Query 040442
Match_columns 522
No_of_seqs 193 out of 693
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 08:30:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040442.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040442hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11566 PI31_Prot_N: PI31 pro 99.3 1.6E-12 3.5E-17 121.2 6.9 137 210-362 9-152 (155)
2 PF12937 F-box-like: F-box-lik 99.2 1.3E-11 2.9E-16 92.7 2.8 47 372-418 1-47 (47)
3 PF11543 UN_NPL4: Nuclear pore 98.8 3.6E-09 7.8E-14 89.2 4.7 72 1-75 5-78 (80)
4 PF00646 F-box: F-box domain; 98.6 1.8E-08 4E-13 75.3 2.2 47 371-417 2-48 (48)
5 KOG2997 F-box protein FBX9 [Ge 98.5 8.6E-08 1.9E-12 98.7 3.7 70 372-441 107-189 (366)
6 smart00256 FBOX A Receptor for 98.5 1.2E-07 2.6E-12 67.9 3.3 40 375-414 1-40 (41)
7 cd01806 Nedd8 Nebb8-like ubiq 98.1 6.7E-06 1.5E-10 66.7 6.4 72 1-77 1-72 (76)
8 cd01805 RAD23_N Ubiquitin-like 98.1 6.4E-06 1.4E-10 67.5 6.3 72 1-77 1-74 (77)
9 cd01812 BAG1_N Ubiquitin-like 98.1 6.8E-06 1.5E-10 66.1 6.3 70 1-76 1-70 (71)
10 cd01809 Scythe_N Ubiquitin-lik 98.0 9.9E-06 2.1E-10 65.1 6.0 71 1-76 1-71 (72)
11 cd01807 GDX_N ubiquitin-like d 98.0 9.9E-06 2.2E-10 66.4 6.0 73 1-78 1-73 (74)
12 smart00213 UBQ Ubiquitin homol 98.0 7.1E-06 1.5E-10 63.8 4.9 64 1-70 1-64 (64)
13 cd01803 Ubiquitin Ubiquitin. U 97.9 2.4E-05 5.2E-10 63.5 5.7 73 1-78 1-73 (76)
14 cd01804 midnolin_N Ubiquitin-l 97.8 4.5E-05 9.8E-10 63.6 6.2 72 1-78 2-73 (78)
15 PF00240 ubiquitin: Ubiquitin 97.8 3.1E-05 6.8E-10 62.0 5.0 65 10-78 4-68 (69)
16 cd01795 USP48_C USP ubiquitin- 97.8 4E-05 8.6E-10 67.4 5.3 64 11-77 14-77 (107)
17 cd01791 Ubl5 UBL5 ubiquitin-li 97.7 6.6E-05 1.4E-09 62.2 6.1 70 1-75 2-71 (73)
18 KOG0281 Beta-TrCP (transducin 97.7 3.1E-05 6.7E-10 80.9 4.8 50 370-419 73-126 (499)
19 cd01792 ISG15_repeat1 ISG15 ub 97.7 0.00012 2.6E-09 61.1 6.7 72 1-77 3-76 (80)
20 PF11976 Rad60-SLD: Ubiquitin- 97.6 7.9E-05 1.7E-09 60.3 4.6 71 1-76 1-72 (72)
21 PTZ00044 ubiquitin; Provisiona 97.6 0.00016 3.5E-09 59.1 5.7 73 1-78 1-73 (76)
22 cd01796 DDI1_N DNA damage indu 97.5 0.00015 3.4E-09 59.2 5.5 69 4-75 2-70 (71)
23 cd01793 Fubi Fubi ubiquitin-li 97.5 0.00021 4.6E-09 58.6 5.8 70 1-77 1-70 (74)
24 cd01800 SF3a120_C Ubiquitin-li 97.5 0.00018 3.8E-09 59.5 4.9 65 10-78 6-70 (76)
25 KOG3926 F-box proteins [Amino 97.5 0.00014 3.1E-09 73.9 5.1 72 370-441 200-279 (332)
26 KOG4761 Proteasome formation i 97.5 0.00024 5.2E-09 71.0 6.5 131 204-357 10-150 (266)
27 KOG0274 Cdc4 and related F-box 97.4 9.5E-05 2.1E-09 82.1 3.2 78 368-445 104-191 (537)
28 cd01794 DC_UbP_C dendritic cel 97.4 0.00032 7E-09 57.5 5.4 69 4-77 2-70 (70)
29 cd01763 Sumo Small ubiquitin-r 97.4 0.00037 8E-09 59.3 6.0 72 1-77 12-83 (87)
30 KOG2120 SCF ubiquitin ligase, 97.4 8.7E-05 1.9E-09 76.9 2.4 45 371-415 97-141 (419)
31 cd01799 Hoil1_N Ubiquitin-like 97.4 0.00029 6.4E-09 58.7 5.0 63 10-76 11-74 (75)
32 cd01813 UBP_N UBP ubiquitin pr 97.3 0.00056 1.2E-08 56.7 6.1 70 1-76 1-73 (74)
33 cd01797 NIRF_N amino-terminal 97.3 0.00057 1.2E-08 57.2 6.0 74 1-78 1-75 (78)
34 cd01808 hPLIC_N Ubiquitin-like 97.3 0.00061 1.3E-08 55.4 5.9 70 1-76 1-70 (71)
35 cd01810 ISG15_repeat2 ISG15 ub 97.3 0.0004 8.7E-09 57.0 4.8 64 10-77 7-70 (74)
36 PF06881 Elongin_A: RNA polyme 97.3 0.00036 7.8E-09 61.9 4.7 68 372-441 4-74 (109)
37 cd01802 AN1_N ubiquitin-like d 97.2 0.0006 1.3E-08 60.2 5.7 72 1-77 28-99 (103)
38 cd01769 UBL Ubiquitin-like dom 97.0 0.0016 3.4E-08 51.2 5.9 67 5-76 2-68 (69)
39 TIGR00601 rad23 UV excision re 96.9 0.0015 3.2E-08 69.9 6.2 73 1-78 1-76 (378)
40 cd01798 parkin_N amino-termina 96.9 0.0017 3.7E-08 52.5 4.8 63 10-76 7-69 (70)
41 cd01790 Herp_N Homocysteine-re 96.7 0.0031 6.7E-08 53.4 5.4 72 1-76 2-78 (79)
42 cd01801 Tsc13_N Ubiquitin-like 96.6 0.0061 1.3E-07 50.6 6.4 54 19-74 20-74 (77)
43 cd01789 Alp11_N Ubiquitin-like 96.6 0.0085 1.9E-07 50.8 7.1 73 2-76 3-80 (84)
44 PF14560 Ubiquitin_2: Ubiquiti 96.5 0.0054 1.2E-07 51.9 5.4 75 2-76 3-82 (87)
45 PF08817 YukD: WXG100 protein 96.3 0.0062 1.3E-07 50.8 4.6 68 3-74 3-78 (79)
46 cd01815 BMSC_UbP_N Ubiquitin-l 96.1 0.0099 2.1E-07 50.0 4.9 54 19-76 18-74 (75)
47 PLN02560 enoyl-CoA reductase 95.6 0.029 6.2E-07 58.6 7.1 72 1-75 1-81 (308)
48 PF13881 Rad60-SLD_2: Ubiquiti 95.5 0.042 9.1E-07 49.4 6.7 73 2-78 4-89 (111)
49 KOG0010 Ubiquitin-like protein 95.3 0.025 5.5E-07 61.9 5.6 73 2-78 15-87 (493)
50 PF00789 UBX: UBX domain; Int 94.7 0.094 2E-06 43.5 6.2 71 2-74 8-80 (82)
51 smart00166 UBX Domain present 94.2 0.18 3.9E-06 42.0 6.9 72 2-74 6-78 (80)
52 KOG4341 F-box protein containi 94.1 0.02 4.3E-07 61.9 1.1 52 372-423 72-123 (483)
53 cd00196 UBQ Ubiquitin-like pro 93.7 0.2 4.3E-06 36.1 5.5 62 11-76 7-68 (69)
54 KOG4408 Putative Mg2+ and Co2+ 92.9 0.0077 1.7E-07 63.1 -4.2 72 369-440 5-78 (386)
55 cd01767 UBX UBX (ubiquitin reg 92.7 0.45 9.7E-06 39.3 6.8 65 2-68 4-69 (77)
56 cd01772 SAKS1_UBX SAKS1-like U 91.3 0.49 1.1E-05 39.6 5.5 70 2-74 6-77 (79)
57 COG5100 NPL4 Nuclear pore prot 90.1 0.58 1.3E-05 50.5 6.0 78 1-80 1-82 (571)
58 PLN03215 ascorbic acid mannose 89.6 0.24 5.3E-06 53.1 2.8 38 371-408 3-41 (373)
59 cd01788 ElonginB Ubiquitin-lik 88.2 0.7 1.5E-05 42.0 4.3 61 2-68 4-64 (119)
60 KOG4495 RNA polymerase II tran 87.7 0.57 1.2E-05 41.4 3.3 64 1-68 3-66 (110)
61 KOG1639 Steroid reductase requ 84.5 1.5 3.4E-05 44.7 5.0 60 12-75 12-77 (297)
62 cd01770 p47_UBX p47-like ubiqu 84.2 3.3 7.1E-05 34.9 6.1 66 2-70 6-73 (79)
63 cd01771 Faf1_UBX Faf1 UBX doma 83.0 5.5 0.00012 33.7 7.0 70 2-74 6-77 (80)
64 PLN02799 Molybdopterin synthas 78.8 3.8 8.2E-05 34.0 4.7 66 1-75 2-76 (82)
65 PF15044 CLU_N: Mitochondrial 78.1 5 0.00011 33.6 5.1 58 19-80 2-61 (76)
66 PF13013 F-box-like_2: F-box-l 76.9 2.7 5.8E-05 37.9 3.4 34 371-404 21-54 (109)
67 cd06407 PB1_NLP A PB1 domain i 75.6 5.6 0.00012 33.9 4.9 44 1-46 1-45 (82)
68 cd01774 Faf1_like2_UBX Faf1 ik 75.3 12 0.00025 32.1 6.7 72 2-75 6-83 (85)
69 cd01773 Faf1_like1_UBX Faf1 ik 72.2 16 0.00035 31.3 6.8 70 2-74 7-78 (82)
70 smart00666 PB1 PB1 domain. Pho 70.7 9.8 0.00021 31.2 5.1 44 2-47 3-46 (81)
71 TIGR02958 sec_mycoba_snm4 secr 69.9 14 0.00031 40.7 7.6 70 4-76 4-79 (452)
72 COG5417 Uncharacterized small 69.8 9.5 0.00021 32.4 4.7 62 11-74 16-80 (81)
73 PF09372 PRANC: PRANC domain; 68.4 2.8 6.2E-05 36.1 1.5 26 370-395 70-95 (97)
74 cd05992 PB1 The PB1 domain is 68.1 9.8 0.00021 31.0 4.6 43 2-46 2-45 (81)
75 KOG0011 Nucleotide excision re 66.2 28 0.00061 37.1 8.4 74 1-79 1-76 (340)
76 KOG0003 Ubiquitin/60s ribosoma 63.7 2.3 5.1E-05 38.3 0.1 69 3-77 4-72 (128)
77 cd06406 PB1_P67 A PB1 domain i 63.0 12 0.00026 32.1 4.1 42 3-47 5-46 (80)
78 cd01814 NTGP5 Ubiquitin-like N 62.0 16 0.00035 33.2 5.1 72 3-78 7-91 (113)
79 PF06487 SAP18: Sin3 associate 59.9 14 0.0003 33.9 4.3 56 20-75 45-119 (120)
80 cd06411 PB1_p51 The PB1 domain 54.9 19 0.0004 30.8 3.9 41 4-47 2-42 (78)
81 PF13019 Telomere_Sde2: Telome 53.3 47 0.001 32.1 6.9 65 12-77 15-82 (162)
82 PF00564 PB1: PB1 domain; Int 52.7 25 0.00055 28.7 4.5 44 2-47 3-47 (84)
83 cd00754 MoaD Ubiquitin domain 50.6 36 0.00079 27.5 5.0 57 11-76 15-75 (80)
84 TIGR01682 moaD molybdopterin c 48.4 28 0.00061 28.7 4.1 57 10-75 14-74 (80)
85 KOG0001 Ubiquitin and ubiquiti 43.5 69 0.0015 24.1 5.4 66 9-78 7-72 (75)
86 KOG3391 Transcriptional co-rep 42.9 30 0.00065 32.6 3.7 54 21-78 61-137 (151)
87 PF02597 ThiS: ThiS family; I 41.6 42 0.00092 26.8 4.1 57 13-75 13-71 (77)
88 PHA03100 ankyrin repeat protei 41.4 15 0.00032 39.4 1.7 31 370-400 446-476 (480)
89 PRK08364 sulfur carrier protei 40.3 77 0.0017 25.8 5.4 57 4-75 6-64 (70)
90 PF14732 UAE_UbL: Ubiquitin/SU 35.7 49 0.0011 28.4 3.7 51 22-75 9-67 (87)
91 KOG1769 Ubiquitin-like protein 34.5 1.5E+02 0.0032 26.6 6.5 72 2-78 22-93 (99)
92 TIGR01687 moaD_arch MoaD famil 33.7 75 0.0016 26.5 4.5 58 10-75 14-82 (88)
93 PHA02875 ankyrin repeat protei 32.4 24 0.00051 37.3 1.5 26 370-395 385-410 (413)
94 PHA02989 ankyrin repeat protei 31.3 44 0.00095 36.6 3.4 37 357-398 449-485 (494)
95 PHA02798 ankyrin-like protein; 30.1 42 0.00092 36.6 3.0 38 353-394 449-486 (489)
96 TIGR00638 Mop molybdenum-pteri 29.3 34 0.00074 26.8 1.6 39 41-79 24-62 (69)
97 PHA02878 ankyrin repeat protei 26.0 33 0.00073 37.2 1.3 39 355-396 433-471 (477)
98 cd06408 PB1_NoxR The PB1 domai 25.9 79 0.0017 27.5 3.3 47 2-51 2-48 (86)
99 PRK05641 putative acetyl-CoA c 25.5 50 0.0011 31.4 2.3 35 1-53 2-36 (153)
100 KOG2086 Protein tyrosine phosp 25.5 1.2E+02 0.0025 33.2 5.2 64 3-68 308-372 (380)
101 cd06409 PB1_MUG70 The MUG70 pr 25.2 83 0.0018 27.3 3.3 37 10-46 9-48 (86)
102 PF04126 Cyclophil_like: Cyclo 23.4 32 0.00069 31.2 0.5 67 1-75 1-69 (120)
103 PF07929 PRiA4_ORF3: Plasmid p 22.9 1.1E+02 0.0024 29.1 4.1 76 2-77 6-98 (179)
104 PHA02876 ankyrin repeat protei 22.7 58 0.0012 37.2 2.5 26 370-395 654-679 (682)
105 PRK11130 moaD molybdopterin sy 22.5 3E+02 0.0065 22.8 6.2 52 15-75 18-75 (81)
106 cd01611 GABARAP Ubiquitin doma 22.1 1.1E+02 0.0024 27.6 3.7 46 14-63 43-89 (112)
107 PF08783 DWNN: DWNN domain; I 20.6 1E+02 0.0023 26.0 2.9 39 9-47 7-47 (74)
108 PF14795 Leucyl-specific: Leuc 20.4 37 0.00081 26.9 0.2 28 4-32 13-41 (56)
109 PF12436 USP7_ICP0_bdg: ICP0-b 20.2 63 0.0014 32.7 1.9 60 16-78 89-153 (249)
No 1
>PF11566 PI31_Prot_N: PI31 proteasome regulator N-terminal; InterPro: IPR021625 PI31 is a regulatory subunit of the immuno-proteasome which is an inhibitor of the 20 S proteasome in vitro.PI31 is also an F-box protein Fbxo7.Skp1 binding partner which requires an N-terminal FP domain in both proteins for the interaction to occur via the FP beta sheets. The structure of PI31 FP domain contains a novel alpha/beta-fold and two intermolecular contact surfaces []. ; PDB: 2VT8_B.
Probab=99.34 E-value=1.6e-12 Score=121.17 Aligned_cols=137 Identities=23% Similarity=0.264 Sum_probs=90.7
Q ss_pred cCCCCccchHHHHHHHHHHhcCCcccCCCCCcccc---cCCCcccccCC-ce-eEEeccCccccCCCCCccceEEEEEEE
Q 040442 210 GDRLGPHGLVIVAVHEILLESGFVGFDSESGMRID---QFDLPDHLLLK-GV-SMSYTLPEILNDSSKDVTESVALKYQI 284 (522)
Q Consensus 210 ~~~~~~~~~LvvavHalmLESGFv~~~~~sg~~~~---~~~lp~~w~s~-g~-sl~YtlP~l~~~~~~~~~~~v~L~~~~ 284 (522)
.+..+++|+|++++|++|+++||...+....-... .-.||++|.+. +. +++|++|+. .. .+.|+|..
T Consensus 9 ~~i~~~~D~l~~~~H~~~~~~gF~~vg~~~~~~~~~~~~~~LP~~WN~~~~~Y~~~Y~~~~~--~~------~~~lk~~~ 80 (155)
T PF11566_consen 9 PDIKSPHDALALFVHALMLESGFRLVGLGEDAKISSSESELLPEGWNSSSDSYAFRYKHPQS--SM------QFLLKALK 80 (155)
T ss_dssp GG--SHHHHHHHHHHHHHHCTTEEEEEESSS--TT---BSS--TTTTS-SSEEEEEEEETTS----------EEEEEEEE
T ss_pred cccCCHHHHHHHHHHHHHHHcCCEEeccCCCcCccccccccCCHHHcCCCCeeEEEEecCCC--CC------eEEEEEEE
Confidence 46788999999999999999999877433211122 34599999864 55 999999994 22 89999999
Q ss_pred cCCEEEEEEeecCCCCceEEEEecccCccccchhhhcccccccccccccccccchh--HHHHHHHhhhcchhHHHHHHhh
Q 040442 285 LGHFVNIYGSLAKGDSGMHKLCLNAYNFGPILSLVWANSDQNCSLLEYKSFDCGKE--VFEFWKNVKDGLALPLLIDLCD 362 (522)
Q Consensus 285 lG~~vvV~g~l~~~~s~v~~l~Ld~~~yv~~l~~~~~~s~~~~~~~~~~~~~~~~~--l~~Lw~~~Kd~La~plL~~lc~ 362 (522)
||+.++||+ +..+.+.+++++|+...||..=. +......+.+ ...+++ +.+|.+.||+.+..||+..+..
T Consensus 81 ~g~~lvIn~-l~~~~~~v~~l~i~~~~~v~~~~--~~~~~~~~~~-----~~~~~~~~l~~L~~~~~~~ii~~l~~~~~k 152 (155)
T PF11566_consen 81 MGNKLVINA-LNVGDDKVASLEINVDDYVSESF--LPASEDPSDL-----SSVFKNKRLEDLISLFKTDIIQPLVPGLRK 152 (155)
T ss_dssp ETTEEEEEE-EETTTTEEEEEEEEHHHHB-T--------TSTT-H-----HHHBSS--HHHHHHHHHHHTTS--------
T ss_pred eCCeEEEEe-eecCCCcEEEEEEcHHHhhhhhh--cccccCCccH-----HHHHHhhhHHHHHHHHHHHhhcccCCcccc
Confidence 999999999 44357899999999999996300 0000011111 245788 9999999999999999887754
No 2
>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B.
Probab=99.17 E-value=1.3e-11 Score=92.70 Aligned_cols=47 Identities=30% Similarity=0.569 Sum_probs=41.2
Q ss_pred ccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHHh
Q 040442 372 WTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVE 418 (522)
Q Consensus 372 l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~ 418 (522)
+..||.||+.+||++|+++|++++++|||.|+.++.++.|||++|.+
T Consensus 1 i~~LP~Eil~~If~~L~~~dl~~~~~vcr~w~~~~~~~~lW~~~~~r 47 (47)
T PF12937_consen 1 ISSLPDEILLEIFSYLDPRDLLRLSLVCRRWRRIANDNSLWRRLCLR 47 (47)
T ss_dssp CCCS-HHHHHHHHTTS-HHHHHHHTTSSHHHHHHHTCCCHHHHHC--
T ss_pred ChHhHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHCChhhhhhhccC
Confidence 36899999999999999999999999999999999999999999864
No 3
>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=98.83 E-value=3.6e-09 Score=89.19 Aligned_cols=72 Identities=40% Similarity=0.589 Sum_probs=48.3
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEe--cCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSL--NRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSL--N~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
|=||||+ ...+.|||++..+|+++|++.|.+.+.-+.+++.|+. |++++|.+ +++.||+++||..||+||+.
T Consensus 5 milRvrS--~dG~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s-~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRS--KDGMKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKS-SDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE---SSEEEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS--TT-CCCCT---TT-EEE--
T ss_pred EEEEEEC--CCCCEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCccccc-CCcCCHHHcCCCCccEEEEe
Confidence 5689999 8899999999999999999999999976666666655 55667754 68999999999999999874
No 4
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=98.61 E-value=1.8e-08 Score=75.28 Aligned_cols=47 Identities=26% Similarity=0.453 Sum_probs=41.1
Q ss_pred cccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHH
Q 040442 371 CWTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFV 417 (522)
Q Consensus 371 ~l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~ 417 (522)
.|..||.|++.+||.+|+..|++++++||+.|+.++.+..+|+..|+
T Consensus 2 ~~~~LP~~il~~Il~~l~~~~~~~l~~vsk~~~~~~~~~~~~~~~~r 48 (48)
T PF00646_consen 2 PLSDLPDEILQEILSYLDPKDLLRLSLVSKRWRSLVDSPRLWKKIIR 48 (48)
T ss_dssp HHHHS-HHHHHHHHHTS-HHHHHHHCTT-HHHHHHHTTHHHHHHHH-
T ss_pred CHHHCCHHHHHHHHHHCcHHHHHHHHHHhhHHHHHHcCCCccHHHhC
Confidence 46789999999999999999999999999999999999999999874
No 5
>KOG2997 consensus F-box protein FBX9 [General function prediction only]
Probab=98.48 E-value=8.6e-08 Score=98.65 Aligned_cols=70 Identities=21% Similarity=0.336 Sum_probs=58.8
Q ss_pred ccCCcHHHHHHHhc-----cCCccchhhHHHhhHHHHHHhcCcHHHHHHHHhhcCCCCCCC--------CCCChHHHHHH
Q 040442 372 WTHLPTELKLKLLE-----CLPGVDVAKMECVSRDMRYLASNNELWRQKFVEEFGGPADAQ--------GKTNWKERFVF 438 (522)
Q Consensus 372 l~~LP~ELll~ILs-----~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~df~~~~~~~--------~~~~WK~lY~~ 438 (522)
+..||+||++.||+ .||.++|.++|||||.|+..|.|+.|||..|.+.|+.....- ...+||+.|.+
T Consensus 107 ~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R~~~lwR~aC~KvW~~s~~~ln~~~~~sky~~SWR~Mfl~ 186 (366)
T KOG2997|consen 107 ISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCARDPELWRLACLKVWQRSCIKLNPKILQSKYYTSWREMFLE 186 (366)
T ss_pred hhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHcChHHHHHHHHHHHHHhhhccchhhhhhHHHhHHHHHHhh
Confidence 67899999999984 689999999999999999999999999999999998753211 25678877766
Q ss_pred HHH
Q 040442 439 NWE 441 (522)
Q Consensus 439 ~~~ 441 (522)
+-+
T Consensus 187 RpR 189 (366)
T KOG2997|consen 187 RPR 189 (366)
T ss_pred Ccc
Confidence 544
No 6
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=98.47 E-value=1.2e-07 Score=67.89 Aligned_cols=40 Identities=33% Similarity=0.584 Sum_probs=38.8
Q ss_pred CcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHH
Q 040442 375 LPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQ 414 (522)
Q Consensus 375 LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~ 414 (522)
||.|++.+||.+|+..|++++++|||.|+.++.++.+|+.
T Consensus 1 lP~~ll~~I~~~l~~~d~~~~~~vc~~~~~~~~~~~~~~~ 40 (41)
T smart00256 1 LPDEILEEILSKLPPKDLLRLRKVSRRWRSLIDSHDFWFK 40 (41)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcChhhhhc
Confidence 7999999999999999999999999999999999999985
No 7
>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=98.11 E-value=6.7e-06 Score=66.73 Aligned_cols=72 Identities=10% Similarity=0.285 Sum_probs=62.5
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
|++.||... +++..+++..+.|+++||+.|.+...-+++..+|..||+. | ++..+|++|||..|+.|++++.
T Consensus 1 m~i~v~~~~-g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~-L---~d~~tl~~~~i~~g~~i~l~~~ 72 (76)
T cd01806 1 MLIKVKTLT-GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQ-M---NDDKTAADYKLEGGSVLHLVLA 72 (76)
T ss_pred CEEEEEeCC-CCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeE-c---cCCCCHHHcCCCCCCEEEEEEE
Confidence 899999953 5778899999999999999999987667788999999874 4 2678999999999999999985
No 8
>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=98.11 E-value=6.4e-06 Score=67.48 Aligned_cols=72 Identities=21% Similarity=0.348 Sum_probs=62.5
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCC--CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISS--SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~--s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
|++.||.+ .+++..++|..+.|.++||+.|.+...- +++...|..||+ .|. |+.+|++|||..||.|++++.
T Consensus 1 m~i~vk~~-~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~-~L~---d~~~L~~~~i~~~~~i~~~~~ 74 (77)
T cd01805 1 MKITFKTL-KQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGK-ILK---DDTTLEEYKIDEKDFVVVMVS 74 (77)
T ss_pred CEEEEEeC-CCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCE-Ecc---CCCCHHHcCCCCCCEEEEEEe
Confidence 89999985 4678899999999999999999998754 777899999998 442 678999999999999998875
No 9
>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=98.11 E-value=6.8e-06 Score=66.08 Aligned_cols=70 Identities=20% Similarity=0.394 Sum_probs=61.3
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
||++||. .+++..++|+.+.|+.+||+.|++...-+++..+|..+|+. | +++.+|.+|||..|+-|+++.
T Consensus 1 i~i~vk~--~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~-l---~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKH--GGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKE-R---DDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEE--CCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcc-c---CccCcHHHcCCCCCCEEEEec
Confidence 6889999 68999999999999999999999886557888999999874 4 267999999999999999874
No 10
>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=98.04 E-value=9.9e-06 Score=65.07 Aligned_cols=71 Identities=18% Similarity=0.341 Sum_probs=60.9
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
|++.||... +++..+++..+.|+++||+.|.+...-+++..+|.+||+ .| +|+.+|++|||..|+.|++++
T Consensus 1 i~i~vk~~~-g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~-~L---~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 1 IEIKVKTLD-SQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGR-VL---KDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred CEEEEEeCC-CCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCE-EC---CCcCcHHHCCCCCCCEEEEEe
Confidence 899999943 578999999999999999999988655777889999986 34 377899999999999999875
No 11
>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=98.04 E-value=9.9e-06 Score=66.41 Aligned_cols=73 Identities=16% Similarity=0.231 Sum_probs=64.5
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
|++-||.+ .+++..++|..+.|.++||+.|++...-+++..+|-.|||. | +|+.+|++|||..|+-|++++.|
T Consensus 1 m~i~vk~~-~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~-L---~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLL-QGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKA-L---ADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeC-CCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEE-C---CCCCCHHHCCCCCCCEEEEEEcC
Confidence 89999985 46788999999999999999999987657788999999987 4 27899999999999999999865
No 12
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.04 E-value=7.1e-06 Score=63.82 Aligned_cols=64 Identities=27% Similarity=0.405 Sum_probs=55.8
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGD 70 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGD 70 (522)
|+++||... ++..++|+.+.|+++||+.|.+...-+++.+.|..||+. |. ++.+|++|||..||
T Consensus 1 ~~i~vk~~~--~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~-L~---d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD--GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKV-LE---DDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC--ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEE-CC---CCCCHHHcCCcCCC
Confidence 899999955 689999999999999999999987667778999999874 52 67999999999886
No 13
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=97.89 E-value=2.4e-05 Score=63.50 Aligned_cols=73 Identities=18% Similarity=0.273 Sum_probs=62.5
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
||+=||.. .+++..++|..+.|+.+||..|++...-+++..+|..+|+. | +|+.+|++|||..|+.|++++..
T Consensus 1 m~i~v~~~-~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~-L---~d~~~L~~~~i~~~~~i~l~~~~ 73 (76)
T cd01803 1 MQIFVKTL-TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQ-L---EDGRTLSDYNIQKESTLHLVLRL 73 (76)
T ss_pred CEEEEEcC-CCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEE-C---CCCCcHHHcCCCCCCEEEEEEEc
Confidence 88889983 35778899999999999999999987657778899999874 5 27789999999999999999863
No 14
>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=97.81 E-value=4.5e-05 Score=63.57 Aligned_cols=72 Identities=22% Similarity=0.307 Sum_probs=60.1
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
||+-||... +++..|||+.+.|.+|||+.|++...-+.+..+|..+|| .|. |+ +|++|||..|+-|+++.+-
T Consensus 2 m~I~Vk~~~-G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk-~L~---d~-~L~~~gi~~~~~i~l~~~~ 73 (78)
T cd01804 2 MNLNIHSTT-GTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRET-RLS---SG-KLQDLGLGDGSKLTLVPTV 73 (78)
T ss_pred eEEEEEECC-CCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCc-CCC---CC-cHHHcCCCCCCEEEEEeec
Confidence 888899843 466889999999999999999998744778899999988 342 55 8999999999999998753
No 15
>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=97.81 E-value=3.1e-05 Score=61.97 Aligned_cols=65 Identities=23% Similarity=0.374 Sum_probs=58.7
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
++++..++|+.++|+++||..|.....-+.+...|..||+-- +|..||.+|||..|+.|++++.+
T Consensus 4 ~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L----~d~~tL~~~~i~~~~~I~l~~k~ 68 (69)
T PF00240_consen 4 SGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKEL----DDDKTLSDYGIKDGSTIHLVIKP 68 (69)
T ss_dssp TSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEE----STTSBTGGGTTSTTEEEEEEESS
T ss_pred CCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecc----cCcCcHHHcCCCCCCEEEEEEec
Confidence 456999999999999999999999988888999999999865 38999999999999999998754
No 16
>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=97.77 E-value=4e-05 Score=67.36 Aligned_cols=64 Identities=27% Similarity=0.332 Sum_probs=57.7
Q ss_pred ccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 11 KETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 11 ~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
+.-..++|....|+++||..|.+.+.-+++.=+|++||+ +|. |+..||++|||.||--|++.+.
T Consensus 14 ~~~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~-~L~--DDsrTLssyGv~sgSvl~Llid 77 (107)
T cd01795 14 RGEKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGK-ILS--DDCATLGTLGVIPESVILLKAD 77 (107)
T ss_pred CCCceEEeCccccHHHHHHHHHHHhcCCcccceeeecCc-eec--cCCccHHhcCCCCCCEEEEEec
Confidence 346788999999999999999999988888889999999 775 7999999999999999999984
No 17
>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=97.74 E-value=6.6e-05 Score=62.20 Aligned_cols=70 Identities=10% Similarity=0.109 Sum_probs=58.0
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
|++-||.. .+++..++|+++.|.+|||+.|++.-.-+++..+|..+|| ++. |+.||+++||..|+-|++-
T Consensus 2 ~~i~vkt~-~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk--~L~--D~~tL~~ygi~~~stv~l~ 71 (73)
T cd01791 2 IEVVCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYT--IFK--DHISLGDYEIHDGMNLELY 71 (73)
T ss_pred EEEEEECC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCc--CCC--CCCCHHHcCCCCCCEEEEE
Confidence 66777772 2588889999999999999999988755888889998887 343 7789999999999999874
No 18
>KOG0281 consensus Beta-TrCP (transducin repeats containing)/Slimb proteins [Function unknown]
Probab=97.73 E-value=3.1e-05 Score=80.91 Aligned_cols=50 Identities=20% Similarity=0.381 Sum_probs=47.1
Q ss_pred ccccCCc----HHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHHhh
Q 040442 370 ACWTHLP----TELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEE 419 (522)
Q Consensus 370 p~l~~LP----~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~d 419 (522)
+.+..|| +++.+.||+|||..||+++..+|++|+.+.+|..+||.++.+.
T Consensus 73 DFi~~lP~~gl~hi~e~ilsyld~~sLc~celv~k~W~r~l~dg~~WKkLie~~ 126 (499)
T KOG0281|consen 73 DFITALPEQGLDHIAENILSYLDALSLCACELVCKEWKRVLSDGMLWKKLIERM 126 (499)
T ss_pred HHHHhcccccHHHHHHHHHHhcchhhhhHHHHHHHHHHHHhccchHHHHHHHHh
Confidence 3458899 9999999999999999999999999999999999999999985
No 19
>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=97.67 E-value=0.00012 Score=61.08 Aligned_cols=72 Identities=21% Similarity=0.300 Sum_probs=59.0
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEe--cCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSL--NRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSL--N~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
|++-||.. .++++.++++.+.|.+|||+.+++...-+.+..+|++ +|+ .| . |+.+|++|||..|+-|++++.
T Consensus 3 ~~i~Vk~~-~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~-~L-~--D~~tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 3 WDLKVKML-GGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSRE-VL-Q--DGVPLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred eEEEEEeC-CCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCC-CC-C--CCCCHHHcCCCCCCEEEEEEE
Confidence 67888883 3578889999999999999999998755778888864 344 44 2 788999999999999999875
No 20
>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=97.61 E-value=7.9e-05 Score=60.31 Aligned_cols=71 Identities=24% Similarity=0.427 Sum_probs=61.1
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCC-CceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSP-SSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~-~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
|++.||.. .++++.+.|..+.|++.|.+..++...-+. +++.|.++|+. | ++++|+.++||..||.|.|++
T Consensus 1 I~i~v~~~-~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~-L---~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQ-DGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKR-L---DPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEET-TSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEE-E----TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeC-CCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEE-c---CCCCCHHHCCCCCCCEEEEEC
Confidence 78999994 456999999999999999999999987777 78999999987 5 378999999999999999863
No 21
>PTZ00044 ubiquitin; Provisional
Probab=97.55 E-value=0.00016 Score=59.09 Aligned_cols=73 Identities=15% Similarity=0.219 Sum_probs=64.0
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
|++-||.. .++|..+++..+.|+.+||+.|++...-+++..+|..+|+. | +|+.+|++|||..|+-|++++..
T Consensus 1 m~i~vk~~-~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~-L---~d~~~l~~~~i~~~~~i~l~~~~ 73 (76)
T PTZ00044 1 MQILIKTL-TGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQ-M---SDDLKLSDYKVVPGSTIHMVLQL 73 (76)
T ss_pred CEEEEEeC-CCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEE-c---cCCCcHHHcCCCCCCEEEEEEEc
Confidence 88889985 55788899999999999999999987668888999999996 4 38889999999999999999863
No 22
>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=97.54 E-value=0.00015 Score=59.25 Aligned_cols=69 Identities=19% Similarity=0.257 Sum_probs=57.6
Q ss_pred eeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 4 RLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 4 RvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
-||....++|..|++....|.++||+.|++.-.-+++..+|..|||. |. |+..+|++|||..||.|++.
T Consensus 2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~-L~--D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRE-LV--DNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeE-cc--CCcccHHHcCCCCCCEEEEe
Confidence 45554367889999999999999999999886557888999999994 42 45589999999999999874
No 23
>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=97.50 E-value=0.00021 Score=58.63 Aligned_cols=70 Identities=20% Similarity=0.169 Sum_probs=61.4
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
|++=||. . +|..++|..+.|..+||+.|++.-.-+++..+|..+||. | +|+.||++|||..|+-|++++.
T Consensus 1 mqi~vk~--~-~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~-L---~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 1 MQLFVRA--Q-NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVP-L---EDDATLGQCGVEELCTLEVAGR 70 (74)
T ss_pred CEEEEEC--C-CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeE-C---CCCCCHHHcCCCCCCEEEEEEe
Confidence 7888888 3 688999999999999999999886557788999999995 5 3789999999999999999975
No 24
>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=97.47 E-value=0.00018 Score=59.54 Aligned_cols=65 Identities=12% Similarity=0.148 Sum_probs=56.8
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
.++|+.|||....|+++||+.|.+...-++++..|.++|+ .| +|+.+|++|||..|+-|++++..
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~-~L---~d~~tL~~~~i~~g~~l~v~~~~ 70 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGI-FI---KDSNSLAYYNLANGTIIHLQLKE 70 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCE-Ec---CCCCcHHHcCCCCCCEEEEEEec
Confidence 5789999999888999999999987655888899999997 34 37799999999999999999864
No 25
>KOG3926 consensus F-box proteins [Amino acid transport and metabolism]
Probab=97.46 E-value=0.00014 Score=73.90 Aligned_cols=72 Identities=18% Similarity=0.343 Sum_probs=61.6
Q ss_pred ccccCCcHHHHHHHhccCC-ccchhhHHHhhHHHHHHhcCcHHHHHHHHhhcCCCC-------CCCCCCChHHHHHHHHH
Q 040442 370 ACWTHLPTELKLKLLECLP-GVDVAKMECVSRDMRYLASNNELWRQKFVEEFGGPA-------DAQGKTNWKERFVFNWE 441 (522)
Q Consensus 370 p~l~~LP~ELll~ILs~Ld-~~dL~~ls~vCr~lr~LasDd~LWr~lc~~df~~~~-------~~~~~~~WK~lY~~~~~ 441 (522)
..|..||.|+++.|+.+|+ .+||.+++++--.++.+++|+.+||.+|+=.|.-.. ......+||+.|....+
T Consensus 200 ltl~dLP~e~vl~Il~rlsDh~dL~s~aqa~etl~~l~~e~~iWkkLcqfHF~erQi~~~l~l~k~~q~dWkqmyf~L~r 279 (332)
T KOG3926|consen 200 LTLHDLPLECVLNILLRLSDHRDLESLAQAWETLAKLSEERRIWKKLCQFHFNERQIHTILILSKKGQKDWKQMYFQLRR 279 (332)
T ss_pred CCcccchHHHHHHHHHHccCcchHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhhhccccchhHHHHHHHHHH
Confidence 4789999999999998776 999999999999999999999999999999886532 12245789999988654
No 26
>KOG4761 consensus Proteasome formation inhibitor PI31 [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=0.00024 Score=71.00 Aligned_cols=131 Identities=15% Similarity=0.117 Sum_probs=97.8
Q ss_pred HHhHHhcCCCCccchHHHHHHHHHHhcCCcccCCCC--------CcccccCCCcccccCC-ce-eEEeccCccccCCCCC
Q 040442 204 VLGEKLGDRLGPHGLVIVAVHEILLESGFVGFDSES--------GMRIDQFDLPDHLLLK-GV-SMSYTLPEILNDSSKD 273 (522)
Q Consensus 204 vl~~~~~~~~~~~~~LvvavHalmLESGFv~~~~~s--------g~~~~~~~lp~~w~s~-g~-sl~YtlP~l~~~~~~~ 273 (522)
++..........+|+|++++|.++.-+||.-.+..+ ++....-..|++|-.. .- .|+|+.|. ..
T Consensus 10 l~~s~~p~irkksD~li~~vH~~ltk~g~~~~~~G~~~~~~da~S~~~~c~~~pdgWN~d~d~Yal~Y~~~g-s~----- 83 (266)
T KOG4761|consen 10 LIRSAQPAIRKKSDLLIAVVHFLLTKHGYRCTGVGDPAGPQDAGSELLQCEVGPDGWNEDDDEYALRYTDPG-SK----- 83 (266)
T ss_pred HHHhcccccccccceeeehhhHHHhhheeEEeeccCCCCchhhcccccccccCccccccCCceeEEEEecCc-ch-----
Confidence 344444567789999999999999999998775531 1222334469999876 34 99999993 22
Q ss_pred ccceEEEEEEEcCCEEEEEEeecCCCCceEEEEecccCccccchhhhcccccccccccccccccchhHHHHHHHhhhcch
Q 040442 274 VTESVALKYQILGHFVNIYGSLAKGDSGMHKLCLNAYNFGPILSLVWANSDQNCSLLEYKSFDCGKEVFEFWKNVKDGLA 353 (522)
Q Consensus 274 ~~~~v~L~~~~lG~~vvV~g~l~~~~s~v~~l~Ld~~~yv~~l~~~~~~s~~~~~~~~~~~~~~~~~l~~Lw~~~Kd~La 353 (522)
..-|+|..|.+.++||..-. +.++|-.+||+...||+-. ..+.++ ..|+++.+|=+.++-+|.
T Consensus 84 ---kyLvka~~~e~sLlinll~~-~sk~~a~l~le~e~yvdes--------~~gd~~-----~~~kn~dklvtrlrsEii 146 (266)
T KOG4761|consen 84 ---KYLVKALAMEDSLLINLLAS-GSKEVAHLCLEPEDYVDES--------CEGDYD-----TQFKNLDKLVTRLRSEII 146 (266)
T ss_pred ---hheeeeeecccceehhhhhc-CCcceeEEEechhhccccc--------cCCchh-----hhccCHHHHHHHHHHhhc
Confidence 68899999999999997665 5577878999999999721 123344 778999988888888777
Q ss_pred hHHH
Q 040442 354 LPLL 357 (522)
Q Consensus 354 ~plL 357 (522)
-|+.
T Consensus 147 dpl~ 150 (266)
T KOG4761|consen 147 DPLV 150 (266)
T ss_pred Cccc
Confidence 7766
No 27
>KOG0274 consensus Cdc4 and related F-box and WD-40 proteins [General function prediction only]
Probab=97.39 E-value=9.5e-05 Score=82.14 Aligned_cols=78 Identities=22% Similarity=0.392 Sum_probs=64.2
Q ss_pred CCccccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHHhhcCCCCCC------C-C---CCChHHHHH
Q 040442 368 LPACWTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEEFGGPADA------Q-G---KTNWKERFV 437 (522)
Q Consensus 368 lpp~l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~df~~~~~~------~-~---~~~WK~lY~ 437 (522)
-+..+..||.|+..+||.+||+++|+++++||+.|+.++.++..|.+.|.+..+...+. . . ...||..|.
T Consensus 104 ~~dfi~~lp~el~~~il~~Ld~~~l~~~~~v~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ks~~~ 183 (537)
T KOG0274|consen 104 QRDFLSLLPSELSLHILSFLDGRDLLAVRQVCRNWNKLLDDDKVWWRMCRELIGRLPPKCEKGLPLKSGFKGRPWKSFYR 183 (537)
T ss_pred ccchhhcccchhcccccccCCHHHhhhhhhhcchhhhhhhccchhhhhhhhhcccCCcccCcccccccccccchhhhhhh
Confidence 34678999999999999999999999999999999999999999999999876653211 1 1 257999999
Q ss_pred HHHHhhcc
Q 040442 438 FNWEYNRK 445 (522)
Q Consensus 438 ~~~~~~kk 445 (522)
++++..+.
T Consensus 184 ~~~~~~~~ 191 (537)
T KOG0274|consen 184 RRFRLSKN 191 (537)
T ss_pred hhhhcccc
Confidence 88884433
No 28
>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=97.39 E-value=0.00032 Score=57.53 Aligned_cols=69 Identities=17% Similarity=0.237 Sum_probs=57.8
Q ss_pred eeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 4 RLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 4 RvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
.||. -.++|..+|+.++.|.++||+.|++.-.-+++..+|...|+ .| +|+.+|.+|||..|..|+++++
T Consensus 2 ~vk~-~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~-~L---~D~~~l~~~~i~~~~tv~~~~~ 70 (70)
T cd01794 2 KVRL-STGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGK-LL---TDKTRLQETKIQKDYVVQVIVN 70 (70)
T ss_pred eEEc-CCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCe-EC---CCCCCHHHcCCCCCCEEEEEeC
Confidence 3454 24788999999999999999999887544777889999998 45 3889999999999999999863
No 29
>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=97.38 E-value=0.00037 Score=59.29 Aligned_cols=72 Identities=21% Similarity=0.322 Sum_probs=62.7
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
|.++||.. .+.++.++|-.+.|+..|+..+++.-.-+.++++|..||+ .| ++++|+.+|||..||.|++++.
T Consensus 12 i~I~v~~~-~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~-~L---~~~~T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 12 INLKVKGQ-DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQ-RI---RDNQTPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred EEEEEECC-CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCe-EC---CCCCCHHHcCCCCCCEEEEEEe
Confidence 57888885 5788999999999999999999999766788999999995 45 3789999999999999999874
No 30
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=8.7e-05 Score=76.94 Aligned_cols=45 Identities=31% Similarity=0.646 Sum_probs=43.1
Q ss_pred cccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHH
Q 040442 371 CWTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQK 415 (522)
Q Consensus 371 ~l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~l 415 (522)
.|.+||+||++.||+-|.-++|++++.||++|+.++.|+.||..+
T Consensus 97 ~~~slpDEill~IFs~L~kk~LL~~~~VC~Rfyr~~~de~lW~~l 141 (419)
T KOG2120|consen 97 SWDSLPDEILLGIFSCLCKKELLKVSGVCKRFYRLASDESLWQTL 141 (419)
T ss_pred CcccCCHHHHHHHHHhccHHHHHHHHHHHHHHhhccccccceeee
Confidence 489999999999999999999999999999999999999999874
No 31
>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=97.36 E-value=0.00029 Score=58.66 Aligned_cols=63 Identities=24% Similarity=0.289 Sum_probs=53.7
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccc-cCCeEEEec
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVT-AGDLIFYSR 76 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIv-SGDLI~~~l 76 (522)
.+.|..++|..+.|+++||+.|.+...-+++..+| .+|+. |. +++.+|++|||. .||.+++-+
T Consensus 11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~-L~--dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQR-LA--RDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCe-eC--CCcCCHHHcCCCCCCCEEEEEe
Confidence 34889999999899999999999886668888899 99987 32 588999999999 899998753
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=97.31 E-value=0.00056 Score=56.68 Aligned_cols=70 Identities=11% Similarity=0.142 Sum_probs=57.8
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEE---ecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFS---LNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lS---LN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
|++=|+. ++++..|||.++.|+++||+.|.+...=++++-.|- +-|| +. .|+.+|++|||..|+-|.++-
T Consensus 1 ~~i~vk~--~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk--~l--~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVKW--GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGK--PA--EDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEEE--CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCC--cC--CCCcCHHHcCCCCCCEEEEEe
Confidence 6778889 999999999999999999999999976577765544 3565 33 378999999999999998863
No 33
>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=97.29 E-value=0.00057 Score=57.20 Aligned_cols=74 Identities=22% Similarity=0.357 Sum_probs=62.4
Q ss_pred Ceeeeeecccccceecc-CCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 1 MKLRLRSLENKETLRLE-VPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 1 MKLRvR~~~~~~T~rle-vp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
|++=||.+..+.+..++ +..+.|.++||+.|++...-+++..+|-.+||. | .|+.||++|||..|+-|++++.+
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~-L---~D~~tL~~y~i~~~~~i~l~~~~ 75 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQ-M---EDGHTLFDYNVGLNDIIQLLVRQ 75 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEE-C---CCCCCHHHcCCCCCCEEEEEEec
Confidence 88999996555556785 788889999999999876557788899999987 3 38999999999999999999865
No 34
>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=97.28 E-value=0.00061 Score=55.40 Aligned_cols=70 Identities=14% Similarity=0.291 Sum_probs=57.5
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
||+=||....+ ..+++..+.|.++||+.+++...-+.+.++|-.+||- | .|+.+|++|||..|+-|++++
T Consensus 1 ~~i~vk~~~g~--~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~-L---~d~~tL~~~~i~~~stl~l~~ 70 (71)
T cd01808 1 IKVTVKTPKDK--EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKI-L---KDTDTLTQHNIKDGLTVHLVI 70 (71)
T ss_pred CEEEEEcCCCC--EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeE-c---CCCCcHHHcCCCCCCEEEEEE
Confidence 67888886443 3789988889999999999887556677888888873 4 277899999999999999986
No 35
>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=97.27 E-value=0.0004 Score=56.96 Aligned_cols=64 Identities=17% Similarity=0.189 Sum_probs=55.4
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
.++|..+|+..+.|+.+||+.|++...-+++.+.|..|||--. |+.+|++|||.+|+-|++++.
T Consensus 7 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~----D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 7 KGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPME----DEHPLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECC----CCCCHHHcCCCCCCEEEEEEE
Confidence 4578889998889999999999988655788899999988643 779999999999999999875
No 36
>PF06881 Elongin_A: RNA polymerase II transcription factor SIII (Elongin) subunit A; InterPro: IPR010684 This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0016021 integral to membrane
Probab=97.26 E-value=0.00036 Score=61.86 Aligned_cols=68 Identities=16% Similarity=0.294 Sum_probs=55.0
Q ss_pred ccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHHhhcCCCC---CCCCCCChHHHHHHHHH
Q 040442 372 WTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEEFGGPA---DAQGKTNWKERFVFNWE 441 (522)
Q Consensus 372 l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~df~~~~---~~~~~~~WK~lY~~~~~ 441 (522)
+-.+|.+++.-||....++.|.++...|-.+.. .++.||+.+|.++|+... ......+|+++|....+
T Consensus 4 vG~~py~ll~piL~~~~~~QL~~iE~~np~l~~--~tdeLW~~~i~rdFp~~~~~~~~~~~~~Wr~~Y~~~~~ 74 (109)
T PF06881_consen 4 VGDVPYHLLRPILEKCSPEQLRRIEDNNPHLIE--DTDELWKKLIKRDFPEESKRQKPKEPESWRELYEKLKK 74 (109)
T ss_pred cCCCCHHHHHHHHccCCHHHHHHHHHhCCCcch--hhHHHHHHHHHhHCcChhhcccccccchHHHHHHHHHH
Confidence 456899999999999999999999999944332 367999999999998632 22345799999999765
No 37
>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=97.23 E-value=0.0006 Score=60.16 Aligned_cols=72 Identities=15% Similarity=0.185 Sum_probs=62.2
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
|++=||.+ .++|+.|||..+.|.++||+.|++.-.-+++..+|..+||. | .|+.+|++|||..|+-|++++.
T Consensus 28 M~I~Vk~l-~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~-L---~D~~tL~dy~I~~~stL~l~~~ 99 (103)
T cd01802 28 MELFIETL-TGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNME-L---EDEYCLNDYNISEGCTLKLVLA 99 (103)
T ss_pred EEEEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEE-C---CCCCcHHHcCCCCCCEEEEEEe
Confidence 77778874 36788899999999999999999886557888999999997 4 3789999999999999999875
No 38
>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=97.04 E-value=0.0016 Score=51.19 Aligned_cols=67 Identities=22% Similarity=0.336 Sum_probs=55.9
Q ss_pred eeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 5 LRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 5 vR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
||.. .+++..++++.+.|+++||..|.+...-+++.+.|..||+. | ++..+|.++||..|+-|++..
T Consensus 2 v~~~-~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~-l---~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTL-TGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKI-L---KDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEcc-CCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcC-C---CCcCCHHHCCCCCCCEEEEEE
Confidence 5553 47788899999899999999999987667778888889963 4 378899999999999998864
No 39
>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=96.91 E-value=0.0015 Score=69.91 Aligned_cols=73 Identities=15% Similarity=0.281 Sum_probs=62.4
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcC---CCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLIS---SSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~---~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
||+-||.+ .+++..|+|..+.|+.+||.+|...-. -+.+..+|..+|| .| .|..+|.+|||..||.|.+++.
T Consensus 1 MkItVKtl-~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~Gk-iL---~Dd~tL~dy~I~e~~~Ivvmv~ 75 (378)
T TIGR00601 1 MTLTFKTL-QQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGK-IL---SDDKTVREYKIKEKDFVVVMVS 75 (378)
T ss_pred CEEEEEeC-CCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCE-EC---CCCCcHHHcCCCCCCEEEEEec
Confidence 99999985 457899999999999999999998864 3667899999999 34 2778999999999999999985
Q ss_pred C
Q 040442 78 P 78 (522)
Q Consensus 78 ~ 78 (522)
-
T Consensus 76 k 76 (378)
T TIGR00601 76 K 76 (378)
T ss_pred c
Confidence 3
No 40
>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=96.87 E-value=0.0017 Score=52.54 Aligned_cols=63 Identities=17% Similarity=0.317 Sum_probs=55.7
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
.+++..+++..+.|.++||+.|++...-+++..+|..+||- | +|+.+|++|||..|.-|+++.
T Consensus 7 ~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~-L---~d~~~l~~~~i~~~stl~l~~ 69 (70)
T cd01798 7 TGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKE-L---RNTTTIQECDLGQQSILHAVR 69 (70)
T ss_pred CCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeE-C---CCCCcHHHcCCCCCCEEEEEe
Confidence 46788999999999999999999997667778999999997 4 378999999999999999874
No 41
>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=96.71 E-value=0.0031 Score=53.42 Aligned_cols=72 Identities=18% Similarity=0.128 Sum_probs=59.8
Q ss_pred Ceeeeeeccccc-ceeccCCCCcchHHHHHHHhhhcCC--CCCceEEEecCCCCCCCCCCcccccccc--cccCCeEEEe
Q 040442 1 MKLRLRSLENKE-TLRLEVPSSCTLHELGETLSQLISS--SPSSLRFSLNRKDELHASSPPESLHSLG--VTAGDLIFYS 75 (522)
Q Consensus 1 MKLRvR~~~~~~-T~rlevp~~~TL~eLr~~l~~~l~~--s~~~~~lSLN~kd~L~~~~~~~tL~slG--IvSGDLI~~~ 75 (522)
|+|-||...++. +..||++.+.|..|||++|++.... +++..+|=-.|| -| . |++||++++ |-.|.-||++
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GK-iL-k--D~~tL~~~~~~~~~~~tiHLV 77 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGK-LL-P--DHLKLRDVLRKQDEYHMVHLV 77 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCe-ec-c--chhhHHHHhhcccCCceEEEE
Confidence 568888855553 6788889999999999999998743 567899999999 44 3 889999998 9999999987
Q ss_pred c
Q 040442 76 R 76 (522)
Q Consensus 76 l 76 (522)
.
T Consensus 78 ~ 78 (79)
T cd01790 78 C 78 (79)
T ss_pred e
Confidence 4
No 42
>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=96.61 E-value=0.0061 Score=50.56 Aligned_cols=54 Identities=19% Similarity=0.315 Sum_probs=45.1
Q ss_pred CCCcchHHHHHHHhhhcCC-CCCceEEEecCCCCCCCCCCcccccccccccCCeEEE
Q 040442 19 PSSCTLHELGETLSQLISS-SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 19 p~~~TL~eLr~~l~~~l~~-s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
+.++|++||+..++....- +.+..+|+++.+...+. ++++|+++||.+|+-|||
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~--d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLK--DDDTLVDLGVGAGATLYV 74 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccC--CcccHhhcCCCCCCEEEE
Confidence 5667999999999988533 56788999888887774 778999999999998886
No 43
>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=96.56 E-value=0.0085 Score=50.78 Aligned_cols=73 Identities=21% Similarity=0.276 Sum_probs=54.5
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEE-ecCCC----CCCCCCCcccccccccccCCeEEEec
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFS-LNRKD----ELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lS-LN~kd----~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
++.|.+-.+....-..+|..-|+++||++|....--++++-+|. .++++ +|. +|.++|.+|||..|.-|||+=
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~--~d~~~L~~y~~~dg~~IhVvD 80 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLD--DDDALLGSYPVDDGCRIHVID 80 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecC--CCccEeeeccCCCCCEEEEEe
Confidence 45566622233334449989999999999988876677777777 46665 343 689999999999999999984
No 44
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=96.47 E-value=0.0054 Score=51.89 Aligned_cols=75 Identities=29% Similarity=0.405 Sum_probs=54.2
Q ss_pred eeeeeecccc-cceeccCCCCcchHHHHHHHhhhcCCCCCceEEEec-CC-CC--CCCCCCcccccccccccCCeEEEec
Q 040442 2 KLRLRSLENK-ETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLN-RK-DE--LHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 2 KLRvR~~~~~-~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN-~k-d~--L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
||.|.+-..+ .-....+|...|++|||..|.....-+++..+|.|- .+ +. ..-.++.++|.+|||..|+-|+|.=
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D 82 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD 82 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence 5666663332 356677888999999999999998878887777776 22 11 1113679999999999999999973
No 45
>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=96.27 E-value=0.0062 Score=50.80 Aligned_cols=68 Identities=22% Similarity=0.409 Sum_probs=47.7
Q ss_pred eeeeecccc-cceeccCCCCcchHHHHHHHhhhcCC----CCC--ceEEE-ecCCCCCCCCCCcccccccccccCCeEEE
Q 040442 3 LRLRSLENK-ETLRLEVPSSCTLHELGETLSQLISS----SPS--SLRFS-LNRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 3 LRvR~~~~~-~T~rlevp~~~TL~eLr~~l~~~l~~----s~~--~~~lS-LN~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
-||-+.... +++.+.||.+.++.+|-..|.+.+.. ... .+.|+ .+|. .| ++++||+++||..||++++
T Consensus 3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~-~L---~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGR-PL---DPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTE-EE---ETTSBCGGGT--TT-EEEE
T ss_pred EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCc-cc---CCcCcHhHcCCCCCCEEEe
Confidence 466665554 89999999999999999999999854 222 36777 4444 56 4899999999999999986
No 46
>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=96.10 E-value=0.0099 Score=49.97 Aligned_cols=54 Identities=17% Similarity=0.345 Sum_probs=46.0
Q ss_pred CCCcchHHHHHHHhhhcC---CCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 19 PSSCTLHELGETLSQLIS---SSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 19 p~~~TL~eLr~~l~~~l~---~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
|++.|..+||+.|++... .+++.++|-.+||. | +|+.||++|||..|+-|+++.
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKi-L---~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRK-L---KDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcC-C---CCCCcHHHcCCCCCCEEEEEe
Confidence 455699999999999973 25778999999996 4 388999999999999999874
No 47
>PLN02560 enoyl-CoA reductase
Probab=95.62 E-value=0.029 Score=58.64 Aligned_cols=72 Identities=26% Similarity=0.428 Sum_probs=53.6
Q ss_pred Ceeeeeecccccce---eccCCCCcchHHHHHHHhhhcCC-CCCceEEEec---CCCC--CCCCCCcccccccccccCCe
Q 040442 1 MKLRLRSLENKETL---RLEVPSSCTLHELGETLSQLISS-SPSSLRFSLN---RKDE--LHASSPPESLHSLGVTAGDL 71 (522)
Q Consensus 1 MKLRvR~~~~~~T~---rlevp~~~TL~eLr~~l~~~l~~-s~~~~~lSLN---~kd~--L~~~~~~~tL~slGIvSGDL 71 (522)
||+=|+... +++. .|||+.++|++|||..+++...- +.+..+|++. ||.. +. +|+++|+++||.+|+-
T Consensus 1 M~I~Vk~~~-Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L--~d~ktL~d~gv~~gst 77 (308)
T PLN02560 1 MKVTVVSRS-GREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVL--DDSKSLKDYGLGDGGT 77 (308)
T ss_pred CEEEEEcCC-CCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCcccc--CCCCCHHhcCCCCCce
Confidence 777777522 3333 58999999999999999998543 6677888884 4322 32 4778999999999997
Q ss_pred EEEe
Q 040442 72 IFYS 75 (522)
Q Consensus 72 I~~~ 75 (522)
|+|-
T Consensus 78 Ly~k 81 (308)
T PLN02560 78 VVFK 81 (308)
T ss_pred EEEE
Confidence 6664
No 48
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=95.49 E-value=0.042 Score=49.37 Aligned_cols=73 Identities=21% Similarity=0.323 Sum_probs=54.1
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCC-------CCCceEEEecCCCCCCCCCCcccccccccccCCe---
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISS-------SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDL--- 71 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~-------s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDL--- 71 (522)
-||.|+.+-+.+..+.++.+.|.++||++|..--.. +.+.++|=..|| ++. |+.||++|++..||+
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~Gr--iL~--d~~tL~~~~~~~~~~~~~ 79 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGR--ILE--DNKTLSDCRLPSGETPGG 79 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTE--EE---SSSBTGGGT--TTSETT-
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCe--ecC--CcCcHHHhCCCCCCCCCC
Confidence 377777655558999999988999999999865422 344699999999 543 999999999999995
Q ss_pred ---EEEecCC
Q 040442 72 ---IFYSRDP 78 (522)
Q Consensus 72 ---I~~~l~~ 78 (522)
+|+++-|
T Consensus 80 ~~vmHlvvrp 89 (111)
T PF13881_consen 80 PTVMHLVVRP 89 (111)
T ss_dssp -EEEEEEE-S
T ss_pred CEEEEEEecC
Confidence 7777755
No 49
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=95.32 E-value=0.025 Score=61.89 Aligned_cols=73 Identities=16% Similarity=0.290 Sum_probs=63.2
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
+.|||+-..++...++|++++|+.|||+.|++......|.+.|=..||= +- |.+||..+||..|=-||++..-
T Consensus 15 ~irV~Vkt~~dk~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrI--LK--D~dTL~~~gI~Dg~TvHLVik~ 87 (493)
T KOG0010|consen 15 LIRVTVKTPKDKYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRI--LK--DDDTLKQYGIQDGHTVHLVIKS 87 (493)
T ss_pred eeEEEEecCCcceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCcc--cc--ChhhHHHcCCCCCcEEEEEecc
Confidence 4555554488889999999999999999999998889999999999983 43 8999999999999999999853
No 50
>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=94.69 E-value=0.094 Score=43.50 Aligned_cols=71 Identities=18% Similarity=0.275 Sum_probs=56.2
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCc-eEEEe-cCCCCCCCCCCcccccccccccCCeEEE
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSS-LRFSL-NRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~-~~lSL-N~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
++|||+- .+.++.-.++.++|+++|.+.|...+.....+ |.|.- .-+-.|... ++.||.++|+..+-.|+|
T Consensus 8 ~I~vRlp-dG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~-~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 8 RIQVRLP-DGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDE-DSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEET-TSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCST-TTSBTCCCTTSSCEEEEE
T ss_pred EEEEECC-CCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCcc-ccccHHHhcCCCCeEEEE
Confidence 6889984 45678888999999999999999998665554 88754 346677643 369999999999998887
No 51
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=94.21 E-value=0.18 Score=42.00 Aligned_cols=72 Identities=17% Similarity=0.246 Sum_probs=51.7
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEec-CCCCCCCCCCcccccccccccCCeEEE
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLN-RKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN-~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
+++||. -.+.++...++.+.||++|.+.|........+.|.|.-+ -+..|...|...||.++|+...-.+.+
T Consensus 6 ~I~iRl-PdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRL-PDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEc-CCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 678887 456667788888999999999996655445556766443 233665433378999999987776654
No 52
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=94.08 E-value=0.02 Score=61.94 Aligned_cols=52 Identities=21% Similarity=0.250 Sum_probs=46.9
Q ss_pred ccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHHhhcCCC
Q 040442 372 WTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEEFGGP 423 (522)
Q Consensus 372 l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~df~~~ 423 (522)
--.||+|++++||++||-++|++.+++|+.|+.+|.|..=|.++=.-+|.-.
T Consensus 72 ~~~LPpEl~lkvFS~LDtksl~r~a~~c~~~n~~AlD~~~~q~idL~t~~rD 123 (483)
T KOG4341|consen 72 SRSLPPELLLKVFSMLDTKSLCRAAQCCTMWNKLALDGSCWQHIDLFTFQRD 123 (483)
T ss_pred cccCCHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhccccceeeehhcchhc
Confidence 3679999999999999999999999999999999999999998876666543
No 53
>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=93.69 E-value=0.2 Score=36.09 Aligned_cols=62 Identities=27% Similarity=0.371 Sum_probs=50.3
Q ss_pred ccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 11 KETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 11 ~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
+++..+.+....|+++|++.+.+....+.+.+.|..|+...- +...+.++++..||-|.+.-
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILP----DSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECC----CCCcHHHcCCCCCCEEEEEe
Confidence 667778888788999999999999876777899999987543 44555789999999998863
No 54
>KOG4408 consensus Putative Mg2+ and Co2+ transporter CorD [Inorganic ion transport and metabolism]
Probab=92.89 E-value=0.0077 Score=63.14 Aligned_cols=72 Identities=18% Similarity=0.169 Sum_probs=58.8
Q ss_pred CccccCCcHHHHHHHhccCCccchhhHHHhhHHHHHHhcCcHHHHHHHHhhcCCCCCCC--CCCChHHHHHHHH
Q 040442 369 PACWTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEEFGGPADAQ--GKTNWKERFVFNW 440 (522)
Q Consensus 369 pp~l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~LasDd~LWr~lc~~df~~~~~~~--~~~~WK~lY~~~~ 440 (522)
|=+++.+|..+++.|+++|..++++++++|.+++..+++...+|.+.|.++|....+.. ....||..+..-|
T Consensus 5 ~~~le~~~~~~l~~vls~~~~~~~~~~a~vs~rLk~~~s~~~lw~r~c~k~l~is~e~~~~~~etgqsF~h~~f 78 (386)
T KOG4408|consen 5 PLGLEWLPRDPLHLVLSFLLYRDLINCAYVSRRLKELGSHLPLWNRPCKKYLLISEEEKTQKYETGQSFLHDTF 78 (386)
T ss_pred ccchhhcccccceeeecccchhhhhcceeechHHhhhhhccccccccccccccccccccCCcccccceeeeeec
Confidence 34789999999999999999999999999999999999999999999999887764322 2445554444433
No 55
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=92.74 E-value=0.45 Score=39.27 Aligned_cols=65 Identities=12% Similarity=0.172 Sum_probs=48.1
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEec-CCCCCCCCCCccccccccccc
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLN-RKDELHASSPPESLHSLGVTA 68 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN-~kd~L~~~~~~~tL~slGIvS 68 (522)
++|||.-+ +.++.-.++.+.||++|++.|...... ...|.|.-+ -+-.|..++.+.||.++|++.
T Consensus 4 ~i~iRlpd-G~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~ 69 (77)
T cd01767 4 KIQIRLPD-GKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN 69 (77)
T ss_pred EEEEEcCC-CCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc
Confidence 68999844 556777788899999999999876433 445766654 234565556899999999994
No 56
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=91.28 E-value=0.49 Score=39.61 Aligned_cols=70 Identities=13% Similarity=0.236 Sum_probs=50.1
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEE--EecCCCCCCCCCCcccccccccccCCeEEE
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRF--SLNRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~l--SLN~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
+++||. -.++++.-.++-+.||++|++.|....... ..|.| +.-+| .++..+-+.||.++|++.--.|+|
T Consensus 6 ~i~iRl-p~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk-~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 6 RIQIRL-LDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRK-VFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEEC-CCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCe-ECCcccccCCHHHCCCCCceEEEE
Confidence 688887 466778888888999999999998664322 44544 44555 343334478999999998776665
No 57
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=90.11 E-value=0.58 Score=50.51 Aligned_cols=78 Identities=23% Similarity=0.353 Sum_probs=61.0
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCC--CCCceEEEecC--CCCCCCCCCcccccccccccCCeEEEec
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISS--SPSSLRFSLNR--KDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~--s~~~~~lSLN~--kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
|=+|+|+ -+.+.|+|+.++.+|+-|-+.|-.-+.. +.++|.+-=|- +.++-.....+|+..+|+.-||.+++-.
T Consensus 1 Mi~rfRs--k~G~~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 1 MIFRFRS--KEGQRRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEec--CCCceeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 7899999 8899999999999999887777666544 66666665443 3443333468999999999999999999
Q ss_pred CCCc
Q 040442 77 DPYA 80 (522)
Q Consensus 77 ~~~~ 80 (522)
.+.+
T Consensus 79 sd~~ 82 (571)
T COG5100 79 SDIA 82 (571)
T ss_pred cccc
Confidence 7743
No 58
>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional
Probab=89.56 E-value=0.24 Score=53.14 Aligned_cols=38 Identities=26% Similarity=0.424 Sum_probs=34.7
Q ss_pred cccCCcHHHHHHHhccCC-ccchhhHHHhhHHHHHHhcC
Q 040442 371 CWTHLPTELKLKLLECLP-GVDVAKMECVSRDMRYLASN 408 (522)
Q Consensus 371 ~l~~LP~ELll~ILs~Ld-~~dL~~ls~vCr~lr~LasD 408 (522)
.+..||.||+..|..+|+ ..|++++..||+.||..+.-
T Consensus 3 ~Ws~Lp~dll~~i~~~l~~~~d~~~~~~vC~sWr~a~~~ 41 (373)
T PLN03215 3 DWSTLPEELLHMIAGRLFSNVELKRFRSICRSWRSSVSG 41 (373)
T ss_pred ChhhCCHHHHHHHHhhCCcHHHHHHHHhhhhhHHHhccc
Confidence 477899999999999996 88999999999999998763
No 59
>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=88.20 E-value=0.7 Score=42.01 Aligned_cols=61 Identities=25% Similarity=0.366 Sum_probs=49.4
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCccccccccccc
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTA 68 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvS 68 (522)
=||||- .|-|+=++.-++.|+-|||..|..++--+.+.=+|- ..+++. +|..||+.||+.|
T Consensus 4 FlmIrR--~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~--kd~qvL--eD~kTL~d~g~t~ 64 (119)
T cd01788 4 FLMIRR--HKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLY--KDDQLL--DDGKTLGDCGFTS 64 (119)
T ss_pred EEEEEe--cceEEEeecCCcccHHHHHHHHHHHhcCChhHheee--cCceee--cccccHHHcCccc
Confidence 367887 888999999888999999999999987666654444 455776 5999999999965
No 60
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=87.65 E-value=0.57 Score=41.39 Aligned_cols=64 Identities=23% Similarity=0.318 Sum_probs=53.3
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCccccccccccc
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTA 68 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvS 68 (522)
|=+|||- .|-|+-++--++.|+-|||..|.-++-.+-+.-+|-+=-.|.|+ +|+.||+.+|+.|
T Consensus 3 ~f~~VrR--~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL--~D~ktL~d~gfts 66 (110)
T KOG4495|consen 3 VFLRVRR--HKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLL--DDGKTLGDCGFTS 66 (110)
T ss_pred eeeeeee--cceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHh--hccchhhhccccc
Confidence 3467887 78888888888889999999999998877776677776677887 4999999999886
No 61
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=84.48 E-value=1.5 Score=44.75 Aligned_cols=60 Identities=18% Similarity=0.253 Sum_probs=43.1
Q ss_pred ccee-ccCCCCcchHHHHHHHhhh-cCC--CCC--ceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 12 ETLR-LEVPSSCTLHELGETLSQL-ISS--SPS--SLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 12 ~T~r-levp~~~TL~eLr~~l~~~-l~~--s~~--~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
...+ ..+++.+|+.||+..+++. +.. ... +++++.-||.-+ |+++|+++|.-||+-|+|-
T Consensus 12 ~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~----~~s~l~e~~~~s~~~i~vK 77 (297)
T KOG1639|consen 12 LRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLI----DNSKLQEYGDGSGATIYVK 77 (297)
T ss_pred ceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCcccc----chhHHHHhccCCCCEEEEe
Confidence 3455 4455667999999666555 433 222 577788877766 7888999999999888774
No 62
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=84.16 E-value=3.3 Score=34.88 Aligned_cols=66 Identities=11% Similarity=0.150 Sum_probs=47.8
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCC-CCCceEEEec-CCCCCCCCCCcccccccccccCC
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISS-SPSSLRFSLN-RKDELHASSPPESLHSLGVTAGD 70 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~-s~~~~~lSLN-~kd~L~~~~~~~tL~slGIvSGD 70 (522)
+++||. ..++++...++.+.|+++|++.|...... ...+|.|.-+ =+-+|. +.+.||.++|++..=
T Consensus 6 ~iqiRl-pdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~--~~~~Tl~eagL~~s~ 73 (79)
T cd01770 6 SIQIRL-ADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELS--DESLTLKEANLLNAV 73 (79)
T ss_pred EEEEEC-CCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccC--CCCCcHHHCCCcCcE
Confidence 678888 34455556788889999999999987644 3346888655 233575 358999999998543
No 63
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=83.02 E-value=5.5 Score=33.69 Aligned_cols=70 Identities=17% Similarity=0.226 Sum_probs=50.5
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEE--ecCCCCCCCCCCcccccccccccCCeEEE
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFS--LNRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lS--LN~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
||++|. -+++++.-.++.++||++|.+.|... ..+.++|.|. .=+| .++..+.+.||.++|+.....|+|
T Consensus 6 ~i~iRl-P~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk-~~~~~d~~~TL~e~gL~p~~~L~V 77 (80)
T cd01771 6 KLRVRT-PSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRR-DLTQLDPNFTLLELKLYPQETLIL 77 (80)
T ss_pred EEEEEC-CCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCC-CCcCCCCCCcHHHcCCCCCcEEEE
Confidence 688887 44555555688899999999999764 2244567664 3344 344445678999999999988887
No 64
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=78.80 E-value=3.8 Score=34.03 Aligned_cols=66 Identities=17% Similarity=0.236 Sum_probs=44.9
Q ss_pred Ceeeeeeccc------ccceeccCCCCcchHHHHHHHhhhcCC-CC--CceEEEecCCCCCCCCCCcccccccccccCCe
Q 040442 1 MKLRLRSLEN------KETLRLEVPSSCTLHELGETLSQLISS-SP--SSLRFSLNRKDELHASSPPESLHSLGVTAGDL 71 (522)
Q Consensus 1 MKLRvR~~~~------~~T~rlevp~~~TL~eLr~~l~~~l~~-s~--~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDL 71 (522)
||.+||.-.. +....+++++..|+++|++.|...-.. .. ..+.+.+|++.. . +... |..||-
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v--~--~~~~-----l~dgDe 72 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYT--T--ESAA-----LKDGDE 72 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEc--C--CCcC-----cCCCCE
Confidence 7888887432 255677888888999999999766421 11 236799999862 1 2333 466999
Q ss_pred EEEe
Q 040442 72 IFYS 75 (522)
Q Consensus 72 I~~~ 75 (522)
|-|+
T Consensus 73 Vai~ 76 (82)
T PLN02799 73 LAII 76 (82)
T ss_pred EEEe
Confidence 8776
No 65
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=78.08 E-value=5 Score=33.64 Aligned_cols=58 Identities=16% Similarity=0.323 Sum_probs=43.9
Q ss_pred CCCcchHHHHHHHhhhcCCCC-CceEEEecCCCCCCCCCCccccccc-ccccCCeEEEecCCCc
Q 040442 19 PSSCTLHELGETLSQLISSSP-SSLRFSLNRKDELHASSPPESLHSL-GVTAGDLIFYSRDPYA 80 (522)
Q Consensus 19 p~~~TL~eLr~~l~~~l~~s~-~~~~lSLN~kd~L~~~~~~~tL~sl-GIvSGDLI~~~l~~~~ 80 (522)
..++|++|||..|...-.... .+|+|.+||+. | ++...|+++ ||.+|-.|.++..|..
T Consensus 2 ~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~-L---~~~~el~~i~~~~~~~~L~lve~pYt 61 (76)
T PF15044_consen 2 SPTDTVQDVRQVLAESPETCYLTNFSLEHNGQR-L---DDFVELSEIEGIKDGCVLELVEEPYT 61 (76)
T ss_pred ChhhHHHHHHHHHHhCccccceeEEEEEECCCc-c---CCchhhhhhhCCCCCcEEEEEecCCC
Confidence 345688999988887733222 26999999999 5 477777776 7999999999988864
No 66
>PF13013 F-box-like_2: F-box-like domain
Probab=76.86 E-value=2.7 Score=37.85 Aligned_cols=34 Identities=18% Similarity=0.149 Sum_probs=30.5
Q ss_pred cccCCcHHHHHHHhccCCccchhhHHHhhHHHHH
Q 040442 371 CWTHLPTELKLKLLECLPGVDVAKMECVSRDMRY 404 (522)
Q Consensus 371 ~l~~LP~ELll~ILs~Ld~~dL~~ls~vCr~lr~ 404 (522)
++.+||.||+..|+.+-+..++..+..+|+.++.
T Consensus 21 tl~DLP~ELl~~I~~~C~~~~l~~l~~~~~~~r~ 54 (109)
T PF13013_consen 21 TLLDLPWELLQLIFDYCNDPILLALSRTCRAYRS 54 (109)
T ss_pred chhhChHHHHHHHHhhcCcHHHHHHHHHHHHHHH
Confidence 4789999999999999999999999999995553
No 67
>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=75.57 E-value=5.6 Score=33.87 Aligned_cols=44 Identities=16% Similarity=0.376 Sum_probs=35.7
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCC-CceEEEe
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSP-SSLRFSL 46 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~-~~~~lSL 46 (522)
||+.+.. +++++|+-||.+.++.||++.|+..+.-.. ..|.|+-
T Consensus 1 ~~vK~~~--~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 1 VRVKATY--GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred CEEEEEe--CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 5666677 889999999999999999999999986543 3566654
No 68
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=75.29 E-value=12 Score=32.07 Aligned_cols=72 Identities=17% Similarity=0.297 Sum_probs=48.9
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCC-CCCC-----CCCCcccccccccccCCeEEEe
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRK-DELH-----ASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~k-d~L~-----~~~~~~tL~slGIvSGDLI~~~ 75 (522)
|+++|.- .++++.--+.-+.||++|.+.|. ......++|.|.-|=- ..+. ..+.+.||.++|+.....++|-
T Consensus 6 ~I~iRlp-~G~Rl~rrF~~~~tl~~l~~fv~-~~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~ 83 (85)
T cd01774 6 KIVFKLP-NGTRVERRFLFTQSLRVIHDFLF-SLKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ 83 (85)
T ss_pred EEEEECC-CCCEEEEEeCCCCcHHHHHHHHH-hCCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence 5777773 34454455666789999999994 3344556787766541 2443 2356789999999988777763
No 69
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=72.15 E-value=16 Score=31.34 Aligned_cols=70 Identities=16% Similarity=0.252 Sum_probs=52.4
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEe--cCCCCCCCCCCcccccccccccCCeEEE
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSL--NRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSL--N~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
|++||. -.++++.-.+..++||++|...|.. ...+.+.|.|-= =||. ++..+.+.||.++|+..-.-|+|
T Consensus 7 ~i~vRl-P~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~-~~~~d~~~TL~e~GL~P~~~LfV 78 (82)
T cd01773 7 RLMLRY-PDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRK-LSHLDYDITLQEAGLCPQETVFV 78 (82)
T ss_pred EEEEEC-CCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcc-cCCcccCCCHHHcCCCCCcEEEE
Confidence 688887 5667777777778999999999987 233556676643 3444 45555678999999999988877
No 70
>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=70.66 E-value=9.8 Score=31.17 Aligned_cols=44 Identities=23% Similarity=0.396 Sum_probs=35.6
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEec
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLN 47 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN 47 (522)
++.|+. ..++.++.||..+|+.+|+..|++.+.-..++|.|+--
T Consensus 3 ~vK~~~--~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~ 46 (81)
T smart00666 3 DVKLRY--GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ 46 (81)
T ss_pred cEEEEE--CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 566666 77899999999999999999999998765456666654
No 71
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=69.85 E-value=14 Score=40.72 Aligned_cols=70 Identities=21% Similarity=0.379 Sum_probs=56.9
Q ss_pred eeeecccccceeccCCCCcchHHHHHHHhhhcCC------CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 4 RLRSLENKETLRLEVPSSCTLHELGETLSQLISS------SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 4 RvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~------s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
||=+..-++.+.+=||.+..+.||-..|-+.+.+ .....+|.-=+-..| |++.||.+.||..||++++.-
T Consensus 4 RVtV~~~~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL---~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 4 RVTVLAGRRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPL---DPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEeeCCeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCC---CCCCCHHHcCCCCCCeEEEee
Confidence 6666667778999999999999999888888744 122477776677788 589999999999999999884
No 72
>COG5417 Uncharacterized small protein [Function unknown]
Probab=69.76 E-value=9.5 Score=32.43 Aligned_cols=62 Identities=16% Similarity=0.256 Sum_probs=49.4
Q ss_pred ccceeccCCCCcchHHHHHHHhhhcC-C--CCCceEEEecCCCCCCCCCCcccccccccccCCeEEE
Q 040442 11 KETLRLEVPSSCTLHELGETLSQLIS-S--SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFY 74 (522)
Q Consensus 11 ~~T~rlevp~~~TL~eLr~~l~~~l~-~--s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~ 74 (522)
+.|..|-||+--+..-|-+.+-+++. + .-+.-.|-.-+|+-|.+ .++-|..|||+.||.+-+
T Consensus 16 g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~lls--gd~kL~d~~IadGD~Lei 80 (81)
T COG5417 16 GGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLS--GDDKLIDYQIADGDILEI 80 (81)
T ss_pred CceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEec--CCceEEeccccCCCEEEe
Confidence 46777888888899999999988874 3 33335667778999986 788999999999998764
No 73
>PF09372 PRANC: PRANC domain; InterPro: IPR018272 This presumed domain is found at the C terminus of a variety of Pox virus proteins. The PRANC (Pox proteins Repeats of ANkyrin, C-terminal) domain is also found on its own in some proteins []. The function of this domain is unknown, but it appears to be related to the F-box domain and may play a similar role.
Probab=68.41 E-value=2.8 Score=36.08 Aligned_cols=26 Identities=42% Similarity=0.777 Sum_probs=23.3
Q ss_pred ccccCCcHHHHHHHhccCCccchhhH
Q 040442 370 ACWTHLPTELKLKLLECLPGVDVAKM 395 (522)
Q Consensus 370 p~l~~LP~ELll~ILs~Ld~~dL~~l 395 (522)
..|..||.|++..||++|+-.||..+
T Consensus 70 ~~w~~LP~EIk~~Il~~L~~~dL~~l 95 (97)
T PF09372_consen 70 NYWNILPIEIKYKILEYLSNKDLKKL 95 (97)
T ss_pred CchhhCCHHHHHHHHHcCCHHHHHHH
Confidence 46899999999999999999998654
No 74
>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=68.08 E-value=9.8 Score=30.97 Aligned_cols=43 Identities=14% Similarity=0.301 Sum_probs=34.2
Q ss_pred eeeeeecccccceeccCC-CCcchHHHHHHHhhhcCCCCCceEEEe
Q 040442 2 KLRLRSLENKETLRLEVP-SSCTLHELGETLSQLISSSPSSLRFSL 46 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp-~~~TL~eLr~~l~~~l~~s~~~~~lSL 46 (522)
+++++. ..++.++.++ ..+|..+|++.|.+.+.-....|.|+.
T Consensus 2 ~vK~~~--~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y 45 (81)
T cd05992 2 RVKVKY--GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY 45 (81)
T ss_pred cEEEEe--cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence 566777 7899999999 677999999999999865445555554
No 75
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=66.24 E-value=28 Score=37.10 Aligned_cols=74 Identities=16% Similarity=0.227 Sum_probs=62.0
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCC--CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISS--SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~--s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
|||=||-+ +++|..|||-.+.|..+||..|.+.-.. +.+.--|=-||| ++. |+.|+.+|+|..++-|.|.|.-
T Consensus 1 m~lt~KtL-~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~Gk--iL~--D~~tv~Eykv~E~~fiVvMlsK 75 (340)
T KOG0011|consen 1 MKLTVKTL-KQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGK--ILK--DETTVGEYKVKEKKFIVVMLSK 75 (340)
T ss_pred CeeEeeec-cCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecce--ecc--CCcchhhhccccCceEEEEEec
Confidence 89999974 5688999999999999999999998764 666666667777 343 8999999999999999999974
Q ss_pred C
Q 040442 79 Y 79 (522)
Q Consensus 79 ~ 79 (522)
.
T Consensus 76 ~ 76 (340)
T KOG0011|consen 76 D 76 (340)
T ss_pred C
Confidence 3
No 76
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=63.72 E-value=2.3 Score=38.31 Aligned_cols=69 Identities=14% Similarity=0.169 Sum_probs=58.5
Q ss_pred eeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 3 LRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 3 LRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
.=+|+ -+.|.-||+..+.|.--|++.|..+.--+++.-+|-.|||.- .|+-||+.|||.-=|-|+.++.
T Consensus 4 ~~~~~--~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~L----ED~~Tla~Y~i~~~~Tl~~~~r 72 (128)
T KOG0003|consen 4 FVKTL--TGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL----EDGRTLADYNIQKESTLHLVLR 72 (128)
T ss_pred EEEEe--eCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhccccc----ccCCcccccCccchhhhhhhHH
Confidence 34677 789999999999999999999999976677777778888853 2899999999999999998863
No 77
>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=62.96 E-value=12 Score=32.12 Aligned_cols=42 Identities=12% Similarity=0.222 Sum_probs=34.8
Q ss_pred eeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEec
Q 040442 3 LRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLN 47 (522)
Q Consensus 3 LRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN 47 (522)
++|++ +- |+-|.+|..-+.+||++.|+..|.-+++.+.||.-
T Consensus 5 vKV~f--~~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYk 46 (80)
T cd06406 5 VKVHF--KY-TVAIQVARGLSYATLLQKISSKLELPAEHITLSYK 46 (80)
T ss_pred EEEEE--EE-EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEec
Confidence 46777 44 99999999999999999999999766777777663
No 78
>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=62.05 E-value=16 Score=33.23 Aligned_cols=72 Identities=11% Similarity=0.124 Sum_probs=52.2
Q ss_pred eeeeecccccceeccCCCCcchHHHHHHHhhhcC-------CCCCceEEEecCCCCCCCCCCccccccccccc------C
Q 040442 3 LRLRSLENKETLRLEVPSSCTLHELGETLSQLIS-------SSPSSLRFSLNRKDELHASSPPESLHSLGVTA------G 69 (522)
Q Consensus 3 LRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~-------~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvS------G 69 (522)
+|.|+-+-..--..-++.+.|..+||++|.+.-. -+.+...|=-.|| -| . |+.||++|++-- +
T Consensus 7 ~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGK-iL-e--D~~TL~d~~~p~g~~~~~~ 82 (113)
T cd01814 7 IKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGK-IL-E--NSKTVGECRSPVGDIAGGV 82 (113)
T ss_pred EEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCe-ec-C--CCCcHHHhCCcccccCCCc
Confidence 5666655545556666777899999999996653 2466789999999 34 3 889999999444 4
Q ss_pred CeEEEecCC
Q 040442 70 DLIFYSRDP 78 (522)
Q Consensus 70 DLI~~~l~~ 78 (522)
=-+||++-|
T Consensus 83 ~TmHvvlr~ 91 (113)
T cd01814 83 ITMHVVVQP 91 (113)
T ss_pred eEEEEEecC
Confidence 556788765
No 79
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=59.89 E-value=14 Score=33.86 Aligned_cols=56 Identities=23% Similarity=0.390 Sum_probs=33.1
Q ss_pred CCcchHHHHHHHhhhcCC--CCC-ceEEEe---cCCC------CC-------CCCCCcccccccccccCCeEEEe
Q 040442 20 SSCTLHELGETLSQLISS--SPS-SLRFSL---NRKD------EL-------HASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 20 ~~~TL~eLr~~l~~~l~~--s~~-~~~lSL---N~kd------~L-------~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
-+|||.||-..|.++..+ +.. .|.+.+ |.+. +| .++|+..||++++++-||.|-+.
T Consensus 45 ~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyidva 119 (120)
T PF06487_consen 45 MDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYIDVA 119 (120)
T ss_dssp TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EEEEE
T ss_pred ccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEEEEe
Confidence 478999999999998754 222 232222 3121 01 12478999999999999999764
No 80
>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=54.88 E-value=19 Score=30.82 Aligned_cols=41 Identities=20% Similarity=0.263 Sum_probs=34.3
Q ss_pred eeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEec
Q 040442 4 RLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLN 47 (522)
Q Consensus 4 RvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN 47 (522)
+|+. +=|+.|++|-..++.+|++.|+++|.-.++...||.-
T Consensus 2 ~Vh~---~fTVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~ 42 (78)
T cd06411 2 TVQC---AFTVALRAPRGADVSSLRALLSQALPQQAQRGQLSYR 42 (78)
T ss_pred EEEE---EEEEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEec
Confidence 4554 5699999999999999999999999888887666653
No 81
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=53.32 E-value=47 Score=32.10 Aligned_cols=65 Identities=29% Similarity=0.372 Sum_probs=47.4
Q ss_pred cceeccCCCCcchHHHHHHHhhhcCCCCC-ceEEEecCCCCCCCCCCcccccccccccC--CeEEEecC
Q 040442 12 ETLRLEVPSSCTLHELGETLSQLISSSPS-SLRFSLNRKDELHASSPPESLHSLGVTAG--DLIFYSRD 77 (522)
Q Consensus 12 ~T~rlevp~~~TL~eLr~~l~~~l~~s~~-~~~lSLN~kd~L~~~~~~~tL~slGIvSG--DLI~~~l~ 77 (522)
.|+-+.+|.++|+.+|..+|...+..+.. .+.|+.+.--.|.. ++...++++--.+. |+|.+.+.
T Consensus 15 ~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~-~~~~~~s~l~~~~~~~~~~~l~l~ 82 (162)
T PF13019_consen 15 PTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSP-SSDIPLSSLLSSSQDSDFITLRLS 82 (162)
T ss_pred CeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCC-CccccHHhhccCcCCCCceEEEEE
Confidence 79999999999999999999999876544 47777765444432 46666777766555 46666553
No 82
>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=52.72 E-value=25 Score=28.70 Aligned_cols=44 Identities=11% Similarity=0.354 Sum_probs=35.2
Q ss_pred eeeeeeccccccee-ccCCCCcchHHHHHHHhhhcCCCCCceEEEec
Q 040442 2 KLRLRSLENKETLR-LEVPSSCTLHELGETLSQLISSSPSSLRFSLN 47 (522)
Q Consensus 2 KLRvR~~~~~~T~r-levp~~~TL~eLr~~l~~~l~~s~~~~~lSLN 47 (522)
++.++. ..++.+ +.++..+|+.+|++.|++.+......|.|.-.
T Consensus 3 ~vK~~~--~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~ 47 (84)
T PF00564_consen 3 RVKVRY--GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYK 47 (84)
T ss_dssp EEEEEE--TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEE
T ss_pred EEEEEE--CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEee
Confidence 455566 777778 99999999999999999998766556777664
No 83
>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=50.58 E-value=36 Score=27.49 Aligned_cols=57 Identities=21% Similarity=0.226 Sum_probs=41.8
Q ss_pred ccceeccCCCCcchHHHHHHHhhhcCC----CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEec
Q 040442 11 KETLRLEVPSSCTLHELGETLSQLISS----SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSR 76 (522)
Q Consensus 11 ~~T~rlevp~~~TL~eLr~~l~~~l~~----s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l 76 (522)
+.+..+++|+..|+.||.+.|...... ..+.+.+.+|++..- .. .=|..||-|.|+-
T Consensus 15 ~~~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~----~~-----~~l~~gD~v~i~p 75 (80)
T cd00754 15 KDEEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR----LD-----TPLKDGDEVAIIP 75 (80)
T ss_pred CceEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC----CC-----cccCCCCEEEEeC
Confidence 456778999888999999999877532 233689999998754 11 2277899998863
No 84
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=48.37 E-value=28 Score=28.67 Aligned_cols=57 Identities=21% Similarity=0.256 Sum_probs=41.5
Q ss_pred cccceeccCCCC-cchHHHHHHHhhhcCC---CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 10 NKETLRLEVPSS-CTLHELGETLSQLISS---SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 10 ~~~T~rlevp~~-~TL~eLr~~l~~~l~~---s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
.+++..++++++ +|+.||.+.|.+.-.. ....+.+.+|++..- + +.=|..||-|-++
T Consensus 14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~----~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 14 GTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT----D-----DALLNEGDEVAFI 74 (80)
T ss_pred CCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcC----C-----CcCcCCCCEEEEe
Confidence 345668899987 7999999999887532 234589999988633 2 2346679988775
No 85
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=43.50 E-value=69 Score=24.05 Aligned_cols=66 Identities=15% Similarity=0.184 Sum_probs=49.0
Q ss_pred ccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 9 ENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 9 ~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
...++..+++...++...+|.++...-....+.-.+..-+ -.|. |..+|.+|+|..+..++++...
T Consensus 7 ~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~-~~l~---d~~~l~~~~i~~~~~~~l~~~~ 72 (75)
T KOG0001|consen 7 LDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGG-KPLE---DGRTLADYNIQEGSTLHLVLSL 72 (75)
T ss_pred cCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECC-EECc---CCCcHHHhCCCCCCEEEEEEec
Confidence 3567888999999999999999998864444444443333 3442 5699999999999999987653
No 86
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=42.86 E-value=30 Score=32.64 Aligned_cols=54 Identities=20% Similarity=0.309 Sum_probs=38.6
Q ss_pred CcchHHHHHHHhhhcCC---CCC--ceEE-----------------E-ecCCCCCCCCCCcccccccccccCCeEEEecC
Q 040442 21 SCTLHELGETLSQLISS---SPS--SLRF-----------------S-LNRKDELHASSPPESLHSLGVTAGDLIFYSRD 77 (522)
Q Consensus 21 ~~TL~eLr~~l~~~l~~---s~~--~~~l-----------------S-LN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~ 77 (522)
+|||.||...|+++-.. +.- +|++ + +|+| +.||+.||++++|.-||-|-|...
T Consensus 61 datL~ELtsLvkevnpeaR~kgt~f~fa~Vf~d~~~~~y~~RevG~t~~g~K----g~ddnktL~~~kf~iGD~lDVaI~ 136 (151)
T KOG3391|consen 61 DATLRELTSLVKEVNPEARKKGTSFDFAVVFPDKKSPRYIVREVGTTCLGRK----GIDDNKTLQQTKFEIGDYLDVAIT 136 (151)
T ss_pred hhhHHHHHHHHHHcCHHHhccCceEEEEEEeccCCCCCceeeeecccccCcc----cCCccchhhhCCccccceEEEEec
Confidence 57999999999997432 111 2322 2 2222 237999999999999999999886
Q ss_pred C
Q 040442 78 P 78 (522)
Q Consensus 78 ~ 78 (522)
|
T Consensus 137 ~ 137 (151)
T KOG3391|consen 137 P 137 (151)
T ss_pred C
Confidence 5
No 87
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=41.64 E-value=42 Score=26.82 Aligned_cols=57 Identities=18% Similarity=0.211 Sum_probs=41.7
Q ss_pred ceeccCCCCcchHHHHHHHhhhcCC--CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 13 TLRLEVPSSCTLHELGETLSQLISS--SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 13 T~rlevp~~~TL~eLr~~l~~~l~~--s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
...+++++..|++||.+.|.+.... ..+.+.+.+|++..-. ...+.. +..||-|.++
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~-~~~~~~-----l~~gD~V~i~ 71 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD-DGLDTP-----LKDGDEVAIL 71 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG-GTTTSB-----EETTEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC-ccCCcC-----cCCCCEEEEE
Confidence 5567888889999999999988532 3367999999976543 122344 4679999886
No 88
>PHA03100 ankyrin repeat protein; Provisional
Probab=41.45 E-value=15 Score=39.45 Aligned_cols=31 Identities=32% Similarity=0.508 Sum_probs=27.1
Q ss_pred ccccCCcHHHHHHHhccCCccchhhHHHhhH
Q 040442 370 ACWTHLPTELKLKLLECLPGVDVAKMECVSR 400 (522)
Q Consensus 370 p~l~~LP~ELll~ILs~Ld~~dL~~ls~vCr 400 (522)
..|..||.||+.+||++|+-.||-.+..-|+
T Consensus 446 ~~w~~lP~Eik~~Il~~l~~~dl~~~~~~~~ 476 (480)
T PHA03100 446 TYWNILPIEIKYKILEYLSNRDLKSLIENFT 476 (480)
T ss_pred CchhhCcHHHHHHHHHhCCHHHHHHHHhhhc
Confidence 4689999999999999999999988776654
No 89
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=40.34 E-value=77 Score=25.77 Aligned_cols=57 Identities=16% Similarity=0.119 Sum_probs=39.4
Q ss_pred eeeeccccc--ceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 4 RLRSLENKE--TLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 4 RvR~~~~~~--T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
+|++ +++ ...+|+++.+|+.||-+.|.- +.+.+.+-+|+.-.- . +.-+..||-|-++
T Consensus 6 ~v~v--ng~~~~~~~~~~~~~tv~~ll~~l~~----~~~~v~v~vNg~iv~----~-----~~~l~~gD~Veii 64 (70)
T PRK08364 6 RVKV--IGRGIEKEIEWRKGMKVADILRAVGF----NTESAIAKVNGKVAL----E-----DDPVKDGDYVEVI 64 (70)
T ss_pred EEEE--eccccceEEEcCCCCcHHHHHHHcCC----CCccEEEEECCEECC----C-----CcCcCCCCEEEEE
Confidence 5566 444 567888988899999887742 346699999998641 1 2235668877665
No 90
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=35.65 E-value=49 Score=28.35 Aligned_cols=51 Identities=20% Similarity=0.310 Sum_probs=27.0
Q ss_pred cchHHHHHHHhhh-cCCCCCceEEEecCCCCCC-------CCCCcccccccccccCCeEEEe
Q 040442 22 CTLHELGETLSQL-ISSSPSSLRFSLNRKDELH-------ASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 22 ~TL~eLr~~l~~~-l~~s~~~~~lSLN~kd~L~-------~~~~~~tL~slGIvSGDLI~~~ 75 (522)
.||++|.+.|-.. |.-..-.|.+ +-.-|- ...-..+|+++||+.|-.+-+.
T Consensus 9 ~TL~~lv~~Vlk~~Lg~~~P~v~~---~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 9 MTLGDLVEKVLKKKLGMNEPDVSV---GGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp -BHHHHHHHCCCCCS--SSEEEEE---S-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred CcHHHHHHHHHHhccCCCCCEEEe---CCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 4999999876543 3323323333 222222 2233789999999999877664
No 91
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=34.46 E-value=1.5e+02 Score=26.58 Aligned_cols=72 Identities=17% Similarity=0.290 Sum_probs=52.3
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
+|||.- +...++-+-|--..+|.-|...-.+.-.-+-++|++=.||+- |. ..+|=..||.-.||.|++.++.
T Consensus 22 ~LKV~g-qd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~r-I~---~~~TP~~L~mEd~D~Iev~~~q 93 (99)
T KOG1769|consen 22 NLKVKG-QDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQR-IR---ETHTPADLEMEDGDEIEVVQEQ 93 (99)
T ss_pred EEEEec-CCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcC-cC---CCCChhhhCCcCCcEEEEEeec
Confidence 455555 333555666666667777777776665557788999999874 42 5678889999999999999864
No 92
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=33.72 E-value=75 Score=26.47 Aligned_cols=58 Identities=14% Similarity=0.138 Sum_probs=39.9
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCC-------C----CCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISS-------S----PSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~-------s----~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
.+++..+|++ ..|+.||.+.|.+.... . .+.+.+.+|++..-. +.. .-|.-||-|.|+
T Consensus 14 g~~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~--~~~-----~~l~dgdev~i~ 82 (88)
T TIGR01687 14 GKKSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDW--GLG-----TELKDGDVVAIF 82 (88)
T ss_pred CCceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCc--cCC-----CCCCCCCEEEEe
Confidence 3456677887 67999999999876432 1 124899999986542 111 346779988876
No 93
>PHA02875 ankyrin repeat protein; Provisional
Probab=32.42 E-value=24 Score=37.28 Aligned_cols=26 Identities=31% Similarity=0.537 Sum_probs=23.0
Q ss_pred ccccCCcHHHHHHHhccCCccchhhH
Q 040442 370 ACWTHLPTELKLKLLECLPGVDVAKM 395 (522)
Q Consensus 370 p~l~~LP~ELll~ILs~Ld~~dL~~l 395 (522)
..|..||.||+..||++|+-.||..+
T Consensus 385 ~~w~~LP~Eik~~Il~~l~~~dL~~~ 410 (413)
T PHA02875 385 SKWNILPHEIKYLILEKIGNKDIDIA 410 (413)
T ss_pred cchhcCcHHHHHHHHHHhccchhhhh
Confidence 46889999999999999999999654
No 94
>PHA02989 ankyrin repeat protein; Provisional
Probab=31.31 E-value=44 Score=36.56 Aligned_cols=37 Identities=30% Similarity=0.547 Sum_probs=29.0
Q ss_pred HHHHhhhcCCCCCccccCCcHHHHHHHhccCCccchhhHHHh
Q 040442 357 LIDLCDKAGLCLPACWTHLPTELKLKLLECLPGVDVAKMECV 398 (522)
Q Consensus 357 L~~lc~~~gl~lpp~l~~LP~ELll~ILs~Ld~~dL~~ls~v 398 (522)
+...|... ..|..||.||+..||++|+-.||-.+..-
T Consensus 449 i~~~c~~~-----~~w~~LP~Eik~~Il~~L~~~dl~~i~~~ 485 (494)
T PHA02989 449 LNKYCNKK-----NYWMYLPIEIQINILEYLTFSDFKTILKF 485 (494)
T ss_pred HHHHhCcc-----cHHHhCCHHHHHHHHHcCCHHHHHHHHhh
Confidence 45556421 46899999999999999999999776553
No 95
>PHA02798 ankyrin-like protein; Provisional
Probab=30.08 E-value=42 Score=36.64 Aligned_cols=38 Identities=21% Similarity=0.569 Sum_probs=29.6
Q ss_pred hhHHHHHHhhhcCCCCCccccCCcHHHHHHHhccCCccchhh
Q 040442 353 ALPLLIDLCDKAGLCLPACWTHLPTELKLKLLECLPGVDVAK 394 (522)
Q Consensus 353 a~plL~~lc~~~gl~lpp~l~~LP~ELll~ILs~Ld~~dL~~ 394 (522)
+.-.+.+.|... ...|..||.||+..||++|+-.||-.
T Consensus 449 ~~~~i~~~~~~~----~~~w~~lP~Eik~~Il~~L~~~dl~~ 486 (489)
T PHA02798 449 VSCYITKICSNE----LSYWNYIPNEIKFKIINNLSNNDILE 486 (489)
T ss_pred HHHHHHHHhcCC----cchhhhCCHHHHHHHHHcCChHHHHH
Confidence 445666777532 25799999999999999999988854
No 96
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=29.25 E-value=34 Score=26.83 Aligned_cols=39 Identities=21% Similarity=0.263 Sum_probs=32.0
Q ss_pred ceEEEecCCCCCCCCCCcccccccccccCCeEEEecCCC
Q 040442 41 SLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDPY 79 (522)
Q Consensus 41 ~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~~ 79 (522)
.+.+.+++.+.|.+.=+.+.+..+++.-||-|++.+.+.
T Consensus 24 ~v~l~~~~~~~l~a~i~~~~~~~l~l~~G~~v~~~ik~~ 62 (69)
T TIGR00638 24 EVDLLLGGGTKLTAVITLESVAELGLKPGKEVYAVIKAP 62 (69)
T ss_pred EEEEEECCCCEEEEEecHHHHhhCCCCCCCEEEEEEECc
Confidence 367778777667665678899999999999999999874
No 97
>PHA02878 ankyrin repeat protein; Provisional
Probab=26.03 E-value=33 Score=37.19 Aligned_cols=39 Identities=23% Similarity=0.327 Sum_probs=28.7
Q ss_pred HHHHHHhhhcCCCCCccccCCcHHHHHHHhccCCccchhhHH
Q 040442 355 PLLIDLCDKAGLCLPACWTHLPTELKLKLLECLPGVDVAKME 396 (522)
Q Consensus 355 plL~~lc~~~gl~lpp~l~~LP~ELll~ILs~Ld~~dL~~ls 396 (522)
-.+.++|.... -..|..||.||+..||++|+-.||-.+-
T Consensus 433 ~~i~~~~~~~~---~~~w~~lP~Eik~~Il~~l~~~dl~~~~ 471 (477)
T PHA02878 433 YSLDNIFFEKQ---NYMWNRLPLEIKHYIMELLDDASLCNMI 471 (477)
T ss_pred HHHHHHhcccc---cCcHhhCCHHHHHHHHHHcCcHHHHHHH
Confidence 44566663111 1469999999999999999999996553
No 98
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play 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
Probab=25.86 E-value=79 Score=27.50 Aligned_cols=47 Identities=13% Similarity=0.309 Sum_probs=37.3
Q ss_pred eeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCC
Q 040442 2 KLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDE 51 (522)
Q Consensus 2 KLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~ 51 (522)
|+||+..-+..+.-+-||.+-+++||.+.|+..+.-. . .|++-=||+
T Consensus 2 ~ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~--~~~iKykDE 48 (86)
T cd06408 2 KIRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK-R--RLKIKMKDD 48 (86)
T ss_pred cEEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-C--ceEEEEEcC
Confidence 6788887789999999999999999999999997542 2 444444565
No 99
>PRK05641 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=25.52 E-value=50 Score=31.36 Aligned_cols=35 Identities=23% Similarity=0.301 Sum_probs=26.4
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCCCCCceEEEecCCCCCC
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISSSPSSLRFSLNRKDELH 53 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~s~~~~~lSLN~kd~L~ 53 (522)
||+||++ ++...-+||-+- +...|.+++|||.-..
T Consensus 2 ~~~~~~~--~g~~~~v~v~~~----------------~~~~~~itvnG~~y~V 36 (153)
T PRK05641 2 MKVKVIV--DGVEYEVEVEEL----------------GPGKFRVSFEGKTYEV 36 (153)
T ss_pred ceEEEEE--CCEEEEEEEEee----------------cCccEEEEECCEEEEE
Confidence 8999999 777777776321 4446999999998654
No 100
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=25.46 E-value=1.2e+02 Score=33.18 Aligned_cols=64 Identities=17% Similarity=0.225 Sum_probs=44.3
Q ss_pred eeeeecccccceeccCCCCcchHHHHHHHhhhcCC-CCCceEEEecCCCCCCCCCCccccccccccc
Q 040442 3 LRLRSLENKETLRLEVPSSCTLHELGETLSQLISS-SPSSLRFSLNRKDELHASSPPESLHSLGVTA 68 (522)
Q Consensus 3 LRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~-s~~~~~lSLN~kd~L~~~~~~~tL~slGIvS 68 (522)
+++|+ +.+..+.+.+--.-|++++|.+|..+=.. ++..|-|..-=---.+ +|+.+||...|++.
T Consensus 308 IQIRL-anG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l-~D~sqTle~AgL~N 372 (380)
T KOG2086|consen 308 IQIRL-ANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPL-SDDSQTLEEAGLLN 372 (380)
T ss_pred EEEEe-cCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCccc-CCcchhHHhccchh
Confidence 67887 45555666776667999999999998544 5555655443222222 37999999999875
No 101
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=25.16 E-value=83 Score=27.29 Aligned_cols=37 Identities=22% Similarity=0.247 Sum_probs=30.5
Q ss_pred cccceeccCCCCcchHHHHHHHhhhcCCCC---CceEEEe
Q 040442 10 NKETLRLEVPSSCTLHELGETLSQLISSSP---SSLRFSL 46 (522)
Q Consensus 10 ~~~T~rlevp~~~TL~eLr~~l~~~l~~s~---~~~~lSL 46 (522)
+++++|+.+..++.+.+|++.|++.+.... ..|.|+-
T Consensus 9 ~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 9 KGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 679999999999999999999999986643 3466654
No 102
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=23.42 E-value=32 Score=31.18 Aligned_cols=67 Identities=22% Similarity=0.330 Sum_probs=38.6
Q ss_pred CeeeeeecccccceeccCCCCcchHHHHHHHhhhcCC--CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 1 MKLRLRSLENKETLRLEVPSSCTLHELGETLSQLISS--SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 1 MKLRvR~~~~~~T~rlevp~~~TL~eLr~~l~~~l~~--s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
||+|+.+ ..+++..+|-|+.|-.+|.+.|=-++.- =.+-+..++..+ |.. ++.. .-.+..||+-++.
T Consensus 1 mkI~i~i--~~~~~~a~L~d~~ta~~~~~~LPlt~~~~~~g~E~y~~~p~~--l~~--~~~~--~~~~~~GDi~Yw~ 69 (120)
T PF04126_consen 1 MKIKITI--GGQEIEAELNDSPTARAFAAQLPLTVTMNDWGNEKYFSLPLK--LPT--EENP--RSSVEAGDIAYWP 69 (120)
T ss_dssp EEEEEEE--TTEEEEEEEETTHHHHHHHHC-SEEEEEEECTTEEEEE-S---------SSSE--ESSB-TTEEEEEC
T ss_pred CeEEEEE--CCEEEEEEECCCHHHHHHHHhCCeEEEHHHCCceEEEeCCCC--CCc--ccCc--cccccCceEEEeC
Confidence 9999999 7999999999998888877766443211 112244444332 221 1111 2357888887764
No 103
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=22.90 E-value=1.1e+02 Score=29.07 Aligned_cols=76 Identities=22% Similarity=0.256 Sum_probs=40.1
Q ss_pred eeeeeeccccc--ceeccCCCCcchHHHHHHHhhhcCCCCC-ceEEEecCCCCCCC--------------CCCccccccc
Q 040442 2 KLRLRSLENKE--TLRLEVPSSCTLHELGETLSQLISSSPS-SLRFSLNRKDELHA--------------SSPPESLHSL 64 (522)
Q Consensus 2 KLRvR~~~~~~--T~rlevp~~~TL~eLr~~l~~~l~~s~~-~~~lSLN~kd~L~~--------------~~~~~tL~sl 64 (522)
+|||.+.+.+. --||+||.+.||.+|...|..+..=..+ -+.+.++++.-=.. ....-+|.++
T Consensus 6 ~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afgw~~~HL~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 85 (179)
T PF07929_consen 6 QLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFGWDDDHLYEFFIGGERYGIPDEDGMDFSEGDEIKDASEVKLGEL 85 (179)
T ss_dssp EEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT----S-EEEEEE-TTTSSESSS---------EEETTT-BHHHC
T ss_pred EEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhCcCCCEeEEEEECCCccccccccccccccCCCcceeeeEEhhhh
Confidence 46676655543 3479999999999999999999865444 34444442211110 0124456666
Q ss_pred ccccCCeEEEecC
Q 040442 65 GVTAGDLIFYSRD 77 (522)
Q Consensus 65 GIvSGDLI~~~l~ 77 (522)
.-..||-+.|+-.
T Consensus 86 ~~~~~~~~~Y~YD 98 (179)
T PF07929_consen 86 LLEEGDKFTYVYD 98 (179)
T ss_dssp -BTTC-EEEEEE-
T ss_pred ccCcCCEEEEEEc
Confidence 6666776666653
No 104
>PHA02876 ankyrin repeat protein; Provisional
Probab=22.69 E-value=58 Score=37.18 Aligned_cols=26 Identities=31% Similarity=0.746 Sum_probs=23.2
Q ss_pred ccccCCcHHHHHHHhccCCccchhhH
Q 040442 370 ACWTHLPTELKLKLLECLPGVDVAKM 395 (522)
Q Consensus 370 p~l~~LP~ELll~ILs~Ld~~dL~~l 395 (522)
..|..||.|++..||++|+-.||-.+
T Consensus 654 ~~w~~lP~eik~~Il~~l~~~dl~~~ 679 (682)
T PHA02876 654 SDWSKLPPDIKLSILEFIDNNELRKI 679 (682)
T ss_pred cchhhCCHHHHHHHHHHhhhhHHHHH
Confidence 37999999999999999999999654
No 105
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=22.54 E-value=3e+02 Score=22.76 Aligned_cols=52 Identities=23% Similarity=0.264 Sum_probs=33.9
Q ss_pred eccCCCC-cchHHHHHHHhhhcCC-----CCCceEEEecCCCCCCCCCCcccccccccccCCeEEEe
Q 040442 15 RLEVPSS-CTLHELGETLSQLISS-----SPSSLRFSLNRKDELHASSPPESLHSLGVTAGDLIFYS 75 (522)
Q Consensus 15 rlevp~~-~TL~eLr~~l~~~l~~-----s~~~~~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~ 75 (522)
.+|++.+ +|+++|++.|.+.-.. ....+.+.+|+. +.+ .... |..||-|-|+
T Consensus 18 ~~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~--~~~--~~~~-----l~dgDeVai~ 75 (81)
T PRK11130 18 ALELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQT--LVS--FDHP-----LTDGDEVAFF 75 (81)
T ss_pred eEEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCE--EcC--CCCC-----CCCCCEEEEe
Confidence 4566543 5999999999876421 334578899984 322 2222 7789998775
No 106
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=22.06 E-value=1.1e+02 Score=27.57 Aligned_cols=46 Identities=17% Similarity=0.227 Sum_probs=35.3
Q ss_pred eeccCCCCcchHHHHHHHhhhcC-CCCCceEEEecCCCCCCCCCCcccccc
Q 040442 14 LRLEVPSSCTLHELGETLSQLIS-SSPSSLRFSLNRKDELHASSPPESLHS 63 (522)
Q Consensus 14 ~rlevp~~~TL~eLr~~l~~~l~-~s~~~~~lSLN~kd~L~~~~~~~tL~s 63 (522)
-+.=||.+-|++|+...|+..|. .+.+++.|-.|++ +. .+.+++.+
T Consensus 43 ~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~--~p--~~~~~~~~ 89 (112)
T cd01611 43 KKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNS--LP--PTSATMSQ 89 (112)
T ss_pred ceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCc--cC--CchhHHHH
Confidence 45559999999999999999985 4666899999984 43 35566544
No 107
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=20.61 E-value=1e+02 Score=25.97 Aligned_cols=39 Identities=5% Similarity=0.130 Sum_probs=27.7
Q ss_pred ccccceeccCCCCc-chHHHHHHHhhhcCC-CCCceEEEec
Q 040442 9 ENKETLRLEVPSSC-TLHELGETLSQLISS-SPSSLRFSLN 47 (522)
Q Consensus 9 ~~~~T~rlevp~~~-TL~eLr~~l~~~l~~-s~~~~~lSLN 47 (522)
.+++.-+|.+++.. |+.|||..|.+.-.. ....|.|.|=
T Consensus 7 S~k~~~~i~fdG~~Isv~dLKr~I~~~~~lg~~~dfdL~i~ 47 (74)
T PF08783_consen 7 SQKDYDTITFDGTSISVFDLKREIIEKKKLGKGTDFDLVIY 47 (74)
T ss_dssp T-SSEEEEEESSSEEEHHHHHHHHHHHHT---TTTEEEEEE
T ss_pred ccCCccEEEECCCeeEHHHHHHHHHHHhCCCcCCcCCEEEE
Confidence 38999999999998 999999999777432 2223555553
No 108
>PF14795 Leucyl-specific: Leucine-tRNA synthetase-specific domain; PDB: 1OBC_A 2BTE_A 2V0G_A 2BYT_A 1OBH_A 1H3N_A 2V0C_A.
Probab=20.36 E-value=37 Score=26.95 Aligned_cols=28 Identities=25% Similarity=0.360 Sum_probs=18.2
Q ss_pred eeeecccccceeccCCCCc-chHHHHHHHh
Q 040442 4 RLRSLENKETLRLEVPSSC-TLHELGETLS 32 (522)
Q Consensus 4 RvR~~~~~~T~rlevp~~~-TL~eLr~~l~ 32 (522)
|||. ..-..+|||+|..+ ||.|+|..=+
T Consensus 13 rvrL-~e~~R~rLel~~~~Ls~ee~~KmGA 41 (56)
T PF14795_consen 13 RVRL-PEPTRIRLELEEGELSLEEVKKMGA 41 (56)
T ss_dssp EEE---HHHHHHHT-S-SEEEHHHHHHTT-
T ss_pred EEEc-CcchhheeecccccccHHHHHhhch
Confidence 6774 55567899999997 9999886433
No 109
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=20.21 E-value=63 Score=32.74 Aligned_cols=60 Identities=22% Similarity=0.420 Sum_probs=41.1
Q ss_pred ccCCCCcchHHHHHHHhhhcCCCC-C--ce--EEEecCCCCCCCCCCcccccccccccCCeEEEecCC
Q 040442 16 LEVPSSCTLHELGETLSQLISSSP-S--SL--RFSLNRKDELHASSPPESLHSLGVTAGDLIFYSRDP 78 (522)
Q Consensus 16 levp~~~TL~eLr~~l~~~l~~s~-~--~~--~lSLN~kd~L~~~~~~~tL~slGIvSGDLI~~~l~~ 78 (522)
+-|+-+.++++|-..|.+.+.-++ . .| .++-+.=+.| ++.+|+....|.+||.|||-..+
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i---~~~~t~~~~el~~GdIi~fQ~~~ 153 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPI---DPNQTFEKAELQDGDIICFQRAP 153 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE-----SSSBHHHTT--TTEEEEEEE--
T ss_pred EEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEc---CCCCchhhcccCCCCEEEEEecc
Confidence 456667799999999999985433 3 22 5677777777 58999999999999999998865
Done!