Query psy6382
Match_columns 125
No_of_seqs 75 out of 77
Neff 2.5
Searched_HMMs 46136
Date Sat Aug 17 01:01:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6382.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6382hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3938|consensus 100.0 1.7E-36 3.7E-41 254.2 9.1 93 32-124 1-102 (334)
2 PF00240 ubiquitin: Ubiquitin 76.8 3.7 7.9E-05 25.5 3.1 29 90-118 11-39 (69)
3 cd00196 UBQ Ubiquitin-like pro 74.5 4.5 9.7E-05 21.5 2.7 28 92-119 15-42 (69)
4 PF14552 Tautomerase_2: Tautom 71.2 3.6 7.7E-05 28.5 2.2 25 96-120 44-72 (82)
5 COG4229 Predicted enolase-phos 70.5 3 6.5E-05 34.9 2.0 50 71-121 130-186 (229)
6 cd03413 CbiK_C Anaerobic cobal 70.5 5.9 0.00013 28.0 3.2 33 82-121 6-39 (103)
7 PF11543 UN_NPL4: Nuclear pore 69.2 3.6 7.9E-05 28.2 1.8 26 90-115 19-44 (80)
8 PF13419 HAD_2: Haloacid dehal 67.0 5.7 0.00012 26.6 2.4 25 95-119 133-157 (176)
9 cd01803 Ubiquitin Ubiquitin. U 65.3 6.8 0.00015 24.5 2.4 29 90-118 16-44 (76)
10 cd01807 GDX_N ubiquitin-like d 63.5 5.3 0.00011 25.7 1.7 26 90-115 16-41 (74)
11 PF01282 Ribosomal_S24e: Ribos 62.5 9.4 0.0002 26.5 2.9 30 95-124 13-42 (84)
12 KOG2630|consensus 62.5 5.5 0.00012 33.8 2.0 49 73-122 152-207 (254)
13 cd06398 PB1_Joka2 The PB1 doma 59.1 11 0.00025 26.6 2.8 22 96-117 26-48 (91)
14 cd01791 Ubl5 UBL5 ubiquitin-li 58.8 9 0.0002 25.5 2.2 29 90-118 17-45 (73)
15 cd01806 Nedd8 Nebb8-like ubiq 57.7 15 0.00033 22.8 3.0 29 90-118 16-44 (76)
16 cd01793 Fubi Fubi ubiquitin-li 56.9 8.6 0.00019 24.8 1.8 26 90-115 14-39 (74)
17 cd01808 hPLIC_N Ubiquitin-like 56.8 8.3 0.00018 24.6 1.7 25 91-115 16-40 (71)
18 smart00760 Bac_DnaA_C Bacteria 54.7 4.5 9.7E-05 25.6 0.2 21 96-116 1-21 (60)
19 cd01796 DDI1_N DNA damage indu 54.6 9.5 0.00021 24.7 1.7 25 90-114 15-39 (71)
20 cd01804 midnolin_N Ubiquitin-l 54.5 13 0.00028 24.6 2.4 26 91-116 18-43 (78)
21 cd01794 DC_UbP_C dendritic cel 54.4 8.4 0.00018 25.3 1.5 26 90-115 14-39 (70)
22 cd01792 ISG15_repeat1 ISG15 ub 53.1 9.8 0.00021 25.0 1.6 27 91-117 19-45 (80)
23 cd01810 ISG15_repeat2 ISG15 ub 53.0 15 0.00033 23.6 2.5 27 90-116 14-40 (74)
24 cd01798 parkin_N amino-termina 51.8 14 0.00031 23.3 2.2 27 91-117 15-41 (70)
25 PRK02220 4-oxalocrotonate taut 51.4 13 0.00028 22.8 1.9 22 99-121 23-44 (61)
26 PF02071 NSF: Aromatic-di-Alan 51.1 7.9 0.00017 19.0 0.7 10 99-108 3-12 (12)
27 cd03072 PDI_b'_ERp44 PDIb' fam 50.7 12 0.00026 26.3 1.9 30 91-123 26-58 (111)
28 cd02982 PDI_b'_family Protein 49.7 20 0.00044 23.0 2.7 28 93-123 26-53 (103)
29 PRK01964 4-oxalocrotonate taut 49.6 14 0.00031 23.1 1.9 19 98-116 22-40 (64)
30 cd01802 AN1_N ubiquitin-like d 49.4 13 0.00029 26.3 1.9 40 74-115 28-68 (103)
31 cd01805 RAD23_N Ubiquitin-like 48.1 23 0.00049 22.4 2.7 26 91-116 17-44 (77)
32 TIGR00013 taut 4-oxalocrotonat 46.7 20 0.00043 22.0 2.2 21 97-117 21-41 (63)
33 TIGR01691 enolase-ppase 2,3-di 46.2 14 0.0003 29.1 1.8 25 95-119 152-176 (220)
34 smart00213 UBQ Ubiquitin homol 45.4 24 0.00052 20.8 2.4 28 89-116 14-41 (64)
35 PF13647 Glyco_hydro_80: Glyco 44.3 12 0.00026 31.9 1.3 24 75-99 201-224 (308)
36 cd03409 Chelatase_Class_II Cla 43.9 40 0.00088 21.9 3.5 37 82-121 5-41 (101)
37 PF01337 Barstar: Barstar (bar 43.1 19 0.00042 23.9 1.9 21 92-112 6-26 (90)
38 cd06406 PB1_P67 A PB1 domain i 41.9 21 0.00046 25.4 2.0 23 95-117 21-43 (80)
39 COG2411 Uncharacterized conser 41.6 19 0.00042 29.5 2.0 27 89-115 71-98 (188)
40 KOG3889|consensus 41.2 19 0.0004 32.0 1.9 37 73-110 202-241 (371)
41 cd01812 BAG1_N Ubiquitin-like 41.0 23 0.0005 21.9 1.9 24 91-114 16-39 (71)
42 cd01769 UBL Ubiquitin-like dom 39.5 41 0.00089 20.0 2.8 26 92-117 15-40 (69)
43 PF08299 Bac_DnaA_C: Bacterial 38.4 9.9 0.00022 25.1 -0.1 21 96-116 1-21 (70)
44 cd01763 Sumo Small ubiquitin-r 38.2 34 0.00074 23.0 2.5 45 72-118 10-55 (87)
45 PRK11053 dihydropteridine redu 37.8 31 0.00067 26.1 2.5 37 83-124 156-193 (217)
46 PF11976 Rad60-SLD: Ubiquitin- 37.5 49 0.0011 20.7 3.0 29 90-118 16-45 (72)
47 TIGR01493 HAD-SF-IA-v2 Haloaci 37.5 25 0.00055 24.7 1.8 25 95-119 139-163 (175)
48 PF13443 HTH_26: Cro/C1-type H 37.2 7.5 0.00016 23.8 -0.8 19 99-117 41-59 (63)
49 COG1011 Predicted hydrolase (H 37.1 30 0.00065 25.1 2.2 22 97-118 156-177 (229)
50 PF07027 DUF1318: Protein of u 36.8 13 0.00027 26.8 0.2 18 98-115 50-67 (95)
51 PF14338 Mrr_N: Mrr N-terminal 36.7 16 0.00036 24.6 0.8 20 95-114 20-39 (92)
52 cd00491 4Oxalocrotonate_Tautom 36.7 36 0.00078 20.3 2.2 22 98-120 21-42 (58)
53 cd05875 Ig6_hNeurofascin_like 36.2 22 0.00049 22.8 1.3 21 76-97 1-21 (77)
54 TIGR01509 HAD-SF-IA-v3 haloaci 35.5 40 0.00087 23.4 2.6 21 98-118 143-163 (183)
55 cd00419 Ferrochelatase_C Ferro 35.3 43 0.00094 24.5 2.8 46 73-121 18-67 (135)
56 PF12436 USP7_ICP0_bdg: ICP0-b 35.2 38 0.00082 27.1 2.7 35 88-122 193-227 (249)
57 cd06552 ASCH_yqfb_like ASC-1 h 34.1 60 0.0013 21.7 3.2 30 89-118 65-95 (100)
58 PRK04635 histidinol-phosphate 34.0 27 0.00059 27.9 1.7 22 97-118 62-83 (354)
59 PF14566 PTPlike_phytase: Inos 33.9 17 0.00038 26.7 0.6 11 73-83 124-134 (149)
60 PRK00745 4-oxalocrotonate taut 33.9 40 0.00086 20.6 2.1 25 97-122 17-45 (62)
61 cd02984 TRX_PICOT TRX domain, 33.7 40 0.00088 21.3 2.2 30 72-105 68-97 (97)
62 cd01809 Scythe_N Ubiquitin-lik 33.5 36 0.00078 20.9 1.9 24 91-114 17-40 (72)
63 PRK05365 malonic semialdehyde 33.3 46 0.00099 24.8 2.7 37 83-124 137-173 (195)
64 cd01797 NIRF_N amino-terminal 33.3 26 0.00056 23.4 1.3 24 91-114 19-42 (78)
65 cd05140 Barstar_AU1054-like Ba 32.7 36 0.00077 23.7 1.9 22 91-112 5-26 (86)
66 TIGR01428 HAD_type_II 2-haloal 32.4 42 0.00092 24.2 2.4 24 96-119 149-172 (198)
67 cd05142 Barstar Barstar is an 32.1 37 0.00081 23.6 2.0 21 92-112 7-27 (87)
68 cd05749 Ig2_Tyro3_like Second 32.0 31 0.00068 22.8 1.5 22 73-95 13-35 (81)
69 cd03073 PDI_b'_ERp72_ERp57 PDI 31.2 34 0.00073 24.2 1.6 41 76-122 19-59 (111)
70 PRK07908 hypothetical protein; 31.2 36 0.00077 27.0 1.9 23 97-119 60-82 (349)
71 cd05141 Barstar_evA4336-like B 31.2 40 0.00088 22.6 2.0 21 91-111 5-25 (81)
72 PF08769 Spo0A_C: Sporulation 30.7 10 0.00022 27.4 -1.1 19 97-115 39-57 (106)
73 PF12844 HTH_19: Helix-turn-he 30.5 12 0.00026 22.9 -0.6 18 99-116 42-59 (64)
74 PTZ00044 ubiquitin; Provisiona 30.4 55 0.0012 20.6 2.4 27 90-116 16-42 (76)
75 PRK09456 ?-D-glucose-1-phospha 30.2 40 0.00086 24.7 1.9 23 96-118 142-164 (199)
76 TIGR03235 DNA_S_dndA cysteine 30.1 51 0.0011 26.0 2.6 23 97-119 44-66 (353)
77 cd06409 PB1_MUG70 The MUG70 pr 30.1 50 0.0011 23.5 2.3 28 86-113 7-39 (86)
78 TIGR03402 FeS_nifS cysteine de 29.4 53 0.0011 26.2 2.6 24 96-119 43-66 (379)
79 PHA01976 helix-turn-helix prot 29.2 17 0.00036 22.4 -0.2 19 99-117 45-63 (67)
80 TIGR02006 IscS cysteine desulf 29.1 53 0.0012 26.8 2.7 24 96-119 48-71 (402)
81 TIGR01656 Histidinol-ppas hist 29.0 45 0.00097 23.6 2.0 24 95-118 101-124 (147)
82 cd02137 Nitroreductase_1 Nitro 28.8 60 0.0013 22.8 2.6 36 84-124 96-131 (148)
83 TIGR01068 thioredoxin thioredo 27.2 92 0.002 19.2 3.0 33 72-107 68-100 (101)
84 PF05402 PqqD: Coenzyme PQQ sy 27.0 23 0.00049 22.1 0.2 25 91-115 26-50 (68)
85 cd02138 Nitroreductase_2 Nitro 26.9 70 0.0015 23.4 2.7 36 84-124 118-153 (181)
86 cd00489 Barstar_like Barstar i 26.5 53 0.0012 22.6 1.9 21 92-112 6-26 (85)
87 PLN02651 cysteine desulfurase 26.4 66 0.0014 25.7 2.7 23 97-119 45-67 (364)
88 cd02139 Nitroreductase_3 Nitro 25.8 98 0.0021 21.9 3.3 36 84-124 111-146 (164)
89 cd02149 NfsB_like_nitroreducta 25.7 64 0.0014 22.9 2.3 36 84-124 104-140 (157)
90 TIGR01662 HAD-SF-IIIA HAD-supe 25.4 62 0.0013 22.0 2.1 24 96-119 86-110 (132)
91 PF12833 HTH_18: Helix-turn-he 25.4 26 0.00057 22.1 0.2 25 91-115 54-78 (81)
92 PF11784 DUF3320: Protein of u 25.3 51 0.0011 20.9 1.5 21 92-112 24-44 (52)
93 PF12872 OST-HTH: OST-HTH/LOTU 25.2 41 0.00089 21.1 1.1 18 93-110 46-63 (74)
94 cd02148 Nitroreductase_5 Nitro 24.8 83 0.0018 23.1 2.8 37 83-124 130-166 (185)
95 PF08281 Sigma70_r4_2: Sigma-7 24.7 17 0.00038 21.7 -0.7 15 100-114 28-42 (54)
96 PF07736 CM_1: Chorismate muta 24.7 74 0.0016 24.1 2.5 26 95-120 20-45 (118)
97 cd02150 NADPH_oxidoreductase_1 23.9 95 0.0021 22.2 2.9 40 84-124 106-145 (166)
98 TIGR03192 benz_CoA_bzdQ benzoy 23.9 1.1E+02 0.0023 26.1 3.6 44 75-124 53-96 (293)
99 PF00564 PB1: PB1 domain; Int 23.9 97 0.0021 19.7 2.7 27 92-118 19-45 (84)
100 PRK14012 cysteine desulfurase; 23.5 76 0.0016 25.8 2.6 24 96-119 50-73 (404)
101 PRK05849 hypothetical protein; 23.4 40 0.00087 32.1 1.1 32 90-121 595-626 (783)
102 PF13844 Glyco_transf_41: Glyc 23.1 54 0.0012 29.5 1.8 19 106-124 277-295 (468)
103 TIGR02253 CTE7 HAD superfamily 22.8 76 0.0016 23.1 2.3 22 97-118 152-173 (221)
104 TIGR01993 Pyr-5-nucltdase pyri 22.8 86 0.0019 22.4 2.5 23 96-118 142-164 (184)
105 PRK01533 histidinol-phosphate 22.5 65 0.0014 26.3 2.0 23 97-119 66-88 (366)
106 PRK05387 histidinol-phosphate 22.5 53 0.0012 25.7 1.5 21 98-118 63-83 (353)
107 PF14109 GldH_lipo: GldH lipop 22.3 22 0.00049 26.1 -0.6 25 74-100 66-92 (131)
108 PRK02289 4-oxalocrotonate taut 22.2 77 0.0017 19.8 1.9 19 97-115 21-39 (60)
109 COG3384 Aromatic ring-opening 22.2 80 0.0017 27.0 2.6 36 80-116 12-48 (268)
110 KOG1175|consensus 22.2 59 0.0013 30.5 1.9 40 73-124 253-292 (626)
111 TIGR02512 Fe_only_hydrog hydro 22.2 33 0.00071 28.8 0.3 31 89-119 331-362 (374)
112 cd09216 GH64-LPHase-like glyco 22.1 34 0.00073 30.0 0.3 41 72-118 216-261 (353)
113 cd01799 Hoil1_N Ubiquitin-like 22.0 68 0.0015 21.4 1.7 26 90-115 18-43 (75)
114 cd02146 NfsA_FRP This family c 22.0 1.1E+02 0.0025 23.4 3.2 38 84-124 124-161 (229)
115 PF00881 Nitroreductase: Nitro 21.9 27 0.00058 23.6 -0.2 38 83-124 128-165 (165)
116 smart00530 HTH_XRE Helix-turn- 21.9 64 0.0014 16.9 1.3 17 98-114 39-55 (56)
117 PRK10874 cysteine sulfinate de 21.9 88 0.0019 25.2 2.6 24 96-119 64-88 (401)
118 PRK01688 histidinol-phosphate 21.9 57 0.0012 26.2 1.6 21 98-118 60-80 (351)
119 cd02152 OAT Ornithine acetyltr 21.9 53 0.0011 29.1 1.5 28 92-119 75-102 (390)
120 TIGR02252 DREG-2 REG-2-like, H 21.6 71 0.0015 23.1 1.9 22 97-118 162-183 (203)
121 PF11000 DUF2840: Protein of u 21.5 55 0.0012 26.0 1.4 26 90-115 87-114 (149)
122 cd02145 BluB Subfamily of the 21.4 1.2E+02 0.0026 22.4 3.1 36 84-124 135-170 (196)
123 PRK09105 putative aminotransfe 21.4 73 0.0016 26.0 2.1 21 97-117 80-100 (370)
124 cd02062 Nitro_FMN_reductase Pr 21.3 1.2E+02 0.0026 19.9 2.8 38 84-124 85-122 (122)
125 smart00666 PB1 PB1 domain. Pho 21.3 1.1E+02 0.0025 19.4 2.6 21 96-116 22-42 (81)
126 cd06452 SepCysS Sep-tRNA:Cys-t 21.2 1.1E+02 0.0025 24.2 3.1 36 73-118 30-65 (361)
127 cd03370 NADH_oxidase NADPH_oxi 20.9 1.2E+02 0.0026 21.6 3.0 35 85-124 106-141 (156)
128 COG2169 Ada Adenosine deaminas 20.9 46 0.001 26.9 0.9 35 80-114 140-177 (187)
129 PF13560 HTH_31: Helix-turn-he 20.6 30 0.00066 21.5 -0.2 17 98-114 44-60 (64)
130 COG4031 Predicted metal-bindin 20.5 91 0.002 26.3 2.5 26 84-115 51-77 (227)
131 PF05099 TerB: Tellurite resis 20.5 73 0.0016 22.0 1.7 20 96-115 116-135 (140)
132 PF11834 DUF3354: Domain of un 20.4 1.3E+02 0.0029 20.5 2.9 38 78-115 9-46 (69)
133 cd01615 CIDE_N CIDE_N domain, 20.4 1.2E+02 0.0027 21.4 2.8 24 95-118 21-44 (78)
134 PRK14809 histidinol-phosphate 20.2 83 0.0018 25.0 2.1 22 97-118 67-88 (357)
135 PF12085 DUF3562: Protein of u 20.2 42 0.0009 23.3 0.4 21 95-115 4-24 (66)
136 PTZ00397 macrophage migration 20.0 92 0.002 21.6 2.1 21 98-118 75-99 (116)
No 1
>KOG3938|consensus
Probab=100.00 E-value=1.7e-36 Score=254.19 Aligned_cols=93 Identities=41% Similarity=0.708 Sum_probs=81.0
Q ss_pred cccCCCCCCCCCcccccCCCCCCCC----cccCC-----CCCCCCCCCCCCCceEEeeecccCCCceeecCccchHHHHH
Q psy6382 32 MPLFTRKPKKDDHLLDNNNVGEHKS----KIYNG-----TKSPAPVTEDSKPKLIFHCQLAHGSPTGLISGFSNVRELYQ 102 (125)
Q Consensus 32 MPLGLr~kKK~~~Lvene~~~p~~~----~~~~~-----~ggl~p~~~~~~p~LvFh~QLAHGSptg~I~gFsnVkELY~ 102 (125)
|||+.++.+|.++.+++..+.+..| ++..+ ..++++.+++.+|+||||||||||||||+|+||+||+||||
T Consensus 1 M~~~~~~~~k~~~~~~~~~a~~~rs~e~~p~~~~~~~s~~~~s~s~~~~~~p~LvF~~QLAHGSptg~Ie~fsnv~ELY~ 80 (334)
T KOG3938|consen 1 MPLQGRPSPKSRPRSEGRGAFNARSGETSPLQPGVPISPNEGSPSIPPAVRPRLVFHCQLAHGSPTGRIEGFSNVRELYQ 80 (334)
T ss_pred CCCCCCCCCCCCCccccccccccCCCCCCCCCCCCCCCccCCCCCCCccCCCceeEeeeeccCCccceecccccHHHHHH
Confidence 8999999999999999988866322 22222 11568888999999999999999999999999999999999
Q ss_pred hhhhhhccCCCceEEEEccCCC
Q psy6382 103 KIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 103 kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
+|||||+|+++||||||||+|-
T Consensus 81 kIAe~F~Is~~dIlfcTlNshK 102 (334)
T KOG3938|consen 81 KIAEAFDISPDDILFCTLNSHK 102 (334)
T ss_pred HHHHHhcCCccceEEEecCCCc
Confidence 9999999999999999999984
No 2
>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=76.78 E-value=3.7 Score=25.52 Aligned_cols=29 Identities=31% Similarity=0.289 Sum_probs=25.5
Q ss_pred eecCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
.|+...+|.+|-++|++..++|++++-++
T Consensus 11 ~v~~~~tV~~lK~~i~~~~~~~~~~~~L~ 39 (69)
T PF00240_consen 11 EVDPDDTVADLKQKIAEETGIPPEQQRLI 39 (69)
T ss_dssp EEETTSBHHHHHHHHHHHHTSTGGGEEEE
T ss_pred EECCCCCHHHhhhhcccccccccccceee
Confidence 46678899999999999999999988765
No 3
>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=74.45 E-value=4.5 Score=21.52 Aligned_cols=28 Identities=21% Similarity=0.306 Sum_probs=23.7
Q ss_pred cCccchHHHHHhhhhhhccCCCceEEEE
Q psy6382 92 SGFSNVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~~eIlFCT 119 (125)
..-.+++++.++|++.+++++++..++.
T Consensus 15 ~~~~tv~~l~~~i~~~~~~~~~~~~l~~ 42 (69)
T cd00196 15 PSGTTVADLKEKLAKKLGLPPEQQRLLV 42 (69)
T ss_pred CCCCcHHHHHHHHHHHHCcChHHeEEEE
Confidence 3468899999999999999888877764
No 4
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=71.19 E-value=3.6 Score=28.46 Aligned_cols=25 Identities=24% Similarity=0.364 Sum_probs=16.2
Q ss_pred chHHHHHhhh----hhhccCCCceEEEEc
Q psy6382 96 NVRELYQKIA----ECYEFPAEEVQFGAL 120 (125)
Q Consensus 96 nVkELY~kIA----e~f~i~~~eIlFCTL 120 (125)
--++||+.|+ +..+|+|+|||..-.
T Consensus 44 ~K~~ly~~l~~~L~~~~gi~p~Dv~I~l~ 72 (82)
T PF14552_consen 44 QKKALYRALAERLAEKLGIRPEDVMIVLV 72 (82)
T ss_dssp HHHHHHHHHHHHHHHHH---GGGEEEEEE
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHEEEEEE
Confidence 3467888887 567899999987643
No 5
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=70.55 E-value=3 Score=34.87 Aligned_cols=50 Identities=30% Similarity=0.365 Sum_probs=36.9
Q ss_pred CCCCceEEeeecccCCCceeecCccch-------HHHHHhhhhhhccCCCceEEEEcc
Q psy6382 71 DSKPKLIFHCQLAHGSPTGLISGFSNV-------RELYQKIAECYEFPAEEVQFGALL 121 (125)
Q Consensus 71 ~~~p~LvFh~QLAHGSptg~I~gFsnV-------kELY~kIAe~f~i~~~eIlFCTLN 121 (125)
....+|.|-|--| |-=-+.++||-+. ...|++||+..+++|.||||..=|
T Consensus 130 V~AQkL~Fghs~a-gdL~~lfsGyfDttiG~KrE~~SY~kIa~~iGl~p~eilFLSDn 186 (229)
T COG4229 130 VKAQKLFFGHSDA-GDLNSLFSGYFDTTIGKKRESQSYAKIAGDIGLPPAEILFLSDN 186 (229)
T ss_pred chhHHHhhccccc-ccHHhhhcceeeccccccccchhHHHHHHhcCCCchheEEecCC
Confidence 3456788877632 4445567777543 568999999999999999997644
No 6
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=70.46 E-value=5.9 Score=27.98 Aligned_cols=33 Identities=18% Similarity=0.310 Sum_probs=24.5
Q ss_pred cccCCCceeecCccchHHHHHhhhhhhc-cCCCceEEEEcc
Q psy6382 82 LAHGSPTGLISGFSNVRELYQKIAECYE-FPAEEVQFGALL 121 (125)
Q Consensus 82 LAHGSptg~I~gFsnVkELY~kIAe~f~-i~~~eIlFCTLN 121 (125)
++|||+-- + .+.|+.+++.+. ..+..|..|++.
T Consensus 6 vgHGSr~~-----~--~~~~~~l~~~l~~~~~~~v~~~~lE 39 (103)
T cd03413 6 MGHGTDHP-----S--NAVYAALEYVLREEDPANVFVGTVE 39 (103)
T ss_pred EECCCCch-----h--hhHHHHHHHHHHhcCCCcEEEEEEc
Confidence 78999875 2 267888887774 444778889987
No 7
>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=69.20 E-value=3.6 Score=28.17 Aligned_cols=26 Identities=27% Similarity=0.330 Sum_probs=17.6
Q ss_pred eecCccchHHHHHhhhhhhccCCCce
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
.|+.=+++.+||++|++.++++...+
T Consensus 19 e~~~~~t~~~L~~kI~~~l~~~~~~~ 44 (80)
T PF11543_consen 19 EVSPSSTLSDLKEKISEQLSIPDSSQ 44 (80)
T ss_dssp EE-TTSBHHHHHHHHHHHS---TTT-
T ss_pred EcCCcccHHHHHHHHHHHcCCCCcce
Confidence 35566789999999999999987654
No 8
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=66.99 E-value=5.7 Score=26.60 Aligned_cols=25 Identities=24% Similarity=0.384 Sum_probs=21.5
Q ss_pred cchHHHHHhhhhhhccCCCceEEEE
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFCT 119 (125)
..-.+.|+.+.+.++++|++++|.-
T Consensus 133 Kp~~~~~~~~~~~~~~~p~~~~~vg 157 (176)
T PF13419_consen 133 KPDPDAYRRALEKLGIPPEEILFVG 157 (176)
T ss_dssp TTSHHHHHHHHHHHTSSGGGEEEEE
T ss_pred hhHHHHHHHHHHHcCCCcceEEEEe
Confidence 3347899999999999999999973
No 9
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=65.33 E-value=6.8 Score=24.48 Aligned_cols=29 Identities=10% Similarity=0.177 Sum_probs=23.4
Q ss_pred eecCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
.++.-.+|.+|.++|++.+++|++++-+.
T Consensus 16 ~v~~~~tV~~lK~~i~~~~g~~~~~q~L~ 44 (76)
T cd01803 16 EVEPSDTIENVKAKIQDKEGIPPDQQRLI 44 (76)
T ss_pred EECCcCcHHHHHHHHHHHhCCCHHHeEEE
Confidence 35566789999999999999998766543
No 10
>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=63.53 E-value=5.3 Score=25.71 Aligned_cols=26 Identities=23% Similarity=0.309 Sum_probs=23.0
Q ss_pred eecCccchHHHHHhhhhhhccCCCce
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
.|+...+|++|-++|++.+++++++.
T Consensus 16 ~v~~~~tV~~lK~~i~~~~gi~~~~q 41 (74)
T cd01807 16 QVSEKESVSTLKKLVSEHLNVPEEQQ 41 (74)
T ss_pred EECCCCcHHHHHHHHHHHHCCCHHHe
Confidence 46788999999999999999998863
No 11
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=62.48 E-value=9.4 Score=26.53 Aligned_cols=30 Identities=10% Similarity=0.223 Sum_probs=26.5
Q ss_pred cchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
-+-+|+-.+||..++++++.|.-..+.|+|
T Consensus 13 psr~ei~~klA~~~~~~~~~ivv~~~~t~f 42 (84)
T PF01282_consen 13 PSRKEIREKLAAMLNVDPDLIVVFGIKTEF 42 (84)
T ss_dssp --HHHHHHHHHHHHTSTGCCEEEEEEEESS
T ss_pred CCHHHHHHHHHHHhCCCCCeEEEeccEecC
Confidence 357899999999999999999999999987
No 12
>KOG2630|consensus
Probab=62.47 E-value=5.5 Score=33.82 Aligned_cols=49 Identities=24% Similarity=0.314 Sum_probs=38.7
Q ss_pred CCceEEeeecccCCCceeecCccc-------hHHHHHhhhhhhccCCCceEEEEccC
Q psy6382 73 KPKLIFHCQLAHGSPTGLISGFSN-------VRELYQKIAECYEFPAEEVQFGALLE 122 (125)
Q Consensus 73 ~p~LvFh~QLAHGSptg~I~gFsn-------VkELY~kIAe~f~i~~~eIlFCTLNT 122 (125)
..+|.|--|. -|-=..+|+||-. +-+.|.+|++-.+.++.||||.|=|+
T Consensus 152 AqKllfg~s~-~gdl~~y~~gyfDt~iG~K~e~~sy~~I~~~Ig~s~~eiLfLTd~~ 207 (254)
T KOG2630|consen 152 AQKLLFGYSD-AGDLRKYISGYFDTTIGLKVESQSYKKIGHLIGKSPREILFLTDVP 207 (254)
T ss_pred HHHHHHcccC-cchHHHHhhhhhhccccceehhHHHHHHHHHhCCChhheEEeccCh
Confidence 4578887773 3666677777754 56899999999999999999999665
No 13
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. 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 noncanonical PB1-interactions. The PB1 domain module
Probab=59.13 E-value=11 Score=26.56 Aligned_cols=22 Identities=18% Similarity=0.475 Sum_probs=18.6
Q ss_pred chHHHHHhhhhhhccCC-CceEE
Q psy6382 96 NVRELYQKIAECYEFPA-EEVQF 117 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~-~eIlF 117 (125)
+..+|++||++.|.|++ .++.+
T Consensus 26 ~~~~L~~kI~~~f~l~~~~~~~l 48 (91)
T cd06398 26 NMDGLREKVEELFSLSPDADLSL 48 (91)
T ss_pred CHHHHHHHHHHHhCCCCCCcEEE
Confidence 66899999999999987 66665
No 14
>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=58.79 E-value=9 Score=25.53 Aligned_cols=29 Identities=14% Similarity=0.054 Sum_probs=23.8
Q ss_pred eecCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
.++.=.+|.+|.++|++.++++++++-+.
T Consensus 17 ~v~~~~TV~~LK~~I~~~~~~~~~~qrLi 45 (73)
T cd01791 17 KCNPDDTIGDLKKLIAAQTGTRPEKIVLK 45 (73)
T ss_pred EeCCCCcHHHHHHHHHHHhCCChHHEEEE
Confidence 44555789999999999999999987653
No 15
>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=57.68 E-value=15 Score=22.83 Aligned_cols=29 Identities=14% Similarity=0.200 Sum_probs=23.9
Q ss_pred eecCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
.|+.-.+|.+|-++|++.+++|+++.-+.
T Consensus 16 ~v~~~~tv~~lK~~i~~~~g~~~~~qrL~ 44 (76)
T cd01806 16 DIEPTDKVERIKERVEEKEGIPPQQQRLI 44 (76)
T ss_pred EECCCCCHHHHHHHHhHhhCCChhhEEEE
Confidence 36666889999999999999999975553
No 16
>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=56.89 E-value=8.6 Score=24.80 Aligned_cols=26 Identities=15% Similarity=0.238 Sum_probs=22.8
Q ss_pred eecCccchHHHHHhhhhhhccCCCce
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
.|+.-.+|.++-++|++.++||+++.
T Consensus 14 ~v~~~~tV~~lK~~i~~~~gip~~~q 39 (74)
T cd01793 14 EVTGQETVSDIKAHVAGLEGIDVEDQ 39 (74)
T ss_pred EECCcCcHHHHHHHHHhhhCCCHHHE
Confidence 46677899999999999999998875
No 17
>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=56.78 E-value=8.3 Score=24.59 Aligned_cols=25 Identities=12% Similarity=0.327 Sum_probs=21.1
Q ss_pred ecCccchHHHHHhhhhhhccCCCce
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
|+.=.+|.+|.++||+.++++++++
T Consensus 16 v~~~~TV~~lK~~I~~~~~i~~~~~ 40 (71)
T cd01808 16 IAEDASVKDFKEAVSKKFKANQEQL 40 (71)
T ss_pred ECCCChHHHHHHHHHHHhCCCHHHE
Confidence 4555789999999999999988864
No 18
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=54.69 E-value=4.5 Score=25.63 Aligned_cols=21 Identities=19% Similarity=0.529 Sum_probs=17.9
Q ss_pred chHHHHHhhhhhhccCCCceE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIl 116 (125)
++.++-+.+|+.|+|+++||+
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i~ 21 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDLK 21 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHHh
Confidence 467888999999999999874
No 19
>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=54.60 E-value=9.5 Score=24.73 Aligned_cols=25 Identities=8% Similarity=-0.009 Sum_probs=22.0
Q ss_pred eecCccchHHHHHhhhhhhccCCCc
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEE 114 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~e 114 (125)
.|+.-.+|.+|-++|++.+++|+++
T Consensus 15 ~v~~~~TV~~lK~~I~~~~gip~~~ 39 (71)
T cd01796 15 DVDPDLELENFKALCEAESGIPASQ 39 (71)
T ss_pred EECCcCCHHHHHHHHHHHhCCCHHH
Confidence 4667789999999999999999885
No 20
>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=54.53 E-value=13 Score=24.59 Aligned_cols=26 Identities=19% Similarity=0.333 Sum_probs=21.2
Q ss_pred ecCccchHHHHHhhhhhhccCCCceE
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~eIl 116 (125)
++.=.+|.||.++|++.+++++++.-
T Consensus 18 v~~~~TV~~LK~~I~~~~~~~~~~qr 43 (78)
T cd01804 18 VPPDETVEGLKKRISQRLKVPKERLA 43 (78)
T ss_pred ECCcCHHHHHHHHHHHHhCCChHHEE
Confidence 34446899999999999999988653
No 21
>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=54.38 E-value=8.4 Score=25.27 Aligned_cols=26 Identities=12% Similarity=0.029 Sum_probs=22.7
Q ss_pred eecCccchHHHHHhhhhhhccCCCce
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
.|+...+|.++-++|++.+++|+++.
T Consensus 14 ~v~~~~TV~~lK~~I~~~~gi~~~~q 39 (70)
T cd01794 14 SVSSKDTVGQLKKQLQAAEGVDPCCQ 39 (70)
T ss_pred EECCcChHHHHHHHHHHHhCCCHHHe
Confidence 56788999999999999999988853
No 22
>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=53.08 E-value=9.8 Score=25.05 Aligned_cols=27 Identities=30% Similarity=0.318 Sum_probs=22.9
Q ss_pred ecCccchHHHHHhhhhhhccCCCceEE
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~eIlF 117 (125)
|+.=.+|.||.++|++.+++++++.-+
T Consensus 19 v~~~~TV~~lK~~I~~~~~i~~~~qrL 45 (80)
T cd01792 19 LRDSMTVSELKQQIAQKIGVPAFQQRL 45 (80)
T ss_pred cCCCCcHHHHHHHHHHHhCCCHHHEEE
Confidence 455678999999999999999987755
No 23
>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=52.99 E-value=15 Score=23.63 Aligned_cols=27 Identities=15% Similarity=0.112 Sum_probs=22.7
Q ss_pred eecCccchHHHHHhhhhhhccCCCceE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIl 116 (125)
.|+.-.+|++|-++|++..+||+++.-
T Consensus 14 ~v~~~~tV~~lK~~I~~~~gi~~~~q~ 40 (74)
T cd01810 14 EVQLTQTVATLKQQVSQRERVQADQFW 40 (74)
T ss_pred EECCcChHHHHHHHHHHHhCCCHHHeE
Confidence 466678999999999999999888643
No 24
>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=51.84 E-value=14 Score=23.34 Aligned_cols=27 Identities=11% Similarity=0.352 Sum_probs=23.0
Q ss_pred ecCccchHHHHHhhhhhhccCCCceEE
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~eIlF 117 (125)
|+.-.+|+++-+.|++..++|++++-.
T Consensus 15 v~~~~tV~~lK~~i~~~~gi~~~~q~L 41 (70)
T cd01798 15 VDPDTDIKQLKEVVAKRQGVPPDQLRV 41 (70)
T ss_pred ECCCChHHHHHHHHHHHHCCCHHHeEE
Confidence 557789999999999999999887644
No 25
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=51.36 E-value=13 Score=22.81 Aligned_cols=22 Identities=14% Similarity=0.223 Sum_probs=14.4
Q ss_pred HHHHhhhhhhccCCCceEEEEcc
Q psy6382 99 ELYQKIAECYEFPAEEVQFGALL 121 (125)
Q Consensus 99 ELY~kIAe~f~i~~~eIlFCTLN 121 (125)
++++.+++++++|+++|. +.++
T Consensus 23 ~it~~l~~~~~~p~~~v~-V~i~ 44 (61)
T PRK02220 23 DVTAAVSKNTGAPAEHIH-VIIN 44 (61)
T ss_pred HHHHHHHHHhCcChhhEE-EEEE
Confidence 444455589999988875 4443
No 26
>PF02071 NSF: Aromatic-di-Alanine (AdAR) repeat ; InterPro: IPR000744 Regulated exocytosis of neurotransmitters and hormones, as well as intracellular traffic, requires fusion of two lipid bilayers. SNARE proteins are thought to form a protein bridge, the SNARE complex, between an incoming vesicle and the acceptor compartment. SNARE proteins contribute to the specificity of membrane fusion, implying that the mechanisms by which SNAREs are targeted to subcellular compartments are important for specific docking and fusion of vesicles. This mechanism involves a family of conserved proteins, members of which appear to function at all sites of constitutive and regulated secretion in eukaryotes []. Among them are 2 types of cytosolic protein, NSF (N-ethyl-maleimide-sensitive protein) and the SNAPs (alpha-, beta- and gamma-soluble NSF attachment proteins). The yeast vesicular fusion protein, sec17, a cytoplasmic peripheral membrane protein involved in vesicular transport between the endoplasmic reticulum and the golgi apparatus, shows a high degree of sequence similarity to the alpha-SNAP family. SNAP-25 and its non-neuronal homologue Syndet/SNAP-23 are synthesized as soluble proteins in the cytosol. Both SNAP-25 and Syndet/SNAP-23 are palmitoylated at cysteine residues clustered in a loop between two N- and C-terminal coils and palmitoylation is essential for membrane binding and plasma membrane targeting. The C-terminal and the N-terminal helices of SNAP-25, are each targeted to the plasma membrane by two distinct cysteine-rich domains and appear to regulate the availability of SNAP to form complexes with SNARE [].; GO: 0006886 intracellular protein transport
Probab=51.10 E-value=7.9 Score=18.97 Aligned_cols=10 Identities=60% Similarity=1.228 Sum_probs=8.1
Q ss_pred HHHHhhhhhh
Q psy6382 99 ELYQKIAECY 108 (125)
Q Consensus 99 ELY~kIAe~f 108 (125)
+-|+++|+||
T Consensus 3 ~~y~~Aa~~y 12 (12)
T PF02071_consen 3 KCYEKAAECY 12 (12)
T ss_pred HHHHHHHhhC
Confidence 3589999987
No 27
>cd03072 PDI_b'_ERp44 PDIb' family, ERp44 subfamily, second redox inactive TRX-like domain b'; ERp44 is an endoplasmic reticulum (ER)-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. Through the formation of reversible mixed disulfides, ERp44 mediates the ER localization of Ero1alpha, a protein that oxidizes protein disulfide isomerases into their active form. ERp44 also prevents the secretion of unassembled cargo protein with unpaired cysteines. ERp44 also modulates the activity of inositol 1,4,5-triphosphate type I receptor (IP3R1), an intracellular channel protein that mediates calcium release from the ER to the cytosol. Similar to PDI, the b' domain of ERp44 is likely involved in substrate recognition and may be the primary binding site.
Probab=50.67 E-value=12 Score=26.29 Aligned_cols=30 Identities=13% Similarity=0.183 Sum_probs=25.8
Q ss_pred ecCccchHHHHHhhhhh---hccCCCceEEEEccCC
Q psy6382 91 ISGFSNVRELYQKIAEC---YEFPAEEVQFGALLEN 123 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~---f~i~~~eIlFCTLNT~ 123 (125)
-+++..+++.++++|+. |. .+|+|+++|..
T Consensus 26 ~~~~~~~~~~~~~vAk~~~~~k---gki~Fv~~d~~ 58 (111)
T cd03072 26 KDDLESLKEFKQAVARQLISEK---GAINFLTADGD 58 (111)
T ss_pred chHHHHHHHHHHHHHHHHHhcC---ceEEEEEEech
Confidence 46788999999999999 86 67999999864
No 28
>cd02982 PDI_b'_family Protein Disulfide Isomerase (PDIb') family, redox inactive TRX-like domain b'; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI, calsequestrin and other PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5 and PDIR. PDI, ERp57, ERp72, P5 and PDIR are all oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. These proteins contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and one or more redox inactive TRX-like (b) domains. The molecular structure of PDI is abb'a'. Also included in this family is the PDI-related protein ERp27, w
Probab=49.70 E-value=20 Score=22.99 Aligned_cols=28 Identities=14% Similarity=0.332 Sum_probs=24.2
Q ss_pred CccchHHHHHhhhhhhccCCCceEEEEccCC
Q psy6382 93 GFSNVRELYQKIAECYEFPAEEVQFGALLEN 123 (125)
Q Consensus 93 gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~ 123 (125)
....+++.++++|+.|. .+|.|+.+|..
T Consensus 26 ~~~~~~~~~~~vA~~~~---~~v~f~~vd~~ 53 (103)
T cd02982 26 ESEELRERFKEVAKKFK---GKLLFVVVDAD 53 (103)
T ss_pred hHHHHHHHHHHHHHHhC---CeEEEEEEchH
Confidence 66788999999999998 77999999864
No 29
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=49.57 E-value=14 Score=23.13 Aligned_cols=19 Identities=32% Similarity=0.580 Sum_probs=13.4
Q ss_pred HHHHHhhhhhhccCCCceE
Q psy6382 98 RELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 98 kELY~kIAe~f~i~~~eIl 116 (125)
+++++.+++.+++|+++|.
T Consensus 22 ~~it~~l~~~lg~p~~~v~ 40 (64)
T PRK01964 22 REVTEAISATLDVPKERVR 40 (64)
T ss_pred HHHHHHHHHHhCcChhhEE
Confidence 3444555588999998875
No 30
>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=49.36 E-value=13 Score=26.29 Aligned_cols=40 Identities=20% Similarity=0.188 Sum_probs=29.6
Q ss_pred CceEEeeecccCCCc-eeecCccchHHHHHhhhhhhccCCCce
Q psy6382 74 PKLIFHCQLAHGSPT-GLISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 74 p~LvFh~QLAHGSpt-g~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
-++.+-+. .|... =.|+...+|.+|-++|++.++||+++.
T Consensus 28 M~I~Vk~l--~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~Q 68 (103)
T cd01802 28 MELFIETL--TGTCFELRVSPFETVISVKAKIQRLEGIPVAQQ 68 (103)
T ss_pred EEEEEEcC--CCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHE
Confidence 34555444 35433 358899999999999999999998853
No 31
>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=48.10 E-value=23 Score=22.44 Aligned_cols=26 Identities=31% Similarity=0.332 Sum_probs=21.4
Q ss_pred ecCccchHHHHHhhhhhhcc--CCCceE
Q psy6382 91 ISGFSNVRELYQKIAECYEF--PAEEVQ 116 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i--~~~eIl 116 (125)
++.-.+|.+|-+.|++.+++ +++++-
T Consensus 17 v~~~~TV~~lK~~i~~~~~i~~~~~~q~ 44 (77)
T cd01805 17 VDPDDTVAELKEKIEEEKGCDYPPEQQK 44 (77)
T ss_pred ECCCCcHHHHHHHHHHhhCCCCChhHeE
Confidence 45567899999999999998 887653
No 32
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=46.69 E-value=20 Score=22.00 Aligned_cols=21 Identities=14% Similarity=0.196 Sum_probs=16.4
Q ss_pred hHHHHHhhhhhhccCCCceEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlF 117 (125)
.+++++.+++++++++++|.-
T Consensus 21 ~~~it~~l~~~lg~~~~~v~V 41 (63)
T TIGR00013 21 IEGVTEAMAETLGANLESIVV 41 (63)
T ss_pred HHHHHHHHHHHhCCCcccEEE
Confidence 466777888999999887753
No 33
>TIGR01691 enolase-ppase 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. This enzyme is the enolase-phosphatase of methionine salvage, a pathway that regenerates methionine from methylthioadenosine (MTA). Adenosylmethionine (AdoMet) is a donor of different moieties for various processes, including methylation reactions. Use of AdoMet for spermidine biosynthesis, which leads to polyamine biosynthesis, leaves MTA as a by-product that must be cleared. In Bacillus subtilis and related species, this single protein is replaced by separate enzymes with enolase and phosphatase activities.
Probab=46.20 E-value=14 Score=29.12 Aligned_cols=25 Identities=28% Similarity=0.320 Sum_probs=22.3
Q ss_pred cchHHHHHhhhhhhccCCCceEEEE
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFCT 119 (125)
-.-.+.|.+|++.++++|++++|..
T Consensus 152 KP~p~~y~~i~~~lgv~p~e~lfVg 176 (220)
T TIGR01691 152 KTEAQSYVKIAGQLGSPPREILFLS 176 (220)
T ss_pred CCCHHHHHHHHHHhCcChhHEEEEe
Confidence 5567999999999999999999964
No 34
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=45.37 E-value=24 Score=20.81 Aligned_cols=28 Identities=32% Similarity=0.311 Sum_probs=22.6
Q ss_pred eeecCccchHHHHHhhhhhhccCCCceE
Q psy6382 89 GLISGFSNVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 89 g~I~gFsnVkELY~kIAe~f~i~~~eIl 116 (125)
=.|+.=.+|.+|-++|++.+++|++++-
T Consensus 14 ~~v~~~~tv~~lk~~i~~~~~~~~~~~~ 41 (64)
T smart00213 14 LEVKPSDTVSELKEKIAELTGIPVEQQR 41 (64)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHHEE
Confidence 3455567899999999999999988643
No 35
>PF13647 Glyco_hydro_80: Glycosyl hydrolase family 80 of chitosanase A
Probab=44.30 E-value=12 Score=31.94 Aligned_cols=24 Identities=46% Similarity=0.695 Sum_probs=21.0
Q ss_pred ceEEeeecccCCCceeecCccchHH
Q psy6382 75 KLIFHCQLAHGSPTGLISGFSNVRE 99 (125)
Q Consensus 75 ~LvFh~QLAHGSptg~I~gFsnVkE 99 (125)
-|-|+.|...|| .|.|+.|++||.
T Consensus 201 glafqvqvntgs-igsisafssvks 224 (308)
T PF13647_consen 201 GLAFQVQVNTGS-IGSISAFSSVKS 224 (308)
T ss_pred eEEEEEEecccc-ccceehhhhccc
Confidence 478999999887 699999999974
No 36
>cd03409 Chelatase_Class_II Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the cobaltochelatases, CbiK and CbiX. HemH and SirB are involved in heme and siroheme biosynthesis, respectively, while the cobaltochelatases are associated with cobalamin biosynthesis. Excluded from this family are the ATP-dependent heterotrimeric chelatases (class I) and the multifunctional homodimeric enzymes with dehydrogenase and chelatase activities (class III).
Probab=43.87 E-value=40 Score=21.88 Aligned_cols=37 Identities=22% Similarity=0.222 Sum_probs=20.0
Q ss_pred cccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEcc
Q psy6382 82 LAHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALL 121 (125)
Q Consensus 82 LAHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLN 121 (125)
++|||+... ..-.-+.++.+.+++.+ +..++..|.+.
T Consensus 5 v~HGs~~~s-~~~~~~~~~~~~l~~~~--~~~~v~~a~~~ 41 (101)
T cd03409 5 VGHGSPYKD-PYKKDIEAQAHNLAESL--PDFPYYVGFQS 41 (101)
T ss_pred EECCCCCCc-cHHHHHHHHHHHHHHHC--CCCCEEEEEEC
Confidence 589999651 11123445555555554 33556666654
No 37
>PF01337 Barstar: Barstar (barnase inhibitor); InterPro: IPR000468 Barstar is a small single chain protein. Barnase is the extracellular ribonuclease IPR001887 from INTERPRO of Bacillus amyloliquefaciens, and barstar its specific intracellular inhibitor [, ]. Expression of barstar is necessary to counter the lethal effect of expressed active barnase. The structure of the barnase-barstar complex is known [].; PDB: 2CX6_A 1B2U_F 1A19_A 1X1U_F 1B27_E 1X1W_F 1BGS_E 1X1Y_D 1B3S_D 1B2S_D ....
Probab=43.09 E-value=19 Score=23.91 Aligned_cols=21 Identities=24% Similarity=0.631 Sum_probs=16.1
Q ss_pred cCccchHHHHHhhhhhhccCC
Q psy6382 92 SGFSNVRELYQKIAECYEFPA 112 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~ 112 (125)
.+.++..++|+.|++++++|.
T Consensus 6 ~~i~~~~~~~~~l~~~l~fP~ 26 (90)
T PF01337_consen 6 RKIRDKEDFYDALAEALDFPD 26 (90)
T ss_dssp CC-SSHHHHHHHHHHHTT--T
T ss_pred CCCCCHHHHHHHHHHHcCCCc
Confidence 568899999999999999873
No 38
>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=41.91 E-value=21 Score=25.36 Aligned_cols=23 Identities=35% Similarity=0.495 Sum_probs=19.6
Q ss_pred cchHHHHHhhhhhhccCCCceEE
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlF 117 (125)
-+..+|++||++-+.+++++|.-
T Consensus 21 ~~y~~L~~ki~~kLkl~~e~i~L 43 (80)
T cd06406 21 LSYATLLQKISSKLELPAEHITL 43 (80)
T ss_pred CCHHHHHHHHHHHhCCCchhcEE
Confidence 36789999999999999888753
No 39
>COG2411 Uncharacterized conserved protein [Function unknown]
Probab=41.64 E-value=19 Score=29.46 Aligned_cols=27 Identities=22% Similarity=0.532 Sum_probs=22.5
Q ss_pred eeecCccchHHHHHhhhhhhc-cCCCce
Q psy6382 89 GLISGFSNVRELYQKIAECYE-FPAEEV 115 (125)
Q Consensus 89 g~I~gFsnVkELY~kIAe~f~-i~~~eI 115 (125)
.+.+||.|++||-..+.+.|+ +-++++
T Consensus 71 Ar~DGF~sreELi~~LkriYg~lr~ed~ 98 (188)
T COG2411 71 ARLDGFRSREELIEELKRIYGELRDEDI 98 (188)
T ss_pred HHhcccccHHHHHHHHHHHcCcCCCCce
Confidence 467899999999999999997 555554
No 40
>KOG3889|consensus
Probab=41.23 E-value=19 Score=32.01 Aligned_cols=37 Identities=35% Similarity=0.628 Sum_probs=29.6
Q ss_pred CCceEEeeeccc---CCCceeecCccchHHHHHhhhhhhcc
Q psy6382 73 KPKLIFHCQLAH---GSPTGLISGFSNVRELYQKIAECYEF 110 (125)
Q Consensus 73 ~p~LvFh~QLAH---GSptg~I~gFsnVkELY~kIAe~f~i 110 (125)
..--|||| |.| |+-|=.|+||.-+.||-++--|.|+|
T Consensus 202 ~GiQvfHC-l~h~gtGG~t~lVDgfy~ae~l~~~~Pe~fei 241 (371)
T KOG3889|consen 202 PGIQVFHC-LTHAGTGGDTVLVDGFYCAEKLRNESPEDFEI 241 (371)
T ss_pred CCceEEEe-ecccCCCCceEEEehHHHHHHHHhhChHhhhH
Confidence 34569999 456 45566799999999999999999985
No 41
>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=41.03 E-value=23 Score=21.89 Aligned_cols=24 Identities=17% Similarity=0.202 Sum_probs=20.5
Q ss_pred ecCccchHHHHHhhhhhhccCCCc
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEE 114 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~e 114 (125)
++.=.+|.+|-++|++.+++|+++
T Consensus 16 v~~~~tv~~lK~~i~~~~gi~~~~ 39 (71)
T cd01812 16 ISSQATFGDLKKMLAPVTGVEPRD 39 (71)
T ss_pred ECCCCcHHHHHHHHHHhhCCChHH
Confidence 455678999999999999998864
No 42
>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=39.51 E-value=41 Score=20.00 Aligned_cols=26 Identities=35% Similarity=0.307 Sum_probs=21.6
Q ss_pred cCccchHHHHHhhhhhhccCCCceEE
Q psy6382 92 SGFSNVRELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~~eIlF 117 (125)
..-.++.+|-++|++.++++++++-+
T Consensus 15 ~~~~ti~~lK~~i~~~~~~~~~~~~l 40 (69)
T cd01769 15 SPDDTVAELKAKIAAKEGVPPEQQRL 40 (69)
T ss_pred CCCChHHHHHHHHHHHHCcChHHEEE
Confidence 33467999999999999999987766
No 43
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=38.36 E-value=9.9 Score=25.07 Aligned_cols=21 Identities=14% Similarity=0.548 Sum_probs=15.5
Q ss_pred chHHHHHhhhhhhccCCCceE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIl 116 (125)
+++++-+.+|+.|+++++||+
T Consensus 1 t~~~Ii~~Va~~~~v~~~~i~ 21 (70)
T PF08299_consen 1 TIEDIIEAVAEYFGVSVEDIR 21 (70)
T ss_dssp -HHHHHHHHHHHTT--HHHHH
T ss_pred CHHHHHHHHHHHHCCCHHHHh
Confidence 467888999999999998873
No 44
>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=38.21 E-value=34 Score=23.00 Aligned_cols=45 Identities=16% Similarity=0.143 Sum_probs=33.4
Q ss_pred CCCceEEeeecccCCC-ceeecCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 72 SKPKLIFHCQLAHGSP-TGLISGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 72 ~~p~LvFh~QLAHGSp-tg~I~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
..-.+..++| +|.. +=.|+-=+.+++|.+++++..+|+++++-|.
T Consensus 10 ~~i~I~v~~~--~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~ 55 (87)
T cd01763 10 EHINLKVKGQ--DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFL 55 (87)
T ss_pred CeEEEEEECC--CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEE
Confidence 3445556666 4554 3456666788999999999999999999886
No 45
>PRK11053 dihydropteridine reductase; Provisional
Probab=37.84 E-value=31 Score=26.05 Aligned_cols=37 Identities=16% Similarity=0.146 Sum_probs=29.2
Q ss_pred ccCCCceeecCccchHHHHHhhhhhhccCC-CceEEEEccCCC
Q psy6382 83 AHGSPTGLISGFSNVRELYQKIAECYEFPA-EEVQFGALLENY 124 (125)
Q Consensus 83 AHGSptg~I~gFsnVkELY~kIAe~f~i~~-~eIlFCTLNT~~ 124 (125)
++|=.+..|.||. .+++.+.|+||. ...+.|.+.-||
T Consensus 156 ~~Glgs~~i~g~~-----~~~v~~~l~ip~~~~~~~~~i~lGy 193 (217)
T PRK11053 156 ALGIDATPIEGFD-----AAILDAEFGLREKGLTSSVVVPLGY 193 (217)
T ss_pred HcCCCCCCcCCcC-----HHHHHHHhCCCCcCcceEEEEEeec
Confidence 4677788899994 378899999996 576778888777
No 46
>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=37.50 E-value=49 Score=20.68 Aligned_cols=29 Identities=21% Similarity=0.282 Sum_probs=24.9
Q ss_pred eecCccchHHHHHhhhhhhccCC-CceEEE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPA-EEVQFG 118 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~-~eIlFC 118 (125)
.|.--+.+++|.+++++..++++ .++-|.
T Consensus 16 ~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~ 45 (72)
T PF11976_consen 16 KVKPTTTVSKLIEKYCEKKGIPPEESIRLI 45 (72)
T ss_dssp EEETTSCCHHHHHHHHHHHTTTT-TTEEEE
T ss_pred EECCCCcHHHHHHHHHHhhCCCccceEEEE
Confidence 45677899999999999999999 888774
No 47
>TIGR01493 HAD-SF-IA-v2 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase. The Subfamily IA and IB capping domains are predicted by PSI-PRED to consist of an alpha helical bundle. Subfamily I encompasses such a wide region of sequence space (the sequences are highly divergent) that modelling it with a single alignment is impossible, resulting in an overly broad description which allows in many unrelated sequences. Subfamily IA and IB are separated based on an aparrent phylogenetic bifurcation. Subfamily IA is still too broad to model, but cannot be further subdivided into large chunks based on phylogenetic trees. Of the three motifs defining the HAD superfamily, the third has three variant forms : (1) hhhhsDxxx(x)D, (2) hhhhssxxx(x)D and (3) hhhhDDxxx(x)s where _s_ refers to a small amino acid and _h_ to a hydrophobic one. All three of these variants are found in subfamily IA. Individual models were made based on seeds exhibiting only o
Probab=37.49 E-value=25 Score=24.71 Aligned_cols=25 Identities=16% Similarity=0.259 Sum_probs=21.5
Q ss_pred cchHHHHHhhhhhhccCCCceEEEE
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFCT 119 (125)
.--.+.|+.+++.++++|+|++|.-
T Consensus 139 KP~p~~f~~~~~~~~~~p~~~l~vg 163 (175)
T TIGR01493 139 KPDPVVYELVFDTVGLPPDRVLMVA 163 (175)
T ss_pred CCCHHHHHHHHHHHCCCHHHeEeEe
Confidence 4467899999999999999999863
No 48
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=37.18 E-value=7.5 Score=23.78 Aligned_cols=19 Identities=26% Similarity=0.312 Sum_probs=13.6
Q ss_pred HHHHhhhhhhccCCCceEE
Q psy6382 99 ELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 99 ELY~kIAe~f~i~~~eIlF 117 (125)
+.-.+||++|+++++|++-
T Consensus 41 ~~l~~ia~~l~~~~~el~~ 59 (63)
T PF13443_consen 41 DTLEKIAKALNCSPEELFE 59 (63)
T ss_dssp HHHHHHHHHHT--HHHCTE
T ss_pred HHHHHHHHHcCCCHHHHhh
Confidence 3457899999999999864
No 49
>COG1011 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=37.13 E-value=30 Score=25.07 Aligned_cols=22 Identities=27% Similarity=0.345 Sum_probs=20.0
Q ss_pred hHHHHHhhhhhhccCCCceEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFC 118 (125)
-.+.|+...+.++++|++++|+
T Consensus 156 ~~~~f~~~~~~~g~~p~~~l~V 177 (229)
T COG1011 156 DPEIFEYALEKLGVPPEEALFV 177 (229)
T ss_pred CcHHHHHHHHHcCCCcceEEEE
Confidence 4589999999999999999996
No 50
>PF07027 DUF1318: Protein of unknown function (DUF1318); InterPro: IPR008309 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.85 E-value=13 Score=26.79 Aligned_cols=18 Identities=44% Similarity=0.610 Sum_probs=15.6
Q ss_pred HHHHHhhhhhhccCCCce
Q psy6382 98 RELYQKIAECYEFPAEEV 115 (125)
Q Consensus 98 kELY~kIAe~f~i~~~eI 115 (125)
+.+|+.||+.-++++++|
T Consensus 50 ~~~Y~~iA~~ng~t~~~V 67 (95)
T PF07027_consen 50 RALYQEIAKKNGITVEQV 67 (95)
T ss_pred HHHHHHHHHHcCCCHHHH
Confidence 579999999999988765
No 51
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=36.66 E-value=16 Score=24.64 Aligned_cols=20 Identities=30% Similarity=0.697 Sum_probs=17.6
Q ss_pred cchHHHHHhhhhhhccCCCc
Q psy6382 95 SNVRELYQKIAECYEFPAEE 114 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~e 114 (125)
.+.+|+|+.|++.|+++.+|
T Consensus 20 ~~~~ei~~~v~~~~~ls~e~ 39 (92)
T PF14338_consen 20 ASRKEIYERVAERFGLSDEE 39 (92)
T ss_pred cCHHHHHHHHHHHhCCCHHH
Confidence 57899999999999998765
No 52
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=36.65 E-value=36 Score=20.33 Aligned_cols=22 Identities=9% Similarity=0.205 Sum_probs=13.9
Q ss_pred HHHHHhhhhhhccCCCceEEEEc
Q psy6382 98 RELYQKIAECYEFPAEEVQFGAL 120 (125)
Q Consensus 98 kELY~kIAe~f~i~~~eIlFCTL 120 (125)
+++++.+++.+++++++|. ..+
T Consensus 21 ~~i~~~l~~~~g~~~~~v~-V~i 42 (58)
T cd00491 21 ERVTEAVSEILGAPEATIV-VII 42 (58)
T ss_pred HHHHHHHHHHhCcCcccEE-EEE
Confidence 4455555688889877654 444
No 53
>cd05875 Ig6_hNeurofascin_like Sixth immunoglobulin (Ig)-like domain of human neurofascin (NF). Ig6_hNeurofascin_like: the sixth immunoglobulin (Ig)-like domain of human neurofascin (NF). NF belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region, and a cytoplasmic domain. NF has many alternatively spliced isoforms having different temporal expression patterns during development. NF participates in axon subcellular targeting and synapse formation, however little is known of the functions of the different isoforms.
Probab=36.23 E-value=22 Score=22.77 Aligned_cols=21 Identities=29% Similarity=0.507 Sum_probs=14.1
Q ss_pred eEEeeecccCCCceeecCccch
Q psy6382 76 LIFHCQLAHGSPTGLISGFSNV 97 (125)
Q Consensus 76 LvFh~QLAHGSptg~I~gFsnV 97 (125)
++|+|+ |.|+|+-.|.=+.+-
T Consensus 1 ~~l~C~-~~G~P~P~v~W~k~g 21 (77)
T cd05875 1 IIIECE-AKGNPVPTFQWTRNG 21 (77)
T ss_pred CEEEEe-ccccCCCEEEEEECC
Confidence 467887 568887777655543
No 54
>TIGR01509 HAD-SF-IA-v3 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED. HAD subfamilies caused by an overly broad single model.
Probab=35.54 E-value=40 Score=23.35 Aligned_cols=21 Identities=19% Similarity=0.245 Sum_probs=19.4
Q ss_pred HHHHHhhhhhhccCCCceEEE
Q psy6382 98 RELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 98 kELY~kIAe~f~i~~~eIlFC 118 (125)
.+.|+.+++.++++|++++|+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~v 163 (183)
T TIGR01509 143 PDIYLLALKKLGLKPEECLFV 163 (183)
T ss_pred HHHHHHHHHHcCCCcceEEEE
Confidence 489999999999999999986
No 55
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=35.35 E-value=43 Score=24.51 Aligned_cols=46 Identities=28% Similarity=0.351 Sum_probs=33.5
Q ss_pred CCceEEeeecccCCCceeecCcc----chHHHHHhhhhhhccCCCceEEEEcc
Q psy6382 73 KPKLIFHCQLAHGSPTGLISGFS----NVRELYQKIAECYEFPAEEVQFGALL 121 (125)
Q Consensus 73 ~p~LvFh~QLAHGSptg~I~gFs----nVkELY~kIAe~f~i~~~eIlFCTLN 121 (125)
...|+| .|||.|...++... -+.+..+.|++..+++..++..|=.|
T Consensus 18 ~~~llf---saHgiP~~~~~~gd~Y~~~~~~~~~~v~~~l~~~~~~~~~~fqS 67 (135)
T cd00419 18 KDRLLF---SAHGLPVRDIKKGDPYPDQCEETARLVAERLGLPFDEYELAYQS 67 (135)
T ss_pred CCEEEE---EcCCCHHHHhhCCCCHHHHHHHHHHHHHHHhCCCCCCEEEEecC
Confidence 456888 58999999886433 24456677889988877778777655
No 56
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=35.20 E-value=38 Score=27.12 Aligned_cols=35 Identities=23% Similarity=0.197 Sum_probs=24.6
Q ss_pred ceeecCccchHHHHHhhhhhhccCCCceEEEEccC
Q psy6382 88 TGLISGFSNVRELYQKIAECYEFPAEEVQFGALLE 122 (125)
Q Consensus 88 tg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT 122 (125)
+-.++-=.+-.||-++||+..+++|+.|.|-+.|.
T Consensus 193 ~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~~~~ 227 (249)
T PF12436_consen 193 TLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFTVNP 227 (249)
T ss_dssp EEEEETT--HHHHHHHHHHHHTS-GGGEEEE---T
T ss_pred EEEECCCCCHHHHHHHHHHHHCCChHHEEEEEecc
Confidence 44455556889999999999999999999999976
No 57
>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=34.10 E-value=60 Score=21.71 Aligned_cols=30 Identities=20% Similarity=0.419 Sum_probs=23.6
Q ss_pred eeecCccchHHHHHhhhhhhc-cCCCceEEE
Q psy6382 89 GLISGFSNVRELYQKIAECYE-FPAEEVQFG 118 (125)
Q Consensus 89 g~I~gFsnVkELY~kIAe~f~-i~~~eIlFC 118 (125)
++-+||.|+.|+-+.+.+.|+ .++++.+++
T Consensus 65 A~~eG~~s~~~~~~~l~~~Y~~~~~~~~v~v 95 (100)
T cd06552 65 ARQEGFPSLEELKEALKEIYPGLKDDDEVYV 95 (100)
T ss_pred HHhcCCccHHHHHHHHHHHcCCCCCCCEEEE
Confidence 456799999999999999987 456666654
No 58
>PRK04635 histidinol-phosphate aminotransferase; Provisional
Probab=33.98 E-value=27 Score=27.86 Aligned_cols=22 Identities=14% Similarity=0.110 Sum_probs=20.0
Q ss_pred hHHHHHhhhhhhccCCCceEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFC 118 (125)
-.+|.+.||+.+++++++|+++
T Consensus 62 ~~~Lr~aia~~~~~~~~~I~it 83 (354)
T PRK04635 62 PPELINAYSAYAGVAPEQILTS 83 (354)
T ss_pred HHHHHHHHHHHhCcCHHHEEEe
Confidence 5789999999999999999875
No 59
>PF14566 PTPlike_phytase: Inositol hexakisphosphate; PDB: 1U24_A 2PSZ_B 3MOZ_A 3D1H_B 2B4P_B 3D1Q_A 2B4O_A 3MMJ_B 1U25_A 1U26_B ....
Probab=33.92 E-value=17 Score=26.73 Aligned_cols=11 Identities=45% Similarity=0.770 Sum_probs=7.5
Q ss_pred CCceEEeeecc
Q psy6382 73 KPKLIFHCQLA 83 (125)
Q Consensus 73 ~p~LvFh~QLA 83 (125)
..-|+||||.-
T Consensus 124 ~~~l~fhC~~G 134 (149)
T PF14566_consen 124 DTWLHFHCQAG 134 (149)
T ss_dssp T-EEEEE-SSS
T ss_pred CCeEEEECCCC
Confidence 66899999973
No 60
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=33.88 E-value=40 Score=20.64 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=17.2
Q ss_pred hHHHHHhhh----hhhccCCCceEEEEccC
Q psy6382 97 VRELYQKIA----ECYEFPAEEVQFGALLE 122 (125)
Q Consensus 97 VkELY~kIA----e~f~i~~~eIlFCTLNT 122 (125)
.++||+.|. +.|++++++| |..++.
T Consensus 17 k~~l~~~it~~l~~~~~~p~~~v-~V~i~e 45 (62)
T PRK00745 17 KRKLVEEITRVTVETLGCPPESV-DIIITD 45 (62)
T ss_pred HHHHHHHHHHHHHHHcCCChhHE-EEEEEE
Confidence 355666665 7789999887 666553
No 61
>cd02984 TRX_PICOT TRX domain, PICOT (for PKC-interacting cousin of TRX) subfamily; PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT contains an N-terminal TRX-like domain, which does not contain the catalytic CXXC motif, followed by one to three glutaredoxin domains. The TRX-like domain is required for interaction with PKC theta. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli.
Probab=33.69 E-value=40 Score=21.31 Aligned_cols=30 Identities=27% Similarity=0.522 Sum_probs=23.1
Q ss_pred CCCceEEeeecccCCCceeecCccchHHHHHhhh
Q psy6382 72 SKPKLIFHCQLAHGSPTGLISGFSNVRELYQKIA 105 (125)
Q Consensus 72 ~~p~LvFh~QLAHGSptg~I~gFsnVkELY~kIA 105 (125)
.-|.++|.-+ |...+++.|+ +.++|.++|+
T Consensus 68 ~~Pt~~~~~~---g~~~~~~~g~-~~~~l~~~~~ 97 (97)
T cd02984 68 AVPTFVFFRN---GTIVDRVSGA-DPKELAKKVE 97 (97)
T ss_pred cccEEEEEEC---CEEEEEEeCC-CHHHHHHhhC
Confidence 3566777754 9999999997 6788888774
No 62
>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=33.45 E-value=36 Score=20.92 Aligned_cols=24 Identities=33% Similarity=0.378 Sum_probs=20.0
Q ss_pred ecCccchHHHHHhhhhhhccCCCc
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEE 114 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~e 114 (125)
++.-.+|.+|-++|++..++|+++
T Consensus 17 v~~~~tv~~lK~~i~~~~gi~~~~ 40 (72)
T cd01809 17 VEEEITVLDLKEKIAEEVGIPVEQ 40 (72)
T ss_pred ECCCCcHHHHHHHHHHHHCcCHHH
Confidence 344578999999999999998875
No 63
>PRK05365 malonic semialdehyde reductase; Provisional
Probab=33.34 E-value=46 Score=24.78 Aligned_cols=37 Identities=19% Similarity=0.126 Sum_probs=30.6
Q ss_pred ccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 83 AHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 83 AHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
++|=.++-|.||.. +++.+.++||....+.|.+--||
T Consensus 137 ~~Glgs~~~~g~~~-----~~v~~~l~ip~~~~~v~~ialGy 173 (195)
T PRK05365 137 ALGLDAGPMSGFDA-----AAVDAEFFAGTTWKSNFLVNIGY 173 (195)
T ss_pred HcCCccCCccccCH-----HHHHHHhCCCCCeeEEEEEEeCC
Confidence 57888888999943 67888999998888889888777
No 64
>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=33.27 E-value=26 Score=23.39 Aligned_cols=24 Identities=33% Similarity=0.490 Sum_probs=20.2
Q ss_pred ecCccchHHHHHhhhhhhccCCCc
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEE 114 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~e 114 (125)
++.-.+|.++-++|++.+++|+++
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~ 42 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPEC 42 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHH
Confidence 344578999999999999998874
No 65
>cd05140 Barstar_AU1054-like Barstar_AU1054-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor AU1054 found in Burkholderia cenocepacia. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=32.66 E-value=36 Score=23.68 Aligned_cols=22 Identities=36% Similarity=0.729 Sum_probs=18.2
Q ss_pred ecCccchHHHHHhhhhhhccCC
Q psy6382 91 ISGFSNVRELYQKIAECYEFPA 112 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~ 112 (125)
.++.++-.++|+.+|++|++|.
T Consensus 5 ~~~i~~~~~l~~~l~~~l~fP~ 26 (86)
T cd05140 5 LSDITSERELHELLKECLGFPG 26 (86)
T ss_pred cccCCCHHHHHHHHHHHcCCch
Confidence 3567888999999999998873
No 66
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=32.36 E-value=42 Score=24.22 Aligned_cols=24 Identities=33% Similarity=0.469 Sum_probs=21.0
Q ss_pred chHHHHHhhhhhhccCCCceEEEE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIlFCT 119 (125)
--.+.|+.+++.++++|++++|.-
T Consensus 149 P~~~~~~~~~~~~~~~p~~~~~vg 172 (198)
T TIGR01428 149 PAPQVYQLALEALGVPPDEVLFVA 172 (198)
T ss_pred CCHHHHHHHHHHhCCChhhEEEEe
Confidence 357899999999999999999864
No 67
>cd05142 Barstar Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=32.11 E-value=37 Score=23.58 Aligned_cols=21 Identities=14% Similarity=0.317 Sum_probs=17.7
Q ss_pred cCccchHHHHHhhhhhhccCC
Q psy6382 92 SGFSNVRELYQKIAECYEFPA 112 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~ 112 (125)
+.+++..++|+.++++|++|.
T Consensus 7 ~~i~~~~~f~~~l~~~~~~p~ 27 (87)
T cd05142 7 EEIRSIEDLHQILKKELALPE 27 (87)
T ss_pred ccCCCHHHHHHHHHHHhCCch
Confidence 457888999999999998874
No 68
>cd05749 Ig2_Tyro3_like Second immunoglobulin (Ig)-like domain of Axl/Tyro3 receptor tyrosine kinases (RTKs). Ig2_Tyro3_like: the second immunoglobulin (Ig)-like domain in the Axl/Tyro3 family of receptor tyrosine kinases (RTKs). This family includes Axl (also known as Ark, Ufo, and Tyro7), Tyro3 (also known as Sky, Rse, Brt, Dtk, and Tif), and Mer (also known as Nyk, c-Eyk, and Tyro12). Axl/Tyro3 family receptors have an extracellular portion with two Ig-like domains followed by two fibronectin-types III (FNIII) domains, a membrane-spanning single helix, and a cytoplasmic tyrosine kinase domain. Axl, Tyro3 and Mer are widely expressed in adult tissues, though they show higher expression in the brain, in the lymphatic and vascular systems, and in the testis. Axl, Tyro3, and Mer bind the vitamin K dependent protein Gas6 with high affinity, and in doing so activate their tyrosine kinase activity. Axl/Gas6 signaling may play a part in cell adhesion processes, prevention of apoptosis, and c
Probab=31.99 E-value=31 Score=22.80 Aligned_cols=22 Identities=27% Similarity=0.419 Sum_probs=16.0
Q ss_pred CCceEEeeecccCCCce-eecCcc
Q psy6382 73 KPKLIFHCQLAHGSPTG-LISGFS 95 (125)
Q Consensus 73 ~p~LvFh~QLAHGSptg-~I~gFs 95 (125)
.-...|+|+ |+|.|.- .|.=+-
T Consensus 13 G~~v~l~C~-a~G~P~P~~I~W~k 35 (81)
T cd05749 13 NTPFNLTCQ-AVGPPEPVEILWWQ 35 (81)
T ss_pred CCCEEEEEE-eeeecCCeEEEEEE
Confidence 346899999 8999977 464333
No 69
>cd03073 PDI_b'_ERp72_ERp57 PDIb' family, ERp72 and ERp57 subfamily, second redox inactive TRX-like domain b'; ERp72 and ER57 are involved in oxidative protein folding in the ER, like PDI. They exhibit both disulfide oxidase and reductase functions, by catalyzing the formation of disulfide bonds of newly synthesized polypeptides and acting as isomerases to correct any non-native disulfide bonds. They also display chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. ERp57 contains two redox-active TRX (a) domains and two redox inactive TRX-like (b) domains. It shares the same domain arrangement of abb'a' as PDI, but lacks the C-terminal acid-rich region (c domain) that is present in PDI. ERp72 contains one additional redox-active TRX (a) domain at the N-terminus with a molecular structure of a"abb'a'. ERp57 interacts with the lectin chaperones, calnexin and calreticulin, and specifically promotes the oxidative folding of glycoprotei
Probab=31.23 E-value=34 Score=24.23 Aligned_cols=41 Identities=12% Similarity=0.067 Sum_probs=29.9
Q ss_pred eEEeeecccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccC
Q psy6382 76 LIFHCQLAHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLE 122 (125)
Q Consensus 76 LvFh~QLAHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT 122 (125)
++|.|.-.-.+ -+++...++.+.++|+.|.= .+|+|+++|.
T Consensus 19 ~~~~~~~~~~~----~~~~~~~~~~~~~vAk~fk~--gki~Fv~~D~ 59 (111)
T cd03073 19 VAYYNVDYSKN----PKGTNYWRNRVLKVAKDFPD--RKLNFAVADK 59 (111)
T ss_pred EEEEeccccCC----hhHHHHHHHHHHHHHHHCcC--CeEEEEEEcH
Confidence 55556532222 37788899999999999963 5799999875
No 70
>PRK07908 hypothetical protein; Provisional
Probab=31.22 E-value=36 Score=26.97 Aligned_cols=23 Identities=22% Similarity=0.078 Sum_probs=20.2
Q ss_pred hHHHHHhhhhhhccCCCceEEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFCT 119 (125)
..+|.+.||+-+++++++|+++.
T Consensus 60 ~~~lr~aia~~~~~~~~~I~it~ 82 (349)
T PRK07908 60 ERRARAAVAARHGRTPDEVLLLA 82 (349)
T ss_pred hHHHHHHHHHHhCcChhhEEECC
Confidence 57899999999999999999863
No 71
>cd05141 Barstar_evA4336-like Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=31.21 E-value=40 Score=22.61 Aligned_cols=21 Identities=29% Similarity=0.653 Sum_probs=17.8
Q ss_pred ecCccchHHHHHhhhhhhccC
Q psy6382 91 ISGFSNVRELYQKIAECYEFP 111 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~ 111 (125)
.++.++..++|+.+|++|++|
T Consensus 5 g~~i~~~~~~~~~l~~~l~fP 25 (81)
T cd05141 5 LSGIADKAALLDALAAALDFP 25 (81)
T ss_pred cccCCCHHHHHHHHHHHcCCC
Confidence 356788899999999999887
No 72
>PF08769 Spo0A_C: Sporulation initiation factor Spo0A C terminal; InterPro: IPR014879 The response regulator Spo0A is comprised of a phophoacceptor domain and a transcription activation domain. This domain corresponds to the transcription activation domain and forms an alpha helical structure comprising of 6 alpha helices. The structure contains a helix-turn-helix and binds DNA [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0005509 calcium ion binding, 0006355 regulation of transcription, DNA-dependent, 0042173 regulation of sporulation resulting in formation of a cellular spore, 0005737 cytoplasm; PDB: 1FC3_C 1LQ1_D.
Probab=30.65 E-value=10 Score=27.36 Aligned_cols=19 Identities=37% Similarity=0.569 Sum_probs=14.5
Q ss_pred hHHHHHhhhhhhccCCCce
Q psy6382 97 VRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eI 115 (125)
.|+||-.||+.|+.+++.|
T Consensus 39 tK~LYp~IA~k~~TT~s~V 57 (106)
T PF08769_consen 39 TKELYPDIAKKYGTTPSRV 57 (106)
T ss_dssp TTTHHHHHHHHTTS-HHHH
T ss_pred hhhHHHHHHHHHCCCHHHH
Confidence 3679999999999876543
No 73
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=30.55 E-value=12 Score=22.88 Aligned_cols=18 Identities=28% Similarity=0.337 Sum_probs=13.8
Q ss_pred HHHHhhhhhhccCCCceE
Q psy6382 99 ELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 99 ELY~kIAe~f~i~~~eIl 116 (125)
+.-.+||++|++++++++
T Consensus 42 ~~l~~i~~~~~v~~~~l~ 59 (64)
T PF12844_consen 42 STLKKIAEALGVSLDELF 59 (64)
T ss_dssp HHHHHHHHHHTS-HHHHC
T ss_pred HHHHHHHHHhCCCHHHHh
Confidence 455899999999988764
No 74
>PTZ00044 ubiquitin; Provisional
Probab=30.44 E-value=55 Score=20.65 Aligned_cols=27 Identities=7% Similarity=0.079 Sum_probs=22.5
Q ss_pred eecCccchHHHHHhhhhhhccCCCceE
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIl 116 (125)
.++.-.+|++|=++|++..++|+++.-
T Consensus 16 ~v~~~~tv~~lK~~i~~~~gi~~~~q~ 42 (76)
T PTZ00044 16 NFEPDNTVQQVKMALQEKEGIDVKQIR 42 (76)
T ss_pred EECCCCcHHHHHHHHHHHHCCCHHHeE
Confidence 456678899999999999999988643
No 75
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=30.20 E-value=40 Score=24.71 Aligned_cols=23 Identities=22% Similarity=0.355 Sum_probs=20.4
Q ss_pred chHHHHHhhhhhhccCCCceEEE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIlFC 118 (125)
--.+.|+.+++.++++|+|++|.
T Consensus 142 P~p~~~~~~~~~~~~~p~~~l~v 164 (199)
T PRK09456 142 PEARIYQHVLQAEGFSAADAVFF 164 (199)
T ss_pred CCHHHHHHHHHHcCCChhHeEEe
Confidence 44789999999999999999985
No 76
>TIGR03235 DNA_S_dndA cysteine desulfurase DndA. This model describes DndA, a protein related to IscS and part of a larger family of cysteine desulfurases. It is encoded, typically, divergently from a conserved, sparsely distributed operon for sulfur modification of DNA. This modification system is designated dnd, after the phenotype of DNA degradation during electrophoresis. The system is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase.
Probab=30.14 E-value=51 Score=25.97 Aligned_cols=23 Identities=30% Similarity=0.382 Sum_probs=20.3
Q ss_pred hHHHHHhhhhhhccCCCceEEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFCT 119 (125)
++++-++||+.++.++++|+|+.
T Consensus 44 ~~~~r~~la~~~g~~~~~v~~~~ 66 (353)
T TIGR03235 44 VERARKQVAEALGADTEEVIFTS 66 (353)
T ss_pred HHHHHHHHHHHhCCCCCeEEEeC
Confidence 67888999999999999999873
No 77
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. 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 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid 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
Probab=30.11 E-value=50 Score=23.50 Aligned_cols=28 Identities=21% Similarity=0.269 Sum_probs=20.4
Q ss_pred CCceeecCcc-----chHHHHHhhhhhhccCCC
Q psy6382 86 SPTGLISGFS-----NVRELYQKIAECYEFPAE 113 (125)
Q Consensus 86 Sptg~I~gFs-----nVkELY~kIAe~f~i~~~ 113 (125)
+|-|++.-|+ ++.||.+.||+-|++...
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~ 39 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDDF 39 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCccc
Confidence 3445554443 679999999999998753
No 78
>TIGR03402 FeS_nifS cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403.
Probab=29.42 E-value=53 Score=26.15 Aligned_cols=24 Identities=21% Similarity=0.331 Sum_probs=21.0
Q ss_pred chHHHHHhhhhhhccCCCceEEEE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIlFCT 119 (125)
-++|+.+.||+.++.++++|+|+.
T Consensus 43 ~~~~~r~~la~~~g~~~~~i~~t~ 66 (379)
T TIGR03402 43 AVEEAREQVAKLLGAEPDEIIFTS 66 (379)
T ss_pred HHHHHHHHHHHHhCCCCCeEEEeC
Confidence 477888999999999999999973
No 79
>PHA01976 helix-turn-helix protein
Probab=29.21 E-value=17 Score=22.45 Aligned_cols=19 Identities=5% Similarity=0.006 Sum_probs=15.0
Q ss_pred HHHHhhhhhhccCCCceEE
Q psy6382 99 ELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 99 ELY~kIAe~f~i~~~eIlF 117 (125)
+...+||++|+++++++++
T Consensus 45 ~~l~~ia~~l~v~~~~l~~ 63 (67)
T PHA01976 45 KTLLRLADALGVTLDWLCG 63 (67)
T ss_pred HHHHHHHHHHCcCHHHHhc
Confidence 3457999999999987753
No 80
>TIGR02006 IscS cysteine desulfurase IscS. This model represents IscS, one of several cysteine desulfurases from a larger protein family designated (misleadingly, in this case) class V aminotransferases. IscS is one of at least 6 enzymes characteristic of the IscSUA-hscAB-fsx system of iron-sulfur cluster assembly. Scoring almost as well as proteobacterial sequences included in the model are mitochondrial cysteine desulfurases, apparently from an analogous system in eukaryotes. The sulfur, taken from cysteine, may be used in other systems as well, such as tRNA base modification and biosynthesis of other cofactors.
Probab=29.13 E-value=53 Score=26.76 Aligned_cols=24 Identities=21% Similarity=0.285 Sum_probs=20.6
Q ss_pred chHHHHHhhhhhhccCCCceEEEE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIlFCT 119 (125)
-++++-+.||+.++.++++|+|+.
T Consensus 48 ~~~~~r~~la~~~g~~~~~v~~~~ 71 (402)
T TIGR02006 48 AVENARNQVAELIGADSREIVFTS 71 (402)
T ss_pred HHHHHHHHHHHHhCCCCCeEEEeC
Confidence 367778999999999999999983
No 81
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=28.98 E-value=45 Score=23.64 Aligned_cols=24 Identities=8% Similarity=-0.115 Sum_probs=21.4
Q ss_pred cchHHHHHhhhhhhccCCCceEEE
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFC 118 (125)
..-.+.|+.+.+.++++++|++|+
T Consensus 101 KP~~~~~~~~~~~~~~~~~e~i~I 124 (147)
T TIGR01656 101 KPKPGLILEALKRLGVDASRSLVV 124 (147)
T ss_pred CCCHHHHHHHHHHcCCChHHEEEE
Confidence 456789999999999999999987
No 82
>cd02137 Nitroreductase_1 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=28.76 E-value=60 Score=22.77 Aligned_cols=36 Identities=28% Similarity=0.331 Sum_probs=28.7
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
+|=.+.-|.+|.. +.|.+.++++..+.+.|.+--+|
T Consensus 96 ~Glgs~~~~~~~~-----~~i~~~l~l~~~~~~~~~i~iGy 131 (148)
T cd02137 96 YGYDTCPMGGFDA-----EKVAELLNLPARYVPVMLIAIGK 131 (148)
T ss_pred cCCCcCcCcCcCH-----HHHHHHhCcCCCceeEEEEEecc
Confidence 5666667778742 77899999999999999987776
No 83
>TIGR01068 thioredoxin thioredoxin. Several proteins, such as protein disulfide isomerase, have two or more copies of a domain closely related to thioredoxin. This model is designed to recognize authentic thioredoxin, a small protein that should be hit exactly once by this model.
Probab=27.19 E-value=92 Score=19.23 Aligned_cols=33 Identities=24% Similarity=0.255 Sum_probs=25.8
Q ss_pred CCCceEEeeecccCCCceeecCccchHHHHHhhhhh
Q psy6382 72 SKPKLIFHCQLAHGSPTGLISGFSNVRELYQKIAEC 107 (125)
Q Consensus 72 ~~p~LvFh~QLAHGSptg~I~gFsnVkELY~kIAe~ 107 (125)
.-|.++|. + .|....++.|+.+.+++-+.|.+.
T Consensus 68 ~~P~~~~~-~--~g~~~~~~~g~~~~~~l~~~l~~~ 100 (101)
T TIGR01068 68 SIPTLLLF-K--NGKEVDRSVGALPKAALKQLINKN 100 (101)
T ss_pred cCCEEEEE-e--CCcEeeeecCCCCHHHHHHHHHhh
Confidence 45678887 3 588889999999989988877653
No 84
>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=27.02 E-value=23 Score=22.06 Aligned_cols=25 Identities=32% Similarity=0.525 Sum_probs=17.1
Q ss_pred ecCccchHHHHHhhhhhhccCCCce
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
++|=.++.|+-+++++.|+++++++
T Consensus 26 ~~g~~t~~ei~~~l~~~y~~~~~~~ 50 (68)
T PF05402_consen 26 LDGPRTVEEIVDALAEEYDVDPEEA 50 (68)
T ss_dssp --SSS-HHHHHHHHHHHTT--HHHH
T ss_pred ccCCCCHHHHHHHHHHHcCCCHHHH
Confidence 4555789999999999999988753
No 85
>cd02138 Nitroreductase_2 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=26.91 E-value=70 Score=23.44 Aligned_cols=36 Identities=22% Similarity=0.292 Sum_probs=29.0
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
.|=.++-|.||. ++.+.+.++++..+.+.|.+--+|
T Consensus 118 lGlgt~~~~~~~-----~~~l~~~l~l~~~~~~~~~laiG~ 153 (181)
T cd02138 118 MGLAAHQMGGFD-----ADKAREELNIPEDYEVEAAIAIGY 153 (181)
T ss_pred cCcccceecCcC-----HHHHHHHhCCCCCceEEEEEEeec
Confidence 466677788884 577999999999999999887776
No 86
>cd00489 Barstar_like Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=26.53 E-value=53 Score=22.59 Aligned_cols=21 Identities=10% Similarity=0.346 Sum_probs=17.2
Q ss_pred cCccchHHHHHhhhhhhccCC
Q psy6382 92 SGFSNVRELYQKIAECYEFPA 112 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~ 112 (125)
+..++..++|+.+|++|++|.
T Consensus 6 ~~i~~~~~f~~~~~~~l~fp~ 26 (85)
T cd00489 6 EDIADWEDFHARLKKKLGFPD 26 (85)
T ss_pred ccCCCHHHHHHHHHHHhCCcc
Confidence 456788899999999998873
No 87
>PLN02651 cysteine desulfurase
Probab=26.44 E-value=66 Score=25.70 Aligned_cols=23 Identities=17% Similarity=0.235 Sum_probs=20.5
Q ss_pred hHHHHHhhhhhhccCCCceEEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFCT 119 (125)
++++.++||+.++.++++|+|+.
T Consensus 45 ~~~~r~~la~~~g~~~~~v~~t~ 67 (364)
T PLN02651 45 VEKARAQVAALIGADPKEIIFTS 67 (364)
T ss_pred HHHHHHHHHHHhCCCCCeEEEeC
Confidence 77888999999999999999963
No 88
>cd02139 Nitroreductase_3 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=25.84 E-value=98 Score=21.94 Aligned_cols=36 Identities=28% Similarity=0.368 Sum_probs=29.2
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
+|=.+..+++|. .+++.+.++++.++.+.|.+--+|
T Consensus 111 ~Glgt~~~~~~~-----~~~~~~~l~l~~~~~~~~~i~iG~ 146 (164)
T cd02139 111 LGLGTCWIGAFD-----EDEIKEALDIPENEEVVAILPLGY 146 (164)
T ss_pred cCCceeeeeccC-----HHHHHHHhCcCCCeEEEEEEeecC
Confidence 577777788884 478999999999999999887776
No 89
>cd02149 NfsB_like_nitroreductase NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family includes FRase I in Vibrio fischeri, wihich reduces FMN into FMNH2 as part of the bioluminescent reaction. The family also includes oxygen-insensitive nitroreductases that use NADH or NADPH as an electron donor in the ping pong bi bi mechanism. This type of nitroreductase can be used in cancer chemotherapy to activate a range of prodrugs.
Probab=25.67 E-value=64 Score=22.95 Aligned_cols=36 Identities=19% Similarity=0.204 Sum_probs=27.0
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCce-EEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEV-QFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eI-lFCTLNT~~ 124 (125)
+|=.|.-|.+|. .+++.+.++++..+. +.|.+--+|
T Consensus 104 lGlgs~~i~~~~-----~~~v~~~l~l~~~~~~~~~~i~iGy 140 (157)
T cd02149 104 LGIDSCPIEGFD-----PAKLDEILGLDEKGYGSSVMVALGY 140 (157)
T ss_pred cCCCcCcccCcC-----HHHHHHHhCCCcccCceEEEEEeec
Confidence 566777788884 378999999998655 778776555
No 90
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=25.44 E-value=62 Score=21.96 Aligned_cols=24 Identities=13% Similarity=0.231 Sum_probs=20.6
Q ss_pred chHHHHHhhhhhh-ccCCCceEEEE
Q psy6382 96 NVRELYQKIAECY-EFPAEEVQFGA 119 (125)
Q Consensus 96 nVkELY~kIAe~f-~i~~~eIlFCT 119 (125)
.-.|.|+.+.+.+ +++++|++|+-
T Consensus 86 P~~~~~~~~~~~~~~~~~~~~v~IG 110 (132)
T TIGR01662 86 PKPGMFLEALKRFNEIDPEESVYVG 110 (132)
T ss_pred CChHHHHHHHHHcCCCChhheEEEc
Confidence 4568999999999 59999999863
No 91
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=25.44 E-value=26 Score=22.12 Aligned_cols=25 Identities=16% Similarity=0.315 Sum_probs=19.5
Q ss_pred ecCccchHHHHHhhhhhhccCCCce
Q psy6382 91 ISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 91 I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
.-||+|...++...-+.||++|.|+
T Consensus 54 ~~Gf~~~~~f~~~fk~~~g~tP~~~ 78 (81)
T PF12833_consen 54 ECGFSSQSHFSRAFKRYFGMTPSEY 78 (81)
T ss_dssp HTT-SSHHHHHHHHHHHHSS-HHHH
T ss_pred HcCCCCHHHHHHHHHHHHCcCHHHH
Confidence 3589999999999999999998764
No 92
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=25.26 E-value=51 Score=20.91 Aligned_cols=21 Identities=24% Similarity=0.354 Sum_probs=16.1
Q ss_pred cCccchHHHHHhhhhhhccCC
Q psy6382 92 SGFSNVRELYQKIAECYEFPA 112 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~ 112 (125)
||==...+|+++|++++|++-
T Consensus 24 EgPI~~~~L~~Ri~~a~G~~R 44 (52)
T PF11784_consen 24 EGPIHEDELARRIARAWGLSR 44 (52)
T ss_pred cCCccHHHHHHHHHHHcCccc
Confidence 333456889999999999863
No 93
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=25.22 E-value=41 Score=21.07 Aligned_cols=18 Identities=33% Similarity=0.685 Sum_probs=14.9
Q ss_pred CccchHHHHHhhhhhhcc
Q psy6382 93 GFSNVRELYQKIAECYEF 110 (125)
Q Consensus 93 gFsnVkELY~kIAe~f~i 110 (125)
||++.++|-+++.+.+.|
T Consensus 46 G~~~l~~ll~~~~~~~~i 63 (74)
T PF12872_consen 46 GFSSLSELLESLPDVVEI 63 (74)
T ss_dssp TSSSHHHHHHT-TTTEEE
T ss_pred CCCcHHHHHHhCCCeEEE
Confidence 999999999988887766
No 94
>cd02148 Nitroreductase_5 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=24.84 E-value=83 Score=23.13 Aligned_cols=37 Identities=19% Similarity=0.147 Sum_probs=28.7
Q ss_pred ccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 83 AHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 83 AHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
++|=.++-|.||.. +++.+.+++|......|.+--||
T Consensus 130 ~lGlgs~~~~g~d~-----~~~~~~L~lp~~~~~v~~iavGy 166 (185)
T cd02148 130 ALGLDAGPMSGFDA-----AAVDAEFFADTRWRSNFVVNIGY 166 (185)
T ss_pred HcCCCcCCCcccCH-----HHHHHHhCCCCCeEEEEEEEcCC
Confidence 56777888999953 67889999998877777766665
No 95
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=24.73 E-value=17 Score=21.67 Aligned_cols=15 Identities=27% Similarity=0.364 Sum_probs=11.0
Q ss_pred HHHhhhhhhccCCCc
Q psy6382 100 LYQKIAECYEFPAEE 114 (125)
Q Consensus 100 LY~kIAe~f~i~~~e 114 (125)
-|+.||+.++++++.
T Consensus 28 s~~eIa~~l~~s~~~ 42 (54)
T PF08281_consen 28 SYAEIAEILGISEST 42 (54)
T ss_dssp -HHHHHHHCTS-HHH
T ss_pred CHHHHHHHHCcCHHH
Confidence 688999999998754
No 96
>PF07736 CM_1: Chorismate mutase type I; InterPro: IPR008243 Chorismate mutase (CM; 5.4.99.5 from EC) catalyses the reaction at the branch point of the biosynthetic pathway leading to the three aromatic amino acids, phenylalanine, tryptophan and tyrosine (chorismic acid is the last common intermediate, and CM leads to the L-phenylalanine/L-tyrosine branch). It is part of the shikimate pathway, which is present only in bacteria, fungi and plants. This entry represents a family of monofunctional (non-fused) chorismate mutases from Gram-positive bacteria (Firmicutes) and cyanobacteria. Trusted members of the family are found in operons with other enzymes of the chorismate pathways, both up- and downstream of CM (Listeria, Bacillus, Oceanobacillus) or are the sole CM in the genome where the other members of the chorismate pathways are found elsewhere in the genome (Nostoc, Thermosynechococcus). They are monofunctional, homotrimeric, nonallosteric enzymes and are not regulated by the end-product aromatic amino acids. The three types of CM are AroQ class, Prokaryotic type (e.g., IPR008239 from INTERPRO amongst others); AroQ class, Eukaryotic type (IPR008238 from INTERPRO); and AroH class. They fall into two structural folds (AroQ class and AroH class) which are completely unrelated []. The two types of the AroQ structural class (the Escherichia coli CM dimer and the yeast CM monomer) can be structurally superimposed, and the topology of the four-helix bundle forming the active site is conserved []. For additional information please see [, , , , , , ].; PDB: 2CHS_K 2CHT_L 1COM_J 1FNJ_A 1FNK_A 1DBF_C 1UI9_A 1ODE_A 1UFY_A 1XHO_C ....
Probab=24.67 E-value=74 Score=24.13 Aligned_cols=26 Identities=27% Similarity=0.335 Sum_probs=20.9
Q ss_pred cchHHHHHhhhhhhccCCCceEEEEc
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFGAL 120 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFCTL 120 (125)
..++||++.|-+.=+|.++||....+
T Consensus 20 ~at~eLl~~i~~~N~l~~~dIvSi~F 45 (118)
T PF07736_consen 20 EATRELLEEILERNELSPEDIVSIIF 45 (118)
T ss_dssp HHHHHHHHHHHHHTT--GGGEEEEEE
T ss_pred HHHHHHHHHHHHHcCCCHHHEEEEEE
Confidence 46899999999999999999987665
No 97
>cd02150 NADPH_oxidoreductase_1 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=23.94 E-value=95 Score=22.20 Aligned_cols=40 Identities=15% Similarity=0.183 Sum_probs=30.0
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
.|=.+.-+.||.+- +...+|.+.++++..+.+.|.+-=+|
T Consensus 106 ~Glgt~~~~~~~~~-~~~~~~~~~l~l~~~~~~~~~l~iG~ 145 (166)
T cd02150 106 LGLGAVWLGVYPFE-ERVEKVRELLGLPENVEPMAVIPIGY 145 (166)
T ss_pred cCCceEEEeccccc-chHHHHHHHhCCCCCcEEEEEEEEEc
Confidence 57777888888653 45678999999999888877664443
No 98
>TIGR03192 benz_CoA_bzdQ benzoyl-CoA reductase, bzd-type, Q subunit. Members of this family are the Q subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=23.94 E-value=1.1e+02 Score=26.12 Aligned_cols=44 Identities=14% Similarity=0.169 Sum_probs=34.0
Q ss_pred ceEEeeecccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 75 KLIFHCQLAHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 75 ~LvFh~QLAHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
+++.+-.+-||.+... +++++++++-+.+++..++|-++.. |+|
T Consensus 53 ~i~~~~~~~tg~~~~~-----~a~~~l~~~l~~~g~~~~~v~~~~~-TGy 96 (293)
T TIGR03192 53 ELYGYNSMRTGNNSPD-----SAKNALQGIMDKIGMKLEDINYVVG-TGY 96 (293)
T ss_pred EEEEEEeecCCCCHHH-----HHHHHHHHHHHHcCCcccceEEEEE-ECc
Confidence 4666666666654433 6899999999999998889998865 887
No 99
>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=23.86 E-value=97 Score=19.68 Aligned_cols=27 Identities=22% Similarity=0.276 Sum_probs=20.9
Q ss_pred cCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 92 SGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
..=.+..+|+++|++.|+++..++.+.
T Consensus 19 ~~~~s~~~L~~~i~~~~~~~~~~~~l~ 45 (84)
T PF00564_consen 19 PSDVSFDDLRSKIREKFGLLDEDFQLK 45 (84)
T ss_dssp CSTSHHHHHHHHHHHHHTTSTSSEEEE
T ss_pred CCCCCHHHHHHHHHHHhCCCCccEEEE
Confidence 333578999999999999986666554
No 100
>PRK14012 cysteine desulfurase; Provisional
Probab=23.50 E-value=76 Score=25.82 Aligned_cols=24 Identities=21% Similarity=0.214 Sum_probs=20.7
Q ss_pred chHHHHHhhhhhhccCCCceEEEE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIlFCT 119 (125)
-++++-+.||+.++.++++|+||.
T Consensus 50 ~~~~~r~~ia~~~g~~~~~v~~~~ 73 (404)
T PRK14012 50 AVDIARNQIADLIGADPREIVFTS 73 (404)
T ss_pred HHHHHHHHHHHHcCcCcCeEEEeC
Confidence 467788999999999999999983
No 101
>PRK05849 hypothetical protein; Provisional
Probab=23.35 E-value=40 Score=32.12 Aligned_cols=32 Identities=16% Similarity=0.265 Sum_probs=27.9
Q ss_pred eecCccchHHHHHhhhhhhccCCCceEEEEcc
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEVQFGALL 121 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLN 121 (125)
....|+-+++++..+++.++++++||.|||+.
T Consensus 595 ~tr~l~~~r~~l~~lG~~Lg~~~dDvf~L~~~ 626 (783)
T PRK05849 595 FTRNLSDALELIALLGAYYGISREDLSHLDIK 626 (783)
T ss_pred HHHHHHHHHHHHHHHHHHhCCChhheeeecHH
Confidence 35568889999999999999999999999974
No 102
>PF13844 Glyco_transf_41: Glycosyl transferase family 41; PDB: 3PE4_C 3PE3_D 3TAX_C 2XGO_A 2JLB_B 2XGM_A 2VSY_B 2XGS_B 2VSN_A.
Probab=23.09 E-value=54 Score=29.55 Aligned_cols=19 Identities=26% Similarity=0.623 Sum_probs=13.3
Q ss_pred hhhccCCCceEEEEccCCC
Q psy6382 106 ECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 106 e~f~i~~~eIlFCTLNT~~ 124 (125)
..|+||.+.|.||.+|.-|
T Consensus 277 ~~~gLp~d~vvF~~fn~~~ 295 (468)
T PF13844_consen 277 AQYGLPEDAVVFGSFNNLF 295 (468)
T ss_dssp GGGT--SSSEEEEE-S-GG
T ss_pred HHcCCCCCceEEEecCccc
Confidence 6899999999999999754
No 103
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=22.84 E-value=76 Score=23.09 Aligned_cols=22 Identities=9% Similarity=0.066 Sum_probs=19.3
Q ss_pred hHHHHHhhhhhhccCCCceEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFC 118 (125)
-.+.|+.+++.+++++++++|.
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~~i 173 (221)
T TIGR02253 152 HPKIFYAALKRLGVKPEEAVMV 173 (221)
T ss_pred CHHHHHHHHHHcCCChhhEEEE
Confidence 4579999999999999998875
No 104
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=22.79 E-value=86 Score=22.42 Aligned_cols=23 Identities=17% Similarity=0.096 Sum_probs=20.0
Q ss_pred chHHHHHhhhhhhccCCCceEEE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIlFC 118 (125)
--.+.|+.+.+.+++.|+|++|.
T Consensus 142 P~p~~~~~~~~~~~~~~~~~l~v 164 (184)
T TIGR01993 142 PSPQAYEKALREAGVDPERAIFF 164 (184)
T ss_pred CCHHHHHHHHHHhCCCccceEEE
Confidence 35689999999999999998875
No 105
>PRK01533 histidinol-phosphate aminotransferase; Validated
Probab=22.51 E-value=65 Score=26.30 Aligned_cols=23 Identities=30% Similarity=0.328 Sum_probs=20.3
Q ss_pred hHHHHHhhhhhhccCCCceEEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFCT 119 (125)
..+|.+.||+-+++++++|+++.
T Consensus 66 ~~~Lr~aia~~~~~~~~~I~vt~ 88 (366)
T PRK01533 66 ATTLRQTIANKLHVKMEQVLCGS 88 (366)
T ss_pred HHHHHHHHHHHhCCCcceEEECC
Confidence 47899999999999999999863
No 106
>PRK05387 histidinol-phosphate aminotransferase; Provisional
Probab=22.48 E-value=53 Score=25.70 Aligned_cols=21 Identities=38% Similarity=0.501 Sum_probs=19.1
Q ss_pred HHHHHhhhhhhccCCCceEEE
Q psy6382 98 RELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 98 kELY~kIAe~f~i~~~eIlFC 118 (125)
.+|.+.||+-+++++++|++.
T Consensus 63 ~~lr~aia~~~~~~~~~I~it 83 (353)
T PRK05387 63 DALRQAIAAYYGLDPEQVFVG 83 (353)
T ss_pred HHHHHHHHHHhCCCHHHEEEc
Confidence 689999999999999999864
No 107
>PF14109 GldH_lipo: GldH lipoprotein
Probab=22.33 E-value=22 Score=26.09 Aligned_cols=25 Identities=28% Similarity=0.494 Sum_probs=18.4
Q ss_pred CceEEeeeccc--CCCceeecCccchHHH
Q psy6382 74 PKLIFHCQLAH--GSPTGLISGFSNVREL 100 (125)
Q Consensus 74 p~LvFh~QLAH--GSptg~I~gFsnVkEL 100 (125)
-+=..+|+||. |.+.| +||++++|.
T Consensus 66 ~~dtl~~~Lad~~G~w~G--~G~~~~~e~ 92 (131)
T PF14109_consen 66 VTDTLECELADPDGKWLG--KGIGDLYEY 92 (131)
T ss_pred EeeeEEEEEECCCCcEee--eeEeEeEEE
Confidence 34578999999 66666 788876653
No 108
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=22.25 E-value=77 Score=19.84 Aligned_cols=19 Identities=21% Similarity=0.394 Sum_probs=14.8
Q ss_pred hHHHHHhhhhhhccCCCce
Q psy6382 97 VRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eI 115 (125)
++++++.++++|++|++.|
T Consensus 21 ~~~it~a~~~~~~~p~~~v 39 (60)
T PRK02289 21 AREVTEVVSRIAKAPKEAI 39 (60)
T ss_pred HHHHHHHHHHHhCcCcceE
Confidence 3567788889999987765
No 109
>COG3384 Aromatic ring-opening dioxygenase, catalytic LigB subunit related enzyme [Amino acid transport and metabolism]
Probab=22.22 E-value=80 Score=26.99 Aligned_cols=36 Identities=19% Similarity=0.285 Sum_probs=25.9
Q ss_pred eecccCCCceeecCccchHHHHHhhh-hhhccCCCceE
Q psy6382 80 CQLAHGSPTGLISGFSNVRELYQKIA-ECYEFPAEEVQ 116 (125)
Q Consensus 80 ~QLAHGSptg~I~gFsnVkELY~kIA-e~f~i~~~eIl 116 (125)
-=|+||||+=.++. +...+..+.|+ +|-++-|+-|+
T Consensus 12 LflshgsP~~~~~~-n~~~~~l~~lG~~~~e~rp~tIi 48 (268)
T COG3384 12 LFLSHGSPMLALED-NAATRGLRELGRELPELRPDTII 48 (268)
T ss_pred eeecCCCcccccCc-cHHHHHHHHHHHhhhhcCCCEEE
Confidence 34899999988887 66777777887 34445566665
No 110
>KOG1175|consensus
Probab=22.22 E-value=59 Score=30.48 Aligned_cols=40 Identities=20% Similarity=0.228 Sum_probs=31.6
Q ss_pred CCceEEeeecccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 73 KPKLIFHCQLAHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 73 ~p~LvFh~QLAHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
.|+.+-|+| +|.+.+.+..+ ...|++.++||++|+-+.++
T Consensus 253 ~PK~v~ht~--~g~ll~~~~~~----------~~~~d~q~~dv~~~~~d~GW 292 (626)
T KOG1175|consen 253 KPKGVIHTT--GGYLLGAALTS----------RYHFDLQPSDVLWCASDLGW 292 (626)
T ss_pred CCCceeecc--CcchHHHhhhc----------ceeccCCCcceEEEecccCe
Confidence 788888888 47776654443 57899999999999988764
No 111
>TIGR02512 Fe_only_hydrog hydrogenases, Fe-only. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than Pfam model pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.
Probab=22.18 E-value=33 Score=28.83 Aligned_cols=31 Identities=19% Similarity=0.289 Sum_probs=24.4
Q ss_pred eeecCccchHHHHHhhhh-hhccCCCceEEEE
Q psy6382 89 GLISGFSNVRELYQKIAE-CYEFPAEEVQFGA 119 (125)
Q Consensus 89 g~I~gFsnVkELY~kIAe-~f~i~~~eIlFCT 119 (125)
..++||.|++++.++|.. -....--|||.|-
T Consensus 331 ~~~~G~~~~~~~l~~~~~g~~~~~fiE~maC~ 362 (374)
T TIGR02512 331 AVAHGLGNARKLLDDVKAGEADYHFIEVMACP 362 (374)
T ss_pred EEEeCHHHHHHHHHHHHcCCCCccEEEECCCC
Confidence 458999999999999963 2355677899984
No 112
>cd09216 GH64-LPHase-like glycoside hydrolase family 64: laminaripentaose-producing, beta-1,3-glucanase (LPHase)-like. This subfamily is represented by the laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis and related bacterial and ascomycete proteins. LPHase is a member of glycoside hydrolase family 64 (GH64), it is an inverting enzyme involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. LPHase is a two-domain crescent fold structure: one domain is composed of 10 beta-strands, eight coming from the N-terminus of the protein and two from the C-terminal region, and the protein has a second inserted domain; this cd includes both domains. This protein has an electronegative, substrate-binding cleft, and conserved Glu and Asp residues involved in the cleavage of the beta-1,3-glucan, laminarin, a plant and fungal cell wall component. Among bacteria, many beta-1,3-glucanases are implicated in fungal cel
Probab=22.05 E-value=34 Score=29.96 Aligned_cols=41 Identities=22% Similarity=0.294 Sum_probs=30.2
Q ss_pred CCCceEEeeecccCCCceeecC----ccchHHHHHhhhhhhcc-CCCceEEE
Q psy6382 72 SKPKLIFHCQLAHGSPTGLISG----FSNVRELYQKIAECYEF-PAEEVQFG 118 (125)
Q Consensus 72 ~~p~LvFh~QLAHGSptg~I~g----FsnVkELY~kIAe~f~i-~~~eIlFC 118 (125)
....|+|++|-..|--+|||+| |+.- -++.|.= +..||++|
T Consensus 216 ~~~~L~v~tq~~~g~~~GrV~g~~l~f~~~------~~~~f~kPst~dIf~C 261 (353)
T cd09216 216 RTTDLTVTTFSDGGTFTGRVSGDWLRFTGG------NVAAFAKPSTRDVLFC 261 (353)
T ss_pred cCCceEEecCCCcceEEEEEeCCeeEEeCC------CcceeCCCChHHHhcc
Confidence 4567999999889999999988 4321 1344543 67899999
No 113
>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=22.00 E-value=68 Score=21.39 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=21.6
Q ss_pred eecCccchHHHHHhhhhhhccCCCce
Q psy6382 90 LISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 90 ~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
.|+.-.+|.+|-++|.+.++||+++.
T Consensus 18 ~v~~~~TV~~lK~kI~~~~gip~~~Q 43 (75)
T cd01799 18 TVRPDMTVAQLKDKVFLDYGFPPAVQ 43 (75)
T ss_pred EECCCCcHHHHHHHHHHHHCcCHHHE
Confidence 45566789999999999999998753
No 114
>cd02146 NfsA_FRP This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as an electron donor. Oxygen-insensitive nitroreductase, such as NfsA protein in Escherichia coli, catalyzes reduction of nitrocompounds using NADPH as electron donor.
Probab=21.96 E-value=1.1e+02 Score=23.38 Aligned_cols=38 Identities=21% Similarity=0.201 Sum_probs=29.6
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
.|=.|+-|.||.+- ..++.+.++||....+.|.|--+|
T Consensus 124 lGLgtc~ig~~~~~---~~~v~~~L~lp~~~~~~~~ialGy 161 (229)
T cd02146 124 LGLGIVYIGGIRND---PEAVIELLNLPEYVFPVFGLAVGY 161 (229)
T ss_pred cCCCEEEEcccccC---HHHHHHHhCCCCCceEEEEEEeec
Confidence 46677888898642 367899999999888888887766
No 115
>PF00881 Nitroreductase: Nitroreductase family; InterPro: IPR000415 This entry represents a family of proteins consisting of nitroreductase enzymes and related oxidoreductases. Members of this family utilise FMN as a cofactor and are often found to be homodimers. Possible characteristics include Oxygen-insensitive NAD(P)H nitroreductase (FMN-dependent nitroreductase) (Dihydropteridine reductase) (1.6.99.7 from EC) and NADH dehydrogenase (1.6.99.3 from EC). A number of the proteins are described as oxidoreductases. They are primarily found in bacterial lineages though a number of eukaryotic homologs have been identified: Caenorhabditis elegans P34273 from SWISSPROT, Drosophila melanogaster (Fruit fly) Q8T3Q0 from SWISSPROT Q9VTE7 from SWISSPROT, Mus musculus (Mouse) Q9DCX8 from SWISSPROT and Homo sapiens (Human) O75989 from SWISSPROT. This protein is not found in photosynthetic eukaryotes. The sequences containing this entry in photosynthetic organisms are possible false positives. ; GO: 0016491 oxidoreductase activity; PDB: 1BKJ_A 2BKJ_B 3OF4_C 3E39_B 3GBH_B 2R01_A 1YWQ_A 2WZW_B 2WZV_B 2ISL_H ....
Probab=21.93 E-value=27 Score=23.63 Aligned_cols=38 Identities=24% Similarity=0.420 Sum_probs=28.3
Q ss_pred ccCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 83 AHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 83 AHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
|+|=.+.-+.+|...++ +.+.|++|.++-+.|.+--+|
T Consensus 128 a~Gl~~~~~~~~~~~~~----~~~~lgl~~~~~~~~~i~vGy 165 (165)
T PF00881_consen 128 ALGLGSCPMGGFDDDKE----LKELLGLPDNEEPLALIAVGY 165 (165)
T ss_dssp HTTEEEEEEGGSGHHHH----HHHHHTHHTTEEEEEEEEEEE
T ss_pred hcCceEEEecCcchHHH----HHHHhCcCCCCEEEEEEEecC
Confidence 34556777889977666 899999998777777775554
No 116
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=21.93 E-value=64 Score=16.91 Aligned_cols=17 Identities=24% Similarity=0.325 Sum_probs=12.7
Q ss_pred HHHHHhhhhhhccCCCc
Q psy6382 98 RELYQKIAECYEFPAEE 114 (125)
Q Consensus 98 kELY~kIAe~f~i~~~e 114 (125)
.+...+|++.|++++++
T Consensus 39 ~~~~~~i~~~~~~~~~~ 55 (56)
T smart00530 39 LETLKKLAKALGVSLDE 55 (56)
T ss_pred HHHHHHHHHHhCCChhh
Confidence 34457889999998765
No 117
>PRK10874 cysteine sulfinate desulfinase; Provisional
Probab=21.91 E-value=88 Score=25.21 Aligned_cols=24 Identities=8% Similarity=0.160 Sum_probs=20.4
Q ss_pred chHHHHHhhhhhhcc-CCCceEEEE
Q psy6382 96 NVRELYQKIAECYEF-PAEEVQFGA 119 (125)
Q Consensus 96 nVkELY~kIAe~f~i-~~~eIlFCT 119 (125)
-++++-++||+.++. ++++|+|+.
T Consensus 64 ~~~~~r~~la~~~g~~~~~~i~~~~ 88 (401)
T PRK10874 64 RYEAAREQVAQLLNAPDAKNIVWTR 88 (401)
T ss_pred HHHHHHHHHHHHcCCCCCCEEEEEC
Confidence 467888899999999 899999874
No 118
>PRK01688 histidinol-phosphate aminotransferase; Provisional
Probab=21.89 E-value=57 Score=26.15 Aligned_cols=21 Identities=14% Similarity=0.191 Sum_probs=19.0
Q ss_pred HHHHHhhhhhhccCCCceEEE
Q psy6382 98 RELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 98 kELY~kIAe~f~i~~~eIlFC 118 (125)
.+|.++||+.+++++++|++.
T Consensus 60 ~~l~~~~a~~~g~~~~~I~~~ 80 (351)
T PRK01688 60 KAVIENYAAYAGVKPEQVLVS 80 (351)
T ss_pred HHHHHHHHHHhCCCHHHEEEc
Confidence 689999999999999999864
No 119
>cd02152 OAT Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in the arginine biosynthetic pathway. Members of this family may experience feedback inhibition by L-arginine. The active enzyme is a heterotetramer of two alpha and two beta chains, where the alpha and beta chains are the result of autocatalytic cleavage. OATs found in the clavulanic acid biosynthesis gene cluster catalyze the fifth step only, and may utilize acetyl acceptors other than glutamate.
Probab=21.87 E-value=53 Score=29.14 Aligned_cols=28 Identities=32% Similarity=0.547 Sum_probs=25.9
Q ss_pred cCccchHHHHHhhhhhhccCCCceEEEE
Q psy6382 92 SGFSNVRELYQKIAECYEFPAEEVQFGA 119 (125)
Q Consensus 92 ~gFsnVkELY~kIAe~f~i~~~eIlFCT 119 (125)
.|+.+.++.-+..|+.+++++++||.|-
T Consensus 75 ~G~~da~~~~~~~A~~l~i~~~~VlvaS 102 (390)
T cd02152 75 QGLEDAREMAELVAELLGIPEEEVLVAS 102 (390)
T ss_pred HHHHHHHHHHHHHHHHhCCCcccEEEeC
Confidence 6888999999999999999999999883
No 120
>TIGR02252 DREG-2 REG-2-like, HAD superfamily (subfamily IA) hydrolase. Most likely, these sequences, like the vast majority of HAD sequences, represent phosphatase enzymes.
Probab=21.63 E-value=71 Score=23.06 Aligned_cols=22 Identities=18% Similarity=0.129 Sum_probs=19.4
Q ss_pred hHHHHHhhhhhhccCCCceEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFC 118 (125)
-.++|..+++.++++|++++|.
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~I 183 (203)
T TIGR02252 162 DPKIFQEALERAGISPEEALHI 183 (203)
T ss_pred CHHHHHHHHHHcCCChhHEEEE
Confidence 4589999999999999999875
No 121
>PF11000 DUF2840: Protein of unknown function (DUF2840); InterPro: IPR021263 This bacterial family of proteins have no known function.
Probab=21.48 E-value=55 Score=25.97 Aligned_cols=26 Identities=27% Similarity=0.455 Sum_probs=23.2
Q ss_pred eecCccchHHHHHhhh--hhhccCCCce
Q psy6382 90 LISGFSNVRELYQKIA--ECYEFPAEEV 115 (125)
Q Consensus 90 ~I~gFsnVkELY~kIA--e~f~i~~~eI 115 (125)
+++|+..|+...+.|- |+.||+|.|+
T Consensus 87 r~~Gw~kV~~VL~~IDaiEalGidp~dv 114 (149)
T PF11000_consen 87 RIEGWPKVERVLQAIDAIEALGIDPADV 114 (149)
T ss_pred cccCcHHHHHHHHHHhHHHHcCCChhhc
Confidence 5789999999999997 8999998875
No 122
>cd02145 BluB Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)H as electron donor and often use FMN as a cofactor.
Probab=21.41 E-value=1.2e+02 Score=22.38 Aligned_cols=36 Identities=19% Similarity=0.235 Sum_probs=28.8
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
.|=.++-+.+|. .+++.+.++||..+.+.|.+--+|
T Consensus 135 ~Glgt~~~~~~~-----~~~v~~~l~lp~~~~~~~~l~lGy 170 (196)
T cd02145 135 EGLGVGWVSILD-----PEALARLLGIPEDWEPVAYLCLGY 170 (196)
T ss_pred cCCceEEecccC-----hHHHHHHcCcCCCcEEEEEEEEec
Confidence 455677788884 478889999999999999887766
No 123
>PRK09105 putative aminotransferase; Provisional
Probab=21.38 E-value=73 Score=25.98 Aligned_cols=21 Identities=24% Similarity=0.213 Sum_probs=19.4
Q ss_pred hHHHHHhhhhhhccCCCceEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQF 117 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlF 117 (125)
..||.+.||+.+++++++|++
T Consensus 80 ~~~Lr~aia~~~~v~~e~I~i 100 (370)
T PRK09105 80 EDDLRTLFAAQEGLPADHVMA 100 (370)
T ss_pred HHHHHHHHHHHhCcChhhEEE
Confidence 778999999999999999986
No 124
>cd02062 Nitro_FMN_reductase Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are described as NAD(P)H:FMN oxidoreductases, oxygen-insensitive nitroreductase, flavin reductase P, dihydropteridine reductase, NADH oxidase or NADH dehydrogenase.
Probab=21.30 E-value=1.2e+02 Score=19.86 Aligned_cols=38 Identities=16% Similarity=0.244 Sum_probs=27.5
Q ss_pred cCCCceeecCccchHHHHHhhhhhhccCCCceEEEEccCCC
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFGALLENY 124 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFCTLNT~~ 124 (125)
+|=.+.-+.+|.. ..+++++.+++|.++.+.|.+-=+|
T Consensus 85 ~Glg~~~~~~~~~---~~~~~~~~l~l~~~~~~~~~l~~G~ 122 (122)
T cd02062 85 LGLGSCWIGGLDL---VEEELRELLGIPEGYEILAVIAVGY 122 (122)
T ss_pred cCCCchhcCCccc---chHHHHHHhCcCCCcEEEEEEEeeC
Confidence 5666666777754 2467788899999888888875443
No 125
>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=21.26 E-value=1.1e+02 Score=19.40 Aligned_cols=21 Identities=14% Similarity=0.343 Sum_probs=16.8
Q ss_pred chHHHHHhhhhhhccCCCceE
Q psy6382 96 NVRELYQKIAECYEFPAEEVQ 116 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eIl 116 (125)
+-.+|+++|++.|+++...+.
T Consensus 22 s~~dL~~~i~~~~~~~~~~~~ 42 (81)
T smart00666 22 SFEDLRSKVAKRFGLDNQSFT 42 (81)
T ss_pred CHHHHHHHHHHHhCCCCCCeE
Confidence 579999999999998754443
No 126
>cd06452 SepCysS Sep-tRNA:Cys-tRNA synthase. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Cys-tRNA(Cys) is produced by O-phosphoseryl-tRNA synthetase which ligates O-phosphoserine (Sep) to tRNA(Cys), and Sep-tRNA:Cys-tRNA synthase (SepCysS) converts Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea. SepCysS forms a dimer, each monomer is composed of a large and small domain; the larger, a typical pyridoxal 5'-phosphate (PLP)-dependent-like enzyme fold. In the active site of each monomer, PLP is covalently bound to a conserved Lys residue near the dimer interface.
Probab=21.20 E-value=1.1e+02 Score=24.25 Aligned_cols=36 Identities=11% Similarity=0.129 Sum_probs=25.7
Q ss_pred CCceEEeeecccCCCceeecCccchHHHHHhhhhhhccCCCceEEE
Q psy6382 73 KPKLIFHCQLAHGSPTGLISGFSNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 73 ~p~LvFh~QLAHGSptg~I~gFsnVkELY~kIAe~f~i~~~eIlFC 118 (125)
.|++..|.+-.+++| .++||-+++|+.+++ ++|+++
T Consensus 30 ~~~~~~~~~~~~~~~--------~~~~l~~~la~~~g~--~~i~~~ 65 (361)
T cd06452 30 VCDFCRGRLDEIEKP--------PIKDFHHDLAEFLGM--DEARVT 65 (361)
T ss_pred CccccccccccccCc--------hHHHHHHHHHHHcCC--ceEEEe
Confidence 445555655555555 589999999999998 778764
No 127
>cd03370 NADH_oxidase NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=20.94 E-value=1.2e+02 Score=21.57 Aligned_cols=35 Identities=23% Similarity=0.425 Sum_probs=26.9
Q ss_pred CCCceeecCccchHHHHHhhhhhhccCC-CceEEEEccCCC
Q psy6382 85 GSPTGLISGFSNVRELYQKIAECYEFPA-EEVQFGALLENY 124 (125)
Q Consensus 85 GSptg~I~gFsnVkELY~kIAe~f~i~~-~eIlFCTLNT~~ 124 (125)
|=.++-|.||. ..++.+.++++. .+.+.|.+--+|
T Consensus 106 Glgs~~i~~~~-----~~~v~~~l~l~~~~~~~~~~i~iG~ 141 (156)
T cd03370 106 GLATSPMTGFD-----EEKVKEALGLPGRDRAIAVVVAVGY 141 (156)
T ss_pred CCCcccCcCcC-----HHHHHHHhCcCCcCceEEEEEEeec
Confidence 55666678885 467889999998 788888876665
No 128
>COG2169 Ada Adenosine deaminase [Nucleotide transport and metabolism]
Probab=20.90 E-value=46 Score=26.92 Aligned_cols=35 Identities=17% Similarity=0.325 Sum_probs=29.6
Q ss_pred eecccCCCceee---cCccchHHHHHhhhhhhccCCCc
Q psy6382 80 CQLAHGSPTGLI---SGFSNVRELYQKIAECYEFPAEE 114 (125)
Q Consensus 80 ~QLAHGSptg~I---~gFsnVkELY~kIAe~f~i~~~e 114 (125)
.||.||.+.+.+ .||.|.+-.|....+.++.+|.+
T Consensus 140 ~~L~~g~sv~~a~~daGf~s~s~F~~af~~~~G~~P~~ 177 (187)
T COG2169 140 KQLRMGASVTDAQIDAGFESSSRFYDAFSKILGMTPTK 177 (187)
T ss_pred HHHhCCCchhHHHHHhCCCChHHHHHHHHHHcCCChHH
Confidence 588899866544 69999999999999999998864
No 129
>PF13560 HTH_31: Helix-turn-helix domain; PDB: 3F51_C 3F52_A 3PXP_A 2OFY_A.
Probab=20.62 E-value=30 Score=21.46 Aligned_cols=17 Identities=24% Similarity=0.501 Sum_probs=12.2
Q ss_pred HHHHHhhhhhhccCCCc
Q psy6382 98 RELYQKIAECYEFPAEE 114 (125)
Q Consensus 98 kELY~kIAe~f~i~~~e 114 (125)
.+.+.+|+++|++++++
T Consensus 44 ~~~l~~l~~~l~~~~~~ 60 (64)
T PF13560_consen 44 PDTLQRLARALGVPPDE 60 (64)
T ss_dssp HHHHHHHHHHTT--HHH
T ss_pred HHHHHHHHHHHCcCHHH
Confidence 45789999999998765
No 130
>COG4031 Predicted metal-binding protein [General function prediction only]
Probab=20.46 E-value=91 Score=26.26 Aligned_cols=26 Identities=35% Similarity=0.824 Sum_probs=19.2
Q ss_pred cCCCceeecCccchHHHHHhhhhh-hccCCCce
Q psy6382 84 HGSPTGLISGFSNVRELYQKIAEC-YEFPAEEV 115 (125)
Q Consensus 84 HGSptg~I~gFsnVkELY~kIAe~-f~i~~~eI 115 (125)
.|-++| ++|+||..|||- +.--|..|
T Consensus 51 ~gDedg------~lRNl~erlae~i~s~rpe~~ 77 (227)
T COG4031 51 RGDEDG------SLRNLYERLAERIYSYRPESI 77 (227)
T ss_pred cCCCcc------hHHHHHHHHHHHHHhcCccce
Confidence 499998 778899999954 44555555
No 131
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=20.46 E-value=73 Score=21.98 Aligned_cols=20 Identities=25% Similarity=0.464 Sum_probs=14.8
Q ss_pred chHHHHHhhhhhhccCCCce
Q psy6382 96 NVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 96 nVkELY~kIAe~f~i~~~eI 115 (125)
.-+++..+||+.++|+.+++
T Consensus 116 ~E~~~l~~ia~~L~i~~~~~ 135 (140)
T PF05099_consen 116 EEQEFLRRIAEALGISEEDF 135 (140)
T ss_dssp CHHHHHHHHHHHCTS-SS--
T ss_pred HHHHHHHHHHHHcCCCHHHH
Confidence 45778999999999999875
No 132
>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=20.45 E-value=1.3e+02 Score=20.45 Aligned_cols=38 Identities=21% Similarity=0.147 Sum_probs=25.0
Q ss_pred EeeecccCCCceeecCccchHHHHHhhhhhhccCCCce
Q psy6382 78 FHCQLAHGSPTGLISGFSNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 78 Fh~QLAHGSptg~I~gFsnVkELY~kIAe~f~i~~~eI 115 (125)
+||+.....+..-|-==.++.||-+-.++-|++++..|
T Consensus 9 ~~~~~~~~~~GKvi~lP~SleeLl~ia~~kfg~~~~~v 46 (69)
T PF11834_consen 9 NHPPEKGRRAGKVIWLPDSLEELLKIASEKFGFSATKV 46 (69)
T ss_pred CCCCcccCcCCEEEEcCccHHHHHHHHHHHhCCCceEE
Confidence 34655533333333333689999999999999986655
No 133
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=20.44 E-value=1.2e+02 Score=21.36 Aligned_cols=24 Identities=29% Similarity=0.422 Sum_probs=19.8
Q ss_pred cchHHHHHhhhhhhccCCCceEEE
Q psy6382 95 SNVRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eIlFC 118 (125)
+|.+||-.|..+.|.++..++-.|
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lv 44 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLV 44 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEE
Confidence 588999999999999976666554
No 134
>PRK14809 histidinol-phosphate aminotransferase; Provisional
Probab=20.15 E-value=83 Score=24.99 Aligned_cols=22 Identities=18% Similarity=0.356 Sum_probs=19.8
Q ss_pred hHHHHHhhhhhhccCCCceEEE
Q psy6382 97 VRELYQKIAECYEFPAEEVQFG 118 (125)
Q Consensus 97 VkELY~kIAe~f~i~~~eIlFC 118 (125)
..+|.+.||+-+++++++|+.+
T Consensus 67 ~~~lr~~ia~~~~~~~~~I~it 88 (357)
T PRK14809 67 HADLTAALADRWDVSPEQVWLA 88 (357)
T ss_pred HHHHHHHHHHHhCCCcceEEEC
Confidence 5789999999999999999865
No 135
>PF12085 DUF3562: Protein of unknown function (DUF3562); InterPro: IPR021945 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 62 to 84 amino acids in length. This protein has two completely conserved residues (A and Y) that may be functionally important.
Probab=20.15 E-value=42 Score=23.32 Aligned_cols=21 Identities=48% Similarity=0.520 Sum_probs=18.6
Q ss_pred cchHHHHHhhhhhhccCCCce
Q psy6382 95 SNVRELYQKIAECYEFPAEEV 115 (125)
Q Consensus 95 snVkELY~kIAe~f~i~~~eI 115 (125)
.|+.|+-++||+..++|.+++
T Consensus 4 ~~~~e~i~~iA~~t~~P~e~V 24 (66)
T PF12085_consen 4 DNVDEVIRSIAEETGTPAETV 24 (66)
T ss_pred ccHHHHHHHHHHHHCCCHHHH
Confidence 588999999999999998765
No 136
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=20.04 E-value=92 Score=21.64 Aligned_cols=21 Identities=14% Similarity=0.180 Sum_probs=15.8
Q ss_pred HHHHHhhh----hhhccCCCceEEE
Q psy6382 98 RELYQKIA----ECYEFPAEEVQFG 118 (125)
Q Consensus 98 kELY~kIA----e~f~i~~~eIlFC 118 (125)
+++|+.|+ +..+|++++|.-.
T Consensus 75 ~~l~~~i~~~l~~~lgi~~~rv~I~ 99 (116)
T PTZ00397 75 SSIAAAITKILASHLKVKSERVYIE 99 (116)
T ss_pred HHHHHHHHHHHHHHhCcCcccEEEE
Confidence 46666666 7789999998754
Done!