Query 048656
Match_columns 115
No_of_seqs 106 out of 1028
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 11:43:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048656.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048656hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03210 Resistant to P. syrin 100.0 9.7E-37 2.1E-41 262.4 10.9 112 1-112 19-130 (1153)
2 PLN03194 putative disease resi 100.0 9.5E-36 2E-40 211.3 9.1 97 1-101 33-131 (187)
3 PF01582 TIR: TIR domain; Int 99.9 3.3E-26 7.1E-31 156.1 0.8 111 1-111 5-121 (141)
4 smart00255 TIR Toll - interleu 99.8 1.2E-20 2.6E-25 127.2 10.2 104 4-109 12-117 (140)
5 PF13676 TIR_2: TIR domain; PD 99.7 2E-17 4.3E-22 106.6 3.3 88 2-97 6-93 (102)
6 KOG3678 SARM protein (with ste 97.8 7E-05 1.5E-09 60.8 6.6 76 8-88 625-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 97.6 0.00012 2.5E-09 49.2 4.5 51 34-88 57-107 (130)
8 PF08357 SEFIR: SEFIR domain; 96.5 0.018 4E-07 39.0 7.3 55 5-59 12-70 (150)
9 PF10137 TIR-like: Predicted n 94.3 0.15 3.2E-06 34.4 5.3 77 9-87 11-101 (125)
10 PF05014 Nuc_deoxyrib_tr: Nucl 93.5 0.53 1.2E-05 30.4 6.8 69 7-76 12-89 (113)
11 PF13271 DUF4062: Domain of un 91.3 0.71 1.5E-05 28.4 4.9 52 12-63 16-68 (83)
12 PF14258 DUF4350: Domain of un 87.3 4.2 9.2E-05 23.8 6.1 61 12-84 8-68 (70)
13 TIGR00640 acid_CoA_mut_C methy 81.6 12 0.00027 25.1 7.1 77 3-89 14-90 (132)
14 PF03720 UDPG_MGDP_dh_C: UDP-g 73.6 2.7 5.8E-05 26.9 1.9 58 4-61 12-80 (106)
15 PF03129 HGTP_anticodon: Antic 73.5 4.5 9.7E-05 24.8 2.9 46 8-57 15-61 (94)
16 PF02310 B12-binding: B12 bind 70.2 25 0.00054 22.3 7.0 59 11-77 17-76 (121)
17 PF10087 DUF2325: Uncharacteri 67.0 28 0.00061 21.7 5.7 60 9-69 10-70 (97)
18 PF11074 DUF2779: Domain of un 64.8 6.3 0.00014 26.6 2.3 30 41-72 64-93 (130)
19 cd07363 45_DOPA_Dioxygenase Th 64.0 53 0.0012 24.3 7.4 69 7-77 79-149 (253)
20 cd00861 ProRS_anticodon_short 61.3 28 0.00062 20.9 4.7 47 9-59 18-65 (94)
21 cd02426 Pol_gamma_b_Cterm C-te 61.2 5.9 0.00013 26.5 1.6 24 7-30 42-65 (128)
22 PF03709 OKR_DC_1_N: Orn/Lys/A 59.3 46 0.00099 21.5 5.7 71 9-91 4-75 (115)
23 COG0710 AroD 3-dehydroquinate 57.9 55 0.0012 24.3 6.4 76 8-87 78-155 (231)
24 PF01990 ATP-synt_F: ATP synth 57.6 44 0.00095 20.8 5.4 48 13-62 8-55 (95)
25 PRK15057 UDP-glucose 6-dehydro 57.1 25 0.00054 27.8 4.8 50 4-53 311-365 (388)
26 cd02042 ParA ParA and ParB of 55.1 47 0.001 20.3 5.7 68 2-73 8-83 (104)
27 COG0512 PabA Anthranilate/para 55.1 22 0.00048 25.7 3.8 45 5-58 8-54 (191)
28 KOG1136 Predicted cleavage and 51.8 52 0.0011 26.4 5.6 45 44-88 191-241 (501)
29 cd07373 2A5CPDO_A The alpha su 51.0 1E+02 0.0022 23.0 8.6 79 7-86 89-172 (271)
30 cd04141 Rit_Rin_Ric Rit/Rin/Ri 48.2 84 0.0018 21.2 6.1 53 43-97 69-121 (172)
31 PF09419 PGP_phosphatase: Mito 47.6 78 0.0017 22.3 5.6 67 18-89 36-112 (168)
32 KOG1191 Mitochondrial GTPase [ 46.7 69 0.0015 26.7 5.8 39 21-59 314-360 (531)
33 COG0415 PhrB Deoxyribodipyrimi 44.4 94 0.002 25.5 6.3 89 12-109 58-150 (461)
34 COG4916 Uncharacterized protei 44.4 23 0.0005 27.1 2.6 77 9-88 190-273 (329)
35 COG1658 Small primase-like pro 44.0 29 0.00064 23.4 2.9 39 8-47 43-81 (127)
36 cd00860 ThrRS_anticodon ThrRS 43.8 68 0.0015 18.9 4.6 46 10-59 16-62 (91)
37 PF05060 MGAT2: N-acetylglucos 43.4 73 0.0016 25.3 5.3 45 49-100 60-108 (356)
38 COG4271 Predicted nucleotide-b 43.2 44 0.00096 24.6 3.8 65 12-76 96-176 (233)
39 PTZ00344 pyridoxal kinase; Pro 43.1 62 0.0013 24.3 4.8 73 2-74 53-134 (296)
40 COG1058 CinA Predicted nucleot 40.8 40 0.00086 25.5 3.4 45 6-52 18-65 (255)
41 cd01857 HSR1_MMR1 HSR1/MMR1. 40.0 1.1E+02 0.0023 20.1 5.2 19 41-59 5-23 (141)
42 cd03028 GRX_PICOT_like Glutare 40.0 17 0.00037 22.4 1.1 22 44-67 4-25 (90)
43 PRK13883 conjugal transfer pro 40.0 35 0.00075 23.8 2.8 27 4-30 59-85 (151)
44 PF14359 DUF4406: Domain of un 39.5 96 0.0021 19.4 5.9 66 7-75 15-85 (92)
45 cd02986 DLP Dim1 family, Dim1- 39.5 26 0.00056 23.2 2.0 55 42-103 6-65 (114)
46 cd00862 ProRS_anticodon_zinc P 39.1 51 0.0011 23.6 3.7 32 8-39 29-62 (202)
47 TIGR03026 NDP-sugDHase nucleot 39.0 56 0.0012 25.8 4.2 54 4-57 328-386 (411)
48 cd00138 PLDc Phospholipase D. 38.6 63 0.0014 21.7 4.0 31 31-61 16-46 (176)
49 PF03808 Glyco_tran_WecB: Glyc 38.2 1.3E+02 0.0029 20.7 6.8 69 8-83 34-104 (172)
50 cd04142 RRP22 RRP22 subfamily. 38.1 1.1E+02 0.0024 21.4 5.3 53 42-97 75-130 (198)
51 KOG2792 Putative cytochrome C 38.0 34 0.00075 26.1 2.7 30 64-93 154-187 (280)
52 cd00738 HGTP_anticodon HGTP an 37.5 89 0.0019 18.4 5.0 47 9-58 18-64 (94)
53 PRK09426 methylmalonyl-CoA mut 37.2 1.6E+02 0.0034 25.6 6.8 64 4-74 595-658 (714)
54 COG2077 Tpx Peroxiredoxin [Pos 36.7 26 0.00057 24.5 1.8 22 47-68 74-97 (158)
55 PF00762 Ferrochelatase: Ferro 36.2 2E+02 0.0043 22.1 7.0 93 10-111 74-172 (316)
56 cd00885 cinA Competence-damage 35.8 53 0.0011 22.9 3.3 50 5-56 15-65 (170)
57 PF05636 HIGH_NTase1: HIGH Nuc 35.7 37 0.0008 27.1 2.7 54 44-97 26-83 (388)
58 PF00994 MoCF_biosynth: Probab 35.6 53 0.0011 21.8 3.1 49 6-54 14-63 (144)
59 TIGR00334 5S_RNA_mat_M5 ribonu 35.3 58 0.0013 23.2 3.4 44 5-49 32-75 (174)
60 smart00852 MoCF_biosynth Proba 35.2 65 0.0014 21.1 3.5 46 5-50 14-60 (135)
61 PF07429 Glyco_transf_56: 4-al 34.9 38 0.00083 26.9 2.6 49 14-65 300-350 (360)
62 PRK10076 pyruvate formate lyas 34.3 1.2E+02 0.0026 21.9 5.0 25 6-30 51-75 (213)
63 PF00350 Dynamin_N: Dynamin fa 33.8 1.4E+02 0.003 19.6 5.6 46 39-87 120-165 (168)
64 TIGR00177 molyb_syn molybdenum 33.3 68 0.0015 21.5 3.4 50 5-54 23-73 (144)
65 PRK12325 prolyl-tRNA synthetas 32.9 50 0.0011 26.6 3.0 49 8-61 361-411 (439)
66 PF02337 Gag_p10: Retroviral G 32.1 36 0.00078 21.6 1.7 21 8-28 8-28 (90)
67 PF02142 MGS: MGS-like domain 31.4 1.3E+02 0.0028 18.5 4.4 48 15-62 23-73 (95)
68 COG0276 HemH Protoheme ferro-l 31.2 2.6E+02 0.0056 21.9 8.1 90 11-111 75-174 (320)
69 PF13840 ACT_7: ACT domain ; P 31.0 52 0.0011 19.0 2.2 21 7-27 20-40 (65)
70 COG0576 GrpE Molecular chapero 30.4 1.1E+02 0.0025 21.9 4.3 47 11-61 124-177 (193)
71 cd04168 TetM_like Tet(M)-like 30.3 2.2E+02 0.0047 20.7 7.7 73 33-114 72-145 (237)
72 smart00851 MGS MGS-like domain 30.3 1.3E+02 0.0028 18.2 4.3 20 39-58 45-64 (90)
73 PRK07283 hypothetical protein; 30.1 1E+02 0.0022 19.5 3.6 20 40-59 71-90 (98)
74 PF00319 SRF-TF: SRF-type tran 29.7 41 0.0009 18.9 1.5 14 45-58 30-43 (51)
75 cd00154 Rab Rab family. Rab G 29.5 1.5E+02 0.0032 18.6 5.6 24 39-62 64-87 (159)
76 PF00875 DNA_photolyase: DNA p 29.2 1.8E+02 0.0039 19.5 6.6 92 12-110 56-149 (165)
77 TIGR02826 RNR_activ_nrdG3 anae 28.7 1.8E+02 0.0038 19.8 4.9 19 9-27 75-93 (147)
78 cd00419 Ferrochelatase_C Ferro 28.4 1.2E+02 0.0027 20.2 4.0 56 10-67 46-107 (135)
79 PF07283 TrbH: Conjugal transf 28.3 71 0.0015 21.3 2.7 26 5-30 32-57 (121)
80 TIGR00409 proS_fam_II prolyl-t 28.2 38 0.00082 28.3 1.7 46 8-61 489-539 (568)
81 cd07371 2A5CPDO_AB The alpha a 27.4 2.6E+02 0.0057 20.8 7.4 78 7-86 86-169 (268)
82 cd00758 MoCF_BD MoCF_BD: molyb 27.2 1.2E+02 0.0025 19.9 3.7 45 6-50 16-61 (133)
83 KOG4132 Uroporphyrinogen III s 27.0 96 0.0021 23.4 3.4 51 13-63 147-201 (260)
84 PRK11784 tRNA 2-selenouridine 26.8 1.7E+02 0.0038 22.8 5.1 53 5-57 190-246 (345)
85 TIGR01101 V_ATP_synt_F vacuola 26.5 84 0.0018 20.8 2.8 26 36-61 47-72 (115)
86 PRK09189 uroporphyrinogen-III 26.4 1.5E+02 0.0032 21.3 4.4 56 2-61 125-183 (240)
87 PF06152 Phage_min_cap2: Phage 26.4 1.9E+02 0.004 22.8 5.2 60 3-65 162-239 (361)
88 PRK11064 wecC UDP-N-acetyl-D-m 26.2 1.1E+02 0.0024 24.3 4.0 60 4-63 335-403 (415)
89 cd04919 ACT_AK-Hom3_2 ACT doma 25.8 1.1E+02 0.0025 16.8 3.1 21 7-27 14-34 (66)
90 PF12076 Wax2_C: WAX2 C-termin 25.8 74 0.0016 22.5 2.5 73 10-87 10-83 (164)
91 cd04106 Rab23_lke Rab23-like s 25.7 1.9E+02 0.0041 18.6 5.8 54 42-99 69-122 (162)
92 PRK12299 obgE GTPase CgtA; Rev 25.7 3.2E+02 0.0069 21.2 6.7 25 37-61 226-250 (335)
93 cd01867 Rab8_Rab10_Rab13_like 25.6 2E+02 0.0044 18.9 6.2 22 41-62 69-90 (167)
94 PRK08306 dipicolinate synthase 25.6 1.1E+02 0.0023 23.3 3.6 45 13-57 16-65 (296)
95 cd04146 RERG_RasL11_like RERG/ 25.5 2E+02 0.0043 18.8 6.5 23 40-62 64-86 (165)
96 cd01422 MGS Methylglyoxal synt 25.4 1.8E+02 0.0039 18.7 4.3 21 39-59 60-80 (115)
97 PLN02455 fructose-bisphosphate 25.4 3.5E+02 0.0076 21.6 6.5 78 16-97 91-189 (358)
98 PRK08661 prolyl-tRNA synthetas 25.3 76 0.0017 25.8 2.9 31 8-38 306-338 (477)
99 PLN02449 ferrochelatase 25.2 4E+02 0.0086 22.1 8.8 92 11-111 166-265 (485)
100 KOG4764 Uncharacterized conser 25.2 60 0.0013 19.6 1.7 22 3-24 47-68 (70)
101 cd02067 B12-binding B12 bindin 25.2 1.9E+02 0.004 18.3 7.8 58 13-74 18-75 (119)
102 cd06578 HemD Uroporphyrinogen- 25.0 1.4E+02 0.0031 20.7 4.1 48 13-61 136-186 (239)
103 PRK05339 PEP synthetase regula 24.7 1.1E+02 0.0023 23.4 3.4 42 36-78 197-238 (269)
104 cd01868 Rab11_like Rab11-like. 24.7 2.1E+02 0.0044 18.6 6.2 53 42-97 70-122 (165)
105 cd00532 MGS-like MGS-like doma 24.6 1.7E+02 0.0036 18.6 4.0 20 39-58 57-77 (112)
106 cd01471 vWA_micronemal_protein 24.3 1.3E+02 0.0027 20.5 3.6 33 41-76 129-161 (186)
107 PRK06774 para-aminobenzoate sy 24.2 1.4E+02 0.0029 20.9 3.8 49 5-60 6-54 (191)
108 cd01864 Rab19 Rab19 subfamily. 24.2 2.1E+02 0.0046 18.6 6.2 21 42-62 70-90 (165)
109 TIGR03556 photolyase_8HDF deox 24.2 3.9E+02 0.0084 21.7 8.8 82 12-100 58-141 (471)
110 cd06340 PBP1_ABC_ligand_bindin 24.2 3.1E+02 0.0067 20.5 6.0 51 10-61 160-211 (347)
111 PRK13762 tRNA-modifying enzyme 24.1 2.3E+02 0.0049 21.9 5.2 52 3-60 139-190 (322)
112 TIGR02298 HpaD_Fe 3,4-dihydrox 24.0 3.2E+02 0.0069 20.6 9.5 78 7-86 95-178 (282)
113 COG2342 Predicted extracellula 23.5 1.4E+02 0.0031 23.1 3.9 44 39-88 33-79 (300)
114 TIGR00408 proS_fam_I prolyl-tR 23.4 2.3E+02 0.0049 23.1 5.3 24 7-30 300-323 (472)
115 PF13477 Glyco_trans_4_2: Glyc 23.4 87 0.0019 19.9 2.5 23 5-27 7-29 (139)
116 TIGR00418 thrS threonyl-tRNA s 23.4 1.7E+02 0.0037 24.1 4.7 46 9-57 484-529 (563)
117 PRK12413 phosphomethylpyrimidi 23.4 2.9E+02 0.0062 19.8 5.5 24 41-64 88-111 (253)
118 PF08477 Miro: Miro-like prote 23.3 1.1E+02 0.0023 18.9 2.8 20 43-62 69-88 (119)
119 cd04922 ACT_AKi-HSDH-ThrA_2 AC 23.2 1.4E+02 0.003 16.3 3.1 21 7-27 14-34 (66)
120 cd02068 radical_SAM_B12_BD B12 23.1 2.1E+02 0.0046 18.3 7.8 59 12-76 6-65 (127)
121 cd04911 ACT_AKiii-YclM-BS_1 AC 23.1 83 0.0018 19.2 2.1 20 8-27 15-34 (76)
122 PTZ00099 rab6; Provisional 23.0 2.6E+02 0.0056 19.2 5.7 18 43-60 48-65 (176)
123 PRK09194 prolyl-tRNA synthetas 23.0 1E+02 0.0022 25.7 3.2 50 8-61 484-534 (565)
124 PF08444 Gly_acyl_tr_C: Aralky 22.9 77 0.0017 20.1 2.0 28 2-29 32-59 (89)
125 PRK13835 conjugal transfer pro 22.9 92 0.002 21.6 2.5 26 4-30 65-90 (145)
126 TIGR01093 aroD 3-dehydroquinat 22.7 3E+02 0.0065 19.8 6.2 54 25-79 94-147 (228)
127 PF09886 DUF2113: Uncharacteri 21.8 3.2E+02 0.0069 19.7 5.7 56 4-76 127-185 (188)
128 cd00120 MADS MADS: MCM1, Agamo 21.8 64 0.0014 18.6 1.4 21 45-65 37-57 (59)
129 TIGR03278 methan_mark_10 putat 21.5 2.9E+02 0.0062 22.2 5.4 56 4-61 84-140 (404)
130 PF09413 DUF2007: Domain of un 21.4 1E+02 0.0022 17.5 2.3 19 12-30 13-31 (67)
131 PRK02228 V-type ATP synthase s 21.3 2.3E+02 0.0049 17.9 5.2 44 16-62 13-57 (100)
132 PF12146 Hydrolase_4: Putative 21.1 1.6E+02 0.0034 17.6 3.1 21 10-30 31-51 (79)
133 PF13483 Lactamase_B_3: Beta-l 21.0 2.6E+02 0.0057 18.5 4.6 43 39-86 120-162 (163)
134 cd00886 MogA_MoaB MogA_MoaB fa 21.0 1.5E+02 0.0033 19.9 3.4 51 6-56 17-68 (152)
135 PF03852 Vsr: DNA mismatch end 20.9 1.9E+02 0.0042 17.7 3.4 46 2-54 17-62 (75)
136 cd02038 FleN-like FleN is a me 20.8 2.5E+02 0.0055 18.3 8.6 57 5-61 11-80 (139)
137 cd08584 PI-PLCc_GDPD_SF_unchar 20.6 1.5E+02 0.0033 21.3 3.4 36 25-62 127-162 (192)
138 PF05051 COX17: Cytochrome C o 20.6 48 0.001 18.7 0.6 25 1-25 25-49 (49)
139 cd04890 ACT_AK-like_1 ACT doma 20.5 1.1E+02 0.0024 16.8 2.2 21 7-27 13-33 (62)
140 PF08902 DUF1848: Domain of un 20.5 3.9E+02 0.0085 20.3 7.8 82 9-92 60-159 (266)
141 PRK12305 thrS threonyl-tRNA sy 20.4 2.6E+02 0.0057 23.1 5.2 44 10-57 491-535 (575)
142 smart00432 MADS MADS domain. 20.3 70 0.0015 18.5 1.3 15 45-59 37-51 (59)
143 PF05222 AlaDh_PNT_N: Alanine 20.2 62 0.0013 21.7 1.3 54 4-57 9-74 (136)
144 PRK00194 hypothetical protein; 20.1 1.2E+02 0.0025 18.3 2.4 25 2-27 9-33 (90)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=9.7e-37 Score=262.37 Aligned_cols=112 Identities=49% Similarity=0.880 Sum_probs=109.3
Q ss_pred CccccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCC
Q 048656 1 FRGEDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNG 80 (115)
Q Consensus 1 fr~~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~ 80 (115)
|||+|||++|++||+++|.++||++|.|+++++|+.+.+++.+||++|+++|+|||++|++|.||++||++|++|+++++
T Consensus 19 frg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~el~~i~~~~~~~~ 98 (1153)
T PLN03210 19 FSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNELLEIVRCKEELG 98 (1153)
T ss_pred CCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHHHHHHHHhhhhcC
Confidence 89999999999999999999999999988899999999999999999999999999999999999999999999999999
Q ss_pred CEEEEEEEecCCcccccccchHHHHHHHHHHH
Q 048656 81 QVVIPVFYNVDPSDVRNQKRSFKDAFVKHDKQ 112 (115)
Q Consensus 81 ~~viPIfy~v~p~~v~~~~g~~~~~f~~~~~~ 112 (115)
++|+||||+|+|++|++|+|.||++|.+++++
T Consensus 99 ~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~ 130 (1153)
T PLN03210 99 QLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQN 130 (1153)
T ss_pred ceEEEEEecccHHHHhhccchHHHHHHHHhcc
Confidence 99999999999999999999999999998764
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=9.5e-36 Score=211.27 Aligned_cols=97 Identities=33% Similarity=0.571 Sum_probs=92.4
Q ss_pred CccccccccHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcC
Q 048656 1 FRGEDICDNFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKN 79 (115)
Q Consensus 1 fr~~d~r~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~ 79 (115)
|||+|||++|++||+++|+++||++|+|+. +++|+.+.++|.+||++|+++|+|||++|++|.||++||..|+++.
T Consensus 33 FrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I~e~~--- 109 (187)
T PLN03194 33 HRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALIMESK--- 109 (187)
T ss_pred CCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHHHHcC---
Confidence 899999999999999999999999999998 9999999999999999999999999999999999999999999874
Q ss_pred CCEEEEEEEecCCcccccc-cch
Q 048656 80 GQVVIPVFYNVDPSDVRNQ-KRS 101 (115)
Q Consensus 80 ~~~viPIfy~v~p~~v~~~-~g~ 101 (115)
.+|+||||+|+|++|++| .|.
T Consensus 110 -~~ViPIFY~VdPsdVr~q~~~~ 131 (187)
T PLN03194 110 -KRVIPIFCDVKPSQLRVVDNGT 131 (187)
T ss_pred -CEEEEEEecCCHHHhhccccCC
Confidence 489999999999999996 554
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=99.91 E-value=3.3e-26 Score=156.09 Aligned_cols=111 Identities=35% Similarity=0.618 Sum_probs=99.2
Q ss_pred CccccccccHHHHHHHHHhhC--CCceeeeCC-ccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhh
Q 048656 1 FRGEDICDNFLSHLVVALHRK--NIETFVDEE-LTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHK 77 (115)
Q Consensus 1 fr~~d~r~~Fv~~L~~aL~~~--gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~ 77 (115)
|++.+++..|+++|..+|++. |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|.||+.||..|+++..
T Consensus 5 y~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~~~~~ 84 (141)
T PF01582_consen 5 YSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEALERLL 84 (141)
T ss_dssp E-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHHHHHH
T ss_pred eCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhhhhcc
Confidence 355578899999999999999 999999998 99999999999999999999999999999999999999999999886
Q ss_pred cC--CCEEEEEEEecCCcccc-cccchHHHHHHHHHH
Q 048656 78 KN--GQVVIPVFYNVDPSDVR-NQKRSFKDAFVKHDK 111 (115)
Q Consensus 78 ~~--~~~viPIfy~v~p~~v~-~~~g~~~~~f~~~~~ 111 (115)
+. ..+|+||||++.+.++. .+++.|+..|....+
T Consensus 85 ~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~ 121 (141)
T PF01582_consen 85 EEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLR 121 (141)
T ss_dssp CSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEE
T ss_pred ccccccceeeEeccCChhhcChhhhHHHHHHhhhhee
Confidence 53 48999999999999999 799999988876544
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.85 E-value=1.2e-20 Score=127.16 Aligned_cols=104 Identities=43% Similarity=0.730 Sum_probs=91.8
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhc-CCC
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKK-NGQ 81 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~-~~~ 81 (115)
++++..|+.+|..+|+..|+.+|.|+. +..|. .. +|.++|++|+++|+|+|++|+.|.||..|+..++++..+ ...
T Consensus 12 ~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~-~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a~~~~~~~~~~ 89 (140)
T smart00255 12 EDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGD-LE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAALENALEEGGL 89 (140)
T ss_pred HHHHHHHHHHHHHHhhcCCcEEEecCcccccch-HH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHHHHHHHHcCCC
Confidence 568889999999999999999999987 43333 33 999999999999999999999999999999999987644 678
Q ss_pred EEEEEEEecCCcccccccchHHHHHHHH
Q 048656 82 VVIPVFYNVDPSDVRNQKRSFKDAFVKH 109 (115)
Q Consensus 82 ~viPIfy~v~p~~v~~~~g~~~~~f~~~ 109 (115)
+||||+|+..|.++..+.+.++.++..+
T Consensus 90 ~iIPI~~~~~~~~~~~~~~~l~~~~~~~ 117 (140)
T smart00255 90 RVIPIFYEVIPSDVRKQPGKFRKVLKKN 117 (140)
T ss_pred eEEEEEEecChHHHHhcccHHHHHHHHH
Confidence 9999999988888999999999988765
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.68 E-value=2e-17 Score=106.57 Aligned_cols=88 Identities=32% Similarity=0.569 Sum_probs=70.3
Q ss_pred ccccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCC
Q 048656 2 RGEDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQ 81 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~ 81 (115)
..+| ..++..|...|++.|+++|+|..+.+|+.+.++|.++|++|+.+|+++|++|..|+||+.|+..+.+ .+.
T Consensus 6 ~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~----~~~ 79 (102)
T PF13676_consen 6 SSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK----RGK 79 (102)
T ss_dssp EGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC----TSE
T ss_pred cCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH----CCC
Confidence 3445 5699999999999999999996689999999999999999999999999999999999999999833 345
Q ss_pred EEEEEEEecCCccccc
Q 048656 82 VVIPVFYNVDPSDVRN 97 (115)
Q Consensus 82 ~viPIfy~v~p~~v~~ 97 (115)
.|+||. ++++++..
T Consensus 80 ~iipv~--~~~~~~p~ 93 (102)
T PF13676_consen 80 PIIPVR--LDPCELPG 93 (102)
T ss_dssp SEEEEE--CSGGGS-G
T ss_pred EEEEEE--ECCcCCCH
Confidence 899999 44665543
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=97.79 E-value=7e-05 Score=60.78 Aligned_cols=76 Identities=25% Similarity=0.437 Sum_probs=62.6
Q ss_pred ccHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcceeeEEeecCCcC--------ChhHHHHHHHHHHhhhc
Q 048656 8 DNFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESKISVKIFSKNYAS--------SKWCLDELVKILKCHKK 78 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~--------S~wc~~EL~~~~~~~~~ 78 (115)
....+-|.--|+-+|++||+|-+ +..|.. .+.+.+.|..++.+|+|+|||.+. -.|.-.||.-++++.+
T Consensus 625 nQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~nCeDWVHKEl~~Afe~~K- 702 (832)
T KOG3678|consen 625 NQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCEDWVHKELKCAFEHQK- 702 (832)
T ss_pred HHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhccccHHHHHHHHHHHHHHhcC-
Confidence 44566666677889999999988 989864 667888899999999999999654 3677889999988876
Q ss_pred CCCEEEEEEE
Q 048656 79 NGQVVIPVFY 88 (115)
Q Consensus 79 ~~~~viPIfy 88 (115)
-|||||-
T Consensus 703 ---NIiPI~D 709 (832)
T KOG3678|consen 703 ---NIIPIFD 709 (832)
T ss_pred ---Ceeeeec
Confidence 7999983
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=97.60 E-value=0.00012 Score=49.19 Aligned_cols=51 Identities=27% Similarity=0.411 Sum_probs=36.3
Q ss_pred CCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEEE
Q 048656 34 GDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVFY 88 (115)
Q Consensus 34 G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIfy 88 (115)
.+.|...|.++|++|.++||++|++...|+|+..|+..+++. +..||.|..
T Consensus 57 ~~~ik~~I~~~i~~s~~~IVLig~~T~~s~wV~~EI~~A~~~----~~~Ii~V~~ 107 (130)
T PF08937_consen 57 SEYIKRKIRERIKNSSVTIVLIGPNTAKSKWVNWEIEYALKK----GKPIIGVYL 107 (130)
T ss_dssp TTTHHHHHHHHHHTEEEEEEE--TT----HHHHHHHHHHTTT-------EEEEET
T ss_pred HHHHHHHHHHHHhcCCEEEEEeCCCcccCcHHHHHHHHHHHC----CCCEEEEEC
Confidence 346788999999999999999999999999999999998774 347777764
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=96.53 E-value=0.018 Score=39.00 Aligned_cols=55 Identities=16% Similarity=0.234 Sum_probs=44.0
Q ss_pred cccccHHHHHHHHHhhC-CCceeeeCC-ccC--CCcccHHHHHHhhhcceeeEEeecCC
Q 048656 5 DICDNFLSHLVVALHRK-NIETFVDEE-LTR--GDEISPAFLKAIEESKISVKIFSKNY 59 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~-gi~~f~d~~-l~~--G~~i~~~i~~~I~~s~~~Ivv~S~~~ 59 (115)
+....-|-.|...|++. |+.|.+|.. ... +..+..=+.+++++++.+|+|.||.+
T Consensus 12 ~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~ 70 (150)
T PF08357_consen 12 EEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred HHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 34456788999999999 999999986 533 55666667778999999999999543
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=94.29 E-value=0.15 Score=34.38 Aligned_cols=77 Identities=13% Similarity=0.129 Sum_probs=52.8
Q ss_pred cHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcceeeEEeecCC-c------------CChhHHHHHHHHHH
Q 048656 9 NFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESKISVKIFSKNY-A------------SSKWCLDELVKILK 74 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~-~------------~S~wc~~EL~~~~~ 74 (115)
.....+..-|+..|+.+..=.+ ...|..+.+.+.+..++++.+|++++|+= . ..+=.+.|+..++.
T Consensus 11 ~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~aR~NVifE~G~f~g 90 (125)
T PF10137_consen 11 AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRARQNVIFELGLFIG 90 (125)
T ss_pred HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCccccccccccceeehhhHHHh
Confidence 3455677778878886554333 78899999999999999999999999962 2 11224668888776
Q ss_pred hhhcCCCEEEEEE
Q 048656 75 CHKKNGQVVIPVF 87 (115)
Q Consensus 75 ~~~~~~~~viPIf 87 (115)
.. +..+++-+.
T Consensus 91 ~L--Gr~rv~~l~ 101 (125)
T PF10137_consen 91 KL--GRERVFILV 101 (125)
T ss_pred hc--CcceEEEEE
Confidence 54 233444443
No 10
>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=93.53 E-value=0.53 Score=30.42 Aligned_cols=69 Identities=16% Similarity=0.119 Sum_probs=49.5
Q ss_pred cccHHHHHHHHHhhCCCceeeeCC--c---cCCCcccHHH----HHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhh
Q 048656 7 CDNFLSHLVVALHRKNIETFVDEE--L---TRGDEISPAF----LKAIEESKISVKIFSKNYASSKWCLDELVKILKCH 76 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~d~~--l---~~G~~i~~~i----~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~ 76 (115)
...++..+.+.|++.|+.++.... . ..+..+..+| .++|++|+++|+++...- .+.=+..|+..|....
T Consensus 12 ~~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 12 QKARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 355788899999999999887653 2 1233333344 568999999999998866 5666788999987654
No 11
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=91.31 E-value=0.71 Score=28.44 Aligned_cols=52 Identities=23% Similarity=0.273 Sum_probs=37.1
Q ss_pred HHHHHHHhhCCCceeeeCCc-cCCCcccHHHHHHhhhcceeeEEeecCCcCCh
Q 048656 12 SHLVVALHRKNIETFVDEEL-TRGDEISPAFLKAIEESKISVKIFSKNYASSK 63 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~l-~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~ 63 (115)
..|.+.|.+.|.....-+.+ -.+....+.+.+.|++|+++|.++-..|-..+
T Consensus 16 ~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~ 68 (83)
T PF13271_consen 16 DALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP 68 (83)
T ss_pred HHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence 45677777777655443332 23556667888999999999999999986543
No 12
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=87.28 E-value=4.2 Score=23.82 Aligned_cols=61 Identities=13% Similarity=0.138 Sum_probs=38.1
Q ss_pred HHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEE
Q 048656 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVI 84 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~vi 84 (115)
.-|+.-|++.|+.+-.... ..++++..+-.+++++|.+.-+. -.++..+.+..+.++..|+
T Consensus 8 ~a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 3467788889988754332 12245568889999999966554 3455555555555555543
No 13
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=81.61 E-value=12 Score=25.07 Aligned_cols=77 Identities=16% Similarity=0.041 Sum_probs=48.7
Q ss_pred cccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCE
Q 048656 3 GEDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQV 82 (115)
Q Consensus 3 ~~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~ 82 (115)
+.|.+++|+..+ |+..|+.|-.-. ++.-.+++.++..+.+.-++++|.-..++.--+.++...++.. +..
T Consensus 14 ~Hd~g~~iv~~~---l~~~GfeVi~lg----~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~---g~~ 83 (132)
T TIGR00640 14 GHDRGAKVIATA---YADLGFDVDVGP----LFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKL---GRP 83 (132)
T ss_pred ccHHHHHHHHHH---HHhCCcEEEECC----CCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhc---CCC
Confidence 345666777555 788999876622 2333457778888889999999987766544445555544332 222
Q ss_pred EEEEEEe
Q 048656 83 VIPVFYN 89 (115)
Q Consensus 83 viPIfy~ 89 (115)
-+||+-.
T Consensus 84 ~i~vivG 90 (132)
T TIGR00640 84 DILVVVG 90 (132)
T ss_pred CCEEEEe
Confidence 4667654
No 14
>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=73.56 E-value=2.7 Score=26.94 Aligned_cols=58 Identities=17% Similarity=0.209 Sum_probs=36.9
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC-cc----------CCCcccHHHHHHhhhcceeeEEeecCCcC
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE-LT----------RGDEISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~-l~----------~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
.|+|.+=+-.|++.|.+.|..+...+- +. .|-...+.+.++++.++..|+....+-..
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~~f~ 80 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHDEFR 80 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--GGGG
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCHHHh
Confidence 589999999999999999999887653 22 12333445678888999877776665444
No 15
>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=73.51 E-value=4.5 Score=24.79 Aligned_cols=46 Identities=13% Similarity=0.159 Sum_probs=30.0
Q ss_pred ccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhh-hcceeeEEeec
Q 048656 8 DNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIE-ESKISVKIFSK 57 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~-~s~~~Ivv~S~ 57 (115)
..++.+|.+.|++.|+.+.+|.. +.++...+..|-. +.. .++|+.+
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~---~~~~~k~~~~a~~~g~p-~~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS---DKSLGKQIKYADKLGIP-FIIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS---SSTHHHHHHHHHHTTES-EEEEEEH
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCchhHHHHHHhhcCCe-EEEEECc
Confidence 35788999999999999999874 3344444444433 333 4445544
No 16
>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=70.18 E-value=25 Score=22.25 Aligned_cols=59 Identities=19% Similarity=0.229 Sum_probs=37.7
Q ss_pred HHHHHHHHhhCCCcee-eeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhh
Q 048656 11 LSHLVVALHRKNIETF-VDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHK 77 (115)
Q Consensus 11 v~~L~~aL~~~gi~~f-~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~ 77 (115)
...|...|++.|..+- +|-... .+++.+++.+.+.-++.+|-.+..+ ..++..+.+..+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~-----~~~l~~~~~~~~pd~V~iS~~~~~~---~~~~~~l~~~~k 76 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVP-----PEELVEALRAERPDVVGISVSMTPN---LPEAKRLARAIK 76 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB------HHHHHHHHHHTTCSEEEEEESSSTH---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCeEEEECCCCC-----HHHHHHHHhcCCCcEEEEEccCcCc---HHHHHHHHHHHH
Confidence 4568889999999875 443321 1677788888888788888765443 344444444343
No 17
>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=66.97 E-value=28 Score=21.69 Aligned_cols=60 Identities=7% Similarity=0.084 Sum_probs=38.3
Q ss_pred cHHHHHHHHHhhCCCceeeeCCccCC-CcccHHHHHHhhhcceeeEEeecCCcCChhHHHHH
Q 048656 9 NFLSHLVVALHRKNIETFVDEELTRG-DEISPAFLKAIEESKISVKIFSKNYASSKWCLDEL 69 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~l~~G-~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL 69 (115)
.-..++...+++.|...-+. .-..| ..-...+...|.++|++|++.+-..-.+.|...+.
T Consensus 10 ~~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~ 70 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKA 70 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHH
Confidence 34567778889999885555 10112 11123477889999998888876666666655443
No 18
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=64.79 E-value=6.3 Score=26.58 Aligned_cols=30 Identities=27% Similarity=0.478 Sum_probs=15.0
Q ss_pred HHHHhhhcceeeEEeecCCcCChhHHHHHHHH
Q 048656 41 FLKAIEESKISVKIFSKNYASSKWCLDELVKI 72 (115)
Q Consensus 41 i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~ 72 (115)
+.++|..-...|+++++.|-.+ |+.||..+
T Consensus 64 L~~~i~~~~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 64 LIKAIGSIYGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHHHhhhhcCeEEEechHHHHH--HHHHHHHH
Confidence 3333333335566666655543 56666544
No 19
>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=64.05 E-value=53 Score=24.27 Aligned_cols=69 Identities=16% Similarity=0.087 Sum_probs=49.7
Q ss_pred cccHHHHHHHHHhhCCCceeeeCC--ccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhh
Q 048656 7 CDNFLSHLVVALHRKNIETFVDEE--LTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHK 77 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~d~~--l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~ 77 (115)
...++.++.+.|...|+.+-.+.. +--|..+.-. -...+.++-||.+|-+...+..-..+|..++...+
T Consensus 79 ~~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vPL~--~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 79 SPELAERVAELLKAAGIPARLDPERGLDHGAWVPLK--LMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred CHHHHHHHHHHHHhcCCCccccCCcCCcccHHHHHH--HHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 456889999999999998776543 5556443322 23345688899999988877777778998887654
No 20
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=61.30 E-value=28 Score=20.91 Aligned_cols=47 Identities=13% Similarity=0.181 Sum_probs=28.5
Q ss_pred cHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhh-hcceeeEEeecCC
Q 048656 9 NFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIE-ESKISVKIFSKNY 59 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~-~s~~~Ivv~S~~~ 59 (115)
...-.|+..|+..|+++.+|.. +.++...+..|-. +.. .++++.++-
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~-~~iiiG~~e 65 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIP-YRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCC-EEEEECCch
Confidence 4567789999999999999875 2233333333322 333 455555443
No 21
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=61.17 E-value=5.9 Score=26.46 Aligned_cols=24 Identities=8% Similarity=0.061 Sum_probs=20.7
Q ss_pred cccHHHHHHHHHhhCCCceeeeCC
Q 048656 7 CDNFLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
-......|++.|+..|+.++.|++
T Consensus 42 ~~~~a~~l~~~L~~~gi~v~~D~r 65 (128)
T cd02426 42 LRDLCQGLKNELREAGLSVWPGYL 65 (128)
T ss_pred HHHHHHHHHHHHHHcCCEEEeccC
Confidence 345778999999999999999887
No 22
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=59.26 E-value=46 Score=21.50 Aligned_cols=71 Identities=21% Similarity=0.232 Sum_probs=42.1
Q ss_pred cHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhh-hcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEE
Q 048656 9 NFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIE-ESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVF 87 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~-~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIf 87 (115)
.-+..|..+|++.|+.+-.-.. .+.....++ .++++-+|+|=+ .+..-...++...++.. .-=+|||
T Consensus 4 a~~~~l~~~L~~~~~~vv~~~~-------~dd~~~~i~~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~----~~~iPVF 71 (115)
T PF03709_consen 4 AASRELAEALEQRGREVVDADS-------TDDALAIIESFTDIAAVVISWD-GEEEDEAQELLDKIRER----NFGIPVF 71 (115)
T ss_dssp HHHHHHHHHHHHTTTEEEEESS-------HHHHHHHHHCTTTEEEEEEECH-HHHHHHHHHHHHHHHHH----STT-EEE
T ss_pred HHHHHHHHHHHHCCCEEEEeCC-------hHHHHHHHHhCCCeeEEEEEcc-cccchhHHHHHHHHHHh----CCCCCEE
Confidence 3467899999999998766442 344445555 589999999977 21111222333333332 2347998
Q ss_pred EecC
Q 048656 88 YNVD 91 (115)
Q Consensus 88 y~v~ 91 (115)
.-.+
T Consensus 72 l~~~ 75 (115)
T PF03709_consen 72 LLAE 75 (115)
T ss_dssp EEES
T ss_pred EEec
Confidence 7655
No 23
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=57.91 E-value=55 Score=24.35 Aligned_cols=76 Identities=18% Similarity=0.220 Sum_probs=44.4
Q ss_pred ccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCC--CEEEE
Q 048656 8 DNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNG--QVVIP 85 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~--~~viP 85 (115)
...+.-|.+..+.+| .-|+|=++..+.....++...-.+-. +|+|-+..++.+.++|+..++..+...+ ..-++
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 334545555555555 66777663333222223222222222 8999999999999999999988775333 34444
Q ss_pred EE
Q 048656 86 VF 87 (115)
Q Consensus 86 If 87 (115)
+.
T Consensus 154 vm 155 (231)
T COG0710 154 VM 155 (231)
T ss_pred ec
Confidence 43
No 24
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=57.63 E-value=44 Score=20.77 Aligned_cols=48 Identities=15% Similarity=0.282 Sum_probs=35.0
Q ss_pred HHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCC
Q 048656 13 HLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 13 ~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
.+...++-.|+..+... ...+...+.+.+.+++.++.|++++.++.+.
T Consensus 8 ~~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~ 55 (95)
T PF01990_consen 8 DTVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK 55 (95)
T ss_dssp HHHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT
T ss_pred HHHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH
Confidence 45567888999988864 1234445566666778899999999998874
No 25
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=57.06 E-value=25 Score=27.84 Aligned_cols=50 Identities=6% Similarity=0.236 Sum_probs=37.0
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC-ccC----CCcccHHHHHHhhhcceeeE
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE-LTR----GDEISPAFLKAIEESKISVK 53 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~-l~~----G~~i~~~i~~~I~~s~~~Iv 53 (115)
+|+|.+=.-.|.+.|..+|..+-..|- +.. +-.+.++...+++.|+..|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 488999999999999999988776654 332 34455666778888887655
No 26
>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=55.07 E-value=47 Score=20.33 Aligned_cols=68 Identities=16% Similarity=0.127 Sum_probs=44.4
Q ss_pred ccccccccHHHHHHHHHhhCCCceeeeCC-cc-------CCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHH
Q 048656 2 RGEDICDNFLSHLVVALHRKNIETFVDEE-LT-------RGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKIL 73 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi~~f~d~~-l~-------~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~ 73 (115)
+|.--+..+..+|...|.++|.++..-+. .+ -+-.+......++..|+..|++..++..+ +..+..++
T Consensus 8 kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~s----~~~~~~~~ 83 (104)
T cd02042 8 KGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPLD----LDGLEKLL 83 (104)
T ss_pred CCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHHH----HHHHHHHH
Confidence 34455667889999999999988776432 11 11223444557889999999999886543 44444443
No 27
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=55.06 E-value=22 Score=25.71 Aligned_cols=45 Identities=27% Similarity=0.306 Sum_probs=32.7
Q ss_pred cccccHHHHHHHHHhhCC--CceeeeCCccCCCcccHHHHHHhhhcceeeEEeecC
Q 048656 5 DICDNFLSHLVVALHRKN--IETFVDEELTRGDEISPAFLKAIEESKISVKIFSKN 58 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~g--i~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~ 58 (115)
|..++|+-.|++.|+..| +.|+..+. +... .++..+--.+|+||.
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd~------~~~~---~~~~~~pd~iviSPG 54 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRNDD------ISLE---LIEALKPDAIVISPG 54 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECCc------cCHH---HHhhcCCCEEEEcCC
Confidence 677899999999999988 45555442 2222 466777778899986
No 28
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=51.79 E-value=52 Score=26.39 Aligned_cols=45 Identities=33% Similarity=0.633 Sum_probs=34.9
Q ss_pred HhhhcceeeEEeecCCc----CChhHHH-HHHHH-HHhhhcCCCEEEEEEE
Q 048656 44 AIEESKISVKIFSKNYA----SSKWCLD-ELVKI-LKCHKKNGQVVIPVFY 88 (115)
Q Consensus 44 ~I~~s~~~Ivv~S~~~~----~S~wc~~-EL~~~-~~~~~~~~~~viPIfy 88 (115)
.|+.+|--++|--..|+ .|+.|.+ |+.++ -+|...++.++||||-
T Consensus 191 ~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 191 WIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred hhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeee
Confidence 46778887777777776 5888977 77766 4677788999999994
No 29
>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=50.99 E-value=1e+02 Score=23.03 Aligned_cols=79 Identities=18% Similarity=0.152 Sum_probs=53.4
Q ss_pred cccHHHHHHHHHhhCCCcee-eeCC---ccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHh-hhcCCC
Q 048656 7 CDNFLSHLVVALHRKNIETF-VDEE---LTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKC-HKKNGQ 81 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f-~d~~---l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~-~~~~~~ 81 (115)
...++..+.+.|.+.|+.+- .|.. +--|....-... .-...++-||.+|.+...+.....+|-+++.. .++.+.
T Consensus 89 ~~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l-~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~~ 167 (271)
T cd07373 89 DTALAEACVTACPEHGVHARGVDYDGFPIDTGTITACTLM-GIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQNK 167 (271)
T ss_pred CHHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHHHHHH-cccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence 45678899999999999886 6552 445543322211 12256777888999887777777899998884 454456
Q ss_pred EEEEE
Q 048656 82 VVIPV 86 (115)
Q Consensus 82 ~viPI 86 (115)
+|+-|
T Consensus 168 rV~iI 172 (271)
T cd07373 168 RVAVV 172 (271)
T ss_pred eEEEE
Confidence 66655
No 30
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=48.16 E-value=84 Score=21.21 Aligned_cols=53 Identities=13% Similarity=0.063 Sum_probs=32.9
Q ss_pred HHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEEEecCCccccc
Q 048656 43 KAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVRN 97 (115)
Q Consensus 43 ~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIfy~v~p~~v~~ 97 (115)
..+..++.+|++++.+-..|---..++...+...... .-+||+.=...+|+..
T Consensus 69 ~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~--~~~piilvgNK~Dl~~ 121 (172)
T cd04141 69 QYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLT--EDIPLVLVGNKVDLES 121 (172)
T ss_pred HHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCC--CCCCEEEEEEChhhhh
Confidence 4677899999999988776655455544444433211 1256666566777654
No 31
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=47.60 E-value=78 Score=22.28 Aligned_cols=67 Identities=31% Similarity=0.365 Sum_probs=41.5
Q ss_pred HhhCCCceee-e--CCc-cCC-CcccHHHHHHhhhcce-----eeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEE
Q 048656 18 LHRKNIETFV-D--EEL-TRG-DEISPAFLKAIEESKI-----SVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVF 87 (115)
Q Consensus 18 L~~~gi~~f~-d--~~l-~~G-~~i~~~i~~~I~~s~~-----~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIf 87 (115)
|.+.||+..+ | .++ .+. +.+.+++.+.+++++- .|+|+|.+--++.---.+-..+++.. .=+||+
T Consensus 36 Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~~-----lgIpvl 110 (168)
T PF09419_consen 36 LKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEKA-----LGIPVL 110 (168)
T ss_pred hhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHHh-----hCCcEE
Confidence 8999998554 4 334 344 6778888888888773 38999998765552222333333332 118877
Q ss_pred Ee
Q 048656 88 YN 89 (115)
Q Consensus 88 y~ 89 (115)
..
T Consensus 111 ~h 112 (168)
T PF09419_consen 111 RH 112 (168)
T ss_pred Ee
Confidence 43
No 32
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=46.70 E-value=69 Score=26.75 Aligned_cols=39 Identities=10% Similarity=0.206 Sum_probs=26.9
Q ss_pred CCCceeeeCC--ccC-CCcccHHH-----HHHhhhcceeeEEeecCC
Q 048656 21 KNIETFVDEE--LTR-GDEISPAF-----LKAIEESKISVKIFSKNY 59 (115)
Q Consensus 21 ~gi~~f~d~~--l~~-G~~i~~~i-----~~~I~~s~~~Ivv~S~~~ 59 (115)
+|.++.+-|+ ++. +....+.+ .+++++|++.++|+++++
T Consensus 314 ~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~ 360 (531)
T KOG1191|consen 314 NGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEE 360 (531)
T ss_pred CCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccc
Confidence 5778777665 543 43333322 467889999999999965
No 33
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=44.41 E-value=94 Score=25.54 Aligned_cols=89 Identities=19% Similarity=0.311 Sum_probs=53.4
Q ss_pred HHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhh-hcCCCEEEEEEE--
Q 048656 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCH-KKNGQVVIPVFY-- 88 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~-~~~~~~viPIfy-- 88 (115)
..|.++|.+.|+..++-. |+. .+.+.+-+++..+..|+....| +.| ..+-..++... .+.+..+.- |.
T Consensus 58 ~~L~~~L~~~gi~L~v~~----~~~-~~~l~~~~~~~~~~~v~~n~~~--~~~-~~~rD~al~~~l~~~gi~~~~-~~d~ 128 (461)
T COG0415 58 QALQQSLAELGIPLLVRE----GDP-EQVLPELAKQLAATTVFWNRDY--EEW-ERQRDAALAQPLTEVGIAVHS-FWDA 128 (461)
T ss_pred HHHHHHHHHcCCceEEEe----CCH-HHHHHHHHHHhCcceEEeeeee--chh-HHHHHHHHHHHHHhcCceEEE-eccc
Confidence 358899999999988854 443 2355566677777777777778 333 23333333322 222322222 32
Q ss_pred -ecCCcccccccchHHHHHHHH
Q 048656 89 -NVDPSDVRNQKRSFKDAFVKH 109 (115)
Q Consensus 89 -~v~p~~v~~~~g~~~~~f~~~ 109 (115)
-..|.+++.+.|...+.|...
T Consensus 129 ~l~~p~~~~t~~~~~y~vfT~F 150 (461)
T COG0415 129 LLHEPGEVRTGSGEPYKVFTPF 150 (461)
T ss_pred cccCHhhccCCCCCCccccchH
Confidence 378999998888666555433
No 34
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=44.37 E-value=23 Score=27.15 Aligned_cols=77 Identities=12% Similarity=0.058 Sum_probs=47.7
Q ss_pred cHHHHHHHHHh--hCCCceeeeCC----ccCCCcccHHHHHHh-hhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCC
Q 048656 9 NFLSHLVVALH--RKNIETFVDEE----LTRGDEISPAFLKAI-EESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQ 81 (115)
Q Consensus 9 ~Fv~~L~~aL~--~~gi~~f~d~~----l~~G~~i~~~i~~~I-~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~ 81 (115)
..|......++ ...+..|+|-. +-+| ++..-+...- ..|++.+|.+..+|....||.-|...+-+-. .-.
T Consensus 190 ~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~-sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K~~c~~E~~~~r~~~--~~d 266 (329)
T COG4916 190 NLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPG-SLVSTLDPGYDIRCVVTTVFNTGSYICKSTCHIEGLEGRLNP--ILD 266 (329)
T ss_pred hHHHHHHHhhhcccCCceeeeechhhccccCc-cHHHhcccccCceEEEEEEEeCCceEEeeeeccchhhccccc--ccc
Confidence 35666777776 33467888853 3343 2222222221 2588999999999999999998877653221 123
Q ss_pred EEEEEEE
Q 048656 82 VVIPVFY 88 (115)
Q Consensus 82 ~viPIfy 88 (115)
...||.|
T Consensus 267 ~~~rI~~ 273 (329)
T COG4916 267 TGFRIKY 273 (329)
T ss_pred ccceEEE
Confidence 5667766
No 35
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=44.00 E-value=29 Score=23.41 Aligned_cols=39 Identities=13% Similarity=0.194 Sum_probs=24.3
Q ss_pred ccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhh
Q 048656 8 DNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEE 47 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~ 47 (115)
..++..|..++..+|+-++.|.. .+|+.|...+.+.+..
T Consensus 43 ~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~ 81 (127)
T COG1658 43 LETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPG 81 (127)
T ss_pred HHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcc
Confidence 45666666666667766666653 4566666666555555
No 36
>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=43.83 E-value=68 Score=18.90 Aligned_cols=46 Identities=11% Similarity=0.134 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhh-hcceeeEEeecCC
Q 048656 10 FLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIE-ESKISVKIFSKNY 59 (115)
Q Consensus 10 Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~-~s~~~Ivv~S~~~ 59 (115)
-.-.+++.|++.|+.+-+|.. +.++...+..|-+ +.+ .++++.++-
T Consensus 16 ~a~~~~~~Lr~~g~~v~~d~~---~~~~~~~~~~a~~~g~~-~~iiig~~e 62 (91)
T cd00860 16 YAKEVAKKLSDAGIRVEVDLR---NEKLGKKIREAQLQKIP-YILVVGDKE 62 (91)
T ss_pred HHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCC-EEEEECcch
Confidence 456788999999999988764 2344444444322 233 444444443
No 37
>PF05060 MGAT2: N-acetylglucosaminyltransferase II (MGAT2); InterPro: IPR007754 N-acetylglucosaminyltransferase II (2.4.1.143 from EC) is a Golgi resident enzyme that catalyzes an essential step in the biosynthetic pathway leading from high mannose to complex N-linked oligosaccharides []. Mutations in the MGAT2 gene lead to a congenital disorder of glycosylation (CDG IIa). CDG IIa patients have an increased bleeding tendency, unrelated to coagulation factors []. Synonym(s): UDP-N-acetyl-D-glucosamine:alpha-6-D-mannoside beta-1,2-N- acetylglucosaminyltransferase II, GnT II/MGAT2.; GO: 0008455 alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity, 0009312 oligosaccharide biosynthetic process, 0005795 Golgi stack, 0016021 integral to membrane
Probab=43.43 E-value=73 Score=25.29 Aligned_cols=45 Identities=22% Similarity=0.439 Sum_probs=31.7
Q ss_pred ceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEEE----ecCCcccccccc
Q 048656 49 KISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVFY----NVDPSDVRNQKR 100 (115)
Q Consensus 49 ~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIfy----~v~p~~v~~~~g 100 (115)
.-+++|||.+|.. .|+..+++.+. --+|+.||| .+.|.+...+.+
T Consensus 60 ~~~llifSHd~~~-----~ein~~v~~I~--Fc~v~QIf~P~S~ql~p~~FPG~dP 108 (356)
T PF05060_consen 60 EEALLIFSHDFYS-----EEINDLVQSID--FCRVMQIFYPYSIQLYPNEFPGQDP 108 (356)
T ss_pred cceEEEEeccCCh-----HHHHHHHHhCC--cceeEEEecccchhhCCCCCCCCCc
Confidence 3489999999987 57777776542 347888887 366666665544
No 38
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=43.23 E-value=44 Score=24.62 Aligned_cols=65 Identities=18% Similarity=0.204 Sum_probs=47.1
Q ss_pred HHHHHHHhhCC-C-ceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCc--------CChh------HHHHHHHHHHh
Q 048656 12 SHLVVALHRKN-I-ETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYA--------SSKW------CLDELVKILKC 75 (115)
Q Consensus 12 ~~L~~aL~~~g-i-~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~--------~S~w------c~~EL~~~~~~ 75 (115)
.....+|.+.- . .+|.|.-...|..+.+.+.+-|.+++.+|++.+|+=. +-.| ...||..+|-+
T Consensus 96 rael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~praRqNVifELGm~mgr 175 (233)
T COG4271 96 RAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAFPRARQNVIFELGMFMGR 175 (233)
T ss_pred HHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhccccccccchhhHhhHHhh
Confidence 34456666543 3 4666665889999999999999999999999999843 2223 45688777765
Q ss_pred h
Q 048656 76 H 76 (115)
Q Consensus 76 ~ 76 (115)
.
T Consensus 176 L 176 (233)
T COG4271 176 L 176 (233)
T ss_pred c
Confidence 4
No 39
>PTZ00344 pyridoxal kinase; Provisional
Probab=43.09 E-value=62 Score=24.31 Aligned_cols=73 Identities=16% Similarity=0.185 Sum_probs=35.7
Q ss_pred ccccccccHHHHHHHHHhhCCC--ceeeeCC-ccCCCcccHHHHHHhhhcc----eeeEEeecCCcC--ChhHHHHHHHH
Q 048656 2 RGEDICDNFLSHLVVALHRKNI--ETFVDEE-LTRGDEISPAFLKAIEESK----ISVKIFSKNYAS--SKWCLDELVKI 72 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi--~~f~d~~-l~~G~~i~~~i~~~I~~s~----~~Ivv~S~~~~~--S~wc~~EL~~~ 72 (115)
.|.+.-...+..+.+.|.+.+. .+..--. .-+...+...+.+.+++.+ -..+|+.|.+.. +.|...++..+
T Consensus 53 ~g~~i~~~~~~~~l~~l~~~~~~~~~~~v~sG~l~~~~~~~~i~~~l~~~~~~~~~~~vv~DPv~~~~g~l~~~~~~~~~ 132 (296)
T PTZ00344 53 KGHRLDLNELITLMDGLRANNLLSDYTYVLTGYINSADILREVLATVKEIKELRPKLIFLCDPVMGDDGKLYVKEEVVDA 132 (296)
T ss_pred cCeeCCHHHHHHHHHHHHhcCCcccCCEEEECCCCCHHHHHHHHHHHHHHHHhCCCceEEECCccccCCceEeCHHHHHH
Confidence 4555566667777777776554 1111001 1222334444555554322 135677777632 22555555555
Q ss_pred HH
Q 048656 73 LK 74 (115)
Q Consensus 73 ~~ 74 (115)
++
T Consensus 133 ~~ 134 (296)
T PTZ00344 133 YR 134 (296)
T ss_pred HH
Confidence 44
No 40
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=40.81 E-value=40 Score=25.47 Aligned_cols=45 Identities=22% Similarity=0.244 Sum_probs=28.3
Q ss_pred ccccHHHHHHHHHhhCCCceeeeCCccCCC---cccHHHHHHhhhcceee
Q 048656 6 ICDNFLSHLVVALHRKNIETFVDEELTRGD---EISPAFLKAIEESKISV 52 (115)
Q Consensus 6 ~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~---~i~~~i~~~I~~s~~~I 52 (115)
|.++=..+|.+.|...|+.+..-.. .|| .|.+.+..++++++++|
T Consensus 18 ivdtNa~~la~~L~~~G~~v~~~~~--VgD~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 18 IVDTNAAFLADELTELGVDLARITT--VGDNPDRIVEALREASERADVVI 65 (255)
T ss_pred eecchHHHHHHHHHhcCceEEEEEe--cCCCHHHHHHHHHHHHhCCCEEE
Confidence 3344467899999999999877543 343 34445555566655433
No 41
>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=40.00 E-value=1.1e+02 Score=20.06 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=9.9
Q ss_pred HHHHhhhcceeeEEeecCC
Q 048656 41 FLKAIEESKISVKIFSKNY 59 (115)
Q Consensus 41 i~~~I~~s~~~Ivv~S~~~ 59 (115)
+.++|++++++++|++..-
T Consensus 5 ~~~~i~~aD~vl~ViD~~~ 23 (141)
T cd01857 5 LWRVVERSDIVVQIVDARN 23 (141)
T ss_pred HHHHHhhCCEEEEEEEccC
Confidence 3445555555555555443
No 42
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=39.97 E-value=17 Score=22.36 Aligned_cols=22 Identities=27% Similarity=0.332 Sum_probs=13.6
Q ss_pred HhhhcceeeEEeecCCcCChhHHH
Q 048656 44 AIEESKISVKIFSKNYASSKWCLD 67 (115)
Q Consensus 44 ~I~~s~~~Ivv~S~~~~~S~wc~~ 67 (115)
.|++. -|+|||+.+.+.+||..
T Consensus 4 ~i~~~--~vvvf~k~~~~~~~Cp~ 25 (90)
T cd03028 4 LIKEN--PVVLFMKGTPEEPRCGF 25 (90)
T ss_pred hhccC--CEEEEEcCCCCCCCCcH
Confidence 34444 45667887776666654
No 43
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=39.95 E-value=35 Score=23.78 Aligned_cols=27 Identities=26% Similarity=0.192 Sum_probs=22.3
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
.|+.+.|-..|.++|+++|+-|--++.
T Consensus 59 q~~~D~Fg~aL~~aLR~~GYaV~e~~~ 85 (151)
T PRK13883 59 QPTPDAFGQALVKALRDKGYALLEYNP 85 (151)
T ss_pred cCCCcHHHHHHHHHHHHcCeEEEecCC
Confidence 367788999999999999998876654
No 44
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=39.54 E-value=96 Score=19.44 Aligned_cols=66 Identities=17% Similarity=0.058 Sum_probs=44.7
Q ss_pred cccHHHHHHHHHhhCCCceeeeCCc--cCCCcccHHH---HHHhhhcceeeEEeecCCcCChhHHHHHHHHHHh
Q 048656 7 CDNFLSHLVVALHRKNIETFVDEEL--TRGDEISPAF---LKAIEESKISVKIFSKNYASSKWCLDELVKILKC 75 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~d~~l--~~G~~i~~~i---~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~ 75 (115)
+..|- ...+.|+..|..|.---.+ ..|.++..-+ ...+.+|+.+++ =|+.-.|+=|.-|+..|...
T Consensus 15 ~~~f~-~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~l 85 (92)
T PF14359_consen 15 RPAFN-AAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKKL 85 (92)
T ss_pred HHHHH-HHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHHC
Confidence 45555 4678999999665543333 5666655433 345667775444 39999999999999988654
No 45
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=39.52 E-value=26 Score=23.20 Aligned_cols=55 Identities=24% Similarity=0.214 Sum_probs=31.2
Q ss_pred HHHhh--hcceeeEEeecCCcCChhHHH--HHHHHHHhhh-cCCCEEEEEEEecCCcccccccchHH
Q 048656 42 LKAIE--ESKISVKIFSKNYASSKWCLD--ELVKILKCHK-KNGQVVIPVFYNVDPSDVRNQKRSFK 103 (115)
Q Consensus 42 ~~~I~--~s~~~Ivv~S~~~~~S~wc~~--EL~~~~~~~~-~~~~~viPIfy~v~p~~v~~~~g~~~ 103 (115)
.++|. +.+++|+-|+. .||.. .+..+++... +-... -+||.|+..++......|+
T Consensus 6 d~~i~~~~~klVVVdF~a-----~WC~pCk~mdp~l~ela~~~~~~--~~f~kVDVDev~dva~~y~ 65 (114)
T cd02986 6 DQAIKSTAEKVLVLRFGR-----DEDAVCLQLDDILSKTSHDLSKM--ASIYLVDVDKVPVYTQYFD 65 (114)
T ss_pred HHHHHhcCCCEEEEEEeC-----CCChhHHHHHHHHHHHHHHccCc--eEEEEEeccccHHHHHhcC
Confidence 34444 45677777766 57644 4555555442 22222 4688888888776544443
No 46
>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=39.14 E-value=51 Score=23.56 Aligned_cols=32 Identities=22% Similarity=0.219 Sum_probs=25.5
Q ss_pred ccHHHHHHHHHhhCCCceeeeCC--ccCCCcccH
Q 048656 8 DNFLSHLVVALHRKNIETFVDEE--LTRGDEISP 39 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~--l~~G~~i~~ 39 (115)
...+..|++.|+..|+++-+|++ ..+|..+..
T Consensus 29 ~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 29 LEAADELAERLKAAGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHH
Confidence 35788899999999999999986 377766644
No 47
>TIGR03026 NDP-sugDHase nucleotide sugar dehydrogenase. All of these enzymes contain three Pfam domains, pfam03721, pfam00984, and pfam03720 for the N-terminal, central, and C-terminal regions respectively.
Probab=39.01 E-value=56 Score=25.77 Aligned_cols=54 Identities=9% Similarity=0.154 Sum_probs=36.7
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC-ccCCC----cccHHHHHHhhhcceeeEEeec
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE-LTRGD----EISPAFLKAIEESKISVKIFSK 57 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~----~i~~~i~~~I~~s~~~Ivv~S~ 57 (115)
+|+|.+=.-.|.+.|.++|..+...|- ..... .....+.+++++++..|+.-..
T Consensus 328 ~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t~~ 386 (411)
T TIGR03026 328 DDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILTDH 386 (411)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEecCC
Confidence 488888889999999999998887664 32211 1113445678888876666543
No 48
>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=38.57 E-value=63 Score=21.67 Aligned_cols=31 Identities=29% Similarity=0.216 Sum_probs=21.8
Q ss_pred ccCCCcccHHHHHHhhhcceeeEEeecCCcC
Q 048656 31 LTRGDEISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 31 l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
...++.+.+.+.++|.+|+..|.+.+..|..
T Consensus 16 ~~~~~~~~~~i~~~I~~A~~~I~i~~~~~~~ 46 (176)
T cd00138 16 RVGGRSDLDALLEAISNAKKSIYIASFYLSP 46 (176)
T ss_pred CcCcchHHHHHHHHHHhhheEEEEEEeEecc
Confidence 3455666777778888888888777775553
No 49
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=38.17 E-value=1.3e+02 Score=20.69 Aligned_cols=69 Identities=12% Similarity=0.237 Sum_probs=38.3
Q ss_pred ccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhc--ceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEE
Q 048656 8 DNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEES--KISVKIFSKNYASSKWCLDELVKILKCHKKNGQVV 83 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s--~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~v 83 (115)
.+|+..|....+++|.++|+ +-..+...++..+.+++. .+.|+-..+.|.+ ..|...+++..+..+-.+
T Consensus 34 ~dl~~~l~~~~~~~~~~ifl---lG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~----~~~~~~i~~~I~~~~pdi 104 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRGKRIFL---LGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFD----EEEEEAIINRINASGPDI 104 (172)
T ss_pred HHHHHHHHHHHHHcCCeEEE---EeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCC----hhhHHHHHHHHHHcCCCE
Confidence 35777888888888888887 333334444444455544 4555544555542 234455555544333333
No 50
>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=38.07 E-value=1.1e+02 Score=21.40 Aligned_cols=53 Identities=9% Similarity=0.124 Sum_probs=29.8
Q ss_pred HHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcC---CCEEEEEEEecCCccccc
Q 048656 42 LKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKN---GQVVIPVFYNVDPSDVRN 97 (115)
Q Consensus 42 ~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~---~~~viPIfy~v~p~~v~~ 97 (115)
..+++.++++|+|++.+ +++-++++....+...+. ...-+||+.=....|+..
T Consensus 75 ~~~~~~ad~iilv~D~~---~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~ 130 (198)
T cd04142 75 FRGLRNSRAFILVYDIC---SPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR 130 (198)
T ss_pred HhhhccCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence 45678999999999976 344444444433322110 112246665455666643
No 51
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=38.04 E-value=34 Score=26.10 Aligned_cols=30 Identities=40% Similarity=0.626 Sum_probs=21.2
Q ss_pred hHHHHHHHHHH---hhh-cCCCEEEEEEEecCCc
Q 048656 64 WCLDELVKILK---CHK-KNGQVVIPVFYNVDPS 93 (115)
Q Consensus 64 wc~~EL~~~~~---~~~-~~~~~viPIfy~v~p~ 93 (115)
-|-+||.++.. ..+ ..+..++|||.-|+|.
T Consensus 154 ICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 154 ICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred cChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 48889887644 333 3456677999999994
No 52
>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=37.50 E-value=89 Score=18.44 Aligned_cols=47 Identities=17% Similarity=0.227 Sum_probs=29.2
Q ss_pred cHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecC
Q 048656 9 NFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKN 58 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~ 58 (115)
..+-.+...|++.|+.+-+|.. +.++...+..+-..---.++++.++
T Consensus 18 ~~a~~~~~~Lr~~g~~v~~~~~---~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 18 EYAQKLLNALLANGIRVLYDDR---ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred HHHHHHHHHHHHCCCEEEecCC---CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 4566788999999999988764 3344444444332222366666663
No 53
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=37.24 E-value=1.6e+02 Score=25.63 Aligned_cols=64 Identities=14% Similarity=0.035 Sum_probs=39.6
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHH
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILK 74 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~ 74 (115)
.+.|.+|+..+ |+..|+.| . . ..+..-.+++.++..+++.-|+++|.......--+.++...++
T Consensus 595 H~~ra~fv~~~---l~~~GfeV-~-~--~~~~~s~e~~v~aa~~~~a~ivvlcs~d~~~~e~~~~l~~~Lk 658 (714)
T PRK09426 595 HDRGAKVIATA---FADLGFDV-D-I--GPLFQTPEEAARQAVENDVHVVGVSSLAAGHKTLVPALIEALK 658 (714)
T ss_pred hhHhHHHHHHH---HHhCCeeE-e-c--CCCCCCHHHHHHHHHHcCCCEEEEeccchhhHHHHHHHHHHHH
Confidence 45666777554 78899998 3 1 2233335578888889998888888665443222344444443
No 54
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=36.72 E-value=26 Score=24.54 Aligned_cols=22 Identities=23% Similarity=0.388 Sum_probs=17.9
Q ss_pred hcceeeEEeecC--CcCChhHHHH
Q 048656 47 ESKISVKIFSKN--YASSKWCLDE 68 (115)
Q Consensus 47 ~s~~~Ivv~S~~--~~~S~wc~~E 68 (115)
-....++.+|.+ |+.++||-.|
T Consensus 74 ~~~~~Vl~IS~DLPFAq~RfC~ae 97 (158)
T COG2077 74 LGNTVVLCISMDLPFAQKRFCGAE 97 (158)
T ss_pred cCCcEEEEEeCCChhHHhhhhhhc
Confidence 345788999998 8899999765
No 55
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=36.18 E-value=2e+02 Score=22.12 Aligned_cols=93 Identities=22% Similarity=0.286 Sum_probs=52.2
Q ss_pred HHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhh---cceeeEEeecCCcCChh--HHHHHHHHHHhh-hcCCCEE
Q 048656 10 FLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEE---SKISVKIFSKNYASSKW--CLDELVKILKCH-KKNGQVV 83 (115)
Q Consensus 10 Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~---s~~~Ivv~S~~~~~S~w--c~~EL~~~~~~~-~~~~~~v 83 (115)
....|.+.|...|..+-+.-.++-|.+..++..+.+.+ .++.++-+.|.|..+.- +.+++..++... ..-..++
T Consensus 74 qa~~l~~~L~~~~~~~~V~~amry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS~~ttgs~~~~~~~~~~~~~~~~~~~~ 153 (316)
T PF00762_consen 74 QAEALQQRLDERGVDVEVYYAMRYGPPSIEDALEELKADGVDRIVVLPLYPQYSSSTTGSYLDEVERALKKSRPNPKVRF 153 (316)
T ss_dssp HHHHHHHHHHHH-EEEEEEEEESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--TTTHHHHHHHHHHHHHHTHSSSEEEE
T ss_pred HHHHHHHHHHhcCCCeeEEEEeccCCCCHHHHHHHHHHcCCCeEEEEeCCCchhHhhHHHHHHHHHHHHHhcCCCCeEEE
Confidence 45667777877763333332367777777766666663 45688889999885554 667777776653 2223455
Q ss_pred EEEEEecCCcccccccchHHHHHHHHHH
Q 048656 84 IPVFYNVDPSDVRNQKRSFKDAFVKHDK 111 (115)
Q Consensus 84 iPIfy~v~p~~v~~~~g~~~~~f~~~~~ 111 (115)
++=||+ ...|-+++.+..+
T Consensus 154 i~~~~~---------~p~yi~a~~~~i~ 172 (316)
T PF00762_consen 154 IPSFYD---------HPAYIEALAERIR 172 (316)
T ss_dssp E---TT----------HHHHHHHHHHHH
T ss_pred eCCccC---------CHHHHHHHHHHHH
Confidence 555544 4455555554433
No 56
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=35.85 E-value=53 Score=22.89 Aligned_cols=50 Identities=24% Similarity=0.273 Sum_probs=28.1
Q ss_pred cccccHHHHHHHHHhhCCCceeeeCCccC-CCcccHHHHHHhhhcceeeEEee
Q 048656 5 DICDNFLSHLVVALHRKNIETFVDEELTR-GDEISPAFLKAIEESKISVKIFS 56 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~-G~~i~~~i~~~I~~s~~~Ivv~S 56 (115)
+++++....|.+.|++.|+.+-.-..+.- -+.|.+.+.++.++++ ++|.|
T Consensus 15 ~i~d~n~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~d--lVItt 65 (170)
T cd00885 15 QIVDTNAAFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERAD--LVITT 65 (170)
T ss_pred eEEEhHHHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCC--EEEEC
Confidence 45667778899999999987643211111 1223445555555454 44444
No 57
>PF05636 HIGH_NTase1: HIGH Nucleotidyl Transferase; InterPro: IPR008513 This family consists of several bacterial proteins of unknown function.; PDB: 3GMI_A.
Probab=35.71 E-value=37 Score=27.07 Aligned_cols=54 Identities=17% Similarity=0.349 Sum_probs=19.1
Q ss_pred HhhhcceeeEEeecCCcCCh--hHHHHHHHHHHhhhcCCCEE--EEEEEecCCccccc
Q 048656 44 AIEESKISVKIFSKNYASSK--WCLDELVKILKCHKKNGQVV--IPVFYNVDPSDVRN 97 (115)
Q Consensus 44 ~I~~s~~~Ivv~S~~~~~S~--wc~~EL~~~~~~~~~~~~~v--iPIfy~v~p~~v~~ 97 (115)
.+..++.+|+|.|-||+..- =+.+.-..+-...+.|-+.| +|+.|-+.+.+.-.
T Consensus 26 ~~~~ad~ii~vMSGnFvQRGEPAi~dKw~RA~~AL~~GaDLViELP~~~a~qsA~~FA 83 (388)
T PF05636_consen 26 KITGADVIIAVMSGNFVQRGEPAIIDKWTRAEMALKNGADLVIELPVVYALQSAEYFA 83 (388)
T ss_dssp ---TSSEEEEEE--TTSBTSSB-SS-HHHHHHHHHHHT-SEEEE---G----------
T ss_pred ccCCCCEEEEEECCCcccCCCeeeCCHHHHHHHHHHcCCCEEEECCCccccccccccc
Confidence 34578999999999998631 12333333322223344544 68888877776543
No 58
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=35.60 E-value=53 Score=21.81 Aligned_cols=49 Identities=20% Similarity=0.234 Sum_probs=28.6
Q ss_pred ccccHHHHHHHHHhhCCCceeeeCCccC-CCcccHHHHHHhhhcceeeEE
Q 048656 6 ICDNFLSHLVVALHRKNIETFVDEELTR-GDEISPAFLKAIEESKISVKI 54 (115)
Q Consensus 6 ~r~~Fv~~L~~aL~~~gi~~f~d~~l~~-G~~i~~~i~~~I~~s~~~Ivv 54 (115)
++++-...|.+.|++.|+.+..-.-+.- -+.+.+.+.++++++++.|..
T Consensus 14 ~~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~Vitt 63 (144)
T PF00994_consen 14 IRDSNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITT 63 (144)
T ss_dssp SEBHHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEE
T ss_pred eEEhHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEc
Confidence 4566677888999999987654221111 133445555566667554443
No 59
>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=35.30 E-value=58 Score=23.22 Aligned_cols=44 Identities=11% Similarity=0.221 Sum_probs=32.2
Q ss_pred cccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcc
Q 048656 5 DICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESK 49 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~ 49 (115)
.....-+..|..+.+.+|+.+|.|.. .+|+.|...|.+.+.++.
T Consensus 32 ~i~~~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~k 75 (174)
T TIGR00334 32 ALKDETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYE 75 (174)
T ss_pred ccCHHHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCe
Confidence 34455566777778888999998874 678888877777776655
No 60
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=35.21 E-value=65 Score=21.09 Aligned_cols=46 Identities=22% Similarity=0.185 Sum_probs=26.0
Q ss_pred cccccHHHHHHHHHhhCCCceeeeCCccC-CCcccHHHHHHhhhcce
Q 048656 5 DICDNFLSHLVVALHRKNIETFVDEELTR-GDEISPAFLKAIEESKI 50 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~-G~~i~~~i~~~I~~s~~ 50 (115)
.+++..-..|.+.|++.|..+..-..+.- -+.+.+.+.++++++++
T Consensus 14 ~~~d~~~~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dl 60 (135)
T smart00852 14 QIYDSNGPALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADL 60 (135)
T ss_pred CcccCcHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCE
Confidence 34566667788889999987543221211 12344455555555554
No 61
>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=34.93 E-value=38 Score=26.89 Aligned_cols=49 Identities=14% Similarity=0.289 Sum_probs=30.1
Q ss_pred HHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcc-eeeEEeecCCcCChhH
Q 048656 14 LVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESK-ISVKIFSKNYASSKWC 65 (115)
Q Consensus 14 L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~-~~Ivv~S~~~~~S~wc 65 (115)
+++.|.++|+.|+..++ +... . ..+..+.+...+ ..|..|+|||.+ .|.
T Consensus 300 ~~~~l~~~~ipVlf~~d~L~~~-~-v~ea~rql~~~dk~~iaFf~pny~~-~w~ 350 (360)
T PF07429_consen 300 FWQDLKEQGIPVLFYGDELDEA-L-VREAQRQLANVDKQQIAFFAPNYLQ-GWR 350 (360)
T ss_pred HHHHHHhCCCeEEeccccCCHH-H-HHHHHHHHhhCcccceeeeCCchHH-HHH
Confidence 56788888988877643 4322 1 223333344444 377799999998 454
No 62
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=34.26 E-value=1.2e+02 Score=21.92 Aligned_cols=25 Identities=8% Similarity=0.213 Sum_probs=21.2
Q ss_pred ccccHHHHHHHHHhhCCCceeeeCC
Q 048656 6 ICDNFLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 6 ~r~~Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
+...|+..|.+++++.|+++.+|..
T Consensus 51 lq~~fl~~l~~~~k~~gi~~~leTn 75 (213)
T PRK10076 51 MQAEFATRFLQRLRLWGVSCAIETA 75 (213)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECC
Confidence 4567899999999999999999865
No 63
>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=33.78 E-value=1.4e+02 Score=19.64 Aligned_cols=46 Identities=7% Similarity=0.050 Sum_probs=29.1
Q ss_pred HHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEE
Q 048656 39 PAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVF 87 (115)
Q Consensus 39 ~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIf 87 (115)
.-+.+.+..++++|+|++.+- .|...+...+.+.......+.+-|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~---~~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQ---DLTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTS---TGGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCc---ccchHHHHHHHHHhcCCCCeEEEEE
Confidence 445677889999999997776 3444455555554444444555553
No 64
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=33.34 E-value=68 Score=21.47 Aligned_cols=50 Identities=18% Similarity=0.193 Sum_probs=27.8
Q ss_pred cccccHHHHHHHHHhhCCCceeeeCCccCC-CcccHHHHHHhhhcceeeEE
Q 048656 5 DICDNFLSHLVVALHRKNIETFVDEELTRG-DEISPAFLKAIEESKISVKI 54 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G-~~i~~~i~~~I~~s~~~Ivv 54 (115)
..+++..-.|.+.|++.|..+..-..+.-. +.+.+.+.++++++++.|..
T Consensus 23 ~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 23 QIYDSNGPLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred eEEeCcHHHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 345666667888899999876643212111 23444455555555554443
No 65
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=32.86 E-value=50 Score=26.55 Aligned_cols=49 Identities=18% Similarity=0.120 Sum_probs=30.8
Q ss_pred ccHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHh-hhcceeeEEeecCCcC
Q 048656 8 DNFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAI-EESKISVKIFSKNYAS 61 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I-~~s~~~Ivv~S~~~~~ 61 (115)
...+..|++.|++.|+.+.+|++ -+.|.. +..+- .... .++|+.++-++
T Consensus 361 ~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~k----i~~a~~~giP-~~iiVG~~e~~ 411 (439)
T PRK12325 361 DAACEKLYAALSAAGIDVLYDDTDERPGAK----FATMDLIGLP-WQIIVGPKGLA 411 (439)
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCCCHhHH----HHHHHHcCCC-EEEEECCcccc
Confidence 45678899999999999999986 333333 22221 1222 56666665544
No 66
>PF02337 Gag_p10: Retroviral GAG p10 protein; InterPro: IPR003322 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from beta-retroviruses such as Mason-Pfizer monkey virus (MPMV) (Simian Mason-Pfizer virus) and Mouse mammary tumor virus (MMTV) [, ]. This entry also identifies matrix proteins from several eukaryotic endogenous retroviruses, which arise when one or more copies of the retroviral genome becomes integrated into the host genome [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2F77_X 2F76_X.
Probab=32.14 E-value=36 Score=21.61 Aligned_cols=21 Identities=24% Similarity=0.254 Sum_probs=14.8
Q ss_pred ccHHHHHHHHHhhCCCceeee
Q 048656 8 DNFLSHLVVALHRKNIETFVD 28 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d 28 (115)
..|++.|...|+.+|+++-..
T Consensus 8 ~~fv~~Lk~lLk~rGi~v~~~ 28 (90)
T PF02337_consen 8 QPFVSILKHLLKERGIRVKKK 28 (90)
T ss_dssp HHHHHHHHHHHHCCT----HH
T ss_pred hHHHHHHHHHHHHcCeeecHH
Confidence 379999999999999987554
No 67
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=31.42 E-value=1.3e+02 Score=18.48 Aligned_cols=48 Identities=19% Similarity=0.171 Sum_probs=24.2
Q ss_pred HHHHhhCCCceeeeCC-ccCCCccc--HHHHHHhhhcceeeEEeecCCcCC
Q 048656 15 VVALHRKNIETFVDEE-LTRGDEIS--PAFLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 15 ~~aL~~~gi~~f~d~~-l~~G~~i~--~~i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
++.|+++|+.+---.. ...|+... .++.+.|++-.+-+||..++-.+.
T Consensus 23 a~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~ 73 (95)
T PF02142_consen 23 AKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSD 73 (95)
T ss_dssp HHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHH
T ss_pred HHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCcc
Confidence 3567777877332222 33332211 247788888888777777665543
No 68
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=31.21 E-value=2.6e+02 Score=21.89 Aligned_cols=90 Identities=19% Similarity=0.317 Sum_probs=56.5
Q ss_pred HHHHHHHHhhC----CCceeeeCCccCCCcccHHHHHHhhhcc---eeeEEeecCCcCChh--HHHHHHHHHHhhhc-CC
Q 048656 11 LSHLVVALHRK----NIETFVDEELTRGDEISPAFLKAIEESK---ISVKIFSKNYASSKW--CLDELVKILKCHKK-NG 80 (115)
Q Consensus 11 v~~L~~aL~~~----gi~~f~d~~l~~G~~i~~~i~~~I~~s~---~~Ivv~S~~~~~S~w--c~~EL~~~~~~~~~-~~ 80 (115)
...+.++|+.+ .+.|++- ++-|.+..++...++.... ++++.+.|.|-.|.- -.+++..++...+. -.
T Consensus 75 T~~q~~~L~~~L~~~~~~V~~a--mry~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~~al~~~~~~~~ 152 (320)
T COG0276 75 TRAQAAALEERLDLPDFKVYLA--MRYGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELARALKELRGQPK 152 (320)
T ss_pred HHHHHHHHHHHhCCCCccEEEe--ecCCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHHHHHHhcCCCCc
Confidence 34455555554 3444443 4566667777777777544 578888888876553 46688888765542 24
Q ss_pred CEEEEEEEecCCcccccccchHHHHHHHHHH
Q 048656 81 QVVIPVFYNVDPSDVRNQKRSFKDAFVKHDK 111 (115)
Q Consensus 81 ~~viPIfy~v~p~~v~~~~g~~~~~f~~~~~ 111 (115)
.+.||-||+ .+.|-+++.+..+
T Consensus 153 i~~I~~~~~---------~p~yI~a~a~~I~ 174 (320)
T COG0276 153 ISTIPDYYD---------EPLYIEALADSIR 174 (320)
T ss_pred eEEecCccC---------ChHHHHHHHHHHH
Confidence 678888887 5566666665543
No 69
>PF13840 ACT_7: ACT domain ; PDB: 3S1T_A 1ZHV_A 3AB4_K 3AB2_O 2DTJ_A 3AAW_A 2RE1_B 3MAH_A 1ZVP_D.
Probab=30.96 E-value=52 Score=18.97 Aligned_cols=21 Identities=19% Similarity=0.336 Sum_probs=16.8
Q ss_pred cccHHHHHHHHHhhCCCceee
Q 048656 7 CDNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~ 27 (115)
.-+.+..+..+|.+.||+++.
T Consensus 20 ~~Gv~a~i~~~La~~~I~i~~ 40 (65)
T PF13840_consen 20 VPGVAAKIFSALAEAGINIFM 40 (65)
T ss_dssp SHHHHHHHHHHHHHTTS-ECE
T ss_pred cccHHHHHHHHHHHCCCCEEE
Confidence 456788999999999998876
No 70
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=30.36 E-value=1.1e+02 Score=21.87 Aligned_cols=47 Identities=23% Similarity=0.476 Sum_probs=35.2
Q ss_pred HHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhh-------cceeeEEeecCCcC
Q 048656 11 LSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEE-------SKISVKIFSKNYAS 61 (115)
Q Consensus 11 v~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~-------s~~~Ivv~S~~~~~ 61 (115)
...|.++|.+.|+..+-. .|+.+.+++-+|+.. ...++-|+.+.|.-
T Consensus 124 ~~~l~~~L~k~Gv~~i~~----~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l 177 (193)
T COG0576 124 LDQLLDALEKLGVEEIGP----EGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKL 177 (193)
T ss_pred HHHHHHHHHHCCCEEeCC----CCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeee
Confidence 356788999999876542 488999998888874 34578888888764
No 71
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=30.29 E-value=2.2e+02 Score=20.72 Aligned_cols=73 Identities=10% Similarity=0.145 Sum_probs=44.0
Q ss_pred CCC-cccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEEEecCCcccccccchHHHHHHHHHH
Q 048656 33 RGD-EISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVRNQKRSFKDAFVKHDK 111 (115)
Q Consensus 33 ~G~-~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIfy~v~p~~v~~~~g~~~~~f~~~~~ 111 (115)
||. .+..+...+++.++.+|+|++..---+.+.. .+.+.....+ +|++.-++..|.... .|.+.+.+..+
T Consensus 72 PG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~----~~~~~~~~~~---~P~iivvNK~D~~~a--~~~~~~~~i~~ 142 (237)
T cd04168 72 PGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTR----ILWRLLRKLN---IPTIIFVNKIDRAGA--DLEKVYQEIKE 142 (237)
T ss_pred CCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHH----HHHHHHHHcC---CCEEEEEECccccCC--CHHHHHHHHHH
Confidence 663 4455677899999999999987754444322 2222222122 233333556665532 57888888887
Q ss_pred HhC
Q 048656 112 QFN 114 (115)
Q Consensus 112 ~~~ 114 (115)
+++
T Consensus 143 ~~~ 145 (237)
T cd04168 143 KLS 145 (237)
T ss_pred HHC
Confidence 765
No 72
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=30.27 E-value=1.3e+02 Score=18.18 Aligned_cols=20 Identities=25% Similarity=0.262 Sum_probs=13.2
Q ss_pred HHHHHHhhhcceeeEEeecC
Q 048656 39 PAFLKAIEESKISVKIFSKN 58 (115)
Q Consensus 39 ~~i~~~I~~s~~~Ivv~S~~ 58 (115)
+++.+.|++-++-+||..++
T Consensus 45 ~~i~~~i~~g~id~VIn~~~ 64 (90)
T smart00851 45 LAILDLIKNGEIDLVINTLY 64 (90)
T ss_pred HHHHHHhcCCCeEEEEECCC
Confidence 45677777777766666554
No 73
>PRK07283 hypothetical protein; Provisional
Probab=30.13 E-value=1e+02 Score=19.47 Aligned_cols=20 Identities=5% Similarity=0.223 Sum_probs=8.0
Q ss_pred HHHHHhhhcceeeEEeecCC
Q 048656 40 AFLKAIEESKISVKIFSKNY 59 (115)
Q Consensus 40 ~i~~~I~~s~~~Ivv~S~~~ 59 (115)
++..++-..+.+|.|..+.|
T Consensus 71 eLG~a~Gk~~~vvai~d~g~ 90 (98)
T PRK07283 71 ELSAAVGKPRKVLAVTDAGF 90 (98)
T ss_pred HHHHHhCCCceEEEEeChhH
Confidence 33444444333444443333
No 74
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=29.72 E-value=41 Score=18.93 Aligned_cols=14 Identities=14% Similarity=0.389 Sum_probs=10.9
Q ss_pred hhhcceeeEEeecC
Q 048656 45 IEESKISVKIFSKN 58 (115)
Q Consensus 45 I~~s~~~Ivv~S~~ 58 (115)
+=+++++++|+||+
T Consensus 30 LC~~~v~~iv~~~~ 43 (51)
T PF00319_consen 30 LCGVDVALIVFSPD 43 (51)
T ss_dssp HHT-EEEEEEEETT
T ss_pred ecCCeEEEEEECCC
Confidence 44788999999987
No 75
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=29.52 E-value=1.5e+02 Score=18.61 Aligned_cols=24 Identities=4% Similarity=-0.016 Sum_probs=18.2
Q ss_pred HHHHHHhhhcceeeEEeecCCcCC
Q 048656 39 PAFLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 39 ~~i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
......+++++.+|++++..-..+
T Consensus 64 ~~~~~~~~~~d~ii~v~d~~~~~~ 87 (159)
T cd00154 64 SITPSYYRGAHGAILVYDITNRES 87 (159)
T ss_pred HHHHHHhcCCCEEEEEEECCCHHH
Confidence 345567889999999999876443
No 76
>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=29.20 E-value=1.8e+02 Score=19.51 Aligned_cols=92 Identities=21% Similarity=0.238 Sum_probs=47.2
Q ss_pred HHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEE--Ee
Q 048656 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVF--YN 89 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIf--y~ 89 (115)
..|..+|++.|+...+- .|+. .+.+.+-+++..+..|++..+|.... ...-..+.+...+.+..+.-+- +=
T Consensus 56 ~~L~~~L~~~g~~L~v~----~g~~-~~~l~~l~~~~~~~~V~~~~~~~~~~--~~rd~~v~~~l~~~~i~~~~~~~~~L 128 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLVL----RGDP-EEVLPELAKEYGATAVYFNEEYTPYE--RRRDERVRKALKKHGIKVHTFDDHTL 128 (165)
T ss_dssp HHHHHHHHHTTS-EEEE----ESSH-HHHHHHHHHHHTESEEEEE---SHHH--HHHHHHHHHHHHHTTSEEEEE--SSS
T ss_pred HHHHHHHHhcCcceEEE----ecch-HHHHHHHHHhcCcCeeEeccccCHHH--HHHHHHHHHHHHhcceEEEEECCcEE
Confidence 45888899999986662 2442 34555566778888999998887632 1211122222222233332221 12
Q ss_pred cCCcccccccchHHHHHHHHH
Q 048656 90 VDPSDVRNQKRSFKDAFVKHD 110 (115)
Q Consensus 90 v~p~~v~~~~g~~~~~f~~~~ 110 (115)
+.|.++....|...+.|....
T Consensus 129 ~~~~~i~~~~~~~~~vFtpf~ 149 (165)
T PF00875_consen 129 VPPDDIPKKDGEPYKVFTPFR 149 (165)
T ss_dssp S-HHHCHSTTSSSHSSHHHHH
T ss_pred EeccccccCCCCCcccHHHHH
Confidence 678888777666555554433
No 77
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=28.67 E-value=1.8e+02 Score=19.78 Aligned_cols=19 Identities=21% Similarity=0.312 Sum_probs=8.5
Q ss_pred cHHHHHHHHHhhCCCceee
Q 048656 9 NFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~ 27 (115)
.++..|.+.+++.|+++++
T Consensus 75 ~~l~~ll~~lk~~Gl~i~l 93 (147)
T TIGR02826 75 EALLSLLKIFKEKGLKTCL 93 (147)
T ss_pred HHHHHHHHHHHHCCCCEEE
Confidence 3344444444444444444
No 78
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=28.44 E-value=1.2e+02 Score=20.19 Aligned_cols=56 Identities=18% Similarity=0.186 Sum_probs=31.5
Q ss_pred HHHHHHHHHh--hCCCceeeeCCccCCCcccHHHHHHhhhcc----eeeEEeecCCcCChhHHH
Q 048656 10 FLSHLVVALH--RKNIETFVDEELTRGDEISPAFLKAIEESK----ISVKIFSKNYASSKWCLD 67 (115)
Q Consensus 10 Fv~~L~~aL~--~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~----~~Ivv~S~~~~~S~wc~~ 67 (115)
.+..+.+.|. ...+.+-+=.+..+++.+.+.+.++|++.. ..|+|+.+.|+.. |++
T Consensus 46 ~~~~v~~~l~~~~~~~~~~fqS~~g~~~Wl~P~~~~~l~~l~~~G~~~i~v~p~gF~~D--~~E 107 (135)
T cd00419 46 TARLVAERLGLPFDEYELAYQSRFGPGEWLEPSTDDALEELAKEGVKNVVVVPIGFVSD--HLE 107 (135)
T ss_pred HHHHHHHHhCCCCCCEEEEecCCCCCCCCCCCCHHHHHHHHHHcCCCeEEEECCccccc--cHH
Confidence 4445555554 333443332324455555666666665432 4699999999975 544
No 79
>PF07283 TrbH: Conjugal transfer protein TrbH; InterPro: IPR010837 This entry represents TrbH, a bacterial conjugal transfer protein approximately 150 residues long. TrbH contains a putative membrane lipoprotein lipid attachment site [].
Probab=28.34 E-value=71 Score=21.34 Aligned_cols=26 Identities=27% Similarity=0.189 Sum_probs=22.0
Q ss_pred cccccHHHHHHHHHhhCCCceeeeCC
Q 048656 5 DICDNFLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
.+.+.|-..|.++|+++|.-|--++.
T Consensus 32 ~~~d~Fg~aL~~~LR~~GYaV~e~~~ 57 (121)
T PF07283_consen 32 KDPDPFGQALENALRAKGYAVIEDDP 57 (121)
T ss_pred CCCChHHHHHHHHHHhcCcEEEecCC
Confidence 35678999999999999999887764
No 80
>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=28.23 E-value=38 Score=28.33 Aligned_cols=46 Identities=13% Similarity=0.267 Sum_probs=32.8
Q ss_pred ccHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcce----eeEEeecCCcC
Q 048656 8 DNFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESKI----SVKIFSKNYAS 61 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~----~Ivv~S~~~~~ 61 (115)
...+..|++.|+..|+.+.+|++ ..+|..+ .+++. ..+++.++.++
T Consensus 489 ~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~--------~dadliGiP~~i~vG~~~l~ 539 (568)
T TIGR00409 489 QQLAEELYSELLAQGVDVLLDDRNERAGVKF--------ADSELIGIPLRVVVGKKNLD 539 (568)
T ss_pred HHHHHHHHHHHHhCCCEEEEECCCCCHHHHH--------HhhhhcCCCEEEEECCCccc
Confidence 35788999999999999999997 5555544 33433 45667766554
No 81
>cd07371 2A5CPDO_AB The alpha and beta subunits 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. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO 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. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=27.42 E-value=2.6e+02 Score=20.78 Aligned_cols=78 Identities=12% Similarity=0.054 Sum_probs=49.1
Q ss_pred cccHHHHHHHHHhhCCCceee--eCC--ccCCCcccHHHHHHhhhcceeeEEeecCC-cCChhHHHHHHHHHH-hhhcCC
Q 048656 7 CDNFLSHLVVALHRKNIETFV--DEE--LTRGDEISPAFLKAIEESKISVKIFSKNY-ASSKWCLDELVKILK-CHKKNG 80 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~--d~~--l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~-~~S~wc~~EL~~~~~-~~~~~~ 80 (115)
...++..+.+.|.+.|+.+-. +.. +--|..+.-... -.+.++-+|.+|-+. ..|..-..+|-+++. ..++.+
T Consensus 86 ~~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l--~p~~~ipvV~vs~~~~~~~~~~~~~lG~al~~~l~~~~ 163 (268)
T cd07371 86 DVELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLM--RPGTDIPPVVISANNLYLSGEETEGEMDLAGKATRDAG 163 (268)
T ss_pred CHHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHh--cCCCCCCeEEEEecCcCCCHHHHHHHHHHHHHHHHHcC
Confidence 456788999999999998775 222 456654432222 234677677777444 356666678888885 334444
Q ss_pred CEEEEE
Q 048656 81 QVVIPV 86 (115)
Q Consensus 81 ~~viPI 86 (115)
.+|+-|
T Consensus 164 ~rv~iI 169 (268)
T cd07371 164 KRVAVL 169 (268)
T ss_pred CcEEEE
Confidence 566545
No 82
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=27.17 E-value=1.2e+02 Score=19.91 Aligned_cols=45 Identities=22% Similarity=0.218 Sum_probs=24.8
Q ss_pred ccccHHHHHHHHHhhCCCceeeeCCccCC-CcccHHHHHHhhhcce
Q 048656 6 ICDNFLSHLVVALHRKNIETFVDEELTRG-DEISPAFLKAIEESKI 50 (115)
Q Consensus 6 ~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G-~~i~~~i~~~I~~s~~ 50 (115)
++++-..-|.+.|++.|..+-.-..+.-. +.+.+.+.++++++++
T Consensus 16 i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dl 61 (133)
T cd00758 16 IEDTNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADL 61 (133)
T ss_pred eEEchHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCE
Confidence 44555666777799999876432212211 2344555556666553
No 83
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=26.96 E-value=96 Score=23.38 Aligned_cols=51 Identities=24% Similarity=0.172 Sum_probs=32.4
Q ss_pred HHHHHHhhCCCcee--eeCCccCCCcccHHHHHHhhhcce--eeEEeecCCcCCh
Q 048656 13 HLVVALHRKNIETF--VDEELTRGDEISPAFLKAIEESKI--SVKIFSKNYASSK 63 (115)
Q Consensus 13 ~L~~aL~~~gi~~f--~d~~l~~G~~i~~~i~~~I~~s~~--~Ivv~S~~~~~S~ 63 (115)
-|-+.|..+||++= .-.+=+.=..+..++..+++++.. .|++|||.-+.|.
T Consensus 147 il~kkL~~~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~~ 201 (260)
T KOG4132|consen 147 ILPKKLHDKGIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKSS 201 (260)
T ss_pred HHHHHHHhCCceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHHH
Confidence 46788999998632 111101112234577788888754 8999999988753
No 84
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=26.76 E-value=1.7e+02 Score=22.85 Aligned_cols=53 Identities=21% Similarity=0.214 Sum_probs=39.9
Q ss_pred cccccHHHHHHHHHhhCCC--ceeeeCC-ccCC-CcccHHHHHHhhhcceeeEEeec
Q 048656 5 DICDNFLSHLVVALHRKNI--ETFVDEE-LTRG-DEISPAFLKAIEESKISVKIFSK 57 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi--~~f~d~~-l~~G-~~i~~~i~~~I~~s~~~Ivv~S~ 57 (115)
-+.+.|-+.|..+|.+..- .+|+.++ =+.| -.+.+.+.++++++.++++-.|.
T Consensus 190 psQ~~Fe~~l~~~l~~~~~~~~i~vE~Es~~IG~~~lP~~l~~~m~~~~~v~i~~~~ 246 (345)
T PRK11784 190 PSQKDFENLLAEALLKLDPARPIVVEDESRRIGRVHLPEALYEAMQQAPIVVVEAPL 246 (345)
T ss_pred cchHHHHHHHHHHHHcCCCCCeEEEEeccccccCccCCHHHHHHHhhCCEEEEECCH
Confidence 4678899999999988654 6777666 4455 46677889999999887666553
No 85
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=26.46 E-value=84 Score=20.77 Aligned_cols=26 Identities=19% Similarity=0.422 Sum_probs=18.9
Q ss_pred cccHHHHHHhhhcceeeEEeecCCcC
Q 048656 36 EISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 36 ~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
.+.+.+.+.+.+.+++|++++.++++
T Consensus 47 ei~~~~~~~l~~~digIIlIte~~a~ 72 (115)
T TIGR01101 47 EIEDCFNRFLKRDDIAIILINQHIAE 72 (115)
T ss_pred HHHHHHHHHhhcCCeEEEEEcHHHHH
Confidence 44445555577789999999988765
No 86
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=26.44 E-value=1.5e+02 Score=21.33 Aligned_cols=56 Identities=13% Similarity=0.027 Sum_probs=30.5
Q ss_pred ccccccccHHHHHHHHHhhCCCceee--eCCccCCCcccHHHHHHhhhcce-eeEEeecCCcC
Q 048656 2 RGEDICDNFLSHLVVALHRKNIETFV--DEELTRGDEISPAFLKAIEESKI-SVKIFSKNYAS 61 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi~~f~--d~~l~~G~~i~~~i~~~I~~s~~-~Ivv~S~~~~~ 61 (115)
||+..|. .|.+.|++.|+.+-. ..+-.+-......+...+++.++ .|+++|+.-+.
T Consensus 125 rg~~~r~----~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~S~~~~~ 183 (240)
T PRK09189 125 AGRPRAP----VFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLYSRVAAR 183 (240)
T ss_pred ccCcccc----hhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEeCHHHHH
Confidence 5555554 566888999976432 11111112223455666776665 56666766443
No 87
>PF06152 Phage_min_cap2: Phage minor capsid protein 2; InterPro: IPR009319 This entry is represented by Bacteriophage A118, Gp4, the minor capsid protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=26.42 E-value=1.9e+02 Score=22.83 Aligned_cols=60 Identities=22% Similarity=0.237 Sum_probs=40.8
Q ss_pred cccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHH------------------HHHhhhcceeeEEeecCCcCChh
Q 048656 3 GEDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAF------------------LKAIEESKISVKIFSKNYASSKW 64 (115)
Q Consensus 3 ~~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i------------------~~~I~~s~~~Ivv~S~~~~~S~w 64 (115)
|.-|+..=+......|.++||..+.|.. |..|..+- ....++..+-++.+|.+.-..+.
T Consensus 162 G~~t~~~Ai~~av~~~~~~Gi~~i~d~~---Gr~w~le~y~rm~vrT~~~q~~~~~~~~~~~e~G~dlv~vS~H~garp~ 238 (361)
T PF06152_consen 162 GAFTYQQAIRDAVKKLADSGIRGIVDKS---GRRWRLESYARMAVRTTVNQAANEGRLNRMEELGIDLVEVSSHPGARPS 238 (361)
T ss_pred cCCCHHHHHHHHHHHHHHcCCeEEECCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCCCCCCC
Confidence 4445666678888999999999988763 54443211 12233456678999999777777
Q ss_pred H
Q 048656 65 C 65 (115)
Q Consensus 65 c 65 (115)
|
T Consensus 239 c 239 (361)
T PF06152_consen 239 C 239 (361)
T ss_pred C
Confidence 7
No 88
>PRK11064 wecC UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional
Probab=26.21 E-value=1.1e+02 Score=24.35 Aligned_cols=60 Identities=13% Similarity=0.189 Sum_probs=38.3
Q ss_pred ccccccHHHHHHHHHhhCC-CceeeeCC-ccC------CCcccHHHHHHhhhcceeeEEeecC-CcCCh
Q 048656 4 EDICDNFLSHLVVALHRKN-IETFVDEE-LTR------GDEISPAFLKAIEESKISVKIFSKN-YASSK 63 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~g-i~~f~d~~-l~~------G~~i~~~i~~~I~~s~~~Ivv~S~~-~~~S~ 63 (115)
.|+|.+=.-.|.+.|.++| ..+-..|- +.. +.....++.+++++++..|+..... |-+-.
T Consensus 335 ~d~r~Sp~~~l~~~L~~~gg~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~ad~vvi~t~~~~~~~~~ 403 (415)
T PRK11064 335 DDLRESPAMEIAELIAQWHSGETLVVEPNIHQLPKKLDGLVTLVSLDEALATADVLVMLVDHSQFKAIN 403 (415)
T ss_pred cchhhChHHHHHHHHHhcCCcEEEEECCCCCchhhhccCceeeCCHHHHHhCCCEEEECCCCHHhccCC
Confidence 5889999999999999996 77666443 321 1111234557788888776665544 44333
No 89
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.79 E-value=1.1e+02 Score=16.81 Aligned_cols=21 Identities=10% Similarity=0.094 Sum_probs=17.1
Q ss_pred cccHHHHHHHHHhhCCCceee
Q 048656 7 CDNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~ 27 (115)
+..+...+.++|.+.|+++..
T Consensus 14 ~~~~~~~if~~L~~~~I~v~~ 34 (66)
T cd04919 14 MIGIAGRMFTTLADHRINIEM 34 (66)
T ss_pred CcCHHHHHHHHHHHCCCCEEE
Confidence 457888899999999988764
No 90
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=25.76 E-value=74 Score=22.50 Aligned_cols=73 Identities=19% Similarity=0.262 Sum_probs=46.1
Q ss_pred HHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHH-HHHHHHHHhhhcCCCEEEEEE
Q 048656 10 FLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCL-DELVKILKCHKKNGQVVIPVF 87 (115)
Q Consensus 10 Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~-~EL~~~~~~~~~~~~~viPIf 87 (115)
...-+..+|.++||.|-.-++ .-.+.|...+....-.-+++|.+|..-.|-. +-+...-+.....+...+|.-
T Consensus 10 varaiA~~LC~rgv~V~m~~~-----~~y~~lk~~~~~~~~~~Lv~~~~~~~K~WlVGd~l~~~EQ~~Ap~Gt~Fipfs 83 (164)
T PF12076_consen 10 VARAIALALCRRGVQVVMLSK-----ERYESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPFS 83 (164)
T ss_pred HHHHHHHHHHhcCCEEEEecH-----HHHHHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeecc
Confidence 456688899999999877432 1234455555555566778889999888854 333332223345667777763
No 91
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=25.74 E-value=1.9e+02 Score=18.61 Aligned_cols=54 Identities=11% Similarity=0.092 Sum_probs=27.6
Q ss_pred HHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEEEecCCccccccc
Q 048656 42 LKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVRNQK 99 (115)
Q Consensus 42 ~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIfy~v~p~~v~~~~ 99 (115)
...++.++.+|+|++..-.. ...++...++...... .=+|++.=....|...+.
T Consensus 69 ~~~~~~~~~~v~v~d~~~~~---s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~ 122 (162)
T cd04106 69 KAYYRGAQACILVFSTTDRE---SFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQA 122 (162)
T ss_pred HHHhcCCCEEEEEEECCCHH---HHHHHHHHHHHHHHhC-CCCCEEEEEEChhccccc
Confidence 44677899999999865433 3344443333221111 113444434555654443
No 92
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=25.71 E-value=3.2e+02 Score=21.17 Aligned_cols=25 Identities=20% Similarity=0.412 Sum_probs=18.8
Q ss_pred ccHHHHHHhhhcceeeEEeecCCcC
Q 048656 37 ISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 37 i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
+.....+.|++|++.|+|++-.-..
T Consensus 226 Lg~~flrhie~a~vlI~ViD~s~~~ 250 (335)
T PRK12299 226 LGHRFLKHIERTRLLLHLVDIEAVD 250 (335)
T ss_pred HHHHHHHHhhhcCEEEEEEcCCCCC
Confidence 4455667789999999999976444
No 93
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. 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 dissociation inhi
Probab=25.63 E-value=2e+02 Score=18.87 Aligned_cols=22 Identities=5% Similarity=-0.091 Sum_probs=16.0
Q ss_pred HHHHhhhcceeeEEeecCCcCC
Q 048656 41 FLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 41 i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
....+++++.+|++++.+-..|
T Consensus 69 ~~~~~~~ad~~i~v~d~~~~~s 90 (167)
T cd01867 69 TTAYYRGAMGIILVYDITDEKS 90 (167)
T ss_pred HHHHhCCCCEEEEEEECcCHHH
Confidence 3456788999999999754443
No 94
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=25.58 E-value=1.1e+02 Score=23.28 Aligned_cols=45 Identities=13% Similarity=0.127 Sum_probs=33.0
Q ss_pred HHHHHHhhCCCceee---eCC--ccCCCcccHHHHHHhhhcceeeEEeec
Q 048656 13 HLVVALHRKNIETFV---DEE--LTRGDEISPAFLKAIEESKISVKIFSK 57 (115)
Q Consensus 13 ~L~~aL~~~gi~~f~---d~~--l~~G~~i~~~i~~~I~~s~~~Ivv~S~ 57 (115)
++.+.|.+.|..|++ ++. -..|-.+.+...+++.++++.|.++.+
T Consensus 16 ~~~~~l~~~G~~v~~~g~~~~~~~~~g~~~~~~~~~~~~~ad~ii~~~p~ 65 (296)
T PRK08306 16 ELIRKLVELGAKVSLVGFDQLDHGFTGATKSSSLEEALSDVDVIILPVPG 65 (296)
T ss_pred HHHHHHHHCCCEEEEEeccccccccCCceeeccHHHHhccCCEEEECCcc
Confidence 578899999998875 222 356766655556678999999988654
No 95
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=25.50 E-value=2e+02 Score=18.76 Aligned_cols=23 Identities=22% Similarity=0.122 Sum_probs=17.8
Q ss_pred HHHHHhhhcceeeEEeecCCcCC
Q 048656 40 AFLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 40 ~i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
.....+..++.+|++++.+-..|
T Consensus 64 ~~~~~~~~~d~~i~v~d~~~~~s 86 (165)
T cd04146 64 QLERSIRWADGFVLVYSITDRSS 86 (165)
T ss_pred hHHHHHHhCCEEEEEEECCCHHH
Confidence 45567889999999999875554
No 96
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=25.40 E-value=1.8e+02 Score=18.74 Aligned_cols=21 Identities=24% Similarity=0.267 Sum_probs=16.8
Q ss_pred HHHHHHhhhcceeeEEeecCC
Q 048656 39 PAFLKAIEESKISVKIFSKNY 59 (115)
Q Consensus 39 ~~i~~~I~~s~~~Ivv~S~~~ 59 (115)
++|.+.|.+-.+.+||..++=
T Consensus 60 ~~i~~~i~~g~i~~VInt~~~ 80 (115)
T cd01422 60 QQIGALIAEGEIDAVIFFRDP 80 (115)
T ss_pred hHHHHHHHcCceeEEEEcCCC
Confidence 678888888888888888773
No 97
>PLN02455 fructose-bisphosphate aldolase
Probab=25.39 E-value=3.5e+02 Score=21.56 Aligned_cols=78 Identities=14% Similarity=0.193 Sum_probs=48.2
Q ss_pred HHHhhCCCceee--eCC---cc--CCCcccHHHHH---Hhhh-----cc----eeeEEeecCCcCChhHHHHHHHHHHhh
Q 048656 16 VALHRKNIETFV--DEE---LT--RGDEISPAFLK---AIEE-----SK----ISVKIFSKNYASSKWCLDELVKILKCH 76 (115)
Q Consensus 16 ~aL~~~gi~~f~--d~~---l~--~G~~i~~~i~~---~I~~-----s~----~~Ivv~S~~~~~S~wc~~EL~~~~~~~ 76 (115)
+-|+++||.+++ |.- +. .|+.+.+-+.. ...+ ++ .+|+-++++ ..|.-|..|=..++.+.
T Consensus 91 ~~L~~~GIvPGIKVDkGl~~l~g~~ge~~t~GLDgL~~R~~~y~~~GarFAKWRsVikI~~~-~PS~~ai~~na~~LArY 169 (358)
T PLN02455 91 DVLKENGVLPGIKVDKGTVELAGTNGETTTQGLDGLGARCAKYYEAGARFAKWRAVLKIGPT-EPSELAIQENAQGLARY 169 (358)
T ss_pred HHHHHCCCeeeEEecCCccccCCCCCCccCcchHHHHHHHHHHHhcCCceeeceeeeecCCC-CCCHHHHHHHHHHHHHH
Confidence 445899998776 432 22 45666543332 2221 23 278888988 88999999887776643
Q ss_pred hcC--CCEEEEEEEecCCccccc
Q 048656 77 KKN--GQVVIPVFYNVDPSDVRN 97 (115)
Q Consensus 77 ~~~--~~~viPIfy~v~p~~v~~ 97 (115)
..- ..-++|| |.|.-+.+
T Consensus 170 A~icQ~~GlVPI---VEPEvL~d 189 (358)
T PLN02455 170 AIICQENGLVPI---VEPEILVD 189 (358)
T ss_pred HHHHHHcCCCce---ecccccCC
Confidence 111 2478899 67766553
No 98
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=25.28 E-value=76 Score=25.84 Aligned_cols=31 Identities=19% Similarity=0.274 Sum_probs=24.0
Q ss_pred ccHHHHHHHHHhhCCCceeeeC-C-ccCCCccc
Q 048656 8 DNFLSHLVVALHRKNIETFVDE-E-LTRGDEIS 38 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~-~-l~~G~~i~ 38 (115)
...+..|++.|++.|+++-+|+ . ..+|..+.
T Consensus 306 ~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~ 338 (477)
T PRK08661 306 LEYAKELAEELKKAGIRVKLDDRSDKTPGWKFN 338 (477)
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHH
Confidence 4567889999999999999998 4 55555443
No 99
>PLN02449 ferrochelatase
Probab=25.22 E-value=4e+02 Score=22.13 Aligned_cols=92 Identities=21% Similarity=0.250 Sum_probs=51.7
Q ss_pred HHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhh---cceeeEEeecCCcCC--hhHHHHHHHHHHhhh---cCCCE
Q 048656 11 LSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEE---SKISVKIFSKNYASS--KWCLDELVKILKCHK---KNGQV 82 (115)
Q Consensus 11 v~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~---s~~~Ivv~S~~~~~S--~wc~~EL~~~~~~~~---~~~~~ 82 (115)
...|.++|.+.|..+=+.--++-|.+..++..+.+.+ .+++++-+.|-|-.+ .-+.+.+..+..... .-..+
T Consensus 166 a~~Lq~~L~~~~~~~~V~~aMRY~~P~iedal~~l~~~G~~~iVvLPLYPQyS~sTtgSs~~~l~~~~~~~~~~~~~~~~ 245 (485)
T PLN02449 166 AEALAKALEAKNLPAKVYVGMRYWHPFTEEAIDQIKADGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVNMQHT 245 (485)
T ss_pred HHHHHHHHhccCCCeEEEEhhhcCCCCHHHHHHHHHhcCCCeEEEEECCcccccccHHHHHHHHHHHHhhcccccCCeeE
Confidence 4567778877764322222256666666666666664 345777777776543 345666666554321 11345
Q ss_pred EEEEEEecCCcccccccchHHHHHHHHHH
Q 048656 83 VIPVFYNVDPSDVRNQKRSFKDAFVKHDK 111 (115)
Q Consensus 83 viPIfy~v~p~~v~~~~g~~~~~f~~~~~ 111 (115)
+||=||+ .+.|-+++.++.+
T Consensus 246 ~I~~~~~---------~p~yI~A~a~~I~ 265 (485)
T PLN02449 246 VIPSWYQ---------REGYVKAMADLIK 265 (485)
T ss_pred EeccccC---------ChHHHHHHHHHHH
Confidence 6666665 4556666555443
No 100
>KOG4764 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.20 E-value=60 Score=19.60 Aligned_cols=22 Identities=27% Similarity=0.510 Sum_probs=18.2
Q ss_pred cccccccHHHHHHHHHhhCCCc
Q 048656 3 GEDICDNFLSHLVVALHRKNIE 24 (115)
Q Consensus 3 ~~d~r~~Fv~~L~~aL~~~gi~ 24 (115)
+.++-..|...|.+.|+++|..
T Consensus 47 Dd~veDDFS~QLkaELek~g~k 68 (70)
T KOG4764|consen 47 DDDVEDDFSNQLKAELEKKGHK 68 (70)
T ss_pred ccchhhHHHHHHHHHHHhcccc
Confidence 3566788999999999999864
No 101
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=25.16 E-value=1.9e+02 Score=18.27 Aligned_cols=58 Identities=17% Similarity=0.122 Sum_probs=35.1
Q ss_pred HHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHH
Q 048656 13 HLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILK 74 (115)
Q Consensus 13 ~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~ 74 (115)
-+...|+..|+.+.. +... .-.+++.+++.+.+.-++.+|-....+.--..++...++
T Consensus 18 ~~~~~l~~~G~~V~~---lg~~-~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~ 75 (119)
T cd02067 18 IVARALRDAGFEVID---LGVD-VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELK 75 (119)
T ss_pred HHHHHHHHCCCEEEE---CCCC-CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHH
Confidence 355678999999855 2212 123477888888888888888764433322234444333
No 102
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=24.96 E-value=1.4e+02 Score=20.66 Aligned_cols=48 Identities=25% Similarity=0.173 Sum_probs=27.0
Q ss_pred HHHHHHhhCCCceeeeCC--ccCCCcccHHHHHHhhhcce-eeEEeecCCcC
Q 048656 13 HLVVALHRKNIETFVDEE--LTRGDEISPAFLKAIEESKI-SVKIFSKNYAS 61 (115)
Q Consensus 13 ~L~~aL~~~gi~~f~d~~--l~~G~~i~~~i~~~I~~s~~-~Ivv~S~~~~~ 61 (115)
.|.+.|+..|..+..-.. ..+-... +.....+++... .|++.|++-+.
T Consensus 136 ~l~~~L~~~g~~v~~~~~Y~~~~~~~~-~~~~~~l~~~~~~~iiftS~~~v~ 186 (239)
T cd06578 136 DLAEALRERGAEVDEVEVYRTVPPDLD-AELLELLEEGAIDAVLFTSPSTVR 186 (239)
T ss_pred HHHHHHHHCCCEEEEEEEEEEECCCCc-HHHHHHHHcCCCcEEEEeCHHHHH
Confidence 566778888876543322 2221111 344566666655 67777777654
No 103
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=24.74 E-value=1.1e+02 Score=23.41 Aligned_cols=42 Identities=24% Similarity=0.387 Sum_probs=29.8
Q ss_pred cccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhc
Q 048656 36 EISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKK 78 (115)
Q Consensus 36 ~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~ 78 (115)
-+.++-+..|++.|.--+=. .+|++-.-|.+||..|-+-++.
T Consensus 197 tIdp~rL~~IR~~Rl~~lg~-s~Ya~~~~i~~El~~A~~l~~k 238 (269)
T PRK05339 197 TIDPERLIEIRKERLPNLGL-SRYASLEQCREELAEAERLFRR 238 (269)
T ss_pred eCCHHHHHHHHHHHhcccCc-CcCCCHHHHHHHHHHHHHHHHH
Confidence 34566677777777633222 6799999999999998776543
No 104
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=24.68 E-value=2.1e+02 Score=18.61 Aligned_cols=53 Identities=11% Similarity=0.147 Sum_probs=28.7
Q ss_pred HHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEEEEecCCccccc
Q 048656 42 LKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVRN 97 (115)
Q Consensus 42 ~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPIfy~v~p~~v~~ 97 (115)
...++.++.+|++++-.-.. ...++...++........-+||+.=....|+..
T Consensus 70 ~~~~~~~~~~i~v~d~~~~~---s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~ 122 (165)
T cd01868 70 SAYYRGAVGALLVYDITKKQ---TFENVERWLKELRDHADSNIVIMLVGNKSDLRH 122 (165)
T ss_pred HHHHCCCCEEEEEEECcCHH---HHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence 34567888899999976333 344554444433211111246655455666543
No 105
>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=24.64 E-value=1.7e+02 Score=18.62 Aligned_cols=20 Identities=35% Similarity=0.408 Sum_probs=16.4
Q ss_pred HHHHHHhhh-cceeeEEeecC
Q 048656 39 PAFLKAIEE-SKISVKIFSKN 58 (115)
Q Consensus 39 ~~i~~~I~~-s~~~Ivv~S~~ 58 (115)
+++.+.|.+ -++-+||..|+
T Consensus 57 ~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 57 PTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred cHHHHHHhCCCCEEEEEEcCC
Confidence 678888988 89888888775
No 106
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=24.29 E-value=1.3e+02 Score=20.52 Aligned_cols=33 Identities=9% Similarity=0.190 Sum_probs=16.0
Q ss_pred HHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhh
Q 048656 41 FLKAIEESKISVKIFSKNYASSKWCLDELVKILKCH 76 (115)
Q Consensus 41 i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~ 76 (115)
..+.+++..+.|.++.=.. ..-..+|..+..|.
T Consensus 129 ~a~~l~~~gv~v~~igiG~---~~d~~~l~~ia~~~ 161 (186)
T cd01471 129 EARKLRERGVIIAVLGVGQ---GVNHEENRSLVGCD 161 (186)
T ss_pred HHHHHHHCCCEEEEEEeeh---hhCHHHHHHhcCCC
Confidence 3445555556555555432 22234555554444
No 107
>PRK06774 para-aminobenzoate synthase component II; Provisional
Probab=24.24 E-value=1.4e+02 Score=20.85 Aligned_cols=49 Identities=22% Similarity=0.245 Sum_probs=31.2
Q ss_pred cccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCc
Q 048656 5 DICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYA 60 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~ 60 (115)
|..++|+..|+..|++.|..+.+-.. .. .. .+.+++.+.--+|+|+.--
T Consensus 6 d~~dsf~~nl~~~l~~~~~~~~v~~~---~~-~~---~~~~~~~~~~~iilsgGP~ 54 (191)
T PRK06774 6 DNYDSFTYNLYQYFCELGTEVMVKRN---DE-LQ---LTDIEQLAPSHLVISPGPC 54 (191)
T ss_pred ECCCchHHHHHHHHHHCCCcEEEEeC---CC-CC---HHHHHhcCCCeEEEcCCCC
Confidence 56789999999999999988776431 21 11 1224444444577776643
No 108
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. 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 dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=24.23 E-value=2.1e+02 Score=18.62 Aligned_cols=21 Identities=10% Similarity=0.017 Sum_probs=15.5
Q ss_pred HHHhhhcceeeEEeecCCcCC
Q 048656 42 LKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 42 ~~~I~~s~~~Ivv~S~~~~~S 62 (115)
...+..++.+|++++.+-..|
T Consensus 70 ~~~~~~~d~~llv~d~~~~~s 90 (165)
T cd01864 70 QSYYRSANGAIIAYDITRRSS 90 (165)
T ss_pred HHHhccCCEEEEEEECcCHHH
Confidence 445677999999999865443
No 109
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=24.22 E-value=3.9e+02 Score=21.65 Aligned_cols=82 Identities=10% Similarity=0.124 Sum_probs=45.7
Q ss_pred HHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEE--EEe
Q 048656 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPV--FYN 89 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPI--fy~ 89 (115)
..|.++|++.|+..++- .|+.. +.+.+-+++..+.-|+++.+|..-.--.+ ..+.+.....+..+.-. -+-
T Consensus 58 ~~L~~~L~~~G~~L~v~----~G~p~-~vl~~l~~~~~~~~V~~~~~~~~~~~~rd--~~v~~~l~~~~i~~~~~~~~~l 130 (471)
T TIGR03556 58 QELQQRYQQAGSQLLIL----QGDPV-QLIPQLAQQLGAKAVYWNLDVEPYGRKRD--RAVAAALKEAGIAVVTLWDQLL 130 (471)
T ss_pred HHHHHHHHHCCCCeEEE----ECCHH-HHHHHHHHHcCCCEEEEecccCHHHHHHH--HHHHHHHHHCCCEEEEeCCcEE
Confidence 45888898999987763 35432 34445566778889999999876322222 22222222222222221 012
Q ss_pred cCCcccccccc
Q 048656 90 VDPSDVRNQKR 100 (115)
Q Consensus 90 v~p~~v~~~~g 100 (115)
+.|.++....|
T Consensus 131 ~~p~~i~~~~~ 141 (471)
T TIGR03556 131 HSPDEILTGSG 141 (471)
T ss_pred ECccccccCCC
Confidence 56888876555
No 110
>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=24.21 E-value=3.1e+02 Score=20.53 Aligned_cols=51 Identities=4% Similarity=0.033 Sum_probs=30.6
Q ss_pred HHHHHHHHHhhCCCceeeeCCccCC-CcccHHHHHHhhhcceeeEEeecCCcC
Q 048656 10 FLSHLVVALHRKNIETFVDEELTRG-DEISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 10 Fv~~L~~aL~~~gi~~f~d~~l~~G-~~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
.+..+..++++.|+.+-....+..+ ..+. .....|.+++.-+|++.-....
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~-~~i~~l~~~~~d~v~~~~~~~~ 211 (347)
T cd06340 160 VAEAIKKFAKERGFEIVEDISYPANARDLT-SEVLKLKAANPDAILPASYTND 211 (347)
T ss_pred HHHHHHHHHHHcCCEEEEeeccCCCCcchH-HHHHHHHhcCCCEEEEcccchh
Confidence 4566777888899887655445544 3444 3445577666655555544433
No 111
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=24.07 E-value=2.3e+02 Score=21.85 Aligned_cols=52 Identities=23% Similarity=0.417 Sum_probs=35.3
Q ss_pred cccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCc
Q 048656 3 GEDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYA 60 (115)
Q Consensus 3 ~~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~ 60 (115)
||-+-..++..|.+.+.+.|++++++.. |.. ++..+.+ ......+.+|=+-.
T Consensus 139 GEPlL~p~l~eli~~~k~~Gi~~~L~TN---G~~--~e~l~~L-~~~~d~i~VSLda~ 190 (322)
T PRK13762 139 GEPTLYPYLPELIEEFHKRGFTTFLVTN---GTR--PDVLEKL-EEEPTQLYVSLDAP 190 (322)
T ss_pred ccccchhhHHHHHHHHHHcCCCEEEECC---CCC--HHHHHHH-HhcCCEEEEEccCC
Confidence 6666677888999999999999999765 421 3444555 34455556666644
No 112
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=23.98 E-value=3.2e+02 Score=20.60 Aligned_cols=78 Identities=9% Similarity=0.030 Sum_probs=50.5
Q ss_pred cccHHHHHHHHHhhCCCcee--eeC-C-ccCCCcccHHHHHHhhhcceeeEEeecC-CcCChhHHHHHHHHHHhh-hcCC
Q 048656 7 CDNFLSHLVVALHRKNIETF--VDE-E-LTRGDEISPAFLKAIEESKISVKIFSKN-YASSKWCLDELVKILKCH-KKNG 80 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f--~d~-~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~-~~~S~wc~~EL~~~~~~~-~~~~ 80 (115)
...++..|.+.+.+.|+.+- .+. . +--|..+.-... -.+.++-||-+|.+ ...+..-..+|-.++... ++.+
T Consensus 95 d~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l--~p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~i~~~~ 172 (282)
T TIGR02298 95 NPALGQLIADEAQEHGVKTLAHQVPSLGLEYGTLVPMRYM--NEDGHFKVVSIAAWCTVHDIEESRALGEAIRKAIEQSD 172 (282)
T ss_pred CHHHHHHHHHHHHHCCCceeeccCCCCCCCeehHhHHHHh--CCCCCCcEEEEeecCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 35688899999999999875 222 2 556654432222 24567888888887 444666667888887765 3345
Q ss_pred CEEEEE
Q 048656 81 QVVIPV 86 (115)
Q Consensus 81 ~~viPI 86 (115)
.+|+-|
T Consensus 173 ~rV~iI 178 (282)
T TIGR02298 173 GRVAVL 178 (282)
T ss_pred CCEEEE
Confidence 566544
No 113
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=23.51 E-value=1.4e+02 Score=23.10 Aligned_cols=44 Identities=25% Similarity=0.576 Sum_probs=33.7
Q ss_pred HHHHHHhhhcceeeEEeecCCc---CChhHHHHHHHHHHhhhcCCCEEEEEEE
Q 048656 39 PAFLKAIEESKISVKIFSKNYA---SSKWCLDELVKILKCHKKNGQVVIPVFY 88 (115)
Q Consensus 39 ~~i~~~I~~s~~~Ivv~S~~~~---~S~wc~~EL~~~~~~~~~~~~~viPIfy 88 (115)
+.-..+|.+++.-++|+.|.|. .++|-.+||.++-+ ++ ++||-|
T Consensus 33 d~~~~~i~~~~f~llVVDps~~g~~~~~~~~eelr~~~~----gg--~~pIAY 79 (300)
T COG2342 33 DAYINEILNSPFDLLVVDPSYCGPFNTPWTIEELRTKAD----GG--VKPIAY 79 (300)
T ss_pred cchHHHHhcCCCcEEEEeccccCCCCCcCcHHHHHHHhc----CC--eeEEEE
Confidence 4556789999999999999654 67898889887522 33 888877
No 114
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=23.45 E-value=2.3e+02 Score=23.12 Aligned_cols=24 Identities=8% Similarity=0.173 Sum_probs=20.6
Q ss_pred cccHHHHHHHHHhhCCCceeeeCC
Q 048656 7 CDNFLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
-...+..|++.|++.|+.+-+|.+
T Consensus 300 ~~~~A~~l~~~Lr~~girv~lD~r 323 (472)
T TIGR00408 300 VMEAAREVRSRLKKAGFRVHIDDR 323 (472)
T ss_pred HHHHHHHHHHHHHHCCCEEEEECC
Confidence 345778899999999999999985
No 115
>PF13477 Glyco_trans_4_2: Glycosyl transferase 4-like
Probab=23.42 E-value=87 Score=19.88 Aligned_cols=23 Identities=13% Similarity=0.384 Sum_probs=18.8
Q ss_pred cccccHHHHHHHHHhhCCCceee
Q 048656 5 DICDNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~ 27 (115)
++...|+.++.++|.+.|..+.+
T Consensus 7 ~~~~~~~~~~~~~L~~~g~~V~i 29 (139)
T PF13477_consen 7 NTPSTFIYNLAKELKKRGYDVHI 29 (139)
T ss_pred cCcHHHHHHHHHHHHHCCCEEEE
Confidence 34567999999999999987665
No 116
>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=23.41 E-value=1.7e+02 Score=24.06 Aligned_cols=46 Identities=11% Similarity=0.229 Sum_probs=26.1
Q ss_pred cHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeec
Q 048656 9 NFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSK 57 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~ 57 (115)
..+-.|++.|++.|+.|-+|.. +.++...+..|-+.---.++|+.+
T Consensus 484 ~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 484 DYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred HHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEch
Confidence 3456778888888888888763 344444444443222224555554
No 117
>PRK12413 phosphomethylpyrimidine kinase; Provisional
Probab=23.39 E-value=2.9e+02 Score=19.84 Aligned_cols=24 Identities=8% Similarity=-0.074 Sum_probs=10.8
Q ss_pred HHHHhhhcceeeEEeecCCcCChh
Q 048656 41 FLKAIEESKISVKIFSKNYASSKW 64 (115)
Q Consensus 41 i~~~I~~s~~~Ivv~S~~~~~S~w 64 (115)
+.+.+++.+-.-+|+.|++..+.|
T Consensus 88 ~~~~~~~~~~~~vv~DPv~~~~~~ 111 (253)
T PRK12413 88 ALDFIKGHPGIPVVLDPVLVCKET 111 (253)
T ss_pred HHHHHHhCCCCCEEEcCceecCCC
Confidence 333443322233555555555544
No 118
>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=23.30 E-value=1.1e+02 Score=18.89 Aligned_cols=20 Identities=5% Similarity=0.132 Sum_probs=15.3
Q ss_pred HHhhhcceeeEEeecCCcCC
Q 048656 43 KAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 43 ~~I~~s~~~Ivv~S~~~~~S 62 (115)
..+..++.+|+|++..-..|
T Consensus 69 ~~~~~~d~~ilv~D~s~~~s 88 (119)
T PF08477_consen 69 FFLKKADAVILVYDLSDPES 88 (119)
T ss_dssp HHHHHSCEEEEEEECCGHHH
T ss_pred chhhcCcEEEEEEcCCChHH
Confidence 34899999999998664443
No 119
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=23.20 E-value=1.4e+02 Score=16.34 Aligned_cols=21 Identities=14% Similarity=0.192 Sum_probs=15.8
Q ss_pred cccHHHHHHHHHhhCCCceee
Q 048656 7 CDNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~ 27 (115)
...+...+.++|.+.||++..
T Consensus 14 ~~~~~~~i~~~l~~~~I~v~~ 34 (66)
T cd04922 14 TPGVAATFFSALAKANVNIRA 34 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEE
Confidence 456777888888888887754
No 120
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=23.12 E-value=2.1e+02 Score=18.25 Aligned_cols=59 Identities=22% Similarity=0.097 Sum_probs=37.0
Q ss_pred HHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhh-cceeeEEeecCCcCChhHHHHHHHHHHhh
Q 048656 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEE-SKISVKIFSKNYASSKWCLDELVKILKCH 76 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~-s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~ 76 (115)
..+...|+++|+.+-.-+ ... .+.+.+.+.. .+.-++.+|- +..+.++..++...++..
T Consensus 6 ~~~aa~l~~~g~~v~~~~----~~~-~~~~~~~~~~~~~pdiv~~S~-~~~~~~~~~~~~~~ik~~ 65 (127)
T cd02068 6 AYLAAVLEDAGFIVAEHD----VLS-ADDIVEDIKELLKPDVVGISL-MTSAIYEALELAKIAKEV 65 (127)
T ss_pred HHHHHHHHHCCCeeeecC----CCC-HHHHHHHHHHhcCCCEEEEee-ccccHHHHHHHHHHHHHH
Confidence 467788999996544322 122 3455556655 7777888886 555666777777666554
No 121
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.10 E-value=83 Score=19.23 Aligned_cols=20 Identities=20% Similarity=0.105 Sum_probs=17.1
Q ss_pred ccHHHHHHHHHhhCCCceee
Q 048656 8 DNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~ 27 (115)
.+|.+++.+.|++.|+.+-.
T Consensus 15 vGF~rk~L~I~E~~~is~Eh 34 (76)
T cd04911 15 VGFGRKLLSILEDNGISYEH 34 (76)
T ss_pred hcHHHHHHHHHHHcCCCEee
Confidence 57999999999999988544
No 122
>PTZ00099 rab6; Provisional
Probab=22.98 E-value=2.6e+02 Score=19.15 Aligned_cols=18 Identities=11% Similarity=0.253 Sum_probs=14.1
Q ss_pred HHhhhcceeeEEeecCCc
Q 048656 43 KAIEESKISVKIFSKNYA 60 (115)
Q Consensus 43 ~~I~~s~~~Ivv~S~~~~ 60 (115)
..++.++.+|+|++-.-.
T Consensus 48 ~~~~~ad~~ilv~D~t~~ 65 (176)
T PTZ00099 48 SYIRDSAAAIVVYDITNR 65 (176)
T ss_pred HHhCCCcEEEEEEECCCH
Confidence 457899999999996543
No 123
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=22.96 E-value=1e+02 Score=25.69 Aligned_cols=50 Identities=14% Similarity=0.183 Sum_probs=31.2
Q ss_pred ccHHHHHHHHHhhCCCceeeeCC-ccCCCcccHHHHHHhhhcceeeEEeecCCcC
Q 048656 8 DNFLSHLVVALHRKNIETFVDEE-LTRGDEISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 8 ~~Fv~~L~~aL~~~gi~~f~d~~-l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
......|++.|+..|+.+-+|++ -..|..+... ...... .++++.++.++
T Consensus 484 ~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~a---d~~GiP-~~iiiG~~e~~ 534 (565)
T PRK09194 484 KELAEKLYAELQAAGIEVLLDDRKERPGVKFADA---DLIGIP-HRIVVGDRGLA 534 (565)
T ss_pred HHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHH---HhcCCC-EEEEEcCcccc
Confidence 45777899999999999999986 4444333221 111222 55666666443
No 124
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=22.88 E-value=77 Score=20.05 Aligned_cols=28 Identities=21% Similarity=0.396 Sum_probs=19.7
Q ss_pred ccccccccHHHHHHHHHhhCCCceeeeC
Q 048656 2 RGEDICDNFLSHLVVALHRKNIETFVDE 29 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi~~f~d~ 29 (115)
||.-.-.-.+.++.+.|.++|+.++.+-
T Consensus 32 R~~G~~~~v~~~~~~~L~~~g~P~Y~hv 59 (89)
T PF08444_consen 32 RGQGLMSQVMYHLAQYLHKLGFPFYGHV 59 (89)
T ss_pred hcCCHHHHHHHHHHHHHHHCCCCeEeeh
Confidence 4443444456678899999999988753
No 125
>PRK13835 conjugal transfer protein TrbH; Provisional
Probab=22.85 E-value=92 Score=21.56 Aligned_cols=26 Identities=23% Similarity=0.245 Sum_probs=20.9
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
.|+ ..|-..|.++|+..|..|--|..
T Consensus 65 q~~-d~Fg~aL~~aLr~~GYaVvtd~k 90 (145)
T PRK13835 65 KDT-SPFGQALEAALKGWGYAVVTDQK 90 (145)
T ss_pred ecC-cHHHHHHHHHHHhcCeEEeeccc
Confidence 355 68999999999999998877654
No 126
>TIGR01093 aroD 3-dehydroquinate dehydratase, type I. Type II 3-dehydroquinate dehydratase, designated AroQ, is described by TIGR01088.
Probab=22.72 E-value=3e+02 Score=19.81 Aligned_cols=54 Identities=20% Similarity=0.157 Sum_probs=30.8
Q ss_pred eeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcC
Q 048656 25 TFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKN 79 (115)
Q Consensus 25 ~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~ 79 (115)
-++|=++..++....++.+.+... ..-+|.|-+..+..|-..|+...++.+...
T Consensus 94 d~vDiEl~~~~~~~~~l~~~~~~~-~~kvI~S~H~f~~tp~~~~l~~~~~~~~~~ 147 (228)
T TIGR01093 94 DFVDIELFLPDDAVKELINIAKKG-GTKIIMSYHDFQKTPSWEEIVERLEKALSY 147 (228)
T ss_pred CEEEEEccCCHHHHHHHHHHHHHC-CCEEEEeccCCCCCCCHHHHHHHHHHHHHh
Confidence 344443333333333333333333 345677888778888888888877766544
No 127
>PF09886 DUF2113: Uncharacterized protein conserved in archaea (DUF2113); InterPro: IPR016762 There is currently no experimental data for members of this group or their homologues. Based on distant sequence similarity, they may be tentatively predicted to be nucleic acid-binding proteins, they are also likely to be linked to methanogenesis or a process closely connected to it.
Probab=21.79 E-value=3.2e+02 Score=19.75 Aligned_cols=56 Identities=13% Similarity=0.156 Sum_probs=39.2
Q ss_pred ccccccHHHHHHHHHhh---CCCceeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhh
Q 048656 4 EDICDNFLSHLVVALHR---KNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCH 76 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~---~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~ 76 (115)
.|.+..|...|+.++.+ .|+++=.+. -.-+.+++|-|.+-..-.|- +|....++.+
T Consensus 127 ~Dp~~~l~~~v~da~~RI~PEGFRVr~~~----------------~~~~~f~~vASE~~i~~ewi-~~a~e~~~el 185 (188)
T PF09886_consen 127 YDPSEDLKKKVYDAMFRIAPEGFRVRRHY----------------YEGNSFAFVASEETIKDEWI-EEAKEMIEEL 185 (188)
T ss_pred ECcHHHHHHHHHHHHHHhCCCccEEeecc----------------ccCCeEEEEECCCCCCHHHH-HHHHHHHHHh
Confidence 36678888899999887 466544322 23456788999999999997 6665555544
No 128
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=21.76 E-value=64 Score=18.64 Aligned_cols=21 Identities=14% Similarity=0.292 Sum_probs=15.0
Q ss_pred hhhcceeeEEeecCCcCChhH
Q 048656 45 IEESKISVKIFSKNYASSKWC 65 (115)
Q Consensus 45 I~~s~~~Ivv~S~~~~~S~wc 65 (115)
+-+++++++|+||+=....||
T Consensus 37 Lc~~~v~~iv~sp~g~~~~~~ 57 (59)
T cd00120 37 LCDAEVAVIVFSPSGKLYEFW 57 (59)
T ss_pred ccCCcEEEEEECCCCCccccc
Confidence 346888999999985544443
No 129
>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The presence of motifs with seven invariant Cys residues in the N-terminal 50 residues, including three instances of CXXC, would be consistent with function as an oxidoreductase with FeS clusters. The exact function is unknown, but likely is linked to methanogenesis. In most genomes, the member of this family is encoded by a gene next to, and divergently transcribed from, the methyl coenzyme M reductase operon.
Probab=21.49 E-value=2.9e+02 Score=22.22 Aligned_cols=56 Identities=14% Similarity=0.140 Sum_probs=40.8
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCCccCCC-cccHHHHHHhhhcceeeEEeecCCcC
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEELTRGD-EISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~-~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
+-+...|+..|.+.+++.|+++.+.. ..|. -..++..+.|.+.++..+.+|=+-.+
T Consensus 84 epl~~~~l~eLl~~lk~~gi~taI~~--TnG~~l~~~e~~~~L~~~gld~v~iSvka~d 140 (404)
T TIGR03278 84 DVSCYPELEELTKGLSDLGLPIHLGY--TSGKGFDDPEIAEFLIDNGVREVSFTVFATD 140 (404)
T ss_pred ccccCHHHHHHHHHHHhCCCCEEEeC--CCCcccCCHHHHHHHHHcCCCEEEEecccCC
Confidence 45667899999999999999877741 3454 23567777888877777888866554
No 130
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=21.43 E-value=1e+02 Score=17.51 Aligned_cols=19 Identities=26% Similarity=0.359 Sum_probs=11.3
Q ss_pred HHHHHHHhhCCCceeeeCC
Q 048656 12 SHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 12 ~~L~~aL~~~gi~~f~d~~ 30 (115)
..+...|+..||.+++.+.
T Consensus 13 ~~i~~~L~~~gI~~~v~~~ 31 (67)
T PF09413_consen 13 ELIKGLLEENGIPAFVKNE 31 (67)
T ss_dssp HHHHHHHHHTT--EE--S-
T ss_pred HHHHHHHHhCCCcEEEECC
Confidence 4567788999999999765
No 131
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=21.32 E-value=2.3e+02 Score=17.90 Aligned_cols=44 Identities=7% Similarity=0.226 Sum_probs=28.3
Q ss_pred HHHhhCCCceee-eCCccCCCcccHHHHHHhhhcceeeEEeecCCcCC
Q 048656 16 VALHRKNIETFV-DEELTRGDEISPAFLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 16 ~aL~~~gi~~f~-d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
-.++-.|+..+. ... .+...+.+.+.+.+-++.|++++.++.+.
T Consensus 13 ~GFrLaGi~~~~~~~~---~ee~~~~l~~l~~~~d~gII~Ite~~~~~ 57 (100)
T PRK02228 13 TGFRLAGIRKVYEVPD---DEKLDEAVEEVLEDDDVGILVMHDDDLEK 57 (100)
T ss_pred HHHHHcCCceEEeeCC---HHHHHHHHHHHhhCCCEEEEEEehhHhHh
Confidence 456778887443 221 13344455555567789999999997763
No 132
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=21.11 E-value=1.6e+02 Score=17.65 Aligned_cols=21 Identities=19% Similarity=0.256 Sum_probs=16.8
Q ss_pred HHHHHHHHHhhCCCceeeeCC
Q 048656 10 FLSHLVVALHRKNIETFVDEE 30 (115)
Q Consensus 10 Fv~~L~~aL~~~gi~~f~d~~ 30 (115)
.-.+|.+.|.++|+.|+.-|.
T Consensus 31 ry~~~a~~L~~~G~~V~~~D~ 51 (79)
T PF12146_consen 31 RYAHLAEFLAEQGYAVFAYDH 51 (79)
T ss_pred HHHHHHHHHHhCCCEEEEECC
Confidence 345799999999999997553
No 133
>PF13483 Lactamase_B_3: Beta-lactamase superfamily domain; PDB: 1VJN_B 3KL7_A.
Probab=20.99 E-value=2.6e+02 Score=18.54 Aligned_cols=43 Identities=14% Similarity=0.231 Sum_probs=22.7
Q ss_pred HHHHHHhhhcceeeEEeecCCcCChhHHHHHHHHHHhhhcCCCEEEEE
Q 048656 39 PAFLKAIEESKISVKIFSKNYASSKWCLDELVKILKCHKKNGQVVIPV 86 (115)
Q Consensus 39 ~~i~~~I~~s~~~Ivv~S~~~~~S~wc~~EL~~~~~~~~~~~~~viPI 86 (115)
.+...++.+.++.++-++..+..+. .|...+++.. +-..|+|+
T Consensus 120 ~~~~~~~~~vDvl~~p~~g~~~~~~---~~a~~~~~~l--~pk~viP~ 162 (163)
T PF13483_consen 120 DEQLKQLGKVDVLFLPVGGPFTMGP---EEAAELAERL--KPKLVIPM 162 (163)
T ss_dssp HHHHHHH-S-SEEEEE--TTTS--H---HHHHHHHHHC--T-SEEEEE
T ss_pred HHHHhcccCCCEEEecCCCCcccCH---HHHHHHHHHc--CCCEEEeC
Confidence 4555677889999998888544433 3444444443 23688886
No 134
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=20.98 E-value=1.5e+02 Score=19.89 Aligned_cols=51 Identities=22% Similarity=0.203 Sum_probs=27.0
Q ss_pred ccccHHHHHHHHHhhCCCceeeeCCccCC-CcccHHHHHHhhhcceeeEEee
Q 048656 6 ICDNFLSHLVVALHRKNIETFVDEELTRG-DEISPAFLKAIEESKISVKIFS 56 (115)
Q Consensus 6 ~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G-~~i~~~i~~~I~~s~~~Ivv~S 56 (115)
++++.--.|.+.|++.|..+-.-..+.-. +.+.+.+.+++++++.-++|.|
T Consensus 17 i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVitt 68 (152)
T cd00886 17 AEDRSGPALVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLILTT 68 (152)
T ss_pred CccchHHHHHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 45556667888899999764332111111 3345556666663233344444
No 135
>PF03852 Vsr: DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine []. GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine []. The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology []. ; GO: 0004519 endonuclease activity, 0006298 mismatch repair; PDB: 1ODG_A 1VSR_A 1CW0_A.
Probab=20.93 E-value=1.9e+02 Score=17.69 Aligned_cols=46 Identities=22% Similarity=0.314 Sum_probs=24.6
Q ss_pred ccccccccHHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhhcceeeEE
Q 048656 2 RGEDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKI 54 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv 54 (115)
|+.||+-.. .|.++|.+.|+..-.+.+-.+|. +.| ++..-+++|+|
T Consensus 17 r~k~TkpE~--~lr~~L~~~G~RyR~~~~~lpG~---PDi--v~~~~k~aIFV 62 (75)
T PF03852_consen 17 RSKDTKPEL--ALRRALHALGLRYRLNRKDLPGK---PDI--VFPKYKIAIFV 62 (75)
T ss_dssp -SSS-HHHH--HHHHHHHHTT--EEES-TTSTT-----SE--EEGGGTEEEEE
T ss_pred cCCCChHHH--HHHHHHHhcCCEEEEccCcCCCC---CCE--EECCCCEEEEE
Confidence 455565433 47889999999977776634452 222 35666666665
No 136
>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=20.80 E-value=2.5e+02 Score=18.27 Aligned_cols=57 Identities=18% Similarity=0.144 Sum_probs=38.4
Q ss_pred cccccHHHHHHHHHhhCCCceee-eCCccCC------------CcccHHHHHHhhhcceeeEEeecCCcC
Q 048656 5 DICDNFLSHLVVALHRKNIETFV-DEELTRG------------DEISPAFLKAIEESKISVKIFSKNYAS 61 (115)
Q Consensus 5 d~r~~Fv~~L~~aL~~~gi~~f~-d~~l~~G------------~~i~~~i~~~I~~s~~~Ivv~S~~~~~ 61 (115)
.-+..+..+|...|..+|.++.+ |-..+.+ -.+.+....++..|+.++++..++..+
T Consensus 11 ~gkt~~~~~~a~~~~~~~~~~~~vd~D~~~~~~~yd~VIiD~p~~~~~~~~~~l~~aD~vviv~~~~~~s 80 (139)
T cd02038 11 VGKTNISANLALALAKLGKRVLLLDADLGLANLDYDYIIIDTGAGISDNVLDFFLAADEVIVVTTPEPTS 80 (139)
T ss_pred CcHHHHHHHHHHHHHHCCCcEEEEECCCCCCCCCCCEEEEECCCCCCHHHHHHHHhCCeEEEEcCCChhH
Confidence 34556778888999999986444 4222211 123455567899999999999997544
No 137
>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=20.65 E-value=1.5e+02 Score=21.35 Aligned_cols=36 Identities=6% Similarity=0.079 Sum_probs=27.3
Q ss_pred eeeeCCccCCCcccHHHHHHhhhcceeeEEeecCCcCC
Q 048656 25 TFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASS 62 (115)
Q Consensus 25 ~f~d~~l~~G~~i~~~i~~~I~~s~~~Ivv~S~~~~~S 62 (115)
||+|.- .+..+..++.....++..-|+++||..-.-
T Consensus 127 VW~D~f--~~~~~~~~~~~~~~~~~~~~c~VSpELh~~ 162 (192)
T cd08584 127 VWIDSF--TSLWLDNDLILKLLKAGKKICLVSPELHGR 162 (192)
T ss_pred EEEecc--cccCCCHHHHHHHHHCCcEEEEECHHHcCC
Confidence 777762 235667788888888999999999986543
No 138
>PF05051 COX17: Cytochrome C oxidase copper chaperone (COX17); InterPro: IPR007745 Cox17p is essential for the assembly of functional cytochrome c oxidase (CCO) and for delivery of copper ions to the mitochondrion for insertion into the enzyme in Saccharomyces cerevisiae [].; GO: 0005507 copper ion binding, 0016531 copper chaperone activity, 0006825 copper ion transport, 0005758 mitochondrial intermembrane space; PDB: 1U97_A 1U96_A 1Z2G_A 2RNB_A 2RN9_A 2LGQ_A 2L0Y_B.
Probab=20.55 E-value=48 Score=18.72 Aligned_cols=25 Identities=16% Similarity=0.490 Sum_probs=19.3
Q ss_pred CccccccccHHHHHHHHHhhCCCce
Q 048656 1 FRGEDICDNFLSHLVVALHRKNIET 25 (115)
Q Consensus 1 fr~~d~r~~Fv~~L~~aL~~~gi~~ 25 (115)
|.|+|.-..+|..-.+.|+..|++|
T Consensus 25 ~~g~e~C~~~Ieahk~Cmr~~GF~v 49 (49)
T PF05051_consen 25 FNGEEDCKELIEAHKACMRGEGFKV 49 (49)
T ss_dssp HC-CCCCHHHHHHHHHHHHHHTCCS
T ss_pred hcChHHHHHHHHHHHHHHHHcCCCC
Confidence 3577778888888888999988764
No 139
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=20.53 E-value=1.1e+02 Score=16.82 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=17.3
Q ss_pred cccHHHHHHHHHhhCCCceee
Q 048656 7 CDNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 7 r~~Fv~~L~~aL~~~gi~~f~ 27 (115)
+.+|...+.+.|.+.|+++-.
T Consensus 13 ~~~~~~~if~~l~~~~i~v~~ 33 (62)
T cd04890 13 EVGFLRKIFEILEKHGISVDL 33 (62)
T ss_pred ccCHHHHHHHHHHHcCCeEEE
Confidence 457888999999999988766
No 140
>PF08902 DUF1848: Domain of unknown function (DUF1848); InterPro: IPR014998 This group of proteins are functionally uncharacterised. The C terminus contains a cluster of cysteines that are similar to the iron-sulphur cluster found at the N terminus of IPR007197 from INTERPRO.
Probab=20.47 E-value=3.9e+02 Score=20.32 Aligned_cols=82 Identities=12% Similarity=0.208 Sum_probs=48.1
Q ss_pred cHHHHHHHHHhhCCCceeeeCC-------ccCCCcccHHHHHHhhh------cceee-----EEeecCCcCChhHHHHHH
Q 048656 9 NFLSHLVVALHRKNIETFVDEE-------LTRGDEISPAFLKAIEE------SKISV-----KIFSKNYASSKWCLDELV 70 (115)
Q Consensus 9 ~Fv~~L~~aL~~~gi~~f~d~~-------l~~G~~i~~~i~~~I~~------s~~~I-----vv~S~~~~~S~wc~~EL~ 70 (115)
.|..+| +.|.+.|++.++.-+ ++|+-+-..++.+.+.+ .+.+| |++|..|.. .|.++.+.
T Consensus 60 P~l~~L-~~l~~~gy~~yfq~Tit~Y~~~lEp~vP~~~~~i~~f~~Ls~~iG~~rViWRYDPIil~~~~~~-~~h~~~F~ 137 (266)
T PF08902_consen 60 PFLPYL-DELDERGYPYYFQFTITGYGKDLEPNVPPKDERIETFRELSERIGPERVIWRYDPIILTDKYTV-DYHLEAFE 137 (266)
T ss_pred HHHhhH-HHHHhCCCceEEEEEeCCCCccccCCCCCHHHHHHHHHHHHHHHCCCcEEEecCCEeECCCCCH-HHHHHHHH
Confidence 467788 889999998887632 56664333333333332 22334 445555433 67777777
Q ss_pred HHHHhhhcCCCEEEEEEEecCC
Q 048656 71 KILKCHKKNGQVVIPVFYNVDP 92 (115)
Q Consensus 71 ~~~~~~~~~~~~viPIfy~v~p 92 (115)
.+-+..+....+++-=|.+..+
T Consensus 138 ~la~~L~g~t~~~viSF~D~Y~ 159 (266)
T PF08902_consen 138 RLAEALAGYTDRCVISFLDLYR 159 (266)
T ss_pred HHHHHHhccCCEEEEEeeeccH
Confidence 7766666556666666655433
No 141
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=20.36 E-value=2.6e+02 Score=23.08 Aligned_cols=44 Identities=11% Similarity=0.195 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhCCCceeeeCCccCCCcccHHHHHHhhh-cceeeEEeec
Q 048656 10 FLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEE-SKISVKIFSK 57 (115)
Q Consensus 10 Fv~~L~~aL~~~gi~~f~d~~l~~G~~i~~~i~~~I~~-s~~~Ivv~S~ 57 (115)
.+..+++.|++.|+++-+|.. +.++...+..|-.. .+ .++|+.+
T Consensus 491 ~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p-~~iivG~ 535 (575)
T PRK12305 491 YAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIP-YMLVVGD 535 (575)
T ss_pred HHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCC-EEEEEec
Confidence 456788888888888888764 33344444443322 22 4444444
No 142
>smart00432 MADS MADS domain.
Probab=20.30 E-value=70 Score=18.49 Aligned_cols=15 Identities=13% Similarity=0.377 Sum_probs=11.9
Q ss_pred hhhcceeeEEeecCC
Q 048656 45 IEESKISVKIFSKNY 59 (115)
Q Consensus 45 I~~s~~~Ivv~S~~~ 59 (115)
+-+++++++|+||+=
T Consensus 37 Lc~~~v~~iv~sp~g 51 (59)
T smart00432 37 LCDAEVALIVFSPTG 51 (59)
T ss_pred ccCCeEEEEEECCCC
Confidence 346888999999974
No 143
>PF05222 AlaDh_PNT_N: Alanine dehydrogenase/PNT, N-terminal domain; InterPro: IPR007886 Alanine dehydrogenases (1.4.1.1 from EC) and pyridine nucleotide transhydrogenase (1.6.1.1 from EC) have been shown to share regions of similarity []. Alanine dehydrogenase catalyzes the NAD-dependent reversible reductive amination of pyruvate into alanine. Pyridine nucleotide transhydrogenase catalyzes the reduction of NADP+ to NADPH with the concomitant oxidation of NADH to NAD+. This enzyme is located in the plasma membrane of prokaryotes and in the inner membrane of the mitochondria of eukaryotes. The transhydrogenation between NADH and NADP is coupled with the translocation of a proton across the membrane. In prokaryotes the enzyme is composed of two different subunits, an alpha chain (gene pntA) and a beta chain (gene pntB), while in eukaryotes it is a single chain protein. The sequence of alanine dehydrogenase from several bacterial species are related with those of the alpha subunit of bacterial pyridine nucleotide transhydrogenase and of the N-terminal half of the eukaryotic enzyme. The two most conserved regions correspond respectively to the N-terminal extremity of these proteins, represented in this entry, and to a central glycine-rich region which is part of the NAD(H)-binding site.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1X15_A 2BRU_A 1X14_B 1X13_A 2EEZ_F 2VOE_F 2VHV_B 2VHY_A 2VHX_A 2VHW_A ....
Probab=20.21 E-value=62 Score=21.71 Aligned_cols=54 Identities=17% Similarity=0.131 Sum_probs=33.9
Q ss_pred ccccccHHHHHHHHHhhCCCceeeeCC------------ccCCCcccHHHHHHhhhcceeeEEeec
Q 048656 4 EDICDNFLSHLVVALHRKNIETFVDEE------------LTRGDEISPAFLKAIEESKISVKIFSK 57 (115)
Q Consensus 4 ~d~r~~Fv~~L~~aL~~~gi~~f~d~~------------l~~G~~i~~~i~~~I~~s~~~Ivv~S~ 57 (115)
.+.|-..+-.-++.|.+.|+.|++-.. ...|..+.+.-.+.+.+|++.+-|=.|
T Consensus 9 ~E~RVal~P~~v~~L~~~G~~V~VE~gaG~~a~fsD~~Y~~aGA~I~~~~~ev~~~adiIl~v~~p 74 (136)
T PF05222_consen 9 GERRVALTPEDVKKLVKLGHEVLVESGAGEGAGFSDEEYEEAGAEIVSRAEEVYSDADIILKVKPP 74 (136)
T ss_dssp T---BSS-HHHHHHHHHTTSEEEEETTTTGGGTB-HHHHHHTTEEEESSHHHHHTTSSEEEESS--
T ss_pred CCcEecccHHHHHHHHhCCCEEEEECCCCCcCcccHHHHhhCCcEEecCchhhcccCCEEEEECCC
Confidence 367888888999999999999987542 234555554433556778887777666
No 144
>PRK00194 hypothetical protein; Validated
Probab=20.14 E-value=1.2e+02 Score=18.26 Aligned_cols=25 Identities=16% Similarity=0.228 Sum_probs=20.9
Q ss_pred ccccccccHHHHHHHHHhhCCCceee
Q 048656 2 RGEDICDNFLSHLVVALHRKNIETFV 27 (115)
Q Consensus 2 r~~d~r~~Fv~~L~~aL~~~gi~~f~ 27 (115)
.|.| |.+.+..+...|.++|+++--
T Consensus 9 ~g~D-rpGiva~vt~~la~~g~nI~~ 33 (90)
T PRK00194 9 IGKD-KVGIIAGVSTVLAELNVNILD 33 (90)
T ss_pred EcCC-CCCHHHHHHHHHHHcCCCEEe
Confidence 3666 888999999999999998554
Done!