Query 014873
Match_columns 417
No_of_seqs 489 out of 2659
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 09:20:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014873.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014873hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2816 NPY1 NTP pyrophosphohy 100.0 2.9E-52 6.3E-57 400.0 17.0 260 64-396 19-279 (279)
2 KOG3084 NADH pyrophosphatase I 100.0 1.5E-48 3.2E-53 374.9 8.7 222 148-407 116-343 (345)
3 PRK00241 nudC NADH pyrophospha 100.0 5.3E-44 1.1E-48 345.9 25.3 244 64-397 12-255 (256)
4 cd03429 NADH_pyrophosphatase N 99.9 5.9E-21 1.3E-25 166.8 14.0 130 222-396 1-130 (131)
5 cd04511 Nudix_Hydrolase_4 Memb 99.8 2.6E-20 5.6E-25 162.1 13.0 122 207-338 1-124 (130)
6 cd04700 DR1025_like DR1025 fro 99.8 2.2E-18 4.8E-23 152.6 13.0 125 214-341 6-132 (142)
7 cd04681 Nudix_Hydrolase_22 Mem 99.8 2.1E-18 4.5E-23 149.2 12.4 122 223-345 3-127 (130)
8 cd04684 Nudix_Hydrolase_25 Con 99.8 3.5E-18 7.5E-23 146.6 13.5 117 223-341 2-124 (128)
9 cd04679 Nudix_Hydrolase_20 Mem 99.8 5.6E-18 1.2E-22 145.8 14.1 114 222-337 3-118 (125)
10 cd03673 Ap6A_hydrolase Diadeno 99.8 5.1E-18 1.1E-22 146.1 13.7 112 234-347 16-129 (131)
11 PLN02325 nudix hydrolase 99.8 1.5E-17 3.3E-22 147.8 14.6 121 215-337 3-128 (144)
12 cd03674 Nudix_Hydrolase_1 Memb 99.8 1.9E-17 4.2E-22 145.6 14.7 110 223-334 4-123 (138)
13 cd03430 GDPMH GDP-mannose glyc 99.8 1.5E-17 3.2E-22 147.8 13.6 111 223-334 14-132 (144)
14 COG1051 ADP-ribose pyrophospha 99.7 1E-17 2.2E-22 149.4 12.3 117 214-333 3-121 (145)
15 cd04680 Nudix_Hydrolase_21 Mem 99.7 1.2E-17 2.6E-22 142.0 11.7 110 223-338 2-112 (120)
16 cd04683 Nudix_Hydrolase_24 Mem 99.7 2.1E-17 4.5E-22 141.0 12.9 109 223-335 2-115 (120)
17 cd04664 Nudix_Hydrolase_7 Memb 99.7 2.5E-17 5.5E-22 142.5 13.2 111 233-343 14-127 (129)
18 cd04696 Nudix_Hydrolase_37 Mem 99.7 2.9E-17 6.3E-22 141.5 13.0 109 222-333 3-113 (125)
19 cd04691 Nudix_Hydrolase_32 Mem 99.7 4E-17 8.6E-22 139.7 13.7 104 224-335 3-109 (117)
20 PRK15434 GDP-mannose mannosyl 99.7 4E-17 8.7E-22 147.7 14.3 113 223-336 19-139 (159)
21 cd03675 Nudix_Hydrolase_2 Cont 99.7 9.6E-17 2.1E-21 139.7 15.2 102 233-335 10-112 (134)
22 cd04678 Nudix_Hydrolase_19 Mem 99.7 4.6E-17 1E-21 140.7 13.0 110 222-333 3-116 (129)
23 cd04677 Nudix_Hydrolase_18 Mem 99.7 3.7E-17 8.1E-22 141.4 12.4 115 219-336 5-124 (132)
24 cd04673 Nudix_Hydrolase_15 Mem 99.7 5.2E-17 1.1E-21 138.3 13.0 109 223-334 2-114 (122)
25 PRK09438 nudB dihydroneopterin 99.7 1E-16 2.2E-21 142.3 14.7 126 222-351 8-146 (148)
26 cd03427 MTH1 MutT homolog-1 (M 99.7 7.9E-17 1.7E-21 140.6 13.0 117 222-342 2-119 (137)
27 cd04695 Nudix_Hydrolase_36 Mem 99.7 9.6E-17 2.1E-21 139.8 13.4 112 232-343 12-123 (131)
28 cd04671 Nudix_Hydrolase_13 Mem 99.7 1.1E-16 2.4E-21 138.5 13.5 104 223-333 2-109 (123)
29 cd03424 ADPRase_NUDT5 ADP-ribo 99.7 1E-16 2.3E-21 139.9 13.3 113 223-339 4-120 (137)
30 cd04670 Nudix_Hydrolase_12 Mem 99.7 1.6E-16 3.5E-21 137.1 14.0 107 223-333 4-112 (127)
31 cd03428 Ap4A_hydrolase_human_l 99.7 6.5E-17 1.4E-21 139.7 11.4 108 233-347 16-128 (130)
32 cd04697 Nudix_Hydrolase_38 Mem 99.7 1.2E-16 2.5E-21 138.4 12.6 112 223-339 2-117 (126)
33 cd03671 Ap4A_hydrolase_plant_l 99.7 2.2E-16 4.7E-21 140.4 14.2 113 222-336 4-133 (147)
34 cd03426 CoAse Coenzyme A pyrop 99.7 1.2E-16 2.7E-21 143.8 12.1 110 222-334 3-118 (157)
35 PRK15472 nucleoside triphospha 99.7 1.9E-16 4.1E-21 139.5 13.0 108 225-334 7-125 (141)
36 cd04682 Nudix_Hydrolase_23 Mem 99.7 1.4E-16 3E-21 136.9 11.8 104 223-333 3-113 (122)
37 cd04676 Nudix_Hydrolase_17 Mem 99.7 3.4E-16 7.4E-21 133.8 13.4 117 221-340 2-123 (129)
38 cd04672 Nudix_Hydrolase_14 Mem 99.7 3.4E-16 7.3E-21 134.6 12.8 106 224-334 5-112 (123)
39 cd04669 Nudix_Hydrolase_11 Mem 99.7 3.7E-16 7.9E-21 134.5 13.0 102 225-334 4-114 (121)
40 cd03672 Dcp2p mRNA decapping e 99.7 2.3E-16 4.9E-21 140.6 12.0 109 222-336 2-113 (145)
41 cd04693 Nudix_Hydrolase_34 Mem 99.7 1.9E-16 4.1E-21 136.8 11.2 110 223-338 2-117 (127)
42 PF00293 NUDIX: NUDIX domain; 99.7 7.9E-16 1.7E-20 132.2 14.8 120 222-342 3-127 (134)
43 cd04666 Nudix_Hydrolase_9 Memb 99.7 6.3E-16 1.4E-20 133.7 13.7 104 233-338 14-119 (122)
44 cd04690 Nudix_Hydrolase_31 Mem 99.7 6.2E-16 1.3E-20 131.3 12.8 105 224-333 3-109 (118)
45 cd04687 Nudix_Hydrolase_28 Mem 99.7 5.6E-16 1.2E-20 134.0 12.6 110 223-334 3-121 (128)
46 cd04667 Nudix_Hydrolase_10 Mem 99.7 5.3E-16 1.2E-20 131.2 11.8 94 233-336 10-103 (112)
47 cd04688 Nudix_Hydrolase_29 Mem 99.7 8.6E-16 1.9E-20 132.4 13.0 106 224-333 4-117 (126)
48 cd04692 Nudix_Hydrolase_33 Mem 99.7 1.1E-15 2.5E-20 135.2 12.9 114 223-336 4-129 (144)
49 PRK11762 nudE adenosine nucleo 99.6 4.7E-15 1E-19 137.2 16.3 115 223-341 49-166 (185)
50 PRK00714 RNA pyrophosphohydrol 99.6 6.8E-15 1.5E-19 132.6 16.0 113 221-335 8-136 (156)
51 cd04689 Nudix_Hydrolase_30 Mem 99.6 3.2E-15 6.9E-20 128.7 12.2 104 225-332 5-112 (125)
52 cd04694 Nudix_Hydrolase_35 Mem 99.6 7.1E-15 1.5E-19 130.7 14.0 114 223-337 3-134 (143)
53 cd04699 Nudix_Hydrolase_39 Mem 99.6 4E-15 8.6E-20 127.7 11.8 108 223-333 3-113 (129)
54 PRK15393 NUDIX hydrolase YfcD; 99.6 3.9E-15 8.5E-20 137.3 12.2 108 222-335 38-150 (180)
55 cd02885 IPP_Isomerase Isopente 99.6 4.1E-15 9E-20 134.9 11.8 114 222-337 31-151 (165)
56 cd04661 MRP_L46 Mitochondrial 99.6 7.1E-15 1.5E-19 128.6 12.8 102 233-336 12-122 (132)
57 PRK03759 isopentenyl-diphospha 99.6 5.3E-15 1.1E-19 136.7 12.0 116 221-338 34-156 (184)
58 cd04686 Nudix_Hydrolase_27 Mem 99.6 1.5E-14 3.3E-19 126.2 13.4 106 224-333 3-118 (131)
59 PRK10729 nudF ADP-ribose pyrop 99.6 2.4E-14 5.2E-19 134.5 15.5 126 217-346 46-183 (202)
60 PRK10776 nucleoside triphospha 99.6 1.8E-14 3.8E-19 123.5 13.3 101 226-333 9-112 (129)
61 PRK10546 pyrimidine (deoxy)nuc 99.6 1.7E-14 3.6E-19 125.5 13.1 105 233-342 14-120 (135)
62 TIGR00052 nudix-type nucleosid 99.6 1.7E-14 3.6E-19 133.7 13.6 118 223-343 46-174 (185)
63 PRK10707 putative NUDIX hydrol 99.6 1E-14 2.2E-19 135.7 11.6 113 221-335 31-147 (190)
64 PRK05379 bifunctional nicotina 99.6 3E-14 6.6E-19 143.8 15.4 123 215-340 197-331 (340)
65 TIGR02150 IPP_isom_1 isopenten 99.6 1.9E-14 4.2E-19 129.8 12.3 110 222-336 28-144 (158)
66 cd03425 MutT_pyrophosphohydrol 99.6 5.1E-14 1.1E-18 119.1 13.3 105 223-333 3-109 (124)
67 cd04674 Nudix_Hydrolase_16 Mem 99.6 7E-14 1.5E-18 120.5 13.0 100 221-327 4-108 (118)
68 cd03676 Nudix_hydrolase_3 Memb 99.5 5.8E-14 1.3E-18 129.1 11.6 114 226-339 39-163 (180)
69 cd02883 Nudix_Hydrolase Nudix 99.5 2.5E-13 5.5E-18 113.7 12.5 108 224-333 3-111 (123)
70 cd04665 Nudix_Hydrolase_8 Memb 99.5 3.5E-13 7.6E-18 116.1 13.1 99 225-331 4-102 (118)
71 TIGR00586 mutt mutator mutT pr 99.5 4.4E-13 9.5E-18 115.1 12.9 106 226-338 9-116 (128)
72 PRK15009 GDP-mannose pyrophosp 99.5 6E-13 1.3E-17 123.9 14.5 118 223-344 47-176 (191)
73 cd04685 Nudix_Hydrolase_26 Mem 99.5 2.9E-13 6.2E-18 118.9 11.0 108 224-333 3-122 (133)
74 cd04662 Nudix_Hydrolase_5 Memb 99.4 1.2E-12 2.6E-17 113.8 12.5 105 224-328 5-126 (126)
75 TIGR02705 nudix_YtkD nucleosid 99.4 2.6E-12 5.6E-17 115.8 15.0 98 233-339 34-132 (156)
76 PLN02709 nudix hydrolase 99.4 1.5E-12 3.3E-17 123.2 11.2 109 222-333 34-154 (222)
77 cd03670 ADPRase_NUDT9 ADP-ribo 99.4 3.6E-12 7.9E-17 118.0 11.8 108 234-344 49-180 (186)
78 PRK08999 hypothetical protein; 99.3 7.1E-12 1.5E-16 124.7 12.5 104 225-334 9-114 (312)
79 PLN02552 isopentenyl-diphospha 99.2 1.7E-10 3.7E-15 111.3 14.5 113 223-336 58-205 (247)
80 cd04663 Nudix_Hydrolase_6 Memb 99.2 1.8E-10 3.8E-15 100.4 11.5 42 234-278 14-55 (126)
81 PLN02791 Nudix hydrolase homol 99.2 1.7E-10 3.8E-15 126.1 12.7 117 221-337 32-161 (770)
82 COG0494 MutT NTP pyrophosphohy 99.2 2.9E-10 6.2E-15 97.1 11.4 112 223-335 13-135 (161)
83 PLN03143 nudix hydrolase; Prov 99.1 1.1E-09 2.5E-14 107.8 16.1 117 216-336 124-267 (291)
84 KOG2839 Diadenosine and diphos 99.1 1.1E-09 2.4E-14 96.0 10.7 111 234-349 24-140 (145)
85 KOG3069 Peroxisomal NUDIX hydr 99.0 1.6E-09 3.5E-14 101.9 8.8 122 212-333 34-162 (246)
86 PF09296 NUDIX-like: NADH pyro 98.9 3E-09 6.6E-14 87.4 7.9 98 64-182 1-98 (98)
87 KOG3041 Nucleoside diphosphate 98.9 2.3E-08 5.1E-13 91.7 13.2 119 216-336 69-196 (225)
88 COG1443 Idi Isopentenyldiphosp 98.7 2.2E-08 4.8E-13 90.4 7.0 122 212-339 24-158 (185)
89 cd03431 DNA_Glycosylase_C DNA 98.6 7.6E-07 1.7E-11 74.8 11.6 89 233-333 13-104 (118)
90 PF09297 zf-NADH-PPase: NADH p 98.5 5.8E-08 1.2E-12 64.4 2.5 32 184-217 1-32 (32)
91 PLN02839 nudix hydrolase 98.5 9.5E-07 2.1E-11 89.1 10.6 111 227-338 211-331 (372)
92 COG4119 Predicted NTP pyrophos 98.4 9.2E-07 2E-11 75.9 8.2 125 213-353 7-149 (161)
93 KOG0648 Predicted NUDIX hydrol 98.4 1.5E-07 3.3E-12 92.0 3.1 111 220-333 114-230 (295)
94 PF14803 Nudix_N_2: Nudix N-te 97.6 2.6E-05 5.7E-10 52.4 1.8 29 187-217 1-33 (34)
95 PF14815 NUDIX_4: NUDIX domain 97.6 0.00016 3.4E-09 61.3 6.7 97 228-333 4-102 (114)
96 KOG0142 Isopentenyl pyrophosph 96.9 0.0027 5.8E-08 59.0 6.9 114 222-336 53-185 (225)
97 KOG4195 Transient receptor pot 96.8 0.0019 4E-08 60.8 4.9 39 235-275 140-178 (275)
98 COG4112 Predicted phosphoester 96.0 0.067 1.5E-06 48.3 9.8 100 233-333 71-186 (203)
99 COG1998 RPS31 Ribosomal protei 95.8 0.005 1.1E-07 44.5 1.5 34 183-218 16-49 (51)
100 PRK00432 30S ribosomal protein 95.6 0.0064 1.4E-07 44.5 1.7 32 184-218 18-49 (50)
101 KOG2937 Decapping enzyme compl 95.6 0.0028 6.1E-08 62.9 -0.4 110 215-332 76-190 (348)
102 smart00661 RPOL9 RNA polymeras 95.3 0.028 6.1E-07 40.8 4.0 33 187-221 1-35 (52)
103 PF03119 DNA_ligase_ZBD: NAD-d 94.7 0.023 4.9E-07 36.5 1.9 25 188-212 1-26 (28)
104 KOG4313 Thiamine pyrophosphoki 93.8 0.2 4.3E-06 48.3 7.0 112 224-336 136-260 (306)
105 KOG4432 Uncharacterized NUDIX 93.2 0.23 4.9E-06 49.0 6.5 110 219-330 25-161 (405)
106 PF02150 RNA_POL_M_15KD: RNA p 92.8 0.06 1.3E-06 36.4 1.4 28 187-216 2-30 (35)
107 PF13869 NUDIX_2: Nucleotide h 92.5 0.32 6.9E-06 45.3 6.2 42 233-277 57-98 (188)
108 COG4111 Uncharacterized conser 89.7 3.1 6.7E-05 40.5 10.0 102 224-332 28-133 (322)
109 PF13248 zf-ribbon_3: zinc-rib 87.6 0.21 4.5E-06 31.4 0.4 10 186-195 16-25 (26)
110 PF07754 DUF1610: Domain of un 86.7 0.46 1E-05 29.4 1.6 24 189-214 1-24 (24)
111 PF13240 zinc_ribbon_2: zinc-r 85.0 0.42 9E-06 29.2 0.8 22 188-215 1-22 (23)
112 PF07282 OrfB_Zn_ribbon: Putat 83.6 0.75 1.6E-05 35.3 1.9 35 179-216 22-56 (69)
113 COG1645 Uncharacterized Zn-fin 83.5 1 2.3E-05 39.5 2.9 32 173-214 21-52 (131)
114 KOG1689 mRNA cleavage factor I 83.4 2.9 6.4E-05 38.2 5.8 40 234-276 84-123 (221)
115 KOG4548 Mitochondrial ribosoma 83.3 6.2 0.00013 38.3 8.3 103 234-338 139-251 (263)
116 PF06677 Auto_anti-p27: Sjogre 82.8 1.5 3.2E-05 30.8 2.9 33 178-213 9-41 (41)
117 PF12773 DZR: Double zinc ribb 82.1 0.81 1.7E-05 32.9 1.5 32 184-218 10-41 (50)
118 PF12677 DUF3797: Domain of un 81.4 1.2 2.6E-05 32.2 2.1 35 178-215 5-47 (49)
119 PRK10880 adenine DNA glycosyla 81.3 4.3 9.4E-05 41.5 6.9 38 233-277 241-280 (350)
120 KOG4432 Uncharacterized NUDIX 81.1 3.1 6.7E-05 41.3 5.5 84 249-336 286-378 (405)
121 PF09151 DUF1936: Domain of un 80.6 1.5 3.3E-05 28.7 2.2 28 187-214 2-34 (36)
122 PRK13844 recombination protein 80.1 1.4 3E-05 41.6 2.6 91 172-275 43-135 (200)
123 COG1594 RPB9 DNA-directed RNA 80.0 1.2 2.5E-05 38.2 2.0 29 186-216 2-32 (113)
124 PRK00420 hypothetical protein; 79.7 1.7 3.6E-05 37.2 2.8 27 186-215 23-49 (112)
125 PRK00398 rpoP DNA-directed RNA 79.6 1.8 3.9E-05 30.7 2.6 27 188-216 5-31 (46)
126 COG0353 RecR Recombinational D 78.4 1.1 2.4E-05 41.9 1.5 92 171-275 39-132 (198)
127 PF06044 DRP: Dam-replacing fa 77.5 1.1 2.4E-05 43.2 1.2 38 176-215 20-62 (254)
128 PRK00076 recR recombination pr 77.4 2.4 5.2E-05 39.9 3.4 90 172-274 39-130 (196)
129 TIGR01384 TFS_arch transcripti 77.0 3.8 8.3E-05 34.0 4.2 28 187-218 1-28 (104)
130 PF09889 DUF2116: Uncharacteri 76.8 0.49 1.1E-05 35.8 -1.1 26 185-215 2-27 (59)
131 PF04606 Ogr_Delta: Ogr/Delta- 76.7 2.1 4.4E-05 30.7 2.1 29 188-216 1-37 (47)
132 TIGR00615 recR recombination p 75.0 2.6 5.5E-05 39.6 2.9 90 172-274 39-130 (195)
133 PRK09678 DNA-binding transcrip 74.9 2.4 5.1E-05 33.5 2.2 30 187-216 2-39 (72)
134 PF01396 zf-C4_Topoisom: Topoi 72.6 3.3 7.2E-05 28.5 2.3 31 187-217 2-35 (39)
135 smart00532 LIGANc Ligase N fam 71.8 2.6 5.6E-05 44.5 2.3 29 186-214 399-427 (441)
136 COG1096 Predicted RNA-binding 70.7 2.6 5.7E-05 39.1 1.8 30 186-219 149-178 (188)
137 TIGR00575 dnlj DNA ligase, NAD 68.5 3.2 6.9E-05 46.0 2.3 28 187-214 393-420 (652)
138 KOG2906 RNA polymerase III sub 67.9 3.8 8.2E-05 34.1 2.0 27 187-215 2-30 (105)
139 TIGR02098 MJ0042_CXXC MJ0042 f 67.5 3.3 7E-05 28.0 1.3 28 188-217 4-36 (38)
140 TIGR01562 FdhE formate dehydro 66.1 4.9 0.00011 40.4 2.8 40 182-223 180-228 (305)
141 PF08271 TF_Zn_Ribbon: TFIIB z 65.7 5.9 0.00013 27.6 2.4 26 188-215 2-28 (43)
142 PRK11827 hypothetical protein; 65.0 4.2 9.2E-05 30.9 1.7 34 186-222 8-41 (60)
143 PF09538 FYDLN_acid: Protein o 64.8 4 8.6E-05 34.7 1.6 30 186-218 9-38 (108)
144 PF09862 DUF2089: Protein of u 63.7 4.8 0.0001 34.5 1.9 22 189-216 1-22 (113)
145 PF07295 DUF1451: Protein of u 63.6 4.2 9.2E-05 36.4 1.7 49 170-220 90-144 (146)
146 PHA00626 hypothetical protein 63.5 6.5 0.00014 29.4 2.3 28 187-216 1-33 (59)
147 PF10571 UPF0547: Uncharacteri 63.1 4.9 0.00011 25.3 1.4 23 187-215 1-23 (26)
148 PF12760 Zn_Tnp_IS1595: Transp 62.7 6.9 0.00015 27.7 2.3 35 177-214 10-45 (46)
149 PRK07956 ligA NAD-dependent DN 61.9 4.9 0.00011 44.6 2.1 28 187-214 405-433 (665)
150 COG0272 Lig NAD-dependent DNA 61.7 4.7 0.0001 44.4 1.9 33 186-218 404-437 (667)
151 PF08772 NOB1_Zn_bind: Nin one 61.6 3.3 7.2E-05 32.8 0.5 13 186-198 24-36 (73)
152 PRK11032 hypothetical protein; 61.5 4.7 0.0001 36.7 1.6 33 186-220 124-156 (160)
153 PRK03564 formate dehydrogenase 61.1 11 0.00024 37.9 4.3 37 185-223 186-230 (309)
154 PRK14559 putative protein seri 60.8 4 8.7E-05 45.1 1.2 14 184-197 13-26 (645)
155 PF08274 PhnA_Zn_Ribbon: PhnA 59.4 5.7 0.00012 26.0 1.3 26 187-215 3-28 (30)
156 COG1571 Predicted DNA-binding 58.9 3.7 8.1E-05 42.8 0.5 37 177-216 341-377 (421)
157 PF13719 zinc_ribbon_5: zinc-r 58.1 5.9 0.00013 26.9 1.3 27 188-216 4-35 (37)
158 COG3024 Uncharacterized protei 57.2 4.5 9.7E-05 31.1 0.6 33 185-218 6-39 (65)
159 COG1996 RPC10 DNA-directed RNA 56.5 6.5 0.00014 28.7 1.3 33 188-222 8-40 (49)
160 PF13717 zinc_ribbon_4: zinc-r 56.0 9.2 0.0002 25.9 1.9 28 188-217 4-36 (36)
161 PHA02942 putative transposase; 55.4 7.8 0.00017 40.1 2.2 29 185-216 324-352 (383)
162 PRK00464 nrdR transcriptional 55.2 9.4 0.0002 34.5 2.4 35 188-224 2-48 (154)
163 PF01599 Ribosomal_S27: Riboso 54.8 9.1 0.0002 27.7 1.8 29 184-214 16-46 (47)
164 COG1997 RPL43A Ribosomal prote 53.7 9.7 0.00021 31.1 2.0 27 187-215 36-62 (89)
165 COG0675 Transposase and inacti 53.2 7.8 0.00017 38.0 1.8 31 180-217 303-333 (364)
166 PF04216 FdhE: Protein involve 53.2 8.3 0.00018 38.2 1.9 36 186-223 172-215 (290)
167 PRK10445 endonuclease VIII; Pr 53.1 7.8 0.00017 38.0 1.7 30 182-213 231-262 (263)
168 KOG2907 RNA polymerase I trans 52.6 5.2 0.00011 34.1 0.3 31 185-217 6-36 (116)
169 PRK14890 putative Zn-ribbon RN 52.6 10 0.00022 28.7 1.8 27 187-215 8-34 (59)
170 PRK14350 ligA NAD-dependent DN 52.1 8.9 0.00019 42.6 2.1 28 186-215 398-425 (669)
171 smart00659 RPOLCX RNA polymera 52.1 13 0.00028 26.4 2.3 26 188-216 4-29 (44)
172 TIGR02300 FYDLN_acid conserved 51.3 9.3 0.0002 33.4 1.7 29 185-216 8-36 (129)
173 PF03604 DNA_RNApol_7kD: DNA d 51.2 11 0.00024 25.0 1.6 26 188-216 2-27 (32)
174 PF13453 zf-TFIIB: Transcripti 50.9 10 0.00022 26.2 1.5 29 188-218 1-31 (41)
175 PF14443 DBC1: DBC1 50.6 53 0.0012 28.7 6.2 45 235-279 9-59 (126)
176 COG4260 Membrane protease subu 49.0 7.3 0.00016 38.6 0.7 34 179-214 304-342 (345)
177 PF14952 zf-tcix: Putative tre 48.5 12 0.00027 26.5 1.6 28 184-215 9-36 (44)
178 COG2888 Predicted Zn-ribbon RN 48.2 10 0.00022 28.7 1.3 26 186-213 9-34 (61)
179 COG3791 Uncharacterized conser 47.2 11 0.00023 33.1 1.5 14 186-199 69-82 (133)
180 PRK01103 formamidopyrimidine/5 46.9 12 0.00025 36.9 1.8 29 184-214 243-273 (274)
181 PF14205 Cys_rich_KTR: Cystein 46.8 19 0.00042 26.8 2.5 28 187-216 5-38 (55)
182 PRK12495 hypothetical protein; 46.8 11 0.00025 35.9 1.6 29 186-218 42-70 (226)
183 PRK00418 DNA gyrase inhibitor; 46.2 7.3 0.00016 29.8 0.2 31 186-217 6-37 (62)
184 PF03487 IL13: Interleukin-13; 45.6 19 0.00041 25.1 2.1 26 249-274 11-36 (43)
185 COG1656 Uncharacterized conser 45.4 11 0.00023 34.5 1.1 31 186-218 97-142 (165)
186 PF03884 DUF329: Domain of unk 45.0 5.8 0.00013 29.9 -0.5 30 187-217 3-33 (57)
187 TIGR00244 transcriptional regu 44.7 18 0.00038 32.5 2.4 36 188-225 2-49 (147)
188 PF01927 Mut7-C: Mut7-C RNAse 44.4 20 0.00043 31.9 2.7 35 182-218 86-136 (147)
189 TIGR01206 lysW lysine biosynth 43.9 17 0.00038 27.0 1.9 28 188-217 4-33 (54)
190 PF04981 NMD3: NMD3 family ; 42.6 31 0.00067 33.1 4.0 25 189-218 1-25 (236)
191 PRK13945 formamidopyrimidine-D 42.1 15 0.00032 36.3 1.8 29 183-213 251-281 (282)
192 COG4640 Predicted membrane pro 41.8 14 0.0003 38.3 1.4 25 186-216 1-25 (465)
193 PF08792 A2L_zn_ribbon: A2L zi 41.6 23 0.0005 23.6 2.0 29 186-216 3-31 (33)
194 PRK14810 formamidopyrimidine-D 41.5 16 0.00034 36.0 1.8 29 183-213 241-271 (272)
195 TIGR00577 fpg formamidopyrimid 41.1 15 0.00033 36.1 1.7 28 184-213 243-272 (272)
196 PF10083 DUF2321: Uncharacteri 41.0 4.1 8.8E-05 36.8 -2.2 23 184-215 26-48 (158)
197 COG1779 C4-type Zn-finger prot 40.6 69 0.0015 30.2 5.7 86 186-276 14-124 (201)
198 TIGR00686 phnA alkylphosphonat 39.4 21 0.00045 30.4 1.9 30 187-219 3-32 (109)
199 PRK09521 exosome complex RNA-b 39.4 20 0.00043 33.2 2.1 33 186-221 149-181 (189)
200 PRK01343 zinc-binding protein; 39.3 13 0.00029 27.9 0.7 28 185-216 8-35 (57)
201 KOG3799 Rab3 effector RIM1 and 39.1 13 0.00029 32.8 0.7 24 185-208 88-111 (169)
202 COG1439 Predicted nucleic acid 38.6 16 0.00035 33.7 1.3 15 184-198 151-165 (177)
203 COG1327 Predicted transcriptio 38.3 23 0.00049 32.0 2.1 33 187-221 1-45 (156)
204 PRK14873 primosome assembly pr 38.0 23 0.0005 39.4 2.6 29 188-218 394-422 (665)
205 COG4469 CoiA Competence protei 38.0 17 0.00037 36.8 1.4 15 187-201 26-40 (342)
206 COG3677 Transposase and inacti 37.6 45 0.00098 29.2 3.9 38 176-215 20-62 (129)
207 PRK14811 formamidopyrimidine-D 36.8 20 0.00043 35.2 1.7 32 182-215 231-264 (269)
208 PF01780 Ribosomal_L37ae: Ribo 36.3 19 0.00041 29.7 1.2 29 185-215 34-62 (90)
209 PRK10220 hypothetical protein; 35.8 29 0.00063 29.6 2.2 31 186-219 3-33 (111)
210 COG1545 Predicted nucleic-acid 35.7 75 0.0016 28.1 5.0 17 221-237 83-99 (140)
211 PF14353 CpXC: CpXC protein 35.2 64 0.0014 27.7 4.5 29 188-218 3-50 (128)
212 PF02132 RecR: RecR protein; 34.9 27 0.00059 24.2 1.6 23 175-197 6-28 (41)
213 COG4068 Uncharacterized protei 34.0 20 0.00042 27.2 0.8 24 185-213 7-30 (64)
214 TIGR01084 mutY A/G-specific ad 33.7 65 0.0014 31.8 4.7 26 228-253 233-260 (275)
215 PRK14351 ligA NAD-dependent DN 33.6 25 0.00054 39.3 2.0 27 186-214 423-450 (689)
216 PF04828 GFA: Glutathione-depe 33.3 12 0.00027 29.4 -0.4 14 185-198 47-60 (92)
217 PF13824 zf-Mss51: Zinc-finger 32.4 31 0.00066 25.8 1.6 25 188-217 1-25 (55)
218 COG1326 Uncharacterized archae 32.4 35 0.00075 32.0 2.4 62 185-254 5-72 (201)
219 TIGR02820 formald_GSH S-(hydro 31.8 18 0.0004 33.6 0.5 13 186-198 89-101 (182)
220 COG2824 PhnA Uncharacterized Z 31.5 58 0.0012 27.7 3.3 30 186-218 3-32 (112)
221 smart00647 IBR In Between Ring 31.5 54 0.0012 23.9 3.0 31 183-215 15-49 (64)
222 PF01485 IBR: IBR domain; Int 31.4 24 0.00052 25.8 1.0 31 183-215 15-49 (64)
223 PTZ00255 60S ribosomal protein 31.2 33 0.00072 28.2 1.8 28 186-215 36-63 (90)
224 PRK04023 DNA polymerase II lar 30.0 28 0.0006 40.3 1.6 25 183-215 623-647 (1121)
225 KOG2463 Predicted RNA-binding 29.4 22 0.00047 36.0 0.5 9 188-196 259-267 (376)
226 PF11781 RRN7: RNA polymerase 29.2 35 0.00077 23.1 1.4 25 188-215 10-34 (36)
227 TIGR01053 LSD1 zinc finger dom 29.1 43 0.00094 22.0 1.8 26 188-215 3-28 (31)
228 COG5216 Uncharacterized conser 29.0 36 0.00078 25.8 1.5 24 188-214 24-52 (67)
229 PF12647 RNHCP: RNHCP domain; 28.0 32 0.00068 28.5 1.2 27 186-214 4-32 (92)
230 PRK14714 DNA polymerase II lar 28.0 28 0.00061 41.1 1.3 11 186-196 667-677 (1337)
231 COG5349 Uncharacterized protei 27.8 47 0.001 28.8 2.3 43 186-230 21-67 (126)
232 PRK13910 DNA glycosylase MutY; 26.9 71 0.0015 31.8 3.7 21 233-253 196-217 (289)
233 PRK00423 tfb transcription ini 26.6 47 0.001 33.3 2.4 29 185-215 10-39 (310)
234 PRK13130 H/ACA RNA-protein com 26.1 33 0.00072 25.7 0.9 24 184-215 3-26 (56)
235 PRK12496 hypothetical protein; 26.0 28 0.00061 31.7 0.6 12 187-198 144-155 (164)
236 PF11290 DUF3090: Protein of u 25.8 51 0.0011 30.3 2.2 26 171-198 141-166 (171)
237 PRK00504 rpmG 50S ribosomal pr 25.4 38 0.00082 24.8 1.1 15 186-200 34-48 (50)
238 KOG2937 Decapping enzyme compl 25.1 16 0.00034 37.0 -1.3 69 211-279 228-296 (348)
239 PF01873 eIF-5_eIF-2B: Domain 24.7 77 0.0017 27.6 3.1 37 178-216 85-124 (125)
240 PF01783 Ribosomal_L32p: Ribos 24.5 36 0.00078 25.3 0.8 21 186-213 26-46 (56)
241 smart00834 CxxC_CXXC_SSSS Puta 24.2 50 0.0011 22.1 1.5 25 188-214 7-34 (41)
242 PF13408 Zn_ribbon_recom: Reco 24.2 34 0.00074 24.7 0.7 15 185-199 4-18 (58)
243 cd04476 RPA1_DBD_C RPA1_DBD_C: 24.1 1.3E+02 0.0029 26.8 4.7 28 186-216 34-61 (166)
244 PRK12286 rpmF 50S ribosomal pr 24.1 47 0.001 24.9 1.4 22 186-214 27-48 (57)
245 PRK14892 putative transcriptio 24.0 58 0.0013 27.3 2.1 31 184-216 19-52 (99)
246 TIGR00280 L37a ribosomal prote 23.8 57 0.0012 27.0 2.0 28 186-215 35-62 (91)
247 PRK12380 hydrogenase nickel in 23.5 42 0.00092 28.6 1.2 40 173-216 57-96 (113)
248 PRK03976 rpl37ae 50S ribosomal 23.4 52 0.0011 27.1 1.7 28 186-215 36-63 (90)
249 TIGR00595 priA primosomal prot 23.1 53 0.0011 35.3 2.1 32 189-222 225-257 (505)
250 COG2835 Uncharacterized conser 23.1 67 0.0014 24.5 2.0 33 187-222 9-41 (60)
251 PF08646 Rep_fac-A_C: Replicat 22.8 1.3E+02 0.0029 26.2 4.4 48 186-237 18-68 (146)
252 PF14446 Prok-RING_1: Prokaryo 22.8 57 0.0012 24.3 1.6 27 186-216 5-31 (54)
253 PF13005 zf-IS66: zinc-finger 22.7 57 0.0012 22.8 1.6 13 187-199 3-15 (47)
254 COG0375 HybF Zn finger protein 22.5 50 0.0011 28.4 1.5 11 187-197 71-81 (115)
255 PRK03681 hypA hydrogenase nick 22.4 48 0.001 28.3 1.3 41 173-216 57-97 (114)
256 PRK09710 lar restriction allev 22.3 67 0.0014 24.8 1.9 31 183-215 3-36 (64)
257 smart00531 TFIIE Transcription 22.2 32 0.00069 30.6 0.2 31 186-218 99-135 (147)
258 PF09538 FYDLN_acid: Protein o 22.1 37 0.00081 28.8 0.6 22 200-223 5-27 (108)
259 PRK14714 DNA polymerase II lar 21.9 46 0.001 39.5 1.4 11 187-197 680-690 (1337)
260 TIGR01031 rpmF_bact ribosomal 21.3 53 0.0012 24.4 1.2 21 186-213 26-46 (55)
261 COG0267 RpmG Ribosomal protein 21.3 46 0.001 24.4 0.9 15 186-200 34-48 (50)
262 PRK05978 hypothetical protein; 21.2 61 0.0013 29.2 1.8 29 186-216 33-62 (148)
263 PF00471 Ribosomal_L33: Riboso 21.1 40 0.00088 24.4 0.5 15 186-200 32-46 (48)
264 smart00504 Ubox Modified RING 20.9 69 0.0015 23.4 1.8 19 179-197 28-46 (63)
265 KOG1710 MYND Zn-finger and ank 20.9 34 0.00073 34.3 0.1 49 170-219 303-354 (396)
266 TIGR00311 aIF-2beta translatio 20.8 88 0.0019 27.6 2.7 38 177-216 88-128 (133)
267 TIGR00373 conserved hypothetic 20.8 33 0.00072 31.0 0.0 29 185-215 108-137 (158)
268 PF03966 Trm112p: Trm112p-like 20.8 74 0.0016 24.3 2.0 11 186-196 7-17 (68)
269 PRK03988 translation initiatio 20.4 81 0.0018 28.0 2.4 37 178-216 94-133 (138)
270 PRK00595 rpmG 50S ribosomal pr 20.4 54 0.0012 24.2 1.1 14 186-199 37-50 (53)
271 PF14690 zf-ISL3: zinc-finger 20.1 71 0.0015 22.1 1.6 12 187-198 3-14 (47)
No 1
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.9e-52 Score=400.05 Aligned_cols=260 Identities=41% Similarity=0.707 Sum_probs=215.8
Q ss_pred CeEEEEEeCCceeeecCCCCCCCceeeccccchhhHHHhhhcCcCcccccEEEeeeeeCCCeeEEEEecCCCCccccccc
Q 014873 64 DFKVLPFRKGRPLTYSGPGETAPVWHLGWISLGDCKIFLANSGIELKEEALVYLGSRSADDVVYWAIDVSDGDSLASEFG 143 (417)
Q Consensus 64 ~~~~l~f~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~Lg~~~~~~~~~~a~~~~~~~~~~~~~~ 143 (417)
.+++++|+++++++..++. | +..... ..+......++|.. ++.++|++.+......
T Consensus 19 ~~~~~~~~~~~l~l~~~~~---p--------~~~~~~------~~l~~~~~~~~~~~--~~~~v~~~~l~~~~~~----- 74 (279)
T COG2816 19 STLWLVFSEGKLLLKDGEL---P--------FGAAEN------LDLVGEALLGIGEW--GGEPVFAVWLVEEIEL----- 74 (279)
T ss_pred cceEEEEcCCcEEEecCCC---c--------cchhhc------CCchHHHhhhcccc--CCccceeeeccccccc-----
Confidence 7999999999999976432 1 111111 01123345667764 6678887755433321
Q ss_pred ccccchhhhHHHHhhcchhhhhhHHHHHHHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcccCCcCcE
Q 014873 144 SKQLCFVELRTVMVATDWADQRAMADLAIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPV 223 (417)
Q Consensus 144 ~~~~~~~~lr~~~~~~~~~~~~~~~~~~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~pv 223 (417)
+.+..+++||+++..+ +...+.++++|.+|++|+++||||++||+++.+..+|++++|+ .|+..+|||++|+
T Consensus 75 ~~~~~~~~lR~l~~~~------~~~~~~~~~~a~~l~~w~~~~RFCg~CG~~~~~~~~g~~~~C~--~cg~~~fPR~dP~ 146 (279)
T COG2816 75 PEPFELVDLRSLLTEL------DEGLFGLAARAVQLLEWYRSHRFCGRCGTKTYPREGGWARVCP--KCGHEHFPRIDPC 146 (279)
T ss_pred CCccceeeHHHHhccC------CHHHHHHHHHHHHHHHHHhhCcCCCCCCCcCccccCceeeeCC--CCCCccCCCCCCe
Confidence 2467899999998643 4467899999999999999999999999999999999999998 5999999999999
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVG 303 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~ 303 (417)
|||+|++ ++++||.++.++++|+|++.+||||+|||+|+||+||++||+||+|++++|++||||| +|+++|++
T Consensus 147 vIv~v~~--~~~ilLa~~~~h~~g~yS~LAGFVE~GETlE~AV~REv~EE~Gi~V~~vrY~~SQPWP-----fP~SLMig 219 (279)
T COG2816 147 VIVAVIR--GDEILLARHPRHFPGMYSLLAGFVEPGETLEQAVAREVFEEVGIKVKNVRYVGSQPWP-----FPHSLMLG 219 (279)
T ss_pred EEEEEec--CCceeecCCCCCCCcceeeeeecccCCccHHHHHHHHHHHhhCeEEeeeeEEeccCCC-----Cchhhhhh
Confidence 9999998 4569999999888999999999999999999999999999999999999999999999 59999999
Q ss_pred EEEEEecccccCCcccccceEEEehhhHHHHhhhhhHHHHHHHHHHHHHHhhhhhccccccccccccccCCC-CCccCCc
Q 014873 304 FYAYAKSFEINVDKEELEDARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGEL-APIFIPG 382 (417)
Q Consensus 304 f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~~l~~~~~~~er~~~~~~~~k~~~~~~-~~~~lP~ 382 (417)
|++.+.+++++.+..|+++++||+++|+..+|..+ +.. ..+..|+
T Consensus 220 f~aey~sgeI~~d~~Eleda~WFs~~evl~~L~~~----------------------------------~~~~~~li~~~ 265 (279)
T COG2816 220 FMAEYDSGEITPDEGELEDARWFSRDEVLPALPPD----------------------------------GTIARRLIEPT 265 (279)
T ss_pred heeeeccccccCCcchhhhccccCHhHHhhhcCCC----------------------------------CCcccccccch
Confidence 99999999999999999999999999977766531 111 2467799
Q ss_pred cchHHHHHHHHHhc
Q 014873 383 PFAIAHHLISSWVY 396 (417)
Q Consensus 383 ~faIA~~Li~~w~~ 396 (417)
..+||++++++|..
T Consensus 266 ~~~ia~~~~~~~~~ 279 (279)
T COG2816 266 LAAIARELIKAWAE 279 (279)
T ss_pred HHHHHHHHHhhhcC
Confidence 99999999999963
No 2
>KOG3084 consensus NADH pyrophosphatase I of the Nudix family of hydrolases [Replication, recombination and repair]
Probab=100.00 E-value=1.5e-48 Score=374.86 Aligned_cols=222 Identities=53% Similarity=0.893 Sum_probs=195.3
Q ss_pred chhhhHHHHh-hcchhhhhhHHHH-HHHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCC--CcccCCcCcE
Q 014873 148 CFVELRTVMV-ATDWADQRAMADL-AIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCK--KRIYPRVDPV 223 (417)
Q Consensus 148 ~~~~lr~~~~-~~~~~~~~~~~~~-~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~--~~~ypr~~pv 223 (417)
.|.++|..+. .++ ..++ +++++|+++++|++++||||.||+++.+..+|.+.+|.+..|. ..+|||++|+
T Consensus 116 ~F~~~r~~~~~~~~------~~d~~~~~a~ars~l~W~skykFCp~CG~~tkp~e~g~k~~Cs~~~C~~~n~~yPr~dPv 189 (345)
T KOG3084|consen 116 SFVPLRMSMSLPGS------DEDARSLTAVARSLLDWVSKYKFCPGCGSPTKPEEAGTKLQCSDETCPSCNVIYPRTDPV 189 (345)
T ss_pred eeccchhhccCCCC------hhhhhcHHHHHHHHHHHHHHhccCcccCCCcccccCCccceeecccCCcCCeeccCCCCe
Confidence 8999999883 322 2233 8999999999999999999999999999999999999977898 8999999999
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVG 303 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~ 303 (417)
||++++++++.++||.|+.++++|+|++++||+|+|||+||||+||++||||++|+.|.|+.+||||. +|+++|++
T Consensus 190 VIm~li~~d~~~~LL~R~~r~~~gl~t~lAGFlEpGES~eeav~REtwEEtGi~V~~I~~~asQPWP~----~p~SLMIg 265 (345)
T KOG3084|consen 190 VIMLLIDHDGKHALLGRQKRYPPGLWTCLAGFLEPGESIEEAVRRETWEETGIEVEVISYVASQPWPL----MPQSLMIG 265 (345)
T ss_pred EEEEEEcCCCCEeeeecccCCCCchhhhhhccCCccccHHHHHHHHHHHHhCceeeeEeeeecCCCCC----CchHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999994 58899999
Q ss_pred EEEEEec-ccccCCcc-cccceEEEehhhHHHHhhhhhHHHHHHHHHHHHHHhhhhhccccccccccccccCCCCCccCC
Q 014873 304 FYAYAKS-FEINVDKE-ELEDARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGELAPIFIP 381 (417)
Q Consensus 304 f~a~~~~-~~~~~~~~-E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~~l~~~~~~~er~~~~~~~~k~~~~~~~~~~lP 381 (417)
+++.+.. .++.++.+ |+++++||+++++.+.|.. +|..|.+.. -+++++|
T Consensus 266 c~ala~~~~~I~vd~dlEleDaqwF~r~ev~~aL~~------------------kg~~Rv~~~----------~a~i~~P 317 (345)
T KOG3084|consen 266 CLALAKLNGKISVDKDLELEDAQWFDREEVKSALTT------------------KGLVRVQIE----------KALILIP 317 (345)
T ss_pred HHHHHhhCCccccCcchhhhhcccccHHHHHHHHHh------------------cCCcccccc----------CcceecC
Confidence 9988765 78888877 9999999999999997763 244433320 1468999
Q ss_pred ccchHHHHHHHHHhcCcCCCCCcccc
Q 014873 382 GPFAIAHHLISSWVYKDAPDGVQVQT 407 (417)
Q Consensus 382 ~~faIA~~Li~~w~~~~~~~~~~~~~ 407 (417)
++|||||+||.+|++...++.+...+
T Consensus 318 ~~~aIA~qLI~~~~~~~~~~~~~~~~ 343 (345)
T KOG3084|consen 318 PPFAIAHQLILHWVGFVPNNLGSSEK 343 (345)
T ss_pred ChhHHHHHHHHHHHccchhhhcchhh
Confidence 99999999999999988887766543
No 3
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=100.00 E-value=5.3e-44 Score=345.85 Aligned_cols=244 Identities=30% Similarity=0.501 Sum_probs=202.7
Q ss_pred CeEEEEEeCCceeeecCCCCCCCceeeccccchhhHHHhhhcCcCcccccEEEeeeeeCCCeeEEEEecCCCCccccccc
Q 014873 64 DFKVLPFRKGRPLTYSGPGETAPVWHLGWISLGDCKIFLANSGIELKEEALVYLGSRSADDVVYWAIDVSDGDSLASEFG 143 (417)
Q Consensus 64 ~~~~l~f~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~Lg~~~~~~~~~~a~~~~~~~~~~~~~~ 143 (417)
...+++|.+++.++... . +...+.... .......+|||.. ++.++|+++++..
T Consensus 12 ~~~~~~~~~~~~~~~~~-~-------~~~~~~~~~---------~~~~~~~~~lg~~--~~~~~~~~~~~~~-------- 64 (256)
T PRK00241 12 AGWWVVSHEQQLWLPDG-E-------LPFGAAANL---------DLPGLRALQIGEW--QGEPVWLVRQDPL-------- 64 (256)
T ss_pred CcEEEEEeCCeEEEccC-C-------CCCcccccc---------CCCccceEEEEee--CCEEEEEEEcCcc--------
Confidence 45688898988887431 1 111111111 0123567999986 6789999987532
Q ss_pred ccccchhhhHHHHhhcchhhhhhHHHHHHHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcccCCcCcE
Q 014873 144 SKQLCFVELRTVMVATDWADQRAMADLAIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPV 223 (417)
Q Consensus 144 ~~~~~~~~lr~~~~~~~~~~~~~~~~~~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~pv 223 (417)
.+..|.+||++ ..+ ++.+++++++|++|++||++|+|||+||+++....+++++.|+ +|+..+||+++|+
T Consensus 65 -~~~~~~~lr~~-~~~------~~~~~~~~~~a~~l~~w~~~~~fC~~CG~~~~~~~~~~~~~C~--~c~~~~yp~~~pa 134 (256)
T PRK00241 65 -RGHEMGSLRQL-LDL------DDGLFQLLGRAVQLAEFYRSHRFCGYCGHPMHPSKTEWAMLCP--HCRERYYPRIAPC 134 (256)
T ss_pred -ccccchhhhhh-ccC------CHHHHHHHHHHHHHHHHhhcCccccccCCCCeecCCceeEECC--CCCCEECCCCCCE
Confidence 14678899998 332 4578999999999999999999999999999999999999997 6999999999999
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVG 303 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~ 303 (417)
|+++|.+ +++|||+|+.+++.|.|++||||||+|||+++||+||++||||+++..++|+++++|++ +.++|++
T Consensus 135 Viv~V~~--~~~iLL~rr~~~~~g~wslPgG~vE~GEs~eeAa~REv~EEtGl~v~~~~~~~s~~~~~-----p~~lm~~ 207 (256)
T PRK00241 135 IIVAVRR--GDEILLARHPRHRNGVYTVLAGFVEVGETLEQCVAREVMEESGIKVKNLRYVGSQPWPF-----PHSLMLG 207 (256)
T ss_pred EEEEEEe--CCEEEEEEccCCCCCcEeCcccCCCCCCCHHHHhhhhhhhccCceeeeeEEEEeEeecC-----CCeEEEE
Confidence 9988765 58999999988778999999999999999999999999999999999999999999974 6789999
Q ss_pred EEEEEecccccCCcccccceEEEehhhHHHHhhhhhHHHHHHHHHHHHHHhhhhhccccccccccccccCCCCCccCCcc
Q 014873 304 FYAYAKSFEINVDKEELEDARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGELAPIFIPGP 383 (417)
Q Consensus 304 f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~~l~~~~~~~er~~~~~~~~k~~~~~~~~~~lP~~ 383 (417)
|.+.+..+++..+++|+.+++||++++++. +|..
T Consensus 208 f~a~~~~~~~~~~~~Ei~~a~W~~~del~~----------------------------------------------lp~~ 241 (256)
T PRK00241 208 FHADYDSGEIVFDPKEIADAQWFRYDELPL----------------------------------------------LPPS 241 (256)
T ss_pred EEEEecCCcccCCcccEEEEEEECHHHCcc----------------------------------------------cCCc
Confidence 999987777777888999999999998653 5788
Q ss_pred chHHHHHHHHHhcC
Q 014873 384 FAIAHHLISSWVYK 397 (417)
Q Consensus 384 faIA~~Li~~w~~~ 397 (417)
.+||++||+.|+..
T Consensus 242 ~sia~~li~~~~~~ 255 (256)
T PRK00241 242 GTIARRLIEDTVAL 255 (256)
T ss_pred hHHHHHHHHHHHHh
Confidence 89999999999863
No 4
>cd03429 NADH_pyrophosphatase NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for activity. Members of this family are also recognized by the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as a metal binding and catalytic site. A block of 8 conserved amino acids downstream of the nudix motif is thought to give NADH pyrophosphatase its specificity for NADH. NADH pyrophosphatase forms a dimer.
Probab=99.86 E-value=5.9e-21 Score=166.76 Aligned_cols=130 Identities=58% Similarity=0.910 Sum_probs=107.4
Q ss_pred cEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLM 301 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~ 301 (417)
|+|++++++. +++|||+||.+++.|.|++|||+++.|||+++||+||++||||+.+..+.+++...|.+ +..++
T Consensus 1 ~~v~i~l~~~-~~~vLL~~r~~~~~~~w~lPgG~ie~gEt~~~aA~REl~EEtGl~~~~~~~l~~~~~~~-----~~~~~ 74 (131)
T cd03429 1 PAVIVLVIDG-GDRILLARQPRFPPGMYSLLAGFVEPGESLEEAVRREVKEEVGIRVKNIRYVGSQPWPF-----PSSLM 74 (131)
T ss_pred CeEEEEEEeC-CCEEEEEEecCCCCCcCcCCcccccCCCCHHHHHhhhhhhccCceeeeeEEEeecCCCC-----CceEE
Confidence 4667777664 58999999987668999999999999999999999999999999998888888776653 35677
Q ss_pred EEEEEEEecccccCCcccccceEEEehhhHHHHhhhhhHHHHHHHHHHHHHHhhhhhccccccccccccccCCCCCccCC
Q 014873 302 VGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGELAPIFIP 381 (417)
Q Consensus 302 i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~~l~~~~~~~er~~~~~~~~k~~~~~~~~~~lP 381 (417)
++|++.....+...+++|+.+++|++++++.++ . .....+|
T Consensus 75 ~~f~~~~~~~~~~~~~~E~~~~~w~~~~el~~~-~--------------------------------------~~~~~~~ 115 (131)
T cd03429 75 LGFTAEADSGEIVVDDDELEDARWFSRDEVRAA-G--------------------------------------EGLPELP 115 (131)
T ss_pred EEEEEEEcCCcccCCchhhhccEeecHHHHhhc-c--------------------------------------cCCccCC
Confidence 888888776666667789999999999999974 1 0123579
Q ss_pred ccchHHHHHHHHHhc
Q 014873 382 GPFAIAHHLISSWVY 396 (417)
Q Consensus 382 ~~faIA~~Li~~w~~ 396 (417)
++.++++.+++.|+.
T Consensus 116 ~~~~~~~~~~~~~~~ 130 (131)
T cd03429 116 PPGSIARQLIEAWLE 130 (131)
T ss_pred CcchHHHHHHHHHhc
Confidence 999999999999983
No 5
>cd04511 Nudix_Hydrolase_4 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, U=I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate specifici
Probab=99.84 E-value=2.6e-20 Score=162.07 Aligned_cols=122 Identities=26% Similarity=0.363 Sum_probs=96.8
Q ss_pred ecCCCCCCcccCCcCcEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEE
Q 014873 207 CSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT 285 (417)
Q Consensus 207 C~~~~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~ 285 (417)
|+ .|+.++|+++..+|.+++++ +++|||+||.. ...|.|++|||+||+||++++|++||++||||+++....+++
T Consensus 1 c~--~~~~~~~~~~~~~v~~ii~~--~~~vLL~kr~~~~~~g~w~lPgG~ve~gE~~~~a~~REl~EEtGl~~~~~~~~~ 76 (130)
T cd04511 1 CP--DCGYIHYQNPKIIVGCVPEW--EGKVLLCRRAIEPRHGFWTLPAGFMENGETTEQGALRETWEEAGARVEIDGLYA 76 (130)
T ss_pred CC--CCccccCCCCcEEEEEEEec--CCEEEEEEecCCCCCCeEECCcccccCCCCHHHHHHHHHHHHhCCEEEeeeEEE
Confidence 76 79999999888777776665 58999999875 346899999999999999999999999999999987666666
Q ss_pred EeecCCCCCCCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHH-Hhhhh
Q 014873 286 SQPWPVGPNSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKK-ALTFA 338 (417)
Q Consensus 286 s~~~~~~~~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~-~L~~~ 338 (417)
....+ ....+++.|.+......+.. ..|..+++|+++++++. .|++.
T Consensus 77 ~~~~~-----~~~~~~~~f~~~~~~~~~~~-~~e~~~~~~~~~~~l~~~~l~~~ 124 (130)
T cd04511 77 VYSVP-----HISQVYMFYRARLLDLDFAP-GPESLEVRLFTEEEIPWDELAFP 124 (130)
T ss_pred EEecC-----CceEEEEEEEEEEcCCcccC-CcchhceEEECHHHCCchhcccc
Confidence 55543 13467888888876655443 46888999999999973 45554
No 6
>cd04700 DR1025_like DR1025 from Deinococcus radiodurans, a member of the Nudix hydrolase superfamily, show nucleoside triphosphatase and dinucleoside polyphosphate pyrophosphatase activities. Like other enzymes belonging to this superfamily, it requires a divalent cation, in this case Mg2+, for its activity. It also contains a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. In general, substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is us
Probab=99.78 E-value=2.2e-18 Score=152.63 Aligned_cols=125 Identities=21% Similarity=0.248 Sum_probs=94.2
Q ss_pred CcccCCcCcEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC
Q 014873 214 KRIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG 292 (417)
Q Consensus 214 ~~~ypr~~pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~ 292 (417)
+-+||++.++|.++|++. +++|||+++.. +.++.|++|||+|++|||+++||+||++||||+++..+.+++...+.+.
T Consensus 6 ~~~~~~~~~av~~vv~~~-~~~vLL~~r~~~~~~~~w~lPgG~ve~gEt~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~ 84 (142)
T cd04700 6 RHHVEVEARAAGAVILNE-RNDVLLVQEKGGPKKGLWHIPSGAVEDGEFPQDAAVREACEETGLRVRPVKFLGTYLGRFD 84 (142)
T ss_pred ccCcceeeeeEEEEEEeC-CCcEEEEEEcCCCCCCeEECCceecCCCCCHHHHHHHHHHHhhCceeeccEEEEEEEEEcC
Confidence 458999999999988875 57899988764 3468999999999999999999999999999999987777766544332
Q ss_pred CCCCCcEEEEEEEEEEeccccc-CCcccccceEEEehhhHHHHhhhhhHH
Q 014873 293 PNSMPCQLMVGFYAYAKSFEIN-VDKEELEDARWHSREDVKKALTFAEYI 341 (417)
Q Consensus 293 ~~~~p~~l~i~f~a~~~~~~~~-~~~~E~~~a~Wf~~del~~~L~~~~~~ 341 (417)
.. ...+.+.|++........ ...+|+.+++||+++++.+++..+.+.
T Consensus 85 ~~--~~~~~~~f~~~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~~g~i~ 132 (142)
T cd04700 85 DG--VLVLRHVWLAEPEGQTLAPKFTDEIAEASFFSREDVAQLYAQGQLR 132 (142)
T ss_pred CC--cEEEEEEEEEEecCCccccCCCCCEEEEEEECHHHhhhcccccccc
Confidence 11 123344565655433222 234799999999999999987765543
No 7
>cd04681 Nudix_Hydrolase_22 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.78 E-value=2.1e-18 Score=149.22 Aligned_cols=122 Identities=27% Similarity=0.404 Sum_probs=90.3
Q ss_pred EEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCC-cEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMP-CQL 300 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p-~~l 300 (417)
+|.+++++. +++|||++|.+ ..+|.|.+|||++|.|||+++||.||++||||+++..+.++++.+..+...... ..+
T Consensus 3 av~~~i~~~-~~~vLL~~r~~~~~~~~w~~PgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (130)
T cd04681 3 AVGVLILNE-DGELLVVRRAREPGKGTLDLPGGFVDPGESAEEALIREIREETGLKVTELSYLFSLPNTYPYGGMEYDTL 81 (130)
T ss_pred eEEEEEEcC-CCcEEEEEecCCCCCCcEeCCceeecCCCCHHHHHHHHHHHHhCCcccceeEEEeecceeeeCCceeEEE
Confidence 455666664 57999999875 346899999999999999999999999999999998888887765433211122 233
Q ss_pred EEEEEEEEecccccCCcccccceEEEehhhHH-HHhhhhhHHHHHH
Q 014873 301 MVGFYAYAKSFEINVDKEELEDARWHSREDVK-KALTFAEYIKAQR 345 (417)
Q Consensus 301 ~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~-~~L~~~~~~~a~~ 345 (417)
.+.|.+.........+.+|+.+++|+++++++ ..+.+++.+.+++
T Consensus 82 ~~~~~~~~~~~~~~~~~~e~~~~~W~~~~el~~~~~~~~~~~~~~~ 127 (130)
T cd04681 82 DLFFVCQVDDKPIVKAPDDVAELKWVVPQDIELENFAFPSIRQAVE 127 (130)
T ss_pred EEEEEEEeCCCCCcCChHHhheeEEecHHHCCcccCCcHHHHHHHH
Confidence 44556666554455566899999999999996 4577777665544
No 8
>cd04684 Nudix_Hydrolase_25 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which forms a structural motif that functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability
Probab=99.78 E-value=3.5e-18 Score=146.59 Aligned_cols=117 Identities=25% Similarity=0.255 Sum_probs=87.3
Q ss_pred EEEEEEEecCCCEEEEEEecCC-CCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC-CCC--CCc
Q 014873 223 VVIMLVIDRENDRVLLSRQSRF-VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG-PNS--MPC 298 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~-~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~-~~~--~p~ 298 (417)
++.++|++ +++|||+||.+. .+|.|.+|||+||+|||+++||+||++||||+++..+.+++...+.+. +.. ...
T Consensus 2 ~~~~ii~~--~~~vLl~~~~~~~~~~~w~lPgG~ve~gE~~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (128)
T cd04684 2 GAYAVIPR--DGKLLLIQKNGGPYEGRWDLPGGGIEPGESPEEALHREVLEETGLTVEIGRRLGSASRYFYSPDGDYDAH 79 (128)
T ss_pred eeEEEEEe--CCEEEEEEccCCCCCCeEECCCcccCCCCCHHHHHHHHHHHHhCcEeecceeeeEEEEEEECCCCCeecc
Confidence 45666666 489999999863 468999999999999999999999999999999887777766544322 111 124
Q ss_pred EEEEEEEEEEecccc--cCCcccccceEEEehhhHHHHhhhhhHH
Q 014873 299 QLMVGFYAYAKSFEI--NVDKEELEDARWHSREDVKKALTFAEYI 341 (417)
Q Consensus 299 ~l~i~f~a~~~~~~~--~~~~~E~~~a~Wf~~del~~~L~~~~~~ 341 (417)
.+.+.|.+....... ....+|..+++|++++++.+.+..+...
T Consensus 80 ~~~~~f~~~~~~~~~~~~~~~~e~~~~~W~~~~~l~~~~~~~~~~ 124 (128)
T cd04684 80 HLCVFYDARVVGGALPVQEPGEDSHGAAWLPLDEAIERLLSPLVL 124 (128)
T ss_pred EEEEEEEEEEecCccccCCCCCCceeeEEECHHHhhccCCCHHHH
Confidence 566667776655443 3455788999999999999766555443
No 9
>cd04679 Nudix_Hydrolase_20 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.77 E-value=5.6e-18 Score=145.83 Aligned_cols=114 Identities=19% Similarity=0.196 Sum_probs=85.5
Q ss_pred cEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
+.|.++|++. +++|||++|.+ ..+|.|++|||++|+|||+++||+||++||||+++....+++...+.+... ....+
T Consensus 3 ~~~~~~i~~~-~~~vLL~~r~~~~~~~~w~lPgG~ve~gEt~~eaa~RE~~EEtGl~~~~~~~~~~~~~~~~~~-~~~~~ 80 (125)
T cd04679 3 VGCGAAILRD-DGKLLLVKRLRAPEAGHWGIPGGKVDWMEAVEDAVVREIEEETGLSIHSTRLLCVVDHIIEEP-PQHWV 80 (125)
T ss_pred eEEEEEEECC-CCEEEEEEecCCCCCCeEeCCeeeccCCCCHHHHHHHHHHHHHCCCcccceEEEEEeecccCC-CCeEE
Confidence 3455556664 58999999975 446899999999999999999999999999999998777776655433221 12456
Q ss_pred EEEEEEEEecccc-cCCcccccceEEEehhhHHHHhhh
Q 014873 301 MVGFYAYAKSFEI-NVDKEELEDARWHSREDVKKALTF 337 (417)
Q Consensus 301 ~i~f~a~~~~~~~-~~~~~E~~~a~Wf~~del~~~L~~ 337 (417)
++.|.+....... ..+++|+.+++||+++++++.|..
T Consensus 81 ~~~f~~~~~~~~~~~~~~~E~~~~~W~~~~~l~~~l~~ 118 (125)
T cd04679 81 APVYLAENFSGEPRLMEPDKLLELGWFALDALPQPLTR 118 (125)
T ss_pred EEEEEEeecCCccccCCCccccEEEEeCHHHCCchhHH
Confidence 6677776654433 235578999999999999986653
No 10
>cd03673 Ap6A_hydrolase Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most preferred substrate, hydrolyzes to produce two ATP molecules, which is a novel hydrolysis mode for Ap6A. These results indicate that Ap6A hydrolase is a diadenosine polyphosphate hydrolase. It requires the presence of a divalent cation, such as Mn2+, Mg2+, Zn2+, and Co2+, for activity. Members of the Nudix superfamily are recognized by a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which forms a structural motif that functions as a metal binding and catalytic site.
Probab=99.77 E-value=5.1e-18 Score=146.14 Aligned_cols=112 Identities=26% Similarity=0.297 Sum_probs=86.8
Q ss_pred CEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCC-CCCcEEEEEEEEEEeccc
Q 014873 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPN-SMPCQLMVGFYAYAKSFE 312 (417)
Q Consensus 234 ~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~-~~p~~l~i~f~a~~~~~~ 312 (417)
++|||+||.+. +.|.+|||++++|||+++||.||++||||+++..+.+++.+.+++... ......+..|.+......
T Consensus 16 ~~vLl~~~~~~--~~w~~PgG~v~~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (131)
T cd03673 16 IEVLLIHRPRG--DDWSLPKGKLEPGETPPEAAVREVEEETGIRAEVGDPLGTIRYWFSSSGKRVHKTVHWWLMRALGGE 93 (131)
T ss_pred eEEEEEEcCCC--CcccCCCCccCCCCCHHHHHHHHHhhhhCCceEecceEEEEEEeccCCCCCcceEEEEEEEEEcCCC
Confidence 79999999753 799999999999999999999999999999998777777766654321 112344455555555444
Q ss_pred ccC-CcccccceEEEehhhHHHHhhhhhHHHHHHHH
Q 014873 313 INV-DKEELEDARWHSREDVKKALTFAEYIKAQRTA 347 (417)
Q Consensus 313 ~~~-~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a 347 (417)
... +++|+.+++|++++++.+++.+++.+.++..+
T Consensus 94 ~~~~~~~E~~~~~W~~~~el~~~~~~~~~~~~l~~~ 129 (131)
T cd03673 94 FTPQPDEEVDEVRWLPPDEARDRLSYPNDRELLRAA 129 (131)
T ss_pred cccCCCCcEEEEEEcCHHHHHHHcCCHhHHHHHHHh
Confidence 443 56899999999999999999988877765543
No 11
>PLN02325 nudix hydrolase
Probab=99.76 E-value=1.5e-17 Score=147.82 Aligned_cols=121 Identities=23% Similarity=0.289 Sum_probs=87.0
Q ss_pred cccCCcCcEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCC
Q 014873 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGP 293 (417)
Q Consensus 215 ~~ypr~~pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~ 293 (417)
..||++...|.+++++ +++|||+||.. +..|.|.+|||+||.|||+++||+||++||||+++..+.+++.....+..
T Consensus 3 ~~~~~p~~~v~~vi~~--~~~vLL~rr~~~~~~g~W~lPGG~ve~gEs~~~aa~REv~EEtGl~v~~~~~l~~~~~~~~~ 80 (144)
T PLN02325 3 TGEPIPRVAVVVFLLK--GNSVLLGRRRSSIGDSTFALPGGHLEFGESFEECAAREVKEETGLEIEKIELLTVTNNVFLE 80 (144)
T ss_pred CCCCCCeEEEEEEEEc--CCEEEEEEecCCCCCCeEECCceeCCCCCCHHHHHHHHHHHHHCCCCcceEEEEEecceeec
Confidence 3567777777777766 47999999985 34579999999999999999999999999999999887777665433221
Q ss_pred CCCC-cEEEEEEEEEEeccc---ccCCcccccceEEEehhhHHHHhhh
Q 014873 294 NSMP-CQLMVGFYAYAKSFE---INVDKEELEDARWHSREDVKKALTF 337 (417)
Q Consensus 294 ~~~p-~~l~i~f~a~~~~~~---~~~~~~E~~~a~Wf~~del~~~L~~ 337 (417)
.... +.+.+.|.+...... ...+++|+.+++||++++++..+.+
T Consensus 81 ~~~~~~~i~~~f~~~~~~~~~~~~~~e~~e~~~~~W~~~d~Lp~~~~~ 128 (144)
T PLN02325 81 EPKPSHYVTVFMRAVLADPSQVPQNLEPEKCYGWDWYEWDNLPEPLFW 128 (144)
T ss_pred CCCCcEEEEEEEEEEECCCCCCCCcCCchhcCceEEEChHHCChhhhH
Confidence 1112 234455555543332 1234466788999999999985443
No 12
>cd03674 Nudix_Hydrolase_1 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, U=I, L or V), which forms a structural motif that functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamil
Probab=99.75 E-value=1.9e-17 Score=145.62 Aligned_cols=110 Identities=26% Similarity=0.359 Sum_probs=79.0
Q ss_pred EEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEE-----EeecCCCC-CC-
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT-----SQPWPVGP-NS- 295 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~-----s~~~~~~~-~~- 295 (417)
.+.+++++.++++|||+||.+ .|.|.+|||+||+|||+++||+||++||||+++..+.... .+.+.++. .+
T Consensus 4 ~~~~~v~~~~~~~vLLv~r~~--~~~w~lPgG~ve~gE~~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (138)
T cd03674 4 TASAFVVNPDRGKVLLTHHRK--LGSWLQPGGHIDPDESLLEAALRELREETGIELLGLRPLSVLVDLDVHPIDGHPKRG 81 (138)
T ss_pred EEEEEEEeCCCCeEEEEEEcC--CCcEECCceecCCCCCHHHHHHHHHHHHHCCCcccceeccccccceeEeecCCCCCC
Confidence 344556665338999999875 5899999999999999999999999999999876655432 22222221 11
Q ss_pred --CCcEEEEEEEEEEecccccC-CcccccceEEEehhhHHHH
Q 014873 296 --MPCQLMVGFYAYAKSFEINV-DKEELEDARWHSREDVKKA 334 (417)
Q Consensus 296 --~p~~l~i~f~a~~~~~~~~~-~~~E~~~a~Wf~~del~~~ 334 (417)
....+++.|++....+.... +++|..+++||+++++..+
T Consensus 82 ~~~~~~~~~~y~~~~~~~~~~~~~~~E~~~~~W~~~~el~~~ 123 (138)
T cd03674 82 VPGHLHLDLRFLAVAPADDVAPPKSDESDAVRWFPLDELASL 123 (138)
T ss_pred CCCcEEEEEEEEEEccCccccCCCCCcccccEEEcHHHhhhc
Confidence 12345667777765545443 6689999999999999764
No 13
>cd03430 GDPMH GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix signature sequence. The slight changes to the conserved sequence motif, GX5EX7REUXEEXGU, where U = I, L or V), are believed to contribute to the removal of all magnesium binding sites but one, retaining only the metal site that coordinates the pyrophosphate of the substrate. Secondly, it is not a pyrophosphatase that substitutes at a phosphorus; instead, it hydrolyzes nucleotide sugars such as GDP-mannose to GDP and mannose, cleaving the phosphoglycosyl bond by substituting at a carbon position. GDP-mannose provides mannosyl components for cell wall synthesis and is required for the synthesis of other glycosyl donors (such as GDP-fucose and colitose) for the cell wall. The importance of GDP-sugar hydrolase activities is thus close
Probab=99.75 E-value=1.5e-17 Score=147.81 Aligned_cols=111 Identities=18% Similarity=0.260 Sum_probs=81.5
Q ss_pred EEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccE--EEEEEeecCC-----CCC
Q 014873 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV--VYHTSQPWPV-----GPN 294 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v--~~~~s~~~~~-----~~~ 294 (417)
+|.++|++. +++|||+||.+ +.+|+|.+|||+||+|||+++|++||++||||+++... ++++.....+ ...
T Consensus 14 ~v~~vI~~~-~g~vLl~~R~~~p~~g~w~lPGG~ve~gEs~~~aa~RE~~EE~Gl~v~~~~~~~l~~~~~~~~~~~~~~~ 92 (144)
T cd03430 14 SIDLIVENE-DGQYLLGKRTNRPAQGYWFVPGGRIRKNETLTEAFERIAKDELGLEFLISDAELLGVFEHFYDDNFFGDD 92 (144)
T ss_pred EEEEEEEeC-CCeEEEEEccCCCCCCcEECCCceecCCCCHHHHHHHHHHHHHCCCcccccceEEEEEEEEeccccccCC
Confidence 455555553 68999999875 45789999999999999999999999999999988644 5544432211 111
Q ss_pred CCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHH
Q 014873 295 SMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 295 ~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~ 334 (417)
...+.+.+.|.+....+.+...++|+.+++||++++++++
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~W~~~~el~~~ 132 (144)
T cd03430 93 FSTHYVVLGYVLKLSSNELLLPDEQHSEYQWLTSDELLAD 132 (144)
T ss_pred CccEEEEEEEEEEEcCCcccCCchhccEeEEecHHHHhcC
Confidence 1123566667776655555556789999999999999863
No 14
>COG1051 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]
Probab=99.75 E-value=1e-17 Score=149.41 Aligned_cols=117 Identities=27% Similarity=0.357 Sum_probs=88.5
Q ss_pred CcccCCcCcEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC
Q 014873 214 KRIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG 292 (417)
Q Consensus 214 ~~~ypr~~pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~ 292 (417)
...|+.+.++|.+++.. +++|||+||.+ +..|.|++||||||.|||+++||+||++||||+++..++.++.+..+..
T Consensus 3 ~~~~~~p~~~v~~~i~~--~~~iLLvrR~~~p~~g~WalPGG~ve~GEt~eeaa~REl~EETgL~~~~~~~~~v~~~~~r 80 (145)
T COG1051 3 AMGYRTPLVAVGALIVR--NGRILLVRRANEPGAGYWALPGGFVEIGETLEEAARRELKEETGLRVRVLELLAVFDDPGR 80 (145)
T ss_pred cccCCCcceeeeEEEEe--CCEEEEEEecCCCCCCcEeCCCccCCCCCCHHHHHHHHHHHHhCCcccceeEEEEecCCCC
Confidence 45677777777777666 45999999997 5578999999999999999999999999999999888887777655532
Q ss_pred CCCCCcEEEEEEEEEEecccc-cCCcccccceEEEehhhHHH
Q 014873 293 PNSMPCQLMVGFYAYAKSFEI-NVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 293 ~~~~p~~l~i~f~a~~~~~~~-~~~~~E~~~a~Wf~~del~~ 333 (417)
.- -.+++.+.|++....++. ..+.++...+.||++++++.
T Consensus 81 d~-r~~~v~~~~~~~~~~g~~~~~~~~d~~~~~~~~~~~l~~ 121 (145)
T COG1051 81 DP-RGHHVSFLFFAAEPEGELLAGDGDDAAEVGWFPLDELPE 121 (145)
T ss_pred CC-ceeEEEEEEEEEecCCCcccCChhhHhhcceecHhHccc
Confidence 11 123555556655544433 33345888999999999996
No 15
>cd04680 Nudix_Hydrolase_21 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.75 E-value=1.2e-17 Score=142.03 Aligned_cols=110 Identities=26% Similarity=0.300 Sum_probs=84.3
Q ss_pred EEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeec-cEEEEEEeecCCCCCCCCcEEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG-EVVYHTSQPWPVGPNSMPCQLM 301 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~-~v~~~~s~~~~~~~~~~p~~l~ 301 (417)
.|.+++++. +++|||+||.. .+.|.+|||++++|||+++||+||++||||+.+. .+..++...+.+. .....+
T Consensus 2 ~~~~~i~~~-~~~vLL~~r~~--~~~w~~PgG~ve~gEt~~~aa~REl~EEtG~~~~~~~~~~~~~~~~~~---~~~~~~ 75 (120)
T cd04680 2 GARAVVTDA-DGRVLLVRHTY--GPGWYLPGGGLERGETFAEAARRELLEELGIRLAVVAELLGVYYHSAS---GSWDHV 75 (120)
T ss_pred ceEEEEECC-CCeEEEEEECC--CCcEeCCCCcCCCCCCHHHHHHHHHHHHHCCccccccceEEEEecCCC---CCceEE
Confidence 345566664 67999999874 3489999999999999999999999999999998 7777766554432 123456
Q ss_pred EEEEEEEecccccCCcccccceEEEehhhHHHHhhhh
Q 014873 302 VGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 302 i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
+.|.+.........+.+|+.+++||+++++++++..+
T Consensus 76 ~~f~~~~~~~~~~~~~~E~~~~~w~~~~~l~~~~~~~ 112 (120)
T cd04680 76 IVFRARADTQPVIRPSHEISEARFFPPDALPEPTTPA 112 (120)
T ss_pred EEEEecccCCCccCCcccEEEEEEECHHHCcccCChH
Confidence 6777766554445567899999999999999866543
No 16
>cd04683 Nudix_Hydrolase_24 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.74 E-value=2.1e-17 Score=141.03 Aligned_cols=109 Identities=23% Similarity=0.369 Sum_probs=80.0
Q ss_pred EEEEEEEecCCCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeec--cEEEEEEeecCCCCCCCCc
Q 014873 223 VVIMLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWPVGPNSMPC 298 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~--~v~~~~s~~~~~~~~~~p~ 298 (417)
+|.+++++ +++|||+||.+ ..+|.|++|||+|++|||+++||+||++||||+.+. .+.+++...+.... ...
T Consensus 2 ~v~~vi~~--~~~vLL~~r~~~~~~~~~w~lPgG~ve~gE~~~~aa~REl~EEtGl~v~~~~~~~~~~~~~~~~~--~~~ 77 (120)
T cd04683 2 AVYVLLRR--DDEVLLQRRANTGYMDGQWALPAGHLEKGEDAVTAAVREAREEIGVTLDPEDLRLAHTMHRRTED--IES 77 (120)
T ss_pred cEEEEEEE--CCEEEEEEccCCCCCCCeEeCCccccCCCCCHHHHHHHHHHHHHCCccChhheEEEEEEEecCCC--Cce
Confidence 45555655 58999999875 347899999999999999999999999999999986 66676665443221 123
Q ss_pred EEEEEEEEEEecccc-cCCcccccceEEEehhhHHHHh
Q 014873 299 QLMVGFYAYAKSFEI-NVDKEELEDARWHSREDVKKAL 335 (417)
Q Consensus 299 ~l~i~f~a~~~~~~~-~~~~~E~~~a~Wf~~del~~~L 335 (417)
.+++.|.+....+.. ..+++|+.+++|++++++++.+
T Consensus 78 ~~~~~f~~~~~~~~~~~~~~~e~~~~~W~~~~~l~~~~ 115 (120)
T cd04683 78 RIGLFFTVRRWSGEPRNCEPDKCAELRWFPLDALPDDT 115 (120)
T ss_pred EEEEEEEEEeecCccccCCCCcEeeEEEEchHHCcchh
Confidence 455555554433333 2345788999999999998754
No 17
>cd04664 Nudix_Hydrolase_7 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=99.74 E-value=2.5e-17 Score=142.53 Aligned_cols=111 Identities=26% Similarity=0.280 Sum_probs=81.9
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEee-cCC-C-CCCCCcEEEEEEEEEEe
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQP-WPV-G-PNSMPCQLMVGFYAYAK 309 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~-~~~-~-~~~~p~~l~i~f~a~~~ 309 (417)
+++|||+||.+..+|.|.+|||+++.|||+++||.||++||||+.+..+.++.... +.+ . ........++.|.+...
T Consensus 14 ~~~vLL~~r~~~~~~~w~~PgG~ve~~Es~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~ 93 (129)
T cd04664 14 EGRVLLLRRSDKYAGFWQSVTGGIEDGESPAEAARREVAEETGLDPERLTLLDRGASIAFVEFTDNGRVWTEHPFAFHLP 93 (129)
T ss_pred CCEEEEEEeCCCCCCcccccCcccCCCCCHHHHHHHHHHHHHCCChhheEEEeecccccccccCCCceEEEEeEEEEEcC
Confidence 68999999986567999999999999999999999999999999986666554432 111 1 11112245556666655
Q ss_pred cccccCCcccccceEEEehhhHHHHhhhhhHHHH
Q 014873 310 SFEINVDKEELEDARWHSREDVKKALTFAEYIKA 343 (417)
Q Consensus 310 ~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a 343 (417)
.......++|+.+++|++++++.+++.+++.+++
T Consensus 94 ~~~~~~~~~E~~~~~W~~~~e~~~~~~~~~~~~~ 127 (129)
T cd04664 94 SDAVVTLDWEHDAFEWVPPEEAAALLLWESNRRA 127 (129)
T ss_pred CCCcccCCccccccEecCHHHHHHHHcChhhhhh
Confidence 4432334578999999999999999888776554
No 18
>cd04696 Nudix_Hydrolase_37 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.74 E-value=2.9e-17 Score=141.54 Aligned_cols=109 Identities=27% Similarity=0.435 Sum_probs=80.2
Q ss_pred cEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC--CCCCCcE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG--PNSMPCQ 299 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~--~~~~p~~ 299 (417)
++|.++|++. +++|||+||.+ .+|.|++|||++++|||+++||+||++||||+++..+.++....+.+. .......
T Consensus 3 ~~v~~~i~~~-~~~iLL~r~~~-~~~~w~lPGG~ve~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (125)
T cd04696 3 VTVGALIYAP-DGRILLVRTTK-WRGLWGVPGGKVEWGETLEEALKREFREETGLKLRDIKFAMVQEAIFSEEFHKPAHF 80 (125)
T ss_pred cEEEEEEECC-CCCEEEEEccC-CCCcEeCCceeccCCCCHHHHHHHHHHHHhCCcccccceEEEEEEeccCCCCCccEE
Confidence 4555566654 67999998764 468999999999999999999999999999999876665544322221 1112345
Q ss_pred EEEEEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 300 LMVGFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 300 l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
+++.|++......+.. .+|+.+++||+++++.+
T Consensus 81 ~~~~~~~~~~~~~~~~-~~e~~~~~W~~~~el~~ 113 (125)
T cd04696 81 VLFDFFARTDGTEVTP-NEEIVEWEWVTPEEALD 113 (125)
T ss_pred EEEEEEEEecCCcccC-CcccceeEEECHHHHhc
Confidence 6667777765444443 47899999999999987
No 19
>cd04691 Nudix_Hydrolase_32 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.74 E-value=4e-17 Score=139.65 Aligned_cols=104 Identities=32% Similarity=0.385 Sum_probs=78.5
Q ss_pred EEEEEEecCCCEEEEEEecC---CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 224 VIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~---~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
|++++++ +++|||+||.+ +.+|.|++|||+||+|||+++||+||++||||+++..+.++..+..+.+ ....
T Consensus 3 v~~vi~~--~~~vLL~rR~~~~~~~~g~w~lPgG~ve~gE~~~~aa~REl~EEtGl~~~~~~~l~~~~~~~~----~~~~ 76 (117)
T cd04691 3 VVGVLFS--DDKVLLERRSLTKNADPGKLNIPGGHIEAGESQEEALLREVQEELGVDPLSYTYLCSLYHPTS----ELQL 76 (117)
T ss_pred EEEEEEE--CCEEEEEEeCCCCCCCCCeEECcceeecCCCCHHHHHHHHHHHHHCCCcccceEEEEEeccCC----CeEE
Confidence 4455555 48999999975 3678999999999999999999999999999999877777777655432 1233
Q ss_pred EEEEEEEEecccccCCcccccceEEEehhhHHHHh
Q 014873 301 MVGFYAYAKSFEINVDKEELEDARWHSREDVKKAL 335 (417)
Q Consensus 301 ~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L 335 (417)
+..|.+....+.+ ..+|..+++||++++++...
T Consensus 77 ~~~~~~~~~~~~~--~~~E~~~~~W~~~~~l~~~~ 109 (117)
T cd04691 77 LHYYVVTFWQGEI--PAQEAAEVHWMTANDIVLAS 109 (117)
T ss_pred EEEEEEEEecCCC--CcccccccEEcCHHHcchhh
Confidence 4444544433333 34799999999999999743
No 20
>PRK15434 GDP-mannose mannosyl hydrolase NudD; Provisional
Probab=99.74 E-value=4e-17 Score=147.68 Aligned_cols=113 Identities=17% Similarity=0.252 Sum_probs=80.9
Q ss_pred EEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeec--cEEEEEEeecCCC--C-CC-
Q 014873 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWPVG--P-NS- 295 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~--~v~~~~s~~~~~~--~-~~- 295 (417)
+|.++|++ +.++|||+||.. +.+|.|++|||+||+|||+++||+||++||||+++. ...+++.....+. . ..
T Consensus 19 ~v~~vI~~-~~g~VLL~kR~~~~~~g~W~lPGG~VE~GEt~~~Aa~REl~EEtGl~v~~~~~~~~~~~~~~~~~~~~~~~ 97 (159)
T PRK15434 19 SLDFIVEN-SRGEFLLGKRTNRPAQGYWFVPGGRVQKDETLEAAFERLTMAELGLRLPITAGQFYGVWQHFYDDNFSGTD 97 (159)
T ss_pred EEEEEEEC-CCCEEEEEEccCCCCCCcEECCceecCCCCCHHHHHHHHHHHHHCCccccccceEEEEEEeecccccCCCc
Confidence 44444444 468999999874 456899999999999999999999999999999863 2233332211111 1 11
Q ss_pred -CCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhh
Q 014873 296 -MPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 296 -~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
....+++.|.+....++..+.++|+.+++||+++++++...
T Consensus 98 ~~~~~i~~~f~~~~~~g~~~~~~~E~~~~~W~~~~el~~~~~ 139 (159)
T PRK15434 98 FTTHYVVLGFRLRVAEEDLLLPDEQHDDYRWLTPDALLASDN 139 (159)
T ss_pred cceEEEEEEEEEEecCCcccCChHHeeEEEEEeHHHhhhccc
Confidence 11356667777766666666778999999999999998533
No 21
>cd03675 Nudix_Hydrolase_2 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which forms a structural motif that functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability,
Probab=99.73 E-value=9.6e-17 Score=139.66 Aligned_cols=102 Identities=27% Similarity=0.294 Sum_probs=78.1
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEEEEEeccc
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFYAYAKSFE 312 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~a~~~~~~ 312 (417)
++++||+||.+..++.|.+|||++|+|||+++||.||++||||+++....+++...+..... ....+++.|.+.+....
T Consensus 10 ~~~vLlv~r~~~~~~~w~~PgG~ve~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~-~~~~~~~~f~~~~~~~~ 88 (134)
T cd03675 10 DGRFLLVEEETDGGLVFNQPAGHLEPGESLIEAAVRETLEETGWHVEPTALLGIYQWTAPDS-DTTYLRFAFAAELLEHL 88 (134)
T ss_pred CCEEEEEEEccCCCceEECCCccCCCCCCHHHHHHHHHHHHHCcccccceEEEEEEeecCCC-CeeEEEEEEEEEECCCC
Confidence 68999999987667899999999999999999999999999999987766666554433221 12335566777665443
Q ss_pred cc-CCcccccceEEEehhhHHHHh
Q 014873 313 IN-VDKEELEDARWHSREDVKKAL 335 (417)
Q Consensus 313 ~~-~~~~E~~~a~Wf~~del~~~L 335 (417)
.. ..++|+.++.||+++++.++.
T Consensus 89 ~~~~~~~e~~~~~w~~~~el~~~~ 112 (134)
T cd03675 89 PDQPLDSGIVRAHWLTLEEILALA 112 (134)
T ss_pred CCCCCCCCceeeEEEeHHHHHhhh
Confidence 32 234688999999999999864
No 22
>cd04678 Nudix_Hydrolase_19 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.73 E-value=4.6e-17 Score=140.74 Aligned_cols=110 Identities=25% Similarity=0.320 Sum_probs=82.0
Q ss_pred cEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
.+|.+++++. +++|||+||.. +..+.|.+|||+|++|||+++||+||++||||+++..+.+++.....+ .....+.+
T Consensus 3 ~~v~~ii~~~-~~~iLl~~r~~~~~~~~w~~PGG~ve~gEt~~~Aa~REl~EE~Gl~~~~~~~~~~~~~~~-~~~~~~~~ 80 (129)
T cd04678 3 VGVGVFVLNP-KGKVLLGKRKGSHGAGTWALPGGHLEFGESFEECAAREVLEETGLHIENVQFLTVTNDVF-EEEGKHYV 80 (129)
T ss_pred eEEEEEEECC-CCeEEEEeccCCCCCCeEECCcccccCCCCHHHHHHHHHHHHhCCcccceEEEEEEeEEe-CCCCcEEE
Confidence 3455556664 58999999885 457899999999999999999999999999999988777766543322 11123456
Q ss_pred EEEEEEEEecccccC---CcccccceEEEehhhHHH
Q 014873 301 MVGFYAYAKSFEINV---DKEELEDARWHSREDVKK 333 (417)
Q Consensus 301 ~i~f~a~~~~~~~~~---~~~E~~~a~Wf~~del~~ 333 (417)
.+.|.+......... +.+|+.+++|++++++.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~e~~~~~W~~~~~l~~ 116 (129)
T cd04678 81 TIFVKAEVDDGEAEPNKMEPEKCEGWEWFDWEELPS 116 (129)
T ss_pred EEEEEEEeCCCCcccCCCCCceeCceEEeCHHHCCC
Confidence 667767665443332 457888999999999987
No 23
>cd04677 Nudix_Hydrolase_18 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.73 E-value=3.7e-17 Score=141.42 Aligned_cols=115 Identities=23% Similarity=0.258 Sum_probs=81.5
Q ss_pred CcCcEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecC--C--CCC
Q 014873 219 RVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP--V--GPN 294 (417)
Q Consensus 219 r~~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~--~--~~~ 294 (417)
.+.+++.+++++. +++|||++|... +.|++|||+|++|||+++||.||++||||+++..+..++...+. + ...
T Consensus 5 ~~~~~~~~~v~~~-~~~vLL~~r~~~--~~w~~PgG~v~~gEt~~~aa~REl~EE~Gi~~~~~~~~~~~~~~~~~~~~~~ 81 (132)
T cd04677 5 LILVGAGVILLNE-QGEVLLQKRSDT--GDWGLPGGAMELGESLEETARRELKEETGLEVEELELLGVYSGKEFYVKPNG 81 (132)
T ss_pred ccccceEEEEEeC-CCCEEEEEecCC--CcEECCeeecCCCCCHHHHHHHHHHHHhCCeeeeeEEEEEecCCceeecCCC
Confidence 3456677777775 579999998753 78999999999999999999999999999999877666543221 1 011
Q ss_pred CCCc-EEEEEEEEEEecccccCCcccccceEEEehhhHHHHhh
Q 014873 295 SMPC-QLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 295 ~~p~-~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
.... ..++.|.+......+..+.+|..+++||+++++++++.
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~W~~~~e~~~~~~ 124 (132)
T cd04677 82 DDEQYIVTLYYVTKVFGGKLVPDGDETLELKFFSLDELPELIN 124 (132)
T ss_pred CcEEEEEEEEEEEeccCCcccCCCCceeeEEEEChhHCccchh
Confidence 1112 33333434333344455678999999999999988554
No 24
>cd04673 Nudix_Hydrolase_15 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.73 E-value=5.2e-17 Score=138.32 Aligned_cols=109 Identities=28% Similarity=0.313 Sum_probs=80.4
Q ss_pred EEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCC---CCCCc
Q 014873 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGP---NSMPC 298 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~---~~~p~ 298 (417)
+|.+++++ +++|||+||.+ ..++.|.+|||++++|||+++||+||++||||+++....+++...+.+.. .....
T Consensus 2 ~v~~ii~~--~~~vLl~~r~~~~~~~~w~~PgG~ie~gE~~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (122)
T cd04673 2 AVGAVVFR--GGRVLLVRRANPPDAGLWSFPGGKVELGETLEQAALRELLEETGLEAEVGRLLTVVDVIERDAAGRVEFH 79 (122)
T ss_pred cEEEEEEE--CCEEEEEEEcCCCCCCeEECCCcccCCCCCHHHHHHHHHHHhhCcEeeeceeEEEEEEeeccCCCccceE
Confidence 34555665 47999999985 34689999999999999999999999999999998766666554433211 11123
Q ss_pred EEEEEEEEEEecccccCCcccccceEEEehhhHHHH
Q 014873 299 QLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 299 ~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~ 334 (417)
.+++.|.+....... .+.+|+.+++|++++++.++
T Consensus 80 ~~~~~~~~~~~~~~~-~~~~E~~~~~w~~~~el~~~ 114 (122)
T cd04673 80 YVLIDFLCRYLGGEP-VAGDDALDARWVPLDELAAL 114 (122)
T ss_pred EEEEEEEEEeCCCcc-cCCcccceeEEECHHHHhhC
Confidence 455666666555444 34578999999999999974
No 25
>PRK09438 nudB dihydroneopterin triphosphate pyrophosphatase; Provisional
Probab=99.72 E-value=1e-16 Score=142.35 Aligned_cols=126 Identities=19% Similarity=0.253 Sum_probs=86.5
Q ss_pred cEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCee--ccEEEEEEe---ec-------
Q 014873 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV--GEVVYHTSQ---PW------- 289 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v--~~v~~~~s~---~~------- 289 (417)
..|.+++++. +++|||+||.. .++.|++|||++|+|||+++||+||++||||+++ ..+..+... .+
T Consensus 8 ~~v~~vi~~~-~~~vLl~~r~~-~~~~W~lPgG~ve~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
T PRK09438 8 VSVLVVIYTP-DLGVLMLQRAD-DPDFWQSVTGSLEEGETPAQTAIREVKEETGIDVLAEQLTLIDCQRSIEYEIFPHWR 85 (148)
T ss_pred eEEEEEEEeC-CCeEEEEEecC-CCCcEeCCcccCCCCCCHHHHHHHHHHHHhCcCccccceeecccccccccccchhhh
Confidence 3455556654 67899998864 3589999999999999999999999999999988 444332211 01
Q ss_pred -CCCCCCCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhhhhHHHHHHHHHHHH
Q 014873 290 -PVGPNSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFAEYIKAQRTAAAKV 351 (417)
Q Consensus 290 -~~~~~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~~l 351 (417)
.+.+ .........|.+....+ ...+.+|+.+++|++++++.+++..+..+.++..+..++
T Consensus 86 ~~~~~-~~~~~~~~~f~~~~~~~-~~~~~~E~~~~~W~~~~e~~~~~~~~~~~~~l~~~~~~~ 146 (148)
T PRK09438 86 HRYAP-GVTRNTEHWFCLALPHE-RPVVLTEHLAYQWLDAREAAALTKSWSNAEAIEQLVIRL 146 (148)
T ss_pred hcccc-ccCCceeEEEEEecCCC-CccccCcccceeeCCHHHHHHHhcChhHHHHHHHHHHHh
Confidence 0111 11234455566654332 233446999999999999999888877777766554443
No 26
>cd03427 MTH1 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the incorporation of such oxygen radicals during replication. This is an important step in the repair mechanism in genomic and mitochondrial DNA. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for activity, and contain the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as a metal binding and catalytic site. MTH1 is predominantly localized in the cytoplasm and mitochondria. Structurally, this enzyme adopts a similar fold to MutT despite low sequence similarity outside the conserved nudix motif. The most distinctive structural difference between MutT and MTH1 is the presence of a beta-hairpin, which is absent in MutT. This results in a m
Probab=99.72 E-value=7.9e-17 Score=140.57 Aligned_cols=117 Identities=22% Similarity=0.224 Sum_probs=84.6
Q ss_pred cEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
++..+++.+ +++|||++|.+ ..++.|.+|||+||.|||+++||+||++||||+++..+.+++...+..... ....+
T Consensus 2 ~~~~~~i~~--~~~vLL~~r~~~~~~~~w~~PgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~-~~~~~ 78 (137)
T cd03427 2 LTTLCFIKD--PDKVLLLNRKKGPGWGGWNGPGGKVEPGETPEECAIRELKEETGLTIDNLKLVGIIKFPFPGE-EERYG 78 (137)
T ss_pred eEEEEEEEE--CCEEEEEEecCCCCCCeEeCCceeCCCCCCHHHHHHHHHHHhhCeEeecceEEEEEEEEcCCC-CcEEE
Confidence 345556665 48999999885 357899999999999999999999999999999998888777766553221 12345
Q ss_pred EEEEEEEEecccccCCcccccceEEEehhhHHHHhhhhhHHH
Q 014873 301 MVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFAEYIK 342 (417)
Q Consensus 301 ~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~ 342 (417)
+..|.+........ +.+|..+++|++++++++...+.....
T Consensus 79 ~~~f~~~~~~~~~~-~~~e~~~~~W~~~~el~~~~~~~~~~~ 119 (137)
T cd03427 79 VFVFLATEFEGEPL-KESEEGILDWFDIDDLPLLPMWPGDRE 119 (137)
T ss_pred EEEEEECCcccccC-CCCccccceEEcHhhcccccCCCCcHH
Confidence 55555554444333 345667899999999987544444433
No 27
>cd04695 Nudix_Hydrolase_36 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.72 E-value=9.6e-17 Score=139.76 Aligned_cols=112 Identities=23% Similarity=0.273 Sum_probs=77.9
Q ss_pred CCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEEEEEecc
Q 014873 232 ENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFYAYAKSF 311 (417)
Q Consensus 232 ~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~a~~~~~ 311 (417)
.+++|||+||....+|.|.+|||+||+|||+++||.||++||||+++..+.........+............|++.....
T Consensus 12 ~~~~vLl~~r~~~~~g~w~~PgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~ 91 (131)
T cd04695 12 KETKVLLLKRVKTLGGFWCHVAGGVEAGETAWQAALRELKEETGISLPELYNADYLEQFYEANDNRILMAPVFVGFVPPH 91 (131)
T ss_pred CCCEEEEEEecCCCCCcEECCcccccCCCCHHHHHHHHHHHHhCCCccccccccceeeEeecCCceEEEEEEEEEEecCC
Confidence 46899999998656799999999999999999999999999999998654321111011111111123344555555433
Q ss_pred cccCCcccccceEEEehhhHHHHhhhhhHHHH
Q 014873 312 EINVDKEELEDARWHSREDVKKALTFAEYIKA 343 (417)
Q Consensus 312 ~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a 343 (417)
......+|+.+++|++++++.+++.++..+.+
T Consensus 92 ~~~~~~~E~~~~~W~~~~e~~~~~~~~~~~~~ 123 (131)
T cd04695 92 QEVVLNHEHTEYRWCSFAEALELAPFPGQRAL 123 (131)
T ss_pred CccccCchhcccEecCHHHHHHhcCChhHHHH
Confidence 32323479999999999999998877665544
No 28
>cd04671 Nudix_Hydrolase_13 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.71 E-value=1.1e-16 Score=138.51 Aligned_cols=104 Identities=27% Similarity=0.418 Sum_probs=78.8
Q ss_pred EEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLM 301 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~ 301 (417)
++.+++++. +++|||+||.+ ..++.|.+|||+||.|||+++||+||++||||+++.....+...... ...++
T Consensus 2 ~~~~vv~~~-~~~vLl~~r~~~~~~~~w~lPgG~ve~gEt~~~aa~REl~EEtG~~~~~~~~~~~~~~~------~~~~~ 74 (123)
T cd04671 2 IVAAVILNN-QGEVLLIQEAKRSCRGKWYLPAGRMEPGETIEEAVKREVKEETGLDCEPTTLLSVEEQG------GSWFR 74 (123)
T ss_pred EEEEEEEcC-CCEEEEEEecCCCCCCeEECceeecCCCCCHHHHHHHHHHHHHCCeeecceEEEEEccC------CeEEE
Confidence 344555553 68999999875 34789999999999999999999999999999999777666544321 23567
Q ss_pred EEEEEEEecccccC---CcccccceEEEehhhHHH
Q 014873 302 VGFYAYAKSFEINV---DKEELEDARWHSREDVKK 333 (417)
Q Consensus 302 i~f~a~~~~~~~~~---~~~E~~~a~Wf~~del~~ 333 (417)
+.|.+....+.+.. ++.|+.+++||++++++.
T Consensus 75 ~~f~a~~~~g~~~~~~~~~~e~~~~~W~~~~el~~ 109 (123)
T cd04671 75 FVFTGNITGGDLKTEKEADSESLQARWYSNKDLPL 109 (123)
T ss_pred EEEEEEEeCCeEccCCCCCcceEEEEEECHHHCCC
Confidence 77777766554432 345777999999999954
No 29
>cd03424 ADPRase_NUDT5 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+, for its activity. It also contains a highly conserved 23-residue Nudix motif (GX5EX7REUXEEXGU, where U = I, L or V) which functions as a metal binding site/catalytic site. In addition to the Nudix motif, there are additional conserved amino acid residues, distal from the signature sequence, that correlate with substrate specificity. In humans, there are four distinct ADPRase activities, three putative cytosolic enzymes (ADPRase-I, -II, and -Mn) and a single mitochondrial enzyme (ADPRase-m). Human ADPRase-II is also referred to as NUDT5. It lacks the N-terminal target sequence unique to mitochondrial ADPRase. The different cytosolic types are distinguished by their specificities for substrate and specific requirem
Probab=99.71 E-value=1e-16 Score=139.95 Aligned_cols=113 Identities=31% Similarity=0.264 Sum_probs=85.7
Q ss_pred EEEEEEEecCCCEEEEEEecCC--CCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSRF--VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~--~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
+|.+++++. ++++||+++.+. .++.|++|||+||.||++++||+||++||||+.+..+.+++......+ .....
T Consensus 4 ~v~v~~~~~-~~~iLl~~~~~~~~~~~~w~~PgG~ve~gEs~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~---~~~~~ 79 (137)
T cd03424 4 AVAVLPYDD-DGKVVLVRQYRPPVGGWLLELPAGLIDPGEDPEEAARRELEEETGYEAGDLEKLGSFYPSPG---FSDER 79 (137)
T ss_pred EEEEEEEcC-CCeEEEEEeeecCCCCEEEEeCCccCCCCCCHHHHHHHHHHHHHCCCccceEEEeeEecCCc---ccCcc
Confidence 455666665 589999988753 356999999999999999999999999999999988887776543321 12345
Q ss_pred EEEEEEEEeccc--ccCCcccccceEEEehhhHHHHhhhhh
Q 014873 301 MVGFYAYAKSFE--INVDKEELEDARWHSREDVKKALTFAE 339 (417)
Q Consensus 301 ~i~f~a~~~~~~--~~~~~~E~~~a~Wf~~del~~~L~~~~ 339 (417)
+..|++...... ...++.|+.+++|++++++.+++..++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~~~~ 120 (137)
T cd03424 80 IHLFLAEDLSPGEEGLLDEGEDIEVVLVPLDEALELLADGE 120 (137)
T ss_pred EEEEEEEcccccccCCCCCCCeeEEEEecHHHHHHHHHcCC
Confidence 556666655433 345678999999999999999776544
No 30
>cd04670 Nudix_Hydrolase_12 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.71 E-value=1.6e-16 Score=137.11 Aligned_cols=107 Identities=29% Similarity=0.418 Sum_probs=75.5
Q ss_pred EEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMV 302 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i 302 (417)
.|.++|++. +++|||+||....++.|.+|||++|.|||+++||+||++||||+++....++....+.... ... ..+
T Consensus 4 ~~~~~v~~~-~~~vLl~~r~~~~~~~w~~PGG~ve~gEt~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~~--~~~-~~~ 79 (127)
T cd04670 4 GVGGLVLNE-KNEVLVVQERNKTPNGWKLPGGLVDPGEDIFDGAVREVLEETGIDTEFVSVVGFRHAHPGA--FGK-SDL 79 (127)
T ss_pred EEEEEEEcC-CCeEEEEEccCCCCCcEECCCccCCCCCCHHHHHHHHHHHHHCCCcceeEEEEEEecCCCC--cCc-eeE
Confidence 455566664 5899999876545799999999999999999999999999999998766655443332111 111 112
Q ss_pred EEEEEEe--cccccCCcccccceEEEehhhHHH
Q 014873 303 GFYAYAK--SFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 303 ~f~a~~~--~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
.|.+.+. ...+..+++|..+++||+++++.+
T Consensus 80 ~~~~~~~~~~~~~~~~~~E~~~~~w~~~~el~~ 112 (127)
T cd04670 80 YFICRLKPLSFDINFDTSEIAAAKWMPLEEYIS 112 (127)
T ss_pred EEEEEEccCcCcCCCChhhhheeEEEcHHHHhc
Confidence 2333332 223445678889999999999975
No 31
>cd03428 Ap4A_hydrolase_human_like Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant enzymes fall into one subfamily and fungi/animals/archaea enzymes, represented by this subfamily, fall into another. Bacterial enzymes are found in both subfamilies. Ap4A is a potential by-product of aminoacyl tRNA synthesis, and accumulation of Ap4A has been implicated in a range of biological events, such as DNA replication, cellular differentiation, heat shock, metabolic stress, and apoptosis. Ap4A hydrolase cleaves Ap4A asymmetrically into ATP and AMP. It is important in the invasive properties of bacteria and thus presents a potential target for inhibition of such invasive bacteria. Besides the signature nudix motif (G[X5]E[X7]REUXEEXGU, where U is Ile, Leu, or Val) that functions as a metal binding and
Probab=99.71 E-value=6.5e-17 Score=139.69 Aligned_cols=108 Identities=31% Similarity=0.395 Sum_probs=81.1
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEE----EeecCCCCCCCCcEEEEEEEEEE
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT----SQPWPVGPNSMPCQLMVGFYAYA 308 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~----s~~~~~~~~~~p~~l~i~f~a~~ 308 (417)
+.+|||+||.. +.|.+|||++++|||+++||.||++||||+.+..+.++. ...+.. ......+..|.+.+
T Consensus 16 ~~~vLl~~~~~---~~w~~PgG~ve~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~---~~~~~~~~~f~~~~ 89 (130)
T cd03428 16 EIEYLLLQASY---GHWDFPKGHVEPGEDDLEAALRETEEETGITAEQLFIVLGFKETLNYQV---RGKLKTVTYFLAEL 89 (130)
T ss_pred CceEEEEEccC---CcCcCCcCCCCCCCCHHHHHHHHHHHHHCCChhhhhhhccceeEEEccc---cCcceEEEEEEEEe
Confidence 34799999885 899999999999999999999999999999987665532 222221 11234555666666
Q ss_pred e-cccccCCcccccceEEEehhhHHHHhhhhhHHHHHHHH
Q 014873 309 K-SFEINVDKEELEDARWHSREDVKKALTFAEYIKAQRTA 347 (417)
Q Consensus 309 ~-~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a 347 (417)
. ...+..+ +|+.+++|++++++.+++.++..+..++++
T Consensus 90 ~~~~~~~~~-~E~~~~~W~~~~e~~~~~~~~~~~~~~~~~ 128 (130)
T cd03428 90 RPDVEVKLS-EEHQDYRWLPYEEALKLLTYEDLKAVLDKA 128 (130)
T ss_pred CCCCccccc-cceeeEEeecHHHHHHHcCchhHHHHHHHh
Confidence 5 3344444 789999999999999999888877665543
No 32
>cd04697 Nudix_Hydrolase_38 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.71 E-value=1.2e-16 Score=138.44 Aligned_cols=112 Identities=17% Similarity=0.264 Sum_probs=84.7
Q ss_pred EEEEEEEecCCCEEEEEEecC---CCCCcEEe-eeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCc
Q 014873 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSC-IAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPC 298 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~---~~~g~Wsl-PgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~ 298 (417)
++.+++++. +++|||++|.. +.+|+|++ |||++++||++++||+||++||||+.+..+..++.+.+... ...
T Consensus 2 ~~~v~i~~~-~~~iLl~~R~~~~~~~~g~w~~~~GG~ve~gE~~~~aa~REl~EEtGl~~~~l~~~~~~~~~~~---~~~ 77 (126)
T cd04697 2 ATYIFVFNS-EGKLCVHKRTLTKDWCPGYWDIAFGGVVQAGESYLQNAQRELEEELGIDGVQLTPLGLFYYDTD---GNR 77 (126)
T ss_pred eEEEEEEcC-CCeEEEEECCCCCCCCCCcccCcCCcccCCCCCHHHHHHHHHHHHHCCCccccEEeeEEEecCC---Cce
Confidence 345666665 68999999874 46799998 69999999999999999999999999987777776655422 122
Q ss_pred EEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhhhh
Q 014873 299 QLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFAE 339 (417)
Q Consensus 299 ~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~ 339 (417)
.....|.+.. ..++..+++|+.+++|++++++.+++..+.
T Consensus 78 ~~~~~f~~~~-~~~~~~~~~E~~~~~w~~~~el~~~~~~~~ 117 (126)
T cd04697 78 VWGKVFSCVY-DGPLKLQEEEVEEITWLSINEILQFKEGEN 117 (126)
T ss_pred EEEEEEEEEE-CCCCCCCHhHhhheEEcCHHHHHHHhhcCc
Confidence 3344555544 345556678999999999999999776543
No 33
>cd03671 Ap4A_hydrolase_plant_like Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant enzymes fall into one group (represented by this subfamily) and fungi/animals/archaea enzymes fall into another. Bacterial enzymes are found in both subfamilies. Ap4A is a potential by-product of aminoacyl tRNA synthesis, and accumulation of Ap4A has been implicated in a range of biological events, such as DNA replication, cellular differentiation, heat shock, metabolic stress, and apoptosis. Ap4A hydrolase cleaves Ap4A asymmetrically into ATP and AMP. It is important in the invasive properties of bacteria and thus presents a potential target for the inhibition of such invasive bacteria. Besides the signature nudix motif (G[X5]E[X7]REUXEEXGU where U is Ile, Leu, or Val), Ap4A hydrolase is structurally
Probab=99.70 E-value=2.2e-16 Score=140.37 Aligned_cols=113 Identities=25% Similarity=0.355 Sum_probs=81.0
Q ss_pred cEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeec----CCCCC---
Q 014873 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW----PVGPN--- 294 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~----~~~~~--- 294 (417)
++|.+++++. +++|||+||.+.. +.|++|||++|+||++.+||.||++||||+++..+..++..+. .+...
T Consensus 4 ~~v~~ii~~~-~~~vLL~~r~~~~-~~W~~PgG~~e~gE~~~~aA~REv~EEtGl~~~~~~~l~~~~~~~~y~~~~~~~~ 81 (147)
T cd03671 4 PNVGVVLFNE-DGKVFVGRRIDTP-GAWQFPQGGIDEGEDPEQAALRELEEETGLDPDSVEIIAEIPDWLRYDLPPELKL 81 (147)
T ss_pred ceEEEEEEeC-CCEEEEEEEcCCC-CCEECCcCCCCCCcCHHHHHHHHHHHHHCCCcCceEEEEEcCCeeEeeChhhhhc
Confidence 5677777775 5899999998755 8999999999999999999999999999999877666655321 11100
Q ss_pred -C----CCcEEEEEEEEEEec--ccccCC---cccccceEEEehhhHHHHhh
Q 014873 295 -S----MPCQLMVGFYAYAKS--FEINVD---KEELEDARWHSREDVKKALT 336 (417)
Q Consensus 295 -~----~p~~l~i~f~a~~~~--~~~~~~---~~E~~~a~Wf~~del~~~L~ 336 (417)
. +.......|++.+.. .++.++ ++|+.+++||+++++.+++.
T Consensus 82 ~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~E~~~~~W~~~~el~~~~~ 133 (147)
T cd03671 82 KIWGGRYRGQEQKWFLFRFTGDDSEIDLNAPEHPEFDEWRWVPLEELPDLIV 133 (147)
T ss_pred cccCCcCCCEEEEEEEEEecCCCccccCCCCCCCCEeeEEeCCHHHHHHhch
Confidence 0 112333444444433 344443 46999999999999998643
No 34
>cd03426 CoAse Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative stress. CoAse has a conserved Nudix fold and requires a single divalent cation for catalysis. In addition to a signature Nudix motif G[X5]E[X7]REUXEEXGU, where U is Ile, Leu, or Val, CoAse contains an additional motif upstream called the NuCoA motif (LLTXT(SA)X3RX3GX3FPGG) which is postulated to be involved in CoA recognition. CoA plays a central role in lipid metabolism. It is involved in the initial steps of fatty acid sythesis in the cytosol, in the oxidation of fatty acids and the citric acid cycle in the mitochondria, and in the oxidation of long-chain fatty acids in peroxisomes. CoA has the important role of activating fatty acids for further modification into key biological signalling molecules.
Probab=99.70 E-value=1.2e-16 Score=143.80 Aligned_cols=110 Identities=19% Similarity=0.212 Sum_probs=83.9
Q ss_pred cEEEEEEEecC-CCEEEEEEecC---CCCCcEEeeeeeccCC-CCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCC
Q 014873 222 PVVIMLVIDRE-NDRVLLSRQSR---FVPRMWSCIAGFIEPG-ESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSM 296 (417)
Q Consensus 222 pvVivlvi~~~-~~kVLL~rr~~---~~~g~WslPgG~VE~G-EtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~ 296 (417)
.+|++++.+.+ +++|||+||.. ..+|.|++|||+||+| ||+++||+||++||||+++..+.+++.....+...
T Consensus 3 ~av~v~l~~~~~~~~vLL~~R~~~~~~~~g~w~lPGG~ve~gdEs~~eaa~REl~EEtGl~~~~~~~l~~~~~~~~~~-- 80 (157)
T cd03426 3 AAVLVLLVEREGELRVLLTKRASHLRSHPGQVAFPGGKVDPGDEDPVATALREAEEEIGLPPDSVEVLGRLPPYYTRS-- 80 (157)
T ss_pred eEEEEEEEeCCCceEEEEEEcccccccCCCcEECCCCCcCCCcCCHHHHHHHHHHHHhCCCccceEEEEECCCccccC--
Confidence 45666666653 36999999986 2579999999999999 99999999999999999998888887765433222
Q ss_pred CcEEEEEEEEEEecc-cccCCcccccceEEEehhhHHHH
Q 014873 297 PCQLMVGFYAYAKSF-EINVDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 297 p~~l~i~f~a~~~~~-~~~~~~~E~~~a~Wf~~del~~~ 334 (417)
...+..|++..... .+.++++|+.+++|++++++.+.
T Consensus 81 -~~~v~~~~~~~~~~~~~~~~~~E~~~~~W~~~~el~~~ 118 (157)
T cd03426 81 -GFVVTPVVGLVPPPLPLVLNPDEVAEVFEVPLSFLLDP 118 (157)
T ss_pred -CCEEEEEEEEECCCCCCCCCHHHhheeEEEcHHHHhCc
Confidence 22334455554432 55667789999999999999973
No 35
>PRK15472 nucleoside triphosphatase NudI; Provisional
Probab=99.70 E-value=1.9e-16 Score=139.51 Aligned_cols=108 Identities=25% Similarity=0.430 Sum_probs=69.6
Q ss_pred EEEEEecCCCEEEEEEecC---CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEE--------EeecCCCC
Q 014873 225 IMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT--------SQPWPVGP 293 (417)
Q Consensus 225 ivlvi~~~~~kVLL~rr~~---~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~--------s~~~~~~~ 293 (417)
++++++. +++|||+||.. ..+|.|++|||+||+|||+++||+||++||||+++....... ...++.+.
T Consensus 7 ~~~ii~~-~~~vLl~~R~~~~~~~~g~W~lPgG~ve~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (141)
T PRK15472 7 VCPLIQN-DGAYLLCKMADDRGVFPGQWALSGGGVEPGERIEEALRREIREELGEQLLLTEITPWTFRDDIRTKTYADGR 85 (141)
T ss_pred EEEEEec-CCEEEEEEecccCCCCCCceeCCcccCCCCCCHHHHHHHHHHHHHCCceeeeeeccccccccceeEEecCCC
Confidence 3444444 68999999864 357999999999999999999999999999999864221100 01111111
Q ss_pred CCCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHH
Q 014873 294 NSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 294 ~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~ 334 (417)
......+++.|.+......+.. .+|+.+++||+++++.++
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~-~~E~~~~~w~~~~el~~l 125 (141)
T PRK15472 86 KEEIYMIYLIFDCVSANRDVKI-NEEFQDYAWVKPEDLVHY 125 (141)
T ss_pred ceeEEEEEEEEEeecCCCcccC-ChhhheEEEccHHHhccc
Confidence 0000111222333333334444 478999999999999984
No 36
>cd04682 Nudix_Hydrolase_23 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.70 E-value=1.4e-16 Score=136.86 Aligned_cols=104 Identities=26% Similarity=0.297 Sum_probs=75.9
Q ss_pred EEEEEEEecCCCEEEEEEecC----CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeecc--EEEEEEeecCCCCCCC
Q 014873 223 VVIMLVIDRENDRVLLSRQSR----FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE--VVYHTSQPWPVGPNSM 296 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~----~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~--v~~~~s~~~~~~~~~~ 296 (417)
|+++++++ +++|||+||.+ ..+|.|.+|||+|+.|||+++||.||++||||+++.. +.+...+... .
T Consensus 3 v~~~~~~~--~g~vLl~~r~~~~~~~~~g~w~~PgG~ve~gE~~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~-----~ 75 (122)
T cd04682 3 VALALLIG--DGRLLLQLRDDKPGIPYPGHWDLPGGHREGGETPLECVLRELLEEIGLTLPESRIPWFRVYPSA-----S 75 (122)
T ss_pred eEEEEEEc--CCEEEEEEccCCCCCCCCCcEeCCCccccCCCCHHHHHHHHHHHHhCCcccccccceeEecccC-----C
Confidence 34444544 48999999974 3579999999999999999999999999999999853 2222222211 1
Q ss_pred CcEEEEEEEEEEeccc-ccCCcccccceEEEehhhHHH
Q 014873 297 PCQLMVGFYAYAKSFE-INVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 297 p~~l~i~f~a~~~~~~-~~~~~~E~~~a~Wf~~del~~ 333 (417)
....+..|.+...... ...+.+|+.+++|++++++.+
T Consensus 76 ~~~~~~~f~~~~~~~~~~~~~~~E~~~~~W~~~~el~~ 113 (122)
T cd04682 76 PPGTEHVFVVPLTAREDAILFGDEGQALRLMTVEEFLA 113 (122)
T ss_pred CCceEEEEEEEEecCCCccccCchhheeecccHHHHhh
Confidence 2345556666655433 456678999999999999976
No 37
>cd04676 Nudix_Hydrolase_17 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.69 E-value=3.4e-16 Score=133.81 Aligned_cols=117 Identities=27% Similarity=0.347 Sum_probs=82.4
Q ss_pred CcEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeec-----CCCCCC
Q 014873 221 DPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW-----PVGPNS 295 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~-----~~~~~~ 295 (417)
.|+|.+++.+. +++|||+||.. .|.|.+|||+++.|||+++||.||++||||+++....+++.... .+....
T Consensus 2 ~~~v~~ii~~~-~~~vLl~~r~~--~~~w~lPgG~v~~~E~~~~aa~REl~EE~Gl~~~~~~~~~~~~~~~~~~~~~~~~ 78 (129)
T cd04676 2 LPGVTAVVRDD-EGRVLLIRRSD--NGLWALPGGAVEPGESPADTAVREVREETGLDVEVTGLVGIYTGPVHVVTYPNGD 78 (129)
T ss_pred cceEEEEEECC-CCeEEEEEecC--CCcEECCeeccCCCCCHHHHHHHHHHHHhCceeEeeEEEEEeecccceeecCCCC
Confidence 35666666664 58999999875 38999999999999999999999999999999866555332211 111111
Q ss_pred CCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhhhhH
Q 014873 296 MPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFAEY 340 (417)
Q Consensus 296 ~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~~ 340 (417)
....+.+.|++.........+.+|..+++|++++++.++......
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~e~~~~~w~~~~el~~~~~~~~~ 123 (129)
T cd04676 79 VRQYLDITFRCRVVGGELRVGDDESLDVAWFDPDGLPPLLMHPSM 123 (129)
T ss_pred cEEEEEEEEEEEeeCCeecCCCCceeEEEEEChhhCccccCCHhH
Confidence 123455666665555444345678899999999999985444333
No 38
>cd04672 Nudix_Hydrolase_14 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.69 E-value=3.4e-16 Score=134.63 Aligned_cols=106 Identities=21% Similarity=0.250 Sum_probs=76.7
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC-CC-CCCcEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG-PN-SMPCQLM 301 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~-~~-~~p~~l~ 301 (417)
|.++|++ +++|||+++.+ .+.|.+|||+|++|||+++||+||++||||+.+....+++....... .. .....++
T Consensus 5 v~~~i~~--~~~vLL~~~~~--~~~w~~PGG~ve~gEs~~~aa~REl~EEtG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (123)
T cd04672 5 VRAAIFK--DGKILLVREKS--DGLWSLPGGWADVGLSPAENVVKEVKEETGLDVKVRKLAAVDDRNKHHPPPQPYQVYK 80 (123)
T ss_pred EEEEEEE--CCEEEEEEEcC--CCcEeCCccccCCCCCHHHHHHHHHHHHhCCeeeEeEEEEEeccccccCCCCceEEEE
Confidence 4455666 48999999875 68999999999999999999999999999999854444444322211 11 1112345
Q ss_pred EEEEEEEecccccCCcccccceEEEehhhHHHH
Q 014873 302 VGFYAYAKSFEINVDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 302 i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~ 334 (417)
+.|.+......+... +|..+++||++++++++
T Consensus 81 ~~f~~~~~~~~~~~~-~E~~~~~W~~~~el~~l 112 (123)
T cd04672 81 LFFLCEILGGEFKPN-IETSEVGFFALDDLPPL 112 (123)
T ss_pred EEEEEEecCCcccCC-CceeeeEEECHHHCccc
Confidence 566666655555444 78999999999999874
No 39
>cd04669 Nudix_Hydrolase_11 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.69 E-value=3.7e-16 Score=134.47 Aligned_cols=102 Identities=22% Similarity=0.258 Sum_probs=73.6
Q ss_pred EEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEE
Q 014873 225 IMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGF 304 (417)
Q Consensus 225 ivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f 304 (417)
.+++++. +++|||+||.+...+.|++|||+||+|||+++||+||++||||+++.....++...+. ....+.|
T Consensus 4 ~~ii~~~-~~~vLL~~r~~~~~~~w~lPGG~ve~gEs~~~a~~REl~EEtGl~~~~~~~~~~~~~~-------~~~~~~f 75 (121)
T cd04669 4 SIVIIND-QGEILLIRRIKPGKTYYVFPGGGIEEGETPEEAAKREALEELGLDVRVEEIFLIVNQN-------GRTEHYF 75 (121)
T ss_pred EEEEEeC-CCEEEEEEEecCCCCcEECCceeccCCCCHHHHHHHHHHHhhCeeEeeeeEEEEEeeC-------CcEEEEE
Confidence 3445553 5899999987655689999999999999999999999999999998655555554331 1234566
Q ss_pred EEEEecccccCC---------cccccceEEEehhhHHHH
Q 014873 305 YAYAKSFEINVD---------KEELEDARWHSREDVKKA 334 (417)
Q Consensus 305 ~a~~~~~~~~~~---------~~E~~~a~Wf~~del~~~ 334 (417)
.+....+.+... +++..+++||++++++++
T Consensus 76 ~~~~~~g~~~~~~~~e~~~~~~~~~~~~~Wv~~~el~~l 114 (121)
T cd04669 76 LARVISGKLGLGVGEEFERQSDDNQYHPVWVDLDQLETI 114 (121)
T ss_pred EEEEECCeecCCCchhhcccCCCCceEEEEEEHHHcccC
Confidence 666544333221 234567899999999973
No 40
>cd03672 Dcp2p mRNA decapping enzyme 2 (Dcp2p), the catalytic subunit, and Dcp1p are the two components of the decapping enzyme complex. Decapping is a key step in both general and nonsense-mediated 5'-3' mRNA-decay pathways. Dcp2p contains an all-alpha helical N-terminal domain and a C-terminal domain which has the Nudix fold. While decapping is not dependent on the N-terminus of Dcp2p, it does affect its efficiency. Dcp1p binds the N-terminal domain of Dcp2p stimulating the decapping activity of Dcp2p. Decapping permits the degradation of the transcript and is a site of numerous control inputs. It is responsible for nonsense-mediated decay as well as AU-rich element (ARE)-mediated decay. In addition, it may also play a role in the levels of mRNA. Enzymes belonging to the Nudix superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and are recognized by a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V).
Probab=99.69 E-value=2.3e-16 Score=140.60 Aligned_cols=109 Identities=19% Similarity=0.323 Sum_probs=75.0
Q ss_pred cEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLM 301 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~ 301 (417)
|++.+++++.++++|||+|+.+ .+.|++|||++|+|||+++||+||++||||+++........+... ......+
T Consensus 2 p~~gaii~~~~~~~vLLvr~~~--~~~W~lPGG~ve~gEs~~~AA~REl~EETGl~v~~~~~~~~~~~~----~~~~~~~ 75 (145)
T cd03672 2 PVYGAIILNEDLDKVLLVKGWK--SKSWSFPKGKINKDEDDHDCAIREVYEETGFDISKYIDKDDYIEL----IIRGQNV 75 (145)
T ss_pred CeeEEEEEeCCCCEEEEEEecC--CCCEECCCccCCCCcCHHHHHHHHHHHhhCccceeccccceeeec----ccCCcEE
Confidence 5677777776557999999874 358999999999999999999999999999988653211111111 0112233
Q ss_pred EEEEEEEeccc--ccC-CcccccceEEEehhhHHHHhh
Q 014873 302 VGFYAYAKSFE--INV-DKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 302 i~f~a~~~~~~--~~~-~~~E~~~a~Wf~~del~~~L~ 336 (417)
..|++...... ... +.+|+.+++||+++++++++.
T Consensus 76 ~~f~~~~~~~~~~~~~~~~~E~~~~~Wv~~~el~~~~~ 113 (145)
T cd03672 76 KLYIVPGVPEDTPFEPKTRKEISKIEWFDIKDLPTKKN 113 (145)
T ss_pred EEEEEecCCCCcccCcCChhhhheEEEeeHHHhhhhhh
Confidence 44444322221 122 347899999999999998654
No 41
>cd04693 Nudix_Hydrolase_34 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.69 E-value=1.9e-16 Score=136.80 Aligned_cols=110 Identities=24% Similarity=0.372 Sum_probs=78.4
Q ss_pred EEEEEEEecCCCEEEEEEecC---CCCCcEEee-eeeccCCCCHHHHHHHHHHHHhCCeec--cEEEEEEeecCCCCCCC
Q 014873 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWPVGPNSM 296 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~---~~~g~WslP-gG~VE~GEtleeAa~REv~EEtGl~v~--~v~~~~s~~~~~~~~~~ 296 (417)
+|.+++++. +++|||+||+. ..+|.|++| ||++++|||+ +||+||++||||+++. .+..+..+.....
T Consensus 2 ~v~v~~~~~-~g~vLl~~R~~~~~~~pg~w~~p~GG~ve~gE~~-~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~---- 75 (127)
T cd04693 2 VVHVCIFNS-KGELLLQKRSPNKDGWPGMWDLSVGGHVQAGETS-TAAEREVKEELGLELDFSELRPLFRYFFEAE---- 75 (127)
T ss_pred eEEEEEEeC-CCeEEEEEccCCCCCCCCcccccCCCcCCCCCCH-HHHHHHHHHHhCCCcChhhcEEEEEEEeecC----
Confidence 455666664 68999999874 356899998 8999999999 9999999999999975 4444444432210
Q ss_pred CcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhhh
Q 014873 297 PCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 297 p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
....++.|++.........+.+|+.+++|++++++.+++..+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~~~ 117 (127)
T cd04693 76 GFDDYYLFYADVEIGKLILQKEEVDEVKFVSKDEIDGLIGHG 117 (127)
T ss_pred CeEEEEEEEecCcccccccCHHHhhhEEEeCHHHHHHHHhcC
Confidence 112233333333344555667899999999999999987643
No 42
>PF00293 NUDIX: NUDIX domain; InterPro: IPR000086 The generic name 'NUDIX hydrolases' (NUcleoside DIphosphate linked to some other moiety X) has been coined for this domain family []. The family can be divided into a number of subgroups, of which MutT anti- mutagenic activity represents only one type; most of the rest hydrolyse diverse nucleoside diphosphate derivatives (including ADP-ribose, GDP- mannose, TDP-glucose, NADH, UDP-sugars, dNTP and NTP).; GO: 0016787 hydrolase activity; PDB: 3FJY_A 3MGM_A 2XSQ_A 3COU_A 2O5F_A 1Q27_A 3F6A_A 3E57_B 3SON_B 2GT4_C ....
Probab=99.68 E-value=7.9e-16 Score=132.20 Aligned_cols=120 Identities=31% Similarity=0.459 Sum_probs=87.8
Q ss_pred cEEEEEEEecCCCEEEEEEecCC---CCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCc
Q 014873 222 PVVIMLVIDRENDRVLLSRQSRF---VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPC 298 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~~---~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~ 298 (417)
++|.+++++. +++|||+||.+. .++.|.+|||++++|||+++||+||+.||||+++..........+.........
T Consensus 3 ~~v~~ii~~~-~~~vLl~~r~~~~~~~~~~~~~pgG~i~~~E~~~~aa~REl~EE~g~~~~~~~~~~~~~~~~~~~~~~~ 81 (134)
T PF00293_consen 3 RAVGVIIFNE-DGKVLLIKRSRSPITFPGYWELPGGGIEPGESPEEAARRELKEETGLDVSPLELLGLFSYPSPSGDPEG 81 (134)
T ss_dssp EEEEEEEEET-TTEEEEEEESTTSSSSTTEEESSEEEECTTSHHHHHHHHHHHHHHSEEEEEEEEEEEEEEEETTTESSE
T ss_pred CEEEEEEEeC-CcEEEEEEecCCCCCCCCeEecceeeEEcCCchhhhHHhhhhhcccceecccccceeeeecccCCCccc
Confidence 4566777775 459999999974 468999999999999999999999999999999866665555544432221123
Q ss_pred EEEEEEEEEEecc--cccCCcccccceEEEehhhHHHHhhhhhHHH
Q 014873 299 QLMVGFYAYAKSF--EINVDKEELEDARWHSREDVKKALTFAEYIK 342 (417)
Q Consensus 299 ~l~i~f~a~~~~~--~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~ 342 (417)
...+.|.+..... ....+..|..+++|++++++.++........
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~W~~~~el~~~~~~~~~~~ 127 (134)
T PF00293_consen 82 EIVIFFIAELPSEQSEIQPQDEEISEVKWVPPDELLELLLNGRIRK 127 (134)
T ss_dssp EEEEEEEEEEEEEESECHTTTTTEEEEEEEEHHHHHHHHHTTHHHH
T ss_pred EEEEEEEEEEeCCccccCCCCccEEEEEEEEHHHhhhchhCcchhh
Confidence 4455555554432 3344445999999999999999877666544
No 43
>cd04666 Nudix_Hydrolase_9 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=99.68 E-value=6.3e-16 Score=133.69 Aligned_cols=104 Identities=21% Similarity=0.176 Sum_probs=75.6
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccE-EEEEEeecCCCCCCCC-cEEEEEEEEEEec
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV-VYHTSQPWPVGPNSMP-CQLMVGFYAYAKS 310 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v-~~~~s~~~~~~~~~~p-~~l~i~f~a~~~~ 310 (417)
.++|||+++.+ .+.|.+|||+||.|||+++||+||++||||+++..+ .+++...+.......+ ......|.+.+..
T Consensus 14 ~~~vLLv~~~~--~~~w~~PgG~ve~~E~~~~aa~RE~~EEtG~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~f~~~~~~ 91 (122)
T cd04666 14 EVEVLLVTSRR--TGRWIVPKGGPEKDESPAEAAAREAWEEAGVRGKIGKRPLGRFEYRKRSKNRPPRCEVAVFPLEVTE 91 (122)
T ss_pred ceEEEEEEecC--CCeEECCCCCcCCCCCHHHHHHHHHHHHhCCcccccceEEEEEEeeecCCCCCceEEEEEEEEEEec
Confidence 46899999875 389999999999999999999999999999998766 7777766553321112 2333334444443
Q ss_pred ccccCCcccccceEEEehhhHHHHhhhh
Q 014873 311 FEINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 311 ~~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
........|..+++||+++++.+++.++
T Consensus 92 ~~~~~~~~e~~~~~W~~~~ea~~~~~~~ 119 (122)
T cd04666 92 ELDEWPEMHQRKRKWFSPEEAALLVEEP 119 (122)
T ss_pred cccCCcccCceEEEEecHHHHHHhcCCh
Confidence 3222234567899999999999988764
No 44
>cd04690 Nudix_Hydrolase_31 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.67 E-value=6.2e-16 Score=131.34 Aligned_cols=105 Identities=26% Similarity=0.325 Sum_probs=77.0
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeecc--EEEEEEeecCCCCCCCCcEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE--VVYHTSQPWPVGPNSMPCQLM 301 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~--v~~~~s~~~~~~~~~~p~~l~ 301 (417)
+.+++++. ++++||+||.. .+.|.+|||++++||++++||+||++||||+++.. +.+++...............+
T Consensus 3 ~~~~v~~~-~~~vLl~~r~~--~~~w~~PgG~ve~~Es~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (118)
T cd04690 3 AAALILVR-DGRVLLVRKRG--TDVFYLPGGKIEAGETPLQALIRELSEELGLDLDPDSLEYLGTFRAPAANEPGVDVRA 79 (118)
T ss_pred EEEEEEec-CCeEEEEEECC--CCcEECCCCccCCCCCHHHHHHHHHHHHHCCccChhheEEEEEEecccccCCCcEEEE
Confidence 33445554 57999999874 57899999999999999999999999999999877 887777655422111123455
Q ss_pred EEEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 302 VGFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 302 i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
..|.+.... .+. ..+|+.+++|++++++..
T Consensus 80 ~~f~~~~~~-~~~-~~~e~~~~~W~~~~e~~~ 109 (118)
T cd04690 80 TVYVAELTG-EPV-PAAEIEEIRWVDYDDPAD 109 (118)
T ss_pred EEEEEcccC-CcC-CCchhhccEEecHHHccc
Confidence 556555443 333 347999999999999865
No 45
>cd04687 Nudix_Hydrolase_28 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.67 E-value=5.6e-16 Score=134.04 Aligned_cols=110 Identities=23% Similarity=0.194 Sum_probs=74.6
Q ss_pred EEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCC-----CCCCCC
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPV-----GPNSMP 297 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~-----~~~~~p 297 (417)
.+.++|++ +++|||+||.+...+.|.+|||+||+|||+++||+||++||||+++..........+.. ......
T Consensus 3 ~a~~iv~~--~~~vLl~~r~~~~~~~~~lPGG~ve~gEt~~~aa~RE~~EEtGl~v~~~~~~~~~~~~~~~~~~~~~~~~ 80 (128)
T cd04687 3 SAKAVIIK--NDKILLIKHHDDGGVWYILPGGGQEPGETLEDAAHRECKEEIGIDVEIGPLLFVREYIGHNPTSELPGHF 80 (128)
T ss_pred EEEEEEEE--CCEEEEEEEEcCCCCeEECCCcccCCCCCHHHHHHHHHHHHHCCccccCcEEEEEEEeccCccccCCCce
Confidence 44555555 58999999976556789999999999999999999999999999986433322211110 011112
Q ss_pred cEEEEEEEEEEecccc---c-CCcccccceEEEehhhHHHH
Q 014873 298 CQLMVGFYAYAKSFEI---N-VDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 298 ~~l~i~f~a~~~~~~~---~-~~~~E~~~a~Wf~~del~~~ 334 (417)
..+++.|.+....+.. . ..+.|..+++|+++++++++
T Consensus 81 ~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~W~~~~~l~~~ 121 (128)
T cd04687 81 HQVELMFECKIKSGTPAKTPSKPDPNQIGVEWLKLKELGDI 121 (128)
T ss_pred eEEEEEEEEEECCCCcccccCCCCCCEEeeEEEcHHHhCcc
Confidence 3456666666544332 1 12245568999999999874
No 46
>cd04667 Nudix_Hydrolase_10 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.67 E-value=5.3e-16 Score=131.22 Aligned_cols=94 Identities=31% Similarity=0.375 Sum_probs=74.2
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEEEEEeccc
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFYAYAKSFE 312 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~a~~~~~~ 312 (417)
+++|||++|.+ |.|++|||+|++||++++||.||++||||+++..+.+++.+... ...+..|.+......
T Consensus 10 ~~~vLlv~r~~---~~w~~PgG~ve~gE~~~~aa~REl~EEtGl~~~~~~~~~~~~~~-------~~~~~~f~~~~~~~~ 79 (112)
T cd04667 10 GGRVLLVRKSG---SRWALPGGKIEPGETPLQAARRELQEETGLQGLDLLYLFHVDGG-------STRHHVFVASVPPSA 79 (112)
T ss_pred CCEEEEEEcCC---CcEeCCCCcCCCCCCHHHHHHHHHHHHhCCcccceEEEEEEeCC-------CEEEEEEEEEcCCcC
Confidence 57999999874 89999999999999999999999999999998887777665321 234455666554443
Q ss_pred ccCCcccccceEEEehhhHHHHhh
Q 014873 313 INVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 313 ~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
....++|+.+++|++++++.++..
T Consensus 80 ~~~~~~e~~~~~W~~~~el~~~~~ 103 (112)
T cd04667 80 QPKPSNEIADCRWLSLDALGDLNA 103 (112)
T ss_pred CCCCchheeEEEEecHHHhhhccc
Confidence 333567899999999999998544
No 47
>cd04688 Nudix_Hydrolase_29 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.67 E-value=8.6e-16 Score=132.39 Aligned_cols=106 Identities=20% Similarity=0.213 Sum_probs=77.2
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC-CCCCCcEEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG-PNSMPCQLMV 302 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~-~~~~p~~l~i 302 (417)
|.+++++ +++|||+|+.+ .+.|.+|||+||+|||+++||.||++||||+++....+++.....+. .......+.+
T Consensus 4 v~~vi~~--~~~vLl~~~~~--~~~w~lPgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (126)
T cd04688 4 AAAIIIH--NGKLLVQKNPD--ETFYRPPGGGIEFGESSEEALIREFKEELGLKIEITRLLGVVENIFTYNGKPGHEIEF 79 (126)
T ss_pred EEEEEEE--CCEEEEEEeCC--CCeEECCCccccCCCCHHHHHHHHHHHHhCCceecceeeEEEEEeeccCCcccEEEEE
Confidence 3444555 46999999875 68999999999999999999999999999999877766655432211 1111234556
Q ss_pred EEEEEEecccccC-------CcccccceEEEehhhHHH
Q 014873 303 GFYAYAKSFEINV-------DKEELEDARWHSREDVKK 333 (417)
Q Consensus 303 ~f~a~~~~~~~~~-------~~~E~~~a~Wf~~del~~ 333 (417)
.|.+......... +++|+.+++|++++++..
T Consensus 80 ~f~~~~~~~~~~~~~~~~~~~~~e~~~~~W~~~~~l~~ 117 (126)
T cd04688 80 YYLVTLLDESLYQQDIEILEEEGEKIVFRWIPIDELKE 117 (126)
T ss_pred EEEEEeCCCcccccccceeccCCCEEEEEEeeHHHccc
Confidence 6666665544332 457899999999999885
No 48
>cd04692 Nudix_Hydrolase_33 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.66 E-value=1.1e-15 Score=135.22 Aligned_cols=114 Identities=22% Similarity=0.274 Sum_probs=83.3
Q ss_pred EEEEEEEecCC--CEEEEEEecC---CCCCcEEe-eeeeccCCCCHHHHHHHHHHHHhCCee--ccEEEEEEeecCCC-C
Q 014873 223 VVIMLVIDREN--DRVLLSRQSR---FVPRMWSC-IAGFIEPGESLEEAVRRETWEETGIEV--GEVVYHTSQPWPVG-P 293 (417)
Q Consensus 223 vVivlvi~~~~--~kVLL~rr~~---~~~g~Wsl-PgG~VE~GEtleeAa~REv~EEtGl~v--~~v~~~~s~~~~~~-~ 293 (417)
+|.++|++..+ ++|||++|.. ..+|.|.+ |||+|++|||+++||+||++||||+.+ ..+.+++.....+. .
T Consensus 4 ~v~~~v~~~~~~~~~vLl~~R~~~~~~~pg~W~~~~gG~ve~gEt~~~aa~REl~EEtGl~~~~~~l~~~~~~~~~~~~~ 83 (144)
T cd04692 4 TFHCWIITKDEGKGYVLLQKRSANKKTYPGLWDISSAGHILAGETPLEDGIRELEEELGLDVSADDLIPLGTFKIEYDHI 83 (144)
T ss_pred EEEEEEEEccCCCCEEEEEecCCCCCCCCCccccccCcccCCCCCHHHHHHHHHHHHhCCCCChHHeEEeeEEEEecccc
Confidence 56677777632 8999999984 46799998 599999999999999999999999976 35666665543332 1
Q ss_pred CC-CCcEEEEEEEEEEec--ccccCCcccccceEEEehhhHHHHhh
Q 014873 294 NS-MPCQLMVGFYAYAKS--FEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 294 ~~-~p~~l~i~f~a~~~~--~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
.. ....+...|++.... ..+..+++|+.+++|++++++.+++.
T Consensus 84 ~~~~~~~~~~~f~~~~~~~~~~~~~~~~E~~~~~W~~~~el~~~~~ 129 (144)
T cd04692 84 GKLIDREFHHVYLYELKVPLEEFTLQKEEVAGVVLIPLDEFAELLE 129 (144)
T ss_pred CCCccceEEEEEEEeccCChhhcCCChhHhheEEEECHHHHHHHHH
Confidence 11 112344556665443 34455678999999999999998765
No 49
>PRK11762 nudE adenosine nucleotide hydrolase NudE; Provisional
Probab=99.65 E-value=4.7e-15 Score=137.16 Aligned_cols=115 Identities=21% Similarity=0.204 Sum_probs=83.6
Q ss_pred EEEEEEEecCCCEEEEEEecCC--CCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSRF--VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~--~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
+|+++.++. +++|||+||.+. ....|++|||.||+||++++||+||++||||+++..+.+++......+ .....
T Consensus 49 ~v~v~~~~~-~~~vlLvrq~r~~~~~~~~elPaG~ve~gE~~~~aA~REl~EEtG~~~~~l~~l~~~~~~~~---~~~~~ 124 (185)
T PRK11762 49 AVMIVPILD-DDTLLLIREYAAGTERYELGFPKGLIDPGETPLEAANRELKEEVGFGARQLTFLKELSLAPS---YFSSK 124 (185)
T ss_pred EEEEEEEeC-CCEEEEEEeecCCCCCcEEEccceeCCCCCCHHHHHHHHHHHHHCCCCcceEEEEEEecCCC---ccCcE
Confidence 344444443 679999999864 345799999999999999999999999999999999998887643322 12345
Q ss_pred EEEEEEEEecc-cccCCcccccceEEEehhhHHHHhhhhhHH
Q 014873 301 MVGFYAYAKSF-EINVDKEELEDARWHSREDVKKALTFAEYI 341 (417)
Q Consensus 301 ~i~f~a~~~~~-~~~~~~~E~~~a~Wf~~del~~~L~~~~~~ 341 (417)
+..|++..... ....++.|..++.|++++++.+++..+.+.
T Consensus 125 ~~~f~a~~~~~~~~~~~e~E~i~~~~~~~~e~~~~~~~g~i~ 166 (185)
T PRK11762 125 MNIVLAEDLYPERLEGDEPEPLEVVRWPLADLDELLARPDFS 166 (185)
T ss_pred EEEEEEEccccccCCCCCCceeEEEEEcHHHHHHHHHcCCCC
Confidence 55566653322 223345667789999999999987755443
No 50
>PRK00714 RNA pyrophosphohydrolase; Reviewed
Probab=99.64 E-value=6.8e-15 Score=132.55 Aligned_cols=113 Identities=25% Similarity=0.351 Sum_probs=81.0
Q ss_pred CcEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEee----cCCC----
Q 014873 221 DPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQP----WPVG---- 292 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~----~~~~---- 292 (417)
.++|.++|++. +++|||+||.+ .++.|++|||++++||++++||.||++||||+++..+.+++... +.+.
T Consensus 8 ~~~v~~~i~~~-~g~vLL~~r~~-~~~~w~~P~G~~~~gE~~~~aa~REl~EEtG~~~~~~~~~~~~~~~~~y~~~~~~~ 85 (156)
T PRK00714 8 RPNVGIILLNR-QGQVFWGRRIG-QGHSWQFPQGGIDPGETPEQAMYRELYEEVGLRPEDVEILAETRDWLRYDLPKRLV 85 (156)
T ss_pred CCeEEEEEEec-CCEEEEEEEcC-CCCeEECCcccCCCCcCHHHHHHHHHHHHhCCCccceEEEEEcCCeEEecCcHHHh
Confidence 45666777775 68999999975 35899999999999999999999999999999987777666542 1111
Q ss_pred ---CCCCCcEEEEEEEEEEec--ccccC---CcccccceEEEehhhHHHHh
Q 014873 293 ---PNSMPCQLMVGFYAYAKS--FEINV---DKEELEDARWHSREDVKKAL 335 (417)
Q Consensus 293 ---~~~~p~~l~i~f~a~~~~--~~~~~---~~~E~~~a~Wf~~del~~~L 335 (417)
...+.....+.|.+.... ..+.+ +++|+.+++||+++++++++
T Consensus 86 ~~~~~~~~~~~~~~fl~~~~~~~~~~~l~~~~~~E~~~~~W~~~del~~~~ 136 (156)
T PRK00714 86 RRSKGVYRGQKQKWFLLRLTGDDSEINLNTTSHPEFDAWRWVSYWYPLDQV 136 (156)
T ss_pred hccCCcccCcEEEEEEEEecCCCccccCCCCCCCCeeeeEeCCHHHHHHhc
Confidence 001112234555555432 23333 33699999999999999865
No 51
>cd04689 Nudix_Hydrolase_30 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U=I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate sp
Probab=99.63 E-value=3.2e-15 Score=128.67 Aligned_cols=104 Identities=22% Similarity=0.254 Sum_probs=73.1
Q ss_pred EEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCC-CCCCcEEEEE
Q 014873 225 IMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGP-NSMPCQLMVG 303 (417)
Q Consensus 225 ivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~-~~~p~~l~i~ 303 (417)
.++|+. +++|||+|+.. .+.|.+|||++|+|||+++||+||++||||+++....+++.....+.. ......+++.
T Consensus 5 ~~vi~~--~~~vLlv~~~~--~~~~~lPGG~ve~gEt~~~aa~REl~EEtGl~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 80 (125)
T cd04689 5 RAIVRA--GNKVLLARVIG--QPHYFLPGGHVEPGETAENALRRELQEELGVAVSDGRFLGAIENQWHEKGVRTHEINHI 80 (125)
T ss_pred EEEEEe--CCEEEEEEecC--CCCEECCCCcCCCCCCHHHHHHHHHHHHhCceeeccEEEEEEeeeeccCCceEEEEEEE
Confidence 344444 68999999863 578999999999999999999999999999998777766554322211 1112344555
Q ss_pred EEEEEeccc---ccCCcccccceEEEehhhHH
Q 014873 304 FYAYAKSFE---INVDKEELEDARWHSREDVK 332 (417)
Q Consensus 304 f~a~~~~~~---~~~~~~E~~~a~Wf~~del~ 332 (417)
|.+...... ....++|+.+++|++++++.
T Consensus 81 f~~~~~~~~~~~~~~~~~e~~~~~W~~~~el~ 112 (125)
T cd04689 81 FAVESSWLASDGPPQADEDHLSFSWVPVSDLS 112 (125)
T ss_pred EEEEcccccccCCccCccceEEEEEccHHHcc
Confidence 555543221 22335678999999999975
No 52
>cd04694 Nudix_Hydrolase_35 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.62 E-value=7.1e-15 Score=130.74 Aligned_cols=114 Identities=24% Similarity=0.375 Sum_probs=78.3
Q ss_pred EEEEEEEecCCCEEEEEEecC---CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccE----EEEEEee--cCCC-
Q 014873 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV----VYHTSQP--WPVG- 292 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~---~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v----~~~~s~~--~~~~- 292 (417)
+|.+++++. +++|||+||.. .++|.|++|||++++||++++||+||++||+|+.+... ++++... ++..
T Consensus 3 ~v~viv~~~-~~~vLl~rr~~~~~~~~g~w~~PgG~v~~~E~~~~aa~RE~~EE~gi~~~~~~~~~~~l~~~~~~~~~~~ 81 (143)
T cd04694 3 GVAVLLQSS-DQKLLLTRRASSLRIFPNVWVPPGGHVELGENLLEAGLRELNEETGLTLDPIDKSWQVLGLWESVYPPLL 81 (143)
T ss_pred EEEEEEEcC-CCEEEEEEECCCCCCCCCeEECcccccCCCCCHHHHHHHHHHHHHCCCccccccceeEEeeecccccccc
Confidence 455555554 68999999985 46799999999999999999999999999999987643 3443321 2210
Q ss_pred CCCC--CcEEEEEEEEEEecc------cccCCcccccceEEEehhhHHHHhhh
Q 014873 293 PNSM--PCQLMVGFYAYAKSF------EINVDKEELEDARWHSREDVKKALTF 337 (417)
Q Consensus 293 ~~~~--p~~l~i~f~a~~~~~------~~~~~~~E~~~a~Wf~~del~~~L~~ 337 (417)
.... .....+.|++..... .+..+++|+.+++|++++++.+++.+
T Consensus 82 ~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~Ev~~~~Wv~~~~a~~~~~~ 134 (143)
T cd04694 82 SRGLPKRHHIVVYILVKSSETHQQLQARLQPDPNEVSAAAWLDKSLAKAVVSA 134 (143)
T ss_pred CCCcccceeEEEEEEEEeccccccccccccCChhhccceEeeCHHHHHHHHHh
Confidence 1111 123333333332211 23456689999999999999998764
No 53
>cd04699 Nudix_Hydrolase_39 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.62 E-value=4e-15 Score=127.71 Aligned_cols=108 Identities=27% Similarity=0.384 Sum_probs=74.5
Q ss_pred EEEEEEEecCCCEEEEEEecCC---CCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcE
Q 014873 223 VVIMLVIDRENDRVLLSRQSRF---VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQ 299 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~---~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~ 299 (417)
+|.++|.+ ++++|||+||... .+|+|++|||++++|||+++||+||++||||+.+.....+........ ......
T Consensus 3 ~v~~vv~~-~~~~iLl~kr~~~~~~~~g~w~~PgG~ve~gEs~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~-~~~~~~ 80 (129)
T cd04699 3 AVAALIVK-DVGRILILKRSKDERTAPGKWELPGGKVEEGETFEEALKREVYEETGLTVTPFLRYPSTVTHED-SGVYNV 80 (129)
T ss_pred eEEEEEEC-CCCcEEEEEecCCCCCCCCcCcCCccCccCCCCHHHHHHHHHHHhhCcEEEeeeeeeEEEEEcC-CCEEEE
Confidence 45555555 3589999999753 478999999999999999999999999999999876655322211111 101233
Q ss_pred EEEEEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 300 LMVGFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 300 l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
+.+.|.+..... .....+|..+++|++++++..
T Consensus 81 ~~~~~~~~~~~~-~~~~~~e~~~~~w~~~~el~~ 113 (129)
T cd04699 81 IYLVFVCEALSG-AVKLSDEHEEYAWVTLEELAI 113 (129)
T ss_pred EEEEEEeeecCC-cccCChhheEEEEecHHHhhh
Confidence 444555443332 223457888999999999965
No 54
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=99.62 E-value=3.9e-15 Score=137.26 Aligned_cols=108 Identities=24% Similarity=0.403 Sum_probs=78.0
Q ss_pred cEEEEEEEecCCCEEEEEEecC---CCCCcE-EeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCC
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMW-SCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMP 297 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~---~~~g~W-slPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p 297 (417)
+++.++|++. +++|||++|.. +.+|.| .+|||+|++|||+++||+||++||||+.+..+.+++...+... .
T Consensus 38 ~~~~v~v~~~-~g~iLL~~R~~~~~~~pg~~~~~pGG~ve~GEs~~eAA~REL~EEtGl~~~~~~~~~~~~~~~~----~ 112 (180)
T PRK15393 38 RATYIVVHDG-MGKILVQRRTETKDFLPGMLDATAGGVVQAGEQLLESARREAEEELGIAGVPFAEHGQFYFEDE----N 112 (180)
T ss_pred EEEEEEEECC-CCeEEEEEeCCCCCCCCCcccccCCCcCCCCCCHHHHHHHHHHHHHCCCCccceeceeEEecCC----C
Confidence 4555566654 68999999873 346766 5899999999999999999999999998776666655433211 1
Q ss_pred cEEE-EEEEEEEecccccCCcccccceEEEehhhHHHHh
Q 014873 298 CQLM-VGFYAYAKSFEINVDKEELEDARWHSREDVKKAL 335 (417)
Q Consensus 298 ~~l~-i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L 335 (417)
...+ ..|.+. ......++++|+.+++|++++++.+++
T Consensus 113 ~~~~~~~f~~~-~~~~~~~~~~E~~~~~W~~~~el~~~~ 150 (180)
T PRK15393 113 CRVWGALFSCV-SHGPFALQEEEVSEVCWMTPEEITARC 150 (180)
T ss_pred ceEEEEEEEEE-eCCCCCCChHHeeEEEECCHHHHhhhh
Confidence 1222 233333 345566677899999999999999864
No 55
>cd02885 IPP_Isomerase Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated proteins. These compounds are synthesized from two precursors: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). IPP isomerase catalyzes the interconversion of IPP and DMAPP by a stereoselective antarafacial transposition of hydrogen. The enzyme requires one Mn2+ or Mg2+ ion in its active site to fold into an active conformation and also contains the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as a metal binding and catalytic site. The metal binding site is present within the active site and plays structural and catalytical roles. IPP isomerase is well represented in several bacteria, archaebacteria and eukaryotes, including fungi, mamm
Probab=99.61 E-value=4.1e-15 Score=134.90 Aligned_cols=114 Identities=22% Similarity=0.367 Sum_probs=80.2
Q ss_pred cEEEEEEEecCCCEEEEEEecC---CCCCcEEee-eeeccCCCCHHHHHHHHHHHHhCCeeccEEEE-EEeecC--CCCC
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVGEVVYH-TSQPWP--VGPN 294 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~---~~~g~WslP-gG~VE~GEtleeAa~REv~EEtGl~v~~v~~~-~s~~~~--~~~~ 294 (417)
.+|.+++++. +++|||+||.. ..+|.|++| ||+||+|||+++||+||++||||+++..+.++ ....+. +...
T Consensus 31 ~~v~v~i~~~-~~~iLl~kR~~~~~~~Pg~w~~~~gG~ie~GEt~~eaa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~ 109 (165)
T cd02885 31 RAFSVFLFNS-KGRLLLQRRALSKYTFPGLWTNTCCSHPLPGEGVKDAAQRRLREELGITGDLLELVLPRFRYRAPDDGG 109 (165)
T ss_pred eEEEEEEEcC-CCcEEEEeccCCCccCCCcccccccCCCCCCCCHHHHHHHHHHHHhCCCccchhhccceEEEEEEcCCC
Confidence 4455556664 68999999974 357999986 89999999999999999999999998655543 222221 1111
Q ss_pred CCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhh
Q 014873 295 SMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTF 337 (417)
Q Consensus 295 ~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~ 337 (417)
.....+...|.+... .....+.+|+.+++|++++++.+++..
T Consensus 110 ~~~~~i~~~f~~~~~-~~~~~~~~Ev~~~~w~~~~el~~~~~~ 151 (165)
T cd02885 110 LVEHEIDHVFFARAD-VTLIPNPDEVSEYRWVSLEDLKELVAA 151 (165)
T ss_pred ceeeEEEEEEEEEeC-CCCCCCccceeEEEEECHHHHHHHHHh
Confidence 111234455555443 344456789999999999999997764
No 56
>cd04661 MRP_L46 Mitochondrial ribosomal protein L46 (MRP L46) is a component of the large subunit (39S) of the mammalian mitochondrial ribosome and a member of the Nudix hydrolase superfamily. MRPs are thought to be involved in the maintenance of the mitochondrial DNA. In general, members of the Nudix superfamily require a divalent cation, such as Mg2+ or Mn2+, for activity and contain the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. MRP L46 appears to contain a modified nudix motif.
Probab=99.61 E-value=7.1e-15 Score=128.57 Aligned_cols=102 Identities=21% Similarity=0.249 Sum_probs=72.6
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEE-----eecCC--CC--CCCCcEEEEE
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTS-----QPWPV--GP--NSMPCQLMVG 303 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s-----~~~~~--~~--~~~p~~l~i~ 303 (417)
+.++||+|+.....|.|+||||+||+|||+++||.||++||||+.+.. ..++. ..+.+ +. ........+.
T Consensus 12 ~~~~Llvk~~~~~~g~W~fPgG~ve~gEt~~eaa~REl~EEtGl~v~~-~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (132)
T cd04661 12 DTLVLLVQQKVGSQNHWILPQGKREEGETLRQTAERTLKELCGNNLKA-KFYGNAPVGFYKYKYPKAVRNEGIVGAKVFF 90 (132)
T ss_pred CcEEEEEEeecCCCCeeECCcccccCCCCHHHHHHHHHHHhhCCCceE-EEEEecCcEEEEEecCcccccccCcccEEEE
Confidence 678999998754468999999999999999999999999999997642 22211 11111 10 0111234556
Q ss_pred EEEEEecccccCCcccccceEEEehhhHHHHhh
Q 014873 304 FYAYAKSFEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 304 f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
|.+...++.+.. .+|+.+++|++++++++++.
T Consensus 91 f~~~~~~g~~~~-~~e~~~~~W~~~~el~~~l~ 122 (132)
T cd04661 91 FKARYMSGQFEL-SQNQVDFKWLAKEELQKYLN 122 (132)
T ss_pred EEEEEecCcccc-CCCcceeEecCHHHHHhhcC
Confidence 666666655543 37899999999999998765
No 57
>PRK03759 isopentenyl-diphosphate delta-isomerase; Provisional
Probab=99.61 E-value=5.3e-15 Score=136.72 Aligned_cols=116 Identities=23% Similarity=0.380 Sum_probs=82.6
Q ss_pred CcEEEEEEEecCCCEEEEEEecC---CCCCcEEee-eeeccCCCCHHHHHHHHHHHHhCCeeccEEE-EEEeecC--CCC
Q 014873 221 DPVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVGEVVY-HTSQPWP--VGP 293 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVLL~rr~~---~~~g~WslP-gG~VE~GEtleeAa~REv~EEtGl~v~~v~~-~~s~~~~--~~~ 293 (417)
..+|.+++++. +++|||+||.. ..+|.|++| ||++++|||+++||+||++||||+++..+.. ++...+. ...
T Consensus 34 h~av~v~i~~~-~g~vLL~rR~~~~~~~PG~w~~~~gG~ve~GEt~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~ 112 (184)
T PRK03759 34 HLAFSCYLFDA-DGRLLVTRRALSKKTWPGVWTNSCCGHPQPGESLEDAVIRRCREELGVEITDLELVLPDFRYRATDPN 112 (184)
T ss_pred eeEEEEEEEcC-CCeEEEEEccCCCCCCCCcccccccCCCCCCCCHHHHHHHHHHHHhCCCccccccccceEEEEEecCC
Confidence 45667777764 68999999863 346889876 8999999999999999999999999864432 2222211 111
Q ss_pred CCCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhhh
Q 014873 294 NSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 294 ~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
......++..|.+... +.+.++++|+.+++|++++++.+++..+
T Consensus 113 ~~~~~~~~~vf~~~~~-~~~~~~~~Ev~~~~W~~~~el~~~i~~~ 156 (184)
T PRK03759 113 GIVENEVCPVFAARVT-SALQPNPDEVMDYQWVDPADLLRAVDAT 156 (184)
T ss_pred CceeeEEEEEEEEEEC-CCCCCChhHeeeEEEECHHHHHHHHHhC
Confidence 1112235556666554 4566677899999999999999977644
No 58
>cd04686 Nudix_Hydrolase_27 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.60 E-value=1.5e-14 Score=126.19 Aligned_cols=106 Identities=18% Similarity=0.219 Sum_probs=70.5
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCee-ccEEEEEEee----cCCCCCCCCc
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV-GEVVYHTSQP----WPVGPNSMPC 298 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v-~~v~~~~s~~----~~~~~~~~p~ 298 (417)
|.++|++ +++|||+++.+ .+.|.+|||+||+|||+++||+||++||||+++ .....++... |........+
T Consensus 3 ~~~ii~~--~~~vLLv~~~~--~~~w~lPgG~ve~gEt~~~aa~REl~EEtGl~~~~~~~~l~~~~~~~~~~~~~~~~~~ 78 (131)
T cd04686 3 VRAIILQ--GDKILLLYTKR--YGDYKFPGGGVEKGEDHIEGLIRELQEETGATNIRVIEKFGTYTERRPWRKPDADIFH 78 (131)
T ss_pred EEEEEEE--CCEEEEEEEcC--CCcEECccccCCCCCCHHHHHHHHHHHHHCCcccccceEEEEEEeeccccCCCCceeE
Confidence 4455565 58999999875 368999999999999999999999999999986 3344444332 2111111112
Q ss_pred EEEEEEEEEEecc--cccCCcccc---cceEEEehhhHHH
Q 014873 299 QLMVGFYAYAKSF--EINVDKEEL---EDARWHSREDVKK 333 (417)
Q Consensus 299 ~l~i~f~a~~~~~--~~~~~~~E~---~~a~Wf~~del~~ 333 (417)
.+.+.|.+..... ...++..|. ..++|++++++.+
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~W~~~~ea~~ 118 (131)
T cd04686 79 MISYYYLCEVDAELGAQQLEDYEAELGMKPIWINIHEAIE 118 (131)
T ss_pred EEEEEEEEEEcCCcCCcccchhhHhcCCCcEEecHHHHHH
Confidence 3445555555432 233333333 3589999999987
No 59
>PRK10729 nudF ADP-ribose pyrophosphatase NudF; Provisional
Probab=99.60 E-value=2.4e-14 Score=134.47 Aligned_cols=126 Identities=26% Similarity=0.242 Sum_probs=91.6
Q ss_pred cCCcCcEEEEEEEecCCCEEEEEEecCCCC-------CcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeec
Q 014873 217 YPRVDPVVIMLVIDRENDRVLLSRQSRFVP-------RMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW 289 (417)
Q Consensus 217 ypr~~pvVivlvi~~~~~kVLL~rr~~~~~-------g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~ 289 (417)
+.+.+.|+ ++.+++++++|||+||.|++. -.|++|+|.+|+||++++||+||+.||||+.+..+.+++.+.-
T Consensus 46 v~~~~~V~-il~~~~~~~~vlLvrQyR~~~~~~~~~~~~lE~PAG~vd~gE~p~~aA~REL~EETGy~a~~~~~l~~~~~ 124 (202)
T PRK10729 46 FERGHAAV-LLPFDPVRDEVVLIEQIRIAAYDTSETPWLLEMVAGMIEEGESVEDVARREAIEEAGLIVGRTKPVLSYLA 124 (202)
T ss_pred EEcCCeEE-EEEEECCCCEEEEEEeeecccccCCCCCeEEEccceEcCCCCCHHHHHHHHHHHHhCceeeEEEEEEEEEc
Confidence 44445544 445555467999999998765 3689999999999999999999999999999988887765532
Q ss_pred CCCCCCCCcEEEEEEEEEEec---cc--ccCCcccccceEEEehhhHHHHhhhhhHHHHHHH
Q 014873 290 PVGPNSMPCQLMVGFYAYAKS---FE--INVDKEELEDARWHSREDVKKALTFAEYIKAQRT 346 (417)
Q Consensus 290 ~~~~~~~p~~l~i~f~a~~~~---~~--~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~ 346 (417)
..+ +....+..|++.... .. ...+++|..++.|++++++.+++..+.+.++...
T Consensus 125 spg---~~~e~~~~fla~~~~~~~~~~~~~~de~E~i~v~~~~~~e~~~~~~~G~i~d~~ti 183 (202)
T PRK10729 125 SPG---GTSERSSIMVGEVDATTASGIHGLADENEDIRVHVVSREQAYQWVEEGKIDNAASV 183 (202)
T ss_pred CCC---cCceEEEEEEEEEcchhcccCCCCCCCCCceEEEEEcHHHHHHHHHcCCCCcHHHH
Confidence 222 334556666666421 11 2335567778999999999999988877665443
No 60
>PRK10776 nucleoside triphosphate pyrophosphohydrolase; Provisional
Probab=99.59 E-value=1.8e-14 Score=123.53 Aligned_cols=101 Identities=22% Similarity=0.319 Sum_probs=71.7
Q ss_pred EEEEecCCCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEE-
Q 014873 226 MLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMV- 302 (417)
Q Consensus 226 vlvi~~~~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i- 302 (417)
++|.+ ++++|||+||.. ..+|+|++|||++++||++++|+.||++||||+++....+++...+.+.. ..+.+
T Consensus 9 ~ii~~-~~~~vll~rR~~~~~~~g~w~~PgG~~~~gE~~~~a~~Re~~EE~gl~~~~~~~~~~~~~~~~~----~~~~~~ 83 (129)
T PRK10776 9 GIIRN-PNNEIFITRRAADAHMAGKWEFPGGKIEAGETPEQALIRELQEEVGITVQHATLFEKLEYEFPD----RHITLW 83 (129)
T ss_pred EEEEC-CCCEEEEEEecCCCCCCCeEECCceecCCCCCHHHHHHHHHHHHHCCceecceEEEEEEeeCCC----cEEEEE
Confidence 33444 467999999975 34789999999999999999999999999999987666655555444421 22333
Q ss_pred EEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 303 GFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 303 ~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
.|.+...... ....|..+++|+++++++.
T Consensus 84 ~~~~~~~~~~--~~~~e~~~~~W~~~~~l~~ 112 (129)
T PRK10776 84 FWLVESWEGE--PWGKEGQPGRWVSQVALNA 112 (129)
T ss_pred EEEEEEECCc--cCCccCCccEEecHHHCcc
Confidence 3333322222 2345778899999999987
No 61
>PRK10546 pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase; Provisional
Probab=99.59 E-value=1.7e-14 Score=125.54 Aligned_cols=105 Identities=24% Similarity=0.294 Sum_probs=73.7
Q ss_pred CCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEEEEEec
Q 014873 233 NDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFYAYAKS 310 (417)
Q Consensus 233 ~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~a~~~~ 310 (417)
+++|||+||.+ ...|+|++|||++|+|||+++|+.||++||||+++....+++...+.+.. ....+..|.+....
T Consensus 14 ~~~vLL~~R~~~~~~~g~w~~PgG~ve~gE~~~~a~~RE~~EE~Gl~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 90 (135)
T PRK10546 14 DGKILLAQRPAHSDQAGLWEFAGGKVEPGESQPQALIRELREELGIEATVGEYVASHQREVSG---RRIHLHAWHVPDFH 90 (135)
T ss_pred CCEEEEEEccCCCCCCCcEECCcccCCCCCCHHHHHHHHHHHHHCCccccceeEEEEEEecCC---cEEEEEEEEEEEec
Confidence 68999999864 35689999999999999999999999999999998766666555554321 11223344443332
Q ss_pred ccccCCcccccceEEEehhhHHHHhhhhhHHH
Q 014873 311 FEINVDKEELEDARWHSREDVKKALTFAEYIK 342 (417)
Q Consensus 311 ~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~ 342 (417)
++. ...|..+++|++++++.++.......+
T Consensus 91 ~~~--~~~e~~~~~W~~~~el~~~~~~~~~~~ 120 (135)
T PRK10546 91 GEL--QAHEHQALVWCTPEEALRYPLAPADIP 120 (135)
T ss_pred Ccc--cccccceeEEcCHHHcccCCCCcCcHH
Confidence 222 235678899999999998533333333
No 62
>TIGR00052 nudix-type nucleoside diphosphatase, YffH/AdpP family.
Probab=99.59 E-value=1.7e-14 Score=133.71 Aligned_cols=118 Identities=25% Similarity=0.216 Sum_probs=87.6
Q ss_pred EEEEEEEecCCCEEEEEEecCCC-------CCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCC
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFV-------PRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNS 295 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~-------~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~ 295 (417)
+|.+++++.++++|||+|+.|++ +..|.+|||++|+||++++||+||++||||+.+..+.+++......+
T Consensus 46 ~v~vl~~~~~~~~vlLvrq~R~~~~~~~~~~~~lelPaG~ve~gE~~~~aA~REl~EEtG~~~~~~~~~~~~~~~~g--- 122 (185)
T TIGR00052 46 AAAVLLYDPKKDTVVLIEQFRIAAYVNGEEPWLLELSAGMVEKGESPEDVARREAIEEAGYQVKNLRKLLSFYSSPG--- 122 (185)
T ss_pred eEEEEEEECCCCEEEEEECceeeeeecCCcceEEEECcEecCCCCCHHHHHHHHccccccceecceEEEEEEEcCCC---
Confidence 44555565556899999998742 45789999999999999999999999999999998888776643322
Q ss_pred CCcEEEEEEEEEEeccc----ccCCcccccceEEEehhhHHHHhhhhhHHHH
Q 014873 296 MPCQLMVGFYAYAKSFE----INVDKEELEDARWHSREDVKKALTFAEYIKA 343 (417)
Q Consensus 296 ~p~~l~i~f~a~~~~~~----~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a 343 (417)
.....+..|++...... ...+++|..+..|++++++.+++..+.+.++
T Consensus 123 ~~~~~~~~f~a~~~~~~~~~~~~~~~~E~ie~~~~~~~e~~~~~~~G~i~d~ 174 (185)
T TIGR00052 123 GVTELIHLFIAEVDDNQAAGIGGGADEEEIEVLHLVFSQALQWIKEGKIDNG 174 (185)
T ss_pred CCcEEEEEEEEEEchhhcCCCCCCCCccceEEEEeCHHHHHHHHHcCCCCCH
Confidence 23456667777654321 1223456667999999999999887766544
No 63
>PRK10707 putative NUDIX hydrolase; Provisional
Probab=99.58 E-value=1e-14 Score=135.70 Aligned_cols=113 Identities=17% Similarity=0.167 Sum_probs=80.6
Q ss_pred CcEEEEEEEecCCCEEEEEEecC---CCCCcEEeeeeeccCC-CCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCC
Q 014873 221 DPVVIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPG-ESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSM 296 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVLL~rr~~---~~~g~WslPgG~VE~G-EtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~ 296 (417)
..+|++.++..++++|||.||.. .+.|.|+||||++|+| |++++||+||++||||+.+..+.++++....+....+
T Consensus 31 ~aavvl~l~~~~~~~vLl~~R~~~~r~~~G~~~~PGG~~e~~de~~~~tA~REl~EEtGl~~~~~~~lg~l~~~~~~~~~ 110 (190)
T PRK10707 31 QAAVLIPIVRRPQPTLLLTQRSIHLRKHAGQVAFPGGAVDPTDASLIATALREAQEEVAIPPSAVEVIGVLPPVDSSTGY 110 (190)
T ss_pred CeEEEEEEEECCCCEEEEEEeCCcccCCCCcEEcCCcccCCCcccHHHHHHHHHHHHHCCCccceEEEEEeeeeeccCCc
Confidence 44555555544456999999763 4678999999999985 6899999999999999999999988887532222222
Q ss_pred CcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHh
Q 014873 297 PCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKAL 335 (417)
Q Consensus 297 p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L 335 (417)
....++++. ........+++|..++.|++++++.++.
T Consensus 111 ~~~~~v~~~--~~~~~~~~d~~Ev~~v~~vpl~e~~~~~ 147 (190)
T PRK10707 111 QVTPVVGII--PPDLPYRANEDEVAAVFEMPLAEALHLG 147 (190)
T ss_pred EEEEEEEEE--CCCCCCCCChhhhheEEEEeHHHHhCcc
Confidence 222222222 1223455677899999999999998854
No 64
>PRK05379 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional
Probab=99.58 E-value=3e-14 Score=143.76 Aligned_cols=123 Identities=25% Similarity=0.335 Sum_probs=83.5
Q ss_pred cccCCcCcEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEE----eec
Q 014873 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTS----QPW 289 (417)
Q Consensus 215 ~~ypr~~pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s----~~~ 289 (417)
.-||.+...|.++|+. +++|||+||.. +.+|.|.+|||+||+|||+++||+||++||||+++....+.+. +.+
T Consensus 197 ~~~~~~~vtv~avv~~--~g~VLLvrR~~~p~~g~W~lPGG~ve~gEt~~~Aa~REl~EETGl~v~~~~l~~~~~~~~~f 274 (340)
T PRK05379 197 APYPPTFVTVDAVVVQ--SGHVLLVRRRAEPGKGLWALPGGFLEQDETLLDACLRELREETGLKLPEPVLRGSIRDQQVF 274 (340)
T ss_pred cCCCCcceEEEEEEEE--CCEEEEEEecCCCCCCeEECCcccCCCCCCHHHHHHHHHHHHHCCcccccccceeeeeeEEE
Confidence 3466655455455554 57999999985 4578999999999999999999999999999998754332221 111
Q ss_pred CCCCCCC--CcEEEEEEEEEEeccc-c-cCCcccccceEEEehhhHHHH---hhhhhH
Q 014873 290 PVGPNSM--PCQLMVGFYAYAKSFE-I-NVDKEELEDARWHSREDVKKA---LTFAEY 340 (417)
Q Consensus 290 ~~~~~~~--p~~l~i~f~a~~~~~~-~-~~~~~E~~~a~Wf~~del~~~---L~~~~~ 340 (417)
. .+.+. .+.+++.|++....+. . ....+|..+++||+++++..+ +.++|.
T Consensus 275 ~-~p~r~~~~~~i~~~f~~~~~~~~~~~~~~~de~~~~~W~~~~el~~~~~~~~~dh~ 331 (340)
T PRK05379 275 D-HPGRSLRGRTITHAFLFEFPAGELPRVKGGDDADKARWVPLAELLAMRDRMFEDHF 331 (340)
T ss_pred c-CCCCCCCCcEEEEEEEEEecCCccCccCCCCceeeEEEEEHHHhhhhhhhhhhHHH
Confidence 1 12211 2356677777655332 1 123578899999999999873 444444
No 65
>TIGR02150 IPP_isom_1 isopentenyl-diphosphate delta-isomerase, type 1. This model represents type 1 of two non-homologous families of the enzyme isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP is an essential building block for many compounds, including enzyme cofactors, sterols, and prenyl groups. This inzyme interconverts isopentenyl diphosphate and dimethylallyl diphosphate.
Probab=99.57 E-value=1.9e-14 Score=129.81 Aligned_cols=110 Identities=26% Similarity=0.395 Sum_probs=76.8
Q ss_pred cEEEEEEEecCCCEEEEEEecC---CCCCcEEee-eeeccCCCCHHHHHHHHHHHHhCCeeccEE--EEEEeecCCC-CC
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVGEVV--YHTSQPWPVG-PN 294 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~---~~~g~WslP-gG~VE~GEtleeAa~REv~EEtGl~v~~v~--~~~s~~~~~~-~~ 294 (417)
.+|.++|++. +++|||+||+. ..+|+|++| ||+++.|| .+||+||++|||||++..+. .+....+... ..
T Consensus 28 ~~v~v~v~~~-~g~vLl~kR~~~k~~~PG~W~~~~gG~v~~GE--~eaa~REl~EE~Gl~~~~~~l~~~~~~~~~~~~~~ 104 (158)
T TIGR02150 28 RAFSVFLFNE-EGQLLLQRRALSKITWPGVWTNSCCSHPLPGE--LEAAIRRLREELGIPADDVPLTVLPRFSYRARDAW 104 (158)
T ss_pred EEEEEEEEcC-CCeEEEEeccCCCcCCCCCccccccCCCCccc--HHHHHHHHHHHHCCCccccceEEcceEEEEEecCC
Confidence 3455666664 68999999984 468999987 89999999 49999999999999886543 2222221111 11
Q ss_pred CCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhh
Q 014873 295 SMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 295 ~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
. ...+...|.+.... .+.++.+|+.+++|++++++.+++.
T Consensus 105 g-~~~~~~~f~~~~~~-~~~~~~~Ev~~~~W~~~~el~~~~~ 144 (158)
T TIGR02150 105 G-EHELCPVFFARAPV-PLNPNPEEVAEYRWVSLEELKEILK 144 (158)
T ss_pred C-cEEEEEEEEEecCC-cccCChhHeeeEEEeCHHHHHHHHh
Confidence 1 12344555555433 4566667999999999999999765
No 66
>cd03425 MutT_pyrophosphohydrolase The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic pyrophosphate (PPi). This enzyme requires two divalent cations for activity; one coordinates the phosphoryl groups of the NTP/dNTP substrate, and the other coordinates to the enzyme. It also contains the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as metal binding and catalytic site. MutT pyrophosphohydrolase is important in preventing errors in DNA replication by hydrolyzing mutagenic nucleotides such as 8-oxo-dGTP (a product of oxidative damage), which can mispair with template adenine during DNA replication, to guanine nucleotides.
Probab=99.56 E-value=5.1e-14 Score=119.13 Aligned_cols=105 Identities=28% Similarity=0.387 Sum_probs=78.6
Q ss_pred EEEEEEEecCCCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE
Q 014873 223 VVIMLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL 300 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l 300 (417)
++++++++ +++++||++|.+ ..+|+|++|||+++.+|++++||.||+.||||+.+....+++...+.+.. ....
T Consensus 3 ~~~~~i~~-~~~~~Ll~~r~~~~~~~g~w~~p~G~~~~~e~~~~~a~Re~~EE~g~~~~~~~~~~~~~~~~~~---~~~~ 78 (124)
T cd03425 3 VVAAIIID-DDGRILIAQRPAGKHLGGLWEFPGGKVEPGETPEQALVRELREELGIEVEVGELLATVEHDYPD---KRVT 78 (124)
T ss_pred EEEEEEEC-CCCEEEEEEeCCCCCCCCeEeCCCcccCCCCCHHHHHHHHHHHhhCcEEeccceEEEEEeeCCC---CeEE
Confidence 34445555 358999999875 35889999999999999999999999999999998777777766655421 2344
Q ss_pred EEEEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 301 MVGFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 301 ~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
+..|.+....... ...|..+++|++++++.+
T Consensus 79 ~~~~~~~~~~~~~--~~~e~~~~~W~~~~el~~ 109 (124)
T cd03425 79 LHVFLVELWSGEP--QLLEHQELRWVPPEELDD 109 (124)
T ss_pred EEEEEEeeeCCCc--ccccCceEEEeeHHHccc
Confidence 5555555443332 246788999999999987
No 67
>cd04674 Nudix_Hydrolase_16 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.55 E-value=7e-14 Score=120.51 Aligned_cols=100 Identities=25% Similarity=0.320 Sum_probs=66.3
Q ss_pred CcEEEEEEEecCCCEEEEEEecC-CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeec--cEEEEEEeecCCCCCCCC
Q 014873 221 DPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWPVGPNSMP 297 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVLL~rr~~-~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~--~v~~~~s~~~~~~~~~~p 297 (417)
-+++++++... + ++||++|.. ...|.|.+|||+||+|||+++||+||++||||+++. .+.++..+.++ ..
T Consensus 4 ~~~av~vl~~~-~-~~lL~~r~~~~~~~~w~lPgG~ve~~E~~~~aa~REl~EE~g~~~~~~~l~~~~~~~~~-----~~ 76 (118)
T cd04674 4 LPVVVALLPVD-D-GLLVIRRGIEPGRGKLALPGGFIELGETWQDAVARELLEETGVAVDPADIRLFDVRSAP-----DG 76 (118)
T ss_pred cEEEEEEEEEC-C-CEEEEEeecCCCCCeEECCceecCCCCCHHHHHHHHHHHHHCCcccccEEEEEEEEecC-----CC
Confidence 34555555553 3 466666654 456899999999999999999999999999999875 34445555443 23
Q ss_pred cEEEEEEEEEEecccccCC--cccccceEEEe
Q 014873 298 CQLMVGFYAYAKSFEINVD--KEELEDARWHS 327 (417)
Q Consensus 298 ~~l~i~f~a~~~~~~~~~~--~~E~~~a~Wf~ 327 (417)
..++++|.+.......... ..|..++.|+.
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~~~ 108 (118)
T cd04674 77 TLLVFGLLPERRAADLPPFEPTDETTERAVVT 108 (118)
T ss_pred eEEEEEEEeccccccCCCCCCCcceeeEEEcc
Confidence 4567777766555444332 34555544443
No 68
>cd03676 Nudix_hydrolase_3 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate spe
Probab=99.53 E-value=5.8e-14 Score=129.08 Aligned_cols=114 Identities=21% Similarity=0.175 Sum_probs=79.3
Q ss_pred EEEEecC-CCEEEEEEecC---CCCCcEE-eeeeeccCCCCHHHHHHHHHHHHhCCeecc---EEEEEEeecCC--CCCC
Q 014873 226 MLVIDRE-NDRVLLSRQSR---FVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEVGE---VVYHTSQPWPV--GPNS 295 (417)
Q Consensus 226 vlvi~~~-~~kVLL~rr~~---~~~g~Ws-lPgG~VE~GEtleeAa~REv~EEtGl~v~~---v~~~~s~~~~~--~~~~ 295 (417)
+++.+.+ +++|+++||+. .++|+|+ +|||+++.|||+++||+||++||||+++.. +.+++...+.+ ....
T Consensus 39 ~~~~~~~~~~~l~lqrRs~~K~~~Pg~wd~~~~G~v~~gE~~~~aA~REl~EE~Gl~~~~~~~l~~~g~~~~~~~~~~~~ 118 (180)
T cd03676 39 GYVRDEDGGLRIWIPRRSPTKATWPGMLDNLVAGGLGHGEGPEETLVKECDEEAGLPEDLVRQLKPVGVVSYLREGEAGG 118 (180)
T ss_pred EEEEcCCCCeEEEEEeccCCCCCCCCceeeecccCCCCCCCHHHHHHHHHHHHhCCCHHHHhhceeccEEEEEEEcCCCc
Confidence 3444442 38999999984 4789995 999999999999999999999999998764 33443322221 1111
Q ss_pred CCcEEEEEEEEEEecc-cccCCcccccceEEEehhhHHHHhhhhh
Q 014873 296 MPCQLMVGFYAYAKSF-EINVDKEELEDARWHSREDVKKALTFAE 339 (417)
Q Consensus 296 ~p~~l~i~f~a~~~~~-~~~~~~~E~~~a~Wf~~del~~~L~~~~ 339 (417)
....+...|.+..... .+..+++|+.++.|++++|+.+++..+.
T Consensus 119 ~~~e~~~~f~~~~~~~~~~~~~~~Ev~~~~~~~~~el~~~l~~g~ 163 (180)
T cd03676 119 LQPEVEYVYDLELPPDFIPAPQDGEVESFRLLTIDEVLRALKEGE 163 (180)
T ss_pred EeeeEEEEEEEEcCCCCeeCCCCCcEeEEEEECHHHHHHHHHcCC
Confidence 2223444454443222 3455678999999999999999876543
No 69
>cd02883 Nudix_Hydrolase Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ for their activity. Members of this family are recognized by a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which forms a structural motif that functions as a metal binding and catalytic site. Substrates of nudix hydrolase include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance and "house-cleaning" enzy
Probab=99.50 E-value=2.5e-13 Score=113.70 Aligned_cols=108 Identities=28% Similarity=0.400 Sum_probs=76.4
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVG 303 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~ 303 (417)
+.+++++. +++|||++|.+.+.|+|.+|||+++.||++.++|+||++||+|+.+....+.......... ......+..
T Consensus 3 ~~~i~~~~-~~~ill~kr~~~~~~~~~~p~G~~~~~e~~~~~a~RE~~EE~Gl~~~~~~~~~~~~~~~~~-~~~~~~~~~ 80 (123)
T cd02883 3 VGAVILDE-DGRVLLVRRADSPGGLWELPGGGVEPGETLEEAAIREVREETGLDVDVLRLLGVYEVESPD-EGEHAVVFV 80 (123)
T ss_pred eEEEEECC-CCCEEEEEEcCCCCCeEeCCcccccCCCCHHHHHHHHHHHhhCccceeeeEEEEEEeeccC-CCceEEEEE
Confidence 44555553 4899999988556799999999999999999999999999999987543333333222111 112355666
Q ss_pred EEEEEeccccc-CCcccccceEEEehhhHHH
Q 014873 304 FYAYAKSFEIN-VDKEELEDARWHSREDVKK 333 (417)
Q Consensus 304 f~a~~~~~~~~-~~~~E~~~a~Wf~~del~~ 333 (417)
|.+........ .+..|..+.+|++++++.+
T Consensus 81 ~~~~~~~~~~~~~~~~e~~~~~w~~~~~l~~ 111 (123)
T cd02883 81 FLARLVGGEPTLLPPDEISEVRWVTLDELPA 111 (123)
T ss_pred EEEEeCCCCcCCCCCCccceEEEEcHHHCcc
Confidence 66665543332 3457888999999999886
No 70
>cd04665 Nudix_Hydrolase_8 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=99.50 E-value=3.5e-13 Score=116.13 Aligned_cols=99 Identities=28% Similarity=0.419 Sum_probs=75.9
Q ss_pred EEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEE
Q 014873 225 IMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGF 304 (417)
Q Consensus 225 ivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f 304 (417)
++++++ ++++||+++. .+.|.+|||++|+||++++||+||++||||+.+..+.+++.+...... .......|
T Consensus 4 ~vi~~~--~~~vLl~~~~---~~~w~lPgG~ve~gE~~~~aa~REl~EE~G~~~~~~~~l~~~~~~~~~---~~~~~~~y 75 (118)
T cd04665 4 LVICFY--DDGLLLVRHK---DRGWEFPGGHVEPGETIEEAARREVWEETGAELGSLTLVGYYQVDLFE---SGFETLVY 75 (118)
T ss_pred EEEEEE--CCEEEEEEeC---CCEEECCccccCCCCCHHHHHHHHHHHHHCCccCceEEEEEEEecCCC---CcEEEEEE
Confidence 344444 5899999986 468999999999999999999999999999999988888877544321 23455667
Q ss_pred EEEEecccccCCcccccceEEEehhhH
Q 014873 305 YAYAKSFEINVDKEELEDARWHSREDV 331 (417)
Q Consensus 305 ~a~~~~~~~~~~~~E~~~a~Wf~~del 331 (417)
++............|+....||+.+..
T Consensus 76 ~a~~~~~~~~~~~~E~~~~~~~~~~~~ 102 (118)
T cd04665 76 PAVSAQLEEKASYLETDGPVLFKNEPE 102 (118)
T ss_pred EEEEEecccccccccccCcEEeccCCc
Confidence 777665444334589999999986544
No 71
>TIGR00586 mutt mutator mutT protein. All proteins in this family for which functions are known are involved in repairing oxidative damage to dGTP (they are 8-oxo-dGTPases). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.49 E-value=4.4e-13 Score=115.11 Aligned_cols=106 Identities=20% Similarity=0.162 Sum_probs=72.5
Q ss_pred EEEEecCCCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEE
Q 014873 226 MLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVG 303 (417)
Q Consensus 226 vlvi~~~~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~ 303 (417)
+++++ ++++|||.||.. ...|+|++|||.++.|||+++|++||+.||||+++....+++...+.++. ....+..
T Consensus 9 ~ii~~-~~~~vLl~~R~~~~~~~g~w~~Pgg~ve~ge~~~~~~~RE~~EE~g~~~~~~~~~~~~~h~~~~---~~~~~~~ 84 (128)
T TIGR00586 9 GIIRN-ENGEIIITRRADGHMFAKLLEFPGGKEEGGETPEQAVVRELEEEIGIPQHFSEFEKLEYEFYPR---HITLWFW 84 (128)
T ss_pred EEEEC-CCCEEEEEEEeCCCCCCCeEECCCcccCCCCCHHHHHHHHHHHHHCCcceeeeEEEEEEEECCC---cEEEEEE
Confidence 33434 367999999974 45789999999999999999999999999999987655555544443321 1223333
Q ss_pred EEEEEecccccCCcccccceEEEehhhHHHHhhhh
Q 014873 304 FYAYAKSFEINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 304 f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
|.+....... ...+..+++|++++++.+ +.++
T Consensus 85 ~~~~~~~~~~--~~~~~~~~~W~~~~~l~~-~~~p 116 (128)
T TIGR00586 85 LLERWEGGPP--GKEGQPEEWWVLVGLLAD-DFFP 116 (128)
T ss_pred EEEEEcCCCc--CcccccccEEeCHHHCCc-cCCC
Confidence 3333332222 234567889999999998 4444
No 72
>PRK15009 GDP-mannose pyrophosphatase NudK; Provisional
Probab=99.48 E-value=6e-13 Score=123.95 Aligned_cols=118 Identities=22% Similarity=0.180 Sum_probs=87.0
Q ss_pred EEEEEEEecCCCEEEEEEecCCCC------C--cEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCC
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFVP------R--MWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPN 294 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~~------g--~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~ 294 (417)
+|++++++.++++|+|+||.|++. + .|++|||.+|+| ++++||+||+.||||+.+..+.++++..-..+
T Consensus 47 ~v~Vl~~~~~~~~vvLvrQyR~~v~~~~~~~~~~lElPAG~vd~~-~p~~aA~REL~EETGy~a~~~~~l~~~~~spG-- 123 (191)
T PRK15009 47 GATILLYNAKKKTVVLIRQFRVATWVNGNESGQLIETCAGLLDND-EPEVCIRKEAIEETGYEVGEVRKLFELYMSPG-- 123 (191)
T ss_pred EEEEEEEECCCCEEEEEEcccccccccCCCCceEEEEeccccCCC-CHHHHHHHHHHHhhCCccceEEEeeEEEcCCc--
Confidence 444555665578999999998653 3 688999999976 69999999999999999999988876532222
Q ss_pred CCCcEEEEEEEEEEec----ccccCCcccccceEEEehhhHHHHhhhhhHHHHH
Q 014873 295 SMPCQLMVGFYAYAKS----FEINVDKEELEDARWHSREDVKKALTFAEYIKAQ 344 (417)
Q Consensus 295 ~~p~~l~i~f~a~~~~----~~~~~~~~E~~~a~Wf~~del~~~L~~~~~~~a~ 344 (417)
+....+..|++.... .....+++|..++.|++++++.+++..+.+.++.
T Consensus 124 -~s~e~~~lf~a~~~~~~~~~~~~~de~E~iev~~~~~~e~~~~i~~G~i~da~ 176 (191)
T PRK15009 124 -GVTELIHFFIAEYSDSQRANAGGGVEDEDIEVLELPFSQALEMIKTGEIRDGK 176 (191)
T ss_pred -ccCcEEEEEEEEECchhcccCCCCCCCceEEEEEEcHHHHHHHHHcCCCCcHH
Confidence 334566667776431 1122346777889999999999998877766553
No 73
>cd04685 Nudix_Hydrolase_26 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=99.47 E-value=2.9e-13 Score=118.90 Aligned_cols=108 Identities=31% Similarity=0.330 Sum_probs=71.0
Q ss_pred EEEEEEecCCCEEEEEEecCC---CCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCee-ccEEEEEEee--cCCCCCCCC
Q 014873 224 VIMLVIDRENDRVLLSRQSRF---VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV-GEVVYHTSQP--WPVGPNSMP 297 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~---~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v-~~v~~~~s~~--~~~~~~~~p 297 (417)
+-+++++. +++|||+|+.+. ..+.|.+|||+|+.||++++|+.||++||||+.+ .....+.... +.+... ..
T Consensus 3 ~~~~i~~~-~g~vLl~r~~~~~~~~~~~w~~PgG~ve~gE~~~~a~~Re~~EE~G~~~~~~~~~~~~~~~~f~~~~~-~~ 80 (133)
T cd04685 3 ARVVLLDP-DDRVLLLRGDDPDSPGPDWWFTPGGGVEPGESPEQAARRELREETGITVADLGPPVWRRDAAFTFLGV-DG 80 (133)
T ss_pred EEEEEEcC-CCeEEEEEEeCCCCCCCCEEECCcCCCCCCCCHHHHHHHHHHHHHCCccccccceEEEEEEEEEecCc-cc
Confidence 34555554 689999998753 5679999999999999999999999999999987 3222222221 111111 12
Q ss_pred cEEEEEEEEEEecccccC---C---cccccceEEEehhhHHH
Q 014873 298 CQLMVGFYAYAKSFEINV---D---KEELEDARWHSREDVKK 333 (417)
Q Consensus 298 ~~l~i~f~a~~~~~~~~~---~---~~E~~~a~Wf~~del~~ 333 (417)
+...+.|.+.....++.. . ..++.+++|++++++.+
T Consensus 81 ~~~~~~f~~~~~~~~~~~~~~~~~E~~~~~~~~W~~~~el~~ 122 (133)
T cd04685 81 RQEERFFLARTPRTEPSPAGWTALERRSILGWRWWTRAELAA 122 (133)
T ss_pred eeeEEEEEEEcCCccccCCCCChhhhhhcccccCCCHHHHhh
Confidence 244555555544322111 1 13456899999999987
No 74
>cd04662 Nudix_Hydrolase_5 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=99.44 E-value=1.2e-12 Score=113.82 Aligned_cols=105 Identities=21% Similarity=0.134 Sum_probs=64.8
Q ss_pred EEEEEEecCCCEEEEEEecC-----CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeec-cEEEEEEeecCCC-----
Q 014873 224 VIMLVIDRENDRVLLSRQSR-----FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG-EVVYHTSQPWPVG----- 292 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~-----~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~-~v~~~~s~~~~~~----- 292 (417)
++.+-.+.+..+|||++|.. ...+.|++|||+++.||++++||+||++||||+.+. .+..+.....+.+
T Consensus 5 ~v~~~~~~~~~~vlL~~~~~~~~~~~~~~~W~lPgG~ie~~E~~~~aA~REl~EEtGl~~~~~~~~l~~~~~~~~~~v~~ 84 (126)
T cd04662 5 ILLYRFRDGRIEVLLVHPGGPFWANKDLGAWSIPKGEYTEGEDPLLAAKREFSEETGFCVDGPFIDLGSLKQSGGKVVHA 84 (126)
T ss_pred EEEEEEcCCcEEEEEEEccCccccCCCCCEEECCcccCCCCcCHHHHHHHHHHHHhCCcceeeEEeEEEEECCCCeEEEE
Confidence 34444444445799998732 346899999999999999999999999999999864 2222222211111
Q ss_pred ----CCC-CCcEEEEEEEEEEecccccCC-cccccceEEEeh
Q 014873 293 ----PNS-MPCQLMVGFYAYAKSFEINVD-KEELEDARWHSR 328 (417)
Q Consensus 293 ----~~~-~p~~l~i~f~a~~~~~~~~~~-~~E~~~a~Wf~~ 328 (417)
.+. ......+.|.+....+..... .+|..+++||++
T Consensus 85 fl~~~~~d~~~~~~~~f~~~~~~~~~~~~~~~e~~~~~w~~~ 126 (126)
T cd04662 85 WAVEADLDITDIKSNTFEMEWPKGSGKMRKFPEVDRAGWFDI 126 (126)
T ss_pred EEEEecCChhHeEEEEEEEEccCCCCccccCCccceeEeecC
Confidence 000 011233344444333334443 489999999974
No 75
>TIGR02705 nudix_YtkD nucleoside triphosphatase YtkD. The functional assignment to the proteins of this family is contentious. Reference challenges the findings of reference, both in interpretation and in enzyme assay results. This protein belongs to the nudix family and shares some sequence identity with E. coli MutT but appears not to be functionally interchangeable with it.
Probab=99.44 E-value=2.6e-12 Score=115.82 Aligned_cols=98 Identities=26% Similarity=0.279 Sum_probs=75.4
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEEEEEeccc
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFYAYAKSFE 312 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~a~~~~~~ 312 (417)
++++||+++.+ ..|.+|||++|+|||+++||+||++||||+.+..+.+++.+....+ .....+..|++......
T Consensus 34 ~~~~LL~~~~~---~~~elPgG~vE~gEt~~eaA~REl~EETG~~~~~~~~lg~~~~~~~---~~~~~~~vf~A~~~~~~ 107 (156)
T TIGR02705 34 KDQWLLTEHKR---RGLEFPGGKVEPGETSKEAAIREVMEETGAIVKELHYIGQYEVEGE---STDFVKDVYFAEVSALE 107 (156)
T ss_pred CCEEEEEEEcC---CcEECCceecCCCCCHHHHHHHHHHHHhCcEeeeeEEEEEEEecCC---CcEEEEEEEEEEEeccc
Confidence 46899998874 4699999999999999999999999999999999998887643322 24567778888766333
Q ss_pred ccCCccc-ccceEEEehhhHHHHhhhhh
Q 014873 313 INVDKEE-LEDARWHSREDVKKALTFAE 339 (417)
Q Consensus 313 ~~~~~~E-~~~a~Wf~~del~~~L~~~~ 339 (417)
.. +| .+-..+++++++++++..+.
T Consensus 108 --~~-~e~~E~~~~~~~~~~~~~~~~g~ 132 (156)
T TIGR02705 108 --SK-DDYLETKGPVLLQEIPDIIKADP 132 (156)
T ss_pred --cC-CCceeeEeEEEHHHHHHHHhcCC
Confidence 22 44 44444899999999876654
No 76
>PLN02709 nudix hydrolase
Probab=99.40 E-value=1.5e-12 Score=123.25 Aligned_cols=109 Identities=17% Similarity=0.135 Sum_probs=78.6
Q ss_pred cEEEEEEEec-----CCCEEEEEEecC---CCCCcEEeeeeeccCCC-CHHHHHHHHHHHHhCCeeccEEEEEEeecCCC
Q 014873 222 PVVIMLVIDR-----ENDRVLLSRQSR---FVPRMWSCIAGFIEPGE-SLEEAVRRETWEETGIEVGEVVYHTSQPWPVG 292 (417)
Q Consensus 222 pvVivlvi~~-----~~~kVLL~rr~~---~~~g~WslPgG~VE~GE-tleeAa~REv~EEtGl~v~~v~~~~s~~~~~~ 292 (417)
.+|++.++.. ++.+|||++|.. ..+|.|+||||++|+|| ++.+||+||++||+||....+..++..+-...
T Consensus 34 AAVLv~l~~~~~~~~~~~~vLl~~Rs~~l~~h~GqiafPGG~~e~~D~~~~~tAlRE~~EEiGl~~~~v~vlg~L~~~~t 113 (222)
T PLN02709 34 SAVLVCLYQEQREDKNELRVILTKRSSTLSSHPGEVALPGGKRDEEDKDDIATALREAREEIGLDPSLVTIISVLEPFVN 113 (222)
T ss_pred cEEEEEEeeccCCCCCceEEEEEEcCCCCCCCCCCccCCCcccCCCCCCHHHHHHHHHHHHHCCCchheEEeeecCCeEC
Confidence 3455555542 245899999985 47899999999999975 79999999999999999988888776543322
Q ss_pred CCCCCcEEEEEEEEEEe---cccccCCcccccceEEEehhhHHH
Q 014873 293 PNSMPCQLMVGFYAYAK---SFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 293 ~~~~p~~l~i~f~a~~~---~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
... ....-|.+.+. .....++++|++++.|++++++.+
T Consensus 114 ~sg---~~V~P~V~~~~~~~~~~~~~np~EV~~vf~vPL~~ll~ 154 (222)
T PLN02709 114 KKG---MSVAPVIGFLHDKKAFKPLPNPAEVEEIFDVPLEMFLK 154 (222)
T ss_pred CCC---CEEEEEEEEecCCCCccccCChhhhheeEEecHHHHhC
Confidence 222 22333344332 223446789999999999999875
No 77
>cd03670 ADPRase_NUDT9 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose to AMP and ribose-5-P. Like other members of the Nudix hydrolase superfamily of enzymes, it is thought to require a divalent cation, such as Mg2+, for its activity. It also contains a 23-residue Nudix motif (GX5EX7REUXEEXGU, where U = I, L or V) which functions as a metal binding site/catalytic site. In addition to the Nudix motif, there are additional conserved amino acid residues, distal from the signature sequence, that correlate with substrate specificity. In humans, there are four distinct ADPRase activities, three putative cytosolic (ADPRase-I, -II, and -Mn) and a single mitochondrial enzyme (ADPRase-m). ADPRase-m is also known as NUDT9. It can be distinugished from the cytosolic ADPRase by a N-terminal target sequence unique to mitochondrial ADPRase. NUDT9 functions as a monomer.
Probab=99.38 E-value=3.6e-12 Score=117.96 Aligned_cols=108 Identities=14% Similarity=0.158 Sum_probs=70.2
Q ss_pred CEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEE----------------EEEEeecCCC-CCC-
Q 014873 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVV----------------YHTSQPWPVG-PNS- 295 (417)
Q Consensus 234 ~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~----------------~~~s~~~~~~-~~~- 295 (417)
.+||++||.. .|.|.||||+||+||++++|++||++||||+.+..+. .+..+.-+.. +.+
T Consensus 49 l~vLl~~r~~--~g~walPGG~v~~~E~~~~aa~Rel~EEt~l~l~~~~~~~~~l~~l~~~~~~~~~~vy~~~~~dpr~t 126 (186)
T cd03670 49 LQFVAIKRPD--SGEWAIPGGMVDPGEKISATLKREFGEEALNSLQKSDEEKEEIKKLVELFSKDGVEVYKGYVDDPRNT 126 (186)
T ss_pred eEEEEEEeCC--CCcCcCCeeeccCCCCHHHHHHHHHHHHHcccccccchhhhhhcchhhhhcccccEEEeccccCCCCC
Confidence 4788989864 6899999999999999999999999999976532110 0111110100 100
Q ss_pred C-CcEEEEEEEEEEeccc----ccC-CcccccceEEEehhhHHHHhhhhhHHHHH
Q 014873 296 M-PCQLMVGFYAYAKSFE----INV-DKEELEDARWHSREDVKKALTFAEYIKAQ 344 (417)
Q Consensus 296 ~-p~~l~i~f~a~~~~~~----~~~-~~~E~~~a~Wf~~del~~~L~~~~~~~a~ 344 (417)
+ -+...+.|.+....++ ..+ ..+|..+++||++++++. |.++|.....
T Consensus 127 d~~w~~Tva~~f~~~~~~~~~~~~~~a~dda~~a~W~~v~~l~~-L~~dH~~Il~ 180 (186)
T cd03670 127 DNAWMETVAVNFHDEDGNDVENLPLEAGDDAGSVRWQDIDSKLP-LYANHSQFLK 180 (186)
T ss_pred CcceEEEEEEEEEecCcccccccccCCCCchheeEEEEcccccc-cccCHHHHHH
Confidence 0 1235555554432211 222 346889999999999985 8888876553
No 78
>PRK08999 hypothetical protein; Provisional
Probab=99.35 E-value=7.1e-12 Score=124.66 Aligned_cols=104 Identities=24% Similarity=0.279 Sum_probs=73.2
Q ss_pred EEEEEecCCCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEE
Q 014873 225 IMLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMV 302 (417)
Q Consensus 225 ivlvi~~~~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i 302 (417)
.+++++ .+++|||.||.. ...|+|++|||++|.||++++|+.||++||||+.+.....+....+.+... ...+.
T Consensus 9 ~~vi~~-~~~~vLL~kR~~~~~~~g~w~~PgG~ve~gE~~~~aa~RE~~EE~Gl~~~~~~~l~~~~h~~~~~---~~~i~ 84 (312)
T PRK08999 9 AGVIRD-ADGRILLARRPEGKHQGGLWEFPGGKVEPGETVEQALARELQEELGIEVTAARPLITVRHDYPDK---RVRLD 84 (312)
T ss_pred EEEEEC-CCCeEEEEEecCCCCCCCeEECCccCCCCCCCHHHHHHHHHHHHhCCceecceeEEEEEEEcCCC---eEEEE
Confidence 333444 368999999874 457999999999999999999999999999999987666555555544211 12233
Q ss_pred EEEEEEecccccCCcccccceEEEehhhHHHH
Q 014873 303 GFYAYAKSFEINVDKEELEDARWHSREDVKKA 334 (417)
Q Consensus 303 ~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~ 334 (417)
.|.+...... ....|..+++|++++++.+.
T Consensus 85 ~y~~~~~~~~--~~~~e~~~~~Wv~~~el~~~ 114 (312)
T PRK08999 85 VRRVTAWQGE--PHGREGQPLAWVAPDELAVY 114 (312)
T ss_pred EEEEEEecCc--ccCccCCccEEecHHHcccC
Confidence 3333322222 23457788999999999873
No 79
>PLN02552 isopentenyl-diphosphate delta-isomerase
Probab=99.23 E-value=1.7e-10 Score=111.31 Aligned_cols=113 Identities=16% Similarity=0.358 Sum_probs=74.2
Q ss_pred EEEEEEEecCCCEEEEEEecC---CCCCcEEee-eeeccCCCC-----------------HHHHHHHHHHHHhCCeecc-
Q 014873 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGES-----------------LEEAVRRETWEETGIEVGE- 280 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~---~~~g~WslP-gG~VE~GEt-----------------leeAa~REv~EEtGl~v~~- 280 (417)
++.++|++. +++|||+||+. .++|+|+.. +|++..||+ ..+||+||++||+||.+..
T Consensus 58 a~~v~i~n~-~g~lLLQkRs~~K~~~Pg~Wd~s~~GHp~~ge~~~e~~~e~~~~~~~~~~~~eAA~REL~EElGI~~~~~ 136 (247)
T PLN02552 58 AFSVFLFNS-KYELLLQQRAATKVTFPLVWTNTCCSHPLYGQDPNEVDRESELIDGNVLGVKNAAQRKLLHELGIPAEDV 136 (247)
T ss_pred EEEEEEEcC-CCeEEEEEecCCCCCCCcceecccCCccccccccccccccccccccchhhHHHHHHhHHHHHhCCCcccc
Confidence 566677775 68999999983 578999755 455555422 6799999999999998543
Q ss_pred ----EEEEEEeecCCCC------CCC--CcEEEEEEEEE-EecccccCCcccccceEEEehhhHHHHhh
Q 014873 281 ----VVYHTSQPWPVGP------NSM--PCQLMVGFYAY-AKSFEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 281 ----v~~~~s~~~~~~~------~~~--p~~l~i~f~a~-~~~~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
+.+++...+.... +.. ...+...|+.. ....++.++++|+.+++|++++++.+++.
T Consensus 137 ~~~~l~~~~~~~y~~~~~~~~~~~~~~~E~e~~~v~~~~~~~~~~l~lq~eEV~~~~wvs~~el~~~~~ 205 (247)
T PLN02552 137 PVDQFTFLTRLHYKAADDVTHGPDGKWGEHELDYLLFIRPVRDVKVNPNPDEVADVKYVNREELKEMMR 205 (247)
T ss_pred ccccceeeeEEEEecccccccccCCCccceEEEEEEEEEecCCCcccCCHHHhheEEEEeHHHHHHHHh
Confidence 4555433322110 110 11222223322 22446788889999999999999998654
No 80
>cd04663 Nudix_Hydrolase_6 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+ for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, U=I, L or V) which functions as metal binding and catalytic site. Substrates of nudix hydrolase include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate specificity are
Probab=99.19 E-value=1.8e-10 Score=100.43 Aligned_cols=42 Identities=31% Similarity=0.439 Sum_probs=36.7
Q ss_pred CEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCee
Q 014873 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (417)
Q Consensus 234 ~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v 278 (417)
.+||+.|... +.|.+|||+||+|||+++||+||++||||+++
T Consensus 14 ~~ll~~r~~~---~~~~lPgG~ve~~E~~~~aa~Rel~EEtGl~~ 55 (126)
T cd04663 14 LELLVFEHPL---AGFQIVKGTVEPGETPEAAALRELQEESGLPS 55 (126)
T ss_pred EEEEEEEcCC---CcEECCCccCCCCCCHHHHHHHHHHHHHCCee
Confidence 3777776543 56999999999999999999999999999997
No 81
>PLN02791 Nudix hydrolase homolog
Probab=99.17 E-value=1.7e-10 Score=126.09 Aligned_cols=117 Identities=19% Similarity=0.214 Sum_probs=82.7
Q ss_pred CcEEEEEEEecCCCEEEEEEecC---CCCCcEEe-eeeeccCCCCHHHHHHHHHHHHhCCeec--cEEEEEEeecCC--C
Q 014873 221 DPVVIMLVIDRENDRVLLSRQSR---FVPRMWSC-IAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWPV--G 292 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVLL~rr~~---~~~g~Wsl-PgG~VE~GEtleeAa~REv~EEtGl~v~--~v~~~~s~~~~~--~ 292 (417)
..+|.++|++..+++|||+||+. .++|.|++ +||+++.||+.++|++||+.||+||.+. .+.+++...+.. .
T Consensus 32 HrAvhVwIfn~~~gelLLQkRS~~K~~~PG~WDiS~gGHv~aGEs~~eAA~REL~EELGI~l~~~~l~~l~~~~~~~~~~ 111 (770)
T PLN02791 32 HRAVHVWIYSESTQELLLQRRADCKDSWPGQWDISSAGHISAGDTSLLSAQRELEEELGIILPKDAFELLFVFLQECVIN 111 (770)
T ss_pred eEEEEEEEEECCCCeEEEEEecCCCCCCCCcccCcCCCCCCCCCCHHHHHHHHHHHHhCCCCChhheeeeeeEEEEeecc
Confidence 34677788876568999999984 57899997 7999999999999999999999999853 344444421111 1
Q ss_pred CCC-CCcEEEEEEEEEEe----cccccCCcccccceEEEehhhHHHHhhh
Q 014873 293 PNS-MPCQLMVGFYAYAK----SFEINVDKEELEDARWHSREDVKKALTF 337 (417)
Q Consensus 293 ~~~-~p~~l~i~f~a~~~----~~~~~~~~~E~~~a~Wf~~del~~~L~~ 337 (417)
... ..+.+..+|++... ..++.++++|+++++|++++|+.+++..
T Consensus 112 ~g~~~e~E~~~VYlv~~~~~~p~~~~~lq~eEV~~v~wvsl~El~~~l~~ 161 (770)
T PLN02791 112 DGKFINNEYNDVYLVTTLDPIPLEAFTLQESEVSAVKYMSIEEYKSALAK 161 (770)
T ss_pred CCCcceeeEEEEEEEEECCCCCcccCCCChhhhheeEEEcHHHHHHHHhc
Confidence 111 11233334444321 1246678899999999999999987654
No 82
>COG0494 MutT NTP pyrophosphohydrolases including oxidative damage repair enzymes [DNA replication, recombination, and repair / General function prediction only]
Probab=99.17 E-value=2.9e-10 Score=97.11 Aligned_cols=112 Identities=31% Similarity=0.391 Sum_probs=70.3
Q ss_pred EEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHH-HHHHHHHHHhCCeec--cEEEEEEeecCCCCCCC--C
Q 014873 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEE-AVRRETWEETGIEVG--EVVYHTSQPWPVGPNSM--P 297 (417)
Q Consensus 223 vVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtlee-Aa~REv~EEtGl~v~--~v~~~~s~~~~~~~~~~--p 297 (417)
++.+++......+||+.++.... +.|.+|||.||.||+.++ ||+||++||||+.+. ....++..+........ .
T Consensus 13 ~~~~~~~~~~~~~vl~~~~~~~~-~~~~~PgG~ve~~e~~~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (161)
T COG0494 13 AVAVLVGRDGPGEVLLAQRRDDG-GLWELPGGKVEPGEELPEEAAARELEEETGLRVKDERLELLGEFPPSPGDGSSVGG 91 (161)
T ss_pred eEEEEEecCCCCEEeEEEccccC-CceecCCcccCCCCchHHHHHHHHHHHHhCCeeeeecceeeeeccCcccCcccccc
Confidence 44444444322789998887533 699999999999999988 999999999999987 56666655444322111 0
Q ss_pred cEEEEEEEEEEe-cccccC--C---cccccceEEEehhhHHHHh
Q 014873 298 CQLMVGFYAYAK-SFEINV--D---KEELEDARWHSREDVKKAL 335 (417)
Q Consensus 298 ~~l~i~f~a~~~-~~~~~~--~---~~E~~~a~Wf~~del~~~L 335 (417)
......+..... ...... . ..|.....|++.+++....
T Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~ 135 (161)
T COG0494 92 REHRVFFVAEVDDSLAVAIEGLSAPSEELEDLEWVPLDELAALV 135 (161)
T ss_pred eEEEEEEeeeccccccccccccCCCcchhhceeeeeHHHccccc
Confidence 111111111111 111111 1 2578999999999988743
No 83
>PLN03143 nudix hydrolase; Provisional
Probab=99.15 E-value=1.1e-09 Score=107.84 Aligned_cols=117 Identities=20% Similarity=0.206 Sum_probs=73.4
Q ss_pred ccCCcCcEEEEEEEecC-CCEEEEEEecCCCCC--cEEeeeeeccCC-CCHHHHHHHHHHHHhCCeec--cEEEEE----
Q 014873 216 IYPRVDPVVIMLVIDRE-NDRVLLSRQSRFVPR--MWSCIAGFIEPG-ESLEEAVRRETWEETGIEVG--EVVYHT---- 285 (417)
Q Consensus 216 ~ypr~~pvVivlvi~~~-~~kVLL~rr~~~~~g--~WslPgG~VE~G-EtleeAa~REv~EEtGl~v~--~v~~~~---- 285 (417)
.|.+...|+++++++.+ +.+|+|+||.|++.| .|++|||.+|++ |++++||+||++||||+.+. ++..+.
T Consensus 124 v~~rg~aVaVL~~l~~~ge~~VlLVrQ~R~pvg~~~lE~PAG~lD~~~edp~~aA~REL~EETG~~~~a~~lv~L~~~~~ 203 (291)
T PLN03143 124 VFARGPAVAVLILLESEGETYAVLTEQVRVPVGKFVLELPAGMLDDDKGDFVGTAVREVEEETGIKLKLEDMVDLTAFLD 203 (291)
T ss_pred EEEcCCeEEEEEEEeCCCCEEEEEEEeEecCCCcEEEEecccccCCCCCCHHHHHHHHHHHHHCCccccceEEEeeeccc
Confidence 34444444444444432 234999999986544 688999999984 89999999999999999863 454443
Q ss_pred ------EeecCCCCCCCCcEEEEEEEEEEeccc-----------ccCCcccccceEEEehhhHHHHhh
Q 014873 286 ------SQPWPVGPNSMPCQLMVGFYAYAKSFE-----------INVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 286 ------s~~~~~~~~~~p~~l~i~f~a~~~~~~-----------~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
..+.+- .....+..|++...... ...+++|..++.|++++++..++.
T Consensus 204 ~~~g~~v~pspG----~~dE~i~Lfla~~~v~~~~l~~l~~~~~~l~degE~Iev~~vpl~eiw~~~a 267 (291)
T PLN03143 204 PSTGCRMFPSPG----GCDEEISLFLYRGHVDKETIRQLQGKETGLRDHGELIKVHVVPYRELWRMTA 267 (291)
T ss_pred cCcCceEEecCC----ccCCeEEEEEEccccchhhhcccccccCCCCCCCcEEEEEEEEHHHHHHHHH
Confidence 122211 11122333443322110 112456777899999999988764
No 84
>KOG2839 consensus Diadenosine and diphosphoinositol polyphosphate phosphohydrolase [Signal transduction mechanisms]
Probab=99.07 E-value=1.1e-09 Score=96.01 Aligned_cols=111 Identities=27% Similarity=0.303 Sum_probs=71.2
Q ss_pred CEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCC---CCCCCcEEEEEEEEEEec
Q 014873 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVG---PNSMPCQLMVGFYAYAKS 310 (417)
Q Consensus 234 ~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~---~~~~p~~l~i~f~a~~~~ 310 (417)
-+|||+...+ .+..|.+|+|.+|++|+..+||.||++||+|+.-...+.++.. |.+- ....+..+| |. ....
T Consensus 24 ieVLlvsSs~-~~~~wi~PKGGwE~dE~~~eAA~REt~EEAGv~G~l~~~~~g~-~~~~~~~~~~~~k~~~--~~-l~v~ 98 (145)
T KOG2839|consen 24 IEVLLVSSSK-KPHRWIVPKGGWEPDESVEEAALRETWEEAGVKGKLGRLLGGF-EDFLSKKHRTKPKGVM--YV-LAVT 98 (145)
T ss_pred eEEEEEecCC-CCCCccCCCCCCCCCCCHHHHHHHHHHHHhCceeeeeccccch-hhccChhhccccccee--eh-hhhh
Confidence 3899998775 3457999999999999999999999999999986544433332 2211 111111222 11 1222
Q ss_pred ccccC---CcccccceEEEehhhHHHHhhhhhHHHHHHHHHH
Q 014873 311 FEINV---DKEELEDARWHSREDVKKALTFAEYIKAQRTAAA 349 (417)
Q Consensus 311 ~~~~~---~~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~ 349 (417)
.++.. ...|..+.+|+.++|..+.+.+.....+...+.+
T Consensus 99 e~le~wp~~~~~~r~r~W~~ledA~~~~~~~~m~~al~e~~~ 140 (145)
T KOG2839|consen 99 EELEDWPESEHEFREREWLKLEDAIELCQHKWMKAALEEFLQ 140 (145)
T ss_pred hhcccChhhhcccceeEEeeHHHHHHHHhhHHHHHHHHHHHH
Confidence 22221 1345889999999999998775545554444433
No 85
>KOG3069 consensus Peroxisomal NUDIX hydrolase [Replication, recombination and repair]
Probab=98.98 E-value=1.6e-09 Score=101.91 Aligned_cols=122 Identities=23% Similarity=0.237 Sum_probs=87.9
Q ss_pred CCCcccCCcCcEEEEEEEec--CCCEEEEEEecC---CCCCcEEeeeeeccCCC-CHHHHHHHHHHHHhCCeeccEEEEE
Q 014873 212 CKKRIYPRVDPVVIMLVIDR--ENDRVLLSRQSR---FVPRMWSCIAGFIEPGE-SLEEAVRRETWEETGIEVGEVVYHT 285 (417)
Q Consensus 212 C~~~~ypr~~pvVivlvi~~--~~~kVLL~rr~~---~~~g~WslPgG~VE~GE-tleeAa~REv~EEtGl~v~~v~~~~ 285 (417)
|....+|+.+.+|++.+++. ++.+|||.||.+ ...|.-++|||..|+.+ +-+++|.||.+||.|+....+.+++
T Consensus 34 ~~~~~~~~~~~aVlI~L~~~~~~~l~vLltkRSr~LrshsGev~fPGG~~d~~D~s~~~tAlREt~EEIGl~~~~~~~~g 113 (246)
T KOG3069|consen 34 SETHDFPNRKAAVLIPLVQVGSGELSVLLTKRSRTLRSHSGEVCFPGGRRDPHDKSDIQTALRETEEEIGLDPELVDVLG 113 (246)
T ss_pred cccccCCCCCccEEEEEEEcCCCceEEEEEeccccccccCCceeCCCCcCCccccchHHHHHHHHHHHhCCCHHHhhhhh
Confidence 45566677777777777766 335899999985 46799999999999765 6778999999999999987666665
Q ss_pred EeecCCCCCCCCcEEEEEEEEEEec-ccccCCcccccceEEEehhhHHH
Q 014873 286 SQPWPVGPNSMPCQLMVGFYAYAKS-FEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 286 s~~~~~~~~~~p~~l~i~f~a~~~~-~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
..+-.+........-+++|...... ....++..|++++.|++++++..
T Consensus 114 ~l~~~~~r~~~~v~p~v~~l~~~~~l~~~~ln~gEv~~~F~VPL~~ll~ 162 (246)
T KOG3069|consen 114 ALPPFVLRSGWSVFPVVGFLSDKKILPSLRLNSGEVESAFWVPLTDLLL 162 (246)
T ss_pred hccceeeccCcccceeEEEEecccccccccCCchheeeeeeeeHHHHhh
Confidence 5432222222223445666554322 44567789999999999999875
No 86
>PF09296 NUDIX-like: NADH pyrophosphatase-like rudimentary NUDIX domain; InterPro: IPR015375 This entry represents the N-terminal domain found in NADH pyrophosphatase. Nitrate reductase inactivator (NRI) protein shares 51.1-68.3% of its amino acid sequence with three types of the nucleotide pyrophosphatase-like protein from Arabidopsis thaliana.; GO: 0016787 hydrolase activity; PDB: 1VK6_A 2GB5_A.
Probab=98.94 E-value=3e-09 Score=87.43 Aligned_cols=98 Identities=28% Similarity=0.341 Sum_probs=54.5
Q ss_pred CeEEEEEeCCceeeecCCCCCCCceeeccccchhhHHHhhhcCcCcccccEEEeeeeeCCCeeEEEEecCCCCccccccc
Q 014873 64 DFKVLPFRKGRPLTYSGPGETAPVWHLGWISLGDCKIFLANSGIELKEEALVYLGSRSADDVVYWAIDVSDGDSLASEFG 143 (417)
Q Consensus 64 ~~~~l~f~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~Lg~~~~~~~~~~a~~~~~~~~~~~~~~ 143 (417)
++|+++|+++++|+...++. . .+......+.. ......+|||.. +++.+|||+|++..... ....
T Consensus 1 ~a~~~~~~~~~~lv~~~~~~--~--~~~~~~~~~~~---------~~~~~~~~LG~~-~gg~~~fa~~~~~~~~~-~~~~ 65 (98)
T PF09296_consen 1 SARWLLFSGGRLLVKKDGGD--L--LLPPGDAAELG---------LPEEEAVFLGED-EGGQPCFAVDLSEEPDS-QLEL 65 (98)
T ss_dssp -EEEEEEETTEEE-GG------G--S--EEEGGGGT----------TTSEEEEEEEE-TT-EEEEEEE---SS-------
T ss_pred CEEEEEEECCEEEEecCccc--e--eecccchhhcc---------CCCCcEEEeeec-CCEeEEEEEEcCccccc-cccc
Confidence 48999999999999763321 1 12222222121 135678999986 33499999999876641 1112
Q ss_pred ccccchhhhHHHHhhcchhhhhhHHHHHHHHHHHHHHhh
Q 014873 144 SKQLCFVELRTVMVATDWADQRAMADLAIAGHARALLEW 182 (417)
Q Consensus 144 ~~~~~~~~lr~~~~~~~~~~~~~~~~~~~~~~A~~l~~W 182 (417)
..+..|.+||+++..+ ++.+++++++|++|++|
T Consensus 66 ~~~~~~~~LR~~~~~l------~~~~~~l~a~A~~ll~W 98 (98)
T PF09296_consen 66 PEGFEFVDLRQLGGQL------PEEDAGLAARARQLLDW 98 (98)
T ss_dssp -----EE-GGGGT-TS-------HHHHHHHHHHHHHHH-
T ss_pred cccccchhHHHHHHcC------CHHHHHHHHHHHHHhcC
Confidence 4578899999998544 56899999999999999
No 87
>KOG3041 consensus Nucleoside diphosphate-sugar hydrolase of the MutT (NUDIX) family [Replication, recombination and repair]
Probab=98.91 E-value=2.3e-08 Score=91.69 Aligned_cols=119 Identities=22% Similarity=0.241 Sum_probs=75.4
Q ss_pred ccCCcCcEEEEEEEecC-CCEEEEEEecCCCCCcE--EeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEee-cCC
Q 014873 216 IYPRVDPVVIMLVIDRE-NDRVLLSRQSRFVPRMW--SCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQP-WPV 291 (417)
Q Consensus 216 ~ypr~~pvVivlvi~~~-~~kVLL~rr~~~~~g~W--slPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~-~~~ 291 (417)
.+-+.+.|.|..++..+ .-.|+|+++.|++-|.+ ++|+|-|+.||+++.||.||++||||+. +.+......- ...
T Consensus 69 ~ea~~dgVaIl~il~~dG~~~ivL~kQfRpP~Gk~ciElPAGLiD~ge~~~~aAiREl~EEtGy~-gkv~~~s~~~f~DP 147 (225)
T KOG3041|consen 69 VEARADGVAILAILESDGKPYIVLVKQFRPPTGKICIELPAGLIDDGEDFEGAAIRELEEETGYK-GKVDMVSPTVFLDP 147 (225)
T ss_pred ccccCCeEEEEEEEecCCcEEEEEEEeecCCCCcEEEEcccccccCCCchHHHHHHHHHHHhCcc-ceeeeccccEEcCC
Confidence 45566766666555542 23799999999888855 5999999999999999999999999998 4333221110 111
Q ss_pred CCCCCCcEEEEEEEEEEe-ccc----ccCCcccccceEEEehhhHHHHhh
Q 014873 292 GPNSMPCQLMVGFYAYAK-SFE----INVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 292 ~~~~~p~~l~i~f~a~~~-~~~----~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
|-.. ...-++.+...-. .+. ..+++.|..++.-++..++.+.+.
T Consensus 148 Gltn-~~~~iv~v~idg~~pEnqrp~q~ledgEfIev~~i~~~~L~~~~~ 196 (225)
T KOG3041|consen 148 GLTN-CNLCIVVVDIDGDVPENQRPVQQLEDGEFIEVFLIPLSELWRELA 196 (225)
T ss_pred CCCC-CceEEEEEEecCCCccccCccccCCCCceEEEEEeeHHHHHHHHH
Confidence 2111 1122333322211 111 234567888899999999887543
No 88
>COG1443 Idi Isopentenyldiphosphate isomerase [Lipid metabolism]
Probab=98.74 E-value=2.2e-08 Score=90.37 Aligned_cols=122 Identities=25% Similarity=0.423 Sum_probs=86.6
Q ss_pred CCCcccCCcCcEEEEEEEecCCCEEEEEEec---CCCCCcEE-eeeeeccCCCCHHHHHHHHHHHHhCCeeccE------
Q 014873 212 CKKRIYPRVDPVVIMLVIDRENDRVLLSRQS---RFVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEVGEV------ 281 (417)
Q Consensus 212 C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~---~~~~g~Ws-lPgG~VE~GEtleeAa~REv~EEtGl~v~~v------ 281 (417)
|....-|+..-+.-+++++. +|++||+||+ +-+++.|+ -..||--+||+.++|++|-+.+|+||++...
T Consensus 24 ~Ht~d~~~LHrAFS~~lFne-~g~LLltrRA~~K~twP~vWTNSvCsHP~~~es~~~A~~rRl~~ELGie~~~~d~~~il 102 (185)
T COG1443 24 AHTGDTPRLHRAFSSFLFNE-RGQLLLTRRALSKKTWPGVWTNSVCSHPLPGESNEDAARRRLAYELGIEPDQYDKLEIL 102 (185)
T ss_pred hhccccHHHHhhhheeEECC-CCceeeehhhhhcccCcccccccccCCCcCCCchHHHHHHHHHHHhCCCCcccCccccc
Confidence 34444444444566788886 7999999998 36789998 6788888999999999999999999998621
Q ss_pred ---EEEEEeecCCCCCCCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHHHhhhhh
Q 014873 282 ---VYHTSQPWPVGPNSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKKALTFAE 339 (417)
Q Consensus 282 ---~~~~s~~~~~~~~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~~ 339 (417)
+|....+-.. ...-+..++++.... .+.++++|+.+++|++++++.+++..+.
T Consensus 103 ~rf~YrA~~~~~~----~E~Eic~V~~~~~~~-~~~~npdEV~~~~wv~~e~l~~~~~~~~ 158 (185)
T COG1443 103 PRFRYRAADPDGI----VENEICPVLAARLDS-ALDPNPDEVMDYRWVSPEDLKEMVDATP 158 (185)
T ss_pred cceEEeccCCCCc----ceeeeeeEEEEeecC-CCCCChHHhhheeccCHHHHHHhhcCCc
Confidence 2222211111 122344444454443 6778889999999999999999876543
No 89
>cd03431 DNA_Glycosylase_C DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important for the repair of various genotoxic lesions. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+ for their activity. They are also recognized by a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V). However, DNA glycosylase does not seem to contain this signature motif. DNA glycosylase consists of 2 domains: the N-terminal domain contains the catalytic properties of the enzyme and the C-terminal domain affects substrate (oxoG) binding and enzymatic turnover. The C-terminal domain is highly similar to MutT, based on secondary structure and topology, despite low sequence identity. MutT sanitizes the nucleotide precursor pool by hydrolyzing oxo-dGTP to
Probab=98.58 E-value=7.6e-07 Score=74.75 Aligned_cols=89 Identities=16% Similarity=0.205 Sum_probs=61.1
Q ss_pred CCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEE-EEEEEEEEe
Q 014873 233 NDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQL-MVGFYAYAK 309 (417)
Q Consensus 233 ~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l-~i~f~a~~~ 309 (417)
++++||.||.. ...|+|++|+|.++.+|+.+++..||+.||.++ ....++...+.++ ...+ +..|.+...
T Consensus 13 ~~~~ll~kR~~~gl~~glwefP~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~H~ft----h~~~~~~~~~~~~~ 85 (118)
T cd03431 13 DGRVLLEKRPEKGLLAGLWEFPSVEWEEEADGEEALLSALKKALRL---SLEPLGTVKHTFT----HFRLTLHVYLARLE 85 (118)
T ss_pred CCeEEEEECCCCCCCCcceeCCCccccCCcCHHHHHHHHHHHHhCc---ccccceeEEEecC----CeEEEEEEEEEEEe
Confidence 68999999973 568999999999999999999999999999764 1122333333332 1233 333444333
Q ss_pred cccccCCcccccceEEEehhhHHH
Q 014873 310 SFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 310 ~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
... .+..+.+|++++++.+
T Consensus 86 ~~~-----~~~~~~~W~~~eel~~ 104 (118)
T cd03431 86 GDL-----LAPDEGRWVPLEELDE 104 (118)
T ss_pred CCC-----cCccccEEccHHHHhh
Confidence 221 2456789999999987
No 90
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=98.52 E-value=5.8e-08 Score=64.44 Aligned_cols=32 Identities=41% Similarity=0.943 Sum_probs=23.0
Q ss_pred hccCccccCCCcceeccCccceeecCCCCCCccc
Q 014873 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (417)
++++||++||+++....+|+.++|+ +|+.++|
T Consensus 1 ~~~rfC~~CG~~t~~~~~g~~r~C~--~Cg~~~y 32 (32)
T PF09297_consen 1 RNHRFCGRCGAPTKPAPGGWARRCP--SCGHEHY 32 (32)
T ss_dssp HTTSB-TTT--BEEE-SSSS-EEES--SSS-EE-
T ss_pred CCCcccCcCCccccCCCCcCEeECC--CCcCEeC
Confidence 4789999999999999999999997 6999887
No 91
>PLN02839 nudix hydrolase
Probab=98.46 E-value=9.5e-07 Score=89.09 Aligned_cols=111 Identities=16% Similarity=0.082 Sum_probs=74.0
Q ss_pred EEEecCCCEEEEEEecC---CCCCcEE-eeeeeccCCCCHHHHHHHHHHHHhCCeec---cEEEEEEeecCCCC--CCCC
Q 014873 227 LVIDRENDRVLLSRQSR---FVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEVG---EVVYHTSQPWPVGP--NSMP 297 (417)
Q Consensus 227 lvi~~~~~kVLL~rr~~---~~~g~Ws-lPgG~VE~GEtleeAa~REv~EEtGl~v~---~v~~~~s~~~~~~~--~~~p 297 (417)
++..+.+.++.+.||.. .++|+|+ +.||.|..||++.++++||.+||+||... .+...+...|.... .-.+
T Consensus 211 yv~~~g~~~lWV~RRS~tK~t~PGmLDn~VAGGi~aGesp~etliREa~EEAgLp~~l~~~~~~~G~VsY~~~~~~g~~~ 290 (372)
T PLN02839 211 YVERDGQKFLWIGKRSLSKSTYPGMLDHLVAGGLPHGISCGENLVKECEEEAGISKAIADRAIAVGAVSYMDIDQYCFKR 290 (372)
T ss_pred EEecCCCeEEEeeccCCCCCCCCChhhhccccCccCCCCHHHHHHHHHHHHcCCCHHHHhcceEeEEEEEEEEcCCcccc
Confidence 33333346799999984 5789998 88999999999999999999999999743 44444444433211 1112
Q ss_pred cEEEEEEEEEEecc-cccCCcccccceEEEehhhHHHHhhhh
Q 014873 298 CQLMVGFYAYAKSF-EINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 298 ~~l~i~f~a~~~~~-~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
..+. .|-.....+ ..+.++.|++++.+++++|+.+.+..+
T Consensus 291 evly-~YDLeLP~df~P~~qDGEVe~F~Lm~v~EV~~~l~~~ 331 (372)
T PLN02839 291 DVLF-CYDLELPQDFVPKNQDGEVESFKLIPVAQVANVIRKT 331 (372)
T ss_pred CEEE-EeeeecCCccccCCCccceeEEEEecHHHHHHHHHcC
Confidence 2222 222222221 124567999999999999999877643
No 92
>COG4119 Predicted NTP pyrophosphohydrolase [DNA replication, recombination, and repair / General function prediction only]
Probab=98.43 E-value=9.2e-07 Score=75.94 Aligned_cols=125 Identities=22% Similarity=0.215 Sum_probs=74.0
Q ss_pred CCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeecc-EEEEEEeecCC
Q 014873 213 KKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE-VVYHTSQPWPV 291 (417)
Q Consensus 213 ~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~-v~~~~s~~~~~ 291 (417)
|...|..-+.++.++++++ ++-+...| ..|.|++|.|.+..||.++.||+||.-||+||.++- ...+++..-+
T Consensus 7 GvLlYR~~aG~v~VLLvHP-GGPFWa~k----D~GAWSIPKGey~~gEdp~~AArREf~EE~Gi~vdGP~~~lG~~kQ~- 80 (161)
T COG4119 7 GVLLYRARAGVVDVLLVHP-GGPFWAGK----DDGAWSIPKGEYTGGEDPWLAARREFSEEIGICVDGPRIDLGSLKQS- 80 (161)
T ss_pred eeEEEEecCCCEEEEEecC-CCCccccC----CCCcccccccccCCCcCHHHHHHHHhhhhhceeecCchhhhhhhccC-
Confidence 4444544444454555443 33333322 248999999999999999999999999999999852 2233332111
Q ss_pred CCCCCCcEEEEEEEEEE----------------ecccccCC-cccccceEEEehhhHHHHhhhhhHHHHHHHHHHHHHH
Q 014873 292 GPNSMPCQLMVGFYAYA----------------KSFEINVD-KEELEDARWHSREDVKKALTFAEYIKAQRTAAAKVEQ 353 (417)
Q Consensus 292 ~~~~~p~~l~i~f~a~~----------------~~~~~~~~-~~E~~~a~Wf~~del~~~L~~~~~~~a~~~a~~~l~~ 353 (417)
-..+.++|-... ....-.+. -.|++.+.||++.+....+ .+.++.++.+|..
T Consensus 81 -----GGKvVta~~veae~Dva~~rSntFe~eWPprSG~M~~FPEVDRagWF~l~eAr~Ki-----l~gQRpfldrL~a 149 (161)
T COG4119 81 -----GGKVVTAFGVEAELDVADARSNTFELEWPPRSGKMRKFPEVDRAGWFPLAEARTKI-----LKGQRPFLDRLMA 149 (161)
T ss_pred -----CCcEEEEEeeeeeeehhhhhcceeeeecCCCCCccccCcccccccceecHHHHhHH-----hhccchHHHHHHH
Confidence 112333333221 11111111 2588999999999988643 2345556666543
No 93
>KOG0648 consensus Predicted NUDIX hydrolase FGF-2 and related proteins [Signal transduction mechanisms]
Probab=98.40 E-value=1.5e-07 Score=92.02 Aligned_cols=111 Identities=23% Similarity=0.300 Sum_probs=72.0
Q ss_pred cCcEEEEEEEecCCCEEEEEEecC---CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEE--EEee-cCCCC
Q 014873 220 VDPVVIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH--TSQP-WPVGP 293 (417)
Q Consensus 220 ~~pvVivlvi~~~~~kVLL~rr~~---~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~--~s~~-~~~~~ 293 (417)
....|.++|++. +++||+++... ...|.|-+|+|.|++||++-+++.||++||||++...+..+ .... -.++-
T Consensus 114 h~vgvg~~V~n~-~~eVlVv~e~d~~~~~~~~wK~ptG~v~~~e~i~~gavrEvkeetgid~ef~eVla~r~~H~~~~~~ 192 (295)
T KOG0648|consen 114 HRVGVGAFVLNK-KKEVLVVQEKDGAVKIRGGWKLPTGRVEEGEDIWHGAVREVKEETGIDTEFVEVLAFRRAHNATFGL 192 (295)
T ss_pred hheeeeeeEecC-CceeEEEEecccceeecccccccceEecccccchhhhhhhhHHHhCcchhhhhHHHHHhhhcchhhc
Confidence 345667778776 47999987642 24689999999999999999999999999999965322211 1111 11110
Q ss_pred CCCCcEEEEEEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 294 NSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 294 ~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
....+.+.+.....+-.++....|++.+.|++.++...
T Consensus 193 --~ksd~f~~c~L~p~s~~i~~~~~ei~~~~Wmp~~e~v~ 230 (295)
T KOG0648|consen 193 --IKSDMFFTCELRPRSLDITKCKREIEAAAWMPIEEYVS 230 (295)
T ss_pred --ccccceeEEEeeccccccchhHHHHHHHhcccHHHhhc
Confidence 01122222222223344555678899999999998776
No 94
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=97.64 E-value=2.6e-05 Score=52.36 Aligned_cols=29 Identities=24% Similarity=0.637 Sum_probs=17.5
Q ss_pred CccccCCCcceec----cCccceeecCCCCCCccc
Q 014873 187 RFCGHCGEKTIPK----EAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 187 ~fC~~CG~~~~~~----~~g~~~~C~~~~C~~~~y 217 (417)
+|||.||+++... +...|.+|+ +|+++||
T Consensus 1 kfC~~CG~~l~~~ip~gd~r~R~vC~--~Cg~IhY 33 (34)
T PF14803_consen 1 KFCPQCGGPLERRIPEGDDRERLVCP--ACGFIHY 33 (34)
T ss_dssp -B-TTT--B-EEE--TT-SS-EEEET--TTTEEE-
T ss_pred CccccccChhhhhcCCCCCccceECC--CCCCEEe
Confidence 6999999999763 334789997 6999998
No 95
>PF14815 NUDIX_4: NUDIX domain; PDB: 1VRL_A 1RRQ_A 3G0Q_A 3FSQ_A 1RRS_A 3FSP_A.
Probab=97.62 E-value=0.00016 Score=61.29 Aligned_cols=97 Identities=16% Similarity=0.214 Sum_probs=53.8
Q ss_pred EEecCCCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEE
Q 014873 228 VIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFY 305 (417)
Q Consensus 228 vi~~~~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~ 305 (417)
+++ .++++||.||.. ...|+|++|.--++...+ .+.+.+.+.+..|+.+.....++...+.|+. ....+..|.
T Consensus 4 i~~-~~~~~Ll~kRp~~gll~GLwefP~~e~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~v~H~fSH---~~~~~~~~~ 78 (114)
T PF14815_consen 4 IIR-SQGRVLLEKRPEKGLLAGLWEFPLIESDEEDD-EEELEEWLEEQLGLSIRSVEPLGTVKHVFSH---RRWTIHVYE 78 (114)
T ss_dssp EEE-TTSEEEEEE--SSSTTTT-EE--EEE-SSS-C-HHHHHHHTCCSSS-EEEE-S-SEEEEEE-SS---EEEEEEEEE
T ss_pred EEE-eCCEEEEEECCCCChhhcCcccCEeCccCCCC-HHHHHHHHHHHcCCChhhheecCcEEEEccc---eEEEEEEEE
Confidence 344 479999999984 578999999988874333 6666667777888876544455555554431 123344455
Q ss_pred EEEecccccCCcccccceEEEehhhHHH
Q 014873 306 AYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 306 a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
+.+...... +..+.+|++.+++.+
T Consensus 79 ~~~~~~~~~----~~~~~~W~~~~~l~~ 102 (114)
T PF14815_consen 79 VEVSADPPA----EPEEGQWVSLEELDQ 102 (114)
T ss_dssp EEEE-SS--------TTEEEEEGGGGGG
T ss_pred EEecCCCCC----CCCCcEEEEHHHHhh
Confidence 545433221 467899999999986
No 96
>KOG0142 consensus Isopentenyl pyrophosphate:dimethylallyl pyrophosphate isomerase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=96.90 E-value=0.0027 Score=59.01 Aligned_cols=114 Identities=19% Similarity=0.398 Sum_probs=72.8
Q ss_pred cEEEEEEEecCCCEEEEEEecC---CCCCcEE--e-------eeeecc-CCCCHHHHHHHHHHHHhCCeec-----cEEE
Q 014873 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWS--C-------IAGFIE-PGESLEEAVRRETWEETGIEVG-----EVVY 283 (417)
Q Consensus 222 pvVivlvi~~~~~kVLL~rr~~---~~~g~Ws--l-------PgG~VE-~GEtleeAa~REv~EEtGl~v~-----~v~~ 283 (417)
-+.-|++++. ++++||++|+. .+++.|+ + |+.--+ .+..+..||+|-+.-|+||... ++.|
T Consensus 53 RaFSVFlFns-~~~lLlQqRS~~KitFP~~~TNtccSHPL~~~~el~~~d~lGVr~AAqRkL~~ELGIp~e~v~pee~~~ 131 (225)
T KOG0142|consen 53 RAFSVFLFNS-KNELLLQQRSDEKITFPGLWTNTCCSHPLYNPGELEENDALGVRRAAQRKLKAELGIPLEEVPPEEFNF 131 (225)
T ss_pred heeeEEEecC-cchHHHhhhccccccccchhhhhhhcCcCCChhhhccCchHHHHHHHHHHHHHhhCCCccccCHHHccc
Confidence 3455677775 78999999884 4677777 1 222111 2335789999999999999754 4556
Q ss_pred EEEeecCCCCCCCCcEEEEEEEEEE-ecccccCCcccccceEEEehhhHHHHhh
Q 014873 284 HTSQPWPVGPNSMPCQLMVGFYAYA-KSFEINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 284 ~~s~~~~~~~~~~p~~l~i~f~a~~-~~~~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
+....|--.+++.-.-.-+-|.... ..-.++++++|+.+++|++.+|+.++++
T Consensus 132 ltrihYkA~sdg~wGEhEiDYiL~~~~~~~~nPnpnEv~e~ryvs~eelkel~~ 185 (225)
T KOG0142|consen 132 LTRIHYKAPSDGIWGEHEIDYILFLVKDVTLNPNPNEVSEIRYVSREELKELVA 185 (225)
T ss_pred ceeeeeecCCCCCcccceeeEEEEEeccCCCCCChhhhhHhheecHHHHHHHHh
Confidence 6665543222221112223333222 2345666779999999999999999776
No 97
>KOG4195 consensus Transient receptor potential-related channel 7 [Inorganic ion transport and metabolism]
Probab=96.77 E-value=0.0019 Score=60.82 Aligned_cols=39 Identities=23% Similarity=0.475 Sum_probs=33.6
Q ss_pred EEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhC
Q 014873 235 RVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETG 275 (417)
Q Consensus 235 kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtG 275 (417)
+++.++|+ ..|.|.+|||.||+||-+-.+.+||+.||.=
T Consensus 140 e~vavkr~--d~~~WAiPGGmvdpGE~vs~tLkRef~eEa~ 178 (275)
T KOG4195|consen 140 EFVAVKRP--DNGEWAIPGGMVDPGEKVSATLKREFGEEAM 178 (275)
T ss_pred EEEEEecC--CCCcccCCCCcCCchhhhhHHHHHHHHHHHH
Confidence 45566665 4789999999999999999999999999963
No 98
>COG4112 Predicted phosphoesterase (MutT family) [General function prediction only]
Probab=95.97 E-value=0.067 Score=48.30 Aligned_cols=100 Identities=22% Similarity=0.322 Sum_probs=64.2
Q ss_pred CCEEEEEEecCC-----CCCcEEe-eeeeccCCC---CHHHH----HHHHHHHHhCCe---eccEEEEEEeecCCCCCCC
Q 014873 233 NDRVLLSRQSRF-----VPRMWSC-IAGFIEPGE---SLEEA----VRRETWEETGIE---VGEVVYHTSQPWPVGPNSM 296 (417)
Q Consensus 233 ~~kVLL~rr~~~-----~~g~Wsl-PgG~VE~GE---tleeA----a~REv~EEtGl~---v~~v~~~~s~~~~~~~~~~ 296 (417)
.++||+-+|-.- -.+.+++ .|||+..++ +.++- +.||+.||+++. ...+.|++-..-....-+
T Consensus 71 edevliyeRltgggE~RLHn~~SlG~GGHmn~~~GA~s~~evLk~n~~REleEEv~vseqd~q~~e~lGlINdd~neVg- 149 (203)
T COG4112 71 EDEVLIYERLTGGGEKRLHNLYSLGIGGHMNEGDGATSREEVLKGNLERELEEEVDVSEQDLQELEFLGLINDDTNEVG- 149 (203)
T ss_pred CCEEEEEEeccCcchhhhccccccccccccccCCCcccHHHHHccchHHHHHHHhCcCHHHhhhheeeeeecCCCcccc-
Confidence 569999988631 1256775 589998765 33332 679999999997 456778876643311000
Q ss_pred CcEEEEEEEEEEecccccCCcccccceEEEehhhHHH
Q 014873 297 PCQLMVGFYAYAKSFEINVDKEELEDARWHSREDVKK 333 (417)
Q Consensus 297 p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~del~~ 333 (417)
..++-+.|.......++...+.+.-++.|+..+++.+
T Consensus 150 kVHiG~lf~~~~k~ndvevKEkd~~~~kwik~~ele~ 186 (203)
T COG4112 150 KVHIGALFLGRGKFNDVEVKEKDLFEWKWIKLEELEK 186 (203)
T ss_pred eEEEEEEEEeeccccceeeeecceeeeeeeeHHHHHH
Confidence 1133334444444444555567788999999999987
No 99
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=95.78 E-value=0.005 Score=44.50 Aligned_cols=34 Identities=21% Similarity=0.533 Sum_probs=28.8
Q ss_pred hhccCccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
-+.++|||+||.-+...+...|..|. .||...|-
T Consensus 16 ~rk~~~CPrCG~gvfmA~H~dR~~CG--kCgyTe~~ 49 (51)
T COG1998 16 KRKNRFCPRCGPGVFMADHKDRWACG--KCGYTEFK 49 (51)
T ss_pred EEccccCCCCCCcchhhhcCceeEec--cccceEee
Confidence 35689999999998888888899997 79988774
No 100
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=95.65 E-value=0.0064 Score=44.49 Aligned_cols=32 Identities=22% Similarity=0.536 Sum_probs=25.4
Q ss_pred hccCccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
+.++|||.||+. .......+..|. .|+..+|-
T Consensus 18 ~~~~fCP~Cg~~-~m~~~~~r~~C~--~Cgyt~~~ 49 (50)
T PRK00432 18 RKNKFCPRCGSG-FMAEHLDRWHCG--KCGYTEFK 49 (50)
T ss_pred EccCcCcCCCcc-hheccCCcEECC--CcCCEEec
Confidence 457899999996 455555788997 69999884
No 101
>KOG2937 consensus Decapping enzyme complex, predicted pyrophosphatase DCP2 [RNA processing and modification]
Probab=95.61 E-value=0.0028 Score=62.95 Aligned_cols=110 Identities=25% Similarity=0.298 Sum_probs=70.6
Q ss_pred cccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeeccE-E-EEEEeecCCC
Q 014873 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV-V-YHTSQPWPVG 292 (417)
Q Consensus 215 ~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~~v-~-~~~s~~~~~~ 292 (417)
.-|-...|+....+.+....++||++.-. ...|++|-|++..+|+--+++.|||.||||.+.... . +.+ .+..
T Consensus 76 ~~yk~~iPv~ga~ild~~~sr~llv~g~q--a~sw~fprgK~~kdesd~~caiReV~eetgfD~skql~~~e~-Ie~n-- 150 (348)
T KOG2937|consen 76 APYKARIPVRGAIILDEKRSRCLLVKGWQ--ASSWSFPRGKISKDESDSDCAIREVTEETGFDYSKQLQDNEG-IETN-- 150 (348)
T ss_pred ccccCCCCCchHhhhhhhhhhhheeecee--cccccccCccccccchhhhcchhcccchhhcCHHHHhccccC-cccc--
Confidence 34555567777777787677999988653 456999999999999999999999999999987421 1 111 1111
Q ss_pred CCCCCcEEEEEEEEEEecccccC---CcccccceEEEehhhHH
Q 014873 293 PNSMPCQLMVGFYAYAKSFEINV---DKEELEDARWHSREDVK 332 (417)
Q Consensus 293 ~~~~p~~l~i~f~a~~~~~~~~~---~~~E~~~a~Wf~~del~ 332 (417)
+...+.-.|+---...+++. -.-|++.+.|+.++++.
T Consensus 151 ---I~dq~~~~fIi~gvs~d~~f~~~v~~eis~ihW~~l~~l~ 190 (348)
T KOG2937|consen 151 ---IRDQLVRLFIINGVSEDTNFNPRVRKEISKIHWHYLDHLV 190 (348)
T ss_pred ---hhhceeeeeeeccceeeeecchhhhccccceeeeehhhhc
Confidence 11111111221101111111 13688999999999993
No 102
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=95.25 E-value=0.028 Score=40.82 Aligned_cols=33 Identities=30% Similarity=0.618 Sum_probs=25.2
Q ss_pred CccccCCCcceeccCc--cceeecCCCCCCcccCCcC
Q 014873 187 RFCGHCGEKTIPKEAG--KLKQCSNASCKKRIYPRVD 221 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g--~~~~C~~~~C~~~~ypr~~ 221 (417)
+|||.||..+...... .+..|+ .|++.++-+..
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~--~Cg~~~~~~~~ 35 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCR--KCGYEEPIEQK 35 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECC--cCCCeEECCCc
Confidence 5999999998776543 478897 69998875433
No 103
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=94.67 E-value=0.023 Score=36.54 Aligned_cols=25 Identities=36% Similarity=0.747 Sum_probs=16.1
Q ss_pred ccccCCCcceeccCccceeecCC-CC
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNA-SC 212 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~-~C 212 (417)
+||.||+++...+++...+|+|+ .|
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C~N~l~C 26 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRCPNPLSC 26 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE--CGC-
T ss_pred CcCCCCCEeEcCCCCEeEECCCCCcC
Confidence 69999999998888999999986 66
No 104
>KOG4313 consensus Thiamine pyrophosphokinase [Nucleotide transport and metabolism]
Probab=93.77 E-value=0.2 Score=48.27 Aligned_cols=112 Identities=15% Similarity=0.087 Sum_probs=70.4
Q ss_pred EEEEEEecCCC--EEEEEEecC---CCCCcEE-eeeeeccCCCCHHHHHHHHHHHHhCCee---ccEEEEEEeecCC--C
Q 014873 224 VIMLVIDREND--RVLLSRQSR---FVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEV---GEVVYHTSQPWPV--G 292 (417)
Q Consensus 224 Vivlvi~~~~~--kVLL~rr~~---~~~g~Ws-lPgG~VE~GEtleeAa~REv~EEtGl~v---~~v~~~~s~~~~~--~ 292 (417)
+-+.|.++..+ +|.+.||+. -++|+|+ ..||.+-.|-.+.+++..|..||+.+.. .++...|+..+-+ +
T Consensus 136 ingYV~~pk~~~l~iWvprRS~TKqTWP~~lDN~vaGGl~~g~gI~eT~iKE~~EEAnl~~~~~~Nlv~~G~VSy~~~es 215 (306)
T KOG4313|consen 136 INGYVRHPKLGPLCIWVPRRSNTKQTWPGKLDNMVAGGLSVGFGIKETAIKEAAEEANLPSDLVKNLVSAGCVSYYKFES 215 (306)
T ss_pred eeeeecCCCcCceEEEecccCCccccCcchhhhhhccccccCchHHHHHHHHHHHhcCCchhhHhcceecceeEEEeeeh
Confidence 33555555433 677778874 4678888 8899999999999999999999999976 3343333322221 0
Q ss_pred -CCCCCcEEEEEEEEEEecc-cccCCcccccceEEEehhhHHHHhh
Q 014873 293 -PNSMPCQLMVGFYAYAKSF-EINVDKEELEDARWHSREDVKKALT 336 (417)
Q Consensus 293 -~~~~p~~l~i~f~a~~~~~-~~~~~~~E~~~a~Wf~~del~~~L~ 336 (417)
..-+|. +...|-..+... -.+.++.|++.+..+++.+..+.|.
T Consensus 216 r~~~~pe-~qYVfDL~l~~d~iP~~nDGEV~~F~Lltl~~~v~~l~ 260 (306)
T KOG4313|consen 216 RQGLFPE-TQYVFDLELPLDFIPQNNDGEVQAFELLTLKDCVERLF 260 (306)
T ss_pred hhccCcc-ceEEEeccCchhhcCCCCCCceeeEeeecHHHHHHHHH
Confidence 111222 122222112211 2344578999999999998887554
No 105
>KOG4432 consensus Uncharacterized NUDIX family hydrolase [General function prediction only]
Probab=93.18 E-value=0.23 Score=49.04 Aligned_cols=110 Identities=20% Similarity=0.161 Sum_probs=65.7
Q ss_pred CcCcEEEEEEEecCCCEEEEEEecCCC----------C----------------C-cEEeeeeeccCCCCHHHHHHHHHH
Q 014873 219 RVDPVVIMLVIDRENDRVLLSRQSRFV----------P----------------R-MWSCIAGFIEPGESLEEAVRRETW 271 (417)
Q Consensus 219 r~~pvVivlvi~~~~~kVLL~rr~~~~----------~----------------g-~WslPgG~VE~GEtleeAa~REv~ 271 (417)
+++.|+ +++++.+..++||+|+.|+. + | ...|.||-|+..-|+.|-|..||.
T Consensus 25 ~~~~v~-ill~~r~~eq~l~vrqfr~ai~~~~~s~~~~~~~~~~~d~~~~~~e~g~tielc~g~idke~s~~eia~eev~ 103 (405)
T KOG4432|consen 25 KMSSVS-ILLFHRDLEQFLLVRQFRPAIFTASNSPENHGKEFDKIDWSSYDSETGYTIELCAGLIDKELSPREIASEEVA 103 (405)
T ss_pred hccceE-EEEEccchhhhehhhhhchhheecccCCCCCCcccccccHhhCCCccceeeeeeccccccccCHHHHhHHHHH
Confidence 345554 55667667899999986410 0 1 244789999999999999999999
Q ss_pred HHhCCeeccEEEEEEeecCCCCCCCCcEEEEEEEEEEecccccCCcccccceEEEehhh
Q 014873 272 EETGIEVGEVVYHTSQPWPVGPNSMPCQLMVGFYAYAKSFEINVDKEELEDARWHSRED 330 (417)
Q Consensus 272 EEtGl~v~~v~~~~s~~~~~~~~~~p~~l~i~f~a~~~~~~~~~~~~E~~~a~Wf~~de 330 (417)
||.|.++..-..+....+..+.+ ...+-|..|++.+....-.-...-+..-+..+++-
T Consensus 104 eecgy~v~~d~l~hv~~~~~g~~-~s~sa~~l~y~ei~es~kis~gggv~~~~~~~~~~ 161 (405)
T KOG4432|consen 104 EECGYRVDPDDLIHVITFVVGAH-QSGSAQHLYYAEIDESMKISEGGGVITKVYYPVNV 161 (405)
T ss_pred HHhCCcCChhHceEEEEEEeccc-cCccchheeeeecchhhccccCCceeeEEEEeehh
Confidence 99999985322222222222222 13456777787765322111223344444555443
No 106
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=92.81 E-value=0.06 Score=36.38 Aligned_cols=28 Identities=36% Similarity=0.784 Sum_probs=19.4
Q ss_pred CccccCCCcceeccCccc-eeecCCCCCCcc
Q 014873 187 RFCGHCGEKTIPKEAGKL-KQCSNASCKKRI 216 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~-~~C~~~~C~~~~ 216 (417)
+|||.||.-|.+..+... ..|. .|+.++
T Consensus 2 ~FCp~C~nlL~p~~~~~~~~~C~--~C~Y~~ 30 (35)
T PF02150_consen 2 RFCPECGNLLYPKEDKEKRVACR--TCGYEE 30 (35)
T ss_dssp -BETTTTSBEEEEEETTTTEEES--SSS-EE
T ss_pred eeCCCCCccceEcCCCccCcCCC--CCCCcc
Confidence 799999999988655432 2687 698764
No 107
>PF13869 NUDIX_2: Nucleotide hydrolase; PDB: 3MDG_B 2J8Q_B 3Q2S_A 3P5T_D 3BAP_A 2CL3_A 3P6Y_A 3Q2T_B 3BHO_A 3N9U_A ....
Probab=92.47 E-value=0.32 Score=45.27 Aligned_cols=42 Identities=26% Similarity=0.359 Sum_probs=31.3
Q ss_pred CCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCe
Q 014873 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIE 277 (417)
Q Consensus 233 ~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~ 277 (417)
--+|||.|.. ...|.||||.+.+||+-.+..+|.+.+-.|..
T Consensus 57 ~PHvLLLq~~---~~~fkLPGg~l~~gE~e~~gLkrkL~~~l~~~ 98 (188)
T PF13869_consen 57 HPHVLLLQIG---NTFFKLPGGRLRPGEDEIEGLKRKLTEKLSPE 98 (188)
T ss_dssp EEEEEEEEET---TTEEE-SEEE--TT--HHHHHHHHHHHHHB-S
T ss_pred CcEEEEEecc---CccccCCccEeCCCCChhHHHHHHHHHHcCCC
Confidence 3479998865 35899999999999999999999999999976
No 108
>COG4111 Uncharacterized conserved protein [General function prediction only]
Probab=89.74 E-value=3.1 Score=40.45 Aligned_cols=102 Identities=20% Similarity=0.168 Sum_probs=58.7
Q ss_pred EEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCC-CHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCC-CCCcEEE
Q 014873 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGE-SLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPN-SMPCQLM 301 (417)
Q Consensus 224 Vivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GE-tleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~-~~p~~l~ 301 (417)
|++.|.+ .+.+||-+++.. .||.|-.|++- |++..++-=|.+.|+...+.|..+.++.-.-..+ .-...+.
T Consensus 28 VvvAv~~-~~p~VLtV~q~~------aLP~GPfep~hrslq~glr~wV~~qT~~plGYiEQLYTF~Dr~R~~~~g~rvis 100 (322)
T COG4111 28 VVVAVTD-GGPRVLTVRQGA------ALPSGPFEPAHRSLQAGLRAWVEKQTSQPLGYIEQLYTFADRDRRNEGGMRVIS 100 (322)
T ss_pred EEEEEcC-CCceEEEecccc------cCCCCCCchHHHHHHHHHHHHHHHHhcCccchHHhhhhhccccccCcCCceEEE
Confidence 3444444 356888887653 29999999876 5666666667888998887665433221110001 1235788
Q ss_pred EEEEEEEecccccCCc--ccccceEEEehhhHH
Q 014873 302 VGFYAYAKSFEINVDK--EELEDARWHSREDVK 332 (417)
Q Consensus 302 i~f~a~~~~~~~~~~~--~E~~~a~Wf~~del~ 332 (417)
++|++......-.... .=...+.+|++++..
T Consensus 101 v~YLgLtr~~~~~~~~~a~W~~wy~yfPWED~R 133 (322)
T COG4111 101 VSYLGLTREAADSIHAGAHWADWYGYFPWEDHR 133 (322)
T ss_pred EEEeeecchhcccCCccccccchhccCCHhhhc
Confidence 9999886533221111 222345557777654
No 109
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=87.56 E-value=0.21 Score=31.36 Aligned_cols=10 Identities=50% Similarity=1.438 Sum_probs=5.6
Q ss_pred cCccccCCCc
Q 014873 186 SRFCGHCGEK 195 (417)
Q Consensus 186 ~~fC~~CG~~ 195 (417)
.+|||.||++
T Consensus 16 ~~fC~~CG~~ 25 (26)
T PF13248_consen 16 AKFCPNCGAK 25 (26)
T ss_pred cccChhhCCC
Confidence 4555555554
No 110
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=86.66 E-value=0.46 Score=29.43 Aligned_cols=24 Identities=29% Similarity=0.740 Sum_probs=20.9
Q ss_pred cccCCCcceeccCccceeecCCCCCC
Q 014873 189 CGHCGEKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (417)
|..||..+.+.+.+....|| .||+
T Consensus 1 C~sC~~~i~~r~~~v~f~CP--nCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCP--NCGF 24 (24)
T ss_pred CccCCCcccCcccCceEeCC--CCCC
Confidence 78999999988888999998 4985
No 111
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=84.97 E-value=0.42 Score=29.24 Aligned_cols=22 Identities=27% Similarity=0.815 Sum_probs=14.7
Q ss_pred ccccCCCcceeccCccceeecCCCCCCc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
|||+||+.+.. ....|+ .||..
T Consensus 1 ~Cp~CG~~~~~----~~~fC~--~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIED----DAKFCP--NCGTP 22 (23)
T ss_pred CCcccCCCCCC----cCcchh--hhCCc
Confidence 78999988843 244576 47753
No 112
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=83.62 E-value=0.75 Score=35.33 Aligned_cols=35 Identities=23% Similarity=0.585 Sum_probs=28.1
Q ss_pred HHhhhhccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 179 LLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 179 l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
+-.|+ +.+-||.||........++...|+ .||...
T Consensus 22 v~~~~-TSq~C~~CG~~~~~~~~~r~~~C~--~Cg~~~ 56 (69)
T PF07282_consen 22 VDEAY-TSQTCPRCGHRNKKRRSGRVFTCP--NCGFEM 56 (69)
T ss_pred ECCCC-CccCccCcccccccccccceEEcC--CCCCEE
Confidence 34455 789999999999886778899997 599873
No 113
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=83.53 E-value=1 Score=39.48 Aligned_cols=32 Identities=25% Similarity=0.625 Sum_probs=23.3
Q ss_pred HHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCC
Q 014873 173 AGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 173 ~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (417)
...|.+|. .+||.||.|+.. ..|.. .|| .|+.
T Consensus 21 l~GAkML~------~hCp~Cg~PLF~-KdG~v-~CP--vC~~ 52 (131)
T COG1645 21 LQGAKMLA------KHCPKCGTPLFR-KDGEV-FCP--VCGY 52 (131)
T ss_pred HhhhHHHH------hhCcccCCccee-eCCeE-ECC--CCCc
Confidence 34466664 589999999987 55544 597 5987
No 114
>KOG1689 consensus mRNA cleavage factor I subunit [RNA processing and modification]
Probab=83.43 E-value=2.9 Score=38.19 Aligned_cols=40 Identities=25% Similarity=0.363 Sum_probs=34.3
Q ss_pred CEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCC
Q 014873 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGI 276 (417)
Q Consensus 234 ~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl 276 (417)
.+|||.+-. .-.+-||||.+++||+-.+.+.|-+-|-+|-
T Consensus 84 PHvLLLQig---~tf~KLPGG~L~pGE~e~~Gl~r~l~~~Lgr 123 (221)
T KOG1689|consen 84 PHVLLLQIG---NTFFKLPGGRLRPGEDEADGLKRLLTESLGR 123 (221)
T ss_pred CeEEEEeeC---CEEEecCCCccCCCcchhHHHHHHHHHHhcc
Confidence 578887754 3578899999999999999999999999993
No 115
>KOG4548 consensus Mitochondrial ribosomal protein L17 [Translation, ribosomal structure and biogenesis]
Probab=83.28 E-value=6.2 Score=38.32 Aligned_cols=103 Identities=16% Similarity=0.181 Sum_probs=62.3
Q ss_pred CEEEEEEecCCCCCcEEeeeeec-cCCCCHHHHHHHHHHHHhCCeeccEEEEEEeecCCCCCCCCc---------EEEEE
Q 014873 234 DRVLLSRQSRFVPRMWSCIAGFI-EPGESLEEAVRRETWEETGIEVGEVVYHTSQPWPVGPNSMPC---------QLMVG 303 (417)
Q Consensus 234 ~kVLL~rr~~~~~g~WslPgG~V-E~GEtleeAa~REv~EEtGl~v~~v~~~~s~~~~~~~~~~p~---------~l~i~ 303 (417)
.=+||+++.-...+.|-+|-+-. +.++++...|.|++.+-.|=.. ..-+++..|....+-..|+ .-...
T Consensus 139 ~LyLLV~~k~g~~s~w~fP~~~~s~~~~~lr~~ae~~Lk~~~ge~~-~t~fvgnaP~g~~~~q~pr~~~~e~~~~sk~ff 217 (263)
T KOG4548|consen 139 KLYLLVKRKFGKSSVWIFPNRQFSSSEKTLRGHAERDLKVLSGENK-STWFVGNAPFGHTPLQSPREMTTEEPVSSKVFF 217 (263)
T ss_pred eEEEEEeeccCccceeeCCCcccCCccchHHHHHHHHHHHHhcchh-hhheeccCccccccccCcccccccccccceeEE
Confidence 44677775523346899999999 9999999999999999888553 2234444433211111121 11222
Q ss_pred EEEEEecccccCCcccccceEEEehhhHHHHhhhh
Q 014873 304 FYAYAKSFEINVDKEELEDARWHSREDVKKALTFA 338 (417)
Q Consensus 304 f~a~~~~~~~~~~~~E~~~a~Wf~~del~~~L~~~ 338 (417)
|.+...... ..+..-.+++.|++-+++.+.+...
T Consensus 218 ~k~~lv~~~-~~kn~n~edfvWvTkdel~e~l~~~ 251 (263)
T KOG4548|consen 218 FKASLVANS-NQKNQNKEDFVWVTKDELGEKLPKF 251 (263)
T ss_pred eeeeecccc-chhcccccceEEechHHHhhhcchH
Confidence 223322221 1122445679999999999977643
No 116
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=82.81 E-value=1.5 Score=30.82 Aligned_cols=33 Identities=27% Similarity=0.686 Sum_probs=23.9
Q ss_pred HHHhhhhccCccccCCCcceeccCccceeecCCCCC
Q 014873 178 ALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (417)
Q Consensus 178 ~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (417)
.|..|.-...+||.||.|+.....| +..|+ .|+
T Consensus 9 LL~G~~ML~~~Cp~C~~PL~~~k~g-~~~Cv--~C~ 41 (41)
T PF06677_consen 9 LLQGWTMLDEHCPDCGTPLMRDKDG-KIYCV--SCG 41 (41)
T ss_pred HHHhHhHhcCccCCCCCeeEEecCC-CEECC--CCC
Confidence 3445666679999999999875555 56787 574
No 117
>PF12773 DZR: Double zinc ribbon
Probab=82.15 E-value=0.81 Score=32.86 Aligned_cols=32 Identities=28% Similarity=0.639 Sum_probs=23.4
Q ss_pred hccCccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
...+||+.||.++. ........|+ .|+....+
T Consensus 10 ~~~~fC~~CG~~l~-~~~~~~~~C~--~Cg~~~~~ 41 (50)
T PF12773_consen 10 DDAKFCPHCGTPLP-PPDQSKKICP--NCGAENPP 41 (50)
T ss_pred ccccCChhhcCChh-hccCCCCCCc--CCcCCCcC
Confidence 34689999999997 3445567797 59886443
No 118
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=81.45 E-value=1.2 Score=32.23 Aligned_cols=35 Identities=26% Similarity=0.470 Sum_probs=24.0
Q ss_pred HHHhhhhccCccccCCCcc--------eeccCccceeecCCCCCCc
Q 014873 178 ALLEWHNVSRFCGHCGEKT--------IPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 178 ~l~~W~~~~~fC~~CG~~~--------~~~~~g~~~~C~~~~C~~~ 215 (417)
..+.-.+.+-+||.||.-- ...+...+|.|. ||+.
T Consensus 5 ~~~~L~~kY~~Cp~CGN~~vGngEG~liV~edtfkRtCk---CGfn 47 (49)
T PF12677_consen 5 KTLKLSNKYCKCPKCGNDKVGNGEGTLIVEEDTFKRTCK---CGFN 47 (49)
T ss_pred hhcchhhhhccCcccCCcEeecCcceEEEeccceeeeec---cccc
Confidence 3344455689999999764 334556899995 8874
No 119
>PRK10880 adenine DNA glycosylase; Provisional
Probab=81.31 E-value=4.3 Score=41.53 Aligned_cols=38 Identities=21% Similarity=0.231 Sum_probs=26.2
Q ss_pred CCEEEEEEecC--CCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCe
Q 014873 233 NDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIE 277 (417)
Q Consensus 233 ~~kVLL~rr~~--~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~ 277 (417)
++++||.||.. ...|+|++|.. +. ++ ..++..|+.|+.
T Consensus 241 ~~~~~l~~r~~~gl~~gl~~fP~~--~~----~~-~~~~~~~~~~~~ 280 (350)
T PRK10880 241 GDEVWLEQRPPSGLWGGLFCFPQF--AD----EE-ELRQWLAQRGIA 280 (350)
T ss_pred CCEEEEEECCccChhhccccCCCC--cc----hh-hHHHHHHhcCCc
Confidence 68999999873 56899999962 32 11 245556778875
No 120
>KOG4432 consensus Uncharacterized NUDIX family hydrolase [General function prediction only]
Probab=81.12 E-value=3.1 Score=41.32 Aligned_cols=84 Identities=23% Similarity=0.188 Sum_probs=53.3
Q ss_pred EEeeeeeccCCCCHHHHHHHHHHHHhCCeec--cEEEEEEeecC-CCCCCCCcEEEEEEEEEEecc------cccCCccc
Q 014873 249 WSCIAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWP-VGPNSMPCQLMVGFYAYAKSF------EINVDKEE 319 (417)
Q Consensus 249 WslPgG~VE~GEtleeAa~REv~EEtGl~v~--~v~~~~s~~~~-~~~~~~p~~l~i~f~a~~~~~------~~~~~~~E 319 (417)
.+|.+|.|+..-+..+-++||..||.|.++. .++.+..+ |+ .+.++ ..+.| |++.+.+. --..+++|
T Consensus 286 lELcag~Vd~p~s~~e~a~~e~veecGYdlp~~~~k~va~y-~sGVG~SG-~~QTm--fy~eVTdA~rsgpGgg~~ee~E 361 (405)
T KOG4432|consen 286 LELCAGRVDDPFSDPEKAARESVEECGYDLPEDSFKLVAKY-ISGVGQSG-DTQTM--FYVEVTDARRSGPGGGEKEEDE 361 (405)
T ss_pred eeeecccCCCCcccHHHHHHHHHHHhCCCCCHHHHhhhhee-ecccCCcC-CeeEE--EEEEeehhhccCCCCCcccccc
Confidence 4577999998899999999999999999873 33333322 22 23222 12333 44444321 12234567
Q ss_pred ccceEEEehhhHHHHhh
Q 014873 320 LEDARWHSREDVKKALT 336 (417)
Q Consensus 320 ~~~a~Wf~~del~~~L~ 336 (417)
+.+..-+++++++.+..
T Consensus 362 ~IEvv~lsle~a~~~~~ 378 (405)
T KOG4432|consen 362 DIEVVRLSLEDAPSLYR 378 (405)
T ss_pred eeeEEEechhhhhHHHh
Confidence 77888899999998543
No 121
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=80.57 E-value=1.5 Score=28.70 Aligned_cols=28 Identities=36% Similarity=0.943 Sum_probs=14.8
Q ss_pred CccccCCCcce-e--ccCc--cceeecCCCCCC
Q 014873 187 RFCGHCGEKTI-P--KEAG--KLKQCSNASCKK 214 (417)
Q Consensus 187 ~fC~~CG~~~~-~--~~~g--~~~~C~~~~C~~ 214 (417)
..||.||-... + .+.| ...+|++|.|..
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvfrcsnpacdy 34 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVFRCSNPACDY 34 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEEEES-TT---
T ss_pred ccCCccCceEEEEeecCCCcEEEEEcCCCcccc
Confidence 36999997752 2 2333 577899988865
No 122
>PRK13844 recombination protein RecR; Provisional
Probab=80.10 E-value=1.4 Score=41.56 Aligned_cols=91 Identities=15% Similarity=0.173 Sum_probs=61.8
Q ss_pred HHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEe
Q 014873 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (417)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~Wsl 251 (417)
+-.-|.+|.+=+.+.++|+.||.-+. .+ .|+ -|.... -+.-++++|-+. ..++-..+.+.+.|.|-.
T Consensus 43 ~~~la~~i~~~~~~i~~C~~C~~lte---~~---~C~--IC~d~~---Rd~~~iCVVE~~--~Dv~aiE~t~~y~G~YhV 109 (200)
T PRK13844 43 AIAIANSLLDATANIKKCVYCQALTE---DD---VCN--ICSNTN---RDDTKLCIIESM--LDMIAIEEAGIYRGKYFV 109 (200)
T ss_pred HHHHHHHHHHHHHhCCcCCCCCCCCC---CC---CCC--CCCCCC---CCCCEEEEECCH--HHHHHHHhhCccceEEEE
Confidence 34458899999999999999998774 22 343 343322 233445555443 345555666678899999
Q ss_pred eeeeccC--CCCHHHHHHHHHHHHhC
Q 014873 252 IAGFIEP--GESLEEAVRRETWEETG 275 (417)
Q Consensus 252 PgG~VE~--GEtleeAa~REv~EEtG 275 (417)
.+|.+.| |..+++--..++.+-..
T Consensus 110 L~G~ispl~gi~p~~l~i~~L~~Ri~ 135 (200)
T PRK13844 110 LNGRISPLDGIGPSELKLDILQQIIA 135 (200)
T ss_pred ccCccCccCCCChhhcCHHHHHHHHh
Confidence 9999985 66777777777776643
No 123
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=79.98 E-value=1.2 Score=38.22 Aligned_cols=29 Identities=34% Similarity=0.738 Sum_probs=23.5
Q ss_pred cCccccCCCcceecc--CccceeecCCCCCCcc
Q 014873 186 SRFCGHCGEKTIPKE--AGKLKQCSNASCKKRI 216 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~--~g~~~~C~~~~C~~~~ 216 (417)
.+|||.||+-|.+.. .+....|. +||...
T Consensus 2 m~FCp~Cgsll~p~~~~~~~~l~C~--kCgye~ 32 (113)
T COG1594 2 MRFCPKCGSLLYPKKDDEGGKLVCR--KCGYEE 32 (113)
T ss_pred ccccCCccCeeEEeEcCCCcEEECC--CCCcch
Confidence 589999999998864 45689997 698764
No 124
>PRK00420 hypothetical protein; Validated
Probab=79.74 E-value=1.7 Score=37.25 Aligned_cols=27 Identities=26% Similarity=0.442 Sum_probs=20.6
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
...||.||.++.....| ..+|| .||..
T Consensus 23 ~~~CP~Cg~pLf~lk~g-~~~Cp--~Cg~~ 49 (112)
T PRK00420 23 SKHCPVCGLPLFELKDG-EVVCP--VHGKV 49 (112)
T ss_pred cCCCCCCCCcceecCCC-ceECC--CCCCe
Confidence 38999999999875444 56797 59763
No 125
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=79.60 E-value=1.8 Score=30.71 Aligned_cols=27 Identities=33% Similarity=0.679 Sum_probs=21.3
Q ss_pred ccccCCCcceeccCccceeecCCCCCCcc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
-|+.||..+..........|+ .||...
T Consensus 5 ~C~~CG~~~~~~~~~~~~~Cp--~CG~~~ 31 (46)
T PRK00398 5 KCARCGREVELDEYGTGVRCP--YCGYRI 31 (46)
T ss_pred ECCCCCCEEEECCCCCceECC--CCCCeE
Confidence 599999998776665588897 699753
No 126
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=78.41 E-value=1.1 Score=41.87 Aligned_cols=92 Identities=22% Similarity=0.385 Sum_probs=62.2
Q ss_pred HHHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEE
Q 014873 171 AIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWS 250 (417)
Q Consensus 171 ~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~Ws 250 (417)
.+-.-|.+|.+=..+.++|+.||.-+.. . .|. -|... +-|.-++++|-.. ..|+...+.+.+.|.|-
T Consensus 39 ~~~~la~al~~a~~~i~~C~~C~~~te~---d---~C~--ICsd~---~Rd~~~icVVe~p--~Dv~a~E~~~~f~G~Yh 105 (198)
T COG0353 39 DVERLAKALLEAKENIKHCSVCGNLTES---D---PCD--ICSDE---SRDKSQLCVVEEP--KDVLALEKTGEFRGLYH 105 (198)
T ss_pred HHHHHHHHHHHHHhcCccccccCCcCCC---C---cCc--CcCCc---ccCCceEEEEcch--HHHHHHHHhcccCeeEE
Confidence 3445588999999999999999987743 2 343 34332 2244455555443 34555566667889999
Q ss_pred eeeeeccC--CCCHHHHHHHHHHHHhC
Q 014873 251 CIAGFIEP--GESLEEAVRRETWEETG 275 (417)
Q Consensus 251 lPgG~VE~--GEtleeAa~REv~EEtG 275 (417)
..+|.+.| |=.+++--.+++.+...
T Consensus 106 VL~G~lspl~gigpe~l~i~~L~~Rl~ 132 (198)
T COG0353 106 VLGGLLSPLDGIGPEDLNIDELLQRLA 132 (198)
T ss_pred EecCccCcccCCCcccccHHHHHHHHh
Confidence 99999996 44677777777766654
No 127
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=77.54 E-value=1.1 Score=43.19 Aligned_cols=38 Identities=29% Similarity=0.632 Sum_probs=16.9
Q ss_pred HHHH-HhhhhccCccccCCCc-ceeccCc---cceeecCCCCCCc
Q 014873 176 ARAL-LEWHNVSRFCGHCGEK-TIPKEAG---KLKQCSNASCKKR 215 (417)
Q Consensus 176 A~~l-~~W~~~~~fC~~CG~~-~~~~~~g---~~~~C~~~~C~~~ 215 (417)
||-| -.|-.++.|||.||+. +...... -...|+ .|+..
T Consensus 20 aRVltE~Wv~~n~yCP~Cg~~~L~~f~NN~PVaDF~C~--~C~ee 62 (254)
T PF06044_consen 20 ARVLTEDWVAENMYCPNCGSKPLSKFENNRPVADFYCP--NCNEE 62 (254)
T ss_dssp HHHHHHHHHHHH---TTT--SS-EE--------EEE-T--TT--E
T ss_pred hHHHHHHHHHHCCcCCCCCChhHhhccCCCccceeECC--CCchH
Confidence 4444 4699999999999999 5444333 456787 58754
No 128
>PRK00076 recR recombination protein RecR; Reviewed
Probab=77.44 E-value=2.4 Score=39.87 Aligned_cols=90 Identities=23% Similarity=0.355 Sum_probs=60.3
Q ss_pred HHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEe
Q 014873 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (417)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~Wsl 251 (417)
+..-|.+|.+=+.+.++|+.||.-+.. . .|+ -|.... -+.-++++|-+. ..|+-..+.+.+.|.|-.
T Consensus 39 ~~~la~~i~~~~~~i~~C~~C~~lse~---~---~C~--IC~d~~---Rd~~~icVVE~~--~Dv~aiE~s~~y~G~YhV 105 (196)
T PRK00076 39 VLRLAQALEEAKEKIKHCSVCGNLTEQ---D---PCE--ICSDPR---RDQSLICVVESP--ADVLAIERTGEYRGLYHV 105 (196)
T ss_pred HHHHHHHHHHHHHcCCcCCCCCCcCCC---C---cCC--CCCCCC---CCCCEEEEECCH--HHHHHHHhhCcCceEEEE
Confidence 444588999999999999999987742 2 343 343332 234455555443 345666666678899999
Q ss_pred eeeeccC--CCCHHHHHHHHHHHHh
Q 014873 252 IAGFIEP--GESLEEAVRRETWEET 274 (417)
Q Consensus 252 PgG~VE~--GEtleeAa~REv~EEt 274 (417)
.+|.+.| |-.+++--..++.+-.
T Consensus 106 L~G~ispl~gi~p~~l~i~~L~~ri 130 (196)
T PRK00076 106 LGGLLSPLDGIGPEDLNIDELLERL 130 (196)
T ss_pred ecCCcCCCCCCCccccCHHHHHHHH
Confidence 9999986 5556655556666655
No 129
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=77.00 E-value=3.8 Score=34.05 Aligned_cols=28 Identities=32% Similarity=0.725 Sum_probs=21.8
Q ss_pred CccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
+|||.||..+.+. +....|+ .|+.....
T Consensus 1 ~fC~~Cg~~l~~~--~~~~~C~--~C~~~~~~ 28 (104)
T TIGR01384 1 KFCPKCGSLMTPK--NGVYVCP--SCGYEKEK 28 (104)
T ss_pred CCCcccCcccccC--CCeEECc--CCCCcccc
Confidence 5999999999764 3468897 69987554
No 130
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=76.78 E-value=0.49 Score=35.83 Aligned_cols=26 Identities=27% Similarity=0.727 Sum_probs=19.6
Q ss_pred ccCccccCCCcceeccCccceeecCCCCCCc
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
.|++|+.||.+..+ ....|+ +.|+..
T Consensus 2 ~HkHC~~CG~~Ip~----~~~fCS-~~C~~~ 27 (59)
T PF09889_consen 2 PHKHCPVCGKPIPP----DESFCS-PKCREE 27 (59)
T ss_pred CCCcCCcCCCcCCc----chhhhC-HHHHHH
Confidence 58999999999865 366786 367654
No 131
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=76.66 E-value=2.1 Score=30.73 Aligned_cols=29 Identities=31% Similarity=0.685 Sum_probs=20.1
Q ss_pred ccccCCCcceeccC--------ccceeecCCCCCCcc
Q 014873 188 FCGHCGEKTIPKEA--------GKLKQCSNASCKKRI 216 (417)
Q Consensus 188 fC~~CG~~~~~~~~--------g~~~~C~~~~C~~~~ 216 (417)
+||.||++...... ..--+|.|+.||...
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~Cg~tf 37 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPECGHTF 37 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCcCCCEE
Confidence 59999999865422 234458887888764
No 132
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.04 E-value=2.6 Score=39.63 Aligned_cols=90 Identities=24% Similarity=0.362 Sum_probs=60.8
Q ss_pred HHHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEe
Q 014873 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (417)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~Wsl 251 (417)
+-.-|.+|.+=+.+.++|+.||.-+. .. .|+ -|.... -+.-++++|-+. ..|+-..+.+.+.|.|-.
T Consensus 39 ~~~la~ai~~~~~~i~~C~~C~~lse---~~---~C~--IC~d~~---Rd~~~iCVVE~~--~Dv~aiE~~~~y~G~YhV 105 (195)
T TIGR00615 39 VLRLAQALLEAKENLRTCSVCGAISD---QE---VCN--ICSDER---RDNSVICVVEDP--KDVFALEKTKEFRGRYHV 105 (195)
T ss_pred HHHHHHHHHHHHHcCCcCCCCCCCCC---CC---cCC--CCCCCC---CCCCEEEEECCH--HHHHHHHhhCccceEEEE
Confidence 44458889999999999999997663 22 343 343322 234445555443 345555666678899999
Q ss_pred eeeeccC--CCCHHHHHHHHHHHHh
Q 014873 252 IAGFIEP--GESLEEAVRRETWEET 274 (417)
Q Consensus 252 PgG~VE~--GEtleeAa~REv~EEt 274 (417)
.+|.+.| |..+++--..++.+-.
T Consensus 106 L~G~iSPldgigp~~l~i~~L~~Ri 130 (195)
T TIGR00615 106 LGGHISPLDGIGPEDLTIAALLKRL 130 (195)
T ss_pred ccCccCccCCCChhhcCHHHHHHHH
Confidence 9999996 5667777677776654
No 133
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=74.92 E-value=2.4 Score=33.48 Aligned_cols=30 Identities=20% Similarity=0.554 Sum_probs=20.9
Q ss_pred CccccCCCcceecc--------CccceeecCCCCCCcc
Q 014873 187 RFCGHCGEKTIPKE--------AGKLKQCSNASCKKRI 216 (417)
Q Consensus 187 ~fC~~CG~~~~~~~--------~g~~~~C~~~~C~~~~ 216 (417)
.+||.||++..... .....+|.|..||...
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~eCg~tF 39 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDTTKERYHQCQNVNCSATF 39 (72)
T ss_pred ccCCCCCCccEEEEChhcChhhheeeeecCCCCCCCEE
Confidence 47999999974432 1356668877898764
No 134
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=72.56 E-value=3.3 Score=28.52 Aligned_cols=31 Identities=32% Similarity=0.643 Sum_probs=21.3
Q ss_pred CccccCCCcceecc--CccceeecC-CCCCCccc
Q 014873 187 RFCGHCGEKTIPKE--AGKLKQCSN-ASCKKRIY 217 (417)
Q Consensus 187 ~fC~~CG~~~~~~~--~g~~~~C~~-~~C~~~~y 217 (417)
+.||.||+.|.... .|.-..|++ |.|..+..
T Consensus 2 ~~CP~Cg~~lv~r~~k~g~F~~Cs~yP~C~~~~~ 35 (39)
T PF01396_consen 2 EKCPKCGGPLVLRRGKKGKFLGCSNYPECKYTEP 35 (39)
T ss_pred cCCCCCCceeEEEECCCCCEEECCCCCCcCCeEe
Confidence 46999999997653 345566876 56766543
No 135
>smart00532 LIGANc Ligase N family.
Probab=71.81 E-value=2.6 Score=44.50 Aligned_cols=29 Identities=24% Similarity=0.607 Sum_probs=24.4
Q ss_pred cCccccCCCcceeccCccceeecCCCCCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (417)
-.+||.||+++....++...+|+|+.|..
T Consensus 399 P~~CP~C~s~l~~~~~~~~~~C~n~~C~a 427 (441)
T smart00532 399 PTHCPSCGSELVREEGEVDIRCPNPLCPA 427 (441)
T ss_pred CCCCCCCCCEeEecCCceEEEeCCCCCHH
Confidence 48999999999877777888899877854
No 136
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=70.66 E-value=2.6 Score=39.13 Aligned_cols=30 Identities=17% Similarity=0.533 Sum_probs=24.6
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPR 219 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr 219 (417)
+-.|++||++|.. .+....|| .|+.+.-.+
T Consensus 149 ~A~CsrC~~~L~~--~~~~l~Cp--~Cg~tEkRK 178 (188)
T COG1096 149 YARCSRCRAPLVK--KGNMLKCP--NCGNTEKRK 178 (188)
T ss_pred EEEccCCCcceEE--cCcEEECC--CCCCEEeee
Confidence 4689999999987 88899998 599876443
No 137
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=68.50 E-value=3.2 Score=45.97 Aligned_cols=28 Identities=25% Similarity=0.663 Sum_probs=24.0
Q ss_pred CccccCCCcceeccCccceeecCCCCCC
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (417)
.+||.||+++...+++...+|+++.|..
T Consensus 393 ~~CP~C~s~l~~~~~~~~~~C~n~~C~a 420 (652)
T TIGR00575 393 THCPSCGSPLVKIEEEAVIRCPNLNCPA 420 (652)
T ss_pred CCCCCCCCEeEecCCcEEEEECCCCCHH
Confidence 6899999999887778888999878954
No 138
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=67.90 E-value=3.8 Score=34.15 Aligned_cols=27 Identities=26% Similarity=0.607 Sum_probs=20.1
Q ss_pred CccccCCCcceeccCc--cceeecCCCCCCc
Q 014873 187 RFCGHCGEKTIPKEAG--KLKQCSNASCKKR 215 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g--~~~~C~~~~C~~~ 215 (417)
.|||.||.-+....++ .+..|. .|..+
T Consensus 2 ~FCP~Cgn~Live~g~~~~rf~C~--tCpY~ 30 (105)
T KOG2906|consen 2 LFCPTCGNMLIVESGESCNRFSCR--TCPYV 30 (105)
T ss_pred cccCCCCCEEEEecCCeEeeEEcC--CCCce
Confidence 5999999999876665 466675 57544
No 139
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=67.47 E-value=3.3 Score=27.97 Aligned_cols=28 Identities=21% Similarity=0.485 Sum_probs=20.3
Q ss_pred ccccCCCcceec-----cCccceeecCCCCCCccc
Q 014873 188 FCGHCGEKTIPK-----EAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 188 fC~~CG~~~~~~-----~~g~~~~C~~~~C~~~~y 217 (417)
-||+||+..... ..+....|+ .|+...+
T Consensus 4 ~CP~C~~~~~v~~~~~~~~~~~v~C~--~C~~~~~ 36 (38)
T TIGR02098 4 QCPNCKTSFRVVDSQLGANGGKVRCG--KCGHVWY 36 (38)
T ss_pred ECCCCCCEEEeCHHHcCCCCCEEECC--CCCCEEE
Confidence 499999987543 234578897 6998765
No 140
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=66.07 E-value=4.9 Score=40.37 Aligned_cols=40 Identities=23% Similarity=0.478 Sum_probs=26.5
Q ss_pred hhhccCccccCCCcceec--------cCccceeecCCCCCCc-ccCCcCcE
Q 014873 182 WHNVSRFCGHCGEKTIPK--------EAGKLKQCSNASCKKR-IYPRVDPV 223 (417)
Q Consensus 182 W~~~~~fC~~CG~~~~~~--------~~g~~~~C~~~~C~~~-~ypr~~pv 223 (417)
|.....+||.||+.-... ++.+...|. -|++. +|.|+.+.
T Consensus 180 ~~~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~Cs--lC~teW~~~R~~C~ 228 (305)
T TIGR01562 180 TRESRTLCPACGSPPVASMVRQGGKETGLRYLSCS--LCATEWHYVRVKCS 228 (305)
T ss_pred ccCCCCcCCCCCChhhhhhhcccCCCCCceEEEcC--CCCCcccccCccCC
Confidence 444567999999986321 233666786 69887 67776654
No 141
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=65.72 E-value=5.9 Score=27.64 Aligned_cols=26 Identities=27% Similarity=0.539 Sum_probs=17.8
Q ss_pred ccccCCCccee-ccCccceeecCCCCCCc
Q 014873 188 FCGHCGEKTIP-KEAGKLKQCSNASCKKR 215 (417)
Q Consensus 188 fC~~CG~~~~~-~~~g~~~~C~~~~C~~~ 215 (417)
.||.||+.... ........|+ .||.+
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~--~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCP--NCGLV 28 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEET--TT-BB
T ss_pred CCcCCcCCceEEcCCCCeEECC--CCCCE
Confidence 69999998743 3344566897 69875
No 142
>PRK11827 hypothetical protein; Provisional
Probab=65.04 E-value=4.2 Score=30.91 Aligned_cols=34 Identities=18% Similarity=0.211 Sum_probs=25.7
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccCCcCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDP 222 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p 222 (417)
.--||.|.+++..........|. .|+ ..||-.+.
T Consensus 8 ILaCP~ckg~L~~~~~~~~Lic~--~~~-laYPI~dg 41 (60)
T PRK11827 8 IIACPVCNGKLWYNQEKQELICK--LDN-LAFPLRDG 41 (60)
T ss_pred heECCCCCCcCeEcCCCCeEECC--ccC-eeccccCC
Confidence 35699999999887777788897 575 66775554
No 143
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=64.81 E-value=4 Score=34.75 Aligned_cols=30 Identities=27% Similarity=0.572 Sum_probs=20.3
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
-|.||.||++..-.+. .--+|| .||..+=+
T Consensus 9 KR~Cp~CG~kFYDLnk-~PivCP--~CG~~~~~ 38 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLNK-DPIVCP--KCGTEFPP 38 (108)
T ss_pred cccCCCCcchhccCCC-CCccCC--CCCCccCc
Confidence 4788888888765444 445586 68877643
No 144
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=63.65 E-value=4.8 Score=34.53 Aligned_cols=22 Identities=32% Similarity=0.798 Sum_probs=17.7
Q ss_pred cccCCCcceeccCccceeecCCCCCCcc
Q 014873 189 CGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
||.||+++.. .+..|+ +|+...
T Consensus 1 CPvCg~~l~v----t~l~C~--~C~t~i 22 (113)
T PF09862_consen 1 CPVCGGELVV----TRLKCP--SCGTEI 22 (113)
T ss_pred CCCCCCceEE----EEEEcC--CCCCEE
Confidence 9999999976 478897 597653
No 145
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=63.61 E-value=4.2 Score=36.44 Aligned_cols=49 Identities=18% Similarity=0.421 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhhhhc------cCccccCCCcceeccCccceeecCCCCCCcccCCc
Q 014873 170 LAIAGHARALLEWHNV------SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (417)
Q Consensus 170 ~~~~~~A~~l~~W~~~------~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (417)
..++..+.+--.++.- .-.|-+||..+.....+.-..|| .|+...|-|.
T Consensus 90 ~el~~d~~h~g~Y~sGE~~g~G~l~C~~Cg~~~~~~~~~~l~~Cp--~C~~~~F~R~ 144 (146)
T PF07295_consen 90 AELAQDLEHHGVYHSGEVVGPGTLVCENCGHEVELTHPERLPPCP--KCGHTEFTRQ 144 (146)
T ss_pred HHHHHHHHhcCCeecCcEecCceEecccCCCEEEecCCCcCCCCC--CCCCCeeeeC
Confidence 3344444444444433 46799999999988888899997 6999999774
No 146
>PHA00626 hypothetical protein
Probab=63.47 E-value=6.5 Score=29.44 Aligned_cols=28 Identities=29% Similarity=0.532 Sum_probs=19.1
Q ss_pred CccccCCCcceeccC-----ccceeecCCCCCCcc
Q 014873 187 RFCGHCGEKTIPKEA-----GKLKQCSNASCKKRI 216 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~-----g~~~~C~~~~C~~~~ 216 (417)
..||.||+......+ ..+-.|+ .||+.+
T Consensus 1 m~CP~CGS~~Ivrcg~cr~~snrYkCk--dCGY~f 33 (59)
T PHA00626 1 MSCPKCGSGNIAKEKTMRGWSDDYVCC--DCGYND 33 (59)
T ss_pred CCCCCCCCceeeeeceecccCcceEcC--CCCCee
Confidence 369999997554322 3566797 699865
No 147
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=63.13 E-value=4.9 Score=25.33 Aligned_cols=23 Identities=26% Similarity=0.666 Sum_probs=15.9
Q ss_pred CccccCCCcceeccCccceeecCCCCCCc
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
+.||.||+.+. ...+.|+ .||+.
T Consensus 1 K~CP~C~~~V~----~~~~~Cp--~CG~~ 23 (26)
T PF10571_consen 1 KTCPECGAEVP----ESAKFCP--HCGYD 23 (26)
T ss_pred CcCCCCcCCch----hhcCcCC--CCCCC
Confidence 46888988773 2456786 58865
No 148
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=62.65 E-value=6.9 Score=27.75 Aligned_cols=35 Identities=23% Similarity=0.581 Sum_probs=23.8
Q ss_pred HHHHhhhhccCccccCCCcceeccC-ccceeecCCCCCC
Q 014873 177 RALLEWHNVSRFCGHCGEKTIPKEA-GKLKQCSNASCKK 214 (417)
Q Consensus 177 ~~l~~W~~~~~fC~~CG~~~~~~~~-g~~~~C~~~~C~~ 214 (417)
..-+.|-.. ..||+||+....... ..+..|. .|+.
T Consensus 10 l~~~RW~~g-~~CP~Cg~~~~~~~~~~~~~~C~--~C~~ 45 (46)
T PF12760_consen 10 LEEIRWPDG-FVCPHCGSTKHYRLKTRGRYRCK--ACRK 45 (46)
T ss_pred HHHhcCCCC-CCCCCCCCeeeEEeCCCCeEECC--CCCC
Confidence 344678887 449999997544333 4777887 5875
No 149
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=61.89 E-value=4.9 Score=44.65 Aligned_cols=28 Identities=29% Similarity=0.719 Sum_probs=23.4
Q ss_pred CccccCCCcceeccCccceeecCC-CCCC
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNA-SCKK 214 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~-~C~~ 214 (417)
.+||.||+++....++...+|+++ .|..
T Consensus 405 ~~CP~Cgs~l~~~~~~~~~~C~n~~~C~a 433 (665)
T PRK07956 405 THCPVCGSELVRVEGEAVLRCTNGLSCPA 433 (665)
T ss_pred CCCCCCCCEeEecCCCeEEECCCCCCCHH
Confidence 689999999987777888899975 4954
No 150
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=61.67 E-value=4.7 Score=44.35 Aligned_cols=33 Identities=21% Similarity=0.618 Sum_probs=27.4
Q ss_pred cCccccCCCcceeccCccceeecC-CCCCCcccC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSN-ASCKKRIYP 218 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~-~~C~~~~yp 218 (417)
-.+||.||+++...+++...+|+| ..|......
T Consensus 404 P~~CP~C~s~l~r~~~e~~~rC~n~~~C~aq~~e 437 (667)
T COG0272 404 PTHCPVCGSELVREEGEVVIRCTNGLNCPAQLKE 437 (667)
T ss_pred CCCCCCCCCeeEeccCceeEecCCCCCChHHHhh
Confidence 478999999999988899999998 579765443
No 151
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=61.59 E-value=3.3 Score=32.75 Aligned_cols=13 Identities=38% Similarity=1.086 Sum_probs=5.1
Q ss_pred cCccccCCCccee
Q 014873 186 SRFCGHCGEKTIP 198 (417)
Q Consensus 186 ~~fC~~CG~~~~~ 198 (417)
-.|||.||.++..
T Consensus 24 k~FCp~CGn~TL~ 36 (73)
T PF08772_consen 24 KQFCPKCGNATLK 36 (73)
T ss_dssp --S-SSS--S--E
T ss_pred ceeCcccCCCcce
Confidence 4899999999753
No 152
>PRK11032 hypothetical protein; Provisional
Probab=61.51 E-value=4.7 Score=36.69 Aligned_cols=33 Identities=18% Similarity=0.416 Sum_probs=29.1
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccCCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (417)
.--|-+||..+.....+.-..|| .|+...|-|.
T Consensus 124 ~LvC~~Cg~~~~~~~p~~i~pCp--~C~~~~F~R~ 156 (160)
T PRK11032 124 NLVCEKCHHHLAFYTPEVLPLCP--KCGHDQFQRR 156 (160)
T ss_pred eEEecCCCCEEEecCCCcCCCCC--CCCCCeeeeC
Confidence 35799999999999999999998 6999999874
No 153
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=61.09 E-value=11 Score=37.89 Aligned_cols=37 Identities=22% Similarity=0.521 Sum_probs=25.0
Q ss_pred ccCccccCCCcceec-------cCccceeecCCCCCCc-ccCCcCcE
Q 014873 185 VSRFCGHCGEKTIPK-------EAGKLKQCSNASCKKR-IYPRVDPV 223 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~-------~~g~~~~C~~~~C~~~-~ypr~~pv 223 (417)
...+||.||+.-... .+.+...|. -|++. +|+|+.+.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~Cs--lC~teW~~~R~~C~ 230 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCN--LCESEWHVVRVKCS 230 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcC--CCCCcccccCccCC
Confidence 458999999985321 233666786 69887 67776654
No 154
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=60.76 E-value=4 Score=45.08 Aligned_cols=14 Identities=43% Similarity=0.987 Sum_probs=11.0
Q ss_pred hccCccccCCCcce
Q 014873 184 NVSRFCGHCGEKTI 197 (417)
Q Consensus 184 ~~~~fC~~CG~~~~ 197 (417)
...+||++||.++.
T Consensus 13 ~~akFC~~CG~~l~ 26 (645)
T PRK14559 13 NNNRFCQKCGTSLT 26 (645)
T ss_pred CCCccccccCCCCC
Confidence 45689999998874
No 155
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=59.35 E-value=5.7 Score=25.96 Aligned_cols=26 Identities=31% Similarity=0.676 Sum_probs=14.0
Q ss_pred CccccCCCcceeccCccceeecCCCCCCc
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
.-||.||+.... .++...+|+ .|+..
T Consensus 3 p~Cp~C~se~~y-~D~~~~vCp--~C~~e 28 (30)
T PF08274_consen 3 PKCPLCGSEYTY-EDGELLVCP--ECGHE 28 (30)
T ss_dssp ---TTT-----E-E-SSSEEET--TTTEE
T ss_pred CCCCCCCCccee-ccCCEEeCC--ccccc
Confidence 459999999876 677888997 69865
No 156
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=58.87 E-value=3.7 Score=42.81 Aligned_cols=37 Identities=22% Similarity=0.502 Sum_probs=29.3
Q ss_pred HHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 177 RALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 177 ~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
..|..|...+--||.||+.|.....+ -.+|+ .||...
T Consensus 341 ~~l~~~~~~~p~Cp~Cg~~m~S~G~~-g~rC~--kCg~~~ 377 (421)
T COG1571 341 LKLARYERVNPVCPRCGGRMKSAGRN-GFRCK--KCGTRA 377 (421)
T ss_pred EEeeeeEEcCCCCCccCCchhhcCCC-Ccccc--cccccC
Confidence 34666778888999999999887665 77797 698764
No 157
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=58.13 E-value=5.9 Score=26.89 Aligned_cols=27 Identities=19% Similarity=0.550 Sum_probs=20.5
Q ss_pred ccccCCCcceec-----cCccceeecCCCCCCcc
Q 014873 188 FCGHCGEKTIPK-----EAGKLKQCSNASCKKRI 216 (417)
Q Consensus 188 fC~~CG~~~~~~-----~~g~~~~C~~~~C~~~~ 216 (417)
-||+|++..... ..|.+.+|+ .|+.+.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~--~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCP--KCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECC--CCCcEe
Confidence 499999997543 457788897 698765
No 158
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.22 E-value=4.5 Score=31.08 Aligned_cols=33 Identities=24% Similarity=0.381 Sum_probs=24.6
Q ss_pred ccCccccCCCcceec-cCccceeecCCCCCCcccC
Q 014873 185 VSRFCGHCGEKTIPK-EAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~-~~g~~~~C~~~~C~~~~yp 218 (417)
...-||.||++.... +...+..|.. .|+.+..-
T Consensus 6 ~~v~CP~Cgkpv~w~~~s~frPFCSk-RCklIDLg 39 (65)
T COG3024 6 ITVPCPTCGKPVVWGEESPFRPFCSK-RCKLIDLG 39 (65)
T ss_pred ccccCCCCCCcccccccCCcCcchhH-hhhhcchh
Confidence 356799999999764 4568889974 78776543
No 159
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=56.50 E-value=6.5 Score=28.70 Aligned_cols=33 Identities=24% Similarity=0.589 Sum_probs=24.9
Q ss_pred ccccCCCcceeccCccceeecCCCCCCcccCCcCc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDP 222 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p 222 (417)
-|..||+..........-+|+ .||+..+-...|
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp--~Cg~rIl~K~R~ 40 (49)
T COG1996 8 KCARCGREVELDQETRGIRCP--YCGSRILVKERP 40 (49)
T ss_pred EhhhcCCeeehhhccCceeCC--CCCcEEEEeccC
Confidence 499999999766677778897 699876544433
No 160
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=55.97 E-value=9.2 Score=25.85 Aligned_cols=28 Identities=25% Similarity=0.606 Sum_probs=21.2
Q ss_pred ccccCCCcceec-----cCccceeecCCCCCCccc
Q 014873 188 FCGHCGEKTIPK-----EAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 188 fC~~CG~~~~~~-----~~g~~~~C~~~~C~~~~y 217 (417)
-||+|++.-... ..|...+|+ .|+.+.+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~--~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCS--KCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECC--CCCCEeC
Confidence 499999987543 457888998 6998754
No 161
>PHA02942 putative transposase; Provisional
Probab=55.42 E-value=7.8 Score=40.15 Aligned_cols=29 Identities=31% Similarity=0.589 Sum_probs=22.3
Q ss_pred ccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
+.+.||.||.... ...++...|+ .||+.+
T Consensus 324 TSq~Cs~CG~~~~-~l~~r~f~C~--~CG~~~ 352 (383)
T PHA02942 324 SSVSCPKCGHKMV-EIAHRYFHCP--SCGYEN 352 (383)
T ss_pred CCccCCCCCCccC-cCCCCEEECC--CCCCEe
Confidence 6799999999774 3345678897 599875
No 162
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=55.17 E-value=9.4 Score=34.53 Aligned_cols=35 Identities=31% Similarity=0.676 Sum_probs=21.2
Q ss_pred ccccCCCcc-eec-----cCc----cceeecCCCCCC--cccCCcCcEE
Q 014873 188 FCGHCGEKT-IPK-----EAG----KLKQCSNASCKK--RIYPRVDPVV 224 (417)
Q Consensus 188 fC~~CG~~~-~~~-----~~g----~~~~C~~~~C~~--~~ypr~~pvV 224 (417)
-||.||++- ... ..| ++++|+ .||. ..|.++.-..
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~--~c~~~f~~~e~~~~~~ 48 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAIRRRRECL--ACGKRFTTFERVELVP 48 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCceeeeeecc--ccCCcceEeEeccCcc
Confidence 599999875 211 122 458898 4775 4666655443
No 163
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=54.80 E-value=9.1 Score=27.69 Aligned_cols=29 Identities=21% Similarity=0.525 Sum_probs=22.0
Q ss_pred hccCccc--cCCCcceeccCccceeecCCCCCC
Q 014873 184 NVSRFCG--HCGEKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 184 ~~~~fC~--~CG~~~~~~~~g~~~~C~~~~C~~ 214 (417)
+..+.|| .||.-+.+..-..|..|. .|+.
T Consensus 16 r~rk~CP~~~CG~GvFMA~H~dR~~CG--KCg~ 46 (47)
T PF01599_consen 16 RLRKECPSPRCGAGVFMAEHKDRHYCG--KCGY 46 (47)
T ss_dssp ESSEE-TSTTTTSSSEEEE-SSEEEET--TTSS
T ss_pred EhhhcCCCcccCCceEeeecCCCccCC--Cccc
Confidence 3468999 999998888777899996 6875
No 164
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=53.66 E-value=9.7 Score=31.10 Aligned_cols=27 Identities=26% Similarity=0.731 Sum_probs=22.6
Q ss_pred CccccCCCcceeccCccceeecCCCCCCc
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
.-||.||.+.....+--...|. .|+..
T Consensus 36 ~~Cp~C~~~~VkR~a~GIW~C~--kCg~~ 62 (89)
T COG1997 36 HVCPFCGRTTVKRIATGIWKCR--KCGAK 62 (89)
T ss_pred CcCCCCCCcceeeeccCeEEcC--CCCCe
Confidence 5799999998888777788897 69875
No 165
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=53.18 E-value=7.8 Score=38.01 Aligned_cols=31 Identities=26% Similarity=0.475 Sum_probs=24.3
Q ss_pred HhhhhccCccccCCCcceeccCccceeecCCCCCCccc
Q 014873 180 LEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 180 ~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (417)
..|..+.+-||.||. ..+....|+ .||..+-
T Consensus 303 ~~~~~tS~~C~~cg~-----~~~r~~~C~--~cg~~~~ 333 (364)
T COG0675 303 VPPYYTSKTCPCCGH-----LSGRLFKCP--RCGFVHD 333 (364)
T ss_pred CCCCCCcccccccCC-----ccceeEECC--CCCCeeh
Confidence 446778899999999 446777897 6998754
No 166
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=53.18 E-value=8.3 Score=38.18 Aligned_cols=36 Identities=22% Similarity=0.601 Sum_probs=15.8
Q ss_pred cCccccCCCcceec----cC--c-cceeecCCCCCCc-ccCCcCcE
Q 014873 186 SRFCGHCGEKTIPK----EA--G-KLKQCSNASCKKR-IYPRVDPV 223 (417)
Q Consensus 186 ~~fC~~CG~~~~~~----~~--g-~~~~C~~~~C~~~-~ypr~~pv 223 (417)
..+||.||++-... .. | +...|+ -|++. +|+|+.+.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs--~C~t~W~~~R~~Cp 215 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCS--LCGTEWRFVRIKCP 215 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEET--TT--EEE--TTS-T
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcC--CCCCeeeecCCCCc
Confidence 37999999996431 21 3 666786 69886 67776643
No 167
>PRK10445 endonuclease VIII; Provisional
Probab=53.15 E-value=7.8 Score=37.97 Aligned_cols=30 Identities=20% Similarity=0.547 Sum_probs=20.3
Q ss_pred hhhccCccccCCCcceeccCc--cceeecCCCCC
Q 014873 182 WHNVSRFCGHCGEKTIPKEAG--KLKQCSNASCK 213 (417)
Q Consensus 182 W~~~~~fC~~CG~~~~~~~~g--~~~~C~~~~C~ 213 (417)
+++.-+-||+||.++....-+ ....|| .|+
T Consensus 231 y~r~g~~Cp~Cg~~I~~~~~~gR~t~~CP--~CQ 262 (263)
T PRK10445 231 FHRDGEACERCGGIIEKTTLSSRPFYWCP--GCQ 262 (263)
T ss_pred eCCCCCCCCCCCCEeEEEEECCCCcEECC--CCc
Confidence 344568999999998764333 455565 686
No 168
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=52.59 E-value=5.2 Score=34.15 Aligned_cols=31 Identities=26% Similarity=0.441 Sum_probs=25.1
Q ss_pred ccCccccCCCcceeccCccceeecCCCCCCccc
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (417)
.--||+.||.-+......+.-.|. .|+..+=
T Consensus 6 ~~~FC~~CG~ll~~~~~~~~~~C~--~Ck~~~~ 36 (116)
T KOG2907|consen 6 DLDFCSDCGSLLEEPSAQSTVLCI--RCKIEYP 36 (116)
T ss_pred CcchhhhhhhhcccccccCceEec--cccccCC
Confidence 347999999999888888888898 5987653
No 169
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=52.59 E-value=10 Score=28.75 Aligned_cols=27 Identities=26% Similarity=0.604 Sum_probs=19.3
Q ss_pred CccccCCCcceeccCccceeecCCCCCCc
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
..|..||..+.+.+.+.+..|| .||..
T Consensus 8 ~~CtSCg~~i~~~~~~~~F~CP--nCG~~ 34 (59)
T PRK14890 8 PKCTSCGIEIAPREKAVKFLCP--NCGEV 34 (59)
T ss_pred ccccCCCCcccCCCccCEeeCC--CCCCe
Confidence 4678888887776667777786 47754
No 170
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=52.14 E-value=8.9 Score=42.64 Aligned_cols=28 Identities=25% Similarity=0.490 Sum_probs=22.5
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
-.+||.||+++.. .+...+|+++.|...
T Consensus 398 P~~CP~C~s~l~~--~~~~~~C~n~~C~aq 425 (669)
T PRK14350 398 PDNCPSCKTALIK--EGAHLFCVNNHCPSV 425 (669)
T ss_pred CCCCCCCCCEeee--CCEEEEECCCCCHHH
Confidence 5699999999975 467888998779654
No 171
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=52.05 E-value=13 Score=26.36 Aligned_cols=26 Identities=35% Similarity=0.874 Sum_probs=19.5
Q ss_pred ccccCCCcceeccCccceeecCCCCCCcc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
-|+.||...... .+...+|+ .||...
T Consensus 4 ~C~~Cg~~~~~~-~~~~irC~--~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK-SKDVVRCR--ECGYRI 29 (44)
T ss_pred ECCCCCCEeecC-CCCceECC--CCCceE
Confidence 499999998765 45667797 598753
No 172
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=51.34 E-value=9.3 Score=33.40 Aligned_cols=29 Identities=14% Similarity=0.234 Sum_probs=20.6
Q ss_pred ccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
+-|-||.||++..-... .-.+|| .||..+
T Consensus 8 tKr~Cp~cg~kFYDLnk-~p~vcP--~cg~~~ 36 (129)
T TIGR02300 8 TKRICPNTGSKFYDLNR-RPAVSP--YTGEQF 36 (129)
T ss_pred ccccCCCcCccccccCC-CCccCC--CcCCcc
Confidence 34789999998765443 556786 698874
No 173
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=51.21 E-value=11 Score=24.96 Aligned_cols=26 Identities=38% Similarity=0.939 Sum_probs=17.5
Q ss_pred ccccCCCcceeccCccceeecCCCCCCcc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
-|+.||...... .+..-+|+ .||...
T Consensus 2 ~C~~Cg~~~~~~-~~~~irC~--~CG~RI 27 (32)
T PF03604_consen 2 ICGECGAEVELK-PGDPIRCP--ECGHRI 27 (32)
T ss_dssp BESSSSSSE-BS-TSSTSSBS--SSS-SE
T ss_pred CCCcCCCeeEcC-CCCcEECC--cCCCeE
Confidence 499999999844 44556797 598753
No 174
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=50.94 E-value=10 Score=26.17 Aligned_cols=29 Identities=24% Similarity=0.584 Sum_probs=20.8
Q ss_pred ccccCCCcceeccC--ccceeecCCCCCCcccC
Q 014873 188 FCGHCGEKTIPKEA--GKLKQCSNASCKKRIYP 218 (417)
Q Consensus 188 fC~~CG~~~~~~~~--g~~~~C~~~~C~~~~yp 218 (417)
.||+|+..+..... -....|+ +|+-+.|.
T Consensus 1 ~CP~C~~~l~~~~~~~~~id~C~--~C~G~W~d 31 (41)
T PF13453_consen 1 KCPRCGTELEPVRLGDVEIDVCP--SCGGIWFD 31 (41)
T ss_pred CcCCCCcccceEEECCEEEEECC--CCCeEEcc
Confidence 49999998865433 3566787 69877664
No 175
>PF14443 DBC1: DBC1
Probab=50.58 E-value=53 Score=28.72 Aligned_cols=45 Identities=20% Similarity=0.291 Sum_probs=31.2
Q ss_pred EEEEEEecC---CCCCcEE--eeeeeccCC-CCHHHHHHHHHHHHhCCeec
Q 014873 235 RVLLSRQSR---FVPRMWS--CIAGFIEPG-ESLEEAVRRETWEETGIEVG 279 (417)
Q Consensus 235 kVLL~rr~~---~~~g~Ws--lPgG~VE~G-EtleeAa~REv~EEtGl~v~ 279 (417)
++|++++.+ --+|.|+ |=||-.+.+ .++..+|+|=++|-|||+..
T Consensus 9 kFlv~~k~ke~~aiGG~WspsLDG~DP~~dp~~LI~TAiR~~K~~tgiDLS 59 (126)
T PF14443_consen 9 KFLVGKKDKEIMAIGGPWSPSLDGGDPSSDPSVLIRTAIRTCKALTGIDLS 59 (126)
T ss_pred eeEEeecCceEEecCCcCCcccCCCCCCCCcHHHHHHHHHHHHHHhccchh
Confidence 566666553 1246776 446555553 46889999999999999875
No 176
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=48.96 E-value=7.3 Score=38.61 Aligned_cols=34 Identities=32% Similarity=0.699 Sum_probs=24.6
Q ss_pred HHhhhh----ccCccccCC-CcceeccCccceeecCCCCCC
Q 014873 179 LLEWHN----VSRFCGHCG-EKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 179 l~~W~~----~~~fC~~CG-~~~~~~~~g~~~~C~~~~C~~ 214 (417)
-..|.- +.+||+.|| ..+.....|....|| .|+.
T Consensus 304 a~t~~~~r~~k~nfc~ncG~~~t~~~~ng~a~fcp--~cgq 342 (345)
T COG4260 304 AATWPCARCAKLNFCLNCGCGTTADFDNGKAKFCP--ECGQ 342 (345)
T ss_pred cccCcchhccccccccccCcccccCCccchhhhCh--hhcC
Confidence 345654 567999999 555557788899998 5975
No 177
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=48.48 E-value=12 Score=26.55 Aligned_cols=28 Identities=29% Similarity=0.559 Sum_probs=20.9
Q ss_pred hccCccccCCCcceeccCccceeecCCCCCCc
Q 014873 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
+..+-||.||.-. +.+...|.|.+|+.+
T Consensus 9 RGirkCp~CGt~N----G~R~~~CKN~~C~~~ 36 (44)
T PF14952_consen 9 RGIRKCPKCGTYN----GTRGLSCKNKSCPQV 36 (44)
T ss_pred hccccCCcCcCcc----CcccccccCCccchh
Confidence 3468899999755 446678998888754
No 178
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=48.17 E-value=10 Score=28.73 Aligned_cols=26 Identities=31% Similarity=0.745 Sum_probs=19.1
Q ss_pred cCccccCCCcceeccCccceeecCCCCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (417)
...|..||..+.+.+......||+ ||
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPn--CG 34 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPN--CG 34 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCC--CC
Confidence 356788888877777777777874 77
No 179
>COG3791 Uncharacterized conserved protein [Function unknown]
Probab=47.22 E-value=11 Score=33.08 Aligned_cols=14 Identities=29% Similarity=0.726 Sum_probs=11.7
Q ss_pred cCccccCCCcceec
Q 014873 186 SRFCGHCGEKTIPK 199 (417)
Q Consensus 186 ~~fC~~CG~~~~~~ 199 (417)
+.||+.||.++...
T Consensus 69 r~FC~~CGs~l~~~ 82 (133)
T COG3791 69 RGFCPTCGSPLFWR 82 (133)
T ss_pred CeecccCCCceEEe
Confidence 45999999999764
No 180
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=46.92 E-value=12 Score=36.89 Aligned_cols=29 Identities=24% Similarity=0.533 Sum_probs=19.5
Q ss_pred hccCccccCCCcceeccCc--cceeecCCCCCC
Q 014873 184 NVSRFCGHCGEKTIPKEAG--KLKQCSNASCKK 214 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g--~~~~C~~~~C~~ 214 (417)
+..+-|++||+++....-+ ....|| .|+.
T Consensus 243 R~g~pC~~Cg~~I~~~~~~gR~t~~CP--~CQ~ 273 (274)
T PRK01103 243 REGEPCRRCGTPIEKIKQGGRSTFFCP--RCQK 273 (274)
T ss_pred CCCCCCCCCCCeeEEEEECCCCcEECc--CCCC
Confidence 3456899999998654333 455576 6974
No 181
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=46.80 E-value=19 Score=26.79 Aligned_cols=28 Identities=32% Similarity=0.623 Sum_probs=19.5
Q ss_pred CccccCCCccee--ccC----ccceeecCCCCCCcc
Q 014873 187 RFCGHCGEKTIP--KEA----GKLKQCSNASCKKRI 216 (417)
Q Consensus 187 ~fC~~CG~~~~~--~~~----g~~~~C~~~~C~~~~ 216 (417)
-+||.||.++.. ..+ ..-..|+ .|..+.
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCp--KCK~Et 38 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCP--KCKQET 38 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCC--CCCceE
Confidence 589999999843 222 3567797 598765
No 182
>PRK12495 hypothetical protein; Provisional
Probab=46.75 E-value=11 Score=35.86 Aligned_cols=29 Identities=17% Similarity=0.646 Sum_probs=21.2
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
..+|+.||.|+... ....+|+ .|+.++=.
T Consensus 42 a~hC~~CG~PIpa~--pG~~~Cp--~CQ~~~~~ 70 (226)
T PRK12495 42 NAHCDECGDPIFRH--DGQEFCP--TCQQPVTE 70 (226)
T ss_pred hhhcccccCcccCC--CCeeECC--CCCCcccc
Confidence 58999999999732 4455687 69876543
No 183
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=46.24 E-value=7.3 Score=29.84 Aligned_cols=31 Identities=19% Similarity=0.249 Sum_probs=23.2
Q ss_pred cCccccCCCcceec-cCccceeecCCCCCCccc
Q 014873 186 SRFCGHCGEKTIPK-EAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 186 ~~fC~~CG~~~~~~-~~g~~~~C~~~~C~~~~y 217 (417)
..-||.||+++... ...++..|+. .|..+.+
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~-RCk~IDL 37 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSK-RCQLIDL 37 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccH-HHHhhhH
Confidence 46799999998754 4568899984 7876543
No 184
>PF03487 IL13: Interleukin-13; InterPro: IPR020470 Interleukin-13 (IL-13) is a pleiotropic cytokine which may be important in the regulation of the inflammatory and immune responses []. It inhibits inflammatory cytokine production and synergises with IL-2 in regulating interferon-gamma synthesis. The sequences of IL-4 and IL-13 are distantly related.; PDB: 3G6D_A 3L5W_J 3BPO_A 1GA3_A 1IK0_A 3L5X_A 3L5Y_A 1IJZ_A 3LB6_B.
Probab=45.59 E-value=19 Score=25.10 Aligned_cols=26 Identities=27% Similarity=0.539 Sum_probs=12.0
Q ss_pred EEeeeeeccCCCCHHHHHHHHHHHHh
Q 014873 249 WSCIAGFIEPGESLEEAVRRETWEET 274 (417)
Q Consensus 249 WslPgG~VE~GEtleeAa~REv~EEt 274 (417)
..+.||...||--+-..+.||+-||.
T Consensus 11 ltClggLasPgPvp~~~alkELIeEL 36 (43)
T PF03487_consen 11 LTCLGGLASPGPVPSSTALKELIEEL 36 (43)
T ss_dssp ------------S-HHHHHHHHHHHH
T ss_pred HHHhcccCCCCCCCchHHHHHHHHHH
Confidence 35789999999999999999999996
No 185
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=45.36 E-value=11 Score=34.52 Aligned_cols=31 Identities=16% Similarity=0.404 Sum_probs=22.8
Q ss_pred cCccccCCCcceeccCcc---------------ceeecCCCCCCcccC
Q 014873 186 SRFCGHCGEKTIPKEAGK---------------LKQCSNASCKKRIYP 218 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~---------------~~~C~~~~C~~~~yp 218 (417)
..-||.|++++.....+. -.+|+ .||.++|+
T Consensus 97 ~~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~--~CgkiYW~ 142 (165)
T COG1656 97 FSRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCP--KCGKIYWK 142 (165)
T ss_pred cccCcccCCEeccCcHHHHhhccchhhhhcccceeECC--CCcccccC
Confidence 788999999996543322 23487 69999886
No 186
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=44.98 E-value=5.8 Score=29.88 Aligned_cols=30 Identities=27% Similarity=0.297 Sum_probs=17.1
Q ss_pred CccccCCCccee-ccCccceeecCCCCCCccc
Q 014873 187 RFCGHCGEKTIP-KEAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 187 ~fC~~CG~~~~~-~~~g~~~~C~~~~C~~~~y 217 (417)
.-||.||+++.. ....++..|+. .|..+..
T Consensus 3 v~CP~C~k~~~~~~~n~~rPFCS~-RCk~iDL 33 (57)
T PF03884_consen 3 VKCPICGKPVEWSPENPFRPFCSE-RCKLIDL 33 (57)
T ss_dssp EE-TTT--EEE-SSSSS--SSSSH-HHHHHHH
T ss_pred ccCCCCCCeecccCCCCcCCcccH-hhcccCH
Confidence 469999999988 45568889974 6766543
No 187
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=44.73 E-value=18 Score=32.52 Aligned_cols=36 Identities=19% Similarity=0.580 Sum_probs=23.0
Q ss_pred ccccCCCccee------ccCc----cceeecCCCCCC--cccCCcCcEEE
Q 014873 188 FCGHCGEKTIP------KEAG----KLKQCSNASCKK--RIYPRVDPVVI 225 (417)
Q Consensus 188 fC~~CG~~~~~------~~~g----~~~~C~~~~C~~--~~ypr~~pvVi 225 (417)
.||.||+.-.. ...| +++.|. .|+. ..|.++....+
T Consensus 2 ~CP~C~~~dtkViDSR~~~dg~~IRRRReC~--~C~~RFTTyErve~~~l 49 (147)
T TIGR00244 2 HCPFCQHHNTRVLDSRLVEDGQSIRRRRECL--ECHERFTTFERAELLPP 49 (147)
T ss_pred CCCCCCCCCCEeeeccccCCCCeeeecccCC--ccCCccceeeecccccc
Confidence 69999986321 2333 678897 6986 46776664433
No 188
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=44.40 E-value=20 Score=31.87 Aligned_cols=35 Identities=17% Similarity=0.387 Sum_probs=25.1
Q ss_pred hhhc-cCccccCCCcceeccCc---------------cceeecCCCCCCcccC
Q 014873 182 WHNV-SRFCGHCGEKTIPKEAG---------------KLKQCSNASCKKRIYP 218 (417)
Q Consensus 182 W~~~-~~fC~~CG~~~~~~~~g---------------~~~~C~~~~C~~~~yp 218 (417)
+... +.-|+.|++++...... .-.+|+ .|+.++|+
T Consensus 86 ~~~~~~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~--~C~kiyW~ 136 (147)
T PF01927_consen 86 RLDPIFSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCP--GCGKIYWE 136 (147)
T ss_pred ccCCCCCccCCCCcEeeechhhccccccCccccccCCeEEECC--CCCCEecc
Confidence 3443 78999999998654322 345787 69999986
No 189
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=43.85 E-value=17 Score=26.98 Aligned_cols=28 Identities=25% Similarity=0.618 Sum_probs=20.5
Q ss_pred ccccCCCcceecc--CccceeecCCCCCCccc
Q 014873 188 FCGHCGEKTIPKE--AGKLKQCSNASCKKRIY 217 (417)
Q Consensus 188 fC~~CG~~~~~~~--~g~~~~C~~~~C~~~~y 217 (417)
-||.||+.+.... .|....|+ .||....
T Consensus 4 ~CP~CG~~iev~~~~~GeiV~Cp--~CGaele 33 (54)
T TIGR01206 4 ECPDCGAEIELENPELGELVICD--ECGAELE 33 (54)
T ss_pred CCCCCCCEEecCCCccCCEEeCC--CCCCEEE
Confidence 5999999986532 26677897 6998754
No 190
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=42.59 E-value=31 Score=33.11 Aligned_cols=25 Identities=24% Similarity=0.682 Sum_probs=18.1
Q ss_pred cccCCCcceeccCccceeecCCCCCCcccC
Q 014873 189 CGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
|+.||.+..+..+ ..|+ .|-...++
T Consensus 1 C~~CG~~~~~~~~---~lC~--~C~~~~~~ 25 (236)
T PF04981_consen 1 CPRCGREIEPLID---GLCP--DCYLKRFD 25 (236)
T ss_pred CCCCCCCCCCccc---ccCh--HHhcccCC
Confidence 9999998865544 4787 58776664
No 191
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=42.13 E-value=15 Score=36.35 Aligned_cols=29 Identities=21% Similarity=0.547 Sum_probs=19.4
Q ss_pred hhccCccccCCCcceecc-C-ccceeecCCCCC
Q 014873 183 HNVSRFCGHCGEKTIPKE-A-GKLKQCSNASCK 213 (417)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~-~-g~~~~C~~~~C~ 213 (417)
.+.-+-|++||+++.... + .....|| .|+
T Consensus 251 ~R~g~pC~~Cg~~I~~~~~~gR~t~~CP--~CQ 281 (282)
T PRK13945 251 RRTGKPCRKCGTPIERIKLAGRSTHWCP--NCQ 281 (282)
T ss_pred CCCcCCCCcCCCeeEEEEECCCccEECC--CCc
Confidence 334578999999986543 3 3455676 686
No 192
>COG4640 Predicted membrane protein [Function unknown]
Probab=41.84 E-value=14 Score=38.28 Aligned_cols=25 Identities=28% Similarity=0.833 Sum_probs=15.8
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
.+||+.||+.-. +...+|+ .||+..
T Consensus 1 M~fC~kcG~qk~----Ed~~qC~--qCG~~~ 25 (465)
T COG4640 1 MKFCPKCGSQKA----EDDVQCT--QCGHKF 25 (465)
T ss_pred CCcccccccccc----ccccccc--ccCCcC
Confidence 479999995432 2233387 698753
No 193
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=41.56 E-value=23 Score=23.57 Aligned_cols=29 Identities=21% Similarity=0.570 Sum_probs=22.3
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
.+-|..||+............|. .|+.++
T Consensus 3 ~~~C~~C~~~~i~~~~~~~~~C~--~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNKEDDYEVCI--FCGSSF 31 (33)
T ss_pred ceEcCCCCCCeEEEecCCeEEcc--cCCcEe
Confidence 46799999999875566667797 598764
No 194
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=41.47 E-value=16 Score=36.04 Aligned_cols=29 Identities=14% Similarity=0.343 Sum_probs=19.7
Q ss_pred hhccCccccCCCcceeccC--ccceeecCCCCC
Q 014873 183 HNVSRFCGHCGEKTIPKEA--GKLKQCSNASCK 213 (417)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~--g~~~~C~~~~C~ 213 (417)
.+.-+-||+||+++....- .....|| .|+
T Consensus 241 ~R~g~pCprCG~~I~~~~~~gR~t~~CP--~CQ 271 (272)
T PRK14810 241 QRTGEPCLNCKTPIRRVVVAGRSSHYCP--HCQ 271 (272)
T ss_pred CCCCCcCCCCCCeeEEEEECCCccEECc--CCc
Confidence 4445899999999865432 2455576 686
No 195
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg). All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=41.10 E-value=15 Score=36.05 Aligned_cols=28 Identities=18% Similarity=0.471 Sum_probs=18.7
Q ss_pred hccCccccCCCcceecc-C-ccceeecCCCCC
Q 014873 184 NVSRFCGHCGEKTIPKE-A-GKLKQCSNASCK 213 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~-~-g~~~~C~~~~C~ 213 (417)
+.-+-|++||.++.... + .....|| .|+
T Consensus 243 r~g~pC~~Cg~~I~~~~~~gR~t~~CP--~CQ 272 (272)
T TIGR00577 243 RKGEPCRRCGTPIEKIKVGGRGTHFCP--QCQ 272 (272)
T ss_pred CCCCCCCCCCCeeEEEEECCCCCEECC--CCC
Confidence 33568999999986543 2 3455676 684
No 196
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=41.03 E-value=4.1 Score=36.79 Aligned_cols=23 Identities=39% Similarity=1.001 Sum_probs=17.9
Q ss_pred hccCccccCCCcceeccCccceeecCCCCCCc
Q 014873 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
.+..||.+||+++.. .|| .|+..
T Consensus 26 ~~~~fC~kCG~~tI~-------~Cp--~C~~~ 48 (158)
T PF10083_consen 26 LREKFCSKCGAKTIT-------SCP--NCSTP 48 (158)
T ss_pred HHHHHHHHhhHHHHH-------HCc--CCCCC
Confidence 456899999999864 587 58764
No 197
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=40.58 E-value=69 Score=30.19 Aligned_cols=86 Identities=21% Similarity=0.246 Sum_probs=48.1
Q ss_pred cCccccCCCcceecc-------Cc----cceeecCCCCCCcccC-----CcCcEEEEEEEec-CCCEEEEEEecCCCCCc
Q 014873 186 SRFCGHCGEKTIPKE-------AG----KLKQCSNASCKKRIYP-----RVDPVVIMLVIDR-ENDRVLLSRQSRFVPRM 248 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~-------~g----~~~~C~~~~C~~~~yp-----r~~pvVivlvi~~-~~~kVLL~rr~~~~~g~ 248 (417)
.--||.||+.+.... -| ....|. .||+++.. ...|.-+.+-++. ++.+.++.|.. .+.
T Consensus 14 ~~~CPvCg~~l~~~~~~~~IPyFG~V~i~t~~C~--~CgYR~~DV~~~e~~eP~r~~lkve~~edL~~~V~RS~---s~~ 88 (201)
T COG1779 14 RIDCPVCGGTLKAHMYLYDIPYFGEVLISTGVCE--RCGYRSTDVKTLEEREPRRYTLKVESEEDLSARVVRSK---SAT 88 (201)
T ss_pred eecCCcccceeeEEEeeecCCccceEEEEEEEcc--ccCCcccceeecccCCCeEEEEEeCCHHHhhhheeecC---Ccc
Confidence 456999999664321 12 456786 59987543 3455544444443 34466666655 355
Q ss_pred EEee--eeeccCCC------CHHHHHHHHHHHHhCC
Q 014873 249 WSCI--AGFIEPGE------SLEEAVRRETWEETGI 276 (417)
Q Consensus 249 WslP--gG~VE~GE------tleeAa~REv~EEtGl 276 (417)
-.+| |=-|+||. |--|.+.+-+.|++..
T Consensus 89 I~IPELg~~iePG~~s~G~ITtIEGvL~rv~e~l~~ 124 (201)
T COG1779 89 IYIPELGLEIEPGPASEGFITTIEGVLERVYEVLET 124 (201)
T ss_pred EEcccCceEeccccccCceEehHHHHHHHHHHHHHH
Confidence 5555 23334432 3456666666666654
No 198
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=39.43 E-value=21 Score=30.35 Aligned_cols=30 Identities=20% Similarity=0.371 Sum_probs=23.1
Q ss_pred CccccCCCcceeccCccceeecCCCCCCcccCC
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPR 219 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr 219 (417)
.-||+|++..... .|....|| .|++.+=+.
T Consensus 3 p~CP~C~seytY~-dg~~~iCp--eC~~EW~~~ 32 (109)
T TIGR00686 3 PPCPKCNSEYTYH-DGTQLICP--SCLYEWNEN 32 (109)
T ss_pred CcCCcCCCcceEe-cCCeeECc--ccccccccc
Confidence 4699999998764 44568997 699987654
No 199
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=39.39 E-value=20 Score=33.18 Aligned_cols=33 Identities=15% Similarity=0.440 Sum_probs=24.9
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccCCcC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVD 221 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~ 221 (417)
+-.|+.||.++.+... ....|+ .|+.....++.
T Consensus 149 ~a~~~~~g~~~~~~~~-~~~~c~--~~~~~e~rkva 181 (189)
T PRK09521 149 YAMCSRCRTPLVKKGE-NELKCP--NCGNIETRKLS 181 (189)
T ss_pred EEEccccCCceEECCC-CEEECC--CCCCEEeeccc
Confidence 4579999999987443 568898 69988766554
No 200
>PRK01343 zinc-binding protein; Provisional
Probab=39.28 E-value=13 Score=27.94 Aligned_cols=28 Identities=25% Similarity=0.577 Sum_probs=20.6
Q ss_pred ccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
..+-||.||++.. ...+..|+. .|..+.
T Consensus 8 p~~~CP~C~k~~~---~~~rPFCS~-RC~~iD 35 (57)
T PRK01343 8 PTRPCPECGKPST---REAYPFCSE-RCRDID 35 (57)
T ss_pred CCCcCCCCCCcCc---CCCCcccCH-HHhhhh
Confidence 4678999999875 357788874 776654
No 201
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.11 E-value=13 Score=32.78 Aligned_cols=24 Identities=25% Similarity=0.697 Sum_probs=17.1
Q ss_pred ccCccccCCCcceeccCccceeec
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCS 208 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~ 208 (417)
..+||.+||++......-.+.+|.
T Consensus 88 q~r~CARCGGrv~lrsNKv~wvcn 111 (169)
T KOG3799|consen 88 QTRFCARCGGRVSLRSNKVMWVCN 111 (169)
T ss_pred hhhHHHhcCCeeeeccCceEEecc
Confidence 357888888888766666666674
No 202
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=38.61 E-value=16 Score=33.74 Aligned_cols=15 Identities=27% Similarity=0.600 Sum_probs=11.4
Q ss_pred hccCccccCCCccee
Q 014873 184 NVSRFCGHCGEKTIP 198 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~ 198 (417)
..+.|||.||+++..
T Consensus 151 ~~~~~Cp~CG~~~~~ 165 (177)
T COG1439 151 EPKDFCPICGSPLKR 165 (177)
T ss_pred CCCCcCCCCCCceEE
Confidence 346899999999753
No 203
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=38.30 E-value=23 Score=31.96 Aligned_cols=33 Identities=27% Similarity=0.762 Sum_probs=21.2
Q ss_pred CccccCCCccee------ccCc----cceeecCCCCCCc--ccCCcC
Q 014873 187 RFCGHCGEKTIP------KEAG----KLKQCSNASCKKR--IYPRVD 221 (417)
Q Consensus 187 ~fC~~CG~~~~~------~~~g----~~~~C~~~~C~~~--~ypr~~ 221 (417)
..||.||+.-.. .+.| +++.|+ .|+.. .|.++.
T Consensus 1 M~CPfC~~~~tkViDSR~~edg~aIRRRReC~--~C~~RFTTfE~~E 45 (156)
T COG1327 1 MKCPFCGHEDTKVIDSRPAEEGNAIRRRRECL--ECGERFTTFERAE 45 (156)
T ss_pred CCCCCCCCCCCeeeecccccccchhhhhhccc--ccccccchhheee
Confidence 369999987422 2333 788897 69864 565544
No 204
>PRK14873 primosome assembly protein PriA; Provisional
Probab=38.02 E-value=23 Score=39.42 Aligned_cols=29 Identities=24% Similarity=0.429 Sum_probs=17.5
Q ss_pred ccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
-|++|+.++..+.......|. .||+...|
T Consensus 394 ~C~~C~~~L~~h~~~~~l~Ch--~CG~~~~p 422 (665)
T PRK14873 394 RCRHCTGPLGLPSAGGTPRCR--WCGRAAPD 422 (665)
T ss_pred ECCCCCCceeEecCCCeeECC--CCcCCCcC
Confidence 366666666665555667776 47665433
No 205
>COG4469 CoiA Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]
Probab=38.01 E-value=17 Score=36.75 Aligned_cols=15 Identities=40% Similarity=0.855 Sum_probs=12.4
Q ss_pred CccccCCCcceeccC
Q 014873 187 RFCGHCGEKTIPKEA 201 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~ 201 (417)
-|||.||+++....|
T Consensus 26 ffCPaC~~~l~lK~G 40 (342)
T COG4469 26 FFCPACGSQLILKQG 40 (342)
T ss_pred cccCCCCCeeeeecC
Confidence 699999999976554
No 206
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=37.56 E-value=45 Score=29.15 Aligned_cols=38 Identities=18% Similarity=0.347 Sum_probs=26.3
Q ss_pred HHHHHhhhhccCccccCCCcceeccC-----ccceeecCCCCCCc
Q 014873 176 ARALLEWHNVSRFCGHCGEKTIPKEA-----GKLKQCSNASCKKR 215 (417)
Q Consensus 176 A~~l~~W~~~~~fC~~CG~~~~~~~~-----g~~~~C~~~~C~~~ 215 (417)
|..-..|+.....||.|++......+ .-+..|+ +|+..
T Consensus 20 ~~~~~~~~~~~~~cP~C~s~~~~k~g~~~~~~qRyrC~--~C~~t 62 (129)
T COG3677 20 AAYAIRMQITKVNCPRCKSSNVVKIGGIRRGHQRYKCK--SCGST 62 (129)
T ss_pred HHHHHhhhcccCcCCCCCccceeeECCccccccccccC--CcCcc
Confidence 33445677888999999999833322 2566797 69875
No 207
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=36.83 E-value=20 Score=35.23 Aligned_cols=32 Identities=16% Similarity=0.382 Sum_probs=21.0
Q ss_pred hhhccCccccCCCcceecc-C-ccceeecCCCCCCc
Q 014873 182 WHNVSRFCGHCGEKTIPKE-A-GKLKQCSNASCKKR 215 (417)
Q Consensus 182 W~~~~~fC~~CG~~~~~~~-~-g~~~~C~~~~C~~~ 215 (417)
|.+.-+-|++||.++.... + .....|| .|+..
T Consensus 231 y~R~g~pC~~Cg~~I~~~~~~gR~ty~Cp--~CQ~~ 264 (269)
T PRK14811 231 YGREGQPCPRCGTPIEKIVVGGRGTHFCP--QCQPL 264 (269)
T ss_pred cCCCcCCCCcCCCeeEEEEECCCCcEECC--CCcCC
Confidence 3344578999999986533 3 3456686 69754
No 208
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=36.30 E-value=19 Score=29.65 Aligned_cols=29 Identities=24% Similarity=0.681 Sum_probs=22.1
Q ss_pred ccCccccCCCcceeccCccceeecCCCCCCc
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
...+||.||+......+--...|. .|+..
T Consensus 34 ~ky~Cp~Cgk~~vkR~a~GIW~C~--~C~~~ 62 (90)
T PF01780_consen 34 AKYTCPFCGKTSVKRVATGIWKCK--KCGKK 62 (90)
T ss_dssp S-BEESSSSSSEEEEEETTEEEET--TTTEE
T ss_pred CCCcCCCCCCceeEEeeeEEeecC--CCCCE
Confidence 347899999999777666568897 69864
No 209
>PRK10220 hypothetical protein; Provisional
Probab=35.76 E-value=29 Score=29.55 Aligned_cols=31 Identities=13% Similarity=0.365 Sum_probs=23.8
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPR 219 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr 219 (417)
..-||+|++..... .+....|| .|++++-|.
T Consensus 3 lP~CP~C~seytY~-d~~~~vCp--eC~hEW~~~ 33 (111)
T PRK10220 3 LPHCPKCNSEYTYE-DNGMYICP--ECAHEWNDA 33 (111)
T ss_pred CCcCCCCCCcceEc-CCCeEECC--cccCcCCcc
Confidence 35699999998764 44568997 699987665
No 210
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=35.73 E-value=75 Score=28.12 Aligned_cols=17 Identities=41% Similarity=0.622 Sum_probs=8.3
Q ss_pred CcEEEEEEEecCCCEEE
Q 014873 221 DPVVIMLVIDRENDRVL 237 (417)
Q Consensus 221 ~pvVivlvi~~~~~kVL 237 (417)
.|.++++|--++.+++|
T Consensus 83 ~P~viaiV~l~~~~~i~ 99 (140)
T COG1545 83 EPYVIAIVELEEGGRIL 99 (140)
T ss_pred CCEEEEEEEeCCCCceE
Confidence 56666555544333333
No 211
>PF14353 CpXC: CpXC protein
Probab=35.20 E-value=64 Score=27.65 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=19.5
Q ss_pred ccccCCCcceec-----c------------Cc--cceeecCCCCCCcccC
Q 014873 188 FCGHCGEKTIPK-----E------------AG--KLKQCSNASCKKRIYP 218 (417)
Q Consensus 188 fC~~CG~~~~~~-----~------------~g--~~~~C~~~~C~~~~yp 218 (417)
-||+||++.... . .| ....|| +||...+.
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP--~Cg~~~~~ 50 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCP--SCGHKFRL 50 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECC--CCCCceec
Confidence 599999986321 1 12 466787 69998764
No 212
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=34.85 E-value=27 Score=24.16 Aligned_cols=23 Identities=35% Similarity=0.538 Sum_probs=15.5
Q ss_pred HHHHHHhhhhccCccccCCCcce
Q 014873 175 HARALLEWHNVSRFCGHCGEKTI 197 (417)
Q Consensus 175 ~A~~l~~W~~~~~fC~~CG~~~~ 197 (417)
-|.+|..-+.+.+||..||.-+.
T Consensus 6 La~al~~~~~~i~~C~~C~nlse 28 (41)
T PF02132_consen 6 LADALKEAKENIKFCSICGNLSE 28 (41)
T ss_dssp HHHHHHHHHHH-EE-SSS--EES
T ss_pred HHHHHHHHHHcCCccCCCCCcCC
Confidence 47788888889999999998764
No 213
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=33.99 E-value=20 Score=27.17 Aligned_cols=24 Identities=33% Similarity=0.751 Sum_probs=18.0
Q ss_pred ccCccccCCCcceeccCccceeecCCCCC
Q 014873 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (417)
.|++|+.||++..+. .+.|+ +.|+
T Consensus 7 PH~HC~VCg~aIp~d----e~~CS-e~C~ 30 (64)
T COG4068 7 PHRHCVVCGKAIPPD----EQVCS-EECG 30 (64)
T ss_pred CCccccccCCcCCCc----cchHH-HHHH
Confidence 589999999998653 45676 3676
No 214
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=33.71 E-value=65 Score=31.84 Aligned_cols=26 Identities=15% Similarity=0.296 Sum_probs=19.4
Q ss_pred EEecCCCEEEEEEecC--CCCCcEEeee
Q 014873 228 VIDRENDRVLLSRQSR--FVPRMWSCIA 253 (417)
Q Consensus 228 vi~~~~~kVLL~rr~~--~~~g~WslPg 253 (417)
++...++++||.||.. ...|+|++|.
T Consensus 233 ~~~~~~~~~~~~~r~~~~~~~gl~~~p~ 260 (275)
T TIGR01084 233 VLQNYDGEVLLEQRPEKGLWGGLYCFPQ 260 (275)
T ss_pred EEEeCCCeEEEEeCCCCchhhccccCCC
Confidence 3333468999999873 5689999997
No 215
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=33.61 E-value=25 Score=39.31 Aligned_cols=27 Identities=22% Similarity=0.566 Sum_probs=20.0
Q ss_pred cCccccCCCcceeccCccceeecCC-CCCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNA-SCKK 214 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~-~C~~ 214 (417)
-.+||.||+++.. .+....|+++ .|..
T Consensus 423 P~~CP~C~~~l~~--~~~~~~C~n~~~Cpa 450 (689)
T PRK14351 423 PDTCPVCDSAVER--DGPLAFCTGGLACPA 450 (689)
T ss_pred CCCCCCCCCEeee--CCceEEcCCCCCCHH
Confidence 4799999999975 4555669874 4854
No 216
>PF04828 GFA: Glutathione-dependent formaldehyde-activating enzyme; InterPro: IPR006913 The GFA family consists mainly of glutathione-dependent formaldehyde-activating enzymes, but also includes centromere protein V and a fission yeast protein described as uncharacterised lyase. Glutathione-dependent formaldehyde-activating enzyme catalyse the condensation of formaldehyde and glutathione to S-hydroxymethylglutathione. All known members of this family contain 5 strongly conserved cysteine residues.; GO: 0016846 carbon-sulfur lyase activity, 0008152 metabolic process; PDB: 3FAC_B 1XA8_A 1X6M_B.
Probab=33.27 E-value=12 Score=29.40 Aligned_cols=14 Identities=29% Similarity=0.726 Sum_probs=10.0
Q ss_pred ccCccccCCCccee
Q 014873 185 VSRFCGHCGEKTIP 198 (417)
Q Consensus 185 ~~~fC~~CG~~~~~ 198 (417)
+..||+.||.++..
T Consensus 47 ~r~FC~~CGs~l~~ 60 (92)
T PF04828_consen 47 ERYFCPTCGSPLFS 60 (92)
T ss_dssp EEEEETTT--EEEE
T ss_pred cCcccCCCCCeeec
Confidence 45899999999974
No 217
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=32.38 E-value=31 Score=25.84 Aligned_cols=25 Identities=20% Similarity=0.426 Sum_probs=16.6
Q ss_pred ccccCCCcceeccCccceeecCCCCCCccc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (417)
+||.|++.. .+.....|+ .||...|
T Consensus 1 ~Cpv~~~~~---~~~v~~~Cp--~cGipth 25 (55)
T PF13824_consen 1 LCPVCKKDL---PAHVNFECP--DCGIPTH 25 (55)
T ss_pred CCCCCcccc---ccccCCcCC--CCCCcCc
Confidence 588888765 344566676 5877655
No 218
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=32.36 E-value=35 Score=32.04 Aligned_cols=62 Identities=23% Similarity=0.396 Sum_probs=31.9
Q ss_pred ccCccccCCCccee----ccCc--cceeecCCCCCCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEeeee
Q 014873 185 VSRFCGHCGEKTIP----KEAG--KLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAG 254 (417)
Q Consensus 185 ~~~fC~~CG~~~~~----~~~g--~~~~C~~~~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG 254 (417)
.+-.||.||..-+. ...| .-.+|. .||..+= +. +.......-+|.+-|....+.+.-.|+.|
T Consensus 5 iy~~Cp~Cg~eev~hEVik~~g~~~lvrC~--eCG~V~~-----~~-i~~~k~~~v~viVS~~~~S~~~~vel~~g 72 (201)
T COG1326 5 IYIECPSCGSEEVSHEVIKERGREPLVRCE--ECGTVHP-----AI-IKTPKPVRVRVIVSRHEESFTKEVELDPG 72 (201)
T ss_pred EEEECCCCCcchhhHHHHHhcCCceEEEcc--CCCcEee-----ce-eeccccceEEEEEecCCcccceeEecCCC
Confidence 45689999943221 1223 467797 6998762 21 11222222355555544444454555543
No 219
>TIGR02820 formald_GSH S-(hydroxymethyl)glutathione synthase. The formation of S-(hydroxymethyl)glutathione synthase from glutathione and formaldehyde occurs naturally, but this enzyme speeds its formation in some species as part of a pathway of formaldehyde detoxification.
Probab=31.77 E-value=18 Score=33.57 Aligned_cols=13 Identities=23% Similarity=0.585 Sum_probs=10.7
Q ss_pred cCccccCCCccee
Q 014873 186 SRFCGHCGEKTIP 198 (417)
Q Consensus 186 ~~fC~~CG~~~~~ 198 (417)
..||+.||+++..
T Consensus 89 R~FC~~CGS~L~~ 101 (182)
T TIGR02820 89 RHACKGCGTHMYG 101 (182)
T ss_pred eecCCCCCCcccc
Confidence 4599999999954
No 220
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=31.51 E-value=58 Score=27.68 Aligned_cols=30 Identities=17% Similarity=0.416 Sum_probs=24.0
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcccC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (417)
..-||.|.+.-...+++ ...|| .|.+..-+
T Consensus 3 lp~cp~c~sEytYed~~-~~~cp--ec~~ew~~ 32 (112)
T COG2824 3 LPPCPKCNSEYTYEDGG-QLICP--ECAHEWNE 32 (112)
T ss_pred CCCCCccCCceEEecCc-eEeCc--hhcccccc
Confidence 35799999998876666 99997 69987654
No 221
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=31.46 E-value=54 Score=23.95 Aligned_cols=31 Identities=19% Similarity=0.463 Sum_probs=22.4
Q ss_pred hhccCccc--cCCCcceecc--CccceeecCCCCCCc
Q 014873 183 HNVSRFCG--HCGEKTIPKE--AGKLKQCSNASCKKR 215 (417)
Q Consensus 183 ~~~~~fC~--~CG~~~~~~~--~g~~~~C~~~~C~~~ 215 (417)
+.+.++|| .|+....... +.....|+ .|+..
T Consensus 15 ~~~~~~CP~~~C~~~~~~~~~~~~~~v~C~--~C~~~ 49 (64)
T smart00647 15 NPDLKWCPAPDCSAAIIVTEEEGCNRVTCP--KCGFS 49 (64)
T ss_pred CCCccCCCCCCCcceEEecCCCCCCeeECC--CCCCe
Confidence 45779999 9998887653 45677786 47653
No 222
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=31.45 E-value=24 Score=25.83 Aligned_cols=31 Identities=19% Similarity=0.438 Sum_probs=15.6
Q ss_pred hhccCcccc--CCCcceeccCccc--eeecCCCCCCc
Q 014873 183 HNVSRFCGH--CGEKTIPKEAGKL--KQCSNASCKKR 215 (417)
Q Consensus 183 ~~~~~fC~~--CG~~~~~~~~g~~--~~C~~~~C~~~ 215 (417)
....++||. |+........... ..|+ .|+..
T Consensus 15 ~~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~--~C~~~ 49 (64)
T PF01485_consen 15 DPNIRWCPNPDCEYIIEKDDGCNSPIVTCP--SCGTE 49 (64)
T ss_dssp ---CC--TTSST---ECS-SSTTS--CCTT--SCCSE
T ss_pred CCCccCCCCCCCcccEEecCCCCCCeeECC--CCCCc
Confidence 344589988 9999987666554 7886 47754
No 223
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=31.23 E-value=33 Score=28.24 Aligned_cols=28 Identities=32% Similarity=0.845 Sum_probs=21.8
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
-..||.||.......+--...|. .|+..
T Consensus 36 ~y~CpfCgk~~vkR~a~GIW~C~--~C~~~ 63 (90)
T PTZ00255 36 KYFCPFCGKHAVKRQAVGIWRCK--GCKKT 63 (90)
T ss_pred CccCCCCCCCceeeeeeEEEEcC--CCCCE
Confidence 47899999887777666677787 68875
No 224
>PRK04023 DNA polymerase II large subunit; Validated
Probab=29.99 E-value=28 Score=40.28 Aligned_cols=25 Identities=28% Similarity=0.658 Sum_probs=17.4
Q ss_pred hhccCccccCCCcceeccCccceeecCCCCCCc
Q 014873 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
....+||+.||..+ ....|+ .||..
T Consensus 623 EVg~RfCpsCG~~t------~~frCP--~CG~~ 647 (1121)
T PRK04023 623 EIGRRKCPSCGKET------FYRRCP--FCGTH 647 (1121)
T ss_pred cccCccCCCCCCcC------CcccCC--CCCCC
Confidence 34468999999986 345676 47765
No 225
>KOG2463 consensus Predicted RNA-binding protein Nob1p involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=29.36 E-value=22 Score=36.03 Aligned_cols=9 Identities=67% Similarity=1.512 Sum_probs=0.0
Q ss_pred ccccCCCcc
Q 014873 188 FCGHCGEKT 196 (417)
Q Consensus 188 fC~~CG~~~ 196 (417)
|||.||+.+
T Consensus 259 FCp~CG~~T 267 (376)
T KOG2463|consen 259 FCPSCGHKT 267 (376)
T ss_pred cccccCCCe
No 226
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=29.16 E-value=35 Score=23.10 Aligned_cols=25 Identities=20% Similarity=0.579 Sum_probs=16.9
Q ss_pred ccccCCCcceeccCccceeecCCCCCCc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
-|+.||+......+ -...|. .||+.
T Consensus 10 ~C~~C~~~~~~~~d-G~~yC~--~cG~~ 34 (36)
T PF11781_consen 10 PCPVCGSRWFYSDD-GFYYCD--RCGHQ 34 (36)
T ss_pred cCCCCCCeEeEccC-CEEEhh--hCceE
Confidence 49999999444444 455685 58764
No 227
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=29.08 E-value=43 Score=21.97 Aligned_cols=26 Identities=19% Similarity=0.557 Sum_probs=21.3
Q ss_pred ccccCCCcceeccCccceeecCCCCCCc
Q 014873 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
.|+.|+..+....+-...+|. .|..+
T Consensus 3 ~C~~C~t~L~yP~gA~~vrCs--~C~~v 28 (31)
T TIGR01053 3 VCGGCRTLLMYPRGASSVRCA--LCQTV 28 (31)
T ss_pred CcCCCCcEeecCCCCCeEECC--CCCeE
Confidence 599999999888888888897 58654
No 228
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=29.04 E-value=36 Score=25.81 Aligned_cols=24 Identities=25% Similarity=0.661 Sum_probs=17.2
Q ss_pred ccccCCCcceec-----cCccceeecCCCCCC
Q 014873 188 FCGHCGEKTIPK-----EAGKLKQCSNASCKK 214 (417)
Q Consensus 188 fC~~CG~~~~~~-----~~g~~~~C~~~~C~~ 214 (417)
-|| ||.+.+.. .++...+|| +|..
T Consensus 24 PCP-CGDRFeIsLeDl~~GE~VArCP--SCSL 52 (67)
T COG5216 24 PCP-CGDRFEISLEDLRNGEVVARCP--SCSL 52 (67)
T ss_pred cCC-CCCEeEEEHHHhhCCceEEEcC--CceE
Confidence 366 99997653 566788897 6854
No 229
>PF12647 RNHCP: RNHCP domain; InterPro: IPR024439 This domain is found in uncharacterised bacterial proteins. It is typically between 94 and 143 amino acids in length and has a conserved RNHCP sequence motif.
Probab=28.05 E-value=32 Score=28.47 Aligned_cols=27 Identities=33% Similarity=0.678 Sum_probs=19.8
Q ss_pred cCccccCCCcceec--cCccceeecCCCCCC
Q 014873 186 SRFCGHCGEKTIPK--EAGKLKQCSNASCKK 214 (417)
Q Consensus 186 ~~fC~~CG~~~~~~--~~g~~~~C~~~~C~~ 214 (417)
.--|..||..+.+. .+..+..|| .|=.
T Consensus 4 ~F~C~~CG~~V~p~~~g~~~RNHCP--~CL~ 32 (92)
T PF12647_consen 4 SFTCVHCGLTVSPLAAGSAHRNHCP--SCLS 32 (92)
T ss_pred ccCccccCCCcccCCCCCCccCcCc--cccc
Confidence 34699999998774 444788997 5744
No 230
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=28.04 E-value=28 Score=41.12 Aligned_cols=11 Identities=45% Similarity=0.990 Sum_probs=7.4
Q ss_pred cCccccCCCcc
Q 014873 186 SRFCGHCGEKT 196 (417)
Q Consensus 186 ~~fC~~CG~~~ 196 (417)
.+.||.||+.+
T Consensus 667 ~rkCPkCG~~t 677 (1337)
T PRK14714 667 RRRCPSCGTET 677 (1337)
T ss_pred EEECCCCCCcc
Confidence 46777777765
No 231
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.85 E-value=47 Score=28.85 Aligned_cols=43 Identities=19% Similarity=0.420 Sum_probs=25.4
Q ss_pred cCccccCCCc-ceeccCccceeecCCCCCCc-ccCCc--CcEEEEEEEe
Q 014873 186 SRFCGHCGEK-TIPKEAGKLKQCSNASCKKR-IYPRV--DPVVIMLVID 230 (417)
Q Consensus 186 ~~fC~~CG~~-~~~~~~g~~~~C~~~~C~~~-~ypr~--~pvVivlvi~ 230 (417)
..-||+||.- +...--..+..|. .||.. .|-+. -|+++++++-
T Consensus 21 ~grCP~CGeGrLF~gFLK~~p~C~--aCG~dyg~~~a~DgPa~fvI~Iv 67 (126)
T COG5349 21 RGRCPRCGEGRLFRGFLKVVPACE--ACGLDYGFADADDGPAYFVILIV 67 (126)
T ss_pred cCCCCCCCCchhhhhhcccCchhh--hccccccCCcccCCCcEEEEEee
Confidence 3579999975 4433445677897 69975 22222 2555555443
No 232
>PRK13910 DNA glycosylase MutY; Provisional
Probab=26.85 E-value=71 Score=31.85 Aligned_cols=21 Identities=14% Similarity=0.213 Sum_probs=17.2
Q ss_pred CCEEEEEEecC-CCCCcEEeee
Q 014873 233 NDRVLLSRQSR-FVPRMWSCIA 253 (417)
Q Consensus 233 ~~kVLL~rr~~-~~~g~WslPg 253 (417)
++++||.||.. ...|+|++|.
T Consensus 196 ~~~~ll~kr~~~l~~gl~~fP~ 217 (289)
T PRK13910 196 NNQIALEKIEQKLYLGMHHFPN 217 (289)
T ss_pred CCEEEEEECCCchhcccccCCC
Confidence 57999998853 5689999996
No 233
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=26.59 E-value=47 Score=33.25 Aligned_cols=29 Identities=21% Similarity=0.402 Sum_probs=20.1
Q ss_pred ccCccccCCCcc-eeccCccceeecCCCCCCc
Q 014873 185 VSRFCGHCGEKT-IPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 185 ~~~fC~~CG~~~-~~~~~g~~~~C~~~~C~~~ 215 (417)
+...||.||+.. ......-..+|. .||.+
T Consensus 10 ~~~~Cp~Cg~~~iv~d~~~Ge~vC~--~CG~V 39 (310)
T PRK00423 10 EKLVCPECGSDKLIYDYERGEIVCA--DCGLV 39 (310)
T ss_pred cCCcCcCCCCCCeeEECCCCeEeec--ccCCc
Confidence 346899999843 334445677897 59975
No 234
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=26.11 E-value=33 Score=25.73 Aligned_cols=24 Identities=29% Similarity=0.678 Sum_probs=17.9
Q ss_pred hccCccccCCCcceeccCccceeecCCCCCCc
Q 014873 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
.+.+.|+.||.-+. +.+|+ .||..
T Consensus 3 s~mr~C~~CgvYTL------k~~CP--~CG~~ 26 (56)
T PRK13130 3 SKIRKCPKCGVYTL------KEICP--VCGGK 26 (56)
T ss_pred ccceECCCCCCEEc------cccCc--CCCCC
Confidence 45788999998875 56786 58765
No 235
>PRK12496 hypothetical protein; Provisional
Probab=25.97 E-value=28 Score=31.66 Aligned_cols=12 Identities=25% Similarity=0.639 Sum_probs=9.3
Q ss_pred CccccCCCccee
Q 014873 187 RFCGHCGEKTIP 198 (417)
Q Consensus 187 ~fC~~CG~~~~~ 198 (417)
.+||.||+++..
T Consensus 144 ~~C~~CG~~~~r 155 (164)
T PRK12496 144 DVCEICGSPVKR 155 (164)
T ss_pred CcCCCCCChhhh
Confidence 459999999854
No 236
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=25.80 E-value=51 Score=30.35 Aligned_cols=26 Identities=35% Similarity=0.503 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhhhhccCccccCCCccee
Q 014873 171 AIAGHARALLEWHNVSRFCGHCGEKTIP 198 (417)
Q Consensus 171 ~~~~~A~~l~~W~~~~~fC~~CG~~~~~ 198 (417)
+++.+|..++. .--..||.||.|+.+
T Consensus 141 afa~ra~~VVa--AGRP~CPlCg~PlDP 166 (171)
T PF11290_consen 141 AFARRAREVVA--AGRPPCPLCGEPLDP 166 (171)
T ss_pred HHHHHHHHHHh--CCCCCCCCCCCCCCC
Confidence 45556666665 456899999999865
No 237
>PRK00504 rpmG 50S ribosomal protein L33; Validated
Probab=25.41 E-value=38 Score=24.80 Aligned_cols=15 Identities=40% Similarity=0.999 Sum_probs=11.9
Q ss_pred cCccccCCCcceecc
Q 014873 186 SRFCGHCGEKTIPKE 200 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (417)
.+|||.|+..+...+
T Consensus 34 kKycp~c~khtlhkE 48 (50)
T PRK00504 34 KKFCPRCNKHTLHKE 48 (50)
T ss_pred ECcCCCCCCeEeeee
Confidence 489999999886543
No 238
>KOG2937 consensus Decapping enzyme complex, predicted pyrophosphatase DCP2 [RNA processing and modification]
Probab=25.11 E-value=16 Score=36.99 Aligned_cols=69 Identities=28% Similarity=0.329 Sum_probs=50.0
Q ss_pred CCCCcccCCcCcEEEEEEEecCCCEEEEEEecCCCCCcEEeeeeeccCCCCHHHHHHHHHHHHhCCeec
Q 014873 211 SCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (417)
Q Consensus 211 ~C~~~~ypr~~pvVivlvi~~~~~kVLL~rr~~~~~g~WslPgG~VE~GEtleeAa~REv~EEtGl~v~ 279 (417)
-|.+..++...+++.+++++...+....+....--+..|.+|-|.++.||-..++..|+..||+|....
T Consensus 228 vak~~e~~~~~~tl~~~~t~v~~d~~~~aqS~~~~~e~~~~~~~k~sr~e~~r~~si~s~~~e~~f~~~ 296 (348)
T KOG2937|consen 228 VAKFPEKKSTVPTLGAALTDVEMDHVVTAQSYFAKPENWTFPKGKISRGEKPRDASIRSTFEEPGFPFG 296 (348)
T ss_pred hhcCcccCccchhHHhhhhccccccceeecccccccccccCcccccccCCccccchhhhcCCCcCCccc
Confidence 466666665555554555555445555554443335689999999999999999999999999998753
No 239
>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []. Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....
Probab=24.72 E-value=77 Score=27.60 Aligned_cols=37 Identities=16% Similarity=0.363 Sum_probs=25.8
Q ss_pred HHHhhhhccCccccCCCccee---ccCccceeecCCCCCCcc
Q 014873 178 ALLEWHNVSRFCGHCGEKTIP---KEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 178 ~l~~W~~~~~fC~~CG~~~~~---~~~g~~~~C~~~~C~~~~ 216 (417)
.|..+-..+--|+.|++|=.. ...-+-..|. .||...
T Consensus 85 ~L~~fI~~yVlC~~C~spdT~l~k~~r~~~l~C~--aCGa~~ 124 (125)
T PF01873_consen 85 LLDKFIKEYVLCPECGSPDTELIKEGRLIFLKCK--ACGASR 124 (125)
T ss_dssp HHHHHHCHHSSCTSTSSSSEEEEEETTCCEEEET--TTSCEE
T ss_pred HHHHHHHHEEEcCCCCCCccEEEEcCCEEEEEec--ccCCcC
Confidence 445556678999999999432 2344788897 699753
No 240
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=24.45 E-value=36 Score=25.29 Aligned_cols=21 Identities=38% Similarity=0.937 Sum_probs=15.5
Q ss_pred cCccccCCCcceeccCccceeecCCCCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (417)
...|+.||....+ ...|+ .||
T Consensus 26 l~~c~~cg~~~~~-----H~vc~--~cG 46 (56)
T PF01783_consen 26 LVKCPNCGEPKLP-----HRVCP--SCG 46 (56)
T ss_dssp EEESSSSSSEEST-----TSBCT--TTB
T ss_pred eeeeccCCCEecc-----cEeeC--CCC
Confidence 3789999977654 36787 587
No 241
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.23 E-value=50 Score=22.14 Aligned_cols=25 Identities=24% Similarity=0.582 Sum_probs=17.7
Q ss_pred ccccCCCcceecc---CccceeecCCCCCC
Q 014873 188 FCGHCGEKTIPKE---AGKLKQCSNASCKK 214 (417)
Q Consensus 188 fC~~CG~~~~~~~---~g~~~~C~~~~C~~ 214 (417)
.|+.||....... .+....|| .||.
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP--~Cg~ 34 (41)
T smart00834 7 RCEDCGHTFEVLQKISDDPLATCP--ECGG 34 (41)
T ss_pred EcCCCCCEEEEEEecCCCCCCCCC--CCCC
Confidence 6999999764332 25667797 6987
No 242
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=24.17 E-value=34 Score=24.66 Aligned_cols=15 Identities=40% Similarity=0.787 Sum_probs=11.8
Q ss_pred ccCccccCCCcceec
Q 014873 185 VSRFCGHCGEKTIPK 199 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~ 199 (417)
..-+|+.||.++...
T Consensus 4 g~l~C~~CG~~m~~~ 18 (58)
T PF13408_consen 4 GLLRCGHCGSKMTRR 18 (58)
T ss_pred CcEEcccCCcEeEEE
Confidence 456899999998653
No 243
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=24.14 E-value=1.3e+02 Score=26.79 Aligned_cols=28 Identities=21% Similarity=0.591 Sum_probs=20.6
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
+.-||.|.+++..... ....|. .|+...
T Consensus 34 Y~aC~~C~kkv~~~~~-~~~~C~--~C~~~~ 61 (166)
T cd04476 34 YPACPGCNKKVVEEGN-GTYRCE--KCNKSV 61 (166)
T ss_pred EccccccCcccEeCCC-CcEECC--CCCCcC
Confidence 5779999999875432 566787 588765
No 244
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=24.13 E-value=47 Score=24.92 Aligned_cols=22 Identities=36% Similarity=0.854 Sum_probs=16.8
Q ss_pred cCccccCCCcceeccCccceeecCCCCCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (417)
...|+.||....+ -..|+ .||+
T Consensus 27 l~~C~~CG~~~~~-----H~vC~--~CG~ 48 (57)
T PRK12286 27 LVECPNCGEPKLP-----HRVCP--SCGY 48 (57)
T ss_pred ceECCCCCCccCC-----eEECC--CCCc
Confidence 4679999999865 45787 5983
No 245
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=24.00 E-value=58 Score=27.28 Aligned_cols=31 Identities=23% Similarity=0.443 Sum_probs=20.6
Q ss_pred hccCccccCCCccee---ccCccceeecCCCCCCcc
Q 014873 184 NVSRFCGHCGEKTIP---KEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 184 ~~~~fC~~CG~~~~~---~~~g~~~~C~~~~C~~~~ 216 (417)
.+.--||.||..... ..+.-...|+ .||..+
T Consensus 19 pt~f~CP~Cge~~v~v~~~k~~~h~~C~--~CG~y~ 52 (99)
T PRK14892 19 PKIFECPRCGKVSISVKIKKNIAIITCG--NCGLYT 52 (99)
T ss_pred CcEeECCCCCCeEeeeecCCCcceEECC--CCCCcc
Confidence 456779999976543 2233567797 598763
No 246
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=23.84 E-value=57 Score=26.95 Aligned_cols=28 Identities=25% Similarity=0.713 Sum_probs=21.8
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
-..||.||.......+--...|. .|+..
T Consensus 35 ~y~CpfCgk~~vkR~a~GIW~C~--~C~~~ 62 (91)
T TIGR00280 35 KYVCPFCGKKTVKRGSTGIWTCR--KCGAK 62 (91)
T ss_pred CccCCCCCCCceEEEeeEEEEcC--CCCCE
Confidence 46899999887777776677787 68865
No 247
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.47 E-value=42 Score=28.56 Aligned_cols=40 Identities=15% Similarity=0.325 Sum_probs=25.6
Q ss_pred HHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 173 AGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 173 ~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
+..|+=-..+-.---+|..||...... .....|| .||...
T Consensus 57 ~egA~L~I~~vp~~~~C~~Cg~~~~~~--~~~~~CP--~Cgs~~ 96 (113)
T PRK12380 57 AQGCDLHIVYKPAQAWCWDCSQVVEIH--QHDAQCP--HCHGER 96 (113)
T ss_pred cCCCEEEEEeeCcEEEcccCCCEEecC--CcCccCc--CCCCCC
Confidence 334555566677778999999655433 2344597 698654
No 248
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=23.39 E-value=52 Score=27.12 Aligned_cols=28 Identities=18% Similarity=0.636 Sum_probs=21.8
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (417)
-..||.||.......+--...|. .|+..
T Consensus 36 ~y~CpfCgk~~vkR~a~GIW~C~--~C~~~ 63 (90)
T PRK03976 36 KHVCPVCGRPKVKRVGTGIWECR--KCGAK 63 (90)
T ss_pred CccCCCCCCCceEEEEEEEEEcC--CCCCE
Confidence 36899999888777776677786 68865
No 249
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.12 E-value=53 Score=35.29 Aligned_cols=32 Identities=19% Similarity=0.451 Sum_probs=22.9
Q ss_pred cccCCCcceeccCccceeecCCCCCCcc-cCCcCc
Q 014873 189 CGHCGEKTIPKEAGKLKQCSNASCKKRI-YPRVDP 222 (417)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~~~-ypr~~p 222 (417)
||+|+.++.....+....|. .||+.. +|...|
T Consensus 225 C~~C~~~l~~h~~~~~l~Ch--~Cg~~~~~~~~Cp 257 (505)
T TIGR00595 225 CPNCDVSLTYHKKEGKLRCH--YCGYQEPIPKTCP 257 (505)
T ss_pred CCCCCCceEEecCCCeEEcC--CCcCcCCCCCCCC
Confidence 88888888877777788887 588753 344333
No 250
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=23.11 E-value=67 Score=24.48 Aligned_cols=33 Identities=27% Similarity=0.469 Sum_probs=25.5
Q ss_pred CccccCCCcceeccCccceeecCCCCCCcccCCcCc
Q 014873 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDP 222 (417)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p 222 (417)
--||.|-+++..........|+ .|+ ..||-.+.
T Consensus 9 LaCP~~kg~L~~~~~~~~L~c~--~~~-~aYpI~dG 41 (60)
T COG2835 9 LACPVCKGPLVYDEEKQELICP--RCK-LAYPIRDG 41 (60)
T ss_pred eeccCcCCcceEeccCCEEEec--ccC-ceeecccC
Confidence 3599999999988888899997 464 56775554
No 251
>PF08646 Rep_fac-A_C: Replication factor-A C terminal domain; InterPro: IPR013955 Replication factor A (RP-A) binds and subsequently stabilises single-stranded DNA intermediates and thus prevents complementary DNA from reannealing. It also plays an essential role in several cellular processes in DNA metabolism including replication, recombination and repair of DNA []. Replication factor-A protein is also known as Replication protein A 70 kDa DNA-binding subunit. This entry is found at the C terminus of Replication factor A.; PDB: 1L1O_F 3U50_C.
Probab=22.80 E-value=1.3e+02 Score=26.17 Aligned_cols=48 Identities=17% Similarity=0.413 Sum_probs=25.3
Q ss_pred cCccc--cCCCcceeccCccceeecCCCCCCcc-cCCcCcEEEEEEEecCCCEEE
Q 014873 186 SRFCG--HCGEKTIPKEAGKLKQCSNASCKKRI-YPRVDPVVIMLVIDRENDRVL 237 (417)
Q Consensus 186 ~~fC~--~CG~~~~~~~~g~~~~C~~~~C~~~~-ypr~~pvVivlvi~~~~~kVL 237 (417)
+.=|| .|++++... +.....|+ .|+... -|...-.+-+.|.|. .+.+-
T Consensus 18 Y~aC~~~~C~kKv~~~-~~~~y~C~--~C~~~~~~~~~ry~l~~~i~D~-tg~~~ 68 (146)
T PF08646_consen 18 YPACPNEKCNKKVTEN-GDGSYRCE--KCNKTVENPKYRYRLSLKISDG-TGSIW 68 (146)
T ss_dssp EEE-TSTTTS-B-EEE-TTTEEEET--TTTEEESS-EEEEEEEEEEEET-TEEEE
T ss_pred ECCCCCccCCCEeecC-CCcEEECC--CCCCcCCCeeEEEEEEEEEEeC-CCeEE
Confidence 56799 999998776 43457896 698764 333333333334443 44433
No 252
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=22.78 E-value=57 Score=24.33 Aligned_cols=27 Identities=22% Similarity=0.555 Sum_probs=19.5
Q ss_pred cCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
-.-|+.||.++. ..+..-+|+ .|+..|
T Consensus 5 ~~~C~~Cg~~~~--~~dDiVvCp--~Cgapy 31 (54)
T PF14446_consen 5 GCKCPVCGKKFK--DGDDIVVCP--ECGAPY 31 (54)
T ss_pred CccChhhCCccc--CCCCEEECC--CCCCcc
Confidence 356999999985 345667787 688764
No 253
>PF13005 zf-IS66: zinc-finger binding domain of transposase IS66 ; InterPro: IPR024474 This entry represents a predicted helix-turn-helix domain from insertion element IS66 transposases [].
Probab=22.65 E-value=57 Score=22.76 Aligned_cols=13 Identities=31% Similarity=0.646 Sum_probs=10.7
Q ss_pred CccccCCCcceec
Q 014873 187 RFCGHCGEKTIPK 199 (417)
Q Consensus 187 ~fC~~CG~~~~~~ 199 (417)
.+|+.||+.+...
T Consensus 3 ~~C~~Cg~~l~~i 15 (47)
T PF13005_consen 3 RACPDCGGELKEI 15 (47)
T ss_pred CcCCCCCceeeEC
Confidence 6899999998743
No 254
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=22.48 E-value=50 Score=28.43 Aligned_cols=11 Identities=27% Similarity=0.824 Sum_probs=5.7
Q ss_pred CccccCCCcce
Q 014873 187 RFCGHCGEKTI 197 (417)
Q Consensus 187 ~fC~~CG~~~~ 197 (417)
-.|..|+....
T Consensus 71 ~~C~~C~~~~~ 81 (115)
T COG0375 71 CWCLDCGQEVE 81 (115)
T ss_pred EEeccCCCeec
Confidence 34555555543
No 255
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.37 E-value=48 Score=28.27 Aligned_cols=41 Identities=17% Similarity=0.455 Sum_probs=26.2
Q ss_pred HHHHHHHHhhhhccCccccCCCcceeccCccceeecCCCCCCcc
Q 014873 173 AGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 173 ~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (417)
+..|+=-..+..-.-+|..||..... .......|| .||...
T Consensus 57 ~egA~L~i~~~p~~~~C~~Cg~~~~~-~~~~~~~CP--~Cgs~~ 97 (114)
T PRK03681 57 AEGCKLHLEEQEAECWCETCQQYVTL-LTQRVRRCP--QCHGDM 97 (114)
T ss_pred cCCCEEEEEeeCcEEEcccCCCeeec-CCccCCcCc--CcCCCC
Confidence 34455566777778899999964432 222335697 698654
No 256
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=22.32 E-value=67 Score=24.80 Aligned_cols=31 Identities=23% Similarity=0.593 Sum_probs=21.2
Q ss_pred hhccCccccCCCcceec--cCc-cceeecCCCCCCc
Q 014873 183 HNVSRFCGHCGEKTIPK--EAG-KLKQCSNASCKKR 215 (417)
Q Consensus 183 ~~~~~fC~~CG~~~~~~--~~g-~~~~C~~~~C~~~ 215 (417)
+...+-||.||...... .++ ++..|. .|+..
T Consensus 3 ~d~lKPCPFCG~~~~~v~~~~g~~~v~C~--~CgA~ 36 (64)
T PRK09710 3 YDNVKPCPFCGCPSVTVKAISGYYRAKCN--GCESR 36 (64)
T ss_pred cccccCCCCCCCceeEEEecCceEEEEcC--CCCcC
Confidence 34568899999997543 334 567786 68864
No 257
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.24 E-value=32 Score=30.55 Aligned_cols=31 Identities=23% Similarity=0.359 Sum_probs=20.6
Q ss_pred cCccccCCCcceeccC------ccceeecCCCCCCcccC
Q 014873 186 SRFCGHCGEKTIPKEA------GKLKQCSNASCKKRIYP 218 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~------g~~~~C~~~~C~~~~yp 218 (417)
+-.||.||......++ .....|| .||.....
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp--~Cg~~l~~ 135 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLDMDGTFTCP--RCGEELEE 135 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcCCCCcEECC--CCCCEEEE
Confidence 4669999988654322 2238997 59986543
No 258
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=22.08 E-value=37 Score=28.84 Aligned_cols=22 Identities=36% Similarity=0.887 Sum_probs=16.6
Q ss_pred cCccceeecCCCCCCcccC-CcCcE
Q 014873 200 EAGKLKQCSNASCKKRIYP-RVDPV 223 (417)
Q Consensus 200 ~~g~~~~C~~~~C~~~~yp-r~~pv 223 (417)
+-|.+|+|+ +||..+|- +-+|+
T Consensus 5 elGtKR~Cp--~CG~kFYDLnk~Pi 27 (108)
T PF09538_consen 5 ELGTKRTCP--SCGAKFYDLNKDPI 27 (108)
T ss_pred ccCCcccCC--CCcchhccCCCCCc
Confidence 568899997 69999996 23554
No 259
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=21.86 E-value=46 Score=39.47 Aligned_cols=11 Identities=36% Similarity=0.782 Sum_probs=9.1
Q ss_pred CccccCCCcce
Q 014873 187 RFCGHCGEKTI 197 (417)
Q Consensus 187 ~fC~~CG~~~~ 197 (417)
.|||.||+++.
T Consensus 680 ~fCP~CGs~te 690 (1337)
T PRK14714 680 NRCPDCGTHTE 690 (1337)
T ss_pred ccCcccCCcCC
Confidence 59999999874
No 260
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=21.32 E-value=53 Score=24.41 Aligned_cols=21 Identities=38% Similarity=0.948 Sum_probs=15.6
Q ss_pred cCccccCCCcceeccCccceeecCCCCC
Q 014873 186 SRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (417)
...|+.||....+ -..|+ .||
T Consensus 26 l~~C~~cG~~~~~-----H~vc~--~cG 46 (55)
T TIGR01031 26 LVVCPNCGEFKLP-----HRVCP--SCG 46 (55)
T ss_pred ceECCCCCCcccC-----eeECC--ccC
Confidence 3679999998764 35686 588
No 261
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=21.26 E-value=46 Score=24.39 Aligned_cols=15 Identities=33% Similarity=0.868 Sum_probs=11.8
Q ss_pred cCccccCCCcceecc
Q 014873 186 SRFCGHCGEKTIPKE 200 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (417)
.+|||.|...+...+
T Consensus 34 kKycp~~~khtlhkE 48 (50)
T COG0267 34 KKYCPVCRKHTLHKE 48 (50)
T ss_pred EecCcccccEEEEee
Confidence 589999998876543
No 262
>PRK05978 hypothetical protein; Provisional
Probab=21.19 E-value=61 Score=29.17 Aligned_cols=29 Identities=21% Similarity=0.571 Sum_probs=19.7
Q ss_pred cCccccCCCcce-eccCccceeecCCCCCCcc
Q 014873 186 SRFCGHCGEKTI-PKEAGKLKQCSNASCKKRI 216 (417)
Q Consensus 186 ~~fC~~CG~~~~-~~~~g~~~~C~~~~C~~~~ 216 (417)
..-||+||+.-. ..--.-+..|+ .||..+
T Consensus 33 ~grCP~CG~G~LF~g~Lkv~~~C~--~CG~~~ 62 (148)
T PRK05978 33 RGRCPACGEGKLFRAFLKPVDHCA--ACGEDF 62 (148)
T ss_pred cCcCCCCCCCcccccccccCCCcc--ccCCcc
Confidence 467999997753 33334677797 598753
No 263
>PF00471 Ribosomal_L33: Ribosomal protein L33; InterPro: IPR001705 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L33 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L33 has been shown to be on the surface of 50S subunit. L33 belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, , ], groups: Eubacterial L33. Algal and plant chloroplast L33. Cyanelle L33. L33 is a small protein of 49 to 66 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3PIO_1 3PIP_1 3PYT_3 3MS1_3 3F1F_6 3F1H_6 3MRZ_3 3PYO_3 3D5B_6 3D5D_6 ....
Probab=21.06 E-value=40 Score=24.37 Aligned_cols=15 Identities=33% Similarity=0.926 Sum_probs=11.5
Q ss_pred cCccccCCCcceecc
Q 014873 186 SRFCGHCGEKTIPKE 200 (417)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (417)
.+|||.|+..+...+
T Consensus 32 kKycp~~~khtlhkE 46 (48)
T PF00471_consen 32 KKYCPRCRKHTLHKE 46 (48)
T ss_dssp EEEETSSSSEEEEEC
T ss_pred eccCCCCCCEecEEE
Confidence 489999998876543
No 264
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=20.95 E-value=69 Score=23.36 Aligned_cols=19 Identities=11% Similarity=0.083 Sum_probs=13.0
Q ss_pred HHhhhhccCccccCCCcce
Q 014873 179 LLEWHNVSRFCGHCGEKTI 197 (417)
Q Consensus 179 l~~W~~~~~fC~~CG~~~~ 197 (417)
+..|...+..||.||.++.
T Consensus 28 i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 28 IEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred HHHHHHHCCCCCCCcCCCC
Confidence 3334444678999998874
No 265
>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]
Probab=20.86 E-value=34 Score=34.27 Aligned_cols=49 Identities=18% Similarity=0.322 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhhhhccCccccCCCcceeccCc---cceeecCCCCCCcccCC
Q 014873 170 LAIAGHARALLEWHNVSRFCGHCGEKTIPKEAG---KLKQCSNASCKKRIYPR 219 (417)
Q Consensus 170 ~~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g---~~~~C~~~~C~~~~ypr 219 (417)
+....+|.-=..|-....||+.||.+-...... -...|.. .|...||+.
T Consensus 303 ~~vl~qAi~Gqr~~~d~~fCstCG~~ga~KrCs~CKav~YCdq-eCQk~hWf~ 354 (396)
T KOG1710|consen 303 YEVLVQAIFGQRIAADCQFCSTCGHPGAKKRCSQCKAVAYCDQ-ECQKFHWFI 354 (396)
T ss_pred HHHHHHHHcCceeEEecccccccCCCCccchhhhhHHHHHHHH-HHHHhhhHH
Confidence 334455555567888899999999885332111 2234543 466777764
No 266
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=20.84 E-value=88 Score=27.60 Aligned_cols=38 Identities=16% Similarity=0.455 Sum_probs=25.4
Q ss_pred HHHHhhhhccCccccCCCcc-eeccCc--cceeecCCCCCCcc
Q 014873 177 RALLEWHNVSRFCGHCGEKT-IPKEAG--KLKQCSNASCKKRI 216 (417)
Q Consensus 177 ~~l~~W~~~~~fC~~CG~~~-~~~~~g--~~~~C~~~~C~~~~ 216 (417)
..|-.+-..+--|+.||+|= .....+ .-..|. .||...
T Consensus 88 ~~L~~yI~~yVlC~~C~sPdT~l~k~~r~~~l~C~--ACGa~~ 128 (133)
T TIGR00311 88 ERIEDYVRKYVICRECNRPDTRIIKEGRVSLLKCE--ACGAKA 128 (133)
T ss_pred HHHHHHHhheEECCCCCCCCcEEEEeCCeEEEecc--cCCCCC
Confidence 34556667789999999994 333323 446786 699753
No 267
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=20.76 E-value=33 Score=30.96 Aligned_cols=29 Identities=17% Similarity=0.193 Sum_probs=20.9
Q ss_pred ccCccccCCCcceeccC-ccceeecCCCCCCc
Q 014873 185 VSRFCGHCGEKTIPKEA-GKLKQCSNASCKKR 215 (417)
Q Consensus 185 ~~~fC~~CG~~~~~~~~-g~~~~C~~~~C~~~ 215 (417)
.+-+||.||.+....++ ..-..|| .||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~~~F~Cp--~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAMELNFTCP--RCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHHcCCcCC--CCCCE
Confidence 45669999988765443 3578897 59875
No 268
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=20.76 E-value=74 Score=24.30 Aligned_cols=11 Identities=18% Similarity=0.283 Sum_probs=7.4
Q ss_pred cCccccCCCcc
Q 014873 186 SRFCGHCGEKT 196 (417)
Q Consensus 186 ~~fC~~CG~~~ 196 (417)
+--||.|.+++
T Consensus 7 iL~Cp~ck~pL 17 (68)
T PF03966_consen 7 ILACPVCKGPL 17 (68)
T ss_dssp TBB-TTTSSBE
T ss_pred hhcCCCCCCcc
Confidence 34588888887
No 269
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=20.41 E-value=81 Score=27.98 Aligned_cols=37 Identities=14% Similarity=0.344 Sum_probs=25.3
Q ss_pred HHHhhhhccCccccCCCccee-cc--CccceeecCCCCCCcc
Q 014873 178 ALLEWHNVSRFCGHCGEKTIP-KE--AGKLKQCSNASCKKRI 216 (417)
Q Consensus 178 ~l~~W~~~~~fC~~CG~~~~~-~~--~g~~~~C~~~~C~~~~ 216 (417)
.|-..-..+--|+.||+|=.. .. .-+-..|. .||...
T Consensus 94 ~L~~yI~~yVlC~~C~spdT~l~k~~r~~~l~C~--ACGa~~ 133 (138)
T PRK03988 94 KIDRYVKEYVICPECGSPDTKLIKEGRIWVLKCE--ACGAET 133 (138)
T ss_pred HHHHHHHhcEECCCCCCCCcEEEEcCCeEEEEcc--cCCCCC
Confidence 455556678999999999432 22 23577786 699764
No 270
>PRK00595 rpmG 50S ribosomal protein L33; Validated
Probab=20.40 E-value=54 Score=24.22 Aligned_cols=14 Identities=7% Similarity=0.128 Sum_probs=11.1
Q ss_pred cCccccCCCcceec
Q 014873 186 SRFCGHCGEKTIPK 199 (417)
Q Consensus 186 ~~fC~~CG~~~~~~ 199 (417)
.+|||.|+..+...
T Consensus 37 kKycp~~~khtlhk 50 (53)
T PRK00595 37 KKYDPVLRKHVLHK 50 (53)
T ss_pred ECcCCCCCCEEeEE
Confidence 48999999887654
No 271
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=20.06 E-value=71 Score=22.11 Aligned_cols=12 Identities=33% Similarity=0.916 Sum_probs=9.2
Q ss_pred CccccCCCccee
Q 014873 187 RFCGHCGEKTIP 198 (417)
Q Consensus 187 ~fC~~CG~~~~~ 198 (417)
..||.||++...
T Consensus 3 ~~Cp~Cg~~~~~ 14 (47)
T PF14690_consen 3 PRCPHCGSPSVH 14 (47)
T ss_pred ccCCCcCCCceE
Confidence 469999988744
Done!