Query 003535
Match_columns 812
No_of_seqs 297 out of 780
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 01:16:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003535.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003535hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06398 PB1_Joka2 The PB1 doma 99.8 1.6E-20 3.6E-25 169.4 11.5 86 5-91 1-91 (91)
2 cd06401 PB1_TFG The PB1 domain 99.8 3.8E-18 8.3E-23 150.8 10.1 79 5-89 1-81 (81)
3 cd06397 PB1_UP1 Uncharacterize 99.7 5.2E-17 1.1E-21 143.0 8.6 74 5-85 1-74 (82)
4 KOG4351 Uncharacterized conser 99.6 2.1E-15 4.6E-20 154.5 7.3 113 470-612 37-149 (244)
5 KOG4351 Uncharacterized conser 99.4 4.9E-14 1.1E-18 144.6 4.4 109 476-588 74-193 (244)
6 cd02344 ZZ_HERC2 Zinc finger, 99.4 7.1E-14 1.5E-18 111.7 3.5 43 380-422 1-45 (45)
7 cd06402 PB1_p62 The PB1 domain 99.4 1.5E-12 3.3E-17 117.2 10.6 80 5-88 1-86 (87)
8 cd02342 ZZ_UBA_plant Zinc fing 99.4 1.2E-13 2.5E-18 109.2 2.8 43 380-422 1-43 (43)
9 smart00666 PB1 PB1 domain. Pho 99.4 2E-12 4.3E-17 112.0 9.6 76 4-86 1-80 (81)
10 KOG4582 Uncharacterized conser 99.4 4.8E-13 1.1E-17 142.1 5.9 118 370-527 138-262 (278)
11 PF00564 PB1: PB1 domain; Int 99.4 3.7E-12 8.1E-17 110.4 10.2 79 4-89 1-84 (84)
12 cd06396 PB1_NBR1 The PB1 domai 99.3 8.4E-12 1.8E-16 111.1 10.4 76 5-87 1-79 (81)
13 cd06407 PB1_NLP A PB1 domain i 99.3 1.1E-11 2.3E-16 110.5 10.3 77 5-87 1-81 (82)
14 cd02339 ZZ_Mind_bomb Zinc fing 99.3 1.1E-12 2.3E-17 105.0 3.5 43 380-422 1-45 (45)
15 cd05992 PB1 The PB1 domain is 99.3 9.2E-12 2E-16 107.3 9.6 76 5-86 1-80 (81)
16 cd02340 ZZ_NBR1_like Zinc fing 99.2 6.7E-12 1.4E-16 99.4 3.3 42 380-422 1-43 (43)
17 cd02334 ZZ_dystrophin Zinc fin 99.2 9.6E-12 2.1E-16 101.2 3.3 42 380-421 1-48 (49)
18 cd02341 ZZ_ZZZ3 Zinc finger, Z 99.2 1.2E-11 2.6E-16 100.2 3.5 43 380-422 1-48 (48)
19 PF00569 ZZ: Zinc finger, ZZ t 99.2 1.5E-11 3.2E-16 98.3 2.7 44 376-419 1-46 (46)
20 cd06403 PB1_Par6 The PB1 domai 99.1 1.9E-10 4.2E-15 101.7 9.4 79 6-89 2-80 (80)
21 cd06404 PB1_aPKC PB1 domain is 99.1 4.1E-10 8.8E-15 100.6 9.6 65 5-75 1-65 (83)
22 cd02338 ZZ_PCMF_like Zinc fing 99.1 5.9E-11 1.3E-15 96.3 3.4 42 380-421 1-48 (49)
23 cd02345 ZZ_dah Zinc finger, ZZ 99.0 9.6E-11 2.1E-15 95.1 2.9 42 380-421 1-48 (49)
24 cd02343 ZZ_EF Zinc finger, ZZ 98.9 4.7E-10 1E-14 91.1 2.8 40 380-420 1-46 (48)
25 cd02335 ZZ_ADA2 Zinc finger, Z 98.9 1.2E-09 2.5E-14 88.6 3.7 43 380-422 1-49 (49)
26 KOG1280 Uncharacterized conser 98.9 7.3E-10 1.6E-14 119.6 3.2 52 375-426 4-61 (381)
27 cd02249 ZZ Zinc finger, ZZ typ 98.9 1.2E-09 2.6E-14 87.1 3.5 42 380-422 1-46 (46)
28 cd06408 PB1_NoxR The PB1 domai 98.8 8.2E-09 1.8E-13 93.1 7.8 62 4-74 2-63 (86)
29 smart00291 ZnF_ZZ Zinc-binding 98.8 2.1E-09 4.5E-14 85.2 3.5 36 377-413 2-37 (44)
30 cd02337 ZZ_CBP Zinc finger, ZZ 98.8 1.8E-09 3.8E-14 85.0 2.2 41 380-422 1-41 (41)
31 KOG4286 Dystrophin-like protei 98.2 5.1E-07 1.1E-11 105.1 2.0 53 373-426 598-656 (966)
32 cd06409 PB1_MUG70 The MUG70 pr 98.0 4E-05 8.6E-10 69.6 9.1 69 12-86 9-83 (86)
33 cd06406 PB1_P67 A PB1 domain i 97.8 7.3E-05 1.6E-09 67.1 7.6 73 5-87 3-76 (80)
34 KOG4301 Beta-dystrobrevin [Cyt 97.6 1.1E-05 2.4E-10 87.9 -0.4 49 370-419 232-286 (434)
35 KOG0457 Histone acetyltransfer 97.5 4.2E-05 9.1E-10 85.6 2.2 46 378-424 13-65 (438)
36 PF00627 UBA: UBA/TS-N domain; 97.3 0.00031 6.7E-09 53.7 4.1 35 729-764 3-37 (37)
37 cd02336 ZZ_RSC8 Zinc finger, Z 96.8 0.00084 1.8E-08 54.3 2.7 33 380-413 1-33 (45)
38 cd06410 PB1_UP2 Uncharacterize 96.7 0.01 2.2E-07 55.2 8.9 73 8-88 16-96 (97)
39 PF00627 UBA: UBA/TS-N domain; 96.5 0.004 8.6E-08 47.6 4.1 35 771-806 3-37 (37)
40 cd00194 UBA Ubiquitin Associat 96.4 0.0053 1.1E-07 46.6 4.5 35 730-765 3-37 (38)
41 COG5114 Histone acetyltransfer 96.3 0.0015 3.3E-08 71.2 1.4 46 379-424 5-56 (432)
42 KOG3606 Cell polarity protein 96.1 0.0059 1.3E-07 65.7 4.7 86 3-93 17-102 (358)
43 smart00165 UBA Ubiquitin assoc 95.8 0.013 2.9E-07 44.3 4.2 34 730-764 3-36 (37)
44 cd00194 UBA Ubiquitin Associat 95.1 0.038 8.3E-07 41.9 4.5 35 772-807 3-37 (38)
45 cd06399 PB1_P40 The PB1 domain 95.1 0.054 1.2E-06 49.8 6.1 44 31-77 29-72 (92)
46 KOG0695 Serine/threonine prote 94.8 0.098 2.1E-06 58.5 8.4 80 4-89 15-98 (593)
47 smart00165 UBA Ubiquitin assoc 94.7 0.05 1.1E-06 41.1 4.1 34 772-806 3-36 (37)
48 PF07705 CARDB: CARDB; InterP 94.0 0.19 4.1E-06 44.0 7.0 68 487-562 11-78 (101)
49 KOG2561 Adaptor protein NUB1, 93.3 0.14 3.1E-06 58.6 6.1 79 726-806 373-464 (568)
50 PF14874 PapD-like: Flagellar- 92.7 1.1 2.4E-05 40.3 9.9 85 490-581 15-99 (102)
51 cd06395 PB1_Map2k5 PB1 domain 92.1 0.36 7.7E-06 44.1 5.7 43 28-73 21-64 (91)
52 PF07649 C1_3: C1-like domain; 90.8 0.14 3E-06 37.7 1.6 28 381-410 2-30 (30)
53 cd06411 PB1_p51 The PB1 domain 90.7 1.1 2.3E-05 40.7 7.3 49 29-78 16-66 (78)
54 KOG0010 Ubiquitin-like protein 89.6 0.34 7.3E-06 56.2 4.1 41 768-808 452-492 (493)
55 PF14646 MYCBPAP: MYCBP-associ 88.7 2 4.4E-05 48.9 9.5 86 492-583 244-339 (426)
56 PF10633 NPCBM_assoc: NPCBM-as 88.2 3.3 7.1E-05 36.1 8.4 72 491-567 1-75 (78)
57 KOG0010 Ubiquitin-like protein 87.0 0.66 1.4E-05 53.9 4.2 37 730-766 456-492 (493)
58 smart00546 CUE Domain that may 86.5 1.2 2.7E-05 35.0 4.4 36 730-766 4-41 (43)
59 PF02845 CUE: CUE domain; Int 84.9 1.7 3.6E-05 34.2 4.3 36 730-766 3-40 (42)
60 PF02309 AUX_IAA: AUX/IAA fami 84.8 0.28 6.1E-06 50.9 0.0 62 5-72 110-194 (215)
61 COG5207 UBP14 Isopeptidase T [ 84.8 1.9 4.2E-05 50.5 6.5 77 729-806 559-656 (749)
62 PF02845 CUE: CUE domain; Int 84.7 1.7 3.6E-05 34.2 4.2 38 771-809 2-41 (42)
63 KOG2561 Adaptor protein NUB1, 81.6 3.3 7.1E-05 48.1 6.6 77 732-811 307-414 (568)
64 PF03107 C1_2: C1 domain; Int 80.8 0.99 2.1E-05 33.4 1.5 27 381-409 2-29 (30)
65 PF11543 UN_NPL4: Nuclear pore 79.5 3 6.4E-05 37.5 4.5 50 1-58 1-50 (80)
66 cd01812 BAG1_N Ubiquitin-like 77.4 5 0.00011 33.8 5.0 57 5-73 1-57 (71)
67 KOG1778 CREB binding protein/P 77.1 1.1 2.5E-05 49.8 1.3 44 379-424 169-212 (319)
68 smart00546 CUE Domain that may 74.3 5.9 0.00013 31.1 4.3 38 771-809 3-42 (43)
69 PF09288 UBA_3: Fungal ubiquit 69.9 5.2 0.00011 34.3 3.2 46 727-777 8-53 (55)
70 cd06536 CIDE_N_ICAD CIDE_N dom 68.4 18 0.00039 33.2 6.5 58 7-74 5-62 (80)
71 PF14560 Ubiquitin_2: Ubiquiti 65.9 25 0.00053 31.4 7.0 40 29-69 23-63 (87)
72 cd01803 Ubiquitin Ubiquitin. U 63.9 16 0.00035 30.9 5.2 71 5-88 3-73 (76)
73 smart00213 UBQ Ubiquitin homol 63.2 17 0.00037 29.3 5.0 56 6-73 2-57 (64)
74 TIGR00601 rad23 UV excision re 61.0 9.3 0.0002 43.6 4.1 39 726-766 155-193 (378)
75 cd01789 Alp11_N Ubiquitin-like 60.0 42 0.00092 30.1 7.4 61 5-72 4-65 (84)
76 PF02017 CIDE-N: CIDE-N domain 57.7 28 0.00061 31.7 5.8 55 7-73 5-59 (78)
77 COG1470 Predicted membrane pro 50.4 1.2E+02 0.0027 36.0 10.7 102 474-581 373-480 (513)
78 PRK10301 hypothetical protein; 49.6 56 0.0012 31.7 6.8 35 545-579 85-119 (124)
79 PF09379 FERM_N: FERM N-termin 48.8 51 0.0011 28.4 5.9 60 12-77 5-65 (80)
80 KOG0944 Ubiquitin-specific pro 48.2 45 0.00097 40.9 7.0 82 726-808 569-672 (763)
81 cd01809 Scythe_N Ubiquitin-lik 48.0 64 0.0014 26.9 6.2 67 5-84 3-69 (72)
82 PF07610 DUF1573: Protein of u 48.0 40 0.00086 27.0 4.6 44 501-552 2-45 (45)
83 COG2967 ApaG Uncharacterized p 47.0 84 0.0018 31.1 7.4 93 478-576 15-111 (126)
84 cd00166 SAM Sterile alpha moti 46.7 66 0.0014 25.8 5.9 52 730-793 6-57 (63)
85 PF11325 DUF3127: Domain of un 45.9 56 0.0012 30.2 5.8 51 506-567 30-83 (84)
86 KOG4317 Predicted Zn-finger pr 43.5 11 0.00024 42.2 1.1 33 379-415 7-40 (383)
87 KOG4151 Myosin assembly protei 43.4 15 0.00032 45.3 2.2 73 6-87 291-366 (748)
88 PF00643 zf-B_box: B-box zinc 42.8 23 0.0005 27.3 2.5 39 380-422 4-42 (42)
89 PF14361 RsbRD_N: RsbT co-anta 42.4 60 0.0013 30.1 5.6 70 736-810 23-105 (105)
90 PF12389 Peptidase_M73: Camely 41.7 1E+02 0.0023 32.6 7.8 111 487-603 57-184 (199)
91 cd01806 Nedd8 Nebb8-like ubiq 41.4 1.1E+02 0.0023 25.9 6.6 70 5-87 3-72 (76)
92 cd01615 CIDE_N CIDE_N domain, 40.3 93 0.002 28.5 6.2 56 7-74 5-60 (78)
93 PF02221 E1_DerP2_DerF2: ML do 38.0 74 0.0016 29.7 5.6 35 539-573 87-123 (134)
94 PF02536 mTERF: mTERF; InterP 38.0 46 0.001 36.1 4.8 65 725-791 173-264 (345)
95 PF04234 CopC: CopC domain; I 37.9 46 0.00099 30.5 4.1 29 546-574 59-87 (97)
96 cd06538 CIDE_N_FSP27 CIDE_N do 37.8 73 0.0016 29.3 5.2 55 7-74 5-59 (79)
97 cd01813 UBP_N UBP ubiquitin pr 37.1 78 0.0017 27.8 5.2 61 5-74 1-61 (74)
98 PF13473 Cupredoxin_1: Cupredo 35.1 26 0.00055 32.1 2.0 63 485-568 33-95 (104)
99 smart00266 CAD Domains present 34.5 1.3E+02 0.0028 27.4 6.1 56 7-74 3-58 (74)
100 PF07975 C1_4: TFIIH C1-like d 34.1 31 0.00066 29.2 2.1 36 381-417 1-44 (51)
101 PF11976 Rad60-SLD: Ubiquitin- 34.0 2.2E+02 0.0047 24.1 7.4 58 5-72 1-58 (72)
102 TIGR00601 rad23 UV excision re 33.9 43 0.00094 38.4 3.9 46 763-809 149-194 (378)
103 PF14555 UBA_4: UBA-like domai 33.5 83 0.0018 24.9 4.4 28 738-766 11-38 (43)
104 cd06535 CIDE_N_CAD CIDE_N doma 33.4 1.2E+02 0.0027 27.7 5.9 49 7-64 5-53 (77)
105 cd01804 midnolin_N Ubiquitin-l 32.9 1.1E+02 0.0024 26.9 5.5 56 5-74 4-59 (78)
106 cd01800 SF3a120_C Ubiquitin-li 32.6 1E+02 0.0022 26.9 5.2 67 10-88 4-70 (76)
107 cd01792 ISG15_repeat1 ISG15 ub 32.5 1.5E+02 0.0033 26.0 6.3 72 4-86 4-75 (80)
108 PF14445 Prok-RING_2: Prokaryo 30.7 10 0.00022 32.2 -1.2 32 380-411 8-49 (57)
109 cd00917 PG-PI_TP The phosphati 30.5 1.1E+02 0.0024 29.2 5.4 33 539-572 78-112 (122)
110 KOG0418 Ubiquitin-protein liga 30.3 52 0.0011 34.7 3.4 36 729-765 163-198 (200)
111 smart00454 SAM Sterile alpha m 29.5 1.7E+02 0.0037 23.6 5.8 53 730-793 8-60 (68)
112 PTZ00044 ubiquitin; Provisiona 29.2 1.1E+02 0.0025 26.0 4.9 71 5-88 3-73 (76)
113 KOG2807 RNA polymerase II tran 28.8 23 0.00049 40.0 0.7 31 381-412 332-362 (378)
114 smart00737 ML Domain involved 28.8 1.3E+02 0.0027 28.0 5.5 35 539-573 73-109 (118)
115 cd01799 Hoil1_N Ubiquitin-like 27.9 1E+02 0.0022 27.4 4.4 42 8-58 8-49 (75)
116 COG2372 CopC Uncharacterized p 26.9 1.6E+02 0.0035 29.4 5.9 38 544-581 85-122 (127)
117 PF10407 Cytokin_check_N: Cdc1 26.9 1.1E+02 0.0024 27.7 4.4 65 15-86 2-69 (73)
118 KOG0011 Nucleotide excision re 26.3 1.5E+02 0.0032 33.8 6.3 39 726-766 134-172 (340)
119 PF07647 SAM_2: SAM domain (St 26.0 2.5E+02 0.0055 23.2 6.3 54 730-794 8-61 (66)
120 PF02536 mTERF: mTERF; InterP 25.7 57 0.0012 35.4 3.0 63 725-795 137-199 (345)
121 PF09544 DUF2381: Protein of u 25.7 2.2E+02 0.0047 31.6 7.4 71 497-572 204-278 (289)
122 cd01793 Fubi Fubi ubiquitin-li 25.7 1.8E+02 0.0039 25.1 5.5 64 16-89 9-72 (74)
123 KOG3554 Histone deacetylase co 25.6 83 0.0018 37.2 4.3 56 748-807 256-315 (693)
124 PHA03273 envelope glycoprotein 25.5 7.5E+02 0.016 29.7 11.8 37 546-585 198-234 (486)
125 cd00029 C1 Protein kinase C co 23.9 38 0.00083 26.5 0.9 24 377-401 9-35 (50)
126 cd01805 RAD23_N Ubiquitin-like 23.8 3.3E+02 0.0071 23.2 6.8 61 16-86 11-73 (77)
127 PF08946 Osmo_CC: Osmosensory 23.6 64 0.0014 26.9 2.2 30 745-780 5-34 (46)
128 PF02207 zf-UBR: Putative zinc 23.6 48 0.001 29.0 1.6 33 393-425 12-48 (71)
129 TIGR02656 cyanin_plasto plasto 23.5 4.8E+02 0.01 23.8 8.2 22 540-567 64-85 (99)
130 COG5259 RSC8 RSC chromatin rem 23.3 40 0.00087 39.7 1.3 35 379-414 224-258 (531)
131 cd01796 DDI1_N DNA damage indu 23.1 2E+02 0.0043 24.8 5.3 66 5-82 1-67 (71)
132 cd01802 AN1_N ubiquitin-like d 22.8 2.3E+02 0.0049 26.7 5.9 62 18-89 40-101 (103)
133 PF13598 DUF4139: Domain of un 22.7 2.9E+02 0.0064 29.9 7.7 86 495-591 167-256 (317)
134 smart00311 PWI PWI, domain in 22.7 1.8E+02 0.0039 25.7 5.0 34 738-785 21-57 (74)
135 TIGR03279 cyano_FeS_chp putati 22.6 1.1E+02 0.0024 35.8 4.7 83 5-87 45-147 (433)
136 PLN03186 DNA repair protein RA 22.3 1.4E+02 0.0029 33.9 5.2 35 732-771 28-62 (342)
137 PF11906 DUF3426: Protein of u 22.1 5.5E+02 0.012 24.9 8.7 66 493-563 66-146 (149)
138 cd06537 CIDE_N_B CIDE_N domain 22.0 1.7E+02 0.0037 27.1 4.8 56 7-75 5-60 (81)
139 cd01794 DC_UbP_C dendritic cel 21.9 2.1E+02 0.0046 24.9 5.2 56 8-74 2-57 (70)
140 PF00130 C1_1: Phorbol esters/ 21.7 69 0.0015 25.8 2.1 25 376-401 8-35 (53)
141 PF10989 DUF2808: Protein of u 21.7 1.8E+02 0.0038 28.8 5.3 27 536-562 95-122 (146)
142 PF12760 Zn_Tnp_IS1595: Transp 21.5 59 0.0013 26.2 1.6 26 376-401 15-44 (46)
143 PF05290 Baculo_IE-1: Baculovi 21.4 58 0.0013 32.7 1.8 35 378-413 79-114 (140)
144 PF03915 AIP3: Actin interacti 21.3 32 0.00068 40.1 0.0 113 9-139 2-117 (424)
145 PF08958 DUF1871: Domain of un 20.6 17 0.00037 33.1 -1.9 34 767-803 7-41 (79)
146 COG3589 Uncharacterized conser 20.5 92 0.002 35.6 3.3 44 726-783 49-93 (360)
147 TIGR02376 Cu_nitrite_red nitri 20.5 3.3E+02 0.0071 30.3 7.6 87 490-587 205-297 (311)
148 KOG2990 C2C2-type Zn-finger pr 20.1 37 0.00081 37.7 0.2 23 375-397 48-70 (317)
No 1
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=99.84 E-value=1.6e-20 Score=169.38 Aligned_cols=86 Identities=60% Similarity=0.989 Sum_probs=80.2
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHh-----cC
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQ-----RL 79 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q-----~l 79 (812)
++|||+|||++|||++++++| +.|+++..|++||++.|+|+++.+|+|+|+|||||+|+|.+|+||.+|+.. ++
T Consensus 1 l~vKv~y~~~~rRf~l~~~~~-~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~ 79 (91)
T cd06398 1 LVVKVKYGGTLRRFTFPVAEN-QLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRL 79 (91)
T ss_pred CEEEEEeCCEEEEEEeccccc-cCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCC
Confidence 689999999999999999865 889999999999999999999999999999999999999999999999755 48
Q ss_pred ceEEEEEEecCC
Q 003535 80 KFLRIDVHLNND 91 (812)
Q Consensus 80 ~~LritV~l~~~ 91 (812)
++|||+|+++.+
T Consensus 80 ~~lrl~v~~~~~ 91 (91)
T cd06398 80 NPLRIDVTVDYD 91 (91)
T ss_pred ceEEEEEEEecC
Confidence 999999998753
No 2
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=99.75 E-value=3.8e-18 Score=150.75 Aligned_cols=79 Identities=29% Similarity=0.582 Sum_probs=71.2
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhC--CCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFN--FPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFL 82 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~--l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~L 82 (812)
++||+.||||+|||++|.+ ++.+..|+++||++|+ +++.++|.|||+|+|||+|||.+++||.-| .|...+|
T Consensus 1 ~iiK~~~g~DiR~~~~~~~-----~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~dL~~A-~~~~~~~ 74 (81)
T cd06401 1 LILKAQLGDDIRRIPIHNE-----DITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSDLSFA-IQCSRIL 74 (81)
T ss_pred CeEEEEeCCeEEEEeccCc-----cccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHHHHHH-HhcCcce
Confidence 5899999999999999943 5688999999999995 889999999999999999999999999965 6667889
Q ss_pred EEEEEec
Q 003535 83 RIDVHLN 89 (812)
Q Consensus 83 ritV~l~ 89 (812)
+++++++
T Consensus 75 ~l~~~~~ 81 (81)
T cd06401 75 KLTLFVN 81 (81)
T ss_pred EEEEecC
Confidence 9999864
No 3
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=99.69 E-value=5.2e-17 Score=143.05 Aligned_cols=74 Identities=24% Similarity=0.322 Sum_probs=65.9
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRI 84 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lri 84 (812)
+.+||+|+|++|||+++. ++++..|++||..+|+|++++ |.|||.|||||+|||+|++||.+|++|..+.+-+
T Consensus 1 ~~fKv~~~g~~RRf~~~~------~pt~~~L~~kl~~Lf~lp~~~-~~vtYiDeD~D~ITlssd~eL~d~~~~~~~~~~~ 73 (82)
T cd06397 1 TQFKSSFLGDTRRIVFPD------IPTWEALASKLENLYNLPEIK-VGVTYIDNDNDEITLSSNKELQDFYRLSHRESTE 73 (82)
T ss_pred CeEEEEeCCceEEEecCC------CccHHHHHHHHHHHhCCChhH-eEEEEEcCCCCEEEecchHHHHHHHHhcccccCc
Confidence 479999999999999984 779999999999999999876 9999999999999999999999998876553333
Q ss_pred E
Q 003535 85 D 85 (812)
Q Consensus 85 t 85 (812)
+
T Consensus 74 v 74 (82)
T cd06397 74 V 74 (82)
T ss_pred e
Confidence 3
No 4
>KOG4351 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.58 E-value=2.1e-15 Score=154.50 Aligned_cols=113 Identities=31% Similarity=0.574 Sum_probs=95.4
Q ss_pred CCCCCcceEEeeeeccCCCcccCCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEE
Q 003535 470 PGRSRLDSCFILDVNVLDGTMMAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIA 549 (812)
Q Consensus 470 p~~p~L~A~FV~DVTIpDGT~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVS 549 (812)
...|.++|+|+.|+ |.|+|+|.|++.|+.++.|++++|+.+...-++...++ .|.+..++
T Consensus 37 qm~P~~~aaF~Ld~---------------knW~lqna~sv~~d~~t~l~~m~~~~~~~~lsv~~~~~-----i~~e~~v~ 96 (244)
T KOG4351|consen 37 QMNPMLSAAFVLDM---------------KNWNLQNAGSVYWDQDTKLKSMPGMLFVASLSVKDQEV-----IGHEGVVS 96 (244)
T ss_pred ccCcccccceeeec---------------cceeccccccEEEcCCCceeeccccceeeeeeecceee-----ecccccee
Confidence 45678999999996 99999999999999999999999998876544443333 47899999
Q ss_pred EEEecCCCCceEEEEEEEECCCCCccCCeEEEEEEEcCCCccCcccccccccCCCCCCCCCCC
Q 003535 550 VDFTAPELPGRYISYWRMSSPSGVKFGQRVWVLIQVDPSLKDSISDGFGGLNLNVPPESTRSN 612 (812)
Q Consensus 550 V~L~AP~~pG~Y~SyWRL~tpdG~~FG~rLWv~I~V~~~~~~s~~~~~~~~nln~~~~~~~~~ 612 (812)
|+|+||..+ |++||||.+. |.+.||. .+.......|+++++|++.-+.-..+.
T Consensus 97 v~f~aP~~~--y~s~WRl~n~-----G~~~Wp~---~~~lk~~~~d~~~~~n~~~~~sLdP~E 149 (244)
T KOG4351|consen 97 VEFIAPALE--YTSHWRLQNS-----GPRVWPS---DPCLKEVSPDQIEKGNISSSPSLDPQE 149 (244)
T ss_pred eeecCCCcc--ceeeEEEecC-----CceeCCC---CCcccccCCccccceeeecccccCchh
Confidence 999999998 9999999995 9999998 777778889999999998666555433
No 5
>KOG4351 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.44 E-value=4.9e-14 Score=144.65 Aligned_cols=109 Identities=23% Similarity=0.464 Sum_probs=96.6
Q ss_pred ceEEeeeeccCCCccc-----------CCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCC
Q 003535 476 DSCFILDVNVLDGTMM-----------APSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEG 544 (812)
Q Consensus 476 ~A~FV~DVTIpDGT~V-----------~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGE 544 (812)
.+.|+.++++.++.++ +|+.+|++.|||+|.|...||.|.+|.+++||.+....-+ .. +.+.|+|
T Consensus 74 ~~~~~~~lsv~~~~~i~~e~~v~v~f~aP~~~y~s~WRl~n~G~~~Wp~~~~lk~~~~d~~~~~n~~--~~--~sLdP~E 149 (244)
T KOG4351|consen 74 GMLFVASLSVKDQEVIGHEGVVSVEFIAPALEYTSHWRLQNSGPRVWPSDPCLKEVSPDQIEKGNIS--SS--PSLDPQE 149 (244)
T ss_pred ccceeeeeeecceeeeccccceeeeecCCCccceeeEEEecCCceeCCCCCcccccCCccccceeee--cc--cccCchh
Confidence 5678888888888765 9999999999999999999999999999999998865311 12 3578999
Q ss_pred EEEEEEEEecCCCCceEEEEEEEECCCCCccCCeEEEEEEEcCC
Q 003535 545 EIDIAVDFTAPELPGRYISYWRMSSPSGVKFGQRVWVLIQVDPS 588 (812)
Q Consensus 545 evdVSV~L~AP~~pG~Y~SyWRL~tpdG~~FG~rLWv~I~V~~~ 588 (812)
+.+|.+.+.+|.++|.|...||+++++|.+||+-||+++.+..-
T Consensus 150 ~~~I~~~~s~P~e~g~~~~~~q~vt~e~~~~GesiwvI~~~~~l 193 (244)
T KOG4351|consen 150 ETDILAKESRPGEVGEIPGKWQNVTSENLLYGESIWVIPAGDLL 193 (244)
T ss_pred hhhhhhhhcCCCccccccchheeecccceeeecceEEeecCCCc
Confidence 99999999999999999999999999999999999999998763
No 6
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.43 E-value=7.1e-14 Score=111.74 Aligned_cols=43 Identities=47% Similarity=1.048 Sum_probs=39.6
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhc--CCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA--MGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~--~~~~H~f~ri 422 (812)
|.||+|++.||.|.||||.+|.|||||+.||.. |...|.|.||
T Consensus 1 V~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~~H~~~H~F~ri 45 (45)
T cd02344 1 VTCDGCQMFPINGPRFKCRNCDDFDFCENCFKTRKHNTRHTFGRI 45 (45)
T ss_pred CCCCCCCCCCCccCeEECCCCCCccchHHhhCCCCcCCCCceeeC
Confidence 589999999999999999999999999999998 4458999986
No 7
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=99.40 E-value=1.5e-12 Score=117.16 Aligned_cols=80 Identities=21% Similarity=0.351 Sum_probs=68.8
Q ss_pred eEEEEEeC-----CceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhc-
Q 003535 5 MVIKVKYG-----DTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQR- 78 (812)
Q Consensus 5 ~iiKvk~g-----d~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~- 78 (812)
++||+-+. ..+|||.++. ....++..|+++|+++|....+..|+|+|+|+|||+|||.++++|..|+...
T Consensus 1 ~~vkayl~~~~~~~EIRRf~l~~----~~~~s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssdeEL~~A~~~~~ 76 (87)
T cd06402 1 LTVKAYLLGKDANAEIRRFAIDE----DVSTSYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSDEELVMALGSLN 76 (87)
T ss_pred CeEEEeecCCCCccceEEEEecC----CCCcCHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCHHHHHHHHHcCC
Confidence 57898883 4799999983 4577999999999999987778999999999999999999999999886543
Q ss_pred CceEEEEEEe
Q 003535 79 LKFLRIDVHL 88 (812)
Q Consensus 79 l~~LritV~l 88 (812)
..+|||.|+.
T Consensus 77 ~~~~RlyI~~ 86 (87)
T cd06402 77 DDTFRIYIKE 86 (87)
T ss_pred CCcEEEEEEe
Confidence 4689999864
No 8
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=99.40 E-value=1.2e-13 Score=109.17 Aligned_cols=43 Identities=72% Similarity=1.507 Sum_probs=40.4
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcCCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAMGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~~~~H~f~ri 422 (812)
|.||+|++.||+|.||||.+|.|||||+.||..+.+...|++|
T Consensus 1 I~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~~n~~~y~~~ 43 (43)
T cd02342 1 IQCDGCGVLPITGPRYKSKVKEDYDLCTICFSRMGNEGEYTRI 43 (43)
T ss_pred CCCCCCCCCcccccceEeCCCCCCccHHHHhhhhcChhheeeC
Confidence 6899999999999999999999999999999999998888775
No 9
>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=99.38 E-value=2e-12 Score=112.02 Aligned_cols=76 Identities=37% Similarity=0.675 Sum_probs=65.9
Q ss_pred ceEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhc----C
Q 003535 4 TMVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQR----L 79 (812)
Q Consensus 4 ~~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~----l 79 (812)
.++||++||+++|||.++. +.++..|++||++.|++.. ..+.|+|.|+|||+|+|.+|+||..|+... .
T Consensus 1 ~~~vK~~~~~~~~~~~~~~------~~s~~dL~~~i~~~~~~~~-~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~ 73 (81)
T smart00666 1 TVDVKLRYGGETRRLSVPR------DISFEDLRSKVAKRFGLDN-QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGS 73 (81)
T ss_pred CccEEEEECCEEEEEEECC------CCCHHHHHHHHHHHhCCCC-CCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCC
Confidence 3789999999999999982 6689999999999999874 789999999999999999999999884322 3
Q ss_pred ceEEEEE
Q 003535 80 KFLRIDV 86 (812)
Q Consensus 80 ~~LritV 86 (812)
+.|||.|
T Consensus 74 ~~l~l~v 80 (81)
T smart00666 74 KKLRLHV 80 (81)
T ss_pred ceEEEEe
Confidence 5688776
No 10
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=99.37 E-value=4.8e-13 Score=142.13 Aligned_cols=118 Identities=24% Similarity=0.345 Sum_probs=85.7
Q ss_pred CccCCcccCc-----eecCCCCCCCcccceeecCCCCCCchhhhhhhc--CCCCCceEEecCCCCcCCCCcccCCcCCCC
Q 003535 370 DALMGMFHKG-----VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA--MGSEADYIRIDRPVHYRHPRPFRGLYDHNF 442 (812)
Q Consensus 370 ~~~~~~~H~G-----V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~--~~~~H~f~ri~~Pv~~r~p~s~~~~~~~~~ 442 (812)
+...+.+|.+ +.||+|+..+|+|.||||++|.|||||+.||+. ++..|.|+|+.+-. +++.+....
T Consensus 138 ~~~~~~~H~~~~~~~v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~~~h~~H~~lR~~t~~-----t~~~~~~~~-- 210 (278)
T KOG4582|consen 138 NPVVGEMHPNISKLSVPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGNEHHAAHAMLRLHTNE-----TPFSGYVML-- 210 (278)
T ss_pred CCCccccCCCcccccccCCCccCCccccceeeecCCCccchhHHhhcCCCCCcccceeeccccc-----CCCCcceec--
Confidence 5677899999 999999977999999999999999999999998 46789999977611 111110000
Q ss_pred CCCCCCCCCCCCCCCCCccccccCCCCCCCCCcceEEeeeeccCCCcccCCCCcEEEEEEEEcCCCCCCCCCcEEEEecC
Q 003535 443 WLGTPGPDTQHVGALGAPHILRDRGIKPGRSRLDSCFILDVNVLDGTMMAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGG 522 (812)
Q Consensus 443 ~~~~p~~~~~~~~a~~~p~v~~~~~~kp~~p~L~A~FV~DVTIpDGT~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgG 522 (812)
.. | .++.+. -.-+-.+.+...|.+.|.+++.|-..|+.|+...+.++
T Consensus 211 --~~-----------------------p-------~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 (278)
T KOG4582|consen 211 --SS-----------------------P-------PNPVNL-NKRPIFVGHSKVRGNDWYWTSLGGGEGRIGRVNEIVLW 257 (278)
T ss_pred --cC-----------------------C-------CCcccc-cccccccccccccccCCccccccCCCCCCccccccccc
Confidence 00 0 011111 11233456677899999999999999999999999988
Q ss_pred CCCCC
Q 003535 523 DKFSD 527 (812)
Q Consensus 523 d~m~~ 527 (812)
+....
T Consensus 258 ~~~~~ 262 (278)
T KOG4582|consen 258 INGPR 262 (278)
T ss_pred ccccc
Confidence 76543
No 11
>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=99.36 E-value=3.7e-12 Score=110.44 Aligned_cols=79 Identities=42% Similarity=0.689 Sum_probs=68.4
Q ss_pred ceEEEEEeCCceee-eeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHh----c
Q 003535 4 TMVIKVKYGDTLRR-FNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQ----R 78 (812)
Q Consensus 4 ~~iiKvk~gd~lRR-f~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q----~ 78 (812)
++.||+.|++++|| |.+.. +.++..|+++|++.|.+. ..+|.|+|.|+|||+|+|.+|+||.+|+.+ .
T Consensus 1 t~~vK~~~~~~~~~~~~~~~------~~s~~~L~~~i~~~~~~~-~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~~~ 73 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPS------DVSFDDLRSKIREKFGLL-DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKESG 73 (84)
T ss_dssp SEEEEEEETTEEEEEEEECS------TSHHHHHHHHHHHHHTTS-TSSEEEEEEETTSSEEEESSHHHHHHHHHHHHHCT
T ss_pred CEEEEEEECCeeEEEEEcCC------CCCHHHHHHHHHHHhCCC-CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHhcC
Confidence 57899999999999 77762 459999999999999998 789999999999999999999999998433 3
Q ss_pred CceEEEEEEec
Q 003535 79 LKFLRIDVHLN 89 (812)
Q Consensus 79 l~~LritV~l~ 89 (812)
.+.|||.|+-|
T Consensus 74 ~~~lrl~v~~~ 84 (84)
T PF00564_consen 74 SKTLRLFVQDK 84 (84)
T ss_dssp TSCEEEEEEET
T ss_pred CCcEEEEEEeC
Confidence 45799998643
No 12
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. 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. The NBR1 protein contains a type I PB1 domain.
Probab=99.33 E-value=8.4e-12 Score=111.08 Aligned_cols=76 Identities=21% Similarity=0.383 Sum_probs=67.4
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH---HHhcCce
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV---MRQRLKF 81 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a---~~q~l~~ 81 (812)
+.|||.|+++++||.+.-.. ...+..|.++|+..|+|. .|+|||.|+|||.|+|..+.||.+| +.+..+.
T Consensus 1 V~vKaty~~d~~rf~~~~~~----~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~lssd~eLeE~~rl~~~~~~~ 73 (81)
T cd06396 1 VNLKVTYNGESQSFLVSDSE----NTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVSVNSQGEYEEALKSAVRQGNL 73 (81)
T ss_pred CEEEEEECCeEEEEEecCCC----CCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEEEEchhhHHHHHHHHHhCCCE
Confidence 57999999999999999532 458999999999999999 9999999999999999999999998 3444688
Q ss_pred EEEEEE
Q 003535 82 LRIDVH 87 (812)
Q Consensus 82 LritV~ 87 (812)
||+.|.
T Consensus 74 l~~~v~ 79 (81)
T cd06396 74 LQMNVY 79 (81)
T ss_pred EEEEEe
Confidence 999983
No 13
>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=99.31 E-value=1.1e-11 Score=110.46 Aligned_cols=77 Identities=27% Similarity=0.440 Sum_probs=66.6
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHH----HhcCc
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVM----RQRLK 80 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~----~q~l~ 80 (812)
++|||.||++++||++.. +.++..|+++|+..|++.....|.|+|.|+|||+|+|..|.||.+|+ .....
T Consensus 1 ~~vK~~~~~d~~r~~l~~------~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~ 74 (82)
T cd06407 1 VRVKATYGEEKIRFRLPP------SWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSH 74 (82)
T ss_pred CEEEEEeCCeEEEEEcCC------CCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCC
Confidence 479999999999999993 56999999999999999755899999999999999999999999973 22345
Q ss_pred eEEEEEE
Q 003535 81 FLRIDVH 87 (812)
Q Consensus 81 ~LritV~ 87 (812)
.+||.|+
T Consensus 75 ~v~l~v~ 81 (82)
T cd06407 75 TIRLLVH 81 (82)
T ss_pred eEEEEee
Confidence 6777763
No 14
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=99.31 E-value=1.1e-12 Score=104.95 Aligned_cols=43 Identities=33% Similarity=0.716 Sum_probs=39.1
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhc--CCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA--MGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~--~~~~H~f~ri 422 (812)
|.||+|+..+|.|.||||.+|.|||||+.||.. |+..|+|+++
T Consensus 1 i~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~~~H~~~H~f~r~ 45 (45)
T cd02339 1 IICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGDKHDLEHRFYRY 45 (45)
T ss_pred CCCCCCCCCCcccCeEECCCCCCccchHHHhCCCCCCCCCCEEeC
Confidence 579999988999999999999999999999987 4578999874
No 15
>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=99.31 E-value=9.2e-12 Score=107.33 Aligned_cols=76 Identities=38% Similarity=0.632 Sum_probs=65.3
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhc----Cc
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQR----LK 80 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~----l~ 80 (812)
+.||++|++++|||.+.. -+.++..|+++|+..|++.. ..+.|+|.|+|||+|+|.+|+||..|+.+. .+
T Consensus 1 ~~vK~~~~~~~~~~~~~~-----~~~s~~~L~~~i~~~~~~~~-~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~ 74 (81)
T cd05992 1 VRVKVKYGGEIRRFVVVS-----RSISFEDLRSKIAEKFGLDA-VSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSK 74 (81)
T ss_pred CcEEEEecCCCEEEEEec-----CCCCHHHHHHHHHHHhCCCC-CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCc
Confidence 479999999999999994 26799999999999999986 899999999999999999999999986553 33
Q ss_pred eEEEEE
Q 003535 81 FLRIDV 86 (812)
Q Consensus 81 ~LritV 86 (812)
.|+|-|
T Consensus 75 ~l~l~v 80 (81)
T cd05992 75 KLRLFV 80 (81)
T ss_pred cEEEEe
Confidence 455544
No 16
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=99.22 E-value=6.7e-12 Score=99.38 Aligned_cols=42 Identities=48% Similarity=0.843 Sum_probs=37.8
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcC-CCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAM-GSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~-~~~H~f~ri 422 (812)
|.||+|+. +|.|.||||.+|+|||||+.||... +..|+|++|
T Consensus 1 v~Cd~C~~-~i~G~ry~C~~C~d~dLC~~C~~~~~H~~H~f~~~ 43 (43)
T cd02340 1 VICDGCQG-PIVGVRYKCLVCPDYDLCESCEAKGVHPEHAMLKI 43 (43)
T ss_pred CCCCCCCC-cCcCCeEECCCCCCccchHHhhCcCCCCCCCEEeC
Confidence 57999996 9999999999999999999999982 378999875
No 17
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=99.19 E-value=9.6e-12 Score=101.18 Aligned_cols=42 Identities=31% Similarity=0.635 Sum_probs=37.0
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceEE
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYIR 421 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~r 421 (812)
+.||+|+..||.|.||||++|.|||||+.||.. |...|+|..
T Consensus 1 ~~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~e 48 (49)
T cd02334 1 AKCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMKE 48 (49)
T ss_pred CCCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCeec
Confidence 579999988999999999999999999999986 456787753
No 18
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.19 E-value=1.2e-11 Score=100.22 Aligned_cols=43 Identities=35% Similarity=0.869 Sum_probs=38.5
Q ss_pred eecCCCCCCCcccceeecCCCC--CCchhhhhhhc---CCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKD--DYDLCSICFAA---MGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~--DyDLCe~C~a~---~~~~H~f~ri 422 (812)
+.||+|+..||+|.||+|.+|. |||||+.||.. |...|.|.+|
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~~H~~~H~~~~i 48 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGESHQEDHWLVKI 48 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcCCCCCCCceeeC
Confidence 4799999889999999999999 99999999997 4567888875
No 19
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=99.16 E-value=1.5e-11 Score=98.32 Aligned_cols=44 Identities=43% Similarity=0.953 Sum_probs=35.1
Q ss_pred ccCceecCCCCCCCcccceeecCCCCCCchhhhhhhc--CCCCCce
Q 003535 376 FHKGVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA--MGSEADY 419 (812)
Q Consensus 376 ~H~GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~--~~~~H~f 419 (812)
.|.++.||+|+..+|.|.||+|.+|.|||||+.||.. ....|.|
T Consensus 1 ~h~~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~~~~~H~~ 46 (46)
T PF00569_consen 1 IHHGYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGRHSHNHKM 46 (46)
T ss_dssp -CSSCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--H-SSSSE
T ss_pred CCCCeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcCCCCCcCc
Confidence 4899999999977999999999999999999999998 3556643
No 20
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The
Probab=99.14 E-value=1.9e-10 Score=101.70 Aligned_cols=79 Identities=22% Similarity=0.458 Sum_probs=71.0
Q ss_pred EEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEEE
Q 003535 6 VIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRID 85 (812)
Q Consensus 6 iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lrit 85 (812)
-||.||+...|||.+.-+. .-.+..+..+|+++++|+ +.+|+|.|.|.|||++.|..|+.|.+|+...-..|||.
T Consensus 2 eVKSkfdaEfRRFsl~r~~----~~~f~ef~~ll~~lH~l~-~~~f~i~Y~D~~gDLLPInNDdNf~kAlssa~plLRl~ 76 (80)
T cd06403 2 EVKSKFDAEFRRFSLDRNK----PGKFEDFYKLLEHLHHIP-NVDFLIGYTDPHGDLLPINNDDNFLKALSSANPLLRIF 76 (80)
T ss_pred ceecccCCeEEEEEecccc----CcCHHHHHHHHHHHhCCC-CCcEEEEEeCCCCCEecccCcHHHHHHHHcCCCceEEE
Confidence 4899999999999999642 458899999999999999 68999999999999999999999999987777789999
Q ss_pred EEec
Q 003535 86 VHLN 89 (812)
Q Consensus 86 V~l~ 89 (812)
||.+
T Consensus 77 iqrk 80 (80)
T cd06403 77 IQRR 80 (80)
T ss_pred EEcC
Confidence 9753
No 21
>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=99.10 E-value=4.1e-10 Score=100.61 Aligned_cols=65 Identities=20% Similarity=0.441 Sum_probs=60.8
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHH
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVM 75 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~ 75 (812)
+.||+.|+||++++.+.+ .+.+..|.++|+++|+|..+-.|++||+||+||.|||.++.+|..|.
T Consensus 1 i~~K~~y~gdi~it~~d~------~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~ 65 (83)
T cd06404 1 VRVKAAYNGDIMITSIDP------SISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAF 65 (83)
T ss_pred CeEEEEecCcEEEEEcCC------CcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHH
Confidence 479999999999999995 55899999999999999999999999999999999999999999983
No 22
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=99.09 E-value=5.9e-11 Score=96.29 Aligned_cols=42 Identities=38% Similarity=0.735 Sum_probs=36.7
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcC------CCCCceEE
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAM------GSEADYIR 421 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~------~~~H~f~r 421 (812)
|.||+|+..+|.|.||+|.+|.|||||+.||... ...|+|..
T Consensus 1 i~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~ 48 (49)
T cd02338 1 VSCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQC 48 (49)
T ss_pred CCCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEE
Confidence 5799999889999999999999999999999973 34677753
No 23
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=99.04 E-value=9.6e-11 Score=95.09 Aligned_cols=42 Identities=31% Similarity=0.619 Sum_probs=36.4
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceEE
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYIR 421 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~r 421 (812)
+.||+|+..+|.|.||+|++|.|||||..||.. |.+.|+|..
T Consensus 1 ~~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~~ 48 (49)
T cd02345 1 LSCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMYE 48 (49)
T ss_pred CcCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCccc
Confidence 479999977999999999999999999999996 345777753
No 24
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=98.93 E-value=4.7e-10 Score=91.11 Aligned_cols=40 Identities=28% Similarity=0.676 Sum_probs=34.2
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceE
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYI 420 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~ 420 (812)
|.||+|+. .+.|.||||+.|+|||||+.||.. |...|+|.
T Consensus 1 i~CdgC~~-~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~~~Hpm~ 46 (48)
T cd02343 1 ISCDGCDE-IAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHEDDHEMV 46 (48)
T ss_pred CCCCCCCC-cCCCceEECCCCCCchhHHHHHhCCccCCCCCCCCCcc
Confidence 57999995 689999999999999999999998 34566664
No 25
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=98.89 E-value=1.2e-09 Score=88.58 Aligned_cols=43 Identities=30% Similarity=0.573 Sum_probs=36.7
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~ri 422 (812)
+.||+|+..++.|.||+|.+|.|||||..||.. |.+.|+|+.|
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~~ 49 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRVV 49 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEeC
Confidence 369999987888899999999999999999997 3467888643
No 26
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=98.89 E-value=7.3e-10 Score=119.61 Aligned_cols=52 Identities=37% Similarity=0.630 Sum_probs=46.1
Q ss_pred cccCceecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceEEecCCC
Q 003535 375 MFHKGVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYIRIDRPV 426 (812)
Q Consensus 375 ~~H~GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~ri~~Pv 426 (812)
..|.||.||||+.....|.||||..|.|||||..||.+ |..+|++..|-.++
T Consensus 4 ~rHe~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~ 61 (381)
T KOG1280|consen 4 SRHEGVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSRV 61 (381)
T ss_pred CCcCCceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeecc
Confidence 36999999999988999999999999999999999998 45788887766665
No 27
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=98.88 E-value=1.2e-09 Score=87.13 Aligned_cols=42 Identities=40% Similarity=0.877 Sum_probs=36.2
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcC----CCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAM----GSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~----~~~H~f~ri 422 (812)
+.||+|+. +|.|.||+|..|.|||||..||... ...|+|.+|
T Consensus 1 ~~C~~C~~-~i~g~r~~C~~C~d~dLC~~Cf~~~~~~H~~~H~~~~~ 46 (46)
T cd02249 1 YSCDGCLK-PIVGVRYHCLVCEDFDLCSSCYAKGKKGHPPDHSFTEI 46 (46)
T ss_pred CCCcCCCC-CCcCCEEECCCCCCCcCHHHHHCcCcCCCCCCCCEeEC
Confidence 46999996 9999999999999999999999974 236888764
No 28
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=98.84 E-value=8.2e-09 Score=93.13 Aligned_cols=62 Identities=29% Similarity=0.439 Sum_probs=57.9
Q ss_pred ceEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 4 TMVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 4 ~~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
++.|||.|+||+|=+.++. ++.|..|.+||+..|+|. ..|+|+|+|| ||.|||.|++||-.|
T Consensus 2 ~ikVKv~~~~Dv~~i~v~~------~i~f~dL~~kIrdkf~~~--~~~~iKykDE-GD~iti~sq~DLd~A 63 (86)
T cd06408 2 KIRVKVHAQDDTRYIMIGP------DTGFADFEDKIRDKFGFK--RRLKIKMKDD-GDMITMGDQDDLDMA 63 (86)
T ss_pred cEEEEEEecCcEEEEEcCC------CCCHHHHHHHHHHHhCCC--CceEEEEEcC-CCCccccCHHHHHHH
Confidence 5789999999999999982 779999999999999996 6999999999 999999999999987
No 29
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=98.84 E-value=2.1e-09 Score=85.22 Aligned_cols=36 Identities=50% Similarity=1.018 Sum_probs=33.7
Q ss_pred cCceecCCCCCCCcccceeecCCCCCCchhhhhhhcC
Q 003535 377 HKGVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAM 413 (812)
Q Consensus 377 H~GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~ 413 (812)
|.++.||+|+. +|.|.||+|.+|.|||||..||...
T Consensus 2 ~~~~~C~~C~~-~i~g~ry~C~~C~d~dlC~~Cf~~~ 37 (44)
T smart00291 2 HHSYSCDTCGK-PIVGVRYHCLVCPDYDLCQSCFAKG 37 (44)
T ss_pred CCCcCCCCCCC-CCcCCEEECCCCCCccchHHHHhCc
Confidence 67899999997 9999999999999999999999873
No 30
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=98.81 E-value=1.8e-09 Score=85.00 Aligned_cols=41 Identities=24% Similarity=0.629 Sum_probs=36.0
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcCCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAMGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~~~~H~f~ri 422 (812)
+.||+|.. +.|.||+|.+|+|||||..||....+.|.+.++
T Consensus 1 y~C~~C~~--~~~~r~~C~~C~dfDLC~~C~~~~~H~H~~~~~ 41 (41)
T cd02337 1 YTCNECKH--HVETRWHCTVCEDYDLCITCYNTKNHPHKMEKL 41 (41)
T ss_pred CcCCCCCC--cCCCceECCCCcchhhHHHHhCCCCCCcccccC
Confidence 36999974 779999999999999999999988888888764
No 31
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=98.20 E-value=5.1e-07 Score=105.13 Aligned_cols=53 Identities=26% Similarity=0.539 Sum_probs=44.2
Q ss_pred CCcccCceecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceEEecCCC
Q 003535 373 MGMFHKGVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYIRIDRPV 426 (812)
Q Consensus 373 ~~~~H~GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~ri~~Pv 426 (812)
....|. .+|.+|++.||+|.||+|.+|.|||+|..||.. |...|+|..+-.|-
T Consensus 598 E~~kH~-~kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk~~~pM~Ey~~~t 656 (966)
T KOG4286|consen 598 ETAKHQ-AKCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAKGHKMHYPMVEYCTPT 656 (966)
T ss_pred HHHHhh-hhcchhhhCccceeeeeehhhcChhHHhhHhhhcccccCCCCCCCceeeeCCC
Confidence 345565 799999999999999999999999999999987 34578887665554
No 32
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=97.97 E-value=4e-05 Score=69.59 Aligned_cols=69 Identities=30% Similarity=0.458 Sum_probs=55.5
Q ss_pred CCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCC--CceEEEEecCCCCeEEEcCchhHHHH---H-HhcCceEEEE
Q 003535 12 GDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHD--SDLTLTYVDEDGDIVTLVDDDDLCDV---M-RQRLKFLRID 85 (812)
Q Consensus 12 gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d--~~~~i~Y~DeDGD~VTL~Dd~DL~~a---~-~q~l~~Lrit 85 (812)
.|.+=||++.... ++..|++.|.+=|++..+ ..|.|+|.|.|||+|.|..|+||.+| + ....+.++|-
T Consensus 9 ~GrvhRf~~~~s~------~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~iar~~g~~~v~L~ 82 (86)
T cd06409 9 KGRVHRFRLRPSE------SLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDSDLVAAVLVARSAGLKKLDLH 82 (86)
T ss_pred CCCEEEEEecCCC------CHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccchHHHHHHHHHHcCCCEEEEE
Confidence 4567789887432 789999999999988754 79999999999999999999999997 2 2234656666
Q ss_pred E
Q 003535 86 V 86 (812)
Q Consensus 86 V 86 (812)
|
T Consensus 83 v 83 (86)
T cd06409 83 L 83 (86)
T ss_pred E
Confidence 5
No 33
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=97.80 E-value=7.3e-05 Score=67.08 Aligned_cols=73 Identities=27% Similarity=0.361 Sum_probs=59.3
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCC-CeEEEcCchhHHHHHHhcCceEE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDG-DIVTLVDDDDLCDVMRQRLKFLR 83 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDG-D~VTL~Dd~DL~~a~~q~l~~Lr 83 (812)
.+|||.|.+ =|-|.+. .++.+..|++||..=|+|+ .+.++|.|+||+. ++|-| .|+||.+|..|-.+ =+
T Consensus 3 ~vvKV~f~~---tIaIrvp----~~~~y~~L~~ki~~kLkl~-~e~i~LsYkde~s~~~v~l-~d~dle~aws~~~~-~~ 72 (80)
T cd06406 3 YVVKVHFKY---TVAIQVA----RGLSYATLLQKISSKLELP-AEHITLSYKSEASGEDVIL-SDTNMEDVWSQAKD-GC 72 (80)
T ss_pred eEEEEEEEE---EEEEEcC----CCCCHHHHHHHHHHHhCCC-chhcEEEeccCCCCCccCc-ChHHHHHHHHhhcC-Ce
Confidence 799999998 3455543 3889999999999999999 5679999999985 78888 89999998777543 56
Q ss_pred EEEE
Q 003535 84 IDVH 87 (812)
Q Consensus 84 itV~ 87 (812)
||+-
T Consensus 73 lTLw 76 (80)
T cd06406 73 LTLW 76 (80)
T ss_pred EEEE
Confidence 6654
No 34
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=97.62 E-value=1.1e-05 Score=87.86 Aligned_cols=49 Identities=24% Similarity=0.613 Sum_probs=41.9
Q ss_pred CccCCcccCceecCCCCCCCcccceeecCCCCCCchhhhhhhcC------CCCCce
Q 003535 370 DALMGMFHKGVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAM------GSEADY 419 (812)
Q Consensus 370 ~~~~~~~H~GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~------~~~H~f 419 (812)
.....++|+ +.|+.|...+|.|.||+|..|.+|.+|+.|+... .+.|.|
T Consensus 232 a~v~nv~hp-v~cs~c~srs~~gfry~cq~C~nyqlcq~cfwrG~~g~~hsnqh~m 286 (434)
T KOG4301|consen 232 ATVENVFHP-VECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWRGHAGGSHSNQHQM 286 (434)
T ss_pred HhhcccCCC-ccCcceecccccchhhhHhhcCCccccchhhccccCCCCcchHHHH
Confidence 345677888 9999999899999999999999999999999983 345655
No 35
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.51 E-value=4.2e-05 Score=85.64 Aligned_cols=46 Identities=35% Similarity=0.638 Sum_probs=39.3
Q ss_pred CceecCCCCCCCcccc-eeecCCCCCCchhhhhhhc------CCCCCceEEecC
Q 003535 378 KGVRCDGCGVHPITGP-RFKSKVKDDYDLCSICFAA------MGSEADYIRIDR 424 (812)
Q Consensus 378 ~GV~CDgC~~~PI~G~-RYKCsvC~DyDLCe~C~a~------~~~~H~f~ri~~ 424 (812)
..+.||+|. ..|.|. |.||++|+|||||-.||.. |.+.|+|-.|.+
T Consensus 13 ~ky~C~~C~-~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim~~ 65 (438)
T KOG0457|consen 13 GKYNCDYCS-LDITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIMDT 65 (438)
T ss_pred CCCCCccHh-HHhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceeecC
Confidence 346899998 589996 5999999999999999997 568899976665
No 36
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=97.31 E-value=0.00031 Score=53.72 Aligned_cols=35 Identities=34% Similarity=0.491 Sum_probs=31.1
Q ss_pred HHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHh
Q 003535 729 QTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDL 764 (812)
Q Consensus 729 e~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l 764 (812)
+..+++|.+|||... ..++.|++++||++++++-|
T Consensus 3 ~~~v~~L~~mGf~~~-~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 3 EEKVQQLMEMGFSRE-QAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHTS-HH-HHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHH-HHHHHHHHcCCCHHHHHHhC
Confidence 467999999999887 99999999999999999876
No 37
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=96.83 E-value=0.00084 Score=54.33 Aligned_cols=33 Identities=30% Similarity=0.709 Sum_probs=29.6
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcC
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAM 413 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~ 413 (812)
+.|+.|+ ..+...||+|+.+.+||||..||...
T Consensus 1 y~C~~Cg-~D~t~vryh~~~~~~~dLC~~CF~~G 33 (45)
T cd02336 1 YHCFTCG-NDCTRVRYHNLKAKKYDLCPSCYQEG 33 (45)
T ss_pred CcccCCC-CccCceEEEecCCCccccChHHHhCc
Confidence 4699999 47788999999999999999999874
No 38
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=96.68 E-value=0.01 Score=55.16 Aligned_cols=73 Identities=29% Similarity=0.468 Sum_probs=56.4
Q ss_pred EEEe-CCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEe--cCCCC-eEEEcCchhHHHHHHhcC----
Q 003535 8 KVKY-GDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYV--DEDGD-IVTLVDDDDLCDVMRQRL---- 79 (812)
Q Consensus 8 Kvk~-gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~--DeDGD-~VTL~Dd~DL~~a~~q~l---- 79 (812)
|++| ||+.|-..|.- ++.+..|+.|+...|+...+ ++|+|. +||-| +|+|.+|+||...+.-.-
T Consensus 16 ~l~Y~GG~tr~i~V~r------~~s~~el~~kl~~~~~~~~~--~~lky~Lp~edld~Lisv~~DeDl~~M~~e~~~~~~ 87 (97)
T cd06410 16 QLRYVGGETRIVSVDR------SISFKELVSKLSELFGAGVV--VTLKYQLPDEDLDALISVSNDEDLKNMMEEYDRLSG 87 (97)
T ss_pred CEEEcCCceEEEEEcC------CCCHHHHHHHHHHHhCCCCc--eEEEEEcCCCCcceeEEecCcHHHHHHHHhhccccC
Confidence 4566 66778777772 46899999999999998854 999997 88888 999999999998643333
Q ss_pred ceEEEEEEe
Q 003535 80 KFLRIDVHL 88 (812)
Q Consensus 80 ~~LritV~l 88 (812)
+.-||.|++
T Consensus 88 ~~~rirvfl 96 (97)
T cd06410 88 GSARLRVFL 96 (97)
T ss_pred CCceEEEEE
Confidence 445666554
No 39
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=96.47 E-value=0.004 Score=47.63 Aligned_cols=35 Identities=31% Similarity=0.505 Sum_probs=30.2
Q ss_pred hHHHHHHHHcCCCchHHhHHHHHhcCCchhhHHHHh
Q 003535 771 DPILEELQEMGFHDEETNKRLLKKNNGSIKGVVMDL 806 (812)
Q Consensus 771 dpll~El~EmGf~d~~~n~~~~~k~~g~~~~~v~~l 806 (812)
+..++.|.||||... ..++.|.++||++.++++-|
T Consensus 3 ~~~v~~L~~mGf~~~-~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 3 EEKVQQLMEMGFSRE-QAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHTS-HH-HHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHH-HHHHHHHHcCCCHHHHHHhC
Confidence 457899999999887 88999999999999999765
No 40
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=96.41 E-value=0.0053 Score=46.60 Aligned_cols=35 Identities=31% Similarity=0.468 Sum_probs=31.9
Q ss_pred HHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhh
Q 003535 730 TLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLC 765 (812)
Q Consensus 730 ~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~ 765 (812)
..++.|.+|||. .+.+.+.|++++||++++++-|.
T Consensus 3 ~~v~~L~~mGf~-~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 3 EKLEQLLEMGFS-REEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHcCCC-HHHHHHHHHHhCCCHHHHHHHHh
Confidence 458999999999 99999999999999999998764
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.32 E-value=0.0015 Score=71.16 Aligned_cols=46 Identities=24% Similarity=0.372 Sum_probs=36.7
Q ss_pred ceecCCCCCCCcccceeecCCCCCCchhhhhhhc------CCCCCceEEecC
Q 003535 379 GVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAA------MGSEADYIRIDR 424 (812)
Q Consensus 379 GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~------~~~~H~f~ri~~ 424 (812)
.+.||.|...-..-++-+|..|++||||--||.+ |++.|+|-.|.+
T Consensus 5 k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~YRiiet 56 (432)
T COG5114 5 KIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIET 56 (432)
T ss_pred eeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEeec
Confidence 4789999853334479999999999999999998 567888866644
No 42
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=96.15 E-value=0.0059 Score=65.69 Aligned_cols=86 Identities=24% Similarity=0.473 Sum_probs=72.5
Q ss_pred cceEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceE
Q 003535 3 STMVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFL 82 (812)
Q Consensus 3 ~~~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~L 82 (812)
+++-||.||+-.-|||.+.-..-+ .|..+..-++.+-+|+ +.+|+|-|.|--||+.-|..|+-|..|+..---.|
T Consensus 17 ~~veVKSKFdaEfRRfsl~r~~~~----~f~~F~~Lv~~~H~i~-nvdvllgY~d~hgDLLPinNDDn~~ka~~sa~PlL 91 (358)
T KOG3606|consen 17 STVEVKSKFDAEFRRFSLPRHSAS----SFDEFYSLVEHLHHIP-NVDVLLGYADTHGDLLPINNDDNLHKALSSARPLL 91 (358)
T ss_pred ceEEeeccccchhheecccccCcc----cHHHHHHHHHHHhcCC-CceEEEEEecCCCceecccCchhHHHHhhccCchh
Confidence 467899999999999999954322 6666766788888888 78999999999999999999999999988777779
Q ss_pred EEEEEecCCcc
Q 003535 83 RIDVHLNNDKF 93 (812)
Q Consensus 83 ritV~l~~~~~ 93 (812)
||-||.+.++.
T Consensus 92 R~~iQkr~ea~ 102 (358)
T KOG3606|consen 92 RLLIQKREEAD 102 (358)
T ss_pred hhhhhhhhhhh
Confidence 99998876644
No 43
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=95.84 E-value=0.013 Score=44.27 Aligned_cols=34 Identities=26% Similarity=0.378 Sum_probs=30.5
Q ss_pred HHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHh
Q 003535 730 TLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDL 764 (812)
Q Consensus 730 ~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l 764 (812)
..+++|.+|||... ..++.|++++||++++++-|
T Consensus 3 ~~v~~L~~mGf~~~-~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 3 EKIDQLLEMGFSRE-EALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHcCCCHH-HHHHHHHHhCCCHHHHHHHH
Confidence 45899999999887 89999999999999998765
No 44
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=95.11 E-value=0.038 Score=41.90 Aligned_cols=35 Identities=37% Similarity=0.550 Sum_probs=31.0
Q ss_pred HHHHHHHHcCCCchHHhHHHHHhcCCchhhHHHHhh
Q 003535 772 PILEELQEMGFHDEETNKRLLKKNNGSIKGVVMDLL 807 (812)
Q Consensus 772 pll~El~EmGf~d~~~n~~~~~k~~g~~~~~v~~l~ 807 (812)
..++.|.+|||. .+..+..|.++||++.+++.-|+
T Consensus 3 ~~v~~L~~mGf~-~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 3 EKLEQLLEMGFS-REEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHcCCC-HHHHHHHHHHhCCCHHHHHHHHh
Confidence 468899999998 89999999999999999976654
No 45
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes , such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=95.08 E-value=0.054 Score=49.80 Aligned_cols=44 Identities=30% Similarity=0.548 Sum_probs=38.2
Q ss_pred cHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHh
Q 003535 31 DIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQ 77 (812)
Q Consensus 31 ~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q 77 (812)
.+-.|-.-|++.|+-. ++.|.|.|-+||+|.|-||+|+-..++|
T Consensus 29 ~~kdLl~lmr~~f~~~---dIaLNYrD~EGDLIRllddeDv~LMV~~ 72 (92)
T cd06399 29 LLKDLLELTRREFQRE---DIALNYRDAEGDLIRLLSDEDVALMVRQ 72 (92)
T ss_pred cHHHHHHHHHHHhchh---heeeeeecCCCCEEEEcchhhHHHHHHH
Confidence 5678888999999854 8999999999999999999999875554
No 46
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=94.83 E-value=0.098 Score=58.46 Aligned_cols=80 Identities=26% Similarity=0.428 Sum_probs=62.8
Q ss_pred ceEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH---HHhc-C
Q 003535 4 TMVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV---MRQR-L 79 (812)
Q Consensus 4 ~~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a---~~q~-l 79 (812)
.+-+|+.|++++ |-.++++ .+.+..|-.-++..-++.-.-.|++||.||+||-+|++..-+|.+| +.++ -
T Consensus 15 ~vrlka~y~g~i--~i~~~~p----~~~~e~~~~~vrd~c~~h~~q~~t~kwideegdp~tv~sqmeleea~r~~~~~~d 88 (593)
T KOG0695|consen 15 RVRLKAHYGGDI--FITSVDP----ATTFEELCEEVRDMCRLHQQQPLTLKWIDEEGDPCTVSSQMELEEAFRLARQCRD 88 (593)
T ss_pred cEEEEEeecCcE--EEEeccC----cccHHHHHHHHHHHHHHhhcCCceeEeecCCCCcceechhhhHHHHHHHHHhccc
Confidence 588999999998 4445443 5678888778888888888889999999999999999999999887 3333 2
Q ss_pred ceEEEEEEec
Q 003535 80 KFLRIDVHLN 89 (812)
Q Consensus 80 ~~LritV~l~ 89 (812)
.-|-|-|+.-
T Consensus 89 ~el~ihvf~~ 98 (593)
T KOG0695|consen 89 EELIIHVFPS 98 (593)
T ss_pred cceEEEEccC
Confidence 4477777653
No 47
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=94.70 E-value=0.05 Score=41.13 Aligned_cols=34 Identities=29% Similarity=0.497 Sum_probs=29.5
Q ss_pred HHHHHHHHcCCCchHHhHHHHHhcCCchhhHHHHh
Q 003535 772 PILEELQEMGFHDEETNKRLLKKNNGSIKGVVMDL 806 (812)
Q Consensus 772 pll~El~EmGf~d~~~n~~~~~k~~g~~~~~v~~l 806 (812)
-.++.|.+|||... ..+..|.++||++.+++.=|
T Consensus 3 ~~v~~L~~mGf~~~-~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 3 EKIDQLLEMGFSRE-EALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHcCCCHH-HHHHHHHHhCCCHHHHHHHH
Confidence 46889999999887 88999999999999997655
No 48
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=94.02 E-value=0.19 Score=44.04 Aligned_cols=68 Identities=15% Similarity=0.264 Sum_probs=46.8
Q ss_pred CCcccCCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCCCCceEE
Q 003535 487 DGTMMAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPELPGRYI 562 (812)
Q Consensus 487 DGT~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~~pG~Y~ 562 (812)
.-..+.+|+.++-+|+|+|.|.... .++.+.+..++... .. ..| ..++||++..+++.+.++ .+|.|.
T Consensus 11 ~~~~~~~g~~~~i~~~V~N~G~~~~-~~~~v~~~~~~~~~--~~--~~i--~~L~~g~~~~v~~~~~~~-~~G~~~ 78 (101)
T PF07705_consen 11 SPSNVVPGEPVTITVTVKNNGTADA-ENVTVRLYLDGNSV--ST--VTI--PSLAPGESETVTFTWTPP-SPGSYT 78 (101)
T ss_dssp C-SEEETTSEEEEEEEEEE-SSS-B-EEEEEEEEETTEEE--EE--EEE--SEB-TTEEEEEEEEEE-S-S-CEEE
T ss_pred CCCcccCCCEEEEEEEEEECCCCCC-CCEEEEEEECCcee--cc--EEE--CCcCCCcEEEEEEEEEeC-CCCeEE
Confidence 4567888999999999999999985 56777655443322 11 223 368999999999999988 889887
No 49
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=93.33 E-value=0.14 Score=58.58 Aligned_cols=79 Identities=30% Similarity=0.391 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccc-------cchHH------HHHHHHcCCCchHHhHHHH
Q 003535 726 AVEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVS-------EWDPI------LEELQEMGFHDEETNKRLL 792 (812)
Q Consensus 726 ~~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~-------ewdpl------l~El~EmGf~d~~~n~~~~ 792 (812)
.|--.+|.-|.+|||. +.+=.++|++|++|+.++||+|-.-+ -|-|- |.+|.-|||..-. -+-+|
T Consensus 373 wvn~rs~~rL~~mGye-r~la~eaL~r~~Ndi~~aldllq~esdel~~n~~~~p~~vd~~~la~Lv~mGF~e~~-A~~AL 450 (568)
T KOG2561|consen 373 WVNPRSLERLVSMGYE-RELAAEALRRNENDIQKALDLLQDESDELESNKPKRPEQVDGISLAELVSMGFEEGK-ARSAL 450 (568)
T ss_pred ccCHHHHHHHHhcchH-hHHHHHHHHhccCcHHHHHHhcCCcchhhhccCCCCCcccchhhHHHHHHhccccch-HHHHH
Confidence 3444567789999996 67889999999999999999886544 47664 9999999997543 35566
Q ss_pred HhcCCchhhHHHHh
Q 003535 793 KKNNGSIKGVVMDL 806 (812)
Q Consensus 793 ~k~~g~~~~~v~~l 806 (812)
+-.+++..-+..-|
T Consensus 451 e~~gnn~~~a~~~L 464 (568)
T KOG2561|consen 451 EAGGNNEDTAQRLL 464 (568)
T ss_pred HhcCCcHHHHHHHH
Confidence 65666655554443
No 50
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=92.67 E-value=1.1 Score=40.28 Aligned_cols=85 Identities=14% Similarity=0.238 Sum_probs=57.5
Q ss_pred ccCCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCCCCceEEEEEEEEC
Q 003535 490 MMAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPELPGRYISYWRMSS 569 (812)
Q Consensus 490 ~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~~pG~Y~SyWRL~t 569 (812)
.+..|+.-.++=+|+|.|... +++.+......... ..+......++||+++++.|.|.++...|.|...-.+.+
T Consensus 15 ~v~~g~~~~~~v~l~N~s~~p----~~f~v~~~~~~~~~--~~v~~~~g~l~PG~~~~~~V~~~~~~~~g~~~~~l~i~~ 88 (102)
T PF14874_consen 15 NVFVGQTYSRTVTLTNTSSIP----ARFRVRQPESLSSF--FSVEPPSGFLAPGESVELEVTFSPTKPLGDYEGSLVITT 88 (102)
T ss_pred EEccCCEEEEEEEEEECCCCC----EEEEEEeCCcCCCC--EEEECCCCEECCCCEEEEEEEEEeCCCCceEEEEEEEEE
Confidence 456889999999999999874 34433332222211 122333346899999999999998899999999888877
Q ss_pred CCCCccCCeEEE
Q 003535 570 PSGVKFGQRVWV 581 (812)
Q Consensus 570 pdG~~FG~rLWv 581 (812)
..| .|-=+|++
T Consensus 89 e~~-~~~i~v~a 99 (102)
T PF14874_consen 89 EGG-SFEIPVKA 99 (102)
T ss_pred CCe-EEEEEEEE
Confidence 433 44333333
No 51
>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=92.08 E-value=0.36 Score=44.10 Aligned_cols=43 Identities=26% Similarity=0.415 Sum_probs=34.7
Q ss_pred ccccHHHHHHHHHHHhCCCCCCceE-EEEecCCCCeEEEcCchhHHH
Q 003535 28 LDLDIDGLRAKIKSLFNFPHDSDLT-LTYVDEDGDIVTLVDDDDLCD 73 (812)
Q Consensus 28 ~dl~~~~L~~ki~~~F~l~~d~~~~-i~Y~DeDGD~VTL~Dd~DL~~ 73 (812)
..|+|..+.+-|.+++- ++..+ +-|-|||||-||.-+|++|..
T Consensus 21 ~~L~F~DvL~~I~~vlp---~aT~tAFeYEDE~gDRITVRSDeEm~A 64 (91)
T cd06395 21 PQLLFRDVLDVIGQVLP---EATTTAFEYEDEDGDRITVRSDEEMKA 64 (91)
T ss_pred ccccHHHHHHHHHHhcc---cccccceeeccccCCeeEecchHHHHH
Confidence 35799999999999873 23333 489999999999999999873
No 52
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=90.85 E-value=0.14 Score=37.68 Aligned_cols=28 Identities=43% Similarity=0.920 Sum_probs=13.4
Q ss_pred ecCCCCCCCccc-ceeecCCCCCCchhhhhh
Q 003535 381 RCDGCGVHPITG-PRFKSKVKDDYDLCSICF 410 (812)
Q Consensus 381 ~CDgC~~~PI~G-~RYKCsvC~DyDLCe~C~ 410 (812)
.|+.|+ .++.| ..|.|..| ||+|...|.
T Consensus 2 ~C~~C~-~~~~~~~~Y~C~~C-df~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACG-KPIDGGWFYRCSEC-DFDLHEECA 30 (30)
T ss_dssp --TTTS-----S--EEE-TTT------HHHH
T ss_pred cCCcCC-CcCCCCceEECccC-CCccChhcC
Confidence 699999 57777 99999999 799988883
No 53
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=90.68 E-value=1.1 Score=40.71 Aligned_cols=49 Identities=18% Similarity=0.254 Sum_probs=41.5
Q ss_pred cccHHHHHHHHHHHhCCCCCCceEEEEecCCCC--eEEEcCchhHHHHHHhc
Q 003535 29 DLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGD--IVTLVDDDDLCDVMRQR 78 (812)
Q Consensus 29 dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD--~VTL~Dd~DL~~a~~q~ 78 (812)
-+++..|+.||.+.|.+.++. .+|.|++++.+ +|-|.-++++.+|-.+-
T Consensus 16 g~~y~~L~~~ls~kL~l~~~~-~~LSY~~~~~~~~~v~l~~e~~me~aW~~v 66 (78)
T cd06411 16 GADVSSLRALLSQALPQQAQR-GQLSYRAPGEDGHWVPISGEESLQRAWQDV 66 (78)
T ss_pred CCCHHHHHHHHHHHhcCChhh-cEEEecCCCCCccEeecCcchHHHHHHHhc
Confidence 568999999999999999764 99999998885 77777799999885554
No 54
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=89.59 E-value=0.34 Score=56.16 Aligned_cols=41 Identities=37% Similarity=0.614 Sum_probs=38.5
Q ss_pred ccchHHHHHHHHcCCCchHHhHHHHHhcCCchhhHHHHhhh
Q 003535 768 SEWDPILEELQEMGFHDEETNKRLLKKNNGSIKGVVMDLLT 808 (812)
Q Consensus 768 ~ewdpll~El~EmGf~d~~~n~~~~~k~~g~~~~~v~~l~~ 808 (812)
.+|..=||-|++|||.|.|.|-+.|..-+|+|.++|.-|+.
T Consensus 452 ~r~q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 452 ERYQTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 47999999999999999999999999999999999998874
No 55
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=88.74 E-value=2 Score=48.93 Aligned_cols=86 Identities=15% Similarity=0.231 Sum_probs=54.7
Q ss_pred CCCCcEEEEEE-EEcCCCCCCCCCcEEEEecCCCCCC------CCcee--eecCCCCCCCCCEEEEEEEEecCCCCceEE
Q 003535 492 APSTPFTKIWR-MRNTGNLAWPRGSQLVWIGGDKFSD------GVSVE--IEVPADGVPVEGEIDIAVDFTAPELPGRYI 562 (812)
Q Consensus 492 ~Pgt~FtKtWr-LrN~Gt~~WP~Gt~LvfvgGd~m~~------~dsv~--l~IPv~~V~PGEevdVSV~L~AP~~pG~Y~ 562 (812)
.||+.-.|.=. |.|+|++. .+..|...+.... ..... +.--...+.|||+..|.|.|+ |..+|.|.
T Consensus 244 ~p~e~~~~~v~~l~N~Gt~~----I~y~W~~~~~~~~~~~~~~~~~~~F~Fd~~~gvilPGe~~~~~~~F~-s~~~Gif~ 318 (426)
T PF14646_consen 244 HPGERVSKEVVRLENNGTTA----IYYSWRRVPFFKNFGSLFRAQDQRFYFDTSSGVILPGETRNFPFMFK-SRKVGIFK 318 (426)
T ss_pred ccCceeeEEEEEEecCCceE----EEEEEEecccccccchhccccCCeEEEeCCCCEECCCceEEEEEEEe-CCCceEEE
Confidence 57777777777 99999975 2233333222110 00011 111223578999999999999 79999999
Q ss_pred EEEEEECCCCCccC-CeEEEEE
Q 003535 563 SYWRMSSPSGVKFG-QRVWVLI 583 (812)
Q Consensus 563 SyWRL~tpdG~~FG-~rLWv~I 583 (812)
..|+|.+ .=..|| ..|-+.+
T Consensus 319 E~W~L~t-~P~l~~~~~l~v~L 339 (426)
T PF14646_consen 319 ERWELRT-FPPLFGGASLTVRL 339 (426)
T ss_pred EEEEEEE-eccccCCCceEEEE
Confidence 9999998 334455 4444433
No 56
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=88.21 E-value=3.3 Score=36.10 Aligned_cols=72 Identities=19% Similarity=0.333 Sum_probs=42.0
Q ss_pred cCCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCC-CCCceeeecCCCCCCCCCEEEEEEEEecCC--CCceEEEEEEE
Q 003535 491 MAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFS-DGVSVEIEVPADGVPVEGEIDIAVDFTAPE--LPGRYISYWRM 567 (812)
Q Consensus 491 V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~-~~dsv~l~IPv~~V~PGEevdVSV~L~AP~--~pG~Y~SyWRL 567 (812)
+.||+.++-+=.|+|.|.... .+..|..-.-+-.. .... -.++ .|+||+++.+++.++.|. .+|.|.--.++
T Consensus 1 v~~G~~~~~~~tv~N~g~~~~-~~v~~~l~~P~GW~~~~~~--~~~~--~l~pG~s~~~~~~V~vp~~a~~G~y~v~~~a 75 (78)
T PF10633_consen 1 VTPGETVTVTLTVTNTGTAPL-TNVSLSLSLPEGWTVSASP--ASVP--SLPPGESVTVTFTVTVPADAAPGTYTVTVTA 75 (78)
T ss_dssp --TTEEEEEEEEEE--SSS-B-SS-EEEEE--TTSE---EE--EEE----B-TTSEEEEEEEEEE-TT--SEEEEEEEEE
T ss_pred CCCCCEEEEEEEEEECCCCce-eeEEEEEeCCCCccccCCc--cccc--cCCCCCEEEEEEEEECCCCCCCceEEEEEEE
Confidence 468999999999999998876 56666555422222 1111 2333 689999999999999996 48998765544
No 57
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=86.96 E-value=0.66 Score=53.89 Aligned_cols=37 Identities=35% Similarity=0.553 Sum_probs=34.6
Q ss_pred HHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhc
Q 003535 730 TLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCG 766 (812)
Q Consensus 730 ~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~ 766 (812)
..|+.|.+|||.+++.|.+.|+.-++||.++|+-|.+
T Consensus 456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 5599999999999999999999999999999998864
No 58
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=86.49 E-value=1.2 Score=34.95 Aligned_cols=36 Identities=25% Similarity=0.500 Sum_probs=31.5
Q ss_pred HHHHHHHHcCCcc--hhhhHHHHHhccCChhhHHHHhhc
Q 003535 730 TLLRELEEMGFKQ--VDLNKEILRMNEYDLEQSVDDLCG 766 (812)
Q Consensus 730 ~~l~el~~mGF~~--~d~n~~~l~~n~~~~~~~v~~l~~ 766 (812)
.+++.|.+| |=+ ...-+..|+.++||++++++.|+.
T Consensus 4 ~~v~~L~~m-FP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 4 EALHDLKDM-FPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHH-CCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 457899999 988 667889999999999999999874
No 59
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=84.89 E-value=1.7 Score=34.21 Aligned_cols=36 Identities=28% Similarity=0.541 Sum_probs=30.2
Q ss_pred HHHHHHHHcCCcc--hhhhHHHHHhccCChhhHHHHhhc
Q 003535 730 TLLRELEEMGFKQ--VDLNKEILRMNEYDLEQSVDDLCG 766 (812)
Q Consensus 730 ~~l~el~~mGF~~--~d~n~~~l~~n~~~~~~~v~~l~~ 766 (812)
.+++.|.+| |=+ .+.-+.+|++|++|++++++.|..
T Consensus 3 ~~v~~L~~m-FP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 3 EMVQQLQEM-FPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHH-SSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHH-CCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 457888888 544 778899999999999999998863
No 60
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []. The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
Probab=84.82 E-value=0.28 Score=50.92 Aligned_cols=62 Identities=19% Similarity=0.376 Sum_probs=0.0
Q ss_pred eEEEEEeCCc--eeeeeeccCCCCCccccHHHHHHHHHHHh---CCC----------------CCCceEEEEecCCCCeE
Q 003535 5 MVIKVKYGDT--LRRFNARVDENEKLDLDIDGLRAKIKSLF---NFP----------------HDSDLTLTYVDEDGDIV 63 (812)
Q Consensus 5 ~iiKvk~gd~--lRRf~i~~~~n~~~dl~~~~L~~ki~~~F---~l~----------------~d~~~~i~Y~DeDGD~V 63 (812)
.-+||+-.|. .|++.+..-. .|..|...+.+.| .+. ...+++|+|.|.|||+.
T Consensus 110 ~~vKV~mdG~~igRkVDL~~~~------sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~m 183 (215)
T PF02309_consen 110 SYVKVNMDGVPIGRKVDLSAYS------SYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWM 183 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ceeEEEecCcccceecCHHHhh------CHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEE
Confidence 5689988884 7877776432 5667777888888 443 34588999999999997
Q ss_pred EEcCch--hHH
Q 003535 64 TLVDDD--DLC 72 (812)
Q Consensus 64 TL~Dd~--DL~ 72 (812)
..-|+- +|.
T Consensus 184 lvGD~PW~~F~ 194 (215)
T PF02309_consen 184 LVGDVPWEEFV 194 (215)
T ss_dssp -----------
T ss_pred EecCCCHHHHH
Confidence 777665 554
No 61
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=84.77 E-value=1.9 Score=50.50 Aligned_cols=77 Identities=25% Similarity=0.283 Sum_probs=58.5
Q ss_pred HHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhcccc--------------------c-hHHHHHHHHcCCCchHH
Q 003535 729 QTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSE--------------------W-DPILEELQEMGFHDEET 787 (812)
Q Consensus 729 e~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~e--------------------w-dpll~El~EmGf~d~~~ 787 (812)
+.+.+.|.+|||.+.+--+.|+.--|-|-+-+..=|..--| = ..=+.-|-||||.-...
T Consensus 559 qs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~~~~vPKkDkeVdE~~~~Slle~Gln~n~~ 638 (749)
T COG5207 559 QSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDPFVPPPNVPKKDKEVDESKARSLLENGLNPNLC 638 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCCCCCCCCCCcccccccHHHHHHHHHcCCCHHHH
Confidence 57889999999999999999998888888877765543211 0 12345688999999888
Q ss_pred hHHHHHhcCCchhhHHHHh
Q 003535 788 NKRLLKKNNGSIKGVVMDL 806 (812)
Q Consensus 788 n~~~~~k~~g~~~~~v~~l 806 (812)
-|-||. +||.++|.|.=.
T Consensus 639 Rkal~~-~n~d~~r~V~w~ 656 (749)
T COG5207 639 RKALMD-MNTDSKRRVVWC 656 (749)
T ss_pred HHHHHH-ccCCchheEEEE
Confidence 777777 888899987533
No 62
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=84.67 E-value=1.7 Score=34.22 Aligned_cols=38 Identities=34% Similarity=0.594 Sum_probs=31.7
Q ss_pred hHHHHHHHHcCCC--chHHhHHHHHhcCCchhhHHHHhhhc
Q 003535 771 DPILEELQEMGFH--DEETNKRLLKKNNGSIKGVVMDLLTG 809 (812)
Q Consensus 771 dpll~El~EmGf~--d~~~n~~~~~k~~g~~~~~v~~l~~~ 809 (812)
+..++.|+|| |- +.+.=+.+|++|+|++.+++..||.+
T Consensus 2 ~~~v~~L~~m-FP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEM-FPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHH-SSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHH-CCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4568899999 74 56777899999999999999999864
No 63
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=81.55 E-value=3.3 Score=48.05 Aligned_cols=77 Identities=32% Similarity=0.536 Sum_probs=59.8
Q ss_pred HHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhcc-----------------------------ccc-hH-HHHHHHHc
Q 003535 732 LRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGV-----------------------------SEW-DP-ILEELQEM 780 (812)
Q Consensus 732 l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~-----------------------------~ew-dp-ll~El~Em 780 (812)
|..|.+|||--.|- +..||-+++++.++|+.|..- -+| +| -|+-|.+|
T Consensus 307 lsllv~mGfeesda-RlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~m 385 (568)
T KOG2561|consen 307 LSLLVGMGFEESDA-RLALRSCNGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWVNPRSLERLVSM 385 (568)
T ss_pred HHHHHHcCCCchHH-HHHHHhccccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhc
Confidence 78899999998774 789999999999999988643 244 33 57789999
Q ss_pred CCCchHHhHHHHHhcCCchhhHHHHhhhccC
Q 003535 781 GFHDEETNKRLLKKNNGSIKGVVMDLLTGEK 811 (812)
Q Consensus 781 Gf~d~~~n~~~~~k~~g~~~~~v~~l~~~ek 811 (812)
||.-.. --+.|..|+..|-+++ ||++.|+
T Consensus 386 Gyer~l-a~eaL~r~~Ndi~~al-dllq~es 414 (568)
T KOG2561|consen 386 GYEREL-AAEALRRNENDIQKAL-DLLQDES 414 (568)
T ss_pred chHhHH-HHHHHHhccCcHHHHH-HhcCCcc
Confidence 987554 4566666888898887 4566665
No 64
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=80.76 E-value=0.99 Score=33.44 Aligned_cols=27 Identities=26% Similarity=0.486 Sum_probs=23.2
Q ss_pred ecCCCCCCCcccc-eeecCCCCCCchhhhh
Q 003535 381 RCDGCGVHPITGP-RFKSKVKDDYDLCSIC 409 (812)
Q Consensus 381 ~CDgC~~~PI~G~-RYKCsvC~DyDLCe~C 409 (812)
.|+.|+ ..+.|. .|+|..|. |++...|
T Consensus 2 ~C~~C~-~~~~~~~~Y~C~~c~-f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCR-RKIDGFYFYHCSECC-FTLHVRC 29 (30)
T ss_pred CCCCCC-CCcCCCEeEEeCCCC-CeEcCcc
Confidence 699998 578999 99999997 8887666
No 65
>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=79.54 E-value=3 Score=37.54 Aligned_cols=50 Identities=24% Similarity=0.471 Sum_probs=31.1
Q ss_pred CCcceEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecC
Q 003535 1 MESTMVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDE 58 (812)
Q Consensus 1 m~~~~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~De 58 (812)
|+++++|.|+=-|-+.|+.+.-. =++..|.+||++.|+++.+ .+.| |.|.
T Consensus 1 ~~~~milRvrS~dG~~Rie~~~~------~t~~~L~~kI~~~l~~~~~-~~~L-~~~~ 50 (80)
T PF11543_consen 1 MASSMILRVRSKDGMKRIEVSPS------STLSDLKEKISEQLSIPDS-SQSL-SKDR 50 (80)
T ss_dssp -----EEEEE-SSEEEEEEE-TT------SBHHHHHHHHHHHS---TT-T----BSSG
T ss_pred CCccEEEEEECCCCCEEEEcCCc------ccHHHHHHHHHHHcCCCCc-ceEE-EecC
Confidence 88999999999999999999843 3799999999999999955 6655 5554
No 66
>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=77.37 E-value=5 Score=33.75 Aligned_cols=57 Identities=14% Similarity=0.202 Sum_probs=40.1
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHH
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCD 73 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~ 73 (812)
+.|+|++++.. +.+.+.. +.+...|+++|++.+++++ ....|.|.. .. |.|+.-|.+
T Consensus 1 i~i~vk~~g~~--~~i~v~~----~~tv~~lK~~i~~~~gi~~-~~q~L~~~g---~~--l~d~~~L~~ 57 (71)
T cd01812 1 IRVRVKHGGES--HDLSISS----QATFGDLKKMLAPVTGVEP-RDQKLIFKG---KE--RDDAETLDM 57 (71)
T ss_pred CEEEEEECCEE--EEEEECC----CCcHHHHHHHHHHhhCCCh-HHeEEeeCC---cc--cCccCcHHH
Confidence 46889998555 5555543 5688999999999999986 467777863 32 455555554
No 67
>KOG1778 consensus CREB binding protein/P300 and related TAZ Zn-finger proteins [Transcription]
Probab=77.10 E-value=1.1 Score=49.75 Aligned_cols=44 Identities=20% Similarity=0.385 Sum_probs=36.1
Q ss_pred ceecCCCCCCCcccceeecCCCCCCchhhhhhhcCCCCCceEEecC
Q 003535 379 GVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAMGSEADYIRIDR 424 (812)
Q Consensus 379 GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~~~~H~f~ri~~ 424 (812)
...|..|.. .. ..+|.|.+|++||.|..|+....+.|.|..+..
T Consensus 169 ~~~c~~c~~-~~-~~~~~c~~~~d~d~~~~~~~k~~h~h~~~~~~~ 212 (319)
T KOG1778|consen 169 AYTCPICKL-EV-LTAWHCEVCPDYDRCRACEEKPLHPHLYEAMES 212 (319)
T ss_pred eeecCcccc-cc-ccccccccCCchhhhhcccCCCCCCcchhcccc
Confidence 368999985 34 889999999999999999998777777766543
No 68
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=74.29 E-value=5.9 Score=31.14 Aligned_cols=38 Identities=42% Similarity=0.743 Sum_probs=31.9
Q ss_pred hHHHHHHHHcCCC--chHHhHHHHHhcCCchhhHHHHhhhc
Q 003535 771 DPILEELQEMGFH--DEETNKRLLKKNNGSIKGVVMDLLTG 809 (812)
Q Consensus 771 dpll~El~EmGf~--d~~~n~~~~~k~~g~~~~~v~~l~~~ 809 (812)
+..++.|+|| |= +.+.=++.|.+++|++.+++..||.+
T Consensus 3 ~~~v~~L~~m-FP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDM-FPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHH-CCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 3467899999 85 46777899999999999999999865
No 69
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=69.90 E-value=5.2 Score=34.26 Aligned_cols=46 Identities=35% Similarity=0.486 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccccchHHHHHH
Q 003535 727 VEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEEL 777 (812)
Q Consensus 727 ~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El 777 (812)
+...+..+++.|||. +|.--|+||+-++.=-..++-.. =|-|||||
T Consensus 8 i~~~lVd~F~~mGF~-~dkVvevlrrlgik~~n~~dn~t----~~~ilEEL 53 (55)
T PF09288_consen 8 IDKDLVDQFENMGFE-RDKVVEVLRRLGIKSMNGVDNET----ENKILEEL 53 (55)
T ss_dssp -SHHHHHHHHHHT---HHHHHHHHHHS--SS--SS--HH----HHHHHHHH
T ss_pred CCHHHHHHHHHcCCc-HHHHHHHHHHhCCCCCCCccchh----HHHHHHHH
Confidence 445678899999995 56667788877664322222211 35667776
No 70
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=68.44 E-value=18 Score=33.20 Aligned_cols=58 Identities=22% Similarity=0.269 Sum_probs=44.2
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
+||+=.+.-+|+-|-.+ ++..|+.|.+..|+|+......-=|.+||| |..||+|....
T Consensus 5 fkV~~~~r~~k~GV~A~-------sL~eL~~K~~~~l~l~~~~~~~~lvL~eDG---T~VddEeyF~t 62 (80)
T cd06536 5 CVVCNVSRQKQHGVAAS-------SLEELRIKACESLGFDSSSAPITLVLAEDG---TIVEDEDYFLC 62 (80)
T ss_pred eEEecCCCCeeEeEEcC-------CHHHHHHHHHHHhCCCCCCCceEEEEecCC---cEEccHHHHhh
Confidence 68888888888888855 789999999999999854333334788899 56677777654
No 71
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=65.92 E-value=25 Score=31.42 Aligned_cols=40 Identities=30% Similarity=0.556 Sum_probs=30.9
Q ss_pred cccHHHHHHHHHHHhCCCCCCceEEEEe-cCCCCeEEEcCch
Q 003535 29 DLDIDGLRAKIKSLFNFPHDSDLTLTYV-DEDGDIVTLVDDD 69 (812)
Q Consensus 29 dl~~~~L~~ki~~~F~l~~d~~~~i~Y~-DeDGD~VTL~Dd~ 69 (812)
++....|+.||..+|++++ ....|.|. |++|..+...+++
T Consensus 23 ~~Tv~eLK~kl~~~~Gi~~-~~m~L~l~~~~~~~~~~~~~dd 63 (87)
T PF14560_consen 23 SITVSELKQKLEKLTGIPP-SDMRLQLKSDKDDSKIEELDDD 63 (87)
T ss_dssp TSBHHHHHHHHHHHHTS-T-TTEEEEEE-TSSSSEEEESSGS
T ss_pred CCCHHHHHHHHHHHhCCCc-ccEEEEEEecCCCccccccCCC
Confidence 5689999999999999997 47777777 7777777665554
No 72
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=63.92 E-value=16 Score=30.91 Aligned_cols=71 Identities=24% Similarity=0.369 Sum_probs=47.3
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRI 84 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lri 84 (812)
++||...| |.|.+.+.. +.+...|+++|++.+++++ ....|.|. |. .|.|+..|.+.=.+....|.+
T Consensus 3 i~v~~~~g---~~~~~~v~~----~~tV~~lK~~i~~~~g~~~-~~q~L~~~---g~--~L~d~~~L~~~~i~~~~~i~l 69 (76)
T cd01803 3 IFVKTLTG---KTITLEVEP----SDTIENVKAKIQDKEGIPP-DQQRLIFA---GK--QLEDGRTLSDYNIQKESTLHL 69 (76)
T ss_pred EEEEcCCC---CEEEEEECC----cCcHHHHHHHHHHHhCCCH-HHeEEEEC---CE--ECCCCCcHHHcCCCCCCEEEE
Confidence 45555444 445566653 5688999999999999986 46778884 43 367777777643444555666
Q ss_pred EEEe
Q 003535 85 DVHL 88 (812)
Q Consensus 85 tV~l 88 (812)
.+.+
T Consensus 70 ~~~~ 73 (76)
T cd01803 70 VLRL 73 (76)
T ss_pred EEEc
Confidence 6643
No 73
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=63.16 E-value=17 Score=29.30 Aligned_cols=56 Identities=29% Similarity=0.376 Sum_probs=40.1
Q ss_pred EEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHH
Q 003535 6 VIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCD 73 (812)
Q Consensus 6 iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~ 73 (812)
-|.|+..+ +.+.+.+.. +.+...|+++|++.++++++ .+.|.|.. - .|.|+.-|.+
T Consensus 2 ~i~vk~~~--~~~~~~v~~----~~tv~~lk~~i~~~~~~~~~-~~~L~~~g---~--~L~d~~tL~~ 57 (64)
T smart00213 2 ELTVKTLD--GTITLEVKP----SDTVSELKEKIAELTGIPVE-QQRLIYKG---K--VLEDDRTLAD 57 (64)
T ss_pred EEEEEECC--ceEEEEECC----CCcHHHHHHHHHHHHCCCHH-HEEEEECC---E--ECCCCCCHHH
Confidence 46677777 566666654 55899999999999999864 68888863 2 3666655554
No 74
>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=60.98 E-value=9.3 Score=43.59 Aligned_cols=39 Identities=26% Similarity=0.348 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhc
Q 003535 726 AVEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCG 766 (812)
Q Consensus 726 ~~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~ 766 (812)
.+| .+.++|++||| .++.=.+.||-.-+|-+|+|+=|+.
T Consensus 155 ~~e-~~I~~i~eMGf-~R~qV~~ALRAafNNPdRAVEYL~t 193 (378)
T TIGR00601 155 ERE-TTIEEIMEMGY-EREEVERALRAAFNNPDRAVEYLLT 193 (378)
T ss_pred HHH-HHHHHHHHhCC-CHHHHHHHHHHHhCCHHHHHHHHHh
Confidence 556 45899999999 8899999999999999999998874
No 75
>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=60.00 E-value=42 Score=30.13 Aligned_cols=61 Identities=26% Similarity=0.382 Sum_probs=40.1
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEE-EcCchhHH
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVT-LVDDDDLC 72 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VT-L~Dd~DL~ 72 (812)
+.|++.. +.|.+...+. .+++...|++|+.++|++++. ...|.|.|.+|..|. |+||+..+
T Consensus 4 v~i~~~~--~~~~~ekr~~----~~~Tv~~lK~kl~~~~G~~~~-~mrL~l~~~~~~~~~~l~~d~~~L 65 (84)
T cd01789 4 VNITSSA--DSFSFEKKYS----RGLTIAELKKKLELVVGTPAS-SMRLQLFDGDDKLVSKLDDDDALL 65 (84)
T ss_pred EEEEeCC--CceeeeEecC----CCCcHHHHHHHHHHHHCCCcc-ceEEEEEcCCCCeEeecCCCccEe
Confidence 5566655 3555544433 367999999999999999975 566765555565544 65555433
No 76
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=57.67 E-value=28 Score=31.72 Aligned_cols=55 Identities=25% Similarity=0.407 Sum_probs=42.6
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHH
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCD 73 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~ 73 (812)
+||+=-+.-+|+-|-.. ++..|+.|.+..|+++. ..+.| +.+||| |+.||+|...
T Consensus 5 ~kv~~~~r~~k~Gv~A~-------sL~eL~~K~~~~l~~~~-~~~~l-vL~eDG---T~VddEeyF~ 59 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAAS-------SLEELLEKACDKLQLPE-EPVRL-VLEEDG---TEVDDEEYFQ 59 (78)
T ss_dssp EEEEETTSSCEEEEEES-------SHHHHHHHHHHHHT-SS-STCEE-EETTTT---CBESSCHHHC
T ss_pred EEEecCCCCceEeEEcC-------CHHHHHHHHHHHhCCCC-cCcEE-EEeCCC---cEEccHHHHh
Confidence 68888888888888855 78999999999999996 56666 778999 4557777663
No 77
>COG1470 Predicted membrane protein [Function unknown]
Probab=50.36 E-value=1.2e+02 Score=36.00 Aligned_cols=102 Identities=17% Similarity=0.154 Sum_probs=70.3
Q ss_pred CcceEEeeeeccCCC---cccCCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceee-ecCCCCCCCCCEEEEE
Q 003535 474 RLDSCFILDVNVLDG---TMMAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEI-EVPADGVPVEGEIDIA 549 (812)
Q Consensus 474 ~L~A~FV~DVTIpDG---T~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l-~IPv~~V~PGEevdVS 549 (812)
+...++..+++++.| ..+.||+.-+--=.+-|.|+.+- .+..|..-+ +++= ..++ +-.++.+.|||...|.
T Consensus 373 ~~~g~~~~~v~l~~g~~~lt~taGee~~i~i~I~NsGna~L-tdIkl~v~~--PqgW--ei~Vd~~~I~sL~pge~~tV~ 447 (513)
T COG1470 373 KNTGSYNELVKLDNGPYRLTITAGEEKTIRISIENSGNAPL-TDIKLTVNG--PQGW--EIEVDESTIPSLEPGESKTVS 447 (513)
T ss_pred EeccccceeEEccCCcEEEEecCCccceEEEEEEecCCCcc-ceeeEEecC--Cccc--eEEECcccccccCCCCcceEE
Confidence 445566667777664 67899999999999999999887 667665443 2321 1111 1123479999999999
Q ss_pred EEEecCC--CCceEEEEEEEECCCCCccCCeEEE
Q 003535 550 VDFTAPE--LPGRYISYWRMSSPSGVKFGQRVWV 581 (812)
Q Consensus 550 V~L~AP~--~pG~Y~SyWRL~tpdG~~FG~rLWv 581 (812)
+++++|+ .+|.|.-..+-.+ |-.---++|-|
T Consensus 448 ltI~vP~~a~aGdY~i~i~~ks-Dq~s~e~tlrV 480 (513)
T COG1470 448 LTITVPEDAGAGDYRITITAKS-DQASSEDTLRV 480 (513)
T ss_pred EEEEcCCCCCCCcEEEEEEEee-ccccccceEEE
Confidence 9999996 6778988888876 33334455543
No 78
>PRK10301 hypothetical protein; Provisional
Probab=49.65 E-value=56 Score=31.72 Aligned_cols=35 Identities=23% Similarity=0.379 Sum_probs=27.5
Q ss_pred EEEEEEEEecCCCCceEEEEEEEECCCCCccCCeE
Q 003535 545 EIDIAVDFTAPELPGRYISYWRMSSPSGVKFGQRV 579 (812)
Q Consensus 545 evdVSV~L~AP~~pG~Y~SyWRL~tpdG~~FG~rL 579 (812)
.-.++|.+..+-.+|.|+-.||....||-.-.-.+
T Consensus 85 ~~~~~v~l~~~L~~G~YtV~Wrvvs~DGH~~~G~~ 119 (124)
T PRK10301 85 QKQLIVPLADSLKPGTYTVDWHVVSVDGHKTKGHY 119 (124)
T ss_pred CcEEEEECCCCCCCccEEEEEEEEecCCCccCCeE
Confidence 34567777778899999999999999997654433
No 79
>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=48.82 E-value=51 Score=28.38 Aligned_cols=60 Identities=20% Similarity=0.268 Sum_probs=48.7
Q ss_pred CCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEE-ecCCCCeEEEcCchhHHHHHHh
Q 003535 12 GDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTY-VDEDGDIVTLVDDDDLCDVMRQ 77 (812)
Q Consensus 12 gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y-~DeDGD~VTL~Dd~DL~~a~~q 77 (812)
.|+.+.|.++-+ -.-..|-++|++-++|....-|-|.| .|.+|...-|+.+.-|.+.+..
T Consensus 5 D~~~~~~~v~~~------~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~ 65 (80)
T PF09379_consen 5 DGTTKTFEVDPK------TTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK 65 (80)
T ss_dssp SEEEEEEEEETT------SBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred CCCcEEEEEcCC------CcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence 455788888843 35788889999999999999999999 8999999999999988864333
No 80
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=48.21 E-value=45 Score=40.92 Aligned_cols=82 Identities=21% Similarity=0.348 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhc------------c---------ccc-hHHHHHHHHcCCC
Q 003535 726 AVEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCG------------V---------SEW-DPILEELQEMGFH 783 (812)
Q Consensus 726 ~~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~------------~---------~ew-dpll~El~EmGf~ 783 (812)
+..+....+|.+|||.+.+-=|-+.---|.+.|.+-.=|.- + .|= ...+.-+-+|||.
T Consensus 569 ~~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~vvp~~~~~a~~~~~~e~~v~si~smGf~ 648 (763)
T KOG0944|consen 569 AADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDPFVVPGNSPKADAREVDEESVASIVSMGFS 648 (763)
T ss_pred chhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCceecCCCCCccccCCCChhHheeeeeecCc
Confidence 45568889999999999888888887777777766432221 1 011 2355667799998
Q ss_pred chHHhHHHHHhcCCchhhHHHHhhh
Q 003535 784 DEETNKRLLKKNNGSIKGVVMDLLT 808 (812)
Q Consensus 784 d~~~n~~~~~k~~g~~~~~v~~l~~ 808 (812)
-... ++.|+-+||.|.|+|.=++.
T Consensus 649 ~~qa-~~aL~~~n~nveravDWif~ 672 (763)
T KOG0944|consen 649 RNQA-IKALKATNNNVERAVDWIFS 672 (763)
T ss_pred HHHH-HHHHHhcCccHHHHHHHHHh
Confidence 7766 45555699999999987664
No 81
>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=48.00 E-value=64 Score=26.94 Aligned_cols=67 Identities=22% Similarity=0.364 Sum_probs=42.0
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRI 84 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lri 84 (812)
+.||...|.. +.+.+.. +.....|+++|++.++++++ ...|.|. |. .|.|+.-|.+.-.+....|.+
T Consensus 3 i~vk~~~g~~---~~~~v~~----~~tv~~lK~~i~~~~gi~~~-~q~L~~~---g~--~L~d~~~L~~~~i~~~~~l~l 69 (72)
T cd01809 3 IKVKTLDSQT---HTFTVEE----EITVLDLKEKIAEEVGIPVE-QQRLIYS---GR--VLKDDETLSEYKVEDGHTIHL 69 (72)
T ss_pred EEEEeCCCCE---EEEEECC----CCcHHHHHHHHHHHHCcCHH-HeEEEEC---CE--ECCCcCcHHHCCCCCCCEEEE
Confidence 4555554433 4444432 45899999999999999765 6788884 54 466666666543333333433
No 82
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=47.95 E-value=40 Score=27.04 Aligned_cols=44 Identities=14% Similarity=0.139 Sum_probs=27.2
Q ss_pred EEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEE
Q 003535 501 WRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDF 552 (812)
Q Consensus 501 WrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L 552 (812)
++++|.|.... .+.-+.-..-. . ....+...++|||+..|.|.|
T Consensus 2 F~~~N~g~~~L----~I~~v~tsCgC---t-~~~~~~~~i~PGes~~i~v~y 45 (45)
T PF07610_consen 2 FEFTNTGDSPL----VITDVQTSCGC---T-TAEYSKKPIAPGESGKIKVTY 45 (45)
T ss_pred EEEEECCCCcE----EEEEeeEccCC---E-EeeCCcceECCCCEEEEEEEC
Confidence 57999999865 34333322111 1 123444568999999999875
No 83
>COG2967 ApaG Uncharacterized protein affecting Mg2+/Co2+ transport [Inorganic ion transport and metabolism]
Probab=47.01 E-value=84 Score=31.11 Aligned_cols=93 Identities=13% Similarity=0.129 Sum_probs=52.8
Q ss_pred EEeeeeccCCCcccCCCCcEEEEEEEEcCCCCCCCC-CcEEEEecCCCCCCCCcee---eecCCCCCCCCCEEEEEEEEe
Q 003535 478 CFILDVNVLDGTMMAPSTPFTKIWRMRNTGNLAWPR-GSQLVWIGGDKFSDGVSVE---IEVPADGVPVEGEIDIAVDFT 553 (812)
Q Consensus 478 ~FV~DVTIpDGT~V~Pgt~FtKtWrLrN~Gt~~WP~-Gt~LvfvgGd~m~~~dsv~---l~IPv~~V~PGEevdVSV~L~ 553 (812)
+|+.+.+-|+-.. -.|-=+=+|+|.|..+|-- +.+-...+|+ +.+..|. +.=--+-++||++..-+=-..
T Consensus 15 ~yleeQS~P~~~R----yvfaYtitI~N~g~~~vqLlsR~W~ITd~~--g~v~eV~G~GVVGeQP~l~PG~~y~YtSg~~ 88 (126)
T COG2967 15 RYLEEQSSPEEER----YVFAYTVTIRNLGEVPVQLLSRYWLITDGN--GRVTEVEGEGVVGEQPLLAPGEEYQYTSGCP 88 (126)
T ss_pred EEccccCCcccce----EEEEEEEEEecCCCccceeeeeEEEEecCC--CcEEEEEcCceeccccccCCCCceEEcCCcC
Confidence 4444444444322 1355566789999998831 2222233333 2222111 100012488999987654444
Q ss_pred cCCCCceEEEEEEEECCCCCccC
Q 003535 554 APELPGRYISYWRMSSPSGVKFG 576 (812)
Q Consensus 554 AP~~pG~Y~SyWRL~tpdG~~FG 576 (812)
-....|.-..++.|.+.+|..|-
T Consensus 89 l~Tp~G~M~GhY~M~~e~G~~F~ 111 (126)
T COG2967 89 LDTPSGTMQGHYEMIDEDGETFD 111 (126)
T ss_pred ccCCcceEEEEEEEecCCCcEEE
Confidence 44567899999999999998774
No 84
>cd00166 SAM Sterile alpha motif.; Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerization.
Probab=46.65 E-value=66 Score=25.84 Aligned_cols=52 Identities=29% Similarity=0.383 Sum_probs=36.4
Q ss_pred HHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccccchHHHHHHHHcCCCchHHhHHHHH
Q 003535 730 TLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEMGFHDEETNKRLLK 793 (812)
Q Consensus 730 ~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~EmGf~d~~~n~~~~~ 793 (812)
.+..-|+++|+ ..=.+.+++|+++.+ +|+..++ +.|++||+....-.++++.
T Consensus 6 ~V~~wL~~~~~---~~y~~~f~~~~i~g~----~L~~l~~-----~dL~~lgi~~~g~r~~i~~ 57 (63)
T cd00166 6 DVAEWLESLGL---GQYADNFRENGIDGD----LLLLLTE-----EDLKELGITLPGHRKKILK 57 (63)
T ss_pred HHHHHHHHcCh---HHHHHHHHHcCCCHH----HHhHCCH-----HHHHHcCCCCHHHHHHHHH
Confidence 34567888998 334567889988655 4555554 5688999988666666654
No 85
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=45.90 E-value=56 Score=30.21 Aligned_cols=51 Identities=27% Similarity=0.537 Sum_probs=38.5
Q ss_pred CCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCCCCceE---EEEEEE
Q 003535 506 TGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPELPGRY---ISYWRM 567 (812)
Q Consensus 506 ~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~~pG~Y---~SyWRL 567 (812)
++. .+|.-.++.+.+ |+.... ..+++|+++.|+.++.+-+-.|+| ..-||+
T Consensus 30 t~~-qYP~~i~f~~~~-dk~~~l---------~~~~~Gd~V~Vsf~i~~RE~~gr~fn~i~aWri 83 (84)
T PF11325_consen 30 TEE-QYPQKICFEFWG-DKIDLL---------DNFQVGDEVKVSFNIEGREWNGRWFNSIRAWRI 83 (84)
T ss_pred CCC-cCCceEEEEEEc-chhhhh---------ccCCCCCEEEEEEEeeccEecceEeeEeEEEEe
Confidence 444 589999998886 655421 246789999999999999988986 455775
No 86
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=43.47 E-value=11 Score=42.16 Aligned_cols=33 Identities=21% Similarity=0.530 Sum_probs=25.2
Q ss_pred ceecCCCCCCCcccceeecCCCCCCchhhh-hhhcCCC
Q 003535 379 GVRCDGCGVHPITGPRFKSKVKDDYDLCSI-CFAAMGS 415 (812)
Q Consensus 379 GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~-C~a~~~~ 415 (812)
-..|-.|++++ .||+|-.| |+-+|+- ||.+|.+
T Consensus 7 ~~~C~ic~vq~---~~YtCPRC-n~~YCsl~CYr~h~~ 40 (383)
T KOG4317|consen 7 FLACGICGVQK---REYTCPRC-NLLYCSLKCYRNHKH 40 (383)
T ss_pred eeecccccccc---ccccCCCC-CccceeeeeecCCCc
Confidence 36788888665 56999999 4778876 9987654
No 87
>KOG4151 consensus Myosin assembly protein/sexual cycle protein and related proteins [Posttranslational modification, protein turnover, chaperones; Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=43.37 E-value=15 Score=45.26 Aligned_cols=73 Identities=30% Similarity=0.442 Sum_probs=53.6
Q ss_pred EEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHh--c-CceE
Q 003535 6 VIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQ--R-LKFL 82 (812)
Q Consensus 6 iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q--~-l~~L 82 (812)
.+|.-||+++|+=.++++ -++..||+-|.. +++-..+-|+|.|-+||.|||.+...|.-++.+ + ++.+
T Consensus 291 ~~~~v~~~~i~laql~~~------~~~~~lR~ii~~---~~~~~~v~ik~~~~~~~~vtit~~a~l~l~~sa~i~l~~~~ 361 (748)
T KOG4151|consen 291 TLKLVYGDDIRLAQLPLN------CTVKILREIIHS---FPSLRAVLIKYRDTEGDLVTITTTAELRLAESAVIKLGKTL 361 (748)
T ss_pred hhhhhhccHHHHHhcchh------hchHHHHHHHhc---ccchhhheeeeccCCcceeeeeehhhhhhhhHHHHHHHHHh
Confidence 467889999999888853 366677666655 676678999999999999999999988764222 1 2245
Q ss_pred EEEEE
Q 003535 83 RIDVH 87 (812)
Q Consensus 83 ritV~ 87 (812)
|.++.
T Consensus 362 r~~~v 366 (748)
T KOG4151|consen 362 RFYVV 366 (748)
T ss_pred hhhee
Confidence 66653
No 88
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=42.84 E-value=23 Score=27.32 Aligned_cols=39 Identities=15% Similarity=0.224 Sum_probs=29.2
Q ss_pred eecCCCCCCCcccceeecCCCCCCchhhhhhhcCCCCCceEEe
Q 003535 380 VRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAMGSEADYIRI 422 (812)
Q Consensus 380 V~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~~~~H~f~ri 422 (812)
..|+.|... -.+|.|..|.. -+|..|....+..|.+..|
T Consensus 4 ~~C~~H~~~---~~~~~C~~C~~-~~C~~C~~~~H~~H~~~~i 42 (42)
T PF00643_consen 4 PKCPEHPEE---PLSLFCEDCNE-PLCSECTVSGHKGHKIVPI 42 (42)
T ss_dssp SB-SSTTTS---BEEEEETTTTE-EEEHHHHHTSTTTSEEEEC
T ss_pred ccCccCCcc---ceEEEecCCCC-ccCccCCCCCCCCCEEeEC
Confidence 467777642 37899999975 6999999987777887654
No 89
>PF14361 RsbRD_N: RsbT co-antagonist protein rsbRD N-terminal domain
Probab=42.42 E-value=60 Score=30.08 Aligned_cols=70 Identities=20% Similarity=0.333 Sum_probs=49.2
Q ss_pred HHcCCcchhhhHHHHHhccCChhhHHHHhh------ccccchHHHHHHHHc-------CCCchHHhHHHHHhcCCchhhH
Q 003535 736 EEMGFKQVDLNKEILRMNEYDLEQSVDDLC------GVSEWDPILEELQEM-------GFHDEETNKRLLKKNNGSIKGV 802 (812)
Q Consensus 736 ~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~------~~~ewdpll~El~Em-------Gf~d~~~n~~~~~k~~g~~~~~ 802 (812)
+..++....+.+.-|++.-..|.+++-+-+ ...+|+++.+.|.+| ||.-.++-..++. .|++
T Consensus 23 ~~~~~~~~~~~~~el~~~~~~v~~~l~~~l~~~~d~~~~~~~~l~~~L~~lsr~RA~Qgftpseta~fvf~-----LK~~ 97 (105)
T PF14361_consen 23 ASYPSRTDRFSEKELRQFANPVLDALAAALESGLDLAAPEWEELREALEELSRIRAVQGFTPSETASFVFA-----LKRP 97 (105)
T ss_pred HhcccccccccHHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH-----HHHH
Confidence 444455433333335555444444444433 458999999999998 9999999999886 8999
Q ss_pred HHHhhhcc
Q 003535 803 VMDLLTGE 810 (812)
Q Consensus 803 v~~l~~~e 810 (812)
+.++|..|
T Consensus 98 l~~~l~~E 105 (105)
T PF14361_consen 98 LFERLQRE 105 (105)
T ss_pred HHHHHhcC
Confidence 99999876
No 90
>PF12389 Peptidase_M73: Camelysin metallo-endopeptidase; InterPro: IPR022121 Camelysin is a novel surface metallopeptidase from Bacillus cereus []. Camelysin prefers cleavage sites in front of aliphatic and hydrophilic amino acid residues (-OH, -SO3H, amido group), and requires zinc for activity [, ].
Probab=41.68 E-value=1e+02 Score=32.64 Aligned_cols=111 Identities=20% Similarity=0.292 Sum_probs=59.3
Q ss_pred CCcccCCCCcEEEEEEEEcCCCCCCCCCcEEEE--e----cCCC----CCCCCceeeecCCCCCCCCCEEEEEE-----E
Q 003535 487 DGTMMAPSTPFTKIWRMRNTGNLAWPRGSQLVW--I----GGDK----FSDGVSVEIEVPADGVPVEGEIDIAV-----D 551 (812)
Q Consensus 487 DGT~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~Lvf--v----gGd~----m~~~dsv~l~IPv~~V~PGEevdVSV-----~ 551 (812)
+-+-+.||..++|.+.|.|.|+..- ....|.. . .||. |+.. ..+.+-. .......+.-.. .
T Consensus 57 ~v~nlkPGD~v~k~f~l~N~Gtldi-~~v~l~~~y~v~d~~gd~~~~df~k~--i~v~fl~-n~dk~~~~~~~ttL~eL~ 132 (199)
T PF12389_consen 57 DVSNLKPGDTVEKEFTLKNSGTLDI-KDVLLKTDYTVTDAKGDNTAEDFGKH--IKVQFLW-NWDKTSEPIYETTLAELK 132 (199)
T ss_pred ecccCCCCCeEEEEEEEEeCCeeee-eeEEEEEEEEEEecCCCCchhhhhhc--EEEEEEE-cCCCCccccccCCHHHHh
Confidence 4457999999999999999999864 2333322 1 1221 1111 1111100 000111111111 1
Q ss_pred EecCCCCceEEEEEEEECCCCCccC--CeEEEEEEEcCCCccCcccccccccCC
Q 003535 552 FTAPELPGRYISYWRMSSPSGVKFG--QRVWVLIQVDPSLKDSISDGFGGLNLN 603 (812)
Q Consensus 552 L~AP~~pG~Y~SyWRL~tpdG~~FG--~rLWv~I~V~~~~~~s~~~~~~~~nln 603 (812)
-..|......+..|.+....|..=| +.|||.+..+..+.+ -++|.+..|+
T Consensus 133 ~~~~~~~~~d~~~~~~~e~~gl~aG~~d~l~V~f~F~Dn~~d--qN~FQGD~l~ 184 (199)
T PF12389_consen 133 STTPDIVANDIFAPAWGEKGGLAAGSSDDLWVKFEFVDNGED--QNQFQGDSLE 184 (199)
T ss_pred cCCccccccchhcccccccCCCCCCCCcEEEEEEEEeeCCCc--cceecCcEEE
Confidence 1233434445555555555677666 899999999876655 5778775544
No 91
>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=41.42 E-value=1.1e+02 Score=25.88 Aligned_cols=70 Identities=14% Similarity=0.293 Sum_probs=44.8
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRI 84 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lri 84 (812)
++||...|.. +.+.+.. +.....|+++|++.++++++ ...|.|. |- .|.|+..|.+.=.+....|.+
T Consensus 3 i~v~~~~g~~---~~~~v~~----~~tv~~lK~~i~~~~g~~~~-~qrL~~~---g~--~L~d~~tl~~~~i~~g~~i~l 69 (76)
T cd01806 3 IKVKTLTGKE---IEIDIEP----TDKVERIKERVEEKEGIPPQ-QQRLIYS---GK--QMNDDKTAADYKLEGGSVLHL 69 (76)
T ss_pred EEEEeCCCCE---EEEEECC----CCCHHHHHHHHhHhhCCChh-hEEEEEC---Ce--EccCCCCHHHcCCCCCCEEEE
Confidence 5666655544 4445443 56889999999999999976 5777785 43 356777776542333444555
Q ss_pred EEE
Q 003535 85 DVH 87 (812)
Q Consensus 85 tV~ 87 (812)
.+.
T Consensus 70 ~~~ 72 (76)
T cd01806 70 VLA 72 (76)
T ss_pred EEE
Confidence 553
No 92
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=40.32 E-value=93 Score=28.53 Aligned_cols=56 Identities=27% Similarity=0.405 Sum_probs=43.1
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
+||+=.+..+|+-|-.+ ++..|+.|.++.|+|+ +..+. =|.+||| |..|++|....
T Consensus 5 ~kV~~~~r~~k~GV~A~-------sL~eL~~K~~~~l~l~-~~~~~-lvL~eDG---TeVddEeYF~t 60 (78)
T cd01615 5 FKVCDSDRSRKKGVAAS-------SLEELLSKACEKLKLP-SAPVT-LVLEEDG---TEVDDEEYFQT 60 (78)
T ss_pred EEEecCCCCeeEEEEcC-------CHHHHHHHHHHHcCCC-CCCeE-EEEeCCC---cEEccHHHHhc
Confidence 68888888888888855 7899999999999998 33443 4778889 55577777643
No 93
>PF02221 E1_DerP2_DerF2: ML domain; InterPro: IPR003172 The MD-2-related lipid-recognition (ML) domain is implicated in lipid recognition, particularly in the recognition of pathogen related products. It has an immunoglobulin-like beta-sandwich fold similar to that of E-set Ig domains. This domain is present in the following proteins: Epididymal secretory protein E1 (also known as Niemann-Pick C2 protein), which is known to bind cholesterol. Niemann-Pick disease type C2 is a fatal hereditary disease characterised by accumulation of low-density lipoprotein-derived cholesterol in lysosomes []. House-dust mite allergen proteins such as Der f 2 from Dermatophagoides farinae and Der p 2 from Dermatophagoides pteronyssinus []. ; PDB: 2AG9_B 1G13_B 2AG2_B 2AG4_A 1TJJ_C 1PU5_C 1PUB_A 2AF9_A 3T6Q_D 3M7O_B ....
Probab=38.01 E-value=74 Score=29.74 Aligned_cols=35 Identities=17% Similarity=0.467 Sum_probs=27.3
Q ss_pred CCCCCCEEEEEEEEecCC--CCceEEEEEEEECCCCC
Q 003535 539 GVPVEGEIDIAVDFTAPE--LPGRYISYWRMSSPSGV 573 (812)
Q Consensus 539 ~V~PGEevdVSV~L~AP~--~pG~Y~SyWRL~tpdG~ 573 (812)
++.+|+....++++..|. -+|+|.-.|+|.+.+|.
T Consensus 87 Pi~~G~~~~~~~~~~i~~~~p~~~~~i~~~l~d~~~~ 123 (134)
T PF02221_consen 87 PIKAGEYYTYTYTIPIPKIYPPGKYTIQWKLTDQDGE 123 (134)
T ss_dssp TBTTTEEEEEEEEEEESTTSSSEEEEEEEEEEETTTE
T ss_pred ccCCCcEEEEEEEEEcccceeeEEEEEEEEEEeCCCC
Confidence 478899877777766664 46899999999997754
No 94
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=37.97 E-value=46 Score=36.13 Aligned_cols=65 Identities=29% Similarity=0.469 Sum_probs=41.6
Q ss_pred hHHHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhh---------------------------ccccchHHHHHH
Q 003535 725 DAVEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLC---------------------------GVSEWDPILEEL 777 (812)
Q Consensus 725 ~~~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~---------------------------~~~ewdpll~El 777 (812)
+.++.. ++-|+++||.+.++=+ ++.++-.=|..++++.. ....|++.++-|
T Consensus 173 ~~~~~~-v~~L~~~G~~~~~i~~-~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~~~~~~l~~~i~~L 250 (345)
T PF02536_consen 173 SELKPK-VEFLRSLGFSKEDIGK-LLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILSLSEEKLKPKIEFL 250 (345)
T ss_dssp CCCHHH-HHHHHHCTT-GHHHHH-HHHHTTTGGGCGCHC---------------------------THHHHHHHHHHHHH
T ss_pred HHHHHH-HHHHHhhcccchhhhH-HhhcccceecccccccccccccccccccccccccccccccccccchHhHHHHHHHH
Confidence 345644 7889999999877654 56665555555554411 123588999999
Q ss_pred HHcCCCchHHhHHH
Q 003535 778 QEMGFHDEETNKRL 791 (812)
Q Consensus 778 ~EmGf~d~~~n~~~ 791 (812)
+++||.+.+.-+-+
T Consensus 251 ~~lG~s~~ei~~mv 264 (345)
T PF02536_consen 251 QSLGFSEEEIAKMV 264 (345)
T ss_dssp HTTT--HHHHHHHH
T ss_pred HHhcCcHHHHHHHH
Confidence 99999999887643
No 95
>PF04234 CopC: CopC domain; InterPro: IPR007348 CopC is a bacterial blue copper protein that binds 1 atom of copper per protein molecule. Along with CopA, CopC mediates copper resistance by sequestration of copper in the periplasm [].; GO: 0005507 copper ion binding, 0046688 response to copper ion, 0042597 periplasmic space; PDB: 1IX2_B 1LYQ_A 2C9P_C 2C9R_A 2C9Q_A 1M42_A 1OT4_A 1NM4_A.
Probab=37.92 E-value=46 Score=30.48 Aligned_cols=29 Identities=31% Similarity=0.618 Sum_probs=22.0
Q ss_pred EEEEEEEecCCCCceEEEEEEEECCCCCc
Q 003535 546 IDIAVDFTAPELPGRYISYWRMSSPSGVK 574 (812)
Q Consensus 546 vdVSV~L~AP~~pG~Y~SyWRL~tpdG~~ 574 (812)
-.+++.+..+..+|+|.-.||....||-.
T Consensus 59 ~~~~~~l~~~l~~G~YtV~wrvvs~DGH~ 87 (97)
T PF04234_consen 59 KTLTVPLPPPLPPGTYTVSWRVVSADGHP 87 (97)
T ss_dssp TEEEEEESS---SEEEEEEEEEEETTSCE
T ss_pred eEEEEECCCCCCCceEEEEEEEEecCCCC
Confidence 35677777778999999999999999965
No 96
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=37.77 E-value=73 Score=29.31 Aligned_cols=55 Identities=24% Similarity=0.299 Sum_probs=41.7
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
+||+=.+..+|+-|-.+ ++..|+.|.++.|+|.. . .-=|.+||| |..|++|....
T Consensus 5 ~kV~~~~rs~k~GV~A~-------sL~eL~~K~~~~l~l~~--~-~~lvL~eDG---T~Vd~EeyF~t 59 (79)
T cd06538 5 FRVSNADRSLRKGIMAD-------SLEDLLNKVLDALLLDC--I-SSLVLDEDG---TGVDTEEFFQA 59 (79)
T ss_pred EEEecCCCceeEeEEcC-------CHHHHHHHHHHHcCCCC--c-cEEEEecCC---cEEccHHHHhh
Confidence 67777777788888754 78999999999999942 2 335888999 55677777654
No 97
>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=37.06 E-value=78 Score=27.84 Aligned_cols=61 Identities=18% Similarity=0.232 Sum_probs=42.2
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
+.|.|+|++.. |.+.+.+ +-....|+++|++..+++++ ..-|-|.---|- .+.|+..|.+.
T Consensus 1 ~~i~vk~~g~~--~~v~v~~----~~Tv~~lK~~i~~~tgvp~~-~QKLi~~~~~Gk--~l~D~~~L~~~ 61 (74)
T cd01813 1 VPVIVKWGGQE--YSVTTLS----EDTVLDLKQFIKTLTGVLPE-RQKLLGLKVKGK--PAEDDVKISAL 61 (74)
T ss_pred CEEEEEECCEE--EEEEECC----CCCHHHHHHHHHHHHCCCHH-HEEEEeecccCC--cCCCCcCHHHc
Confidence 35788888865 5666653 67889999999999999976 444444100143 47788888764
No 98
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=35.06 E-value=26 Score=32.09 Aligned_cols=63 Identities=19% Similarity=0.296 Sum_probs=33.4
Q ss_pred cCCCcccCCCCcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCCCCceEEEE
Q 003535 485 VLDGTMMAPSTPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPELPGRYISY 564 (812)
Q Consensus 485 IpDGT~V~Pgt~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~~pG~Y~Sy 564 (812)
-|+--.+++|++.+- .++|.|... -.++.-+ +. +. ..+.||++..+++ +|.++|+|.=|
T Consensus 33 ~P~~i~v~~G~~v~l--~~~N~~~~~----h~~~i~~---~~------~~---~~l~~g~~~~~~f---~~~~~G~y~~~ 91 (104)
T PF13473_consen 33 SPSTITVKAGQPVTL--TFTNNDSRP----HEFVIPD---LG------IS---KVLPPGETATVTF---TPLKPGEYEFY 91 (104)
T ss_dssp ES-EEEEETTCEEEE--EEEE-SSS-----EEEEEGG---GT------EE---EEE-TT-EEEEEE---EE-S-EEEEEB
T ss_pred ecCEEEEcCCCeEEE--EEEECCCCc----EEEEECC---Cc------eE---EEECCCCEEEEEE---cCCCCEEEEEE
Confidence 344557888887774 457888763 3333332 11 11 1367899876665 48999999877
Q ss_pred EEEE
Q 003535 565 WRMS 568 (812)
Q Consensus 565 WRL~ 568 (812)
.+|.
T Consensus 92 C~~~ 95 (104)
T PF13473_consen 92 CTMH 95 (104)
T ss_dssp -SSS
T ss_pred cCCC
Confidence 6643
No 99
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=34.48 E-value=1.3e+02 Score=27.44 Aligned_cols=56 Identities=27% Similarity=0.441 Sum_probs=42.5
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
+||+=.+..+|+-|-.+ ++..|+.|.+..|+++.. .+. =|.+||| |..|++|....
T Consensus 3 ~kV~~~~r~~k~GV~A~-------sL~eL~~K~~~~l~l~~~-~~~-l~L~eDG---T~VddEeyF~t 58 (74)
T smart00266 3 FKVRDHDRNVRKGVAAS-------SLEELLSKVCDKLALPDS-PVT-LVLEEDG---TIVDDEEYFQT 58 (74)
T ss_pred EEEecCCCCeeEEEEcC-------CHHHHHHHHHHHhCCCCC-CcE-EEEecCC---cEEccHHHHhc
Confidence 67777777888888754 789999999999999853 333 4788899 55677776643
No 100
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=34.14 E-value=31 Score=29.21 Aligned_cols=36 Identities=19% Similarity=0.364 Sum_probs=19.7
Q ss_pred ecCCCCCCCccc-------ceeecCCCCCCchhhhhhhc-CCCCC
Q 003535 381 RCDGCGVHPITG-------PRFKSKVKDDYDLCSICFAA-MGSEA 417 (812)
Q Consensus 381 ~CDgC~~~PI~G-------~RYKCsvC~DyDLCe~C~a~-~~~~H 417 (812)
.|=||...-..+ .||+|..|.. +||..|-.- |..-|
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~~-~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCKN-HFCIDCDVFIHETLH 44 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT---B-HHHHHTTTTTS-
T ss_pred CCccCCCCCCCcccccccCCeEECCCCCC-ccccCcChhhhcccc
Confidence 477887532222 6999999975 499999765 33334
No 101
>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=33.96 E-value=2.2e+02 Score=24.07 Aligned_cols=58 Identities=21% Similarity=0.281 Sum_probs=39.3
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHH
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLC 72 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~ 72 (812)
+.|||+.-+- +++.+.+.. +-.+..|.++.++..++++..++.|.|. |.. |.++.-+.
T Consensus 1 I~i~v~~~~~-~~~~~~v~~----~~~~~~l~~~~~~~~~i~~~~~~~l~fd---G~~--L~~~~T~~ 58 (72)
T PF11976_consen 1 ITIKVRSQDG-KEIKFKVKP----TTTVSKLIEKYCEKKGIPPEESIRLIFD---GKR--LDPNDTPE 58 (72)
T ss_dssp EEEEEEETTS-EEEEEEEET----TSCCHHHHHHHHHHHTTTT-TTEEEEET---TEE--E-TTSCHH
T ss_pred CEEEEEeCCC-CEEEEEECC----CCcHHHHHHHHHHhhCCCccceEEEEEC---CEE--cCCCCCHH
Confidence 3567776543 377777654 5577888899999999998789999994 444 44444333
No 102
>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=33.91 E-value=43 Score=38.36 Aligned_cols=46 Identities=35% Similarity=0.445 Sum_probs=37.5
Q ss_pred HhhccccchHHHHHHHHcCCCchHHhHHHHHhcCCchhhHHHHhhhc
Q 003535 763 DLCGVSEWDPILEELQEMGFHDEETNKRLLKKNNGSIKGVVMDLLTG 809 (812)
Q Consensus 763 ~l~~~~ewdpll~El~EmGf~d~~~n~~~~~k~~g~~~~~v~~l~~~ 809 (812)
.|+.-+|.+-...+|-|||| +.+.-.+.|+..=.--.|+|.=|++|
T Consensus 149 ~l~~g~~~e~~I~~i~eMGf-~R~qV~~ALRAafNNPdRAVEYL~tG 194 (378)
T TIGR00601 149 TLVVGSERETTIEEIMEMGY-EREEVERALRAAFNNPDRAVEYLLTG 194 (378)
T ss_pred ccccchHHHHHHHHHHHhCC-CHHHHHHHHHHHhCCHHHHHHHHHhC
Confidence 45555677778889999998 77777788887888899999999987
No 103
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=33.49 E-value=83 Score=24.91 Aligned_cols=28 Identities=29% Similarity=0.455 Sum_probs=21.6
Q ss_pred cCCcchhhhHHHHHhccCChhhHHHHhhc
Q 003535 738 MGFKQVDLNKEILRMNEYDLEQSVDDLCG 766 (812)
Q Consensus 738 mGF~~~d~n~~~l~~n~~~~~~~v~~l~~ 766 (812)
.|. ..+.=+.+|+++++||+++|+....
T Consensus 11 Tg~-~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 11 TGA-DEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp H-S-SHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HCc-CHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 365 5678889999999999999987654
No 104
>cd06535 CIDE_N_CAD CIDE_N domain of CAD nuclease. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and the release of active DFF40/CAD nuclease.
Probab=33.42 E-value=1.2e+02 Score=27.74 Aligned_cols=49 Identities=20% Similarity=0.335 Sum_probs=38.8
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEE
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVT 64 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VT 64 (812)
+||+=-+..+|+-|-.+ ++..|+.|.+..|+|+.. . .-=|.+|||=.|+
T Consensus 5 ~kV~~~~rs~k~GV~A~-------sL~eL~~K~~~~l~l~~~-~-~~l~L~eDGTeVt 53 (77)
T cd06535 5 VKIRSLNSAQKYGVAAK-------NLKELLRKGCRLLQLPCA-G-SRLCLYEDGTEVT 53 (77)
T ss_pred eEEecCCCCeeEeEEcC-------CHHHHHHHHHHHhCCCCC-C-cEEEEecCCcEeh
Confidence 67777778888888854 789999999999999853 3 3357799998883
No 105
>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=32.92 E-value=1.1e+02 Score=26.94 Aligned_cols=56 Identities=27% Similarity=0.443 Sum_probs=40.0
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
++||...| |+|.+.++. +-....|+.+|++.+++++ +...|.|. |- .|.|+ -|.+.
T Consensus 4 I~Vk~~~G---~~~~l~v~~----~~TV~~LK~~I~~~~~~~~-~~qrL~~~---Gk--~L~d~-~L~~~ 59 (78)
T cd01804 4 LNIHSTTG---TRFDLSVPP----DETVEGLKKRISQRLKVPK-ERLALLHR---ET--RLSSG-KLQDL 59 (78)
T ss_pred EEEEECCC---CEEEEEECC----cCHHHHHHHHHHHHhCCCh-HHEEEEEC---Cc--CCCCC-cHHHc
Confidence 55666555 458888764 5688999999999999986 57788887 43 35565 56543
No 106
>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=32.57 E-value=1e+02 Score=26.87 Aligned_cols=67 Identities=15% Similarity=0.189 Sum_probs=46.0
Q ss_pred EeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEEEEEe
Q 003535 10 KYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRIDVHL 88 (812)
Q Consensus 10 k~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~LritV~l 88 (812)
++++.+ |.+.++. +.+...|+++|+....+++ +...|.|... .|.|+..|.+.-.+....|.+.+.+
T Consensus 4 ~l~g~~--~~l~v~~----~~TV~~lK~~i~~~~gip~-~~q~L~~~G~-----~L~d~~tL~~~~i~~g~~l~v~~~~ 70 (76)
T cd01800 4 KLNGQM--LNFTLQL----SDPVSVLKVKIHEETGMPA-GKQKLQYEGI-----FIKDSNSLAYYNLANGTIIHLQLKE 70 (76)
T ss_pred ccCCeE--EEEEECC----CCcHHHHHHHHHHHHCCCH-HHEEEEECCE-----EcCCCCcHHHcCCCCCCEEEEEEec
Confidence 345543 4444433 6689999999999999986 4677889752 5778878876545555667666654
No 107
>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=32.47 E-value=1.5e+02 Score=26.04 Aligned_cols=72 Identities=17% Similarity=0.212 Sum_probs=47.3
Q ss_pred ceEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEE
Q 003535 4 TMVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLR 83 (812)
Q Consensus 4 ~~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lr 83 (812)
.++||...| |.|.+.+.+ +.+...|+.+|++.+++++ ....|+|.. +|- .|.|+.-|.+.=.+....|.
T Consensus 4 ~i~Vk~~~G---~~~~~~v~~----~~TV~~lK~~I~~~~~i~~-~~qrL~~~~-~G~--~L~D~~tL~~~gi~~gs~l~ 72 (80)
T cd01792 4 DLKVKMLGG---NEFLVSLRD----SMTVSELKQQIAQKIGVPA-FQQRLAHLD-SRE--VLQDGVPLVSQGLGPGSTVL 72 (80)
T ss_pred EEEEEeCCC---CEEEEEcCC----CCcHHHHHHHHHHHhCCCH-HHEEEEecc-CCC--CCCCCCCHHHcCCCCCCEEE
Confidence 467777555 447776653 5688999999999999875 577775543 454 35666666654234455565
Q ss_pred EEE
Q 003535 84 IDV 86 (812)
Q Consensus 84 itV 86 (812)
+.+
T Consensus 73 l~~ 75 (80)
T cd01792 73 LVV 75 (80)
T ss_pred EEE
Confidence 554
No 108
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=30.66 E-value=10 Score=32.22 Aligned_cols=32 Identities=34% Similarity=0.759 Sum_probs=23.5
Q ss_pred eecCCCCC-CCccc-------ceeecCCC--CCCchhhhhhh
Q 003535 380 VRCDGCGV-HPITG-------PRFKSKVK--DDYDLCSICFA 411 (812)
Q Consensus 380 V~CDgC~~-~PI~G-------~RYKCsvC--~DyDLCe~C~a 411 (812)
+.||-|.. .||.| .||-|+.| +.|-+|-.|-.
T Consensus 8 y~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~deYY~CksC~G 49 (57)
T PF14445_consen 8 YSCDLCNSSHPISELRQCVLCGRWACNSCWQDEYYTCKSCNG 49 (57)
T ss_pred HhHHhhcccCcHHHHHHHhhhchhhhhhhhhhhHhHHHhhhc
Confidence 67888864 35544 37999999 46888999865
No 109
>cd00917 PG-PI_TP The phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP) has been shown to bind phosphatidylglycerol and phosphatidylinositol, but the biological significance of this is still obscure. These proteins belong to the ML domain family.
Probab=30.48 E-value=1.1e+02 Score=29.21 Aligned_cols=33 Identities=15% Similarity=0.234 Sum_probs=26.4
Q ss_pred CCCCCCEEEEEEEEecCC--CCceEEEEEEEECCCC
Q 003535 539 GVPVEGEIDIAVDFTAPE--LPGRYISYWRMSSPSG 572 (812)
Q Consensus 539 ~V~PGEevdVSV~L~AP~--~pG~Y~SyWRL~tpdG 572 (812)
++++|+.. ++.++.-|. -+|+|.-.|+|.+.+|
T Consensus 78 Pi~~G~~~-~~~~~~ip~~~P~g~y~v~~~l~d~~~ 112 (122)
T cd00917 78 PIEPGDKF-LTKLVDLPGEIPPGKYTVSARAYTKDD 112 (122)
T ss_pred CcCCCcEE-EEEEeeCCCCCCCceEEEEEEEECCCC
Confidence 37889887 766777776 5899999999999654
No 110
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.25 E-value=52 Score=34.70 Aligned_cols=36 Identities=22% Similarity=0.364 Sum_probs=30.3
Q ss_pred HHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhh
Q 003535 729 QTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLC 765 (812)
Q Consensus 729 e~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~ 765 (812)
......|++|||.- ++-.++|+.++.|++.+-.+|.
T Consensus 163 ~~~v~~l~~mGf~~-~~~i~~L~~~~w~~~~a~~~~~ 198 (200)
T KOG0418|consen 163 KKKVDSLIEMGFSE-LEAILVLSGSDWNLADATEQLL 198 (200)
T ss_pred HHHHHHHHHhcccH-HHHHHHhhccccchhhhhHhhc
Confidence 45578899999975 6778999999999999888774
No 111
>smart00454 SAM Sterile alpha motif. Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerisation.
Probab=29.50 E-value=1.7e+02 Score=23.61 Aligned_cols=53 Identities=28% Similarity=0.390 Sum_probs=38.2
Q ss_pred HHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccccchHHHHHHHHcCCCchHHhHHHHH
Q 003535 730 TLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEMGFHDEETNKRLLK 793 (812)
Q Consensus 730 ~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~EmGf~d~~~n~~~~~ 793 (812)
.+-.-|+.+||.+ =.+.+++|+++-.. |+...+ -+-|++||+.+..-.+++|.
T Consensus 8 ~v~~wL~~~g~~~---y~~~f~~~~i~g~~----ll~~~~----~~~l~~lgi~~~~~r~~ll~ 60 (68)
T smart00454 8 SVADWLESIGLEQ---YADNFRKNGIDGAL----LLLLTS----EEDLKELGITKLGHRKKILK 60 (68)
T ss_pred HHHHHHHHCChHH---HHHHHHHCCCCHHH----HHhcCh----HHHHHHcCCCcHHHHHHHHH
Confidence 4457889999987 45678888887764 444432 23589999998888888776
No 112
>PTZ00044 ubiquitin; Provisional
Probab=29.19 E-value=1.1e+02 Score=26.05 Aligned_cols=71 Identities=17% Similarity=0.254 Sum_probs=45.5
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRI 84 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~Lri 84 (812)
+.||---|. .+.+.+.+ +.+...|+++|++..+++++ +..|-|. |.. |.|+..|.+.-.+....|.+
T Consensus 3 i~vk~~~G~---~~~l~v~~----~~tv~~lK~~i~~~~gi~~~-~q~L~~~---g~~--L~d~~~l~~~~i~~~~~i~l 69 (76)
T PTZ00044 3 ILIKTLTGK---KQSFNFEP----DNTVQQVKMALQEKEGIDVK-QIRLIYS---GKQ--MSDDLKLSDYKVVPGSTIHM 69 (76)
T ss_pred EEEEeCCCC---EEEEEECC----CCcHHHHHHHHHHHHCCCHH-HeEEEEC---CEE--ccCCCcHHHcCCCCCCEEEE
Confidence 445544343 34455543 56889999999999999864 5667785 433 66777776543444555666
Q ss_pred EEEe
Q 003535 85 DVHL 88 (812)
Q Consensus 85 tV~l 88 (812)
.+.+
T Consensus 70 ~~~~ 73 (76)
T PTZ00044 70 VLQL 73 (76)
T ss_pred EEEc
Confidence 6654
No 113
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=28.79 E-value=23 Score=40.00 Aligned_cols=31 Identities=16% Similarity=0.396 Sum_probs=25.5
Q ss_pred ecCCCCCCCcccceeecCCCCCCchhhhhhhc
Q 003535 381 RCDGCGVHPITGPRFKSKVKDDYDLCSICFAA 412 (812)
Q Consensus 381 ~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~ 412 (812)
.|-+|+.....+.||+|..|.++ ||..|-.-
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~-FCldCDv~ 362 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNV-FCLDCDVF 362 (378)
T ss_pred ceeeeccccCCCCcEEchhccce-eeccchHH
Confidence 49999656677789999999977 99999654
No 114
>smart00737 ML Domain involved in innate immunity and lipid metabolism. ML (MD-2-related lipid-recognition) is a novel domain identified in MD-1, MD-2, GM2A, Npc2 and multiple proteins of unknown function in plants, animals and fungi. These single-domain proteins were predicted to form a beta-rich fold containing multiple strands, and to mediate diverse biological functions through interacting with specific lipids.
Probab=28.77 E-value=1.3e+02 Score=28.04 Aligned_cols=35 Identities=20% Similarity=0.527 Sum_probs=27.5
Q ss_pred CCCCCCEEEEEEEEecCC--CCceEEEEEEEECCCCC
Q 003535 539 GVPVEGEIDIAVDFTAPE--LPGRYISYWRMSSPSGV 573 (812)
Q Consensus 539 ~V~PGEevdVSV~L~AP~--~pG~Y~SyWRL~tpdG~ 573 (812)
++.+|+.+.....|..|. -+|.|...|+|.+.+|.
T Consensus 73 Pl~~G~~~~~~~~~~v~~~~P~~~~~v~~~l~d~~~~ 109 (118)
T smart00737 73 PIEKGETVNYTNSLTVPGIFPPGKYTVKWELTDEDGE 109 (118)
T ss_pred CCCCCeeEEEEEeeEccccCCCeEEEEEEEEEcCCCC
Confidence 377899987777766665 46899999999997654
No 115
>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=27.94 E-value=1e+02 Score=27.38 Aligned_cols=42 Identities=17% Similarity=0.247 Sum_probs=32.2
Q ss_pred EEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecC
Q 003535 8 KVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDE 58 (812)
Q Consensus 8 Kvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~De 58 (812)
|+.+|++.. +.+.. +.+...|++||+..++++++ ...| |...
T Consensus 8 ~~~~~~t~~-l~v~~------~~TV~~lK~kI~~~~gip~~-~QrL-~~G~ 49 (75)
T cd01799 8 AQSHTVTIW-LTVRP------DMTVAQLKDKVFLDYGFPPA-VQRW-VIGQ 49 (75)
T ss_pred cccCCCeEE-EEECC------CCcHHHHHHHHHHHHCcCHH-HEEE-EcCC
Confidence 677777766 66652 56899999999999999976 5667 8543
No 116
>COG2372 CopC Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]
Probab=26.92 E-value=1.6e+02 Score=29.36 Aligned_cols=38 Identities=21% Similarity=0.376 Sum_probs=30.8
Q ss_pred CEEEEEEEEecCCCCceEEEEEEEECCCCCccCCeEEE
Q 003535 544 GEIDIAVDFTAPELPGRYISYWRMSSPSGVKFGQRVWV 581 (812)
Q Consensus 544 EevdVSV~L~AP~~pG~Y~SyWRL~tpdG~~FG~rLWv 581 (812)
+...+.|.+..|-++|.|+--||..+.||-.-+-.+-.
T Consensus 85 ~~~~l~v~l~~~L~aG~Y~v~WrvvS~DGH~v~G~~sF 122 (127)
T COG2372 85 NHTQLEVPLPQPLKAGVYTVDWRVVSSDGHVVKGSISF 122 (127)
T ss_pred CCcEEEecCcccCCCCcEEEEEEEEecCCcEeccEEEE
Confidence 33668999999999999999999999999765544433
No 117
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=26.88 E-value=1.1e+02 Score=27.67 Aligned_cols=65 Identities=22% Similarity=0.334 Sum_probs=42.3
Q ss_pred eeeeeeccCCCCCccccHHHHHHHHHHHh-CCCCCC-ceEE-EEecCCCCeEEEcCchhHHHHHHhcCceEEEEE
Q 003535 15 LRRFNARVDENEKLDLDIDGLRAKIKSLF-NFPHDS-DLTL-TYVDEDGDIVTLVDDDDLCDVMRQRLKFLRIDV 86 (812)
Q Consensus 15 lRRf~i~~~~n~~~dl~~~~L~~ki~~~F-~l~~d~-~~~i-~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~LritV 86 (812)
.|||-.-..+ +-++..|...|.+-| +|.|+. ++.| +..|++|. -|+.+--..++..+ .+.||+-|
T Consensus 2 ~kKFLhlt~~----~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~~~c--DLD~d~~V~DVf~~-~~~vrvi~ 69 (73)
T PF10407_consen 2 YKKFLHLTDP----NNTLSQLKEEIEERFKKLYPNEPELEILSLQDSDGC--DLDPDFLVKDVFNS-NNVVRVIL 69 (73)
T ss_pred ccEEEEEeCC----CCcHHHHHHHHHHHHHHHCCCCCCceEEEeecCCCC--CCCcccEeeeeecc-CCEEEEEe
Confidence 4788666543 567889999999999 788776 6777 99999883 23333222333343 35566654
No 118
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=26.32 E-value=1.5e+02 Score=33.80 Aligned_cols=39 Identities=28% Similarity=0.326 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhc
Q 003535 726 AVEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCG 766 (812)
Q Consensus 726 ~~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~ 766 (812)
..|+. ..++.+|| ++++-+.+.||-.=.|=+|+|+=|+.
T Consensus 134 ~~e~~-V~~Im~MG-y~re~V~~AlRAafNNPeRAVEYLl~ 172 (340)
T KOG0011|consen 134 EYEQT-VQQIMEMG-YDREEVERALRAAFNNPERAVEYLLN 172 (340)
T ss_pred hhHHH-HHHHHHhC-ccHHHHHHHHHHhhCChhhhHHHHhc
Confidence 44533 67788999 78999999999999999999998863
No 119
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=25.96 E-value=2.5e+02 Score=23.25 Aligned_cols=54 Identities=22% Similarity=0.367 Sum_probs=38.6
Q ss_pred HHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccccchHHHHHHHHcCCCchHHhHHHHHh
Q 003535 730 TLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEMGFHDEETNKRLLKK 794 (812)
Q Consensus 730 ~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~EmGf~d~~~n~~~~~k 794 (812)
.+-+-|+.+||.+ =.++++.|+++.-..+ ...+ .+.|++||+.+..-=+++|.+
T Consensus 8 ~v~~WL~~~gl~~---y~~~f~~~~i~g~~~L---~~l~-----~~~L~~lGI~~~~~r~kll~~ 61 (66)
T PF07647_consen 8 DVAEWLKSLGLEQ---YADNFRENGIDGLEDL---LQLT-----EEDLKELGITNLGHRRKLLSA 61 (66)
T ss_dssp HHHHHHHHTTCGG---GHHHHHHTTCSHHHHH---TTSC-----HHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHCCcHH---HHHHHHHcCCcHHHHH---hhCC-----HHHHHHcCCCCHHHHHHHHHH
Confidence 3457788999944 3578899999874433 3333 257899999999888888763
No 120
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=25.74 E-value=57 Score=35.43 Aligned_cols=63 Identities=29% Similarity=0.408 Sum_probs=39.3
Q ss_pred hHHHHHHHHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccccchHHHHHHHHcCCCchHHhHHHHHhc
Q 003535 725 DAVEQTLLRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEMGFHDEETNKRLLKKN 795 (812)
Q Consensus 725 ~~~Ee~~l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~EmGf~d~~~n~~~~~k~ 795 (812)
+.++ ..++.|.+|||...++.+-+-+.+ .-| -.-.-.+|.|.++-|+++||..++.-+ ++.++
T Consensus 137 ~~~~-~~v~~l~~lG~~~~~~~~vi~~~P-~~l-----~~~~~~~~~~~v~~L~~~G~~~~~i~~-~l~~~ 199 (345)
T PF02536_consen 137 EKIK-ERVEFLKELGFDPEKIGRVIAKNP-RLL-----LSDSESELKPKVEFLRSLGFSKEDIGK-LLRKC 199 (345)
T ss_dssp HHHH-CHHHHHCCCTSSHHHHCCCHHHHH-HHH-----CGSCCCCCHHHHHHHHHCTT-GHHHHH-HHHHT
T ss_pred hHHH-HHHHHHHHhCCCchhhcccccccc-hhh-----ccccHHHHHHHHHHHHhhcccchhhhH-Hhhcc
Confidence 3444 457888889998877765444432 111 011125799999999999998876654 44443
No 121
>PF09544 DUF2381: Protein of unknown function (DUF2381); InterPro: IPR011754 This family consists of at least 8 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. The function is unknown.
Probab=25.73 E-value=2.2e+02 Score=31.61 Aligned_cols=71 Identities=17% Similarity=0.361 Sum_probs=45.7
Q ss_pred EEEEEEEEc-CCCCCCC-CCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCC-CC-ceEEEEEEEECCCC
Q 003535 497 FTKIWRMRN-TGNLAWP-RGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPE-LP-GRYISYWRMSSPSG 572 (812)
Q Consensus 497 FtKtWrLrN-~Gt~~WP-~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~-~p-G~Y~SyWRL~tpdG 572 (812)
---.++|+| .|..+|- .+.+|.-..|..+.. ..+......+.||++..|-|.+.+|. .+ |.|+ -+|...+|
T Consensus 204 vav~v~l~N~~g~~PW~~~~A~L~g~~G~~lr~---~~V~~~~~~i~PG~~grVvVe~e~~~~~~~~~ft--Lel~~~dG 278 (289)
T PF09544_consen 204 VAVVVTLRNLSGQPPWTPGEARLTGPSGEPLRA---LAVRWQEGPIAPGGSGRVVVEAEAPAFSAGGPFT--LELWDADG 278 (289)
T ss_pred EEEEEEEECCCCCCCceeeEEEEECCCCCccee---eeeecccCccCCCCceeEEEEecCCCcCCCCcEE--EEEEcCCC
Confidence 344678999 8999995 346666444433321 12222334689999999999988775 33 5666 55566666
No 122
>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=25.66 E-value=1.8e+02 Score=25.07 Aligned_cols=64 Identities=20% Similarity=0.208 Sum_probs=46.1
Q ss_pred eeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEEEEEec
Q 003535 16 RRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRIDVHLN 89 (812)
Q Consensus 16 RRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~LritV~l~ 89 (812)
+.+.+.+.+ +.+...|+.+|+..+++++ ++..|.|. |- .|.|+.-|.+.-.+....|.+.+.+.
T Consensus 9 ~~~~l~v~~----~~tV~~lK~~i~~~~gip~-~~q~Li~~---Gk--~L~D~~tL~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01793 9 NTHTLEVTG----QETVSDIKAHVAGLEGIDV-EDQVLLLA---GV--PLEDDATLGQCGVEELCTLEVAGRLL 72 (74)
T ss_pred CEEEEEECC----cCcHHHHHHHHHhhhCCCH-HHEEEEEC---Ce--ECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 567777764 5688999999999999986 46677784 44 37777777765455556677777554
No 123
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=25.61 E-value=83 Score=37.22 Aligned_cols=56 Identities=29% Similarity=0.538 Sum_probs=41.3
Q ss_pred HHHHhccCChhhHHHHhhccccchHHH--HHHHHcCCCchHHh--HHHHHhcCCchhhHHHHhh
Q 003535 748 EILRMNEYDLEQSVDDLCGVSEWDPIL--EELQEMGFHDEETN--KRLLKKNNGSIKGVVMDLL 807 (812)
Q Consensus 748 ~~l~~n~~~~~~~v~~l~~~~ewdpll--~El~EmGf~d~~~n--~~~~~k~~g~~~~~v~~l~ 807 (812)
.+|-+|+|||.++|.-|+-.. -|+| .||+|- .-.||| .+.|+|-|-+.+.+-.|.|
T Consensus 256 dtLhr~~YDl~~Ais~LVPlG--GPvLCRDemEEW--SasEanLFEeALeKyGKDFndIrqdfL 315 (693)
T KOG3554|consen 256 DTLHRNNYDLSKAISYLVPLG--GPVLCRDEMEEW--SASEANLFEEALEKYGKDFNDIRQDFL 315 (693)
T ss_pred HHHHHccccHHHHHHHhhcCC--Cceeehhhhhhc--cchhhHHHHHHHHHhcccHHHHHHhhc
Confidence 378999999999999998643 2444 566664 344444 6889999998888776654
No 124
>PHA03273 envelope glycoprotein C; Provisional
Probab=25.48 E-value=7.5e+02 Score=29.72 Aligned_cols=37 Identities=14% Similarity=0.303 Sum_probs=27.2
Q ss_pred EEEEEEEecCCCCceEEEEEEEECCCCCccCCeEEEEEEE
Q 003535 546 IDIAVDFTAPELPGRYISYWRMSSPSGVKFGQRVWVLIQV 585 (812)
Q Consensus 546 vdVSV~L~AP~~pG~Y~SyWRL~tpdG~~FG~rLWv~I~V 585 (812)
..+.|.=......|.| +||+...+|..++. .|+.|..
T Consensus 198 ~~LtI~sltaaTeGvY--tWr~~~~n~t~~~~-~~VtV~~ 234 (486)
T PHA03273 198 FPLTIKSVDWRTAGVY--VWSLYAKNGTLVNS-TSVTVST 234 (486)
T ss_pred cceEEEecchhhceEE--EEEEecCCCceeee-eEEEEEE
Confidence 4566664556899999 59998888877665 7887743
No 125
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=23.86 E-value=38 Score=26.46 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=18.6
Q ss_pred cCceecCCCCCCCccc---ceeecCCCC
Q 003535 377 HKGVRCDGCGVHPITG---PRFKSKVKD 401 (812)
Q Consensus 377 H~GV~CDgC~~~PI~G---~RYKCsvC~ 401 (812)
+....|+.|+ ..|.| ..|+|..|.
T Consensus 9 ~~~~~C~~C~-~~i~~~~~~~~~C~~C~ 35 (50)
T cd00029 9 FKPTFCDVCR-KSIWGLFKQGLRCSWCK 35 (50)
T ss_pred CCCCChhhcc-hhhhccccceeEcCCCC
Confidence 4567899998 57777 688998884
No 126
>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=23.84 E-value=3.3e+02 Score=23.23 Aligned_cols=61 Identities=28% Similarity=0.380 Sum_probs=40.9
Q ss_pred eeeeeccCCCCCccccHHHHHHHHHHHhCC--CCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEEEE
Q 003535 16 RRFNARVDENEKLDLDIDGLRAKIKSLFNF--PHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRIDV 86 (812)
Q Consensus 16 RRf~i~~~~n~~~dl~~~~L~~ki~~~F~l--~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~LritV 86 (812)
+.|.+.+.. +.+...|+++|++.+++ ++ .+..|.|. |- .|.|+.-|.+.=.+....|.+.|
T Consensus 11 ~~~~l~v~~----~~TV~~lK~~i~~~~~i~~~~-~~q~L~~~---G~--~L~d~~~L~~~~i~~~~~i~~~~ 73 (77)
T cd01805 11 QTFPIEVDP----DDTVAELKEKIEEEKGCDYPP-EQQKLIYS---GK--ILKDDTTLEEYKIDEKDFVVVMV 73 (77)
T ss_pred CEEEEEECC----CCcHHHHHHHHHHhhCCCCCh-hHeEEEEC---CE--EccCCCCHHHcCCCCCCEEEEEE
Confidence 567777764 56899999999999998 64 57788885 44 45666666654233344444443
No 127
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=23.64 E-value=64 Score=26.92 Aligned_cols=30 Identities=30% Similarity=0.483 Sum_probs=16.7
Q ss_pred hhHHHHHhccCChhhHHHHhhccccchHHHHHHHHc
Q 003535 745 LNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEM 780 (812)
Q Consensus 745 ~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~Em 780 (812)
--||||+..--+|++.|+|| |.=++|||+-
T Consensus 5 EAkelLqe~~d~IEqkiedi------d~qIaeLe~K 34 (46)
T PF08946_consen 5 EAKELLQEHYDNIEQKIEDI------DEQIAELEAK 34 (46)
T ss_dssp ----------THHHHHHHHH------HHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHhHHHH------HHHHHHHHHH
Confidence 35899999999999999998 6667888754
No 128
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=23.64 E-value=48 Score=28.97 Aligned_cols=33 Identities=12% Similarity=0.201 Sum_probs=22.9
Q ss_pred ceeecCCCCC---Cchhhhhhhc-CCCCCceEEecCC
Q 003535 393 PRFKSKVKDD---YDLCSICFAA-MGSEADYIRIDRP 425 (812)
Q Consensus 393 ~RYKCsvC~D---yDLCe~C~a~-~~~~H~f~ri~~P 425 (812)
.-|+|..|.. .-+|..||+. -+..|.+..+...
T Consensus 12 ~~y~C~tC~~~~~~~iC~~CF~~~~H~gH~~~~~~~~ 48 (71)
T PF02207_consen 12 IFYRCLTCSLDESSGICEECFANSCHEGHRVVYYRSS 48 (71)
T ss_dssp EEEEETTTBSSTT-BBEHHHHCTSGGGGSSEEEEE--
T ss_pred EEEECccCCCCCCEEEchhhCCCCCcCCCcEEEEEeC
Confidence 4688888854 7789999877 4568888766655
No 129
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=23.45 E-value=4.8e+02 Score=23.83 Aligned_cols=22 Identities=18% Similarity=0.569 Sum_probs=15.8
Q ss_pred CCCCCEEEEEEEEecCCCCceEEEEEEE
Q 003535 540 VPVEGEIDIAVDFTAPELPGRYISYWRM 567 (812)
Q Consensus 540 V~PGEevdVSV~L~AP~~pG~Y~SyWRL 567 (812)
+.||++..+ .|.+ +|.| .||+.
T Consensus 64 ~~pG~t~~~--tF~~---~G~y-~y~C~ 85 (99)
T TIGR02656 64 NSPGESYEV--TFST---PGTY-TFYCE 85 (99)
T ss_pred cCCCCEEEE--EeCC---CEEE-EEEcC
Confidence 678999766 5554 8988 66654
No 130
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=23.29 E-value=40 Score=39.69 Aligned_cols=35 Identities=23% Similarity=0.567 Sum_probs=29.4
Q ss_pred ceecCCCCCCCcccceeecCCCCCCchhhhhhhcCC
Q 003535 379 GVRCDGCGVHPITGPRFKSKVKDDYDLCSICFAAMG 414 (812)
Q Consensus 379 GV~CDgC~~~PI~G~RYKCsvC~DyDLCe~C~a~~~ 414 (812)
-..|+-|+. --.-.||+-..-..|++|..||....
T Consensus 224 ~~~C~~cG~-~~~~t~y~nlra~~~n~C~~C~~qg~ 258 (531)
T COG5259 224 PSSCSCCGN-KSFNTRYHNLRAEKYNSCSECYDQGR 258 (531)
T ss_pred CceeeccCc-cccchhhhhhhhhhcccchHHHhcCc
Confidence 378999984 55668999999999999999998743
No 131
>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=23.12 E-value=2e+02 Score=24.83 Aligned_cols=66 Identities=24% Similarity=0.370 Sum_probs=41.5
Q ss_pred eEEEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchh-HHHHHHhcCceE
Q 003535 5 MVIKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDD-LCDVMRQRLKFL 82 (812)
Q Consensus 5 ~iiKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~D-L~~a~~q~l~~L 82 (812)
++||.--++. .+.+.+.+ +.+...|+.+|++.+.+++ ++..|.|. |- .|.|+.. |.+.-.+....|
T Consensus 1 l~v~~~~~g~--~~~l~v~~----~~TV~~lK~~I~~~~gip~-~~q~Li~~---Gk--~L~D~~~~L~~~gi~~~~~l 67 (71)
T cd01796 1 ITVYTARSET--TFSLDVDP----DLELENFKALCEAESGIPA-SQQQLIYN---GR--ELVDNKRLLALYGVKDGDLV 67 (71)
T ss_pred CEEEECCCCC--EEEEEECC----cCCHHHHHHHHHHHhCCCH-HHeEEEEC---Ce--EccCCcccHHHcCCCCCCEE
Confidence 4566662333 36677654 6889999999999999986 56677775 33 4566544 444323333333
No 132
>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=22.78 E-value=2.3e+02 Score=26.71 Aligned_cols=62 Identities=23% Similarity=0.226 Sum_probs=42.5
Q ss_pred eeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHHHhcCceEEEEEEec
Q 003535 18 FNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRIDVHLN 89 (812)
Q Consensus 18 f~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~LritV~l~ 89 (812)
+.+.+.+ +.+...|+++|+...++++ ++..|.|.-. .|.|+.-|.+.-.+....|.+.+.+.
T Consensus 40 ~~leV~~----~~TV~~lK~kI~~~~gip~-~~QrLi~~Gk-----~L~D~~tL~dy~I~~~stL~l~~~l~ 101 (103)
T cd01802 40 FELRVSP----FETVISVKAKIQRLEGIPV-AQQHLIWNNM-----ELEDEYCLNDYNISEGCTLKLVLAMR 101 (103)
T ss_pred EEEEeCC----CCcHHHHHHHHHHHhCCCh-HHEEEEECCE-----ECCCCCcHHHcCCCCCCEEEEEEecC
Confidence 4455543 5678999999999999986 4677778532 37777777654344455677776543
No 133
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=22.74 E-value=2.9e+02 Score=29.92 Aligned_cols=86 Identities=17% Similarity=0.276 Sum_probs=52.8
Q ss_pred CcEEEEEEEEcCCCCCCCCCcEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCCCCceEEEEEEEECCCCCc
Q 003535 495 TPFTKIWRMRNTGNLAWPRGSQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPELPGRYISYWRMSSPSGVK 574 (812)
Q Consensus 495 t~FtKtWrLrN~Gt~~WP~Gt~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~~pG~Y~SyWRL~tpdG~~ 574 (812)
..|... +++|.....||.|-.-+|.+|...+.. .++ .+++|+++.++.--- |..-..+.--.+ ....| .
T Consensus 167 ~a~l~a-~~~n~~~~~L~~G~~~v~~dg~~vG~~-----~l~--~~~~ge~~~l~~G~d-~~v~v~r~~~~~-~~~~g-~ 235 (317)
T PF13598_consen 167 NAYLVA-RFKNTSGLPLLPGPVSVYRDGTFVGES-----RLP--HTAPGEEFELSFGVD-PDVRVERKLLKK-EEERG-F 235 (317)
T ss_pred CeEEEE-EEECCCCCcccCCcEEEEECCEEEEee-----ecC--CCCCCCEEEEEcccC-CCEEEEEEecce-ecccc-c
Confidence 345544 699999999999999999998766632 222 477888877654321 333334444444 33233 5
Q ss_pred cCC----eEEEEEEEcCCCcc
Q 003535 575 FGQ----RVWVLIQVDPSLKD 591 (812)
Q Consensus 575 FG~----rLWv~I~V~~~~~~ 591 (812)
||. +....|+|......
T Consensus 236 ~~~~~~~~~~~~itv~N~~~~ 256 (317)
T PF13598_consen 236 FGKSQRRTYEYTITVRNNKDE 256 (317)
T ss_pred ccccEEEEEEEEEEEECCCCC
Confidence 663 45566777665443
No 134
>smart00311 PWI PWI, domain in splicing factors.
Probab=22.68 E-value=1.8e+02 Score=25.69 Aligned_cols=34 Identities=24% Similarity=0.439 Sum_probs=24.6
Q ss_pred cCCcc---hhhhHHHHHhccCChhhHHHHhhccccchHHHHHHHHcCCCch
Q 003535 738 MGFKQ---VDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEMGFHDE 785 (812)
Q Consensus 738 mGF~~---~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~EmGf~d~ 785 (812)
+||.+ +|+-.+.|+++. .=|+++.+|++.||.|+
T Consensus 21 LG~~d~~vvd~i~~~l~~~~--------------~~~~l~~~L~~~~f~da 57 (74)
T smart00311 21 LGFEEDTLVEFILSQIRQHK--------------GPQAKLLQINLTGFEDA 57 (74)
T ss_pred HCCChHHHHHHHHHHHHhCC--------------ChHHHHHHHHhhcchhH
Confidence 58888 455555555443 56889999999999974
No 135
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=22.63 E-value=1.1e+02 Score=35.85 Aligned_cols=83 Identities=23% Similarity=0.328 Sum_probs=56.8
Q ss_pred eEEEEEe-CCceeeeeeccCCCCCccccHH-HHHHHHHH-----Hh----CCCCCCceEEEEecCC-------CCeEEEc
Q 003535 5 MVIKVKY-GDTLRRFNARVDENEKLDLDID-GLRAKIKS-----LF----NFPHDSDLTLTYVDED-------GDIVTLV 66 (812)
Q Consensus 5 ~iiKvk~-gd~lRRf~i~~~~n~~~dl~~~-~L~~ki~~-----~F----~l~~d~~~~i~Y~DeD-------GD~VTL~ 66 (812)
+.++|+- +|..+-+.+.-..++++=+.|. .|=+.+++ +| ++++..-=+|-.+|+| |.+|||.
T Consensus 45 l~L~V~~rdGe~~~l~Ie~~~dedlG~~f~~~~~d~~~~C~N~C~FCFidQlP~gmR~sLY~KDDDyRLSFL~GnyiTLT 124 (433)
T TIGR03279 45 LELEVLDANGESHQIEIEKDLDEDLGLEFTTALFDGLIQCNNRCPFCFIDQQPPGKRESLYLKDDDYRLSFLYGSYLTLT 124 (433)
T ss_pred EEEEEEcCCCeEEEEEEecCCCCCCcEEeccccCCcccccCCcCceEeccCCCCCCcCcceeccCcchhhhhccceeeec
Confidence 5566642 4444444555444455555553 33233443 34 7888888888889988 9999998
Q ss_pred C--chhHHHHHHhcCceEEEEEE
Q 003535 67 D--DDDLCDVMRQRLKFLRIDVH 87 (812)
Q Consensus 67 D--d~DL~~a~~q~l~~LritV~ 87 (812)
. +.|+.+.++|++.+|.|+|+
T Consensus 125 Nl~~~d~~RI~~~~lspl~iSVh 147 (433)
T TIGR03279 125 NLPPAEWQRIEQLRLSPLYVSVH 147 (433)
T ss_pred CCCHHHHHHHHHcCCCCEEEEEe
Confidence 6 55999999999999999994
No 136
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=22.30 E-value=1.4e+02 Score=33.87 Aligned_cols=35 Identities=23% Similarity=0.414 Sum_probs=27.4
Q ss_pred HHHHHHcCCcchhhhHHHHHhccCChhhHHHHhhccccch
Q 003535 732 LRELEEMGFKQVDLNKEILRMNEYDLEQSVDDLCGVSEWD 771 (812)
Q Consensus 732 l~el~~mGF~~~d~n~~~l~~n~~~~~~~v~~l~~~~ewd 771 (812)
|.+|+.+|....|.+| |++++|. +|.||..++.++
T Consensus 28 ~~~l~~~gi~~~~i~k--L~~~g~~---T~~~~~~~~~~~ 62 (342)
T PLN03186 28 IEQLQASGIAALDIKK--LKDAGIH---TVESLAYAPKKD 62 (342)
T ss_pred HHHHHhCCCCHHHHHH--HHHcCCC---cHHHHHhCCHHH
Confidence 8999999999998876 8999985 566666665443
No 137
>PF11906 DUF3426: Protein of unknown function (DUF3426); InterPro: IPR021834 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 262 to 463 amino acids in length.
Probab=22.09 E-value=5.5e+02 Score=24.86 Aligned_cols=66 Identities=15% Similarity=0.256 Sum_probs=42.7
Q ss_pred CCCcEEEEEEEEcCC--CCCCCCCcEEEEecCC--CCCCCCceeeecC----------CCCCCCCCEEEEEEEEecCCCC
Q 003535 493 PSTPFTKIWRMRNTG--NLAWPRGSQLVWIGGD--KFSDGVSVEIEVP----------ADGVPVEGEIDIAVDFTAPELP 558 (812)
Q Consensus 493 Pgt~FtKtWrLrN~G--t~~WP~Gt~LvfvgGd--~m~~~dsv~l~IP----------v~~V~PGEevdVSV~L~AP~~p 558 (812)
-+..|+-..+|+|.+ ...|| ...|.+.+-+ .+.. .+-.| ...++||+++.|.+.|..|...
T Consensus 66 ~~~~l~v~g~i~N~~~~~~~~P-~l~l~L~D~~g~~l~~----r~~~P~~yl~~~~~~~~~l~pg~~~~~~~~~~~p~~~ 140 (149)
T PF11906_consen 66 GPGVLVVSGTIRNRADFPQALP-ALELSLLDAQGQPLAR----RVFTPADYLPPGLAAQAGLPPGESVPFRLRLEDPPPR 140 (149)
T ss_pred CCCEEEEEEEEEeCCCCcccCc-eEEEEEECCCCCEEEE----EEEChHHhcccccccccccCCCCeEEEEEEeeCCCCc
Confidence 466899999999965 56786 5666666422 1211 11111 3469999999999999987654
Q ss_pred c-eEEE
Q 003535 559 G-RYIS 563 (812)
Q Consensus 559 G-~Y~S 563 (812)
. .|.-
T Consensus 141 a~~~~v 146 (149)
T PF11906_consen 141 AAGYRV 146 (149)
T ss_pred cceEEE
Confidence 3 3543
No 138
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=22.01 E-value=1.7e+02 Score=27.10 Aligned_cols=56 Identities=27% Similarity=0.334 Sum_probs=40.1
Q ss_pred EEEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHHH
Q 003535 7 IKVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDVM 75 (812)
Q Consensus 7 iKvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a~ 75 (812)
+||+=-+...|+-|-.. ++..|+.|.+..|+++.. +.| -.+||| |..|++|....+
T Consensus 5 fkv~~~~r~~kkGV~A~-------sL~EL~~K~~~~L~~~~~--~~l-vLeeDG---T~Vd~EeyF~tL 60 (81)
T cd06537 5 FRVCDHKRTVRKGLTAA-------SLQELLAKALETLLLSGV--LTL-VLEEDG---TAVDSEDFFELL 60 (81)
T ss_pred eEEecCCCCeeEeEEcc-------CHHHHHHHHHHHhCCCCc--eEE-EEecCC---CEEccHHHHhhC
Confidence 67776777777777744 789999999999999632 333 356788 556777777543
No 139
>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=21.92 E-value=2.1e+02 Score=24.85 Aligned_cols=56 Identities=13% Similarity=0.159 Sum_probs=40.6
Q ss_pred EEEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCCceEEEEecCCCCeEEEcCchhHHHH
Q 003535 8 KVKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDSDLTLTYVDEDGDIVTLVDDDDLCDV 74 (812)
Q Consensus 8 Kvk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~~~~i~Y~DeDGD~VTL~Dd~DL~~a 74 (812)
|||.-+. |.|.+.+++ +.+...|+++|++.++++++ +..|-|.-. .|.|+.-|.+.
T Consensus 2 ~vk~~~G-~~~~l~v~~----~~TV~~lK~~I~~~~gi~~~-~q~Li~~G~-----~L~D~~~l~~~ 57 (70)
T cd01794 2 KVRLSTG-KDVKLSVSS----KDTVGQLKKQLQAAEGVDPC-CQRWFFSGK-----LLTDKTRLQET 57 (70)
T ss_pred eEEcCCC-CEEEEEECC----cChHHHHHHHHHHHhCCCHH-HeEEEECCe-----ECCCCCCHHHc
Confidence 5555433 668888765 56889999999999999874 566768532 47788777753
No 140
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=21.73 E-value=69 Score=25.79 Aligned_cols=25 Identities=28% Similarity=0.504 Sum_probs=18.3
Q ss_pred ccCceecCCCCCCCc---ccceeecCCCC
Q 003535 376 FHKGVRCDGCGVHPI---TGPRFKSKVKD 401 (812)
Q Consensus 376 ~H~GV~CDgC~~~PI---~G~RYKCsvC~ 401 (812)
+.....|+.|+ ..| ...-|+|..|.
T Consensus 8 ~~~~~~C~~C~-~~i~g~~~~g~~C~~C~ 35 (53)
T PF00130_consen 8 FSKPTYCDVCG-KFIWGLGKQGYRCSWCG 35 (53)
T ss_dssp SSSTEB-TTSS-SBECSSSSCEEEETTTT
T ss_pred CCCCCCCcccC-cccCCCCCCeEEECCCC
Confidence 35668999999 467 45689999885
No 141
>PF10989 DUF2808: Protein of unknown function (DUF2808); InterPro: IPR021256 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=21.66 E-value=1.8e+02 Score=28.80 Aligned_cols=27 Identities=19% Similarity=0.345 Sum_probs=21.9
Q ss_pred CCCCCCCCCEEEEEE-EEecCCCCceEE
Q 003535 536 PADGVPVEGEIDIAV-DFTAPELPGRYI 562 (812)
Q Consensus 536 Pv~~V~PGEevdVSV-~L~AP~~pG~Y~ 562 (812)
+...|+||+++.|.+ .+.-|...|.|.
T Consensus 95 f~~PV~pG~tv~V~l~~v~NP~~~G~Y~ 122 (146)
T PF10989_consen 95 FDEPVPPGTTVTVVLSPVRNPRSGGTYQ 122 (146)
T ss_pred eCCCCCCCCEEEEEEEeeeCCCCCCeEE
Confidence 445789999999999 677899988875
No 142
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=21.45 E-value=59 Score=26.17 Aligned_cols=26 Identities=23% Similarity=0.590 Sum_probs=19.9
Q ss_pred ccCceecCCCCCC---Cccc-ceeecCCCC
Q 003535 376 FHKGVRCDGCGVH---PITG-PRFKSKVKD 401 (812)
Q Consensus 376 ~H~GV~CDgC~~~---PI~G-~RYKCsvC~ 401 (812)
+-.|+.|-.|+.. .|.+ .+|+|..|-
T Consensus 15 W~~g~~CP~Cg~~~~~~~~~~~~~~C~~C~ 44 (46)
T PF12760_consen 15 WPDGFVCPHCGSTKHYRLKTRGRYRCKACR 44 (46)
T ss_pred CCCCCCCCCCCCeeeEEeCCCCeEECCCCC
Confidence 4567889999852 4666 799999984
No 143
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=21.40 E-value=58 Score=32.73 Aligned_cols=35 Identities=29% Similarity=0.628 Sum_probs=27.5
Q ss_pred CceecCCCCCCCccccee-ecCCCCCCchhhhhhhcC
Q 003535 378 KGVRCDGCGVHPITGPRF-KSKVKDDYDLCSICFAAM 413 (812)
Q Consensus 378 ~GV~CDgC~~~PI~G~RY-KCsvC~DyDLCe~C~a~~ 413 (812)
.-+.||-|+. .-...|| |=..|..|.+|..||+..
T Consensus 79 ~lYeCnIC~e-tS~ee~FLKPneCCgY~iCn~Cya~L 114 (140)
T PF05290_consen 79 KLYECNICKE-TSAEERFLKPNECCGYSICNACYANL 114 (140)
T ss_pred CceeccCccc-ccchhhcCCcccccchHHHHHHHHHH
Confidence 5679999984 4455554 667899999999999983
No 144
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=21.26 E-value=32 Score=40.07 Aligned_cols=113 Identities=16% Similarity=0.274 Sum_probs=0.0
Q ss_pred EEeCCceeeeeeccCCCCCccccHHHHHHHHHHHhCCCCCC-ce-EEEEecCCCCeEEEcCchhHHHHHHhcCceEEEEE
Q 003535 9 VKYGDTLRRFNARVDENEKLDLDIDGLRAKIKSLFNFPHDS-DL-TLTYVDEDGDIVTLVDDDDLCDVMRQRLKFLRIDV 86 (812)
Q Consensus 9 vk~gd~lRRf~i~~~~n~~~dl~~~~L~~ki~~~F~l~~d~-~~-~i~Y~DeDGD~VTL~Dd~DL~~a~~q~l~~LritV 86 (812)
.+||+.+||+.++. .+++..||.-.-+-|.-.+.. +| -|--.|..=++----+|+.|.+ ++....|+|.+
T Consensus 2 Lq~~~~tKk~~~~~------~~t~~~lr~lFv~~F~~~~~~~~~p~IyI~Dp~~~v~yELed~~l~d--ikd~s~l~l~~ 73 (424)
T PF03915_consen 2 LQYGDKTKKCVLPN------PLTINSLRLLFVEKFAYSPGMDDFPEIYIQDPKSGVFYELEDSNLSD--IKDGSVLSLNE 73 (424)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCcCCeeeeeeCCC------CCCHHHHHHHHHHHccCCCCCCCCCceEeecCCCCceeeeccccccc--ccCCeeEEEec
Confidence 47999999999993 455777766777777444332 23 2333343222221112222443 22233455555
Q ss_pred Ee-cCCccCCccccCCCCCCCCCCCcccCCchhhhhHHHHHHhcCCchhHHHHH
Q 003535 87 HL-NNDKFGKAYARSSGSSTPLRSPRIQHPLPDIDSKISEILKSVPEPLREAIS 139 (812)
Q Consensus 87 ~l-~~~~~~~~~~~~~~~s~~~~~~~~q~~l~~i~~~i~~~l~s~~ep~~~~l~ 139 (812)
.- +.-.. ..++ .+..+.+.+..||..|++.-..+-..+.+...
T Consensus 74 ~~ldevk~------h~d~----~~~~l~~~i~~lk~~l~~~~~~~~~~~~~~~~ 117 (424)
T PF03915_consen 74 EPLDEVKK------HIDS----GIGGLSEEIEELKQELDEQQETILQRVKERQQ 117 (424)
T ss_dssp ------------------------------------------------------
T ss_pred ccccchhh------hhcc----chhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 32 11111 0111 13556667777887777766666333333333
No 145
>PF08958 DUF1871: Domain of unknown function (DUF1871); InterPro: IPR015053 This set of hypothetical proteins is produced by prokaryotes pertaining to the Bacillus genus. ; PDB: 1U84_A.
Probab=20.60 E-value=17 Score=33.10 Aligned_cols=34 Identities=29% Similarity=0.467 Sum_probs=19.2
Q ss_pred cccchHHHHHHHHcCCCchHHhHHHHHh-cCCchhhHH
Q 003535 767 VSEWDPILEELQEMGFHDEETNKRLLKK-NNGSIKGVV 803 (812)
Q Consensus 767 ~~ewdpll~El~EmGf~d~~~n~~~~~k-~~g~~~~~v 803 (812)
+++|||+ .|-+ ++||+|+++=+-.= .+.++..++
T Consensus 7 I~~WDP~--~~g~-deY~~Ei~~Iv~~v~~~~~~~~LA 41 (79)
T PF08958_consen 7 INEWDPF--GLGE-DEYDTEINDIVQAVHENDDPEELA 41 (79)
T ss_dssp HHHH-TT--SS-G-GGGHHHHHHHHHHHTT-S-HHHHH
T ss_pred HHcCCCC--cCCC-cccHHHHHHHHHHHHhCCCHHHHH
Confidence 3689998 4544 79999999855332 233544433
No 146
>COG3589 Uncharacterized conserved protein [Function unknown]
Probab=20.53 E-value=92 Score=35.60 Aligned_cols=44 Identities=32% Similarity=0.523 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHcCCcc-hhhhHHHHHhccCChhhHHHHhhccccchHHHHHHHHcCCC
Q 003535 726 AVEQTLLRELEEMGFKQ-VDLNKEILRMNEYDLEQSVDDLCGVSEWDPILEELQEMGFH 783 (812)
Q Consensus 726 ~~Ee~~l~el~~mGF~~-~d~n~~~l~~n~~~~~~~v~~l~~~~ewdpll~El~EmGf~ 783 (812)
+.=+.||++....|++- +|.|-.+|++-|.++. .|+.+||||+.
T Consensus 49 ~~~~ell~~Anklg~~vivDvnPsil~~l~~S~~--------------~l~~f~e~G~~ 93 (360)
T COG3589 49 HRFKELLKEANKLGLRVIVDVNPSILKELNISLD--------------NLSRFQELGVD 93 (360)
T ss_pred HHHHHHHHHHHhcCcEEEEEcCHHHHhhcCCChH--------------HHHHHHHhhhh
Confidence 44457899999999999 9999999999998876 68899999654
No 147
>TIGR02376 Cu_nitrite_red nitrite reductase, copper-containing. This family consists of copper-type nitrite reductase. It reduces nitrite to nitric oxide, the first step in denitrification.
Probab=20.51 E-value=3.3e+02 Score=30.27 Aligned_cols=87 Identities=15% Similarity=0.168 Sum_probs=45.2
Q ss_pred ccCCCCcEEEEEEEEcCCCCCCCC----C--cEEEEecCCCCCCCCceeeecCCCCCCCCCEEEEEEEEecCCCCceEEE
Q 003535 490 MMAPSTPFTKIWRMRNTGNLAWPR----G--SQLVWIGGDKFSDGVSVEIEVPADGVPVEGEIDIAVDFTAPELPGRYIS 563 (812)
Q Consensus 490 ~V~Pgt~FtKtWrLrN~Gt~~WP~----G--t~LvfvgGd~m~~~dsv~l~IPv~~V~PGEevdVSV~L~AP~~pG~Y~S 563 (812)
.+.+|+. ..|||.|.|...+-. | -.++..+|..+..... . ...-.+.|||..+|-|++. . || .
T Consensus 205 ~v~~G~~--~RlRiiNa~~~~~~~~~~~g~~~~~v~~DG~~~~~~~~-~--~~~~~i~PG~R~dv~v~~~--~-pG---~ 273 (311)
T TIGR02376 205 ALTAGVG--ERVLFVHSQPNRDSRPHLIGGHGDYVWVTGKFANPPNR-D--VETWFIPGGSAAAALYTFE--Q-PG---V 273 (311)
T ss_pred ccccCCc--EEEEEEcCCCCCCCCCeEecCCceEEEECCcccCCCCC-C--cceEEECCCceEEEEEEeC--C-Ce---E
Confidence 4666654 479999998754411 1 2234455655443220 0 0111378999998776654 3 67 4
Q ss_pred EEEEECCCCCccCCeEEEEEEEcC
Q 003535 564 YWRMSSPSGVKFGQRVWVLIQVDP 587 (812)
Q Consensus 564 yWRL~tpdG~~FG~rLWv~I~V~~ 587 (812)
||-.+.+....+....--.|.|+.
T Consensus 274 y~~~~~~~~~~~~~g~~~~i~~~g 297 (311)
T TIGR02376 274 YAYVDHNLIEAFEKGAAAQVKVEG 297 (311)
T ss_pred EEEECcHHHHHHhCCCEEEEEECC
Confidence 555565433322222223444543
No 148
>KOG2990 consensus C2C2-type Zn-finger protein [Function unknown]
Probab=20.08 E-value=37 Score=37.69 Aligned_cols=23 Identities=30% Similarity=0.640 Sum_probs=15.2
Q ss_pred cccCceecCCCCCCCcccceeec
Q 003535 375 MFHKGVRCDGCGVHPITGPRFKS 397 (812)
Q Consensus 375 ~~H~GV~CDgC~~~PI~G~RYKC 397 (812)
..-+.|.||||...--.|+||--
T Consensus 48 EMPynIWC~gC~nhIgmGvRyNA 70 (317)
T KOG2990|consen 48 EMPYNIWCDGCKNHIGMGVRYNA 70 (317)
T ss_pred ecccchhhccHHHhhhccceech
Confidence 34567899999743345667753
Done!