Query 029412
Match_columns 194
No_of_seqs 176 out of 1557
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 12:30:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029412.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029412hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0418 Ubiquitin-protein liga 100.0 3.7E-56 7.9E-61 339.4 19.3 194 1-194 1-200 (200)
2 KOG0417 Ubiquitin-protein liga 100.0 2.7E-55 5.9E-60 325.2 14.9 147 3-151 2-148 (148)
3 COG5078 Ubiquitin-protein liga 100.0 1.3E-52 2.9E-57 317.5 17.0 146 3-150 6-152 (153)
4 PTZ00390 ubiquitin-conjugating 100.0 5.7E-51 1.2E-55 311.5 17.9 150 1-152 1-150 (152)
5 PLN00172 ubiquitin conjugating 100.0 2.1E-49 4.5E-54 301.6 17.2 146 3-150 2-147 (147)
6 KOG0419 Ubiquitin-protein liga 100.0 3.4E-48 7.3E-53 279.9 13.9 144 3-148 5-148 (152)
7 KOG0425 Ubiquitin-protein liga 100.0 8.5E-44 1.8E-48 264.2 14.8 144 3-148 6-163 (171)
8 KOG0424 Ubiquitin-protein liga 100.0 2.5E-43 5.5E-48 258.2 15.6 148 1-150 3-157 (158)
9 PF00179 UQ_con: Ubiquitin-con 100.0 4.1E-43 8.9E-48 265.2 13.4 138 6-145 1-140 (140)
10 cd00195 UBCc Ubiquitin-conjuga 100.0 3.2E-42 6.9E-47 260.6 15.7 139 5-145 2-141 (141)
11 smart00212 UBCc Ubiquitin-conj 100.0 2.4E-41 5.1E-46 257.0 16.1 143 5-149 1-145 (145)
12 KOG0426 Ubiquitin-protein liga 100.0 2.2E-41 4.8E-46 244.6 13.2 145 2-148 4-162 (165)
13 KOG0421 Ubiquitin-protein liga 100.0 2.2E-41 4.9E-46 247.8 11.6 142 3-147 30-171 (175)
14 KOG0422 Ubiquitin-protein liga 100.0 2.7E-40 5.9E-45 241.1 13.9 150 1-153 1-152 (153)
15 KOG0416 Ubiquitin-protein liga 100.0 1.5E-37 3.2E-42 233.7 12.3 147 3-153 4-151 (189)
16 KOG0420 Ubiquitin-protein liga 100.0 2.8E-36 6E-41 227.4 11.5 147 3-152 29-177 (184)
17 KOG0423 Ubiquitin-protein liga 100.0 6.7E-36 1.5E-40 225.3 8.1 146 4-151 12-157 (223)
18 KOG0427 Ubiquitin conjugating 100.0 4.8E-30 1E-34 185.5 10.1 111 3-116 16-127 (161)
19 KOG0894 Ubiquitin-protein liga 100.0 4.1E-28 9E-33 189.1 11.9 111 2-118 5-120 (244)
20 KOG0429 Ubiquitin-conjugating 99.9 8.9E-25 1.9E-29 171.0 12.7 143 5-149 22-169 (258)
21 KOG0428 Non-canonical ubiquiti 99.9 7E-22 1.5E-26 157.1 7.9 131 2-147 11-151 (314)
22 KOG0895 Ubiquitin-conjugating 99.7 1.4E-17 3.1E-22 154.5 9.0 109 5-115 854-971 (1101)
23 KOG0895 Ubiquitin-conjugating 99.6 3.6E-15 7.7E-20 138.8 9.5 112 3-116 283-405 (1101)
24 KOG0896 Ubiquitin-conjugating 99.6 5.5E-15 1.2E-19 107.9 7.3 114 2-115 5-123 (138)
25 KOG0897 Predicted ubiquitin-co 98.7 2.3E-08 5.1E-13 71.3 5.6 92 52-144 13-109 (122)
26 PF14461 Prok-E2_B: Prokaryoti 98.6 6.8E-08 1.5E-12 72.3 5.7 67 48-115 34-106 (133)
27 PF00627 UBA: UBA/TS-N domain; 98.3 2.3E-06 5E-11 49.7 4.7 36 156-191 2-37 (37)
28 smart00165 UBA Ubiquitin assoc 98.2 2.5E-06 5.4E-11 49.4 4.7 36 157-192 2-37 (37)
29 cd00194 UBA Ubiquitin Associat 98.2 3.9E-06 8.4E-11 48.9 4.9 37 157-193 2-38 (38)
30 PF05743 UEV: UEV domain; Int 98.1 1.3E-05 2.7E-10 59.1 6.6 79 31-115 31-117 (121)
31 TIGR00601 rad23 UV excision re 97.6 7.2E-05 1.6E-09 65.1 4.7 39 156-194 156-194 (378)
32 KOG2391 Vacuolar sorting prote 97.3 0.001 2.3E-08 56.3 7.3 82 31-118 51-140 (365)
33 PF08694 UFC1: Ubiquitin-fold 97.1 0.00032 6.9E-09 52.3 2.5 97 4-106 26-135 (161)
34 KOG0011 Nucleotide excision re 97.0 0.00081 1.8E-08 56.8 4.4 39 156-194 135-173 (340)
35 PF14462 Prok-E2_E: Prokaryoti 96.7 0.016 3.5E-07 42.6 8.7 90 21-114 12-120 (122)
36 PF05773 RWD: RWD domain; Int 96.0 0.011 2.5E-07 41.8 4.4 69 5-75 4-74 (113)
37 KOG3357 Uncharacterized conser 95.3 0.027 5.8E-07 41.5 4.0 86 4-97 29-126 (167)
38 TIGR00601 rad23 UV excision re 95.2 0.05 1.1E-06 47.6 6.2 73 122-194 281-375 (378)
39 smart00591 RWD domain in RING 95.0 0.14 3E-06 35.8 6.9 26 48-73 39-64 (107)
40 PF14555 UBA_4: UBA-like domai 94.8 0.084 1.8E-06 31.4 4.5 37 157-193 1-38 (43)
41 PF14457 Prok-E2_A: Prokaryoti 94.6 0.051 1.1E-06 41.9 4.0 61 54-115 57-126 (162)
42 PF02845 CUE: CUE domain; Int 93.7 0.14 3.1E-06 30.1 3.9 38 157-194 2-41 (42)
43 PF09288 UBA_3: Fungal ubiquit 92.1 0.18 3.9E-06 31.7 2.8 29 156-184 9-37 (55)
44 KOG0944 Ubiquitin-specific pro 89.8 0.51 1.1E-05 43.8 4.6 55 139-193 601-672 (763)
45 KOG0011 Nucleotide excision re 89.2 0.85 1.8E-05 38.9 5.2 72 123-194 250-336 (340)
46 smart00546 CUE Domain that may 88.7 1.6 3.5E-05 25.6 4.8 38 157-194 3-42 (43)
47 PRK06369 nac nascent polypepti 88.3 1.2 2.6E-05 32.4 4.8 40 155-194 75-115 (115)
48 PF09765 WD-3: WD-repeat regio 86.6 1.7 3.7E-05 36.8 5.5 86 4-114 101-187 (291)
49 KOG0309 Conserved WD40 repeat- 85.5 2.9 6.3E-05 39.7 6.8 67 5-74 423-491 (1081)
50 PF06972 DUF1296: Protein of u 85.4 2.4 5.2E-05 27.0 4.4 37 158-194 7-45 (60)
51 KOG4018 Uncharacterized conser 85.0 3 6.5E-05 33.5 5.9 68 1-71 1-70 (215)
52 TIGR00264 alpha-NAC-related pr 83.4 2.8 6E-05 30.5 4.6 37 155-191 77-114 (116)
53 PF11547 E3_UbLigase_EDD: E3 u 81.1 5.7 0.00012 24.2 4.6 38 156-193 9-48 (53)
54 COG1308 EGD2 Transcription fac 77.9 5.5 0.00012 29.2 4.6 36 156-191 84-120 (122)
55 COG4008 Predicted metal-bindin 77.2 26 0.00057 25.9 7.9 59 132-192 91-149 (153)
56 KOG2561 Adaptor protein NUB1, 75.7 9.6 0.00021 34.2 6.3 35 157-191 304-338 (568)
57 KOG2561 Adaptor protein NUB1, 73.2 4.9 0.00011 36.0 3.9 36 157-192 430-465 (568)
58 PF07553 Lipoprotein_Ltp: Host 69.2 20 0.00043 21.8 4.9 41 138-178 3-46 (48)
59 PF07499 RuvA_C: RuvA, C-termi 66.8 5.2 0.00011 24.0 2.0 25 157-181 4-28 (47)
60 PF11626 Rap1_C: TRF2-interact 63.3 12 0.00027 25.5 3.6 34 160-193 1-34 (87)
61 PF06113 BRE: Brain and reprod 60.1 21 0.00046 30.7 5.2 42 32-79 53-95 (333)
62 KOG0010 Ubiquitin-like protein 58.1 17 0.00036 32.9 4.4 37 158-194 456-493 (493)
63 PF08383 Maf_N: Maf N-terminal 57.4 10 0.00022 21.5 1.9 16 179-194 20-35 (35)
64 COG0525 ValS Valyl-tRNA synthe 57.1 52 0.0011 32.2 7.7 67 78-152 42-124 (877)
65 KOG0944 Ubiquitin-specific pro 57.1 17 0.00038 34.2 4.4 33 156-188 571-603 (763)
66 COG5207 UBP14 Isopeptidase T [ 56.3 13 0.00027 34.1 3.3 54 139-192 588-657 (749)
67 smart00804 TAP_C C-terminal do 54.1 38 0.00083 21.8 4.5 34 157-190 13-47 (63)
68 KOG1071 Mitochondrial translat 53.4 30 0.00066 29.6 4.9 36 157-192 47-83 (340)
69 PF11372 DUF3173: Domain of un 52.7 32 0.0007 21.9 3.9 21 160-180 6-26 (59)
70 PF03943 TAP_C: TAP C-terminal 50.3 26 0.00057 21.4 3.1 31 160-190 4-35 (51)
71 smart00340 HALZ homeobox assoc 48.4 23 0.0005 20.9 2.5 15 4-18 21-35 (44)
72 PF14460 Prok-E2_D: Prokaryoti 46.7 27 0.00058 27.1 3.5 44 71-118 88-135 (175)
73 PF03366 YEATS: YEATS family; 46.4 51 0.0011 22.4 4.4 43 33-77 2-44 (84)
74 PF07223 DUF1421: Protein of u 44.7 23 0.0005 30.9 3.0 21 156-176 321-341 (358)
75 TIGR03737 PRTRC_B PRTRC system 42.8 35 0.00077 27.8 3.7 38 73-115 131-172 (228)
76 cd07981 TAF12 TATA Binding Pro 42.7 94 0.002 20.3 5.8 48 108-155 6-53 (72)
77 PF09606 Med15: ARC105 or Med1 41.6 8.7 0.00019 37.0 0.0 27 50-76 714-740 (799)
78 KOG2851 Eukaryotic-type DNA pr 41.5 50 0.0011 28.9 4.5 33 80-112 332-369 (412)
79 PF03765 CRAL_TRIO_N: CRAL/TRI 39.8 47 0.001 20.1 3.2 30 163-192 24-53 (55)
80 cd00421 intradiol_dioxygenase 38.0 31 0.00068 25.8 2.6 25 48-72 64-89 (146)
81 PRK11700 hypothetical protein; 36.6 1.1E+02 0.0025 24.1 5.5 71 32-108 88-184 (187)
82 COG5207 UBP14 Isopeptidase T [ 35.7 59 0.0013 29.9 4.2 25 158-182 560-584 (749)
83 PF02954 HTH_8: Bacterial regu 35.6 32 0.0007 19.8 1.9 23 169-191 6-28 (42)
84 PF08587 UBA_2: Ubiquitin asso 34.2 12 0.00027 22.5 -0.1 24 157-180 3-27 (46)
85 cd03457 intradiol_dioxygenase_ 32.6 43 0.00093 26.4 2.6 25 48-72 85-109 (188)
86 KOG4445 Uncharacterized conser 31.4 46 0.001 28.4 2.7 26 50-75 45-70 (368)
87 KOG1047 Bifunctional leukotrie 31.4 36 0.00079 31.4 2.3 29 45-74 248-279 (613)
88 PRK00117 recX recombination re 31.3 2.2E+02 0.0048 21.1 6.6 47 141-188 64-110 (157)
89 PRK14600 ruvA Holliday junctio 31.0 49 0.0011 26.0 2.7 25 157-181 146-170 (186)
90 PF06113 BRE: Brain and reprod 30.6 42 0.00091 29.0 2.4 24 50-73 306-329 (333)
91 KOG3203 Mitochondrial/chloropl 30.5 22 0.00048 27.1 0.7 15 73-89 49-63 (165)
92 PF15187 Augurin: Oesophageal 28.6 1.2E+02 0.0025 21.7 3.9 22 156-177 50-71 (114)
93 KOG0662 Cyclin-dependent kinas 28.5 57 0.0012 26.1 2.7 57 64-120 167-226 (292)
94 KOG0177 20S proteasome, regula 28.1 35 0.00075 27.1 1.4 29 84-112 135-163 (200)
95 cd03459 3,4-PCD Protocatechuat 27.0 62 0.0013 24.7 2.6 24 49-72 72-100 (158)
96 smart00576 BTP Bromodomain tra 26.5 1.9E+02 0.0042 18.9 4.9 58 110-168 13-73 (77)
97 PF02631 RecX: RecX family; I 25.9 99 0.0021 22.0 3.4 46 140-185 29-74 (121)
98 cd02433 Nodulin-21_like_2 Nodu 25.7 2E+02 0.0043 23.4 5.5 55 134-188 78-132 (234)
99 KOG0481 DNA replication licens 24.3 5.6E+02 0.012 24.1 8.4 47 134-180 664-710 (729)
100 PRK14603 ruvA Holliday junctio 23.1 1.9E+02 0.0042 22.8 4.8 24 157-180 153-176 (197)
101 PF11745 DUF3304: Protein of u 22.8 32 0.00069 24.8 0.3 21 83-103 49-69 (118)
102 PRK14604 ruvA Holliday junctio 22.5 82 0.0018 24.9 2.6 25 157-181 150-174 (195)
103 COG0544 Tig FKBP-type peptidyl 22.3 1.8E+02 0.004 26.1 5.0 13 52-64 211-223 (441)
104 PF03847 TFIID_20kDa: Transcri 22.2 1.9E+02 0.0042 18.7 3.9 48 108-155 4-51 (68)
105 PF06152 Phage_min_cap2: Phage 22.1 5E+02 0.011 22.6 7.6 14 42-55 237-250 (361)
106 KOG3696 Aspartyl beta-hydroxyl 20.7 1.1E+02 0.0024 26.3 3.0 45 37-82 275-325 (334)
107 PRK14602 ruvA Holliday junctio 20.6 2.3E+02 0.005 22.5 4.9 24 157-180 156-179 (203)
No 1
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.7e-56 Score=339.45 Aligned_cols=194 Identities=53% Similarity=0.880 Sum_probs=185.0
Q ss_pred Cc-hHHHHHHHHHHHHhcCC--CCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceec
Q 029412 1 MI-DFSRVQKELQECSKDIE--ASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWH 77 (194)
Q Consensus 1 m~-~~~RL~~E~~~l~~~~~--~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~H 77 (194)
|+ +.+||++|++++.++.. ..||.+...++|+.+..+.|.||++|||+||+|.++|++|++|||+||+|+|.|+|||
T Consensus 1 m~~~~~ri~~e~k~v~~~~eisq~~I~ve~vn~~~~~ikG~I~GP~~TPYEGG~FeldI~iPe~YPF~pPkv~F~TkIwH 80 (200)
T KOG0418|consen 1 MSNAFKRINREQKEVLDDPEISQAGIIVEMVNENLKEIKGHIAGPEDTPYEGGVFELDIKIPENYPFKPPKVKFITKIWH 80 (200)
T ss_pred CccHHHHHHHHHHHhccChhhhhcceEEEEccCChhhceeEecCCCCCCCCCceEEEEEecCCCCCCCCCceeeeeeeec
Confidence 56 69999999999999842 5799999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCCC-Cc-
Q 029412 78 PNISSQSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTSS-LG- 155 (194)
Q Consensus 78 pnv~~~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~~-~~- 155 (194)
|||++.+|.||+|+|++.|.+++|+.++|++||++|..|++.+|.+..+|++|.+|++.|.++||.||..||++.. ..
T Consensus 81 PnVSs~tGaICLDilkd~Wa~slTlrtvLislQalL~~pEp~dPqDavva~qy~~n~~~F~~TAr~WT~~fA~~~~~~~~ 160 (200)
T KOG0418|consen 81 PNVSSQTGAICLDILKDQWAASLTLRTVLISLQALLCAPEPKDPQDAVVAEQYVDNYEMFYKTARYWTTEFAGGRLPDDP 160 (200)
T ss_pred CCCCcccccchhhhhhcccchhhhHHHHHHHHHHHHcCCCCCChHHHHHHHHHhhhHHHHHHHHHHHHHHHhCCCCCCCc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999943 22
Q ss_pred -hHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 156 -VEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 156 -~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
+..+++.|++|||++..++.+|+..+|+..+|+|+|++|
T Consensus 161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 161 WDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred hhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 368999999999999999999999999999999999987
No 2
>KOG0417 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.7e-55 Score=325.23 Aligned_cols=147 Identities=51% Similarity=0.920 Sum_probs=143.1
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccC
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~ 82 (194)
+.+||.+|+++|+++ +++|+++.++++|+++|+++|.||.+||||||+|++.|.||++||++||+|+|.|+||||||+
T Consensus 2 a~~RI~kE~~~l~~d-p~~~~~~~~~~dnl~~w~a~I~GP~~SpYEgG~F~l~I~~p~~YP~~PPkV~F~TkIyHPNI~- 79 (148)
T KOG0417|consen 2 ASKRIIKELQDLLRD-PPPGCSAGPVGDNLFHWQATILGPPGSPYEGGVFFLEIHFPEDYPFKPPKVRFLTKIYHPNID- 79 (148)
T ss_pred cHHHHHHHHHHHhcC-CCCCCccCCCCCceeeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCceEeecccccCCcC-
Confidence 567999999999999 569999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCC
Q 029412 83 QSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKT 151 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~ 151 (194)
.+|.||+|+|++.|+|+++|.+||++|++||.+||+++|++.++|.+|+.|+.+|+++||+||++||+.
T Consensus 80 ~~G~IclDILk~~WsPAl~i~~VllsI~sLL~~PnpddPL~~~ia~~~k~d~~~~~~~ARewt~kyA~~ 148 (148)
T KOG0417|consen 80 SNGRICLDILKDQWSPALTISKVLLSICSLLSDPNPDDPLVPDIAELYKTDRAKYERTAREWTRKYAMG 148 (148)
T ss_pred ccccchHHhhhccCChhhHHHHHHHHHHHHhcCCCCCccccHHHHHHHHhhHHHHHHHHHHHHHHHhcC
Confidence 699999999999999999999999999999999999999999999999999999999999999999974
No 3
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.3e-52 Score=317.45 Aligned_cols=146 Identities=47% Similarity=0.926 Sum_probs=142.4
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCC-CceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceeccccc
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSD-NLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNIS 81 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~-~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~ 81 (194)
+.+||++|++.|+++ ++.++++.|.++ |+++|+++|.||++|||+||+|++.|.||++||++||+|+|.|+|||||||
T Consensus 6 a~~RL~kE~~~l~~~-~~~~~~a~p~~d~~l~~w~~~i~GP~dtpYegg~f~~~l~fP~~YP~~PPkv~F~t~i~HPNV~ 84 (153)
T COG5078 6 ALKRLLKELKKLQKD-PPPGISAGPVDDDNLFHWEATITGPPDTPYEGGIFKLTLEFPEDYPFKPPKVRFTTKIFHPNVD 84 (153)
T ss_pred HHHHHHHHHHHHhcC-CCCceEEEECCCCcceeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCeeeeccCCcCCCcC
Confidence 789999999999999 469999999887 999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcC
Q 029412 82 SQSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAK 150 (194)
Q Consensus 82 ~~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~ 150 (194)
.+|+||+++|++.|+|++++++||++|+++|.+||+++|+|.|||++|++|+++|.++||+|+++||.
T Consensus 85 -~~G~vCLdIL~~~WsP~~~l~sILlsl~slL~~PN~~~Pln~daa~~~~~d~~~y~~~vr~~~~~~~~ 152 (153)
T COG5078 85 -PSGNVCLDILKDRWSPVYTLETILLSLQSLLLSPNPDSPLNTEAATLYREDKEEYEKKVREWVKKYAE 152 (153)
T ss_pred -CCCCChhHHHhCCCCccccHHHHHHHHHHHHcCCCCCCCCChHHHHHHHhCHHHHHHHHHHHHHHhcc
Confidence 79999999999999999999999999999999999999999999999999999999999999999985
No 4
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=100.00 E-value=5.7e-51 Score=311.53 Aligned_cols=150 Identities=49% Similarity=0.901 Sum_probs=145.5
Q ss_pred CchHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccc
Q 029412 1 MIDFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNI 80 (194)
Q Consensus 1 m~~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv 80 (194)
|++.|||++|+++|+++ ++.|+.+.+.++|+++|+++|.||++|||+||.|+++|.||++||++||+|+|.|+||||||
T Consensus 1 ~~~~kRl~~E~~~l~~~-~~~~i~~~~~~~d~~~w~~~i~GP~~tpY~gg~f~~~i~~p~~YP~~pP~v~F~t~i~HPNV 79 (152)
T PTZ00390 1 MSISKRIEKETQNLAND-PPPGIKAEPDPGNYRHFKILMEGPDGTPYEGGYYKLELFLPEQYPMEPPKVRFLTKIYHPNI 79 (152)
T ss_pred CcHHHHHHHHHHHHHhC-CCCCeEEEECCCCccEEEEEEEcCCCCCCcCcEEEEEEECccccCCCCCEEEEecCCeeceE
Confidence 88999999999999998 56899999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCC
Q 029412 81 SSQSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTS 152 (194)
Q Consensus 81 ~~~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~ 152 (194)
+ .+|.||+++|+++|+|++||++||.+|+++|.+|++++|+|.+||++|++|+++|.++|++|+++||...
T Consensus 80 ~-~~G~iCl~iL~~~W~p~~ti~~iL~~i~~ll~~P~~~~pln~~aa~~~~~d~~~f~~~a~~~~~~~a~~~ 150 (152)
T PTZ00390 80 D-KLGRICLDILKDKWSPALQIRTVLLSIQALLSAPEPDDPLDTSVADHFKNNRADAEKVAREWNQKYAKHN 150 (152)
T ss_pred C-CCCeEECccCcccCCCCCcHHHHHHHHHHHHhCCCCCCchHHHHHHHHHHCHHHHHHHHHHHHHHHhccc
Confidence 9 5899999999999999999999999999999999999999999999999999999999999999999853
No 5
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=100.00 E-value=2.1e-49 Score=301.57 Aligned_cols=146 Identities=46% Similarity=0.860 Sum_probs=141.4
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccC
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~ 82 (194)
+.+||++|+++|+++ ++.|+++.+.++|+++|+++|.||++|||+||.|++.|.||++||++||+|+|.|+||||||+
T Consensus 2 a~~Rl~kE~~~l~~~-~~~~~~~~~~~~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP~~pP~v~f~t~i~HPNv~- 79 (147)
T PLN00172 2 ATKRIQKEHKDLLKD-PPSNCSAGPSDENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYPFKPPKVQFTTKIYHPNIN- 79 (147)
T ss_pred hHHHHHHHHHHHHhC-CCCCeEEEECCCChheEEEEEECCCCCCCCCCEEEEEEECCcccCCCCCEEEEecCcccceEC-
Confidence 479999999999998 568999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcC
Q 029412 83 QSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAK 150 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~ 150 (194)
.+|.||+++|.++|+|++|+++||.+|+++|.+|++++|+|.+||++|.+|+++|.++|++|+++||.
T Consensus 80 ~~G~iCl~il~~~W~p~~ti~~il~~i~~ll~~P~~~~p~n~~aa~~~~~~~~~f~~~a~~~~~~~a~ 147 (147)
T PLN00172 80 SNGSICLDILRDQWSPALTVSKVLLSISSLLTDPNPDDPLVPEIARVFKENRSRYEATAREWTQRYAT 147 (147)
T ss_pred CCCEEEcccCcCCCCCcCcHHHHHHHHHHHHhCCCCCCchHHHHHHHHHHCHHHHHHHHHHHHHHhhC
Confidence 59999999999999999999999999999999999999999999999999999999999999999983
No 6
>KOG0419 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.4e-48 Score=279.86 Aligned_cols=144 Identities=33% Similarity=0.745 Sum_probs=139.4
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccC
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~ 82 (194)
|.+||+++|+.|+++ ++.||+..|.++|++.|.++|+||.+|||+||+|++.|.|+++||.+||.|+|.+.+||||||+
T Consensus 5 ArrrLmrDfkrlqed-pp~gisa~P~~~niM~W~a~I~Gp~~tp~e~gtFkLtl~FteeYpnkPP~VrFvs~mFHPNvya 83 (152)
T KOG0419|consen 5 ARRRLMRDFKRLQED-PPAGISAAPVENNIMEWNAVIFGPQDTPFEGGTFKLTLEFTEEYPNKPPTVRFVSKMFHPNVYA 83 (152)
T ss_pred HHHHHHHHHHHhhcC-CCCCccCCCCccceeeeeeeEEcCCCCCcCCceEEEEEEcccccCCCCCeeEeeeeccCCCcCC
Confidence 789999999999999 6799999999999999999999999999999999999999999999999999999999999996
Q ss_pred CCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHH
Q 029412 83 QSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESF 148 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~ 148 (194)
+|.+|+|+|...|+|.|++.+||.+||+||.+|++++|+|.+||++|.+|+.+|.++++..+.+.
T Consensus 84 -~G~iClDiLqNrWsp~Ydva~ILtsiQslL~dPn~~sPaN~eAA~Lf~e~~rey~rrVk~~veqs 148 (152)
T KOG0419|consen 84 -DGSICLDILQNRWSPTYDVASILTSIQSLLNDPNPNSPANSEAARLFSENKREYERRVKETVEQS 148 (152)
T ss_pred -CCcchHHHHhcCCCCchhHHHHHHHHHHHhcCCCCCCcccHHHHHHHhhChHHHHHHHHHHHHHh
Confidence 79999999999999999999999999999999999999999999999999999999999876653
No 7
>KOG0425 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.5e-44 Score=264.21 Aligned_cols=144 Identities=29% Similarity=0.645 Sum_probs=135.8
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecC-CCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceeccccc
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVS-DNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNIS 81 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~-~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~ 81 (194)
+..-|+++|++|++. +..|+.+...+ .|+++|.+.|+||++|+|+||.|+..+.||.+||.+||+++|.|.+||||||
T Consensus 6 a~~ll~~qlk~L~~~-pv~gf~~glvd~~dif~WeV~i~gppdTlYeGG~FkA~m~FP~dYP~sPP~~rF~s~mwHPNvy 84 (171)
T KOG0425|consen 6 ASLLLLKQLKELQEE-PVEGFSVGLVDDSDIFEWEVAIIGPPDTLYEGGFFKAHMKFPQDYPLSPPTFRFTSKMWHPNVY 84 (171)
T ss_pred hHHHHHHHHHHHhcC-CCCccccccccCCceeEEEEEEEcCCCccccCceeEEEEeCcccCCCCCCceeeehhhcCCCcC
Confidence 346789999999999 67999999775 4999999999999999999999999999999999999999999999999999
Q ss_pred CCCccccccccc-------------CCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHH
Q 029412 82 SQSGAICLDILK-------------DQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESF 148 (194)
Q Consensus 82 ~~~G~icl~~l~-------------~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~ 148 (194)
++|++|+++|. +.|.|..|+++||++|.+||.+||.++|+|.+||+.|++|+++|.++++.++.+.
T Consensus 85 -~~G~vCISILH~pgdD~~gyE~~~erW~Pv~tvetIllSiIsmL~~PN~~SPANVDAa~~~Ren~~EykkkV~r~vr~s 163 (171)
T KOG0425|consen 85 -EDGDVCISILHPPGDDPSGYELPSERWLPVQTVETILLSIISMLNSPNDESPANVDAAKEWRENPEEYKKKVRRCVRRS 163 (171)
T ss_pred -CCCCEEEEeecCCCCCcccCCChhhccCCccchhHhHHHHHHHHcCCCCCCccchHHHHHHhhCHHHHHHHHHHHHHHH
Confidence 69999999993 4799999999999999999999999999999999999999999999999998864
No 8
>KOG0424 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.5e-43 Score=258.15 Aligned_cols=148 Identities=36% Similarity=0.707 Sum_probs=140.4
Q ss_pred CchHHHHHHHHHHHHhcCCCCCeEEEec-----CCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccce
Q 029412 1 MIDFSRVQKELQECSKDIEASGIKVTPV-----SDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKV 75 (194)
Q Consensus 1 m~~~~RL~~E~~~l~~~~~~~~i~v~~~-----~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i 75 (194)
|.++.||+.|-+.+.++ .+.|+++.|. ..|++.|++.|.|+++|+||||.|.+.|.||++||++||+++|.+++
T Consensus 3 ~~~~~rl~eErk~wrk~-hp~gf~AkP~~~~dg~~nl~~Wec~IPG~~~t~wEGg~y~l~v~F~~dyP~~PPkckF~~pl 81 (158)
T KOG0424|consen 3 GIALNRLAEERKKWRKD-HPFGFYAKPVKNADGTLNLMNWECGIPGKKGTPWEGGLYKLTVNFPDDYPSSPPKCKFKPPL 81 (158)
T ss_pred chHHHHHHHHHHHHhhc-CCCceeeeccCCCCCcceeEEEEeecCCCCCCcCcCceEEEEEeCCccCCCCCCccccCCCC
Confidence 45789999999999999 4699999875 24799999999999999999999999999999999999999999999
Q ss_pred ecccccCCCcccccccccCC--CCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcC
Q 029412 76 WHPNISSQSGAICLDILKDQ--WSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAK 150 (194)
Q Consensus 76 ~Hpnv~~~~G~icl~~l~~~--W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~ 150 (194)
||||||+ +|.|||++|.+. |+|+.||.+||..||.||.+||+.+|+|.||...|.+|+.+|+++||..+++||.
T Consensus 82 ~HPNVyp-sgtVcLsiL~e~~~W~paitikqiL~gIqdLL~~Pn~~~pAq~eA~~~~~~~r~eYekrvr~qak~~a~ 157 (158)
T KOG0424|consen 82 FHPNVYP-SGTVCLSILNEEKDWRPAITIKQILLGIQDLLDTPNITSPAQTEAYTIYCQDRAEYEKRVRAQAKEYAK 157 (158)
T ss_pred cCCCcCC-CCcEehhhhccccCCCchhhHHHHHHHHHHHhcCCCCCCchhhHHHHHHhhCHHHHHHHHHHHHHHhcc
Confidence 9999997 899999999754 9999999999999999999999999999999999999999999999999999986
No 9
>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=100.00 E-value=4.1e-43 Score=265.17 Aligned_cols=138 Identities=49% Similarity=0.939 Sum_probs=127.5
Q ss_pred HHHHHHHHHHhcCCCCCeEEEecCC-CceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccCCC
Q 029412 6 RVQKELQECSKDIEASGIKVTPVSD-NLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISSQS 84 (194)
Q Consensus 6 RL~~E~~~l~~~~~~~~i~v~~~~~-~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~~ 84 (194)
||++|+++++++ ++.|+.+.+.++ |+++|+++|.||++|||+||.|+|+|.||++||++||+|+|.|+||||||+ .+
T Consensus 1 Rl~~E~~~l~~~-~~~~~~~~~~~~~~~~~w~~~i~gp~~t~y~gg~f~~~i~~p~~YP~~pP~v~f~t~i~HPni~-~~ 78 (140)
T PF00179_consen 1 RLQKELKELQKN-PPPGISVQPSEDDNLFEWHVTIFGPPGTPYEGGIFKFRISFPPDYPFSPPKVRFLTPIFHPNID-EN 78 (140)
T ss_dssp HHHHHHHHHHHS-HTTTEEEEEESTTETTEEEEEEEBETTSTTTTSEEEEEEEETTTTTTS--EEEESSS-SBTTB--TT
T ss_pred CHHHHHHHHhhC-CCCCEEEEECCCCChheEEEEEeccCccceeccccccccccccccccccccccccccccccccc-cc
Confidence 999999999998 569999998876 999999999999999999999999999999999999999999999999999 79
Q ss_pred cccccccccC-CCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHH
Q 029412 85 GAICLDILKD-QWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWT 145 (194)
Q Consensus 85 G~icl~~l~~-~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~ 145 (194)
|.||+++|.. .|+|++++.+||.+|+++|.+|+.++|+|.+|+++|++|+++|.++||+|.
T Consensus 79 G~icl~~l~~~~W~p~~~i~~il~~i~~ll~~p~~~~~~n~~a~~~~~~~~~~f~~~~~~~~ 140 (140)
T PF00179_consen 79 GRICLDILNPESWSPSYTIESILLSIQSLLSEPNPEDPLNEEAAELYKNDREEFEKKAREWA 140 (140)
T ss_dssp SBBGHGGGTTTTC-TTSHHHHHHHHHHHHHHSTCTTSTSSHHHHHHHHHCHHHHHHHHHHH-
T ss_pred ccchhhhhhcccCCcccccccHHHHHHHHHhCCCCCCcchHHHHHHHHHCHHHHHHHHHHcC
Confidence 9999999985 599999999999999999999999999999999999999999999999984
No 10
>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=100.00 E-value=3.2e-42 Score=260.64 Aligned_cols=139 Identities=53% Similarity=1.002 Sum_probs=134.3
Q ss_pred HHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccCCC
Q 029412 5 SRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISSQS 84 (194)
Q Consensus 5 ~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~~ 84 (194)
|||++|+++++++ +..|+++.+.++|++.|+++|.||++|||+||.|+++|.||++||++||.|+|.|++|||||+ .+
T Consensus 2 ~Rl~~E~~~l~~~-~~~~~~v~~~~~~~~~w~~~i~g~~~t~y~g~~~~~~~~~p~~yP~~pP~v~f~~~i~HpnV~-~~ 79 (141)
T cd00195 2 KRLQKELKDLKKD-PPSGISAEPVEENLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPFKPPKVRFVTKIYHPNVD-EN 79 (141)
T ss_pred chHHHHHHHHHhC-CCCCeEEEECCCChhEEEEEEecCCCCCccCCEEEEEEECCCccCCCCCeEEEeCCcccCCCC-CC
Confidence 7999999999999 458999999999999999999999999999999999999999999999999999999999999 69
Q ss_pred cccccccccCC-CCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHH
Q 029412 85 GAICLDILKDQ-WSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWT 145 (194)
Q Consensus 85 G~icl~~l~~~-W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~ 145 (194)
|.||++++... |+|++++.+||.+|+++|.+|+.++|+|.+||++|++|++.|.++|+.|+
T Consensus 80 G~icl~~l~~~~W~p~~~l~~il~~i~~~l~~p~~~~~~n~~aa~~~~~~~~~f~~~~~~~~ 141 (141)
T cd00195 80 GKICLSILKTHGWSPAYTLRTVLLSLQSLLNEPNPSDPLNAEAAKLYKENREEFKKKAREWT 141 (141)
T ss_pred CCCchhhcCCCCcCCcCcHHHHHHHHHHHHhCCCCCCchhHHHHHHHHHCHHHHHHHHHHhC
Confidence 99999999876 99999999999999999999999999999999999999999999999874
No 11
>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=100.00 E-value=2.4e-41 Score=257.02 Aligned_cols=143 Identities=55% Similarity=0.989 Sum_probs=137.1
Q ss_pred HHHHHHHHHHHhcCCCCCeEEEecCC-CceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccCC
Q 029412 5 SRVQKELQECSKDIEASGIKVTPVSD-NLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISSQ 83 (194)
Q Consensus 5 ~RL~~E~~~l~~~~~~~~i~v~~~~~-~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~ 83 (194)
+||++|+++++++. +.|+.+.+.++ |++.|+++|.||++|||+||.|++.|.||++||++||+|+|.+++|||||+.
T Consensus 1 ~Rl~~E~~~~~~~~-~~~~~v~~~~~~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~~pP~v~f~~~i~Hp~i~~- 78 (145)
T smart00212 1 KRLLKELKELLKDP-PPGISAYPVDEDNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPFKPPKVKFITKIYHPNVDS- 78 (145)
T ss_pred ChHHHHHHHHHhCC-CCCeEEEECCCCChheEEEEEEcCCCCCcCCcEEEEEEECCcccCCCCCEEEEeCCceEeeECC-
Confidence 59999999999994 58999988765 9999999999999999999999999999999999999999999999999995
Q ss_pred Cccccccccc-CCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHc
Q 029412 84 SGAICLDILK-DQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFA 149 (194)
Q Consensus 84 ~G~icl~~l~-~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a 149 (194)
+|.||++++. ++|+|++++.+||.+|+++|.+|+.++|+|.+|+++|++|++.|.++|+.|+++|+
T Consensus 79 ~G~icl~~l~~~~W~p~~~l~~il~~i~~~l~~p~~~~~~n~eaa~~~~~~~~~f~~~~~~~~~k~~ 145 (145)
T smart00212 79 SGEICLDILKQEKWSPATTLETVLLSIQSLLSEPNPDSPLNADAATLYKKNREEFKKKAREWTKKYA 145 (145)
T ss_pred CCCEehhhcCCCCCCCCCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHCHHHHHHHHHHHHHHhC
Confidence 9999999998 89999999999999999999999999999999999999999999999999999874
No 12
>KOG0426 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.2e-41 Score=244.61 Aligned_cols=145 Identities=30% Similarity=0.636 Sum_probs=137.5
Q ss_pred chHHHHHHHHHHHHhcCCCCCeEEEec-CCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccc
Q 029412 2 IDFSRVQKELQECSKDIEASGIKVTPV-SDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNI 80 (194)
Q Consensus 2 ~~~~RL~~E~~~l~~~~~~~~i~v~~~-~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv 80 (194)
+|+|||++||++|..+ ++.||.+.|. ++|+++|.+.|.||++|+|+||+|..++.||.+||.+||+++|...+|||||
T Consensus 4 ~AlkRLm~EykqLt~~-~P~GIvAgP~~EdnfF~W~cLI~GP~~T~f~~GvfpA~l~FP~DYPLsPPkm~Ftc~~fHPNi 82 (165)
T KOG0426|consen 4 TALKRLMAEYKQLTLN-PPEGIVAGPINEDNFFEWECLIQGPEDTCFEGGVFPARLSFPLDYPLSPPKMRFTCEMFHPNI 82 (165)
T ss_pred hHHHHHHHHHHHHccC-CCCcceeCCCCccceeeeeeeeeCCCCCcccCCccceeeecCCCCCCCCCceeeecccccCcc
Confidence 4899999999999999 5699998886 6789999999999999999999999999999999999999999999999999
Q ss_pred cCCCccccccccc-------------CCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHH
Q 029412 81 SSQSGAICLDILK-------------DQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTES 147 (194)
Q Consensus 81 ~~~~G~icl~~l~-------------~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~ 147 (194)
++ +|+||+++|. +.|+|..+++.||+++.+||.+||.++++|.+|+.++++|+++|.+.|+..+.+
T Consensus 83 y~-dG~VCISILHaPGDDP~~YEls~ERWSPVQSvEKILLSV~SMLaEPNdESgANvdA~~mWRe~R~ef~~i~~~lvrK 161 (165)
T KOG0426|consen 83 YP-DGRVCISILHAPGDDPMGYELSAERWSPVQSVEKILLSVVSMLAEPNDESGANVDACKMWREDREEFEKIAKRLVRK 161 (165)
T ss_pred cC-CCeEEEEEeeCCCCCCccchhhhhcCChHHHHHHHHHHHHHHHcCCCcccCcccHHHHHHHHhHHHHHHHHHHHHHH
Confidence 95 9999999983 579999999999999999999999999999999999999999999999998876
Q ss_pred H
Q 029412 148 F 148 (194)
Q Consensus 148 ~ 148 (194)
.
T Consensus 162 t 162 (165)
T KOG0426|consen 162 T 162 (165)
T ss_pred h
Confidence 4
No 13
>KOG0421 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.2e-41 Score=247.85 Aligned_cols=142 Identities=38% Similarity=0.705 Sum_probs=134.9
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccC
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~ 82 (194)
..|||++|+..|+-. ..+||++.|.++|++.|.++|.||++|+|+|-.|++.+.||.+||+.||.|+|+|+.||||||
T Consensus 30 V~KRLq~ELm~Lmms-~~~gISAFP~~dnlf~WvGtItGp~dTvyegl~yklSl~Fp~~YPy~pP~vkFltpc~HPNVD- 107 (175)
T KOG0421|consen 30 VTKRLQSELMGLMMS-NTPGISAFPESDNLFKWVGTITGPKDTVYEGLKYKLSLSFPNNYPYKPPTVKFLTPCFHPNVD- 107 (175)
T ss_pred HHHHHHHHHHHHHhc-CCCCcccCcCcCceeEEeeEeeCCCCccccCcEEEEEEecCCCCCCCCCeeEeeccccCCCcc-
Confidence 469999999999988 458999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHH
Q 029412 83 QSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTES 147 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~ 147 (194)
..|.||+|+|++.|+..|++++||++||+||-+||.++|+|..||.++. |.++|.+.+...-++
T Consensus 108 ~~GnIcLDILkdKWSa~YdVrTILLSiQSLLGEPNn~SPLNaqAAelW~-d~~eykk~l~~~Y~~ 171 (175)
T KOG0421|consen 108 LSGNICLDILKDKWSAVYDVRTILLSIQSLLGEPNNSSPLNAQAAELWS-DQEEYKKYLEALYKE 171 (175)
T ss_pred ccccchHHHHHHHHHHHHhHHHHHHHHHHHhCCCCCCCcchhHHHHHhc-CHHHHHHHHHHHhhc
Confidence 5899999999999999999999999999999999999999999999998 999999988865443
No 14
>KOG0422 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.7e-40 Score=241.06 Aligned_cols=150 Identities=34% Similarity=0.710 Sum_probs=139.0
Q ss_pred CchHHHHHHHHHHHHhcCCCCCe-EEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceeccc
Q 029412 1 MIDFSRVQKELQECSKDIEASGI-KVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPN 79 (194)
Q Consensus 1 m~~~~RL~~E~~~l~~~~~~~~i-~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpn 79 (194)
|++.+||++|+.+|+++.. ..+ .+...++|++.|.+.|. |.+-||..|.|+++|.||.+|||+||+|.|.|.|||||
T Consensus 1 m~a~~Rl~kEL~dl~~~~~-~~~rn~~~~e~nll~wt~lli-pd~ppY~kgaF~l~I~fp~eYPFKPP~i~f~tkiYHpN 78 (153)
T KOG0422|consen 1 MAAPRRLRKELADLQKNKM-KFFRNIEVDEANLLKWTGLLI-PDKPPYNKGAFRLEIDFPVEYPFKPPKIKFKTKIYHPN 78 (153)
T ss_pred CchhHHHHHHHHHHHhccH-HHHhhhhcccccceeEEeEec-CCCCCccCcceEEEeeCCCCCCCCCCeeeeeeeeccCC
Confidence 8899999999999999853 333 23456789999999999 99999999999999999999999999999999999999
Q ss_pred ccCCCccccccccc-CCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCCC
Q 029412 80 ISSQSGAICLDILK-DQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTSS 153 (194)
Q Consensus 80 v~~~~G~icl~~l~-~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~~ 153 (194)
|| +.|.||+.++. ++|.|+.++.+||+.|..++.+|+++.|++.|+|..|.+|+..|.++|.+||++|+....
T Consensus 79 VD-e~gqvClPiis~EnWkP~T~teqVlqaLi~liN~P~pe~plr~dlA~ey~~d~~kF~K~Aee~tkK~~e~rp 152 (153)
T KOG0422|consen 79 VD-EKGQVCLPIISAENWKPATRTEQVLQALIALINDPEPEHPLRIDLAEEYIKDPKKFVKNAEEFTKKYSEKRP 152 (153)
T ss_pred CC-CCCceeeeeeecccccCcccHHHHHHHHHHHhcCCCccccchhhHHHHHHHCHHHHHHhHHHHHHHhcCcCC
Confidence 99 57999999985 899999999999999999999999999999999999999999999999999999997653
No 15
>KOG0416 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.5e-37 Score=233.75 Aligned_cols=147 Identities=31% Similarity=0.680 Sum_probs=138.5
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccC
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~ 82 (194)
..|||..|...|... +..|...++++.+++|.+.||.+|||+||+++++|.+|++||++.|.|.|.++||||||+-
T Consensus 4 ~~rRid~Dv~KL~~s----~yeV~~ind~m~ef~V~f~GP~ds~YegGvWkv~V~lPd~YP~KSPSIGFvnKIfHPNIDe 79 (189)
T KOG0416|consen 4 GKRRIDTDVMKLLMS----DYEVTIINDGMQEFYVKFHGPKDSPYEGGVWKVRVELPDNYPFKSPSIGFVNKIFHPNIDE 79 (189)
T ss_pred cccchhhHHHHHHhc----CCeEEEecCcccEEEEEeeCCCCCcccCceEEEEEECCCCCCCCCCcccceeeccCCCchh
Confidence 468999999888866 5778888899999999999999999999999999999999999999999999999999998
Q ss_pred CCcccccccccCCCCcccCHHHHHHHH-HHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCCC
Q 029412 83 QSGAICLDILKDQWSPALTLKTALLSV-QALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTSS 153 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~~i~~il~~i-~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~~ 153 (194)
.+|.|||+.+...|+|.+.+..|+..+ -.||..||+.+|+|-+||.+|.++++.|.+++|+++++||++..
T Consensus 80 ~SGsVCLDViNQtWSp~yDL~NIfetfLPQLL~YPNp~DPLN~eAAal~l~~~~~Y~~~v~eY~~kYA~~~~ 151 (189)
T KOG0416|consen 80 ASGSVCLDVINQTWSPLYDLVNIFETFLPQLLRYPNPSDPLNGEAAALYLRDPEEYEEKVKEYIKKYATPEA 151 (189)
T ss_pred ccCccHHHHHhhhhhHHHHHHHHHHHHhHHHhcCCCCCCCcccHHHHHHhcCHHHHHHHHHHHHHHhcChhh
Confidence 899999999999999999999999776 67899999999999999999999999999999999999999874
No 16
>KOG0420 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.8e-36 Score=227.36 Aligned_cols=147 Identities=30% Similarity=0.595 Sum_probs=126.5
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCce--EEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccc
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLV--HLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNI 80 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~--~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv 80 (194)
+.-||++|+.++..- +...+++.-..+++. ..+++|. |+++.|+||.|.|.+.+|+.||+.||+|+|+|+||||||
T Consensus 29 a~lrl~~di~elnLp-~t~~~s~~~~~~d~~~~~~elti~-PdEGyY~gGkf~F~~~v~~~Yp~~PPKVkCltkV~HPNI 106 (184)
T KOG0420|consen 29 ALLRLKKDILELNLP-PTCSLSFPDSPDDLNNLEFELTIT-PDEGYYQGGKFRFKFKVPNAYPHEPPKVKCLTKVYHPNI 106 (184)
T ss_pred HHHHHHhhhhhccCC-CccccccccCCcccccceEEEEEc-cCcceecCceEEEEEECCCCCCCCCCeeeeeeccccCCc
Confidence 456777777776654 222233322234444 5999998 999999999999999999999999999999999999999
Q ss_pred cCCCcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCC
Q 029412 81 SSQSGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTS 152 (194)
Q Consensus 81 ~~~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~ 152 (194)
| .+|.|||++|+++|+|..++.+|+.+|+.||.+|+++||+|.+||+.+++|++.|..+||.....|+-+.
T Consensus 107 d-~~GnVCLnILRedW~P~lnL~sIi~GL~~LF~epn~eDpLN~eAA~~l~~n~e~F~~~Vr~~m~gg~v~~ 177 (184)
T KOG0420|consen 107 D-LDGNVCLNILREDWRPVLNLNSIIYGLQFLFLEPNPEDPLNKEAAAVLKSNREGFENNVRRAMSGGCVGQ 177 (184)
T ss_pred C-CcchHHHHHHHhcCccccchHHHHHHHHHHhccCCCcccccHHHHHHHHhCHHHHHHHHHHHHhcCccCc
Confidence 9 6999999999999999999999999999999999999999999999999999999999998777666543
No 17
>KOG0423 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.7e-36 Score=225.28 Aligned_cols=146 Identities=34% Similarity=0.724 Sum_probs=142.3
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccCC
Q 029412 4 FSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISSQ 83 (194)
Q Consensus 4 ~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~ 83 (194)
++.+.+|++.|... |+.||+|.+.++|+....+.|.||.||||++|.|++.+.+..+||.+||+-.|+|+||||||- .
T Consensus 12 ik~~~kEl~~l~~~-PPdGIKV~~NeeD~tdiqa~IeGP~GTPYa~GlFRmKL~L~kDFP~sPPKgYFlTKIFHPNVa-a 89 (223)
T KOG0423|consen 12 IKQLAKELKSLDES-PPDGIKVVVNEEDFTDIQADIEGPVGTPYANGLFRMKLALSKDFPHSPPKGYFLTKIFHPNVA-A 89 (223)
T ss_pred HHHHHHHHHhcccC-CCCceEEecChHHhHHHHhhccCCCCCccccceeeehhhhcCCCCCCCCcceeeeeeccCCcc-c
Confidence 68899999999999 679999999999999999999999999999999999999999999999999999999999997 5
Q ss_pred CcccccccccCCCCcccCHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCC
Q 029412 84 SGAICLDILKDQWSPALTLKTALLSVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKT 151 (194)
Q Consensus 84 ~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~ 151 (194)
+|.||.+.|+.+|+|+..|..||..|+.||..|++++.+|.+|++++.++.++|.+.||-+|.-||++
T Consensus 90 NGEICVNtLKkDW~p~LGirHvLltikCLLI~PnPESALNEeAGkmLLEnYdeYa~rARl~TeIHa~p 157 (223)
T KOG0423|consen 90 NGEICVNTLKKDWNPSLGIRHVLLTIKCLLIEPNPESALNEEAGKMLLENYDEYARRARLYTEIHAKP 157 (223)
T ss_pred CceehhhhhhcccCcccchhhHhhhhheeeecCChHHHHhHHHHHHHHHhHHHHHHHHHHHHHhhcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999987
No 18
>KOG0427 consensus Ubiquitin conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=4.8e-30 Score=185.52 Aligned_cols=111 Identities=40% Similarity=0.733 Sum_probs=105.0
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccce-eccccc
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKV-WHPNIS 81 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i-~Hpnv~ 81 (194)
+.+||+|||.+++.+ ++.|+... ..+|+..|.+.+.|.+||.|+|.+|.+.+.||+.||+..|.|.|..++ .||+|+
T Consensus 16 at~RLqKEl~e~q~~-pP~G~~~~-v~dnlqqWii~v~Ga~GTLYa~e~~qLq~~F~~~YP~esPqVmF~~~~P~HPHiY 93 (161)
T KOG0427|consen 16 ATNRLQKELSEWQNN-PPTGFKHR-VTDNLQQWIIEVTGAPGTLYANETYQLQVEFPEHYPMESPQVMFVGPAPLHPHIY 93 (161)
T ss_pred HHHHHHHHHHHHhcC-CCCcceee-cccchheeEEEEecCCceeecCcEEEEEEecCCCCCCCCCeEEEecCCCCCCcee
Confidence 679999999999999 67999887 678999999999999999999999999999999999999999999775 899999
Q ss_pred CCCcccccccccCCCCcccCHHHHHHHHHHhhCCC
Q 029412 82 SQSGAICLDILKDQWSPALTLKTALLSVQALLSAP 116 (194)
Q Consensus 82 ~~~G~icl~~l~~~W~p~~~i~~il~~i~~ll~~p 116 (194)
.+|.|||++|.+.|+|++++.+|.++|.+||++-
T Consensus 94 -SNGHICL~iL~d~WsPAmsv~SvClSIlSMLSSs 127 (161)
T KOG0427|consen 94 -SNGHICLDILYDSWSPAMSVQSVCLSILSMLSSS 127 (161)
T ss_pred -cCCeEEEEeecccCCcchhhHHHHHHHHHHHccC
Confidence 5999999999999999999999999999999974
No 19
>KOG0894 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=4.1e-28 Score=189.14 Aligned_cols=111 Identities=29% Similarity=0.628 Sum_probs=100.9
Q ss_pred chHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccc--eeccc
Q 029412 2 IDFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTK--VWHPN 79 (194)
Q Consensus 2 ~~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~--i~Hpn 79 (194)
++.|||+|||+.|.++ |.++|.+.|.++|+.+||.+|.||++|||+||.|+.+|.||++||++||.|++.|| +|.+
T Consensus 5 ~a~kRl~keY~~l~k~-Pv~~i~A~P~p~nILEWHYvl~GpedTPy~GG~YhGkl~FP~eyP~KPPaI~MiTPNGRFkt- 82 (244)
T KOG0894|consen 5 AAVKRLQKEYRALCKD-PVPYIVARPNPNNILEWHYVLRGPEDTPYYGGYYHGKLIFPPEYPFKPPAITMITPNGRFKT- 82 (244)
T ss_pred HHHHHHHHHHHHHHhC-CchhhccCCCccceeeeEEEeeCCCCCCccCceeeeEEeCCCCCCCCCCeeEEECCCCceec-
Confidence 4789999999999999 67999999999999999999999999999999999999999999999999999995 3333
Q ss_pred ccCCCcccccccc---cCCCCcccCHHHHHHHHHHhhCCCCC
Q 029412 80 ISSQSGAICLDIL---KDQWSPALTLKTALLSVQALLSAPAP 118 (194)
Q Consensus 80 v~~~~G~icl~~l---~~~W~p~~~i~~il~~i~~ll~~p~~ 118 (194)
+-++||++. ++.|+|++++.+||.+|.++|.+..+
T Consensus 83 ----ntRLCLSiSDfHPdsWNP~WsVStILtGLlSFM~e~~p 120 (244)
T KOG0894|consen 83 ----NTRLCLSISDFHPDSWNPGWSVSTILTGLLSFMTEDSP 120 (244)
T ss_pred ----CceEEEeccccCcCcCCCcccHHHHHHHHHHHHhcCCC
Confidence 357999887 58999999999999999999987544
No 20
>KOG0429 consensus Ubiquitin-conjugating enzyme-related protein Ft1, involved in programmed cell death [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=8.9e-25 Score=171.03 Aligned_cols=143 Identities=23% Similarity=0.360 Sum_probs=129.8
Q ss_pred HHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCC--CCCCcccccceecccccC
Q 029412 5 SRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPF--EPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 5 ~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~--~pP~v~f~t~i~Hpnv~~ 82 (194)
-.|..||..+.+. +.+||+|.|+-.|-+.|.++|+ ...+.|.||+|+|+|.+|++||. ..|+|.|.+.++||+|.+
T Consensus 22 y~llAEf~lV~~e-kL~gIyviPSyan~l~WFGViF-vr~GiyaggVFRFtIliPdnfPdd~dlPrvvF~q~vfHP~icp 99 (258)
T KOG0429|consen 22 YALLAEFVLVCRE-KLDGIYVIPSYANKLLWFGVIF-VRKGIYAGGVFRFTILIPDNFPDDSDLPRVVFEQSVFHPLICP 99 (258)
T ss_pred HHHHHHHHHHHhc-cCCceEEcccccccceEEEEEE-EecccccCceEEEEEEcCccCCCcCCCCeEEeeccccccccCC
Confidence 4577888888888 6899999999999999999999 55668999999999999999995 689999999999999999
Q ss_pred CCcccccccccCCCCccc-CHHHHHHHHHHhhCCCCCCCc-h-hHHHHHHHHHCHHHHHHHHHHHHHHHc
Q 029412 83 QSGAICLDILKDQWSPAL-TLKTALLSVQALLSAPAPDDP-Q-DAVVAQQYLKDHQTFLSTARYWTESFA 149 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~-~i~~il~~i~~ll~~p~~~~p-~-n~~a~~~~~~~~~~f~~~a~~~~~~~a 149 (194)
.++.+|++.....|+..- +|.+||..+|.+|.+|+.+.+ + |++|+.+|.+++++|.++|+++++..-
T Consensus 100 ~skeLdl~raf~eWRk~ehhiwqvL~ylqriF~dpd~si~kl~N~eAa~l~~k~r~ef~~rvqe~vk~sr 169 (258)
T KOG0429|consen 100 KSKELDLNRAFPEWRKEEHHIWQVLVYLQRIFYDPDVSIDKLINPEAAVLYKKHRDEFRERVQECVKASR 169 (258)
T ss_pred CccceeHhhhhhhhhccccHHHHHHHHHHHHhcCcccchhhhcChHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 999999998777798776 799999999999999998876 4 999999999999999999999988543
No 21
>KOG0428 consensus Non-canonical ubiquitin conjugating enzyme 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.86 E-value=7e-22 Score=157.08 Aligned_cols=131 Identities=30% Similarity=0.578 Sum_probs=107.3
Q ss_pred chHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceeccccc
Q 029412 2 IDFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNIS 81 (194)
Q Consensus 2 ~~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~ 81 (194)
.+.|||++|.++|+ + |...+...|.++|+++|+++|.||.+|-|+||+|+.+|.||.+||++||.+..+| ||-.
T Consensus 11 paVkRlmkEa~El~-~-Ptd~yha~plEdNlFEWhFtiRGp~dtdFeGGiYHGRI~lPadYPmKPPs~iLLT----pNGR 84 (314)
T KOG0428|consen 11 PAVKRLMKEAAELK-D-PTDHYHAQPLEDNLFEWHFTIRGPPDTDFEGGIYHGRIVLPADYPMKPPSIILLT----PNGR 84 (314)
T ss_pred HHHHHHHHHHHHhc-C-chhhhhhccchhceeeEEEEeeCCCCCCccCceeeeeEecCCCCCCCCCeEEEEc----CCCc
Confidence 37899999999999 4 4466777889999999999999999999999999999999999999999999998 5532
Q ss_pred CC-Ccccccccc---cCCCCcccCHHHHHHHHHHhhCC-CCC-----CCchhHHHHHHHHHCHHHHHHHHHHHHHH
Q 029412 82 SQ-SGAICLDIL---KDQWSPALTLKTALLSVQALLSA-PAP-----DDPQDAVVAQQYLKDHQTFLSTARYWTES 147 (194)
Q Consensus 82 ~~-~G~icl~~l---~~~W~p~~~i~~il~~i~~ll~~-p~~-----~~p~n~~a~~~~~~~~~~f~~~a~~~~~~ 147 (194)
.+ +-+|||++. ++.|.|+++|++.|+.|..+|-. |+- +-|. +.|....++.++|..+
T Consensus 85 FE~nkKiCLSISgyHPEtWqPSWSiRTALlAlIgFmPt~p~GAlGSlDYpp---------~ERr~LAkkS~e~~ck 151 (314)
T KOG0428|consen 85 FEVNKKICLSISGYHPETWQPSWSIRTALLALIGFMPTKPEGALGSLDYPP---------EERRALAKKSQEFCCK 151 (314)
T ss_pred eeeCceEEEEecCCCccccCcchhHHHHHHHHHccccCCCCCccccCcCCH---------HHHHHHHHhhcccCcc
Confidence 22 567999987 48999999999999999998864 432 2221 3455666777777665
No 22
>KOG0895 consensus Ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=1.4e-17 Score=154.55 Aligned_cols=109 Identities=33% Similarity=0.680 Sum_probs=97.5
Q ss_pred HHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccc--eecccccC
Q 029412 5 SRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTK--VWHPNISS 82 (194)
Q Consensus 5 ~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~--i~Hpnv~~ 82 (194)
+..+.|++-|..+. +.||.|...++.+...++.|.|+++|||+.|.|.|++.||++||.+||.|...+. +++||.|
T Consensus 854 ~~~~~~~~~~~~~~-~~~~~vr~~e~r~d~~~~~~~g~~~tpy~~~~f~fd~~~~~~yp~~pp~~~~~s~~~r~npnly- 931 (1101)
T KOG0895|consen 854 KKVQTEWKILPLSL-PSGIFVRAYEDRMDLLRAVIVGAAGTPYQDGLFFFDFQFPQDYPSSPPLVHYHSGGVRLNPNLY- 931 (1101)
T ss_pred HHHHHHHHhhhccC-CCceEEEechHHHHHHHHHhhCCCCCccccceEEEEeecCCCCCCCCCceEeecCceeeCcccc-
Confidence 44566777777774 5899999999999999999999999999999999999999999999999999765 7899999
Q ss_pred CCccccccccc-------CCCCcccCHHHHHHHHHHhhCC
Q 029412 83 QSGAICLDILK-------DQWSPALTLKTALLSVQALLSA 115 (194)
Q Consensus 83 ~~G~icl~~l~-------~~W~p~~~i~~il~~i~~ll~~ 115 (194)
++|+||+++|. +.|+|+-+|.+||.+||.|+.+
T Consensus 932 ~~g~vc~s~l~tw~g~~~e~w~~~s~~lq~l~s~q~l~l~ 971 (1101)
T KOG0895|consen 932 EDGKVCLSLLNTWHGRGNEVWNPSSSILQVLVSIQGLVLN 971 (1101)
T ss_pred cccceehhhhccccCCCccccCcchhHHHHHHHhhhhhcc
Confidence 69999999994 5799999999999999998765
No 23
>KOG0895 consensus Ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=99.59 E-value=3.6e-15 Score=138.82 Aligned_cols=112 Identities=38% Similarity=0.695 Sum_probs=103.3
Q ss_pred hHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccc---eeccc
Q 029412 3 DFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTK---VWHPN 79 (194)
Q Consensus 3 ~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~---i~Hpn 79 (194)
..+|+++|++-+.++. +.|+.+.+.+..+...++.|.|+.+|||++|.|.|+|.||..||..||.+.++|. .+.||
T Consensus 283 ~skrv~ke~~llskdl-pEgifvrp~e~RMd~I~alIig~~gtPy~~glf~Fdiq~P~~yPa~pp~v~~lt~~~~R~nPN 361 (1101)
T KOG0895|consen 283 WSKKVAKELKLLSKDL-PEGIFVRPDEGRMDLIKALIIGPDGTPYADGLFLFDIQFPDTYPAVPPHVKYLTGGGVRLNPN 361 (1101)
T ss_pred hHHHHHHHhhhhcccC-CCCccccccccccceeeeEEecCCCCCCcCCceeeEeecCCCCCCCCceeEEeeccceeecCC
Confidence 4689999999999994 6899999999999999999999999999999999999999999999999999876 78999
Q ss_pred ccCCCccccccccc-------CCCCcc-cCHHHHHHHHHHhhCCC
Q 029412 80 ISSQSGAICLDILK-------DQWSPA-LTLKTALLSVQALLSAP 116 (194)
Q Consensus 80 v~~~~G~icl~~l~-------~~W~p~-~~i~~il~~i~~ll~~p 116 (194)
.| .+|+||+++|. +.|+|. -++.++|.+||.++.+-
T Consensus 362 lY-n~GKVcLslLgTwtg~~~e~wtp~~~sl~qvL~sIQ~Li~~e 405 (1101)
T KOG0895|consen 362 LY-NDGKVCLSLLGTWTGSRREKWTPNGSSLLQVLESIQGLILNE 405 (1101)
T ss_pred cc-cCceEEeeeeeecccccccCCCccccchhhhhhhhhhhhccc
Confidence 99 48999999983 679999 78999999999998764
No 24
>KOG0896 consensus Ubiquitin-conjugating enzyme E2 [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=5.5e-15 Score=107.92 Aligned_cols=114 Identities=26% Similarity=0.380 Sum_probs=94.6
Q ss_pred chHHHHHHHHHHHHhcCCCCCeEEEecC-CC--ceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecc
Q 029412 2 IDFSRVQKELQECSKDIEASGIKVTPVS-DN--LVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHP 78 (194)
Q Consensus 2 ~~~~RL~~E~~~l~~~~~~~~i~v~~~~-~~--~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hp 78 (194)
.+.-||..|+..-++...+..+++...+ +| +..|.++|.||+.|+||+-+|.++|.+-++||..||+|+|.+++--+
T Consensus 5 Prnfrlleele~g~kg~g~~~~s~gl~d~~dmtl~rWtg~IiGPprT~yEnRiysLKI~Cgp~YPe~PP~vrf~tkinm~ 84 (138)
T KOG0896|consen 5 PRNFRLLEELEEGEKGIGDGTVSWGLEDDDDMTLTRWTGTIIGPPRTMYENRIYSLKIECGPKYPELPPTVRFGTKINMN 84 (138)
T ss_pred ccchhhhhhhccccccccCceeeccccCCCcceEeeeccceeCCCCcccccceeeEEEecCCCCCCCCceeEEEEEeeec
Confidence 3566888888888776544445665543 34 56899999999999999999999999999999999999999999888
Q ss_pred cccCCCccccccccc--CCCCcccCHHHHHHHHHHhhCC
Q 029412 79 NISSQSGAICLDILK--DQWSPALTLKTALLSVQALLSA 115 (194)
Q Consensus 79 nv~~~~G~icl~~l~--~~W~p~~~i~~il~~i~~ll~~ 115 (194)
.|.+.+|.|.-..+. .+|+-.+++..+|..++.+|..
T Consensus 85 gvn~~~g~Vd~~~i~~L~~W~~~y~~~~vl~~lr~~m~~ 123 (138)
T KOG0896|consen 85 GVNSSNGVVDPRDITVLARWQRSYSIKMVLGQLRKEMMS 123 (138)
T ss_pred ccccCCCccCccccchhhcccccchhhHHHHhhhHHHHH
Confidence 898888888754432 7999999999999999876554
No 25
>KOG0897 consensus Predicted ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=2.3e-08 Score=71.29 Aligned_cols=92 Identities=24% Similarity=0.426 Sum_probs=65.6
Q ss_pred EEEEeeCCCCCCCCCCCcccccceecccccCCCccccccccc-CCCCcccCHHHHHHHHHHhhCCCC--CCCchhHHHHH
Q 029412 52 FRLDITLPDGYPFEPPKMHFVTKVWHPNISSQSGAICLDILK-DQWSPALTLKTALLSVQALLSAPA--PDDPQDAVVAQ 128 (194)
Q Consensus 52 f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~~G~icl~~l~-~~W~p~~~i~~il~~i~~ll~~p~--~~~p~n~~a~~ 128 (194)
.-+.+.|+++||+.||.++...|+..-.-.-++|.||+.+|. .+|+.+++|+.++++|..++..-. ...+++.+--
T Consensus 13 ill~~~f~~~fp~~ppf~rvv~p~~~~Gyvl~ggAIcmellt~qgwssay~Ve~vi~qiaatlVkG~~ri~~~a~k~sk- 91 (122)
T KOG0897|consen 13 ILLLDIFDDNFPFMPPFPRVVKPLEDEGYVLEGGAICMELLTKQGWSSAYEVERVIMQIAATLVKGGARIEFPAEKSSK- 91 (122)
T ss_pred eEeeeecccCCCCCCCcceeeeecccCCEEecchhhHHHHHccccccchhhHHHHHHHHHHHhhccceeEecCcchhhh-
Confidence 446788999999999999988765444322368999999994 899999999999999999888754 3444443322
Q ss_pred HHH--HCHHHHHHHHHHH
Q 029412 129 QYL--KDHQTFLSTARYW 144 (194)
Q Consensus 129 ~~~--~~~~~f~~~a~~~ 144 (194)
+|. .--+.|+..++..
T Consensus 92 ~~s~~qa~~sfksLv~~h 109 (122)
T KOG0897|consen 92 LYSHSQAQQSFKSLVQIH 109 (122)
T ss_pred HhhHHHHHHHHHHHHHHH
Confidence 442 2344555555543
No 26
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=98.62 E-value=6.8e-08 Score=72.27 Aligned_cols=67 Identities=30% Similarity=0.710 Sum_probs=60.6
Q ss_pred CCCeEEEEeeCCCCCCCCCCCcccccce---ecccccCCCccccc---ccccCCCCcccCHHHHHHHHHHhhCC
Q 029412 48 EGGTFRLDITLPDGYPFEPPKMHFVTKV---WHPNISSQSGAICL---DILKDQWSPALTLKTALLSVQALLSA 115 (194)
Q Consensus 48 ~gg~f~~~i~fp~~YP~~pP~v~f~t~i---~Hpnv~~~~G~icl---~~l~~~W~p~~~i~~il~~i~~ll~~ 115 (194)
.|+.+.+.|.||+.||..||.|....+. +-|||+. +|.+|+ +...+.|.|.-.+.++|..++.+|.+
T Consensus 34 ~~~~~~l~l~~p~~FP~~pp~v~l~d~~~~~~~pHv~~-~G~LCl~~~~~~~D~~~P~~~~~~~l~~a~~lL~~ 106 (133)
T PF14461_consen 34 GGGPFPLRLVFPDDFPYLPPRVYLEDPKQFPLLPHVES-DGKLCLLDEELVLDPWDPEGIIADCLERAIRLLED 106 (133)
T ss_pred CCeEEEEEEEECCcccCcCCEEEecCccccCccCeEcC-CCeEEEecCCcccCccCHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999988554 6899995 999999 77789999999999999999999884
No 27
>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=98.26 E-value=2.3e-06 Score=49.72 Aligned_cols=36 Identities=44% Similarity=0.639 Sum_probs=33.0
Q ss_pred hHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHh
Q 029412 156 VEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKL 191 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l 191 (194)
+++.+++|++|||++..|+.||...+++.+.|++.|
T Consensus 2 ~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 478899999999999999999999999999999876
No 28
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.25 E-value=2.5e-06 Score=49.43 Aligned_cols=36 Identities=39% Similarity=0.606 Sum_probs=33.9
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhh
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLL 192 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~ 192 (194)
++.++.|++|||+++.|+.||+..+||.+.|++.|+
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 578999999999999999999999999999999875
No 29
>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=98.20 E-value=3.9e-06 Score=48.88 Aligned_cols=37 Identities=38% Similarity=0.607 Sum_probs=34.7
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhhc
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLLS 193 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~~ 193 (194)
++.+++|.+|||+++.|+.||...+||.+.|++.|++
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 5789999999999999999999999999999999874
No 30
>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=98.08 E-value=1.3e-05 Score=59.08 Aligned_cols=79 Identities=32% Similarity=0.592 Sum_probs=54.1
Q ss_pred CceEEEEEEeCCCCCCCCCCeEE--EEeeCCCCCCCCCCCcccccce-----ecccccCCCcccccccccCCCCc-ccCH
Q 029412 31 NLVHLTGIIPGPVGTPYEGGTFR--LDITLPDGYPFEPPKMHFVTKV-----WHPNISSQSGAICLDILKDQWSP-ALTL 102 (194)
Q Consensus 31 ~~~~w~~~i~Gp~~tpy~gg~f~--~~i~fp~~YP~~pP~v~f~t~i-----~Hpnv~~~~G~icl~~l~~~W~p-~~~i 102 (194)
.+....++|.- .|.|..|. +.|-+|.+||..||.+...... -+.+||. +|+|.+..| ++|++ ..++
T Consensus 31 ~LL~L~Gtipi----~y~g~~y~iPi~Iwlp~~yP~~pP~v~v~pt~~m~I~~~~~Vd~-~G~v~~pyL-~~W~~~~s~L 104 (121)
T PF05743_consen 31 LLLCLYGTIPI----TYKGSTYNIPICIWLPENYPYSPPIVYVRPTPSMVIKPSHHVDS-NGRVYLPYL-QNWNPPSSNL 104 (121)
T ss_dssp EEEEEEEEEEE----CCTTCCEEEEEEEEE-TTTTTSSSEEEE-GCCTECCGGCCCB-T-TSBB-SHHH-HT--TTTS-H
T ss_pred eEEEEecCccc----ccCCcccceeEEEEEcccCCCCCCEEEEeCCCCCCcCCCCeECC-CCCEeCchh-ccCCCCCCCH
Confidence 45566666652 37788875 6677899999999999876332 2448994 899999888 77887 7789
Q ss_pred HHHHHHHHHhhCC
Q 029412 103 KTALLSVQALLSA 115 (194)
Q Consensus 103 ~~il~~i~~ll~~ 115 (194)
.+++..+...|.+
T Consensus 105 ~~lv~~l~~~F~~ 117 (121)
T PF05743_consen 105 VDLVQELQAVFSE 117 (121)
T ss_dssp HHHHHHHHHCCCH
T ss_pred HHHHHHHHHHHhH
Confidence 9999998887764
No 31
>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=97.62 E-value=7.2e-05 Score=65.13 Aligned_cols=39 Identities=26% Similarity=0.465 Sum_probs=37.6
Q ss_pred hHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 156 VEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
.++.|+.+++|||++.+|+.||++..+..++|+|||++|
T Consensus 156 ~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tG 194 (378)
T TIGR00601 156 RETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTG 194 (378)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhC
Confidence 478999999999999999999999999999999999998
No 32
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=97.28 E-value=0.001 Score=56.32 Aligned_cols=82 Identities=32% Similarity=0.580 Sum_probs=61.8
Q ss_pred CceEEEEEEeCCCCCCCCCCeEE--EEeeCCCCCCCCCCCcccccc-----eecccccCCCcccccccccCCCC-cccCH
Q 029412 31 NLVHLTGIIPGPVGTPYEGGTFR--LDITLPDGYPFEPPKMHFVTK-----VWHPNISSQSGAICLDILKDQWS-PALTL 102 (194)
Q Consensus 31 ~~~~w~~~i~Gp~~tpy~gg~f~--~~i~fp~~YP~~pP~v~f~t~-----i~Hpnv~~~~G~icl~~l~~~W~-p~~~i 102 (194)
+++...++|. .+|.|..|. +.|-+++.||..||.+..... --|-|||. +|.|.|..| .+|. |+.++
T Consensus 51 ~ll~~~GTIp----~~~~G~tYnIPV~iWlldtyP~~pP~c~VnPT~~M~ik~~~hVd~-nG~V~LPYL-h~W~~pssdL 124 (365)
T KOG2391|consen 51 LLLQLDGTIP----VPYQGVTYNIPVIIWLLDTYPYYPPICYVNPTSTMIIKVHEHVDP-NGKVYLPYL-HNWDPPSSDL 124 (365)
T ss_pred chhhccCccc----ccccCCcccceEEEEecccCCCCCCeEEecCCchhhhHHhhccCC-CCeEechhh-ccCCCccchH
Confidence 4555566665 457787776 556679999999999877522 13899995 999999999 7786 55689
Q ss_pred HHHHHHHHHhhCCCCC
Q 029412 103 KTALLSVQALLSAPAP 118 (194)
Q Consensus 103 ~~il~~i~~ll~~p~~ 118 (194)
..++..+...|.++.+
T Consensus 125 v~Liq~l~a~f~~~pP 140 (365)
T KOG2391|consen 125 VGLIQELIAAFSEDPP 140 (365)
T ss_pred HHHHHHHHHHhcCCCc
Confidence 9999888888876443
No 33
>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=97.13 E-value=0.00032 Score=52.33 Aligned_cols=97 Identities=20% Similarity=0.261 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHhc------CCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCe--EEEEeeCCCCCCCCCCCcccccce
Q 029412 4 FSRVQKELQECSKD------IEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGT--FRLDITLPDGYPFEPPKMHFVTKV 75 (194)
Q Consensus 4 ~~RL~~E~~~l~~~------~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~--f~~~i~fp~~YP~~pP~v~f~t~i 75 (194)
..||..||..|-+. .....+.+.. +.+=+.|.+..-- .|.--. |.+++.+|..||..||.|..-.--
T Consensus 26 ~~RLKEEy~aLI~Yv~~nK~~DndWF~les-n~~GT~W~GkCW~----~h~l~kYEF~~eFdIP~tYP~t~pEi~lPeLd 100 (161)
T PF08694_consen 26 VQRLKEEYQALIKYVENNKENDNDWFRLES-NKEGTRWFGKCWY----IHNLLKYEFDLEFDIPVTYPTTAPEIALPELD 100 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT---EEEEE--TTSSEEEEEEEE----EETTEEEEEEEEEE--TTTTTS----B-GGGT
T ss_pred HHHHHHHHHHHHHHHHhcccccCCeEEecc-CCCCCccccEEEE----EeeeeeEEEeeecCCCccCCCCCcceeccccC
Confidence 47999999987652 2335566663 3344567654431 123334 445566699999999998763110
Q ss_pred e-cccccCCCccccccccc-CCC---CcccCHHHHH
Q 029412 76 W-HPNISSQSGAICLDILK-DQW---SPALTLKTAL 106 (194)
Q Consensus 76 ~-Hpnv~~~~G~icl~~l~-~~W---~p~~~i~~il 106 (194)
- ..-.| .+|+||++.-. .-| .|.++|...|
T Consensus 101 GKTaKMY-RGGkIClt~HFkPLWakN~PkfGIaHal 135 (161)
T PF08694_consen 101 GKTAKMY-RGGKICLTDHFKPLWAKNVPKFGIAHAL 135 (161)
T ss_dssp TT-SSBC-CCCBB---TTHHHHHHCTTTT--HHHHH
T ss_pred Cchhhhh-cCceEeeecccchhhhhcCCchhHHHHH
Confidence 0 01223 48999998653 334 4666766554
No 34
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.04 E-value=0.00081 Score=56.81 Aligned_cols=39 Identities=31% Similarity=0.484 Sum_probs=37.6
Q ss_pred hHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 156 VEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
.+..++++.+||++++.++.||++..|..++|+|+|++|
T Consensus 135 ~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~G 173 (340)
T KOG0011|consen 135 YEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNG 173 (340)
T ss_pred hHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcC
Confidence 488999999999999999999999999999999999997
No 35
>PF14462 Prok-E2_E: Prokaryotic E2 family E
Probab=96.75 E-value=0.016 Score=42.58 Aligned_cols=90 Identities=24% Similarity=0.415 Sum_probs=62.8
Q ss_pred CCeEEEecCCCceEEEEEEeC--CCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccCCCccc--ccccc----
Q 029412 21 SGIKVTPVSDNLVHLTGIIPG--PVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISSQSGAI--CLDIL---- 92 (194)
Q Consensus 21 ~~i~v~~~~~~~~~w~~~i~G--p~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~~G~i--cl~~l---- 92 (194)
.|+.++...+.-..|.+ |.| .+.+.|.+..-.+-|.+|..||..+|.+.+..|-.... .+|.| |-+..
T Consensus 12 ~g~~~E~v~eg~~~~li-i~~~~LP~G~y~~~~~dili~iP~gYP~~~~DmfY~~P~L~~~---~G~~iP~~~~~~~~~~ 87 (122)
T PF14462_consen 12 RGLRWETVTEGGRRWLI-IKGYPLPEGKYNHNEVDILILIPPGYPDAPLDMFYVYPPLKLA---DGGPIPNAAEVTQTFD 87 (122)
T ss_pred cCceEEEEEeCCccEEE-EeCCcCCCCccCccceEEEEECCCCCCCCCCCcEEECCceEcc---CCCcCCchhcchhhcC
Confidence 47778776666666765 555 56778999999999999999999999877765433211 12334 43322
Q ss_pred ----------cCCCCccc-CHHHHHHHHHHhhC
Q 029412 93 ----------KDQWSPAL-TLKTALLSVQALLS 114 (194)
Q Consensus 93 ----------~~~W~p~~-~i~~il~~i~~ll~ 114 (194)
...|+|.. ++.+.|..|...|.
T Consensus 88 G~~wQrWSRH~~~W~P~~D~l~T~l~~v~~~L~ 120 (122)
T PF14462_consen 88 GRTWQRWSRHNNPWRPGVDDLWTHLARVEHALA 120 (122)
T ss_pred CeeeeeecCCCCCCCCCCCcHHHHHHHHHHHHh
Confidence 14688887 68888888877654
No 36
>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=96.02 E-value=0.011 Score=41.80 Aligned_cols=69 Identities=19% Similarity=0.237 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeC--CCCCCCCCCeEEEEeeCCCCCCCCCCCcccccce
Q 029412 5 SRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPG--PVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKV 75 (194)
Q Consensus 5 ~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~G--p~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i 75 (194)
.+.+.|+..|+.--+ ... ......+...+.+.+.+ ...+.-....+.+.+.||++||..||.|...+..
T Consensus 4 e~~~~EieaL~sIy~-~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~p~~YP~~~P~i~l~~~~ 74 (113)
T PF05773_consen 4 EQQEEEIEALQSIYP-DDF-IEIESKSPPSLEVKLDESSSSFESSSFPSVTLHFTLPPGYPESPPKISLESPK 74 (113)
T ss_dssp HHHHHHHHHHHHHSS-SSE-SSSTSSSSEEEEEEE--CEECCTTTTSEEEEEEEEE-SSTTSS--EEEEEEES
T ss_pred HHHHHHHHHHHHHcC-CCc-cccccCCCCceeeeecccccccccccceeEEEEEeCCCcCCCcCCEEEEEcCC
Confidence 467788888887522 222 23344555667777732 2344445668999999999999999999876543
No 37
>KOG3357 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.32 E-value=0.027 Score=41.51 Aligned_cols=86 Identities=20% Similarity=0.376 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCe----------EEEEeeCCCCCCCCCCCccccc
Q 029412 4 FSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGT----------FRLDITLPDGYPFEPPKMHFVT 73 (194)
Q Consensus 4 ~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~----------f~~~i~fp~~YP~~pP~v~f~t 73 (194)
.+||..||+.|-.... .+- -.++| |.-.=..++||-|-|.. |.+++.+|-.||...|.+..-.
T Consensus 29 vqrlkeey~sli~yvq-nnk---~~d~d---wfrlesn~egtrwfgkcwy~hnllkyefdvefdipityp~tapeialpe 101 (167)
T KOG3357|consen 29 VQRLKEEYQSLIAYVQ-NNK---SNDND---WFRLESNKEGTRWFGKCWYVHNLLKYEFDVEFDIPITYPTTAPEIALPE 101 (167)
T ss_pred HHHHHHHHHHHHHHHH-hCc---ccCCc---ceEeccCccccceehhhhHhhhhhhheeeeeeccccccCCCCccccccc
Confidence 5799999998876311 000 01122 22222345566665542 4455556999999999886521
Q ss_pred cee-cccccCCCcccccccc-cCCCC
Q 029412 74 KVW-HPNISSQSGAICLDIL-KDQWS 97 (194)
Q Consensus 74 ~i~-Hpnv~~~~G~icl~~l-~~~W~ 97 (194)
--- .--.+ .+|+||+.-- +.-|.
T Consensus 102 ldgktakmy-rggkiclt~hfkplwa 126 (167)
T KOG3357|consen 102 LDGKTAKMY-RGGKICLTDHFKPLWA 126 (167)
T ss_pred cCchhhhhh-cCceEeeccccchhhh
Confidence 100 01122 4799998643 34564
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=95.25 E-value=0.05 Score=47.58 Aligned_cols=73 Identities=21% Similarity=0.270 Sum_probs=57.2
Q ss_pred hhHHHHHHHHHCHHHHHHHHHHHHHH-------------HcC----C---CCC--chHHHHHHHHhcCCChhHHHHHHHH
Q 029412 122 QDAVVAQQYLKDHQTFLSTARYWTES-------------FAK----T---SSL--GVEEKVQKLVEMGFPESQVRSTLEI 179 (194)
Q Consensus 122 ~n~~a~~~~~~~~~~f~~~a~~~~~~-------------~a~----~---~~~--~~~~~~~~~~~~g~~~~~~~~al~~ 179 (194)
-|++++++.++|.+.|.+...+-... .+. . ... .+.+-|+.|+.+||+++.|+.|.-+
T Consensus 281 ~nP~l~q~I~~n~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~A 360 (378)
T TIGR00601 281 ENPQLLQQISQHPEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFA 360 (378)
T ss_pred hCHHHHHHHHHCHHHHHHHhcCcccccccccccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 38899999999999999987654311 000 0 011 1247999999999999999999999
Q ss_pred hCCCHHHHHHHhhcC
Q 029412 180 VGGDENMALEKLLSS 194 (194)
Q Consensus 180 ~~~~~~~~~e~l~~~ 194 (194)
++=+++.|+.+|+++
T Consensus 361 CdKNEelAAn~Lf~~ 375 (378)
T TIGR00601 361 CDKNEELAANYLLSQ 375 (378)
T ss_pred cCCcHHHHHHHHHhh
Confidence 999999999999863
No 39
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=94.97 E-value=0.14 Score=35.85 Aligned_cols=26 Identities=27% Similarity=0.627 Sum_probs=22.1
Q ss_pred CCCeEEEEeeCCCCCCCCCCCccccc
Q 029412 48 EGGTFRLDITLPDGYPFEPPKMHFVT 73 (194)
Q Consensus 48 ~gg~f~~~i~fp~~YP~~pP~v~f~t 73 (194)
....+.+.+.||++||..+|.|.+.+
T Consensus 39 ~~~~~~l~~~~p~~YP~~~P~i~~~~ 64 (107)
T smart00591 39 QYVSLTLQVKLPENYPDEAPPISLLN 64 (107)
T ss_pred cceEEEEEEECCCCCCCCCCCeEEEC
Confidence 34568899999999999999988765
No 40
>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=94.78 E-value=0.084 Score=31.35 Aligned_cols=37 Identities=22% Similarity=0.268 Sum_probs=28.8
Q ss_pred HHHHHHHHh-cCCChhHHHHHHHHhCCCHHHHHHHhhc
Q 029412 157 EEKVQKLVE-MGFPESQVRSTLEIVGGDENMALEKLLS 193 (194)
Q Consensus 157 ~~~~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~l~~ 193 (194)
++++..+++ -|.++..|+..|+.++|+.+.|+..-+.
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 456777776 4899999999999999999999976553
No 41
>PF14457 Prok-E2_A: Prokaryotic E2 family A
Probab=94.58 E-value=0.051 Score=41.95 Aligned_cols=61 Identities=20% Similarity=0.371 Sum_probs=45.8
Q ss_pred EEeeCCCCCCCCCCCccccccee---cccccCCC-----ccccccccc-CCCCcccCHHHHHHHHHHhhCC
Q 029412 54 LDITLPDGYPFEPPKMHFVTKVW---HPNISSQS-----GAICLDILK-DQWSPALTLKTALLSVQALLSA 115 (194)
Q Consensus 54 ~~i~fp~~YP~~pP~v~f~t~i~---Hpnv~~~~-----G~icl~~l~-~~W~p~~~i~~il~~i~~ll~~ 115 (194)
+.|.|+.+||..+|.|.+.-..| +||+.+ + ..+|+.--. ..|.+..+++.+|..|...|.+
T Consensus 57 ~~i~~~~~~~~~~P~v~~lR~dFP~~lpH~~~-~~~~~p~~lCl~~~~~~e~~~~~g~~~~l~rl~~Wl~~ 126 (162)
T PF14457_consen 57 VAIVFPPDSPLSAPEVPALRKDFPGNLPHQNP-GPEGEPVSLCLYEGPWSEWRPSWGPEGFLDRLFDWLRD 126 (162)
T ss_pred EEEEecCCCCCCCccchhhHhhCCCCCCccCC-CCCCCCccceEecCCHHHhhhccCHHHHHHHHHHHHHH
Confidence 56899999999999877764432 566664 3 679985443 5788999999999888877653
No 42
>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=93.74 E-value=0.14 Score=30.13 Aligned_cols=38 Identities=34% Similarity=0.491 Sum_probs=32.5
Q ss_pred HHHHHHHHhc--CCChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 157 EEKVQKLVEM--GFPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 157 ~~~~~~~~~~--g~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
++.++.|.+| .++......+|.+++++.+.|++.|+.+
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4667888885 8999999999999999999999999864
No 43
>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=92.15 E-value=0.18 Score=31.71 Aligned_cols=29 Identities=24% Similarity=0.389 Sum_probs=22.6
Q ss_pred hHHHHHHHHhcCCChhHHHHHHHHhCCCH
Q 029412 156 VEEKVQKLVEMGFPESQVRSTLEIVGGDE 184 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~al~~~~~~~ 184 (194)
+.+.++.+++|||++..++-+|+.+|.+.
T Consensus 9 ~~~lVd~F~~mGF~~dkVvevlrrlgik~ 37 (55)
T PF09288_consen 9 DKDLVDQFENMGFERDKVVEVLRRLGIKS 37 (55)
T ss_dssp SHHHHHHHHHHT--HHHHHHHHHHS--SS
T ss_pred CHHHHHHHHHcCCcHHHHHHHHHHhCCCC
Confidence 46889999999999999999999998755
No 44
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=89.81 E-value=0.51 Score=43.85 Aligned_cols=55 Identities=24% Similarity=0.381 Sum_probs=45.4
Q ss_pred HHHHHHHHHHcCCCCC-----------------chHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhhc
Q 029412 139 STARYWTESFAKTSSL-----------------GVEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLLS 193 (194)
Q Consensus 139 ~~a~~~~~~~a~~~~~-----------------~~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~~ 193 (194)
+.|-.|...|...+.. .+++.+.-+++|||.++.|++||.+.|.++++|++-+++
T Consensus 601 EaA~NWl~~HMdDpd~~~p~vvp~~~~~a~~~~~~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~ 672 (763)
T KOG0944|consen 601 EAASNWLMEHMDDPDIDDPFVVPGNSPKADAREVDEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFS 672 (763)
T ss_pred HHHHHHHHHhccCcccCCceecCCCCCccccCCCChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 5677888887775421 236788888999999999999999999999999998774
No 45
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=89.23 E-value=0.85 Score=38.94 Aligned_cols=72 Identities=22% Similarity=0.298 Sum_probs=53.2
Q ss_pred hHHHHHHHHHCHHHHHHHHHHHHHH--------HcCCCC-----C--chHHHHHHHHhcCCChhHHHHHHHHhCCCHHHH
Q 029412 123 DAVVAQQYLKDHQTFLSTARYWTES--------FAKTSS-----L--GVEEKVQKLVEMGFPESQVRSTLEIVGGDENMA 187 (194)
Q Consensus 123 n~~a~~~~~~~~~~f~~~a~~~~~~--------~a~~~~-----~--~~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~ 187 (194)
|+...++..+|.+.|.+...+=+.. -+.... . ...+-|+-|..+||++.-++.|.-+++=+++.|
T Consensus 250 nP~L~q~Iq~nqe~Fl~mlnep~~~~~~~~~~~~~~~~~~~~I~vtpee~eAIeRL~alGF~ralViqayfACdKNEelA 329 (340)
T KOG0011|consen 250 NPQLLQLIQENQEAFLQLLNEPVEGGDGGGTGAPAAEGPGHQIQVTPEEKEAIERLEALGFPRALVIQAYFACDKNEELA 329 (340)
T ss_pred CHHHHHHHHHHHHHHHHHhhcccccccccccccccccCCcceEecCHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHH
Confidence 5666677778888888877643332 000000 0 124789999999999999999999999999999
Q ss_pred HHHhhcC
Q 029412 188 LEKLLSS 194 (194)
Q Consensus 188 ~e~l~~~ 194 (194)
+.+|+++
T Consensus 330 AN~Ll~~ 336 (340)
T KOG0011|consen 330 ANYLLSH 336 (340)
T ss_pred HHHHHhh
Confidence 9999863
No 46
>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=88.67 E-value=1.6 Score=25.56 Aligned_cols=38 Identities=24% Similarity=0.487 Sum_probs=32.1
Q ss_pred HHHHHHHHhc--CCChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 157 EEKVQKLVEM--GFPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 157 ~~~~~~~~~~--g~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
++.++.|.+| ..+...++..|++.+++.+.|++.|+.+
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4566777775 7888899999999999999999999865
No 47
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=88.32 E-value=1.2 Score=32.41 Aligned_cols=40 Identities=35% Similarity=0.406 Sum_probs=34.5
Q ss_pred chHHHHHHHHh-cCCChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 155 GVEEKVQKLVE-MGFPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 155 ~~~~~~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
.+++.++.+++ -|-++..|+.||+++++|.-.|.-.|-++
T Consensus 75 i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~~ 115 (115)
T PRK06369 75 IPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSSE 115 (115)
T ss_pred CCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhcC
Confidence 35788888877 59999999999999999999999877653
No 48
>PF09765 WD-3: WD-repeat region; InterPro: IPR019162 This entry represents a region of approximately 100 residues containing three WD repeats and six cysteine residues- possibly as three cysteine-bridges associated with FancL. FancL is the ubiquitin ligase protein that mediates ubiquitination of FancD2, a key step in the DNA damage pathway [, ]. FancL belongs to the multisubunit Fanconi anemia (FA) complex, which is composed of subunits: FancA, FancB, FancC, FancE, FancF, FancG, FancL/PHF9 and FancM. The WD repeats are required for interaction of FancL with other subunits of the FA complex []. In humans defects in FancL are a cause of Fanconi anemia (FA) [MIM:227650], and the FA complex is not found in FA patients. FA is a genetically heterogeneous, autosomal recessive disorder characterised by progressive pancytopenia, a diverse assortment of congenital malformations, and a predisposition to the development of malignancies. At the cellular level it is associated with hypersensitivity to DNA-damaging agents, chromosomal instability (increased chromosome breakage), and defective DNA repair.; PDB: 3ZQS_B 3K1L_A.
Probab=86.56 E-value=1.7 Score=36.75 Aligned_cols=86 Identities=27% Similarity=0.483 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceecccccCC
Q 029412 4 FSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWHPNISSQ 83 (194)
Q Consensus 4 ~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~Hpnv~~~ 83 (194)
.++|.+|+.++..+ ..+.+. .++++...++.+.. +.....++|.+|.+||.++|.+..--|+
T Consensus 101 ys~ll~EIe~IGW~---kl~~i~-~d~~ls~i~l~~~D------~~R~H~l~l~l~~~yp~~~p~~~~~~P~-------- 162 (291)
T PF09765_consen 101 YSNLLKEIEAIGWD---KLVQIQ-FDDDLSTIKLKIFD------SSRQHYLELKLPSNYPFEPPSCSLDLPI-------- 162 (291)
T ss_dssp C-CHHHHHHHHHCG---CCEEEE-E-CCCSEEEEEEET------TCEEEEEEEETTTTTTTSEEEECS-TTS--------
T ss_pred HHHHHHHHHHhccc---cceEEe-cCCCccEEEEEEEc------CCceEEEEEEECCCCCCCCceeeCCCCc--------
Confidence 46788899988876 245443 36688889999883 2357889999999999999965332211
Q ss_pred CcccccccccCCCCc-ccCHHHHHHHHHHhhC
Q 029412 84 SGAICLDILKDQWSP-ALTLKTALLSVQALLS 114 (194)
Q Consensus 84 ~G~icl~~l~~~W~p-~~~i~~il~~i~~ll~ 114 (194)
. +...|.+ ..++.+++...+..+.
T Consensus 163 ------~-~~~~w~~~~ssL~~v~~qF~~~le 187 (291)
T PF09765_consen 163 ------P-FSLSWSPSQSSLKDVVQQFQEALE 187 (291)
T ss_dssp --------HHHHHHCHT-SHHHHHHHHHHHHH
T ss_pred ------c-hhhhhcccccCHHHHHHHHHHHHH
Confidence 1 1134777 5577777766655543
No 49
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.50 E-value=2.9 Score=39.66 Aligned_cols=67 Identities=13% Similarity=0.216 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCCCCCCCe-EEEEeeCCCCCCC-CCCCcccccc
Q 029412 5 SRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGTPYEGGT-FRLDITLPDGYPF-EPPKMHFVTK 74 (194)
Q Consensus 5 ~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~tpy~gg~-f~~~i~fp~~YP~-~pP~v~f~t~ 74 (194)
+-|..|+.-+... .+.+.++-.+-.-..-.+.+-||-.-. .|-+ .++.|.||.+||. .+|+++|..+
T Consensus 423 QnLgeE~S~Ig~k--~~nV~fEkidva~Rsctvsln~p~~~~-d~y~flrm~V~FP~nYPn~a~P~Fq~e~~ 491 (1081)
T KOG0309|consen 423 QNLGEEFSLIGVK--IRNVNFEKIDVADRSCTVSLNCPNHRV-DDYIFLRMLVKFPANYPNNAAPSFQFENP 491 (1081)
T ss_pred hhHHhHHhHhhcc--ccccceEeeccccceEEEEecCCCCcc-ccceeEEEEEeccccCCCCCCCceEEecC
Confidence 3466777776655 356666533333345566777653322 3334 4789999999999 5799988643
No 50
>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=85.42 E-value=2.4 Score=27.03 Aligned_cols=37 Identities=32% Similarity=0.481 Sum_probs=29.5
Q ss_pred HHHHHHHhc-C-CChhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 158 EKVQKLVEM-G-FPESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 158 ~~~~~~~~~-g-~~~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
..||.+.+. | ..+.+.-..|.++|-|.++|++.|++|
T Consensus 7 k~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 7 KTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 345555542 3 588999999999999999999999875
No 51
>KOG4018 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=85.03 E-value=3 Score=33.49 Aligned_cols=68 Identities=21% Similarity=0.258 Sum_probs=40.3
Q ss_pred CchHHHHHHHHHHHHhcCCCCCeEEEecCCCceEEEEEEeCCCCC--CCCCCeEEEEeeCCCCCCCCCCCccc
Q 029412 1 MIDFSRVQKELQECSKDIEASGIKVTPVSDNLVHLTGIIPGPVGT--PYEGGTFRLDITLPDGYPFEPPKMHF 71 (194)
Q Consensus 1 m~~~~RL~~E~~~l~~~~~~~~i~v~~~~~~~~~w~~~i~Gp~~t--py~gg~f~~~i~fp~~YP~~pP~v~f 71 (194)
|+...-...|+..|..--+ .-+ ....+.++..+.+.|.-..+. -|.| .+.+.++++.+||..||-|.+
T Consensus 1 Ms~~EeQe~E~EaLeSIY~-de~-~~i~~~~~~~f~v~iq~e~~e~d~~~~-~~~l~~s~tEnYPDe~Pli~~ 70 (215)
T KOG4018|consen 1 MSQYEEQEEELEALESIYP-DEF-KHINSEDPPIFEVTIQYEEGENDEPKG-SFILVFSLTENYPDEAPLIEA 70 (215)
T ss_pred CCcHHHHHHHHHHHHHhcc-chh-hhhhccCCccceeeeecccccCCCccc-cEEEEEEccCCCCCCCcceec
Confidence 5555456677777776532 222 112233444466666522211 1222 788999999999999999943
No 52
>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=83.37 E-value=2.8 Score=30.52 Aligned_cols=37 Identities=27% Similarity=0.416 Sum_probs=32.3
Q ss_pred chHHHHHHHHh-cCCChhHHHHHHHHhCCCHHHHHHHh
Q 029412 155 GVEEKVQKLVE-MGFPESQVRSTLEIVGGDENMALEKL 191 (194)
Q Consensus 155 ~~~~~~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~l 191 (194)
.+++.++.+++ -|-++..|+.||++++||.-+|.-.|
T Consensus 77 i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L 114 (116)
T TIGR00264 77 ITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKL 114 (116)
T ss_pred CCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHh
Confidence 45788888876 59999999999999999999998665
No 53
>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=81.11 E-value=5.7 Score=24.21 Aligned_cols=38 Identities=24% Similarity=0.272 Sum_probs=30.5
Q ss_pred hHHHHHHHHh--cCCChhHHHHHHHHhCCCHHHHHHHhhc
Q 029412 156 VEEKVQKLVE--MGFPESQVRSTLEIVGGDENMALEKLLS 193 (194)
Q Consensus 156 ~~~~~~~~~~--~g~~~~~~~~al~~~~~~~~~~~e~l~~ 193 (194)
+++.+.+... .|..++-.+..|..-|.|.+.|+-.|+|
T Consensus 9 PedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLs 48 (53)
T PF11547_consen 9 PEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLS 48 (53)
T ss_dssp -HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhc
Confidence 4777777754 6999999999999999999999988875
No 54
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=77.86 E-value=5.5 Score=29.21 Aligned_cols=36 Identities=33% Similarity=0.478 Sum_probs=31.0
Q ss_pred hHHHHHHHHh-cCCChhHHHHHHHHhCCCHHHHHHHh
Q 029412 156 VEEKVQKLVE-MGFPESQVRSTLEIVGGDENMALEKL 191 (194)
Q Consensus 156 ~~~~~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~l 191 (194)
+++.|..+++ -|-+++.|++||++.|.|.-+|.=.|
T Consensus 84 ~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 84 SEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 4778888877 59999999999999999999987555
No 55
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=77.17 E-value=26 Score=25.91 Aligned_cols=59 Identities=20% Similarity=0.234 Sum_probs=45.5
Q ss_pred HCHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhh
Q 029412 132 KDHQTFLSTARYWTESFAKTSSLGVEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLL 192 (194)
Q Consensus 132 ~~~~~f~~~a~~~~~~~a~~~~~~~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~ 192 (194)
-..++|++.-++.++ |--..+..+.+.++-+++.+...+.|+.||.+.| |.-.|.+.|.
T Consensus 91 mS~~EYM~lKkqLae-~il~~s~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~ 149 (153)
T COG4008 91 MSPEEYMELKKQLAE-YILGHSEPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILR 149 (153)
T ss_pred CCHHHHHHHHHHHHH-HHhccCCCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHH
Confidence 356778766554443 3334445568889999999999999999999999 9999988775
No 56
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=75.68 E-value=9.6 Score=34.22 Aligned_cols=35 Identities=37% Similarity=0.562 Sum_probs=32.3
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHh
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKL 191 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l 191 (194)
++....+++|||.+.+|+.||+.++.+++.|+..+
T Consensus 304 d~~lsllv~mGfeesdaRlaLRsc~g~Vd~AvqfI 338 (568)
T KOG2561|consen 304 DETLSLLVGMGFEESDARLALRSCNGDVDSAVQFI 338 (568)
T ss_pred chHHHHHHHcCCCchHHHHHHHhccccHHHHHHHH
Confidence 78889999999999999999999999999998554
No 57
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=73.18 E-value=4.9 Score=35.98 Aligned_cols=36 Identities=39% Similarity=0.523 Sum_probs=32.9
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhh
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLL 192 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~ 192 (194)
...+..|+.|||++-+|+.||+..+.+++.|.+.|.
T Consensus 430 ~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~ 465 (568)
T KOG2561|consen 430 GISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLS 465 (568)
T ss_pred hhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHH
Confidence 468889999999999999999999999999998775
No 58
>PF07553 Lipoprotein_Ltp: Host cell surface-exposed lipoprotein; InterPro: IPR011434 This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=69.18 E-value=20 Score=21.83 Aligned_cols=41 Identities=20% Similarity=0.262 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHcCCCCCchHHHHHHHHhc---CCChhHHHHHHH
Q 029412 138 LSTARYWTESFAKTSSLGVEEKVQKLVEM---GFPESQVRSTLE 178 (194)
Q Consensus 138 ~~~a~~~~~~~a~~~~~~~~~~~~~~~~~---g~~~~~~~~al~ 178 (194)
++.|-.-++.|........+...++|... ||..++|.-|..
T Consensus 3 ~~~Al~~Ak~Y~~~~~~Sk~~l~~QL~se~ge~Ft~e~A~YAv~ 46 (48)
T PF07553_consen 3 NKNALKKAKSYLKTMHMSKQGLYDQLTSEYGEGFTEEEAQYAVD 46 (48)
T ss_pred HHHHHHHHHHHHHhccCCHHHHHHHHHhhcccCCCHHHHHHHHH
Confidence 46677777888887777779999999875 999999987654
No 59
>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=66.85 E-value=5.2 Score=24.02 Aligned_cols=25 Identities=12% Similarity=0.465 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhC
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVG 181 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~ 181 (194)
++.++-|...||.+.++..+++...
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5778889999999999999998873
No 60
>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=63.34 E-value=12 Score=25.48 Aligned_cols=34 Identities=24% Similarity=0.421 Sum_probs=27.8
Q ss_pred HHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhhc
Q 029412 160 VQKLVEMGFPESQVRSTLEIVGGDENMALEKLLS 193 (194)
Q Consensus 160 ~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~~ 193 (194)
|+.+.+.|++...+..||.+...+...|..++++
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~ 34 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVLN 34 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHH
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 3457789999999999999999999999886654
No 61
>PF06113 BRE: Brain and reproductive organ-expressed protein (BRE); InterPro: IPR010358 This family consists of several eukaryotic brain and reproductive organ-expressed (BRE) proteins. BRE is a putative stress-modulating gene, found able to down-regulate TNF-alpha-induced-NF-kappaB activation upon over expression. A total of six isoforms are produced by alternative splicing predominantly at either end of the gene. Compared to normal cells, immortalised human cell lines uniformly express higher levels of BRE. Peripheral blood monocytes respond to LPS by down-regulating the expression of all the BRE isoforms. It is thought that the function of BRE and its isoforms is to regulate peroxisomal activities [].
Probab=60.06 E-value=21 Score=30.72 Aligned_cols=42 Identities=26% Similarity=0.512 Sum_probs=34.1
Q ss_pred ceEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccc-cceeccc
Q 029412 32 LVHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFV-TKVWHPN 79 (194)
Q Consensus 32 ~~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~-t~i~Hpn 79 (194)
...+.+.|. |.|...+-+|.|...||..||-+.|. ..-|+|-
T Consensus 53 ~DRF~l~IP------y~~~~l~W~viFd~~~p~~pPDfiF~eD~~F~pd 95 (333)
T PF06113_consen 53 CDRFKLLIP------YCGEYLKWDVIFDAQYPEFPPDFIFGEDDNFLPD 95 (333)
T ss_pred cceEEEEee------ccCCEEEEEEEEcCCCCCCCCCEEeCCCcCcCCC
Confidence 446666665 99999999999999999999999996 3347773
No 62
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=58.06 E-value=17 Score=32.89 Aligned_cols=37 Identities=38% Similarity=0.598 Sum_probs=31.9
Q ss_pred HHHHHHHhcCCC-hhHHHHHHHHhCCCHHHHHHHhhcC
Q 029412 158 EKVQKLVEMGFP-ESQVRSTLEIVGGDENMALEKLLSS 194 (194)
Q Consensus 158 ~~~~~~~~~g~~-~~~~~~al~~~~~~~~~~~e~l~~~ 194 (194)
.-.++|-+|||. ++..+.||.+-+.|.++|+|.|+.+
T Consensus 456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~s 493 (493)
T KOG0010|consen 456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERLLGS 493 (493)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhcC
Confidence 567888899985 6677899999999999999999864
No 63
>PF08383 Maf_N: Maf N-terminal region; InterPro: IPR013592 This region is found in various leucine zipper transcription factors of the Maf family. These are implicated in the regulation of insulin gene expression [], in erythroid differentiation [], and in differentiation of the neuroretina [].
Probab=57.44 E-value=10 Score=21.49 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=11.7
Q ss_pred HhCCCHHHHHHHhhcC
Q 029412 179 IVGGDENMALEKLLSS 194 (194)
Q Consensus 179 ~~~~~~~~~~e~l~~~ 194 (194)
..+...++|+|+|.++
T Consensus 20 ~l~LtpEDAvEaLi~~ 35 (35)
T PF08383_consen 20 ALGLTPEDAVEALIGN 35 (35)
T ss_pred hcCCCHHHHHHHHhcC
Confidence 4577888888888753
No 64
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=57.09 E-value=52 Score=32.16 Aligned_cols=67 Identities=25% Similarity=0.418 Sum_probs=44.1
Q ss_pred ccccCCCcccccccccCCCCcccCHHHHHHHHHHh-----hCCCCCCCc-h--hHHHHHHHH------H--CHHHHHHHH
Q 029412 78 PNISSQSGAICLDILKDQWSPALTLKTALLSVQAL-----LSAPAPDDP-Q--DAVVAQQYL------K--DHQTFLSTA 141 (194)
Q Consensus 78 pnv~~~~G~icl~~l~~~W~p~~~i~~il~~i~~l-----l~~p~~~~p-~--n~~a~~~~~------~--~~~~f~~~a 141 (194)
||| +|.+-+..- -.+|+.++|.--+.| |--|..|+. + ...+-+.+. + .|++|.+++
T Consensus 42 PNV---TG~LHmGHA-----l~~tl~D~l~RykRM~G~~vl~~pG~DhAGIaTq~~VEk~l~~~g~~r~d~gRe~Fl~~~ 113 (877)
T COG0525 42 PNV---TGSLHMGHA-----LNYTLQDILARYKRMRGYNVLWPPGTDHAGIATQVVVEKQLAAEGITRHDLGREEFLKKC 113 (877)
T ss_pred CCC---CCcccchhh-----hhHHHHHHHHHHHHcCCCeeecCCCCCCCCchHHHHHHHHHHHcCCCccccCHHHHHHHH
Confidence 787 577766432 246788888877776 444666663 2 222223331 2 599999999
Q ss_pred HHHHHHHcCCC
Q 029412 142 RYWTESFAKTS 152 (194)
Q Consensus 142 ~~~~~~~a~~~ 152 (194)
.+|..++.+..
T Consensus 114 weWk~e~~~~I 124 (877)
T COG0525 114 WEWKEESGGTI 124 (877)
T ss_pred HHHHHHHHHHH
Confidence 99999988753
No 65
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=57.08 E-value=17 Score=34.16 Aligned_cols=33 Identities=36% Similarity=0.528 Sum_probs=28.0
Q ss_pred hHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHH
Q 029412 156 VEEKVQKLVEMGFPESQVRSTLEIVGGDENMAL 188 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~ 188 (194)
++..+.+|++|||..++|++||=..+.+..+|+
T Consensus 571 d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA 603 (763)
T KOG0944|consen 571 DRSVISQLVEMGFPEEACRRALYYTGNSGAEAA 603 (763)
T ss_pred hHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHH
Confidence 357899999999999999999999966666655
No 66
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=56.28 E-value=13 Score=34.10 Aligned_cols=54 Identities=20% Similarity=0.251 Sum_probs=43.4
Q ss_pred HHHHHHHHHHcCCCCCc----------------hHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHHHHhh
Q 029412 139 STARYWTESFAKTSSLG----------------VEEKVQKLVEMGFPESQVRSTLEIVGGDENMALEKLL 192 (194)
Q Consensus 139 ~~a~~~~~~~a~~~~~~----------------~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~e~l~ 192 (194)
+.|-.|-=+|...+-+. ++++++-+.++||..+.|++||-..|.|.+++++-.+
T Consensus 588 EsAMNWLFqHMdDPdlndP~~~~~~vPKkDkeVdE~~~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~ 657 (749)
T COG5207 588 ESAMNWLFQHMDDPDLNDPFVPPPNVPKKDKEVDESKARSLLENGLNPNLCRKALMDMNTDSKRRVVWCI 657 (749)
T ss_pred HHHHHHHHhhccCcccCCCCCCCCCCCcccccccHHHHHHHHHcCCCHHHHHHHHHHccCCchheEEEEE
Confidence 57778877777654221 3689999999999999999999999999998876443
No 67
>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=54.10 E-value=38 Score=21.78 Aligned_cols=34 Identities=26% Similarity=0.218 Sum_probs=27.3
Q ss_pred HHHHHHHHh-cCCChhHHHHHHHHhCCCHHHHHHH
Q 029412 157 EEKVQKLVE-MGFPESQVRSTLEIVGGDENMALEK 190 (194)
Q Consensus 157 ~~~~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~ 190 (194)
++.+.++.. =|....=+++.|++.+||-+.|+..
T Consensus 13 ~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~ 47 (63)
T smart00804 13 QEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKN 47 (63)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 455555554 4999999999999999999999843
No 68
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=53.40 E-value=30 Score=29.65 Aligned_cols=36 Identities=33% Similarity=0.361 Sum_probs=31.2
Q ss_pred HHHHHHHHh-cCCChhHHHHHHHHhCCCHHHHHHHhh
Q 029412 157 EEKVQKLVE-MGFPESQVRSTLEIVGGDENMALEKLL 192 (194)
Q Consensus 157 ~~~~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~l~ 192 (194)
.+.+.+|.+ -|+.-..|.+||+++|||...|.|.|-
T Consensus 47 ~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~ 83 (340)
T KOG1071|consen 47 KALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLH 83 (340)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHH
Confidence 567777765 599999999999999999999998774
No 69
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=52.74 E-value=32 Score=21.91 Aligned_cols=21 Identities=33% Similarity=0.631 Sum_probs=17.0
Q ss_pred HHHHHhcCCChhHHHHHHHHh
Q 029412 160 VQKLVEMGFPESQVRSTLEIV 180 (194)
Q Consensus 160 ~~~~~~~g~~~~~~~~al~~~ 180 (194)
-+.|+++||.+..|....++.
T Consensus 6 k~dLi~lGf~~~tA~~IIrqA 26 (59)
T PF11372_consen 6 KKDLIELGFSESTARDIIRQA 26 (59)
T ss_pred HHHHHHcCCCHHHHHHHHHHH
Confidence 356888999999998887765
No 70
>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=50.26 E-value=26 Score=21.44 Aligned_cols=31 Identities=26% Similarity=0.228 Sum_probs=22.8
Q ss_pred HHHHHh-cCCChhHHHHHHHHhCCCHHHHHHH
Q 029412 160 VQKLVE-MGFPESQVRSTLEIVGGDENMALEK 190 (194)
Q Consensus 160 ~~~~~~-~g~~~~~~~~al~~~~~~~~~~~e~ 190 (194)
|..+.. -|....=+.+-|++++||-+.|...
T Consensus 4 v~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~ 35 (51)
T PF03943_consen 4 VQQFSQQTGMNLEWSQKCLEENNWDYERALQN 35 (51)
T ss_dssp HHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 444443 5888999999999999999999854
No 71
>smart00340 HALZ homeobox associated leucin zipper.
Probab=48.37 E-value=23 Score=20.95 Aligned_cols=15 Identities=40% Similarity=0.282 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHhcC
Q 029412 4 FSRVQKELQECSKDI 18 (194)
Q Consensus 4 ~~RL~~E~~~l~~~~ 18 (194)
.+||++|+++|....
T Consensus 21 NrRL~ke~~eLralk 35 (44)
T smart00340 21 NRRLQKEVQELRALK 35 (44)
T ss_pred HHHHHHHHHHHHhcc
Confidence 689999999998753
No 72
>PF14460 Prok-E2_D: Prokaryotic E2 family D
Probab=46.74 E-value=27 Score=27.11 Aligned_cols=44 Identities=18% Similarity=0.358 Sum_probs=26.0
Q ss_pred cccceec---ccccCCCcccccccccCCCCcccCHHHHHHHHH-HhhCCCCC
Q 029412 71 FVTKVWH---PNISSQSGAICLDILKDQWSPALTLKTALLSVQ-ALLSAPAP 118 (194)
Q Consensus 71 f~t~i~H---pnv~~~~G~icl~~l~~~W~p~~~i~~il~~i~-~ll~~p~~ 118 (194)
-.|+.|| +||+ .+|+||+.... .|.......+.... .++.++..
T Consensus 88 ~~T~Ly~aPf~NV~-~~g~vC~G~~~---~P~~~~~~~i~~we~~Ff~S~ft 135 (175)
T PF14460_consen 88 PDTPLYHAPFFNVY-SNGSVCWGNNS---LPKISTLASIEAWEDAFFNSPFT 135 (175)
T ss_pred CCCeeEeCCccccC-CCCcEeeCCCc---CCCccCHHHHHHHHHHHhCCCcc
Confidence 3566777 5998 58999997632 24443344455554 44555543
No 73
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3QRL_A 2L7E_A 3FK3_C 3RLS_A.
Probab=46.43 E-value=51 Score=22.41 Aligned_cols=43 Identities=12% Similarity=0.068 Sum_probs=29.3
Q ss_pred eEEEEEEeCCCCCCCCCCeEEEEeeCCCCCCCCCCCcccccceec
Q 029412 33 VHLTGIIPGPVGTPYEGGTFRLDITLPDGYPFEPPKMHFVTKVWH 77 (194)
Q Consensus 33 ~~w~~~i~Gp~~tpy~gg~f~~~i~fp~~YP~~pP~v~f~t~i~H 77 (194)
+.|.+.+.|+.+..-..-+=++...+.+.|+. |...+..+.|.
T Consensus 2 h~W~v~Vr~~~~~d~~~~i~kV~f~LHpsF~~--p~r~v~~pPFe 44 (84)
T PF03366_consen 2 HKWTVYVRGLDNEDLSYFIKKVTFKLHPSFPN--PVRVVTKPPFE 44 (84)
T ss_dssp EEEEEEEEECCCT--TTTEEEEEEES-TTSSS---EEECSSTTEE
T ss_pred cEEEEEEEeCCCCCccceEEEEEEECCCCCCC--CceEecCCCCE
Confidence 68999999988765556677788888899886 66666655443
No 74
>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=44.67 E-value=23 Score=30.89 Aligned_cols=21 Identities=38% Similarity=0.702 Sum_probs=18.2
Q ss_pred hHHHHHHHHhcCCChhHHHHH
Q 029412 156 VEEKVQKLVEMGFPESQVRST 176 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~a 176 (194)
.||.|+|++.|||.++.++-.
T Consensus 321 ~ddvidKv~~MGf~rDqV~a~ 341 (358)
T PF07223_consen 321 YDDVIDKVASMGFRRDQVRAT 341 (358)
T ss_pred HHHHHHHHHHcCCcHHHHHHH
Confidence 489999999999999988643
No 75
>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=42.80 E-value=35 Score=27.82 Aligned_cols=38 Identities=21% Similarity=0.357 Sum_probs=24.5
Q ss_pred cceec---ccccCCCcccccccccCCCCccc-CHHHHHHHHHHhhCC
Q 029412 73 TKVWH---PNISSQSGAICLDILKDQWSPAL-TLKTALLSVQALLSA 115 (194)
Q Consensus 73 t~i~H---pnv~~~~G~icl~~l~~~W~p~~-~i~~il~~i~~ll~~ 115 (194)
|+.|| +||+ ++|+||+.... .|.. ++.+ +......|.+
T Consensus 131 T~L~~aPffNV~-~~G~VC~G~~~---~P~~~~~~~-i~~we~~FF~ 172 (228)
T TIGR03737 131 TKLYQAPLFNVW-SNGEICAGNAR---LPDRPTVAN-ISAWEDAFFS 172 (228)
T ss_pred CeeccCCcCccC-CCCeEeeCCCc---CCCCcCHHH-HHHHHHHHhC
Confidence 55666 5897 58999997653 4444 5555 6666555443
No 76
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=42.75 E-value=94 Score=20.25 Aligned_cols=48 Identities=21% Similarity=0.191 Sum_probs=38.2
Q ss_pred HHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCCCCc
Q 029412 108 SVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTSSLG 155 (194)
Q Consensus 108 ~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~~~~ 155 (194)
.|+.|+..-++...+..+|...+.+--+.|...+-.-+.++|......
T Consensus 6 ~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~ 53 (72)
T cd07981 6 KLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSD 53 (72)
T ss_pred HHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 345555555666778999999999999999999999999988876653
No 77
>PF09606 Med15: ARC105 or Med15 subunit of Mediator complex non-fungal; InterPro: IPR019087 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. The proteins in this entry represent subunit Med15 of the Mediator complex. They contain a single copy of the approximately 70 residue ARC105 domain. The ARC105 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, ARC105 is a critical transducer of gene activation signals that control early metazoan development []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 2GUT_A.
Probab=41.58 E-value=8.7 Score=36.96 Aligned_cols=27 Identities=22% Similarity=0.444 Sum_probs=0.0
Q ss_pred CeEEEEeeCCCCCCCCCCCccccccee
Q 029412 50 GTFRLDITLPDGYPFEPPKMHFVTKVW 76 (194)
Q Consensus 50 g~f~~~i~fp~~YP~~pP~v~f~t~i~ 76 (194)
.+=.+.|.+|.+||..+|.+.+.+.-|
T Consensus 714 ~VPPl~l~vP~~YP~~sp~~~~~~~~y 740 (799)
T PF09606_consen 714 SVPPLRLTVPADYPRQSPQCSVDRDEY 740 (799)
T ss_dssp ---------------------------
T ss_pred CCCCeeEeCCCCCCccCCcCcccHHHh
Confidence 466789999999999999987765443
No 78
>KOG2851 consensus Eukaryotic-type DNA primase, catalytic (small) subunit [Replication, recombination and repair]
Probab=41.47 E-value=50 Score=28.88 Aligned_cols=33 Identities=24% Similarity=0.571 Sum_probs=26.9
Q ss_pred ccCCCccccccccc---CCCCccc--CHHHHHHHHHHh
Q 029412 80 ISSQSGAICLDILK---DQWSPAL--TLKTALLSVQAL 112 (194)
Q Consensus 80 v~~~~G~icl~~l~---~~W~p~~--~i~~il~~i~~l 112 (194)
|+|.+|+||..+=- +...|.. +|.+++..|.++
T Consensus 332 VHP~Tg~VcVPidv~~~d~Fdp~~vPti~~l~eEl~~~ 369 (412)
T KOG2851|consen 332 VHPKTGRVCVPIDVSKVDEFDPEKVPTISDLLEELESL 369 (412)
T ss_pred ccCCCCceEeecchhhccccCcccCCcHHHHHHHHhhc
Confidence 77889999987642 6677776 899999999887
No 79
>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=39.80 E-value=47 Score=20.12 Aligned_cols=30 Identities=13% Similarity=-0.058 Sum_probs=23.3
Q ss_pred HHhcCCChhHHHHHHHHhCCCHHHHHHHhh
Q 029412 163 LVEMGFPESQVRSTLEIVGGDENMALEKLL 192 (194)
Q Consensus 163 ~~~~g~~~~~~~~al~~~~~~~~~~~e~l~ 192 (194)
......+......=|.+..|+.+.|.+.|.
T Consensus 24 ~~~~~~~d~~llRFLRARkf~v~~A~~mL~ 53 (55)
T PF03765_consen 24 DEKEDHDDNFLLRFLRARKFDVEKAFKMLK 53 (55)
T ss_dssp THTSS-SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred cccCCCCHHHHHHHHHHccCCHHHHHHHHH
Confidence 344566888899999999999999998874
No 80
>cd00421 intradiol_dioxygenase Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear non-heme iron enzymes that catalyze the oxygenation of catecholates to aliphatic acids via the cleavage of aromatic rings. The members are intradiol-cleaving enzymes which break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. Catechol 1,2-dioxygenases are mostly homodimers with one catalytic ferric ion per monomer. Protocatechuate 3,4-dioxygenases form more diverse oligomers.
Probab=38.03 E-value=31 Score=25.80 Aligned_cols=25 Identities=36% Similarity=0.813 Sum_probs=22.0
Q ss_pred CCCeEEEEeeCCCCCC-CCCCCcccc
Q 029412 48 EGGTFRLDITLPDGYP-FEPPKMHFV 72 (194)
Q Consensus 48 ~gg~f~~~i~fp~~YP-~~pP~v~f~ 72 (194)
+.|.|.|.-.+|-.|| ..||.|.|.
T Consensus 64 ~~G~y~f~ti~Pg~Y~~~R~~HiH~~ 89 (146)
T cd00421 64 ADGRYRFRTIKPGPYPIGRPPHIHFK 89 (146)
T ss_pred CCcCEEEEEEcCCCCCCCCCCEEEEE
Confidence 3589999999999999 899998875
No 81
>PRK11700 hypothetical protein; Provisional
Probab=36.55 E-value=1.1e+02 Score=24.13 Aligned_cols=71 Identities=21% Similarity=0.389 Sum_probs=45.8
Q ss_pred ceEEEE---EEeCCCCCCC-CCCeEEEEeeCC--------------CCCCCCCCCccccc--c------eecccccCCCc
Q 029412 32 LVHLTG---IIPGPVGTPY-EGGTFRLDITLP--------------DGYPFEPPKMHFVT--K------VWHPNISSQSG 85 (194)
Q Consensus 32 ~~~w~~---~i~Gp~~tpy-~gg~f~~~i~fp--------------~~YP~~pP~v~f~t--~------i~Hpnv~~~~G 85 (194)
...|.+ .+.-|.+.-| .-|+=++++++| +++|..+|-|++.+ | .-+|-|--..|
T Consensus 88 ~~~w~I~cvELP~P~~k~Yp~eGWEHIElVlp~~~~t~~~~~~all~~~~l~~~gikvK~SsPkge~ERL~NPTlAv~~~ 167 (187)
T PRK11700 88 VGHWSIDCVELPYPGEKRYPHEGWEHIELVLPGDPETLDARALALLSDEGLSLPGIKVKTSSPKGEGERLPNPTLAVTDG 167 (187)
T ss_pred eCCcEEEEEEeCCCCCCCCCCCCceEEEEEecCCcchHHHHHHHhccccccccCCcEEEecCCCccCccCCCCcEEEeeC
Confidence 334543 4444555555 567889999987 44566667666543 2 45677665689
Q ss_pred ccccccccCCCCcccCHHHHHHH
Q 029412 86 AICLDILKDQWSPALTLKTALLS 108 (194)
Q Consensus 86 ~icl~~l~~~W~p~~~i~~il~~ 108 (194)
.||+.+- .++|.+|+.+
T Consensus 168 ~vcIK~H------P~slk~IV~S 184 (187)
T PRK11700 168 GICIKFH------PHSIKEIVAS 184 (187)
T ss_pred CEEEEEc------CccHHHHHHh
Confidence 9999764 4677777754
No 82
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=35.74 E-value=59 Score=29.95 Aligned_cols=25 Identities=40% Similarity=0.781 Sum_probs=22.2
Q ss_pred HHHHHHHhcCCChhHHHHHHHHhCC
Q 029412 158 EKVQKLVEMGFPESQVRSTLEIVGG 182 (194)
Q Consensus 158 ~~~~~~~~~g~~~~~~~~al~~~~~ 182 (194)
..+++|++|||...+|..||-.-+.
T Consensus 560 s~I~qL~~mGfp~~~~~rAL~~tgN 584 (749)
T COG5207 560 SLIRQLVDMGFPEEDAARALGITGN 584 (749)
T ss_pred HHHHHHHHcCCCHHHHHHHHhhccC
Confidence 6799999999999999999987755
No 83
>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=35.64 E-value=32 Score=19.81 Aligned_cols=23 Identities=30% Similarity=0.430 Sum_probs=17.7
Q ss_pred ChhHHHHHHHHhCCCHHHHHHHh
Q 029412 169 PESQVRSTLEIVGGDENMALEKL 191 (194)
Q Consensus 169 ~~~~~~~al~~~~~~~~~~~e~l 191 (194)
++.-...+|...+|+..+|++.|
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH
Confidence 45566788999999999998776
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=34.16 E-value=12 Score=22.54 Aligned_cols=24 Identities=33% Similarity=0.573 Sum_probs=15.8
Q ss_pred HHHHHHHHh-cCCChhHHHHHHHHh
Q 029412 157 EEKVQKLVE-MGFPESQVRSTLEIV 180 (194)
Q Consensus 157 ~~~~~~~~~-~g~~~~~~~~al~~~ 180 (194)
++.+.+|.. |||++.+..-||+..
T Consensus 3 e~vv~~Ls~tMGY~kdeI~eaL~~~ 27 (46)
T PF08587_consen 3 EDVVSKLSKTMGYDKDEIYEALESS 27 (46)
T ss_dssp HCCHHHHHCTT---HHHHHHHCCSS
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHcC
Confidence 456677764 999999999888763
No 85
>cd03457 intradiol_dioxygenase_like Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. The family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases. The specific function of this subgroup is unknown.
Probab=32.57 E-value=43 Score=26.39 Aligned_cols=25 Identities=24% Similarity=0.514 Sum_probs=22.1
Q ss_pred CCCeEEEEeeCCCCCCCCCCCcccc
Q 029412 48 EGGTFRLDITLPDGYPFEPPKMHFV 72 (194)
Q Consensus 48 ~gg~f~~~i~fp~~YP~~pP~v~f~ 72 (194)
+.|.|.|.=.+|--||..||.|.|.
T Consensus 85 ~~G~~~F~TI~PG~Y~gR~~HIH~~ 109 (188)
T cd03457 85 ADGVVTFTTIFPGWYPGRATHIHFK 109 (188)
T ss_pred CCccEEEEEECCCCCCCCCceEEEE
Confidence 3588999999999999999999886
No 86
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=31.43 E-value=46 Score=28.40 Aligned_cols=26 Identities=27% Similarity=0.569 Sum_probs=22.6
Q ss_pred CeEEEEeeCCCCCCCCCCCcccccce
Q 029412 50 GTFRLDITLPDGYPFEPPKMHFVTKV 75 (194)
Q Consensus 50 g~f~~~i~fp~~YP~~pP~v~f~t~i 75 (194)
-.+.+.|..++.||...|.|+...|+
T Consensus 45 vcvtl~m~vs~gYP~esPtvtl~nPR 70 (368)
T KOG4445|consen 45 VCVTLEMTVSEGYPAESPTVTLSNPR 70 (368)
T ss_pred EEEEEEEecCCCCCCcCCceEecCCC
Confidence 46788999999999999999988763
No 87
>KOG1047 consensus Bifunctional leukotriene A4 hydrolase/aminopeptidase LTA4H [Lipid transport and metabolism; Posttranslational modification, protein turnover, chaperones; Defense mechanisms; Amino acid transport and metabolism]
Probab=31.42 E-value=36 Score=31.44 Aligned_cols=29 Identities=45% Similarity=0.915 Sum_probs=23.5
Q ss_pred CCCCCCeEEEEeeCCCCCCC---CCCCcccccc
Q 029412 45 TPYEGGTFRLDITLPDGYPF---EPPKMHFVTK 74 (194)
Q Consensus 45 tpy~gg~f~~~i~fp~~YP~---~pP~v~f~t~ 74 (194)
+||.=|.|-+ +.+|++||+ +-|-++|.||
T Consensus 248 GpY~WgryDl-lvlPpSFP~gGMENPcltF~Tp 279 (613)
T KOG1047|consen 248 GPYVWGRYDL-LVLPPSFPFGGMENPCLTFVTP 279 (613)
T ss_pred CCcccccceE-EEecCCCCcccccCcceeeecc
Confidence 3677777776 457999999 6899999987
No 88
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=31.27 E-value=2.2e+02 Score=21.14 Aligned_cols=47 Identities=19% Similarity=0.157 Sum_probs=32.1
Q ss_pred HHHHHHHHcCCCCCchHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHH
Q 029412 141 ARYWTESFAKTSSLGVEEKVQKLVEMGFPESQVRSTLEIVGGDENMAL 188 (194)
Q Consensus 141 a~~~~~~~a~~~~~~~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~ 188 (194)
|+.++..+.. ..-+.....++|...|++...+..++.+..-|+.+.+
T Consensus 64 a~~~~~~~~~-~~~g~~~I~~~L~~kGi~~~~I~~~l~~~~~d~~e~a 110 (157)
T PRK00117 64 AESFVRSRAR-KGYGPRRIRQELRQKGVDREIIEEALAELDIDWEELA 110 (157)
T ss_pred HHHHHHHHHh-CCchHHHHHHHHHHcCCCHHHHHHHHHHcCccHHHHH
Confidence 3444444422 2234567889999999999999999998875554444
No 89
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.98 E-value=49 Score=26.03 Aligned_cols=25 Identities=8% Similarity=0.461 Sum_probs=22.9
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhC
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVG 181 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~ 181 (194)
++.++.|...||++.++..|++++.
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 6788999999999999999999984
No 90
>PF06113 BRE: Brain and reproductive organ-expressed protein (BRE); InterPro: IPR010358 This family consists of several eukaryotic brain and reproductive organ-expressed (BRE) proteins. BRE is a putative stress-modulating gene, found able to down-regulate TNF-alpha-induced-NF-kappaB activation upon over expression. A total of six isoforms are produced by alternative splicing predominantly at either end of the gene. Compared to normal cells, immortalised human cell lines uniformly express higher levels of BRE. Peripheral blood monocytes respond to LPS by down-regulating the expression of all the BRE isoforms. It is thought that the function of BRE and its isoforms is to regulate peroxisomal activities [].
Probab=30.61 E-value=42 Score=28.97 Aligned_cols=24 Identities=29% Similarity=0.566 Sum_probs=20.8
Q ss_pred CeEEEEeeCCCCCCCCCCCccccc
Q 029412 50 GTFRLDITLPDGYPFEPPKMHFVT 73 (194)
Q Consensus 50 g~f~~~i~fp~~YP~~pP~v~f~t 73 (194)
-.|-++|.+|..||...|.++|.+
T Consensus 306 F~flvHi~Lp~~FP~~qP~ltlqS 329 (333)
T PF06113_consen 306 FTFLVHISLPIQFPKDQPSLTLQS 329 (333)
T ss_pred eEEEEEEeccCCCCCcCCeEEEEe
Confidence 357788899999999999999875
No 91
>KOG3203 consensus Mitochondrial/chloroplast ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=30.46 E-value=22 Score=27.15 Aligned_cols=15 Identities=20% Similarity=0.603 Sum_probs=11.7
Q ss_pred cceecccccCCCccccc
Q 029412 73 TKVWHPNISSQSGAICL 89 (194)
Q Consensus 73 t~i~Hpnv~~~~G~icl 89 (194)
-|+|||+.| .|.+|+
T Consensus 49 KPiYhP~~D--cGD~VV 63 (165)
T KOG3203|consen 49 KPIYHPSTD--CGDHVV 63 (165)
T ss_pred CCccCCccC--CCCEEE
Confidence 468999997 677765
No 92
>PF15187 Augurin: Oesophageal cancer-related gene 4
Probab=28.65 E-value=1.2e+02 Score=21.69 Aligned_cols=22 Identities=32% Similarity=0.545 Sum_probs=17.3
Q ss_pred hHHHHHHHHhcCCChhHHHHHH
Q 029412 156 VEEKVQKLVEMGFPESQVRSTL 177 (194)
Q Consensus 156 ~~~~~~~~~~~g~~~~~~~~al 177 (194)
..++++++.=|||++..-..-+
T Consensus 50 VQQW~qQFlYmGFDEak~E~Dl 71 (114)
T PF15187_consen 50 VQQWYQQFLYMGFDEAKFEDDL 71 (114)
T ss_pred HHHHHHHHHHhcchHHHhhhhH
Confidence 3689999999999987655443
No 93
>KOG0662 consensus Cyclin-dependent kinase CDK5 [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=28.49 E-value=57 Score=26.15 Aligned_cols=57 Identities=23% Similarity=0.464 Sum_probs=44.1
Q ss_pred CCCCCcccccceecccccC-CCcccccccccCCC--CcccCHHHHHHHHHHhhCCCCCCC
Q 029412 64 FEPPKMHFVTKVWHPNISS-QSGAICLDILKDQW--SPALTLKTALLSVQALLSAPAPDD 120 (194)
Q Consensus 64 ~~pP~v~f~t~i~Hpnv~~-~~G~icl~~l~~~W--~p~~~i~~il~~i~~ll~~p~~~~ 120 (194)
..||.|.|-.+.|...||. .-|.|--.+-..+| .|...+.+-|..|..++-.|+.+.
T Consensus 167 yrppdvlfgakly~tsidmwsagcifaelanagrplfpg~dvddqlkrif~~lg~p~ed~ 226 (292)
T KOG0662|consen 167 YRPPDVLFGAKLYSTSIDMWSAGCIFAELANAGRPLFPGNDVDDQLKRIFRLLGTPTEDQ 226 (292)
T ss_pred ccCcceeeeeehhccchHhhhcchHHHHHhhcCCCCCCCCcHHHHHHHHHHHhCCCcccc
Confidence 4799999999999888873 34655555555666 578889999999999998887665
No 94
>KOG0177 consensus 20S proteasome, regulatory subunit beta type PSMB2/PRE1 [Posttranslational modification, protein turnover, chaperones]
Probab=28.15 E-value=35 Score=27.06 Aligned_cols=29 Identities=28% Similarity=0.510 Sum_probs=23.6
Q ss_pred CcccccccccCCCCcccCHHHHHHHHHHh
Q 029412 84 SGAICLDILKDQWSPALTLKTALLSVQAL 112 (194)
Q Consensus 84 ~G~icl~~l~~~W~p~~~i~~il~~i~~l 112 (194)
.+..|++++..-|+|.+|++.-+.-++.+
T Consensus 135 ~~~f~~sIlDr~Y~pdmt~eea~~lmkKC 163 (200)
T KOG0177|consen 135 GSYFCLSILDRYYKPDMTIEEALDLMKKC 163 (200)
T ss_pred hhhhhHHHHHhhhCCCCCHHHHHHHHHHH
Confidence 57899999999999999988776555443
No 95
>cd03459 3,4-PCD Protocatechuate 3,4-dioxygenase (3,4-PCD) catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and beta-subunit and an Fe3+ ion bound in the beta-subunit at the alpha-beta-subunit interface. 3,4-PCD is a member of the aromatic dioxygenases which are non-heme iron intradiol-cleaving enzymes that break the C1-C2 bond and utilize Fe3+.
Probab=26.99 E-value=62 Score=24.73 Aligned_cols=24 Identities=29% Similarity=0.811 Sum_probs=21.2
Q ss_pred CCeEEEEeeCCCCCC-----CCCCCcccc
Q 029412 49 GGTFRLDITLPDGYP-----FEPPKMHFV 72 (194)
Q Consensus 49 gg~f~~~i~fp~~YP-----~~pP~v~f~ 72 (194)
.|.|.|.-.+|--|| ..||.|.|.
T Consensus 72 ~G~~~f~Ti~Pg~Y~~p~~~~R~~HIH~~ 100 (158)
T cd03459 72 DGRYRFRTIKPGAYPWRNGAWRAPHIHVS 100 (158)
T ss_pred CCcEEEEEECCCCcCCCCCCCcCCEEEEE
Confidence 588999999999999 789988775
No 96
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=26.49 E-value=1.9e+02 Score=18.91 Aligned_cols=58 Identities=14% Similarity=0.192 Sum_probs=29.6
Q ss_pred HHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCCCC---chHHHHHHHHhcCC
Q 029412 110 QALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTSSL---GVEEKVQKLVEMGF 168 (194)
Q Consensus 110 ~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~~~---~~~~~~~~~~~~g~ 168 (194)
-.++..-..+ .+.+.|.+.+.+=-+.|....-.-+.+|+..... ...+...-+.++|.
T Consensus 13 aqil~~~Gf~-~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi 73 (77)
T smart00576 13 AQILESAGFD-SFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGI 73 (77)
T ss_pred HHHHHHcCcc-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCc
Confidence 3344433333 3455566666666666666666666666643322 12444444455554
No 97
>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=25.89 E-value=99 Score=21.98 Aligned_cols=46 Identities=22% Similarity=0.237 Sum_probs=28.2
Q ss_pred HHHHHHHHHcCCCCCchHHHHHHHHhcCCChhHHHHHHHHhCCCHH
Q 029412 140 TARYWTESFAKTSSLGVEEKVQKLVEMGFPESQVRSTLEIVGGDEN 185 (194)
Q Consensus 140 ~a~~~~~~~a~~~~~~~~~~~~~~~~~g~~~~~~~~al~~~~~~~~ 185 (194)
.|+.|+..+......++-...++|...|.+...+..++.+..|.+.
T Consensus 29 ya~~~v~~~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~~~~~~e~ 74 (121)
T PF02631_consen 29 YAESYVRSRLRRKGKGPRRIRQKLKQKGIDREIIEEALEEYDEEEE 74 (121)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHHHHTT--HHHHHHHHTCS-HHHH
T ss_pred HHHHHHHHhcccccccHHHHHHHHHHHCCChHHHHHHHHHhhHHHH
Confidence 4455666555434445577888899999999988888885444443
No 98
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=25.69 E-value=2e+02 Score=23.42 Aligned_cols=55 Identities=13% Similarity=0.065 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHcCCCCCchHHHHHHHHhcCCChhHHHHHHHHhCCCHHHHH
Q 029412 134 HQTFLSTARYWTESFAKTSSLGVEEKVQKLVEMGFPESQVRSTLEIVGGDENMAL 188 (194)
Q Consensus 134 ~~~f~~~a~~~~~~~a~~~~~~~~~~~~~~~~~g~~~~~~~~al~~~~~~~~~~~ 188 (194)
++.++...++..++-...+....+|..+.+...|++++++...-++..=+++..+
T Consensus 78 ~d~~~~~~~re~~~i~~~p~~e~~el~~iy~~~G~~~~~a~~~~~~l~~~~~~~~ 132 (234)
T cd02433 78 RELLEASIPDERRELRKHPLEEAAELALIYRAKGLDEEEAKRVASQLMNDPEQAL 132 (234)
T ss_pred HHHHHHHHHHHHHHhhhCcHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCcchhH
Confidence 4444444443333444444444467888888899999999988777765444433
No 99
>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]
Probab=24.25 E-value=5.6e+02 Score=24.08 Aligned_cols=47 Identities=19% Similarity=0.371 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHcCCCCCchHHHHHHHHhcCCChhHHHHHHHHh
Q 029412 134 HQTFLSTARYWTESFAKTSSLGVEEKVQKLVEMGFPESQVRSTLEIV 180 (194)
Q Consensus 134 ~~~f~~~a~~~~~~~a~~~~~~~~~~~~~~~~~g~~~~~~~~al~~~ 180 (194)
-+.-.+.-++.-++++-+.+......+++++.+|+++..+.+||...
T Consensus 664 ~e~i~rie~qlkrr~~IG~~~se~~li~df~~~~y~e~~v~kal~~m 710 (729)
T KOG0481|consen 664 QEEIKRIEKQLKRRFAIGSQVSEHSLIRDFVRQGYSEHAVKKALQIM 710 (729)
T ss_pred HHHHHHHHHHHHHhcccccchhHHHHHHHHHhccccHHHHHHHHHHH
Confidence 34444444555567888877777889999999999999999998754
No 100
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.07 E-value=1.9e+02 Score=22.83 Aligned_cols=24 Identities=42% Similarity=0.656 Sum_probs=22.1
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHh
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIV 180 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~ 180 (194)
++.++.|+..||.+.++.+|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 678899999999999999999987
No 101
>PF11745 DUF3304: Protein of unknown function (DUF3304); InterPro: IPR021733 This is a family of bacterial proteins of unknown function.
Probab=22.78 E-value=32 Score=24.83 Aligned_cols=21 Identities=38% Similarity=0.740 Sum_probs=16.6
Q ss_pred CCcccccccccCCCCcccCHH
Q 029412 83 QSGAICLDILKDQWSPALTLK 103 (194)
Q Consensus 83 ~~G~icl~~l~~~W~p~~~i~ 103 (194)
.+|.+|.-.++..|+|.+++.
T Consensus 49 GGg~~CC~~~p~~W~pg~tv~ 69 (118)
T PF11745_consen 49 GGGFTCCVSLPRKWRPGLTVK 69 (118)
T ss_pred CCceEEEEEcCCCCCCCCEEE
Confidence 356678888899999998753
No 102
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=22.54 E-value=82 Score=24.94 Aligned_cols=25 Identities=12% Similarity=0.387 Sum_probs=22.4
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHhC
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIVG 181 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~~ 181 (194)
++.++-|+..||++.++.+|+....
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i~ 174 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAALP 174 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 6788999999999999999998873
No 103
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=22.31 E-value=1.8e+02 Score=26.10 Aligned_cols=13 Identities=23% Similarity=0.567 Sum_probs=11.2
Q ss_pred EEEEeeCCCCCCC
Q 029412 52 FRLDITLPDGYPF 64 (194)
Q Consensus 52 f~~~i~fp~~YP~ 64 (194)
..+.++||.+|+.
T Consensus 211 k~i~vtFP~dy~a 223 (441)
T COG0544 211 KDIKVTFPEDYHA 223 (441)
T ss_pred eEEEEEcccccch
Confidence 4488999999998
No 104
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=22.21 E-value=1.9e+02 Score=18.72 Aligned_cols=48 Identities=19% Similarity=0.256 Sum_probs=35.3
Q ss_pred HHHHhhCCCCCCCchhHHHHHHHHHCHHHHHHHHHHHHHHHcCCCCCc
Q 029412 108 SVQALLSAPAPDDPQDAVVAQQYLKDHQTFLSTARYWTESFAKTSSLG 155 (194)
Q Consensus 108 ~i~~ll~~p~~~~p~n~~a~~~~~~~~~~f~~~a~~~~~~~a~~~~~~ 155 (194)
.|+.|+..-++...+++++..++.+=.+.|...+-..+.+.|+.....
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~ 51 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSS 51 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 466777777888889999999999999999999999999888876643
No 105
>PF06152 Phage_min_cap2: Phage minor capsid protein 2; InterPro: IPR009319 This entry is represented by Bacteriophage A118, Gp4, the minor capsid protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=22.05 E-value=5e+02 Score=22.57 Aligned_cols=14 Identities=29% Similarity=0.797 Sum_probs=10.9
Q ss_pred CCCCCCCCCeEEEE
Q 029412 42 PVGTPYEGGTFRLD 55 (194)
Q Consensus 42 p~~tpy~gg~f~~~ 55 (194)
|...||+|.+|.+.
T Consensus 237 p~cap~QGkV~s~~ 250 (361)
T PF06152_consen 237 PSCAPWQGKVYSLS 250 (361)
T ss_pred CCCcCcCCEEEEec
Confidence 66789999999443
No 106
>KOG3696 consensus Aspartyl beta-hydroxylase [Posttranslational modification, protein turnover, chaperones]
Probab=20.66 E-value=1.1e+02 Score=26.28 Aligned_cols=45 Identities=22% Similarity=0.539 Sum_probs=28.3
Q ss_pred EEEeCCCCCCCCCCeE-EEEeeCC-----CCCCCCCCCcccccceecccccC
Q 029412 37 GIIPGPVGTPYEGGTF-RLDITLP-----DGYPFEPPKMHFVTKVWHPNISS 82 (194)
Q Consensus 37 ~~i~Gp~~tpy~gg~f-~~~i~fp-----~~YP~~pP~v~f~t~i~Hpnv~~ 82 (194)
..+-|.+.. |+.|.+ -++..|= +.=+...|+|.|.-.+|||||-+
T Consensus 275 l~Vg~E~q~-w~~g~~ll~ddsf~ha~~~dgs~eds~rvV~~V~lwhpevq~ 325 (334)
T KOG3696|consen 275 LVVGGEPQC-WAEGKCLLYDDSFLHALQHDGSSEDSPRVVFTVDLWHPEVQP 325 (334)
T ss_pred EEEcCcccc-ccccceeEeechhhcccccCCCcccCceEEEEEeccCccccc
Confidence 334333333 544444 4555553 34445789999999999999964
No 107
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.56 E-value=2.3e+02 Score=22.48 Aligned_cols=24 Identities=25% Similarity=0.524 Sum_probs=22.0
Q ss_pred HHHHHHHHhcCCChhHHHHHHHHh
Q 029412 157 EEKVQKLVEMGFPESQVRSTLEIV 180 (194)
Q Consensus 157 ~~~~~~~~~~g~~~~~~~~al~~~ 180 (194)
+|-++-|+..||++.+|.+|+.+.
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 677888999999999999999988
Done!