Query 035093
Match_columns 73
No_of_seqs 115 out of 570
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 09:08:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035093.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035093hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01764 Urm1 Urm1-like ubuitin 100.0 1.7E-29 3.6E-34 154.7 6.9 68 6-73 27-94 (94)
2 TIGR01687 moaD_arch MoaD famil 99.9 1.1E-22 2.4E-27 121.4 6.5 69 2-73 20-88 (88)
3 PF09138 Urm1: Urm1 (Ubiquitin 99.9 1.2E-22 2.5E-27 125.3 3.9 72 2-73 22-96 (96)
4 KOG4146 Ubiquitin-like protein 99.8 7E-20 1.5E-24 112.3 6.1 68 6-73 34-101 (101)
5 PF02597 ThiS: ThiS family; I 99.8 9.8E-19 2.1E-23 101.1 4.7 62 2-73 16-77 (77)
6 cd00754 MoaD Ubiquitin domain 99.7 3.4E-18 7.5E-23 99.6 5.6 61 2-73 20-80 (80)
7 COG5131 URM1 Ubiquitin-like pr 99.7 4.4E-18 9.4E-23 103.7 6.1 68 6-73 28-96 (96)
8 TIGR01682 moaD molybdopterin c 99.7 3.6E-17 7.8E-22 96.3 6.2 60 2-73 20-80 (80)
9 PLN02799 Molybdopterin synthas 99.7 9.2E-17 2E-21 94.9 5.0 60 2-73 23-82 (82)
10 PRK11130 moaD molybdopterin sy 99.7 2.6E-16 5.7E-21 93.2 6.3 58 6-73 24-81 (81)
11 COG1977 MoaD Molybdopterin con 99.5 6.1E-15 1.3E-19 88.3 4.3 61 8-73 24-84 (84)
12 PRK06944 sulfur carrier protei 99.4 2.9E-13 6.3E-18 76.7 5.8 56 2-73 10-65 (65)
13 cd00565 ThiS ThiaminS ubiquiti 99.4 3.7E-13 8.1E-18 76.7 4.3 57 2-73 9-65 (65)
14 TIGR01683 thiS thiamine biosyn 99.3 4E-12 8.6E-17 72.3 4.7 57 2-73 8-64 (64)
15 PRK08364 sulfur carrier protei 99.2 9.4E-11 2E-15 67.9 5.7 53 2-73 18-70 (70)
16 PRK06488 sulfur carrier protei 99.1 1.2E-10 2.5E-15 66.3 5.1 55 3-73 11-65 (65)
17 PRK08053 sulfur carrier protei 99.1 1.2E-10 2.7E-15 66.6 4.4 57 2-73 10-66 (66)
18 PRK06437 hypothetical protein; 99.1 3.6E-10 7.9E-15 65.2 5.1 53 2-73 15-67 (67)
19 PRK05659 sulfur carrier protei 98.9 2.1E-09 4.6E-14 60.9 5.1 57 2-73 10-66 (66)
20 PRK01777 hypothetical protein; 98.8 1.2E-08 2.7E-13 62.6 5.0 58 2-71 21-78 (95)
21 PRK05863 sulfur carrier protei 98.8 1.7E-08 3.7E-13 57.6 5.1 56 2-73 10-65 (65)
22 PRK07440 hypothetical protein; 98.7 2.1E-08 4.5E-13 58.3 4.4 57 2-73 14-70 (70)
23 COG2104 ThiS Sulfur transfer p 98.6 6.1E-08 1.3E-12 56.4 4.7 57 2-73 12-68 (68)
24 PRK07696 sulfur carrier protei 98.6 1.2E-07 2.6E-12 54.5 4.3 56 3-73 11-67 (67)
25 PRK06083 sulfur carrier protei 98.5 1.4E-07 3E-12 56.8 4.3 57 2-73 28-84 (84)
26 PRK11840 bifunctional sulfur c 98.4 4.3E-07 9.4E-12 66.1 4.7 57 2-73 10-66 (326)
27 KOG3474 Molybdopterin converti 98.1 2.3E-06 4.9E-11 50.9 2.4 62 2-73 23-84 (84)
28 PF06805 Lambda_tail_I: Bacter 97.9 3.4E-05 7.5E-10 46.1 5.1 60 6-73 23-82 (82)
29 PF14451 Ub-Mut7C: Mut7-C ubiq 97.9 1.3E-05 2.9E-10 47.9 3.3 51 2-70 27-77 (81)
30 PF02824 TGS: TGS domain; Int 97.3 0.00032 6.9E-09 39.3 3.0 49 2-67 11-59 (60)
31 cd00196 UBQ Ubiquitin-like pro 97.2 0.0015 3.3E-08 33.1 5.2 56 3-69 13-69 (69)
32 PF03658 Ub-RnfH: RnfH family 96.9 0.002 4.3E-08 38.9 4.1 55 2-70 18-74 (84)
33 cd01616 TGS The TGS domain, na 96.8 0.0068 1.5E-07 31.5 5.2 49 2-67 11-59 (60)
34 cd01668 TGS_RelA_SpoT TGS_RelA 96.7 0.0064 1.4E-07 32.7 4.8 49 2-67 11-59 (60)
35 cd01666 TGS_DRG_C TGS_DRG_C: 96.1 0.02 4.4E-07 33.6 4.8 54 2-67 19-74 (75)
36 cd01669 TGS_Ygr210_C TGS_Ygr21 95.4 0.048 1E-06 32.0 4.5 50 2-67 25-75 (76)
37 cd01806 Nedd8 Nebb8-like ubiq 95.4 0.043 9.3E-07 30.8 4.2 60 2-73 15-76 (76)
38 cd01804 midnolin_N Ubiquitin-l 95.3 0.041 8.9E-07 31.9 4.0 59 2-73 16-76 (78)
39 cd01803 Ubiquitin Ubiquitin. U 94.2 0.11 2.4E-06 29.0 3.9 60 2-73 15-76 (76)
40 PF13085 Fer2_3: 2Fe-2S iron-s 93.5 0.41 8.9E-06 30.0 5.9 63 2-68 23-91 (110)
41 TIGR00691 spoT_relA (p)ppGpp s 93.4 0.2 4.3E-06 39.7 5.2 51 2-69 372-422 (683)
42 cd04938 TGS_Obg-like TGS_Obg-l 93.0 0.15 3.3E-06 29.8 3.2 48 4-67 28-75 (76)
43 cd01667 TGS_ThrRS_N TGS _ThrRS 93.0 0.5 1.1E-05 24.4 5.0 49 3-68 12-60 (61)
44 cd01810 ISG15_repeat2 ISG15 ub 92.9 0.25 5.5E-06 28.0 3.9 60 2-73 13-74 (74)
45 PF14453 ThiS-like: ThiS-like 92.4 0.24 5.3E-06 27.8 3.3 24 41-68 32-55 (57)
46 COG4723 Phage-related protein, 92.2 0.13 2.8E-06 35.4 2.3 60 8-73 26-88 (198)
47 cd01800 SF3a120_C Ubiquitin-li 92.1 0.4 8.8E-06 27.4 4.2 60 2-73 12-73 (76)
48 COG2501 S4-like RNA binding pr 92.0 0.21 4.5E-06 29.5 2.8 52 6-66 10-61 (73)
49 PTZ00044 ubiquitin; Provisiona 91.8 0.39 8.4E-06 27.0 3.8 60 2-73 15-76 (76)
50 PF11543 UN_NPL4: Nuclear pore 91.0 0.27 5.9E-06 29.0 2.7 60 2-68 18-79 (80)
51 TIGR02988 YaaA_near_RecF S4 do 90.8 0.34 7.5E-06 26.4 2.8 23 41-66 36-58 (59)
52 PF00498 FHA: FHA domain; Int 90.7 0.15 3.3E-06 28.0 1.3 26 39-66 42-67 (68)
53 cd01793 Fubi Fubi ubiquitin-li 90.4 0.59 1.3E-05 26.4 3.7 60 2-73 13-74 (74)
54 PRK10872 relA (p)ppGpp synthet 89.9 0.46 9.9E-06 38.3 3.8 51 2-69 416-466 (743)
55 cd01812 BAG1_N Ubiquitin-like 89.3 0.87 1.9E-05 25.0 3.8 55 2-68 14-70 (71)
56 COG2914 Uncharacterized protei 88.7 0.75 1.6E-05 28.6 3.4 55 2-70 21-77 (99)
57 PRK07570 succinate dehydrogena 88.7 1.7 3.6E-05 30.7 5.6 63 4-69 27-102 (250)
58 cd01802 AN1_N ubiquitin-like d 88.6 0.84 1.8E-05 28.0 3.6 60 2-73 42-103 (103)
59 cd01763 Sumo Small ubiquitin-r 88.6 1.9 4.2E-05 25.2 5.1 61 2-73 26-87 (87)
60 TIGR00384 dhsB succinate dehyd 87.7 1.5 3.2E-05 29.8 4.7 63 2-68 19-84 (220)
61 PRK13552 frdB fumarate reducta 87.2 1.5 3.2E-05 30.6 4.5 63 2-68 28-93 (239)
62 PRK11092 bifunctional (p)ppGpp 86.9 1.1 2.3E-05 36.0 4.1 26 39-68 422-447 (702)
63 smart00363 S4 S4 RNA-binding d 86.5 0.83 1.8E-05 23.3 2.4 26 40-68 27-52 (60)
64 KOG1769 Ubiquitin-like protein 86.5 3.7 8E-05 25.5 5.5 58 5-73 38-96 (99)
65 PF01479 S4: S4 domain; Inter 85.0 0.7 1.5E-05 23.9 1.6 21 41-64 28-48 (48)
66 cd01791 Ubl5 UBL5 ubiquitin-li 84.6 1.8 3.8E-05 24.9 3.3 54 2-67 16-71 (73)
67 cd01805 RAD23_N Ubiquitin-like 84.1 2.7 5.9E-05 23.5 3.9 54 2-67 15-72 (77)
68 cd01815 BMSC_UbP_N Ubiquitin-l 83.9 1.7 3.6E-05 25.6 3.1 50 5-67 18-73 (75)
69 PF14478 DUF4430: Domain of un 82.7 1.6 3.4E-05 24.5 2.5 31 35-66 37-67 (68)
70 PRK05950 sdhB succinate dehydr 82.5 3.4 7.3E-05 28.3 4.6 63 2-68 22-88 (232)
71 PRK11507 ribosome-associated p 82.3 1.6 3.6E-05 25.4 2.5 52 6-66 10-61 (70)
72 PF13275 S4_2: S4 domain; PDB: 82.2 0.44 9.5E-06 27.4 0.1 52 6-66 6-57 (65)
73 PF11976 Rad60-SLD: Ubiquitin- 82.1 2.4 5.3E-05 23.4 3.2 56 2-67 15-71 (72)
74 PRK12385 fumarate reductase ir 81.5 2.5 5.5E-05 29.5 3.7 63 2-68 29-93 (244)
75 PRK12577 succinate dehydrogena 81.1 3.7 8E-05 29.8 4.6 63 2-68 23-98 (329)
76 cd01813 UBP_N UBP ubiquitin pr 81.0 3.2 7E-05 23.7 3.5 55 2-67 14-72 (74)
77 COG1163 DRG Predicted GTPase [ 80.8 2.1 4.5E-05 32.1 3.2 52 4-68 310-364 (365)
78 PF14950 DUF4502: Domain of un 80.3 2.6 5.7E-05 31.5 3.6 32 34-70 324-355 (358)
79 PF11834 DUF3354: Domain of un 80.1 4.1 9E-05 23.5 3.7 38 8-45 26-63 (69)
80 PF00240 ubiquitin: Ubiquitin 80.1 7.4 0.00016 21.1 4.7 54 2-67 10-65 (69)
81 COG0024 Map Methionine aminope 78.3 7.8 0.00017 27.6 5.4 62 4-66 32-95 (255)
82 PRK08640 sdhB succinate dehydr 78.3 5.7 0.00012 27.9 4.6 64 2-68 27-98 (249)
83 PRK00413 thrS threonyl-tRNA sy 78.0 4.9 0.00011 31.1 4.6 50 2-68 12-61 (638)
84 PF01561 Hanta_G2: Hantavirus 77.5 2.1 4.5E-05 33.0 2.4 27 26-53 289-315 (485)
85 cd00165 S4 S4/Hsp/ tRNA synthe 77.4 3.4 7.4E-05 21.5 2.7 26 40-68 27-52 (70)
86 cd01807 GDX_N ubiquitin-like d 76.2 4.5 9.8E-05 22.6 3.1 55 2-68 15-71 (74)
87 PRK09602 translation-associate 76.1 4.9 0.00011 29.9 4.0 51 3-68 344-394 (396)
88 KOG1349 Gpi-anchor transamidas 75.9 3.1 6.7E-05 30.3 2.8 37 7-46 109-148 (309)
89 PLN02560 enoyl-CoA reductase 75.5 6 0.00013 28.7 4.2 58 2-66 18-80 (308)
90 PF13510 Fer2_4: 2Fe-2S iron-s 74.7 5.7 0.00012 23.1 3.3 61 2-65 13-78 (82)
91 cd01760 RBD Ubiquitin-like dom 74.4 2.8 6E-05 24.3 1.9 20 2-21 14-33 (72)
92 smart00455 RBD Raf-like Ras-bi 74.1 3.3 7.1E-05 23.7 2.2 21 2-22 14-34 (70)
93 cd01809 Scythe_N Ubiquitin-lik 73.5 7.2 0.00016 21.2 3.4 55 2-68 15-71 (72)
94 COG0479 FrdB Succinate dehydro 73.5 13 0.00028 26.2 5.4 63 2-68 24-89 (234)
95 COG0317 SpoT Guanosine polypho 73.0 5.5 0.00012 32.2 3.8 28 38-69 422-449 (701)
96 PRK11025 23S rRNA pseudouridyl 72.7 4.1 8.9E-05 29.2 2.8 25 40-68 46-70 (317)
97 cd01769 UBL Ubiquitin-like dom 72.4 12 0.00027 19.7 4.9 55 2-67 12-67 (69)
98 PRK12576 succinate dehydrogena 71.2 9.3 0.0002 27.2 4.3 47 2-49 29-76 (279)
99 PF14483 Cut8_M: Cut8 dimerisa 71.1 1.8 3.8E-05 22.3 0.5 26 4-29 9-34 (38)
100 cd01808 hPLIC_N Ubiquitin-like 71.1 9.7 0.00021 21.1 3.6 55 2-68 14-70 (71)
101 PLN00129 succinate dehydrogena 70.9 15 0.00032 26.4 5.3 59 6-68 71-132 (276)
102 PF13019 Telomere_Sde2: Telome 70.0 16 0.00036 24.4 5.0 25 2-26 19-43 (162)
103 cd01789 Alp11_N Ubiquitin-like 69.9 19 0.00042 20.9 5.3 58 3-67 18-79 (84)
104 PF00077 RVP: Retroviral aspar 69.5 2.4 5.2E-05 24.7 0.9 28 35-68 4-31 (100)
105 cd05484 retropepsin_like_LTR_2 69.3 5.1 0.00011 23.1 2.3 26 38-69 2-27 (91)
106 PTZ00062 glutaredoxin; Provisi 69.1 6.7 0.00015 26.8 3.1 52 5-56 30-83 (204)
107 cd00060 FHA Forkhead associate 68.4 6.3 0.00014 22.3 2.5 26 40-67 67-92 (102)
108 PF02196 RBD: Raf-like Ras-bin 67.9 5.2 0.00011 22.8 2.1 21 2-22 15-35 (71)
109 PRK12386 fumarate reductase ir 67.2 10 0.00023 26.7 3.8 48 2-50 24-72 (251)
110 COG5227 SMT3 Ubiquitin-like pr 66.9 8.1 0.00017 24.0 2.8 51 4-65 41-92 (103)
111 PF06071 YchF-GTPase_C: Protei 66.6 2.4 5.2E-05 25.6 0.5 16 51-66 66-81 (84)
112 PRK12444 threonyl-tRNA synthet 66.5 14 0.00031 28.8 4.8 50 2-68 16-65 (639)
113 TIGR03028 EpsE polysaccharide 66.5 15 0.00032 25.2 4.4 56 2-67 177-235 (239)
114 PF09379 FERM_N: FERM N-termin 65.0 7 0.00015 21.8 2.2 28 2-29 11-38 (80)
115 KOG0126 Predicted RNA-binding 64.9 5.6 0.00012 27.7 2.1 20 50-69 39-58 (219)
116 TIGR01017 rpsD_bact ribosomal 64.4 8 0.00017 26.3 2.8 26 40-68 116-141 (200)
117 cd01801 Tsc13_N Ubiquitin-like 63.9 22 0.00047 20.1 4.2 51 5-66 20-74 (77)
118 CHL00113 rps4 ribosomal protei 63.5 8 0.00017 26.5 2.6 59 7-68 77-140 (201)
119 PF01802 Herpes_V23: Herpesvir 63.0 6.2 0.00013 28.7 2.1 59 11-73 56-114 (296)
120 COG0522 RpsD Ribosomal protein 62.9 6.7 0.00015 27.0 2.2 27 37-66 117-143 (205)
121 cd01796 DDI1_N DNA damage indu 62.6 25 0.00054 19.6 4.4 52 2-66 14-69 (71)
122 COG1188 Ribosome-associated he 62.5 9.7 0.00021 23.7 2.6 23 41-67 36-58 (100)
123 smart00314 RA Ras association 62.5 21 0.00046 20.5 4.0 35 2-44 20-54 (90)
124 TIGR00601 rad23 UV excision re 62.3 11 0.00024 28.1 3.4 54 2-67 15-73 (378)
125 PF08825 E2_bind: E2 binding d 62.0 5.4 0.00012 23.8 1.4 20 2-21 1-20 (84)
126 PRK05327 rpsD 30S ribosomal pr 61.9 9.3 0.0002 26.0 2.7 26 40-68 119-144 (203)
127 cd04867 TGS_YchF_C TGS_YchF_C: 61.1 4.9 0.00011 24.2 1.1 17 50-66 65-81 (83)
128 cd01792 ISG15_repeat1 ISG15 ub 60.9 25 0.00055 19.9 4.1 55 2-67 17-74 (80)
129 PF01957 NfeD: NfeD-like C-ter 60.6 12 0.00026 22.9 2.9 32 35-68 101-132 (144)
130 PHA03259 Capsid triplex subuni 59.8 7.3 0.00016 28.5 2.0 58 11-73 56-114 (302)
131 PHA03258 Capsid triplex subuni 59.2 7.8 0.00017 28.4 2.1 60 11-73 60-120 (304)
132 TIGR00495 crvDNA_42K 42K curve 58.9 31 0.00067 25.7 5.2 63 4-66 40-109 (389)
133 cd01799 Hoil1_N Ubiquitin-like 58.8 22 0.00047 20.4 3.6 54 2-67 17-73 (75)
134 PF02080 TrkA_C: TrkA-C domain 57.5 10 0.00022 20.5 1.9 19 50-68 40-58 (71)
135 PRK12575 succinate dehydrogena 56.5 30 0.00066 24.1 4.6 62 3-68 28-91 (235)
136 PF08817 YukD: WXG100 protein 56.1 11 0.00025 21.5 2.1 21 2-22 17-37 (79)
137 cd03864 M14_CPN Peptidase M14 56.0 27 0.00058 26.2 4.5 56 9-69 303-358 (392)
138 PHA03257 Capsid triplex subuni 56.0 9.4 0.0002 28.2 2.0 17 57-73 106-122 (316)
139 PF01568 Molydop_binding: Moly 55.8 8.4 0.00018 22.6 1.5 27 39-70 30-56 (110)
140 cd01817 RGS12_RBD Ubiquitin do 55.3 41 0.00089 19.7 4.4 20 2-21 14-33 (73)
141 cd01775 CYR1_RA Ubiquitin doma 55.2 39 0.00084 20.9 4.4 20 2-21 17-36 (97)
142 TIGR02958 sec_mycoba_snm4 secr 55.0 47 0.001 25.3 5.7 64 2-69 16-80 (452)
143 PF10844 DUF2577: Protein of u 54.4 13 0.00028 22.5 2.2 16 57-72 76-91 (100)
144 COG0564 RluA Pseudouridylate s 54.3 15 0.00033 26.2 2.9 27 40-70 38-64 (289)
145 PF05402 PqqD: Coenzyme PQQ sy 54.2 11 0.00023 20.5 1.7 21 6-26 28-48 (68)
146 PRK10839 16S rRNA pseudouridyl 54.0 15 0.00033 24.9 2.7 25 40-67 26-50 (232)
147 TIGR03354 VI_FHA type VI secre 52.7 16 0.00035 27.3 2.9 28 41-68 69-96 (396)
148 KOG1654 Microtubule-associated 52.6 21 0.00045 22.8 3.0 35 4-48 51-85 (116)
149 PF11470 TUG-UBL1: GLUT4 regul 52.2 16 0.00035 20.7 2.2 21 2-22 11-31 (65)
150 PF00788 RA: Ras association ( 52.0 27 0.00059 19.6 3.3 21 2-22 21-41 (93)
151 PF07385 DUF1498: Protein of u 51.4 17 0.00037 25.6 2.7 39 32-70 130-170 (225)
152 PF09358 UBA_e1_C: Ubiquitin-a 51.4 11 0.00024 23.8 1.6 21 2-22 37-57 (125)
153 PF09014 Sushi_2: Beta-2-glyco 50.9 8.3 0.00018 23.4 0.9 28 40-67 12-39 (85)
154 TIGR00005 rluA_subfam pseudour 50.7 18 0.0004 25.3 2.8 25 40-67 32-56 (299)
155 KOG0785 Isocitrate dehydrogena 50.0 21 0.00044 26.8 3.0 56 11-66 86-149 (365)
156 COG0146 HyuB N-methylhydantoin 50.0 25 0.00055 27.9 3.6 38 35-73 480-518 (563)
157 PF13881 Rad60-SLD_2: Ubiquiti 49.8 52 0.0011 20.4 4.5 40 3-46 19-58 (111)
158 TIGR00269 conserved hypothetic 49.7 9.8 0.00021 23.1 1.1 29 8-36 40-68 (104)
159 TIGR03069 PS_II_S4 photosystem 48.3 23 0.00049 25.0 2.9 24 40-66 209-232 (257)
160 TIGR01266 fum_ac_acetase fumar 48.2 67 0.0014 24.5 5.6 57 9-66 324-391 (415)
161 COG0490 Putative regulatory, l 47.8 28 0.0006 23.4 3.1 30 38-68 116-145 (162)
162 cd02779 MopB_CT_Arsenite-Ox Th 47.7 17 0.00037 21.8 2.0 29 37-70 31-59 (115)
163 PLN00051 RNA-binding S4 domain 47.2 24 0.00051 25.2 2.9 23 41-66 218-240 (267)
164 cd03869 M14_CPX_like Peptidase 46.9 59 0.0013 24.6 5.1 55 10-69 317-371 (405)
165 TIGR03027 pepcterm_export puta 46.7 37 0.00079 21.9 3.6 64 2-68 93-162 (165)
166 PF06241 DUF1012: Protein of u 46.6 26 0.00056 24.4 2.9 30 42-72 123-152 (206)
167 cd01798 parkin_N amino-termina 46.5 38 0.00081 18.5 3.2 54 2-67 13-68 (70)
168 TIGR03859 PQQ_PqqD coenzyme PQ 46.4 22 0.00047 20.6 2.2 22 6-28 42-63 (81)
169 cd02790 MopB_CT_Formate-Dh_H F 46.3 19 0.00041 21.2 2.0 28 38-70 34-61 (116)
170 PF00842 Ala_racemase_C: Alani 46.3 34 0.00073 21.6 3.3 32 38-69 52-95 (129)
171 PRK11180 rluD 23S rRNA pseudou 46.1 26 0.00057 25.1 3.0 26 40-68 44-69 (325)
172 PRK09601 GTP-binding protein Y 46.1 13 0.00027 27.8 1.4 17 50-66 344-360 (364)
173 PF03831 PhnA: PhnA protein; 45.7 10 0.00022 21.3 0.7 13 55-67 7-19 (56)
174 PRK04950 ProP expression regul 45.6 28 0.00062 24.3 3.0 28 7-38 7-34 (213)
175 cd01794 DC_UbP_C dendritic cel 45.5 28 0.00061 19.5 2.6 54 2-67 13-68 (70)
176 PTZ00258 GTP-binding protein; 45.4 13 0.00028 27.9 1.4 18 50-67 368-385 (390)
177 PLN02856 fumarylacetoacetase 45.4 75 0.0016 24.3 5.5 60 9-69 332-402 (424)
178 cd06406 PB1_P67 A PB1 domain i 45.3 23 0.0005 21.1 2.2 20 2-21 15-34 (80)
179 PF09356 Phage_BR0599: Phage c 45.2 45 0.00098 19.4 3.5 30 41-70 24-53 (80)
180 cd02787 MopB_CT_ydeP The MopB_ 45.2 18 0.0004 21.5 1.9 28 39-71 31-58 (112)
181 cd01089 PA2G4-like Related to 44.9 70 0.0015 21.4 4.9 29 39-67 61-92 (228)
182 COG1716 FOG: FHA domain [Signa 44.4 25 0.00054 22.5 2.5 28 37-68 129-156 (191)
183 PRK10475 23S rRNA pseudouridin 44.2 25 0.00054 25.2 2.6 24 40-67 32-55 (290)
184 PF10407 Cytokin_check_N: Cdc1 44.1 65 0.0014 18.7 4.2 21 5-25 10-30 (73)
185 TIGR00686 phnA alkylphosphonat 43.8 19 0.00042 22.7 1.8 17 52-68 45-61 (109)
186 PHA03399 pif3 per os infectivi 43.8 42 0.00091 23.2 3.6 45 23-69 125-174 (200)
187 PF14560 Ubiquitin_2: Ubiquiti 43.4 49 0.0011 18.9 3.5 61 3-67 19-81 (87)
188 smart00666 PB1 PB1 domain. Pho 43.3 25 0.00055 19.6 2.2 22 2-23 15-36 (81)
189 cd02558 PSRA_1 PSRA_1: Pseudou 42.1 27 0.00058 24.1 2.5 24 41-68 4-27 (246)
190 cd06095 RP_RTVL_H_like Retrope 41.6 20 0.00044 20.5 1.6 13 39-51 1-13 (86)
191 smart00213 UBQ Ubiquitin homol 41.4 27 0.00059 18.0 2.0 20 2-21 14-33 (64)
192 PF12860 PAS_7: PAS fold 41.3 62 0.0014 18.8 3.8 61 5-68 36-105 (115)
193 cd02792 MopB_CT_Formate-Dh-Na- 41.3 27 0.00059 20.7 2.2 28 38-70 34-61 (122)
194 cd02786 MopB_CT_3 The MopB_CT_ 40.9 26 0.00056 20.8 2.0 28 38-70 30-57 (116)
195 KOG0257 Kynurenine aminotransf 40.6 25 0.00053 27.0 2.3 59 7-70 68-126 (420)
196 cd01784 rasfadin_RA Ubiquitin- 40.4 70 0.0015 19.4 3.8 20 2-21 17-36 (87)
197 PF13180 PDZ_2: PDZ domain; PD 39.5 11 0.00025 21.1 0.3 30 37-66 35-67 (82)
198 cd06245 M14_CPD_III The third 39.4 74 0.0016 23.5 4.6 54 10-69 275-328 (363)
199 cd02783 MopB_CT_2 The MopB_CT_ 39.4 28 0.0006 22.4 2.1 29 37-70 30-58 (156)
200 cd01795 USP48_C USP ubiquitin- 39.4 37 0.00079 21.4 2.5 30 2-31 19-50 (107)
201 PF11685 DUF3281: Protein of u 38.8 26 0.00056 25.3 2.0 31 3-34 164-194 (268)
202 PRK02079 pyrroloquinoline quin 38.8 35 0.00075 20.3 2.3 19 6-24 47-65 (88)
203 cd02784 MopB_CT_PHLH The MopB_ 38.8 25 0.00054 22.5 1.8 26 40-70 39-64 (137)
204 cd01768 RA RA (Ras-associating 38.7 31 0.00066 19.6 2.0 21 2-22 17-37 (87)
205 PRK10348 ribosome-associated h 38.4 40 0.00088 21.8 2.7 22 41-66 36-57 (133)
206 cd00508 MopB_CT_Fdh-Nap-like T 38.3 29 0.00062 20.4 2.0 26 40-70 36-61 (120)
207 cd02785 MopB_CT_4 The MopB_CT_ 38.0 33 0.00071 20.8 2.2 27 39-70 32-58 (124)
208 cd02974 AhpF_NTD_N Alkyl hydro 37.5 68 0.0015 19.1 3.5 43 8-51 34-78 (94)
209 COG1030 NfeD Membrane-bound se 36.9 50 0.0011 25.5 3.4 33 35-68 388-420 (436)
210 COG0481 LepA Membrane GTPase L 36.8 1.2E+02 0.0025 24.4 5.4 59 3-69 167-233 (603)
211 PTZ00380 microtubule-associate 36.2 58 0.0012 20.8 3.2 18 4-21 47-64 (121)
212 PF02311 AraC_binding: AraC-li 36.1 24 0.00052 20.4 1.3 31 38-68 25-55 (136)
213 PRK10220 hypothetical protein; 35.9 30 0.00066 21.9 1.8 16 53-68 47-62 (111)
214 PF00564 PB1: PB1 domain; Int 35.7 32 0.0007 19.2 1.8 23 2-24 16-38 (84)
215 COG1917 Uncharacterized conser 35.5 47 0.001 20.2 2.6 31 38-68 66-96 (131)
216 PRK08671 methionine aminopepti 35.5 1.3E+02 0.0029 21.1 5.3 56 4-66 23-80 (291)
217 PF07908 D-aminoacyl_C: D-amin 35.4 29 0.00063 18.3 1.5 24 39-63 21-44 (48)
218 COG1126 GlnQ ABC-type polar am 35.4 37 0.0008 24.2 2.3 26 48-73 15-40 (240)
219 COG4070 Predicted peptidyl-pro 35.3 19 0.00041 27.9 0.9 23 2-24 11-33 (512)
220 PF07828 PA-IL: PA-IL-like pro 34.7 22 0.00047 22.9 1.0 18 51-68 11-30 (121)
221 PF01561 Hanta_G2: Hantavirus 34.6 30 0.00064 26.9 1.9 19 55-73 187-205 (485)
222 cd02775 MopB_CT Molybdopterin- 34.3 44 0.00096 18.9 2.3 26 39-69 23-48 (101)
223 TIGR02148 Fibro_Slime fibro-sl 34.0 40 0.00088 20.5 2.1 23 37-59 28-50 (90)
224 PF05006 DUF666: Protein of un 33.8 22 0.00047 23.7 1.0 43 25-69 85-132 (155)
225 PRK00969 hypothetical protein; 33.8 20 0.00043 28.1 0.9 22 2-23 11-32 (508)
226 PF10531 SLBB: SLBB domain; I 33.7 23 0.0005 19.0 0.9 15 2-16 14-28 (59)
227 cd01797 NIRF_N amino-terminal 33.6 61 0.0013 18.5 2.7 54 4-69 19-74 (78)
228 TIGR00501 met_pdase_II methion 33.4 1.2E+02 0.0025 21.6 4.7 57 4-67 26-84 (295)
229 PF03671 Ufm1: Ubiquitin fold 33.2 54 0.0012 19.4 2.5 32 2-33 20-53 (76)
230 cd02791 MopB_CT_Nitrate-R-NapA 33.2 37 0.00081 20.1 1.9 25 40-69 36-60 (122)
231 PF02626 AHS2: Allophanate hyd 33.1 36 0.00078 24.2 2.0 33 38-72 54-86 (271)
232 KOG2649 Zinc carboxypeptidase 33.1 1.3E+02 0.0028 23.7 5.1 54 11-69 367-420 (500)
233 cd02788 MopB_CT_NDH-1_NuoG2-N7 33.0 46 0.001 19.4 2.2 26 40-70 30-55 (96)
234 PF01119 DNA_mis_repair: DNA m 32.9 31 0.00066 21.0 1.5 15 36-50 39-53 (119)
235 COG0787 Alr Alanine racemase [ 32.7 66 0.0014 24.0 3.4 32 38-69 286-328 (360)
236 PF09344 Cas_CT1975: CT1975-li 32.6 68 0.0015 23.9 3.5 54 9-63 241-295 (354)
237 cd01818 TIAM1_RBD Ubiquitin do 32.6 39 0.00084 20.1 1.8 20 2-21 14-33 (77)
238 cd06407 PB1_NLP A PB1 domain i 32.4 63 0.0014 18.9 2.7 21 2-22 14-34 (82)
239 cd03483 MutL_Trans_MLH1 MutL_T 32.4 31 0.00067 21.4 1.5 15 36-50 47-61 (127)
240 PHA02582 10 baseplate wedge su 32.3 61 0.0013 25.9 3.3 33 36-72 216-248 (604)
241 PF13562 NTP_transf_4: Sugar n 32.0 44 0.00096 21.8 2.2 11 38-48 65-75 (156)
242 cd01782 AF6_RA_repeat1 Ubiquit 31.9 46 0.00099 21.1 2.1 20 2-21 40-59 (112)
243 PRK11509 hydrogenase-1 operon 31.5 76 0.0016 20.4 3.2 52 4-55 48-111 (132)
244 COG0012 Predicted GTPase, prob 31.3 33 0.00072 25.9 1.6 17 50-66 352-368 (372)
245 PLN02927 antheraxanthin epoxid 31.3 44 0.00095 26.9 2.4 26 41-66 606-634 (668)
246 COG4110 Uncharacterized protei 31.2 62 0.0013 22.2 2.8 48 2-51 58-111 (200)
247 cd02777 MopB_CT_DMSOR-like The 31.2 37 0.00081 20.6 1.7 26 40-70 35-60 (127)
248 cd02781 MopB_CT_Acetylene-hydr 31.2 49 0.0011 20.0 2.2 27 39-70 33-59 (130)
249 PRK13754 conjugal transfer fer 31.1 43 0.00094 23.0 2.1 25 8-37 71-95 (186)
250 cd01787 GRB7_RA RA (RAS-associ 31.0 48 0.001 19.9 2.1 20 2-21 17-36 (85)
251 COG5206 GPI8 Glycosylphosphati 30.7 75 0.0016 23.6 3.4 36 8-46 110-148 (382)
252 COG4390 Uncharacterized protei 30.3 48 0.001 20.6 2.0 25 48-72 13-37 (106)
253 PLN02908 threonyl-tRNA synthet 30.3 82 0.0018 25.1 3.8 45 7-68 68-112 (686)
254 PF10264 Stork_head: Winged he 30.2 55 0.0012 19.5 2.2 19 7-25 29-47 (80)
255 cd02789 MopB_CT_FmdC-FwdD The 30.1 45 0.00098 19.9 1.9 29 37-70 29-57 (106)
256 COG0378 HypB Ni2+-binding GTPa 29.9 1.2E+02 0.0027 21.0 4.2 49 8-61 81-138 (202)
257 TIGR00492 alr alanine racemase 29.9 60 0.0013 23.4 2.8 29 40-68 296-335 (367)
258 COG3837 Uncharacterized conser 29.9 46 0.00099 22.4 2.0 28 39-66 67-94 (161)
259 cd02794 MopB_CT_DmsA-EC The Mo 29.7 46 0.00099 20.0 1.9 25 41-70 32-56 (121)
260 PRK14132 riboflavin kinase; Pr 29.4 39 0.00084 21.7 1.5 10 57-66 115-124 (126)
261 PF10281 Ish1: Putative stress 29.2 75 0.0016 15.6 2.4 19 3-21 19-38 (38)
262 cd02778 MopB_CT_Thiosulfate-R- 29.2 60 0.0013 19.3 2.3 28 38-70 29-56 (123)
263 COG4009 Uncharacterized protei 28.9 44 0.00095 20.2 1.6 14 56-69 32-45 (88)
264 PF14533 USP7_C2: Ubiquitin-sp 28.7 41 0.00089 22.8 1.7 21 2-22 38-58 (213)
265 COG3263 NhaP-type Na+/H+ and K 28.6 65 0.0014 25.5 2.9 28 39-68 442-469 (574)
266 TIGR00478 tly hemolysin TlyA f 28.3 61 0.0013 22.4 2.5 24 41-67 27-50 (228)
267 cd02782 MopB_CT_1 The MopB_CT_ 28.1 50 0.0011 20.0 1.9 27 39-70 33-59 (129)
268 TIGR00092 GTP-binding protein 28.0 31 0.00066 25.8 1.0 16 51-66 349-364 (368)
269 cd02780 MopB_CT_Tetrathionate_ 27.8 63 0.0014 20.1 2.3 27 39-70 30-56 (143)
270 cd00782 MutL_Trans MutL_Trans: 27.8 42 0.00091 20.2 1.5 15 35-49 42-56 (122)
271 PF07883 Cupin_2: Cupin domain 27.4 40 0.00086 17.8 1.2 29 38-66 21-49 (71)
272 COG2824 PhnA Uncharacterized Z 27.3 46 0.00099 21.1 1.6 14 55-68 50-63 (112)
273 cd03482 MutL_Trans_MutL MutL_T 27.3 44 0.00096 20.6 1.5 16 35-50 42-57 (123)
274 PF01982 CTP-dep_RFKase: Domai 27.2 38 0.00082 21.6 1.2 10 57-66 110-119 (121)
275 PRK04980 hypothetical protein; 27.2 66 0.0014 19.9 2.3 18 6-23 73-90 (102)
276 PF14044 NETI: NETI protein 27.0 66 0.0014 18.1 2.0 30 2-31 2-35 (57)
277 cd03865 M14_CPE_H Peptidase M1 27.0 1.4E+02 0.0031 22.6 4.4 56 9-69 313-368 (402)
278 PRK08493 NADH dehydrogenase su 26.9 1.3E+02 0.0028 25.0 4.4 61 2-66 11-72 (819)
279 PF04352 ProQ: ProQ/FINO famil 26.6 38 0.00082 21.0 1.1 21 9-33 5-25 (114)
280 KOG3040 Predicted sugar phosph 26.3 1.8E+02 0.0038 20.9 4.5 54 8-64 51-114 (262)
281 PF11994 DUF3489: Protein of u 26.2 44 0.00096 19.5 1.3 17 1-17 18-34 (72)
282 COG2411 Uncharacterized conser 25.9 66 0.0014 22.1 2.2 20 8-27 77-96 (188)
283 PRK13503 transcriptional activ 25.8 88 0.0019 21.0 2.9 31 38-68 37-67 (278)
284 PF04014 Antitoxin-MazE: Antid 25.8 68 0.0015 16.4 1.9 13 57-69 20-32 (47)
285 cd06827 PLPDE_III_AR_proteobac 25.7 1E+02 0.0022 22.4 3.3 31 39-69 282-323 (354)
286 COG3273 Uncharacterized conser 25.7 1E+02 0.0022 21.5 3.1 30 38-67 148-177 (204)
287 cd02793 MopB_CT_DMSOR-BSOR-TMA 25.7 65 0.0014 19.7 2.1 27 39-70 33-59 (129)
288 cd01611 GABARAP Ubiquitin doma 25.7 1.3E+02 0.0027 18.7 3.4 19 3-21 46-64 (112)
289 TIGR03268 methan_mark_3 putati 25.7 34 0.00074 26.8 0.9 21 2-22 8-28 (503)
290 cd01088 MetAP2 Methionine Amin 25.6 1.9E+02 0.0041 20.4 4.6 57 4-67 22-80 (291)
291 COG1585 Membrane protein impli 25.6 1.3E+02 0.0027 19.4 3.5 30 37-68 100-129 (140)
292 cd01790 Herp_N Homocysteine-re 25.4 79 0.0017 18.5 2.3 21 2-22 18-38 (79)
293 COG3822 ABC-type sugar transpo 25.4 47 0.001 23.3 1.5 36 35-70 134-169 (225)
294 PRK00053 alr alanine racemase; 25.4 1.1E+02 0.0025 21.9 3.6 31 39-69 291-332 (363)
295 COG3456 Predicted component of 25.3 76 0.0016 24.5 2.7 25 41-66 71-95 (430)
296 PF07313 DUF1460: Protein of u 25.2 61 0.0013 22.5 2.0 19 54-72 150-168 (216)
297 PRK03646 dadX alanine racemase 25.2 1E+02 0.0022 22.4 3.3 30 39-68 283-323 (355)
298 KOG2776 Metallopeptidase [Gene 24.7 61 0.0013 24.7 2.1 29 39-67 81-112 (398)
299 KOG0854 Alkyl hydroperoxide re 24.6 59 0.0013 22.7 1.8 20 52-71 173-194 (224)
300 cd05992 PB1 The PB1 domain is 24.4 72 0.0016 17.5 2.0 22 3-24 15-37 (81)
301 cd08783 Death_MALT1 Death doma 24.3 70 0.0015 19.8 2.0 16 6-21 70-85 (97)
302 PF03487 IL13: Interleukin-13; 24.2 44 0.00095 17.6 0.9 16 4-19 23-38 (43)
303 COG3106 Predicted ATPase [Gene 24.1 63 0.0014 24.9 2.1 30 37-68 386-415 (467)
304 PF03369 Herpes_UL3: Herpesvir 24.1 1.6E+02 0.0035 19.1 3.7 36 9-45 82-118 (134)
305 cd03485 MutL_Trans_hPMS_1_like 24.0 60 0.0013 20.1 1.7 16 35-50 47-62 (132)
306 cd01766 Ufm1 Urm1-like ubiquit 23.9 1.1E+02 0.0023 18.3 2.6 57 2-69 20-78 (82)
307 cd06411 PB1_p51 The PB1 domain 23.7 87 0.0019 18.5 2.2 23 2-24 11-33 (78)
308 cd01778 RASSF1_RA Ubiquitin-li 23.7 1.6E+02 0.0034 18.1 3.5 21 2-22 21-41 (96)
309 COG0569 TrkA K+ transport syst 23.7 1.2E+02 0.0025 20.7 3.2 19 50-68 190-208 (225)
310 COG1465 Predicted alternative 23.7 97 0.0021 23.3 2.9 29 41-69 326-359 (376)
311 PF00538 Linker_histone: linke 23.6 81 0.0018 17.8 2.1 18 5-22 19-36 (77)
312 PF02324 Glyco_hydro_70: Glyco 23.5 24 0.00052 29.1 -0.3 48 12-60 721-775 (809)
313 PF11694 DUF3290: Protein of u 23.5 1.3E+02 0.0028 19.6 3.3 43 9-51 80-122 (149)
314 cd06826 PLPDE_III_AR2 Type III 23.4 1.3E+02 0.0028 21.8 3.6 31 39-69 289-330 (365)
315 PF13756 Stimulus_sens_1: Stim 23.3 47 0.001 20.4 1.1 29 8-37 4-32 (112)
316 cd06552 ASCH_yqfb_like ASC-1 h 23.1 1E+02 0.0022 17.8 2.5 19 7-25 69-88 (100)
317 PF08561 Ribosomal_L37: Mitoch 22.9 60 0.0013 19.2 1.4 25 33-57 11-35 (85)
318 PF08984 DUF1858: Domain of un 22.8 46 0.00099 17.9 0.9 19 7-29 4-22 (59)
319 cd01816 Raf_RBD Ubiquitin doma 22.6 76 0.0016 18.7 1.8 20 2-21 14-33 (74)
320 PF05370 DUF749: Domain of unk 22.6 59 0.0013 19.7 1.4 13 57-69 32-44 (87)
321 KOG2523 Predicted RNA-binding 22.5 2.1E+02 0.0046 19.5 4.2 49 17-67 84-136 (181)
322 PRK13340 alanine racemase; Rev 22.4 99 0.0022 22.8 2.8 31 39-69 329-370 (406)
323 smart00797 AHS2 Allophanate hy 22.4 84 0.0018 22.5 2.4 33 38-72 54-86 (280)
324 PRK09943 DNA-binding transcrip 22.4 79 0.0017 20.5 2.1 30 38-67 130-159 (185)
325 cd03698 eRF3_II_like eRF3_II_l 22.3 59 0.0013 18.4 1.3 13 57-69 26-38 (83)
326 cd03484 MutL_Trans_hPMS_2_like 22.2 66 0.0014 20.3 1.7 15 36-50 63-77 (142)
327 PRK14866 hypothetical protein; 22.1 2.4E+02 0.0052 21.9 4.8 32 37-69 47-78 (451)
328 cd00988 PDZ_CTP_protease PDZ d 22.0 63 0.0014 17.7 1.4 30 37-66 34-67 (85)
329 PF03607 DCX: Doublecortin; I 21.9 1.2E+02 0.0027 16.3 2.5 26 8-33 9-36 (60)
330 PRK03955 hypothetical protein; 21.9 2.1E+02 0.0046 18.3 4.0 58 7-68 61-121 (131)
331 PF12724 Flavodoxin_5: Flavodo 21.6 64 0.0014 20.0 1.5 19 55-73 38-56 (143)
332 PHA02561 D tail protein; Provi 21.5 2.1E+02 0.0045 20.4 4.3 61 7-69 124-190 (351)
333 cd04089 eRF3_II eRF3_II: domai 21.5 65 0.0014 18.2 1.4 13 57-69 25-37 (82)
334 COG2016 Predicted RNA-binding 21.3 1.3E+02 0.0028 20.2 2.9 37 10-50 14-56 (161)
335 PF15609 PRTase_2: Phosphoribo 21.3 77 0.0017 21.8 1.9 20 3-22 130-149 (191)
336 PF10865 DUF2703: Domain of un 21.2 57 0.0012 20.7 1.2 44 7-51 22-75 (120)
337 cd05479 RP_DDI RP_DDI; retrope 21.1 80 0.0017 19.3 1.8 26 38-69 18-43 (124)
338 PF14031 D-ser_dehydrat: Putat 21.0 1E+02 0.0022 18.2 2.2 30 39-69 47-78 (94)
339 PRK12897 methionine aminopepti 20.8 2.8E+02 0.006 18.7 5.3 62 4-66 31-93 (248)
340 KOG0245 Kinesin-like protein [ 20.6 80 0.0017 27.3 2.2 26 37-66 521-546 (1221)
341 PF09269 DUF1967: Domain of un 20.5 65 0.0014 18.2 1.2 10 57-66 53-62 (69)
342 TIGR03595 Obg_CgtA_exten Obg f 20.4 78 0.0017 17.8 1.5 11 57-67 53-63 (69)
343 cd03486 MutL_Trans_MLH3 MutL_T 20.4 68 0.0015 20.2 1.4 14 36-49 42-55 (141)
344 PRK13863 type IV secretion sys 20.2 2.1E+02 0.0044 22.3 4.1 46 2-47 87-142 (446)
345 PF08972 DUF1902: Domain of un 20.1 56 0.0012 18.1 0.9 20 5-24 26-45 (54)
346 PRK10296 DNA-binding transcrip 20.1 1E+02 0.0022 20.9 2.3 31 38-69 45-75 (278)
347 PRK11171 hypothetical protein; 20.0 1E+02 0.0022 21.6 2.3 32 38-69 207-238 (266)
No 1
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=99.96 E-value=1.7e-29 Score=154.67 Aligned_cols=68 Identities=57% Similarity=1.029 Sum_probs=66.6
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++||++||++|+++||..++++|.++|++||+|+|||||+||++++|++|+|++||+|+||||+|||
T Consensus 27 ~~~tV~dll~~L~~~~~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 27 KPVTVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFISTLHGG 94 (94)
T ss_pred CCCcHHHHHHHHHHhCchhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEECCCCCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999998
No 2
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=99.88 E-value=1.1e-22 Score=121.43 Aligned_cols=69 Identities=29% Similarity=0.434 Sum_probs=64.3
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++ ++||++|++.|.++||+++..+|+++++++++++|+||++.+++..+ |+|++||+|+||||+|||
T Consensus 20 v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~--~~l~dgdev~i~PpvsGG 88 (88)
T TIGR01687 20 IEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG--TELKDGDVVAIFPPVSGG 88 (88)
T ss_pred EEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC--CCCCCCCEEEEeCCCcCC
Confidence 4555 89999999999999999988999999999999999999999988765 899999999999999998
No 3
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=99.87 E-value=1.2e-22 Score=125.26 Aligned_cols=72 Identities=56% Similarity=0.989 Sum_probs=60.8
Q ss_pred cccC---ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLT---FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~---~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++| +..|+++|+.+|++++...|+++|.+++++||+|+|+||+.||+.+++.+|+|++||.|.|+|++|||
T Consensus 22 v~l~~~~~~~ti~~Li~~l~~nll~~r~elF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiSTLHGG 96 (96)
T PF09138_consen 22 VSLPSDGEPATIKDLIDYLRDNLLKERPELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFISTLHGG 96 (96)
T ss_dssp EEE-SSCSC-BHHHHHHHHCCCT-SSGHHHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEETTT--
T ss_pred EEcCCCCCCcCHHHHHHHHHHhccCCCHhHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEccCCCC
Confidence 3455 67899999999999998889999999999999999999999999999999999999999999999998
No 4
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.81 E-value=7e-20 Score=112.29 Aligned_cols=68 Identities=47% Similarity=0.796 Sum_probs=65.7
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+..||++||+++.++|-+-+.++|..+|++||+++++||+.||+.|+.++++|++||.|.|++++|||
T Consensus 34 ~~~tvgdll~yi~~~~ie~r~~lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIETRDSLFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred CcccHHHHHHHHHHHHhcCCcceEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEeccCC
Confidence 35799999999999999889999999999999999999999999999999999999999999999998
No 5
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=99.76 E-value=9.8e-19 Score=101.10 Aligned_cols=62 Identities=26% Similarity=0.291 Sum_probs=58.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++.+++.||++|++.|..+||.++ .++.+.|+|||+.++. ++.+|+|++||+|+||||++||
T Consensus 16 ~~~~~~~tv~~ll~~l~~~~p~~~---------~~~~~~v~vN~~~v~~-~~~~~~l~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 16 IEVPEGSTVRDLLEALAERYPELA---------LRDRVAVAVNGEIVPD-DGLDTPLKDGDEVAILPPVSGG 77 (77)
T ss_dssp EEESSTSBHHHHHHHHCHHTGGGH---------TTTTEEEEETTEEEGG-GTTTSBEETTEEEEEEESTSTS
T ss_pred EecCCCCcHHHHHHHHHhhccccc---------cCccEEEEECCEEcCC-ccCCcCcCCCCEEEEECCCCCC
Confidence 456789999999999999999877 6679999999999999 9999999999999999999998
No 6
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=99.74 E-value=3.4e-18 Score=99.57 Aligned_cols=61 Identities=26% Similarity=0.273 Sum_probs=55.4
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++++++||+||++.|..+||.+ .+..++.+.|+|||+.++ .+|+|++||+|+||||++||
T Consensus 20 ~~~~~~~tv~~ll~~l~~~~~~~-------~~~~~~~~~v~vNg~~v~----~~~~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 20 LELPEGATVGELLDALEARYPGL-------LEELLARVRIAVNGEYVR----LDTPLKDGDEVAIIPPVSGG 80 (80)
T ss_pred EECCCCCcHHHHHHHHHHHCchH-------HHhhhhcEEEEECCeEcC----CCcccCCCCEEEEeCCCCCC
Confidence 46788999999999999999975 456778999999999998 68999999999999999998
No 7
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=4.4e-18 Score=103.72 Aligned_cols=68 Identities=37% Similarity=0.639 Sum_probs=61.9
Q ss_pred ccCcHHHHHHHHHH-hcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 6 FQLIMKDLLSWVGT-NLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 6 ~~~TV~~ll~~L~~-~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++|..+++++.. .|..-+..+|.++|++||+++++||++||+.+...+++|++||.|.|+|++|||
T Consensus 28 e~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfistlHGg 96 (96)
T COG5131 28 EGSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFISTLHGG 96 (96)
T ss_pred CCcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEecccCC
Confidence 57889999998887 334457789999999999999999999999999999999999999999999998
No 8
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=99.70 E-value=3.6e-17 Score=96.34 Aligned_cols=60 Identities=28% Similarity=0.283 Sum_probs=51.6
Q ss_pred cccCcc-CcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQ-LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~-~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++.+ +|+++|++.|.++||++ ++ .++.++|+||++.++ .+|+|++||+|+||||+|||
T Consensus 20 ~~~~~~~~tv~~L~~~L~~~~p~l----~~----~~~~~~v~vn~~~v~----~~~~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 20 LELPDESTTVGELKEHLAKEGPEL----AA----SRGQVMVAVNEEYVT----DDALLNEGDEVAFIPPVSGG 80 (80)
T ss_pred EECCCCCcCHHHHHHHHHHhCchh----hh----hccceEEEECCEEcC----CCcCcCCCCEEEEeCCCCCC
Confidence 467765 99999999999999853 32 356889999999987 38999999999999999998
No 9
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=99.67 E-value=9.2e-17 Score=94.88 Aligned_cols=60 Identities=20% Similarity=0.231 Sum_probs=52.5
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++++++|+++|++.|..+||.+.+ ++..+.|+||++.+. .+|+|++||+|+||||++||
T Consensus 23 ~~~~~~~tv~~L~~~l~~~~p~l~~--------~~~~~~vavN~~~v~----~~~~l~dgDeVai~PpvsGG 82 (82)
T PLN02799 23 LELPAGSTTADCLAELVAKFPSLEE--------VRSCCVLALNEEYTT----ESAALKDGDELAIIPPISGG 82 (82)
T ss_pred EECCCCCcHHHHHHHHHHHChhHHH--------HhhCcEEEECCEEcC----CCcCcCCCCEEEEeCCCCCC
Confidence 4688999999999999999997653 334688999999873 68999999999999999998
No 10
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=99.66 E-value=2.6e-16 Score=93.24 Aligned_cols=58 Identities=19% Similarity=0.181 Sum_probs=47.7
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++||++|++.|.++||.+.. .+. .++ +.++||++.+ +.+|+|++||+|+||||+|||
T Consensus 24 ~~~tv~~l~~~L~~~~~~~~~-~~~-~~~----~~~aVN~~~~----~~~~~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 24 DFPTVEALRQHLAQKGDRWAL-ALE-DGK----LLAAVNQTLV----SFDHPLTDGDEVAFFPPVTGG 81 (81)
T ss_pred CCCCHHHHHHHHHHhCccHHh-hhc-CCC----EEEEECCEEc----CCCCCCCCCCEEEEeCCCCCC
Confidence 478999999999999998743 333 333 5689999554 579999999999999999998
No 11
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=99.55 E-value=6.1e-15 Score=88.33 Aligned_cols=61 Identities=26% Similarity=0.322 Sum_probs=42.4
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.++.+.++.|.+.+++..+.+.... .+ .+++|..+++++.+++|+|++||+|+||||+|||
T Consensus 24 ~~~~~tv~~L~~~l~~~~~~~~~~~---~~--~~~v~~~~~~~~~~~~t~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 24 LTVGATVGELEELLPKEGERWLLAL---ED--NIVVNAANNEFLVGLDTPLKDGDEVAFFPPVSGG 84 (84)
T ss_pred ccHHHHHHHHHHHHHhhhhhHHhcc---Cc--cceEEeeeceeeccccccCCCCCEEEEeCCCCCC
Confidence 4444555555555544433222111 11 5777888889999999999999999999999998
No 12
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=99.45 E-value=2.9e-13 Score=76.68 Aligned_cols=56 Identities=27% Similarity=0.279 Sum_probs=48.4
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++++.|+.++++.+.- ++.+.+.+|++-+...+..+|.|++||+|.||||++||
T Consensus 10 ~~~~~~~tl~~ll~~l~~----------------~~~~~v~vN~~~v~~~~~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 10 LSLPDGATVADALAAYGA----------------RPPFAVAVNGDFVARTQHAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred EECCCCCcHHHHHHhhCC----------------CCCeEEEECCEEcCchhcccccCCCCCEEEEEeeccCC
Confidence 468899999999997732 12467999999998888889999999999999999998
No 13
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=99.40 E-value=3.7e-13 Score=76.66 Aligned_cols=57 Identities=25% Similarity=0.265 Sum_probs=50.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++++.|+.+||+.|. ++ ...+.|.+||+-+...++.+|+|++||+|.||||++||
T Consensus 9 ~~~~~~~tv~~ll~~l~--~~-------------~~~i~V~vNg~~v~~~~~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 9 REVEEGATLAELLEELG--LD-------------PRGVAVALNGEIVPRSEWASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred EEcCCCCCHHHHHHHcC--CC-------------CCcEEEEECCEEcCHHHcCceecCCCCEEEEEEeccCC
Confidence 46788999999999885 21 24688999999999988889999999999999999998
No 14
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=99.30 E-value=4e-12 Score=72.27 Aligned_cols=57 Identities=28% Similarity=0.228 Sum_probs=49.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++++.|+.+||+.+.- + ...+.|.+|++-+...+..+|.|++||+|.||||++||
T Consensus 8 ~~~~~~~tv~~ll~~l~~--~-------------~~~v~v~vN~~iv~~~~~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 8 VEVEDGLTLAALLESLGL--D-------------PRRVAVAVNGEIVPRSEWDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred EEcCCCCcHHHHHHHcCC--C-------------CCeEEEEECCEEcCHHHcCceecCCCCEEEEEEeccCC
Confidence 578899999999997741 1 14688999999998888889999999999999999998
No 15
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=99.17 E-value=9.4e-11 Score=67.89 Aligned_cols=53 Identities=23% Similarity=0.276 Sum_probs=44.3
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++++.|++++|+.|. ++ . ..+.|.+|++-+. .+|.|++||+|.|||+++||
T Consensus 18 ~~~~~~~tv~~ll~~l~--~~--------~-----~~v~v~vNg~iv~----~~~~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 18 IEWRKGMKVADILRAVG--FN--------T-----ESAIAKVNGKVAL----EDDPVKDGDYVEVIPVVSGG 70 (70)
T ss_pred EEcCCCCcHHHHHHHcC--CC--------C-----ccEEEEECCEECC----CCcCcCCCCEEEEEccccCC
Confidence 46788999999999882 21 1 3588999999984 49999999999999999998
No 16
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=99.14 E-value=1.2e-10 Score=66.29 Aligned_cols=55 Identities=18% Similarity=0.149 Sum_probs=45.4
Q ss_pred ccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++ +..|+.+|++.+. +.. ..+.|.+|++-+......+|+|++||+|.||||++||
T Consensus 11 ~~-~~~tl~~Ll~~l~----------~~~-----~~vavavN~~iv~~~~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 11 QT-EATTLALLLAELD----------YEG-----NWLATAVNGELVHKEARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred Ec-CcCcHHHHHHHcC----------CCC-----CeEEEEECCEEcCHHHcCccccCCCCEEEEEEeccCC
Confidence 45 4579999998761 111 2578999999999888889999999999999999998
No 17
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=99.11 E-value=1.2e-10 Score=66.58 Aligned_cols=57 Identities=14% Similarity=0.249 Sum_probs=48.4
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.+++++.|+.+||+.+.-.+ +.+.|.+|++=+..-+..+|.|++||+|.|+|+++||
T Consensus 10 ~~~~~~~tl~~ll~~l~~~~---------------~~vaVavN~~iv~r~~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 10 MQCAAGQTVHELLEQLNQLQ---------------PGAALAINQQIIPREQWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred EEcCCCCCHHHHHHHcCCCC---------------CcEEEEECCEEeChHHcCccccCCCCEEEEEEEccCC
Confidence 46788999999998653322 3588999999998888889999999999999999998
No 18
>PRK06437 hypothetical protein; Provisional
Probab=99.06 E-value=3.6e-10 Score=65.16 Aligned_cols=53 Identities=23% Similarity=0.438 Sum_probs=44.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++++.|++|||+.|. + .. ..+.|.+||+-+. .+|.|++||.|.|||+++||
T Consensus 15 ~~i~~~~tv~dLL~~Lg--i--------~~-----~~vaV~vNg~iv~----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 15 IEIDHELTVNDIIKDLG--L--------DE-----EEYVVIVNGSPVL----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred EEcCCCCcHHHHHHHcC--C--------CC-----ccEEEEECCEECC----CceEcCCCCEEEEEecccCC
Confidence 46788899999998772 1 11 2567889999997 69999999999999999998
No 19
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=98.95 E-value=2.1e-09 Score=60.90 Aligned_cols=57 Identities=33% Similarity=0.265 Sum_probs=46.8
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.+++++.|+.++|+.+. ++ ...+.|.+||+=+..-...+|+|++||.|.||++++||
T Consensus 10 ~~~~~~~tl~~lL~~l~--~~-------------~~~vav~vNg~iv~r~~~~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 10 RELPDGESVAALLAREG--LA-------------GRRVAVEVNGEIVPRSQHASTALREGDVVEIVHALGGG 66 (66)
T ss_pred EEcCCCCCHHHHHHhcC--CC-------------CCeEEEEECCeEeCHHHcCcccCCCCCEEEEEEEecCC
Confidence 46788999999998652 11 12456889998888778889999999999999999998
No 20
>PRK01777 hypothetical protein; Validated
Probab=98.79 E-value=1.2e-08 Score=62.61 Aligned_cols=58 Identities=19% Similarity=0.185 Sum_probs=43.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLH 71 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppva 71 (73)
+++|+|+||.|+|+.+. .+....++-.+ .-.+.|||+.+. +|++|++||.|.||||+.
T Consensus 21 l~vp~GtTv~dal~~sg--i~~~~pei~~~------~~~vgI~Gk~v~----~d~~L~dGDRVeIyrPL~ 78 (95)
T PRK01777 21 LTLQEGATVEEAIRASG--LLELRTDIDLA------KNKVGIYSRPAK----LTDVLRDGDRVEIYRPLL 78 (95)
T ss_pred EEcCCCCcHHHHHHHcC--CCccCcccccc------cceEEEeCeECC----CCCcCCCCCEEEEecCCC
Confidence 68999999999999873 12222222111 135899999986 499999999999999973
No 21
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=98.78 E-value=1.7e-08 Score=57.62 Aligned_cols=56 Identities=20% Similarity=0.258 Sum_probs=45.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.+++++.|+.+||+.+. + . ...|.|.+|++=+..-+... .|++||.|.||++++||
T Consensus 10 ~~~~~~~tl~~ll~~l~--~--------~-----~~~vav~~N~~iv~r~~~~~-~L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 10 VEVDEQTTVAALLDSLG--F--------P-----EKGIAVAVDWSVLPRSDWAT-KLRDGARLEVVTAVQGG 65 (65)
T ss_pred EEcCCCCcHHHHHHHcC--C--------C-----CCcEEEEECCcCcChhHhhh-hcCCCCEEEEEeeccCC
Confidence 35788999999999652 1 1 23788999999877766654 59999999999999998
No 22
>PRK07440 hypothetical protein; Provisional
Probab=98.73 E-value=2.1e-08 Score=58.27 Aligned_cols=57 Identities=21% Similarity=0.145 Sum_probs=49.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.+++++.||.+||+.+. +.. .+|.|.+|++=+..-+..+|.|++||.|.|++.++||
T Consensus 14 ~~~~~~~tl~~lL~~l~----------~~~-----~~vav~~N~~iv~r~~w~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 14 RTCSSGTSLPDLLQQLG----------FNP-----RLVAVEYNGEILHRQFWEQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred EEcCCCCCHHHHHHHcC----------CCC-----CeEEEEECCEEeCHHHcCceecCCCCEEEEEEEecCC
Confidence 46788999999998553 111 3789999999999999999999999999999999998
No 23
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=98.65 E-value=6.1e-08 Score=56.39 Aligned_cols=57 Identities=30% Similarity=0.331 Sum_probs=48.8
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++++++.|+.|||+.+. |.. +.+.+.+||.-+..-+..++.+++||.|.|+.+++||
T Consensus 12 ~e~~~~~tv~dLL~~l~----------~~~-----~~vav~vNg~iVpr~~~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 12 VEIAEGTTVADLLAQLG----------LNP-----EGVAVAVNGEIVPRSQWADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred EEcCCCCcHHHHHHHhC----------CCC-----ceEEEEECCEEccchhhhhccccCCCEEEEEEeecCC
Confidence 46778899999999764 221 3688999999998888899999999999999999998
No 24
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=98.57 E-value=1.2e-07 Score=54.52 Aligned_cols=56 Identities=20% Similarity=0.217 Sum_probs=46.9
Q ss_pred ccCcc-CcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 3 SLTFQ-LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 3 ~l~~~-~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++++ +||.|||+.+. + .. ..+.|.+|++=+..-+..+|.|++||.|-|++.++||
T Consensus 11 ~~~~~~~tv~~lL~~l~--~--------~~-----~~vav~vN~~iv~r~~w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 11 EVPESVKTVAELLTHLE--L--------DN-----KIVVVERNKDILQKDDHTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred EcCCCcccHHHHHHHcC--C--------CC-----CeEEEEECCEEeCHHHcCceecCCCCEEEEEEEecCC
Confidence 56777 68999998553 1 11 2688999999999999999999999999999999998
No 25
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=98.54 E-value=1.4e-07 Score=56.81 Aligned_cols=57 Identities=16% Similarity=0.273 Sum_probs=48.4
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.+++++.||.+||+.|. + . ...|.|.+||+=|..-+...|.|++||.|.|+.+++||
T Consensus 28 ~~~~~~~tl~~LL~~l~--~--------~-----~~~vAVevNg~iVpr~~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 28 IQVDISSSLAQIIAQLS--L--------P-----ELGCVFAINNQVVPRSEWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred EEcCCCCcHHHHHHHcC--C--------C-----CceEEEEECCEEeCHHHcCcccCCCCCEEEEEEEecCC
Confidence 35788899999999652 1 1 13678999999999999999999999999999999998
No 26
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=98.40 E-value=4.3e-07 Score=66.13 Aligned_cols=57 Identities=26% Similarity=0.174 Sum_probs=48.8
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.+++++.||.|||+.+. + .. ..|.|.|||+-+..-+..+|+|++||.|.||++++||
T Consensus 10 ~el~e~~TL~dLL~~L~--i--------~~-----~~VAVeVNgeIVpr~~w~~t~LkeGD~IEII~~VgGG 66 (326)
T PRK11840 10 RQVPAGLTIAALLAELG--L--------AP-----KKVAVERNLEIVPRSEYGQVALEEGDELEIVHFVGGG 66 (326)
T ss_pred EecCCCCcHHHHHHHcC--C--------CC-----CeEEEEECCEECCHHHcCccccCCCCEEEEEEEecCC
Confidence 46788999999998652 1 11 2688999999999999999999999999999999998
No 27
>KOG3474 consensus Molybdopterin converting factor, small subunit [Energy production and conversion]
Probab=98.10 E-value=2.3e-06 Score=50.89 Aligned_cols=62 Identities=10% Similarity=0.124 Sum_probs=49.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
++.|+++|-.+.++.+..+||.+.+ ++.-+...+|.+... .|....|+.-|+++|+||++||
T Consensus 23 i~~Pe~s~~ee~~deil~kfPaLee--------i~k~mmLAldeEYan--p~D~~~l~~~dEiAiIPPiSGG 84 (84)
T KOG3474|consen 23 IDFPEESDTEECLDEILEKFPALEE--------IEKCMMLALDEEYAN--PGDRAELQHFDEIAIIPPISGG 84 (84)
T ss_pred ccCCCCCCHHHHHHHHHHhCccHHH--------HHHHhheehhhhhcC--CCCceeeEeeceeeEcCCCCCC
Confidence 5789999999999999999998753 344556666665432 3445678999999999999998
No 28
>PF06805 Lambda_tail_I: Bacteriophage lambda tail assembly protein I; InterPro: IPR010654 This family consists of several Bacteriophage lambda tail assembly protein I and related phage and bacterial sequences. Members of this family are typically around 200 residues in length. The function of this family is unknown.
Probab=97.91 E-value=3.4e-05 Score=46.06 Aligned_cols=60 Identities=10% Similarity=-0.092 Sum_probs=45.4
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
...|..|++++|+.+.|++++. ..-.+.-.||++...-...+..+++|++|.|.|-++|+
T Consensus 23 ~v~t~~Eai~AL~~~~pGf~~~--------~~v~~~~~ng~~~l~~~~~~~~~~~g~~I~IvPvi~Gs 82 (82)
T PF06805_consen 23 AVDTPAEAIRALCVQLPGFEQF--------FAVFIGKRNGEDELEARWHDERPKGGSVIRIVPVIAGS 82 (82)
T ss_pred ccCCHHHHHHHHHhcChhhhhh--------cceEEeeeCChhhhhhhhhcccCCCCCEEEEEEecCCC
Confidence 4689999999999999998775 22345666766654222234679999999999999996
No 29
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=97.91 E-value=1.3e-05 Score=47.87 Aligned_cols=51 Identities=22% Similarity=0.283 Sum_probs=39.4
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.++.+++||+++++.|.==+++ + =.|+|||+.+.+ ++.+++||.|+++|.-
T Consensus 27 ~~~~~~~tvkd~IEsLGVP~tE----V----------~~i~vNG~~v~~----~~~~~~Gd~v~V~P~~ 77 (81)
T PF14451_consen 27 HPFDGGATVKDVIESLGVPHTE----V----------GLILVNGRPVDF----DYRLKDGDRVAVYPVF 77 (81)
T ss_pred EecCCCCcHHHHHHHcCCChHH----e----------EEEEECCEECCC----cccCCCCCEEEEEecc
Confidence 3567789999999987643322 1 138899999875 7999999999999964
No 30
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=97.28 E-value=0.00032 Score=39.30 Aligned_cols=49 Identities=29% Similarity=0.243 Sum_probs=37.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.++|+|+|+.|+.+.+.... .++ .+...|||+.|. ++++|++||.|.|+
T Consensus 11 ~~~~~g~T~~d~A~~I~~~l---~~~----------~~~A~Vng~~vd----l~~~L~~~d~v~ii 59 (60)
T PF02824_consen 11 KELPEGSTVLDVAYSIHSSL---AKR----------AVAAKVNGQLVD----LDHPLEDGDVVEII 59 (60)
T ss_dssp EEEETTBBHHHHHHHHSHHH---HHC----------EEEEEETTEEEE----TTSBB-SSEEEEEE
T ss_pred eeCCCCCCHHHHHHHHCHHH---Hhh----------eeEEEEcCEECC----CCCCcCCCCEEEEE
Confidence 46889999999998776533 222 455779997765 69999999999986
No 31
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=97.24 E-value=0.0015 Score=33.13 Aligned_cols=56 Identities=21% Similarity=0.102 Sum_probs=40.3
Q ss_pred ccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCc-cCccCCCCEEEEEec
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL-DTTLEEKDVVVFIST 69 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~-~t~l~dgD~V~i~Pp 69 (73)
.++...|++++++.++++++. ......+++|+.......-. ++.+.++++|.+.|+
T Consensus 13 ~~~~~~tv~~l~~~i~~~~~~-----------~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 69 (69)
T cd00196 13 LVPSGTTVADLKEKLAKKLGL-----------PPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVPR 69 (69)
T ss_pred EcCCCCcHHHHHHHHHHHHCc-----------ChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 456789999999999998851 11234566777766544333 679999999999874
No 32
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=96.90 E-value=0.002 Score=38.91 Aligned_cols=55 Identities=18% Similarity=0.064 Sum_probs=30.3
Q ss_pred cccCccCcHHHHHHH--HHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 2 LSLTFQLIMKDLLSW--VGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~--L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+++|+|+||.|+++. +.+.||++--. + .-+=|=|+-+. ++++|++||.|-|+=|+
T Consensus 18 l~vp~GtTv~~Ai~~Sgi~~~~p~idl~------~----~~vGIfGk~~~----~d~~L~~GDRVEIYRPL 74 (84)
T PF03658_consen 18 LEVPEGTTVAQAIEASGILEQFPEIDLE------K----NKVGIFGKLVK----LDTVLRDGDRVEIYRPL 74 (84)
T ss_dssp EEEETT-BHHHHHHHHTHHHH-TT--TT------T----SEEEEEE-S------TT-B--TT-EEEEE-S-
T ss_pred EECCCcCcHHHHHHHcCchhhCcccCcc------c----ceeeeeeeEcC----CCCcCCCCCEEEEeccC
Confidence 689999999999986 66778875211 1 11223455554 69999999999998775
No 33
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=96.77 E-value=0.0068 Score=31.53 Aligned_cols=49 Identities=24% Similarity=0.186 Sum_probs=35.9
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
++++.|+|+.++++.+...++ +..+...+||+-+. ++++|.+||+|.|+
T Consensus 11 ~~~~~g~t~~~~~~~~~~~~~-------------~~~~~~~vn~~~~~----l~~~l~~~~~i~~i 59 (60)
T cd01616 11 VELPKGATAMDFALKIHTDLG-------------KGFIGALVNGQLVD----LSYTLQDGDTVSIV 59 (60)
T ss_pred EEcCCCCCHHHHHHHHHHHHH-------------hheEEEEECCEECC----CCcCcCCCCEEEEe
Confidence 356789999998887754322 12456778987643 67999999999886
No 34
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=96.69 E-value=0.0064 Score=32.66 Aligned_cols=49 Identities=24% Similarity=0.151 Sum_probs=35.4
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
++++.+.|+.++++.+.. .+.+ ..+.+.+||+.++ +++++++||.|.++
T Consensus 11 ~~~~~~~t~~~~~~~~~~---~~~~----------~~va~~vng~~vd----l~~~l~~~~~ve~v 59 (60)
T cd01668 11 IELPAGATVLDFAYAIHT---EIGN----------RCVGAKVNGKLVP----LSTVLKDGDIVEII 59 (60)
T ss_pred EEcCCCCCHHHHHHHHCh---Hhhh----------heEEEEECCEECC----CCCCCCCCCEEEEE
Confidence 457889999998885532 2111 2356789999875 46999999999876
No 35
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=96.08 E-value=0.02 Score=33.61 Aligned_cols=54 Identities=20% Similarity=0.215 Sum_probs=34.5
Q ss_pred cccCccCcHHHHHHHHHHhcC-cccc-cccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI-KERP-EMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~-~~~~-~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+.|+.|+||.|+...+-.... .++. .+... .+=+||+.+ |++.+|+|||.|.|+
T Consensus 19 liL~~GaTV~D~a~~iH~di~~~f~~A~v~g~--------s~~~~gq~V----gl~~~L~d~DvVeI~ 74 (75)
T cd01666 19 VILRRGSTVEDVCNKIHKDLVKQFKYALVWGS--------SVKHSPQRV----GLDHVLEDEDVVQIV 74 (75)
T ss_pred EEECCCCCHHHHHHHHHHHHHHhCCeeEEecc--------CCcCCCeEC----CCCCEecCCCEEEEe
Confidence 568899999999997775331 1111 11110 111355554 679999999999986
No 36
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=95.38 E-value=0.048 Score=31.99 Aligned_cols=50 Identities=16% Similarity=0.099 Sum_probs=33.6
Q ss_pred cccCccCcHHHHHHHHHHhcCcc-cccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKE-RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~-~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+-++.|+|+.|+-..+-+....- +.. ....|++ .-|++++|+|||.|.|+
T Consensus 25 ~~l~~GaTv~D~A~~IHtdi~~~f~~A------------i~~k~~~----~vg~~~~L~dgDvV~Ii 75 (76)
T cd01669 25 FLLPKGSTARDLAYAIHTDIGDGFLHA------------IDARTGR----RVGEDYELKHRDVIKIV 75 (76)
T ss_pred EEECCCCCHHHHHHHHHHHHHhcceee------------EEeeCCE----EeCCCcEecCCCEEEEe
Confidence 34688999999988776544221 111 1123553 35689999999999987
No 37
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=95.37 E-value=0.043 Score=30.75 Aligned_cols=60 Identities=15% Similarity=0.196 Sum_probs=40.2
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++-+.++++. |..+-+|+- +|+ ++-++..+ .++.+++|+.|.+++...||
T Consensus 15 ~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~-~g~------~L~d~~tl-----~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 15 IDIEPTDKVERIKERVEEKEGIPPQQQRLIY-SGK------QMNDDKTA-----ADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred EEECCCCCHHHHHHHHhHhhCCChhhEEEEE-CCe------EccCCCCH-----HHcCCCCCCEEEEEEEccCC
Confidence 46778899999999998876 333333332 222 22233222 25689999999999998887
No 38
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=95.28 E-value=0.041 Score=31.90 Aligned_cols=59 Identities=20% Similarity=0.305 Sum_probs=40.6
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++++.+||++|=+.++++. |..+.++... |+ ++-++ . | .++-+++|+.|.+++++-||
T Consensus 16 l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~-Gk------~L~d~-~---L--~~~gi~~~~~i~l~~~~~~~ 76 (78)
T cd01804 16 LSVPPDETVEGLKKRISQRLKVPKERLALLHR-ET------RLSSG-K---L--QDLGLGDGSKLTLVPTVEAG 76 (78)
T ss_pred EEECCcCHHHHHHHHHHHHhCCChHHEEEEEC-Cc------CCCCC-c---H--HHcCCCCCCEEEEEeecccc
Confidence 57888999999999998875 4334344322 33 12222 2 2 25679999999999999877
No 39
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=94.17 E-value=0.11 Score=29.01 Aligned_cols=60 Identities=10% Similarity=0.209 Sum_probs=41.0
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++-+.+.++. |..+.+|+- +|+ ++-+++.+ .++.+++|+.|.+.....||
T Consensus 15 ~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~-~g~------~L~d~~~L-----~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIF-AGK------QLEDGRTL-----SDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred EEECCcCcHHHHHHHHHHHhCCCHHHeEEEE-CCE------ECCCCCcH-----HHcCCCCCCEEEEEEEccCC
Confidence 56778899999999998875 333334442 222 12233322 25679999999999999987
No 40
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=93.52 E-value=0.41 Score=29.99 Aligned_cols=63 Identities=8% Similarity=0.066 Sum_probs=41.9
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCCCC-----EEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKD-----VVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD-----~V~i~P 68 (73)
++++++.||-++|.++.++. |.+.-+ ......+-..=.+.|||+..-.= .|.+++.. +|.|=|
T Consensus 23 v~~~~~~tVLd~L~~Ik~~~D~sLafr-~sCr~giCGsCam~ING~~~LAC---~t~v~~~~~~~~~~i~IeP 91 (110)
T PF13085_consen 23 VPVEPGMTVLDALNYIKEEQDPSLAFR-YSCRSGICGSCAMRINGRPRLAC---KTQVDDLIEKFGNVITIEP 91 (110)
T ss_dssp EEGGSTSBHHHHHHHHHHHT-TT--B---SSSSSSSSTTEEEETTEEEEGG---GSBGGGCTTSETBEEEEEE
T ss_pred ecCCCCCcHHHHHHHHHhccCCCeEEE-ecCCCCCCCCCEEEECCceecce---eeEchhccCCCcceEEEEE
Confidence 56778999999999999987 555322 23344566677899999995432 45665554 466655
No 41
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=93.37 E-value=0.2 Score=39.74 Aligned_cols=51 Identities=27% Similarity=0.121 Sum_probs=35.7
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
+.||.|+|+-|+--++-. +...+ .+-..|||+.+. ++|+|++||.|.|+-.
T Consensus 372 ~~lp~gst~~DfAy~ih~---~~g~~----------~~~a~vng~~v~----l~~~l~~gd~vei~t~ 422 (683)
T TIGR00691 372 VELPSGSTPVDFAYAVHT---DVGNK----------CTGAKVNGKIVP----LDKELENGDVVEIITG 422 (683)
T ss_pred EEcCCCCCHHHHHHHHhH---HhHhc----------eeEEEECCEECC----CCccCCCCCEEEEEeC
Confidence 567888888777664432 22211 344679998764 6999999999999853
No 42
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=93.00 E-value=0.15 Score=29.78 Aligned_cols=48 Identities=15% Similarity=0.085 Sum_probs=31.3
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
++.|+|+.|+...+-+...+.. .+. .+-+ ...-|.+..|+|||.|.|+
T Consensus 28 l~~g~tv~d~a~~IH~d~~~~F--~~A-----------~v~~---~~~vg~d~~l~d~DVv~i~ 75 (76)
T cd04938 28 VKKGTTVGDVARKIHGDLEKGF--IEA-----------VGGR---RRLEGKDVILGKNDILKFK 75 (76)
T ss_pred EcCCCCHHHHHHHHhHHHHhcc--EEE-----------EEcc---CEEECCCEEecCCCEEEEE
Confidence 5779999999887765442211 111 1111 2346789999999999885
No 43
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=92.99 E-value=0.5 Score=24.36 Aligned_cols=49 Identities=20% Similarity=0.155 Sum_probs=34.8
Q ss_pred ccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
++++++|..++++.+...++ +..+...+||+-++ +.+++.++++|.++-
T Consensus 12 ~~~~~~t~~~~~~~~~~~~~-------------~~~v~~~vng~~~d----L~~~l~~~~~ie~i~ 60 (61)
T cd01667 12 EFPKGTTPLDIAKSISPGLA-------------KKAVAAKVNGELVD----LSRPLEEDCELEIIT 60 (61)
T ss_pred EeCCCCCHHHHHHHHHHHHH-------------hheEEEEECCEEec----CCcCcCCCCEEEEEe
Confidence 46778899998887655322 12466778987643 689999999998763
No 44
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=92.87 E-value=0.25 Score=28.00 Aligned_cols=60 Identities=12% Similarity=0.075 Sum_probs=39.6
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++=+.+.+.. |....+|+- +|+ ++-+++.+ .++-+++++.+.+.++..||
T Consensus 13 l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~-~G~------~L~D~~tL-----~~~~i~~~~tl~l~~~l~gg 74 (74)
T cd01810 13 YEVQLTQTVATLKQQVSQRERVQADQFWLSF-EGR------PMEDEHPL-----GEYGLKPGCTVFMNLRLRGG 74 (74)
T ss_pred EEECCcChHHHHHHHHHHHhCCCHHHeEEEE-CCE------ECCCCCCH-----HHcCCCCCCEEEEEEEccCC
Confidence 56777899999999998765 332333332 222 12233322 25789999999999999887
No 45
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=92.36 E-value=0.24 Score=27.84 Aligned_cols=24 Identities=33% Similarity=0.410 Sum_probs=20.0
Q ss_pred EEEcCccccccCCccCccCCCCEEEEEe
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+.+||=.+. .|++|++||+|.+++
T Consensus 32 ~I~NGF~~~----~d~~L~e~D~v~~Ik 55 (57)
T PF14453_consen 32 VILNGFPTK----EDIELKEGDEVFLIK 55 (57)
T ss_pred EEEcCcccC----CccccCCCCEEEEEe
Confidence 567997664 489999999999986
No 46
>COG4723 Phage-related protein, tail component [Function unknown]
Probab=92.16 E-value=0.13 Score=35.40 Aligned_cols=60 Identities=13% Similarity=0.084 Sum_probs=41.7
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCcccCceE---EEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVL---VLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~---ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
.|..|++++|+-+.|+|+..+-+ |.. .+. +.++-+++. .-+...+.+|++|.|.|-++|.
T Consensus 26 ~t~aEAi~AL~~q~pgfr~~m~~--~~y--~~~i~~~~~~~~~v~--~~~~e~~~~g~~I~iVPrlaGa 88 (198)
T COG4723 26 NTAAEAIRALSLQMPGFRRQMNE--GWY--QIRIAGVDTAPENVT--ASLHESLGPGAVIHIVPRLAGA 88 (198)
T ss_pred CCHHHHHHHHHhcChhHHHHHhc--cee--eeEeeccccCccccc--HhHhccCCCCcEEEecceeccC
Confidence 46899999999999999987743 222 222 233333332 3345577899999999999984
No 47
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=92.12 E-value=0.4 Score=27.37 Aligned_cols=60 Identities=8% Similarity=0.084 Sum_probs=39.7
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++=+.|.+.. |..+.+|.-. |+ ++-|++.+. ++.+++|+.|.++...-||
T Consensus 12 l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~-G~------~L~d~~tL~-----~~~i~~g~~l~v~~~~~gg 73 (76)
T cd01800 12 FTLQLSDPVSVLKVKIHEETGMPAGKQKLQYE-GI------FIKDSNSLA-----YYNLANGTIIHLQLKERGG 73 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHHEEEEEC-CE------EcCCCCcHH-----HcCCCCCCEEEEEEecCCC
Confidence 57788899999988887765 3333333322 21 333443332 5679999999999887665
No 48
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=91.98 E-value=0.21 Score=29.48 Aligned_cols=52 Identities=21% Similarity=0.134 Sum_probs=35.6
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+-.|+.++|+.+.-...+-..+.|-.+| .|+|||+.-.. .-.+|.+||.|.|
T Consensus 10 e~I~L~qlLK~~g~i~sGG~AK~~i~eg------~V~vNGe~EtR---RgkKlr~gd~V~i 61 (73)
T COG2501 10 EFITLGQLLKLAGLIESGGQAKAFIAEG------EVKVNGEVETR---RGKKLRDGDVVEI 61 (73)
T ss_pred ceEEHHHHHHHhCcccCcHHHHHHHHCC------eEEECCeeeec---cCCEeecCCEEEE
Confidence 4578999998776544444444444432 58999987533 3579999999987
No 49
>PTZ00044 ubiquitin; Provisional
Probab=91.79 E-value=0.39 Score=27.03 Aligned_cols=60 Identities=8% Similarity=0.134 Sum_probs=40.9
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++=+.++++. |....+|+- +|+. +-|+..+. ++.+++|+.|.++.+.-||
T Consensus 15 l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~-~g~~------L~d~~~l~-----~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 15 FNFEPDNTVQQVKMALQEKEGIDVKQIRLIY-SGKQ------MSDDLKLS-----DYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHHeEEEE-CCEE------ccCCCcHH-----HcCCCCCCEEEEEEEccCC
Confidence 46677889999999998887 333334442 2222 33443332 5679999999999998887
No 50
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=90.97 E-value=0.27 Score=28.96 Aligned_cols=60 Identities=8% Similarity=0.106 Sum_probs=27.9
Q ss_pred cccCccCcHHHHHHHHHHhcCcc--cccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKE--RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~--~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+++++.+|+.+|.+.+.+..+-- .-.++.+... ..-+ ..-+++.+. +..|+.||-|-+.|
T Consensus 18 ie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~-~~~l-~s~~~~tl~-----~lglkHGdmlyL~~ 79 (80)
T PF11543_consen 18 IEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNN-KEEL-KSSDSKTLS-----SLGLKHGDMLYLKP 79 (80)
T ss_dssp EEE-TTSBHHHHHHHHHHHS---TTT---BSSGGG-GGCS-SS-TT-CCC-----CT---TT-EEE---
T ss_pred EEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCC-Cccc-ccCCcCCHH-----HcCCCCccEEEEec
Confidence 67889999999999999988432 3344443211 1010 001333333 45699999998776
No 51
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=90.76 E-value=0.34 Score=26.45 Aligned_cols=23 Identities=30% Similarity=0.203 Sum_probs=18.7
Q ss_pred EEEcCccccccCCccCccCCCCEEEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
|+|||+.+. ...+.|+.||+|.|
T Consensus 36 V~VNg~~~~---~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 36 VLVNGELEN---RRGKKLYPGDVIEI 58 (59)
T ss_pred EEECCEEcc---CCCCCCCCCCEEEe
Confidence 788999774 34789999999985
No 52
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=90.67 E-value=0.15 Score=27.95 Aligned_cols=26 Identities=19% Similarity=0.188 Sum_probs=19.3
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEE
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
--++|||+.+.. +..++|++||.|.|
T Consensus 42 ngt~vng~~l~~--~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 42 NGTFVNGQRLGP--GEPVPLKDGDIIRF 67 (68)
T ss_dssp S-EEETTEEESS--TSEEEE-TTEEEEE
T ss_pred CcEEECCEEcCC--CCEEECCCCCEEEc
Confidence 346779988764 66789999999976
No 53
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=90.38 E-value=0.59 Score=26.43 Aligned_cols=60 Identities=22% Similarity=0.190 Sum_probs=40.5
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++=+.+.++. |....+|.- .|+ ++-|++-+. ++-+++++.+.+..++-||
T Consensus 13 l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~-~Gk------~L~D~~tL~-----~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 13 LEVTGQETVSDIKAHVAGLEGIDVEDQVLLL-AGV------PLEDDATLG-----QCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred EEECCcCcHHHHHHHHHhhhCCCHHHEEEEE-CCe------ECCCCCCHH-----HcCCCCCCEEEEEEecCCC
Confidence 56778899999999998875 333323322 122 233443332 5679999999999998887
No 54
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=89.86 E-value=0.46 Score=38.34 Aligned_cols=51 Identities=10% Similarity=0.013 Sum_probs=34.0
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
+.||.|+|+-|+--++-. +...+ .+-..|||+.+. ++|+|++||.|.|+-.
T Consensus 416 ~~Lp~gaT~lDfAy~iHt---~iG~~----------~~gAkvng~~v~----l~~~L~~GD~VeIits 466 (743)
T PRK10872 416 VDLPAGSTPLDFAYHIHS---DVGHR----------CIGAKIGGRIVP----FTYQLQMGDQIEIITQ 466 (743)
T ss_pred EEcCCCCcHHHHHHHHhH---HHHhh----------ceEEEECCEECC----CCcCCCCCCEEEEEeC
Confidence 457777777776554432 22111 233578998775 6999999999999753
No 55
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=89.33 E-value=0.87 Score=25.03 Aligned_cols=55 Identities=13% Similarity=0.105 Sum_probs=33.8
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+++++..||.+|-+.+.+.. |..+.+|+-. |+. +-+.+. | .++.+++|++|.++.
T Consensus 14 i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~-g~~------l~d~~~---L--~~~~i~~g~~l~v~~ 70 (71)
T cd01812 14 LSISSQATFGDLKKMLAPVTGVEPRDQKLIFK-GKE------RDDAET---L--DMSGVKDGSKVMLLE 70 (71)
T ss_pred EEECCCCcHHHHHHHHHHhhCCChHHeEEeeC-Ccc------cCccCc---H--HHcCCCCCCEEEEec
Confidence 56788899999999998875 3333334322 221 112221 2 245689999998864
No 56
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=88.73 E-value=0.75 Score=28.56 Aligned_cols=55 Identities=16% Similarity=0.108 Sum_probs=32.9
Q ss_pred cccCccCcHHHHHHH--HHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 2 LSLTFQLIMKDLLSW--VGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~--L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+.+.+|+||.+++.. |-+.+|++. | ... -+-|| ++.+. ++.+|+|||.|-|+=|+
T Consensus 21 v~v~egatV~dAi~~Sgll~~~~~id---l-~~n----~~GI~--~k~~k----l~~~l~dgDRVEIyRPL 77 (99)
T COG2914 21 VQLQEGATVEDAILASGLLELFPDID---L-HEN----KVGIY--SKPVK----LDDELHDGDRVEIYRPL 77 (99)
T ss_pred EEeccCcCHHHHHHhcchhhccccCC---c-ccc----ceeEE--ccccC----ccccccCCCEEEEeccc
Confidence 567899999999863 333333321 0 000 12232 34432 46779999999998764
No 57
>PRK07570 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated
Probab=88.71 E-value=1.7 Score=30.66 Aligned_cols=63 Identities=6% Similarity=0.062 Sum_probs=38.4
Q ss_pred cCccCcHHHHHHHHHHhc-----CcccccccccCCcccCceEEEEcCccc-----cccCCccC---ccCCCCEEEEEec
Q 035093 4 LTFQLIMKDLLSWVGTNL-----IKERPEMFMKGDSVRPGVLVLVNDCDW-----ELSGQLDT---TLEEKDVVVFIST 69 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~-----~~~~~~l~~~~g~lr~~v~ilvNg~~i-----~~l~g~~t---~l~dgD~V~i~Pp 69 (73)
+.++.||-++|.++.++. +.+.-+ +.-...+-..=.+.|||+.. +.- =.| .+++|++|.|-|-
T Consensus 27 ~~~~~tvLd~L~~Ik~~~~~~~~~~l~fr-~sCr~~iCGsCam~ING~p~~~~~~~LA--C~t~~~~~~~~~~i~iePl 102 (250)
T PRK07570 27 ISPDMSFLEMLDVLNEQLIEKGEEPVAFD-HDCREGICGMCGLVINGRPHGPDRGTTT--CQLHMRSFKDGDTITIEPW 102 (250)
T ss_pred CCCCCcHHHHHHHHHHHhhccCCCCeeEe-ccccCCcCCcceeEECCccCCCCcccch--hhhhhhhcCCCCeEEEEEC
Confidence 457899999999998765 222111 11223455566799999983 110 012 2456788888775
No 58
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=88.64 E-value=0.84 Score=27.97 Aligned_cols=60 Identities=10% Similarity=0.092 Sum_probs=40.7
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
+++.+..||.++=+.+.++. |..+.+|+-. |+ ++-+++.+ .++.+++|+.|.+..++-||
T Consensus 42 leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~-Gk------~L~D~~tL-----~dy~I~~~stL~l~~~l~GG 103 (103)
T cd01802 42 LRVSPFETVISVKAKIQRLEGIPVAQQHLIWN-NM------ELEDEYCL-----NDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred EEeCCCCcHHHHHHHHHHHhCCChHHEEEEEC-CE------ECCCCCcH-----HHcCCCCCCEEEEEEecCCC
Confidence 56788899999999998876 3333333321 21 23333333 25679999999999998887
No 59
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=88.62 E-value=1.9 Score=25.23 Aligned_cols=61 Identities=15% Similarity=0.092 Sum_probs=41.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCC-ccCccCCCCEEEEEecCCCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ-LDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g-~~t~l~dgD~V~i~PpvaGG 73 (73)
+++....|++.|.+.++++..--. ..+..+-||+.++.-.= .+.-+++||.|.++-..-||
T Consensus 26 ~~v~~~~~l~~l~~~y~~~~gi~~-----------~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG 87 (87)
T cd01763 26 FKIKRSTPLKKLMEAYCQRQGLSM-----------NSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG 87 (87)
T ss_pred EEEcCCCHHHHHHHHHHHHhCCCc-----------cceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence 456677899999999998763111 13445557777653211 13368999999999888887
No 60
>TIGR00384 dhsB succinate dehydrogenase and fumarate reductase iron-sulfur protein. Succinate dehydrogenase and fumarate reductase are reverse directions of the same enzymatic interconversion, succinate + FAD+ = fumarate + FADH2 (EC 1.3.11.1). In E. coli, the forward and reverse reactions are catalyzed by distinct complexes: fumarate reductase operates under anaerobic conditions and succinate dehydrogenase operates under aerobic conditions. This model also describes a region of the B subunit of a cytosolic archaeal fumarate reductase.
Probab=87.68 E-value=1.5 Score=29.83 Aligned_cols=63 Identities=10% Similarity=-0.007 Sum_probs=38.5
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCC-CCE-EEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KDV-VVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d-gD~-V~i~P 68 (73)
++++++.||-++|..+.+.+ |.+.-+-. -....-..=.|.|||+.+. .=.|++++ |.. +.|-|
T Consensus 19 v~~~~~~tvl~~l~~i~~~~~~~l~~~~~-C~~g~Cg~C~v~vnG~~~l---aC~t~v~~~g~~~~~iep 84 (220)
T TIGR00384 19 VPADEGMTVLDALNYIKDEQDPSLAFRRS-CRNGICGSCAMNVNGKPVL---ACKTKVEDLGQPVMKIEP 84 (220)
T ss_pred EeCCCCCcHHHHHHHHHHhcCCCceeecc-cCCCCCCCCeeEECCEEhh---hhhChHHHcCCCcEEEee
Confidence 46679999999999998654 54432211 1111212235789998764 34688888 875 44433
No 61
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=87.20 E-value=1.5 Score=30.60 Aligned_cols=63 Identities=13% Similarity=0.092 Sum_probs=40.2
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCC-CC-EEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KD-VVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d-gD-~V~i~P 68 (73)
++++++.||-|+|.++.++. |.+.-+ ..-...+-..=-+.|||+..-.= .|.+++ ++ +|.|=|
T Consensus 28 v~~~~~~tvLdaL~~Ik~~~D~sL~fr-~sCr~giCGsCam~ING~~~LAC---~t~v~~~~~~~i~ieP 93 (239)
T PRK13552 28 LEETPGMTLFIALNRIREEQDPSLQFD-FVCRAGICGSCAMVINGRPTLAC---RTLTSDYPDGVITLMP 93 (239)
T ss_pred ecCCCCCCHHHHHHHHHhcCCCCeeEe-ccCCCCCCCCceeEECCeEhhhh---hccHhhcCCCcEEEEE
Confidence 56788999999999999875 444322 22233455566789999996432 344543 22 566654
No 62
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=86.88 E-value=1.1 Score=35.97 Aligned_cols=26 Identities=23% Similarity=0.248 Sum_probs=22.3
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+-..|||+-+. ++|+|++||.|.|+-
T Consensus 422 ~gAkVNg~~vp----L~~~L~~Gd~VeIiT 447 (702)
T PRK11092 422 VGARVDRQPYP----LSQPLTSGQTVEIIT 447 (702)
T ss_pred EEEEECCEECC----CCccCCCCCEEEEEe
Confidence 55788999887 489999999999984
No 63
>smart00363 S4 S4 RNA-binding domain.
Probab=86.48 E-value=0.83 Score=23.27 Aligned_cols=26 Identities=19% Similarity=0.063 Sum_probs=19.8
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.|+|||+.+.. .+++++.||.|.+..
T Consensus 27 ~i~vng~~~~~---~~~~l~~gd~i~~~~ 52 (60)
T smart00363 27 RVKVNGKKVTK---PSYIVKPGDVISVRG 52 (60)
T ss_pred CEEECCEEecC---CCeEeCCCCEEEEcc
Confidence 47889998732 378899999988743
No 64
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=86.47 E-value=3.7 Score=25.52 Aligned_cols=58 Identities=12% Similarity=0.083 Sum_probs=38.1
Q ss_pred CccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccC-ccCCCCEEEEEecCCCC
Q 035093 5 TFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT-TLEEKDVVVFISTLHGG 73 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t-~l~dgD~V~i~PpvaGG 73 (73)
.-.++++-|.++-|++-.-. -..+.++.||++|+..+--+. ..++||+|.++-+--||
T Consensus 38 kr~t~LkKLM~aYc~r~Gl~-----------~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG 96 (99)
T KOG1769|consen 38 KRHTPLKKLMKAYCERQGLS-----------MNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGG 96 (99)
T ss_pred ecCChHHHHHHHHHHHcCCc-----------cceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccC
Confidence 33456677777777655311 124668889999975432111 46999999999887776
No 65
>PF01479 S4: S4 domain; InterPro: IPR002942 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 [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=84.98 E-value=0.7 Score=23.89 Aligned_cols=21 Identities=24% Similarity=0.094 Sum_probs=17.5
Q ss_pred EEEcCccccccCCccCccCCCCEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVV 64 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V 64 (73)
|.|||+-+.. .+++++.||+|
T Consensus 28 V~VNg~~v~~---~~~~v~~~d~I 48 (48)
T PF01479_consen 28 VKVNGKVVKD---PSYIVKPGDVI 48 (48)
T ss_dssp EEETTEEESS---TTSBESTTEEE
T ss_pred EEECCEEEcC---CCCCCCCcCCC
Confidence 7889999864 47899999986
No 66
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=84.65 E-value=1.8 Score=24.88 Aligned_cols=54 Identities=7% Similarity=0.004 Sum_probs=34.2
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++++..||++|=+.+.++. |..+.+|.-. |+ ++-++..+ .++-+++|+.|.++
T Consensus 16 ~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~-Gk------~L~D~~tL-----~~ygi~~~stv~l~ 71 (73)
T cd01791 16 VKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKW-YT------IFKDHISL-----GDYEIHDGMNLELY 71 (73)
T ss_pred EEeCCCCcHHHHHHHHHHHhCCChHHEEEEeC-Cc------CCCCCCCH-----HHcCCCCCCEEEEE
Confidence 46788899999999998775 4333333221 32 22233322 25679999999875
No 67
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=84.08 E-value=2.7 Score=23.46 Aligned_cols=54 Identities=17% Similarity=0.259 Sum_probs=31.9
Q ss_pred cccCccCcHHHHHHHHHHhcC----cccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI----KERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~----~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++.+..||.++-+.+.+... ..+.+|+- +|+ ++-++..+ .++-+++|+.|.++
T Consensus 15 l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~-~G~------~L~d~~~L-----~~~~i~~~~~i~~~ 72 (77)
T cd01805 15 IEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIY-SGK------ILKDDTTL-----EEYKIDEKDFVVVM 72 (77)
T ss_pred EEECCCCcHHHHHHHHHHhhCCCCChhHeEEEE-CCE------EccCCCCH-----HHcCCCCCCEEEEE
Confidence 567788999999999988763 11222221 111 22222222 25678999988764
No 68
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=83.95 E-value=1.7 Score=25.59 Aligned_cols=50 Identities=10% Similarity=0.059 Sum_probs=32.4
Q ss_pred CccCcHHHHHHHHHHhcC-----cc-cccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 5 TFQLIMKDLLSWVGTNLI-----KE-RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~-----~~-~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
|...||.+|-+.+.++.+ .. .+-+|. |+ +|-|++.+. ++.+++|+.|.++
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~--GK------iL~D~~TL~-----dygI~~gstlhLv 73 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDPELIDLIHC--GR------KLKDDQTLD-----FYGIQSGSTIHIL 73 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCChHHeEEEeC--Cc------CCCCCCcHH-----HcCCCCCCEEEEE
Confidence 446799999999999842 22 233442 22 244554443 6679999998875
No 69
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=82.66 E-value=1.6 Score=24.51 Aligned_cols=31 Identities=16% Similarity=0.139 Sum_probs=20.3
Q ss_pred ccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 35 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
-+.+-..+|||..... +--+.+|++||.|.+
T Consensus 37 ~~~~W~~~vNG~~~~~-ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 37 DGSYWMYYVNGESANV-GAGSYKLKDGDKITW 67 (68)
T ss_dssp CTEEEEEEETTEE-SS--CCC-B--TTEEEEE
T ss_pred CCceeEEEECCEEhhc-CcceeEeCCCCEEEe
Confidence 4457889999998764 334569999999986
No 70
>PRK05950 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=82.51 E-value=3.4 Score=28.34 Aligned_cols=63 Identities=11% Similarity=0.015 Sum_probs=37.4
Q ss_pred cccC-ccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCC--CCEEEEEe
Q 035093 2 LSLT-FQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE--KDVVVFIS 68 (73)
Q Consensus 2 ~~l~-~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d--gD~V~i~P 68 (73)
++++ ++.||-++|+.+.+.. |.+.-+..=.. ..-.-=.|.|||+.+. .=.|++++ +++++|=|
T Consensus 22 v~~~~~~~tvl~~L~~~~~~~~~~l~~~~~c~~-g~Cg~C~v~vnG~~~l---aC~t~~~~~~~~~~tiep 88 (232)
T PRK05950 22 VDVDECGPMVLDALIKIKNEIDPTLTFRRSCRE-GVCGSDAMNINGKNGL---ACITPISDLKKGKIVIRP 88 (232)
T ss_pred eCCCCCCCHHHHHHHHhCCccCCcceeeCCCCC-CCCCCCEEEECCcCcc---chhChHhHcCCCeEEEEE
Confidence 5677 8999999999987444 54432211011 1222336899998864 23566655 46666544
No 71
>PRK11507 ribosome-associated protein; Provisional
Probab=82.32 E-value=1.6 Score=25.42 Aligned_cols=52 Identities=15% Similarity=0.090 Sum_probs=31.4
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+-.++.++|+...--..+-..+.|-.+ =.|.|||+--. ..-.+|.+||.|.|
T Consensus 10 e~I~L~QlLK~~~~v~SGG~AK~~I~e------g~V~VNGeve~---rRgkKl~~GD~V~~ 61 (70)
T PRK11507 10 PHVELCDLLKLEGWSESGAQAKIAIAE------GQVKVDGAVET---RKRCKIVAGQTVSF 61 (70)
T ss_pred CeEEHHHHHhhhCcccChHHHHHHHHc------CceEECCEEec---ccCCCCCCCCEEEE
Confidence 446888888865433322222222222 24889998543 23568999999987
No 72
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=82.20 E-value=0.44 Score=27.36 Aligned_cols=52 Identities=21% Similarity=0.142 Sum_probs=23.2
Q ss_pred ccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+-.++.++|+...--..+-..+.|-.+ + .|+|||+-... ...+|.+||.|.|
T Consensus 6 e~I~L~qlLK~~glv~sGGeAK~~I~~-----g-~V~VNGe~e~r---rg~Kl~~GD~V~~ 57 (65)
T PF13275_consen 6 EYITLGQLLKLAGLVSSGGEAKALIQE-----G-EVKVNGEVETR---RGKKLRPGDVVEI 57 (65)
T ss_dssp S---HHHHHHHHTS-SSSSTTSHHHHH-----H-HHEETTB-------SS----SSEEEEE
T ss_pred CcEEHHHHHhHcCCcccHHHHHHHHHc-----C-ceEECCEEccc---cCCcCCCCCEEEE
Confidence 346888888865432222211122121 1 37889987543 3578999999987
No 73
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=82.13 E-value=2.4 Score=23.41 Aligned_cols=56 Identities=9% Similarity=0.082 Sum_probs=34.3
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCc-cCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL-DTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~-~t~l~dgD~V~i~ 67 (73)
+.+....|++.|++..+++..--.+ ..+.++-+|+.+..-+=. +.-+++||.|.++
T Consensus 15 ~~v~~~~~~~~l~~~~~~~~~i~~~----------~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 15 FKVKPTTTVSKLIEKYCEKKGIPPE----------ESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp EEEETTSCCHHHHHHHHHHHTTTT-----------TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred EEECCCCcHHHHHHHHHHhhCCCcc----------ceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence 4566788999999999987632111 245566777765432111 2258999988764
No 74
>PRK12385 fumarate reductase iron-sulfur subunit; Provisional
Probab=81.47 E-value=2.5 Score=29.48 Aligned_cols=63 Identities=13% Similarity=0.026 Sum_probs=38.5
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCC-CCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d-gD~V~i~P 68 (73)
++++++.||-++|.++.++. +.+.-+- .-...+-..=.+.|||+.... -.|.+++ ++.+.|-|
T Consensus 29 v~~~~~~tvl~~L~~ik~~~d~~l~fr~-~C~~giCGsC~v~InG~~~la---C~t~~~~~~~~~~ieP 93 (244)
T PRK12385 29 VPYDETTSLLDALGYIKDNLAPDLSYRW-SCRMAICGSCGMMVNNVPKLA---CKTFLRDYTGGMKVEA 93 (244)
T ss_pred eeCCCCCcHHHHHHHHHHhcCCCceecc-CCCCCcCCCCcceECccChhh---HhhHHHHcCCCeEEee
Confidence 45678999999999998866 4432221 122234444568899988643 3566654 23455544
No 75
>PRK12577 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=81.14 E-value=3.7 Score=29.78 Aligned_cols=63 Identities=6% Similarity=-0.069 Sum_probs=39.4
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCC------------CCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE------------KDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d------------gD~V~i~P 68 (73)
++++++.||-|+|..+.... |.+.-+-.-.. ..-..=.+.|||+... -=.|++.+ +++|.|=|
T Consensus 23 v~~~~~~tvL~~l~~i~~~~d~tL~~~~~c~~-~~Cg~C~v~inG~~~l---aC~t~v~~~~~~~~~~~~~~~~~i~ieP 98 (329)
T PRK12577 23 LEVEPGNTILDCLNRIKWEQDGSLAFRKNCRN-TICGSCAMRINGRSAL---ACKENVGSELARLSDSNSGAIPEITIAP 98 (329)
T ss_pred EECCCCChHHHHHHHhCCcCCCCcEEcCCCCC-CCCCCCEEEECCeeec---CcccchhhhhccccccccCCCCeEEEEE
Confidence 57889999999999998877 45432110012 2334456889998643 22455543 36777765
No 76
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=80.99 E-value=3.2 Score=23.72 Aligned_cols=55 Identities=13% Similarity=0.165 Sum_probs=37.7
Q ss_pred cccCccCcHHHHHHHHHHhc--Cccccccccc--CCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMK--GDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~--~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++.+..||.++=+.|++.. |..+.+|+.. .|+ ++-|+..+. +..+++|+.|.++
T Consensus 14 v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk------~l~D~~~L~-----~~~i~~g~~i~lm 72 (74)
T cd01813 14 VTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGK------PAEDDVKIS-----ALKLKPNTKIMMM 72 (74)
T ss_pred EEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCC------cCCCCcCHH-----HcCCCCCCEEEEE
Confidence 57788899999988888765 5555555531 233 344666655 3458899999886
No 77
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=80.79 E-value=2.1 Score=32.07 Aligned_cols=52 Identities=19% Similarity=0.162 Sum_probs=34.6
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCcccccc---CCccCccCCCCEEEEEe
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS---GQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l---~g~~t~l~dgD~V~i~P 68 (73)
+..|+||.|+-+.+-+.+-+-++ .-.|=|.++.|- =|++..|+|+|.|.|+-
T Consensus 310 lr~GsTV~Dvc~~IH~~l~~~Fr-------------yA~VWGkSvk~~~QrVG~dHvLeD~DIV~I~~ 364 (365)
T COG1163 310 LRRGSTVGDVCRKIHRDLVENFR-------------YARVWGKSVKHPGQRVGLDHVLEDEDIVEIHA 364 (365)
T ss_pred EeCCCcHHHHHHHHHHHHHHhcc-------------eEEEeccCCCCCccccCcCcCccCCCeEEEee
Confidence 45789999999988876632221 122233333332 27899999999999873
No 78
>PF14950 DUF4502: Domain of unknown function (DUF4502)
Probab=80.33 E-value=2.6 Score=31.45 Aligned_cols=32 Identities=9% Similarity=0.013 Sum_probs=27.6
Q ss_pred cccCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 34 SVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 34 ~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
...+.+.|+-|.+-+.+|.+ .+||.|.|+||-
T Consensus 324 ~~g~~l~VLFTkETa~~L~~-----~P~DIIhIyPPW 355 (358)
T PF14950_consen 324 APGARLKVLFTKETAAHLRG-----RPGDIIHIYPPW 355 (358)
T ss_pred CCCCcEEEEEeHHHHHHhCC-----CCCCEEEeCCCc
Confidence 35567999999999999874 799999999994
No 79
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=80.13 E-value=4.1 Score=23.52 Aligned_cols=38 Identities=8% Similarity=0.073 Sum_probs=29.5
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcC
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVND 45 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg 45 (73)
.|+.||++.-++++......+|+++|.--..|.+.-+|
T Consensus 26 ~SleeLl~ia~~kfg~~~~~v~~~dgaeIdDI~~IRDg 63 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFSATKVLNEDGAEIDDIDVIRDG 63 (69)
T ss_pred ccHHHHHHHHHHHhCCCceEEEcCCCCEEeEEEEEEcC
Confidence 69999999999999766677888887766666654443
No 80
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=80.11 E-value=7.4 Score=21.09 Aligned_cols=54 Identities=13% Similarity=0.162 Sum_probs=32.8
Q ss_pred cccCccCcHHHHHHHHHHhcC--cccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~--~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++++..||.+|=+.+++... ...-+|+-. | - ++-|...+. ++-+++|+.|.+.
T Consensus 10 ~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~-G-----~-~L~d~~tL~-----~~~i~~~~~I~l~ 65 (69)
T PF00240_consen 10 LEVDPDDTVADLKQKIAEETGIPPEQQRLIYN-G-----K-ELDDDKTLS-----DYGIKDGSTIHLV 65 (69)
T ss_dssp EEEETTSBHHHHHHHHHHHHTSTGGGEEEEET-T-----E-EESTTSBTG-----GGTTSTTEEEEEE
T ss_pred EEECCCCCHHHhhhhcccccccccccceeeee-e-----e-cccCcCcHH-----HcCCCCCCEEEEE
Confidence 577889999999999998774 222222221 1 1 122222222 5678999988764
No 81
>COG0024 Map Methionine aminopeptidase [Translation, ribosomal structure and biogenesis]
Probab=78.32 E-value=7.8 Score=27.59 Aligned_cols=62 Identities=13% Similarity=0.004 Sum_probs=39.7
Q ss_pred cCccCcHHHHHHHHHHhcCc--ccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIK--ERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~--~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+.+|.|..||=+...+..-+ ..+.-+...| +.-.+.+-||..-+-...+.+++|++||.|.|
T Consensus 32 v~pGvtt~Eld~~~~~~i~~~ga~pa~~gy~g-~~~~~ciSvNe~v~HgiP~d~~vlk~GDiv~I 95 (255)
T COG0024 32 VKPGVTTLELDEIAEEFIREKGAYPAFLGYKG-FPFPTCISVNEVVAHGIPGDKKVLKEGDIVKI 95 (255)
T ss_pred cCCCCCHHHHHHHHHHHHHHcCceehhccCcC-CCcceEeehhheeeecCCCCCcccCCCCEEEE
Confidence 34677877765544443321 1111121222 55678999999988777777789999999876
No 82
>PRK08640 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=78.31 E-value=5.7 Score=27.86 Aligned_cols=64 Identities=8% Similarity=0.117 Sum_probs=37.9
Q ss_pred cccCccCcHHHHHHHHHHhcCccc-----ccccc--cCCcccCceEEEEcCccccccCCccCccCC-CCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKER-----PEMFM--KGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~-----~~l~~--~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d-gD~V~i~P 68 (73)
+++.++.||-|+|.++.++.-... .--|. -...+-..=.+.|||+..-.= .|.+++ +++|.|=|
T Consensus 27 v~~~~~~tvLdaL~~I~~~~~~~~g~~~~~l~fr~sCr~giCGsCam~ING~p~LAC---~t~v~~~~~~i~ieP 98 (249)
T PRK08640 27 IPYRPNMNVISALMEIRRNPVNAKGEKTTPVVWDMNCLEEVCGACSMVINGKPRQAC---TALIDQLEQPIRLEP 98 (249)
T ss_pred ecCCCCCcHHHHHHHHHhcccccccccCCCeeEecccCCCCCCcCeeEECCccchhh---hChHHHcCCcEEEEE
Confidence 566789999999999987510000 11122 122344556689999986332 334432 46777765
No 83
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=78.02 E-value=4.9 Score=31.10 Aligned_cols=50 Identities=22% Similarity=0.211 Sum_probs=37.6
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.++|.|+|+.++++.+...++. +-+...|||+-+ .+++++..+++|.|+-
T Consensus 12 ~~~~~gtt~~dia~~~~~~~~~-------------~~v~a~vng~l~----dL~~~l~~d~~Vefi~ 61 (638)
T PRK00413 12 REFEAGVTVADVAASISPGLAK-------------AAVAGKVNGELV----DLSTPIEEDASLEIIT 61 (638)
T ss_pred EEeCCCCCHHHHHHHhhhhchh-------------heEEEEECCEEe----eCCccccCCCceeeee
Confidence 4578899999998877664321 357788999643 4689999999998874
No 84
>PF01561 Hanta_G2: Hantavirus glycoprotein G2; InterPro: IPR002532 The medium (M) genome segment of Hantaviruses (family Bunyaviridae) encodes the two virion glycoproteins [], G1 and G2, as a polyprotein precursor. This entry represents the polyprotein region which forms the G2 glycoprotein.; GO: 0030683 evasion by virus of host immune response, 0044423 virion part
Probab=77.53 E-value=2.1 Score=32.98 Aligned_cols=27 Identities=30% Similarity=0.210 Sum_probs=22.8
Q ss_pred ccccccCCcccCceEEEEcCccccccCC
Q 035093 26 PEMFMKGDSVRPGVLVLVNDCDWELSGQ 53 (73)
Q Consensus 26 ~~l~~~~g~lr~~v~ilvNg~~i~~l~g 53 (73)
-++.+.|+.+|.+|+|+|| +|+++-+-
T Consensus 289 LEw~Dpds~~rdhINv~v~-rDi~f~dl 315 (485)
T PF01561_consen 289 LEWKDPDSSLRDHINVLVN-RDISFQDL 315 (485)
T ss_pred ceEeCCCCcccccEEEEEc-ccccchhc
Confidence 3567889999999999999 99987543
No 85
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=77.37 E-value=3.4 Score=21.47 Aligned_cols=26 Identities=23% Similarity=0.081 Sum_probs=19.5
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.|+|||+.+.. ..++++.||.|.+..
T Consensus 27 ~V~vn~~~~~~---~~~~v~~~d~i~i~~ 52 (70)
T cd00165 27 HVLVNGKVVTK---PSYKVKPGDVIEVDG 52 (70)
T ss_pred CEEECCEEccC---CccCcCCCCEEEEcC
Confidence 37789998742 367899999988753
No 86
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=76.20 E-value=4.5 Score=22.64 Aligned_cols=55 Identities=16% Similarity=0.256 Sum_probs=35.7
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+++.+..||+++-+.++++. |....+|+-. |+ .+-+++.+. ++-+++++.|.++.
T Consensus 15 l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~-G~------~L~d~~~L~-----~~~i~~~~~l~l~~ 71 (74)
T cd01807 15 LQVSEKESVSTLKKLVSEHLNVPEEQQRLLFK-GK------ALADDKRLS-----DYSIGPNAKLNLVV 71 (74)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHHeEEEEC-CE------ECCCCCCHH-----HCCCCCCCEEEEEE
Confidence 56778899999999999875 3333344322 22 233444333 56799999887764
No 87
>PRK09602 translation-associated GTPase; Reviewed
Probab=76.14 E-value=4.9 Score=29.93 Aligned_cols=51 Identities=18% Similarity=0.099 Sum_probs=33.2
Q ss_pred ccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.++.|+|+.|+-..+-+....-. +.... .+.. ...|.++.|+|||.|.|+.
T Consensus 344 ~l~~g~t~~d~A~~IH~d~~~~f--i~A~~------------~~~~-~~~g~~~~l~dgDiv~i~~ 394 (396)
T PRK09602 344 LLPKGSTARDLAYKIHTDIGEGF--LYAID------------ARTK-RRIGEDYELKDGDVIKIVS 394 (396)
T ss_pred EECCCCCHHHHHHHHHHHHHhhc--eehhc------------ccCC-cccCCCcEecCCCEEEEEe
Confidence 46789999999887765443211 11111 1122 2568899999999999985
No 88
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=75.90 E-value=3.1 Score=30.30 Aligned_cols=37 Identities=5% Similarity=0.207 Sum_probs=30.0
Q ss_pred cCcHHHHHHHHHHhcCcc---cccccccCCcccCceEEEEcCc
Q 035093 7 QLIMKDLLSWVGTNLIKE---RPEMFMKGDSVRPGVLVLVNDC 46 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~---~~~l~~~~g~lr~~v~ilvNg~ 46 (73)
..||.++|+.|..++|.- .+++++++ ++.|.|+.+|.
T Consensus 109 evtvEnflr~LTgR~~~~tprSKrlltDe---~SNIlIYmtGH 148 (309)
T KOG1349|consen 109 EVTVENFLRVLTGRHPNNTPRSKRLLTDE---GSNILIYLTGH 148 (309)
T ss_pred hhHHHHHHHHHcCCCCCCCchhhhhcccC---CCcEEEEEccC
Confidence 469999999999999876 56666655 46899999984
No 89
>PLN02560 enoyl-CoA reductase
Probab=75.53 E-value=6 Score=28.71 Aligned_cols=58 Identities=22% Similarity=0.179 Sum_probs=34.4
Q ss_pred cccCccCcHHHHHHHHHHhcCc---cccccc-cc-CCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIK---ERPEMF-MK-GDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~---~~~~l~-~~-~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+|+++.+||.||-+.+.++.+. .+.++. .. +|+-+ ++ ++.+++.. .++-+++|+++.+
T Consensus 18 lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~-g~-~L~d~ktL-----~d~gv~~gstLy~ 80 (308)
T PLN02560 18 LEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTR-PT-VLDDSKSL-----KDYGLGDGGTVVF 80 (308)
T ss_pred EEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcC-cc-ccCCCCCH-----HhcCCCCCceEEE
Confidence 6889999999999999987543 344443 22 23222 11 22244332 2556788887654
No 90
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=74.66 E-value=5.7 Score=23.12 Aligned_cols=61 Identities=15% Similarity=-0.037 Sum_probs=33.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcccc-----cccccCCcccCceEEEEcCccccccCCccCccCCCCEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERP-----EMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVV 65 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~-----~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~ 65 (73)
++.++|.||-+++.+..-..|.+-. ..|...| --.--+|-|||+... --=.|++++|-+|.
T Consensus 13 v~~~~G~til~al~~~gi~ip~~c~~~~~r~~~~~~g-~C~~C~Vev~g~~~v--~AC~t~v~~GM~V~ 78 (82)
T PF13510_consen 13 VEVPPGETILEALLAAGIDIPRLCYHGRPRGGLCPIG-SCRLCLVEVDGEPNV--RACSTPVEDGMVVE 78 (82)
T ss_dssp EEEEET-BHHHHHHHTT--B-EETTTS-EEBSSSSST-T-SS-EEEESSEEEE--ETTT-B--TTEEEE
T ss_pred EEEcCCCHHHHHHHHCCCeEEEeeeccCcccccCCcc-ccceEEEEECCCcce--EcccCCCcCCcEEE
Confidence 4678899999999988877775422 2222222 222456899998721 23468999998775
No 91
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=74.43 E-value=2.8 Score=24.33 Aligned_cols=20 Identities=10% Similarity=0.155 Sum_probs=18.0
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+.+.+|.|++|+|+.+++++
T Consensus 14 V~vrpg~ti~d~L~~~c~kr 33 (72)
T cd01760 14 VPVRPGMSVRDVLAKACKKR 33 (72)
T ss_pred EEECCCCCHHHHHHHHHHHc
Confidence 56788999999999999987
No 92
>smart00455 RBD Raf-like Ras-binding domain.
Probab=74.13 E-value=3.3 Score=23.68 Aligned_cols=21 Identities=10% Similarity=-0.072 Sum_probs=18.3
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.+.+|.|++|+|+.+++++.
T Consensus 14 V~vrpg~tl~e~L~~~~~kr~ 34 (70)
T smart00455 14 VKVRPGKTVRDALAKALKKRG 34 (70)
T ss_pred EEECCCCCHHHHHHHHHHHcC
Confidence 456789999999999999883
No 93
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=73.50 E-value=7.2 Score=21.17 Aligned_cols=55 Identities=13% Similarity=0.261 Sum_probs=33.8
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+++.+..||.++-+.+.+.. |..+.+|+- +|+ ++-+++.+. ++-+++|+.|.+..
T Consensus 15 ~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~-~g~------~L~d~~~L~-----~~~i~~~~~l~l~~ 71 (72)
T cd01809 15 FTVEEEITVLDLKEKIAEEVGIPVEQQRLIY-SGR------VLKDDETLS-----EYKVEDGHTIHLVK 71 (72)
T ss_pred EEECCCCcHHHHHHHHHHHHCcCHHHeEEEE-CCE------ECCCcCcHH-----HCCCCCCCEEEEEe
Confidence 46677899999999998876 222223332 232 222333222 45789999988764
No 94
>COG0479 FrdB Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]
Probab=73.47 E-value=13 Score=26.22 Aligned_cols=63 Identities=8% Similarity=0.028 Sum_probs=39.5
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCCCC--EEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKD--VVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD--~V~i~P 68 (73)
+++.+|.||-++|.++.+.. |.+.-+ ++--.++-..=-+.|||++--.= .|.+++-. +|.|-|
T Consensus 24 v~~~~~~~vLdaL~~Ik~e~d~~Lsfr-~sCR~gICGSCam~ING~prLAC---~t~~~~~~~~~i~ieP 89 (234)
T COG0479 24 VPYDEGMTVLDALLYIKEEQDPTLSFR-RSCREGICGSCAMNINGKPRLAC---KTLMKDLEEGVITIEP 89 (234)
T ss_pred ecCCCCCcHHHHHHHHHHhcCCccchh-hhccCCcCCcceeEECCccccch---hchhhhccCCceEEEE
Confidence 45568999999999999654 554321 22344566677789999986332 34443321 566655
No 95
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=73.04 E-value=5.5 Score=32.19 Aligned_cols=28 Identities=29% Similarity=0.201 Sum_probs=22.6
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
-+-.-|||+-+. ++|+|+.||.|-|+-.
T Consensus 422 c~gAkVnG~ivp----l~~~Lk~Gd~VEIit~ 449 (701)
T COG0317 422 CIGAKVNGRIVP----LTTKLQTGDQVEIITS 449 (701)
T ss_pred eeEEEECCEEec----cceecCCCCEEEEEeC
Confidence 355789997765 4899999999999854
No 96
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=72.69 E-value=4.1 Score=29.15 Aligned_cols=25 Identities=28% Similarity=0.142 Sum_probs=20.2
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.|.|||+.+. .++.|+.||+|.+.+
T Consensus 46 ~V~VNg~~v~----~~~~v~~GD~I~i~~ 70 (317)
T PRK11025 46 EVRVNKKRIK----PEYKLEAGDEVRIPP 70 (317)
T ss_pred CEEECCEEcC----cccccCCCCEEEeCC
Confidence 4678999874 388999999999854
No 97
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=72.37 E-value=12 Score=19.68 Aligned_cols=55 Identities=5% Similarity=-0.019 Sum_probs=31.7
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCC-ccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ-LDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g-~~t~l~dgD~V~i~ 67 (73)
+++++..|+++|=+.+.+...-... ...++.||+......- .+..+++|+.|.++
T Consensus 12 ~~~~~~~ti~~lK~~i~~~~~~~~~-----------~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~ 67 (69)
T cd01769 12 LEVSPDDTVAELKAKIAAKEGVPPE-----------QQRLIYAGKILKDDKTLSDYGIQDGSTLHLV 67 (69)
T ss_pred EEECCCChHHHHHHHHHHHHCcChH-----------HEEEEECCcCCCCcCCHHHCCCCCCCEEEEE
Confidence 4677889999999999887741111 1122334433221110 13467888888765
No 98
>PRK12576 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=71.19 E-value=9.3 Score=27.18 Aligned_cols=47 Identities=6% Similarity=-0.146 Sum_probs=30.1
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCcccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWE 49 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~ 49 (73)
++++++.||-|+|..+..++ |.+.-+. .-.-..-..=.|.|||+...
T Consensus 29 v~~~~~~tvLd~L~~i~~~~d~tl~~~~-~C~~G~CgsC~v~ING~~~l 76 (279)
T PRK12576 29 VKVDRFTQVTEALRRIKEEQDPTLSYRA-SCHMAVCGSCGMKINGEPRL 76 (279)
T ss_pred EecCCCCHHHHHHHHhCCccCCCceecC-CCCCCCCCCCEEEECCcEec
Confidence 56789999999999998765 5443221 11112222345888998754
No 99
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=71.14 E-value=1.8 Score=22.33 Aligned_cols=26 Identities=12% Similarity=-0.044 Sum_probs=20.3
Q ss_pred cCccCcHHHHHHHHHHhcCccccccc
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMF 29 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~ 29 (73)
.=+-..++.+|..++++||++...+.
T Consensus 9 ~Ld~~qL~~lL~~l~~~HPei~~~i~ 34 (38)
T PF14483_consen 9 TLDKDQLQSLLQSLCERHPEIQQEIR 34 (38)
T ss_dssp TS-HHHHHHHHHHHHHHSTHHHHHHH
T ss_pred HcCHHHHHHHHHHHHHhChhHHHHHH
Confidence 33456789999999999999877664
No 100
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=71.14 E-value=9.7 Score=21.07 Aligned_cols=55 Identities=11% Similarity=0.168 Sum_probs=33.6
Q ss_pred cccCccCcHHHHHHHHHHhcCc--ccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIK--ERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~--~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+++.+..||+++-+.+++...- .+-++.. +|+ ++-+++.+ .++-+++|+.|.+..
T Consensus 14 l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~-~Gk------~L~d~~tL-----~~~~i~~~stl~l~~ 70 (71)
T cd01808 14 IEIAEDASVKDFKEAVSKKFKANQEQLVLIF-AGK------ILKDTDTL-----TQHNIKDGLTVHLVI 70 (71)
T ss_pred EEECCCChHHHHHHHHHHHhCCCHHHEEEEE-CCe------EcCCCCcH-----HHcCCCCCCEEEEEE
Confidence 5677889999999999988731 1112211 222 22233222 256789999988765
No 101
>PLN00129 succinate dehydrogenase [ubiquinone] iron-sulfur subunit
Probab=70.85 E-value=15 Score=26.39 Aligned_cols=59 Identities=5% Similarity=-0.058 Sum_probs=36.9
Q ss_pred ccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccccCCccCccCCC--CEEEEEe
Q 035093 6 FQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEK--DVVVFIS 68 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dg--D~V~i~P 68 (73)
++.||-|+|.++.++. |.+.-+ +.-...+-..=-++|||+..-.= .|.|++. ++|.|=|
T Consensus 71 ~~~tVLd~L~~Ik~~~D~sLsfr-~sCr~giCGsCam~ING~p~LAC---~t~v~~~~~~~i~ieP 132 (276)
T PLN00129 71 CGPMVLDVLIKIKNEQDPSLTFR-RSCREGICGSCAMNIDGKNTLAC---LTKIDRDESGPTTITP 132 (276)
T ss_pred CCchHHHHHHHHHHcCCCCeEEe-ccCCCCCCCCCeeEECCcccccc---cccHhhcCCCcEEEEE
Confidence 3799999999999765 444322 22333455667799999986432 4555543 3565544
No 102
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=70.02 E-value=16 Score=24.44 Aligned_cols=25 Identities=24% Similarity=0.191 Sum_probs=21.3
Q ss_pred cccCccCcHHHHHHHHHHhcCcccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERP 26 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~ 26 (73)
+.+|..+||.+|.+.|.+.+|....
T Consensus 19 ~~lp~~ttv~dL~~~l~~~~~~~~~ 43 (162)
T PF13019_consen 19 LSLPSTTTVSDLKDRLSERLPIPSS 43 (162)
T ss_pred eeCCCCCcHHHHHHHHHhhcCCCcc
Confidence 5678899999999999999986543
No 103
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=69.89 E-value=19 Score=20.88 Aligned_cols=58 Identities=16% Similarity=0.085 Sum_probs=35.3
Q ss_pred ccCccCcHHHHHHHHHHhcC--cccccc--cccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 3 SLTFQLIMKDLLSWVGTNLI--KERPEM--FMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~--~~~~~l--~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.+|...||.+|=+.|..... .-..+| ++.+ ...+..+-|+.. .|+ .+.+++|.+|.+.
T Consensus 18 r~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~---~~~~~~l~~d~~--~L~--~y~~~dg~~IhVv 79 (84)
T cd01789 18 KYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD---DKLVSKLDDDDA--LLG--SYPVDDGCRIHVI 79 (84)
T ss_pred ecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC---CCeEeecCCCcc--Eee--eccCCCCCEEEEE
Confidence 37889999999999987762 222233 4433 222333333332 343 5689999999875
No 104
>PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A2 (retropepsin family, clan AA), subfamily A2A. The family includes the single domain aspartic proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). Retroviral aspartyl protease is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins.; PDB: 3D3T_B 3SQF_A 1NSO_A 2HB3_A 2HS2_A 2HS1_B 3K4V_A 3GGV_C 1HTG_B 2FDE_A ....
Probab=69.50 E-value=2.4 Score=24.68 Aligned_cols=28 Identities=29% Similarity=0.262 Sum_probs=20.8
Q ss_pred ccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 35 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
=||.+.|.+||+.++.| |--|..++++|
T Consensus 4 ~rp~i~v~i~g~~i~~L------lDTGA~vsiI~ 31 (100)
T PF00077_consen 4 NRPYITVKINGKKIKAL------LDTGADVSIIS 31 (100)
T ss_dssp SSSEEEEEETTEEEEEE------EETTBSSEEES
T ss_pred CCceEEEeECCEEEEEE------EecCCCcceec
Confidence 37899999999998776 44455666655
No 105
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=69.30 E-value=5.1 Score=23.15 Aligned_cols=26 Identities=27% Similarity=0.369 Sum_probs=19.7
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
++.+.|||+.++++ +-.|..+.+++.
T Consensus 2 ~~~~~Ing~~i~~l------vDTGA~~svis~ 27 (91)
T cd05484 2 TVTLLVNGKPLKFQ------LDTGSAITVISE 27 (91)
T ss_pred EEEEEECCEEEEEE------EcCCcceEEeCH
Confidence 57899999999876 556777777653
No 106
>PTZ00062 glutaredoxin; Provisional
Probab=69.15 E-value=6.7 Score=26.83 Aligned_cols=52 Identities=8% Similarity=-0.192 Sum_probs=38.1
Q ss_pred CccCcHHHHHHHHHHhcCcccccccccCCcc--cCceEEEEcCccccccCCccC
Q 035093 5 TFQLIMKDLLSWVGTNLIKERPEMFMKGDSV--RPGVLVLVNDCDWELSGQLDT 56 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~l--r~~v~ilvNg~~i~~l~g~~t 56 (73)
|+...+.+++..|++.||..+---.+.+-.+ -|.+.++-||+-+..+.|.+.
T Consensus 30 ~~C~~m~~vl~~l~~~~~~~~F~~V~~d~~V~~vPtfv~~~~g~~i~r~~G~~~ 83 (204)
T PTZ00062 30 PEYEQLMDVCNALVEDFPSLEFYVVNLADANNEYGVFEFYQNSQLINSLEGCNT 83 (204)
T ss_pred cchHHHHHHHHHHHHHCCCcEEEEEccccCcccceEEEEEECCEEEeeeeCCCH
Confidence 4556789999999999998753333333333 378889999999998888653
No 107
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=68.42 E-value=6.3 Score=22.32 Aligned_cols=26 Identities=19% Similarity=0.073 Sum_probs=20.1
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEE
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
-++||++.+.. +...+|++||.|.|-
T Consensus 67 g~~vn~~~~~~--~~~~~l~~gd~i~ig 92 (102)
T cd00060 67 GTFVNGQRVSP--GEPVRLRDGDVIRLG 92 (102)
T ss_pred CeEECCEECCC--CCcEECCCCCEEEEC
Confidence 46779988764 346899999999885
No 108
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=67.85 E-value=5.2 Score=22.82 Aligned_cols=21 Identities=14% Similarity=0.077 Sum_probs=17.3
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.+-+|.|++|+|..+++++.
T Consensus 15 V~vrpg~ti~d~L~~~~~kr~ 35 (71)
T PF02196_consen 15 VQVRPGMTIRDALSKACKKRG 35 (71)
T ss_dssp EEE-TTSBHHHHHHHHHHTTT
T ss_pred EEEcCCCCHHHHHHHHHHHcC
Confidence 456789999999999999883
No 109
>PRK12386 fumarate reductase iron-sulfur subunit; Provisional
Probab=67.18 E-value=10 Score=26.72 Aligned_cols=48 Identities=4% Similarity=-0.064 Sum_probs=31.8
Q ss_pred cccCccCcHHHHHHHHHHhc-CcccccccccCCcccCceEEEEcCccccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWEL 50 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~-~~~~~~l~~~~g~lr~~v~ilvNg~~i~~ 50 (73)
+++.++.||-++|.++..+. |.+.-+ +.-...+-..=.+.|||+....
T Consensus 24 v~~~~~~tvLd~L~~i~~~~d~~l~~r-~~C~~g~CGsCa~~InG~p~la 72 (251)
T PRK12386 24 VEVNEGEVVLDVIHRLQATQAPDLAVR-WNCKAGKCGSCSAEINGRPRLM 72 (251)
T ss_pred EeCCCCCCHHHHHHHhccccCCCCccc-CCCCCCcCCCCEEEECccEecc
Confidence 56778999999999977543 333322 2333345556679999998643
No 110
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=66.95 E-value=8.1 Score=23.97 Aligned_cols=51 Identities=16% Similarity=0.177 Sum_probs=32.4
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCc-cCccCCCCEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL-DTTLEEKDVVV 65 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~-~t~l~dgD~V~ 65 (73)
+.--.|.+-|+++.+++..+.. ....+++||.+|+.-+-- |--.+++|+|-
T Consensus 41 iKktT~f~klm~af~~rqGK~m-----------~slRfL~dG~rI~~dqTP~dldmEdnd~iE 92 (103)
T COG5227 41 IKKTTTFKKLMDAFSRRQGKNM-----------SSLRFLFDGKRIDLDQTPGDLDMEDNDEIE 92 (103)
T ss_pred EeccchHHHHHHHHHHHhCcCc-----------ceeEEEEcceecCCCCChhhcCCccchHHH
Confidence 3445678888888888765422 245689999999864311 11356777653
No 111
>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.
Probab=66.60 E-value=2.4 Score=25.57 Aligned_cols=16 Identities=19% Similarity=0.360 Sum_probs=10.9
Q ss_pred cCCccCccCCCCEEEE
Q 035093 51 SGQLDTTLEEKDVVVF 66 (73)
Q Consensus 51 l~g~~t~l~dgD~V~i 66 (73)
+.|.++.++|||.|.|
T Consensus 66 ~eGK~YivqDGDIi~f 81 (84)
T PF06071_consen 66 LEGKDYIVQDGDIIHF 81 (84)
T ss_dssp EEETT-B--TTEEEEE
T ss_pred ccCCceeEeCCCEEEE
Confidence 4788999999999876
No 112
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=66.51 E-value=14 Score=28.83 Aligned_cols=50 Identities=22% Similarity=0.295 Sum_probs=37.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.+++.|+|+.++++.+...++ ++-|...|||+-++ +++++.++.+|.|+-
T Consensus 16 ~~~~~g~t~~~ia~~~~~~~~-------------~~iv~a~vn~~l~d----L~~~i~~d~~i~fv~ 65 (639)
T PRK12444 16 KEFVKGITLEEIAGSISSSLK-------------KKAVAGKVNDKLYD----LRRNLEEDAEVEIIT 65 (639)
T ss_pred EEecCCCCHHHHHHHhhhhcc-------------hheEEEEECCEEEE----cCcccCCCCeEEEec
Confidence 356788999999887765332 23578899997543 689999999998874
No 113
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=66.45 E-value=15 Score=25.25 Aligned_cols=56 Identities=21% Similarity=0.290 Sum_probs=30.3
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEE-E--cCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVL-V--NDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~il-v--Ng~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
++++++.|+.++|..-.. +.. .+. ...+.|+ . ||+-......+...|++||.|.+-
T Consensus 177 ~~~~~~~tl~~al~~aGG----~~~-----~a~-~~~v~i~R~~~~g~~~~~~~~~~~~l~~gDii~V~ 235 (239)
T TIGR03028 177 YRLERNMTVMQALAQGGG----LTP-----RGT-ERGIRVMRRDDKGAVEEVSGELGDLVQPDDVIYVR 235 (239)
T ss_pred EEeCCCCCHHHHHHhcCC----CCc-----ccC-cceEEEEEECCCCcEEEEecCCCcccCCCCEEEEe
Confidence 456778999888875443 221 122 1223332 1 233222233345679999998763
No 114
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=65.03 E-value=7 Score=21.83 Aligned_cols=28 Identities=25% Similarity=0.228 Sum_probs=20.9
Q ss_pred cccCccCcHHHHHHHHHHhcCccccccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMF 29 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~ 29 (73)
+++...+|++++++.++++..=...+.|
T Consensus 11 ~~v~~~~t~~~l~~~v~~~l~l~e~~~F 38 (80)
T PF09379_consen 11 FEVDPKTTGQDLLEQVCDKLGLKEKEYF 38 (80)
T ss_dssp EEEETTSBHHHHHHHHHHHHTTSSGGGE
T ss_pred EEEcCCCcHHHHHHHHHHHcCCCCccEE
Confidence 5677889999999999998832233444
No 115
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=64.91 E-value=5.6 Score=27.69 Aligned_cols=20 Identities=30% Similarity=0.408 Sum_probs=16.6
Q ss_pred ccCCccCccCCCCEEEEEec
Q 035093 50 LSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i~Pp 69 (73)
+++|+...|.+||.+++|+-
T Consensus 39 yiggl~~~LtEgDil~VFSq 58 (219)
T KOG0126|consen 39 YIGGLPYELTEGDILCVFSQ 58 (219)
T ss_pred EECCCcccccCCcEEEEeec
Confidence 34667888999999999984
No 116
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type. This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4.
Probab=64.37 E-value=8 Score=26.28 Aligned_cols=26 Identities=15% Similarity=0.245 Sum_probs=20.2
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.|.|||+-+.. ..+.|+.||+|.+-.
T Consensus 116 ~V~VNgk~v~~---ps~~V~~GD~I~V~~ 141 (200)
T TIGR01017 116 HILVNGKKVDI---PSYQVRPGDIISIKE 141 (200)
T ss_pred CEEECCEEeCC---CCCCCCCCCEEEEee
Confidence 38889988753 367899999998753
No 117
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=63.89 E-value=22 Score=20.11 Aligned_cols=51 Identities=12% Similarity=0.110 Sum_probs=30.0
Q ss_pred CccCcHHHHHHHHHHhcCc---ccccccc-cCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 5 TFQLIMKDLLSWVGTNLIK---ERPEMFM-KGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~~---~~~~l~~-~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
++.+||.||-+.+.+.++. .+.++.. ..|. ++.+.+.+. ++-+++|++|.+
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~------~L~d~~tL~-----~~gv~~g~~lyv 74 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGK------SLKDDDTLV-----DLGVGAGATLYV 74 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCc------ccCCcccHh-----hcCCCCCCEEEE
Confidence 5678999999999987643 3434442 2222 333443322 445678877654
No 118
>CHL00113 rps4 ribosomal protein S4; Reviewed
Probab=63.54 E-value=8 Score=26.53 Aligned_cols=59 Identities=14% Similarity=0.000 Sum_probs=34.6
Q ss_pred cCcHHHHHHHHHHhcCccc-ccccccC-Cc---ccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 7 QLIMKDLLSWVGTNLIKER-PEMFMKG-DS---VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~-~~l~~~~-g~---lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
|.|-..||..|..+...+- +..|... -. +-.+=.|.|||+-+.. ..+.++.||+|.+-.
T Consensus 77 g~tg~~ll~~LE~RLD~~L~r~g~~~SR~~ArqlI~~G~V~VNGk~v~~---ps~~Vk~GD~I~V~~ 140 (201)
T CHL00113 77 GSTGQVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDI---PSYRCKPKDIITVKD 140 (201)
T ss_pred CcHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHCCcEEECCEEecC---ccccCCCCCEEEEcc
Confidence 5666667777665553321 2222211 11 1123348899998753 368899999998753
No 119
>PF01802 Herpes_V23: Herpesvirus VP23 like capsid protein; InterPro: IPR002690 This family consist of various capsid proteins from members of the Herpesviridae. The capsid protein VP23 in Human herpesvirus 1 (HHV-1) (Human herpes simplex virus 1) forms a triplex together with VP19C these fit between and link together adjacent capsomers as formed by VP5 and VP26 []. VP3 along with the scaffolding proteins helps to form normal capsids by defining the curvature of the shell and size of the particle [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=63.00 E-value=6.2 Score=28.72 Aligned_cols=59 Identities=14% Similarity=0.093 Sum_probs=32.9
Q ss_pred HHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecCCCC
Q 035093 11 KDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 11 ~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
-.+..++.+++|..-.++- .+++.- ..+-.|+.....+----.+..||.++++||+-|+
T Consensus 56 ~~l~~~lr~~t~aIl~~V~--p~~l~l--~~l~~g~~y~ikNTgPf~w~ngd~l~liPPvf~~ 114 (296)
T PF01802_consen 56 LSLLSALRRRTLAILRRVE--PNQLIL--TVLDHGQGYQIKNTGPFDWCNGDQLCLIPPVFGR 114 (296)
T ss_pred HHHHHHHHhhhHHHHhhhc--CCeEEE--EecCCCCceEEeecCCeeccCCCEEEEeCCCCCC
Confidence 3567777777776655542 222211 1122332222111111468999999999999874
No 120
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=62.85 E-value=6.7 Score=27.04 Aligned_cols=27 Identities=15% Similarity=0.084 Sum_probs=21.5
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
.+=.|.|||+.|.. -.+.|+.||+|.|
T Consensus 117 ~HGHI~VnGk~V~i---PSy~V~~gdei~V 143 (205)
T COG0522 117 SHGHILVNGKRVNI---PSYLVSPGDEISV 143 (205)
T ss_pred hcceEEECCEEecc---CcEEecCCCEEEe
Confidence 35568999999865 3578999999986
No 121
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=62.63 E-value=25 Score=19.56 Aligned_cols=52 Identities=12% Similarity=0.126 Sum_probs=31.7
Q ss_pred cccCccCcHHHHHHHHHHhcC--cccccccccCCcccCceEEEEcCccccccC--CccCccCCCCEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSG--QLDTTLEEKDVVVF 66 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~--~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~--g~~t~l~dgD~V~i 66 (73)
+++.+..||+++-+.+.++.. ....+ +.-+|+..+.-. =.++-+++||.|.+
T Consensus 14 l~v~~~~TV~~lK~~I~~~~gip~~~q~-------------Li~~Gk~L~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 14 LDVDPDLELENFKALCEAESGIPASQQQ-------------LIYNGRELVDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred EEECCcCCHHHHHHHHHHHhCCCHHHeE-------------EEECCeEccCCcccHHHcCCCCCCEEEE
Confidence 567788999999999988762 22212 223444332110 02567889988875
No 122
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=62.46 E-value=9.7 Score=23.67 Aligned_cols=23 Identities=17% Similarity=0.146 Sum_probs=19.2
Q ss_pred EEEcCccccccCCccCccCCCCEEEEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
|-+||..+. -.+.++.||+|.|.
T Consensus 36 V~vNG~~aK----pS~~VK~GD~l~i~ 58 (100)
T COG1188 36 VKVNGQRAK----PSKEVKVGDILTIR 58 (100)
T ss_pred EEECCEEcc----cccccCCCCEEEEE
Confidence 778999884 46889999999874
No 123
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=62.46 E-value=21 Score=20.46 Aligned_cols=35 Identities=17% Similarity=0.115 Sum_probs=25.1
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVN 44 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvN 44 (73)
+.++..+|.+|+++.+.+++-- . + ..+.+.++.+-
T Consensus 20 i~v~~~tTa~~Vi~~~l~k~~l-~-----~--~~~~y~L~e~~ 54 (90)
T smart00314 20 LRVSSRTTARDVIQQLLEKFHL-T-----D--DPEEYVLVEVL 54 (90)
T ss_pred EEECCCCCHHHHHHHHHHHhCC-C-----C--CcccEEEEEEe
Confidence 4577899999999999998831 1 1 14557777665
No 124
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=62.28 E-value=11 Score=28.14 Aligned_cols=54 Identities=17% Similarity=0.283 Sum_probs=33.1
Q ss_pred cccCccCcHHHHHHHHHHh-----cCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTN-----LIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~-----~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++....||.+|-+.|.+. +|..+-+|... |+ +|-+++.+. ++.|+++|.|.++
T Consensus 15 IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~-Gk------iL~Dd~tL~-----dy~I~e~~~Ivvm 73 (378)
T TIGR00601 15 IDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYS-GK------ILSDDKTVR-----EYKIKEKDFVVVM 73 (378)
T ss_pred EEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEEC-CE------ECCCCCcHH-----HcCCCCCCEEEEE
Confidence 5677889999999999886 33333333322 22 333443332 4667888877765
No 125
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=61.96 E-value=5.4 Score=23.77 Aligned_cols=20 Identities=10% Similarity=0.212 Sum_probs=17.5
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+++++..|++++++.|+++.
T Consensus 1 i~v~~~~TL~~lid~L~~~~ 20 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKP 20 (84)
T ss_dssp EEESTTSBSHHHHHHHHHST
T ss_pred CCcCccchHHHHHHHHHhCh
Confidence 46788999999999999963
No 126
>PRK05327 rpsD 30S ribosomal protein S4; Validated
Probab=61.92 E-value=9.3 Score=26.03 Aligned_cols=26 Identities=19% Similarity=0.207 Sum_probs=20.6
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.|+|||+-+.. ..+.|+.||.|.+-.
T Consensus 119 ~V~VNgk~v~~---ps~~v~~GD~I~v~~ 144 (203)
T PRK05327 119 HILVNGKKVNI---PSYRVKPGDVIEVRE 144 (203)
T ss_pred cEEECCEEECC---CCcCCCCCCEEEECC
Confidence 58899987642 367899999999865
No 127
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=61.12 E-value=4.9 Score=24.20 Aligned_cols=17 Identities=18% Similarity=0.393 Sum_probs=14.4
Q ss_pred ccCCccCccCCCCEEEE
Q 035093 50 LSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i 66 (73)
.+.|.++.++|||.+.|
T Consensus 65 r~eGK~Yiv~DGDi~~f 81 (83)
T cd04867 65 RQEGKDYVVQDGDIIFF 81 (83)
T ss_pred hhhCCceEeeCCeEEEE
Confidence 45788999999999876
No 128
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=60.94 E-value=25 Score=19.92 Aligned_cols=55 Identities=13% Similarity=0.212 Sum_probs=33.0
Q ss_pred cccCccCcHHHHHHHHHHhc--Cccccccc-ccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMF-MKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~-~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++.+..||.+|=+.+.+.. |..+.+|. ..+|+ ++-+++. | .++-+++|+.|.++
T Consensus 17 ~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~------~L~D~~t---L--~~~gi~~gs~l~l~ 74 (80)
T cd01792 17 VSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSRE------VLQDGVP---L--VSQGLGPGSTVLLV 74 (80)
T ss_pred EEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCC------CCCCCCC---H--HHcCCCCCCEEEEE
Confidence 46678899999999998876 33333441 11332 1222222 2 25678899988765
No 129
>PF01957 NfeD: NfeD-like C-terminal, partner-binding; InterPro: IPR002810 The nfe genes (nfeA, nfeB, and nfeD) are involved in the nodulation efficiency and competitiveness of Rhizobium meliloti (Sinorhizobium meliloti) (Rhizobium meliloti) on alfalfa roots []. The specific function of this family is unknown although it is unlikely that NfeD is specifically involved in nodulation as the family contains several different archaeal and bacterial species most of which are not symbionts. This entry describes archaeal and bacterial proteins which are variously described, examples are: nodulation protein, nodulation efficiency protein D (nfeD), hypothetical protein and membrane-bound serine protease (ClpP class). A number of these proteins are classified in MEROPS peptidase family S49 as non-peptidase homologues or as unassigned peptidases. ; PDB: 2K5H_A 3CP0_A 2EXD_A.
Probab=60.64 E-value=12 Score=22.87 Aligned_cols=32 Identities=16% Similarity=0.243 Sum_probs=22.3
Q ss_pred ccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 35 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.++.=.|.++|..|+.....+ ++.||.|.+.-
T Consensus 101 ~~~~G~V~~~G~~w~A~s~~~--i~~G~~V~Vv~ 132 (144)
T PF01957_consen 101 LNGSGRVKVDGERWRARSEDE--IPKGDRVRVVG 132 (144)
T ss_dssp SSS-EEEEETTEEEEEEESST--B-TT-EEEEEE
T ss_pred cCCcEEEEECCeEEEEEeCCC--CCCCCEEEEEE
Confidence 345666889999999875444 99999998864
No 130
>PHA03259 Capsid triplex subunit 2; Provisional
Probab=59.82 E-value=7.3 Score=28.54 Aligned_cols=58 Identities=14% Similarity=0.168 Sum_probs=31.3
Q ss_pred HHHHHHHHHhcCcccccccccCCcccCceEEEEcCcc-ccccCCccCccCCCCEEEEEecCCCC
Q 035093 11 KDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCD-WELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 11 ~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~-i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
-.+..++.+++|..-.++- .+++.=++.. -++.. |+.-+ -=.+..||.++++||+-|+
T Consensus 56 l~l~~~lr~~tlaIl~~V~--p~~L~L~~~~-~~~~y~IkNTg--PF~w~nGD~L~liPPvf~~ 114 (302)
T PHA03259 56 ARIRTLLRNMTLTILRRVE--GNQLLLGVPT-HGHLYTIKNTG--PVLWEKGDTLTLLPPLFTG 114 (302)
T ss_pred HHHHHHHHHHhHHHHhhhc--CCeEEEeecC-CCceEEEEecc--ceeecCCCEEEEeCCcCCC
Confidence 3567777777776655542 2233211110 11111 22111 2257899999999999875
No 131
>PHA03258 Capsid triplex subunit 2; Provisional
Probab=59.19 E-value=7.8 Score=28.43 Aligned_cols=60 Identities=10% Similarity=0.003 Sum_probs=30.9
Q ss_pred HHHHHHHHHhcCcccccccccCCcccCceEEEEcCcc-ccccCCccCccCCCCEEEEEecCCCC
Q 035093 11 KDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCD-WELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 11 ~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~-i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
-.+..++.+++|..-.++- .+++.-..+- -+|.. |+.-+.--=.+..||.++++||+-|+
T Consensus 60 l~l~~~lr~~tlaIl~~V~--p~~lil~~l~-~~~~y~IkNTg~P~F~w~nGD~L~liPPvf~~ 120 (304)
T PHA03258 60 VAMYNYLSKCTLAILEEVN--PDSLVLTRID-PGQTYQIKNKYQPFFQWDSHTQLSVIPPVFGR 120 (304)
T ss_pred HHHHHHHHHHHHHHHhhhc--CCeEEEEecC-CCceEEEEecCCCceeccCCCEEEEeCCcCCC
Confidence 3566777777776655542 2232111111 11111 22100001237899999999999775
No 132
>TIGR00495 crvDNA_42K 42K curved DNA binding protein. Proteins identified by this model have been identified in a number of species as a nuclear (but not nucleolar) protein with a cell cycle dependence. Various names given to members of this family have included cell cycle protein p38-2G4, DNA-binding protein GBP16, and proliferation-associated protein 1. This protein is closely related to methionine aminopeptidase, a cobolt-binding protein.
Probab=58.86 E-value=31 Score=25.70 Aligned_cols=63 Identities=22% Similarity=0.237 Sum_probs=33.6
Q ss_pred cCccCcHHHHHHHHHHhcCccccccccc----CCcccCceEEEEcCccccccC--C-ccCccCCCCEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMK----GDSVRPGVLVLVNDCDWELSG--Q-LDTTLEEKDVVVF 66 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~----~g~lr~~v~ilvNg~~i~~l~--g-~~t~l~dgD~V~i 66 (73)
+.+|.|..|+-+...+..-+.....|.. ...+.-..+|.+|..-.-+.. + .++.|++||.|.|
T Consensus 40 ikpG~t~~el~~~~~~~i~~~~a~~~~~~~~~~~g~afpt~vSvN~~v~H~~P~~~d~~~~Lk~GDvVkI 109 (389)
T TIGR00495 40 CSPGAKVVDICEKGDAFIMEETAKIFKKEKEMEKGIAFPTCISVNNCVGHFSPLKSDQDYILKEGDVVKI 109 (389)
T ss_pred CCCCCCHHHHHHHHHHHHHHhhhhhhcccccccCCCCCCeEEecCCeeeCCCCCCCCCCcCcCCCCEEEE
Confidence 3468888887664332221111112221 112323366778866654443 2 2478999999876
No 133
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=58.79 E-value=22 Score=20.35 Aligned_cols=54 Identities=13% Similarity=0.099 Sum_probs=32.0
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccC-CCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLE-EKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~-dgD~V~i~ 67 (73)
+++.+..||.++=+.+.++. |....+||. |+- +-++. +.| .+..++ +||.+.++
T Consensus 17 l~v~~~~TV~~lK~kI~~~~gip~~~QrL~~--G~~------L~dD~--~tL--~~ygi~~~g~~~~l~ 73 (75)
T cd01799 17 LTVRPDMTVAQLKDKVFLDYGFPPAVQRWVI--GQR------LARDQ--ETL--YSHGIRTNGDSAFLY 73 (75)
T ss_pred EEECCCCcHHHHHHHHHHHHCcCHHHEEEEc--CCe------eCCCc--CCH--HHcCCCCCCCEEEEE
Confidence 57788899999999888776 333334443 211 21121 112 145676 88888875
No 134
>PF02080 TrkA_C: TrkA-C domain; InterPro: IPR006037 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the C-terminal subdomain of RCK.; GO: 0008324 cation transmembrane transporter activity, 0006813 potassium ion transport; PDB: 2BKP_A 1VCT_A 2BKO_A 2BKN_A 3L4B_C 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A ....
Probab=57.54 E-value=10 Score=20.51 Aligned_cols=19 Identities=21% Similarity=0.422 Sum_probs=12.1
Q ss_pred ccCCccCccCCCCEEEEEe
Q 035093 50 LSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i~P 68 (73)
.....+|.|++||.+.++-
T Consensus 40 ~~p~~~~~l~~gD~l~v~g 58 (71)
T PF02080_consen 40 IIPDGDTVLQAGDILIVVG 58 (71)
T ss_dssp ES--TT-BE-TTEEEEEEE
T ss_pred ECCCCCCEECCCCEEEEEE
Confidence 4444599999999998874
No 135
>PRK12575 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=56.53 E-value=30 Score=24.07 Aligned_cols=62 Identities=10% Similarity=-0.030 Sum_probs=37.0
Q ss_pred ccCc-cCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCC-CCEEEEEe
Q 035093 3 SLTF-QLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KDVVVFIS 68 (73)
Q Consensus 3 ~l~~-~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~d-gD~V~i~P 68 (73)
++.+ ..||-++|.++.+.-|.+.-+ ++-...+-..=-++|||+....= .|.+++ +++|.|=|
T Consensus 28 ~~~~~~~tvld~L~~ik~~d~~l~fr-~sCr~giCGsCa~~iNG~~~LaC---~t~~~~~~~~i~ieP 91 (235)
T PRK12575 28 APRAEDRMLLDVLGRVKAQDETLSYR-RSCREGICGSDAMNINGRNGLAC---LTNMQALPREIVLRP 91 (235)
T ss_pred cCCCCCCcHHHHHHHHHhcCCCeeee-ccCCCCCCCCCeeEECCeEcchh---hCcHhHcCCCEEEeE
Confidence 4444 579999999998544555322 12334455666799999976432 344442 24566554
No 136
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=56.15 E-value=11 Score=21.45 Aligned_cols=21 Identities=19% Similarity=0.140 Sum_probs=17.9
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.+|...+|++++..|.+.+.
T Consensus 17 l~lP~~vpv~~li~~l~~~~~ 37 (79)
T PF08817_consen 17 LALPADVPVAELIPELVELLG 37 (79)
T ss_dssp EEEETTSBTTHHHHHHHHHS-
T ss_pred EEcCCCCcHHHHHHHHHHHhC
Confidence 568899999999999999775
No 137
>cd03864 M14_CPN Peptidase M14 Carboxypeptidase N (CPN, also known as kininase I, creatine kinase conversion factor, plasma carboxypeptidase B, arginine carboxypeptidase, and protaminase; EC 3.4.17.3) is an extracellular glycoprotein synthesized in the liver and released into the blood, where it is present in high concentrations. CPN belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPN plays an important role in protecting the body from excessive buildup of potentially deleterious peptides that normally act as local autocrine or paracrine hormones. It specifically removes C-terminal basic residues. As CPN can cleave lysine more avidly than arginine residues it is also called lysine carboxypeptidase. CPN substrates inclu
Probab=56.05 E-value=27 Score=26.17 Aligned_cols=56 Identities=7% Similarity=0.033 Sum_probs=42.0
Q ss_pred cHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 9 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
.-..||..+.+-+...+..+.+.+|+.-++..|.|.|.+.. ..| =++|+-..++||
T Consensus 303 n~~all~~~~~~~~gI~G~V~D~~g~pi~~A~V~v~g~~~~----~~T-~~~G~y~r~l~p 358 (392)
T cd03864 303 NREALISYIEQVHQGIKGMVTDENNNGIANAVISVSGISHD----VTS-GTLGDYFRLLLP 358 (392)
T ss_pred HHHHHHHHHHHhcCeEEEEEECCCCCccCCeEEEEECCccc----eEE-CCCCcEEecCCC
Confidence 34578999999999999999998899889999999887642 122 256776555554
No 138
>PHA03257 Capsid triplex subunit 2; Provisional
Probab=56.04 E-value=9.4 Score=28.18 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=15.1
Q ss_pred ccCCCCEEEEEecCCCC
Q 035093 57 TLEEKDVVVFISTLHGG 73 (73)
Q Consensus 57 ~l~dgD~V~i~PpvaGG 73 (73)
.+..||.++++||+-|+
T Consensus 106 ~w~nGD~LcllPPvF~~ 122 (316)
T PHA03257 106 DLCNGDAVCLLPPIFGG 122 (316)
T ss_pred eecCCCEEEEeCCcCCC
Confidence 57899999999999874
No 139
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=55.76 E-value=8.4 Score=22.62 Aligned_cols=27 Identities=26% Similarity=0.187 Sum_probs=20.5
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-.|++|-.+...++ |++||.|.+..+-
T Consensus 30 ~~v~inp~dA~~~G-----i~~Gd~V~v~s~~ 56 (110)
T PF01568_consen 30 PFVEINPEDAAKLG-----IKDGDWVRVSSPR 56 (110)
T ss_dssp EEEEEEHHHHHHCT-------TTCEEEEEETT
T ss_pred CEEEEcHHHHHHhc-----CcCCCEEEEEecc
Confidence 36888999998766 9999999998753
No 140
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=55.32 E-value=41 Score=19.72 Aligned_cols=20 Identities=20% Similarity=0.097 Sum_probs=16.9
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+.+-+|.|++|+|..+.++.
T Consensus 14 V~vrpG~ti~d~L~kllekR 33 (73)
T cd01817 14 VPTRPGESIRDLLSGLCEKR 33 (73)
T ss_pred EEecCCCCHHHHHHHHHHHc
Confidence 45667999999999999876
No 141
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=55.22 E-value=39 Score=20.90 Aligned_cols=20 Identities=15% Similarity=0.330 Sum_probs=17.1
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+..|-++||.|++..|.+++
T Consensus 17 ls~~l~tTv~eli~~L~rK~ 36 (97)
T cd01775 17 LSCPLNTTVSELIPQLAKKF 36 (97)
T ss_pred EEcCCcCcHHHHHHHHHHhh
Confidence 45678899999999999876
No 142
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=54.99 E-value=47 Score=25.29 Aligned_cols=64 Identities=9% Similarity=0.088 Sum_probs=48.3
Q ss_pred cccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccC-ccCCCCEEEEEec
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT-TLEEKDVVVFIST 69 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t-~l~dgD~V~i~Pp 69 (73)
+-+|....|.|++..+.+...+ ++ .+.+.-..+...-.+|..++.-.-++. .+.|||.+.+-|.
T Consensus 16 laLPa~~PvaellP~ll~~~~~---~~-~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 16 VALPADVPVAELIPDLVDLLDD---RG-AAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred eecCCCCcHHHHHHHHHHHhCc---cc-ccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 3578899999999999985532 22 234456678888899988876655555 7999999999884
No 143
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=54.44 E-value=13 Score=22.51 Aligned_cols=16 Identities=25% Similarity=0.366 Sum_probs=13.1
Q ss_pred ccCCCCEEEEEecCCC
Q 035093 57 TLEEKDVVVFISTLHG 72 (73)
Q Consensus 57 ~l~dgD~V~i~PpvaG 72 (73)
.|+.||.|.++|.-.|
T Consensus 76 ~Lk~GD~V~ll~~~~g 91 (100)
T PF10844_consen 76 GLKVGDKVLLLRVQGG 91 (100)
T ss_pred CCcCCCEEEEEEecCC
Confidence 7999999999995433
No 144
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=54.26 E-value=15 Score=26.24 Aligned_cols=27 Identities=26% Similarity=0.073 Sum_probs=23.1
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.|.|||+-+. ..++|+.||.|.+-++.
T Consensus 38 ~v~vNg~~v~----~~~~l~~gd~i~~~~~~ 64 (289)
T COG0564 38 RVRVNGKKVK----PSYKLKPGDVVRIPLPE 64 (289)
T ss_pred CEEECCEEcc----CCeeeCCCCEEEEeccc
Confidence 6899999986 47899999999998764
No 145
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=54.23 E-value=11 Score=20.50 Aligned_cols=21 Identities=0% Similarity=-0.034 Sum_probs=15.2
Q ss_pred ccCcHHHHHHHHHHhcCcccc
Q 035093 6 FQLIMKDLLSWVGTNLIKERP 26 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~ 26 (73)
.+.|+.++++.|+++|+...+
T Consensus 28 g~~t~~ei~~~l~~~y~~~~~ 48 (68)
T PF05402_consen 28 GPRTVEEIVDALAEEYDVDPE 48 (68)
T ss_dssp SSS-HHHHHHHHHHHTT--HH
T ss_pred CCCCHHHHHHHHHHHcCCCHH
Confidence 468999999999999965443
No 146
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=54.00 E-value=15 Score=24.87 Aligned_cols=25 Identities=16% Similarity=-0.057 Sum_probs=19.4
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEE
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.|+|||+.+. -.++.++.||.|.+.
T Consensus 26 ~V~VNg~~~~---~~~~~l~~gd~I~l~ 50 (232)
T PRK10839 26 RVTVDGEIVK---NGAFKLLPEHDVAYD 50 (232)
T ss_pred eEEECCEEec---cCCcCcCCCCEEEEC
Confidence 5788998764 236889999999874
No 147
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=52.71 E-value=16 Score=27.30 Aligned_cols=28 Identities=21% Similarity=0.177 Sum_probs=18.9
Q ss_pred EEEcCccccccCCccCccCCCCEEEEEe
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
++|||-..+...|...+|++||+|.|=+
T Consensus 69 T~VN~sg~~l~~~~~~~L~~GD~I~iG~ 96 (396)
T TIGR03354 69 VFLNGSGSPLGRGNPVRLEQGDRLRLGD 96 (396)
T ss_pred eEECCCCCCCCCCCceEcCCCCEEEECC
Confidence 5778333333356678999999998743
No 148
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=52.60 E-value=21 Score=22.76 Aligned_cols=35 Identities=14% Similarity=0.301 Sum_probs=24.7
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccc
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDW 48 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i 48 (73)
+|+..||++++..+..+. .+..+ .-+.++||+...
T Consensus 51 VP~dltvgqfi~iIRkRi-qL~~~---------kA~flfVn~~~p 85 (116)
T KOG1654|consen 51 VPDDLTVGQFIKIIRKRI-QLSPE---------KAFFLFVNNTSP 85 (116)
T ss_pred ccccccHHHHHHHHHHHh-ccChh---------HeEEEEEcCcCC
Confidence 688999999999999876 22211 134588888654
No 149
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=52.19 E-value=16 Score=20.70 Aligned_cols=21 Identities=10% Similarity=0.064 Sum_probs=16.3
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.++++.|+.|+|+.-|+++.
T Consensus 11 vkvtp~~~l~~VL~eac~k~~ 31 (65)
T PF11470_consen 11 VKVTPNTTLNQVLEEACKKFG 31 (65)
T ss_dssp E---TTSBHHHHHHHHHHHTT
T ss_pred EEECCCCCHHHHHHHHHHHcC
Confidence 567889999999999999884
No 150
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=52.04 E-value=27 Score=19.59 Aligned_cols=21 Identities=0% Similarity=0.067 Sum_probs=18.0
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.++..+|.+|+++.+.+++.
T Consensus 21 i~v~~~tTa~evi~~~l~k~~ 41 (93)
T PF00788_consen 21 IKVSSSTTAREVIEMALEKFG 41 (93)
T ss_dssp EEEETTSBHHHHHHHHHHHTT
T ss_pred EEECCCCCHHHHHHHHHHHhC
Confidence 456788999999999999884
No 151
>PF07385 DUF1498: Protein of unknown function (DUF1498); InterPro: IPR010864 This family consists of several hypothetical bacterial proteins of around 225 residues in length. The function of this family is unknown.; PDB: 3MPB_B 3KMH_A.
Probab=51.44 E-value=17 Score=25.61 Aligned_cols=39 Identities=10% Similarity=0.150 Sum_probs=27.4
Q ss_pred CCcc--cCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 32 GDSV--RPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 32 ~g~l--r~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+|++ ...|.|.++|+...+--|..-.|++|..|+|.|-+
T Consensus 130 ~~~~~~~~~v~V~~DG~~~t~~aG~~l~L~PGESiTL~Pg~ 170 (225)
T PF07385_consen 130 DGELDADTDVTVPVDGIRRTVPAGTQLRLNPGESITLPPGI 170 (225)
T ss_dssp TTSSB-SS-EEEEETTEEEEE-TT-EEEE-TT-EEEE-TTE
T ss_pred CCccccCCCeEEecCCcEEEecCCceEEeCCCCeEeeCCCC
Confidence 3454 46899999999998888988899999999999853
No 152
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=51.39 E-value=11 Score=23.80 Aligned_cols=21 Identities=5% Similarity=0.268 Sum_probs=15.6
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+++....|++++++++.++|.
T Consensus 37 ~~v~~~~Tl~~li~~~~~~~~ 57 (125)
T PF09358_consen 37 IEVNGDMTLQELIDYFKEKYG 57 (125)
T ss_dssp EEEES--BHHHHHHHHHHTTS
T ss_pred EEEcCCCCHHHHHHHHHHHhC
Confidence 345556899999999999984
No 153
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=50.95 E-value=8.3 Score=23.36 Aligned_cols=28 Identities=18% Similarity=0.198 Sum_probs=20.6
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEE
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.|+.||+.+..-+-.+--+..||.|+||
T Consensus 12 ~Vly~g~k~~i~d~~~~~v~Hge~Vsff 39 (85)
T PF09014_consen 12 RVLYNGEKVWIQDLFKNGVLHGEIVSFF 39 (85)
T ss_dssp EEEETTEEEEHHHHTTT-BETT-EEEEE
T ss_pred EEEECCEEechhhcccCceeeCCEEEEE
Confidence 4778999887656566678999999997
No 154
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=50.72 E-value=18 Score=25.28 Aligned_cols=25 Identities=16% Similarity=0.051 Sum_probs=18.8
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEE
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.|.|||+.+. ..++.|+.||+|.+.
T Consensus 32 ~V~VNg~~~~---~~~~~v~~gd~I~i~ 56 (299)
T TIGR00005 32 QVKVNGKVTA---NPKLKVKDGDRITVR 56 (299)
T ss_pred cEEECCEecc---CcccCCCCCCEEEEe
Confidence 4788995442 247899999999984
No 155
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=50.05 E-value=21 Score=26.78 Aligned_cols=56 Identities=11% Similarity=0.079 Sum_probs=45.4
Q ss_pred HHHHHHHHHhcCcccccccccCCc--------ccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 11 KDLLSWVGTNLIKERPEMFMKGDS--------VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 11 ~~ll~~L~~~~~~~~~~l~~~~g~--------lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
.+.++.+.++.-.++.-+-+.-|+ ||.....|-|=|...+++|.+|+-.+=|.|.|
T Consensus 86 ~~~~esl~~nkvgLkGp~~tPi~kgh~S~nl~LRK~f~LyANVRPc~SieG~Kt~Y~~vD~V~I 149 (365)
T KOG0785|consen 86 DEAVESLRKNKVGLKGPVATPIGKGHRSLNLALRKEFGLYANVRPCKSIEGYKTPYDDVDLVII 149 (365)
T ss_pred HHHHHHHHhhcccccCcccCccccccccHHHHHHHHhchhccceecccccCCcCCCCCceEEEE
Confidence 356777777776777666555554 78888899999999999999999999999876
No 156
>COG0146 HyuB N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=50.00 E-value=25 Score=27.88 Aligned_cols=38 Identities=32% Similarity=0.300 Sum_probs=26.2
Q ss_pred ccCceEEEEcCccccccCCccC-ccCCCCEEEEEecCCCC
Q 035093 35 VRPGVLVLVNDCDWELSGQLDT-TLEEKDVVVFISTLHGG 73 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~l~g~~t-~l~dgD~V~i~PpvaGG 73 (73)
.-..+.+--+|+ ...+.+.+| +|+.||.+.|-.|=+||
T Consensus 480 ~g~~~v~~~~g~-~~~l~~~~t~~l~~GD~~~i~tpGGGG 518 (563)
T COG0146 480 PGENVVARKDGD-VERLGSKDTTELEPGDVVIIETPGGGG 518 (563)
T ss_pred CcceEEEeCCCC-eEecCceeeeEcCCCCEEEEECCCCCc
Confidence 333443333554 555666665 89999999999998887
No 157
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=49.83 E-value=52 Score=20.37 Aligned_cols=40 Identities=8% Similarity=0.023 Sum_probs=27.0
Q ss_pred ccCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCc
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDC 46 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~ 46 (73)
.+++..||++|=+.|.+++|+....- -.-..++-++-.|+
T Consensus 19 ~~~~~~TV~~lKe~i~~~WP~d~~~~----p~s~~~lRLI~~Gr 58 (111)
T PF13881_consen 19 RFDPSTTVADLKERIWAEWPEDWEER----PKSPSDLRLIYAGR 58 (111)
T ss_dssp EE-TTSBHHHHHHHHHHSSSTTSSST----T-SGGGEEEEETTE
T ss_pred ccCccChHHHHHHHHHHHCccccccC----CCChhhEEEEeCCe
Confidence 45678999999999999999875431 11223566666666
No 158
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=49.67 E-value=9.8 Score=23.07 Aligned_cols=29 Identities=7% Similarity=-0.035 Sum_probs=23.1
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCccc
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVR 36 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr 36 (73)
..++++|+.|.+++|+.+.++|..-.+++
T Consensus 40 ~~~k~~L~~LE~~~P~~k~~i~~s~~~~~ 68 (104)
T TIGR00269 40 ARIRDFLYDLENKKPGVKFSVLRGFEKLI 68 (104)
T ss_pred HHHHHHHHHHHHHCcChHHHHHHHHHHHH
Confidence 47889999999999999988886533333
No 159
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=48.27 E-value=23 Score=24.99 Aligned_cols=24 Identities=13% Similarity=-0.055 Sum_probs=18.8
Q ss_pred EEEEcCccccccCCccCccCCCCEEEE
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
.|.|||+.+.. .++.++.||.|++
T Consensus 209 ~V~VNg~~v~~---~s~~v~~gD~Isv 232 (257)
T TIGR03069 209 RLRLNWKTVTQ---PSRELKVGDRLQL 232 (257)
T ss_pred eEEECCEEcCC---CCCcCCCCCEEEE
Confidence 37889987742 4678999999986
No 160
>TIGR01266 fum_ac_acetase fumarylacetoacetase. This enzyme catalyzes the final step in the breakdown of tyrosine or phenylalanine to fumarate and acetoacetate.
Probab=48.19 E-value=67 Score=24.51 Aligned_cols=57 Identities=16% Similarity=0.128 Sum_probs=36.1
Q ss_pred cHHHHHHHHHHhcCccc-ccccccCCcc--------cCceEEEEcCcc-ccccCCcc-CccCCCCEEEE
Q 035093 9 IMKDLLSWVGTNLIKER-PEMFMKGDSV--------RPGVLVLVNDCD-WELSGQLD-TTLEEKDVVVF 66 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~-~~l~~~~g~l--------r~~v~ilvNg~~-i~~l~g~~-t~l~dgD~V~i 66 (73)
|+.++|.+++.++-.++ ..|+.. |.+ -..+-...+|+. +..-+|.. +-|+|||+|.+
T Consensus 324 s~~qlIah~S~~g~tL~pGDLi~T-GTpsG~~~~~~G~~lE~t~~g~~~v~l~~g~~r~fL~dGD~V~~ 391 (415)
T TIGR01266 324 TMLQQLAHHSVNGCNLRPGDLLGS-GTISGSEPGSFGSMLELSWKGKKPIDVGQGETRTFLEDGDEVIL 391 (415)
T ss_pred CHHHHHHHHhcCCcccCCCCEEEe-CCCCCCcccCCCcEEEEEeCCeeeeecCCCCCCCCCCCCCEEEE
Confidence 78999999997765664 455542 222 233444567764 43333433 57899999998
No 161
>COG0490 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]
Probab=47.82 E-value=28 Score=23.39 Aligned_cols=30 Identities=30% Similarity=0.286 Sum_probs=23.6
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
=|.|.-|++-| .-.|-.++|+.||++.++=
T Consensus 116 IIAI~r~~e~I-~SPgPy~vle~gDtlvviG 145 (162)
T COG0490 116 VIAIVRNEEKI-LSPGPYTVLEAGDTLVVIG 145 (162)
T ss_pred EEEEEecCcEe-cCCCchhhhcCCCEEEEEe
Confidence 35577777776 4589999999999998864
No 162
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=47.72 E-value=17 Score=21.82 Aligned_cols=29 Identities=28% Similarity=0.293 Sum_probs=22.5
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+.-.|.+|-.+.+.++ |++||.|.+..+-
T Consensus 31 ~~~~v~in~~dA~~lg-----i~~Gd~V~v~s~~ 59 (115)
T cd02779 31 PLPYIEVNPEDAKREG-----LKNGDLVEVYNDY 59 (115)
T ss_pred CCCEEEECHHHHHHcC-----CCCCCEEEEEeCC
Confidence 4455888998887655 9999999988764
No 163
>PLN00051 RNA-binding S4 domain-containing protein; Provisional
Probab=47.22 E-value=24 Score=25.18 Aligned_cols=23 Identities=39% Similarity=0.280 Sum_probs=18.7
Q ss_pred EEEcCccccccCCccCccCCCCEEEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
|.||++.+. ..++.++.||.|++
T Consensus 218 V~vN~~~v~---~~s~~v~~gD~isi 240 (267)
T PLN00051 218 VRVNWREVT---KNGTTLKTGDVVSV 240 (267)
T ss_pred EEECCEEcC---CCCCCCCCCCEEEE
Confidence 788998874 34789999999986
No 164
>cd03869 M14_CPX_like Peptidase M14-like domain of carboxypeptidase (CP)-like protein X (CPX), CPX forms a distinct subgroup of the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Proteins belonging to this subgroup include CP-like protein X1 (CPX1), CP-like protein X2 (CPX2), and aortic CP-like protein (ACLP) and its isoform adipocyte enhancer binding protein-1 (AEBP1). AEBP1 is a truncated form of ACLP, which may arise from alternative splicing of the gene. These proteins are inactive towards standard CP substrates because they lack one or more critical active site and substrate-binding residues that are necessary for activity. They may function as binding proteins rather than as active CPs or display catalytic activity toward other substrates. Pro
Probab=46.88 E-value=59 Score=24.64 Aligned_cols=55 Identities=13% Similarity=0.138 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 10 MKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 10 V~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
-..||..+.+-|-+.+..+.+..|+--+.-.|.|.|.+-. . |.-++||-=.+++|
T Consensus 317 ~~all~~~~~vh~GikG~V~d~~g~~i~~a~i~v~g~~~~----v-~t~~~GdywRll~p 371 (405)
T cd03869 317 KESLLVFMEQVHRGIKGVVRDKTGKGIPNAIISVEGINHD----I-RTASDGDYWRLLNP 371 (405)
T ss_pred HHHHHHHHHHHhcCceEEEECCCCCcCCCcEEEEecCccc----e-eeCCCCceEEecCC
Confidence 4678999999999999999998888777788999886532 2 23588888877766
No 165
>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated. This protein family belongs to the larger set of polysaccharide biosynthesis/export proteins described by Pfam model pfam02563. Members of this family are variable in either containing of lacking a 78-residue insert, but appear to fall within a single clade, nevertheless, where the regions in which the gene is found encode components of the PEP-CTERM/EpsH proposed exosortase protein sorting system.
Probab=46.66 E-value=37 Score=21.90 Aligned_cols=64 Identities=16% Similarity=0.122 Sum_probs=31.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcc-cccccc-c--CCcccCceEEEEcCccccccC--CccCccCCCCEEEEEe
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKE-RPEMFM-K--GDSVRPGVLVLVNDCDWELSG--QLDTTLEEKDVVVFIS 68 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~-~~~l~~-~--~g~lr~~v~ilvNg~~i~~l~--g~~t~l~dgD~V~i~P 68 (73)
+.+.++.|+.++|..-..--+.. ..+++- . +|+ ...+-+|=.++..-+ ..+..|++||.|.+-.
T Consensus 93 y~~~~~~tl~~ai~~AGG~~~~a~~~~v~i~R~~~~~---~~~~~idl~~l~~~g~~~~n~~L~~gD~I~Vp~ 162 (165)
T TIGR03027 93 LPYREGMTLLDVMIAVGGLTDFADGNRAVIVRTVDGE---QKQISVRLKDLIKDGDVTANVELKPGDVLIIPE 162 (165)
T ss_pred eeeCCCCcHHHHHHHcCCCCcccCCCeEEEEECCCCc---eEEEEEEHHHHhhcCCccCCceeCCCCEEEEec
Confidence 35677889988887643211111 111111 0 111 122333433332211 2467899999998754
No 166
>PF06241 DUF1012: Protein of unknown function (DUF1012); InterPro: IPR010420 This entry represents the CASTOR/POLLUX/SYM8 family of ion channels, which are found in plants. They have been implicated in modulating the nuclear membrane envelope potential [].
Probab=46.59 E-value=26 Score=24.36 Aligned_cols=30 Identities=20% Similarity=0.224 Sum_probs=22.1
Q ss_pred EEcCccccccCCccCccCCCCEEEEEecCCC
Q 035093 42 LVNDCDWELSGQLDTTLEEKDVVVFISTLHG 72 (73)
Q Consensus 42 lvNg~~i~~l~g~~t~l~dgD~V~i~PpvaG 72 (73)
+-||+ |-+-...++.|++||++.++.|++|
T Consensus 123 ~r~Gk-I~fhP~Dd~vL~e~DklLvIa~~~~ 152 (206)
T PF06241_consen 123 KRDGK-IVFHPDDDYVLREGDKLLVIAPVNG 152 (206)
T ss_pred eeCCe-eEECCCCCceeecCCEEEEEeecCC
Confidence 44553 3344556788999999999999876
No 167
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=46.47 E-value=38 Score=18.50 Aligned_cols=54 Identities=11% Similarity=0.155 Sum_probs=32.0
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++.+..||+++=+.++++. |....+|+- .|+. +-+++.+. +.-+++|+.|.+.
T Consensus 13 ~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~-~G~~------L~d~~~l~-----~~~i~~~stl~l~ 68 (70)
T cd01798 13 VEVDPDTDIKQLKEVVAKRQGVPPDQLRVIF-AGKE------LRNTTTIQ-----ECDLGQQSILHAV 68 (70)
T ss_pred EEECCCChHHHHHHHHHHHHCCCHHHeEEEE-CCeE------CCCCCcHH-----HcCCCCCCEEEEE
Confidence 56778899999999999885 332223321 2221 22332222 4568888887654
No 168
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=46.35 E-value=22 Score=20.59 Aligned_cols=22 Identities=5% Similarity=0.086 Sum_probs=17.9
Q ss_pred ccCcHHHHHHHHHHhcCcccccc
Q 035093 6 FQLIMKDLLSWVGTNLIKERPEM 28 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~~~~l 28 (73)
...||.++++.|+++|+. .+..
T Consensus 42 g~~tv~eI~~~L~~~Y~~-~e~~ 63 (81)
T TIGR03859 42 GKRSLAEIIQELAQRFPA-AEEI 63 (81)
T ss_pred CCCcHHHHHHHHHHHcCC-hhhH
Confidence 457999999999999987 5433
No 169
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=46.31 E-value=19 Score=21.24 Aligned_cols=28 Identities=25% Similarity=0.171 Sum_probs=21.2
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.-.+++|-.+-..++ |++||.|.+..+.
T Consensus 34 ~~~v~in~~dA~~lg-----i~~Gd~V~v~~~~ 61 (116)
T cd02790 34 EEYVEINPEDAKRLG-----IEDGEKVRVSSRR 61 (116)
T ss_pred CcEEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 335788988877554 8999999988753
No 170
>PF00842 Ala_racemase_C: Alanine racemase, C-terminal domain; InterPro: IPR011079 Alanine racemase (5.1.1.1 from EC) plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins contains this domain are found in both prokaryotic and eukaryotic proteins [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus (Geobacillus stearothermophilus) was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strand. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel.; GO: 0008784 alanine racemase activity, 0006522 alanine metabolic process; PDB: 3HUR_A 4A3Q_B 3S46_A 1RCQ_A 3CO8_A 1VFT_B 1VFH_A 1VFS_B 2DY3_B 4ECL_C ....
Probab=46.26 E-value=34 Score=21.57 Aligned_cols=32 Identities=22% Similarity=0.387 Sum_probs=20.4
Q ss_pred ceEEEEcCccccccCCc------------cCccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQL------------DTTLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~------------~t~l~dgD~V~i~Pp 69 (73)
...+++||+....++.. +..++.||+|.+|-+
T Consensus 52 ~~~v~i~G~~~pivG~v~MD~~~vdvt~~~~~v~~GD~V~l~G~ 95 (129)
T PF00842_consen 52 GGYVLINGKRCPIVGRVCMDMTMVDVTDIEPDVKVGDEVTLFGR 95 (129)
T ss_dssp TEEEEETTEEEEEES---SS-EEEEESTSTST--TT-EEEEEEC
T ss_pred CcEEEECCEEEEEEEEEEeeEEEEEcCCCCCCCCCCCEEEEECC
Confidence 34688899988776632 247889999999853
No 171
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=46.08 E-value=26 Score=25.09 Aligned_cols=26 Identities=19% Similarity=0.029 Sum_probs=20.4
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.|.|||+.+.. ..+.++.||.|.+..
T Consensus 44 ~V~VNg~~v~~---~~~~v~~gD~I~v~~ 69 (325)
T PRK11180 44 RVLVNGKVINK---PKEKVLGGEQVAIDA 69 (325)
T ss_pred CEEECCEEccC---CCcCcCCCCEEEEee
Confidence 47889988742 467899999999874
No 172
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=46.05 E-value=13 Score=27.78 Aligned_cols=17 Identities=24% Similarity=0.272 Sum_probs=15.0
Q ss_pred ccCCccCccCCCCEEEE
Q 035093 50 LSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i 66 (73)
.+.|.++.++|||.|.|
T Consensus 344 rleGkdY~v~DGDIi~f 360 (364)
T PRK09601 344 RLEGKDYIVQDGDVMHF 360 (364)
T ss_pred eccCCceEecCCCEEEE
Confidence 46799999999999987
No 173
>PF03831 PhnA: PhnA protein; InterPro: IPR013988 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 C-terminal domain of PhnA.; PDB: 2AKK_A 2AKL_A.
Probab=45.70 E-value=10 Score=21.27 Aligned_cols=13 Identities=31% Similarity=0.537 Sum_probs=8.5
Q ss_pred cCccCCCCEEEEE
Q 035093 55 DTTLEEKDVVVFI 67 (73)
Q Consensus 55 ~t~l~dgD~V~i~ 67 (73)
-+.|++||.|+++
T Consensus 7 Gn~L~dGDsV~~i 19 (56)
T PF03831_consen 7 GNELQDGDSVTLI 19 (56)
T ss_dssp S-B--TTEEEEES
T ss_pred CCCccCCCEEEEE
Confidence 4689999999986
No 174
>PRK04950 ProP expression regulator; Provisional
Probab=45.55 E-value=28 Score=24.31 Aligned_cols=28 Identities=11% Similarity=0.230 Sum_probs=21.7
Q ss_pred cCcHHHHHHHHHHhcCcccccccccCCcccCc
Q 035093 7 QLIMKDLLSWVGTNLIKERPEMFMKGDSVRPG 38 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~ 38 (73)
=.+..++|..|.+.||. +|...|+.+|-
T Consensus 7 l~~~keiia~L~e~fP~----~F~~eg~~kPL 34 (213)
T PRK04950 7 LTSSKEVIAYLAERFPL----CFSAEGEAKPL 34 (213)
T ss_pred cCCHHHHHHHHHHhChh----hcCcCCCCcCc
Confidence 35788999999999996 66666666663
No 175
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=45.48 E-value=28 Score=19.48 Aligned_cols=54 Identities=17% Similarity=0.174 Sum_probs=32.6
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
+++.+..||.++=+.+.+.. |....+|+-. |+ ++=+++.+. ++-+++|.+|.++
T Consensus 13 l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~-G~------~L~D~~~l~-----~~~i~~~~tv~~~ 68 (70)
T cd01794 13 LSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFS-GK------LLTDKTRLQ-----ETKIQKDYVVQVI 68 (70)
T ss_pred EEECCcChHHHHHHHHHHHhCCCHHHeEEEEC-Ce------ECCCCCCHH-----HcCCCCCCEEEEE
Confidence 57778899999999888774 4443444422 22 233333332 3557777777664
No 176
>PTZ00258 GTP-binding protein; Provisional
Probab=45.39 E-value=13 Score=27.91 Aligned_cols=18 Identities=17% Similarity=0.333 Sum_probs=15.5
Q ss_pred ccCCccCccCCCCEEEEE
Q 035093 50 LSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i~ 67 (73)
.+.|.|+.++|||.|.|-
T Consensus 368 r~eGkdYiv~DGDIi~f~ 385 (390)
T PTZ00258 368 RQEGKDYVVQDGDIIFFK 385 (390)
T ss_pred eeeCCceEecCCCEEEEE
Confidence 357899999999999884
No 177
>PLN02856 fumarylacetoacetase
Probab=45.39 E-value=75 Score=24.32 Aligned_cols=60 Identities=17% Similarity=0.103 Sum_probs=36.6
Q ss_pred cHHHHHHHHHHhcCccc-ccccccCCcc--------cCceEEEEcCcc-ccccCCc-cCccCCCCEEEEEec
Q 035093 9 IMKDLLSWVGTNLIKER-PEMFMKGDSV--------RPGVLVLVNDCD-WELSGQL-DTTLEEKDVVVFIST 69 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~-~~l~~~~g~l--------r~~v~ilvNg~~-i~~l~g~-~t~l~dgD~V~i~Pp 69 (73)
|+.++|.+..+++-.++ ..++.. |.+ -..+-+-.+|+. +..-+|. -+-|+|||+|.+--.
T Consensus 332 s~~qlIah~~s~g~tL~pGDLi~T-GTpsG~~~~~~G~llElt~~G~~p~~l~~g~~r~fL~dGD~V~l~g~ 402 (424)
T PLN02856 332 TLAQQLAHHTVNGCNLRPGDLLGS-GTISGPEPGSLGCLLELTWAGSREVSLEGGTRRKFLEDGDEVVLSGW 402 (424)
T ss_pred CHHHHHHHHHhCCeecCCCCEEEe-CCCCCCccCCCCCEEEEEeCCccceEeccCCccccCCCCCEEEEEEE
Confidence 78899988766665564 355542 332 233344557765 4433443 457999999998544
No 178
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=45.26 E-value=23 Score=21.11 Aligned_cols=20 Identities=20% Similarity=0.290 Sum_probs=18.5
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+.+|.+.+..+|.+.++++.
T Consensus 15 Irvp~~~~y~~L~~ki~~kL 34 (80)
T cd06406 15 IQVARGLSYATLLQKISSKL 34 (80)
T ss_pred EEcCCCCCHHHHHHHHHHHh
Confidence 57899999999999999988
No 179
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=45.21 E-value=45 Score=19.43 Aligned_cols=30 Identities=17% Similarity=0.035 Sum_probs=23.4
Q ss_pred EEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
....+..+.....+...++.||.|.+.|-.
T Consensus 24 ~~h~~~~l~L~~p~~~~~~~G~~v~l~~GC 53 (80)
T PF09356_consen 24 KSHEGGTLTLWRPLPAGLAVGDTVTLYPGC 53 (80)
T ss_pred EEccCCEEEEeccCcccCCCCCEEEEEeCC
Confidence 445556677777888889999999999854
No 180
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=45.15 E-value=18 Score=21.49 Aligned_cols=28 Identities=29% Similarity=0.252 Sum_probs=22.5
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecCC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTLH 71 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppva 71 (73)
-.+.+|=.|...++ |++||.|.+..+.+
T Consensus 31 ~~v~i~p~dA~~lg-----I~dGd~V~v~s~~G 58 (112)
T cd02787 31 DVVFMNPDDIARLG-----LKAGDRVDLESAFG 58 (112)
T ss_pred cEEEECHHHHHHhC-----CCCCCEEEEEecCC
Confidence 34888998887665 99999999988753
No 181
>cd01089 PA2G4-like Related to aminopepdidase M, this family contains proliferation-associated protein 2G4. Family members have been implicated in cell cycle control.
Probab=44.87 E-value=70 Score=21.43 Aligned_cols=29 Identities=31% Similarity=0.387 Sum_probs=17.1
Q ss_pred eEEEEcCccccccC---CccCccCCCCEEEEE
Q 035093 39 VLVLVNDCDWELSG---QLDTTLEEKDVVVFI 67 (73)
Q Consensus 39 v~ilvNg~~i~~l~---g~~t~l~dgD~V~i~ 67 (73)
.+|.+|........ ..+.+|++||.|.+=
T Consensus 61 ~~v~~n~~~~H~~p~~~~~~~~l~~Gd~v~iD 92 (228)
T cd01089 61 TCISVNNCVCHFSPLKSDATYTLKDGDVVKID 92 (228)
T ss_pred eEeccCceeecCCCCCCCCCcccCCCCEEEEE
Confidence 45556643322221 346789999988763
No 182
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=44.35 E-value=25 Score=22.50 Aligned_cols=28 Identities=18% Similarity=0.080 Sum_probs=21.5
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+.--.+|||+.+.. +-.+++||.|.|-.
T Consensus 129 S~nGt~vn~~~v~~----~~~l~~gd~i~i~~ 156 (191)
T COG1716 129 STNGTYVNGEKVRQ----RVLLQDGDVIRLGG 156 (191)
T ss_pred CCcceEECCeEccC----cEEcCCCCEEEECc
Confidence 34467889999875 57799999998754
No 183
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=44.15 E-value=25 Score=25.23 Aligned_cols=24 Identities=21% Similarity=0.203 Sum_probs=18.1
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEE
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.|.|||+-+. ..+.|.+||.|.+-
T Consensus 32 ~V~VNGk~v~----~~~~V~~gD~V~v~ 55 (290)
T PRK10475 32 NVFINGKRAT----IGDQVKAGDVVKVN 55 (290)
T ss_pred cEEECCEEcc----CCCCcCCCCEEEEC
Confidence 4788998653 36788999988773
No 184
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=44.06 E-value=65 Score=18.75 Aligned_cols=21 Identities=10% Similarity=-0.062 Sum_probs=16.1
Q ss_pred CccCcHHHHHHHHHHhcCccc
Q 035093 5 TFQLIMKDLLSWVGTNLIKER 25 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~~~~ 25 (73)
.+..|+.+|-+.+.++|.++.
T Consensus 10 ~~~~tl~~L~~eI~~~f~kLY 30 (73)
T PF10407_consen 10 DPNNTLSQLKEEIEERFKKLY 30 (73)
T ss_pred CCCCcHHHHHHHHHHHHHHHC
Confidence 457899999998888875543
No 185
>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=43.84 E-value=19 Score=22.72 Aligned_cols=17 Identities=24% Similarity=0.278 Sum_probs=13.4
Q ss_pred CCccCccCCCCEEEEEe
Q 035093 52 GQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 52 ~g~~t~l~dgD~V~i~P 68 (73)
+---+.|++||.|+++-
T Consensus 45 DsnG~~L~dGDsV~liK 61 (109)
T TIGR00686 45 DCNGNLLANGDSVILIK 61 (109)
T ss_pred cCCCCCccCCCEEEEEe
Confidence 34457899999999874
No 186
>PHA03399 pif3 per os infectivity factor 3; Provisional
Probab=43.78 E-value=42 Score=23.25 Aligned_cols=45 Identities=16% Similarity=0.189 Sum_probs=29.6
Q ss_pred cccccccccCCcccCceEEEEcCc-cccccCCc----cCccCCCCEEEEEec
Q 035093 23 KERPEMFMKGDSVRPGVLVLVNDC-DWELSGQL----DTTLEEKDVVVFIST 69 (73)
Q Consensus 23 ~~~~~l~~~~g~lr~~v~ilvNg~-~i~~l~g~----~t~l~dgD~V~i~Pp 69 (73)
...+.+++++|++||+|- =||. +|...++. +.+=.+|-+-.+|++
T Consensus 125 StYRDivdD~g~lRPYvC--~nG~l~IdL~~~~Fsv~dC~C~~gytk~~y~q 174 (200)
T PHA03399 125 STYRDIVDDDGELRPYVC--ENGTLDIDLENRPFSVDDCVCASGYTKMIFNQ 174 (200)
T ss_pred ecccccCCCCCCcCceEe--cCCeEEeecccCCCchhhcCcCCCCEEEEecC
Confidence 345679999999999986 4777 56544332 334456666666554
No 187
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=43.40 E-value=49 Score=18.94 Aligned_cols=61 Identities=10% Similarity=0.007 Sum_probs=33.1
Q ss_pred ccCccCcHHHHHHHHHHhcCcc--cccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKE--RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~--~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.++...||.+|=..|...+.-- .-+|+-.+..=...+.. ...+-..|+ .+.+++|++|.+.
T Consensus 19 r~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~--~~dd~~~L~--~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 19 RFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEE--LDDDDATLG--SYGIKDGMRIHVV 81 (87)
T ss_dssp EEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEE--SSGSSSBCC--HHT-STTEEEEEE
T ss_pred EcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccc--cCCCccEee--cCCCCCCCEEEEE
Confidence 4677899999988888877322 22232221111112222 233444554 5679999998875
No 188
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=43.28 E-value=25 Score=19.60 Aligned_cols=22 Identities=27% Similarity=0.222 Sum_probs=19.2
Q ss_pred cccCccCcHHHHHHHHHHhcCc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIK 23 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~ 23 (73)
+.++.+.|..+|...+.++++-
T Consensus 15 ~~~~~~~s~~dL~~~i~~~~~~ 36 (81)
T smart00666 15 LSVPRDISFEDLRSKVAKRFGL 36 (81)
T ss_pred EEECCCCCHHHHHHHHHHHhCC
Confidence 4578899999999999999974
No 189
>cd02558 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The RluA family is comprised of proteins related to Escherichia coli RluA.
Probab=42.07 E-value=27 Score=24.09 Aligned_cols=24 Identities=13% Similarity=0.113 Sum_probs=18.1
Q ss_pred EEEcCccccccCCccCccCCCCEEEEEe
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
+-.||+.++. ++.|+.||+|.+..
T Consensus 4 ~~~ng~~~~~----~~~l~~gd~i~~~~ 27 (246)
T cd02558 4 VDADGEPLDP----DSPYRPGTFVWYYR 27 (246)
T ss_pred ECCCCcCCCC----CceecCCCEEEEeC
Confidence 4468888752 78899999988764
No 190
>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements. This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where
Probab=41.64 E-value=20 Score=20.53 Aligned_cols=13 Identities=15% Similarity=0.100 Sum_probs=10.4
Q ss_pred eEEEEcCcccccc
Q 035093 39 VLVLVNDCDWELS 51 (73)
Q Consensus 39 v~ilvNg~~i~~l 51 (73)
+.+.|||+.+++|
T Consensus 1 ~~v~InG~~~~fL 13 (86)
T cd06095 1 VTITVEGVPIVFL 13 (86)
T ss_pred CEEEECCEEEEEE
Confidence 3578899998887
No 191
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=41.39 E-value=27 Score=18.03 Aligned_cols=20 Identities=10% Similarity=0.004 Sum_probs=17.3
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+++++..||.+|-+.+.+..
T Consensus 14 ~~v~~~~tv~~lk~~i~~~~ 33 (64)
T smart00213 14 LEVKPSDTVSELKEKIAELT 33 (64)
T ss_pred EEECCCCcHHHHHHHHHHHH
Confidence 56788899999999999876
No 192
>PF12860 PAS_7: PAS fold
Probab=41.31 E-value=62 Score=18.77 Aligned_cols=61 Identities=15% Similarity=0.029 Sum_probs=37.9
Q ss_pred CccCcHHHHHHHHHHhcCcc---cccccc------cCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 5 TFQLIMKDLLSWVGTNLIKE---RPEMFM------KGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~~~---~~~l~~------~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
..|.++.++++.+.+...-. ....+. ....-.....-+.||+-++. ..+++.+|..|.+|-
T Consensus 36 ~~G~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dgr~l~~---~~~~~~~Gg~v~~~~ 105 (115)
T PF12860_consen 36 RPGASFRDLLRRLAERGEFPPGDPEAWVRQRLARLRRRQPRSFELRLPDGRWLEV---RAQPLPDGGFVLTFT 105 (115)
T ss_pred cCCCCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhcCCCceeEEECCCCEEEEE---EeEECCCCCEEEEEE
Confidence 46889999999986554211 111111 12233334445678877765 368999999998874
No 193
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=41.31 E-value=27 Score=20.75 Aligned_cols=28 Identities=18% Similarity=0.109 Sum_probs=20.9
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.-.+.+|-.+.+.++ |++||.|.+..+-
T Consensus 34 ~~~v~i~p~dA~~lg-----i~~Gd~V~v~s~~ 61 (122)
T cd02792 34 EMFVEISPELAAERG-----IKNGDMVWVSSPR 61 (122)
T ss_pred CcEEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 335777888877655 8999999887653
No 194
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=40.89 E-value=26 Score=20.77 Aligned_cols=28 Identities=21% Similarity=0.356 Sum_probs=21.0
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.-.|.+|-.+...++ |++||.|.+..+.
T Consensus 30 ~~~v~i~p~dA~~lg-----i~~Gd~V~v~s~~ 57 (116)
T cd02786 30 EPTLLIHPADAAARG-----IADGDLVVVFNDR 57 (116)
T ss_pred CCEEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 345788888877554 8999999887654
No 195
>KOG0257 consensus Kynurenine aminotransferase, glutamine transaminase K [Amino acid transport and metabolism]
Probab=40.58 E-value=25 Score=26.99 Aligned_cols=59 Identities=15% Similarity=0.090 Sum_probs=34.4
Q ss_pred cCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 7 QLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+-=.-+|.+.|++.|.++...+.+.+ ..|.|- +|-+=....-+-.-+..||+|.||-|-
T Consensus 68 ~~G~p~L~~aL~k~~se~~~~~~~~~----~eVlVT-~GA~~ai~~~~~~l~~~GDeVii~eP~ 126 (420)
T KOG0257|consen 68 GYGLPQLRKALAKAYSEFYGGLLDPD----DEVLVT-AGANEAISSALLGLLNPGDEVIVFEPF 126 (420)
T ss_pred cCCchHHHHHHHHHHHHHhccccCCc----ccEEEe-cCchHHHHHHHHHHcCCCCEEEEecCc
Confidence 34455777888887765433333322 235443 344433333445568999999999763
No 196
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=40.35 E-value=70 Score=19.41 Aligned_cols=20 Identities=5% Similarity=0.167 Sum_probs=16.9
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+-+.+..|..|+|+.|-++|
T Consensus 17 v~VsS~~tt~eVI~~LL~KF 36 (87)
T cd01784 17 VRINSTMTTPQVLKLLLNKF 36 (87)
T ss_pred EEEecCCCHHHHHHHHHHhc
Confidence 34567789999999999988
No 197
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=39.53 E-value=11 Score=21.13 Aligned_cols=30 Identities=20% Similarity=0.243 Sum_probs=21.6
Q ss_pred CceEEEEcCccccccCCccCcc---CCCCEEEE
Q 035093 37 PGVLVLVNDCDWELSGQLDTTL---EEKDVVVF 66 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l---~dgD~V~i 66 (73)
..+++-|||+.+.....+...+ +.|+.|.+
T Consensus 35 GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l 67 (82)
T PF13180_consen 35 GDIILAINGKPVNSSEDLVNILSKGKPGDTVTL 67 (82)
T ss_dssp TEEEEEETTEESSSHHHHHHHHHCSSTTSEEEE
T ss_pred CcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEE
Confidence 4789999999997665554443 67777665
No 198
>cd06245 M14_CPD_III The third carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3.4.17.22), domain III. CPD differs from all other metallocarboxypeptidases in that it contains multiple CP-like domains. CPD belongs to the N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPD is a single-chain protein containing a signal peptide, three tandem repeats of CP-like domains separated by short bridge regions, followed by a transmembrane domain, and a C-terminal cytosolic tail. The first two CP-like domains of CPD contain all of the essential active site and substrate-binding residues, the third CP-like domain lacks critical residues necessary for enzymatic activity and is inactive towards standard CP substrates. Domain I is optimally active a
Probab=39.43 E-value=74 Score=23.51 Aligned_cols=54 Identities=19% Similarity=0.134 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 10 MKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 10 V~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
-..||..+.+.|-.++..+.+.+|+.-++..|.|.|.. +.-|. ++|+--..+||
T Consensus 275 ~~all~~~~~~~~gI~G~V~d~~g~pi~~A~V~v~g~~-----~~~T~-~~G~y~~~L~p 328 (363)
T cd06245 275 KKSLLSMIVEAHKGVHGVVTDKAGKPISGATIVLNGGH-----RVYTK-EGGYFHVLLAP 328 (363)
T ss_pred HHHHHHHHHHcCcEEEEEEEcCCCCCccceEEEEeCCC-----ceEeC-CCcEEEEecCC
Confidence 35688899988999999999988888899999999853 22232 46665544443
No 199
>cd02783 MopB_CT_2 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=39.40 E-value=28 Score=22.35 Aligned_cols=29 Identities=14% Similarity=0.030 Sum_probs=22.8
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+.-.|.+|-.+...++ |++||.|.+..+-
T Consensus 30 ~~~~v~inp~dA~~~G-----I~dGd~V~v~s~~ 58 (156)
T cd02783 30 TRNYLYMHPKTAKELG-----IKDGDWVWVESVN 58 (156)
T ss_pred CCCEEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 3445888998887655 9999999998764
No 200
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=39.36 E-value=37 Score=21.38 Aligned_cols=30 Identities=10% Similarity=0.076 Sum_probs=22.6
Q ss_pred cccCccCcHHHHHHHHHHhc--Cccccccccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMK 31 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~ 31 (73)
+++.++.||++|=..+.+.+ |.++.+|+.+
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~d 50 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPFDQNLSID 50 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCcccceeeec
Confidence 57888999999988888887 4555555543
No 201
>PF11685 DUF3281: Protein of unknown function (DUF3281); InterPro: IPR021699 This family of bacterial proteins has no known function.
Probab=38.82 E-value=26 Score=25.29 Aligned_cols=31 Identities=23% Similarity=0.249 Sum_probs=22.4
Q ss_pred ccCccCcHHHHHHHHHHhcCcccccccccCCc
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKERPEMFMKGDS 34 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~ 34 (73)
+||.|.|+.+|+++|-...-.... -|..+|.
T Consensus 164 ~LP~glTlq~LVdaLN~n~~~AhG-TFsadGs 194 (268)
T PF11685_consen 164 TLPSGLTLQDLVDALNENSDSAHG-TFSADGS 194 (268)
T ss_pred CCCCCCcHHHHHHHhhccchhcce-eEeccCC
Confidence 589999999999999876543333 4655554
No 202
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=38.77 E-value=35 Score=20.35 Aligned_cols=19 Identities=0% Similarity=-0.062 Sum_probs=16.1
Q ss_pred ccCcHHHHHHHHHHhcCcc
Q 035093 6 FQLIMKDLLSWVGTNLIKE 24 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~~ 24 (73)
...||.++++.|.++||+.
T Consensus 47 G~~tv~eIi~~L~~~y~~~ 65 (88)
T PRK02079 47 GKRTVAAIIAELQQQFPDV 65 (88)
T ss_pred CCCCHHHHHHHHHHHccch
Confidence 3579999999999999764
No 203
>cd02784 MopB_CT_PHLH The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=38.76 E-value=25 Score=22.47 Aligned_cols=26 Identities=31% Similarity=0.153 Sum_probs=21.5
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.|++|-.+-..++ |++||.|.|..+.
T Consensus 39 ~v~InP~dA~~lG-----I~dGD~V~V~s~~ 64 (137)
T cd02784 39 AALVSPRTAEALG-----LLQGDVVRIRRGG 64 (137)
T ss_pred eEEECHHHHHHcC-----CCCCCEEEEEeCC
Confidence 4888999887665 8999999998764
No 204
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=38.73 E-value=31 Score=19.58 Aligned_cols=21 Identities=10% Similarity=0.101 Sum_probs=18.2
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.++..+|..++++.+.++|-
T Consensus 17 i~V~~~~t~~~Vi~~~l~k~~ 37 (87)
T cd01768 17 LRVSKDTTAQDVIQQLLKKFG 37 (87)
T ss_pred EEECCCCCHHHHHHHHHHHhC
Confidence 467889999999999999883
No 205
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=38.39 E-value=40 Score=21.78 Aligned_cols=22 Identities=14% Similarity=0.069 Sum_probs=16.9
Q ss_pred EEEcCccccccCCccCccCCCCEEEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
|.|||+.. .-...++.||+|.|
T Consensus 36 V~vnG~~~----Kps~~V~~gd~l~v 57 (133)
T PRK10348 36 VHYNGQRS----KPSKIVELNATLTL 57 (133)
T ss_pred EEECCEEC----CCCCccCCCCEEEE
Confidence 66799873 23578899999987
No 206
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=38.27 E-value=29 Score=20.43 Aligned_cols=26 Identities=23% Similarity=0.235 Sum_probs=20.2
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.+++|-.+...++ |++||.|.+..+-
T Consensus 36 ~v~inp~dA~~lg-----i~~Gd~V~v~~~~ 61 (120)
T cd00508 36 FVEIHPEDAARLG-----IKDGDLVRVSSRR 61 (120)
T ss_pred EEEECHHHHHHcC-----CCCCCEEEEEeCC
Confidence 4788988877655 8999999987653
No 207
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=37.98 E-value=33 Score=20.76 Aligned_cols=27 Identities=22% Similarity=0.210 Sum_probs=20.6
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-.|.+|-.+...++ |++||.|.+..+-
T Consensus 32 ~~v~i~p~dA~~~g-----i~~Gd~V~v~s~~ 58 (124)
T cd02785 32 PRVKINPIDAAARG-----IAHGDLVEVYNDR 58 (124)
T ss_pred CeEEECHHHHHHcC-----CCCCCEEEEEeCC
Confidence 35778888877554 8999999888764
No 208
>cd02974 AhpF_NTD_N Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD forming two contiguous TRX-fold subdomain similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The N-terminal TRX-fold subdomain of AhpF NTD is redox inactive, but is proposed to contain an important residue that aids in the catalytic function of the redox-active CXXC motif contained in the C-terminal TRX-
Probab=37.49 E-value=68 Score=19.13 Aligned_cols=43 Identities=16% Similarity=0.044 Sum_probs=27.3
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCcc--cccc
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCD--WELS 51 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~--i~~l 51 (73)
..++++++.+++..+..+-+..+. ..-.|.+.|+-++++ |++.
T Consensus 34 ~e~~~ll~e~a~lSdkI~~~~~~~-~~~~P~~~i~~~~~~~gIrF~ 78 (94)
T cd02974 34 AELLELLEEIASLSDKITLEEDND-DERKPSFSINRPGEDTGIRFA 78 (94)
T ss_pred HHHHHHHHHHHHhCCceEEEEecC-CCCCCEEEEecCCCcccEEEE
Confidence 347888999998887765443332 223578877777644 5553
No 209
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=36.86 E-value=50 Score=25.47 Aligned_cols=33 Identities=24% Similarity=0.486 Sum_probs=29.1
Q ss_pred ccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 35 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
++|.=.|++.|+.|+...+ +++++.||.|.++-
T Consensus 388 ~~p~G~V~v~GE~W~AvS~-~~~I~kG~~VkVV~ 420 (436)
T COG1030 388 LRPEGFVLVEGERWRAVSE-GEPIEKGEKVKVVD 420 (436)
T ss_pred CCCCeEEEECCEEEEEeeC-CCcccCCCEEEEEe
Confidence 6676779999999999988 89999999998874
No 210
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=36.77 E-value=1.2e+02 Score=24.37 Aligned_cols=59 Identities=24% Similarity=0.247 Sum_probs=39.5
Q ss_pred ccCccCcHHHHHHHHHHhcCccc--------ccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 3 SLTFQLIMKDLLSWVGTNLIKER--------PEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~~~~--------~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
+-..|.-|.|+|+++.++.|.-+ ..+||+----..+|.++|. ..+| .++.||.|.++.+
T Consensus 167 SAKtG~gI~~iLe~Iv~~iP~P~g~~~~pLkALifDS~yD~Y~GVv~~vR-----i~dG---~ik~gdki~~m~t 233 (603)
T COG0481 167 SAKTGIGIEDVLEAIVEKIPPPKGDPDAPLKALIFDSWYDNYLGVVVLVR-----IFDG---TLKKGDKIRMMST 233 (603)
T ss_pred ecccCCCHHHHHHHHHhhCCCCCCCCCCcceEEEEeccccccceEEEEEE-----Eeec---eecCCCEEEEEec
Confidence 34568889999999999997543 2355543233446666653 3333 4899999998875
No 211
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=36.22 E-value=58 Score=20.81 Aligned_cols=18 Identities=22% Similarity=0.163 Sum_probs=16.2
Q ss_pred cCccCcHHHHHHHHHHhc
Q 035093 4 LTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~ 21 (73)
+|...||++++..+..+.
T Consensus 47 VP~d~tV~qF~~iIRkrl 64 (121)
T PTZ00380 47 LPRDATVAELEAAVRQAL 64 (121)
T ss_pred cCCCCcHHHHHHHHHHHc
Confidence 789999999999998875
No 212
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=36.08 E-value=24 Score=20.40 Aligned_cols=31 Identities=6% Similarity=0.055 Sum_probs=20.1
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.+.+.+.|.-.-..++....+++||.+.+-|
T Consensus 25 ~i~~v~~G~~~~~~~~~~~~l~~g~~~li~p 55 (136)
T PF02311_consen 25 EIIYVLSGEGTLHIDGQEYPLKPGDLFLIPP 55 (136)
T ss_dssp EEEEEEEE-EEEEETTEEEEE-TT-EEEE-T
T ss_pred EEEEEeCCEEEEEECCEEEEEECCEEEEecC
Confidence 3556667777667788888999999886655
No 213
>PRK10220 hypothetical protein; Provisional
Probab=35.90 E-value=30 Score=21.89 Aligned_cols=16 Identities=19% Similarity=0.273 Sum_probs=12.8
Q ss_pred CccCccCCCCEEEEEe
Q 035093 53 QLDTTLEEKDVVVFIS 68 (73)
Q Consensus 53 g~~t~l~dgD~V~i~P 68 (73)
---+.|++||.|+++-
T Consensus 47 snG~~L~dGDsV~viK 62 (111)
T PRK10220 47 ANGNLLADGDSVTIVK 62 (111)
T ss_pred CCCCCccCCCEEEEEe
Confidence 3357899999999874
No 214
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=35.74 E-value=32 Score=19.15 Aligned_cols=23 Identities=22% Similarity=0.146 Sum_probs=20.2
Q ss_pred cccCccCcHHHHHHHHHHhcCcc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKE 24 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~ 24 (73)
+.++.+.|..+|.+.+.++++..
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~ 38 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLL 38 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTS
T ss_pred EEcCCCCCHHHHHHHHHHHhCCC
Confidence 56788899999999999999764
No 215
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=35.49 E-value=47 Score=20.20 Aligned_cols=31 Identities=10% Similarity=0.071 Sum_probs=24.4
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.+++-+-|+=.-.++|....+++||.|.+-|
T Consensus 66 ~~~~Vl~G~~~~~~~g~~~~l~~Gd~i~ip~ 96 (131)
T COG1917 66 QTIYVLEGEGTVQLEGEKKELKAGDVIIIPP 96 (131)
T ss_pred eEEEEEecEEEEEecCCceEecCCCEEEECC
Confidence 4556667777667788889999999998876
No 216
>PRK08671 methionine aminopeptidase; Provisional
Probab=35.45 E-value=1.3e+02 Score=21.12 Aligned_cols=56 Identities=13% Similarity=0.092 Sum_probs=32.4
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCcccccc--CCccCccCCCCEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS--GQLDTTLEEKDVVVF 66 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l--~g~~t~l~dgD~V~i 66 (73)
+.+|.|..|+-+.+.+..-+.. ....-..+|.+|..-.-+. .+.++.|++||.|.|
T Consensus 23 i~pG~se~ei~~~~~~~i~~~g-------~~~afp~~vs~n~~~~H~~p~~~d~~~l~~GDvV~i 80 (291)
T PRK08671 23 IKPGAKLLDVAEFVENRIRELG-------AKPAFPCNISINEVAAHYTPSPGDERVFPEGDVVKL 80 (291)
T ss_pred ccCCCcHHHHHHHHHHHHHHcC-------CccCCCCEEeeCCCccCCCCCCCCCcccCCCCEEEE
Confidence 3568888888877765442211 1111124566776543222 233678999998876
No 217
>PF07908 D-aminoacyl_C: D-aminoacylase, C-terminal region; InterPro: IPR012855 D-aminoacylase (Q9AGH8 from SWISSPROT, 3.5.1.81 from EC) hydrolyses a wide variety of N-acyl derivatives of neutral D-amino acids, in a zinc-dependent manner. The enzyme is composed of a small beta-barrel domain and a larger catalytic alpha/beta-barrel that contains a short alpha/beta insert. The overall structure shares significant similarity to the alpha/beta-barrel amidohydrolase superfamily, in which the beta-strands in both barrels superimpose well []. The C-terminal region featured in this entry forms part of the beta-barrel domain, together with a short N-terminal segment. This domain does not seem to contribute to the substrate-binding site or to be involved in the catalytic process.; GO: 0008270 zinc ion binding, 0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides; PDB: 3GIQ_B 3GIP_B 1V4Y_A 1M7J_A 1RK5_A 1RJP_A 1RJR_A 1RJQ_A 1RK6_A 1V51_A.
Probab=35.38 E-value=29 Score=18.28 Aligned_cols=24 Identities=21% Similarity=-0.069 Sum_probs=13.2
Q ss_pred eEEEEcCccccccCCccCccCCCCE
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDV 63 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~ 63 (73)
-.|+|||+-+- -+|.-|....|-.
T Consensus 21 ~~V~VNG~~vv-~~g~~t~~~~G~~ 44 (48)
T PF07908_consen 21 DYVFVNGQIVV-EDGEVTGARPGRV 44 (48)
T ss_dssp EEEEETTEEEE-CTTEESSS----B
T ss_pred EEEEECCEEEE-ECCeECCCCCCeE
Confidence 35899998863 4555565555543
No 218
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=35.36 E-value=37 Score=24.22 Aligned_cols=26 Identities=27% Similarity=0.368 Sum_probs=22.2
Q ss_pred ccccCCccCccCCCCEEEEEecCCCC
Q 035093 48 WELSGQLDTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 48 i~~l~g~~t~l~dgD~V~i~PpvaGG 73 (73)
...|.|.+..++.|.+|+|+-|-+.|
T Consensus 15 ~~VLkgi~l~v~~Gevv~iiGpSGSG 40 (240)
T COG1126 15 KEVLKGISLSVEKGEVVVIIGPSGSG 40 (240)
T ss_pred eEEecCcceeEcCCCEEEEECCCCCC
Confidence 34578899999999999999988766
No 219
>COG4070 Predicted peptidyl-prolyl cis-trans isomerase (rotamase), cyclophilin family [Posttranslational modification, protein turnover, chaperones]
Probab=35.28 E-value=19 Score=27.90 Aligned_cols=23 Identities=22% Similarity=0.327 Sum_probs=18.8
Q ss_pred cccCccCcHHHHHHHHHHhcCcc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKE 24 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~ 24 (73)
++||.|+|++|+|++-..-|++-
T Consensus 11 v~lp~gsTlrdalea~ga~y~eg 33 (512)
T COG4070 11 VTLPAGSTLRDALEASGASYIEG 33 (512)
T ss_pred ecCCCcchHHHHHHhcCCcccCC
Confidence 57899999999999876666543
No 220
>PF07828 PA-IL: PA-IL-like protein; InterPro: IPR012905 The members of this family are similar to the galactophilic lectin-1 expressed by Pseudomonas aeruginosa (PA-IL, Q05097 from SWISSPROT). Lectins recognising specific carbohydrates found on the surface of host cells are known to be involved in the initiation of infections by this organism. The protein is thought to be organised into an extensive network of beta-sheets, as is the case with many other lectins []. ; PDB: 3ZYB_E 3ZYF_C 1L7L_A 3ZYH_A.
Probab=34.75 E-value=22 Score=22.86 Aligned_cols=18 Identities=17% Similarity=0.398 Sum_probs=11.6
Q ss_pred cCCccC--ccCCCCEEEEEe
Q 035093 51 SGQLDT--TLEEKDVVVFIS 68 (73)
Q Consensus 51 l~g~~t--~l~dgD~V~i~P 68 (73)
.+|..| .|+.||+|+|+.
T Consensus 11 e~G~~TGl~lk~GD~IsIvA 30 (121)
T PF07828_consen 11 EAGQNTGLILKAGDIISIVA 30 (121)
T ss_dssp TT-EEEEEEE-TT-EEEEEE
T ss_pred cCCceeeEEEcCCCEEEEEE
Confidence 356666 689999999985
No 221
>PF01561 Hanta_G2: Hantavirus glycoprotein G2; InterPro: IPR002532 The medium (M) genome segment of Hantaviruses (family Bunyaviridae) encodes the two virion glycoproteins [], G1 and G2, as a polyprotein precursor. This entry represents the polyprotein region which forms the G2 glycoprotein.; GO: 0030683 evasion by virus of host immune response, 0044423 virion part
Probab=34.61 E-value=30 Score=26.88 Aligned_cols=19 Identities=26% Similarity=0.649 Sum_probs=17.0
Q ss_pred cCccCCCCEEEEEecCCCC
Q 035093 55 DTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 55 ~t~l~dgD~V~i~PpvaGG 73 (73)
-.+++.||++.|+.|+.||
T Consensus 187 vsk~~~~dtllflgple~g 205 (485)
T PF01561_consen 187 VSKFQPGDTLLFLGPLEGG 205 (485)
T ss_pred ceeeCCCcEEEEecccccC
Confidence 4578999999999999987
No 222
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=34.32 E-value=44 Score=18.91 Aligned_cols=26 Identities=27% Similarity=0.272 Sum_probs=18.2
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
-.+++|-.+...++ |++||.|.|..+
T Consensus 23 ~~v~~~~~da~~lg-----l~~Gd~v~v~~~ 48 (101)
T cd02775 23 PVVEINPEDAAALG-----IKDGDLVRVESR 48 (101)
T ss_pred CEEEECHHHHHHcC-----CCCCCEEEEEcC
Confidence 45777888776554 778888877643
No 223
>TIGR02148 Fibro_Slime fibro-slime domain. This model represents a conserved region of about 90 amino acids, shared in at least 4 distinct large putative proteins from the slime mold Dictyostelium discoideum and 10 proteins from the rumen bacterium Fibrobacter succinogenes, and in no other species so far. We propose here the name fibro-slime domain
Probab=34.01 E-value=40 Score=20.52 Aligned_cols=23 Identities=17% Similarity=0.088 Sum_probs=19.7
Q ss_pred CceEEEEcCccccccCCccCccC
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLE 59 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~ 59 (73)
..+.|+||++-+-.++|...+..
T Consensus 28 DDvWVFIn~kLv~DlGG~H~~~~ 50 (90)
T TIGR02148 28 DDVWVFINNKLVVDIGGQHPAVP 50 (90)
T ss_pred CeEEEEECCEEEEEccCcCCCcc
Confidence 48999999999999999887654
No 224
>PF05006 DUF666: Protein of unknown function (DUF666); InterPro: IPR007703 This family contains several uncharacterised viral proteins of unknown function.
Probab=33.85 E-value=22 Score=23.72 Aligned_cols=43 Identities=16% Similarity=0.180 Sum_probs=25.3
Q ss_pred cccccccCCcccCceEEEEcCc-cccccC----CccCccCCCCEEEEEec
Q 035093 25 RPEMFMKGDSVRPGVLVLVNDC-DWELSG----QLDTTLEEKDVVVFIST 69 (73)
Q Consensus 25 ~~~l~~~~g~lr~~v~ilvNg~-~i~~l~----g~~t~l~dgD~V~i~Pp 69 (73)
-+.+++++|++||+|- =||. +|.... -.+-+=.+|-+-.+|++
T Consensus 85 YRDivdD~g~lRPyvC--~~G~l~Idl~~~~Fs~~dC~C~~gytk~~~~q 132 (155)
T PF05006_consen 85 YRDIVDDDGKLRPYVC--DNGTLDIDLENRPFSVDDCVCADGYTKMLFNQ 132 (155)
T ss_pred ccccCCCCCCcCceEe--cCCeEEEEcccCCCchhhcCcCCCCEEEEecc
Confidence 4568899999999885 2432 122221 12334456666666664
No 225
>PRK00969 hypothetical protein; Provisional
Probab=33.79 E-value=20 Score=28.10 Aligned_cols=22 Identities=23% Similarity=0.276 Sum_probs=17.9
Q ss_pred cccCccCcHHHHHHHHHHhcCc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIK 23 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~ 23 (73)
.++|+|+|++|+|++...-|++
T Consensus 11 ~~v~~g~Tl~Dal~~s~~~y~~ 32 (508)
T PRK00969 11 VTVPEGSTLKDALKASGAPYIE 32 (508)
T ss_pred eecCCCCcHHHHHhhcCCCcCC
Confidence 4789999999999977766643
No 226
>PF10531 SLBB: SLBB domain; InterPro: IPR019554 The soluble ligand-binding beta-grasp domain (SLBB) contains a beta-grasp fold. They are found in a diverse set of proteins that include the animal vitamin B12 uptake proteins; transcobalamin, intrinsic factor and the bacterial polysaccharide export proteins []. Some proteins may be part of a membrane complex involved in electron transport, others are probably involved in the export of the extracellular polysaccharide colanic acid from the cell to medium.; PDB: 3IAS_S 2FUG_A 3I9V_A 3M9S_1 3IAM_A 2YBB_1 2W8I_E 2W8H_E 2J58_D.
Probab=33.69 E-value=23 Score=19.02 Aligned_cols=15 Identities=13% Similarity=0.118 Sum_probs=11.5
Q ss_pred cccCccCcHHHHHHH
Q 035093 2 LSLTFQLIMKDLLSW 16 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~ 16 (73)
++++.+.|+.|+|..
T Consensus 14 ~~~~~g~tl~~~i~~ 28 (59)
T PF10531_consen 14 YELPPGTTLSDAIAQ 28 (59)
T ss_dssp EEEETT-BHHHHHHC
T ss_pred EEECCCCcHHHHHHH
Confidence 567889999999884
No 227
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=33.57 E-value=61 Score=18.48 Aligned_cols=54 Identities=11% Similarity=0.151 Sum_probs=33.7
Q ss_pred cCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 4 LTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
+.+..||+++=+.+.+.. |..+.+|+-. |+ +|-+++.+. ++-+++|+.|.++..
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~-Gk------~L~D~~tL~-----~y~i~~~~~i~l~~~ 74 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQRLFYR-GK------QMEDGHTLF-----DYNVGLNDIIQLLVR 74 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHeEEEeC-CE------ECCCCCCHH-----HcCCCCCCEEEEEEe
Confidence 456789999999888876 3333344432 22 233443332 567899999888653
No 228
>TIGR00501 met_pdase_II methionine aminopeptidase, type II. Methionine aminopeptidase (map) is a cobalt-binding enzyme. Bacterial and organellar examples (type I) differ from eukaroytic and archaeal (type II) examples in lacking a region of approximately 60 amino acids between the 4th and 5th cobalt-binding ligands. The role of this protein in general is to produce the mature amino end of cytosolic proteins by removing the N-terminal methionine. This model describes type II, among which the eukaryotic members typically have an N-terminal extension not present in archaeal members. It can act cotranslationally. The enzyme from rat has been shown to associate with translation initiation factor 2 (IF-2) and may have a role in translational regulation.
Probab=33.44 E-value=1.2e+02 Score=21.56 Aligned_cols=57 Identities=12% Similarity=0.173 Sum_probs=31.4
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCcccccc--CCccCccCCCCEEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS--GQLDTTLEEKDVVVFI 67 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l--~g~~t~l~dgD~V~i~ 67 (73)
+.+|.|..|+-+.+....-+.. ++..-..+|.+|..-.-+. .+.++.|++||.|.|=
T Consensus 26 i~~G~se~el~~~~e~~~~~~g-------~~~aFp~~vs~n~~~~H~~p~~~d~~~l~~GDvV~iD 84 (295)
T TIGR00501 26 IVPGVKLLEVAEFVENRIRELG-------AEPAFPCNISINECAAHFTPKAGDKTVFKDGDVVKLD 84 (295)
T ss_pred CcCCCCHHHHHHHHHHHHHHcC-------CCCCCCcceecCCEeeCCCCCCCcCccCCCCCEEEEE
Confidence 3568888888777755442211 1111112355665443222 2346789999988763
No 229
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=33.22 E-value=54 Score=19.39 Aligned_cols=32 Identities=6% Similarity=0.170 Sum_probs=23.6
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCC
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGD 33 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g 33 (73)
+++||.+....+|+.-++.| |.....+.+.+|
T Consensus 20 ~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG 53 (76)
T PF03671_consen 20 ISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDG 53 (76)
T ss_dssp EEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS
T ss_pred EecCCCCchHHHHHHHHHHcCCCCceEEEEecCC
Confidence 57899999999999999988 444444555553
No 230
>cd02791 MopB_CT_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs
Probab=33.15 E-value=37 Score=20.14 Aligned_cols=25 Identities=32% Similarity=0.291 Sum_probs=19.2
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
.+.+|-.+...++ +++||.|.|...
T Consensus 36 ~v~in~~dA~~lg-----i~~Gd~V~v~~~ 60 (122)
T cd02791 36 YVEIHPEDAARLG-----LKEGDLVRVTSR 60 (122)
T ss_pred EEEECHHHHHHcC-----CCCCCEEEEEcC
Confidence 3777988887554 899999988754
No 231
>PF02626 AHS2: Allophanate hydrolase subunit 2; InterPro: IPR003778 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 2 of allophanate hydrolase (AHS2) which is found in urea carboxylase.; PDB: 3MML_G 3VA7_A 3OEP_A 3OPF_C 3ORE_B.
Probab=33.11 E-value=36 Score=24.24 Aligned_cols=33 Identities=15% Similarity=0.072 Sum_probs=22.7
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEecCCC
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHG 72 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaG 72 (73)
...+.+||+.+.. +.-..++.||++.|-++-.|
T Consensus 54 ~~~~~lng~~~~~--~~~~~v~~Gd~L~~~~~~~G 86 (271)
T PF02626_consen 54 DFEATLNGKPVPM--WQPFLVKAGDVLKFGPPRSG 86 (271)
T ss_dssp CEEEEETTEEE-T--TSEEEE-TT-EEEEEEESSE
T ss_pred CCceEECCEEccC--CEEEEECCCCEEEecCCCCc
Confidence 4557889998863 34568999999999888654
No 232
>KOG2649 consensus Zinc carboxypeptidase [General function prediction only]
Probab=33.06 E-value=1.3e+02 Score=23.70 Aligned_cols=54 Identities=19% Similarity=0.167 Sum_probs=41.8
Q ss_pred HHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 11 KDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 11 ~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
..||..+.+-|-+.+.-++|+.|+--+...|-|.|.+=. =|.-++||-=.++||
T Consensus 367 ~sLl~f~eqvH~GIkG~V~D~~G~~I~NA~IsV~ginHd-----v~T~~~GDYWRLL~P 420 (500)
T KOG2649|consen 367 KSLLNFVEQVHRGIKGLVFDDTGNPIANATISVDGINHD-----VTTAKEGDYWRLLPP 420 (500)
T ss_pred HHHHHHHHHHHhccceeEEcCCCCccCceEEEEecCcCc-----eeecCCCceEEeeCC
Confidence 568999999999999999999999889999999987721 134456665555554
No 233
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=32.98 E-value=46 Score=19.39 Aligned_cols=26 Identities=23% Similarity=0.199 Sum_probs=19.7
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.+.+|-.+...++ |++||.|.+..+.
T Consensus 30 ~v~inp~dA~~lG-----i~~Gd~V~v~s~~ 55 (96)
T cd02788 30 YARLSPADAARLG-----LADGDLVEFSLGD 55 (96)
T ss_pred EEEECHHHHHHcC-----CCCCCEEEEEECC
Confidence 4777888877554 8999999887654
No 234
>PF01119 DNA_mis_repair: DNA mismatch repair protein, C-terminal domain; InterPro: IPR013507 This entry represents the C-terminal domain of DNA mismatch repair proteins, such as MutL. This domain functions in promoting dimerisation []. The dimeric MutL protein has a key function in communicating mismatch recognition by MutS to downstream repair processes. Mismatch repair contributes to the overall fidelity of DNA replication by targeting mispaired bases that arise through replication errors during homologous recombination and as a result of DNA damage. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1B62_A 1NHJ_A 1BKN_B 1NHH_A 1B63_A 1NHI_A 3NA3_A 1EA6_A 1H7U_A 1H7S_B ....
Probab=32.93 E-value=31 Score=21.00 Aligned_cols=15 Identities=27% Similarity=0.246 Sum_probs=11.3
Q ss_pred cCceEEEEcCccccc
Q 035093 36 RPGVLVLVNDCDWEL 50 (73)
Q Consensus 36 r~~v~ilvNg~~i~~ 50 (73)
+....++||||.|+.
T Consensus 39 ~~~q~ifVN~R~V~~ 53 (119)
T PF01119_consen 39 RDRQFIFVNGRPVEN 53 (119)
T ss_dssp CTCEEEEETTEEE--
T ss_pred CCcEEEEeCCCeEeC
Confidence 468889999999864
No 235
>COG0787 Alr Alanine racemase [Cell envelope biogenesis, outer membrane]
Probab=32.67 E-value=66 Score=24.02 Aligned_cols=32 Identities=28% Similarity=0.391 Sum_probs=23.4
Q ss_pred ceEEEEcCccccccCC---------c-cC-ccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQ---------L-DT-TLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g---------~-~t-~l~dgD~V~i~Pp 69 (73)
+.-|+|||+.....+- + +. .++.||+|.+|-+
T Consensus 286 ~~~Vli~G~r~pivGrVsMD~~~Vdl~~~~~~~~Gd~V~L~G~ 328 (360)
T COG0787 286 GTPVLINGKRVPIVGRVSMDMIMVDLTDLPQVKVGDEVELFGE 328 (360)
T ss_pred CCEEEECCEEeeEeeEEeeeeEEEECCCCCCCCCCCEEEEECC
Confidence 5779999998877651 1 22 3789999999853
No 236
>PF09344 Cas_CT1975: CT1975-like protein; InterPro: IPR010148 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a family of Cas proteins, which includes CT1975 of Chlorobium tepidum.
Probab=32.65 E-value=68 Score=23.93 Aligned_cols=54 Identities=17% Similarity=0.226 Sum_probs=44.7
Q ss_pred cHHHHHHHHHHhcCcccccccccCCcccCceEEEE-cCccccccCCccCccCCCCE
Q 035093 9 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLV-NDCDWELSGQLDTTLEEKDV 63 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilv-Ng~~i~~l~g~~t~l~dgD~ 63 (73)
.+..+++.+..-.|.-+.+=|... .+-.+|++-+ +++.+..-+-.+.|++.++.
T Consensus 241 ~~~afv~a~~~~~P~GKqnsfA~~-t~p~~vlv~~r~~qP~sLa~AFe~PV~~~~~ 295 (354)
T PF09344_consen 241 AVEAFVEAFATSMPTGKQNSFAAR-TLPDLVLVEVRDDQPRSLANAFEKPVRAGDG 295 (354)
T ss_pred HHHHHHHHHHhhCCCccccCCCCC-CCcceEEEEecCCCchhHHHHHhcCcCCCCC
Confidence 567788888888898888888653 6888999999 88889988999999988764
No 237
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=32.62 E-value=39 Score=20.10 Aligned_cols=20 Identities=15% Similarity=0.062 Sum_probs=17.6
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+-+.++.|+.|+|+..|+++
T Consensus 14 v~vrp~~tv~dvLe~aCk~~ 33 (77)
T cd01818 14 TYLRPGMSVEDFLESACKRK 33 (77)
T ss_pred EEECCCCCHHHHHHHHHHhc
Confidence 45778999999999999987
No 238
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=32.42 E-value=63 Score=18.89 Aligned_cols=21 Identities=10% Similarity=0.053 Sum_probs=18.7
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+.+++..++.+|.+.++++++
T Consensus 14 ~~l~~~~~~~~L~~~i~~r~~ 34 (82)
T cd06407 14 FRLPPSWGFTELKQEIAKRFK 34 (82)
T ss_pred EEcCCCCCHHHHHHHHHHHhC
Confidence 567888999999999999985
No 239
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=32.41 E-value=31 Score=21.43 Aligned_cols=15 Identities=13% Similarity=0.107 Sum_probs=12.5
Q ss_pred cCceEEEEcCccccc
Q 035093 36 RPGVLVLVNDCDWEL 50 (73)
Q Consensus 36 r~~v~ilvNg~~i~~ 50 (73)
|....++||||.|+.
T Consensus 47 ~~~q~~fVNgR~V~~ 61 (127)
T cd03483 47 KIIFILFINNRLVEC 61 (127)
T ss_pred CceEEEEEcCCEecC
Confidence 567789999999974
No 240
>PHA02582 10 baseplate wedge subunit and tail pin; Provisional
Probab=32.32 E-value=61 Score=25.95 Aligned_cols=33 Identities=24% Similarity=0.408 Sum_probs=27.5
Q ss_pred cCceEEEEcCccccccCCccCccCCCCEEEEEecCCC
Q 035093 36 RPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHG 72 (73)
Q Consensus 36 r~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaG 72 (73)
.++=++-++|++||. ..|.+.||.|.|..-..|
T Consensus 216 ~~g~l~~LdG~~Irl----r~pc~~gDtv~i~ty~dg 248 (604)
T PHA02582 216 NPGELVPLDGKSIRL----RQPCNAGDTVQIVTYMDG 248 (604)
T ss_pred CCCceeccCCceeEe----ecccCCCCeEEEEEeecc
Confidence 677789999999995 588999999999876544
No 241
>PF13562 NTP_transf_4: Sugar nucleotidyl transferase
Probab=32.01 E-value=44 Score=21.76 Aligned_cols=11 Identities=18% Similarity=-0.010 Sum_probs=8.2
Q ss_pred ceEEEEcCccc
Q 035093 38 GVLVLVNDCDW 48 (73)
Q Consensus 38 ~v~ilvNg~~i 48 (73)
.-+++|||+=+
T Consensus 65 ~~~l~INgr~l 75 (156)
T PF13562_consen 65 DDNLLINGRFL 75 (156)
T ss_pred CceEEEecccc
Confidence 45689999865
No 242
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=31.92 E-value=46 Score=21.12 Aligned_cols=20 Identities=5% Similarity=0.245 Sum_probs=17.3
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+-+.+-+|..|+|+.|.++|
T Consensus 40 VrVsS~~tt~eVI~~LLeKF 59 (112)
T cd01782 40 IRVSSTATTRDVIDTLSEKF 59 (112)
T ss_pred EEEecCCCHHHHHHHHHHHh
Confidence 34677899999999999988
No 243
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=31.47 E-value=76 Score=20.37 Aligned_cols=52 Identities=8% Similarity=-0.087 Sum_probs=35.7
Q ss_pred cCccCcHHHHHHHHHHhcCccc--ccccccCC--------cc--cCceEEEEcCccccccCCcc
Q 035093 4 LTFQLIMKDLLSWVGTNLIKER--PEMFMKGD--------SV--RPGVLVLVNDCDWELSGQLD 55 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~--~~l~~~~g--------~l--r~~v~ilvNg~~i~~l~g~~ 55 (73)
-||...|.=+|+.|.+.|++.+ --..+-+. ++ -|.++++-||+-+..+.|.-
T Consensus 48 ~~E~~D~avvleELa~e~~~~~v~~akVDiD~~~~LA~~fgV~siPTLl~FkdGk~v~~i~G~~ 111 (132)
T PRK11509 48 TPEVSDNPVMIGELLREFPDYTWQVAIADLEQSEAIGDRFGVFRFPATLVFTGGNYRGVLNGIH 111 (132)
T ss_pred CCccccHHHHHHHHHHHhcCCceEEEEEECCCCHHHHHHcCCccCCEEEEEECCEEEEEEeCcC
Confidence 4677889999999999997432 11112111 12 37899999999998877653
No 244
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=31.28 E-value=33 Score=25.88 Aligned_cols=17 Identities=24% Similarity=0.302 Sum_probs=14.2
Q ss_pred ccCCccCccCCCCEEEE
Q 035093 50 LSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i 66 (73)
.+.|.|+.++|||.|.|
T Consensus 352 r~~GkdY~vqdGDVi~F 368 (372)
T COG0012 352 RLEGKDYIVQDGDVIHF 368 (372)
T ss_pred eeccccceecCCCEEEE
Confidence 45889999999999954
No 245
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=31.25 E-value=44 Score=26.89 Aligned_cols=26 Identities=15% Similarity=0.434 Sum_probs=19.9
Q ss_pred EEEcCcc---ccccCCccCccCCCCEEEE
Q 035093 41 VLVNDCD---WELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 41 ilvNg~~---i~~l~g~~t~l~dgD~V~i 66 (73)
-+|||.+ ++.-.+..+.|++||+|.|
T Consensus 606 T~v~~~~~~r~~~~p~~~~~l~~~d~I~~ 634 (668)
T PLN02927 606 TYVTDNEGRRYRATPNFPARFRSSDIIEF 634 (668)
T ss_pred cEEeCCCCceEecCCCCceEeCCCCEEEe
Confidence 5676666 6655567899999999987
No 246
>COG4110 Uncharacterized protein involved in stress response [General function prediction only]
Probab=31.23 E-value=62 Score=22.17 Aligned_cols=48 Identities=19% Similarity=0.322 Sum_probs=33.7
Q ss_pred cccCccCcHHHHHHHHHHhcCccc--ccccc----cCCcccCceEEEEcCcccccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKER--PEMFM----KGDSVRPGVLVLVNDCDWELS 51 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~--~~l~~----~~g~lr~~v~ilvNg~~i~~l 51 (73)
++|..|+ +-++++|..++...+ +.++. .+|..+.+=+.-+||+++.|.
T Consensus 58 ~~LnDGs--kGviQALGN~FGSy~~~Pyi~LdgDDRtG~~~dGE~l~Ing~~~khi 111 (200)
T COG4110 58 VELNDGS--KGVIQALGNAFGSYRDEPYVQLDGDDRTGDVSDGEWLHINGREWKHI 111 (200)
T ss_pred EEecCCc--hHHHHHHhhhhcccccCceEEecCCcCCCcccCCceEEEcchhhhhh
Confidence 3444444 568888888887654 34443 356788889999999998875
No 247
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=31.21 E-value=37 Score=20.59 Aligned_cols=26 Identities=23% Similarity=0.335 Sum_probs=20.3
Q ss_pred EEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 40 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 40 ~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.+.+|-.+...++ |++||.|.+..+-
T Consensus 35 ~v~i~p~dA~~lg-----i~~Gd~V~v~s~~ 60 (127)
T cd02777 35 PVWINPLDAAARG-----IKDGDIVRVFNDR 60 (127)
T ss_pred eEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 3888988887655 8899999887653
No 248
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=31.18 E-value=49 Score=19.96 Aligned_cols=27 Identities=15% Similarity=0.044 Sum_probs=20.1
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-.+.+|-.+-..++ |++||.|.+....
T Consensus 33 ~~v~inp~dA~~~g-----i~~Gd~V~v~s~~ 59 (130)
T cd02781 33 PVAEINPETAAKLG-----IADGDWVWVETPR 59 (130)
T ss_pred CEEEECHHHHHHcC-----CCCCCEEEEECCC
Confidence 34777888876554 8999999887654
No 249
>PRK13754 conjugal transfer fertility inhibition protein FinO; Provisional
Probab=31.08 E-value=43 Score=22.99 Aligned_cols=25 Identities=12% Similarity=0.061 Sum_probs=19.1
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCcccC
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVRP 37 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~ 37 (73)
....++|..|.+.||. +|+. |+.+|
T Consensus 71 ~~~keaI~~Lae~wP~----lF~~-g~~kP 95 (186)
T PRK13754 71 PPLDEAVNTLKPWWPG----LFDG-DTPRL 95 (186)
T ss_pred CCHHHHHHHHHHhhHH----hcCC-CCCCc
Confidence 4678999999999997 5654 55665
No 250
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=30.99 E-value=48 Score=19.93 Aligned_cols=20 Identities=10% Similarity=0.145 Sum_probs=17.3
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+++.+..|++|+.+.|..+.
T Consensus 17 l~V~~~~Ta~dV~~~L~~K~ 36 (85)
T cd01787 17 LEVDERMTARDVCQLLVDKN 36 (85)
T ss_pred EEEcCCCcHHHHHHHHHHHh
Confidence 56788999999999999865
No 251
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=30.75 E-value=75 Score=23.59 Aligned_cols=36 Identities=0% Similarity=0.144 Sum_probs=27.2
Q ss_pred CcHHHHHHHHHHhcCcc---cccccccCCcccCceEEEEcCc
Q 035093 8 LIMKDLLSWVGTNLIKE---RPEMFMKGDSVRPGVLVLVNDC 46 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~---~~~l~~~~g~lr~~v~ilvNg~ 46 (73)
.||.-+++.|.++.++- .+++++++ ++.|.|+.+|.
T Consensus 110 vTve~firLLt~r~~en~p~sKrlltdE---~SNIfIYmtGH 148 (382)
T COG5206 110 VTVEVFIRLLTARSGENHPKSKRLLTDE---SSNIFIYMTGH 148 (382)
T ss_pred chHHHHHHHHHhhccCCChhhhhhcccc---cCcEEEEEccC
Confidence 58999999999988766 34455433 56889999984
No 252
>COG4390 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.32 E-value=48 Score=20.58 Aligned_cols=25 Identities=24% Similarity=0.327 Sum_probs=19.3
Q ss_pred ccccCCccCccCCCCEEEEEecCCC
Q 035093 48 WELSGQLDTTLEEKDVVVFISTLHG 72 (73)
Q Consensus 48 i~~l~g~~t~l~dgD~V~i~PpvaG 72 (73)
|+++.|++-.=-+|.+|.-+|.+.|
T Consensus 13 Id~l~gldi~DG~g~~vh~Ipa~~G 37 (106)
T COG4390 13 IDHLGGLDVQDGDGKTVHHIPAVQG 37 (106)
T ss_pred cccccceeeecCCCceEeecccccC
Confidence 6677777766667778999999887
No 253
>PLN02908 threonyl-tRNA synthetase
Probab=30.26 E-value=82 Score=25.12 Aligned_cols=45 Identities=13% Similarity=0.235 Sum_probs=31.8
Q ss_pred cCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 7 QLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
++|..++.+.+...++ ++-|...|||+-| .++++|+...+|.|+.
T Consensus 68 ~tt~~~ia~~i~~~~~-------------~~~v~a~Vng~l~----dL~~~l~~d~~le~l~ 112 (686)
T PLN02908 68 VTTPMDIAKEISKGLA-------------NSALIAQVDGVLW----DMTRPLEGDCKLKLFK 112 (686)
T ss_pred CCCHHHHHHHhCccch-------------hhcEEEEECCEEe----ecCccccCCCeeEEec
Confidence 4677777776654332 2357888999744 4689999888998874
No 254
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia []. This entry represents the conserved N-terminal winged-helix domain, which is likely to bind DNA.
Probab=30.22 E-value=55 Score=19.48 Aligned_cols=19 Identities=5% Similarity=-0.094 Sum_probs=16.8
Q ss_pred cCcHHHHHHHHHHhcCccc
Q 035093 7 QLIMKDLLSWVGTNLIKER 25 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~ 25 (73)
.+|+..|+++|.+.||+..
T Consensus 29 ~at~E~l~~~L~~~yp~i~ 47 (80)
T PF10264_consen 29 PATQETLREHLRKHYPGIA 47 (80)
T ss_pred cchHHHHHHHHHHhCCCCC
Confidence 4799999999999999873
No 255
>cd02789 MopB_CT_FmdC-FwdD The MopB_FmdC-FwdD CD includes the C-terminus of subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC) and subunit D of tungsten formylmethanofuran dehydrogenase (FwdD), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea and some eubacteria. Members of this CD belong to the molybdopterin_binding superfamily of proteins. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=30.12 E-value=45 Score=19.94 Aligned_cols=29 Identities=28% Similarity=0.295 Sum_probs=22.0
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+.-.|++|-.+.+.++ |++||.|.+..+.
T Consensus 29 ~~~~v~i~p~dA~~lg-----i~~Gd~V~v~~~~ 57 (106)
T cd02789 29 ACAYCEINPEDYKLLG-----KPEGDKVKVTSEF 57 (106)
T ss_pred CCcEEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 3446888998887655 9999999887654
No 256
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=29.94 E-value=1.2e+02 Score=21.00 Aligned_cols=49 Identities=8% Similarity=0.064 Sum_probs=34.3
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCc---------ccCceEEEEcCccccccCCccCccCCC
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDS---------VRPGVLVLVNDCDWELSGQLDTTLEEK 61 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~---------lr~~v~ilvNg~~i~~l~g~~t~l~dg 61 (73)
+=+.+.++.|...+|. ..-||-+++. |.....|+| |+..+|.++|.|-|
T Consensus 81 ~m~~~ai~~l~~~~~~-~Dll~iEs~GNL~~~~sp~L~d~~~v~V----idvteGe~~P~K~g 138 (202)
T COG0378 81 SMNLEAIEELVLDFPD-LDLLFIESVGNLVCPFSPDLGDHLRVVV----IDVTEGEDIPRKGG 138 (202)
T ss_pred HHHHHHHHHHhhcCCc-CCEEEEecCcceecccCcchhhceEEEE----EECCCCCCCcccCC
Confidence 3467889999999987 6677887665 333455555 44668999988844
No 257
>TIGR00492 alr alanine racemase. This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism.
Probab=29.91 E-value=60 Score=23.37 Aligned_cols=29 Identities=28% Similarity=0.278 Sum_probs=21.6
Q ss_pred EEEEcCccccccCC---------c-c-CccCCCCEEEEEe
Q 035093 40 LVLVNDCDWELSGQ---------L-D-TTLEEKDVVVFIS 68 (73)
Q Consensus 40 ~ilvNg~~i~~l~g---------~-~-t~l~dgD~V~i~P 68 (73)
.|+|||+.+..++. + + ..++.||+|.||-
T Consensus 296 ~v~i~g~~~~i~G~i~MD~~~vdv~~~~~~~~Gd~v~l~g 335 (367)
T TIGR00492 296 PVLVNGKRVPIVGRVCMDMIMVDLGPDLQDKTGDEVILWG 335 (367)
T ss_pred EEEECCEEeeeeeEEecceEEEECCCCCCCCCCCEEEEEC
Confidence 58889999987764 1 1 1467799999984
No 258
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=29.90 E-value=46 Score=22.39 Aligned_cols=28 Identities=14% Similarity=0.064 Sum_probs=22.8
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEE
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
....+.|+-+-..++.+|.|++||.+.|
T Consensus 67 fv~ILeGE~~l~~d~~e~~lrpGD~~gF 94 (161)
T COG3837 67 FVYILEGEGTLREDGGETRLRPGDSAGF 94 (161)
T ss_pred EEEEEcCceEEEECCeeEEecCCceeec
Confidence 3445688888888999999999998876
No 259
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=29.74 E-value=46 Score=20.00 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=19.2
Q ss_pred EEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
+.+|-.+...++ |++||.|.+..+-
T Consensus 32 v~i~p~~A~~~g-----i~~Gd~V~v~s~~ 56 (121)
T cd02794 32 VWINPLDAAARG-----IKDGDRVLVFNDR 56 (121)
T ss_pred EEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 678888876554 8999999887654
No 260
>PRK14132 riboflavin kinase; Provisional
Probab=29.36 E-value=39 Score=21.73 Aligned_cols=10 Identities=40% Similarity=0.604 Sum_probs=8.8
Q ss_pred ccCCCCEEEE
Q 035093 57 TLEEKDVVVF 66 (73)
Q Consensus 57 ~l~dgD~V~i 66 (73)
.|+|||+|.|
T Consensus 115 ~LkDGD~V~I 124 (126)
T PRK14132 115 NLKDGDVVKI 124 (126)
T ss_pred CCCCCCEEEE
Confidence 6899999987
No 261
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=29.22 E-value=75 Score=15.63 Aligned_cols=19 Identities=16% Similarity=0.163 Sum_probs=12.4
Q ss_pred ccCccC-cHHHHHHHHHHhc
Q 035093 3 SLTFQL-IMKDLLSWVGTNL 21 (73)
Q Consensus 3 ~l~~~~-TV~~ll~~L~~~~ 21 (73)
..+++. |-.+||+.+.+.|
T Consensus 19 ~~~~~~~~rd~Ll~~~k~~y 38 (38)
T PF10281_consen 19 PVPKSAKTRDELLKLAKKNY 38 (38)
T ss_pred CCCCCCCCHHHHHHHHHHhC
Confidence 345565 7777877776654
No 262
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=29.17 E-value=60 Score=19.30 Aligned_cols=28 Identities=18% Similarity=0.090 Sum_probs=20.3
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
.-.+.+|-.+...++ |++||.|.+..+.
T Consensus 29 ~~~v~i~p~dA~~~g-----i~~Gd~V~v~s~~ 56 (123)
T cd02778 29 ENTLWINPETAARLG-----IKDGDRVEVSSAR 56 (123)
T ss_pred CCeEEECHHHHHHcC-----CCCCCEEEEEeCC
Confidence 345778888876554 8999999887653
No 263
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.91 E-value=44 Score=20.21 Aligned_cols=14 Identities=14% Similarity=0.361 Sum_probs=11.4
Q ss_pred CccCCCCEEEEEec
Q 035093 56 TTLEEKDVVVFIST 69 (73)
Q Consensus 56 t~l~dgD~V~i~Pp 69 (73)
-.|++.|+|+||.-
T Consensus 32 ~~L~dDde~aIfnI 45 (88)
T COG4009 32 VDLNDDDELAIFNI 45 (88)
T ss_pred cccCCCCcEEEEEe
Confidence 35899999999863
No 264
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=28.74 E-value=41 Score=22.81 Aligned_cols=21 Identities=19% Similarity=0.079 Sum_probs=14.6
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+-+|...||+||++.+..+..
T Consensus 38 ~~vpk~~tV~Dll~~l~~k~~ 58 (213)
T PF14533_consen 38 LLVPKTGTVSDLLEELQKKVG 58 (213)
T ss_dssp E--BTT-BHHHHHHHHHTT--
T ss_pred EEECCCCCHHHHHHHHHHHcC
Confidence 457888999999999999873
No 265
>COG3263 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]
Probab=28.62 E-value=65 Score=25.50 Aligned_cols=28 Identities=29% Similarity=0.304 Sum_probs=22.8
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
..|+-||+.++.-+ +|.+++||.+.++-
T Consensus 442 ~~v~Rd~q~i~p~g--~t~l~~gD~l~v~~ 469 (574)
T COG3263 442 AAVFRDGQLIHPQG--STRLREGDVLCVIG 469 (574)
T ss_pred eeEEecCceeccCC--CceeecCCEEEEEe
Confidence 45788999997643 89999999998874
No 266
>TIGR00478 tly hemolysin TlyA family protein. Hemolysins are exotoxins that attack blood cell membranes and cause cell rupture, often by forming a pore in the membrane. At least two members of this protein family have been characterized indirectly as pore-forming hemolysins, one from the spirochete Serpula (Treponema) hyodysenteriae and one from Mycobacterium tuberculosis. However, homology domains in this protein suggest methyltransferase activity (pfam01728) and RNA-binding activity (pfam01479).
Probab=28.27 E-value=61 Score=22.40 Aligned_cols=24 Identities=17% Similarity=0.183 Sum_probs=18.2
Q ss_pred EEEcCccccccCCccCccCCCCEEEEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
|+|||+.+.. ..++++++|+|.+-
T Consensus 27 V~Vng~~v~k---~s~~V~~~d~I~v~ 50 (228)
T TIGR00478 27 VLVNGKKVDK---PSALVDFDAKIELL 50 (228)
T ss_pred EEECCEEeCC---CCCCCCCCCEEecc
Confidence 6789987743 46789999988774
No 267
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=28.07 E-value=50 Score=19.96 Aligned_cols=27 Identities=22% Similarity=0.177 Sum_probs=20.0
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-.|.+|-.+...++ |++||.|.+..+.
T Consensus 33 ~~v~i~p~dA~~~g-----i~~Gd~V~v~s~~ 59 (129)
T cd02782 33 CTLRIHPDDAAALG-----LADGDKVRVTSAA 59 (129)
T ss_pred ceEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 34777888876544 8999999887653
No 268
>TIGR00092 GTP-binding protein YchF. This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.
Probab=28.04 E-value=31 Score=25.81 Aligned_cols=16 Identities=19% Similarity=0.260 Sum_probs=13.7
Q ss_pred cCCccCccCCCCEEEE
Q 035093 51 SGQLDTTLEEKDVVVF 66 (73)
Q Consensus 51 l~g~~t~l~dgD~V~i 66 (73)
++|.++.++|||.|.|
T Consensus 349 ~eGK~YivqDGDIi~f 364 (368)
T TIGR00092 349 LEGKYYVVDDGDVLFF 364 (368)
T ss_pred hcCCeEEeeCCeEEEE
Confidence 6788999999998876
No 269
>cd02780 MopB_CT_Tetrathionate_Arsenate-R This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins.
Probab=27.80 E-value=63 Score=20.08 Aligned_cols=27 Identities=22% Similarity=0.153 Sum_probs=20.1
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-.+.+|-.+-..++ |++||.|.|..+.
T Consensus 30 ~~v~inp~dA~~lg-----I~~Gd~V~v~s~~ 56 (143)
T cd02780 30 NPVWINPEDAAKLG-----IKTGDRVRVVTPG 56 (143)
T ss_pred CEEEECHHHHHHcC-----CCCCCEEEEEeCC
Confidence 35777888877554 8999999887653
No 270
>cd00782 MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. Included in this group are proteins similar to human MLH1, hPMS2, hPMS1, hMLH3 and E. coli MutL, MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot synd
Probab=27.77 E-value=42 Score=20.16 Aligned_cols=15 Identities=13% Similarity=0.147 Sum_probs=12.3
Q ss_pred ccCceEEEEcCcccc
Q 035093 35 VRPGVLVLVNDCDWE 49 (73)
Q Consensus 35 lr~~v~ilvNg~~i~ 49 (73)
-+....++||||.|.
T Consensus 42 ~~~~q~~fVN~R~v~ 56 (122)
T cd00782 42 SKDRQFLFVNGRPVR 56 (122)
T ss_pred CCccEEEEECCeEec
Confidence 356788999999987
No 271
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=27.39 E-value=40 Score=17.76 Aligned_cols=29 Identities=7% Similarity=0.009 Sum_probs=19.8
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
.+.+.+.|+=.-.++|....++.||.+.+
T Consensus 21 e~~~vl~G~~~~~~~~~~~~l~~Gd~~~i 49 (71)
T PF07883_consen 21 EFFYVLSGEGTLTVDGERVELKPGDAIYI 49 (71)
T ss_dssp EEEEEEESEEEEEETTEEEEEETTEEEEE
T ss_pred EEEEEEECCEEEEEccEEeEccCCEEEEE
Confidence 34556666654456777788999986655
No 272
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=27.34 E-value=46 Score=21.10 Aligned_cols=14 Identities=29% Similarity=0.432 Sum_probs=11.7
Q ss_pred cCccCCCCEEEEEe
Q 035093 55 DTTLEEKDVVVFIS 68 (73)
Q Consensus 55 ~t~l~dgD~V~i~P 68 (73)
...|++||.|+++-
T Consensus 50 Gn~L~dGDsV~lIK 63 (112)
T COG2824 50 GNLLADGDSVTLIK 63 (112)
T ss_pred CcEeccCCeEEEEE
Confidence 46799999999874
No 273
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=27.33 E-value=44 Score=20.59 Aligned_cols=16 Identities=13% Similarity=-0.263 Sum_probs=12.8
Q ss_pred ccCceEEEEcCccccc
Q 035093 35 VRPGVLVLVNDCDWEL 50 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~ 50 (73)
-|....++||||.++.
T Consensus 42 ~~~~q~ifVN~R~V~~ 57 (123)
T cd03482 42 QADIQYFYVNGRMVRD 57 (123)
T ss_pred CCCcEEEEEcCcEECC
Confidence 3567899999999863
No 274
>PF01982 CTP-dep_RFKase: Domain of unknown function DUF120; InterPro: IPR023602 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents a CTP-dependent riboflavin kinase domain, found primarily in archaea, that catalyses the phosphorylation of riboflavin to form flavin mononucleotide in riboflavin biosynthesis. Its structure resembles a RIFT barrel, structurally similar to but topologically distinct from bacterial and eukaryotic examples []. The N-terminal is a winged helix-turn-helix DNA-binding domain, and the C-terminal half is most similar in sequence to a group of cradle-loop barrels.; GO: 0016773 phosphotransferase activity, alcohol group as acceptor; PDB: 2VBV_A 2VBU_A 2VBS_A 2VBT_A 2P3M_A 2OYN_A 3CTA_A.
Probab=27.25 E-value=38 Score=21.61 Aligned_cols=10 Identities=30% Similarity=0.338 Sum_probs=5.7
Q ss_pred ccCCCCEEEE
Q 035093 57 TLEEKDVVVF 66 (73)
Q Consensus 57 ~l~dgD~V~i 66 (73)
.|+|||+|.+
T Consensus 110 ~L~DGD~V~v 119 (121)
T PF01982_consen 110 GLKDGDEVEV 119 (121)
T ss_dssp T--TT-EEEE
T ss_pred CCCCCCEEEE
Confidence 6899999876
No 275
>PRK04980 hypothetical protein; Provisional
Probab=27.22 E-value=66 Score=19.92 Aligned_cols=18 Identities=6% Similarity=0.045 Sum_probs=16.4
Q ss_pred ccCcHHHHHHHHHHhcCc
Q 035093 6 FQLIMKDLLSWVGTNLIK 23 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~~~ 23 (73)
+|.|+.+|.+.|.+.||.
T Consensus 73 Eg~sL~elk~~i~~iYp~ 90 (102)
T PRK04980 73 ENMTLPELKQVIAEIYPN 90 (102)
T ss_pred hCCCHHHHHHHHHHHCCC
Confidence 577999999999999997
No 276
>PF14044 NETI: NETI protein
Probab=26.98 E-value=66 Score=18.06 Aligned_cols=30 Identities=13% Similarity=0.143 Sum_probs=22.0
Q ss_pred cccCccCcHHHHHHHHHHhc--Cccc--cccccc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKER--PEMFMK 31 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~--~~l~~~ 31 (73)
+++.++.|+.+-|+.+.+.- |--+ +-+|-+
T Consensus 2 FeV~enETI~~CL~RM~~eGY~PvrR~EkPiF~e 35 (57)
T PF14044_consen 2 FEVEENETISDCLARMKKEGYMPVRRIEKPIFKE 35 (57)
T ss_pred eeccCCCcHHHHHHHHHHcCCCceeeccccceEE
Confidence 68899999999999998764 4322 236654
No 277
>cd03865 M14_CPE_H Peptidase M14 Carboxypeptidase (CP) E (CPE, also known as carboxypeptidase H, and enkephalin convertase; EC 3.4.17.10) belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPE is an important enzyme responsible for the proteolytic processing of prohormone intermediates (such as pro-insulin, pro-opiomelanocortin, or pro-gonadotropin-releasing hormone) by specifically removing C-terminal basic residues. In addition, it has been proposed that the regulated secretory pathway (RSP) of the nervous and endocrine systems utilizes membrane-bound CPE as a sorting receptor. A naturally occurring point mutation in CPE reduces the stability of the enzyme and causes its degradation, leading to an accumulation of numerous neuroendocrine pe
Probab=26.96 E-value=1.4e+02 Score=22.57 Aligned_cols=56 Identities=9% Similarity=0.066 Sum_probs=40.5
Q ss_pred cHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 9 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
.-..||..+.+.+.+.+..+.+..|+.-++..|.|.|.+.. . +.=.+||--.++||
T Consensus 313 n~~all~~~~q~~~gI~G~V~D~~g~pI~~AtV~V~g~~~~----~-~T~~~G~Y~~~L~p 368 (402)
T cd03865 313 NKNSLVNYIEQVHRGVKGFVKDLQGNPIANATISVEGIDHD----I-TSAKDGDYWRLLAP 368 (402)
T ss_pred HHHHHHHHHHHhccceEEEEECCCCCcCCCeEEEEEcCccc----c-EECCCeeEEECCCC
Confidence 34678999999999999999998888888888999886532 1 22356665544443
No 278
>PRK08493 NADH dehydrogenase subunit G; Validated
Probab=26.86 E-value=1.3e+02 Score=24.96 Aligned_cols=61 Identities=7% Similarity=-0.197 Sum_probs=40.1
Q ss_pred cccCccCcHHHHHHHHHHhcCccccc-ccccCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKERPE-MFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~~~~-l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+++++|.||-++++...-..|.+-.+ -+...|. -+--.|-|||+.+. .=.|++++|-+|.-
T Consensus 11 v~~~~G~til~aa~~~gi~iP~lC~~~~~~~~G~-Cr~C~VeV~G~~~~---AC~t~v~dGM~V~T 72 (819)
T PRK08493 11 CEAQEGEYILNVARRNGIFIPAICYLSGCSPTLA-CRLCMVEADGKRVY---SCNTKAKEGMNILT 72 (819)
T ss_pred EEeCCCCHHHHHHHHcCCccccccccCCCCCCcc-ccceEEEECCEEec---cccCCCCCCCEEEe
Confidence 57889999999999876666654211 1111222 23456788998743 45789999998864
No 279
>PF04352 ProQ: ProQ/FINO family; InterPro: IPR016103 This entry represents a structural domain consisting of six helices in an irregular non-globular array; it also contains two small beta-hairpins. This domain is found in the RNA-binding fertility inhibitor FinO that represses the conjugative transfer of F-like plasmids in Escherichia coli. FinO blocks the translation of TraJ, a positive activator of transcription of gene thereby protecting it from degradation, and catalyses FinP-TraJ mRNA hybridization. Interactions between these two RNAs are predicted to block the TraJ ribosomal binding site. FinO is largely helical, binds to its highest affinity binding site within FinP as a monomer, and contains two distinct RNA binding regions []. This entry also includes ProQ, which is required for full activation of the osmoprotectant transporter ProP in Escherichia coli [].; PDB: 3MW6_C 1DVO_A.
Probab=26.58 E-value=38 Score=20.95 Aligned_cols=21 Identities=19% Similarity=0.316 Sum_probs=14.5
Q ss_pred cHHHHHHHHHHhcCcccccccccCC
Q 035093 9 IMKDLLSWVGTNLIKERPEMFMKGD 33 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~~~l~~~~g 33 (73)
.+.++|..|.+.||. +|..++
T Consensus 5 ~~~~~i~~L~~~fP~----~F~~~~ 25 (114)
T PF04352_consen 5 PIKELIARLQERFPE----AFPKKG 25 (114)
T ss_dssp -HHHHHHHHTTT-GG----GECTTE
T ss_pred hHHHHHHHHHHHCHH----hcCCCC
Confidence 578899999999986 555443
No 280
>KOG3040 consensus Predicted sugar phosphatase (HAD superfamily) [General function prediction only]
Probab=26.27 E-value=1.8e+02 Score=20.92 Aligned_cols=54 Identities=22% Similarity=0.257 Sum_probs=34.7
Q ss_pred CcHHHHHHHHHHhcCcc-ccccccc---------CCcccCceEEEEcCccccccCCccCccCCCCEE
Q 035093 8 LIMKDLLSWVGTNLIKE-RPEMFMK---------GDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVV 64 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~-~~~l~~~---------~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V 64 (73)
.+=++|.+.|++--=.. .+++|++ ..++||+.+| .++--+..+|.+|. .++.+|
T Consensus 51 ~Sk~~l~~rL~rlgf~v~eeei~tsl~aa~~~~~~~~lrP~l~v--~d~a~~dF~gidTs-~pn~VV 114 (262)
T KOG3040|consen 51 ESKRNLHERLQRLGFDVSEEEIFTSLPAARQYLEENQLRPYLIV--DDDALEDFDGIDTS-DPNCVV 114 (262)
T ss_pred hhHHHHHHHHHHhCCCccHHHhcCccHHHHHHHHhcCCCceEEE--cccchhhCCCccCC-CCCeEE
Confidence 34566677776544333 2456554 5689999765 77777777999998 444443
No 281
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=26.21 E-value=44 Score=19.54 Aligned_cols=17 Identities=12% Similarity=0.042 Sum_probs=12.5
Q ss_pred CcccCccCcHHHHHHHH
Q 035093 1 MLSLTFQLIMKDLLSWV 17 (73)
Q Consensus 1 ~~~l~~~~TV~~ll~~L 17 (73)
||.=|+|+|+.++.+..
T Consensus 18 mL~rp~GATi~ei~~at 34 (72)
T PF11994_consen 18 MLRRPEGATIAEICEAT 34 (72)
T ss_pred HHcCCCCCCHHHHHHhh
Confidence 56668888888887653
No 282
>COG2411 Uncharacterized conserved protein [Function unknown]
Probab=25.92 E-value=66 Score=22.10 Aligned_cols=20 Identities=15% Similarity=0.004 Sum_probs=16.8
Q ss_pred CcHHHHHHHHHHhcCccccc
Q 035093 8 LIMKDLLSWVGTNLIKERPE 27 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~ 27 (73)
.++.||+++|.+.|+.++..
T Consensus 77 ~sreELi~~LkriYg~lr~e 96 (188)
T COG2411 77 RSREELIEELKRIYGELRDE 96 (188)
T ss_pred ccHHHHHHHHHHHcCcCCCC
Confidence 47899999999999986643
No 283
>PRK13503 transcriptional activator RhaS; Provisional
Probab=25.79 E-value=88 Score=21.01 Aligned_cols=31 Identities=10% Similarity=0.081 Sum_probs=22.7
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
.+++...|.-.-..++..+++++||.+.|-|
T Consensus 37 ei~~v~~G~~~~~i~~~~~~l~~g~~~~i~~ 67 (278)
T PRK13503 37 EIVIVEHGTGIHVFNGQPYTLSGGTVCFVRD 67 (278)
T ss_pred eEEEEecCceeeEecCCcccccCCcEEEECC
Confidence 4566667776666688888899998877655
No 284
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=25.79 E-value=68 Score=16.35 Aligned_cols=13 Identities=23% Similarity=0.105 Sum_probs=9.0
Q ss_pred ccCCCCEEEEEec
Q 035093 57 TLEEKDVVVFIST 69 (73)
Q Consensus 57 ~l~dgD~V~i~Pp 69 (73)
-|++||+|.|.+.
T Consensus 20 ~l~~Gd~v~i~~~ 32 (47)
T PF04014_consen 20 GLKPGDEVEIEVE 32 (47)
T ss_dssp TSSTTTEEEEEEE
T ss_pred CCCCCCEEEEEEe
Confidence 3677888877653
No 285
>cd06827 PLPDE_III_AR_proteobact Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases. This subfamily is composed mainly of proteobacterial alanine racemases (EC 5.1.1.1), fold type III PLP-dependent enzymes that catalyze the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. hese proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=25.74 E-value=1e+02 Score=22.43 Aligned_cols=31 Identities=32% Similarity=0.311 Sum_probs=22.2
Q ss_pred eEEEEcCccccccCC--cc------C---ccCCCCEEEEEec
Q 035093 39 VLVLVNDCDWELSGQ--LD------T---TLEEKDVVVFIST 69 (73)
Q Consensus 39 v~ilvNg~~i~~l~g--~~------t---~l~dgD~V~i~Pp 69 (73)
..|++||+.+..++. +| | .++.||+|.||-+
T Consensus 282 ~~v~i~g~~~pivGri~MD~~~vdvt~~~~~~~Gd~v~l~g~ 323 (354)
T cd06827 282 TPVLVNGQRTPLVGRVSMDMLTVDLTDLPEAKVGDPVELWGK 323 (354)
T ss_pred CEEEECCEEeeeeeEEeccEEEEECCCCCCCCCCCEEEEECC
Confidence 458899998887764 11 1 4677999999853
No 286
>COG3273 Uncharacterized conserved protein [Function unknown]
Probab=25.67 E-value=1e+02 Score=21.48 Aligned_cols=30 Identities=23% Similarity=0.367 Sum_probs=25.1
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.|+..--|.+|-+....+|.+..||+...-
T Consensus 148 rVIAIRRG~~wi~~Pd~~~~Ir~gDvLIar 177 (204)
T COG3273 148 RVIAIRRGERWIYGPDEDTKIREGDVLIAR 177 (204)
T ss_pred EEEEEecCCccccCCCccceeccCCEEEEe
Confidence 466677888999999999999999987643
No 287
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=25.66 E-value=65 Score=19.66 Aligned_cols=27 Identities=19% Similarity=0.287 Sum_probs=20.4
Q ss_pred eEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 39 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 39 v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-.+.+|-.+...++ |++||.|.+..+.
T Consensus 33 ~~v~i~p~dA~~~g-----i~~Gd~V~v~s~~ 59 (129)
T cd02793 33 EPIRINPADAAARG-----IADGDIVRVFNDR 59 (129)
T ss_pred CEEEECHHHHHHcC-----CCCCCEEEEEcCC
Confidence 34788888876554 8999999887654
No 288
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=25.66 E-value=1.3e+02 Score=18.69 Aligned_cols=19 Identities=5% Similarity=0.144 Sum_probs=16.3
Q ss_pred ccCccCcHHHHHHHHHHhc
Q 035093 3 SLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~ 21 (73)
-+|+..||.+++..|..+.
T Consensus 46 lVp~~~tv~~f~~~irk~l 64 (112)
T cd01611 46 LVPSDLTVGQFVYIIRKRI 64 (112)
T ss_pred EecCCCCHHHHHHHHHHHh
Confidence 3788999999999998775
No 289
>TIGR03268 methan_mark_3 putative methanogenesis marker protein 3. A single member of this protein family is found in each of the first ten complete genome sequences of archaeal methanogens, and nowhere else. This protein family was detected by the method of partial phylogenetic profiling (see Haft, et al., 2006). The functions of proteins in this family are unknown, but their role is likely one essential to methanogenesis.
Probab=25.66 E-value=34 Score=26.83 Aligned_cols=21 Identities=14% Similarity=0.131 Sum_probs=17.3
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
.++|+|+|++|+|++-..-|+
T Consensus 8 ~~vp~g~Tl~Dal~~s~~~y~ 28 (503)
T TIGR03268 8 VTVPDGSTVRDALKASDAPYI 28 (503)
T ss_pred eecCCCCcHHHHHhhcCCCcC
Confidence 468999999999987766665
No 290
>cd01088 MetAP2 Methionine Aminopeptidase 2. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides.
Probab=25.62 E-value=1.9e+02 Score=20.37 Aligned_cols=57 Identities=19% Similarity=0.217 Sum_probs=31.4
Q ss_pred cCccCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccc--cccCCccCccCCCCEEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDW--ELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i--~~l~g~~t~l~dgD~V~i~ 67 (73)
+.+|.|..|+-..+.+..-+.. ....-..++-+|..-. ....+.+++|++||.|.|=
T Consensus 22 i~pG~te~ei~~~~~~~i~~~G-------~~~afp~~is~n~~~~H~~p~~~d~~~l~~GDvV~iD 80 (291)
T cd01088 22 IKPGMTLLEIAEFVENRIRELG-------AGPAFPVNLSINECAAHYTPNAGDDTVLKEGDVVKLD 80 (291)
T ss_pred ccCCCcHHHHHHHHHHHHHHcC-------CCCCCCceeccCCEeeCCCCCCCCCcccCCCCEEEEE
Confidence 3467888888777765432211 1111113455565432 2223456889999998764
No 291
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=25.57 E-value=1.3e+02 Score=19.38 Aligned_cols=30 Identities=20% Similarity=0.191 Sum_probs=23.0
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
..-.|-+.|..|+..... .+..||+|.+.-
T Consensus 100 g~g~Vkv~g~~Wra~~~~--~l~~G~~V~Vv~ 129 (140)
T COG1585 100 GRGRVKVEGESWRARSDE--DLPAGDRVEVVG 129 (140)
T ss_pred CeEEEEECCeEeEEecCC--CCCCCCEEEEEE
Confidence 466789999999987644 444999998863
No 292
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=25.42 E-value=79 Score=18.51 Aligned_cols=21 Identities=10% Similarity=0.077 Sum_probs=17.4
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+++.+..||++|=+.+++.+|
T Consensus 18 ve~~~~~TV~~lK~~i~~~~~ 38 (79)
T cd01790 18 VSCFLNWTVGELKTHLSRVYP 38 (79)
T ss_pred EecCCcChHHHHHHHHHHhcC
Confidence 355788999999999998764
No 293
>COG3822 ABC-type sugar transport system, auxiliary component [General function prediction only]
Probab=25.36 E-value=47 Score=23.31 Aligned_cols=36 Identities=17% Similarity=0.237 Sum_probs=31.8
Q ss_pred ccCceEEEEcCccccccCCccCccCCCCEEEEEecC
Q 035093 35 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 70 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Ppv 70 (73)
-+..|.|-+.|+...+--|-.-+|++|..|++.|-+
T Consensus 134 ~ks~vtv~~dg~r~~~~ag~~lkL~PGesitL~Pg~ 169 (225)
T COG3822 134 EKSDVTVPVDGCRQTHTAGSQLKLSPGESITLPPGL 169 (225)
T ss_pred CCCCeEecCCCcEEEeccceeEEECCCCcEecCCCc
Confidence 346889999999999999999999999999998854
No 294
>PRK00053 alr alanine racemase; Reviewed
Probab=25.36 E-value=1.1e+02 Score=21.90 Aligned_cols=31 Identities=26% Similarity=0.273 Sum_probs=22.0
Q ss_pred eEEEEcCccccccCC--cc---------CccCCCCEEEEEec
Q 035093 39 VLVLVNDCDWELSGQ--LD---------TTLEEKDVVVFIST 69 (73)
Q Consensus 39 v~ilvNg~~i~~l~g--~~---------t~l~dgD~V~i~Pp 69 (73)
-.++|||+....++. +| ..++.||+|.||-+
T Consensus 291 ~~v~i~g~~~~i~G~i~MD~~~vdv~~~~~~~~Gd~v~l~g~ 332 (363)
T PRK00053 291 TPVLVNGRRVPIVGRVSMDQLTVDLGPDPQDKVGDEVTLWGE 332 (363)
T ss_pred CEEEECCEEceeeceeecceEEEeCCCCCCCCCCCEEEEECC
Confidence 458889998876663 11 24678999999853
No 295
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=25.26 E-value=76 Score=24.49 Aligned_cols=25 Identities=28% Similarity=0.470 Sum_probs=20.1
Q ss_pred EEEcCccccccCCccCccCCCCEEEE
Q 035093 41 VLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
.+|||.+...-.+ --.|++||+|.|
T Consensus 71 l~VNgs~~~~g~~-~~RLqqGd~i~i 95 (430)
T COG3456 71 LLVNGSDLPLGEG-SARLQQGDEILI 95 (430)
T ss_pred eeecccccCCCCC-ccccccCCEEee
Confidence 6889999865444 479999999986
No 296
>PF07313 DUF1460: Protein of unknown function (DUF1460); InterPro: IPR010846 This family consists of several hypothetical bacterial proteins of around 260 residues in length. The function of this family is unknown.; PDB: 2P1G_B 2IM9_A.
Probab=25.18 E-value=61 Score=22.49 Aligned_cols=19 Identities=16% Similarity=0.569 Sum_probs=13.8
Q ss_pred ccCccCCCCEEEEEecCCC
Q 035093 54 LDTTLEEKDVVVFISTLHG 72 (73)
Q Consensus 54 ~~t~l~dgD~V~i~PpvaG 72 (73)
....|++||.|+|..+..|
T Consensus 150 ~~~~i~~GDiI~i~t~~~G 168 (216)
T PF07313_consen 150 LLSQIKNGDIIAIVTNIKG 168 (216)
T ss_dssp HHTTS-TT-EEEEEEECTT
T ss_pred HHhcCCCCCEEEEEeCCCC
Confidence 3467999999999988765
No 297
>PRK03646 dadX alanine racemase; Reviewed
Probab=25.15 E-value=1e+02 Score=22.43 Aligned_cols=30 Identities=20% Similarity=0.155 Sum_probs=21.7
Q ss_pred eEEEEcCccccccCC--cc---------CccCCCCEEEEEe
Q 035093 39 VLVLVNDCDWELSGQ--LD---------TTLEEKDVVVFIS 68 (73)
Q Consensus 39 v~ilvNg~~i~~l~g--~~---------t~l~dgD~V~i~P 68 (73)
-.|++||+.+..++. +| ..++.||+|.||-
T Consensus 283 ~~v~i~g~~~pivGrv~MD~~~vDvt~~~~~~~Gd~V~l~G 323 (355)
T PRK03646 283 TPVLVDGVRTRTVGTVSMDMLAVDLTPCPQAGIGTPVELWG 323 (355)
T ss_pred CEEEECCEEeeeeeEEecceEEEECCCCCCCCCCCEEEEEC
Confidence 458889998877764 11 1467899999985
No 298
>KOG2776 consensus Metallopeptidase [General function prediction only]
Probab=24.67 E-value=61 Score=24.68 Aligned_cols=29 Identities=34% Similarity=0.420 Sum_probs=19.8
Q ss_pred eEEEEcCcc--cccc-CCccCccCCCCEEEEE
Q 035093 39 VLVLVNDCD--WELS-GQLDTTLEEKDVVVFI 67 (73)
Q Consensus 39 v~ilvNg~~--i~~l-~g~~t~l~dgD~V~i~ 67 (73)
.-|-||..- |..+ +..++.|++||.|-|-
T Consensus 81 T~Isvnncv~h~sPlksd~~~~Lk~GDvVKId 112 (398)
T KOG2776|consen 81 TSISVNNCVCHFSPLKSDADYTLKEGDVVKID 112 (398)
T ss_pred ceecccceeeccCcCCCCCcccccCCCEEEEE
Confidence 347788875 3333 3337799999999774
No 299
>KOG0854 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=24.62 E-value=59 Score=22.68 Aligned_cols=20 Identities=20% Similarity=0.330 Sum_probs=16.5
Q ss_pred CCccCcc--CCCCEEEEEecCC
Q 035093 52 GQLDTTL--EEKDVVVFISTLH 71 (73)
Q Consensus 52 ~g~~t~l--~dgD~V~i~Ppva 71 (73)
.+..||+ ++||.|.|.|+|.
T Consensus 173 k~VaTP~nWkpg~~vmilPtV~ 194 (224)
T KOG0854|consen 173 KGVATPVNWKPGDKVMILPTVS 194 (224)
T ss_pred cccccccccCCCCceEEcCcCC
Confidence 4567776 8999999999985
No 300
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=24.43 E-value=72 Score=17.51 Aligned_cols=22 Identities=14% Similarity=0.142 Sum_probs=18.3
Q ss_pred ccC-ccCcHHHHHHHHHHhcCcc
Q 035093 3 SLT-FQLIMKDLLSWVGTNLIKE 24 (73)
Q Consensus 3 ~l~-~~~TV~~ll~~L~~~~~~~ 24 (73)
.++ ...|..+|.+.++++++..
T Consensus 15 ~~~~~~~s~~~L~~~i~~~~~~~ 37 (81)
T cd05992 15 VVVSRSISFEDLRSKIAEKFGLD 37 (81)
T ss_pred EEecCCCCHHHHHHHHHHHhCCC
Confidence 455 7899999999999999753
No 301
>cd08783 Death_MALT1 Death domain similar to that found in Mucosa-associated lymphoid tissue-lymphoma-translocation gene 1. Death domain (DD) similar to that found in Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1). Malt1, together with Bcl10 (B-cell lymphoma 10), are the integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells) and with CARMA1 to form L-CBM (CBM complex in lymphoid immune cells), to mediate activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins
Probab=24.29 E-value=70 Score=19.80 Aligned_cols=16 Identities=6% Similarity=0.007 Sum_probs=12.7
Q ss_pred ccCcHHHHHHHHHHhc
Q 035093 6 FQLIMKDLLSWVGTNL 21 (73)
Q Consensus 6 ~~~TV~~ll~~L~~~~ 21 (73)
.|.||++|++.|.+..
T Consensus 70 rg~Tv~~Ll~~L~~Mg 85 (97)
T cd08783 70 RGCTVTELSEFLQAME 85 (97)
T ss_pred cCCcHHHHHHHHHHhh
Confidence 3789999999988754
No 302
>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=24.16 E-value=44 Score=17.62 Aligned_cols=16 Identities=13% Similarity=0.160 Sum_probs=11.4
Q ss_pred cCccCcHHHHHHHHHH
Q 035093 4 LTFQLIMKDLLSWVGT 19 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~ 19 (73)
+|....++|||+.|..
T Consensus 23 vp~~~alkELIeELvN 38 (43)
T PF03487_consen 23 VPSSTALKELIEELVN 38 (43)
T ss_dssp S-HHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHh
Confidence 4556678889888875
No 303
>COG3106 Predicted ATPase [General function prediction only]
Probab=24.10 E-value=63 Score=24.93 Aligned_cols=30 Identities=10% Similarity=-0.089 Sum_probs=26.0
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEe
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~P 68 (73)
....|..+|+.+..+.| |+++++..++|||
T Consensus 386 ~~~~V~q~g~~ipai~G--~~l~~~~~~tifP 415 (467)
T COG3106 386 RSGTVDQGGEKIPAIRG--TRLADGAPTTIFP 415 (467)
T ss_pred ceeEEccCCeEeeeEec--cccCCCceeeecC
Confidence 46678889999998875 8999999999998
No 304
>PF03369 Herpes_UL3: Herpesvirus UL3 protein; InterPro: IPR005035 Herpes simplex viruses are large DNA viruses, the genome of which encode approximately 80 genes. The UL3 gene of Human herpesvirus 2 (HHV-2) is predicted to encode a 233 amino acid protein with a molecular mass of 26 kDa. Homologues of the UL3 protein are encoded only among alphaherpesviruses. The function of the UL3 protein of Herpes simplex viruses remains unknown but it is known to localize to the nucleus and is a phosphoprotein [].
Probab=24.10 E-value=1.6e+02 Score=19.14 Aligned_cols=36 Identities=19% Similarity=0.130 Sum_probs=23.1
Q ss_pred cHHHHHHHHHHh-cCcccccccccCCcccCceEEEEcC
Q 035093 9 IMKDLLSWVGTN-LIKERPEMFMKGDSVRPGVLVLVND 45 (73)
Q Consensus 9 TV~~ll~~L~~~-~~~~~~~l~~~~g~lr~~v~ilvNg 45 (73)
-|++.|..+.+. .|. +..--..||+.+|.|-|+|-.
T Consensus 82 ~vR~qL~~vI~sRKPR-kYytrssDG~t~P~VPVfv~E 118 (134)
T PF03369_consen 82 QVRDQLYSVIQSRKPR-KYYTRSSDGRTHPAVPVFVYE 118 (134)
T ss_pred HHHHHHHHHHHhcCCc-ccccccCCCccCCcceEEEEE
Confidence 467777665543 332 222334799999999998853
No 305
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=23.99 E-value=60 Score=20.14 Aligned_cols=16 Identities=25% Similarity=0.245 Sum_probs=13.2
Q ss_pred ccCceEEEEcCccccc
Q 035093 35 VRPGVLVLVNDCDWEL 50 (73)
Q Consensus 35 lr~~v~ilvNg~~i~~ 50 (73)
-+....++||||.|+.
T Consensus 47 ~~~~q~~fVN~R~v~~ 62 (132)
T cd03485 47 KSDGKFISVNSRPVSL 62 (132)
T ss_pred cCCcEEEEECCeeccc
Confidence 3577889999999975
No 306
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=23.87 E-value=1.1e+02 Score=18.33 Aligned_cols=57 Identities=11% Similarity=0.133 Sum_probs=34.9
Q ss_pred cccCccCcHHHHHHHHHHhc--CcccccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 2 LSLTFQLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~--~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
+++|+.+-...+|+.-++.+ |.....+.+.||- - +|=..- -| +.-|+.|.++.++|-
T Consensus 20 lsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGv-----G--INP~qt---AG-nvflkhgselrliPR 78 (82)
T cd01766 20 LSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGI-----G--INPAQT---AG-NVFLKHGSELRLIPR 78 (82)
T ss_pred EeccccCchHHHHHHHHHhcCCCccceeEEecCcc-----c--cChhhc---cc-ceeeecCCEeeeccc
Confidence 57899999999999999988 3333445555541 1 122211 11 334667777777763
No 307
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=23.75 E-value=87 Score=18.54 Aligned_cols=23 Identities=13% Similarity=0.066 Sum_probs=19.7
Q ss_pred cccCccCcHHHHHHHHHHhcCcc
Q 035093 2 LSLTFQLIMKDLLSWVGTNLIKE 24 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~~~ 24 (73)
+.++.|.+..+|...|+++.+-.
T Consensus 11 i~v~~g~~y~~L~~~ls~kL~l~ 33 (78)
T cd06411 11 LRAPRGADVSSLRALLSQALPQQ 33 (78)
T ss_pred EEccCCCCHHHHHHHHHHHhcCC
Confidence 56889999999999999988543
No 308
>cd01778 RASSF1_RA Ubiquitin-like domain of RASSF1 tumour supproessor protein. RASSF1 (also known as RASSF3 and NORE1) is a tumour suppressor protein with a C-terminal Ras-associating (RA) domain that binds Ras. RASSF1 also binds the proapoptotic protein kinase MST1 and is thus thought to regulate the proapoptotic signalling pathway. RASSF1 also associates with microtubule-associated proteins like MAP1B and regulates tubulin polymerization. RASSF1 also binds CDC20 and regulates mitosis by inhibiting the anaphase-promoting complex and preventing degradation of cyclin A and cyclin B until the spindle checkpoint becomes fully operational.
Probab=23.74 E-value=1.6e+02 Score=18.10 Aligned_cols=21 Identities=5% Similarity=0.259 Sum_probs=17.2
Q ss_pred cccCccCcHHHHHHHHHHhcC
Q 035093 2 LSLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~~ 22 (73)
+-+.+..|..++|+.|-++|-
T Consensus 21 v~IsS~tTt~eVI~~LL~KF~ 41 (96)
T cd01778 21 LHISSKTTVREVIEALLKKFL 41 (96)
T ss_pred EEEecCCcHHHHHHHHHHhhe
Confidence 345677899999999999883
No 309
>COG0569 TrkA K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
Probab=23.74 E-value=1.2e+02 Score=20.67 Aligned_cols=19 Identities=37% Similarity=0.436 Sum_probs=15.2
Q ss_pred ccCCccCccCCCCEEEEEe
Q 035093 50 LSGQLDTTLEEKDVVVFIS 68 (73)
Q Consensus 50 ~l~g~~t~l~dgD~V~i~P 68 (73)
....-+|.++.||.+.++-
T Consensus 190 ~~p~g~~~l~~gD~l~v~~ 208 (225)
T COG0569 190 IIPRGDTTLEAGDRLIVIG 208 (225)
T ss_pred ecCCCCCEecCCCEEEEEE
Confidence 3455689999999999874
No 310
>COG1465 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]
Probab=23.71 E-value=97 Score=23.25 Aligned_cols=29 Identities=21% Similarity=0.156 Sum_probs=19.4
Q ss_pred EEEcCccccccCCccC-----ccCCCCEEEEEec
Q 035093 41 VLVNDCDWELSGQLDT-----TLEEKDVVVFIST 69 (73)
Q Consensus 41 ilvNg~~i~~l~g~~t-----~l~dgD~V~i~Pp 69 (73)
|+-|-+-|+...-.-+ .|++||+|.+++-
T Consensus 326 iLQNAETIkLv~~dG~pvSV~eLk~GD~vlv~~e 359 (376)
T COG1465 326 ILQNAETIKLVNPDGEPVSVAELKPGDEVLVYLE 359 (376)
T ss_pred EeccceeEEEEcCCCcEeeeEecCCCCEEEEEeh
Confidence 5667766765533222 5899999998864
No 311
>PF00538 Linker_histone: linker histone H1 and H5 family; InterPro: IPR005818 Histone proteins have central roles in both chromatin organisation (as structural units of the nucleosome) and gene regulation (as dynamic components that have a direct impact on DNA transcription and replication). Eukaryotic DNA wraps around a histone octamer to form a nucleosome, the first order of compaction of eukaryotic chromatin. The core histone octamer is composed of a central H3-H4 tetramer and two flanking H2A-H2B dimers. Each of the core histone contains a common structural motif, called the histone fold, which facilitates the interactions between the individual core histones. In addition to the core histones, there is a "linker histone" called H1 (or H5 in avian species). The linker histones present in all multicellular eukaryotes are the most divergent group of histones, with numerous cell type- and stage-specific variant. Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures. Histone H5 performs the same function as histone H1, and replaces H1 in certain cells. The structure of GH5, the globular domain of the linker histone H5 is known [, ]. The fold is similar to the DNA-binding domain of the catabolite gene activator protein, CAP, thus providing a possible model for the binding of GH5 to DNA. The linker histones, which do not contain the histone fold motif, are critical to the higher-order compaction of chromatin, because they bind to internucleosomal DNA and facilitate interactions between individual nucleosomes. In addition, H1 variants have been shown to be involved in the regulation of developmental genes. A common feature of this protein family is a tripartite structure in which a globular (H15) domain of about 80 amino acids is flanked by two less structured N- and C-terminal tails. The H15 domain is also characterised by high sequence homology among the family of linker histones. The highly conserved H15 domain is essential for the binding of H1 or H5 to the nucleosome. It consists of a three helix bundle (I-III), with a beta-hairpin at the C terminus. There is also a short three-residue stretch between helices I and II that is in the beta-strand conformation. Together with the C-terminal beta-hairpin, this strand forms the third strand of an antiparallel beta-sheet [, , , ]. Proteins known to contain a H15 domain are: - Eukaryotic histone H1. The histones H1 constitute a family with many variants, differing in their affinity for chromatin. Several variants are simultaneously present in a single cell. For example, the nucleated erythrocytes of birds contain both H1 and H5, the latter being an extreme variant of H1. - Eukaryotic MHYST family of histone acetyltransferase. Histone acetyltransferases transfer an acetyl group from acetyl-CoA to the epsylon- amino group of lysine within the basic NH2-termini of histones, which bind the acidic phosphates of DNA []. This entry represents the H15 domain.; GO: 0003677 DNA binding, 0006334 nucleosome assembly, 0000786 nucleosome, 0005634 nucleus; PDB: 2LSO_A 2RQP_A 1UHM_A 1UST_A 1GHC_A 1HST_A 1YQA_A 1USS_A.
Probab=23.62 E-value=81 Score=17.77 Aligned_cols=18 Identities=0% Similarity=0.036 Sum_probs=16.4
Q ss_pred CccCcHHHHHHHHHHhcC
Q 035093 5 TFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~ 22 (73)
+.|+|+..+.++|.++|+
T Consensus 19 r~GsS~~aI~kyI~~~y~ 36 (77)
T PF00538_consen 19 RKGSSLQAIKKYIKAKYK 36 (77)
T ss_dssp SSSEEHHHHHHHHHHHSS
T ss_pred CCCCCHHHHHHHHHHhcC
Confidence 468999999999999997
No 312
>PF02324 Glyco_hydro_70: Glycosyl hydrolase family 70; InterPro: IPR003318 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glucosyltransferases or sucrose 6-glycosyl transferases (GTF-S) (2.4.1.5 from EC, GH70 from CAZY) catalyse the transfer of D-glucopyramnosyl units from sucrose onto acceptor molecules []. This signature roughly corresponds to the N-terminal catalytic domain of the enzyme. Members of this group also contain the putative cell wall binding repeat (IPR002479 from INTERPRO).; GO: 0009250 glucan biosynthetic process; PDB: 3AIE_G 3AIB_D 3AIC_E 3TTQ_A 3TTO_D 3KLL_A 3KLK_A 3HZ3_A.
Probab=23.55 E-value=24 Score=29.06 Aligned_cols=48 Identities=10% Similarity=0.082 Sum_probs=26.6
Q ss_pred HHHHHHHHhcCcccccccccCCc-ccCceEE------EEcCccccccCCccCccCC
Q 035093 12 DLLSWVGTNLIKERPEMFMKGDS-VRPGVLV------LVNDCDWELSGQLDTTLEE 60 (73)
Q Consensus 12 ~ll~~L~~~~~~~~~~l~~~~g~-lr~~v~i------lvNg~~i~~l~g~~t~l~d 60 (73)
+.|+.|.++||+++..---+.|. +-|.+-| +-||.+|.. -|..+.|++
T Consensus 721 ~fLdeLq~~YP~lF~~~qiSTG~~idps~kIk~WSAKYfNGTNI~g-rGa~YVLkd 775 (809)
T PF02324_consen 721 AFLDELQKKYPDLFTTKQISTGVPIDPSVKIKEWSAKYFNGTNIQG-RGAGYVLKD 775 (809)
T ss_dssp TTHHHHHHH-GGGCCSEETTTSSB--TTS--SSB-GGGEEEEE--S-S-TTSB-EE
T ss_pred HHHHHHHHhChHhhhccccccCCCCCccchhhhhhhhhcCCCcccc-CccceEeec
Confidence 57899999999987543334443 4455544 568888865 456777776
No 313
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=23.53 E-value=1.3e+02 Score=19.63 Aligned_cols=43 Identities=16% Similarity=0.340 Sum_probs=35.8
Q ss_pred cHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCcccccc
Q 035093 9 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS 51 (73)
Q Consensus 9 TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l 51 (73)
.+-..++.++++..--+++++-..-.+..+.+|-++++..+..
T Consensus 80 ~~~~fi~~vA~~~~V~~~~v~VNst~l~dG~iVki~~~yYrV~ 122 (149)
T PF11694_consen 80 QMVHFIESVAKDLGVSKEEVYVNSTALTDGMIVKIGDKYYRVI 122 (149)
T ss_pred HHHHHHHHHHHHhCCChheEEEecccccCCeEEEECCccEEEE
Confidence 4567788899888777788888888999999999999887654
No 314
>cd06826 PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2. This subfamily is composed of bacterial alanine racemases (EC 5.1.1.1) with similarity to Yersinia pestis and Vibrio cholerae alanine racemase (AR) 2. ARs catalyze the interconversion between L- and D-alanine, an essential component of the peptidoglycan layer of bacterial cell walls. These proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=23.37 E-value=1.3e+02 Score=21.78 Aligned_cols=31 Identities=26% Similarity=0.383 Sum_probs=22.7
Q ss_pred eEEEEcCccccccCC---------c-cC-ccCCCCEEEEEec
Q 035093 39 VLVLVNDCDWELSGQ---------L-DT-TLEEKDVVVFIST 69 (73)
Q Consensus 39 v~ilvNg~~i~~l~g---------~-~t-~l~dgD~V~i~Pp 69 (73)
-.|++||+.+..++. + +. .++.||+|.+|-.
T Consensus 289 ~~v~i~g~~~pivGrv~MD~~~vdvt~~~~~~~Gd~v~l~g~ 330 (365)
T cd06826 289 AHVLINGQRVPVVGKVSMNTVMVDVTDIPGVKAGDEVVLFGK 330 (365)
T ss_pred cEEEECCEEeeeeceeeeceEEEeCCCCCCCCCCCEEEEECC
Confidence 458899998887764 1 11 3678999999864
No 315
>PF13756 Stimulus_sens_1: Stimulus-sensing domain
Probab=23.28 E-value=47 Score=20.38 Aligned_cols=29 Identities=10% Similarity=0.142 Sum_probs=21.3
Q ss_pred CcHHHHHHHHHHhcCcccccccccCCcccC
Q 035093 8 LIMKDLLSWVGTNLIKERPEMFMKGDSVRP 37 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~ 37 (73)
..++.+|..|..-- ..+-+||+.+|.+--
T Consensus 4 e~a~plLrrL~~Pt-~~RARlyd~dG~Ll~ 32 (112)
T PF13756_consen 4 ERARPLLRRLISPT-RTRARLYDPDGNLLA 32 (112)
T ss_pred HHHHHHHHHhCCCC-CceEEEECCCCCEEe
Confidence 46788888886433 557789999988643
No 316
>cd06552 ASCH_yqfb_like ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=23.05 E-value=1e+02 Score=17.82 Aligned_cols=19 Identities=5% Similarity=-0.025 Sum_probs=16.2
Q ss_pred cC-cHHHHHHHHHHhcCccc
Q 035093 7 QL-IMKDLLSWVGTNLIKER 25 (73)
Q Consensus 7 ~~-TV~~ll~~L~~~~~~~~ 25 (73)
|. ++.++.+.+.+.||...
T Consensus 69 G~~s~~~~~~~l~~~Y~~~~ 88 (100)
T cd06552 69 GFPSLEELKEALKEIYPGLK 88 (100)
T ss_pred CCccHHHHHHHHHHHcCCCC
Confidence 44 89999999999999765
No 317
>PF08561 Ribosomal_L37: Mitochondrial ribosomal protein L37; InterPro: IPR013870 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 entry includes yeast MRPL37 a mitochondrial ribosomal protein [].
Probab=22.93 E-value=60 Score=19.18 Aligned_cols=25 Identities=16% Similarity=0.070 Sum_probs=18.7
Q ss_pred CcccCceEEEEcCccccccCCccCc
Q 035093 33 DSVRPGVLVLVNDCDWELSGQLDTT 57 (73)
Q Consensus 33 g~lr~~v~ilvNg~~i~~l~g~~t~ 57 (73)
|..-.+++|+.+|.|...+...++|
T Consensus 11 gt~l~GlNi~K~g~DP~al~D~EYP 35 (85)
T PF08561_consen 11 GTVLKGLNILKDGKDPVALPDSEYP 35 (85)
T ss_pred cceeeeeeeecCCCCCccCCcchhh
Confidence 4555689999999998877665553
No 318
>PF08984 DUF1858: Domain of unknown function (DUF1858); InterPro: IPR015077 This protein has no known function. It is found in various hypothetical bacterial proteins. ; PDB: 2K53_A 2K5E_A 2FI0_A.
Probab=22.84 E-value=46 Score=17.95 Aligned_cols=19 Identities=11% Similarity=0.146 Sum_probs=11.5
Q ss_pred cCcHHHHHHHHHHhcCccccccc
Q 035093 7 QLIMKDLLSWVGTNLIKERPEMF 29 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~~~l~ 29 (73)
..||.|+++ +||++.+-+.
T Consensus 4 ~~~I~el~~----~yP~~~~il~ 22 (59)
T PF08984_consen 4 DMTIYELLE----QYPELIEILV 22 (59)
T ss_dssp TSBHHHHHH----H-GGGHHHHH
T ss_pred cCCHHHHHH----HCHHHHHHHH
Confidence 456666665 8998776543
No 319
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=22.62 E-value=76 Score=18.70 Aligned_cols=20 Identities=10% Similarity=0.064 Sum_probs=15.9
Q ss_pred cccCccCcHHHHHHHHHHhc
Q 035093 2 LSLTFQLIMKDLLSWVGTNL 21 (73)
Q Consensus 2 ~~l~~~~TV~~ll~~L~~~~ 21 (73)
+++-+|.|++|.|...-+.-
T Consensus 14 V~vrpG~tl~daL~KaLk~R 33 (74)
T cd01816 14 VNVRPGMTLRDALAKALKVR 33 (74)
T ss_pred EEecCCcCHHHHHHHHHHHc
Confidence 67889999999998776543
No 320
>PF05370 DUF749: Domain of unknown function (DUF749); InterPro: IPR008032 This is a family of unknown function found in archaebacterial proteins. The family has been solved via structural genomics techniques and comprises of segregated helical and anti-parallel beta sheet regions. It is a putative metal-binding protein. ; PDB: 1IQS_A 1IQO_A.
Probab=22.57 E-value=59 Score=19.74 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=7.3
Q ss_pred ccCCCCEEEEEec
Q 035093 57 TLEEKDVVVFIST 69 (73)
Q Consensus 57 ~l~dgD~V~i~Pp 69 (73)
.|++.|+|+||--
T Consensus 32 eL~~dd~vAIlnI 44 (87)
T PF05370_consen 32 ELKDDDEVAILNI 44 (87)
T ss_dssp --SS--EEEEEE-
T ss_pred cCCCCCcEEEEEe
Confidence 6899999999863
No 321
>KOG2523 consensus Predicted RNA-binding protein with PUA domain [Translation, ribosomal structure and biogenesis]
Probab=22.52 E-value=2.1e+02 Score=19.51 Aligned_cols=49 Identities=10% Similarity=0.171 Sum_probs=31.0
Q ss_pred HHHhcCcccccccccCCccc---CceEEEEcCccccccCCc-cCccCCCCEEEEE
Q 035093 17 VGTNLIKERPEMFMKGDSVR---PGVLVLVNDCDWELSGQL-DTTLEEKDVVVFI 67 (73)
Q Consensus 17 L~~~~~~~~~~l~~~~g~lr---~~v~ilvNg~~i~~l~g~-~t~l~dgD~V~i~ 67 (73)
+-.+||....+.+-+.|.++ ++-+||.=|---. ++. .-..+.++.|+|.
T Consensus 84 llhk~p~~~~~~qvD~GAIkfvlsGAnIMcPGlts~--g~~l~~~~ekd~~V~i~ 136 (181)
T KOG2523|consen 84 LLHKYPFIFPHVQVDRGAIKFVLSGANIMCPGLTSP--GAKLPPGVEKDTIVAIM 136 (181)
T ss_pred HHhhCCCccceEEecCcceeeeecCCceEcccCCCC--cccCCCCccCCCEEEEE
Confidence 44579999999998999876 4666666663321 222 2234566677765
No 322
>PRK13340 alanine racemase; Reviewed
Probab=22.44 E-value=99 Score=22.79 Aligned_cols=31 Identities=26% Similarity=0.387 Sum_probs=22.3
Q ss_pred eEEEEcCccccccCC---------c-c-CccCCCCEEEEEec
Q 035093 39 VLVLVNDCDWELSGQ---------L-D-TTLEEKDVVVFIST 69 (73)
Q Consensus 39 v~ilvNg~~i~~l~g---------~-~-t~l~dgD~V~i~Pp 69 (73)
-.|++||+.+..++. + + ..++.||+|.||-.
T Consensus 329 ~~v~i~g~~~pivGrv~MD~~~vdvt~~~~~~~Gd~v~l~g~ 370 (406)
T PRK13340 329 APVLINGQRAPVVGRVSMNTLMVDVTDIPNVKPGDEVVLFGK 370 (406)
T ss_pred cEEEECCEEeeeeeeeecceEEEECCCCCCCCCCCEEEEECC
Confidence 358889998887764 1 1 14678999999864
No 323
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=22.41 E-value=84 Score=22.51 Aligned_cols=33 Identities=6% Similarity=-0.072 Sum_probs=23.8
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEecCCC
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHG 72 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~PpvaG 72 (73)
...+.+||+.+. ...-..++.||++.|=++..|
T Consensus 54 ~~~~~ln~~~~~--~~~~~~v~~Gd~L~~g~~~~G 86 (280)
T smart00797 54 DFPATLDGQPVP--PWKPFLVRAGQVLSLGAPKAG 86 (280)
T ss_pred CCeeeECCEEcC--CCeEEEECCCCEEEeCCCCCc
Confidence 345677888764 234468899999999877655
No 324
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=22.39 E-value=79 Score=20.49 Aligned_cols=30 Identities=7% Similarity=-0.157 Sum_probs=21.9
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEE
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~ 67 (73)
.+...+.|+=.-.+++....|+.||.+.|=
T Consensus 130 E~~~Vl~G~~~~~~~~~~~~l~~Gd~~~~~ 159 (185)
T PRK09943 130 EIGTVLEGEIVLTINGQDYHLVAGQSYAIN 159 (185)
T ss_pred EEEEEEEeEEEEEECCEEEEecCCCEEEEc
Confidence 445666777666678888889999988763
No 325
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=22.33 E-value=59 Score=18.38 Aligned_cols=13 Identities=8% Similarity=0.486 Sum_probs=11.2
Q ss_pred ccCCCCEEEEEec
Q 035093 57 TLEEKDVVVFIST 69 (73)
Q Consensus 57 ~l~dgD~V~i~Pp 69 (73)
.++.||.|.+.|.
T Consensus 26 ~i~~Gd~v~i~P~ 38 (83)
T cd03698 26 SIQKGDTLLVMPS 38 (83)
T ss_pred EEeCCCEEEEeCC
Confidence 5889999999985
No 326
>cd03484 MutL_Trans_hPMS_2_like MutL_Trans_hPMS2_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM2 (hPSM2). hPSM2 belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. Included in this group are proteins similar to yeast PMS1. The yeast MLH1-PMS1 and the human MLH1-PMS2 heterodimers play a role in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Cells lacking hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hPMS2 causes predisposition to HPNCC and Turcot syndrome.
Probab=22.24 E-value=66 Score=20.34 Aligned_cols=15 Identities=13% Similarity=0.155 Sum_probs=12.3
Q ss_pred cCceEEEEcCccccc
Q 035093 36 RPGVLVLVNDCDWEL 50 (73)
Q Consensus 36 r~~v~ilvNg~~i~~ 50 (73)
+....++||||.|+.
T Consensus 63 ~~~q~~fVN~R~V~~ 77 (142)
T cd03484 63 SDRQFFYINGRPVDL 77 (142)
T ss_pred CCcEEEEECCeecCC
Confidence 456899999999864
No 327
>PRK14866 hypothetical protein; Provisional
Probab=22.10 E-value=2.4e+02 Score=21.86 Aligned_cols=32 Identities=13% Similarity=0.104 Sum_probs=26.1
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
.+-++-++++.| ++++++..+++.|.|.|++-
T Consensus 47 ~~~l~~~~~~~i-~~D~ld~~~~~~d~iIf~SR 78 (451)
T PRK14866 47 GFELREFDERHI-HLDGIAEAFFDPDLLIFASR 78 (451)
T ss_pred cEEEEEechhhe-eccchhhccCCCCEEEEEec
Confidence 466777888888 67889999999999988763
No 328
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=21.95 E-value=63 Score=17.70 Aligned_cols=30 Identities=10% Similarity=0.063 Sum_probs=17.9
Q ss_pred CceEEEEcCcccccc--CCccCcc--CCCCEEEE
Q 035093 37 PGVLVLVNDCDWELS--GQLDTTL--EEKDVVVF 66 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l--~g~~t~l--~dgD~V~i 66 (73)
..+++-|||.++... ......+ +.|+.+.+
T Consensus 34 GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l 67 (85)
T cd00988 34 GDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRL 67 (85)
T ss_pred CCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEE
Confidence 467889999988654 3332233 34665544
No 329
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=21.94 E-value=1.2e+02 Score=16.33 Aligned_cols=26 Identities=8% Similarity=0.100 Sum_probs=16.8
Q ss_pred CcHHHHHHHHHHhcCcc--cccccccCC
Q 035093 8 LIMKDLLSWVGTNLIKE--RPEMFMKGD 33 (73)
Q Consensus 8 ~TV~~ll~~L~~~~~~~--~~~l~~~~g 33 (73)
.|..++|+.+.++..-- -+++|+.+|
T Consensus 9 ~s~e~lL~~it~~v~l~~gVr~lyt~~G 36 (60)
T PF03607_consen 9 RSFEQLLDEITEKVQLPSGVRKLYTLDG 36 (60)
T ss_dssp SSHHHHHHHHHHSSSSTTS-SEEEETTS
T ss_pred cCHHHHHHHHHhhcCCCcccceEECCCC
Confidence 57889999999866211 355666543
No 330
>PRK03955 hypothetical protein; Reviewed
Probab=21.90 E-value=2.1e+02 Score=18.34 Aligned_cols=58 Identities=16% Similarity=0.220 Sum_probs=28.8
Q ss_pred cCcHHHH-HHHHHHhcCcccccccccCCc-ccCceEEEEcCccccccCCccC-ccCCCCEEEEEe
Q 035093 7 QLIMKDL-LSWVGTNLIKERPEMFMKGDS-VRPGVLVLVNDCDWELSGQLDT-TLEEKDVVVFIS 68 (73)
Q Consensus 7 ~~TV~~l-l~~L~~~~~~~~~~l~~~~g~-lr~~v~ilvNg~~i~~l~g~~t-~l~dgD~V~i~P 68 (73)
|+|++.. |-.|..+.-.-+.-+|.+.+. +--+.++. .|....+.+| .|++||.|.+-+
T Consensus 61 GSt~gs~vl~~l~~~g~aP~aiI~~~~~~ils~GaIvA----gIP~V~~~~~~~l~~G~~V~Vdg 121 (131)
T PRK03955 61 GSTVGSYVIYQLAKNGTAPKAIINLEAEPIVATGAIIS----GIPLVDKVDISKLKDGDRVVVDG 121 (131)
T ss_pred cccchHHHHHHHHHcCCCceEEEEecCCceeEeeeeec----CCceEccccceecCCCCEEEEeC
Confidence 4555443 334444332223345554332 33333333 3444444445 789999998863
No 331
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=21.56 E-value=64 Score=20.04 Aligned_cols=19 Identities=32% Similarity=0.552 Sum_probs=16.5
Q ss_pred cCccCCCCEEEEEecCCCC
Q 035093 55 DTTLEEKDVVVFISTLHGG 73 (73)
Q Consensus 55 ~t~l~dgD~V~i~PpvaGG 73 (73)
...+.+-|.|.|-.|+++|
T Consensus 38 ~~~~~~yD~vi~gspiy~g 56 (143)
T PF12724_consen 38 EPDLSDYDAVIFGSPIYAG 56 (143)
T ss_pred ccccccCCEEEEEEEEECC
Confidence 4578999999999999886
No 332
>PHA02561 D tail protein; Provisional
Probab=21.51 E-value=2.1e+02 Score=20.38 Aligned_cols=61 Identities=8% Similarity=0.104 Sum_probs=32.5
Q ss_pred cCcHHHHHHHHHHhcCcccccccccCCcccCceEEEEcCccccccCCc------cCccCCCCEEEEEec
Q 035093 7 QLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL------DTTLEEKDVVVFIST 69 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~~~~l~~~~g~lr~~v~ilvNg~~i~~l~g~------~t~l~dgD~V~i~Pp 69 (73)
..|+.++++.++++| ++...+-..-........+-.|..|+.+|.-+ -..+ .++.+.|+++
T Consensus 124 ~~t~~~Iv~~Ia~~~-Gl~~~v~~~~~~~~~~~~~Q~~EsD~~Fl~rLa~~~g~~~~~-~~~~L~~~~~ 190 (351)
T PHA02561 124 RTTLGDIVRAIAGRN-NLTPRVAPALAGIPIDHIDQTQESDASFLTRLAKRYDAVAKV-KGGKLLFAPA 190 (351)
T ss_pred CCCHHHHHHHHHHHc-CCcEEECccccCCcccceeecCCcHHHHHHHHHHHCCCEEEE-eCCEEEEEEC
Confidence 579999999999998 34322211111122223344566777666332 2222 4456666654
No 333
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=21.49 E-value=65 Score=18.22 Aligned_cols=13 Identities=15% Similarity=0.429 Sum_probs=11.3
Q ss_pred ccCCCCEEEEEec
Q 035093 57 TLEEKDVVVFIST 69 (73)
Q Consensus 57 ~l~dgD~V~i~Pp 69 (73)
.++.||+|.+.|.
T Consensus 25 ~i~~G~~v~i~P~ 37 (82)
T cd04089 25 TIKKGDKLLVMPN 37 (82)
T ss_pred EEecCCEEEEeCC
Confidence 5899999999985
No 334
>COG2016 Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis]
Probab=21.33 E-value=1.3e+02 Score=20.20 Aligned_cols=37 Identities=16% Similarity=0.051 Sum_probs=20.9
Q ss_pred HHHHHHHHHHhcCcccccccccCCcc------cCceEEEEcCccccc
Q 035093 10 MKDLLSWVGTNLIKERPEMFMKGDSV------RPGVLVLVNDCDWEL 50 (73)
Q Consensus 10 V~~ll~~L~~~~~~~~~~l~~~~g~l------r~~v~ilvNg~~i~~ 50 (73)
++.+++.+...++ ..+.....+ ...-+++|||..+-+
T Consensus 14 ~k~l~~~~~~~~~----~~l~~k~~v~v~~~~~~~~ii~vdG~pl~f 56 (161)
T COG2016 14 VKKLVEKLEEYSG----EELPGKAEVEVAKCDDKFEIILVDGEPLLF 56 (161)
T ss_pred HHHHHHHHHHhcc----cccCCcceEEEEecCCcEEEEEECCEEEEE
Confidence 5667777777666 222222111 135678888887654
No 335
>PF15609 PRTase_2: Phosphoribosyl transferase
Probab=21.33 E-value=77 Score=21.78 Aligned_cols=20 Identities=5% Similarity=0.029 Sum_probs=18.2
Q ss_pred ccCccCcHHHHHHHHHHhcC
Q 035093 3 SLTFQLIMKDLLSWVGTNLI 22 (73)
Q Consensus 3 ~l~~~~TV~~ll~~L~~~~~ 22 (73)
|++-|.|+-.+++.|.+.||
T Consensus 130 EiSTG~T~lnli~al~~~~p 149 (191)
T PF15609_consen 130 EISTGNTFLNLIRALHAKYP 149 (191)
T ss_pred CccchHHHHHHHHHHHHhCC
Confidence 56779999999999999999
No 336
>PF10865 DUF2703: Domain of unknown function (DUF2703); InterPro: IPR021219 This family of protein has no known function.
Probab=21.19 E-value=57 Score=20.69 Aligned_cols=44 Identities=7% Similarity=-0.046 Sum_probs=25.2
Q ss_pred cCcHHHHHHHHHHhcCcc------cccccccCCccc----CceEEEEcCcccccc
Q 035093 7 QLIMKDLLSWVGTNLIKE------RPEMFMKGDSVR----PGVLVLVNDCDWELS 51 (73)
Q Consensus 7 ~~TV~~ll~~L~~~~~~~------~~~l~~~~g~lr----~~v~ilvNg~~i~~l 51 (73)
+.++.++++.|...+-.+ .+...+ +.++. ..=.|.+||++++.+
T Consensus 22 g~~L~~av~~l~~~L~~~Giev~l~~~~l~-~~~~~~~~~~S~~I~inG~piE~~ 75 (120)
T PF10865_consen 22 GETLREAVKELAPVLAPLGIEVRLEEIELD-EEEFARQPLESPTIRINGRPIEDL 75 (120)
T ss_pred HHHHHHHHHHHHHHHHhCCcEEEEEEEECC-hHHHhhcccCCCeeeECCEehhHh
Confidence 457777777777665222 222222 23343 333478899999654
No 337
>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein. The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.
Probab=21.14 E-value=80 Score=19.30 Aligned_cols=26 Identities=12% Similarity=0.089 Sum_probs=18.1
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
++.+.|||+.++.| +-.|...+++++
T Consensus 18 ~v~~~Ing~~~~~L------vDTGAs~s~Is~ 43 (124)
T cd05479 18 YINVEINGVPVKAF------VDSGAQMTIMSK 43 (124)
T ss_pred EEEEEECCEEEEEE------EeCCCceEEeCH
Confidence 78899999988776 445555555543
No 338
>PF14031 D-ser_dehydrat: Putative serine dehydratase domain; PDB: 3LLX_A 3ANV_A 3AWO_A 3AWN_A 3ANU_A 3GWQ_A.
Probab=21.01 E-value=1e+02 Score=18.24 Aligned_cols=30 Identities=20% Similarity=0.215 Sum_probs=15.9
Q ss_pred eEEEEcCcc--ccccCCccCccCCCCEEEEEec
Q 035093 39 VLVLVNDCD--WELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 39 v~ilvNg~~--i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
...-++.++ ++..++ ...++-||.|.|+|.
T Consensus 47 ~~~~~seEHg~l~~~~~-~~~~~vGd~v~iiP~ 78 (94)
T PF14031_consen 47 EVVRLSEEHGILRLPDG-ADRLKVGDKVEIIPN 78 (94)
T ss_dssp EEEEE-SS-EEEE-STT-GCGT-TT-EEEEEES
T ss_pred EEEeeecceeEEECCCC-CCCCCCCCEEEEECC
Confidence 445556665 222222 456899999999995
No 339
>PRK12897 methionine aminopeptidase; Reviewed
Probab=20.84 E-value=2.8e+02 Score=18.74 Aligned_cols=62 Identities=19% Similarity=0.131 Sum_probs=30.4
Q ss_pred cCccCcHHHHHHHHHHhcCccc-ccccccCCcccCceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 4 LTFQLIMKDLLSWVGTNLIKER-PEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 4 l~~~~TV~~ll~~L~~~~~~~~-~~l~~~~g~lr~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+.+|.|-.|+-..+....-... .............+..-.|.. +-|-...+++|++||.|.+
T Consensus 31 ~~~G~tE~el~~~~~~~~~~~G~~~~~~~~~~~~~~i~~g~n~~-~~H~~p~~~~l~~Gd~V~i 93 (248)
T PRK12897 31 MKPGITTKEINTFVEAYLEKHGATSEQKGYNGYPYAICASVNDE-MCHAFPADVPLTEGDIVTI 93 (248)
T ss_pred cCCCCcHHHHHHHHHHHHHHcCCcccccccCCCCcceEeccCCE-eecCCCCCcccCCCCEEEE
Confidence 3467788887776654332111 000000011212233334433 3344445789999998865
No 340
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=20.60 E-value=80 Score=27.31 Aligned_cols=26 Identities=19% Similarity=0.106 Sum_probs=21.3
Q ss_pred CceEEEEcCccccccCCccCccCCCCEEEE
Q 035093 37 PGVLVLVNDCDWELSGQLDTTLEEKDVVVF 66 (73)
Q Consensus 37 ~~v~ilvNg~~i~~l~g~~t~l~dgD~V~i 66 (73)
+..-++|||+.|. ..|.|..||.|.+
T Consensus 521 e~aetyVNGk~v~----ep~qL~~GdRiil 546 (1221)
T KOG0245|consen 521 EDAETYVNGKLVT----EPTQLRSGDRIIL 546 (1221)
T ss_pred CccceeEccEEcC----CcceeccCCEEEE
Confidence 4556899999986 3789999999875
No 341
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=20.50 E-value=65 Score=18.16 Aligned_cols=10 Identities=30% Similarity=0.285 Sum_probs=5.0
Q ss_pred ccCCCCEEEE
Q 035093 57 TLEEKDVVVF 66 (73)
Q Consensus 57 ~l~dgD~V~i 66 (73)
=+++||.|.|
T Consensus 53 G~~~GD~V~I 62 (69)
T PF09269_consen 53 GAKEGDTVRI 62 (69)
T ss_dssp T--TT-EEEE
T ss_pred CCCCCCEEEE
Confidence 3678888776
No 342
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=20.43 E-value=78 Score=17.84 Aligned_cols=11 Identities=18% Similarity=0.096 Sum_probs=7.9
Q ss_pred ccCCCCEEEEE
Q 035093 57 TLEEKDVVVFI 67 (73)
Q Consensus 57 ~l~dgD~V~i~ 67 (73)
=+++||.|.|-
T Consensus 53 G~~~GD~V~Ig 63 (69)
T TIGR03595 53 GAKDGDTVRIG 63 (69)
T ss_pred CCCCCCEEEEc
Confidence 36788888763
No 343
>cd03486 MutL_Trans_MLH3 MutL_Trans_MLH3: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH3 (MutL homologue 3). MLH3 belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with MLH3. The MLH1-MLH3 complex plays a role in meiosis. A role for hMLH1-hMLH3 in DNA mismatch repair (MMR) has not been established. It has been suggested that hMLH3 may be a low risk gene for colorectal cancer; however there is little evidence to support it having a role in classical HNPCC.
Probab=20.36 E-value=68 Score=20.17 Aligned_cols=14 Identities=14% Similarity=0.095 Sum_probs=11.6
Q ss_pred cCceEEEEcCcccc
Q 035093 36 RPGVLVLVNDCDWE 49 (73)
Q Consensus 36 r~~v~ilvNg~~i~ 49 (73)
+....++||||.|.
T Consensus 42 k~~q~ifVN~R~v~ 55 (141)
T cd03486 42 KSFQFIYVNGRLYL 55 (141)
T ss_pred CceEEEEECCEEec
Confidence 55678999999985
No 344
>PRK13863 type IV secretion system T-DNA border endonuclease VirD2; Provisional
Probab=20.21 E-value=2.1e+02 Score=22.29 Aligned_cols=46 Identities=17% Similarity=0.175 Sum_probs=27.8
Q ss_pred cccCccCcHHHHHH----HHHHhcCcc----c-ccccc-cCCcccCceEEEEcCcc
Q 035093 2 LSLTFQLIMKDLLS----WVGTNLIKE----R-PEMFM-KGDSVRPGVLVLVNDCD 47 (73)
Q Consensus 2 ~~l~~~~TV~~ll~----~L~~~~~~~----~-~~l~~-~~g~lr~~v~ilvNg~~ 47 (73)
|+.|.|++-.++.+ ...+.|+.- + ..+|. -+.+=.|++.|.||-++
T Consensus 87 LSMPaGTd~eAVrdAARefA~E~FgsG~~G~~~dYV~AlH~D~dHPHVHLvVnrRd 142 (446)
T PRK13863 87 VSFPAGTSQVAAYAASREWAAEMFGSGAGGGRYNYLTAFHIDRDHPHLHVVVNRRE 142 (446)
T ss_pred EeCCCCCCHHHHHHHHHHHHHHHhCCCCCCCceeEEEEEecCCCCCeEEEEEEeec
Confidence 67788876666665 455667632 1 22332 23456899999999443
No 345
>PF08972 DUF1902: Domain of unknown function (DUF1902); InterPro: IPR015066 Members of these prokaryotic proteins adopt a fold consisting of one alpha-helix and four beta-strands. Their function has not, as yet, been elucidated []. ; PDB: 1WV8_A.
Probab=20.10 E-value=56 Score=18.10 Aligned_cols=20 Identities=10% Similarity=0.023 Sum_probs=15.5
Q ss_pred CccCcHHHHHHHHHHhcCcc
Q 035093 5 TFQLIMKDLLSWVGTNLIKE 24 (73)
Q Consensus 5 ~~~~TV~~ll~~L~~~~~~~ 24 (73)
.+..|+.+|++.+...-|++
T Consensus 26 tEA~Tle~L~~kl~~~ipeL 45 (54)
T PF08972_consen 26 TEADTLEELIEKLRVMIPEL 45 (54)
T ss_dssp -EESSHHHHHHHHHHHHHHH
T ss_pred ecCccHHHHHHHHHHHHHHH
Confidence 46789999999998876653
No 346
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=20.09 E-value=1e+02 Score=20.92 Aligned_cols=31 Identities=13% Similarity=0.123 Sum_probs=21.9
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
.+.+...|.-.-..+|....+++||.+.| ||
T Consensus 45 ei~~v~~G~~~~~i~~~~~~l~~g~l~~i-~p 75 (278)
T PRK10296 45 EFTLVLTGRYYQEINGKRVLLERGDFVFI-PL 75 (278)
T ss_pred EEEEEEeceEEEEECCEEEEECCCcEEEe-CC
Confidence 45566777766667888888999986655 44
No 347
>PRK11171 hypothetical protein; Provisional
Probab=20.04 E-value=1e+02 Score=21.61 Aligned_cols=32 Identities=9% Similarity=-0.098 Sum_probs=25.8
Q ss_pred ceEEEEcCccccccCCccCccCCCCEEEEEec
Q 035093 38 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69 (73)
Q Consensus 38 ~v~ilvNg~~i~~l~g~~t~l~dgD~V~i~Pp 69 (73)
..+.++.|+=.-.+++...+|+.||.+.|=|.
T Consensus 207 e~i~Vl~G~~~~~~~~~~~~l~~GD~i~~~~~ 238 (266)
T PRK11171 207 HGLYVLEGKGVYRLNNDWVEVEAGDFIWMRAY 238 (266)
T ss_pred EEEEEEeCEEEEEECCEEEEeCCCCEEEECCC
Confidence 56677788887788898999999999987543
Done!