Query 044964
Match_columns 163
No_of_seqs 143 out of 1244
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 08:31:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044964.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044964hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 3.9E-44 8.3E-49 273.7 13.2 137 8-161 18-156 (187)
2 PLN03210 Resistant to P. syrin 100.0 2.5E-42 5.4E-47 324.4 15.3 156 1-162 1-156 (1153)
3 PF01582 TIR: TIR domain; Int 99.9 3.7E-28 8E-33 179.2 3.4 132 19-150 1-140 (141)
4 smart00255 TIR Toll - interleu 99.9 4.2E-26 9.1E-31 166.6 12.8 137 16-154 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 2.7E-20 5.8E-25 129.6 4.7 87 19-111 1-87 (102)
6 KOG3678 SARM protein (with ste 99.2 8E-11 1.7E-15 101.4 8.1 105 12-122 608-730 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.8 1.5E-08 3.3E-13 73.7 5.7 89 17-110 1-107 (130)
8 PF08357 SEFIR: SEFIR domain; 98.2 1E-05 2.2E-10 59.7 8.2 64 18-81 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.3 0.00075 1.6E-08 49.1 6.1 96 18-118 1-112 (125)
10 PF13271 DUF4062: Domain of un 94.3 0.16 3.5E-06 33.9 5.6 67 18-85 1-68 (83)
11 PF05014 Nuc_deoxyrib_tr: Nucl 93.1 0.73 1.6E-05 32.2 7.4 67 30-97 13-88 (113)
12 COG4916 Uncharacterized protei 93.1 0.13 2.8E-06 41.9 3.8 101 12-117 173-281 (329)
13 COG4271 Predicted nucleotide-b 91.0 0.89 1.9E-05 35.7 6.2 104 9-120 77-200 (233)
14 PF14258 DUF4350: Domain of un 82.7 9.5 0.00021 24.0 6.6 61 34-106 8-68 (70)
15 cd00860 ThrRS_anticodon ThrRS 80.6 7.3 0.00016 25.3 5.7 61 17-81 2-62 (91)
16 PF14359 DUF4406: Domain of un 77.1 16 0.00035 24.8 6.6 62 33-96 18-84 (92)
17 cd00738 HGTP_anticodon HGTP an 73.9 14 0.0003 24.0 5.6 61 17-80 2-64 (94)
18 PF03129 HGTP_anticodon: Antic 69.6 11 0.00023 24.9 4.3 48 30-80 15-62 (94)
19 cd02042 ParA ParA and ParB of 69.3 28 0.0006 23.2 6.4 64 19-82 3-74 (104)
20 KOG2792 Putative cytochrome C 67.6 7.5 0.00016 31.8 3.6 45 85-129 153-202 (280)
21 cd00858 GlyRS_anticodon GlyRS 66.7 19 0.0004 25.3 5.2 62 16-82 26-89 (121)
22 COG0400 Predicted esterase [Ge 65.5 25 0.00053 27.6 6.1 58 10-68 140-199 (207)
23 cd02426 Pol_gamma_b_Cterm C-te 58.6 12 0.00026 26.9 3.1 33 30-62 43-79 (128)
24 COG1658 Small primase-like pro 55.2 21 0.00045 26.0 3.7 55 17-72 30-84 (127)
25 cd00861 ProRS_anticodon_short 54.2 36 0.00078 22.1 4.7 50 30-82 17-66 (94)
26 cd01424 MGS_CPS_II Methylglyox 53.4 65 0.0014 22.0 6.0 61 18-80 2-76 (110)
27 cd07363 45_DOPA_Dioxygenase Th 51.5 71 0.0015 25.5 6.7 68 30-99 80-149 (253)
28 PF03720 UDPG_MGDP_dh_C: UDP-g 50.2 14 0.0003 25.4 2.2 55 26-80 12-77 (106)
29 PF09441 Abp2: ARS binding pro 49.7 5.1 0.00011 30.4 -0.2 58 84-150 54-111 (175)
30 TIGR00334 5S_RNA_mat_M5 ribonu 49.5 24 0.00053 27.1 3.5 50 30-82 35-84 (174)
31 PF09837 DUF2064: Uncharacteri 48.9 94 0.002 22.0 7.6 85 13-107 7-94 (122)
32 COG4916 Uncharacterized protei 46.6 25 0.00054 28.9 3.3 98 14-114 4-107 (329)
33 PF02310 B12-binding: B12 bind 45.7 94 0.002 21.1 6.5 60 32-99 16-76 (121)
34 PRK12325 prolyl-tRNA synthetas 43.5 32 0.00068 30.0 3.8 64 16-83 345-411 (439)
35 cd01423 MGS_CPS_I_III Methylgl 42.6 36 0.00078 23.6 3.3 29 19-49 3-31 (116)
36 cd01241 PH_Akt Akt pleckstrin 42.5 23 0.00049 24.2 2.2 17 137-153 86-102 (102)
37 TIGR00418 thrS threonyl-tRNA s 41.7 58 0.0012 29.1 5.2 62 15-80 469-530 (563)
38 PF10087 DUF2325: Uncharacteri 40.8 1.1E+02 0.0024 20.5 5.5 58 32-90 11-69 (97)
39 cd00859 HisRS_anticodon HisRS 40.5 76 0.0017 19.8 4.5 59 17-79 2-60 (91)
40 COG0710 AroD 3-dehydroquinate 39.5 1.1E+02 0.0023 24.6 5.9 76 30-109 78-155 (231)
41 cd01251 PH_centaurin_alpha Cen 39.2 32 0.0007 23.5 2.6 19 137-155 84-102 (103)
42 cd03364 TOPRIM_DnaG_primases T 38.6 44 0.00096 21.4 3.1 26 43-69 44-69 (79)
43 KOG1136 Predicted cleavage and 38.5 84 0.0018 27.1 5.3 56 52-110 180-241 (501)
44 cd00532 MGS-like MGS-like doma 38.4 1.3E+02 0.0028 20.7 5.9 60 19-80 2-77 (112)
45 cd07373 2A5CPDO_A The alpha su 37.8 2.2E+02 0.0047 23.0 7.9 76 30-108 90-172 (271)
46 PRK09194 prolyl-tRNA synthetas 35.5 29 0.00063 31.2 2.4 64 15-82 467-533 (565)
47 cd06342 PBP1_ABC_LIVBP_like Ty 35.2 1.9E+02 0.0042 23.0 7.0 58 19-77 138-196 (334)
48 PF00350 Dynamin_N: Dynamin fa 35.2 1.5E+02 0.0032 21.2 5.8 46 61-109 120-165 (168)
49 cd06340 PBP1_ABC_ligand_bindin 33.7 1.6E+02 0.0035 24.0 6.4 65 18-82 146-210 (347)
50 PRK14938 Ser-tRNA(Thr) hydrola 32.8 1E+02 0.0022 26.7 5.1 60 16-79 274-333 (387)
51 cd04142 RRP22 RRP22 subfamily. 32.8 2E+02 0.0043 21.7 6.4 54 63-119 74-130 (198)
52 cd00862 ProRS_anticodon_zinc P 32.4 51 0.0011 25.5 3.0 46 16-61 10-62 (202)
53 cd01266 PH_Gab Gab (Grb2-assoc 30.9 45 0.00098 22.8 2.3 17 137-153 92-108 (108)
54 CHL00201 syh histidine-tRNA sy 30.0 1.2E+02 0.0027 26.2 5.3 60 16-79 325-384 (430)
55 cd01238 PH_Tec Tec pleckstrin 29.7 45 0.00097 22.9 2.1 15 138-152 92-106 (106)
56 COG1168 MalY Bifunctional PLP- 29.7 1.3E+02 0.0028 26.1 5.1 46 61-106 148-195 (388)
57 COG0512 PabA Anthranilate/para 29.6 80 0.0017 24.6 3.6 47 27-82 8-56 (191)
58 cd01260 PH_CNK Connector enhan 29.4 47 0.001 21.9 2.1 15 137-151 81-95 (96)
59 PF00875 DNA_photolyase: DNA p 29.4 2E+02 0.0044 20.9 5.7 92 33-131 55-148 (165)
60 COG0683 LivK ABC-type branched 29.3 3E+02 0.0065 22.9 7.4 72 18-89 150-221 (366)
61 cd01219 PH_FGD FGD (faciogenit 29.1 54 0.0012 22.3 2.4 18 137-154 83-100 (101)
62 PF11074 DUF2779: Domain of un 28.7 53 0.0011 23.8 2.4 34 59-94 60-93 (130)
63 TIGR00409 proS_fam_II prolyl-t 28.7 36 0.00077 30.8 1.8 49 30-82 489-538 (568)
64 cd00154 Rab Rab family. Rab G 28.5 1.6E+02 0.0035 20.0 4.9 29 55-83 57-86 (159)
65 PRK14799 thrS threonyl-tRNA sy 28.1 1.3E+02 0.0027 27.3 5.1 60 16-79 438-497 (545)
66 PHA02456 zinc metallopeptidase 27.4 99 0.0022 22.2 3.4 47 62-111 55-105 (141)
67 cd00138 PLDc Phospholipase D. 27.2 95 0.0021 22.5 3.6 37 32-68 22-64 (176)
68 PRK15057 UDP-glucose 6-dehydro 26.2 1.3E+02 0.0028 25.8 4.7 50 26-75 311-365 (388)
69 cd01244 PH_RasGAP_CG9209 RAS_G 26.1 55 0.0012 22.4 2.0 15 138-152 84-98 (98)
70 cd06335 PBP1_ABC_ligand_bindin 26.0 2.7E+02 0.0058 22.7 6.4 27 30-56 152-178 (347)
71 KOG4132 Uroporphyrinogen III s 25.8 93 0.002 25.2 3.4 51 34-84 146-200 (260)
72 PRK12305 thrS threonyl-tRNA sy 25.8 1.4E+02 0.0031 26.7 5.1 61 16-80 476-536 (575)
73 PRK00413 thrS threonyl-tRNA sy 25.6 1.5E+02 0.0032 26.9 5.2 61 16-80 539-599 (638)
74 COG3845 ABC-type uncharacteriz 25.3 2.9E+02 0.0062 24.9 6.6 80 33-112 118-200 (501)
75 PF01990 ATP-synt_F: ATP synth 25.0 1.4E+02 0.003 19.9 3.9 55 36-94 9-63 (95)
76 PF03358 FMN_red: NADPH-depend 25.0 2.5E+02 0.0055 19.8 6.0 77 30-109 17-113 (152)
77 PRK03991 threonyl-tRNA synthet 24.9 1.3E+02 0.0027 27.7 4.6 59 17-80 500-559 (613)
78 cd01235 PH_SETbf Set binding f 24.8 69 0.0015 21.1 2.3 16 137-152 85-100 (101)
79 KOG2903 Predicted glutathione 24.4 2.3E+02 0.005 23.5 5.5 109 12-131 33-154 (319)
80 cd02038 FleN-like FleN is a me 24.1 2.6E+02 0.0057 19.7 8.4 54 30-83 14-80 (139)
81 PF13289 SIR2_2: SIR2-like dom 23.7 2E+02 0.0044 19.8 4.7 12 32-43 76-87 (143)
82 cd08584 PI-PLCc_GDPD_SF_unchar 23.5 1.8E+02 0.004 22.6 4.7 36 47-84 127-162 (192)
83 PF07429 Glyco_transf_56: 4-al 23.5 69 0.0015 27.4 2.4 46 36-83 300-347 (360)
84 PLN02530 histidine-tRNA ligase 23.5 1.8E+02 0.0039 25.7 5.2 61 15-79 400-460 (487)
85 PF08477 Miro: Miro-like prote 23.5 1.4E+02 0.003 19.9 3.7 43 64-110 68-113 (119)
86 smart00233 PH Pleckstrin homol 23.3 80 0.0017 19.5 2.3 16 138-153 86-101 (102)
87 PF01113 DapB_N: Dihydrodipico 23.3 1.9E+02 0.0041 20.2 4.4 28 17-48 68-95 (124)
88 cd06366 PBP1_GABAb_receptor Li 23.0 3.3E+02 0.007 22.0 6.4 38 19-56 138-175 (350)
89 cd01257 PH_IRS Insulin recepto 23.0 73 0.0016 22.0 2.1 16 137-152 86-101 (101)
90 PF13662 Toprim_4: Toprim doma 22.8 66 0.0014 20.6 1.8 26 43-69 47-72 (81)
91 KOG1954 Endocytosis/signaling 22.8 2.3E+02 0.005 25.0 5.4 55 52-109 164-218 (532)
92 cd06379 PBP1_iGluR_NMDA_NR1 N- 22.4 2.7E+02 0.0058 23.0 5.9 15 31-45 169-183 (377)
93 cd01857 HSR1_MMR1 HSR1/MMR1. 22.3 2.8E+02 0.0062 19.4 5.4 17 63-79 5-21 (141)
94 COG2342 Predicted extracellula 22.2 1.7E+02 0.0037 24.4 4.4 44 61-110 33-79 (300)
95 PRK08350 hypothetical protein; 22.0 93 0.002 26.5 2.9 33 14-46 279-311 (341)
96 cd01246 PH_oxysterol_bp Oxyste 21.7 81 0.0018 20.0 2.1 14 138-151 77-90 (91)
97 cd06328 PBP1_SBP_like_2 Peripl 21.6 3.1E+02 0.0068 22.1 6.0 54 18-72 138-192 (333)
98 cd02951 SoxW SoxW family; SoxW 21.4 2.8E+02 0.006 18.9 5.4 29 61-91 4-33 (125)
99 PF00169 PH: PH domain; Inter 21.3 97 0.0021 19.6 2.4 17 137-153 87-103 (104)
100 cd06346 PBP1_ABC_ligand_bindin 21.2 2.8E+02 0.0061 22.1 5.6 41 31-71 152-192 (312)
101 COG0576 GrpE Molecular chapero 21.2 2.3E+02 0.005 21.9 4.8 48 32-83 123-177 (193)
102 COG0415 PhrB Deoxyribodipyrimi 21.1 3.1E+02 0.0066 24.4 6.0 87 34-129 58-148 (461)
103 PRK06893 DNA replication initi 20.8 1.6E+02 0.0035 22.9 4.0 40 47-86 95-139 (229)
104 PF12965 DUF3854: Domain of un 20.7 2.3E+02 0.005 20.3 4.5 16 34-49 92-107 (130)
105 cd06327 PBP1_SBP_like_1 Peripl 20.7 4.1E+02 0.0089 21.3 6.5 42 30-72 149-191 (334)
106 COG3613 Nucleoside 2-deoxyribo 20.6 1.4E+02 0.003 22.9 3.3 75 31-109 20-105 (172)
107 PF12146 Hydrolase_4: Putative 20.6 2.1E+02 0.0046 18.4 4.0 36 15-51 15-50 (79)
108 PF05570 DUF765: Circovirus pr 20.4 60 0.0013 16.9 0.9 6 1-6 1-6 (29)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=3.9e-44 Score=273.72 Aligned_cols=137 Identities=34% Similarity=0.607 Sum_probs=127.2
Q ss_pred CCCCCCCceeeEEEecccccCchhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCcCchh
Q 044964 8 PTATVPQVKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYASSGW 86 (163)
Q Consensus 8 ~~s~~~~~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~w 86 (163)
|+|++...+|||||||+++|+|++|+++|+.+|+++||++|+|+ ++++|+.+.+.|.+||++|+++|+||||+|++|.|
T Consensus 18 ~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~W 97 (187)
T PLN03194 18 PSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYF 97 (187)
T ss_pred ccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchh
Confidence 77788888999999999999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhhhhcCceeEeEEeeeCCcccccc-ccchHHHHHHHHHhccCChhHHHHHHHHHHHhhcccccccc
Q 044964 87 CLEELVKILECKDKYGQIVIPVFYHVEPSNVRNQ-TGIFGDAFSMFEERFVGREDKLRTWRIALREAANISGFDSN 161 (163)
Q Consensus 87 c~~El~~~~~~~~~~~~~iiPIf~~v~p~~v~~~-~~~f~~~f~~~~~~~~~~~~~~~~W~~al~~v~~~~g~~~~ 161 (163)
|++||..|+++. ..||||||+|+|++||+| .+. .+.+++++||.||++|++++|++++
T Consensus 98 CLdEL~~I~e~~----~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~ 156 (187)
T PLN03194 98 CLHELALIMESK----KRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFD 156 (187)
T ss_pred HHHHHHHHHHcC----CEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCC
Confidence 999999999863 489999999999999997 332 2468999999999999999999774
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=2.5e-42 Score=324.39 Aligned_cols=156 Identities=50% Similarity=0.819 Sum_probs=146.1
Q ss_pred CCCCCCCCCCCCCCceeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecC
Q 044964 1 MASSSFPPTATVPQVKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 1 ~~~~~~~~~s~~~~~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
||+|| |+++.++|||||||||+|+|++|++||+.+|.++||++|.|++++.|+.+.+++.+||++|+++|+|||++
T Consensus 1 ~~~~~----~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ 76 (1153)
T PLN03210 1 MASSS----SSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKN 76 (1153)
T ss_pred CCCCC----CCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCC
Confidence 56553 44567899999999999999999999999999999999999899999999999999999999999999999
Q ss_pred CcCchhhHHHHHHHHHhhhhcCceeEeEEeeeCCccccccccchHHHHHHHHHhccCChhHHHHHHHHHHHhhccccccc
Q 044964 81 YASSGWCLEELVKILECKDKYGQIVIPVFYHVEPSNVRNQTGIFGDAFSMFEERFVGREDKLRTWRIALREAANISGFDS 160 (163)
Q Consensus 81 y~~S~wc~~El~~~~~~~~~~~~~iiPIf~~v~p~~v~~~~~~f~~~f~~~~~~~~~~~~~~~~W~~al~~v~~~~g~~~ 160 (163)
|+.|.||++||.+|++|++++++.|+||||+|+|+|||+|+|.||++|.++++.. +++++++||.||++|++++|+++
T Consensus 77 ya~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~ 154 (1153)
T PLN03210 77 YASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHS 154 (1153)
T ss_pred cccchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceec
Confidence 9999999999999999999999999999999999999999999999999988764 47899999999999999999987
Q ss_pred cC
Q 044964 161 NT 162 (163)
Q Consensus 161 ~~ 162 (163)
.+
T Consensus 155 ~~ 156 (1153)
T PLN03210 155 QN 156 (1153)
T ss_pred CC
Confidence 53
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.94 E-value=3.7e-28 Score=179.23 Aligned_cols=132 Identities=36% Similarity=0.592 Sum_probs=115.0
Q ss_pred EEEecccccCchhHHHHHHHHHhcC--CceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHH
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRK--KIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKIL 95 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~--gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~ 95 (163)
|||||++.+.+..|+.+|..+|+++ |+++|+++ |+.+|..+.++|.++|++|+++|+|||++|+.|+||+.||..|+
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999333568999999999999 99999999 99999999999999999999999999999999999999999999
Q ss_pred Hhhhhc--CceeEeEEeeeCCcccc-ccccchHHHHHHHHHhccCC--hhHHHHHHHHHH
Q 044964 96 ECKDKY--GQIVIPVFYHVEPSNVR-NQTGIFGDAFSMFEERFVGR--EDKLRTWRIALR 150 (163)
Q Consensus 96 ~~~~~~--~~~iiPIf~~v~p~~v~-~~~~~f~~~f~~~~~~~~~~--~~~~~~W~~al~ 150 (163)
++..+. ...|+|||+++.+++++ .+++.|+..|.........+ .+....|++++.
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 987654 48999999999999999 79999999998777665533 568899999875
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.94 E-value=4.2e-26 Score=166.65 Aligned_cols=137 Identities=41% Similarity=0.668 Sum_probs=114.7
Q ss_pred eeeEEEeccc-ccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHH
Q 044964 16 KYDVFLSFRG-EDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKI 94 (163)
Q Consensus 16 ~ydVFISys~-~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~ 94 (163)
+|||||||++ .+....|+.+|...|...|+.+|.|+....|.. ..+|.++|++|+++|+|+||+|+.|+||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~-~~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGD-LEEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccch-HHHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 5999999998 344568999999999999999999974333333 33999999999999999999999999999999999
Q ss_pred HHhhhh-cCceeEeEEeeeCCccccccccchHHHHHHHHHhccCChhHHHHHHHHHHHhhc
Q 044964 95 LECKDK-YGQIVIPVFYHVEPSNVRNQTGIFGDAFSMFEERFVGREDKLRTWRIALREAAN 154 (163)
Q Consensus 95 ~~~~~~-~~~~iiPIf~~v~p~~v~~~~~~f~~~f~~~~~~~~~~~~~~~~W~~al~~v~~ 154 (163)
.++..+ ...+||||+++..|+++..+.+.++..+...+..+..+..+ +.|+.++..+.+
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 987644 67899999999889899999999999988776666543333 789999988764
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.80 E-value=2.7e-20 Score=129.62 Aligned_cols=87 Identities=36% Similarity=0.569 Sum_probs=75.6
Q ss_pred EEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhh
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECK 98 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~ 98 (163)
|||||++.|. .++..|...|++.|+++|+|.++.+|+.+.+.|.++|++|+.+|+++||+|.+|+||..|+..+.+
T Consensus 1 VFIS~~~~D~--~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~-- 76 (102)
T PF13676_consen 1 VFISYSSEDR--EFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 8999999994 699999999999999999999999999999999999999999999999999999999999999943
Q ss_pred hhcCceeEeEEee
Q 044964 99 DKYGQIVIPVFYH 111 (163)
Q Consensus 99 ~~~~~~iiPIf~~ 111 (163)
.+..||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 45589999954
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.17 E-value=8e-11 Score=101.38 Aligned_cols=105 Identities=26% Similarity=0.439 Sum_probs=84.2
Q ss_pred CCCceeeEEEecccccCchhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCc----C---
Q 044964 12 VPQVKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYA----S--- 83 (163)
Q Consensus 12 ~~~~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~----~--- 83 (163)
+.+++.||||||++.- ....++-|...|+-+|++||+|- .+..|+ +.+.+.+.|..++.+|+|++||.+ +
T Consensus 608 ~~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~n 685 (832)
T KOG3678|consen 608 MLSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDN 685 (832)
T ss_pred cccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhcccc
Confidence 5678899999998764 46799999999999999999998 777776 567999999999999999999975 3
Q ss_pred -chhhHHHHHHHHHhhhhcCceeEeEEee---------eCCcccccccc
Q 044964 84 -SGWCLEELVKILECKDKYGQIVIPVFYH---------VEPSNVRNQTG 122 (163)
Q Consensus 84 -S~wc~~El~~~~~~~~~~~~~iiPIf~~---------v~p~~v~~~~~ 122 (163)
-.|..+||.-+.++. ..|||||-. +.|.|++..+.
T Consensus 686 CeDWVHKEl~~Afe~~----KNIiPI~D~aFE~Pt~ed~iPnDirmi~k 730 (832)
T KOG3678|consen 686 CEDWVHKELKCAFEHQ----KNIIPIFDTAFEFPTKEDQIPNDIRMITK 730 (832)
T ss_pred HHHHHHHHHHHHHHhc----CCeeeeecccccCCCchhcCcHHHHHHHh
Confidence 356666777666654 489999843 56667766554
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=98.76 E-value=1.5e-08 Score=73.72 Aligned_cols=89 Identities=24% Similarity=0.385 Sum_probs=47.9
Q ss_pred eeEEEecccccCchhHHHHHHHHHhcC-------Ccee-ee---------cC-cccccccCchhHHHhhhhcceEEEEEe
Q 044964 17 YDVFLSFRGEDTRDNFTSHLYAALCRK-------KIET-FI---------DN-QLIRGEDISPSLLDAIERSKISVVIFS 78 (163)
Q Consensus 17 ydVFISys~~D~~~~fv~~L~~~L~~~-------gi~v-f~---------d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS 78 (163)
|.|||||++.|.. ..+..|...+... .+.. |. +. +....+.+...|.+.|.+|.++||+++
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5799999998842 3777777777662 2211 11 11 222334678899999999999999999
Q ss_pred cCCcCchhhHHHHHHHHHhhhhcCceeEeEEe
Q 044964 79 KGYASSGWCLEELVKILECKDKYGQIVIPVFY 110 (163)
Q Consensus 79 ~~y~~S~wc~~El~~~~~~~~~~~~~iiPIf~ 110 (163)
++...|+|+..|+..+++ .+..||-|.+
T Consensus 80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~~ 107 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK----KGKPIIGVYL 107 (130)
T ss_dssp TT----HHHHHHHHHHTT----T---EEEEET
T ss_pred CCcccCcHHHHHHHHHHH----CCCCEEEEEC
Confidence 999999999999999876 4557888765
No 8
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=98.19 E-value=1e-05 Score=59.75 Aligned_cols=64 Identities=19% Similarity=0.351 Sum_probs=52.9
Q ss_pred eEEEecccccCc-hhHHHHHHHHHhcC-CceeeecC-cccc--cccCchhHHHhhhhcceEEEEEecCC
Q 044964 18 DVFLSFRGEDTR-DNFTSHLYAALCRK-KIETFIDN-QLIR--GEDISPSLLDAIERSKISVVIFSKGY 81 (163)
Q Consensus 18 dVFISys~~D~~-~~fv~~L~~~L~~~-gi~vf~d~-~~~~--G~~~~~~i~~aI~~S~~~IvvlS~~y 81 (163)
-|||||++.... ...|..|...|++. |+.|.+|. +... +..+..=+.+.+++++.+|+|+||.+
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~ 70 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 499999985432 36799999999999 99999999 7743 66677777888999999999999654
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=97.31 E-value=0.00075 Score=49.05 Aligned_cols=96 Identities=19% Similarity=0.157 Sum_probs=68.5
Q ss_pred eEEEecccccCchhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCc-------------C
Q 044964 18 DVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYA-------------S 83 (163)
Q Consensus 18 dVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~-------------~ 83 (163)
.|||.|+ .|. ..+..+...|+..|+.+..-. ....|..+.+.+.+.+.+++..|++++|+=. .
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 3899998 553 688899999998888765544 6689999999999999999999999998522 2
Q ss_pred chhhHHHHHHHHHhhhhcCceeEeEEee--eCCcccc
Q 044964 84 SGWCLEELVKILECKDKYGQIVIPVFYH--VEPSNVR 118 (163)
Q Consensus 84 S~wc~~El~~~~~~~~~~~~~iiPIf~~--v~p~~v~ 118 (163)
-.....|+..++.+. +..+++-+.-+ -.|+|+.
T Consensus 78 R~NVifE~G~f~g~L--Gr~rv~~l~~~~v~~PSDl~ 112 (125)
T PF10137_consen 78 RQNVIFELGLFIGKL--GRERVFILVKGGVELPSDLS 112 (125)
T ss_pred ccceeehhhHHHhhc--CcceEEEEEcCCccCCcccC
Confidence 345677888887643 23344444321 2455553
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=94.33 E-value=0.16 Score=33.85 Aligned_cols=67 Identities=19% Similarity=0.180 Sum_probs=48.3
Q ss_pred eEEEecccccCchhHHHHHHHHHhcCCceeeecCccc-ccccCchhHHHhhhhcceEEEEEecCCcCch
Q 044964 18 DVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLI-RGEDISPSLLDAIERSKISVVIFSKGYASSG 85 (163)
Q Consensus 18 dVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~-~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~ 85 (163)
.||||-.-.|.. .--..|...|.+.|+.+..-+.+. .+....+.+.+.|++|+++|.++-..|-..+
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~ 68 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP 68 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence 389998777763 455677788877777654433222 2455567889999999999999999997543
No 11
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=93.05 E-value=0.73 Score=32.16 Aligned_cols=67 Identities=15% Similarity=0.056 Sum_probs=49.7
Q ss_pred hhHHHHHHHHHhcCCceeeecC--ccc---cc----ccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHh
Q 044964 30 DNFTSHLYAALCRKKIETFIDN--QLI---RG----EDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILEC 97 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~--~~~---~G----~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~ 97 (163)
..+...+.+.|++.|+.++... +.. .+ ..+.+.-.++|++|+++|+++.+.- .+.-+..|+..|...
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~al 88 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYAL 88 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHC
Confidence 5688999999999999988765 221 12 3344455678999999999998766 567788999998653
No 12
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=93.05 E-value=0.13 Score=41.90 Aligned_cols=101 Identities=17% Similarity=0.156 Sum_probs=68.6
Q ss_pred CCCceeeEEEecccccCchhHHHHHHHHHhc--CCceeeecCc----ccccccCchhHHHhh-hhcceEEEEEecCCcCc
Q 044964 12 VPQVKYDVFLSFRGEDTRDNFTSHLYAALCR--KKIETFIDNQ----LIRGEDISPSLLDAI-ERSKISVVIFSKGYASS 84 (163)
Q Consensus 12 ~~~~~ydVFISys~~D~~~~fv~~L~~~L~~--~gi~vf~d~~----~~~G~~~~~~i~~aI-~~S~~~IvvlS~~y~~S 84 (163)
...+.||+=|||.++- +..|++...+++. ..+..|+|-+ +-+| ++.+-+...- ..|+..++.+..+|...
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~-sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPG-SLVSTLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCc-cHHHhcccccCceEEEEEEEeCCceEEe
Confidence 4567899999999875 4799999999994 4566788762 2233 3332333332 36888889999999999
Q ss_pred hhhHHHHHHHHHhhhhcCceeEeEEe-eeCCccc
Q 044964 85 GWCLEELVKILECKDKYGQIVIPVFY-HVEPSNV 117 (163)
Q Consensus 85 ~wc~~El~~~~~~~~~~~~~iiPIf~-~v~p~~v 117 (163)
.||..|...+-+.. .-+.+.||.| ++..+-+
T Consensus 250 ~~c~~E~~~~r~~~--~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 250 STCHIEGLEGRLNP--ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred eeeccchhhccccc--cccccceEEEEecCCccc
Confidence 99999987764321 2245677766 3444433
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=90.98 E-value=0.89 Score=35.72 Aligned_cols=104 Identities=18% Similarity=0.149 Sum_probs=70.1
Q ss_pred CCCCCCceeeEEEecccccCchhHHHHHHHHHhcC--CceeeecCcccccccCchhHHHhhhhcceEEEEEecCCc----
Q 044964 9 TATVPQVKYDVFLSFRGEDTRDNFTSHLYAALCRK--KIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYA---- 82 (163)
Q Consensus 9 ~s~~~~~~ydVFISys~~D~~~~fv~~L~~~L~~~--gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~---- 82 (163)
.|.|..+ .|||-|++ | ..+.....+|.+. -..+|.|.-+..|..+.+.+.+-|.+++..|++.+|+=.
T Consensus 77 ~t~p~~k--kvFvv~gh-d---~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~ 150 (233)
T COG4271 77 ATMPNLK--KVFVVSGH-D---AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRA 150 (233)
T ss_pred cccCCce--eEEEEecc-H---HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCccccccc
Confidence 3444444 99999976 4 3777777777643 345677777888999999999999999999999999843
Q ss_pred ----------CchhhHHHHHHHHHhhhhcCceeEeEEee----eCCcccccc
Q 044964 83 ----------SSGWCLEELVKILECKDKYGQIVIPVFYH----VEPSNVRNQ 120 (163)
Q Consensus 83 ----------~S~wc~~El~~~~~~~~~~~~~iiPIf~~----v~p~~v~~~ 120 (163)
.-.....||..++.+. ++.+|+-+.-+ --|||+...
T Consensus 151 ~~~~~k~~praRqNVifELGm~mgrL--gRkrv~Il~k~~envelPSDi~Gv 200 (233)
T COG4271 151 VHSREKAFPRARQNVIFELGMFMGRL--GRKRVMILMKRDENVELPSDIAGV 200 (233)
T ss_pred ccchhhccccccccchhhHhhHHhhc--ccceEEEEecccccccCccccCce
Confidence 1223566777777543 23344433321 257776543
No 14
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=82.74 E-value=9.5 Score=24.03 Aligned_cols=61 Identities=18% Similarity=0.179 Sum_probs=37.4
Q ss_pred HHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhcCceeE
Q 044964 34 SHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKYGQIVI 106 (163)
Q Consensus 34 ~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~ii 106 (163)
..+++.|++.|+++-... ...+++....-++++++|.+.-+. ..++..+.+..+.++..||
T Consensus 8 ~a~~~~L~~~g~~v~~~~----------~~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWR----------KPYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEec----------ccHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 456778888898874322 113344558889999999966554 3455555554455555544
No 15
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=80.56 E-value=7.3 Score=25.26 Aligned_cols=61 Identities=11% Similarity=0.141 Sum_probs=38.8
Q ss_pred eeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCC
Q 044964 17 YDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGY 81 (163)
Q Consensus 17 ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y 81 (163)
++|+|...+.+. ...+..+...|++.|+++-+|. .+.++...+..|-+.---.++++.++-
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~---~~~~~~~~~~~a~~~g~~~~iiig~~e 62 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDL---RNEKLGKKIREAQLQKIPYILVVGDKE 62 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECcch
Confidence 677777655433 4578899999999999998875 123555555565443333455555443
No 16
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=77.11 E-value=16 Score=24.84 Aligned_cols=62 Identities=15% Similarity=0.026 Sum_probs=41.7
Q ss_pred HHHHHHHHhcCCceeeecCcc--cccccCchhH---HHhhhhcceEEEEEecCCcCchhhHHHHHHHHH
Q 044964 33 TSHLYAALCRKKIETFIDNQL--IRGEDISPSL---LDAIERSKISVVIFSKGYASSGWCLEELVKILE 96 (163)
Q Consensus 33 v~~L~~~L~~~gi~vf~d~~~--~~G~~~~~~i---~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~ 96 (163)
.......|+.+|+.|.---.. ..|.++.+-+ ...|..|+..+ +=|+.-+|+-|+.|...|.+
T Consensus 18 f~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~--~l~gWe~S~GA~~E~~~A~~ 84 (92)
T PF14359_consen 18 FNAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIY--MLPGWENSRGARLEHELAKK 84 (92)
T ss_pred HHHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEE--EcCCcccCcchHHHHHHHHH
Confidence 345778899999776532233 5555544433 33456677444 44999999999999999864
No 17
>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=73.93 E-value=14 Score=24.03 Aligned_cols=61 Identities=20% Similarity=0.231 Sum_probs=38.9
Q ss_pred eeEEEeccccc--CchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecC
Q 044964 17 YDVFLSFRGED--TRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 17 ydVFISys~~D--~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
++|+|-..+.+ .....+..+...|++.|+.+-+|. .+..+...+..+-..--..++++.++
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~---~~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDD---RERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecC---CCcCHhHHHHHHHhCCCCEEEEECCC
Confidence 56766654330 124678889999999999998865 23455555555544444567777763
No 18
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=69.63 E-value=11 Score=24.92 Aligned_cols=48 Identities=13% Similarity=0.156 Sum_probs=32.2
Q ss_pred hhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecC
Q 044964 30 DNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
..++.+|...|.+.|+.+.+|. .+..+...+..|-..---+++|+.++
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~---~~~~~~k~~~~a~~~g~p~~iiiG~~ 62 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDD---SDKSLGKQIKYADKLGIPFIIIIGEK 62 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEES---SSSTHHHHHHHHHHTTESEEEEEEHH
T ss_pred HHHHHHHHHHHHHCCCEEEEEC---CCCchhHHHHHHhhcCCeEEEEECch
Confidence 4688999999999999999986 33344445556654433455555543
No 19
>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=69.26 E-value=28 Score=23.19 Aligned_cols=64 Identities=11% Similarity=0.112 Sum_probs=40.1
Q ss_pred EEEecccccCchhHHHHHHHHHhcCCceeeecC-ccc-------ccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN-QLI-------RGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~-------~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
+|.|..+--.+-.++.+|...|.++|.++..-+ |.. -+..+......++..|+..|+++.++..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~ 74 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPL 74 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHH
Confidence 356665444345678999999998998876644 422 1112234445677778877777777544
No 20
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=67.56 E-value=7.5 Score=31.82 Aligned_cols=45 Identities=24% Similarity=0.414 Sum_probs=27.4
Q ss_pred hhhHHHHHHHHHh---h-hhcCceeEeEEeeeCCc-cccccccchHHHHH
Q 044964 85 GWCLEELVKILEC---K-DKYGQIVIPVFYHVEPS-NVRNQTGIFGDAFS 129 (163)
Q Consensus 85 ~wc~~El~~~~~~---~-~~~~~~iiPIf~~v~p~-~v~~~~~~f~~~f~ 129 (163)
.=|.+||.+.... . ...+..++|||+-++|. |-......|-..|.
T Consensus 153 DICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPeRD~~~~~~eY~~eF~ 202 (280)
T KOG2792|consen 153 DICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPERDSVEVVAEYVSEFH 202 (280)
T ss_pred CcChHHHHHHHHHHHHHhccCCCCccceEEEeCcccCCHHHHHHHHHhcC
Confidence 3489999876543 2 23456777999999995 23333333444444
No 21
>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=66.70 E-value=19 Score=25.31 Aligned_cols=62 Identities=10% Similarity=-0.056 Sum_probs=41.6
Q ss_pred eeeEEEeccc--ccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 16 KYDVFLSFRG--EDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 16 ~ydVFISys~--~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
.+||||-.-+ .+ ....+..|...|++.|+++-+|.. .++...+..|-+.---.++++.++-.
T Consensus 26 p~~v~Ii~~~~~~~-~~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e~ 89 (121)
T cd00858 26 PIKVAVLPLVKRDE-LVEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDTL 89 (121)
T ss_pred CcEEEEEecCCcHH-HHHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCch
Confidence 4688887755 22 245778899999999999988642 45666666665544446666666543
No 22
>COG0400 Predicted esterase [General function prediction only]
Probab=65.46 E-value=25 Score=27.60 Aligned_cols=58 Identities=19% Similarity=0.146 Sum_probs=44.2
Q ss_pred CCCCCceeeEEEecccccC--chhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhh
Q 044964 10 ATVPQVKYDVFLSFRGEDT--RDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIE 68 (163)
Q Consensus 10 s~~~~~~ydVFISys~~D~--~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~ 68 (163)
..+.....-|||+|-..|. ......+|.+.|+..|..|.... ...|-++..+-.+++.
T Consensus 140 ~~~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 140 LLPDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAAR 199 (207)
T ss_pred cccccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHH
Confidence 3456677899999988886 35678999999999999998775 3377777766555554
No 23
>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=58.60 E-value=12 Score=26.90 Aligned_cols=33 Identities=6% Similarity=0.016 Sum_probs=25.9
Q ss_pred hhHHHHHHHHHhcCCceeeecC-cc---cccccCchh
Q 044964 30 DNFTSHLYAALCRKKIETFIDN-QL---IRGEDISPS 62 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~-~~---~~G~~~~~~ 62 (163)
...+.+|+..|++.|+.++.|+ +- .+|..+.+.
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~~ 79 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDKY 79 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHhh
Confidence 5688999999999999999988 43 567666543
No 24
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=55.21 E-value=21 Score=26.02 Aligned_cols=55 Identities=16% Similarity=0.083 Sum_probs=39.8
Q ss_pred eeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcce
Q 044964 17 YDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKI 72 (163)
Q Consensus 17 ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~ 72 (163)
.++|+-..+.=....++..|..++..+|+-++.|.| .+|+.+...+.+.+.++..
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~~ 84 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAKG 84 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhccccc
Confidence 456666544321145888899999999999999875 4788888888888877544
No 25
>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=54.15 E-value=36 Score=22.12 Aligned_cols=50 Identities=20% Similarity=0.253 Sum_probs=32.4
Q ss_pred hhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 30 DNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
...+..|...|++.|+++.+|.. +..+...+..|-..---.++++.++-.
T Consensus 17 ~~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e~ 66 (94)
T cd00861 17 QELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKSA 66 (94)
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCchh
Confidence 35788999999999999998761 234444555554444445566665443
No 26
>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=53.36 E-value=65 Score=21.96 Aligned_cols=61 Identities=18% Similarity=0.273 Sum_probs=35.2
Q ss_pred eEEEecccccCchhHHHHHHHHHhcCCceeeecC---------cc-----cccccCchhHHHhhhhcceEEEEEecC
Q 044964 18 DVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN---------QL-----IRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 18 dVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~---------~~-----~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
.||+|.+..|. .-...+...|.+.|++++--. .+ .....-.+++.+.|++-++.++|-.|+
T Consensus 2 ~vl~s~~~~~k--~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDK--PEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcH--hHHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 38899987763 344577778888888886421 11 000001145666666666666666554
No 27
>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=51.47 E-value=71 Score=25.54 Aligned_cols=68 Identities=18% Similarity=0.032 Sum_probs=47.7
Q ss_pred hhHHHHHHHHHhcCCceeeecC--cccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhh
Q 044964 30 DNFTSHLYAALCRKKIETFIDN--QLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKD 99 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~--~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~ 99 (163)
..++.+|.+.|.+.|+.+-.+. .+--|--+. +.-...+.++-||.+|.+...+..-..+|.++++...
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 4799999999999999886543 233333221 2222334678899999988877877788999887544
No 28
>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=50.22 E-value=14 Score=25.41 Aligned_cols=55 Identities=16% Similarity=0.237 Sum_probs=34.3
Q ss_pred ccCchhHHHHHHHHHhcCCceeeecC-cccc----------cccCchhHHHhhhhcceEEEEEecC
Q 044964 26 EDTRDNFTSHLYAALCRKKIETFIDN-QLIR----------GEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 26 ~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~----------G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
.|.|.+=+-.|.+.|.++|+.|...+ -+.. |-.+.+.+.++++.+++.|+.-..+
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~ 77 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHD 77 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--G
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCH
Confidence 47788889999999999999986654 3221 2233456678888888877755533
No 29
>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=49.67 E-value=5.1 Score=30.39 Aligned_cols=58 Identities=22% Similarity=0.328 Sum_probs=30.6
Q ss_pred chhhHHHHHHHHHhhhhcCceeEeEEeeeCCccccccccchHHHHHHHHHhccCChhHHHHHHHHHH
Q 044964 84 SGWCLEELVKILECKDKYGQIVIPVFYHVEPSNVRNQTGIFGDAFSMFEERFVGREDKLRTWRIALR 150 (163)
Q Consensus 84 S~wc~~El~~~~~~~~~~~~~iiPIf~~v~p~~v~~~~~~f~~~f~~~~~~~~~~~~~~~~W~~al~ 150 (163)
|.|.+.||..-++..+-+.=.=+-+.+.|.|-++..... .+++..+.-++++|+.|++
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS---------tQKvqQYaVRLKRWM~aMH 111 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS---------TQKVQQYAVRLKRWMRAMH 111 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc---------hHHHHHHHHHHHHHHHHhh
Confidence 356666766554432211112223345677777654211 2222233568899999986
No 30
>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=49.49 E-value=24 Score=27.06 Aligned_cols=50 Identities=16% Similarity=0.195 Sum_probs=39.1
Q ss_pred hhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 30 DNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
..-...|..+.+.+|+-+|.|.| .+|+.|...|.+.+.++...-+ ++.+.
T Consensus 35 ~~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~khafi--~~~~a 84 (174)
T TIGR00334 35 DETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENCFI--PKHLA 84 (174)
T ss_pred HHHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEEee--eHHhc
Confidence 45677888888999999999986 4899999899998888776443 54444
No 31
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=48.91 E-value=94 Score=22.03 Aligned_cols=85 Identities=15% Similarity=0.240 Sum_probs=45.6
Q ss_pred CCceeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhc---ceEEEEEecCCcCchhhHH
Q 044964 13 PQVKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERS---KISVVIFSKGYASSGWCLE 89 (163)
Q Consensus 13 ~~~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S---~~~IvvlS~~y~~S~wc~~ 89 (163)
....+|++|.|...... .....+ ....++.++. +.|..+.+.+.++++.. .-.|+++.-+... -+..
T Consensus 7 ~~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~~----Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~~ 76 (122)
T PF09837_consen 7 QADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFFP----QQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTPD 76 (122)
T ss_dssp -TSSSEEEEEE----TT-HHHHHH---HH-TTSEEEE------SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----HH
T ss_pred cCCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEee----cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCHH
Confidence 44568999999876543 333332 4445666653 57777777777777765 3367777766554 2455
Q ss_pred HHHHHHHhhhhcCceeEe
Q 044964 90 ELVKILECKDKYGQIVIP 107 (163)
Q Consensus 90 El~~~~~~~~~~~~~iiP 107 (163)
.|..+.+..+....++-|
T Consensus 77 ~l~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 77 DLEQAFEALQRHDVVLGP 94 (122)
T ss_dssp HHHHHHHHTTT-SEEEEE
T ss_pred HHHHHHHHhccCCEEEee
Confidence 667776665555556666
No 32
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=46.59 E-value=25 Score=28.93 Aligned_cols=98 Identities=19% Similarity=0.410 Sum_probs=70.8
Q ss_pred CceeeEEEecccccCchhHHHHHHHHHhcCCceeeecC-cc--cccccCchhHHHhhh--hcceEEEEEecCCcCchhhH
Q 044964 14 QVKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN-QL--IRGEDISPSLLDAIE--RSKISVVIFSKGYASSGWCL 88 (163)
Q Consensus 14 ~~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~-~~--~~G~~~~~~i~~aI~--~S~~~IvvlS~~y~~S~wc~ 88 (163)
.-++.+=+||.++|. .+++....-|...|+.+|+|- +- ..|.++.+ ++..|- ..-+++...|.+|-...|..
T Consensus 4 ~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~~~~ 80 (329)
T COG4916 4 NVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKMWTN 80 (329)
T ss_pred chheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcCCCc
Confidence 345677889998884 699999999999999999986 21 24555442 233332 35567888999999999999
Q ss_pred HHHHHHHHh-hhhcCceeEeEEeeeCC
Q 044964 89 EELVKILEC-KDKYGQIVIPVFYHVEP 114 (163)
Q Consensus 89 ~El~~~~~~-~~~~~~~iiPIf~~v~p 114 (163)
.|++..... ..+....++|-.++..|
T Consensus 81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 81 HERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred HHHHHHHHHHhhhccEEehhhhhccCC
Confidence 999887654 34555688888876433
No 33
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=45.68 E-value=94 Score=21.08 Aligned_cols=60 Identities=20% Similarity=0.126 Sum_probs=38.3
Q ss_pred HHHHHHHHHhcCCceee-ecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhh
Q 044964 32 FTSHLYAALCRKKIETF-IDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKD 99 (163)
Q Consensus 32 fv~~L~~~L~~~gi~vf-~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~ 99 (163)
=...|...|++.|+.+- +|-+..+ +++.+.+.+.+--++.+|-.+.. ...++..+.+..+
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~k 76 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTP---NLPEAKRLARAIK 76 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHHH
Confidence 34678889999999984 4433322 67888888888878888765443 3344444444333
No 34
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=43.53 E-value=32 Score=29.96 Aligned_cols=64 Identities=17% Similarity=0.118 Sum_probs=40.3
Q ss_pred eeeEEEeccc--ccCchhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCcC
Q 044964 16 KYDVFLSFRG--EDTRDNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYAS 83 (163)
Q Consensus 16 ~ydVFISys~--~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~ 83 (163)
.++|+|---+ .+.....+..|...|.+.|++|.+|. +-.+|..+ ..|-..---.++|+.++-+.
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~ki----~~a~~~giP~~iiVG~~e~~ 411 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAKF----ATMDLIGLPWQIIVGPKGLA 411 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHHH----HHHHHcCCCEEEEECCcccc
Confidence 3688776432 22234688999999999999999987 54455443 34433333356666665443
No 35
>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=42.63 E-value=36 Score=23.57 Aligned_cols=29 Identities=7% Similarity=0.027 Sum_probs=22.2
Q ss_pred EEEecccccCchhHHHHHHHHHhcCCceeee
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRKKIETFI 49 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~gi~vf~ 49 (163)
||||.+..|. .-...+...|.+.|++++-
T Consensus 3 vlisv~~~dk--~~~~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSK--PELLPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCcccc--hhHHHHHHHHHHCCCEEEE
Confidence 7999987764 3455788888888998864
No 36
>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=42.55 E-value=23 Score=24.23 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=14.3
Q ss_pred CChhHHHHHHHHHHHhh
Q 044964 137 GREDKLRTWRIALREAA 153 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v~ 153 (163)
+++++.++|+.||..|.
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 36899999999998773
No 37
>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=41.66 E-value=58 Score=29.09 Aligned_cols=62 Identities=13% Similarity=0.184 Sum_probs=42.3
Q ss_pred ceeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecC
Q 044964 15 VKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 15 ~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
...+|+|-.-+++. ...+..|...|++.|++|-+|. .+.++...+..|-+.---.++|+.++
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~---~~~sl~~q~k~A~~~g~~~~iiiG~~ 530 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDD---RNERLGKKIREAQKQKIPYMLVVGDK 530 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEEC---CCCCHHHHHHHHHhcCCCEEEEEchh
Confidence 45778877655443 4688999999999999999875 24556666666655444456666553
No 38
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=40.83 E-value=1.1e+02 Score=20.45 Aligned_cols=58 Identities=10% Similarity=0.099 Sum_probs=37.1
Q ss_pred HHHHHHHHHhcCCceeeecCccccccc-CchhHHHhhhhcceEEEEEecCCcCchhhHHH
Q 044964 32 FTSHLYAALCRKKIETFIDNQLIRGED-ISPSLLDAIERSKISVVIFSKGYASSGWCLEE 90 (163)
Q Consensus 32 fv~~L~~~L~~~gi~vf~d~~~~~G~~-~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~E 90 (163)
....+...+++.|...-.. .-..|.. -...+...|.+++..|++..---....|...+
T Consensus 11 ~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~ 69 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKK 69 (97)
T ss_pred cHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHH
Confidence 5567888899999886554 1111211 11247888999999988876655555554443
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=40.51 E-value=76 Score=19.80 Aligned_cols=59 Identities=22% Similarity=0.179 Sum_probs=33.7
Q ss_pred eeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEec
Q 044964 17 YDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSK 79 (163)
Q Consensus 17 ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~ 79 (163)
.||+|...+.+. ..-+-.+...|.+.|+++.++.. +..+...+..|-...-..++++.+
T Consensus 2 ~~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 2 VDVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred CcEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 367776544332 34577889999999999987641 123333444443333334555554
No 40
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=39.46 E-value=1.1e+02 Score=24.61 Aligned_cols=76 Identities=21% Similarity=0.222 Sum_probs=47.0
Q ss_pred hhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhcC--ceeEe
Q 044964 30 DNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKYG--QIVIP 107 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~--~~iiP 107 (163)
..+...|....+.+| ..++|=++..++....++.+.-.+-. +|+|-|..++.+..+|+..++..+...+ -.-|.
T Consensus 78 ~~~i~ll~~la~~~~-~d~iDiEl~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~aDivKiA 153 (231)
T COG0710 78 EEYIELLKKLAELNG-PDYIDIELSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLGADIVKIA 153 (231)
T ss_pred HHHHHHHHHHHhhcC-CCEEEEEccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhCCCeEEEE
Confidence 346667776667666 34566544444322223333333333 8899999999999999999988775544 33444
Q ss_pred EE
Q 044964 108 VF 109 (163)
Q Consensus 108 If 109 (163)
+.
T Consensus 154 vm 155 (231)
T COG0710 154 VM 155 (231)
T ss_pred ec
Confidence 43
No 41
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=39.25 E-value=32 Score=23.51 Aligned_cols=19 Identities=21% Similarity=0.380 Sum_probs=15.9
Q ss_pred CChhHHHHHHHHHHHhhcc
Q 044964 137 GREDKLRTWRIALREAANI 155 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v~~~ 155 (163)
.++++..+|+.||..|-+.
T Consensus 84 ~s~~e~~~Wi~ai~~v~~~ 102 (103)
T cd01251 84 ETEQDRREWIAAFQNVLSR 102 (103)
T ss_pred CCHHHHHHHHHHHHHHhcC
Confidence 3688999999999988664
No 42
>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=38.62 E-value=44 Score=21.40 Aligned_cols=26 Identities=15% Similarity=0.239 Sum_probs=12.0
Q ss_pred CCceeeecCcccccccCchhHHHhhhh
Q 044964 43 KKIETFIDNQLIRGEDISPSLLDAIER 69 (163)
Q Consensus 43 ~gi~vf~d~~~~~G~~~~~~i~~aI~~ 69 (163)
+.+-+|+|.| .+|......+.+.+..
T Consensus 44 ~~vii~~D~D-~aG~~a~~~~~~~l~~ 69 (79)
T cd03364 44 KEVILAFDGD-EAGQKAALRALELLLK 69 (79)
T ss_pred CeEEEEECCC-HHHHHHHHHHHHHHHH
Confidence 3455555543 3454444444444433
No 43
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=38.55 E-value=84 Score=27.10 Aligned_cols=56 Identities=27% Similarity=0.567 Sum_probs=38.6
Q ss_pred cccccccCchhHHHhhhhcceEEEEEecCCc----CchhhHH-HHHH-HHHhhhhcCceeEeEEe
Q 044964 52 QLIRGEDISPSLLDAIERSKISVVIFSKGYA----SSGWCLE-ELVK-ILECKDKYGQIVIPVFY 110 (163)
Q Consensus 52 ~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~----~S~wc~~-El~~-~~~~~~~~~~~iiPIf~ 110 (163)
++.|...+.. .-|..+|--++|--..|+ .|+.|++ |+.+ ..+|-..++.++||||-
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 5555555442 236667777766666666 5888977 5544 56788889999999995
No 44
>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=38.39 E-value=1.3e+02 Score=20.65 Aligned_cols=60 Identities=23% Similarity=0.289 Sum_probs=36.5
Q ss_pred EEEecccccCchhHHHHHHHHHhcCCceeeecC---------cc-----ccccc-CchhHHHhhhh-cceEEEEEecC
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN---------QL-----IRGED-ISPSLLDAIER-SKISVVIFSKG 80 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~---------~~-----~~G~~-~~~~i~~aI~~-S~~~IvvlS~~ 80 (163)
||||-+..|. .-...+...|.+.|++++-=. .+ ..+.. -.+++.+.|.+ -++-++|..|+
T Consensus 2 i~isv~d~~K--~~~~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHVK--AMLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccH--HHHHHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 7888876663 344467777778788775321 11 11100 12567778888 78887777765
No 45
>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=37.82 E-value=2.2e+02 Score=23.01 Aligned_cols=76 Identities=16% Similarity=0.107 Sum_probs=50.8
Q ss_pred hhHHHHHHHHHhcCCceee-ecC-c--ccccccCchhHHHhh--hhcceEEEEEecCCcCchhhHHHHHHHHHh-hhhcC
Q 044964 30 DNFTSHLYAALCRKKIETF-IDN-Q--LIRGEDISPSLLDAI--ERSKISVVIFSKGYASSGWCLEELVKILEC-KDKYG 102 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf-~d~-~--~~~G~~~~~~i~~aI--~~S~~~IvvlS~~y~~S~wc~~El~~~~~~-~~~~~ 102 (163)
..++..|.+.|.+.|+.+- .|. . +--|--+. +.-+ ...++-|+.+|.+...+.....+|.+++.. .++.+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vP---L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~ 166 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITA---CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQN 166 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHH---HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 4799999999999999885 555 2 22332221 2223 246677888998887777778899998874 44444
Q ss_pred ceeEeE
Q 044964 103 QIVIPV 108 (163)
Q Consensus 103 ~~iiPI 108 (163)
.+|+-|
T Consensus 167 ~rV~iI 172 (271)
T cd07373 167 KRVAVV 172 (271)
T ss_pred CeEEEE
Confidence 566644
No 46
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=35.51 E-value=29 Score=31.21 Aligned_cols=64 Identities=17% Similarity=0.227 Sum_probs=40.5
Q ss_pred ceeeEEEeccc-c-cCchhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 15 VKYDVFLSFRG-E-DTRDNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 15 ~~ydVFISys~-~-D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
..++|+|---. + +.....+..|+..|++.|+++.+|+ +-.+|..+.+.-.. ... .++++.++..
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad~~---GiP-~~iiiG~~e~ 533 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADADLI---GIP-HRIVVGDRGL 533 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHHhc---CCC-EEEEEcCccc
Confidence 34788876543 2 2224688999999999999999998 55566554432222 222 4555666544
No 47
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=35.22 E-value=1.9e+02 Score=22.96 Aligned_cols=58 Identities=17% Similarity=0.174 Sum_probs=32.4
Q ss_pred EEEecccccCchhHHHHHHHHHhcCCceeeecCcccccc-cCchhHHHhhhhcceEEEEE
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGE-DISPSLLDAIERSKISVVIF 77 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~-~~~~~i~~aI~~S~~~Ivvl 77 (163)
|.+-|...+-....+..|...|++.|+++-....+.+|. .+. .+...|+++..-++++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~-~~l~~i~~~~~~~vi~ 196 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFS-AILTKIKAANPDAVFF 196 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHH-HHHHHHHhcCCCEEEE
Confidence 444454333334567778888888888875544555553 343 4455566544444443
No 48
>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=35.16 E-value=1.5e+02 Score=21.18 Aligned_cols=46 Identities=7% Similarity=0.055 Sum_probs=28.8
Q ss_pred hhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhcCceeEeEE
Q 044964 61 PSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKYGQIVIPVF 109 (163)
Q Consensus 61 ~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPIf 109 (163)
..+.+.+..+++.|+|++.+-. |...+...+.+.......+.+-|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~~---~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQD---LTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTST---GGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCcc---cchHHHHHHHHHhcCCCCeEEEEE
Confidence 4567778999999999977763 444455555444444444555443
No 49
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=33.66 E-value=1.6e+02 Score=23.96 Aligned_cols=65 Identities=8% Similarity=-0.035 Sum_probs=36.2
Q ss_pred eEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 18 DVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 18 dVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
.|.+-|...+-....+..+...+++.|+.+-....+.++..=.......|.+++.-++++.-...
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~i~~l~~~~~d~v~~~~~~~ 210 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTSEVLKLKAANPDAILPASYTN 210 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHHHHHHHHhcCCCEEEEcccch
Confidence 35555533222245677777788888888765445555543223455556665555555554433
No 50
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=32.84 E-value=1e+02 Score=26.68 Aligned_cols=60 Identities=15% Similarity=0.128 Sum_probs=38.7
Q ss_pred eeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEec
Q 044964 16 KYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSK 79 (163)
Q Consensus 16 ~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~ 79 (163)
.++|+|-.-+++. ...+..|...|++.|+++.+|. .+..+...+..|-+.---.++++.+
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl---~srSLgKQiK~AdK~GaPfvIIIGe 333 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDD---LDDSLGNKIRRAGTEWIPFVIIIGE 333 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECc
Confidence 3577666544443 4578899999999999999875 2345555666665443334444443
No 51
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=32.77 E-value=2e+02 Score=21.73 Aligned_cols=54 Identities=7% Similarity=0.054 Sum_probs=31.4
Q ss_pred HHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhc---CceeEeEEeeeCCccccc
Q 044964 63 LLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKY---GQIVIPVFYHVEPSNVRN 119 (163)
Q Consensus 63 i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~---~~~iiPIf~~v~p~~v~~ 119 (163)
...+++.++.+|+|++.+ ++.-.+++....+..... ...-+|+++=....|+..
T Consensus 74 ~~~~~~~ad~iilv~D~~---~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~ 130 (198)
T cd04142 74 RFRGLRNSRAFILVYDIC---SPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR 130 (198)
T ss_pred HHhhhccCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence 445688999999999976 344444444443322111 123367776556666643
No 52
>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=32.37 E-value=51 Score=25.49 Aligned_cols=46 Identities=15% Similarity=0.091 Sum_probs=32.1
Q ss_pred eeeEEEeccccc--C---chhHHHHHHHHHhcCCceeeecC-cc-cccccCch
Q 044964 16 KYDVFLSFRGED--T---RDNFTSHLYAALCRKKIETFIDN-QL-IRGEDISP 61 (163)
Q Consensus 16 ~ydVFISys~~D--~---~~~fv~~L~~~L~~~gi~vf~d~-~~-~~G~~~~~ 61 (163)
.++|+|---+.+ . -...+..|...|.+.||++.+|. +- .+|..+..
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHH
Confidence 466766543222 0 13578999999999999999988 54 77776654
No 53
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display str
Probab=30.92 E-value=45 Score=22.85 Aligned_cols=17 Identities=12% Similarity=0.374 Sum_probs=14.4
Q ss_pred CChhHHHHHHHHHHHhh
Q 044964 137 GREDKLRTWRIALREAA 153 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v~ 153 (163)
+++++++.|..|+.+|+
T Consensus 92 ~s~ee~~~Wi~~I~~~~ 108 (108)
T cd01266 92 KNEEEMTLWVNCICKLC 108 (108)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 36899999999998874
No 54
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=29.98 E-value=1.2e+02 Score=26.17 Aligned_cols=60 Identities=13% Similarity=0.219 Sum_probs=39.8
Q ss_pred eeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEec
Q 044964 16 KYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSK 79 (163)
Q Consensus 16 ~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~ 79 (163)
..||+|.+-+.+. ...+-.+...|.++|+++-+|. .+..+...+..|-+..-..++|+.+
T Consensus 325 ~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~---~~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 325 SIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDL---SSSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEee---CCCCHHHHHHHHHHcCCCEEEEEec
Confidence 4689998754432 3577889999999999987753 1244555666665544445666665
No 55
>cd01238 PH_Tec Tec pleckstrin homology (PH) domain. Tec pleckstrin homology (PH) domain. Proteins in the Tec family of cytoplasmic protein tyrosine kinases that includes Bruton's tyrosine kinase (BTK), BMX, IL2-inducible T-cell kinase (Itk) and Tec. These proteins generally have an N-terminal PH domain, followed by a Tek homology (TH) domain, a SH3 domain, a SH2 domain and a kinase domain. Tec PH domains tether these proteins to membranes following the activation of PI3K and its subsequent phosphorylation of phosphoinositides. The importance of PH domain membrane anchoring is confirmed by the discovery of a mutation of a critical arginine residue in the BTK PH domain, which causes X-linked agammaglobulinemia (XLA) in humans and a related disorder is mice. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few dis
Probab=29.67 E-value=45 Score=22.91 Aligned_cols=15 Identities=27% Similarity=0.554 Sum_probs=13.0
Q ss_pred ChhHHHHHHHHHHHh
Q 044964 138 REDKLRTWRIALREA 152 (163)
Q Consensus 138 ~~~~~~~W~~al~~v 152 (163)
++++.++|..||.+|
T Consensus 92 s~~er~~WI~ai~~~ 106 (106)
T cd01238 92 TEELRKRWIKALKQV 106 (106)
T ss_pred CHHHHHHHHHHHHhC
Confidence 578999999999875
No 56
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=29.67 E-value=1.3e+02 Score=26.09 Aligned_cols=46 Identities=26% Similarity=0.252 Sum_probs=35.2
Q ss_pred hhHHHhhhhcc-eEEEEEecCCc-CchhhHHHHHHHHHhhhhcCceeE
Q 044964 61 PSLLDAIERSK-ISVVIFSKGYA-SSGWCLEELVKILECKDKYGQIVI 106 (163)
Q Consensus 61 ~~i~~aI~~S~-~~IvvlS~~y~-~S~wc~~El~~~~~~~~~~~~~ii 106 (163)
+.+.+++.+.+ .+.++++|+=. ..-|..+||.++.+...+.+-+||
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 47778888887 78888888765 678999999999886655555554
No 57
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=29.63 E-value=80 Score=24.62 Aligned_cols=47 Identities=30% Similarity=0.366 Sum_probs=31.2
Q ss_pred cCchhHHHHHHHHHhcCC--ceeeecCcccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 27 DTRDNFTSHLYAALCRKK--IETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 27 D~~~~fv~~L~~~L~~~g--i~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
|..++|+-.|++.|.+.| +.|+..+ .+.. ..++..+--.+|+||.=-
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd------~~~~---~~~~~~~pd~iviSPGPG 56 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRND------DISL---ELIEALKPDAIVISPGPG 56 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECC------ccCH---HHHhhcCCCEEEEcCCCC
Confidence 344589999999999987 4455433 1221 156666667889997643
No 58
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=29.39 E-value=47 Score=21.94 Aligned_cols=15 Identities=27% Similarity=0.341 Sum_probs=12.7
Q ss_pred CChhHHHHHHHHHHH
Q 044964 137 GREDKLRTWRIALRE 151 (163)
Q Consensus 137 ~~~~~~~~W~~al~~ 151 (163)
++++++++|+.||..
T Consensus 81 ~s~~e~~~Wi~ai~~ 95 (96)
T cd01260 81 ETLDDLSQWVNHLIT 95 (96)
T ss_pred CCHHHHHHHHHHHHh
Confidence 368899999999975
No 59
>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=29.39 E-value=2e+02 Score=20.88 Aligned_cols=92 Identities=18% Similarity=0.215 Sum_probs=46.8
Q ss_pred HHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhcCceeEeEEe--
Q 044964 33 TSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKYGQIVIPVFY-- 110 (163)
Q Consensus 33 v~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPIf~-- 110 (163)
+..|...|.+.|+...+- .|+. .+.+.+-+++..+.-|++..+|..-. ...-..+.+...+.+..+.-+--
T Consensus 55 L~~L~~~L~~~g~~L~v~----~g~~-~~~l~~l~~~~~~~~V~~~~~~~~~~--~~rd~~v~~~l~~~~i~~~~~~~~~ 127 (165)
T PF00875_consen 55 LADLQESLRKLGIPLLVL----RGDP-EEVLPELAKEYGATAVYFNEEYTPYE--RRRDERVRKALKKHGIKVHTFDDHT 127 (165)
T ss_dssp HHHHHHHHHHTTS-EEEE----ESSH-HHHHHHHHHHHTESEEEEE---SHHH--HHHHHHHHHHHHHTTSEEEEE--SS
T ss_pred HHHHHHHHHhcCcceEEE----ecch-HHHHHHHHHhcCcCeeEeccccCHHH--HHHHHHHHHHHHhcceEEEEECCcE
Confidence 366777888899987653 3432 23555666778888999998887622 22112222222222222222111
Q ss_pred eeCCccccccccchHHHHHHH
Q 044964 111 HVEPSNVRNQTGIFGDAFSMF 131 (163)
Q Consensus 111 ~v~p~~v~~~~~~f~~~f~~~ 131 (163)
=+.|.++....|...+.|..-
T Consensus 128 L~~~~~i~~~~~~~~~vFtpf 148 (165)
T PF00875_consen 128 LVPPDDIPKKDGEPYKVFTPF 148 (165)
T ss_dssp SS-HHHCHSTTSSSHSSHHHH
T ss_pred EEeccccccCCCCCcccHHHH
Confidence 157888877777665555433
No 60
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=29.33 E-value=3e+02 Score=22.88 Aligned_cols=72 Identities=14% Similarity=0.074 Sum_probs=41.6
Q ss_pred eEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHH
Q 044964 18 DVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLE 89 (163)
Q Consensus 18 dVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~ 89 (163)
.|+|-|+...-.+.+...+.+.|+.+|.++-.+....|++.-...+...|..+..-+|++...+...--...
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r 221 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLR 221 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCccchHHHH
Confidence 455555443334568888888888888864333455555532445666666665556666655554433333
No 61
>cd01219 PH_FGD FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD has a RhoGEF (DH) domain, followed by a PH domain, a FYVE domain and a C-terminal PH domain. FGD is a guanine nucleotide exchange factor that activates the Rho GTPase Cdc42. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=29.11 E-value=54 Score=22.25 Aligned_cols=18 Identities=11% Similarity=0.252 Sum_probs=15.0
Q ss_pred CChhHHHHHHHHHHHhhc
Q 044964 137 GREDKLRTWRIALREAAN 154 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v~~ 154 (163)
.++++..+|+.||..+.+
T Consensus 83 ~s~eEk~~W~~ai~~~i~ 100 (101)
T cd01219 83 RTQKEKNDWVQAIFSIID 100 (101)
T ss_pred CCHHHHHHHHHHHHHHhh
Confidence 368999999999998753
No 62
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=28.72 E-value=53 Score=23.81 Aligned_cols=34 Identities=26% Similarity=0.478 Sum_probs=19.2
Q ss_pred CchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHH
Q 044964 59 ISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKI 94 (163)
Q Consensus 59 ~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~ 94 (163)
+...+.++|..-...|++.+..|-++ |+.||...
T Consensus 60 ~~~~L~~~i~~~~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 60 LIEALIKAIGSIYGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHHHHHHHhhhhcCeEEEechHHHHH--HHHHHHHH
Confidence 33444455544445666666665544 66676655
No 63
>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=28.70 E-value=36 Score=30.83 Aligned_cols=49 Identities=20% Similarity=0.307 Sum_probs=33.8
Q ss_pred hhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecCCc
Q 044964 30 DNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKGYA 82 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~ 82 (163)
...+.+|+..|++.|+.|.+|+ +-.+|..+.+.-.-+| - ..+++.++.+
T Consensus 489 ~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~dadliGi---P-~~i~vG~~~l 538 (568)
T TIGR00409 489 QQLAEELYSELLAQGVDVLLDDRNERAGVKFADSELIGI---P-LRVVVGKKNL 538 (568)
T ss_pred HHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHhhhhcCC---C-EEEEECCCcc
Confidence 4688999999999999999998 6677776654322222 1 3445555544
No 64
>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=28.46 E-value=1.6e+02 Score=20.04 Aligned_cols=29 Identities=3% Similarity=0.084 Sum_probs=20.2
Q ss_pred ccc-cCchhHHHhhhhcceEEEEEecCCcC
Q 044964 55 RGE-DISPSLLDAIERSKISVVIFSKGYAS 83 (163)
Q Consensus 55 ~G~-~~~~~i~~aI~~S~~~IvvlS~~y~~ 83 (163)
||. .+.......+++++..|+|++..-..
T Consensus 57 ~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~ 86 (159)
T cd00154 57 AGQERFRSITPSYYRGAHGAILVYDITNRE 86 (159)
T ss_pred CChHHHHHHHHHHhcCCCEEEEEEECCCHH
Confidence 443 33345566788999999999987644
No 65
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=28.13 E-value=1.3e+02 Score=27.27 Aligned_cols=60 Identities=17% Similarity=0.308 Sum_probs=38.7
Q ss_pred eeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEec
Q 044964 16 KYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSK 79 (163)
Q Consensus 16 ~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~ 79 (163)
..+|+|-.-+.+. ...+..|...|+++|++|-+|. .+..+...+..|-..---.++|+.+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~---~~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDY---AGETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECh
Confidence 3578776644332 4688999999999999999975 2344555555654333334555554
No 66
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=27.35 E-value=99 Score=22.20 Aligned_cols=47 Identities=19% Similarity=0.310 Sum_probs=33.5
Q ss_pred hHHHhhhhcceEEEEEecCCcCchhhHH----HHHHHHHhhhhcCceeEeEEee
Q 044964 62 SLLDAIERSKISVVIFSKGYASSGWCLE----ELVKILECKDKYGQIVIPVFYH 111 (163)
Q Consensus 62 ~i~~aI~~S~~~IvvlS~~y~~S~wc~~----El~~~~~~~~~~~~~iiPIf~~ 111 (163)
.+-..+..+-...+++.|||.+. -|.+ ||..+++.+. --.|.||-|-
T Consensus 55 ~L~~~LCG~~~~~i~IDP~~~~K-GC~~TL~HEL~H~WQ~Rs--YG~i~PITY~ 105 (141)
T PHA02456 55 ALPQDLCGQFVGWIEIDPDYANK-GCRDTLAHELNHAWQFRT--YGLVQPITYA 105 (141)
T ss_pred hcCcchhhcceeEEEECCccccc-chHHHHHHHHHHHHhhhc--cceeeeeehh
Confidence 44455677889999999999984 4765 6666666432 2478999764
No 67
>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=27.15 E-value=95 Score=22.51 Aligned_cols=37 Identities=27% Similarity=0.257 Sum_probs=15.9
Q ss_pred HHHHHHHHHhcCCceeeecC-cccc-----cccCchhHHHhhh
Q 044964 32 FTSHLYAALCRKKIETFIDN-QLIR-----GEDISPSLLDAIE 68 (163)
Q Consensus 32 fv~~L~~~L~~~gi~vf~d~-~~~~-----G~~~~~~i~~aI~ 68 (163)
+...+.+.+.+..-.+++-. .+.+ +..+.+.|.++.+
T Consensus 22 ~~~~i~~~I~~A~~~I~i~~~~~~~~~~~~~~~l~~~L~~a~~ 64 (176)
T cd00138 22 DLDALLEAISNAKKSIYIASFYLSPLITEYGPVILDALLAAAR 64 (176)
T ss_pred HHHHHHHHHHhhheEEEEEEeEecccccccchHHHHHHHHHHH
Confidence 44455555554433333333 3333 3344444444444
No 68
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=26.21 E-value=1.3e+02 Score=25.76 Aligned_cols=50 Identities=10% Similarity=0.171 Sum_probs=36.6
Q ss_pred ccCchhHHHHHHHHHhcCCceeeecC-cccc----cccCchhHHHhhhhcceEEE
Q 044964 26 EDTRDNFTSHLYAALCRKKIETFIDN-QLIR----GEDISPSLLDAIERSKISVV 75 (163)
Q Consensus 26 ~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~----G~~~~~~i~~aI~~S~~~Iv 75 (163)
.|.|.+=+-.|.+.|..+|..|-..+ -+.. |-.+.++...+++.++..|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 36788888899999999998876554 3222 34566777788888888766
No 69
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=26.10 E-value=55 Score=22.43 Aligned_cols=15 Identities=20% Similarity=0.286 Sum_probs=12.9
Q ss_pred ChhHHHHHHHHHHHh
Q 044964 138 REDKLRTWRIALREA 152 (163)
Q Consensus 138 ~~~~~~~W~~al~~v 152 (163)
++++...|+.||.+|
T Consensus 84 s~~E~~~Wi~al~k~ 98 (98)
T cd01244 84 APVEATDWLNALEKQ 98 (98)
T ss_pred CHHHHHHHHHHHhcC
Confidence 578899999999875
No 70
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=25.96 E-value=2.7e+02 Score=22.67 Aligned_cols=27 Identities=19% Similarity=0.164 Sum_probs=15.0
Q ss_pred hhHHHHHHHHHhcCCceeeecCccccc
Q 044964 30 DNFTSHLYAALCRKKIETFIDNQLIRG 56 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~~~~~G 56 (163)
...+..+...|++.|+.+-....+.++
T Consensus 152 ~~~~~~~~~~~~~~G~~v~~~~~~~~~ 178 (347)
T cd06335 152 RSNRKDLTAALAARGLKPVAVEWFNWG 178 (347)
T ss_pred hhHHHHHHHHHHHcCCeeEEEeeecCC
Confidence 345666666777777765433234444
No 71
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=25.81 E-value=93 Score=25.19 Aligned_cols=51 Identities=20% Similarity=0.079 Sum_probs=32.6
Q ss_pred HHHHHHHhcCCcee--eecCcccccccCchhHHHhhhhcc--eEEEEEecCCcCc
Q 044964 34 SHLYAALCRKKIET--FIDNQLIRGEDISPSLLDAIERSK--ISVVIFSKGYASS 84 (163)
Q Consensus 34 ~~L~~~L~~~gi~v--f~d~~~~~G~~~~~~i~~aI~~S~--~~IvvlS~~y~~S 84 (163)
+-|...|..+||+| +.-.+-+.=..+..++..+++.+. -.|++|||.-++|
T Consensus 146 dil~kkL~~~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~ 200 (260)
T KOG4132|consen 146 DILPKKLHDKGIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKS 200 (260)
T ss_pred HHHHHHHHhCCceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHH
Confidence 35778899999976 111111111123357788888763 3899999998774
No 72
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=25.77 E-value=1.4e+02 Score=26.65 Aligned_cols=61 Identities=10% Similarity=0.167 Sum_probs=39.3
Q ss_pred eeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecC
Q 044964 16 KYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 16 ~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
.+||+|---+++. ...+..|...|.+.|++|-+|.. +..+...+..|-..---.++|+.++
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEech
Confidence 3578876544332 46788999999999999998761 2345555556654433455555553
No 73
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=25.61 E-value=1.5e+02 Score=26.91 Aligned_cols=61 Identities=13% Similarity=0.126 Sum_probs=40.7
Q ss_pred eeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecC
Q 044964 16 KYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 16 ~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
..||+|-.-+... ...+..|...|.++|++|-+|. .+..+...+..|-..---.++|+.++
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~---~~~~l~kki~~A~~~g~~~~iiiG~~ 599 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDL---RNEKIGYKIREAQLQKVPYMLVVGDK 599 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEEC---CCCCHhHHHHHhhccCCCEEEEEcch
Confidence 3578877644332 4688999999999999998875 23445556666654444466666653
No 74
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=25.33 E-value=2.9e+02 Score=24.86 Aligned_cols=80 Identities=18% Similarity=0.128 Sum_probs=64.7
Q ss_pred HHHHHHHHhcCCceeeecC---cccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhcCceeEeEE
Q 044964 33 TSHLYAALCRKKIETFIDN---QLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKYGQIVIPVF 109 (163)
Q Consensus 33 v~~L~~~L~~~gi~vf~d~---~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPIf 109 (163)
...+..--++.|+.+=.|. ++..|+...-+|.+++-.-...+++==|..+-++-=.+||-.+++...+.+..||-|-
T Consensus 118 ~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLyr~a~iLILDEPTaVLTP~E~~~lf~~l~~l~~~G~tIi~IT 197 (501)
T COG3845 118 RARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALYRGARLLILDEPTAVLTPQEADELFEILRRLAAEGKTIIFIT 197 (501)
T ss_pred HHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEe
Confidence 3444444456799887766 8889998888999999877777888889899888888899888888888889999998
Q ss_pred eee
Q 044964 110 YHV 112 (163)
Q Consensus 110 ~~v 112 (163)
+++
T Consensus 198 HKL 200 (501)
T COG3845 198 HKL 200 (501)
T ss_pred ccH
Confidence 763
No 75
>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=25.02 E-value=1.4e+02 Score=19.89 Aligned_cols=55 Identities=15% Similarity=0.216 Sum_probs=36.4
Q ss_pred HHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHH
Q 044964 36 LYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKI 94 (163)
Q Consensus 36 L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~ 94 (163)
+..-|+-.|+..+... ...++..+.+.+.+++..+.|++++.++... -.+++...
T Consensus 9 ~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~~ 63 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDEY 63 (95)
T ss_dssp HHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHHH
T ss_pred HHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHHH
Confidence 3445667799887753 1224455566677778999999999998873 33344443
No 76
>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=24.99 E-value=2.5e+02 Score=19.78 Aligned_cols=77 Identities=17% Similarity=0.155 Sum_probs=44.0
Q ss_pred hhHHHHHHHHHhcCCceeee-cC-cc-cc-----------cccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHH
Q 044964 30 DNFTSHLYAALCRKKIETFI-DN-QL-IR-----------GEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKIL 95 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~-d~-~~-~~-----------G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~ 95 (163)
...++.+.+.|++.|+.+-+ |- +. .| -..-.+.+.+.+.+++ .|++.||.|..+. --.+..++
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD-~iI~~sP~y~~~~--s~~lK~~l 93 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEAD-GIIFASPVYNGSV--SGQLKNFL 93 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSS-EEEEEEEEBTTBE---HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCC-eEEEeecEEcCcC--ChhhhHHH
Confidence 35788888899888877632 32 43 11 0112246677888888 5667899988643 22344444
Q ss_pred Hhh------hhcCceeEeEE
Q 044964 96 ECK------DKYGQIVIPVF 109 (163)
Q Consensus 96 ~~~------~~~~~~iiPIf 109 (163)
++. .-.+..+.+|-
T Consensus 94 D~~~~~~~~~~~~K~~~~i~ 113 (152)
T PF03358_consen 94 DRLSCWFRRALRGKPVAIIA 113 (152)
T ss_dssp HTHHHTHTTTTTTSEEEEEE
T ss_pred HHhccccccccCCCEEEEEE
Confidence 433 11345566654
No 77
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=24.92 E-value=1.3e+02 Score=27.70 Aligned_cols=59 Identities=17% Similarity=0.101 Sum_probs=37.0
Q ss_pred eeEEEecccccCchhHHHHHHHHHhcCCceeeecC-cccccccCchhHHHhhhhcceEEEEEecC
Q 044964 17 YDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERSKISVVIFSKG 80 (163)
Q Consensus 17 ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S~~~IvvlS~~ 80 (163)
++|+|---+.+ ....+..|...|++.|++|.+|. +-..|. .+.+|-..---.++|+.++
T Consensus 500 ~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgk----Kir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 500 TQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGK----KIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred ceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHH----HHHHHHHcCCCEEEEECcc
Confidence 57776654433 34689999999999999999987 444444 4444433222344555443
No 78
>cd01235 PH_SETbf Set binding factor Pleckstrin Homology (PH) domain. Set binding factor Pleckstrin Homology (PH) domain. Set binding factor is a myotubularin-related pseudo-phosphatase consisting of a Denn domain, a Gram domain, an inactive phosphatase domain, a SID motif and a C-terminal PH domain. Its PH domain is predicted to bind lipids based upon its ability to respond to phosphatidylinositol 3-kinase .
Probab=24.84 E-value=69 Score=21.11 Aligned_cols=16 Identities=6% Similarity=0.430 Sum_probs=13.4
Q ss_pred CChhHHHHHHHHHHHh
Q 044964 137 GREDKLRTWRIALREA 152 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v 152 (163)
+++++.++|..||..+
T Consensus 85 ~s~~e~~~Wi~ai~~~ 100 (101)
T cd01235 85 ENINEAQRWKEKIQQC 100 (101)
T ss_pred CCHHHHHHHHHHHHhh
Confidence 3678999999999875
No 79
>KOG2903 consensus Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
Probab=24.36 E-value=2.3e+02 Score=23.51 Aligned_cols=109 Identities=17% Similarity=0.243 Sum_probs=60.6
Q ss_pred CCCceeeEEEecccccCchhHHHHHHHHHhcC------Ccee--eecCcccccccCchhHHHhhhhcceEEEEEecCCcC
Q 044964 12 VPQVKYDVFLSFRGEDTRDNFTSHLYAALCRK------KIET--FIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYAS 83 (163)
Q Consensus 12 ~~~~~ydVFISys~~D~~~~fv~~L~~~L~~~------gi~v--f~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~ 83 (163)
|..-.|..|+||... |+..-.-.+.-+ |+.+ |+++ ..|=.+.++ -.-+.++...++ +++.++
T Consensus 33 pakgryhLYvslaCP-----WAhRtLi~r~LKGL~~~i~~s~v~~~~d--~~gW~F~~~-~~~~nDs~~l~~--~~d~~~ 102 (319)
T KOG2903|consen 33 PAKGRYHLYVSLACP-----WAHRTLIVRALKGLEPAIGVSVVHWHLD--DKGWRFLDE-HIIINDSERLGV--TPDPLN 102 (319)
T ss_pred CCCceEEEEEeccCc-----HHHHHHHHHHHcCccccceeEEeccccC--CCcccCCCc-ccCCCchhcccC--CCcccc
Confidence 344679999999643 554333333323 4443 4222 122222221 022355555555 888888
Q ss_pred chhhHHHHHHHHHhhhhcCceeEeEEeeeCCccccc-c----ccchHHHHHHH
Q 044964 84 SGWCLEELVKILECKDKYGQIVIPVFYHVEPSNVRN-Q----TGIFGDAFSMF 131 (163)
Q Consensus 84 S~wc~~El~~~~~~~~~~~~~iiPIf~~v~p~~v~~-~----~~~f~~~f~~~ 131 (163)
..--+.||..+..-.- .+..-+||+.+.....|-+ + .+.|..+|.+.
T Consensus 103 g~k~l~elY~~~~p~Y-~grfTVPVLWD~k~ktIVnNES~eIIr~fNs~f~ef 154 (319)
T KOG2903|consen 103 GAKRLRELYYIASPNY-TGRFTVPVLWDLKTKTIVNNESSEIIRMFNSAFDEF 154 (319)
T ss_pred cchhHHHHHhhcCCCC-CceEEEEEEEccccceeecCchHHHHHHHhhhhhhh
Confidence 7777888888754333 3478999999876666533 2 33456555554
No 80
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=24.09 E-value=2.6e+02 Score=19.68 Aligned_cols=54 Identities=20% Similarity=0.206 Sum_probs=37.7
Q ss_pred hhHHHHHHHHHhcCCceeeecC-ccccc------------ccCchhHHHhhhhcceEEEEEecCCcC
Q 044964 30 DNFTSHLYAALCRKKIETFIDN-QLIRG------------EDISPSLLDAIERSKISVVIFSKGYAS 83 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~-~~~~G------------~~~~~~i~~aI~~S~~~IvvlS~~y~~ 83 (163)
-.++..|...|..+|.++.+=+ |...+ -.+.+....++..|+..+++..++...
T Consensus 14 t~~~~~~a~~~~~~~~~~~~vd~D~~~~~~~yd~VIiD~p~~~~~~~~~~l~~aD~vviv~~~~~~s 80 (139)
T cd02038 14 TNISANLALALAKLGKRVLLLDADLGLANLDYDYIIIDTGAGISDNVLDFFLAADEVIVVTTPEPTS 80 (139)
T ss_pred HHHHHHHHHHHHHCCCcEEEEECCCCCCCCCCCEEEEECCCCCCHHHHHHHHhCCeEEEEcCCChhH
Confidence 4577888888888898765433 54311 123456677899999999999997554
No 81
>PF13289 SIR2_2: SIR2-like domain
Probab=23.71 E-value=2e+02 Score=19.85 Aligned_cols=12 Identities=33% Similarity=0.412 Sum_probs=6.0
Q ss_pred HHHHHHHHHhcC
Q 044964 32 FTSHLYAALCRK 43 (163)
Q Consensus 32 fv~~L~~~L~~~ 43 (163)
+-..|...|..+
T Consensus 76 ~~~~l~~~l~~~ 87 (143)
T PF13289_consen 76 FPNFLRSLLRSK 87 (143)
T ss_pred HHHHHHHHHcCC
Confidence 445555555444
No 82
>cd08584 PI-PLCc_GDPD_SF_unchar2 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=23.55 E-value=1.8e+02 Score=22.57 Aligned_cols=36 Identities=11% Similarity=0.174 Sum_probs=28.1
Q ss_pred eeecCcccccccCchhHHHhhhhcceEEEEEecCCcCc
Q 044964 47 TFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASS 84 (163)
Q Consensus 47 vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S 84 (163)
||+|. ..+..+..++.+.+.+..+-|+++||.-..-
T Consensus 127 VW~D~--f~~~~~~~~~~~~~~~~~~~~c~VSpELh~~ 162 (192)
T cd08584 127 VWIDS--FTSLWLDNDLILKLLKAGKKICLVSPELHGR 162 (192)
T ss_pred EEEec--ccccCCCHHHHHHHHHCCcEEEEECHHHcCC
Confidence 78875 3346677788888888899999999987653
No 83
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=23.54 E-value=69 Score=27.45 Aligned_cols=46 Identities=13% Similarity=0.227 Sum_probs=25.7
Q ss_pred HHHHHhcCCceeeecC-cccccccCchhHHHhhhhc-ceEEEEEecCCcC
Q 044964 36 LYAALCRKKIETFIDN-QLIRGEDISPSLLDAIERS-KISVVIFSKGYAS 83 (163)
Q Consensus 36 L~~~L~~~gi~vf~d~-~~~~G~~~~~~i~~aI~~S-~~~IvvlS~~y~~ 83 (163)
+.+.|.++|+.|++.. ++. ++.+. +..+.+... +..|..|+|||.+
T Consensus 300 ~~~~l~~~~ipVlf~~d~L~-~~~v~-ea~rql~~~dk~~iaFf~pny~~ 347 (360)
T PF07429_consen 300 FWQDLKEQGIPVLFYGDELD-EALVR-EAQRQLANVDKQQIAFFAPNYLQ 347 (360)
T ss_pred HHHHHHhCCCeEEeccccCC-HHHHH-HHHHHHhhCcccceeeeCCchHH
Confidence 4566777788886654 332 22222 222323333 3367788999987
No 84
>PLN02530 histidine-tRNA ligase
Probab=23.51 E-value=1.8e+02 Score=25.68 Aligned_cols=61 Identities=11% Similarity=-0.031 Sum_probs=40.8
Q ss_pred ceeeEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEec
Q 044964 15 VKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSK 79 (163)
Q Consensus 15 ~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~ 79 (163)
...||+|.+-+++. ...+-.+...|.++|+++-+|- . +..+...+..|-+.--..|+++.+
T Consensus 400 ~~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~--~-~~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 400 HQVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVL--E-PKKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEec--C-CCCHHHHHHHHHHCCCCEEEEEch
Confidence 34689988755443 3578889999999999997764 1 134555666666554456666664
No 85
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=23.51 E-value=1.4e+02 Score=19.86 Aligned_cols=43 Identities=16% Similarity=0.288 Sum_probs=24.7
Q ss_pred HHhhhhcceEEEEEecCCcCchhhHHHHHHH---HHhhhhcCceeEeEEe
Q 044964 64 LDAIERSKISVVIFSKGYASSGWCLEELVKI---LECKDKYGQIVIPVFY 110 (163)
Q Consensus 64 ~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~---~~~~~~~~~~iiPIf~ 110 (163)
...+..++..|+|++..-.. .+.++... +...+..... +||.+
T Consensus 68 ~~~~~~~d~~ilv~D~s~~~---s~~~~~~~~~~l~~~~~~~~~-~piil 113 (119)
T PF08477_consen 68 QFFLKKADAVILVYDLSDPE---SLEYLSQLLKWLKNIRKRDKN-IPIIL 113 (119)
T ss_dssp HHHHHHSCEEEEEEECCGHH---HHHHHHHHHHHHHHHHHHSSC-SEEEE
T ss_pred cchhhcCcEEEEEEcCCChH---HHHHHHHHHHHHHHHHccCCC-CCEEE
Confidence 34589999999999866443 44444333 3333322223 77654
No 86
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=23.32 E-value=80 Score=19.50 Aligned_cols=16 Identities=38% Similarity=0.578 Sum_probs=13.6
Q ss_pred ChhHHHHHHHHHHHhh
Q 044964 138 REDKLRTWRIALREAA 153 (163)
Q Consensus 138 ~~~~~~~W~~al~~v~ 153 (163)
++++.++|..+|..+.
T Consensus 86 s~~~~~~W~~~i~~~~ 101 (102)
T smart00233 86 SEEEREEWVDALRKAI 101 (102)
T ss_pred CHHHHHHHHHHHHHhh
Confidence 5789999999998764
No 87
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=23.26 E-value=1.9e+02 Score=20.22 Aligned_cols=28 Identities=25% Similarity=0.286 Sum_probs=11.8
Q ss_pred eeEEEecccccCchhHHHHHHHHHhcCCceee
Q 044964 17 YDVFLSFRGEDTRDNFTSHLYAALCRKKIETF 48 (163)
Q Consensus 17 ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf 48 (163)
.||-|-|+..+ ....++...++. |+.+-
T Consensus 68 ~DVvIDfT~p~---~~~~~~~~~~~~-g~~~V 95 (124)
T PF01113_consen 68 ADVVIDFTNPD---AVYDNLEYALKH-GVPLV 95 (124)
T ss_dssp -SEEEEES-HH---HHHHHHHHHHHH-T-EEE
T ss_pred CCEEEEcCChH---HhHHHHHHHHhC-CCCEE
Confidence 66666666443 233344333333 55443
No 88
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=23.00 E-value=3.3e+02 Score=22.01 Aligned_cols=38 Identities=18% Similarity=0.093 Sum_probs=22.7
Q ss_pred EEEecccccCchhHHHHHHHHHhcCCceeeecCccccc
Q 044964 19 VFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRG 56 (163)
Q Consensus 19 VFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G 56 (163)
|.+-|...+-....+..+...|++.|+.+-....+.+|
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~ 175 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPS 175 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCC
Confidence 44444433323456777888888888877554445555
No 89
>cd01257 PH_IRS Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. PH domains are only found in eukaryotes, and are often involved in targeting proteins to the plasma membrane via lipid binding. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes. The IRS PH domain targets IRS molecules to the plasma membrane, usually in response to insulin stimulation.
Probab=22.96 E-value=73 Score=21.95 Aligned_cols=16 Identities=31% Similarity=0.432 Sum_probs=13.4
Q ss_pred CChhHHHHHHHHHHHh
Q 044964 137 GREDKLRTWRIALREA 152 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v 152 (163)
+++++.++|..||.++
T Consensus 86 ese~E~~~Wi~~i~~~ 101 (101)
T cd01257 86 ENEAEQDSWYQALLEL 101 (101)
T ss_pred CCHHHHHHHHHHHhhC
Confidence 4688999999999764
No 90
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=22.84 E-value=66 Score=20.65 Aligned_cols=26 Identities=19% Similarity=0.275 Sum_probs=15.1
Q ss_pred CCceeeecCcccccccCchhHHHhhhh
Q 044964 43 KKIETFIDNQLIRGEDISPSLLDAIER 69 (163)
Q Consensus 43 ~gi~vf~d~~~~~G~~~~~~i~~aI~~ 69 (163)
+.+-+++|.|. +|+.....+.+.+..
T Consensus 47 ~~Vii~~D~D~-~G~~~a~~i~~~l~~ 72 (81)
T PF13662_consen 47 KEVIIAFDNDK-AGEKAAQKIAKKLLP 72 (81)
T ss_dssp SEEEEEEESSH-HHHHHHHHHHHHHG-
T ss_pred ceEEEEeCcCH-HHHHHHHHHHHHHHh
Confidence 56667777643 666666666665543
No 91
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.80 E-value=2.3e+02 Score=24.96 Aligned_cols=55 Identities=16% Similarity=0.216 Sum_probs=40.2
Q ss_pred cccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHhhhhcCceeEeEE
Q 044964 52 QLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILECKDKYGQIVIPVF 109 (163)
Q Consensus 52 ~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~~~~~~~~iiPIf 109 (163)
.+..|-.+...+..-+++++..|++|-|+=+. .-+|+..++...+.....|=-|+
T Consensus 164 risR~ydF~~v~~WFaeR~D~IiLlfD~hKLD---IsdEf~~vi~aLkG~EdkiRVVL 218 (532)
T KOG1954|consen 164 RISRGYDFTGVLEWFAERVDRIILLFDAHKLD---ISDEFKRVIDALKGHEDKIRVVL 218 (532)
T ss_pred cccccCChHHHHHHHHHhccEEEEEechhhcc---ccHHHHHHHHHhhCCcceeEEEe
Confidence 35566678888999999999999999999876 44688887776554444444343
No 92
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=22.44 E-value=2.7e+02 Score=23.01 Aligned_cols=15 Identities=13% Similarity=0.138 Sum_probs=9.3
Q ss_pred hHHHHHHHHHhcCCc
Q 044964 31 NFTSHLYAALCRKKI 45 (163)
Q Consensus 31 ~fv~~L~~~L~~~gi 45 (163)
..+..+.+.|++.|+
T Consensus 169 ~~~~~~~~~~~~~g~ 183 (377)
T cd06379 169 AAQKRFETLLEEREI 183 (377)
T ss_pred HHHHHHHHHHHhcCC
Confidence 355566666666666
No 93
>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=22.35 E-value=2.8e+02 Score=19.42 Aligned_cols=17 Identities=41% Similarity=0.517 Sum_probs=7.9
Q ss_pred HHHhhhhcceEEEEEec
Q 044964 63 LLDAIERSKISVVIFSK 79 (163)
Q Consensus 63 i~~aI~~S~~~IvvlS~ 79 (163)
+.++|++++..++|+.-
T Consensus 5 ~~~~i~~aD~vl~ViD~ 21 (141)
T cd01857 5 LWRVVERSDIVVQIVDA 21 (141)
T ss_pred HHHHHhhCCEEEEEEEc
Confidence 34444444444444443
No 94
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=22.20 E-value=1.7e+02 Score=24.36 Aligned_cols=44 Identities=25% Similarity=0.526 Sum_probs=34.8
Q ss_pred hhHHHhhhhcceEEEEEecCCc---CchhhHHHHHHHHHhhhhcCceeEeEEe
Q 044964 61 PSLLDAIERSKISVVIFSKGYA---SSGWCLEELVKILECKDKYGQIVIPVFY 110 (163)
Q Consensus 61 ~~i~~aI~~S~~~IvvlS~~y~---~S~wc~~El~~~~~~~~~~~~~iiPIf~ 110 (163)
+.-.++|.+++.-++|+-|.|. .++|..+||.+.. +++ ++||=|
T Consensus 33 d~~~~~i~~~~f~llVVDps~~g~~~~~~~~eelr~~~----~gg--~~pIAY 79 (300)
T COG2342 33 DAYINEILNSPFDLLVVDPSYCGPFNTPWTIEELRTKA----DGG--VKPIAY 79 (300)
T ss_pred cchHHHHhcCCCcEEEEeccccCCCCCcCcHHHHHHHh----cCC--eeEEEE
Confidence 5667889999999999999765 6899999988863 333 778765
No 95
>PRK08350 hypothetical protein; Provisional
Probab=21.99 E-value=93 Score=26.47 Aligned_cols=33 Identities=15% Similarity=0.093 Sum_probs=28.3
Q ss_pred CceeeEEEecccccCchhHHHHHHHHHhcCCce
Q 044964 14 QVKYDVFLSFRGEDTRDNFTSHLYAALCRKKIE 46 (163)
Q Consensus 14 ~~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~ 46 (163)
...|-+.+|||+-++.++|+.+|.-+|...-|+
T Consensus 279 ~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 279 SERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 345889999998888889999999999887776
No 96
>cd01246 PH_oxysterol_bp Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding proteins are a multigene family that is conserved in yeast, flies, worms, mammals and plants. They all contain a C-terminal oxysterol binding domain, and most contain an N-terminal PH domain. OSBP PH domains bind to membrane phosphoinositides and thus likely play an important role in intracellular targeting. 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=21.70 E-value=81 Score=20.02 Aligned_cols=14 Identities=29% Similarity=0.449 Sum_probs=12.0
Q ss_pred ChhHHHHHHHHHHH
Q 044964 138 REDKLRTWRIALRE 151 (163)
Q Consensus 138 ~~~~~~~W~~al~~ 151 (163)
++++..+|+.||..
T Consensus 77 s~~e~~~Wi~al~~ 90 (91)
T cd01246 77 SEEERQRWVDALEL 90 (91)
T ss_pred CHHHHHHHHHHHHh
Confidence 57899999999975
No 97
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=21.64 E-value=3.1e+02 Score=22.12 Aligned_cols=54 Identities=9% Similarity=-0.011 Sum_probs=33.2
Q ss_pred eEEEecccccCchhHHHHHHHHHhcCCceeeecCcccccc-cCchhHHHhhhhcce
Q 044964 18 DVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDNQLIRGE-DISPSLLDAIERSKI 72 (163)
Q Consensus 18 dVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~~~~~G~-~~~~~i~~aI~~S~~ 72 (163)
.|.+-|...+-.+.+...+...|+++|+++-......+|. .+... ...|..+..
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~-v~~l~~~~p 192 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPY-AQRLLDALK 192 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHH-HHHHHhcCC
Confidence 4555554433335677888889999999887655666675 35544 444544443
No 98
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=21.41 E-value=2.8e+02 Score=18.90 Aligned_cols=29 Identities=21% Similarity=0.277 Sum_probs=18.9
Q ss_pred hhHHHhhhhc-ceEEEEEecCCcCchhhHHHH
Q 044964 61 PSLLDAIERS-KISVVIFSKGYASSGWCLEEL 91 (163)
Q Consensus 61 ~~i~~aI~~S-~~~IvvlS~~y~~S~wc~~El 91 (163)
+.+.+|+++- +..++.|.-... ++|....
T Consensus 4 ~~~~~a~~~~~k~vlv~f~a~wC--~~C~~~~ 33 (125)
T cd02951 4 EDLAEAAADGKKPLLLLFSQPGC--PYCDKLK 33 (125)
T ss_pred HHHHHHHHcCCCcEEEEEeCCCC--HHHHHHH
Confidence 4677788888 777777765443 4666543
No 99
>PF00169 PH: PH domain; InterPro: IPR001849 The pleckstrin homology (PH) domain is a domain of about 100 residues that occurs in a wide range of proteins involved in intracellular signalling or as constituents of the cytoskeleton [, , , , , , ]. The pleckstrin homology domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids. The 3D structure of several PH domains has been determined []. All known cases have a common structure consisting of two perpendicular anti-parallel beta sheets, followed by a C-terminal amphipathic helix. The loops connecting the beta-strands differ greatly in length, making the PH domain relatively difficult to detect. There are no totally invariant residues within the PH domain. Proteins reported to contain one more PH domains belong to the following families: Pleckstrin, the protein where this domain was first detected, is the major substrate of protein kinase C in platelets. Pleckstrin is one of the rare proteins to contains two PH domains. Ser/Thr protein kinases such as the Akt/Rac family, the beta-adrenergic receptor kinases, the mu isoform of PKC and the trypanosomal NrkA family. Tyrosine protein kinases belonging to the Btk/Itk/Tec subfamily. Insulin Receptor Substrate 1 (IRS-1). Regulators of small G-proteins like guanine nucleotide releasing factor GNRP (Ras-GRF) (which contains 2 PH domains), guanine nucleotide exchange proteins like vav, dbl, SoS and Saccharomyces cerevisiae CDC24, GTPase activating proteins like rasGAP and BEM2/IPL2, and the human break point cluster protein bcr. Cytoskeletal proteins such as dynamin (see IPR001401 from INTERPRO), Caenorhabditis elegans kinesin-like protein unc-104 (see IPR001752 from INTERPRO), spectrin beta-chain, syntrophin (2 PH domains) and S. cerevisiae nuclear migration protein NUM1. Mammalian phosphatidylinositol-specific phospholipase C (PI-PLC) (see IPR000909 from INTERPRO) isoforms gamma and delta. Isoform gamma contains two PH domains, the second one is split into two parts separated by about 400 residues. Oxysterol binding proteins OSBP, S. cerevisiae OSH1 and YHR073w. Mouse protein citron, a putative rho/rac effector that binds to the GTP-bound forms of rho and rac. Several S. cerevisiae proteins involved in cell cycle regulation and bud formation like BEM2, BEM3, BUD4 and the BEM1-binding proteins BOI2 (BEB1) and BOI1 (BOB1). C. elegans protein MIG-10. C. elegans hypothetical proteins C04D8.1, K06H7.4 and ZK632.12. S. cerevisiae hypothetical proteins YBR129c and YHR155w. ; GO: 0005515 protein binding; PDB: 1DYN_B 2DYN_B 3SNH_A 3ZYS_C 1X05_A 2I5F_A 1ZM0_B 1XX0_A 2I5C_C 3A8P_D ....
Probab=21.28 E-value=97 Score=19.60 Aligned_cols=17 Identities=24% Similarity=0.515 Sum_probs=14.2
Q ss_pred CChhHHHHHHHHHHHhh
Q 044964 137 GREDKLRTWRIALREAA 153 (163)
Q Consensus 137 ~~~~~~~~W~~al~~v~ 153 (163)
.+++....|..||..+.
T Consensus 87 ~s~~~~~~W~~~i~~~~ 103 (104)
T PF00169_consen 87 ESEEERKRWIQAIQKAI 103 (104)
T ss_dssp SSHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHh
Confidence 36889999999998764
No 100
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=21.18 E-value=2.8e+02 Score=22.10 Aligned_cols=41 Identities=10% Similarity=-0.102 Sum_probs=21.6
Q ss_pred hHHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcc
Q 044964 31 NFTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSK 71 (163)
Q Consensus 31 ~fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~ 71 (163)
..+..+...|++.|+++-....+.+|..=.......|.+++
T Consensus 152 ~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~ 192 (312)
T cd06346 152 GLADAFTKAFEALGGTVTNVVAHEEGKSSYSSEVAAAAAGG 192 (312)
T ss_pred HHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcC
Confidence 45566666777777766543345555422224444444444
No 101
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=21.16 E-value=2.3e+02 Score=21.88 Aligned_cols=48 Identities=29% Similarity=0.452 Sum_probs=35.5
Q ss_pred HHHHHHHHHhcCCceeeecCcccccccCchhHHHhhhh-------cceEEEEEecCCcC
Q 044964 32 FTSHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIER-------SKISVVIFSKGYAS 83 (163)
Q Consensus 32 fv~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~-------S~~~IvvlS~~y~~ 83 (163)
....|...|.+.|+..+- . .|+.|.+++-+|+.. ....+-|+.+.|.-
T Consensus 123 ~~~~l~~~L~k~Gv~~i~---~-~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l 177 (193)
T COG0576 123 TLDQLLDALEKLGVEEIG---P-EGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKL 177 (193)
T ss_pred HHHHHHHHHHHCCCEEeC---C-CCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeee
Confidence 346788888999997752 2 699999999999863 23567777777754
No 102
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=21.06 E-value=3.1e+02 Score=24.40 Aligned_cols=87 Identities=21% Similarity=0.337 Sum_probs=51.3
Q ss_pred HHHHHHHhcCCceeeecCcccccccCchhHHHhhhhcceEEEEEecCCcCchhhHHHHHHHHHh-hhhcCceeEeEEee-
Q 044964 34 SHLYAALCRKKIETFIDNQLIRGEDISPSLLDAIERSKISVVIFSKGYASSGWCLEELVKILEC-KDKYGQIVIPVFYH- 111 (163)
Q Consensus 34 ~~L~~~L~~~gi~vf~d~~~~~G~~~~~~i~~aI~~S~~~IvvlS~~y~~S~wc~~El~~~~~~-~~~~~~~iiPIf~~- 111 (163)
..|.+.|...|+.+++-. |+.. +.+.+-+++..+..|+...+| ..| ..+-..++.. ..+.+..+.- |.+
T Consensus 58 ~~L~~~L~~~gi~L~v~~----~~~~-~~l~~~~~~~~~~~v~~n~~~--~~~-~~~rD~al~~~l~~~gi~~~~-~~d~ 128 (461)
T COG0415 58 QALQQSLAELGIPLLVRE----GDPE-QVLPELAKQLAATTVFWNRDY--EEW-ERQRDAALAQPLTEVGIAVHS-FWDA 128 (461)
T ss_pred HHHHHHHHHcCCceEEEe----CCHH-HHHHHHHHHhCcceEEeeeee--chh-HHHHHHHHHHHHHhcCceEEE-eccc
Confidence 457788889999998753 4432 355566666667777777888 333 3333333332 2233322222 433
Q ss_pred --eCCccccccccchHHHHH
Q 044964 112 --VEPSNVRNQTGIFGDAFS 129 (163)
Q Consensus 112 --v~p~~v~~~~~~f~~~f~ 129 (163)
..|.+|+...|..-+.|.
T Consensus 129 ~l~~p~~~~t~~~~~y~vfT 148 (461)
T COG0415 129 LLHEPGEVRTGSGEPYKVFT 148 (461)
T ss_pred cccCHhhccCCCCCCccccc
Confidence 688899888876554444
No 103
>PRK06893 DNA replication initiation factor; Validated
Probab=20.83 E-value=1.6e+02 Score=22.89 Aligned_cols=40 Identities=15% Similarity=0.336 Sum_probs=19.7
Q ss_pred eeecC-ccccccc-Cchh---HHHhhhhcceEEEEEecCCcCchh
Q 044964 47 TFIDN-QLIRGED-ISPS---LLDAIERSKISVVIFSKGYASSGW 86 (163)
Q Consensus 47 vf~d~-~~~~G~~-~~~~---i~~aI~~S~~~IvvlS~~y~~S~w 86 (163)
+++|+ +...|+. +... +.+.+.+....++|++.+...+.|
T Consensus 95 LilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l 139 (229)
T PRK06893 95 VCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHAL 139 (229)
T ss_pred EEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHc
Confidence 45666 5444432 2222 233344444556666666655555
No 104
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=20.75 E-value=2.3e+02 Score=20.35 Aligned_cols=16 Identities=19% Similarity=0.003 Sum_probs=8.2
Q ss_pred HHHHHHHhcCCceeee
Q 044964 34 SHLYAALCRKKIETFI 49 (163)
Q Consensus 34 ~~L~~~L~~~gi~vf~ 49 (163)
.+|...|+++|++|.+
T Consensus 92 ~~l~~~L~~~G~~v~~ 107 (130)
T PF12965_consen 92 KRLGKLLKEAGCKVKI 107 (130)
T ss_pred HHHHHHHHHCCCEEEE
Confidence 4455555555555443
No 105
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=20.71 E-value=4.1e+02 Score=21.27 Aligned_cols=42 Identities=14% Similarity=0.041 Sum_probs=24.3
Q ss_pred hhHHHHHHHHHhcCCceeeecCcccccc-cCchhHHHhhhhcce
Q 044964 30 DNFTSHLYAALCRKKIETFIDNQLIRGE-DISPSLLDAIERSKI 72 (163)
Q Consensus 30 ~~fv~~L~~~L~~~gi~vf~d~~~~~G~-~~~~~i~~aI~~S~~ 72 (163)
..++..+...|++.|+.+-....+.++. .+...+. .+.+++.
T Consensus 149 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~~~ 191 (334)
T cd06327 149 HSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLL-QAQASGA 191 (334)
T ss_pred HHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHH-HHHhCCC
Confidence 4577777788888888775544444443 4544333 3444333
No 106
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=20.64 E-value=1.4e+02 Score=22.95 Aligned_cols=75 Identities=16% Similarity=0.074 Sum_probs=50.3
Q ss_pred hHHHHHHHHHhcCCceeeecC-------cccc---cccCchhHHHhhhhcceEEEEEecCC-cCchhhHHHHHHHHHhhh
Q 044964 31 NFTSHLYAALCRKKIETFIDN-------QLIR---GEDISPSLLDAIERSKISVVIFSKGY-ASSGWCLEELVKILECKD 99 (163)
Q Consensus 31 ~fv~~L~~~L~~~gi~vf~d~-------~~~~---G~~~~~~i~~aI~~S~~~IvvlS~~y-~~S~wc~~El~~~~~~~~ 99 (163)
...+.|...|.+.|+.++.-. +..| ...|...-.+.|.+|++.|+++.+-= ...+-...|+..+..
T Consensus 20 ~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~A--- 96 (172)
T COG3613 20 ELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAIA--- 96 (172)
T ss_pred HHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHHH---
Confidence 467788888999999987642 2223 12344555667899999999998755 122335678888864
Q ss_pred hcCceeEeEE
Q 044964 100 KYGQIVIPVF 109 (163)
Q Consensus 100 ~~~~~iiPIf 109 (163)
.+..+++.+
T Consensus 97 -lgKPv~~~~ 105 (172)
T COG3613 97 -LGKPVYAYR 105 (172)
T ss_pred -cCCceEEEe
Confidence 345677655
No 107
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=20.61 E-value=2.1e+02 Score=18.40 Aligned_cols=36 Identities=17% Similarity=0.090 Sum_probs=27.0
Q ss_pred ceeeEEEecccccCchhHHHHHHHHHhcCCceeeecC
Q 044964 15 VKYDVFLSFRGEDTRDNFTSHLYAALCRKKIETFIDN 51 (163)
Q Consensus 15 ~~ydVFISys~~D~~~~fv~~L~~~L~~~gi~vf~d~ 51 (163)
.+--|+|+|--.+. -..-.+|.+.|.++|+.|+.-+
T Consensus 15 ~k~~v~i~HG~~eh-~~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEH-SGRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHH-HHHHHHHHHHHHhCCCEEEEEC
Confidence 56789999954443 2355688999999999998754
No 108
>PF05570 DUF765: Circovirus protein of unknown function (DUF765); InterPro: IPR008484 This family consists of several short (27-30aa) porcine and bovine circovirus ORF6 proteins of unknown function.
Probab=20.42 E-value=60 Score=16.93 Aligned_cols=6 Identities=67% Similarity=0.490 Sum_probs=4.3
Q ss_pred CCCCCC
Q 044964 1 MASSSF 6 (163)
Q Consensus 1 ~~~~~~ 6 (163)
||+++.
T Consensus 1 masstp 6 (29)
T PF05570_consen 1 MASSTP 6 (29)
T ss_pred CCcCCC
Confidence 788763
Done!