Query psy17486
Match_columns 172
No_of_seqs 195 out of 1638
Neff 7.4
Searched_HMMs 46136
Date Fri Aug 16 23:42:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17486.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17486hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0418|consensus 100.0 3.5E-45 7.5E-50 279.8 13.2 144 2-172 55-199 (200)
2 KOG0417|consensus 100.0 4.3E-37 9.3E-42 228.4 7.8 98 1-100 49-146 (148)
3 COG5078 Ubiquitin-protein liga 100.0 6.4E-35 1.4E-39 220.7 8.3 98 2-101 55-152 (153)
4 PTZ00390 ubiquitin-conjugating 100.0 2E-32 4.3E-37 208.2 10.5 98 2-101 51-148 (152)
5 PLN00172 ubiquitin conjugating 100.0 8.4E-32 1.8E-36 203.8 10.7 97 2-100 50-146 (147)
6 KOG0419|consensus 100.0 1.1E-30 2.4E-35 189.7 8.2 95 2-98 53-147 (152)
7 KOG0425|consensus 100.0 3.8E-30 8.2E-35 192.0 9.5 99 1-101 54-165 (171)
8 KOG0424|consensus 100.0 6E-30 1.3E-34 188.4 8.6 98 2-101 58-157 (158)
9 KOG0422|consensus 100.0 2.9E-28 6.3E-33 178.7 9.8 96 2-99 51-147 (153)
10 PF00179 UQ_con: Ubiquitin-con 99.9 4.9E-27 1.1E-31 175.8 8.3 92 2-95 47-139 (140)
11 KOG0420|consensus 99.9 2.4E-27 5.1E-32 179.4 6.3 94 4-99 80-173 (184)
12 smart00212 UBCc Ubiquitin-conj 99.9 5E-26 1.1E-30 171.4 9.8 96 2-99 48-144 (145)
13 KOG0421|consensus 99.9 1E-26 2.3E-31 171.4 5.6 89 3-94 79-167 (175)
14 cd00195 UBCc Ubiquitin-conjuga 99.9 6.5E-26 1.4E-30 170.0 9.1 93 2-96 48-141 (141)
15 KOG0416|consensus 99.9 6E-26 1.3E-30 171.5 5.4 97 4-101 51-148 (189)
16 KOG0426|consensus 99.9 1.3E-24 2.8E-29 158.3 8.4 97 1-99 53-162 (165)
17 KOG0423|consensus 99.9 2.8E-22 6.1E-27 152.1 5.6 92 10-102 66-157 (223)
18 KOG0427|consensus 99.6 9.4E-16 2E-20 111.9 5.4 68 4-73 65-134 (161)
19 KOG0429|consensus 99.4 3.2E-12 7E-17 100.8 8.5 103 4-107 69-176 (258)
20 KOG0894|consensus 99.2 2.3E-10 4.9E-15 90.2 9.8 95 3-101 55-162 (244)
21 smart00165 UBA Ubiquitin assoc 98.7 5.9E-08 1.3E-12 56.3 4.7 36 136-171 2-37 (37)
22 cd00194 UBA Ubiquitin Associat 98.6 1.1E-07 2.4E-12 55.4 4.9 37 136-172 2-38 (38)
23 PF00627 UBA: UBA/TS-N domain; 98.6 1.3E-07 2.9E-12 55.0 4.8 35 136-170 3-37 (37)
24 KOG0895|consensus 98.6 5.3E-08 1.1E-12 91.3 4.7 126 1-130 899-1051(1101)
25 KOG0428|consensus 98.4 6E-07 1.3E-11 72.4 4.9 61 2-66 59-122 (314)
26 KOG0897|consensus 98.2 1.5E-06 3.2E-11 62.4 3.0 61 6-67 17-78 (122)
27 KOG0895|consensus 98.1 3.8E-06 8.2E-11 79.2 5.5 64 2-67 331-405 (1101)
28 PF14461 Prok-E2_B: Prokaryoti 98.0 1.5E-05 3.2E-10 59.2 5.7 63 2-66 38-106 (133)
29 TIGR00601 rad23 UV excision re 97.9 1.3E-05 2.8E-10 69.3 4.5 39 134-172 155-193 (378)
30 KOG0896|consensus 97.8 2.7E-05 5.9E-10 57.4 4.5 58 8-65 63-122 (138)
31 KOG0011|consensus 97.3 0.00024 5.2E-09 59.8 4.3 39 134-172 134-172 (340)
32 PF05743 UEV: UEV domain; Int 97.2 0.00039 8.5E-09 50.9 3.9 60 4-66 52-117 (121)
33 PF14555 UBA_4: UBA-like domai 97.1 0.0014 3.1E-08 39.2 4.7 36 136-171 1-37 (43)
34 KOG2391|consensus 96.5 0.0066 1.4E-07 51.5 5.9 62 4-67 71-138 (365)
35 KOG0417|consensus 96.4 0.0024 5.2E-08 48.1 2.4 20 109-128 129-148 (148)
36 PF02845 CUE: CUE domain; Int 95.8 0.031 6.7E-07 33.0 4.8 36 136-171 2-39 (42)
37 PF09288 UBA_3: Fungal ubiquit 95.6 0.016 3.4E-07 36.6 3.1 26 136-161 10-35 (55)
38 TIGR00601 rad23 UV excision re 95.1 0.032 6.9E-07 48.5 4.4 41 132-172 334-374 (378)
39 KOG0418|consensus 94.6 0.09 2E-06 41.2 5.5 122 2-154 68-195 (200)
40 KOG0011|consensus 94.4 0.052 1.1E-06 46.0 4.0 40 133-172 296-335 (340)
41 smart00546 CUE Domain that may 94.0 0.2 4.3E-06 29.6 5.0 37 136-172 3-41 (43)
42 KOG0944|consensus 91.6 0.13 2.8E-06 47.5 2.4 38 135-172 635-672 (763)
43 KOG2561|consensus 88.5 3.7 8E-05 36.6 8.8 49 122-170 362-410 (568)
44 PF05773 RWD: RWD domain; Int 88.2 0.33 7.1E-06 33.8 1.8 24 2-26 51-74 (113)
45 PF14457 Prok-E2_A: Prokaryoti 88.1 0.72 1.6E-05 35.5 3.7 59 6-66 59-126 (162)
46 smart00591 RWD domain in RING 85.8 0.68 1.5E-05 31.9 2.3 22 3-25 44-65 (107)
47 KOG2561|consensus 85.2 1.2 2.6E-05 39.6 3.9 36 136-171 304-339 (568)
48 TIGR00264 alpha-NAC-related pr 84.8 2.4 5.1E-05 30.9 4.8 35 136-170 79-114 (116)
49 PF08694 UFC1: Ubiquitin-fold 84.8 0.86 1.9E-05 34.3 2.6 49 9-58 83-136 (161)
50 PRK06369 nac nascent polypepti 83.9 2.8 6E-05 30.5 4.8 36 136-171 77-113 (115)
51 PTZ00390 ubiquitin-conjugating 83.8 0.93 2E-05 34.3 2.4 28 102-129 123-150 (152)
52 smart00804 TAP_C C-terminal do 82.3 4.8 0.00011 26.0 5.0 37 134-170 11-48 (63)
53 PF06972 DUF1296: Protein of u 80.4 5.4 0.00012 25.5 4.6 38 135-172 5-44 (60)
54 COG5207 UBP14 Isopeptidase T [ 80.2 2.4 5.3E-05 38.4 4.0 36 136-171 559-595 (749)
55 PF03943 TAP_C: TAP C-terminal 80.1 2.5 5.3E-05 26.1 3.0 34 138-171 3-37 (51)
56 PF11626 Rap1_C: TRF2-interact 77.4 4.5 9.7E-05 27.6 3.9 33 139-171 1-33 (87)
57 KOG0010|consensus 76.8 4.1 8.8E-05 36.5 4.4 39 134-172 453-492 (493)
58 PF07223 DUF1421: Protein of u 74.6 3.5 7.6E-05 35.7 3.3 29 133-161 319-350 (358)
59 KOG0944|consensus 70.4 7.4 0.00016 36.3 4.6 36 136-171 572-608 (763)
60 PLN00172 ubiquitin conjugating 70.1 3.7 8.1E-05 30.8 2.3 23 104-126 124-146 (147)
61 COG1308 EGD2 Transcription fac 66.2 10 0.00022 27.8 3.8 36 136-171 85-121 (122)
62 PF07499 RuvA_C: RuvA, C-termi 62.8 14 0.0003 22.1 3.4 24 136-159 4-27 (47)
63 PF11547 E3_UbLigase_EDD: E3 u 62.7 10 0.00022 23.3 2.7 27 146-172 22-48 (53)
64 PF10075 PCI_Csn8: COP9 signal 62.2 8 0.00017 28.5 2.7 45 117-170 87-132 (143)
65 PF15187 Augurin: Oesophageal 56.1 39 0.00085 24.1 5.1 28 130-157 45-72 (114)
66 PF02954 HTH_8: Bacterial regu 55.6 10 0.00022 22.0 1.9 21 150-170 8-28 (42)
67 COG0525 ValS Valyl-tRNA synthe 55.4 78 0.0017 30.8 8.5 74 28-109 41-130 (877)
68 PF03765 CRAL_TRIO_N: CRAL/TRI 54.9 15 0.00033 22.3 2.7 24 148-171 30-53 (55)
69 KOG0432|consensus 51.7 66 0.0014 31.4 7.3 121 8-145 64-202 (995)
70 PF10440 WIYLD: Ubiquitin-bind 50.9 30 0.00066 22.5 3.6 34 132-165 8-47 (65)
71 COG4008 Predicted metal-bindin 50.3 82 0.0018 23.4 6.2 36 135-171 114-149 (153)
72 PF08938 HBS1_N: HBS1 N-termin 42.4 15 0.00032 24.5 1.3 24 148-171 45-68 (79)
73 PF14462 Prok-E2_E: Prokaryoti 42.0 81 0.0018 23.1 5.1 52 9-64 50-119 (122)
74 COG5207 UBP14 Isopeptidase T [ 42.0 17 0.00036 33.3 1.8 36 136-171 622-657 (749)
75 PF12244 DUF3606: Protein of u 41.3 56 0.0012 20.4 3.7 35 117-157 22-56 (57)
76 KOG4018|consensus 40.7 19 0.00041 28.9 1.8 17 4-21 53-69 (215)
77 PF02909 TetR_C: Tetracyclin r 38.5 28 0.00061 24.7 2.3 62 93-158 9-70 (139)
78 KOG0177|consensus 36.3 17 0.00036 28.8 0.8 28 35-62 135-162 (200)
79 PRK14136 recX recombination re 36.2 1.7E+02 0.0036 25.0 6.8 46 114-159 257-302 (309)
80 PF11372 DUF3173: Domain of un 35.8 41 0.00088 21.5 2.4 18 140-157 7-24 (59)
81 KOG3203|consensus 31.7 25 0.00055 26.9 1.1 15 24-40 49-63 (165)
82 KOG3357|consensus 31.2 48 0.001 24.7 2.5 47 10-57 87-138 (167)
83 KOG2851|consensus 28.9 1.2E+02 0.0025 26.6 4.7 34 30-63 331-369 (412)
84 PF08587 UBA_2: Ubiquitin asso 28.3 24 0.00052 21.4 0.4 22 139-160 6-28 (46)
85 PF14460 Prok-E2_D: Prokaryoti 27.7 75 0.0016 24.4 3.2 19 24-43 90-111 (175)
86 TIGR03737 PRTRC_B PRTRC system 26.6 96 0.0021 25.2 3.7 43 24-71 131-177 (228)
87 KOG3163|consensus 26.2 35 0.00076 27.4 1.1 49 4-55 151-212 (260)
88 PRK14601 ruvA Holliday junctio 25.4 2.8E+02 0.0061 21.6 6.1 26 134-159 141-166 (183)
89 PF02631 RecX: RecX family; I 22.6 1.5E+02 0.0032 20.9 3.8 42 117-158 75-118 (121)
90 COG5078 Ubiquitin-protein liga 22.5 83 0.0018 23.9 2.5 23 105-127 130-152 (153)
91 TIGR00422 valS valyl-tRNA synt 22.3 4E+02 0.0087 25.7 7.6 82 18-109 33-130 (861)
92 COG0632 RuvA Holliday junction 21.7 1.8E+02 0.0039 23.1 4.4 26 135-160 156-181 (201)
93 KOG1071|consensus 21.4 1.9E+02 0.0042 24.8 4.7 36 135-170 46-82 (340)
94 KOG0309|consensus 21.2 63 0.0014 31.1 1.9 21 3-24 469-490 (1081)
95 PRK13245 hetR heterocyst diffe 20.8 1.1E+02 0.0024 25.1 3.0 51 78-128 224-283 (299)
No 1
>KOG0418|consensus
Probab=100.00 E-value=3.5e-45 Score=279.78 Aligned_cols=144 Identities=53% Similarity=0.849 Sum_probs=137.8
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQY 81 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~ 81 (172)
|...|++ |++|||+||+|+|.|+||||||++.+|.||||||++.|++++||+++|++||++|..|+|.||.++.++++|
T Consensus 55 FeldI~i-Pe~YPF~pPkv~F~TkIwHPnVSs~tGaICLDilkd~Wa~slTlrtvLislQalL~~pEp~dPqDavva~qy 133 (200)
T KOG0418|consen 55 FELDIKI-PENYPFKPPKVKFITKIWHPNVSSQTGAICLDILKDQWAASLTLRTVLISLQALLCAPEPKDPQDAVVAEQY 133 (200)
T ss_pred EEEEEec-CCCCCCCCCceeeeeeeecCCCCcccccchhhhhhcccchhhhHHHHHHHHHHHHcCCCCCChHHHHHHHHH
Confidence 5567888 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhCHHHHHHHHHHHHHHHHHHHHHhhhcCchhhHHHHHHHHHHhcCCC-CCCCchHHHHHHHHHcCCChHHHHHHHHhcC
Q psy17486 82 KENPEMFTLTARHWTNVYAGVVAKQYKENPEMFTLTARHWTNVYAGGP-SKNPDFDSKIQRLTDMGVMSHDARVALSTYN 160 (172)
Q Consensus 82 ~~~~~~f~~~ar~~t~~~a~~~~~~~~~~~~~~~~~a~~w~~~~~~~~-~~~~~~~~kv~~l~~~gf~~~~a~~aLs~~~ 160 (172)
.+|++.| .++||.||..||+++ ...+...++|+.|.+|||+++.++.+|+..+
T Consensus 134 ~~n~~~F--------------------------~~TAr~WT~~fA~~~~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~ 187 (200)
T KOG0418|consen 134 VDNYEMF--------------------------YKTARYWTTEFAGGRLPDDPWDKKKVDSLIEMGFSELEAILVLSGSD 187 (200)
T ss_pred hhhHHHH--------------------------HHHHHHHHHHHhCCCCCCCchhHHHHHHHHHhcccHHHHHHHhhccc
Confidence 9999999 899999999999994 4467899999999999999999999999999
Q ss_pred CChHHHHHHhhC
Q psy17486 161 WELERATEAIFT 172 (172)
Q Consensus 161 W~~~~a~~~l~~ 172 (172)
|+++.|.+.|++
T Consensus 188 w~~~~a~~~~~s 199 (200)
T KOG0418|consen 188 WNLADATEQLLS 199 (200)
T ss_pred cchhhhhHhhcc
Confidence 999999999985
No 2
>KOG0417|consensus
Probab=100.00 E-value=4.3e-37 Score=228.44 Aligned_cols=98 Identities=44% Similarity=0.764 Sum_probs=89.7
Q ss_pred CCCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHH
Q psy17486 1 MVDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQ 80 (172)
Q Consensus 1 ~~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~ 80 (172)
+|++.|.| |++||++||+|+|+|+||||||+ .+|.||||||+++|+|+++|++||++|+++|.+|++++|++.+++++
T Consensus 49 ~F~l~I~~-p~~YP~~PPkV~F~TkIyHPNI~-~~G~IclDILk~~WsPAl~i~~VllsI~sLL~~PnpddPL~~~ia~~ 126 (148)
T KOG0417|consen 49 VFFLEIHF-PEDYPFKPPKVRFLTKIYHPNID-SNGRICLDILKDQWSPALTISKVLLSICSLLSDPNPDDPLVPDIAEL 126 (148)
T ss_pred EEEEEEEC-CCCCCCCCCceEeecccccCCcC-ccccchHHhhhccCChhhHHHHHHHHHHHHhcCCCCCccccHHHHHH
Confidence 35677888 99999999999999999999999 59999999999999999999999999999999999999999999999
Q ss_pred HhhCHHHHHHHHHHHHHHHH
Q psy17486 81 YKENPEMFTLTARHWTNVYA 100 (172)
Q Consensus 81 ~~~~~~~f~~~ar~~t~~~a 100 (172)
|+.|+++|.++||+||.+||
T Consensus 127 ~k~d~~~~~~~ARewt~kyA 146 (148)
T KOG0417|consen 127 YKTDRAKYERTAREWTRKYA 146 (148)
T ss_pred HHhhHHHHHHHHHHHHHHHh
Confidence 99999999555555555554
No 3
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.4e-35 Score=220.67 Aligned_cols=98 Identities=40% Similarity=0.758 Sum_probs=93.9
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQY 81 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~ 81 (172)
++.+|.| |++||++||+|+|.|+||||||+ .+|.||||||+++|+|+++|++||++|+++|.+||+++|+|.+||++|
T Consensus 55 f~~~l~f-P~~YP~~PPkv~F~t~i~HPNV~-~~G~vCLdIL~~~WsP~~~l~sILlsl~slL~~PN~~~Pln~daa~~~ 132 (153)
T COG5078 55 FKLTLEF-PEDYPFKPPKVRFTTKIFHPNVD-PSGNVCLDILKDRWSPVYTLETILLSLQSLLLSPNPDSPLNTEAATLY 132 (153)
T ss_pred EEEEEEC-CCCCCCCCCeeeeccCCcCCCcC-CCCCChhHHHhCCCCccccHHHHHHHHHHHHcCCCCCCCCChHHHHHH
Confidence 5678999 99999999999999999999999 699999999999999999999999999999999999999999999999
Q ss_pred hhCHHHHHHHHHHHHHHHHH
Q psy17486 82 KENPEMFTLTARHWTNVYAG 101 (172)
Q Consensus 82 ~~~~~~f~~~ar~~t~~~a~ 101 (172)
++|+++|.++||+|+++|+.
T Consensus 133 ~~d~~~y~~~vr~~~~~~~~ 152 (153)
T COG5078 133 REDKEEYEKKVREWVKKYAE 152 (153)
T ss_pred HhCHHHHHHHHHHHHHHhcc
Confidence 99999998888888888863
No 4
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=99.98 E-value=2e-32 Score=208.24 Aligned_cols=98 Identities=47% Similarity=0.791 Sum_probs=90.2
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQY 81 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~ 81 (172)
++.+|.| |++||++||+|+|.|+||||||+. +|.||+++|.++|+|++||++||++|+++|.+|++++|+|.+||++|
T Consensus 51 f~~~i~~-p~~YP~~pP~v~F~t~i~HPNV~~-~G~iCl~iL~~~W~p~~ti~~iL~~i~~ll~~P~~~~pln~~aa~~~ 128 (152)
T PTZ00390 51 YKLELFL-PEQYPMEPPKVRFLTKIYHPNIDK-LGRICLDILKDKWSPALQIRTVLLSIQALLSAPEPDDPLDTSVADHF 128 (152)
T ss_pred EEEEEEC-ccccCCCCCEEEEecCCeeceECC-CCeEECccCcccCCCCCcHHHHHHHHHHHHhCCCCCCchHHHHHHHH
Confidence 4678888 999999999999999999999995 99999999999999999999999999999999999999999999999
Q ss_pred hhCHHHHHHHHHHHHHHHHH
Q psy17486 82 KENPEMFTLTARHWTNVYAG 101 (172)
Q Consensus 82 ~~~~~~f~~~ar~~t~~~a~ 101 (172)
++|++.|.++||+|+++||.
T Consensus 129 ~~d~~~f~~~a~~~~~~~a~ 148 (152)
T PTZ00390 129 KNNRADAEKVAREWNQKYAK 148 (152)
T ss_pred HHCHHHHHHHHHHHHHHHhc
Confidence 99999996666666666654
No 5
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=99.97 E-value=8.4e-32 Score=203.77 Aligned_cols=97 Identities=44% Similarity=0.775 Sum_probs=91.7
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQY 81 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~ 81 (172)
++.+|.| |++||++||+|+|.|+||||||+. +|.||+++|.++|+|++||++||.+|+++|.+|++++|+|.+||++|
T Consensus 50 f~~~i~f-p~~YP~~pP~v~f~t~i~HPNv~~-~G~iCl~il~~~W~p~~ti~~il~~i~~ll~~P~~~~p~n~~aa~~~ 127 (147)
T PLN00172 50 FFLSILF-PPDYPFKPPKVQFTTKIYHPNINS-NGSICLDILRDQWSPALTVSKVLLSISSLLTDPNPDDPLVPEIARVF 127 (147)
T ss_pred EEEEEEC-CcccCCCCCEEEEecCcccceECC-CCEEEcccCcCCCCCcCcHHHHHHHHHHHHhCCCCCCchHHHHHHHH
Confidence 5678899 999999999999999999999995 99999999999999999999999999999999999999999999999
Q ss_pred hhCHHHHHHHHHHHHHHHH
Q psy17486 82 KENPEMFTLTARHWTNVYA 100 (172)
Q Consensus 82 ~~~~~~f~~~ar~~t~~~a 100 (172)
++|+++|.++||+|+++||
T Consensus 128 ~~~~~~f~~~a~~~~~~~a 146 (147)
T PLN00172 128 KENRSRYEATAREWTQRYA 146 (147)
T ss_pred HHCHHHHHHHHHHHHHHhh
Confidence 9999999878888777775
No 6
>KOG0419|consensus
Probab=99.97 E-value=1.1e-30 Score=189.73 Aligned_cols=95 Identities=27% Similarity=0.635 Sum_probs=90.3
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQY 81 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~ 81 (172)
|..++.| +++||.+||.|+|++++|||||++ +|.||||||..+|+|++++.+||.+||+||.+|++.+|.|.+||++|
T Consensus 53 FkLtl~F-teeYpnkPP~VrFvs~mFHPNvya-~G~iClDiLqNrWsp~Ydva~ILtsiQslL~dPn~~sPaN~eAA~Lf 130 (152)
T KOG0419|consen 53 FKLTLEF-TEEYPNKPPTVRFVSKMFHPNVYA-DGSICLDILQNRWSPTYDVASILTSIQSLLNDPNPNSPANSEAARLF 130 (152)
T ss_pred EEEEEEc-ccccCCCCCeeEeeeeccCCCcCC-CCcchHHHHhcCCCCchhHHHHHHHHHHHhcCCCCCCcccHHHHHHH
Confidence 5678999 999999999999999999999996 89999999999999999999999999999999999999999999999
Q ss_pred hhCHHHHHHHHHHHHHH
Q psy17486 82 KENPEMFTLTARHWTNV 98 (172)
Q Consensus 82 ~~~~~~f~~~ar~~t~~ 98 (172)
.+|+.+|.++|++-+.+
T Consensus 131 ~e~~rey~rrVk~~veq 147 (152)
T KOG0419|consen 131 SENKREYERRVKETVEQ 147 (152)
T ss_pred hhChHHHHHHHHHHHHH
Confidence 99999999998887554
No 7
>KOG0425|consensus
Probab=99.96 E-value=3.8e-30 Score=191.95 Aligned_cols=99 Identities=26% Similarity=0.614 Sum_probs=93.5
Q ss_pred CCCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCC-------------CCcCCcCCHHHHHHHHHHhhcCC
Q psy17486 1 MVDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILK-------------DQWAAAMTLRTVLLSLQALMAAA 67 (172)
Q Consensus 1 ~~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~-------------~~W~p~~~l~~vL~~i~~ll~~p 67 (172)
+|++.|+| |.+||..||+++|.|+||||||+ ++|.||++||. ++|.|..|+++||+||.+||.+|
T Consensus 54 ~FkA~m~F-P~dYP~sPP~~rF~s~mwHPNvy-~~G~vCISILH~pgdD~~gyE~~~erW~Pv~tvetIllSiIsmL~~P 131 (171)
T KOG0425|consen 54 FFKAHMKF-PQDYPLSPPTFRFTSKMWHPNVY-EDGDVCISILHPPGDDPSGYELPSERWLPVQTVETILLSIISMLNSP 131 (171)
T ss_pred eeEEEEeC-cccCCCCCCceeeehhhcCCCcC-CCCCEEEEeecCCCCCcccCCChhhccCCccchhHhHHHHHHHHcCC
Confidence 46789999 99999999999999999999999 59999999993 57999999999999999999999
Q ss_pred CCCChHHHHHHHHHhhCHHHHHHHHHHHHHHHHH
Q psy17486 68 EPDDPQDAVVAKQYKENPEMFTLTARHWTNVYAG 101 (172)
Q Consensus 68 ~~~~p~n~~aa~~~~~~~~~f~~~ar~~t~~~a~ 101 (172)
|.++|+|.+||+.|++|+++|.++|++++.+...
T Consensus 132 N~~SPANVDAa~~~Ren~~EykkkV~r~vr~s~e 165 (171)
T KOG0425|consen 132 NDESPANVDAAKEWRENPEEYKKKVRRCVRRSQE 165 (171)
T ss_pred CCCCccchHHHHHHhhCHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999988653
No 8
>KOG0424|consensus
Probab=99.96 E-value=6e-30 Score=188.41 Aligned_cols=98 Identities=26% Similarity=0.532 Sum_probs=93.5
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCC--cCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQ--WAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAK 79 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~--W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~ 79 (172)
...+|.| |++||..||+++|.+++|||||++ +|.|||+||.++ |+|++||.+||++||.||.+||+.+|.+.+|+.
T Consensus 58 y~l~v~F-~~dyP~~PPkckF~~pl~HPNVyp-sgtVcLsiL~e~~~W~paitikqiL~gIqdLL~~Pn~~~pAq~eA~~ 135 (158)
T KOG0424|consen 58 YKLTVNF-PDDYPSSPPKCKFKPPLFHPNVYP-SGTVCLSILNEEKDWRPAITIKQILLGIQDLLDTPNITSPAQTEAYT 135 (158)
T ss_pred EEEEEeC-CccCCCCCCccccCCCCcCCCcCC-CCcEehhhhccccCCCchhhHHHHHHHHHHHhcCCCCCCchhhHHHH
Confidence 4578999 999999999999999999999997 999999999765 999999999999999999999999999999999
Q ss_pred HHhhCHHHHHHHHHHHHHHHHH
Q psy17486 80 QYKENPEMFTLTARHWTNVYAG 101 (172)
Q Consensus 80 ~~~~~~~~f~~~ar~~t~~~a~ 101 (172)
+|.+|+.+|+++||.++++||.
T Consensus 136 ~~~~~r~eYekrvr~qak~~a~ 157 (158)
T KOG0424|consen 136 IYCQDRAEYEKRVRAQAKEYAK 157 (158)
T ss_pred HHhhCHHHHHHHHHHHHHHhcc
Confidence 9999999999999999999874
No 9
>KOG0422|consensus
Probab=99.95 E-value=2.9e-28 Score=178.66 Aligned_cols=96 Identities=31% Similarity=0.615 Sum_probs=85.8
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccC-CCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDIL-KDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQ 80 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l-~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~ 80 (172)
+..+|.| |.+|||+||+|.|.|+|||||||. .|.||+.|+ .++|.|+.+.++||+++.+++.+|++++|++.++|..
T Consensus 51 F~l~I~f-p~eYPFKPP~i~f~tkiYHpNVDe-~gqvClPiis~EnWkP~T~teqVlqaLi~liN~P~pe~plr~dlA~e 128 (153)
T KOG0422|consen 51 FRLEIDF-PVEYPFKPPKIKFKTKIYHPNVDE-KGQVCLPIISAENWKPATRTEQVLQALIALINDPEPEHPLRIDLAEE 128 (153)
T ss_pred eEEEeeC-CCCCCCCCCeeeeeeeeccCCCCC-CCceeeeeeecccccCcccHHHHHHHHHHHhcCCCccccchhhHHHH
Confidence 4567899 999999999999999999999995 799999999 6899999999999999999999999999999999999
Q ss_pred HhhCHHHHHHHHHHHHHHH
Q psy17486 81 YKENPEMFTLTARHWTNVY 99 (172)
Q Consensus 81 ~~~~~~~f~~~ar~~t~~~ 99 (172)
|.+|+..|.++|-+||++|
T Consensus 129 y~~d~~kF~K~Aee~tkK~ 147 (153)
T KOG0422|consen 129 YIKDPKKFVKNAEEFTKKY 147 (153)
T ss_pred HHHCHHHHHHhHHHHHHHh
Confidence 9999999933333333333
No 10
>PF00179 UQ_con: Ubiquitin-conjugating enzyme; InterPro: IPR000608 The post-translational attachment of ubiquitin (IPR000626 from INTERPRO) to proteins (ubiquitinylation) alters the function, location or trafficking of a protein, or targets it to the 26S proteasome for degradation [, , ]. Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade []. The E1 enzyme mediates an ATP-dependent transfer of a thioester-linked ubiquitin molecule to a cysteine residue on the E2 enzyme. The E2 enzyme (6.3.2.19 from EC) then either transfers the ubiquitin moiety directly to a substrate, or to an E3 ligase, which can also ubiquitinylate a substrate. There are several different E2 enzymes (over 30 in humans), which are broadly grouped into four classes, all of which have a core catalytic domain (containing the active site cysteine), and some of which have short N- and C-terminal amino acid extensions: class I enzymes consist of just the catalytic core domain (UBC), class II possess a UBC and a C-terminal extension, class III possess a UBC and an N-terminal extension, and class IV possess a UBC and both N- and C-terminal extensions. These extensions appear to be important for some subfamily function, including E2 localisation and protein-protein interactions []. In addition, there are proteins with an E2-like fold that are devoid of catalytic activity, but which appear to assist in poly-ubiquitin chain formation.; GO: 0016881 acid-amino acid ligase activity; PDB: 2AAK_A 3SY2_C 1FBV_C 3SQV_C 1C4Z_D 1JAT_B 2GMI_B 2H2Y_D 2R0J_A 3E95_B ....
Probab=99.94 E-value=4.9e-27 Score=175.84 Aligned_cols=92 Identities=38% Similarity=0.743 Sum_probs=81.8
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCC-CcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKD-QWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQ 80 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~-~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~ 80 (172)
++.+|.| |++||++||+|+|.|+||||||+ .+|.||+++|.. .|+|.++|.+||.+|+++|.+|++++|+|.+|+++
T Consensus 47 f~~~i~~-p~~YP~~pP~v~f~t~i~HPni~-~~G~icl~~l~~~~W~p~~~i~~il~~i~~ll~~p~~~~~~n~~a~~~ 124 (140)
T PF00179_consen 47 FKFRISF-PPDYPFSPPKVRFLTPIFHPNID-ENGRICLDILNPESWSPSYTIESILLSIQSLLSEPNPEDPLNEEAAEL 124 (140)
T ss_dssp EEEEEEE-TTTTTTS--EEEESSS-SBTTB--TTSBBGHGGGTTTTC-TTSHHHHHHHHHHHHHHSTCTTSTSSHHHHHH
T ss_pred ccccccc-ccccccccccccccccccccccc-ccccchhhhhhcccCCcccccccHHHHHHHHHhCCCCCCcchHHHHHH
Confidence 4678899 99999999999999999999999 699999999975 59999999999999999999999999999999999
Q ss_pred HhhCHHHHHHHHHHH
Q psy17486 81 YKENPEMFTLTARHW 95 (172)
Q Consensus 81 ~~~~~~~f~~~ar~~ 95 (172)
|++|++.|.++||+|
T Consensus 125 ~~~~~~~f~~~~~~~ 139 (140)
T PF00179_consen 125 YKNDREEFEKKAREW 139 (140)
T ss_dssp HHHCHHHHHHHHHHH
T ss_pred HHHCHHHHHHHHHHc
Confidence 999999998777776
No 11
>KOG0420|consensus
Probab=99.94 E-value=2.4e-27 Score=179.42 Aligned_cols=94 Identities=31% Similarity=0.555 Sum_probs=87.2
Q ss_pred cEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHHhh
Q psy17486 4 TTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQYKE 83 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~~~ 83 (172)
.++++ |+.||++||+|+.+|+||||||| .+|.|||+||.++|+|+.+|.+|+.+++.++.+|+++||+|.+||..+++
T Consensus 80 F~~~v-~~~Yp~~PPKVkCltkV~HPNId-~~GnVCLnILRedW~P~lnL~sIi~GL~~LF~epn~eDpLN~eAA~~l~~ 157 (184)
T KOG0420|consen 80 FKFKV-PNAYPHEPPKVKCLTKVYHPNID-LDGNVCLNILREDWRPVLNLNSIIYGLQFLFLEPNPEDPLNKEAAAVLKS 157 (184)
T ss_pred EEEEC-CCCCCCCCCeeeeeeccccCCcC-CcchHHHHHHHhcCccccchHHHHHHHHHHhccCCCcccccHHHHHHHHh
Confidence 45666 99999999999999999999999 59999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHH
Q psy17486 84 NPEMFTLTARHWTNVY 99 (172)
Q Consensus 84 ~~~~f~~~ar~~t~~~ 99 (172)
|++.|...||..-..|
T Consensus 158 n~e~F~~~Vr~~m~gg 173 (184)
T KOG0420|consen 158 NREGFENNVRRAMSGG 173 (184)
T ss_pred CHHHHHHHHHHHHhcC
Confidence 9999977777665544
No 12
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=99.93 E-value=5e-26 Score=171.41 Aligned_cols=96 Identities=48% Similarity=0.827 Sum_probs=91.0
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCC-CCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILK-DQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQ 80 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~-~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~ 80 (172)
+..+|.| |++||++||+|+|.|++|||||+. +|.||+++|. ++|+|+++|.+||.+|+++|.+|++++|+|.+|+++
T Consensus 48 f~~~l~~-p~~yP~~pP~v~f~~~i~Hp~i~~-~G~icl~~l~~~~W~p~~~l~~il~~i~~~l~~p~~~~~~n~eaa~~ 125 (145)
T smart00212 48 FKLTIEF-PPDYPFKPPKVKFITKIYHPNVDS-SGEICLDILKQEKWSPATTLETVLLSIQSLLSEPNPDSPLNADAATL 125 (145)
T ss_pred EEEEEEC-CcccCCCCCEEEEeCCceEeeECC-CCCEehhhcCCCCCCCCCcHHHHHHHHHHHHhCCCCCCcccHHHHHH
Confidence 4567888 999999999999999999999996 9999999998 899999999999999999999999999999999999
Q ss_pred HhhCHHHHHHHHHHHHHHH
Q psy17486 81 YKENPEMFTLTARHWTNVY 99 (172)
Q Consensus 81 ~~~~~~~f~~~ar~~t~~~ 99 (172)
|+++++.|.++|++++.+|
T Consensus 126 ~~~~~~~f~~~~~~~~~k~ 144 (145)
T smart00212 126 YKKNREEFKKKAREWTKKY 144 (145)
T ss_pred HHHCHHHHHHHHHHHHHHh
Confidence 9999999988888888876
No 13
>KOG0421|consensus
Probab=99.93 E-value=1e-26 Score=171.36 Aligned_cols=89 Identities=35% Similarity=0.658 Sum_probs=82.6
Q ss_pred CcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHHh
Q psy17486 3 DTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQYK 82 (172)
Q Consensus 3 ~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~~ 82 (172)
...+.| |.+||++||+|+|+|+.|||||| ..|.||||||++.|+..++++.||++||++|.+||.++|+|+.||+++.
T Consensus 79 klSl~F-p~~YPy~pP~vkFltpc~HPNVD-~~GnIcLDILkdKWSa~YdVrTILLSiQSLLGEPNn~SPLNaqAAelW~ 156 (175)
T KOG0421|consen 79 KLSLSF-PNNYPYKPPTVKFLTPCFHPNVD-LSGNICLDILKDKWSAVYDVRTILLSIQSLLGEPNNSSPLNAQAAELWS 156 (175)
T ss_pred EEEEec-CCCCCCCCCeeEeeccccCCCcc-ccccchHHHHHHHHHHHHhHHHHHHHHHHHhCCCCCCCcchhHHHHHhc
Confidence 357889 99999999999999999999999 5999999999999999999999999999999999999999999999998
Q ss_pred hCHHHHHHHHHH
Q psy17486 83 ENPEMFTLTARH 94 (172)
Q Consensus 83 ~~~~~f~~~ar~ 94 (172)
|.++|.+.+.+
T Consensus 157 -d~~eykk~l~~ 167 (175)
T KOG0421|consen 157 -DQEEYKKYLEA 167 (175)
T ss_pred -CHHHHHHHHHH
Confidence 99999544443
No 14
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=99.93 E-value=6.5e-26 Score=170.03 Aligned_cols=93 Identities=48% Similarity=0.815 Sum_probs=87.2
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCC-cCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQ-WAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQ 80 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~-W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~ 80 (172)
+..+|.| |++||++||+|+|.|++|||||+ .+|.||+++|... |+|+++|.+||.+|+++|.+|++++|+|.+|+.+
T Consensus 48 ~~~~~~~-p~~yP~~pP~v~f~~~i~HpnV~-~~G~icl~~l~~~~W~p~~~l~~il~~i~~~l~~p~~~~~~n~~aa~~ 125 (141)
T cd00195 48 FKLDIEF-PEDYPFKPPKVRFVTKIYHPNVD-ENGKICLSILKTHGWSPAYTLRTVLLSLQSLLNEPNPSDPLNAEAAKL 125 (141)
T ss_pred EEEEEEC-CCccCCCCCeEEEeCCcccCCCC-CCCCCchhhcCCCCcCCcCcHHHHHHHHHHHHhCCCCCCchhHHHHHH
Confidence 4568888 99999999999999999999999 6999999999876 9999999999999999999999999999999999
Q ss_pred HhhCHHHHHHHHHHHH
Q psy17486 81 YKENPEMFTLTARHWT 96 (172)
Q Consensus 81 ~~~~~~~f~~~ar~~t 96 (172)
|++|++.|.++|++|+
T Consensus 126 ~~~~~~~f~~~~~~~~ 141 (141)
T cd00195 126 YKENREEFKKKAREWT 141 (141)
T ss_pred HHHCHHHHHHHHHHhC
Confidence 9999999987777763
No 15
>KOG0416|consensus
Probab=99.92 E-value=6e-26 Score=171.55 Aligned_cols=97 Identities=27% Similarity=0.597 Sum_probs=91.2
Q ss_pred cEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHH-HHHhhcCCCCCChHHHHHHHHHh
Q psy17486 4 TTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLS-LQALMAAAEPDDPQDAVVAKQYK 82 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~-i~~ll~~p~~~~p~n~~aa~~~~ 82 (172)
.+|.. |++||++.|+|.|.|+||||||+..+|.||||.++..|+|.+.|-.|+.. |-.||..||+.||+|.+||.+|.
T Consensus 51 v~V~l-Pd~YP~KSPSIGFvnKIfHPNIDe~SGsVCLDViNQtWSp~yDL~NIfetfLPQLL~YPNp~DPLN~eAAal~l 129 (189)
T KOG0416|consen 51 VRVEL-PDNYPFKSPSIGFVNKIFHPNIDEASGSVCLDVINQTWSPLYDLVNIFETFLPQLLRYPNPSDPLNGEAAALYL 129 (189)
T ss_pred EEEEC-CCCCCCCCCcccceeeccCCCchhccCccHHHHHhhhhhHHHHHHHHHHHHhHHHhcCCCCCCCcccHHHHHHh
Confidence 35555 99999999999999999999999999999999999999999999999875 57889999999999999999999
Q ss_pred hCHHHHHHHHHHHHHHHHH
Q psy17486 83 ENPEMFTLTARHWTNVYAG 101 (172)
Q Consensus 83 ~~~~~f~~~ar~~t~~~a~ 101 (172)
.+++.|.+++|++.++||.
T Consensus 130 ~~~~~Y~~~v~eY~~kYA~ 148 (189)
T KOG0416|consen 130 RDPEEYEEKVKEYIKKYAT 148 (189)
T ss_pred cCHHHHHHHHHHHHHHhcC
Confidence 9999999999999999986
No 16
>KOG0426|consensus
Probab=99.91 E-value=1.3e-24 Score=158.27 Aligned_cols=97 Identities=21% Similarity=0.489 Sum_probs=91.2
Q ss_pred CCCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccCC-------------CCcCCcCCHHHHHHHHHHhhcCC
Q psy17486 1 MVDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILK-------------DQWAAAMTLRTVLLSLQALMAAA 67 (172)
Q Consensus 1 ~~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~-------------~~W~p~~~l~~vL~~i~~ll~~p 67 (172)
|+.+++.| |.+||..||+++|...+|||||++ +|+||++||. ++|+|..+++.||+++.+||.+|
T Consensus 53 vfpA~l~F-P~DYPLsPPkm~Ftc~~fHPNiy~-dG~VCISILHaPGDDP~~YEls~ERWSPVQSvEKILLSV~SMLaEP 130 (165)
T KOG0426|consen 53 VFPARLSF-PLDYPLSPPKMRFTCEMFHPNIYP-DGRVCISILHAPGDDPMGYELSAERWSPVQSVEKILLSVVSMLAEP 130 (165)
T ss_pred ccceeeec-CCCCCCCCCceeeecccccCcccC-CCeEEEEEeeCCCCCCccchhhhhcCChHHHHHHHHHHHHHHHcCC
Confidence 57889999 999999999999999999999996 9999999993 57999999999999999999999
Q ss_pred CCCChHHHHHHHHHhhCHHHHHHHHHHHHHHH
Q psy17486 68 EPDDPQDAVVAKQYKENPEMFTLTARHWTNVY 99 (172)
Q Consensus 68 ~~~~p~n~~aa~~~~~~~~~f~~~ar~~t~~~ 99 (172)
|-+++.|.+|+.++++++++|.+.|+..+.+.
T Consensus 131 NdESgANvdA~~mWRe~R~ef~~i~~~lvrKt 162 (165)
T KOG0426|consen 131 NDESGANVDACKMWREDREEFEKIAKRLVRKT 162 (165)
T ss_pred CcccCcccHHHHHHHHhHHHHHHHHHHHHHHh
Confidence 99999999999999999999988888877663
No 17
>KOG0423|consensus
Probab=99.86 E-value=2.8e-22 Score=152.08 Aligned_cols=92 Identities=30% Similarity=0.571 Sum_probs=89.6
Q ss_pred CCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHHHHHHHHhhCHHHHH
Q psy17486 10 TKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAVVAKQYKENPEMFT 89 (172)
Q Consensus 10 p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~~aa~~~~~~~~~f~ 89 (172)
..+||..||+-.|+|+||||||. .+|.||...|+..|.|.+.|+.||+.|..+|-.|+|++.+|.+++++..+++++|.
T Consensus 66 ~kDFP~sPPKgYFlTKIFHPNVa-aNGEICVNtLKkDW~p~LGirHvLltikCLLI~PnPESALNEeAGkmLLEnYdeYa 144 (223)
T KOG0423|consen 66 SKDFPHSPPKGYFLTKIFHPNVA-ANGEICVNTLKKDWNPSLGIRHVLLTIKCLLIEPNPESALNEEAGKMLLENYDEYA 144 (223)
T ss_pred cCCCCCCCCcceeeeeeccCCcc-cCceehhhhhhcccCcccchhhHhhhhheeeecCChHHHHhHHHHHHHHHhHHHHH
Confidence 88999999999999999999998 59999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy17486 90 LTARHWTNVYAGV 102 (172)
Q Consensus 90 ~~ar~~t~~~a~~ 102 (172)
++||-+|..|++.
T Consensus 145 ~rARl~TeIHa~p 157 (223)
T KOG0423|consen 145 RRARLYTEIHAKP 157 (223)
T ss_pred HHHHHHHHhhcCC
Confidence 9999999999874
No 18
>KOG0427|consensus
Probab=99.60 E-value=9.4e-16 Score=111.86 Aligned_cols=68 Identities=35% Similarity=0.663 Sum_probs=60.7
Q ss_pred cEEEEcCCCCCCCCCeeEEeccc-ccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcC-CCCCChH
Q psy17486 4 TTVKFVTKIWHPNISSVKFLTKI-WHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAA-AEPDDPQ 73 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v~F~t~i-~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~-p~~~~p~ 73 (172)
..++| |+.||++.|+|.|..++ -||+|++ +|.||||||.+.|+|++++.+|+++|.+||++ ..-..|.
T Consensus 65 Lq~~F-~~~YP~esPqVmF~~~~P~HPHiYS-NGHICL~iL~d~WsPAmsv~SvClSIlSMLSSs~eKqrP~ 134 (161)
T KOG0427|consen 65 LQVEF-PEHYPMESPQVMFVGPAPLHPHIYS-NGHICLDILYDSWSPAMSVQSVCLSILSMLSSSKEKQRPT 134 (161)
T ss_pred EEEec-CCCCCCCCCeEEEecCCCCCCceec-CCeEEEEeecccCCcchhhHHHHHHHHHHHccCccccCCC
Confidence 46788 99999999999999988 7999996 99999999999999999999999999999986 4444444
No 19
>KOG0429|consensus
Probab=99.36 E-value=3.2e-12 Score=100.84 Aligned_cols=103 Identities=16% Similarity=0.252 Sum_probs=91.1
Q ss_pred cEEEEcCCCCCCC--CCeeEEecccccccccCCCCceecccCCCCcCCc-CCHHHHHHHHHHhhcCCCCCCh-H-HHHHH
Q psy17486 4 TTVKFVTKIWHPN--ISSVKFLTKIWHPNISSVTGAICLDILKDQWAAA-MTLRTVLLSLQALMAAAEPDDP-Q-DAVVA 78 (172)
Q Consensus 4 ~~i~F~p~~YP~~--pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~-~~l~~vL~~i~~ll~~p~~~~p-~-n~~aa 78 (172)
.+|- +|++||.. -|.|-|.+.++||.|.+.++.+|+..-..+|+-. ..|.+||..+|.++.+|+-+.+ + |.+|+
T Consensus 69 FtIl-iPdnfPdd~dlPrvvF~q~vfHP~icp~skeLdl~raf~eWRk~ehhiwqvL~ylqriF~dpd~si~kl~N~eAa 147 (258)
T KOG0429|consen 69 FTIL-IPDNFPDDSDLPRVVFEQSVFHPLICPKSKELDLNRAFPEWRKEEHHIWQVLVYLQRIFYDPDVSIDKLINPEAA 147 (258)
T ss_pred EEEE-cCccCCCcCCCCeEEeeccccccccCCCccceeHhhhhhhhhccccHHHHHHHHHHHHhcCcccchhhhcChHHH
Confidence 3444 49999944 4999999999999999999999999988789776 5799999999999999998777 4 99999
Q ss_pred HHHhhCHHHHHHHHHHHHHHHHHHHHHhh
Q psy17486 79 KQYKENPEMFTLTARHWTNVYAGVVAKQY 107 (172)
Q Consensus 79 ~~~~~~~~~f~~~ar~~t~~~a~~~~~~~ 107 (172)
.+|++++++|.++|++.++.....+.+++
T Consensus 148 ~l~~k~r~ef~~rvqe~vk~sr~~iyD~p 176 (258)
T KOG0429|consen 148 VLYKKHRDEFRERVQECVKASRSMIYDEP 176 (258)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHhcCCC
Confidence 99999999999999999999988776654
No 20
>KOG0894|consensus
Probab=99.17 E-value=2.3e-10 Score=90.19 Aligned_cols=95 Identities=15% Similarity=0.226 Sum_probs=65.6
Q ss_pred CcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccC---CCCcCCcCCHHHHHHHHHHhhcCCCC--CChHHHHH
Q psy17486 3 DTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDIL---KDQWAAAMTLRTVLLSLQALMAAAEP--DDPQDAVV 77 (172)
Q Consensus 3 ~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l---~~~W~p~~~l~~vL~~i~~ll~~p~~--~~p~n~~a 77 (172)
+-++.| |++||++||.|+++|+-- -...+-++||+|. .+.|.|.+++++||.++.++|.+..| -+..-.+.
T Consensus 55 hGkl~F-P~eyP~KPPaI~MiTPNG---RFktntRLCLSiSDfHPdsWNP~WsVStILtGLlSFM~e~~pTtGSI~tS~~ 130 (244)
T KOG0894|consen 55 HGKLIF-PPEYPFKPPAITMITPNG---RFKTNTRLCLSISDFHPDSWNPGWSVSTILTGLLSFMTEDSPTTGSIETSDQ 130 (244)
T ss_pred eeEEeC-CCCCCCCCCeeEEECCCC---ceecCceEEEeccccCcCcCCCcccHHHHHHHHHHHHhcCCCccCcccccHH
Confidence 568999 999999999999999431 1123568999998 58999999999999999999998554 22211111
Q ss_pred H--------HHHhhCHHHHHHHHHHHHHHHHH
Q psy17486 78 A--------KQYKENPEMFTLTARHWTNVYAG 101 (172)
Q Consensus 78 a--------~~~~~~~~~f~~~ar~~t~~~a~ 101 (172)
- ..|.-+...|.+.--+.+++|.+
T Consensus 131 ~kr~lA~~SlaFN~kn~~F~~lFPE~Vee~nq 162 (244)
T KOG0894|consen 131 DKRMLAKSSLAFNLKNPKFCELFPEVVEEYNQ 162 (244)
T ss_pred HHHHHHHhhhhhccCChHHHHHhHHHHHHHHH
Confidence 1 12222233455556666777654
No 21
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.65 E-value=5.9e-08 Score=56.35 Aligned_cols=36 Identities=36% Similarity=0.496 Sum_probs=34.3
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
+++++.|++|||+++.++.||+..+||++.|++.||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 578999999999999999999999999999999986
No 22
>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=98.60 E-value=1.1e-07 Score=55.42 Aligned_cols=37 Identities=35% Similarity=0.529 Sum_probs=35.0
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
.+.|+.|++|||+++.++.||...+||++.|++.|++
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 5689999999999999999999999999999999985
No 23
>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=98.58 E-value=1.3e-07 Score=55.03 Aligned_cols=35 Identities=37% Similarity=0.542 Sum_probs=32.6
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHh
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAI 170 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l 170 (172)
+++|+.|++|||+++.++.||...+||++.|+++|
T Consensus 3 ~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 3 EEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 67899999999999999999999999999999987
No 24
>KOG0895|consensus
Probab=98.57 E-value=5.3e-08 Score=91.34 Aligned_cols=126 Identities=19% Similarity=0.365 Sum_probs=85.8
Q ss_pred CCCcEEEEcCCCCCCCCCeeEEecc--cccccccCCCCceecccCC-------CCcCCcCCHHHHHHHHHHhhcC--CCC
Q psy17486 1 MVDTTVKFVTKIWHPNISSVKFLTK--IWHPNISSVTGAICLDILK-------DQWAAAMTLRTVLLSLQALMAA--AEP 69 (172)
Q Consensus 1 ~~~~~i~F~p~~YP~~pP~v~F~t~--i~HPnV~~~~G~icl~~l~-------~~W~p~~~l~~vL~~i~~ll~~--p~~ 69 (172)
+|+..|.| |++||..||.+...+. .++||++ +.|+|||++|. +-|+|+-++.+||.+||.|+.+ |-.
T Consensus 899 ~f~fd~~~-~~~yp~~pp~~~~~s~~~r~npnly-~~g~vc~s~l~tw~g~~~e~w~~~s~~lq~l~s~q~l~l~~~py~ 976 (1101)
T KOG0895|consen 899 LFFFDFQF-PQDYPSSPPLVHYHSGGVRLNPNLY-EDGKVCLSLLNTWHGRGNEVWNPSSSILQVLVSIQGLVLNEEPYF 976 (1101)
T ss_pred eEEEEeec-CCCCCCCCCceEeecCceeeCcccc-cccceehhhhccccCCCccccCcchhHHHHHHHhhhhhccccccc
Confidence 46678888 9999999999998874 3789999 59999999994 5699999999999999999876 433
Q ss_pred CChH---------HHHHHHHHhhCHHHHHHHHHHHHH-------HHHHHHHHhhhcCchhhHHHHHHHHHHhcCCCC
Q psy17486 70 DDPQ---------DAVVAKQYKENPEMFTLTARHWTN-------VYAGVVAKQYKENPEMFTLTARHWTNVYAGGPS 130 (172)
Q Consensus 70 ~~p~---------n~~aa~~~~~~~~~f~~~ar~~t~-------~~a~~~~~~~~~~~~~~~~~a~~w~~~~~~~~~ 130 (172)
..|. -.+-.+.|.+ ..|...++.++. .+...+.++|....-.+.+.-+.|..-+..+..
T Consensus 977 ne~gy~~~~g~~~g~~~s~~y~~--~~~~~~~~~~~~~~~~p~~~~~e~i~~Hf~~~~~ei~~~c~a~~~~~~~~s~ 1051 (1101)
T KOG0895|consen 977 NEAGYEKQRGTAEGEKNSRVYNE--NAFLLTCKSMVYQLRKPPKCFEEVIHKHFYLRGVEIMAACEAWIAGILQGSS 1051 (1101)
T ss_pred Ccccccccccccccccccccccc--hhHHHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhccc
Confidence 3331 1111122322 234444433333 233455666666555666667788866666653
No 25
>KOG0428|consensus
Probab=98.35 E-value=6e-07 Score=72.35 Aligned_cols=61 Identities=25% Similarity=0.383 Sum_probs=49.3
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecccccccccCCCCceecccC---CCCcCCcCCHHHHHHHHHHhhcC
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDIL---KDQWAAAMTLRTVLLSLQALMAA 66 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l---~~~W~p~~~l~~vL~~i~~ll~~ 66 (172)
.|-+|.| |.+||++||.+-.+|+.-..- .+-+|||+|. .+.|.|.++|+..|+.|..+|-.
T Consensus 59 YHGRI~l-PadYPmKPPs~iLLTpNGRFE---~nkKiCLSISgyHPEtWqPSWSiRTALlAlIgFmPt 122 (314)
T KOG0428|consen 59 YHGRIVL-PADYPMKPPSIILLTPNGRFE---VNKKICLSISGYHPETWQPSWSIRTALLALIGFMPT 122 (314)
T ss_pred eeeeEec-CCCCCCCCCeEEEEcCCCcee---eCceEEEEecCCCccccCcchhHHHHHHHHHccccC
Confidence 4678999 999999999999998332222 2557999998 58899999999999998877654
No 26
>KOG0897|consensus
Probab=98.16 E-value=1.5e-06 Score=62.41 Aligned_cols=61 Identities=18% Similarity=0.339 Sum_probs=49.8
Q ss_pred EEEcCCCCCCCCCeeEEecccccccccCCCCceecccC-CCCcCCcCCHHHHHHHHHHhhcCC
Q psy17486 6 VKFVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDIL-KDQWAAAMTLRTVLLSLQALMAAA 67 (172)
Q Consensus 6 i~F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l-~~~W~p~~~l~~vL~~i~~ll~~p 67 (172)
+.| +++||+.||.++-..|+-.-.---++|.||+.+| +++|+.+++++.++++|-..+..-
T Consensus 17 ~~f-~~~fp~~ppf~rvv~p~~~~Gyvl~ggAIcmellt~qgwssay~Ve~vi~qiaatlVkG 78 (122)
T KOG0897|consen 17 DIF-DDNFPFMPPFPRVVKPLEDEGYVLEGGAICMELLTKQGWSSAYEVERVIMQIAATLVKG 78 (122)
T ss_pred eec-ccCCCCCCCcceeeeecccCCEEecchhhHHHHHccccccchhhHHHHHHHHHHHhhcc
Confidence 456 9999999999988766544432235899999999 688999999999999998888763
No 27
>KOG0895|consensus
Probab=98.11 E-value=3.8e-06 Score=79.20 Aligned_cols=64 Identities=28% Similarity=0.534 Sum_probs=56.1
Q ss_pred CCcEEEEcCCCCCCCCCeeEEecc---cccccccCCCCceecccCC-------CCcCCc-CCHHHHHHHHHHhhcCC
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTK---IWHPNISSVTGAICLDILK-------DQWAAA-MTLRTVLLSLQALMAAA 67 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~---i~HPnV~~~~G~icl~~l~-------~~W~p~-~~l~~vL~~i~~ll~~p 67 (172)
+.+.|+| |..||..||.+.++|. -+.||.+. +|+||+++|. +.|+|. .+|.++|.+||.++.+-
T Consensus 331 f~Fdiq~-P~~yPa~pp~v~~lt~~~~R~nPNlYn-~GKVcLslLgTwtg~~~e~wtp~~~sl~qvL~sIQ~Li~~e 405 (1101)
T KOG0895|consen 331 FLFDIQF-PDTYPAVPPHVKYLTGGGVRLNPNLYN-DGKVCLSLLGTWTGSRREKWTPNGSSLLQVLESIQGLILNE 405 (1101)
T ss_pred eeeEeec-CCCCCCCCceeEEeeccceeecCCccc-CceEEeeeeeecccccccCCCccccchhhhhhhhhhhhccc
Confidence 4566777 9999999999999986 57999995 9999999992 679999 89999999999998865
No 28
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=98.00 E-value=1.5e-05 Score=59.23 Aligned_cols=63 Identities=17% Similarity=0.296 Sum_probs=54.4
Q ss_pred CCcEEEEcCCCCCCCCCeeEEeccc---ccccccCCCCceec---ccCCCCcCCcCCHHHHHHHHHHhhcC
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKI---WHPNISSVTGAICL---DILKDQWAAAMTLRTVLLSLQALMAA 66 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i---~HPnV~~~~G~icl---~~l~~~W~p~~~l~~vL~~i~~ll~~ 66 (172)
+..+|.| |+.||..||.+....+. +-|+|+. +|.||+ ....+.|.|.-++.++|..+..+|.+
T Consensus 38 ~~l~l~~-p~~FP~~pp~v~l~d~~~~~~~pHv~~-~G~LCl~~~~~~~D~~~P~~~~~~~l~~a~~lL~~ 106 (133)
T PF14461_consen 38 FPLRLVF-PDDFPYLPPRVYLEDPKQFPLLPHVES-DGKLCLLDEELVLDPWDPEGIIADCLERAIRLLED 106 (133)
T ss_pred EEEEEEE-CCcccCcCCEEEecCccccCccCeEcC-CCeEEEecCCcccCccCHHHHHHHHHHHHHHHHHH
Confidence 3467788 99999999999877544 7899996 999999 77789999999999999999988884
No 29
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.90 E-value=1.3e-05 Score=69.30 Aligned_cols=39 Identities=23% Similarity=0.335 Sum_probs=37.5
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 134 DFDSKIQRLTDMGVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 134 ~~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
+++..|+.+++|||+|++|..||+...+|.++|+|||++
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~t 193 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLT 193 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHh
Confidence 579999999999999999999999999999999999985
No 30
>KOG0896|consensus
Probab=97.83 E-value=2.7e-05 Score=57.43 Aligned_cols=58 Identities=21% Similarity=0.241 Sum_probs=49.1
Q ss_pred EcCCCCCCCCCeeEEecccccccccCCCCceecccC--CCCcCCcCCHHHHHHHHHHhhc
Q psy17486 8 FVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDIL--KDQWAAAMTLRTVLLSLQALMA 65 (172)
Q Consensus 8 F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l--~~~W~p~~~l~~vL~~i~~ll~ 65 (172)
+|.++||..||.++|.++|--+.|++.+|.|.-..+ -.+|+-.++++.+|..++.++.
T Consensus 63 ~Cgp~YPe~PP~vrf~tkinm~gvn~~~g~Vd~~~i~~L~~W~~~y~~~~vl~~lr~~m~ 122 (138)
T KOG0896|consen 63 ECGPKYPELPPTVRFGTKINMNGVNSSNGVVDPRDITVLARWQRSYSIKMVLGQLRKEMM 122 (138)
T ss_pred ecCCCCCCCCceeEEEEEeeecccccCCCccCccccchhhcccccchhhHHHHhhhHHHH
Confidence 458999999999999999999999988888754333 4789999999999999986544
No 31
>KOG0011|consensus
Probab=97.35 E-value=0.00024 Score=59.79 Aligned_cols=39 Identities=23% Similarity=0.387 Sum_probs=37.1
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 134 DFDSKIQRLTDMGVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 134 ~~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
..+..|..+++||++++.|+.||....|+.++|+|||++
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~ 172 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLN 172 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhc
Confidence 568999999999999999999999999999999999984
No 32
>PF05743 UEV: UEV domain; InterPro: IPR008883 The N-terminal ubiquitin E2 variant (UEV) domain is ~145 amino acid residues in length and shows significant sequence similarity to E2 ubiquitin ligases but is unable to catalyze ubiquitin transfer as it lacks the active site cysteine that forms the transient thioester bond with the C terminus of ubiquitin (Ub). Nevertheless, at least some UEVs have retained the ability to bind Ub, and appear to act either as cofactors in ubiquitylation reactions, or as ubiquitin sensors. UEV domains also frequently contain other protein recognition motifs, and may generally serve to couple protein and Ub binding functions to facilitate the formation of multiprotein complexes [, , , ]. The UEV domain consists of a twisted four-stranded antiparallel beta-sheet having a meander topology, with four alpha-helices packed against one face of the sheet. The UEV fold is generally similar to canonical E2 ligases in the hydrophobic core and 'active site' regions, but differs significantly at both its N- and C-termini [, ]. The UEV domain is found in the eukaryotic tumour susceptibility gene 101 protein (TSG101). Altered transcripts of this gene have been detected in sporadic breast cancers and many other Homo sapiens malignancies. However, the involvement of this gene in neoplastic transformation and tumourigenesis is still elusive. TSG101 is required for normal cell function of embryonic and adult tissues but this gene is not a tumour suppressor for sporadic forms of breast cancer [].; GO: 0006464 protein modification process, 0015031 protein transport; PDB: 3R3Q_A 3R42_A 1UZX_A 3OBX_A 3OBS_A 3P9H_A 2F0R_A 3P9G_A 3OBQ_A 3OBU_A ....
Probab=97.23 E-value=0.00039 Score=50.93 Aligned_cols=60 Identities=17% Similarity=0.252 Sum_probs=40.2
Q ss_pred cEEEEcCCCCCCCCCeeEEecccc-----cccccCCCCceecccCCCCcCC-cCCHHHHHHHHHHhhcC
Q psy17486 4 TTVKFVTKIWHPNISSVKFLTKIW-----HPNISSVTGAICLDILKDQWAA-AMTLRTVLLSLQALMAA 66 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v~F~t~i~-----HPnV~~~~G~icl~~l~~~W~p-~~~l~~vL~~i~~ll~~ 66 (172)
..|-+ |.+||..||.+......- +.+||+ +|+|+++.|. +|.+ ..+|.+++..++..+..
T Consensus 52 i~Iwl-p~~yP~~pP~v~v~pt~~m~I~~~~~Vd~-~G~v~~pyL~-~W~~~~s~L~~lv~~l~~~F~~ 117 (121)
T PF05743_consen 52 ICIWL-PENYPYSPPIVYVRPTPSMVIKPSHHVDS-NGRVYLPYLQ-NWNPPSSNLVDLVQELQAVFSE 117 (121)
T ss_dssp EEEEE--TTTTTSSSEEEE-GCCTECCGGCCCB-T-TSBB-SHHHH-T--TTTS-HHHHHHHHHHCCCH
T ss_pred EEEEE-cccCCCCCCEEEEeCCCCCCcCCCCeECC-CCCEeCchhc-cCCCCCCCHHHHHHHHHHHHhH
Confidence 34455 999999999887664222 338996 9999998885 5655 88999999998887764
No 33
>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=97.09 E-value=0.0014 Score=39.15 Aligned_cols=36 Identities=36% Similarity=0.543 Sum_probs=28.5
Q ss_pred HHHHHHHHHc-CCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLTDM-GVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~-gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
+++|..+++. |.+++.|+..|..++||++.|++..+
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 3567777654 88999999999999999999998765
No 34
>KOG2391|consensus
Probab=96.51 E-value=0.0066 Score=51.49 Aligned_cols=62 Identities=13% Similarity=0.177 Sum_probs=48.1
Q ss_pred cEEEEcCCCCCCCCCeeEEec------ccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCC
Q psy17486 4 TTVKFVTKIWHPNISSVKFLT------KIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAA 67 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v~F~t------~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p 67 (172)
|.+..+.+.||..||.|.... ++ |-+||+ +|.|.|+.|.++=-|..+|..++..+-+.+.++
T Consensus 71 PV~iWlldtyP~~pP~c~VnPT~~M~ik~-~~hVd~-nG~V~LPYLh~W~~pssdLv~Liq~l~a~f~~~ 138 (365)
T KOG2391|consen 71 PVIIWLLDTYPYYPPICYVNPTSTMIIKV-HEHVDP-NGKVYLPYLHNWDPPSSDLVGLIQELIAAFSED 138 (365)
T ss_pred eEEEEecccCCCCCCeEEecCCchhhhHH-hhccCC-CCeEechhhccCCCccchHHHHHHHHHHHhcCC
Confidence 345567999999999875542 44 889996 999999999764456788988888888877763
No 35
>KOG0417|consensus
Probab=96.38 E-value=0.0024 Score=48.10 Aligned_cols=20 Identities=40% Similarity=0.687 Sum_probs=15.8
Q ss_pred cCchhhHHHHHHHHHHhcCC
Q psy17486 109 ENPEMFTLTARHWTNVYAGG 128 (172)
Q Consensus 109 ~~~~~~~~~a~~w~~~~~~~ 128 (172)
-+...++++||+||++||++
T Consensus 129 ~d~~~~~~~ARewt~kyA~~ 148 (148)
T KOG0417|consen 129 TDRAKYERTAREWTRKYAMG 148 (148)
T ss_pred hhHHHHHHHHHHHHHHHhcC
Confidence 34445689999999999974
No 36
>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=95.78 E-value=0.031 Score=33.02 Aligned_cols=36 Identities=22% Similarity=0.355 Sum_probs=31.8
Q ss_pred HHHHHHHHHc--CCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLTDM--GVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~--gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
++.|+.|.+| +++++.+..+|..++++++.|++.|+
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL 39 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALL 39 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 5678888888 88889999999999999999999987
No 37
>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=95.58 E-value=0.016 Score=36.58 Aligned_cols=26 Identities=12% Similarity=0.216 Sum_probs=20.8
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCC
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNW 161 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W 161 (172)
...|++++.|||+++.++.+|+.-+-
T Consensus 10 ~~lVd~F~~mGF~~dkVvevlrrlgi 35 (55)
T PF09288_consen 10 KDLVDQFENMGFERDKVVEVLRRLGI 35 (55)
T ss_dssp HHHHHHHHHHT--HHHHHHHHHHS--
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHhCC
Confidence 78899999999999999999998765
No 38
>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=95.06 E-value=0.032 Score=48.46 Aligned_cols=41 Identities=20% Similarity=0.195 Sum_probs=38.2
Q ss_pred CCchHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 132 NPDFDSKIQRLTDMGVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 132 ~~~~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
.++....|++|++|||+++.||.|--.++=|.+-|.++||.
T Consensus 334 T~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~ 374 (378)
T TIGR00601 334 TPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLS 374 (378)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHh
Confidence 35678999999999999999999999999999999999983
No 39
>KOG0418|consensus
Probab=94.64 E-value=0.09 Score=41.20 Aligned_cols=122 Identities=27% Similarity=0.254 Sum_probs=84.4
Q ss_pred CCcEEEEcCCCCCCCCCee------EEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcCCCCCChHHH
Q psy17486 2 VDTTVKFVTKIWHPNISSV------KFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDA 75 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v------~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~p~~~~p~n~ 75 (172)
-.|+|+|.|..|+.+.+.+ ..+...|-+-+.-.+- .-.|+++.+-...-+|.|.+.+
T Consensus 68 ~pPkv~F~TkIwHPnVSs~tGaICLDilkd~Wa~slTlrtv-----------------LislQalL~~pEp~dPqDavva 130 (200)
T KOG0418|consen 68 KPPKVKFITKIWHPNVSSQTGAICLDILKDQWAASLTLRTV-----------------LISLQALLCAPEPKDPQDAVVA 130 (200)
T ss_pred CCCceeeeeeeecCCCCcccccchhhhhhcccchhhhHHHH-----------------HHHHHHHHcCCCCCChHHHHHH
Confidence 4689999999999998764 3356778776542221 2226777888889999999999
Q ss_pred HHHHHHhhCHHHHHHHHHHHHHHHHHHHHHhhhcCchhhHHHHHHHHHHhcCCCCCCCchHHHHHHHHHcCCChHHHHH
Q psy17486 76 VVAKQYKENPEMFTLTARHWTNVYAGVVAKQYKENPEMFTLTARHWTNVYAGGPSKNPDFDSKIQRLTDMGVMSHDARV 154 (172)
Q Consensus 76 ~aa~~~~~~~~~f~~~ar~~t~~~a~~~~~~~~~~~~~~~~~a~~w~~~~~~~~~~~~~~~~kv~~l~~~gf~~~~a~~ 154 (172)
+.+..-.+-...- ||.||..||+.- ....+.+-.+..+.- .+|. .....+..|..-+++...+..
T Consensus 131 ~qy~~n~~~F~~T---Ar~WT~~fA~~~---~~~~~~~~~~v~~l~----~mGf----~~~~~i~~L~~~~w~~~~a~~ 195 (200)
T KOG0418|consen 131 EQYVDNYEMFYKT---ARYWTTEFAGGR---LPDDPWDKKKVDSLI----EMGF----SELEAILVLSGSDWNLADATE 195 (200)
T ss_pred HHHhhhHHHHHHH---HHHHHHHHhCCC---CCCCchhHHHHHHHH----Hhcc----cHHHHHHHhhccccchhhhhH
Confidence 9998777777777 999999999863 222232223332222 3443 247788999999998866643
No 40
>KOG0011|consensus
Probab=94.43 E-value=0.052 Score=45.99 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=37.9
Q ss_pred CchHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 133 PDFDSKIQRLTDMGVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 133 ~~~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
++..+.|++|.+|||++..|+.|.=+++=|.+-|.++||+
T Consensus 296 pee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~ 335 (340)
T KOG0011|consen 296 PEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLS 335 (340)
T ss_pred HHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 5789999999999999999999999999999999999984
No 41
>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=94.04 E-value=0.2 Score=29.56 Aligned_cols=37 Identities=19% Similarity=0.312 Sum_probs=31.6
Q ss_pred HHHHHHHHHc--CCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 136 DSKIQRLTDM--GVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 136 ~~kv~~l~~~--gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
.+.++.|.+| +.++..+...|..++++++.|++.|+.
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 4567888888 667788899999999999999999873
No 42
>KOG0944|consensus
Probab=91.63 E-value=0.13 Score=47.49 Aligned_cols=38 Identities=29% Similarity=0.393 Sum_probs=34.4
Q ss_pred hHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 135 FDSKIQRLTDMGVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 135 ~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
-+.-+..+++|||++++|+.||...+.++++|++-+|+
T Consensus 635 ~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~ 672 (763)
T KOG0944|consen 635 DEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFS 672 (763)
T ss_pred ChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 45678889999999999999999999999999998874
No 43
>KOG2561|consensus
Probab=88.53 E-value=3.7 Score=36.64 Aligned_cols=49 Identities=22% Similarity=0.272 Sum_probs=38.1
Q ss_pred HHHhcCCCCCCCchHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHh
Q psy17486 122 TNVYAGGPSKNPDFDSKIQRLTDMGVMSHDARVALSTYNWELERATEAI 170 (172)
Q Consensus 122 ~~~~~~~~~~~~~~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l 170 (172)
..+|+.-+...---.+.+..|++||+.++.|..+|...+.|...|++.|
T Consensus 362 r~k~~n~~~~~wvn~rs~~rL~~mGyer~la~eaL~r~~Ndi~~aldll 410 (568)
T KOG2561|consen 362 RKKYGNTPMKKWVNPRSLERLVSMGYERELAAEALRRNENDIQKALDLL 410 (568)
T ss_pred HHHhcCCCcccccCHHHHHHHHhcchHhHHHHHHHHhccCcHHHHHHhc
Confidence 3456664433211257789999999999999999999999999999865
No 44
>PF05773 RWD: RWD domain; InterPro: IPR006575 The RWD eukaryotic domain is found in RING finger (IPR001841 from INTERPRO) and WD repeat (IPR001680 from INTERPRO) containing proteins and DEXDc-like helicase (IPR001410 from INTERPRO) subfamily related to the ubiquitin-conjugating enzymes domain (IPR000608 from INTERPRO). ; GO: 0005515 protein binding; PDB: 2EBM_A 2EBK_A 2DAX_A 2DAW_A 2DAY_A 2DMF_A 1UKX_A 2YZ0_A.
Probab=88.22 E-value=0.33 Score=33.78 Aligned_cols=24 Identities=4% Similarity=0.023 Sum_probs=16.4
Q ss_pred CCcEEEEcCCCCCCCCCeeEEeccc
Q psy17486 2 VDTTVKFVTKIWHPNISSVKFLTKI 26 (172)
Q Consensus 2 ~~~~i~F~p~~YP~~pP~v~F~t~i 26 (172)
+...|+| |++||..||.+...++.
T Consensus 51 ~~l~~~~-p~~YP~~~P~i~l~~~~ 74 (113)
T PF05773_consen 51 VTLHFTL-PPGYPESPPKISLESPK 74 (113)
T ss_dssp EEEEEEE--SSTTSS--EEEEEEES
T ss_pred EEEEEeC-CCcCCCcCCEEEEEcCC
Confidence 3467888 99999999999877644
No 45
>PF14457 Prok-E2_A: Prokaryotic E2 family A
Probab=88.07 E-value=0.72 Score=35.46 Aligned_cols=59 Identities=17% Similarity=0.158 Sum_probs=42.9
Q ss_pred EEEcCCCCCCCCCeeEEecccc---cccccCCC-----CceecccC-CCCcCCcCCHHHHHHHHHHhhcC
Q psy17486 6 VKFVTKIWHPNISSVKFLTKIW---HPNISSVT-----GAICLDIL-KDQWAAAMTLRTVLLSLQALMAA 66 (172)
Q Consensus 6 i~F~p~~YP~~pP~v~F~t~i~---HPnV~~~~-----G~icl~~l-~~~W~p~~~l~~vL~~i~~ll~~ 66 (172)
|.| +..||..+|.+.+..+.| +|++.. . ..+|+--- -.+|.+..++..+|..|...|..
T Consensus 59 i~~-~~~~~~~~P~v~~lR~dFP~~lpH~~~-~~~~~p~~lCl~~~~~~e~~~~~g~~~~l~rl~~Wl~~ 126 (162)
T PF14457_consen 59 IVF-PPDSPLSAPEVPALRKDFPGNLPHQNP-GPEGEPVSLCLYEGPWSEWRPSWGPEGFLDRLFDWLRD 126 (162)
T ss_pred EEe-cCCCCCCCccchhhHhhCCCCCCccCC-CCCCCCccceEecCCHHHhhhccCHHHHHHHHHHHHHH
Confidence 577 889999999765554332 455553 3 57897655 35689999999999999877764
No 46
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=85.76 E-value=0.68 Score=31.90 Aligned_cols=22 Identities=14% Similarity=0.286 Sum_probs=17.7
Q ss_pred CcEEEEcCCCCCCCCCeeEEecc
Q psy17486 3 DTTVKFVTKIWHPNISSVKFLTK 25 (172)
Q Consensus 3 ~~~i~F~p~~YP~~pP~v~F~t~ 25 (172)
...|.| |++||..+|.+.+.+.
T Consensus 44 ~l~~~~-p~~YP~~~P~i~~~~~ 65 (107)
T smart00591 44 TLQVKL-PENYPDEAPPISLLNS 65 (107)
T ss_pred EEEEEC-CCCCCCCCCCeEEECC
Confidence 456777 9999999999888753
No 47
>KOG2561|consensus
Probab=85.18 E-value=1.2 Score=39.65 Aligned_cols=36 Identities=33% Similarity=0.494 Sum_probs=33.3
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
++....+++|||-+..++.||..++.+++.|+.+|.
T Consensus 304 d~~lsllv~mGfeesdaRlaLRsc~g~Vd~AvqfI~ 339 (568)
T KOG2561|consen 304 DETLSLLVGMGFEESDARLALRSCNGDVDSAVQFII 339 (568)
T ss_pred chHHHHHHHcCCCchHHHHHHHhccccHHHHHHHHH
Confidence 677889999999999999999999999999998763
No 48
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=84.84 E-value=2.4 Score=30.86 Aligned_cols=35 Identities=23% Similarity=0.295 Sum_probs=30.0
Q ss_pred HHHHHHHH-HcCCChHHHHHHHHhcCCChHHHHHHh
Q psy17486 136 DSKIQRLT-DMGVMSHDARVALSTYNWELERATEAI 170 (172)
Q Consensus 136 ~~kv~~l~-~~gf~~~~a~~aLs~~~W~~~~a~~~l 170 (172)
++.|+.+. .-|.++..|+.||.+++||+-.|+-.|
T Consensus 79 ~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L 114 (116)
T TIGR00264 79 EDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKL 114 (116)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHh
Confidence 56677764 569999999999999999999998776
No 49
>PF08694 UFC1: Ubiquitin-fold modifier-conjugating enzyme 1; InterPro: IPR014806 Ubiquitin-like (UBL) post-translational modifiers are covalently linked to most, if not all, target protein(s) through an enzymatic cascade analogous to ubiquitylation, consisting of E1 (activating), E2 (conjugating), and E3 (ligating) enzymes. Ubiquitin-fold modifier 1 (Ufm1) a ubiquitin-like protein is activated by a novel E1-like enzyme, Uba5, by forming a high-energy thioester bond. Activated Ufm1 is then transferred to its cognate E2-like enzyme, Ufc1, in a similar thioester linkage. This family represents the E2-like enzyme [].; PDB: 2Z6P_A 2K07_A 2Z6O_A 3EVX_D 3KPA_A.
Probab=84.82 E-value=0.86 Score=34.32 Aligned_cols=49 Identities=12% Similarity=0.202 Sum_probs=21.7
Q ss_pred cCCCCCCCCCeeEEeccc-ccccccCCCCceecccCC-CCc---CCcCCHHHHHH
Q psy17486 9 VTKIWHPNISSVKFLTKI-WHPNISSVTGAICLDILK-DQW---AAAMTLRTVLL 58 (172)
Q Consensus 9 ~p~~YP~~pP~v~F~t~i-~HPnV~~~~G~icl~~l~-~~W---~p~~~l~~vL~ 58 (172)
+|..||..||.+..-.=- --.-.+ ..|+|||++.. .-| .|.++|...|.
T Consensus 83 IP~tYP~t~pEi~lPeLdGKTaKMY-RGGkIClt~HFkPLWakN~PkfGIaHala 136 (161)
T PF08694_consen 83 IPVTYPTTAPEIALPELDGKTAKMY-RGGKICLTDHFKPLWAKNVPKFGIAHALA 136 (161)
T ss_dssp --TTTTTS----B-GGGTTT-SSBC-CCCBB---TTHHHHHHCTTTT--HHHHHH
T ss_pred CCccCCCCCcceeccccCCchhhhh-cCceEeeecccchhhhhcCCchhHHHHHH
Confidence 399999999988653200 001223 58999999873 224 67788877664
No 50
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=83.86 E-value=2.8 Score=30.48 Aligned_cols=36 Identities=28% Similarity=0.341 Sum_probs=30.8
Q ss_pred HHHHHHHH-HcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLT-DMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~-~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
++.|+.+. .-|.++..|+.||.+++||+-.|+-.|-
T Consensus 77 ~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~ 113 (115)
T PRK06369 77 EEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLS 113 (115)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHh
Confidence 66677764 5699999999999999999999998774
No 51
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=83.79 E-value=0.93 Score=34.32 Aligned_cols=28 Identities=32% Similarity=0.466 Sum_probs=22.4
Q ss_pred HHHHhhhcCchhhHHHHHHHHHHhcCCC
Q psy17486 102 VVAKQYKENPEMFTLTARHWTNVYAGGP 129 (172)
Q Consensus 102 ~~~~~~~~~~~~~~~~a~~w~~~~~~~~ 129 (172)
.++..++.++..|+++|++|+++||.++
T Consensus 123 ~aa~~~~~d~~~f~~~a~~~~~~~a~~~ 150 (152)
T PTZ00390 123 SVADHFKNNRADAEKVAREWNQKYAKHN 150 (152)
T ss_pred HHHHHHHHCHHHHHHHHHHHHHHHhccc
Confidence 3455666777788999999999999864
No 52
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=82.30 E-value=4.8 Score=25.98 Aligned_cols=37 Identities=22% Similarity=0.479 Sum_probs=29.5
Q ss_pred chHHHHHHHH-HcCCChHHHHHHHHhcCCChHHHHHHh
Q psy17486 134 DFDSKIQRLT-DMGVMSHDARVALSTYNWELERATEAI 170 (172)
Q Consensus 134 ~~~~kv~~l~-~~gf~~~~a~~aLs~~~W~~~~a~~~l 170 (172)
...++|..+. .-|.+..=+...|+..+||.+.|+..+
T Consensus 11 ~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F 48 (63)
T smart00804 11 EQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNF 48 (63)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 4466666664 458888889999999999999999765
No 53
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=80.36 E-value=5.4 Score=25.51 Aligned_cols=38 Identities=13% Similarity=0.299 Sum_probs=29.3
Q ss_pred hHHHHHHHHHc-CC-ChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 135 FDSKIQRLTDM-GV-MSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 135 ~~~kv~~l~~~-gf-~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
..+.|+.+.+. |- ++...-..|..++-|.++|++.||+
T Consensus 5 ~rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 5 SRKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 35666666554 33 6778889999999999999999984
No 54
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=80.21 E-value=2.4 Score=38.43 Aligned_cols=36 Identities=36% Similarity=0.421 Sum_probs=30.4
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCC-ChHHHHHHhh
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNW-ELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W-~~~~a~~~l~ 171 (172)
...|++|++|||.+..+..||-.-+. |.+.|.+-||
T Consensus 559 qs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLF 595 (749)
T COG5207 559 QSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLF 595 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHH
Confidence 56799999999999999888876654 7888888876
No 55
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=80.07 E-value=2.5 Score=26.08 Aligned_cols=34 Identities=24% Similarity=0.393 Sum_probs=24.7
Q ss_pred HHHHH-HHcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 138 KIQRL-TDMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 138 kv~~l-~~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
.|..+ ..-|.+..=+..-|...+||.+.|+..+.
T Consensus 3 mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~ 37 (51)
T PF03943_consen 3 MVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFE 37 (51)
T ss_dssp HHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 34444 34578888899999999999999997653
No 56
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=77.43 E-value=4.5 Score=27.57 Aligned_cols=33 Identities=18% Similarity=0.169 Sum_probs=27.8
Q ss_pred HHHHHHcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 139 IQRLTDMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 139 v~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
|+.+.+.|++...++.||.+.+.++..|..+++
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl 33 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVL 33 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHH
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHH
Confidence 345788999999999999999999999998665
No 57
>KOG0010|consensus
Probab=76.83 E-value=4.1 Score=36.54 Aligned_cols=39 Identities=23% Similarity=0.483 Sum_probs=33.6
Q ss_pred chHHHHHHHHHcCCChHHH-HHHHHhcCCChHHHHHHhhC
Q psy17486 134 DFDSKIQRLTDMGVMSHDA-RVALSTYNWELERATEAIFT 172 (172)
Q Consensus 134 ~~~~kv~~l~~~gf~~~~a-~~aLs~~~W~~~~a~~~l~~ 172 (172)
.+..-.++|.+|||.-.++ +.||.+-+.|+.+|+|.|++
T Consensus 453 r~q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 453 RYQTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 3667788999999976555 99999999999999999984
No 58
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=74.56 E-value=3.5 Score=35.66 Aligned_cols=29 Identities=17% Similarity=0.288 Sum_probs=23.3
Q ss_pred CchHHHHHHHHHcCCChHHH---HHHHHhcCC
Q psy17486 133 PDFDSKIQRLTDMGVMSHDA---RVALSTYNW 161 (172)
Q Consensus 133 ~~~~~kv~~l~~~gf~~~~a---~~aLs~~~W 161 (172)
--+++.|++++.|||.+|.| |..|.+++=
T Consensus 319 ~p~ddvidKv~~MGf~rDqV~a~v~rl~E~GQ 350 (358)
T PF07223_consen 319 HPYDDVIDKVASMGFRRDQVRATVRRLTENGQ 350 (358)
T ss_pred CcHHHHHHHHHHcCCcHHHHHHHHHHHHhcCC
Confidence 34899999999999999988 556666553
No 59
>KOG0944|consensus
Probab=70.36 E-value=7.4 Score=36.35 Aligned_cols=36 Identities=31% Similarity=0.302 Sum_probs=30.6
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhc-CCChHHHHHHhh
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTY-NWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~-~W~~~~a~~~l~ 171 (172)
...|.+|++|||.+++...||=.- |=+.+.|.+.|+
T Consensus 572 ~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~ 608 (763)
T KOG0944|consen 572 RSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLM 608 (763)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHH
Confidence 567899999999999999998777 667888887775
No 60
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=70.13 E-value=3.7 Score=30.78 Aligned_cols=23 Identities=48% Similarity=0.816 Sum_probs=18.6
Q ss_pred HHhhhcCchhhHHHHHHHHHHhc
Q psy17486 104 AKQYKENPEMFTLTARHWTNVYA 126 (172)
Q Consensus 104 ~~~~~~~~~~~~~~a~~w~~~~~ 126 (172)
+..+..++..|+++|++|+++||
T Consensus 124 a~~~~~~~~~f~~~a~~~~~~~a 146 (147)
T PLN00172 124 ARVFKENRSRYEATAREWTQRYA 146 (147)
T ss_pred HHHHHHCHHHHHHHHHHHHHHhh
Confidence 45556677788999999999987
No 61
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=66.17 E-value=10 Score=27.78 Aligned_cols=36 Identities=22% Similarity=0.240 Sum_probs=29.8
Q ss_pred HHHHHHHH-HcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLT-DMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~-~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
++.|+... .-|-+++.|+.||..++.|+-+|+-.|.
T Consensus 85 eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 85 EEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 55566654 5699999999999999999999987764
No 62
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=62.79 E-value=14 Score=22.09 Aligned_cols=24 Identities=21% Similarity=0.393 Sum_probs=18.4
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhc
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTY 159 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~ 159 (172)
++.++.|..+||++.++..+++.-
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 567899999999998887766654
No 63
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=62.71 E-value=10 Score=23.26 Aligned_cols=27 Identities=15% Similarity=0.176 Sum_probs=21.5
Q ss_pred CCChHHHHHHHHhcCCChHHHHHHhhC
Q psy17486 146 GVMSHDARVALSTYNWELERATEAIFT 172 (172)
Q Consensus 146 gf~~~~a~~aLs~~~W~~~~a~~~l~~ 172 (172)
|.+++-.+.-|..-+-|+..|++.|+|
T Consensus 22 gksR~vIirELqrTnLdVN~AvNNlLs 48 (53)
T PF11547_consen 22 GKSRNVIIRELQRTNLDVNLAVNNLLS 48 (53)
T ss_dssp TS-HHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CCcHHHHHHHHHHhcccHHHHHHHHhc
Confidence 777888889999999999999998874
No 64
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=62.17 E-value=8 Score=28.48 Aligned_cols=45 Identities=11% Similarity=0.268 Sum_probs=23.8
Q ss_pred HHHHHHHHhcCCCCCCCchHHHHHHHH-HcCCChHHHHHHHHhcCCChHHHHHHh
Q psy17486 117 TARHWTNVYAGGPSKNPDFDSKIQRLT-DMGVMSHDARVALSTYNWELERATEAI 170 (172)
Q Consensus 117 ~a~~w~~~~~~~~~~~~~~~~kv~~l~-~~gf~~~~a~~aLs~~~W~~~~a~~~l 170 (172)
+++.-..-|...+ +..+. -+|++.+++....++.||.++.+...+
T Consensus 87 i~~~i~~aY~sIs---------~~~la~~Lg~~~~el~~~~~~~gW~~d~~~~~~ 132 (143)
T PF10075_consen 87 IAHLISKAYSSIS---------LSDLAEMLGLSEEELEKFIKSRGWTVDGDGVLF 132 (143)
T ss_dssp HHHHHHHH-SEE----------HHHHHHHTTS-HHHHHHHHHHHT-EE-----EE
T ss_pred HHHHHHHHHhHcC---------HHHHHHHhCCCHHHHHHHHHHcCCEECCCccEE
Confidence 3444445566654 33343 358888899999999999999876543
No 65
>PF15187 Augurin: Oesophageal cancer-related gene 4
Probab=56.07 E-value=39 Score=24.07 Aligned_cols=28 Identities=25% Similarity=0.247 Sum_probs=20.5
Q ss_pred CCCCchHHHHHHHHHcCCChHHHHHHHH
Q psy17486 130 SKNPDFDSKIQRLTDMGVMSHDARVALS 157 (172)
Q Consensus 130 ~~~~~~~~kv~~l~~~gf~~~~a~~aLs 157 (172)
...|+..+=++++..||||+...-.-||
T Consensus 45 RsrPdVQQW~qQFlYmGFDEak~E~Dls 72 (114)
T PF15187_consen 45 RSRPDVQQWYQQFLYMGFDEAKFEDDLS 72 (114)
T ss_pred cCCHHHHHHHHHHHHhcchHHHhhhhHH
Confidence 3456788889999999999966544443
No 66
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=55.55 E-value=10 Score=21.99 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=16.9
Q ss_pred HHHHHHHHhcCCChHHHHHHh
Q psy17486 150 HDARVALSTYNWELERATEAI 170 (172)
Q Consensus 150 ~~a~~aLs~~~W~~~~a~~~l 170 (172)
.-...+|..++|+...|.+.|
T Consensus 8 ~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 8 QLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHhCCCHHHHHHHH
Confidence 456889999999999998876
No 67
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=55.37 E-value=78 Score=30.78 Aligned_cols=74 Identities=22% Similarity=0.359 Sum_probs=50.3
Q ss_pred cccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhh-----cCCCCCChH-HHHH--HHHHh------h--CHHHHHHH
Q psy17486 28 HPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALM-----AAAEPDDPQ-DAVV--AKQYK------E--NPEMFTLT 91 (172)
Q Consensus 28 HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll-----~~p~~~~p~-n~~a--a~~~~------~--~~~~f~~~ 91 (172)
-||| ||.+.+..- -.+|+.++|..-+.|- .-|..|+.. ..++ -+++. . .++.|.++
T Consensus 41 PPNV---TG~LHmGHA-----l~~tl~D~l~RykRM~G~~vl~~pG~DhAGIaTq~~VEk~l~~~g~~r~d~gRe~Fl~~ 112 (877)
T COG0525 41 PPNV---TGSLHMGHA-----LNYTLQDILARYKRMRGYNVLWPPGTDHAGIATQVVVEKQLAAEGITRHDLGREEFLKK 112 (877)
T ss_pred CCCC---CCcccchhh-----hhHHHHHHHHHHHHcCCCeeecCCCCCCCCchHHHHHHHHHHHcCCCccccCHHHHHHH
Confidence 4897 687776332 2467888888776664 447777752 2222 22331 1 48999999
Q ss_pred HHHHHHHHHHHHHHhhhc
Q psy17486 92 ARHWTNVYAGVVAKQYKE 109 (172)
Q Consensus 92 ar~~t~~~a~~~~~~~~~ 109 (172)
+.+|..+|.+.+..|.+.
T Consensus 113 ~weWk~e~~~~I~~Q~~r 130 (877)
T COG0525 113 CWEWKEESGGTIREQLRR 130 (877)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999999888644
No 68
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=54.89 E-value=15 Score=22.30 Aligned_cols=24 Identities=13% Similarity=0.065 Sum_probs=19.6
Q ss_pred ChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 148 MSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 148 ~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
+..-.+..|.+..||++.|...|.
T Consensus 30 ~d~~llRFLRARkf~v~~A~~mL~ 53 (55)
T PF03765_consen 30 DDNFLLRFLRARKFDVEKAFKMLK 53 (55)
T ss_dssp SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CHHHHHHHHHHccCCHHHHHHHHH
Confidence 556679999999999999998874
No 69
>KOG0432|consensus
Probab=51.68 E-value=66 Score=31.36 Aligned_cols=121 Identities=17% Similarity=0.283 Sum_probs=67.9
Q ss_pred EcCCCCCCCCCeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhc-----CCCCCChHHH-------
Q psy17486 8 FVTKIWHPNISSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMA-----AAEPDDPQDA------- 75 (172)
Q Consensus 8 F~p~~YP~~pP~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~-----~p~~~~p~n~------- 75 (172)
|+.++|= ..|.-.|.-.+--||| ||.+.+.. .-+.+|++.+..-..+.. .|..+++-.+
T Consensus 64 ~fkp~~~-~~~~~~f~i~~PPPNV---TG~LHiGH-----ALt~aiqD~i~R~~rm~G~~vlw~PG~DHAGIATQ~VVEK 134 (995)
T KOG0432|consen 64 FFKPEYG-PNPGGVFVIPLPPPNV---TGSLHIGH-----ALTVAIQDALARYNRMHGYQVLWVPGTDHAGIATQVVVEK 134 (995)
T ss_pred CCCcccC-CCCCCcceeecCCCCc---ccccchhH-----HHHHHHHHHHHHHHHhcCCeeeecCCccccchhHHHHHHH
Confidence 3355554 2233344445555787 67665411 123457777776666644 3666664221
Q ss_pred HHHHH---Hh--hCHHHHHHHHHHHHHHHHHHHHHhhhcCchhhHHHHHHHHHHh-cCCCCCCCchHHHHHHHHHc
Q psy17486 76 VVAKQ---YK--ENPEMFTLTARHWTNVYAGVVAKQYKENPEMFTLTARHWTNVY-AGGPSKNPDFDSKIQRLTDM 145 (172)
Q Consensus 76 ~aa~~---~~--~~~~~f~~~ar~~t~~~a~~~~~~~~~~~~~~~~~a~~w~~~~-~~~~~~~~~~~~kv~~l~~~ 145 (172)
..++. .+ =.+++|.+.+.+|-++|.+.+..|.+.-. ..-.|++.+ .+.+... ....+.++++
T Consensus 135 ~l~~~~~~~Rh~lgRe~F~~~vw~Wk~e~g~~I~~Qlk~lG-----as~DW~re~fTmD~~~s---~AV~eAFvrL 202 (995)
T KOG0432|consen 135 QLAREGGKTRHDLGREEFLKEVWEWKEEYGGRIYNQLKRLG-----ASLDWDREAFTMDPKLS---RAVTEAFVRL 202 (995)
T ss_pred HHHHhcCcchhhcCHHHHHHHHHHHHHHhCccHHHHHHHhc-----CcccccHhhcccCHHHH---HHHHHHHHHH
Confidence 11111 11 13899999999999999999999875422 233687774 4443211 3444455544
No 70
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=50.90 E-value=30 Score=22.51 Aligned_cols=34 Identities=26% Similarity=0.513 Sum_probs=25.6
Q ss_pred CCchHHHHHHHHHcCCChHHHHHHHH------hcCCChHH
Q psy17486 132 NPDFDSKIQRLTDMGVMSHDARVALS------TYNWELER 165 (172)
Q Consensus 132 ~~~~~~kv~~l~~~gf~~~~a~~aLs------~~~W~~~~ 165 (172)
+...++.++.|..|||+...+...|. ..+|.+=+
T Consensus 8 ~~R~daA~dam~~lG~~~~~v~~vl~~LL~lY~~nW~lIE 47 (65)
T PF10440_consen 8 NERIDAALDAMRQLGFSKKQVRPVLKNLLKLYDGNWELIE 47 (65)
T ss_pred cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHcCCchhhh
Confidence 44578999999999999998865554 45676544
No 71
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=50.29 E-value=82 Score=23.41 Aligned_cols=36 Identities=25% Similarity=0.241 Sum_probs=32.7
Q ss_pred hHHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 135 FDSKIQRLTDMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 135 ~~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
....|+.+++.+..++.|..||.+.+ |+-.|.+.|.
T Consensus 114 ~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~ 149 (153)
T COG4008 114 PVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILR 149 (153)
T ss_pred cHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHH
Confidence 37789999999999999999999999 9999998774
No 72
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=42.42 E-value=15 Score=24.52 Aligned_cols=24 Identities=21% Similarity=0.405 Sum_probs=16.3
Q ss_pred ChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 148 MSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 148 ~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
++...+.||=.+.+|+++|+.+|+
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll 68 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLL 68 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHH
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHH
Confidence 556677777777777777777776
No 73
>PF14462 Prok-E2_E: Prokaryotic E2 family E
Probab=42.01 E-value=81 Score=23.09 Aligned_cols=52 Identities=13% Similarity=0.323 Sum_probs=30.5
Q ss_pred cCCCCCCCCCeeEEecccccccccCCC-Cce--ecccC--------------CCCcCCcC-CHHHHHHHHHHhh
Q psy17486 9 VTKIWHPNISSVKFLTKIWHPNISSVT-GAI--CLDIL--------------KDQWAAAM-TLRTVLLSLQALM 64 (172)
Q Consensus 9 ~p~~YP~~pP~v~F~t~i~HPnV~~~~-G~i--cl~~l--------------~~~W~p~~-~l~~vL~~i~~ll 64 (172)
+|+.||..+|.+-+.. |-+...+ |.| |-+.. ...|.|.. +|.+.|..|...|
T Consensus 50 iP~gYP~~~~DmfY~~----P~L~~~~G~~iP~~~~~~~~~~G~~wQrWSRH~~~W~P~~D~l~T~l~~v~~~L 119 (122)
T PF14462_consen 50 IPPGYPDAPLDMFYVY----PPLKLADGGPIPNAAEVTQTFDGRTWQRWSRHNNPWRPGVDDLWTHLARVEHAL 119 (122)
T ss_pred CCCCCCCCCCCcEEEC----CceEccCCCcCCchhcchhhcCCeeeeeecCCCCCCCCCCCcHHHHHHHHHHHH
Confidence 3999999999876654 3222222 223 32222 24577764 5777777776555
No 74
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=41.98 E-value=17 Score=33.25 Aligned_cols=36 Identities=25% Similarity=0.229 Sum_probs=32.1
Q ss_pred HHHHHHHHHcCCChHHHHHHHHhcCCChHHHHHHhh
Q psy17486 136 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAIF 171 (172)
Q Consensus 136 ~~kv~~l~~~gf~~~~a~~aLs~~~W~~~~a~~~l~ 171 (172)
+.+++.|.+|||+...++-||-..+.|.+++++-.+
T Consensus 622 E~~~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~ 657 (749)
T COG5207 622 ESKARSLLENGLNPNLCRKALMDMNTDSKRRVVWCI 657 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHccCCchheEEEEE
Confidence 678899999999999999999999999999886543
No 75
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=41.26 E-value=56 Score=20.43 Aligned_cols=35 Identities=14% Similarity=0.268 Sum_probs=26.3
Q ss_pred HHHHHHHHhcCCCCCCCchHHHHHHHHHcCCChHHHHHHHH
Q psy17486 117 TARHWTNVYAGGPSKNPDFDSKIQRLTDMGVMSHDARVALS 157 (172)
Q Consensus 117 ~a~~w~~~~~~~~~~~~~~~~kv~~l~~~gf~~~~a~~aLs 157 (172)
..+.|++++..-. ++..+.+.+.|-+...|...|.
T Consensus 22 ev~ywa~~~gvt~------~~L~~AV~~vG~~~~~V~~~L~ 56 (57)
T PF12244_consen 22 EVRYWAKRFGVTE------EQLREAVRAVGNSRAAVRAYLG 56 (57)
T ss_pred HHHHHHHHHCcCH------HHHHHHHHHHCcCHHHHHHHHc
Confidence 4678988887764 6666667778888888877765
No 76
>KOG4018|consensus
Probab=40.68 E-value=19 Score=28.93 Aligned_cols=17 Identities=6% Similarity=0.135 Sum_probs=14.6
Q ss_pred cEEEEcCCCCCCCCCeeE
Q psy17486 4 TTVKFVTKIWHPNISSVK 21 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v~ 21 (172)
+.++| +++||..||-+.
T Consensus 53 l~~s~-tEnYPDe~Pli~ 69 (215)
T KOG4018|consen 53 LVFSL-TENYPDEAPLIE 69 (215)
T ss_pred EEEEc-cCCCCCCCccee
Confidence 46778 999999999983
No 77
>PF02909 TetR_C: Tetracyclin repressor, C-terminal all-alpha domain; InterPro: IPR004111 The antibiotic tetracycline has a broad spectrum of activity, acting to inhibit bacterial protein synthesis by binding to the 30S ribosomal subunit, which prevents the association of the aminoacyl-tRNA to the ribosomal acceptor A site. Tetracycline binding is reversible, therefore diluting out the antibiotic can reverse its effects. Tetracycline resistance genes are often located on mobile elements, such as plasmids, transposons and/or conjugative transposons, which can sometimes be transferred between bacterial species. In certain cases, tetracycline can enhance the transfer of these elements, thereby promoting resistance amongst a bacterial colony. There are three types of tetracycline resistance: tetracycline efflux, ribosomal protection, and tetracycline modification [, ]: Tetracycline efflux proteins belong to the major facilitator superfamily. Efflux proteins are membrane-associated proteins that recognise and export tetracycline from the cell. They are found in both Gram-positive and Gram-negative bacteria []. There are at least 22 different tetracycline efflux proteins, grouped according to sequence similarity: Group 1 are Tet(A), Tet(B), Tet(C), Tet(D), Tet(E), Tet(G), Tet(H), Tet(J), Tet(Z) and Tet(30); Group 2 are Tet(K) and Tet(L); Group 3 are Otr(B) and Tcr(3); Group 4 is TetA(P); Group 5 is Tet(V). In addition, there are the efflux proteins Tet(31), Tet(33), Tet(V), Tet(Y), Tet(34), and Tet(35). Ribosomal protection proteins are cytoplasmic proteins that display homology with the elongation factors EF-Tu and EF-G. Protection proteins bind the ribosome, causing an alteration in ribosomal conformation that prevents tetracycline from binding. There are at least ten ribosomal protection proteins: Tet(M), Tet(O), Tet(S), Tet(W), Tet(32), Tet(36), Tet(Q), Tet(T), Otr(A), and TetB(P). Both Tet(M) and Tet(O) have ribosome-dependent GTPase activity, the hydrolysis of GTP providing the energy for the ribosomal conformational changes. Tetracycline modification proteins include the enzymes Tet(37) and Tet(X), both of which inactivate tetracycline. In addition, there are the tetracycline resistance proteins Tet(U) and Otr(C). The expression of several of these tet genes is controlled by a family of tetracycline transcriptional regulators known as TetR. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity []. The TetR proteins identified in over 115 genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the C-terminal domain found in the tetracycline transcriptional repressor TetR, which binds to the Tet(A) gene to repress its expression in the absence of tetracycline []. Tet(A) is a membrane-associated efflux protein that exports tetracycline from the cell before it can attach to ribosomes and inhibit polypeptide chain growth. TetR occurs as a homodimer and uses two helix-turn-helix (HTH) motifs to bind tandem DNA operators, thereby blocking the expression of the associated genes, TetA and TetR. The structure of the class D TetR repressor protein [] involves 10 alpha-helices, with connecting turns and loops. The three N-terminal helices constitute the DNA-binding HTH domain, which has an inverse orientation compared with HTH motifs in other DNA-binding proteins. The core of the protein, formed by helices 5-10, is responsible for dimerisation and contains, for each monomer, a binding pocket that accommodates tetracycline in the presence of a divalent cation.; GO: 0045892 negative regulation of transcription, DNA-dependent; PDB: 2Y30_B 3ZQL_C 2Y31_B 2Y2Z_A 2VPR_A 3B6A_A 3B6C_A 2OPT_A 2NS7_B 2NS8_C ....
Probab=38.53 E-value=28 Score=24.70 Aligned_cols=62 Identities=18% Similarity=0.187 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHhhhcCchhhHHHHHHHHHHhcCCCCCCCchHHHHHHHHHcCCChHHHHHHHHh
Q psy17486 93 RHWTNVYAGVVAKQYKENPEMFTLTARHWTNVYAGGPSKNPDFDSKIQRLTDMGVMSHDARVALST 158 (172)
Q Consensus 93 r~~t~~~a~~~~~~~~~~~~~~~~~a~~w~~~~~~~~~~~~~~~~kv~~l~~~gf~~~~a~~aLs~ 158 (172)
|++...++..++..+..+|....-... ....++..-.-.+..++.|.+.||+.+++..+...
T Consensus 9 ~~~l~~~a~~~r~~~~~hP~~~~~~~~----~~~~~p~~l~~~e~~l~~L~~aG~~~~~a~~~~~~ 70 (139)
T PF02909_consen 9 RERLRALARAYRAALLRHPWLAELLLA----RPPPGPNALRLMEAMLRALRDAGFSPEEAARAYAA 70 (139)
T ss_dssp HHHHHHHHHHHHHHHHTSTTHHHHHHT----SSCTSHHHHHHHHHHHHHHHHTTEEHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHCcCHHHHHHh----cCCCChhHHHHHHHHHHHHHHcCcCHHHHHHHHHH
Confidence 345566666777777777765332211 11111111113567788888999999888666543
No 78
>KOG0177|consensus
Probab=36.26 E-value=17 Score=28.79 Aligned_cols=28 Identities=25% Similarity=0.431 Sum_probs=23.4
Q ss_pred CCceecccCCCCcCCcCCHHHHHHHHHH
Q psy17486 35 TGAICLDILKDQWAAAMTLRTVLLSLQA 62 (172)
Q Consensus 35 ~G~icl~~l~~~W~p~~~l~~vL~~i~~ 62 (172)
.+..|++|+...|+|.+|+++.+.-++.
T Consensus 135 ~~~f~~sIlDr~Y~pdmt~eea~~lmkK 162 (200)
T KOG0177|consen 135 GSYFCLSILDRYYKPDMTIEEALDLMKK 162 (200)
T ss_pred hhhhhHHHHHhhhCCCCCHHHHHHHHHH
Confidence 5679999999999999999887765543
No 79
>PRK14136 recX recombination regulator RecX; Provisional
Probab=36.24 E-value=1.7e+02 Score=24.97 Aligned_cols=46 Identities=15% Similarity=0.195 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHhcCCCCCCCchHHHHHHHHHcCCChHHHHHHHHhc
Q psy17486 114 FTLTARHWTNVYAGGPSKNPDFDSKIQRLTDMGVMSHDARVALSTY 159 (172)
Q Consensus 114 ~~~~a~~w~~~~~~~~~~~~~~~~kv~~l~~~gf~~~~a~~aLs~~ 159 (172)
++...+.|.++|...+....+..+.++-|..-||+-+.+..+|+..
T Consensus 257 ~E~A~~L~eKK~~~~~~d~kek~K~iRfL~rRGFS~D~I~~vLk~~ 302 (309)
T PRK14136 257 FERAQAVWRKKFGALPQTPAERAKQARFLAARGFSSATIVKLLKVG 302 (309)
T ss_pred HHHHHHHHHHHhcccCcCHHHHHHHHHHHHHCCCCHHHHHHHHHhc
Confidence 4545567777776544322234555677788899999999988654
No 80
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=35.76 E-value=41 Score=21.48 Aligned_cols=18 Identities=22% Similarity=0.398 Sum_probs=14.2
Q ss_pred HHHHHcCCChHHHHHHHH
Q psy17486 140 QRLTDMGVMSHDARVALS 157 (172)
Q Consensus 140 ~~l~~~gf~~~~a~~aLs 157 (172)
+.|++|||.++.|.....
T Consensus 7 ~dLi~lGf~~~tA~~IIr 24 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIR 24 (59)
T ss_pred HHHHHcCCCHHHHHHHHH
Confidence 568899999988866554
No 81
>KOG3203|consensus
Probab=31.66 E-value=25 Score=26.85 Aligned_cols=15 Identities=27% Similarity=0.609 Sum_probs=12.2
Q ss_pred cccccccccCCCCceec
Q psy17486 24 TKIWHPNISSVTGAICL 40 (172)
Q Consensus 24 t~i~HPnV~~~~G~icl 40 (172)
.+||||+.| .|.+|.
T Consensus 49 KPiYhP~~D--cGD~VV 63 (165)
T KOG3203|consen 49 KPIYHPSTD--CGDHVV 63 (165)
T ss_pred CCccCCccC--CCCEEE
Confidence 489999998 788764
No 82
>KOG3357|consensus
Probab=31.21 E-value=48 Score=24.70 Aligned_cols=47 Identities=13% Similarity=0.228 Sum_probs=27.0
Q ss_pred CCCCCCCCCeeEEecccc-cccccCCCCceecccC-CCCc---CCcCCHHHHH
Q psy17486 10 TKIWHPNISSVKFLTKIW-HPNISSVTGAICLDIL-KDQW---AAAMTLRTVL 57 (172)
Q Consensus 10 p~~YP~~pP~v~F~t~i~-HPnV~~~~G~icl~~l-~~~W---~p~~~l~~vL 57 (172)
|-.||-.+|.+..-.--- ---.+ ..|.|||.-. +.-| .|.++|...+
T Consensus 87 pityp~tapeialpeldgktakmy-rggkiclt~hfkplwarn~pkfgiaha~ 138 (167)
T KOG3357|consen 87 PITYPTTAPEIALPELDGKTAKMY-RGGKICLTDHFKPLWARNVPKFGIAHAM 138 (167)
T ss_pred ccccCCCCccccccccCchhhhhh-cCceEeeccccchhhhhcCcchhHHHHH
Confidence 889999999764321000 00122 4799998665 3345 4556666554
No 83
>KOG2851|consensus
Probab=28.87 E-value=1.2e+02 Score=26.61 Aligned_cols=34 Identities=26% Similarity=0.481 Sum_probs=27.4
Q ss_pred cccCCCCceecccC---CCCcCCc--CCHHHHHHHHHHh
Q psy17486 30 NISSVTGAICLDIL---KDQWAAA--MTLRTVLLSLQAL 63 (172)
Q Consensus 30 nV~~~~G~icl~~l---~~~W~p~--~~l~~vL~~i~~l 63 (172)
.|.|.||.||.+|= -++..|. =+|.+++..|.++
T Consensus 331 cVHP~Tg~VcVPidv~~~d~Fdp~~vPti~~l~eEl~~~ 369 (412)
T KOG2851|consen 331 CVHPKTGRVCVPIDVSKVDEFDPEKVPTISDLLEELESL 369 (412)
T ss_pred cccCCCCceEeecchhhccccCcccCCcHHHHHHHHhhc
Confidence 57888999999886 2567665 3899999999887
No 84
>PF08587 UBA_2: Ubiquitin associated domain (UBA) ; InterPro: IPR013896 This is a UBA (ubiquitin associated) protein []. Ubiquitin is involved in intracellular proteolysis. ; GO: 0004674 protein serine/threonine kinase activity; PDB: 3H4J_B.
Probab=28.28 E-value=24 Score=21.41 Aligned_cols=22 Identities=23% Similarity=0.345 Sum_probs=14.5
Q ss_pred HHHH-HHcCCChHHHHHHHHhcC
Q psy17486 139 IQRL-TDMGVMSHDARVALSTYN 160 (172)
Q Consensus 139 v~~l-~~~gf~~~~a~~aLs~~~ 160 (172)
|..| ..||++++.+..||...+
T Consensus 6 v~~Ls~tMGY~kdeI~eaL~~~~ 28 (46)
T PF08587_consen 6 VSKLSKTMGYDKDEIYEALESSE 28 (46)
T ss_dssp HHHHHCTT---HHHHHHHCCSSS
T ss_pred HHHHHHHhCCCHHHHHHHHHcCC
Confidence 4455 479999999999998843
No 85
>PF14460 Prok-E2_D: Prokaryotic E2 family D
Probab=27.73 E-value=75 Score=24.40 Aligned_cols=19 Identities=32% Similarity=0.679 Sum_probs=14.5
Q ss_pred cccccc---cccCCCCceecccC
Q psy17486 24 TKIWHP---NISSVTGAICLDIL 43 (172)
Q Consensus 24 t~i~HP---nV~~~~G~icl~~l 43 (172)
|+.||. ||.. +|.||+...
T Consensus 90 T~Ly~aPf~NV~~-~g~vC~G~~ 111 (175)
T PF14460_consen 90 TPLYHAPFFNVYS-NGSVCWGNN 111 (175)
T ss_pred CeeEeCCccccCC-CCcEeeCCC
Confidence 566765 9984 999998664
No 86
>TIGR03737 PRTRC_B PRTRC system protein B. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. This protein family is designated protein B.
Probab=26.64 E-value=96 Score=25.20 Aligned_cols=43 Identities=19% Similarity=0.315 Sum_probs=26.4
Q ss_pred cccccc---cccCCCCceecccCCCCcCCc-CCHHHHHHHHHHhhcCCCCCC
Q psy17486 24 TKIWHP---NISSVTGAICLDILKDQWAAA-MTLRTVLLSLQALMAAAEPDD 71 (172)
Q Consensus 24 t~i~HP---nV~~~~G~icl~~l~~~W~p~-~~l~~vL~~i~~ll~~p~~~~ 71 (172)
|+.||+ ||.. +|.||+.-.. .|. .++.+ +......+.+-...+
T Consensus 131 T~L~~aPffNV~~-~G~VC~G~~~---~P~~~~~~~-i~~we~~FF~S~FTH 177 (228)
T TIGR03737 131 TKLYQAPLFNVWS-NGEICAGNAR---LPDRPTVAN-ISAWEDAFFSSRFTH 177 (228)
T ss_pred CeeccCCcCccCC-CCeEeeCCCc---CCCCcCHHH-HHHHHHHHhCCcccC
Confidence 567776 9985 8999986653 443 34555 566655555443333
No 87
>KOG3163|consensus
Probab=26.19 E-value=35 Score=27.36 Aligned_cols=49 Identities=24% Similarity=0.414 Sum_probs=34.5
Q ss_pred cEEEEcCCCCCCCCCee-EEec---------ccccccccCCCCceecccC---CCCcCCcCCHHH
Q psy17486 4 TTVKFVTKIWHPNISSV-KFLT---------KIWHPNISSVTGAICLDIL---KDQWAAAMTLRT 55 (172)
Q Consensus 4 ~~i~F~p~~YP~~pP~v-~F~t---------~i~HPnV~~~~G~icl~~l---~~~W~p~~~l~~ 55 (172)
.++.|+.++|--.||+. +|+. .+-||-+. -.+||+|+ +..-+|.+|-..
T Consensus 151 Tk~tFVg~~FTRkPpKyERfIRPm~lRfkkAhVthpEL~---~Tf~LpIigvKKNP~sp~yT~LG 212 (260)
T KOG3163|consen 151 TKVTFVGDGFTRKPPKYERFIRPMGLRFKKAHVTHPELK---VTFCLPIIGVKKNPSSPMYTSLG 212 (260)
T ss_pred heeeeecCCcccCCchHhhhhchhhhhhhhccccChhhc---eEEEeeeeEeccCCCCcceeecc
Confidence 46789999999999984 4443 45677653 46899999 345677766433
No 88
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=25.40 E-value=2.8e+02 Score=21.56 Aligned_cols=26 Identities=15% Similarity=0.218 Sum_probs=22.9
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHhc
Q psy17486 134 DFDSKIQRLTDMGVMSHDARVALSTY 159 (172)
Q Consensus 134 ~~~~kv~~l~~~gf~~~~a~~aLs~~ 159 (172)
..++.++.|+.+||++.+|..|++.-
T Consensus 141 ~~~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 141 DKSEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 35788999999999999999888876
No 89
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=22.62 E-value=1.5e+02 Score=20.87 Aligned_cols=42 Identities=14% Similarity=0.007 Sum_probs=26.6
Q ss_pred HHHHHHHHhcCCCCC--CCchHHHHHHHHHcCCChHHHHHHHHh
Q psy17486 117 TARHWTNVYAGGPSK--NPDFDSKIQRLTDMGVMSHDARVALST 158 (172)
Q Consensus 117 ~a~~w~~~~~~~~~~--~~~~~~kv~~l~~~gf~~~~a~~aLs~ 158 (172)
..+.+.++|...... .....+.+..|++-||+.+.+..+++.
T Consensus 75 a~~~~~kk~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 75 ALELAEKKYRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHHHHHHHHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 445566666665211 223566677788999999999988876
No 90
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.50 E-value=83 Score=23.94 Aligned_cols=23 Identities=30% Similarity=0.677 Sum_probs=15.3
Q ss_pred HhhhcCchhhHHHHHHHHHHhcC
Q psy17486 105 KQYKENPEMFTLTARHWTNVYAG 127 (172)
Q Consensus 105 ~~~~~~~~~~~~~a~~w~~~~~~ 127 (172)
..++.++..+.+.+|+|+++|+.
T Consensus 130 ~~~~~d~~~y~~~vr~~~~~~~~ 152 (153)
T COG5078 130 TLYREDKEEYEKKVREWVKKYAE 152 (153)
T ss_pred HHHHhCHHHHHHHHHHHHHHhcc
Confidence 34455666667778888777764
No 91
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=22.33 E-value=4e+02 Score=25.69 Aligned_cols=82 Identities=16% Similarity=0.272 Sum_probs=51.4
Q ss_pred CeeEEecccccccccCCCCceecccCCCCcCCcCCHHHHHHHHHHhhcC-----CCCCC---hHHHHHHHHHhh------
Q psy17486 18 SSVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAA-----AEPDD---PQDAVVAKQYKE------ 83 (172)
Q Consensus 18 P~v~F~t~i~HPnV~~~~G~icl~~l~~~W~p~~~l~~vL~~i~~ll~~-----p~~~~---p~n~~aa~~~~~------ 83 (172)
|++.+.++. ||+ ||.+.+.... +.++.+++..-+.|... |..|. |.-..+.+.+..
T Consensus 33 ~~f~i~~pp--Py~---nG~lHiGH~~-----~~~~~D~~~Ry~rm~G~~vl~~~G~D~~Glp~e~~vek~~~~~g~~~~ 102 (861)
T TIGR00422 33 PPFCIDIPP--PNV---TGSLHIGHAL-----NWSIQDIIARYKRMKGYNVLWLPGTDHAGIATQVKVEKKLGAEGKTKH 102 (861)
T ss_pred CeEEEEeCC--CCC---CCCCcHHHhH-----HHHHHHHHHHHHHhcCCcccCCCCcCcCCCcHHHHHHHHhcccCCchh
Confidence 556666655 675 5766654431 35677777776666543 44444 333333333211
Q ss_pred --CHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy17486 84 --NPEMFTLTARHWTNVYAGVVAKQYKE 109 (172)
Q Consensus 84 --~~~~f~~~ar~~t~~~a~~~~~~~~~ 109 (172)
.++.|.+++++|+.+|.+....+++.
T Consensus 103 ~~~~e~f~~~~~~~~~~~~~~~~~~~~~ 130 (861)
T TIGR00422 103 DLGREEFREKIWEWKEESGGTIKNQIKR 130 (861)
T ss_pred hCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999988887643
No 92
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=21.70 E-value=1.8e+02 Score=23.13 Aligned_cols=26 Identities=12% Similarity=0.300 Sum_probs=20.3
Q ss_pred hHHHHHHHHHcCCChHHHHHHHHhcC
Q psy17486 135 FDSKIQRLTDMGVMSHDARVALSTYN 160 (172)
Q Consensus 135 ~~~kv~~l~~~gf~~~~a~~aLs~~~ 160 (172)
.+..++.|+.+||.+.++..|++.-.
T Consensus 156 ~~~~v~AL~~LGy~~~e~~~av~~v~ 181 (201)
T COG0632 156 LEEAVEALVALGYKEKEIKKAVKKVL 181 (201)
T ss_pred hhHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 34448999999999999877766543
No 93
>KOG1071|consensus
Probab=21.40 E-value=1.9e+02 Score=24.82 Aligned_cols=36 Identities=19% Similarity=0.216 Sum_probs=30.2
Q ss_pred hHHHHHHHH-HcCCChHHHHHHHHhcCCChHHHHHHh
Q psy17486 135 FDSKIQRLT-DMGVMSHDARVALSTYNWELERATEAI 170 (172)
Q Consensus 135 ~~~kv~~l~-~~gf~~~~a~~aLs~~~W~~~~a~~~l 170 (172)
....+.+|+ +-|..-..+..||..+|||+..|.+.|
T Consensus 46 ~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L 82 (340)
T KOG1071|consen 46 SKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWL 82 (340)
T ss_pred cHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHH
Confidence 366777775 557888899999999999999999887
No 94
>KOG0309|consensus
Probab=21.24 E-value=63 Score=31.05 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=16.9
Q ss_pred CcEEEEcCCCCCCCC-CeeEEec
Q psy17486 3 DTTVKFVTKIWHPNI-SSVKFLT 24 (172)
Q Consensus 3 ~~~i~F~p~~YP~~p-P~v~F~t 24 (172)
...|.| |.+||.+. |+++|..
T Consensus 469 rm~V~F-P~nYPn~a~P~Fq~e~ 490 (1081)
T KOG0309|consen 469 RMLVKF-PANYPNNAAPSFQFEN 490 (1081)
T ss_pred EEEEec-cccCCCCCCCceEEec
Confidence 456788 99999887 8888874
No 95
>PRK13245 hetR heterocyst differentiation control protein; Reviewed
Probab=20.77 E-value=1.1e+02 Score=25.07 Aligned_cols=51 Identities=16% Similarity=0.309 Sum_probs=33.5
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHHHHH-hhhcCch--------hhHHHHHHHHHHhcCC
Q psy17486 78 AKQYKENPEMFTLTARHWTNVYAGVVAK-QYKENPE--------MFTLTARHWTNVYAGG 128 (172)
Q Consensus 78 a~~~~~~~~~f~~~ar~~t~~~a~~~~~-~~~~~~~--------~~~~~a~~w~~~~~~~ 128 (172)
.....+|-..|.+..+.|+++-.++.+- .-.++|. ..+...|.|+++|-..
T Consensus 224 ty~mvEDtAryfRlm~~Wae~~~~vmRilEeldIp~~~~~qA~~eLdeiir~WAdrYH~~ 283 (299)
T PRK13245 224 TYIMVEDTARYFRMMKDWAERRHNVMRILEELDIPPERMEQAMEELDEIIRHWADKYHQD 283 (299)
T ss_pred cchhHHHHHHHHHHHHHHHHccchHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3456788899999999999976553322 1122222 3456778999998543
Done!