Query 028484
Match_columns 208
No_of_seqs 245 out of 1043
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 12:14:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028484.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028484hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3206 Alpha-tubulin folding 100.0 2E-66 4.3E-71 431.9 16.8 203 1-208 23-234 (234)
2 PF01302 CAP_GLY: CAP-Gly doma 99.9 2.6E-27 5.6E-32 168.3 7.7 68 126-193 1-69 (69)
3 KOG0971 Microtubule-associated 99.8 1.2E-20 2.7E-25 182.9 6.5 74 120-194 2-75 (1243)
4 COG5244 NIP100 Dynactin comple 99.8 8.7E-20 1.9E-24 167.9 6.6 68 123-193 3-70 (669)
5 PF14560 Ubiquitin_2: Ubiquiti 99.8 3.9E-19 8.3E-24 130.8 4.9 63 1-63 24-87 (87)
6 cd01789 Alp11_N Ubiquitin-like 99.8 1.5E-18 3.2E-23 127.4 6.1 62 1-62 23-84 (84)
7 KOG3207 Beta-tubulin folding c 99.7 1.5E-16 3.3E-21 146.3 7.1 70 123-195 2-73 (505)
8 KOG4568 Cytoskeleton-associate 99.6 2.1E-16 4.5E-21 152.6 4.7 74 119-194 13-86 (664)
9 KOG4568 Cytoskeleton-associate 99.2 3.8E-12 8.3E-17 123.3 0.9 77 121-199 152-228 (664)
10 KOG3556 Familial cylindromatos 99.2 5.3E-11 1.1E-15 111.4 6.8 79 122-201 234-322 (724)
11 KOG0241 Kinesin-like protein [ 99.1 6.4E-11 1.4E-15 116.8 3.8 71 118-194 1625-1695(1714)
12 cd01800 SF3a120_C Ubiquitin-li 98.9 7.3E-10 1.6E-14 79.4 2.7 51 1-58 18-68 (76)
13 cd01799 Hoil1_N Ubiquitin-like 98.9 1.3E-09 2.9E-14 78.4 2.9 50 1-57 23-73 (75)
14 cd01806 Nedd8 Nebb8-like ubiq 98.8 2.6E-09 5.6E-14 75.4 3.8 51 1-58 21-71 (76)
15 PTZ00044 ubiquitin; Provisiona 98.8 1.8E-09 3.9E-14 76.7 3.0 50 1-57 21-70 (76)
16 cd01809 Scythe_N Ubiquitin-lik 98.8 2.2E-09 4.8E-14 75.0 2.9 51 1-58 21-71 (72)
17 cd01795 USP48_C USP ubiquitin- 98.8 1.8E-09 4E-14 81.5 2.2 75 1-86 25-99 (107)
18 cd01793 Fubi Fubi ubiquitin-li 98.8 3.6E-09 7.8E-14 75.3 3.3 50 1-57 19-68 (74)
19 cd01812 BAG1_N Ubiquitin-like 98.8 4.9E-09 1.1E-13 73.2 3.0 50 1-57 20-69 (71)
20 cd01803 Ubiquitin Ubiquitin. U 98.8 5.3E-09 1.2E-13 73.8 2.9 50 1-57 21-70 (76)
21 cd01796 DDI1_N DNA damage indu 98.7 8.8E-09 1.9E-13 73.0 2.9 51 1-57 20-70 (71)
22 cd01807 GDX_N ubiquitin-like d 98.7 9.1E-09 2E-13 73.1 2.7 50 1-57 21-70 (74)
23 cd01797 NIRF_N amino-terminal 98.7 9.2E-09 2E-13 74.4 2.7 50 1-57 23-72 (78)
24 cd01794 DC_UbP_C dendritic cel 98.7 1.2E-08 2.6E-13 72.4 2.7 50 1-57 19-68 (70)
25 PF00240 ubiquitin: Ubiquitin 98.7 2.2E-08 4.9E-13 69.6 3.9 50 1-57 16-65 (69)
26 cd01798 parkin_N amino-termina 98.7 1.6E-08 3.4E-13 71.1 2.9 50 1-57 19-68 (70)
27 cd01815 BMSC_UbP_N Ubiquitin-l 98.6 2.3E-08 5E-13 72.2 2.9 50 1-57 21-73 (75)
28 cd01791 Ubl5 UBL5 ubiquitin-li 98.6 2.4E-08 5.3E-13 71.5 3.0 50 1-57 22-71 (73)
29 cd01810 ISG15_repeat2 ISG15 ub 98.6 4.3E-08 9.3E-13 69.7 2.8 50 1-57 19-68 (74)
30 cd01808 hPLIC_N Ubiquitin-like 98.5 5.3E-08 1.1E-12 68.6 2.7 50 1-57 20-69 (71)
31 cd01802 AN1_N ubiquitin-like d 98.5 6E-08 1.3E-12 73.9 3.1 50 1-57 48-97 (103)
32 cd01813 UBP_N UBP ubiquitin pr 98.5 8.5E-08 1.8E-12 68.7 3.3 53 1-57 20-72 (74)
33 cd01804 midnolin_N Ubiquitin-l 98.4 1.4E-07 3.1E-12 68.0 3.1 50 1-58 22-71 (78)
34 cd01769 UBL Ubiquitin-like dom 98.4 2.3E-07 5.1E-12 63.5 3.4 52 1-59 18-69 (69)
35 cd01805 RAD23_N Ubiquitin-like 98.4 2.6E-07 5.7E-12 65.6 3.4 53 1-60 21-75 (77)
36 cd01792 ISG15_repeat1 ISG15 ub 98.4 1.5E-07 3.3E-12 67.9 2.2 53 1-58 23-75 (80)
37 KOG0005 Ubiquitin-like protein 98.3 1.7E-07 3.7E-12 64.7 1.0 49 2-57 22-70 (70)
38 smart00213 UBQ Ubiquitin homol 98.1 1.6E-06 3.5E-11 58.5 1.8 45 1-52 20-64 (64)
39 KOG0004 Ubiquitin/40S ribosoma 98.1 2.2E-06 4.7E-11 69.5 2.6 51 1-58 21-71 (156)
40 cd01790 Herp_N Homocysteine-re 98.1 2E-06 4.4E-11 62.6 2.1 50 1-57 24-77 (79)
41 cd01814 NTGP5 Ubiquitin-like N 97.9 7.3E-06 1.6E-10 63.4 2.5 54 1-61 26-92 (113)
42 PLN02560 enoyl-CoA reductase 97.9 1.5E-05 3.2E-10 71.6 4.8 63 1-63 24-87 (308)
43 cd01763 Sumo Small ubiquitin-r 97.9 1.4E-05 2.9E-10 58.8 3.6 50 1-57 32-81 (87)
44 KOG0003 Ubiquitin/60s ribosoma 97.9 1.7E-06 3.8E-11 66.3 -1.5 51 1-58 21-71 (128)
45 cd01801 Tsc13_N Ubiquitin-like 97.5 0.00014 3.1E-09 52.0 4.2 54 1-59 23-77 (77)
46 TIGR00601 rad23 UV excision re 97.4 0.00012 2.7E-09 67.4 3.6 54 1-61 21-77 (378)
47 KOG0010 Ubiquitin-like protein 97.1 0.00032 6.9E-09 66.1 3.0 54 1-61 35-88 (493)
48 PF11976 Rad60-SLD: Ubiquitin- 97.1 0.00036 7.8E-09 48.7 2.5 50 1-57 21-71 (72)
49 cd01788 ElonginB Ubiquitin-lik 96.7 0.0011 2.5E-08 51.4 2.4 41 1-48 22-62 (119)
50 cd01811 OASL_repeat1 2'-5' oli 96.7 0.0027 5.9E-08 45.8 4.1 58 2-62 22-79 (80)
51 cd00196 UBQ Ubiquitin-like pro 96.6 0.0021 4.5E-08 40.6 3.1 51 1-58 18-68 (69)
52 KOG0001 Ubiquitin and ubiquiti 96.5 0.0037 8E-08 41.8 3.6 50 2-58 21-70 (75)
53 PF11543 UN_NPL4: Nuclear pore 96.0 0.0026 5.6E-08 46.3 0.7 55 1-57 24-78 (80)
54 KOG4248 Ubiquitin-like protein 95.8 0.0084 1.8E-07 61.0 3.6 53 1-61 23-75 (1143)
55 KOG2982 Uncharacterized conser 95.7 0.012 2.6E-07 53.4 4.0 56 2-57 359-415 (418)
56 KOG0011 Nucleotide excision re 95.0 0.02 4.4E-07 51.8 3.1 54 1-61 21-76 (340)
57 KOG1872 Ubiquitin-specific pro 94.3 0.054 1.2E-06 51.1 4.3 52 2-60 25-76 (473)
58 PTZ00243 ABC transporter; Prov 93.9 0.069 1.5E-06 57.4 4.7 59 121-179 122-196 (1560)
59 KOG4495 RNA polymerase II tran 93.3 0.031 6.7E-07 42.3 0.6 41 2-47 23-63 (110)
60 PRK10708 hypothetical protein; 93.2 0.45 9.7E-06 32.6 6.1 57 124-190 1-61 (62)
61 PF10781 DSRB: Dextransucrase 93.2 0.42 9.1E-06 32.8 5.9 57 124-190 1-61 (62)
62 PF13881 Rad60-SLD_2: Ubiquiti 92.5 0.2 4.4E-06 38.6 4.2 52 1-59 24-88 (111)
63 KOG3493 Ubiquitin-like protein 87.2 0.094 2E-06 37.0 -1.4 49 1-56 22-70 (73)
64 PF14732 UAE_UbL: Ubiquitin/SU 85.2 1.4 3.1E-05 32.3 3.9 55 1-60 9-70 (87)
65 PF14836 Ubiquitin_3: Ubiquiti 80.8 6.6 0.00014 29.2 6.0 58 1-60 24-81 (88)
66 PF09926 DUF2158: Uncharacteri 79.4 8.8 0.00019 25.8 5.7 46 124-170 1-46 (53)
67 PF08817 YukD: WXG100 protein 78.4 0.91 2E-05 32.3 0.7 51 2-56 24-78 (79)
68 smart00666 PB1 PB1 domain. Pho 77.2 2.7 5.8E-05 29.5 2.8 34 1-34 21-54 (81)
69 cd06406 PB1_P67 A PB1 domain i 74.6 1.5 3.4E-05 32.0 1.0 32 1-32 21-52 (80)
70 KOG1639 Steroid reductase requ 68.0 4.9 0.00011 35.6 2.8 58 2-63 24-83 (297)
71 PF00564 PB1: PB1 domain; Int 67.3 3.8 8.3E-05 28.7 1.8 33 2-34 23-55 (84)
72 cd06398 PB1_Joka2 The PB1 doma 63.6 9.4 0.0002 28.3 3.3 34 1-34 25-59 (91)
73 cd05992 PB1 The PB1 domain is 60.7 9.9 0.00022 26.4 2.9 34 1-34 21-54 (81)
74 PF10209 DUF2340: Uncharacteri 57.9 18 0.00039 28.5 4.1 50 5-54 35-103 (122)
75 cd06397 PB1_UP1 Uncharacterize 56.5 10 0.00023 27.8 2.4 33 2-34 21-53 (82)
76 PF13019 Telomere_Sde2: Telome 55.7 23 0.00049 29.2 4.5 44 1-47 25-68 (162)
77 PF08337 Plexin_cytopl: Plexin 54.3 13 0.00029 36.1 3.4 59 1-60 212-290 (539)
78 TIGR00739 yajC preprotein tran 53.0 14 0.00031 26.9 2.7 27 119-146 33-59 (84)
79 COG3462 Predicted membrane pro 52.3 5.4 0.00012 30.9 0.3 17 78-94 100-116 (117)
80 KOG0006 E3 ubiquitin-protein l 48.4 14 0.00031 33.9 2.4 53 2-61 25-77 (446)
81 PRK05886 yajC preprotein trans 46.8 19 0.00041 27.7 2.6 35 119-161 34-68 (109)
82 PRK06531 yajC preprotein trans 45.9 20 0.00043 27.8 2.6 27 119-146 32-58 (113)
83 PRK05585 yajC preprotein trans 45.1 21 0.00046 27.2 2.6 27 119-146 48-74 (106)
84 KOG0013 Uncharacterized conser 45.1 28 0.00061 30.1 3.6 53 2-61 168-222 (231)
85 smart00739 KOW KOW (Kyprides, 42.4 30 0.00064 18.9 2.4 17 124-140 2-18 (28)
86 PF09851 SHOCT: Short C-termin 41.6 12 0.00025 22.2 0.6 15 80-94 16-30 (31)
87 cd06407 PB1_NLP A PB1 domain i 39.8 42 0.00091 24.3 3.4 33 1-33 20-53 (82)
88 TIGR02266 gmx_TIGR02266 Myxoco 39.2 95 0.0021 21.9 5.3 42 121-163 34-83 (96)
89 PF00789 UBX: UBX domain; Int 36.9 91 0.002 21.6 4.8 53 2-57 28-81 (82)
90 PF14801 GCD14_N: tRNA methylt 36.6 23 0.0005 24.0 1.4 46 123-171 5-52 (54)
91 COG5417 Uncharacterized small 35.4 28 0.00062 25.3 1.8 39 18-56 37-80 (81)
92 PF02699 YajC: Preprotein tran 35.0 12 0.00026 27.1 -0.2 25 119-144 32-56 (82)
93 CHL00141 rpl24 ribosomal prote 34.4 47 0.001 24.2 2.9 23 122-144 7-32 (83)
94 KOG4147 Uncharacterized conser 32.3 54 0.0012 25.5 3.0 51 4-54 41-108 (127)
95 PRK12281 rplX 50S ribosomal pr 32.1 53 0.0012 23.5 2.8 23 122-144 5-30 (76)
96 PF15290 Syntaphilin: Golgi-lo 32.0 20 0.00043 32.2 0.7 22 165-186 21-52 (305)
97 PF10016 DUF2259: Predicted se 29.8 38 0.00083 28.5 2.0 27 44-70 3-34 (198)
98 PF14001 YdfZ: YdfZ protein 29.3 68 0.0015 22.5 2.8 22 123-144 9-30 (64)
99 cd06402 PB1_p62 The PB1 domain 28.6 82 0.0018 23.3 3.4 55 2-57 28-85 (87)
100 cd06411 PB1_p51 The PB1 domain 28.1 53 0.0011 23.9 2.2 30 2-31 18-47 (78)
101 cd06404 PB1_aPKC PB1 domain is 28.0 61 0.0013 23.8 2.6 57 1-57 20-81 (83)
102 PF07076 DUF1344: Protein of u 27.9 1.4E+02 0.0031 20.7 4.3 39 13-57 9-47 (61)
103 PF00924 MS_channel: Mechanose 27.7 52 0.0011 26.7 2.5 26 121-148 58-83 (206)
104 COG3350 Uncharacterized conser 27.1 27 0.00058 23.6 0.5 30 154-183 6-35 (53)
105 PRK06437 hypothetical protein; 26.7 1.6E+02 0.0035 20.1 4.5 40 2-57 22-61 (67)
106 PRK06488 sulfur carrier protei 26.3 1.8E+02 0.0038 19.5 4.6 44 2-57 16-59 (65)
107 cd06410 PB1_UP2 Uncharacterize 26.3 77 0.0017 23.7 3.0 27 1-28 33-59 (97)
108 COG1862 YajC Preprotein transl 25.0 74 0.0016 24.0 2.7 27 119-146 39-65 (97)
109 PF10500 SR-25: Nuclear RNA-sp 23.6 33 0.00072 29.7 0.6 23 79-107 158-180 (225)
110 PF02017 CIDE-N: CIDE-N domain 23.6 69 0.0015 23.2 2.2 31 2-33 22-52 (78)
111 PRK00004 rplX 50S ribosomal pr 23.5 92 0.002 23.6 3.0 22 123-144 4-28 (105)
112 cd00754 MoaD Ubiquitin domain 23.4 1.4E+02 0.0031 20.2 3.8 45 1-57 26-74 (80)
113 PF00467 KOW: KOW motif; Inte 20.8 1.6E+02 0.0035 17.0 3.1 19 126-144 1-22 (32)
114 smart00266 CAD Domains present 20.7 1.4E+02 0.003 21.5 3.2 31 2-33 20-50 (74)
115 cd01615 CIDE_N CIDE_N domain, 20.5 1.4E+02 0.0031 21.6 3.3 31 2-33 22-52 (78)
116 TIGR01079 rplX_bact ribosomal 20.5 1.1E+02 0.0025 23.1 2.9 22 123-144 3-27 (104)
117 cd06539 CIDE_N_A CIDE_N domain 20.2 1.4E+02 0.003 21.7 3.2 31 2-33 22-52 (78)
No 1
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2e-66 Score=431.86 Aligned_cols=203 Identities=48% Similarity=0.854 Sum_probs=180.8
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCCCccCCCcccCCCcceeee
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSSVTSGGWLEDTSLVEKYT 80 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~s~~~~~~l~D~s~vek~~ 80 (208)
|||.+||.|||.+||++|++|+|+|++.+++.+..|+++++.|++|++.||.+|||+|.++.|+++ ++|.|.||||+
T Consensus 23 ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~~~~~~~---~~d~s~veky~ 99 (234)
T KOG3206|consen 23 LTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSNAQSISN---TEDESIVEKYE 99 (234)
T ss_pred CcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecCcccccc---ccccccceeee
Confidence 699999999999999999999999999999999999999999999999999999999999988754 89999999999
Q ss_pred cCHHHHhcchhhHHHHHHHhhc--CCCchhhh----ccccchhhhhcCCCCcCCEEEEc-CC--CceeEEEEecccCCCC
Q 028484 81 ISEEEYSKRDGTFRKFKEKVLS--QNPSAVEN----KLSNNYMEDLCSNITVGDRCEVD-PG--AKRGVVKYVGQAESIA 151 (208)
Q Consensus 81 ls~e~Y~~r~dtv~~~k~~~~~--~~p~~~~~----~~~~~~~~~~~~~~~vG~rv~v~-~~--~~~G~vryvG~~~~~~ 151 (208)
||+|+|.+|+||||+||++++. ||.+...+ +++...++.....+.||.||+|. ++ .+||+|||+|++++ +
T Consensus 100 iSee~Y~qRtdSvr~~kk~~~~gryn~~~~~q~ea~~~~~~~e~~~~~~i~vG~rCeVtv~G~~~Rrg~vrYvG~~~~-k 178 (234)
T KOG3206|consen 100 ISEEDYLQRTDSVRRFKKKHGYGRYNAEEQAQAEAEAKQDLAEERAQATIAVGRRCEVTVPGQAPRRGTVRYVGPLEF-K 178 (234)
T ss_pred cCHHHHhhhhHHHHHHHHHhcccccchhhhhHHHHHhHHHHHHHHHhhccccCCeeEEecCCCCCcceEEEEecccCC-C
Confidence 9999999999999999999974 55442221 11112222223349999999997 55 59999999999998 9
Q ss_pred CCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCccCCCCCCCCCCCCCC
Q 028484 152 PGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVKVGDYPERDPFEEDEI 208 (208)
Q Consensus 152 ~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~~g~fp~~d~~~~dE~ 208 (208)
+|+||||++|||.|||||+++|+|||.|+|+||.||||..|++|||||+| |++|||
T Consensus 179 ~G~wiGVeydEplGKnDGsv~G~ryF~c~p~yGgfVrP~~V~VgdfpeeD-~~~DEi 234 (234)
T KOG3206|consen 179 PGYWIGVEYDEPLGKNDGSVNGKRYFECAPKYGGFVRPRAVTVGDFPEED-FSDDEI 234 (234)
T ss_pred CceEEEEecCCccccCCCcccceEeeecCCccCCccccceeeecCCChhh-cccccC
Confidence 99999999999999999999999999999999999999999999999988 888887
No 2
>PF01302 CAP_GLY: CAP-Gly domain; InterPro: IPR000938 Cytoskeleton-associated proteins (CAP) are made of three distinct parts, an N-terminal section that is most probably globular and contains the CAP-Gly domain, a large central region predicted to be in an alpha-helical coiled-coil conformation and, finally, a short C-terminal globular domain. The CAP-Gly domain is a conserved, glycine-rich domain of about 42 residues found in some CAPs []. Proteins known to contain this domain include restin (also known as cytoplasmic linker protein-170 or CLIP-170), a 160 kDa protein associated with intermediate filaments and that links endocytic vesicles to microtubules; vertebrate dynactin (150 kDa dynein-associated polypeptide; DAP) and Drosophila glued, a major component of activator I; yeast protein BIK1, which seems to be required for the formation or stabilisation of microtubules during mitosis and for spindle pole body fusion during conjugation; yeast protein NIP100 (NIP80); human protein CKAP1/TFCB; Schizosaccharomyces pombe protein alp11 and Caenorhabditis elegans hypothetical protein F53F4.3. The latter proteins contain a N-terminal ubiquitin domain and a C-terminal CAP-Gly domain. The crystal structure of the CAP-Gly domain of C. elegans F53F4.3 protein, solved by single wavelength sulphur-anomalous phasing, revealed a novel protein fold containing three beta-sheets. The most conserved sequence, GKNDG, is located in two consecutive sharp turns on the surface, forming the entrance to a groove. Residues in the groove are highly conserved as measured from the information content of the aligned sequences. The C-terminal tail of another molecule in the crystal is bound in this groove []. ; PDB: 2CP6_A 2E4H_A 2E3H_A 3E2U_B 2HL3_B 3TQ7_Q 2HKQ_B 2HQH_A 2HKN_B 2HL5_C ....
Probab=99.94 E-value=2.6e-27 Score=168.28 Aligned_cols=68 Identities=59% Similarity=1.205 Sum_probs=60.2
Q ss_pred cCCEEEEc-CCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCc
Q 028484 126 VGDRCEVD-PGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVK 193 (208)
Q Consensus 126 vG~rv~v~-~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~ 193 (208)
||+||.|. +..++|+|||+|+++..++|.|+|||||+|.|+|||+++|+|||+|+|+||+||++++|+
T Consensus 1 VG~rV~v~~~~~~~G~vryiG~~~~~~~g~~vGVEld~~~G~~dGt~~G~rYF~c~~~~G~Fv~~~~v~ 69 (69)
T PF01302_consen 1 VGDRVRVDDPGGRRGTVRYIGPVPGFKSGIWVGVELDEPRGKNDGTVKGKRYFECPPNHGIFVRPSKVE 69 (69)
T ss_dssp TTSEEEESSTTTEEEEEEEEEE-SSSSSSEEEEEEESSSTSSBSSEETTEESS-SSTTTEEEEEGGGE-
T ss_pred CCCEEEEeeCCCCEEEEEEEeeCCCCCCCEEEEEEEcCCCCCCCcEECCEEEeeeCCCCEEEecHHHCC
Confidence 79999993 348999999999999437899999999999999999999999999999999999999885
No 3
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=99.82 E-value=1.2e-20 Score=182.86 Aligned_cols=74 Identities=46% Similarity=0.785 Sum_probs=69.4
Q ss_pred hcCCCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCcc
Q 028484 120 LCSNITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVKV 194 (208)
Q Consensus 120 ~~~~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~~ 194 (208)
++..|+||.||+|..+...|+|.|||.+.| ..|.||||-||+|.|||||||+|++||+|++|||+|||++.|.+
T Consensus 2 s~r~lkvG~RVevtgknl~G~VayvG~T~F-A~G~WvGVvLDep~GKNnGsVqg~qYF~Cd~ncG~FVr~sq~r~ 75 (1243)
T KOG0971|consen 2 SPRSLKVGTRVEVTGKNLQGTVAYVGQTQF-AEGKWVGVVLDEPKGKNNGSVQGVQYFECDENCGVFVRSSQVRE 75 (1243)
T ss_pred CCccccccceEEeccCCccceEEEeccccc-ccCceEEEEeccccCCCCCcccceeeEecCCCcceEeehhhhHH
Confidence 356799999999986678999999999999 99999999999999999999999999999999999999999665
No 4
>COG5244 NIP100 Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell division and chromosome partitioning]
Probab=99.79 E-value=8.7e-20 Score=167.92 Aligned_cols=68 Identities=40% Similarity=0.903 Sum_probs=63.4
Q ss_pred CCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCc
Q 028484 123 NITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVK 193 (208)
Q Consensus 123 ~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~ 193 (208)
-+.|||||.|. +..|+|||+|.+.+ +.|+|+|||||.|.||||||++|+|||.|...||+|+||..=.
T Consensus 3 ~lSv~D~Vll~--~~~g~VrfiG~t~f-~~GiW~GlELd~p~GkNDGSvnGvRYF~Ckk~~giFir~~~~~ 70 (669)
T COG5244 3 LLSVNDRVLLG--DKFGTVRFIGKTKF-KDGIWIGLELDDPVGKNDGSVNGVRYFHCKKRHGIFIRPDDDS 70 (669)
T ss_pred eeecCCEEEec--cccceEEEeeeccc-ccceEEEEEecCCCCCCCCccCceEEEEecCCcceEEecCchh
Confidence 46899999996 78999999999999 9999999999999999999999999999999999999976543
No 5
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.76 E-value=3.9e-19 Score=130.80 Aligned_cols=63 Identities=37% Similarity=0.618 Sum_probs=54.0
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEE-cCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELY-DDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSS 63 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~-~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~s 63 (208)
+||++||+|||.+||+||++|+|.++ +.++..+..+++|.++|++|++++|++|||+|+||+|
T Consensus 24 ~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D~~p~s 87 (87)
T PF14560_consen 24 ITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVDTNPSS 87 (87)
T ss_dssp SBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE-T---
T ss_pred CCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEeCCCCC
Confidence 69999999999999999999999999 5677888889999999999999999999999999986
No 6
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.75 E-value=1.5e-18 Score=127.42 Aligned_cols=62 Identities=35% Similarity=0.572 Sum_probs=58.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPS 62 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~ 62 (208)
|||++||+||+.+||+||++|+|++++..+..++.|++|.++|++|++++|++|||+|++|.
T Consensus 23 ~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~~p~ 84 (84)
T cd01789 23 LTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDVSGT 84 (84)
T ss_pred CcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeCCCC
Confidence 69999999999999999999999999887777777999999999999999999999999984
No 7
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=1.5e-16 Score=146.28 Aligned_cols=70 Identities=37% Similarity=0.873 Sum_probs=65.1
Q ss_pred CCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCC-CCCCcEECCEEeeec-CCCceeeecCCCCccC
Q 028484 123 NITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPL-GKHNGIVKGVRYFEC-PPLHGAMVRPDKVKVG 195 (208)
Q Consensus 123 ~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~-GkndGs~~G~rYF~c-~~~~G~Fv~~~~v~~g 195 (208)
.+.+|+||.|. +..+||||+|.|++ -++.|+|||||+|. |||||+++|+|||.| .|+.|+|++|.+|..+
T Consensus 2 ~~~IG~RvkI~--~~~~Tvr~iG~V~g-~~~~w~GvEWDd~~RGKH~G~vdgk~YF~~q~P~GGSFik~~kV~~p 73 (505)
T KOG3207|consen 2 TMEIGTRVKIG--GEIATVRYIGEVEG-NNSKWYGVEWDDPVRGKHDGIVDGKRYFQTQHPNGGSFIKPGKVKFP 73 (505)
T ss_pred ceeccceEEEc--CEEEEEEEEEEEcC-CCCcceeeEecCCCccccCceecceeeeeeecCCCccccCCccCCCC
Confidence 46899999996 89999999999999 56799999999996 999999999999999 7999999999999875
No 8
>KOG4568 consensus Cytoskeleton-associated protein and related proteins [Cytoskeleton; General function prediction only]
Probab=99.62 E-value=2.1e-16 Score=152.64 Aligned_cols=74 Identities=35% Similarity=0.731 Sum_probs=68.4
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCcc
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVKV 194 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~~ 194 (208)
.....+.+|++|.|. +..+|.|||+|++.+ ..|+|+||+|++|.|||||+|.|+|||.|.+++|+|+++.+...
T Consensus 13 ~~~~~~~ig~~v~v~-~~~~G~v~y~G~t~f-~~G~w~GveL~~p~GKNdGsv~G~rYF~ce~~kgif~~~~~~t~ 86 (664)
T KOG4568|consen 13 DDLGQFIIGRRVWVN-NVELGFVRYAGETDF-AKGIWAGVELLEPKGKNDGSVHGKRYFQCEPKKGIFFRQGRGTA 86 (664)
T ss_pred hhhhhhhhcceEEec-CCcceeeeeccCccc-ccceeeceeeccccCCCCcccchhhhhccccccceeeccccccc
Confidence 445678999999997 689999999999999 99999999999999999999999999999999999999887654
No 9
>KOG4568 consensus Cytoskeleton-associated protein and related proteins [Cytoskeleton; General function prediction only]
Probab=99.19 E-value=3.8e-12 Score=123.30 Aligned_cols=77 Identities=39% Similarity=0.719 Sum_probs=71.6
Q ss_pred cCCCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCccCCCCC
Q 028484 121 CSNITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVKVGDYPE 199 (208)
Q Consensus 121 ~~~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~~g~fp~ 199 (208)
...+.+|+|+.+. +...|++||.|.+.+ +.|-|+|||||+|.|+|||++.+++||+|+|.||.|.+..+|..+.++.
T Consensus 152 ~~~l~v~dr~l~~-gq~~~~~r~~~~t~f-a~g~w~~~elde~~~~~d~sv~k~~~~~~k~ky~~f~~v~kv~~~~~~~ 228 (664)
T KOG4568|consen 152 MLGLRVGDRVLVG-GQKSGTLRYSGHTKF-ASGSWLGVELDEPVGKNDGSVGKVRYFQCKPKYGKFAPVQKVFKIEVTI 228 (664)
T ss_pred ccccccccceeec-Ccccchhhhhccccc-cCCcccchhcccccccccccccccccccCcchhcchhHHHHHhhccccc
Confidence 4568999999997 789999999999999 9999999999999999999999999999999999999999998876653
No 10
>KOG3556 consensus Familial cylindromatosis protein [General function prediction only]
Probab=99.16 E-value=5.3e-11 Score=111.41 Aligned_cols=79 Identities=24% Similarity=0.521 Sum_probs=70.8
Q ss_pred CCCCcCCEEEEc-CC---CceeEEEEecccCCCCCCcEEEEEEeCCC-----CCCCcEECCEEeeecCCCceeeecCCCC
Q 028484 122 SNITVGDRCEVD-PG---AKRGVVKYVGQAESIAPGFWVGIQYDEPL-----GKHNGIVKGVRYFECPPLHGAMVRPDKV 192 (208)
Q Consensus 122 ~~~~vG~rv~v~-~~---~~~G~vryvG~~~~~~~g~wvGVelde~~-----GkndGs~~G~rYF~c~~~~G~Fv~~~~v 192 (208)
..|+||+.|+|. ++ ..+|+|||||..|. ..|+|+|||+++.. +..||++.|.|||+|..+..+||+...+
T Consensus 234 ~~L~IGslveV~np~~~~~~ygvVrWIG~pP~-~~~Vl~gve~edet~~~~~~~~dgs~~g~Rlftc~d~~a~Fv~~~sc 312 (724)
T KOG3556|consen 234 LNLKIGSLVEVENPETMRRVYGVVRWIGEPPE-ASGVLYGVEFEDETSQWPSSNQDGSSSGDRLFTCFDTNANFVMSGSC 312 (724)
T ss_pred ccceecceEEecCCccccccceeeEecccCCc-ccCceEeeeecCccccCccccccCcccCceeeeeccccceeeEcCCC
Confidence 458999999996 32 57999999999998 89999999999753 7899999999999999999999999999
Q ss_pred ccC-CCCCCC
Q 028484 193 KVG-DYPERD 201 (208)
Q Consensus 193 ~~g-~fp~~d 201 (208)
.+. .|..++
T Consensus 313 s~d~rfa~l~ 322 (724)
T KOG3556|consen 313 SVDPRFARLY 322 (724)
T ss_pred CcCcccchhc
Confidence 998 688766
No 11
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=99.08 E-value=6.4e-11 Score=116.75 Aligned_cols=71 Identities=28% Similarity=0.413 Sum_probs=62.7
Q ss_pred hhhcCCCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeecCCCceeeecCCCCcc
Q 028484 118 EDLCSNITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFECPPLHGAMVRPDKVKV 194 (208)
Q Consensus 118 ~~~~~~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c~~~~G~Fv~~~~v~~ 194 (208)
......+-+|.||.+. ....++|||+|++.| -+ |||||.|.|||||++.|++||+|.|+||+||+++++..
T Consensus 1625 ~~~pew~~~ge~v~~~-~h~t~v~r~vg~tef-q~----gveld~p~gkndgs~gg~qyfrc~p~~g~~vr~s~~~~ 1695 (1714)
T KOG0241|consen 1625 KISPEWRGFGERVVTV-EHTTNVLRDVGFTEF-QG----GVELDDPDGKNDGSAGGLQYFRCLPNKGGGVRVSDGLH 1695 (1714)
T ss_pred hcCchhhhcCceeEEe-ecccceeeecchhhc-cC----cccccCCCCCcCccccceeEEeecCCCCCcccchhhcc
Confidence 3455678899999986 367889999999998 33 99999999999999999999999999999999998764
No 12
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=98.90 E-value=7.3e-10 Score=79.41 Aligned_cols=51 Identities=20% Similarity=0.295 Sum_probs=45.1
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
+||++||++|+..+||||+.|+|.+. |+. | +|+++|++|++++|++|||.=
T Consensus 18 ~TV~~lK~~i~~~~gip~~~q~L~~~---G~~---L-~d~~tL~~~~i~~g~~l~v~~ 68 (76)
T cd01800 18 DPVSVLKVKIHEETGMPAGKQKLQYE---GIF---I-KDSNSLAYYNLANGTIIHLQL 68 (76)
T ss_pred CcHHHHHHHHHHHHCCCHHHEEEEEC---CEE---c-CCCCcHHHcCCCCCCEEEEEE
Confidence 58999999999999999999999984 543 3 567899999999999999974
No 13
>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=98.87 E-value=1.3e-09 Score=78.43 Aligned_cols=50 Identities=18% Similarity=0.212 Sum_probs=43.9
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCC-CCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPL-QGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~-~g~~IhV~ 57 (208)
+||++||.||+..+||||++|+| + .|+. |.+|.++|++|+++ +|.++|+-
T Consensus 23 ~TV~~lK~kI~~~~gip~~~QrL-~---~G~~---L~dD~~tL~~ygi~~~g~~~~l~ 73 (75)
T cd01799 23 MTVAQLKDKVFLDYGFPPAVQRW-V---IGQR---LARDQETLYSHGIRTNGDSAFLY 73 (75)
T ss_pred CcHHHHHHHHHHHHCcCHHHEEE-E---cCCe---eCCCcCCHHHcCCCCCCCEEEEE
Confidence 59999999999999999999999 5 3655 55788999999999 88999873
No 14
>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=98.85 E-value=2.6e-09 Score=75.40 Aligned_cols=51 Identities=20% Similarity=0.286 Sum_probs=45.1
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
.||++||++|+..+|+||+.|+|.+ +|+. | +|+.+|++|++++|++||++=
T Consensus 21 ~tv~~lK~~i~~~~g~~~~~qrL~~---~g~~---L-~d~~tl~~~~i~~g~~i~l~~ 71 (76)
T cd01806 21 DKVERIKERVEEKEGIPPQQQRLIY---SGKQ---M-NDDKTAADYKLEGGSVLHLVL 71 (76)
T ss_pred CCHHHHHHHHhHhhCCChhhEEEEE---CCeE---c-cCCCCHHHcCCCCCCEEEEEE
Confidence 4899999999999999999999996 4665 3 567899999999999999974
No 15
>PTZ00044 ubiquitin; Provisional
Probab=98.84 E-value=1.8e-09 Score=76.73 Aligned_cols=50 Identities=24% Similarity=0.378 Sum_probs=45.1
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
+||++||+||+..+|+||+.|+|.+ .|+. | +|..+|++|+++++++||++
T Consensus 21 ~tv~~lK~~i~~~~gi~~~~q~L~~---~g~~---L-~d~~~l~~~~i~~~~~i~l~ 70 (76)
T PTZ00044 21 NTVQQVKMALQEKEGIDVKQIRLIY---SGKQ---M-SDDLKLSDYKVVPGSTIHMV 70 (76)
T ss_pred CcHHHHHHHHHHHHCCCHHHeEEEE---CCEE---c-cCCCcHHHcCCCCCCEEEEE
Confidence 5899999999999999999999996 4665 4 57788999999999999997
No 16
>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=98.83 E-value=2.2e-09 Score=74.98 Aligned_cols=51 Identities=22% Similarity=0.384 Sum_probs=45.1
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
.||++||++|+..+|+||+.|+|.+ +|+. | +|+++|++|++++|++||++-
T Consensus 21 ~tv~~lK~~i~~~~gi~~~~q~L~~---~g~~---L-~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 21 ITVLDLKEKIAEEVGIPVEQQRLIY---SGRV---L-KDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred CcHHHHHHHHHHHHCcCHHHeEEEE---CCEE---C-CCcCcHHHCCCCCCCEEEEEe
Confidence 5899999999999999999999997 4654 3 567899999999999999974
No 17
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=98.81 E-value=1.8e-09 Score=81.53 Aligned_cols=75 Identities=15% Similarity=0.217 Sum_probs=61.2
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCCCccCCCcccCCCcceeee
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSSVTSGGWLEDTSLVEKYT 80 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~s~~~~~~l~D~s~vek~~ 80 (208)
.||.+||.+|..++|++|.+|+|.+. |+ .|.||+++|++|++.++++|++.=++|..--. ..+|+-+| -
T Consensus 25 ~TVg~LK~lImQ~f~V~P~dQkL~~d---G~---~L~DDsrTLssyGv~sgSvl~LlideP~~d~~--~~~~~~~~---~ 93 (107)
T cd01795 25 QTLKELKIQIMHAFSVAPFDQNLSID---GK---ILSDDCATLGTLGVIPESVILLKADEPIADYA--AMDDVMQV---C 93 (107)
T ss_pred ccHHHHHHHHHHHhcCCcccceeeec---Cc---eeccCCccHHhcCCCCCCEEEEEecCCcccHH--HHHHHHHh---c
Confidence 48999999999999999999999984 76 48899999999999999999999888854322 24565555 6
Q ss_pred cCHHHH
Q 028484 81 ISEEEY 86 (208)
Q Consensus 81 ls~e~Y 86 (208)
|+||-+
T Consensus 94 ~~~~~~ 99 (107)
T cd01795 94 MPEEGF 99 (107)
T ss_pred Cccccc
Confidence 776644
No 18
>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=98.80 E-value=3.6e-09 Score=75.30 Aligned_cols=50 Identities=22% Similarity=0.222 Sum_probs=45.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||++|+..+|+|+++|+|.+ .|+. | +|+.+|++|+++++++||++
T Consensus 19 ~tV~~lK~~i~~~~gip~~~q~Li~---~Gk~---L-~D~~tL~~~~i~~~~tl~l~ 68 (74)
T cd01793 19 ETVSDIKAHVAGLEGIDVEDQVLLL---AGVP---L-EDDATLGQCGVEELCTLEVA 68 (74)
T ss_pred CcHHHHHHHHHhhhCCCHHHEEEEE---CCeE---C-CCCCCHHHcCCCCCCEEEEE
Confidence 5899999999999999999999997 4766 3 57799999999999999997
No 19
>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=98.76 E-value=4.9e-09 Score=73.23 Aligned_cols=50 Identities=14% Similarity=0.201 Sum_probs=44.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
+||.+||++|+..||+||+.|+|.+. |+. + +|+++|++|++++|++|||+
T Consensus 20 ~tv~~lK~~i~~~~gi~~~~q~L~~~---g~~---l-~d~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 20 ATFGDLKKMLAPVTGVEPRDQKLIFK---GKE---R-DDAETLDMSGVKDGSKVMLL 69 (71)
T ss_pred CcHHHHHHHHHHhhCCChHHeEEeeC---Ccc---c-CccCcHHHcCCCCCCEEEEe
Confidence 58999999999999999999999974 654 3 46789999999999999986
No 20
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=98.75 E-value=5.3e-09 Score=73.78 Aligned_cols=50 Identities=26% Similarity=0.396 Sum_probs=44.6
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||++|+..+|+||+.|+|.+ +|+. | +|+.+|++|++++|++|||+
T Consensus 21 ~tV~~lK~~i~~~~g~~~~~q~L~~---~g~~---L-~d~~~L~~~~i~~~~~i~l~ 70 (76)
T cd01803 21 DTIENVKAKIQDKEGIPPDQQRLIF---AGKQ---L-EDGRTLSDYNIQKESTLHLV 70 (76)
T ss_pred CcHHHHHHHHHHHhCCCHHHeEEEE---CCEE---C-CCCCcHHHcCCCCCCEEEEE
Confidence 5899999999999999999999996 4654 3 57789999999999999997
No 21
>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=98.71 E-value=8.8e-09 Score=72.99 Aligned_cols=51 Identities=22% Similarity=0.280 Sum_probs=45.4
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
+||++||++|+..+|+|+++|+|.+ .|+. |.|+..+|.+|++++|+.||+.
T Consensus 20 ~TV~~lK~~I~~~~gip~~~q~Li~---~Gk~---L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 20 LELENFKALCEAESGIPASQQQLIY---NGRE---LVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CCHHHHHHHHHHHhCCCHHHeEEEE---CCeE---ccCCcccHHHcCCCCCCEEEEe
Confidence 5999999999999999999999997 4776 5566789999999999999974
No 22
>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=98.70 E-value=9.1e-09 Score=73.13 Aligned_cols=50 Identities=18% Similarity=0.207 Sum_probs=45.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||++|+..+|+||+.|+|.+ .|+. | +|+.+|++|+++++++||++
T Consensus 21 ~tV~~lK~~i~~~~gi~~~~q~L~~---~G~~---L-~d~~~L~~~~i~~~~~l~l~ 70 (74)
T cd01807 21 ESVSTLKKLVSEHLNVPEEQQRLLF---KGKA---L-ADDKRLSDYSIGPNAKLNLV 70 (74)
T ss_pred CcHHHHHHHHHHHHCCCHHHeEEEE---CCEE---C-CCCCCHHHCCCCCCCEEEEE
Confidence 5899999999999999999999987 4766 4 56799999999999999997
No 23
>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=98.69 E-value=9.2e-09 Score=74.43 Aligned_cols=50 Identities=12% Similarity=0.155 Sum_probs=45.4
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||+||+..+|+|++.|+|.+ .|+. | +|+.+|++|+++++++||+.
T Consensus 23 ~TV~~lK~~i~~~~gi~~~~QrLi~---~Gk~---L-~D~~tL~~y~i~~~~~i~l~ 72 (78)
T cd01797 23 TKVEELREKIQELFNVEPECQRLFY---RGKQ---M-EDGHTLFDYNVGLNDIIQLL 72 (78)
T ss_pred CcHHHHHHHHHHHhCCCHHHeEEEe---CCEE---C-CCCCCHHHcCCCCCCEEEEE
Confidence 4899999999999999999999987 4766 3 78899999999999999986
No 24
>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=98.67 E-value=1.2e-08 Score=72.38 Aligned_cols=50 Identities=18% Similarity=0.145 Sum_probs=45.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||.+||++|+...|+||..|+|.+ .|+. | +|+.+|++|+++++++|||+
T Consensus 19 ~TV~~lK~~I~~~~gi~~~~q~Li~---~G~~---L-~D~~~l~~~~i~~~~tv~~~ 68 (70)
T cd01794 19 DTVGQLKKQLQAAEGVDPCCQRWFF---SGKL---L-TDKTRLQETKIQKDYVVQVI 68 (70)
T ss_pred ChHHHHHHHHHHHhCCCHHHeEEEE---CCeE---C-CCCCCHHHcCCCCCCEEEEE
Confidence 4899999999999999999999987 5765 3 67899999999999999996
No 25
>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=98.67 E-value=2.2e-08 Score=69.58 Aligned_cols=50 Identities=22% Similarity=0.378 Sum_probs=46.0
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||.+||++|+..+|+||+.|+|.+ .|+. | +|+.+|++|++.+|++||+.
T Consensus 16 ~tV~~lK~~i~~~~~~~~~~~~L~~---~G~~---L-~d~~tL~~~~i~~~~~I~l~ 65 (69)
T PF00240_consen 16 DTVADLKQKIAEETGIPPEQQRLIY---NGKE---L-DDDKTLSDYGIKDGSTIHLV 65 (69)
T ss_dssp SBHHHHHHHHHHHHTSTGGGEEEEE---TTEE---E-STTSBTGGGTTSTTEEEEEE
T ss_pred CCHHHhhhhcccccccccccceeee---eeec---c-cCcCcHHHcCCCCCCEEEEE
Confidence 4899999999999999999999998 5766 4 89999999999999999986
No 26
>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=98.66 E-value=1.6e-08 Score=71.11 Aligned_cols=50 Identities=14% Similarity=0.241 Sum_probs=45.1
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||++|+..+|+|+..|+|.+ .|+. | +|+.+|++|+++++++|||+
T Consensus 19 ~tV~~lK~~i~~~~gi~~~~q~Li~---~G~~---L-~d~~~l~~~~i~~~stl~l~ 68 (70)
T cd01798 19 TDIKQLKEVVAKRQGVPPDQLRVIF---AGKE---L-RNTTTIQECDLGQQSILHAV 68 (70)
T ss_pred ChHHHHHHHHHHHHCCCHHHeEEEE---CCeE---C-CCCCcHHHcCCCCCCEEEEE
Confidence 5899999999999999999999986 4776 4 67799999999999999986
No 27
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=98.62 E-value=2.3e-08 Score=72.16 Aligned_cols=50 Identities=20% Similarity=0.352 Sum_probs=43.6
Q ss_pred CCHHHHHHhccccc--ccC-CCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKC--GTS-VNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~it--Gi~-p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||.+||+||+..+ |++ |++|||++ .|+. | +|+++|++|+|++|++||++
T Consensus 21 ~TV~~LK~kI~~~~~egi~~~dqQrLIy---~GKi---L-~D~~TL~dygI~~gstlhLv 73 (75)
T cd01815 21 YQVSTLKQLIAAQLPDSLPDPELIDLIH---CGRK---L-KDDQTLDFYGIQSGSTIHIL 73 (75)
T ss_pred CcHHHHHHHHHHhhccCCCChHHeEEEe---CCcC---C-CCCCcHHHcCCCCCCEEEEE
Confidence 58999999999996 575 88899998 4775 3 67799999999999999986
No 28
>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=98.62 E-value=2.4e-08 Score=71.48 Aligned_cols=50 Identities=20% Similarity=0.253 Sum_probs=43.9
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||++|+...|+||+.|||.+ .|+. | +|+.+|++|++++|++||+-
T Consensus 22 ~TV~~LK~~I~~~~~~~~~~qrLi~---~Gk~---L-~D~~tL~~ygi~~~stv~l~ 71 (73)
T cd01791 22 DTIGDLKKLIAAQTGTRPEKIVLKK---WYTI---F-KDHISLGDYEIHDGMNLELY 71 (73)
T ss_pred CcHHHHHHHHHHHhCCChHHEEEEe---CCcC---C-CCCCCHHHcCCCCCCEEEEE
Confidence 4899999999999999999999996 3654 3 57789999999999999974
No 29
>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=98.56 E-value=4.3e-08 Score=69.70 Aligned_cols=50 Identities=16% Similarity=0.341 Sum_probs=44.6
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||.+||++|+..+|+|++.|+|.+ .|+. | .|+.+|.+|+++++++||+.
T Consensus 19 ~tV~~lK~~I~~~~gi~~~~q~L~~---~G~~---L-~D~~tL~~~~i~~~~tl~l~ 68 (74)
T cd01810 19 QTVATLKQQVSQRERVQADQFWLSF---EGRP---M-EDEHPLGEYGLKPGCTVFMN 68 (74)
T ss_pred ChHHHHHHHHHHHhCCCHHHeEEEE---CCEE---C-CCCCCHHHcCCCCCCEEEEE
Confidence 4899999999999999999999986 4766 3 46699999999999999986
No 30
>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=98.53 E-value=5.3e-08 Score=68.65 Aligned_cols=50 Identities=18% Similarity=0.283 Sum_probs=44.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
+||++||++|+..+|++++.|+|.+ .|+. | +|+.+|.+|++++|++||++
T Consensus 20 ~TV~~lK~~I~~~~~i~~~~~~Li~---~Gk~---L-~d~~tL~~~~i~~~stl~l~ 69 (71)
T cd01808 20 ASVKDFKEAVSKKFKANQEQLVLIF---AGKI---L-KDTDTLTQHNIKDGLTVHLV 69 (71)
T ss_pred ChHHHHHHHHHHHhCCCHHHEEEEE---CCeE---c-CCCCcHHHcCCCCCCEEEEE
Confidence 5899999999999999999999986 5665 3 56789999999999999986
No 31
>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=98.53 E-value=6e-08 Score=73.86 Aligned_cols=50 Identities=30% Similarity=0.340 Sum_probs=45.1
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||+||+...|+|++.|+|.+ .|+. | +|+.+|++|+++++++||++
T Consensus 48 ~TV~~lK~kI~~~~gip~~~QrLi~---~Gk~---L-~D~~tL~dy~I~~~stL~l~ 97 (103)
T cd01802 48 ETVISVKAKIQRLEGIPVAQQHLIW---NNME---L-EDEYCLNDYNISEGCTLKLV 97 (103)
T ss_pred CcHHHHHHHHHHHhCCChHHEEEEE---CCEE---C-CCCCcHHHcCCCCCCEEEEE
Confidence 5899999999999999999999987 5766 3 67799999999999999996
No 32
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=98.51 E-value=8.5e-08 Score=68.70 Aligned_cols=53 Identities=8% Similarity=0.016 Sum_probs=44.9
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||++||++|+..||+||+.|+|....-.|+. ..|+.+|++|++.+|..|+++
T Consensus 20 ~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~----l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 20 DTVLDLKQFIKTLTGVLPERQKLLGLKVKGKP----AEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred CCHHHHHHHHHHHHCCCHHHEEEEeecccCCc----CCCCcCHHHcCCCCCCEEEEE
Confidence 48999999999999999999999962113553 357899999999999999986
No 33
>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=98.44 E-value=1.4e-07 Score=67.98 Aligned_cols=50 Identities=18% Similarity=0.264 Sum_probs=43.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
.||++||++|+..+|+|++.|+|.+ .|+. |. |+ +|++|++++|++|||+=
T Consensus 22 ~TV~~LK~~I~~~~~~~~~~qrL~~---~Gk~---L~-d~-~L~~~gi~~~~~i~l~~ 71 (78)
T cd01804 22 ETVEGLKKRISQRLKVPKERLALLH---RETR---LS-SG-KLQDLGLGDGSKLTLVP 71 (78)
T ss_pred CHHHHHHHHHHHHhCCChHHEEEEE---CCcC---CC-CC-cHHHcCCCCCCEEEEEe
Confidence 4899999999999999999999987 3664 44 44 79999999999999974
No 34
>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=98.41 E-value=2.3e-07 Score=63.46 Aligned_cols=52 Identities=23% Similarity=0.272 Sum_probs=45.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDL 59 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~ 59 (208)
+||++||.+|+..+|+|++.|+|.+ .|+. + +|+.+|++|++.+++.|+|.+.
T Consensus 18 ~ti~~lK~~i~~~~~~~~~~~~l~~---~g~~---l-~d~~~l~~~~v~~~~~i~v~~~ 69 (69)
T cd01769 18 DTVAELKAKIAAKEGVPPEQQRLIY---AGKI---L-KDDKTLSDYGIQDGSTLHLVLR 69 (69)
T ss_pred ChHHHHHHHHHHHHCcChHHEEEEE---CCcC---C-CCcCCHHHCCCCCCCEEEEEEC
Confidence 5899999999999999999999965 4554 3 6778999999999999999873
No 35
>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=98.39 E-value=2.6e-07 Score=65.56 Aligned_cols=53 Identities=17% Similarity=0.127 Sum_probs=45.8
Q ss_pred CCHHHHHHhccccccc--CCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCC
Q 028484 1 MSVESVKDKLWRKCGT--SVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLD 60 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi--~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~ 60 (208)
.||.+||++|+..+|+ ||+.|+|.+ .|+. | +|+.+|++|++++|++|+|+=..
T Consensus 21 ~TV~~lK~~i~~~~~i~~~~~~q~L~~---~G~~---L-~d~~~L~~~~i~~~~~i~~~~~~ 75 (77)
T cd01805 21 DTVAELKEKIEEEKGCDYPPEQQKLIY---SGKI---L-KDDTTLEEYKIDEKDFVVVMVSK 75 (77)
T ss_pred CcHHHHHHHHHHhhCCCCChhHeEEEE---CCEE---c-cCCCCHHHcCCCCCCEEEEEEec
Confidence 4899999999999999 999999997 4765 4 56789999999999999987443
No 36
>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=98.39 E-value=1.5e-07 Score=67.95 Aligned_cols=53 Identities=21% Similarity=0.246 Sum_probs=44.5
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
.||++||++|+..+|+|++.|+|.+.. .|+. | +|+.+|++|++++|++|||+=
T Consensus 23 ~TV~~lK~~I~~~~~i~~~~qrL~~~~-~G~~---L-~D~~tL~~~gi~~gs~l~l~~ 75 (80)
T cd01792 23 MTVSELKQQIAQKIGVPAFQQRLAHLD-SREV---L-QDGVPLVSQGLGPGSTVLLVV 75 (80)
T ss_pred CcHHHHHHHHHHHhCCCHHHEEEEecc-CCCC---C-CCCCCHHHcCCCCCCEEEEEE
Confidence 489999999999999999999996421 5654 3 466899999999999999873
No 37
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=1.7e-07 Score=64.70 Aligned_cols=49 Identities=22% Similarity=0.397 Sum_probs=44.0
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
+|+.+|+|+|...||||.+|||.+ .|+. .+|+.+-.+|++..|+.||.+
T Consensus 22 kverIKErvEEkeGIPp~qqrli~---~gkq----m~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 22 KVERIKERVEEKEGIPPQQQRLIY---AGKQ----MNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred HHHHHHHHhhhhcCCCchhhhhhh---cccc----ccccccHHHhhhccceeEeeC
Confidence 689999999999999999999998 4776 268889999999999999974
No 38
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.08 E-value=1.6e-06 Score=58.50 Aligned_cols=45 Identities=24% Similarity=0.314 Sum_probs=38.6
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCc
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGY 52 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~ 52 (208)
.||++||++|+..+|+||+.|+|.+. |+. | .|+.+|++|++++|+
T Consensus 20 ~tv~~lk~~i~~~~~~~~~~~~L~~~---g~~---L-~d~~tL~~~~i~~~~ 64 (64)
T smart00213 20 DTVSELKEKIAELTGIPVEQQRLIYK---GKV---L-EDDRTLADYNIQDGS 64 (64)
T ss_pred CcHHHHHHHHHHHHCCCHHHEEEEEC---CEE---C-CCCCCHHHcCCcCCC
Confidence 48999999999999999999999873 654 4 456899999999874
No 39
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.07 E-value=2.2e-06 Score=69.49 Aligned_cols=51 Identities=22% Similarity=0.343 Sum_probs=45.8
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
.||..+|+||+..+||||++|||++ .|+.+ +|.++|++|+|+.-++||++=
T Consensus 21 ~ti~~~Kakiq~~egIp~dqqrlif---ag~qL----edgrtlSDY~Iqkestl~l~l 71 (156)
T KOG0004|consen 21 DTIDNVKAKIQDKEGIPPDQQRLIF---AGKQL----EDGRTLSDYNIQKESTLHLVL 71 (156)
T ss_pred ccHHHHHHhhhcccCCCchhhhhhh---hhccc----ccCCccccccccccceEEEEE
Confidence 4899999999999999999999998 47663 566999999999999999985
No 40
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=98.06 E-value=2e-06 Score=62.64 Aligned_cols=50 Identities=16% Similarity=0.055 Sum_probs=43.1
Q ss_pred CCHHHHHHhcccccc--cCCCCeEEEEEcCCCCeeeecCCCCCcCCCCC--CCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCG--TSVNSMSLELYDDTNTKVAALTDNSRPLGFYS--PLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itG--i~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~--i~~g~~IhV~ 57 (208)
+||.+||+||+...+ .+|+.|||++ .|+. | .|+.+|++|. +.+|.+||++
T Consensus 24 ~TV~~lK~~i~~~~~~~~~~~~QrLIy---~GKi---L-kD~~tL~~~~~~~~~~~tiHLV 77 (79)
T cd01790 24 WTVGELKTHLSRVYPSKPLEQDQRLIY---SGKL---L-PDHLKLRDVLRKQDEYHMVHLV 77 (79)
T ss_pred ChHHHHHHHHHHhcCCCCChhHeEEEE---cCee---c-cchhhHHHHhhcccCCceEEEE
Confidence 599999999999885 4579999998 4876 4 5779999995 9999999987
No 41
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=97.89 E-value=7.3e-06 Score=63.36 Aligned_cols=54 Identities=24% Similarity=0.278 Sum_probs=46.0
Q ss_pred CCHHHHHHhcc-----cccccC--CCCeEEEEEcCCCCeeeecCCCCCcCCCCC------CCCCcEEEEecCCC
Q 028484 1 MSVESVKDKLW-----RKCGTS--VNSMSLELYDDTNTKVAALTDNSRPLGFYS------PLQGYRLHVIDLDP 61 (208)
Q Consensus 1 ~TI~~LK~KLe-----~itGi~--p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~------i~~g~~IhV~D~~p 61 (208)
.||++||+||+ ..+|+| +++|+|++ .|+. | +|+++|++|+ +....++||+=-.|
T Consensus 26 dTV~~lKekI~~~~p~~ke~~P~~~~~qKLIy---sGKi---L-eD~~TL~d~~~p~g~~~~~~~TmHvvlr~~ 92 (113)
T cd01814 26 TTVDFLKERVVSQWPKDKEVGPKTVNEVKLIS---AGKI---L-ENSKTVGECRSPVGDIAGGVITMHVVVQPP 92 (113)
T ss_pred hHHHHHHHHHHHhcccccccCCCCHHHeEEEe---CCee---c-CCCCcHHHhCCcccccCCCceEEEEEecCC
Confidence 48999999999 778888 99999998 5876 3 6889999999 88889999996543
No 42
>PLN02560 enoyl-CoA reductase
Probab=97.89 E-value=1.5e-05 Score=71.61 Aligned_cols=63 Identities=19% Similarity=0.204 Sum_probs=51.5
Q ss_pred CCHHHHHHhccccccc-CCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCCC
Q 028484 1 MSVESVKDKLWRKCGT-SVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSS 63 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi-~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~s 63 (208)
.||++||.+|+...|+ +|+.|+|.+.+.+|+......+|+++|.+|++++|++|+|-|+-|+-
T Consensus 24 aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~kDLGpQi 87 (308)
T PLN02560 24 ATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVFKDLGPQV 87 (308)
T ss_pred CcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEEEeCCCcC
Confidence 4899999999999997 89999999975555422222357779999999999999999998853
No 43
>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=97.88 E-value=1.4e-05 Score=58.78 Aligned_cols=50 Identities=12% Similarity=0.251 Sum_probs=45.0
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||..||+++....|+|+++|+|.+ +|+.+ ++..++.+|++++|.+|||+
T Consensus 32 ~~l~~l~~~y~~~~gi~~~~~rf~f---~G~~L----~~~~T~~~l~m~d~d~I~v~ 81 (87)
T cd01763 32 TPLKKLMEAYCQRQGLSMNSVRFLF---DGQRI----RDNQTPDDLGMEDGDEIEVM 81 (87)
T ss_pred CHHHHHHHHHHHHhCCCccceEEEE---CCeEC----CCCCCHHHcCCCCCCEEEEE
Confidence 3789999999999999999999998 58763 56789999999999999997
No 44
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=97.85 E-value=1.7e-06 Score=66.26 Aligned_cols=51 Identities=22% Similarity=0.305 Sum_probs=45.9
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
.||..||+++...+|+||+.|+|++. |+. .+|..+|++|+++..++||.+=
T Consensus 21 ~ti~~vKA~i~~~~Gi~~~~~~L~~~---~k~----LED~~Tla~Y~i~~~~Tl~~~~ 71 (128)
T KOG0003|consen 21 DTIDNVKAKIQDKEGIPPDQQRLIFA---GKQ----LEDGRTLADYNIQKESTLHLVL 71 (128)
T ss_pred chHHHHHHHhccccCCCHHHHHHHhc---ccc----cccCCcccccCccchhhhhhhH
Confidence 48999999999999999999999984 665 2899999999999999999874
No 45
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=97.50 E-value=0.00014 Score=52.00 Aligned_cols=54 Identities=24% Similarity=0.228 Sum_probs=43.9
Q ss_pred CCHHHHHHhccccccc-CCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecC
Q 028484 1 MSVESVKDKLWRKCGT-SVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDL 59 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi-~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~ 59 (208)
.||.+||..|+...+. +++.|+|.+. ..|.. | .|+.+|.+|++++|.+|+|-|+
T Consensus 23 aTV~dlk~~i~~~~~~~~~~Rqrl~~~-~~g~~---L-~d~~tL~~~gv~~g~~lyvKDL 77 (77)
T cd01801 23 ATIADLKKLIAKSSPQLTVNRQSLRLE-PKGKS---L-KDDDTLVDLGVGAGATLYVRDL 77 (77)
T ss_pred ccHHHHHHHHHHHcCCCCcceeEEEeC-CCCcc---c-CCcccHhhcCCCCCCEEEEeeC
Confidence 4899999999998875 7899999864 34554 3 3556799999999999999884
No 46
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.40 E-value=0.00012 Score=67.42 Aligned_cols=54 Identities=19% Similarity=0.212 Sum_probs=46.9
Q ss_pred CCHHHHHHhcccccc---cCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCC
Q 028484 1 MSVESVKDKLWRKCG---TSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDP 61 (208)
Q Consensus 1 ~TI~~LK~KLe~itG---i~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p 61 (208)
.||.+||.||+..+| +|++.|+|++ .|+. | .|+++|.+|+|+++..|+|.=..+
T Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~QkLIy---~Gki---L-~Dd~tL~dy~I~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 21 ETVKELKEKIEAEQGKDAYPVAQQKLIY---SGKI---L-SDDKTVREYKIKEKDFVVVMVSKP 77 (378)
T ss_pred ChHHHHHHHHHHhhCCCCCChhHeEEEE---CCEE---C-CCCCcHHHcCCCCCCEEEEEeccC
Confidence 589999999999999 9999999997 4775 4 567899999999999998886654
No 47
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.11 E-value=0.00032 Score=66.10 Aligned_cols=54 Identities=17% Similarity=0.255 Sum_probs=47.8
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDP 61 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p 61 (208)
.||.+||++|-.+++++++.++|++ .|+.+ -|..+|..|+|+||.+||+|=..+
T Consensus 35 ssV~qlKE~I~~~f~a~~dqlvLIf---aGrIL----KD~dTL~~~gI~Dg~TvHLVik~~ 88 (493)
T KOG0010|consen 35 SSVLQLKELIAQRFGAPPDQLVLIY---AGRIL----KDDDTLKQYGIQDGHTVHLVIKSQ 88 (493)
T ss_pred hHHHHHHHHHHHhcCCChhHeeeee---cCccc----cChhhHHHcCCCCCcEEEEEeccC
Confidence 3799999999999999999999999 48763 388899999999999999997654
No 48
>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=97.10 E-value=0.00036 Score=48.71 Aligned_cols=50 Identities=20% Similarity=0.237 Sum_probs=42.9
Q ss_pred CCHHHHHHhcccccccCC-CCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSV-NSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p-~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.|++.|.+++....|+|+ +.++|.+ +|+.+ +.+.++.+|++++|..|+|+
T Consensus 21 ~~~~~l~~~~~~~~~i~~~~~~~l~f---dG~~L----~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 21 TTVSKLIEKYCEKKGIPPEESIRLIF---DGKRL----DPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp SCCHHHHHHHHHHHTTTT-TTEEEEE---TTEEE-----TTSCHHHHT-STTEEEEEE
T ss_pred CcHHHHHHHHHHhhCCCccceEEEEE---CCEEc----CCCCCHHHCCCCCCCEEEEE
Confidence 378899999999999999 9999998 68773 56689999999999999985
No 49
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=96.69 E-value=0.0011 Score=51.37 Aligned_cols=41 Identities=17% Similarity=0.093 Sum_probs=35.7
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSP 48 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i 48 (208)
.||-+||.+|+-|+-.||++|+|. . ++. +.+|+++|++|++
T Consensus 22 ~tVlelK~~iegI~k~pp~dQrL~-k--d~q----vLeD~kTL~d~g~ 62 (119)
T cd01788 22 TTVYELKRIVEGILKRPPEDQRLY-K--DDQ----LLDDGKTLGDCGF 62 (119)
T ss_pred ccHHHHHHHHHHHhcCChhHheee-c--Cce----eecccccHHHcCc
Confidence 378999999999999999999998 3 443 3489999999998
No 50
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=96.67 E-value=0.0027 Score=45.80 Aligned_cols=58 Identities=16% Similarity=0.263 Sum_probs=51.2
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCC
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPS 62 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~ 62 (208)
+|-.||+||..--|++- .|+|.|..+.|+.. +..+..+|++|+|=.-..|-|.+|.|+
T Consensus 22 pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rq--lL~s~~sLA~yGiFs~~~i~lleT~p~ 79 (80)
T cd01811 22 PIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQ--LLSSRKSLADYGIFSKTNICLLETFPP 79 (80)
T ss_pred hHHHHHHHHHHhhCccc-ceEEEeecCCcccc--cccccccHhhhcceeccEEEEEecCCC
Confidence 68899999999999987 99999999888753 457889999999999999999999874
No 51
>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=96.64 E-value=0.0021 Score=40.59 Aligned_cols=51 Identities=24% Similarity=0.256 Sum_probs=41.4
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
+|+.+||.+|...+|++|+.|.|.+. +.. ..+...+.+|.+.++.+|++..
T Consensus 18 ~tv~~l~~~i~~~~~~~~~~~~l~~~---~~~----~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 18 TTVADLKEKLAKKLGLPPEQQRLLVN---GKI----LPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred CcHHHHHHHHHHHHCcChHHeEEEEC---CeE----CCCCCcHHHcCCCCCCEEEEEe
Confidence 58999999999999999999999873 433 1344455789999999999875
No 52
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=96.46 E-value=0.0037 Score=41.84 Aligned_cols=50 Identities=30% Similarity=0.426 Sum_probs=42.1
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEec
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVID 58 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D 58 (208)
+|..+|.||+...|+++..|+|... ++. + .|+.+|++|+|..+.++|+.-
T Consensus 21 ~i~~~k~~i~~~~~~~~~~q~~~~~---~~~---l-~d~~~l~~~~i~~~~~~~l~~ 70 (75)
T KOG0001|consen 21 TIEVVKAKIRDKEGIPVDQQRLIFG---GKP---L-EDGRTLADYNIQEGSTLHLVL 70 (75)
T ss_pred HHHHHHHHHHhhcCCCCeeEEEEEC---CEE---C-cCCCcHHHhCCCCCCEEEEEE
Confidence 6788999999999999999997762 433 3 466999999999999999874
No 53
>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=95.96 E-value=0.0026 Score=46.32 Aligned_cols=55 Identities=16% Similarity=0.183 Sum_probs=30.6
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.|+++|++||...+++|+..+.|.........+ ..++.++|++++++.|.-|.+.
T Consensus 24 ~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l--~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 24 STLSDLKEKISEQLSIPDSSQSLSKDRNNKEEL--KSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp SBHHHHHHHHHHHS---TTT---BSSGGGGGCS--SS-TT-CCCCT---TT-EEE--
T ss_pred ccHHHHHHHHHHHcCCCCcceEEEecCCCCccc--ccCCcCCHHHcCCCCccEEEEe
Confidence 489999999999999999998886532222222 1356899999999999988763
No 54
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=95.76 E-value=0.0084 Score=61.03 Aligned_cols=53 Identities=15% Similarity=0.342 Sum_probs=48.0
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDP 61 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p 61 (208)
+||.+||..|-..+-|+...|||++ .|..+ .|++++..|++ ||-+|||+|--|
T Consensus 23 ~ti~~~~d~~r~~~ni~s~~qr~i~---~grvl----~~~k~vq~~~v-dgk~~hlverpp 75 (1143)
T KOG4248|consen 23 MTIKEFKDHIRASVNIPSEKQRLIY---QGRVL----QDDKKVQEYNV-DGKVIHLVERPP 75 (1143)
T ss_pred HHHHHHHHHHHHhcccccccceeee---cceee----ccchhhhhccC-CCeEEEeeccCC
Confidence 6899999999999999999999998 47763 78899999999 999999999754
No 55
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.70 E-value=0.012 Score=53.40 Aligned_cols=56 Identities=21% Similarity=0.229 Sum_probs=47.9
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCee-eecCCCCCcCCCCCCCCCcEEEEe
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKV-AALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~-~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
||-+++.+|++.+|+-+.-|+|.+.+.+|+.- ..-.+-+++|-+|+|++|..+.|.
T Consensus 359 TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 359 TVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred HHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 78999999999999999999999998888752 122366899999999999988774
No 56
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=94.98 E-value=0.02 Score=51.81 Aligned_cols=54 Identities=17% Similarity=0.142 Sum_probs=46.2
Q ss_pred CCHHHHHHhcccccc--cCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCC
Q 028484 1 MSVESVKDKLWRKCG--TSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDP 61 (208)
Q Consensus 1 ~TI~~LK~KLe~itG--i~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p 61 (208)
.||.+||.||+...| .|++.|+|+. +|+.+ .|+++++.|++.+..-|.|.=+.+
T Consensus 21 ~tV~evK~kIet~~g~dyP~~~QkLIy---~GkiL----~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 21 DTVVEVKKKIETEKGPDYPAEQQKLIY---SGKIL----KDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred hhHHHHHHHHHhccCCCCchhhheeee---cceec----cCCcchhhhccccCceEEEEEecC
Confidence 389999999999999 9999999997 58762 799999999999998777765444
No 57
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.054 Score=51.12 Aligned_cols=52 Identities=10% Similarity=0.092 Sum_probs=43.9
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCC
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLD 60 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~ 60 (208)
|..-||++|+..||++|..|++.+. |.. ..|+..++..++++|++||+.=+.
T Consensus 25 t~~vlKaqlf~LTgV~PeRQKv~vK---Gg~----a~dd~~~~al~iKpn~~lmMmGt~ 76 (473)
T KOG1872|consen 25 TPSVLKAQLFALTGVPPERQKVMVK---GGL----AKDDVDWGALQIKPNETLMMMGTA 76 (473)
T ss_pred chHHHHHHHHHhcCCCccceeEEEe---ccc----ccccccccccccCCCCEEEeeccc
Confidence 6788999999999999999998886 443 245557889999999999998765
No 58
>PTZ00243 ABC transporter; Provisional
Probab=93.89 E-value=0.069 Score=57.37 Aligned_cols=59 Identities=24% Similarity=0.410 Sum_probs=47.3
Q ss_pred cCCCCcCCEEEEc-CCCceeEEEEecccCCC-CCCcEEEEEEeCCC--------------CCCCcEECCEEeeec
Q 028484 121 CSNITVGDRCEVD-PGAKRGVVKYVGQAESI-APGFWVGIQYDEPL--------------GKHNGIVKGVRYFEC 179 (208)
Q Consensus 121 ~~~~~vG~rv~v~-~~~~~G~vryvG~~~~~-~~g~wvGVelde~~--------------GkndGs~~G~rYF~c 179 (208)
+=+-.||.||-+. ...-+|++||||.+.-. .++.++||||.-|- +-|+|.+.|.+.|..
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (1560)
T PTZ00243 122 AWNCMVGAEVVSTLDASSRGVLRWVGVPQQGGYTRMMAGVEWSVPPALRTAARSDDSGASPFFNGVAHGEHLFTP 196 (1560)
T ss_pred ccccccccEEEeeccccccceEEeecccccCCCcceeeeeeeccCchhhhcccCCCCCCccccccccccccccCc
Confidence 3456899999886 23679999999999653 37799999999651 139999999999987
No 59
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=93.29 E-value=0.031 Score=42.30 Aligned_cols=41 Identities=29% Similarity=0.273 Sum_probs=34.7
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCC
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYS 47 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~ 47 (208)
||-+||.||+-|+--|++.|+|...+.+ . +.+|.++|++-|
T Consensus 23 tV~elK~~l~gi~~~Pvn~qrL~kmd~e--q---lL~D~ktL~d~g 63 (110)
T KOG4495|consen 23 TVFELKRKLEGILKRPVNEQRLYKMDTE--Q---LLDDGKTLGDCG 63 (110)
T ss_pred cHHHHHHHHHHHHhCCCcchheeecCHH--H---Hhhccchhhhcc
Confidence 7899999999999999999999986432 2 458899999884
No 60
>PRK10708 hypothetical protein; Provisional
Probab=93.22 E-value=0.45 Score=32.62 Aligned_cols=57 Identities=26% Similarity=0.375 Sum_probs=43.7
Q ss_pred CCcCCEEEEc-CC--CceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeec-CCCceeeecCC
Q 028484 124 ITVGDRCEVD-PG--AKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFEC-PPLHGAMVRPD 190 (208)
Q Consensus 124 ~~vG~rv~v~-~~--~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c-~~~~G~Fv~~~ 190 (208)
++|++||.|. .| .|.|+|.-+- +| ..|++.=|.|++= -.|+.||.- ...-|+||.|.
T Consensus 1 MkvnD~VtVKTDG~~rR~G~iLavE--~F-~EG~MyLvaL~dY-------P~GiWFFNE~~~~~G~FVep~ 61 (62)
T PRK10708 1 MKVNDRVTVKTDGGPRRPGVVLAVE--EF-SEGTMYLVSLEDY-------PLGIWFFNEAGHQDGIFVEKA 61 (62)
T ss_pred CccccEEEEecCCCccccceEEEEe--ec-cCcEEEEEEcCcC-------CCceEEEeccCCCCceEeccc
Confidence 4789999995 23 5679999884 34 7899999999862 136778877 68889999874
No 61
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=93.20 E-value=0.42 Score=32.75 Aligned_cols=57 Identities=25% Similarity=0.422 Sum_probs=43.6
Q ss_pred CCcCCEEEEc-CC--CceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcEECCEEeeec-CCCceeeecCC
Q 028484 124 ITVGDRCEVD-PG--AKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGIVKGVRYFEC-PPLHGAMVRPD 190 (208)
Q Consensus 124 ~~vG~rv~v~-~~--~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs~~G~rYF~c-~~~~G~Fv~~~ 190 (208)
++|.+||.|. .| .|.|+|.-+- +| ..|++.=|.|++= -.|+.||.- ...-|+||.|.
T Consensus 1 MkvnD~VtVKTDG~~rR~G~ilavE--~F-~EG~MYLvaL~dY-------P~GiWFFNE~~~~dG~FVep~ 61 (62)
T PF10781_consen 1 MKVNDRVTVKTDGGPRREGVILAVE--PF-NEGTMYLVALEDY-------PAGIWFFNEKDSPDGTFVEPR 61 (62)
T ss_pred CccccEEEEecCCcccccceEEEEe--ec-cCcEEEEEEcCcC-------CcceEEEecCCCCCcEEeeec
Confidence 4789999995 23 4679999884 34 7899999999862 136778877 78899999875
No 62
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=92.50 E-value=0.2 Score=38.61 Aligned_cols=52 Identities=17% Similarity=0.331 Sum_probs=36.5
Q ss_pred CCHHHHHHhccc-------ccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCc------EEEEecC
Q 028484 1 MSVESVKDKLWR-------KCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGY------RLHVIDL 59 (208)
Q Consensus 1 ~TI~~LK~KLe~-------itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~------~IhV~D~ 59 (208)
+||.+||++|.. ..-..++++||++ .|+. | +|+.+|+++.+..|. ++||+=.
T Consensus 24 ~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~---~Gri---L-~d~~tL~~~~~~~~~~~~~~~vmHlvvr 88 (111)
T PF13881_consen 24 TTVADLKERIWAEWPEDWEERPKSPSDLRLIY---AGRI---L-EDNKTLSDCRLPSGETPGGPTVMHLVVR 88 (111)
T ss_dssp SBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEE---TTEE---E--SSSBTGGGT--TTSETT--EEEEEEE-
T ss_pred ChHHHHHHHHHHHCccccccCCCChhhEEEEe---CCee---c-CCcCcHHHhCCCCCCCCCCCEEEEEEec
Confidence 589999999962 2355778899998 5875 3 699999999776654 6888854
No 63
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=87.24 E-value=0.094 Score=36.97 Aligned_cols=49 Identities=18% Similarity=0.247 Sum_probs=39.2
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEE
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHV 56 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV 56 (208)
.||+++|.-|...||+-|.-..|. ....+..|.-+|.+|-+.+||.+.+
T Consensus 22 DtiGD~KKliaaQtGT~~~kivl~-------k~~~i~kd~I~L~dyeihdg~~lel 70 (73)
T KOG3493|consen 22 DTIGDLKKLIAAQTGTRPEKIVLK-------KWYTIFKDHITLSDYEIHDGMNLEL 70 (73)
T ss_pred ccccCHHHHHHHhhCCChhHhHHH-------hhhhhhhcccceeeEEeccCccEEE
Confidence 489999999999999999655543 2233568899999999999997654
No 64
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=85.23 E-value=1.4 Score=32.31 Aligned_cols=55 Identities=22% Similarity=0.248 Sum_probs=32.7
Q ss_pred CCHHHHHHhc-ccccccCCCCeEEEEEcCCCCeeee------cCCCCCcCCCCCCCCCcEEEEecCC
Q 028484 1 MSVESVKDKL-WRKCGTSVNSMSLELYDDTNTKVAA------LTDNSRPLGFYSPLQGYRLHVIDLD 60 (208)
Q Consensus 1 ~TI~~LK~KL-e~itGi~p~~m~L~l~~~~g~~~~~------l~dd~~~L~~y~i~~g~~IhV~D~~ 60 (208)
+|+.+|-.++ ....|...-.+.+ ++..+.. -....++|+++++.+|+.|.|.|-+
T Consensus 9 ~TL~~lv~~Vlk~~Lg~~~P~v~~-----~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~D~~ 70 (87)
T PF14732_consen 9 MTLGDLVEKVLKKKLGMNEPDVSV-----GGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVDDFD 70 (87)
T ss_dssp -BHHHHHHHCCCCCS--SSEEEEE-----S-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEEETT
T ss_pred CcHHHHHHHHHHhccCCCCCEEEe-----CCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEEEcC
Confidence 5889999885 5577776644433 2222221 2345789999999999999999964
No 65
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=80.80 E-value=6.6 Score=29.17 Aligned_cols=58 Identities=9% Similarity=0.014 Sum_probs=41.2
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLD 60 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~ 60 (208)
.||+.+...+-..+.| +...||.-+...+. ...|.+...+|.+-++.+|..|.+.--|
T Consensus 24 DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~-~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 24 DTIGFVEKEMRKLFNI-QEETRLWNKYSENS-YELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp SBHHHHHHHHHHHCT--TS-EEEEEECTTTC-EEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred ChHHHHHHHHHHHhCC-CccceehhccCCcc-hhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 4899999999999999 88899998765443 3457788999999999999988776544
No 66
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=79.41 E-value=8.8 Score=25.79 Aligned_cols=46 Identities=28% Similarity=0.476 Sum_probs=35.0
Q ss_pred CCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEeCCCCCCCcE
Q 028484 124 ITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYDEPLGKHNGI 170 (208)
Q Consensus 124 ~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVelde~~GkndGs 170 (208)
+++||.|++.+|+-+=||.++|+..+ ..+.|+=-.|-+..|...++
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~~~~~-~~~~~v~C~WFd~~~~~~~~ 46 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVGPNAG-ASGGWVECQWFDGHGEQRET 46 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEcccccc-CCCCeEEEEeCCCCCccccc
Confidence 57899999988889999999999866 67777766666654444333
No 67
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=78.44 E-value=0.91 Score=32.34 Aligned_cols=51 Identities=18% Similarity=0.087 Sum_probs=27.5
Q ss_pred CHHHHHHhcccccccCCCCe----EEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEE
Q 028484 2 SVESVKDKLWRKCGTSVNSM----SLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHV 56 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m----~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV 56 (208)
|+.+|..-|-...+.+.... ...|....|.. | +++.+|.++++.||..+++
T Consensus 24 pv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~---L-~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 24 PVAELIPELVELLGLPGDDPPGHGQWVLARAGGRP---L-DPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp BTTHHHHHHHHHS---S---TT-E-EEEG-GGTEE---E-ETTSBCGGGT--TT-EEEE
T ss_pred cHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcc---c-CCcCcHhHcCCCCCCEEEe
Confidence 45666666666666533222 35554344543 2 6889999999999999886
No 68
>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=77.18 E-value=2.7 Score=29.53 Aligned_cols=34 Identities=24% Similarity=0.425 Sum_probs=29.8
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeee
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVA 34 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~ 34 (208)
+|..+|+.+|...++.+....+|.+.+.+|..+.
T Consensus 21 ~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~ 54 (81)
T smart00666 21 ISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVS 54 (81)
T ss_pred CCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEE
Confidence 4789999999999999988999999988887653
No 69
>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=74.56 E-value=1.5 Score=31.98 Aligned_cols=32 Identities=13% Similarity=0.212 Sum_probs=27.2
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCe
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTK 32 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~ 32 (208)
++..+|.+||-...++|++.++|++.+.++..
T Consensus 21 ~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~ 52 (80)
T cd06406 21 LSYATLLQKISSKLELPAEHITLSYKSEASGE 52 (80)
T ss_pred CCHHHHHHHHHHHhCCCchhcEEEeccCCCCC
Confidence 36789999999999999999999998765433
No 70
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=67.98 E-value=4.9 Score=35.57 Aligned_cols=58 Identities=16% Similarity=0.172 Sum_probs=42.2
Q ss_pred CHHHHH-HhcccccccCCCCeEEEEEcC-CCCeeeecCCCCCcCCCCCCCCCcEEEEecCCCCC
Q 028484 2 SVESVK-DKLWRKCGTSVNSMSLELYDD-TNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSS 63 (208)
Q Consensus 2 TI~~LK-~KLe~itGi~p~~m~L~l~~~-~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p~s 63 (208)
||.+|+ ..+..-.-+.|.-+++.|.-. .|+.+ -++.+|.+|+..+|.+|-|-|+.|+-
T Consensus 24 ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl----~~~s~l~e~~~~s~~~i~vKDLGpQI 83 (297)
T KOG1639|consen 24 TIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPL----IDNSKLQEYGDGSGATIYVKDLGPQI 83 (297)
T ss_pred cHHHHHHHHHHhhhccCccchhheeeccCCCccc----cchhHHHHhccCCCCEEEEeccCCcc
Confidence 677777 445555677787777777543 45553 24455999999999999999999854
No 71
>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=67.34 E-value=3.8 Score=28.74 Aligned_cols=33 Identities=21% Similarity=0.345 Sum_probs=29.7
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeee
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVA 34 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~ 34 (208)
|..+|+.+|....|.++...+|.+.|.+|..+.
T Consensus 23 s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~ 55 (84)
T PF00564_consen 23 SFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVT 55 (84)
T ss_dssp HHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEE
T ss_pred CHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEE
Confidence 678999999999999999999999999887654
No 72
>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=63.62 E-value=9.4 Score=28.31 Aligned_cols=34 Identities=18% Similarity=0.302 Sum_probs=28.9
Q ss_pred CCHHHHHHhcccccccCC-CCeEEEEEcCCCCeee
Q 028484 1 MSVESVKDKLWRKCGTSV-NSMSLELYDDTNTKVA 34 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p-~~m~L~l~~~~g~~~~ 34 (208)
++..+|++||.....+++ ....|.+.|.+|..+.
T Consensus 25 ~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~ 59 (91)
T cd06398 25 LNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVT 59 (91)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEE
Confidence 467899999999999998 7788888888887754
No 73
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=60.74 E-value=9.9 Score=26.36 Aligned_cols=34 Identities=26% Similarity=0.379 Sum_probs=28.4
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeee
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVA 34 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~ 34 (208)
.|..+|+++|....+.+...-+|.+.|.+|..+.
T Consensus 21 ~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~ 54 (81)
T cd05992 21 ISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVT 54 (81)
T ss_pred CCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEE
Confidence 4789999999999999887778888888876643
No 74
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=57.94 E-value=18 Score=28.50 Aligned_cols=50 Identities=16% Similarity=0.187 Sum_probs=26.1
Q ss_pred HHHHhcccccccCC------CCeEEEEEcCC---CCeeeecCCC----------CCcCCCCCCCCCcEE
Q 028484 5 SVKDKLWRKCGTSV------NSMSLELYDDT---NTKVAALTDN----------SRPLGFYSPLQGYRL 54 (208)
Q Consensus 5 ~LK~KLe~itGi~p------~~m~L~l~~~~---g~~~~~l~dd----------~~~L~~y~i~~g~~I 54 (208)
.++++|..-.|.+| .+|+|...... .+.++.+++| +++|.++|+++...|
T Consensus 35 ~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nETEi 103 (122)
T PF10209_consen 35 QVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENETEI 103 (122)
T ss_pred HHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcccee
Confidence 45566777778876 34555544322 2334444433 444555555555443
No 75
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction 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.
Probab=56.46 E-value=10 Score=27.78 Aligned_cols=33 Identities=15% Similarity=0.200 Sum_probs=28.3
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeee
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVA 34 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~ 34 (208)
|+..|++||+.+.-+|+...-|.+.|.+|..+.
T Consensus 21 t~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~IT 53 (82)
T cd06397 21 TWEALASKLENLYNLPEIKVGVTYIDNDNDEIT 53 (82)
T ss_pred cHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEE
Confidence 788999999999999998888888887776653
No 76
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=55.67 E-value=23 Score=29.23 Aligned_cols=44 Identities=23% Similarity=0.304 Sum_probs=29.3
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYS 47 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~ 47 (208)
.||++|+.+|...+++++..+ +.|+...+..+. ..++..+..+.
T Consensus 25 ttv~dL~~~l~~~~~~~~~~~-~~L~~~~n~~l~--~~~~~~~s~l~ 68 (162)
T PF13019_consen 25 TTVSDLKDRLSERLPIPSSSQ-LYLTTNSNGQLS--PSSDIPLSSLL 68 (162)
T ss_pred CcHHHHHHHHHhhcCCCccce-eEEEEeCCCeeC--CCccccHHhhc
Confidence 389999999999999999887 555544444432 23444444443
No 77
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=54.29 E-value=13 Score=36.13 Aligned_cols=59 Identities=17% Similarity=0.317 Sum_probs=36.2
Q ss_pred CCHHHHHHhcc----ccccc----CCCCeEEEEEcCCCCeeeecCC-C-----------CCcCCCCCCCCCcEEEEecCC
Q 028484 1 MSVESVKDKLW----RKCGT----SVNSMSLELYDDTNTKVAALTD-N-----------SRPLGFYSPLQGYRLHVIDLD 60 (208)
Q Consensus 1 ~TI~~LK~KLe----~itGi----~p~~m~L~l~~~~g~~~~~l~d-d-----------~~~L~~y~i~~g~~IhV~D~~ 60 (208)
.||.|+|+||= .-++. .+.+|.|+.+.+.+..+. |.| | -.||+.|++.+|++|-++-..
T Consensus 212 DTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~i-L~D~D~ts~~~~~wkrLNTL~HY~V~dga~vaLv~k~ 290 (539)
T PF08337_consen 212 DTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLI-LQDEDSTSKVEGGWKRLNTLAHYKVPDGATVALVPKQ 290 (539)
T ss_dssp SBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEE-ESSSSTTSEEETTEEE--BHHHHT--TTEEEEEEES-
T ss_pred CcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCccc-ccCCCCCcccCCCceEeccHhhcCCCCCceEEEeecc
Confidence 48999999973 33333 247788888765443321 222 2 138899999999999999853
No 78
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=53.02 E-value=14 Score=26.89 Aligned_cols=27 Identities=22% Similarity=0.359 Sum_probs=21.7
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEecc
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYVGQ 146 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryvG~ 146 (208)
+...+|++|++|.-. ++.+|+|.-++.
T Consensus 33 ~m~~~L~~Gd~VvT~-gGi~G~V~~i~d 59 (84)
T TIGR00739 33 KLIESLKKGDKVLTI-GGIIGTVTKIAE 59 (84)
T ss_pred HHHHhCCCCCEEEEC-CCeEEEEEEEeC
Confidence 345579999999876 799999998753
No 79
>COG3462 Predicted membrane protein [Function unknown]
Probab=52.34 E-value=5.4 Score=30.90 Aligned_cols=17 Identities=47% Similarity=0.524 Sum_probs=15.1
Q ss_pred eeecCHHHHhcchhhHH
Q 028484 78 KYTISEEEYSKRDGTFR 94 (208)
Q Consensus 78 k~~ls~e~Y~~r~dtv~ 94 (208)
|=++|||||.++-+|++
T Consensus 100 kGEItEEEY~r~~~~ir 116 (117)
T COG3462 100 KGEITEEEYRRIIRTIR 116 (117)
T ss_pred cCCCCHHHHHHHHHHhc
Confidence 56999999999999876
No 80
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=48.43 E-value=14 Score=33.90 Aligned_cols=53 Identities=15% Similarity=0.241 Sum_probs=35.5
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEecCCC
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDP 61 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~D~~p 61 (208)
+|.+||+-+...+|+||.+.+++|- |+.+ .++.++..--+.--+.+|++=.+|
T Consensus 25 ~I~~lke~Vak~~gvp~D~L~viFa---GKeL----s~~ttv~~cDL~qqs~~hi~~lRP 77 (446)
T KOG0006|consen 25 SIFQLKEVVAKRQGVPADQLRVIFA---GKEL----SNDTTVQNCDLSQQSATHIMLLRP 77 (446)
T ss_pred CHHHHHHHHHHhhCCChhheEEEEe---cccc----ccCceeecccccccchhhhhccCc
Confidence 5899999999999999999999994 7663 233333322222223456665555
No 81
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=46.83 E-value=19 Score=27.75 Aligned_cols=35 Identities=17% Similarity=0.249 Sum_probs=26.5
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEecccCCCCCCcEEEEEEe
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYVGQAESIAPGFWVGIQYD 161 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryvG~~~~~~~g~wvGVeld 161 (208)
+...+|++|++|.-. |+.+|+|.-++. .++-||+.
T Consensus 34 ~m~~~Lk~GD~VvT~-gGi~G~V~~I~d-------~~v~leia 68 (109)
T PRK05886 34 DLHESLQPGDRVHTT-SGLQATIVGITD-------DTVDLEIA 68 (109)
T ss_pred HHHHhcCCCCEEEEC-CCeEEEEEEEeC-------CEEEEEEC
Confidence 445679999999776 799999998752 35667764
No 82
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=45.90 E-value=20 Score=27.79 Aligned_cols=27 Identities=26% Similarity=0.279 Sum_probs=21.7
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEecc
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYVGQ 146 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryvG~ 146 (208)
+...+|++|++|.-. |+.+|+|.-++.
T Consensus 32 em~~sLk~GD~VvT~-GGi~G~V~~I~~ 58 (113)
T PRK06531 32 NQLNAIQKGDEVVTI-GGLYGTVDEVDT 58 (113)
T ss_pred HHHHhcCCCCEEEEC-CCcEEEEEEEec
Confidence 345679999999766 799999988853
No 83
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=45.10 E-value=21 Score=27.17 Aligned_cols=27 Identities=26% Similarity=0.409 Sum_probs=21.8
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEecc
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYVGQ 146 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryvG~ 146 (208)
+...+|++|++|.-. ++.+|+|.-+..
T Consensus 48 ~~~~~Lk~Gd~VvT~-gGi~G~Vv~i~~ 74 (106)
T PRK05585 48 KMLSSLAKGDEVVTN-GGIIGKVTKVSE 74 (106)
T ss_pred HHHHhcCCCCEEEEC-CCeEEEEEEEeC
Confidence 445679999999876 799999988743
No 84
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.08 E-value=28 Score=30.06 Aligned_cols=53 Identities=23% Similarity=0.212 Sum_probs=43.4
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCC--cEEEEecCCC
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQG--YRLHVIDLDP 61 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g--~~IhV~D~~p 61 (208)
|+.++|.+|+...|+.|.+|++.+ ++..+ -+.+.|....++.| ..|.|+=+.+
T Consensus 168 tv~eik~~L~Aaeg~D~~sQrif~---Sg~~l----~dkt~LeEc~iekg~rYvlqviVlq~ 222 (231)
T KOG0013|consen 168 TVGEIKRALRAAEGVDPLSQRIFF---SGGVL----VDKTDLEECKIEKGQRYVLQVIVLQE 222 (231)
T ss_pred cHHHHHHHHHHhhccchhhheeec---cCCce----eccccceeeeecCCCEEEEEEEeccC
Confidence 789999999999999999999887 46553 46678888999999 7777776553
No 85
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=42.38 E-value=30 Score=18.91 Aligned_cols=17 Identities=35% Similarity=0.528 Sum_probs=12.1
Q ss_pred CCcCCEEEEcCCCceeE
Q 028484 124 ITVGDRCEVDPGAKRGV 140 (208)
Q Consensus 124 ~~vG~rv~v~~~~~~G~ 140 (208)
+.+|++|.|..|...|.
T Consensus 2 ~~~G~~V~I~~G~~~g~ 18 (28)
T smart00739 2 FEVGDTVRVIAGPFKGK 18 (28)
T ss_pred CCCCCEEEEeECCCCCc
Confidence 67899999975544443
No 86
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=41.63 E-value=12 Score=22.16 Aligned_cols=15 Identities=40% Similarity=0.660 Sum_probs=12.1
Q ss_pred ecCHHHHhcchhhHH
Q 028484 80 TISEEEYSKRDGTFR 94 (208)
Q Consensus 80 ~ls~e~Y~~r~dtv~ 94 (208)
.||+|+|+++..-++
T Consensus 16 ~IseeEy~~~k~~ll 30 (31)
T PF09851_consen 16 EISEEEYEQKKARLL 30 (31)
T ss_pred CCCHHHHHHHHHHHh
Confidence 689999999876554
No 87
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=39.77 E-value=42 Score=24.28 Aligned_cols=33 Identities=15% Similarity=0.255 Sum_probs=28.1
Q ss_pred CCHHHHHHhcccccccCC-CCeEEEEEcCCCCee
Q 028484 1 MSVESVKDKLWRKCGTSV-NSMSLELYDDTNTKV 33 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p-~~m~L~l~~~~g~~~ 33 (208)
+++.+|+++|....++.. +...|.+.|.+|..+
T Consensus 20 ~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v 53 (82)
T cd06407 20 WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWV 53 (82)
T ss_pred CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeE
Confidence 478899999999999986 788999888887664
No 88
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=39.23 E-value=95 Score=21.90 Aligned_cols=42 Identities=29% Similarity=0.544 Sum_probs=27.5
Q ss_pred cCCCCcCCEEEEc---CC-----CceeEEEEecccCCCCCCcEEEEEEeCC
Q 028484 121 CSNITVGDRCEVD---PG-----AKRGVVKYVGQAESIAPGFWVGIQYDEP 163 (208)
Q Consensus 121 ~~~~~vG~rv~v~---~~-----~~~G~vryvG~~~~~~~g~wvGVelde~ 163 (208)
...+.+|++|.+. ++ ...|.|+|+-+... ....++||++.+.
T Consensus 34 ~~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~~~-~~~~~~Gv~F~~~ 83 (96)
T TIGR02266 34 RKPLAVGTRVELKLTLPGGERPVELKGVVAWVRPAAD-GGPPGMGVRFEDL 83 (96)
T ss_pred CCCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCCCC-CCCCeeEEEeccC
Confidence 3457889988884 32 24788888854322 1236899998764
No 89
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=36.87 E-value=91 Score=21.62 Aligned_cols=53 Identities=17% Similarity=0.036 Sum_probs=35.2
Q ss_pred CHHHHHHhcccccccCCCC-eEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 2 SVESVKDKLWRKCGTSVNS-MSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~-m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
||.+|.+=|......+... -.|.- .--+......+ +++|.+.++-+...|+|.
T Consensus 28 tl~~l~~~v~~~~~~~~~~~f~L~~--~~Pr~~l~~~~-~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 28 TLQDLYDFVESQLFSPEESDFELIT--AFPRRELTDED-SKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp BHHHHHHHHHHHHHCTTTSSEEEEE--SSSTEECCSTT-TSBTCCCTTSSCEEEEEE
T ss_pred hHHHHHHHHHHhcCCCCCccEEEEe--CCCCcCCCccc-cccHHHhcCCCCeEEEEE
Confidence 6778888887777777754 44432 22233222222 699999999999999884
No 90
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=36.61 E-value=23 Score=23.99 Aligned_cols=46 Identities=20% Similarity=0.340 Sum_probs=21.7
Q ss_pred CCCcCCEEEEc-CCCceeEEEEecccCCC-CCCcEEEEEEeCCCCCCCcEE
Q 028484 123 NITVGDRCEVD-PGAKRGVVKYVGQAESI-APGFWVGIQYDEPLGKHNGIV 171 (208)
Q Consensus 123 ~~~vG~rv~v~-~~~~~G~vryvG~~~~~-~~g~wvGVelde~~GkndGs~ 171 (208)
.+..|+||++. +.++.=||.-. ++. -.-.+=.|.-|+-.|+.+||+
T Consensus 5 pf~~GdrVQlTD~Kgr~~Ti~L~---~G~~fhThrG~i~HDdlIG~~eGsV 52 (54)
T PF14801_consen 5 PFRAGDRVQLTDPKGRKHTITLE---PGGEFHTHRGAIRHDDLIGRPEGSV 52 (54)
T ss_dssp S--TT-EEEEEETT--EEEEE-----TT-EEEETTEEEEHHHHTT--TTEE
T ss_pred CCCCCCEEEEccCCCCeeeEEEC---CCCeEEcCccccchhheecCCCcEE
Confidence 58899999996 44555555433 110 011334567777778888875
No 91
>COG5417 Uncharacterized small protein [Function unknown]
Probab=35.42 E-value=28 Score=25.27 Aligned_cols=39 Identities=21% Similarity=0.324 Sum_probs=26.7
Q ss_pred CCCeEEEEEcCCCCeee-----ecCCCCCcCCCCCCCCCcEEEE
Q 028484 18 VNSMSLELYDDTNTKVA-----ALTDNSRPLGFYSPLQGYRLHV 56 (208)
Q Consensus 18 p~~m~L~l~~~~g~~~~-----~l~dd~~~L~~y~i~~g~~IhV 56 (208)
.+.++++..+-.|..+. .+..++..|.+|++.+|.++.+
T Consensus 37 we~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 37 WESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred HHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 34566666666666543 2345667899999999988765
No 92
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=35.05 E-value=12 Score=27.08 Aligned_cols=25 Identities=20% Similarity=0.335 Sum_probs=2.0
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEe
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYV 144 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryv 144 (208)
+...++++||+|... ++.+|+|.-+
T Consensus 32 ~m~~~Lk~Gd~VvT~-gGi~G~V~~i 56 (82)
T PF02699_consen 32 EMLASLKPGDEVVTI-GGIYGTVVEI 56 (82)
T ss_dssp TGGG----------------------
T ss_pred HHHHcCCCCCEEEEC-CcEEEEEEEE
Confidence 445679999999876 6899998877
No 93
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=34.38 E-value=47 Score=24.18 Aligned_cols=23 Identities=26% Similarity=0.479 Sum_probs=18.0
Q ss_pred CCCCcCCEEEEcCC---CceeEEEEe
Q 028484 122 SNITVGDRCEVDPG---AKRGVVKYV 144 (208)
Q Consensus 122 ~~~~vG~rv~v~~~---~~~G~vryv 144 (208)
..+..||+|.|..| +..|+|..|
T Consensus 7 ~~I~~GD~V~Vi~G~dKGK~G~V~~V 32 (83)
T CHL00141 7 MHVKIGDTVKIISGSDKGKIGEVLKI 32 (83)
T ss_pred CcccCCCEEEEeEcCCCCcEEEEEEE
Confidence 36899999999644 667888777
No 94
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.31 E-value=54 Score=25.53 Aligned_cols=51 Identities=14% Similarity=0.140 Sum_probs=27.7
Q ss_pred HHHHHhcccccccCCCC----eEEEEEcC--CC---Ceeee--------cCCCCCcCCCCCCCCCcEE
Q 028484 4 ESVKDKLWRKCGTSVNS----MSLELYDD--TN---TKVAA--------LTDNSRPLGFYSPLQGYRL 54 (208)
Q Consensus 4 ~~LK~KLe~itGi~p~~----m~L~l~~~--~g---~~~~~--------l~dd~~~L~~y~i~~g~~I 54 (208)
..|+++|...+-.+|-- -.|.++-. .. +.+.+ |+++.++|..|||++...|
T Consensus 41 ~~~~~~Iq~~~sl~pfRn~kfDtLKIy~~Ah~sKT~nLvinldhDd~w~L~d~~ktL~~~GIenETEi 108 (127)
T KOG4147|consen 41 VFLKQDIQLRTSLPPFRNYKFDTLKIYHQAHKSKTNNLVINLDHDDRWLLKDEDKTLKAAGIENETEI 108 (127)
T ss_pred HHHHHhcccCCCCCccccccccceeeehhhhhcccceEEEeccCCcceeecCccchHHHhccCcchhh
Confidence 34678888888777621 12222211 11 12222 4456778888888776654
No 95
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=32.12 E-value=53 Score=23.52 Aligned_cols=23 Identities=35% Similarity=0.413 Sum_probs=18.2
Q ss_pred CCCCcCCEEEEcCC---CceeEEEEe
Q 028484 122 SNITVGDRCEVDPG---AKRGVVKYV 144 (208)
Q Consensus 122 ~~~~vG~rv~v~~~---~~~G~vryv 144 (208)
..+..||+|.|..| +..|+|..+
T Consensus 5 ~~I~kGD~V~Vi~G~dKGK~G~V~~V 30 (76)
T PRK12281 5 LKVKKGDMVKVIAGDDKGKTGKVLAV 30 (76)
T ss_pred ccccCCCEEEEeEcCCCCcEEEEEEE
Confidence 36899999999644 677888877
No 96
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=32.00 E-value=20 Score=32.23 Aligned_cols=22 Identities=36% Similarity=0.679 Sum_probs=16.5
Q ss_pred CCCCcEECC----------EEeeecCCCceee
Q 028484 165 GKHNGIVKG----------VRYFECPPLHGAM 186 (208)
Q Consensus 165 GkndGs~~G----------~rYF~c~~~~G~F 186 (208)
-.|.||++| .||-.|..||||=
T Consensus 21 SsnSgS~KgSd~Sp~~rr~~rY~~C~dNHGik 52 (305)
T PF15290_consen 21 SSNSGSCKGSDSSPTMRRSGRYMSCGDNHGIK 52 (305)
T ss_pred cCCCccccCCCCCCCCCCCCceeecccCCCCC
Confidence 345666665 6899999999973
No 97
>PF10016 DUF2259: Predicted secreted protein (DUF2259); InterPro: IPR018725 Members of this family of hypothetical bacterial proteins have no known function.
Probab=29.78 E-value=38 Score=28.52 Aligned_cols=27 Identities=22% Similarity=0.395 Sum_probs=21.4
Q ss_pred CCCCCCCC-----cEEEEecCCCCCccCCCcc
Q 028484 44 GFYSPLQG-----YRLHVIDLDPSSVTSGGWL 70 (208)
Q Consensus 44 ~~y~i~~g-----~~IhV~D~~p~s~~~~~~l 70 (208)
+.|+++|| +.|.|+|++-+++...+-+
T Consensus 3 ~qyGvqDgSgfPyA~i~vvDv~~n~fv~~~~~ 34 (198)
T PF10016_consen 3 EQYGVQDGSGFPYAEIYVVDVATNRFVPGGPF 34 (198)
T ss_pred ceeeeecCCCCeeEEEEEEECCCCCCcCCceE
Confidence 56777777 4799999999888776555
No 98
>PF14001 YdfZ: YdfZ protein
Probab=29.26 E-value=68 Score=22.48 Aligned_cols=22 Identities=32% Similarity=0.504 Sum_probs=18.5
Q ss_pred CCCcCCEEEEcCCCceeEEEEe
Q 028484 123 NITVGDRCEVDPGAKRGVVKYV 144 (208)
Q Consensus 123 ~~~vG~rv~v~~~~~~G~vryv 144 (208)
.|..|+||.+...+..|+|+-|
T Consensus 9 ~i~~G~rVMiagtG~~gvikAi 30 (64)
T PF14001_consen 9 AITTGSRVMIAGTGATGVIKAI 30 (64)
T ss_pred cCCCCCEEEEcCCCcccEEeee
Confidence 5889999999745788998877
No 99
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles 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.
Probab=28.56 E-value=82 Score=23.25 Aligned_cols=55 Identities=20% Similarity=0.171 Sum_probs=36.1
Q ss_pred CHHHHHHhccccc-ccCCCCeEEEEEcCCCCeeeecCCC--CCcCCCCCCCCCcEEEEe
Q 028484 2 SVESVKDKLWRKC-GTSVNSMSLELYDDTNTKVAALTDN--SRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 2 TI~~LK~KLe~it-Gi~p~~m~L~l~~~~g~~~~~l~dd--~~~L~~y~i~~g~~IhV~ 57 (208)
|..+|++++..++ +...+.-+|...|.+|..+..-.++ ..-+++.+ .+-.||+|.
T Consensus 28 s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssdeEL~~A~~~~~-~~~~RlyI~ 85 (87)
T cd06402 28 SYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSDEELVMALGSLN-DDTFRIYIK 85 (87)
T ss_pred CHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCHHHHHHHHHcCC-CCcEEEEEE
Confidence 5689999999987 5556678888899999886533332 22333333 344567665
No 100
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=28.13 E-value=53 Score=23.88 Aligned_cols=30 Identities=13% Similarity=0.067 Sum_probs=26.4
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCC
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNT 31 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~ 31 (208)
+.++|.++|-.....+|+..+|++...++.
T Consensus 18 ~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~ 47 (78)
T cd06411 18 DVSSLRALLSQALPQQAQRGQLSYRAPGED 47 (78)
T ss_pred CHHHHHHHHHHHhcCChhhcEEEecCCCCC
Confidence 578999999999999999999999876554
No 101
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles 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,
Probab=27.97 E-value=61 Score=23.84 Aligned_cols=57 Identities=14% Similarity=0.218 Sum_probs=37.9
Q ss_pred CCHHHHHHhcccccccCCC-CeEEEEEcCCCCeeeecCC----CCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGTSVN-SMSLELYDDTNTKVAALTD----NSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~-~m~L~l~~~~g~~~~~l~d----d~~~L~~y~i~~g~~IhV~ 57 (208)
+|..+|++|+..++..+.. .-+|...|.+|..+....+ ..-.|-..+=.++-.|||.
T Consensus 20 ~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~~n~~~~l~ihvf 81 (83)
T cd06404 20 ISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAFRLYELNKDSELNIHVF 81 (83)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHHHHHHhcCcccEEEEec
Confidence 4778999999999998773 6677778888876542111 1223334444566688885
No 102
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=27.92 E-value=1.4e+02 Score=20.66 Aligned_cols=39 Identities=15% Similarity=0.183 Sum_probs=26.6
Q ss_pred ccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 13 KCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 13 itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
|+.|.|..+.|.|- +|+... +.. ... .=++++|+.|+|.
T Consensus 9 I~~id~~~~titLd--DGksy~-lp~-ef~--~~~L~~G~kV~V~ 47 (61)
T PF07076_consen 9 IKSIDPETMTITLD--DGKSYK-LPE-EFD--FDGLKPGMKVVVF 47 (61)
T ss_pred EEEEcCCceEEEec--CCCEEE-CCC-ccc--ccccCCCCEEEEE
Confidence 67789999999996 676643 322 221 2367899988876
No 103
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=27.71 E-value=52 Score=26.71 Aligned_cols=26 Identities=31% Similarity=0.456 Sum_probs=17.9
Q ss_pred cCCCCcCCEEEEcCCCceeEEEEecccC
Q 028484 121 CSNITVGDRCEVDPGAKRGVVKYVGQAE 148 (208)
Q Consensus 121 ~~~~~vG~rv~v~~~~~~G~vryvG~~~ 148 (208)
...+++||+|++. +..|.|.-+|-..
T Consensus 58 ~~pf~vGD~I~i~--~~~G~V~~I~l~~ 83 (206)
T PF00924_consen 58 ERPFKVGDRIEIG--GVEGRVEEIGLRS 83 (206)
T ss_dssp C-SS-TT-EEESS--S-EEEEEEE-SSE
T ss_pred cCCccCCCEEEEE--EeehHHHhcCcce
Confidence 3579999999997 8999999998764
No 104
>COG3350 Uncharacterized conserved protein [Function unknown]
Probab=27.07 E-value=27 Score=23.58 Aligned_cols=30 Identities=17% Similarity=0.256 Sum_probs=20.8
Q ss_pred cEEEEEEeCCCCCCCcEECCEEeeecCCCc
Q 028484 154 FWVGIQYDEPLGKHNGIVKGVRYFECPPLH 183 (208)
Q Consensus 154 ~wvGVelde~~GkndGs~~G~rYF~c~~~~ 183 (208)
..+|..++...-..-=+++|+.||-|.+.+
T Consensus 6 PVcgm~v~~~~a~~k~~Y~GktYYFcse~~ 35 (53)
T COG3350 6 PVCGMKVDNENAEYKSSYGGKTYYFCSEEC 35 (53)
T ss_pred CCcCccccccccceeEEeCCEEEEEeCHHH
Confidence 346666665555555689999999996543
No 105
>PRK06437 hypothetical protein; Provisional
Probab=26.75 E-value=1.6e+02 Score=20.14 Aligned_cols=40 Identities=10% Similarity=0.118 Sum_probs=23.5
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
|+.+|=..| |++++..-+.+ +|..+. .++.+++|.+|.++
T Consensus 22 tv~dLL~~L----gi~~~~vaV~v---Ng~iv~---------~~~~L~dgD~Veiv 61 (67)
T PRK06437 22 TVNDIIKDL----GLDEEEYVVIV---NGSPVL---------EDHNVKKEDDVLIL 61 (67)
T ss_pred cHHHHHHHc----CCCCccEEEEE---CCEECC---------CceEcCCCCEEEEE
Confidence 555555554 66665554443 454431 55667788877765
No 106
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=26.31 E-value=1.8e+02 Score=19.45 Aligned_cols=44 Identities=11% Similarity=0.175 Sum_probs=24.1
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
||.+|...| +++++...+.+ ++..+. .....+..+++|.+|-++
T Consensus 16 tl~~Ll~~l----~~~~~~vavav---N~~iv~-----~~~~~~~~L~dgD~Ieiv 59 (65)
T PRK06488 16 TLALLLAEL----DYEGNWLATAV---NGELVH-----KEARAQFVLHEGDRIEIL 59 (65)
T ss_pred cHHHHHHHc----CCCCCeEEEEE---CCEEcC-----HHHcCccccCCCCEEEEE
Confidence 566666655 55554444444 233321 223345667888887775
No 107
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 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.
Probab=26.29 E-value=77 Score=23.70 Aligned_cols=27 Identities=22% Similarity=0.235 Sum_probs=22.9
Q ss_pred CCHHHHHHhcccccccCCCCeEEEEEcC
Q 028484 1 MSVESVKDKLWRKCGTSVNSMSLELYDD 28 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi~p~~m~L~l~~~ 28 (208)
+|..+|+.||..+++++.. +.|...-+
T Consensus 33 ~s~~el~~kl~~~~~~~~~-~~lky~Lp 59 (97)
T cd06410 33 ISFKELVSKLSELFGAGVV-VTLKYQLP 59 (97)
T ss_pred CCHHHHHHHHHHHhCCCCc-eEEEEEcC
Confidence 5789999999999999987 77777644
No 108
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=25.01 E-value=74 Score=23.97 Aligned_cols=27 Identities=30% Similarity=0.447 Sum_probs=22.2
Q ss_pred hhcCCCCcCCEEEEcCCCceeEEEEecc
Q 028484 119 DLCSNITVGDRCEVDPGAKRGVVKYVGQ 146 (208)
Q Consensus 119 ~~~~~~~vG~rv~v~~~~~~G~vryvG~ 146 (208)
+...+++.||+|.-. |+..|+|.-++.
T Consensus 39 ~ml~sL~kGD~VvT~-gGi~G~V~~v~d 65 (97)
T COG1862 39 ELLNSLKKGDEVVTI-GGIVGTVTKVGD 65 (97)
T ss_pred HHHHhccCCCEEEEc-CCeEEEEEEEec
Confidence 445679999999776 789999999876
No 109
>PF10500 SR-25: Nuclear RNA-splicing-associated protein; InterPro: IPR019532 SR-25, otherwise known as ADP-ribosylation factor-like factor 6-interacting protein 4, is expressed in virtually all tissue types. At the N terminus there is a repeat of serine-arginine (SR repeat), and towards the middle of the protein there are clusters of both serines and of basic amino acids. The presence of many nuclear localisation signals strongly implies that this is a nuclear protein that may contribute to RNA splicing []. SR-25 is also implicated, along with heat-shock-protein-27, as a mediator in the Rac1 (GTPase ras-related C3 botulinum toxin substrate 1; also see IPR019093 from INTERPRO) signalling pathway [].
Probab=23.65 E-value=33 Score=29.73 Aligned_cols=23 Identities=26% Similarity=0.586 Sum_probs=18.6
Q ss_pred eecCHHHHhcchhhHHHHHHHhhcCCCch
Q 028484 79 YTISEEEYSKRDGTFRKFKEKVLSQNPSA 107 (208)
Q Consensus 79 ~~ls~e~Y~~r~dtv~~~k~~~~~~~p~~ 107 (208)
=-|+.|||++|+.++|. .+||+.
T Consensus 158 ~PmTkEEyearQSvIRr------VvDpET 180 (225)
T PF10500_consen 158 APMTKEEYEARQSVIRR------VVDPET 180 (225)
T ss_pred CCCCHHHHHHHHhhhee------eecCCC
Confidence 37999999999988875 368874
No 110
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=23.61 E-value=69 Score=23.20 Aligned_cols=31 Identities=26% Similarity=0.272 Sum_probs=25.8
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCee
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKV 33 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~ 33 (208)
++.+|+.|--...+++...-+|.|+ .||..+
T Consensus 22 sL~eL~~K~~~~l~~~~~~~~lvL~-eDGT~V 52 (78)
T PF02017_consen 22 SLEELLEKACDKLQLPEEPVRLVLE-EDGTEV 52 (78)
T ss_dssp SHHHHHHHHHHHHT-SSSTCEEEET-TTTCBE
T ss_pred CHHHHHHHHHHHhCCCCcCcEEEEe-CCCcEE
Confidence 7899999999999999988899885 577764
No 111
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=23.54 E-value=92 Score=23.58 Aligned_cols=22 Identities=45% Similarity=0.516 Sum_probs=17.9
Q ss_pred CCCcCCEEEEcCC---CceeEEEEe
Q 028484 123 NITVGDRCEVDPG---AKRGVVKYV 144 (208)
Q Consensus 123 ~~~vG~rv~v~~~---~~~G~vryv 144 (208)
.+..||+|.|..| +..|+|..|
T Consensus 4 ~i~kGD~V~Vi~G~dKGk~G~V~~V 28 (105)
T PRK00004 4 KIKKGDTVIVIAGKDKGKRGKVLKV 28 (105)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEE
Confidence 5889999999644 678888887
No 112
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=23.37 E-value=1.4e+02 Score=20.25 Aligned_cols=45 Identities=13% Similarity=0.084 Sum_probs=25.4
Q ss_pred CCHHHHHHhccccccc----CCCCeEEEEEcCCCCeeeecCCCCCcCCCCCCCCCcEEEEe
Q 028484 1 MSVESVKDKLWRKCGT----SVNSMSLELYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVI 57 (208)
Q Consensus 1 ~TI~~LK~KLe~itGi----~p~~m~L~l~~~~g~~~~~l~dd~~~L~~y~i~~g~~IhV~ 57 (208)
.||.+|.+.|....+- ......+.+ +|+.+ . .++.+++|.+|.++
T Consensus 26 ~tv~~ll~~l~~~~~~~~~~~~~~~~v~v---Ng~~v--------~-~~~~l~~gD~v~i~ 74 (80)
T cd00754 26 ATVGELLDALEARYPGLLEELLARVRIAV---NGEYV--------R-LDTPLKDGDEVAII 74 (80)
T ss_pred CcHHHHHHHHHHHCchHHHhhhhcEEEEE---CCeEc--------C-CCcccCCCCEEEEe
Confidence 3777888777665432 222333333 33332 1 45678888888876
No 113
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=20.79 E-value=1.6e+02 Score=17.03 Aligned_cols=19 Identities=37% Similarity=0.532 Sum_probs=13.0
Q ss_pred cCCEEEEcCC---CceeEEEEe
Q 028484 126 VGDRCEVDPG---AKRGVVKYV 144 (208)
Q Consensus 126 vG~rv~v~~~---~~~G~vryv 144 (208)
+|+.|.|..| ++.|+|.-+
T Consensus 1 ~Gd~V~V~~G~~~G~~G~I~~i 22 (32)
T PF00467_consen 1 VGDTVKVISGPFKGKIGKIVEI 22 (32)
T ss_dssp TTSEEEESSSTTTTEEEEEEEE
T ss_pred CCCEEEEeEcCCCCceEEEEEE
Confidence 5899999755 456666544
No 114
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=20.75 E-value=1.4e+02 Score=21.51 Aligned_cols=31 Identities=26% Similarity=0.268 Sum_probs=25.9
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCee
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKV 33 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~ 33 (208)
|+.+|+.|--...+++.+.-+|.|. .||..+
T Consensus 20 sL~eL~~K~~~~l~l~~~~~~l~L~-eDGT~V 50 (74)
T smart00266 20 SLEELLSKVCDKLALPDSPVTLVLE-EDGTIV 50 (74)
T ss_pred CHHHHHHHHHHHhCCCCCCcEEEEe-cCCcEE
Confidence 7899999999999999887888885 367664
No 115
>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=20.52 E-value=1.4e+02 Score=21.60 Aligned_cols=31 Identities=26% Similarity=0.269 Sum_probs=25.7
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCee
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKV 33 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~ 33 (208)
++.+|+.|--...++++..-+|.|. .||..+
T Consensus 22 sL~eL~~K~~~~l~l~~~~~~lvL~-eDGTeV 52 (78)
T cd01615 22 SLEELLSKACEKLKLPSAPVTLVLE-EDGTEV 52 (78)
T ss_pred CHHHHHHHHHHHcCCCCCCeEEEEe-CCCcEE
Confidence 7899999999999999777788875 467664
No 116
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.
Probab=20.50 E-value=1.1e+02 Score=23.12 Aligned_cols=22 Identities=45% Similarity=0.576 Sum_probs=17.7
Q ss_pred CCCcCCEEEEcCC---CceeEEEEe
Q 028484 123 NITVGDRCEVDPG---AKRGVVKYV 144 (208)
Q Consensus 123 ~~~vG~rv~v~~~---~~~G~vryv 144 (208)
.+..||+|.|..| +..|+|..|
T Consensus 3 ~ikkGD~V~Vi~G~dKGK~G~V~~V 27 (104)
T TIGR01079 3 KIKKGDTVKVISGKDKGKRGKVLKV 27 (104)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEE
Confidence 5789999999644 678888887
No 117
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. 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 the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=20.16 E-value=1.4e+02 Score=21.69 Aligned_cols=31 Identities=19% Similarity=0.150 Sum_probs=26.0
Q ss_pred CHHHHHHhcccccccCCCCeEEEEEcCCCCee
Q 028484 2 SVESVKDKLWRKCGTSVNSMSLELYDDTNTKV 33 (208)
Q Consensus 2 TI~~LK~KLe~itGi~p~~m~L~l~~~~g~~~ 33 (208)
++.+|+.|.-...+++...-+|.|+ .||..+
T Consensus 22 sL~EL~~K~~~~l~~~~~~~~lvL~-eDGT~V 52 (78)
T cd06539 22 SLQELISKTLDALVITSGLVTLVLE-EDGTVV 52 (78)
T ss_pred CHHHHHHHHHHHhCCCCCCcEEEEe-CCCCEE
Confidence 7899999999999999887888886 467664
Done!