Query 036133
Match_columns 182
No_of_seqs 212 out of 1500
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 09:46:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036133.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036133hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 1.6E-51 3.4E-56 320.4 15.6 159 5-181 20-180 (187)
2 PLN03210 Resistant to P. syrin 100.0 1.3E-50 2.9E-55 389.5 17.7 176 1-180 1-177 (1153)
3 PF01582 TIR: TIR domain; Int 99.9 4.8E-29 1E-33 187.9 3.3 133 14-147 1-140 (141)
4 smart00255 TIR Toll - interleu 99.9 1.4E-25 3E-30 167.5 11.9 137 11-151 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 5.2E-19 1.1E-23 125.7 5.1 87 14-108 1-87 (102)
6 KOG3678 SARM protein (with ste 99.1 2.8E-10 6.1E-15 99.9 9.1 141 9-180 610-758 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.6 1.8E-07 4E-12 69.4 6.8 91 12-108 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 97.9 9.3E-05 2E-09 55.8 8.3 65 13-78 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.0 0.0026 5.6E-08 47.2 6.6 78 13-94 1-91 (125)
10 PF13271 DUF4062: Domain of un 92.8 0.41 9E-06 32.5 5.6 66 13-81 1-67 (83)
11 COG4916 Uncharacterized protei 90.5 0.49 1.1E-05 39.3 4.6 102 8-114 174-281 (329)
12 PF05014 Nuc_deoxyrib_tr: Nucl 84.5 9.3 0.0002 27.0 7.9 69 25-95 13-89 (113)
13 PF14258 DUF4350: Domain of un 80.1 13 0.00028 23.9 6.7 62 28-103 7-68 (70)
14 COG4271 Predicted nucleotide-b 79.0 5.9 0.00013 31.8 5.4 77 13-94 84-175 (233)
15 COG0125 Tmk Thymidylate kinase 71.6 51 0.0011 26.4 10.9 156 14-178 4-205 (208)
16 cd00860 ThrRS_anticodon ThrRS 69.1 22 0.00047 23.4 5.8 56 12-73 2-58 (91)
17 PF03129 HGTP_anticodon: Antic 60.8 28 0.00061 23.3 5.1 47 25-76 15-61 (94)
18 cd00738 HGTP_anticodon HGTP an 54.7 49 0.0011 21.7 5.5 59 12-76 2-63 (94)
19 cd02426 Pol_gamma_b_Cterm C-te 50.2 11 0.00023 27.8 1.6 32 25-57 43-77 (128)
20 KOG2792 Putative cytochrome C 49.5 16 0.00034 30.6 2.6 30 83-112 154-187 (280)
21 cd02042 ParA ParA and ParB of 49.4 80 0.0017 21.3 6.3 62 14-78 3-73 (104)
22 cd00858 GlyRS_anticodon GlyRS 47.8 61 0.0013 23.1 5.3 60 11-77 26-87 (121)
23 PF11074 DUF2779: Domain of un 44.8 17 0.00037 26.9 2.0 33 57-91 61-93 (130)
24 PRK09194 prolyl-tRNA synthetas 44.4 26 0.00055 32.3 3.5 63 10-77 467-531 (565)
25 COG0400 Predicted esterase [Ge 40.3 84 0.0018 25.1 5.5 54 9-65 144-199 (207)
26 PRK10236 hypothetical protein; 37.7 46 0.00099 27.4 3.6 39 141-179 88-130 (237)
27 KOG1136 Predicted cleavage and 37.2 91 0.002 27.4 5.4 56 49-107 180-241 (501)
28 PF08902 DUF1848: Domain of un 37.1 2.5E+02 0.0054 23.5 8.6 136 10-158 46-199 (266)
29 PF01990 ATP-synt_F: ATP synth 35.6 96 0.0021 21.2 4.6 47 31-81 9-55 (95)
30 PRK12325 prolyl-tRNA synthetas 35.0 48 0.001 29.5 3.6 62 11-78 345-409 (439)
31 cd00861 ProRS_anticodon_short 33.4 1E+02 0.0022 20.3 4.4 48 25-77 17-64 (94)
32 cd07373 2A5CPDO_A The alpha su 32.9 2.8E+02 0.0061 22.8 8.3 78 25-106 90-173 (271)
33 cd00154 Rab Rab family. Rab G 32.3 1.6E+02 0.0034 20.5 5.5 56 52-110 57-116 (159)
34 PF14359 DUF4406: Domain of un 32.3 1.7E+02 0.0037 20.1 6.4 62 29-94 19-85 (92)
35 PF10087 DUF2325: Uncharacteri 32.1 1.7E+02 0.0036 20.0 5.8 58 27-87 11-69 (97)
36 COG0415 PhrB Deoxyribodipyrimi 31.6 1.8E+02 0.0038 26.4 6.6 86 29-125 58-147 (461)
37 COG1658 Small primase-like pro 31.6 81 0.0018 23.4 3.8 54 12-68 30-83 (127)
38 PF02310 B12-binding: B12 bind 31.1 1.8E+02 0.0039 20.1 6.8 69 28-106 17-86 (121)
39 cd00859 HisRS_anticodon HisRS 30.8 1.4E+02 0.0031 18.9 4.9 59 12-76 2-60 (91)
40 PF03214 RGP: Reversibly glyco 29.9 2.6E+02 0.0056 24.4 7.0 91 27-151 244-345 (348)
41 TIGR00418 thrS threonyl-tRNA s 29.2 1.4E+02 0.0031 27.2 5.8 61 10-76 469-529 (563)
42 PF03618 Kinase-PPPase: Kinase 29.0 2E+02 0.0043 23.9 6.1 71 30-104 152-241 (255)
43 COG1168 MalY Bifunctional PLP- 28.8 1.2E+02 0.0027 26.7 5.0 46 58-103 148-195 (388)
44 cd01424 MGS_CPS_II Methylglyox 28.4 1.8E+02 0.0039 20.1 5.1 30 13-45 2-31 (110)
45 cd03028 GRX_PICOT_like Glutare 27.5 35 0.00076 23.1 1.2 25 70-94 9-35 (90)
46 cd00532 MGS-like MGS-like doma 27.4 2.2E+02 0.0048 19.9 5.7 61 14-77 2-77 (112)
47 cd00138 PLDc Phospholipase D. 27.0 1.2E+02 0.0025 22.5 4.2 28 52-79 18-45 (176)
48 PF00875 DNA_photolyase: DNA p 27.0 2.6E+02 0.0057 20.7 7.2 91 29-128 56-148 (165)
49 cd07363 45_DOPA_Dioxygenase Th 26.7 2.6E+02 0.0057 22.7 6.5 69 25-96 80-149 (253)
50 TIGR01101 V_ATP_synt_F vacuola 26.3 1.3E+02 0.0029 21.8 4.1 48 54-112 46-93 (115)
51 cd00862 ProRS_anticodon_zinc P 25.9 77 0.0017 25.0 3.1 47 11-58 10-62 (202)
52 PF13519 VWA_2: von Willebrand 25.8 2.3E+02 0.0049 20.3 5.5 39 67-110 99-137 (172)
53 cd03364 TOPRIM_DnaG_primases T 25.4 80 0.0017 20.6 2.7 31 39-71 44-74 (79)
54 TIGR00409 proS_fam_II prolyl-t 25.2 44 0.00095 30.9 1.7 33 25-58 489-521 (568)
55 PRK08661 prolyl-tRNA synthetas 25.1 73 0.0016 28.7 3.1 61 11-77 287-354 (477)
56 TIGR03371 cellulose_yhjQ cellu 24.9 3.4E+02 0.0073 21.2 10.1 33 42-79 117-149 (246)
57 PF03720 UDPG_MGDP_dh_C: UDP-g 24.5 77 0.0017 22.1 2.6 54 21-75 12-75 (106)
58 TIGR00408 proS_fam_I prolyl-tR 24.4 44 0.00095 30.1 1.6 60 12-77 283-348 (472)
59 cd01857 HSR1_MMR1 HSR1/MMR1. 23.8 2.8E+02 0.0061 19.9 5.7 24 59-82 4-27 (141)
60 TIGR00334 5S_RNA_mat_M5 ribonu 23.6 1.5E+02 0.0034 23.1 4.3 43 25-70 35-77 (174)
61 PRK11784 tRNA 2-selenouridine 23.6 4.8E+02 0.01 22.5 9.2 105 23-148 191-298 (345)
62 COG4916 Uncharacterized protei 23.0 1.1E+02 0.0024 25.7 3.5 99 9-111 4-107 (329)
63 PF13289 SIR2_2: SIR2-like dom 23.0 2.2E+02 0.0047 20.1 4.8 6 15-20 91-96 (143)
64 cd01241 PH_Akt Akt pleckstrin 22.4 76 0.0016 22.0 2.2 17 134-150 86-102 (102)
65 COG0710 AroD 3-dehydroquinate 22.3 3.4E+02 0.0075 22.1 6.2 68 26-99 79-146 (231)
66 COG2342 Predicted extracellula 22.0 1.7E+02 0.0036 24.9 4.4 45 58-108 33-80 (300)
67 COG0576 GrpE Molecular chapero 21.7 2.2E+02 0.0047 22.5 4.8 46 28-79 124-176 (193)
68 PRK02228 V-type ATP synthase s 21.4 2.3E+02 0.0051 19.6 4.5 42 34-80 14-56 (100)
69 PF09441 Abp2: ARS binding pro 21.2 30 0.00064 26.8 -0.2 58 81-147 54-111 (175)
70 PF03358 FMN_red: NADPH-depend 21.0 2.8E+02 0.006 20.0 5.1 55 25-81 17-84 (152)
71 TIGR02742 TrbC_Ftype type-F co 21.0 2.8E+02 0.0061 20.5 5.0 35 14-54 3-37 (130)
72 PF00350 Dynamin_N: Dynamin fa 21.0 3.3E+02 0.0072 19.7 5.8 46 58-106 120-165 (168)
73 smart00175 RAB Rab subfamily o 21.0 3.2E+02 0.0068 19.4 9.3 40 52-94 57-97 (164)
74 PLN03194 putative disease resi 20.9 4.3E+02 0.0093 20.9 6.5 64 39-106 25-88 (187)
75 PRK03991 threonyl-tRNA synthet 20.9 1E+02 0.0022 28.9 3.2 57 12-75 500-557 (613)
76 cd01423 MGS_CPS_I_III Methylgl 20.8 3E+02 0.0066 19.2 6.1 29 14-45 3-31 (116)
77 TIGR02497 yscI_hrpB_dom type I 20.5 90 0.002 18.2 1.8 21 162-182 16-36 (39)
78 PF10443 RNA12: RNA12 protein; 20.1 1.9E+02 0.0041 26.0 4.6 23 108-130 372-394 (431)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1.6e-51 Score=320.36 Aligned_cols=159 Identities=31% Similarity=0.523 Sum_probs=145.5
Q ss_pred CCCCCCcccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhH
Q 036133 5 SSSSSCNYDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWC 84 (182)
Q Consensus 5 ss~~~~~ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc 84 (182)
||+..++|||||||+|+|+|++|++||+.+|++ .||++|+|+.++.+|+.+.+.|.+||++|+++|+||||+|++|+||
T Consensus 20 ~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~-~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WC 98 (187)
T PLN03194 20 SSSSAKPCDVFINHRGIDTKRTIATLLYDHLSR-LNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFC 98 (187)
T ss_pred CCCCCCCCcEEEeCCCccccccHHHHHHHHHHH-CCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhH
Confidence 444468899999999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhcCCceEEeEEeecCCcccccc-cCchHhHHHHHHhhhccChHHHHHHHHHHHhccccccceeCC-CCC
Q 036133 85 LNELVKILECKHTNGQIVIPVFYSVSPSDVRHQ-TGSFGHGFDQLKQQFKEKPEMVQKWRGALIETSHLAGHESTK-FRH 162 (182)
Q Consensus 85 ~~EL~~i~~~~~~~~~~viPIfy~v~p~~vr~q-~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~~v~~~~G~~~~~-~~~ 162 (182)
++||++|+++. ..||||||+|+|++||+| .|. .+.+++++||.||++|++++||++.. .++
T Consensus 99 LdEL~~I~e~~----~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~~~~~~ 161 (187)
T PLN03194 99 LHELALIMESK----KRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFDSLKGN 161 (187)
T ss_pred HHHHHHHHHcC----CEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCCCCCCC
Confidence 99999999874 379999999999999997 442 23689999999999999999999875 467
Q ss_pred hHHHHHHHHHHHHHHhccc
Q 036133 163 DAQLVSKIVEDVLKKMEKI 181 (182)
Q Consensus 163 e~~~i~~Iv~~v~~~l~~~ 181 (182)
|+++|++||++|.++|-.+
T Consensus 162 e~e~i~~iv~~v~k~l~~~ 180 (187)
T PLN03194 162 WSEVVTMASDAVIKNLIEL 180 (187)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999999999999998543
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=1.3e-50 Score=389.46 Aligned_cols=176 Identities=44% Similarity=0.801 Sum_probs=167.5
Q ss_pred CCCCCC-CCCCcccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCcc
Q 036133 1 MAASSS-SSSCNYDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYA 79 (182)
Q Consensus 1 m~s~ss-~~~~~ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~ 79 (182)
|||||| ++.++|||||||||+|+|++|++||+.+|.+ +||++|.|+ ++++|+.+.+++.+||++|+++|||||++|+
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 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDR-KLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYA 78 (1153)
T ss_pred CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHH-CCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEecCCcc
Confidence 777655 4589999999999999999999999999999 999999987 5999999999999999999999999999999
Q ss_pred CChhHHHHHHHHHHhhhcCCceEEeEEeecCCcccccccCchHhHHHHHHhhhccChHHHHHHHHHHHhccccccceeCC
Q 036133 80 SSKWCLNELVKILECKHTNGQIVIPVFYSVSPSDVRHQTGSFGHGFDQLKQQFKEKPEMVQKWRGALIETSHLAGHESTK 159 (182)
Q Consensus 80 ~S~wc~~EL~~i~~~~~~~~~~viPIfy~v~p~~vr~q~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~~v~~~~G~~~~~ 159 (182)
+|.||++||++|++|+++.+++|+||||+|+|++||+|+|.||++|.+++++ .+++++++||+||++|++++||++.+
T Consensus 79 ~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~--~~~~~~~~w~~al~~~~~~~g~~~~~ 156 (1153)
T PLN03210 79 SSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQN--KTEDEKIQWKQALTDVANILGYHSQN 156 (1153)
T ss_pred cchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcc--cchhHHHHHHHHHHHHhCcCceecCC
Confidence 9999999999999999999999999999999999999999999999999875 35789999999999999999999999
Q ss_pred CCChHHHHHHHHHHHHHHhcc
Q 036133 160 FRHDAQLVSKIVEDVLKKMEK 180 (182)
Q Consensus 160 ~~~e~~~i~~Iv~~v~~~l~~ 180 (182)
+.+|+++|++||++|.++|+.
T Consensus 157 ~~~E~~~i~~Iv~~v~~~l~~ 177 (1153)
T PLN03210 157 WPNEAKMIEEIANDVLGKLNL 177 (1153)
T ss_pred CCCHHHHHHHHHHHHHHhhcc
Confidence 999999999999999999974
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=4.8e-29 Score=187.92 Aligned_cols=133 Identities=35% Similarity=0.583 Sum_probs=118.3
Q ss_pred EEEecccccCccchHHHHHHHHhhcC--CcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHH
Q 036133 14 VFLSFRGEDTRVSFTCHLYYNLNERT--KIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKI 91 (182)
Q Consensus 14 VFIS~~~~D~~~~fv~~L~~~L~~~~--gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i 91 (182)
|||||++.+++..|+.+|.++|++ . |+++|++++|+.+|..+.+++.++|++|+++|+|+|++|+.|+||+.||..+
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~-~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a 79 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEE-RPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEA 79 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHC-TSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHh-CCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhh
Confidence 899999944467899999999999 7 9999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhcCC--ceEEeEEeecCCcccc-cccCchHhHHHHHHhhhccC--hHHHHHHHHHHH
Q 036133 92 LECKHTNG--QIVIPVFYSVSPSDVR-HQTGSFGHGFDQLKQQFKEK--PEMVQKWRGALI 147 (182)
Q Consensus 92 ~~~~~~~~--~~viPIfy~v~p~~vr-~q~g~f~~~f~~~~~~~~~~--~~~v~~W~~aL~ 147 (182)
+++..+.+ ..|+||||++.+++++ .+.+.|+..|..+....+.+ ......|++++.
T Consensus 80 ~~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 80 LERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 99976644 7999999999999999 79999999998888776544 578999999875
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.93 E-value=1.4e-25 Score=167.51 Aligned_cols=137 Identities=41% Similarity=0.671 Sum_probs=115.6
Q ss_pred cccEEEeccc-ccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHH
Q 036133 11 NYDVFLSFRG-EDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELV 89 (182)
Q Consensus 11 ~ydVFIS~~~-~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~ 89 (182)
.|||||||++ .+....|+.+|...|.. .|+.+|.|+.. +|.....+|.++|++|++.|+|+||+|..|+||..|+.
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~-~~~~v~~d~~~--~~~~~~~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~ 77 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRG-YGLCVFIDDFE--PGGGDLEEIDEAIEKSRIAIVVLSPNYAESEWCLDELV 77 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhc-CCcEEEecCcc--cccchHHHHHHHHHHCcEEEEEECcccccChhHHHHHH
Confidence 4999999999 45567899999999999 99999999753 33333339999999999999999999999999999999
Q ss_pred HHHHhhhc-CCceEEeEEeecCCcccccccCchHhHHHHHHhhhccChHHHHHHHHHHHhccc
Q 036133 90 KILECKHT-NGQIVIPVFYSVSPSDVRHQTGSFGHGFDQLKQQFKEKPEMVQKWRGALIETSH 151 (182)
Q Consensus 90 ~i~~~~~~-~~~~viPIfy~v~p~~vr~q~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~~v~~ 151 (182)
.++++..+ .+.+||||+++..|.++.++.+.++..+..+......+..+ +.|+.++..+++
T Consensus 78 ~a~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 78 AALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 99998654 67799999999999999999999999998875555544444 789999987754
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.76 E-value=5.2e-19 Score=125.72 Aligned_cols=87 Identities=32% Similarity=0.573 Sum_probs=75.3
Q ss_pred EEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHH
Q 036133 14 VFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILE 93 (182)
Q Consensus 14 VFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~ 93 (182)
|||||++.| ..++..|...|+. .|+++|+|. ++.+|+.+.+.+.++|++|+..|+++|++|..|+||..|+..+.+
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--REFAERLAERLES-AGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK 76 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHH-TT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC
T ss_pred eEEEecCCc--HHHHHHHHHHHhh-cCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH
Confidence 899999999 4689999999999 999999997 899999999999999999999999999999999999999999944
Q ss_pred hhhcCCceEEeEEee
Q 036133 94 CKHTNGQIVIPVFYS 108 (182)
Q Consensus 94 ~~~~~~~~viPIfy~ 108 (182)
.+..||||.++
T Consensus 77 ----~~~~iipv~~~ 87 (102)
T PF13676_consen 77 ----RGKPIIPVRLD 87 (102)
T ss_dssp ----TSESEEEEECS
T ss_pred ----CCCEEEEEEEC
Confidence 44589999954
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.12 E-value=2.8e-10 Score=99.88 Aligned_cols=141 Identities=21% Similarity=0.371 Sum_probs=98.3
Q ss_pred CCcccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCcc----C----
Q 036133 9 SCNYDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYA----S---- 80 (182)
Q Consensus 9 ~~~ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~----~---- 80 (182)
++..|||||||+.. ....++-|.-.|.- +|++||+|-+.+..|. +.+.+.+.|...+.+|+|+|||.. +
T Consensus 610 skq~DVFISYRRst-GnQLASLiKV~LQL-~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 610 SKQIDVFISYRRST-GNQLASLIKVLLQL-RGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred cCCcceEEEeeccc-cHHHHHHHHHHHHh-cCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 57899999998765 46788888888999 9999999998898886 456899999999999999999964 3
Q ss_pred ChhHHHHHHHHHHhhhcCCceEEeEEeecCCcccccccCchHhHHHHHHhhhccChHHHHHHHHHHHhccccccceeCCC
Q 036133 81 SKWCLNELVKILECKHTNGQIVIPVFYSVSPSDVRHQTGSFGHGFDQLKQQFKEKPEMVQKWRGALIETSHLAGHESTKF 160 (182)
Q Consensus 81 S~wc~~EL~~i~~~~~~~~~~viPIfy~v~p~~vr~q~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~~v~~~~G~~~~~~ 160 (182)
-.|...||..+.+|.+ .|||||-. .|. |-.-+.-.++|... |..+.|.... +
T Consensus 687 eDWVHKEl~~Afe~~K----NIiPI~D~-----------aFE--~Pt~ed~iPnDirm----------i~kyNGvKWv-H 738 (832)
T KOG3678|consen 687 EDWVHKELKCAFEHQK----NIIPIFDT-----------AFE--FPTKEDQIPNDIRM----------ITKYNGVKWV-H 738 (832)
T ss_pred HHHHHHHHHHHHHhcC----Ceeeeecc-----------ccc--CCCchhcCcHHHHH----------HHhccCeeee-h
Confidence 3566667777766654 79999832 111 00000001111122 3344554433 2
Q ss_pred CChHHHHHHHHHHHHHHhcc
Q 036133 161 RHDAQLVSKIVEDVLKKMEK 180 (182)
Q Consensus 161 ~~e~~~i~~Iv~~v~~~l~~ 180 (182)
+++...+.|||+-+...+|+
T Consensus 739 dYQdA~maKvvRFitGe~nR 758 (832)
T KOG3678|consen 739 DYQDACMAKVVRFITGELNR 758 (832)
T ss_pred hhHHHHHHHHHHHHhccccC
Confidence 35667899999988888775
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=98.57 E-value=1.8e-07 Score=69.45 Aligned_cols=91 Identities=22% Similarity=0.366 Sum_probs=48.0
Q ss_pred ccEEEecccccCccchHHHHHHHHhhcCC-------cce----------EeeCccccCCCcchHHHHHHhhcCceEEEEe
Q 036133 12 YDVFLSFRGEDTRVSFTCHLYYNLNERTK-------IKT----------FIDDEEVRRGDEISPALLNAIEGSKISVVIF 74 (182)
Q Consensus 12 ydVFIS~~~~D~~~~fv~~L~~~L~~~~g-------i~~----------f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~ 74 (182)
|+|||||++.|.. ..+..|...+.. .+ +.. +-+..+....+.+...|.++|.+|.++||++
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLi 78 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLEN-SYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLI 78 (130)
T ss_dssp ----------THH--HHHHHHHHHHH--------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE-
T ss_pred CCccccccccCcH-HHHHHHHHHhcc-ccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEe
Confidence 5799999998853 356777777766 21 111 1122222344578889999999999999999
Q ss_pred ecCccCChhHHHHHHHHHHhhhcCCceEEeEEee
Q 036133 75 SKDYASSKWCLNELVKILECKHTNGQIVIPVFYS 108 (182)
Q Consensus 75 S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIfy~ 108 (182)
|++...|.|+..|+..+++. +..||.|.+.
T Consensus 79 g~~T~~s~wV~~EI~~A~~~----~~~Ii~V~~~ 108 (130)
T PF08937_consen 79 GPNTAKSKWVNWEIEYALKK----GKPIIGVYLP 108 (130)
T ss_dssp -TT----HHHHHHHHHHTTT-------EEEEETT
T ss_pred CCCcccCcHHHHHHHHHHHC----CCCEEEEECC
Confidence 99999999999999998873 4478887753
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=97.88 E-value=9.3e-05 Score=55.78 Aligned_cols=65 Identities=17% Similarity=0.264 Sum_probs=52.6
Q ss_pred cEEEecccccCc-cchHHHHHHHHhhcC-CcceEeeCccccC--CCcchHHHHHHhhcCceEEEEeecCc
Q 036133 13 DVFLSFRGEDTR-VSFTCHLYYNLNERT-KIKTFIDDEEVRR--GDEISPALLNAIEGSKISVVIFSKDY 78 (182)
Q Consensus 13 dVFIS~~~~D~~-~~fv~~L~~~L~~~~-gi~~f~d~~~~~~--G~~i~~~i~~aI~~S~~~Ivv~S~~y 78 (182)
.|||||+..... ...|..|...|++ . |+.|.+|..+... +..+..=+.+.+++++..|+|+||.+
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 KVFISYSHDSEEHKEWVLALAEFLRQ-NCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHh-ccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 499999985433 3568899999999 7 9999999877743 66666677888999999999999544
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=97.03 E-value=0.0026 Score=47.18 Aligned_cols=78 Identities=19% Similarity=0.239 Sum_probs=61.8
Q ss_pred cEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCc-c------------
Q 036133 13 DVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDY-A------------ 79 (182)
Q Consensus 13 dVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y-~------------ 79 (182)
.|||.|+ .| ...+..+...|+. .|+.+.+-......|..+.+.+.+.+.+++.+|++++|+= .
T Consensus 1 kVFIvhg-~~--~~~~~~v~~~L~~-~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~ 76 (125)
T PF10137_consen 1 KVFIVHG-RD--LAAAEAVERFLEK-LGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPR 76 (125)
T ss_pred CEEEEeC-CC--HHHHHHHHHHHHh-CCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCccccccc
Confidence 3899998 55 2567889999998 8998877666679999999999999999999999999852 1
Q ss_pred CChhHHHHHHHHHHh
Q 036133 80 SSKWCLNELVKILEC 94 (182)
Q Consensus 80 ~S~wc~~EL~~i~~~ 94 (182)
.....+.|+..++..
T Consensus 77 aR~NVifE~G~f~g~ 91 (125)
T PF10137_consen 77 ARQNVIFELGLFIGK 91 (125)
T ss_pred cccceeehhhHHHhh
Confidence 223356687777765
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=92.77 E-value=0.41 Score=32.47 Aligned_cols=66 Identities=15% Similarity=0.125 Sum_probs=45.8
Q ss_pred cEEEecccccCccchHHHHHHHHhhcCCcceEeeCccc-cCCCcchHHHHHHhhcCceEEEEeecCccCC
Q 036133 13 DVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEV-RRGDEISPALLNAIEGSKISVVIFSKDYASS 81 (182)
Q Consensus 13 dVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~-~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S 81 (182)
.||||-.-.|-. .--..|...|.+ .|.....-+. + ..+....+.+.+.|++|++.|.++-..|-..
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~-~~~~~~~~e~-~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRR-LGCEPVGMEF-FPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHH-CCCeeeeeee-ecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 389997666642 224567777777 7765543322 3 2345556688899999999999999999754
No 11
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=90.55 E-value=0.49 Score=39.32 Aligned_cols=102 Identities=15% Similarity=0.076 Sum_probs=67.8
Q ss_pred CCCcccEEEecccccCccchHHHHHHHHhhc-CCcceEeeCc---cccCCCcchHHHHHHh-hcCceEEEEeecCccCCh
Q 036133 8 SSCNYDVFLSFRGEDTRVSFTCHLYYNLNER-TKIKTFIDDE---EVRRGDEISPALLNAI-EGSKISVVIFSKDYASSK 82 (182)
Q Consensus 8 ~~~~ydVFIS~~~~D~~~~fv~~L~~~L~~~-~gi~~f~d~~---~~~~G~~i~~~i~~aI-~~S~~~Ivv~S~~y~~S~ 82 (182)
+.+.||+=+||.|+- ++.|.....+++.. -.+..|+|.. -+.+|+ +.+-+...- ..|+..+|....+|....
T Consensus 174 ~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~~~L~~~Y~~rC~~~~VF~~~~Y~~K~ 250 (329)
T COG4916 174 SEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LVSTLDPGYDIRCVVTTVFNTGSYICKS 250 (329)
T ss_pred cccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-HHHhcccccCceEEEEEEEeCCceEEee
Confidence 368899999999986 47899998889842 4567788742 233443 222222222 368888888999999999
Q ss_pred hHHHHHHHHHHhhhcCCceEEeEEe-ecCCccc
Q 036133 83 WCLNELVKILECKHTNGQIVIPVFY-SVSPSDV 114 (182)
Q Consensus 83 wc~~EL~~i~~~~~~~~~~viPIfy-~v~p~~v 114 (182)
||.-|-..+-... .-+...||.| +++-+.+
T Consensus 251 ~c~~E~~~~r~~~--~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 251 TCHIEGLEGRLNP--ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred eeccchhhccccc--cccccceEEEEecCCccc
Confidence 9999876654431 1235667766 3554444
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=84.46 E-value=9.3 Score=27.02 Aligned_cols=69 Identities=12% Similarity=0.022 Sum_probs=48.4
Q ss_pred cchHHHHHHHHhhcCCcceEeeCcc-cc---CCCcch----HHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhh
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDDEE-VR---RGDEIS----PALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECK 95 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~~~-~~---~G~~i~----~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~ 95 (182)
..+...+.+.|+. .|+.+|...+. .. .+.... ..-.++|++|++.|+++.+.- .+.=+..|+..+....
T Consensus 13 ~~~~~~~~~~L~~-~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 13 KARVERLREALEK-NGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHT-TTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHh-CCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 5678899999999 99988876521 11 122333 334468999999999998755 5666788998887654
No 13
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=80.13 E-value=13 Score=23.86 Aligned_cols=62 Identities=23% Similarity=0.256 Sum_probs=40.4
Q ss_pred HHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEE
Q 036133 28 TCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVI 103 (182)
Q Consensus 28 v~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~vi 103 (182)
..-|+..|++ .|+.+-.... ...++....-++++++|.+.-+. -.++..+.+..+.+++.||
T Consensus 7 ~~a~~~~L~~-~g~~v~~~~~-----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 7 TYALYQLLEE-QGVKVERWRK-----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHH-CCCeeEEecc-----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 3568888999 8988854332 12244558889999999966553 3555566665566666554
No 14
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=78.98 E-value=5.9 Score=31.79 Aligned_cols=77 Identities=18% Similarity=0.170 Sum_probs=55.6
Q ss_pred cEEEecccccCccchHHHHHHHHhhcCC-cceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCcc--------CChh
Q 036133 13 DVFLSFRGEDTRVSFTCHLYYNLNERTK-IKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYA--------SSKW 83 (182)
Q Consensus 13 dVFIS~~~~D~~~~fv~~L~~~L~~~~g-i~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~--------~S~w 83 (182)
.|||-|+++- .+.....+|.++.. -.+|.|. -+..|..+.+.+.+-|.+++.+|++.+|+=. +-.|
T Consensus 84 kvFvv~ghd~----iArael~allrd~~l~~vi~d~-~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~ 158 (233)
T COG4271 84 KVFVVSGHDA----IARAELEALLRDWKLEPVILDG-LFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAF 158 (233)
T ss_pred eEEEEeccHH----HHHHHHHHHhhccccceEEecC-cccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhcc
Confidence 8999986543 56565566664344 4566665 4788999999999999999999999999843 1223
Q ss_pred ------HHHHHHHHHHh
Q 036133 84 ------CLNELVKILEC 94 (182)
Q Consensus 84 ------c~~EL~~i~~~ 94 (182)
...||..++.+
T Consensus 159 praRqNVifELGm~mgr 175 (233)
T COG4271 159 PRARQNVIFELGMFMGR 175 (233)
T ss_pred ccccccchhhHhhHHhh
Confidence 45677777765
No 15
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=71.55 E-value=51 Score=26.39 Aligned_cols=156 Identities=17% Similarity=0.188 Sum_probs=81.8
Q ss_pred EEEecccccC--ccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhc-------------------------
Q 036133 14 VFLSFRGEDT--RVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEG------------------------- 66 (182)
Q Consensus 14 VFIS~~~~D~--~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~------------------------- 66 (182)
.||.+-|-|. ..+.+..|.+.|+. .|+.+.+-.+ +.|.++...|.+.+.+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~-~g~~v~~trE--P~~~~ige~iR~~ll~~~~~~~~~~e~lLfaadR~~h~~~~ 80 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEE-RGIKVVLTRE--PGGTPIGEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEV 80 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEeC--CCCChHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHH
Confidence 5888877664 24567889999999 9998877542 2233333333332221
Q ss_pred ----CceEEEEeecCccCChhHHHH--------HHHHHHhhh-cCCceEEeEEeecCCcccccccCch---HhHHHHHHh
Q 036133 67 ----SKISVVIFSKDYASSKWCLNE--------LVKILECKH-TNGQIVIPVFYSVSPSDVRHQTGSF---GHGFDQLKQ 130 (182)
Q Consensus 67 ----S~~~Ivv~S~~y~~S~wc~~E--------L~~i~~~~~-~~~~~viPIfy~v~p~~vr~q~g~f---~~~f~~~~~ 130 (182)
-.-.-+|++..|..|.-+.+- ....+.... .+-.+-+.+|++++|..--...+.- .+.|++-..
T Consensus 81 i~pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~al~R~~~r~~~~~r~E~~~~ 160 (208)
T COG0125 81 IKPALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEVALERIRKRGELRDRFEKEDD 160 (208)
T ss_pred HHHhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHHHHHHHHhcCCccchhhhHHH
Confidence 011247899999998888773 233222221 1223567788899987632211111 123332221
Q ss_pred hhccChHHHHHHHHHHHhcccccc---ceeCCCCChHHHHHHHHHHHHHHh
Q 036133 131 QFKEKPEMVQKWRGALIETSHLAG---HESTKFRHDAQLVSKIVEDVLKKM 178 (182)
Q Consensus 131 ~~~~~~~~v~~W~~aL~~v~~~~G---~~~~~~~~e~~~i~~Iv~~v~~~l 178 (182)
+-.++=+....+++.... ..++...+-.++.+.|.+.+...+
T Consensus 161 ------~f~~kvr~~Y~~la~~~~~r~~vIda~~~~e~v~~~i~~~l~~~l 205 (208)
T COG0125 161 ------EFLEKVREGYLELAAKFPERIIVIDASRPLEEVHEEILKILKERL 205 (208)
T ss_pred ------HHHHHHHHHHHHHHhhCCCeEEEEECCCCHHHHHHHHHHHHHHhh
Confidence 113333444444554444 344555554555555555555544
No 16
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=69.06 E-value=22 Score=23.40 Aligned_cols=56 Identities=11% Similarity=0.169 Sum_probs=35.9
Q ss_pred ccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhh-cCceEEEE
Q 036133 12 YDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIE-GSKISVVI 73 (182)
Q Consensus 12 ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~-~S~~~Ivv 73 (182)
++|+|...+++. ...+-.+...|++ .|+++-+|.+. ..+...+..|-. +....|+|
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~-~g~~v~~d~~~----~~~~~~~~~a~~~g~~~~iii 58 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSD-AGIRVEVDLRN----EKLGKKIREAQLQKIPYILVV 58 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHH-CCCEEEEECCC----CCHHHHHHHHHHcCCCEEEEE
Confidence 677777655443 3457889999999 99999998643 344455555533 33344443
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=60.78 E-value=28 Score=23.28 Aligned_cols=47 Identities=15% Similarity=0.247 Sum_probs=31.6
Q ss_pred cchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeec
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSK 76 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~ 76 (182)
..++.+|...|.+ .||++.+|..+ ..+...+..|-..---.++|+.+
T Consensus 15 ~~~a~~l~~~L~~-~gi~v~~d~~~----~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRK-AGIRVELDDSD----KSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHH-TTSEEEEESSS----STHHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHHHHHHH-CCCEEEEECCC----CchhHHHHHHhhcCCeEEEEECc
Confidence 4578999999999 99999999754 44445666664433334444443
No 18
>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=54.72 E-value=49 Score=21.73 Aligned_cols=59 Identities=17% Similarity=0.159 Sum_probs=37.1
Q ss_pred ccEEEecccc---cCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeec
Q 036133 12 YDVFLSFRGE---DTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSK 76 (182)
Q Consensus 12 ydVFIS~~~~---D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~ 76 (182)
++|+|-.-+. . ....+-.+...|+. .|+.+-+|.. +..+...+..|-..---.++++.+
T Consensus 2 ~~v~ii~~~~~~~~-~~~~a~~~~~~Lr~-~g~~v~~~~~----~~~~~k~~~~a~~~g~~~~iiig~ 63 (94)
T cd00738 2 IDVAIVPLTDPRVE-AREYAQKLLNALLA-NGIRVLYDDR----ERKIGKKFREADLRGVPFAVVVGE 63 (94)
T ss_pred eEEEEEECCCCcHH-HHHHHHHHHHHHHH-CCCEEEecCC----CcCHhHHHHHHHhCCCCEEEEECC
Confidence 5666665433 2 23567788999999 9999998764 345555555554433345666665
No 19
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=50.24 E-value=11 Score=27.77 Aligned_cols=32 Identities=13% Similarity=0.057 Sum_probs=25.4
Q ss_pred cchHHHHHHHHhhcCCcceEeeCccc---cCCCcch
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDDEEV---RRGDEIS 57 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~~~~---~~G~~i~ 57 (182)
...+..|+..|+. .|+.+++|+++- .+|..+.
T Consensus 43 ~~~a~~l~~~L~~-~gi~v~~D~r~~~~~~~G~k~~ 77 (128)
T cd02426 43 RDLCQGLKNELRE-AGLSVWPGYLETQHSSLEQLLD 77 (128)
T ss_pred HHHHHHHHHHHHH-cCCEEEeccCcccccCHHHHHH
Confidence 4667899999999 999999998754 5665554
No 20
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=49.49 E-value=16 Score=30.57 Aligned_cols=30 Identities=33% Similarity=0.544 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHhh----hcCCceEEeEEeecCCc
Q 036133 83 WCLNELVKILECK----HTNGQIVIPVFYSVSPS 112 (182)
Q Consensus 83 wc~~EL~~i~~~~----~~~~~~viPIfy~v~p~ 112 (182)
=|-+||.++.... ...+..++|||.-++|.
T Consensus 154 ICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 154 ICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred cChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 4899998877653 23566778999999994
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=49.35 E-value=80 Score=21.30 Aligned_cols=62 Identities=10% Similarity=0.105 Sum_probs=38.6
Q ss_pred EEEecccccCccchHHHHHHHHhhcCCcceEeeCccc---------cCCCcchHHHHHHhhcCceEEEEeecCc
Q 036133 14 VFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEV---------RRGDEISPALLNAIEGSKISVVIFSKDY 78 (182)
Q Consensus 14 VFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~---------~~G~~i~~~i~~aI~~S~~~Ivv~S~~y 78 (182)
+|.|..|--.+-.++.+|...|.+ .|.++.+-+-+. .++ +.+....++..|+..|+++.++.
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~-~~~~vl~~d~d~~~d~viiD~p~~--~~~~~~~~l~~ad~viv~~~~~~ 73 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALAR-RGKRVLLIDLDPQYDYIIIDTPPS--LGLLTRNALAAADLVLIPVQPSP 73 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHh-CCCcEEEEeCCCCCCEEEEeCcCC--CCHHHHHHHHHCCEEEEeccCCH
Confidence 356665544445667899999998 898877654332 222 23334466677777777766654
No 22
>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=47.84 E-value=61 Score=23.10 Aligned_cols=60 Identities=17% Similarity=0.030 Sum_probs=38.5
Q ss_pred cccEEEeccc--ccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecC
Q 036133 11 NYDVFLSFRG--EDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKD 77 (182)
Q Consensus 11 ~ydVFIS~~~--~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~ 77 (182)
.+||||-.-+ ++ ....+..|...|++ .|+++-+|.+ ..+...+..|-+.---.++++.++
T Consensus 26 p~~v~Ii~~~~~~~-~~~~a~~la~~LR~-~gi~v~~d~~-----~sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 26 PIKVAVLPLVKRDE-LVEIAKEISEELRE-LGFSVKYDDS-----GSIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred CcEEEEEecCCcHH-HHHHHHHHHHHHHH-CCCEEEEeCC-----CCHHHHHHHhHhcCCCEEEEECcC
Confidence 4788887755 32 23456789999999 9999999863 344555555544333355555544
No 23
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=44.84 E-value=17 Score=26.93 Aligned_cols=33 Identities=30% Similarity=0.484 Sum_probs=19.7
Q ss_pred hHHHHHHhhcCceEEEEeecCccCChhHHHHHHHH
Q 036133 57 SPALLNAIEGSKISVVIFSKDYASSKWCLNELVKI 91 (182)
Q Consensus 57 ~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i 91 (182)
...+.++|..-.-.|++.+..|-++ |+.||...
T Consensus 61 ~~~L~~~i~~~~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 61 IEALIKAIGSIYGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHHHHHHhhhhcCeEEEechHHHHH--HHHHHHHH
Confidence 3344444444435777777776654 77777666
No 24
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=44.40 E-value=26 Score=32.27 Aligned_cols=63 Identities=19% Similarity=0.332 Sum_probs=40.3
Q ss_pred CcccEEEeccc--ccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecC
Q 036133 10 CNYDVFLSFRG--EDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKD 77 (182)
Q Consensus 10 ~~ydVFIS~~~--~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~ 77 (182)
-.|+|+|---+ .+.-...+..|+..|+. .||++.+|+++-.+|..+.+.- ..+.. .++++.++
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~-~gi~v~~Ddr~~~~g~k~~~ad---~~GiP-~~iiiG~~ 531 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQA-AGIEVLLDDRKERPGVKFADAD---LIGIP-HRIVVGDR 531 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhc-cCCeEEEECCCCCHHHHHHHHH---hcCCC-EEEEEcCc
Confidence 34888887543 12224568889999999 9999999998666665544322 23333 44455544
No 25
>COG0400 Predicted esterase [General function prediction only]
Probab=40.29 E-value=84 Score=25.09 Aligned_cols=54 Identities=22% Similarity=0.215 Sum_probs=41.9
Q ss_pred CCcccEEEecccccC--ccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhh
Q 036133 9 SCNYDVFLSFRGEDT--RVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIE 65 (182)
Q Consensus 9 ~~~ydVFIS~~~~D~--~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~ 65 (182)
....-|||+|-..|. ......+|.+.|+. .|..+.... ...|-.+.++-.++++
T Consensus 144 ~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~-~g~~v~~~~--~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 144 LAGTPILLSHGTEDPVVPLALAEALAEYLTA-SGADVEVRW--HEGGHEIPPEELEAAR 199 (207)
T ss_pred cCCCeEEEeccCcCCccCHHHHHHHHHHHHH-cCCCEEEEE--ecCCCcCCHHHHHHHH
Confidence 566889999988886 45667899999999 999998875 4477777765555544
No 26
>PRK10236 hypothetical protein; Provisional
Probab=37.70 E-value=46 Score=27.37 Aligned_cols=39 Identities=23% Similarity=0.367 Sum_probs=33.9
Q ss_pred HHHHHHHhccccccceeCCCCC----hHHHHHHHHHHHHHHhc
Q 036133 141 KWRGALIETSHLAGHESTKFRH----DAQLVSKIVEDVLKKME 179 (182)
Q Consensus 141 ~W~~aL~~v~~~~G~~~~~~~~----e~~~i~~Iv~~v~~~l~ 179 (182)
.||+.|..|++.-+-.+++..+ |.+++.+|.++..++|+
T Consensus 88 ~YreIL~DVc~~LKV~y~~~~st~~iE~~il~kll~~a~~kms 130 (237)
T PRK10236 88 LYRAILLDVSKRLKLKADKEMSTFEIEQQLLEQFLRNTWKKMD 130 (237)
T ss_pred cHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHCC
Confidence 8999999999999988876533 78899999999999885
No 27
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=37.18 E-value=91 Score=27.38 Aligned_cols=56 Identities=29% Similarity=0.511 Sum_probs=38.9
Q ss_pred cccCCCcchHHHHHHhhcCceEEEEeecCcc----CChhHHH--HHHHHHHhhhcCCceEEeEEe
Q 036133 49 EVRRGDEISPALLNAIEGSKISVVIFSKDYA----SSKWCLN--ELVKILECKHTNGQIVIPVFY 107 (182)
Q Consensus 49 ~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~----~S~wc~~--EL~~i~~~~~~~~~~viPIfy 107 (182)
++.|...+.. ..|..+|--++|--..|+ .|..|.+ =|.+.++|-..+|.++||||-
T Consensus 180 nmTpDrHLGa---A~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 180 NMTPDRHLGA---AWIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred cCCcccccch---hhhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeee
Confidence 4444444442 236677777776666676 5888965 467778888889999999994
No 28
>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=37.09 E-value=2.5e+02 Score=23.50 Aligned_cols=136 Identities=13% Similarity=0.195 Sum_probs=78.6
Q ss_pred CcccEEEecccccCccchHHHHHHHHhhcCCcceEee------CccccCCCcchHHHHHH-------hhcCceEE----E
Q 036133 10 CNYDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFID------DEEVRRGDEISPALLNA-------IEGSKISV----V 72 (182)
Q Consensus 10 ~~ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d------~~~~~~G~~i~~~i~~a-------I~~S~~~I----v 72 (182)
...|.++ |-.++. ..|..+| ..|.+ .|++.++. .++++|+-+-..++.+. +..-++.. +
T Consensus 46 ~~Vd~iV-FWTKnp-~P~l~~L-~~l~~-~gy~~yfq~Tit~Y~~~lEp~vP~~~~~i~~f~~Ls~~iG~~rViWRYDPI 121 (266)
T PF08902_consen 46 EDVDCIV-FWTKNP-APFLPYL-DELDE-RGYPYYFQFTITGYGKDLEPNVPPKDERIETFRELSERIGPERVIWRYDPI 121 (266)
T ss_pred hcceEEE-EecCCc-HHHHhhH-HHHHh-CCCceEEEEEeCCCCccccCCCCCHHHHHHHHHHHHHHHCCCcEEEecCCE
Confidence 3445544 545654 3577666 46777 89988876 55688886444333332 22222221 4
Q ss_pred EeecCccCChhHHHHHHHHHHhhhcCCceEEeEEeecCCcccccccCchHhHHHHHHhhh-ccChHHHHHHHHHHHhccc
Q 036133 73 IFSKDYASSKWCLNELVKILECKHTNGQIVIPVFYSVSPSDVRHQTGSFGHGFDQLKQQF-KEKPEMVQKWRGALIETSH 151 (182)
Q Consensus 73 v~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIfy~v~p~~vr~q~g~f~~~f~~~~~~~-~~~~~~v~~W~~aL~~v~~ 151 (182)
++|..|.- .|-++.+..+.+.......+++-=|.+..+.--++ |..+.-.. .-+++....--..|.++|.
T Consensus 122 il~~~~~~-~~h~~~F~~la~~L~g~t~~~viSF~D~Y~k~~~~--------l~~~~~~~~~~~~~~~~~l~~~l~~ia~ 192 (266)
T PF08902_consen 122 ILTDKYTV-DYHLEAFERLAEALAGYTDRCVISFLDLYRKVRRN--------LARLGFRIREPSEEEKRELAKRLAEIAK 192 (266)
T ss_pred eECCCCCH-HHHHHHHHHHHHHHhccCCEEEEEeeeccHHHHHH--------HHhhcCCCCCCCHHHHHHHHHHHHHHHH
Confidence 67777544 67777777777776655667777777664432222 11111000 1235666666777888888
Q ss_pred cccceeC
Q 036133 152 LAGHEST 158 (182)
Q Consensus 152 ~~G~~~~ 158 (182)
--|..+.
T Consensus 193 ~~g~~l~ 199 (266)
T PF08902_consen 193 KYGMTLY 199 (266)
T ss_pred HcCCEEE
Confidence 8887665
No 29
>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=35.59 E-value=96 Score=21.16 Aligned_cols=47 Identities=13% Similarity=0.254 Sum_probs=35.0
Q ss_pred HHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCC
Q 036133 31 LYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASS 81 (182)
Q Consensus 31 L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S 81 (182)
+...++- .|+..+... ...+.+...+.+.++...+.|++++++++..
T Consensus 9 ~v~gFrL-aGv~~~~~~---~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~ 55 (95)
T PF01990_consen 9 TVLGFRL-AGVEGVYVN---TDPEEAEEALKELLKDEDVGIIIITEDLAEK 55 (95)
T ss_dssp HHHHHHH-TTSEEEEES---HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT
T ss_pred HHHHHHH-cCCCCccCC---CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH
Confidence 4456677 899988875 1234555677777889999999999998873
No 30
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=35.01 E-value=48 Score=29.48 Aligned_cols=62 Identities=18% Similarity=0.173 Sum_probs=38.9
Q ss_pred cccEEEeccc--ccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHh-hcCceEEEEeecCc
Q 036133 11 NYDVFLSFRG--EDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAI-EGSKISVVIFSKDY 78 (182)
Q Consensus 11 ~ydVFIS~~~--~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI-~~S~~~Ivv~S~~y 78 (182)
.++|+|---. .+.....+..|...|++ .||++.+|+++-..|.. +..|- .+.. .++|+.++-
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~-~Gi~v~~D~~~~~lg~k----i~~a~~~giP-~~iiVG~~e 409 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSA-AGIDVLYDDTDERPGAK----FATMDLIGLP-WQIIVGPKG 409 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHH-CCCEEEEECCCCCHhHH----HHHHHHcCCC-EEEEECCcc
Confidence 3788776432 22234568889999999 99999999876555544 44442 2333 455555543
No 31
>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=33.38 E-value=1e+02 Score=20.28 Aligned_cols=48 Identities=19% Similarity=0.241 Sum_probs=29.4
Q ss_pred cchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecC
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKD 77 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~ 77 (182)
...+..|...|++ .|+++.+|.+.-..|. .+..|-..---.++++.++
T Consensus 17 ~~~a~~la~~Lr~-~g~~v~~d~~~~~l~k----~i~~a~~~g~~~~iiiG~~ 64 (94)
T cd00861 17 QELAEKLYAELQA-AGVDVLLDDRNERPGV----KFADADLIGIPYRIVVGKK 64 (94)
T ss_pred HHHHHHHHHHHHH-CCCEEEEECCCCCccc----chhHHHhcCCCEEEEECCc
Confidence 3467889999999 9999999875433443 4444433222244444433
No 32
>cd07373 2A5CPDO_A The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO) catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the alpha subunit, which does not contain a potential metal binding site and may not possess catalytic activity.
Probab=32.93 E-value=2.8e+02 Score=22.84 Aligned_cols=78 Identities=13% Similarity=0.076 Sum_probs=53.3
Q ss_pred cchHHHHHHHHhhcCCcceE-eeCcc--ccCCCcchHHHHHHh--hcCceEEEEeecCccCChhHHHHHHHHHHh-hhcC
Q 036133 25 VSFTCHLYYNLNERTKIKTF-IDDEE--VRRGDEISPALLNAI--EGSKISVVIFSKDYASSKWCLNELVKILEC-KHTN 98 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f-~d~~~--~~~G~~i~~~i~~aI--~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~-~~~~ 98 (182)
..++..+.+.|.+ .||.+- .+... +--|-- .+ +.-+ ...++-||.+|.+...+.....+|.+++.. .+..
T Consensus 90 ~eLA~~i~~~~~~-~gi~~~~~~~~~~~lDHG~~-vP--L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~ 165 (271)
T cd07373 90 TALAEACVTACPE-HGVHARGVDYDGFPIDTGTI-TA--CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQ 165 (271)
T ss_pred HHHHHHHHHHHHH-CCCcEEEecCCCCCCcchhH-HH--HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHc
Confidence 5789999999999 999986 66532 334432 21 2223 246788888999887777788899998885 4444
Q ss_pred CceEEeEE
Q 036133 99 GQIVIPVF 106 (182)
Q Consensus 99 ~~~viPIf 106 (182)
+.+|+-|-
T Consensus 166 ~~rV~iIg 173 (271)
T cd07373 166 NKRVAVVG 173 (271)
T ss_pred CCeEEEEE
Confidence 55666553
No 33
>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=32.32 E-value=1.6e+02 Score=20.55 Aligned_cols=56 Identities=16% Similarity=0.189 Sum_probs=31.1
Q ss_pred CCCc-chHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhc---CCceEEeEEeecC
Q 036133 52 RGDE-ISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHT---NGQIVIPVFYSVS 110 (182)
Q Consensus 52 ~G~~-i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~---~~~~viPIfy~v~ 110 (182)
||.. +.......+++++..|++++..-..+ ..++...+..... .+..++.|.-+.|
T Consensus 57 ~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~---~~~~~~~~~~~~~~~~~~~p~ivv~nK~D 116 (159)
T cd00154 57 AGQERFRSITPSYYRGAHGAILVYDITNRES---FENLDKWLKELKEYAPENIPIILVGNKID 116 (159)
T ss_pred CChHHHHHHHHHHhcCCCEEEEEEECCCHHH---HHHHHHHHHHHHHhCCCCCcEEEEEEccc
Confidence 5543 33445567889999999999865433 3333333333222 2345555554444
No 34
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=32.32 E-value=1.7e+02 Score=20.14 Aligned_cols=62 Identities=10% Similarity=-0.039 Sum_probs=40.7
Q ss_pred HHHHHHHhhcCCcceEeeCccc--cCCCcchHH---HHHHhhcCceEEEEeecCccCChhHHHHHHHHHHh
Q 036133 29 CHLYYNLNERTKIKTFIDDEEV--RRGDEISPA---LLNAIEGSKISVVIFSKDYASSKWCLNELVKILEC 94 (182)
Q Consensus 29 ~~L~~~L~~~~gi~~f~d~~~~--~~G~~i~~~---i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~ 94 (182)
......|+. .|..+.-- -.+ ..|.++..- -...+..|+..++ =|+.-.|.=|.-|...+.+.
T Consensus 19 ~~~a~~L~~-~G~~vvnP-a~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~l 85 (92)
T PF14359_consen 19 NAAAKRLRA-KGYEVVNP-AELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKKL 85 (92)
T ss_pred HHHHHHHHH-CCCEEeCc-hhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHHC
Confidence 357778888 99665532 223 455554432 3345667774433 49999999999998888664
No 35
>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=32.09 E-value=1.7e+02 Score=19.96 Aligned_cols=58 Identities=16% Similarity=0.130 Sum_probs=36.0
Q ss_pred hHHHHHHHHhhcCCcceEeeCccccCCCcc-hHHHHHHhhcCceEEEEeecCccCChhHHHH
Q 036133 27 FTCHLYYNLNERTKIKTFIDDEEVRRGDEI-SPALLNAIEGSKISVVIFSKDYASSKWCLNE 87 (182)
Q Consensus 27 fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i-~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~E 87 (182)
....+...+++ .|...-... -..|..- ...+...|.++++.|++.+----...|...+
T Consensus 11 ~~~~~~~~~~~-~G~~~~~hg--~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~ 69 (97)
T PF10087_consen 11 RERRYKRILEK-YGGKLIHHG--RDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKK 69 (97)
T ss_pred cHHHHHHHHHH-cCCEEEEEe--cCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHH
Confidence 36688889999 998866551 1122221 1247888999998888765444444454333
No 36
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=31.60 E-value=1.8e+02 Score=26.42 Aligned_cols=86 Identities=23% Similarity=0.340 Sum_probs=51.7
Q ss_pred HHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHh-hhcCCceEEeEEe
Q 036133 29 CHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILEC-KHTNGQIVIPVFY 107 (182)
Q Consensus 29 ~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~-~~~~~~~viPIfy 107 (182)
..|...|.. .|+.+++-. |++.. .+.+.+++..+..|+....| ..| ..+-..++.. ..+.+..+.- |.
T Consensus 58 ~~L~~~L~~-~gi~L~v~~-----~~~~~-~l~~~~~~~~~~~v~~n~~~--~~~-~~~rD~al~~~l~~~gi~~~~-~~ 126 (461)
T COG0415 58 QALQQSLAE-LGIPLLVRE-----GDPEQ-VLPELAKQLAATTVFWNRDY--EEW-ERQRDAALAQPLTEVGIAVHS-FW 126 (461)
T ss_pred HHHHHHHHH-cCCceEEEe-----CCHHH-HHHHHHHHhCcceEEeeeee--chh-HHHHHHHHHHHHHhcCceEEE-ec
Confidence 458888888 999999754 44332 45556666667778888888 333 2333333333 2333433333 43
Q ss_pred e---cCCcccccccCchHhHH
Q 036133 108 S---VSPSDVRHQTGSFGHGF 125 (182)
Q Consensus 108 ~---v~p~~vr~q~g~f~~~f 125 (182)
+ ..|.+++.+.|..-+.|
T Consensus 127 d~~l~~p~~~~t~~~~~y~vf 147 (461)
T COG0415 127 DALLHEPGEVRTGSGEPYKVF 147 (461)
T ss_pred cccccCHhhccCCCCCCcccc
Confidence 3 67889998887654444
No 37
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=31.55 E-value=81 Score=23.37 Aligned_cols=54 Identities=15% Similarity=0.185 Sum_probs=37.9
Q ss_pred ccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCc
Q 036133 12 YDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSK 68 (182)
Q Consensus 12 ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~ 68 (182)
.++|+-..+.-....+...|..++.. +|+-++.|.+ .+|+.+...+.+.+.++.
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~-k~VIILTD~D--~~Ge~Irk~l~~~l~~~~ 83 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKY-KGVIILTDPD--RKGERIRKKLKEYLPGAK 83 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhcc-CCEEEEeCCC--cchHHHHHHHHHHhcccc
Confidence 45666554432224567888888888 8898888864 688888888887777643
No 38
>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=31.06 E-value=1.8e+02 Score=20.05 Aligned_cols=69 Identities=17% Similarity=0.098 Sum_probs=43.1
Q ss_pred HHHHHHHHhhcCCcceE-eeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEEeEE
Q 036133 28 TCHLYYNLNERTKIKTF-IDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVIPVF 106 (182)
Q Consensus 28 v~~L~~~L~~~~gi~~f-~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIf 106 (182)
...|...|++ .|+.+- +|. ...+ +++.+.+.+.+--++.+|-.+. |...++..+.+..++.+..+.-|+
T Consensus 17 l~~la~~l~~-~G~~v~~~d~-~~~~-----~~l~~~~~~~~pd~V~iS~~~~---~~~~~~~~l~~~~k~~~p~~~iv~ 86 (121)
T PF02310_consen 17 LLYLAAYLRK-AGHEVDILDA-NVPP-----EELVEALRAERPDVVGISVSMT---PNLPEAKRLARAIKERNPNIPIVV 86 (121)
T ss_dssp HHHHHHHHHH-TTBEEEEEES-SB-H-----HHHHHHHHHTTCSEEEEEESSS---THHHHHHHHHHHHHTTCTTSEEEE
T ss_pred HHHHHHHHHH-CCCeEEEECC-CCCH-----HHHHHHHhcCCCcEEEEEccCc---CcHHHHHHHHHHHHhcCCCCEEEE
Confidence 4678899999 999885 443 2211 5778888888888888876543 344555555555444433344444
No 39
>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=30.76 E-value=1.4e+02 Score=18.85 Aligned_cols=59 Identities=24% Similarity=0.220 Sum_probs=33.2
Q ss_pred ccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeec
Q 036133 12 YDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSK 76 (182)
Q Consensus 12 ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~ 76 (182)
.||||...+... ..-+-.+...|+. .|+++.++... ..+...+..|-..--..++++.+
T Consensus 2 ~~v~i~~~~~~~-~~~a~~i~~~Lr~-~g~~v~~~~~~----~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 2 VDVYVVPLGEGA-LSEALELAEQLRD-AGIKAEIDYGG----RKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred CcEEEEEcChHH-HHHHHHHHHHHHH-CCCEEEEecCC----CCHHHHHHHHHHcCCCEEEEEcH
Confidence 367776544432 2336678999999 99999887532 23343444443322234455444
No 40
>PF03214 RGP: Reversibly glycosylated polypeptide; InterPro: IPR004901 Alpha-1,4-glucan-protein synthase catalyses the reaction: protein + UDP-D-glucose = alpha-D-glucosyl-protein + UDP The enzyme has a possible role in the synthesis of cell wall polysaccharides in plants []. It is found associated with the cell wall, with the highest concentrations in the plasmodesmata. It is also located in the Golgi apparatus.; GO: 0008466 glycogenin glucosyltransferase activity, 0016758 transferase activity, transferring hexosyl groups, 0007047 cellular cell wall organization, 0030244 cellulose biosynthetic process, 0005618 cell wall, 0030054 cell junction
Probab=29.90 E-value=2.6e+02 Score=24.35 Aligned_cols=91 Identities=22% Similarity=0.280 Sum_probs=56.8
Q ss_pred hHHHHHHHHhhc--CCcceEeeCcc---------ccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhh
Q 036133 27 FTCHLYYNLNER--TKIKTFIDDEE---------VRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECK 95 (182)
Q Consensus 27 fv~~L~~~L~~~--~gi~~f~d~~~---------~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~ 95 (182)
|+...++.|... .|..++.+.+. --+|-.+.+.+..-++..+ +|..+.+=.-|..||.+..+..
T Consensus 244 f~k~~~d~Lg~~V~~G~P~v~H~~a~~~~~dL~~E~~Gi~l~E~i~~f~q~v~-----Ls~~A~t~~dcy~ELA~~Vkek 318 (348)
T PF03214_consen 244 FLKVICDHLGHGVKTGLPYVWHNKAHNAFDDLKKEVPGIELNEDILPFFQSVK-----LSKTAVTVEDCYRELAKQVKEK 318 (348)
T ss_pred HHHHHHHHcCCccccCCceEEecCCCchHHHHHhhccchhhHHHHHHHHhccC-----CCcccccHHHHHHHHHHHHHHh
Confidence 556666666543 67777777531 1255556666665666533 5677777788999998887654
Q ss_pred hcCCceEEeEEeecCCcccccccCchHhHHHHHHhhhccChHHHHHHHHHHHhccc
Q 036133 96 HTNGQIVIPVFYSVSPSDVRHQTGSFGHGFDQLKQQFKEKPEMVQKWRGALIETSH 151 (182)
Q Consensus 96 ~~~~~~viPIfy~v~p~~vr~q~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~~v~~ 151 (182)
. |....-|.+. .+-+..|-+|+.++..
T Consensus 319 L----------------------g~~dp~F~kv-------AdaMv~WI~AW~~lns 345 (348)
T PF03214_consen 319 L----------------------GSVDPYFTKV-------ADAMVAWIKAWKELNS 345 (348)
T ss_pred c----------------------cCcChHHHHH-------HHHHHHHHHHHHHhCC
Confidence 2 1122234332 3567789999998764
No 41
>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=29.18 E-value=1.4e+02 Score=27.21 Aligned_cols=61 Identities=11% Similarity=0.190 Sum_probs=40.4
Q ss_pred CcccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeec
Q 036133 10 CNYDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSK 76 (182)
Q Consensus 10 ~~ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~ 76 (182)
...||+|-.-+++. ...+..|...|++ .|++|-+|.+ +..+...+..|-..---.++|+.+
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~-~Gi~v~~d~~----~~sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKK-AGIRVDVDDR----NERLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHH-cCCEEEEECC----CCCHHHHHHHHHhcCCCEEEEEch
Confidence 34778887655443 4568889999999 9999999864 445666666664433334444443
No 42
>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=29.00 E-value=2e+02 Score=23.88 Aligned_cols=71 Identities=18% Similarity=0.067 Sum_probs=46.3
Q ss_pred HHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEee-------------------cCccCChhHHHHHHH
Q 036133 30 HLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFS-------------------KDYASSKWCLNELVK 90 (182)
Q Consensus 30 ~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S-------------------~~y~~S~wc~~EL~~ 90 (182)
.|.-.|.. +|+++-=- -+.|+-++.++|.+. ...++.-+.++ .+|++-.-|.+||..
T Consensus 152 PlS~YLA~-~G~KvAN~--PLvpe~~lP~~L~~~-~~~ki~GLtidp~~L~~IR~~Rl~~lg~~~s~Ya~~~~i~~El~~ 227 (255)
T PF03618_consen 152 PLSMYLAN-KGYKVANV--PLVPEVPLPEELFEV-DPKKIFGLTIDPERLIEIRRERLKSLGLDDSSYADLERIEEELEY 227 (255)
T ss_pred chhHHHHh-cCcceeec--CcCCCCCCCHHHHhC-CCCcEEEEECCHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHH
Confidence 35556777 88877533 256666666555533 44444444444 469999999999999
Q ss_pred HHHhhhcCCceEEe
Q 036133 91 ILECKHTNGQIVIP 104 (182)
Q Consensus 91 i~~~~~~~~~~viP 104 (182)
+-+-+++.+-.+|=
T Consensus 228 A~~l~~~~~~pvId 241 (255)
T PF03618_consen 228 AERLFRKLGCPVID 241 (255)
T ss_pred HHHHHHHcCCCEEE
Confidence 98887766655543
No 43
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=28.79 E-value=1.2e+02 Score=26.68 Aligned_cols=46 Identities=26% Similarity=0.291 Sum_probs=35.5
Q ss_pred HHHHHHhhcCc-eEEEEeecCcc-CChhHHHHHHHHHHhhhcCCceEE
Q 036133 58 PALLNAIEGSK-ISVVIFSKDYA-SSKWCLNELVKILECKHTNGQIVI 103 (182)
Q Consensus 58 ~~i~~aI~~S~-~~Ivv~S~~y~-~S~wc~~EL~~i~~~~~~~~~~vi 103 (182)
+.+.+++...+ ...++.+|+=. .+.|..+||.++.+-..+.+-+||
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 47788888887 67777787754 788999999999997665665554
No 44
>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=28.43 E-value=1.8e+02 Score=20.14 Aligned_cols=30 Identities=23% Similarity=0.285 Sum_probs=21.6
Q ss_pred cEEEecccccCccchHHHHHHHHhhcCCcceEe
Q 036133 13 DVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFI 45 (182)
Q Consensus 13 dVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~ 45 (182)
.||+|.+..|. .. ...+...|.+ .|+++|-
T Consensus 2 ~vl~s~~~~~k-~~-~~~~~~~l~~-~G~~l~a 31 (110)
T cd01424 2 TVFISVADRDK-PE-AVEIAKRLAE-LGFKLVA 31 (110)
T ss_pred eEEEEEEcCcH-hH-HHHHHHHHHH-CCCEEEE
Confidence 38899887763 33 4477788888 8888864
No 45
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=27.53 E-value=35 Score=23.05 Aligned_cols=25 Identities=32% Similarity=0.453 Sum_probs=16.3
Q ss_pred EEEEeecCccCChhHHH--HHHHHHHh
Q 036133 70 SVVIFSKDYASSKWCLN--ELVKILEC 94 (182)
Q Consensus 70 ~Ivv~S~~y~~S~wc~~--EL~~i~~~ 94 (182)
-|+|||+.+.+.+||.. .+..+++.
T Consensus 9 ~vvvf~k~~~~~~~Cp~C~~ak~~L~~ 35 (90)
T cd03028 9 PVVLFMKGTPEEPRCGFSRKVVQILNQ 35 (90)
T ss_pred CEEEEEcCCCCCCCCcHHHHHHHHHHH
Confidence 56777888877777753 45555544
No 46
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=27.43 E-value=2.2e+02 Score=19.90 Aligned_cols=61 Identities=28% Similarity=0.293 Sum_probs=34.8
Q ss_pred EEEecccccCccchHHHHHHHHhhcCCcceEeeCc--------c-----ccCCCc-chHHHHHHhhc-CceEEEEeecC
Q 036133 14 VFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDE--------E-----VRRGDE-ISPALLNAIEG-SKISVVIFSKD 77 (182)
Q Consensus 14 VFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~--------~-----~~~G~~-i~~~i~~aI~~-S~~~Ivv~S~~ 77 (182)
||||-+..|. .. ...+...|.. .|++++--.. + +..+.. -.+++...|.+ -++.+||..|+
T Consensus 2 i~isv~d~~K-~~-~~~~a~~l~~-~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHVK-AM-LVDLAPKLSS-DGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccH-HH-HHHHHHHHHH-CCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 6888876663 33 3467777777 7777753311 1 111100 12467777777 77777777664
No 47
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=27.03 E-value=1.2e+02 Score=22.51 Aligned_cols=28 Identities=36% Similarity=0.269 Sum_probs=17.4
Q ss_pred CCCcchHHHHHHhhcCceEEEEeecCcc
Q 036133 52 RGDEISPALLNAIEGSKISVVIFSKDYA 79 (182)
Q Consensus 52 ~G~~i~~~i~~aI~~S~~~Ivv~S~~y~ 79 (182)
.++.+.+.+.++|.+++..|.+.++.+.
T Consensus 18 ~~~~~~~~i~~~I~~A~~~I~i~~~~~~ 45 (176)
T cd00138 18 GGRSDLDALLEAISNAKKSIYIASFYLS 45 (176)
T ss_pred CcchHHHHHHHHHHhhheEEEEEEeEec
Confidence 4455556666666666666666666444
No 48
>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=27.01 E-value=2.6e+02 Score=20.68 Aligned_cols=91 Identities=19% Similarity=0.227 Sum_probs=48.4
Q ss_pred HHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEEeEE--
Q 036133 29 CHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVIPVF-- 106 (182)
Q Consensus 29 ~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIf-- 106 (182)
..|...|+. .|+.+.+- .|+ ..+.+.+-+++..+.-|++...|.... ...-..+.+...+.+..+.-+-
T Consensus 56 ~~L~~~L~~-~g~~L~v~-----~g~-~~~~l~~l~~~~~~~~V~~~~~~~~~~--~~rd~~v~~~l~~~~i~~~~~~~~ 126 (165)
T PF00875_consen 56 ADLQESLRK-LGIPLLVL-----RGD-PEEVLPELAKEYGATAVYFNEEYTPYE--RRRDERVRKALKKHGIKVHTFDDH 126 (165)
T ss_dssp HHHHHHHHH-TTS-EEEE-----ESS-HHHHHHHHHHHHTESEEEEE---SHHH--HHHHHHHHHHHHHTTSEEEEE--S
T ss_pred HHHHHHHHh-cCcceEEE-----ecc-hHHHHHHHHHhcCcCeeEeccccCHHH--HHHHHHHHHHHHhcceEEEEECCc
Confidence 557788888 99998754 344 233555667778899999999887522 2222222222222333332211
Q ss_pred eecCCcccccccCchHhHHHHH
Q 036133 107 YSVSPSDVRHQTGSFGHGFDQL 128 (182)
Q Consensus 107 y~v~p~~vr~q~g~f~~~f~~~ 128 (182)
+=+.|.++....|.....|-..
T Consensus 127 ~L~~~~~i~~~~~~~~~vFtpf 148 (165)
T PF00875_consen 127 TLVPPDDIPKKDGEPYKVFTPF 148 (165)
T ss_dssp SSS-HHHCHSTTSSSHSSHHHH
T ss_pred EEEeccccccCCCCCcccHHHH
Confidence 1256888877777666666433
No 49
>cd07363 45_DOPA_Dioxygenase The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine. This subfamily is composed of plant 4,5-DOPA Dioxygenase, the uncharacterized Escherichia coli protein Jw3007, and similar proteins. 4,5-DOPA Dioxygenase catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine (4,5-DOPA). The reaction results in the opening of the cyclic ring between carbons 4 and 5 and producing an unstable seco-DOPA that rearranges to betalamic acid. 4,5-DOPA Dioxygenase is a key enzyme in the biosynthetic pathway of the plant pigment betalain. Homologs of DODA are present not only in betalain-producing plants but also in bacteria and archaea. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated ca
Probab=26.71 E-value=2.6e+02 Score=22.73 Aligned_cols=69 Identities=16% Similarity=0.050 Sum_probs=48.5
Q ss_pred cchHHHHHHHHhhcCCcceEeeC-ccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhh
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDD-EEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKH 96 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~-~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~ 96 (182)
..++.+|.+.|.. .|+.+-.+. +.+--|--+. +.-.-.+.++-||.+|.+...+..-..+|.+++...+
T Consensus 80 ~eLa~~i~~~l~~-~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKA-AGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHh-cCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 4789999999999 999876543 2233332221 2223334688899999998877777789999988754
No 50
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=26.30 E-value=1.3e+02 Score=21.78 Aligned_cols=48 Identities=17% Similarity=0.378 Sum_probs=30.2
Q ss_pred CcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEEeEEeecCCc
Q 036133 54 DEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVIPVFYSVSPS 112 (182)
Q Consensus 54 ~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIfy~v~p~ 112 (182)
+.+...+.+.+...++.|++++++++. ++...++..+ .++|....+ |+
T Consensus 46 eei~~~~~~~l~~~digIIlIte~~a~------~i~~~I~~~~----~~~PaIieI-P~ 93 (115)
T TIGR01101 46 SEIEDCFNRFLKRDDIAIILINQHIAE------MIRHAVDAHT----RSIPAVLEI-PS 93 (115)
T ss_pred HHHHHHHHHHhhcCCeEEEEEcHHHHH------HhHHHHHhcC----CcCCEEEEE-CC
Confidence 445556666688899999999998765 3333333322 466666554 44
No 51
>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=25.93 E-value=77 Score=25.00 Aligned_cols=47 Identities=17% Similarity=0.177 Sum_probs=32.6
Q ss_pred cccEEEecccccC-----ccchHHHHHHHHhhcCCcceEeeCccc-cCCCcchH
Q 036133 11 NYDVFLSFRGEDT-----RVSFTCHLYYNLNERTKIKTFIDDEEV-RRGDEISP 58 (182)
Q Consensus 11 ~ydVFIS~~~~D~-----~~~fv~~L~~~L~~~~gi~~f~d~~~~-~~G~~i~~ 58 (182)
.++|+|---+... -...+..|...|.. .||++.+|+++- .+|..+..
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~-~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKA-AGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHH-CCCEEEEECCCCCCHhHHHHH
Confidence 3667766433220 23568889999999 999999998765 77766543
No 52
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=25.81 E-value=2.3e+02 Score=20.28 Aligned_cols=39 Identities=10% Similarity=0.099 Sum_probs=21.6
Q ss_pred CceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEEeEEeecC
Q 036133 67 SKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVIPVFYSVS 110 (182)
Q Consensus 67 S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIfy~v~ 110 (182)
.+..|+++|.......-+ + .++..+..+..|..|.+..+
T Consensus 99 ~~~~iv~iTDG~~~~~~~-~----~~~~~~~~~i~i~~v~~~~~ 137 (172)
T PF13519_consen 99 RRRAIVLITDGEDNSSDI-E----AAKALKQQGITIYTVGIGSD 137 (172)
T ss_dssp EEEEEEEEES-TTHCHHH-H----HHHHHHCTTEEEEEEEES-T
T ss_pred CceEEEEecCCCCCcchh-H----HHHHHHHcCCeEEEEEECCC
Confidence 567899999876654333 2 23333345556777665443
No 53
>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=25.37 E-value=80 Score=20.56 Aligned_cols=31 Identities=13% Similarity=0.200 Sum_probs=17.6
Q ss_pred CCcceEeeCccccCCCcchHHHHHHhhcCceEE
Q 036133 39 TKIKTFIDDEEVRRGDEISPALLNAIEGSKISV 71 (182)
Q Consensus 39 ~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~I 71 (182)
+.+-+|+|.+ .+|......+.+....-...+
T Consensus 44 ~~vii~~D~D--~aG~~a~~~~~~~l~~~g~~~ 74 (79)
T cd03364 44 KEVILAFDGD--EAGQKAALRALELLLKLGLNV 74 (79)
T ss_pred CeEEEEECCC--HHHHHHHHHHHHHHHHCCCeE
Confidence 4567777764 567665555555555444333
No 54
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=25.15 E-value=44 Score=30.92 Aligned_cols=33 Identities=21% Similarity=0.375 Sum_probs=27.7
Q ss_pred cchHHHHHHHHhhcCCcceEeeCccccCCCcchH
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISP 58 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~ 58 (182)
...+..|+..|+. .|+.+.+|+++-.+|..+.+
T Consensus 489 ~~~a~~l~~~L~~-~gi~v~~DDr~~~~G~K~~d 521 (568)
T TIGR00409 489 QQLAEELYSELLA-QGVDVLLDDRNERAGVKFAD 521 (568)
T ss_pred HHHHHHHHHHHHh-CCCEEEEECCCCCHHHHHHh
Confidence 4578899999999 99999999988777766554
No 55
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=25.06 E-value=73 Score=28.70 Aligned_cols=61 Identities=13% Similarity=0.145 Sum_probs=37.8
Q ss_pred cccEEEeccc-----ccCccchHHHHHHHHhhcCCcceEeeC-ccccCCCcchHHHHHH-hhcCceEEEEeecC
Q 036133 11 NYDVFLSFRG-----EDTRVSFTCHLYYNLNERTKIKTFIDD-EEVRRGDEISPALLNA-IEGSKISVVIFSKD 77 (182)
Q Consensus 11 ~ydVFIS~~~-----~D~~~~fv~~L~~~L~~~~gi~~f~d~-~~~~~G~~i~~~i~~a-I~~S~~~Ivv~S~~ 77 (182)
.++|+|---. .+.-...+..|...|++ .||++.+|+ ++..+|.. +..+ ..+.. .++++.++
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~-~GirV~lD~r~~~s~gkK----~~~ae~~GvP-~~IiIG~~ 354 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKK-AGIRVKLDDRSDKTPGWK----FNEWELKGVP-LRIEIGPR 354 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHH-CCCEEEEECCCCCCHHHH----HHHHHHCCCC-EEEEECcc
Confidence 4788776431 11124567889999999 999999998 44555554 4343 33444 44444544
No 56
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=24.89 E-value=3.4e+02 Score=21.20 Aligned_cols=33 Identities=33% Similarity=0.481 Sum_probs=23.3
Q ss_pred ceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCcc
Q 036133 42 KTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYA 79 (182)
Q Consensus 42 ~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~ 79 (182)
.+.+| ..|| +.+....++..|+..|++..|+..
T Consensus 117 ~viiD---~pp~--~~~~~~~~l~~ad~vii~~~~~~~ 149 (246)
T TIGR03371 117 WVLID---VPRG--PSPITRQALAAADLVLVVVNADAA 149 (246)
T ss_pred EEEEE---CCCC--chHHHHHHHHhCCeEEEEeCCCHH
Confidence 34455 3454 345566789999999999999753
No 57
>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=24.55 E-value=77 Score=22.07 Aligned_cols=54 Identities=26% Similarity=0.286 Sum_probs=32.9
Q ss_pred ccCccchHHHHHHHHhhcCCcceEeeCcccc----------CCCcchHHHHHHhhcCceEEEEee
Q 036133 21 EDTRVSFTCHLYYNLNERTKIKTFIDDEEVR----------RGDEISPALLNAIEGSKISVVIFS 75 (182)
Q Consensus 21 ~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~----------~G~~i~~~i~~aI~~S~~~Ivv~S 75 (182)
.|.|.+=+-.|.+.|.+ .|+.+...+--+. .|-...+.+.++++.+++.|+.-.
T Consensus 12 ~D~R~Sp~~~l~~~L~~-~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~ 75 (106)
T PF03720_consen 12 DDIRESPALELIEELKE-RGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATD 75 (106)
T ss_dssp S--TT-HHHHHHHHHHH-TT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS-
T ss_pred cccccCHHHHHHHHHHH-CCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEec
Confidence 67888888999999999 9999887653221 122233456778888886665443
No 58
>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=24.43 E-value=44 Score=30.09 Aligned_cols=60 Identities=13% Similarity=0.194 Sum_probs=37.6
Q ss_pred ccEEEec---ccc--cCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHh-hcCceEEEEeecC
Q 036133 12 YDVFLSF---RGE--DTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAI-EGSKISVVIFSKD 77 (182)
Q Consensus 12 ydVFIS~---~~~--D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI-~~S~~~Ivv~S~~ 77 (182)
++|+|-- ... +.-...+..|...|++ .||++.+|.++-.+|. .+..|- .+.. .++++.++
T Consensus 283 ~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~-~girv~lD~r~~s~gk----k~k~Ae~~GvP-~~IiIG~~ 348 (472)
T TIGR00408 283 IQVVIIPIIFKKKENEKVMEAAREVRSRLKK-AGFRVHIDDRDNRPGR----KFYQWEIKGIP-LRIEVGPN 348 (472)
T ss_pred ceEEEEEccCCCCCCHHHHHHHHHHHHHHHH-CCCEEEEECCCCCHHH----HHHHHHHCCCC-EEEEECcc
Confidence 7787763 221 1224568889999999 9999999986544554 444442 3334 45555544
No 59
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=23.77 E-value=2.8e+02 Score=19.87 Aligned_cols=24 Identities=25% Similarity=0.170 Sum_probs=14.5
Q ss_pred HHHHHhhcCceEEEEeecCccCCh
Q 036133 59 ALLNAIEGSKISVVIFSKDYASSK 82 (182)
Q Consensus 59 ~i~~aI~~S~~~Ivv~S~~y~~S~ 82 (182)
++.++|+++++.++|++-.-..+.
T Consensus 4 ~~~~~i~~aD~vl~ViD~~~p~~~ 27 (141)
T cd01857 4 QLWRVVERSDIVVQIVDARNPLLF 27 (141)
T ss_pred HHHHHHhhCCEEEEEEEccCCccc
Confidence 456667777777777665444333
No 60
>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=23.59 E-value=1.5e+02 Score=23.13 Aligned_cols=43 Identities=9% Similarity=0.091 Sum_probs=33.0
Q ss_pred cchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceE
Q 036133 25 VSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKIS 70 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~ 70 (182)
..-...|..+.+. +|+-+|.|.+ .+|+.|...|.+.+-++..+
T Consensus 35 ~~~i~~i~~~~~~-rgVIIfTDpD--~~GekIRk~i~~~vp~~kha 77 (174)
T TIGR00334 35 DETINLIKKAQKK-QGVIILTDPD--FPGEKIRKKIEQHLPGYENC 77 (174)
T ss_pred HHHHHHHHHHhhc-CCEEEEeCCC--CchHHHHHHHHHHCCCCeEE
Confidence 3446677777778 9999999974 68999888888888776643
No 61
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=23.56 E-value=4.8e+02 Score=22.49 Aligned_cols=105 Identities=17% Similarity=0.184 Sum_probs=63.3
Q ss_pred CccchHHHHHHHHhhc-CCcceEeeCccccCCC-cchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCc
Q 036133 23 TRVSFTCHLYYNLNER-TKIKTFIDDEEVRRGD-EISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQ 100 (182)
Q Consensus 23 ~~~~fv~~L~~~L~~~-~gi~~f~d~~~~~~G~-~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~ 100 (182)
+...|-+.|..+|..- ..-.+|+.++.-.-|. .+++.+.++++++.+.++-.|... -+..+++--...
T Consensus 191 sQ~~Fe~~l~~~l~~~~~~~~i~vE~Es~~IG~~~lP~~l~~~m~~~~~v~i~~~~e~--------Rv~~l~~~Y~~~-- 260 (345)
T PRK11784 191 SQKDFENLLAEALLKLDPARPIVVEDESRRIGRVHLPEALYEAMQQAPIVVVEAPLEE--------RVERLLEDYVLR-- 260 (345)
T ss_pred chHHHHHHHHHHHHcCCCCCeEEEEeccccccCccCCHHHHHHHhhCCEEEEECCHHH--------HHHHHHHHhhhh--
Confidence 4578999999999872 2236788776667775 567799999999987765433211 111122111000
Q ss_pred eEEeEEeecCCcc-cccccCchHhHHHHHHhhhccChHHHHHHHHHHHh
Q 036133 101 IVIPVFYSVSPSD-VRHQTGSFGHGFDQLKQQFKEKPEMVQKWRGALIE 148 (182)
Q Consensus 101 ~viPIfy~v~p~~-vr~q~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~~ 148 (182)
.+.+ .......+.+++....++++ .+++++|..++..
T Consensus 261 ---------~~~~~~~~~~~~l~~~l~~i~k~lg--~~~~~~~~~~~~~ 298 (345)
T PRK11784 261 ---------MHAAGFQAYPEYLAEALQRIRKRLG--GERYQELLALLDA 298 (345)
T ss_pred ---------hhhhhhhccHHHHHHHHHHHHHhcC--HHHHHHHHHHHHc
Confidence 0000 00112235677777777776 7889999888875
No 62
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=23.02 E-value=1.1e+02 Score=25.74 Aligned_cols=99 Identities=20% Similarity=0.383 Sum_probs=68.5
Q ss_pred CCcccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccc--cCCCcchHHHHHHhh--cCceEEEEeecCccCChhH
Q 036133 9 SCNYDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEV--RRGDEISPALLNAIE--GSKISVVIFSKDYASSKWC 84 (182)
Q Consensus 9 ~~~ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~--~~G~~i~~~i~~aI~--~S~~~Ivv~S~~y~~S~wc 84 (182)
+-++.+=+||.+.| ..+++....-|.. .|+.+|+|-.+- ..|..+.+ +...|- ..-+++...|.+|-.-.|.
T Consensus 4 ~~~~~~a~~f~~~d--~~~~~~~~n~~~~-~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~~~ 79 (329)
T COG4916 4 NVQFEIALSFAGED--REYVDRVANLLRE-AGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKMWT 79 (329)
T ss_pred chheeeeeeecCch--HHHHHHHHHHHHh-hccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcCCC
Confidence 34566778999998 4678888888888 999999884321 23444432 222222 3445677889999999999
Q ss_pred HHHHHHHHHhh-hcCCceEEeEEeecCC
Q 036133 85 LNELVKILECK-HTNGQIVIPVFYSVSP 111 (182)
Q Consensus 85 ~~EL~~i~~~~-~~~~~~viPIfy~v~p 111 (182)
..|+..+.... .+....++|-.++..|
T Consensus 80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 80 NHERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred cHHHHHHHHHHhhhccEEehhhhhccCC
Confidence 99998877754 4455578888876544
No 63
>PF13289 SIR2_2: SIR2-like domain
Probab=22.99 E-value=2.2e+02 Score=20.14 Aligned_cols=6 Identities=17% Similarity=0.550 Sum_probs=2.3
Q ss_pred EEeccc
Q 036133 15 FLSFRG 20 (182)
Q Consensus 15 FIS~~~ 20 (182)
||.|+.
T Consensus 91 fiGys~ 96 (143)
T PF13289_consen 91 FIGYSF 96 (143)
T ss_pred EEEECC
Confidence 333333
No 64
>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=22.35 E-value=76 Score=22.00 Aligned_cols=17 Identities=29% Similarity=0.560 Sum_probs=14.2
Q ss_pred cChHHHHHHHHHHHhcc
Q 036133 134 EKPEMVQKWRGALIETS 150 (182)
Q Consensus 134 ~~~~~v~~W~~aL~~v~ 150 (182)
++++..++|-+||..|+
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 46789999999998774
No 65
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=22.34 E-value=3.4e+02 Score=22.14 Aligned_cols=68 Identities=16% Similarity=0.121 Sum_probs=42.6
Q ss_pred chHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCC
Q 036133 26 SFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNG 99 (182)
Q Consensus 26 ~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~ 99 (182)
.....|...++. +| .-|+|-+ +..++....++.+.-.+-. +|+|-+...+.+.++|+..++..+...+
T Consensus 79 ~~i~ll~~la~~-~~-~d~iDiE-l~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 79 EYIELLKKLAEL-NG-PDYIDIE-LSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHhh-cC-CCEEEEE-ccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 345555555555 55 5677753 4443322223333222222 8899999999999999999999986655
No 66
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=21.98 E-value=1.7e+02 Score=24.90 Aligned_cols=45 Identities=27% Similarity=0.558 Sum_probs=35.4
Q ss_pred HHHHHHhhcCceEEEEeecCcc---CChhHHHHHHHHHHhhhcCCceEEeEEee
Q 036133 58 PALLNAIEGSKISVVIFSKDYA---SSKWCLNELVKILECKHTNGQIVIPVFYS 108 (182)
Q Consensus 58 ~~i~~aI~~S~~~Ivv~S~~y~---~S~wc~~EL~~i~~~~~~~~~~viPIfy~ 108 (182)
+.-.++|.+++.-++|+-|.|. .++|..+||.+..+ ++ ++||=|=
T Consensus 33 d~~~~~i~~~~f~llVVDps~~g~~~~~~~~eelr~~~~----gg--~~pIAYl 80 (300)
T COG2342 33 DAYINEILNSPFDLLVVDPSYCGPFNTPWTIEELRTKAD----GG--VKPIAYL 80 (300)
T ss_pred cchHHHHhcCCCcEEEEeccccCCCCCcCcHHHHHHHhc----CC--eeEEEEE
Confidence 4556789999999999999664 78999999887643 33 8888773
No 67
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=21.67 E-value=2.2e+02 Score=22.50 Aligned_cols=46 Identities=20% Similarity=0.326 Sum_probs=34.1
Q ss_pred HHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHHhhcC-------ceEEEEeecCcc
Q 036133 28 TCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNAIEGS-------KISVVIFSKDYA 79 (182)
Q Consensus 28 v~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~aI~~S-------~~~Ivv~S~~y~ 79 (182)
...|...|+. .|+..+- . .|+.+.|.+.+||..- ...+-|+.+.|.
T Consensus 124 ~~~l~~~L~k-~Gv~~i~----~-~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~ 176 (193)
T COG0576 124 LDQLLDALEK-LGVEEIG----P-EGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYK 176 (193)
T ss_pred HHHHHHHHHH-CCCEEeC----C-CCCCCCHHHhhheeeecCCCCCCCeEEEEeecCee
Confidence 3668888899 9997752 2 5999999999998733 346667777774
No 68
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=21.41 E-value=2.3e+02 Score=19.65 Aligned_cols=42 Identities=10% Similarity=0.285 Sum_probs=28.0
Q ss_pred HHhhcCCcceEe-eCccccCCCcchHHHHHHhhcCceEEEEeecCccC
Q 036133 34 NLNERTKIKTFI-DDEEVRRGDEISPALLNAIEGSKISVVIFSKDYAS 80 (182)
Q Consensus 34 ~L~~~~gi~~f~-d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~ 80 (182)
.++- .|+..+. ... .+.+...+.+.+.+-++.|++++++++.
T Consensus 14 GFrL-aGi~~~~~~~~----~ee~~~~l~~l~~~~d~gII~Ite~~~~ 56 (100)
T PRK02228 14 GFRL-AGIRKVYEVPD----DEKLDEAVEEVLEDDDVGILVMHDDDLE 56 (100)
T ss_pred HHHH-cCCceEEeeCC----HHHHHHHHHHHhhCCCEEEEEEehhHhH
Confidence 4555 8887554 221 1345556666667888999999999765
No 69
>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=21.23 E-value=30 Score=26.81 Aligned_cols=58 Identities=22% Similarity=0.350 Sum_probs=33.7
Q ss_pred ChhHHHHHHHHHHhhhcCCceEEeEEeecCCcccccccCchHhHHHHHHhhhccChHHHHHHHHHHH
Q 036133 81 SKWCLNELVKILECKHTNGQIVIPVFYSVSPSDVRHQTGSFGHGFDQLKQQFKEKPEMVQKWRGALI 147 (182)
Q Consensus 81 S~wc~~EL~~i~~~~~~~~~~viPIfy~v~p~~vr~q~g~f~~~f~~~~~~~~~~~~~v~~W~~aL~ 147 (182)
|.|.+.||..-++..+-+.=.=+.+.++|+|-++.+... =+|..+ ..-++++|..|++
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS-----tQKvqQ----YaVRLKRWM~aMH 111 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS-----TQKVQQ----YAVRLKRWMRAMH 111 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc-----hHHHHH----HHHHHHHHHHHhh
Confidence 467888887766654333223345567888877654211 112221 2466789999986
No 70
>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=21.05 E-value=2.8e+02 Score=20.02 Aligned_cols=55 Identities=15% Similarity=0.120 Sum_probs=35.0
Q ss_pred cchHHHHHHHHhhcCCcceE-eeCccc-cC-----------CCcchHHHHHHhhcCceEEEEeecCccCC
Q 036133 25 VSFTCHLYYNLNERTKIKTF-IDDEEV-RR-----------GDEISPALLNAIEGSKISVVIFSKDYASS 81 (182)
Q Consensus 25 ~~fv~~L~~~L~~~~gi~~f-~d~~~~-~~-----------G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S 81 (182)
...+..+.+.|+. .|+.+- ++-.+. .| -.+-..++.+.+.+++ .||+.||.|..+
T Consensus 17 ~~l~~~~~~~l~~-~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD-~iI~~sP~y~~~ 84 (152)
T PF03358_consen 17 RKLAEAVAEQLEE-AGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEAD-GIIFASPVYNGS 84 (152)
T ss_dssp HHHHHHHHHHHHH-TTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSS-EEEEEEEEBTTB
T ss_pred HHHHHHHHHHHHH-cCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCC-eEEEeecEEcCc
Confidence 4567788888888 777643 343332 01 1222346778888999 677789998754
No 71
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=21.00 E-value=2.8e+02 Score=20.49 Aligned_cols=35 Identities=17% Similarity=0.138 Sum_probs=25.1
Q ss_pred EEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCC
Q 036133 14 VFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGD 54 (182)
Q Consensus 14 VFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~ 54 (182)
||+||+-.+. . ...|....++ .|+.+-+- .+..|+
T Consensus 3 vFvS~SMP~~--~-Lk~l~~~a~~-~g~~~VlR--G~~~~~ 37 (130)
T TIGR02742 3 VFVSFSMPEP--L-LKQLLDQAEA-LGAPLVIR--GLLDNG 37 (130)
T ss_pred EEEEcCCCHH--H-HHHHHHHHHH-hCCeEEEe--CCCCCC
Confidence 7999998873 3 5677778888 88876654 365554
No 72
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=20.95 E-value=3.3e+02 Score=19.69 Aligned_cols=46 Identities=4% Similarity=0.055 Sum_probs=30.4
Q ss_pred HHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEEeEE
Q 036133 58 PALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVIPVF 106 (182)
Q Consensus 58 ~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIf 106 (182)
..+.+.+..+++.|+|++.+- .|...+...+.+..+....+.+-|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~---~~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQ---DLTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTS---TGGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCc---ccchHHHHHHHHHhcCCCCeEEEEE
Confidence 456677899999999986655 4555566666665555555555554
No 73
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=20.95 E-value=3.2e+02 Score=19.40 Aligned_cols=40 Identities=13% Similarity=0.214 Sum_probs=24.8
Q ss_pred CCCc-chHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHh
Q 036133 52 RGDE-ISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILEC 94 (182)
Q Consensus 52 ~G~~-i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~ 94 (182)
+|.. +.......+..++..|++++.. .++..+++...+..
T Consensus 57 ~G~~~~~~~~~~~~~~~d~~ilv~d~~---~~~s~~~~~~~l~~ 97 (164)
T smart00175 57 AGQERFRSITSSYYRGAVGALLVYDIT---NRESFENLKNWLKE 97 (164)
T ss_pred CChHHHHHHHHHHhCCCCEEEEEEECC---CHHHHHHHHHHHHH
Confidence 5532 3333445678899999999874 35556666555444
No 74
>PLN03194 putative disease resistance protein; Provisional
Probab=20.91 E-value=4.3e+02 Score=20.92 Aligned_cols=64 Identities=11% Similarity=0.228 Sum_probs=43.9
Q ss_pred CCcceEeeCccccCCCcchHHHHHHhhcCceEEEEeecCccCChhHHHHHHHHHHhhhcCCceEEeEE
Q 036133 39 TKIKTFIDDEEVRRGDEISPALLNAIEGSKISVVIFSKDYASSKWCLNELVKILECKHTNGQIVIPVF 106 (182)
Q Consensus 39 ~gi~~f~d~~~~~~G~~i~~~i~~aI~~S~~~Ivv~S~~y~~S~wc~~EL~~i~~~~~~~~~~viPIf 106 (182)
..+.||+.-+.--....+..-|.++++...+.+.+-........--..+|..+++.. ...|.||
T Consensus 25 ~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeS----ri~IvVf 88 (187)
T PLN03194 25 KPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNC----KVGVAVF 88 (187)
T ss_pred CCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhC----eEEEEEE
Confidence 788999986544334457788999999998888875544544444445666666543 3788888
No 75
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=20.86 E-value=1e+02 Score=28.93 Aligned_cols=57 Identities=19% Similarity=0.207 Sum_probs=36.7
Q ss_pred ccEEEecccccCccchHHHHHHHHhhcCCcceEeeCccccCCCcchHHHHHH-hhcCceEEEEee
Q 036133 12 YDVFLSFRGEDTRVSFTCHLYYNLNERTKIKTFIDDEEVRRGDEISPALLNA-IEGSKISVVIFS 75 (182)
Q Consensus 12 ydVFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~d~~~~~~G~~i~~~i~~a-I~~S~~~Ivv~S 75 (182)
++|+|---+++ ....+..|...|+. .||++.+|+++-..| ..+..| ..+... ++|+.
T Consensus 500 ~qV~IIpi~e~-~~~~A~eIa~~Lr~-~GirV~lDdr~~slg----kKir~A~~~GiP~-iIVIG 557 (613)
T PRK03991 500 TQVRVIPVSER-HLDYAEEVADKLEA-AGIRVDVDDRDESLG----KKIRDAGKEWIPY-VVVIG 557 (613)
T ss_pred ceEEEEEeCHH-HHHHHHHHHHHHHh-CCCEEEEECCCCCHH----HHHHHHHHcCCCE-EEEEC
Confidence 67777654433 24678899999999 999999998654444 444454 233343 44443
No 76
>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=20.83 E-value=3e+02 Score=19.16 Aligned_cols=29 Identities=10% Similarity=0.091 Sum_probs=22.0
Q ss_pred EEEecccccCccchHHHHHHHHhhcCCcceEe
Q 036133 14 VFLSFRGEDTRVSFTCHLYYNLNERTKIKTFI 45 (182)
Q Consensus 14 VFIS~~~~D~~~~fv~~L~~~L~~~~gi~~f~ 45 (182)
||+|.+..|. .. ...+...|.. .|+++|-
T Consensus 3 vlisv~~~dk-~~-~~~~a~~l~~-~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSK-PE-LLPTAQKLSK-LGYKLYA 31 (116)
T ss_pred EEEecCcccc-hh-HHHHHHHHHH-CCCEEEE
Confidence 7999987763 34 4578888888 8988864
No 77
>TIGR02497 yscI_hrpB_dom type III secretion apparatus protein, YscI/HrpB, C-terminal domain. This model represents the conserved C-terminal domain of a protein conserved in across species in the bacterial type III secretion apparatus. This protein is designated YscI (Yop proteins translocation protein I) in Yersinia and HrpB (hypersensitivity response and pathogenicity protein B) in plant pathogens such as Pseudomonas syringae.
Probab=20.47 E-value=90 Score=18.21 Aligned_cols=21 Identities=14% Similarity=0.309 Sum_probs=17.3
Q ss_pred ChHHHHHHHHHHHHHHhcccC
Q 036133 162 HDAQLVSKIVEDVLKKMEKIT 182 (182)
Q Consensus 162 ~e~~~i~~Iv~~v~~~l~~~~ 182 (182)
-+.+++-|++..+...+++++
T Consensus 16 v~~dL~AK~ag~~sQsvnKL~ 36 (39)
T TIGR02497 16 VQVDLTAKVAGAMSQAVNKLV 36 (39)
T ss_pred HHHHHHHHHHHHHHhHHHHHH
Confidence 378899999999998888764
No 78
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=20.06 E-value=1.9e+02 Score=26.00 Aligned_cols=23 Identities=22% Similarity=0.381 Sum_probs=18.5
Q ss_pred ecCCcccccccCchHhHHHHHHh
Q 036133 108 SVSPSDVRHQTGSFGHGFDQLKQ 130 (182)
Q Consensus 108 ~v~p~~vr~q~g~f~~~f~~~~~ 130 (182)
+..|+.++.-...|..||..+.+
T Consensus 372 ~G~p~~I~pGkPvy~aAF~~L~~ 394 (431)
T PF10443_consen 372 NGRPSTIRPGKPVYRAAFKRLVN 394 (431)
T ss_pred CCcCCeeECCChhHHHHHHHHhh
Confidence 45588888888889999998765
Done!