Query 016616
Match_columns 386
No_of_seqs 431 out of 2686
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 08:27:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016616.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016616hhsearch_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 4.2E-46 9E-51 356.5 17.9 234 64-365 19-279 (279)
2 KOG3084 NADH pyrophosphatase I 100.0 9.3E-44 2E-48 341.4 17.0 194 148-375 116-342 (345)
3 PRK00241 nudC NADH pyrophospha 100.0 1.5E-39 3.2E-44 312.6 22.0 189 63-290 11-199 (256)
4 cd03429 NADH_pyrophosphatase N 99.7 6E-17 1.3E-21 140.2 11.6 104 222-365 1-130 (131)
5 cd04511 Nudix_Hydrolase_4 Memb 99.7 7.9E-17 1.7E-21 138.7 10.1 91 207-301 1-117 (130)
6 cd04700 DR1025_like DR1025 fro 99.6 1.5E-15 3.2E-20 133.3 9.1 94 214-308 6-130 (142)
7 COG1051 ADP-ribose pyrophospha 99.6 7.3E-15 1.6E-19 130.1 9.6 75 214-290 3-78 (145)
8 PLN02325 nudix hydrolase 99.6 1.3E-14 2.8E-19 128.0 11.0 69 215-285 3-72 (144)
9 cd04679 Nudix_Hydrolase_20 Mem 99.6 1.5E-14 3.4E-19 123.0 10.2 83 222-305 3-117 (125)
10 cd04691 Nudix_Hydrolase_32 Mem 99.6 2E-14 4.2E-19 121.9 10.3 78 224-303 3-108 (117)
11 cd04680 Nudix_Hydrolase_21 Mem 99.5 1.8E-14 3.9E-19 121.0 8.6 82 223-307 2-112 (120)
12 cd04683 Nudix_Hydrolase_24 Mem 99.5 2.1E-14 4.7E-19 121.0 9.1 61 223-285 2-66 (120)
13 cd04677 Nudix_Hydrolase_18 Mem 99.5 3E-14 6.6E-19 121.7 9.4 64 218-284 4-67 (132)
14 cd03672 Dcp2p mRNA decapping e 99.5 4.4E-14 9.6E-19 124.9 9.4 57 222-280 2-58 (145)
15 cd04681 Nudix_Hydrolase_22 Mem 99.5 6.5E-14 1.4E-18 119.7 10.1 63 223-286 3-66 (130)
16 cd04684 Nudix_Hydrolase_25 Con 99.5 5.8E-14 1.3E-18 118.8 9.7 60 223-284 2-62 (128)
17 cd03673 Ap6A_hydrolase Diadeno 99.5 6E-14 1.3E-18 119.2 9.7 87 224-312 4-125 (131)
18 cd04670 Nudix_Hydrolase_12 Mem 99.5 1.2E-13 2.5E-18 117.9 11.4 63 222-285 3-65 (127)
19 cd03430 GDPMH GDP-mannose glyc 99.5 5.9E-14 1.3E-18 123.6 9.6 57 222-279 13-70 (144)
20 cd04697 Nudix_Hydrolase_38 Mem 99.5 7.9E-14 1.7E-18 119.5 9.4 83 223-306 2-115 (126)
21 cd04696 Nudix_Hydrolase_37 Mem 99.5 8.2E-14 1.8E-18 118.7 9.1 59 221-281 2-60 (125)
22 cd03424 ADPRase_NUDT5 ADP-ribo 99.5 1.3E-13 2.7E-18 119.1 10.4 84 222-306 3-118 (137)
23 cd03675 Nudix_Hydrolase_2 Cont 99.5 1.5E-13 3.3E-18 118.1 10.4 56 224-281 3-58 (134)
24 cd04669 Nudix_Hydrolase_11 Mem 99.5 1.4E-13 3E-18 117.3 9.9 59 225-284 4-62 (121)
25 cd04673 Nudix_Hydrolase_15 Mem 99.5 1.3E-13 2.8E-18 115.8 9.4 57 223-281 2-59 (122)
26 cd04671 Nudix_Hydrolase_13 Mem 99.5 2E-13 4.4E-18 117.1 10.2 60 223-283 2-62 (123)
27 cd03427 MTH1 MutT homolog-1 (M 99.5 1.7E-13 3.6E-18 118.2 9.1 80 222-303 2-111 (137)
28 cd04678 Nudix_Hydrolase_19 Mem 99.5 2E-13 4.2E-18 116.7 9.4 63 222-285 3-66 (129)
29 cd04664 Nudix_Hydrolase_7 Memb 99.5 3.7E-13 8E-18 115.1 10.7 87 225-311 5-126 (129)
30 cd04666 Nudix_Hydrolase_9 Memb 99.5 3E-13 6.5E-18 116.1 9.6 72 233-306 14-118 (122)
31 cd03671 Ap4A_hydrolase_plant_l 99.5 8.2E-13 1.8E-17 116.2 12.3 57 222-280 4-60 (147)
32 cd03426 CoAse Coenzyme A pyrop 99.4 3.4E-13 7.4E-18 120.4 9.6 65 222-286 3-72 (157)
33 PRK15434 GDP-mannose mannosyl 99.4 5.2E-13 1.1E-17 120.1 10.6 55 223-278 19-74 (159)
34 PF00293 NUDIX: NUDIX domain; 99.4 7.9E-13 1.7E-17 111.9 11.2 86 222-308 3-124 (134)
35 PRK09438 nudB dihydroneopterin 99.4 5.8E-13 1.3E-17 117.0 10.6 55 222-278 8-62 (148)
36 cd04693 Nudix_Hydrolase_34 Mem 99.4 4.7E-13 1E-17 114.3 9.4 81 223-305 2-115 (127)
37 cd03428 Ap4A_hydrolase_human_l 99.4 3.6E-13 7.7E-18 114.9 8.5 77 233-312 16-124 (130)
38 cd04687 Nudix_Hydrolase_28 Mem 99.4 4.7E-13 1E-17 114.5 9.1 55 223-279 3-57 (128)
39 cd04682 Nudix_Hydrolase_23 Mem 99.4 5E-13 1.1E-17 113.6 8.9 55 223-279 3-61 (122)
40 cd04690 Nudix_Hydrolase_31 Mem 99.4 8E-13 1.7E-17 110.9 9.9 60 225-287 4-65 (118)
41 PRK11762 nudE adenosine nucleo 99.4 1.2E-12 2.6E-17 120.0 11.8 83 223-306 49-162 (185)
42 cd04667 Nudix_Hydrolase_10 Mem 99.4 8.4E-13 1.8E-17 110.5 9.4 69 233-304 10-102 (112)
43 cd03674 Nudix_Hydrolase_1 Memb 99.4 1.2E-12 2.7E-17 113.9 10.6 54 223-278 4-57 (138)
44 PRK15472 nucleoside triphospha 99.4 8.1E-13 1.8E-17 115.1 9.3 54 224-278 6-62 (141)
45 cd04672 Nudix_Hydrolase_14 Mem 99.4 9.1E-13 2E-17 112.1 9.3 54 223-280 4-57 (123)
46 cd04695 Nudix_Hydrolase_36 Mem 99.4 7.8E-13 1.7E-17 114.0 8.8 83 224-307 5-118 (131)
47 cd04676 Nudix_Hydrolase_17 Mem 99.4 1.4E-12 3E-17 109.9 9.8 58 221-281 2-59 (129)
48 PRK00714 RNA pyrophosphohydrol 99.4 1.8E-12 3.9E-17 115.8 10.6 60 221-282 8-67 (156)
49 PRK10729 nudF ADP-ribose pyrop 99.4 2.3E-12 5E-17 120.2 11.4 97 215-312 44-180 (202)
50 cd04699 Nudix_Hydrolase_39 Mem 99.4 1.4E-12 3E-17 110.5 8.7 60 222-282 2-64 (129)
51 PRK05379 bifunctional nicotina 99.4 2E-12 4.4E-17 129.4 11.3 62 215-278 197-259 (340)
52 TIGR00052 nudix-type nucleosid 99.4 1.6E-12 3.6E-17 119.6 9.7 93 217-310 41-172 (185)
53 cd04689 Nudix_Hydrolase_30 Mem 99.4 2.5E-12 5.3E-17 109.4 9.1 57 224-284 4-60 (125)
54 cd04692 Nudix_Hydrolase_33 Mem 99.4 3.3E-12 7.1E-17 111.9 9.8 56 223-278 4-65 (144)
55 cd04661 MRP_L46 Mitochondrial 99.3 3.2E-12 7E-17 110.8 8.8 47 233-279 12-58 (132)
56 PRK15393 NUDIX hydrolase YfcD; 99.3 2.9E-12 6.3E-17 117.2 8.9 82 222-304 38-150 (180)
57 cd04686 Nudix_Hydrolase_27 Mem 99.3 7.3E-12 1.6E-16 108.2 10.2 51 224-278 3-53 (131)
58 cd04688 Nudix_Hydrolase_29 Mem 99.3 5.5E-12 1.2E-16 107.4 9.1 57 224-284 4-60 (126)
59 PRK10546 pyrimidine (deoxy)nuc 99.3 5.9E-12 1.3E-16 108.2 8.7 53 227-280 9-63 (135)
60 cd02885 IPP_Isomerase Isopente 99.3 4.1E-12 8.8E-17 114.2 7.8 57 222-279 31-91 (165)
61 cd04694 Nudix_Hydrolase_35 Mem 99.3 1.4E-11 3.1E-16 108.8 10.9 57 223-280 3-62 (143)
62 PRK10776 nucleoside triphospha 99.3 1.1E-11 2.4E-16 104.7 9.3 56 226-282 9-66 (129)
63 cd03425 MutT_pyrophosphohydrol 99.3 1.2E-11 2.6E-16 103.1 8.9 62 223-285 3-66 (124)
64 PRK10707 putative NUDIX hydrol 99.2 2.7E-11 5.9E-16 112.0 9.7 68 221-288 31-102 (190)
65 cd04674 Nudix_Hydrolase_16 Mem 99.2 5E-11 1.1E-15 102.3 10.0 70 220-290 3-74 (118)
66 PRK03759 isopentenyl-diphospha 99.2 2.4E-11 5.3E-16 111.3 8.4 59 220-279 33-95 (184)
67 PRK15009 GDP-mannose pyrophosp 99.2 7.9E-11 1.7E-15 109.0 11.3 94 216-311 41-174 (191)
68 TIGR02150 IPP_isom_1 isopenten 99.2 5.6E-11 1.2E-15 106.4 9.3 56 222-280 28-87 (158)
69 cd04685 Nudix_Hydrolase_26 Mem 99.2 6.2E-11 1.3E-15 103.3 8.6 55 223-278 2-59 (133)
70 TIGR00586 mutt mutator mutT pr 99.2 7.5E-11 1.6E-15 100.0 8.7 53 226-279 9-63 (128)
71 cd04665 Nudix_Hydrolase_8 Memb 99.2 1E-10 2.2E-15 100.2 9.1 62 224-290 3-64 (118)
72 cd02883 Nudix_Hydrolase Nudix 99.2 1.4E-10 3E-15 95.6 8.5 56 223-279 2-57 (123)
73 TIGR02705 nudix_YtkD nucleosid 99.2 3.4E-10 7.3E-15 101.7 11.6 61 223-288 26-86 (156)
74 cd03676 Nudix_hydrolase_3 Memb 99.1 1.8E-10 4E-15 104.8 7.9 53 227-279 40-97 (180)
75 cd03670 ADPRase_NUDT9 ADP-ribo 99.1 2.5E-10 5.4E-15 105.3 8.4 43 233-277 48-90 (186)
76 cd04662 Nudix_Hydrolase_5 Memb 99.1 5.6E-10 1.2E-14 96.8 9.3 51 229-279 10-65 (126)
77 PRK08999 hypothetical protein; 99.0 1.8E-09 3.9E-14 106.2 8.8 54 226-280 10-65 (312)
78 PF09296 NUDIX-like: NADH pyro 98.9 3.9E-09 8.4E-14 86.0 7.5 98 64-182 1-98 (98)
79 COG0494 MutT NTP pyrophosphohy 98.9 6.8E-09 1.5E-13 87.0 8.0 66 223-289 13-81 (161)
80 cd04663 Nudix_Hydrolase_6 Memb 98.9 6.7E-09 1.5E-13 90.2 7.5 42 234-278 14-55 (126)
81 PLN03143 nudix hydrolase; Prov 98.9 2E-08 4.3E-13 98.6 11.5 64 215-278 123-190 (291)
82 PLN02709 nudix hydrolase 98.8 1.9E-08 4.1E-13 95.1 8.1 63 223-285 35-106 (222)
83 KOG2839 Diadenosine and diphos 98.7 8.1E-08 1.8E-12 84.4 9.5 71 234-305 24-127 (145)
84 PLN02552 isopentenyl-diphospha 98.7 2.3E-07 5E-12 89.2 11.7 56 222-278 57-133 (247)
85 PLN02791 Nudix hydrolase homol 98.6 1.3E-07 2.8E-12 103.2 9.8 57 222-278 33-93 (770)
86 KOG3041 Nucleoside diphosphate 98.5 2.2E-07 4.7E-12 85.5 7.8 62 216-277 69-133 (225)
87 PF09297 zf-NADH-PPase: NADH p 98.5 5.2E-08 1.1E-12 64.7 2.3 32 184-217 1-32 (32)
88 KOG3069 Peroxisomal NUDIX hydr 98.3 1.5E-06 3.2E-11 82.1 6.9 72 212-283 34-111 (246)
89 COG4119 Predicted NTP pyrophos 98.2 1.8E-06 3.9E-11 74.4 4.9 62 212-278 6-67 (161)
90 cd03431 DNA_Glycosylase_C DNA 97.9 4.9E-05 1.1E-09 62.9 8.2 43 233-275 13-57 (118)
91 COG1443 Idi Isopentenyldiphosp 97.9 2.5E-05 5.4E-10 70.9 6.5 82 223-305 35-155 (185)
92 KOG0648 Predicted NUDIX hydrol 97.6 8.9E-05 1.9E-09 72.6 5.3 58 220-278 114-174 (295)
93 PLN02839 nudix hydrolase 97.4 0.00041 8.9E-09 70.1 8.0 46 233-278 217-266 (372)
94 PF14803 Nudix_N_2: Nudix N-te 97.2 0.00019 4.1E-09 48.4 1.7 30 187-218 1-34 (34)
95 KOG4195 Transient receptor pot 96.4 0.0047 1E-07 58.2 5.0 37 236-274 141-177 (275)
96 PF14815 NUDIX_4: NUDIX domain 96.4 0.0033 7.2E-08 52.6 3.7 50 227-278 3-54 (114)
97 PRK00432 30S ribosomal protein 95.1 0.014 3E-07 42.8 1.9 32 184-218 18-49 (50)
98 COG1998 RPS31 Ribosomal protei 95.0 0.012 2.6E-07 42.8 1.4 34 183-218 16-49 (51)
99 smart00661 RPOL9 RNA polymeras 94.0 0.074 1.6E-06 38.4 3.7 33 187-221 1-35 (52)
100 PF03119 DNA_ligase_ZBD: NAD-d 93.6 0.041 8.8E-07 35.5 1.4 26 188-213 1-27 (28)
101 KOG2937 Decapping enzyme compl 92.9 0.015 3.3E-07 57.8 -2.0 62 215-278 76-137 (348)
102 PF02150 RNA_POL_M_15KD: RNA p 92.4 0.074 1.6E-06 36.0 1.5 28 187-216 2-30 (35)
103 KOG4432 Uncharacterized NUDIX 91.5 0.3 6.5E-06 48.3 5.1 69 217-285 22-119 (405)
104 COG4112 Predicted phosphoester 89.6 1.4 3.1E-05 40.1 7.2 70 233-302 71-186 (203)
105 KOG0142 Isopentenyl pyrophosph 88.5 0.72 1.6E-05 43.3 4.7 82 223-305 54-185 (225)
106 PF13869 NUDIX_2: Nucleotide h 87.8 1.2 2.5E-05 41.5 5.6 41 234-277 58-98 (188)
107 PF13248 zf-ribbon_3: zinc-rib 82.9 0.48 1E-05 29.8 0.4 10 186-195 16-25 (26)
108 COG4111 Uncharacterized conser 80.1 1.6 3.5E-05 42.4 3.1 47 316-367 218-266 (322)
109 PF13240 zinc_ribbon_2: zinc-r 80.0 0.89 1.9E-05 27.9 0.9 22 188-215 1-22 (23)
110 PRK13844 recombination protein 80.0 1.5 3.3E-05 41.2 2.9 90 172-274 43-134 (200)
111 PF12773 DZR: Double zinc ribb 79.0 1.3 2.7E-05 31.7 1.6 32 184-218 10-41 (50)
112 PF07282 OrfB_Zn_ribbon: Putat 78.8 1.4 3E-05 33.7 1.9 34 179-215 22-55 (69)
113 COG1594 RPB9 DNA-directed RNA 77.9 1.4 2.9E-05 37.7 1.7 29 186-216 2-32 (113)
114 PF06677 Auto_anti-p27: Sjogre 75.6 3.2 6.8E-05 29.2 2.8 33 178-213 9-41 (41)
115 COG1645 Uncharacterized Zn-fin 75.1 2.9 6.2E-05 36.7 3.0 31 175-215 23-53 (131)
116 PF01396 zf-C4_Topoisom: Topoi 74.3 2.8 6E-05 29.0 2.2 30 187-216 2-34 (39)
117 TIGR00615 recR recombination p 74.2 2.7 5.9E-05 39.3 2.8 90 172-274 39-130 (195)
118 PRK00420 hypothetical protein; 73.0 3.3 7.2E-05 35.4 2.8 27 186-215 23-49 (112)
119 PF07754 DUF1610: Domain of un 72.1 2.6 5.7E-05 26.3 1.5 24 189-214 1-24 (24)
120 COG0353 RecR Recombinational D 70.1 2.6 5.6E-05 39.4 1.7 91 172-275 40-132 (198)
121 KOG4548 Mitochondrial ribosoma 69.9 12 0.00026 36.4 6.1 44 234-277 139-183 (263)
122 PRK00398 rpoP DNA-directed RNA 69.8 4.6 9.9E-05 28.6 2.6 26 188-215 5-30 (46)
123 PF09889 DUF2116: Uncharacteri 69.6 0.98 2.1E-05 34.3 -1.0 26 185-215 2-27 (59)
124 PF12677 DUF3797: Domain of un 69.6 3.4 7.3E-05 30.1 1.8 36 177-215 4-47 (49)
125 PF04606 Ogr_Delta: Ogr/Delta- 69.6 3.4 7.4E-05 29.6 1.9 29 188-216 1-37 (47)
126 KOG4313 Thiamine pyrophosphoki 68.8 5.1 0.00011 38.9 3.4 99 175-278 83-196 (306)
127 KOG1689 mRNA cleavage factor I 68.5 14 0.00031 33.9 6.0 48 226-276 75-123 (221)
128 PF09538 FYDLN_acid: Protein o 68.2 3.2 6.9E-05 35.3 1.7 31 185-218 8-38 (108)
129 PF06044 DRP: Dam-replacing fa 68.1 2.6 5.7E-05 40.7 1.3 38 176-215 20-62 (254)
130 PRK00076 recR recombination pr 67.4 5.7 0.00012 37.2 3.4 90 172-274 39-130 (196)
131 TIGR01384 TFS_arch transcripti 67.0 3.4 7.3E-05 34.2 1.6 28 187-218 1-28 (104)
132 COG1096 Predicted RNA-binding 65.8 3.6 7.8E-05 38.2 1.7 28 186-217 149-176 (188)
133 smart00532 LIGANc Ligase N fam 65.0 3.8 8.1E-05 43.0 1.9 30 185-214 398-427 (441)
134 PF07295 DUF1451: Protein of u 64.4 4.2 9.2E-05 36.3 1.8 32 187-220 113-144 (146)
135 PF09151 DUF1936: Domain of un 62.9 6 0.00013 26.2 1.8 29 187-215 2-35 (36)
136 TIGR00575 dnlj DNA ligase, NAD 62.1 4.3 9.4E-05 44.6 1.8 29 186-214 392-420 (652)
137 PRK09678 DNA-binding transcrip 61.3 6.7 0.00015 30.9 2.2 30 187-216 2-39 (72)
138 PRK11032 hypothetical protein; 60.5 5.3 0.00011 36.3 1.7 32 187-220 125-156 (160)
139 TIGR01562 FdhE formate dehydro 58.3 5.9 0.00013 39.6 1.8 39 181-221 179-226 (305)
140 COG1996 RPC10 DNA-directed RNA 57.9 6.1 0.00013 28.9 1.3 32 188-221 8-39 (49)
141 PF03604 DNA_RNApol_7kD: DNA d 57.8 8.5 0.00019 25.6 1.9 26 188-216 2-27 (32)
142 PF08772 NOB1_Zn_bind: Nin one 57.1 4.4 9.6E-05 32.1 0.6 13 186-198 24-36 (73)
143 PF04216 FdhE: Protein involve 57.0 5.5 0.00012 39.1 1.4 38 186-226 172-217 (290)
144 PRK07956 ligA NAD-dependent DN 56.1 6.4 0.00014 43.4 1.8 29 186-214 404-433 (665)
145 COG0272 Lig NAD-dependent DNA 55.2 7 0.00015 42.9 1.9 34 185-218 403-437 (667)
146 KOG2906 RNA polymerase III sub 54.3 8.5 0.00018 32.2 1.8 28 187-216 2-31 (105)
147 KOG4432 Uncharacterized NUDIX 54.3 21 0.00046 35.6 4.8 31 248-278 285-315 (405)
148 PF08271 TF_Zn_Ribbon: TFIIB z 54.1 10 0.00022 26.4 1.9 26 188-215 2-28 (43)
149 TIGR02098 MJ0042_CXXC MJ0042 f 53.7 8 0.00017 26.0 1.3 28 188-217 4-36 (38)
150 TIGR02300 FYDLN_acid conserved 53.7 8.8 0.00019 33.6 1.9 29 185-216 8-36 (129)
151 COG1571 Predicted DNA-binding 53.4 5.2 0.00011 41.6 0.5 37 177-216 341-377 (421)
152 PRK10445 endonuclease VIII; Pr 53.0 7.4 0.00016 37.8 1.5 32 182-213 231-262 (263)
153 PRK14559 putative protein seri 52.8 7.5 0.00016 42.7 1.7 14 184-197 13-26 (645)
154 PRK03564 formate dehydrogenase 52.2 17 0.00037 36.4 3.9 35 185-221 186-228 (309)
155 PF08274 PhnA_Zn_Ribbon: PhnA 52.2 8.8 0.00019 25.2 1.3 27 187-216 3-29 (30)
156 smart00659 RPOLCX RNA polymera 52.0 13 0.00028 26.5 2.2 25 188-215 4-28 (44)
157 PRK10880 adenine DNA glycosyla 49.9 25 0.00055 35.8 4.8 38 233-277 241-280 (350)
158 PF09862 DUF2089: Protein of u 49.8 11 0.00024 32.3 1.9 27 189-221 1-27 (113)
159 PHA02942 putative transposase; 48.7 11 0.00025 38.7 2.1 29 185-216 324-352 (383)
160 PF13453 zf-TFIIB: Transcripti 48.6 12 0.00026 25.8 1.6 29 188-218 1-31 (41)
161 PF10571 UPF0547: Uncharacteri 48.3 12 0.00027 23.6 1.5 23 187-215 1-23 (26)
162 PHA00626 hypothetical protein 47.1 17 0.00037 27.4 2.2 27 188-216 2-33 (59)
163 COG4260 Membrane protease subu 47.1 8.5 0.00018 38.2 0.9 33 180-214 305-342 (345)
164 PRK11827 hypothetical protein; 46.0 16 0.00034 27.9 2.0 34 185-221 7-40 (60)
165 COG3791 Uncharacterized conser 45.7 12 0.00025 32.7 1.5 15 186-200 69-83 (133)
166 PF10083 DUF2321: Uncharacteri 44.6 3.8 8.2E-05 37.0 -1.8 23 184-215 26-48 (158)
167 PF13717 zinc_ribbon_4: zinc-r 44.6 15 0.00032 24.9 1.5 28 188-217 4-36 (36)
168 PRK01103 formamidopyrimidine/5 44.4 13 0.00027 36.4 1.6 31 184-214 243-273 (274)
169 PF01599 Ribosomal_S27: Riboso 44.0 14 0.0003 26.9 1.3 29 184-214 16-46 (47)
170 PF04981 NMD3: NMD3 family ; 43.8 35 0.00076 32.5 4.5 25 189-218 1-25 (236)
171 COG0675 Transposase and inacti 43.6 13 0.00029 35.8 1.6 30 181-217 304-333 (364)
172 TIGR01206 lysW lysine biosynth 43.5 17 0.00038 27.0 1.9 28 188-217 4-33 (54)
173 COG1997 RPL43A Ribosomal prote 42.9 17 0.00037 29.8 1.9 28 186-215 35-62 (89)
174 PRK14350 ligA NAD-dependent DN 42.8 13 0.00028 41.1 1.6 30 185-216 397-426 (669)
175 PRK13945 formamidopyrimidine-D 42.1 14 0.00031 36.2 1.6 31 183-213 251-281 (282)
176 TIGR00577 fpg formamidopyrimid 42.0 14 0.00031 36.0 1.6 31 183-213 242-272 (272)
177 COG5349 Uncharacterized protei 41.7 21 0.00046 31.0 2.4 42 186-229 21-66 (126)
178 KOG2907 RNA polymerase I trans 41.6 8.7 0.00019 32.9 0.0 30 185-216 6-35 (116)
179 PRK14810 formamidopyrimidine-D 41.2 15 0.00032 35.9 1.6 31 183-213 241-271 (272)
180 COG4640 Predicted membrane pro 40.3 15 0.00033 37.9 1.5 25 186-216 1-25 (465)
181 PF12760 Zn_Tnp_IS1595: Transp 40.0 23 0.0005 25.0 2.0 35 177-214 10-45 (46)
182 COG1779 C4-type Zn-finger prot 39.2 64 0.0014 30.4 5.3 88 185-277 13-125 (201)
183 PF13719 zinc_ribbon_5: zinc-r 38.9 18 0.00038 24.6 1.2 27 188-216 4-35 (37)
184 PRK12495 hypothetical protein; 38.6 17 0.00038 34.6 1.5 31 185-219 41-71 (226)
185 PF14952 zf-tcix: Putative tre 38.1 23 0.0005 25.3 1.7 27 185-215 10-36 (44)
186 COG2888 Predicted Zn-ribbon RN 37.9 20 0.00042 27.4 1.4 27 186-214 9-35 (61)
187 PF14205 Cys_rich_KTR: Cystein 37.9 34 0.00074 25.6 2.6 28 187-216 5-38 (55)
188 PRK13130 H/ACA RNA-protein com 37.6 22 0.00048 26.7 1.6 24 184-215 3-26 (56)
189 PRK14811 formamidopyrimidine-D 36.3 20 0.00043 35.1 1.6 32 182-215 231-264 (269)
190 TIGR00244 transcriptional regu 36.0 29 0.00062 31.2 2.4 36 188-225 2-49 (147)
191 PF03487 IL13: Interleukin-13; 35.9 33 0.00071 24.1 2.1 26 249-274 11-36 (43)
192 PRK14890 putative Zn-ribbon RN 35.5 28 0.00061 26.5 1.9 27 187-215 8-34 (59)
193 TIGR00686 phnA alkylphosphonat 35.5 24 0.00053 30.0 1.7 31 187-220 3-33 (109)
194 COG1656 Uncharacterized conser 35.0 17 0.00036 33.2 0.7 35 182-218 92-142 (165)
195 COG1439 Predicted nucleic acid 34.7 19 0.00041 33.3 1.1 15 184-198 151-165 (177)
196 PF12647 RNHCP: RNHCP domain; 34.3 88 0.0019 25.9 4.8 26 187-214 5-32 (92)
197 COG4068 Uncharacterized protei 33.1 21 0.00045 27.2 0.9 24 185-213 7-30 (64)
198 KOG3799 Rab3 effector RIM1 and 32.9 18 0.00038 32.1 0.5 26 183-208 86-111 (169)
199 PF14353 CpXC: CpXC protein 32.5 82 0.0018 26.8 4.6 44 188-238 3-65 (128)
200 PF08792 A2L_zn_ribbon: A2L zi 31.7 40 0.00086 22.5 2.0 29 186-216 3-31 (33)
201 PF04828 GFA: Glutathione-depe 31.5 13 0.00029 28.9 -0.4 15 185-199 47-61 (92)
202 COG4469 CoiA Competence protei 31.4 26 0.00057 35.4 1.5 16 187-202 26-41 (342)
203 PRK10220 hypothetical protein; 31.3 34 0.00075 29.2 2.0 32 186-220 3-34 (111)
204 PF02132 RecR: RecR protein; 30.9 39 0.00085 23.4 1.9 23 175-197 6-28 (41)
205 COG1545 Predicted nucleic-acid 30.9 86 0.0019 27.6 4.6 12 187-198 30-41 (140)
206 TIGR02820 formald_GSH S-(hydro 30.4 19 0.00042 33.4 0.4 15 185-199 88-102 (182)
207 COG2824 PhnA Uncharacterized Z 29.9 59 0.0013 27.7 3.1 32 186-220 3-34 (112)
208 COG3809 Uncharacterized protei 29.6 36 0.00078 27.4 1.7 28 187-216 2-31 (88)
209 PRK09521 exosome complex RNA-b 29.3 36 0.00078 31.3 2.0 33 186-221 149-181 (189)
210 KOG2937 Decapping enzyme compl 29.2 12 0.00026 37.7 -1.2 69 211-279 228-296 (348)
211 PRK14351 ligA NAD-dependent DN 28.7 31 0.00068 38.3 1.7 28 185-214 422-450 (689)
212 PF01927 Mut7-C: Mut7-C RNAse 27.9 49 0.0011 29.2 2.5 32 186-219 91-137 (147)
213 COG3677 Transposase and inacti 27.6 86 0.0019 27.3 3.9 38 176-215 20-62 (129)
214 PF03884 DUF329: Domain of unk 27.4 18 0.00039 27.3 -0.3 28 187-215 3-31 (57)
215 KOG2463 Predicted RNA-binding 27.3 25 0.00053 35.6 0.5 11 187-197 258-268 (376)
216 TIGR01084 mutY A/G-specific ad 26.5 90 0.0019 30.7 4.3 21 233-253 238-260 (275)
217 PRK14714 DNA polymerase II lar 26.3 32 0.00069 40.5 1.2 21 188-215 681-701 (1337)
218 PF01780 Ribosomal_L37ae: Ribo 26.2 36 0.00079 28.0 1.2 30 184-215 33-62 (90)
219 PF13824 zf-Mss51: Zinc-finger 25.7 50 0.0011 24.8 1.8 25 188-217 1-25 (55)
220 PRK00504 rpmG 50S ribosomal pr 25.6 36 0.00078 25.0 1.0 15 186-200 34-48 (50)
221 PRK12496 hypothetical protein; 24.8 31 0.00066 31.3 0.6 24 176-199 120-156 (164)
222 PRK00464 nrdR transcriptional 24.8 50 0.0011 29.8 2.0 35 188-224 2-48 (154)
223 PRK08665 ribonucleotide-diphos 24.6 46 0.00099 37.4 2.1 25 187-215 725-749 (752)
224 PRK04023 DNA polymerase II lar 24.4 42 0.00091 38.7 1.7 25 183-215 623-647 (1121)
225 PF01485 IBR: IBR domain; Int 24.3 54 0.0012 23.8 1.8 30 184-215 16-49 (64)
226 KOG1710 MYND Zn-finger and ank 23.9 27 0.00059 34.9 0.1 49 170-219 303-354 (396)
227 PF14446 Prok-RING_1: Prokaryo 23.1 50 0.0011 24.7 1.4 27 186-216 5-31 (54)
228 smart00834 CxxC_CXXC_SSSS Puta 22.8 58 0.0013 21.8 1.6 26 188-215 7-35 (41)
229 COG3024 Uncharacterized protei 22.7 36 0.00078 26.3 0.6 33 185-218 6-39 (65)
230 PF13408 Zn_ribbon_recom: Reco 22.5 36 0.00078 24.4 0.5 16 184-199 3-18 (58)
231 PF14443 DBC1: DBC1 22.4 94 0.002 27.2 3.1 35 246-280 23-60 (126)
232 PF01873 eIF-5_eIF-2B: Domain 22.2 88 0.0019 27.2 3.0 37 178-216 85-124 (125)
233 PTZ00255 60S ribosomal protein 22.0 65 0.0014 26.6 2.0 30 184-215 34-63 (90)
234 TIGR00373 conserved hypothetic 21.8 32 0.0007 30.9 0.2 29 185-215 108-137 (158)
235 COG0375 HybF Zn finger protein 21.4 50 0.0011 28.4 1.3 15 189-203 89-103 (115)
236 COG3364 Zn-ribbon containing p 21.4 28 0.0006 29.4 -0.3 30 187-218 3-32 (112)
237 PRK06266 transcription initiat 21.3 34 0.00073 31.5 0.2 29 185-215 116-145 (178)
238 PRK14873 primosome assembly pr 21.1 66 0.0014 35.7 2.4 18 62-79 247-264 (665)
239 COG1327 Predicted transcriptio 21.1 59 0.0013 29.4 1.6 32 188-221 2-45 (156)
240 KOG0402 60S ribosomal protein 20.8 80 0.0017 25.8 2.2 27 186-214 36-62 (92)
241 cd04476 RPA1_DBD_C RPA1_DBD_C: 20.7 1.8E+02 0.004 25.7 4.9 28 186-216 34-61 (166)
242 PRK05417 glutathione-dependent 20.7 40 0.00087 31.5 0.6 28 252-279 139-167 (191)
243 smart00647 IBR In Between Ring 20.4 1.1E+02 0.0025 22.0 2.9 31 183-215 15-49 (64)
244 PF07191 zinc-ribbons_6: zinc- 20.3 46 0.00099 26.2 0.7 10 188-197 32-41 (70)
245 PRK00418 DNA gyrase inhibitor; 20.3 43 0.00094 25.7 0.6 29 186-215 6-35 (62)
246 PF14375 Cys_rich_CWC: Cystein 20.1 78 0.0017 22.8 1.9 29 189-220 1-29 (50)
247 PF00471 Ribosomal_L33: Riboso 20.1 41 0.00089 24.4 0.4 15 186-200 32-46 (48)
248 COG0267 RpmG Ribosomal protein 20.1 49 0.0011 24.3 0.8 15 186-200 34-48 (50)
No 1
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.2e-46 Score=356.48 Aligned_cols=234 Identities=40% Similarity=0.703 Sum_probs=190.0
Q ss_pred CcEEEEEeCCceeeecCCCCCCCcceeccccchhhHHHhhhcCcCcccccEEEeeeecCCCceEEEEecCCCCCcccccc
Q 016616 64 DFKVLPFRKGRPLTYSGPGETAPVWHLGWISLGDCKIFLANSGIELKEEALVYLGSRSADDVVYWAIDVSDGDSLASEFG 143 (386)
Q Consensus 64 ~t~~l~f~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vfLG~~~~~~~~~fa~~~~~~~~~~~~~~ 143 (386)
.+++++|+++++++..++. | ++. .... .+......++|.. ++.++|++.+......
T Consensus 19 ~~~~~~~~~~~l~l~~~~~---p------~~~--~~~~------~l~~~~~~~~~~~--~~~~v~~~~l~~~~~~----- 74 (279)
T COG2816 19 STLWLVFSEGKLLLKDGEL---P------FGA--AENL------DLVGEALLGIGEW--GGEPVFAVWLVEEIEL----- 74 (279)
T ss_pred cceEEEEcCCcEEEecCCC---c------cch--hhcC------CchHHHhhhcccc--CCccceeeeccccccc-----
Confidence 7999999999999965332 1 111 1110 1123445677764 5678887765443321
Q ss_pred ccccchhhhHHHhhhcchhhhhhhHHHHHHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCceecCCCCcE
Q 016616 144 SKQLCFVELRTVMVATDWADQRAMADLAIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPV 223 (386)
Q Consensus 144 ~~~~~~~~lR~~~~~~~~~~~~~~~~~~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p~ 223 (386)
..+..+++||+++..+ +...+.++++|++|++|+++||||++||++|.+.++|++++|+ .|+..+|||++|+
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 2467889999998643 3467899999999999999999999999999999999999998 6999999999999
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC-------------
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP------------- 290 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p------------- 290 (386)
|||+|++ ++++||.++.++++|+|++.+||||+|||+|+||+|||+||+||+|++++|++|||||
T Consensus 147 vIv~v~~--~~~ilLa~~~~h~~g~yS~LAGFVE~GETlE~AV~REv~EE~Gi~V~~vrY~~SQPWPfP~SLMigf~aey 224 (279)
T COG2816 147 VIVAVIR--GDEILLARHPRHFPGMYSLLAGFVEPGETLEQAVAREVFEEVGIKVKNVRYVGSQPWPFPHSLMLGFMAEY 224 (279)
T ss_pred EEEEEec--CCceeecCCCCCCCcceeeeeecccCCccHHHHHHHHHHHhhCeEEeeeeEEeccCCCCchhhhhhheeee
Confidence 9999998 5568888888888999999999999999999999999999999999999999999999
Q ss_pred -------------CeeEeeHHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhhhccccccccccccCCC-CCccCCchhhHH
Q 016616 291 -------------DARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGEL-APIFIPGPFAIA 356 (386)
Q Consensus 291 -------------~a~W~~~eel~~~L~~d~~~~~~~~~~~~~~~i~~~~er~~~~~~~~~~~~~~~-~~~~lP~~~aIA 356 (386)
|++||+++|+..+|..+ +.+ ..+..|+..+||
T Consensus 225 ~sgeI~~d~~Eleda~WFs~~evl~~L~~~----------------------------------~~~~~~li~~~~~~ia 270 (279)
T COG2816 225 DSGEITPDEGELEDARWFSRDEVLPALPPD----------------------------------GTIARRLIEPTLAAIA 270 (279)
T ss_pred ccccccCCcchhhhccccCHhHHhhhcCCC----------------------------------CCcccccccchHHHHH
Confidence 89999999977766521 111 245689999999
Q ss_pred HHHHHHHHc
Q 016616 357 HHLISSWVY 365 (386)
Q Consensus 357 ~~Li~~w~~ 365 (386)
++++++|.+
T Consensus 271 ~~~~~~~~~ 279 (279)
T COG2816 271 RELIKAWAE 279 (279)
T ss_pred HHHHhhhcC
Confidence 999999963
No 2
>KOG3084 consensus NADH pyrophosphatase I of the Nudix family of hydrolases [Replication, recombination and repair]
Probab=100.00 E-value=9.3e-44 Score=341.39 Aligned_cols=194 Identities=53% Similarity=0.921 Sum_probs=170.9
Q ss_pred chhhhHHHhh-hcchhhhhhhHHH-HHHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCC--ceecCCCCcE
Q 016616 148 CFVELRTVMV-ATDWADQRAMADL-AIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCK--KRIYPRVDPV 223 (386)
Q Consensus 148 ~~~~lR~~~~-~~~~~~~~~~~~~-~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~--~~~ypr~~p~ 223 (386)
.|.++|..|. .++ ..++ +++++|+++++|+++++|||.||+++.+.++|.+..|.++.|. ..+|||++|+
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 7899998873 221 2233 8999999999999999999999999999999999999988899 9999999999
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC-------------
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP------------- 290 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p------------- 290 (386)
||+++++.++.++||+|+.++++|+|++++||+|+|||+||||+||++|||||+|+.+.|+.+||||
T Consensus 190 VIm~li~~d~~~~LL~R~~r~~~gl~t~lAGFlEpGES~eeav~REtwEEtGi~V~~I~~~asQPWP~~p~SLMIgc~al 269 (345)
T KOG3084|consen 190 VIMLLIDHDGKHALLGRQKRYPPGLWTCLAGFLEPGESIEEAVRRETWEETGIEVEVISYVASQPWPLMPQSLMIGCLAL 269 (345)
T ss_pred EEEEEEcCCCCEeeeecccCCCCchhhhhhccCCccccHHHHHHHHHHHHhCceeeeEeeeecCCCCCCchHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ----------------CeeEeeHHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhhhccccccccccccCCCCCccCCchhh
Q 016616 291 ----------------DARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGELAPIFIPGPFA 354 (386)
Q Consensus 291 ----------------~a~W~~~eel~~~L~~d~~~~~~~~~~~~~~~i~~~~er~~~~~~~~~~~~~~~~~~~lP~~~a 354 (386)
|++||+++|+.++|.. ++++|-.. . -.++++|++||
T Consensus 270 a~~~~~I~vd~dlEleDaqwF~r~ev~~aL~~------------------kg~~Rv~~---------~-~a~i~~P~~~a 321 (345)
T KOG3084|consen 270 AKLNGKISVDKDLELEDAQWFDREEVKSALTT------------------KGLVRVQI---------E-KALILIPPPFA 321 (345)
T ss_pred HhhCCccccCcchhhhhcccccHHHHHHHHHh------------------cCCccccc---------c-CcceecCChhH
Confidence 8999999999987763 23333221 1 14689999999
Q ss_pred HHHHHHHHHHcccCCCCcccc
Q 016616 355 IAHHLISSWVYKDAPDGVQVQ 375 (386)
Q Consensus 355 IA~~Li~~w~~~~~~~~~~~~ 375 (386)
|||+||.+|++...++.....
T Consensus 322 IA~qLI~~~~~~~~~~~~~~~ 342 (345)
T KOG3084|consen 322 IAHQLILHWVGFVPNNLGSSE 342 (345)
T ss_pred HHHHHHHHHHccchhhhcchh
Confidence 999999999998888765543
No 3
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=100.00 E-value=1.5e-39 Score=312.57 Aligned_cols=189 Identities=29% Similarity=0.498 Sum_probs=155.7
Q ss_pred CCcEEEEEeCCceeeecCCCCCCCcceeccccchhhHHHhhhcCcCcccccEEEeeeecCCCceEEEEecCCCCCccccc
Q 016616 63 PDFKVLPFRKGRPLTYSGPGETAPVWHLGWISLGDCKIFLANSGIELKEEALVYLGSRSADDVVYWAIDVSDGDSLASEF 142 (386)
Q Consensus 63 p~t~~l~f~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vfLG~~~~~~~~~fa~~~~~~~~~~~~~ 142 (386)
+...+++|.+++.++... . +...+.. .. .......+|||.. ++.++|+++++..
T Consensus 11 ~~~~~~~~~~~~~~~~~~-~-------~~~~~~~---~~------~~~~~~~~~lg~~--~~~~~~~~~~~~~------- 64 (256)
T PRK00241 11 DAGWWVVSHEQQLWLPDG-E-------LPFGAAA---NL------DLPGLRALQIGEW--QGEPVWLVRQDPL------- 64 (256)
T ss_pred CCcEEEEEeCCeEEEccC-C-------CCCcccc---cc------CCCccceEEEEee--CCEEEEEEEcCcc-------
Confidence 346688899998887431 1 1112211 11 0123568999986 5679999987632
Q ss_pred cccccchhhhHHHhhhcchhhhhhhHHHHHHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCceecCCCCc
Q 016616 143 GSKQLCFVELRTVMVATDWADQRAMADLAIAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDP 222 (386)
Q Consensus 143 ~~~~~~~~~lR~~~~~~~~~~~~~~~~~~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p 222 (386)
.+..|.+||.+ ..+ ++.+++++++|++|++||++|+|||+||+++....+++++.|+ +|+..+||+++|
T Consensus 65 --~~~~~~~lr~~-~~~------~~~~~~~~~~a~~l~~w~~~~~fC~~CG~~~~~~~~~~~~~C~--~c~~~~yp~~~p 133 (256)
T PRK00241 65 --RGHEMGSLRQL-LDL------DDGLFQLLGRAVQLAEFYRSHRFCGYCGHPMHPSKTEWAMLCP--HCRERYYPRIAP 133 (256)
T ss_pred --ccccchhhhhh-ccC------CHHHHHHHHHHHHHHHHhhcCccccccCCCCeecCCceeEECC--CCCCEECCCCCC
Confidence 14567899998 332 3568899999999999999999999999999999999999997 699999999999
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP 290 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p 290 (386)
+||++|.+ +++|||+|+.+++.|+|++||||||+|||+++||+||++||||+++..++|+++++|+
T Consensus 134 aViv~V~~--~~~iLL~rr~~~~~g~wslPgG~vE~GEs~eeAa~REv~EEtGl~v~~~~~~~s~~~~ 199 (256)
T PRK00241 134 CIIVAVRR--GDEILLARHPRHRNGVYTVLAGFVEVGETLEQCVAREVMEESGIKVKNLRYVGSQPWP 199 (256)
T ss_pred EEEEEEEe--CCEEEEEEccCCCCCcEeCcccCCCCCCCHHHHhhhhhhhccCceeeeeEEEEeEeec
Confidence 99998876 5899999998877899999999999999999999999999999999999999999887
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=99.71 E-value=6e-17 Score=140.18 Aligned_cols=104 Identities=58% Similarity=0.954 Sum_probs=83.3
Q ss_pred cEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC-----------
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP----------- 290 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p----------- 290 (386)
|||++++++. ++++||++|.+++.|.|++|||+++.|||+++||.||++||||+++..+.+++++.+.
T Consensus 1 ~~v~i~l~~~-~~~vLL~~r~~~~~~~w~lPgG~ie~gEt~~~aA~REl~EEtGl~~~~~~~l~~~~~~~~~~~~~~f~~ 79 (131)
T cd03429 1 PAVIVLVIDG-GDRILLARQPRFPPGMYSLLAGFVEPGESLEEAVRREVKEEVGIRVKNIRYVGSQPWPFPSSLMLGFTA 79 (131)
T ss_pred CeEEEEEEeC-CCEEEEEEecCCCCCcCcCCcccccCCCCHHHHHhhhhhhccCceeeeeEEEeecCCCCCceEEEEEEE
Confidence 5788888774 5899999988766889999999999999999999999999999999888877765543
Q ss_pred ---------------CeeEeeHHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhhhccccccccccccCCCCCccCCchhhH
Q 016616 291 ---------------DARWHSREDVKKALTFAEYIKAQRTAAAKVEQMCKGVERGQSLAADFNVESGELAPIFIPGPFAI 355 (386)
Q Consensus 291 ---------------~a~W~~~eel~~~L~~d~~~~~~~~~~~~~~~i~~~~er~~~~~~~~~~~~~~~~~~~lP~~~aI 355 (386)
+++|++.+++.++ . .....+|++.++
T Consensus 80 ~~~~~~~~~~~~E~~~~~w~~~~el~~~-~--------------------------------------~~~~~~~~~~~~ 120 (131)
T cd03429 80 EADSGEIVVDDDELEDARWFSRDEVRAA-G--------------------------------------EGLPELPPPGSI 120 (131)
T ss_pred EEcCCcccCCchhhhccEeecHHHHhhc-c--------------------------------------cCCccCCCcchH
Confidence 4566666665442 0 112358999999
Q ss_pred HHHHHHHHHc
Q 016616 356 AHHLISSWVY 365 (386)
Q Consensus 356 A~~Li~~w~~ 365 (386)
+++++..|++
T Consensus 121 ~~~~~~~~~~ 130 (131)
T cd03429 121 ARQLIEAWLE 130 (131)
T ss_pred HHHHHHHHhc
Confidence 9999999984
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=99.70 E-value=7.9e-17 Score=138.70 Aligned_cols=91 Identities=30% Similarity=0.459 Sum_probs=75.0
Q ss_pred ccCCCCCceecCCCCcEEEEEEEeCCCCEEEEEEeccC-CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEe
Q 016616 207 CSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRF-VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT 285 (386)
Q Consensus 207 C~~~~C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~-~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~ 285 (386)
|+ .|+..+|+++..+|.+++.+ ++++||.+|... ..|.|++|||+|++||++++|++||++||||+++....+++
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 65 79999999998888777776 578999988643 45899999999999999999999999999999986555555
Q ss_pred eeeCC-------------------------CeeEeeHHHHH
Q 016616 286 SQPWP-------------------------DARWHSREDVK 301 (386)
Q Consensus 286 s~p~p-------------------------~a~W~~~eel~ 301 (386)
.+..+ +++|++.++++
T Consensus 77 ~~~~~~~~~~~~~f~~~~~~~~~~~~~e~~~~~~~~~~~l~ 117 (130)
T cd04511 77 VYSVPHISQVYMFYRARLLDLDFAPGPESLEVRLFTEEEIP 117 (130)
T ss_pred EEecCCceEEEEEEEEEEcCCcccCCcchhceEEECHHHCC
Confidence 44433 56899988886
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=99.62 E-value=1.5e-15 Score=133.28 Aligned_cols=94 Identities=24% Similarity=0.338 Sum_probs=74.6
Q ss_pred ceecCCCCcEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeC--C
Q 016616 214 KRIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW--P 290 (386)
Q Consensus 214 ~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~--p 290 (386)
+-+||++.++|.++|++. ++++||+++.. +..+.|++|||+|++|||+++||+||++||||+++..+.+++.+.+ +
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 458999999999999986 55788877654 3468999999999999999999999999999998865554432211 0
Q ss_pred ----------------------------CeeEeeHHHHHHHhhhhh
Q 016616 291 ----------------------------DARWHSREDVKKALTFAE 308 (386)
Q Consensus 291 ----------------------------~a~W~~~eel~~~L~~d~ 308 (386)
+++||+++++.+++...+
T Consensus 85 ~~~~~~~~~f~~~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~~g~ 130 (142)
T cd04700 85 DGVLVLRHVWLAEPEGQTLAPKFTDEIAEASFFSREDVAQLYAQGQ 130 (142)
T ss_pred CCcEEEEEEEEEEecCCccccCCCCCEEEEEEECHHHhhhcccccc
Confidence 688999999988765433
No 7
>COG1051 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]
Probab=99.58 E-value=7.3e-15 Score=130.10 Aligned_cols=75 Identities=36% Similarity=0.440 Sum_probs=61.9
Q ss_pred ceecCCCCcEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC
Q 016616 214 KRIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP 290 (386)
Q Consensus 214 ~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p 290 (386)
...|+.+.++|.+++.. .++|||+||.. +..|.|++||||||.|||+++||.||++||||+++..+++++.+..+
T Consensus 3 ~~~~~~p~~~v~~~i~~--~~~iLLvrR~~~p~~g~WalPGG~ve~GEt~eeaa~REl~EETgL~~~~~~~~~v~~~~ 78 (145)
T COG1051 3 AMGYRTPLVAVGALIVR--NGRILLVRRANEPGAGYWALPGGFVEIGETLEEAARRELKEETGLRVRVLELLAVFDDP 78 (145)
T ss_pred cccCCCcceeeeEEEEe--CCEEEEEEecCCCCCCcEeCCCccCCCCCCHHHHHHHHHHHHhCCcccceeEEEEecCC
Confidence 45677777788777776 45899998885 44689999999999999999999999999999998777777665444
No 8
>PLN02325 nudix hydrolase
Probab=99.58 E-value=1.3e-14 Score=128.04 Aligned_cols=69 Identities=30% Similarity=0.436 Sum_probs=57.0
Q ss_pred eecCCCCcEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEe
Q 016616 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT 285 (386)
Q Consensus 215 ~~ypr~~p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~ 285 (386)
..||++..+|.++|++ +++|||+||.. +..|.|++|||+|+.|||+++||+||++||||+++..+.+++
T Consensus 3 ~~~~~p~~~v~~vi~~--~~~vLL~rr~~~~~~g~W~lPGG~ve~gEs~~~aa~REv~EEtGl~v~~~~~l~ 72 (144)
T PLN02325 3 TGEPIPRVAVVVFLLK--GNSVLLGRRRSSIGDSTFALPGGHLEFGESFEECAAREVKEETGLEIEKIELLT 72 (144)
T ss_pred CCCCCCeEEEEEEEEc--CCEEEEEEecCCCCCCeEECCceeCCCCCCHHHHHHHHHHHHHCCCCcceEEEE
Confidence 3467777788777776 47999999875 335799999999999999999999999999999876655444
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=99.56 E-value=1.5e-14 Score=123.04 Aligned_cols=83 Identities=22% Similarity=0.300 Sum_probs=63.9
Q ss_pred cEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC----------
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP---------- 290 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p---------- 290 (386)
++|.++|++. +++|||++|.+ ...|.|++|||++|+|||+++||+||++||||+++....+++.....
T Consensus 3 ~~~~~~i~~~-~~~vLL~~r~~~~~~~~w~lPgG~ve~gEt~~eaa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~ 81 (125)
T cd04679 3 VGCGAAILRD-DGKLLLVKRLRAPEAGHWGIPGGKVDWMEAVEDAVVREIEEETGLSIHSTRLLCVVDHIIEEPPQHWVA 81 (125)
T ss_pred eEEEEEEECC-CCEEEEEEecCCCCCCeEeCCeeeccCCCCHHHHHHHHHHHHHCCCcccceEEEEEeecccCCCCeEEE
Confidence 3455666664 57899998875 34689999999999999999999999999999988655444322100
Q ss_pred ---------------------CeeEeeHHHHHHHhh
Q 016616 291 ---------------------DARWHSREDVKKALT 305 (386)
Q Consensus 291 ---------------------~a~W~~~eel~~~L~ 305 (386)
+++||+.+++++.|.
T Consensus 82 ~~f~~~~~~~~~~~~~~~E~~~~~W~~~~~l~~~l~ 117 (125)
T cd04679 82 PVYLAENFSGEPRLMEPDKLLELGWFALDALPQPLT 117 (125)
T ss_pred EEEEEeecCCccccCCCccccEEEEeCHHHCCchhH
Confidence 688999999887654
No 10
>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=99.56 E-value=2e-14 Score=121.86 Aligned_cols=78 Identities=36% Similarity=0.505 Sum_probs=61.9
Q ss_pred EEEEEEeCCCCEEEEEEecc---CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC----------
Q 016616 224 VIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP---------- 290 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~---~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p---------- 290 (386)
|++++++ +++|||+||.+ +.+|.|++|||+|++|||+++||+||++||||+++..+.++..+..+
T Consensus 3 v~~vi~~--~~~vLL~rR~~~~~~~~g~w~lPgG~ve~gE~~~~aa~REl~EEtGl~~~~~~~l~~~~~~~~~~~~~~~~ 80 (117)
T cd04691 3 VVGVLFS--DDKVLLERRSLTKNADPGKLNIPGGHIEAGESQEEALLREVQEELGVDPLSYTYLCSLYHPTSELQLLHYY 80 (117)
T ss_pred EEEEEEE--CCEEEEEEeCCCCCCCCCeEECcceeecCCCCHHHHHHHHHHHHHCCCcccceEEEEEeccCCCeEEEEEE
Confidence 4444555 47999999874 25689999999999999999999999999999997666555544332
Q ss_pred ---------------CeeEeeHHHHHHH
Q 016616 291 ---------------DARWHSREDVKKA 303 (386)
Q Consensus 291 ---------------~a~W~~~eel~~~ 303 (386)
+++||+.++++..
T Consensus 81 ~~~~~~~~~~~~E~~~~~W~~~~~l~~~ 108 (117)
T cd04691 81 VVTFWQGEIPAQEAAEVHWMTANDIVLA 108 (117)
T ss_pred EEEEecCCCCcccccccEEcCHHHcchh
Confidence 7889999888763
No 11
>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=99.54 E-value=1.8e-14 Score=120.98 Aligned_cols=82 Identities=30% Similarity=0.352 Sum_probs=64.5
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec-cEEEEeeeeCC-----------
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG-EVVYHTSQPWP----------- 290 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~-~v~~~~s~p~p----------- 290 (386)
+|.++|+++ ++++||.|+... +.|.+|||++++|||+++||+||++||||+.+. .+..++.+...
T Consensus 2 ~~~~~i~~~-~~~vLL~~r~~~--~~w~~PgG~ve~gEt~~~aa~REl~EEtG~~~~~~~~~~~~~~~~~~~~~~~~~~f 78 (120)
T cd04680 2 GARAVVTDA-DGRVLLVRHTYG--PGWYLPGGGLERGETFAEAARRELLEELGIRLAVVAELLGVYYHSASGSWDHVIVF 78 (120)
T ss_pred ceEEEEECC-CCeEEEEEECCC--CcEeCCCCcCCCCCCHHHHHHHHHHHHHCCccccccceEEEEecCCCCCceEEEEE
Confidence 456677775 578999888643 389999999999999999999999999999987 65554433221
Q ss_pred -----------------CeeEeeHHHHHHHhhhh
Q 016616 291 -----------------DARWHSREDVKKALTFA 307 (386)
Q Consensus 291 -----------------~a~W~~~eel~~~L~~d 307 (386)
+++||+.+++++++..+
T Consensus 79 ~~~~~~~~~~~~~~E~~~~~w~~~~~l~~~~~~~ 112 (120)
T cd04680 79 RARADTQPVIRPSHEISEARFFPPDALPEPTTPA 112 (120)
T ss_pred EecccCCCccCCcccEEEEEEECHHHCcccCChH
Confidence 68899999998866543
No 12
>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=99.54 E-value=2.1e-14 Score=121.00 Aligned_cols=61 Identities=31% Similarity=0.500 Sum_probs=49.8
Q ss_pred EEEEEEEeCCCCEEEEEEeccC--CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec--cEEEEe
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF--VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHT 285 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~--~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~--~v~~~~ 285 (386)
+|.++|++ +++|||+||.+. ..|.|++|||+|++|||+++|++||++||||+++. .+.+++
T Consensus 2 ~v~~vi~~--~~~vLL~~r~~~~~~~~~w~lPgG~ve~gE~~~~aa~REl~EEtGl~v~~~~~~~~~ 66 (120)
T cd04683 2 AVYVLLRR--DDEVLLQRRANTGYMDGQWALPAGHLEKGEDAVTAAVREAREEIGVTLDPEDLRLAH 66 (120)
T ss_pred cEEEEEEE--CCEEEEEEccCCCCCCCeEeCCccccCCCCCHHHHHHHHHHHHHCCccChhheEEEE
Confidence 45566666 579999998753 46899999999999999999999999999999875 444443
No 13
>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=99.53 E-value=3e-14 Score=121.69 Aligned_cols=64 Identities=38% Similarity=0.510 Sum_probs=52.5
Q ss_pred CCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEE
Q 016616 218 PRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH 284 (386)
Q Consensus 218 pr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~ 284 (386)
|...+++.+++++. ++++||+++... +.|++|||+|++|||+++||.||++||||+++..+.++
T Consensus 4 ~~~~~~~~~~v~~~-~~~vLL~~r~~~--~~w~~PgG~v~~gEt~~~aa~REl~EE~Gi~~~~~~~~ 67 (132)
T cd04677 4 PLILVGAGVILLNE-QGEVLLQKRSDT--GDWGLPGGAMELGESLEETARRELKEETGLEVEELELL 67 (132)
T ss_pred cccccceEEEEEeC-CCCEEEEEecCC--CcEECCeeecCCCCCHHHHHHHHHHHHhCCeeeeeEEE
Confidence 44566777777775 478999887743 78999999999999999999999999999988655443
No 14
>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=99.52 E-value=4.4e-14 Score=124.87 Aligned_cols=57 Identities=30% Similarity=0.557 Sum_probs=49.6
Q ss_pred cEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
|++.++|++.+++++||+|+.+ .+.|++|||++|+|||+++||+||++||||+++..
T Consensus 2 p~~gaii~~~~~~~vLLvr~~~--~~~W~lPGG~ve~gEs~~~AA~REl~EETGl~v~~ 58 (145)
T cd03672 2 PVYGAIILNEDLDKVLLVKGWK--SKSWSFPKGKINKDEDDHDCAIREVYEETGFDISK 58 (145)
T ss_pred CeeEEEEEeCCCCEEEEEEecC--CCCEECCCccCCCCcCHHHHHHHHHHHhhCcccee
Confidence 6788888886567999999864 35899999999999999999999999999997644
No 15
>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=99.52 E-value=6.5e-14 Score=119.69 Aligned_cols=63 Identities=38% Similarity=0.569 Sum_probs=51.9
Q ss_pred EEEEEEEeCCCCEEEEEEeccC-CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEee
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF-VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTS 286 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~-~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s 286 (386)
+|.++|++. ++++||++|... ..|.|++|||++++||++++||.||++||||+++..+.++++
T Consensus 3 av~~~i~~~-~~~vLL~~r~~~~~~~~w~~PgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~ 66 (130)
T cd04681 3 AVGVLILNE-DGELLVVRRAREPGKGTLDLPGGFVDPGESAEEALIREIREETGLKVTELSYLFS 66 (130)
T ss_pred eEEEEEEcC-CCcEEEEEecCCCCCCcEeCCceeecCCCCHHHHHHHHHHHHhCCcccceeEEEe
Confidence 566667775 568988888643 468999999999999999999999999999998876665544
No 16
>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=99.52 E-value=5.8e-14 Score=118.78 Aligned_cols=60 Identities=33% Similarity=0.396 Sum_probs=50.0
Q ss_pred EEEEEEEeCCCCEEEEEEeccC-CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEE
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF-VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH 284 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~-~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~ 284 (386)
+|.++|++ +++|||+++.+. ..|.|.+|||+||+||++++|++||++||||+++..+.++
T Consensus 2 ~~~~ii~~--~~~vLl~~~~~~~~~~~w~lPgG~ve~gE~~~~aa~RE~~EEtGl~~~~~~~~ 62 (128)
T cd04684 2 GAYAVIPR--DGKLLLIQKNGGPYEGRWDLPGGGIEPGESPEEALHREVLEETGLTVEIGRRL 62 (128)
T ss_pred eeEEEEEe--CCEEEEEEccCCCCCCeEECCCcccCCCCCHHHHHHHHHHHHhCcEeecceee
Confidence 56666776 489999998854 4689999999999999999999999999999987554433
No 17
>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=99.52 E-value=6e-14 Score=119.17 Aligned_cols=87 Identities=28% Similarity=0.332 Sum_probs=65.7
Q ss_pred EEEEEEeCC--CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC-----------
Q 016616 224 VIMLVIDRE--NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP----------- 290 (386)
Q Consensus 224 Vivlv~~~~--~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p----------- 290 (386)
+.+++++.+ +++|||+++.+. +.|.+|||++++|||+++||.||++||||+++..+.+++.+.++
T Consensus 4 a~~ii~~~~~~~~~vLl~~~~~~--~~w~~PgG~v~~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (131)
T cd03673 4 AGGVVFRGSDGGIEVLLIHRPRG--DDWSLPKGKLEPGETPPEAAVREVEEETGIRAEVGDPLGTIRYWFSSSGKRVHKT 81 (131)
T ss_pred EEEEEEEccCCCeEEEEEEcCCC--CcccCCCCccCCCCCHHHHHHHHHhhhhCCceEecceEEEEEEeccCCCCCcceE
Confidence 344444432 378999998753 79999999999999999999999999999987655433322110
Q ss_pred ----------------------CeeEeeHHHHHHHhhhhhHHHH
Q 016616 291 ----------------------DARWHSREDVKKALTFAEYIKA 312 (386)
Q Consensus 291 ----------------------~a~W~~~eel~~~L~~d~~~~~ 312 (386)
+++|++.+++.+.+.+++...+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~E~~~~~W~~~~el~~~~~~~~~~~~ 125 (131)
T cd03673 82 VHWWLMRALGGEFTPQPDEEVDEVRWLPPDEARDRLSYPNDREL 125 (131)
T ss_pred EEEEEEEEcCCCcccCCCCcEEEEEEcCHHHHHHHcCCHhHHHH
Confidence 6889999999988877655443
No 18
>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=99.51 E-value=1.2e-13 Score=117.93 Aligned_cols=63 Identities=30% Similarity=0.460 Sum_probs=51.5
Q ss_pred cEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEe
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT 285 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~ 285 (386)
+.|.++|+++ .++|||++++....+.|.+|||++++|||+++||+||++||||+++....+++
T Consensus 3 ~~~~~~v~~~-~~~vLl~~r~~~~~~~w~~PGG~ve~gEt~~~aa~RE~~EE~Gl~~~~~~~~~ 65 (127)
T cd04670 3 VGVGGLVLNE-KNEVLVVQERNKTPNGWKLPGGLVDPGEDIFDGAVREVLEETGIDTEFVSVVG 65 (127)
T ss_pred eEEEEEEEcC-CCeEEEEEccCCCCCcEECCCccCCCCCCHHHHHHHHHHHHHCCCcceeEEEE
Confidence 4566677775 57899887764457899999999999999999999999999999886555444
No 19
>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=99.51 E-value=5.9e-14 Score=123.62 Aligned_cols=57 Identities=25% Similarity=0.367 Sum_probs=48.4
Q ss_pred cEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
.+|.++|++. +++|||+||.. +.+|+|.+|||+|++|||+++|++||++||||+++.
T Consensus 13 v~v~~vI~~~-~g~vLl~~R~~~p~~g~w~lPGG~ve~gEs~~~aa~RE~~EE~Gl~v~ 70 (144)
T cd03430 13 VSIDLIVENE-DGQYLLGKRTNRPAQGYWFVPGGRIRKNETLTEAFERIAKDELGLEFL 70 (144)
T ss_pred EEEEEEEEeC-CCeEEEEEccCCCCCCcEECCCceecCCCCHHHHHHHHHHHHHCCCcc
Confidence 3566667764 57999988864 457899999999999999999999999999999875
No 20
>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=99.50 E-value=7.9e-14 Score=119.51 Aligned_cols=83 Identities=18% Similarity=0.352 Sum_probs=65.0
Q ss_pred EEEEEEEeCCCCEEEEEEecc---CCCCceEe-eeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC--------
Q 016616 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSC-IAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP-------- 290 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~---~~~g~wsl-PgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p-------- 290 (386)
++.+++++. +++|||++|.. +.+|+|++ |||++++||++++||+||++||||+++..+..++.+.+.
T Consensus 2 ~~~v~i~~~-~~~iLl~~R~~~~~~~~g~w~~~~GG~ve~gE~~~~aa~REl~EEtGl~~~~l~~~~~~~~~~~~~~~~~ 80 (126)
T cd04697 2 ATYIFVFNS-EGKLCVHKRTLTKDWCPGYWDIAFGGVVQAGESYLQNAQRELEEELGIDGVQLTPLGLFYYDTDGNRVWG 80 (126)
T ss_pred eEEEEEEcC-CCeEEEEECCCCCCCCCCcccCcCCcccCCCCCHHHHHHHHHHHHHCCCccccEEeeEEEecCCCceEEE
Confidence 455667775 67899988873 35789999 699999999999999999999999988665544433221
Q ss_pred -------------------CeeEeeHHHHHHHhhh
Q 016616 291 -------------------DARWHSREDVKKALTF 306 (386)
Q Consensus 291 -------------------~a~W~~~eel~~~L~~ 306 (386)
+++|++.+++.+++..
T Consensus 81 ~~f~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~~ 115 (126)
T cd04697 81 KVFSCVYDGPLKLQEEEVEEITWLSINEILQFKEG 115 (126)
T ss_pred EEEEEEECCCCCCCHhHhhheEEcCHHHHHHHhhc
Confidence 7889999998886654
No 21
>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=99.50 E-value=8.2e-14 Score=118.73 Aligned_cols=59 Identities=36% Similarity=0.569 Sum_probs=49.0
Q ss_pred CcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccE
Q 016616 221 DPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV 281 (386)
Q Consensus 221 ~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v 281 (386)
.++|.++|++. +++|||+|+.. ..|.|++|||++++|||+++||+||++||||+++..+
T Consensus 2 ~~~v~~~i~~~-~~~iLL~r~~~-~~~~w~lPGG~ve~gEs~~~aa~REl~EEtGl~~~~~ 60 (125)
T cd04696 2 LVTVGALIYAP-DGRILLVRTTK-WRGLWGVPGGKVEWGETLEEALKREFREETGLKLRDI 60 (125)
T ss_pred ccEEEEEEECC-CCCEEEEEccC-CCCcEeCCceeccCCCCHHHHHHHHHHHHhCCccccc
Confidence 35666677775 57899998764 4689999999999999999999999999999977443
No 22
>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=99.50 E-value=1.3e-13 Score=119.09 Aligned_cols=84 Identities=33% Similarity=0.351 Sum_probs=66.1
Q ss_pred cEEEEEEEeCCCCEEEEEEeccCC--CCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC---------
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRFV--PRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP--------- 290 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~~--~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p--------- 290 (386)
++|.++++++ .+++||+++.+.+ .+.|++|||+|+.||++++||+||++||||+++..+.+++.+...
T Consensus 3 ~~v~v~~~~~-~~~iLl~~~~~~~~~~~~w~~PgG~ve~gEs~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~~~~~~~~ 81 (137)
T cd03424 3 DAVAVLPYDD-DGKVVLVRQYRPPVGGWLLELPAGLIDPGEDPEEAARRELEEETGYEAGDLEKLGSFYPSPGFSDERIH 81 (137)
T ss_pred CEEEEEEEcC-CCeEEEEEeeecCCCCEEEEeCCccCCCCCCHHHHHHHHHHHHHCCCccceEEEeeEecCCcccCccEE
Confidence 3566667775 5889998876543 468999999999999999999999999999998766655543221
Q ss_pred ---------------------CeeEeeHHHHHHHhhh
Q 016616 291 ---------------------DARWHSREDVKKALTF 306 (386)
Q Consensus 291 ---------------------~a~W~~~eel~~~L~~ 306 (386)
+++|++.+++.+++..
T Consensus 82 ~~~~~~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~~ 118 (137)
T cd03424 82 LFLAEDLSPGEEGLLDEGEDIEVVLVPLDEALELLAD 118 (137)
T ss_pred EEEEEcccccccCCCCCCCeeEEEEecHHHHHHHHHc
Confidence 6789999999886653
No 23
>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=99.49 E-value=1.5e-13 Score=118.10 Aligned_cols=56 Identities=41% Similarity=0.463 Sum_probs=46.9
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccE
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV 281 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v 281 (386)
|.+++.+ ++++||.+|.+...+.|.+|||++++|||+++||.||++||||+++...
T Consensus 3 v~~ii~~--~~~vLlv~r~~~~~~~w~~PgG~ve~gEs~~~aa~REl~EEtGl~~~~~ 58 (134)
T cd03675 3 VAAVVER--DGRFLLVEEETDGGLVFNQPAGHLEPGESLIEAAVRETLEETGWHVEPT 58 (134)
T ss_pred EEEEEEE--CCEEEEEEEccCCCceEECCCccCCCCCCHHHHHHHHHHHHHCcccccc
Confidence 3444444 5789999888666789999999999999999999999999999987443
No 24
>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=99.49 E-value=1.4e-13 Score=117.28 Aligned_cols=59 Identities=31% Similarity=0.417 Sum_probs=47.8
Q ss_pred EEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEE
Q 016616 225 IMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH 284 (386)
Q Consensus 225 ivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~ 284 (386)
.++|++. ++++||++|.....+.|++|||+||+|||+++|++||++||||+++.....+
T Consensus 4 ~~ii~~~-~~~vLL~~r~~~~~~~w~lPGG~ve~gEs~~~a~~REl~EEtGl~~~~~~~~ 62 (121)
T cd04669 4 SIVIIND-QGEILLIRRIKPGKTYYVFPGGGIEEGETPEEAAKREALEELGLDVRVEEIF 62 (121)
T ss_pred EEEEEeC-CCEEEEEEEecCCCCcEECCceeccCCCCHHHHHHHHHHHhhCeeEeeeeEE
Confidence 3445553 5799999887555679999999999999999999999999999987544333
No 25
>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=99.49 E-value=1.3e-13 Score=115.85 Aligned_cols=57 Identities=40% Similarity=0.518 Sum_probs=47.4
Q ss_pred EEEEEEEeCCCCEEEEEEeccC-CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccE
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF-VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV 281 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~-~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v 281 (386)
+|++++++ ++++||++|.+. ..+.|.+|||++++|||+++||+||++||||+++...
T Consensus 2 ~v~~ii~~--~~~vLl~~r~~~~~~~~w~~PgG~ie~gE~~~~aa~RE~~EEtGl~~~~~ 59 (122)
T cd04673 2 AVGAVVFR--GGRVLLVRRANPPDAGLWSFPGGKVELGETLEQAALRELLEETGLEAEVG 59 (122)
T ss_pred cEEEEEEE--CCEEEEEEEcCCCCCCeEECCCcccCCCCCHHHHHHHHHHHhhCcEeeec
Confidence 45566666 478999988753 3679999999999999999999999999999986443
No 26
>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=99.48 E-value=2e-13 Score=117.11 Aligned_cols=60 Identities=35% Similarity=0.612 Sum_probs=48.8
Q ss_pred EEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEE
Q 016616 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVY 283 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~ 283 (386)
++.+++++. +++|||.|+.+ ...+.|++|||+|+.|||+++|++||++||||+++....+
T Consensus 2 ~~~~vv~~~-~~~vLl~~r~~~~~~~~w~lPgG~ve~gEt~~~aa~REl~EEtG~~~~~~~~ 62 (123)
T cd04671 2 IVAAVILNN-QGEVLLIQEAKRSCRGKWYLPAGRMEPGETIEEAVKREVKEETGLDCEPTTL 62 (123)
T ss_pred EEEEEEEcC-CCEEEEEEecCCCCCCeEECceeecCCCCCHHHHHHHHHHHHHCCeeecceE
Confidence 344555664 68999988874 3468999999999999999999999999999998855443
No 27
>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=99.47 E-value=1.7e-13 Score=118.19 Aligned_cols=80 Identities=28% Similarity=0.406 Sum_probs=62.8
Q ss_pred cEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC----------
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP---------- 290 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p---------- 290 (386)
++.+++|.+ ++++||++|.. ...|.|++|||+|++||++++||+||++||||+++..+.+++.+.+.
T Consensus 2 ~~~~~~i~~--~~~vLL~~r~~~~~~~~w~~PgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~ 79 (137)
T cd03427 2 LTTLCFIKD--PDKVLLLNRKKGPGWGGWNGPGGKVEPGETPEECAIRELKEETGLTIDNLKLVGIIKFPFPGEEERYGV 79 (137)
T ss_pred eEEEEEEEE--CCEEEEEEecCCCCCCeEeCCceeCCCCCCHHHHHHHHHHHhhCeEeecceEEEEEEEEcCCCCcEEEE
Confidence 355666776 47899888774 35789999999999999999999999999999988665544433211
Q ss_pred -------------------CeeEeeHHHHHHH
Q 016616 291 -------------------DARWHSREDVKKA 303 (386)
Q Consensus 291 -------------------~a~W~~~eel~~~ 303 (386)
+++|++.+++...
T Consensus 80 ~~f~~~~~~~~~~~~~e~~~~~W~~~~el~~~ 111 (137)
T cd03427 80 FVFLATEFEGEPLKESEEGILDWFDIDDLPLL 111 (137)
T ss_pred EEEEECCcccccCCCCccccceEEcHhhcccc
Confidence 6789999998764
No 28
>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=99.47 E-value=2e-13 Score=116.71 Aligned_cols=63 Identities=33% Similarity=0.526 Sum_probs=52.6
Q ss_pred cEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEe
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT 285 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~ 285 (386)
++|.++|++. ++++||++|.. +..+.|.+|||+|++|||+++|++||++||||+++..+.+++
T Consensus 3 ~~v~~ii~~~-~~~iLl~~r~~~~~~~~w~~PGG~ve~gEt~~~Aa~REl~EE~Gl~~~~~~~~~ 66 (129)
T cd04678 3 VGVGVFVLNP-KGKVLLGKRKGSHGAGTWALPGGHLEFGESFEECAAREVLEETGLHIENVQFLT 66 (129)
T ss_pred eEEEEEEECC-CCeEEEEeccCCCCCCeEECCcccccCCCCHHHHHHHHHHHHhCCcccceEEEE
Confidence 3566667775 57999998874 357899999999999999999999999999999987766654
No 29
>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=99.46 E-value=3.7e-13 Score=115.14 Aligned_cols=87 Identities=29% Similarity=0.431 Sum_probs=64.6
Q ss_pred EEEEEeC-CCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeee------eC--------
Q 016616 225 IMLVIDR-ENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQ------PW-------- 289 (386)
Q Consensus 225 ivlv~~~-~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~------p~-------- 289 (386)
.+++++. +++++||+||.+..+|.|.+|||++++|||+++||.||++||||+.+..+.++... .+
T Consensus 5 ~v~~~~~~~~~~vLL~~r~~~~~~~w~~PgG~ve~~Es~~~aa~RE~~EE~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (129)
T cd04664 5 LVVPYRLTGEGRVLLLRRSDKYAGFWQSVTGGIEDGESPAEAARREVAEETGLDPERLTLLDRGASIAFVEFTDNGRVWT 84 (129)
T ss_pred EEEEEEeCCCCEEEEEEeCCCCCCcccccCcccCCCCCHHHHHHHHHHHHHCCChhheEEEeecccccccccCCCceEEE
Confidence 3344442 36789999887656789999999999999999999999999999986433222110 00
Q ss_pred ----------------C----CeeEeeHHHHHHHhhhhhHHH
Q 016616 290 ----------------P----DARWHSREDVKKALTFAEYIK 311 (386)
Q Consensus 290 ----------------p----~a~W~~~eel~~~L~~d~~~~ 311 (386)
+ ++.|++.+++.+++.+++.++
T Consensus 85 ~~~f~~~~~~~~~~~~~~E~~~~~W~~~~e~~~~~~~~~~~~ 126 (129)
T cd04664 85 EHPFAFHLPSDAVVTLDWEHDAFEWVPPEEAAALLLWESNRR 126 (129)
T ss_pred EeEEEEEcCCCCcccCCccccccEecCHHHHHHHHcChhhhh
Confidence 0 789999999998887766543
No 30
>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=99.46 E-value=3e-13 Score=116.09 Aligned_cols=72 Identities=29% Similarity=0.363 Sum_probs=58.3
Q ss_pred CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccE-EEEeeeeC----------------------
Q 016616 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV-VYHTSQPW---------------------- 289 (386)
Q Consensus 233 ~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v-~~~~s~p~---------------------- 289 (386)
..++||.++.+. +.|++|||+|++|||+++||+||++||||+++..+ .+++.+.+
T Consensus 14 ~~~vLLv~~~~~--~~w~~PgG~ve~~E~~~~aa~RE~~EEtG~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~f~~~~~~ 91 (122)
T cd04666 14 EVEVLLVTSRRT--GRWIVPKGGPEKDESPAEAAAREAWEEAGVRGKIGKRPLGRFEYRKRSKNRPPRCEVAVFPLEVTE 91 (122)
T ss_pred ceEEEEEEecCC--CeEECCCCCcCCCCCHHHHHHHHHHHHhCCcccccceEEEEEEeeecCCCCCceEEEEEEEEEEec
Confidence 468999888653 89999999999999999999999999999987655 55543321
Q ss_pred -----C-----CeeEeeHHHHHHHhhh
Q 016616 290 -----P-----DARWHSREDVKKALTF 306 (386)
Q Consensus 290 -----p-----~a~W~~~eel~~~L~~ 306 (386)
+ +++|++++++.+++.+
T Consensus 92 ~~~~~~~~e~~~~~W~~~~ea~~~~~~ 118 (122)
T cd04666 92 ELDEWPEMHQRKRKWFSPEEAALLVEE 118 (122)
T ss_pred cccCCcccCceEEEEecHHHHHHhcCC
Confidence 1 6889999999887765
No 31
>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=99.45 E-value=8.2e-13 Score=116.24 Aligned_cols=57 Identities=30% Similarity=0.466 Sum_probs=50.1
Q ss_pred cEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
++|.+++++. ++++||+||.+.. +.|++|+|++++||++.+||.||++||||+++..
T Consensus 4 ~~v~~ii~~~-~~~vLL~~r~~~~-~~W~~PgG~~e~gE~~~~aA~REv~EEtGl~~~~ 60 (147)
T cd03671 4 PNVGVVLFNE-DGKVFVGRRIDTP-GAWQFPQGGIDEGEDPEQAALRELEEETGLDPDS 60 (147)
T ss_pred ceEEEEEEeC-CCEEEEEEEcCCC-CCEECCcCCCCCCcCHHHHHHHHHHHHHCCCcCc
Confidence 6777888875 5799999998655 8999999999999999999999999999998643
No 32
>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=99.45 E-value=3.4e-13 Score=120.36 Aligned_cols=65 Identities=29% Similarity=0.433 Sum_probs=53.5
Q ss_pred cEEEEEEEeCC-CCEEEEEEeccC---CCCceEeeeeecCCC-CCHHHHHHHHHHHHhCCeeccEEEEee
Q 016616 222 PVVIMLVIDRE-NDRVLLSRQSRF---VPRMWSCIAGFIEPG-ESLEEAVRRETWEETGIEVGEVVYHTS 286 (386)
Q Consensus 222 p~Vivlv~~~~-~~~vLL~rr~~~---~~g~wslPgG~Ve~G-EtleeAa~REv~EEtGl~v~~v~~~~s 286 (386)
.+|++++++.+ +++|||+||... .+|.|++|||+||+| |++++||+||++||||+++..+.+++.
T Consensus 3 ~av~v~l~~~~~~~~vLL~~R~~~~~~~~g~w~lPGG~ve~gdEs~~eaa~REl~EEtGl~~~~~~~l~~ 72 (157)
T cd03426 3 AAVLVLLVEREGELRVLLTKRASHLRSHPGQVAFPGGKVDPGDEDPVATALREAEEEIGLPPDSVEVLGR 72 (157)
T ss_pred eEEEEEEEeCCCceEEEEEEcccccccCCCcEECCCCCcCCCcCCHHHHHHHHHHHHhCCCccceEEEEE
Confidence 36677777654 369999998853 578999999999999 999999999999999998876665554
No 33
>PRK15434 GDP-mannose mannosyl hydrolase NudD; Provisional
Probab=99.44 E-value=5.2e-13 Score=120.13 Aligned_cols=55 Identities=24% Similarity=0.390 Sum_probs=46.8
Q ss_pred EEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 223 VVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
+|.++|.+. .++|||+||.. +..|.|++|||+||+|||+++|++||++||||+++
T Consensus 19 ~v~~vI~~~-~g~VLL~kR~~~~~~g~W~lPGG~VE~GEt~~~Aa~REl~EEtGl~v 74 (159)
T PRK15434 19 SLDFIVENS-RGEFLLGKRTNRPAQGYWFVPGGRVQKDETLEAAFERLTMAELGLRL 74 (159)
T ss_pred EEEEEEECC-CCEEEEEEccCCCCCCcEECCceecCCCCCHHHHHHHHHHHHHCCcc
Confidence 555666654 58999988873 44689999999999999999999999999999985
No 34
>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=99.44 E-value=7.9e-13 Score=111.93 Aligned_cols=86 Identities=34% Similarity=0.567 Sum_probs=67.2
Q ss_pred cEEEEEEEeCCCCEEEEEEeccC---CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC--------
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRF---VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP-------- 290 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~---~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p-------- 290 (386)
++|.++|++. ++++||.++.+. ..+.|.+|||++++|||+++||+||+.||||+++..........+.
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 4677788886 449999999865 4689999999999999999999999999999997443333221111
Q ss_pred -------------------------CeeEeeHHHHHHHhhhhh
Q 016616 291 -------------------------DARWHSREDVKKALTFAE 308 (386)
Q Consensus 291 -------------------------~a~W~~~eel~~~L~~d~ 308 (386)
+++|++++++.++.....
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~W~~~~el~~~~~~~~ 124 (134)
T PF00293_consen 82 EIVIFFIAELPSEQSEIQPQDEEISEVKWVPPDELLELLLNGR 124 (134)
T ss_dssp EEEEEEEEEEEEEESECHTTTTTEEEEEEEEHHHHHHHHHTTH
T ss_pred EEEEEEEEEEeCCccccCCCCccEEEEEEEEHHHhhhchhCcc
Confidence 779999999998765543
No 35
>PRK09438 nudB dihydroneopterin triphosphate pyrophosphatase; Provisional
Probab=99.44 E-value=5.8e-13 Score=116.97 Aligned_cols=55 Identities=31% Similarity=0.558 Sum_probs=46.2
Q ss_pred cEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
..|.+++++. ++++||.+|.. .++.|++|||++|+|||+++||+||++||||+++
T Consensus 8 ~~v~~vi~~~-~~~vLl~~r~~-~~~~W~lPgG~ve~gEs~~~aa~REl~EEtGl~~ 62 (148)
T PRK09438 8 VSVLVVIYTP-DLGVLMLQRAD-DPDFWQSVTGSLEEGETPAQTAIREVKEETGIDV 62 (148)
T ss_pred eEEEEEEEeC-CCeEEEEEecC-CCCcEeCCcccCCCCCCHHHHHHHHHHHHhCcCc
Confidence 3555666665 56898887763 3579999999999999999999999999999987
No 36
>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=99.44 E-value=4.7e-13 Score=114.35 Aligned_cols=81 Identities=25% Similarity=0.418 Sum_probs=60.6
Q ss_pred EEEEEEEeCCCCEEEEEEecc---CCCCceEee-eeecCCCCCHHHHHHHHHHHHhCCeec--cEEEEeee--eC-C---
Q 016616 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQ--PW-P--- 290 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~---~~~g~wslP-gG~Ve~GEtleeAa~REv~EEtGl~v~--~v~~~~s~--p~-p--- 290 (386)
+|.+++++. +++|||++|.. ..+|.|++| ||++++||++ +||+||++||||+++. .+..+..+ .. .
T Consensus 2 ~v~v~~~~~-~g~vLl~~R~~~~~~~pg~w~~p~GG~ve~gE~~-~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~ 79 (127)
T cd04693 2 VVHVCIFNS-KGELLLQKRSPNKDGWPGMWDLSVGGHVQAGETS-TAAEREVKEELGLELDFSELRPLFRYFFEAEGFDD 79 (127)
T ss_pred eEEEEEEeC-CCeEEEEEccCCCCCCCCcccccCCCcCCCCCCH-HHHHHHHHHHhCCCcChhhcEEEEEEEeecCCeEE
Confidence 455666765 67999988874 246899998 8999999999 9999999999999864 33222221 11 0
Q ss_pred ---------------------CeeEeeHHHHHHHhh
Q 016616 291 ---------------------DARWHSREDVKKALT 305 (386)
Q Consensus 291 ---------------------~a~W~~~eel~~~L~ 305 (386)
+++|++.+++.+++.
T Consensus 80 ~~~~~~~~~~~~~~~~~~E~~~~~w~~~~el~~~~~ 115 (127)
T cd04693 80 YYLFYADVEIGKLILQKEEVDEVKFVSKDEIDGLIG 115 (127)
T ss_pred EEEEEecCcccccccCHHHhhhEEEeCHHHHHHHHh
Confidence 788999999888664
No 37
>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=99.44 E-value=3.6e-13 Score=114.94 Aligned_cols=77 Identities=34% Similarity=0.437 Sum_probs=60.4
Q ss_pred CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEE----eee--eC----------------C
Q 016616 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH----TSQ--PW----------------P 290 (386)
Q Consensus 233 ~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~----~s~--p~----------------p 290 (386)
+.++||.++.. +.|.+|||++++|||+++||.||++||||+++..+.++ ..+ .+ .
T Consensus 16 ~~~vLl~~~~~---~~w~~PgG~ve~gEs~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~ 92 (130)
T cd03428 16 EIEYLLLQASY---GHWDFPKGHVEPGEDDLEAALRETEEETGITAEQLFIVLGFKETLNYQVRGKLKTVTYFLAELRPD 92 (130)
T ss_pred CceEEEEEccC---CcCcCCcCCCCCCCCHHHHHHHHHHHHHCCChhhhhhhccceeEEEccccCcceEEEEEEEEeCCC
Confidence 34789998875 89999999999999999999999999999987544332 111 10 0
Q ss_pred ----------CeeEeeHHHHHHHhhhhhHHHH
Q 016616 291 ----------DARWHSREDVKKALTFAEYIKA 312 (386)
Q Consensus 291 ----------~a~W~~~eel~~~L~~d~~~~~ 312 (386)
+++|++++++.+++.+++...+
T Consensus 93 ~~~~~~~E~~~~~W~~~~e~~~~~~~~~~~~~ 124 (130)
T cd03428 93 VEVKLSEEHQDYRWLPYEEALKLLTYEDLKAV 124 (130)
T ss_pred CccccccceeeEEeecHHHHHHHcCchhHHHH
Confidence 7899999999998877665544
No 38
>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=99.43 E-value=4.7e-13 Score=114.46 Aligned_cols=55 Identities=36% Similarity=0.477 Sum_probs=47.2
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
.+.++|++ +++|||+|+.+...+.|.+|||+|++|||+++|++||++||||+++.
T Consensus 3 ~a~~iv~~--~~~vLl~~r~~~~~~~~~lPGG~ve~gEt~~~aa~RE~~EEtGl~v~ 57 (128)
T cd04687 3 SAKAVIIK--NDKILLIKHHDDGGVWYILPGGGQEPGETLEDAAHRECKEEIGIDVE 57 (128)
T ss_pred EEEEEEEE--CCEEEEEEEEcCCCCeEECCCcccCCCCCHHHHHHHHHHHHHCCccc
Confidence 45556665 57999999876556789999999999999999999999999999864
No 39
>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=99.43 E-value=5e-13 Score=113.55 Aligned_cols=55 Identities=35% Similarity=0.512 Sum_probs=46.0
Q ss_pred EEEEEEEeCCCCEEEEEEeccC----CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF----VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~----~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
++++++++ ++++||++|.+. .+|+|.+|||+|+.||++++||.||++||||+++.
T Consensus 3 v~~~~~~~--~g~vLl~~r~~~~~~~~~g~w~~PgG~ve~gE~~~~aa~RE~~EE~Gl~~~ 61 (122)
T cd04682 3 VALALLIG--DGRLLLQLRDDKPGIPYPGHWDLPGGHREGGETPLECVLRELLEEIGLTLP 61 (122)
T ss_pred eEEEEEEc--CCEEEEEEccCCCCCCCCCcEeCCCccccCCCCHHHHHHHHHHHHhCCccc
Confidence 34445555 479999988643 46899999999999999999999999999999874
No 40
>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=99.43 E-value=8e-13 Score=110.92 Aligned_cols=60 Identities=32% Similarity=0.446 Sum_probs=48.7
Q ss_pred EEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc--EEEEeee
Q 016616 225 IMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE--VVYHTSQ 287 (386)
Q Consensus 225 ivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~--v~~~~s~ 287 (386)
.+++++. ++++||+|+.. .+.|.+|||++++||++++||+||++||||+++.. +.+++.+
T Consensus 4 ~~~v~~~-~~~vLl~~r~~--~~~w~~PgG~ve~~Es~~~aa~REl~EEtGl~~~~~~~~~~~~~ 65 (118)
T cd04690 4 AALILVR-DGRVLLVRKRG--TDVFYLPGGKIEAGETPLQALIRELSEELGLDLDPDSLEYLGTF 65 (118)
T ss_pred EEEEEec-CCeEEEEEECC--CCcEECCCCccCCCCCHHHHHHHHHHHHHCCccChhheEEEEEE
Confidence 3444554 46899988763 57899999999999999999999999999998866 6665544
No 41
>PRK11762 nudE adenosine nucleotide hydrolase NudE; Provisional
Probab=99.42 E-value=1.2e-12 Score=119.97 Aligned_cols=83 Identities=25% Similarity=0.333 Sum_probs=64.5
Q ss_pred EEEEEEEeCCCCEEEEEEeccCC--CCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeC-C---------
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFV--PRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW-P--------- 290 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~--~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~-p--------- 290 (386)
+|+++.+++ ++++||+||.+.+ .+.|++|||.||+||++++||+||++||||+++..+.+++.+.. +
T Consensus 49 ~v~v~~~~~-~~~vlLvrq~r~~~~~~~~elPaG~ve~gE~~~~aA~REl~EEtG~~~~~l~~l~~~~~~~~~~~~~~~~ 127 (185)
T PRK11762 49 AVMIVPILD-DDTLLLIREYAAGTERYELGFPKGLIDPGETPLEAANRELKEEVGFGARQLTFLKELSLAPSYFSSKMNI 127 (185)
T ss_pred EEEEEEEeC-CCEEEEEEeecCCCCCcEEEccceeCCCCCCHHHHHHHHHHHHHCCCCcceEEEEEEecCCCccCcEEEE
Confidence 444444553 6789999998654 45799999999999999999999999999999988877765432 1
Q ss_pred -------------------CeeEeeHHHHHHHhhh
Q 016616 291 -------------------DARWHSREDVKKALTF 306 (386)
Q Consensus 291 -------------------~a~W~~~eel~~~L~~ 306 (386)
++.|++.+++.+++..
T Consensus 128 f~a~~~~~~~~~~~e~E~i~~~~~~~~e~~~~~~~ 162 (185)
T PRK11762 128 VLAEDLYPERLEGDEPEPLEVVRWPLADLDELLAR 162 (185)
T ss_pred EEEEccccccCCCCCCceeEEEEEcHHHHHHHHHc
Confidence 5667888888776654
No 42
>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=99.42 E-value=8.4e-13 Score=110.52 Aligned_cols=69 Identities=38% Similarity=0.522 Sum_probs=57.1
Q ss_pred CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC----------------------
Q 016616 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP---------------------- 290 (386)
Q Consensus 233 ~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p---------------------- 290 (386)
++++||+++.. |.|++|||+|++||++++||.||++||||+++..+.+++.+...
T Consensus 10 ~~~vLlv~r~~---~~w~~PgG~ve~gE~~~~aa~REl~EEtGl~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~e 86 (112)
T cd04667 10 GGRVLLVRKSG---SRWALPGGKIEPGETPLQAARRELQEETGLQGLDLLYLFHVDGGSTRHHVFVASVPPSAQPKPSNE 86 (112)
T ss_pred CCEEEEEEcCC---CcEeCCCCcCCCCCCHHHHHHHHHHHHhCCcccceEEEEEEeCCCEEEEEEEEEcCCcCCCCCchh
Confidence 57999999863 89999999999999999999999999999987666655443221
Q ss_pred --CeeEeeHHHHHHHh
Q 016616 291 --DARWHSREDVKKAL 304 (386)
Q Consensus 291 --~a~W~~~eel~~~L 304 (386)
+++|++.+++.++.
T Consensus 87 ~~~~~W~~~~el~~~~ 102 (112)
T cd04667 87 IADCRWLSLDALGDLN 102 (112)
T ss_pred eeEEEEecHHHhhhcc
Confidence 67999999998743
No 43
>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=99.41 E-value=1.2e-12 Score=113.90 Aligned_cols=54 Identities=39% Similarity=0.594 Sum_probs=45.7
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.+.++|++.+.++|||+||.+ .|.|++|||+|++||++++||+||++||||+++
T Consensus 4 ~~~~~v~~~~~~~vLLv~r~~--~~~w~lPgG~ve~gE~~~~aa~REl~EEtGl~~ 57 (138)
T cd03674 4 TASAFVVNPDRGKVLLTHHRK--LGSWLQPGGHIDPDESLLEAALRELREETGIEL 57 (138)
T ss_pred EEEEEEEeCCCCeEEEEEEcC--CCcEECCceecCCCCCHHHHHHHHHHHHHCCCc
Confidence 345566675338999998865 589999999999999999999999999999965
No 44
>PRK15472 nucleoside triphosphatase NudI; Provisional
Probab=99.41 E-value=8.1e-13 Score=115.12 Aligned_cols=54 Identities=35% Similarity=0.639 Sum_probs=44.8
Q ss_pred EEEEEEeCCCCEEEEEEecc---CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 224 VIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~---~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
+++++++. +++|||.||.. ..+|.|++|||+||+|||+++||+||++|||||++
T Consensus 6 ~~~~ii~~-~~~vLl~~R~~~~~~~~g~W~lPgG~ve~gEs~~~aa~REl~EEtGl~~ 62 (141)
T PRK15472 6 IVCPLIQN-DGAYLLCKMADDRGVFPGQWALSGGGVEPGERIEEALRREIREELGEQL 62 (141)
T ss_pred EEEEEEec-CCEEEEEEecccCCCCCCceeCCcccCCCCCCHHHHHHHHHHHHHCCce
Confidence 34444444 68999998763 35699999999999999999999999999999875
No 45
>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=99.41 E-value=9.1e-13 Score=112.08 Aligned_cols=54 Identities=31% Similarity=0.494 Sum_probs=46.1
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
.|.++|++ ++++||.++.+ .+.|.+|||+|++|||+++||+||++||||+.+..
T Consensus 4 ~v~~~i~~--~~~vLL~~~~~--~~~w~~PGG~ve~gEs~~~aa~REl~EEtG~~~~~ 57 (123)
T cd04672 4 DVRAAIFK--DGKILLVREKS--DGLWSLPGGWADVGLSPAENVVKEVKEETGLDVKV 57 (123)
T ss_pred eEEEEEEE--CCEEEEEEEcC--CCcEeCCccccCCCCCHHHHHHHHHHHHhCCeeeE
Confidence 45556666 47899988875 68999999999999999999999999999998743
No 46
>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=99.41 E-value=7.8e-13 Score=113.97 Aligned_cols=83 Identities=29% Similarity=0.432 Sum_probs=61.4
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEE------EEeeeeC--------
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVV------YHTSQPW-------- 289 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~------~~~s~p~-------- 289 (386)
|++...+ .++++||.+|.....|.|.+|||++++|||+++||+||++||||+++..+. +....+.
T Consensus 5 v~~~~~~-~~~~vLl~~r~~~~~g~w~~PgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (131)
T cd04695 5 VLLRSLD-KETKVLLLKRVKTLGGFWCHVAGGVEAGETAWQAALRELKEETGISLPELYNADYLEQFYEANDNRILMAPV 83 (131)
T ss_pred EEEEEcC-CCCEEEEEEecCCCCCcEECCcccccCCCCHHHHHHHHHHHHhCCCccccccccceeeEeecCCceEEEEEE
Confidence 3333333 367899988886567899999999999999999999999999999864321 1111000
Q ss_pred ------------C-----CeeEeeHHHHHHHhhhh
Q 016616 290 ------------P-----DARWHSREDVKKALTFA 307 (386)
Q Consensus 290 ------------p-----~a~W~~~eel~~~L~~d 307 (386)
+ +++|++.+++.+++.+.
T Consensus 84 f~~~~~~~~~~~~~~E~~~~~W~~~~e~~~~~~~~ 118 (131)
T cd04695 84 FVGFVPPHQEVVLNHEHTEYRWCSFAEALELAPFP 118 (131)
T ss_pred EEEEecCCCccccCchhcccEecCHHHHHHhcCCh
Confidence 0 78999999999876653
No 47
>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=99.40 E-value=1.4e-12 Score=109.90 Aligned_cols=58 Identities=41% Similarity=0.591 Sum_probs=48.9
Q ss_pred CcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccE
Q 016616 221 DPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEV 281 (386)
Q Consensus 221 ~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v 281 (386)
.|+|.++|.+. ++++||.||... |.|.+|||++++|||+++|+.||++||||+++...
T Consensus 2 ~~~v~~ii~~~-~~~vLl~~r~~~--~~w~lPgG~v~~~E~~~~aa~REl~EE~Gl~~~~~ 59 (129)
T cd04676 2 LPGVTAVVRDD-EGRVLLIRRSDN--GLWALPGGAVEPGESPADTAVREVREETGLDVEVT 59 (129)
T ss_pred cceEEEEEECC-CCeEEEEEecCC--CcEECCeeccCCCCCHHHHHHHHHHHHhCceeEee
Confidence 35677777764 579999988753 89999999999999999999999999999977533
No 48
>PRK00714 RNA pyrophosphohydrolase; Reviewed
Probab=99.39 E-value=1.8e-12 Score=115.80 Aligned_cols=60 Identities=32% Similarity=0.555 Sum_probs=50.7
Q ss_pred CcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEE
Q 016616 221 DPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVV 282 (386)
Q Consensus 221 ~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~ 282 (386)
.++|.++|++. +++|||+|+.+. ++.|++|||++++||++++||.||++||||+++..+.
T Consensus 8 ~~~v~~~i~~~-~g~vLL~~r~~~-~~~w~~P~G~~~~gE~~~~aa~REl~EEtG~~~~~~~ 67 (156)
T PRK00714 8 RPNVGIILLNR-QGQVFWGRRIGQ-GHSWQFPQGGIDPGETPEQAMYRELYEEVGLRPEDVE 67 (156)
T ss_pred CCeEEEEEEec-CCEEEEEEEcCC-CCeEECCcccCCCCcCHHHHHHHHHHHHhCCCccceE
Confidence 45777778876 579999998753 5899999999999999999999999999999875443
No 49
>PRK10729 nudF ADP-ribose pyrophosphatase NudF; Provisional
Probab=99.39 E-value=2.3e-12 Score=120.23 Aligned_cols=97 Identities=32% Similarity=0.399 Sum_probs=72.5
Q ss_pred eecCCCCcEEEEEEEeCCCCEEEEEEeccCCCC-------ceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeee
Q 016616 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPR-------MWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQ 287 (386)
Q Consensus 215 ~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g-------~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~ 287 (386)
..+.+.+. |+++.+++++++|||+||.|++.+ .|++|+|.+|+||++++||+||+.||||+.+..+.+++++
T Consensus 44 ~vv~~~~~-V~il~~~~~~~~vlLvrQyR~~~~~~~~~~~~lE~PAG~vd~gE~p~~aA~REL~EETGy~a~~~~~l~~~ 122 (202)
T PRK10729 44 EIFERGHA-AVLLPFDPVRDEVVLIEQIRIAAYDTSETPWLLEMVAGMIEEGESVEDVARREAIEEAGLIVGRTKPVLSY 122 (202)
T ss_pred EEEEcCCe-EEEEEEECCCCEEEEEEeeecccccCCCCCeEEEccceEcCCCCCHHHHHHHHHHHHhCceeeEEEEEEEE
Confidence 34555554 445555554679999999988653 6999999999999999999999999999998776655432
Q ss_pred e-CC--------------------------------CeeEeeHHHHHHHhhhhhHHHH
Q 016616 288 P-WP--------------------------------DARWHSREDVKKALTFAEYIKA 312 (386)
Q Consensus 288 p-~p--------------------------------~a~W~~~eel~~~L~~d~~~~~ 312 (386)
. .| ++.|++.+++.+++..+...+.
T Consensus 123 ~~spg~~~e~~~~fla~~~~~~~~~~~~~~de~E~i~v~~~~~~e~~~~~~~G~i~d~ 180 (202)
T PRK10729 123 LASPGGTSERSSIMVGEVDATTASGIHGLADENEDIRVHVVSREQAYQWVEEGKIDNA 180 (202)
T ss_pred EcCCCcCceEEEEEEEEEcchhcccCCCCCCCCCceEEEEEcHHHHHHHHHcCCCCcH
Confidence 1 11 5778999999888765554443
No 50
>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=99.38 E-value=1.4e-12 Score=110.46 Aligned_cols=60 Identities=35% Similarity=0.634 Sum_probs=49.0
Q ss_pred cEEEEEEEeCCCCEEEEEEeccC---CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEE
Q 016616 222 PVVIMLVIDRENDRVLLSRQSRF---VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVV 282 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~~---~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~ 282 (386)
++|.++|.+. ++++||.||... ..|+|++|||++++||++++|++||++||||+++....
T Consensus 2 ~~v~~vv~~~-~~~iLl~kr~~~~~~~~g~w~~PgG~ve~gEs~~~aa~RE~~EE~Gl~~~~~~ 64 (129)
T cd04699 2 VAVAALIVKD-VGRILILKRSKDERTAPGKWELPGGKVEEGETFEEALKREVYEETGLTVTPFL 64 (129)
T ss_pred ceEEEEEECC-CCcEEEEEecCCCCCCCCcCcCCccCccCCCCHHHHHHHHHHHhhCcEEEeee
Confidence 4566666664 478999888743 37899999999999999999999999999999875443
No 51
>PRK05379 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional
Probab=99.38 E-value=2e-12 Score=129.38 Aligned_cols=62 Identities=34% Similarity=0.500 Sum_probs=51.2
Q ss_pred eecCCCCcEEEEEEEeCCCCEEEEEEecc-CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSR-FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 215 ~~ypr~~p~Vivlv~~~~~~~vLL~rr~~-~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.-||++..+|.++|+. .++|||+||.. +..|.|.+|||+|++|||+++||+||++|||||++
T Consensus 197 ~~~~~~~vtv~avv~~--~g~VLLvrR~~~p~~g~W~lPGG~ve~gEt~~~Aa~REl~EETGl~v 259 (340)
T PRK05379 197 APYPPTFVTVDAVVVQ--SGHVLLVRRRAEPGKGLWALPGGFLEQDETLLDACLRELREETGLKL 259 (340)
T ss_pred cCCCCcceEEEEEEEE--CCEEEEEEecCCCCCCeEECCcccCCCCCCHHHHHHHHHHHHHCCcc
Confidence 3467666666666665 56899988875 44789999999999999999999999999999985
No 52
>TIGR00052 nudix-type nucleoside diphosphatase, YffH/AdpP family.
Probab=99.38 E-value=1.6e-12 Score=119.57 Aligned_cols=93 Identities=27% Similarity=0.304 Sum_probs=69.8
Q ss_pred cCCCCcEEEEEEEeCCCCEEEEEEeccCC-------CCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeC
Q 016616 217 YPRVDPVVIMLVIDRENDRVLLSRQSRFV-------PRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW 289 (386)
Q Consensus 217 ypr~~p~Vivlv~~~~~~~vLL~rr~~~~-------~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~ 289 (386)
+.+.. +|.+++++.+++++||+||.|++ ...|++|||++|+||++++||+||++||||+.+..+.+++++..
T Consensus 41 v~~~~-~v~vl~~~~~~~~vlLvrq~R~~~~~~~~~~~~lelPaG~ve~gE~~~~aA~REl~EEtG~~~~~~~~~~~~~~ 119 (185)
T TIGR00052 41 YDRGN-AAAVLLYDPKKDTVVLIEQFRIAAYVNGEEPWLLELSAGMVEKGESPEDVARREAIEEAGYQVKNLRKLLSFYS 119 (185)
T ss_pred EEcCC-eEEEEEEECCCCEEEEEECceeeeeecCCcceEEEECcEecCCCCCHHHHHHHHccccccceecceEEEEEEEc
Confidence 34444 45555666556899999998753 34789999999999999999999999999999988776654322
Q ss_pred C--------------------------------CeeEeeHHHHHHHhhhhhHH
Q 016616 290 P--------------------------------DARWHSREDVKKALTFAEYI 310 (386)
Q Consensus 290 p--------------------------------~a~W~~~eel~~~L~~d~~~ 310 (386)
. ...|++.+++.+++..+++.
T Consensus 120 ~~g~~~~~~~~f~a~~~~~~~~~~~~~~~~E~ie~~~~~~~e~~~~~~~G~i~ 172 (185)
T TIGR00052 120 SPGGVTELIHLFIAEVDDNQAAGIGGGADEEEIEVLHLVFSQALQWIKEGKID 172 (185)
T ss_pred CCCCCcEEEEEEEEEEchhhcCCCCCCCCccceEEEEeCHHHHHHHHHcCCCC
Confidence 1 45688888888776654443
No 53
>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=99.36 E-value=2.5e-12 Score=109.45 Aligned_cols=57 Identities=33% Similarity=0.486 Sum_probs=46.4
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEE
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH 284 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~ 284 (386)
|.++|++ ++++||+|+.. .+.|.+|||++|+|||+++||+||++||||+++....++
T Consensus 4 ~~~vi~~--~~~vLlv~~~~--~~~~~lPGG~ve~gEt~~~aa~REl~EEtGl~~~~~~~l 60 (125)
T cd04689 4 ARAIVRA--GNKVLLARVIG--QPHYFLPGGHVEPGETAENALRRELQEELGVAVSDGRFL 60 (125)
T ss_pred EEEEEEe--CCEEEEEEecC--CCCEECCCCcCCCCCCHHHHHHHHHHHHhCceeeccEEE
Confidence 3444554 67999998863 578999999999999999999999999999987554433
No 54
>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=99.36 E-value=3.3e-12 Score=111.93 Aligned_cols=56 Identities=34% Similarity=0.489 Sum_probs=47.8
Q ss_pred EEEEEEEeCCC--CEEEEEEecc---CCCCceEe-eeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 223 VVIMLVIDREN--DRVLLSRQSR---FVPRMWSC-IAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 223 ~Vivlv~~~~~--~~vLL~rr~~---~~~g~wsl-PgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
+|.++|++.++ +++|+++|.. ..+|.|.+ |||+|++|||+++||+||++|||||++
T Consensus 4 ~v~~~v~~~~~~~~~vLl~~R~~~~~~~pg~W~~~~gG~ve~gEt~~~aa~REl~EEtGl~~ 65 (144)
T cd04692 4 TFHCWIITKDEGKGYVLLQKRSANKKTYPGLWDISSAGHILAGETPLEDGIRELEEELGLDV 65 (144)
T ss_pred EEEEEEEEccCCCCEEEEEecCCCCCCCCCccccccCcccCCCCCHHHHHHHHHHHHhCCCC
Confidence 56778888632 7999999874 35789998 599999999999999999999999965
No 55
>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=99.35 E-value=3.2e-12 Score=110.80 Aligned_cols=47 Identities=28% Similarity=0.298 Sum_probs=41.5
Q ss_pred CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 233 ~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
+.++||+++.....|.|++|+|+||+|||+++||+||++||||+++.
T Consensus 12 ~~~~Llvk~~~~~~g~W~fPgG~ve~gEt~~eaa~REl~EEtGl~v~ 58 (132)
T cd04661 12 DTLVLLVQQKVGSQNHWILPQGKREEGETLRQTAERTLKELCGNNLK 58 (132)
T ss_pred CcEEEEEEeecCCCCeeECCcccccCCCCHHHHHHHHHHHhhCCCce
Confidence 67899998875446899999999999999999999999999999643
No 56
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=99.34 E-value=2.9e-12 Score=117.21 Aligned_cols=82 Identities=28% Similarity=0.492 Sum_probs=60.7
Q ss_pred cEEEEEEEeCCCCEEEEEEecc---CCCCce-EeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeC--------
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMW-SCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPW-------- 289 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~---~~~g~w-slPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~-------- 289 (386)
+++.++|++. .++|||++|.. +.+|.| .+|||+|++|||+++||+||++||||+.+..+.+.+++.+
T Consensus 38 ~~~~v~v~~~-~g~iLL~~R~~~~~~~pg~~~~~pGG~ve~GEs~~eAA~REL~EEtGl~~~~~~~~~~~~~~~~~~~~~ 116 (180)
T PRK15393 38 RATYIVVHDG-MGKILVQRRTETKDFLPGMLDATAGGVVQAGEQLLESARREAEEELGIAGVPFAEHGQFYFEDENCRVW 116 (180)
T ss_pred EEEEEEEECC-CCeEEEEEeCCCCCCCCCcccccCCCcCCCCCCHHHHHHHHHHHHHCCCCccceeceeEEecCCCceEE
Confidence 4556666775 68999988863 345666 5899999999999999999999999998654433222100
Q ss_pred ----------C---------CeeEeeHHHHHHHh
Q 016616 290 ----------P---------DARWHSREDVKKAL 304 (386)
Q Consensus 290 ----------p---------~a~W~~~eel~~~L 304 (386)
. +++|++.+++.+++
T Consensus 117 ~~~f~~~~~~~~~~~~~E~~~~~W~~~~el~~~~ 150 (180)
T PRK15393 117 GALFSCVSHGPFALQEEEVSEVCWMTPEEITARC 150 (180)
T ss_pred EEEEEEEeCCCCCCChHHeeEEEECCHHHHhhhh
Confidence 0 78899999998753
No 57
>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=99.33 E-value=7.3e-12 Score=108.23 Aligned_cols=51 Identities=31% Similarity=0.384 Sum_probs=44.1
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
|.++|++ +++|||+++.+ .+.|.+|||+||+||++++||+||++||||+++
T Consensus 3 ~~~ii~~--~~~vLLv~~~~--~~~w~lPgG~ve~gEt~~~aa~REl~EEtGl~~ 53 (131)
T cd04686 3 VRAIILQ--GDKILLLYTKR--YGDYKFPGGGVEKGEDHIEGLIRELQEETGATN 53 (131)
T ss_pred EEEEEEE--CCEEEEEEEcC--CCcEECccccCCCCCCHHHHHHHHHHHHHCCcc
Confidence 4455666 57899998875 368999999999999999999999999999986
No 58
>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=99.33 E-value=5.5e-12 Score=107.45 Aligned_cols=57 Identities=30% Similarity=0.385 Sum_probs=46.3
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEE
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYH 284 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~ 284 (386)
|.+++++ +++|||+|+.. .+.|.+|||+|++||++++||.||++||||+++....++
T Consensus 4 v~~vi~~--~~~vLl~~~~~--~~~w~lPgG~ve~gEs~~~aa~RE~~EEtGl~~~~~~~~ 60 (126)
T cd04688 4 AAAIIIH--NGKLLVQKNPD--ETFYRPPGGGIEFGESSEEALIREFKEELGLKIEITRLL 60 (126)
T ss_pred EEEEEEE--CCEEEEEEeCC--CCeEECCCccccCCCCHHHHHHHHHHHHhCCceecceee
Confidence 3444555 45999998875 679999999999999999999999999999987554433
No 59
>PRK10546 pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase; Provisional
Probab=99.32 E-value=5.9e-12 Score=108.24 Aligned_cols=53 Identities=36% Similarity=0.609 Sum_probs=44.3
Q ss_pred EEEeCCCCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 227 LVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 227 lv~~~~~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
+|++. +++|||.+|.. ...|+|++|||++++|||+++|++||++||||+++..
T Consensus 9 ~ii~~-~~~vLL~~R~~~~~~~g~w~~PgG~ve~gE~~~~a~~RE~~EE~Gl~~~~ 63 (135)
T PRK10546 9 AIIER-DGKILLAQRPAHSDQAGLWEFAGGKVEPGESQPQALIRELREELGIEATV 63 (135)
T ss_pred EEEec-CCEEEEEEccCCCCCCCcEECCcccCCCCCCHHHHHHHHHHHHHCCcccc
Confidence 33443 67899998864 3568999999999999999999999999999998653
No 60
>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=99.31 E-value=4.1e-12 Score=114.21 Aligned_cols=57 Identities=26% Similarity=0.503 Sum_probs=47.6
Q ss_pred cEEEEEEEeCCCCEEEEEEecc---CCCCceEee-eeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~---~~~g~wslP-gG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
.+|.++|++. +++|||+||.. ..+|.|++| ||++++|||+++||+||++||||+++.
T Consensus 31 ~~v~v~i~~~-~~~iLl~kR~~~~~~~Pg~w~~~~gG~ie~GEt~~eaa~REl~EEtGl~~~ 91 (165)
T cd02885 31 RAFSVFLFNS-KGRLLLQRRALSKYTFPGLWTNTCCSHPLPGEGVKDAAQRRLREELGITGD 91 (165)
T ss_pred eEEEEEEEcC-CCcEEEEeccCCCccCCCcccccccCCCCCCCCHHHHHHHHHHHHhCCCcc
Confidence 3555666775 67899998874 357999986 899999999999999999999999874
No 61
>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=99.31 E-value=1.4e-11 Score=108.82 Aligned_cols=57 Identities=35% Similarity=0.559 Sum_probs=48.3
Q ss_pred EEEEEEEeCCCCEEEEEEecc---CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~---~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
+|.+++++. +++|||+||.. ..+|+|++|||++++||++++|++||++||+|+.+..
T Consensus 3 ~v~viv~~~-~~~vLl~rr~~~~~~~~g~w~~PgG~v~~~E~~~~aa~RE~~EE~gi~~~~ 62 (143)
T cd04694 3 GVAVLLQSS-DQKLLLTRRASSLRIFPNVWVPPGGHVELGENLLEAGLRELNEETGLTLDP 62 (143)
T ss_pred EEEEEEEcC-CCEEEEEEECCCCCCCCCeEECcccccCCCCCHHHHHHHHHHHHHCCCccc
Confidence 455566665 67999999974 3578999999999999999999999999999998643
No 62
>PRK10776 nucleoside triphosphate pyrophosphohydrolase; Provisional
Probab=99.30 E-value=1.1e-11 Score=104.75 Aligned_cols=56 Identities=30% Similarity=0.520 Sum_probs=45.8
Q ss_pred EEEEeCCCCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEE
Q 016616 226 MLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVV 282 (386)
Q Consensus 226 vlv~~~~~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~ 282 (386)
++|.+. ++++||.||.. ...|+|++|||++++||++++|+.||++||||+++....
T Consensus 9 ~ii~~~-~~~vll~rR~~~~~~~g~w~~PgG~~~~gE~~~~a~~Re~~EE~gl~~~~~~ 66 (129)
T PRK10776 9 GIIRNP-NNEIFITRRAADAHMAGKWEFPGGKIEAGETPEQALIRELQEEVGITVQHAT 66 (129)
T ss_pred EEEECC-CCEEEEEEecCCCCCCCeEECCceecCCCCCHHHHHHHHHHHHHCCceecce
Confidence 344453 57999999874 346899999999999999999999999999999864433
No 63
>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=99.29 E-value=1.2e-11 Score=103.13 Aligned_cols=62 Identities=35% Similarity=0.554 Sum_probs=49.5
Q ss_pred EEEEEEEeCCCCEEEEEEeccC--CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEe
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF--VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHT 285 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~--~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~ 285 (386)
++++++.+. ++++||++|.+. ..|+|++|+|+++.+|+++++|.||++||||+++....+++
T Consensus 3 ~~~~~i~~~-~~~~Ll~~r~~~~~~~g~w~~p~G~~~~~e~~~~~a~Re~~EE~g~~~~~~~~~~ 66 (124)
T cd03425 3 VVAAIIIDD-DGRILIAQRPAGKHLGGLWEFPGGKVEPGETPEQALVRELREELGIEVEVGELLA 66 (124)
T ss_pred EEEEEEECC-CCEEEEEEeCCCCCCCCeEeCCCcccCCCCCHHHHHHHHHHHhhCcEEeccceEE
Confidence 445555563 589999888743 57899999999999999999999999999999875544433
No 64
>PRK10707 putative NUDIX hydrolase; Provisional
Probab=99.25 E-value=2.7e-11 Score=112.01 Aligned_cols=68 Identities=25% Similarity=0.316 Sum_probs=53.1
Q ss_pred CcEEEEEEEeCCCCEEEEEEec---cCCCCceEeeeeecCCC-CCHHHHHHHHHHHHhCCeeccEEEEeeee
Q 016616 221 DPVVIMLVIDRENDRVLLSRQS---RFVPRMWSCIAGFIEPG-ESLEEAVRRETWEETGIEVGEVVYHTSQP 288 (386)
Q Consensus 221 ~p~Vivlv~~~~~~~vLL~rr~---~~~~g~wslPgG~Ve~G-EtleeAa~REv~EEtGl~v~~v~~~~s~p 288 (386)
..+|++.+++.+++++|+.||. ++..|.|++|||.+|++ |++++||+||++||||++...+.++++..
T Consensus 31 ~aavvl~l~~~~~~~vLl~~R~~~~r~~~G~~~~PGG~~e~~de~~~~tA~REl~EEtGl~~~~~~~lg~l~ 102 (190)
T PRK10707 31 QAAVLIPIVRRPQPTLLLTQRSIHLRKHAGQVAFPGGAVDPTDASLIATALREAQEEVAIPPSAVEVIGVLP 102 (190)
T ss_pred CeEEEEEEEECCCCEEEEEEeCCcccCCCCcEEcCCcccCCCcccHHHHHHHHHHHHHCCCccceEEEEEee
Confidence 3455554554445688888865 34678999999999985 68999999999999999998888777643
No 65
>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=99.23 E-value=5e-11 Score=102.29 Aligned_cols=70 Identities=30% Similarity=0.398 Sum_probs=51.2
Q ss_pred CCcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec--cEEEEeeeeCC
Q 016616 220 VDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG--EVVYHTSQPWP 290 (386)
Q Consensus 220 ~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~--~v~~~~s~p~p 290 (386)
+.+++++++... ++.+|+.|+.....|.|.+|||+||+||++++|++||++||||+++. .+.++..+..+
T Consensus 3 p~~~av~vl~~~-~~~lL~~r~~~~~~~~w~lPgG~ve~~E~~~~aa~REl~EE~g~~~~~~~l~~~~~~~~~ 74 (118)
T cd04674 3 PLPVVVALLPVD-DGLLVIRRGIEPGRGKLALPGGFIELGETWQDAVARELLEETGVAVDPADIRLFDVRSAP 74 (118)
T ss_pred CcEEEEEEEEEC-CCEEEEEeecCCCCCeEECCceecCCCCCHHHHHHHHHHHHHCCcccccEEEEEEEEecC
Confidence 345666666553 44455544444456899999999999999999999999999999874 45555555555
No 66
>PRK03759 isopentenyl-diphosphate delta-isomerase; Provisional
Probab=99.23 E-value=2.4e-11 Score=111.30 Aligned_cols=59 Identities=34% Similarity=0.594 Sum_probs=48.7
Q ss_pred CCcEEEEEEEeCCCCEEEEEEecc---CCCCceEee-eeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 220 VDPVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 220 ~~p~Vivlv~~~~~~~vLL~rr~~---~~~g~wslP-gG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
..++|.++|++. +++|||+||.. ..+|.|.+| ||++++|||+++||+||++||||+++.
T Consensus 33 ~h~av~v~i~~~-~g~vLL~rR~~~~~~~PG~w~~~~gG~ve~GEt~~~aa~REl~EEtGl~~~ 95 (184)
T PRK03759 33 LHLAFSCYLFDA-DGRLLVTRRALSKKTWPGVWTNSCCGHPQPGESLEDAVIRRCREELGVEIT 95 (184)
T ss_pred eeeEEEEEEEcC-CCeEEEEEccCCCCCCCCcccccccCCCCCCCCHHHHHHHHHHHHhCCCcc
Confidence 345777777775 67899998852 246888876 899999999999999999999999875
No 67
>PRK15009 GDP-mannose pyrophosphatase NudK; Provisional
Probab=99.22 E-value=7.9e-11 Score=109.05 Aligned_cols=94 Identities=26% Similarity=0.315 Sum_probs=70.8
Q ss_pred ecCCCCcEEEEEEEeCCCCEEEEEEeccCCC------C--ceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeee
Q 016616 216 IYPRVDPVVIMLVIDRENDRVLLSRQSRFVP------R--MWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQ 287 (386)
Q Consensus 216 ~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~------g--~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~ 287 (386)
.+.+.+ +|.+++++.++++++|+||.|++. + .|++|||.+|+| ++++||+||++||||+.+..+.+++++
T Consensus 41 vv~~~~-~v~Vl~~~~~~~~vvLvrQyR~~v~~~~~~~~~~lElPAG~vd~~-~p~~aA~REL~EETGy~a~~~~~l~~~ 118 (191)
T PRK15009 41 VYDRGN-GATILLYNAKKKTVVLIRQFRVATWVNGNESGQLIETCAGLLDND-EPEVCIRKEAIEETGYEVGEVRKLFEL 118 (191)
T ss_pred EEEECC-EEEEEEEECCCCEEEEEEcccccccccCCCCceEEEEeccccCCC-CHHHHHHHHHHHhhCCccceEEEeeEE
Confidence 344444 455556666578999999998764 4 688999999976 699999999999999998888776653
Q ss_pred -eCC-------------------------------CeeEeeHHHHHHHhhhhhHHH
Q 016616 288 -PWP-------------------------------DARWHSREDVKKALTFAEYIK 311 (386)
Q Consensus 288 -p~p-------------------------------~a~W~~~eel~~~L~~d~~~~ 311 (386)
+.| ++.|++.+++.+++..+...+
T Consensus 119 ~~spG~s~e~~~lf~a~~~~~~~~~~~~~de~E~iev~~~~~~e~~~~i~~G~i~d 174 (191)
T PRK15009 119 YMSPGGVTELIHFFIAEYSDSQRANAGGGVEDEDIEVLELPFSQALEMIKTGEIRD 174 (191)
T ss_pred EcCCcccCcEEEEEEEEECchhcccCCCCCCCceEEEEEEcHHHHHHHHHcCCCCc
Confidence 222 577999999888776554433
No 68
>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=99.21 E-value=5.6e-11 Score=106.36 Aligned_cols=56 Identities=27% Similarity=0.446 Sum_probs=45.7
Q ss_pred cEEEEEEEeCCCCEEEEEEecc---CCCCceEee-eeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~---~~~g~wslP-gG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
.+|.++|++. +++|||+||.. ..+|+|++| ||+++.|| .+||+||++|||||++..
T Consensus 28 ~~v~v~v~~~-~g~vLl~kR~~~k~~~PG~W~~~~gG~v~~GE--~eaa~REl~EE~Gl~~~~ 87 (158)
T TIGR02150 28 RAFSVFLFNE-EGQLLLQRRALSKITWPGVWTNSCCSHPLPGE--LEAAIRRLREELGIPADD 87 (158)
T ss_pred EEEEEEEEcC-CCeEEEEeccCCCcCCCCCccccccCCCCccc--HHHHHHHHHHHHCCCccc
Confidence 4555667765 67899998874 457999997 79999999 499999999999998643
No 69
>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=99.19 E-value=6.2e-11 Score=103.33 Aligned_cols=55 Identities=47% Similarity=0.665 Sum_probs=46.6
Q ss_pred EEEEEEEeCCCCEEEEEEeccC---CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 223 VVIMLVIDRENDRVLLSRQSRF---VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~---~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
++-+++++. +++|||+|+... ..+.|.+|||+|++||++++|++||++||||+.+
T Consensus 2 ~~~~~i~~~-~g~vLl~r~~~~~~~~~~~w~~PgG~ve~gE~~~~a~~Re~~EE~G~~~ 59 (133)
T cd04685 2 AARVVLLDP-DDRVLLLRGDDPDSPGPDWWFTPGGGVEPGESPEQAARRELREETGITV 59 (133)
T ss_pred eEEEEEEcC-CCeEEEEEEeCCCCCCCCEEECCcCCCCCCCCHHHHHHHHHHHHHCCcc
Confidence 345666765 678999887643 4679999999999999999999999999999977
No 70
>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=99.19 E-value=7.5e-11 Score=99.99 Aligned_cols=53 Identities=28% Similarity=0.415 Sum_probs=44.3
Q ss_pred EEEEeCCCCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 226 MLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 226 vlv~~~~~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
++|++. ++++||.+|.. ...|+|++|||.+++||++++|++||++||||+++.
T Consensus 9 ~ii~~~-~~~vLl~~R~~~~~~~g~w~~Pgg~ve~ge~~~~~~~RE~~EE~g~~~~ 63 (128)
T TIGR00586 9 GIIRNE-NGEIIITRRADGHMFAKLLEFPGGKEEGGETPEQAVVRELEEEIGIPQH 63 (128)
T ss_pred EEEECC-CCEEEEEEEeCCCCCCCeEECCCcccCCCCCHHHHHHHHHHHHHCCcce
Confidence 334443 56899999874 347899999999999999999999999999999764
No 71
>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=99.18 E-value=1e-10 Score=100.25 Aligned_cols=62 Identities=40% Similarity=0.715 Sum_probs=51.5
Q ss_pred EEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeeeCC
Q 016616 224 VIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQPWP 290 (386)
Q Consensus 224 Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p~p 290 (386)
|++++++ ++++||+++. .+.|.+|||++++||++++||+||++||||+.+..+.+++.+..+
T Consensus 3 v~vi~~~--~~~vLl~~~~---~~~w~lPgG~ve~gE~~~~aa~REl~EE~G~~~~~~~~l~~~~~~ 64 (118)
T cd04665 3 VLVICFY--DDGLLLVRHK---DRGWEFPGGHVEPGETIEEAARREVWEETGAELGSLTLVGYYQVD 64 (118)
T ss_pred EEEEEEE--CCEEEEEEeC---CCEEECCccccCCCCCHHHHHHHHHHHHHCCccCceEEEEEEEec
Confidence 3444454 5789999886 468999999999999999999999999999999888888765443
No 72
>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=99.15 E-value=1.4e-10 Score=95.57 Aligned_cols=56 Identities=43% Similarity=0.671 Sum_probs=47.3
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
++.+++++. ++++||.++.+.+.|+|.+|+|+++.||++++++.||++||+|+.+.
T Consensus 2 ~~~~i~~~~-~~~ill~kr~~~~~~~~~~p~G~~~~~e~~~~~a~RE~~EE~Gl~~~ 57 (123)
T cd02883 2 AVGAVILDE-DGRVLLVRRADSPGGLWELPGGGVEPGETLEEAAIREVREETGLDVD 57 (123)
T ss_pred ceEEEEECC-CCCEEEEEEcCCCCCeEeCCcccccCCCCHHHHHHHHHHHhhCccce
Confidence 455666664 37889888875467899999999999999999999999999999774
No 73
>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=99.15 E-value=3.4e-10 Score=101.69 Aligned_cols=61 Identities=36% Similarity=0.439 Sum_probs=49.9
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeeee
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQP 288 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~p 288 (386)
.|.+++.. ++++||.++.+ ..|.+|||++|+||++++||+||++||||+.+..+.+++.+.
T Consensus 26 ~V~ii~~~--~~~~LL~~~~~---~~~elPgG~vE~gEt~~eaA~REl~EETG~~~~~~~~lg~~~ 86 (156)
T TIGR02705 26 HVLVIPRY--KDQWLLTEHKR---RGLEFPGGKVEPGETSKEAAIREVMEETGAIVKELHYIGQYE 86 (156)
T ss_pred EEEEEEEE--CCEEEEEEEcC---CcEECCceecCCCCCHHHHHHHHHHHHhCcEeeeeEEEEEEE
Confidence 44444444 45899988773 459999999999999999999999999999998888877643
No 74
>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=99.11 E-value=1.8e-10 Score=104.79 Aligned_cols=53 Identities=32% Similarity=0.420 Sum_probs=44.5
Q ss_pred EEEeCC-CCEEEEEEecc---CCCCceE-eeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 227 LVIDRE-NDRVLLSRQSR---FVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 227 lv~~~~-~~~vLL~rr~~---~~~g~ws-lPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
++.|.+ +++|+++||+. ..+|+|+ +|+|++++||++++||+||++|||||++.
T Consensus 40 ~~~~~~~~~~l~lqrRs~~K~~~Pg~wd~~~~G~v~~gE~~~~aA~REl~EE~Gl~~~ 97 (180)
T cd03676 40 YVRDEDGGLRIWIPRRSPTKATWPGMLDNLVAGGLGHGEGPEETLVKECDEEAGLPED 97 (180)
T ss_pred EEEcCCCCeEEEEEeccCCCCCCCCceeeecccCCCCCCCHHHHHHHHHHHHhCCCHH
Confidence 344543 37899999983 3689995 99999999999999999999999999764
No 75
>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=99.10 E-value=2.5e-10 Score=105.30 Aligned_cols=43 Identities=21% Similarity=0.391 Sum_probs=37.6
Q ss_pred CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCe
Q 016616 233 NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIE 277 (386)
Q Consensus 233 ~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~ 277 (386)
..++|++++.. .|.|.+|||+|++||++++|++||++||||+.
T Consensus 48 ~l~vLl~~r~~--~g~walPGG~v~~~E~~~~aa~Rel~EEt~l~ 90 (186)
T cd03670 48 ILQFVAIKRPD--SGEWAIPGGMVDPGEKISATLKREFGEEALNS 90 (186)
T ss_pred eeEEEEEEeCC--CCcCcCCeeeccCCCCHHHHHHHHHHHHHccc
Confidence 34788888764 58999999999999999999999999999753
No 76
>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=99.08 E-value=5.6e-10 Score=96.85 Aligned_cols=51 Identities=31% Similarity=0.255 Sum_probs=41.9
Q ss_pred EeCCCCEEEEEEecc-----CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 229 IDRENDRVLLSRQSR-----FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 229 ~~~~~~~vLL~rr~~-----~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
.+.+..+|||+++.. ...+.|++|||+++.||++++||+||++||||+++.
T Consensus 10 ~~~~~~~vlL~~~~~~~~~~~~~~~W~lPgG~ie~~E~~~~aA~REl~EEtGl~~~ 65 (126)
T cd04662 10 FRDGRIEVLLVHPGGPFWANKDLGAWSIPKGEYTEGEDPLLAAKREFSEETGFCVD 65 (126)
T ss_pred EcCCcEEEEEEEccCccccCCCCCEEECCcccCCCCcCHHHHHHHHHHHHhCCcce
Confidence 333345799998632 345799999999999999999999999999999763
No 77
>PRK08999 hypothetical protein; Provisional
Probab=98.96 E-value=1.8e-09 Score=106.16 Aligned_cols=54 Identities=39% Similarity=0.655 Sum_probs=44.9
Q ss_pred EEEEeCCCCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeecc
Q 016616 226 MLVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 226 vlv~~~~~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~ 280 (386)
++|++. ++++||.||.. ...|+|++|+|++++||++++|+.||++||||+.+..
T Consensus 10 ~vi~~~-~~~vLL~kR~~~~~~~g~w~~PgG~ve~gE~~~~aa~RE~~EE~Gl~~~~ 65 (312)
T PRK08999 10 GVIRDA-DGRILLARRPEGKHQGGLWEFPGGKVEPGETVEQALARELQEELGIEVTA 65 (312)
T ss_pred EEEECC-CCeEEEEEecCCCCCCCeEECCccCCCCCCCHHHHHHHHHHHHhCCceec
Confidence 344443 57899998863 4578999999999999999999999999999998643
No 78
>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=98.91 E-value=3.9e-09 Score=85.95 Aligned_cols=98 Identities=28% Similarity=0.329 Sum_probs=54.3
Q ss_pred CcEEEEEeCCceeeecCCCCCCCcceeccccchhhHHHhhhcCcCcccccEEEeeeecCCCceEEEEecCCCCCcccccc
Q 016616 64 DFKVLPFRKGRPLTYSGPGETAPVWHLGWISLGDCKIFLANSGIELKEEALVYLGSRSADDVVYWAIDVSDGDSLASEFG 143 (386)
Q Consensus 64 ~t~~l~f~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vfLG~~~~~~~~~fa~~~~~~~~~~~~~~ 143 (386)
++++++|+++++|+...++. . .+......+. . ......+|||.. +++.+|||++++..... ....
T Consensus 1 ~a~~~~~~~~~~lv~~~~~~--~--~~~~~~~~~~---~------~~~~~~~~LG~~-~gg~~~fa~~~~~~~~~-~~~~ 65 (98)
T PF09296_consen 1 SARWLLFSGGRLLVKKDGGD--L--LLPPGDAAEL---G------LPEEEAVFLGED-EGGQPCFAVDLSEEPDS-QLEL 65 (98)
T ss_dssp -EEEEEEETTEEE-GG------G--S--EEEGGGG---T-------TTSEEEEEEEE-TT-EEEEEEE---SS-------
T ss_pred CEEEEEEECCEEEEecCccc--e--eecccchhhc---c------CCCCcEEEeeec-CCEeEEEEEEcCccccc-cccc
Confidence 47999999999999763321 1 1222222211 1 134678999986 33499999999776541 1112
Q ss_pred ccccchhhhHHHhhhcchhhhhhhHHHHHHHHHHHHHhh
Q 016616 144 SKQLCFVELRTVMVATDWADQRAMADLAIAGHARALLEW 182 (386)
Q Consensus 144 ~~~~~~~~lR~~~~~~~~~~~~~~~~~~~~~~A~~l~~W 182 (386)
..+..|.+||+++..+ ++.+++++++|++|++|
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 4578899999998654 45789999999999999
No 79
>COG0494 MutT NTP pyrophosphohydrolases including oxidative damage repair enzymes [DNA replication, recombination, and repair / General function prediction only]
Probab=98.87 E-value=6.8e-09 Score=86.97 Aligned_cols=66 Identities=35% Similarity=0.426 Sum_probs=49.3
Q ss_pred EEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHH-HHHHHHHHHhCCeec--cEEEEeeeeC
Q 016616 223 VVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEE-AVRRETWEETGIEVG--EVVYHTSQPW 289 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtlee-Aa~REv~EEtGl~v~--~v~~~~s~p~ 289 (386)
.+.+++......++|+.++.... +.|.+|||.|++||++++ ||+||++||||+.+. .+.+++.++.
T Consensus 13 ~~~~~~~~~~~~~vl~~~~~~~~-~~~~~PgG~ve~~e~~~~~aa~RE~~EEtGl~~~~~~~~~~~~~~~ 81 (161)
T COG0494 13 AVAVLVGRDGPGEVLLAQRRDDG-GLWELPGGKVEPGEELPEEAAARELEEETGLRVKDERLELLGEFPP 81 (161)
T ss_pred eEEEEEecCCCCEEeEEEccccC-CceecCCcccCCCCchHHHHHHHHHHHHhCCeeeeecceeeeeccC
Confidence 34444444222788888887543 699999999999999988 999999999999887 5555554443
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=98.86 E-value=6.7e-09 Score=90.19 Aligned_cols=42 Identities=31% Similarity=0.439 Sum_probs=36.7
Q ss_pred CEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 234 ~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.+||+.|... +.|.+|||.|++||++++||+||++||||+++
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 4777776543 56999999999999999999999999999985
No 81
>PLN03143 nudix hydrolase; Provisional
Probab=98.85 E-value=2e-08 Score=98.60 Aligned_cols=64 Identities=23% Similarity=0.392 Sum_probs=49.0
Q ss_pred eecCCCCcEEEEEEEeCC-CCEEEEEEeccCCCC--ceEeeeeecCC-CCCHHHHHHHHHHHHhCCee
Q 016616 215 RIYPRVDPVVIMLVIDRE-NDRVLLSRQSRFVPR--MWSCIAGFIEP-GESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 215 ~~ypr~~p~Vivlv~~~~-~~~vLL~rr~~~~~g--~wslPgG~Ve~-GEtleeAa~REv~EEtGl~v 278 (386)
..|.+...++++++.+.+ ..+++|+||.|++.| .|++|||.+|+ +|++++||+||++||||+.+
T Consensus 123 ~v~~rg~aVaVL~~l~~~ge~~VlLVrQ~R~pvg~~~lE~PAG~lD~~~edp~~aA~REL~EETG~~~ 190 (291)
T PLN03143 123 IVFARGPAVAVLILLESEGETYAVLTEQVRVPVGKFVLELPAGMLDDDKGDFVGTAVREVEEETGIKL 190 (291)
T ss_pred EEEEcCCeEEEEEEEeCCCCEEEEEEEeEecCCCcEEEEecccccCCCCCCHHHHHHHHHHHHHCCcc
Confidence 456565555555444432 234999999987655 68899999998 48999999999999999975
No 82
>PLN02709 nudix hydrolase
Probab=98.77 E-value=1.9e-08 Score=95.12 Aligned_cols=63 Identities=21% Similarity=0.232 Sum_probs=49.6
Q ss_pred EEEEEEEeC-----CCCEEEEEEecc---CCCCceEeeeeecCCC-CCHHHHHHHHHHHHhCCeeccEEEEe
Q 016616 223 VVIMLVIDR-----ENDRVLLSRQSR---FVPRMWSCIAGFIEPG-ESLEEAVRRETWEETGIEVGEVVYHT 285 (386)
Q Consensus 223 ~Vivlv~~~-----~~~~vLL~rr~~---~~~g~wslPgG~Ve~G-EtleeAa~REv~EEtGl~v~~v~~~~ 285 (386)
+|++.++.. ++..|||.+|.. ..+|.|++|||++|++ +++.+||.||++||+||....++.++
T Consensus 35 AVLv~l~~~~~~~~~~~~vLl~~Rs~~l~~h~GqiafPGG~~e~~D~~~~~tAlRE~~EEiGl~~~~v~vlg 106 (222)
T PLN02709 35 AVLVCLYQEQREDKNELRVILTKRSSTLSSHPGEVALPGGKRDEEDKDDIATALREAREEIGLDPSLVTIIS 106 (222)
T ss_pred EEEEEEeeccCCCCCceEEEEEEcCCCCCCCCCCccCCCcccCCCCCCHHHHHHHHHHHHHCCCchheEEee
Confidence 455555542 245899999985 3689999999999997 57999999999999999886666554
No 83
>KOG2839 consensus Diadenosine and diphosphoinositol polyphosphate phosphohydrolase [Signal transduction mechanisms]
Probab=98.71 E-value=8.1e-08 Score=84.39 Aligned_cols=71 Identities=37% Similarity=0.541 Sum_probs=54.6
Q ss_pred CEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeeccEEEEeee--------------------------
Q 016616 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVGEVVYHTSQ-------------------------- 287 (386)
Q Consensus 234 ~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~~v~~~~s~-------------------------- 287 (386)
-+|||+..++. +..|.+|+|.+|++|+.++||.||++||+||.-...+.++..
T Consensus 24 ieVLlvsSs~~-~~~wi~PKGGwE~dE~~~eAA~REt~EEAGv~G~l~~~~~g~~~~~~~~~~~~~k~~~~~l~v~e~le 102 (145)
T KOG2839|consen 24 IEVLLVSSSKK-PHRWIVPKGGWEPDESVEEAALRETWEEAGVKGKLGRLLGGFEDFLSKKHRTKPKGVMYVLAVTEELE 102 (145)
T ss_pred eEEEEEecCCC-CCCccCCCCCCCCCCCHHHHHHHHHHHHhCceeeeeccccchhhccChhhcccccceeehhhhhhhcc
Confidence 38999987753 347999999999999999999999999999975444322211
Q ss_pred eCC-------CeeEeeHHHHHHHhh
Q 016616 288 PWP-------DARWHSREDVKKALT 305 (386)
Q Consensus 288 p~p-------~a~W~~~eel~~~L~ 305 (386)
.|| ..+|+..+|..+...
T Consensus 103 ~wp~~~~~~r~r~W~~ledA~~~~~ 127 (145)
T KOG2839|consen 103 DWPESEHEFREREWLKLEDAIELCQ 127 (145)
T ss_pred cChhhhcccceeEEeeHHHHHHHHh
Confidence 123 678999999887555
No 84
>PLN02552 isopentenyl-diphosphate delta-isomerase
Probab=98.65 E-value=2.3e-07 Score=89.23 Aligned_cols=56 Identities=18% Similarity=0.369 Sum_probs=42.3
Q ss_pred cEEEEEEEeCCCCEEEEEEecc---CCCCceEee-eeecCCCCC-----------------HHHHHHHHHHHHhCCee
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWSCI-AGFIEPGES-----------------LEEAVRRETWEETGIEV 278 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~---~~~g~wslP-gG~Ve~GEt-----------------leeAa~REv~EEtGl~v 278 (386)
.++.++|+|. .+++||+||+. ..+|+|+.. +|++..||+ ..+||+||++||+||++
T Consensus 57 ra~~v~i~n~-~g~lLLQkRs~~K~~~Pg~Wd~s~~GHp~~ge~~~e~~~e~~~~~~~~~~~~eAA~REL~EElGI~~ 133 (247)
T PLN02552 57 RAFSVFLFNS-KYELLLQQRAATKVTFPLVWTNTCCSHPLYGQDPNEVDRESELIDGNVLGVKNAAQRKLLHELGIPA 133 (247)
T ss_pred EEEEEEEEcC-CCeEEEEEecCCCCCCCcceecccCCccccccccccccccccccccchhhHHHHHHhHHHHHhCCCc
Confidence 3566777876 67999999973 468999655 466555422 67899999999999984
No 85
>PLN02791 Nudix hydrolase homolog
Probab=98.61 E-value=1.3e-07 Score=103.24 Aligned_cols=57 Identities=28% Similarity=0.429 Sum_probs=49.6
Q ss_pred cEEEEEEEeCCCCEEEEEEecc---CCCCceEe-eeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 222 PVVIMLVIDRENDRVLLSRQSR---FVPRMWSC-IAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 222 p~Vivlv~~~~~~~vLL~rr~~---~~~g~wsl-PgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.+|.++|++.++++|||+||+. ..+|+|++ +||+++.||+.++|++||++||+||.+
T Consensus 33 rAvhVwIfn~~~gelLLQkRS~~K~~~PG~WDiS~gGHv~aGEs~~eAA~REL~EELGI~l 93 (770)
T PLN02791 33 RAVHVWIYSESTQELLLQRRADCKDSWPGQWDISSAGHISAGDTSLLSAQRELEEELGIIL 93 (770)
T ss_pred EEEEEEEEECCCCeEEEEEecCCCCCCCCcccCcCCCCCCCCCCHHHHHHHHHHHHhCCCC
Confidence 4677888886568999999983 46899998 799999999999999999999999974
No 86
>KOG3041 consensus Nucleoside diphosphate-sugar hydrolase of the MutT (NUDIX) family [Replication, recombination and repair]
Probab=98.55 E-value=2.2e-07 Score=85.51 Aligned_cols=62 Identities=32% Similarity=0.433 Sum_probs=50.8
Q ss_pred ecCCCCcEEEEEEEeCCC-CEEEEEEeccCCCCc--eEeeeeecCCCCCHHHHHHHHHHHHhCCe
Q 016616 216 IYPRVDPVVIMLVIDREN-DRVLLSRQSRFVPRM--WSCIAGFIEPGESLEEAVRRETWEETGIE 277 (386)
Q Consensus 216 ~ypr~~p~Vivlv~~~~~-~~vLL~rr~~~~~g~--wslPgG~Ve~GEtleeAa~REv~EEtGl~ 277 (386)
.+.+.+.+.|..+...++ -.++|++|.|++-|. .++|+|-|+.||+++.||+||++||||+.
T Consensus 69 ~ea~~dgVaIl~il~~dG~~~ivL~kQfRpP~Gk~ciElPAGLiD~ge~~~~aAiREl~EEtGy~ 133 (225)
T KOG3041|consen 69 VEARADGVAILAILESDGKPYIVLVKQFRPPTGKICIELPAGLIDDGEDFEGAAIRELEEETGYK 133 (225)
T ss_pred ccccCCeEEEEEEEecCCcEEEEEEEeecCCCCcEEEEcccccccCCCchHHHHHHHHHHHhCcc
Confidence 566667666665554433 379999999998885 56999999999999999999999999997
No 87
>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=5.2e-08 Score=64.74 Aligned_cols=32 Identities=41% Similarity=0.943 Sum_probs=23.2
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCceec
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (386)
++++||++||++|....+||+++|+ +|+.++|
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 4799999999999999999999996 7999987
No 88
>KOG3069 consensus Peroxisomal NUDIX hydrolase [Replication, recombination and repair]
Probab=98.29 E-value=1.5e-06 Score=82.10 Aligned_cols=72 Identities=24% Similarity=0.249 Sum_probs=54.5
Q ss_pred CCceecCCCCcEEEEEEEeC--CCCEEEEEEecc---CCCCceEeeeeecCCC-CCHHHHHHHHHHHHhCCeeccEEE
Q 016616 212 CKKRIYPRVDPVVIMLVIDR--ENDRVLLSRQSR---FVPRMWSCIAGFIEPG-ESLEEAVRRETWEETGIEVGEVVY 283 (386)
Q Consensus 212 C~~~~ypr~~p~Vivlv~~~--~~~~vLL~rr~~---~~~g~wslPgG~Ve~G-EtleeAa~REv~EEtGl~v~~v~~ 283 (386)
|....+|+...+|++.+++. .+.+|||+||.+ ...|.-++|||..++. ++-+++|.||..||.|++...+.+
T Consensus 34 ~~~~~~~~~~~aVlI~L~~~~~~~l~vLltkRSr~LrshsGev~fPGG~~d~~D~s~~~tAlREt~EEIGl~~~~~~~ 111 (246)
T KOG3069|consen 34 SETHDFPNRKAAVLIPLVQVGSGELSVLLTKRSRTLRSHSGEVCFPGGRRDPHDKSDIQTALRETEEEIGLDPELVDV 111 (246)
T ss_pred cccccCCCCCccEEEEEEEcCCCceEEEEEeccccccccCCceeCCCCcCCccccchHHHHHHHHHHHhCCCHHHhhh
Confidence 44555566666666666554 346899999984 3578999999999985 577899999999999998654433
No 89
>COG4119 Predicted NTP pyrophosphohydrolase [DNA replication, recombination, and repair / General function prediction only]
Probab=98.20 E-value=1.8e-06 Score=74.40 Aligned_cols=62 Identities=29% Similarity=0.275 Sum_probs=44.3
Q ss_pred CCceecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 212 CKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 212 C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.+...|.+-+.++.++++++ ++-+...+ ..|.|++|.|.+..||.++.||+||.-||+||.+
T Consensus 6 AGvLlYR~~aG~v~VLLvHP-GGPFWa~k----D~GAWSIPKGey~~gEdp~~AArREf~EE~Gi~v 67 (161)
T COG4119 6 AGVLLYRARAGVVDVLLVHP-GGPFWAGK----DDGAWSIPKGEYTGGEDPWLAARREFSEEIGICV 67 (161)
T ss_pred ceeEEEEecCCCEEEEEecC-CCCccccC----CCCcccccccccCCCcCHHHHHHHHhhhhhceee
Confidence 34445555555555554444 33333332 2479999999999999999999999999999987
No 90
>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=97.92 E-value=4.9e-05 Score=62.93 Aligned_cols=43 Identities=21% Similarity=0.266 Sum_probs=37.9
Q ss_pred CCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhC
Q 016616 233 NDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETG 275 (386)
Q Consensus 233 ~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtG 275 (386)
++++||.||.. ...|+|++|+|.++.+|+.+++..|++.||.+
T Consensus 13 ~~~~ll~kR~~~gl~~glwefP~~~~~~~~~~~~~~~~~~~~~~~ 57 (118)
T cd03431 13 DGRVLLEKRPEKGLLAGLWEFPSVEWEEEADGEEALLSALKKALR 57 (118)
T ss_pred CCeEEEEECCCCCCCCcceeCCCccccCCcCHHHHHHHHHHHHhC
Confidence 57899999863 46899999999999999999999999998875
No 91
>COG1443 Idi Isopentenyldiphosphate isomerase [Lipid metabolism]
Probab=97.90 E-value=2.5e-05 Score=70.92 Aligned_cols=82 Identities=32% Similarity=0.554 Sum_probs=64.4
Q ss_pred EEEEEEEeCCCCEEEEEEec---cCCCCceE-eeeeecCCCCCHHHHHHHHHHHHhCCeecc---------EEEEeeeeC
Q 016616 223 VVIMLVIDRENDRVLLSRQS---RFVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEVGE---------VVYHTSQPW 289 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~---~~~~g~ws-lPgG~Ve~GEtleeAa~REv~EEtGl~v~~---------v~~~~s~p~ 289 (386)
+.-++++|. .+++||+||. +.+++.|+ ...||--+||+.++|++|-+.+|.||++.. ++|....+.
T Consensus 35 AFS~~lFne-~g~LLltrRA~~K~twP~vWTNSvCsHP~~~es~~~A~~rRl~~ELGie~~~~d~~~il~rf~YrA~~~~ 113 (185)
T COG1443 35 AFSSFLFNE-RGQLLLTRRALSKKTWPGVWTNSVCSHPLPGESNEDAARRRLAYELGIEPDQYDKLEILPRFRYRAADPD 113 (185)
T ss_pred hhheeEECC-CCceeeehhhhhcccCcccccccccCCCcCCCchHHHHHHHHHHHhCCCCcccCccccccceEEeccCCC
Confidence 445678886 7899999997 45789997 778999999999999999999999998762 234332221
Q ss_pred C--------------------------CeeEeeHHHHHHHhh
Q 016616 290 P--------------------------DARWHSREDVKKALT 305 (386)
Q Consensus 290 p--------------------------~a~W~~~eel~~~L~ 305 (386)
+ +++|++.+++.+++.
T Consensus 114 ~~~E~Eic~V~~~~~~~~~~~npdEV~~~~wv~~e~l~~~~~ 155 (185)
T COG1443 114 GIVENEICPVLAARLDSALDPNPDEVMDYRWVSPEDLKEMVD 155 (185)
T ss_pred CcceeeeeeEEEEeecCCCCCChHHhhheeccCHHHHHHhhc
Confidence 1 889999999988764
No 92
>KOG0648 consensus Predicted NUDIX hydrolase FGF-2 and related proteins [Signal transduction mechanisms]
Probab=97.58 E-value=8.9e-05 Score=72.64 Aligned_cols=58 Identities=28% Similarity=0.396 Sum_probs=47.7
Q ss_pred CCcEEEEEEEeCCCCEEEEEEecc-C--CCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 220 VDPVVIMLVIDRENDRVLLSRQSR-F--VPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 220 ~~p~Vivlv~~~~~~~vLL~rr~~-~--~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
....|..+|+|. .++||+++... . ..|.|-+|.|.|+++|.+-++++||++||||++.
T Consensus 114 h~vgvg~~V~n~-~~eVlVv~e~d~~~~~~~~wK~ptG~v~~~e~i~~gavrEvkeetgid~ 174 (295)
T KOG0648|consen 114 HRVGVGAFVLNK-KKEVLVVQEKDGAVKIRGGWKLPTGRVEEGEDIWHGAVREVKEETGIDT 174 (295)
T ss_pred hheeeeeeEecC-CceeEEEEecccceeecccccccceEecccccchhhhhhhhHHHhCcch
Confidence 345666788886 47999987642 2 3689999999999999999999999999999854
No 93
>PLN02839 nudix hydrolase
Probab=97.43 E-value=0.00041 Score=70.07 Aligned_cols=46 Identities=28% Similarity=0.333 Sum_probs=40.2
Q ss_pred CCEEEEEEecc---CCCCceE-eeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 233 NDRVLLSRQSR---FVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 233 ~~~vLL~rr~~---~~~g~ws-lPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
+.++.+.||.. ..+|+|. +.||.|..||++.++++||.+||+||..
T Consensus 217 ~~~lWV~RRS~tK~t~PGmLDn~VAGGi~aGesp~etliREa~EEAgLp~ 266 (372)
T PLN02839 217 QKFLWIGKRSLSKSTYPGMLDHLVAGGLPHGISCGENLVKECEEEAGISK 266 (372)
T ss_pred CeEEEeeccCCCCCCCCChhhhccccCccCCCCHHHHHHHHHHHHcCCCH
Confidence 45788999883 4689997 8899999999999999999999999963
No 94
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=97.19 E-value=0.00019 Score=48.44 Aligned_cols=30 Identities=23% Similarity=0.614 Sum_probs=17.6
Q ss_pred CccccCCCCceec----cCCccccccCCCCCceecC
Q 016616 187 RFCGHCGEKTIPK----EAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 187 ~fC~~CG~~~~~~----~~g~~~~C~~~~C~~~~yp 218 (386)
+||+.||+++... +...+..|+ +|++++|.
T Consensus 1 kfC~~CG~~l~~~ip~gd~r~R~vC~--~Cg~IhY~ 34 (34)
T PF14803_consen 1 KFCPQCGGPLERRIPEGDDRERLVCP--ACGFIHYQ 34 (34)
T ss_dssp -B-TTT--B-EEE--TT-SS-EEEET--TTTEEE--
T ss_pred CccccccChhhhhcCCCCCccceECC--CCCCEEeC
Confidence 6999999999764 345588897 79999983
No 95
>KOG4195 consensus Transient receptor potential-related channel 7 [Inorganic ion transport and metabolism]
Probab=96.40 E-value=0.0047 Score=58.21 Aligned_cols=37 Identities=24% Similarity=0.528 Sum_probs=31.5
Q ss_pred EEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHh
Q 016616 236 VLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEET 274 (386)
Q Consensus 236 vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEt 274 (386)
++.+++. ..|.|.+|||.|++||.+-.+.+||+.||.
T Consensus 141 ~vavkr~--d~~~WAiPGGmvdpGE~vs~tLkRef~eEa 177 (275)
T KOG4195|consen 141 FVAVKRP--DNGEWAIPGGMVDPGEKVSATLKREFGEEA 177 (275)
T ss_pred EEEEecC--CCCcccCCCCcCCchhhhhHHHHHHHHHHH
Confidence 4444443 478999999999999999999999999996
No 96
>PF14815 NUDIX_4: NUDIX domain; PDB: 1VRL_A 1RRQ_A 3G0Q_A 3FSQ_A 1RRS_A 3FSP_A.
Probab=96.39 E-value=0.0033 Score=52.61 Aligned_cols=50 Identities=22% Similarity=0.397 Sum_probs=29.0
Q ss_pred EEEeCCCCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 227 LVIDRENDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 227 lv~~~~~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
++++. ++++||.||.. ...|+|++|.--++...+ .+.+.+.+.+..|+.+
T Consensus 3 ~i~~~-~~~~Ll~kRp~~gll~GLwefP~~e~~~~~~-~~~l~~~~~~~~~~~~ 54 (114)
T PF14815_consen 3 LIIRS-QGRVLLEKRPEKGLLAGLWEFPLIESDEEDD-EEELEEWLEEQLGLSI 54 (114)
T ss_dssp EEEET-TSEEEEEE--SSSTTTT-EE--EEE-SSS-C-HHHHHHHTCCSSS-EE
T ss_pred EEEEe-CCEEEEEECCCCChhhcCcccCEeCccCCCC-HHHHHHHHHHHcCCCh
Confidence 34443 78999999884 468999999988874444 5556666667777754
No 97
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=95.09 E-value=0.014 Score=42.80 Aligned_cols=32 Identities=22% Similarity=0.536 Sum_probs=25.7
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCceecC
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
+..+|||+||.. .+.....+..|. .|+.+.|.
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 555556788997 69999885
No 98
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=95.02 E-value=0.012 Score=42.79 Aligned_cols=34 Identities=21% Similarity=0.533 Sum_probs=29.3
Q ss_pred hhhcCccccCCCCceeccCCccccccCCCCCceecC
Q 016616 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
-+.++|||+||.-+.+.+-..+..|. .|+...|.
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 35689999999999999888899997 69988775
No 99
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=94.04 E-value=0.074 Score=38.41 Aligned_cols=33 Identities=30% Similarity=0.618 Sum_probs=25.3
Q ss_pred CccccCCCCceeccCC--ccccccCCCCCceecCCCC
Q 016616 187 RFCGHCGEKTIPKEAG--KLKQCSNASCKKRIYPRVD 221 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g--~~~~C~~~~C~~~~ypr~~ 221 (386)
+|||.||.-+...+.. ....|+ .|++.++-...
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~--~Cg~~~~~~~~ 35 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCR--KCGYEEPIEQK 35 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECC--cCCCeEECCCc
Confidence 5999999998876543 378897 69988776543
No 100
>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=93.57 E-value=0.041 Score=35.50 Aligned_cols=26 Identities=35% Similarity=0.710 Sum_probs=16.6
Q ss_pred ccccCCCCceeccCCccccccCC-CCC
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNA-SCK 213 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~-~C~ 213 (386)
+||.||+++...+++-..+|+|+ .|.
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C~N~l~Cp 27 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRCPNPLSCP 27 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE--CGC-H
T ss_pred CcCCCCCEeEcCCCCEeEECCCCCcCC
Confidence 69999999998889989999987 663
No 101
>KOG2937 consensus Decapping enzyme complex, predicted pyrophosphatase DCP2 [RNA processing and modification]
Probab=92.92 E-value=0.015 Score=57.81 Aligned_cols=62 Identities=31% Similarity=0.396 Sum_probs=52.5
Q ss_pred eecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 215 RIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 215 ~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.-|-...|+....+.|+...++||++.-. ...|++|-|++..+|+--+++.|||.||||.+.
T Consensus 76 ~~yk~~iPv~ga~ild~~~sr~llv~g~q--a~sw~fprgK~~kdesd~~caiReV~eetgfD~ 137 (348)
T KOG2937|consen 76 APYKARIPVRGAIILDEKRSRCLLVKGWQ--ASSWSFPRGKISKDESDSDCAIREVTEETGFDY 137 (348)
T ss_pred ccccCCCCCchHhhhhhhhhhhheeecee--cccccccCccccccchhhhcchhcccchhhcCH
Confidence 35666778888888888778899987653 446999999999999999999999999999875
No 102
>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=92.45 E-value=0.074 Score=36.04 Aligned_cols=28 Identities=36% Similarity=0.837 Sum_probs=20.0
Q ss_pred CccccCCCCceeccCCccc-cccCCCCCcee
Q 016616 187 RFCGHCGEKTIPKEAGKLK-QCSNASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~-~C~~~~C~~~~ 216 (386)
+|||.||.-+.+.++.... .|. .|++++
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 7999999999987764433 586 698764
No 103
>KOG4432 consensus Uncharacterized NUDIX family hydrolase [General function prediction only]
Probab=91.55 E-value=0.3 Score=48.26 Aligned_cols=69 Identities=26% Similarity=0.308 Sum_probs=50.8
Q ss_pred cCCCCcEEEEEEEeCCCCEEEEEEeccCC--------------------------CC-ceEeeeeecCCCCCHHHHHHHH
Q 016616 217 YPRVDPVVIMLVIDRENDRVLLSRQSRFV--------------------------PR-MWSCIAGFIEPGESLEEAVRRE 269 (386)
Q Consensus 217 ypr~~p~Vivlv~~~~~~~vLL~rr~~~~--------------------------~g-~wslPgG~Ve~GEtleeAa~RE 269 (386)
|......|.+++++++..++|++||.++. .| ...|.||-|+...++.+-|..|
T Consensus 22 ~~q~~~~v~ill~~r~~eq~l~vrqfr~ai~~~~~s~~~~~~~~~~~d~~~~~~e~g~tielc~g~idke~s~~eia~ee 101 (405)
T KOG4432|consen 22 FNQKMSSVSILLFHRDLEQFLLVRQFRPAIFTASNSPENHGKEFDKIDWSSYDSETGYTIELCAGLIDKELSPREIASEE 101 (405)
T ss_pred HHhhccceEEEEEccchhhhehhhhhchhheecccCCCCCCcccccccHhhCCCccceeeeeeccccccccCHHHHhHHH
Confidence 44444455566777778899999997531 01 3458899999999999999999
Q ss_pred HHHHhCCee--ccEEEEe
Q 016616 270 TWEETGIEV--GEVVYHT 285 (386)
Q Consensus 270 v~EEtGl~v--~~v~~~~ 285 (386)
|.||.|.++ ..+.++-
T Consensus 102 v~eecgy~v~~d~l~hv~ 119 (405)
T KOG4432|consen 102 VAEECGYRVDPDDLIHVI 119 (405)
T ss_pred HHHHhCCcCChhHceEEE
Confidence 999999987 3444443
No 104
>COG4112 Predicted phosphoesterase (MutT family) [General function prediction only]
Probab=89.58 E-value=1.4 Score=40.08 Aligned_cols=70 Identities=26% Similarity=0.397 Sum_probs=48.5
Q ss_pred CCEEEEEEeccC-----CCCceEe-eeeecCCCC---CHHHH----HHHHHHHHhCCe---eccEEEEeeeeCC------
Q 016616 233 NDRVLLSRQSRF-----VPRMWSC-IAGFIEPGE---SLEEA----VRRETWEETGIE---VGEVVYHTSQPWP------ 290 (386)
Q Consensus 233 ~~~vLL~rr~~~-----~~g~wsl-PgG~Ve~GE---tleeA----a~REv~EEtGl~---v~~v~~~~s~p~p------ 290 (386)
+++||+-.|..- -.+.+++ .|||+..++ +.++. +.||+.||+++. ...+.|++-....
T Consensus 71 edevliyeRltgggE~RLHn~~SlG~GGHmn~~~GA~s~~evLk~n~~REleEEv~vseqd~q~~e~lGlINdd~neVgk 150 (203)
T COG4112 71 EDEVLIYERLTGGGEKRLHNLYSLGIGGHMNEGDGATSREEVLKGNLERELEEEVDVSEQDLQELEFLGLINDDTNEVGK 150 (203)
T ss_pred CCEEEEEEeccCcchhhhccccccccccccccCCCcccHHHHHccchHHHHHHHhCcCHHHhhhheeeeeecCCCcccce
Confidence 678998887631 1356775 589998754 33333 679999999997 3455666643322
Q ss_pred ------------------------CeeEeeHHHHHH
Q 016616 291 ------------------------DARWHSREDVKK 302 (386)
Q Consensus 291 ------------------------~a~W~~~eel~~ 302 (386)
..+|+..+++.+
T Consensus 151 VHiG~lf~~~~k~ndvevKEkd~~~~kwik~~ele~ 186 (203)
T COG4112 151 VHIGALFLGRGKFNDVEVKEKDLFEWKWIKLEELEK 186 (203)
T ss_pred EEEEEEEEeeccccceeeeecceeeeeeeeHHHHHH
Confidence 778999999877
No 105
>KOG0142 consensus Isopentenyl pyrophosphate:dimethylallyl pyrophosphate isomerase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=88.45 E-value=0.72 Score=43.26 Aligned_cols=82 Identities=23% Similarity=0.475 Sum_probs=53.8
Q ss_pred EEEEEEEeCCCCEEEEEEecc---CCCCceE-eeeee-------cC--CCCCHHHHHHHHHHHHhCCeec-----cEEEE
Q 016616 223 VVIMLVIDRENDRVLLSRQSR---FVPRMWS-CIAGF-------IE--PGESLEEAVRRETWEETGIEVG-----EVVYH 284 (386)
Q Consensus 223 ~Vivlv~~~~~~~vLL~rr~~---~~~g~ws-lPgG~-------Ve--~GEtleeAa~REv~EEtGl~v~-----~v~~~ 284 (386)
+.-|++++. .+++||++|+. .+++.|+ ...++ .+ .+.....||+|-+.-|.||... .+.|+
T Consensus 54 aFSVFlFns-~~~lLlQqRS~~KitFP~~~TNtccSHPL~~~~el~~~d~lGVr~AAqRkL~~ELGIp~e~v~pee~~~l 132 (225)
T KOG0142|consen 54 AFSVFLFNS-KNELLLQQRSDEKITFPGLWTNTCCSHPLYNPGELEENDALGVRRAAQRKLKAELGIPLEEVPPEEFNFL 132 (225)
T ss_pred eeeEEEecC-cchHHHhhhccccccccchhhhhhhcCcCCChhhhccCchHHHHHHHHHHHHHhhCCCccccCHHHcccc
Confidence 445666775 78899999874 3567775 11121 11 1236789999999999999653 33444
Q ss_pred eee--------eCC------------------------CeeEeeHHHHHHHhh
Q 016616 285 TSQ--------PWP------------------------DARWHSREDVKKALT 305 (386)
Q Consensus 285 ~s~--------p~p------------------------~a~W~~~eel~~~L~ 305 (386)
+.+ +|. +++|++++|+.++++
T Consensus 133 trihYkA~sdg~wGEhEiDYiL~~~~~~~~nPnpnEv~e~ryvs~eelkel~~ 185 (225)
T KOG0142|consen 133 TRIHYKAPSDGIWGEHEIDYILFLVKDVTLNPNPNEVSEIRYVSREELKELVA 185 (225)
T ss_pred eeeeeecCCCCCcccceeeEEEEEeccCCCCCChhhhhHhheecHHHHHHHHh
Confidence 433 232 788999999988664
No 106
>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=87.80 E-value=1.2 Score=41.50 Aligned_cols=41 Identities=27% Similarity=0.358 Sum_probs=29.3
Q ss_pred CEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCe
Q 016616 234 DRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIE 277 (386)
Q Consensus 234 ~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~ 277 (386)
-.|||-+.. ...|.||||.+.+||+-++..+|.+.+..|..
T Consensus 58 PHvLLLq~~---~~~fkLPGg~l~~gE~e~~gLkrkL~~~l~~~ 98 (188)
T PF13869_consen 58 PHVLLLQIG---NTFFKLPGGRLRPGEDEIEGLKRKLTEKLSPE 98 (188)
T ss_dssp EEEEEEEET---TTEEE-SEEE--TT--HHHHHHHHHHHHHB-S
T ss_pred cEEEEEecc---CccccCCccEeCCCCChhHHHHHHHHHHcCCC
Confidence 367777754 34899999999999999999999999999875
No 107
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=82.86 E-value=0.48 Score=29.81 Aligned_cols=10 Identities=50% Similarity=1.438 Sum_probs=5.8
Q ss_pred cCccccCCCC
Q 016616 186 SRFCGHCGEK 195 (386)
Q Consensus 186 ~~fC~~CG~~ 195 (386)
.+||+.||.+
T Consensus 16 ~~fC~~CG~~ 25 (26)
T PF13248_consen 16 AKFCPNCGAK 25 (26)
T ss_pred cccChhhCCC
Confidence 4566666654
No 108
>COG4111 Uncharacterized conserved protein [General function prediction only]
Probab=80.08 E-value=1.6 Score=42.35 Aligned_cols=47 Identities=6% Similarity=0.123 Sum_probs=34.8
Q ss_pred HHHHHHHHhhhhhhccccccccccccCCCCCccCCchhhHHH--HHHHHHHccc
Q 016616 316 AAAKVEQMCKGVERGQSLAADFNVESGELAPIFIPGPFAIAH--HLISSWVYKD 367 (386)
Q Consensus 316 ~~~~~~~i~~~~er~~~~~~~~~~~~~~~~~~~lP~~~aIA~--~Li~~w~~~~ 367 (386)
.+++.-.++.++.|++. |+.|-+..+.++|+.||+.+ +-+++..+..
T Consensus 218 ~~DHRRIlATa~aRLR~-----KIKYRPVVFELmp~~FTLlqLQrtVEAisGr~ 266 (322)
T COG4111 218 RHDHRRILATALARLRA-----KIKYRPVVFELMPPEFTLLQLQRTVEAISGRL 266 (322)
T ss_pred hhhHHHHHHHHHHHHHh-----cccccceEEEecCchhhHHHHHHHHHHHcCcc
Confidence 34566667777888887 88898888899999999865 5666665443
No 109
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=80.01 E-value=0.89 Score=27.93 Aligned_cols=22 Identities=27% Similarity=0.815 Sum_probs=15.1
Q ss_pred ccccCCCCceeccCCccccccCCCCCce
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
||+.||.++.. ..+.|+ .||..
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 79999988853 245586 57753
No 110
>PRK13844 recombination protein RecR; Provisional
Probab=80.00 E-value=1.5 Score=41.15 Aligned_cols=90 Identities=16% Similarity=0.173 Sum_probs=60.8
Q ss_pred HHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCceecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEe
Q 016616 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (386)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wsl 251 (386)
+-..|.+|..-+.+.++|+.||.-+.. ..|. -|.-.. -+..++++|.+. ..++-..+...+.|.|-+
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 AIAIANSLLDATANIKKCVYCQALTED------DVCN--ICSNTN---RDDTKLCIIESM--LDMIAIEEAGIYRGKYFV 109 (200)
T ss_pred HHHHHHHHHHHHHhCCcCCCCCCCCCC------CCCC--CCCCCC---CCCCEEEEECCH--HHHHHHHhhCccceEEEE
Confidence 344588999999999999999987752 2343 343322 233455656543 234444445567899999
Q ss_pred eeeecCC--CCCHHHHHHHHHHHHh
Q 016616 252 IAGFIEP--GESLEEAVRRETWEET 274 (386)
Q Consensus 252 PgG~Ve~--GEtleeAa~REv~EEt 274 (386)
.+|.+.| |..+++--..++.+-.
T Consensus 110 L~G~ispl~gi~p~~l~i~~L~~Ri 134 (200)
T PRK13844 110 LNGRISPLDGIGPSELKLDILQQII 134 (200)
T ss_pred ccCccCccCCCChhhcCHHHHHHHH
Confidence 9999987 7777777777776665
No 111
>PF12773 DZR: Double zinc ribbon
Probab=78.97 E-value=1.3 Score=31.73 Aligned_cols=32 Identities=28% Similarity=0.639 Sum_probs=23.7
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCceecC
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
...+||+.||.++. ........|+ .|+....+
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 34689999999998 4445567897 69887544
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=78.78 E-value=1.4 Score=33.70 Aligned_cols=34 Identities=24% Similarity=0.578 Sum_probs=27.7
Q ss_pred HHhhhhhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 179 LLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 179 l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
+-.|+ +.+-||.||........++...|+ .||..
T Consensus 22 v~~~~-TSq~C~~CG~~~~~~~~~r~~~C~--~Cg~~ 55 (69)
T PF07282_consen 22 VDEAY-TSQTCPRCGHRNKKRRSGRVFTCP--NCGFE 55 (69)
T ss_pred ECCCC-CccCccCcccccccccccceEEcC--CCCCE
Confidence 34555 789999999999886778888997 59876
No 113
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=77.86 E-value=1.4 Score=37.75 Aligned_cols=29 Identities=34% Similarity=0.738 Sum_probs=23.6
Q ss_pred cCccccCCCCceecc--CCccccccCCCCCcee
Q 016616 186 SRFCGHCGEKTIPKE--AGKLKQCSNASCKKRI 216 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~--~g~~~~C~~~~C~~~~ 216 (386)
.+|||.||+-|.+.. .+....|. .|+++.
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 589999999999865 45688997 699763
No 114
>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=75.58 E-value=3.2 Score=29.22 Aligned_cols=33 Identities=27% Similarity=0.686 Sum_probs=23.8
Q ss_pred HHHhhhhhcCccccCCCCceeccCCccccccCCCCC
Q 016616 178 ALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (386)
Q Consensus 178 ~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (386)
.|.-|--...+||.||.|+.....| ...|+ .|+
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 46786 574
No 115
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=75.14 E-value=2.9 Score=36.74 Aligned_cols=31 Identities=29% Similarity=0.719 Sum_probs=22.7
Q ss_pred HHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 175 HARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 175 ~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
-|.+|. ..||.||.|++. ..|.. .|| .|++.
T Consensus 23 GAkML~------~hCp~Cg~PLF~-KdG~v-~CP--vC~~~ 53 (131)
T COG1645 23 GAKMLA------KHCPKCGTPLFR-KDGEV-FCP--VCGYR 53 (131)
T ss_pred hhHHHH------hhCcccCCccee-eCCeE-ECC--CCCce
Confidence 466664 589999999998 44444 597 69873
No 116
>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=74.25 E-value=2.8 Score=28.98 Aligned_cols=30 Identities=33% Similarity=0.709 Sum_probs=21.4
Q ss_pred CccccCCCCceeccC--CccccccC-CCCCcee
Q 016616 187 RFCGHCGEKTIPKEA--GKLKQCSN-ASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~--g~~~~C~~-~~C~~~~ 216 (386)
..||.||+.|....+ |.-..|++ |.|....
T Consensus 2 ~~CP~Cg~~lv~r~~k~g~F~~Cs~yP~C~~~~ 34 (39)
T PF01396_consen 2 EKCPKCGGPLVLRRGKKGKFLGCSNYPECKYTE 34 (39)
T ss_pred cCCCCCCceeEEEECCCCCEEECCCCCCcCCeE
Confidence 469999999987654 56667876 4676543
No 117
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=74.22 E-value=2.7 Score=39.32 Aligned_cols=90 Identities=24% Similarity=0.369 Sum_probs=60.0
Q ss_pred HHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCceecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEe
Q 016616 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (386)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wsl 251 (386)
+...|.+|.+-..+.++|+.||.-+. . ..|. -|.-.. -+...+++|.+. ..++-..+...+.|.|-+
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---Q---EVCN--ICSDER---RDNSVICVVEDP--KDVFALEKTKEFRGRYHV 105 (195)
T ss_pred HHHHHHHHHHHHHcCCcCCCCCCCCC---C---CcCC--CCCCCC---CCCCEEEEECCH--HHHHHHHhhCccceEEEE
Confidence 44458899999999999999997664 2 2343 343322 233456666553 224444444567899999
Q ss_pred eeeecCC--CCCHHHHHHHHHHHHh
Q 016616 252 IAGFIEP--GESLEEAVRRETWEET 274 (386)
Q Consensus 252 PgG~Ve~--GEtleeAa~REv~EEt 274 (386)
.+|.+.| |..+++--..++.+-.
T Consensus 106 L~G~iSPldgigp~~l~i~~L~~Ri 130 (195)
T TIGR00615 106 LGGHISPLDGIGPEDLTIAALLKRL 130 (195)
T ss_pred ccCccCccCCCChhhcCHHHHHHHH
Confidence 9999997 6677777677776664
No 118
>PRK00420 hypothetical protein; Validated
Probab=72.97 E-value=3.3 Score=35.43 Aligned_cols=27 Identities=26% Similarity=0.442 Sum_probs=20.6
Q ss_pred cCccccCCCCceeccCCccccccCCCCCce
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
...||.||.++.....| ...|+ .|+..
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 38999999999875554 56787 69763
No 119
>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=72.13 E-value=2.6 Score=26.29 Aligned_cols=24 Identities=29% Similarity=0.740 Sum_probs=20.6
Q ss_pred cccCCCCceeccCCccccccCCCCCc
Q 016616 189 CGHCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
|..||..+.+.+.+....|| .||.
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 88999999988888889997 5974
No 120
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=70.12 E-value=2.6 Score=39.44 Aligned_cols=91 Identities=23% Similarity=0.411 Sum_probs=61.3
Q ss_pred HHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCceecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEe
Q 016616 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (386)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wsl 251 (386)
+-.-|.+|.+=..+.++|+.||.-+... .|. -|.-. +-+..++++|.++ .+ ++...+.+-+.|.|-+
T Consensus 40 ~~~la~al~~a~~~i~~C~~C~~~te~d------~C~--ICsd~---~Rd~~~icVVe~p-~D-v~a~E~~~~f~G~YhV 106 (198)
T COG0353 40 VERLAKALLEAKENIKHCSVCGNLTESD------PCD--ICSDE---SRDKSQLCVVEEP-KD-VLALEKTGEFRGLYHV 106 (198)
T ss_pred HHHHHHHHHHHHhcCccccccCCcCCCC------cCc--CcCCc---ccCCceEEEEcch-HH-HHHHHHhcccCeeEEE
Confidence 3445889999999999999999876532 343 34332 2334466666654 33 3333344456899999
Q ss_pred eeeecCC--CCCHHHHHHHHHHHHhC
Q 016616 252 IAGFIEP--GESLEEAVRRETWEETG 275 (386)
Q Consensus 252 PgG~Ve~--GEtleeAa~REv~EEtG 275 (386)
.+|.+.| |-.+++--.+++.+-..
T Consensus 107 L~G~lspl~gigpe~l~i~~L~~Rl~ 132 (198)
T COG0353 107 LGGLLSPLDGIGPEDLNIDELLQRLA 132 (198)
T ss_pred ecCccCcccCCCcccccHHHHHHHHh
Confidence 9999997 55677777777766654
No 121
>KOG4548 consensus Mitochondrial ribosomal protein L17 [Translation, ribosomal structure and biogenesis]
Probab=69.87 E-value=12 Score=36.43 Aligned_cols=44 Identities=14% Similarity=0.126 Sum_probs=35.3
Q ss_pred CEEEEEEeccCCCCceEeeeeec-CCCCCHHHHHHHHHHHHhCCe
Q 016616 234 DRVLLSRQSRFVPRMWSCIAGFI-EPGESLEEAVRRETWEETGIE 277 (386)
Q Consensus 234 ~~vLL~rr~~~~~g~wslPgG~V-e~GEtleeAa~REv~EEtGl~ 277 (386)
.-+||+++.-...+.|-+|-+-. ++++++...|.|++++-.|=.
T Consensus 139 ~LyLLV~~k~g~~s~w~fP~~~~s~~~~~lr~~ae~~Lk~~~ge~ 183 (263)
T KOG4548|consen 139 KLYLLVKRKFGKSSVWIFPNRQFSSSEKTLRGHAERDLKVLSGEN 183 (263)
T ss_pred eEEEEEeeccCccceeeCCCcccCCccchHHHHHHHHHHHHhcch
Confidence 45667775423356899999988 999999999999999998854
No 122
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=69.78 E-value=4.6 Score=28.59 Aligned_cols=26 Identities=31% Similarity=0.654 Sum_probs=20.9
Q ss_pred ccccCCCCceeccCCccccccCCCCCce
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
-|+.||..+..........|+ .||..
T Consensus 5 ~C~~CG~~~~~~~~~~~~~Cp--~CG~~ 30 (46)
T PRK00398 5 KCARCGREVELDEYGTGVRCP--YCGYR 30 (46)
T ss_pred ECCCCCCEEEECCCCCceECC--CCCCe
Confidence 599999998877665578897 69874
No 123
>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=69.59 E-value=0.98 Score=34.30 Aligned_cols=26 Identities=27% Similarity=0.727 Sum_probs=19.7
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCce
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
.|+.|+.||.+..+. ...|+ +.|+..
T Consensus 2 ~HkHC~~CG~~Ip~~----~~fCS-~~C~~~ 27 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD----ESFCS-PKCREE 27 (59)
T ss_pred CCCcCCcCCCcCCcc----hhhhC-HHHHHH
Confidence 589999999998764 56786 367654
No 124
>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=69.58 E-value=3.4 Score=30.15 Aligned_cols=36 Identities=22% Similarity=0.434 Sum_probs=24.2
Q ss_pred HHHHhhhhhcCccccCCCCce--------eccCCccccccCCCCCce
Q 016616 177 RALLEWHNVSRFCGHCGEKTI--------PKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 177 ~~l~~W~~~~~fC~~CG~~~~--------~~~~g~~~~C~~~~C~~~ 215 (386)
+..+.-...+-+||.||.--. ..+.-.+|.|. ||+.
T Consensus 4 ~~~~~L~~kY~~Cp~CGN~~vGngEG~liV~edtfkRtCk---CGfn 47 (49)
T PF12677_consen 4 WKTLKLSNKYCKCPKCGNDKVGNGEGTLIVEEDTFKRTCK---CGFN 47 (49)
T ss_pred hhhcchhhhhccCcccCCcEeecCcceEEEeccceeeeec---cccc
Confidence 344444556899999997643 33455788895 8764
No 125
>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=69.56 E-value=3.4 Score=29.58 Aligned_cols=29 Identities=31% Similarity=0.685 Sum_probs=19.8
Q ss_pred ccccCCCCceeccC--------CccccccCCCCCcee
Q 016616 188 FCGHCGEKTIPKEA--------GKLKQCSNASCKKRI 216 (386)
Q Consensus 188 fC~~CG~~~~~~~~--------g~~~~C~~~~C~~~~ 216 (386)
+||.||++...... ..--+|.|..||...
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 59999999865432 223457777888754
No 126
>KOG4313 consensus Thiamine pyrophosphokinase [Nucleotide transport and metabolism]
Probab=68.84 E-value=5.1 Score=38.86 Aligned_cols=99 Identities=18% Similarity=0.127 Sum_probs=60.4
Q ss_pred HHHHHHhhhhhcCccccCCCCceeccCCccccccC---------CCCCceecCCCCcEEEEEEEeCCCC--EEEEEEecc
Q 016616 175 HARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSN---------ASCKKRIYPRVDPVVIMLVIDREND--RVLLSRQSR 243 (386)
Q Consensus 175 ~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~---------~~C~~~~ypr~~p~Vivlv~~~~~~--~vLL~rr~~ 243 (386)
+++-+.+|+.+..|-+.-+-+...- ..+ ..|.. +--|.+.|. .-+-+.|.++..+ ++.+.||+.
T Consensus 83 ~~~~~~~~~~~~~l~~a~qwrne~Y-~v~-~~kkp~l~vERa~~~lfGv~~yG---vhingYV~~pk~~~l~iWvprRS~ 157 (306)
T KOG4313|consen 83 LAKVLEHWRHNNTFGIADQWRNELY-TVY-KSKKPVLAVERAATPLFGVRKYG---VHINGYVRHPKLGPLCIWVPRRSN 157 (306)
T ss_pred HHHHHHHHHHhccccchhcccceee-EEE-ecCcceeEeeecccceeeEEEee---eeeeeeecCCCcCceEEEecccCC
Confidence 3667788888888776655443210 111 11110 001112221 1111334444333 577777773
Q ss_pred ---CCCCceE-eeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 244 ---FVPRMWS-CIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 244 ---~~~g~ws-lPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
.++|+|. ..||.+..|-.+.++++.|..||+.+..
T Consensus 158 TKqTWP~~lDN~vaGGl~~g~gI~eT~iKE~~EEAnl~~ 196 (306)
T KOG4313|consen 158 TKQTWPGKLDNMVAGGLSVGFGIKETAIKEAAEEANLPS 196 (306)
T ss_pred ccccCcchhhhhhccccccCchHHHHHHHHHHHhcCCch
Confidence 4678886 8899999999999999999999999975
No 127
>KOG1689 consensus mRNA cleavage factor I subunit [RNA processing and modification]
Probab=68.49 E-value=14 Score=33.94 Aligned_cols=48 Identities=23% Similarity=0.372 Sum_probs=35.2
Q ss_pred EEEEeCC-CCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCC
Q 016616 226 MLVIDRE-NDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGI 276 (386)
Q Consensus 226 vlv~~~~-~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl 276 (386)
++++.+. .-.|||.+-. .-.+.+|||.+++||+-.+.+.|-+-|-.|-
T Consensus 75 vlivheH~lPHvLLLQig---~tf~KLPGG~L~pGE~e~~Gl~r~l~~~Lgr 123 (221)
T KOG1689|consen 75 VLIVHEHNLPHVLLLQIG---NTFFKLPGGRLRPGEDEADGLKRLLTESLGR 123 (221)
T ss_pred eEEEeecCCCeEEEEeeC---CEEEecCCCccCCCcchhHHHHHHHHHHhcc
Confidence 3444432 3456655432 3468899999999999999999999999994
No 128
>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=68.24 E-value=3.2 Score=35.26 Aligned_cols=31 Identities=26% Similarity=0.553 Sum_probs=21.7
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCceecC
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
+-|.|+.||++.+-... .--+|| .||..+=+
T Consensus 8 tKR~Cp~CG~kFYDLnk-~PivCP--~CG~~~~~ 38 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLNK-DPIVCP--KCGTEFPP 38 (108)
T ss_pred CcccCCCCcchhccCCC-CCccCC--CCCCccCc
Confidence 34789999988876555 555686 68877644
No 129
>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=68.12 E-value=2.6 Score=40.67 Aligned_cols=38 Identities=29% Similarity=0.645 Sum_probs=16.9
Q ss_pred HHHHH-hhhhhcCccccCCCC-ceeccCC---ccccccCCCCCce
Q 016616 176 ARALL-EWHNVSRFCGHCGEK-TIPKEAG---KLKQCSNASCKKR 215 (386)
Q Consensus 176 A~~l~-~W~~~~~fC~~CG~~-~~~~~~g---~~~~C~~~~C~~~ 215 (386)
||-|. .|-....|||.||+. +...... --..|+ .|+.+
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 44443 799999999999999 6554432 245686 58753
No 130
>PRK00076 recR recombination protein RecR; Reviewed
Probab=67.44 E-value=5.7 Score=37.25 Aligned_cols=90 Identities=23% Similarity=0.357 Sum_probs=58.9
Q ss_pred HHHHHHHHHhhhhhcCccccCCCCceeccCCccccccCCCCCceecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEe
Q 016616 172 IAGHARALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSC 251 (386)
Q Consensus 172 ~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wsl 251 (386)
+..-|.+|.+-+.+.++|..||.-+.. ..|. -|.-.. -+..++++|.+. ..++-..+.+.+.|.|-+
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------DPCE--ICSDPR---RDQSLICVVESP--ADVLAIERTGEYRGLYHV 105 (196)
T ss_pred HHHHHHHHHHHHHcCCcCCCCCCcCCC------CcCC--CCCCCC---CCCCEEEEECCH--HHHHHHHhhCcCceEEEE
Confidence 344588999999999999999987752 2343 343322 234456666553 234444455567899999
Q ss_pred eeeecCC--CCCHHHHHHHHHHHHh
Q 016616 252 IAGFIEP--GESLEEAVRRETWEET 274 (386)
Q Consensus 252 PgG~Ve~--GEtleeAa~REv~EEt 274 (386)
.+|.+.| |-.+++--..++.+-.
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 9999997 5555555555555555
No 131
>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=67.05 E-value=3.4 Score=34.20 Aligned_cols=28 Identities=32% Similarity=0.731 Sum_probs=21.6
Q ss_pred CccccCCCCceeccCCccccccCCCCCceecC
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
+|||.||..+.+.. ....|+ .|+.....
T Consensus 1 ~fC~~Cg~~l~~~~--~~~~C~--~C~~~~~~ 28 (104)
T TIGR01384 1 KFCPKCGSLMTPKN--GVYVCP--SCGYEKEK 28 (104)
T ss_pred CCCcccCcccccCC--CeEECc--CCCCcccc
Confidence 49999999997653 367897 69987544
No 132
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=65.84 E-value=3.6 Score=38.20 Aligned_cols=28 Identities=18% Similarity=0.549 Sum_probs=23.3
Q ss_pred cCccccCCCCceeccCCccccccCCCCCceec
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (386)
+-.|++||..|.. .+....|+ .|+...=
T Consensus 149 ~A~CsrC~~~L~~--~~~~l~Cp--~Cg~tEk 176 (188)
T COG1096 149 YARCSRCRAPLVK--KGNMLKCP--NCGNTEK 176 (188)
T ss_pred EEEccCCCcceEE--cCcEEECC--CCCCEEe
Confidence 4689999999988 78899998 5998643
No 133
>smart00532 LIGANc Ligase N family.
Probab=65.03 E-value=3.8 Score=43.01 Aligned_cols=30 Identities=23% Similarity=0.605 Sum_probs=24.8
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCc
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
.-.+||.||+++...+++....|+++.|..
T Consensus 398 ~P~~CP~C~s~l~~~~~~~~~~C~n~~C~a 427 (441)
T smart00532 398 MPTHCPSCGSELVREEGEVDIRCPNPLCPA 427 (441)
T ss_pred CCCCCCCCCCEeEecCCceEEEeCCCCCHH
Confidence 358999999999877777778899877964
No 134
>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=64.40 E-value=4.2 Score=36.34 Aligned_cols=32 Identities=22% Similarity=0.614 Sum_probs=28.6
Q ss_pred CccccCCCCceeccCCccccccCCCCCceecCCC
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (386)
-.|-.||..+.....+.-..|+ .|+...|-|.
T Consensus 113 l~C~~Cg~~~~~~~~~~l~~Cp--~C~~~~F~R~ 144 (146)
T PF07295_consen 113 LVCENCGHEVELTHPERLPPCP--KCGHTEFTRQ 144 (146)
T ss_pred EecccCCCEEEecCCCcCCCCC--CCCCCeeeeC
Confidence 5799999999998889999997 6999999774
No 135
>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=62.88 E-value=6 Score=26.22 Aligned_cols=29 Identities=34% Similarity=0.824 Sum_probs=14.6
Q ss_pred CccccCCCCc-eec--cCC--ccccccCCCCCce
Q 016616 187 RFCGHCGEKT-IPK--EAG--KLKQCSNASCKKR 215 (386)
Q Consensus 187 ~fC~~CG~~~-~~~--~~g--~~~~C~~~~C~~~ 215 (386)
..||.||--. .+. +.| ...+|++|.|.++
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvfrcsnpacdye 35 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVFRCSNPACDYE 35 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEEEES-TT---E
T ss_pred ccCCccCceEEEEeecCCCcEEEEEcCCCccccC
Confidence 3699999764 222 333 3667999888754
No 136
>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=62.10 E-value=4.3 Score=44.61 Aligned_cols=29 Identities=24% Similarity=0.645 Sum_probs=24.6
Q ss_pred cCccccCCCCceeccCCccccccCCCCCc
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
-.+||.||+++...+++....|+++.|..
T Consensus 392 P~~CP~C~s~l~~~~~~~~~~C~n~~C~a 420 (652)
T TIGR00575 392 PTHCPSCGSPLVKIEEEAVIRCPNLNCPA 420 (652)
T ss_pred CCCCCCCCCEeEecCCcEEEEECCCCCHH
Confidence 46999999999887778888899888965
No 137
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=61.34 E-value=6.7 Score=30.95 Aligned_cols=30 Identities=20% Similarity=0.554 Sum_probs=20.9
Q ss_pred CccccCCCCceecc--------CCccccccCCCCCcee
Q 016616 187 RFCGHCGEKTIPKE--------AGKLKQCSNASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~~--------~g~~~~C~~~~C~~~~ 216 (386)
.+||.||.+..... .....+|.|..||...
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 47999999974332 2346678877898753
No 138
>PRK11032 hypothetical protein; Provisional
Probab=60.50 E-value=5.3 Score=36.29 Aligned_cols=32 Identities=19% Similarity=0.420 Sum_probs=28.9
Q ss_pred CccccCCCCceeccCCccccccCCCCCceecCCC
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (386)
--|-.||..+.....+....|+ .|+...|-|.
T Consensus 125 LvC~~Cg~~~~~~~p~~i~pCp--~C~~~~F~R~ 156 (160)
T PRK11032 125 LVCEKCHHHLAFYTPEVLPLCP--KCGHDQFQRR 156 (160)
T ss_pred EEecCCCCEEEecCCCcCCCCC--CCCCCeeeeC
Confidence 5799999999999999999997 6999999874
No 139
>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=58.35 E-value=5.9 Score=39.58 Aligned_cols=39 Identities=26% Similarity=0.566 Sum_probs=25.6
Q ss_pred hhhhhcCccccCCCCcee--------ccCCccccccCCCCCce-ecCCCC
Q 016616 181 EWHNVSRFCGHCGEKTIP--------KEAGKLKQCSNASCKKR-IYPRVD 221 (386)
Q Consensus 181 ~W~~~~~fC~~CG~~~~~--------~~~g~~~~C~~~~C~~~-~ypr~~ 221 (386)
.|...+.|||.||+.-.. .++.+...|. -|+.+ +|+|..
T Consensus 179 ~~~~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~Cs--lC~teW~~~R~~ 226 (305)
T TIGR01562 179 ETRESRTLCPACGSPPVASMVRQGGKETGLRYLSCS--LCATEWHYVRVK 226 (305)
T ss_pred cccCCCCcCCCCCChhhhhhhcccCCCCCceEEEcC--CCCCcccccCcc
Confidence 344567899999998432 1344567786 69887 555553
No 140
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=57.86 E-value=6.1 Score=28.92 Aligned_cols=32 Identities=22% Similarity=0.529 Sum_probs=24.4
Q ss_pred ccccCCCCceeccCCccccccCCCCCceecCCCC
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVD 221 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~ 221 (386)
-|.+||+..........-.|+ .||...+-...
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp--~Cg~rIl~K~R 39 (49)
T COG1996 8 KCARCGREVELDQETRGIRCP--YCGSRILVKER 39 (49)
T ss_pred EhhhcCCeeehhhccCceeCC--CCCcEEEEecc
Confidence 599999999767777888897 69987554333
No 141
>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=57.79 E-value=8.5 Score=25.59 Aligned_cols=26 Identities=38% Similarity=0.939 Sum_probs=17.8
Q ss_pred ccccCCCCceeccCCccccccCCCCCcee
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
-|+.||...... .+..-+|+ .||...
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 45567897 698753
No 142
>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=57.07 E-value=4.4 Score=32.05 Aligned_cols=13 Identities=38% Similarity=1.086 Sum_probs=5.2
Q ss_pred cCccccCCCCcee
Q 016616 186 SRFCGHCGEKTIP 198 (386)
Q Consensus 186 ~~fC~~CG~~~~~ 198 (386)
-.|||.||.++-.
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 4799999999753
No 143
>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=56.95 E-value=5.5 Score=39.12 Aligned_cols=38 Identities=18% Similarity=0.520 Sum_probs=16.2
Q ss_pred cCccccCCCCceec----c---CCccccccCCCCCce-ecCCCCcEEEE
Q 016616 186 SRFCGHCGEKTIPK----E---AGKLKQCSNASCKKR-IYPRVDPVVIM 226 (386)
Q Consensus 186 ~~fC~~CG~~~~~~----~---~g~~~~C~~~~C~~~-~ypr~~p~Viv 226 (386)
+.+||.||++-... . |.+...|+ -|+.+ +|+|+. |..+
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs--~C~t~W~~~R~~-Cp~C 217 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCS--LCGTEWRFVRIK-CPYC 217 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEET--TT--EEE--TTS--TTT
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcC--CCCCeeeecCCC-CcCC
Confidence 37999999994422 2 23566786 69886 566654 4433
No 144
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=56.14 E-value=6.4 Score=43.40 Aligned_cols=29 Identities=28% Similarity=0.699 Sum_probs=24.0
Q ss_pred cCccccCCCCceeccCCccccccCC-CCCc
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNA-SCKK 214 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~-~C~~ 214 (386)
-.+||.||+++...+++....|+++ .|..
T Consensus 404 P~~CP~Cgs~l~~~~~~~~~~C~n~~~C~a 433 (665)
T PRK07956 404 PTHCPVCGSELVRVEGEAVLRCTNGLSCPA 433 (665)
T ss_pred CCCCCCCCCEeEecCCCeEEECCCCCCCHH
Confidence 4699999999988778888889976 4964
No 145
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=55.23 E-value=7 Score=42.86 Aligned_cols=34 Identities=21% Similarity=0.600 Sum_probs=28.2
Q ss_pred hcCccccCCCCceeccCCccccccC-CCCCceecC
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSN-ASCKKRIYP 218 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~-~~C~~~~yp 218 (386)
--.+||.||+++...+++-..+|++ ..|......
T Consensus 403 ~P~~CP~C~s~l~r~~~e~~~rC~n~~~C~aq~~e 437 (667)
T COG0272 403 FPTHCPVCGSELVREEGEVVIRCTNGLNCPAQLKE 437 (667)
T ss_pred CCCCCCCCCCeeEeccCceeEecCCCCCChHHHhh
Confidence 4578999999999988899999998 579765444
No 146
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=54.31 E-value=8.5 Score=32.20 Aligned_cols=28 Identities=25% Similarity=0.589 Sum_probs=20.6
Q ss_pred CccccCCCCceeccCCc--cccccCCCCCcee
Q 016616 187 RFCGHCGEKTIPKEAGK--LKQCSNASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~--~~~C~~~~C~~~~ 216 (386)
.|||.||.-+....++. +..|. +|.+.+
T Consensus 2 ~FCP~Cgn~Live~g~~~~rf~C~--tCpY~~ 31 (105)
T KOG2906|consen 2 LFCPTCGNMLIVESGESCNRFSCR--TCPYVF 31 (105)
T ss_pred cccCCCCCEEEEecCCeEeeEEcC--CCCcee
Confidence 69999999998776654 55665 676543
No 147
>KOG4432 consensus Uncharacterized NUDIX family hydrolase [General function prediction only]
Probab=54.27 E-value=21 Score=35.65 Aligned_cols=31 Identities=29% Similarity=0.286 Sum_probs=27.6
Q ss_pred ceEeeeeecCCCCCHHHHHHHHHHHHhCCee
Q 016616 248 MWSCIAGFIEPGESLEEAVRRETWEETGIEV 278 (386)
Q Consensus 248 ~wslPgG~Ve~GEtleeAa~REv~EEtGl~v 278 (386)
..+|.+|.|+..-+..+-+.||..||.|.++
T Consensus 285 TlELcag~Vd~p~s~~e~a~~e~veecGYdl 315 (405)
T KOG4432|consen 285 TLELCAGRVDDPFSDPEKAARESVEECGYDL 315 (405)
T ss_pred eeeeecccCCCCcccHHHHHHHHHHHhCCCC
Confidence 4568899999889999999999999999876
No 148
>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=54.10 E-value=10 Score=26.43 Aligned_cols=26 Identities=27% Similarity=0.532 Sum_probs=17.2
Q ss_pred ccccCCCCceecc-CCccccccCCCCCce
Q 016616 188 FCGHCGEKTIPKE-AGKLKQCSNASCKKR 215 (386)
Q Consensus 188 fC~~CG~~~~~~~-~g~~~~C~~~~C~~~ 215 (386)
.||.||++....+ ..-...|+ .||.+
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 6999999874333 33455897 69875
No 149
>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=53.73 E-value=8 Score=25.99 Aligned_cols=28 Identities=21% Similarity=0.518 Sum_probs=20.1
Q ss_pred ccccCCCCceecc-----CCccccccCCCCCceec
Q 016616 188 FCGHCGEKTIPKE-----AGKLKQCSNASCKKRIY 217 (386)
Q Consensus 188 fC~~CG~~~~~~~-----~g~~~~C~~~~C~~~~y 217 (386)
-||+||+...... .+....|+ .|+...+
T Consensus 4 ~CP~C~~~~~v~~~~~~~~~~~v~C~--~C~~~~~ 36 (38)
T TIGR02098 4 QCPNCKTSFRVVDSQLGANGGKVRCG--KCGHVWY 36 (38)
T ss_pred ECCCCCCEEEeCHHHcCCCCCEEECC--CCCCEEE
Confidence 4999999866442 34567897 6998765
No 150
>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=53.69 E-value=8.8 Score=33.58 Aligned_cols=29 Identities=14% Similarity=0.234 Sum_probs=21.2
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCcee
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
+-|-||.||++.+-... .-.+|+ .||..+
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 45789999999875544 666786 688874
No 151
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=53.39 E-value=5.2 Score=41.59 Aligned_cols=37 Identities=22% Similarity=0.502 Sum_probs=29.0
Q ss_pred HHHHhhhhhcCccccCCCCceeccCCccccccCCCCCcee
Q 016616 177 RALLEWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 177 ~~l~~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
..|..|-..+.-||.||..|.....+ -..|+ .|++..
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 45666778888999999999877665 66797 698764
No 152
>PRK10445 endonuclease VIII; Provisional
Probab=52.96 E-value=7.4 Score=37.85 Aligned_cols=32 Identities=16% Similarity=0.315 Sum_probs=20.7
Q ss_pred hhhhcCccccCCCCceeccCCccccccCCCCC
Q 016616 182 WHNVSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (386)
Q Consensus 182 W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (386)
|.+.-+-|++||.++....-+-+..+.+|.|.
T Consensus 231 y~r~g~~Cp~Cg~~I~~~~~~gR~t~~CP~CQ 262 (263)
T PRK10445 231 FHRDGEACERCGGIIEKTTLSSRPFYWCPGCQ 262 (263)
T ss_pred eCCCCCCCCCCCCEeEEEEECCCCcEECCCCc
Confidence 34456899999999876554334443334785
No 153
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=52.84 E-value=7.5 Score=42.73 Aligned_cols=14 Identities=43% Similarity=0.987 Sum_probs=10.8
Q ss_pred hhcCccccCCCCce
Q 016616 184 NVSRFCGHCGEKTI 197 (386)
Q Consensus 184 ~~~~fC~~CG~~~~ 197 (386)
...+||+.||.++.
T Consensus 13 ~~akFC~~CG~~l~ 26 (645)
T PRK14559 13 NNNRFCQKCGTSLT 26 (645)
T ss_pred CCCccccccCCCCC
Confidence 35688999988875
No 154
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=52.23 E-value=17 Score=36.42 Aligned_cols=35 Identities=23% Similarity=0.590 Sum_probs=23.4
Q ss_pred hcCccccCCCCcee-------ccCCccccccCCCCCce-ecCCCC
Q 016616 185 VSRFCGHCGEKTIP-------KEAGKLKQCSNASCKKR-IYPRVD 221 (386)
Q Consensus 185 ~~~fC~~CG~~~~~-------~~~g~~~~C~~~~C~~~-~ypr~~ 221 (386)
...+||.||+.-.. .++.+...|. -|+.+ +|+|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~Cs--lC~teW~~~R~~ 228 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCN--LCESEWHVVRVK 228 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcC--CCCCcccccCcc
Confidence 46899999998421 2344667786 69887 555553
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=52.17 E-value=8.8 Score=25.20 Aligned_cols=27 Identities=30% Similarity=0.629 Sum_probs=14.2
Q ss_pred CccccCCCCceeccCCccccccCCCCCcee
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
.-|+.||+.... ..|....|+ .|+.+.
T Consensus 3 p~Cp~C~se~~y-~D~~~~vCp--~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTY-EDGELLVCP--ECGHEW 29 (30)
T ss_dssp ---TTT-----E-E-SSSEEET--TTTEEE
T ss_pred CCCCCCCCccee-ccCCEEeCC--cccccC
Confidence 459999999776 667788997 798763
No 156
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=52.03 E-value=13 Score=26.47 Aligned_cols=25 Identities=32% Similarity=0.856 Sum_probs=19.2
Q ss_pred ccccCCCCceeccCCccccccCCCCCce
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
-|+.||...... .+....|+ .||..
T Consensus 4 ~C~~Cg~~~~~~-~~~~irC~--~CG~r 28 (44)
T smart00659 4 ICGECGRENEIK-SKDVVRCR--ECGYR 28 (44)
T ss_pred ECCCCCCEeecC-CCCceECC--CCCce
Confidence 499999998765 45667797 69875
No 157
>PRK10880 adenine DNA glycosylase; Provisional
Probab=49.88 E-value=25 Score=35.82 Aligned_cols=38 Identities=18% Similarity=0.192 Sum_probs=24.5
Q ss_pred CCEEEEEEecc--CCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCe
Q 016616 233 NDRVLLSRQSR--FVPRMWSCIAGFIEPGESLEEAVRRETWEETGIE 277 (386)
Q Consensus 233 ~~~vLL~rr~~--~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~ 277 (386)
++++||.||.. ...|+|++|.. +..+ ..++..|+.|+.
T Consensus 241 ~~~~~l~~r~~~gl~~gl~~fP~~--~~~~-----~~~~~~~~~~~~ 280 (350)
T PRK10880 241 GDEVWLEQRPPSGLWGGLFCFPQF--ADEE-----ELRQWLAQRGIA 280 (350)
T ss_pred CCEEEEEECCccChhhccccCCCC--cchh-----hHHHHHHhcCCc
Confidence 67899998863 46899999962 3211 134445666654
No 158
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=49.80 E-value=11 Score=32.33 Aligned_cols=27 Identities=26% Similarity=0.637 Sum_probs=19.7
Q ss_pred cccCCCCceeccCCccccccCCCCCceecCCCC
Q 016616 189 CGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVD 221 (386)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~ 221 (386)
||.||+++... +..|+ +|+...-.++.
T Consensus 1 CPvCg~~l~vt----~l~C~--~C~t~i~G~F~ 27 (113)
T PF09862_consen 1 CPVCGGELVVT----RLKCP--SCGTEIEGEFE 27 (113)
T ss_pred CCCCCCceEEE----EEEcC--CCCCEEEeeec
Confidence 99999999763 67897 69876544333
No 159
>PHA02942 putative transposase; Provisional
Probab=48.74 E-value=11 Score=38.67 Aligned_cols=29 Identities=31% Similarity=0.589 Sum_probs=21.7
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCcee
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
+.+.||.||.... ...++...|+ .||..+
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 6788999999874 2345678897 599865
No 160
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=48.58 E-value=12 Score=25.78 Aligned_cols=29 Identities=24% Similarity=0.584 Sum_probs=21.1
Q ss_pred ccccCCCCceeccC--CccccccCCCCCceecC
Q 016616 188 FCGHCGEKTIPKEA--GKLKQCSNASCKKRIYP 218 (386)
Q Consensus 188 fC~~CG~~~~~~~~--g~~~~C~~~~C~~~~yp 218 (386)
.||+|+..|..... -....|+ +|+-..|.
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 49999998876543 3466786 69877765
No 161
>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=48.34 E-value=12 Score=23.62 Aligned_cols=23 Identities=26% Similarity=0.670 Sum_probs=15.7
Q ss_pred CccccCCCCceeccCCccccccCCCCCce
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
+.||.||+.... ..+.|+ .||+.
T Consensus 1 K~CP~C~~~V~~----~~~~Cp--~CG~~ 23 (26)
T PF10571_consen 1 KTCPECGAEVPE----SAKFCP--HCGYD 23 (26)
T ss_pred CcCCCCcCCchh----hcCcCC--CCCCC
Confidence 468888887743 356786 58864
No 162
>PHA00626 hypothetical protein
Probab=47.15 E-value=17 Score=27.42 Aligned_cols=27 Identities=30% Similarity=0.572 Sum_probs=18.1
Q ss_pred ccccCCCCceeccC-----CccccccCCCCCcee
Q 016616 188 FCGHCGEKTIPKEA-----GKLKQCSNASCKKRI 216 (386)
Q Consensus 188 fC~~CG~~~~~~~~-----g~~~~C~~~~C~~~~ 216 (386)
.||.||+......+ -..-.|+ .|++..
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCk--dCGY~f 33 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCC--DCGYND 33 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcC--CCCCee
Confidence 69999997655422 2345686 699764
No 163
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=47.12 E-value=8.5 Score=38.15 Aligned_cols=33 Identities=33% Similarity=0.732 Sum_probs=24.3
Q ss_pred Hhhhh----hcCccccCC-CCceeccCCccccccCCCCCc
Q 016616 180 LEWHN----VSRFCGHCG-EKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 180 ~~W~~----~~~fC~~CG-~~~~~~~~g~~~~C~~~~C~~ 214 (386)
..|.- +.+||+.|| ..+.....|..+.|+ .|+.
T Consensus 305 ~t~~~~r~~k~nfc~ncG~~~t~~~~ng~a~fcp--~cgq 342 (345)
T COG4260 305 ATWPCARCAKLNFCLNCGCGTTADFDNGKAKFCP--ECGQ 342 (345)
T ss_pred ccCcchhccccccccccCcccccCCccchhhhCh--hhcC
Confidence 45654 567999999 445457788999997 5974
No 164
>PRK11827 hypothetical protein; Provisional
Probab=46.05 E-value=16 Score=27.87 Aligned_cols=34 Identities=18% Similarity=0.208 Sum_probs=25.5
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCceecCCCC
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVD 221 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~ 221 (386)
..--||.|.+++..........|. .|+ ..||-.+
T Consensus 7 eILaCP~ckg~L~~~~~~~~Lic~--~~~-laYPI~d 40 (60)
T PRK11827 7 EIIACPVCNGKLWYNQEKQELICK--LDN-LAFPLRD 40 (60)
T ss_pred hheECCCCCCcCeEcCCCCeEECC--ccC-eeccccC
Confidence 345799999999987777778897 575 6677444
No 165
>COG3791 Uncharacterized conserved protein [Function unknown]
Probab=45.67 E-value=12 Score=32.67 Aligned_cols=15 Identities=27% Similarity=0.660 Sum_probs=12.1
Q ss_pred cCccccCCCCceecc
Q 016616 186 SRFCGHCGEKTIPKE 200 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (386)
+.||+.||.++....
T Consensus 69 r~FC~~CGs~l~~~~ 83 (133)
T COG3791 69 RGFCPTCGSPLFWRG 83 (133)
T ss_pred CeecccCCCceEEec
Confidence 349999999998653
No 166
>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=44.62 E-value=3.8 Score=36.98 Aligned_cols=23 Identities=39% Similarity=1.001 Sum_probs=18.2
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
.+..||..||+++.. .|+ .|+..
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 567999999999964 587 58764
No 167
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=44.56 E-value=15 Score=24.87 Aligned_cols=28 Identities=25% Similarity=0.606 Sum_probs=21.2
Q ss_pred ccccCCCCceec-----cCCccccccCCCCCceec
Q 016616 188 FCGHCGEKTIPK-----EAGKLKQCSNASCKKRIY 217 (386)
Q Consensus 188 fC~~CG~~~~~~-----~~g~~~~C~~~~C~~~~y 217 (386)
-|+.|+++.... ..|....|+ .|+...+
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 499999997643 457888997 6987653
No 168
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=44.41 E-value=13 Score=36.39 Aligned_cols=31 Identities=19% Similarity=0.358 Sum_probs=19.2
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCc
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
+..+-|++||.++....-+-+..+.+|.|..
T Consensus 243 R~g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ~ 273 (274)
T PRK01103 243 REGEPCRRCGTPIEKIKQGGRSTFFCPRCQK 273 (274)
T ss_pred CCCCCCCCCCCeeEEEEECCCCcEECcCCCC
Confidence 3456799999998765433333333347864
No 169
>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=43.95 E-value=14 Score=26.85 Aligned_cols=29 Identities=21% Similarity=0.525 Sum_probs=22.2
Q ss_pred hhcCccc--cCCCCceeccCCccccccCCCCCc
Q 016616 184 NVSRFCG--HCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 184 ~~~~fC~--~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
+..+.|| +||.-..+.+-..+..|. .|+.
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 4578999 999999888888888897 5874
No 170
>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=43.76 E-value=35 Score=32.54 Aligned_cols=25 Identities=24% Similarity=0.682 Sum_probs=18.5
Q ss_pred cccCCCCceeccCCccccccCCCCCceecC
Q 016616 189 CGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
|+.||.++.+... ..|. .|-...++
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 9999998876544 4786 68777665
No 171
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=43.58 E-value=13 Score=35.85 Aligned_cols=30 Identities=27% Similarity=0.471 Sum_probs=23.0
Q ss_pred hhhhhcCccccCCCCceeccCCccccccCCCCCceec
Q 016616 181 EWHNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (386)
Q Consensus 181 ~W~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (386)
.|+.+.+-|+.||. ..++...|+ .||..+-
T Consensus 304 ~~~~tS~~C~~cg~-----~~~r~~~C~--~cg~~~~ 333 (364)
T COG0675 304 PPYYTSKTCPCCGH-----LSGRLFKCP--RCGFVHD 333 (364)
T ss_pred CCCCCcccccccCC-----ccceeEECC--CCCCeeh
Confidence 46778899999999 446667897 6998643
No 172
>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=43.48 E-value=17 Score=27.02 Aligned_cols=28 Identities=25% Similarity=0.618 Sum_probs=20.5
Q ss_pred ccccCCCCceecc--CCccccccCCCCCceec
Q 016616 188 FCGHCGEKTIPKE--AGKLKQCSNASCKKRIY 217 (386)
Q Consensus 188 fC~~CG~~~~~~~--~g~~~~C~~~~C~~~~y 217 (386)
-||.||..+.... .|..-.|+ .||....
T Consensus 4 ~CP~CG~~iev~~~~~GeiV~Cp--~CGaele 33 (54)
T TIGR01206 4 ECPDCGAEIELENPELGELVICD--ECGAELE 33 (54)
T ss_pred CCCCCCCEEecCCCccCCEEeCC--CCCCEEE
Confidence 5999999876533 26677897 6998753
No 173
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=42.91 E-value=17 Score=29.79 Aligned_cols=28 Identities=25% Similarity=0.706 Sum_probs=22.0
Q ss_pred cCccccCCCCceeccCCccccccCCCCCce
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
-.-||.||.++....+--...|. .|++.
T Consensus 35 ~~~Cp~C~~~~VkR~a~GIW~C~--kCg~~ 62 (89)
T COG1997 35 KHVCPFCGRTTVKRIATGIWKCR--KCGAK 62 (89)
T ss_pred CCcCCCCCCcceeeeccCeEEcC--CCCCe
Confidence 35799999998877776677786 68875
No 174
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=42.84 E-value=13 Score=41.07 Aligned_cols=30 Identities=27% Similarity=0.536 Sum_probs=23.4
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCcee
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
--.+||.||+++.. .+...+|+++.|....
T Consensus 397 ~P~~CP~C~s~l~~--~~~~~~C~n~~C~aq~ 426 (669)
T PRK14350 397 IPDNCPSCKTALIK--EGAHLFCVNNHCPSVI 426 (669)
T ss_pred CCCCCCCCCCEeee--CCEEEEECCCCCHHHH
Confidence 36799999999975 4577889987897643
No 175
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=42.10 E-value=14 Score=36.24 Aligned_cols=31 Identities=13% Similarity=0.297 Sum_probs=19.3
Q ss_pred hhhcCccccCCCCceeccCCccccccCCCCC
Q 016616 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (386)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (386)
.+.-+-|++||.++....-+-+..+.+|.|.
T Consensus 251 ~R~g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ 281 (282)
T PRK13945 251 RRTGKPCRKCGTPIERIKLAGRSTHWCPNCQ 281 (282)
T ss_pred CCCcCCCCcCCCeeEEEEECCCccEECCCCc
Confidence 3445789999999876543333333334785
No 176
>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=41.95 E-value=14 Score=36.05 Aligned_cols=31 Identities=16% Similarity=0.300 Sum_probs=18.8
Q ss_pred hhhcCccccCCCCceeccCCccccccCCCCC
Q 016616 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (386)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (386)
.+.-+-|++||.+.....-+-+..+.+|.|.
T Consensus 242 ~r~g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ 272 (272)
T TIGR00577 242 GRKGEPCRRCGTPIEKIKVGGRGTHFCPQCQ 272 (272)
T ss_pred CCCCCCCCCCCCeeEEEEECCCCCEECCCCC
Confidence 3345689999999876543333333334684
No 177
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.66 E-value=21 Score=30.99 Aligned_cols=42 Identities=19% Similarity=0.429 Sum_probs=24.4
Q ss_pred cCccccCCCC-ceeccCCccccccCCCCCce-ecCC--CCcEEEEEEE
Q 016616 186 SRFCGHCGEK-TIPKEAGKLKQCSNASCKKR-IYPR--VDPVVIMLVI 229 (386)
Q Consensus 186 ~~fC~~CG~~-~~~~~~g~~~~C~~~~C~~~-~ypr--~~p~Vivlv~ 229 (386)
..-||+||.- +...--.-+..|. .||.+ .|-+ --|+++++++
T Consensus 21 ~grCP~CGeGrLF~gFLK~~p~C~--aCG~dyg~~~a~DgPa~fvI~I 66 (126)
T COG5349 21 RGRCPRCGEGRLFRGFLKVVPACE--ACGLDYGFADADDGPAYFVILI 66 (126)
T ss_pred cCCCCCCCCchhhhhhcccCchhh--hccccccCCcccCCCcEEEEEe
Confidence 3579999965 4333345577896 69875 2222 2355554443
No 178
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=41.62 E-value=8.7 Score=32.88 Aligned_cols=30 Identities=27% Similarity=0.490 Sum_probs=24.3
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCcee
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
...||+.||.-+......+.-.|. .|+.++
T Consensus 6 ~~~FC~~CG~ll~~~~~~~~~~C~--~Ck~~~ 35 (116)
T KOG2907|consen 6 DLDFCSDCGSLLEEPSAQSTVLCI--RCKIEY 35 (116)
T ss_pred CcchhhhhhhhcccccccCceEec--cccccC
Confidence 457999999999888877777797 587764
No 179
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=41.23 E-value=15 Score=35.91 Aligned_cols=31 Identities=10% Similarity=0.160 Sum_probs=19.3
Q ss_pred hhhcCccccCCCCceeccCCccccccCCCCC
Q 016616 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (386)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (386)
.+.-+-|++||.++....-+-+..+.+|.|.
T Consensus 241 ~R~g~pCprCG~~I~~~~~~gR~t~~CP~CQ 271 (272)
T PRK14810 241 QRTGEPCLNCKTPIRRVVVAGRSSHYCPHCQ 271 (272)
T ss_pred CCCCCcCCCCCCeeEEEEECCCccEECcCCc
Confidence 4445799999999876543333333334686
No 180
>COG4640 Predicted membrane protein [Function unknown]
Probab=40.32 E-value=15 Score=37.93 Aligned_cols=25 Identities=28% Similarity=0.833 Sum_probs=16.2
Q ss_pred cCccccCCCCceeccCCccccccCCCCCcee
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
++||+.||+.-. +...+|+ .||...
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 479999995322 2334497 598754
No 181
>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=39.98 E-value=23 Score=25.02 Aligned_cols=35 Identities=23% Similarity=0.590 Sum_probs=23.0
Q ss_pred HHHHhhhhhcCccccCCCCceecc-CCccccccCCCCCc
Q 016616 177 RALLEWHNVSRFCGHCGEKTIPKE-AGKLKQCSNASCKK 214 (386)
Q Consensus 177 ~~l~~W~~~~~fC~~CG~~~~~~~-~g~~~~C~~~~C~~ 214 (386)
..-+.|-.. -.||+||+...... ......|. .|+.
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 344678877 44999999744333 34667786 5864
No 182
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=39.23 E-value=64 Score=30.40 Aligned_cols=88 Identities=20% Similarity=0.243 Sum_probs=51.3
Q ss_pred hcCccccCCCCceecc-------CC----ccccccCCCCCceec-----CCCCcEEEEEEEe-CCCCEEEEEEeccCCCC
Q 016616 185 VSRFCGHCGEKTIPKE-------AG----KLKQCSNASCKKRIY-----PRVDPVVIMLVID-RENDRVLLSRQSRFVPR 247 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~-------~g----~~~~C~~~~C~~~~y-----pr~~p~Vivlv~~-~~~~~vLL~rr~~~~~g 247 (386)
..--||.||+.+.... -| ....|. .||+++. ....|.-+.+-++ +++.+.++.|.. .+
T Consensus 13 ~~~~CPvCg~~l~~~~~~~~IPyFG~V~i~t~~C~--~CgYR~~DV~~~e~~eP~r~~lkve~~edL~~~V~RS~---s~ 87 (201)
T COG1779 13 TRIDCPVCGGTLKAHMYLYDIPYFGEVLISTGVCE--RCGYRSTDVKTLEEREPRRYTLKVESEEDLSARVVRSK---SA 87 (201)
T ss_pred eeecCCcccceeeEEEeeecCCccceEEEEEEEcc--ccCCcccceeecccCCCeEEEEEeCCHHHhhhheeecC---Cc
Confidence 3456999999654321 12 245686 6998643 3344554444443 345567777665 35
Q ss_pred ceEee--eeecCCCC------CHHHHHHHHHHHHhCCe
Q 016616 248 MWSCI--AGFIEPGE------SLEEAVRRETWEETGIE 277 (386)
Q Consensus 248 ~wslP--gG~Ve~GE------tleeAa~REv~EEtGl~ 277 (386)
.-.+| |=-|+||. |--+.+.+-+.|++...
T Consensus 88 ~I~IPELg~~iePG~~s~G~ITtIEGvL~rv~e~l~~a 125 (201)
T COG1779 88 TIYIPELGLEIEPGPASEGFITTIEGVLERVYEVLETA 125 (201)
T ss_pred cEEcccCceEeccccccCceEehHHHHHHHHHHHHHHH
Confidence 55565 33445544 45667777788887643
No 183
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=38.95 E-value=18 Score=24.59 Aligned_cols=27 Identities=19% Similarity=0.550 Sum_probs=20.2
Q ss_pred ccccCCCCceec-----cCCccccccCCCCCcee
Q 016616 188 FCGHCGEKTIPK-----EAGKLKQCSNASCKKRI 216 (386)
Q Consensus 188 fC~~CG~~~~~~-----~~g~~~~C~~~~C~~~~ 216 (386)
-||.|+...... .+|.+-.|+ .|+...
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 499999987643 357788897 698764
No 184
>PRK12495 hypothetical protein; Provisional
Probab=38.59 E-value=17 Score=34.63 Aligned_cols=31 Identities=16% Similarity=0.602 Sum_probs=22.0
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCceecCC
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPR 219 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr 219 (386)
...+|+.||.++... .....|+ .|+.++-..
T Consensus 41 sa~hC~~CG~PIpa~--pG~~~Cp--~CQ~~~~~~ 71 (226)
T PRK12495 41 TNAHCDECGDPIFRH--DGQEFCP--TCQQPVTED 71 (226)
T ss_pred chhhcccccCcccCC--CCeeECC--CCCCccccc
Confidence 358999999999843 3355687 698765443
No 185
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=38.08 E-value=23 Score=25.32 Aligned_cols=27 Identities=30% Similarity=0.576 Sum_probs=20.6
Q ss_pred hcCccccCCCCceeccCCccccccCCCCCce
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
.-+-||.||.-. +-+...|.|.+|+..
T Consensus 10 GirkCp~CGt~N----G~R~~~CKN~~C~~~ 36 (44)
T PF14952_consen 10 GIRKCPKCGTYN----GTRGLSCKNKSCPQV 36 (44)
T ss_pred ccccCCcCcCcc----CcccccccCCccchh
Confidence 458899999755 556778998888753
No 186
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=37.90 E-value=20 Score=27.39 Aligned_cols=27 Identities=26% Similarity=0.696 Sum_probs=21.7
Q ss_pred cCccccCCCCceeccCCccccccCCCCCc
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
...|..||..+.+.+...+..|+ .||.
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CP--nCGe 35 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCP--NCGE 35 (61)
T ss_pred CceeccCCCEeccCCceeEeeCC--CCCc
Confidence 46788899888888888888887 4874
No 187
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=37.88 E-value=34 Score=25.62 Aligned_cols=28 Identities=32% Similarity=0.629 Sum_probs=19.2
Q ss_pred CccccCCCCceec---cC---CccccccCCCCCcee
Q 016616 187 RFCGHCGEKTIPK---EA---GKLKQCSNASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~---~~---g~~~~C~~~~C~~~~ 216 (386)
-+||.||.++... +. -.-..|+ .|..+.
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 4799999998543 11 3456786 688765
No 188
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=37.56 E-value=22 Score=26.74 Aligned_cols=24 Identities=29% Similarity=0.678 Sum_probs=17.9
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
.+.+.|+.||.-+. +..|+ .||..
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 35688999998775 66786 58764
No 189
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=36.34 E-value=20 Score=35.06 Aligned_cols=32 Identities=19% Similarity=0.457 Sum_probs=20.4
Q ss_pred hhhhcCccccCCCCceeccC-C-ccccccCCCCCce
Q 016616 182 WHNVSRFCGHCGEKTIPKEA-G-KLKQCSNASCKKR 215 (386)
Q Consensus 182 W~~~~~fC~~CG~~~~~~~~-g-~~~~C~~~~C~~~ 215 (386)
|.+.-+-|++||.+.....- | ..-.|+ .|...
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 33445679999999876543 3 344565 68753
No 190
>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=36.04 E-value=29 Score=31.15 Aligned_cols=36 Identities=22% Similarity=0.625 Sum_probs=22.4
Q ss_pred ccccCCCCcee------ccCC----ccccccCCCCCce--ecCCCCcEEE
Q 016616 188 FCGHCGEKTIP------KEAG----KLKQCSNASCKKR--IYPRVDPVVI 225 (386)
Q Consensus 188 fC~~CG~~~~~------~~~g----~~~~C~~~~C~~~--~ypr~~p~Vi 225 (386)
.||.||..-.. .+.| +++.|. .|+.. .|.++...-+
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 59999986321 2233 578897 69864 6666654433
No 191
>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=35.91 E-value=33 Score=24.10 Aligned_cols=26 Identities=27% Similarity=0.539 Sum_probs=11.9
Q ss_pred eEeeeeecCCCCCHHHHHHHHHHHHh
Q 016616 249 WSCIAGFIEPGESLEEAVRRETWEET 274 (386)
Q Consensus 249 wslPgG~Ve~GEtleeAa~REv~EEt 274 (386)
..+.||...||--+...+.||+-||.
T Consensus 11 ltClggLasPgPvp~~~alkELIeEL 36 (43)
T PF03487_consen 11 LTCLGGLASPGPVPSSTALKELIEEL 36 (43)
T ss_dssp ------------S-HHHHHHHHHHHH
T ss_pred HHHhcccCCCCCCCchHHHHHHHHHH
Confidence 45789999999999999999999985
No 192
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=35.55 E-value=28 Score=26.49 Aligned_cols=27 Identities=26% Similarity=0.604 Sum_probs=21.1
Q ss_pred CccccCCCCceeccCCccccccCCCCCce
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
..|..||..+...+.+.+..|+ .||..
T Consensus 8 ~~CtSCg~~i~~~~~~~~F~CP--nCG~~ 34 (59)
T PRK14890 8 PKCTSCGIEIAPREKAVKFLCP--NCGEV 34 (59)
T ss_pred ccccCCCCcccCCCccCEeeCC--CCCCe
Confidence 5688888888877777888887 48765
No 193
>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=35.53 E-value=24 Score=30.00 Aligned_cols=31 Identities=16% Similarity=0.293 Sum_probs=23.7
Q ss_pred CccccCCCCceeccCCccccccCCCCCceecCCC
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (386)
.-||.|++......+. ...|+ .|++++=+..
T Consensus 3 p~CP~C~seytY~dg~-~~iCp--eC~~EW~~~~ 33 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGT-QLICP--SCLYEWNENE 33 (109)
T ss_pred CcCCcCCCcceEecCC-eeECc--cccccccccc
Confidence 5699999998765544 58897 7999876653
No 194
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=34.99 E-value=17 Score=33.23 Aligned_cols=35 Identities=14% Similarity=0.279 Sum_probs=24.1
Q ss_pred hhhh-cCccccCCCCceeccCCc---------------cccccCCCCCceecC
Q 016616 182 WHNV-SRFCGHCGEKTIPKEAGK---------------LKQCSNASCKKRIYP 218 (386)
Q Consensus 182 W~~~-~~fC~~CG~~~~~~~~g~---------------~~~C~~~~C~~~~yp 218 (386)
|... ..-||.|++++.....+. --.|+ .|+..+|+
T Consensus 92 ~~~~e~~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~--~CgkiYW~ 142 (165)
T COG1656 92 RLFPEFSRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCP--KCGKIYWK 142 (165)
T ss_pred hcccccccCcccCCEeccCcHHHHhhccchhhhhcccceeECC--CCcccccC
Confidence 3334 688999999987654332 22486 69988876
No 195
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=34.72 E-value=19 Score=33.26 Aligned_cols=15 Identities=27% Similarity=0.600 Sum_probs=11.8
Q ss_pred hhcCccccCCCCcee
Q 016616 184 NVSRFCGHCGEKTIP 198 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~ 198 (386)
..+.|||.||+++..
T Consensus 151 ~~~~~Cp~CG~~~~~ 165 (177)
T COG1439 151 EPKDFCPICGSPLKR 165 (177)
T ss_pred CCCCcCCCCCCceEE
Confidence 346899999999753
No 196
>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=34.25 E-value=88 Score=25.92 Aligned_cols=26 Identities=31% Similarity=0.676 Sum_probs=19.4
Q ss_pred CccccCCCCceec--cCCccccccCCCCCc
Q 016616 187 RFCGHCGEKTIPK--EAGKLKQCSNASCKK 214 (386)
Q Consensus 187 ~fC~~CG~~~~~~--~~g~~~~C~~~~C~~ 214 (386)
--|..||....+. .+.+++.|| .|-.
T Consensus 5 F~C~~CG~~V~p~~~g~~~RNHCP--~CL~ 32 (92)
T PF12647_consen 5 FTCVHCGLTVSPLAAGSAHRNHCP--SCLS 32 (92)
T ss_pred cCccccCCCcccCCCCCCccCcCc--cccc
Confidence 3599999998774 345799997 5754
No 197
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=33.14 E-value=21 Score=27.17 Aligned_cols=24 Identities=33% Similarity=0.751 Sum_probs=18.3
Q ss_pred hcCccccCCCCceeccCCccccccCCCCC
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNASCK 213 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~~C~ 213 (386)
-|++|+.||++..+. .+.|+ +.|+
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 489999999998764 45676 4576
No 198
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.87 E-value=18 Score=32.10 Aligned_cols=26 Identities=23% Similarity=0.593 Sum_probs=16.2
Q ss_pred hhhcCccccCCCCceeccCCcccccc
Q 016616 183 HNVSRFCGHCGEKTIPKEAGKLKQCS 208 (386)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~ 208 (386)
+-..+||.+||++...........|.
T Consensus 86 YCq~r~CARCGGrv~lrsNKv~wvcn 111 (169)
T KOG3799|consen 86 YCQTRFCARCGGRVSLRSNKVMWVCN 111 (169)
T ss_pred hhhhhHHHhcCCeeeeccCceEEecc
Confidence 34457777777777666555555553
No 199
>PF14353 CpXC: CpXC protein
Probab=32.47 E-value=82 Score=26.83 Aligned_cols=44 Identities=23% Similarity=0.492 Sum_probs=25.6
Q ss_pred ccccCCCCceec-----c------------CC--ccccccCCCCCceecCCCCcEEEEEEEeCCCCEEEE
Q 016616 188 FCGHCGEKTIPK-----E------------AG--KLKQCSNASCKKRIYPRVDPVVIMLVIDRENDRVLL 238 (386)
Q Consensus 188 fC~~CG~~~~~~-----~------------~g--~~~~C~~~~C~~~~ypr~~p~Vivlv~~~~~~~vLL 238 (386)
-||.||++.... . .| ..-.|| .||...+.... .+..|+ +.++++
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP--~Cg~~~~~~~p----~lY~D~-~~~~~i 65 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCP--SCGHKFRLEYP----LLYHDP-EKKFMI 65 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECC--CCCCceecCCC----EEEEcC-CCCEEE
Confidence 599999985421 1 12 255686 79988754332 344565 445554
No 200
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=31.72 E-value=40 Score=22.51 Aligned_cols=29 Identities=21% Similarity=0.570 Sum_probs=22.0
Q ss_pred cCccccCCCCceeccCCccccccCCCCCcee
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
.+-|+.||+............|. .|+...
T Consensus 3 ~~~C~~C~~~~i~~~~~~~~~C~--~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNKEDDYEVCI--FCGSSF 31 (33)
T ss_pred ceEcCCCCCCeEEEecCCeEEcc--cCCcEe
Confidence 46799999999875555667787 588754
No 201
>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=31.46 E-value=13 Score=28.92 Aligned_cols=15 Identities=27% Similarity=0.704 Sum_probs=10.4
Q ss_pred hcCccccCCCCceec
Q 016616 185 VSRFCGHCGEKTIPK 199 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~ 199 (386)
.+.||+.||.++...
T Consensus 47 ~r~FC~~CGs~l~~~ 61 (92)
T PF04828_consen 47 ERYFCPTCGSPLFSE 61 (92)
T ss_dssp EEEEETTT--EEEEE
T ss_pred cCcccCCCCCeeecc
Confidence 458999999999753
No 202
>COG4469 CoiA Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]
Probab=31.38 E-value=26 Score=35.40 Aligned_cols=16 Identities=38% Similarity=0.710 Sum_probs=13.3
Q ss_pred CccccCCCCceeccCC
Q 016616 187 RFCGHCGEKTIPKEAG 202 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g 202 (386)
-|||.||+++....|.
T Consensus 26 ffCPaC~~~l~lK~G~ 41 (342)
T COG4469 26 FFCPACGSQLILKQGL 41 (342)
T ss_pred cccCCCCCeeeeecCc
Confidence 6999999999876653
No 203
>PRK10220 hypothetical protein; Provisional
Probab=31.29 E-value=34 Score=29.16 Aligned_cols=32 Identities=16% Similarity=0.438 Sum_probs=24.5
Q ss_pred cCccccCCCCceeccCCccccccCCCCCceecCCC
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (386)
..-||.|++......+. ...|+ .|+.++-|.-
T Consensus 3 lP~CP~C~seytY~d~~-~~vCp--eC~hEW~~~~ 34 (111)
T PRK10220 3 LPHCPKCNSEYTYEDNG-MYICP--ECAHEWNDAE 34 (111)
T ss_pred CCcCCCCCCcceEcCCC-eEECC--cccCcCCccc
Confidence 35799999998765544 58897 7999887754
No 204
>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=30.95 E-value=39 Score=23.36 Aligned_cols=23 Identities=35% Similarity=0.538 Sum_probs=15.7
Q ss_pred HHHHHHhhhhhcCccccCCCCce
Q 016616 175 HARALLEWHNVSRFCGHCGEKTI 197 (386)
Q Consensus 175 ~A~~l~~W~~~~~fC~~CG~~~~ 197 (386)
-|.+|..-..+.+||..||.-+.
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 47788888999999999998664
No 205
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=30.94 E-value=86 Score=27.62 Aligned_cols=12 Identities=33% Similarity=0.861 Sum_probs=7.3
Q ss_pred CccccCCCCcee
Q 016616 187 RFCGHCGEKTIP 198 (386)
Q Consensus 187 ~fC~~CG~~~~~ 198 (386)
..|..||+-..+
T Consensus 30 ~kC~~CG~v~~P 41 (140)
T COG1545 30 TKCKKCGRVYFP 41 (140)
T ss_pred EEcCCCCeEEcC
Confidence 556666666554
No 206
>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=30.42 E-value=19 Score=33.36 Aligned_cols=15 Identities=20% Similarity=0.534 Sum_probs=11.5
Q ss_pred hcCccccCCCCceec
Q 016616 185 VSRFCGHCGEKTIPK 199 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~ 199 (386)
...||+.||+++...
T Consensus 88 ~R~FC~~CGS~L~~~ 102 (182)
T TIGR02820 88 QRHACKGCGTHMYGR 102 (182)
T ss_pred EeecCCCCCCccccc
Confidence 344999999999643
No 207
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=29.94 E-value=59 Score=27.69 Aligned_cols=32 Identities=16% Similarity=0.373 Sum_probs=25.2
Q ss_pred cCccccCCCCceeccCCccccccCCCCCceecCCC
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (386)
..-||.|.+.....+++ ...|+ .|.+++-+.-
T Consensus 3 lp~cp~c~sEytYed~~-~~~cp--ec~~ew~~~~ 34 (112)
T COG2824 3 LPPCPKCNSEYTYEDGG-QLICP--ECAHEWNENE 34 (112)
T ss_pred CCCCCccCCceEEecCc-eEeCc--hhcccccccc
Confidence 35799999998877777 89997 6998876543
No 208
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.57 E-value=36 Score=27.44 Aligned_cols=28 Identities=18% Similarity=0.519 Sum_probs=20.3
Q ss_pred CccccCCCCceecc--CCccccccCCCCCcee
Q 016616 187 RFCGHCGEKTIPKE--AGKLKQCSNASCKKRI 216 (386)
Q Consensus 187 ~fC~~CG~~~~~~~--~g~~~~C~~~~C~~~~ 216 (386)
.-||.||..+++.. +-....|| .|+-++
T Consensus 2 llCP~C~v~l~~~~rs~vEiD~CP--rCrGVW 31 (88)
T COG3809 2 LLCPICGVELVMSVRSGVEIDYCP--RCRGVW 31 (88)
T ss_pred cccCcCCceeeeeeecCceeeeCC--ccccEe
Confidence 46999999998764 45577786 586443
No 209
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=29.31 E-value=36 Score=31.27 Aligned_cols=33 Identities=15% Similarity=0.440 Sum_probs=24.4
Q ss_pred cCccccCCCCceeccCCccccccCCCCCceecCCCC
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRIYPRVD 221 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~~ 221 (386)
+..|+.||.+|.+..- ..+.|+ .|+.....+..
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 4679999999988553 458897 69987655443
No 210
>KOG2937 consensus Decapping enzyme complex, predicted pyrophosphatase DCP2 [RNA processing and modification]
Probab=29.24 E-value=12 Score=37.71 Aligned_cols=69 Identities=28% Similarity=0.329 Sum_probs=51.9
Q ss_pred CCCceecCCCCcEEEEEEEeCCCCEEEEEEeccCCCCceEeeeeecCCCCCHHHHHHHHHHHHhCCeec
Q 016616 211 SCKKRIYPRVDPVVIMLVIDRENDRVLLSRQSRFVPRMWSCIAGFIEPGESLEEAVRRETWEETGIEVG 279 (386)
Q Consensus 211 ~C~~~~ypr~~p~Vivlv~~~~~~~vLL~rr~~~~~g~wslPgG~Ve~GEtleeAa~REv~EEtGl~v~ 279 (386)
-|....++-..+++.+++++...+....+....--+..|.+|-|.+..||-..++..|+..||+|.+..
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 466777777777776666665555555544443334589999999999999999999999999998754
No 211
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=28.66 E-value=31 Score=38.31 Aligned_cols=28 Identities=21% Similarity=0.547 Sum_probs=20.6
Q ss_pred hcCccccCCCCceeccCCccccccCC-CCCc
Q 016616 185 VSRFCGHCGEKTIPKEAGKLKQCSNA-SCKK 214 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~g~~~~C~~~-~C~~ 214 (386)
--.+||.||+++.. .+....|.++ .|..
T Consensus 422 ~P~~CP~C~~~l~~--~~~~~~C~n~~~Cpa 450 (689)
T PRK14351 422 FPDTCPVCDSAVER--DGPLAFCTGGLACPA 450 (689)
T ss_pred CCCCCCCCCCEeee--CCceEEcCCCCCCHH
Confidence 45799999999975 4555669874 4864
No 212
>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=27.88 E-value=49 Score=29.18 Aligned_cols=32 Identities=19% Similarity=0.445 Sum_probs=23.7
Q ss_pred cCccccCCCCceeccCC---------------ccccccCCCCCceecCC
Q 016616 186 SRFCGHCGEKTIPKEAG---------------KLKQCSNASCKKRIYPR 219 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g---------------~~~~C~~~~C~~~~ypr 219 (386)
..-|+.|++++...... .-.+|+ .|+..+|+-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~--~C~kiyW~G 137 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCP--GCGKIYWEG 137 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECC--CCCCEeccc
Confidence 68999999998765332 245686 699988863
No 213
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=27.62 E-value=86 Score=27.32 Aligned_cols=38 Identities=21% Similarity=0.417 Sum_probs=26.0
Q ss_pred HHHHHhhhhhcCccccCCCCceeccCC-----ccccccCCCCCce
Q 016616 176 ARALLEWHNVSRFCGHCGEKTIPKEAG-----KLKQCSNASCKKR 215 (386)
Q Consensus 176 A~~l~~W~~~~~fC~~CG~~~~~~~~g-----~~~~C~~~~C~~~ 215 (386)
+..-..|.....+||.|++......++ -+..|+ +|+..
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 444457788899999999998433332 245686 68764
No 214
>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=27.36 E-value=18 Score=27.30 Aligned_cols=28 Identities=29% Similarity=0.352 Sum_probs=15.4
Q ss_pred CccccCCCCcee-ccCCccccccCCCCCce
Q 016616 187 RFCGHCGEKTIP-KEAGKLKQCSNASCKKR 215 (386)
Q Consensus 187 ~fC~~CG~~~~~-~~~g~~~~C~~~~C~~~ 215 (386)
.-||.||+++.. ....++.-|+ ..|..+
T Consensus 3 v~CP~C~k~~~~~~~n~~rPFCS-~RCk~i 31 (57)
T PF03884_consen 3 VKCPICGKPVEWSPENPFRPFCS-ERCKLI 31 (57)
T ss_dssp EE-TTT--EEE-SSSSS--SSSS-HHHHHH
T ss_pred ccCCCCCCeecccCCCCcCCccc-Hhhccc
Confidence 359999999987 4557788887 357554
No 215
>KOG2463 consensus Predicted RNA-binding protein Nob1p involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=27.29 E-value=25 Score=35.60 Aligned_cols=11 Identities=55% Similarity=1.313 Sum_probs=9.6
Q ss_pred CccccCCCCce
Q 016616 187 RFCGHCGEKTI 197 (386)
Q Consensus 187 ~fC~~CG~~~~ 197 (386)
.|||.||.+|-
T Consensus 258 ~FCp~CG~~TL 268 (376)
T KOG2463|consen 258 DFCPSCGHKTL 268 (376)
T ss_pred hcccccCCCee
Confidence 79999999964
No 216
>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=26.53 E-value=90 Score=30.69 Aligned_cols=21 Identities=14% Similarity=0.292 Sum_probs=16.9
Q ss_pred CCEEEEEEecc--CCCCceEeee
Q 016616 233 NDRVLLSRQSR--FVPRMWSCIA 253 (386)
Q Consensus 233 ~~~vLL~rr~~--~~~g~wslPg 253 (386)
++++|+.++.. ...|+|++|.
T Consensus 238 ~~~~~~~~r~~~~~~~gl~~~p~ 260 (275)
T TIGR01084 238 DGEVLLEQRPEKGLWGGLYCFPQ 260 (275)
T ss_pred CCeEEEEeCCCCchhhccccCCC
Confidence 67899988863 4689999996
No 217
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.25 E-value=32 Score=40.54 Aligned_cols=21 Identities=33% Similarity=0.793 Sum_probs=0.0
Q ss_pred ccccCCCCceeccCCccccccCCCCCce
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
||+.||+++.... .|+ .|+..
T Consensus 681 fCP~CGs~te~vy-----~CP--sCGae 701 (1337)
T PRK14714 681 RCPDCGTHTEPVY-----VCP--DCGAE 701 (1337)
T ss_pred cCcccCCcCCCce-----eCc--cCCCc
No 218
>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=26.23 E-value=36 Score=28.05 Aligned_cols=30 Identities=23% Similarity=0.671 Sum_probs=21.7
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
....+||.||+......+--...|. .|+..
T Consensus 33 ~~ky~Cp~Cgk~~vkR~a~GIW~C~--~C~~~ 62 (90)
T PF01780_consen 33 HAKYTCPFCGKTSVKRVATGIWKCK--KCGKK 62 (90)
T ss_dssp HS-BEESSSSSSEEEEEETTEEEET--TTTEE
T ss_pred hCCCcCCCCCCceeEEeeeEEeecC--CCCCE
Confidence 4457899999998776665557786 68764
No 219
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=25.68 E-value=50 Score=24.77 Aligned_cols=25 Identities=20% Similarity=0.426 Sum_probs=14.2
Q ss_pred ccccCCCCceeccCCccccccCCCCCceec
Q 016616 188 FCGHCGEKTIPKEAGKLKQCSNASCKKRIY 217 (386)
Q Consensus 188 fC~~CG~~~~~~~~g~~~~C~~~~C~~~~y 217 (386)
+||.|+++. .+.....|+ .||...|
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 577777765 233345565 5766543
No 220
>PRK00504 rpmG 50S ribosomal protein L33; Validated
Probab=25.62 E-value=36 Score=24.97 Aligned_cols=15 Identities=40% Similarity=0.999 Sum_probs=12.1
Q ss_pred cCccccCCCCceecc
Q 016616 186 SRFCGHCGEKTIPKE 200 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (386)
.+|||.|+..+...+
T Consensus 34 kKycp~c~khtlhkE 48 (50)
T PRK00504 34 KKFCPRCNKHTLHKE 48 (50)
T ss_pred ECcCCCCCCeEeeee
Confidence 489999999887654
No 221
>PRK12496 hypothetical protein; Provisional
Probab=24.81 E-value=31 Score=31.30 Aligned_cols=24 Identities=25% Similarity=0.731 Sum_probs=16.0
Q ss_pred HHHHHhhhhhc-------------CccccCCCCceec
Q 016616 176 ARALLEWHNVS-------------RFCGHCGEKTIPK 199 (386)
Q Consensus 176 A~~l~~W~~~~-------------~fC~~CG~~~~~~ 199 (386)
.+....|..++ .|||.||+++...
T Consensus 120 i~~~~~w~~~C~gC~~~~~~~~~~~~C~~CG~~~~r~ 156 (164)
T PRK12496 120 IKKVIKWRKVCKGCKKKYPEDYPDDVCEICGSPVKRK 156 (164)
T ss_pred chhheeeeEECCCCCccccCCCCCCcCCCCCChhhhc
Confidence 44556676643 3499999998643
No 222
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=24.80 E-value=50 Score=29.78 Aligned_cols=35 Identities=26% Similarity=0.652 Sum_probs=20.9
Q ss_pred ccccCCCCce-e------ccC---CccccccCCCCCc--eecCCCCcEE
Q 016616 188 FCGHCGEKTI-P------KEA---GKLKQCSNASCKK--RIYPRVDPVV 224 (386)
Q Consensus 188 fC~~CG~~~~-~------~~~---g~~~~C~~~~C~~--~~ypr~~p~V 224 (386)
-||.||++-. . ..+ .+.++|+ .||. ..|.++.-..
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 4999998752 1 121 2358897 5875 4666555443
No 223
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=24.64 E-value=46 Score=37.41 Aligned_cols=25 Identities=28% Similarity=0.538 Sum_probs=18.2
Q ss_pred CccccCCCCceeccCCccccccCCCCCce
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
..||.||.++...++ ...|. +||+.
T Consensus 725 ~~Cp~Cg~~l~~~~G--C~~C~--~CG~s 749 (752)
T PRK08665 725 GACPECGSILEHEEG--CVVCH--SCGYS 749 (752)
T ss_pred CCCCCCCcccEECCC--CCcCC--CCCCC
Confidence 479999987766554 55786 68864
No 224
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.39 E-value=42 Score=38.73 Aligned_cols=25 Identities=28% Similarity=0.658 Sum_probs=16.9
Q ss_pred hhhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 183 HNVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 183 ~~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
-...+||+.||..+ ....|+ .||..
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 345665 46654
No 225
>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=24.30 E-value=54 Score=23.76 Aligned_cols=30 Identities=20% Similarity=0.448 Sum_probs=15.6
Q ss_pred hhcCcccc--CCCCceeccCCcc--ccccCCCCCce
Q 016616 184 NVSRFCGH--CGEKTIPKEAGKL--KQCSNASCKKR 215 (386)
Q Consensus 184 ~~~~fC~~--CG~~~~~~~~g~~--~~C~~~~C~~~ 215 (386)
...++||. |+.......+... ..|+ .|+..
T Consensus 16 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~--~C~~~ 49 (64)
T PF01485_consen 16 PNIRWCPNPDCEYIIEKDDGCNSPIVTCP--SCGTE 49 (64)
T ss_dssp --CC--TTSST---ECS-SSTTS--CCTT--SCCSE
T ss_pred CCccCCCCCCCcccEEecCCCCCCeeECC--CCCCc
Confidence 34479988 9999887776555 7886 47754
No 226
>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]
Probab=23.91 E-value=27 Score=34.93 Aligned_cols=49 Identities=18% Similarity=0.322 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhhhhhcCccccCCCCceeccCC---ccccccCCCCCceecCC
Q 016616 170 LAIAGHARALLEWHNVSRFCGHCGEKTIPKEAG---KLKQCSNASCKKRIYPR 219 (386)
Q Consensus 170 ~~~~~~A~~l~~W~~~~~fC~~CG~~~~~~~~g---~~~~C~~~~C~~~~ypr 219 (386)
+....+|.-=..|-....||+.||.+--..... -..+|.+ .|.+.||+.
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 344455555568999999999999885433221 1234543 466677763
No 227
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=23.09 E-value=50 Score=24.67 Aligned_cols=27 Identities=22% Similarity=0.513 Sum_probs=19.2
Q ss_pred cCccccCCCCceeccCCccccccCCCCCcee
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
..-|+.||.++.. ++..-+|+ .|+..+
T Consensus 5 ~~~C~~Cg~~~~~--~dDiVvCp--~Cgapy 31 (54)
T PF14446_consen 5 GCKCPVCGKKFKD--GDDIVVCP--ECGAPY 31 (54)
T ss_pred CccChhhCCcccC--CCCEEECC--CCCCcc
Confidence 3569999998853 45577786 698754
No 228
>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=22.83 E-value=58 Score=21.76 Aligned_cols=26 Identities=23% Similarity=0.556 Sum_probs=18.3
Q ss_pred ccccCCCCceecc---CCccccccCCCCCce
Q 016616 188 FCGHCGEKTIPKE---AGKLKQCSNASCKKR 215 (386)
Q Consensus 188 fC~~CG~~~~~~~---~g~~~~C~~~~C~~~ 215 (386)
.|+.||....... .+....|+ .||..
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP--~Cg~~ 35 (41)
T smart00834 7 RCEDCGHTFEVLQKISDDPLATCP--ECGGD 35 (41)
T ss_pred EcCCCCCEEEEEEecCCCCCCCCC--CCCCc
Confidence 6999999765332 25667797 69873
No 229
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.74 E-value=36 Score=26.32 Aligned_cols=33 Identities=24% Similarity=0.381 Sum_probs=22.3
Q ss_pred hcCccccCCCCceec-cCCccccccCCCCCceecC
Q 016616 185 VSRFCGHCGEKTIPK-EAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~-~~g~~~~C~~~~C~~~~yp 218 (386)
...-||.||++..-. +...+.-|.. .|..+...
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 346799999998764 3466777863 57655433
No 230
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=22.54 E-value=36 Score=24.41 Aligned_cols=16 Identities=38% Similarity=0.756 Sum_probs=12.2
Q ss_pred hhcCccccCCCCceec
Q 016616 184 NVSRFCGHCGEKTIPK 199 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~ 199 (386)
...-+|+.||.++...
T Consensus 3 ~g~l~C~~CG~~m~~~ 18 (58)
T PF13408_consen 3 SGLLRCGHCGSKMTRR 18 (58)
T ss_pred CCcEEcccCCcEeEEE
Confidence 3456899999998764
No 231
>PF14443 DBC1: DBC1
Probab=22.40 E-value=94 Score=27.23 Aligned_cols=35 Identities=23% Similarity=0.202 Sum_probs=26.1
Q ss_pred CCceE--eeeeecCC-CCCHHHHHHHHHHHHhCCeecc
Q 016616 246 PRMWS--CIAGFIEP-GESLEEAVRRETWEETGIEVGE 280 (386)
Q Consensus 246 ~g~ws--lPgG~Ve~-GEtleeAa~REv~EEtGl~v~~ 280 (386)
.|.|+ |=||--+. ..++..+|+|=++|-|||+...
T Consensus 23 GG~WspsLDG~DP~~dp~~LI~TAiR~~K~~tgiDLS~ 60 (126)
T PF14443_consen 23 GGPWSPSLDGGDPSSDPSVLIRTAIRTCKALTGIDLSN 60 (126)
T ss_pred CCcCCcccCCCCCCCCcHHHHHHHHHHHHHHhccchhh
Confidence 46776 44555554 3578999999999999998743
No 232
>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=22.24 E-value=88 Score=27.19 Aligned_cols=37 Identities=16% Similarity=0.362 Sum_probs=26.6
Q ss_pred HHHhhhhhcCccccCCCCce---eccCCccccccCCCCCcee
Q 016616 178 ALLEWHNVSRFCGHCGEKTI---PKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 178 ~l~~W~~~~~fC~~CG~~~~---~~~~g~~~~C~~~~C~~~~ 216 (386)
.|..+-..+-.|+.|++|=. ....-+...|. +||...
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 45666778899999999933 22345678896 799764
No 233
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=21.99 E-value=65 Score=26.57 Aligned_cols=30 Identities=30% Similarity=0.803 Sum_probs=21.5
Q ss_pred hhcCccccCCCCceeccCCccccccCCCCCce
Q 016616 184 NVSRFCGHCGEKTIPKEAGKLKQCSNASCKKR 215 (386)
Q Consensus 184 ~~~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~ 215 (386)
.....||.||+......+--...|. .|+..
T Consensus 34 ~a~y~CpfCgk~~vkR~a~GIW~C~--~C~~~ 63 (90)
T PTZ00255 34 HAKYFCPFCGKHAVKRQAVGIWRCK--GCKKT 63 (90)
T ss_pred hCCccCCCCCCCceeeeeeEEEEcC--CCCCE
Confidence 3457899999887766665566786 68764
No 234
>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=21.76 E-value=32 Score=30.89 Aligned_cols=29 Identities=17% Similarity=0.193 Sum_probs=21.2
Q ss_pred hcCccccCCCCceeccC-CccccccCCCCCce
Q 016616 185 VSRFCGHCGEKTIPKEA-GKLKQCSNASCKKR 215 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~-g~~~~C~~~~C~~~ 215 (386)
.+-+||.||.+....++ ..-..|+ .||..
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 44569999998776554 4568897 69875
No 235
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=21.42 E-value=50 Score=28.43 Aligned_cols=15 Identities=27% Similarity=0.709 Sum_probs=8.5
Q ss_pred cccCCCCceeccCCc
Q 016616 189 CGHCGEKTIPKEAGK 203 (386)
Q Consensus 189 C~~CG~~~~~~~~g~ 203 (386)
||.||+......+|+
T Consensus 89 CP~C~s~~~~i~~G~ 103 (115)
T COG0375 89 CPKCGSINLRIIGGD 103 (115)
T ss_pred CCCCCCCceEEecCC
Confidence 666666655544443
No 236
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=21.40 E-value=28 Score=29.44 Aligned_cols=30 Identities=23% Similarity=0.470 Sum_probs=22.4
Q ss_pred CccccCCCCceeccCCccccccCCCCCceecC
Q 016616 187 RFCGHCGEKTIPKEAGKLKQCSNASCKKRIYP 218 (386)
Q Consensus 187 ~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~yp 218 (386)
.-|-+||+-...........|+ .||...|.
T Consensus 3 H~CtrCG~vf~~g~~~il~GCp--~CG~nkF~ 32 (112)
T COG3364 3 HQCTRCGEVFDDGSEEILSGCP--KCGCNKFL 32 (112)
T ss_pred ceecccccccccccHHHHccCc--cccchheE
Confidence 3599999987665556677897 59987764
No 237
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=21.28 E-value=34 Score=31.47 Aligned_cols=29 Identities=24% Similarity=0.422 Sum_probs=21.2
Q ss_pred hcCccccCCCCceeccC-CccccccCCCCCce
Q 016616 185 VSRFCGHCGEKTIPKEA-GKLKQCSNASCKKR 215 (386)
Q Consensus 185 ~~~fC~~CG~~~~~~~~-g~~~~C~~~~C~~~ 215 (386)
.+-+||.||.+....++ .....|+ .||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~~~F~Cp--~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAMEYGFRCP--QCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhhcCCcCC--CCCCC
Confidence 35679999999876554 4568897 69864
No 238
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.11 E-value=66 Score=35.66 Aligned_cols=18 Identities=6% Similarity=-0.084 Sum_probs=11.7
Q ss_pred CCCcEEEEEeCCceeeec
Q 016616 62 SPDFKVLPFRKGRPLTYS 79 (386)
Q Consensus 62 ~p~t~~l~f~~~~~l~~~ 79 (386)
..++.|++|.+....+..
T Consensus 247 tRSAvFaP~~~LgLIIvd 264 (665)
T PRK14873 247 TRSAVFAPVEDLGLVAIW 264 (665)
T ss_pred cceeEEeccCCCCEEEEE
Confidence 346677788777666543
No 239
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=21.06 E-value=59 Score=29.40 Aligned_cols=32 Identities=25% Similarity=0.724 Sum_probs=20.3
Q ss_pred ccccCCCCcee------ccC----CccccccCCCCCce--ecCCCC
Q 016616 188 FCGHCGEKTIP------KEA----GKLKQCSNASCKKR--IYPRVD 221 (386)
Q Consensus 188 fC~~CG~~~~~------~~~----g~~~~C~~~~C~~~--~ypr~~ 221 (386)
.||.|++.-.. .+. -+++.|. .|+.. .|.+..
T Consensus 2 ~CPfC~~~~tkViDSR~~edg~aIRRRReC~--~C~~RFTTfE~~E 45 (156)
T COG1327 2 KCPFCGHEDTKVIDSRPAEEGNAIRRRRECL--ECGERFTTFERAE 45 (156)
T ss_pred CCCCCCCCCCeeeecccccccchhhhhhccc--ccccccchhheee
Confidence 69999987432 223 3688897 69864 555443
No 240
>KOG0402 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=20.84 E-value=80 Score=25.76 Aligned_cols=27 Identities=41% Similarity=0.865 Sum_probs=19.6
Q ss_pred cCccccCCCCceeccCCccccccCCCCCc
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKK 214 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~ 214 (386)
-.+|+.||+.+....+--...|. +|..
T Consensus 36 ky~CsfCGK~~vKR~AvGiW~C~--~C~k 62 (92)
T KOG0402|consen 36 KYTCSFCGKKTVKRKAVGIWKCG--SCKK 62 (92)
T ss_pred hhhhhhcchhhhhhhceeEEecC--Cccc
Confidence 35799999999877765555575 4754
No 241
>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=20.73 E-value=1.8e+02 Score=25.68 Aligned_cols=28 Identities=21% Similarity=0.591 Sum_probs=20.1
Q ss_pred cCccccCCCCceeccCCccccccCCCCCcee
Q 016616 186 SRFCGHCGEKTIPKEAGKLKQCSNASCKKRI 216 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~~g~~~~C~~~~C~~~~ 216 (386)
+.-|+.|.+++..... ....|. .|+...
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 5779999999875532 455686 587665
No 242
>PRK05417 glutathione-dependent formaldehyde-activating enzyme; Provisional
Probab=20.71 E-value=40 Score=31.49 Aligned_cols=28 Identities=29% Similarity=0.340 Sum_probs=17.0
Q ss_pred eeeecCCCCCHH-HHHHHHHHHHhCCeec
Q 016616 252 IAGFIEPGESLE-EAVRRETWEETGIEVG 279 (386)
Q Consensus 252 PgG~Ve~GEtle-eAa~REv~EEtGl~v~ 279 (386)
..-.+|.|-.++ -..+|.-..|.|++.-
T Consensus 139 vsS~~e~~~~~~~~~~~~~~~~~~~~~~~ 167 (191)
T PRK05417 139 VSSIIESGTDPEQMDGIRARLKELGLEPY 167 (191)
T ss_pred eeeccccCCChHHhHHHHHHHHHcCCCcc
Confidence 344455564443 3456888888898753
No 243
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=20.35 E-value=1.1e+02 Score=22.03 Aligned_cols=31 Identities=19% Similarity=0.463 Sum_probs=22.0
Q ss_pred hhhcCccc--cCCCCceecc--CCccccccCCCCCce
Q 016616 183 HNVSRFCG--HCGEKTIPKE--AGKLKQCSNASCKKR 215 (386)
Q Consensus 183 ~~~~~fC~--~CG~~~~~~~--~g~~~~C~~~~C~~~ 215 (386)
+.+.++|| .|+....... +.....|+ .|+..
T Consensus 15 ~~~~~~CP~~~C~~~~~~~~~~~~~~v~C~--~C~~~ 49 (64)
T smart00647 15 NPDLKWCPAPDCSAAIIVTEEEGCNRVTCP--KCGFS 49 (64)
T ss_pred CCCccCCCCCCCcceEEecCCCCCCeeECC--CCCCe
Confidence 45778999 9998887753 45577785 47643
No 244
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=20.31 E-value=46 Score=26.21 Aligned_cols=10 Identities=40% Similarity=1.082 Sum_probs=3.0
Q ss_pred ccccCCCCce
Q 016616 188 FCGHCGEKTI 197 (386)
Q Consensus 188 fC~~CG~~~~ 197 (386)
|||.||.+++
T Consensus 32 ~CPdC~~~Le 41 (70)
T PF07191_consen 32 FCPDCGQPLE 41 (70)
T ss_dssp E-TTT-SB-E
T ss_pred cCCCcccHHH
Confidence 4444444443
No 245
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=20.28 E-value=43 Score=25.71 Aligned_cols=29 Identities=21% Similarity=0.296 Sum_probs=20.7
Q ss_pred cCccccCCCCceec-cCCccccccCCCCCce
Q 016616 186 SRFCGHCGEKTIPK-EAGKLKQCSNASCKKR 215 (386)
Q Consensus 186 ~~fC~~CG~~~~~~-~~g~~~~C~~~~C~~~ 215 (386)
..-||.||+++... ...++.-|+ ..|..+
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS-~RCk~I 35 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCS-KRCQLI 35 (62)
T ss_pred cccCCCCCCcccccCCCCcCCccc-HHHHhh
Confidence 46799999998754 456778887 357644
No 246
>PF14375 Cys_rich_CWC: Cysteine-rich CWC
Probab=20.13 E-value=78 Score=22.83 Aligned_cols=29 Identities=28% Similarity=0.566 Sum_probs=21.6
Q ss_pred cccCCCCceeccCCccccccCCCCCceecCCC
Q 016616 189 CGHCGEKTIPKEAGKLKQCSNASCKKRIYPRV 220 (386)
Q Consensus 189 C~~CG~~~~~~~~g~~~~C~~~~C~~~~ypr~ 220 (386)
||.||.+..=..++....|+ |....++..
T Consensus 1 CP~Cg~~f~C~~~~~~~~CW---C~~~~~~~~ 29 (50)
T PF14375_consen 1 CPRCGAPFECGAGGGISQCW---CFSVPLPPA 29 (50)
T ss_pred CCCCCCcCCCCCCCCCCCcc---cCCCcCCHh
Confidence 89999998766566778897 777666543
No 247
>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=20.12 E-value=41 Score=24.38 Aligned_cols=15 Identities=33% Similarity=0.926 Sum_probs=11.7
Q ss_pred cCccccCCCCceecc
Q 016616 186 SRFCGHCGEKTIPKE 200 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (386)
.+|||.|+..+...+
T Consensus 32 kKycp~~~khtlhkE 46 (48)
T PF00471_consen 32 KKYCPRCRKHTLHKE 46 (48)
T ss_dssp EEEETSSSSEEEEEC
T ss_pred eccCCCCCCEecEEE
Confidence 489999998876654
No 248
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=20.07 E-value=49 Score=24.34 Aligned_cols=15 Identities=33% Similarity=0.868 Sum_probs=12.0
Q ss_pred cCccccCCCCceecc
Q 016616 186 SRFCGHCGEKTIPKE 200 (386)
Q Consensus 186 ~~fC~~CG~~~~~~~ 200 (386)
.+|||.|...+...+
T Consensus 34 kKycp~~~khtlhkE 48 (50)
T COG0267 34 KKYCPVCRKHTLHKE 48 (50)
T ss_pred EecCcccccEEEEee
Confidence 489999998887654
Done!