Query 044488
Match_columns 125
No_of_seqs 127 out of 1041
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 03:42:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044488.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044488hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 5.2E-35 1.1E-39 213.3 9.9 99 23-125 24-123 (187)
2 PLN03210 Resistant to P. syrin 100.0 3.8E-31 8.3E-36 234.6 10.5 112 13-125 1-112 (1153)
3 smart00255 TIR Toll - interleu 99.9 1.4E-23 3.1E-28 145.2 9.4 98 25-123 1-100 (140)
4 PF01582 TIR: TIR domain; Int 99.9 2.3E-24 5E-29 150.8 3.0 97 28-124 1-102 (141)
5 PF13676 TIR_2: TIR domain; PD 99.8 1E-21 2.2E-26 130.0 3.0 87 28-120 1-87 (102)
6 KOG3678 SARM protein (with ste 99.4 8.3E-13 1.8E-17 108.4 8.0 92 22-119 609-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.9 2.2E-09 4.7E-14 74.3 5.9 89 26-119 1-107 (130)
8 PF08357 SEFIR: SEFIR domain; 98.3 3.8E-06 8.2E-11 58.9 8.2 64 27-90 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.5 0.00037 8.1E-09 48.3 6.2 77 27-106 1-91 (125)
10 COG4916 Uncharacterized protei 95.7 0.011 2.4E-07 45.8 3.4 100 15-119 167-273 (329)
11 PF13271 DUF4062: Domain of un 95.1 0.089 1.9E-06 33.4 5.6 63 28-91 2-65 (83)
12 PF05014 Nuc_deoxyrib_tr: Nucl 95.1 0.25 5.4E-06 32.8 8.0 68 39-107 13-89 (113)
13 COG4271 Predicted nucleotide-b 93.5 0.35 7.5E-06 36.3 6.4 76 27-106 84-175 (233)
14 PF14359 DUF4406: Domain of un 89.3 2 4.4E-05 28.0 6.0 61 43-105 19-84 (92)
15 cd00860 ThrRS_anticodon ThrRS 86.6 3.7 8.1E-05 25.3 5.9 60 26-89 2-61 (91)
16 PF14258 DUF4350: Domain of un 85.9 5.4 0.00012 24.0 6.2 60 44-115 9-68 (70)
17 cd00738 HGTP_anticodon HGTP an 82.0 6 0.00013 24.5 5.4 61 26-89 2-64 (94)
18 PF03129 HGTP_anticodon: Antic 81.7 3.4 7.3E-05 26.0 4.2 47 39-88 15-61 (94)
19 cd00858 GlyRS_anticodon GlyRS 80.7 9.7 0.00021 25.4 6.3 76 8-90 11-88 (121)
20 COG0400 Predicted esterase [Ge 77.1 8.5 0.00019 28.7 5.6 67 10-77 130-199 (207)
21 cd02042 ParA ParA and ParB of 68.6 27 0.00058 22.0 5.9 65 28-92 3-75 (104)
22 cd00861 ProRS_anticodon_short 68.5 15 0.00032 22.9 4.5 49 39-90 17-65 (94)
23 cd07363 45_DOPA_Dioxygenase Th 68.4 19 0.0004 27.4 5.8 68 39-108 80-149 (253)
24 PF03720 UDPG_MGDP_dh_C: UDP-g 61.5 11 0.00024 24.6 3.1 58 35-92 12-80 (106)
25 PF09837 DUF2064: Uncharacteri 61.5 48 0.001 22.4 8.6 85 22-116 7-94 (122)
26 COG1168 MalY Bifunctional PLP- 61.3 24 0.00053 29.0 5.4 46 70-115 148-195 (388)
27 COG1658 Small primase-like pro 61.0 18 0.00039 25.1 4.1 57 25-82 29-85 (127)
28 cd00859 HisRS_anticodon HisRS 61.0 32 0.0007 20.5 5.0 59 26-88 2-60 (91)
29 PF10087 DUF2325: Uncharacteri 58.7 45 0.00098 21.3 6.7 59 41-100 11-70 (97)
30 cd02426 Pol_gamma_b_Cterm C-te 58.5 6.2 0.00013 27.0 1.4 44 26-69 28-77 (128)
31 TIGR00418 thrS threonyl-tRNA s 57.7 29 0.00063 29.3 5.6 62 24-89 469-530 (563)
32 PRK08155 acetolactate synthase 56.9 29 0.00063 29.3 5.5 50 13-80 1-50 (564)
33 PF02310 B12-binding: B12 bind 56.6 51 0.0011 21.3 7.0 59 42-108 17-76 (121)
34 PRK14938 Ser-tRNA(Thr) hydrola 54.1 40 0.00087 27.7 5.6 59 25-87 274-332 (387)
35 cd06342 PBP1_ABC_LIVBP_like Ty 53.6 90 0.002 23.5 7.3 53 27-80 137-190 (334)
36 cd06371 PBP1_sensory_GC_DEF_li 52.7 87 0.0019 24.8 7.4 52 40-91 147-201 (382)
37 PF01976 DUF116: Protein of un 49.8 66 0.0014 22.9 5.6 84 20-120 56-139 (158)
38 PRK12325 prolyl-tRNA synthetas 49.5 59 0.0013 26.8 6.0 63 25-91 345-410 (439)
39 PF09419 PGP_phosphatase: Mito 48.8 42 0.0009 24.3 4.5 47 48-94 35-91 (168)
40 COG3613 Nucleoside 2-deoxyribo 48.7 88 0.0019 22.9 6.1 75 40-118 20-105 (172)
41 PF01990 ATP-synt_F: ATP synth 48.6 60 0.0013 20.7 4.9 55 45-103 9-63 (95)
42 PF11201 DUF2982: Protein of u 48.5 17 0.00037 26.0 2.4 28 23-50 123-151 (152)
43 COG1058 CinA Predicted nucleot 48.2 27 0.00059 27.0 3.6 42 41-84 22-66 (255)
44 cd01423 MGS_CPS_I_III Methylgl 48.1 24 0.00051 23.3 2.9 60 28-89 3-80 (116)
45 CHL00201 syh histidine-tRNA sy 47.8 51 0.0011 27.0 5.4 61 24-88 324-384 (430)
46 cd06340 PBP1_ABC_ligand_bindin 47.3 95 0.0021 24.0 6.7 60 27-87 146-206 (347)
47 TIGR00334 5S_RNA_mat_M5 ribonu 47.2 33 0.00071 25.1 3.7 43 40-83 36-78 (174)
48 PRK09194 prolyl-tRNA synthetas 46.0 36 0.00077 29.0 4.3 46 24-69 467-515 (565)
49 cd03364 TOPRIM_DnaG_primases T 46.0 24 0.00052 21.6 2.6 17 41-57 59-75 (79)
50 PRK14799 thrS threonyl-tRNA sy 45.7 57 0.0012 28.0 5.5 60 25-88 438-497 (545)
51 cd02951 SoxW SoxW family; SoxW 45.7 82 0.0018 20.5 5.4 31 69-101 3-34 (125)
52 KOG1136 Predicted cleavage and 45.1 34 0.00073 28.1 3.8 55 62-119 181-241 (501)
53 COG0683 LivK ABC-type branched 44.3 1.6E+02 0.0034 23.3 7.6 28 28-55 151-178 (366)
54 PRK03991 threonyl-tRNA synthet 44.3 65 0.0014 28.0 5.7 60 26-89 500-559 (613)
55 cd00532 MGS-like MGS-like doma 43.8 80 0.0017 20.7 5.0 60 28-89 2-77 (112)
56 cd01424 MGS_CPS_II Methylglyox 43.5 89 0.0019 20.2 5.8 61 27-89 2-76 (110)
57 PRK00413 thrS threonyl-tRNA sy 43.4 66 0.0014 27.6 5.6 61 25-89 539-599 (638)
58 cd07373 2A5CPDO_A The alpha su 42.2 1.6E+02 0.0034 22.6 7.8 76 39-115 90-170 (271)
59 KOG2792 Putative cytochrome C 41.8 27 0.00057 27.4 2.7 31 94-124 153-187 (280)
60 PF03618 Kinase-PPPase: Kinase 41.7 90 0.002 24.2 5.6 30 88-117 213-242 (255)
61 COG0399 WecE Predicted pyridox 41.5 1.6E+02 0.0035 24.0 7.3 68 39-111 82-149 (374)
62 PLN03194 putative disease resi 41.5 1.4E+02 0.0031 22.0 6.9 64 51-118 24-88 (187)
63 cd06352 PBP1_NPR_GC_like Ligan 40.9 65 0.0014 25.2 4.9 41 39-80 152-195 (389)
64 cd00138 PLDc Phospholipase D. 40.5 65 0.0014 22.2 4.4 39 40-78 21-65 (176)
65 cd00154 Rab Rab family. Rab G 40.4 1E+02 0.0022 19.9 5.6 29 64-92 57-86 (159)
66 PRK02228 V-type ATP synthase s 40.1 1E+02 0.0023 20.0 5.0 43 48-92 14-56 (100)
67 cd06366 PBP1_GABAb_receptor Li 40.0 1.6E+02 0.0035 22.5 6.9 58 28-86 138-200 (350)
68 cd06335 PBP1_ABC_ligand_bindin 39.7 1.4E+02 0.003 23.1 6.5 19 39-57 152-170 (347)
69 PF00350 Dynamin_N: Dynamin fa 39.7 99 0.0021 20.9 5.2 46 70-118 120-165 (168)
70 PRK12305 thrS threonyl-tRNA sy 39.4 83 0.0018 26.7 5.5 61 25-89 476-536 (575)
71 cd06379 PBP1_iGluR_NMDA_NR1 N- 39.1 1.3E+02 0.0029 23.5 6.4 10 69-78 171-180 (377)
72 cd01857 HSR1_MMR1 HSR1/MMR1. 39.1 1.2E+02 0.0026 20.3 5.8 51 44-95 4-58 (141)
73 PF01113 DapB_N: Dihydrodipico 38.7 81 0.0018 21.1 4.5 10 26-35 68-77 (124)
74 cd07371 2A5CPDO_AB The alpha a 37.7 1.8E+02 0.004 22.2 6.8 83 30-115 79-167 (268)
75 COG4916 Uncharacterized protei 36.8 60 0.0013 25.6 3.9 95 23-120 4-104 (329)
76 PF09152 DUF1937: Domain of un 36.3 1.1E+02 0.0023 21.0 4.7 61 47-107 34-108 (116)
77 TIGR00177 molyb_syn molybdenum 36.3 61 0.0013 22.3 3.7 47 40-86 27-74 (144)
78 PLN02530 histidine-tRNA ligase 36.2 96 0.0021 25.9 5.4 60 25-88 401-460 (487)
79 cd08584 PI-PLCc_GDPD_SF_unchar 35.7 1.2E+02 0.0025 22.6 5.2 61 27-94 103-163 (192)
80 PF08477 Miro: Miro-like prote 35.6 82 0.0018 19.9 4.0 20 73-92 68-87 (119)
81 COG2130 Putative NADP-dependen 35.5 1E+02 0.0023 24.8 5.2 45 25-77 196-240 (340)
82 COG1010 CobJ Precorrin-3B meth 35.1 1.3E+02 0.0027 23.4 5.4 47 62-109 139-185 (249)
83 cd06361 PBP1_GPC6A_like Ligand 34.7 1.5E+02 0.0033 23.8 6.2 16 41-56 188-203 (403)
84 PRK12444 threonyl-tRNA synthet 34.4 1.1E+02 0.0023 26.5 5.5 63 24-89 540-602 (639)
85 COG0710 AroD 3-dehydroquinate 34.2 1.6E+02 0.0035 22.4 5.9 68 40-111 79-146 (231)
86 PF13289 SIR2_2: SIR2-like dom 34.0 1.1E+02 0.0024 20.1 4.6 12 41-52 76-87 (143)
87 cd00862 ProRS_anticodon_zinc P 33.5 55 0.0012 24.0 3.2 46 25-70 10-62 (202)
88 PRK15057 UDP-glucose 6-dehydro 33.2 95 0.0021 25.2 4.8 55 30-84 304-365 (388)
89 cd06370 PBP1_Speract_GC_like L 33.1 84 0.0018 25.0 4.4 26 40-65 151-176 (404)
90 COG3845 ABC-type uncharacteriz 33.0 2.1E+02 0.0046 24.4 6.8 79 43-121 119-200 (501)
91 PF03358 FMN_red: NADPH-depend 32.8 1.5E+02 0.0033 19.8 5.9 79 39-120 17-115 (152)
92 PRK08661 prolyl-tRNA synthetas 32.6 99 0.0021 25.9 4.9 45 25-69 287-338 (477)
93 cd06386 PBP1_NPR_C_like Ligand 32.6 2.1E+02 0.0046 22.6 6.7 17 42-58 157-173 (387)
94 TIGR01101 V_ATP_synt_F vacuola 32.4 87 0.0019 21.3 3.8 47 66-122 46-92 (115)
95 PF13662 Toprim_4: Toprim doma 32.2 37 0.0008 20.8 1.8 25 52-77 47-71 (81)
96 cd06328 PBP1_SBP_like_2 Peripl 32.1 1.7E+02 0.0038 22.4 6.0 53 27-80 138-191 (333)
97 PRK08350 hypothetical protein; 32.1 38 0.00082 27.4 2.2 33 23-55 279-311 (341)
98 PF05636 HIGH_NTase1: HIGH Nuc 31.3 55 0.0012 26.8 3.1 44 75-123 26-78 (388)
99 TIGR03026 NDP-sugDHase nucleot 31.1 1.1E+02 0.0024 24.7 4.8 59 30-88 321-386 (411)
100 cd06367 PBP1_iGluR_NMDA N-term 30.8 2E+02 0.0044 22.2 6.2 16 40-55 151-166 (362)
101 KOG4132 Uroporphyrinogen III s 30.4 87 0.0019 24.2 3.8 48 43-93 146-200 (260)
102 cd06346 PBP1_ABC_ligand_bindin 29.9 1.8E+02 0.0038 22.0 5.6 26 40-65 152-177 (312)
103 cd03411 Ferrochelatase_N Ferro 29.6 2E+02 0.0043 20.1 6.6 78 40-119 72-157 (159)
104 cd06327 PBP1_SBP_like_1 Peripl 29.3 2.4E+02 0.0051 21.5 6.3 36 39-74 149-185 (334)
105 PF14386 DUF4417: Domain of un 29.1 1E+02 0.0022 22.9 3.9 62 50-121 43-120 (200)
106 TIGR00389 glyS_dimeric glycyl- 28.9 1.8E+02 0.004 25.1 5.9 62 25-90 457-519 (551)
107 cd06358 PBP1_NHase Type I peri 28.7 2.6E+02 0.0055 21.3 6.4 54 27-80 134-187 (333)
108 cd05014 SIS_Kpsf KpsF-like pro 28.6 1.7E+02 0.0037 18.9 5.8 70 39-118 12-81 (128)
109 smart00646 Ami_3 Ami_3. 28.6 88 0.0019 20.2 3.3 11 40-50 44-54 (113)
110 PF01269 Fibrillarin: Fibrilla 28.5 62 0.0013 24.8 2.8 25 92-120 106-130 (229)
111 PLN02908 threonyl-tRNA synthet 28.5 1.6E+02 0.0034 25.9 5.6 59 26-88 590-648 (686)
112 cd06349 PBP1_ABC_ligand_bindin 28.5 1.6E+02 0.0036 22.4 5.3 30 28-57 138-167 (340)
113 PF11495 Regulator_TrmB: Archa 28.5 2E+02 0.0044 21.3 5.6 50 66-120 9-58 (233)
114 PF00155 Aminotran_1_2: Aminot 28.4 2.7E+02 0.0059 21.3 7.5 47 69-115 132-185 (363)
115 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 28.0 1.9E+02 0.0041 19.3 5.4 18 73-90 69-86 (166)
116 cd04904 ACT_AAAH ACT domain of 27.9 1.2E+02 0.0026 18.3 3.6 35 15-52 32-66 (74)
117 PF05818 TraT: Enterobacterial 27.9 94 0.002 23.5 3.6 48 11-58 6-55 (215)
118 TIGR00789 flhB_rel flhB C-term 27.6 1.7E+02 0.0036 18.6 4.5 38 40-77 27-71 (82)
119 TIGR00409 proS_fam_II prolyl-t 27.3 41 0.0009 28.9 1.8 64 25-92 473-539 (568)
120 TIGR02298 HpaD_Fe 3,4-dihydrox 27.0 2.3E+02 0.005 21.9 5.8 75 39-115 96-176 (282)
121 PF02337 Gag_p10: Retroviral G 26.8 49 0.0011 21.5 1.7 19 40-58 9-27 (90)
122 cd06350 PBP1_GPCR_family_C_lik 26.8 2.1E+02 0.0045 21.8 5.5 41 39-80 174-217 (348)
123 cd00758 MoCF_BD MoCF_BD: molyb 26.6 1.1E+02 0.0023 20.7 3.5 45 40-84 19-64 (133)
124 KOG0259 Tyrosine aminotransfer 26.6 3E+02 0.0065 23.1 6.5 54 62-115 179-236 (447)
125 PRK10076 pyruvate formate lyas 26.4 2E+02 0.0044 21.3 5.2 32 30-61 42-75 (213)
126 PF09413 DUF2007: Domain of un 26.0 58 0.0013 19.1 1.9 21 41-61 11-31 (67)
127 PRK07933 thymidylate kinase; V 25.8 1.7E+02 0.0038 21.4 4.7 30 29-58 2-33 (213)
128 COG0434 SgcQ Predicted TIM-bar 25.7 3.3E+02 0.0071 21.3 6.2 67 47-120 140-211 (263)
129 PRK13728 conjugal transfer pro 25.7 1.3E+02 0.0029 21.9 4.0 28 94-121 82-109 (181)
130 PRK08306 dipicolinate synthase 25.6 94 0.002 24.2 3.4 52 34-88 9-65 (296)
131 TIGR00288 conserved hypothetic 25.5 1.5E+02 0.0032 21.3 4.1 31 24-58 104-134 (160)
132 PRK11263 cardiolipin synthase 25.4 1.1E+02 0.0024 25.1 3.9 13 40-52 18-30 (411)
133 cd06547 GH85_ENGase Endo-beta- 25.4 1.8E+02 0.004 23.2 5.1 61 28-91 176-245 (339)
134 cd04795 SIS SIS domain. SIS (S 25.3 1.6E+02 0.0034 17.5 6.9 70 39-117 10-80 (87)
135 PRK13883 conjugal transfer pro 25.3 1.6E+02 0.0035 21.0 4.2 33 26-61 53-85 (151)
136 KOG0257 Kynurenine aminotransf 24.9 1.6E+02 0.0034 24.6 4.7 42 70-111 163-205 (420)
137 TIGR00408 proS_fam_I prolyl-tR 24.9 2E+02 0.0042 24.1 5.3 44 25-68 282-331 (472)
138 PF00994 MoCF_biosynth: Probab 24.8 2.3E+02 0.0049 19.1 5.7 59 40-98 17-76 (144)
139 COG2342 Predicted extracellula 24.7 1.5E+02 0.0033 23.6 4.3 44 70-119 33-79 (300)
140 PF11074 DUF2779: Domain of un 24.5 55 0.0012 22.5 1.8 34 68-103 60-93 (130)
141 PRK10628 LigB family dioxygena 24.2 2.6E+02 0.0057 21.4 5.6 77 30-109 62-139 (246)
142 PF03481 SUA5: Putative GTP-bi 24.1 1.6E+02 0.0034 19.7 3.9 53 26-79 68-123 (125)
143 cd03146 GAT1_Peptidase_E Type 24.0 1.8E+02 0.0038 21.3 4.5 55 26-86 33-88 (212)
144 TIGR00640 acid_CoA_mut_C methy 24.0 2.4E+02 0.0053 19.2 8.8 86 28-120 5-90 (132)
145 PRK03767 NAD(P)H:quinone oxido 24.0 2.8E+02 0.0061 19.9 6.0 52 39-93 16-83 (200)
146 PF01212 Beta_elim_lyase: Beta 23.9 3.2E+02 0.007 21.2 6.1 53 65-120 104-164 (290)
147 PLN02866 phospholipase D 23.9 1.8E+02 0.0039 27.3 5.2 59 62-120 339-405 (1068)
148 PLN02449 ferrochelatase 23.8 3.7E+02 0.0081 22.9 6.8 79 40-120 164-252 (485)
149 PF02900 LigB: Catalytic LigB 23.8 1.7E+02 0.0037 22.1 4.5 68 39-108 96-169 (272)
150 PRK01395 V-type ATP synthase s 23.7 1.1E+02 0.0023 20.2 3.0 41 48-92 17-57 (104)
151 PF00113 Enolase_C: Enolase, C 23.5 90 0.0019 24.6 2.9 33 24-56 227-259 (295)
152 PRK12435 ferrochelatase; Provi 23.4 3.7E+02 0.0081 21.2 7.0 52 40-93 61-119 (311)
153 COG1737 RpiR Transcriptional r 23.4 3.4E+02 0.0075 20.7 6.8 69 40-118 143-211 (281)
154 PF14528 LAGLIDADG_3: LAGLIDAD 23.1 1.4E+02 0.0031 17.7 3.3 31 27-59 21-51 (77)
155 KOG4764 Uncharacterized conser 23.0 56 0.0012 20.3 1.3 18 38-55 51-68 (70)
156 PF12913 SH3_6: SH3 domain of 22.9 34 0.00075 20.1 0.4 16 27-42 28-43 (54)
157 cd06338 PBP1_ABC_ligand_bindin 22.7 3.5E+02 0.0075 20.5 7.1 36 39-74 155-191 (345)
158 cd06502 TA_like Low-specificit 22.6 2.3E+02 0.005 21.5 5.1 43 69-111 110-159 (338)
159 TIGR02826 RNR_activ_nrdG3 anae 22.6 2.6E+02 0.0057 19.4 5.0 31 29-59 64-94 (147)
160 cd02168 NMNAT_Nudix Nicotinami 22.6 2.5E+02 0.0053 20.3 4.9 15 72-86 19-33 (181)
161 PF00762 Ferrochelatase: Ferro 22.5 2.8E+02 0.0061 21.9 5.6 65 40-106 73-144 (316)
162 cd06365 PBP1_Pheromone_recepto 22.5 2.5E+02 0.0055 23.0 5.6 26 39-64 186-211 (469)
163 PF04244 DPRP: Deoxyribodipyri 22.4 2.9E+02 0.0062 20.8 5.4 68 25-94 62-132 (224)
164 PF02878 PGM_PMM_I: Phosphoglu 22.2 1.4E+02 0.0031 20.1 3.5 58 24-86 39-98 (137)
165 cd00885 cinA Competence-damage 22.2 1.5E+02 0.0032 21.2 3.6 44 40-83 19-63 (170)
166 COG2861 Uncharacterized protei 22.0 3.8E+02 0.0083 20.8 6.7 32 41-74 139-170 (250)
167 cd07367 CarBb CarBb is the B s 21.9 3.7E+02 0.008 20.6 6.4 67 39-107 90-162 (268)
168 PF02230 Abhydrolase_2: Phosph 21.8 2.4E+02 0.0052 20.2 4.8 48 25-73 155-205 (216)
169 COG0276 HemH Protoheme ferro-l 21.7 4.3E+02 0.0093 21.2 6.9 78 41-120 74-161 (320)
170 cd06348 PBP1_ABC_ligand_bindin 21.4 3.7E+02 0.0081 20.4 6.8 19 40-58 152-170 (344)
171 cd02696 MurNAc-LAA N-acetylmur 21.3 2.9E+02 0.0062 19.0 5.1 23 39-61 28-50 (172)
172 cd04886 ACT_ThrD-II-like C-ter 21.3 1.7E+02 0.0036 16.3 3.9 33 23-57 40-72 (73)
173 smart00852 MoCF_biosynth Proba 21.0 1.6E+02 0.0035 19.7 3.5 45 40-84 18-63 (135)
174 PF07283 TrbH: Conjugal transf 21.0 2.1E+02 0.0046 19.6 4.0 33 26-61 25-57 (121)
175 PF05013 FGase: N-formylglutam 20.8 1.6E+02 0.0035 21.7 3.7 59 8-66 136-196 (222)
176 PF15221 LEP503: Lens epitheli 20.8 53 0.0011 19.6 0.9 45 45-101 16-60 (61)
177 KOG3573 Caspase, apoptotic cys 20.8 61 0.0013 25.2 1.5 27 29-55 231-257 (300)
178 COG3384 Aromatic ring-opening 20.8 3.4E+02 0.0074 21.3 5.6 71 39-111 92-163 (268)
179 COG0529 CysC Adenylylsulfate k 20.7 56 0.0012 24.4 1.2 33 32-65 31-65 (197)
180 COG1763 MobB Molybdopterin-gua 20.7 1.1E+02 0.0023 22.0 2.6 29 29-58 7-35 (161)
181 PRK13762 tRNA-modifying enzyme 20.7 3.3E+02 0.007 21.5 5.6 36 26-61 131-166 (322)
182 PTZ00187 succinyl-CoA syntheta 20.6 2.3E+02 0.005 22.7 4.7 39 63-103 96-134 (317)
183 PLN02187 rooty/superroot1 20.6 2.3E+02 0.005 23.3 5.0 42 70-111 195-237 (462)
184 COG2077 Tpx Peroxiredoxin [Pos 20.6 77 0.0017 22.9 1.8 22 79-100 75-98 (158)
185 COG0124 HisS Histidyl-tRNA syn 20.6 3.6E+02 0.0079 22.5 6.0 62 23-88 333-394 (429)
186 cd00419 Ferrochelatase_C Ferro 20.4 2.9E+02 0.0064 18.8 5.7 63 40-102 45-114 (135)
187 COG4567 Response regulator con 20.3 81 0.0018 23.0 1.9 20 39-58 19-38 (182)
188 PF00117 GATase: Glutamine ami 20.3 3.1E+02 0.0068 19.1 6.5 74 39-119 7-80 (192)
189 PF13401 AAA_22: AAA domain; P 20.3 1.9E+02 0.004 18.5 3.7 54 28-87 41-94 (131)
190 cd00886 MogA_MoaB MogA_MoaB fa 20.3 1.7E+02 0.0037 20.2 3.6 43 40-82 20-65 (152)
191 KOG3974 Predicted sugar kinase 20.1 2.3E+02 0.005 22.5 4.5 39 79-120 100-138 (306)
192 COG0512 PabA Anthranilate/para 20.0 1.9E+02 0.0041 21.5 3.9 46 36-90 8-55 (191)
193 cd05008 SIS_GlmS_GlmD_1 SIS (S 20.0 1.2E+02 0.0026 19.6 2.7 31 25-58 48-78 (126)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=5.2e-35 Score=213.25 Aligned_cols=99 Identities=36% Similarity=0.719 Sum_probs=93.5
Q ss_pred CCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHH
Q 044488 23 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELL 101 (125)
Q Consensus 23 ~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~ 101 (125)
++.|||||||++.|+++.|+.||+.+|+++||++|+|+. +++|+.+.+.|.+||++|+++|+|||++|++|.||++||.
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~ 103 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELA 103 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHH
Confidence 346999999999999999999999999999999999997 9999999999999999999999999999999999999999
Q ss_pred HHHHhhhhCCCEEEEEEeecCCCC
Q 044488 102 KILECKHDYGQIVIPVFCRVDPSH 125 (125)
Q Consensus 102 ~~~~~~~~~~~~IiPI~~~v~ps~ 125 (125)
.|+++. ..||||||+|+|+|
T Consensus 104 ~I~e~~----~~ViPIFY~VdPsd 123 (187)
T PLN03194 104 LIMESK----KRVIPIFCDVKPSQ 123 (187)
T ss_pred HHHHcC----CEEEEEEecCCHHH
Confidence 999853 38999999999975
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.97 E-value=3.8e-31 Score=234.61 Aligned_cols=112 Identities=46% Similarity=0.791 Sum_probs=105.0
Q ss_pred ecccCCCCCCCCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccC
Q 044488 13 MASSSPSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 13 ~~~s~~~~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
||||| |+++.++|||||||+|+|+++.|+.||+++|.++||++|.|++++.|+.+..++.+||++|++.|+|||++|++
T Consensus 1 ~~~~~-~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~ 79 (1153)
T PLN03210 1 MASSS-SSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYAS 79 (1153)
T ss_pred CCCCC-CCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCccc
Confidence 45554 44567999999999999999999999999999999999998889999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHhhhhCCCEEEEEEeecCCCC
Q 044488 93 SGWCLDELLKILECKHDYGQIVIPVFCRVDPSH 125 (125)
Q Consensus 93 S~wc~~El~~~~~~~~~~~~~IiPI~~~v~ps~ 125 (125)
|.||++||+.|++++++.++.||||||+|+|+|
T Consensus 80 s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~ 112 (1153)
T PLN03210 80 SSWCLNELLEIVRCKEELGQLVIPVFYGLDPSH 112 (1153)
T ss_pred chHHHHHHHHHHHhhhhcCceEEEEEecccHHH
Confidence 999999999999999989999999999999985
No 3
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.90 E-value=1.4e-23 Score=145.16 Aligned_cols=98 Identities=40% Similarity=0.688 Sum_probs=83.8
Q ss_pred eeeEEEecee-ccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHH
Q 044488 25 KHGIFLSFRG-EDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKI 103 (125)
Q Consensus 25 ~yDVFISys~-~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~ 103 (125)
+|||||||++ .+..+.|+.+|...|...|+.+|.|+....|.... +|.++|++|+++|+++|++|+.|+||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 4899999998 34456899999999999999999987643333333 999999999999999999999999999999999
Q ss_pred HHhhhh-CCCEEEEEEeecCC
Q 044488 104 LECKHD-YGQIVIPVFCRVDP 123 (125)
Q Consensus 104 ~~~~~~-~~~~IiPI~~~v~p 123 (125)
.+...+ ...+||||+++..|
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~ 100 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIP 100 (140)
T ss_pred HHHHHHcCCCeEEEEEEecCh
Confidence 987654 66799999998654
No 4
>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=99.89 E-value=2.3e-24 Score=150.81 Aligned_cols=97 Identities=35% Similarity=0.649 Sum_probs=85.2
Q ss_pred EEEeceeccCcccHHHHHHHHHccC--CeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHH
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHN--NIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKIL 104 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~--Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~ 104 (125)
|||||++.+.+..|+++|.++|+++ |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|.||+.||..++
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999333468999999999999 999999887 9999999999999999999999999999999999999999999
Q ss_pred HhhhhC--CCEEEEEEeecCCC
Q 044488 105 ECKHDY--GQIVIPVFCRVDPS 124 (125)
Q Consensus 105 ~~~~~~--~~~IiPI~~~v~ps 124 (125)
++..+. ...|+|||+++.++
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~ 102 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPS 102 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CH
T ss_pred hhccccccccceeeEeccCChh
Confidence 987653 48999999998764
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.84 E-value=1e-21 Score=129.98 Aligned_cols=87 Identities=31% Similarity=0.553 Sum_probs=75.2
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhh
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 107 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~ 107 (125)
|||||+++|. .+|..|...|+..|+++|+|.++.+|+.+.+.|.++|++|+.+|+++|++|..|+||..|+..+.+
T Consensus 1 VFIS~~~~D~--~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~-- 76 (102)
T PF13676_consen 1 VFISYSSEDR--EFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 8999999994 699999999999999999997799999999999999999999999999999999999999999843
Q ss_pred hhCCCEEEEEEee
Q 044488 108 HDYGQIVIPVFCR 120 (125)
Q Consensus 108 ~~~~~~IiPI~~~ 120 (125)
.+.+||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 44589999975
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.40 E-value=8.3e-13 Score=108.38 Aligned_cols=92 Identities=27% Similarity=0.441 Sum_probs=79.5
Q ss_pred CCCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccC--------
Q 044488 22 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYAS-------- 92 (125)
Q Consensus 22 ~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~-------- 92 (125)
-.++.||||||+..- ...+++-|.-.|..+|++||+|-+ +..|+ +.+.+...|..++.+|+|++|+.+.
T Consensus 609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 346799999998764 467999999999999999999998 98887 5568889999999999999999863
Q ss_pred chhhHHHHHHHHHhhhhCCCEEEEEEe
Q 044488 93 SGWCLDELLKILECKHDYGQIVIPVFC 119 (125)
Q Consensus 93 S~wc~~El~~~~~~~~~~~~~IiPI~~ 119 (125)
-+|+.+||..++++.+ .|||||-
T Consensus 687 eDWVHKEl~~Afe~~K----NIiPI~D 709 (832)
T KOG3678|consen 687 EDWVHKELKCAFEHQK----NIIPIFD 709 (832)
T ss_pred HHHHHHHHHHHHHhcC----Ceeeeec
Confidence 6899999999988766 7999984
No 7
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=98.94 E-value=2.2e-09 Score=74.32 Aligned_cols=89 Identities=22% Similarity=0.374 Sum_probs=47.9
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccC-------Ceee-E---------EeCC-CCCCccchHHHHHHHHhcceEEEEec
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHN-------NIET-F---------IDND-LKRGDEISQSLLDTIEASTISIIIFS 87 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~-------Gi~v-f---------~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS 87 (125)
|.|||||++.|.. ..+..|...+... .+.. | .+.. ....+.+...|.++|..|+++||+++
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5799999999853 3677777776652 1211 1 1111 22344788999999999999999999
Q ss_pred CCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 044488 88 ERYASSGWCLDELLKILECKHDYGQIVIPVFC 119 (125)
Q Consensus 88 ~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~ 119 (125)
++...|.|+..|+..+++ .+..||-|.+
T Consensus 80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~~ 107 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK----KGKPIIGVYL 107 (130)
T ss_dssp TT----HHHHHHHHHHTT----T---EEEEET
T ss_pred CCcccCcHHHHHHHHHHH----CCCCEEEEEC
Confidence 999999999999999876 4557888875
No 8
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=98.33 E-value=3.8e-06 Score=58.85 Aligned_cols=64 Identities=19% Similarity=0.312 Sum_probs=51.3
Q ss_pred eEEEeceeccCcc-cHHHHHHHHHccC-CeeeEEeCC-CC--CCccchHHHHHHHHhcceEEEEecCCc
Q 044488 27 GIFLSFRGEDTRD-NFTSHLYSALCHN-NIETFIDND-LK--RGDEISQSLLDTIEASTISIIIFSERY 90 (125)
Q Consensus 27 DVFISys~~D~~~-~fv~~L~~~L~~~-Gi~vf~d~~-~~--~G~~~~~~i~~aI~~s~~~IvvlS~~~ 90 (125)
-|||||++....+ ..|..|...|+.. |+.|.+|.. .. .+..+..=+.+.+++++.+|+|+||.+
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~ 70 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 4999999854432 6788999999999 999999976 53 355666667788999999999999654
No 9
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=97.51 E-value=0.00037 Score=48.28 Aligned_cols=77 Identities=16% Similarity=0.177 Sum_probs=60.4
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCc-------------cC
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERY-------------AS 92 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~-------------~~ 92 (125)
.|||.|+ .| ...+..+...|+..|+.+.+=.. ...|..+.+.+.+.+.+|+..|++++|+= ..
T Consensus 1 kVFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 3899998 55 36888999999988877654333 78899999999999999999999999852 22
Q ss_pred chhhHHHHHHHHHh
Q 044488 93 SGWCLDELLKILEC 106 (125)
Q Consensus 93 S~wc~~El~~~~~~ 106 (125)
.+-++.|+..++.+
T Consensus 78 R~NVifE~G~f~g~ 91 (125)
T PF10137_consen 78 RQNVIFELGLFIGK 91 (125)
T ss_pred ccceeehhhHHHhh
Confidence 34567788888763
No 10
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=95.74 E-value=0.011 Score=45.83 Aligned_cols=100 Identities=14% Similarity=0.071 Sum_probs=68.3
Q ss_pred ccCCCCCCCCeeeEEEeceeccCcccHHHHHHHHHccC--CeeeEEeCC----CCCCccchHHHHHHH-HhcceEEEEec
Q 044488 15 SSSPSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHN--NIETFIDND----LKRGDEISQSLLDTI-EASTISIIIFS 87 (125)
Q Consensus 15 ~s~~~~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~--Gi~vf~d~~----~~~G~~~~~~i~~aI-~~s~~~IvvlS 87 (125)
.+......++.||+=+||.++- +.+|+....+++.. -...|+|-. +-+|. +.+-+...- ..|++.+|.+.
T Consensus 167 ~~~~Vd~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~~~L~~~Y~~rC~~~~VF~~ 243 (329)
T COG4916 167 TVTVVDSSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LVSTLDPGYDIRCVVTTVFNT 243 (329)
T ss_pred eeeeecccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-HHHhcccccCceEEEEEEEeC
Confidence 3444557788999999999875 47999999999843 356777753 33443 222222211 36889999999
Q ss_pred CCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 044488 88 ERYASSGWCLDELLKILECKHDYGQIVIPVFC 119 (125)
Q Consensus 88 ~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~ 119 (125)
.+|....||.-|...+-.... -+.+.||.|
T Consensus 244 ~~Y~~K~~c~~E~~~~r~~~~--~d~~~rI~~ 273 (329)
T COG4916 244 GSYICKSTCHIEGLEGRLNPI--LDTGFRIKY 273 (329)
T ss_pred CceEEeeeeccchhhcccccc--ccccceEEE
Confidence 999999999999877644222 235666665
No 11
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=95.13 E-value=0.089 Score=33.44 Aligned_cols=63 Identities=19% Similarity=0.207 Sum_probs=44.7
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeCCC-CCCccchHHHHHHHHhcceEEEEecCCcc
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDL-KRGDEISQSLLDTIEASTISIIIFSERYA 91 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~-~~G~~~~~~i~~aI~~s~~~IvvlS~~~~ 91 (125)
||||=.-.|- +.--..|.+.|.+.|.....-+.+ ..+....+.+.+.|++|+++|.++...|=
T Consensus 2 VFiSSt~~Dl-~~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG 65 (83)
T PF13271_consen 2 VFISSTFRDL-KEERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYG 65 (83)
T ss_pred EEEecChhhH-HHHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccC
Confidence 8998766664 234456777777777655443332 33555667889999999999999998884
No 12
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=95.11 E-value=0.25 Score=32.83 Aligned_cols=68 Identities=21% Similarity=0.107 Sum_probs=49.6
Q ss_pred ccHHHHHHHHHccCCeeeEEeCC--CC---CCcc----chHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhh
Q 044488 39 DNFTSHLYSALCHNNIETFIDND--LK---RGDE----ISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 107 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~--~~---~G~~----~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~ 107 (125)
..+...+.+.|+++|+.+|...+ .. .+.. +.+.-.++|++|+++|+++.+.- .+.=+..|+..+....
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 56888999999999999987653 21 2223 33444568999999999998765 6677888999987643
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=93.49 E-value=0.35 Score=36.32 Aligned_cols=76 Identities=16% Similarity=0.143 Sum_probs=58.0
Q ss_pred eEEEeceeccCcccHHHHHHHHHc-cCC-eeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCcc-------------
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALC-HNN-IETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYA------------- 91 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~-~~G-i~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~------------- 91 (125)
.|||-|++. ..+.....+|+ +.. ..+|.|.-+..|..+.+.+++-|++.+..|++.+|+=.
T Consensus 84 kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~p 159 (233)
T COG4271 84 KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAFP 159 (233)
T ss_pred eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhccc
Confidence 999999764 36666666665 333 45777766889999999999999999999999999843
Q ss_pred -CchhhHHHHHHHHHh
Q 044488 92 -SSGWCLDELLKILEC 106 (125)
Q Consensus 92 -~S~wc~~El~~~~~~ 106 (125)
...-+..||..++.+
T Consensus 160 raRqNVifELGm~mgr 175 (233)
T COG4271 160 RARQNVIFELGMFMGR 175 (233)
T ss_pred cccccchhhHhhHHhh
Confidence 133467788887763
No 14
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=89.30 E-value=2 Score=27.96 Aligned_cols=61 Identities=11% Similarity=-0.015 Sum_probs=41.6
Q ss_pred HHHHHHHccCCeeeEEeCCC--CCCccchHH---HHHHHHhcceEEEEecCCccCchhhHHHHHHHHH
Q 044488 43 SHLYSALCHNNIETFIDNDL--KRGDEISQS---LLDTIEASTISIIIFSERYASSGWCLDELLKILE 105 (125)
Q Consensus 43 ~~L~~~L~~~Gi~vf~d~~~--~~G~~~~~~---i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~ 105 (125)
....+.|+..|..|.-.-.+ ..|.++.+- -...|..|+.+++ =|++..|.=|+-|...+..
T Consensus 19 ~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~ 84 (92)
T PF14359_consen 19 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKK 84 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHH
Confidence 45778889999766533223 455555433 3345667775554 4999999999999988865
No 15
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=86.61 E-value=3.7 Score=25.33 Aligned_cols=60 Identities=7% Similarity=0.172 Sum_probs=38.1
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
++|+|...+.+. ...+..+...|++.|+++-+|.. +..+..++..|-..---+++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~---~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR---NEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 677777654432 35677899999999999988753 3455556655544333345555544
No 16
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=85.88 E-value=5.4 Score=23.97 Aligned_cols=60 Identities=17% Similarity=0.192 Sum_probs=35.9
Q ss_pred HHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEE
Q 044488 44 HLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVI 115 (125)
Q Consensus 44 ~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~Ii 115 (125)
.|+..|++.|++|-.... ..++++..+..+++++|.+.-+. ..++..+.+..+++++.||
T Consensus 9 a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 9 ALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 467778888988744221 12244557888999999966553 3444444444444555443
No 17
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=82.04 E-value=6 Score=24.45 Aligned_cols=61 Identities=13% Similarity=0.185 Sum_probs=38.6
Q ss_pred eeEEEeceecc--CcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 26 HGIFLSFRGED--TRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 26 yDVFISys~~D--~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
++|+|-..+.+ .....+..+...|++.|+.+.+|.. +..+...+..+-..---+++++.++
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~~---~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR---ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecCC---CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 57776654330 1245777889999999999988653 3455556655544333566777764
No 18
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=81.68 E-value=3.4 Score=26.03 Aligned_cols=47 Identities=17% Similarity=0.215 Sum_probs=31.4
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
..++.+|...|++.|+++.+|. .+..+...+.+|-..---+++++.+
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~---~~~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDD---SDKSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEES---SSSTHHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHHHHHHHCCCEEEEEC---CCCchhHHHHHHhhcCCeEEEEECc
Confidence 4678999999999999999986 3444555566655433334444443
No 19
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=80.65 E-value=9.7 Score=25.44 Aligned_cols=76 Identities=11% Similarity=-0.023 Sum_probs=47.7
Q ss_pred cceeeecccCC-CCCCCCeeeEEEeceec-cCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEE
Q 044488 8 YDVSVMASSSP-SPRNSNKHGIFLSFRGE-DTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIII 85 (125)
Q Consensus 8 ~~~~~~~~s~~-~~~~~~~yDVFISys~~-D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~Ivv 85 (125)
-|++-|.---+ ...+ +||||-.-++ +.....+..|...|+..|++|-+|.. ..+..++..|-..---++++
T Consensus 11 ~~~~~~~~~~P~~lap---~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~ii 83 (121)
T cd00858 11 GDEGRIVLRLPPALAP---IKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVT 83 (121)
T ss_pred CCCccEEEEcCCCcCC---cEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEE
Confidence 34555655533 3444 7888877551 12235677899999999999998742 45666666664444445666
Q ss_pred ecCCc
Q 044488 86 FSERY 90 (125)
Q Consensus 86 lS~~~ 90 (125)
+.++-
T Consensus 84 iG~~e 88 (121)
T cd00858 84 VDFDT 88 (121)
T ss_pred ECcCc
Confidence 66553
No 20
>COG0400 Predicted esterase [General function prediction only]
Probab=77.06 E-value=8.5 Score=28.70 Aligned_cols=67 Identities=21% Similarity=0.168 Sum_probs=47.8
Q ss_pred eeeecccCC-CCCCCCeeeEEEeceeccC--cccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHH
Q 044488 10 VSVMASSSP-SPRNSNKHGIFLSFRGEDT--RDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE 77 (125)
Q Consensus 10 ~~~~~~s~~-~~~~~~~yDVFISys~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~ 77 (125)
.+.|.+-.. ........-|||+|-..|. ....+.+|.+.|+..|..|+... +..|..+..+-.+++.
T Consensus 130 ~~g~~~~~~~~~~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 130 FSGMLPLEPELLPDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAAR 199 (207)
T ss_pred cCCcCCCCCccccccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHH
Confidence 344444432 4556788899999988886 34678899999999999998754 4578777765555444
No 21
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=68.58 E-value=27 Score=22.04 Aligned_cols=65 Identities=11% Similarity=0.119 Sum_probs=42.1
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEe-CC-------CCCCccchHHHHHHHHhcceEEEEecCCccC
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFID-ND-------LKRGDEISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d-~~-------~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
+|.+.++.-....++.+|...|.++|.++.+- -+ +--+..+......++..|+.+|+++.++..+
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~s 75 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPLD 75 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHHH
Confidence 35666554333456788999998889887652 11 1111223445568899999999999887543
No 22
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=68.53 E-value=15 Score=22.85 Aligned_cols=49 Identities=12% Similarity=0.255 Sum_probs=31.0
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCc
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 90 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~ 90 (125)
...+..|...|+..|+++.+|.. +..+...+..|-..---+++++.++-
T Consensus 17 ~~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 17 QELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCch
Confidence 35778899999999999999864 22444445455343334555555443
No 23
>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=68.38 E-value=19 Score=27.43 Aligned_cols=68 Identities=15% Similarity=0.075 Sum_probs=48.9
Q ss_pred ccHHHHHHHHHccCCeeeEEeCC--CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhh
Q 044488 39 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKH 108 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~--~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~ 108 (125)
..++.+|.+.|...|+.+-.+.+ +-.|--+. +.-...+.++=||.+|-+...++.-..+|..++...+
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 47999999999999998866543 55665444 2222234677788889888777777789999887554
No 24
>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=61.51 E-value=11 Score=24.61 Aligned_cols=58 Identities=14% Similarity=0.226 Sum_probs=35.5
Q ss_pred ccCcccHHHHHHHHHccCCeeeEEeCC-CC----------CCccchHHHHHHHHhcceEEEEecCCccC
Q 044488 35 EDTRDNFTSHLYSALCHNNIETFIDND-LK----------RGDEISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 35 ~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~----------~G~~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
.|.|.+=+-.|.+.|..+|+.|.+.+- +. .|-.+.+.+.++++.++++|+.....-..
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 466778888999999999999877542 21 12223346788899999887766554443
No 25
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=61.46 E-value=48 Score=22.43 Aligned_cols=85 Identities=9% Similarity=0.258 Sum_probs=41.8
Q ss_pred CCCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhc---ceEEEEecCCccCchhhHH
Q 044488 22 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAS---TISIIIFSERYASSGWCLD 98 (125)
Q Consensus 22 ~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s---~~~IvvlS~~~~~S~wc~~ 98 (125)
+...+|++|.|...... .....+ ....++.++. +.|..+.+.+..+++.. .-.|+++..+.-. -+..
T Consensus 7 ~~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~~----Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~~ 76 (122)
T PF09837_consen 7 QADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFFP----QQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTPD 76 (122)
T ss_dssp -TSSSEEEEEE----TT-HHHHHH---HH-TTSEEEE------SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----HH
T ss_pred cCCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEee----cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCHH
Confidence 44568999999876543 232222 3344555554 67888888887777766 2245555555433 2344
Q ss_pred HHHHHHHhhhhCCCEEEE
Q 044488 99 ELLKILECKHDYGQIVIP 116 (125)
Q Consensus 99 El~~~~~~~~~~~~~IiP 116 (125)
.|..+.+..+....++-|
T Consensus 77 ~l~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 77 DLEQAFEALQRHDVVLGP 94 (122)
T ss_dssp HHHHHHHHTTT-SEEEEE
T ss_pred HHHHHHHHhccCCEEEee
Confidence 555565544444445555
No 26
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=61.34 E-value=24 Score=28.98 Aligned_cols=46 Identities=24% Similarity=0.246 Sum_probs=36.9
Q ss_pred HHHHHHHHhcc-eEEEEecCCc-cCchhhHHHHHHHHHhhhhCCCEEE
Q 044488 70 QSLLDTIEAST-ISIIIFSERY-ASSGWCLDELLKILECKHDYGQIVI 115 (125)
Q Consensus 70 ~~i~~aI~~s~-~~IvvlS~~~-~~S~wc~~El~~~~~~~~~~~~~Ii 115 (125)
+.+++++.+.+ .+.++++|+= ...-|..+||.++.+.+++.+-+||
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 57888999887 5666777764 5789999999999998877776665
No 27
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=61.00 E-value=18 Score=25.08 Aligned_cols=57 Identities=12% Similarity=0.184 Sum_probs=42.5
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceE
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTIS 82 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~ 82 (125)
..++|+-..+.-....+++.|..++..+|+-++.|-+ .+|+.+...+.+.+..+..+
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~~~ 85 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAKGA 85 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccccc
Confidence 3566776654322246788899999999999999876 68999999999988885543
No 28
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=60.96 E-value=32 Score=20.49 Aligned_cols=59 Identities=17% Similarity=0.181 Sum_probs=34.0
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
.||||...+.+ ...-+..+...|+..|+++.++.. +..+...+..+-...-..++++.+
T Consensus 2 ~~v~i~~~~~~-~~~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 2 VDVYVVPLGEG-ALSEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred CcEEEEEcChH-HHHHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 36777654432 224567788999999999987542 223444555443332234455554
No 29
>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=58.69 E-value=45 Score=21.28 Aligned_cols=59 Identities=10% Similarity=0.100 Sum_probs=37.2
Q ss_pred HHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEEEEecCCccCchhhHHHH
Q 044488 41 FTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISIIIFSERYASSGWCLDEL 100 (125)
Q Consensus 41 fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El 100 (125)
....+...+++.|...-.. .-..| ..-...+...|.+++++|++.+--.-...|...+.
T Consensus 11 ~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~ 70 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKA 70 (97)
T ss_pred cHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHH
Confidence 4567888899999875444 11112 12223477889999999888765555555554443
No 30
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=58.50 E-value=6.2 Score=27.05 Aligned_cols=44 Identities=5% Similarity=-0.012 Sum_probs=29.6
Q ss_pred eeEEEece--eccCcccHHHHHHHHHccCCeeeEEeCCC----CCCccch
Q 044488 26 HGIFLSFR--GEDTRDNFTSHLYSALCHNNIETFIDNDL----KRGDEIS 69 (125)
Q Consensus 26 yDVFISys--~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~----~~G~~~~ 69 (125)
|+|=|--- ..+.-...+..|+..|+..|+++++|.+. .+|..+.
T Consensus 28 ~qV~Iipi~~~~~~~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~ 77 (128)
T cd02426 28 YKVAIDCGKGDTAELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLD 77 (128)
T ss_pred eEEEEEeccCChHHHHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHH
Confidence 66644322 12223567889999999999999998763 4565554
No 31
>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=57.66 E-value=29 Score=29.30 Aligned_cols=62 Identities=6% Similarity=0.184 Sum_probs=42.2
Q ss_pred CeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 24 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 24 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
...||+|-.-+++ ....+..|...|++.|++|-+|.. +..+..++..|-..---.++++.++
T Consensus 469 ~p~~v~vi~~~~~-~~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~~ 530 (563)
T TIGR00418 469 APVQVVVIPVNER-HLDYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGDK 530 (563)
T ss_pred CCceEEEEEccch-HHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEchh
Confidence 3578888775543 346788999999999999999853 4556666666644433455555543
No 32
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=56.93 E-value=29 Score=29.29 Aligned_cols=50 Identities=24% Similarity=0.191 Sum_probs=33.8
Q ss_pred ecccCCCCCCCCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcc
Q 044488 13 MASSSPSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAST 80 (125)
Q Consensus 13 ~~~s~~~~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~ 80 (125)
|+||++++.+++ ..-++.|.+.|++.|++..+ --||.... .+.+++.++.
T Consensus 1 ~~~~~~~~~~~~--------------~~~~~~l~~~L~~~GV~~vF---gvpG~~~~-~l~dal~~~~ 50 (564)
T PRK08155 1 MASSGTTSTRKR--------------FTGAELIVRLLERQGIRIVT---GIPGGAIL-PLYDALSQST 50 (564)
T ss_pred CCCCCCCccCCc--------------ccHHHHHHHHHHHcCCCEEE---eCCCcccH-HHHHHHhccC
Confidence 678876665543 13567889999999997554 25777665 4677776653
No 33
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=56.63 E-value=51 Score=21.27 Aligned_cols=59 Identities=15% Similarity=0.159 Sum_probs=35.4
Q ss_pred HHHHHHHHccCCeeeE-EeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhh
Q 044488 42 TSHLYSALCHNNIETF-IDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKH 108 (125)
Q Consensus 42 v~~L~~~L~~~Gi~vf-~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~ 108 (125)
...|...|+++|+.+- +|-.... +++.+.+.+.+.-++.+|-.+.. ...++..+.+..+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~k 76 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTP---NLPEAKRLARAIK 76 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHHH
Confidence 3568889999999884 4433222 56777777777666777654433 3344444444333
No 34
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=54.08 E-value=40 Score=27.75 Aligned_cols=59 Identities=14% Similarity=0.106 Sum_probs=39.1
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEec
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFS 87 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS 87 (125)
.++|+|-.-+++. ...+..|...|++.|+++.+|.. +..+..++..|-+.---+++++.
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~---srSLgKQiK~AdK~GaPfvIIIG 332 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL---DDSLGNKIRRAGTEWIPFVIIIG 332 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEC
Confidence 4788776655442 35778899999999999999753 44566666666543333444444
No 35
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=53.58 E-value=90 Score=23.53 Aligned_cols=53 Identities=13% Similarity=0.154 Sum_probs=29.6
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcc
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEAST 80 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~ 80 (125)
.|.+-|...+.....+..|.+.|+..|+++-....+.+| ..+. .+...|.++.
T Consensus 137 ~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~-~~l~~i~~~~ 190 (334)
T cd06342 137 KVAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFS-AILTKIKAAN 190 (334)
T ss_pred EEEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHH-HHHHHHHhcC
Confidence 354545433333456777778888888877654445554 3444 3444455543
No 36
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=52.70 E-value=87 Score=24.83 Aligned_cols=52 Identities=12% Similarity=0.165 Sum_probs=27.4
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhc---ceEEEEecCCcc
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAS---TISIIIFSERYA 91 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s---~~~IvvlS~~~~ 91 (125)
.....|.+.|+..|+.+-....+..++.-...+...|+.+ |++|+.....+.
T Consensus 147 ~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~ 201 (382)
T cd06371 147 ETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLI 201 (382)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeecccc
Confidence 3566777778878876554333444432223444555543 444444444444
No 37
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=49.80 E-value=66 Score=22.94 Aligned_cols=84 Identities=12% Similarity=0.087 Sum_probs=48.9
Q ss_pred CCCCCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHH
Q 044488 20 PRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDE 99 (125)
Q Consensus 20 ~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~E 99 (125)
.+...+.|...+.+-. . ==+..|.+..++.|+++++ -+|..+...+....+ -+.+|.| =|..+
T Consensus 56 C~~k~t~~g~~C~~Cg-~--C~Ig~l~~lae~~g~~v~i----~~Ggt~ar~~ik~~~-p~~iigV---------AC~~d 118 (158)
T PF01976_consen 56 CPAKITSDGYNCKRCG-K--CDIGDLKKLAEKYGYKVYI----ATGGTLARKIIKEYR-PKAIIGV---------ACERD 118 (158)
T ss_pred CCCccCCCCCcCCCCC-C--CchhHHHHHHHHcCCEEEE----EcChHHHHHHHHHhC-CCEEEEE---------echHH
Confidence 4444455666655322 1 2356788888899999998 345544434333322 2223222 19899
Q ss_pred HHHHHHhhhhCCCEEEEEEee
Q 044488 100 LLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 100 l~~~~~~~~~~~~~IiPI~~~ 120 (125)
|...+......+..++-|+.+
T Consensus 119 L~~g~~~~~~~~ip~~gV~l~ 139 (158)
T PF01976_consen 119 LISGIQDLKPLGIPVQGVLLD 139 (158)
T ss_pred HHHHHHHHhhcCCCeeEEEeC
Confidence 998887655555677777654
No 38
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=49.53 E-value=59 Score=26.83 Aligned_cols=63 Identities=16% Similarity=0.137 Sum_probs=39.1
Q ss_pred eeeEEEecee--ccCcccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCcc
Q 044488 25 KHGIFLSFRG--EDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYA 91 (125)
Q Consensus 25 ~yDVFISys~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~ 91 (125)
.++|+|---. .+.....+..|...|++.|++|.+|.+ -..|. .+..+-..---+++|+.++-+
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~----ki~~a~~~giP~~iiVG~~e~ 410 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGA----KFATMDLIGLPWQIIVGPKGL 410 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhH----HHHHHHHcCCCEEEEECCccc
Confidence 3788876532 222346788999999999999999875 44444 343432222235666666544
No 39
>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=48.81 E-value=42 Score=24.29 Aligned_cols=47 Identities=28% Similarity=0.345 Sum_probs=32.8
Q ss_pred HHccCCeeeEE-eCC--C-CCC-ccchHHHHHHHHhcce-----EEEEecCCccCch
Q 044488 48 ALCHNNIETFI-DND--L-KRG-DEISQSLLDTIEASTI-----SIIIFSERYASSG 94 (125)
Q Consensus 48 ~L~~~Gi~vf~-d~~--~-~~G-~~~~~~i~~aI~~s~~-----~IvvlS~~~~~S~ 94 (125)
.|.+.||+..+ |.+ + .+. ..+.+++.+.+++++. -|+|+|.+.-.++
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~ 91 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSD 91 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCccc
Confidence 38889999654 554 5 344 5677888888888773 2889998864433
No 40
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=48.67 E-value=88 Score=22.89 Aligned_cols=75 Identities=13% Similarity=0.064 Sum_probs=50.1
Q ss_pred cHHHHHHHHHccCCeeeEEeCC-------CCC---CccchHHHHHHHHhcceEEEEecCCc-cCchhhHHHHHHHHHhhh
Q 044488 40 NFTSHLYSALCHNNIETFIDND-------LKR---GDEISQSLLDTIEASTISIIIFSERY-ASSGWCLDELLKILECKH 108 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~-------~~~---G~~~~~~i~~aI~~s~~~IvvlS~~~-~~S~wc~~El~~~~~~~~ 108 (125)
...+.|.+.|.+.|+.++.-.+ ..+ +..|...=...|++|+++|+++.+-= ...+-...|+..+..+.
T Consensus 20 ~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~Alg- 98 (172)
T COG3613 20 ELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAIALG- 98 (172)
T ss_pred HHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHHHcC-
Confidence 4667788889999999887422 112 12233444567889999999998765 12334667999988644
Q ss_pred hCCCEEEEEE
Q 044488 109 DYGQIVIPVF 118 (125)
Q Consensus 109 ~~~~~IiPI~ 118 (125)
+.+++.+
T Consensus 99 ---KPv~~~~ 105 (172)
T COG3613 99 ---KPVYAYR 105 (172)
T ss_pred ---CceEEEe
Confidence 4777765
No 41
>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=48.60 E-value=60 Score=20.68 Aligned_cols=55 Identities=22% Similarity=0.264 Sum_probs=37.6
Q ss_pred HHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHH
Q 044488 45 LYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKI 103 (125)
Q Consensus 45 L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~ 103 (125)
+...++..|+..+... ...+...+.+.+.+++-++.|++++.++... -.+++...
T Consensus 9 ~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~~ 63 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDEY 63 (95)
T ss_dssp HHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHHH
T ss_pred HHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHHH
Confidence 4455677899888754 1335566677777778899999999998873 33344444
No 42
>PF11201 DUF2982: Protein of unknown function (DUF2982); InterPro: IPR021367 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=48.46 E-value=17 Score=26.03 Aligned_cols=28 Identities=14% Similarity=0.132 Sum_probs=20.1
Q ss_pred CCeeeEEEeceeccC-cccHHHHHHHHHc
Q 044488 23 SNKHGIFLSFRGEDT-RDNFTSHLYSALC 50 (125)
Q Consensus 23 ~~~yDVFISys~~D~-~~~fv~~L~~~L~ 50 (125)
...||+|||.+.-|. -.+|+..|++.+.
T Consensus 123 ~lGYdlfi~~~~LDR~~~eFv~Llr~~~a 151 (152)
T PF11201_consen 123 LLGYDLFIPASDLDRDPEEFVGLLRRYQA 151 (152)
T ss_pred hcCceEEeEhhhccCCHHHHHHHHHHHHh
Confidence 357999999987664 2578877776543
No 43
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=48.21 E-value=27 Score=27.05 Aligned_cols=42 Identities=19% Similarity=0.217 Sum_probs=27.7
Q ss_pred HHHHHHHHHccCCeeeEEeCCCCCCc---cchHHHHHHHHhcceEEE
Q 044488 41 FTSHLYSALCHNNIETFIDNDLKRGD---EISQSLLDTIEASTISII 84 (125)
Q Consensus 41 fv~~L~~~L~~~Gi~vf~d~~~~~G~---~~~~~i~~aI~~s~~~Iv 84 (125)
=+.+|.+.|...|+.+..-. ..|| .|.+.+..++++++++|+
T Consensus 22 Na~~la~~L~~~G~~v~~~~--~VgD~~~~I~~~l~~a~~r~D~vI~ 66 (255)
T COG1058 22 NAAFLADELTELGVDLARIT--TVGDNPDRIVEALREASERADVVIT 66 (255)
T ss_pred hHHHHHHHHHhcCceEEEEE--ecCCCHHHHHHHHHHHHhCCCEEEE
Confidence 35689999999999987643 3344 345566666666555444
No 44
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=48.14 E-value=24 Score=23.29 Aligned_cols=60 Identities=12% Similarity=0.096 Sum_probs=36.2
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeC--------C-C------CC---CccchHHHHHHHHhcceEEEEecCC
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDN--------D-L------KR---GDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~--------~-~------~~---G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
||||.+..|. .-...+.+.|...|++++--. . + +. |..-..++.+.|++=.+-+||-.|+
T Consensus 3 vlisv~~~dk--~~~~~~a~~l~~~G~~i~aT~gTa~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~ 80 (116)
T cd01423 3 ILISIGSYSK--PELLPTAQKLSKLGYKLYATEGTADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPS 80 (116)
T ss_pred EEEecCcccc--hhHHHHHHHHHHCCCEEEEccHHHHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCC
Confidence 7999987764 334477778888888876421 0 1 01 1111256778888766666666554
No 45
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=47.79 E-value=51 Score=27.03 Aligned_cols=61 Identities=11% Similarity=0.183 Sum_probs=39.0
Q ss_pred CeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 24 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 24 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
...||+|-+-+.+. ...+-.+...|+++|+++-+|. .+..+..++..|-+.--..++++.+
T Consensus 324 ~~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~---~~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 324 QSIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDL---SSSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEee---CCCCHHHHHHHHHHcCCCEEEEEec
Confidence 34789998744332 3567789999999999988763 2344666666665433334555554
No 46
>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=47.26 E-value=95 Score=23.98 Aligned_cols=60 Identities=8% Similarity=0.076 Sum_probs=32.0
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEEEEec
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISIIIFS 87 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~IvvlS 87 (125)
.|.+-|...+-.+..+..+...+++.|+.+-....+.++ .++.. +...|.+++.=++++.
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~-~i~~l~~~~~d~v~~~ 206 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTS-EVLKLKAANPDAILPA 206 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHH-HHHHHHhcCCCEEEEc
Confidence 455555332223456667777778888777654445544 34443 4445555554444443
No 47
>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=47.23 E-value=33 Score=25.12 Aligned_cols=43 Identities=12% Similarity=0.147 Sum_probs=33.9
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEE
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISI 83 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~I 83 (125)
.-...|..+.+.+|+-+|.|.+ .+|+.|...|.+.+-++...-
T Consensus 36 ~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~khaf 78 (174)
T TIGR00334 36 ETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENCF 78 (174)
T ss_pred HHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEEe
Confidence 4566788888899999999876 588888888888887777543
No 48
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=46.03 E-value=36 Score=29.04 Aligned_cols=46 Identities=15% Similarity=0.320 Sum_probs=32.9
Q ss_pred CeeeEEEecee-c-cCcccHHHHHHHHHccCCeeeEEeCC-CCCCccch
Q 044488 24 NKHGIFLSFRG-E-DTRDNFTSHLYSALCHNNIETFIDND-LKRGDEIS 69 (125)
Q Consensus 24 ~~yDVFISys~-~-D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~ 69 (125)
..++|+|---. + +.....+..|+..|+..|+++.+|++ -.+|..+.
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~ 515 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFA 515 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHH
Confidence 45899887543 2 22346788999999999999999976 45555443
No 49
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=46.02 E-value=24 Score=21.57 Aligned_cols=17 Identities=6% Similarity=-0.084 Sum_probs=7.2
Q ss_pred HHHHHHHHHccCCeeeE
Q 044488 41 FTSHLYSALCHNNIETF 57 (125)
Q Consensus 41 fv~~L~~~L~~~Gi~vf 57 (125)
.+..+.+.|...|+.++
T Consensus 59 a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 59 AALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHHHHHHHCCCeEE
Confidence 34444444444444433
No 50
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=45.74 E-value=57 Score=27.96 Aligned_cols=60 Identities=12% Similarity=0.246 Sum_probs=39.3
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
..+|+|-.-+++ ....+..|...|++.|++|-+|.. +..+..++..|-..---.++|+.+
T Consensus 438 P~qV~Iipi~e~-~~~~A~~Ia~~LR~~GirVelD~~---~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDE-VNEYAEKVLNDMRKRRIRAEIDYA---GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHH-HHHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECh
Confidence 368887765443 346788999999999999999853 445666666653332234455544
No 51
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=45.69 E-value=82 Score=20.53 Aligned_cols=31 Identities=13% Similarity=0.210 Sum_probs=20.6
Q ss_pred hHHHHHHHHhc-ceEEEEecCCccCchhhHHHHH
Q 044488 69 SQSLLDTIEAS-TISIIIFSERYASSGWCLDELL 101 (125)
Q Consensus 69 ~~~i~~aI~~s-~~~IvvlS~~~~~S~wc~~El~ 101 (125)
.+++.+|+++. +.+++.|...+. +||.....
T Consensus 3 ~~~~~~a~~~~~k~vlv~f~a~wC--~~C~~~~~ 34 (125)
T cd02951 3 YEDLAEAAADGKKPLLLLFSQPGC--PYCDKLKR 34 (125)
T ss_pred HHHHHHHHHcCCCcEEEEEeCCCC--HHHHHHHH
Confidence 35677888888 777777765554 56765443
No 52
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=45.09 E-value=34 Score=28.15 Aligned_cols=55 Identities=27% Similarity=0.547 Sum_probs=37.2
Q ss_pred CCCCccchHHHHHHHHhcceEEEEecCCcc----CchhhHH-HHHHHH-HhhhhCCCEEEEEEe
Q 044488 62 LKRGDEISQSLLDTIEASTISIIIFSERYA----SSGWCLD-ELLKIL-ECKHDYGQIVIPVFC 119 (125)
Q Consensus 62 ~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~----~S~wc~~-El~~~~-~~~~~~~~~IiPI~~ 119 (125)
+.|...+.. ..|..+|--++|--..|+ .|..|++ |+...+ ++-.++++++||||-
T Consensus 181 mTpDrHLGa---A~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 181 MTPDRHLGA---AWIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred CCcccccch---hhhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeee
Confidence 455444443 245667777777777776 4888977 665544 566678999999993
No 53
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=44.33 E-value=1.6e+02 Score=23.25 Aligned_cols=28 Identities=11% Similarity=-0.043 Sum_probs=13.8
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCee
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIE 55 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~ 55 (125)
|+|-|....-.+.+++.+.+.|+..|.+
T Consensus 151 v~ii~~~~~yg~~~~~~~~~~l~~~G~~ 178 (366)
T COG0683 151 VAIIGDDYAYGEGLADAFKAALKALGGE 178 (366)
T ss_pred EEEEeCCCCcchhHHHHHHHHHHhCCCe
Confidence 4443433322345555555666666655
No 54
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=44.30 E-value=65 Score=28.01 Aligned_cols=60 Identities=8% Similarity=0.165 Sum_probs=37.4
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
++|+|---+.+ ....+..|...|+..|++|.+|.+ +..+...+.+|-..---+++|+.++
T Consensus 500 ~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr---~~slgkKir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 500 TQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDR---DESLGKKIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred ceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 78877665433 346889999999999999999875 2334444444422222244444433
No 55
>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=43.76 E-value=80 Score=20.67 Aligned_cols=60 Identities=15% Similarity=0.230 Sum_probs=37.7
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeC--------C------CCCCcc-chHHHHHHHHh-cceEEEEecCC
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDN--------D------LKRGDE-ISQSLLDTIEA-STISIIIFSER 89 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~--------~------~~~G~~-~~~~i~~aI~~-s~~~IvvlS~~ 89 (125)
||||-+..|.. .++ .+.+.|.+.|++++--. . +..+.. -.+++.+.|.+ -++-+||..|+
T Consensus 2 i~isv~d~~K~-~~~-~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHVKA-MLV-DLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccHH-HHH-HHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 78888766642 343 66677777788775321 0 111100 12578899999 89988888776
No 56
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=43.48 E-value=89 Score=20.18 Aligned_cols=61 Identities=18% Similarity=0.290 Sum_probs=37.8
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC----CC-CCc---------cchHHHHHHHHhcceEEEEecCC
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND----LK-RGD---------EISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~----~~-~G~---------~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
.||+|.+..|.. .++ .+.+.|.+.|++++--.. ++ .|- .-..++.+.|.+-++-++|-.++
T Consensus 2 ~vl~s~~~~~k~-~~~-~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDKP-EAV-EIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcHh-HHH-HHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 388999877642 344 666777777888764210 00 110 11257888888888888777665
No 57
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=43.42 E-value=66 Score=27.61 Aligned_cols=61 Identities=7% Similarity=0.137 Sum_probs=40.6
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
..||+|-.-+.. ....+..|...|++.|++|-+|.. +..+..++..|-..---+++|+.++
T Consensus 539 p~~v~Ii~~~~~-~~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kki~~A~~~g~~~~iiiG~~ 599 (638)
T PRK00413 539 PVQVVVLPITDK-HADYAKEVAKKLKAAGIRVEVDLR---NEKIGYKIREAQLQKVPYMLVVGDK 599 (638)
T ss_pred cceEEEEEeChh-HHHHHHHHHHHHHhCCCEEEEECC---CCCHhHHHHHhhccCCCEEEEEcch
Confidence 368888765433 246788999999999999999853 4455556666544333356666554
No 58
>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=42.17 E-value=1.6e+02 Score=22.62 Aligned_cols=76 Identities=17% Similarity=0.228 Sum_probs=49.4
Q ss_pred ccHHHHHHHHHccCCeeeE-EeCC---CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHh-hhhCCCE
Q 044488 39 DNFTSHLYSALCHNNIETF-IDND---LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILEC-KHDYGQI 113 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf-~d~~---~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~-~~~~~~~ 113 (125)
..+++.|.+.|.+.|+.+- .+.. +-.|--..=.... -...++=||.+|.+...+.....+|..++.. .++.+.+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~-~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~~r 168 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITACTLMG-IGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQNKR 168 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHHHHHHc-ccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 4799999999999999885 6552 4455443311110 1135666777888876677777899988874 3443445
Q ss_pred EE
Q 044488 114 VI 115 (125)
Q Consensus 114 Ii 115 (125)
|.
T Consensus 169 V~ 170 (271)
T cd07373 169 VA 170 (271)
T ss_pred EE
Confidence 44
No 59
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=41.78 E-value=27 Score=27.41 Aligned_cols=31 Identities=35% Similarity=0.536 Sum_probs=21.8
Q ss_pred hhhHHHHHHHHHh---h-hhCCCEEEEEEeecCCC
Q 044488 94 GWCLDELLKILEC---K-HDYGQIVIPVFCRVDPS 124 (125)
Q Consensus 94 ~wc~~El~~~~~~---~-~~~~~~IiPI~~~v~ps 124 (125)
+-|-+||..+... . .+.+..++|||+-++|+
T Consensus 153 DICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 153 DICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred CcChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 5688888765432 2 23566777999999984
No 60
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=41.67 E-value=90 Score=24.18 Aligned_cols=30 Identities=27% Similarity=0.141 Sum_probs=23.7
Q ss_pred CCccCchhhHHHHHHHHHhhhhCCCEEEEE
Q 044488 88 ERYASSGWCLDELLKILECKHDYGQIVIPV 117 (125)
Q Consensus 88 ~~~~~S~wc~~El~~~~~~~~~~~~~IiPI 117 (125)
.+|+.-..|.+||..+-+..++.+-++|=|
T Consensus 213 s~Ya~~~~i~~El~~A~~l~~~~~~pvIdv 242 (255)
T PF03618_consen 213 SSYADLERIEEELEYAERLFRKLGCPVIDV 242 (255)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHcCCCEEEC
Confidence 578999999999999888776666666543
No 61
>COG0399 WecE Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]
Probab=41.55 E-value=1.6e+02 Score=24.03 Aligned_cols=68 Identities=18% Similarity=0.142 Sum_probs=41.8
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYG 111 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~ 111 (125)
..|+......|......||+|-+...+.--.+.|+++|......|+.+ ++...+- ++..+++.+++.+
T Consensus 82 ~TfvATan~i~~~Ga~PVFvDid~~T~nid~~~ie~aIt~~tKAIipV--hl~G~~~---dm~~i~~la~~~~ 149 (374)
T COG0399 82 FTFVATANAVLLVGAKPVFVDIDPDTLNIDPDLIEAAITPRTKAIIPV--HLAGQPC---DMDAIMALAKRHG 149 (374)
T ss_pred CchHHHHHHHHHcCCeEEEEecCCcccCCCHHHHHHHcccCCeEEEEe--hhccCCC---CHHHHHHHHHHcC
Confidence 468888888888777889998764444434467888998865555543 4444333 3334444444444
No 62
>PLN03194 putative disease resistance protein; Provisional
Probab=41.53 E-value=1.4e+02 Score=22.04 Aligned_cols=64 Identities=13% Similarity=0.238 Sum_probs=43.4
Q ss_pred cCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 044488 51 HNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVF 118 (125)
Q Consensus 51 ~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~ 118 (125)
.+.+.||+.-+ -.....|...+.++++...+-+.+-........--..+|..+++..+ ..|.||
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSr----i~IvVf 88 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCK----VGVAVF 88 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCe----EEEEEE
Confidence 45788999754 33344688899999999987777755555555444556766665443 677776
No 63
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=40.89 E-value=65 Score=25.17 Aligned_cols=41 Identities=15% Similarity=0.023 Sum_probs=22.0
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCC---ccchHHHHHHHHhcc
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRG---DEISQSLLDTIEAST 80 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G---~~~~~~i~~aI~~s~ 80 (125)
...+..+.++|++.|+.+-....+.++ ..+...+. .|..+.
T Consensus 152 ~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~-~i~~~~ 195 (389)
T cd06352 152 FFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQ-DIKRRS 195 (389)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHH-Hhhhcc
Confidence 355667777777777766543334444 34444443 344443
No 64
>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=40.46 E-value=65 Score=22.17 Aligned_cols=39 Identities=21% Similarity=0.233 Sum_probs=19.5
Q ss_pred cHHHHHHHHHccCCeeeEEeCC-CCC-----CccchHHHHHHHHh
Q 044488 40 NFTSHLYSALCHNNIETFIDND-LKR-----GDEISQSLLDTIEA 78 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~-~~~-----G~~~~~~i~~aI~~ 78 (125)
.+...+.+.+.+..-.+++-.- +.+ +..+.+.|.++.++
T Consensus 21 ~~~~~i~~~I~~A~~~I~i~~~~~~~~~~~~~~~l~~~L~~a~~r 65 (176)
T cd00138 21 SDLDALLEAISNAKKSIYIASFYLSPLITEYGPVILDALLAAARR 65 (176)
T ss_pred hHHHHHHHHHHhhheEEEEEEeEecccccccchHHHHHHHHHHHC
Confidence 3455566666544444444332 333 45555566666553
No 65
>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=40.43 E-value=1e+02 Score=19.93 Aligned_cols=29 Identities=7% Similarity=0.116 Sum_probs=18.8
Q ss_pred CCc-cchHHHHHHHHhcceEEEEecCCccC
Q 044488 64 RGD-EISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 64 ~G~-~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
+|. .+.......+++++.+|++++..-..
T Consensus 57 ~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~ 86 (159)
T cd00154 57 AGQERFRSITPSYYRGAHGAILVYDITNRE 86 (159)
T ss_pred CChHHHHHHHHHHhcCCCEEEEEEECCCHH
Confidence 443 33444556777888888888876543
No 66
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=40.09 E-value=1e+02 Score=20.03 Aligned_cols=43 Identities=7% Similarity=0.264 Sum_probs=25.4
Q ss_pred HHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccC
Q 044488 48 ALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 48 ~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
.++..|+..++.. ...+...+.+.+.+.+-++.|++++.+.+.
T Consensus 14 GFrLaGi~~~~~~--~~~ee~~~~l~~l~~~~d~gII~Ite~~~~ 56 (100)
T PRK02228 14 GFRLAGIRKVYEV--PDDEKLDEAVEEVLEDDDVGILVMHDDDLE 56 (100)
T ss_pred HHHHcCCceEEee--CCHHHHHHHHHHHhhCCCEEEEEEehhHhH
Confidence 3455677644311 111345555555556777888988888765
No 67
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=39.98 E-value=1.6e+02 Score=22.51 Aligned_cols=58 Identities=19% Similarity=0.302 Sum_probs=31.7
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCC---ccchHHHHHHHHh--cceEEEEe
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRG---DEISQSLLDTIEA--STISIIIF 86 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G---~~~~~~i~~aI~~--s~~~Ivvl 86 (125)
|.+-|...+....++..+.+.|++.|+.+-....+.+| ..+...+ ..|.. .+++++..
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~~dvvi~~~ 200 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDAL-KKLKEKDSRVIVVHF 200 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHH-HHHhcCCCeEEEEEC
Confidence 44545433333456777888888888877654445555 3444343 34443 44444433
No 68
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=39.72 E-value=1.4e+02 Score=23.08 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=10.4
Q ss_pred ccHHHHHHHHHccCCeeeE
Q 044488 39 DNFTSHLYSALCHNNIETF 57 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf 57 (125)
+..+..+.+.|++.|+.+-
T Consensus 152 ~~~~~~~~~~~~~~G~~v~ 170 (347)
T cd06335 152 RSNRKDLTAALAARGLKPV 170 (347)
T ss_pred hhHHHHHHHHHHHcCCeeE
Confidence 3455555556666665543
No 69
>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=39.66 E-value=99 Score=20.93 Aligned_cols=46 Identities=7% Similarity=0.029 Sum_probs=29.3
Q ss_pred HHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 044488 70 QSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVF 118 (125)
Q Consensus 70 ~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~ 118 (125)
..+.+.+..++++|+|++.+- .|...+...+.+..+....+.|-|+
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 557778899999999997665 4454455555554444444455554
No 70
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=39.37 E-value=83 Score=26.70 Aligned_cols=61 Identities=5% Similarity=0.209 Sum_probs=39.6
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
.+||+|---+++ ....+..|...|++.|++|-+|.+ +..+...+..|-..---+++|+.++
T Consensus 476 p~~v~Ii~~~~~-~~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 476 PVQVVIIPVADA-HNEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CccEEEEEeChH-HHHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEech
Confidence 368988664433 245788999999999999999864 3445556666544333344555443
No 71
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=39.11 E-value=1.3e+02 Score=23.47 Aligned_cols=10 Identities=10% Similarity=0.195 Sum_probs=4.1
Q ss_pred hHHHHHHHHh
Q 044488 69 SQSLLDTIEA 78 (125)
Q Consensus 69 ~~~i~~aI~~ 78 (125)
.+.+.++++.
T Consensus 171 ~~~~~~~~~~ 180 (377)
T cd06379 171 QKRFETLLEE 180 (377)
T ss_pred HHHHHHHHHh
Confidence 3344444443
No 72
>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=39.07 E-value=1.2e+02 Score=20.34 Aligned_cols=51 Identities=12% Similarity=0.051 Sum_probs=23.3
Q ss_pred HHHHHHccCCeeeEE-eCCCCCCccchHHHHHHHHhc---ceEEEEecCCccCchh
Q 044488 44 HLYSALCHNNIETFI-DNDLKRGDEISQSLLDTIEAS---TISIIIFSERYASSGW 95 (125)
Q Consensus 44 ~L~~~L~~~Gi~vf~-d~~~~~G~~~~~~i~~aI~~s---~~~IvvlS~~~~~S~w 95 (125)
++..+++...+-+++ |-+-..+. ....+.+.+... .-.|+|+++.=...++
T Consensus 4 ~~~~~i~~aD~vl~ViD~~~p~~~-~~~~l~~~l~~~~~~k~~iivlNK~DL~~~~ 58 (141)
T cd01857 4 QLWRVVERSDIVVQIVDARNPLLF-RPPDLERYVKEVDPRKKNILLLNKADLLTEE 58 (141)
T ss_pred HHHHHHhhCCEEEEEEEccCCccc-CCHHHHHHHHhccCCCcEEEEEechhcCCHH
Confidence 455666665544443 43311111 122455555433 4566667655443333
No 73
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=38.68 E-value=81 Score=21.05 Aligned_cols=10 Identities=10% Similarity=0.418 Sum_probs=4.3
Q ss_pred eeEEEeceec
Q 044488 26 HGIFLSFRGE 35 (125)
Q Consensus 26 yDVFISys~~ 35 (125)
.||-|=|+..
T Consensus 68 ~DVvIDfT~p 77 (124)
T PF01113_consen 68 ADVVIDFTNP 77 (124)
T ss_dssp -SEEEEES-H
T ss_pred CCEEEEcCCh
Confidence 5555555533
No 74
>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=37.68 E-value=1.8e+02 Score=22.17 Aligned_cols=83 Identities=13% Similarity=0.106 Sum_probs=49.1
Q ss_pred EeceeccCcccHHHHHHHHHccCCeeeEE--eCC--CCCCccchHHHHHHHHhcceEEEEecCCc-cCchhhHHHHHHHH
Q 044488 30 LSFRGEDTRDNFTSHLYSALCHNNIETFI--DND--LKRGDEISQSLLDTIEASTISIIIFSERY-ASSGWCLDELLKIL 104 (125)
Q Consensus 30 ISys~~D~~~~fv~~L~~~L~~~Gi~vf~--d~~--~~~G~~~~~~i~~aI~~s~~~IvvlS~~~-~~S~wc~~El~~~~ 104 (125)
+.|.-.- ...++..|.+.|...|+.+-. +.. +-.|--+.=.... .+.++-++.+|=+. ..+..-..+|..++
T Consensus 79 ~~y~~~g-~~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~--p~~~ipvV~vs~~~~~~~~~~~~~lG~al 155 (268)
T cd07371 79 LDYSINV-DVELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLMR--PGTDIPPVVISANNLYLSGEETEGEMDLA 155 (268)
T ss_pred eeecCCC-CHHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHhc--CCCCCCeEEEEecCcCCCHHHHHHHHHHH
Confidence 5554332 247999999999999998765 222 5566554422221 23555566666333 35666677888888
Q ss_pred Hhh-hhCCCEEE
Q 044488 105 ECK-HDYGQIVI 115 (125)
Q Consensus 105 ~~~-~~~~~~Ii 115 (125)
... ++.+++|.
T Consensus 156 ~~~l~~~~~rv~ 167 (268)
T cd07371 156 GKATRDAGKRVA 167 (268)
T ss_pred HHHHHHcCCcEE
Confidence 533 44334443
No 75
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=36.83 E-value=60 Score=25.62 Aligned_cols=95 Identities=21% Similarity=0.329 Sum_probs=64.7
Q ss_pred CCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC---CCCCccchHHHHHHHHh--cceEEEEecCCccCchhhH
Q 044488 23 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND---LKRGDEISQSLLDTIEA--STISIIIFSERYASSGWCL 97 (125)
Q Consensus 23 ~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~---~~~G~~~~~~i~~aI~~--s~~~IvvlS~~~~~S~wc~ 97 (125)
+-++.+=+||.++|. .+++....-|...|+.+|+|-- =.-|.++-+ +..-|.+ .-..+...+.+|-.-.|..
T Consensus 4 ~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~~~~ 80 (329)
T COG4916 4 NVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKMWTN 80 (329)
T ss_pred chheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcCCCc
Confidence 345667789988884 6888888888899999988631 123444442 2223333 3345677799999999999
Q ss_pred HHHHHHHHhhh-hCCCEEEEEEee
Q 044488 98 DELLKILECKH-DYGQIVIPVFCR 120 (125)
Q Consensus 98 ~El~~~~~~~~-~~~~~IiPI~~~ 120 (125)
.|++.+..+++ +....++|-+++
T Consensus 81 ~~~~~~~a~~~~~~~~~~~~~~~~ 104 (329)
T COG4916 81 HERQAMQARAFQEHQEYILPARFD 104 (329)
T ss_pred HHHHHHHHHHhhhccEEehhhhhc
Confidence 99998877554 455577777765
No 76
>PF09152 DUF1937: Domain of unknown function (DUF1937); InterPro: IPR015235 This entry is represented by Bacteriophage N15, Gp57. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a set of hypothetical bacterial and phage proteins whose exact function has not, as yet, been described. ; PDB: 1T1J_A.
Probab=36.35 E-value=1.1e+02 Score=20.97 Aligned_cols=61 Identities=11% Similarity=-0.007 Sum_probs=36.8
Q ss_pred HHHccCCeeeEEe--------CC-CCC-----CccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhh
Q 044488 47 SALCHNNIETFID--------ND-LKR-----GDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 107 (125)
Q Consensus 47 ~~L~~~Gi~vf~d--------~~-~~~-----G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~ 107 (125)
..|-+.|+.+|-- -. +.. ++-|.+--..-++.|+.+|++-.|.+..|.-...|+..+.+..
T Consensus 34 a~l~~~G~~~fSpv~~sH~~~~~~~~~~~~~~~~~W~~~d~~~L~~c~~lvV~~i~GW~~S~Gi~~Ei~~a~~~~ 108 (116)
T PF09152_consen 34 AELLKAGHAAFSPVVMSHPINFELLGDDDPLIQKLWEDWDRPFLDACDELVVLDIPGWDDSEGIWAEIEAAEEMG 108 (116)
T ss_dssp HHHHHTT-EEEEHHHHHHHHHCCGTTS-HHHHHHHHHHHHHHHHHH-SEEEE---TTGGG-HHHHHHHHHHHHTT
T ss_pred HHHHhcCCeeEeccccccccchhcccccCcchhHHHHHHhHHHHHhcceeEEecCCCccccccHHHHHHHHHHcC
Confidence 3455689988853 01 212 2234444445667899999999999999999999999987643
No 77
>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=36.30 E-value=61 Score=22.27 Aligned_cols=47 Identities=11% Similarity=0.052 Sum_probs=27.5
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEEEEe
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISIIIF 86 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~Ivvl 86 (125)
.....|.+.|++.|+.+..-.-+... +.+.+.+.+++++++++|..=
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliIttG 74 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTTG 74 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEECC
Confidence 34557888899999887643222222 334555666666566655543
No 78
>PLN02530 histidine-tRNA ligase
Probab=36.19 E-value=96 Score=25.94 Aligned_cols=60 Identities=7% Similarity=-0.001 Sum_probs=39.9
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
..||+|.+-.++. ...+..+...|+++|+++-++.. +..+...+..|-+.--..++++..
T Consensus 401 ~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~~---~~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 401 QVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVLE---PKKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEecC---CCCHHHHHHHHHHCCCCEEEEEch
Confidence 4689998754442 35677899999999999977632 244566666665544445666654
No 79
>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=35.66 E-value=1.2e+02 Score=22.57 Aligned_cols=61 Identities=11% Similarity=0.058 Sum_probs=38.4
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCch
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSG 94 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~ 94 (125)
-+|++.|-.+.. .++-.|+.. ..| ||+|. -.+..+..++...+-.+.+-|+++||.--.-+
T Consensus 103 ~i~tr~Se~E~~-~~~~~~~~~--~~~--VW~D~--f~~~~~~~~~~~~~~~~~~~~c~VSpELh~~~ 163 (192)
T cd08584 103 RTATRVSEYEPI-PTALSLYEK--ADW--VWIDS--FTSLWLDNDLILKLLKAGKKICLVSPELHGRD 163 (192)
T ss_pred eeEEeecccccc-hHHHHhhcc--ccE--EEEec--ccccCCCHHHHHHHHHCCcEEEEECHHHcCCC
Confidence 577777655432 222122222 122 89986 34566777777888888999999999876533
No 80
>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=35.61 E-value=82 Score=19.92 Aligned_cols=20 Identities=5% Similarity=0.082 Sum_probs=14.9
Q ss_pred HHHHHhcceEEEEecCCccC
Q 044488 73 LDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 73 ~~aI~~s~~~IvvlS~~~~~ 92 (125)
...+..++.+|+|++..-..
T Consensus 68 ~~~~~~~d~~ilv~D~s~~~ 87 (119)
T PF08477_consen 68 QFFLKKADAVILVYDLSDPE 87 (119)
T ss_dssp HHHHHHSCEEEEEEECCGHH
T ss_pred cchhhcCcEEEEEEcCCChH
Confidence 34589999999999765433
No 81
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=35.52 E-value=1e+02 Score=24.85 Aligned_cols=45 Identities=20% Similarity=0.420 Sum_probs=29.6
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHH
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE 77 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~ 77 (125)
.+|+-|.|+.+ .|...|.++-- .||.+++|. .|.++.+.....+.
T Consensus 196 GfD~~idyk~~----d~~~~L~~a~P-~GIDvyfeN---VGg~v~DAv~~~ln 240 (340)
T COG2130 196 GFDAGIDYKAE----DFAQALKEACP-KGIDVYFEN---VGGEVLDAVLPLLN 240 (340)
T ss_pred CCceeeecCcc----cHHHHHHHHCC-CCeEEEEEc---CCchHHHHHHHhhc
Confidence 58999999765 37777766544 699999873 44445455554444
No 82
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=35.11 E-value=1.3e+02 Score=23.37 Aligned_cols=47 Identities=15% Similarity=0.143 Sum_probs=36.2
Q ss_pred CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhh
Q 044488 62 LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHD 109 (125)
Q Consensus 62 ~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~ 109 (125)
+.|.+.|...+. +..+++.+|++..|.....+|-+.+...++...+.
T Consensus 139 LtPwe~IekRl~-aAA~adfVi~~YNP~s~~R~~~~~~a~eil~~~r~ 185 (249)
T COG1010 139 LTPWEVIEKRLR-AAAEADFVIALYNPISKRRPEQLGRAFEILREHRS 185 (249)
T ss_pred CCcHHHHHHHHH-HHhhCCEEEEEECCccccchHHHHHHHHHHHHhcC
Confidence 666666665543 44679999999999999999999988887765553
No 83
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=34.69 E-value=1.5e+02 Score=23.83 Aligned_cols=16 Identities=6% Similarity=-0.116 Sum_probs=7.2
Q ss_pred HHHHHHHHHccCCeee
Q 044488 41 FTSHLYSALCHNNIET 56 (125)
Q Consensus 41 fv~~L~~~L~~~Gi~v 56 (125)
.+..|.++|+++|+.+
T Consensus 188 ~~~~f~~~~~~~GicI 203 (403)
T cd06361 188 ALETFIIQAEANGVCI 203 (403)
T ss_pred HHHHHHHHHHHCCeEE
Confidence 3444444444444433
No 84
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=34.45 E-value=1.1e+02 Score=26.53 Aligned_cols=63 Identities=5% Similarity=0.114 Sum_probs=41.3
Q ss_pred CeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCC
Q 044488 24 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 89 (125)
Q Consensus 24 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~ 89 (125)
...+|+|-.-+++.....+..|...|++.|++|-+|.. +..+..++..|-..---.++++.++
T Consensus 540 ap~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~~---~~sl~kq~k~A~k~g~~~~iiiG~~ 602 (639)
T PRK12444 540 APVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDER---DEKLGYKIREAQMQKIPYVLVIGDK 602 (639)
T ss_pred CCceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEcch
Confidence 34788877655411246788999999999999999853 4556666666644433455555543
No 85
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=34.20 E-value=1.6e+02 Score=22.44 Aligned_cols=68 Identities=18% Similarity=0.169 Sum_probs=41.9
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYG 111 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~ 111 (125)
.....|.+.++.+| .-|+|-++..+.... .+.+.-.+..=+|+|-+-+++-+..+|+..++..+...+
T Consensus 79 ~~i~ll~~la~~~~-~d~iDiEl~~~~~~~---~~~~~~~~~~~vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 79 EYIELLKKLAELNG-PDYIDIELSSPEDDV---KEIIKFAKKHGVIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHhhcC-CCEEEEEccCcchhH---HHHHhccccCCEEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 45666666666666 567776633333222 223332222117889999998998899998888765433
No 86
>PF13289 SIR2_2: SIR2-like domain
Probab=33.99 E-value=1.1e+02 Score=20.11 Aligned_cols=12 Identities=33% Similarity=0.376 Sum_probs=5.9
Q ss_pred HHHHHHHHHccC
Q 044488 41 FTSHLYSALCHN 52 (125)
Q Consensus 41 fv~~L~~~L~~~ 52 (125)
+-..|...|..+
T Consensus 76 ~~~~l~~~l~~~ 87 (143)
T PF13289_consen 76 FPNFLRSLLRSK 87 (143)
T ss_pred HHHHHHHHHcCC
Confidence 444555555444
No 87
>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=33.52 E-value=55 Score=24.00 Aligned_cols=46 Identities=13% Similarity=0.104 Sum_probs=32.3
Q ss_pred eeeEEEeceeccC-----cccHHHHHHHHHccCCeeeEEeCC--CCCCccchH
Q 044488 25 KHGIFLSFRGEDT-----RDNFTSHLYSALCHNNIETFIDND--LKRGDEISQ 70 (125)
Q Consensus 25 ~yDVFISys~~D~-----~~~fv~~L~~~L~~~Gi~vf~d~~--~~~G~~~~~ 70 (125)
.++|+|---..+. -...+..|...|+..|+++.+|.+ ..+|..+..
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHH
Confidence 4778776533220 235788899999999999999875 377776653
No 88
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=33.17 E-value=95 Score=25.23 Aligned_cols=55 Identities=13% Similarity=0.239 Sum_probs=39.9
Q ss_pred Eecee--ccCcccHHHHHHHHHccCCeeeEEeCC-CCC----CccchHHHHHHHHhcceEEE
Q 044488 30 LSFRG--EDTRDNFTSHLYSALCHNNIETFIDND-LKR----GDEISQSLLDTIEASTISII 84 (125)
Q Consensus 30 ISys~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~----G~~~~~~i~~aI~~s~~~Iv 84 (125)
++|.. .|.|.+=+-.|.+.|..+|..|-..+- +.. +-.+.++..++++.|+.+|+
T Consensus 304 lafK~~t~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 304 LIMKSGSDNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred ceeCCCCCccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 45642 366777888999999999988776543 222 45567788889999998776
No 89
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=33.09 E-value=84 Score=25.02 Aligned_cols=26 Identities=12% Similarity=-0.171 Sum_probs=14.0
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG 65 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G 65 (125)
..+..+.+.|++.|+.+-....+..+
T Consensus 151 ~~~~~~~~~~~~~g~~iv~~~~~~~~ 176 (404)
T cd06370 151 SVFETLKEEAELRNITISHVEYYADF 176 (404)
T ss_pred HHHHHHHHHHHHcCCEEEEEEEECCC
Confidence 45555666666667665443334443
No 90
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=33.03 E-value=2.1e+02 Score=24.45 Aligned_cols=79 Identities=15% Similarity=0.144 Sum_probs=63.8
Q ss_pred HHHHHHHccCCeeeEEeCC---CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 044488 43 SHLYSALCHNNIETFIDND---LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVFC 119 (125)
Q Consensus 43 ~~L~~~L~~~Gi~vf~d~~---~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~ 119 (125)
..+...-++.|+.+=.|.. +..|+.-.-+|.+++-.-..++++--|..+=+|.=.+||-.+++..++.+..||-|-.
T Consensus 119 ~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLyr~a~iLILDEPTaVLTP~E~~~lf~~l~~l~~~G~tIi~ITH 198 (501)
T COG3845 119 ARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALYRGARLLILDEPTAVLTPQEADELFEILRRLAAEGKTIIFITH 198 (501)
T ss_pred HHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEec
Confidence 3454455678988776653 7888877778999999888888889999999999999999999877778899998877
Q ss_pred ec
Q 044488 120 RV 121 (125)
Q Consensus 120 ~v 121 (125)
+.
T Consensus 199 KL 200 (501)
T COG3845 199 KL 200 (501)
T ss_pred cH
Confidence 63
No 91
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=32.85 E-value=1.5e+02 Score=19.83 Aligned_cols=79 Identities=20% Similarity=0.122 Sum_probs=45.0
Q ss_pred ccHHHHHHHHHccCCeeeEE-eC-CC-CC-----------CccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHH
Q 044488 39 DNFTSHLYSALCHNNIETFI-DN-DL-KR-----------GDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKIL 104 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~-d~-~~-~~-----------G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~ 104 (125)
..+++.+.+.|++.|+.+-+ += +. .+ -....+.+.+.+.+|+. |++.||.|..+.=- .+..++
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~-iI~~sP~y~~~~s~--~lK~~l 93 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEADG-IIFASPVYNGSVSG--QLKNFL 93 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSSE-EEEEEEEBTTBE-H--HHHHHH
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCCe-EEEeecEEcCcCCh--hhhHHH
Confidence 46788888889888876532 21 12 11 11222467778888885 55678888764322 333444
Q ss_pred Hhh------hhCCCEEEEEEee
Q 044488 105 ECK------HDYGQIVIPVFCR 120 (125)
Q Consensus 105 ~~~------~~~~~~IiPI~~~ 120 (125)
++. .-.++.+.+|-..
T Consensus 94 D~~~~~~~~~~~~K~~~~i~~~ 115 (152)
T PF03358_consen 94 DRLSCWFRRALRGKPVAIIAVG 115 (152)
T ss_dssp HTHHHTHTTTTTTSEEEEEEEE
T ss_pred HHhccccccccCCCEEEEEEEe
Confidence 432 1245677776553
No 92
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=32.60 E-value=99 Score=25.85 Aligned_cols=45 Identities=11% Similarity=0.088 Sum_probs=31.8
Q ss_pred eeeEEEecee-----ccCcccHHHHHHHHHccCCeeeEEeC-C-CCCCccch
Q 044488 25 KHGIFLSFRG-----EDTRDNFTSHLYSALCHNNIETFIDN-D-LKRGDEIS 69 (125)
Q Consensus 25 ~yDVFISys~-----~D~~~~fv~~L~~~L~~~Gi~vf~d~-~-~~~G~~~~ 69 (125)
.++|+|---. .+.....+..|...|+..|++|-+|. + -.+|..+.
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~ 338 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFN 338 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHH
Confidence 4888876531 12224578889999999999999987 4 56666544
No 93
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=32.56 E-value=2.1e+02 Score=22.63 Aligned_cols=17 Identities=6% Similarity=-0.025 Sum_probs=10.6
Q ss_pred HHHHHHHHccCCeeeEE
Q 044488 42 TSHLYSALCHNNIETFI 58 (125)
Q Consensus 42 v~~L~~~L~~~Gi~vf~ 58 (125)
+..|.+.|+..|+.+-.
T Consensus 157 ~~~l~~~~~~~gi~v~~ 173 (387)
T cd06386 157 LEGVHHVFQEEGYHMSI 173 (387)
T ss_pred HHHHHHHHHhcCceEEE
Confidence 55666666666766544
No 94
>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=32.38 E-value=87 Score=21.27 Aligned_cols=47 Identities=17% Similarity=0.321 Sum_probs=29.4
Q ss_pred ccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEeecC
Q 044488 66 DEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVFCRVD 122 (125)
Q Consensus 66 ~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~~v~ 122 (125)
+.+.+.+.+.+.+.++.|++++.+.++ ++...++..+ .++|.++.++
T Consensus 46 eei~~~~~~~l~~~digIIlIte~~a~------~i~~~I~~~~----~~~PaIieIP 92 (115)
T TIGR01101 46 SEIEDCFNRFLKRDDIAIILINQHIAE------MIRHAVDAHT----RSIPAVLEIP 92 (115)
T ss_pred HHHHHHHHHHhhcCCeEEEEEcHHHHH------HhHHHHHhcC----CcCCEEEEEC
Confidence 345555666677889999999988665 4444443322 4666666543
No 95
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=32.16 E-value=37 Score=20.81 Aligned_cols=25 Identities=24% Similarity=0.425 Sum_probs=13.5
Q ss_pred CCeeeEEeCCCCCCccchHHHHHHHH
Q 044488 52 NNIETFIDNDLKRGDEISQSLLDTIE 77 (125)
Q Consensus 52 ~Gi~vf~d~~~~~G~~~~~~i~~aI~ 77 (125)
+.+-+|+|.+ .+|+.....+.+.+.
T Consensus 47 ~~Vii~~D~D-~~G~~~a~~i~~~l~ 71 (81)
T PF13662_consen 47 KEVIIAFDND-KAGEKAAQKIAKKLL 71 (81)
T ss_dssp SEEEEEEESS-HHHHHHHHHHHHHHG
T ss_pred ceEEEEeCcC-HHHHHHHHHHHHHHH
Confidence 4455666655 355555555555443
No 96
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=32.15 E-value=1.7e+02 Score=22.38 Aligned_cols=53 Identities=6% Similarity=-0.083 Sum_probs=32.8
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCc-cchHHHHHHHHhcc
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGD-EISQSLLDTIEAST 80 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~-~~~~~i~~aI~~s~ 80 (125)
.|.+-|...+-.+.+...+.+.|+++|+++-....+.+|. .+...+. .|..+.
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~~ 191 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQ-RLLDAL 191 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHH-HHHhcC
Confidence 4555564444345677788888888998887655566664 4554444 444443
No 97
>PRK08350 hypothetical protein; Provisional
Probab=32.11 E-value=38 Score=27.43 Aligned_cols=33 Identities=18% Similarity=0.103 Sum_probs=27.4
Q ss_pred CCeeeEEEeceeccCcccHHHHHHHHHccCCee
Q 044488 23 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIE 55 (125)
Q Consensus 23 ~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~ 55 (125)
...|-+.+|||+.++++.|+.+|.-+|...-|+
T Consensus 279 ~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 279 SERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 456889999998888889999999998865554
No 98
>PF05636 HIGH_NTase1: HIGH Nucleotidyl Transferase; InterPro: IPR008513 This family consists of several bacterial proteins of unknown function.; PDB: 3GMI_A.
Probab=31.34 E-value=55 Score=26.79 Aligned_cols=44 Identities=18% Similarity=0.380 Sum_probs=21.1
Q ss_pred HHHhcceEEEEecCCccC-------chhhHHHHHHHHHhhhhCCCEE--EEEEeecCC
Q 044488 75 TIEASTISIIIFSERYAS-------SGWCLDELLKILECKHDYGQIV--IPVFCRVDP 123 (125)
Q Consensus 75 aI~~s~~~IvvlS~~~~~-------S~wc~~El~~~~~~~~~~~~~I--iPI~~~v~p 123 (125)
.+..++++|+|+|-||++ +.|.+-|+.... +-+.| +|+.|-+..
T Consensus 26 ~~~~ad~ii~vMSGnFvQRGEPAi~dKw~RA~~AL~~-----GaDLViELP~~~a~qs 78 (388)
T PF05636_consen 26 KITGADVIIAVMSGNFVQRGEPAIIDKWTRAEMALKN-----GADLVIELPVVYALQS 78 (388)
T ss_dssp ---TSSEEEEEE--TTSBTSSB-SS-HHHHHHHHHHH-----T-SEEEE---G-----
T ss_pred ccCCCCEEEEEECCCcccCCCeeeCCHHHHHHHHHHc-----CCCEEEECCCcccccc
Confidence 345789999999999986 788887765532 22233 577665544
No 99
>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=31.08 E-value=1.1e+02 Score=24.74 Aligned_cols=59 Identities=12% Similarity=0.251 Sum_probs=39.1
Q ss_pred Eecee--ccCcccHHHHHHHHHccCCeeeEEeCC-CCCCc----cchHHHHHHHHhcceEEEEecC
Q 044488 30 LSFRG--EDTRDNFTSHLYSALCHNNIETFIDND-LKRGD----EISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 30 ISys~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~----~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
++|.. .|.|.+=+-.|.+.|.++|.+|...+- ..... ...+.+.++++.++.+|+.-..
T Consensus 321 lafK~~t~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t~~ 386 (411)
T TIGR03026 321 LAFKPNTDDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILTDH 386 (411)
T ss_pred eEecCCCCccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEecCC
Confidence 46643 356777788899999999999887654 32211 1124566788888888776533
No 100
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=30.82 E-value=2e+02 Score=22.21 Aligned_cols=16 Identities=13% Similarity=0.245 Sum_probs=8.2
Q ss_pred cHHHHHHHHHccCCee
Q 044488 40 NFTSHLYSALCHNNIE 55 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~ 55 (125)
.++..|.+.|+..|+.
T Consensus 151 ~~~~~l~~~l~~~g~~ 166 (362)
T cd06367 151 DFLDRVETTLEESFVG 166 (362)
T ss_pred HHHHHHHHHHHhcccc
Confidence 3455555555555543
No 101
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=30.40 E-value=87 Score=24.23 Aligned_cols=48 Identities=15% Similarity=0.142 Sum_probs=33.2
Q ss_pred HHHHHHHccCCeeeE---EeC-C-CCCCccchHHHHHHHHhcce--EEEEecCCccCc
Q 044488 43 SHLYSALCHNNIETF---IDN-D-LKRGDEISQSLLDTIEASTI--SIIIFSERYASS 93 (125)
Q Consensus 43 ~~L~~~L~~~Gi~vf---~d~-~-~~~G~~~~~~i~~aI~~s~~--~IvvlS~~~~~S 93 (125)
+.|...|..+||+|= ..+ + .. .+..++..+++.+.. .|++|||.-+.+
T Consensus 146 dil~kkL~~~G~~Vds~~VY~T~~hp---~~~~~~~~alk~~~~~d~ivfFSPsgv~~ 200 (260)
T KOG4132|consen 146 DILPKKLHDKGIRVDSCEVYETREHP---DGFKQFIHALKECGFIDWIVFFSPSGVKS 200 (260)
T ss_pred HHHHHHHHhCCceeeEEEEEeeeecc---cHHHHHHHHHHhcCCcceEEEECcchHHH
Confidence 468888999998752 111 1 32 344578889998854 599999998763
No 102
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=29.88 E-value=1.8e+02 Score=22.02 Aligned_cols=26 Identities=8% Similarity=-0.097 Sum_probs=13.3
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG 65 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G 65 (125)
..+..+.+.|++.|+++-....+.+|
T Consensus 152 ~~~~~~~~~~~~~G~~vv~~~~~~~~ 177 (312)
T cd06346 152 GLADAFTKAFEALGGTVTNVVAHEEG 177 (312)
T ss_pred HHHHHHHHHHHHcCCEEEEEEeeCCC
Confidence 44455556666666655433334444
No 103
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=29.58 E-value=2e+02 Score=20.06 Aligned_cols=78 Identities=21% Similarity=0.317 Sum_probs=43.9
Q ss_pred cHHHHHHHHHccCC--eeeEEeCCCCCCccchHHHHHHHHh---cceEEEEecCCccC--chhhHHHHHHHHHhhh-hCC
Q 044488 40 NFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEA---STISIIIFSERYAS--SGWCLDELLKILECKH-DYG 111 (125)
Q Consensus 40 ~fv~~L~~~L~~~G--i~vf~d~~~~~G~~~~~~i~~aI~~---s~~~IvvlS~~~~~--S~wc~~El~~~~~~~~-~~~ 111 (125)
..+..|.+.|.+.+ +.++.. ++-|.+...+..+.+.+ .+++++.+.|.|.. ..-+.+++..++.... ...
T Consensus 72 ~q~~~l~~~L~~~~~~~~v~~a--mry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~~~~~~~~ 149 (159)
T cd03411 72 AQAEALEKALDERGIDVKVYLA--MRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALKKLRPAPE 149 (159)
T ss_pred HHHHHHHHHHhccCCCcEEEeh--HhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHHhcCCCCc
Confidence 46667777787654 444443 55566555444444433 45678888888864 4456677766665332 123
Q ss_pred CEEEEEEe
Q 044488 112 QIVIPVFC 119 (125)
Q Consensus 112 ~~IiPI~~ 119 (125)
..+|+-++
T Consensus 150 ~~~i~~~~ 157 (159)
T cd03411 150 LRVIRSFY 157 (159)
T ss_pred EEEeCccc
Confidence 34555443
No 104
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=29.31 E-value=2.4e+02 Score=21.46 Aligned_cols=36 Identities=14% Similarity=0.084 Sum_probs=18.9
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHH
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLD 74 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~ 74 (125)
+.++..+.+.|++.|+.+-....+..+ ..+...+.+
T Consensus 149 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~ 185 (334)
T cd06327 149 HSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLLQ 185 (334)
T ss_pred HHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHHH
Confidence 346666666677777766443333333 344443333
No 105
>PF14386 DUF4417: Domain of unknown function (DUF4417)
Probab=29.07 E-value=1e+02 Score=22.86 Aligned_cols=62 Identities=18% Similarity=0.149 Sum_probs=34.8
Q ss_pred ccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCcc-C--------------chhhHHHHHHHHHhhhhCCCE
Q 044488 50 CHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYA-S--------------SGWCLDELLKILECKHDYGQI 113 (125)
Q Consensus 50 ~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~-~--------------S~wc~~El~~~~~~~~~~~~~ 113 (125)
...++..|.++. ++.=..-.. .-|+.-+.+-.|+||||- - +.||..+++ +.|..
T Consensus 43 ~~~~vhff~~D~~fe~~w~~p~---~~i~~l~~~~~v~tPDfSly~d~P~~~qi~n~yR~r~~g~~~q-------~~Gi~ 112 (200)
T PF14386_consen 43 TNKIVHFFVDDYRFERFWNNPE---KYIERLKRFDGVITPDFSLYSDMPRAMQIWNIYRSRWLGAYWQ-------SNGIK 112 (200)
T ss_pred cCcEEEEeEECHHHHHHHhCHH---HHHHHHHhcCeEeCCCcccccCCCHHHHHHHHHHHHHHHHHHH-------HCCCe
Confidence 345677777765 544222222 333444447778999984 2 333333332 46889
Q ss_pred EEEEEeec
Q 044488 114 VIPVFCRV 121 (125)
Q Consensus 114 IiPI~~~v 121 (125)
|||-+.-.
T Consensus 113 VIP~v~W~ 120 (200)
T PF14386_consen 113 VIPNVSWS 120 (200)
T ss_pred EcceEEec
Confidence 99987643
No 106
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type. This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.
Probab=28.92 E-value=1.8e+02 Score=25.06 Aligned_cols=62 Identities=13% Similarity=0.085 Sum_probs=40.1
Q ss_pred eeeEEEeceecc-CcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCc
Q 044488 25 KHGIFLSFRGED-TRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 90 (125)
Q Consensus 25 ~yDVFISys~~D-~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~ 90 (125)
.++|+|-.-..+ .....+..|...|+..|+++.+|.. |. +..++..|=+.---+++++..+-
T Consensus 457 P~kV~VIpl~~~~el~~~A~eIa~~LR~~GI~VeiD~s---~s-IGKq~rrADeiGiPf~IIIG~~E 519 (551)
T TIGR00389 457 PIKVAVLPLVNKEELKEIAKEIFQALRKTGIRIKYDDS---GT-IGKRYRRADEIGTPFCVTIDFET 519 (551)
T ss_pred CceEEEEEecCcHHHHHHHHHHHHHHHHCCCEEEEECC---CC-HHHHHHHHHHcCCCEEEEECCch
Confidence 478777654432 2345788899999999999999852 33 66666665444334555565544
No 107
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=28.71 E-value=2.6e+02 Score=21.31 Aligned_cols=54 Identities=15% Similarity=-0.036 Sum_probs=27.5
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcc
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAST 80 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~ 80 (125)
.|+|-|...+..+..+..+.+.|++.|+++-....+.++..-.......|.+.+
T Consensus 134 ~v~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~l~~~~ 187 (333)
T cd06358 134 RWYLIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLGTTDFTSVLERIAASG 187 (333)
T ss_pred eEEEEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCChHHHHHHHHHHHHcC
Confidence 455544322222345666777888888876543335555322233344455444
No 108
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=28.59 E-value=1.7e+02 Score=18.94 Aligned_cols=70 Identities=17% Similarity=0.299 Sum_probs=37.8
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVF 118 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~ 118 (125)
...+.++...|.+.|+.+..-. +++.+.... ..+.+-+ +++++|..=-. .|+..+++..++.+.++|-|.
T Consensus 12 ~~~a~~~~~~l~~~g~~~~~~~---~~~~~~~~~-~~~~~~d-~vi~iS~sG~t-----~~~~~~~~~a~~~g~~vi~iT 81 (128)
T cd05014 12 GHIARKIAATLSSTGTPAFFLH---PTEALHGDL-GMVTPGD-VVIAISNSGET-----DELLNLLPHLKRRGAPIIAIT 81 (128)
T ss_pred HHHHHHHHHHhhcCCCceEEcc---cchhhcccc-CcCCCCC-EEEEEeCCCCC-----HHHHHHHHHHHHCCCeEEEEe
Confidence 4577888888888888776532 222111111 1223333 44555544322 467777776666666666554
No 109
>smart00646 Ami_3 Ami_3.
Probab=28.58 E-value=88 Score=20.19 Aligned_cols=11 Identities=18% Similarity=0.262 Sum_probs=4.7
Q ss_pred cHHHHHHHHHc
Q 044488 40 NFTSHLYSALC 50 (125)
Q Consensus 40 ~fv~~L~~~L~ 50 (125)
.++..|...|.
T Consensus 44 ~la~~i~~~l~ 54 (113)
T smart00646 44 ALASIIQKSLV 54 (113)
T ss_pred HHHHHHHHHHH
Confidence 34444444443
No 110
>PF01269 Fibrillarin: Fibrillarin; InterPro: IPR000692 Fibrillarin is a component of a nucleolar small nuclear ribonucleoprotein (SnRNP), functioning in vivo in ribosomal RNA processing [, ]. It is associated with U3, U8 and U13 small nuclear RNAs in mammals [] and is similar to the yeast NOP1 protein []. Fibrillarin has a well conserved sequence of around 320 amino acids, and contains 3 domains, an N-terminal Gly/Arg-rich region; a central domain resembling other RNA-binding proteins and containing an RNP-2-like consensus sequence; and a C-terminal alpha-helical domain. An evolutionarily related pre-rRNA processing protein, which lacks the Gly/Arg-rich domain, has been found in various archaebacteria.; GO: 0003723 RNA binding, 0008168 methyltransferase activity, 0006364 rRNA processing, 0008033 tRNA processing; PDB: 3PLA_E 3ID6_C 3ID5_B 1NT2_A 3NVK_J 2NNW_B 3NVM_B 3NMU_J 1PRY_A 1G8A_A ....
Probab=28.54 E-value=62 Score=24.75 Aligned_cols=25 Identities=20% Similarity=0.355 Sum_probs=18.6
Q ss_pred CchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 044488 92 SSGWCLDELLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 92 ~S~wc~~El~~~~~~~~~~~~~IiPI~~~ 120 (125)
.|+|+..+|....+.. ..||||+=+
T Consensus 106 fs~r~~rdL~~la~~R----~NIiPIl~D 130 (229)
T PF01269_consen 106 FSPRSMRDLLNLAKKR----PNIIPILED 130 (229)
T ss_dssp SSHHHHHHHHHHHHHS----TTEEEEES-
T ss_pred ecchhHHHHHHHhccC----Cceeeeecc
Confidence 4889999998776543 379999854
No 111
>PLN02908 threonyl-tRNA synthetase
Probab=28.53 E-value=1.6e+02 Score=25.89 Aligned_cols=59 Identities=12% Similarity=0.144 Sum_probs=39.7
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
.+|+|-.-+.+ ....+..+...|+.+|++|-+|. .+..+..++..|-..---+++|+.+
T Consensus 590 ~qv~Vipv~~~-~~~~A~~va~~LR~~Gi~vevd~---~~~~l~kkir~A~~~g~~~viivG~ 648 (686)
T PLN02908 590 RQAIVVPISEK-SQDYAEEVRAQLHAAGFYVDVDV---TDRKIQKKVREAQLAQYNYILVVGE 648 (686)
T ss_pred ceEEEEEECHH-HHHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECc
Confidence 58887775443 24678899999999999998874 3556666666664433335555554
No 112
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. 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 the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=28.48 E-value=1.6e+02 Score=22.37 Aligned_cols=30 Identities=7% Similarity=-0.130 Sum_probs=14.1
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeE
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETF 57 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf 57 (125)
|.|-|...+....+...+...|++.|+++-
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~ 167 (340)
T cd06349 138 VAILSVNTDWGRTSADIFVKAAEKLGGQVV 167 (340)
T ss_pred EEEEecCChHhHHHHHHHHHHHHHcCCEEE
Confidence 444443333223445555555555565544
No 113
>PF11495 Regulator_TrmB: Archaeal transcriptional regulator TrmB; InterPro: IPR021586 TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus []. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif []. ; PDB: 3QPH_A 2F5T_X.
Probab=28.47 E-value=2e+02 Score=21.29 Aligned_cols=50 Identities=26% Similarity=0.193 Sum_probs=22.9
Q ss_pred ccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 044488 66 DEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 66 ~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~~ 120 (125)
+.+.+.+.+.|++|+.-|.+..+ +..+.++...+..+.++|-.|.-+.+.
T Consensus 9 ~~I~~~i~elI~~Ae~eI~is~~-----~~~l~~l~~~L~~a~~rGV~V~li~~~ 58 (233)
T PF11495_consen 9 ETILERIRELIENAESEIYISIP-----PEFLEELRDELEEAVDRGVKVKLIVFG 58 (233)
T ss_dssp HHHHHHHHHHHHC-SSEEEEEE------GGGHHHHHHHHHHHHHTT-EEEEEESS
T ss_pred HHHHHHHHHHHHHhheEEEEEcC-----HHHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 44555666666666655444333 123344444444444445445444443
No 114
>PF00155 Aminotran_1_2: Aminotransferase class I and II 1-aminocyclopropane-1-carboxylate synthase signature aspartate aminotransferase signature; InterPro: IPR004839 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into class I and class II. This entry includes proteins from both subfamilies.; GO: 0016769 transferase activity, transferring nitrogenous groups, 0030170 pyridoxal phosphate binding, 0009058 biosynthetic process; PDB: 3NRA_B 3P6K_B 3OP7_A 3ASB_A 3ASA_A 1W7M_A 3FVX_A 1W7N_A 3FVU_B 3FVS_A ....
Probab=28.37 E-value=2.7e+02 Score=21.31 Aligned_cols=47 Identities=21% Similarity=0.404 Sum_probs=30.6
Q ss_pred hHHHHHHHHh------cceEEEEecCCcc-CchhhHHHHHHHHHhhhhCCCEEE
Q 044488 69 SQSLLDTIEA------STISIIIFSERYA-SSGWCLDELLKILECKHDYGQIVI 115 (125)
Q Consensus 69 ~~~i~~aI~~------s~~~IvvlS~~~~-~S~wc~~El~~~~~~~~~~~~~Ii 115 (125)
.+.+.+.+++ ...+|++-+|+.- ..-+..+|+..+++..++.+..||
T Consensus 132 ~~~l~~~l~~~~~~~~~~~~v~~~~p~nPtG~~~~~~~l~~l~~~~~~~~~~ii 185 (363)
T PF00155_consen 132 PEALEEALDELPSKGPRPKAVLICNPNNPTGSVLSLEELRELAELAREYNIIII 185 (363)
T ss_dssp HHHHHHHHHTSHTTTETEEEEEEESSBTTTTBB--HHHHHHHHHHHHHTTSEEE
T ss_pred ccccccccccccccccccceeeecccccccccccccccccchhhhhccccccee
Confidence 3577777777 3467777788763 457788899998887665544443
No 115
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. 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 t
Probab=28.00 E-value=1.9e+02 Score=19.34 Aligned_cols=18 Identities=11% Similarity=0.058 Sum_probs=10.6
Q ss_pred HHHHHhcceEEEEecCCc
Q 044488 73 LDTIEASTISIIIFSERY 90 (125)
Q Consensus 73 ~~aI~~s~~~IvvlS~~~ 90 (125)
...++.++.+|++++.+-
T Consensus 69 ~~~~~~~~~ii~v~d~~~ 86 (166)
T cd01869 69 SSYYRGAHGIIIVYDVTD 86 (166)
T ss_pred HHHhCcCCEEEEEEECcC
Confidence 334556677777776543
No 116
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=27.93 E-value=1.2e+02 Score=18.28 Aligned_cols=35 Identities=26% Similarity=0.348 Sum_probs=23.5
Q ss_pred ccCCCCCCCCeeeEEEeceeccCcccHHHHHHHHHccC
Q 044488 15 SSSPSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHN 52 (125)
Q Consensus 15 ~s~~~~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~ 52 (125)
.|-++....++|.+||-+.+.|. . +.++.+.|++.
T Consensus 32 eSRP~~~~~~~y~Ffvd~~~~~~--~-~~~~l~~L~~~ 66 (74)
T cd04904 32 ESRPSRRNGSEYEFFVDCEVDRG--D-LDQLISSLRRV 66 (74)
T ss_pred ECCCCCCCCceEEEEEEEEcChH--H-HHHHHHHHHHh
Confidence 34456667789999999987543 2 45566666554
No 117
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=27.93 E-value=94 Score=23.52 Aligned_cols=48 Identities=19% Similarity=0.288 Sum_probs=31.6
Q ss_pred eeeccc-CCCCCCCCeeeEEEecee-ccCcccHHHHHHHHHccCCeeeEE
Q 044488 11 SVMASS-SPSPRNSNKHGIFLSFRG-EDTRDNFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 11 ~~~~~s-~~~~~~~~~yDVFISys~-~D~~~~fv~~L~~~L~~~Gi~vf~ 58 (125)
.+|+.+ .--.-...+.-||++.+. .|..-.+-..|...|..+|+++--
T Consensus 6 tkMS~tIfLdPV~~~~rtVyv~vrNTSd~~~~l~~~i~~~L~~kGY~vv~ 55 (215)
T PF05818_consen 6 TKMSQTIFLDPVAPSQRTVYVQVRNTSDKDINLESQIISALQAKGYQVVD 55 (215)
T ss_pred ccccccEEeCCCCcccceEEEEEecCCCCccchHHHHHHHHHHCCCEEec
Confidence 356655 222223446789999964 343336788899999999998643
No 118
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=27.63 E-value=1.7e+02 Score=18.57 Aligned_cols=38 Identities=18% Similarity=0.295 Sum_probs=30.7
Q ss_pred cHHHHHHHHHccCCeeeEEeC-------CCCCCccchHHHHHHHH
Q 044488 40 NFTSHLYSALCHNNIETFIDN-------DLKRGDEISQSLLDTIE 77 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~-------~~~~G~~~~~~i~~aI~ 77 (125)
..+..+.+.-+++|+.++-|. .+..|+.|+.++.+++.
T Consensus 27 ~~A~~I~~~A~e~~VPi~~~~~LAr~L~~~~ig~~IP~~ly~aVA 71 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVEDPDLVDVLLKLDLDDEIPEELYEVVA 71 (82)
T ss_pred HHHHHHHHHHHHcCCCEEeCHHHHHHHHhCCCCCccCHHHHHHHH
Confidence 578889888899999998764 25778899988888775
No 119
>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=27.31 E-value=41 Score=28.86 Aligned_cols=64 Identities=14% Similarity=0.269 Sum_probs=39.6
Q ss_pred eeeEEEece-ecc-CcccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccC
Q 044488 25 KHGIFLSFR-GED-TRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 25 ~yDVFISys-~~D-~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
.|+|=|--- .+| ....++..|+..|+..|++|.+|++ -.+|..+.+.=..+ -- +.+++.++.+.
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~dadliG---iP-~~i~vG~~~l~ 539 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFADSELIG---IP-LRVVVGKKNLD 539 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHhhhhcC---CC-EEEEECCCccc
Confidence 377765432 222 2346889999999999999999987 66676655322111 11 35556666543
No 120
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=27.05 E-value=2.3e+02 Score=21.94 Aligned_cols=75 Identities=8% Similarity=0.024 Sum_probs=47.9
Q ss_pred ccHHHHHHHHHccCCeeeEE--eC-C-CCCCccchHHHHHHHHhcceEEEEecCC-ccCchhhHHHHHHHHHhh-hhCCC
Q 044488 39 DNFTSHLYSALCHNNIETFI--DN-D-LKRGDEISQSLLDTIEASTISIIIFSER-YASSGWCLDELLKILECK-HDYGQ 112 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~--d~-~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~-~~~S~wc~~El~~~~~~~-~~~~~ 112 (125)
..++..|.+.+...|+.+-. +. . +-.|--+.=.... .+.++=||.+|.+ ...+..-..+|..++... ++.+.
T Consensus 96 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~--p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~i~~~~~ 173 (282)
T TIGR02298 96 PALGQLIADEAQEHGVKTLAHQVPSLGLEYGTLVPMRYMN--EDGHFKVVSIAAWCTVHDIEESRALGEAIRKAIEQSDG 173 (282)
T ss_pred HHHHHHHHHHHHHCCCceeeccCCCCCCCeehHhHHHHhC--CCCCCcEEEEeecCCCCCHHHHHHHHHHHHHHHHhcCC
Confidence 47999999999999998752 22 2 5666554422221 3456668888876 444666677888887754 33444
Q ss_pred EEE
Q 044488 113 IVI 115 (125)
Q Consensus 113 ~Ii 115 (125)
+|+
T Consensus 174 rV~ 176 (282)
T TIGR02298 174 RVA 176 (282)
T ss_pred CEE
Confidence 444
No 121
>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=26.85 E-value=49 Score=21.55 Aligned_cols=19 Identities=26% Similarity=0.141 Sum_probs=13.7
Q ss_pred cHHHHHHHHHccCCeeeEE
Q 044488 40 NFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~ 58 (125)
.|+..|...|..+|+++-.
T Consensus 9 ~fv~~Lk~lLk~rGi~v~~ 27 (90)
T PF02337_consen 9 PFVSILKHLLKERGIRVKK 27 (90)
T ss_dssp HHHHHHHHHHHCCT----H
T ss_pred HHHHHHHHHHHHcCeeecH
Confidence 6999999999999998743
No 122
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=26.85 E-value=2.1e+02 Score=21.77 Aligned_cols=41 Identities=22% Similarity=0.238 Sum_probs=21.0
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCC---ccchHHHHHHHHhcc
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRG---DEISQSLLDTIEAST 80 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G---~~~~~~i~~aI~~s~ 80 (125)
...+..+.+.++..|+.+-....+..+ ..+. .+...|..+.
T Consensus 174 ~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~-~~l~~l~~~~ 217 (348)
T cd06350 174 RSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIK-RILKKLKSST 217 (348)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHH-HHHHHHHhCC
Confidence 345666666677677665433334444 2232 4444555544
No 123
>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=26.62 E-value=1.1e+02 Score=20.65 Aligned_cols=45 Identities=13% Similarity=0.152 Sum_probs=25.7
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEEE
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISII 84 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~Iv 84 (125)
.-...|...|++.|.++-.-..+... +.+.+.+.+++++++++|.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvit 64 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLT 64 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEE
Confidence 34456788889999876442212222 3355566666666664444
No 124
>KOG0259 consensus Tyrosine aminotransferase [Amino acid transport and metabolism]
Probab=26.59 E-value=3e+02 Score=23.06 Aligned_cols=54 Identities=20% Similarity=0.320 Sum_probs=36.1
Q ss_pred CCCCccch---HHHHHHHHhcceEEEEecCCcc-CchhhHHHHHHHHHhhhhCCCEEE
Q 044488 62 LKRGDEIS---QSLLDTIEASTISIIIFSERYA-SSGWCLDELLKILECKHDYGQIVI 115 (125)
Q Consensus 62 ~~~G~~~~---~~i~~aI~~s~~~IvvlS~~~~-~S~wc~~El~~~~~~~~~~~~~Ii 115 (125)
+.|++.|. +.++..+.+-.+.|+|+.|+=- .+-+..+-|.++.+.+++.+..||
T Consensus 179 lLPe~~weIDL~~veal~DENT~AivviNP~NPcGnVys~~HL~kiae~A~klgi~vI 236 (447)
T KOG0259|consen 179 LLPEKDWEIDLDGVEALADENTVAIVVINPNNPCGNVYSEDHLKKIAETAKKLGIMVI 236 (447)
T ss_pred ccCcccceechHHHHHhhccCeeEEEEeCCCCCCcccccHHHHHHHHHHHHHhCCeEE
Confidence 56666554 5677778888899999998753 455555666666665555554444
No 125
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=26.40 E-value=2e+02 Score=21.29 Aligned_cols=32 Identities=13% Similarity=0.325 Sum_probs=23.0
Q ss_pred EeceeccC--cccHHHHHHHHHccCCeeeEEeCC
Q 044488 30 LSFRGEDT--RDNFTSHLYSALCHNNIETFIDND 61 (125)
Q Consensus 30 ISys~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~ 61 (125)
|.+|+.+. ...|+..|.+++...|+.+.+|..
T Consensus 42 Vt~SGGEPllq~~fl~~l~~~~k~~gi~~~leTn 75 (213)
T PRK10076 42 VTLSGGEVLMQAEFATRFLQRLRLWGVSCAIETA 75 (213)
T ss_pred EEEeCchHHcCHHHHHHHHHHHHHcCCCEEEECC
Confidence 44555443 346888888888889999988765
No 126
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=25.98 E-value=58 Score=19.10 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=13.5
Q ss_pred HHHHHHHHHccCCeeeEEeCC
Q 044488 41 FTSHLYSALCHNNIETFIDND 61 (125)
Q Consensus 41 fv~~L~~~L~~~Gi~vf~d~~ 61 (125)
=+..+...|+..||.+++...
T Consensus 11 ea~~i~~~L~~~gI~~~v~~~ 31 (67)
T PF09413_consen 11 EAELIKGLLEENGIPAFVKNE 31 (67)
T ss_dssp HHHHHHHHHHHTT--EE--S-
T ss_pred HHHHHHHHHHhCCCcEEEECC
Confidence 467788899999999998654
No 127
>PRK07933 thymidylate kinase; Validated
Probab=25.75 E-value=1.7e+02 Score=21.41 Aligned_cols=30 Identities=20% Similarity=0.267 Sum_probs=21.5
Q ss_pred EEeceeccC--cccHHHHHHHHHccCCeeeEE
Q 044488 29 FLSFRGEDT--RDNFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 29 FISys~~D~--~~~fv~~L~~~L~~~Gi~vf~ 58 (125)
||.+-|-|. ....+..|.+.|+.+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 666666553 246788899999988887664
No 128
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=25.68 E-value=3.3e+02 Score=21.28 Aligned_cols=67 Identities=21% Similarity=0.266 Sum_probs=47.5
Q ss_pred HHHccCCeeeEEeCCCCCCcc-----chHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 044488 47 SALCHNNIETFIDNDLKRGDE-----ISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 47 ~~L~~~Gi~vf~d~~~~~G~~-----~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~~ 120 (125)
..|. .+++++-|-..+.|.+ +.+...+.+++...=-+|+|-.-..++=-++||..+.+... .|||.+
T Consensus 140 ~~L~-~~v~vlADv~VKHa~~l~~~~~~~~v~dtver~~aDaVI~tG~~TG~~~d~~el~~a~~~~~------~pvlvG 211 (263)
T COG0434 140 ARLG-SRVKVLADVHVKHAVHLGNRSLEEAVKDTVERGLADAVIVTGSRTGSPPDLEELKLAKEAVD------TPVLVG 211 (263)
T ss_pred Hhcc-CCcEEEeecchhcccccCCcCHHHHHHHHHHccCCCEEEEecccCCCCCCHHHHHHHHhccC------CCEEEe
Confidence 3444 6799999876666654 44566666777776677788888888888899988765332 788864
No 129
>PRK13728 conjugal transfer protein TrbB; Provisional
Probab=25.66 E-value=1.3e+02 Score=21.93 Aligned_cols=28 Identities=18% Similarity=0.208 Sum_probs=21.9
Q ss_pred hhhHHHHHHHHHhhhhCCCEEEEEEeec
Q 044488 94 GWCLDELLKILECKHDYGQIVIPVFCRV 121 (125)
Q Consensus 94 ~wc~~El~~~~~~~~~~~~~IiPI~~~v 121 (125)
++|..|+..+.+..++.+..|++|-++.
T Consensus 82 p~C~~e~P~L~~l~~~~g~~Vi~Vs~D~ 109 (181)
T PRK13728 82 PYCHQFDPVLKQLAQQYGFSVFPYTLDG 109 (181)
T ss_pred HhHHHHHHHHHHHHHHcCCEEEEEEeCC
Confidence 5689998887777776778899987753
No 130
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=25.57 E-value=94 Score=24.18 Aligned_cols=52 Identities=21% Similarity=0.250 Sum_probs=36.2
Q ss_pred eccCcccHHHHHHHHHccCCeeeEE----eCC-CCCCccchHHHHHHHHhcceEEEEecC
Q 044488 34 GEDTRDNFTSHLYSALCHNNIETFI----DND-LKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 34 ~~D~~~~fv~~L~~~L~~~Gi~vf~----d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
+.|.|+ . .+.+.|.+.|+.|++ |.. -..|-.+.+...+++.+++++|.++.+
T Consensus 9 ggd~r~-~--~~~~~l~~~G~~v~~~g~~~~~~~~~g~~~~~~~~~~~~~ad~ii~~~p~ 65 (296)
T PRK08306 9 GGDARQ-L--ELIRKLVELGAKVSLVGFDQLDHGFTGATKSSSLEEALSDVDVIILPVPG 65 (296)
T ss_pred cCcHHH-H--HHHHHHHHCCCEEEEEeccccccccCCceeeccHHHHhccCCEEEECCcc
Confidence 456542 2 577888899998875 222 356766765567789999999988654
No 131
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=25.45 E-value=1.5e+02 Score=21.35 Aligned_cols=31 Identities=16% Similarity=0.164 Sum_probs=19.4
Q ss_pred CeeeEEEeceeccCcccHHHHHHHHHccCCeeeEE
Q 044488 24 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 24 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~ 58 (125)
..+|+|+=.++ |. .|. .|...|+++|.+|..
T Consensus 104 ~~iD~~vLvSg-D~--DF~-~Lv~~lre~G~~V~v 134 (160)
T TIGR00288 104 PNIDAVALVTR-DA--DFL-PVINKAKENGKETIV 134 (160)
T ss_pred CCCCEEEEEec-cH--hHH-HHHHHHHHCCCEEEE
Confidence 45777776654 32 355 566667777777765
No 132
>PRK11263 cardiolipin synthase 2; Provisional
Probab=25.38 E-value=1.1e+02 Score=25.10 Aligned_cols=13 Identities=8% Similarity=0.427 Sum_probs=7.5
Q ss_pred cHHHHHHHHHccC
Q 044488 40 NFTSHLYSALCHN 52 (125)
Q Consensus 40 ~fv~~L~~~L~~~ 52 (125)
++-..+.++++..
T Consensus 18 e~~~~l~~~I~~A 30 (411)
T PRK11263 18 QYYPRVFEAIAAA 30 (411)
T ss_pred HHHHHHHHHHHHh
Confidence 3555666666543
No 133
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=25.37 E-value=1.8e+02 Score=23.25 Aligned_cols=61 Identities=21% Similarity=0.405 Sum_probs=36.4
Q ss_pred EEEeceeccCcccHHHH--HHHHHccC------CeeeEEeCCCCCCccc-hHHHHHHHHhcceEEEEecCCcc
Q 044488 28 IFLSFRGEDTRDNFTSH--LYSALCHN------NIETFIDNDLKRGDEI-SQSLLDTIEASTISIIIFSERYA 91 (125)
Q Consensus 28 VFISys~~D~~~~fv~~--L~~~L~~~------Gi~vf~d~~~~~G~~~-~~~i~~aI~~s~~~IvvlS~~~~ 91 (125)
+|+.|.+.+. ..... +.+.+.+. |+.||- +....|..+ .....+.+.+..+.|.+++|...
T Consensus 176 ~FlNY~W~~~--~l~~s~~~a~~~g~~~~dvy~GiDv~g-rg~~~~~~~~~~~~~~~~~~~~~Svalfap~W~ 245 (339)
T cd06547 176 IFLNYWWTEE--SLERSVQLAEGLGRSPYDVYVGVDVWG-RGTKGGGGWNSDKALDEIKKAGLSVALFAPGWT 245 (339)
T ss_pred eeEecCCCcc--hHHHHHHHHHHcCCCHhHEEEEEEEEc-CCcccCCCCchhhhhhhhcccCeEEEEEcCcch
Confidence 7999998763 23322 34445443 444442 113333344 34566677889999999998853
No 134
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=25.28 E-value=1.6e+02 Score=17.46 Aligned_cols=70 Identities=23% Similarity=0.190 Sum_probs=37.8
Q ss_pred ccHHHHHHHHHccC-CeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEE
Q 044488 39 DNFTSHLYSALCHN-NIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPV 117 (125)
Q Consensus 39 ~~fv~~L~~~L~~~-Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI 117 (125)
..++.++...|.+. |++++.... +..........+ +.+-+++++|..=-. .|+..+++..++.+.++|-|
T Consensus 10 ~~~a~~~~~~l~~~~~~~~~~~~~---~~~~~~~~~~~~-~~~d~~i~iS~sg~t-----~~~~~~~~~a~~~g~~ii~i 80 (87)
T cd04795 10 GAIAAYFALELLELTGIEVVALIA---TELEHASLLSLL-RKGDVVIALSYSGRT-----EELLAALEIAKELGIPVIAI 80 (87)
T ss_pred HHHHHHHHHHHhcccCCceEEeCC---cHHHHHHHHhcC-CCCCEEEEEECCCCC-----HHHHHHHHHHHHcCCeEEEE
Confidence 46788888888887 988876432 111111112223 344455555543222 35666666666666666654
No 135
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=25.27 E-value=1.6e+02 Score=21.03 Aligned_cols=33 Identities=24% Similarity=0.147 Sum_probs=23.4
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND 61 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~ 61 (125)
--+.|.. |+.+.|...|..+|+.+|+-|--+..
T Consensus 53 Tt~~l~q---~~~D~Fg~aL~~aLR~~GYaV~e~~~ 85 (151)
T PRK13883 53 TRFELQQ---PTPDAFGQALVKALRDKGYALLEYNP 85 (151)
T ss_pred eEEEEec---CCCcHHHHHHHHHHHHcCeEEEecCC
Confidence 4455644 33347999999999999998876543
No 136
>KOG0257 consensus Kynurenine aminotransferase, glutamine transaminase K [Amino acid transport and metabolism]
Probab=24.95 E-value=1.6e+02 Score=24.63 Aligned_cols=42 Identities=24% Similarity=0.271 Sum_probs=33.0
Q ss_pred HHHHHHHHhcceEEEEecCCcc-CchhhHHHHHHHHHhhhhCC
Q 044488 70 QSLLDTIEASTISIIIFSERYA-SSGWCLDELLKILECKHDYG 111 (125)
Q Consensus 70 ~~i~~aI~~s~~~IvvlS~~~~-~S~wc~~El~~~~~~~~~~~ 111 (125)
..+..+|.....+|++.||+=- ..-..++||..+.+.+++.+
T Consensus 163 ~~le~~~t~kTk~Ii~ntPhNPtGkvfsReeLe~ia~l~~k~~ 205 (420)
T KOG0257|consen 163 EELESKITEKTKAIILNTPHNPTGKVFSREELERIAELCKKHG 205 (420)
T ss_pred HHHHhhccCCccEEEEeCCCCCcCcccCHHHHHHHHHHHHHCC
Confidence 4677788888899999999854 45566789999998777655
No 137
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=24.91 E-value=2e+02 Score=24.10 Aligned_cols=44 Identities=11% Similarity=0.110 Sum_probs=30.2
Q ss_pred eeeEEEece--ec---cCcccHHHHHHHHHccCCeeeEEeCC-CCCCccc
Q 044488 25 KHGIFLSFR--GE---DTRDNFTSHLYSALCHNNIETFIDND-LKRGDEI 68 (125)
Q Consensus 25 ~yDVFISys--~~---D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~ 68 (125)
.++|+|--- .. +.....+..|...|++.|+++-+|.+ -.+|..+
T Consensus 282 P~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~gkk~ 331 (472)
T TIGR00408 282 PIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPGRKF 331 (472)
T ss_pred cceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHH
Confidence 478887642 21 12346788999999999999999875 3444433
No 138
>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=24.79 E-value=2.3e+02 Score=19.15 Aligned_cols=59 Identities=14% Similarity=0.074 Sum_probs=35.1
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEEEEecCCccCchhhHH
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISIIIFSERYASSGWCLD 98 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~ 98 (125)
.-...|.+.|++.|+.+..-.-+... +.+.+.+.+++++++++|..=.-..-..++..+
T Consensus 17 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~VittGG~g~~~~D~t~~ 76 (144)
T PF00994_consen 17 SNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITTGGTGPGPDDVTPE 76 (144)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEESSSSSSTTCHHHH
T ss_pred hHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEcCCcCcccCCcccH
Confidence 45667889999999987543212211 345566766777777666655334444444443
No 139
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=24.72 E-value=1.5e+02 Score=23.57 Aligned_cols=44 Identities=20% Similarity=0.495 Sum_probs=33.8
Q ss_pred HHHHHHHHhcceEEEEecCCcc---CchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 044488 70 QSLLDTIEASTISIIIFSERYA---SSGWCLDELLKILECKHDYGQIVIPVFC 119 (125)
Q Consensus 70 ~~i~~aI~~s~~~IvvlS~~~~---~S~wc~~El~~~~~~~~~~~~~IiPI~~ 119 (125)
+.-..+|.+++.-++|+-|.+. ..+|..+||.+..+ .+ ++||-|
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 4455688999999999999654 68999999988643 33 778766
No 140
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=24.52 E-value=55 Score=22.55 Aligned_cols=34 Identities=21% Similarity=0.458 Sum_probs=17.7
Q ss_pred chHHHHHHHHhcceEEEEecCCccCchhhHHHHHHH
Q 044488 68 ISQSLLDTIEASTISIIIFSERYASSGWCLDELLKI 103 (125)
Q Consensus 68 ~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~ 103 (125)
+...+.++|..-...|++....|-++ |++||..+
T Consensus 60 ~~~~L~~~i~~~~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 60 LIEALIKAIGSIYGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHHHHHHHhhhhcCeEEEechHHHHH--HHHHHHHH
Confidence 33444455544435566666655543 66666544
No 141
>PRK10628 LigB family dioxygenase; Provisional
Probab=24.23 E-value=2.6e+02 Score=21.43 Aligned_cols=77 Identities=12% Similarity=0.072 Sum_probs=52.8
Q ss_pred EeceeccCcccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhh
Q 044488 30 LSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKH 108 (125)
Q Consensus 30 ISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~ 108 (125)
|.|..... -.++..+.+.|++.|+..--..+ +-.|-... +...--++++=|+-+|=+.-.++-...+|.+++..-+
T Consensus 62 ~~Ypa~G~-p~LA~~i~~ll~~~~~~~~~~~rGlDHG~Wvp--L~~m~P~adIPVvqlSl~~~~~~~~h~~lG~aL~~LR 138 (246)
T PRK10628 62 THYPAPGS-PALAQRLVELLAPVPVTLDKEAWGFDHGSWGV--LIKMYPDADIPMVQLSIDSTKPAAWHFEMGRKLAALR 138 (246)
T ss_pred ecCCCCCC-HHHHHHHHHHhhhcCcccCCcccCcccchhhh--hhhhCCCCCCCeEEeecCCCCCHHHHHHHHHHHHhhc
Confidence 77754433 47999999999988883221124 66776554 3334456888888889887777777788888887544
Q ss_pred h
Q 044488 109 D 109 (125)
Q Consensus 109 ~ 109 (125)
+
T Consensus 139 ~ 139 (246)
T PRK10628 139 D 139 (246)
T ss_pred c
Confidence 3
No 142
>PF03481 SUA5: Putative GTP-binding controlling metal-binding; InterPro: IPR005145 The function of this domain is unknown, it is found in P32579 from SWISSPROT and its relatives. It is found C-terminal to the IPR006070 from INTERPRO.; PDB: 2EQA_A 3AJE_A 4E1B_A 2YV4_A.
Probab=24.12 E-value=1.6e+02 Score=19.72 Aligned_cols=53 Identities=11% Similarity=0.220 Sum_probs=29.9
Q ss_pred eeEEEeceeccCcccHHHHHHHHHc---cCCeeeEEeCCCCCCccchHHHHHHHHhc
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALC---HNNIETFIDNDLKRGDEISQSLLDTIEAS 79 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~---~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s 79 (125)
++.+++.+-.+.-...+..|+..|+ +.|+.+-+-+.+ +...+...|.+.|.++
T Consensus 68 ~~~~~~l~~~~d~~~~A~~Lf~~LR~~D~~~~~~I~ie~~-~~~~~g~Ai~dRL~RA 123 (125)
T PF03481_consen 68 FDIVYSLSLPGDPEEAARNLFAALRELDELGVDLILIEGP-PETGLGLAIMDRLRRA 123 (125)
T ss_dssp GSEEEEEESTTSHHHHHHHHHHHHHHHHHTT-SEEEEEEE-SGCCCHHHHHHHHHHH
T ss_pred cceEEEecCCCCHHHHHHHHHHHHHHHhhcCCCEEEEeeC-CCcCcHHHHHHHHHHh
Confidence 3555555433333578999999886 457664443322 3444555677766654
No 143
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=24.03 E-value=1.8e+02 Score=21.31 Aligned_cols=55 Identities=16% Similarity=0.233 Sum_probs=36.6
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccC-CeeeEEeCCCCCCccchHHHHHHHHhcceEEEEe
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHN-NIETFIDNDLKRGDEISQSLLDTIEASTISIIIF 86 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~-Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~Ivvl 86 (125)
.=+||...+.|. ..++....++|++. |+.+-.-..+. .+...+.|.+++.+++-=
T Consensus 33 ~i~~IptAs~~~-~~~~~~~~~a~~~l~G~~~~~~~~~~-----~~~~~~~l~~ad~I~l~G 88 (212)
T cd03146 33 KVLFVPTASGDR-DEYTARFYAAFESLRGVEVSHLHLFD-----TEDPLDALLEADVIYVGG 88 (212)
T ss_pred eEEEECCCCCCH-HHHHHHHHHHHhhccCcEEEEEeccC-----cccHHHHHhcCCEEEECC
Confidence 346888877654 46888899999998 88765422122 334567778888776644
No 144
>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=24.00 E-value=2.4e+02 Score=19.21 Aligned_cols=86 Identities=14% Similarity=0.089 Sum_probs=47.0
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhh
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 107 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~ 107 (125)
|++.=-+.|..+-=++-+...|+..|+.|-.- .+..-.+++.++..+.+.-++++|--.-...--..++...+
T Consensus 5 v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~l----g~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L--- 77 (132)
T TIGR00640 5 ILVAKMGQDGHDRGAKVIATAYADLGFDVDVG----PLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKEL--- 77 (132)
T ss_pred EEEEeeCCCccHHHHHHHHHHHHhCCcEEEEC----CCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHH---
Confidence 44444444542212233555788899998652 22333446667777778877777766654333334444443
Q ss_pred hhCCCEEEEEEee
Q 044488 108 HDYGQIVIPVFCR 120 (125)
Q Consensus 108 ~~~~~~IiPI~~~ 120 (125)
++.+..-++|+.+
T Consensus 78 ~~~g~~~i~vivG 90 (132)
T TIGR00640 78 DKLGRPDILVVVG 90 (132)
T ss_pred HhcCCCCCEEEEe
Confidence 3323335677775
No 145
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=23.95 E-value=2.8e+02 Score=19.92 Aligned_cols=52 Identities=10% Similarity=0.126 Sum_probs=30.9
Q ss_pred ccHHHHHHHHHcc-CCeeeEEeC--CCCCCc-------------cchHHHHHHHHhcceEEEEecCCccCc
Q 044488 39 DNFTSHLYSALCH-NNIETFIDN--DLKRGD-------------EISQSLLDTIEASTISIIIFSERYASS 93 (125)
Q Consensus 39 ~~fv~~L~~~L~~-~Gi~vf~d~--~~~~G~-------------~~~~~i~~aI~~s~~~IvvlS~~~~~S 93 (125)
+..++.+.+.++. .|..+-+-+ +..+++ +.. . .+.+.+++ .|++-||.|..+
T Consensus 16 ~~lA~~ia~g~~~~~G~ev~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~-~~~l~~aD-~ii~gsPty~g~ 83 (200)
T PRK03767 16 ETMAEAVAEGAREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAPVA-T-PDELADYD-AIIFGTPTRFGN 83 (200)
T ss_pred HHHHHHHHHHHhhcCCcEEEEEeccccCCHHHHHhcCCCcccCCCcc-C-HHHHHhCC-EEEEEecccCCC
Confidence 4678888888887 887653311 111110 111 1 45677888 577889988653
No 146
>PF01212 Beta_elim_lyase: Beta-eliminating lyase; InterPro: IPR001597 This domain is found in many tryptophanases (tryptophan indole-lyase, TNase), tyrosine phenol-lyases (TPL) and threonine aldolases. It is involved in the degradation of amino acids. The glycine cleavage system is composed of four proteins: P, T, L and H. In Bacillus subtilis, the P 'protein' is an heterodimer of two subunits. The glycine cleavage system catalyses the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO(2) is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein; GO: 0016829 lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3PJ0_C 2C44_C 2V0Y_A 2OQX_A 2V1P_A 1AX4_B 3LWS_A 1C7G_A 1V72_A 2YHK_B ....
Probab=23.94 E-value=3.2e+02 Score=21.17 Aligned_cols=53 Identities=21% Similarity=0.356 Sum_probs=32.8
Q ss_pred CccchHHHHHHHHh-----cceEEEEecCCcc---CchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 044488 65 GDEISQSLLDTIEA-----STISIIIFSERYA---SSGWCLDELLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 65 G~~~~~~i~~aI~~-----s~~~IvvlS~~~~---~S~wc~~El~~~~~~~~~~~~~IiPI~~~ 120 (125)
|.--.+.|..+++. .+.-+|.++..-. ...|.++||..+.+..++.+ +|++++
T Consensus 104 G~l~~~~l~~~~~~~~~h~~~~~~v~le~t~~~~GG~~~s~~el~ai~~~a~~~g---l~lhmD 164 (290)
T PF01212_consen 104 GKLTPEDLEAAIEEHGAHHPQPAVVSLENTTELAGGTVYSLEELRAISELAREHG---LPLHMD 164 (290)
T ss_dssp TBB-HHHHHHHHHHHTGTSGGEEEEEEESSBTTTTSB---HHHHHHHHHHHHHHT----EEEEE
T ss_pred CCCCHHHHHHHhhhccccCCCccEEEEEecCcCCCCeeCCHHHHHHHHHHHHhCc---eEEEEe
Confidence 55555678888877 5555555554443 67899999999998776544 666665
No 147
>PLN02866 phospholipase D
Probab=23.86 E-value=1.8e+02 Score=27.28 Aligned_cols=59 Identities=17% Similarity=0.228 Sum_probs=40.0
Q ss_pred CCCCccchHHHHHHHHhcceEEEE----ecCCcc-C---chhhHHHHHHHHHhhhhCCCEEEEEEee
Q 044488 62 LKRGDEISQSLLDTIEASTISIII----FSERYA-S---SGWCLDELLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 62 ~~~G~~~~~~i~~aI~~s~~~Ivv----lS~~~~-~---S~wc~~El~~~~~~~~~~~~~IiPI~~~ 120 (125)
+..|+..-.++.++|++++..|.| ++|.+. - .......|..++..+-+.|-.|--++|+
T Consensus 339 LvDG~dyF~AL~eAIe~AKesI~I~~WwlsPEiYL~Rp~~D~~g~RL~~lL~rKAkrGVkVrVLLyD 405 (1068)
T PLN02866 339 FIDGHAAFEAIASAIENAKSEIFITGWWLCPELYLRRPFHDHESSRLDSLLEAKAKQGVQIYILLYK 405 (1068)
T ss_pred EeCHHHHHHHHHHHHHhcccEEEEEEccCCceEEEEecCCCchHHHHHHHHHHHHHCCCEEEEEEEC
Confidence 345777778999999999999988 675542 1 2345567777776544456666655564
No 148
>PLN02449 ferrochelatase
Probab=23.78 E-value=3.7e+02 Score=22.86 Aligned_cols=79 Identities=19% Similarity=0.312 Sum_probs=43.6
Q ss_pred cHHHHHHHHHccCC--eeeEEeCCCCCCccchHHHHHHHHh---cceEEEEecCCccC--chhhHHHHHHHHHhhhh---
Q 044488 40 NFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEA---STISIIIFSERYAS--SGWCLDELLKILECKHD--- 109 (125)
Q Consensus 40 ~fv~~L~~~L~~~G--i~vf~d~~~~~G~~~~~~i~~aI~~---s~~~IvvlS~~~~~--S~wc~~El~~~~~~~~~--- 109 (125)
.-+..|.++|.+.| ++|++. +.-|.++..+..+.+.+ -+++++.+-|.|.. +.-+.+++..++.....
T Consensus 164 ~Qa~~Lq~~L~~~~~~~~V~~a--MRY~~P~iedal~~l~~~G~~~iVvLPLYPQyS~sTtgSs~~~l~~~~~~~~~~~~ 241 (485)
T PLN02449 164 EQAEALAKALEAKNLPAKVYVG--MRYWHPFTEEAIDQIKADGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN 241 (485)
T ss_pred HHHHHHHHHHhccCCCeEEEEh--hhcCCCCHHHHHHHHHhcCCCeEEEEECCcccccccHHHHHHHHHHHHhhcccccC
Confidence 34556777776665 555553 55566666555555553 34577778888753 34455566555532211
Q ss_pred CCCEEEEEEee
Q 044488 110 YGQIVIPVFCR 120 (125)
Q Consensus 110 ~~~~IiPI~~~ 120 (125)
-..++|+=+++
T Consensus 242 ~~~~~I~~~~~ 252 (485)
T PLN02449 242 MQHTVIPSWYQ 252 (485)
T ss_pred CeeEEeccccC
Confidence 12355655543
No 149
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=23.78 E-value=1.7e+02 Score=22.10 Aligned_cols=68 Identities=12% Similarity=0.086 Sum_probs=40.4
Q ss_pred ccHHHHHHHHHccCCeeeEEeCC--CCCCccchHHHHHHHHhcceEEEEecCCc----cCchhhHHHHHHHHHhhh
Q 044488 39 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIEASTISIIIFSERY----ASSGWCLDELLKILECKH 108 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~--~~~G~~~~~~i~~aI~~s~~~IvvlS~~~----~~S~wc~~El~~~~~~~~ 108 (125)
..++.+|.+.|.+.|+.+-.+.+ +-.|--+.-.. .-.+.++=++-+|-+. ..+.--..+|..++....
T Consensus 96 ~~la~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~--l~p~~~~Pvv~is~~~~~~p~~~~~~~~~lG~aL~~~~ 169 (272)
T PF02900_consen 96 PELAERIAEHLRKAGFDVAASPERGLDHGVWVPLYF--LFPDADIPVVPISINSFAPPSPSPERHYRLGRALRKAR 169 (272)
T ss_dssp HHHHHHHHHHHHHTTS-EEECSS--B-HHHHHHHHH--HCTT-SSEEEEEEEETSSS-TS-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCCEEeccCcCCccccceeeee--cccccCcceeeeEeecccccCCCHHHHHHHHHHHHHHH
Confidence 47999999999999998644333 55555433111 2224456566666655 555556668888877544
No 150
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=23.71 E-value=1.1e+02 Score=20.22 Aligned_cols=41 Identities=20% Similarity=0.223 Sum_probs=24.7
Q ss_pred HHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccC
Q 044488 48 ALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 92 (125)
Q Consensus 48 ~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~ 92 (125)
.++..|+.+|.- ...+.....+.+ +.+-++.|++++.+.+.
T Consensus 17 GFrLaGi~~~~v---~~~ee~~~~i~~-l~~~d~gII~Ite~~a~ 57 (104)
T PRK01395 17 PFKALGIDVFPV---IDEQEAINTLRK-LAMEDYGIIYITEQIAA 57 (104)
T ss_pred HHHHcCCeeEEe---cChHHHHHHHHH-HhcCCcEEEEEcHHHHH
Confidence 345668877653 233444444444 44567888988887765
No 151
>PF00113 Enolase_C: Enolase, C-terminal TIM barrel domain; InterPro: IPR020810 Enolase (2-phospho-D-glycerate hydrolase) is an essential glycolytic enzyme that catalyses the interconversion of 2-phosphoglycerate and phosphoenolpyruvate [, ]. In vertebrates, there are 3 different, tissue-specific isoenzymes, designated alpha, beta and gamma. Alpha is present in most tissues, beta is localised in muscle tissue, and gamma is found only in nervous tissue. The functional enzyme exists as a dimer of any 2 isoforms. In immature organs and in adult liver, it is usually an alpha homodimer, in adult skeletal muscle, a beta homodimer, and in adult neurons, a gamma homodimer. In developing muscle, it is usually an alpha/beta heterodimer, and in the developing nervous system, an alpha/gamma heterodimer []. The tissue specific forms display minor kinetic differences. Tau-crystallin, one of the major lens proteins in some fish, reptiles and birds, has been shown [] to be evolutionary related to enolase. Neuron-specific enolase is released in a variety of neurological diseases, such as multiple sclerosis and after seizures or acute stroke. Several tumour cells have also been found positive for neuron-specific enolase. Beta-enolase deficiency is associated with glycogenosis type XIII defect.; GO: 0000287 magnesium ion binding, 0004634 phosphopyruvate hydratase activity, 0006096 glycolysis, 0000015 phosphopyruvate hydratase complex; PDB: 2FYM_D 3H8A_C 1E9I_D 3TQP_B 2PU1_A 1OEP_A 2PA6_A 1PDY_A 1PDZ_A 3UJ2_E ....
Probab=23.53 E-value=90 Score=24.64 Aligned_cols=33 Identities=30% Similarity=0.464 Sum_probs=19.7
Q ss_pred CeeeEEEeceeccCcccHHHHHHHHHccCCeee
Q 044488 24 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIET 56 (125)
Q Consensus 24 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~v 56 (125)
..|.+.+||++.++...|+.+|.-+|...=+++
T Consensus 227 ~g~~~vvS~rsgEteD~~iadLaVg~~a~~iK~ 259 (295)
T PF00113_consen 227 AGWGVVVSHRSGETEDTFIADLAVGLGAGQIKT 259 (295)
T ss_dssp TT-EEEEE--SS--S--HHHHHHHHTT-SEEEE
T ss_pred CCceeeccCCCCCcCchhHHHHHhccCcCeEec
Confidence 458899999988888899999999987644433
No 152
>PRK12435 ferrochelatase; Provisional
Probab=23.40 E-value=3.7e+02 Score=21.16 Aligned_cols=52 Identities=13% Similarity=0.236 Sum_probs=29.8
Q ss_pred cHHHHHHHHHccC--C--eeeEEeCCCCCCccchHHHHHHHHh--cc-eEEEEecCCccCc
Q 044488 40 NFTSHLYSALCHN--N--IETFIDNDLKRGDEISQSLLDTIEA--ST-ISIIIFSERYASS 93 (125)
Q Consensus 40 ~fv~~L~~~L~~~--G--i~vf~d~~~~~G~~~~~~i~~aI~~--s~-~~IvvlS~~~~~S 93 (125)
..+..|.+.|... | +.|++. +.-|.+...+..+.+.+ ++ ++++.+.|.|..+
T Consensus 61 ~qa~~L~~~L~~~~~~~~~~V~~a--mry~~P~i~~~l~~l~~~g~~~iv~lpLyPqyS~~ 119 (311)
T PRK12435 61 EQAKALEKALNEVQDEVEFKLYLG--LKHIEPFIEDAVEQMHNDGIEEAISIVLAPHYSTF 119 (311)
T ss_pred HHHHHHHHHHhhccCCCCceEEEE--ecCCCCCHHHHHHHHHHcCCCeEEEEECCCccccc
Confidence 4556677777543 2 556554 55566655555555543 34 4555578887654
No 153
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=23.36 E-value=3.4e+02 Score=20.74 Aligned_cols=69 Identities=19% Similarity=0.183 Sum_probs=43.2
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVF 118 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~ 118 (125)
..+..+...|.+-|+++..-.+ ..........+..-+++|++--..+. .|+..+.+..++.|-+||-|.
T Consensus 143 ~vA~~~~~~l~~ig~~~~~~~d----~~~~~~~~~~~~~~Dv~i~iS~sG~t------~e~i~~a~~ak~~ga~vIaiT 211 (281)
T COG1737 143 LVASDLAYKLMRIGLNVVALSD----THGQLMQLALLTPGDVVIAISFSGYT------REIVEAAELAKERGAKVIAIT 211 (281)
T ss_pred HHHHHHHHHHHHcCCceeEecc----hHHHHHHHHhCCCCCEEEEEeCCCCc------HHHHHHHHHHHHCCCcEEEEc
Confidence 5788899999999999877433 11111122344445555554333333 488888887777888887764
No 154
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=23.11 E-value=1.4e+02 Score=17.68 Aligned_cols=31 Identities=13% Similarity=0.159 Sum_probs=22.7
Q ss_pred eEEEeceeccCcccHHHHHHHHHccCCeeeEEe
Q 044488 27 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFID 59 (125)
Q Consensus 27 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d 59 (125)
.+.|++...+ ..+++.+...|.+-|+..-+.
T Consensus 21 ~~~i~~~~~s--~~ll~~v~~lL~~lGi~~~i~ 51 (77)
T PF14528_consen 21 SVRISISSKS--KELLEDVQKLLLRLGIKASIY 51 (77)
T ss_dssp EEEEEEEES---HHHHHHHHHHHHHTT--EEEE
T ss_pred EEEEEEEECC--HHHHHHHHHHHHHCCCeeEEE
Confidence 6778887776 479999999999999977554
No 155
>KOG4764 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.00 E-value=56 Score=20.27 Aligned_cols=18 Identities=22% Similarity=0.421 Sum_probs=15.0
Q ss_pred cccHHHHHHHHHccCCee
Q 044488 38 RDNFTSHLYSALCHNNIE 55 (125)
Q Consensus 38 ~~~fv~~L~~~L~~~Gi~ 55 (125)
...|-.+|++.|++.|.+
T Consensus 51 eDDFS~QLkaELek~g~k 68 (70)
T KOG4764|consen 51 EDDFSNQLKAELEKKGHK 68 (70)
T ss_pred hhHHHHHHHHHHHhcccc
Confidence 347999999999998864
No 156
>PF12913 SH3_6: SH3 domain of the SH3b1 type; PDB: 3M1U_B.
Probab=22.86 E-value=34 Score=20.15 Aligned_cols=16 Identities=13% Similarity=0.258 Sum_probs=11.8
Q ss_pred eEEEeceeccCcccHH
Q 044488 27 GIFLSFRGEDTRDNFT 42 (125)
Q Consensus 27 DVFISys~~D~~~~fv 42 (125)
=|+|+|.++|..+.||
T Consensus 28 Pv~i~H~S~D~~W~fV 43 (54)
T PF12913_consen 28 PVYILHTSRDGAWAFV 43 (54)
T ss_dssp EEEEEEE-TTSSEEEE
T ss_pred CEEEEEECCCCCEEEE
Confidence 3899999999876554
No 157
>cd06338 PBP1_ABC_ligand_binding_like_5 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); however their ligand specificity has not been determined experimentally.
Probab=22.72 E-value=3.5e+02 Score=20.52 Aligned_cols=36 Identities=11% Similarity=0.162 Sum_probs=20.2
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHH
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLD 74 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~ 74 (125)
+..+..+...|++.|+++-....+.++ .++...+.+
T Consensus 155 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~v~~ 191 (345)
T cd06338 155 QDVAEGAREKAEAAGLEVVYDETYPPGTADLSPLISK 191 (345)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccCCCccchHHHHHH
Confidence 345666777777777776543334444 345444443
No 158
>cd06502 TA_like Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a secondary glycine biosynthetic pathway.
Probab=22.64 E-value=2.3e+02 Score=21.45 Aligned_cols=43 Identities=19% Similarity=0.203 Sum_probs=26.2
Q ss_pred hHHHHHHHHh-------cceEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 044488 69 SQSLLDTIEA-------STISIIIFSERYASSGWCLDELLKILECKHDYG 111 (125)
Q Consensus 69 ~~~i~~aI~~-------s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~ 111 (125)
.+.+.++|.. -..+|++.+|+-..+-+...++..+.+..++.+
T Consensus 110 ~~~l~~~i~~~~~~~~~~~~~v~l~~p~n~g~~~~~~~l~~i~~~~~~~~ 159 (338)
T cd06502 110 PEDLEAAIRPRDDIHFPPPSLVSLENTTEGGTVYPLDELKAISALAKENG 159 (338)
T ss_pred HHHHHHHhhccCCCcCCcceEEEEEeecCCccccCHHHHHHHHHHHHHcC
Confidence 3577777764 235666667776555556667777766554433
No 159
>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=22.62 E-value=2.6e+02 Score=19.40 Aligned_cols=31 Identities=13% Similarity=0.147 Sum_probs=17.3
Q ss_pred EEeceeccCcccHHHHHHHHHccCCeeeEEe
Q 044488 29 FLSFRGEDTRDNFTSHLYSALCHNNIETFID 59 (125)
Q Consensus 29 FISys~~D~~~~fv~~L~~~L~~~Gi~vf~d 59 (125)
.|+++|.+....++..|.+.+.++|++++++
T Consensus 64 gVt~SGGEl~~~~l~~ll~~lk~~Gl~i~l~ 94 (147)
T TIGR02826 64 CVLFLGGEWNREALLSLLKIFKEKGLKTCLY 94 (147)
T ss_pred EEEEechhcCHHHHHHHHHHHHHCCCCEEEE
Confidence 4666655432244455555666667766664
No 160
>cd02168 NMNAT_Nudix Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain. N-terminal NMNAT (Nicotinamide/nicotinate mononucleotide adenylyltransferase) domain of a novel bifunctional enzyme endowed with NMN adenylyltransferase and Nudix hydrolase activities. This domain is highly homologous to the archeal NMN adenyltransferase that catalyzes NAD synthesis from NMN and ATP. NMNAT is an essential enzyme in the biosynthesis of NAD(+) and NADP(+). Nicotinamide-nucleotide adenylyltransferase synthesizes NAD via the salvage pathway, while nicotinate-nucleotide adenylyltransferase synthesizes the immediate precursor of NAD via the de novo pathway. The C-terminal domain of this enzyme shares homology with the archaeal ADP-ribose pyrophosphatase, a member of the 'Nudix' hydrolase family.
Probab=22.60 E-value=2.5e+02 Score=20.27 Aligned_cols=15 Identities=27% Similarity=0.412 Sum_probs=7.6
Q ss_pred HHHHHHhcceEEEEe
Q 044488 72 LLDTIEASTISIIIF 86 (125)
Q Consensus 72 i~~aI~~s~~~Ivvl 86 (125)
+..+++.++.+++++
T Consensus 19 i~~a~~~~~~vii~i 33 (181)
T cd02168 19 VLIALEKAKKVIILI 33 (181)
T ss_pred HHHHHHHCCeEEEEe
Confidence 444555555555444
No 161
>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=22.51 E-value=2.8e+02 Score=21.87 Aligned_cols=65 Identities=22% Similarity=0.355 Sum_probs=37.5
Q ss_pred cHHHHHHHHHccCC--eeeEEeCCCCCCccchHHHHHHHHh--c-ceEEEEecCCccC--chhhHHHHHHHHHh
Q 044488 40 NFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEA--S-TISIIIFSERYAS--SGWCLDELLKILEC 106 (125)
Q Consensus 40 ~fv~~L~~~L~~~G--i~vf~d~~~~~G~~~~~~i~~aI~~--s-~~~IvvlS~~~~~--S~wc~~El~~~~~~ 106 (125)
..+..|.+.|...| +.|+.. +.-|.+...+..+.+.+ + +++++.+.|.|.. ..-+.+++..++..
T Consensus 73 ~qa~~l~~~L~~~~~~~~V~~a--mry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS~~ttgs~~~~~~~~~~~ 144 (316)
T PF00762_consen 73 RQAEALQQRLDERGVDVEVYYA--MRYGPPSIEDALEELKADGVDRIVVLPLYPQYSSSTTGSYLDEVERALKK 144 (316)
T ss_dssp HHHHHHHHHHHHH-EEEEEEEE--ESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--TTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCeeEEEE--eccCCCCHHHHHHHHHHcCCCeEEEEeCCCchhHhhHHHHHHHHHHHHHh
Confidence 45666777777664 444443 66666666666665553 3 4567788888873 44456666666654
No 162
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=22.47 E-value=2.5e+02 Score=23.01 Aligned_cols=26 Identities=19% Similarity=0.212 Sum_probs=15.3
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCC
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKR 64 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~ 64 (125)
...+..|.++|++.|+.+-....+..
T Consensus 186 ~~~~~~~~~~~~~~gi~I~~~~~i~~ 211 (469)
T cd06365 186 EQFLSDLREEMQRNGICLAFVEKIPV 211 (469)
T ss_pred HHHHHHHHHHHHHCCeEEEEEEEecC
Confidence 35566677777777776654433433
No 163
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=22.45 E-value=2.9e+02 Score=20.79 Aligned_cols=68 Identities=15% Similarity=0.276 Sum_probs=26.3
Q ss_pred eeeE-EEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHH-hcce-EEEEecCCccCch
Q 044488 25 KHGI-FLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE-ASTI-SIIIFSERYASSG 94 (125)
Q Consensus 25 ~yDV-FISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~-~s~~-~IvvlS~~~~~S~ 94 (125)
.++| |+-+...+....|...|...|++.|+..+.- ..||+....+-.+.+. +..+ +-++=++.|+.+.
T Consensus 62 G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~--~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~ 132 (224)
T PF04244_consen 62 GFRVHYIELDDPENTQSFEDALARALKQHGIDRLHV--MEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSR 132 (224)
T ss_dssp T--EEEE-TT-TT--SSHHHHHHHHHHHH----EEE--E--S-HHHHHHHHH----SSS-EEEE--TTSSS-H
T ss_pred CCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEE--ECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCH
Confidence 3445 4444322222367778888887777654331 3566654433333322 2333 4555677787744
No 164
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=22.21 E-value=1.4e+02 Score=20.08 Aligned_cols=58 Identities=14% Similarity=0.071 Sum_probs=35.6
Q ss_pred CeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHh--cceEEEEe
Q 044488 24 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEA--STISIIIF 86 (125)
Q Consensus 24 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~--s~~~Ivvl 86 (125)
...-|.|+|-.......++..+...|...|++|+.-. .--.+.+.-++.+ +...|.|-
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g-----~~~tP~~~~~~~~~~~~ggi~iT 98 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIG-----LVPTPALSFAIRQLNADGGIMIT 98 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEE-----EB-HHHHHHHHHHHTESEEEEE-
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhccccccccc-----ccCcHHhhhhccccccceeeEEE
Confidence 4567889886555556788888889999999987522 2222345555555 45444443
No 165
>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=22.16 E-value=1.5e+02 Score=21.19 Aligned_cols=44 Identities=20% Similarity=0.243 Sum_probs=24.5
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEE
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISI 83 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~I 83 (125)
.....|.+.|+..|+.+-.-.-+... +.+.+.+.++++.++++|
T Consensus 19 ~n~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~dlVI 63 (170)
T cd00885 19 TNAAFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERADLVI 63 (170)
T ss_pred hHHHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCCEEE
Confidence 45667889999999876432112111 234455555555555433
No 166
>COG2861 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.05 E-value=3.8e+02 Score=20.79 Aligned_cols=32 Identities=16% Similarity=0.300 Sum_probs=16.6
Q ss_pred HHHHHHHHHccCCeeeEEeCCCCCCccchHHHHH
Q 044488 41 FTSHLYSALCHNNIETFIDNDLKRGDEISQSLLD 74 (125)
Q Consensus 41 fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~ 74 (125)
....|.++|..+|+ .|+|+. ..|......|..
T Consensus 139 aM~~~m~~Lk~r~l-~flDs~-T~a~S~a~~iAk 170 (250)
T COG2861 139 AMEKLMEALKERGL-YFLDSG-TIANSLAGKIAK 170 (250)
T ss_pred HHHHHHHHHHHCCe-EEEccc-ccccchhhhhHh
Confidence 44567777777776 345543 233333333433
No 167
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to 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. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=21.87 E-value=3.7e+02 Score=20.55 Aligned_cols=67 Identities=10% Similarity=0.083 Sum_probs=43.4
Q ss_pred ccHHHHHHHHHccCCeeeEEeCC--CCCCccchHHHHHHHHhcceEEEEecCCccC----chhhHHHHHHHHHhh
Q 044488 39 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIEASTISIIIFSERYAS----SGWCLDELLKILECK 107 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~--~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~----S~wc~~El~~~~~~~ 107 (125)
..++.+|.+.|.+.|+.+-.+.+ +-.|--.+-.... .+.++=||-+|-|... +..-..+|..++...
T Consensus 90 ~~LA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~--p~~~iPvV~isin~~~~p~~~~~~~~~lG~al~~~ 162 (268)
T cd07367 90 REFARAFVRQAAEDGFDLAQAEELRPDHGVMVPLLFMG--PKLDIPVVPLIVNINTDPAPSPRRCWALGKVLAQY 162 (268)
T ss_pred HHHHHHHHHHHHHcCCCeeeecCccCCcchhchHHHhC--CCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHH
Confidence 47999999999999998766544 5566555433322 2245545555554443 566777888888754
No 168
>PF02230 Abhydrolase_2: Phospholipase/Carboxylesterase; InterPro: IPR003140 This entry represents the alpha/beta hydrolase domain found in phospholipases [], carboxylesterases [] and thioesterases.; GO: 0016787 hydrolase activity; PDB: 3U0V_A 1AUR_A 1AUO_B 1FJ2_B 3CN9_A 3CN7_A.
Probab=21.80 E-value=2.4e+02 Score=20.23 Aligned_cols=48 Identities=21% Similarity=0.175 Sum_probs=28.0
Q ss_pred eeeEEEeceeccCc--ccHHHHHHHHHccCCeeeEEeCCCC-CCccchHHHH
Q 044488 25 KHGIFLSFRGEDTR--DNFTSHLYSALCHNNIETFIDNDLK-RGDEISQSLL 73 (125)
Q Consensus 25 ~yDVFISys~~D~~--~~fv~~L~~~L~~~Gi~vf~d~~~~-~G~~~~~~i~ 73 (125)
..-||+.|...|.- ...+..+.+.|+..|.++-+.. .. .|..+..+..
T Consensus 155 ~~pi~~~hG~~D~vvp~~~~~~~~~~L~~~~~~v~~~~-~~g~gH~i~~~~~ 205 (216)
T PF02230_consen 155 KTPILIIHGDEDPVVPFEWAEKTAEFLKAAGANVEFHE-YPGGGHEISPEEL 205 (216)
T ss_dssp TS-EEEEEETT-SSSTHHHHHHHHHHHHCTT-GEEEEE-ETT-SSS--HHHH
T ss_pred CCcEEEEecCCCCcccHHHHHHHHHHHHhcCCCEEEEE-cCCCCCCCCHHHH
Confidence 45699999888863 3467889999999988654422 23 4555554433
No 169
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=21.65 E-value=4.3e+02 Score=21.21 Aligned_cols=78 Identities=19% Similarity=0.328 Sum_probs=45.9
Q ss_pred HHHHHHHHHccC----CeeeEEeCCCCCCccchHHHHHHHHhcc---eEEEEecCCccCc--hhhHHHHHHHHHhhhh-C
Q 044488 41 FTSHLYSALCHN----NIETFIDNDLKRGDEISQSLLDTIEAST---ISIIIFSERYASS--GWCLDELLKILECKHD-Y 110 (125)
Q Consensus 41 fv~~L~~~L~~~----Gi~vf~d~~~~~G~~~~~~i~~aI~~s~---~~IvvlS~~~~~S--~wc~~El~~~~~~~~~-~ 110 (125)
+.+.+.++|+++ .++|++. ++-|.++.++..+.+.... ++++.+.|.|..+ .-..+++..++...+. .
T Consensus 74 ~T~~q~~~L~~~L~~~~~~V~~a--mry~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~~al~~~~~~~ 151 (320)
T COG0276 74 ITRAQAAALEERLDLPDFKVYLA--MRYGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELARALKELRGQP 151 (320)
T ss_pred HHHHHHHHHHHHhCCCCccEEEe--ecCCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHHHHHHhcCCCC
Confidence 334444555433 4666664 5666666666666666533 5777888888643 3345677777764432 2
Q ss_pred CCEEEEEEee
Q 044488 111 GQIVIPVFCR 120 (125)
Q Consensus 111 ~~~IiPI~~~ 120 (125)
....||-||+
T Consensus 152 ~i~~I~~~~~ 161 (320)
T COG0276 152 KISTIPDYYD 161 (320)
T ss_pred ceEEecCccC
Confidence 3467777664
No 170
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=21.44 E-value=3.7e+02 Score=20.42 Aligned_cols=19 Identities=16% Similarity=0.099 Sum_probs=10.1
Q ss_pred cHHHHHHHHHccCCeeeEE
Q 044488 40 NFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~ 58 (125)
..+..+.+.+++.|+++-.
T Consensus 152 ~~~~~~~~~~~~~g~~v~~ 170 (344)
T cd06348 152 SETEIFQKALRDQGLNLVT 170 (344)
T ss_pred HHHHHHHHHHHHcCCEEEE
Confidence 3445555555556655543
No 171
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=21.33 E-value=2.9e+02 Score=19.04 Aligned_cols=23 Identities=13% Similarity=0.076 Sum_probs=18.3
Q ss_pred ccHHHHHHHHHccCCeeeEEeCC
Q 044488 39 DNFTSHLYSALCHNNIETFIDND 61 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~ 61 (125)
..++..|.+.|++.|++|.+.+.
T Consensus 28 ~~ia~~l~~~L~~~G~~v~~~r~ 50 (172)
T cd02696 28 LAIALKLAKLLEAAGAKVVLTRD 50 (172)
T ss_pred HHHHHHHHHHHHHCCCEEEEEec
Confidence 46778888999999999987543
No 172
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.28 E-value=1.7e+02 Score=16.34 Aligned_cols=33 Identities=9% Similarity=0.116 Sum_probs=23.8
Q ss_pred CCeeeEEEeceeccCcccHHHHHHHHHccCCeeeE
Q 044488 23 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETF 57 (125)
Q Consensus 23 ~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf 57 (125)
...+.+++.....+. .-...+.+.|+..|++++
T Consensus 40 ~~~~~~~i~v~~~~~--~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 40 LGEVEVELTLETRGA--EHIEEIIAALREAGYDVR 72 (73)
T ss_pred CceEEEEEEEEeCCH--HHHHHHHHHHHHcCCEEe
Confidence 356778888766553 235688899999998875
No 173
>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=21.00 E-value=1.6e+02 Score=19.67 Aligned_cols=45 Identities=18% Similarity=0.153 Sum_probs=24.8
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHHhcceEEE
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISII 84 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~~s~~~Iv 84 (125)
.....|.+.|++.|+.+..-.-+... +.+.+.+.+++++++++|.
T Consensus 18 ~~~~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dliit 63 (135)
T smart00852 18 SNGPALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADLVIT 63 (135)
T ss_pred CcHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCEEEE
Confidence 34557888899999876432212211 2344555556655664333
No 174
>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=20.96 E-value=2.1e+02 Score=19.57 Aligned_cols=33 Identities=24% Similarity=0.233 Sum_probs=23.9
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND 61 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~ 61 (125)
.-+.|.. +|. ..|...|.+.|+.+|+-|--+..
T Consensus 25 Tt~~L~q--~~~-d~Fg~aL~~~LR~~GYaV~e~~~ 57 (121)
T PF07283_consen 25 TTFELKQ--KDP-DPFGQALENALRAKGYAVIEDDP 57 (121)
T ss_pred cEEEEEc--CCC-ChHHHHHHHHHHhcCcEEEecCC
Confidence 3445533 443 37999999999999998877653
No 175
>PF05013 FGase: N-formylglutamate amidohydrolase; InterPro: IPR007709 Formylglutamate amidohydrolase (FGase) catalyzes the terminal reaction in the five-step pathway for histidine utilization in Pseudomonas putida. By this action, N-formyl-L-glutamate (FG) is hydrolyzed to produce L-glutamate plus formate [].; PDB: 2ODF_G 2Q7S_A.
Probab=20.83 E-value=1.6e+02 Score=21.71 Aligned_cols=59 Identities=15% Similarity=0.204 Sum_probs=34.9
Q ss_pred cceeeecccCCCCCCCCeeeEEEeceeccC-cccHHHHHHHHHc-cCCeeeEEeCCCCCCc
Q 044488 8 YDVSVMASSSPSPRNSNKHGIFLSFRGEDT-RDNFTSHLYSALC-HNNIETFIDNDLKRGD 66 (125)
Q Consensus 8 ~~~~~~~~s~~~~~~~~~yDVFISys~~D~-~~~fv~~L~~~L~-~~Gi~vf~d~~~~~G~ 66 (125)
+|.-+|.+...........|+-|+-....+ ...++..+.+.|+ ..|++|-.+.-+..|.
T Consensus 136 ld~HS~~~~~~~~~~~~~~~~~lG~~~~~s~~~~l~~~~~~~l~~~~g~~v~~N~Py~Gg~ 196 (222)
T PF05013_consen 136 LDCHSMPPVPPGREDDPRPDIVLGTLHGPSCDPELVDALAEALEASDGYSVRVNEPYSGGY 196 (222)
T ss_dssp EEEEEE-TCCCCCCT----SECEECCTTTSS-HHHHHHHHHHCC-CTTS-EEETSS--GGH
T ss_pred EEeccCCCcccccccCCCCCeEEEcCCCCCCCHHHHHHHHHHhhcccCcEEeeCCCCCCcc
Confidence 355566666444443355788888866544 4689999999999 8899888765455543
No 176
>PF15221 LEP503: Lens epithelial cell protein LEP503
Probab=20.82 E-value=53 Score=19.57 Aligned_cols=45 Identities=27% Similarity=0.504 Sum_probs=24.5
Q ss_pred HHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHH
Q 044488 45 LYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELL 101 (125)
Q Consensus 45 L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~ 101 (125)
+..+|...|++|=. ++-|..|. -+.+.+.+...+++ --||.+||.
T Consensus 16 ~~~~l~dtglrvpv---~KmGtgwe-G~~~tLKe~aYilL--------CCWCIKelL 60 (61)
T PF15221_consen 16 LGRALRDTGLRVPV---IKMGTGWE-GLQQTLKEVAYILL--------CCWCIKELL 60 (61)
T ss_pred ccccccccccCCce---eeecchHH-HHHHHHHHHHHHHH--------HHHHHHHHc
Confidence 44556666776544 33455554 34445555444332 249998873
No 177
>KOG3573 consensus Caspase, apoptotic cysteine protease [Cell cycle control, cell division, chromosome partitioning]
Probab=20.81 E-value=61 Score=25.19 Aligned_cols=27 Identities=19% Similarity=0.268 Sum_probs=17.4
Q ss_pred EEeceeccCcccHHHHHHHHHccCCee
Q 044488 29 FLSFRGEDTRDNFTSHLYSALCHNNIE 55 (125)
Q Consensus 29 FISys~~D~~~~fv~~L~~~L~~~Gi~ 55 (125)
|+||++.+..-.|+..|...|.+++-+
T Consensus 231 ~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 231 YVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred ceeeecCCCceeeHHHHHHHHHHhcch
Confidence 444444444557888888888776654
No 178
>COG3384 Aromatic ring-opening dioxygenase, catalytic LigB subunit related enzyme [Amino acid transport and metabolism]
Probab=20.76 E-value=3.4e+02 Score=21.29 Aligned_cols=71 Identities=15% Similarity=0.087 Sum_probs=52.6
Q ss_pred ccHHHHHHHHHccCCeeeEEeCC-CCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 044488 39 DNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYG 111 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~ 111 (125)
..++..|.+.|...|+..=-.+. +..|.... +.-.-.++++=||=+|-+...|+-+..||..++...++.+
T Consensus 92 peLa~~i~~~l~~~~v~a~~~~~gLDHGtwvp--L~~M~PdadipVV~iSi~~~~~~~~h~~lG~al~~lree~ 163 (268)
T COG3384 92 PELAQRIVELLAKLGVPADAPSWGLDHGTWVP--LRYMFPDADIPVVQISIDCTLSPADHYELGRALRKLREEG 163 (268)
T ss_pred HHHHHHHHHHhcccCccccCCccCCCccceee--ehhhCCccCCcEEEEecCCCCCHHHHHHHHHHHHHHHhCC
Confidence 47999999999988886533344 77776655 3344567888888888888878999999999887665444
No 179
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=20.68 E-value=56 Score=24.37 Aligned_cols=33 Identities=18% Similarity=0.459 Sum_probs=23.7
Q ss_pred ceeccCcccHHHHHHHHHccCCeeeEE-eCC-CCCC
Q 044488 32 FRGEDTRDNFTSHLYSALCHNNIETFI-DND-LKRG 65 (125)
Q Consensus 32 ys~~D~~~~fv~~L~~~L~~~Gi~vf~-d~~-~~~G 65 (125)
-|+.-+ ...+..|.+.|.++|+++++ |.+ +..|
T Consensus 31 LSGsGK-STiA~ale~~L~~~G~~~y~LDGDnvR~g 65 (197)
T COG0529 31 LSGSGK-STIANALEEKLFAKGYHVYLLDGDNVRHG 65 (197)
T ss_pred CCCCCH-HHHHHHHHHHHHHcCCeEEEecChhHhhc
Confidence 344433 37899999999999999986 544 4443
No 180
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=20.68 E-value=1.1e+02 Score=21.97 Aligned_cols=29 Identities=7% Similarity=0.171 Sum_probs=22.4
Q ss_pred EEeceeccCcccHHHHHHHHHccCCeeeEE
Q 044488 29 FLSFRGEDTRDNFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 29 FISys~~D~~~~fv~~L~~~L~~~Gi~vf~ 58 (125)
|+.|+..-. ..+++.|.+.|..+|++|-.
T Consensus 7 ivG~k~SGK-TTLie~lv~~L~~~G~rVa~ 35 (161)
T COG1763 7 IVGYKNSGK-TTLIEKLVRKLKARGYRVAT 35 (161)
T ss_pred EEecCCCCh-hhHHHHHHHHHHhCCcEEEE
Confidence 556654432 47999999999999999875
No 181
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=20.67 E-value=3.3e+02 Score=21.54 Aligned_cols=36 Identities=19% Similarity=0.335 Sum_probs=27.9
Q ss_pred eeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCC
Q 044488 26 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND 61 (125)
Q Consensus 26 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~ 61 (125)
.++-||..|+-.-+.++..|.+.+.++|+.++++..
T Consensus 131 ~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~TN 166 (322)
T PRK13762 131 KHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVTN 166 (322)
T ss_pred CEEEEeCCccccchhhHHHHHHHHHHcCCCEEEECC
Confidence 367888777765455677888888899999999765
No 182
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=20.64 E-value=2.3e+02 Score=22.65 Aligned_cols=39 Identities=10% Similarity=0.185 Sum_probs=25.8
Q ss_pred CCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHH
Q 044488 63 KRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKI 103 (125)
Q Consensus 63 ~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~ 103 (125)
-|.....+.+.++++.--..++++|..|.... ..++..+
T Consensus 96 VPa~~v~dai~Ea~~aGI~~~ViiteGfpe~d--~~~l~~~ 134 (317)
T PTZ00187 96 VPPPHAASAIIEAIEAEIPLVVCITEGIPQHD--MVKVKHA 134 (317)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEEECCCCchhh--HHHHHHH
Confidence 45566667777777766677888888887654 3444433
No 183
>PLN02187 rooty/superroot1
Probab=20.61 E-value=2.3e+02 Score=23.31 Aligned_cols=42 Identities=14% Similarity=0.341 Sum_probs=28.3
Q ss_pred HHHHHHHHhcceEEEEecCCcc-CchhhHHHHHHHHHhhhhCC
Q 044488 70 QSLLDTIEASTISIIIFSERYA-SSGWCLDELLKILECKHDYG 111 (125)
Q Consensus 70 ~~i~~aI~~s~~~IvvlS~~~~-~S~wc~~El~~~~~~~~~~~ 111 (125)
+.+.+++..-...+++.+|+-- ..-|-.+|+..+++..++.+
T Consensus 195 ~~l~~~~~~~~~~v~i~nP~NPTG~v~s~e~l~~i~~~a~~~~ 237 (462)
T PLN02187 195 EGIEAIADENTVAMVVINPNNPCGNVYSHDHLKKVAETARKLG 237 (462)
T ss_pred HHHHHhcCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHHHHCC
Confidence 4565666555678888898854 34566778888887665544
No 184
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=20.59 E-value=77 Score=22.87 Aligned_cols=22 Identities=18% Similarity=0.326 Sum_probs=16.3
Q ss_pred cceEEEEecCC--ccCchhhHHHH
Q 044488 79 STISIIIFSER--YASSGWCLDEL 100 (125)
Q Consensus 79 s~~~IvvlS~~--~~~S~wc~~El 100 (125)
....++.+|-+ |+++.||-.|=
T Consensus 75 ~~~~Vl~IS~DLPFAq~RfC~aeG 98 (158)
T COG2077 75 GNTVVLCISMDLPFAQKRFCGAEG 98 (158)
T ss_pred CCcEEEEEeCCChhHHhhhhhhcC
Confidence 34667777777 78999998763
No 185
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.57 E-value=3.6e+02 Score=22.48 Aligned_cols=62 Identities=16% Similarity=0.222 Sum_probs=41.1
Q ss_pred CCeeeEEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecC
Q 044488 23 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 88 (125)
Q Consensus 23 ~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~ 88 (125)
....||||..-+++. ...+-.|...|+..|+++=++-. +..+..++..|-+.--.+++++..
T Consensus 333 ~~~~~v~v~~~~~~~-~~~a~~la~~LR~~g~~~~~~~~---~r~~k~q~k~A~~~g~~~~viiGe 394 (429)
T COG0124 333 ETRVDVYVVPLGEDA-EPEALKLAQKLRAAGISVEVDYS---GRKLKKQFKYADKLGARFAVILGE 394 (429)
T ss_pred CCCCCEEEEEcCchh-HHHHHHHHHHHHHcCCcEEEEec---cccHHHHHHHHHHCCCCEEEEEcc
Confidence 456899999887765 35677899999999999877642 222666666665533334444433
No 186
>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=20.37 E-value=2.9e+02 Score=18.82 Aligned_cols=63 Identities=16% Similarity=0.119 Sum_probs=34.2
Q ss_pred cHHHHHHHHHc--cCCeeeEEeCCCCCCccchHHHHHHHHhc----ceEEEEecCCccCc-hhhHHHHHH
Q 044488 40 NFTSHLYSALC--HNNIETFIDNDLKRGDEISQSLLDTIEAS----TISIIIFSERYASS-GWCLDELLK 102 (125)
Q Consensus 40 ~fv~~L~~~L~--~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s----~~~IvvlS~~~~~S-~wc~~El~~ 102 (125)
..+..|.+.|. ...+.+.+=.+.-+++.+.+.+.++|++. -.-|+|+.+.|+.. -=.+.|+..
T Consensus 45 ~~~~~v~~~l~~~~~~~~~~fqS~~g~~~Wl~P~~~~~l~~l~~~G~~~i~v~p~gF~~D~~Etl~di~~ 114 (135)
T cd00419 45 ETARLVAERLGLPFDEYELAYQSRFGPGEWLEPSTDDALEELAKEGVKNVVVVPIGFVSDHLETLYELDI 114 (135)
T ss_pred HHHHHHHHHhCCCCCCEEEEecCCCCCCCCCCCCHHHHHHHHHHcCCCeEEEECCccccccHHHHHHHHH
Confidence 34556666665 33344433333445555555666665432 24688899999864 112335544
No 187
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=20.35 E-value=81 Score=23.04 Aligned_cols=20 Identities=15% Similarity=0.167 Sum_probs=17.6
Q ss_pred ccHHHHHHHHHccCCeeeEE
Q 044488 39 DNFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~ 58 (125)
..|+..|..+|+++|+.|-.
T Consensus 19 ~~f~~~LaRa~e~RGf~v~~ 38 (182)
T COG4567 19 TPFLRTLARAMERRGFAVVT 38 (182)
T ss_pred hHHHHHHHHHHhccCceeEe
Confidence 58999999999999997654
No 188
>PF00117 GATase: Glutamine amidotransferase class-I; InterPro: IPR017926 Glutamine amidotransferase (GATase) enzymes catalyse the removal of the ammonia group from glutamine and then transfer this group to a substrate to form a new carbon-nitrogen group []. The GATase domain exists either as a separate polypeptidic subunit or as part of a larger polypeptide fused in different ways to a synthase domain. Two classes of GATase domains have been identified [, ]: class-I (also known as trpG-type or triad) and class-II (also known as purF-type or Ntn). Class-I (or type 1) GATase domains have been found in the following enzymes: The second component of anthranilate synthase (AS) []. AS catalyzes the biosynthesis of anthranilate from chorismate and glutamine. AS is generally a dimeric enzyme: the first component can synthesize anthranilate using ammonia rather than glutamine, whereas component II provides the GATase activity []. In some bacteria and in fungi the GATase component of AS is part of a multifunctional protein that also catalyzes other steps of the biosynthesis of tryptophan. The second component of 4-amino-4-deoxychorismate (ADC) synthase, a dimeric prokaryotic enzyme that functions in the pathway that catalyzes the biosynthesis of para-aminobenzoate (PABA) from chorismate and glutamine. The second component (gene pabA) provides the GATase activity []. CTP synthase. CTP synthase catalyzes the final reaction in the biosynthesis of pyrimidine, the ATP-dependent formation of CTP from UTP and glutamine. CTP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the C-terminal section []. GMP synthase (glutamine-hydrolyzing). GMP synthase catalyzes the ATP-dependent formation of GMP from xanthosine 5'-phosphate and glutamine. GMP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the N-terminal section [, ]. Glutamine-dependent carbamoyl-phosphate synthase (GD-CPSase); an enzyme involved in both arginine and pyrimidine biosynthesis and which catalyzes the ATP-dependent formation of carbamoyl phosphate from glutamine and carbon dioxide. In bacteria GD-CPSase is composed of two subunits: the large chain (gene carB) provides the CPSase activity, while the small chain (gene carA) provides the GATase activity. In yeast the enzyme involved in arginine biosynthesis is also composed of two subunits: CPA1 (GATase), and CPA2 (CPSase). In most eukaryotes, the first three steps of pyrimidine biosynthesis are catalyzed by a large multifunctional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals). The GATase domain is located at the N-terminal extremity of this polyprotein []. Phosphoribosylformylglycinamidine synthase, an enzyme that catalyzes the fourth step in the de novo biosynthesis of purines. In some species of bacteria and rchaea, FGAM synthase II is composed of two subunits: a small chain (gene purQ) which provides the GATase activity and a large chain (gene purL) which provides the aminator activity. In eukaryotes and Gram-negative bacteria a single polypeptide (large type of purL) contains a FGAM synthethase domain and the GATase as the C-terminal domain []. Imidazole glycerol phosphate synthase subunit hisH, an enzyme that catalyzes the fifth step in the biosynthesis of histidine. A triad of conserved Cys-His-Glu forms the active site, wherein the catalytic cysteine is essential for the amidotransferase activity [, ]. Different structures show that the active site Cys of type 1 GATase is located at the tip of a nucleophile elbow.; PDB: 1I7S_D 1I7Q_D 3UOW_B 1GPM_C 1O1Y_A 2VXO_A 2VPI_B 1OX5_B 1OX6_B 1OX4_B ....
Probab=20.34 E-value=3.1e+02 Score=19.13 Aligned_cols=74 Identities=15% Similarity=0.205 Sum_probs=41.5
Q ss_pred ccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 044488 39 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVF 118 (125)
Q Consensus 39 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~ 118 (125)
..|...|..+|++.|+.+-+.. ... .. ....+.+.+.+.+|+.=++..... ...+..+++...+.+.+|+=|.
T Consensus 7 ~~~~~~l~~~l~~~~~~~~v~~-~~~--~~-~~~~~~~~~~d~iii~Gg~~~~~d---~~~~~~~i~~~~~~~~PilGIC 79 (192)
T PF00117_consen 7 DSFTHSLVRALRELGIDVEVVR-VDS--DF-EEPLEDLDDYDGIIISGGPGSPYD---IEGLIELIREARERKIPILGIC 79 (192)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEE-TTG--GH-HHHHHHTTTSSEEEEECESSSTTS---HHHHHHHHHHHHHTTSEEEEET
T ss_pred HHHHHHHHHHHHHCCCeEEEEE-CCC--ch-hhhhhhhcCCCEEEECCcCCcccc---ccccccccccccccceEEEEEe
Confidence 4688899999999997664432 111 11 112123566677777667776665 3444444444444455665554
Q ss_pred e
Q 044488 119 C 119 (125)
Q Consensus 119 ~ 119 (125)
+
T Consensus 80 ~ 80 (192)
T PF00117_consen 80 L 80 (192)
T ss_dssp H
T ss_pred e
Confidence 3
No 189
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=20.33 E-value=1.9e+02 Score=18.53 Aligned_cols=54 Identities=17% Similarity=0.367 Sum_probs=32.0
Q ss_pred EEEeceeccCcccHHHHHHHHHccCCeeeEEeCCCCCCccchHHHHHHHHhcceEEEEec
Q 044488 28 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFS 87 (125)
Q Consensus 28 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS 87 (125)
+++..........|...|..+|...... -...+.+.+.+.+.+.+.+..++|+.
T Consensus 41 ~~~~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~l~~~~~~~l~~~~~~~lviD 94 (131)
T PF13401_consen 41 IYVNCPSSRTPRDFAQEILEALGLPLKS------RQTSDELRSLLIDALDRRRVVLLVID 94 (131)
T ss_dssp EEEEHHHHSSHHHHHHHHHHHHT-SSSS------TS-HHHHHHHHHHHHHHCTEEEEEEE
T ss_pred EEEEeCCCCCHHHHHHHHHHHhCccccc------cCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence 3555554444457888888887754332 12234455788888888887555543
No 190
>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=20.28 E-value=1.7e+02 Score=20.19 Aligned_cols=43 Identities=16% Similarity=0.147 Sum_probs=24.3
Q ss_pred cHHHHHHHHHccCCeeeEEeCCCCCC-ccchHHHHHHHH--hcceE
Q 044488 40 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIE--ASTIS 82 (125)
Q Consensus 40 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~~~~~i~~aI~--~s~~~ 82 (125)
.....|.+.|++.|+.+-.-.-+... +.+.+.+.++++ .++++
T Consensus 20 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlV 65 (152)
T cd00886 20 RSGPALVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLI 65 (152)
T ss_pred chHHHHHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEE
Confidence 44556888899999875432212221 345556666666 44533
No 191
>KOG3974 consensus Predicted sugar kinase [Carbohydrate transport and metabolism]
Probab=20.08 E-value=2.3e+02 Score=22.49 Aligned_cols=39 Identities=18% Similarity=0.268 Sum_probs=31.4
Q ss_pred cceEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 044488 79 STISIIIFSERYASSGWCLDELLKILECKHDYGQIVIPVFCR 120 (125)
Q Consensus 79 s~~~IvvlS~~~~~S~wc~~El~~~~~~~~~~~~~IiPI~~~ 120 (125)
.|...+|+.|..=.++|-+++++.+++..+++ =+|+..+
T Consensus 100 ~RlhavVIGPGLGRdp~~~k~i~~iley~~~~---dvP~VID 138 (306)
T KOG3974|consen 100 QRLHAVVIGPGLGRDPAILKEIAKILEYLRGK---DVPLVID 138 (306)
T ss_pred hheeEEEECCCCCCCHHHHHHHHHHHHHHhcC---CCcEEEc
Confidence 67889999999999999999999999976654 3454443
No 192
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=20.05 E-value=1.9e+02 Score=21.50 Aligned_cols=46 Identities=30% Similarity=0.309 Sum_probs=29.4
Q ss_pred cCcccHHHHHHHHHccCC--eeeEEeCCCCCCccchHHHHHHHHhcceEEEEecCCc
Q 044488 36 DTRDNFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 90 (125)
Q Consensus 36 D~~~~fv~~L~~~L~~~G--i~vf~d~~~~~G~~~~~~i~~aI~~s~~~IvvlS~~~ 90 (125)
|..++|+-.|+..|+..| +.|+..+. +... .++..+--.+|+||.=
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd~------~~~~---~~~~~~pd~iviSPGP 55 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRNDD------ISLE---LIEALKPDAIVISPGP 55 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECCc------cCHH---HHhhcCCCEEEEcCCC
Confidence 334589999999999887 55555432 1111 4555556677888763
No 193
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=20.03 E-value=1.2e+02 Score=19.63 Aligned_cols=31 Identities=19% Similarity=0.023 Sum_probs=18.8
Q ss_pred eeeEEEeceeccCcccHHHHHHHHHccCCeeeEE
Q 044488 25 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFI 58 (125)
Q Consensus 25 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~ 58 (125)
..=++||++++.. -+-...+.++.+|.++..
T Consensus 48 d~~I~iS~sG~t~---e~~~~~~~a~~~g~~vi~ 78 (126)
T cd05008 48 TLVIAISQSGETA---DTLAALRLAKEKGAKTVA 78 (126)
T ss_pred cEEEEEeCCcCCH---HHHHHHHHHHHcCCeEEE
Confidence 3345677776642 344566667778877653
Done!