Query 044147
Match_columns 177
No_of_seqs 189 out of 1482
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 11:52:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044147.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044147hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03210 Resistant to P. syrin 100.0 2.6E-47 5.7E-52 366.9 16.6 172 1-175 1-174 (1153)
2 PLN03194 putative disease resi 100.0 6.1E-47 1.3E-51 295.9 14.7 135 11-160 24-158 (187)
3 PF01582 TIR: TIR domain; Int 99.9 1.4E-28 2.9E-33 185.6 4.6 133 16-148 1-141 (141)
4 smart00255 TIR Toll - interleu 99.9 2.3E-25 5E-30 166.3 11.3 136 13-151 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 1.6E-19 3.4E-24 128.5 5.7 87 16-109 1-87 (102)
6 KOG3678 SARM protein (with ste 99.0 5.1E-10 1.1E-14 98.7 7.2 93 10-108 609-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.7 3.3E-08 7.2E-13 73.6 5.1 91 14-109 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 97.9 5.4E-05 1.2E-09 57.1 7.3 65 15-79 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.2 0.0012 2.7E-08 49.0 6.1 78 15-95 1-91 (125)
10 PF13271 DUF4062: Domain of un 94.4 0.12 2.6E-06 35.3 5.2 68 15-83 1-68 (83)
11 COG4916 Uncharacterized protei 94.1 0.083 1.8E-06 44.0 4.5 100 10-115 174-281 (329)
12 PF05014 Nuc_deoxyrib_tr: Nucl 88.1 2.2 4.7E-05 30.4 6.2 70 27-97 13-90 (113)
13 PF14258 DUF4350: Domain of un 84.4 6.7 0.00015 25.3 6.6 61 31-104 8-68 (70)
14 cd00860 ThrRS_anticodon ThrRS 83.3 4.1 9E-05 27.1 5.4 61 14-79 2-62 (91)
15 COG4271 Predicted nucleotide-b 79.4 6.8 0.00015 31.6 5.9 101 9-117 79-199 (233)
16 cd00738 HGTP_anticodon HGTP an 77.2 7.3 0.00016 26.0 5.0 60 14-78 2-64 (94)
17 PF03129 HGTP_anticodon: Antic 73.0 3.4 7.3E-05 28.1 2.4 49 27-79 15-63 (94)
18 cd00858 GlyRS_anticodon GlyRS 70.8 11 0.00024 27.1 4.9 62 13-80 26-89 (121)
19 COG0125 Tmk Thymidylate kinase 65.0 31 0.00068 27.7 6.8 99 16-116 4-142 (208)
20 cd02426 Pol_gamma_b_Cterm C-te 62.0 8.3 0.00018 28.4 2.7 33 27-59 43-78 (128)
21 cd02042 ParA ParA and ParB of 59.0 37 0.00081 23.0 5.6 64 16-79 3-73 (104)
22 cd00861 ProRS_anticodon_short 57.5 25 0.00055 23.4 4.4 50 27-80 17-66 (94)
23 PF03709 OKR_DC_1_N: Orn/Lys/A 53.2 53 0.0011 23.4 5.7 71 29-112 5-76 (115)
24 TIGR00418 thrS threonyl-tRNA s 53.2 28 0.0006 31.8 5.1 62 12-78 469-530 (563)
25 PRK12325 prolyl-tRNA synthetas 53.0 25 0.00054 31.3 4.7 64 13-80 345-410 (439)
26 PF14359 DUF4406: Domain of un 52.7 43 0.00093 23.3 5.0 63 31-95 19-85 (92)
27 COG4916 Uncharacterized protei 51.5 13 0.00029 31.2 2.5 100 11-112 4-107 (329)
28 PF11074 DUF2779: Domain of un 51.4 12 0.00025 27.9 2.0 21 70-92 73-93 (130)
29 COG1658 Small primase-like pro 49.8 26 0.00055 26.1 3.6 56 13-70 29-84 (127)
30 PRK02551 flavoprotein NrdI; Pr 47.8 95 0.0021 23.8 6.6 101 14-131 5-116 (154)
31 cd00862 ProRS_anticodon_zinc P 47.7 26 0.00057 27.7 3.6 62 13-78 10-77 (202)
32 cd00532 MGS-like MGS-like doma 46.5 64 0.0014 22.8 5.3 61 16-78 2-77 (112)
33 cd00859 HisRS_anticodon HisRS 45.0 57 0.0012 20.9 4.5 58 15-77 3-60 (91)
34 PRK09194 prolyl-tRNA synthetas 44.8 20 0.00044 32.9 2.9 65 12-80 467-533 (565)
35 PF03720 UDPG_MGDP_dh_C: UDP-g 44.3 19 0.00042 25.3 2.2 55 22-76 11-75 (106)
36 PF01990 ATP-synt_F: ATP synth 44.1 53 0.0012 22.5 4.4 48 32-82 8-55 (95)
37 COG0400 Predicted esterase [Ge 44.0 46 0.00099 26.7 4.5 56 9-66 142-199 (207)
38 KOG2792 Putative cytochrome C 43.9 18 0.0004 30.3 2.2 31 83-113 153-187 (280)
39 PF02310 B12-binding: B12 bind 43.2 96 0.0021 21.5 5.8 58 30-96 17-75 (121)
40 cd01423 MGS_CPS_I_III Methylgl 40.8 41 0.00089 23.8 3.5 29 16-46 3-31 (116)
41 cd03364 TOPRIM_DnaG_primases T 40.3 37 0.0008 22.3 3.0 26 40-67 44-69 (79)
42 PF03437 BtpA: BtpA family; I 39.6 51 0.0011 27.4 4.2 106 35-147 135-253 (254)
43 TIGR00334 5S_RNA_mat_M5 ribonu 39.4 62 0.0013 25.4 4.5 50 27-80 35-84 (174)
44 PRK14938 Ser-tRNA(Thr) hydrola 39.4 58 0.0013 28.8 4.7 60 13-77 274-333 (387)
45 cd01424 MGS_CPS_II Methylglyox 39.0 78 0.0017 22.1 4.7 30 15-46 2-31 (110)
46 TIGR00409 proS_fam_II prolyl-t 36.7 29 0.00063 32.1 2.6 63 14-80 474-538 (568)
47 PF08902 DUF1848: Domain of un 36.6 2.6E+02 0.0056 23.5 9.3 130 20-160 53-201 (266)
48 KOG3043 Predicted hydrolase re 36.1 1.1E+02 0.0024 25.3 5.5 76 67-144 37-114 (242)
49 PRK07933 thymidylate kinase; V 35.2 80 0.0017 25.0 4.7 31 17-47 2-34 (213)
50 PHA02456 zinc metallopeptidase 35.0 61 0.0013 23.8 3.5 47 60-109 55-105 (141)
51 PF09441 Abp2: ARS binding pro 35.0 11 0.00024 29.2 -0.3 57 82-147 54-111 (175)
52 cd07373 2A5CPDO_A The alpha su 34.9 2.2E+02 0.0047 23.5 7.4 79 27-106 90-172 (271)
53 PRK12305 thrS threonyl-tRNA sy 34.6 69 0.0015 29.4 4.7 61 13-78 476-536 (575)
54 PF10087 DUF2325: Uncharacteri 34.2 1.5E+02 0.0033 20.2 5.9 62 28-91 10-72 (97)
55 COG0710 AroD 3-dehydroquinate 34.0 1.3E+02 0.0027 24.8 5.6 69 27-100 78-146 (231)
56 PRK00413 thrS threonyl-tRNA sy 33.7 89 0.0019 29.0 5.3 61 13-78 539-599 (638)
57 CHL00201 syh histidine-tRNA sy 33.4 76 0.0016 28.1 4.7 61 12-77 324-384 (430)
58 PRK14799 thrS threonyl-tRNA sy 33.2 75 0.0016 29.4 4.7 60 13-77 438-497 (545)
59 PRK08661 prolyl-tRNA synthetas 32.9 38 0.00083 30.5 2.7 63 13-79 287-355 (477)
60 PF09419 PGP_phosphatase: Mito 30.9 67 0.0015 24.9 3.4 69 36-109 35-112 (168)
61 PF01976 DUF116: Protein of un 30.9 1.7E+02 0.0037 22.4 5.7 83 8-109 56-139 (158)
62 PRK03991 threonyl-tRNA synthet 30.6 43 0.00094 31.3 2.7 44 14-58 500-543 (613)
63 cd07363 45_DOPA_Dioxygenase Th 30.5 2.3E+02 0.0049 23.1 6.7 69 27-97 80-149 (253)
64 PRK05339 PEP synthetase regula 29.4 1.8E+02 0.004 24.4 6.0 69 33-104 159-244 (269)
65 TIGR00408 proS_fam_I prolyl-tR 28.0 86 0.0019 28.3 4.1 63 13-79 282-349 (472)
66 PF03618 Kinase-PPPase: Kinase 27.8 2E+02 0.0042 24.0 5.9 70 33-105 153-241 (255)
67 PF12076 Wax2_C: WAX2 C-termin 27.7 65 0.0014 25.1 2.8 83 28-117 9-92 (164)
68 PRK08155 acetolactate synthase 27.7 1.3E+02 0.0027 27.5 5.2 36 28-68 14-49 (564)
69 COG2130 Putative NADP-dependen 26.5 1.3E+02 0.0029 26.0 4.7 60 13-81 196-256 (340)
70 PRK12444 threonyl-tRNA synthet 25.9 1.3E+02 0.0027 28.2 4.9 62 12-78 540-602 (639)
71 PRK13762 tRNA-modifying enzyme 25.3 1.6E+02 0.0035 25.0 5.2 37 14-50 131-167 (322)
72 COG0512 PabA Anthranilate/para 24.7 86 0.0019 25.0 3.1 47 24-80 8-56 (191)
73 PLN02530 histidine-tRNA ligase 24.6 1.5E+02 0.0032 26.8 4.9 60 13-77 401-460 (487)
74 PF08132 AdoMetDC_leader: S-ad 24.3 42 0.0009 20.9 1.0 24 3-26 10-33 (54)
75 cd00154 Rab Rab family. Rab G 24.3 2E+02 0.0044 19.9 4.9 30 53-82 57-87 (159)
76 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 24.2 3.2E+02 0.007 20.7 6.3 62 53-118 61-124 (182)
77 KOG1136 Predicted cleavage and 23.8 1.9E+02 0.0041 25.6 5.2 64 48-114 178-247 (501)
78 cd04893 ACT_GcvR_1 ACT domains 23.2 86 0.0019 20.5 2.5 29 16-45 2-30 (77)
79 KOG3062 RNA polymerase II elon 22.5 64 0.0014 26.9 2.0 117 20-149 11-158 (281)
80 PRK05234 mgsA methylglyoxal sy 22.3 2.4E+02 0.0053 21.1 5.0 31 14-46 5-37 (142)
81 PF13662 Toprim_4: Toprim doma 22.2 58 0.0012 21.4 1.5 33 35-69 40-74 (81)
82 PF00875 DNA_photolyase: DNA p 22.1 1.8E+02 0.004 21.6 4.4 88 31-127 56-146 (165)
83 PRK15057 UDP-glucose 6-dehydro 22.1 1.6E+02 0.0035 25.8 4.6 51 23-73 311-365 (388)
84 cd04886 ACT_ThrD-II-like C-ter 22.0 1.8E+02 0.004 17.5 3.8 33 11-45 40-72 (73)
85 cd05008 SIS_GlmS_GlmD_1 SIS (S 21.7 1.2E+02 0.0026 21.2 3.2 28 15-45 50-77 (126)
86 PF12146 Hydrolase_4: Putative 21.6 2E+02 0.0043 19.0 4.1 36 12-48 15-50 (79)
87 PF03358 FMN_red: NADPH-depend 21.6 1.8E+02 0.0039 21.1 4.2 55 27-82 17-84 (152)
88 cd04141 Rit_Rin_Ric Rit/Rin/Ri 21.3 3.1E+02 0.0066 20.4 5.5 54 62-117 68-121 (172)
89 PF13401 AAA_22: AAA domain; P 20.8 2.1E+02 0.0045 19.8 4.3 84 16-112 41-125 (131)
90 cd01241 PH_Akt Akt pleckstrin 20.6 81 0.0018 21.9 2.0 16 135-150 87-102 (102)
91 COG1168 MalY Bifunctional PLP- 20.6 1.5E+02 0.0033 26.2 4.0 46 59-104 148-195 (388)
92 PRK08350 hypothetical protein; 20.2 1E+02 0.0022 26.9 2.8 32 12-43 280-311 (341)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=2.6e-47 Score=366.87 Aligned_cols=172 Identities=45% Similarity=0.736 Sum_probs=155.6
Q ss_pred CCCCCCCCCCCCeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 1 MASSSTNLNAQSKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 1 m~sss~s~~~~~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
||||||| ++.++|||||||||+|+|++|++||+.+|.++||++|+|+ ++++|+.+.+++.+||++|+++|||||++|+
T Consensus 1 ~~~~~~~-~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~-~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya 78 (1153)
T PLN03210 1 MASSSSS-SRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYA 78 (1153)
T ss_pred CCCCCCC-CCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEecCCcc
Confidence 7777654 4689999999999999999999999999999999999987 5999999999999999999999999999999
Q ss_pred CChhhHHHHHHHHhhhccCCceEEeEEeecCchhhhcccCcHHHHHhhhhhcCCChhHHHHHHHHHHHhhcccceeecCC
Q 044147 81 SSTWCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHERNFPCEVRVQKWRDSLIQASNISGFLDSRS 160 (177)
Q Consensus 81 ~S~wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~~~~~~e~v~~W~~AL~~v~~~~G~~~~~~ 160 (177)
+|.||++||++|++|+++++++||||||+|+|+|||+|+|.||++|.+++++. ..+++++||.||++|++++||++.+.
T Consensus 79 ~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~-~~~~~~~w~~al~~~~~~~g~~~~~~ 157 (1153)
T PLN03210 79 SSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK-TEDEKIQWKQALTDVANILGYHSQNW 157 (1153)
T ss_pred cchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc-chhHHHHHHHHHHHHhCcCceecCCC
Confidence 99999999999999999999999999999999999999999999999998775 48899999999999999999999763
Q ss_pred Ccc--cchHHHHHHHhh
Q 044147 161 FRL--WDHEDVYDVLTK 175 (177)
Q Consensus 161 ~~~--~~~~~~~~~~~~ 175 (177)
... -..++|.+|+++
T Consensus 158 ~~E~~~i~~Iv~~v~~~ 174 (1153)
T PLN03210 158 PNEAKMIEEIANDVLGK 174 (1153)
T ss_pred CCHHHHHHHHHHHHHHh
Confidence 311 113666666654
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=6.1e-47 Score=295.94 Aligned_cols=135 Identities=26% Similarity=0.489 Sum_probs=124.8
Q ss_pred CCeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHH
Q 044147 11 QSKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELV 90 (177)
Q Consensus 11 ~~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~ 90 (177)
+++|||||||+|+|+|++|++||+.+|+++||++|+|+.++.+|+.|.+.|.+||++|+++|+||||+|++|.||++||+
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~ 103 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELA 103 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCCceEEeEEeecCchhhhcccCcHHHHHhhhhhcCCChhHHHHHHHHHHHhhcccceeecCC
Q 044147 91 RILDCKKRNGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHERNFPCEVRVQKWRDSLIQASNISGFLDSRS 160 (177)
Q Consensus 91 ~i~~~~~~~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~~~~~~e~v~~W~~AL~~v~~~~G~~~~~~ 160 (177)
+|+++. ..||||||+|+|++||+|.. ... +.+++++||.||++|++++|+++...
T Consensus 104 ~I~e~~----~~ViPIFY~VdPsdVr~q~~----------~~~-~~e~v~~Wr~AL~~va~l~G~~~~~~ 158 (187)
T PLN03194 104 LIMESK----KRVIPIFCDVKPSQLRVVDN----------GTC-PDEEIRRFNWALEEAKYTVGLTFDSL 158 (187)
T ss_pred HHHHcC----CEEEEEEecCCHHHhhcccc----------CCC-CHHHHHHHHHHHHHHhccccccCCCC
Confidence 999874 37999999999999999732 112 47999999999999999999988653
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=99.95 E-value=1.4e-28 Score=185.64 Aligned_cols=133 Identities=35% Similarity=0.567 Sum_probs=118.3
Q ss_pred EEEecccCCCccchHHHHHHHHhcC--CcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHH
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRK--QIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRIL 93 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~--gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~ 93 (177)
|||||++.+++..|+.+|..+|++. |+++|++++++.+|..+.++|.++|++|+++|+|||++|+.|.||+.||..++
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 8999999444689999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred hhhccC--CceEEeEEeecCchhhh-cccCcHHHHHhhhhhcCCC---hhHHHHHHHHHHH
Q 044147 94 DCKKRN--GQIVVPVFYKVDPSDVR-KQMGSFGEAFVHHERNFPC---EVRVQKWRDSLIQ 148 (177)
Q Consensus 94 ~~~~~~--~~~ViPVfy~v~psdv~-~q~g~f~~~f~~~~~~~~~---~e~v~~W~~AL~~ 148 (177)
++..+. ..+|+||||++.+++++ .+++.|+..|..+.....+ ..+...|++++.+
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~~ 141 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRYH 141 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhcC
Confidence 997654 48999999999999999 7999999999988877652 5689999999763
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.93 E-value=2.3e-25 Score=166.29 Aligned_cols=136 Identities=43% Similarity=0.715 Sum_probs=114.0
Q ss_pred eeeEEEeccc-CCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHH
Q 044147 13 KFDVFLSFRG-EDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVR 91 (177)
Q Consensus 13 ~ydVFIS~~~-~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~ 91 (177)
+|||||||++ ++....|+.+|...|...|+.+|.|+..+ |.....+|.++|++|+++|+|+||+|..|.||..|+..
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~--~~~~~~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~ 78 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEP--GGGDLEEIDEAIEKSRIAIVVLSPNYAESEWCLDELVA 78 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCccc--ccchHHHHHHHHHHCcEEEEEECcccccChhHHHHHHH
Confidence 4999999999 45557999999999999999999997633 33333399999999999999999999999999999999
Q ss_pred HHhhhcc-CCceEEeEEeecCchhhhcccCcHHHHHhhhhhcCCChhHH-HHHHHHHHHhhc
Q 044147 92 ILDCKKR-NGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHERNFPCEVRV-QKWRDSLIQASN 151 (177)
Q Consensus 92 i~~~~~~-~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~~~~~~e~v-~~W~~AL~~v~~ 151 (177)
++++..+ ...+||||+++..|+++..+.+.++..+........ .+.. +.|+.++..+.+
T Consensus 79 a~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~-~~~~~~fW~~~~~~l~~ 139 (140)
T smart00255 79 ALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWP-EDEKERFWKKALYAVPS 139 (140)
T ss_pred HHHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcC-CchhHHHHHHHHHHhcc
Confidence 9988654 667999999999999999999999999987744443 2222 789999988764
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.79 E-value=1.6e-19 Score=128.52 Aligned_cols=87 Identities=34% Similarity=0.619 Sum_probs=75.8
Q ss_pred EEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhh
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDC 95 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~ 95 (177)
|||||+++| ..++..|...|+..|+++|+|. ++.+|+.+.+.|.++|++|++.|+++||+|..|+||..|+..+.+
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 VFISYSSED--REFAERLAERLESAGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK- 76 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC-
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH-
Confidence 899999999 5799999999999999999997 899999999999999999999999999999999999999999843
Q ss_pred hccCCceEEeEEee
Q 044147 96 KKRNGQIVVPVFYK 109 (177)
Q Consensus 96 ~~~~~~~ViPVfy~ 109 (177)
.+..||||.++
T Consensus 77 ---~~~~iipv~~~ 87 (102)
T PF13676_consen 77 ---RGKPIIPVRLD 87 (102)
T ss_dssp ---TSESEEEEECS
T ss_pred ---CCCEEEEEEEC
Confidence 44589999964
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.03 E-value=5.1e-10 Score=98.70 Aligned_cols=93 Identities=25% Similarity=0.457 Sum_probs=79.4
Q ss_pred CCCeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc--------C
Q 044147 10 AQSKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA--------S 81 (177)
Q Consensus 10 ~~~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~--------~ 81 (177)
-+++.|||||||+.- ...+++-|.-.|+-+|++||+|-+.+..|.. .+.+.+.|...+.+|+|++|+.. .
T Consensus 609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 357899999998775 4689999999999999999999998998864 56889999999999999999975 2
Q ss_pred ChhhHHHHHHHHhhhccCCceEEeEEe
Q 044147 82 STWCLDELVRILDCKKRNGQIVVPVFY 108 (177)
Q Consensus 82 S~wc~~El~~i~~~~~~~~~~ViPVfy 108 (177)
-.|...||..+++|.+ .|||||=
T Consensus 687 eDWVHKEl~~Afe~~K----NIiPI~D 709 (832)
T KOG3678|consen 687 EDWVHKELKCAFEHQK----NIIPIFD 709 (832)
T ss_pred HHHHHHHHHHHHHhcC----Ceeeeec
Confidence 3677888888888866 7999984
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=98.67 E-value=3.3e-08 Score=73.58 Aligned_cols=91 Identities=22% Similarity=0.404 Sum_probs=49.3
Q ss_pred eeEEEecccCCCccchHHHHHHHHhcC-------CcEE----------EEeCCcccCCccccHHHHhccccCcEEEEEee
Q 044147 14 FDVFLSFRGEDTRTGFTSHVVEALRRK-------QIQF----------FIDDEELQRGEEISPALLSAIETSDISIIIFS 76 (177)
Q Consensus 14 ydVFIS~~~~D~r~~fv~~L~~~L~~~-------gi~~----------f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S 76 (177)
|.|||||++.|. ...+..|...+... .+.. +.+..+......|...|.+.|.+|.++||+++
T Consensus 1 ~~vFIS~~~~d~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDD-DWYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------TH-H-HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCc-HHHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 579999999994 34777777777662 2211 12222223345788899999999999999999
Q ss_pred ccccCChhhHHHHHHHHhhhccCCceEEeEEee
Q 044147 77 ENYASSTWCLDELVRILDCKKRNGQIVVPVFYK 109 (177)
Q Consensus 77 ~~y~~S~wc~~El~~i~~~~~~~~~~ViPVfy~ 109 (177)
++-..|.|+..|+..+++. +..||.|.++
T Consensus 80 ~~T~~s~wV~~EI~~A~~~----~~~Ii~V~~~ 108 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALKK----GKPIIGVYLP 108 (130)
T ss_dssp TT----HHHHHHHHHHTTT-------EEEEETT
T ss_pred CCcccCcHHHHHHHHHHHC----CCCEEEEECC
Confidence 9999999999999998873 4578888764
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=97.89 E-value=5.4e-05 Score=57.11 Aligned_cols=65 Identities=23% Similarity=0.379 Sum_probs=53.4
Q ss_pred eEEEecccCCCc-cchHHHHHHHHhcC-CcEEEEeCCcccC--CccccHHHHhccccCcEEEEEeeccc
Q 044147 15 DVFLSFRGEDTR-TGFTSHVVEALRRK-QIQFFIDDEELQR--GEEISPALLSAIETSDISIIIFSENY 79 (177)
Q Consensus 15 dVFIS~~~~D~r-~~fv~~L~~~L~~~-gi~~f~d~~~l~~--G~~i~~~i~~aI~~S~~~IvV~S~~y 79 (177)
-|||||+..... ...|..|...|++. |+.|.+|..+... +..+..=+.+.+++++..|+|+||.+
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 499999985532 36689999999999 9999999877743 66677777788999999999999544
No 9
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=97.18 E-value=0.0012 Score=49.03 Aligned_cols=78 Identities=21% Similarity=0.247 Sum_probs=62.5
Q ss_pred eEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc-------------C
Q 044147 15 DVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA-------------S 81 (177)
Q Consensus 15 dVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~-------------~ 81 (177)
.|||.|+ .| ...+..+...|+..|+.+.+-.+....|..+.+.+.+.+.+++.+|++++|+=. .
T Consensus 1 kVFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 3899998 55 368889999999889887776666789999999999999999999999998521 2
Q ss_pred ChhhHHHHHHHHhh
Q 044147 82 STWCLDELVRILDC 95 (177)
Q Consensus 82 S~wc~~El~~i~~~ 95 (177)
..-.+.|+..++..
T Consensus 78 R~NVifE~G~f~g~ 91 (125)
T PF10137_consen 78 RQNVIFELGLFIGK 91 (125)
T ss_pred ccceeehhhHHHhh
Confidence 23456788887765
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=94.39 E-value=0.12 Score=35.29 Aligned_cols=68 Identities=22% Similarity=0.205 Sum_probs=48.3
Q ss_pred eEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCCh
Q 044147 15 DVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASST 83 (177)
Q Consensus 15 dVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~ 83 (177)
.||||-.-.|. +.--..|...|.+.|..+..-+.--..+....+.+++.|++|+++|.++-.+|...+
T Consensus 1 rVFiSSt~~Dl-~~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~ 68 (83)
T PF13271_consen 1 RVFISSTFRDL-KEERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP 68 (83)
T ss_pred CEEEecChhhH-HHHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence 38999887886 344567777887777655332211123555667888999999999999999998644
No 11
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=94.14 E-value=0.083 Score=43.97 Aligned_cols=100 Identities=16% Similarity=0.111 Sum_probs=68.8
Q ss_pred CCCeeeEEEecccCCCccchHHHHHHHHh--cCCcEEEEeCCc---ccCCccccHHHHhcc--ccCcEEEEEeeccccCC
Q 044147 10 AQSKFDVFLSFRGEDTRTGFTSHVVEALR--RKQIQFFIDDEE---LQRGEEISPALLSAI--ETSDISIIIFSENYASS 82 (177)
Q Consensus 10 ~~~~ydVFIS~~~~D~r~~fv~~L~~~L~--~~gi~~f~d~~~---l~~G~~i~~~i~~aI--~~S~~~IvV~S~~y~~S 82 (177)
..+.||+=|||.|+- +.+|+....+++ ..-+..|+|-.- +.+|+ +. .++.-+ ..|++.+|....+|...
T Consensus 174 ~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~-~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 174 SEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LV-STLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred cccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-HH-HhcccccCceEEEEEEEeCCceEEe
Confidence 478899999999997 589999999998 445778888532 23332 22 233322 36888999999999999
Q ss_pred hhhHHHHHHHHhhhccCCceEEeEEe-ecCchhh
Q 044147 83 TWCLDELVRILDCKKRNGQIVVPVFY-KVDPSDV 115 (177)
Q Consensus 83 ~wc~~El~~i~~~~~~~~~~ViPVfy-~v~psdv 115 (177)
.||..|-..+-... .-....||.| +++.+.+
T Consensus 250 ~~c~~E~~~~r~~~--~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 250 STCHIEGLEGRLNP--ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred eeeccchhhccccc--cccccceEEEEecCCccc
Confidence 99999976653321 2235667766 3444433
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=88.14 E-value=2.2 Score=30.42 Aligned_cols=70 Identities=19% Similarity=0.125 Sum_probs=51.2
Q ss_pred cchHHHHHHHHhcCCcEEEEeCCc-cc-------CCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhhhc
Q 044147 27 TGFTSHVVEALRRKQIQFFIDDEE-LQ-------RGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDCKK 97 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~~~-l~-------~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~ 97 (177)
..+...+.+.|++.|+.+|...+. .. ....+...-.++|++|++.|+++.+.- .+.=+..|+..+....+
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~algk 90 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALGK 90 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCCC
Confidence 578899999999999999886531 11 223344455678999999999998766 56668899999877543
No 13
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=84.42 E-value=6.7 Score=25.34 Aligned_cols=61 Identities=13% Similarity=0.194 Sum_probs=38.5
Q ss_pred HHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhhhccCCceEE
Q 044147 31 SHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDCKKRNGQIVV 104 (177)
Q Consensus 31 ~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~~~~~~Vi 104 (177)
..|+.-|++.|+++-.... ..+++....-++++++|.+.-+. ..++..+.+..+.++..||
T Consensus 8 ~a~~~~L~~~g~~v~~~~~-----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK-----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc-----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 4677888888998854332 12244457789999999966554 3455555555555666554
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=83.30 E-value=4.1 Score=27.09 Aligned_cols=61 Identities=13% Similarity=0.163 Sum_probs=39.3
Q ss_pred eeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccc
Q 044147 14 FDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENY 79 (177)
Q Consensus 14 ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y 79 (177)
++|+|...+.+. ...+-.+...|++.|+++-+|... ..+...+..|-+.---.++++.++-
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~~----~~~~~~~~~a~~~g~~~~iiig~~e 62 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLRN----EKLGKKIREAQLQKIPYILVVGDKE 62 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECCC----CCHHHHHHHHHHcCCCEEEEECcch
Confidence 687776655443 467889999999999999998643 3555555555433333444455443
No 15
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=79.41 E-value=6.8 Score=31.62 Aligned_cols=101 Identities=19% Similarity=0.249 Sum_probs=66.6
Q ss_pred CCCCeeeEEEecccCCCccchHHHHHHHHh-cCCc-EEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc------
Q 044147 9 NAQSKFDVFLSFRGEDTRTGFTSHVVEALR-RKQI-QFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA------ 80 (177)
Q Consensus 9 ~~~~~ydVFIS~~~~D~r~~fv~~L~~~L~-~~gi-~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~------ 80 (177)
-|+.+ -|||-|+++ ..+.....+|. +... .+|.|. -...|..+.+.+.+-|.++.-+|++.+|+=.
T Consensus 79 ~p~~k-kvFvv~ghd----~iArael~allrd~~l~~vi~d~-~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~ 152 (233)
T COG4271 79 MPNLK-KVFVVSGHD----AIARAELEALLRDWKLEPVILDG-LFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVH 152 (233)
T ss_pred cCCce-eEEEEeccH----HHHHHHHHHHhhccccceEEecC-cccccHHHHHHHHHHhhhceEEEEEecCccccccccc
Confidence 34555 999998654 36766666665 4444 456665 4778999999999999999999999999843
Q ss_pred --CChh------hHHHHHHHHhhhccCCceEEeEEee---c-Cchhhhc
Q 044147 81 --SSTW------CLDELVRILDCKKRNGQIVVPVFYK---V-DPSDVRK 117 (177)
Q Consensus 81 --~S~w------c~~El~~i~~~~~~~~~~ViPVfy~---v-~psdv~~ 117 (177)
+..| ...||..+|.+. +..+|+-+..+ | -|||+..
T Consensus 153 ~~~k~~praRqNVifELGm~mgrL--gRkrv~Il~k~~envelPSDi~G 199 (233)
T COG4271 153 SREKAFPRARQNVIFELGMFMGRL--GRKRVMILMKRDENVELPSDIAG 199 (233)
T ss_pred chhhccccccccchhhHhhHHhhc--ccceEEEEecccccccCccccCc
Confidence 1122 566888877653 23344433331 2 3666653
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=77.21 E-value=7.3 Score=25.96 Aligned_cols=60 Identities=17% Similarity=0.231 Sum_probs=39.7
Q ss_pred eeEEEecccC---CCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecc
Q 044147 14 FDVFLSFRGE---DTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSEN 78 (177)
Q Consensus 14 ydVFIS~~~~---D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~ 78 (177)
++|+|-.-+. .. ...+..+...|++.|+.+-+|.. +..+...+..|-+.---+++++.++
T Consensus 2 ~~v~ii~~~~~~~~~-~~~a~~~~~~Lr~~g~~v~~~~~----~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVEA-REYAQKLLNALLANGIRVLYDDR----ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHHH-HHHHHHHHHHHHHCCCEEEecCC----CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 5776665443 22 46778899999999999998764 3455555555544433567777763
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=72.96 E-value=3.4 Score=28.05 Aligned_cols=49 Identities=20% Similarity=0.262 Sum_probs=33.2
Q ss_pred cchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccc
Q 044147 27 TGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENY 79 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y 79 (177)
..++.+|...|++.||.+.+|..+. .+...+..|-..=--+++|+.++-
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~~~----~~~k~~~~a~~~g~p~~iiiG~~e 63 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDSDK----SLGKQIKYADKLGIPFIIIIGEKE 63 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESSSS----THHHHHHHHHHTTESEEEEEEHHH
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCC----chhHHHHHHhhcCCeEEEEECchh
Confidence 4678999999999999999997544 444455555443333555555543
No 18
>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=70.81 E-value=11 Score=27.11 Aligned_cols=62 Identities=13% Similarity=0.048 Sum_probs=41.3
Q ss_pred eeeEEEeccc--CCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 13 KFDVFLSFRG--EDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 13 ~ydVFIS~~~--~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
.+||||-.-+ .+. ...+..|...|++.|+++-+|.. ..+...+..|-+.---.++|+.++-.
T Consensus 26 p~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~~-----~sl~kqlk~A~k~g~~~~iiiG~~e~ 89 (121)
T cd00858 26 PIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDDS-----GSIGRRYARQDEIGTPFCVTVDFDTL 89 (121)
T ss_pred CcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeCC-----CCHHHHHHHhHhcCCCEEEEECcCch
Confidence 4788887765 332 45778899999999999999863 34555555654443445666665543
No 19
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=65.02 E-value=31 Score=27.66 Aligned_cols=99 Identities=16% Similarity=0.239 Sum_probs=60.6
Q ss_pred EEEecccCCC--ccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhcccc--------------------------
Q 044147 16 VFLSFRGEDT--RTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIET-------------------------- 67 (177)
Q Consensus 16 VFIS~~~~D~--r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~-------------------------- 67 (177)
.||.+-|-|- +.+.+..|+..|+.+|++|.+-.+ ..|.++...|.+.+-+
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 4888887774 467889999999999998877542 2222333333332221
Q ss_pred ---CcEEEEEeeccccCChhhHHH--------HHHHHhhh-ccCCceEEeEEeecCchhhh
Q 044147 68 ---SDISIIIFSENYASSTWCLDE--------LVRILDCK-KRNGQIVVPVFYKVDPSDVR 116 (177)
Q Consensus 68 ---S~~~IvV~S~~y~~S~wc~~E--------l~~i~~~~-~~~~~~ViPVfy~v~psdv~ 116 (177)
-.-.-+|++..|.-|.-+.+- ....+... ..+-.+-+-+|++++|..-.
T Consensus 82 ~pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~al 142 (208)
T COG0125 82 KPALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEVAL 142 (208)
T ss_pred HHhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHHHH
Confidence 011348899999988887762 22222221 11224566788899988643
No 20
>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=61.99 E-value=8.3 Score=28.43 Aligned_cols=33 Identities=9% Similarity=0.089 Sum_probs=26.2
Q ss_pred cchHHHHHHHHhcCCcEEEEeCCcc---cCCccccH
Q 044147 27 TGFTSHVVEALRRKQIQFFIDDEEL---QRGEEISP 59 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~~~l---~~G~~i~~ 59 (177)
...+..|++.|+..|+.+++|+++- .+|..+.+
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~ 78 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDK 78 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHh
Confidence 5678999999999999999998753 46665543
No 21
>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=59.01 E-value=37 Score=23.04 Aligned_cols=64 Identities=16% Similarity=0.181 Sum_probs=37.3
Q ss_pred EEEecccCCCccchHHHHHHHHhcCCcEEEEeCCccc-------CCccccHHHHhccccCcEEEEEeeccc
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQ-------RGEEISPALLSAIETSDISIIIFSENY 79 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~-------~G~~i~~~i~~aI~~S~~~IvV~S~~y 79 (177)
+|.|..|--.+..++.+|...|.++|.++.+-+-+.. -+-.+.+....++..|+..|+++.++.
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~ 73 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSP 73 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCH
Confidence 3566655544567789999999999988776543322 011122333355555666666555543
No 22
>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=57.50 E-value=25 Score=23.43 Aligned_cols=50 Identities=12% Similarity=0.108 Sum_probs=32.2
Q ss_pred cchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 27 TGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
...+..|...|++.|+++.+|.+.- .+...+..|-+.---.++|+.++-.
T Consensus 17 ~~~a~~la~~Lr~~g~~v~~d~~~~----~l~k~i~~a~~~g~~~~iiiG~~e~ 66 (94)
T cd00861 17 QELAEKLYAELQAAGVDVLLDDRNE----RPGVKFADADLIGIPYRIVVGKKSA 66 (94)
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCC----CcccchhHHHhcCCCEEEEECCchh
Confidence 4578899999999999999987533 4444444553333335555555433
No 23
>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=53.23 E-value=53 Score=23.45 Aligned_cols=71 Identities=21% Similarity=0.296 Sum_probs=42.9
Q ss_pred hHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccc-cCcEEEEEeeccccCChhhHHHHHHHHhhhccCCceEEeEE
Q 044147 29 FTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIE-TSDISIIIFSENYASSTWCLDELVRILDCKKRNGQIVVPVF 107 (177)
Q Consensus 29 fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~-~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~~~~~~ViPVf 107 (177)
-+..|..+|++.|+.+-.-.. .+.....++ .++++-+|+|-+ ....-...++...++.. ..=||||
T Consensus 5 ~~~~l~~~L~~~~~~vv~~~~--------~dd~~~~i~~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~----~~~iPVF 71 (115)
T PF03709_consen 5 ASRELAEALEQRGREVVDADS--------TDDALAIIESFTDIAAVVISWD-GEEEDEAQELLDKIRER----NFGIPVF 71 (115)
T ss_dssp HHHHHHHHHHHTTTEEEEESS--------HHHHHHHHHCTTTEEEEEEECH-HHHHHHHHHHHHHHHHH----STT-EEE
T ss_pred HHHHHHHHHHHCCCEEEEeCC--------hHHHHHHHHhCCCeeEEEEEcc-cccchhHHHHHHHHHHh----CCCCCEE
Confidence 467899999999999866442 234455555 589999999977 21111222333333322 2458999
Q ss_pred eecCc
Q 044147 108 YKVDP 112 (177)
Q Consensus 108 y~v~p 112 (177)
+-.++
T Consensus 72 l~~~~ 76 (115)
T PF03709_consen 72 LLAER 76 (115)
T ss_dssp EEESC
T ss_pred EEecC
Confidence 86653
No 24
>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=53.15 E-value=28 Score=31.83 Aligned_cols=62 Identities=15% Similarity=0.259 Sum_probs=43.8
Q ss_pred CeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecc
Q 044147 12 SKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSEN 78 (177)
Q Consensus 12 ~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~ 78 (177)
...||+|-.-+++. ...+..|...|++.|++|-+|.. +..+...+..|-+.---.++|+.++
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~----~~sl~~q~k~A~~~g~~~~iiiG~~ 530 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR----NERLGKKIREAQKQKIPYMLVVGDK 530 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHhcCCCEEEEEchh
Confidence 45788887766543 57889999999999999999864 4556666666654433456666653
No 25
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=53.03 E-value=25 Score=31.31 Aligned_cols=64 Identities=16% Similarity=0.092 Sum_probs=41.0
Q ss_pred eeeEEEeccc--CCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 13 KFDVFLSFRG--EDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 13 ~ydVFIS~~~--~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
.++|+|---. .+.....+..|+..|++.||+|.+|+++-..|..+.+ |-..---.++|+.++-.
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~ki~~----a~~~giP~~iiVG~~e~ 410 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAKFAT----MDLIGLPWQIIVGPKGL 410 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHHHHH----HHHcCCCEEEEECCccc
Confidence 4788776442 2223467899999999999999999875555555443 32222225666666544
No 26
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=52.74 E-value=43 Score=23.26 Aligned_cols=63 Identities=16% Similarity=0.108 Sum_probs=40.9
Q ss_pred HHHHHHHhcCCcEEEEeCCc-ccCCccccHHH---HhccccCcEEEEEeeccccCChhhHHHHHHHHhh
Q 044147 31 SHVVEALRRKQIQFFIDDEE-LQRGEEISPAL---LSAIETSDISIIIFSENYASSTWCLDELVRILDC 95 (177)
Q Consensus 31 ~~L~~~L~~~gi~~f~d~~~-l~~G~~i~~~i---~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~ 95 (177)
......|+..|..|.---.. ...|.++..-+ ...|..|+ .+++=|+.-.|.=|.-|...+...
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 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCD--AIYMLPGWENSRGARLEHELAKKL 85 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCC--EEEEcCCcccCcchHHHHHHHHHC
Confidence 45778899999766433221 24444443332 34455666 344459999999999999888654
No 27
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=51.47 E-value=13 Score=31.17 Aligned_cols=100 Identities=23% Similarity=0.401 Sum_probs=71.7
Q ss_pred CCeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCc--ccCCccccHHHHhcc-ccCcEEEEEeeccccCChhhHH
Q 044147 11 QSKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEE--LQRGEEISPALLSAI-ETSDISIIIFSENYASSTWCLD 87 (177)
Q Consensus 11 ~~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~--l~~G~~i~~~i~~aI-~~S~~~IvV~S~~y~~S~wc~~ 87 (177)
+-++.+=+||.++| ..+++...+-|...|+-+|+|-.+ -..|.++.+-+.+-- +..-+++...|.+|-...|...
T Consensus 4 ~~~~~~a~~f~~~d--~~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~~~~e~~q~~~~~~~~f~~~~~~r~~~~~~ 81 (329)
T COG4916 4 NVQFEIALSFAGED--REYVDRVANLLREAGVTVFYDIFEEANLWGKNLYDYLSEIYQDKALFTIMFISEHYSRKMWTNH 81 (329)
T ss_pred chheeeeeeecCch--HHHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHHHHHHHHhhhhHHHhhhhhccccCcCCCcH
Confidence 34577789999999 479999999999999999998432 124555543222221 2355678888999999999999
Q ss_pred HHHHHHhhhc-cCCceEEeEEeecCc
Q 044147 88 ELVRILDCKK-RNGQIVVPVFYKVDP 112 (177)
Q Consensus 88 El~~i~~~~~-~~~~~ViPVfy~v~p 112 (177)
|+..++.... +....++|-.++..|
T Consensus 82 ~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 82 ERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred HHHHHHHHHhhhccEEehhhhhccCC
Confidence 9988776544 445578888876544
No 28
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=51.39 E-value=12 Score=27.92 Aligned_cols=21 Identities=24% Similarity=0.570 Sum_probs=13.0
Q ss_pred EEEEEeeccccCChhhHHHHHHH
Q 044147 70 ISIIIFSENYASSTWCLDELVRI 92 (177)
Q Consensus 70 ~~IvV~S~~y~~S~wc~~El~~i 92 (177)
-+|+|++..|-++ |+.||..+
T Consensus 73 g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 73 GSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred CeEEEechHHHHH--HHHHHHHH
Confidence 4666666665543 67777665
No 29
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=49.76 E-value=26 Score=26.13 Aligned_cols=56 Identities=14% Similarity=0.156 Sum_probs=42.5
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcE
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDI 70 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~ 70 (177)
..++|+-..+.=....+++.|..++..+|+-++.|.+ .+|+.|...|.+.+.++..
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D--~~Ge~Irk~l~~~l~~~~~ 84 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD--RKGERIRKKLKEYLPGAKG 84 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC--cchHHHHHHHHHHhccccc
Confidence 3566666654322257889999999999999999975 5899999888888887543
No 30
>PRK02551 flavoprotein NrdI; Provisional
Probab=47.79 E-value=95 Score=23.77 Aligned_cols=101 Identities=11% Similarity=0.197 Sum_probs=50.0
Q ss_pred eeEEEecccCCCccchHHHHHHHHhcC--CcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccc-cCC--------
Q 044147 14 FDVFLSFRGEDTRTGFTSHVVEALRRK--QIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENY-ASS-------- 82 (177)
Q Consensus 14 ydVFIS~~~~D~r~~fv~~L~~~L~~~--gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y-~~S-------- 82 (177)
.=+|+|-+|.- +.||..|...+.++ ++.+.. +..++.+.++-.. +.... -.+++.|.| ...
T Consensus 5 ~I~Y~S~TGNt--~rFv~kL~~~~~~~~~~~~~~~----i~~~~~i~~~~~~-~~~~~-p~vli~pTY~~gG~~~~~~~~ 76 (154)
T PRK02551 5 TLVYISLSGNT--RSFVKRLSDYLATQHKDIEVNP----INIKDLIHETTDF-FPETE-PFVAFLPTYLEGGNGIDNGDV 76 (154)
T ss_pred EEEEEeCChhH--HHHHHHHhcHHhhcccccccee----cccccccCccccc-cccCC-CEEEEEeeecCCCCCcccCcc
Confidence 34688877765 57999998766442 333321 2112222111000 11112 334556677 322
Q ss_pred hhhHHHHHHHHhhhccCCceEEeEEeecCchhhhcccCcHHHHHhhhhh
Q 044147 83 TWCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHER 131 (177)
Q Consensus 83 ~wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~ 131 (177)
.|..+.+...+..... ...+.=|+= .-...||+.|....+
T Consensus 77 ~~vp~~v~dFL~~~~N-~~~~~gVig--------sGNrNfg~~F~~aa~ 116 (154)
T PRK02551 77 EILTTPLGDFIAYHDN-AKRCLGIIG--------SGNRNFNNQYCLTAK 116 (154)
T ss_pred ccchHHHHHHHcchhh-hhheEEEEe--------ecccHHHHHHHHHHH
Confidence 5666666666643222 334555541 112368888876544
No 31
>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=47.74 E-value=26 Score=27.75 Aligned_cols=62 Identities=16% Similarity=0.133 Sum_probs=40.1
Q ss_pred eeeEEEecccCCC-----ccchHHHHHHHHhcCCcEEEEeCCcc-cCCccccHHHHhccccCcEEEEEeecc
Q 044147 13 KFDVFLSFRGEDT-----RTGFTSHVVEALRRKQIQFFIDDEEL-QRGEEISPALLSAIETSDISIIIFSEN 78 (177)
Q Consensus 13 ~ydVFIS~~~~D~-----r~~fv~~L~~~L~~~gi~~f~d~~~l-~~G~~i~~~i~~aI~~S~~~IvV~S~~ 78 (177)
.++|+|---+.+. -...+..|...|+..||++.+|+++- .+|..+...-.. +.. .++++.|+
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ae~~---GvP-~~I~IG~~ 77 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDWELK---GVP-LRIEIGPR 77 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHHHhC---CCC-EEEEECcc
Confidence 4677776433220 13578999999999999999998654 677766543333 333 44555555
No 32
>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=46.52 E-value=64 Score=22.77 Aligned_cols=61 Identities=18% Similarity=0.290 Sum_probs=36.6
Q ss_pred EEEecccCCCccchHHHHHHHHhcCCcEEEEeCC--------c-----ccCCcc-ccHHHHhcccc-CcEEEEEeecc
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDE--------E-----LQRGEE-ISPALLSAIET-SDISIIIFSEN 78 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~--------~-----l~~G~~-i~~~i~~aI~~-S~~~IvV~S~~ 78 (177)
||||-+..| +.-...+...|...|++++--.. . +.++.. -.+++.+.|++ -++.+||..|+
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 VFLSVSDHV--KAMLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEccc--HHHHHHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 788887776 23344777777788887754321 1 111100 12567777777 77777777665
No 33
>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=44.96 E-value=57 Score=20.90 Aligned_cols=58 Identities=22% Similarity=0.222 Sum_probs=34.2
Q ss_pred eEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeec
Q 044147 15 DVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSE 77 (177)
Q Consensus 15 dVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~ 77 (177)
||||...+.+. ..-+-.+...|++.|+++.++... ..+...+..|-..--..++++.+
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 67776544432 345778899999999999887532 23344444443332234555554
No 34
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=44.84 E-value=20 Score=32.92 Aligned_cols=65 Identities=17% Similarity=0.246 Sum_probs=42.6
Q ss_pred CeeeEEEeccc--CCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 12 SKFDVFLSFRG--EDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 12 ~~ydVFIS~~~--~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
-.|+|+|---+ .+.-...+..|+..|+..||++.+|+++-.+|..+.+.-. .+.. .++++.++..
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad~---~GiP-~~iiiG~~e~ 533 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADADL---IGIP-HRIVVGDRGL 533 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHHh---cCCC-EEEEEcCccc
Confidence 45899887554 1222468899999999999999999876556655544322 2333 4555665533
No 35
>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=44.28 E-value=19 Score=25.28 Aligned_cols=55 Identities=18% Similarity=0.309 Sum_probs=34.0
Q ss_pred cCCCccchHHHHHHHHhcCCcEEEEeCCccc----------CCccccHHHHhccccCcEEEEEee
Q 044147 22 GEDTRTGFTSHVVEALRRKQIQFFIDDEELQ----------RGEEISPALLSAIETSDISIIIFS 76 (177)
Q Consensus 22 ~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~----------~G~~i~~~i~~aI~~S~~~IvV~S 76 (177)
..|+|.+=+-.|...|.+.|+.+.+.+--+. .|-.+.+.+.++++.+++.|+.-.
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~ 75 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATD 75 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS-
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEec
Confidence 3578999999999999999999887643221 122333456788888886665444
No 36
>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=44.14 E-value=53 Score=22.54 Aligned_cols=48 Identities=25% Similarity=0.320 Sum_probs=36.2
Q ss_pred HHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCC
Q 044147 32 HVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASS 82 (177)
Q Consensus 32 ~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S 82 (177)
.+...|+-.|+..+... ...+.+...+.+.+++..+.|++++.+++..
T Consensus 8 ~~v~gFrLaGv~~~~~~---~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~ 55 (95)
T PF01990_consen 8 DTVLGFRLAGVEGVYVN---TDPEEAEEALKELLKDEDVGIIIITEDLAEK 55 (95)
T ss_dssp HHHHHHHHTTSEEEEES---HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT
T ss_pred HHHHHHHHcCCCCccCC---CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH
Confidence 44566778899998875 1235556677777778999999999998873
No 37
>COG0400 Predicted esterase [General function prediction only]
Probab=43.97 E-value=46 Score=26.69 Aligned_cols=56 Identities=21% Similarity=0.219 Sum_probs=42.5
Q ss_pred CCCCeeeEEEecccCCC--ccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccc
Q 044147 9 NAQSKFDVFLSFRGEDT--RTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIE 66 (177)
Q Consensus 9 ~~~~~ydVFIS~~~~D~--r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~ 66 (177)
+.....-|||+|-..|. -.....+|.+.|+..|..+.... ...|-.+.++-.++++
T Consensus 142 ~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~--~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 142 PDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW--HEGGHEIPPEELEAAR 199 (207)
T ss_pred cccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE--ecCCCcCCHHHHHHHH
Confidence 34567889999988886 35678999999999999998876 3467777765554443
No 38
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=43.88 E-value=18 Score=30.31 Aligned_cols=31 Identities=35% Similarity=0.603 Sum_probs=22.1
Q ss_pred hhhHHHHHHHHhhh----ccCCceEEeEEeecCch
Q 044147 83 TWCLDELVRILDCK----KRNGQIVVPVFYKVDPS 113 (177)
Q Consensus 83 ~wc~~El~~i~~~~----~~~~~~ViPVfy~v~ps 113 (177)
.=|.+||.++.... ...+..++|||.-++|.
T Consensus 153 DICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 153 DICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred CcChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 34888988765542 23566777999999984
No 39
>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=43.23 E-value=96 Score=21.53 Aligned_cols=58 Identities=16% Similarity=0.175 Sum_probs=36.3
Q ss_pred HHHHHHHHhcCCcEEE-EeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhhh
Q 044147 30 TSHVVEALRRKQIQFF-IDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDCK 96 (177)
Q Consensus 30 v~~L~~~L~~~gi~~f-~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~ 96 (177)
...|...|++.|+.+- +|-. .. .+++.+.+.+.+--++.+|-.+.. ...++..+.+..
T Consensus 17 l~~la~~l~~~G~~v~~~d~~-~~-----~~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~ 75 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDAN-VP-----PEELVEALRAERPDVVGISVSMTP---NLPEAKRLARAI 75 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESS-B------HHHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCeEEEECCC-CC-----HHHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHH
Confidence 3678889999999984 4432 21 167777777777777777765443 344444444443
No 40
>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=40.79 E-value=41 Score=23.81 Aligned_cols=29 Identities=7% Similarity=0.150 Sum_probs=22.6
Q ss_pred EEEecccCCCccchHHHHHHHHhcCCcEEEE
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRKQIQFFI 46 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~ 46 (177)
||||....| + .-...+...|...|++++-
T Consensus 3 vlisv~~~d-k-~~~~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYS-K-PELLPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCccc-c-hhHHHHHHHHHHCCCEEEE
Confidence 799998877 2 4445888889899999865
No 41
>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=40.28 E-value=37 Score=22.30 Aligned_cols=26 Identities=15% Similarity=0.312 Sum_probs=13.1
Q ss_pred CCcEEEEeCCcccCCccccHHHHhcccc
Q 044147 40 KQIQFFIDDEELQRGEEISPALLSAIET 67 (177)
Q Consensus 40 ~gi~~f~d~~~l~~G~~i~~~i~~aI~~ 67 (177)
+.|-+|+|.+ .+|......+.+.+..
T Consensus 44 ~~vii~~D~D--~aG~~a~~~~~~~l~~ 69 (79)
T cd03364 44 KEVILAFDGD--EAGQKAALRALELLLK 69 (79)
T ss_pred CeEEEEECCC--HHHHHHHHHHHHHHHH
Confidence 4566666654 3555444444444433
No 42
>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA [], Ycf3 [, ], and Ycf4 (IPR003359 from INTERPRO) []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions.
Probab=39.60 E-value=51 Score=27.41 Aligned_cols=106 Identities=17% Similarity=0.269 Sum_probs=59.2
Q ss_pred HHHhcCCcEEEEeCCc----ccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhhhccCCceEEeEEe--
Q 044147 35 EALRRKQIQFFIDDEE----LQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDCKKRNGQIVVPVFY-- 108 (177)
Q Consensus 35 ~~L~~~gi~~f~d~~~----l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~~~~~~ViPVfy-- 108 (177)
+.|... +++|-|-.. ...+.++.+....+++.+..=-+|+|-.-...+=-+.++..+-+. - . +|||.
T Consensus 135 ~~l~a~-v~ilaDV~~kh~~~l~~~~~~~~~~~a~~~~~aDaviVtG~~TG~~~~~~~l~~vr~~---~--~-~PVlvGS 207 (254)
T PF03437_consen 135 KRLGAD-VKILADVHVKHSSPLATRDLEEAAKDAVERGGADAVIVTGKATGEPPDPEKLKRVREA---V--P-VPVLVGS 207 (254)
T ss_pred HHcCCC-eEEEeeechhhcccCCCCCHHHHHHHHHHhcCCCEEEECCcccCCCCCHHHHHHHHhc---C--C-CCEEEec
Confidence 344444 999988431 123445666666777777776667776665544445555444222 1 2 99999
Q ss_pred ecCchhhhcccC----c-HHHHHhhhhhcC-C-ChhHHHHHHHHHH
Q 044147 109 KVDPSDVRKQMG----S-FGEAFVHHERNF-P-CEVRVQKWRDSLI 147 (177)
Q Consensus 109 ~v~psdv~~q~g----~-f~~~f~~~~~~~-~-~~e~v~~W~~AL~ 147 (177)
+++++++..+.. - =|-.|.+..... . +.+++++..+++.
T Consensus 208 Gvt~~Ni~~~l~~ADG~IVGS~~K~~G~~~n~VD~~Rv~~fm~~v~ 253 (254)
T PF03437_consen 208 GVTPENIAEYLSYADGAIVGSYFKKDGKWENPVDPERVRRFMEAVK 253 (254)
T ss_pred CCCHHHHHHHHHhCCEEEEeeeeeeCCEeCCcCCHHHHHHHHHHhh
Confidence 488888876531 1 123333222111 1 5777777666653
No 43
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=39.45 E-value=62 Score=25.43 Aligned_cols=50 Identities=12% Similarity=0.212 Sum_probs=39.1
Q ss_pred cchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 27 TGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
..-...|..+.+.+||-+|.|.+ .+|+.|...|.+.+-++..+- +++.++
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 45667888888999999999986 589999999999888877543 344444
No 44
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=39.39 E-value=58 Score=28.84 Aligned_cols=60 Identities=23% Similarity=0.238 Sum_probs=39.6
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeec
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSE 77 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~ 77 (177)
.++|+|-.-+++. ...+..|.+.|++.|+++.+|.. +..+...+..|-+.---.++++.+
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 3677766555543 46778999999999999999864 345666666665433334444443
No 45
>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=38.98 E-value=78 Score=22.05 Aligned_cols=30 Identities=17% Similarity=0.257 Sum_probs=22.0
Q ss_pred eEEEecccCCCccchHHHHHHHHhcCCcEEEE
Q 044147 15 DVFLSFRGEDTRTGFTSHVVEALRRKQIQFFI 46 (177)
Q Consensus 15 dVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~ 46 (177)
.||+|.+..| +.-...+...|.+.|+++|-
T Consensus 2 ~vl~s~~~~~--k~~~~~~~~~l~~~G~~l~a 31 (110)
T cd01424 2 TVFISVADRD--KPEAVEIAKRLAELGFKLVA 31 (110)
T ss_pred eEEEEEEcCc--HhHHHHHHHHHHHCCCEEEE
Confidence 3889998777 23444777888888888865
No 46
>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=36.72 E-value=29 Score=32.12 Aligned_cols=63 Identities=13% Similarity=0.243 Sum_probs=40.3
Q ss_pred eeEEEecc-cCC-CccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 14 FDVFLSFR-GED-TRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 14 ydVFIS~~-~~D-~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
|+|=|--- ..| .-...+..|++.|+..|+.+.+|+++-.+|..+.+.-+- +-. ..+++.++..
T Consensus 474 ~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~dadli---GiP-~~i~vG~~~l 538 (568)
T TIGR00409 474 YDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFADSELI---GIP-LRVVVGKKNL 538 (568)
T ss_pred eEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHhhhhc---CCC-EEEEECCCcc
Confidence 66655422 122 234688999999999999999999877777776543222 223 3445565543
No 47
>PF08902 DUF1848: Domain of unknown function (DUF1848); InterPro: IPR014998 This group of proteins are functionally uncharacterised. The C terminus contains a cluster of cysteines that are similar to the iron-sulphur cluster found at the N terminus of IPR007197 from INTERPRO.
Probab=36.62 E-value=2.6e+02 Score=23.50 Aligned_cols=130 Identities=12% Similarity=0.209 Sum_probs=78.5
Q ss_pred cccCCCccchHHHHHHHHhcCCcEEEEe------CCcccCCccccHHHHhccc-------cCcEEE----EEeeccccCC
Q 044147 20 FRGEDTRTGFTSHVVEALRRKQIQFFID------DEELQRGEEISPALLSAIE-------TSDISI----IIFSENYASS 82 (177)
Q Consensus 20 ~~~~D~r~~fv~~L~~~L~~~gi~~f~d------~~~l~~G~~i~~~i~~aI~-------~S~~~I----vV~S~~y~~S 82 (177)
|-.++. ..|..+| ..|.+.|++.++. ..+++|+-+-..++.++++ .-++.. ++++..|.-
T Consensus 53 FWTKnp-~P~l~~L-~~l~~~gy~~yfq~Tit~Y~~~lEp~vP~~~~~i~~f~~Ls~~iG~~rViWRYDPIil~~~~~~- 129 (266)
T PF08902_consen 53 FWTKNP-APFLPYL-DELDERGYPYYFQFTITGYGKDLEPNVPPKDERIETFRELSERIGPERVIWRYDPIILTDKYTV- 129 (266)
T ss_pred EecCCc-HHHHhhH-HHHHhCCCceEEEEEeCCCCccccCCCCCHHHHHHHHHHHHHHHCCCcEEEecCCEeECCCCCH-
Confidence 545554 4677666 6788889998876 4568888654444333332 233221 456666544
Q ss_pred hhhHHHHHHHHhhhccCCceEEeEEeecCchhhhcccCcHHHHHhhhhhcC-C-ChhHHHHHHHHHHHhhcccceeecCC
Q 044147 83 TWCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHERNF-P-CEVRVQKWRDSLIQASNISGFLDSRS 160 (177)
Q Consensus 83 ~wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~~~-~-~~e~v~~W~~AL~~v~~~~G~~~~~~ 160 (177)
.|-+..+..+.+.......+++==|++..+.--++ |..+.-.+ . +.+....--..|.++|.--|..+..-
T Consensus 130 ~~h~~~F~~la~~L~g~t~~~viSF~D~Y~k~~~~--------l~~~~~~~~~~~~~~~~~l~~~l~~ia~~~g~~l~tC 201 (266)
T PF08902_consen 130 DYHLEAFERLAEALAGYTDRCVISFLDLYRKVRRN--------LARLGFRIREPSEEEKRELAKRLAEIAKKYGMTLYTC 201 (266)
T ss_pred HHHHHHHHHHHHHHhccCCEEEEEeeeccHHHHHH--------HHhhcCCCCCCCHHHHHHHHHHHHHHHHHcCCEEEeC
Confidence 56666677776665555667777777764433222 22222111 1 47777888888999998888877544
No 48
>KOG3043 consensus Predicted hydrolase related to dienelactone hydrolase [General function prediction only]
Probab=36.07 E-value=1.1e+02 Score=25.29 Aligned_cols=76 Identities=18% Similarity=0.152 Sum_probs=54.3
Q ss_pred cCcEEEEEeeccccCChhhHHHHHHHHhhhccCCceEEeEEeecCchhhhcccCcHHHHHhhhhhcCC--ChhHHHHHHH
Q 044147 67 TSDISIIIFSENYASSTWCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHERNFP--CEVRVQKWRD 144 (177)
Q Consensus 67 ~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~~~~--~~e~v~~W~~ 144 (177)
.+...|++|+.=|--+.--..|....+.+. +-.+++|=||..+|...-.|...+.+=+..|--... +-..+.+|..
T Consensus 37 ~~~~~li~i~DvfG~~~~n~r~~Adk~A~~--Gy~v~vPD~~~Gdp~~~~~~~~~~~~w~~~~~~~~~~~~i~~v~k~lk 114 (242)
T KOG3043|consen 37 SSKKVLIVIQDVFGFQFPNTREGADKVALN--GYTVLVPDFFRGDPWSPSLQKSERPEWMKGHSPPKIWKDITAVVKWLK 114 (242)
T ss_pred CCCeEEEEEEeeeccccHHHHHHHHHHhcC--CcEEEcchhhcCCCCCCCCChhhhHHHHhcCCcccchhHHHHHHHHHH
Confidence 345799999999988877777777766653 556899999999888888777666665555443322 3455667766
No 49
>PRK07933 thymidylate kinase; Validated
Probab=35.19 E-value=80 Score=25.03 Aligned_cols=31 Identities=16% Similarity=0.213 Sum_probs=24.9
Q ss_pred EEecccCCC--ccchHHHHHHHHhcCCcEEEEe
Q 044147 17 FLSFRGEDT--RTGFTSHVVEALRRKQIQFFID 47 (177)
Q Consensus 17 FIS~~~~D~--r~~fv~~L~~~L~~~gi~~f~d 47 (177)
||.+-|-|. +.+.+..|.+.|+.+|++|..-
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~ 34 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVATL 34 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 778877774 4688999999999999887653
No 50
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=35.03 E-value=61 Score=23.83 Aligned_cols=47 Identities=26% Similarity=0.371 Sum_probs=34.3
Q ss_pred HHHhccccCcEEEEEeeccccCChhhHH----HHHHHHhhhccCCceEEeEEee
Q 044147 60 ALLSAIETSDISIIIFSENYASSTWCLD----ELVRILDCKKRNGQIVVPVFYK 109 (177)
Q Consensus 60 ~i~~aI~~S~~~IvV~S~~y~~S~wc~~----El~~i~~~~~~~~~~ViPVfy~ 109 (177)
.+-..+.++-...+++.|||++.. |.+ ||..+.+.+ .--.|.||-|-
T Consensus 55 ~L~~~LCG~~~~~i~IDP~~~~KG-C~~TL~HEL~H~WQ~R--sYG~i~PITY~ 105 (141)
T PHA02456 55 ALPQDLCGQFVGWIEIDPDYANKG-CRDTLAHELNHAWQFR--TYGLVQPITYA 105 (141)
T ss_pred hcCcchhhcceeEEEECCcccccc-hHHHHHHHHHHHHhhh--ccceeeeeehh
Confidence 445567788899999999999854 765 666666654 24478999874
No 51
>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=34.95 E-value=11 Score=29.23 Aligned_cols=57 Identities=26% Similarity=0.420 Sum_probs=35.2
Q ss_pred ChhhHHHHHHHHhhhccCCceEEeEEeecCchhhhcccCcHHHHHhhhhhcCC-ChhHHHHHHHHHH
Q 044147 82 STWCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRKQMGSFGEAFVHHERNFP-CEVRVQKWRDSLI 147 (177)
Q Consensus 82 S~wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~q~g~f~~~f~~~~~~~~-~~e~v~~W~~AL~ 147 (177)
|.|.+.||..-++..+-+.=.=+-+.++|+|-++.+... .++.. +.-++++|++|+.
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS---------tQKvqQYaVRLKRWM~aMH 111 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS---------TQKVQQYAVRLKRWMRAMH 111 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc---------hHHHHHHHHHHHHHHHHhh
Confidence 578888888776665433223344567888877653211 11111 4678899999986
No 52
>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=34.89 E-value=2.2e+02 Score=23.51 Aligned_cols=79 Identities=20% Similarity=0.222 Sum_probs=51.7
Q ss_pred cchHHHHHHHHhcCCcEEE-EeCCc--ccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhh-hccCCce
Q 044147 27 TGFTSHVVEALRRKQIQFF-IDDEE--LQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDC-KKRNGQI 102 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f-~d~~~--l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~-~~~~~~~ 102 (177)
..++..|.+.|.+.||.+- +|... +--|--+.-..+ .-...++-||.+|.+...+.....+|.+++.. .++.+++
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l-~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~~r 168 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITACTLM-GIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQNKR 168 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHHHHHH-cccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 5799999999999999986 66532 333432221111 01246777888998886677777889988884 3444456
Q ss_pred EEeE
Q 044147 103 VVPV 106 (177)
Q Consensus 103 ViPV 106 (177)
|+=|
T Consensus 169 V~iI 172 (271)
T cd07373 169 VAVV 172 (271)
T ss_pred EEEE
Confidence 6544
No 53
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=34.59 E-value=69 Score=29.35 Aligned_cols=61 Identities=13% Similarity=0.239 Sum_probs=41.2
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecc
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSEN 78 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~ 78 (177)
.+||+|---+++. ...+..|.+.|++.||+|-+|.++ ..+...+..|-..---.++|+.++
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~~----~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTSN----ERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECCC----CCHHHHHHHHHhcCCCEEEEEech
Confidence 4688887655443 467899999999999999998753 345556666644333355555553
No 54
>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=34.19 E-value=1.5e+02 Score=20.19 Aligned_cols=62 Identities=15% Similarity=0.210 Sum_probs=39.8
Q ss_pred chHHHHHHHHhcCCcEEEEeCCcccCCccc-cHHHHhccccCcEEEEEeeccccCChhhHHHHHH
Q 044147 28 GFTSHVVEALRRKQIQFFIDDEELQRGEEI-SPALLSAIETSDISIIIFSENYASSTWCLDELVR 91 (177)
Q Consensus 28 ~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i-~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~ 91 (177)
.....+...+++.|...-... -..|..- ...|...|.++++.|++.+----...|...+..+
T Consensus 10 ~~~~~~~~~~~~~G~~~~~hg--~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~ak 72 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHHG--RDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAK 72 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEEe--cCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHH
Confidence 456788889999998865551 1122222 2247788999998887776655566665555443
No 55
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=34.04 E-value=1.3e+02 Score=24.76 Aligned_cols=69 Identities=19% Similarity=0.174 Sum_probs=45.2
Q ss_pred cchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhhhccCC
Q 044147 27 TGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDCKKRNG 100 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~~~~ 100 (177)
......|...++.+| .-|+|-+ +..+.....++...-.+-. +|+|-+...+.+.++|+..++..+...+
T Consensus 78 ~~~i~ll~~la~~~~-~d~iDiE-l~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 78 EEYIELLKKLAELNG-PDYIDIE-LSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHHhhcC-CCEEEEE-ccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 455666666666666 5677754 4333322234444434444 8899999999999999999998876544
No 56
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=33.75 E-value=89 Score=29.00 Aligned_cols=61 Identities=13% Similarity=0.170 Sum_probs=42.0
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecc
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSEN 78 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~ 78 (177)
..||+|-.-++.. ...+..|...|++.|++|-+|.. +..+...+..|-+.---.++|+.++
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 4688887655443 46789999999999999999875 3455556666644433466666653
No 57
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=33.44 E-value=76 Score=28.10 Aligned_cols=61 Identities=16% Similarity=0.294 Sum_probs=41.5
Q ss_pred CeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeec
Q 044147 12 SKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSE 77 (177)
Q Consensus 12 ~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~ 77 (177)
...||+|.+-+.+. ...+-.+.+.|++.|+++-+|.. +..+...+..|-+.--..++|+.+
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 34789998755443 45677899999999999988653 344555666665544446666665
No 58
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=33.19 E-value=75 Score=29.35 Aligned_cols=60 Identities=20% Similarity=0.313 Sum_probs=39.8
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeec
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSE 77 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~ 77 (177)
..||+|-.-+++. ...+..+.+.|++.|++|-+|.+ +..+...+..|-..---.++|+.+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~----~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA----GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECh
Confidence 3688876655443 46789999999999999999875 445555666653322234555554
No 59
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=32.88 E-value=38 Score=30.52 Aligned_cols=63 Identities=13% Similarity=0.129 Sum_probs=39.8
Q ss_pred eeeEEEeccc-----CCCccchHHHHHHHHhcCCcEEEEeC-CcccCCccccHHHHhccccCcEEEEEeeccc
Q 044147 13 KFDVFLSFRG-----EDTRTGFTSHVVEALRRKQIQFFIDD-EELQRGEEISPALLSAIETSDISIIIFSENY 79 (177)
Q Consensus 13 ~ydVFIS~~~-----~D~r~~fv~~L~~~L~~~gi~~f~d~-~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y 79 (177)
.++|+|---. .+.-...+..|...|++.||+|-+|+ ++..+|..+...- ..+.. .++++.++-
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~~ae---~~GvP-~~IiIG~~e 355 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFNEWE---LKGVP-LRIEIGPRD 355 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHH---HCCCC-EEEEECcch
Confidence 4888876431 11124678999999999999999998 5455565554322 22333 455556553
No 60
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=30.90 E-value=67 Score=24.95 Aligned_cols=69 Identities=26% Similarity=0.334 Sum_probs=43.7
Q ss_pred HHhcCCcEEEE-eCCc-cc-CC-ccccHHHHhccccCcE-----EEEEeeccccCChhhHHHHHHHHhhhccCCceEEeE
Q 044147 36 ALRRKQIQFFI-DDEE-LQ-RG-EEISPALLSAIETSDI-----SIIIFSENYASSTWCLDELVRILDCKKRNGQIVVPV 106 (177)
Q Consensus 36 ~L~~~gi~~f~-d~~~-l~-~G-~~i~~~i~~aI~~S~~-----~IvV~S~~y~~S~wc~~El~~i~~~~~~~~~~ViPV 106 (177)
.|.+.||+..+ |.++ +. +. +.+.+++.+.+++++. .|+|+|-+-.++.---.+-+..++.. .+ |||
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~~--lg---Ipv 109 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEKA--LG---IPV 109 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHHh--hC---CcE
Confidence 48999999665 6444 32 34 5677888888887763 48999998766653223334444432 22 888
Q ss_pred Eee
Q 044147 107 FYK 109 (177)
Q Consensus 107 fy~ 109 (177)
+..
T Consensus 110 l~h 112 (168)
T PF09419_consen 110 LRH 112 (168)
T ss_pred EEe
Confidence 743
No 61
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=30.90 E-value=1.7e+02 Score=22.39 Aligned_cols=83 Identities=14% Similarity=0.168 Sum_probs=50.8
Q ss_pred CCCCCeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccc-cCcEEEEEeeccccCChhhH
Q 044147 8 LNAQSKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIE-TSDISIIIFSENYASSTWCL 86 (177)
Q Consensus 8 ~~~~~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~-~S~~~IvV~S~~y~~S~wc~ 86 (177)
.+...+.|...+-+-- + ==+..|.+..++.|+++++- +|..+.-.+.+..+ +.=+.|. |.
T Consensus 56 C~~k~t~~g~~C~~Cg--~-C~Ig~l~~lae~~g~~v~i~-----~Ggt~ar~~ik~~~p~~iigVA-----------C~ 116 (158)
T PF01976_consen 56 CPAKITSDGYNCKRCG--K-CDIGDLKKLAEKYGYKVYIA-----TGGTLARKIIKEYRPKAIIGVA-----------CE 116 (158)
T ss_pred CCCccCCCCCcCCCCC--C-CchhHHHHHHHHcCCEEEEE-----cChHHHHHHHHHhCCCEEEEEe-----------ch
Confidence 3444555666654322 1 23668888889999999984 34444433333322 3223333 99
Q ss_pred HHHHHHHhhhccCCceEEeEEee
Q 044147 87 DELVRILDCKKRNGQIVVPVFYK 109 (177)
Q Consensus 87 ~El~~i~~~~~~~~~~ViPVfy~ 109 (177)
.+|...++.....+..++-|+.+
T Consensus 117 ~dL~~g~~~~~~~~ip~~gV~l~ 139 (158)
T PF01976_consen 117 RDLISGIQDLKPLGIPVQGVLLD 139 (158)
T ss_pred HHHHHHHHHHhhcCCCeeEEEeC
Confidence 99999888766566778778765
No 62
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=30.60 E-value=43 Score=31.35 Aligned_cols=44 Identities=20% Similarity=0.270 Sum_probs=32.1
Q ss_pred eeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCcccc
Q 044147 14 FDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEIS 58 (177)
Q Consensus 14 ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~ 58 (177)
++|+|---+++ ....+..|++.|+..||+|.+|+++-..|..+.
T Consensus 500 ~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgkKir 543 (613)
T PRK03991 500 TQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGKKIR 543 (613)
T ss_pred ceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHH
Confidence 68877655443 357899999999999999999986444444433
No 63
>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=30.53 E-value=2.3e+02 Score=23.12 Aligned_cols=69 Identities=20% Similarity=0.167 Sum_probs=47.6
Q ss_pred cchHHHHHHHHhcCCcEEEEeC-CcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhhhc
Q 044147 27 TGFTSHVVEALRRKQIQFFIDD-EELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDCKK 97 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f~d~-~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~ 97 (177)
..++.+|.+.|...||.+-.+. ..+--|--+. +.-...+.++-||.+|.+...+..-..+|.++++..+
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 4799999999999999876543 2233332222 2222334578899999988877777778988887654
No 64
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=29.41 E-value=1.8e+02 Score=24.41 Aligned_cols=69 Identities=23% Similarity=0.224 Sum_probs=40.9
Q ss_pred HHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEee-----------------ccccCChhhHHHHHHHHhh
Q 044147 33 VVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFS-----------------ENYASSTWCLDELVRILDC 95 (177)
Q Consensus 33 L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S-----------------~~y~~S~wc~~El~~i~~~ 95 (177)
|.-.|..+|+++-==. +.|+.++.++|.+ +...+++=+.++ .+|++-.-|..||..+-+-
T Consensus 159 lS~YLA~~G~KvAN~P--Lvpe~~lP~~L~~-~~~~kivGLtIdp~rL~~IR~~Rl~~lg~s~Ya~~~~i~~El~~A~~l 235 (269)
T PRK05339 159 TSLYLANKGIKAANYP--LVPEVPLPEELFP-IDPKKIFGLTIDPERLIEIRKERLPNLGLSRYASLEQCREELAEAERL 235 (269)
T ss_pred HHHHHHccCCceEeeC--CCCCCCCCHHHHh-CCCCcEEEEeCCHHHHHHHHHHHhcccCcCcCCCHHHHHHHHHHHHHH
Confidence 4445556888864322 4455555444433 333444444444 4588889999999988776
Q ss_pred hccCCceEE
Q 044147 96 KKRNGQIVV 104 (177)
Q Consensus 96 ~~~~~~~Vi 104 (177)
.+..+-++|
T Consensus 236 ~~k~~~pvI 244 (269)
T PRK05339 236 FRREGIPVI 244 (269)
T ss_pred HHHcCCCEE
Confidence 655444444
No 65
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. 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 families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=27.99 E-value=86 Score=28.27 Aligned_cols=63 Identities=14% Similarity=0.111 Sum_probs=39.5
Q ss_pred eeeEEEec---ccC--CCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccc
Q 044147 13 KFDVFLSF---RGE--DTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENY 79 (177)
Q Consensus 13 ~ydVFIS~---~~~--D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y 79 (177)
.++|+|-- ... +.-...+..|...|++.||++.+|.++-.+|..+ ..|-..---.++++.++-
T Consensus 282 P~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~gkk~----k~Ae~~GvP~~IiIG~~E 349 (472)
T TIGR00408 282 PIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPGRKF----YQWEIKGIPLRIEVGPND 349 (472)
T ss_pred cceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHH----HHHHHCCCCEEEEECcch
Confidence 37888764 221 1124678999999999999999998644445444 343222222556666553
No 66
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=27.83 E-value=2e+02 Score=24.00 Aligned_cols=70 Identities=16% Similarity=0.087 Sum_probs=43.7
Q ss_pred HHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEee-------------------ccccCChhhHHHHHHHH
Q 044147 33 VVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFS-------------------ENYASSTWCLDELVRIL 93 (177)
Q Consensus 33 L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S-------------------~~y~~S~wc~~El~~i~ 93 (177)
|.-.|..+|+++-==. +.|+.++.++|.+. ...+++=+.++ .+|++-..|..||..+-
T Consensus 153 lS~YLA~~G~KvAN~P--Lvpe~~lP~~L~~~-~~~ki~GLtidp~~L~~IR~~Rl~~lg~~~s~Ya~~~~i~~El~~A~ 229 (255)
T PF03618_consen 153 LSMYLANKGYKVANVP--LVPEVPLPEELFEV-DPKKIFGLTIDPERLIEIRRERLKSLGLDDSSYADLERIEEELEYAE 229 (255)
T ss_pred hhHHHHhcCcceeecC--cCCCCCCCHHHHhC-CCCcEEEEECCHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHH
Confidence 3345555888864322 55666666665543 44555555544 46888899999999987
Q ss_pred hhhccCCceEEe
Q 044147 94 DCKKRNGQIVVP 105 (177)
Q Consensus 94 ~~~~~~~~~ViP 105 (177)
+..+..+-.||=
T Consensus 230 ~l~~~~~~pvId 241 (255)
T PF03618_consen 230 RLFRKLGCPVID 241 (255)
T ss_pred HHHHHcCCCEEE
Confidence 776555555543
No 67
>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=27.74 E-value=65 Score=25.07 Aligned_cols=83 Identities=22% Similarity=0.265 Sum_probs=52.3
Q ss_pred chHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHHHHHHHHhh-hccCCceEEeE
Q 044147 28 GFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLDELVRILDC-KKRNGQIVVPV 106 (177)
Q Consensus 28 ~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~-~~~~~~~ViPV 106 (177)
..+..+..+|.++||+|-+-.+ .-.+.|...+....-.-+++|.+|..-.|-..+-....++ ....|...+|.
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------ERYESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPF 82 (164)
T ss_pred HHHHHHHHHHHhcCCEEEEecH------HHHHHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeec
Confidence 5788999999999999987532 1234555555555455677888898888865433333333 33467778886
Q ss_pred EeecCchhhhc
Q 044147 107 FYKVDPSDVRK 117 (177)
Q Consensus 107 fy~v~psdv~~ 117 (177)
-- -.|..+|.
T Consensus 83 sq-fP~~~~Rk 92 (164)
T PF12076_consen 83 SQ-FPPKKVRK 92 (164)
T ss_pred cC-CCcHHHhC
Confidence 32 23444553
No 68
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=27.70 E-value=1.3e+02 Score=27.52 Aligned_cols=36 Identities=25% Similarity=0.250 Sum_probs=24.2
Q ss_pred chHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccC
Q 044147 28 GFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETS 68 (177)
Q Consensus 28 ~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S 68 (177)
+-...|...|.+.|++..+ -.||..+. .+.+++.++
T Consensus 14 ~~~~~l~~~L~~~GV~~vF----gvpG~~~~-~l~dal~~~ 49 (564)
T PRK08155 14 TGAELIVRLLERQGIRIVT----GIPGGAIL-PLYDALSQS 49 (564)
T ss_pred cHHHHHHHHHHHcCCCEEE----eCCCcccH-HHHHHHhcc
Confidence 3567888888888887666 34776665 355666544
No 69
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=26.52 E-value=1.3e+02 Score=26.03 Aligned_cols=60 Identities=25% Similarity=0.440 Sum_probs=40.1
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccc-cCcEEEEEeeccccC
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIE-TSDISIIIFSENYAS 81 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~-~S~~~IvV~S~~y~~ 81 (177)
-||+=|.|+.+| |...|.++-- +||.+|+|. .|-++.+.....+. ..|+.++=.=..|..
T Consensus 196 GfD~~idyk~~d----~~~~L~~a~P-~GIDvyfeN----VGg~v~DAv~~~ln~~aRi~~CG~IS~YN~ 256 (340)
T COG2130 196 GFDAGIDYKAED----FAQALKEACP-KGIDVYFEN----VGGEVLDAVLPLLNLFARIPVCGAISQYNA 256 (340)
T ss_pred CCceeeecCccc----HHHHHHHHCC-CCeEEEEEc----CCchHHHHHHHhhccccceeeeeehhhcCC
Confidence 489999997664 7766655544 899999986 46667777666655 456555433344443
No 70
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=25.86 E-value=1.3e+02 Score=28.18 Aligned_cols=62 Identities=11% Similarity=0.139 Sum_probs=42.3
Q ss_pred CeeeEEEecccC-CCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecc
Q 044147 12 SKFDVFLSFRGE-DTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSEN 78 (177)
Q Consensus 12 ~~ydVFIS~~~~-D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~ 78 (177)
...+|+|-.-++ +. ...+..|...|++.||+|-+|.. +..+...+..|-+.---.++|+.++
T Consensus 540 ap~qV~Ii~~~~~~~-~~~a~~la~~LR~~Gi~veid~~----~~sl~kq~k~A~k~g~~~~iiiG~~ 602 (639)
T PRK12444 540 APVQVKVIPVSNAVH-VQYADEVADKLAQAGIRVERDER----DEKLGYKIREAQMQKIPYVLVIGDK 602 (639)
T ss_pred CCceEEEEEcccHHH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEEcch
Confidence 357887776555 22 46789999999999999999874 4455666666644433455666553
No 71
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=25.32 E-value=1.6e+02 Score=25.05 Aligned_cols=37 Identities=19% Similarity=0.336 Sum_probs=30.8
Q ss_pred eeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCc
Q 044147 14 FDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEE 50 (177)
Q Consensus 14 ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~ 50 (177)
-+|-||..|+-+=+.++..|...+.++|+.++++-..
T Consensus 131 ~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~TNG 167 (322)
T PRK13762 131 KHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVTNG 167 (322)
T ss_pred CEEEEeCCccccchhhHHHHHHHHHHcCCCEEEECCC
Confidence 4688998898875668889999999999999998653
No 72
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=24.75 E-value=86 Score=25.01 Aligned_cols=47 Identities=28% Similarity=0.340 Sum_probs=31.1
Q ss_pred CCccchHHHHHHHHhcCC--cEEEEeCCcccCCccccHHHHhccccCcEEEEEeecccc
Q 044147 24 DTRTGFTSHVVEALRRKQ--IQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYA 80 (177)
Q Consensus 24 D~r~~fv~~L~~~L~~~g--i~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~ 80 (177)
|...+|+-.|++.|+..| +.|+..+ .+... .++..+--.+|+||.=.
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd-------~~~~~---~~~~~~pd~iviSPGPG 56 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRND-------DISLE---LIEALKPDAIVISPGPG 56 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECC-------ccCHH---HHhhcCCCEEEEcCCCC
Confidence 344689999999999987 5566554 12222 44555557788998643
No 73
>PLN02530 histidine-tRNA ligase
Probab=24.62 E-value=1.5e+02 Score=26.84 Aligned_cols=60 Identities=17% Similarity=0.130 Sum_probs=41.8
Q ss_pred eeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeec
Q 044147 13 KFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSE 77 (177)
Q Consensus 13 ~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~ 77 (177)
..||+|.+-+++. ...+-.+.+.|++.|+++-+|... ..+...+..|-+.--..|+++.+
T Consensus 401 ~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~~~----~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 401 QVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVLEP----KKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEecCC----CCHHHHHHHHHHCCCCEEEEEch
Confidence 4689998755553 467889999999999999887532 44555666666544446666665
No 74
>PF08132 AdoMetDC_leader: S-adenosyl-l-methionine decarboxylase leader peptide; InterPro: IPR012511 This family consists of the S-adenosyl-l-methionine decarboxylase (AdoMetDC) leader peptides. AdoMetDC is a key regulatory enzyme in the biosynthesis of polyamines. All expressed plant AdoMetDC mRNA 5, leader sequences contain a highly conserved pair of overlapping upstream ORFs (uORFs) that overlap by one base. Sequences of the small uORFs are highly conserved between monocot, dicot and gymnosperm AdoMetDC mRNA species, suggesting a translational regulatory mechanism [].
Probab=24.33 E-value=42 Score=20.85 Aligned_cols=24 Identities=29% Similarity=0.337 Sum_probs=17.7
Q ss_pred CCCCCCCCCCeeeEEEecccCCCc
Q 044147 3 SSSTNLNAQSKFDVFLSFRGEDTR 26 (177)
Q Consensus 3 sss~s~~~~~~ydVFIS~~~~D~r 26 (177)
|||++++....|.+=|.|+-+|.|
T Consensus 10 ssssss~~s~~yeaPLgYsIEDvR 33 (54)
T PF08132_consen 10 SSSSSSSNSLFYEAPLGYSIEDVR 33 (54)
T ss_pred ccccccccceEEeccccceeeecc
Confidence 344455556789999999999976
No 75
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=24.31 E-value=2e+02 Score=19.94 Aligned_cols=30 Identities=17% Similarity=0.207 Sum_probs=20.8
Q ss_pred CCcc-ccHHHHhccccCcEEEEEeeccccCC
Q 044147 53 RGEE-ISPALLSAIETSDISIIIFSENYASS 82 (177)
Q Consensus 53 ~G~~-i~~~i~~aI~~S~~~IvV~S~~y~~S 82 (177)
+|.. +.......+++++..|++++..-..+
T Consensus 57 ~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~ 87 (159)
T cd00154 57 AGQERFRSITPSYYRGAHGAILVYDITNRES 87 (159)
T ss_pred CChHHHHHHHHHHhcCCCEEEEEEECCCHHH
Confidence 5533 33455667889999999999875443
No 76
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=24.24 E-value=3.2e+02 Score=20.74 Aligned_cols=62 Identities=16% Similarity=0.082 Sum_probs=33.0
Q ss_pred CCccccHHHH-hccccCcEEEEEeeccccCChhhHHHH-HHHHhhhccCCceEEeEEeecCchhhhcc
Q 044147 53 RGEEISPALL-SAIETSDISIIIFSENYASSTWCLDEL-VRILDCKKRNGQIVVPVFYKVDPSDVRKQ 118 (177)
Q Consensus 53 ~G~~i~~~i~-~aI~~S~~~IvV~S~~y~~S~wc~~El-~~i~~~~~~~~~~ViPVfy~v~psdv~~q 118 (177)
+|+.-...+. ..+++++.+|++++-. ++.-++++ ...++..+... .-+||++=....|++..
T Consensus 61 aG~e~~~~~~~~~~~~ad~~ilvyDit---~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~ 124 (182)
T cd04172 61 SGSPYYDNVRPLSYPDSDAVLICFDIS---RPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 124 (182)
T ss_pred CCchhhHhhhhhhcCCCCEEEEEEECC---CHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcC
Confidence 4544333333 3578899999999954 33344443 22222111111 12577776677887654
No 77
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=23.82 E-value=1.9e+02 Score=25.56 Aligned_cols=64 Identities=23% Similarity=0.517 Sum_probs=39.6
Q ss_pred CCcccCCccccHHHHhccccCcEEEEEeecccc----CChhhHH-H-HHHHHhhhccCCceEEeEEeecCchh
Q 044147 48 DEELQRGEEISPALLSAIETSDISIIIFSENYA----SSTWCLD-E-LVRILDCKKRNGQIVVPVFYKVDPSD 114 (177)
Q Consensus 48 ~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~----~S~wc~~-E-l~~i~~~~~~~~~~ViPVfy~v~psd 114 (177)
+-++.|...+..+ -|..++--++|--..|+ .|..|.+ | |.+..+|...+|.++||||--...-+
T Consensus 178 DYnmTpDrHLGaA---~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFALGRAQE 247 (501)
T KOG1136|consen 178 DYNMTPDRHLGAA---WIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFALGRAQE 247 (501)
T ss_pred CccCCcccccchh---hhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeeecchHHH
Confidence 3344444444432 35566666665555566 5778865 4 55667787789999999996443333
No 78
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=23.20 E-value=86 Score=20.50 Aligned_cols=29 Identities=21% Similarity=0.395 Sum_probs=24.5
Q ss_pred EEEecccCCCccchHHHHHHHHhcCCcEEE
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRKQIQFF 45 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~gi~~f 45 (177)
+-|+..+.| |.+.+..+...|.++|.++-
T Consensus 2 ~iltv~g~D-r~GiVa~vs~~la~~g~nI~ 30 (77)
T cd04893 2 LVISALGTD-RPGILNELTRAVSESGCNIL 30 (77)
T ss_pred EEEEEEeCC-CChHHHHHHHHHHHcCCCEE
Confidence 446788999 68999999999999998763
No 79
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=22.52 E-value=64 Score=26.89 Aligned_cols=117 Identities=22% Similarity=0.270 Sum_probs=62.2
Q ss_pred cccCCCccchHHHHHHHHhcCCcE---EEEeCCcccCCc------c-----ccHHHHhc----cccCcEEEEEeeccccC
Q 044147 20 FRGEDTRTGFTSHVVEALRRKQIQ---FFIDDEELQRGE------E-----ISPALLSA----IETSDISIIIFSENYAS 81 (177)
Q Consensus 20 ~~~~D~r~~fv~~L~~~L~~~gi~---~f~d~~~l~~G~------~-----i~~~i~~a----I~~S~~~IvV~S~~y~~ 81 (177)
++|+- .-+.+|..+|..+|=+ ..+|++.+..++ . +.-.|..+ +.+.+ .|++=|-||..
T Consensus 11 ~SGKs---trA~~L~~~l~~~~~K~~v~ii~deslg~~~ns~y~~s~~EK~lRg~L~S~v~R~Lsk~~-iVI~DslNyIK 86 (281)
T KOG3062|consen 11 CSGKS---TRAVELREALKERGTKQSVRIIDDESLGIEKNSNYGDSQAEKALRGKLRSAVDRSLSKGD-IVIVDSLNYIK 86 (281)
T ss_pred CCCch---hHHHHHHHHHHhhcccceEEEechhhcCCCCcccccccHHHHHHHHHHHHHHHhhcccCc-EEEEecccccc
Confidence 35555 4578999999988732 344554443222 1 11112222 22222 56667888876
Q ss_pred Ch----hhHHHHHHHHhhhccCCceEEeEEeecCchhhhcc---------cCcHHHHHhhhhhcCCChhHHHHHHHHHHH
Q 044147 82 ST----WCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRKQ---------MGSFGEAFVHHERNFPCEVRVQKWRDSLIQ 148 (177)
Q Consensus 82 S~----wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~q---------~g~f~~~f~~~~~~~~~~e~v~~W~~AL~~ 148 (177)
.- ||+-..... +-=-|+..|.+...|.- .|.=.+.|+++..+|..++.-.+|-.-|-.
T Consensus 87 GfRYeLyC~ak~~~t---------t~Cvv~t~vp~e~~r~~Ns~~~~p~e~gy~~e~le~L~~RyEeP~s~NRWDsPLf~ 157 (281)
T KOG3062|consen 87 GFRYELYCEAKAART---------TYCVVHTAVPQELCREWNSEREDPGEDGYDDELLEALVQRYEEPNSRNRWDSPLFT 157 (281)
T ss_pred cceeeeeeehhccce---------eEEEEEecCCHHHHHHhcccCCCCCCCCCCHHHHHHHHHHhhCCCccccccCcceE
Confidence 53 453322111 11114445655555432 222357788888888656677788777654
Q ss_pred h
Q 044147 149 A 149 (177)
Q Consensus 149 v 149 (177)
+
T Consensus 158 l 158 (281)
T KOG3062|consen 158 L 158 (281)
T ss_pred E
Confidence 4
No 80
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=22.34 E-value=2.4e+02 Score=21.05 Aligned_cols=31 Identities=13% Similarity=0.030 Sum_probs=20.6
Q ss_pred eeEEEecccCCCccchHHHHHHHHhcC--CcEEEE
Q 044147 14 FDVFLSFRGEDTRTGFTSHVVEALRRK--QIQFFI 46 (177)
Q Consensus 14 ydVFIS~~~~D~r~~fv~~L~~~L~~~--gi~~f~ 46 (177)
--||||-+..|. .-.-.+...|.+. |++++-
T Consensus 5 ~~v~lsv~d~dK--~~l~~~a~~l~~ll~Gf~l~A 37 (142)
T PRK05234 5 KRIALIAHDHKK--DDLVAWVKAHKDLLEQHELYA 37 (142)
T ss_pred cEEEEEEeccch--HHHHHHHHHHHHHhcCCEEEE
Confidence 568999988873 3444666666666 666543
No 81
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=22.15 E-value=58 Score=21.44 Aligned_cols=33 Identities=18% Similarity=0.376 Sum_probs=19.7
Q ss_pred HHHhc--CCcEEEEeCCcccCCccccHHHHhccccCc
Q 044147 35 EALRR--KQIQFFIDDEELQRGEEISPALLSAIETSD 69 (177)
Q Consensus 35 ~~L~~--~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~ 69 (177)
..|.. +.+-+++|.+ .+|+.....+.+.+....
T Consensus 40 ~~~~~~~~~Vii~~D~D--~~G~~~a~~i~~~l~~~g 74 (81)
T PF13662_consen 40 EKLEKKVKEVIIAFDND--KAGEKAAQKIAKKLLPLG 74 (81)
T ss_dssp HHHH---SEEEEEEESS--HHHHHHHHHHHHHHG---
T ss_pred HhhhccCceEEEEeCcC--HHHHHHHHHHHHHHHhhc
Confidence 34444 6677888875 478777777777554433
No 82
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=22.12 E-value=1.8e+02 Score=21.60 Aligned_cols=88 Identities=22% Similarity=0.322 Sum_probs=45.5
Q ss_pred HHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeeccccCChhhHH-HHHHHHhhhccCCceEEeE--E
Q 044147 31 SHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSENYASSTWCLD-ELVRILDCKKRNGQIVVPV--F 107 (177)
Q Consensus 31 ~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~y~~S~wc~~-El~~i~~~~~~~~~~ViPV--f 107 (177)
..|...|++.|+...+-. |+ ..+.+.+-+++..+..|++...|..-.--.+ ++...+. +.+-.+.-+ -
T Consensus 56 ~~L~~~L~~~g~~L~v~~-----g~-~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~---~~~i~~~~~~~~ 126 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLVLR-----GD-PEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALK---KHGIKVHTFDDH 126 (165)
T ss_dssp HHHHHHHHHTTS-EEEEE-----SS-HHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHH---HTTSEEEEE--S
T ss_pred HHHHHHHHhcCcceEEEe-----cc-hHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHH---hcceEEEEECCc
Confidence 567788888999977643 33 2334555566777888999998876322111 2223222 122222111 1
Q ss_pred eecCchhhhcccCcHHHHHh
Q 044147 108 YKVDPSDVRKQMGSFGEAFV 127 (177)
Q Consensus 108 y~v~psdv~~q~g~f~~~f~ 127 (177)
+=+.|.++....|..-+.|.
T Consensus 127 ~L~~~~~i~~~~~~~~~vFt 146 (165)
T PF00875_consen 127 TLVPPDDIPKKDGEPYKVFT 146 (165)
T ss_dssp SSS-HHHCHSTTSSSHSSHH
T ss_pred EEEeccccccCCCCCcccHH
Confidence 12568888777665544444
No 83
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=22.08 E-value=1.6e+02 Score=25.79 Aligned_cols=51 Identities=12% Similarity=0.276 Sum_probs=35.1
Q ss_pred CCCccchHHHHHHHHhcCCcEEEEeCCcccC----CccccHHHHhccccCcEEEE
Q 044147 23 EDTRTGFTSHVVEALRRKQIQFFIDDEELQR----GEEISPALLSAIETSDISII 73 (177)
Q Consensus 23 ~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~----G~~i~~~i~~aI~~S~~~Iv 73 (177)
.|.|.+=+-.|.+.|..+|..+-..|--+.. |-.+.++..+++++++..|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 4778888999999999999887765432221 33455566677777775544
No 84
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.97 E-value=1.8e+02 Score=17.46 Aligned_cols=33 Identities=15% Similarity=0.231 Sum_probs=24.3
Q ss_pred CCeeeEEEecccCCCccchHHHHHHHHhcCCcEEE
Q 044147 11 QSKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFF 45 (177)
Q Consensus 11 ~~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f 45 (177)
...+.+++.+...+. .-...+.+.|+..|++++
T Consensus 40 ~~~~~~~i~v~~~~~--~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 40 LGEVEVELTLETRGA--EHIEEIIAALREAGYDVR 72 (73)
T ss_pred CceEEEEEEEEeCCH--HHHHHHHHHHHHcCCEEe
Confidence 355778888776552 345789999999999875
No 85
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=21.74 E-value=1.2e+02 Score=21.17 Aligned_cols=28 Identities=18% Similarity=0.118 Sum_probs=17.4
Q ss_pred eEEEecccCCCccchHHHHHHHHhcCCcEEE
Q 044147 15 DVFLSFRGEDTRTGFTSHVVEALRRKQIQFF 45 (177)
Q Consensus 15 dVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f 45 (177)
=++||++|.. ..+-...+.++++|.++.
T Consensus 50 ~I~iS~sG~t---~e~~~~~~~a~~~g~~vi 77 (126)
T cd05008 50 VIAISQSGET---ADTLAALRLAKEKGAKTV 77 (126)
T ss_pred EEEEeCCcCC---HHHHHHHHHHHHcCCeEE
Confidence 3466777665 345566667777776654
No 86
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=21.61 E-value=2e+02 Score=18.99 Aligned_cols=36 Identities=22% Similarity=0.223 Sum_probs=27.4
Q ss_pred CeeeEEEecccCCCccchHHHHHHHHhcCCcEEEEeC
Q 044147 12 SKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDD 48 (177)
Q Consensus 12 ~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~ 48 (177)
.+--|+|+|--.+- ...-.+|...|.++|+.||.-+
T Consensus 15 ~k~~v~i~HG~~eh-~~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEH-SGRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHH-HHHHHHHHHHHHhCCCEEEEEC
Confidence 36778999865442 3455789999999999999854
No 87
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=21.56 E-value=1.8e+02 Score=21.08 Aligned_cols=55 Identities=22% Similarity=0.221 Sum_probs=36.0
Q ss_pred cchHHHHHHHHhcCCcEEE-EeCCcc-cC-----------CccccHHHHhccccCcEEEEEeeccccCC
Q 044147 27 TGFTSHVVEALRRKQIQFF-IDDEEL-QR-----------GEEISPALLSAIETSDISIIIFSENYASS 82 (177)
Q Consensus 27 ~~fv~~L~~~L~~~gi~~f-~d~~~l-~~-----------G~~i~~~i~~aI~~S~~~IvV~S~~y~~S 82 (177)
...+..+.+.|++.|+.+- +|-.+. .+ -.+-..++.+.+.+++ .||+.||.|..+
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD-~iI~~sP~y~~~ 84 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEAD-GIIFASPVYNGS 84 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSS-EEEEEEEEBTTB
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCC-eEEEeecEEcCc
Confidence 4677888888888887652 343332 11 1122346778888888 778889998865
No 88
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=21.27 E-value=3.1e+02 Score=20.35 Aligned_cols=54 Identities=13% Similarity=0.088 Sum_probs=33.7
Q ss_pred HhccccCcEEEEEeeccccCChhhHHHHHHHHhhhccCCceEEeEEeecCchhhhc
Q 044147 62 LSAIETSDISIIIFSENYASSTWCLDELVRILDCKKRNGQIVVPVFYKVDPSDVRK 117 (177)
Q Consensus 62 ~~aI~~S~~~IvV~S~~y~~S~wc~~El~~i~~~~~~~~~~ViPVfy~v~psdv~~ 117 (177)
...+..++..|++++.+-..|---..++...+...... .=+|+++=....|+..
T Consensus 68 ~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~--~~~piilvgNK~Dl~~ 121 (172)
T cd04141 68 DQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLT--EDIPLVLVGNKVDLES 121 (172)
T ss_pred HHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCC--CCCCEEEEEEChhhhh
Confidence 35678899999999987666655555544444432211 1257777667777653
No 89
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=20.75 E-value=2.1e+02 Score=19.77 Aligned_cols=84 Identities=19% Similarity=0.305 Sum_probs=46.2
Q ss_pred EEEecccCCCccchHHHHHHHHhcCCcEEEEeCCcccCCccccHHHHhccccCcEEEEEeecc-ccCChhhHHHHHHHHh
Q 044147 16 VFLSFRGEDTRTGFTSHVVEALRRKQIQFFIDDEELQRGEEISPALLSAIETSDISIIIFSEN-YASSTWCLDELVRILD 94 (177)
Q Consensus 16 VFIS~~~~D~r~~fv~~L~~~L~~~gi~~f~d~~~l~~G~~i~~~i~~aI~~S~~~IvV~S~~-y~~S~wc~~El~~i~~ 94 (177)
+++......+...|...|..+|...... -...+.+...+.+.+++.+..++|+-.- +..+.-.++.|..+++
T Consensus 41 ~~~~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~l~~~~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~ 113 (131)
T PF13401_consen 41 IYVNCPSSRTPRDFAQEILEALGLPLKS-------RQTSDELRSLLIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN 113 (131)
T ss_dssp EEEEHHHHSSHHHHHHHHHHHHT-SSSS-------TS-HHHHHHHHHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC
T ss_pred EEEEeCCCCCHHHHHHHHHHHhCccccc-------cCCHHHHHHHHHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh
Confidence 3566555555567888888888755443 1223445577788888888766666543 2213334444433333
Q ss_pred hhccCCceEEeEEeecCc
Q 044147 95 CKKRNGQIVVPVFYKVDP 112 (177)
Q Consensus 95 ~~~~~~~~ViPVfy~v~p 112 (177)
..-++|.+-..|
T Consensus 114 ------~~~~~vvl~G~~ 125 (131)
T PF13401_consen 114 ------ESNIKVVLVGTP 125 (131)
T ss_dssp ------SCBEEEEEEESS
T ss_pred ------CCCCeEEEEECh
Confidence 334455554444
No 90
>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=20.58 E-value=81 Score=21.90 Aligned_cols=16 Identities=6% Similarity=0.302 Sum_probs=13.7
Q ss_pred ChhHHHHHHHHHHHhh
Q 044147 135 CEVRVQKWRDSLIQAS 150 (177)
Q Consensus 135 ~~e~v~~W~~AL~~v~ 150 (177)
+++..++|..||..|+
T Consensus 87 s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 87 SPEEREEWIHAIQTVA 102 (102)
T ss_pred CHHHHHHHHHHHHhhC
Confidence 5789999999998774
No 91
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=20.56 E-value=1.5e+02 Score=26.23 Aligned_cols=46 Identities=24% Similarity=0.328 Sum_probs=34.7
Q ss_pred HHHHhccccCc-EEEEEeeccc-cCChhhHHHHHHHHhhhccCCceEE
Q 044147 59 PALLSAIETSD-ISIIIFSENY-ASSTWCLDELVRILDCKKRNGQIVV 104 (177)
Q Consensus 59 ~~i~~aI~~S~-~~IvV~S~~y-~~S~wc~~El~~i~~~~~~~~~~Vi 104 (177)
+.+.+++.+.+ ...++.+|+= ...-|..+||.++.+.....+-+||
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 47778888887 5667777764 5788999999999887655565554
No 92
>PRK08350 hypothetical protein; Provisional
Probab=20.18 E-value=1e+02 Score=26.91 Aligned_cols=32 Identities=13% Similarity=0.133 Sum_probs=28.5
Q ss_pred CeeeEEEecccCCCccchHHHHHHHHhcCCcE
Q 044147 12 SKFDVFLSFRGEDTRTGFTSHVVEALRRKQIQ 43 (177)
Q Consensus 12 ~~ydVFIS~~~~D~r~~fv~~L~~~L~~~gi~ 43 (177)
..|-+.+|||+-+|..+|+.+|.-+|...-|+
T Consensus 280 ~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 280 ERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred cCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 45889999999888899999999999888776
Done!