similarity=0.062 Sum_probs=50.3
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhhCceEEEEeecCCcCchhhHHHHHHHHHh
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILES 96 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~S~~~IvvlS~~y~~S~wC~~El~~~~~~ 96 (163)
.|++.=-+.|....=.+-+...|+..|+.|..- .++.-.+++.++..+.+.-++++|--.....--+.++...+
T Consensus 4 ~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~l----g~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L-- 77 (132)
T TIGR00640 4 RILVAKMGQDGHDRGAKVIATAYADLGFDVDVG----PLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKEL-- 77 (132)
T ss_pred EEEEEeeCCCccHHHHHHHHHHHHhCCcEEEEC----CCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHH--
Confidence 455554445543211234455678889998541 12333457778888889888888877655443344444444
Q ss_pred hhhcCceeEeEEEe
Q 040920 97 KNKYGQIVVPVFYL 110 (163)
Q Consensus 97 ~~~~~~~viPVfy~ 110 (163)
++.+..-+||+..
T Consensus 78 -~~~g~~~i~vivG 90 (132)
T TIGR00640 78 -DKLGRPDILVVVG 90 (132)
T ss_pred -HhcCCCCCEEEEe
Confidence 3333335778775
No 93
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=20.16 E-value=3.5e+02 Score=21.90 Aligned_cols=53 Identities=8% Similarity=0.072 Sum_probs=32.5
Q ss_pred eEEEeccccccccchHHHHHHHHhcCCeeeeecCCCCCCC-cchHHHHHhhhhCc
Q 040920 17 DVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGN-EISPSLSSAIEGSK 70 (163)
Q Consensus 17 dVFISy~~~D~~~~fv~~L~~~L~~~gi~~f~D~~~~~G~-~i~~~i~~aI~~S~ 70 (163)
.|.+-|...+-.+.+...+..+|+++|+++-.+..+.+|. ++...+. .|..+.
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~~ 191 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQ-RLLDAL 191 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHH-HHHhcC
Confidence 3444454333334677788889999999886554466665 4655544 455444
No 94
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=20.15 E-value=2.9e+02 Score=23.08 Aligned_cols=51 Identities=10% Similarity=0.145 Sum_probs=20.2
Q ss_pred hHHHHHHHHhcCCeeeeecCCCCCCCcchHHHHHhhhh---CceEEEEeecCCc
Q 040920 31 FISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEG---SKISIVIFSKGYA 81 (163)
Q Consensus 31 fv~~L~~~L~~~gi~~f~D~~~~~G~~i~~~i~~aI~~---S~~~IvvlS~~y~ 81 (163)
.+..|...|...|..+-..--+.-|.+..++..+.+.+ .++.++.+.|.|.
T Consensus 74 qa~~l~~~L~~~~~~~~V~~amry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS 127 (316)
T PF00762_consen 74 QAEALQQRLDERGVDVEVYYAMRYGPPSIEDALEELKADGVDRIVVLPLYPQYS 127 (316)
T ss_dssp HHHHHHHHHHHH-EEEEEEEEESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--
T ss_pred HHHHHHHHHHhcCCCeeEEEEeccCCCCHHHHHHHHHHcCCCeEEEEeCCCchh
Confidence 34445555544432211111133444444444444442 3345555666665
No 95
>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=20.08 E-value=5e+02 Score=21.38 Aligned_cols=127 Identities=17% Similarity=0.179 Sum_probs=68.2
Q ss_pred ccccccccchHHHHHHHHhcCCeeeeec-------CCCCCCCcchHHHHHhhhh------CceEE-----EEeecCCcCc
Q 040920 22 FRGKDVRHNFISHLNAALCRKKIETFID-------DKLNRGNEISPSLSSAIEG------SKISI-----VIFSKGYASS 83 (163)
Q Consensus 22 y~~~D~~~~fv~~L~~~L~~~gi~~f~D-------~~~~~G~~i~~~i~~aI~~------S~~~I-----vvlS~~y~~S 83 (163)
|-.++. ..|..+| ..|.+.|++.++. .+++|+-+-..++.+.+.+ ...+| |++|..|.-
T Consensus 53 FWTKnp-~P~l~~L-~~l~~~gy~~yfq~Tit~Y~~~lEp~vP~~~~~i~~f~~Ls~~iG~~rViWRYDPIil~~~~~~- 129 (266)
T PF08902_consen 53 FWTKNP-APFLPYL-DELDERGYPYYFQFTITGYGKDLEPNVPPKDERIETFRELSERIGPERVIWRYDPIILTDKYTV- 129 (266)
T ss_pred EecCCc-HHHHhhH-HHHHhCCCceEEEEEeCCCCccccCCCCCHHHHHHHHHHHHHHHCCCcEEEecCCEeECCCCCH-
Confidence 444554 3677777 6777789987753 2377775433333333322 22233 456666544
Q ss_pred hhhHHHHHHHHHhhhhcCceeEeEEEecCCcccccccCchHHHHHHHHHHh-hhChHHHHHHHHHHHHhhcccCccc
Q 040920 84 RLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERF-KEKIDMLQTWRIAMREAANLSGFDS 159 (163)
Q Consensus 84 ~wC~~El~~~~~~~~~~~~~viPVfy~v~p~~v~~q~~~f~~~f~~~~~~~-~~~~e~~~~W~~aL~~v~~~~G~~~ 159 (163)
.|-+..+..+.+..+....+++-=|++..+.--++... ..-.+ ..+.+....--..|.++|.--|..+
T Consensus 130 ~~h~~~F~~la~~L~g~t~~~viSF~D~Y~k~~~~l~~--------~~~~~~~~~~~~~~~l~~~l~~ia~~~g~~l 198 (266)
T PF08902_consen 130 DYHLEAFERLAEALAGYTDRCVISFLDLYRKVRRNLAR--------LGFRIREPSEEEKRELAKRLAEIAKKYGMTL 198 (266)
T ss_pred HHHHHHHHHHHHHHhccCCEEEEEeeeccHHHHHHHHh--------hcCCCCCCCHHHHHHHHHHHHHHHHHcCCEE
Confidence 66677777776666666677777777765443332211 10000 1134445555566777766666543
Done!