Query 040408
Match_columns 235
No_of_seqs 176 out of 554
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:07:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040408.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040408hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00166 UBX Domain present 99.8 4.8E-19 1E-23 130.9 9.3 77 97-175 2-80 (80)
2 PF00789 UBX: UBX domain; Int 99.8 1.9E-18 4.1E-23 127.7 9.5 78 96-175 3-82 (82)
3 cd01772 SAKS1_UBX SAKS1-like U 99.8 3.1E-18 6.8E-23 126.6 9.6 75 97-174 2-78 (79)
4 cd01773 Faf1_like1_UBX Faf1 ik 99.7 2.7E-17 5.8E-22 122.5 9.1 74 98-174 4-79 (82)
5 cd01767 UBX UBX (ubiquitin reg 99.7 2.7E-17 5.9E-22 120.6 8.8 71 99-172 2-74 (77)
6 cd01770 p47_UBX p47-like ubiqu 99.7 3.6E-16 7.8E-21 115.8 9.4 75 98-175 3-78 (79)
7 cd01771 Faf1_UBX Faf1 UBX doma 99.7 3.7E-16 8E-21 116.0 9.0 73 99-174 4-78 (80)
8 cd01774 Faf1_like2_UBX Faf1 ik 99.6 1.2E-15 2.6E-20 114.5 9.0 73 99-174 4-83 (85)
9 KOG2689 Predicted ubiquitin re 99.5 3.7E-14 8.1E-19 125.4 6.5 79 97-177 208-288 (290)
10 KOG2507 Ubiquitin regulatory p 99.0 2.3E-10 5E-15 106.7 4.6 80 97-178 312-393 (506)
11 KOG2086 Protein tyrosine phosp 99.0 3.3E-10 7.2E-15 104.8 5.6 74 96-171 302-376 (380)
12 KOG2699 Predicted ubiquitin re 98.5 1.8E-08 3.9E-13 94.2 -1.5 147 12-178 247-394 (407)
13 KOG1364 Predicted ubiquitin re 98.4 2E-07 4.4E-12 85.5 3.5 69 100-170 278-349 (356)
14 KOG1363 Predicted regulator of 98.3 1.9E-06 4.1E-11 82.6 6.7 73 100-175 384-459 (460)
15 KOG2699 Predicted ubiquitin re 98.0 5E-07 1.1E-11 84.6 -3.4 124 48-176 220-345 (407)
16 PF11543 UN_NPL4: Nuclear pore 97.6 0.00012 2.5E-09 54.4 5.5 71 102-174 6-78 (80)
17 cd01806 Nedd8 Nebb8-like ubiq 97.0 0.0056 1.2E-07 43.5 7.7 70 103-176 3-72 (76)
18 cd01809 Scythe_N Ubiquitin-lik 96.8 0.009 1.9E-07 42.0 7.6 69 103-175 3-71 (72)
19 cd01794 DC_UbP_C dendritic cel 96.7 0.008 1.7E-07 43.2 6.8 69 103-175 1-69 (70)
20 cd01807 GDX_N ubiquitin-like d 96.6 0.011 2.4E-07 42.4 7.2 69 103-175 3-71 (74)
21 PTZ00044 ubiquitin; Provisiona 96.6 0.013 2.8E-07 42.0 7.3 70 103-176 3-72 (76)
22 PF00240 ubiquitin: Ubiquitin 96.6 0.017 3.6E-07 40.5 7.7 66 106-175 1-66 (69)
23 cd01803 Ubiquitin Ubiquitin. U 96.4 0.019 4.1E-07 40.8 7.3 70 103-176 3-72 (76)
24 cd01792 ISG15_repeat1 ISG15 ub 96.3 0.022 4.8E-07 41.6 7.3 72 103-176 5-76 (80)
25 cd01796 DDI1_N DNA damage indu 96.2 0.026 5.6E-07 40.4 6.8 69 103-174 1-70 (71)
26 cd01810 ISG15_repeat2 ISG15 ub 96.0 0.036 7.7E-07 39.8 7.0 70 103-176 1-70 (74)
27 cd01798 parkin_N amino-termina 95.9 0.037 7.9E-07 39.2 6.6 67 104-174 2-68 (70)
28 cd01805 RAD23_N Ubiquitin-like 95.8 0.064 1.4E-06 38.3 7.7 68 103-174 3-72 (77)
29 cd01769 UBL Ubiquitin-like dom 95.8 0.039 8.4E-07 37.9 6.2 67 105-175 2-68 (69)
30 cd01804 midnolin_N Ubiquitin-l 95.6 0.062 1.4E-06 39.1 6.8 69 103-176 4-72 (78)
31 PF13881 Rad60-SLD_2: Ubiquiti 95.4 0.2 4.3E-06 39.4 9.5 71 100-175 3-87 (111)
32 cd01791 Ubl5 UBL5 ubiquitin-li 95.4 0.12 2.7E-06 37.4 7.8 69 103-175 4-72 (73)
33 cd01808 hPLIC_N Ubiquitin-like 95.2 0.14 3.1E-06 36.3 7.5 68 103-175 3-70 (71)
34 cd01802 AN1_N ubiquitin-like d 95.2 0.13 2.7E-06 39.8 7.6 70 103-176 30-99 (103)
35 cd01812 BAG1_N Ubiquitin-like 95.0 0.11 2.5E-06 36.3 6.6 67 103-174 3-69 (71)
36 PF09379 FERM_N: FERM N-termin 95.0 0.16 3.5E-06 36.4 7.5 70 105-175 1-76 (80)
37 cd01814 NTGP5 Ubiquitin-like N 94.7 0.066 1.4E-06 42.3 5.0 70 103-176 7-90 (113)
38 smart00213 UBQ Ubiquitin homol 94.7 0.14 3.1E-06 34.6 6.1 61 103-168 3-63 (64)
39 cd01763 Sumo Small ubiquitin-r 94.6 0.36 7.7E-06 35.9 8.6 73 98-175 10-82 (87)
40 cd00196 UBQ Ubiquitin-like pro 94.1 0.24 5.2E-06 31.4 6.1 67 104-174 1-67 (69)
41 PF11976 Rad60-SLD: Ubiquitin- 93.1 0.87 1.9E-05 32.0 8.0 68 103-174 3-71 (72)
42 cd01800 SF3a120_C Ubiquitin-li 92.9 0.47 1E-05 34.1 6.4 65 109-177 6-70 (76)
43 cd01797 NIRF_N amino-terminal 92.9 0.61 1.3E-05 34.0 7.0 70 103-176 3-74 (78)
44 smart00295 B41 Band 4.1 homolo 92.8 0.86 1.9E-05 37.8 8.8 73 100-174 4-81 (207)
45 cd01793 Fubi Fubi ubiquitin-li 91.4 1.1 2.5E-05 31.8 6.8 67 103-175 3-69 (74)
46 cd01795 USP48_C USP ubiquitin- 91.0 0.94 2E-05 35.2 6.3 60 115-179 19-80 (107)
47 TIGR00601 rad23 UV excision re 90.6 0.94 2E-05 42.8 7.3 72 103-178 3-77 (378)
48 PF14836 Ubiquitin_3: Ubiquiti 90.5 1.1 2.3E-05 34.0 6.2 63 112-176 15-80 (88)
49 PF08817 YukD: WXG100 protein 89.5 1.3 2.8E-05 32.1 5.9 71 99-173 2-78 (79)
50 cd01799 Hoil1_N Ubiquitin-like 88.5 1.6 3.4E-05 31.7 5.6 63 107-173 9-72 (75)
51 cd01813 UBP_N UBP ubiquitin pr 88.4 2.4 5.2E-05 30.5 6.5 69 103-174 3-72 (74)
52 cd01790 Herp_N Homocysteine-re 87.1 2.7 5.8E-05 31.1 6.2 69 103-175 4-78 (79)
53 PF14560 Ubiquitin_2: Ubiquiti 84.0 7.6 0.00016 28.5 7.4 72 103-175 4-82 (87)
54 cd01787 GRB7_RA RA (RAS-associ 81.5 8.8 0.00019 28.9 6.9 50 102-151 4-53 (85)
55 cd01801 Tsc13_N Ubiquitin-like 80.7 11 0.00023 27.1 7.0 55 118-174 20-75 (77)
56 cd01777 SNX27_RA Ubiquitin dom 75.8 6.3 0.00014 29.8 4.6 44 103-147 4-50 (87)
57 PF02196 RBD: Raf-like Ras-bin 73.4 14 0.00029 26.5 5.7 51 102-153 2-52 (71)
58 PLN02560 enoyl-CoA reductase 73.0 19 0.0004 33.2 7.9 72 103-175 3-82 (308)
59 PF13019 Telomere_Sde2: Telome 70.9 17 0.00036 30.6 6.5 51 103-154 3-58 (162)
60 COG5100 NPL4 Nuclear pore prot 69.4 20 0.00044 34.5 7.4 74 102-177 2-80 (571)
61 cd01768 RA RA (Ras-associating 67.7 21 0.00047 25.7 5.9 45 103-147 2-50 (87)
62 cd01788 ElonginB Ubiquitin-lik 65.5 15 0.00033 29.2 4.9 59 115-177 16-81 (119)
63 cd01815 BMSC_UbP_N Ubiquitin-l 63.9 13 0.00028 27.3 4.0 53 118-174 18-73 (75)
64 PF02824 TGS: TGS domain; Int 63.6 9.6 0.00021 26.2 3.1 31 103-136 1-31 (60)
65 cd01760 RBD Ubiquitin-like dom 63.5 13 0.00028 26.9 3.9 44 103-147 2-45 (72)
66 KOG0010 Ubiquitin-like protein 58.0 30 0.00065 33.9 6.4 73 99-177 15-87 (493)
67 cd01789 Alp11_N Ubiquitin-like 56.9 74 0.0016 23.2 7.6 65 110-175 12-80 (84)
68 PF00788 RA: Ras association ( 55.3 47 0.001 23.7 5.9 59 100-159 3-70 (93)
69 PF11470 TUG-UBL1: GLUT4 regul 53.4 48 0.001 23.5 5.4 62 107-172 3-64 (65)
70 smart00455 RBD Raf-like Ras-bi 52.4 33 0.00072 24.4 4.5 45 103-148 2-46 (70)
71 KOG4495 RNA polymerase II tran 52.2 25 0.00053 27.3 3.9 62 103-167 5-66 (110)
72 PF10302 DUF2407: DUF2407 ubiq 51.6 46 0.00099 25.4 5.4 52 103-155 3-57 (97)
73 smart00314 RA Ras association 50.3 92 0.002 22.5 6.8 58 103-160 5-69 (90)
74 smart00666 PB1 PB1 domain. Pho 48.3 71 0.0015 22.5 5.8 42 103-146 4-45 (81)
75 KOG3530 FERM domain protein EH 47.3 47 0.001 33.4 5.9 74 103-177 13-90 (616)
76 cd01817 RGS12_RBD Ubiquitin do 47.2 59 0.0013 23.8 5.1 50 103-153 2-51 (73)
77 cd06395 PB1_Map2k5 PB1 domain 44.1 36 0.00078 25.5 3.6 36 102-138 2-39 (91)
78 PF00564 PB1: PB1 domain; Int 36.0 1.4E+02 0.003 21.0 5.7 43 103-146 4-46 (84)
79 cd06407 PB1_NLP A PB1 domain i 34.8 1.5E+02 0.0032 21.8 5.7 42 103-146 3-45 (82)
80 PF15016 DUF4520: Domain of un 34.0 42 0.0009 25.2 2.6 29 94-123 18-46 (85)
81 cd06404 PB1_aPKC PB1 domain is 33.4 2E+02 0.0043 21.5 6.1 43 103-146 3-45 (83)
82 cd01818 TIAM1_RBD Ubiquitin do 27.4 1E+02 0.0022 22.8 3.6 26 105-130 4-29 (77)
83 KOG1781 Small Nuclear ribonucl 25.8 47 0.001 25.7 1.7 49 94-144 22-71 (108)
84 cd05992 PB1 The PB1 domain is 24.3 2.5E+02 0.0054 19.4 5.6 41 103-145 3-44 (81)
85 KOG0005 Ubiquitin-like protein 23.9 2.2E+02 0.0048 20.2 4.6 68 102-173 2-69 (70)
86 PF03562 MltA: MltA specific i 23.0 71 0.0015 26.7 2.4 16 103-118 88-103 (158)
No 1
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.79 E-value=4.8e-19 Score=130.88 Aligned_cols=77 Identities=21% Similarity=0.452 Sum_probs=69.9
Q ss_pred CCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecC--CCcCccccCCCCceEEEEE
Q 040408 97 FRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKD--MSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 97 ~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d--~~~tL~elgL~Psall~~~ 174 (235)
++.|. |+||||||..++.+|++++||++||+|| ..+......+|.|++++|++.|.+ +++||.|+||+|+++|++.
T Consensus 2 ~~~~~-I~iRlPdG~ri~~~F~~~~tl~~v~~~v-~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v~ 79 (80)
T smart00166 2 SDQCR-LQIRLPDGSRLVRRFPSSDTLRTVYEFV-SAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVLE 79 (80)
T ss_pred CCeEE-EEEEcCCCCEEEEEeCCCCcHHHHHHHH-HHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEEe
Confidence 35688 9999999999999999999999999999 677766678999999999999964 4789999999999999998
Q ss_pred e
Q 040408 175 Y 175 (235)
Q Consensus 175 ~ 175 (235)
|
T Consensus 80 ~ 80 (80)
T smart00166 80 P 80 (80)
T ss_pred C
Confidence 7
No 2
>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=99.77 E-value=1.9e-18 Score=127.67 Aligned_cols=78 Identities=32% Similarity=0.476 Sum_probs=68.6
Q ss_pred CCCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCC-eEEEeCCCceeecCCC-cCccccCCCCceEEEE
Q 040408 96 KFRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVP-FYLYTAPPKRIIKDMS-QDFYSAGFIPGAIVYF 173 (235)
Q Consensus 96 ~~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~-F~L~~t~P~k~l~d~~-~tL~elgL~Psall~~ 173 (235)
.+..|. ||||||||..++..|.+++|+++||+|| ...+...... |.|++++|++.|.+.+ +||.|+||.|+++|++
T Consensus 3 ~~~~~~-I~vRlpdG~~l~~~F~~~~tl~~l~~~v-~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 3 ESDVVR-IQVRLPDGSRLQRRFPKSDTLQDLYDFV-ESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp TSSEEE-EEEEETTSTEEEEEEETTSBHHHHHHHH-HHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCCEEE-EEEECCCCCEEEEEECCcchHHHHHHHH-HHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 456787 9999999999999999999999999999 6666665544 9999999999997554 8999999999999999
Q ss_pred Ee
Q 040408 174 SY 175 (235)
Q Consensus 174 ~~ 175 (235)
.|
T Consensus 81 ~~ 82 (82)
T PF00789_consen 81 EK 82 (82)
T ss_dssp E-
T ss_pred EC
Confidence 98
No 3
>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=99.76 E-value=3.1e-18 Score=126.63 Aligned_cols=75 Identities=24% Similarity=0.483 Sum_probs=67.6
Q ss_pred CCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeec--CCCcCccccCCCCceEEEEE
Q 040408 97 FRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIK--DMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 97 ~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~--d~~~tL~elgL~Psall~~~ 174 (235)
|..|. |+||||||..++.+|++++||++||+|| ..+..+ ..+|.|++++|+++|. |.++||.|+||+|+|+|++.
T Consensus 2 ~~~~~-i~iRlp~G~~~~~~F~~~~tl~~v~~fV-~~~~~~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 2 YTETR-IQIRLLDGTTLKQTFKAREQLAAVRLFV-ELNTGN-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred CcEEE-EEEECCCCCEEEEEeCCCChHHHHHHHH-HHcCCC-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence 67888 9999999999999999999999999999 666544 4789999999999996 45889999999999999874
No 4
>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=99.72 E-value=2.7e-17 Score=122.51 Aligned_cols=74 Identities=23% Similarity=0.396 Sum_probs=66.8
Q ss_pred CceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeec--CCCcCccccCCCCceEEEEE
Q 040408 98 RKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIK--DMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 98 ~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~--d~~~tL~elgL~Psall~~~ 174 (235)
+.|. |+||||||..++.+|+.+++|++||+|| .+ ...+..+|.|++++||++|. |++.||.|+||+|+++|++.
T Consensus 4 ~~t~-i~vRlP~G~r~~rrF~~~~~L~~v~~fv-~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 4 PKAR-LMLRYPDGKREQIALPEQAKLLALVRHV-QS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred CeeE-EEEECCCCCEEEEEeCCCCcHHHHHHHH-Hh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 4678 9999999999999999999999999999 55 45567899999999999995 66889999999999999985
No 5
>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=99.72 E-value=2.7e-17 Score=120.55 Aligned_cols=71 Identities=25% Similarity=0.492 Sum_probs=62.8
Q ss_pred ceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecC--CCcCccccCCCCceEEE
Q 040408 99 KAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKD--MSQDFYSAGFIPGAIVY 172 (235)
Q Consensus 99 ~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d--~~~tL~elgL~Psall~ 172 (235)
.|. ||||||||..++.+|++++|+++||+|| ..+..+ ..+|.|++++|++.|.+ .++||.|+||+|++++.
T Consensus 2 ~t~-i~iRlpdG~~~~~~F~~~~tl~~l~~fv-~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~~~ 74 (77)
T cd01767 2 TTK-IQIRLPDGKRLEQRFNSTHKLSDVRDFV-ESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVVFQ 74 (77)
T ss_pred cEE-EEEEcCCCCEEEEEeCCCCCHHHHHHHH-HHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCccceEEE
Confidence 577 9999999999999999999999999999 666544 67899999999999965 78999999999766654
No 6
>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=99.67 E-value=3.6e-16 Score=115.77 Aligned_cols=75 Identities=24% Similarity=0.397 Sum_probs=64.4
Q ss_pred CceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 98 RKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 98 ~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
+.|. |+||||||..++.+|+.++||++||+|| ...... ...+|.|.+++|++.|.+.++||.|+||.+ ++|...|
T Consensus 3 p~t~-iqiRlpdG~r~~~rF~~~~tv~~l~~~v-~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~-s~v~q~~ 78 (79)
T cd01770 3 PTTS-IQIRLADGKRLVQKFNSSHRVSDVRDFI-VNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLN-AVIVQRL 78 (79)
T ss_pred CeeE-EEEECCCCCEEEEEeCCCCcHHHHHHHH-HHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcC-cEEEEEe
Confidence 3577 9999999999999999999999999999 555432 358899999999999987799999999997 5555666
No 7
>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=99.67 E-value=3.7e-16 Score=116.02 Aligned_cols=73 Identities=21% Similarity=0.309 Sum_probs=64.7
Q ss_pred ceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeec--CCCcCccccCCCCceEEEEE
Q 040408 99 KAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIK--DMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 99 ~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~--d~~~tL~elgL~Psall~~~ 174 (235)
.+. |+||||||..++.+|+.+++|++||+|| ... ..+..+|.|++++||++|. |.+.||.|+||.|+++|++.
T Consensus 4 ~~~-i~iRlP~G~r~~rrF~~t~~L~~l~~fv-~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 4 ISK-LRVRTPSGDFLERRFLGDTPLQVLLNFV-ASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred eEE-EEEECCCCCEEEEEeCCCCcHHHHHHHH-Hhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 466 9999999999999999999999999999 443 3345689999999999995 66789999999999999884
No 8
>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=99.64 E-value=1.2e-15 Score=114.54 Aligned_cols=73 Identities=21% Similarity=0.429 Sum_probs=64.7
Q ss_pred ceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeec-------CCCcCccccCCCCceEE
Q 040408 99 KAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIK-------DMSQDFYSAGFIPGAIV 171 (235)
Q Consensus 99 ~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~-------d~~~tL~elgL~Psall 171 (235)
.|. |+||||||+.++..|+.++|+++||+|| .+ +.+...+|.|.+++|++++. |.+.||.|+||.|+++|
T Consensus 4 ~~~-I~iRlp~G~Rl~rrF~~~~tl~~l~~fv-~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L 80 (85)
T cd01774 4 TVK-IVFKLPNGTRVERRFLFTQSLRVIHDFL-FS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL 80 (85)
T ss_pred eEE-EEEECCCCCEEEEEeCCCCcHHHHHHHH-Hh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence 466 9999999999999999999999999999 54 44455789999999999996 45789999999999999
Q ss_pred EEE
Q 040408 172 YFS 174 (235)
Q Consensus 172 ~~~ 174 (235)
++.
T Consensus 81 ~V~ 83 (85)
T cd01774 81 FVQ 83 (85)
T ss_pred EEe
Confidence 885
No 9
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=3.7e-14 Score=125.40 Aligned_cols=79 Identities=18% Similarity=0.326 Sum_probs=72.6
Q ss_pred CCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeec--CCCcCccccCCCCceEEEEE
Q 040408 97 FRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIK--DMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 97 ~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~--d~~~tL~elgL~Psall~~~ 174 (235)
|.+|+ |+||+|||++|+.+|++.|||+.|+.|| +.+..+...||.|.+++||+.|. |+.++|.+|||+|+++|.+.
T Consensus 208 ys~cr-lQiRl~DG~Tl~~tF~a~E~L~~VR~wV-d~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil~ 285 (290)
T KOG2689|consen 208 YSQCR-LQIRLPDGQTLTQTFNARETLAAVRLWV-DLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLILE 285 (290)
T ss_pred ccceE-EEEEcCCCCeeeeecCchhhHHHHHHHH-HHhccCCCCCeeeecCCCceecccccccccHHHhccccchheecc
Confidence 67898 9999999999999999999999999999 77777767799999999999994 67899999999999999998
Q ss_pred eCc
Q 040408 175 YDD 177 (235)
Q Consensus 175 ~~~ 177 (235)
|-.
T Consensus 286 ~~~ 288 (290)
T KOG2689|consen 286 PLE 288 (290)
T ss_pred ccc
Confidence 843
No 10
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=99.02 E-value=2.3e-10 Score=106.73 Aligned_cols=80 Identities=16% Similarity=0.287 Sum_probs=70.5
Q ss_pred CCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeec--CCCcCccccCCCCceEEEEE
Q 040408 97 FRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIK--DMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 97 ~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~--d~~~tL~elgL~Psall~~~ 174 (235)
...|. |+||+|||+.++-.|.+++-|..|++|| +..-......|.|.+++||++|. |..++|.|+.|+|++.|++.
T Consensus 312 ~d~~r-LqiRLPdGssfte~Fps~~vL~~vr~yv-rq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvl 389 (506)
T KOG2507|consen 312 ADDVR-LQIRLPDGSSFTEKFPSTSVLRMVRDYV-RQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVL 389 (506)
T ss_pred cceeE-EEEecCCccchhhcCCcchHHHHHHHHH-HhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEEE
Confidence 46788 9999999999999999999999999999 55555557899999999999995 56899999999999998887
Q ss_pred eCch
Q 040408 175 YDDA 178 (235)
Q Consensus 175 ~~~~ 178 (235)
-...
T Consensus 390 pk~r 393 (506)
T KOG2507|consen 390 PKKR 393 (506)
T ss_pred ecCC
Confidence 6543
No 11
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=99.02 E-value=3.3e-10 Score=104.77 Aligned_cols=74 Identities=23% Similarity=0.371 Sum_probs=65.0
Q ss_pred CCCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcC-CCCCCeEEEeCCCceeecCCCcCccccCCCCceEE
Q 040408 96 KFRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLS-RTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIV 171 (235)
Q Consensus 96 ~~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~-~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall 171 (235)
.-+.+. ||||++||..+...|+.++||++||.|| ..... +...+|.|+++||-+.|.|+++||.++||.++++|
T Consensus 302 ~~PtTs-IQIRLanG~RlV~~fN~sHTv~DIR~fI-~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvlv 376 (380)
T KOG2086|consen 302 AEPTTS-IQIRLANGTRLVLKFNHSHTVSDIREFI-DTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVLV 376 (380)
T ss_pred CCCcce-EEEEecCCceeeeeccCcccHHHHHHHH-HhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhhh
Confidence 446677 9999999999999999999999999999 45544 34668999999999999999999999999987765
No 12
>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=1.8e-08 Score=94.20 Aligned_cols=147 Identities=15% Similarity=0.036 Sum_probs=111.2
Q ss_pred hhhccccccCCcceEEecCCCCCCCCCCCCCCCCCCCCCCcccccCCHHHHHHHHHhhh-hcccCCcccCHHHHHHHHHh
Q 040408 12 LAAATKEKFGREIRVFETSGQFSSSPRIDETDDDNDDDDDDEFYEFTAEDYYRILAANK-KKEDNKFLKTRRIREAEEAA 90 (235)
Q Consensus 12 ~~~~~~~~~~R~~~Vf~p~~~~~~~~~~~~~~~~~~~elpD~FfelT~~e~k~~~~~~~-~~~~~~~L~TkamRE~e~~~ 90 (235)
-++|+..+.+|+..++..... +...+|| |.++.+++++.+..+. .++.-+-|.++.||++++ .
T Consensus 247 l~~P~~tk~~Re~~~~~~~~l------------a~~~~l~---v~f~~~~i~~~~~~r~e~i~~~q~l~~~~~~~k~~-~ 310 (407)
T KOG2699|consen 247 LGAPPVTKADRESAANPSLPL------------APAIELP---VKFPDREIKQEAFLRSELIELLQNLVSSDLKEKEM-A 310 (407)
T ss_pred hcCCccchhHHHHhhccCccc------------cccceee---eecChHHHHHHHHhhHHHHHHHHHhhhhhhcchHH-H
Confidence 455666999999766654443 2247788 8999999988875543 244566799999999886 4
Q ss_pred ccCCcCCCceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceE
Q 040408 91 GTGRSKFRKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAI 170 (235)
Q Consensus 91 ~~~~~~~~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psal 170 (235)
- +..|.... +++++|||..+|+.|.+++.+..+|.|| ++.+.-.+.+|.|......+...+...+...++..+.+.
T Consensus 311 ~--~~~~~~~~-~~ak~pd~~l~q~~f~~~~~~~~~~g~~-~~a~~~~~l~~el~~~~~e~~~~p~~~~~~~~~~~~~s~ 386 (407)
T KOG2699|consen 311 F--LTLYTPFK-NVAKDPDGELLQGIFLPNELLLARYGFV-SEALEFMELPGELLQEGSEFLSLPSVNADNKRNPQAPSE 386 (407)
T ss_pred H--HHhhcccc-hhccCcchhhhhhhhchhHHHHHHHhcc-ccchhhhhhhhHHhhcccccccccccccccccCCCCccc
Confidence 3 56777777 9999999999999999999999999999 677755577888776543222234456777889999999
Q ss_pred EEEEeCch
Q 040408 171 VYFSYDDA 178 (235)
Q Consensus 171 l~~~~~~~ 178 (235)
+.+.|+..
T Consensus 387 l~~~~~~~ 394 (407)
T KOG2699|consen 387 LNSSIANP 394 (407)
T ss_pred ccCccccc
Confidence 99988653
No 13
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=2e-07 Score=85.47 Aligned_cols=69 Identities=28% Similarity=0.355 Sum_probs=59.6
Q ss_pred eeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEeCCCceeec--CCCcCccccCCCCceE
Q 040408 100 AVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYTAPPKRIIK--DMSQDFYSAGFIPGAI 170 (235)
Q Consensus 100 ~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t~P~k~l~--d~~~tL~elgL~Psal 170 (235)
|. |+||||||...|.+|...|+++-||.|+ -.+... ....|.|.+..|++... +.+.||.++||.|+++
T Consensus 278 t~-i~vR~pdG~R~qrkf~~sepv~ll~~~~-~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 278 TS-IQVRFPDGRRKQRKFLKSEPVQLLWSFC-YSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred eE-EEEecCCccHHHHhhccccHHHHHHHHH-HHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 55 9999999999999999999999999999 666664 47889999999876553 3477999999999975
No 14
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=98.25 E-value=1.9e-06 Score=82.63 Aligned_cols=73 Identities=23% Similarity=0.381 Sum_probs=64.0
Q ss_pred eeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecC--CCcCccccCCCC-ceEEEEEe
Q 040408 100 AVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKD--MSQDFYSAGFIP-GAIVYFSY 175 (235)
Q Consensus 100 ~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d--~~~tL~elgL~P-sall~~~~ 175 (235)
.. |+||||+|+.+..+|..+++++.||+|| ..+. .....|.|.+++|++.+.+ .+.+|.+.|+.| ...|++.|
T Consensus 384 ~~-l~iR~P~G~r~~RrF~~s~~~q~l~~~v-~~~~-~~~~e~~~~~~fPr~~~~~~~~~~sl~~~~l~p~qe~lflE~ 459 (460)
T KOG1363|consen 384 IT-VAIRLPSGTRLERRFLKSDKLQILYDYV-DSNG-FHPEEYSLNTSFPRRPLGDYEHSSSLQDIGLTPRQETLFLEE 459 (460)
T ss_pred ee-eEEECCCCCeeeeeeecccchhHHHHHH-Hhcc-CCchhhccccCCCcccccccccccccccCCcccccceeeeec
Confidence 44 9999999999999999999999999999 6776 4578899999999999953 367899999999 78888776
No 15
>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=5e-07 Score=84.63 Aligned_cols=124 Identities=20% Similarity=0.329 Sum_probs=97.4
Q ss_pred CCCCcccccCCHHHHHHHHHhhh--hcccCCcccCHHHHHHHHHhccCCcCCCceeEEEEECCCCceEEEEeCCCCchHH
Q 040408 48 DDDDDEFYEFTAEDYYRILAANK--KKEDNKFLKTRRIREAEEAAGTGRSKFRKAVIIRVRFPDNHTLEVNFHPSETMQS 125 (235)
Q Consensus 48 ~elpD~FfelT~~e~k~~~~~~~--~~~~~~~L~TkamRE~e~~~~~~~~~~~~~~~IRIRFPDg~~lq~~F~~~etl~~ 125 (235)
.+.+|+ |+.++.-+++.+..+. +...+.++.||+.||...... ...++... ++|.|||+.+.|+.|.++++++.
T Consensus 220 ae~eEe-~~~~e~~l~k~~s~~ser~~~l~~P~~tk~~Re~~~~~~--~~la~~~~-l~v~f~~~~i~~~~~~r~e~i~~ 295 (407)
T KOG2699|consen 220 AEDEEE-YELVEKTLRKLQSLKSERKRLLGAPPVTKADRESAANPS--LPLAPAIE-LPVKFPDREIKQEAFLRSELIEL 295 (407)
T ss_pred cccHHH-HHHHHHHHHHHHHHhhhhhhhhcCCccchhHHHHhhccC--ccccccce-eeeecChHHHHHHHHhhHHHHHH
Confidence 344444 8888777777766542 233477788999999655554 67777776 88999999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 126 LVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 126 l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
++++| .+.+.+...-|....+|++.+..|.+..|.+.-|.|..++++.++
T Consensus 296 ~q~l~-~~~~~~k~~~~~~~~~~~~~~ak~pd~~l~q~~f~~~~~~~~~~g 345 (407)
T KOG2699|consen 296 LQNLV-SSDLKEKEMAFLTLYTPFKNVAKDPDGELLQGIFLPNELLLARYG 345 (407)
T ss_pred HHHhh-hhhhcchHHHHHHhhcccchhccCcchhhhhhhhchhHHHHHHHh
Confidence 99999 788887666777777888878777788999999999999855543
No 16
>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=97.64 E-value=0.00012 Score=54.36 Aligned_cols=71 Identities=25% Similarity=0.356 Sum_probs=44.5
Q ss_pred EEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCc-eee-cCCCcCccccCCCCceEEEEE
Q 040408 102 IIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPK-RII-KDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 102 ~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~-k~l-~d~~~tL~elgL~Psall~~~ 174 (235)
+||||=|||.. .....+++|+++||+-| .+.+.-+...|.|+..... ..+ .+.+++|.++||.-..+||+.
T Consensus 6 ilRvrS~dG~~-Rie~~~~~t~~~L~~kI-~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 6 ILRVRSKDGMK-RIEVSPSSTLSDLKEKI-SEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp EEEEE-SSEEE-EEEE-TTSBHHHHHHHH-HHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEECCCCCE-EEEcCCcccHHHHHHHH-HHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 59999999984 33577999999999999 7888766678999987644 344 355789999999999999875
No 17
>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=96.95 E-value=0.0056 Score=43.54 Aligned_cols=70 Identities=10% Similarity=0.177 Sum_probs=57.2
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|.||..+|..+...+.++.|+++|.+.| .....-+.....|+ +..+.+.| +.+|.++|+....+|++.+.
T Consensus 3 i~v~~~~g~~~~~~v~~~~tv~~lK~~i-~~~~g~~~~~qrL~--~~g~~L~d-~~tl~~~~i~~g~~i~l~~~ 72 (76)
T cd01806 3 IKVKTLTGKEIEIDIEPTDKVERIKERV-EEKEGIPPQQQRLI--YSGKQMND-DKTAADYKLEGGSVLHLVLA 72 (76)
T ss_pred EEEEeCCCCEEEEEECCCCCHHHHHHHH-hHhhCCChhhEEEE--ECCeEccC-CCCHHHcCCCCCCEEEEEEE
Confidence 7899999999999999999999999999 55544445556776 34567654 57999999999999999874
No 18
>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=96.80 E-value=0.009 Score=42.02 Aligned_cols=69 Identities=16% Similarity=0.145 Sum_probs=55.7
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
|.|+.++|..+...+.+++|+++|.+.| .....-+.....|+. ..+.+.| +.+|.++|+...+.|++.+
T Consensus 3 i~vk~~~g~~~~~~v~~~~tv~~lK~~i-~~~~gi~~~~q~L~~--~g~~L~d-~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 3 IKVKTLDSQTHTFTVEEEITVLDLKEKI-AEEVGIPVEQQRLIY--SGRVLKD-DETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred EEEEeCCCCEEEEEECCCCcHHHHHHHH-HHHHCcCHHHeEEEE--CCEECCC-cCcHHHCCCCCCCEEEEEe
Confidence 7899999999999999999999999999 565443334456664 3567755 6799999999999999875
No 19
>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=96.71 E-value=0.008 Score=43.17 Aligned_cols=69 Identities=10% Similarity=0.149 Sum_probs=54.9
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
+.||..+|..+...+.+++|+++|.+.| .+...-+.....|+ +-.+.+.| +.+|.++|+....+|++..
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I-~~~~gi~~~~q~Li--~~G~~L~D-~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQL-QAAEGVDPCCQRWF--FSGKLLTD-KTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHH-HHHhCCCHHHeEEE--ECCeECCC-CCCHHHcCCCCCCEEEEEe
Confidence 3689999999999999999999999999 55433334456676 45677765 6899999999999999864
No 20
>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=96.64 E-value=0.011 Score=42.37 Aligned_cols=69 Identities=12% Similarity=0.172 Sum_probs=56.4
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
|-||..+|..+.....+++|+++|.+.| .+...-+...+.|+ +-.+.+.| +.+|.++|+.+.+.|++..
T Consensus 3 i~vk~~~G~~~~l~v~~~~tV~~lK~~i-~~~~gi~~~~q~L~--~~G~~L~d-~~~L~~~~i~~~~~l~l~~ 71 (74)
T cd01807 3 LTVKLLQGRECSLQVSEKESVSTLKKLV-SEHLNVPEEQQRLL--FKGKALAD-DKRLSDYSIGPNAKLNLVV 71 (74)
T ss_pred EEEEeCCCCEEEEEECCCCcHHHHHHHH-HHHHCCCHHHeEEE--ECCEECCC-CCCHHHCCCCCCCEEEEEE
Confidence 7889999999999999999999999999 55544345567776 44577765 5899999999999998875
No 21
>PTZ00044 ubiquitin; Provisional
Probab=96.59 E-value=0.013 Score=41.96 Aligned_cols=70 Identities=16% Similarity=0.196 Sum_probs=57.6
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-||..+|..+...+.+++|+.+|-..| .....-+.....|+ +..+.+.| +.+|.+.|+.+.+.|++.+.
T Consensus 3 i~vk~~~G~~~~l~v~~~~tv~~lK~~i-~~~~gi~~~~q~L~--~~g~~L~d-~~~l~~~~i~~~~~i~l~~~ 72 (76)
T PTZ00044 3 ILIKTLTGKKQSFNFEPDNTVQQVKMAL-QEKEGIDVKQIRLI--YSGKQMSD-DLKLSDYKVVPGSTIHMVLQ 72 (76)
T ss_pred EEEEeCCCCEEEEEECCCCcHHHHHHHH-HHHHCCCHHHeEEE--ECCEEccC-CCcHHHcCCCCCCEEEEEEE
Confidence 6789999999999999999999999999 66655455567777 44567754 67899999999999999874
No 22
>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=96.58 E-value=0.017 Score=40.48 Aligned_cols=66 Identities=12% Similarity=0.153 Sum_probs=54.5
Q ss_pred ECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 106 RFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 106 RFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
|..+|..+...+.+++|+++|.+.| .....-+.....|+. -.+++ +++.+|.++|+.+.++|++..
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i-~~~~~~~~~~~~L~~--~G~~L-~d~~tL~~~~i~~~~~I~l~~ 66 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKI-AEETGIPPEQQRLIY--NGKEL-DDDKTLSDYGIKDGSTIHLVI 66 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHH-HHHHTSTGGGEEEEE--TTEEE-STTSBTGGGTTSTTEEEEEEE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhc-ccccccccccceeee--eeecc-cCcCcHHHcCCCCCCEEEEEE
Confidence 4578999999999999999999999 676665566777775 45777 557899999999999998864
No 23
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.43 E-value=0.019 Score=40.78 Aligned_cols=70 Identities=11% Similarity=0.118 Sum_probs=56.2
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-||..+|..+...+.+++|+++|.+.| .....-+.....|+. ..+.+.| +.+|.++|+.+.+.|++.+.
T Consensus 3 i~v~~~~g~~~~~~v~~~~tV~~lK~~i-~~~~g~~~~~q~L~~--~g~~L~d-~~~L~~~~i~~~~~i~l~~~ 72 (76)
T cd01803 3 IFVKTLTGKTITLEVEPSDTIENVKAKI-QDKEGIPPDQQRLIF--AGKQLED-GRTLSDYNIQKESTLHLVLR 72 (76)
T ss_pred EEEEcCCCCEEEEEECCcCcHHHHHHHH-HHHhCCCHHHeEEEE--CCEECCC-CCcHHHcCCCCCCEEEEEEE
Confidence 6789999999999999999999999999 565544444566663 4567755 57999999999999999874
No 24
>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=96.33 E-value=0.022 Score=41.59 Aligned_cols=72 Identities=17% Similarity=0.284 Sum_probs=56.4
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-|+-.+|..+...+.++.|+++|.+.| .+...-+...+.|...+..+++.| +.+|.++|+.+.+.|++.+.
T Consensus 5 i~Vk~~~G~~~~~~v~~~~TV~~lK~~I-~~~~~i~~~~qrL~~~~~G~~L~D-~~tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 5 LKVKMLGGNEFLVSLRDSMTVSELKQQI-AQKIGVPAFQQRLAHLDSREVLQD-GVPLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred EEEEeCCCCEEEEEcCCCCcHHHHHHHH-HHHhCCCHHHEEEEeccCCCCCCC-CCCHHHcCCCCCCEEEEEEE
Confidence 7788889998888999999999999999 555443445567744455567765 57999999999999988763
No 25
>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=96.16 E-value=0.026 Score=40.38 Aligned_cols=69 Identities=14% Similarity=0.127 Sum_probs=54.6
Q ss_pred EEEECC-CCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 103 IRVRFP-DNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 103 IRIRFP-Dg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
|.|+.+ +|..+.....+++|+++|.++| .+.-.-+.....|+. -.+.+.|+..+|.++|+....+|++.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I-~~~~gip~~~q~Li~--~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALC-EAESGIPASQQQLIY--NGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHH-HHHhCCCHHHeEEEE--CCeEccCCcccHHHcCCCCCCEEEEe
Confidence 457888 9998999999999999999999 555443445567764 45777776678999999999999875
No 26
>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=96.03 E-value=0.036 Score=39.78 Aligned_cols=70 Identities=19% Similarity=0.240 Sum_probs=56.2
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-||-++|..+.....+++|+.+|.+.| .+...-+...+.|+ +-.+.+.| +.+|.++|+.....|++.+.
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I-~~~~gi~~~~q~L~--~~G~~L~D-~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQV-SQRERVQADQFWLS--FEGRPMED-EHPLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHH-HHHhCCCHHHeEEE--ECCEECCC-CCCHHHcCCCCCCEEEEEEE
Confidence 4578999999999999999999999999 55544345667786 44677765 58999999999999998764
No 27
>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=95.93 E-value=0.037 Score=39.18 Aligned_cols=67 Identities=12% Similarity=0.173 Sum_probs=54.2
Q ss_pred EEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 104 RVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 104 RIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
-||.++|..+...+.+++|+++|.+.| .+...-+.....|+ +-.+.+.| +.+|.++|+.+.+.|++.
T Consensus 2 ~vk~~~g~~~~~~v~~~~tV~~lK~~i-~~~~gi~~~~q~Li--~~G~~L~d-~~~l~~~~i~~~stl~l~ 68 (70)
T cd01798 2 YVRTNTGHTFPVEVDPDTDIKQLKEVV-AKRQGVPPDQLRVI--FAGKELRN-TTTIQECDLGQQSILHAV 68 (70)
T ss_pred EEEcCCCCEEEEEECCCChHHHHHHHH-HHHHCCCHHHeEEE--ECCeECCC-CCcHHHcCCCCCCEEEEE
Confidence 478889999999999999999999999 56544445567776 44577755 589999999999999875
No 28
>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=95.84 E-value=0.064 Score=38.32 Aligned_cols=68 Identities=15% Similarity=0.142 Sum_probs=52.5
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCC--CCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR--TDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~--~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
|.|+..+|......+.+++|+++|.+.| .+...- +.....|+ +..+.+.| +.+|.++|+.....|++.
T Consensus 3 i~vk~~~g~~~~l~v~~~~TV~~lK~~i-~~~~~i~~~~~~q~L~--~~G~~L~d-~~~L~~~~i~~~~~i~~~ 72 (77)
T cd01805 3 ITFKTLKQQTFPIEVDPDDTVAELKEKI-EEEKGCDYPPEQQKLI--YSGKILKD-DTTLEEYKIDEKDFVVVM 72 (77)
T ss_pred EEEEeCCCCEEEEEECCCCcHHHHHHHH-HHhhCCCCChhHeEEE--ECCEEccC-CCCHHHcCCCCCCEEEEE
Confidence 7789999999999999999999999999 554332 33344555 45677765 579999999988877765
No 29
>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=95.80 E-value=0.039 Score=37.93 Aligned_cols=67 Identities=16% Similarity=0.194 Sum_probs=51.8
Q ss_pred EECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 105 VRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 105 IRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
||+.+|..++..+.++.|+++|.+.| .....-+.....|+. -.+.+. ++.+|.++|+.+++.|++.+
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i-~~~~~~~~~~~~l~~--~g~~l~-d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKI-AAKEGVPPEQQRLIY--AGKILK-DDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHH-HHHHCcChHHEEEEE--CCcCCC-CcCCHHHCCCCCCCEEEEEE
Confidence 67889999999999999999999999 555544444455643 335664 46789999999999999875
No 30
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=95.57 E-value=0.062 Score=39.14 Aligned_cols=69 Identities=12% Similarity=0.194 Sum_probs=53.1
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-|+-..|......+.++.|+++|.+.| .+...-+.....|. +..+++.| + +|.++|+...+.|++...
T Consensus 4 I~Vk~~~G~~~~l~v~~~~TV~~LK~~I-~~~~~~~~~~qrL~--~~Gk~L~d-~-~L~~~gi~~~~~i~l~~~ 72 (78)
T cd01804 4 LNIHSTTGTRFDLSVPPDETVEGLKKRI-SQRLKVPKERLALL--HRETRLSS-G-KLQDLGLGDGSKLTLVPT 72 (78)
T ss_pred EEEEECCCCEEEEEECCcCHHHHHHHHH-HHHhCCChHHEEEE--ECCcCCCC-C-cHHHcCCCCCCEEEEEee
Confidence 7788888998999999999999999999 55443223334454 55677766 4 899999999999988753
No 31
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=95.41 E-value=0.2 Score=39.37 Aligned_cols=71 Identities=15% Similarity=0.226 Sum_probs=48.0
Q ss_pred eeEEEEECCCCc-eEEEEeCCCCchHHHHHHHHHhhcCCCCC-------CeEEEeCCCceeecCCCcCccccCCCCc---
Q 040408 100 AVIIRVRFPDNH-TLEVNFHPSETMQSLVDFLRMRVLSRTDV-------PFYLYTAPPKRIIKDMSQDFYSAGFIPG--- 168 (235)
Q Consensus 100 ~~~IRIRFPDg~-~lq~~F~~~etl~~l~~fV~~~~L~~~~~-------~F~L~~t~P~k~l~d~~~tL~elgL~Ps--- 168 (235)
.. ||+||.||. +-...|.++.|+++|-++| -......+. ...|.. -.|+|. ++.||.++++...
T Consensus 3 i~-lkf~l~~G~d~~~~~~~~~~TV~~lKe~i-~~~WP~d~~~~p~s~~~lRLI~--~GriL~-d~~tL~~~~~~~~~~~ 77 (111)
T PF13881_consen 3 IE-LKFRLADGKDIGPFRFDPSTTVADLKERI-WAEWPEDWEERPKSPSDLRLIY--AGRILE-DNKTLSDCRLPSGETP 77 (111)
T ss_dssp EE-EEEEETTS-EEEEEEE-TTSBHHHHHHHH-HHSSSTTSSSTT-SGGGEEEEE--TTEEE--SSSBTGGGT--TTSET
T ss_pred EE-EEEEEeCCCcccccccCccChHHHHHHHH-HHHCccccccCCCChhhEEEEe--CCeecC-CcCcHHHhCCCCCCCC
Confidence 45 999999999 9999999999999999999 555543222 244443 235775 4789999976532
Q ss_pred ---eEEEEEe
Q 040408 169 ---AIVYFSY 175 (235)
Q Consensus 169 ---all~~~~ 175 (235)
.++|+..
T Consensus 78 ~~~~vmHlvv 87 (111)
T PF13881_consen 78 GGPTVMHLVV 87 (111)
T ss_dssp T--EEEEEEE
T ss_pred CCCEEEEEEe
Confidence 4677765
No 32
>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=95.41 E-value=0.12 Score=37.36 Aligned_cols=69 Identities=14% Similarity=0.120 Sum_probs=51.7
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
|.|+=..|..+...+.+++|+++|.+.| .+.-.-+...-.|. +..+++.| +.+|.++|+.....||+-+
T Consensus 4 i~vkt~~Gk~~~~~v~~~~TV~~LK~~I-~~~~~~~~~~qrLi--~~Gk~L~D-~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 4 VVCNDRLGKKVRVKCNPDDTIGDLKKLI-AAQTGTRPEKIVLK--KWYTIFKD-HISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEECCCCCEEEEEeCCCCcHHHHHHHH-HHHhCCChHHEEEE--eCCcCCCC-CCCHHHcCCCCCCEEEEEe
Confidence 5666667888999999999999999999 44433222233444 45677765 5799999999999999865
No 33
>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=95.20 E-value=0.14 Score=36.27 Aligned_cols=68 Identities=13% Similarity=0.282 Sum_probs=52.0
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
|-|+-++|.. ...+.++.|+++|.+.| .+...-+...+.|. +..+.+.| +.+|.++|+...+.|++.+
T Consensus 3 i~vk~~~g~~-~l~v~~~~TV~~lK~~I-~~~~~i~~~~~~Li--~~Gk~L~d-~~tL~~~~i~~~stl~l~~ 70 (71)
T cd01808 3 VTVKTPKDKE-EIEIAEDASVKDFKEAV-SKKFKANQEQLVLI--FAGKILKD-TDTLTQHNIKDGLTVHLVI 70 (71)
T ss_pred EEEEcCCCCE-EEEECCCChHHHHHHHH-HHHhCCCHHHEEEE--ECCeEcCC-CCcHHHcCCCCCCEEEEEE
Confidence 6677888864 67788999999999999 55544344556775 35677765 5799999999999998865
No 34
>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=95.16 E-value=0.13 Score=39.80 Aligned_cols=70 Identities=13% Similarity=0.067 Sum_probs=56.9
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-||-.+|..+.....+++|+++|.+.| .+.-.-+.....|+ +..+.+.| +.+|.+.|+.+...|++.+.
T Consensus 30 I~Vk~l~G~~~~leV~~~~TV~~lK~kI-~~~~gip~~~QrLi--~~Gk~L~D-~~tL~dy~I~~~stL~l~~~ 99 (103)
T cd01802 30 LFIETLTGTCFELRVSPFETVISVKAKI-QRLEGIPVAQQHLI--WNNMELED-EYCLNDYNISEGCTLKLVLA 99 (103)
T ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHH-HHHhCCChHHEEEE--ECCEECCC-CCcHHHcCCCCCCEEEEEEe
Confidence 8889999999999999999999999999 55433344557786 44577765 57999999999999999874
No 35
>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=95.04 E-value=0.11 Score=36.30 Aligned_cols=67 Identities=16% Similarity=0.195 Sum_probs=51.5
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
|.||+. |......+.+++|+.+|.+.| .....-+.....|+.. .+.+.| +.+|.++|+.+...|++.
T Consensus 3 i~vk~~-g~~~~i~v~~~~tv~~lK~~i-~~~~gi~~~~q~L~~~--g~~l~d-~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 3 VRVKHG-GESHDLSISSQATFGDLKKML-APVTGVEPRDQKLIFK--GKERDD-AETLDMSGVKDGSKVMLL 69 (71)
T ss_pred EEEEEC-CEEEEEEECCCCcHHHHHHHH-HHhhCCChHHeEEeeC--CcccCc-cCcHHHcCCCCCCEEEEe
Confidence 889997 777889999999999999999 5554434445677643 345554 678999999999888874
No 36
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=95.02 E-value=0.16 Score=36.41 Aligned_cols=70 Identities=21% Similarity=0.199 Sum_probs=50.7
Q ss_pred EECCCCceEEEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEe--C-CCceeecCCCcCccccCCC--CceEEEEEe
Q 040408 105 VRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYT--A-PPKRIIKDMSQDFYSAGFI--PGAIVYFSY 175 (235)
Q Consensus 105 IRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~--t-~P~k~l~d~~~tL~elgL~--Psall~~~~ 175 (235)
|+|+||+.+.....++.|.++|++.| ...|.= ...-|.|.. . ......-+.+++|.+..-- +...++|..
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v-~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~frv 76 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQV-CDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFRV 76 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHH-HHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHH-HHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEEE
Confidence 78999999999999999999999999 666653 356688887 2 2223344667888755443 566676653
No 37
>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=94.71 E-value=0.066 Score=42.27 Aligned_cols=70 Identities=11% Similarity=0.067 Sum_probs=48.1
Q ss_pred EEEECCCCc-eEEEEeCCCCchHHHHHHHHHhhcCCC--CC-----CeEEEeCCCceeecCCCcCccccC------CCCc
Q 040408 103 IRVRFPDNH-TLEVNFHPSETMQSLVDFLRMRVLSRT--DV-----PFYLYTAPPKRIIKDMSQDFYSAG------FIPG 168 (235)
Q Consensus 103 IRIRFPDg~-~lq~~F~~~etl~~l~~fV~~~~L~~~--~~-----~F~L~~t~P~k~l~d~~~tL~elg------L~Ps 168 (235)
||+|++||+ +=-..|.+++|+++|.+.| .+..... .. .-.|. +-.++|.| ++||.+++ ...-
T Consensus 7 ~kfrl~dg~digp~~~~~sdTV~~lKekI-~~~~p~~ke~~P~~~~~qKLI--ysGKiLeD-~~TL~d~~~p~g~~~~~~ 82 (113)
T cd01814 7 IKFRLYDGSDIGPKRYPAATTVDFLKERV-VSQWPKDKEVGPKTVNEVKLI--SAGKILEN-SKTVGECRSPVGDIAGGV 82 (113)
T ss_pred EEEEccCCCccCccccChhhHHHHHHHHH-HHhcccccccCCCCHHHeEEE--eCCeecCC-CCcHHHhCCcccccCCCc
Confidence 999999996 4456788999999999999 5554211 11 23344 34577765 68999888 3444
Q ss_pred eEEEEEeC
Q 040408 169 AIVYFSYD 176 (235)
Q Consensus 169 all~~~~~ 176 (235)
.++|+..-
T Consensus 83 ~TmHvvlr 90 (113)
T cd01814 83 ITMHVVVQ 90 (113)
T ss_pred eEEEEEec
Confidence 66676653
No 38
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=94.66 E-value=0.14 Score=34.55 Aligned_cols=61 Identities=16% Similarity=0.255 Sum_probs=46.1
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCc
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPG 168 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Ps 168 (235)
|+||.++ ......+.++.|+++|.+.| .....-+.....|+.. .+.+.| +.+|.++|+.+.
T Consensus 3 i~vk~~~-~~~~~~v~~~~tv~~lk~~i-~~~~~~~~~~~~L~~~--g~~L~d-~~tL~~~~i~~~ 63 (64)
T smart00213 3 LTVKTLD-GTITLEVKPSDTVSELKEKI-AELTGIPVEQQRLIYK--GKVLED-DRTLADYNIQDG 63 (64)
T ss_pred EEEEECC-ceEEEEECCCCcHHHHHHHH-HHHHCCCHHHEEEEEC--CEECCC-CCCHHHcCCcCC
Confidence 8999999 57888999999999999999 5555444444666643 456655 589999997653
No 39
>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=94.60 E-value=0.36 Score=35.85 Aligned_cols=73 Identities=11% Similarity=0.083 Sum_probs=57.6
Q ss_pred CceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 98 RKAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 98 ~~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
.+.. |+|+.++|..+.....+++|+..|.+.+ .+...-+...+.|+.. .+.|. .+.|+.++|+--..+|++..
T Consensus 10 ~~i~-I~v~~~~g~~~~~~v~~~~~l~~l~~~y-~~~~gi~~~~~rf~f~--G~~L~-~~~T~~~l~m~d~d~I~v~l 82 (87)
T cd01763 10 EHIN-LKVKGQDGNEVFFKIKRSTPLKKLMEAY-CQRQGLSMNSVRFLFD--GQRIR-DNQTPDDLGMEDGDEIEVML 82 (87)
T ss_pred CeEE-EEEECCCCCEEEEEEcCCCHHHHHHHHH-HHHhCCCccceEEEEC--CeECC-CCCCHHHcCCCCCCEEEEEE
Confidence 3455 9999999999999999999999999999 5554444566777654 34554 36799999999998888764
No 40
>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=94.13 E-value=0.24 Score=31.38 Aligned_cols=67 Identities=18% Similarity=0.179 Sum_probs=47.0
Q ss_pred EEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 104 RVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 104 RIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
+|+++||......+.+..|+++|.+.| ......+...|.|+...+. .. ....+.+.++.....+++.
T Consensus 1 ~v~~~~~~~~~~~~~~~~tv~~l~~~i-~~~~~~~~~~~~l~~~~~~--~~-~~~~~~~~~~~~~~~i~~~ 67 (69)
T cd00196 1 KVKLNDGKTVELLVPSGTTVADLKEKL-AKKLGLPPEQQRLLVNGKI--LP-DSLTLEDYGLQDGDELVLV 67 (69)
T ss_pred CeEecCCCEEEEEcCCCCcHHHHHHHH-HHHHCcChHHeEEEECCeE--CC-CCCcHHHcCCCCCCEEEEE
Confidence 478889999999999999999999999 5555444567888876532 22 2233345666666666654
No 41
>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=93.14 E-value=0.87 Score=31.97 Aligned_cols=68 Identities=16% Similarity=0.205 Sum_probs=52.8
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCC-CCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTD-VPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~-~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
|.|+..||..++..-.++++++.|.+.. .+...-+. ..|.|+... +.+ +.+.|+.++|+-....|.+.
T Consensus 3 i~v~~~~~~~~~~~v~~~~~~~~l~~~~-~~~~~i~~~~~~~l~fdG--~~L-~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 3 IKVRSQDGKEIKFKVKPTTTVSKLIEKY-CEKKGIPPEESIRLIFDG--KRL-DPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp EEEEETTSEEEEEEEETTSCCHHHHHHH-HHHHTTTT-TTEEEEETT--EEE--TTSCHHHHT-STTEEEEEE
T ss_pred EEEEeCCCCEEEEEECCCCcHHHHHHHH-HHhhCCCccceEEEEECC--EEc-CCCCCHHHCCCCCCCEEEEE
Confidence 7899999999999999999999999999 55555444 778887543 455 45689999999988877653
No 42
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=92.94 E-value=0.47 Score=34.13 Aligned_cols=65 Identities=15% Similarity=0.141 Sum_probs=50.4
Q ss_pred CCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeCc
Q 040408 109 DNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYDD 177 (235)
Q Consensus 109 Dg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~~ 177 (235)
+|.++...+.+++|+++|.+.| .....-+.....|+.. .+.+.| +.+|.++|+.+...|++....
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 NGQMLNFTLQLSDPVSVLKVKI-HEETGMPAGKQKLQYE--GIFIKD-SNSLAYYNLANGTIIHLQLKE 70 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHH-HHHHCCCHHHEEEEEC--CEEcCC-CCcHHHcCCCCCCEEEEEEec
Confidence 5677889999999999999999 5654444455677643 356655 589999999999999998753
No 43
>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=92.89 E-value=0.61 Score=34.00 Aligned_cols=70 Identities=13% Similarity=0.164 Sum_probs=53.4
Q ss_pred EEEECCCCce-EEE-EeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 103 IRVRFPDNHT-LEV-NFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 103 IRIRFPDg~~-lq~-~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
|-||-.+|.. ... ...+++|+++|.+.| .+...-+.....|+. -.+.+.| +.+|.+.|+...+.|++.+-
T Consensus 3 I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i-~~~~gi~~~~QrLi~--~Gk~L~D-~~tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 3 IQVRTMDGKETRTVDSLSRLTKVEELREKI-QELFNVEPECQRLFY--RGKQMED-GHTLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred EEEEcCCCCEEEEeeccCCcCcHHHHHHHH-HHHhCCCHHHeEEEe--CCEECCC-CCCHHHcCCCCCCEEEEEEe
Confidence 6788889975 455 356899999999999 565443445567764 4677755 68999999999999999864
No 44
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=92.83 E-value=0.86 Score=37.84 Aligned_cols=73 Identities=23% Similarity=0.286 Sum_probs=50.1
Q ss_pred eeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEeCCCce---eecCCCcCccccCCC-CceEEEEE
Q 040408 100 AVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYTAPPKR---IIKDMSQDFYSAGFI-PGAIVYFS 174 (235)
Q Consensus 100 ~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t~P~k---~l~d~~~tL~elgL~-Psall~~~ 174 (235)
.. |||.||||+.+...+.++.|+.+|.+.| ...+.- ...-|.|+..-+.. ...+...+|.+..-- ....++|.
T Consensus 4 ~~-~~V~l~dg~~~~~~~~~~~t~~ev~~~v-~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr 81 (207)
T smart00295 4 RV-LKVYLLDGTTLEFEVDSSTTAEELLETV-CRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFR 81 (207)
T ss_pred EE-EEEEecCCCEEEEEECCCCCHHHHHHHH-HHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEE
Confidence 34 9999999999999999999999999999 555543 35678888754432 122445566655433 23344444
No 45
>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=91.36 E-value=1.1 Score=31.84 Aligned_cols=67 Identities=12% Similarity=0.033 Sum_probs=49.0
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~ 175 (235)
|-||. +......+.+++|+++|.+.| .+.-.-+.....|+. -.+.+.| +.+|.++|+-+.+.|++.+
T Consensus 3 i~vk~--~~~~~l~v~~~~tV~~lK~~i-~~~~gip~~~q~Li~--~Gk~L~D-~~tL~~~~i~~~~tl~l~~ 69 (74)
T cd01793 3 LFVRA--QNTHTLEVTGQETVSDIKAHV-AGLEGIDVEDQVLLL--AGVPLED-DATLGQCGVEELCTLEVAG 69 (74)
T ss_pred EEEEC--CCEEEEEECCcCcHHHHHHHH-HhhhCCCHHHEEEEE--CCeECCC-CCCHHHcCCCCCCEEEEEE
Confidence 44554 345667788999999999999 554333344566764 4567765 5899999999999999875
No 46
>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=91.02 E-value=0.94 Score=35.20 Aligned_cols=60 Identities=22% Similarity=0.382 Sum_probs=47.8
Q ss_pred EEeCCCCchHHHHHHHHHhhcCCCCCCe--EEEeCCCceeecCCCcCccccCCCCceEEEEEeCchh
Q 040408 115 VNFHPSETMQSLVDFLRMRVLSRTDVPF--YLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYDDAY 179 (235)
Q Consensus 115 ~~F~~~etl~~l~~fV~~~~L~~~~~~F--~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~~~~ 179 (235)
.+-++++|+++|-..| ...+.- .+| +|... . +.|.|++.||.+.|+.|.++|++.-++.+
T Consensus 19 L~V~~~~TVg~LK~lI-mQ~f~V--~P~dQkL~~d-G-~~L~DDsrTLssyGv~sgSvl~LlideP~ 80 (107)
T cd01795 19 LLVSANQTLKELKIQI-MHAFSV--APFDQNLSID-G-KILSDDCATLGTLGVIPESVILLKADEPI 80 (107)
T ss_pred EEeCccccHHHHHHHH-HHHhcC--Ccccceeeec-C-ceeccCCccHHhcCCCCCCEEEEEecCCc
Confidence 4578999999999999 677664 345 66665 3 48888899999999999999999876544
No 47
>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=90.57 E-value=0.94 Score=42.83 Aligned_cols=72 Identities=11% Similarity=0.147 Sum_probs=55.1
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcC---CCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeCch
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLS---RTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYDDA 178 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~---~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~~~ 178 (235)
|-||..+|..+...+.+++||.+|.+.| ...-. -+.....|+ +-.++|.| +++|.++|+.....|++.....
T Consensus 3 ItVKtl~g~~~~IeV~~~~TV~dLK~kI-~~~~g~~~ip~~~QkLI--y~GkiL~D-d~tL~dy~I~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 3 LTFKTLQQQKFKIDMEPDETVKELKEKI-EAEQGKDAYPVAQQKLI--YSGKILSD-DKTVREYKIKEKDFVVVMVSKP 77 (378)
T ss_pred EEEEeCCCCEEEEEeCCcChHHHHHHHH-HHhhCCCCCChhHeEEE--ECCEECCC-CCcHHHcCCCCCCEEEEEeccC
Confidence 7889999999999999999999999999 55433 223446665 44678865 5799999999887777765443
No 48
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=90.54 E-value=1.1 Score=33.96 Aligned_cols=63 Identities=13% Similarity=0.217 Sum_probs=41.8
Q ss_pred eEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeC---CCceeecCCCcCccccCCCCceEEEEEeC
Q 040408 112 TLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTA---PPKRIIKDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 112 ~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t---~P~k~l~d~~~tL~elgL~Psall~~~~~ 176 (235)
.+...|+..|||+.|...+ +..+.- ...-.|+.- --.-.|.+...|+.|+||..+-+|.+.--
T Consensus 15 ~~t~~FSk~DTI~~v~~~~-rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~r 80 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEM-RKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEER 80 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHH-HHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE-
T ss_pred HhHhhccccChHHHHHHHH-HHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEee
Confidence 6789999999999999999 566654 444555542 23344556678999999999999888743
No 49
>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=89.53 E-value=1.3 Score=32.12 Aligned_cols=71 Identities=17% Similarity=0.237 Sum_probs=46.9
Q ss_pred ceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCC----CC--CeEEEeCCCceeecCCCcCccccCCCCceEEE
Q 040408 99 KAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRT----DV--PFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVY 172 (235)
Q Consensus 99 ~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~----~~--~F~L~~t~P~k~l~d~~~tL~elgL~Psall~ 172 (235)
.|. |-|.+++|..+......+-+++.|..-| -..+..+ .. .|.|.... ...| +.+.||.++|..-..+|+
T Consensus 2 ~~r-Vtv~~~~~~~~Dl~lP~~vpv~~li~~l-~~~~~~~~~~~~~~~~~~L~~~~-g~~L-~~~~tL~~~gV~dGd~L~ 77 (79)
T PF08817_consen 2 LCR-VTVDAGNGRQVDLALPADVPVAELIPEL-VELLGLPGDDPPGHGQWVLARAG-GRPL-DPDQTLADAGVRDGDVLV 77 (79)
T ss_dssp EEE-EEEE-TT--EEEEEEETTSBTTHHHHHH-HHHS---S---TT-E-EEEG-GG-TEEE-ETTSBCGGGT--TT-EEE
T ss_pred EEE-EEEEcCCCcEEEEEcCCCCcHHHHHHHH-HHHhCCccCCCCCcceEEEEecC-Cccc-CCcCcHhHcCCCCCCEEE
Confidence 366 8888988889999999999999999988 5666542 11 47777433 3466 457899999999888887
Q ss_pred E
Q 040408 173 F 173 (235)
Q Consensus 173 ~ 173 (235)
+
T Consensus 78 L 78 (79)
T PF08817_consen 78 L 78 (79)
T ss_dssp E
T ss_pred e
Confidence 6
No 50
>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=88.51 E-value=1.6 Score=31.68 Aligned_cols=63 Identities=14% Similarity=0.135 Sum_probs=43.8
Q ss_pred CCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCC-CceEEEE
Q 040408 107 FPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFI-PGAIVYF 173 (235)
Q Consensus 107 FPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~-Psall~~ 173 (235)
.-.|..+...|.++.|+++|.+.| .....-+.....|+ -.+.+.+++.+|.++|+. +..+|++
T Consensus 9 ~~~~~t~~l~v~~~~TV~~lK~kI-~~~~gip~~~QrL~---~G~~L~dD~~tL~~ygi~~~g~~~~l 72 (75)
T cd01799 9 QSHTVTIWLTVRPDMTVAQLKDKV-FLDYGFPPAVQRWV---IGQRLARDQETLYSHGIRTNGDSAFL 72 (75)
T ss_pred ccCCCeEEEEECCCCcHHHHHHHH-HHHHCcCHHHEEEE---cCCeeCCCcCCHHHcCCCCCCCEEEE
Confidence 334566778899999999999999 55544344456672 233455567899999998 5466655
No 51
>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=88.41 E-value=2.4 Score=30.53 Aligned_cols=69 Identities=12% Similarity=0.144 Sum_probs=49.3
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeC-CCceeecCCCcCccccCCCCceEEEEE
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTA-PPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t-~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
|-|++ .|......+.+++|+++|-+.| .+...-+...-.|... +-.+.+.| +.+|.++|+.++..|++-
T Consensus 3 i~vk~-~g~~~~v~v~~~~Tv~~lK~~i-~~~tgvp~~~QKLi~~~~~Gk~l~D-~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 3 VIVKW-GGQEYSVTTLSEDTVLDLKQFI-KTLTGVLPERQKLLGLKVKGKPAED-DVKISALKLKPNTKIMMM 72 (74)
T ss_pred EEEEE-CCEEEEEEECCCCCHHHHHHHH-HHHHCCCHHHEEEEeecccCCcCCC-CcCHHHcCCCCCCEEEEE
Confidence 56677 5666788999999999999999 6665444444555531 22445554 689999999998887763
No 52
>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=87.13 E-value=2.7 Score=31.09 Aligned_cols=69 Identities=14% Similarity=0.102 Sum_probs=48.0
Q ss_pred EEEECCCCce--EEEEeCCCCchHHHHHHHHHhhcCC--CCCCeEEEeCCCceeecCCCcCccccC--CCCceEEEEEe
Q 040408 103 IRVRFPDNHT--LEVNFHPSETMQSLVDFLRMRVLSR--TDVPFYLYTAPPKRIIKDMSQDFYSAG--FIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~~--lq~~F~~~etl~~l~~fV~~~~L~~--~~~~F~L~~t~P~k~l~d~~~tL~elg--L~Psall~~~~ 175 (235)
|.||-|+|.. +...+.++.|+++|-+-| ...... +...-.|.. -.|+|.| +.||.+.+ .-..-.+|+.+
T Consensus 4 l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i-~~~~~~~~~~~~QrLIy--~GKiLkD-~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 4 LLIKSPNQKYEDQTVSCFLNWTVGELKTHL-SRVYPSKPLEQDQRLIY--SGKLLPD-HLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred EEEECCCCCeEEEEEecCCcChHHHHHHHH-HHhcCCCCChhHeEEEE--cCeeccc-hhhHHHHhhcccCCceEEEEe
Confidence 7899999998 566668999999999999 565531 123345553 4578865 57888774 44556666653
No 53
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=84.02 E-value=7.6 Score=28.45 Aligned_cols=72 Identities=17% Similarity=0.159 Sum_probs=51.8
Q ss_pred EEEECCCCc--eEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeC---CCcee--ecCCCcCccccCCCCceEEEEEe
Q 040408 103 IRVRFPDNH--TLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTA---PPKRI--IKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 103 IRIRFPDg~--~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t---~P~k~--l~d~~~tL~elgL~Psall~~~~ 175 (235)
|.|.-++.. ..+..|..+-|+++|-..+ .....-+.....|+.- .+..+ +.|+.++|...|+.....|++.=
T Consensus 4 l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl-~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D 82 (87)
T PF14560_consen 4 LFITSSNSKQRSVEKRFPKSITVSELKQKL-EKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD 82 (87)
T ss_dssp EEEEESSSSSSEEEEEEETTSBHHHHHHHH-HHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred EEEEeCCCCCeeEEEEcCCCCCHHHHHHHH-HHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence 667666663 8999999999999999999 6776655455555442 22222 24668899999999999999974
No 54
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=81.50 E-value=8.8 Score=28.86 Aligned_cols=50 Identities=14% Similarity=0.207 Sum_probs=42.4
Q ss_pred EEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCce
Q 040408 102 IIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKR 151 (235)
Q Consensus 102 ~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k 151 (235)
+|||-++||+....-...+-|.++|.+.+-..+-......+.|+-..|--
T Consensus 4 vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l 53 (85)
T cd01787 4 VVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHL 53 (85)
T ss_pred EEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchh
Confidence 39999999999999999999999999988655555567889999887743
No 55
>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=80.72 E-value=11 Score=27.05 Aligned_cols=55 Identities=20% Similarity=0.273 Sum_probs=38.3
Q ss_pred CCCCchHHHHHHHHHhhcCC-CCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 118 HPSETMQSLVDFLRMRVLSR-TDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 118 ~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
.++.|+++|++.| ...-.. +..-..|...+..+++.| +.+|.+.|+.....|||.
T Consensus 20 ~~~aTV~dlk~~i-~~~~~~~~~~Rqrl~~~~~g~~L~d-~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLI-AKSSPQLTVNRQSLRLEPKGKSLKD-DDTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHH-HHHcCCCCcceeEEEeCCCCcccCC-cccHhhcCCCCCCEEEEe
Confidence 5778999999999 444221 122344554566677755 468999999888889886
No 56
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=75.76 E-value=6.3 Score=29.76 Aligned_cols=44 Identities=20% Similarity=0.348 Sum_probs=35.9
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCC---CCCeEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRT---DVPFYLYTA 147 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~---~~~F~L~~t 147 (235)
|||-+|||+.+...-..+++..+||+-| ..-+.-+ ..=|.|+.-
T Consensus 4 L~V~Lpdg~~i~V~v~~s~~a~~Vleav-~~kl~L~~e~~~YFaLFev 50 (87)
T cd01777 4 LRIALPDKATVTVRVRKNATTDQVYQAL-VAKAGMDSYTQNYFALFEV 50 (87)
T ss_pred EEEEccCCCEEEEEEEEcccHHHHHHHH-HHHhCCCHHHHhheeeeEE
Confidence 9999999999999999999999999999 5666543 234777653
No 57
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=73.36 E-value=14 Score=26.48 Aligned_cols=51 Identities=14% Similarity=0.143 Sum_probs=35.0
Q ss_pred EEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceee
Q 040408 102 IIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRII 153 (235)
Q Consensus 102 ~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l 153 (235)
.+||-+|||...-..-.+..|+.++..-+ -+...=....+.++....++.+
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~-~~kr~L~~~~~~V~~~~~~k~l 52 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKA-CKKRGLNPECCDVRLVGEKKPL 52 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHH-HHTTT--CCCEEEEEEEEEEEE
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHH-HHHcCCCHHHEEEEEcCCCccc
Confidence 38999999999999999999998776666 3332222345667665555555
No 58
>PLN02560 enoyl-CoA reductase
Probab=72.96 E-value=19 Score=33.18 Aligned_cols=72 Identities=15% Similarity=0.139 Sum_probs=46.3
Q ss_pred EEEECCCCceE---EEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEeC----CCceeecCCCcCccccCCCCceEEEEE
Q 040408 103 IRVRFPDNHTL---EVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYTA----PPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 103 IRIRFPDg~~l---q~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t----~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
|-|+-.+|..+ .....++.|+++|.+.| .+.-.. ....-.|... .++.+..+++++|.+.|+...+.|+|+
T Consensus 3 I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~I-sk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~k 81 (308)
T PLN02560 3 VTVVSRSGREIIKGGLEVPDSATVADLKKAI-HKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVFK 81 (308)
T ss_pred EEEEcCCCCeecceeEEcCCCCcHHHHHHHH-HHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEEE
Confidence 55666666655 56778999999999999 443221 1122333321 123233344679999999999999998
Q ss_pred e
Q 040408 175 Y 175 (235)
Q Consensus 175 ~ 175 (235)
-
T Consensus 82 D 82 (308)
T PLN02560 82 D 82 (308)
T ss_pred e
Confidence 3
No 59
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=70.91 E-value=17 Score=30.60 Aligned_cols=51 Identities=24% Similarity=0.257 Sum_probs=39.5
Q ss_pred EEEECCCC----ceEEEEeCCCCchHHHHHHHHHhhcCCCCC-CeEEEeCCCceeec
Q 040408 103 IRVRFPDN----HTLEVNFHPSETMQSLVDFLRMRVLSRTDV-PFYLYTAPPKRIIK 154 (235)
Q Consensus 103 IRIRFPDg----~~lq~~F~~~etl~~l~~fV~~~~L~~~~~-~F~L~~t~P~k~l~ 154 (235)
|=|...|| ..++..+.++.|+++|++.| .+.+..+.. .++|++..-+++..
T Consensus 3 Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l-~~~~~~~~~~~~~L~~~~n~~l~~ 58 (162)
T PF13019_consen 3 VLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRL-SERLPIPSSSQLYLTTNSNGQLSP 58 (162)
T ss_pred EEEecCCCCCCCCeEEeeCCCCCcHHHHHHHH-HhhcCCCccceeEEEEeCCCeeCC
Confidence 45788889 58888999999999999999 777776533 38888876555543
No 60
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=69.38 E-value=20 Score=34.50 Aligned_cols=74 Identities=20% Similarity=0.305 Sum_probs=56.8
Q ss_pred EEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCC--CCCCeEEEeCCCce-e-e-cCCCcCccccCCCCceEEEEEeC
Q 040408 102 IIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR--TDVPFYLYTAPPKR-I-I-KDMSQDFYSAGFIPGAIVYFSYD 176 (235)
Q Consensus 102 ~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~--~~~~F~L~~t~P~k-~-l-~d~~~tL~elgL~Psall~~~~~ 176 (235)
+||+|=+.|.. ...|..+++++.|..-+ -..+.. ....|.++..|..+ + + ...++|+.++||.-.-+|++.+.
T Consensus 2 i~rfRsk~G~~-Rve~qe~d~lg~l~~kl-l~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~ys 79 (571)
T COG5100 2 IFRFRSKEGQR-RVEVQESDVLGMLSPKL-LAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEYS 79 (571)
T ss_pred eEEEecCCCce-eeeccccchhhhhhHHH-HhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEec
Confidence 58999999984 67899999999887666 344443 23579999888633 3 2 34578999999999999999994
Q ss_pred c
Q 040408 177 D 177 (235)
Q Consensus 177 ~ 177 (235)
+
T Consensus 80 d 80 (571)
T COG5100 80 D 80 (571)
T ss_pred c
Confidence 4
No 61
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=67.70 E-value=21 Score=25.70 Aligned_cols=45 Identities=16% Similarity=0.109 Sum_probs=36.8
Q ss_pred EEEECCC---CceEEEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEeC
Q 040408 103 IRVRFPD---NHTLEVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYTA 147 (235)
Q Consensus 103 IRIRFPD---g~~lq~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t 147 (235)
|||-+.| ++........+.|.++|..-+-..+-.+ ....|.|+.-
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev 50 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEV 50 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEE
Confidence 8999999 8989999999999999998885555444 5678999863
No 62
>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=65.54 E-value=15 Score=29.20 Aligned_cols=59 Identities=20% Similarity=0.300 Sum_probs=44.3
Q ss_pred EEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCC-------CceEEEEEeCc
Q 040408 115 VNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFI-------PGAIVYFSYDD 177 (235)
Q Consensus 115 ~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~-------Psall~~~~~~ 177 (235)
..=..++|+-+|-..| .+.+..+-..=.|| .-..++ ++++||.|+|+. .-|.|-+.|-.
T Consensus 16 ~dakes~tVlelK~~i-egI~k~pp~dQrL~--kd~qvL-eD~kTL~d~g~t~~~akaq~pA~vgLa~r~ 81 (119)
T cd01788 16 TDAKESTTVYELKRIV-EGILKRPPEDQRLY--KDDQLL-DDGKTLGDCGFTSQTARPQAPATVGLAFRS 81 (119)
T ss_pred eecCCcccHHHHHHHH-HHHhcCChhHheee--cCceee-cccccHHHcCccccccccCCCCeEEEEEec
Confidence 3345789999999999 88888877777787 333566 458999999993 35777777764
No 63
>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=63.94 E-value=13 Score=27.27 Aligned_cols=53 Identities=17% Similarity=0.132 Sum_probs=39.1
Q ss_pred CCCCchHHHHHHHHHhhcC--C-CCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEE
Q 040408 118 HPSETMQSLVDFLRMRVLS--R-TDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFS 174 (235)
Q Consensus 118 ~~~etl~~l~~fV~~~~L~--~-~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~ 174 (235)
..++|+.+|.+.| .+-.. . +...+.|. +-.+++.| +.||.+.|+.+.+.||+.
T Consensus 18 ~~~~TV~~LK~kI-~~~~~egi~~~dqQrLI--y~GKiL~D-~~TL~dygI~~gstlhLv 73 (75)
T cd01815 18 PGGYQVSTLKQLI-AAQLPDSLPDPELIDLI--HCGRKLKD-DQTLDFYGIQSGSTIHIL 73 (75)
T ss_pred CccCcHHHHHHHH-HHhhccCCCChHHeEEE--eCCcCCCC-CCcHHHcCCCCCCEEEEE
Confidence 4589999999999 55542 1 13347776 44567755 689999999999998874
No 64
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=63.55 E-value=9.6 Score=26.20 Aligned_cols=31 Identities=26% Similarity=0.339 Sum_probs=25.5
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLS 136 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~ 136 (235)
|+|.+|||..++ |....|+.++..-| ..-|.
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I-~~~l~ 31 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSI-HSSLA 31 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHH-SHHHH
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHH-CHHHH
Confidence 789999999877 99999988888887 44444
No 65
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=63.50 E-value=13 Score=26.92 Aligned_cols=44 Identities=11% Similarity=0.153 Sum_probs=32.6
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTA 147 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t 147 (235)
+||-||||..-...-.+..|+.++.+-+ -+...-....+.|+..
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~-c~kr~l~~~~~~v~~~ 45 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKA-CKKRGLNPECCDVFLL 45 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHH-HHHcCCCHHHEEEEEe
Confidence 7999999999999999999999888776 3333222334556654
No 66
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=57.99 E-value=30 Score=33.91 Aligned_cols=73 Identities=19% Similarity=0.292 Sum_probs=49.9
Q ss_pred ceeEEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEEEeCc
Q 040408 99 KAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYFSYDD 177 (235)
Q Consensus 99 ~~~~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~~~~~ 177 (235)
.+. |+|+-|++ .....-..+.+|.++-+-| .....-+...-.|. |-.|+|+| ..||..+|.....+||+.-..
T Consensus 15 ~ir-V~Vkt~~d-k~~~~V~~~ssV~qlKE~I-~~~f~a~~dqlvLI--faGrILKD-~dTL~~~gI~Dg~TvHLVik~ 87 (493)
T KOG0010|consen 15 LIR-VTVKTPKD-KYEVNVASDSSVLQLKELI-AQRFGAPPDQLVLI--YAGRILKD-DDTLKQYGIQDGHTVHLVIKS 87 (493)
T ss_pred eeE-EEEecCCc-ceeEecccchHHHHHHHHH-HHhcCCChhHeeee--ecCccccC-hhhHHHcCCCCCcEEEEEecc
Confidence 356 88999998 4444444677888888888 34333223334444 44578875 579999999999999998543
No 67
>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=56.85 E-value=74 Score=23.18 Aligned_cols=65 Identities=15% Similarity=0.099 Sum_probs=46.0
Q ss_pred CceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEE--EeCCCce--eecCCCcCccccCCCCceEEEEEe
Q 040408 110 NHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYL--YTAPPKR--IIKDMSQDFYSAGFIPGAIVYFSY 175 (235)
Q Consensus 110 g~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L--~~t~P~k--~l~d~~~tL~elgL~Psall~~~~ 175 (235)
+...+..|.++-|+++|-+-+ .....-+...-.| +-.-... .+.++.++|...|+.+...||+.=
T Consensus 12 ~~~~ekr~~~~~Tv~~lK~kl-~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD 80 (84)
T cd01789 12 SFSFEKKYSRGLTIAELKKKL-ELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID 80 (84)
T ss_pred ceeeeEecCCCCcHHHHHHHH-HHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence 456788899999999999999 5554443334444 3333222 345667899999999999999873
No 68
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=55.29 E-value=47 Score=23.71 Aligned_cols=59 Identities=15% Similarity=0.156 Sum_probs=41.4
Q ss_pred eeEEEEECCCCc----eEEEEeCCCCchHHHHHHHHHhhcC-CCCCCeEEE--eCCC--ceeecCCCcC
Q 040408 100 AVIIRVRFPDNH----TLEVNFHPSETMQSLVDFLRMRVLS-RTDVPFYLY--TAPP--KRIIKDMSQD 159 (235)
Q Consensus 100 ~~~IRIRFPDg~----~lq~~F~~~etl~~l~~fV~~~~L~-~~~~~F~L~--~t~P--~k~l~d~~~t 159 (235)
.+ |||-..|+. .-......+.|.++|..-+-..+-. +....|.|+ ...+ -+.|.+.+..
T Consensus 3 ~~-lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~p 70 (93)
T PF00788_consen 3 GV-LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECP 70 (93)
T ss_dssp EE-EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBH
T ss_pred eE-EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCch
Confidence 44 999999999 8888999999999999888443332 345779994 4432 2445444433
No 69
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=53.44 E-value=48 Score=23.46 Aligned_cols=62 Identities=13% Similarity=0.188 Sum_probs=36.3
Q ss_pred CCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEE
Q 040408 107 FPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVY 172 (235)
Q Consensus 107 FPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~ 172 (235)
-+++........++.++.+|.+-+ -....-....|.|.. -++.+ |.+..+.-+||..+|.|-
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~ea-c~k~~l~~~~~~L~h--~~k~l-dlslp~R~snL~n~akLe 64 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEA-CKKFGLDPSSYDLKH--NNKPL-DLSLPFRLSNLPNNAKLE 64 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHH-HHHTT--GGG-EEEE--TTEEE-SSS-BHHHH---SS-EEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHH-HHHcCCCccceEEEE--CCEEe-ccccceeecCCCCCCEEe
Confidence 356777778888999999998877 444443344788985 34666 778888899999888875
No 70
>smart00455 RBD Raf-like Ras-binding domain.
Probab=52.41 E-value=33 Score=24.43 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=32.0
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAP 148 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~ 148 (235)
+||-+|||......-.|..|+.++..-+ -+-..-......|+...
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~-~~kr~l~~~~~~v~~~g 46 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKA-LKKRGLNPECCVVRLRG 46 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHH-HHHcCCCHHHEEEEEcC
Confidence 6899999999999999999999887766 33322122335565543
No 71
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=52.21 E-value=25 Score=27.26 Aligned_cols=62 Identities=24% Similarity=0.299 Sum_probs=43.1
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCC
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIP 167 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~P 167 (235)
||||= ..+.+=..=..++|+-+|-..+ ...+.++-.+-.||-----+++ ++++||.|+||..
T Consensus 5 ~~VrR-~kttif~da~es~tV~elK~~l-~gi~~~Pvn~qrL~kmd~eqlL-~D~ktL~d~gfts 66 (110)
T KOG4495|consen 5 LRVRR-HKTTIFTDAKESSTVFELKRKL-EGILKRPVNEQRLYKMDTEQLL-DDGKTLGDCGFTS 66 (110)
T ss_pred eeeee-cceeEEeecCccccHHHHHHHH-HHHHhCCCcchheeecCHHHHh-hccchhhhccccc
Confidence 56653 3344444456789999999999 8898887666666653333555 4589999999853
No 72
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=51.64 E-value=46 Score=25.38 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=34.8
Q ss_pred EEEECCCCce-EEEEeC--CCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecC
Q 040408 103 IRVRFPDNHT-LEVNFH--PSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKD 155 (235)
Q Consensus 103 IRIRFPDg~~-lq~~F~--~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d 155 (235)
|-|||-|+.. |+..++ .+.|+..|...| ++.+......=.|..-+-.++|.|
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lI-R~~~p~~~s~~rLRlI~~Gr~L~d 57 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLI-RERLPPEPSRRRLRLIYAGRLLND 57 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHH-HhhcCCCCccccEEeeecCcccCc
Confidence 6678877432 788888 899999999999 677744333333333344567765
No 73
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=50.35 E-value=92 Score=22.48 Aligned_cols=58 Identities=14% Similarity=0.189 Sum_probs=41.2
Q ss_pred EEEECCC---CceEEEEeCCCCchHHHHHHHHHhhcCCC-CCCeEEEeCC-C--ceeecCCCcCc
Q 040408 103 IRVRFPD---NHTLEVNFHPSETMQSLVDFLRMRVLSRT-DVPFYLYTAP-P--KRIIKDMSQDF 160 (235)
Q Consensus 103 IRIRFPD---g~~lq~~F~~~etl~~l~~fV~~~~L~~~-~~~F~L~~t~-P--~k~l~d~~~tL 160 (235)
|||-+-| ++........+.|.++|..-+-..+--+. ...|.|+.-- . -+.|.+.+.-|
T Consensus 5 lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl 69 (90)
T smart00314 5 LRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPL 69 (90)
T ss_pred EEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcce
Confidence 8998877 99999999999999999988844443333 5679998653 2 24554444443
No 74
>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=48.25 E-value=71 Score=22.50 Aligned_cols=42 Identities=12% Similarity=0.242 Sum_probs=32.6
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYT 146 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~ 146 (235)
|+|+| +|.+.-..+....+..+|++-| ...+......|.|..
T Consensus 4 vK~~~-~~~~~~~~~~~~~s~~dL~~~i-~~~~~~~~~~~~l~Y 45 (81)
T smart00666 4 VKLRY-GGETRRLSVPRDISFEDLRSKV-AKRFGLDNQSFTLKY 45 (81)
T ss_pred EEEEE-CCEEEEEEECCCCCHHHHHHHH-HHHhCCCCCCeEEEE
Confidence 78888 6777778888899999999999 666665445677654
No 75
>KOG3530 consensus FERM domain protein EHM2 [General function prediction only]
Probab=47.31 E-value=47 Score=33.35 Aligned_cols=74 Identities=19% Similarity=0.195 Sum_probs=56.9
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCC-CCCCeEEEeCCCceee--cCCCcCcc-ccCCCCceEEEEEeCc
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSR-TDVPFYLYTAPPKRII--KDMSQDFY-SAGFIPGAIVYFSYDD 177 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~-~~~~F~L~~t~P~k~l--~d~~~tL~-elgL~Psall~~~~~~ 177 (235)
.||+|=||+-|-++|..+...++|+|+| -..|.- +..=|-|...-..++- -|..+++. .+...|.-.|+|...=
T Consensus 13 C~V~LLd~sdl~~~~pk~akGq~Lld~V-~~~ldl~E~DYFGLry~D~~~~~hWLD~tK~I~kqvK~gppytL~~rVKf 90 (616)
T KOG3530|consen 13 CRVLLLDGSDLSINFPKTAKGQELLDYV-FYHLDLIEKDYFGLRYQDSSKVRHWLDPTKSIKKQVKIGPPYTLHLRVKF 90 (616)
T ss_pred EEEEEecCccceeccCcccchHHHHHHH-HHhhceeeeeccceeeechhhcceecCcchhHHHHhccCCCeEEEEEEEe
Confidence 6889999999999999999999999999 566653 2344667655444332 37777876 7888999999998643
No 76
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=47.23 E-value=59 Score=23.75 Aligned_cols=50 Identities=22% Similarity=0.262 Sum_probs=33.6
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceee
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRII 153 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l 153 (235)
-||-+|||+.--..-.+..|+.++..-. -+...-....+.+|.....+.+
T Consensus 2 crV~LPdg~~T~V~vrpG~ti~d~L~kl-lekRgl~~~~~~vf~~g~~k~l 51 (73)
T cd01817 2 CRVILPDGSTTVVPTRPGESIRDLLSGL-CEKRGINYAAVDLFLVGGDKPL 51 (73)
T ss_pred cEEECCCCCeEEEEecCCCCHHHHHHHH-HHHcCCChhHEEEEEecCCccc
Confidence 4788999999888999999998887655 3333222233556555544555
No 77
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving 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. The Map2k5 protein contains a type I PB1 domain.
Probab=44.15 E-value=36 Score=25.52 Aligned_cols=36 Identities=19% Similarity=0.528 Sum_probs=29.7
Q ss_pred EEEEECCCCceEEEEeC--CCCchHHHHHHHHHhhcCCC
Q 040408 102 IIRVRFPDNHTLEVNFH--PSETMQSLVDFLRMRVLSRT 138 (235)
Q Consensus 102 ~IRIRFPDg~~lq~~F~--~~etl~~l~~fV~~~~L~~~ 138 (235)
+|||+-|+|--+.++-. +.=++.+|.+.| ..+|.+.
T Consensus 2 VIRIk~p~gg~vDw~V~~~~~L~F~DvL~~I-~~vlp~a 39 (91)
T cd06395 2 VIRIKIPNGGAVDWTVQSGPQLLFRDVLDVI-GQVLPEA 39 (91)
T ss_pred eEEEeCCCCCcccccccCcccccHHHHHHHH-HHhcccc
Confidence 39999999988888877 456788999999 7888763
No 78
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=35.97 E-value=1.4e+02 Score=21.00 Aligned_cols=43 Identities=14% Similarity=0.204 Sum_probs=33.3
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYT 146 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~ 146 (235)
|+++|-++......+....++.+|++.| ...+......|.|..
T Consensus 4 vK~~~~~~~~~~~~~~~~~s~~~L~~~i-~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 4 VKVRYGGDIRRIISLPSDVSFDDLRSKI-REKFGLLDEDFQLKY 46 (84)
T ss_dssp EEEEETTEEEEEEEECSTSHHHHHHHHH-HHHHTTSTSSEEEEE
T ss_pred EEEEECCeeEEEEEcCCCCCHHHHHHHH-HHHhCCCCccEEEEe
Confidence 8888888777767788888999999999 566655456777754
No 79
>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=34.84 E-value=1.5e+02 Score=21.80 Aligned_cols=42 Identities=14% Similarity=0.265 Sum_probs=28.9
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCC-CCeEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTD-VPFYLYT 146 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~-~~F~L~~ 146 (235)
|++.| +|-++...+.++.++.+|++-| ...+.-.. .+|.|..
T Consensus 3 vK~~~-~~d~~r~~l~~~~~~~~L~~~i-~~r~~~~~~~~f~LkY 45 (82)
T cd06407 3 VKATY-GEEKIRFRLPPSWGFTELKQEI-AKRFKLDDMSAFDLKY 45 (82)
T ss_pred EEEEe-CCeEEEEEcCCCCCHHHHHHHH-HHHhCCCCCCeeEEEE
Confidence 55555 3445666667777999999999 56655433 6788854
No 80
>PF15016 DUF4520: Domain of unknown function (DUF4520)
Probab=33.95 E-value=42 Score=25.20 Aligned_cols=29 Identities=21% Similarity=0.324 Sum_probs=23.1
Q ss_pred CcCCCceeEEEEECCCCceEEEEeCCCCch
Q 040408 94 RSKFRKAVIIRVRFPDNHTLEVNFHPSETM 123 (235)
Q Consensus 94 ~~~~~~~~~IRIRFPDg~~lq~~F~~~etl 123 (235)
-..|..-+ ||+-|-||++|+...+.++..
T Consensus 18 F~AysDgr-Vr~~F~Drt~L~l~~~~~~~~ 46 (85)
T PF15016_consen 18 FTAYSDGR-VRVHFDDRTILTLIWNFSSRE 46 (85)
T ss_pred EEEEcCCe-EEEEEcCCCEEEEEeCCCCcc
Confidence 45677777 999999999999988765543
No 81
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=33.39 E-value=2e+02 Score=21.55 Aligned_cols=43 Identities=19% Similarity=0.335 Sum_probs=33.3
Q ss_pred EEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEe
Q 040408 103 IRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYT 146 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~ 146 (235)
|++.| +|.++-..|.+.-+...|.+-|++-+--....+|++..
T Consensus 3 ~K~~y-~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw 45 (83)
T cd06404 3 VKAAY-NGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKW 45 (83)
T ss_pred EEEEe-cCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 66666 68888899999999999999995444444567888865
No 82
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=27.38 E-value=1e+02 Score=22.79 Aligned_cols=26 Identities=19% Similarity=0.445 Sum_probs=24.0
Q ss_pred EECCCCceEEEEeCCCCchHHHHHHH
Q 040408 105 VRFPDNHTLEVNFHPSETMQSLVDFL 130 (235)
Q Consensus 105 IRFPDg~~lq~~F~~~etl~~l~~fV 130 (235)
|-||||........++.|+.++.+-.
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~a 29 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESA 29 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHH
Confidence 67999999999999999999998876
No 83
>KOG1781 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=25.78 E-value=47 Score=25.65 Aligned_cols=49 Identities=24% Similarity=0.340 Sum_probs=35.7
Q ss_pred CcCCCceeEEEEECCCCceEEEEeCCCCchHHH-HHHHHHhhcCCCCCCeEE
Q 040408 94 RSKFRKAVIIRVRFPDNHTLEVNFHPSETMQSL-VDFLRMRVLSRTDVPFYL 144 (235)
Q Consensus 94 ~~~~~~~~~IRIRFPDg~~lq~~F~~~etl~~l-~~fV~~~~L~~~~~~F~L 144 (235)
+++|-.-. |||+|-.|-.+.|...-.+.+-.| .+=. .+++.++..++.|
T Consensus 22 Lsky~Dk~-Irvkf~GGr~~sGiLkGyDqLlNlVLDd~-vEylrdpdd~~~~ 71 (108)
T KOG1781|consen 22 LSKYLDKK-IRVKFTGGREASGILKGYDQLLNLVLDDT-VEYLRDPDDPYKL 71 (108)
T ss_pred HHHhhccc-eEEEeecCceeeeehhhHHHHHHHHHHHH-HHHhcCCCCccch
Confidence 67788888 999999999999999876665443 3444 4667776665544
No 84
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=24.29 E-value=2.5e+02 Score=19.44 Aligned_cols=41 Identities=15% Similarity=0.200 Sum_probs=28.9
Q ss_pred EEEECCCCceEEEEeC-CCCchHHHHHHHHHhhcCCCCCCeEEE
Q 040408 103 IRVRFPDNHTLEVNFH-PSETMQSLVDFLRMRVLSRTDVPFYLY 145 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~-~~etl~~l~~fV~~~~L~~~~~~F~L~ 145 (235)
|+++|.++ +....+. ...++.+|++.| ...+......|.|.
T Consensus 3 vK~~~~~~-~~~~~~~~~~~s~~~L~~~i-~~~~~~~~~~~~l~ 44 (81)
T cd05992 3 VKVKYGGE-IRRFVVVSRSISFEDLRSKI-AEKFGLDAVSFKLK 44 (81)
T ss_pred EEEEecCC-CEEEEEecCCCCHHHHHHHH-HHHhCCCCCcEEEE
Confidence 78888754 4556666 889999999999 56665433455554
No 85
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=23.94 E-value=2.2e+02 Score=20.21 Aligned_cols=68 Identities=12% Similarity=0.248 Sum_probs=43.9
Q ss_pred EEEEECCCCceEEEEeCCCCchHHHHHHHHHhhcCCCCCCeEEEeCCCceeecCCCcCccccCCCCceEEEE
Q 040408 102 IIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQDFYSAGFIPGAIVYF 173 (235)
Q Consensus 102 ~IRIRFPDg~~lq~~F~~~etl~~l~~fV~~~~L~~~~~~F~L~~t~P~k~l~d~~~tL~elgL~Psall~~ 173 (235)
+|+|++=.|..|.....+++++..+-+-| .+--.-+...-.|..+ .+-..| ++|-.+.++...++||+
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErv-EEkeGIPp~qqrli~~--gkqm~D-D~tA~~Y~~~~GSVlHl 69 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERV-EEKEGIPPQQQRLIYA--GKQMND-DKTAAHYNLLGGSVLHL 69 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHh-hhhcCCCchhhhhhhc--cccccc-cccHHHhhhccceeEee
Confidence 48999999999999999999999999998 4443321111122211 122222 45666667777777765
No 86
>PF03562 MltA: MltA specific insert domain; InterPro: IPR005300 This group of proteins includes MltA; a membrane-bound, murein degrading transglycosylase enzyme which plays an important role in the controlled growth of the stress-bearing sacculus of Escherichia coli [, ].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 2PI8_D 2AE0_X 2PIC_A 2GAE_A 2PJJ_A 3CZB_A 2G6G_A 2PNW_A 2G5D_A.
Probab=23.00 E-value=71 Score=26.66 Aligned_cols=16 Identities=38% Similarity=0.708 Sum_probs=13.4
Q ss_pred EEEECCCCceEEEEeC
Q 040408 103 IRVRFPDNHTLEVNFH 118 (235)
Q Consensus 103 IRIRFPDg~~lq~~F~ 118 (235)
=||+||||..+...|.
T Consensus 88 Grl~l~DG~~~rvgYA 103 (158)
T PF03562_consen 88 GRLRLPDGSTVRVGYA 103 (158)
T ss_dssp EEEE-TTSSEEEEEEE
T ss_pred EEEEcCCCCEEEEEEc
Confidence 5899999999999886
Done!