Query 043461
Match_columns 196
No_of_seqs 187 out of 1396
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 05:18:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043461.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043461hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 3.4E-45 7.4E-50 296.5 13.5 132 18-168 25-157 (187)
2 PLN03210 Resistant to P. syrin 100.0 2E-44 4.3E-49 358.7 15.6 149 17-170 10-158 (1153)
3 PF01582 TIR: TIR domain; Int 99.9 1.3E-27 2.8E-32 185.9 1.8 134 22-156 1-140 (141)
4 smart00255 TIR Toll - interleu 99.9 7.5E-25 1.6E-29 168.3 12.1 138 19-160 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.7 1.5E-18 3.4E-23 127.1 4.3 87 22-116 1-87 (102)
6 KOG3678 SARM protein (with ste 99.1 9.7E-11 2.1E-15 106.9 7.3 95 15-116 608-710 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.6 1.1E-07 2.3E-12 73.1 6.3 91 20-116 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 97.7 7.3E-05 1.6E-09 58.2 5.0 65 21-85 2-70 (150)
9 PF10137 TIR-like: Predicted n 96.7 0.0054 1.2E-07 47.3 6.1 88 21-114 1-101 (125)
10 PF13271 DUF4062: Domain of un 92.5 0.43 9.4E-06 33.6 5.7 67 21-88 1-67 (83)
11 COG4916 Uncharacterized protei 90.7 0.41 8.8E-06 41.4 4.5 101 15-122 173-281 (329)
12 PF05014 Nuc_deoxyrib_tr: Nucl 86.6 7 0.00015 28.7 8.4 68 33-101 13-88 (113)
13 COG4271 Predicted nucleotide-b 85.9 5.8 0.00013 33.2 8.1 96 21-124 84-199 (233)
14 cd00860 ThrRS_anticodon ThrRS 80.3 6.5 0.00014 27.0 5.7 60 20-84 2-61 (91)
15 PF14258 DUF4350: Domain of un 76.8 16 0.00035 24.3 6.6 61 37-111 8-68 (70)
16 cd00738 HGTP_anticodon HGTP an 72.9 13 0.00027 25.6 5.5 60 20-84 2-64 (94)
17 PF03129 HGTP_anticodon: Antic 69.4 11 0.00024 26.3 4.5 48 33-84 15-62 (94)
18 cd02042 ParA ParA and ParB of 60.7 43 0.00093 23.5 6.3 65 22-86 3-74 (104)
19 cd02426 Pol_gamma_b_Cterm C-te 59.3 10 0.00022 29.0 2.8 33 32-64 42-77 (128)
20 cd00861 ProRS_anticodon_short 56.8 31 0.00068 23.7 4.9 48 34-85 18-65 (94)
21 COG0400 Predicted esterase [Ge 56.7 41 0.00089 27.9 6.3 55 16-72 143-199 (207)
22 COG0125 Tmk Thymidylate kinase 55.8 52 0.0011 27.3 6.8 99 22-122 4-141 (208)
23 cd00858 GlyRS_anticodon GlyRS 55.3 33 0.00071 25.4 5.1 61 19-85 26-88 (121)
24 PF01990 ATP-synt_F: ATP synth 53.9 65 0.0014 22.9 6.3 67 39-113 9-75 (95)
25 KOG2792 Putative cytochrome C 48.4 14 0.00031 32.0 2.4 31 90-120 154-187 (280)
26 PRK09194 prolyl-tRNA synthetas 48.0 19 0.00042 34.2 3.4 64 18-85 467-532 (565)
27 PF09441 Abp2: ARS binding pro 47.3 5.1 0.00011 32.3 -0.5 70 88-170 54-124 (175)
28 PF14359 DUF4406: Domain of un 45.5 1.1E+02 0.0024 21.9 6.5 63 37-101 19-85 (92)
29 TIGR00418 thrS threonyl-tRNA s 44.9 46 0.00099 31.4 5.4 61 18-83 469-529 (563)
30 PF03720 UDPG_MGDP_dh_C: UDP-g 42.9 30 0.00065 25.1 3.1 56 28-83 11-76 (106)
31 COG1658 Small primase-like pro 42.8 35 0.00075 26.4 3.5 55 20-76 30-84 (127)
32 cd00859 HisRS_anticodon HisRS 42.7 70 0.0015 21.1 4.8 58 21-83 3-60 (91)
33 PRK12325 prolyl-tRNA synthetas 36.8 88 0.0019 28.7 5.8 64 19-86 345-410 (439)
34 PF11074 DUF2779: Domain of un 36.5 26 0.00057 27.0 2.0 24 23-46 48-71 (130)
35 PF03709 OKR_DC_1_N: Orn/Lys/A 35.0 1.8E+02 0.004 21.3 6.7 71 35-119 5-76 (115)
36 PF10087 DUF2325: Uncharacteri 34.7 1.3E+02 0.0029 21.2 5.4 58 35-94 11-69 (97)
37 PRK14938 Ser-tRNA(Thr) hydrola 34.6 84 0.0018 28.8 5.1 60 19-83 274-333 (387)
38 TIGR00334 5S_RNA_mat_M5 ribonu 34.0 67 0.0014 26.2 4.0 50 33-86 35-84 (174)
39 PHA02456 zinc metallopeptidase 33.8 60 0.0013 24.8 3.5 47 66-116 55-105 (141)
40 PF02310 B12-binding: B12 bind 33.1 1.8E+02 0.0039 20.7 6.8 59 36-103 17-76 (121)
41 KOG0117 Heterogeneous nuclear 32.3 19 0.00042 33.5 0.7 138 22-191 128-272 (506)
42 cd07373 2A5CPDO_A The alpha su 32.1 2.5E+02 0.0054 23.9 7.6 77 33-113 90-172 (271)
43 cd03364 TOPRIM_DnaG_primases T 31.7 56 0.0012 22.2 2.8 27 46-74 44-70 (79)
44 KOG3043 Predicted hydrolase re 31.3 1.1E+02 0.0024 26.2 5.0 76 74-153 38-114 (242)
45 cd00862 ProRS_anticodon_zinc P 30.6 50 0.0011 27.0 2.9 62 19-84 10-77 (202)
46 cd00532 MGS-like MGS-like doma 30.4 1.9E+02 0.004 21.1 5.7 61 22-84 2-77 (112)
47 CHL00201 syh histidine-tRNA sy 30.2 1.1E+02 0.0023 28.1 5.2 61 18-83 324-384 (430)
48 cd01424 MGS_CPS_II Methylglyox 29.3 1.7E+02 0.0037 21.0 5.3 30 21-52 2-31 (110)
49 cd07363 45_DOPA_Dioxygenase Th 29.1 2.1E+02 0.0046 24.1 6.6 70 33-104 80-150 (253)
50 PRK14799 thrS threonyl-tRNA sy 28.6 1.1E+02 0.0024 29.2 5.1 60 19-83 438-497 (545)
51 PRK12305 thrS threonyl-tRNA sy 28.0 1.1E+02 0.0024 28.9 5.1 60 19-83 476-535 (575)
52 PRK08661 prolyl-tRNA synthetas 27.7 58 0.0012 30.4 3.0 62 19-85 287-355 (477)
53 PRK03991 threonyl-tRNA synthet 27.2 1.2E+02 0.0026 29.4 5.2 61 19-84 499-559 (613)
54 KOG1136 Predicted cleavage and 27.0 1.4E+02 0.0031 27.3 5.2 46 70-116 191-242 (501)
55 PRK00413 thrS threonyl-tRNA sy 26.6 1.3E+02 0.0028 28.8 5.2 61 19-84 539-599 (638)
56 TIGR00409 proS_fam_II prolyl-t 25.7 51 0.0011 31.6 2.3 47 19-65 473-521 (568)
57 COG0276 HemH Protoheme ferro-l 25.3 4.9E+02 0.011 23.2 9.1 79 35-116 74-161 (320)
58 COG2342 Predicted extracellula 24.6 1.3E+02 0.0027 26.6 4.3 44 65-115 33-79 (300)
59 PRK07933 thymidylate kinase; V 23.8 1.5E+02 0.0033 24.2 4.6 30 23-52 2-33 (213)
60 PF12076 Wax2_C: WAX2 C-termin 23.8 87 0.0019 25.3 2.9 123 34-168 9-142 (164)
61 PRK12444 threonyl-tRNA synthet 23.6 1.6E+02 0.0035 28.3 5.3 63 18-84 540-602 (639)
62 PLN02530 histidine-tRNA ligase 23.6 1.6E+02 0.0035 27.4 5.2 61 18-83 400-460 (487)
63 PRK02228 V-type ATP synthase s 23.3 1.5E+02 0.0033 21.5 4.0 63 42-113 14-77 (100)
64 cd01423 MGS_CPS_I_III Methylgl 22.5 3.1E+02 0.0067 19.8 6.2 29 22-52 3-31 (116)
65 cd03411 Ferrochelatase_N Ferro 22.3 3.7E+02 0.0081 20.8 7.2 79 34-115 72-157 (159)
66 PRK08350 hypothetical protein; 22.1 74 0.0016 28.7 2.5 32 18-49 280-311 (341)
67 PF01113 DapB_N: Dihydrodipico 22.0 2.1E+02 0.0044 21.2 4.6 56 20-85 68-124 (124)
68 PLN03194 putative disease resi 21.6 3.7E+02 0.008 22.1 6.3 65 45-114 24-88 (187)
69 PF13289 SIR2_2: SIR2-like dom 21.5 2.1E+02 0.0045 20.9 4.6 16 36-52 77-92 (143)
70 PRK15057 UDP-glucose 6-dehydro 21.3 2E+02 0.0043 26.1 5.1 51 29-79 311-365 (388)
71 cd06342 PBP1_ABC_LIVBP_like Ty 20.8 4E+02 0.0086 22.2 6.7 58 22-81 138-196 (334)
72 COG0710 AroD 3-dehydroquinate 20.7 2.6E+02 0.0057 23.7 5.4 66 34-104 79-144 (231)
73 PLN02734 glycyl-tRNA synthetas 20.7 2.9E+02 0.0063 27.3 6.4 61 15-80 568-629 (684)
74 TIGR01101 V_ATP_synt_F vacuola 20.6 1.7E+02 0.0038 22.0 3.9 27 61-87 46-72 (115)
75 COG0683 LivK ABC-type branched 20.4 4.3E+02 0.0092 23.1 7.0 74 21-95 150-223 (366)
76 COG1168 MalY Bifunctional PLP- 20.4 1.7E+02 0.0037 26.9 4.4 46 65-111 148-195 (388)
77 PF09673 TrbC_Ftype: Type-F co 20.4 2.3E+02 0.005 20.9 4.6 37 22-64 2-38 (113)
78 PRK13730 conjugal transfer pil 20.4 2.9E+02 0.0064 23.2 5.5 38 19-61 91-128 (212)
79 cd01241 PH_Akt Akt pleckstrin 20.3 87 0.0019 22.5 2.2 17 143-159 86-102 (102)
80 COG4916 Uncharacterized protei 20.1 1.2E+02 0.0025 26.7 3.2 99 18-119 5-107 (329)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=3.4e-45 Score=296.55 Aligned_cols=132 Identities=27% Similarity=0.502 Sum_probs=123.4
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHH
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAK 97 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~ 97 (196)
.+|||||||||+|+|++|++||+.+|+++||+||+|+.++.+|+.+.+.|.+||++|+++|+|||++|++|.||++||++
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 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcccCCCCeEEEEEeecCCcccccc-CcchHHHHHHHHHHHhccCHHHHHHHHHHHHHhhcccceeecC
Q 043461 98 IVECGNKRKDRKVFAVFYGVDPADARTQ-KGEDFERVFAKYEEEFKENQEKVLKWRAAFTRVASLAGWHLQD 168 (196)
Q Consensus 98 i~~~~~~~~~~~ViPVfy~v~psdVr~q-~g~~f~~~f~~~~~~~~~~~~~v~~W~~AL~~v~~~~G~~~~~ 168 (196)
|++|. ..||||||+|+|+|||+| .| . .+.+++++||.||++|++++|++++.
T Consensus 105 I~e~~-----~~ViPIFY~VdPsdVr~q~~~-~-------------~~~e~v~~Wr~AL~~va~l~G~~~~~ 157 (187)
T PLN03194 105 IMESK-----KRVIPIFCDVKPSQLRVVDNG-T-------------CPDEEIRRFNWALEEAKYTVGLTFDS 157 (187)
T ss_pred HHHcC-----CEEEEEEecCCHHHhhccccC-C-------------CCHHHHHHHHHHHHHHhccccccCCC
Confidence 99864 369999999999999997 45 3 13589999999999999999998865
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=2e-44 Score=358.71 Aligned_cols=149 Identities=44% Similarity=0.774 Sum_probs=141.9
Q ss_pred CceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHH
Q 043461 17 QSKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELA 96 (196)
Q Consensus 17 ~~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~ 96 (196)
.++|||||||||+|+|++|++||+.+|.++||++|+|+ ++++|+.+.+++.+||++|+++|||||++|++|.|||+||+
T Consensus 10 ~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~-~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~el~ 88 (1153)
T PLN03210 10 NWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNELL 88 (1153)
T ss_pred CCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHHHH
Confidence 47899999999999999999999999999999999987 59999999999999999999999999999999999999999
Q ss_pred HHHHhcccCCCCeEEEEEeecCCccccccCcchHHHHHHHHHHHhccCHHHHHHHHHHHHHhhcccceeecCCC
Q 043461 97 KIVECGNKRKDRKVFAVFYGVDPADARTQKGEDFERVFAKYEEEFKENQEKVLKWRAAFTRVASLAGWHLQDSG 170 (196)
Q Consensus 97 ~i~~~~~~~~~~~ViPVfy~v~psdVr~q~g~~f~~~f~~~~~~~~~~~~~v~~W~~AL~~v~~~~G~~~~~~~ 170 (196)
+|++|+++ ++++|+||||+|+|+|||+|+| .||++|.+++++. +++++++||+||++||+++||++.+..
T Consensus 89 ~i~~~~~~-~~~~v~pvfy~v~p~~v~~~~g-~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~~~~ 158 (1153)
T PLN03210 89 EIVRCKEE-LGQLVIPVFYGLDPSHVRKQTG-DFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQNWP 158 (1153)
T ss_pred HHHHhhhh-cCceEEEEEecccHHHHhhccc-hHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecCCCC
Confidence 99999998 9999999999999999999999 9999999988753 478999999999999999999997654
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.93 E-value=1.3e-27 Score=185.86 Aligned_cols=134 Identities=34% Similarity=0.562 Sum_probs=117.2
Q ss_pred EEEccccccCcccHHHHHHHHHHcC--CceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHH
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRN--GFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIV 99 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~--Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~ 99 (196)
|||||++.+.+..|+.+|..+|+++ |+++|++++++.+|..+.+++.++|++|+++|+|+|++|+.|+||+.||..++
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 8999999444678999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred HhcccCC-CCeEEEEEeecCCcccc-ccCcchHHHHHHHHHHHhccC--HHHHHHHHHHHH
Q 043461 100 ECGNKRK-DRKVFAVFYGVDPADAR-TQKGEDFERVFAKYEEEFKEN--QEKVLKWRAAFT 156 (196)
Q Consensus 100 ~~~~~~~-~~~ViPVfy~v~psdVr-~q~g~~f~~~f~~~~~~~~~~--~~~v~~W~~AL~ 156 (196)
++..+.+ ..+|+||||++.+++++ ++.+ .|+..|..+......+ .++...|++++.
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~-~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSL-RFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHH-HHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhH-HHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 9987622 58999999999999999 7889 9999988776655433 578999999875
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.92 E-value=7.5e-25 Score=168.28 Aligned_cols=138 Identities=41% Similarity=0.709 Sum_probs=115.6
Q ss_pred eeeEEEcccc-ccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHH
Q 043461 19 KYDVFLSFRG-EDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAK 97 (196)
Q Consensus 19 ~yDVFISy~~-~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~ 97 (196)
+|||||||++ ++..+.|+.+|...|...|+.+|.|+... .|.... +|.++|++|+++|+|+||+|..|+||..|+..
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~-~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~ 78 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEP-GGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVA 78 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCccc-ccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHH
Confidence 4999999999 45567899999999999999999997533 333333 99999999999999999999999999999999
Q ss_pred HHHhcccCCCCeEEEEEeecCCccccccCcchHHHHHHHHHHHhccCHHHHHHHHHHHHHhhc
Q 043461 98 IVECGNKRKDRKVFAVFYGVDPADARTQKGEDFERVFAKYEEEFKENQEKVLKWRAAFTRVAS 160 (196)
Q Consensus 98 i~~~~~~~~~~~ViPVfy~v~psdVr~q~g~~f~~~f~~~~~~~~~~~~~v~~W~~AL~~v~~ 160 (196)
++++....+...||||+++..|+++..+.+ .++..+..+..++..+..+ +.|+.++..+.+
T Consensus 79 a~~~~~~~~~~~iIPI~~~~~~~~~~~~~~-~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 79 ALENALEEGGLRVIPIFYEVIPSDVRKQPG-KFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHHcCCCeEEEEEEecChHHHHhccc-HHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 998775435689999999998999999999 9999998875555433333 789999988754
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.74 E-value=1.5e-18 Score=127.09 Aligned_cols=87 Identities=34% Similarity=0.615 Sum_probs=75.3
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHh
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVEC 101 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~ 101 (196)
|||||+++|. .++..|...|++.|+++|+|. ++.+|+.+.+.|.++|++|+..|+++|++|..|+||..|+..+.+
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--EFAERLAERLESAGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK- 76 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC-
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH-
Confidence 8999999993 599999999999999999997 899999999999999999999999999999999999999999954
Q ss_pred cccCCCCeEEEEEee
Q 043461 102 GNKRKDRKVFAVFYG 116 (196)
Q Consensus 102 ~~~~~~~~ViPVfy~ 116 (196)
.+..||||.++
T Consensus 77 ----~~~~iipv~~~ 87 (102)
T PF13676_consen 77 ----RGKPIIPVRLD 87 (102)
T ss_dssp ----TSESEEEEECS
T ss_pred ----CCCEEEEEEEC
Confidence 44579999954
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.14 E-value=9.7e-11 Score=106.90 Aligned_cols=95 Identities=25% Similarity=0.424 Sum_probs=81.0
Q ss_pred CCCceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccC-------
Q 043461 15 LLQSKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYAS------- 87 (196)
Q Consensus 15 ~~~~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~------- 87 (196)
+.+++.|||||||..- .+.+++-|...|+-+|++||+|-+.+..|.. .+.+.+.|...+.+|.|++|+...
T Consensus 608 ~~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~n 685 (832)
T KOG3678|consen 608 MLSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDN 685 (832)
T ss_pred cccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhcccc
Confidence 4578899999998774 5789999999999999999999888998875 558999999999999999999763
Q ss_pred -ChhHHHHHHHHHHhcccCCCCeEEEEEee
Q 043461 88 -SPWCLDELAKIVECGNKRKDRKVFAVFYG 116 (196)
Q Consensus 88 -S~wCl~EL~~i~~~~~~~~~~~ViPVfy~ 116 (196)
-.|...||..+.+|.+. |||||-.
T Consensus 686 CeDWVHKEl~~Afe~~KN-----IiPI~D~ 710 (832)
T KOG3678|consen 686 CEDWVHKELKCAFEHQKN-----IIPIFDT 710 (832)
T ss_pred HHHHHHHHHHHHHHhcCC-----eeeeecc
Confidence 46777788888887765 9999953
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=98.60 E-value=1.1e-07 Score=73.15 Aligned_cols=91 Identities=24% Similarity=0.429 Sum_probs=48.4
Q ss_pred eeEEEccccccCcccHHHHHHHHHHcC-------Ccee----------EecCccCcCCCcccHHHHHHhhhcceEEEEee
Q 043461 20 YDVFLSFRGEDTRNNFTDHLHAALIRN-------GFIA----------FKDDETLERGNEISSELSQAIEESNVSIVILS 82 (196)
Q Consensus 20 yDVFISy~~~D~~~~fv~~L~~~L~~~-------Gi~v----------f~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S 82 (196)
|.|||||++.|.. ..+..|...+... .+.. +.+..+....+.|...|.++|++|.++||+++
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 5799999999853 3667777777663 2211 11222222344678899999999999999999
Q ss_pred ccccCChhHHHHHHHHHHhcccCCCCeEEEEEee
Q 043461 83 KNYASSPWCLDELAKIVECGNKRKDRKVFAVFYG 116 (196)
Q Consensus 83 ~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPVfy~ 116 (196)
++...|+|+..|+..+++ .+..||-|...
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 999999999999999988 34558887643
No 8
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=97.66 E-value=7.3e-05 Score=58.16 Aligned_cols=65 Identities=20% Similarity=0.324 Sum_probs=52.6
Q ss_pred eEEEccccccCc-ccHHHHHHHHHHcC-CceeEecCccCcC--CCcccHHHHHHhhhcceEEEEeeccc
Q 043461 21 DVFLSFRGEDTR-NNFTDHLHAALIRN-GFIAFKDDETLER--GNEISSELSQAIEESNVSIVILSKNY 85 (196)
Q Consensus 21 DVFISy~~~D~~-~~fv~~L~~~L~~~-Gi~vf~d~~~l~~--G~~i~~~i~~aI~~S~i~IvV~S~~y 85 (196)
.|||||+..... ...|..|...|++. |+.|.+|..+... +.....=+.++|++++..|+|+||.+
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 499999986543 36789999999999 9999999876633 55666667788999999999999554
No 9
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=96.68 E-value=0.0054 Score=47.28 Aligned_cols=88 Identities=18% Similarity=0.236 Sum_probs=66.8
Q ss_pred eEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecccc-------------C
Q 043461 21 DVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYA-------------S 87 (196)
Q Consensus 21 DVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~-------------~ 87 (196)
.|||.|+ .|. ..+..+...|+..|+.+.+-.+....|..+.+.+.+.+.+++.+|++++|+=. .
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 4899997 553 57888999998889877776556789999999999999999999999998522 2
Q ss_pred ChhHHHHHHHHHHhcccCCCCeEEEEE
Q 043461 88 SPWCLDELAKIVECGNKRKDRKVFAVF 114 (196)
Q Consensus 88 S~wCl~EL~~i~~~~~~~~~~~ViPVf 114 (196)
....+.|+..++... +..+++-+.
T Consensus 78 R~NVifE~G~f~g~L---Gr~rv~~l~ 101 (125)
T PF10137_consen 78 RQNVIFELGLFIGKL---GRERVFILV 101 (125)
T ss_pred ccceeehhhHHHhhc---CcceEEEEE
Confidence 345677888887754 334455443
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=92.52 E-value=0.43 Score=33.62 Aligned_cols=67 Identities=22% Similarity=0.213 Sum_probs=47.0
Q ss_pred eEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCC
Q 043461 21 DVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASS 88 (196)
Q Consensus 21 DVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S 88 (196)
.||||-.-.|.. .--..|.+.+.+.|.....-+.--..+....+.+++.|++|++.|.++-.+|-..
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 389998877753 3346777788777765443221112345556788999999999999999999764
No 11
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=90.73 E-value=0.41 Score=41.44 Aligned_cols=101 Identities=18% Similarity=0.058 Sum_probs=68.7
Q ss_pred CCCceeeEEEccccccCcccHHHHHHHHHHc--CCceeEecCcc---CcCCCcccHHHHHHh--hhcceEEEEeeccccC
Q 043461 15 LLQSKYDVFLSFRGEDTRNNFTDHLHAALIR--NGFIAFKDDET---LERGNEISSELSQAI--EESNVSIVILSKNYAS 87 (196)
Q Consensus 15 ~~~~~yDVFISy~~~D~~~~fv~~L~~~L~~--~Gi~vf~d~~~---l~~G~~i~~~i~~aI--~~S~i~IvV~S~~y~~ 87 (196)
...+.||+=|||.|+- .++++....+++. .-+..|.|..- +-+|+- . .++.-+ ..|+..+|....+|..
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~sL-~-~~L~~~Y~~rC~~~~VF~~~~Y~~ 248 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGSL-V-STLDPGYDIRCVVTTVFNTGSYIC 248 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCccH-H-HhcccccCceEEEEEEEeCCceEE
Confidence 3467899999999985 3699999999983 35778888431 333332 1 222222 2588899999999999
Q ss_pred ChhHHHHHHHHHHhcccCCCCeEEEEEe-ecCCccc
Q 043461 88 SPWCLDELAKIVECGNKRKDRKVFAVFY-GVDPADA 122 (196)
Q Consensus 88 S~wCl~EL~~i~~~~~~~~~~~ViPVfy-~v~psdV 122 (196)
-.||.-|-..+-+.. .-....||.| +++-+.+
T Consensus 249 K~~c~~E~~~~r~~~---~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 249 KSTCHIEGLEGRLNP---ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred eeeeccchhhccccc---cccccceEEEEecCCccc
Confidence 999999877764432 2245777776 4555544
No 12
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=86.62 E-value=7 Score=28.65 Aligned_cols=68 Identities=21% Similarity=0.202 Sum_probs=49.6
Q ss_pred ccHHHHHHHHHHcCCceeEecCcc-Cc---CC----CcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHh
Q 043461 33 NNFTDHLHAALIRNGFIAFKDDET-LE---RG----NEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVEC 101 (196)
Q Consensus 33 ~~fv~~L~~~L~~~Gi~vf~d~~~-l~---~G----~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~ 101 (196)
..+...+.+.|+..|+.+|...+. .. .+ ..+...-.++|++|++.|+++...- .+.-+.-|+..+...
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 568899999999999999876521 11 12 2344455678999999999998755 566788899999773
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=85.91 E-value=5.8 Score=33.19 Aligned_cols=96 Identities=19% Similarity=0.209 Sum_probs=66.5
Q ss_pred eEEEccccccCcccHHHHHHHHHHcC-C-ceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecccc------------
Q 043461 21 DVFLSFRGEDTRNNFTDHLHAALIRN-G-FIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYA------------ 86 (196)
Q Consensus 21 DVFISy~~~D~~~~fv~~L~~~L~~~-G-i~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~------------ 86 (196)
.|||-|+++. .+.....+|.+. . ..+|.|. -...|+.+.+.+.+-|.+++.+|++.+|+=.
T Consensus 84 kvFvv~ghd~----iArael~allrd~~l~~vi~d~-~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~ 158 (233)
T COG4271 84 KVFVVSGHDA----IARAELEALLRDWKLEPVILDG-LFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAF 158 (233)
T ss_pred eEEEEeccHH----HHHHHHHHHhhccccceEEecC-cccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhcc
Confidence 8999986543 666666666643 3 4566665 3788999999999999999999999999854
Q ss_pred --CChhHHHHHHHHHHhcccCCCCeEEEEEee----cCCccccc
Q 043461 87 --SSPWCLDELAKIVECGNKRKDRKVFAVFYG----VDPADART 124 (196)
Q Consensus 87 --~S~wCl~EL~~i~~~~~~~~~~~ViPVfy~----v~psdVr~ 124 (196)
.......||..++... ++.+|+-+.-+ --|||+..
T Consensus 159 praRqNVifELGm~mgrL---gRkrv~Il~k~~envelPSDi~G 199 (233)
T COG4271 159 PRARQNVIFELGMFMGRL---GRKRVMILMKRDENVELPSDIAG 199 (233)
T ss_pred ccccccchhhHhhHHhhc---ccceEEEEecccccccCccccCc
Confidence 1233677888888765 34445443321 13777654
No 14
>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=80.32 E-value=6.5 Score=26.96 Aligned_cols=60 Identities=10% Similarity=0.150 Sum_probs=37.6
Q ss_pred eeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 20 YDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 20 yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
+||+|...+++. ...+-.+...|++.|+++-+|.. +..+...+..|-+.---.++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~----~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR----NEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 677776655443 35678899999999999999864 3455555555543322334444443
No 15
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=76.80 E-value=16 Score=24.32 Aligned_cols=61 Identities=15% Similarity=0.156 Sum_probs=37.6
Q ss_pred HHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEE
Q 043461 37 DHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVF 111 (196)
Q Consensus 37 ~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~Vi 111 (196)
.-|+.-|++.|+.+-.... ...+++..+-.+++++|.+.-+. -.++..+.+..+. ++..||
T Consensus 8 ~a~~~~L~~~g~~v~~~~~-----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~-G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK-----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEA-GNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc-----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHc-CCEEEE
Confidence 4577788888988854332 12344558889999999966554 3444444444444 555554
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=72.88 E-value=13 Score=25.57 Aligned_cols=60 Identities=20% Similarity=0.297 Sum_probs=38.3
Q ss_pred eeEEEccccc---cCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 20 YDVFLSFRGE---DTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 20 yDVFISy~~~---D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
++|+|-.-++ . ....+..+...|++.|+.+-+|.. +..+...+..|-+.---.++++.++
T Consensus 2 ~~v~ii~~~~~~~~-~~~~a~~~~~~Lr~~g~~v~~~~~----~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVE-AREYAQKLLNALLANGIRVLYDDR----ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHH-HHHHHHHHHHHHHHCCCEEEecCC----CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 5666654333 2 235777889999999999999764 3455555555544433466666653
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=69.45 E-value=11 Score=26.30 Aligned_cols=48 Identities=17% Similarity=0.239 Sum_probs=32.4
Q ss_pred ccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 33 NNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 33 ~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
..++.+|...|.+.||.+.+|.. +..+...+..|-..---.++|+.++
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~----~~~~~k~~~~a~~~g~p~~iiiG~~ 62 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS----DKSLGKQIKYADKLGIPFIIIIGEK 62 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS----SSTHHHHHHHHHHTTESEEEEEEHH
T ss_pred HHHHHHHHHHHHHCCCEEEEECC----CCchhHHHHHHhhcCCeEEEEECch
Confidence 45789999999999999999975 3444555556654333344555543
No 18
>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=60.69 E-value=43 Score=23.48 Aligned_cols=65 Identities=14% Similarity=0.117 Sum_probs=40.7
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEecCccCc-------CCCcccHHHHHHhhhcceEEEEeecccc
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLE-------RGNEISSELSQAIEESNVSIVILSKNYA 86 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~-------~G~~i~~~i~~aI~~S~i~IvV~S~~y~ 86 (196)
+|.+..|--.+..++.+|...|.++|.++.+-+-+.. .+-...+....++..|+..|+++.++..
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 3666666555556789999999989988876543321 1112233444667777777777766543
No 19
>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=59.29 E-value=10 Score=28.99 Aligned_cols=33 Identities=9% Similarity=0.090 Sum_probs=25.8
Q ss_pred cccHHHHHHHHHHcCCceeEecCccC---cCCCccc
Q 043461 32 RNNFTDHLHAALIRNGFIAFKDDETL---ERGNEIS 64 (196)
Q Consensus 32 ~~~fv~~L~~~L~~~Gi~vf~d~~~l---~~G~~i~ 64 (196)
-...+..|+..|+..|+.++.|+++- .+|..+.
T Consensus 42 ~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~ 77 (128)
T cd02426 42 LRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLD 77 (128)
T ss_pred HHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHH
Confidence 35678999999999999999998753 4565554
No 20
>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=56.77 E-value=31 Score=23.72 Aligned_cols=48 Identities=17% Similarity=0.167 Sum_probs=31.1
Q ss_pred cHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccc
Q 043461 34 NFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNY 85 (196)
Q Consensus 34 ~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y 85 (196)
..+..|...|++.|+++.+|.+. ..+...+..|-+.---.++++.++-
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~~----~~l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDRN----ERPGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECCC----CCcccchhHHHhcCCCEEEEECCch
Confidence 57788999999999999998753 3444445555443333455555443
No 21
>COG0400 Predicted esterase [General function prediction only]
Probab=56.67 E-value=41 Score=27.89 Aligned_cols=55 Identities=24% Similarity=0.142 Sum_probs=43.2
Q ss_pred CCceeeEEEccccccC--cccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhh
Q 043461 16 LQSKYDVFLSFRGEDT--RNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIE 72 (196)
Q Consensus 16 ~~~~yDVFISy~~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~ 72 (196)
.....-|||+|-..|. -.....+|.+.|+..|..|.... ...|-.+.++-.++++
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 3567889999988886 45678999999999999998875 4478888776555554
No 22
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=55.84 E-value=52 Score=27.31 Aligned_cols=99 Identities=15% Similarity=0.232 Sum_probs=59.3
Q ss_pred EEEccccccC--cccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhh--------------------------
Q 043461 22 VFLSFRGEDT--RNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEE-------------------------- 73 (196)
Q Consensus 22 VFISy~~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~-------------------------- 73 (196)
.||.+-|-|. ..+.+..|+..|+.+|+.|.+-.+ ..|..+...|...+.+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~trE--P~~~~ige~iR~~ll~~~~~~~~~~e~lLfaadR~~h~~~~i 81 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTRE--PGGTPIGEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEVI 81 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC--CCCChHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4899988774 356889999999999998877542 2222222222221111
Q ss_pred ---cceEEEEeeccccCChhHHHH--------HHHHHHhcccCCCCeEEEEEeecCCccc
Q 043461 74 ---SNVSIVILSKNYASSPWCLDE--------LAKIVECGNKRKDRKVFAVFYGVDPADA 122 (196)
Q Consensus 74 ---S~i~IvV~S~~y~~S~wCl~E--------L~~i~~~~~~~~~~~ViPVfy~v~psdV 122 (196)
-.-.-+|++..|..|.-+.+- ....+...-..+-..-+-+|++++|..-
T Consensus 82 ~pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~a 141 (208)
T COG0125 82 KPALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEVA 141 (208)
T ss_pred HHhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHHH
Confidence 112358899999998887762 2222222211022456677889988763
No 23
>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=55.33 E-value=33 Score=25.42 Aligned_cols=61 Identities=15% Similarity=0.083 Sum_probs=39.5
Q ss_pred eeeEEEcccc--ccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccc
Q 043461 19 KYDVFLSFRG--EDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNY 85 (196)
Q Consensus 19 ~yDVFISy~~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y 85 (196)
.+||||-.-+ ++ ....+..|...|+++|++|-+|.. ..+...+..|-+.---.++++.++-
T Consensus 26 p~~v~Ii~~~~~~~-~~~~a~~la~~LR~~gi~v~~d~~-----~sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 26 PIKVAVLPLVKRDE-LVEIAKEISEELRELGFSVKYDDS-----GSIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred CcEEEEEecCCcHH-HHHHHHHHHHHHHHCCCEEEEeCC-----CCHHHHHHHhHhcCCCEEEEECcCc
Confidence 5788887755 32 235677899999999999999863 3445555555443334555555543
No 24
>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=53.93 E-value=65 Score=22.87 Aligned_cols=67 Identities=16% Similarity=0.219 Sum_probs=44.0
Q ss_pred HHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEEEE
Q 043461 39 LHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAV 113 (196)
Q Consensus 39 L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPV 113 (196)
+...++-.|+..+.... ..++....+.+.++...+.|++++++++.. -.+++....+.. ....|++|
T Consensus 9 ~v~gFrLaGv~~~~~~~---~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~~~~~~---~~P~iv~I 75 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVNT---DPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDEYREES---SLPLIVEI 75 (95)
T ss_dssp HHHHHHHTTSEEEEESH---SHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHHHHHTS---SSSEEEEE
T ss_pred HHHHHHHcCCCCccCCC---CHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHHHHhcc---CCceEEEc
Confidence 44566778999888751 134556667777778999999999999874 334455554322 33455555
No 25
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=48.42 E-value=14 Score=32.02 Aligned_cols=31 Identities=29% Similarity=0.459 Sum_probs=22.0
Q ss_pred hHHHHHHHHHHh---cccCCCCeEEEEEeecCCc
Q 043461 90 WCLDELAKIVEC---GNKRKDRKVFAVFYGVDPA 120 (196)
Q Consensus 90 wCl~EL~~i~~~---~~~~~~~~ViPVfy~v~ps 120 (196)
=|.+||.++... .+...+..++|||.-|+|.
T Consensus 154 ICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 154 ICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred cChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 488998775443 2332667777999999995
No 26
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=47.99 E-value=19 Score=34.19 Aligned_cols=64 Identities=14% Similarity=0.216 Sum_probs=40.6
Q ss_pred ceeeEEEcccc--ccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccc
Q 043461 18 SKYDVFLSFRG--EDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNY 85 (196)
Q Consensus 18 ~~yDVFISy~~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y 85 (196)
..+||+|---+ .+.....+..|+..|+..||++.+|+++-.+|..+...- ..+.. .++++.++.
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad---~~GiP-~~iiiG~~e 532 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADAD---LIGIP-HRIVVGDRG 532 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHH---hcCCC-EEEEEcCcc
Confidence 45888886543 222346788999999999999999987555555543321 22233 445555553
No 27
>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=47.26 E-value=5.1 Score=32.29 Aligned_cols=70 Identities=23% Similarity=0.366 Sum_probs=39.2
Q ss_pred ChhHHHHHHHHHHhcccCCCCeEEEEEeecCCccccc-cCcchHHHHHHHHHHHhccCHHHHHHHHHHHHHhhcccceee
Q 043461 88 SPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADART-QKGEDFERVFAKYEEEFKENQEKVLKWRAAFTRVASLAGWHL 166 (196)
Q Consensus 88 S~wCl~EL~~i~~~~~~~~~~~ViPVfy~v~psdVr~-q~g~~f~~~f~~~~~~~~~~~~~v~~W~~AL~~v~~~~G~~~ 166 (196)
|.|.+.||..-++..+- +.=.=+-+.+.|+|-++.+ |+. ++.+.+.-++++|..|++ |--+-.|-+
T Consensus 54 s~~~Lf~LI~k~~~kei-kTW~~La~~LGVepp~~ek~qSt-----------QKvqQYaVRLKRWM~aMH-VDAFFeYll 120 (175)
T PF09441_consen 54 STFTLFELIRKLESKEI-KTWAQLALELGVEPPDPEKGQST-----------QKVQQYAVRLKRWMRAMH-VDAFFEYLL 120 (175)
T ss_pred hHHHHHHHHHHHhhhhH-hHHHHHHHHhCCCCCCcccccch-----------HHHHHHHHHHHHHHHHhh-HHHHHHHHh
Confidence 46778888776664432 2222333456788877654 322 222334578999999986 333333444
Q ss_pred cCCC
Q 043461 167 QDSG 170 (196)
Q Consensus 167 ~~~~ 170 (196)
.+..
T Consensus 121 g~~~ 124 (175)
T PF09441_consen 121 GKPH 124 (175)
T ss_pred CCCC
Confidence 4333
No 28
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=45.50 E-value=1.1e+02 Score=21.92 Aligned_cols=63 Identities=10% Similarity=0.049 Sum_probs=41.0
Q ss_pred HHHHHHHHcCCceeEecCcc-CcCCCcccH---HHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHh
Q 043461 37 DHLHAALIRNGFIAFKDDET-LERGNEISS---ELSQAIEESNVSIVILSKNYASSPWCLDELAKIVEC 101 (196)
Q Consensus 37 ~~L~~~L~~~Gi~vf~d~~~-l~~G~~i~~---~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~ 101 (196)
......|+.+|..|.---.. ...|..+.. .-...+..|+.. ++=|+.-.|.=|.-|...+.+.
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 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAI--YMLPGWENSRGARLEHELAKKL 85 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEE--EEcCCcccCcchHHHHHHHHHC
Confidence 35778889999766543221 244444333 233456677743 3449999999999999988774
No 29
>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=44.89 E-value=46 Score=31.38 Aligned_cols=61 Identities=11% Similarity=0.213 Sum_probs=42.2
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
...||+|-.-+++. ...+..|...|+++|++|-+|.+ +..+...+..|-+.---.++|+.+
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~----~~sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR----NERLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHhcCCCEEEEEch
Confidence 45788877655543 46788999999999999999864 456666666665443335555554
No 30
>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=42.94 E-value=30 Score=25.13 Aligned_cols=56 Identities=18% Similarity=0.261 Sum_probs=34.7
Q ss_pred cccCcccHHHHHHHHHHcCCceeEecCccCc----------CCCcccHHHHHHhhhcceEEEEeec
Q 043461 28 GEDTRNNFTDHLHAALIRNGFIAFKDDETLE----------RGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 28 ~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~----------~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
..|+|++=+-.|...|.++|+.+.+.+--.. .|-...+.+.++++++++.|+.-..
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h 76 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDH 76 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecC
Confidence 3578999999999999999999887543221 1223334567888888887775543
No 31
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=42.84 E-value=35 Score=26.36 Aligned_cols=55 Identities=15% Similarity=0.211 Sum_probs=40.3
Q ss_pred eeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcce
Q 043461 20 YDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNV 76 (196)
Q Consensus 20 yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i 76 (196)
.++|+-..+.=....++..|..++..+|+-++.|.+ .+|+.|...|.+.+.++.-
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 456665544321246788999999999999999974 6899998888888877443
No 32
>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=42.69 E-value=70 Score=21.12 Aligned_cols=58 Identities=22% Similarity=0.169 Sum_probs=33.3
Q ss_pred eEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 21 DVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 21 DVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
||+|-..+++. ..-+-.+...|++.|+++.++... ..+...+..|-...-..++++.+
T Consensus 3 ~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~~----~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 3 DVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYGG----RKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred cEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecCC----CCHHHHHHHHHHcCCCEEEEEcH
Confidence 67666544432 234678889999999999887532 23333444443322234455544
No 33
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=36.76 E-value=88 Score=28.75 Aligned_cols=64 Identities=16% Similarity=0.091 Sum_probs=39.8
Q ss_pred eeeEEEcccc--ccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecccc
Q 043461 19 KYDVFLSFRG--EDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYA 86 (196)
Q Consensus 19 ~yDVFISy~~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~ 86 (196)
.++|.|---+ .+.....+..|...|.+.||+|.+|+++-..|.. +..|-..---.++|+.++-.
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~k----i~~a~~~giP~~iiVG~~e~ 410 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAK----FATMDLIGLPWQIIVGPKGL 410 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHH----HHHHHHcCCCEEEEECCccc
Confidence 4788775432 2223467889999999999999999865444444 33443322235566665543
No 34
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=36.51 E-value=26 Score=26.96 Aligned_cols=24 Identities=33% Similarity=0.418 Sum_probs=12.8
Q ss_pred EEccccccCcccHHHHHHHHHHcC
Q 043461 23 FLSFRGEDTRNNFTDHLHAALIRN 46 (196)
Q Consensus 23 FISy~~~D~~~~fv~~L~~~L~~~ 46 (196)
||.=.+.|.|..|+..|.+++...
T Consensus 48 fL~~~~~DPr~~~~~~L~~~i~~~ 71 (130)
T PF11074_consen 48 FLADPGEDPRRELIEALIKAIGSI 71 (130)
T ss_pred HhccCCCCchHHHHHHHHHHhhhh
Confidence 444444555555555555555544
No 35
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=35.01 E-value=1.8e+02 Score=21.32 Aligned_cols=71 Identities=18% Similarity=0.164 Sum_probs=43.3
Q ss_pred HHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhh-hcceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEEEE
Q 043461 35 FTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIE-ESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAV 113 (196)
Q Consensus 35 fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~-~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPV 113 (196)
-...|..+|++.|+.+..-.. .+.....|+ .+++.-||+|-+ ....-...++...++.. ..=|||
T Consensus 5 ~~~~l~~~L~~~~~~vv~~~~--------~dd~~~~i~~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~-----~~~iPV 70 (115)
T PF03709_consen 5 ASRELAEALEQRGREVVDADS--------TDDALAIIESFTDIAAVVISWD-GEEEDEAQELLDKIRER-----NFGIPV 70 (115)
T ss_dssp HHHHHHHHHHHTTTEEEEESS--------HHHHHHHHHCTTTEEEEEEECH-HHHHHHHHHHHHHHHHH-----STT-EE
T ss_pred HHHHHHHHHHHCCCEEEEeCC--------hHHHHHHHHhCCCeeEEEEEcc-cccchhHHHHHHHHHHh-----CCCCCE
Confidence 457899999999998876432 234555666 489999999877 21111223343333332 336899
Q ss_pred EeecCC
Q 043461 114 FYGVDP 119 (196)
Q Consensus 114 fy~v~p 119 (196)
|.-.+.
T Consensus 71 Fl~~~~ 76 (115)
T PF03709_consen 71 FLLAER 76 (115)
T ss_dssp EEEESC
T ss_pred EEEecC
Confidence 986663
No 36
>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=34.66 E-value=1.3e+02 Score=21.22 Aligned_cols=58 Identities=17% Similarity=0.238 Sum_probs=37.3
Q ss_pred HHHHHHHHHHcCCceeEecCccCcCCCcc-cHHHHHHhhhcceEEEEeeccccCChhHHHH
Q 043461 35 FTDHLHAALIRNGFIAFKDDETLERGNEI-SSELSQAIEESNVSIVILSKNYASSPWCLDE 94 (196)
Q Consensus 35 fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i-~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~E 94 (196)
....+...+++.|...-.. .-..|..- ...+...|.++++.|++..----...|...+
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 4567888899999876665 11223222 2247888999999888876555555554443
No 37
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=34.60 E-value=84 Score=28.83 Aligned_cols=60 Identities=17% Similarity=0.181 Sum_probs=39.2
Q ss_pred eeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 19 ~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
.++|+|-.-+++. ...+..|...|+++|+++.+|.. +..+...+.+|-+.---.++++.+
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~----srSLgKQiK~AdK~GaPfvIIIGe 333 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL----DDSLGNKIRRAGTEWIPFVIIIGE 333 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECc
Confidence 4677766555543 35678899999999999999864 456666666665433334444443
No 38
>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=34.04 E-value=67 Score=26.18 Aligned_cols=50 Identities=18% Similarity=0.319 Sum_probs=37.7
Q ss_pred ccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecccc
Q 043461 33 NNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYA 86 (196)
Q Consensus 33 ~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~ 86 (196)
..-...|..+.+.+||-+|.|.+ .+|+.|...|.+.+-++..+- +++.++
T Consensus 35 ~~~i~~i~~~~~~rgVIIfTDpD--~~GekIRk~i~~~vp~~khaf--i~~~~a 84 (174)
T TIGR00334 35 DETINLIKKAQKKQGVIILTDPD--FPGEKIRKKIEQHLPGYENCF--IPKHLA 84 (174)
T ss_pred HHHHHHHHHHhhcCCEEEEeCCC--CchHHHHHHHHHHCCCCeEEe--eeHHhc
Confidence 44567888888999999999985 689999888888887766543 344444
No 39
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=33.83 E-value=60 Score=24.79 Aligned_cols=47 Identities=23% Similarity=0.287 Sum_probs=34.6
Q ss_pred HHHHHhhhcceEEEEeeccccCChhHHH----HHHHHHHhcccCCCCeEEEEEee
Q 043461 66 ELSQAIEESNVSIVILSKNYASSPWCLD----ELAKIVECGNKRKDRKVFAVFYG 116 (196)
Q Consensus 66 ~i~~aI~~S~i~IvV~S~~y~~S~wCl~----EL~~i~~~~~~~~~~~ViPVfy~ 116 (196)
.+-..+.++-...|++.|||++. -|.+ ||..|.+.+ .--.|.||-|-
T Consensus 55 ~L~~~LCG~~~~~i~IDP~~~~K-GC~~TL~HEL~H~WQ~R---sYG~i~PITY~ 105 (141)
T PHA02456 55 ALPQDLCGQFVGWIEIDPDYANK-GCRDTLAHELNHAWQFR---TYGLVQPITYA 105 (141)
T ss_pred hcCcchhhcceeEEEECCccccc-chHHHHHHHHHHHHhhh---ccceeeeeehh
Confidence 34445667888999999999984 5765 777777765 34579999874
No 40
>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=33.13 E-value=1.8e+02 Score=20.73 Aligned_cols=59 Identities=20% Similarity=0.146 Sum_probs=38.0
Q ss_pred HHHHHHHHHcCCceeE-ecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhcc
Q 043461 36 TDHLHAALIRNGFIAF-KDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGN 103 (196)
Q Consensus 36 v~~L~~~L~~~Gi~vf-~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~ 103 (196)
...|...|+++|+.+- +|-. .. .+++.+++++.+--+|.+|=.+. |...++..+.+..+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~-~~-----~~~l~~~~~~~~pd~V~iS~~~~---~~~~~~~~l~~~~k 76 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDAN-VP-----PEELVEALRAERPDVVGISVSMT---PNLPEAKRLARAIK 76 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESS-B------HHHHHHHHHHTTCSEEEEEESSS---THHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCeEEEECCC-CC-----HHHHHHHHhcCCCcEEEEEccCc---CcHHHHHHHHHHHH
Confidence 4678889999999885 4432 21 16778888888887788876543 44455555544443
No 41
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=32.28 E-value=19 Score=33.51 Aligned_cols=138 Identities=18% Similarity=0.212 Sum_probs=66.3
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHh
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVEC 101 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~ 101 (196)
.|+-|+.+|....-+ +.|.+ .++.+|..|.-. -.+.++|.+|-=+- -.|-.+|+.+.++.
T Consensus 128 AFVtf~~Ke~Aq~Ai----k~lnn---------~Eir~GK~igvc--~Svan~RLFiG~IP-----K~k~keeIlee~~k 187 (506)
T KOG0117|consen 128 AFVTFCTKEEAQEAI----KELNN---------YEIRPGKLLGVC--VSVANCRLFIGNIP-----KTKKKEEILEEMKK 187 (506)
T ss_pred EEEEeecHHHHHHHH----HHhhC---------ccccCCCEeEEE--EeeecceeEeccCC-----ccccHHHHHHHHHh
Confidence 578888877433323 33332 245566666422 23456666665332 35677777666654
Q ss_pred cccCCCCeEEEEEeecCCccccccCcchHHHHHHHH-------HHHhccCHHHHHHHHHHHHHhhcccceeecCCCCCCc
Q 043461 102 GNKRKDRKVFAVFYGVDPADARTQKGEDFERVFAKY-------EEEFKENQEKVLKWRAAFTRVASLAGWHLQDSGDVSP 174 (196)
Q Consensus 102 ~~~~~~~~ViPVfy~v~psdVr~q~g~~f~~~f~~~-------~~~~~~~~~~v~~W~~AL~~v~~~~G~~~~~~~~~~~ 174 (196)
. ..-++.-|.|. +|.|-.+..| | +|.+. ..+-+--..+++-|-++.+ .+.+--..+...+++.
T Consensus 188 V---teGVvdVivy~-~p~dk~KNRG--F--aFveYe~H~~Aa~aRrKl~~g~~klwgn~~t--VdWAep~~e~ded~ms 257 (506)
T KOG0117|consen 188 V---TEGVVDVIVYP-SPDDKTKNRG--F--AFVEYESHRAAAMARRKLMPGKIKLWGNAIT--VDWAEPEEEPDEDTMS 257 (506)
T ss_pred h---CCCeeEEEEec-Cccccccccc--e--EEEEeecchhHHHHHhhccCCceeecCCcce--eeccCcccCCChhhhh
Confidence 3 22345555555 4555333233 2 22221 1111112456777765543 1111112222224332
Q ss_pred ccccccCcccccccccc
Q 043461 175 FACYKHTHVTSLEISSS 191 (196)
Q Consensus 175 ~~~~~~~~~~~~~~~~~ 191 (196)
. -+.+.|.|||+++.
T Consensus 258 ~--VKvLYVRNL~~~tT 272 (506)
T KOG0117|consen 258 K--VKVLYVRNLMESTT 272 (506)
T ss_pred h--eeeeeeeccchhhh
Confidence 2 23449999999863
No 42
>cd07373 2A5CPDO_A The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO) catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the alpha subunit, which does not contain a potential metal binding site and may not possess catalytic activity.
Probab=32.07 E-value=2.5e+02 Score=23.93 Aligned_cols=77 Identities=17% Similarity=0.214 Sum_probs=51.2
Q ss_pred ccHHHHHHHHHHcCCceeE-ecCcc--CcCCCcccHHHHHHh-h-hcceEEEEeeccccCChhHHHHHHHHHHh-cccCC
Q 043461 33 NNFTDHLHAALIRNGFIAF-KDDET--LERGNEISSELSQAI-E-ESNVSIVILSKNYASSPWCLDELAKIVEC-GNKRK 106 (196)
Q Consensus 33 ~~fv~~L~~~L~~~Gi~vf-~d~~~--l~~G~~i~~~i~~aI-~-~S~i~IvV~S~~y~~S~wCl~EL~~i~~~-~~~~~ 106 (196)
..++..+.+.|.+.||.+- +|... +--|--+. +.-+ . ..++-||.+|-+...+.....+|.+++.. .++ .
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vP---L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~-~ 165 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITA---CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKD-Q 165 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHH---HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHH-c
Confidence 4689999999999999986 66532 33333222 2223 2 46777888998887777778899998874 333 3
Q ss_pred CCeEEEE
Q 043461 107 DRKVFAV 113 (196)
Q Consensus 107 ~~~ViPV 113 (196)
+..|+=|
T Consensus 166 ~~rV~iI 172 (271)
T cd07373 166 NKRVAVV 172 (271)
T ss_pred CCeEEEE
Confidence 4556644
No 43
>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=31.65 E-value=56 Score=22.17 Aligned_cols=27 Identities=15% Similarity=0.140 Sum_probs=13.4
Q ss_pred CCceeEecCccCcCCCcccHHHHHHhhhc
Q 043461 46 NGFIAFKDDETLERGNEISSELSQAIEES 74 (196)
Q Consensus 46 ~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S 74 (196)
+.+-+++|.+ .+|..-...+.+.+..-
T Consensus 44 ~~vii~~D~D--~aG~~a~~~~~~~l~~~ 70 (79)
T cd03364 44 KEVILAFDGD--EAGQKAALRALELLLKL 70 (79)
T ss_pred CeEEEEECCC--HHHHHHHHHHHHHHHHC
Confidence 4556666653 45554444444444433
No 44
>KOG3043 consensus Predicted hydrolase related to dienelactone hydrolase [General function prediction only]
Probab=31.34 E-value=1.1e+02 Score=26.22 Aligned_cols=76 Identities=16% Similarity=0.122 Sum_probs=53.6
Q ss_pred cceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEEEEEeecCCccccccCcchHHHHHHHHHHHh-ccCHHHHHHHH
Q 043461 74 SNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADARTQKGEDFERVFAKYEEEF-KENQEKVLKWR 152 (196)
Q Consensus 74 S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPVfy~v~psdVr~q~g~~f~~~f~~~~~~~-~~~~~~v~~W~ 152 (196)
+...|++|+.=|--+.--..|....+.+. +-.+++|=||..+|-....|+. .+.+-+..|--.. ..+-..+.+|-
T Consensus 38 ~~~~li~i~DvfG~~~~n~r~~Adk~A~~---Gy~v~vPD~~~Gdp~~~~~~~~-~~~~w~~~~~~~~~~~~i~~v~k~l 113 (242)
T KOG3043|consen 38 SKKVLIVIQDVFGFQFPNTREGADKVALN---GYTVLVPDFFRGDPWSPSLQKS-ERPEWMKGHSPPKIWKDITAVVKWL 113 (242)
T ss_pred CCeEEEEEEeeeccccHHHHHHHHHHhcC---CcEEEcchhhcCCCCCCCCChh-hhHHHHhcCCcccchhHHHHHHHHH
Confidence 45789999999988777777777776654 6789999999999999988877 6665555442111 11234566665
Q ss_pred H
Q 043461 153 A 153 (196)
Q Consensus 153 ~ 153 (196)
+
T Consensus 114 k 114 (242)
T KOG3043|consen 114 K 114 (242)
T ss_pred H
Confidence 5
No 45
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=30.60 E-value=50 Score=26.99 Aligned_cols=62 Identities=15% Similarity=0.082 Sum_probs=38.5
Q ss_pred eeeEEEcccccc-----CcccHHHHHHHHHHcCCceeEecCccC-cCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 19 KYDVFLSFRGED-----TRNNFTDHLHAALIRNGFIAFKDDETL-ERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 19 ~yDVFISy~~~D-----~~~~fv~~L~~~L~~~Gi~vf~d~~~l-~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
.++|+|---+.+ .-...+..|...|...||++.+|+++- .+|..+...- ..+.. .++++.++
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ae---~~GvP-~~I~IG~~ 77 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDWE---LKGVP-LRIEIGPR 77 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHHH---hCCCC-EEEEECcc
Confidence 467776543322 123578899999999999999998654 6666654322 22333 44445554
No 46
>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=30.40 E-value=1.9e+02 Score=21.06 Aligned_cols=61 Identities=25% Similarity=0.349 Sum_probs=35.1
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEecC--------ccC-----cCCCc-ccHHHHHHhhh-cceEEEEeecc
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDD--------ETL-----ERGNE-ISSELSQAIEE-SNVSIVILSKN 84 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~--------~~l-----~~G~~-i~~~i~~aI~~-S~i~IvV~S~~ 84 (196)
||||-+..|. ..+ ..+...|...|++++--. .++ ..+.. -.+++.+.|++ -++.+||..|+
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-AML-VDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccH-HHH-HHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 6788776652 233 366666777777665321 111 11111 12567788888 78888877765
No 47
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=30.22 E-value=1.1e+02 Score=28.05 Aligned_cols=61 Identities=15% Similarity=0.157 Sum_probs=40.4
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
...||+|-+-+.+. ...+-.+...|+++|++|-+|.. +..+...+..|-+.--..++|+.+
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 34677899999999999988653 344555666665544445566655
No 48
>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=29.26 E-value=1.7e+02 Score=21.00 Aligned_cols=30 Identities=23% Similarity=0.280 Sum_probs=20.8
Q ss_pred eEEEccccccCcccHHHHHHHHHHcCCceeEe
Q 043461 21 DVFLSFRGEDTRNNFTDHLHAALIRNGFIAFK 52 (196)
Q Consensus 21 DVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~ 52 (196)
.||+|.+..|. . -...+.+.|.+.|+++|-
T Consensus 2 ~vl~s~~~~~k-~-~~~~~~~~l~~~G~~l~a 31 (110)
T cd01424 2 TVFISVADRDK-P-EAVEIAKRLAELGFKLVA 31 (110)
T ss_pred eEEEEEEcCcH-h-HHHHHHHHHHHCCCEEEE
Confidence 37888887763 3 344677777778888864
No 49
>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=29.10 E-value=2.1e+02 Score=24.06 Aligned_cols=70 Identities=17% Similarity=0.182 Sum_probs=48.3
Q ss_pred ccHHHHHHHHHHcCCceeEecC-ccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhccc
Q 043461 33 NNFTDHLHAALIRNGFIAFKDD-ETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNK 104 (196)
Q Consensus 33 ~~fv~~L~~~L~~~Gi~vf~d~-~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~ 104 (196)
..++.+|.+.|..+|+.+-.+. ..+--|--+. +.-...+.++-||.+|-+...+..-..+|.+++...+.
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~~ 150 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLRD 150 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhhh
Confidence 4699999999999999887643 2222232221 22233356888999999888777777899998876543
No 50
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=28.56 E-value=1.1e+02 Score=29.24 Aligned_cols=60 Identities=17% Similarity=0.227 Sum_probs=38.9
Q ss_pred eeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 19 ~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
..||+|-.-+++ ....+..+...|+++|++|-+|.+ +..+...+..|-..---.++|+.+
T Consensus 438 P~qV~Iipi~e~-~~~~A~~Ia~~LR~~GirVelD~~----~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDE-VNEYAEKVLNDMRKRRIRAEIDYA----GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHH-HHHHHHHHHHHHHhCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECh
Confidence 468877665443 345788999999999999999874 445555566654332234444443
No 51
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=27.97 E-value=1.1e+02 Score=28.90 Aligned_cols=60 Identities=10% Similarity=0.210 Sum_probs=39.8
Q ss_pred eeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 19 ~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
.+||+|---+++ ....+..|...|++.||+|-+|.+ +..+...+..|-..---.++|+.+
T Consensus 476 p~~v~Ii~~~~~-~~~~a~~i~~~Lr~~gi~v~~d~~----~~~l~kk~~~A~~~g~p~~iivG~ 535 (575)
T PRK12305 476 PVQVVIIPVADA-HNEYAEEVAKKLRAAGIRVEVDTS----NERLNKKIRNAQKQKIPYMLVVGD 535 (575)
T ss_pred CccEEEEEeChH-HHHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHhcCCCEEEEEec
Confidence 468888654443 245788999999999999999875 344555566664433334555554
No 52
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=27.71 E-value=58 Score=30.36 Aligned_cols=62 Identities=11% Similarity=0.033 Sum_probs=38.3
Q ss_pred eeeEEEcccc-----ccCcccHHHHHHHHHHcCCceeEecC-ccCcCCCcccHHHHHHhh-hcceEEEEeeccc
Q 043461 19 KYDVFLSFRG-----EDTRNNFTDHLHAALIRNGFIAFKDD-ETLERGNEISSELSQAIE-ESNVSIVILSKNY 85 (196)
Q Consensus 19 ~yDVFISy~~-----~D~~~~fv~~L~~~L~~~Gi~vf~d~-~~l~~G~~i~~~i~~aI~-~S~i~IvV~S~~y 85 (196)
.++|+|---. .+.....+..|...|++.||+|.+|+ ++..+|..+ .++-. +.. .++++.++-
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~----~~ae~~GvP-~~IiIG~~e 355 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKF----NEWELKGVP-LRIEIGPRD 355 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHH----HHHHHCCCC-EEEEECcch
Confidence 4888776431 12234578899999999999999998 434445444 33322 333 455555553
No 53
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=27.19 E-value=1.2e+02 Score=29.38 Aligned_cols=61 Identities=15% Similarity=0.150 Sum_probs=38.4
Q ss_pred eeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 19 ~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
.++|+|---+++ ....+..|...|+..||+|.+|+++- .+...+.+|-..---.++|+.++
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~----slgkKir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDE----SLGKKIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCC----CHHHHHHHHHHcCCCEEEEECcc
Confidence 478877654443 35688999999999999999998643 44444444433222244444433
No 54
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=27.04 E-value=1.4e+02 Score=27.27 Aligned_cols=46 Identities=26% Similarity=0.473 Sum_probs=34.7
Q ss_pred HhhhcceEEEEeecccc----CChhHHH-H-HHHHHHhcccCCCCeEEEEEee
Q 043461 70 AIEESNVSIVILSKNYA----SSPWCLD-E-LAKIVECGNKRKDRKVFAVFYG 116 (196)
Q Consensus 70 aI~~S~i~IvV~S~~y~----~S~wCl~-E-L~~i~~~~~~~~~~~ViPVfy~ 116 (196)
.|..+|--++|--..|+ .|+.|.+ | |.+..+|... ++.++||||--
T Consensus 191 ~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~-GGkvlIPvFAL 242 (501)
T KOG1136|consen 191 WIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVAR-GGKVLIPVFAL 242 (501)
T ss_pred hhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhc-CCeEEEEeeec
Confidence 36677777777666777 4888976 3 5666788877 99999999953
No 55
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=26.59 E-value=1.3e+02 Score=28.83 Aligned_cols=61 Identities=10% Similarity=0.131 Sum_probs=40.6
Q ss_pred eeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 19 ~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
..||+|-.-++.. ...+..|...|+++|++|-+|.+ +..+...+..|-..---.++|+.++
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 4688877644432 45788999999999999999874 4455555666544333355555553
No 56
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=25.74 E-value=51 Score=31.56 Aligned_cols=47 Identities=21% Similarity=0.403 Sum_probs=32.9
Q ss_pred eeeEEEcc-cccc-CcccHHHHHHHHHHcCCceeEecCccCcCCCcccH
Q 043461 19 KYDVFLSF-RGED-TRNNFTDHLHAALIRNGFIAFKDDETLERGNEISS 65 (196)
Q Consensus 19 ~yDVFISy-~~~D-~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~ 65 (196)
.|+|=|-- ..+| .....+..|+..|+..|+.|.+|+++..+|..+.+
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~d 521 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFAD 521 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHh
Confidence 46664432 1222 23467899999999999999999987667766643
No 57
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=25.26 E-value=4.9e+02 Score=23.21 Aligned_cols=79 Identities=20% Similarity=0.295 Sum_probs=52.2
Q ss_pred HHHHHHHHHHcC----CceeEecCccCcCCCcccHHHHHHhhhc---ceEEEEeeccccCCh--hHHHHHHHHHHhcccC
Q 043461 35 FTDHLHAALIRN----GFIAFKDDETLERGNEISSELSQAIEES---NVSIVILSKNYASSP--WCLDELAKIVECGNKR 105 (196)
Q Consensus 35 fv~~L~~~L~~~----Gi~vf~d~~~l~~G~~i~~~i~~aI~~S---~i~IvV~S~~y~~S~--wCl~EL~~i~~~~~~~ 105 (196)
....+..+|+.+ .+.|++. +.-|.+..++..+++.+. ++.++.+.|.|..|+ -..+++..+++..+..
T Consensus 74 ~T~~q~~~L~~~L~~~~~~V~~a---mry~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~~al~~~~~~ 150 (320)
T COG0276 74 ITRAQAAALEERLDLPDFKVYLA---MRYGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELARALKELRGQ 150 (320)
T ss_pred HHHHHHHHHHHHhCCCCccEEEe---ecCCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHHHHHHhcCCC
Confidence 445556666554 5777775 556777777777777654 457778889887654 3577888888755431
Q ss_pred CCCeEEEEEee
Q 043461 106 KDRKVFAVFYG 116 (196)
Q Consensus 106 ~~~~ViPVfy~ 116 (196)
.....||-||+
T Consensus 151 ~~i~~I~~~~~ 161 (320)
T COG0276 151 PKISTIPDYYD 161 (320)
T ss_pred CceEEecCccC
Confidence 34577777775
No 58
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=24.60 E-value=1.3e+02 Score=26.62 Aligned_cols=44 Identities=20% Similarity=0.508 Sum_probs=35.5
Q ss_pred HHHHHHhhhcceEEEEeecccc---CChhHHHHHHHHHHhcccCCCCeEEEEEe
Q 043461 65 SELSQAIEESNVSIVILSKNYA---SSPWCLDELAKIVECGNKRKDRKVFAVFY 115 (196)
Q Consensus 65 ~~i~~aI~~S~i~IvV~S~~y~---~S~wCl~EL~~i~~~~~~~~~~~ViPVfy 115 (196)
+.-..+|.+++--++|+-|.|. ..+|-.+||.+..+ ++ ++||=|
T Consensus 33 d~~~~~i~~~~f~llVVDps~~g~~~~~~~~eelr~~~~-----gg--~~pIAY 79 (300)
T COG2342 33 DAYINEILNSPFDLLVVDPSYCGPFNTPWTIEELRTKAD-----GG--VKPIAY 79 (300)
T ss_pred cchHHHHhcCCCcEEEEeccccCCCCCcCcHHHHHHHhc-----CC--eeEEEE
Confidence 4456789999999999999776 57999999988765 44 888877
No 59
>PRK07933 thymidylate kinase; Validated
Probab=23.83 E-value=1.5e+02 Score=24.19 Aligned_cols=30 Identities=27% Similarity=0.395 Sum_probs=24.1
Q ss_pred EEccccccC--cccHHHHHHHHHHcCCceeEe
Q 043461 23 FLSFRGEDT--RNNFTDHLHAALIRNGFIAFK 52 (196)
Q Consensus 23 FISy~~~D~--~~~fv~~L~~~L~~~Gi~vf~ 52 (196)
||.+-|-|. +.+.+..|.+.|+.+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 778877774 357889999999999988764
No 60
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=23.78 E-value=87 Score=25.29 Aligned_cols=123 Identities=19% Similarity=0.285 Sum_probs=69.9
Q ss_pred cHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEEEE
Q 043461 34 NFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAV 113 (196)
Q Consensus 34 ~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPV 113 (196)
..+.-+..+|.++||+|-+-.+ +. -+.|...+....-.-+++|.+|..-.|-..+-....+..+...+-..+|.
T Consensus 9 KvaraiA~~LC~rgv~V~m~~~-----~~-y~~lk~~~~~~~~~~Lv~~~~~~~K~WlVGd~l~~~EQ~~Ap~Gt~Fipf 82 (164)
T PF12076_consen 9 KVARAIALALCRRGVQVVMLSK-----ER-YESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPF 82 (164)
T ss_pred HHHHHHHHHHHhcCCEEEEecH-----HH-HHHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeec
Confidence 4677889999999999987532 12 23455555555455667788898888865433333444444477788885
Q ss_pred EeecCCccccccCcchHH--------H---HHHHHHHHhccCHHHHHHHHHHHHHhhcccceeecC
Q 043461 114 FYGVDPADARTQKGEDFE--------R---VFAKYEEEFKENQEKVLKWRAAFTRVASLAGWHLQD 168 (196)
Q Consensus 114 fy~v~psdVr~q~g~~f~--------~---~f~~~~~~~~~~~~~v~~W~~AL~~v~~~~G~~~~~ 168 (196)
- .-.|..+|+.. .|+ + .+...++.++ ..-+.-||.| --|--+.||+.-+
T Consensus 83 s-qfP~~~~RkDC--~Y~~tPAM~~P~~~~nl~sCEnwlp--RrVmsAwr~a-GivHaLEgW~~HE 142 (164)
T PF12076_consen 83 S-QFPPKKVRKDC--TYHSTPAMKVPKSMENLHSCENWLP--RRVMSAWRAA-GIVHALEGWNHHE 142 (164)
T ss_pred c-CCCcHHHhCCC--cccCcccccCChhhhhhhhhhccch--hhHHHHHhhh-hhhhhhcCCcccc
Confidence 3 22344455421 111 1 2222333332 3457788777 3344556776544
No 61
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=23.58 E-value=1.6e+02 Score=28.33 Aligned_cols=63 Identities=10% Similarity=0.200 Sum_probs=41.6
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeecc
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKN 84 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~ 84 (196)
...+|+|-.-+++.....+..|...|++.|++|-+|.. +..+...+..|-+.---.++|+.++
T Consensus 540 ap~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~~----~~sl~kq~k~A~k~g~~~~iiiG~~ 602 (639)
T PRK12444 540 APVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDER----DEKLGYKIREAQMQKIPYVLVIGDK 602 (639)
T ss_pred CCceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEEcch
Confidence 45788776655411246788999999999999999864 4556656666644433455555543
No 62
>PLN02530 histidine-tRNA ligase
Probab=23.57 E-value=1.6e+02 Score=27.44 Aligned_cols=61 Identities=13% Similarity=0.041 Sum_probs=41.1
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeec
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSK 83 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~ 83 (196)
...||+|-+-+++. ...+-.+...|+++|++|-+|... ..+...+..|-+.--..|+++.+
T Consensus 400 ~~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~~~----~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 400 HQVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVLEP----KKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEecCC----CCHHHHHHHHHHCCCCEEEEEch
Confidence 34689988755543 356778999999999999887532 44555666665544445666654
No 63
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=23.28 E-value=1.5e+02 Score=21.47 Aligned_cols=63 Identities=11% Similarity=0.244 Sum_probs=36.8
Q ss_pred HHHcCCceeEe-cCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEEEE
Q 043461 42 ALIRNGFIAFK-DDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAV 113 (196)
Q Consensus 42 ~L~~~Gi~vf~-d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPV 113 (196)
.++-.|+..+. ..+ .++....+.+.+..-++.|++++++++.. +-+++...++.. ....|+||
T Consensus 14 GFrLaGi~~~~~~~~----~ee~~~~l~~l~~~~d~gII~Ite~~~~~--i~e~i~~~~~~~---~~P~ii~I 77 (100)
T PRK02228 14 GFRLAGIRKVYEVPD----DEKLDEAVEEVLEDDDVGILVMHDDDLEK--LPRRLRRTLEES---VEPTVVTL 77 (100)
T ss_pred HHHHcCCceEEeeCC----HHHHHHHHHHHhhCCCEEEEEEehhHhHh--hHHHHHHHHhcC---CCCEEEEE
Confidence 45567886443 221 13444455555667789999999997763 344555544432 33456665
No 64
>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=22.47 E-value=3.1e+02 Score=19.84 Aligned_cols=29 Identities=10% Similarity=0.204 Sum_probs=21.2
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEe
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFK 52 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~ 52 (196)
||||....|. ..+ ..+.+.|...|++++-
T Consensus 3 vlisv~~~dk-~~~-~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSK-PEL-LPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCcccc-hhH-HHHHHHHHHCCCEEEE
Confidence 7999987763 334 4777788888888864
No 65
>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=22.35 E-value=3.7e+02 Score=20.78 Aligned_cols=79 Identities=19% Similarity=0.292 Sum_probs=43.1
Q ss_pred cHHHHHHHHHHcCC--ceeEecCccCcCCCcccHHHHHHhhh---cceEEEEeeccccCC--hhHHHHHHHHHHhcccCC
Q 043461 34 NFTDHLHAALIRNG--FIAFKDDETLERGNEISSELSQAIEE---SNVSIVILSKNYASS--PWCLDELAKIVECGNKRK 106 (196)
Q Consensus 34 ~fv~~L~~~L~~~G--i~vf~d~~~l~~G~~i~~~i~~aI~~---S~i~IvV~S~~y~~S--~wCl~EL~~i~~~~~~~~ 106 (196)
..+..|.+.|.+.+ +.++.- ++-|++..++..+.+.+ .++.++-+.|.|..+ .-+++++...+.......
T Consensus 72 ~q~~~l~~~L~~~~~~~~v~~a---mry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~~~~~~~ 148 (159)
T cd03411 72 AQAEALEKALDERGIDVKVYLA---MRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALKKLRPAP 148 (159)
T ss_pred HHHHHHHHHHhccCCCcEEEeh---HhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHHhcCCCC
Confidence 35566777776653 445443 45566544444444433 556777788887754 346777776665332112
Q ss_pred CCeEEEEEe
Q 043461 107 DRKVFAVFY 115 (196)
Q Consensus 107 ~~~ViPVfy 115 (196)
...+|+-||
T Consensus 149 ~~~~i~~~~ 157 (159)
T cd03411 149 ELRVIRSFY 157 (159)
T ss_pred cEEEeCccc
Confidence 334454443
No 66
>PRK08350 hypothetical protein; Provisional
Probab=22.13 E-value=74 Score=28.65 Aligned_cols=32 Identities=13% Similarity=0.146 Sum_probs=28.9
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCce
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFI 49 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~ 49 (196)
..|.+.+|||+-+|..+|+.+|..+|....|+
T Consensus 280 ~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 280 ERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred cCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 46889999999999999999999999887786
No 67
>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=22.01 E-value=2.1e+02 Score=21.24 Aligned_cols=56 Identities=27% Similarity=0.367 Sum_probs=25.0
Q ss_pred eeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhh-cceEEEEeeccc
Q 043461 20 YDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEE-SNVSIVILSKNY 85 (196)
Q Consensus 20 yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~-S~i~IvV~S~~y 85 (196)
.||-|-|+..+ ....++..+++. |+.+-+--..+ .++-.+.|++ ++..=+++||||
T Consensus 68 ~DVvIDfT~p~---~~~~~~~~~~~~-g~~~ViGTTG~------~~~~~~~l~~~a~~~~vl~a~Nf 124 (124)
T PF01113_consen 68 ADVVIDFTNPD---AVYDNLEYALKH-GVPLVIGTTGF------SDEQIDELEELAKKIPVLIAPNF 124 (124)
T ss_dssp -SEEEEES-HH---HHHHHHHHHHHH-T-EEEEE-SSS------HHHHHHHHHHHTTTSEEEE-SSS
T ss_pred CCEEEEcCChH---HhHHHHHHHHhC-CCCEEEECCCC------CHHHHHHHHHHhccCCEEEeCCC
Confidence 77888777554 344455444444 76666543211 1122233333 444556666665
No 68
>PLN03194 putative disease resistance protein; Provisional
Probab=21.56 E-value=3.7e+02 Score=22.15 Aligned_cols=65 Identities=15% Similarity=0.197 Sum_probs=43.9
Q ss_pred cCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhcccCCCCeEEEEE
Q 043461 45 RNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVF 114 (196)
Q Consensus 45 ~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~~~~~~ViPVf 114 (196)
++.+.||+..++-.....+...|.++++...+.+.+=........--..+|.++++ .....|.||
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIe-----eSri~IvVf 88 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIR-----NCKVGVAVF 88 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHH-----hCeEEEEEE
Confidence 45789999865333334567789999999988777755444444444456777776 455688888
No 69
>PF13289 SIR2_2: SIR2-like domain
Probab=21.49 E-value=2.1e+02 Score=20.88 Aligned_cols=16 Identities=25% Similarity=0.407 Sum_probs=6.4
Q ss_pred HHHHHHHHHcCCceeEe
Q 043461 36 TDHLHAALIRNGFIAFK 52 (196)
Q Consensus 36 v~~L~~~L~~~Gi~vf~ 52 (196)
-..|...| +..--+|+
T Consensus 77 ~~~l~~~l-~~~~~lfi 92 (143)
T PF13289_consen 77 PNFLRSLL-RSKTLLFI 92 (143)
T ss_pred HHHHHHHH-cCCCEEEE
Confidence 34444444 33333444
No 70
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=21.26 E-value=2e+02 Score=26.07 Aligned_cols=51 Identities=10% Similarity=0.208 Sum_probs=37.0
Q ss_pred ccCcccHHHHHHHHHHcCCceeEecCccCcC----CCcccHHHHHHhhhcceEEE
Q 043461 29 EDTRNNFTDHLHAALIRNGFIAFKDDETLER----GNEISSELSQAIEESNVSIV 79 (196)
Q Consensus 29 ~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~----G~~i~~~i~~aI~~S~i~Iv 79 (196)
.|.|++=+-.|.+.|..+|..|-..|--+.. |-.+.++...++++++..|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 4788888999999999999888765432221 33455677788888887665
No 71
>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=20.76 E-value=4e+02 Score=22.23 Aligned_cols=58 Identities=17% Similarity=0.196 Sum_probs=32.6
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCC-CcccHHHHHHhhhcceEEEEe
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERG-NEISSELSQAIEESNVSIVIL 81 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G-~~i~~~i~~aI~~S~i~IvV~ 81 (196)
|.+-+...+.....+..|...|++.|+++-... .+.+| .++. .+...|+++..-+|++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~d~~-~~l~~i~~~~~~~vi~ 196 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVARE-GTTDGATDFS-AILTKIKAANPDAVFF 196 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEe-cCCCCCccHH-HHHHHHHhcCCCEEEE
Confidence 444454333334567788888888898765443 24444 3444 4445566654444444
No 72
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=20.68 E-value=2.6e+02 Score=23.69 Aligned_cols=66 Identities=18% Similarity=0.169 Sum_probs=42.2
Q ss_pred cHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHHHHHHHhccc
Q 043461 34 NFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNK 104 (196)
Q Consensus 34 ~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL~~i~~~~~~ 104 (196)
.....|...++.+| .-|+|-+ +..++....++.+.-.+-+ +|+|-+...+++.++|+..++..+..
T Consensus 79 ~~i~ll~~la~~~~-~d~iDiE-l~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~ 144 (231)
T COG0710 79 EYIELLKKLAELNG-PDYIDIE-LSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMES 144 (231)
T ss_pred HHHHHHHHHHhhcC-CCEEEEE-ccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHh
Confidence 45666666666666 5677753 3333322223332222223 88899999999999999999888765
No 73
>PLN02734 glycyl-tRNA synthetase
Probab=20.66 E-value=2.9e+02 Score=27.32 Aligned_cols=61 Identities=16% Similarity=0.206 Sum_probs=38.8
Q ss_pred CCCceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhh-hcceEEEE
Q 043461 15 LLQSKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIE-ESNVSIVI 80 (196)
Q Consensus 15 ~~~~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~-~S~i~IvV 80 (196)
+-+.+..|+.--.+++ ....+..|+..|++.||++.+|++ +..+...+.++-+ +....|+|
T Consensus 568 IAP~qVaIlPL~~~ee-~~~~A~eLa~~LR~~GIrVelDd~----~~SIGKRyrrADeiGIPf~ItI 629 (684)
T PLN02734 568 VAPIKCTVFPLVQNQQ-LNAVAKVISKELTAAGISHKIDIT----GTSIGKRYARTDELGVPFAVTV 629 (684)
T ss_pred cCCcEEEEEEecCChH-HHHHHHHHHHHHHhCCCEEEEECC----CCCHhHHHHHHHHcCCCEEEEE
Confidence 3456777775543332 346889999999999999999875 3344444545533 33334433
No 74
>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=20.63 E-value=1.7e+02 Score=22.03 Aligned_cols=27 Identities=15% Similarity=0.468 Sum_probs=19.9
Q ss_pred CcccHHHHHHhhhcceEEEEeeccccC
Q 043461 61 NEISSELSQAIEESNVSIVILSKNYAS 87 (196)
Q Consensus 61 ~~i~~~i~~aI~~S~i~IvV~S~~y~~ 87 (196)
+++...+.+.+...+++|++++++++.
T Consensus 46 eei~~~~~~~l~~~digIIlIte~~a~ 72 (115)
T TIGR01101 46 SEIEDCFNRFLKRDDIAIILINQHIAE 72 (115)
T ss_pred HHHHHHHHHHhhcCCeEEEEEcHHHHH
Confidence 344555555577899999999988765
No 75
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=20.40 E-value=4.3e+02 Score=23.15 Aligned_cols=74 Identities=18% Similarity=0.113 Sum_probs=46.2
Q ss_pred eEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCcccHHHHHHhhhcceEEEEeeccccCChhHHHHH
Q 043461 21 DVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWCLDEL 95 (196)
Q Consensus 21 DVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~~~i~~aI~~S~i~IvV~S~~y~~S~wCl~EL 95 (196)
.|+|-++...-.+.+...+.+.|+.+|.++-.+ +...+++.-...+...|..+..-+|++...+....-.++++
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~-~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~ 223 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVE-EVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQA 223 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEE-EeeCCCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHH
Confidence 456656555555678888999999999973332 23556653344566667777666666666665544444443
No 76
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=20.38 E-value=1.7e+02 Score=26.86 Aligned_cols=46 Identities=20% Similarity=0.333 Sum_probs=35.0
Q ss_pred HHHHHHhhhcc-eEEEEeeccc-cCChhHHHHHHHHHHhcccCCCCeEE
Q 043461 65 SELSQAIEESN-VSIVILSKNY-ASSPWCLDELAKIVECGNKRKDRKVF 111 (196)
Q Consensus 65 ~~i~~aI~~S~-i~IvV~S~~y-~~S~wCl~EL~~i~~~~~~~~~~~Vi 111 (196)
+.+.+++.+.+ ...++++|+= ...-|-.+||.++.+..++ .+-+||
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~k-h~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLR-HGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHH-cCCEEE
Confidence 47788888887 6777778765 4688999999999887655 555554
No 77
>PF09673 TrbC_Ftype: Type-F conjugative transfer system pilin assembly protein; InterPro: IPR019106 This entry represents TrbC, a protein that is an essential component of the F-type conjugative pilus assembly system (aka type 4 secretion system) for the transfer of plasmid DNA [, ]. The N-terminal portion of these proteins is heterogeneous.
Probab=20.37 E-value=2.3e+02 Score=20.92 Aligned_cols=37 Identities=22% Similarity=0.383 Sum_probs=22.9
Q ss_pred EEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCCccc
Q 043461 22 VFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEIS 64 (196)
Q Consensus 22 VFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~~i~ 64 (196)
||+|++-.+. .+ ..|....++.|+.+.+- .+..| .+.
T Consensus 2 iFvS~SMP~~--~L-~~l~~~a~~~~~~~V~R--G~~~g-~~~ 38 (113)
T PF09673_consen 2 IFVSFSMPDA--SL-RNLLKQAERAGVVVVFR--GFPDG-SFK 38 (113)
T ss_pred EEEECCCCHH--HH-HHHHHHHHhCCcEEEEE--CCCCC-CHH
Confidence 7999999874 33 44555555557666553 46666 444
No 78
>PRK13730 conjugal transfer pilus assembly protein TrbC; Provisional
Probab=20.35 E-value=2.9e+02 Score=23.21 Aligned_cols=38 Identities=13% Similarity=0.037 Sum_probs=26.1
Q ss_pred eeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccCcCCC
Q 043461 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGN 61 (196)
Q Consensus 19 ~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l~~G~ 61 (196)
..=||+||+-.+. -...|...-++.|+.+.+- ++..|+
T Consensus 91 g~~vFVSfSMP~~---sLk~Ll~qa~~~G~p~VlR--G~~~ns 128 (212)
T PRK13730 91 GALYFVSFSIPEE---GLKRMLGETRHYGIPATLR--GMVNND 128 (212)
T ss_pred ceEEEEEcCCCHH---HHHHHHHHHHHhCCcEEEe--CCCCCC
Confidence 3667999999974 3446666777788877764 355554
No 79
>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=20.29 E-value=87 Score=22.52 Aligned_cols=17 Identities=35% Similarity=0.501 Sum_probs=14.0
Q ss_pred cCHHHHHHHHHHHHHhh
Q 043461 143 ENQEKVLKWRAAFTRVA 159 (196)
Q Consensus 143 ~~~~~v~~W~~AL~~v~ 159 (196)
++++..++|.+||..|+
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 35788999999998874
No 80
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=20.10 E-value=1.2e+02 Score=26.65 Aligned_cols=99 Identities=19% Similarity=0.356 Sum_probs=68.4
Q ss_pred ceeeEEEccccccCcccHHHHHHHHHHcCCceeEecCccC--cCCCcccHHHHHHhh--hcceEEEEeeccccCChhHHH
Q 043461 18 SKYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETL--ERGNEISSELSQAIE--ESNVSIVILSKNYASSPWCLD 93 (196)
Q Consensus 18 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~l--~~G~~i~~~i~~aI~--~S~i~IvV~S~~y~~S~wCl~ 93 (196)
-++.+=+||.++|. .+++....-|..+|+.+|.|-.+- .-|.++- .++.-|. ..-+.+...|.+|---.|...
T Consensus 5 ~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~-~~~~e~~q~~~~~~~~f~~~~~~r~~~~~~ 81 (329)
T COG4916 5 VQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLY-DYLSEIYQDKALFTIMFISEHYSRKMWTNH 81 (329)
T ss_pred hheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHH-HHHHHHHhhhhHHHhhhhhccccCcCCCcH
Confidence 45667789999984 588888888899999999874321 1233333 2222232 355678888999999999999
Q ss_pred HHHHHHHhcccCCCCeEEEEEeecCC
Q 043461 94 ELAKIVECGNKRKDRKVFAVFYGVDP 119 (196)
Q Consensus 94 EL~~i~~~~~~~~~~~ViPVfy~v~p 119 (196)
|+.......+......++|-.++..|
T Consensus 82 ~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 82 ERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred HHHHHHHHHhhhccEEehhhhhccCC
Confidence 98887665544256678888776543
Done!